Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr10
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: 48586650
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2183483 characters in sequence are not A, C, G, or T
File 128 of 145
Found at i:42749739 original size:666 final size:666
Alignment explanation
Indices: 42748561--42749892 Score: 2664
Period size: 666 Copynumber: 2.0 Consensus size: 666
42748551 TGGTCTCGAA
42748561 CACCTTGTTGAATAGGAGTCTTGATAAGAGTCTCTTGTCGAGTAATGTCGTCGTGATGATCCTAA
1 CACCTTGTTGAATAGGAGTCTTGATAAGAGTCTCTTGTCGAGTAATGTCGTCGTGATGATCCTAA
42748626 CTCTGTTTCGCGACTTTGAGCTATTGCTCGATGATCTAGCTTTTCTTGGATTGGCTTAATTTTTC
66 CTCTGTTTCGCGACTTTGAGCTATTGCTCGATGATCTAGCTTTTCTTGGATTGGCTTAATTTTTC
42748691 GATCGAGCATGCACTCCATCTCTTTCAACAAATATTGAAATTCAAAAGCTGGAAACTCTTCTAGA
131 GATCGAGCATGCACTCCATCTCTTTCAACAAATATTGAAATTCAAAAGCTGGAAACTCTTCTAGA
42748756 GACATGATTAATTTTGATGAAAAACGAAAGTGTTGAAACAGAAACATAAAATAAACACCTCACCA
196 GACATGATTAATTTTGATGAAAAACGAAAGTGTTGAAACAGAAACATAAAATAAACACCTCACCA
42748821 CAAAATCCTCACCAATTCTCTCGAAAAGGAAATAACGATTTTATCTCACACTCGTGTTTTGCACT
261 CAAAATCCTCACCAATTCTCTCGAAAAGGAAATAACGATTTTATCTCACACTCGTGTTTTGCACT
42748886 CGTTTTAAGGCTTTTTCTTCACTCTAATGCACACACACACTCTTGCCTTTTACCACTCGACCTCG
326 CGTTTTAAGGCTTTTTCTTCACTCTAATGCACACACACACTCTTGCCTTTTACCACTCGACCTCG
42748951 TCTCACAATTTCGTAATTCGTCTCGTGTAGACTTAATTTGCAGCTTGAGGGTCGGTTTCAAATGG
391 TCTCACAATTTCGTAATTCGTCTCGTGTAGACTTAATTTGCAGCTTGAGGGTCGGTTTCAAATGG
42749016 GTTTCAAAGGAAATGATGTAGGGTGTAAGGTAGGCTAAAAATAAAACAAATTCGGTTTAAAGTGT
456 GTTTCAAAGGAAATGATGTAGGGTGTAAGGTAGGCTAAAAATAAAACAAATTCGGTTTAAAGTGT
42749081 GGCGTTGGGAGGGGTAAATAATGGTAGGAAAGGGAACTTGATGATCGAAGCAGGAATAAATGAAA
521 GGCGTTGGGAGGGGTAAATAATGGTAGGAAAGGGAACTTGATGATCGAAGCAGGAATAAATGAAA
42749146 ATAGTAACAAACTTTCAAATCTTTTTTTTTTGCTTGATTTTTTTTGACTTTTTTTTTCGAATTTC
586 ATAGTAACAAACTTTCAAATCTTTTTTTTTTGCTTGATTTTTTTTGACTTTTTTTTTCGAATTTC
42749211 TTTTTTTTTAATTTTT
651 TTTTTTTTTAATTTTT
42749227 CACCTTGTTGAATAGGAGTCTTGATAAGAGTCTCTTGTCGAGTAATGTCGTCGTGATGATCCTAA
1 CACCTTGTTGAATAGGAGTCTTGATAAGAGTCTCTTGTCGAGTAATGTCGTCGTGATGATCCTAA
42749292 CTCTGTTTCGCGACTTTGAGCTATTGCTCGATGATCTAGCTTTTCTTGGATTGGCTTAATTTTTC
66 CTCTGTTTCGCGACTTTGAGCTATTGCTCGATGATCTAGCTTTTCTTGGATTGGCTTAATTTTTC
42749357 GATCGAGCATGCACTCCATCTCTTTCAACAAATATTGAAATTCAAAAGCTGGAAACTCTTCTAGA
131 GATCGAGCATGCACTCCATCTCTTTCAACAAATATTGAAATTCAAAAGCTGGAAACTCTTCTAGA
42749422 GACATGATTAATTTTGATGAAAAACGAAAGTGTTGAAACAGAAACATAAAATAAACACCTCACCA
196 GACATGATTAATTTTGATGAAAAACGAAAGTGTTGAAACAGAAACATAAAATAAACACCTCACCA
42749487 CAAAATCCTCACCAATTCTCTCGAAAAGGAAATAACGATTTTATCTCACACTCGTGTTTTGCACT
261 CAAAATCCTCACCAATTCTCTCGAAAAGGAAATAACGATTTTATCTCACACTCGTGTTTTGCACT
42749552 CGTTTTAAGGCTTTTTCTTCACTCTAATGCACACACACACTCTTGCCTTTTACCACTCGACCTCG
326 CGTTTTAAGGCTTTTTCTTCACTCTAATGCACACACACACTCTTGCCTTTTACCACTCGACCTCG
42749617 TCTCACAATTTCGTAATTCGTCTCGTGTAGACTTAATTTGCAGCTTGAGGGTCGGTTTCAAATGG
391 TCTCACAATTTCGTAATTCGTCTCGTGTAGACTTAATTTGCAGCTTGAGGGTCGGTTTCAAATGG
42749682 GTTTCAAAGGAAATGATGTAGGGTGTAAGGTAGGCTAAAAATAAAACAAATTCGGTTTAAAGTGT
456 GTTTCAAAGGAAATGATGTAGGGTGTAAGGTAGGCTAAAAATAAAACAAATTCGGTTTAAAGTGT
42749747 GGCGTTGGGAGGGGTAAATAATGGTAGGAAAGGGAACTTGATGATCGAAGCAGGAATAAATGAAA
521 GGCGTTGGGAGGGGTAAATAATGGTAGGAAAGGGAACTTGATGATCGAAGCAGGAATAAATGAAA
42749812 ATAGTAACAAACTTTCAAATCTTTTTTTTTTGCTTGATTTTTTTTGACTTTTTTTTTCGAATTTC
586 ATAGTAACAAACTTTCAAATCTTTTTTTTTTGCTTGATTTTTTTTGACTTTTTTTTTCGAATTTC
42749877 TTTTTTTTTAATTTTT
651 TTTTTTTTTAATTTTT
42749893 TTAAACTTTG
Statistics
Matches: 666, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
666 666 1.00
ACGTcount: A:0.29, C:0.17, G:0.18, T:0.35
Consensus pattern (666 bp):
CACCTTGTTGAATAGGAGTCTTGATAAGAGTCTCTTGTCGAGTAATGTCGTCGTGATGATCCTAA
CTCTGTTTCGCGACTTTGAGCTATTGCTCGATGATCTAGCTTTTCTTGGATTGGCTTAATTTTTC
GATCGAGCATGCACTCCATCTCTTTCAACAAATATTGAAATTCAAAAGCTGGAAACTCTTCTAGA
GACATGATTAATTTTGATGAAAAACGAAAGTGTTGAAACAGAAACATAAAATAAACACCTCACCA
CAAAATCCTCACCAATTCTCTCGAAAAGGAAATAACGATTTTATCTCACACTCGTGTTTTGCACT
CGTTTTAAGGCTTTTTCTTCACTCTAATGCACACACACACTCTTGCCTTTTACCACTCGACCTCG
TCTCACAATTTCGTAATTCGTCTCGTGTAGACTTAATTTGCAGCTTGAGGGTCGGTTTCAAATGG
GTTTCAAAGGAAATGATGTAGGGTGTAAGGTAGGCTAAAAATAAAACAAATTCGGTTTAAAGTGT
GGCGTTGGGAGGGGTAAATAATGGTAGGAAAGGGAACTTGATGATCGAAGCAGGAATAAATGAAA
ATAGTAACAAACTTTCAAATCTTTTTTTTTTGCTTGATTTTTTTTGACTTTTTTTTTCGAATTTC
TTTTTTTTTAATTTTT
Found at i:42751324 original size:19 final size:20
Alignment explanation
Indices: 42751300--42751337 Score: 69
Period size: 19 Copynumber: 1.9 Consensus size: 20
42751290 TGAGCTGATT
42751300 GGAGCTGAAA-TGAGCTAAG
1 GGAGCTGAAATTGAGCTAAG
42751319 GGAGCTGAAATTGAGCTAA
1 GGAGCTGAAATTGAGCTAA
42751338 AGTCTGCTTG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 10 0.56
20 8 0.44
ACGTcount: A:0.37, C:0.11, G:0.34, T:0.18
Consensus pattern (20 bp):
GGAGCTGAAATTGAGCTAAG
Found at i:42753437 original size:23 final size:24
Alignment explanation
Indices: 42753411--42753455 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
42753401 GGTCTTTGGA
* *
42753411 AGGA-ATTGTGGAGCAAATCAATG
1 AGGAGATTGGGGAGAAAATCAATG
42753434 AGGAGATTGGGGAGAAAATCAA
1 AGGAGATTGGGGAGAAAATCAA
42753456 GGAAATTCGA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 4 0.21
24 15 0.79
ACGTcount: A:0.42, C:0.07, G:0.33, T:0.18
Consensus pattern (24 bp):
AGGAGATTGGGGAGAAAATCAATG
Found at i:42764696 original size:56 final size:50
Alignment explanation
Indices: 42764584--42764696 Score: 154
Period size: 56 Copynumber: 2.1 Consensus size: 50
42764574 NNNNNNNNNT
*
42764584 GTCTTACATGGGACCTCTCGTCTCGGTGCCAATGCCATGTCCCAGACATG
1 GTCTTACATGGGACCTCTCGTCTCGGTGCCAATGCCATGCCCCAGACATG
*
42764634 GTCTTACATTGGACCTCTCATGATCTCAAGGATGCCAATGCCATGCCCCAGACATG
1 GTCTTACATGGGACCTCTC--G-TCTC--GG-TGCCAATGCCATGCCCCAGACATG
42764690 GTCTTAC
1 GTCTTAC
42764697 GTGGTGATAG
Statistics
Matches: 55, Mismatches: 2, Indels: 6
0.87 0.03 0.10
Matches are distributed among these distances:
50 18 0.33
52 1 0.02
53 4 0.07
55 2 0.04
56 30 0.55
ACGTcount: A:0.21, C:0.31, G:0.21, T:0.27
Consensus pattern (50 bp):
GTCTTACATGGGACCTCTCGTCTCGGTGCCAATGCCATGCCCCAGACATG
Found at i:42773017 original size:50 final size:54
Alignment explanation
Indices: 42772938--42773081 Score: 179
Period size: 50 Copynumber: 2.7 Consensus size: 54
42772928 TGATAATAAC
* * * **
42772938 ATGCCAAAGCCATGTCCTAGATATGGTCTTACATGGGAGTTCTCAT-A-TC-GG
1 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATGACTCAGG
* *
42772989 -TGCCCATGCCATGTCCCAGACATGGTCTTACATTGGACCTCTCATGATCTCAAGG
1 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATGA-CTC-AGG
42773044 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA
1 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA
42773082 TCTTTTTACC
Statistics
Matches: 78, Mismatches: 9, Indels: 7
0.83 0.10 0.07
Matches are distributed among these distances:
50 38 0.49
51 1 0.01
53 2 0.03
55 2 0.03
56 35 0.45
ACGTcount: A:0.24, C:0.26, G:0.22, T:0.27
Consensus pattern (54 bp):
ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATGACTCAGG
Found at i:42777503 original size:27 final size:27
Alignment explanation
Indices: 42777449--42777774 Score: 278
Period size: 27 Copynumber: 12.3 Consensus size: 27
42777439 AGAGGTTGAT
*
42777449 AAATGATCGAAATA-CCCTAT-AGGATA
1 AAATGACCGAAATACCCCTATAAGG-TA
*
42777475 AAATGACCGAAATATCCCTATAAGGTA
1 AAATGACCGAAATACCCCTATAAGGTA
* * * * *
42777502 AAATAATCAAAATTCCCCCCAT-AGGATA
1 AAATGACCGAAA-TACCCCTATAAGG-TA
* ** *
42777530 AAATAACCGAAATACCCCCGTAGGGTA
1 AAATGACCGAAATACCCCTATAAGGTA
* * * *
42777557 AAATAACTGAAAT--TCC---AGGGTA
1 AAATGACCGAAATACCCCTATAAGGTA
* **
42777579 AAATAACCGAAATACCCCCGTAAGGTA
1 AAATGACCGAAATACCCCTATAAGGTA
*
42777606 AAATGACCGAAACACCCCTATAAGGTA
1 AAATGACCGAAATACCCCTATAAGGTA
* *
42777633 AAATAACCGAAATACCCCTATAGGGTA
1 AAATGACCGAAATACCCCTATAAGGTA
* *
42777660 GAATGACCGAAATACCCTTATAAGGTA
1 AAATGACCGAAATACCCCTATAAGGTA
42777687 AAATGACCGAAATACCCCCGTAT-A-GTA
1 AAATGACCGAAATA-CCCC-TATAAGGTA
*
42777714 AAATGACCGAAATACTCCC-ATAGGGTA
1 AAATGACCGAAATAC-CCCTATAAGGTA
* * *
42777741 AAATGACCGAAATACCCTTACAGGGTA
1 AAATGACCGAAATACCCCTATAAGGTA
42777768 AAATGAC
1 AAATGAC
42777775 TGTTATACCC
Statistics
Matches: 251, Mismatches: 33, Indels: 31
0.80 0.10 0.10
Matches are distributed among these distances:
22 18 0.07
24 2 0.01
25 4 0.02
26 16 0.06
27 181 0.72
28 27 0.11
29 3 0.01
ACGTcount: A:0.44, C:0.22, G:0.16, T:0.19
Consensus pattern (27 bp):
AAATGACCGAAATACCCCTATAAGGTA
Found at i:42777601 original size:22 final size:22
Alignment explanation
Indices: 42777528--42777601 Score: 58
Period size: 22 Copynumber: 3.1 Consensus size: 22
42777518 CCCCATAGGA
42777528 TAAAATAACCGAAATACCCCCGTAGGG
1 TAAAATAACCGAAATACCCCC-----G
* * ***
42777555 TAAAATAACTGAAATTCCAGGG
1 TAAAATAACCGAAATACCCCCG
42777577 TAAAATAACCGAAATACCCCCG
1 TAAAATAACCGAAATACCCCCG
42777599 TAA
1 TAA
42777602 GGTAAAATGA
Statistics
Matches: 37, Mismatches: 10, Indels: 5
0.71 0.19 0.10
Matches are distributed among these distances:
22 21 0.57
27 16 0.43
ACGTcount: A:0.45, C:0.23, G:0.15, T:0.18
Consensus pattern (22 bp):
TAAAATAACCGAAATACCCCCG
Found at i:42778061 original size:26 final size:26
Alignment explanation
Indices: 42778027--42778093 Score: 71
Period size: 26 Copynumber: 2.6 Consensus size: 26
42778017 TGGTAGTTTT
*
42778027 TGCTCCGATACTGGTACTGGCAGCTC
1 TGCTGCGATACTGGTACTGGCAGCTC
* ** * *
42778053 TGCTGCGATGCTATTACTGGCCGCTT
1 TGCTGCGATACTGGTACTGGCAGCTC
*
42778079 TGCTGCGATATTGGT
1 TGCTGCGATACTGGT
42778094 GTGTTGGCTG
Statistics
Matches: 31, Mismatches: 10, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
26 31 1.00
ACGTcount: A:0.13, C:0.25, G:0.28, T:0.33
Consensus pattern (26 bp):
TGCTGCGATACTGGTACTGGCAGCTC
Found at i:42778230 original size:28 final size:28
Alignment explanation
Indices: 42778190--42778339 Score: 158
Period size: 28 Copynumber: 5.2 Consensus size: 28
42778180 TATTGCACTG
42778190 CACT-ATTACTGTATTGGGCTAAGGCCCA
1 CACTGATT-CTGTATTGGGCTAAGGCCCA
*
42778218 CACTGATTCTGTATTGGGATAAGGCCCA
1 CACTGATTCTGTATTGGGCTAAGGCCCA
** * *
42778246 CACCAATTCTGCAATGGGCTAAGGCCCA
1 CACTGATTCTGTATTGGGCTAAGGCCCA
* *
42778274 CATTGATTCAGTATTGGGCTAAGGCCCA
1 CACTGATTCTGTATTGGGCTAAGGCCCA
* *
42778302 CACTGTACTATTACTATATTGGGCTGAGGCCCA
1 CACTG----ATT-CTGTATTGGGCTAAGGCCCA
42778335 CACTG
1 CACTG
42778340 TACTGTCACT
Statistics
Matches: 100, Mismatches: 16, Indels: 7
0.81 0.13 0.06
Matches are distributed among these distances:
28 72 0.72
29 3 0.03
32 3 0.03
33 22 0.22
ACGTcount: A:0.25, C:0.25, G:0.23, T:0.27
Consensus pattern (28 bp):
CACTGATTCTGTATTGGGCTAAGGCCCA
Found at i:42779894 original size:36 final size:36
Alignment explanation
Indices: 42779792--42779900 Score: 123
Period size: 40 Copynumber: 2.9 Consensus size: 36
42779782 ACAGTAAGTA
*
42779792 GAAGATCCCACAGAGATCGAGCTAGTGCAATCGGCT
1 GAAGATCCCATAGAGATCGAGCTAGTGCAATCGGCT
* *
42779828 GAAG-TCCC-TGGAAGGTGCAATCGAGCTAGTGCAATTGGCT
1 GAAGATCCCAT---A-GAG--ATCGAGCTAGTGCAATCGGCT
42779868 GAAGATCCCATAGAGATCGAGCTAGTGCAATCG
1 GAAGATCCCATAGAGATCGAGCTAGTGCAATCG
42779901 AGACTTCAAT
Statistics
Matches: 60, Mismatches: 5, Indels: 16
0.74 0.06 0.20
Matches are distributed among these distances:
35 4 0.07
36 21 0.35
37 1 0.02
38 4 0.07
39 1 0.02
40 24 0.40
41 4 0.07
42 1 0.02
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.19
Consensus pattern (36 bp):
GAAGATCCCATAGAGATCGAGCTAGTGCAATCGGCT
Found at i:42783541 original size:14 final size:15
Alignment explanation
Indices: 42783509--42783542 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
42783499 TTTATTATAT
*
42783509 TTTATTTTACTTTTG
1 TTTATTTTACTTTTC
42783524 TTTATTTTA-TTTTC
1 TTTATTTTACTTTTC
42783538 TTTAT
1 TTTAT
42783543 CAACTAAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 9 0.50
15 9 0.50
ACGTcount: A:0.15, C:0.06, G:0.03, T:0.76
Consensus pattern (15 bp):
TTTATTTTACTTTTC
Found at i:42792717 original size:6 final size:6
Alignment explanation
Indices: 42792706--42792732 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
42792696 GAGCATCTAT
42792706 GAAAAG GAAAAG GAAAAG GAAAAG GAA
1 GAAAAG GAAAAG GAAAAG GAAAAG GAA
42792733 TGGTTTCAAC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (6 bp):
GAAAAG
Found at i:42795119 original size:11 final size:12
Alignment explanation
Indices: 42795098--42795134 Score: 56
Period size: 12 Copynumber: 3.0 Consensus size: 12
42795088 TAGTAGTTTC
42795098 TTTGAAAAAAAA
1 TTTGAAAAAAAA
42795110 TTTGAAAAAAAAA
1 TTTG-AAAAAAAA
*
42795123 TTCGAAAAAAAA
1 TTTGAAAAAAAA
42795135 AATTCAAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
12 12 0.52
13 11 0.48
ACGTcount: A:0.68, C:0.03, G:0.08, T:0.22
Consensus pattern (12 bp):
TTTGAAAAAAAA
Found at i:42795120 original size:13 final size:13
Alignment explanation
Indices: 42795098--42795150 Score: 72
Period size: 13 Copynumber: 4.2 Consensus size: 13
42795088 TAGTAGTTTC
42795098 TTTG-AAAAAAAA
1 TTTGAAAAAAAAA
42795110 TTTGAAAAAAAAA
1 TTTGAAAAAAAAA
*
42795123 TTCGAAAAAAAAA
1 TTTGAAAAAAAAA
* *
42795136 ATTCAAAAAAAAA
1 TTTGAAAAAAAAA
42795149 TT
1 TT
42795151 AGTTTACATT
Statistics
Matches: 35, Mismatches: 5, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
12 4 0.11
13 31 0.89
ACGTcount: A:0.68, C:0.04, G:0.06, T:0.23
Consensus pattern (13 bp):
TTTGAAAAAAAAA
Found at i:42795143 original size:12 final size:12
Alignment explanation
Indices: 42795102--42795150 Score: 62
Period size: 12 Copynumber: 3.9 Consensus size: 12
42795092 AGTTTCTTTG
* *
42795102 AAAAAAAATTTG
1 AAAAAAAAATTC
42795114 AAAAAAAAATTC
1 AAAAAAAAATTC
42795126 GAAAAAAAAAATTC
1 --AAAAAAAAATTC
42795140 AAAAAAAAATT
1 AAAAAAAAATT
42795151 AGTTTACATT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
12 21 0.64
14 12 0.36
ACGTcount: A:0.73, C:0.04, G:0.04, T:0.18
Consensus pattern (12 bp):
AAAAAAAAATTC
Found at i:42802303 original size:21 final size:21
Alignment explanation
Indices: 42802274--42802321 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
42802264 TTAACAGCTT
* *
42802274 CTTCTTCTTCTTCAGCAAG-AA
1 CTTCCTCTTCTGCAGC-AGCAA
42802295 CTTCCTCTTCTGCAGCAGCAA
1 CTTCCTCTTCTGCAGCAGCAA
42802316 CTTCCT
1 CTTCCT
42802322 TTTAAACAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
20 2 0.08
21 22 0.92
ACGTcount: A:0.19, C:0.35, G:0.10, T:0.35
Consensus pattern (21 bp):
CTTCCTCTTCTGCAGCAGCAA
Found at i:42811522 original size:43 final size:43
Alignment explanation
Indices: 42811475--42811571 Score: 119
Period size: 44 Copynumber: 2.2 Consensus size: 43
42811465 TCCTAGATGT
*
42811475 GGTCTTACATGT-AA-TCAAATAACGATGCC-ACTGTCCCAGACAG
1 GGTCTTACACGTAAACTCAAAT--CGATGCCAAC-GTCCCAGACAG
*
42811518 GGTCTTACACGTAAATCTCAAATCGATGCCAACGTCCCAGACAT
1 GGTCTTACACGTAAA-CTCAAATCGATGCCAACGTCCCAGACAG
42811562 GGTCTTACAC
1 GGTCTTACAC
42811572 AATATCACAT
Statistics
Matches: 48, Mismatches: 2, Indels: 7
0.84 0.04 0.12
Matches are distributed among these distances:
43 11 0.23
44 29 0.60
45 2 0.04
46 6 0.12
ACGTcount: A:0.31, C:0.28, G:0.18, T:0.24
Consensus pattern (43 bp):
GGTCTTACACGTAAACTCAAATCGATGCCAACGTCCCAGACAG
Found at i:42816433 original size:10 final size:10
Alignment explanation
Indices: 42816417--42816446 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
42816407 AACTATCATA
42816417 AAATGTGATT
1 AAATGTGATT
*
42816427 GAATGTGATT
1 AAATGTGATT
42816437 AAATGTGATT
1 AAATGTGATT
42816447 TATATTTGTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.37, C:0.00, G:0.23, T:0.40
Consensus pattern (10 bp):
AAATGTGATT
Found at i:42830722 original size:20 final size:20
Alignment explanation
Indices: 42830697--42830736 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
42830687 CGGAAAATGA
*
42830697 TTTCTGGAAAATGTTTTACT
1 TTTCTGGAAAATGATTTACT
*
42830717 TTTCTGTAAAATGATTTACT
1 TTTCTGGAAAATGATTTACT
42830737 GGAAAATATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.28, C:0.10, G:0.12, T:0.50
Consensus pattern (20 bp):
TTTCTGGAAAATGATTTACT
Found at i:42830752 original size:14 final size:15
Alignment explanation
Indices: 42830676--42830752 Score: 61
Period size: 14 Copynumber: 5.0 Consensus size: 15
42830666 GATTGGCAGT
*
42830676 AAAATG-TTTTCCGG
1 AAAATGATTTTCTGG
42830690 AAAATGA-TTTCTGG
1 AAAATGATTTTCTGG
*
42830704 AAAATGTTTTACTTTTCTGT
1 AAAATG----A-TTTTCTGG
*
42830724 AAAATGATTTACTGG
1 AAAATGATTTTCTGG
42830739 AAAAT-ATTTTCTGG
1 AAAATGATTTTCTGG
42830753 TGTTTGATTG
Statistics
Matches: 51, Mismatches: 5, Indels: 14
0.73 0.07 0.20
Matches are distributed among these distances:
14 26 0.51
15 11 0.22
16 1 0.02
18 1 0.02
20 12 0.24
ACGTcount: A:0.32, C:0.09, G:0.17, T:0.42
Consensus pattern (15 bp):
AAAATGATTTTCTGG
Found at i:42831874 original size:35 final size:36
Alignment explanation
Indices: 42831827--42831903 Score: 129
Period size: 35 Copynumber: 2.2 Consensus size: 36
42831817 ATTGTCATTG
*
42831827 TCAATAATTTCAATATCCAACAAGCTTAAAACATAA
1 TCAATAAATTCAATATCCAACAAGCTTAAAACATAA
*
42831863 T-AATAAATTCAATATCCAACAAGGTTAAAACATAA
1 TCAATAAATTCAATATCCAACAAGCTTAAAACATAA
42831898 TCAATA
1 TCAATA
42831904 TCTAACAAAT
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
35 33 0.87
36 5 0.13
ACGTcount: A:0.52, C:0.17, G:0.04, T:0.27
Consensus pattern (36 bp):
TCAATAAATTCAATATCCAACAAGCTTAAAACATAA
Found at i:42831901 original size:27 final size:28
Alignment explanation
Indices: 42831871--42831939 Score: 79
Period size: 27 Copynumber: 2.5 Consensus size: 28
42831861 AATAATAAAT
*
42831871 TCAATATCCAACAAGGTT-AAAACATA-A
1 TCAATATCCAACAA-ATTCAAAACATATA
* *
42831898 TCAATATCTAACAAATTCAAGACATATA
1 TCAATATCCAACAAATTCAAAACATATA
*
42831926 TCAAAATCCAACAA
1 TCAATATCCAACAA
42831940 TCTAAAATTT
Statistics
Matches: 35, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
26 2 0.06
27 20 0.57
28 13 0.37
ACGTcount: A:0.52, C:0.20, G:0.04, T:0.23
Consensus pattern (28 bp):
TCAATATCCAACAAATTCAAAACATATA
Found at i:42832731 original size:23 final size:23
Alignment explanation
Indices: 42832701--42832746 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
42832691 ATACATTTTG
*
42832701 TGTCGTCCCCCCTTTACGGCTAC
1 TGTCGTCCCACCTTTACGGCTAC
42832724 TGTCGTCCCACCTTTACGGCTAC
1 TGTCGTCCCACCTTTACGGCTAC
42832747 GAAATCTTCC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.11, C:0.41, G:0.17, T:0.30
Consensus pattern (23 bp):
TGTCGTCCCACCTTTACGGCTAC
Found at i:42833790 original size:19 final size:18
Alignment explanation
Indices: 42833763--42833807 Score: 63
Period size: 19 Copynumber: 2.4 Consensus size: 18
42833753 TATTATAAGG
* *
42833763 ATTTGATTAAATTAATTA
1 ATTTTATTAAATAAATTA
42833781 ATTATTATTAAATAAATTA
1 ATT-TTATTAAATAAATTA
42833800 ATTTTATT
1 ATTTTATT
42833808 TATATATTAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
18 8 0.33
19 16 0.67
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.53
Consensus pattern (18 bp):
ATTTTATTAAATAAATTA
Found at i:42837393 original size:54 final size:54
Alignment explanation
Indices: 42837309--42837418 Score: 152
Period size: 54 Copynumber: 2.0 Consensus size: 54
42837299 TTTCCAATGT
* *
42837309 TATAATAAACATGAATTTTGATTAACTATACTAAT-AAAATTCCTC-CTAGAAAGA
1 TATAATAAACACGAATTTTAATTAACTATACTAATCAAAA-TCCTCTC-AGAAAGA
* *
42837363 TATAATAAACACGAATTTTAATTAATTATACTAATCGAAATCCTCTCAGAAAGA
1 TATAATAAACACGAATTTTAATTAACTATACTAATCAAAATCCTCTCAGAAAGA
42837417 TA
1 TA
42837419 CCTTACCAGA
Statistics
Matches: 50, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
54 46 0.92
55 4 0.08
ACGTcount: A:0.46, C:0.14, G:0.07, T:0.33
Consensus pattern (54 bp):
TATAATAAACACGAATTTTAATTAACTATACTAATCAAAATCCTCTCAGAAAGA
Found at i:42840971 original size:27 final size:27
Alignment explanation
Indices: 42840940--42841037 Score: 142
Period size: 27 Copynumber: 3.6 Consensus size: 27
42840930 TGACAGATAC
42840940 TTTTGGTGAACTATGTTTGCAGATGTG
1 TTTTGGTGAACTATGTTTGCAGATGTG
* *
42840967 TTTTGGTGAACTAAGTTTGCAGGTGTG
1 TTTTGGTGAACTATGTTTGCAGATGTG
**
42840994 ACTTGGTGAACTATGTTTGCAGATGTG
1 TTTTGGTGAACTATGTTTGCAGATGTG
* *
42841021 TTTTGGAGAACTGTGTT
1 TTTTGGTGAACTATGTT
42841038 CACAAATAAG
Statistics
Matches: 61, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 61 1.00
ACGTcount: A:0.19, C:0.08, G:0.31, T:0.42
Consensus pattern (27 bp):
TTTTGGTGAACTATGTTTGCAGATGTG
Found at i:42862485 original size:16 final size:17
Alignment explanation
Indices: 42862458--42862493 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 17
42862448 AGAGTGTTGA
42862458 GAGAGAGGATGAGAGAT
1 GAGAGAGGATGAGAGAT
*
42862475 GAGAG-GGATGAGGGAT
1 GAGAGAGGATGAGAGAT
42862491 GAG
1 GAG
42862494 GGATGATTGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 13 0.72
17 5 0.28
ACGTcount: A:0.36, C:0.00, G:0.53, T:0.11
Consensus pattern (17 bp):
GAGAGAGGATGAGAGAT
Found at i:42872814 original size:23 final size:23
Alignment explanation
Indices: 42872784--42872828 Score: 90
Period size: 23 Copynumber: 2.0 Consensus size: 23
42872774 TTAGTACATT
42872784 TATACATGGTTTAAATGAGTTCA
1 TATACATGGTTTAAATGAGTTCA
42872807 TATACATGGTTTAAATGAGTTC
1 TATACATGGTTTAAATGAGTTC
42872829 GTCCATAACA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.33, C:0.09, G:0.18, T:0.40
Consensus pattern (23 bp):
TATACATGGTTTAAATGAGTTCA
Found at i:42881255 original size:15 final size:16
Alignment explanation
Indices: 42881235--42881264 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
42881225 TGGTGCCTTA
42881235 TTGAT-ATGTGTTAAT
1 TTGATAATGTGTTAAT
42881250 TTGATAATGTGTTAA
1 TTGATAATGTGTTAA
42881265 AGCATGTTTG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.30, C:0.00, G:0.20, T:0.50
Consensus pattern (16 bp):
TTGATAATGTGTTAAT
Found at i:42889138 original size:15 final size:16
Alignment explanation
Indices: 42889120--42889160 Score: 50
Period size: 15 Copynumber: 2.6 Consensus size: 16
42889110 AAGAGGAAAT
42889120 TTTAAAATAAATCA-A
1 TTTAAAATAAATCACA
*
42889135 TTTAAGGAT-AATCACA
1 TTTAA-AATAAATCACA
42889151 TTTAAAATAA
1 TTTAAAATAA
42889161 CATATATAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 5
0.75 0.07 0.18
Matches are distributed among these distances:
15 12 0.57
16 9 0.43
ACGTcount: A:0.54, C:0.07, G:0.05, T:0.34
Consensus pattern (16 bp):
TTTAAAATAAATCACA
Found at i:42890759 original size:50 final size:50
Alignment explanation
Indices: 42890705--42890861 Score: 181
Period size: 50 Copynumber: 3.1 Consensus size: 50
42890695 CCTGAGAGGT
*
42890705 AAGATTCGCTGTTGTAGCTTTAATATTTTGAACTGCAATGTCGGGGAAGC
1 AAGATTCGCTGTTGTAGCTTTAATCTTTTGAACTGCAATGTCGGGGAAGC
* * * * * ** ** * * *
42890755 AAGATTCACCGATGTGGCTTTAATCTATTCTACTGC-ATCACTTGGGAGGT
1 AAGATTCGCTGTTGTAGCTTTAATCTTTTGAACTGCAATGTC-GGGGAAGC
42890805 AAGATTCGCTGTTGTAGCTTTAATCTTTTGAACTGCAATGTCGGGGAAGC
1 AAGATTCGCTGTTGTAGCTTTAATCTTTTGAACTGCAATGTCGGGGAAGC
42890855 AAGATTC
1 AAGATTC
42890862 ACCGATGTGG
Statistics
Matches: 80, Mismatches: 25, Indels: 4
0.73 0.23 0.04
Matches are distributed among these distances:
49 3 0.04
50 74 0.93
51 3 0.04
ACGTcount: A:0.25, C:0.17, G:0.24, T:0.34
Consensus pattern (50 bp):
AAGATTCGCTGTTGTAGCTTTAATCTTTTGAACTGCAATGTCGGGGAAGC
Found at i:42890828 original size:100 final size:100
Alignment explanation
Indices: 42890655--42890909 Score: 411
Period size: 100 Copynumber: 2.5 Consensus size: 100
42890645 TTTGGAAAGT
* * * ** *
42890655 AAGATTCGCCGTTGTGGCTTTAATATGTTCTGTTGCATCACCTGAGAGGTAAGATTCGCTGTTGT
1 AAGATTCACCGATGTGGCTTTAATCTGTTCTACTGCATCACCTGGGAGGTAAGATTCGCTGTTGT
42890720 AGCTTTAATATTTTGAACTGCAATGTCGGGGAAGC
66 AGCTTTAATATTTTGAACTGCAATGTCGGGGAAGC
* *
42890755 AAGATTCACCGATGTGGCTTTAATCTATTCTACTGCATCACTTGGGAGGTAAGATTCGCTGTTGT
1 AAGATTCACCGATGTGGCTTTAATCTGTTCTACTGCATCACCTGGGAGGTAAGATTCGCTGTTGT
*
42890820 AGCTTTAATCTTTTGAACTGCAATGTCGGGGAAGC
66 AGCTTTAATATTTTGAACTGCAATGTCGGGGAAGC
* *
42890855 AAGATTCACCGATGTGGTTTTAATCTGTTCCACTGCATCACCTGGGAGGTAAGAT
1 AAGATTCACCGATGTGGCTTTAATCTGTTCTACTGCATCACCTGGGAGGTAAGAT
42890910 CTGTAATTCT
Statistics
Matches: 142, Mismatches: 13, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
100 142 1.00
ACGTcount: A:0.24, C:0.18, G:0.25, T:0.34
Consensus pattern (100 bp):
AAGATTCACCGATGTGGCTTTAATCTGTTCTACTGCATCACCTGGGAGGTAAGATTCGCTGTTGT
AGCTTTAATATTTTGAACTGCAATGTCGGGGAAGC
Found at i:42890877 original size:50 final size:50
Alignment explanation
Indices: 42890721--42890880 Score: 178
Period size: 50 Copynumber: 3.2 Consensus size: 50
42890711 CGCTGTTGTA
*
42890721 GCTTTAATATTTTGAACTGCAATGTCGGGGAAGCAAGATTCACCGATGTG
1 GCTTTAATCTTTTGAACTGCAATGTCGGGGAAGCAAGATTCACCGATGTG
* ** ** * * * * * * *
42890771 GCTTTAATCTATTCTACTGC-ATCACTTGGGAGGTAAGATTCGCTGTTGTA
1 GCTTTAATCTTTTGAACTGCAATGTC-GGGGAAGCAAGATTCACCGATGTG
42890821 GCTTTAATCTTTTGAACTGCAATGTCGGGGAAGCAAGATTCACCGATGTG
1 GCTTTAATCTTTTGAACTGCAATGTCGGGGAAGCAAGATTCACCGATGTG
*
42890871 GTTTTAATCT
1 GCTTTAATCT
42890881 GTTCCACTGC
Statistics
Matches: 82, Mismatches: 26, Indels: 4
0.73 0.23 0.04
Matches are distributed among these distances:
49 3 0.04
50 76 0.93
51 3 0.04
ACGTcount: A:0.25, C:0.17, G:0.24, T:0.34
Consensus pattern (50 bp):
GCTTTAATCTTTTGAACTGCAATGTCGGGGAAGCAAGATTCACCGATGTG
Found at i:42890909 original size:50 final size:50
Alignment explanation
Indices: 42890653--42890909 Score: 158
Period size: 50 Copynumber: 5.1 Consensus size: 50
42890643 CTTTTGGAAA
* * * * *** *
42890653 GTAAGATTCGCCGTTGTGGCTTTAATATGTTCTGTTGCATCACCTGAGAG
1 GTAAGATTCACCGATGTGGCTTTAATCTATTCAACTGCATCACCTGGGAG
* * * * * * * ** * *
42890703 GTAAGATTCGCTGTTGTAGCTTTAATATTTTGAACTGCAAT-GTCGGGGAA
1 GTAAGATTCACCGATGTGGCTTTAATCTATTCAACTGC-ATCACCTGGGAG
* * *
42890753 GCAAGATTCACCGATGTGGCTTTAATCTATTCTACTGCATCACTTGGGAG
1 GTAAGATTCACCGATGTGGCTTTAATCTATTCAACTGCATCACCTGGGAG
* * * * * * ** * *
42890803 GTAAGATTCGCTGTTGTAGCTTTAATCTTTTGAACTGCAAT-GTCGGGGAA
1 GTAAGATTCACCGATGTGGCTTTAATCTATTCAACTGC-ATCACCTGGGAG
* * * *
42890853 GCAAGATTCACCGATGTGGTTTTAATCTGTTCCACTGCATCACCTGGGAG
1 GTAAGATTCACCGATGTGGCTTTAATCTATTCAACTGCATCACCTGGGAG
42890903 GTAAGAT
1 GTAAGAT
42890910 CTGTAATTCT
Statistics
Matches: 150, Mismatches: 53, Indels: 8
0.71 0.25 0.04
Matches are distributed among these distances:
49 4 0.03
50 142 0.95
51 4 0.03
ACGTcount: A:0.24, C:0.18, G:0.25, T:0.34
Consensus pattern (50 bp):
GTAAGATTCACCGATGTGGCTTTAATCTATTCAACTGCATCACCTGGGAG
Found at i:42891035 original size:44 final size:44
Alignment explanation
Indices: 42890974--42891213 Score: 165
Period size: 44 Copynumber: 5.5 Consensus size: 44
42890964 ATCTACTGTA
* *
42890974 CTGTAA-CTTCAGAGAGATAAGATCCTTTACTTTAATCCGCTCCG
1 CTGTAATC-TCAGGGAGATAAGATCCTTTACTTCAATCCGCTCCG
* * * **
42891018 CTGTAATATCAGGGAGATAGGAT--TACTAGCTTCAATCTACTCCG
1 CTGTAATCTCAGGGAGATAAGATCCT-TTA-CTTCAATCCGCTCCG
* * * ** **
42891062 CTGTAATCTCAGGGAGATAAGA-CC-TGA-TGCGATCTACTCTA
1 CTGTAATCTCAGGGAGATAAGATCCTTTACTTCAATCCGCTCCG
* * * * *
42891103 CTGTAA-CTTAAGAGAGATAAGATCCTTTATTTTAATCCGCTCCA
1 CTGTAATC-TCAGGGAGATAAGATCCTTTACTTCAATCCGCTCCG
* *
42891147 CTGTAATCTCAGGGAGATAGGAT--TATCAGCTTCAATCCGCTCCG
1 CTGTAATCTCAGGGAGATAAGATCCT-TTA-CTTCAATCCGCTCCG
*
42891191 CTTTAATCTCAGGGAGATAAGAT
1 CTGTAATCTCAGGGAGATAAGAT
42891214 TTGTCACCTT
Statistics
Matches: 151, Mismatches: 33, Indels: 24
0.73 0.16 0.12
Matches are distributed among these distances:
40 1 0.01
41 28 0.19
42 4 0.03
43 7 0.05
44 110 0.73
45 1 0.01
ACGTcount: A:0.29, C:0.22, G:0.19, T:0.30
Consensus pattern (44 bp):
CTGTAATCTCAGGGAGATAAGATCCTTTACTTCAATCCGCTCCG
Found at i:42891105 original size:129 final size:129
Alignment explanation
Indices: 42890938--42891212 Score: 444
Period size: 129 Copynumber: 2.1 Consensus size: 129
42890928 TTCCACCGTG
* * * *
42890938 ATCTCAGGAAGATAAGACCTGATGTGATCTACTGTACTGTAACTTCAGAGAGATAAGATCCTTTA
1 ATCTCAGGGAGATAAGACCTGATGCGATCTACTCTACTGTAACTTAAGAGAGATAAGATCCTTTA
* *
42891003 CTTTAATCCGCTCCGCTGTAATATCAGGGAGATAGGATTA-CTAGCTTCAATCTACTCCGCTGTA
66 CTTTAATCCGCTCCACTGTAATATCAGGGAGATAGGATTATC-AGCTTCAATCCACTCCGCTGTA
42891067 ATCTCAGGGAGATAAGACCTGATGCGATCTACTCTACTGTAACTTAAGAGAGATAAGATCCTTTA
1 ATCTCAGGGAGATAAGACCTGATGCGATCTACTCTACTGTAACTTAAGAGAGATAAGATCCTTTA
* * * *
42891132 TTTTAATCCGCTCCACTGTAATCTCAGGGAGATAGGATTATCAGCTTCAATCCGCTCCGCTTTA
66 CTTTAATCCGCTCCACTGTAATATCAGGGAGATAGGATTATCAGCTTCAATCCACTCCGCTGTA
42891196 ATCTCAGGGAGATAAGA
1 ATCTCAGGGAGATAAGA
42891213 TTTGTCACCT
Statistics
Matches: 135, Mismatches: 10, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
129 134 0.99
130 1 0.01
ACGTcount: A:0.30, C:0.21, G:0.20, T:0.29
Consensus pattern (129 bp):
ATCTCAGGGAGATAAGACCTGATGCGATCTACTCTACTGTAACTTAAGAGAGATAAGATCCTTTA
CTTTAATCCGCTCCACTGTAATATCAGGGAGATAGGATTATCAGCTTCAATCCACTCCGCTGTA
Found at i:42891474 original size:131 final size:130
Alignment explanation
Indices: 42891201--42891436 Score: 337
Period size: 131 Copynumber: 1.8 Consensus size: 130
42891191 CTTTAATCTC
* * * *
42891201 AGGGAGATAAGATTTGTCACCTTCGATCTGCTCCACTACTGCTTAGGGAGACAAGATCTGCAATT
1 AGGGAGATAAGATTCGCCACCTTCGATCCGCTCCACTACTGCTCAGGGAGACAAGATCTGCAATT
* * * *
42891266 TCCAACCTATTCCACTGCTGGTCGGGGACATAGGACTTATGGCTTAAATTTGTTTCCCTACTCCT
66 TCCAACCTATTCCACTGCTGGTCAGGGACATAGGACTGATGGCTTAAATCTGTCTCCCTACTCCT
* ** * * *
42891331 GGGGAAGATAAGATTCGCCGTCTTTGATCCGCTCCGCTACTGCTCAGGGAGATAAGATCTGCAAT
1 AGGG-AGATAAGATTCGCCACCTTCGATCCGCTCCACTACTGCTCAGGGAGACAAGATCTGCAAT
42891396 TTCCAACCTATTCCACTGCTGGTCAGGGACATAGGACTGAT
65 TTCCAACCTATTCCACTGCTGGTCAGGGACATAGGACTGAT
42891437 TTCTTCTGTC
Statistics
Matches: 93, Mismatches: 12, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
130 3 0.03
131 90 0.97
ACGTcount: A:0.24, C:0.25, G:0.23, T:0.28
Consensus pattern (130 bp):
AGGGAGATAAGATTCGCCACCTTCGATCCGCTCCACTACTGCTCAGGGAGACAAGATCTGCAATT
TCCAACCTATTCCACTGCTGGTCAGGGACATAGGACTGATGGCTTAAATCTGTCTCCCTACTCCT
Found at i:42891744 original size:86 final size:87
Alignment explanation
Indices: 42891500--42891834 Score: 447
Period size: 87 Copynumber: 3.9 Consensus size: 87
42891490 TCCACTGTCG
* * * *
42891500 ACGCAGGAGGGCAATATCTGCTATCTTTAACCAGCTCCACTACAAACGATGGAGGCAAGGCTTCA
1 ACGCAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTACAAACGATGGAGGCAAGACTTCG
42891565 TTTTCGATCTGCTTCGCTGTTA
66 TTTTCGATCTGCTTCGCTGTTA
* * * *
42891587 ACGCAGGAAGGCAAGATCTACTATCTTTAATCAACTCCACTACAACCGATGGAGGCAAGACTTCG
1 ACGCAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTACAAACGATGGAGGCAAGACTTCG
42891652 TTTTCGATCTGCTTCGCTGTTA
66 TTTTCGATCTGCTTCGCTGTTA
* * * ** *
42891674 ACGCAGGACGGTAAGATCTGCT-TCTTTAACCAGCTCCAATGTAAACGATGGAGGCAAGACTTTG
1 ACGCAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTACAAACGATGGAGGCAAGACTTCG
42891738 TTTTCGATCTGCTTCGCTGTTA
66 TTTTCGATCTGCTTCGCTGTTA
** * * * * * * *
42891760 ATACAGGAAGGAAAAATCTGTTATCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGCTTTG
1 ACGCAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTACAAACGATGGAGGCAAGACTTCG
*
42891825 TTTTTGATCT
66 TTTTCGATCT
42891835 TCACTGATCT
Statistics
Matches: 218, Mismatches: 29, Indels: 2
0.88 0.12 0.01
Matches are distributed among these distances:
86 73 0.33
87 145 0.67
ACGTcount: A:0.27, C:0.23, G:0.21, T:0.29
Consensus pattern (87 bp):
ACGCAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTACAAACGATGGAGGCAAGACTTCG
TTTTCGATCTGCTTCGCTGTTA
Found at i:42891787 original size:173 final size:174
Alignment explanation
Indices: 42891500--42891834 Score: 474
Period size: 173 Copynumber: 1.9 Consensus size: 174
42891490 TCCACTGTCG
* * * *
42891500 ACGCAGGAGGGCAATATCTGCTATCTTTAACCAGCTCCACTACAAACGATGGAGGCAAGGCTTCA
1 ACGCAGGACGGCAAGATCTGCTATCTTTAACCAGCTCCAATACAAACGATGGAGGCAAGACTTCA
* * * *
42891565 TTTTCGATCTGCTTCGCTGTTAACGCAGGAAGGCAAGATCTACTATCTTTAATCAACTCCACTAC
66 TTTTCGATCTGCTTCGCTGTTAACACAGGAAGGAAAAATCTACTATCTTTAACCAACTCCACTAC
42891630 AACCGATGGAGGCAAGACTTCGTTTTCGATCTGCTTCGCTGTTA
131 AACCGATGGAGGCAAGACTTCGTTTTCGATCTGCTTCGCTGTTA
* ** **
42891674 ACGCAGGACGGTAAGATCTGCT-TCTTTAACCAGCTCCAATGTAAACGATGGAGGCAAGACTTTG
1 ACGCAGGACGGCAAGATCTGCTATCTTTAACCAGCTCCAATACAAACGATGGAGGCAAGACTTCA
* ** * *
42891738 TTTTCGATCTGCTTCGCTGTTAATACAGGAAGGAAAAATCTGTTATCTTTAACCAGCTCCACTGC
66 TTTTCGATCTGCTTCGCTGTTAACACAGGAAGGAAAAATCTACTATCTTTAACCAACTCCACTAC
* * *
42891803 AACCGATGGAGGCAAGGCTTTGTTTTTGATCT
131 AACCGATGGAGGCAAGACTTCGTTTTCGATCT
42891835 TCACTGATCT
Statistics
Matches: 140, Mismatches: 21, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
173 121 0.86
174 19 0.14
ACGTcount: A:0.27, C:0.23, G:0.21, T:0.29
Consensus pattern (174 bp):
ACGCAGGACGGCAAGATCTGCTATCTTTAACCAGCTCCAATACAAACGATGGAGGCAAGACTTCA
TTTTCGATCTGCTTCGCTGTTAACACAGGAAGGAAAAATCTACTATCTTTAACCAACTCCACTAC
AACCGATGGAGGCAAGACTTCGTTTTCGATCTGCTTCGCTGTTA
Found at i:42893978 original size:19 final size:21
Alignment explanation
Indices: 42893936--42893984 Score: 59
Period size: 20 Copynumber: 2.5 Consensus size: 21
42893926 TTCATTCTGA
42893936 TTTTTTCA-TCTTGATTTCTC
1 TTTTTTCATTCTTGATTTCTC
*
42893956 TTTTTTCATTCTT-CTTTCT-
1 TTTTTTCATTCTTGATTTCTC
*
42893975 TTTTCTCATT
1 TTTTTTCATT
42893985 TTCATTTTGA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
19 9 0.35
20 13 0.50
21 4 0.15
ACGTcount: A:0.08, C:0.20, G:0.02, T:0.69
Consensus pattern (21 bp):
TTTTTTCATTCTTGATTTCTC
Found at i:42894035 original size:19 final size:18
Alignment explanation
Indices: 42894001--42894040 Score: 53
Period size: 19 Copynumber: 2.2 Consensus size: 18
42893991 TTGATCTTGG
**
42894001 TTTTGATTTTTTTTTTCTT
1 TTTTGATTTTGATTTT-TT
42894020 TTTTGATTTTGATTTTTT
1 TTTTGATTTTGATTTTTT
42894038 TTT
1 TTT
42894041 GAATCTGAAC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 5 0.26
19 14 0.74
ACGTcount: A:0.07, C:0.03, G:0.07, T:0.82
Consensus pattern (18 bp):
TTTTGATTTTGATTTTTT
Found at i:42898505 original size:15 final size:16
Alignment explanation
Indices: 42898487--42898527 Score: 50
Period size: 15 Copynumber: 2.6 Consensus size: 16
42898477 AAGAGGAAAT
42898487 TTTAAAATAAATCA-A
1 TTTAAAATAAATCACA
*
42898502 TTTAAGGAT-AATCACA
1 TTTAA-AATAAATCACA
42898518 TTTAAAATAA
1 TTTAAAATAA
42898528 CATATATAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 5
0.75 0.07 0.18
Matches are distributed among these distances:
15 12 0.57
16 9 0.43
ACGTcount: A:0.54, C:0.07, G:0.05, T:0.34
Consensus pattern (16 bp):
TTTAAAATAAATCACA
Found at i:42903397 original size:468 final size:469
Alignment explanation
Indices: 42902521--42903462 Score: 1298
Period size: 468 Copynumber: 2.0 Consensus size: 469
42902511 TAACATTTTT
* * * * **
42902521 TTGTGTCAATTGGATCTGGTGCCCTAATTGTAGTATATTCATTTGTATACTTATAATTTTTTTTA
1 TTGTGTCAATTGGATCTGGTACCCTAATTATAGTATATTCATTCGTATACTTATAATTTTCTCGA
* * *
42902586 ACAGATTGGTTAATAAAATTATTTATAAATTTCATTAGTATTCTTTGTATAATGTCATCATGTGG
66 ACAAATTGGTTAATAAAATTATTCATAAATTTCATTAATATTCTTTGTATAATGTCATCATGTGG
* *
42902651 ACTTTGCATGTAAAGCAAAATAGAAACAAATATTAGCTCACTGGTTGTCTAATGTTTAACTAATA
131 ACTTTGCATGTAAAACAAAATAGAAACAAATATTAGCTCACTAGTTGTCTAATGTTTAACTAATA
* * ** * *
42902716 TTAAGCAATATTACGTAGTCAAATTGTTATATGGAAAGACAACTTATACTAGTAGATGAACCTAA
196 CTAAGCAATATTACATAGTCAAATCATAATATGGAAAGACAACTTATACTAGTAGACGAACCTAA
42902781 ACATGTCATTAGTCTAATCAGAAATGAGCAAACCAATTGAAAGACTAATATACCATCTATCAAGT
261 ACATGTCATTAGTCTAATCAGAAATGAGCAAACCAATTGAAAGACTAATATACCATCTATCAAGT
* * * * * *
42902846 CTAATTAGGGAGATGTTTTATCTTGGGCATCAGAGCAGATGACTTCGACAAGACAGAGACATAGA
326 CCAATTAGGGAGATGCTTCATCTTAGGCATCAGAACAGATGACTCCGACAAGACAGAGACATAGA
* * *
42902911 TGTGACTAACTGGACTAACAGTAAAT-TGAACTGGACCCAAGAAGAATACATCCTGAATCAGTTT
391 TGTGACTAACTAGACTAACAATAAATCAG-ACTGGACCCAAGAAGAATACATCCTGAATCAGTTT
42902975 AT-GGGTTTATTCAC
455 ATGGGGTTTATTCAC
* * ** * *
42902989 TTGTGTCTATTGGATTTGGTATGCTAATTATAGTATATTCGTTCGTATACTTGTAATTTTCTCGA
1 TTGTGTCAATTGGATCTGGTACCCTAATTATAGTATATTCATTCGTATACTTATAATTTTCTCGA
* * * *
42903054 ACAAATTGGTTAATAAAATTATTCATGAATTTCATTAATATTCTTTGTATACTGTCCTCTTGTGG
66 ACAAATTGGTTAATAAAATTATTCATAAATTTCATTAATATTCTTTGTATAATGTCATCATGTGG
* *
42903119 ATTTTGCATGTAAAACAAAATA-AAAGCAAATATTAGCTCACTAGTTGTCTAATGTTTAGCTAAT
131 ACTTTGCATGTAAAACAAAATAGAAA-CAAATATTAGCTCACTAGTTGTCTAATGTTTAACTAAT
* * *** *
42903183 ACTAAGCGATATTACATGGTTGGATCATAATATGGAAAGACAACTTATACTAGTAGGCGAACCTA
195 ACTAAGCAATATTACATAGTCAAATCATAATATGGAAAGACAACTTATACTAGTAGACGAACCTA
* * * * *
42903248 AACATGTCCTTTGTCTAATC-GAAAATGAGCAAACCGATTGAAAGACTAATATACCCTCTATCAT
260 AACATGTCATTAGTCTAATCAG-AAATGAGCAAACCAATTGAAAGACTAATATACCATCTATCAA
* * *
42903312 GTCCAATTAGGGAGATGCTTCGTCTTAGGCATCAGAACAGATGACTCCGAGAAGATAGAGACATA
324 GTCCAATTAGGGAGATGCTTCATCTTAGGCATCAGAACAGATGACTCCGACAAGACAGAGACATA
* * * * * * *
42903377 GATGTGATTGACTAGACTAACAATATATCAGATTGGACCCATGTAGAATAGATCCTGAATCAGTT
389 GATGTGACTAACTAGACTAACAATAAATCAGACTGGACCCAAGAAGAATACATCCTGAATCAGTT
42903442 TATGGGGTTTATTCAC
454 TATGGGGTTTATTCAC
42903458 TTGTG
1 TTGTG
42903463 ACATTAATAG
Statistics
Matches: 411, Mismatches: 59, Indels: 7
0.86 0.12 0.01
Matches are distributed among these distances:
467 4 0.01
468 389 0.95
469 18 0.04
ACGTcount: A:0.34, C:0.14, G:0.17, T:0.34
Consensus pattern (469 bp):
TTGTGTCAATTGGATCTGGTACCCTAATTATAGTATATTCATTCGTATACTTATAATTTTCTCGA
ACAAATTGGTTAATAAAATTATTCATAAATTTCATTAATATTCTTTGTATAATGTCATCATGTGG
ACTTTGCATGTAAAACAAAATAGAAACAAATATTAGCTCACTAGTTGTCTAATGTTTAACTAATA
CTAAGCAATATTACATAGTCAAATCATAATATGGAAAGACAACTTATACTAGTAGACGAACCTAA
ACATGTCATTAGTCTAATCAGAAATGAGCAAACCAATTGAAAGACTAATATACCATCTATCAAGT
CCAATTAGGGAGATGCTTCATCTTAGGCATCAGAACAGATGACTCCGACAAGACAGAGACATAGA
TGTGACTAACTAGACTAACAATAAATCAGACTGGACCCAAGAAGAATACATCCTGAATCAGTTTA
TGGGGTTTATTCAC
Found at i:42906625 original size:12 final size:12
Alignment explanation
Indices: 42906608--42906633 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
42906598 GTCATACTTT
42906608 TTCATTTTATTC
1 TTCATTTTATTC
42906620 TTCATTTTATTC
1 TTCATTTTATTC
42906632 TT
1 TT
42906634 ATAGAATTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.15, C:0.15, G:0.00, T:0.69
Consensus pattern (12 bp):
TTCATTTTATTC
Found at i:42931821 original size:49 final size:51
Alignment explanation
Indices: 42931761--42931912 Score: 175
Period size: 49 Copynumber: 3.0 Consensus size: 51
42931751 AAGGGGGAAG
* *
42931761 CAGTGGCAGTATATATGCAAATCAGTGGTGGCTTGTCCACAAAA-T-TTAAT
1 CAGTGGTAGTATATATACAAATCAGTGGTGGCTTGTCCACAAAAGTGTT-AT
* * *
42931811 -AGTGGTAGTATATGTTCATATCAGTGGTGGCTTGTCCACAAAAGTGTTAT
1 CAGTGGTAGTATATATACAAATCAGTGGTGGCTTGTCCACAAAAGTGTTAT
* * * * *
42931861 CAGTGGTAGTTTATCTACAAATCAGTGGTGACTTGTCTACAAATGGTGTTAT
1 CAGTGGTAGTATATATACAAATCAGTGGTGGCTTGTCCACAAA-AGTGTTAT
42931913 GGATGGATGA
Statistics
Matches: 87, Mismatches: 11, Indels: 6
0.84 0.11 0.06
Matches are distributed among these distances:
49 39 0.45
50 3 0.03
51 38 0.44
52 7 0.08
ACGTcount: A:0.28, C:0.14, G:0.24, T:0.34
Consensus pattern (51 bp):
CAGTGGTAGTATATATACAAATCAGTGGTGGCTTGTCCACAAAAGTGTTAT
Found at i:42941123 original size:29 final size:29
Alignment explanation
Indices: 42941081--42941367 Score: 269
Period size: 29 Copynumber: 9.8 Consensus size: 29
42941071 TGTGCTAAAT
*
42941081 GATGGTTGTAACCATCCCTTTTCATATTC
1 GATGGTCGTAACCATCCCTTTTCATATTC
* *
42941110 GATGGTCGAAACCATCCCTTTTCATTAATC
1 GATGGTCGTAACCATCCCTTTTCA-TATTC
* *
42941140 GATGGTCGTCACCATCCCTTTCCATAGTT-
1 GATGGTCGTAACCATCCCTTTTCATA-TTC
* *
42941169 GATGGTCGTCACCATCCCTTTTCATAATC
1 GATGGTCGTAACCATCCCTTTTCATATTC
* * *
42941198 GATAGTCG-AAGCTATCCCTTTTCATTAATC
1 GATGGTCGTAA-CCATCCCTTTTCA-TATTC
* *
42941228 GATGGTCGTCACCATCCCTTTCCATAGTT-
1 GATGGTCGTAACCATCCCTTTTCATA-TTC
* *
42941257 GATGGTCGTCACCATCCCTTTTCATAATC
1 GATGGTCGTAACCATCCCTTTTCATATTC
* * * *
42941286 GATAGCCG-AAGCTATTCCTTTTCATATTC
1 GATGGTCGTAA-CCATCCCTTTTCATATTC
* *
42941315 GATGCTCGTCACCATCCCTTTTCATATTC
1 GATGGTCGTAACCATCCCTTTTCATATTC
* * *
42941344 AATAGTCG-AAGCTATCCCTTTTCA
1 GATGGTCGTAA-CCATCCCTTTTCA
42941368 GTGGTCGATG
Statistics
Matches: 211, Mismatches: 36, Indels: 22
0.78 0.13 0.08
Matches are distributed among these distances:
28 5 0.02
29 154 0.73
30 51 0.24
31 1 0.00
ACGTcount: A:0.22, C:0.28, G:0.14, T:0.36
Consensus pattern (29 bp):
GATGGTCGTAACCATCCCTTTTCATATTC
Found at i:42941229 original size:88 final size:88
Alignment explanation
Indices: 42941080--42941340 Score: 416
Period size: 88 Copynumber: 3.0 Consensus size: 88
42941070 GTGTGCTAAA
* * * * * *
42941080 TGATGGTTGTAACCATCCCTTTTCATATTCGATGGTCGAAACCATCCCTTTTCATTAATCGATGG
1 TGATGGTCGTCACCATCCCTTTTCATAATCGATAGTCGAAGCTATCCCTTTTCATTAATCGATGG
42941145 TCGTCACCATCCCTTTCCATAGT
66 TCGTCACCATCCCTTTCCATAGT
42941168 TGATGGTCGTCACCATCCCTTTTCATAATCGATAGTCGAAGCTATCCCTTTTCATTAATCGATGG
1 TGATGGTCGTCACCATCCCTTTTCATAATCGATAGTCGAAGCTATCCCTTTTCATTAATCGATGG
42941233 TCGTCACCATCCCTTTCCATAGT
66 TCGTCACCATCCCTTTCCATAGT
* * * *
42941256 TGATGGTCGTCACCATCCCTTTTCATAATCGATAGCCGAAGCTATTCCTTTTCA-TATTCGATGC
1 TGATGGTCGTCACCATCCCTTTTCATAATCGATAGTCGAAGCTATCCCTTTTCATTAATCGATGG
*
42941320 TCGTCACCATCCCTTTTCATA
66 TCGTCACCATCCCTTTCCATA
42941341 TTCAATAGTC
Statistics
Matches: 162, Mismatches: 11, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
87 28 0.17
88 134 0.83
ACGTcount: A:0.21, C:0.28, G:0.14, T:0.36
Consensus pattern (88 bp):
TGATGGTCGTCACCATCCCTTTTCATAATCGATAGTCGAAGCTATCCCTTTTCATTAATCGATGG
TCGTCACCATCCCTTTCCATAGT
Found at i:42944885 original size:12 final size:14
Alignment explanation
Indices: 42944866--42944897 Score: 50
Period size: 12 Copynumber: 2.4 Consensus size: 14
42944856 ATTGTTATTG
42944866 TAGGAATTT-GATA
1 TAGGAATTTAGATA
42944879 T-GGAATTTAGATA
1 TAGGAATTTAGATA
42944892 TAGGAA
1 TAGGAA
42944898 AGGCACAGAA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
12 7 0.41
13 6 0.35
14 4 0.24
ACGTcount: A:0.41, C:0.00, G:0.25, T:0.34
Consensus pattern (14 bp):
TAGGAATTTAGATA
Found at i:42950367 original size:33 final size:33
Alignment explanation
Indices: 42950325--42950391 Score: 134
Period size: 33 Copynumber: 2.0 Consensus size: 33
42950315 GAAAGGGATA
42950325 AAAATCTAGATATCATTCTTTAGTTCTGTAGAC
1 AAAATCTAGATATCATTCTTTAGTTCTGTAGAC
42950358 AAAATCTAGATATCATTCTTTAGTTCTGTAGAC
1 AAAATCTAGATATCATTCTTTAGTTCTGTAGAC
42950391 A
1 A
42950392 TACAAAAACT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.34, C:0.15, G:0.12, T:0.39
Consensus pattern (33 bp):
AAAATCTAGATATCATTCTTTAGTTCTGTAGAC
Found at i:42954085 original size:86 final size:86
Alignment explanation
Indices: 42953940--42954111 Score: 317
Period size: 86 Copynumber: 2.0 Consensus size: 86
42953930 ACCATAACAC
42953940 ATACACTTATAAACATGTTAAACCGAGTTATAAAATTTCATTCAAATTTAAACTCTTCAAATTTT
1 ATACACTTATAAACATGTTAAACCGAGTTATAAAATTTCATTCAAATTTAAACTCTTCAAATTTT
42954005 TAACATGCTTTTAAAAATCTT
66 TAACATGCTTTTAAAAATCTT
**
42954026 ATACACTTATAAACATGTTAAACTTAGTTATAAAATTTCATTCAAATTTAAACTCTTCAAATTTT
1 ATACACTTATAAACATGTTAAACCGAGTTATAAAATTTCATTCAAATTTAAACTCTTCAAATTTT
*
42954091 TAACATGCTTTTATAAATCTT
66 TAACATGCTTTTAAAAATCTT
42954112 CACGTTATAA
Statistics
Matches: 83, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
86 83 1.00
ACGTcount: A:0.40, C:0.15, G:0.04, T:0.41
Consensus pattern (86 bp):
ATACACTTATAAACATGTTAAACCGAGTTATAAAATTTCATTCAAATTTAAACTCTTCAAATTTT
TAACATGCTTTTAAAAATCTT
Found at i:42955554 original size:51 final size:50
Alignment explanation
Indices: 42955496--42955682 Score: 180
Period size: 51 Copynumber: 3.7 Consensus size: 50
42955486 TTGGTTCACA
* *
42955496 TAGTAGCCTGCACATAGTACTGCACATGTGACCATTACCATCCGATACACG
1 TAGTAGCCTGCACATAGTACTACACACGTGACCA-TACCATCCGATACACG
* * * * * *
42955547 TAGTAGCCTGCACATAGTACTACACACGTGATCGAAACTATCC-AGTGCGCA
1 TAGTAGCCTGCACATAGTACTACACACGTGA-CCATACCATCCGA-TACACG
* * * ** * *
42955598 TAATAGCCTACACATAGTACTACACATGCAACC-TATCATTCCGGTACACG
1 TAGTAGCCTGCACATAGTACTACACACGTGACCATACCA-TCCGATACACG
*
42955648 TAGTAGCCTGCACATAATACTACACACGTGACCAT
1 TAGTAGCCTGCACATAGTACTACACACGTGACCAT
42955683 CACTTTCACT
Statistics
Matches: 104, Mismatches: 27, Indels: 10
0.74 0.19 0.07
Matches are distributed among these distances:
49 2 0.02
50 35 0.34
51 65 0.62
52 2 0.02
ACGTcount: A:0.32, C:0.29, G:0.16, T:0.23
Consensus pattern (50 bp):
TAGTAGCCTGCACATAGTACTACACACGTGACCATACCATCCGATACACG
Found at i:42955675 original size:101 final size:101
Alignment explanation
Indices: 42955494--42955678 Score: 273
Period size: 101 Copynumber: 1.8 Consensus size: 101
42955484 GTTTGGTTCA
* * * **
42955494 CATAGTAGCCTGCACATAGTACTGCACATGTGACCATTACCATCCGATACACGTAGTAGCCTGCA
1 CATAATAGCCTACACATAGTACTACACATGCAACCA-TACCATCCGATACACGTAGTAGCCTGCA
*
42955559 CATAGTACTACACACGTGATCGAAACTATCCAGTGCG
65 CATAATACTACACACGTGATCGAAACTATCCAGTGCG
* *
42955596 CATAATAGCCTACACATAGTACTACACATGCAACC-TATCATTCCGGTACACGTAGTAGCCTGCA
1 CATAATAGCCTACACATAGTACTACACATGCAACCATACCA-TCCGATACACGTAGTAGCCTGCA
42955660 CATAATACTACACACGTGA
65 CATAATACTACACACGTGA
42955679 CCATCACTTT
Statistics
Matches: 74, Mismatches: 8, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
100 4 0.05
101 40 0.54
102 30 0.41
ACGTcount: A:0.32, C:0.29, G:0.16, T:0.23
Consensus pattern (101 bp):
CATAATAGCCTACACATAGTACTACACATGCAACCATACCATCCGATACACGTAGTAGCCTGCAC
ATAATACTACACACGTGATCGAAACTATCCAGTGCG
Found at i:42957252 original size:35 final size:35
Alignment explanation
Indices: 42957206--42957275 Score: 140
Period size: 35 Copynumber: 2.0 Consensus size: 35
42957196 AAGACATGAC
42957206 AATGTCAAACATAACCCAAACAAACCAATAATTCT
1 AATGTCAAACATAACCCAAACAAACCAATAATTCT
42957241 AATGTCAAACATAACCCAAACAAACCAATAATTCT
1 AATGTCAAACATAACCCAAACAAACCAATAATTCT
42957276 TTCATCTATT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.51, C:0.26, G:0.03, T:0.20
Consensus pattern (35 bp):
AATGTCAAACATAACCCAAACAAACCAATAATTCT
Found at i:42958573 original size:42 final size:42
Alignment explanation
Indices: 42958493--42958574 Score: 103
Period size: 42 Copynumber: 2.0 Consensus size: 42
42958483 CGTTTTCTCT
* **
42958493 ATGCCATAGTCCAACTATGGTCTTACACATATTTACATATTG
1 ATGCCATAGCCCAACTATGGTCTTACACATATGCACATATTG
**
42958535 ATGCCATAGCCCAGGTATGGTCTTACACAGTA-GCACATAT
1 ATGCCATAGCCCAACTATGGTCTTACACA-TATGCACATAT
42958575 CACACCGATG
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
42 32 0.94
43 2 0.06
ACGTcount: A:0.30, C:0.23, G:0.16, T:0.30
Consensus pattern (42 bp):
ATGCCATAGCCCAACTATGGTCTTACACATATGCACATATTG
Found at i:42958996 original size:14 final size:15
Alignment explanation
Indices: 42958977--42959006 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
42958967 AAACATAAAC
42958977 TTTCAT-TTCTTTTT
1 TTTCATCTTCTTTTT
42958991 TTTCATCTTCTTTTT
1 TTTCATCTTCTTTTT
42959006 T
1 T
42959007 CAACTTATGA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 6 0.40
15 9 0.60
ACGTcount: A:0.07, C:0.17, G:0.00, T:0.77
Consensus pattern (15 bp):
TTTCATCTTCTTTTT
Found at i:42960963 original size:45 final size:45
Alignment explanation
Indices: 42960894--42960979 Score: 154
Period size: 45 Copynumber: 1.9 Consensus size: 45
42960884 AGATACTTGA
* *
42960894 TGGATTCAGCACATAGCAACCACCTTATTAATCAATGATGTCCGG
1 TGGAATCAGCACATAGCAACCACCTTACTAATCAATGATGTCCGG
42960939 TGGAATCAGCACATAGCAACCACCTTACTAATCAATGATGT
1 TGGAATCAGCACATAGCAACCACCTTACTAATCAATGATGT
42960980 TTGGTTCACA
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
45 39 1.00
ACGTcount: A:0.34, C:0.24, G:0.16, T:0.26
Consensus pattern (45 bp):
TGGAATCAGCACATAGCAACCACCTTACTAATCAATGATGTCCGG
Found at i:42961048 original size:51 final size:50
Alignment explanation
Indices: 42960990--42961176 Score: 180
Period size: 51 Copynumber: 3.7 Consensus size: 50
42960980 TTGGTTCACA
* *
42960990 TAGTAGCCTGCACATAGTACTGCACATGTGACCATTACCATCCGATACACG
1 TAGTAGCCTGCACATAGTACTACACACGTGACCA-TACCATCCGATACACG
* * * * * *
42961041 TAGTAGCCTGCACATAGTACTACACACGTGATCGAAACTATCC-AGTGCGCA
1 TAGTAGCCTGCACATAGTACTACACACGTGA-CCATACCATCCGA-TACACG
* * * ** * *
42961092 TAATAGCCTACACATAGTACTACACATGCAACC-TATCATTCCGGTACACG
1 TAGTAGCCTGCACATAGTACTACACACGTGACCATACCA-TCCGATACACG
*
42961142 TAGTAGCCTGCACATAATACTACACACGTGACCAT
1 TAGTAGCCTGCACATAGTACTACACACGTGACCAT
42961177 CACTTTCACT
Statistics
Matches: 104, Mismatches: 27, Indels: 10
0.74 0.19 0.07
Matches are distributed among these distances:
49 2 0.02
50 35 0.34
51 65 0.62
52 2 0.02
ACGTcount: A:0.32, C:0.29, G:0.16, T:0.23
Consensus pattern (50 bp):
TAGTAGCCTGCACATAGTACTACACACGTGACCATACCATCCGATACACG
Found at i:42961169 original size:101 final size:101
Alignment explanation
Indices: 42960988--42961172 Score: 273
Period size: 101 Copynumber: 1.8 Consensus size: 101
42960978 GTTTGGTTCA
* * * **
42960988 CATAGTAGCCTGCACATAGTACTGCACATGTGACCATTACCATCCGATACACGTAGTAGCCTGCA
1 CATAATAGCCTACACATAGTACTACACATGCAACCA-TACCATCCGATACACGTAGTAGCCTGCA
*
42961053 CATAGTACTACACACGTGATCGAAACTATCCAGTGCG
65 CATAATACTACACACGTGATCGAAACTATCCAGTGCG
* *
42961090 CATAATAGCCTACACATAGTACTACACATGCAACC-TATCATTCCGGTACACGTAGTAGCCTGCA
1 CATAATAGCCTACACATAGTACTACACATGCAACCATACCA-TCCGATACACGTAGTAGCCTGCA
42961154 CATAATACTACACACGTGA
65 CATAATACTACACACGTGA
42961173 CCATCACTTT
Statistics
Matches: 74, Mismatches: 8, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
100 4 0.05
101 40 0.54
102 30 0.41
ACGTcount: A:0.32, C:0.29, G:0.16, T:0.23
Consensus pattern (101 bp):
CATAATAGCCTACACATAGTACTACACATGCAACCATACCATCCGATACACGTAGTAGCCTGCAC
ATAATACTACACACGTGATCGAAACTATCCAGTGCG
Found at i:42964486 original size:16 final size:16
Alignment explanation
Indices: 42964465--42964496 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
42964455 CTTAATCCAC
*
42964465 TGCTAAGGACAATTTT
1 TGCTAAGGAAAATTTT
42964481 TGCTAAGGAAAATTTT
1 TGCTAAGGAAAATTTT
42964497 GCAATAAGTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.34, C:0.09, G:0.19, T:0.38
Consensus pattern (16 bp):
TGCTAAGGAAAATTTT
Found at i:42968692 original size:5 final size:5
Alignment explanation
Indices: 42968682--42968717 Score: 72
Period size: 5 Copynumber: 7.2 Consensus size: 5
42968672 ATGTATACTG
42968682 ATATA ATATA ATATA ATATA ATATA ATATA ATATA A
1 ATATA ATATA ATATA ATATA ATATA ATATA ATATA A
42968718 AACGTATAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 31 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (5 bp):
ATATA
Found at i:42983582 original size:42 final size:42
Alignment explanation
Indices: 42983512--42983611 Score: 146
Period size: 42 Copynumber: 2.4 Consensus size: 42
42983502 TGTGGATACT
* *
42983512 CCACAGCTCGTGTAAGCACCATCATGTAGCTTACATTTTGAC
1 CCACAGCTCGTGTGAGCACCATCATGTAGCTTACATTCTGAC
* * *
42983554 CCACAACTCGTGTGAGCAGCATCGTGTAGCTTACATTCTGAC
1 CCACAGCTCGTGTGAGCACCATCATGTAGCTTACATTCTGAC
*
42983596 CCACAGCTTGTGTGAG
1 CCACAGCTCGTGTGAG
42983612 TAGACCCATT
Statistics
Matches: 51, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 51 1.00
ACGTcount: A:0.24, C:0.28, G:0.21, T:0.27
Consensus pattern (42 bp):
CCACAGCTCGTGTGAGCACCATCATGTAGCTTACATTCTGAC
Found at i:42989543 original size:25 final size:24
Alignment explanation
Indices: 42989490--42989548 Score: 57
Period size: 25 Copynumber: 2.4 Consensus size: 24
42989480 ATTTTAGTTT
* *
42989490 AATTATCTAATTTTTCAATTTATTG
1 AATTAT-TAATTTTTCAATTAATTA
42989515 AATTATTAATATTTT-ATATTAATTA
1 AATTATTAAT-TTTTCA-ATTAATTA
*
42989540 AATTTTTAA
1 AATTATTAA
42989549 GAAAATAATT
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
24 5 0.17
25 24 0.83
ACGTcount: A:0.39, C:0.03, G:0.02, T:0.56
Consensus pattern (24 bp):
AATTATTAATTTTTCAATTAATTA
Found at i:42992095 original size:23 final size:26
Alignment explanation
Indices: 42992038--42992124 Score: 76
Period size: 26 Copynumber: 3.5 Consensus size: 26
42992028 GAGCCATGAT
42992038 CGGTAAGCTCATTCTGAGCTGAAGAA
1 CGGTAAGCTCATTCTGAGCTGAAGAA
42992064 CGGTAAGCTC-TATCT-AGCTG-A-AA
1 CGGTAAGCTCAT-TCTGAGCTGAAGAA
* ** * *
42992087 TGGTAAGCTCA-TAAGAGCTGATATAC
1 CGGTAAGCTCATTCTGAGCTGA-AGAA
42992113 CGGTAAGCTCAT
1 CGGTAAGCTCAT
42992125 AAGAGCTGTG
Statistics
Matches: 49, Mismatches: 5, Indels: 13
0.73 0.07 0.19
Matches are distributed among these distances:
22 1 0.02
23 16 0.33
24 1 0.02
25 7 0.14
26 24 0.49
ACGTcount: A:0.31, C:0.20, G:0.24, T:0.25
Consensus pattern (26 bp):
CGGTAAGCTCATTCTGAGCTGAAGAA
Found at i:43000874 original size:11 final size:11
Alignment explanation
Indices: 43000860--43000908 Score: 53
Period size: 11 Copynumber: 4.5 Consensus size: 11
43000850 CACCACTTCT
*
43000860 CCACTATAGCA
1 CCACCATAGCA
*
43000871 CCACCATACCA
1 CCACCATAGCA
*
43000882 CCACCACAGCA
1 CCACCATAGCA
* *
43000893 CCACCCTTGCA
1 CCACCATAGCA
43000904 CCACC
1 CCACC
43000909 TCAAAACTAT
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
11 31 1.00
ACGTcount: A:0.31, C:0.53, G:0.06, T:0.10
Consensus pattern (11 bp):
CCACCATAGCA
Found at i:43007142 original size:20 final size:20
Alignment explanation
Indices: 43007117--43007157 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
43007107 ATCGATCCAC
43007117 TACAACAAAAATAGAATCTT
1 TACAACAAAAATAGAATCTT
43007137 TACAACAAAAATAGAATCTT
1 TACAACAAAAATAGAATCTT
43007157 T
1 T
43007158 TCTCATTTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.54, C:0.15, G:0.05, T:0.27
Consensus pattern (20 bp):
TACAACAAAAATAGAATCTT
Found at i:43009139 original size:22 final size:22
Alignment explanation
Indices: 43009114--43009161 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
43009104 TCTTTTCTTA
43009114 TTTTCTTTTCACTTT-CCTTTTC
1 TTTTCTTTTCA-TTTGCCTTTTC
* *
43009136 TTTTTTTTTCATTTGGCTTTTC
1 TTTTCTTTTCATTTGCCTTTTC
43009158 TTTT
1 TTTT
43009162 TTGTTTTCTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
21 3 0.13
22 20 0.87
ACGTcount: A:0.04, C:0.19, G:0.04, T:0.73
Consensus pattern (22 bp):
TTTTCTTTTCATTTGCCTTTTC
Found at i:43009144 original size:27 final size:27
Alignment explanation
Indices: 43009114--43009176 Score: 65
Period size: 27 Copynumber: 2.3 Consensus size: 27
43009104 TCTTTTCTTA
43009114 TTTTCTTTTCACTTTCCTTTTCTT-TTT
1 TTTTCTTTTCACTTTCCTTTT-TTGTTT
* ** *
43009141 TTTTCATTTGGCTTTTCTTTTTTGTTT
1 TTTTCTTTTCACTTTCCTTTTTTGTTT
*
43009168 TCTTCTTTT
1 TTTTCTTTT
43009177 TTTTCTTCTT
Statistics
Matches: 29, Mismatches: 6, Indels: 2
0.78 0.16 0.05
Matches are distributed among these distances:
26 2 0.07
27 27 0.93
ACGTcount: A:0.03, C:0.17, G:0.05, T:0.75
Consensus pattern (27 bp):
TTTTCTTTTCACTTTCCTTTTTTGTTT
Found at i:43009168 original size:12 final size:12
Alignment explanation
Indices: 43009153--43009186 Score: 52
Period size: 12 Copynumber: 2.8 Consensus size: 12
43009143 TTCATTTGGC
43009153 TTTTCTT-TTTT
1 TTTTCTTCTTTT
43009164 GTTTTCTTCTTTT
1 -TTTTCTTCTTTT
43009177 TTTTCTTCTT
1 TTTTCTTCTT
43009187 CATTCGATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
12 17 0.81
13 4 0.19
ACGTcount: A:0.00, C:0.15, G:0.03, T:0.82
Consensus pattern (12 bp):
TTTTCTTCTTTT
Found at i:43009173 original size:15 final size:15
Alignment explanation
Indices: 43009155--43009187 Score: 50
Period size: 15 Copynumber: 2.2 Consensus size: 15
43009145 CATTTGGCTT
43009155 TTCTTTTTTGTT-TTC
1 TTCTTTTTT-TTCTTC
43009170 TTCTTTTTTTTCTTC
1 TTCTTTTTTTTCTTC
43009185 TTC
1 TTC
43009188 ATTCGATTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 2 0.12
15 15 0.88
ACGTcount: A:0.00, C:0.18, G:0.03, T:0.79
Consensus pattern (15 bp):
TTCTTTTTTTTCTTC
Found at i:43010136 original size:19 final size:18
Alignment explanation
Indices: 43010097--43010140 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
43010087 TTCACTTCGT
*
43010097 TTTTTTTTATACTCGAAA
1 TTTTTTTTATACTCAAAA
43010115 TTTTTTTT-TACTTCAAATA
1 TTTTTTTTATAC-TCAAA-A
43010134 TTTTTTT
1 TTTTTTT
43010141 CAATTACAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
17 3 0.13
18 12 0.52
19 8 0.35
ACGTcount: A:0.23, C:0.09, G:0.02, T:0.66
Consensus pattern (18 bp):
TTTTTTTTATACTCAAAA
Found at i:43010140 original size:17 final size:17
Alignment explanation
Indices: 43010099--43010140 Score: 50
Period size: 17 Copynumber: 2.4 Consensus size: 17
43010089 CACTTCGTTT
*
43010099 TTTTTTATACTCGAAATT
1 TTTTTT-TACTCGAAATA
43010117 TTTTTTTACTTC-AAATA
1 TTTTTTTAC-TCGAAATA
43010134 TTTTTTT
1 TTTTTTT
43010141 CAATTACAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
17 14 0.64
18 8 0.36
ACGTcount: A:0.24, C:0.10, G:0.02, T:0.64
Consensus pattern (17 bp):
TTTTTTTACTCGAAATA
Found at i:43013331 original size:5 final size:5
Alignment explanation
Indices: 43013321--43013348 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
43013311 TAATAACAAG
43013321 ATTAA ATTAA ATTAA ATTAA ATTAA ATT
1 ATTAA ATTAA ATTAA ATTAA ATTAA ATT
43013349 TATAAAAAAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (5 bp):
ATTAA
Found at i:43013404 original size:30 final size:30
Alignment explanation
Indices: 43013368--43013427 Score: 120
Period size: 30 Copynumber: 2.0 Consensus size: 30
43013358 CTATTAATAT
43013368 TATGCATAAAATCTTAATTAAAGTGTTAAC
1 TATGCATAAAATCTTAATTAAAGTGTTAAC
43013398 TATGCATAAAATCTTAATTAAAGTGTTAAC
1 TATGCATAAAATCTTAATTAAAGTGTTAAC
43013428 CAATAATATA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.43, C:0.10, G:0.10, T:0.37
Consensus pattern (30 bp):
TATGCATAAAATCTTAATTAAAGTGTTAAC
Found at i:43016663 original size:25 final size:25
Alignment explanation
Indices: 43016635--43016690 Score: 94
Period size: 25 Copynumber: 2.2 Consensus size: 25
43016625 ATATGGTAAG
*
43016635 TTTATGTTGAAGTGATATAGGTCAA
1 TTTATGTTGAAGTGATACAGGTCAA
*
43016660 TTTATGTTGAAGTGATACATGTCAA
1 TTTATGTTGAAGTGATACAGGTCAA
43016685 TTTATG
1 TTTATG
43016691 ATGAGTTTTG
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
25 29 1.00
ACGTcount: A:0.30, C:0.05, G:0.21, T:0.43
Consensus pattern (25 bp):
TTTATGTTGAAGTGATACAGGTCAA
Found at i:43025465 original size:25 final size:25
Alignment explanation
Indices: 43025437--43025492 Score: 103
Period size: 25 Copynumber: 2.2 Consensus size: 25
43025427 ATATGGTAAG
*
43025437 TTTATGTTGAAGTGATATAGGTCAA
1 TTTATGTTGAAGTGATACAGGTCAA
43025462 TTTATGTTGAAGTGATACAGGTCAA
1 TTTATGTTGAAGTGATACAGGTCAA
43025487 TTTATG
1 TTTATG
43025493 AAGAGTTTTA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 30 1.00
ACGTcount: A:0.30, C:0.05, G:0.23, T:0.41
Consensus pattern (25 bp):
TTTATGTTGAAGTGATACAGGTCAA
Found at i:43031507 original size:113 final size:113
Alignment explanation
Indices: 43031294--43031508 Score: 315
Period size: 113 Copynumber: 1.9 Consensus size: 113
43031284 AATCAAGATT
* *
43031294 TCAAATCTTGGAAATCTTGGTCCAAGAAACCGAATCTTGCAGCCAACGCGCATTGGATCTCCGTT
1 TCAAATCTTGGAAATCTTGGTCCAAGAAACCGAATCTTGCAACCAACGCGCATTGGATCTCAGTT
* * * *
43031359 ACGAGCGTCAACGACCCAATTTTGGTAGAAGATGGATAACGAGCCGAA
66 ACGAGCATCAACAACCCAATTTCGGGAGAAGATGGATAACGAGCCGAA
* * *
43031407 TCAAATCTTGGAAATCTTTGTCCAAGAAACCGAATCTTGCAACTAAGGCGCATTGGATCTCAGTT
1 TCAAATCTTGGAAATCTTGGTCCAAGAAACCGAATCTTGCAACCAACGCGCATTGGATCTCAGTT
* *
43031472 ACGAGCATTAACAAGCCAATTTCGGGAG-AGAATGGAT
66 ACGAGCATCAACAACCCAATTTCGGGAGAAG-ATGGAT
43031509 TACAAGCCCA
Statistics
Matches: 90, Mismatches: 11, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
112 2 0.02
113 88 0.98
ACGTcount: A:0.32, C:0.22, G:0.22, T:0.24
Consensus pattern (113 bp):
TCAAATCTTGGAAATCTTGGTCCAAGAAACCGAATCTTGCAACCAACGCGCATTGGATCTCAGTT
ACGAGCATCAACAACCCAATTTCGGGAGAAGATGGATAACGAGCCGAA
Found at i:43042971 original size:17 final size:17
Alignment explanation
Indices: 43042949--43042982 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
43042939 TATTCCAACC
43042949 TTTGATTAAAAATATTT
1 TTTGATTAAAAATATTT
*
43042966 TTTGATTAAACATATTT
1 TTTGATTAAAAATATTT
43042983 AAATACACTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.38, C:0.03, G:0.06, T:0.53
Consensus pattern (17 bp):
TTTGATTAAAAATATTT
Found at i:43045605 original size:18 final size:18
Alignment explanation
Indices: 43045579--43045614 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
43045569 TTATGCATCG
43045579 TCTTATTTGGTTGCTCAA
1 TCTTATTTGGTTGCTCAA
*
43045597 TCTTGTTTGGTTGCTCAA
1 TCTTATTTGGTTGCTCAA
43045615 AATAAGAGAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.14, C:0.17, G:0.19, T:0.50
Consensus pattern (18 bp):
TCTTATTTGGTTGCTCAA
Found at i:43056015 original size:29 final size:29
Alignment explanation
Indices: 43055953--43056022 Score: 79
Period size: 29 Copynumber: 2.4 Consensus size: 29
43055943 TTATCTCTGA
* * *
43055953 AAGGTAGCCTTTGTGGCAATCTTTGTTAT
1 AAGGAAGCCTTTGTGGCAATCTCTATTAT
*
43055982 AAGGAAGCCTTTGTGGCGATCTCTATTA-
1 AAGGAAGCCTTTGTGGCAATCTCTATTAT
*
43056010 AGAGGATGCCTTT
1 A-AGGAAGCCTTT
43056023 ATGACTATCT
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
28 1 0.03
29 34 0.97
ACGTcount: A:0.23, C:0.16, G:0.26, T:0.36
Consensus pattern (29 bp):
AAGGAAGCCTTTGTGGCAATCTCTATTAT
Found at i:43056032 original size:29 final size:27
Alignment explanation
Indices: 43055982--43056187 Score: 87
Period size: 29 Copynumber: 7.2 Consensus size: 27
43055972 TCTTTGTTAT
* * *
43055982 AAGGAAGCCTTTGTGGCGATCTCTATTA
1 AAGGATGCCTTTAT-GCTATCTCTATTA
43056010 AGAGGATGCCTTTATGACTATCTC-AGTTA
1 A-AGGATGCCTTTATG-CTATCTCTA-TTA
** * *
43056039 AACAATGTCTTTATGGTGATCTCTATTA
1 AAGGATGCCTTTATGCT-ATCTCTATTA
*
43056067 AAGGGGTGCCTTTATGGCTATCT-TAGTTA
1 AA-GGATGCCTTTAT-GCTATCTCTA-TTA
* * * * * *
43056096 AATGAATGTCTCTGTGGTGATCTCTGTTA
1 AA-GGATGCCTTTATGCT-ATCTCTATTA
43056125 AAGGGATGCCTTTATGGCTATCTC-AGTTA
1 AA-GGATGCCTTTAT-GCTATCTCTA-TTA
* * *
43056154 AATGAATACCTTTGTAGCTATCTC-AGTTA
1 AA-GGATGCCTTTAT-GCTATCTCTA-TTA
43056183 AAGGA
1 AAGGA
43056188 ATGTCTTGTG
Statistics
Matches: 133, Mismatches: 33, Indels: 24
0.70 0.17 0.13
Matches are distributed among these distances:
27 1 0.01
28 30 0.23
29 97 0.73
30 5 0.04
ACGTcount: A:0.26, C:0.16, G:0.22, T:0.36
Consensus pattern (27 bp):
AAGGATGCCTTTATGCTATCTCTATTA
Found at i:43056126 original size:58 final size:58
Alignment explanation
Indices: 43055993--43056160 Score: 241
Period size: 58 Copynumber: 2.9 Consensus size: 58
43055983 AGGAAGCCTT
* * * *
43055993 TGTGGCGATCTCTATT-AAGAGGATGCCTTTATGACTATCTCAGTTAAA-CAATGTCTT
1 TGTGGTGATCTCTATTAAAG-GGATGCCTTTATGGCTATCTCAGTTAAATGAATGTCTC
* * *
43056050 TATGGTGATCTCTATTAAAGGGGTGCCTTTATGGCTATCTTAGTTAAATGAATGTCTC
1 TGTGGTGATCTCTATTAAAGGGATGCCTTTATGGCTATCTCAGTTAAATGAATGTCTC
*
43056108 TGTGGTGATCTCTGTTAAAGGGATGCCTTTATGGCTATCTCAGTTAAATGAAT
1 TGTGGTGATCTCTATTAAAGGGATGCCTTTATGGCTATCTCAGTTAAATGAAT
43056161 ACCTTTGTAG
Statistics
Matches: 98, Mismatches: 11, Indels: 3
0.88 0.10 0.03
Matches are distributed among these distances:
57 39 0.40
58 59 0.60
ACGTcount: A:0.25, C:0.15, G:0.22, T:0.38
Consensus pattern (58 bp):
TGTGGTGATCTCTATTAAAGGGATGCCTTTATGGCTATCTCAGTTAAATGAATGTCTC
Found at i:43056177 original size:58 final size:58
Alignment explanation
Indices: 43055988--43056186 Score: 219
Period size: 58 Copynumber: 3.4 Consensus size: 58
43055978 TTATAAGGAA
* *
43055988 GCCTTTGTGGC-GATCTCTATT-AAGAGGATGCCTTTATGACTATCTCAGTTAAA-CAAT
1 GCCTTTGT-GCTGATCTCTATTAAAG-GGATGCCTTTATGGCTATCTCAGTTAAATGAAT
* * * * *
43056045 GTCTTTATGGTGATCTCTATTAAAGGGGTGCCTTTATGGCTATCTTAGTTAAATGAAT
1 GCCTTTGTGCTGATCTCTATTAAAGGGATGCCTTTATGGCTATCTCAGTTAAATGAAT
* * * *
43056103 GTCTCTGTGGTGATCTCTGTTAAAGGGATGCCTTTATGGCTATCTCAGTTAAATGAAT
1 GCCTTTGTGCTGATCTCTATTAAAGGGATGCCTTTATGGCTATCTCAGTTAAATGAAT
*
43056161 ACCTTTGTAGCT-ATCTC-AGTTAAAGG
1 GCCTTTGT-GCTGATCTCTA-TTAAAGG
43056187 AATGTCTTGT
Statistics
Matches: 120, Mismatches: 17, Indels: 9
0.82 0.12 0.06
Matches are distributed among these distances:
56 1 0.01
57 41 0.34
58 76 0.63
59 2 0.02
ACGTcount: A:0.25, C:0.16, G:0.22, T:0.38
Consensus pattern (58 bp):
GCCTTTGTGCTGATCTCTATTAAAGGGATGCCTTTATGGCTATCTCAGTTAAATGAAT
Found at i:43056189 original size:29 final size:29
Alignment explanation
Indices: 43056115--43056189 Score: 96
Period size: 29 Copynumber: 2.6 Consensus size: 29
43056105 CTCTGTGGTG
* * * *
43056115 ATCTCTGTTAAAGGGATGCCTTTATGGCT
1 ATCTCAGTTAAAGGAATACCTTTATAGCT
* *
43056144 ATCTCAGTTAAATGAATACCTTTGTAGCT
1 ATCTCAGTTAAAGGAATACCTTTATAGCT
43056173 ATCTCAGTTAAAGGAAT
1 ATCTCAGTTAAAGGAAT
43056190 GTCTTGTGTA
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 39 1.00
ACGTcount: A:0.29, C:0.16, G:0.19, T:0.36
Consensus pattern (29 bp):
ATCTCAGTTAAAGGAATACCTTTATAGCT
Found at i:43057560 original size:4 final size:4
Alignment explanation
Indices: 43057551--43057590 Score: 66
Period size: 4 Copynumber: 10.5 Consensus size: 4
43057541 ATCTATCCTT
43057551 TTTA TTTA TTTA TTTA TTTA TTTA -TTA TTT- TTTA TTTA TT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TT
43057591 CTTGTTTTAT
Statistics
Matches: 34, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
3 6 0.18
4 28 0.82
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.78
Consensus pattern (4 bp):
TTTA
Found at i:43057977 original size:35 final size:35
Alignment explanation
Indices: 43057891--43057977 Score: 88
Period size: 35 Copynumber: 2.5 Consensus size: 35
43057881 TGGTGGGATG
*
43057891 AATGGTCTACTAGCTCTACAGAGCAACATCATGGA
1 AATGGTCTACTTGCTCTACAGAGCAACATCATGGA
* * ***
43057926 AATGAT-TAATTGGCTCTTTGGAGCAACA-CTATGGA
1 AATGGTCTACTT-GCTCTACAGAGCAACATC-ATGGA
43057961 AATGGTCTACTTGCTCT
1 AATGGTCTACTTGCTCT
43057978 CTAGAGTGAC
Statistics
Matches: 41, Mismatches: 8, Indels: 6
0.75 0.15 0.11
Matches are distributed among these distances:
34 4 0.10
35 33 0.80
36 4 0.10
ACGTcount: A:0.30, C:0.20, G:0.21, T:0.30
Consensus pattern (35 bp):
AATGGTCTACTTGCTCTACAGAGCAACATCATGGA
Found at i:43062265 original size:13 final size:13
Alignment explanation
Indices: 43062249--43062273 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
43062239 CTTGCGACAA
43062249 GGAAGAAATTTTT
1 GGAAGAAATTTTT
43062262 GGAAGAAATTTT
1 GGAAGAAATTTT
43062274 GAGATTTTGG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.00, G:0.24, T:0.36
Consensus pattern (13 bp):
GGAAGAAATTTTT
Found at i:43062683 original size:6 final size:6
Alignment explanation
Indices: 43062664--43062721 Score: 82
Period size: 6 Copynumber: 9.7 Consensus size: 6
43062654 ATTAAATAAA
**
43062664 TAAAAT TATCAT TAAAAT TAAAAT TAAAAAT TAAAAT TAAAAT T-AAAT
1 TAAAAT TAAAAT TAAAAT TAAAAT T-AAAAT TAAAAT TAAAAT TAAAAT
43062712 TAAAAT TAAA
1 TAAAAT TAAA
43062722 GACAAAGATA
Statistics
Matches: 46, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
5 5 0.11
6 35 0.76
7 6 0.13
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (6 bp):
TAAAAT
Found at i:43062698 original size:19 final size:17
Alignment explanation
Indices: 43062664--43062721 Score: 80
Period size: 19 Copynumber: 3.2 Consensus size: 17
43062654 ATTAAATAAA
*
43062664 TAAAATTATCATTAAAAT
1 TAAAATTA-AATTAAAAT
43062682 TAAAATTAAAAATTAAAAT
1 TAAAATT--AAATTAAAAT
43062701 TAAAATTAAATTAAAAT
1 TAAAATTAAATTAAAAT
43062718 TAAA
1 TAAA
43062722 GACAAAGATA
Statistics
Matches: 37, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
17 14 0.38
18 7 0.19
19 15 0.41
20 1 0.03
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (17 bp):
TAAAATTAAATTAAAAT
Found at i:43062702 original size:25 final size:23
Alignment explanation
Indices: 43062660--43062721 Score: 81
Period size: 25 Copynumber: 2.7 Consensus size: 23
43062650 CTTTATTAAA
**
43062660 TAAA-TAAAATTATCATTAAAAT
1 TAAATTAAAATTAAAATTAAAAT
43062682 TAAAATTAAAAATTAAAATTAAAAT
1 T-AAATT-AAAATTAAAATTAAAAT
43062707 TAAATTAAAATTAAA
1 TAAATTAAAATTAAA
43062722 GACAAAGATA
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
22 1 0.03
23 12 0.34
24 6 0.17
25 16 0.46
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.34
Consensus pattern (23 bp):
TAAATTAAAATTAAAATTAAAAT
Found at i:43062736 original size:30 final size:30
Alignment explanation
Indices: 43062678--43062736 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
43062668 ATTATCATTA
* *
43062678 AAATTAAAATTAAAAATTAAAATTAAAATT
1 AAATTAAAATTAAAAATCAAAATAAAAATT
*
43062708 AAATTAAAATTAAAGA-CAAAGATAAAAAT
1 AAATTAAAATTAAAAATCAAA-ATAAAAAT
43062737 GAGAAGTAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 3 0.12
30 22 0.88
ACGTcount: A:0.68, C:0.02, G:0.03, T:0.27
Consensus pattern (30 bp):
AAATTAAAATTAAAAATCAAAATAAAAATT
Found at i:43065647 original size:12 final size:12
Alignment explanation
Indices: 43065632--43065657 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
43065622 AAAAAAAAAG
43065632 AATATGGGTAAA
1 AATATGGGTAAA
43065644 AATATGGGTAAA
1 AATATGGGTAAA
43065656 AA
1 AA
43065658 AGGAGGTAGG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.54, C:0.00, G:0.23, T:0.23
Consensus pattern (12 bp):
AATATGGGTAAA
Found at i:43068930 original size:38 final size:38
Alignment explanation
Indices: 43068888--43069079 Score: 222
Period size: 38 Copynumber: 5.1 Consensus size: 38
43068878 AAAAACGTAA
* *
43068888 TGATATTCGGGCTATGTGCCTAGTAGGCTTTGTACCGG
1 TGATATTCGGGCTATGTGCCTAGCAGGCTTTGTGCCGG
** * * *
43068926 TGATATTCAAGCTGTGTGCCTAGTAGGCTTTGTGTCGG
1 TGATATTCGGGCTATGTGCCTAGCAGGCTTTGTGCCGG
* * *
43068964 TGATATTCAGACTATGTGCCTAGCAGGCTTTGTGCCAG
1 TGATATTCGGGCTATGTGCCTAGCAGGCTTTGTGCCGG
* *
43069002 TGATATTAGGGCTATGTGCCTAGCAGGCTTTGTGCTGG
1 TGATATTCGGGCTATGTGCCTAGCAGGCTTTGTGCCGG
* * * * * *
43069040 TGTTATTCGGGCTTTATTCCTAGCAGGCTTTATGTCGG
1 TGATATTCGGGCTATGTGCCTAGCAGGCTTTGTGCCGG
43069078 TG
1 TG
43069080 TAATGCAAAT
Statistics
Matches: 130, Mismatches: 24, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
38 130 1.00
ACGTcount: A:0.16, C:0.18, G:0.30, T:0.36
Consensus pattern (38 bp):
TGATATTCGGGCTATGTGCCTAGCAGGCTTTGTGCCGG
Found at i:43088760 original size:79 final size:79
Alignment explanation
Indices: 43088620--43088766 Score: 231
Period size: 79 Copynumber: 1.9 Consensus size: 79
43088610 AACAGTCTTT
* * *
43088620 GACACTTGAAGTTCCCGAATAGCCATTAGAGTGGACTTAAAGAGTTGAGCTGAATAAATCAAATT
1 GACACTTGAAGTTCCCGAACAGCCATTAGAGCGGACTTAAAGAGTAGAGCTGAATAAATCAAATT
43088685 AATTGATTAGCTTG
66 AATTGATTAGCTTG
* * * *
43088699 GACATTTGGAGTTCCCGAACAGCCATTAGAGCGGACTTAAGGAGTAGAGCTGAATGAATCAAATT
1 GACACTTGAAGTTCCCGAACAGCCATTAGAGCGGACTTAAAGAGTAGAGCTGAATAAATCAAATT
43088764 AAT
66 AAT
43088767 GGATCGTTCA
Statistics
Matches: 61, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
79 61 1.00
ACGTcount: A:0.35, C:0.15, G:0.23, T:0.27
Consensus pattern (79 bp):
GACACTTGAAGTTCCCGAACAGCCATTAGAGCGGACTTAAAGAGTAGAGCTGAATAAATCAAATT
AATTGATTAGCTTG
Found at i:43093454 original size:30 final size:30
Alignment explanation
Indices: 43093418--43093479 Score: 124
Period size: 30 Copynumber: 2.1 Consensus size: 30
43093408 AGATAGGTTT
43093418 TGGTAAGAGTTCTGTATTGGATTATATACA
1 TGGTAAGAGTTCTGTATTGGATTATATACA
43093448 TGGTAAGAGTTCTGTATTGGATTATATACA
1 TGGTAAGAGTTCTGTATTGGATTATATACA
43093478 TG
1 TG
43093480 AACTAAAGTG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.29, C:0.06, G:0.24, T:0.40
Consensus pattern (30 bp):
TGGTAAGAGTTCTGTATTGGATTATATACA
Found at i:43095174 original size:51 final size:52
Alignment explanation
Indices: 43095055--43095183 Score: 190
Period size: 51 Copynumber: 2.5 Consensus size: 52
43095045 ACTAGTGACT
*
43095055 CAAGTGTGGTACCATGTGAAGGCCACTTTGTGAAGAAAGATAGTTTTGGTCA
1 CAAGTGTGGTACTATGTGAAGGCCACTTTGTGAAGAAAGATAGTTTTGGTCA
* *
43095107 CAAGTGTGGTACTATGTGAAGGCCACTTTGTGAAG-AAGGTATTTTTGG-CTA
1 CAAGTGTGGTACTATGTGAAGGCCACTTTGTGAAGAAAGATAGTTTTGGTC-A
* *
43095158 CAAGGGTGGTACTATGTGCAGGCCAC
1 CAAGTGTGGTACTATGTGAAGGCCAC
43095184 CGGGTATCCG
Statistics
Matches: 71, Mismatches: 5, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
50 1 0.01
51 36 0.51
52 34 0.48
ACGTcount: A:0.26, C:0.15, G:0.30, T:0.29
Consensus pattern (52 bp):
CAAGTGTGGTACTATGTGAAGGCCACTTTGTGAAGAAAGATAGTTTTGGTCA
Found at i:43097566 original size:28 final size:28
Alignment explanation
Indices: 43097526--43097583 Score: 116
Period size: 28 Copynumber: 2.1 Consensus size: 28
43097516 TAATTGTTTC
43097526 AGTTGGGTATTCGCACCGAGACCGTGGG
1 AGTTGGGTATTCGCACCGAGACCGTGGG
43097554 AGTTGGGTATTCGCACCGAGACCGTGGG
1 AGTTGGGTATTCGCACCGAGACCGTGGG
43097582 AG
1 AG
43097584 ATCATATTCG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.19, C:0.21, G:0.40, T:0.21
Consensus pattern (28 bp):
AGTTGGGTATTCGCACCGAGACCGTGGG
Found at i:43103934 original size:13 final size:14
Alignment explanation
Indices: 43103900--43103934 Score: 54
Period size: 13 Copynumber: 2.6 Consensus size: 14
43103890 TCTTCTTCTT
43103900 TTTTTTTTCCACAA
1 TTTTTTTTCCACAA
*
43103914 TTTTTTTT-CACGA
1 TTTTTTTTCCACAA
43103927 TTTTTTTT
1 TTTTTTTT
43103935 TCAACTTGAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
13 12 0.60
14 8 0.40
ACGTcount: A:0.14, C:0.14, G:0.03, T:0.69
Consensus pattern (14 bp):
TTTTTTTTCCACAA
Found at i:43103935 original size:14 final size:13
Alignment explanation
Indices: 43103899--43103937 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 13
43103889 TTCTTCTTCT
43103899 TTTTTTTTTCCACA
1 TTTTTTTTT-CACA
*
43103913 ATTTTTTTTCACGA
1 TTTTTTTTTCAC-A
43103927 TTTTTTTTTCA
1 TTTTTTTTTCA
43103938 ACTTGATATC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
13 3 0.14
14 19 0.86
ACGTcount: A:0.15, C:0.15, G:0.03, T:0.67
Consensus pattern (13 bp):
TTTTTTTTTCACA
Found at i:43103992 original size:11 final size:12
Alignment explanation
Indices: 43103974--43104027 Score: 69
Period size: 12 Copynumber: 4.7 Consensus size: 12
43103964 AATGGAAACT
43103974 ATTTTTTTCTG-A
1 ATTTTTTT-TGAA
*
43103986 ATTTTTTTCG--
1 ATTTTTTTTGAA
43103996 ATTTTTTTTGAA
1 ATTTTTTTTGAA
43104008 ATTTTTTTTGAA
1 ATTTTTTTTGAA
43104020 ATTTTTTT
1 ATTTTTTT
43104028 CGAAGATGCT
Statistics
Matches: 38, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
10 9 0.24
11 1 0.03
12 28 0.74
ACGTcount: A:0.19, C:0.04, G:0.07, T:0.70
Consensus pattern (12 bp):
ATTTTTTTTGAA
Found at i:43103999 original size:22 final size:22
Alignment explanation
Indices: 43103974--43104015 Score: 68
Period size: 22 Copynumber: 1.9 Consensus size: 22
43103964 AATGGAAACT
43103974 ATTTTTTTCTG-AATTTTTTTCG
1 ATTTTTTT-TGAAATTTTTTTCG
43103996 ATTTTTTTTGAAATTTTTTT
1 ATTTTTTTTGAAATTTTTTT
43104016 TGAAATTTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 2 0.11
22 17 0.89
ACGTcount: A:0.17, C:0.05, G:0.07, T:0.71
Consensus pattern (22 bp):
ATTTTTTTTGAAATTTTTTTCG
Found at i:43108319 original size:20 final size:20
Alignment explanation
Indices: 43108294--43108333 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
43108284 TGTGTGACTT
*
43108294 TGAAAAATCACTAAAAATGG
1 TGAAAAATCACCAAAAATGG
43108314 TGAAAAATCACCAAAAATGG
1 TGAAAAATCACCAAAAATGG
43108334 AGTCAATAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.55, C:0.12, G:0.15, T:0.17
Consensus pattern (20 bp):
TGAAAAATCACCAAAAATGG
Found at i:43110953 original size:19 final size:19
Alignment explanation
Indices: 43110929--43110965 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
43110919 CAATGTGGTG
* *
43110929 GAAAAGAGGAAATATGAGA
1 GAAAAGAGAAAAGATGAGA
43110948 GAAAAGAGAAAAGATGAG
1 GAAAAGAGAAAAGATGAG
43110966 TCGTAAAATG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.59, C:0.00, G:0.32, T:0.08
Consensus pattern (19 bp):
GAAAAGAGAAAAGATGAGA
Found at i:43112393 original size:13 final size:13
Alignment explanation
Indices: 43112375--43112400 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
43112365 TTATGACTTA
43112375 CTTTTCTCTTGCT
1 CTTTTCTCTTGCT
43112388 CTTTTCTCTTGCT
1 CTTTTCTCTTGCT
43112401 GCAACATGAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.00, C:0.31, G:0.08, T:0.62
Consensus pattern (13 bp):
CTTTTCTCTTGCT
Found at i:43112684 original size:50 final size:50
Alignment explanation
Indices: 43112567--43112808 Score: 290
Period size: 50 Copynumber: 4.9 Consensus size: 50
43112557 GATAATAACA
* * * ** * **
43112567 TGCCAAAGCCAAGTCCCAGACATGGTCTTACACGGGATGTTTCATGAAC--
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCAT-CTCGG
* * ** ** *
43112616 TGCCAATGCCATATCCCAGATTTGGTCTTACATGGGAATTCTCATATCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* * **
43112666 TGCCCATGCCATGTCCCAGACATGGTCTTACGGGGGACCTCTCATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
43112716 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
43112766 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTC
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTC
43112809 TGAATCTCAA
Statistics
Matches: 168, Mismatches: 23, Indels: 3
0.87 0.12 0.02
Matches are distributed among these distances:
48 2 0.01
49 36 0.21
50 130 0.77
ACGTcount: A:0.22, C:0.31, G:0.22, T:0.25
Consensus pattern (50 bp):
TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
Found at i:43116129 original size:50 final size:50
Alignment explanation
Indices: 43116054--43116345 Score: 575
Period size: 50 Copynumber: 5.8 Consensus size: 50
43116044 TTGGGTAAAG
*
43116054 AGGTCCTATGTAAGACCATGTCTGGGACATGGCGTTGGCACCTAGATAAC
1 AGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCTAGATAAC
43116104 AGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCTAGATAAC
1 AGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCTAGATAAC
43116154 AGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCTAGATAAC
1 AGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCTAGATAAC
43116204 AGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCTAGATAAC
1 AGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCTAGATAAC
43116254 AGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCTAGATAAC
1 AGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCTAGATAAC
43116304 AGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACC
1 AGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACC
43116346 NNNNNNNNNN
Statistics
Matches: 241, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
50 241 1.00
ACGTcount: A:0.25, C:0.24, G:0.28, T:0.22
Consensus pattern (50 bp):
AGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCTAGATAAC
Found at i:43123685 original size:50 final size:50
Alignment explanation
Indices: 43123610--43123704 Score: 154
Period size: 50 Copynumber: 1.9 Consensus size: 50
43123600 CATTAAGATT
*
43123610 ATGAGAGGTCCCATGTAAGACCATGTCTAGGACATGGCGTTGGCACCGAG
1 ATGAGAGGTCCCACGTAAGACCATGTCTAGGACATGGCGTTGGCACCGAG
* * *
43123660 ATGAGAGGTCCCCCGTAAGACCATGTCTGGGACATGGCTTTGGCA
1 ATGAGAGGTCCCACGTAAGACCATGTCTAGGACATGGCGTTGGCA
43123705 TGTTATTATT
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
50 41 1.00
ACGTcount: A:0.24, C:0.23, G:0.32, T:0.21
Consensus pattern (50 bp):
ATGAGAGGTCCCACGTAAGACCATGTCTAGGACATGGCGTTGGCACCGAG
Found at i:43128447 original size:25 final size:24
Alignment explanation
Indices: 43128418--43128483 Score: 71
Period size: 25 Copynumber: 2.7 Consensus size: 24
43128408 CCCGAGTTGT
*
43128418 AAATCGGTAAGCTCATATGAGCTGA
1 AAATCGGTAAGCTCATACGAGCT-A
* *
43128443 GAATCGGTAAGTTC-TCACGAGCTA
1 AAATCGGTAAGCTCAT-ACGAGCTA
*
43128467 AAATTGGTAAGCTCATA
1 AAATCGGTAAGCTCATA
43128484 AGTGCTGTGG
Statistics
Matches: 33, Mismatches: 6, Indels: 5
0.75 0.14 0.11
Matches are distributed among these distances:
24 14 0.42
25 19 0.58
ACGTcount: A:0.35, C:0.17, G:0.23, T:0.26
Consensus pattern (24 bp):
AAATCGGTAAGCTCATACGAGCTA
Found at i:43129954 original size:744 final size:744
Alignment explanation
Indices: 43128528--43130015 Score: 2976
Period size: 744 Copynumber: 2.0 Consensus size: 744
43128518 ACAACCAAAT
43128528 CGGTAACCCTAATTACATGTCATTTGTATCCTACAAATTCCTAAGGTTCAAACGGGACTCGATAC
1 CGGTAACCCTAATTACATGTCATTTGTATCCTACAAATTCCTAAGGTTCAAACGGGACTCGATAC
43128593 TCAACATATGTCATCGGATATACGATCGGTATTTATACATGGCAATTATATAAACCACACACATA
66 TCAACATATGTCATCGGATATACGATCGGTATTTATACATGGCAATTATATAAACCACACACATA
43128658 TAATTCAATTAAAACATATAAATACTCAATTTAAATACACGAACTTACCTCACTGAGTAAACGTA
131 TAATTCAATTAAAACATATAAATACTCAATTTAAATACACGAACTTACCTCACTGAGTAAACGTA
43128723 GATACAAAGGCGATTAATCCTATACTTTCTCATTGCCCCGATCTAACTCCGTACGAGTCTAACCG
196 GATACAAAGGCGATTAATCCTATACTTTCTCATTGCCCCGATCTAACTCCGTACGAGTCTAACCG
43128788 AATCTATACGAATACATTTAACTAAATTTAATAGATTGCTCATTCAAATTAGTCCAACACATATT
261 AATCTATACGAATACATTTAACTAAATTTAATAGATTGCTCATTCAAATTAGTCCAACACATATT
43128853 TTTGGCAAAAATACCATTTTGCCCCTATACTTTTAATTTCTTTACAAATAAGTCCCTAGGCTCAA
326 TTTGGCAAAAATACCATTTTGCCCCTATACTTTTAATTTCTTTACAAATAAGTCCCTAGGCTCAA
43128918 AATGAAATTCATGCAATTTAACCCTTACCCAAGCCTAGCTAATTTTTATACATATTAGTAGTAGT
391 AATGAAATTCATGCAATTTAACCCTTACCCAAGCCTAGCTAATTTTTATACATATTAGTAGTAGT
43128983 CCATATATTTTATAAATCCACAATTTTACCACACAATATTATCTATTTTTCAATTTAGCCCCTAA
456 CCATATATTTTATAAATCCACAATTTTACCACACAATATTATCTATTTTTCAATTTAGCCCCTAA
43129048 TTGATAATTTCACCAAAAATTTCTTTACAAAAGTTGTTTACCTAACAAAAACCATTTATTTTCTA
521 TTGATAATTTCACCAAAAATTTCTTTACAAAAGTTGTTTACCTAACAAAAACCATTTATTTTCTA
43129113 TCACCAAACTTCAAAACTCATATATATTCACCAATAGTAAAACCCTAATAGTTTAACAGTTTCAC
586 TCACCAAACTTCAAAACTCATATATATTCACCAATAGTAAAACCCTAATAGTTTAACAGTTTCAC
43129178 AAATTAGTCCCTGGGCTAGCTAGATTAAGCTACAACGATCCTGGAAACATAAAAGTCATAAAAAA
651 AAATTAGTCCCTGGGCTAGCTAGATTAAGCTACAACGATCCTGGAAACATAAAAGTCATAAAAAA
43129243 CAGGACTAAAATACATACCATACACCTAG
716 CAGGACTAAAATACATACCATACACCTAG
43129272 CGGTAACCCTAATTACATGTCATTTGTATCCTACAAATTCCTAAGGTTCAAACGGGACTCGATAC
1 CGGTAACCCTAATTACATGTCATTTGTATCCTACAAATTCCTAAGGTTCAAACGGGACTCGATAC
43129337 TCAACATATGTCATCGGATATACGATCGGTATTTATACATGGCAATTATATAAACCACACACATA
66 TCAACATATGTCATCGGATATACGATCGGTATTTATACATGGCAATTATATAAACCACACACATA
43129402 TAATTCAATTAAAACATATAAATACTCAATTTAAATACACGAACTTACCTCACTGAGTAAACGTA
131 TAATTCAATTAAAACATATAAATACTCAATTTAAATACACGAACTTACCTCACTGAGTAAACGTA
43129467 GATACAAAGGCGATTAATCCTATACTTTCTCATTGCCCCGATCTAACTCCGTACGAGTCTAACCG
196 GATACAAAGGCGATTAATCCTATACTTTCTCATTGCCCCGATCTAACTCCGTACGAGTCTAACCG
43129532 AATCTATACGAATACATTTAACTAAATTTAATAGATTGCTCATTCAAATTAGTCCAACACATATT
261 AATCTATACGAATACATTTAACTAAATTTAATAGATTGCTCATTCAAATTAGTCCAACACATATT
43129597 TTTGGCAAAAATACCATTTTGCCCCTATACTTTTAATTTCTTTACAAATAAGTCCCTAGGCTCAA
326 TTTGGCAAAAATACCATTTTGCCCCTATACTTTTAATTTCTTTACAAATAAGTCCCTAGGCTCAA
43129662 AATGAAATTCATGCAATTTAACCCTTACCCAAGCCTAGCTAATTTTTATACATATTAGTAGTAGT
391 AATGAAATTCATGCAATTTAACCCTTACCCAAGCCTAGCTAATTTTTATACATATTAGTAGTAGT
43129727 CCATATATTTTATAAATCCACAATTTTACCACACAATATTATCTATTTTTCAATTTAGCCCCTAA
456 CCATATATTTTATAAATCCACAATTTTACCACACAATATTATCTATTTTTCAATTTAGCCCCTAA
43129792 TTGATAATTTCACCAAAAATTTCTTTACAAAAGTTGTTTACCTAACAAAAACCATTTATTTTCTA
521 TTGATAATTTCACCAAAAATTTCTTTACAAAAGTTGTTTACCTAACAAAAACCATTTATTTTCTA
43129857 TCACCAAACTTCAAAACTCATATATATTCACCAATAGTAAAACCCTAATAGTTTAACAGTTTCAC
586 TCACCAAACTTCAAAACTCATATATATTCACCAATAGTAAAACCCTAATAGTTTAACAGTTTCAC
43129922 AAATTAGTCCCTGGGCTAGCTAGATTAAGCTACAACGATCCTGGAAACATAAAAGTCATAAAAAA
651 AAATTAGTCCCTGGGCTAGCTAGATTAAGCTACAACGATCCTGGAAACATAAAAGTCATAAAAAA
43129987 CAGGACTAAAATACATACCATACACCTAG
716 CAGGACTAAAATACATACCATACACCTAG
43130016 AAAAATACTA
Statistics
Matches: 744, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
744 744 1.00
ACGTcount: A:0.38, C:0.22, G:0.09, T:0.32
Consensus pattern (744 bp):
CGGTAACCCTAATTACATGTCATTTGTATCCTACAAATTCCTAAGGTTCAAACGGGACTCGATAC
TCAACATATGTCATCGGATATACGATCGGTATTTATACATGGCAATTATATAAACCACACACATA
TAATTCAATTAAAACATATAAATACTCAATTTAAATACACGAACTTACCTCACTGAGTAAACGTA
GATACAAAGGCGATTAATCCTATACTTTCTCATTGCCCCGATCTAACTCCGTACGAGTCTAACCG
AATCTATACGAATACATTTAACTAAATTTAATAGATTGCTCATTCAAATTAGTCCAACACATATT
TTTGGCAAAAATACCATTTTGCCCCTATACTTTTAATTTCTTTACAAATAAGTCCCTAGGCTCAA
AATGAAATTCATGCAATTTAACCCTTACCCAAGCCTAGCTAATTTTTATACATATTAGTAGTAGT
CCATATATTTTATAAATCCACAATTTTACCACACAATATTATCTATTTTTCAATTTAGCCCCTAA
TTGATAATTTCACCAAAAATTTCTTTACAAAAGTTGTTTACCTAACAAAAACCATTTATTTTCTA
TCACCAAACTTCAAAACTCATATATATTCACCAATAGTAAAACCCTAATAGTTTAACAGTTTCAC
AAATTAGTCCCTGGGCTAGCTAGATTAAGCTACAACGATCCTGGAAACATAAAAGTCATAAAAAA
CAGGACTAAAATACATACCATACACCTAG
Found at i:43133420 original size:17 final size:17
Alignment explanation
Indices: 43133398--43133456 Score: 54
Period size: 17 Copynumber: 3.6 Consensus size: 17
43133388 GTTTACATGC
43133398 AAATGTGTAAAAT-TGAG
1 AAATGTG-AAAATATGAG
43133415 AAATGTGAAAATATGAG
1 AAATGTGAAAATATGAG
* **
43133432 -CA--TGACTATATGAG
1 AAATGTGAAAATATGAG
43133446 AAATGTGAAAA
1 AAATGTGAAAA
43133457 GGTGATTATA
Statistics
Matches: 32, Mismatches: 6, Indels: 8
0.70 0.13 0.17
Matches are distributed among these distances:
14 10 0.31
15 1 0.03
16 6 0.19
17 15 0.47
ACGTcount: A:0.49, C:0.03, G:0.22, T:0.25
Consensus pattern (17 bp):
AAATGTGAAAATATGAG
Found at i:43133818 original size:40 final size:40
Alignment explanation
Indices: 43133763--43133842 Score: 160
Period size: 40 Copynumber: 2.0 Consensus size: 40
43133753 TCATGTATAT
43133763 GTGTTAACGATGATATGATATTTCTTTGAAAATGGTTTAC
1 GTGTTAACGATGATATGATATTTCTTTGAAAATGGTTTAC
43133803 GTGTTAACGATGATATGATATTTCTTTGAAAATGGTTTAC
1 GTGTTAACGATGATATGATATTTCTTTGAAAATGGTTTAC
43133843 ATATACGGAA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.30, C:0.07, G:0.20, T:0.42
Consensus pattern (40 bp):
GTGTTAACGATGATATGATATTTCTTTGAAAATGGTTTAC
Found at i:43134923 original size:15 final size:15
Alignment explanation
Indices: 43134903--43134936 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
43134893 TTTAACTATG
43134903 ATTTTCAACAAGCAC
1 ATTTTCAACAAGCAC
*
43134918 ATTTTCAATAAGCAC
1 ATTTTCAACAAGCAC
43134933 ATTT
1 ATTT
43134937 GAAAATGTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.38, C:0.21, G:0.06, T:0.35
Consensus pattern (15 bp):
ATTTTCAACAAGCAC
Found at i:43135668 original size:25 final size:25
Alignment explanation
Indices: 43135640--43135692 Score: 72
Period size: 25 Copynumber: 2.1 Consensus size: 25
43135630 TGTGTTTTTG
43135640 TGCGAACTCATG-GTTTACATTGTTA
1 TGCGAACTCATGTG-TTACATTGTTA
* *
43135665 TGCGAAGTCATGTGTTACTTTGTTA
1 TGCGAACTCATGTGTTACATTGTTA
43135690 TGC
1 TGC
43135693 TAAACTTTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 24 0.96
26 1 0.04
ACGTcount: A:0.21, C:0.15, G:0.23, T:0.42
Consensus pattern (25 bp):
TGCGAACTCATGTGTTACATTGTTA
Found at i:43139825 original size:108 final size:108
Alignment explanation
Indices: 43139636--43139857 Score: 349
Period size: 108 Copynumber: 2.1 Consensus size: 108
43139626 AATGTGAAGC
* *
43139636 TGACTCAATAGCACCAGTTCTATCCCTATATGCTCTCAACGGGTCCAAAACTCACAATACAATGA
1 TGACTCAATAGCACCAGTTCTATCCCTACATGCTCTCAACGGGCCCAAAACTCACAATACAATGA
* *
43139701 TGTTGTCAGCTAGAATTGGTCATCTTGAAGCTATTATTCAGGT
66 CGTTGTCAACTAGAATTGGTCATCTTGAAGCTATTATTCAGGT
* *
43139744 TGACTCAATAGCACCAGTTCTGTCCCTACATGCTCTCAATGGGCCCCAAAA-TCACAATACAATG
1 TGACTCAATAGCACCAGTTCTATCCCTACATGCTCTCAACGGG-CCCAAAACTCACAATACAATG
*
43139808 -CGATTGTCAACTAGAATTGGTCATCTTGAAGCTATTATTCTGGT
65 ACG-TTGTCAACTAGAATTGGTCATCTTGAAGCTATTATTCAGGT
43139852 TGACTC
1 TGACTC
43139858 TAGTAGTACC
Statistics
Matches: 105, Mismatches: 7, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
107 1 0.01
108 98 0.93
109 6 0.06
ACGTcount: A:0.29, C:0.24, G:0.17, T:0.30
Consensus pattern (108 bp):
TGACTCAATAGCACCAGTTCTATCCCTACATGCTCTCAACGGGCCCAAAACTCACAATACAATGA
CGTTGTCAACTAGAATTGGTCATCTTGAAGCTATTATTCAGGT
Found at i:43142727 original size:36 final size:36
Alignment explanation
Indices: 43142630--43142748 Score: 118
Period size: 36 Copynumber: 3.3 Consensus size: 36
43142620 TACTCTCTGT
* *
43142630 TTTGGTGTGTTTCGGTTGGATTAGCT-CTTTGGAGCCA
1 TTTGGTGTGTTTCGGATGGATTAGCTCCTAT-GAG-CA
** * *
43142667 -TTGGTGCATTCCAGAT-GATTAGCTCCTATGAGCA
1 TTTGGTGTGTTTCGGATGGATTAGCTCCTATGAGCA
* *
43142701 TTTGGTGTGTTTCGGATGGACTAGCTCTTATGAGCA
1 TTTGGTGTGTTTCGGATGGATTAGCTCCTATGAGCA
*
43142737 TCTGGTGTGTTT
1 TTTGGTGTGTTT
43142749 TGGTGGGATT
Statistics
Matches: 66, Mismatches: 13, Indels: 7
0.77 0.15 0.08
Matches are distributed among these distances:
34 2 0.03
35 23 0.35
36 41 0.62
ACGTcount: A:0.15, C:0.15, G:0.29, T:0.40
Consensus pattern (36 bp):
TTTGGTGTGTTTCGGATGGATTAGCTCCTATGAGCA
Found at i:43143693 original size:54 final size:54
Alignment explanation
Indices: 43143621--43143791 Score: 202
Period size: 54 Copynumber: 3.2 Consensus size: 54
43143611 GCAAGTTAGG
* * * *
43143621 TAGCACATGGCCTAGCACATGGGCATGTGAAGCTATTTCTAGAGTTATATGGCC
1 TAGCACACGGCCTAGCACATGGGCATGTGAAGCTATTTCGAGAGTTACACGGCC
43143675 TAGCACACGGCC-AGGCACATGGGCATGTGAAGCTATTTCGAGAGTTACACGGCC
1 TAGCACACGGCCTA-GCACATGGGCATGTGAAGCTATTTCGAGAGTTACACGGCC
*** * ** *
43143729 TAGCACACGGCCT-GCCACACAAGCGTGTGGGGCTATTACGAGAGTTACACGGCC
1 TAGCACACGGCCTAG-CACATGGGCATGTGAAGCTATTTCGAGAGTTACACGGCC
*
43143783 TAACACACG
1 TAGCACACG
43143792 AGCGTGTGAC
Statistics
Matches: 102, Mismatches: 12, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
53 2 0.02
54 100 0.98
ACGTcount: A:0.26, C:0.26, G:0.27, T:0.20
Consensus pattern (54 bp):
TAGCACACGGCCTAGCACATGGGCATGTGAAGCTATTTCGAGAGTTACACGGCC
Found at i:43145931 original size:41 final size:41
Alignment explanation
Indices: 43145874--43145983 Score: 168
Period size: 41 Copynumber: 2.7 Consensus size: 41
43145864 CCGAAAATGT
*
43145874 CGCAAAAGGTAAGGCAATAGC-GCCATTTTTCCCATAAACGC
1 CGCAAAAGGTTAGGCAATAGCAG-CATTTTTCCCATAAACGC
** *
43145915 CGCAAAAGGTTAGGCAATAGCAGTGTTTTTTCCATAAACGC
1 CGCAAAAGGTTAGGCAATAGCAGCATTTTTCCCATAAACGC
43145956 CGCAAAAGGTTAGGCAATAGCAGCATTT
1 CGCAAAAGGTTAGGCAATAGCAGCATTT
43145984 GTTACATAAA
Statistics
Matches: 62, Mismatches: 6, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
41 61 0.98
42 1 0.02
ACGTcount: A:0.34, C:0.22, G:0.22, T:0.23
Consensus pattern (41 bp):
CGCAAAAGGTTAGGCAATAGCAGCATTTTTCCCATAAACGC
Found at i:43147676 original size:15 final size:15
Alignment explanation
Indices: 43147656--43147686 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
43147646 AATAAATCAT
43147656 CTCTTTTTCCAAGCC
1 CTCTTTTTCCAAGCC
43147671 CTCTTTTTCCAAGCC
1 CTCTTTTTCCAAGCC
43147686 C
1 C
43147687 AAGTTTTGCA
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:0.13, C:0.42, G:0.06, T:0.39
Consensus pattern (15 bp):
CTCTTTTTCCAAGCC
Found at i:43147935 original size:21 final size:23
Alignment explanation
Indices: 43147883--43147935 Score: 56
Period size: 24 Copynumber: 2.3 Consensus size: 23
43147873 TAATATAAAA
* *
43147883 TTTAAATTTATTATTATATATTT
1 TTTAAATATATTATGATATATTT
43147906 TTTGAAA-ATATTTATGATATA-TT
1 TTT-AAATATA-TTATGATATATTT
43147929 TTTAAAT
1 TTTAAAT
43147936 TTATATATTA
Statistics
Matches: 25, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
22 3 0.12
23 10 0.40
24 12 0.48
ACGTcount: A:0.38, C:0.00, G:0.04, T:0.58
Consensus pattern (23 bp):
TTTAAATATATTATGATATATTT
Found at i:43151506 original size:3 final size:3
Alignment explanation
Indices: 43151498--43151542 Score: 63
Period size: 3 Copynumber: 15.0 Consensus size: 3
43151488 CGCAGCAACT
* * *
43151498 GCA GCA GCA GCA ACA ACA CCA GCA GCA GCA GCA GCA GCA GCA GCA
1 GCA GCA GCA GCA GCA GCA GCA GCA GCA GCA GCA GCA GCA GCA GCA
43151543 AAGGCAAAAA
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.38, C:0.36, G:0.27, T:0.00
Consensus pattern (3 bp):
GCA
Found at i:43151509 original size:15 final size:15
Alignment explanation
Indices: 43151489--43151539 Score: 66
Period size: 15 Copynumber: 3.4 Consensus size: 15
43151479 AGCAACAAAC
*
43151489 GCAGCAACTGCAGCA
1 GCAGCAACAGCAGCA
* *
43151504 GCAGCAACAACACCA
1 GCAGCAACAGCAGCA
*
43151519 GCAGCAGCAGCAGCA
1 GCAGCAACAGCAGCA
43151534 GCAGCA
1 GCAGCA
43151540 GCAAAGGCAA
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 30 1.00
ACGTcount: A:0.37, C:0.35, G:0.25, T:0.02
Consensus pattern (15 bp):
GCAGCAACAGCAGCA
Done.