Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr12
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: 101062743
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 4026412 characters in sequence are not A, C, G, or T
File 201 of 297
Found at i:68267532 original size:43 final size:42
Alignment explanation
Indices: 68267484--68267618 Score: 107
Period size: 43 Copynumber: 3.2 Consensus size: 42
68267474 TTGGACGTGA
* *
68267484 TCTTACATATAACTCAATATCGATGCCTCTGTCCCAGACAGGG
1 TCTTACATA-AACTCAATATCGATGCCTATGTCCCAGACACGG
* * * *
68267527 TCTTACACGAAA-TCAAATAT-GATGCCGATGTCCCAGAAATGG
1 TCTTACA-TAAACTC-AATATCGATGCCTATGTCCCAGACACGG
* * *
68267569 TCTTATACGTAAATCTC-A-ATCGAGGCCTGTGTCCCAGACACGG
1 TC-T-TACATAAA-CTCAATATCGATGCCTATGTCCCAGACACGG
68267612 TCTTACA
1 TCTTACA
68267619 CGATTCTCAG
Statistics
Matches: 72, Mismatches: 13, Indels: 16
0.71 0.13 0.16
Matches are distributed among these distances:
41 3 0.04
42 25 0.35
43 38 0.53
44 4 0.06
45 2 0.03
ACGTcount: A:0.30, C:0.26, G:0.18, T:0.27
Consensus pattern (42 bp):
TCTTACATAAACTCAATATCGATGCCTATGTCCCAGACACGG
Found at i:68267560 original size:42 final size:42
Alignment explanation
Indices: 68267499--68267621 Score: 115
Period size: 43 Copynumber: 2.9 Consensus size: 42
68267489 CATATAACTC
* *
68267499 AATATCGATGCCTCTGTCCCAGACAGGGTCTTACACGAAATC-A
1 AATAT-GATGCC-GTGTCCCAGACACGGTCTTACACGAAATCTA
* * * *
68267542 AATATGATGCCGATGTCCCAGAAATGGTCTTATACGTAAATCTC
1 AATATGATGCCG-TGTCCCAGACACGGTCTTACACG-AAATCTA
* *
68267586 AAT-CGAGGCCTGTGTCCCAGACACGGTCTTACACGA
1 AATATGATGCC-GTGTCCCAGACACGGTCTTACACGA
68267622 TTCTCAGACA
Statistics
Matches: 66, Mismatches: 10, Indels: 9
0.78 0.12 0.11
Matches are distributed among these distances:
42 27 0.41
43 35 0.53
44 4 0.06
ACGTcount: A:0.29, C:0.26, G:0.20, T:0.24
Consensus pattern (42 bp):
AATATGATGCCGTGTCCCAGACACGGTCTTACACGAAATCTA
Found at i:68267834 original size:8 final size:8
Alignment explanation
Indices: 68267821--68267845 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
68267811 ACGGAACGAG
68267821 TCGACTAT
1 TCGACTAT
68267829 TCGACTAT
1 TCGACTAT
68267837 TCGACTAT
1 TCGACTAT
68267845 T
1 T
68267846 TTAGACTTTC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.24, C:0.24, G:0.12, T:0.40
Consensus pattern (8 bp):
TCGACTAT
Found at i:68272150 original size:42 final size:42
Alignment explanation
Indices: 68272092--68272219 Score: 150
Period size: 42 Copynumber: 3.0 Consensus size: 42
68272082 TAGGGTTATT
* *
68272092 GAGATTATGTGTAAGACCATATCTGGGATATGGCATTGATAT
1 GAGATTACGTGTAAGACCATATCTGGGATATGGCATTGATAC
* *
68272134 GAGACTT-CGTGTAAGACCATAGCTGGGTTATTGGCATTGATAC
1 GAGA-TTACGTGTAAGACCATATCTGGGATA-TGGCATTGATAC
* * * * *
68272177 GAGATTACATGTAAGACCATATTTGAGATATAGCATTGGTAC
1 GAGATTACGTGTAAGACCATATCTGGGATATGGCATTGATAC
68272219 G
1 G
68272220 GTACTGTGTG
Statistics
Matches: 72, Mismatches: 11, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
42 37 0.51
43 35 0.49
ACGTcount: A:0.30, C:0.12, G:0.26, T:0.31
Consensus pattern (42 bp):
GAGATTACGTGTAAGACCATATCTGGGATATGGCATTGATAC
Found at i:68272190 original size:43 final size:42
Alignment explanation
Indices: 68272092--68272197 Score: 142
Period size: 43 Copynumber: 2.5 Consensus size: 42
68272082 TAGGGTTATT
* * *
68272092 GAGATTATGTGTAAGACCATATCTGGGATATGGCATTGATAT
1 GAGATTACGTGTAAGACCATAGCTGGGATATGGCATTGATAC
*
68272134 GAGACTT-CGTGTAAGACCATAGCTGGGTTATTGGCATTGATAC
1 GAGA-TTACGTGTAAGACCATAGCTGGGATA-TGGCATTGATAC
*
68272177 GAGATTACATGTAAGACCATA
1 GAGATTACGTGTAAGACCATA
68272198 TTTGAGATAT
Statistics
Matches: 56, Mismatches: 5, Indels: 5
0.85 0.08 0.08
Matches are distributed among these distances:
42 26 0.46
43 30 0.54
ACGTcount: A:0.31, C:0.13, G:0.25, T:0.30
Consensus pattern (42 bp):
GAGATTACGTGTAAGACCATAGCTGGGATATGGCATTGATAC
Found at i:68274191 original size:17 final size:19
Alignment explanation
Indices: 68274145--68274191 Score: 50
Period size: 17 Copynumber: 2.7 Consensus size: 19
68274135 CGTTAAAGGT
68274145 CGAT-AAATGA-AAGTGCC
1 CGATCAAATGATAAGTGCC
*
68274162 CGATC-AATTATAA-TGCC
1 CGATCAAATGATAAGTGCC
68274179 CGA-CAAATGATAA
1 CGATCAAATGATAA
68274192 ACGATAAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
16 1 0.04
17 22 0.88
18 2 0.08
ACGTcount: A:0.43, C:0.19, G:0.17, T:0.21
Consensus pattern (19 bp):
CGATCAAATGATAAGTGCC
Found at i:68276038 original size:20 final size:20
Alignment explanation
Indices: 68276013--68276050 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
68276003 CTGCACCTTG
68276013 GAAAAATTTTAAAAAGTCAT
1 GAAAAATTTTAAAAAGTCAT
*
68276033 GAAAAATTTTCAAAAGTC
1 GAAAAATTTTAAAAAGTC
68276051 TCGATTAAGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.53, C:0.08, G:0.11, T:0.29
Consensus pattern (20 bp):
GAAAAATTTTAAAAAGTCAT
Found at i:68286766 original size:22 final size:22
Alignment explanation
Indices: 68286719--68286768 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 22
68286709 CTCTAAGGAC
* *
68286719 TATGCGGTCTGAGCTAATGAGT
1 TATGTGGTCTAAGCTAATGAGT
*
68286741 TATGTGGTCTAAGCTCATGA-T
1 TATGTGGTCTAAGCTAATGAGT
68286762 ATATGTG
1 -TATGTG
68286769 ACACATGTTA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
21 1 0.04
22 23 0.96
ACGTcount: A:0.24, C:0.12, G:0.28, T:0.36
Consensus pattern (22 bp):
TATGTGGTCTAAGCTAATGAGT
Found at i:68295156 original size:53 final size:53
Alignment explanation
Indices: 68295076--68295181 Score: 203
Period size: 53 Copynumber: 2.0 Consensus size: 53
68295066 AACCTGAGTC
68295076 AGGTAAAGAATTTGTTGTTTACAACGATGCTTCGTTGAATGGACTCGGTTGTG
1 AGGTAAAGAATTTGTTGTTTACAACGATGCTTCGTTGAATGGACTCGGTTGTG
*
68295129 AGGTAAAGATTTTGTTGTTTACAACGATGCTTCGTTGAATGGACTCGGTTGTG
1 AGGTAAAGAATTTGTTGTTTACAACGATGCTTCGTTGAATGGACTCGGTTGTG
68295182 TTTTAATGCA
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
53 52 1.00
ACGTcount: A:0.24, C:0.11, G:0.28, T:0.37
Consensus pattern (53 bp):
AGGTAAAGAATTTGTTGTTTACAACGATGCTTCGTTGAATGGACTCGGTTGTG
Found at i:68295611 original size:23 final size:23
Alignment explanation
Indices: 68295585--68295632 Score: 87
Period size: 23 Copynumber: 2.1 Consensus size: 23
68295575 TAGAAGTATG
*
68295585 ACAATGAATTGATAGCAAAGTGA
1 ACAATGAATTGATAGCAAAGCGA
68295608 ACAATGAATTGATAGCAAAGCGA
1 ACAATGAATTGATAGCAAAGCGA
68295631 AC
1 AC
68295633 TATGTGTGAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.48, C:0.12, G:0.21, T:0.19
Consensus pattern (23 bp):
ACAATGAATTGATAGCAAAGCGA
Found at i:68297679 original size:27 final size:29
Alignment explanation
Indices: 68297640--68297695 Score: 71
Period size: 29 Copynumber: 2.0 Consensus size: 29
68297630 GTTTTTGATG
*
68297640 AAATCGAGCTTTT-TGGACTAAATTGTGC
1 AAATCGAGCTTTTAAGGACTAAATTGTGC
*
68297668 AAAT-GAGGTTTTGAAGGACTAAATTGTG
1 AAATCGAGCTTTT-AAGGACTAAATTGTG
68297696 AATTAAACAT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
27 7 0.29
28 4 0.17
29 13 0.54
ACGTcount: A:0.32, C:0.09, G:0.25, T:0.34
Consensus pattern (29 bp):
AAATCGAGCTTTTAAGGACTAAATTGTGC
Found at i:68299195 original size:104 final size:105
Alignment explanation
Indices: 68299009--68299217 Score: 296
Period size: 104 Copynumber: 2.0 Consensus size: 105
68298999 GGATTGGACC
* *
68299009 CAAAAAAAAAGTGGCAAATTTGGCTTAAACCAAGTCTGCTCGGTACCATACAGTCAGGGAACACA
1 CAAAAAAAAAGTGGCAAATTTGGCTTAAACCAAGCCTGCTCGGTACCACACAGTCAGGGAACACA
* *
68299074 GGTGTGCCTTGTAGCCGTGTAAGAAAAGCAGTATTCTCCT
66 GGCGTGCCTTGTAGCCGTGTAAGAAAAACAGTATTCTCCT
* * ** *
68299114 CAAAAAAAAAG-GGCAAATTTGGCTTAAACCAAGCCTGCTTGGTTCCACATGGTCAGAGG-ACAT
1 CAAAAAAAAAGTGGCAAATTTGGCTTAAACCAAGCCTGCTCGGTACCACACAGTCAG-GGAACAC
* *
68299177 GGGCGTGCCTTGTGGCCGTGTAAGAAAAACAGTATTCTCCT
65 AGGCGTGCCTTGTAGCCGTGTAAGAAAAACAGTATTCTCCT
68299218 AAGAACCACA
Statistics
Matches: 92, Mismatches: 11, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
104 79 0.86
105 13 0.14
ACGTcount: A:0.32, C:0.21, G:0.24, T:0.23
Consensus pattern (105 bp):
CAAAAAAAAAGTGGCAAATTTGGCTTAAACCAAGCCTGCTCGGTACCACACAGTCAGGGAACACA
GGCGTGCCTTGTAGCCGTGTAAGAAAAACAGTATTCTCCT
Found at i:68309187 original size:46 final size:46
Alignment explanation
Indices: 68309134--68309260 Score: 166
Period size: 46 Copynumber: 2.8 Consensus size: 46
68309124 TTTGGGCATT
* * *
68309134 CGAGCTCGTTGAGTCGAGTCCGAGTTCACTTATGGATGAGAATGTC
1 CGAGCTCGTTGAGTCGAGTACGAGTTCACTTATGGATGAGAAAGCC
* * *
68309180 CGAGCTCGTTGAGTTGAGTACAAGTTCACTTATGGATGCGAAAGCC
1 CGAGCTCGTTGAGTCGAGTACGAGTTCACTTATGGATGAGAAAGCC
* *
68309226 CGAGCTCGTTGAG-CTGAGTTCGAGTTCGCTTATGG
1 CGAGCTCGTTGAGTC-GAGTACGAGTTCACTTATGG
68309261 GTGGGTTACA
Statistics
Matches: 70, Mismatches: 10, Indels: 2
0.85 0.12 0.02
Matches are distributed among these distances:
46 70 1.00
ACGTcount: A:0.21, C:0.20, G:0.31, T:0.28
Consensus pattern (46 bp):
CGAGCTCGTTGAGTCGAGTACGAGTTCACTTATGGATGAGAAAGCC
Found at i:68317356 original size:40 final size:40
Alignment explanation
Indices: 68317294--68317469 Score: 241
Period size: 40 Copynumber: 4.4 Consensus size: 40
68317284 AAACCAAGTA
* * *
68317294 CCTTCGGGATTTA-ACCGGATATAGCT-ACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
**
68317333 CCTTCGGGACTTAGCCCGGATATAGTAGTTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
68317373 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
68317413 CCTTCGGGACTTAGCCCGGA-ATTAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
*
68317453 CCTTTGGGACTTAGCCC
1 CCTTCGGGACTTAGCCC
68317470 CGTTATCATC
Statistics
Matches: 124, Mismatches: 10, Indels: 5
0.89 0.07 0.04
Matches are distributed among these distances:
39 14 0.11
40 110 0.89
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:68324569 original size:40 final size:40
Alignment explanation
Indices: 68324525--68325283 Score: 1170
Period size: 40 Copynumber: 19.0 Consensus size: 40
68324515 GCTACTTTCC
*
68324525 CAAATGCCTTCGGGACTTAGCTCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
**
68324565 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCATA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
68324605 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
* *
68324645 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCACA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
* * *
68324685 CAAATGCCTTCGGG-CTTAGCCCGG-AATTAGTCACTAGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTA-TAGTAACTCGCA
*
68324724 CAAATGCCTTCGGGACTTAGCCCGGTTATCA-T--C-CGAATA
1 CAAATGCCTTCGGGACTTAGCCCGGTTAT-AGTAACTCG--CA
* *
68324763 TCCATTGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
1 -CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
* *
68324804 CAAATGCCTTCGAGACTTAGCCCGGTTATAGTAACTCACA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
*
68324844 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
* *
68324884 CAAATGCCTTCGAGACTTAGCCCGGTTATAGTAACTCACA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
*
68324924 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
* *
68324964 CAAATGCCTTCGAGACTTAGCCCGGTTATAGTAACTCACA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
*
68325004 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
* *
68325044 CAAATGCCTTCGAGACTTAGCCCGGTTATAGTAACTCACA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
*
68325084 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
* *
68325124 CAAATGCCTTCGAGACTTAGCCCGGTTATAGTAACTCACA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
*
68325164 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
* *
68325204 CAAATGCCTTCGAGACTTAGCCCGGTTATAGTAACTCACA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
*
68325244 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
68325284 NNNNNNNNNN
Statistics
Matches: 654, Mismatches: 54, Indels: 22
0.90 0.07 0.03
Matches are distributed among these distances:
37 1 0.00
38 2 0.00
39 35 0.05
40 610 0.93
41 3 0.00
42 1 0.00
43 2 0.00
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
Found at i:68324624 original size:80 final size:80
Alignment explanation
Indices: 68324525--68325283 Score: 1310
Period size: 80 Copynumber: 9.5 Consensus size: 80
68324515 GCTACTTTCC
* * *
68324525 CAAATGCCTTCGGGACTTAGCTCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGAGACTTAGCCCGG
*
68324590 TTATAGTAACTCATA
66 TTATAGTAACTCACA
* *
68324605 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGAGACTTAGCCCGG
*
68324670 ATATAGTAACTCACA
66 TTATAGTAACTCACA
* * *
68324685 CAAATGCCTTCGGG-CTTAGCCCGGA-ATTAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATGCCTTCGAGACTTAGCCCG
* ** *
68324748 GTTATCA-T-CCGAATA
65 GTTAT-AGTAACTCACA
* * *
68324763 TCCATTGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGAGACTTAGCCCG
1 -CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGAGACTTAGCCCG
68324828 GTTATAGTAACTCACA
65 GTTATAGTAACTCACA
68324844 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGAGACTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGAGACTTAGCCCGG
68324909 TTATAGTAACTCACA
66 TTATAGTAACTCACA
68324924 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGAGACTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGAGACTTAGCCCGG
68324989 TTATAGTAACTCACA
66 TTATAGTAACTCACA
68325004 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGAGACTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGAGACTTAGCCCGG
68325069 TTATAGTAACTCACA
66 TTATAGTAACTCACA
68325084 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGAGACTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGAGACTTAGCCCGG
68325149 TTATAGTAACTCACA
66 TTATAGTAACTCACA
68325164 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGAGACTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGAGACTTAGCCCGG
68325229 TTATAGTAACTCACA
66 TTATAGTAACTCACA
68325244 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
68325284 NNNNNNNNNN
Statistics
Matches: 648, Mismatches: 24, Indels: 14
0.94 0.03 0.02
Matches are distributed among these distances:
78 4 0.01
79 62 0.10
80 578 0.89
81 4 0.01
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.25
Consensus pattern (80 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGAGACTTAGCCCGG
TTATAGTAACTCACA
Found at i:68329385 original size:45 final size:46
Alignment explanation
Indices: 68329327--68329414 Score: 117
Period size: 45 Copynumber: 1.9 Consensus size: 46
68329317 CCCTAATAAT
**
68329327 AACTCTTCAGAGTTACCTGTTAAG-CTTAATAAGCTTCCTGATTAA
1 AACTCTTCAGAGTTACCTGTTAAGTCCGAATAAGCTTCCTGATTAA
* *
68329372 AACTCTT-ATGAGTTTCCTGTTTAGTCCGAATAAGCTTCCTGAT
1 AACTCTTCA-GAGTTACCTGTTAAGTCCGAATAAGCTTCCTGAT
68329415 ACATGGTTCA
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
44 1 0.03
45 20 0.54
46 16 0.43
ACGTcount: A:0.27, C:0.20, G:0.15, T:0.38
Consensus pattern (46 bp):
AACTCTTCAGAGTTACCTGTTAAGTCCGAATAAGCTTCCTGATTAA
Found at i:68338581 original size:37 final size:36
Alignment explanation
Indices: 68338532--68338603 Score: 126
Period size: 37 Copynumber: 2.0 Consensus size: 36
68338522 ACGTACCTTC
68338532 GGAATTTAACCGGATATAGCTACTCGTTCAAATGCT
1 GGAATTTAACCGGATATAGCTACTCGTTCAAATGCT
*
68338568 GGAATTTTAACCGGATATAGCTACTCTTTCAAATGC
1 GGAA-TTTAACCGGATATAGCTACTCGTTCAAATGC
68338604 CTTCAGGACA
Statistics
Matches: 34, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
36 4 0.12
37 30 0.88
ACGTcount: A:0.31, C:0.19, G:0.18, T:0.32
Consensus pattern (36 bp):
GGAATTTAACCGGATATAGCTACTCGTTCAAATGCT
Found at i:68338641 original size:40 final size:38
Alignment explanation
Indices: 68338597--68338779 Score: 145
Period size: 40 Copynumber: 4.6 Consensus size: 38
68338587 GCTACTCTTT
*
68338597 CAAATGCCTTCAGGACATAGCCCAGTTATAGTAACTCGCA
1 CAAATGCCTTC-GGACTTAGCCC-GTTATAGTAACTCGCA
*
68338637 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
1 CAAATGCCTTC-GGACTTAGCCC-G-TTATAGTAACTCGCA
* * ** *
68338677 CCAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGACTTAGCCCGTTA-TAGTAACTCGCA
* * * * **
68338716 CAAATGCCTTCGGATCTTAGTCCGGATATGGTCACTTAACA
1 CAAATGCCTTCGGA-CTTAG-CCCGTTATAGTAAC-TCGCA
68338757 CAAA-GCCTTCGGGACTTAGCCCG
1 CAAATGCCTTC-GGACTTAGCCCG
68338780 GACATCATTC
Statistics
Matches: 115, Mismatches: 21, Indels: 15
0.76 0.14 0.10
Matches are distributed among these distances:
38 1 0.01
39 35 0.30
40 63 0.55
41 16 0.14
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (38 bp):
CAAATGCCTTCGGACTTAGCCCGTTATAGTAACTCGCA
Found at i:68338714 original size:39 final size:40
Alignment explanation
Indices: 68338625--68338728 Score: 165
Period size: 39 Copynumber: 2.6 Consensus size: 40
68338615 AGCCCAGTTA
*
68338625 TAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGATT
1 TAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAAT
* *
68338665 TAGTAACTCGCACCAATGCCTTCGGG-CTTAGCCCGGAAT
1 TAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAAT
*
68338704 TAGTATCTCGCACAAATGCCTTCGG
1 TAGTAACTCGCACAAATGCCTTCGG
68338729 ATCTTAGTCC
Statistics
Matches: 59, Mismatches: 5, Indels: 1
0.91 0.08 0.02
Matches are distributed among these distances:
39 34 0.58
40 25 0.42
ACGTcount: A:0.25, C:0.29, G:0.21, T:0.25
Consensus pattern (40 bp):
TAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAAT
Found at i:68338765 original size:79 final size:80
Alignment explanation
Indices: 68338625--68338781 Score: 194
Period size: 79 Copynumber: 2.0 Consensus size: 80
68338615 AGCCCAGTTA
* ** *
68338625 TAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACCAATGCCTTCGG
1 TAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGATATAGTAACTAACACCAAAGCCTTCGG
68338690 G-CTTAGCCCGGAAT
66 GACTTAGCCCGGAAT
* ** * *
68338704 TAGTATCTCGCACAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAACA-CAAAGCCTTC
1 TAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGGATATAGTAAC-TAACACCAAAGCCTTC
68338767 GGGACTTAGCCCGGA
64 GGGACTTAGCCCGGA
68338782 CATCATTCGA
Statistics
Matches: 66, Mismatches: 9, Indels: 5
0.82 0.11 0.06
Matches are distributed among these distances:
78 3 0.05
79 49 0.74
80 14 0.21
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (80 bp):
TAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGATATAGTAACTAACACCAAAGCCTTCGG
GACTTAGCCCGGAAT
Found at i:68340583 original size:36 final size:36
Alignment explanation
Indices: 68340536--68340607 Score: 117
Period size: 36 Copynumber: 2.0 Consensus size: 36
68340526 AAATAATTTG
* * *
68340536 GTGACTCGGTTTAGGGGTCTCGAAATCGCTTTCCTA
1 GTGACTCGGTTTAGCGGTCCCGAAACCGCTTTCCTA
68340572 GTGACTCGGTTTAGCGGTCCCGAAACCGCTTTCCTA
1 GTGACTCGGTTTAGCGGTCCCGAAACCGCTTTCCTA
68340608 CTAGGGTCGC
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
36 33 1.00
ACGTcount: A:0.17, C:0.26, G:0.26, T:0.31
Consensus pattern (36 bp):
GTGACTCGGTTTAGCGGTCCCGAAACCGCTTTCCTA
Found at i:68348388 original size:28 final size:28
Alignment explanation
Indices: 68348348--68348435 Score: 108
Period size: 28 Copynumber: 3.2 Consensus size: 28
68348338 GACTGTCACA
* *
68348348 GGCCTGACGGGCCATATGAAAGTGATTG
1 GGCCTGATGGGCCATATGAATGTGATTG
*
68348376 GGCCTGATAGGCCATATGAATGT-ATTG
1 GGCCTGATGGGCCATATGAATGTGATTG
* *
68348403 GG-CTCGATGGGCTATATGAATGAGATTG
1 GGCCT-GATGGGCCATATGAATGTGATTG
68348431 GGCCT
1 GGCCT
68348436 AAAGGGGCCA
Statistics
Matches: 51, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
26 2 0.04
27 21 0.41
28 26 0.51
29 2 0.04
ACGTcount: A:0.24, C:0.16, G:0.34, T:0.26
Consensus pattern (28 bp):
GGCCTGATGGGCCATATGAATGTGATTG
Found at i:68349690 original size:17 final size:18
Alignment explanation
Indices: 68349668--68349705 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
68349658 GTTTTTATTT
*
68349668 TAAAAA-AGGGTTTTCAA
1 TAAAAACAGGGCTTTCAA
*
68349685 TAAAAACAGGGCTTTCGA
1 TAAAAACAGGGCTTTCAA
68349703 TAA
1 TAA
68349706 TACACTTCAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 6 0.33
18 12 0.67
ACGTcount: A:0.45, C:0.11, G:0.18, T:0.26
Consensus pattern (18 bp):
TAAAAACAGGGCTTTCAA
Found at i:68363359 original size:27 final size:27
Alignment explanation
Indices: 68363329--68363630 Score: 390
Period size: 27 Copynumber: 11.2 Consensus size: 27
68363319 ATTGCCAAAG
* * *
68363329 TACCCTTGACTTACAGAATTACTGTTT
1 TACCCTCGATTTACAAAATTACTGTTT
**
68363356 TACCCTCGATTTACAAAATTACCATTT
1 TACCCTCGATTTACAAAATTACTGTTT
**
68363383 TACCCTCGATTTACAAAATTACCATTT
1 TACCCTCGATTTACAAAATTACTGTTT
68363410 TACCCTCGATTTACAAAATTACTGTTT
1 TACCCTCGATTTACAAAATTACTGTTT
*
68363437 TACCCTCGATTTACAAAATTACCGTTT
1 TACCCTCGATTTACAAAATTACTGTTT
* * *
68363464 TACCCTCAATTTACAAATTTACTATTT
1 TACCCTCGATTTACAAAATTACTGTTT
* *
68363491 TATCCTCGATTTACAGAATTACTGTTT
1 TACCCTCGATTTACAAAATTACTGTTT
* *
68363518 TACCCTCTATTTACAAAATTACTATTT
1 TACCCTCGATTTACAAAATTACTGTTT
* * *
68363545 TACCATCGATTTATAGAATTACTGTTT
1 TACCCTCGATTTACAAAATTACTGTTT
*
68363572 TACCCTCAATTTACAAAATTA-TCGTTT
1 TACCCTCGATTTACAAAATTACT-GTTT
* **
68363599 TACCCTCGATTTATAAAATTACCATTT
1 TACCCTCGATTTACAAAATTACTGTTT
68363626 TACCC
1 TACCC
68363631 CTAGGGTGTT
Statistics
Matches: 239, Mismatches: 34, Indels: 4
0.86 0.12 0.01
Matches are distributed among these distances:
26 1 0.00
27 238 1.00
ACGTcount: A:0.31, C:0.23, G:0.06, T:0.41
Consensus pattern (27 bp):
TACCCTCGATTTACAAAATTACTGTTT
Found at i:68363424 original size:81 final size:81
Alignment explanation
Indices: 68363329--68363630 Score: 435
Period size: 81 Copynumber: 3.7 Consensus size: 81
68363319 ATTGCCAAAG
* * *
68363329 TACCCTTGACTTACAGAATTACTGTTTTACCCTCGATTTACAAAATTACCATTTTACCCTCGATT
1 TACCCTCGATTTACAAAATTACTGTTTTACCCTCGATTTACAAAATTACCATTTTACCCTCGATT
*
68363394 TACAAAATTACCATTT
66 TACAAAATTACTATTT
* *
68363410 TACCCTCGATTTACAAAATTACTGTTTTACCCTCGATTTACAAAATTACCGTTTTACCCTCAATT
1 TACCCTCGATTTACAAAATTACTGTTTTACCCTCGATTTACAAAATTACCATTTTACCCTCGATT
*
68363475 TACAAATTTACTATTT
66 TACAAAATTACTATTT
* * * * *
68363491 TATCCTCGATTTACAGAATTACTGTTTTACCCTCTATTTACAAAATTACTATTTTACCATCGATT
1 TACCCTCGATTTACAAAATTACTGTTTTACCCTCGATTTACAAAATTACCATTTTACCCTCGATT
* * *
68363556 TATAGAATTACTGTTT
66 TACAAAATTACTATTT
* *
68363572 TACCCTCAATTTACAAAATTA-TCGTTTTACCCTCGATTTATAAAATTACCATTTTACCC
1 TACCCTCGATTTACAAAATTACT-GTTTTACCCTCGATTTACAAAATTACCATTTTACCC
68363631 CTAGGGTGTT
Statistics
Matches: 195, Mismatches: 25, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
80 1 0.01
81 194 0.99
ACGTcount: A:0.31, C:0.23, G:0.06, T:0.41
Consensus pattern (81 bp):
TACCCTCGATTTACAAAATTACTGTTTTACCCTCGATTTACAAAATTACCATTTTACCCTCGATT
TACAAAATTACTATTT
Found at i:68363910 original size:27 final size:26
Alignment explanation
Indices: 68363866--68363917 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
68363856 CTCACTGCAA
*
68363866 TCTGGTGGCCTCGCCACATATATCTGT
1 TCTGGTGACCTCGCCACA-ATATCTGT
* *
68363893 TCTGGTGACTTCGTCACAATATCTG
1 TCTGGTGACCTCGCCACAATATCTG
68363918 GCAGCCTCAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.17, C:0.27, G:0.21, T:0.35
Consensus pattern (26 bp):
TCTGGTGACCTCGCCACAATATCTGT
Found at i:68364195 original size:25 final size:25
Alignment explanation
Indices: 68364136--68364203 Score: 75
Period size: 25 Copynumber: 2.7 Consensus size: 25
68364126 TTGCATGCAC
* *
68364136 ATTCTGATTCTAATTCTGTTACCTG
1 ATTCTGATTCTGATTCTGTTACCTA
*
68364161 ATAT-TGATTCTGATTTTGTTACCTA
1 AT-TCTGATTCTGATTCTGTTACCTA
* *
68364186 ATTCTAATTCTGGTTCTG
1 ATTCTGATTCTGATTCTG
68364204 AGTCTGATTC
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
24 1 0.03
25 33 0.94
26 1 0.03
ACGTcount: A:0.21, C:0.16, G:0.13, T:0.50
Consensus pattern (25 bp):
ATTCTGATTCTGATTCTGTTACCTA
Found at i:68364218 original size:37 final size:37
Alignment explanation
Indices: 68364169--68364240 Score: 99
Period size: 37 Copynumber: 1.9 Consensus size: 37
68364159 TGATATTGAT
* * *
68364169 TCTGATTTTGTTACCTAATTCTAATTCTGGTTCTGAG
1 TCTGATTCTGTTACCTAATACTAATTCTGATTCTGAG
* *
68364206 TCTGATTCTGTTACCTGATACTGATTCTGATTCTG
1 TCTGATTCTGTTACCTAATACTAATTCTGATTCTG
68364241 TTACCTAATT
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
37 30 1.00
ACGTcount: A:0.18, C:0.18, G:0.17, T:0.47
Consensus pattern (37 bp):
TCTGATTCTGTTACCTAATACTAATTCTGATTCTGAG
Found at i:68364234 original size:62 final size:62
Alignment explanation
Indices: 68364137--68364326 Score: 245
Period size: 62 Copynumber: 3.1 Consensus size: 62
68364127 TGCATGCACA
* * * *
68364137 TTCTGATTCTAATTCTGTTACCTGATATTGATTCTGATTTTGTTACCTAATTCTAATTCTGG
1 TTCTGATTCTGATTCTGTTACCTGATACTGATTCTGATTCTGTTACCTAATTCTAATTTTGG
* * * *
68364199 TTCTGAGTCTGATTCTGTTACCTGATACTGATTCTGATTCTGTTACCTAATTTTGATTTTGA
1 TTCTGATTCTGATTCTGTTACCTGATACTGATTCTGATTCTGTTACCTAATTCTAATTTTGG
* * * * * * *
68364261 TTTTGATTTTGATTCTGTCACCTGATTCTGATTCTAATTCTGTTACCTGATACTAATTTTGG
1 TTCTGATTCTGATTCTGTTACCTGATACTGATTCTGATTCTGTTACCTAATTCTAATTTTGG
68364323 TTCT
1 TTCT
68364327 ATTACCTAAT
Statistics
Matches: 108, Mismatches: 20, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
62 108 1.00
ACGTcount: A:0.19, C:0.16, G:0.14, T:0.50
Consensus pattern (62 bp):
TTCTGATTCTGATTCTGTTACCTGATACTGATTCTGATTCTGTTACCTAATTCTAATTTTGG
Found at i:68364262 original size:25 final size:25
Alignment explanation
Indices: 68364201--68364249 Score: 80
Period size: 25 Copynumber: 2.0 Consensus size: 25
68364191 AATTCTGGTT
* *
68364201 CTGAGTCTGATTCTGTTACCTGATA
1 CTGATTCTGATTCTGTTACCTAATA
68364226 CTGATTCTGATTCTGTTACCTAAT
1 CTGATTCTGATTCTGTTACCTAAT
68364250 TTTGATTTTG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.20, C:0.20, G:0.16, T:0.43
Consensus pattern (25 bp):
CTGATTCTGATTCTGTTACCTAATA
Found at i:68364265 original size:12 final size:12
Alignment explanation
Indices: 68364248--68364274 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
68364238 CTGTTACCTA
68364248 ATTTTGATTTTG
1 ATTTTGATTTTG
68364260 ATTTTGATTTTG
1 ATTTTGATTTTG
68364272 ATT
1 ATT
68364275 CTGTCACCTG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.19, C:0.00, G:0.15, T:0.67
Consensus pattern (12 bp):
ATTTTGATTTTG
Found at i:68364286 original size:25 final size:25
Alignment explanation
Indices: 68364258--68364311 Score: 72
Period size: 25 Copynumber: 2.2 Consensus size: 25
68364248 ATTTTGATTT
* * *
68364258 TGATTTTGATTTTGATTCTGTCACC
1 TGATTCTGATTCTAATTCTGTCACC
*
68364283 TGATTCTGATTCTAATTCTGTTACC
1 TGATTCTGATTCTAATTCTGTCACC
68364308 TGAT
1 TGAT
68364312 ACTAATTTTG
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.19, C:0.17, G:0.15, T:0.50
Consensus pattern (25 bp):
TGATTCTGATTCTAATTCTGTCACC
Found at i:68364290 original size:87 final size:87
Alignment explanation
Indices: 68364199--68364411 Score: 273
Period size: 87 Copynumber: 2.4 Consensus size: 87
68364189 CTAATTCTGG
* * * * * * *
68364199 TTCTGAGTCTGATTCTGTTACCTGATACTGATTCTGATTCTGTTACCTAATTTTGATTTTGATTT
1 TTCTGATTCTGATTCTGTTACCTGATACTGATTTTGATTCTATTACCTAATTCTAATTCTGATTC
68364264 TGATTTTGATTCTGTCACCTGA
66 TGATTTTGATTCTGTCACCTGA
* * * *
68364286 TTCTGATTCTAATTCTGTTACCTGATACTAATTTTGGTTCTATTACCTAATTCTAATTCTGGTTC
1 TTCTGATTCTGATTCTGTTACCTGATACTGATTTTGATTCTATTACCTAATTCTAATTCTGATTC
*
68364351 TGATTTTGATTCTGTTACCTGA
66 TGATTTTGATTCTGTCACCTGA
* * * * *
68364373 TACTGATTTTGATTTTGTTACCTAATTCTGATTTTGATT
1 TTCTGATTCTGATTCTGTTACCTGATACTGATTTTGATT
68364412 TTGATTTTGA
Statistics
Matches: 106, Mismatches: 20, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
87 106 1.00
ACGTcount: A:0.20, C:0.15, G:0.14, T:0.51
Consensus pattern (87 bp):
TTCTGATTCTGATTCTGTTACCTGATACTGATTTTGATTCTATTACCTAATTCTAATTCTGATTC
TGATTTTGATTCTGTCACCTGA
Found at i:68364326 original size:25 final size:25
Alignment explanation
Indices: 68364270--68364352 Score: 85
Period size: 25 Copynumber: 3.3 Consensus size: 25
68364260 ATTTTGATTT
* *
68364270 TGATTCTGTCACCTGATTCTGATTC
1 TGATTCTGTTACCTGATTCTAATTC
* * *
68364295 TAATTCTGTTACCTGATACTAATTT
1 TGATTCTGTTACCTGATTCTAATTC
* * *
68364320 TGGTTCTATTACCTAATTCTAATTC
1 TGATTCTGTTACCTGATTCTAATTC
*
68364345 TGGTTCTG
1 TGATTCTG
68364353 ATTTTGATTC
Statistics
Matches: 46, Mismatches: 12, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
25 46 1.00
ACGTcount: A:0.20, C:0.19, G:0.13, T:0.47
Consensus pattern (25 bp):
TGATTCTGTTACCTGATTCTAATTC
Found at i:68364343 original size:149 final size:149
Alignment explanation
Indices: 68364136--68364450 Score: 504
Period size: 149 Copynumber: 2.1 Consensus size: 149
68364126 TTGCATGCAC
* * * *
68364136 ATTCTGATTCTAATTCTGTTACCTGATATTGATTCTGATTTTGTTACCTAATTCTAATTCTGGTT
1 ATTCTGATTCTAATTCTGTTACCTGATACTAATTCTGATTCTATTACCTAATTCTAATTCTGGTT
*
68364201 CTGAGTCTGATTCTGTTACCTGATACTGATTCTGATTCTGTTACCTAATTTTGATTTTGATTTTG
66 CTGAGTCTGATTCTGTTACCTGATACTGATTCTGATTCTGTTACCTAATTCTGATTTTGATTTTG
68364266 ATTTTGATTCTGTCACCTG
131 ATTTTGATTCTGTCACCTG
* *
68364285 ATTCTGATTCTAATTCTGTTACCTGATACTAATTTTGGTTCTATTACCTAATTCTAATTCTGGTT
1 ATTCTGATTCTAATTCTGTTACCTGATACTAATTCTGATTCTATTACCTAATTCTAATTCTGGTT
* * * *
68364350 CTGATTTTGATTCTGTTACCTGATACTGATTTTGATTTTGTTACCTAATTCTGATTTTGATTTTG
66 CTGAGTCTGATTCTGTTACCTGATACTGATTCTGATTCTGTTACCTAATTCTGATTTTGATTTTG
*
68364415 ATTTTGATTCTGTCACTTG
131 ATTTTGATTCTGTCACCTG
* *
68364434 CTTCTGATTCTGATTCT
1 ATTCTGATTCTAATTCT
68364451 CATTTTTTAT
Statistics
Matches: 152, Mismatches: 14, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
149 152 1.00
ACGTcount: A:0.19, C:0.16, G:0.14, T:0.51
Consensus pattern (149 bp):
ATTCTGATTCTAATTCTGTTACCTGATACTAATTCTGATTCTATTACCTAATTCTAATTCTGGTT
CTGAGTCTGATTCTGTTACCTGATACTGATTCTGATTCTGTTACCTAATTCTGATTTTGATTTTG
ATTTTGATTCTGTCACCTG
Found at i:68364412 original size:25 final size:25
Alignment explanation
Indices: 68364348--68364414 Score: 107
Period size: 25 Copynumber: 2.7 Consensus size: 25
68364338 CTAATTCTGG
* *
68364348 TTCTGATTTTGATTCTGTTACCTGA
1 TTCTGATTTTGATTTTGTTACCTAA
*
68364373 TACTGATTTTGATTTTGTTACCTAA
1 TTCTGATTTTGATTTTGTTACCTAA
68364398 TTCTGATTTTGATTTTG
1 TTCTGATTTTGATTTTG
68364415 ATTTTGATTC
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
25 38 1.00
ACGTcount: A:0.18, C:0.12, G:0.15, T:0.55
Consensus pattern (25 bp):
TTCTGATTTTGATTTTGTTACCTAA
Found at i:68364417 original size:62 final size:62
Alignment explanation
Indices: 68364282--68364427 Score: 202
Period size: 62 Copynumber: 2.4 Consensus size: 62
68364272 ATTCTGTCAC
* * *
68364282 CTGATTCTGATTCTAATTCTGTTACCTGATACTAATTTTGGTTCTATTACCTAATTCTAATT
1 CTGATTCTGATTTTGATTCTGTTACCTGATACTAATTTTGATTCTATTACCTAATTCTAATT
* * * * *
68364344 CTGGTTCTGATTTTGATTCTGTTACCTGATACTGATTTTGATTTTGTTACCTAATTCTGATT
1 CTGATTCTGATTTTGATTCTGTTACCTGATACTAATTTTGATTCTATTACCTAATTCTAATT
* *
68364406 TTGATTTTGATTTTGATTCTGT
1 CTGATTCTGATTTTGATTCTGT
68364428 CACTTGCTTC
Statistics
Matches: 73, Mismatches: 11, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
62 73 1.00
ACGTcount: A:0.20, C:0.14, G:0.14, T:0.52
Consensus pattern (62 bp):
CTGATTCTGATTTTGATTCTGTTACCTGATACTAATTTTGATTCTATTACCTAATTCTAATT
Found at i:68364441 original size:62 final size:62
Alignment explanation
Indices: 68364282--68364448 Score: 181
Period size: 62 Copynumber: 2.7 Consensus size: 62
68364272 ATTCTGTCAC
* * * * * * * *
68364282 CTGATTCTGATTCTAATTCTGTTACCTGATACTAATTTTGGTTCTATTACCTAATTCTAATT
1 CTGATTCTGATTTTGATTCTGTCACCTGATACTGATTCTGATTTTGTTACCTAATTCTAATT
* * * *
68364344 CTGGTTCTGATTTTGATTCTGTTACCTGATACTGATTTTGATTTTGTTACCTAATTCTGATT
1 CTGATTCTGATTTTGATTCTGTCACCTGATACTGATTCTGATTTTGTTACCTAATTCTAATT
* * * * *
68364406 TTGATTTTGATTTTGATTCTGTCACTTGCTTCTGATTCTGATT
1 CTGATTCTGATTTTGATTCTGTCACCTGATACTGATTCTGATT
68364449 CTCATTTTTT
Statistics
Matches: 89, Mismatches: 16, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
62 89 1.00
ACGTcount: A:0.19, C:0.16, G:0.14, T:0.51
Consensus pattern (62 bp):
CTGATTCTGATTTTGATTCTGTCACCTGATACTGATTCTGATTTTGTTACCTAATTCTAATT
Found at i:68368108 original size:56 final size:56
Alignment explanation
Indices: 68368024--68368137 Score: 219
Period size: 56 Copynumber: 2.0 Consensus size: 56
68368014 ATTCTGGAAA
*
68368024 TTTTATGGATGGAAGATATACGAGTCTATATTCAGGGAAAATTAACGGCTGGTGAT
1 TTTTATGGATGGAAGATATACGAGTCTATATTCAGGGAAAATTAACGGCTAGTGAT
68368080 TTTTATGGATGGAAGATATACGAGTCTATATTCAGGGAAAATTAACGGCTAGTGAT
1 TTTTATGGATGGAAGATATACGAGTCTATATTCAGGGAAAATTAACGGCTAGTGAT
68368136 TT
1 TT
68368138 GGAGTTTTGT
Statistics
Matches: 57, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 57 1.00
ACGTcount: A:0.32, C:0.09, G:0.25, T:0.33
Consensus pattern (56 bp):
TTTTATGGATGGAAGATATACGAGTCTATATTCAGGGAAAATTAACGGCTAGTGAT
Found at i:68368734 original size:27 final size:26
Alignment explanation
Indices: 68368704--68368907 Score: 219
Period size: 27 Copynumber: 7.5 Consensus size: 26
68368694 AAATTGTACA
68368704 GCACTAAGTGTGCGATTCGACTATGTT
1 GCACTAAGTGTGCGATT-GACTATGTT
68368731 GCACTAAGTGTGCGATTTGACTATGTT
1 GCACTAAGTGTGCGA-TTGACTATGTT
* * *
68368758 GCACTAAGTGTGCGAAATGAATATGAT
1 GCACTAAGTGTGCG-ATTGACTATGTT
* **
68368785 GCACTAAGTGTGCGAATTGACCATGCG
1 GCACTAAGTGTGCG-ATTGACTATGTT
*
68368812 GCACTAAGTGTGCGAGTTTGACTATGTG
1 GCACTAAGTGTGCGA--TTGACTATGTT
* *
68368840 GCACTAAGTGTGCGATTTGATTATGTA
1 GCACTAAGTGTGCGA-TTGACTATGTT
* * *
68368867 GCACTAAGTGTGCGAGTTGATTATATA
1 GCACTAAGTGTGCGA-TTGACTATGTT
*
68368894 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
68368908 GACTCGATAT
Statistics
Matches: 158, Mismatches: 15, Indels: 8
0.87 0.08 0.04
Matches are distributed among these distances:
26 1 0.01
27 130 0.82
28 27 0.17
ACGTcount: A:0.25, C:0.15, G:0.28, T:0.31
Consensus pattern (26 bp):
GCACTAAGTGTGCGATTGACTATGTT
Found at i:68368764 original size:54 final size:54
Alignment explanation
Indices: 68368703--68368907 Score: 250
Period size: 54 Copynumber: 3.8 Consensus size: 54
68368693 TAAATTGTAC
68368703 AGCACTAAGTGTGCGA-TTCGACTATGTTGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGAGTT-GACTATGTTGCACTAAGTGTGCGATTTGACTATGT
* ** * * * * *
68368757 TGCACTAAGTGTGCGAAATGAATATGATGCACTAAGTGTGCGAATTGACCATGC
1 AGCACTAAGTGTGCGAGTTGACTATGTTGCACTAAGTGTGCGATTTGACTATGT
* * *
68368811 GGCACTAAGTGTGCGAGTTTGACTATGTGGCACTAAGTGTGCGATTTGATTATGT
1 AGCACTAAGTGTGCGAG-TTGACTATGTTGCACTAAGTGTGCGATTTGACTATGT
* * * *
68368866 AGCACTAAGTGTGCGAGTTGATTATATAGCACTGAGTGTGCG
1 AGCACTAAGTGTGCGAGTTGACTATGTTGCACTAAGTGTGCG
68368908 GACTCGATAT
Statistics
Matches: 127, Mismatches: 22, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
54 81 0.64
55 46 0.36
ACGTcount: A:0.26, C:0.15, G:0.28, T:0.31
Consensus pattern (54 bp):
AGCACTAAGTGTGCGAGTTGACTATGTTGCACTAAGTGTGCGATTTGACTATGT
Found at i:68368898 original size:109 final size:108
Alignment explanation
Indices: 68368704--68368907 Score: 311
Period size: 109 Copynumber: 1.9 Consensus size: 108
68368694 AAATTGTACA
* *
68368704 GCACTAAGTGTGCGATTCGACTATGTTGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGT
1 GCACTAAGTGTGCGATTCGACTATGTGGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGT
68368769 GCGAAATGAATATGATGCACTAAGTGTGCGAATTGACCATGCG
66 GCGAAATGAATATGATGCACTAAGTGTGCGAATTGACCATGCG
* *
68368812 GCACTAAGTGTGCGAGTTTGACTATGTGGCACTAAGTGTGCGATTTGATTATGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTCGACTATGTGGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTG
** * *
68368877 TGCGAGTTGATTAT-ATAGCACTGAGTGTGCG
65 TGCGAAATGAATATGAT-GCACTAAGTGTGCG
68368908 GACTCGATAT
Statistics
Matches: 86, Mismatches: 8, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
108 17 0.20
109 69 0.80
ACGTcount: A:0.25, C:0.15, G:0.28, T:0.31
Consensus pattern (108 bp):
GCACTAAGTGTGCGATTCGACTATGTGGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGT
GCGAAATGAATATGATGCACTAAGTGTGCGAATTGACCATGCG
Found at i:68378583 original size:27 final size:27
Alignment explanation
Indices: 68378552--68378729 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
68378542 TAAATTGTAC
68378552 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
68378579 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
68378605 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
68378633 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
68378661 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
68378688 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
68378715 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
68378730 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:68378666 original size:82 final size:81
Alignment explanation
Indices: 68378553--68378708 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
68378543 AAATTGTACA
* *
68378553 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
68378617 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
68378634 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
68378699 TGCGAGTTGA
65 TGCGAATTGA
68378709 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:68378720 original size:82 final size:81
Alignment explanation
Indices: 68378549--68378729 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
68378539 GATTAAATTG
* *
68378549 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
68378614 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
68378630 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
68378694 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
68378712 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
68378730 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:68387456 original size:322 final size:322
Alignment explanation
Indices: 68386864--68387502 Score: 1188
Period size: 322 Copynumber: 2.0 Consensus size: 322
68386854 AAAGCTCCGG
* *
68386864 ACTTCGGTAACATTTCTCGGAGGCTTCCAGTTAAGTATGGCTGAAATTTTGCTCGGGTCAACTCG
1 ACTTCAGTAACATTTCTCGGAGGCTTCCAGTCAAGTATGGCTGAAATTTTGCTCGGGTCAACTCG
68386929 AATACCCAATGCGGATACCACATGACCCAAGAAGCTAACCTCTCTTAACCAGAACTCACACTTAC
66 AATACCCAATGCGGATACCACATGACCCAAGAAGCTAACCTCTCTTAACCAGAACTCACACTTAC
68386994 TGAACTTAGCATATAACTGCTTATCCCGCAAAATTTGCAACACTTGCCTCAGATGCTCAGCATGT
131 TGAACTTAGCATATAACTGCTTATCCCGCAAAATTTGCAACACTTGCCTCAGATGCTCAGCATGT
68387059 TCGGTCTCATCTCTTGAATAGACCAAGATGTCATCAATAAACACAACTACGAACCGATCCAAATA
196 TCGGTCTCATCTCTTGAATAGACCAAGATGTCATCAATAAACACAACTACGAACCGATCCAAATA
68387124 CGGCCTGAAGATCCGATTCATCAAATCCATAAACACCGCAGGGGCATTAGTGAGCCCGCTGA
261 CGGCCTGAAGATCCGATTCATCAAATCCATAAACACCGCAGGGGCATTAGTGAGCCCGCTGA
* *
68387186 ACTTCAGTAACATTTCTCGGAGGTTTCCAGTCAAGTATGGCTGAAATTTTGTTCGGGTCAACTCG
1 ACTTCAGTAACATTTCTCGGAGGCTTCCAGTCAAGTATGGCTGAAATTTTGCTCGGGTCAACTCG
68387251 AATACCCAATGCGGATACCACATGACCCAAGAAGCTAACCTCTCTTAACCAGAACTCACACTTAC
66 AATACCCAATGCGGATACCACATGACCCAAGAAGCTAACCTCTCTTAACCAGAACTCACACTTAC
68387316 TGAACTTAGCATATAACTGCTTATCCCGCAAAATTTGCAACACTTGCCTCAGATGCTCAGCATGT
131 TGAACTTAGCATATAACTGCTTATCCCGCAAAATTTGCAACACTTGCCTCAGATGCTCAGCATGT
*
68387381 TCGGTCTCATCTCTTGAATAGACCAAGATGTCATCAATGAACACAACTACGAACCGATCCAAATA
196 TCGGTCTCATCTCTTGAATAGACCAAGATGTCATCAATAAACACAACTACGAACCGATCCAAATA
* * * * *
68387446 TGGTCTGAAGATCCGATTCATCAAATCCATAAATACTGCCGGGGCATTAGTGAGCCC
261 CGGCCTGAAGATCCGATTCATCAAATCCATAAACACCGCAGGGGCATTAGTGAGCCC
68387503 AAACGGCATC
Statistics
Matches: 307, Mismatches: 10, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
322 307 1.00
ACGTcount: A:0.31, C:0.27, G:0.17, T:0.25
Consensus pattern (322 bp):
ACTTCAGTAACATTTCTCGGAGGCTTCCAGTCAAGTATGGCTGAAATTTTGCTCGGGTCAACTCG
AATACCCAATGCGGATACCACATGACCCAAGAAGCTAACCTCTCTTAACCAGAACTCACACTTAC
TGAACTTAGCATATAACTGCTTATCCCGCAAAATTTGCAACACTTGCCTCAGATGCTCAGCATGT
TCGGTCTCATCTCTTGAATAGACCAAGATGTCATCAATAAACACAACTACGAACCGATCCAAATA
CGGCCTGAAGATCCGATTCATCAAATCCATAAACACCGCAGGGGCATTAGTGAGCCCGCTGA
Found at i:68391321 original size:27 final size:27
Alignment explanation
Indices: 68391291--68391468 Score: 171
Period size: 27 Copynumber: 6.6 Consensus size: 27
68391281 ATATTGAGCC
** *
68391291 CGCACACCCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* *
68391318 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
68391345 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
** ** *
68391373 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* **
68391400 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* *
68391427 CGCACACTTAGTGCAACATAGTCGAA-T
1 CGCACACTTAGTGCTACATAATC-AACT
68391454 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
68391469 GTACAATTTA
Statistics
Matches: 128, Mismatches: 19, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
27 103 0.80
28 25 0.20
ACGTcount: A:0.29, C:0.29, G:0.16, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:68391430 original size:82 final size:81
Alignment explanation
Indices: 68391312--68391467 Score: 224
Period size: 82 Copynumber: 1.9 Consensus size: 81
68391302 TGCTATATAA
* *
68391312 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
68391377 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * ** *
68391394 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCGAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
68391458 CACTTAGTGC
65 CACTTAGTGC
68391468 TGTACAATTT
Statistics
Matches: 66, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
81 16 0.24
82 50 0.76
ACGTcount: A:0.29, C:0.28, G:0.16, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:68395630 original size:10 final size:10
Alignment explanation
Indices: 68395617--68395652 Score: 54
Period size: 10 Copynumber: 3.6 Consensus size: 10
68395607 GAGCTCCATC
*
68395617 CAGCTCAATT
1 CAGCTCATTT
68395627 CAGCTCATTT
1 CAGCTCATTT
*
68395637 GAGCTCATTT
1 CAGCTCATTT
68395647 CAGCTC
1 CAGCTC
68395653 GTTTGAGTTC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
10 23 1.00
ACGTcount: A:0.22, C:0.31, G:0.14, T:0.33
Consensus pattern (10 bp):
CAGCTCATTT
Found at i:68395641 original size:20 final size:20
Alignment explanation
Indices: 68395618--68395664 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
68395608 AGCTCCATCC
68395618 AGCTCAATTCAGCTCATTTG
1 AGCTCAATTCAGCTCATTTG
* *
68395638 AGCTCATTTCAGCTCGTTTG
1 AGCTCAATTCAGCTCATTTG
*
68395658 AGTTCAA
1 AGCTCAA
68395665 CTGAGCTTGT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.23, C:0.23, G:0.17, T:0.36
Consensus pattern (20 bp):
AGCTCAATTCAGCTCATTTG
Found at i:68400108 original size:47 final size:47
Alignment explanation
Indices: 68399919--68400156 Score: 176
Period size: 47 Copynumber: 5.0 Consensus size: 47
68399909 TTAGGATTTT
* * * * **
68399919 ATGTGATGGATGTGAACATGCGTATGTGTGATTCGGCCGAATGGCCA
1 ATGTGATGAATGTGAGCATGCATATATGTGATAAGGCCGAATGGCCA
* ** * *
68399966 ATGTGATGAATGTGAACCCGTATATATATGTGTGATAAGGCCGAATGGCTA
1 ATGTGATGAATGTG-A---GCATGCATATATGTGATAAGGCCGAATGGCCA
* * * *
68400017 ATGTGA-GATATATGTGTGATATG--TATATGTGGTAAAGCCGAATGGCCA
1 ATGTGATG--A-ATGTGAG-CATGCATATATGTGATAAGGCCGAATGGCCA
*
68400065 ATGTGATAAATGTGAGCATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAGCATGCATATATGTGATAAGGCCGAATGGCCA
* * ** * * *
68400112 ATGTGGTGAATATGAAAATGCATATATGCGGTAAAGCCGAATGGC
1 ATGTGATGAATGTGAGCATGCATATATGTGATAAGGCCGAATGGC
68400157 TAGTGTGAAA
Statistics
Matches: 152, Mismatches: 28, Indels: 22
0.75 0.14 0.11
Matches are distributed among these distances:
45 3 0.02
46 6 0.04
47 74 0.49
48 28 0.18
49 1 0.01
50 4 0.03
51 30 0.20
52 1 0.01
53 5 0.03
ACGTcount: A:0.31, C:0.12, G:0.29, T:0.28
Consensus pattern (47 bp):
ATGTGATGAATGTGAGCATGCATATATGTGATAAGGCCGAATGGCCA
Found at i:68400377 original size:37 final size:37
Alignment explanation
Indices: 68400319--68400470 Score: 223
Period size: 37 Copynumber: 4.1 Consensus size: 37
68400309 GGAAATATAT
*
68400319 TCCGGGTGAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
* * *
68400356 TCTGGGTAAGACCCGGTGACTACGTGTGGTGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
*
68400393 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
** * *
68400430 TCCGGGTAAGACCCGACAACTTCGTGTGGAGATTACG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
68400467 TCCG
1 TCCG
68400471 AGCTAAAGGT
Statistics
Matches: 102, Mismatches: 13, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
37 102 1.00
ACGTcount: A:0.21, C:0.20, G:0.33, T:0.26
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
Found at i:68401801 original size:40 final size:39
Alignment explanation
Indices: 68401757--68401924 Score: 210
Period size: 40 Copynumber: 4.2 Consensus size: 39
68401747 GCTAAATCCT
* *
68401757 GAAGAGCATTCGTGCTAGTGATGTATCCGGCCGAAGTTCC
1 GAAGAGCATTCGTGCTAGTGATATATCCGG-CTAAGTTCC
* *
68401797 GAAGAGCATTCGTGCTAGTGATGTATCCGAACTAAGTTCC
1 GAAGAGCATTCGTGCTAGTGATATATCCG-GCTAAGTTCC
**
68401837 GAAGAGCATTCGTGCTAGTGATATATCCGTGCTAAACTCC
1 GAAGAGCATTCGTGCTAGTGATATATCCG-GCTAAGTTCC
* * * *
68401877 GAAGAGCATTCGTGCTGGTGTTATATCCGGGCTAGGTCCC
1 GAAGAGCATTCGTGCTAGTGATATATCC-GGCTAAGTTCC
68401917 GAAGAGCA
1 GAAGAGCA
68401925 ATCATGCTGG
Statistics
Matches: 113, Mismatches: 13, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
40 112 0.99
41 1 0.01
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (39 bp):
GAAGAGCATTCGTGCTAGTGATATATCCGGCTAAGTTCC
Found at i:68401933 original size:40 final size:40
Alignment explanation
Indices: 68401742--68401937 Score: 189
Period size: 40 Copynumber: 4.9 Consensus size: 40
68401732 GAGTGAAATG
* *
68401742 TCCGGGCTAAA-TCCTGAAGAGCATTCGTGCTAGTGATGTA
1 TCCGGGCTAAACTCC-GAAGAGCATTCGTGCTGGTGATATA
* * ** * *
68401782 TCCGGCCGAAGTTCCGAAGAGCATTCGTGCTAGTGATGTA
1 TCCGGGCTAAACTCCGAAGAGCATTCGTGCTGGTGATATA
** ** *
68401822 TCCGAACTAAGTTCCGAAGAGCATTCGTGCTAGTGATATA
1 TCCGGGCTAAACTCCGAAGAGCATTCGTGCTGGTGATATA
* *
68401862 TCCGTGCTAAACTCCGAAGAGCATTCGTGCTGGTGTTATA
1 TCCGGGCTAAACTCCGAAGAGCATTCGTGCTGGTGATATA
** * *
68401902 TCCGGGCT-AGGTCCCGAAGAGCAATCATGCTGGTGA
1 TCCGGGCTAAACT-CCGAAGAGCATTCGTGCTGGTGA
68401938 CGTGTATTCG
Statistics
Matches: 135, Mismatches: 19, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
39 2 0.01
40 130 0.96
41 3 0.02
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAACTCCGAAGAGCATTCGTGCTGGTGATATA
Found at i:68410135 original size:31 final size:31
Alignment explanation
Indices: 68410097--68410157 Score: 122
Period size: 31 Copynumber: 2.0 Consensus size: 31
68410087 AGAGGAAAGA
68410097 AAAAAAAATAAAAACAAAAGGTGTAATTCAG
1 AAAAAAAATAAAAACAAAAGGTGTAATTCAG
68410128 AAAAAAAATAAAAACAAAAGGTGTAATTCA
1 AAAAAAAATAAAAACAAAAGGTGTAATTCA
68410158 CCTTGTCTAG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.66, C:0.07, G:0.11, T:0.16
Consensus pattern (31 bp):
AAAAAAAATAAAAACAAAAGGTGTAATTCAG
Found at i:68412515 original size:10 final size:10
Alignment explanation
Indices: 68412502--68412537 Score: 54
Period size: 10 Copynumber: 3.6 Consensus size: 10
68412492 GAGCTCCATC
*
68412502 CAGCTCAATT
1 CAGCTCATTT
68412512 CAGCTCATTT
1 CAGCTCATTT
*
68412522 GAGCTCATTT
1 CAGCTCATTT
68412532 CAGCTC
1 CAGCTC
68412538 GTTTGAGTTC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
10 23 1.00
ACGTcount: A:0.22, C:0.31, G:0.14, T:0.33
Consensus pattern (10 bp):
CAGCTCATTT
Found at i:68412526 original size:20 final size:20
Alignment explanation
Indices: 68412503--68412549 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
68412493 AGCTCCATCC
68412503 AGCTCAATTCAGCTCATTTG
1 AGCTCAATTCAGCTCATTTG
* *
68412523 AGCTCATTTCAGCTCGTTTG
1 AGCTCAATTCAGCTCATTTG
*
68412543 AGTTCAA
1 AGCTCAA
68412550 CTGAGCTTGT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.23, C:0.23, G:0.17, T:0.36
Consensus pattern (20 bp):
AGCTCAATTCAGCTCATTTG
Found at i:68422357 original size:29 final size:29
Alignment explanation
Indices: 68422323--68422393 Score: 90
Period size: 29 Copynumber: 2.4 Consensus size: 29
68422313 ATCAACCACA
* *
68422323 CACACTTAGTGCCATGTACTTT-AAACTCG
1 CACACTTAGTGCCATGCA-TTTCAAACCCG
*
68422352 CACACTTAGTGCCATGCATTTCAAGCCCG
1 CACACTTAGTGCCATGCATTTCAAACCCG
*
68422381 CACACTTATTGCC
1 CACACTTAGTGCC
68422394 CGCACACTTA
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
28 3 0.08
29 34 0.92
ACGTcount: A:0.25, C:0.32, G:0.14, T:0.28
Consensus pattern (29 bp):
CACACTTAGTGCCATGCATTTCAAACCCG
Found at i:68422396 original size:15 final size:15
Alignment explanation
Indices: 68422376--68422408 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
68422366 TGCATTTCAA
*
68422376 GCCCGCACACTTATT
1 GCCCGCACACTTAGT
68422391 GCCCGCACACTTAGT
1 GCCCGCACACTTAGT
68422406 GCC
1 GCC
68422409 GAAAACCAAC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.18, C:0.42, G:0.18, T:0.21
Consensus pattern (15 bp):
GCCCGCACACTTAGT
Found at i:68429318 original size:51 final size:48
Alignment explanation
Indices: 68429206--68429395 Score: 184
Period size: 49 Copynumber: 3.9 Consensus size: 48
68429196 GAAGCTACCT
* * *
68429206 GGTACGCATAGTAGCCTGCACTTAGTAGTACACATGTGACCAATAATTT-
1 GGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCAAT--TTTC
* * *
68429255 GGTACACGTAGTAGCCTGCACTTAGTACTACACACATGATCACAGTTTTC
1 GGTACACATAGTAGCCTGCACTTAGTACTACACACGTGA-C-CAATTTTC
* * * * * * *
68429305 GGGTACGCATAGTAGCCTACGCTTAGTAATACACATGCGACCAATTATCC
1 -GGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCAATT-TTC
* *
68429355 GGTACACGTAGTAGCTTGCACTTAGTACTACACACGTGACC
1 GGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACC
68429396 TCACAATAGT
Statistics
Matches: 112, Mismatches: 24, Indels: 10
0.77 0.16 0.07
Matches are distributed among these distances:
49 74 0.66
50 4 0.04
51 34 0.30
ACGTcount: A:0.29, C:0.25, G:0.20, T:0.26
Consensus pattern (48 bp):
GGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCAATTTTC
Found at i:68429320 original size:100 final size:100
Alignment explanation
Indices: 68429206--68429389 Score: 296
Period size: 100 Copynumber: 1.8 Consensus size: 100
68429196 GAAGCTACCT
* * * **
68429206 GGTACGCATAGTAGCCTGCACTTAGTAGTACACATGTGACCAATAATTTGGTACACGTAGTAGCC
1 GGTACGCATAGTAGCCTACACTTAGTAATACACATGCGACCAATAATCCGGTACACGTAGTAGCC
68429271 TGCACTTAGTACTACACACATGATCACAGTTTTCG
66 TGCACTTAGTACTACACACATGATCACAGTTTTCG
* * *
68429306 GGTACGCATAGTAGCCTACGCTTAGTAATACACATGCGACCAATTATCCGGTACACGTAGTAGCT
1 GGTACGCATAGTAGCCTACACTTAGTAATACACATGCGACCAATAATCCGGTACACGTAGTAGCC
68429371 TGCACTTAGTACTACACAC
66 TGCACTTAGTACTACACAC
68429390 GTGACCTCAC
Statistics
Matches: 76, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
100 76 1.00
ACGTcount: A:0.29, C:0.24, G:0.20, T:0.27
Consensus pattern (100 bp):
GGTACGCATAGTAGCCTACACTTAGTAATACACATGCGACCAATAATCCGGTACACGTAGTAGCC
TGCACTTAGTACTACACACATGATCACAGTTTTCG
Found at i:68431905 original size:15 final size:15
Alignment explanation
Indices: 68431856--68431911 Score: 64
Period size: 15 Copynumber: 3.7 Consensus size: 15
68431846 CAAGCAAACC
68431856 GAATAAAGAAATCCA
1 GAATAAAGAAATCCA
68431871 -AGATAGAA-AAA-CCTA
1 GA-ATA-AAGAAATCC-A
68431886 GAATAAAGAAATCCA
1 GAATAAAGAAATCCA
68431901 GAATAAAGAAA
1 GAATAAAGAAA
68431912 CCCAAGATAC
Statistics
Matches: 35, Mismatches: 0, Indels: 12
0.74 0.00 0.26
Matches are distributed among these distances:
14 5 0.14
15 25 0.71
16 5 0.14
ACGTcount: A:0.62, C:0.11, G:0.14, T:0.12
Consensus pattern (15 bp):
GAATAAAGAAATCCA
Found at i:68434139 original size:51 final size:48
Alignment explanation
Indices: 68434027--68434216 Score: 184
Period size: 49 Copynumber: 3.9 Consensus size: 48
68434017 GAAGCTACCT
* * *
68434027 GGTACGCATAGTAGCCTGCACTTAGTAGTACACATGTGACCAATAATTT-
1 GGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCAAT--TTTC
* * *
68434076 GGTACACGTAGTAGCCTGCACTTAGTACTACACACATGATCACAGTTTTC
1 GGTACACATAGTAGCCTGCACTTAGTACTACACACGTGA-C-CAATTTTC
* * * * * * *
68434126 GGGTACGCATAGTAGCCTACGCTTAGTAATACACATGCGACCAATTATCC
1 -GGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCAATT-TTC
* *
68434176 GGTACACGTAGTAGCTTGCACTTAGTACTACACACGTGACC
1 GGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACC
68434217 TCACAATAGT
Statistics
Matches: 112, Mismatches: 24, Indels: 10
0.77 0.16 0.07
Matches are distributed among these distances:
49 74 0.66
50 4 0.04
51 34 0.30
ACGTcount: A:0.29, C:0.25, G:0.20, T:0.26
Consensus pattern (48 bp):
GGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCAATTTTC
Found at i:68434141 original size:100 final size:100
Alignment explanation
Indices: 68434027--68434210 Score: 296
Period size: 100 Copynumber: 1.8 Consensus size: 100
68434017 GAAGCTACCT
* * * **
68434027 GGTACGCATAGTAGCCTGCACTTAGTAGTACACATGTGACCAATAATTTGGTACACGTAGTAGCC
1 GGTACGCATAGTAGCCTACACTTAGTAATACACATGCGACCAATAATCCGGTACACGTAGTAGCC
68434092 TGCACTTAGTACTACACACATGATCACAGTTTTCG
66 TGCACTTAGTACTACACACATGATCACAGTTTTCG
* * *
68434127 GGTACGCATAGTAGCCTACGCTTAGTAATACACATGCGACCAATTATCCGGTACACGTAGTAGCT
1 GGTACGCATAGTAGCCTACACTTAGTAATACACATGCGACCAATAATCCGGTACACGTAGTAGCC
68434192 TGCACTTAGTACTACACAC
66 TGCACTTAGTACTACACAC
68434211 GTGACCTCAC
Statistics
Matches: 76, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
100 76 1.00
ACGTcount: A:0.29, C:0.24, G:0.20, T:0.27
Consensus pattern (100 bp):
GGTACGCATAGTAGCCTACACTTAGTAATACACATGCGACCAATAATCCGGTACACGTAGTAGCC
TGCACTTAGTACTACACACATGATCACAGTTTTCG
Found at i:68439185 original size:39 final size:39
Alignment explanation
Indices: 68439131--68439348 Score: 312
Period size: 39 Copynumber: 5.5 Consensus size: 39
68439121 TAATGGAGTA
* *
68439131 TTATATCTGGGCTAAGTCCCAAAGGCATTCGTGCTGGTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
*
68439170 TTATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTGGTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
*
68439209 TTATATCCGGGCTAAGTCCTGAAGGCATTCGTGCTGGTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
* *
68439248 TTATATCCGGGCTAAGCCCCGAAGGCATTCATGCTGGTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
* * * *
68439287 TTATATCTGGGCTAAAGTCCCGCAGGC-TTTGTGCTGGTA
1 TTATATCCGGGCT-AAGTCCCGAAGGCATTCGTGCTGGTG
68439326 TTATATCCGGGCTTAAAGTCCCG
1 TTATATCCGGGC-T-AAGTCCCG
68439349 CATGCTTTGT
Statistics
Matches: 162, Mismatches: 15, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
39 141 0.87
40 21 0.13
ACGTcount: A:0.19, C:0.22, G:0.28, T:0.30
Consensus pattern (39 bp):
TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
Found at i:68444057 original size:23 final size:23
Alignment explanation
Indices: 68444023--68444068 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
68444013 TTCAACATGT
*
68444023 ACTTTTACTATTTTAACAAATAA
1 ACTTTTAATATTTTAACAAATAA
68444046 ACTTTTAATATTTTAACAAATAA
1 ACTTTTAATATTTTAACAAATAA
68444069 GTCCCTAAAT
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:0.46, C:0.11, G:0.00, T:0.43
Consensus pattern (23 bp):
ACTTTTAATATTTTAACAAATAA
Found at i:68448413 original size:46 final size:46
Alignment explanation
Indices: 68448346--68448435 Score: 171
Period size: 46 Copynumber: 2.0 Consensus size: 46
68448336 ACTTCGACTT
*
68448346 CGACAATCCCGAGTCCGATAGCTGACGAACAAAAATCTATAAAATA
1 CGACAATCCCGAGTCCGATAGCTAACGAACAAAAATCTATAAAATA
68448392 CGACAATCCCGAGTCCGATAGCTAACGAACAAAAATCTATAAAA
1 CGACAATCCCGAGTCCGATAGCTAACGAACAAAAATCTATAAAA
68448436 CAGAGAATTA
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 43 1.00
ACGTcount: A:0.44, C:0.24, G:0.14, T:0.17
Consensus pattern (46 bp):
CGACAATCCCGAGTCCGATAGCTAACGAACAAAAATCTATAAAATA
Found at i:68448851 original size:40 final size:40
Alignment explanation
Indices: 68448773--68448996 Score: 310
Period size: 40 Copynumber: 5.5 Consensus size: 40
68448763 ACCCAAGTAT
* *
68448773 CTTCGGGATTTAG-CCGGATATAG-CAACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATGC
* **
68448812 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCATGAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
68448852 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
*
68448892 CTTCGGGACTTAGCCCGGGTATAG-CAACTACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTC-ACTA---GCACAAATGC
* *
68448935 CTTCGGGACTTAGCCCGGATATAGTAACTTGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
68448975 CTTCGGGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATAT
68448997 CATCCGAATA
Statistics
Matches: 166, Mismatches: 12, Indels: 13
0.87 0.06 0.07
Matches are distributed among these distances:
39 12 0.07
40 117 0.70
41 1 0.01
43 36 0.22
ACGTcount: A:0.25, C:0.27, G:0.24, T:0.24
Consensus pattern (40 bp):
CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
Found at i:68448969 original size:83 final size:80
Alignment explanation
Indices: 68448773--68448996 Score: 317
Period size: 83 Copynumber: 2.8 Consensus size: 80
68448763 ACCCAAGTAT
* * * *
68448773 CTTCGGGATTTAG-CCGGATATAGCAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATATAGT
1 CTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGT
**
68448837 CACTAGCATGAATGC
66 CACTAGCACAAATGC
* *
68448852 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGGTATAG-
1 CTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGT
68448916 CAACTACTCGCACAAATGC
66 C-ACTA---GCACAAATGC
*
68448935 CTTCGGGACTTAGCCCGGATATAGTAACTTGCACAAATGCCTTCGGGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATAT
68448997 CATCCGAATA
Statistics
Matches: 129, Mismatches: 11, Indels: 6
0.88 0.08 0.04
Matches are distributed among these distances:
79 13 0.10
80 49 0.38
83 67 0.52
ACGTcount: A:0.25, C:0.27, G:0.24, T:0.24
Consensus pattern (80 bp):
CTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGT
CACTAGCACAAATGC
Found at i:68448974 original size:123 final size:119
Alignment explanation
Indices: 68448773--68448996 Score: 349
Period size: 123 Copynumber: 1.8 Consensus size: 119
68448763 ACCCAAGTAT
* * *
68448773 CTTCGGGATTTAGCCGGATATAGCAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATATAGTC
1 CTTCGGGACTTAGCCGGATATAGCAACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTA
**
68448838 ACTAGCATGAATGCCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
66 ACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
*
68448892 CTTCGGGACTTAGCCCGGGTATAGCAACTACTCGCACAAATGCCTTCGGGACTTAGCCCGGATAT
1 CTTCGGGACTTAG-CCGGATATAGC-A--ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATAT
*
68448957 AGTAACTTGCACAAATGCCTTCGGGACTTAGCCCGGATAT
62 AGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATAT
68448997 CATCCGAATA
Statistics
Matches: 94, Mismatches: 7, Indels: 4
0.90 0.07 0.04
Matches are distributed among these distances:
119 12 0.13
120 10 0.11
121 1 0.01
123 71 0.76
ACGTcount: A:0.25, C:0.27, G:0.24, T:0.24
Consensus pattern (119 bp):
CTTCGGGACTTAGCCGGATATAGCAACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTA
ACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
Found at i:68452453 original size:42 final size:42
Alignment explanation
Indices: 68452392--68452475 Score: 150
Period size: 42 Copynumber: 2.0 Consensus size: 42
68452382 AAAGCAAACA
*
68452392 GTGATTTACGACTTGAAGCATCCGCAACCACATTAGCCTTTC
1 GTGATTTACGACTTAAAGCATCCGCAACCACATTAGCCTTTC
*
68452434 GTGATTTACGACTTAAAGCATCTGCAACCACATTAGCCTTTC
1 GTGATTTACGACTTAAAGCATCCGCAACCACATTAGCCTTTC
68452476 CCGGGTGATA
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 40 1.00
ACGTcount: A:0.27, C:0.27, G:0.15, T:0.30
Consensus pattern (42 bp):
GTGATTTACGACTTAAAGCATCCGCAACCACATTAGCCTTTC
Found at i:68455849 original size:85 final size:85
Alignment explanation
Indices: 68455721--68455889 Score: 338
Period size: 85 Copynumber: 2.0 Consensus size: 85
68455711 GACTGTTCCC
68455721 GAAGTCGAACACGAGGTGTTAACGAACTTAATTCATTTATTTACACAGTTCATTTTAAAATTTCC
1 GAAGTCGAACACGAGGTGTTAACGAACTTAATTCATTTATTTACACAGTTCATTTTAAAATTTCC
68455786 AGACAAGCTGGCTAACTGCG
66 AGACAAGCTGGCTAACTGCG
68455806 GAAGTCGAACACGAGGTGTTAACGAACTTAATTCATTTATTTACACAGTTCATTTTAAAATTTCC
1 GAAGTCGAACACGAGGTGTTAACGAACTTAATTCATTTATTTACACAGTTCATTTTAAAATTTCC
68455871 AGACAAGCTGGCTAACTGC
66 AGACAAGCTGGCTAACTGC
68455890 AACACTGTCA
Statistics
Matches: 84, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
85 84 1.00
ACGTcount: A:0.33, C:0.19, G:0.17, T:0.31
Consensus pattern (85 bp):
GAAGTCGAACACGAGGTGTTAACGAACTTAATTCATTTATTTACACAGTTCATTTTAAAATTTCC
AGACAAGCTGGCTAACTGCG
Found at i:68456398 original size:45 final size:45
Alignment explanation
Indices: 68456334--68456424 Score: 182
Period size: 45 Copynumber: 2.0 Consensus size: 45
68456324 AGACTCATCA
68456334 AGGTTCGATTACATAATTTATTCATTATTTAATTACATTCCTACT
1 AGGTTCGATTACATAATTTATTCATTATTTAATTACATTCCTACT
68456379 AGGTTCGATTACATAATTTATTCATTATTTAATTACATTCCTACT
1 AGGTTCGATTACATAATTTATTCATTATTTAATTACATTCCTACT
68456424 A
1 A
68456425 TTTTTAGTGA
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 46 1.00
ACGTcount: A:0.32, C:0.15, G:0.07, T:0.46
Consensus pattern (45 bp):
AGGTTCGATTACATAATTTATTCATTATTTAATTACATTCCTACT
Found at i:68457254 original size:40 final size:40
Alignment explanation
Indices: 68457176--68457399 Score: 292
Period size: 40 Copynumber: 5.5 Consensus size: 40
68457166 ACCCAAGTAT
* *
68457176 CTTCGGGATTTAG-CCGGATATAG-CAACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATGC
* * **
68457215 CTTCAGGTCTTAGCCCGGATATAGTCACTAGCATGAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
68457255 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
* *
68457295 CGTCGGGACTTAGCCCGGGTATAG-CAACTACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTC-ACTA---GCACAAATGC
* *
68457338 CTTCGGGACTTAGCCCGGATATAGTAACTTGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
68457378 CTTCGGGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATAT
68457400 CATCCGAATA
Statistics
Matches: 162, Mismatches: 16, Indels: 13
0.85 0.08 0.07
Matches are distributed among these distances:
39 11 0.07
40 115 0.71
41 1 0.01
43 35 0.22
ACGTcount: A:0.26, C:0.27, G:0.24, T:0.24
Consensus pattern (40 bp):
CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
Found at i:68457358 original size:83 final size:80
Alignment explanation
Indices: 68457176--68457399 Score: 292
Period size: 83 Copynumber: 2.8 Consensus size: 80
68457166 ACCCAAGTAT
* * * *
68457176 CTTCGGGATTTAG-CCGGATATAG-CAACTCGCACAAATGCCTTCAGGTCTTAGCCCGGATATAG
1 CTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAG
**
68457239 TCACTAGCATGAATGC
65 TCACTAGCACAAATGC
* *
68457255 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGCCGTCGGGACTTAGCCCGGGTATAG-
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGT
68457319 CAACTACTCGCACAAATGC
66 C-ACTA---GCACAAATGC
* *
68457338 CTTCGGGACTTAGCCCGGATATAGTAACTTGCACAAATGCCTTCGGGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGATAT
68457400 CATCCGAATA
Statistics
Matches: 127, Mismatches: 12, Indels: 8
0.86 0.08 0.05
Matches are distributed among these distances:
79 13 0.10
80 47 0.37
81 1 0.01
83 66 0.52
ACGTcount: A:0.26, C:0.27, G:0.24, T:0.24
Consensus pattern (80 bp):
CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGT
CACTAGCACAAATGC
Found at i:68462401 original size:49 final size:49
Alignment explanation
Indices: 68462276--68462930 Score: 1123
Period size: 49 Copynumber: 13.6 Consensus size: 49
68462266 GCCTTCGGGA
* * * * *
68462276 CTTATCACAT-T-TATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
68462323 CCTGTCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
68462370 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
68462419 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
68462468 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
68462517 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
68462566 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
68462615 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
68462664 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
68462713 CTTATCACATATATATACACTTTCACATTCATCACATTGGGCATTCGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
68462762 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
68462809 CTTATCACATATATATACACTTTCACATTCATCACATTGGGCATTCGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
68462858 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
68462905 CTTATCACATATATATACA--TTCACAT
1 CTTATCACATATATATACACTTTCACAT
68462931 CACAATTATC
Statistics
Matches: 579, Mismatches: 21, Indels: 16
0.94 0.03 0.03
Matches are distributed among these distances:
46 1 0.00
47 138 0.24
49 440 0.76
ACGTcount: A:0.30, C:0.29, G:0.09, T:0.33
Consensus pattern (49 bp):
CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:68467676 original size:16 final size:16
Alignment explanation
Indices: 68467657--68467687 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
68467647 CTTCTTCGCT
68467657 TACTCACTTACTTAAA
1 TACTCACTTACTTAAA
*
68467673 TACTTACTTACTTAA
1 TACTCACTTACTTAA
68467688 TCAAATTTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.23, G:0.00, T:0.42
Consensus pattern (16 bp):
TACTCACTTACTTAAA
Found at i:68467693 original size:20 final size:20
Alignment explanation
Indices: 68467655--68467693 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
68467645 AACTTCTTCG
* *
68467655 CTTACTCACTTACTTAAATA
1 CTTACTCACTTAATCAAATA
*
68467675 CTTACTTACTTAATCAAAT
1 CTTACTCACTTAATCAAAT
68467694 TTATTAATAA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.36, C:0.23, G:0.00, T:0.41
Consensus pattern (20 bp):
CTTACTCACTTAATCAAATA
Found at i:68468007 original size:53 final size:54
Alignment explanation
Indices: 68467880--68468130 Score: 257
Period size: 55 Copynumber: 4.7 Consensus size: 54
68467870 ACACGGGTAC
* * * * *
68467880 CTTACCATTGCCATGACTTGTCATGGTTTTACGTGGTATCC-T---TT-TGAAA
1 CTTACCAATGCCATGCCTTGGCATGGTCTTACATGGTATCCTTGCCTTATGAAA
* ** * * *
68467929 CTTACCATTGCCATATCTCGACATGGTCTTACATGGTATCCTTGCCTTATG-GA
1 CTTACCAATGCCATGCCTTGGCATGGTCTTACATGGTATCCTTGCCTTATGAAA
* *
68467982 CTCACCAATGCCATGCCTTGGCATGGTCTTACATGGGA-CCTTTGCCTTATAGAAA
1 CTTACCAATGCCATGCCTTGGCATGGTCTTACATGGTATCC-TTGCCTTAT-GAAA
* * *
68468037 CTTATCAATGCCATGCCTTGACATGGTCTTACATGATATCCTTGCCTTA-GAAA
1 CTTACCAATGCCATGCCTTGGCATGGTCTTACATGGTATCCTTGCCTTATGAAA
*
68468090 CCTTACCAATTTCCATGCCTTGGCATGGTCTTACATGGTAT
1 -CTTACCAA-TGCCATGCCTTGGCATGGTCTTACATGGTAT
68468131 TCTTAAACCC
Statistics
Matches: 167, Mismatches: 24, Indels: 16
0.81 0.12 0.08
Matches are distributed among these distances:
49 35 0.21
50 1 0.01
52 2 0.01
53 47 0.28
54 10 0.06
55 70 0.42
56 2 0.01
ACGTcount: A:0.22, C:0.25, G:0.18, T:0.35
Consensus pattern (54 bp):
CTTACCAATGCCATGCCTTGGCATGGTCTTACATGGTATCCTTGCCTTATGAAA
Found at i:68468071 original size:108 final size:110
Alignment explanation
Indices: 68467925--68468127 Score: 295
Period size: 108 Copynumber: 1.9 Consensus size: 110
68467915 GTATCCTTTT
* * * *
68467925 GAAACTTACCATTGCCATATCTCGACATGGTCTTACATGGTATCCTTGCCTTATG-GA-CTCACC
1 GAAACTTACCAATGCCATACCTCGACATGGTCTTACATGATATCCTTGCCTTA-GAAACCTCACC
68467988 AA-TGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATA
65 AATTGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATA
* * * *
68468033 GAAACTTATCAATGCCATGCCTTGACATGGTCTTACATGATATCCTTGCCTTAGAAACCTTACCA
1 GAAACTTACCAATGCCATACCTCGACATGGTCTTACATGATATCCTTGCCTTAGAAACCTCACCA
*
68468098 ATTTCCATGCCTTGGCATGGTCTTACATGG
66 ATTGCCATGCCTTGGCATGGTCTTACATGG
68468128 TATTCTTAAA
Statistics
Matches: 83, Mismatches: 9, Indels: 4
0.86 0.09 0.04
Matches are distributed among these distances:
107 1 0.01
108 48 0.58
109 7 0.08
110 27 0.33
ACGTcount: A:0.24, C:0.26, G:0.18, T:0.33
Consensus pattern (110 bp):
GAAACTTACCAATGCCATACCTCGACATGGTCTTACATGATATCCTTGCCTTAGAAACCTCACCA
ATTGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATA
Found at i:68469043 original size:27 final size:27
Alignment explanation
Indices: 68469008--68469207 Score: 231
Period size: 27 Copynumber: 7.4 Consensus size: 27
68468998 GTGGATAAGT
*
68469008 GGTAGAATTACCGAAATACCCCTGTAA
1 GGTAGAATTACCGAAATACCCCTGTAG
*
68469035 GGTAAAATTACCGAAATACCCCTGTAG
1 GGTAGAATTACCGAAATACCCCTGTAG
*** *
68469062 GGTAGAATTATTAAAATACCCCTGTAA
1 GGTAGAATTACCGAAATACCCCTGTAG
* * *
68469089 GGTACAATTACTGAAATACCCCTGCAG
1 GGTAGAATTACCGAAATACCCCTGTAG
* * * *
68469116 GATAGAATTACTGAAATA-CCTTATAG
1 GGTAGAATTACCGAAATACCCCTGTAG
* *
68469142 GGTAGAAATACCGAAATACCCCTATAG
1 GGTAGAATTACCGAAATACCCCTGTAG
* *
68469169 GGTAGAATTACCGAGATACCCTTGTAG
1 GGTAGAATTACCGAAATACCCCTGTAG
*
68469196 GGTAAAATTACC
1 GGTAGAATTACC
68469208 ATTTTGCCCC
Statistics
Matches: 146, Mismatches: 26, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
26 20 0.14
27 126 0.86
ACGTcount: A:0.38, C:0.20, G:0.18, T:0.24
Consensus pattern (27 bp):
GGTAGAATTACCGAAATACCCCTGTAG
Found at i:68469903 original size:27 final size:26
Alignment explanation
Indices: 68469859--68469910 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
68469849 CTCGCTACAA
*
68469859 TCTGGTGGCCTCGCCACATATATCTGT
1 TCTGGTGACCTCGCCACA-ATATCTGT
* *
68469886 TCTGGTGACTTCGTCACAATATCTG
1 TCTGGTGACCTCGCCACAATATCTG
68469911 GCAACCTCGC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.17, C:0.27, G:0.21, T:0.35
Consensus pattern (26 bp):
TCTGGTGACCTCGCCACAATATCTGT
Found at i:68484879 original size:27 final size:27
Alignment explanation
Indices: 68484849--68485044 Score: 187
Period size: 27 Copynumber: 7.3 Consensus size: 27
68484839 TAAGTTGTAT
* * * *
68484849 AATTACCAAAATACTCTTGGAAGGTAG
1 AATTACCGAAATACCCCTGTAAGGTAG
*
68484876 AATTACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAAGGTAG
** *
68484903 AATTATTGAAATACCCTTGTAAGGTAG
1 AATTACCGAAATACCCCTGTAAGGTAG
*
68484930 AATTACCGAAATACCCCTGT-AGGATAA
1 AATTACCGAAATACCCCTGTAAGG-TAG
* * *
68484957 AATTACTGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAAGGTAG
* * *
68484984 AAATACCAAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAAGGTAG
* * * ** *
68485011 AATTATCGAGATACCCTTGTGGGGTAA
1 AATTACCGAAATACCCCTGTAAGGTAG
68485038 AATTACC
1 AATTACC
68485045 ATTTTGCCCC
Statistics
Matches: 138, Mismatches: 29, Indels: 4
0.81 0.17 0.02
Matches are distributed among these distances:
26 3 0.02
27 133 0.96
28 2 0.01
ACGTcount: A:0.37, C:0.18, G:0.19, T:0.26
Consensus pattern (27 bp):
AATTACCGAAATACCCCTGTAAGGTAG
Found at i:68484931 original size:54 final size:54
Alignment explanation
Indices: 68484857--68485044 Score: 259
Period size: 54 Copynumber: 3.5 Consensus size: 54
68484847 ATAATTACCA
* *
68484857 AAATACTCTTGGAAGGTAGAATTACCGAAATACCCCTGTAGGGTAGAATTATTG
1 AAATACCCTTGTAAGGTAGAATTACCGAAATACCCCTGTAGGGTAGAATTATTG
* * *
68484911 AAATACCCTTGTAAGGTAGAATTACCGAAATACCCCTGTAGGATAAAATTACTG
1 AAATACCCTTGTAAGGTAGAATTACCGAAATACCCCTGTAGGGTAGAATTATTG
* * * *
68484965 AAATACCCTTGTAGGGTAGAAATACCAAAATACCCCTGTAGGGTAGAATTATCG
1 AAATACCCTTGTAAGGTAGAATTACCGAAATACCCCTGTAGGGTAGAATTATTG
* ** *
68485019 AGATACCCTTGTGGGGTAAAATTACC
1 AAATACCCTTGTAAGGTAGAATTACC
68485045 ATTTTGCCCC
Statistics
Matches: 118, Mismatches: 16, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
54 118 1.00
ACGTcount: A:0.36, C:0.18, G:0.20, T:0.26
Consensus pattern (54 bp):
AAATACCCTTGTAAGGTAGAATTACCGAAATACCCCTGTAGGGTAGAATTATTG
Found at i:68484984 original size:81 final size:81
Alignment explanation
Indices: 68484876--68485044 Score: 221
Period size: 81 Copynumber: 2.1 Consensus size: 81
68484866 TGGAAGGTAG
* *** *
68484876 AATTACCGAAATACCCCTGTAGGGTAGAATTATTGAAATACCCTTGTAAGGTAGAATTACCGAAA
1 AATTACCGAAATACCCCTGTAGGGTAGAAATACCAAAATACCCCTGTAAGGTAGAATTACCGAAA
68484941 TACCCCTGTAGGATAA
66 TACCCCTGTAGGATAA
* * * * *
68484957 AATTACTGAAATACCCTTGTAGGGTAGAAATACCAAAATACCCCTGTAGGGTAGAATTATCGAGA
1 AATTACCGAAATACCCCTGTAGGGTAGAAATACCAAAATACCCCTGTAAGGTAGAATTACCGAAA
* * *
68485022 TACCCTTGTGGGGTAA
66 TACCCCTGTAGGATAA
68485038 AATTACC
1 AATTACC
68485045 ATTTTGCCCC
Statistics
Matches: 74, Mismatches: 14, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
81 74 1.00
ACGTcount: A:0.36, C:0.18, G:0.20, T:0.26
Consensus pattern (81 bp):
AATTACCGAAATACCCCTGTAGGGTAGAAATACCAAAATACCCCTGTAAGGTAGAATTACCGAAA
TACCCCTGTAGGATAA
Found at i:68485431 original size:19 final size:19
Alignment explanation
Indices: 68485407--68485452 Score: 74
Period size: 19 Copynumber: 2.4 Consensus size: 19
68485397 TTTTGGGCTT
*
68485407 AATGGGCTGAAAATGGGCC
1 AATGGGCCGAAAATGGGCC
68485426 AATGGGCCGAAAATGGGCC
1 AATGGGCCGAAAATGGGCC
*
68485445 AATAGGCC
1 AATGGGCC
68485453 CACTTTGGTA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.33, C:0.20, G:0.35, T:0.13
Consensus pattern (19 bp):
AATGGGCCGAAAATGGGCC
Found at i:68491714 original size:11 final size:11
Alignment explanation
Indices: 68491700--68491748 Score: 55
Period size: 11 Copynumber: 4.5 Consensus size: 11
68491690 TGGTGATATA
68491700 GTGGTCGTATG
1 GTGGTCGTATG
* *
68491711 GTGGTGGTGTG
1 GTGGTCGTATG
68491722 GTGG-CGATATG
1 GTGGTCG-TATG
*
68491733 GTGGTTGTATG
1 GTGGTCGTATG
68491744 GTGGT
1 GTGGT
68491749 GTTTCGATTT
Statistics
Matches: 31, Mismatches: 5, Indels: 4
0.77 0.12 0.10
Matches are distributed among these distances:
10 1 0.03
11 29 0.94
12 1 0.03
ACGTcount: A:0.08, C:0.04, G:0.51, T:0.37
Consensus pattern (11 bp):
GTGGTCGTATG
Found at i:68491725 original size:22 final size:23
Alignment explanation
Indices: 68491688--68491748 Score: 72
Period size: 22 Copynumber: 2.7 Consensus size: 23
68491678 GTGGTGCAAG
* *
68491688 GGTGGTGATATAGTGGTCG-TAT
1 GGTGGTGGTATGGTGGTCGATAT
*
68491710 GGTGGTGGTGTGGTGG-CGATAT
1 GGTGGTGGTATGGTGGTCGATAT
*
68491732 GGTGGTTGTATGGTGGT
1 GGTGGTGGTATGGTGGT
68491749 GTTTCGATTT
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
21 2 0.06
22 30 0.94
ACGTcount: A:0.11, C:0.03, G:0.49, T:0.36
Consensus pattern (23 bp):
GGTGGTGGTATGGTGGTCGATAT
Found at i:68502465 original size:42 final size:43
Alignment explanation
Indices: 68502379--68502559 Score: 190
Period size: 43 Copynumber: 4.2 Consensus size: 43
68502369 AGTCATCACT
* * * * *
68502379 TTTAGCGGCG-TTTGAACGAAAAACGCCGCTAAATGTAGATACC
1 TTTAGCGGCGCTTT-ACCCAAAAACGCCGCTAAAGGTATAGACC
*
68502422 TTTAGCGGCGCTTTA-CCATAAACGCCGCTAATA-GTATAGACC
1 TTTAGCGGCGCTTTACCCAAAAACGCCGCTAA-AGGTATAGACC
**
68502464 TTTAGCGGCGC-TTACCCAAAAAACGCCGCTAAAGGTGCAGACC
1 TTTAGCGGCGCTTTACCC-AAAAACGCCGCTAAAGGTATAGACC
* * * * *
68502507 TTTAGCGGCGTTTTAGCCACAAACGCCACTAAAGGTGTAGACC
1 TTTAGCGGCGCTTTACCCAAAAACGCCGCTAAAGGTATAGACC
68502550 TTTAGCGGCG
1 TTTAGCGGCG
68502560 TTTCCGGGGA
Statistics
Matches: 120, Mismatches: 12, Indels: 12
0.83 0.08 0.08
Matches are distributed among these distances:
41 3 0.03
42 35 0.29
43 74 0.62
44 8 0.07
ACGTcount: A:0.29, C:0.25, G:0.23, T:0.23
Consensus pattern (43 bp):
TTTAGCGGCGCTTTACCCAAAAACGCCGCTAAAGGTATAGACC
Found at i:68502579 original size:86 final size:85
Alignment explanation
Indices: 68502397--68502689 Score: 241
Period size: 86 Copynumber: 3.4 Consensus size: 85
68502387 CGTTTGAACG
* * * * * *
68502397 AAAAACGCCGCTAAATGTAG-ATACCTTTAGCGGCGCTTTACCATAAACGCCGCTAATAGTATAG
1 AAAAACACCGCTAAAAGT-GCAGACCTTTAGCGGCGTTTTACCACAAACGCCACTAATAGTATAG
68502461 ACCTTTAGCGGCGCTTACCCA
65 ACCTTTAGCGGCGCTTACCCA
* * *
68502482 AAAAACGCCGCTAAAGGTGCAGACCTTTAGCGGCGTTTTAGCCACAAACGCCACTAA-AGGTGTA
1 AAAAACACCGCTAAAAGTGCAGACCTTTAGCGGCGTTTTA-CCACAAACGCCACTAATA-GTATA
* **
68502546 GACCTTTAGCGGCG-TTTCCGGG
64 GACCTTTAGCGGCGCTTACC-CA
* * * * **** * * *
68502568 GAAAGCACCGCTAAAAGTGCGGACCTTTAGCGGCATTTTTTTGCAAAGCGCCGCTAAAAGTACAG
1 AAAAACACCGCTAAAAGTGCAGACCTTTAGCGGCGTTTTACCACAAA-CGCCACTAATAGTATAG
* *
68502633 ACCTTTAGCGGAGCTTTAGCCA
65 ACCTTTAGCGGCGC-TTACCCA
* ** * *
68502655 AAAAAAACCGCTAAATTTACAGACCTATAGCGGCG
1 AAAAACACCGCTAAAAGTGCAGACCTTTAGCGGCG
68502690 CTTACACCAA
Statistics
Matches: 164, Mismatches: 36, Indels: 14
0.77 0.17 0.07
Matches are distributed among these distances:
84 1 0.01
85 44 0.27
86 89 0.54
87 27 0.16
88 3 0.02
ACGTcount: A:0.30, C:0.25, G:0.23, T:0.22
Consensus pattern (85 bp):
AAAAACACCGCTAAAAGTGCAGACCTTTAGCGGCGTTTTACCACAAACGCCACTAATAGTATAGA
CCTTTAGCGGCGCTTACCCA
Found at i:68502582 original size:43 final size:43
Alignment explanation
Indices: 68502379--68502601 Score: 134
Period size: 43 Copynumber: 5.2 Consensus size: 43
68502369 AGTCATCACT
* * * * * * *
68502379 TTTAGCGGCGTTTGAACGAAAAACGCCGCTAAATGTAG-ATACC
1 TTTAGCGGCGTTTCAGCCACAAACACCGCTAAAGGT-GCAGACC
* * **
68502422 TTTAGCGGCGCTTT-A-CCATAAACGCCGCTAATA-GTATAGACC
1 TTTAGCGGCG-TTTCAGCCACAAACACCGCTAA-AGGTGCAGACC
* * * *
68502464 TTTAGCGGCGCTT-ACCCAAAAAACGCCGCTAAAGGTGCAGACC
1 TTTAGCGGCGTTTCAGCC-ACAAACACCGCTAAAGGTGCAGACC
* * * *
68502507 TTTAGCGGCGTTTTAGCCACAAACGCCACTAAAGGTGTAGACC
1 TTTAGCGGCGTTTCAGCCACAAACACCGCTAAAGGTGCAGACC
* ** * * *
68502550 TTTAGCGGCGTTTCCGGGGA-AAGCACCGCTAAAAGTGCGGACC
1 TTTAGCGGCGTTT-CAGCCACAAACACCGCTAAAGGTGCAGACC
68502593 TTTAGCGGC
1 TTTAGCGGC
68502602 ATTTTTTTGC
Statistics
Matches: 149, Mismatches: 23, Indels: 16
0.79 0.12 0.09
Matches are distributed among these distances:
41 3 0.02
42 33 0.22
43 105 0.70
44 8 0.05
ACGTcount: A:0.28, C:0.26, G:0.25, T:0.22
Consensus pattern (43 bp):
TTTAGCGGCGTTTCAGCCACAAACACCGCTAAAGGTGCAGACC
Found at i:68502700 original size:44 final size:44
Alignment explanation
Indices: 68502618--68502702 Score: 109
Period size: 44 Copynumber: 1.9 Consensus size: 44
68502608 TTGCAAAGCG
* *
68502618 CCGCTAAAAGTACAGACCTTTAGCGGAGCTTTAGCCAAAAAAAA
1 CCGCTAAAAGTACAGACCTATAGCGGAGCTTTAACCAAAAAAAA
** *
68502662 CCGCTAAATTTACAGACCTATAGCGGCGC-TTACACCAAAAA
1 CCGCTAAAAGTACAGACCTATAGCGGAGCTTTA-ACCAAAAA
68502703 TGCCTTTAGT
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
43 3 0.09
44 32 0.91
ACGTcount: A:0.39, C:0.26, G:0.16, T:0.19
Consensus pattern (44 bp):
CCGCTAAAAGTACAGACCTATAGCGGAGCTTTAACCAAAAAAAA
Found at i:68502834 original size:157 final size:157
Alignment explanation
Indices: 68502575--68503020 Score: 883
Period size: 157 Copynumber: 2.8 Consensus size: 157
68502565 GGGGAAAGCA
68502575 CCGCTAAAAGTGCGGACCTTTAGCGGCATTTTTTTGCAAAGCGCCGCTAAAAGTACAGACCTTTA
1 CCGCTAAAAGTGCGGACCTTTAGCGGCATTTTTTTGCAAAGCGCCGCTAAAAGTACAGACCTTTA
68502640 GCGGAGCTTTAGCCAAAAAAAACCGCTAAATTTACAGACCTATAGCGGCGCTTACACCAAAAATG
66 GCGGAGCTTTAGCCAAAAAAAACCGCTAAATTTACAGACCTATAGCGGCGCTTACACCAAAAATG
68502705 CCTTTAGTGGCGTTTGTGGCTAAAACG
131 CCTTTAGTGGCGTTTGTGGCTAAAACG
68502732 CCGCTAAAAGTGCGGACCTTTAGCGGCATTTTTTTGCAAAGCGCCGCTAAAAGTACAGACCTTTA
1 CCGCTAAAAGTGCGGACCTTTAGCGGCATTTTTTTGCAAAGCGCCGCTAAAAGTACAGACCTTTA
68502797 GCGGAGCTTTAGCCAAAAAAAACCGCTAAATTTACAGACCTATAGCGGCGCTTACACCAAAAATG
66 GCGGAGCTTTAGCCAAAAAAAACCGCTAAATTTACAGACCTATAGCGGCGCTTACACCAAAAATG
68502862 CCTTTAGTGGCGTTTGTGGCTAAAACG
131 CCTTTAGTGGCGTTTGTGGCTAAAACG
68502889 CCGCTAAAAGTGCGGACCTTTAGCGGCATTTTTTTGCAAAGCGCCGCTAAAAGTACAGACCTTTA
1 CCGCTAAAAGTGCGGACCTTTAGCGGCATTTTTTTGCAAAGCGCCGCTAAAAGTACAGACCTTTA
*
68502954 GCGGAGCTTTAGCCAAAAAAAACTGCTAAATTTACAGACCTATAGCGGCGCTTACACCAAAAATG
66 GCGGAGCTTTAGCCAAAAAAAACCGCTAAATTTACAGACCTATAGCGGCGCTTACACCAAAAATG
68503019 CC
131 CC
68503021 GCCAAAAGTA
Statistics
Matches: 288, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
157 288 1.00
ACGTcount: A:0.31, C:0.24, G:0.21, T:0.24
Consensus pattern (157 bp):
CCGCTAAAAGTGCGGACCTTTAGCGGCATTTTTTTGCAAAGCGCCGCTAAAAGTACAGACCTTTA
GCGGAGCTTTAGCCAAAAAAAACCGCTAAATTTACAGACCTATAGCGGCGCTTACACCAAAAATG
CCTTTAGTGGCGTTTGTGGCTAAAACG
Found at i:68502857 original size:44 final size:44
Alignment explanation
Indices: 68502775--68502859 Score: 109
Period size: 44 Copynumber: 1.9 Consensus size: 44
68502765 TTGCAAAGCG
* *
68502775 CCGCTAAAAGTACAGACCTTTAGCGGAGCTTTAGCCAAAAAAAA
1 CCGCTAAAAGTACAGACCTATAGCGGAGCTTTAACCAAAAAAAA
** *
68502819 CCGCTAAATTTACAGACCTATAGCGGCGC-TTACACCAAAAA
1 CCGCTAAAAGTACAGACCTATAGCGGAGCTTTA-ACCAAAAA
68502860 TGCCTTTAGT
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
43 3 0.09
44 32 0.91
ACGTcount: A:0.39, C:0.26, G:0.16, T:0.19
Consensus pattern (44 bp):
CCGCTAAAAGTACAGACCTATAGCGGAGCTTTAACCAAAAAAAA
Found at i:68503044 original size:44 final size:42
Alignment explanation
Indices: 68502931--68503093 Score: 146
Period size: 44 Copynumber: 3.8 Consensus size: 42
68502921 TTTGCAAAGC
* * * *
68502931 GCCGCTAAAAGTACAGACCTTTAGCGGAGCTTTAGCCAAAAAAA
1 GCCGCCAAAAGTACAGACCTTTAGCGGCGC-TTAACC-AAAAAT
* * * ** *
68502975 ACTGCTAAATTTACAGACCTATAGCGGCGCTTACACCAAAAAT
1 GCCGCCAAAAGTACAGACCTTTAGCGGCGCTTA-ACCAAAAAT
* *
68503018 GCCGCCAAAAGTACAGACCTTTTAGCGGCGCTTTATCCACAAAT
1 GCCGCCAAAAGTACAGACC-TTTAGCGGCGC-TTAACCAAAAAT
* * *
68503062 GCCGCCAAAAGTAGAGTCCTTTAGCGACGCTT
1 GCCGCCAAAAGTACAGACCTTTAGCGGCGCTT
68503094 TCCCCACAAA
Statistics
Matches: 97, Mismatches: 19, Indels: 8
0.78 0.15 0.06
Matches are distributed among these distances:
42 2 0.02
43 32 0.33
44 60 0.62
45 3 0.03
ACGTcount: A:0.33, C:0.26, G:0.19, T:0.21
Consensus pattern (42 bp):
GCCGCCAAAAGTACAGACCTTTAGCGGCGCTTAACCAAAAAT
Found at i:68503101 original size:43 final size:44
Alignment explanation
Indices: 68502986--68503109 Score: 146
Period size: 44 Copynumber: 2.9 Consensus size: 44
68502976 CTGCTAAATT
* * *
68502986 TACAGACC-TATAGCGGCGCTTACACCAAAAATGCCGCCAAAAG
1 TACAGACCTTTTAGCGGCGCTTTCACCACAAATGCCGCCAAAAG
68503029 TACAGACCTTTTAGCGGCGCTTT-ATCCACAAATGCCGCCAAAAG
1 TACAGACCTTTTAGCGGCGCTTTCA-CCACAAATGCCGCCAAAAG
* * * * *
68503073 TAGAGTCC-TTTAGCGACGCTTTCCCCACAAACGCCGC
1 TACAGACCTTTTAGCGGCGCTTTCACCACAAATGCCGC
68503110 TAAATTTACA
Statistics
Matches: 70, Mismatches: 8, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
43 34 0.49
44 36 0.51
ACGTcount: A:0.30, C:0.32, G:0.19, T:0.19
Consensus pattern (44 bp):
TACAGACCTTTTAGCGGCGCTTTCACCACAAATGCCGCCAAAAG
Found at i:68503466 original size:21 final size:21
Alignment explanation
Indices: 68503416--68503467 Score: 86
Period size: 21 Copynumber: 2.5 Consensus size: 21
68503406 TCCGCCTCTT
*
68503416 TCGCTGCTACCGCTGCCTCCC
1 TCGCTGCTGCCGCTGCCTCCC
68503437 TCGCTGCTGCCGCTGCCTCCC
1 TCGCTGCTGCCGCTGCCTCCC
*
68503458 TCTCTGCTGC
1 TCGCTGCTGC
68503468 ATCAGCTAGA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.02, C:0.50, G:0.21, T:0.27
Consensus pattern (21 bp):
TCGCTGCTGCCGCTGCCTCCC
Found at i:68509052 original size:9 final size:9
Alignment explanation
Indices: 68509038--68509174 Score: 103
Period size: 9 Copynumber: 14.6 Consensus size: 9
68509028 ATGTATTAGT
68509038 TAAGTTATG
1 TAAGTTATG
68509047 TAAGTTATG
1 TAAGTTATG
*
68509056 TGAGTTATG
1 TAAGTTATG
*
68509065 TAAGTTGTTATA
1 TAA---GTTATG
*
68509077 TACGTTATG
1 TAAGTTATG
* *
68509086 TGAGTTATA
1 TAAGTTATG
*
68509095 TAAATTATG
1 TAAGTTATG
68509104 TAAGTTATG
1 TAAGTTATG
68509113 TAAGTTATG
1 TAAGTTATG
*
68509122 TAGGTTGTTATG
1 TA---AGTTATG
*
68509134 TAAATTATG
1 TAAGTTATG
**
68509143 TAAGTTACA
1 TAAGTTATG
*
68509152 TGAGTTATG
1 TAAGTTATG
* *
68509161 TAACTTATT
1 TAAGTTATG
68509170 TAAGT
1 TAAGT
68509175 AATGATCAAT
Statistics
Matches: 97, Mismatches: 25, Indels: 12
0.72 0.19 0.09
Matches are distributed among these distances:
9 82 0.85
12 15 0.15
ACGTcount: A:0.32, C:0.02, G:0.20, T:0.45
Consensus pattern (9 bp):
TAAGTTATG
Found at i:68509130 original size:57 final size:57
Alignment explanation
Indices: 68509042--68509174 Score: 167
Period size: 57 Copynumber: 2.3 Consensus size: 57
68509032 ATTAGTTAAG
* ** * *
68509042 TTATGTAAGTTATGTGAGTTATGTAAGTTGTTATATACGTTATGTGAGTTATATAAA
1 TTATGTAAGTTATGTAAGTTATGTAAGTTGTTATATAAATTATGTAAGTTACATAAA
* * * *
68509099 TTATGTAAGTTATGTAAGTTATGTAGGTTGTTATGTAAATTATGTAAGTTACATGAG
1 TTATGTAAGTTATGTAAGTTATGTAAGTTGTTATATAAATTATGTAAGTTACATAAA
* *
68509156 TTATGTAACTTATTTAAGT
1 TTATGTAAGTTATGTAAGT
68509175 AATGATCAAT
Statistics
Matches: 65, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
57 65 1.00
ACGTcount: A:0.32, C:0.02, G:0.20, T:0.46
Consensus pattern (57 bp):
TTATGTAAGTTATGTAAGTTATGTAAGTTGTTATATAAATTATGTAAGTTACATAAA
Found at i:68511134 original size:25 final size:26
Alignment explanation
Indices: 68511079--68511134 Score: 62
Period size: 25 Copynumber: 2.2 Consensus size: 26
68511069 TTATAATTAA
* * *
68511079 ATTAATATAATATATAAAAATTTAGG
1 ATTAATATAAGATAAAAAAATTTACG
*
68511105 A-TAATATTAGATAAAAAAATTT-CG
1 ATTAATATAAGATAAAAAAATTTACG
68511129 ATTAAT
1 ATTAAT
68511135 TAAAAAAATT
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
24 2 0.08
25 22 0.88
26 1 0.04
ACGTcount: A:0.54, C:0.02, G:0.07, T:0.38
Consensus pattern (26 bp):
ATTAATATAAGATAAAAAAATTTACG
Found at i:68512602 original size:22 final size:22
Alignment explanation
Indices: 68512534--68512610 Score: 72
Period size: 22 Copynumber: 3.6 Consensus size: 22
68512524 ACAAAATCAG
*
68512534 ACCCTAAAC-CTAAATC-TTAA
1 ACCCTAAACTCTAAAACATTAA
*
68512554 ACCCTAAACTCTAAACCA-TAA
1 ACCCTAAACTCTAAAACATTAA
*
68512575 ACCCCTAACCT-TATAAACATTAA
1 A-CCCTAAACTCTA-AAACATTAA
*
68512598 ACCCTAAATTCTA
1 ACCCTAAACTCTA
68512611 GATACTAAAT
Statistics
Matches: 46, Mismatches: 5, Indels: 9
0.77 0.08 0.15
Matches are distributed among these distances:
20 9 0.20
21 12 0.26
22 19 0.41
23 6 0.13
ACGTcount: A:0.44, C:0.31, G:0.00, T:0.25
Consensus pattern (22 bp):
ACCCTAAACTCTAAAACATTAA
Found at i:68513756 original size:7 final size:7
Alignment explanation
Indices: 68513744--68513769 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
68513734 ATTAAGATCA
68513744 TAAACAC
1 TAAACAC
68513751 TAAACAC
1 TAAACAC
68513758 TAAACAC
1 TAAACAC
68513765 TAAAC
1 TAAAC
68513770 CTCAAACCCA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.58, C:0.27, G:0.00, T:0.15
Consensus pattern (7 bp):
TAAACAC
Found at i:68513853 original size:35 final size:35
Alignment explanation
Indices: 68513788--68513869 Score: 94
Period size: 35 Copynumber: 2.3 Consensus size: 35
68513778 CAAAATAACA
** *
68513788 AAACCCTAAACCATAAAATTAACATTTTAAATCTT
1 AAACCCTAAACCATAAAATTAACACCTTAAATATT
**
68513823 AAACCCTAAACCATAGACCTTAA-ACCTTAAATATT
1 AAACCCTAAACCATA-AAATTAACACCTTAAATATT
*
68513858 AAACCGTAAACC
1 AAACCCTAAACC
68513870 CAAAAAATAA
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
35 35 0.88
36 5 0.12
ACGTcount: A:0.48, C:0.24, G:0.02, T:0.26
Consensus pattern (35 bp):
AAACCCTAAACCATAAAATTAACACCTTAAATATT
Found at i:68514171 original size:124 final size:123
Alignment explanation
Indices: 68513945--68514326 Score: 446
Period size: 124 Copynumber: 3.1 Consensus size: 123
68513935 GCGATTCTCC
* * * ***
68513945 AAAAATGCCGCTAATGCTCAGACTTTTTGCGGCGTTTTTCCAAAAACGCCGCTAATACTCAGACT
1 AAAAACGCCGCTAATGCTCAGACTTTTGGCGGTGTTTTGGTAAAAACGCCGCTAATACTCAGACT
* * *
68514010 TTTGGCGGTGTTTTCCCAAAAACGCCGCTAATACTCAGACTTTTGGCGGCGTTTTTAT
66 TTTGGCGGCGTTTTTCCAAAAACGCCGCTAATACTCAGACTTTTGGCGGCGTTTTTCT
* ** *
68514068 AAAAACGCCGCTAATGCTCAGACCTTTGGCGGTGTTTTGGTAAAAAACGCCGCTAACGCTCATAC
1 AAAAACGCCGCTAATGCTCAGACTTTTGGCGGTGTTTTGGT-AAAAACGCCGCTAATACTCAGAC
* * * *
68514133 CTTTGGCGGCATTTTTCTAAAAACGCCGCTAATGCTCAGACTTTTGGCGGCGTTTTTCT
65 TTTTGGCGGCGTTTTTCCAAAAACGCCGCTAATACTCAGACTTTTGGCGGCGTTTTTCT
* * * * *
68514192 AAAAATGCCGCTAGTGCTCAGACTTTTGG-GGTGTTTTTGG-AAAAATGCCGCGAATTCTCAGAC
1 AAAAACGCCGCTAATGCTCAGACTTTTGGCGGTG-TTTTGGTAAAAACGCCGCTAATACTCAGAC
*** * * * *
68514255 TTTTTATGGCGTTTCTT-GAAAAACGCCGCTAATTCTCAGACTTTTGGCGGCATTTTTCC
65 TTTTGGCGGCGTTT-TTCCAAAAACGCCGCTAATACTCAGACTTTTGGCGGCGTTTTTCT
*
68514314 GAAAACGCCGCTA
1 AAAAACGCCGCTA
68514327 TTTCTCGACT
Statistics
Matches: 220, Mismatches: 36, Indels: 7
0.84 0.14 0.03
Matches are distributed among these distances:
122 76 0.35
123 40 0.18
124 104 0.47
ACGTcount: A:0.24, C:0.24, G:0.21, T:0.31
Consensus pattern (123 bp):
AAAAACGCCGCTAATGCTCAGACTTTTGGCGGTGTTTTGGTAAAAACGCCGCTAATACTCAGACT
TTTGGCGGCGTTTTTCCAAAAACGCCGCTAATACTCAGACTTTTGGCGGCGTTTTTCT
Found at i:68514332 original size:41 final size:41
Alignment explanation
Indices: 68513923--68514326 Score: 436
Period size: 41 Copynumber: 9.9 Consensus size: 41
68513913 AATTCAAAAA
* * * * *
68513923 AGACGTTTAGCGGCGATTCTCCAAAAATGCCGCTAATGCTC
1 AGACTTTTGGCGGCGTTTTTCCAAAAACGCCGCTAATGCTC
* *
68513964 AGACTTTTTGCGGCGTTTTTCCAAAAACGCCGCTAATACTC
1 AGACTTTTGGCGGCGTTTTTCCAAAAACGCCGCTAATGCTC
* * *
68514005 AGACTTTTGGCGGTGTTTTCCCAAAAACGCCGCTAATACTC
1 AGACTTTTGGCGGCGTTTTTCCAAAAACGCCGCTAATGCTC
**
68514046 AGACTTTTGGCGGCGTTTTTATAAAAACGCCGCTAATGCTC
1 AGACTTTTGGCGGCGTTTTTCCAAAAACGCCGCTAATGCTC
* * * *
68514087 AGACCTTTGGCGGTGTTTTGGT-AAAAAACGCCGCTAACGCTC
1 AGACTTTTGGCGGCGTTTT--TCCAAAAACGCCGCTAATGCTC
* * * *
68514129 ATACCTTTGGCGGCATTTTTCTAAAAACGCCGCTAATGCTC
1 AGACTTTTGGCGGCGTTTTTCCAAAAACGCCGCTAATGCTC
* * *
68514170 AGACTTTTGGCGGCGTTTTTCTAAAAATGCCGCTAGTGCTC
1 AGACTTTTGGCGGCGTTTTTCCAAAAACGCCGCTAATGCTC
* ** * * *
68514211 AGACTTTTGG-GGTGTTTTTGGAAAAATGCCGCGAATTCTC
1 AGACTTTTGGCGGCGTTTTTCCAAAAACGCCGCTAATGCTC
*** * *
68514251 AGACTTTTTATGGCGTTTCTT-GAAAAACGCCGCTAATTCTC
1 AGACTTTTGGCGGCGTTT-TTCCAAAAACGCCGCTAATGCTC
* *
68514292 AGACTTTTGGCGGCATTTTTCCGAAAACGCCGCTA
1 AGACTTTTGGCGGCGTTTTTCCAAAAACGCCGCTA
68514327 TTTCTCGACT
Statistics
Matches: 312, Mismatches: 45, Indels: 12
0.85 0.12 0.03
Matches are distributed among these distances:
40 35 0.11
41 240 0.77
42 36 0.12
43 1 0.00
ACGTcount: A:0.24, C:0.24, G:0.22, T:0.31
Consensus pattern (41 bp):
AGACTTTTGGCGGCGTTTTTCCAAAAACGCCGCTAATGCTC
Found at i:68514863 original size:42 final size:42
Alignment explanation
Indices: 68514772--68514869 Score: 124
Period size: 42 Copynumber: 2.3 Consensus size: 42
68514762 ATTAATTGAT
* *
68514772 ATTTAATTTGCATGTTAAGCATGCCGACTATGATAAACTAAG
1 ATTTGATTTGCATGCTAAGCATGCCGACTATGATAAACTAAG
* * * * *
68514814 ATCTGATTTGCATGCTAAGCATGCCGACTATGTTGATCTTAG
1 ATTTGATTTGCATGCTAAGCATGCCGACTATGATAAACTAAG
*
68514856 ATTTGATTAGCATG
1 ATTTGATTTGCATG
68514870 ATAACTTTAC
Statistics
Matches: 47, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
42 47 1.00
ACGTcount: A:0.30, C:0.15, G:0.19, T:0.36
Consensus pattern (42 bp):
ATTTGATTTGCATGCTAAGCATGCCGACTATGATAAACTAAG
Found at i:68515026 original size:24 final size:24
Alignment explanation
Indices: 68514978--68515039 Score: 74
Period size: 24 Copynumber: 2.6 Consensus size: 24
68514968 AAATTAAATC
*
68514978 GCTTTTCCACAACACTATTGTGTG
1 GCTTTTCCACAACACTATTGAGTG
68515002 GCTTTTCCACAACA-TATTTGAGTG
1 GCTTTTCCACAACACTA-TTGAGTG
*
68515026 G-TTTGACCACAACA
1 GCTTT-TCCACAACA
68515040 AGCAGCTTGT
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
23 5 0.15
24 29 0.85
ACGTcount: A:0.26, C:0.24, G:0.16, T:0.34
Consensus pattern (24 bp):
GCTTTTCCACAACACTATTGAGTG
Found at i:68517793 original size:27 final size:27
Alignment explanation
Indices: 68517762--68517939 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
68517752 TAAATTGTAC
68517762 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
68517789 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
68517815 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
68517843 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
68517871 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
68517898 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
68517925 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
68517940 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:68517876 original size:82 final size:81
Alignment explanation
Indices: 68517763--68517918 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
68517753 AAATTGTACA
* *
68517763 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
68517827 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
68517844 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
68517909 TGCGAGTTGA
65 TGCGAATTGA
68517919 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:68517930 original size:82 final size:81
Alignment explanation
Indices: 68517759--68517939 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
68517749 GATTAAATTG
* *
68517759 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
68517824 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
68517840 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
68517904 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
68517922 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
68517940 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:68525856 original size:27 final size:27
Alignment explanation
Indices: 68525825--68526002 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
68525815 TAAATTGTAC
68525825 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
68525852 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
68525878 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
68525906 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
68525934 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
68525961 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
68525988 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
68526003 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:68525939 original size:82 final size:81
Alignment explanation
Indices: 68525826--68525981 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
68525816 AAATTGTACA
* *
68525826 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
68525890 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
68525907 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
68525972 TGCGAGTTGA
65 TGCGAATTGA
68525982 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:68525993 original size:82 final size:81
Alignment explanation
Indices: 68525822--68526002 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
68525812 GATTAAATTG
* *
68525822 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
68525887 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
68525903 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
68525967 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
68525985 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
68526003 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:68530301 original size:22 final size:22
Alignment explanation
Indices: 68530267--68530317 Score: 68
Period size: 22 Copynumber: 2.3 Consensus size: 22
68530257 GAATAGTACC
68530267 ACACGCCCATGTGGCTTG-TGTG
1 ACACGCCCATGTGGC-TGATGTG
* *
68530289 ACACGCTCGTGTGGCTGATGTG
1 ACACGCCCATGTGGCTGATGTG
68530311 ACACGCC
1 ACACGCC
68530318 TGTGGAGGGC
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
21 2 0.08
22 23 0.92
ACGTcount: A:0.16, C:0.29, G:0.31, T:0.24
Consensus pattern (22 bp):
ACACGCCCATGTGGCTGATGTG
Found at i:68530413 original size:38 final size:38
Alignment explanation
Indices: 68530362--68530437 Score: 152
Period size: 38 Copynumber: 2.0 Consensus size: 38
68530352 GACACGCTTG
68530362 TTTCCTCTACCCGTGGAGCTCTCTAACTTGTAGCTTAT
1 TTTCCTCTACCCGTGGAGCTCTCTAACTTGTAGCTTAT
68530400 TTTCCTCTACCCGTGGAGCTCTCTAACTTGTAGCTTAT
1 TTTCCTCTACCCGTGGAGCTCTCTAACTTGTAGCTTAT
68530438 AAATCAACTA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.16, C:0.29, G:0.16, T:0.39
Consensus pattern (38 bp):
TTTCCTCTACCCGTGGAGCTCTCTAACTTGTAGCTTAT
Found at i:68532580 original size:35 final size:35
Alignment explanation
Indices: 68532529--68532597 Score: 129
Period size: 35 Copynumber: 2.0 Consensus size: 35
68532519 ATTAAACTTC
*
68532529 TACACTTTATTTAATTTAGTCCTTACACTAAATTT
1 TACACTTTATTCAATTTAGTCCTTACACTAAATTT
68532564 TACACTTTATTCAATTTAGTCCTTACACTAAATT
1 TACACTTTATTCAATTTAGTCCTTACACTAAATT
68532598 AACCTTAATT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 33 1.00
ACGTcount: A:0.32, C:0.19, G:0.03, T:0.46
Consensus pattern (35 bp):
TACACTTTATTCAATTTAGTCCTTACACTAAATTT
Found at i:68532625 original size:19 final size:20
Alignment explanation
Indices: 68532591--68532628 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
68532581 AGTCCTTACA
68532591 CTAAATTAACCTTAATTAAG
1 CTAAATTAACCTTAATTAAG
*
68532611 CTAAATTTA-CTTAATTAA
1 CTAAATTAACCTTAATTAA
68532629 AATCTAATTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.45, C:0.13, G:0.03, T:0.39
Consensus pattern (20 bp):
CTAAATTAACCTTAATTAAG
Found at i:68535171 original size:44 final size:43
Alignment explanation
Indices: 68535109--68535262 Score: 125
Period size: 44 Copynumber: 3.5 Consensus size: 43
68535099 ATCCTGTTCT
*
68535109 ACTGTAACTTCAGAGAGATAAAGATTGTGACTTCAACCTGCTCC
1 ACTGCAACTTCAGAGAGATAAAGATTGT-ACTTCAACCTGCTCC
* ** *
68535153 ACTGCAACTTCAGGGAGAT-AAGATCTGCTATCTTCAGTCTGCTTC
1 ACTGCAACTTCAGAGAGATAAAGAT-TG-TA-CTTCAACCTGCTCC
* * * * **
68535198 ACTGTAACTTCAGGGAGA-GAAGACTTACTACTTCAACCCAC-CC
1 ACTGCAACTTCAGAGAGATAAAGA-TT-GTACTTCAACCTGCTCC
68535241 TACTGCAACTTCAGAGAGATAA
1 -ACTGCAACTTCAGAGAGATAA
68535263 TGTTTGTTAT
Statistics
Matches: 87, Mismatches: 15, Indels: 15
0.74 0.13 0.13
Matches are distributed among these distances:
43 6 0.07
44 43 0.49
45 37 0.43
46 1 0.01
ACGTcount: A:0.31, C:0.25, G:0.18, T:0.26
Consensus pattern (43 bp):
ACTGCAACTTCAGAGAGATAAAGATTGTACTTCAACCTGCTCC
Found at i:68535201 original size:45 final size:43
Alignment explanation
Indices: 68535056--68535220 Score: 127
Period size: 45 Copynumber: 3.7 Consensus size: 43
68535046 TCTACTGCAA
* * * * *
68535056 CTGCTCCACTGCAAATTCAGGGAGATATGGTTTGCGTATTTTTAT
1 CTGCTCCACTGCAACTTCAGGGAGATA-AGATTGC-TATCTTCAT
* * * * *
68535101 CCTGTTCTACTGTAACTTCAGAGAGATAAAGATTG-TGA-CTTCAAC
1 -CTGCTCCACTGCAACTTCAGGGAGAT-AAGATTGCT-ATCTTC-AT
68535146 CTGCTCCACTGCAACTTCAGGGAGATAAGATCTGCTATCTTCAGT
1 CTGCTCCACTGCAACTTCAGGGAGATAAGAT-TGCTATCTTCA-T
* * *
68535191 CTGCTTCACTGTAACTTCAGGGAGAGAAGA
1 CTGCTCCACTGCAACTTCAGGGAGATAAGA
68535221 CTTACTACTT
Statistics
Matches: 94, Mismatches: 18, Indels: 15
0.74 0.14 0.12
Matches are distributed among these distances:
43 5 0.05
44 29 0.31
45 34 0.36
46 25 0.27
47 1 0.01
ACGTcount: A:0.27, C:0.21, G:0.21, T:0.31
Consensus pattern (43 bp):
CTGCTCCACTGCAACTTCAGGGAGATAAGATTGCTATCTTCAT
Done.