Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr8
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: 78745976
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 2640508 characters in sequence are not A, C, G, or T
File 202 of 235
Found at i:68809017 original size:16 final size:17
Alignment explanation
Indices: 68808996--68809028 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
68808986 CAATTACAAG
68808996 AGAAAAGAGG-AGAAAA
1 AGAAAAGAGGAAGAAAA
68809012 AGAAAAGAGGAAGAAAA
1 AGAAAAGAGGAAGAAAA
68809029 TAAAAAGCGA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.62
17 6 0.38
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (17 bp):
AGAAAAGAGGAAGAAAA
Found at i:68815608 original size:105 final size:104
Alignment explanation
Indices: 68815315--68815799 Score: 535
Period size: 105 Copynumber: 4.6 Consensus size: 104
68815305 TATTATTAAG
* * * * * *
68815315 GTTAGCTGATTTAAGATCGCAACTCTTAAACAGCTCGATGACCTATGTTAACAACTGGTATTATT
1 GTTAGTTGATTTAAGATCGCAACTCCTAAACAGCTCAATGACCTATGTTCACAGCTGATATTATT
*
68815380 AAGGCTAGTTGATTTAAGATCGCTACC-TCTGATTATTTGA
66 AAGGCTAGTTGATTTAAGATCGC-ACCTTC-AATTATTTGA
* * * * * ** *
68815420 GTTTGCTT-ATTTAAGATCGTAACTCCT-AACAGCTCATTGACCTACGTTCATAATTAATATTAT
1 GTTAG-TTGATTTAAGATCGCAACTCCTAAACAGCTCAATGACCTATGTTCACAGCTGATATTAT
* ** *
68815483 TAAGGCTAGCTGATTTAAGATCATAGCCTTCAATTATTCGA
65 TAAGGCTAGTTGATTTAAGATCGCA-CCTTCAATTATTTGA
* * * *
68815524 GTTCGTTGATTTAAGATCGCAACTCCTAAATAGCTCAATAACCTATGTTCACAACTGATATTATT
1 GTTAGTTGATTTAAGATCGCAACTCCTAAACAGCTCAATGACCTATGTTCACAGCTGATATTATT
* *
68815589 AAGGCTAGTTGATTTAAGATCGCAGCCTCCGATTATTTGA
66 AAGGCTAGTTGATTTAAGATCGCA-CCTTCAATTATTTGA
* ** * *
68815629 GTTAGCTGATTTAAGATAACAACTCCTAAACAGCTCGATGACCTATGTTCACAGTTGATATTATT
1 GTTAGTTGATTTAAGATCGCAACTCCTAAACAGCTCAATGACCTATGTTCACAGCTGATATTATT
* * *
68815694 AAGGCTAGGTGATTTAAGATCGCAACTTTCGATTATTTGA
66 AAGGCTAGTTGATTTAAGATCGC-ACCTTCAATTATTTGA
* * * * * **
68815734 GTTAGCTGATTTAAAATCACAACTCCTGAGCAGCTTGATGACCTATGTTCACAGCTGATATTATT
1 GTTAGTTGATTTAAGATCGCAACTCCTAAACAGCTCAATGACCTATGTTCACAGCTGATATTATT
68815799 A
66 A
68815800 TCACAGCTGA
Statistics
Matches: 324, Mismatches: 50, Indels: 12
0.84 0.13 0.03
Matches are distributed among these distances:
103 3 0.01
104 81 0.25
105 238 0.73
106 2 0.01
ACGTcount: A:0.31, C:0.18, G:0.16, T:0.35
Consensus pattern (104 bp):
GTTAGTTGATTTAAGATCGCAACTCCTAAACAGCTCAATGACCTATGTTCACAGCTGATATTATT
AAGGCTAGTTGATTTAAGATCGCACCTTCAATTATTTGA
Found at i:68815805 original size:18 final size:18
Alignment explanation
Indices: 68815782--68815817 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
68815772 TGACCTATGT
68815782 TCACAGCTGATATTATTA
1 TCACAGCTGATATTATTA
68815800 TCACAGCTGATATTATTA
1 TCACAGCTGATATTATTA
68815818 AGGGTAGTTG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.33, C:0.17, G:0.11, T:0.39
Consensus pattern (18 bp):
TCACAGCTGATATTATTA
Found at i:68815984 original size:104 final size:104
Alignment explanation
Indices: 68815800--68816275 Score: 585
Period size: 104 Copynumber: 4.6 Consensus size: 104
68815790 GATATTATTA
* * * * * * *
68815800 TCACAGCTGATATTATTAAGGGTAGTTGATTTAAAATCACAACATCCTATTATTTGAGTTTGTTG
1 TCACAGCTGATATTATTAAGGCTAGTTGATTTAAGATCGCAACTTCCAATTATTTGAGTTTGCTA
* * * *
68815865 ATTTAAGATCGCAACTCCTAACAGCTCACTGTCCTATGT
66 ATTTAAGATCACAACTCCTAACAACTCACTGACCTACGT
* * * * *
68815904 TCACAGCTGATATTATTAAGGCTAGTTAATTTAATATCACAGCCTCCAATTATTTGAGTTTGCTA
1 TCACAGCTGATATTATTAAGGCTAGTTGATTTAAGATCGCAACTTCCAATTATTTGAGTTTGCTA
* *
68815969 ATTTAATATCACAACTCCTAACAACTCACTGACCTACAT
66 ATTTAAGATCACAACTCCTAACAACTCACTGACCTACGT
* * * * * *
68816008 TCATAGTTGGTATTATTAAGGCTAGTTGATTTAAGATCGCAACTTCCAATTATTTGAGTTCGTTG
1 TCACAGCTGATATTATTAAGGCTAGTTGATTTAAGATCGCAACTTCCAATTATTTGAGTTTGCTA
* * * *
68816073 ATATT-AGATCTCAACTCTTAACAGCTCACTGACCTATGT
66 AT-TTAAGATCACAACTCCTAACAACTCACTGACCTACGT
* * * * *
68816112 TCACAGCTGATATTATTAAGGCTAGTTGATTTAATATCGTAGCGTCCAATTATTTGAGTTAGCTA
1 TCACAGCTGATATTATTAAGGCTAGTTGATTTAAGATCGCAACTTCCAATTATTTGAGTTTGCTA
* **
68816177 ATTTAATATCACAACTCCTAACAACTTGCTGACCTACGT
66 ATTTAAGATCACAACTCCTAACAACTCACTGACCTACGT
* * *
68816216 TCATAGTTGGTATTATTAAGGCTAGTTGATTTAAGATCGCAACTTCCAATTATTTGAGTT
1 TCACAGCTGATATTATTAAGGCTAGTTGATTTAAGATCGCAACTTCCAATTATTTGAGTT
68816276 CTTTGATTTA
Statistics
Matches: 315, Mismatches: 55, Indels: 4
0.84 0.15 0.01
Matches are distributed among these distances:
103 2 0.01
104 311 0.99
105 2 0.01
ACGTcount: A:0.30, C:0.18, G:0.14, T:0.37
Consensus pattern (104 bp):
TCACAGCTGATATTATTAAGGCTAGTTGATTTAAGATCGCAACTTCCAATTATTTGAGTTTGCTA
ATTTAAGATCACAACTCCTAACAACTCACTGACCTACGT
Found at i:68816168 original size:208 final size:208
Alignment explanation
Indices: 68815810--68816312 Score: 787
Period size: 208 Copynumber: 2.4 Consensus size: 208
68815800 TCACAGCTGA
* * * * * *
68815810 TATTATTAAGGGTAGTTGATTTAAAATCACAACATCCTATTATTTGAGTTTGTTGATTTAAGATC
1 TATTATTAAGGCTAGTTGATTTAAGATCGCAACTTCCAATTATTTGAGTTCGTTGATTTAAGATC
* * *
68815875 GCAACTCCTAACAGCTCACTGTCCTATGTTCACAGCTGATATTATTAAGGCTAGTTAATTTAATA
66 TCAACTCTTAACAGCTCACTGACCTATGTTCACAGCTGATATTATTAAGGCTAGTTAATTTAATA
*
68815940 TCACAGCCTCCAATTATTTGAGTTTGCTAATTTAATATCACAACTCCTAACAACTCACTGACCTA
131 TCACAGCCTCCAATTATTTGAGTTAGCTAATTTAATATCACAACTCCTAACAACTCACTGACCTA
68816005 CATTCATAGTTGG
196 CATTCATAGTTGG
68816018 TATTATTAAGGCTAGTTGATTTAAGATCGCAACTTCCAATTATTTGAGTTCGTTGATATT-AGAT
1 TATTATTAAGGCTAGTTGATTTAAGATCGCAACTTCCAATTATTTGAGTTCGTTGAT-TTAAGAT
*
68816082 CTCAACTCTTAACAGCTCACTGACCTATGTTCACAGCTGATATTATTAAGGCTAGTTGATTTAAT
65 CTCAACTCTTAACAGCTCACTGACCTATGTTCACAGCTGATATTATTAAGGCTAGTTAATTTAAT
** * **
68816147 ATCGTAGCGTCCAATTATTTGAGTTAGCTAATTTAATATCACAACTCCTAACAACTTGCTGACCT
130 ATCACAGCCTCCAATTATTTGAGTTAGCTAATTTAATATCACAACTCCTAACAACTCACTGACCT
*
68816212 ACGTTCATAGTTGG
195 ACATTCATAGTTGG
*
68816226 TATTATTAAGGCTAGTTGATTTAAGATCGCAACTTCCAATTATTTGAGTTCTTTGATTTAAGATC
1 TATTATTAAGGCTAGTTGATTTAAGATCGCAACTTCCAATTATTTGAGTTCGTTGATTTAAGATC
*
68816291 GT-AACT-TCTAACAGCTCGCTGA
66 -TCAACTCT-TAACAGCTCACTGA
68816313 ATTACATTAA
Statistics
Matches: 272, Mismatches: 19, Indels: 8
0.91 0.06 0.03
Matches are distributed among these distances:
207 3 0.01
208 266 0.98
209 3 0.01
ACGTcount: A:0.30, C:0.18, G:0.15, T:0.37
Consensus pattern (208 bp):
TATTATTAAGGCTAGTTGATTTAAGATCGCAACTTCCAATTATTTGAGTTCGTTGATTTAAGATC
TCAACTCTTAACAGCTCACTGACCTATGTTCACAGCTGATATTATTAAGGCTAGTTAATTTAATA
TCACAGCCTCCAATTATTTGAGTTAGCTAATTTAATATCACAACTCCTAACAACTCACTGACCTA
CATTCATAGTTGG
Found at i:68816285 original size:104 final size:103
Alignment explanation
Indices: 68815800--68816340 Score: 571
Period size: 104 Copynumber: 5.2 Consensus size: 103
68815790 GATATTATTA
* * * * *
68815800 TCACAGCTGATATTATTAAGGGTAGTTGATTTAAAATCACAACATCCTATTATTTGAGTTTGTTG
1 TCACAGCTGATATTATTAAGGCTAGTTGATTTAAGATCGCAACTTCCAATTATTTGAGTTT-TTG
* * * *
68815865 ATTTAAGATCGCAACTCCTAACAGCTCACTGTCCTATGT
65 ATTTAAGATCACAACTCCTAACAACTCACTGACCTACGT
* * * * * * *
68815904 TCACAGCTGATATTATTAAGGCTAGTTAATTTAATATCACAGCCTCCAATTATTTGAGTTTGCTA
1 TCACAGCTGATATTATTAAGGCTAGTTGATTTAAGATCGCAACTTCCAATTATTTGAGTTT-TTG
* *
68815969 ATTTAATATCACAACTCCTAACAACTCACTGACCTACAT
65 ATTTAAGATCACAACTCCTAACAACTCACTGACCTACGT
* * * *
68816008 TCATAGTTGGTATTATTAAGGCTAGTTGATTTAAGATCGCAACTTCCAATTATTTGAGTTCGTTG
1 TCACAGCTGATATTATTAAGGCTAGTTGATTTAAGATCGCAACTTCCAATTATTTGAGTT-TTTG
* * * *
68816073 ATATT-AGATCTCAACTCTTAACAGCTCACTGACCTATGT
65 AT-TTAAGATCACAACTCCTAACAACTCACTGACCTACGT
* * * * ** *
68816112 TCACAGCTGATATTATTAAGGCTAGTTGATTTAATATCGTAGCGTCCAATTATTTGAGTTAGCTA
1 TCACAGCTGATATTATTAAGGCTAGTTGATTTAAGATCGCAACTTCCAATTATTTGAGTT-TTTG
* **
68816177 ATTTAATATCACAACTCCTAACAACTTGCTGACCTACGT
65 ATTTAAGATCACAACTCCTAACAACTCACTGACCTACGT
* * *
68816216 TCATAGTTGGTATTATTAAGGCTAGTTGATTTAAGATCGCAACTTCCAATTATTTGAGTTCTTTG
1 TCACAGCTGATATTATTAAGGCTAGTTGATTTAAGATCGCAACTTCCAATTATTTGAGTT-TTTG
** * * * ** *
68816281 ATTTAAGATCGTAACTTCTAACAGCTCGCTGAATTACAT
65 ATTTAAGATCACAACTCCTAACAACTCACTGACCTACGT
* * *
68816320 TAACAACTAATATTATTAAGG
1 TCACAGCTGATATTATTAAGG
68816341 TTTGCGATTT
Statistics
Matches: 360, Mismatches: 74, Indels: 6
0.82 0.17 0.01
Matches are distributed among these distances:
103 2 0.01
104 356 0.99
105 2 0.01
ACGTcount: A:0.31, C:0.18, G:0.14, T:0.37
Consensus pattern (103 bp):
TCACAGCTGATATTATTAAGGCTAGTTGATTTAAGATCGCAACTTCCAATTATTTGAGTTTTTGA
TTTAAGATCACAACTCCTAACAACTCACTGACCTACGT
Found at i:68821639 original size:13 final size:13
Alignment explanation
Indices: 68821621--68821655 Score: 70
Period size: 13 Copynumber: 2.7 Consensus size: 13
68821611 GCTCATTTAG
68821621 AGGCACACGGCCA
1 AGGCACACGGCCA
68821634 AGGCACACGGCCA
1 AGGCACACGGCCA
68821647 AGGCACACG
1 AGGCACACG
68821656 CCTATGTGCT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.31, C:0.37, G:0.31, T:0.00
Consensus pattern (13 bp):
AGGCACACGGCCA
Found at i:68822931 original size:16 final size:19
Alignment explanation
Indices: 68822893--68822931 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
68822883 CGGATGTTAC
68822893 ATGAATCGCATCCATTATG
1 ATGAATCGCATCCATTATG
68822912 ATGAATCGCATCCATTATG
1 ATGAATCGCATCCATTATG
68822931 A
1 A
68822932 ACTCGGACCT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.33, C:0.21, G:0.15, T:0.31
Consensus pattern (19 bp):
ATGAATCGCATCCATTATG
Found at i:68829622 original size:42 final size:42
Alignment explanation
Indices: 68829545--68829624 Score: 115
Period size: 42 Copynumber: 1.9 Consensus size: 42
68829535 ACTAAGATTA
* *
68829545 CATGTAAGATCATATCTAAGATATGACATCAATATGAGACTT
1 CATGTAAGACCATATCTAAGATATGACACCAATATGAGACTT
* * *
68829587 CATGTAAGACCATATCTGAGATATGGCACCGATATGAG
1 CATGTAAGACCATATCTAAGATATGACACCAATATGAG
68829625 GCTCGAATAA
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
42 33 1.00
ACGTcount: A:0.38, C:0.16, G:0.19, T:0.28
Consensus pattern (42 bp):
CATGTAAGACCATATCTAAGATATGACACCAATATGAGACTT
Found at i:68829690 original size:43 final size:41
Alignment explanation
Indices: 68829547--68829695 Score: 111
Period size: 42 Copynumber: 3.6 Consensus size: 41
68829537 TAAGATTACA
* ** * * * * *
68829547 TGTAAGATCATATCTAAGATATGACATCAATATGAGACTTCA
1 TGTAAGACCATATCTGGGATATGGCACCGATATGAGGC-TCG
*
68829589 TGTAAGACCATATCTGAGATATGGCACCGATATGAGGCTCG
1 TGTAAGACCATATCTGGGATATGGCACCGATATGAGGCTCG
** * * * * *
68829630 AATAAGGCCATAGCTGGGCTATTGGCATCGATACT-AGATCTCG
1 TGTAAGACCATATCTGGGATA-TGGCACCGATA-TGAG-GCTCG
68829673 TGTAAGACCATATCTGGGATATG
1 TGTAAGACCATATCTGGGATATG
68829696 ACATTGTTAT
Statistics
Matches: 84, Mismatches: 20, Indels: 6
0.76 0.18 0.05
Matches are distributed among these distances:
41 17 0.20
42 46 0.55
43 21 0.25
ACGTcount: A:0.32, C:0.17, G:0.23, T:0.28
Consensus pattern (41 bp):
TGTAAGACCATATCTGGGATATGGCACCGATATGAGGCTCG
Found at i:68838855 original size:42 final size:42
Alignment explanation
Indices: 68838762--68838914 Score: 128
Period size: 42 Copynumber: 3.6 Consensus size: 42
68838752 TAAGATTATG
* * * * ****
68838762 TGTAAGACCATATCTGGGATATGGCATCAATATAAAATTTTG
1 TGTAAGACCATATCTGGGATATGGCACCGATATGAGATCCCA
* * *
68838804 TGTAAGACCATATTTGGGATATGGCACCGATATGAG-GCTTCA
1 TGTAAGACCATATCTGGGATATGGCACCGATATGAGATC-CCA
* ** * **
68838846 TGTATGACCATGGCTGGGCTATTGGCATTGATATGAGATCCCA
1 TGTAAGACCATATCTGGGATA-TGGCACCGATATGAGATCCCA
68838889 TGTAAGACCATATCTGGGATATGGCA
1 TGTAAGACCATATCTGGGATATGGCA
68838915 TTGGTATGGT
Statistics
Matches: 86, Mismatches: 22, Indels: 6
0.75 0.19 0.05
Matches are distributed among these distances:
42 53 0.62
43 32 0.37
44 1 0.01
ACGTcount: A:0.29, C:0.16, G:0.25, T:0.30
Consensus pattern (42 bp):
TGTAAGACCATATCTGGGATATGGCACCGATATGAGATCCCA
Found at i:68841852 original size:43 final size:43
Alignment explanation
Indices: 68841805--68841941 Score: 131
Period size: 42 Copynumber: 3.2 Consensus size: 43
68841795 CCTAGACGTG
*
68841805 GTCTTACATGTAATTAAATATTGATGCCACTGTCCCAGACAGA
1 GTCTTACATGTAATCAAATATTGATGCCACTGTCCCAGACAGA
* * * *
68841848 GTCTTACATGAAATCAAATA-TGATACTGA-TGTCCCAGACATA
1 GTCTTACATGTAATCAAATATTGATGC-CACTGTCCCAGACAGA
* *
68841890 GTCTTACACGTAAATCATAA-GTTGATGCCAAC-GTCCCAGAC-GA
1 GTCTTACATGT-AATCA-AATATTGATGCC-ACTGTCCCAGACAGA
68841933 GGTCTTACA
1 -GTCTTACA
68841942 CGAAAACACA
Statistics
Matches: 76, Mismatches: 11, Indels: 13
0.76 0.11 0.13
Matches are distributed among these distances:
42 26 0.34
43 25 0.33
44 25 0.33
ACGTcount: A:0.34, C:0.22, G:0.17, T:0.28
Consensus pattern (43 bp):
GTCTTACATGTAATCAAATATTGATGCCACTGTCCCAGACAGA
Found at i:68843128 original size:55 final size:55
Alignment explanation
Indices: 68843064--68843174 Score: 168
Period size: 55 Copynumber: 2.0 Consensus size: 55
68843054 AATTTTCACG
* *
68843064 CATACTAATTCACATATTATAGGCACAAAAAATAATATTAAAATATTTTTTAACT
1 CATACTAATTCACATATAATAAGCACAAAAAATAATATTAAAATATTTTTTAACT
** * *
68843119 CATACTAATTCACATATAATAAGCACGGAAATTAATATTAAAATATTTTTTGACT
1 CATACTAATTCACATATAATAAGCACAAAAAATAATATTAAAATATTTTTTAACT
68843174 C
1 C
68843175 GGATTTGTGG
Statistics
Matches: 50, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
55 50 1.00
ACGTcount: A:0.45, C:0.14, G:0.05, T:0.36
Consensus pattern (55 bp):
CATACTAATTCACATATAATAAGCACAAAAAATAATATTAAAATATTTTTTAACT
Found at i:68851677 original size:43 final size:43
Alignment explanation
Indices: 68851616--68851700 Score: 152
Period size: 43 Copynumber: 2.0 Consensus size: 43
68851606 ATTCTAAATC
*
68851616 GTGATATTGTAAAATGATATATGAGTGTTAGACGGATCTTTGT
1 GTGATATTATAAAATGATATATGAGTGTTAGACGGATCTTTGT
*
68851659 GTGATATTATAAAATGATATATGAGTGTTAGATGGATCTTTG
1 GTGATATTATAAAATGATATATGAGTGTTAGACGGATCTTTG
68851701 ATATTAAAAT
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 40 1.00
ACGTcount: A:0.32, C:0.04, G:0.25, T:0.40
Consensus pattern (43 bp):
GTGATATTATAAAATGATATATGAGTGTTAGACGGATCTTTGT
Found at i:68851964 original size:47 final size:47
Alignment explanation
Indices: 68851910--68852100 Score: 283
Period size: 47 Copynumber: 4.1 Consensus size: 47
68851900 GATTTTATGA
** * * *
68851910 GATGAATGTGAATGTGTATATATGAGATAAGGCCTAATGGCCAATGT
1 GATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGT
68851957 GATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGT
1 GATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGT
* *
68852004 GATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCAGTGT
1 GATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGT
* ** *
68852051 GATGAATGTGAACATGCATATGTGTGATAAGGTAGAATGGCTAATGT
1 GATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGT
68852098 GAT
1 GAT
68852101 AAACGTGGAA
Statistics
Matches: 133, Mismatches: 11, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
47 133 1.00
ACGTcount: A:0.33, C:0.10, G:0.29, T:0.28
Consensus pattern (47 bp):
GATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGT
Found at i:68851981 original size:25 final size:25
Alignment explanation
Indices: 68851953--68852031 Score: 69
Period size: 25 Copynumber: 3.3 Consensus size: 25
68851943 CTAATGGCCA
68851953 ATGTGATGAATGTGAACATGCATAT
1 ATGTGATGAATGTGAACATGCATAT
* * *
68851978 ATGTGAT-AAGGCCG-A-ATGGC-CA-
1 ATGTGATGAATG-TGAACAT-GCATAT
68852000 ATGTGATGAATGTGAACATGCATAT
1 ATGTGATGAATGTGAACATGCATAT
*
68852025 GTGTGAT
1 ATGTGAT
68852032 AAGGCCGAAT
Statistics
Matches: 40, Mismatches: 7, Indels: 14
0.66 0.11 0.23
Matches are distributed among these distances:
22 8 0.20
23 9 0.22
24 9 0.22
25 14 0.35
ACGTcount: A:0.33, C:0.10, G:0.28, T:0.29
Consensus pattern (25 bp):
ATGTGATGAATGTGAACATGCATAT
Found at i:68852133 original size:94 final size:94
Alignment explanation
Indices: 68851927--68852146 Score: 264
Period size: 94 Copynumber: 2.3 Consensus size: 94
68851917 GTGAATGTGT
* * * *
68851927 ATATATGAGATAAGGCCTAATGGCCAATGTGATGAATGTGAACATGCATATATGTGATAAGGCCG
1 ATATATGTGAGAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATATGTGATAAGGCAG
* *
68851992 AATGGCCAATGTGATGAATGTGAACATGC
66 AATGGCCAATGTGATAAACGTGAACATGC
* * * * *
68852021 ATATGTGTGATAAGGCCGAATGGCCAGTGTGATGAATGTGAACATGCATATGTGTGATAAGGTAG
1 ATATATGTGAGAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATATGTGATAAGGCAG
* * *
68852086 AATGGCTAATGTGATAAACGTGGAA-GTGT
66 AATGGCCAATGTGATAAACGT-GAACATGC
* *
68852115 ATATATGTGGCGAA-GCCGAATGGCTAATGTGA
1 ATATATGT-GAGAAGGCCGAATGGCCAATGTGA
68852147 GATATGTATG
Statistics
Matches: 107, Mismatches: 17, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
94 101 0.94
95 6 0.06
ACGTcount: A:0.33, C:0.11, G:0.30, T:0.26
Consensus pattern (94 bp):
ATATATGTGAGAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATATGTGATAAGGCAG
AATGGCCAATGTGATAAACGTGAACATGC
Found at i:68855270 original size:46 final size:46
Alignment explanation
Indices: 68855220--68855344 Score: 160
Period size: 46 Copynumber: 2.7 Consensus size: 46
68855210 TGAGCATCCG
* *
68855220 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCA
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCA
* * * * *
68855266 AACTCGTTGAGTTGAGTCTGAGTTCACTCATGAATGCGAACGCCCG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCA
* * *
68855312 AGCTCGTTGATTTGAGTCCGAGTTCGCTTATGG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
68855345 GCAGGTTACA
Statistics
Matches: 66, Mismatches: 13, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
46 66 1.00
ACGTcount: A:0.22, C:0.21, G:0.26, T:0.30
Consensus pattern (46 bp):
AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCA
Found at i:68858178 original size:15 final size:15
Alignment explanation
Indices: 68858155--68858210 Score: 78
Period size: 15 Copynumber: 3.7 Consensus size: 15
68858145 GTATCTTGGG
68858155 TTTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
*
68858170 TTACTTTATTCTGGA
1 TTTCTTTATTCTGGA
*
68858185 TTTCTCTA-TCTTGGA
1 TTTCTTTATTC-TGGA
68858200 TTTCTTTATTC
1 TTTCTTTATTC
68858211 GGTTTCCTTG
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
14 2 0.06
15 31 0.89
16 2 0.06
ACGTcount: A:0.14, C:0.16, G:0.11, T:0.59
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:68860621 original size:46 final size:46
Alignment explanation
Indices: 68860561--68860688 Score: 159
Period size: 46 Copynumber: 2.8 Consensus size: 46
68860551 GGTTGAGCAT
* * *
68860561 CCGAACTCGCTGAGTTGAGTCCGAGTTCACTTATGGATGC-AATTGT
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-CGC
* * *
68860607 CTGAACTCGTTGAGTTGAGTCTGAGTTCACTCATGGATGCGAACGC
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
* * *
68860653 CCGAGCTCATTGAGTTGAGTCCGAGTTCGCTTATGG
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
68860689 GCGGGTTACA
Statistics
Matches: 69, Mismatches: 12, Indels: 2
0.83 0.14 0.02
Matches are distributed among these distances:
46 67 0.97
47 2 0.03
ACGTcount: A:0.20, C:0.22, G:0.28, T:0.30
Consensus pattern (46 bp):
CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
Found at i:68862419 original size:8 final size:8
Alignment explanation
Indices: 68862406--68862444 Score: 60
Period size: 8 Copynumber: 4.9 Consensus size: 8
68862396 ATCAGCAAAA
68862406 GCCGAAAT
1 GCCGAAAT
*
68862414 GCCGAAAA
1 GCCGAAAT
68862422 GCCGAAAT
1 GCCGAAAT
*
68862430 GCCAAAAT
1 GCCGAAAT
68862438 GCCGAAA
1 GCCGAAA
68862445 AGCCAAAAGT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
8 27 1.00
ACGTcount: A:0.44, C:0.26, G:0.23, T:0.08
Consensus pattern (8 bp):
GCCGAAAT
Found at i:68862423 original size:16 final size:15
Alignment explanation
Indices: 68862401--68862453 Score: 79
Period size: 16 Copynumber: 3.4 Consensus size: 15
68862391 TATGTATCAG
68862401 CAAAAGCCGAAATGC
1 CAAAAGCCGAAATGC
68862416 CGAAAAGCCGAAATGC
1 C-AAAAGCCGAAATGC
*
68862432 CAAAATGCCGAAAAGC
1 CAAAA-GCCGAAATGC
68862448 CAAAAG
1 CAAAAG
68862454 TTTGGATATG
Statistics
Matches: 35, Mismatches: 1, Indels: 4
0.88 0.03 0.10
Matches are distributed among these distances:
15 6 0.17
16 29 0.83
ACGTcount: A:0.49, C:0.25, G:0.21, T:0.06
Consensus pattern (15 bp):
CAAAAGCCGAAATGC
Found at i:68862715 original size:29 final size:28
Alignment explanation
Indices: 68862663--68862777 Score: 122
Period size: 29 Copynumber: 4.0 Consensus size: 28
68862653 GTGAGCATGA
* *
68862663 ATATGAATGTGACTAGGCCTAATGGGCC
1 ATATAAATGTGATTAGGCCTAATGGGCC
68862691 ATATAAATGTGATTTAGGCCTAATGGGCC
1 ATATAAATGTGA-TTAGGCCTAATGGGCC
* * *
68862720 ATATACAGGTGATTTGGGCCTAATGGGCC
1 ATATAAATGTGA-TTAGGCCTAATGGGCC
* * * * *
68862749 GTATGAATATGATTGGGCTTAATGGGCC
1 ATATAAATGTGATTAGGCCTAATGGGCC
68862777 A
1 A
68862778 GATATAAGTA
Statistics
Matches: 74, Mismatches: 12, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
28 26 0.35
29 48 0.65
ACGTcount: A:0.28, C:0.15, G:0.29, T:0.29
Consensus pattern (28 bp):
ATATAAATGTGATTAGGCCTAATGGGCC
Found at i:68865364 original size:30 final size:32
Alignment explanation
Indices: 68865302--68865366 Score: 89
Period size: 31 Copynumber: 2.1 Consensus size: 32
68865292 TTCAATCTCA
*
68865302 ACATATACTGGGCCGAAGCCTCTTCATAATTC
1 ACATATACTGGGCCGAAACCTCTTCATAATTC
**
68865334 ACAT-TACTGGGCCGAAACCT-TTTGTAATTC
1 ACATATACTGGGCCGAAACCTCTTCATAATTC
68865364 ACA
1 ACA
68865367 ACTCATATCA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
30 11 0.37
31 15 0.50
32 4 0.13
ACGTcount: A:0.29, C:0.26, G:0.15, T:0.29
Consensus pattern (32 bp):
ACATATACTGGGCCGAAACCTCTTCATAATTC
Found at i:68865632 original size:24 final size:24
Alignment explanation
Indices: 68865605--68865680 Score: 116
Period size: 24 Copynumber: 3.1 Consensus size: 24
68865595 GCCTAGCCTC
68865605 TTTTAATAACTGGGGCAAAGCCCT
1 TTTTAATAACTGGGGCAAAGCCCT
68865629 TTTTAATAACTGGGGCAAAGCCCT
1 TTTTAATAACTGGGGCAAAGCCCT
* * *
68865653 TTTTGATACACTGGAGCAAAGCTCT
1 TTTTAATA-ACTGGGGCAAAGCCCT
68865678 TTT
1 TTT
68865681 CGGTAAACTA
Statistics
Matches: 48, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
24 31 0.65
25 17 0.35
ACGTcount: A:0.28, C:0.20, G:0.20, T:0.33
Consensus pattern (24 bp):
TTTTAATAACTGGGGCAAAGCCCT
Found at i:68865778 original size:20 final size:21
Alignment explanation
Indices: 68865753--68865800 Score: 80
Period size: 20 Copynumber: 2.3 Consensus size: 21
68865743 AAATTAATAC
*
68865753 ATCATGTGCATATCATA-CAT
1 ATCATGTGCATATCATATCAA
68865773 ATCATGTGCATATCATATCAA
1 ATCATGTGCATATCATATCAA
68865794 ATCATGT
1 ATCATGT
68865801 ATATCAAAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
20 17 0.65
21 9 0.35
ACGTcount: A:0.35, C:0.19, G:0.10, T:0.35
Consensus pattern (21 bp):
ATCATGTGCATATCATATCAA
Found at i:68889387 original size:27 final size:27
Alignment explanation
Indices: 68889357--68889439 Score: 76
Period size: 27 Copynumber: 3.1 Consensus size: 27
68889347 ATCATTATTC
*
68889357 TACCATACAGGGGTATTACGGTCGTTT
1 TACCATACAGGGGTATTACGGTCATTT
* * * * * *
68889384 TACCTTAGAGGGGCATCATGGTTATTT
1 TACCATACAGGGGTATTACGGTCATTT
* * *
68889411 TACCCTACAAGGGTACTACGGTCATTT
1 TACCATACAGGGGTATTACGGTCATTT
68889438 TA
1 TA
68889440 TACTACTAGG
Statistics
Matches: 41, Mismatches: 15, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
27 41 1.00
ACGTcount: A:0.24, C:0.19, G:0.23, T:0.34
Consensus pattern (27 bp):
TACCATACAGGGGTATTACGGTCATTT
Found at i:68889464 original size:27 final size:27
Alignment explanation
Indices: 68889434--68889574 Score: 92
Period size: 27 Copynumber: 5.2 Consensus size: 27
68889424 TACTACGGTC
* *
68889434 ATTTTATACTACT-AGGTTATTTCGATA
1 ATTTTATA-AACTGAGGGTATTTCGATA
* *
68889461 ATTTTCTAAACTGGGGGTATTTCGATA
1 ATTTTATAAACTGAGGGTATTTCGATA
** * *
68889488 ATTTTCCAAATTG-GAGGTATTTCGGTA
1 ATTTTATAAACTGAG-GGTATTTCGATA
**
68889515 ATTTTCCAAA-TCGAGGGTATTTC-AGTA
1 ATTTTATAAACT-GAGGGTATTTCGA-TA
** * *
68889542 ATTTTCCAAACTGGGGGTATTTCGGTA
1 ATTTTATAAACTGAGGGTATTTCGATA
68889569 ATTTTA
1 ATTTTA
68889575 CAATCTAAGG
Statistics
Matches: 96, Mismatches: 11, Indels: 14
0.79 0.09 0.12
Matches are distributed among these distances:
26 5 0.05
27 89 0.93
28 2 0.02
ACGTcount: A:0.27, C:0.12, G:0.19, T:0.42
Consensus pattern (27 bp):
ATTTTATAAACTGAGGGTATTTCGATA
Found at i:68889509 original size:54 final size:54
Alignment explanation
Indices: 68889451--68889573 Score: 169
Period size: 54 Copynumber: 2.3 Consensus size: 54
68889441 ACTACTAGGT
* * * *
68889451 TATTTCGATAATTTTCTAAA-CTGGGGGTATTTC-GATAATTTTCCAAATTGGAGG
1 TATTTCGGTAATTTTCCAAATC-GAGGGTATTTCAG-TAATTTTCCAAACTGGAGG
*
68889505 TATTTCGGTAATTTTCCAAATCGAGGGTATTTCAGTAATTTTCCAAACTGGGGG
1 TATTTCGGTAATTTTCCAAATCGAGGGTATTTCAGTAATTTTCCAAACTGGAGG
68889559 TATTTCGGTAATTTT
1 TATTTCGGTAATTTT
68889574 ACAATCTAAG
Statistics
Matches: 62, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
54 60 0.97
55 2 0.03
ACGTcount: A:0.26, C:0.12, G:0.20, T:0.41
Consensus pattern (54 bp):
TATTTCGGTAATTTTCCAAATCGAGGGTATTTCAGTAATTTTCCAAACTGGAGG
Found at i:68899094 original size:30 final size:30
Alignment explanation
Indices: 68899060--68899120 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
68899050 TCCTTAACTC
68899060 AAACTTTGGCAAAATTACAATTTTGCCCCT
1 AAACTTTGGCAAAATTACAATTTTGCCCCT
* * * *
68899090 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGCAAAATTACAATTTTGCCCCT
68899120 A
1 A
68899121 GGCTCGAGAA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.30, C:0.25, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGCAAAATTACAATTTTGCCCCT
Found at i:68905603 original size:43 final size:43
Alignment explanation
Indices: 68905537--68905620 Score: 125
Period size: 43 Copynumber: 2.0 Consensus size: 43
68905527 AAATTGTACA
*
68905537 ATGCCAATGTCCCAGACGTGGTCTTACATGTAACCACATATCG
1 ATGCCAATGTCCCAGACGTGGTCTTACATGTAAACACATATCG
* *
68905580 ATGCCACTGTCCCAGACAG-GGTCTTACTTGTAAACACATAT
1 ATGCCAATGTCCCAGAC-GTGGTCTTACATGTAAACACATAT
68905621 TGGAATCACA
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
43 36 0.97
44 1 0.03
ACGTcount: A:0.29, C:0.27, G:0.18, T:0.26
Consensus pattern (43 bp):
ATGCCAATGTCCCAGACGTGGTCTTACATGTAAACACATATCG
Found at i:68908574 original size:34 final size:34
Alignment explanation
Indices: 68908536--68908617 Score: 87
Period size: 34 Copynumber: 2.4 Consensus size: 34
68908526 GTAAATAGTT
68908536 TGGGCCTAAGCCC-TTATCAGTAGA-AATATCAGTG
1 TGGGCCTAAGCCCATTA-CAGTA-ATAATATCAGTG
* * *
68908570 TGGGCCTTAGCCCATTACGGTAATAGTATCAGTG
1 TGGGCCTAAGCCCATTACAGTAATAATATCAGTG
* *
68908604 TGGGCTTTAGCCCA
1 TGGGCCTAAGCCCA
68908618 ATTTAGTACA
Statistics
Matches: 42, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
33 1 0.02
34 38 0.90
35 3 0.07
ACGTcount: A:0.24, C:0.22, G:0.26, T:0.28
Consensus pattern (34 bp):
TGGGCCTAAGCCCATTACAGTAATAATATCAGTG
Found at i:68910884 original size:30 final size:30
Alignment explanation
Indices: 68910850--68910932 Score: 89
Period size: 30 Copynumber: 2.7 Consensus size: 30
68910840 CGTTTGCAGT
68910850 AAAGGCTTCGGCCTAGTGATATG-ATAATGA
1 AAAGGCTTCGGCC-AGTGATATGAATAATGA
* * *
68910880 AAAGGCTTTGGTCCAGTGACATGAATAATGC
1 AAAGGCTTCGG-CCAGTGATATGAATAATGA
*
68910911 AAAGGCTTCAGCCCAGT-ATATG
1 AAAGGCTTC-GGCCAGTGATATG
68910933 TTGAGATTGA
Statistics
Matches: 44, Mismatches: 6, Indels: 6
0.79 0.11 0.11
Matches are distributed among these distances:
30 22 0.50
31 21 0.48
32 1 0.02
ACGTcount: A:0.33, C:0.17, G:0.25, T:0.25
Consensus pattern (30 bp):
AAAGGCTTCGGCCAGTGATATGAATAATGA
Found at i:68910927 original size:31 final size:30
Alignment explanation
Indices: 68910850--68910927 Score: 93
Period size: 31 Copynumber: 2.6 Consensus size: 30
68910840 CGTTTGCAGT
* *
68910850 AAAGGCTTCGGCCTAGTGATATGATAATGA
1 AAAGGCTTCGGCCCAGTGACATGATAATGA
* * *
68910880 AAAGGCTTTGGTCCAGTGACATGAATAATGC
1 AAAGGCTTCGGCCCAGTGACATG-ATAATGA
*
68910911 AAAGGCTTCAGCCCAGT
1 AAAGGCTTCGGCCCAGT
68910928 ATATGTTGAG
Statistics
Matches: 39, Mismatches: 8, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
30 19 0.49
31 20 0.51
ACGTcount: A:0.32, C:0.18, G:0.26, T:0.24
Consensus pattern (30 bp):
AAAGGCTTCGGCCCAGTGACATGATAATGA
Found at i:68913898 original size:43 final size:43
Alignment explanation
Indices: 68913826--68913943 Score: 116
Period size: 43 Copynumber: 2.7 Consensus size: 43
68913816 AATGCCAACC
* * *
68913826 TCCCATACGTGGTCTT--ACATGTAATCACATATCGATACCACTA
1 TCCCAAACGTGGTCTTACACAAG-AA-CACATATCGATACCAATA
* * * *
68913869 TCCCAGACAG-GGTCTTACACAAGAACACATATTGATTCCAATG
1 TCCCAAAC-GTGGTCTTACACAAGAACACATATCGATACCAATA
*
68913912 TCCCAAACGTGGTCTTACACGAGAACACATAT
1 TCCCAAACGTGGTCTTACACAAGAACACATAT
68913944 AAAAAATCCT
Statistics
Matches: 63, Mismatches: 8, Indels: 8
0.80 0.10 0.10
Matches are distributed among these distances:
42 1 0.02
43 55 0.87
44 3 0.05
45 4 0.06
ACGTcount: A:0.33, C:0.27, G:0.14, T:0.25
Consensus pattern (43 bp):
TCCCAAACGTGGTCTTACACAAGAACACATATCGATACCAATA
Found at i:68914548 original size:15 final size:15
Alignment explanation
Indices: 68914528--68914556 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
68914518 CAAAAATTCC
68914528 AATACAAAACATATT
1 AATACAAAACATATT
68914543 AATACAAAACATAT
1 AATACAAAACATAT
68914557 CTTTCATAAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.62, C:0.14, G:0.00, T:0.24
Consensus pattern (15 bp):
AATACAAAACATATT
Found at i:68920914 original size:22 final size:24
Alignment explanation
Indices: 68920889--68920933 Score: 58
Period size: 22 Copynumber: 2.0 Consensus size: 24
68920879 GTTTTTGGCT
*
68920889 TATGGAATG-ACATGA-ATTGGTA
1 TATGCAATGAACATGAGATTGGTA
*
68920911 TATGCTATGAACATGAGATTGGT
1 TATGCAATGAACATGAGATTGGT
68920934 TGATGCCATG
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 7 0.37
23 6 0.32
24 6 0.32
ACGTcount: A:0.33, C:0.07, G:0.27, T:0.33
Consensus pattern (24 bp):
TATGCAATGAACATGAGATTGGTA
Found at i:68920939 original size:24 final size:23
Alignment explanation
Indices: 68920898--68920945 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 23
68920888 TTATGGAATG
*
68920898 ACATGAATTGGTATATGCTATGA
1 ACATGAATTGGTATATGCCATGA
68920921 ACATGAGATTGGT-TGATGCCATGA
1 ACATGA-ATTGGTAT-ATGCCATGA
68920945 A
1 A
68920946 TGTTGAATGT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
23 7 0.32
24 15 0.68
ACGTcount: A:0.33, C:0.10, G:0.25, T:0.31
Consensus pattern (23 bp):
ACATGAATTGGTATATGCCATGA
Found at i:68930822 original size:50 final size:49
Alignment explanation
Indices: 68930649--68930886 Score: 305
Period size: 49 Copynumber: 4.8 Consensus size: 49
68930639 TAGCCAAAGC
* * * * *
68930649 TATCTGGTACGCATAGTAGCCTGCACATAGTACTACACATGCGACCAAT
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCAAT
* *
68930698 TATCCGGTACACGTAGTAGCCTACACTTAGTACTACACACGTGACCAAT
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCAAT
* *
68930747 TATCTGGTACACGTAGTACCCTGCACTTAGTACTACACACGTGACCTAAC
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACC-AAT
* * *
68930797 CATCTGATACACGTAGTAGCCTGCACTTAGTACTACACACGTGATCACAGT
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGA-C-CAAT
* * * *
68930848 TTTCGGGTACGCATAGTAGCCTGCACTTAGTACTACACA
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACA
68930887 TGCGACCTCA
Statistics
Matches: 164, Mismatches: 22, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
49 85 0.52
50 43 0.26
51 35 0.21
52 1 0.01
ACGTcount: A:0.29, C:0.28, G:0.18, T:0.26
Consensus pattern (49 bp):
TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCAAT
Found at i:68930838 original size:99 final size:100
Alignment explanation
Indices: 68930649--68930893 Score: 332
Period size: 99 Copynumber: 2.5 Consensus size: 100
68930639 TAGCCAAAGC
* * ** *
68930649 TATCTGGTACGCATAGTAGCCTGCACATAGTACTACACATGCGACCAATTATCCGGTACACGTAG
1 TATCTGGTACGCATAGTAGCCTGCACTTAGTACTACACACGCGACCAACCATCCGATACACGTAG
68930714 TAGCCTACACTTAGTACTACACACGTGA-C-CAAT
66 TAGCCTACACTTAGTACTACACACGTGATCACAAT
* * * * *
68930747 TATCTGGTACACGTAGTACCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACGTA
1 TATCTGGTACGCATAGTAGCCTGCACTTAGTACTACACACGCGACC-AACCATCCGATACACGTA
* *
68930812 GTAGCCTGCACTTAGTACTACACACGTGATCACAGT
65 GTAGCCTACACTTAGTACTACACACGTGATCACAAT
* * *
68930848 TTTCGGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACC
1 TATCTGGTACGCATAGTAGCCTGCACTTAGTACTACACACGCGACC
68930894 TCACAATAGA
Statistics
Matches: 125, Mismatches: 19, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
98 40 0.32
99 42 0.34
100 1 0.01
101 42 0.34
ACGTcount: A:0.29, C:0.28, G:0.18, T:0.25
Consensus pattern (100 bp):
TATCTGGTACGCATAGTAGCCTGCACTTAGTACTACACACGCGACCAACCATCCGATACACGTAG
TAGCCTACACTTAGTACTACACACGTGATCACAAT
Found at i:68933090 original size:44 final size:42
Alignment explanation
Indices: 68933037--68933136 Score: 130
Period size: 44 Copynumber: 2.3 Consensus size: 42
68933027 CGATATGTGT
*
68933037 TTTCGTGTAAGACCACATCTGGAACGTTGGGATCGACT-TATGA
1 TTTCGTGTAAGACCACATCTGGAACGTTGGCATC-A-TATATGA
* * *
68933080 TTTACGTGTAAGACCATATCTGGGACGTTGGCATCATATTTGA
1 TTT-CGTGTAAGACCACATCTGGAACGTTGGCATCATATATGA
68933123 TTTCGTGTAAGACC
1 TTTCGTGTAAGACC
68933137 CTGTCTGGGA
Statistics
Matches: 51, Mismatches: 4, Indels: 5
0.85 0.07 0.08
Matches are distributed among these distances:
42 12 0.24
43 11 0.22
44 28 0.55
ACGTcount: A:0.25, C:0.18, G:0.24, T:0.33
Consensus pattern (42 bp):
TTTCGTGTAAGACCACATCTGGAACGTTGGCATCATATATGA
Found at i:68938456 original size:53 final size:54
Alignment explanation
Indices: 68938274--68938477 Score: 203
Period size: 53 Copynumber: 3.8 Consensus size: 54
68938264 ATTAGGGTTT
* * * * *
68938274 AAGGATGCCAAGTAAGACCATGACAAGGCATGGCATTGGTAAGTTCTACAAGGC
1 AAGGATACCAAGTAAGACCATGTCAAGACATGGCAATGGTAAGTTCTATAAGGC
* * * * * * *
68938328 AAGGAAATCAAGTAAAACCATGTCAAGACATGGCATTGATAAACTACTATAAGGC
1 AAGGATACCAAGTAAGACCATGTCAAGACATGGCAATGGT-AAGTTCTATAAGGC
* * * * * * *
68938383 AAAGATCCCATGTAACACCATGCCAAGGCATGGCAATGGTGAGTTC-ATAAGGC
1 AAGGATACCAAGTAAGACCATGTCAAGACATGGCAATGGTAAGTTCTATAAGGC
* *
68938436 AAGGATACCACGTAAGACCATGTCAAGACATGCCAATGGTAA
1 AAGGATACCAAGTAAGACCATGTCAAGACATGGCAATGGTAA
68938478 ATTTAAAAAG
Statistics
Matches: 118, Mismatches: 31, Indels: 3
0.78 0.20 0.02
Matches are distributed among these distances:
53 41 0.35
54 36 0.31
55 41 0.35
ACGTcount: A:0.39, C:0.20, G:0.23, T:0.19
Consensus pattern (54 bp):
AAGGATACCAAGTAAGACCATGTCAAGACATGGCAATGGTAAGTTCTATAAGGC
Found at i:68939967 original size:27 final size:27
Alignment explanation
Indices: 68939913--68940023 Score: 136
Period size: 27 Copynumber: 4.1 Consensus size: 27
68939903 AGCTTGGCTG
* * *
68939913 CCAGAACAGATAA-TGTGACAGGGTCA
1 CCAGAACAGATAATTGTGGCAGAGCCA
68939939 CCAGAACAGATAATTGTGGCAGAGCCA
1 CCAGAACAGATAATTGTGGCAGAGCCA
*
68939966 CCAAAACAGAT-ATATGTGGCAGAGCCA
1 CCAGAACAGATAAT-TGTGGCAGAGCCA
** *
68939993 CCAGATTAGATAATTGTGGCATAGCCA
1 CCAGAACAGATAATTGTGGCAGAGCCA
68940020 CCAG
1 CCAG
68940024 GACGCTTCCT
Statistics
Matches: 74, Mismatches: 8, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
26 15 0.20
27 57 0.77
28 2 0.03
ACGTcount: A:0.37, C:0.22, G:0.24, T:0.17
Consensus pattern (27 bp):
CCAGAACAGATAATTGTGGCAGAGCCA
Found at i:68947483 original size:55 final size:54
Alignment explanation
Indices: 68947338--68947548 Score: 203
Period size: 55 Copynumber: 3.9 Consensus size: 54
68947328 GGTATTCTTT
* ** * *
68947338 TGAAACTTACCATTGCCATGTCTCAACATGGTCTTGCATGGTATCCTTGCCTTA
1 TGAAACTTACCAATGCCATGTCTTGACATGGTCTTACATGGGATCCTTGCCTTA
* * *
68947392 TG-AACTCACCAATGCCATGCCTTGGCATGGTCTTACATGGGA-CCTTTGCCTTA
1 TGAAACTTACCAATGCCATGTCTTGACATGGTCTTACATGGGATCC-TTGCCTTA
* * **
68947445 TAGAAACTTATCAATGCCATGTCTTGACATGGTATTACATGATATCCTTGCCTTA
1 T-GAAACTTACCAATGCCATGTCTTGACATGGTCTTACATGGGATCCTTGCCTTA
* * ** * *
68947500 -GAAACCTTACCAATTTCCATGCCTTGGTATGGTCTTGCATGGTATCCTT
1 TGAAA-CTTACCAA-TGCCATGTCTTGACATGGTCTTACATGGGATCCTT
68947549 AAACCCTAAT
Statistics
Matches: 128, Mismatches: 23, Indels: 11
0.79 0.14 0.07
Matches are distributed among these distances:
52 2 0.02
53 45 0.35
54 10 0.08
55 69 0.54
56 2 0.02
ACGTcount: A:0.23, C:0.25, G:0.18, T:0.35
Consensus pattern (54 bp):
TGAAACTTACCAATGCCATGTCTTGACATGGTCTTACATGGGATCCTTGCCTTA
Found at i:68947491 original size:108 final size:110
Alignment explanation
Indices: 68947339--68947541 Score: 277
Period size: 108 Copynumber: 1.9 Consensus size: 110
68947329 GTATTCTTTT
* * * *
68947339 GAAACTTACCATTGCCATGTCTCAACATGGTCTTGCATGGTATCCTTGCCTTATG-AA-CTCACC
1 GAAACTTACCAATGCCATGTCTCAACATGGTATTACATGATATCCTTGCCTTA-GAAACCTCACC
68947402 AA-TGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATA
65 AATTGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATA
* ** *
68947447 GAAACTTATCAATGCCATGTCTTGACATGGTATTACATGATATCCTTGCCTTAGAAACCTTACCA
1 GAAACTTACCAATGCCATGTCTCAACATGGTATTACATGATATCCTTGCCTTAGAAACCTCACCA
* * *
68947512 ATTTCCATGCCTTGGTATGGTCTTGCATGG
66 ATTGCCATGCCTTGGCATGGTCTTACATGG
68947542 TATCCTTAAA
Statistics
Matches: 81, Mismatches: 11, Indels: 4
0.84 0.11 0.04
Matches are distributed among these distances:
107 1 0.01
108 48 0.59
109 7 0.09
110 25 0.31
ACGTcount: A:0.24, C:0.25, G:0.18, T:0.33
Consensus pattern (110 bp):
GAAACTTACCAATGCCATGTCTCAACATGGTATTACATGATATCCTTGCCTTAGAAACCTCACCA
ATTGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATA
Found at i:68952006 original size:25 final size:25
Alignment explanation
Indices: 68951957--68952006 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
68951947 CCTTATAATA
* * * *
68951957 TGAAAATGACCATTTTGCTCTTAGG
1 TGAAAATGACCATTATACCCCTAGG
68951982 TGAAAATGACCATTATACCCCTAGG
1 TGAAAATGACCATTATACCCCTAGG
68952007 GTTTAAATAT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.32, C:0.20, G:0.18, T:0.30
Consensus pattern (25 bp):
TGAAAATGACCATTATACCCCTAGG
Found at i:68952090 original size:11 final size:11
Alignment explanation
Indices: 68952054--68952109 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 11
68952044 CATGGTATGT
68952054 ATGATATGCAC
1 ATGATATGCAC
* *
68952065 ATGACATG--T
1 ATGATATGCAC
68952074 ATGATATGCAC
1 ATGATATGCAC
*
68952085 ATGATATG--T
1 ATGATATGCAC
68952094 ATGATATGCAC
1 ATGATATGCAC
68952105 ATGAT
1 ATGAT
68952110 GTATTCATAA
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
9 15 0.43
11 20 0.57
ACGTcount: A:0.36, C:0.12, G:0.20, T:0.32
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:68952109 original size:20 final size:20
Alignment explanation
Indices: 68952043--68952109 Score: 116
Period size: 20 Copynumber: 3.4 Consensus size: 20
68952033 ACTTTGATAA
*
68952043 ACATGGTATGTATGATATGC
1 ACATGATATGTATGATATGC
*
68952063 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
68952083 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
68952103 ACATGAT
1 ACATGAT
68952110 GTATTCATAA
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 44 1.00
ACGTcount: A:0.34, C:0.12, G:0.21, T:0.33
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:68952188 original size:25 final size:25
Alignment explanation
Indices: 68952160--68952239 Score: 76
Period size: 24 Copynumber: 3.2 Consensus size: 25
68952150 AGGAAGTGTA
68952160 AAAGGGCTTATGCCCCAGTTATGAT
1 AAAGGGCTTATGCCCCAGTTATGAT
* *
68952185 AAAGGGCTT-TGCCCTAGTTATTA-
1 AAAGGGCTTATGCCCCAGTTATGAT
*
68952208 AAAGAGGC-TAGGCCTCCAGTTAAATGAT
1 AAAG-GGCTTATGCC-CCAGTT--ATGAT
68952236 AAAG
1 AAAG
68952240 CAGCTATACT
Statistics
Matches: 44, Mismatches: 5, Indels: 9
0.76 0.09 0.16
Matches are distributed among these distances:
23 5 0.11
24 18 0.41
25 14 0.32
27 3 0.07
28 4 0.09
ACGTcount: A:0.33, C:0.17, G:0.24, T:0.26
Consensus pattern (25 bp):
AAAGGGCTTATGCCCCAGTTATGAT
Found at i:68952481 original size:31 final size:31
Alignment explanation
Indices: 68952424--68952484 Score: 95
Period size: 31 Copynumber: 2.0 Consensus size: 31
68952414 CGTTTACAGT
*
68952424 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATACGAAATATGA
**
68952455 AAAGGCTTCGGCCCAGTGTTACGAAATATG
1 AAAGGCTTCGGCCCAGTAATACGAAATATG
68952485 GAGTGTGAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.34, C:0.18, G:0.25, T:0.23
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATACGAAATATGA
Found at i:68957946 original size:39 final size:41
Alignment explanation
Indices: 68957857--68957955 Score: 116
Period size: 39 Copynumber: 2.4 Consensus size: 41
68957847 TTAGATAACG
*
68957857 TTATTGACAATAACAATATCGAAAATTTAAATTAAATAAATA
1 TTATTAACAATAA-AATATCGAAAATTTAAATTAAATAAATA
* *
68957899 TT-TGTAACAATAAAATATC-AAAATTTTATATT-AA-GAATA
1 TTAT-TAACAATAAAATATCGAAAA-TTTAAATTAAATAAATA
68957938 TTATTAACAATAAAATAT
1 TTATTAACAATAAAATAT
68957956 TTATAGTGAT
Statistics
Matches: 51, Mismatches: 3, Indels: 9
0.81 0.05 0.14
Matches are distributed among these distances:
39 20 0.39
40 7 0.14
41 14 0.27
42 10 0.20
ACGTcount: A:0.54, C:0.06, G:0.04, T:0.36
Consensus pattern (41 bp):
TTATTAACAATAAAATATCGAAAATTTAAATTAAATAAATA
Found at i:68966314 original size:6 final size:5
Alignment explanation
Indices: 68966303--68966345 Score: 50
Period size: 5 Copynumber: 7.8 Consensus size: 5
68966293 TAAGTCTAAG
68966303 AAAAT AACAAT AAACAT AAAAAT AAAAAT AAAAT AAAAT AAAA
1 AAAAT AA-AAT AAA-AT -AAAAT -AAAAT AAAAT AAAAT AAAA
68966346 CAAATGGACT
Statistics
Matches: 35, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
5 17 0.49
6 15 0.43
7 3 0.09
ACGTcount: A:0.79, C:0.05, G:0.00, T:0.16
Consensus pattern (5 bp):
AAAAT
Found at i:68966326 original size:12 final size:11
Alignment explanation
Indices: 68966303--68966345 Score: 52
Period size: 12 Copynumber: 3.8 Consensus size: 11
68966293 TAAGTCTAAG
68966303 AAAATAACAATA
1 AAAATAA-AATA
*
68966315 AACATAAAAATA
1 AAAAT-AAAATA
68966327 AAAATAAAAT-
1 AAAATAAAATA
68966337 AAAATAAAA
1 AAAATAAAA
68966346 CAAATGGACT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
10 9 0.32
11 5 0.18
12 12 0.43
13 2 0.07
ACGTcount: A:0.79, C:0.05, G:0.00, T:0.16
Consensus pattern (11 bp):
AAAATAAAATA
Found at i:68966326 original size:18 final size:17
Alignment explanation
Indices: 68966303--68966345 Score: 61
Period size: 18 Copynumber: 2.5 Consensus size: 17
68966293 TAAGTCTAAG
*
68966303 AAAATAACAATAAACATA
1 AAAATAAAAATAAA-ATA
68966321 AAAATAAAAATAAAAT-
1 AAAATAAAAATAAAATA
68966337 AAAATAAAA
1 AAAATAAAA
68966346 CAAATGGACT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
16 9 0.38
17 2 0.08
18 13 0.54
ACGTcount: A:0.79, C:0.05, G:0.00, T:0.16
Consensus pattern (17 bp):
AAAATAAAAATAAAATA
Found at i:68969393 original size:2 final size:2
Alignment explanation
Indices: 68969386--68970199 Score: 1628
Period size: 2 Copynumber: 407.0 Consensus size: 2
68969376 GCCACAAATG
68969386 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
68969428 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
68969470 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
68969512 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
68969554 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
68969596 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
68969638 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
68969680 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
68969722 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
68969764 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
68969806 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
68969848 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
68969890 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
68969932 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
68969974 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
68970016 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
68970058 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
68970100 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
68970142 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
68970184 CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA
68970200 TATATACACA
Statistics
Matches: 812, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 812 1.00
ACGTcount: A:0.50, C:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:68976851 original size:49 final size:49
Alignment explanation
Indices: 68976780--68977249 Score: 896
Period size: 49 Copynumber: 9.7 Consensus size: 49
68976770 CCCTTCGGGA
*
68976780 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCACCACATCGGCCATTAGGC
68976827 CTTATCACATATATATACACTTTCACATTCACCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCACCACATCGGCCATTAGGC
68976876 CTTATCACATATATATACACTTTCACATTCACCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCACCACATCGGCCATTAGGC
68976925 CTTATCACATATATATACACTTTCACATTCACCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCACCACATCGGCCATTAGGC
68976974 CTTATCACATATATATACACTTTCACATTCACCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCACCACATCGGCCATTAGGC
68977023 CTTATCACATATATATACACTTTCACATTCACCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCACCACATCGGCCATTAGGC
68977072 CTTATCACATATATATACACTTTCACATTCACCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCACCACATCGGCCATTAGGC
68977121 CTTATCACATATATATACACTTTCACATTCACCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCACCACATCGGCCATTAGGC
68977170 CTTATCACATATATATACACTTTCACATTCACCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCACCACATCGGCCATTAGGC
68977219 CTTATCAC--ATATATACACTTTCACATT-ACCA
1 CTTATCACATATATATACACTTTCACATTCACCA
68977250 ACCCTTTTAT
Statistics
Matches: 420, Mismatches: 1, Indels: 5
0.99 0.00 0.01
Matches are distributed among these distances:
46 4 0.01
47 27 0.06
49 389 0.93
ACGTcount: A:0.31, C:0.30, G:0.08, T:0.31
Consensus pattern (49 bp):
CTTATCACATATATATACACTTTCACATTCACCACATCGGCCATTAGGC
Found at i:68977507 original size:40 final size:39
Alignment explanation
Indices: 68977470--68977561 Score: 132
Period size: 39 Copynumber: 2.3 Consensus size: 39
68977460 GCTACTCGTT
*
68977470 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGG-CATAGCCCGGAAT-TAGTAACTCGCA
* *
68977510 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGCATAGCCCGGAATTAGTAACTCGCA
68977549 CAAATGCCTTCGG
1 CAAATGCCTTCGG
68977562 ATCTTAGTCC
Statistics
Matches: 48, Mismatches: 3, Indels: 3
0.89 0.06 0.06
Matches are distributed among these distances:
39 33 0.69
40 15 0.31
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (39 bp):
CAAATGCCTTCGGGCATAGCCCGGAATTAGTAACTCGCA
Found at i:68977541 original size:39 final size:40
Alignment explanation
Indices: 68977451--68977611 Score: 170
Period size: 40 Copynumber: 4.0 Consensus size: 40
68977441 CGGAATTTAA
** *
68977451 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
*
68977491 CCGGTTATAGTAACTCGCACAAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
68977530 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
68977570 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
68977610 CC
1 CC
68977612 AGACATCATT
Statistics
Matches: 102, Mismatches: 12, Indels: 14
0.80 0.09 0.11
Matches are distributed among these distances:
38 3 0.03
39 32 0.31
40 55 0.54
41 12 0.12
ACGTcount: A:0.24, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:68980893 original size:47 final size:47
Alignment explanation
Indices: 68980821--68981824 Score: 1393
Period size: 47 Copynumber: 21.3 Consensus size: 47
68980811 CCCTTCGGGA
* * * *
68980821 CTTATCACATTTATACACT-TCCACATCCATCACATTGGCCATTTGGC
1 CTTATCACATATATACA-TGTTCACATTCATCACATTGGCCATTCGGC
68980868 CTTATCACATATATACACT-TTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACA-TGTTCACATTCATCACATTGGCCATTCGGC
* * * *
68980915 CTTATCTCATATATGCATGTTCACATTCATCACATTGGTCATTCAGC
1 CTTATCACATATATACATGTTCACATTCATCACATTGGCCATTCGGC
* *
68980962 CTTATCACACATACACATGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACATGTTCACATTCATCACATTGGCCATTCGGC
* * * *
68981009 CTTATCTCATATATGCATGTTCACATTCATCACATTGGTCATTCAGC
1 CTTATCACATATATACATGTTCACATTCATCACATTGGCCATTCGGC
* *
68981056 CTTATCACACATACACATGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACATGTTCACATTCATCACATTGGCCATTCGGC
* * * *
68981103 CTTATCTCATATATGCATGTTCACATTCATCACATTGGTCATTCAGC
1 CTTATCACATATATACATGTTCACATTCATCACATTGGCCATTCGGC
* *
68981150 CTTATCACACATACACATGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACATGTTCACATTCATCACATTGGCCATTCGGC
* * * *
68981197 CTTATCTCATATATGCATGTTCACATTCATCACATTGGTCATTCAGC
1 CTTATCACATATATACATGTTCACATTCATCACATTGGCCATTCGGC
* *
68981244 CTTATCACACATACACATGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACATGTTCACATTCATCACATTGGCCATTCGGC
* * * *
68981291 CTTATCTCATATATGCATGTTCACATTCATCACATTGGTCATTCAGC
1 CTTATCACATATATACATGTTCACATTCATCACATTGGCCATTCGGC
* *
68981338 CTTATCACACATACACATGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACATGTTCACATTCATCACATTGGCCATTCGGC
* * * *
68981385 CTTATCTCATATATGCATGTTCACATTCATCACATTGGTCATTCAGC
1 CTTATCACATATATACATGTTCACATTCATCACATTGGCCATTCGGC
* *
68981432 CTTATCACACATACACATGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACATGTTCACATTCATCACATTGGCCATTCGGC
* * * *
68981479 CTTATCTCATATATGCATGTTCACATTCATCACATTGGTCATTCAGC
1 CTTATCACATATATACATGTTCACATTCATCACATTGGCCATTCGGC
* *
68981526 CTTATCACACATACACATGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACATGTTCACATTCATCACATTGGCCATTCGGC
* * * *
68981573 CTTATCTCATATATGCATGTTCACATTCATCACATTGGTCATTCAGC
1 CTTATCACATATATACATGTTCACATTCATCACATTGGCCATTCGGC
* *
68981620 CTTATCACACATACACATGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACATGTTCACATTCATCACATTGGCCATTCGGC
* * * *
68981667 CTTATCTCATATATGCATGTTCACATTCATCACATTGGTCATTCAGC
1 CTTATCACATATATACATGTTCACATTCATCACATTGGCCATTCGGC
* *
68981714 CTTATCACACATACACATGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACATGTTCACATTCATCACATTGGCCATTCGGC
* *
68981761 CTTATCACGCATATATATACT-TTCACATTCATCACATTGGCCACTCGGC
1 CTTATCA--CATATATACA-TGTTCACATTCATCACATTGGCCATTCGGC
*
68981810 CCTATCACATATATA
1 CTTATCACATATATA
68981825 TACTTGTACA
Statistics
Matches: 838, Mismatches: 115, Indels: 8
0.87 0.12 0.01
Matches are distributed among these distances:
46 1 0.00
47 796 0.95
49 40 0.05
50 1 0.00
ACGTcount: A:0.27, C:0.29, G:0.10, T:0.34
Consensus pattern (47 bp):
CTTATCACATATATACATGTTCACATTCATCACATTGGCCATTCGGC
Found at i:68980985 original size:94 final size:94
Alignment explanation
Indices: 68980842--68981818 Score: 1787
Period size: 94 Copynumber: 10.4 Consensus size: 94
68980832 TATACACTTC
* * ** * *
68980842 CACATCCATCACATTGGCCATTTGGCCTTATCACATATATACACT-TTCACATTCATCACATTGG
1 CACATTCATCACATTGGTCATTCAGCCTTATCACACATACACA-TGTTCACATTCATCACATTGG
68980906 CCATTCGGCCTTATCTCATATATGCATGTT
65 CCATTCGGCCTTATCTCATATATGCATGTT
68980936 CACATTCATCACATTGGTCATTCAGCCTTATCACACATACACATGTTCACATTCATCACATTGGC
1 CACATTCATCACATTGGTCATTCAGCCTTATCACACATACACATGTTCACATTCATCACATTGGC
68981001 CATTCGGCCTTATCTCATATATGCATGTT
66 CATTCGGCCTTATCTCATATATGCATGTT
68981030 CACATTCATCACATTGGTCATTCAGCCTTATCACACATACACATGTTCACATTCATCACATTGGC
1 CACATTCATCACATTGGTCATTCAGCCTTATCACACATACACATGTTCACATTCATCACATTGGC
68981095 CATTCGGCCTTATCTCATATATGCATGTT
66 CATTCGGCCTTATCTCATATATGCATGTT
68981124 CACATTCATCACATTGGTCATTCAGCCTTATCACACATACACATGTTCACATTCATCACATTGGC
1 CACATTCATCACATTGGTCATTCAGCCTTATCACACATACACATGTTCACATTCATCACATTGGC
68981189 CATTCGGCCTTATCTCATATATGCATGTT
66 CATTCGGCCTTATCTCATATATGCATGTT
68981218 CACATTCATCACATTGGTCATTCAGCCTTATCACACATACACATGTTCACATTCATCACATTGGC
1 CACATTCATCACATTGGTCATTCAGCCTTATCACACATACACATGTTCACATTCATCACATTGGC
68981283 CATTCGGCCTTATCTCATATATGCATGTT
66 CATTCGGCCTTATCTCATATATGCATGTT
68981312 CACATTCATCACATTGGTCATTCAGCCTTATCACACATACACATGTTCACATTCATCACATTGGC
1 CACATTCATCACATTGGTCATTCAGCCTTATCACACATACACATGTTCACATTCATCACATTGGC
68981377 CATTCGGCCTTATCTCATATATGCATGTT
66 CATTCGGCCTTATCTCATATATGCATGTT
68981406 CACATTCATCACATTGGTCATTCAGCCTTATCACACATACACATGTTCACATTCATCACATTGGC
1 CACATTCATCACATTGGTCATTCAGCCTTATCACACATACACATGTTCACATTCATCACATTGGC
68981471 CATTCGGCCTTATCTCATATATGCATGTT
66 CATTCGGCCTTATCTCATATATGCATGTT
68981500 CACATTCATCACATTGGTCATTCAGCCTTATCACACATACACATGTTCACATTCATCACATTGGC
1 CACATTCATCACATTGGTCATTCAGCCTTATCACACATACACATGTTCACATTCATCACATTGGC
68981565 CATTCGGCCTTATCTCATATATGCATGTT
66 CATTCGGCCTTATCTCATATATGCATGTT
68981594 CACATTCATCACATTGGTCATTCAGCCTTATCACACATACACATGTTCACATTCATCACATTGGC
1 CACATTCATCACATTGGTCATTCAGCCTTATCACACATACACATGTTCACATTCATCACATTGGC
68981659 CATTCGGCCTTATCTCATATATGCATGTT
66 CATTCGGCCTTATCTCATATATGCATGTT
68981688 CACATTCATCACATTGGTCATTCAGCCTTATCACACATACACATGTTCACATTCATCACATTGGC
1 CACATTCATCACATTGGTCATTCAGCCTTATCACACATACACATGTTCACATTCATCACATTGGC
* **
68981753 CATTCGGCCTTATCACGCATATATATACT-TT
66 CATTCGGCCTTAT--CTCATATATGCA-TGTT
* * * *
68981784 CACATTCATCACATTGGCCACTCGGCCCTATCACA
1 CACATTCATCACATTGGTCATTCAGCCTTATCACA
68981819 TATATATACT
Statistics
Matches: 866, Mismatches: 13, Indels: 6
0.98 0.01 0.01
Matches are distributed among these distances:
93 1 0.00
94 822 0.95
96 42 0.05
97 1 0.00
ACGTcount: A:0.27, C:0.29, G:0.11, T:0.34
Consensus pattern (94 bp):
CACATTCATCACATTGGTCATTCAGCCTTATCACACATACACATGTTCACATTCATCACATTGGC
CATTCGGCCTTATCTCATATATGCATGTT
Found at i:68986206 original size:21 final size:19
Alignment explanation
Indices: 68986164--68986207 Score: 52
Period size: 19 Copynumber: 2.2 Consensus size: 19
68986154 ACTAATCAAT
*
68986164 ATTTTTTTTCATTTCTCTA
1 ATTTTTTTTCATTTCTCCA
*
68986183 ATTTTTTTTCAATTTGGTCCA
1 ATTTTTTTTC-ATTT-CTCCA
68986204 ATTT
1 ATTT
68986208 CCAATAGATT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 10 0.48
20 4 0.19
21 7 0.33
ACGTcount: A:0.18, C:0.14, G:0.05, T:0.64
Consensus pattern (19 bp):
ATTTTTTTTCATTTCTCCA
Found at i:68992017 original size:18 final size:18
Alignment explanation
Indices: 68991977--68992036 Score: 97
Period size: 17 Copynumber: 3.4 Consensus size: 18
68991967 CTTCTCAAAT
*
68991977 TCTTTTTCGATTTCTTT-
1 TCTTTTTCAATTTCTTTC
68991994 TCTTTTTCAATTT-TTTC
1 TCTTTTTCAATTTCTTTC
68992011 TCTTTTTCAATTTCTTTC
1 TCTTTTTCAATTTCTTTC
68992029 TCTTTTTC
1 TCTTTTTC
68992037 TTCTTTTTCA
Statistics
Matches: 40, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
16 3 0.08
17 25 0.62
18 12 0.30
ACGTcount: A:0.08, C:0.20, G:0.02, T:0.70
Consensus pattern (18 bp):
TCTTTTTCAATTTCTTTC
Found at i:68995690 original size:18 final size:18
Alignment explanation
Indices: 68995667--68995701 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
68995657 GACAATGGTG
*
68995667 CTCCAAGGGCGGCAACAC
1 CTCCAAGGGAGGCAACAC
*
68995685 CTCCAATGGAGGCAACA
1 CTCCAAGGGAGGCAACA
68995702 AAAGGATCGG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.31, C:0.34, G:0.26, T:0.09
Consensus pattern (18 bp):
CTCCAAGGGAGGCAACAC
Found at i:68998374 original size:19 final size:19
Alignment explanation
Indices: 68998352--68998389 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
68998342 TCAATCATCC
68998352 CTCATCACATCA-TCTCTCA
1 CTCAT-ACATCATTCTCTCA
*
68998371 CTCATTCATCATTCTCTCA
1 CTCATACATCATTCTCTCA
68998390 ACTCTTTTAG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 5 0.29
19 12 0.71
ACGTcount: A:0.24, C:0.39, G:0.00, T:0.37
Consensus pattern (19 bp):
CTCATACATCATTCTCTCA
Found at i:69011798 original size:157 final size:157
Alignment explanation
Indices: 69011508--69011827 Score: 577
Period size: 157 Copynumber: 2.0 Consensus size: 157
69011498 AATTATTCTT
69011508 GGAAGACCTTTTCTTGCTACAGACAGGACTTTAATTGATGTGCAGAAAGGTGAACTGACCATGAG
1 GGAAGACCTTTTCTTGCTACAGACAGGACTTTAATTGATGTGCAGAAAGGTGAACTGACCATGAG
* * *
69011573 GATGAATGATCAGCATGTCACATTCAATGTTTTTAATGCGCTAATGATAATGACGAATGTTGTGC
66 GATGAATGATCAGCATGTCACATTCAATGTTTTTAATGCGCTAATGATAATGAAGAATGTCGTAC
69011638 CATTGACTTGAGAGGAGTAGCAGTGGA
131 CATTGACTTGAGAGGAGTAGCAGTGGA
* * *
69011665 GGAAGACCTTTTCTTGCTACAGATAGGAGTTTAATTGATGTGCAGAAAGGTGAACTGACTATGAG
1 GGAAGACCTTTTCTTGCTACAGACAGGACTTTAATTGATGTGCAGAAAGGTGAACTGACCATGAG
69011730 GATGAATGATCAGCATGTCACATTCAATGTTTTTAATGCGCTAATGATAATGAAGAATGTCGTAC
66 GATGAATGATCAGCATGTCACATTCAATGTTTTTAATGCGCTAATGATAATGAAGAATGTCGTAC
*
69011795 CATTGACTTGATAGGAGTAGCAGTGGA
131 CATTGACTTGAGAGGAGTAGCAGTGGA
69011822 GGAAGA
1 GGAAGA
69011828 GTTCACGAGA
Statistics
Matches: 156, Mismatches: 7, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
157 156 1.00
ACGTcount: A:0.32, C:0.13, G:0.26, T:0.29
Consensus pattern (157 bp):
GGAAGACCTTTTCTTGCTACAGACAGGACTTTAATTGATGTGCAGAAAGGTGAACTGACCATGAG
GATGAATGATCAGCATGTCACATTCAATGTTTTTAATGCGCTAATGATAATGAAGAATGTCGTAC
CATTGACTTGAGAGGAGTAGCAGTGGA
Found at i:69018585 original size:47 final size:47
Alignment explanation
Indices: 69018527--69019065 Score: 945
Period size: 47 Copynumber: 11.5 Consensus size: 47
69018517 ATTCAGCCAA
* *
69018527 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
1 GAAAGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGT
69018574 GAAAGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGT
1 GAAAGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGT
69018621 GAAAGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGT
1 GAAAGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGT
69018668 GAAAGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGT
1 GAAAGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGT
69018715 GAAAGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGT
1 GAAAGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGT
69018762 GAAAGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGT
1 GAAAGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGT
69018809 GAAAGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGT
1 GAAAGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGT
69018856 GAAAGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGT
1 GAAAGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGT
69018903 GAAAGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGT
1 GAAAGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGT
*
69018950 GAAAGTGTATATGTGTGATAAGGCCTAATGGCCGATGTGATGAATGT
1 GAAAGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGT
* * * * * * *
69018997 GAAAGTGTATATATGTGACAGGGCC-AAGTGGCCAACGTGATGGATGT
1 GAAAGTGTATATGTGTGATAAGGCCTAA-TAGCCGATGTGATGAATGT
* **
69019044 GAAAGTGCATAAATGTGATAAG
1 GAAAGTGTATATGTGTGATAAG
69019066 TCCCGAAGGG
Statistics
Matches: 478, Mismatches: 13, Indels: 2
0.97 0.03 0.00
Matches are distributed among these distances:
46 2 0.00
47 476 1.00
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (47 bp):
GAAAGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGT
Found at i:69019240 original size:37 final size:37
Alignment explanation
Indices: 69019184--69019262 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 37
69019174 CCGAGCTCTA
* *
69019184 AAGACCCGATGACTACGTGTGG-GAATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAG-ATTATGTCCGGGT
*
69019221 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
69019258 AAGAC
1 AAGAC
69019263 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 37 0.97
38 1 0.03
ACGTcount: A:0.25, C:0.19, G:0.30, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:69021761 original size:22 final size:20
Alignment explanation
Indices: 69021711--69021754 Score: 88
Period size: 20 Copynumber: 2.2 Consensus size: 20
69021701 GTTATGCTTT
69021711 GATAACATGTTGGATGTGTG
1 GATAACATGTTGGATGTGTG
69021731 GATAACATGTTGGATGTGTG
1 GATAACATGTTGGATGTGTG
69021751 GATA
1 GATA
69021755 GTACATGATA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.27, C:0.05, G:0.34, T:0.34
Consensus pattern (20 bp):
GATAACATGTTGGATGTGTG
Found at i:69022787 original size:30 final size:30
Alignment explanation
Indices: 69022739--69022820 Score: 130
Period size: 30 Copynumber: 2.7 Consensus size: 30
69022729 TTAGTCTCGA
*
69022739 CATAT-ACTGGGCCAAAGCCTTTTCATAAAT
1 CATATCACT-GGCCGAAGCCTTTTCATAAAT
69022769 CATATCACTGGCCGAAGCCTTTTCATAAAT
1 CATATCACTGGCCGAAGCCTTTTCATAAAT
*
69022799 CATATCACTGGCCGATGCCTTT
1 CATATCACTGGCCGAAGCCTTT
69022821 ACTGTAAGCG
Statistics
Matches: 49, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
30 46 0.94
31 3 0.06
ACGTcount: A:0.28, C:0.27, G:0.15, T:0.30
Consensus pattern (30 bp):
CATATCACTGGCCGAAGCCTTTTCATAAAT
Found at i:69023068 original size:25 final size:25
Alignment explanation
Indices: 69023040--69023135 Score: 122
Period size: 25 Copynumber: 3.8 Consensus size: 25
69023030 CCTCTTTTAA
69023040 AAACTGGGGCAAAGCCCTTTTTGAT
1 AAACTGGGGCAAAGCCCTTTTTGAT
* *
69023065 AAACTGGGGCAAAGCCCTTTTCGGT
1 AAACTGGGGCAAAGCCCTTTTTGAT
* *
69023090 AAACTAGGGCAAAG-CCTTTTTCGTT
1 AAACTGGGGCAAAGCCCTTTTT-GAT
**
69023115 AAACTGGGGCATTGCCCTTTT
1 AAACTGGGGCAAAGCCCTTTT
69023136 AGCACTTCCT
Statistics
Matches: 61, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
24 6 0.10
25 49 0.80
26 6 0.10
ACGTcount: A:0.25, C:0.22, G:0.24, T:0.29
Consensus pattern (25 bp):
AAACTGGGGCAAAGCCCTTTTTGAT
Found at i:69023094 original size:50 final size:50
Alignment explanation
Indices: 69023040--69023135 Score: 140
Period size: 50 Copynumber: 1.9 Consensus size: 50
69023030 CCTCTTTTAA
*
69023040 AAACTGGGGCAAAGCCCTTTTT-GATAAACTGGGGCAAAGCCCTTTTCGGT
1 AAACTAGGGCAAAG-CCTTTTTCGATAAACTGGGGCAAAGCCCTTTTCGGT
* **
69023090 AAACTAGGGCAAAGCCTTTTTCGTTAAACTGGGGCATTGCCCTTTT
1 AAACTAGGGCAAAGCCTTTTTCGATAAACTGGGGCAAAGCCCTTTT
69023136 AGCACTTCCT
Statistics
Matches: 41, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
49 7 0.17
50 34 0.83
ACGTcount: A:0.25, C:0.22, G:0.24, T:0.29
Consensus pattern (50 bp):
AAACTAGGGCAAAGCCTTTTTCGATAAACTGGGGCAAAGCCCTTTTCGGT
Found at i:69023368 original size:27 final size:28
Alignment explanation
Indices: 69023338--69023492 Score: 151
Period size: 27 Copynumber: 5.8 Consensus size: 28
69023328 GGGGCAAAAT
* * *
69023338 GGTAATTTC-ACCCCACAAGGGTATCTC
1 GGTAATTTCTACCCTACAGGGGTATTTC
*
69023365 GGTAA-TTCTACCCTACAGGGGTATTTT
1 GGTAATTTCTACCCTACAGGGGTATTTC
* * *
69023392 AGT-ATTTCTACCCTACAAGGGTATTTT
1 GGTAATTTCTACCCTACAGGGGTATTTC
**
69023419 GGTAA-TTCTACCCTGTAGGGGTATTTC
1 GGTAATTTCTACCCTACAGGGGTATTTC
* * *
69023446 AGTAATTT-TACCCTATAGGGGTATCTC
1 GGTAATTTCTACCCTACAGGGGTATTTC
*
69023473 GGTAA-TTCTACCCTATAGGG
1 GGTAATTTCTACCCTACAGGG
69023493 TAAAATGGTA
Statistics
Matches: 108, Mismatches: 15, Indels: 10
0.81 0.11 0.08
Matches are distributed among these distances:
26 6 0.06
27 99 0.92
28 3 0.03
ACGTcount: A:0.24, C:0.21, G:0.21, T:0.35
Consensus pattern (28 bp):
GGTAATTTCTACCCTACAGGGGTATTTC
Found at i:69023385 original size:54 final size:54
Alignment explanation
Indices: 69023326--69023503 Score: 173
Period size: 54 Copynumber: 3.3 Consensus size: 54
69023316 TTTAACACCC
* * *
69023326 TAGGGGCAAAATGGTAATTTCACCCCACAAGGGTATCTCGGTAATTCTACCCTA
1 TAGGGGTAAAATAGTAATTTCACCCTACAAGGGTATCTCGGTAATTCTACCCTA
* *** * * *
69023380 CAGGGGTATTTTAGT-ATTTCTACCCTACAAGGGTATTTTGGTAATTCTACCCTG
1 TAGGGGTAAAATAGTAATTTC-ACCCTACAAGGGTATCTCGGTAATTCTACCCTA
** * * *
69023434 TAGGGGT-ATTTCAGTAATTTTACCCTATAGGGGTATCTCGGTAATTCTACCCTA
1 TAGGGGTAAAAT-AGTAATTTCACCCTACAAGGGTATCTCGGTAATTCTACCCTA
*
69023488 TA-GGGTAAAATGGTAA
1 TAGGGGTAAAATAGTAA
69023504 AATGGTAATT
Statistics
Matches: 99, Mismatches: 21, Indels: 9
0.77 0.16 0.07
Matches are distributed among these distances:
53 16 0.16
54 79 0.80
55 4 0.04
ACGTcount: A:0.27, C:0.19, G:0.21, T:0.33
Consensus pattern (54 bp):
TAGGGGTAAAATAGTAATTTCACCCTACAAGGGTATCTCGGTAATTCTACCCTA
Found at i:69023610 original size:27 final size:27
Alignment explanation
Indices: 69023499--69023602 Score: 127
Period size: 27 Copynumber: 3.9 Consensus size: 27
69023489 AGGGTAAAAT
** * * *
69023499 GGTAAAATGGTAATTTTGTAAATCGAG
1 GGTAAAACAGTAATTCTATAAATCAAG
*
69023526 GGAAAAACAGTAATTCTATAAATCAAG
1 GGTAAAACAGTAATTCTATAAATCAAG
**
69023553 GGTAAAATGGTAATTCTATAAATCAAG
1 GGTAAAACAGTAATTCTATAAATCAAG
*
69023580 GGTAAAACAATAATTCTATAAAT
1 GGTAAAACAGTAATTCTATAAAT
69023603 TGAGGGTACT
Statistics
Matches: 65, Mismatches: 12, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 65 1.00
ACGTcount: A:0.46, C:0.08, G:0.17, T:0.29
Consensus pattern (27 bp):
GGTAAAACAGTAATTCTATAAATCAAG
Found at i:69023610 original size:54 final size:54
Alignment explanation
Indices: 69023499--69023602 Score: 163
Period size: 54 Copynumber: 1.9 Consensus size: 54
69023489 AGGGTAAAAT
* * * *
69023499 GGTAAAATGGTAATTTTGTAAATCGAGGGAAAAACAGTAATTCTATAAATCAAG
1 GGTAAAATGGTAATTCTATAAATCAAGGGAAAAACAATAATTCTATAAATCAAG
*
69023553 GGTAAAATGGTAATTCTATAAATCAAGGGTAAAACAATAATTCTATAAAT
1 GGTAAAATGGTAATTCTATAAATCAAGGGAAAAACAATAATTCTATAAAT
69023603 TGAGGGTACT
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
54 45 1.00
ACGTcount: A:0.46, C:0.08, G:0.17, T:0.29
Consensus pattern (54 bp):
GGTAAAATGGTAATTCTATAAATCAAGGGAAAAACAATAATTCTATAAATCAAG
Found at i:69025959 original size:30 final size:31
Alignment explanation
Indices: 69025878--69025960 Score: 134
Period size: 31 Copynumber: 2.7 Consensus size: 31
69025868 TCAGTCTCGA
69025878 CATAT-ACTGGGCCGAAGCCTTTTCATAAAT
1 CATATCACTGGGCCGAAGCCTTTTCATAAAT
69025908 CATATCACTGGGCCGAAGCCTTTTCATAAAT
1 CATATCACTGGGCCGAAGCCTTTTCATAAAT
* *
69025939 CATATCA-TTGGCCGATGCCTTT
1 CATATCACTGGGCCGAAGCCTTT
69025961 ACTGTAAGCG
Statistics
Matches: 50, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
30 18 0.36
31 32 0.64
ACGTcount: A:0.27, C:0.25, G:0.17, T:0.31
Consensus pattern (31 bp):
CATATCACTGGGCCGAAGCCTTTTCATAAAT
Found at i:69026209 original size:25 final size:25
Alignment explanation
Indices: 69026181--69026250 Score: 104
Period size: 25 Copynumber: 2.8 Consensus size: 25
69026171 CTCTTTTAAT
*
69026181 AACTGGGGCAAAGCCCTTTTTGATA
1 AACTGGGGCAAAGCCCTTTTCGATA
*
69026206 AACTGGGGCAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTCGATA
**
69026231 AACTGGGGCATTGCCCTTTT
1 AACTGGGGCAAAGCCCTTTT
69026251 AGCACTTCCT
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 41 1.00
ACGTcount: A:0.23, C:0.23, G:0.26, T:0.29
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTCGATA
Found at i:69026483 original size:27 final size:27
Alignment explanation
Indices: 69026453--69026746 Score: 331
Period size: 27 Copynumber: 11.0 Consensus size: 27
69026443 GGGGCAAAAT
* * *
69026453 GGTAATTTTACCCTACAAGGGTATCTC
1 GGTAATTCTACCCTACAGGGGTATTTC
69026480 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * * *
69026507 AGTATTTCTACCCTACAAGGGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
**
69026534 GGTAATTCTACCCTGTAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * * *
69026561 AGTAATTTTACCCTATAGGGGTATCTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
69026588 GGTAATTC--CCCTACAGGGGTATTTA
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
69026613 AGTAATTTTACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
69026640 GGTAATTCTACCCTATAGGGTTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
*
69026667 AGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
69026694 GATAATTATACCCTACAGGGTTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
69026721 GATAATTCAACCCTACATGGGTATTT
1 GGTAATTCTACCCTACAGGGGTATTT
69026747 TGATATTTTA
Statistics
Matches: 223, Mismatches: 42, Indels: 4
0.83 0.16 0.01
Matches are distributed among these distances:
25 20 0.09
27 203 0.91
ACGTcount: A:0.25, C:0.19, G:0.19, T:0.37
Consensus pattern (27 bp):
GGTAATTCTACCCTACAGGGGTATTTC
Found at i:69026675 original size:133 final size:134
Alignment explanation
Indices: 69026462--69026746 Score: 360
Period size: 133 Copynumber: 2.1 Consensus size: 134
69026452 TGGTAATTTT
* ** *
69026462 ACCCTACAAGGGTATCTCGGTAATTCTACCCTACAGGGGTATTTCAGTATTTCTACCCTACAAGG
1 ACCCTACAAGGGTATTTAAGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCTACAAGG
* ** * * *
69026527 GTATTTTGGTAATTCTACCCTGTAGGGGTATTTC-AGTAATTTTACCCTATAGGGGTATCTCGGT
66 GTATTTTAGTAATTCTACCCTACAGGGGTATTTCGA-TAATTATACCCTACAGGGGTATCTCGAT
69026591 AATTC
130 AATTC
* * * * *
69026596 -CCCTACAGGGGTATTTAAGTAATTTTACCCTATAGGGGTATTTCGGTAATTCTACCCTA-TAGG
1 ACCCTACAAGGGTATTTAAGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCTACAAGG
* *
69026659 GTTATTTTAGTAATTCTACCCTACAGGGGTATTTCGATAATTATACCCTACAGGGTTATTTCGAT
66 G-TATTTTAGTAATTCTACCCTACAGGGGTATTTCGATAATTATACCCTACAGGGGTATCTCGAT
69026724 AATTC
130 AATTC
*
69026729 AACCCTACATGGGTATTT
1 -ACCCTACAAGGGTATTT
69026747 TGATATTTTA
Statistics
Matches: 129, Mismatches: 18, Indels: 7
0.84 0.12 0.05
Matches are distributed among these distances:
132 4 0.03
133 109 0.84
134 1 0.01
135 15 0.12
ACGTcount: A:0.25, C:0.20, G:0.19, T:0.36
Consensus pattern (134 bp):
ACCCTACAAGGGTATTTAAGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCTACAAGG
GTATTTTAGTAATTCTACCCTACAGGGGTATTTCGATAATTATACCCTACAGGGGTATCTCGATA
ATTC
Found at i:69026818 original size:27 final size:27
Alignment explanation
Indices: 69026739--69026913 Score: 176
Period size: 27 Copynumber: 6.6 Consensus size: 27
69026729 AACCCTACAT
* *
69026739 GGGTATTTTGAT-ATTTTACAAATC-G
1 GGGTATTTTGGTAATTTTACAAACCAG
* * * * *
69026764 AGAGTATTTCGAT-ATTTTATAAATCAG
1 -GGGTATTTTGGTAATTTTACAAACCAG
* *
69026791 GGGTATTTTGGTAATTTTGCAAGCCAG
1 GGGTATTTTGGTAATTTTACAAACCAG
69026818 GGGTATTTTGGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTACAAACCAG
* *
69026845 GGGTATTTTAGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTACAAACCAG
** *
69026872 GGGTATTTTGGTAATTTTGTAAACCAA
1 GGGTATTTTGGTAATTTTACAAACCAG
* *
69026899 TGGTATTTTAGTAAT
1 GGGTATTTTGGTAAT
69026914 ATAATAAATC
Statistics
Matches: 126, Mismatches: 21, Indels: 3
0.84 0.14 0.02
Matches are distributed among these distances:
26 30 0.24
27 96 0.76
ACGTcount: A:0.30, C:0.08, G:0.21, T:0.41
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTACAAACCAG
Found at i:69026930 original size:54 final size:54
Alignment explanation
Indices: 69026816--69026928 Score: 145
Period size: 54 Copynumber: 2.1 Consensus size: 54
69026806 TTTGCAAGCC
* * * *
69026816 AGGGGTATTTTGGTAATTTTACAAACCAGGGGTATTTTAGTAATTTTACAAACT
1 AGGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTAGTAATATAACAAACG
** * *
69026870 AGGGGTATTTTGGTAATTTTGTAAACCAATGGTATTTTAGTAATATAATAAATCG
1 AGGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTAGTAATATAACAAA-CG
69026925 AGGG
1 AGGG
69026929 TAAAATGGTA
Statistics
Matches: 50, Mismatches: 8, Indels: 1
0.85 0.14 0.02
Matches are distributed among these distances:
54 45 0.90
55 5 0.10
ACGTcount: A:0.33, C:0.07, G:0.22, T:0.38
Consensus pattern (54 bp):
AGGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTAGTAATATAACAAACG
Found at i:69026939 original size:27 final size:27
Alignment explanation
Indices: 69026917--69027170 Score: 345
Period size: 27 Copynumber: 9.5 Consensus size: 27
69026907 TAGTAATATA
* *
69026917 ATAAATCGAGGGTAAAATGGTAAATCT
1 ATAAATCGAGGGTAAAACGGTAATTCT
* * *
69026944 GTAAATCGAAGGTAAAAC---AATAT-A
1 ATAAATCGAGGGTAAAACGGTAAT-TCT
* *
69026968 ATAAATCGAGGGTAAAATGGTAAATCT
1 ATAAATCGAGGGTAAAACGGTAATTCT
* *
69026995 GTAAATCGAAGGTAAAACGGTAATTCT
1 ATAAATCGAGGGTAAAACGGTAATTCT
69027022 ATAAATCGAGGGTAAAACGGTAATTCT
1 ATAAATCGAGGGTAAAACGGTAATTCT
*
69027049 ATAAATCGAGGGTAAAATGGTAATTCT
1 ATAAATCGAGGGTAAAACGGTAATTCT
*
69027076 ATAAATCGAGGGTAAAACGATAATTCT
1 ATAAATCGAGGGTAAAACGGTAATTCT
* *
69027103 ATAAATTGAGGGTAAAATGGTAATTCT
1 ATAAATCGAGGGTAAAACGGTAATTCT
69027130 ATAAATCGAGGGTAAAACGGTAATTCT
1 ATAAATCGAGGGTAAAACGGTAATTCT
*
69027157 ATAAATTGAGGGTA
1 ATAAATCGAGGGTA
69027171 CTTTCGTAAT
Statistics
Matches: 197, Mismatches: 25, Indels: 10
0.85 0.11 0.04
Matches are distributed among these distances:
24 17 0.09
25 1 0.01
26 1 0.01
27 178 0.90
ACGTcount: A:0.43, C:0.08, G:0.22, T:0.27
Consensus pattern (27 bp):
ATAAATCGAGGGTAAAACGGTAATTCT
Found at i:69028523 original size:43 final size:42
Alignment explanation
Indices: 69028475--69028572 Score: 135
Period size: 43 Copynumber: 2.3 Consensus size: 42
69028465 ATGTTGTGAG
* *
69028475 ACACGGGCATGTCCCTTGGTCATG-TGAGACACACGGCCTGGCC
1 ACACGGGCATGTCCCTTGG-C-TGTTGAGACACACAGCCTAGCC
*
69028518 ACACGGGCATTTCCCTTGGCTGTTTGAGACACACAGCCTAGCC
1 ACACGGGCATGTCCCTTGGCTG-TTGAGACACACAGCCTAGCC
69028561 ACACGGGCATGT
1 ACACGGGCATGT
69028573 GTCCCCTCCA
Statistics
Matches: 49, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
41 2 0.04
42 1 0.02
43 46 0.94
ACGTcount: A:0.20, C:0.32, G:0.28, T:0.20
Consensus pattern (42 bp):
ACACGGGCATGTCCCTTGGCTGTTGAGACACACAGCCTAGCC
Found at i:69032361 original size:46 final size:44
Alignment explanation
Indices: 69032279--69032387 Score: 105
Period size: 46 Copynumber: 2.4 Consensus size: 44
69032269 AGAGTTAGTG
* * *
69032279 TAAGATATGTCTGAGACATGCATCGGCCTCGAGATGTAAGCCAGTC
1 TAAGACATGTCTGGGACACGCATCGGCCTCGAGATGT--GCCAGTC
* *
69032325 TAAGACATGTCTGGGACACGCATCGG-CT-GCATGATGTGTCAGTG
1 TAAGACATGTCTGGGACACGCATCGGCCTCG-A-GATGTGCCAGTC
*
69032369 TAAGACCATGTTTGGGACA
1 TAAGA-CATGTCTGGGACA
69032388 TGGCATTGAA
Statistics
Matches: 54, Mismatches: 6, Indels: 7
0.81 0.09 0.10
Matches are distributed among these distances:
44 11 0.20
45 15 0.28
46 28 0.52
ACGTcount: A:0.27, C:0.20, G:0.28, T:0.25
Consensus pattern (44 bp):
TAAGACATGTCTGGGACACGCATCGGCCTCGAGATGTGCCAGTC
Found at i:69034141 original size:27 final size:27
Alignment explanation
Indices: 69034067--69034233 Score: 126
Period size: 27 Copynumber: 6.3 Consensus size: 27
69034057 TACCATACAA
* * * *
69034067 GTGGAAGGTCTATTAGGACTATCATGT
1 GTGGAAGGTCCATCAAGACTATCATAT
* *
69034094 ATGGAAGGTCCATCAATACTATCATAT
1 GTGGAAGGTCCATCAAGACTATCATAT
*
69034121 GTGGAGGGTCCAT-ATAGACTAT-ATTAT
1 GTGGAAGGTCCATCA-AGACTATCA-TAT
* * *
69034148 GTGGAAGGTCCGTCAGGACTATCTTAT
1 GTGGAAGGTCCATCAAGACTATCATAT
* * * *
69034175 GTGAAAGGTCCATTAGGACTATCCTAT
1 GTGGAAGGTCCATCAAGACTATCATAT
* * * *
69034202 ATGGCAGGTCCACCAAGACTGT--TAT
1 GTGGAAGGTCCATCAAGACTATCATAT
69034227 GTGGAAG
1 GTGGAAG
69034234 ATTTGTCAAG
Statistics
Matches: 110, Mismatches: 26, Indels: 10
0.75 0.18 0.07
Matches are distributed among these distances:
25 8 0.07
26 2 0.02
27 99 0.90
28 1 0.01
ACGTcount: A:0.29, C:0.16, G:0.26, T:0.29
Consensus pattern (27 bp):
GTGGAAGGTCCATCAAGACTATCATAT
Found at i:69034211 original size:54 final size:54
Alignment explanation
Indices: 69034071--69034221 Score: 162
Period size: 54 Copynumber: 2.8 Consensus size: 54
69034061 ATACAAGTGG
* * * *
69034071 AAGGTCTATTAGGACTATCATGTATGGAAGGTCCATCAATACTATCATATGTGG
1 AAGGTCCATTAGGACTATCATATATGGAAGGTCCATCAAGACTATCATATGTGA
* * * * *
69034125 AGGGTCCATATA-GACTAT-ATTATGTGGAAGGTCCGTCAGGACTATCTTATGTGA
1 AAGGTCCAT-TAGGACTATCA-TATATGGAAGGTCCATCAAGACTATCATATGTGA
* * *
69034179 AAGGTCCATTAGGACTATCCTATATGGCAGGTCCACCAAGACT
1 AAGGTCCATTAGGACTATCATATATGGAAGGTCCATCAAGACT
69034222 GTTATGTGGA
Statistics
Matches: 77, Mismatches: 16, Indels: 8
0.76 0.16 0.08
Matches are distributed among these distances:
53 3 0.04
54 72 0.94
55 2 0.03
ACGTcount: A:0.30, C:0.18, G:0.23, T:0.29
Consensus pattern (54 bp):
AAGGTCCATTAGGACTATCATATATGGAAGGTCCATCAAGACTATCATATGTGA
Found at i:69038125 original size:18 final size:18
Alignment explanation
Indices: 69038104--69038139 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
69038094 GTACAATGTC
69038104 ATATCCAAGATATGGTCT
1 ATATCCAAGATATGGTCT
69038122 ATATCCAAGATATGGTCT
1 ATATCCAAGATATGGTCT
69038140 TACATGTTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Consensus pattern (18 bp):
ATATCCAAGATATGGTCT
Found at i:69038226 original size:43 final size:41
Alignment explanation
Indices: 69038178--69038271 Score: 100
Period size: 43 Copynumber: 2.2 Consensus size: 41
69038168 TCCCGAACAG
* *
69038178 TGTCTTACACAAAATCGATTA-ACGATGCCAATGTCTTAGACA
1 TGTCTTACACAAAATC--TTACACAATGCCAATGTCTCAGACA
* **
69038220 TGGTCTTGCACGTAATCTTACTACAATGCCAATGTCTCAGACA
1 T-GTCTTACACAAAATCTTAC-ACAATGCCAATGTCTCAGACA
69038263 TGTCTTACA
1 TGTCTTACA
69038272 TGTAATCACA
Statistics
Matches: 43, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
41 3 0.07
42 8 0.19
43 32 0.74
ACGTcount: A:0.31, C:0.23, G:0.15, T:0.31
Consensus pattern (41 bp):
TGTCTTACACAAAATCTTACACAATGCCAATGTCTCAGACA
Found at i:69044245 original size:34 final size:35
Alignment explanation
Indices: 69044202--69044272 Score: 108
Period size: 34 Copynumber: 2.1 Consensus size: 35
69044192 CATTCATATA
*
69044202 AAAAGCTCATTGAAATCATTCACATTGTCCCTTAT
1 AAAAGCTCATTCAAATCATTCACATTGTCCCTTAT
* *
69044237 AAAA-CTCATTCAAATCATTCATATTGTTCCTTAT
1 AAAAGCTCATTCAAATCATTCACATTGTCCCTTAT
69044271 AA
1 AA
69044273 GGCTCTATGA
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
34 29 0.88
35 4 0.12
ACGTcount: A:0.37, C:0.21, G:0.06, T:0.37
Consensus pattern (35 bp):
AAAAGCTCATTCAAATCATTCACATTGTCCCTTAT
Found at i:69049267 original size:21 final size:22
Alignment explanation
Indices: 69049229--69049270 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 22
69049219 TTCTCTTTGC
69049229 TTTAAATAAATCAGTTAATTAG
1 TTTAAATAAATCAGTTAATTAG
*
69049251 TTTAAAT-AATTAGTTAATTA
1 TTTAAATAAATCAGTTAATTA
69049271 AAACAAACCC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 12 0.63
22 7 0.37
ACGTcount: A:0.45, C:0.02, G:0.07, T:0.45
Consensus pattern (22 bp):
TTTAAATAAATCAGTTAATTAG
Found at i:69054660 original size:5 final size:5
Alignment explanation
Indices: 69054650--69054747 Score: 83
Period size: 5 Copynumber: 18.2 Consensus size: 5
69054640 TGAATCCTCC
69054650 TATTT TATTT TA-TT TATTCT TATTTT TATTT TA-TT TATTT TATTTT
1 TATTT TATTT TATTT TATT-T TA-TTT TATTT TATTT TATTT TA-TTT
* *
69054696 TATTTT TCTTT TGATTTT TATTT TCATTT CAATTT TATTAT TATTT TATTT
1 TA-TTT TATTT T-A-TTT TATTT T-ATTT -TATTT TATT-T TATTT TATTT
69054747 T
1 T
69054748 GAAAGACATA
Statistics
Matches: 79, Mismatches: 4, Indels: 20
0.77 0.04 0.19
Matches are distributed among these distances:
4 8 0.10
5 35 0.44
6 30 0.38
7 6 0.08
ACGTcount: A:0.19, C:0.04, G:0.01, T:0.76
Consensus pattern (5 bp):
TATTT
Found at i:69054667 original size:9 final size:9
Alignment explanation
Indices: 69054653--69054694 Score: 57
Period size: 9 Copynumber: 4.3 Consensus size: 9
69054643 ATCCTCCTAT
69054653 TTTATTTTA
1 TTTATTTTA
69054662 TTTATTCTTA
1 TTTATT-TTA
69054672 TTTTTATTTTA
1 --TTTATTTTA
69054683 TTTATTTTA
1 TTTATTTTA
69054692 TTT
1 TTT
69054695 TTATTTTTCT
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
9 18 0.60
10 3 0.10
11 3 0.10
12 6 0.20
ACGTcount: A:0.19, C:0.02, G:0.00, T:0.79
Consensus pattern (9 bp):
TTTATTTTA
Found at i:69054684 original size:17 final size:16
Alignment explanation
Indices: 69054650--69054747 Score: 87
Period size: 17 Copynumber: 6.0 Consensus size: 16
69054640 TGAATCCTCC
69054650 TATTTTATTTTA--TT
1 TATTTTATTTTATTTT
69054664 TATTCTTATTTT-TATTT
1 TATT-TTATTTTAT-TTT
69054681 TA-TTTATTTTATTTT
1 TATTTTATTTTATTTT
*
69054696 TATTTTTCTTTTGATTTT
1 TA-TTTTATTTT-ATTTT
* *
69054714 TATTTTCATTTCAATTT
1 TATTTT-ATTTTATTTT
69054731 TATTATTATTTTATTTT
1 TATT-TTATTTTATTTT
69054748 GAAAGACATA
Statistics
Matches: 68, Mismatches: 6, Indels: 17
0.75 0.07 0.19
Matches are distributed among these distances:
14 4 0.06
15 19 0.28
16 2 0.03
17 31 0.46
18 12 0.18
ACGTcount: A:0.19, C:0.04, G:0.01, T:0.76
Consensus pattern (16 bp):
TATTTTATTTTATTTT
Found at i:69054692 original size:35 final size:37
Alignment explanation
Indices: 69054650--69054742 Score: 111
Period size: 41 Copynumber: 2.4 Consensus size: 37
69054640 TGAATCCTCC
69054650 TATTTTATTTTATTTATTC-TT-ATTTTTATTTT-ATT
1 TATTTTATTTTATTT-TTCTTTGATTTTTATTTTCATT
69054685 TATTTTATTTTTATTTTTCTTTTGATTTTTATTTTCATT
1 TATTTTA-TTTTATTTTTC-TTTGATTTTTATTTTCATT
69054724 TCAATTTTATTATTATTTT
1 T--ATTTTATT-TTATTTT
69054743 ATTTTGAAAG
Statistics
Matches: 50, Mismatches: 0, Indels: 10
0.83 0.00 0.17
Matches are distributed among these distances:
35 10 0.20
36 8 0.16
37 2 0.04
38 11 0.22
39 4 0.08
40 2 0.04
41 13 0.26
ACGTcount: A:0.19, C:0.04, G:0.01, T:0.75
Consensus pattern (37 bp):
TATTTTATTTTATTTTTCTTTGATTTTTATTTTCATT
Found at i:69054714 original size:7 final size:6
Alignment explanation
Indices: 69054662--69054747 Score: 68
Period size: 6 Copynumber: 14.3 Consensus size: 6
69054652 TTTTATTTTA
* * * *
69054662 TTTATT CTTATT TTTATT TTATTTAT TTTATT TTTATT TTTCTT TTGATT
1 TTTATT TTTATT TTTATT TT-TAT-T TTTATT TTTATT TTTATT TTTATT
* * * *
69054712 TTTATT TTCA-T TTCAAT TTTATT ATTA-T TTTATT TT
1 TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT TT
69054748 GAAAGACATA
Statistics
Matches: 63, Mismatches: 13, Indels: 8
0.75 0.15 0.10
Matches are distributed among these distances:
5 9 0.14
6 47 0.75
7 4 0.06
8 3 0.05
ACGTcount: A:0.19, C:0.05, G:0.01, T:0.76
Consensus pattern (6 bp):
TTTATT
Found at i:69079230 original size:17 final size:17
Alignment explanation
Indices: 69079187--69079231 Score: 63
Period size: 17 Copynumber: 2.6 Consensus size: 17
69079177 TATAATTAAA
69079187 AATTAAAAATTATTTAT
1 AATTAAAAATTATTTAT
* **
69079204 TATTTTAAATTATTTAT
1 AATTAAAAATTATTTAT
69079221 AATTAAAAATT
1 AATTAAAAATT
69079232 TCTAGTAATA
Statistics
Matches: 22, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (17 bp):
AATTAAAAATTATTTAT
Found at i:69081915 original size:46 final size:46
Alignment explanation
Indices: 69081771--69081895 Score: 232
Period size: 46 Copynumber: 2.7 Consensus size: 46
69081761 AACCCGCCCC
69081771 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGTGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGTGTTCGCATCCA
*
69081817 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGTGTTCGCATCCA
*
69081863 TAAGTGAACTCGGACTCAACTCAACGAGTTCGG
1 TAAGTGAACTCGGACTCAACTCAACGAGCTCGG
69081896 ATGCTCAACC
Statistics
Matches: 77, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
46 77 1.00
ACGTcount: A:0.27, C:0.28, G:0.24, T:0.21
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGTGTTCGCATCCA
Found at i:69087312 original size:24 final size:23
Alignment explanation
Indices: 69087276--69087321 Score: 56
Period size: 24 Copynumber: 2.0 Consensus size: 23
69087266 CATATTACCT
*
69087276 TGCTTCAGCTCAAGAAATTCTTTA
1 TGCTTCAGATCAAGAAA-TCTTTA
* *
69087300 TGCTTCTGATCAATAAATCTTT
1 TGCTTCAGATCAAGAAATCTTT
69087322 CACTAATATA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
23 5 0.26
24 14 0.74
ACGTcount: A:0.28, C:0.20, G:0.11, T:0.41
Consensus pattern (23 bp):
TGCTTCAGATCAAGAAATCTTTA
Found at i:69090751 original size:5 final size:5
Alignment explanation
Indices: 69090725--69090807 Score: 62
Period size: 5 Copynumber: 15.4 Consensus size: 5
69090715 CTTCTTATTT
69090725 TTTTA -TTTA TTCTTA TTTTTA TTTTA TTTTA -TTTA TTTTA TTTTTA
1 TTTTA TTTTA TT-TTA -TTTTA TTTTA TTTTA TTTTA TTTTA -TTTTA
* *
69090771 TTTTTC TTTTGA TTTTTA TTTTCA TTTCAA TTTTA TT
1 -TTTTA TTTT-A -TTTTA TTTT-A TTT-TA TTTTA TT
69090808 ATTTTCTTTT
Statistics
Matches: 65, Mismatches: 4, Indels: 18
0.75 0.05 0.21
Matches are distributed among these distances:
4 8 0.12
5 26 0.40
6 25 0.38
7 6 0.09
ACGTcount: A:0.18, C:0.05, G:0.01, T:0.76
Consensus pattern (5 bp):
TTTTA
Found at i:69090757 original size:26 final size:25
Alignment explanation
Indices: 69090725--69090817 Score: 93
Period size: 25 Copynumber: 3.7 Consensus size: 25
69090715 CTTCTTATTT
69090725 TTTTATTTATTCTTATTTTTATTTTA
1 TTTTATTTATT-TTATTTTTATTTTA
69090751 TTTTATTTATTTTATTTTTATTTT-
1 TTTTATTTATTTTATTTTTATTTTA
* * * *
69090775 TCTT-TTGATTTTTATTTTCATTTCAA
1 TTTTATTTA-TTTTATTTTTATTT-TA
*
69090801 TTTTA-TTATTTTCTTTT
1 TTTTATTTATTTTATTTT
69090818 AAAAGACATA
Statistics
Matches: 56, Mismatches: 7, Indels: 9
0.78 0.10 0.12
Matches are distributed among these distances:
23 3 0.05
24 16 0.29
25 21 0.38
26 16 0.29
ACGTcount: A:0.17, C:0.05, G:0.01, T:0.76
Consensus pattern (25 bp):
TTTTATTTATTTTATTTTTATTTTA
Found at i:69090787 original size:7 final size:6
Alignment explanation
Indices: 69090719--69090797 Score: 72
Period size: 6 Copynumber: 13.0 Consensus size: 6
69090709 TTGAATCTTC
* *
69090719 TTATTT TT-TTAT TTATTC TTATTT TTA-TT TTATTT TATTTATT TTATTT
1 TTATTT TTATT-T TTATTT TTATTT TTATTT TTATTT T-TAT-TT TTATTT
* * *
69090768 TTATTT TTCTTT TGATTT TTATTT TCATTT
1 TTATTT TTATTT TTATTT TTATTT TTATTT
69090798 CAATTTTATT
Statistics
Matches: 59, Mismatches: 9, Indels: 10
0.76 0.12 0.13
Matches are distributed among these distances:
5 7 0.12
6 43 0.73
7 6 0.10
8 3 0.05
ACGTcount: A:0.16, C:0.04, G:0.01, T:0.78
Consensus pattern (6 bp):
TTATTT
Found at i:69090791 original size:49 final size:49
Alignment explanation
Indices: 69090719--69090817 Score: 121
Period size: 49 Copynumber: 2.0 Consensus size: 49
69090709 TTGAATCTTC
* * *
69090719 TTATTTTTTTATTTATTCTTATTTTTATTT-TATTTTATTTATTTTATTT
1 TTATTTTTTTATTGATTCTTATTTTCATTTCAATTTTA-TTATTTTATTT
* *
69090768 TTATTTTTCTT-TTGATTTTTATTTTCATTTCAATTTTATTATTTTCTTT
1 TTATTTTT-TTATTGATTCTTATTTTCATTTCAATTTTATTATTTTATTT
69090817 T
1 T
69090818 AAAAGACATA
Statistics
Matches: 43, Mismatches: 5, Indels: 4
0.83 0.10 0.08
Matches are distributed among these distances:
49 35 0.81
50 8 0.19
ACGTcount: A:0.17, C:0.05, G:0.01, T:0.77
Consensus pattern (49 bp):
TTATTTTTTTATTGATTCTTATTTTCATTTCAATTTTATTATTTTATTT
Found at i:69090792 original size:12 final size:11
Alignment explanation
Indices: 69090719--69090807 Score: 76
Period size: 12 Copynumber: 7.9 Consensus size: 11
69090709 TTGAATCTTC
*
69090719 TTATTTTTTTAT
1 TTATTTTATT-T
69090731 TTATTCTTATTT
1 TTATT-TTATTT
69090743 TTATTTTA-TT
1 TTATTTTATTT
69090753 TTA-TTTA-TT
1 TTATTTTATTT
69090762 TTATTTTTATTT
1 TTA-TTTTATTT
*
69090774 TTCTTTTGATTT
1 TTATTTT-ATTT
69090786 TTATTTTCATTT
1 TTATTTT-ATTT
**
69090798 CAATTTTATT
1 TTATTTTATT
69090808 ATTTTCTTTT
Statistics
Matches: 66, Mismatches: 6, Indels: 11
0.80 0.07 0.13
Matches are distributed among these distances:
9 9 0.14
10 5 0.08
11 14 0.21
12 34 0.52
13 4 0.06
ACGTcount: A:0.18, C:0.04, G:0.01, T:0.76
Consensus pattern (11 bp):
TTATTTTATTT
Found at i:69093743 original size:13 final size:13
Alignment explanation
Indices: 69093727--69093751 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
69093717 TTAAATTATT
69093727 TAATTAGTTTAAA
1 TAATTAGTTTAAA
69093740 TAATTAGTTTAA
1 TAATTAGTTTAA
69093752 TAAACAAACC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.44, C:0.00, G:0.08, T:0.48
Consensus pattern (13 bp):
TAATTAGTTTAAA
Found at i:69100126 original size:40 final size:40
Alignment explanation
Indices: 69100071--69100301 Score: 322
Period size: 40 Copynumber: 5.8 Consensus size: 40
69100061 GGATATAGCT
* * * *
69100071 ACTCGCTCAAATGCCTTCAGGACATAGCCCGG-TTAGAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATT-TAGTA
* *
69100111 ACTTGCACAATTGCCTTCGGGACTTAGCCCGGATTTAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTA
*
69100151 ACTCACACAAATGCCTTCGGGACTTAGCCCGGATTTAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTA
69100191 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTA
** *
69100231 ACTCGCACAAATGCCTTCGGGACTT-GCCCGGAACTAGTC
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTA
* * *
69100270 ACTAGCGCAGATGCCTTCGGGACTTAGCCCGG
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGG
69100302 TTATCATCCA
Statistics
Matches: 173, Mismatches: 16, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
39 33 0.19
40 138 0.80
41 2 0.01
ACGTcount: A:0.24, C:0.29, G:0.23, T:0.24
Consensus pattern (40 bp):
ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTA
Found at i:69105596 original size:15 final size:15
Alignment explanation
Indices: 69105576--69105605 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
69105566 ACCACCACCT
*
69105576 CCACCCTTCCAACAA
1 CCACCCTCCCAACAA
69105591 CCACCCTCCCAACAA
1 CCACCCTCCCAACAA
69105606 GAGAAAAAGC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.33, C:0.57, G:0.00, T:0.10
Consensus pattern (15 bp):
CCACCCTCCCAACAA
Found at i:69115816 original size:17 final size:18
Alignment explanation
Indices: 69115789--69115822 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
69115779 AATTAAATAT
69115789 ATGCATATTAAATTATTA
1 ATGCATATTAAATTATTA
*
69115807 ATGC-TATTAATTTATT
1 ATGCATATTAAATTATT
69115823 TAAACAAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.38, C:0.06, G:0.06, T:0.50
Consensus pattern (18 bp):
ATGCATATTAAATTATTA
Found at i:69122885 original size:68 final size:65
Alignment explanation
Indices: 69122678--69122930 Score: 223
Period size: 68 Copynumber: 3.8 Consensus size: 65
69122668 CATAATTTTT
* * *
69122678 GCTCTCTTGT-ACACATGGTGAACACTTAGTACCACCCATGTGACCTAGC--CAGTTTA-TCTCG
1 GCTCTCTTGTCA-ACATGGTGTACACATAGTACCACCCATGTGACCTAGCTACA-TATATTCTCG
69122739 TA
64 TA
* * * * * *
69122741 GCTCTCTTGTCTACATGGTGTCCTTCACCTGGAACCACGCATGTGACCTAGCTACATATA-TCTC
1 GCTCTCTTGTCAACATGGTG---TACACATAGTACCACCCATGTGACCTAGCTACATATATTCTC
69122805 GTA
63 GTA
* *
69122808 GCTCTCTTGTCAACATGGTGTACACATAGTATCACCCATGCGACCTAGCTACATCATAATGTCTC
1 GCTCTCTTGTCAACATGGTGTACACATAGTACCACCCATGTGACCTAGCTACAT-AT-AT-TCTC
69122873 GTA
63 GTA
* * * **
69122876 GCTCTCTTGT-ACACATGATGTGCAC-TCAGCACCATACATGTGACCTAGCTACATA
1 GCTCTCTTGTCA-ACATGGTGTACACAT-AGTACCACCCATGTGACCTAGCTACATA
69122931 CCCTCTGTAT
Statistics
Matches: 155, Mismatches: 23, Indels: 20
0.78 0.12 0.10
Matches are distributed among these distances:
63 18 0.12
64 27 0.17
65 2 0.01
66 24 0.15
67 32 0.21
68 52 0.34
ACGTcount: A:0.25, C:0.29, G:0.17, T:0.30
Consensus pattern (65 bp):
GCTCTCTTGTCAACATGGTGTACACATAGTACCACCCATGTGACCTAGCTACATATATTCTCGTA
Found at i:69123429 original size:30 final size:30
Alignment explanation
Indices: 69123394--69123454 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
69123384 TCCTTAACTC
*
69123394 AAACTTTTTCAAAATTACAATTTTGCCCCT
1 AAACTTTTGCAAAATTACAATTTTGCCCCT
* * * *
69123424 AAACTTTTGCATATTTACACTTTTGTCCCT
1 AAACTTTTGCAAAATTACAATTTTGCCCCT
69123454 A
1 A
69123455 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.30, C:0.23, G:0.05, T:0.43
Consensus pattern (30 bp):
AAACTTTTGCAAAATTACAATTTTGCCCCT
Found at i:69127657 original size:31 final size:31
Alignment explanation
Indices: 69127609--69127705 Score: 153
Period size: 31 Copynumber: 3.2 Consensus size: 31
69127599 TCAATCTTAG
*
69127609 CATAT-ACTGGGCCGAAGCCTTTACATTATT
1 CATATCACTGGGCCGAAGCCTTTTCATTATT
*
69127639 CATATCACAT-GGCTGAAGCCTTTTCATTATT
1 CATATCAC-TGGGCCGAAGCCTTTTCATTATT
69127670 CATATCACTGGGCCGAAGCCTTTTCATTATT
1 CATATCACTGGGCCGAAGCCTTTTCATTATT
69127701 CATAT
1 CATAT
69127706 TACTATAACA
Statistics
Matches: 61, Mismatches: 3, Indels: 5
0.88 0.04 0.07
Matches are distributed among these distances:
30 6 0.10
31 54 0.89
32 1 0.02
ACGTcount: A:0.26, C:0.24, G:0.14, T:0.36
Consensus pattern (31 bp):
CATATCACTGGGCCGAAGCCTTTTCATTATT
Found at i:69127940 original size:25 final size:25
Alignment explanation
Indices: 69127912--69127971 Score: 86
Period size: 26 Copynumber: 2.4 Consensus size: 25
69127902 CTGGAGGCCT
69127912 AGCCTCTTTTAAT-AACTGGGGCAAA
1 AGCC-CTTTTAATAAACTGGGGCAAA
*
69127937 AGCCCTTTTTGATAAACTGGGGCAAA
1 AGCCC-TTTTAATAAACTGGGGCAAA
69127963 AGCCCTTTT
1 AGCCCTTTT
69127972 CGGTAAACTA
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
24 1 0.03
25 14 0.44
26 17 0.53
ACGTcount: A:0.28, C:0.22, G:0.20, T:0.30
Consensus pattern (25 bp):
AGCCCTTTTAATAAACTGGGGCAAA
Found at i:69127961 original size:26 final size:26
Alignment explanation
Indices: 69127925--69127985 Score: 95
Period size: 26 Copynumber: 2.3 Consensus size: 26
69127915 CTCTTTTAAT
*
69127925 AACTGGGGCAAAAGCCCTTTTTGATA
1 AACTGGGGCAAAAGCCCTTTTCGATA
*
69127951 AACTGGGGCAAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAAGCCCTTTTCGATA
*
69127977 AACTAGGGC
1 AACTGGGGC
69127986 GTAGCCCTTT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 32 1.00
ACGTcount: A:0.30, C:0.21, G:0.26, T:0.23
Consensus pattern (26 bp):
AACTGGGGCAAAAGCCCTTTTCGATA
Found at i:69128157 original size:25 final size:25
Alignment explanation
Indices: 69128129--69128176 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
69128119 ATAATTAAAC
* *
69128129 CCTAGGGGTAAAATGGTCATTTTTA
1 CCTAGGGGCAAAATAGTCATTTTTA
69128154 CCTAGGGGCAAAATAGTCATTTT
1 CCTAGGGGCAAAATAGTCATTTT
69128177 CATATTATAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.29, C:0.15, G:0.23, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAATAGTCATTTTTA
Found at i:69130532 original size:27 final size:27
Alignment explanation
Indices: 69130502--69130679 Score: 189
Period size: 27 Copynumber: 6.6 Consensus size: 27
69130492 ATATTGAGCC
* *
69130502 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* *
69130529 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
69130556 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
** * *
69130584 CGCACACTTAGTGCCGCATGATCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* **
69130611 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* *
69130638 CGCACACTTAGTGCAACATAGTCAAAC-
1 CGCACACTTAGTGCTACATAATC-AACT
69130665 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
69130680 GTACAATTTA
Statistics
Matches: 127, Mismatches: 20, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
27 103 0.81
28 24 0.19
ACGTcount: A:0.30, C:0.29, G:0.15, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:69130641 original size:82 final size:81
Alignment explanation
Indices: 69130522--69130678 Score: 235
Period size: 82 Copynumber: 1.9 Consensus size: 81
69130512 GTGCTATATA
* *
69130522 ATCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGC
1 ATCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAAC-CGC
69130587 ACACTTAGTGCCGCATG
65 ACACTTAGTGCCGCATG
* * **
69130604 ATCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAACCGC
1 ATCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAACCGC
69130668 ACACTTAGTGC
65 ACACTTAGTGC
69130679 TGTACAATTT
Statistics
Matches: 68, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 53 0.78
ACGTcount: A:0.31, C:0.29, G:0.15, T:0.26
Consensus pattern (81 bp):
ATCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAACCGCA
CACTTAGTGCCGCATG
Found at i:69136467 original size:47 final size:47
Alignment explanation
Indices: 69136384--69137567 Score: 1689
Period size: 47 Copynumber: 25.5 Consensus size: 47
69136374 TTGAATAAAT
* * * *
69136384 GTGAAAGTGTATATGTGTGAATAGGGCCGAATGGCCAATGTGATGAAA
1 GTGAACGTGTGTATGTGTG-ATAAGACCGAATGGCCAATGTGATGAAA
* * * * *
69136432 GTGAACATGTATATGCGTGATAAGGCCGAATGGCCAATGTGATGAAT
1 GTGAACGTGTGTATGTGTGATAAGACCGAATGGCCAATGTGATGAAA
* * *
69136479 GTGAATAG-GTGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAAT
1 GTGAA-CGTGTGTATGTGTGATAAGACCGAATGGCCAATGTGATGAAA
* *
69136526 GTGAATAG-GTGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAAA
1 GTGAA-CGTGTGTATGTGTGATAAGACCGAATGGCCAATGTGATGAAA
69136573 GTGAACGTGTGTATGTGTGATAAGACCGAATGGCCAATGTGATGAAA
1 GTGAACGTGTGTATGTGTGATAAGACCGAATGGCCAATGTGATGAAA
69136620 GTGAACGTGTGTATGTGTGATAAGACCGAATGGCCAATGTGATGAAA
1 GTGAACGTGTGTATGTGTGATAAGACCGAATGGCCAATGTGATGAAA
69136667 GTGAACGTGTGTATGTGTGATAAGACCGAATGGCCAATGTGATGAAA
1 GTGAACGTGTGTATGTGTGATAAGACCGAATGGCCAATGTGATGAAA
69136714 GTGAACGTGTGTATGTGTGATAAGACCGAATGGCCAATGTGATGAAA
1 GTGAACGTGTGTATGTGTGATAAGACCGAATGGCCAATGTGATGAAA
69136761 GTGAACGTGTGTATGTGTGATAAGACCGAATGGCCAATGTGATGAAA
1 GTGAACGTGTGTATGTGTGATAAGACCGAATGGCCAATGTGATGAAA
69136808 GTGAACGTGTGTATGTGTGATAAGACCGAATGGCCAATGTGATGAAA
1 GTGAACGTGTGTATGTGTGATAAGACCGAATGGCCAATGTGATGAAA
69136855 GTGAACGTGTGTATGTGTGATAAGACCGAATGGCCAATGTGATGAAA
1 GTGAACGTGTGTATGTGTGATAAGACCGAATGGCCAATGTGATGAAA
69136902 GTGAACGTGTGTATGTGTGATAAGACCGAATGGCCAATGTGATGAAA
1 GTGAACGTGTGTATGTGTGATAAGACCGAATGGCCAATGTGATGAAA
69136949 GTGAACGTGTGTATGTGTGATAAGACCGAATGGCCAATGTGATGAAA
1 GTGAACGTGTGTATGTGTGATAAGACCGAATGGCCAATGTGATGAAA
69136996 GTGAACGTGTGTATGTGTGATAAGACCGAATGGCCAATGTGATGAAA
1 GTGAACGTGTGTATGTGTGATAAGACCGAATGGCCAATGTGATGAAA
69137043 GTGAACGTGTGTATGTGTGATAAGACCGAATGGCCAATGTGATGAAA
1 GTGAACGTGTGTATGTGTGATAAGACCGAATGGCCAATGTGATGAAA
69137090 GTGAACGTGTGTATGTGTGATAAGACCGAATGGCCAATGTGATGAAA
1 GTGAACGTGTGTATGTGTGATAAGACCGAATGGCCAATGTGATGAAA
69137137 GTGAACGTGTGTATGTGTGATAAGACCGAATGGCCAATGTGATGAAA
1 GTGAACGTGTGTATGTGTGATAAGACCGAATGGCCAATGTGATGAAA
69137184 GTGAACGTGTGTATGTGTGATAAGACCGAATGGCCAATGTGATGAAA
1 GTGAACGTGTGTATGTGTGATAAGACCGAATGGCCAATGTGATGAAA
*
69137231 GTGAACGTGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAAA
1 GTGAACGTGTGTATGTGTGATAAGACCGAATGGCCAATGTGATGAAA
*
69137278 GTGAACGTGTGTATGTGTGAT-A-A--GAAT-G--AATGTGA--ATAG
1 GTGAACGTGTGTATGTGTGATAAGACCGAATGGCCAATGTGATGA-AA
* * * * * * ** *
69137317 GTGTATGTGTGATAAG-GCCGA-ATGGCC-AATGTGATGAATGTGA--ATAG
1 GTGAACGTGTG-TATGTG-TGATAAGACCGAATG-G-CCAATGTGATGA-AA
* * *
69137364 GTGTA--TGTG--TG----ATAAGGCCGAATGGCCAATGTGATGAAT
1 GTGAACGTGTGTATGTGTGATAAGACCGAATGGCCAATGTGATGAAA
* * *
69137403 GTGAATAG-GTGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAAT
1 GTGAA-CGTGTGTATGTGTGATAAGACCGAATGGCCAATGTGATGAAA
* * * *
69137450 GTGAACATGTGTATGTGTGATAAGGCCGAGTGGCCAATGTGATGAAT
1 GTGAACGTGTGTATGTGTGATAAGACCGAATGGCCAATGTGATGAAA
* * * * * * *
69137497 GTGAGCATGTGTATGTGAGATAAGGCCTAATGGCCGATGTGATGAAT
1 GTGAACGTGTGTATGTGTGATAAGACCGAATGGCCAATGTGATGAAA
* * **
69137544 GTGAAAGTGTATAAATGTGATAAG
1 GTGAACGTGTGTATGTGTGATAAG
69137568 TCCCGAAGGG
Statistics
Matches: 1066, Mismatches: 42, Indels: 57
0.92 0.04 0.05
Matches are distributed among these distances:
38 9 0.01
39 22 0.02
40 17 0.02
41 3 0.00
42 5 0.00
43 6 0.01
44 1 0.00
45 4 0.00
46 2 0.00
47 981 0.92
48 16 0.02
ACGTcount: A:0.31, C:0.10, G:0.33, T:0.26
Consensus pattern (47 bp):
GTGAACGTGTGTATGTGTGATAAGACCGAATGGCCAATGTGATGAAA
Found at i:69136474 original size:22 final size:22
Alignment explanation
Indices: 69136448--69136568 Score: 66
Period size: 22 Copynumber: 5.2 Consensus size: 22
69136438 ATGTATATGC
69136448 GTGATAAGGCCGAATGGCCAAT
1 GTGATAAGGCCGAATGGCCAAT
* * ** *
69136470 GTGATGAATG-TGAATAGGTGTATGT
1 GTGAT-AAGGCCGAAT-GG-CCA-AT
69136495 GTGATAAGGCCGAATGGCCAAT
1 GTGATAAGGCCGAATGGCCAAT
* * ** *
69136517 GTGATGAATG-TGAATAGGTGTATGT
1 GTGAT-AAGGCCGAAT-GG-CCA-AT
69136542 GTGATAAGGCCGAATGGCCAAT
1 GTGATAAGGCCGAATGGCCAAT
69136564 GTGAT
1 GTGAT
69136569 GAAAGTGAAC
Statistics
Matches: 69, Mismatches: 20, Indels: 20
0.63 0.18 0.18
Matches are distributed among these distances:
22 25 0.36
23 12 0.17
24 12 0.17
25 20 0.29
ACGTcount: A:0.30, C:0.10, G:0.34, T:0.26
Consensus pattern (22 bp):
GTGATAAGGCCGAATGGCCAAT
Found at i:69136498 original size:25 final size:25
Alignment explanation
Indices: 69136469--69136546 Score: 74
Period size: 25 Copynumber: 3.2 Consensus size: 25
69136459 GAATGGCCAA
69136469 TGTGATGAATGTGAATAGGTGTATG
1 TGTGATGAATGTGAATAGGTGTATG
* * ** *
69136494 TGTGAT-AAGGCCGAAT-GG-CCA-A
1 TGTGATGAATG-TGAATAGGTGTATG
69136516 TGTGATGAATGTGAATAGGTGTATG
1 TGTGATGAATGTGAATAGGTGTATG
69136541 TGTGAT
1 TGTGAT
69136547 AAGGCCGAAT
Statistics
Matches: 38, Mismatches: 10, Indels: 10
0.66 0.17 0.17
Matches are distributed among these distances:
22 10 0.26
23 6 0.16
24 6 0.16
25 16 0.42
ACGTcount: A:0.28, C:0.05, G:0.35, T:0.32
Consensus pattern (25 bp):
TGTGATGAATGTGAATAGGTGTATG
Found at i:69136556 original size:25 final size:25
Alignment explanation
Indices: 69136481--69136556 Score: 70
Period size: 25 Copynumber: 3.2 Consensus size: 25
69136471 TGATGAATGT
69136481 GAATAGGTGTATGTGTGATAAGGCC
1 GAATAGGTGTATGTGTGATAAGGCC
** * * *
69136506 GAAT-GG-CCA-ATGTGATGAATG-T
1 GAATAGGTGTATGTGTGAT-AAGGCC
69136528 GAATAGGTGTATGTGTGATAAGGCC
1 GAATAGGTGTATGTGTGATAAGGCC
69136553 GAAT
1 GAAT
69136557 GGCCAATGTG
Statistics
Matches: 36, Mismatches: 10, Indels: 10
0.64 0.18 0.18
Matches are distributed among these distances:
22 10 0.28
23 6 0.17
24 6 0.17
25 14 0.39
ACGTcount: A:0.30, C:0.08, G:0.34, T:0.28
Consensus pattern (25 bp):
GAATAGGTGTATGTGTGATAAGGCC
Found at i:69137313 original size:31 final size:31
Alignment explanation
Indices: 69137272--69137332 Score: 88
Period size: 31 Copynumber: 2.0 Consensus size: 31
69137262 GGCCAATGTG
*
69137272 ATGAAAGTGAA-CGTGTGTATGTGTGATAAGA
1 ATGAAAGTGAATAG-GTGTATGTGTGATAAGA
*
69137303 ATGAATGTGAATAGGTGTATGTGTGATAAG
1 ATGAAAGTGAATAGGTGTATGTGTGATAAG
69137333 GCCGAATGGC
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
31 26 0.96
32 1 0.04
ACGTcount: A:0.34, C:0.02, G:0.33, T:0.31
Consensus pattern (31 bp):
ATGAAAGTGAATAGGTGTATGTGTGATAAGA
Done.