Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: 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: 70076365
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 3341059 characters in sequence are not A, C, G, or T
File 131 of 210
Found at i:43525071 original size:18 final size:18
Alignment explanation
Indices: 43525025--43525121 Score: 83
Period size: 18 Copynumber: 5.3 Consensus size: 18
43525015 TATTTAAGCC
43525025 TAAAATTT-TTAAAATACTA
1 TAAAATTTATTAAAA-A-TA
*
43525044 TAATAAATTTATTGAAAATA
1 T-A-AAATTTATTAAAAATA
*
43525064 TAAAATTTATTTAAAAGTA
1 TAAAATTTA-TTAAAAATA
* *
43525083 TAAAATATAATAAAAATA
1 TAAAATTTATTAAAAATA
*
43525101 GAAAA-TTA-TAAAAATA
1 TAAAATTTATTAAAAATA
43525117 TAAAA
1 TAAAA
43525122 AGGTATTAAA
Statistics
Matches: 65, Mismatches: 9, Indels: 11
0.76 0.11 0.13
Matches are distributed among these distances:
16 12 0.18
17 2 0.03
18 18 0.28
19 17 0.26
20 4 0.06
21 7 0.11
22 5 0.08
ACGTcount: A:0.61, C:0.01, G:0.03, T:0.35
Consensus pattern (18 bp):
TAAAATTTATTAAAAATA
Found at i:43525105 original size:8 final size:8
Alignment explanation
Indices: 43525075--43525153 Score: 59
Period size: 8 Copynumber: 9.0 Consensus size: 8
43525065 AAAATTTATT
*
43525075 TAAAAGTA
1 TAAAAATA
43525083 TAAAATATAA
1 TAAAA-AT-A
43525093 TAAAAATA
1 TAAAAATA
* *
43525101 GAAAATTA
1 TAAAAATA
43525109 TAAAAATA
1 TAAAAATA
43525117 TAAAAAGGTA
1 TAAAAA--TA
*
43525127 TTAAATATTA
1 -TAAA-AATA
43525137 TGAAAAATA
1 T-AAAAATA
43525146 TAAAAATA
1 TAAAAATA
43525154 ATATGAACAT
Statistics
Matches: 57, Mismatches: 7, Indels: 14
0.73 0.09 0.18
Matches are distributed among these distances:
8 31 0.54
9 8 0.14
10 13 0.23
11 4 0.07
12 1 0.02
ACGTcount: A:0.66, C:0.00, G:0.06, T:0.28
Consensus pattern (8 bp):
TAAAAATA
Found at i:43525172 original size:29 final size:28
Alignment explanation
Indices: 43525084--43525172 Score: 101
Period size: 29 Copynumber: 3.1 Consensus size: 28
43525074 TTAAAAGTAT
43525084 AAAATATAATAAAAATA-GAAA-ATTATA
1 AAAATATAA-AAAAATATGAAATATTATA
** *
43525111 AAAATATAAAAAGGTATTAAATATTATGA
1 AAAATATAAAAAAATATGAAATATTAT-A
43525140 AAAATATAAAAATAATATGAACATATTATA
1 AAAATATAAAAA-AATATGAA-ATATTATA
43525170 AAA
1 AAA
43525173 CTTTTAAAAG
Statistics
Matches: 51, Mismatches: 6, Indels: 7
0.80 0.09 0.11
Matches are distributed among these distances:
26 5 0.10
27 12 0.24
28 5 0.10
29 13 0.25
30 9 0.18
31 7 0.14
ACGTcount: A:0.65, C:0.01, G:0.06, T:0.28
Consensus pattern (28 bp):
AAAATATAAAAAAATATGAAATATTATA
Found at i:43527752 original size:50 final size:50
Alignment explanation
Indices: 43527635--43527871 Score: 271
Period size: 50 Copynumber: 4.6 Consensus size: 50
43527625 GATAATAACA
* ** * *
43527635 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTTCATGTAC--
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATAT-CGG
* * * **
43527684 TGCCAATGCCATATCCCAGATATGGTCTTACATGAGAGTTCTCATATCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGG
* * * *
43527734 TGCCCATGCCATGTCCCAGACATGGTCTTACGTGGGACCTCTCGTCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGG
43527784 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATGATCTCAAGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCAT-A--TC--GG
43527839 ATGCCAATGCCATGTCCCAGACATGGTCTTACA
1 -TGCCAATGCCATGTCCCAGACATGGTCTTACA
43527872 AAAAAAATCT
Statistics
Matches: 159, Mismatches: 21, Indels: 9
0.84 0.11 0.05
Matches are distributed among these distances:
48 1 0.01
49 39 0.25
50 83 0.52
53 2 0.01
55 2 0.01
56 32 0.20
ACGTcount: A:0.23, C:0.28, G:0.22, T:0.27
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGG
Found at i:43528533 original size:49 final size:49
Alignment explanation
Indices: 43528478--43528642 Score: 149
Period size: 49 Copynumber: 3.4 Consensus size: 49
43528468 CCTAGTTCAT
*
43528478 GGTGGTTATACGGTCACAGGTTCAAATATAACTAAGGCT-TTCAATTTAC
1 GGTGGTTATACGGTCACAGGTTCAAATATAACTAAGGCTCTT-AATTGAC
** *
43528527 GGTGGTTATATAGT-ACCAGGTTCAAATATAACTAAGGCTCTTAGTTGAC
1 GGTGGTTATACGGTCA-CAGGTTCAAATATAACTAAGGCTCTTAATTGAC
* * * * * * *
43528576 GGTGGTTATGCGATCACGGGTTTAAGTATAACT-CGAGCTC-CAAGTTGAC
1 GGTGGTTATACGGTCACAGGTTCAAATATAACTAAG-GCTCTTAA-TTGAC
* *
43528625 AGTGGTTATACGATCACA
1 GGTGGTTATACGGTCACA
43528643 AGTTTAAGTT
Statistics
Matches: 94, Mismatches: 17, Indels: 10
0.78 0.14 0.08
Matches are distributed among these distances:
48 3 0.03
49 88 0.94
50 3 0.03
ACGTcount: A:0.29, C:0.16, G:0.24, T:0.31
Consensus pattern (49 bp):
GGTGGTTATACGGTCACAGGTTCAAATATAACTAAGGCTCTTAATTGAC
Found at i:43532644 original size:28 final size:28
Alignment explanation
Indices: 43532586--43532696 Score: 125
Period size: 28 Copynumber: 4.0 Consensus size: 28
43532576 CACGAAATTG
* *
43532586 ATTTGCTCACAGAAGCTGTAATATTCT-A
1 ATTTGCTCACACAAGCTGTGATATT-TGA
* *
43532614 ATTTGCTCACACGAGCTGTGACATTTGA
1 ATTTGCTCACACAAGCTGTGATATTTGA
* * * *
43532642 ATTTTCTTAGACAAGCTATGATATTTGA
1 ATTTGCTCACACAAGCTGTGATATTTGA
*
43532670 ATTTGCTCACAAAAGCTGTGATATTTG
1 ATTTGCTCACACAAGCTGTGATATTTG
43532697 GGTTGCTTAC
Statistics
Matches: 67, Mismatches: 15, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
27 1 0.01
28 66 0.99
ACGTcount: A:0.30, C:0.16, G:0.17, T:0.37
Consensus pattern (28 bp):
ATTTGCTCACACAAGCTGTGATATTTGA
Found at i:43533291 original size:34 final size:34
Alignment explanation
Indices: 43533253--43533323 Score: 126
Period size: 34 Copynumber: 2.1 Consensus size: 34
43533243 AGTTGATTCA
43533253 AATCCCGATTTAT-GATAATTCATTTCAATTCATC
1 AATCCCGATTTATAG-TAATTCATTTCAATTCATC
43533287 AATCCCGATTTATAGTAATTCATTTCAATTCATC
1 AATCCCGATTTATAGTAATTCATTTCAATTCATC
43533321 AAT
1 AAT
43533324 TCTAAACATC
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
34 35 0.97
35 1 0.03
ACGTcount: A:0.34, C:0.20, G:0.06, T:0.41
Consensus pattern (34 bp):
AATCCCGATTTATAGTAATTCATTTCAATTCATC
Found at i:43535821 original size:836 final size:836
Alignment explanation
Indices: 43534209--43535871 Score: 3326
Period size: 836 Copynumber: 2.0 Consensus size: 836
43534199 ACTAATTATC
43534209 CAATTAATAAATTTGTCAGACTAAAATTCGATATAATACTATAATTGACTCGTAAATATTAATTA
1 CAATTAATAAATTTGTCAGACTAAAATTCGATATAATACTATAATTGACTCGTAAATATTAATTA
43534274 ATAATATTTACGGACTCGATCATCAGAAAACGAAATTCTTAAACCACCGTTTTTGACACCACTAA
66 ATAATATTTACGGACTCGATCATCAGAAAACGAAATTCTTAAACCACCGTTTTTGACACCACTAA
43534339 AAATCAAACTGTAATTGAGTGATTGCATTATCTTTCCATTCAACTGGGATTTGTAGGTTGCGATA
131 AAATCAAACTGTAATTGAGTGATTGCATTATCTTTCCATTCAACTGGGATTTGTAGGTTGCGATA
43534404 CTCCGTTAGCTTATGTCACAACATTATTGATAAACGGTGTTGCAGTTCATTCTTCAAGTCAAATG
196 CTCCGTTAGCTTATGTCACAACATTATTGATAAACGGTGTTGCAGTTCATTCTTCAAGTCAAATG
43534469 TTAAGTTTGTGGCACTCAAATAATTGGTAGCTTGATATCCATTTAAGATAATGCGAGTTGTCCTC
261 TTAAGTTTGTGGCACTCAAATAATTGGTAGCTTGATATCCATTTAAGATAATGCGAGTTGTCCTC
43534534 CAAGTCAAGTTATAGAGTCGTGACATTAGTCTGAATTTTGTCGAGACTTTCATCTTGATGTTTAG
326 CAAGTCAAGTTATAGAGTCGTGACATTAGTCTGAATTTTGTCGAGACTTTCATCTTGATGTTTAG
43534599 CATCTTTGGATCGATCAAGGTCAAGGTTCCGACATTCTCTAATTCGTGCTACAACCTCCTTAATT
391 CATCTTTGGATCGATCAAGGTCAAGGTTCCGACATTCTCTAATTCGTGCTACAACCTCCTTAATT
43534664 TCAATCACGAAAATATTGTATTTTCATATAACGATTATTCGAATTTAGATGATTTTTAAGAAAAA
456 TCAATCACGAAAATATTGTATTTTCATATAACGATTATTCGAATTTAGATGATTTTTAAGAAAAA
43534729 TAAATATCCAATTAATATTATAACTTAAAATTTAATCATAAAAATACATAAGATGGGTTAAAATA
521 TAAATATCCAATTAATATTATAACTTAAAATTTAATCATAAAAATACATAAGATGGGTTAAAATA
43534794 ACTTGAATGCAAGGCTCAAATGCGAAAATTCTAATTCATAAAATTAGTAATTCTACCTTAAAACT
586 ACTTGAATGCAAGGCTCAAATGCGAAAATTCTAATTCATAAAATTAGTAATTCTACCTTAAAACT
43534859 AGCTAAATATAAGTGTTCAAAGAGGTCATAAACATATAACAAATTATTCCACAAGTATATAAACT
651 AGCTAAATATAAGTGTTCAAAGAGGTCATAAACATATAACAAATTATTCCACAAGTATATAAACT
43534924 AAATCGGTTGAGTCCACACTTTTATAGACGATATTAATTAAGTTAATATTTTTATAGTTTAACAA
716 AAATCGGTTGAGTCCACACTTTTATAGACGATATTAATTAAGTTAATATTTTTATAGTTTAACAA
43534989 ATCCCTATAAAATAATTAAAAAATAATTAAATCCCTAATTGAAAATTTAACTAATT
781 ATCCCTATAAAATAATTAAAAAATAATTAAATCCCTAATTGAAAATTTAACTAATT
43535045 CAATTAATAAATTTGTCAGACTAAAATTCGATATAATACTATAATTGACTCGTAAATATTAATTA
1 CAATTAATAAATTTGTCAGACTAAAATTCGATATAATACTATAATTGACTCGTAAATATTAATTA
43535110 ATAATATTTACGGACTCGATCATCAGAAAACGAAATTCTTAAACCACCGTTTTTGACACCACTAA
66 ATAATATTTACGGACTCGATCATCAGAAAACGAAATTCTTAAACCACCGTTTTTGACACCACTAA
43535175 AAATCAAACTGTAATTGAGTGATTGCATTATCTTTCCATTCAACTGGGATTTGTAGGTTGCGATA
131 AAATCAAACTGTAATTGAGTGATTGCATTATCTTTCCATTCAACTGGGATTTGTAGGTTGCGATA
43535240 CTCCGTTAGCTTATGTCACAACATTATTGATAAACGGTGTTGCAGTTCATTCTTCAAGTCAAATG
196 CTCCGTTAGCTTATGTCACAACATTATTGATAAACGGTGTTGCAGTTCATTCTTCAAGTCAAATG
43535305 TTAAGTTTGTGGCACTCAAATAATTGGTAGCTTGATATCCATTTAAGATAATGCGAGTTGTCCTC
261 TTAAGTTTGTGGCACTCAAATAATTGGTAGCTTGATATCCATTTAAGATAATGCGAGTTGTCCTC
43535370 CAAGTCAAGTTATAGAGTCGTGACATTAGTCTGAATTTTGTCGAGACTTTCATCTTGATGTTTAG
326 CAAGTCAAGTTATAGAGTCGTGACATTAGTCTGAATTTTGTCGAGACTTTCATCTTGATGTTTAG
43535435 CATCTTTGGATCGATCAAGGTCAAGGTTCCGACATTCTCTAATTCGTGCTACAACCTCCTTAATT
391 CATCTTTGGATCGATCAAGGTCAAGGTTCCGACATTCTCTAATTCGTGCTACAACCTCCTTAATT
43535500 TCAATCACGAAAATATTGTATTTTCATATAACGATTATTCGAATTTAGATGATTTTTAAGAAAAA
456 TCAATCACGAAAATATTGTATTTTCATATAACGATTATTCGAATTTAGATGATTTTTAAGAAAAA
43535565 TAAATATCCAATTAATATTATAACTTAAAATTTAATCATAAAAATACATAAGATGGGTTAAAATA
521 TAAATATCCAATTAATATTATAACTTAAAATTTAATCATAAAAATACATAAGATGGGTTAAAATA
43535630 ACTTGAATGCAAGGCTCAAATGCGAAAATTCTAATTCATAAAATTAGTAATTCTACCTTAAAACT
586 ACTTGAATGCAAGGCTCAAATGCGAAAATTCTAATTCATAAAATTAGTAATTCTACCTTAAAACT
43535695 AGCTAAATATAAGTGTTCAAAGAGGTCATAAACATATAACAAATTATTCCACAAGTATATAAACT
651 AGCTAAATATAAGTGTTCAAAGAGGTCATAAACATATAACAAATTATTCCACAAGTATATAAACT
43535760 AAATCGGTTGAGTCCACACTTTTATAGACGATATTAATTAAGTTAATATTTTTATAGTTTAACAA
716 AAATCGGTTGAGTCCACACTTTTATAGACGATATTAATTAAGTTAATATTTTTATAGTTTAACAA
43535825 ATCCCTATAAAATAATTAAAAAATAATTAAATCCCTAATTGAAAATT
781 ATCCCTATAAAATAATTAAAAAATAATTAAATCCCTAATTGAAAATT
43535872 ATAATCAATT
Statistics
Matches: 827, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
836 827 1.00
ACGTcount: A:0.38, C:0.15, G:0.13, T:0.35
Consensus pattern (836 bp):
CAATTAATAAATTTGTCAGACTAAAATTCGATATAATACTATAATTGACTCGTAAATATTAATTA
ATAATATTTACGGACTCGATCATCAGAAAACGAAATTCTTAAACCACCGTTTTTGACACCACTAA
AAATCAAACTGTAATTGAGTGATTGCATTATCTTTCCATTCAACTGGGATTTGTAGGTTGCGATA
CTCCGTTAGCTTATGTCACAACATTATTGATAAACGGTGTTGCAGTTCATTCTTCAAGTCAAATG
TTAAGTTTGTGGCACTCAAATAATTGGTAGCTTGATATCCATTTAAGATAATGCGAGTTGTCCTC
CAAGTCAAGTTATAGAGTCGTGACATTAGTCTGAATTTTGTCGAGACTTTCATCTTGATGTTTAG
CATCTTTGGATCGATCAAGGTCAAGGTTCCGACATTCTCTAATTCGTGCTACAACCTCCTTAATT
TCAATCACGAAAATATTGTATTTTCATATAACGATTATTCGAATTTAGATGATTTTTAAGAAAAA
TAAATATCCAATTAATATTATAACTTAAAATTTAATCATAAAAATACATAAGATGGGTTAAAATA
ACTTGAATGCAAGGCTCAAATGCGAAAATTCTAATTCATAAAATTAGTAATTCTACCTTAAAACT
AGCTAAATATAAGTGTTCAAAGAGGTCATAAACATATAACAAATTATTCCACAAGTATATAAACT
AAATCGGTTGAGTCCACACTTTTATAGACGATATTAATTAAGTTAATATTTTTATAGTTTAACAA
ATCCCTATAAAATAATTAAAAAATAATTAAATCCCTAATTGAAAATTTAACTAATT
Found at i:43536088 original size:18 final size:18
Alignment explanation
Indices: 43536042--43536138 Score: 83
Period size: 18 Copynumber: 5.3 Consensus size: 18
43536032 TATTTAAGCC
43536042 TAAAATTT-TTAAAATACTA
1 TAAAATTTATTAAAA-A-TA
*
43536061 TAATAAATTTATTGAAAATA
1 T-A-AAATTTATTAAAAATA
*
43536081 TAAAATTTATTTAAAAGTA
1 TAAAATTTA-TTAAAAATA
* *
43536100 TAAAATATAATAAAAATA
1 TAAAATTTATTAAAAATA
*
43536118 GAAAA-TTA-TAAAAATA
1 TAAAATTTATTAAAAATA
43536134 TAAAA
1 TAAAA
43536139 AGGTATTAAA
Statistics
Matches: 65, Mismatches: 9, Indels: 11
0.76 0.11 0.13
Matches are distributed among these distances:
16 12 0.18
17 2 0.03
18 18 0.28
19 17 0.26
20 4 0.06
21 7 0.11
22 5 0.08
ACGTcount: A:0.61, C:0.01, G:0.03, T:0.35
Consensus pattern (18 bp):
TAAAATTTATTAAAAATA
Found at i:43536122 original size:8 final size:8
Alignment explanation
Indices: 43536092--43536170 Score: 59
Period size: 8 Copynumber: 9.0 Consensus size: 8
43536082 AAAATTTATT
*
43536092 TAAAAGTA
1 TAAAAATA
43536100 TAAAATATAA
1 TAAAA-AT-A
43536110 TAAAAATA
1 TAAAAATA
* *
43536118 GAAAATTA
1 TAAAAATA
43536126 TAAAAATA
1 TAAAAATA
43536134 TAAAAAGGTA
1 TAAAAA--TA
*
43536144 TTAAATATTA
1 -TAAA-AATA
43536154 TGAAAAATA
1 T-AAAAATA
43536163 TAAAAATA
1 TAAAAATA
43536171 ATATGAACAT
Statistics
Matches: 57, Mismatches: 7, Indels: 14
0.73 0.09 0.18
Matches are distributed among these distances:
8 31 0.54
9 8 0.14
10 13 0.23
11 4 0.07
12 1 0.02
ACGTcount: A:0.66, C:0.00, G:0.06, T:0.28
Consensus pattern (8 bp):
TAAAAATA
Found at i:43536189 original size:29 final size:28
Alignment explanation
Indices: 43536101--43536189 Score: 101
Period size: 29 Copynumber: 3.1 Consensus size: 28
43536091 TTAAAAGTAT
43536101 AAAATATAATAAAAATA-GAAA-ATTATA
1 AAAATATAA-AAAAATATGAAATATTATA
** *
43536128 AAAATATAAAAAGGTATTAAATATTATGA
1 AAAATATAAAAAAATATGAAATATTAT-A
43536157 AAAATATAAAAATAATATGAACATATTATA
1 AAAATATAAAAA-AATATGAA-ATATTATA
43536187 AAA
1 AAA
43536190 CTTTTAAAAG
Statistics
Matches: 51, Mismatches: 6, Indels: 7
0.80 0.09 0.11
Matches are distributed among these distances:
26 5 0.10
27 12 0.24
28 5 0.10
29 13 0.25
30 9 0.18
31 7 0.14
ACGTcount: A:0.65, C:0.01, G:0.06, T:0.28
Consensus pattern (28 bp):
AAAATATAAAAAAATATGAAATATTATA
Found at i:43536762 original size:36 final size:35
Alignment explanation
Indices: 43536722--43536797 Score: 109
Period size: 36 Copynumber: 2.1 Consensus size: 35
43536712 TTATAATATT
43536722 TTTATAGTTTTTCT-TTATTTCTAAAATTTTCTAAAA
1 TTTATAG-TTTTCTATTATTTCTAAAATTTTCT-AAA
* *
43536758 TTTATAGTTTTCTATTATTTTTACAATTTTCTAAA
1 TTTATAGTTTTCTATTATTTCTAAAATTTTCTAAA
43536793 TTTAT
1 TTTAT
43536798 TATAATATCA
Statistics
Matches: 37, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
35 14 0.38
36 23 0.62
ACGTcount: A:0.29, C:0.08, G:0.03, T:0.61
Consensus pattern (35 bp):
TTTATAGTTTTCTATTATTTCTAAAATTTTCTAAA
Found at i:43538537 original size:18 final size:19
Alignment explanation
Indices: 43538491--43538537 Score: 53
Period size: 18 Copynumber: 2.5 Consensus size: 19
43538481 CACTAATAAT
43538491 ATATATTTATTTATTTCATA
1 ATAT-TTTATTTATTTCATA
* *
43538511 A-ATTATATTTATTT-TTA
1 ATATTTTATTTATTTCATA
43538528 ATATTTTATT
1 ATATTTTATT
43538538 ACACTCTGGT
Statistics
Matches: 23, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
17 3 0.13
18 17 0.74
19 2 0.09
20 1 0.04
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (19 bp):
ATATTTTATTTATTTCATA
Found at i:43539168 original size:7 final size:7
Alignment explanation
Indices: 43539156--43539190 Score: 70
Period size: 7 Copynumber: 5.0 Consensus size: 7
43539146 TGACATTATT
43539156 TAATTTA
1 TAATTTA
43539163 TAATTTA
1 TAATTTA
43539170 TAATTTA
1 TAATTTA
43539177 TAATTTA
1 TAATTTA
43539184 TAATTTA
1 TAATTTA
43539191 ATATTTTATT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 28 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (7 bp):
TAATTTA
Found at i:43539196 original size:21 final size:21
Alignment explanation
Indices: 43539156--43539199 Score: 70
Period size: 21 Copynumber: 2.0 Consensus size: 21
43539146 TGACATTATT
43539156 TAATTTATAATTTATAATTTA
1 TAATTTATAATTTATAATTTA
*
43539177 TAATTTATAATTTAATATTTTA
1 TAATTTATAATTT-ATAATTTA
43539199 T
1 T
43539200 TTGCCTATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
21 13 0.62
22 8 0.38
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (21 bp):
TAATTTATAATTTATAATTTA
Found at i:43545769 original size:50 final size:49
Alignment explanation
Indices: 43545707--43545839 Score: 169
Period size: 50 Copynumber: 2.7 Consensus size: 49
43545697 CAATGTCATA
* **
43545707 TCCCAGATATGGTCTTACATGAGAGTTCTCATATCGGTGCCCATG-CCATG
1 TCCCAGACATGGTCTTACATGAGACCTCTCATATCGGTG-CCA-GCCCATG
* * *
43545757 TCCCAGACATGGTCTTACAAGAGACCTCTCATCTCGGTGCTAGCTCCATG
1 TCCCAGACATGGTCTTACATGAGACCTCTCATATCGGTGCCAGC-CCATG
*
43545807 TCCCAGACATGGTCTTACATGGGACCTCTCATA
1 TCCCAGACATGGTCTTACATGAGACCTCTCATA
43545840 ATCTCAATAT
Statistics
Matches: 72, Mismatches: 9, Indels: 4
0.85 0.11 0.05
Matches are distributed among these distances:
48 1 0.01
49 2 0.03
50 69 0.96
ACGTcount: A:0.23, C:0.29, G:0.20, T:0.28
Consensus pattern (49 bp):
TCCCAGACATGGTCTTACATGAGACCTCTCATATCGGTGCCAGCCCATG
Found at i:43548160 original size:43 final size:43
Alignment explanation
Indices: 43548099--43548182 Score: 150
Period size: 43 Copynumber: 2.0 Consensus size: 43
43548089 TGTTACACGA
* *
43548099 TTTGGCGACATGGCTATGTGACCTTATTTCGAATTGCACACAG
1 TTTGGCAACATGGCTATGTGACCTTATTTCGAATTACACACAG
43548142 TTTGGCAACATGGCTATGTGACCTTATTTCGAATTACACAC
1 TTTGGCAACATGGCTATGTGACCTTATTTCGAATTACACAC
43548183 GGTCTATGAC
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 39 1.00
ACGTcount: A:0.25, C:0.21, G:0.20, T:0.33
Consensus pattern (43 bp):
TTTGGCAACATGGCTATGTGACCTTATTTCGAATTACACACAG
Found at i:43551543 original size:15 final size:16
Alignment explanation
Indices: 43551497--43551558 Score: 56
Period size: 16 Copynumber: 3.9 Consensus size: 16
43551487 AGACAGTTCA
43551497 CACA-TACACAACTCG
1 CACATTACACAACTCG
* * * *
43551512 GACATAACTAGAGCTCG
1 CACATTAC-ACAACTCG
*
43551529 CATA-TACACAACTCG
1 CACATTACACAACTCG
43551544 CACATTACACAACTC
1 CACATTACACAACTC
43551559 ATTCTGTCAC
Statistics
Matches: 34, Mismatches: 10, Indels: 5
0.69 0.20 0.10
Matches are distributed among these distances:
15 12 0.35
16 14 0.41
17 8 0.24
ACGTcount: A:0.39, C:0.34, G:0.10, T:0.18
Consensus pattern (16 bp):
CACATTACACAACTCG
Found at i:43551578 original size:31 final size:33
Alignment explanation
Indices: 43551535--43551612 Score: 108
Period size: 32 Copynumber: 2.5 Consensus size: 33
43551525 CTCGCATATA
*
43551535 CACAACTCGCACATTACACAAC-TCA-TTCTGT
1 CACAGCTCGCACATTACACAACTTCATTTCTGT
* *
43551566 CACAGCTCGCACA-TACACAACTTGATTTTTGT
1 CACAGCTCGCACATTACACAACTTCATTTCTGT
43551598 CACAGCTCGCACATT
1 CACAGCTCGCACATT
43551613 GGCTACCTTA
Statistics
Matches: 41, Mismatches: 3, Indels: 4
0.85 0.06 0.08
Matches are distributed among these distances:
30 8 0.20
31 14 0.34
32 18 0.44
33 1 0.02
ACGTcount: A:0.29, C:0.33, G:0.10, T:0.27
Consensus pattern (33 bp):
CACAGCTCGCACATTACACAACTTCATTTCTGT
Found at i:43551941 original size:52 final size:52
Alignment explanation
Indices: 43551789--43552035 Score: 201
Period size: 52 Copynumber: 4.8 Consensus size: 52
43551779 TCACACAAAC
* ** * *
43551789 CAATACAATGATAGTTCGCATGCACATTACATTGCAAGACAATTCATGCATT
1 CAATGCAATGATAGTTCGCATAAACATTATATTGCAAGAAAATTCATGCATT
* * * *
43551841 TAATGCAATGATAGTTCGCATAAAAATTATATTACACA-AAAATACATGCATT
1 CAATGCAATGATAGTTCGCATAAACATTATATTGCA-AGAAAATTCATGCATT
* * * * * *
43551893 CAACGTAATGATAGTTTGCATAAACATTATATTGTAAGATAGTTCATGCATT
1 CAATGCAATGATAGTTCGCATAAACATTATATTGCAAGAAAATTCATGCATT
* * * * ** * * * *
43551945 CGATGCACTGATAATTTGCATAAACATTACCTTACAAGACAGTTCATACCA-T
1 CAATGCAATGATAGTTCGCATAAACATTATATTGCAAGAAAATTCAT-GCATT
* * * *
43551997 CGATGCAATGACAATTCGCATAAAGATTATATTGCAAGA
1 CAATGCAATGATAGTTCGCATAAACATTATATTGCAAGA
43552036 CAGTTTATAT
Statistics
Matches: 155, Mismatches: 37, Indels: 6
0.78 0.19 0.03
Matches are distributed among these distances:
51 1 0.01
52 151 0.97
53 3 0.02
ACGTcount: A:0.39, C:0.17, G:0.13, T:0.30
Consensus pattern (52 bp):
CAATGCAATGATAGTTCGCATAAACATTATATTGCAAGAAAATTCATGCATT
Found at i:43553473 original size:26 final size:26
Alignment explanation
Indices: 43553444--43553500 Score: 80
Period size: 26 Copynumber: 2.2 Consensus size: 26
43553434 CAATGGGGGA
*
43553444 AAAATTGTCAAAATTTTACTA-GAGGT
1 AAAATCGTCAAAATTTTACTATG-GGT
*
43553470 AAAATCGTCAAAATTTTTCTATGGGT
1 AAAATCGTCAAAATTTTACTATGGGT
43553496 AAAAT
1 AAAAT
43553501 AGGGACAAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
26 27 0.96
27 1 0.04
ACGTcount: A:0.42, C:0.09, G:0.14, T:0.35
Consensus pattern (26 bp):
AAAATCGTCAAAATTTTACTATGGGT
Found at i:43556895 original size:21 final size:22
Alignment explanation
Indices: 43556853--43556894 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
43556843 CTCAAATGCA
*
43556853 TAAACCATAATCAACCAAAAAT
1 TAAACCATAATCAAACAAAAAT
43556875 TAAACCAT-ATCATAACAAAA
1 TAAACCATAATCA-AACAAAA
43556895 TCAACAAGCA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 4 0.22
22 14 0.78
ACGTcount: A:0.60, C:0.21, G:0.00, T:0.19
Consensus pattern (22 bp):
TAAACCATAATCAAACAAAAAT
Found at i:43557655 original size:21 final size:19
Alignment explanation
Indices: 43557622--43557662 Score: 55
Period size: 21 Copynumber: 2.1 Consensus size: 19
43557612 ATTTATTAAA
*
43557622 GATTAATTAAGCTAGTTAT
1 GATTAATTAAGCTAATTAT
43557641 GATTAATTATAAGCTAATTAT
1 GATTAA-T-TAAGCTAATTAT
43557662 G
1 G
43557663 GTATATAAGC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 6 0.32
20 1 0.05
21 12 0.63
ACGTcount: A:0.39, C:0.05, G:0.15, T:0.41
Consensus pattern (19 bp):
GATTAATTAAGCTAATTAT
Found at i:43578433 original size:37 final size:39
Alignment explanation
Indices: 43578379--43578451 Score: 89
Period size: 37 Copynumber: 1.9 Consensus size: 39
43578369 GGATTAGTTT
*
43578379 TAAATAAAACAAAATCAT-TTTAT-TATAAA-AAAAGGA
1 TAAATAAAACAAAATCATATATATGTATAAAGAAAAGGA
* *
43578415 TAAATTAAAATAATATCATATATATGTATAAAGAAAA
1 TAAA-TAAAACAAAATCATATATATGTATAAAGAAAA
43578452 ATAACAATTG
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
36 4 0.13
37 12 0.40
38 4 0.13
39 6 0.20
40 4 0.13
ACGTcount: A:0.60, C:0.04, G:0.05, T:0.30
Consensus pattern (39 bp):
TAAATAAAACAAAATCATATATATGTATAAAGAAAAGGA
Found at i:43584639 original size:20 final size:19
Alignment explanation
Indices: 43584607--43584647 Score: 55
Period size: 20 Copynumber: 2.1 Consensus size: 19
43584597 TAGAGTTTGT
43584607 AAAAATAGAGTGAAATAGG
1 AAAAATAGAGTGAAATAGG
* *
43584626 AAAAATTAGTGTGATATAGG
1 AAAAA-TAGAGTGAAATAGG
43584646 AA
1 AA
43584648 CTATAATTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 5 0.26
20 14 0.74
ACGTcount: A:0.54, C:0.00, G:0.24, T:0.22
Consensus pattern (19 bp):
AAAAATAGAGTGAAATAGG
Found at i:43597795 original size:29 final size:29
Alignment explanation
Indices: 43597674--43597914 Score: 173
Period size: 29 Copynumber: 8.3 Consensus size: 29
43597664 ATATAAGTGA
* * * *
43597674 GCCTTTGTGGTGATATCTATTATAAGGAA
1 GCCTTTGTGGCGATCTCTATTAAAAGGAT
* * * * * * *
43597703 GCCTCTATGGTGATCTTTGTTATAAGGAA
1 GCCTTTGTGGCGATCTCTATTAAAAGGAT
* * * * *
43597732 GCCTTAGCGGCGATCTCTATTATAAGAAA
1 GCCTTTGTGGCGATCTCTATTAAAAGGAT
*
43597761 GCCTTTATGGCGATCTCTATTAAAAGGAT
1 GCCTTTGTGGCGATCTCTATTAAAAGGAT
* * *
43597790 GCCTTTGTGGCTATCTC-AGTTAAATGAAT
1 GCCTTTGTGGCGATCTCTA-TTAAAAGGAT
* * **
43597819 GCCTTTGTGGCTATCTCTGTTAAAATAAT
1 GCCTTTGTGGCGATCTCTATTAAAAGGAT
* * **
43597848 GCCTTTGTGGCTATCTCTGTTAAAAATAT
1 GCCTTTGTGGCGATCTCTATTAAAAGGAT
* *
43597877 GCCTTTGTGGCCATCTCTATT-CAAGGAAT
1 GCCTTTGTGGCGATCTCTATTAAAAGG-AT
43597906 GCC-TTGTGG
1 GCCTTTGTGG
43597915 AAAACTCTGT
Statistics
Matches: 176, Mismatches: 33, Indels: 7
0.81 0.15 0.03
Matches are distributed among these distances:
28 9 0.05
29 167 0.95
ACGTcount: A:0.24, C:0.17, G:0.22, T:0.37
Consensus pattern (29 bp):
GCCTTTGTGGCGATCTCTATTAAAAGGAT
Found at i:43597835 original size:87 final size:86
Alignment explanation
Indices: 43597726--43597914 Score: 211
Period size: 87 Copynumber: 2.2 Consensus size: 86
43597716 TCTTTGTTAT
* * * *
43597726 AAGGAA-GCCTTAGCGGCGATCTCTATTATAAGAAAGCCTTTATGGCGATCTCTATTAAAAGGAT
1 AAGGAATGCCTT-GTGGCTATCTCTATTAAAAGAAAGCCTTTATGGCGATCTCTATTAAAAAGAT
*
43597790 GCCTTTGTGGCTATCTC-AGTTA
65 GCCTTTGTGGCCATCTCTA-TTA
* * * * * * * *
43597812 AATGAATGCCTTTGTGGCTATCTCTGTTAAAATAATGCCTTTGTGGCTATCTCTGTTAAAAATAT
1 AAGGAATGCC-TTGTGGCTATCTCTATTAAAAGAAAGCCTTTATGGCGATCTCTATTAAAAAGAT
*
43597877 GCCTTTGTGGCCATCTCTATTC
65 GCCTTTGTGGCCATCTCTATTA
43597899 AAGGAATGCCTTGTGG
1 AAGGAATGCCTTGTGG
43597915 AAAACTCTGT
Statistics
Matches: 85, Mismatches: 15, Indels: 6
0.80 0.14 0.06
Matches are distributed among these distances:
86 11 0.13
87 71 0.84
88 3 0.04
ACGTcount: A:0.25, C:0.19, G:0.21, T:0.35
Consensus pattern (86 bp):
AAGGAATGCCTTGTGGCTATCTCTATTAAAAGAAAGCCTTTATGGCGATCTCTATTAAAAAGATG
CCTTTGTGGCCATCTCTATTA
Found at i:43599650 original size:19 final size:19
Alignment explanation
Indices: 43599626--43599672 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 19
43599616 AATTATTCAA
*
43599626 ATTTTTTATTTAT-TTAATT
1 ATTTTTT-TCTATCTTAATT
43599645 ATTTTTTTCTATCTTAATT
1 ATTTTTTTCTATCTTAATT
43599664 ATTTATTTT
1 ATTT-TTTT
43599673 AATTGATTCT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
18 4 0.16
19 17 0.68
20 4 0.16
ACGTcount: A:0.23, C:0.04, G:0.00, T:0.72
Consensus pattern (19 bp):
ATTTTTTTCTATCTTAATT
Found at i:43607433 original size:6 final size:7
Alignment explanation
Indices: 43607415--43607441 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
43607405 ACATTTTCAC
43607415 ATTTTTT
1 ATTTTTT
43607422 ATTTTTT
1 ATTTTTT
43607429 ATTTTTT
1 ATTTTTT
43607436 ATTTTT
1 ATTTTT
43607442 CAACCTATTG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (7 bp):
ATTTTTT
Found at i:43615496 original size:3 final size:3
Alignment explanation
Indices: 43615484--43615525 Score: 77
Period size: 3 Copynumber: 14.3 Consensus size: 3
43615474 TTGTGCAGCC
43615484 TCT T-T TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT T
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT T
43615526 TTTTTTGTTC
Statistics
Matches: 38, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 2 0.05
3 36 0.95
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (3 bp):
TCT
Found at i:43617897 original size:17 final size:18
Alignment explanation
Indices: 43617856--43617899 Score: 56
Period size: 17 Copynumber: 2.5 Consensus size: 18
43617846 TATAAAATTG
43617856 AATATTTTGTAATTATATT
1 AATATTTT-TAATTATATT
*
43617875 -ACATTTTTAATT-TATT
1 AATATTTTTAATTATATT
43617891 AATATTTTT
1 AATATTTTT
43617900 TGAAAAAATC
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
16 4 0.18
17 12 0.55
18 6 0.27
ACGTcount: A:0.34, C:0.02, G:0.02, T:0.61
Consensus pattern (18 bp):
AATATTTTTAATTATATT
Found at i:43617898 original size:16 final size:17
Alignment explanation
Indices: 43617859--43617891 Score: 50
Period size: 16 Copynumber: 1.9 Consensus size: 17
43617849 AAAATTGAAT
43617859 ATTTTGTAATTATATTAC
1 ATTTT-TAATTATATTAC
43617877 ATTTTTAATT-TATTA
1 ATTTTTAATTATATTA
43617892 ATATTTTTTG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 5 0.33
17 5 0.33
18 5 0.33
ACGTcount: A:0.33, C:0.03, G:0.03, T:0.61
Consensus pattern (17 bp):
ATTTTTAATTATATTAC
Found at i:43628781 original size:37 final size:38
Alignment explanation
Indices: 43628715--43628800 Score: 111
Period size: 37 Copynumber: 2.2 Consensus size: 38
43628705 TTAAAAAAAT
*
43628715 CCTTCAATCTTTATCCAACCACGTTTTTTAAATCTTCAAC
1 CCTTCAATCTTTATCCAACCAC--ATTTTAAATCTTCAAC
* *
43628755 CCTTCAATCTTTATCCAACTA-ATTTTAAATCTTCAAT
1 CCTTCAATCTTTATCCAACCACATTTTAAATCTTCAAC
*
43628792 CTTTCAATC
1 CCTTCAATC
43628801 GAGCCCTCCT
Statistics
Matches: 42, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
37 22 0.52
40 20 0.48
ACGTcount: A:0.29, C:0.28, G:0.01, T:0.42
Consensus pattern (38 bp):
CCTTCAATCTTTATCCAACCACATTTTAAATCTTCAAC
Found at i:43630562 original size:28 final size:28
Alignment explanation
Indices: 43630530--43630589 Score: 93
Period size: 28 Copynumber: 2.1 Consensus size: 28
43630520 AATCTCGTAC
43630530 TTCACCACTTCGCAGTGTCATTTCGCAA
1 TTCACCACTTCGCAGTGTCATTTCGCAA
* * *
43630558 TTCACCACTTTGCGGTGTCATTTCGCAG
1 TTCACCACTTCGCAGTGTCATTTCGCAA
43630586 TTCA
1 TTCA
43630590 TCTTGCAACT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.18, C:0.30, G:0.17, T:0.35
Consensus pattern (28 bp):
TTCACCACTTCGCAGTGTCATTTCGCAA
Found at i:43633918 original size:4 final size:4
Alignment explanation
Indices: 43633909--43633934 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
43633899 AGATGTACTA
43633909 ATAC ATAC ATAC ATAC ATAC ATAC AT
1 ATAC ATAC ATAC ATAC ATAC ATAC AT
43633935 GTATGTATGA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.50, C:0.23, G:0.00, T:0.27
Consensus pattern (4 bp):
ATAC
Found at i:43640345 original size:25 final size:24
Alignment explanation
Indices: 43640310--43640403 Score: 73
Period size: 25 Copynumber: 3.8 Consensus size: 24
43640300 CTGATTGCAG
43640310 CTCGTGAGAGCTTACCGATTCTCAA
1 CTCGT-AGAGCTTACCGATTCTCAA
* * * *
43640335 CTCGTATGAGCTCATCGATT-ACAG
1 CTCGTA-GAGCTTACCGATTCTCAA
* * *
43640359 CTTGTGAGAGCTTATCGATTCTCAT
1 CTCGT-AGAGCTTACCGATTCTCAA
*
43640384 CTCGCAAGAGCTTACCGATT
1 CTCG-TAGAGCTTACCGATT
43640404 TATAGCTAGC
Statistics
Matches: 54, Mismatches: 11, Indels: 8
0.74 0.15 0.11
Matches are distributed among these distances:
24 19 0.35
25 35 0.65
ACGTcount: A:0.23, C:0.26, G:0.20, T:0.31
Consensus pattern (24 bp):
CTCGTAGAGCTTACCGATTCTCAA
Found at i:43640395 original size:49 final size:49
Alignment explanation
Indices: 43640302--43640429 Score: 139
Period size: 49 Copynumber: 2.6 Consensus size: 49
43640292 AGGGATTACT
* * *
43640302 GATTGCAGCTCGTGAGAGCTTACCGATTCTCAACTCGTATGAGCTCATC
1 GATTACAGCTCGTGAGAGCTTACCGATTCTCAACTCGCAAGAGCTCATC
* * * * *
43640351 GATTACAGCTTGTGAGAGCTTATCGATTCTCATCTCGCAAGAGCTTACC
1 GATTACAGCTCGTGAGAGCTTACCGATTCTCAACTCGCAAGAGCTCATC
* * * *
43640400 GATTTATAGCTAGCGAGAGCATACCGATTC
1 GA-TTACAGCTCGTGAGAGCTTACCGATTC
43640430 ATAGCTCGTA
Statistics
Matches: 65, Mismatches: 13, Indels: 1
0.82 0.16 0.01
Matches are distributed among these distances:
49 43 0.66
50 22 0.34
ACGTcount: A:0.25, C:0.24, G:0.22, T:0.29
Consensus pattern (49 bp):
GATTACAGCTCGTGAGAGCTTACCGATTCTCAACTCGCAAGAGCTCATC
Found at i:43640444 original size:25 final size:24
Alignment explanation
Indices: 43640390--43640448 Score: 66
Period size: 25 Copynumber: 2.4 Consensus size: 24
43640380 TCATCTCGCA
* *
43640390 AGAGCTTACCGATTTATAGCTAGCG
1 AGAGCATACCGATTCATAGCTA-CG
43640415 AGAGCATACCGATTCATAGCT-CG
1 AGAGCATACCGATTCATAGCTACG
43640438 TATGAGCATAC
1 -A-GAGCATAC
43640449 ATGTACATGA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
23 2 0.07
24 1 0.03
25 27 0.90
ACGTcount: A:0.31, C:0.22, G:0.22, T:0.25
Consensus pattern (24 bp):
AGAGCATACCGATTCATAGCTACG
Found at i:43662265 original size:16 final size:16
Alignment explanation
Indices: 43662244--43662289 Score: 92
Period size: 16 Copynumber: 2.9 Consensus size: 16
43662234 ATGCCAAATA
43662244 AACTACAGAAAACATT
1 AACTACAGAAAACATT
43662260 AACTACAGAAAACATT
1 AACTACAGAAAACATT
43662276 AACTACAGAAAACA
1 AACTACAGAAAACA
43662290 AAATAAAATC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 30 1.00
ACGTcount: A:0.59, C:0.20, G:0.07, T:0.15
Consensus pattern (16 bp):
AACTACAGAAAACATT
Found at i:43662708 original size:20 final size:20
Alignment explanation
Indices: 43662660--43662722 Score: 81
Period size: 20 Copynumber: 3.0 Consensus size: 20
43662650 TTGAAATGCT
*
43662660 AACAGAGGCACCATAGTGCAA
1 AACAGAGGCACCAAAGTGC-A
*
43662681 ATACAGAGGCATCAAAGTGCA
1 A-ACAGAGGCACCAAAGTGCA
*
43662702 AACAGAGGCACCGAAGTGCA
1 AACAGAGGCACCAAAGTGCA
43662722 A
1 A
43662723 TCCCTTACAA
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
20 18 0.49
21 3 0.08
22 16 0.43
ACGTcount: A:0.43, C:0.22, G:0.25, T:0.10
Consensus pattern (20 bp):
AACAGAGGCACCAAAGTGCA
Found at i:43665500 original size:3 final size:3
Alignment explanation
Indices: 43665492--43665539 Score: 51
Period size: 3 Copynumber: 15.7 Consensus size: 3
43665482 ATAACCAAAT
** * *
43665492 ATA ATA ATA GCA ATA ATA ATA AGA GTA ATA ATA ATA ATTA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A-TA ATA ATA
43665538 AT
1 AT
43665540 TAATTAATTA
Statistics
Matches: 36, Mismatches: 8, Indels: 2
0.78 0.17 0.04
Matches are distributed among these distances:
3 33 0.92
4 3 0.08
ACGTcount: A:0.60, C:0.02, G:0.06, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:43665510 original size:15 final size:15
Alignment explanation
Indices: 43665492--43665529 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
43665482 ATAACCAAAT
43665492 ATAATAATAGCAATA
1 ATAATAATAGCAATA
* *
43665507 ATAATAAGAGTAATA
1 ATAATAATAGCAATA
43665522 ATAATAAT
1 ATAATAAT
43665530 TAATAATAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.61, C:0.03, G:0.08, T:0.29
Consensus pattern (15 bp):
ATAATAATAGCAATA
Found at i:43667116 original size:51 final size:49
Alignment explanation
Indices: 43667047--43667932 Score: 825
Period size: 51 Copynumber: 18.2 Consensus size: 49
43667037 CTTCAGGGAG
*
43667047 ATAAGATTCGCTGCCTTCAGCTCTAATCTGTTTCACTGCAACGCCAAGGAA
1 ATAAGATTCGCTGCCTTCAGCTTTAATC--TTTCACTGCAACGCCAAGGAA
** * * * *
43667098 ATAAGATTAACTGTCTTCAGCTTTAATC--T-ATTGCAACGCTAGGGAA
1 ATAAGATTCGCTGCCTTCAGCTTTAATCTTTCACTGCAACGCCAAGGAA
*
43667144 ACAAGATTCGCTGCCTTCAGCTTTAATCTGTTCCACTGCAACGCCAAGGAA
1 ATAAGATTCGCTGCCTTCAGCTTTAATCT-TT-CACTGCAACGCCAAGGAA
** * * *
43667195 ATAAGATTCTTTACCTTCAGCTTTAATC--T-ATTGCAACGCCAGGGAA
1 ATAAGATTCGCTGCCTTCAGCTTTAATCTTTCACTGCAACGCCAAGGAA
* * * **
43667241 ATAAGATTTGCTGCCTTCATCTTTAATCTGTTCCACTACAACATCAAGGAA
1 ATAAGATTCGCTGCCTTCAGCTTTAATCT-TT-CACTGCAACGCCAAGGAA
* * *
43667292 ATAAGATTCGCTGCCTTCACCTTTAATCTGTTCCACTACAATGCCAAGGAA
1 ATAAGATTCGCTGCCTTCAGCTTTAATCT-TT-CACTGCAACGCCAAGGAA
* * *
43667343 ATAAGATTCGTTGCCTTCAACTTTAATC--T-ACTGCAACGCCAGGGAA
1 ATAAGATTCGCTGCCTTCAGCTTTAATCTTTCACTGCAACGCCAAGGAA
* * * **
43667389 ATAAGATTCGTTTCCTTCAGCTTTAATCTGTTCCATTGCAACGTTAAGGAA
1 ATAAGATTCGCTGCCTTCAGCTTTAATCT-TT-CACTGCAACGCCAAGGAA
* * *
43667440 ATAAGATTCGCTGCCTTTAGCTTTAATC--T-ATTGCAAC-CTCAGGGAA
1 ATAAGATTCGCTGCCTTCAGCTTTAATCTTTCACTGCAACGC-CAAGGAA
* * * * *
43667486 ACAAGGTTCACTGCCTTCAGCTTTAATCTATTCCACTTCAACGTCAAGGAA
1 ATAAGATTCGCTGCCTTCAGCTTTAATCT-TT-CACTGCAACGCCAAGGAA
*
43667537 ATAAGATTCGCTGCCTTCAGCTTTAATCTATTCTACTGCAACGTCAAGGAA
1 ATAAGATTCGCTGCCTTCAGCTTTAATCT-TTC-ACTGCAACGCCAAGGAA
* * * * ** *
43667588 ATAAGATTCACTGCTTTCAACTTTAATC--T-ATTGCAATACCATGGAA
1 ATAAGATTCGCTGCCTTCAGCTTTAATCTTTCACTGCAACGCCAAGGAA
* * * *
43667634 ACAAGATTCGCTGCCTTCAGCTTTAATTTGTTCCACT-AAATGCCAAGGAA
1 ATAAGATTCGCTGCCTTCAGCTTTAATCT-TT-CACTGCAACGCCAAGGAA
* * * * *
43667684 ATAAGATTTGTTGCCTTCAGCTTTAAAC--T-ATTGCAACGCCAGGGAA
1 ATAAGATTCGCTGCCTTCAGCTTTAATCTTTCACTGCAACGCCAAGGAA
* * * *
43667730 ACAAGATTCGCTGCATTCAGCTTTAATCTGTTCCACTGAAACGTCAAGGAA
1 ATAAGATTCGCTGCCTTCAGCTTTAATCT-TT-CACTGCAACGCCAAGGAA
* *
43667781 ATAAGATTCGCTGCCTTCAGCTTTAATC--T-ATTGCAACGCCAGGGAA
1 ATAAGATTCGCTGCCTTCAGCTTTAATCTTTCACTGCAACGCCAAGGAA
* * *
43667827 ACAAGATTCGCTACCTTCAGCTTTAATCTGTTCAACTGCAACGTCAAGGAA
1 ATAAGATTCGCTGCCTTCAGCTTTAATCT-TTC-ACTGCAACGCCAAGGAA
*
43667878 ATAAGATTCGCTGCCTTCAGCTTTAATC--T-ACTGCAACGCCAGGGAA
1 ATAAGATTCGCTGCCTTCAGCTTTAATCTTTCACTGCAACGCCAAGGAA
43667924 ATAAGATTC
1 ATAAGATTC
43667933 TCTATCTTCA
Statistics
Matches: 682, Mismatches: 114, Indels: 83
0.78 0.13 0.09
Matches are distributed among these distances:
45 2 0.00
46 284 0.42
47 2 0.00
48 6 0.01
49 7 0.01
50 34 0.05
51 347 0.51
ACGTcount: A:0.30, C:0.24, G:0.16, T:0.30
Consensus pattern (49 bp):
ATAAGATTCGCTGCCTTCAGCTTTAATCTTTCACTGCAACGCCAAGGAA
Found at i:43667214 original size:148 final size:139
Alignment explanation
Indices: 43667047--43667932 Score: 751
Period size: 148 Copynumber: 6.1 Consensus size: 139
43667037 CTTCAGGGAG
* ** *
43667047 ATAAGATTCGCTGCCTTCAGCTCTAATCTGTTTCACTGCAACGCCAAGGAAATAAGATTAACTGT
1 ATAAGATTCGCTGCCTTCAGCTTTAATC----T-ACTGCAACGCCAAGGAAATAAGATTCGCTGC
* *
43667112 CTTCAGCTTTAATCTATTGCAACGCT-AGGGAAACAAGATTCGCTGCCTTCAGCTTTAATCTGTT
61 CTTCAGCTTTAATCTATTGCAACGCTCAAGGAAATAAGATTCGCTGCCTTCAGCTTTAATC---T
43667176 CCACTGCAACGCCAAGGAA
123 --ACTGCAACGCCAAGGAA
** * * * *
43667195 ATAAGATTCTTTACCTTCAGCTTTAATCTATTGCAACGCCAGGGAAATAAGATTTGCTGCCTTCA
1 ATAAGATTCGCTGCCTTCAGCTTTAATCTACTGCAACGCCAAGGAAATAAGATTCGCTGCCTTCA
* * * * *
43667260 TCTTTAATCTGTTCCACTACAACATCAAGGAAATAAGATTCGCTGCCTTCACCTTTAATCTGTTC
66 GCTTTAATCTATTGCA--AC-GC-TCAAGGAAATAAGATTCGCTGCCTTCAGCTTTAATC---T-
* *
43667325 CACTACAATGCCAAGGAA
123 -ACTGCAACGCCAAGGAA
* * * * *
43667343 ATAAGATTCGTTGCCTTCAACTTTAATCTACTGCAACGCCAGGGAAATAAGATTCGTTTCCTTCA
1 ATAAGATTCGCTGCCTTCAGCTTTAATCTACTGCAACGCCAAGGAAATAAGATTCGCTGCCTTCA
* * *
43667408 GCTTTAATCTGTTCCATTGCAACG-TTAAGGAAATAAGATTCGCTGCCTTTAGCTTTAATCTATT
66 GCTTTAATC---T--ATTGCAACGCTCAAGGAAATAAGATTCGCTGCCTTCAGCTTTAATCTACT
*
43667472 GCAAC-CTCAGGGAA
126 GCAACGC-CAAGGAA
* * * * *
43667486 ACAAGGTTCACTGCCTTCAGCTTTAATCTATTCCACTTCAACGTCAAGGAAATAAGATTCGCTGC
1 ATAAGATTCGCTGCCTTCAGCTTTAATC---T--ACTGCAACGCCAAGGAAATAAGATTCGCTGC
* * *
43667551 CTTCAGCTTTAATCTATTCTACTGCAACG-TCAAGGAAATAAGATTCACTGCTTTCAACTTTAAT
61 CTTCAGCTTTAATCTA---T--TGCAACGCTCAAGGAAATAAGATTCGCTGCCTTCAGCTTTAAT
* ** *
43667615 CTATTGCAATACCATGGAA
121 CTACTGCAACGCCAAGGAA
* * * * * *
43667634 ACAAGATTCGCTGCCTTCAGCTTTAATTTGTTCCACT-AAATGCCAAGGAAATAAGATTTGTTGC
1 ATAAGATTCGCTGCCTTCAGCTTTAA-----TCTACTGCAACGCCAAGGAAATAAGATTCGCTGC
* * * *
43667698 CTTCAGCTTTAAACTATTGCAACGC-CAGGGAAACAAGATTCGCTGCATTCAGCTTTAATCTGTT
61 CTTCAGCTTTAATCTATTGCAACGCTCAAGGAAATAAGATTCGCTGCCTTCAGCTTTAATC---T
* *
43667762 CCACTGAAACGTCAAGGAA
123 --ACTGCAACGCCAAGGAA
* * * *
43667781 ATAAGATTCGCTGCCTTCAGCTTTAATCTATTGCAACGCCAGGGAAACAAGATTCGCTACCTTCA
1 ATAAGATTCGCTGCCTTCAGCTTTAATCTACTGCAACGCCAAGGAAATAAGATTCGCTGCCTTCA
*
43667846 GCTTTAATCTGTT-CAACTGCAACGTCAAGGAAATAAGATTCGCTGCCTTCAGCTTTAATCTACT
66 GCTTTAATCTATTGCAAC-G---C-TCAAGGAAATAAGATTCGCTGCCTTCAGCTTTAATCTACT
*
43667910 GCAACGCCAGGGAA
126 GCAACGCCAAGGAA
43667924 ATAAGATTC
1 ATAAGATTC
43667933 TCTATCTTCA
Statistics
Matches: 607, Mismatches: 91, Indels: 85
0.78 0.12 0.11
Matches are distributed among these distances:
142 46 0.08
143 139 0.23
144 2 0.00
145 6 0.01
146 4 0.01
147 74 0.12
148 326 0.54
149 1 0.00
151 3 0.00
153 6 0.01
ACGTcount: A:0.30, C:0.24, G:0.16, T:0.30
Consensus pattern (139 bp):
ATAAGATTCGCTGCCTTCAGCTTTAATCTACTGCAACGCCAAGGAAATAAGATTCGCTGCCTTCA
GCTTTAATCTATTGCAACGCTCAAGGAAATAAGATTCGCTGCCTTCAGCTTTAATCTACTGCAAC
GCCAAGGAA
Found at i:43667942 original size:97 final size:97
Alignment explanation
Indices: 43667040--43667932 Score: 1007
Period size: 97 Copynumber: 9.2 Consensus size: 97
43667030 ACTGGAACTT
* * * *
43667040 CAGGGAGATAAGATTCGCTGCCTTCAGCTCTAATCTGTTTCACTGCAACGCCAAGGAAATAAGAT
1 CAGGGAAATAAGATTCGCTGCCTTCAGCTTTAATCTGTTCCACTGCAACGTCAAGGAAATAAGAT
** *
43667105 TAACTGTCTTCAGCTTTAATCTATTGCAACGC
66 TCGCTGCCTTCAGCTTTAATCTATTGCAACGC
* * *
43667137 TAGGGAAACAAGATTCGCTGCCTTCAGCTTTAATCTGTTCCACTGCAACGCCAAGGAAATAAGAT
1 CAGGGAAATAAGATTCGCTGCCTTCAGCTTTAATCTGTTCCACTGCAACGTCAAGGAAATAAGAT
** *
43667202 TCTTTACCTTCAGCTTTAATCTATTGCAACGC
66 TCGCTGCCTTCAGCTTTAATCTATTGCAACGC
* * * *
43667234 CAGGGAAATAAGATTTGCTGCCTTCATCTTTAATCTGTTCCACTACAACATCAAGGAAATAAGAT
1 CAGGGAAATAAGATTCGCTGCCTTCAGCTTTAATCTGTTCCACTGCAACGTCAAGGAAATAAGAT
* * *
43667299 TCGCTGCCTTCACCTTTAATCTGTTCCACTACAATGC
66 TCGCTGCCTTCAGCTTTAATCTATTGCA--AC---GC
* * * * *
43667336 CAAGGAAATAAGATTCGTTGCCTTCAACTTTAATC---T--ACTGCAACGCCAGGGAAATAAGAT
1 CAGGGAAATAAGATTCGCTGCCTTCAGCTTTAATCTGTTCCACTGCAACGTCAAGGAAATAAGAT
* * *
43667396 TCGTTTCCTTCAGCTTTAATCTGTTCCATTGCAACGT
66 TCGCTGCCTTCAGCTTTAATC---T--ATTGCAACGC
* * * * * * * *
43667433 TAAGGAAATAAGATTCGCTGCCTTTAGCTTTAATC---T--ATTGCAACCTCAGGGAAACAAGGT
1 CAGGGAAATAAGATTCGCTGCCTTCAGCTTTAATCTGTTCCACTGCAACGTCAAGGAAATAAGAT
* * *
43667493 TCACTGCCTTCAGCTTTAATCTATTCCACTTCAACGT
66 TCGCTGCCTTCAGCTTTAATCTA-T----TGCAACGC
* * *
43667530 CAAGGAAATAAGATTCGCTGCCTTCAGCTTTAATCTATTCTACTGCAACGTCAAGGAAATAAGAT
1 CAGGGAAATAAGATTCGCTGCCTTCAGCTTTAATCTGTTCCACTGCAACGTCAAGGAAATAAGAT
* * * **
43667595 TCACTGCTTTCAACTTTAATCTATTGCAATAC
66 TCGCTGCCTTCAGCTTTAATCTATTGCAACGC
* * * * * *
43667627 CATGGAAACAAGATTCGCTGCCTTCAGCTTTAATTTGTTCCACT-AAATGCCAAGGAAATAAGAT
1 CAGGGAAATAAGATTCGCTGCCTTCAGCTTTAATCTGTTCCACTGCAACGTCAAGGAAATAAGAT
* * *
43667691 TTGTTGCCTTCAGCTTTAAACTATTGCAACGC
66 TCGCTGCCTTCAGCTTTAATCTATTGCAACGC
* * *
43667723 CAGGGAAACAAGATTCGCTGCATTCAGCTTTAATCTGTTCCACTGAAACGTCAAGGAAATAAGAT
1 CAGGGAAATAAGATTCGCTGCCTTCAGCTTTAATCTGTTCCACTGCAACGTCAAGGAAATAAGAT
43667788 TCGCTGCCTTCAGCTTTAATCTATTGCAACGC
66 TCGCTGCCTTCAGCTTTAATCTATTGCAACGC
* * *
43667820 CAGGGAAACAAGATTCGCTACCTTCAGCTTTAATCTGTTCAACTGCAACGTCAAGGAAATAAGAT
1 CAGGGAAATAAGATTCGCTGCCTTCAGCTTTAATCTGTTCCACTGCAACGTCAAGGAAATAAGAT
*
43667885 TCGCTGCCTTCAGCTTTAATCTACTGCAACGC
66 TCGCTGCCTTCAGCTTTAATCTATTGCAACGC
43667917 CAGGGAAATAAGATTC
1 CAGGGAAATAAGATTC
43667933 TCTATCTTCA
Statistics
Matches: 682, Mismatches: 93, Indels: 42
0.83 0.11 0.05
Matches are distributed among these distances:
92 1 0.00
93 1 0.00
94 1 0.00
96 82 0.12
97 512 0.75
99 3 0.00
100 4 0.01
101 1 0.00
102 77 0.11
ACGTcount: A:0.30, C:0.24, G:0.16, T:0.30
Consensus pattern (97 bp):
CAGGGAAATAAGATTCGCTGCCTTCAGCTTTAATCTGTTCCACTGCAACGTCAAGGAAATAAGAT
TCGCTGCCTTCAGCTTTAATCTATTGCAACGC
Found at i:43668001 original size:44 final size:44
Alignment explanation
Indices: 43667938--43668562 Score: 339
Period size: 44 Copynumber: 13.9 Consensus size: 44
43667928 GATTCTCTAT
* *
43667938 CTTCAA-TCTACTCCACTGCAACTTCAGAGAGATAAGACTTGTAG
1 CTTCAATTCTGCTCCACTGCAACTTCAGGGAGATAAGA-TTGTAG
* * * *
43667982 CTTCAATTC-GCTCTACTGCAACTTCAGGGAGATAGGATTATTGG
1 CTTCAATTCTGCTCCACTGCAACTTCAGGGAGATAAGATT-GTAG
* * * * * *
43668026 CTTTAAATCTACTCCACTGTAACTTCAGGGAGATTCAGGGAGATAAGATTCTCCAT
1 CTTCAATTCTGCTCCACTG------CA---A-CTTCAGGGAGATAAGATTGT--AG
* * *
43668082 CTTC-AGTCTACTCTACTGCAACTTCAGGGAGATAAGACTTGTAG
1 CTTCAATTCTGCTCCACTGCAACTTCAGGGAGATAAGA-TTGTAG
* * * * *
43668126 CTTCAA-TCCGCTCCACTACAACTTCAAGGAGATAGGATTATTAG
1 CTTCAATTCTGCTCCACTGCAACTTCAGGGAGATAAGATT-GTAG
* * * *
43668170 CTTTAA-TATGCTCCACTGCAACTTCAGGGAGATAAGATTCGCCAT
1 CTTCAATTCTGCTCCACTGCAACTTCAGGGAGATAAGATT-G-TAG
* * * * *
43668215 CTTC-AGTCTGCCCCACTGTAACTTCAGGGGGATAAGACTTGTAA
1 CTTCAATTCTGCTCCACTGCAACTTCAGGGAGATAAGA-TTGTAG
* *
43668259 CTTCAACT-TGCTCCACTGCAACTTCAGGGAGATAAGGTCTGCTAAG
1 CTTCAATTCTGCTCCACTGCAACTTCAGGGAGATAAGAT-TG-T-AG
* * * *
43668305 -TTCAA-TCTGCTCTACTACAACCTCAGGGAGATAAGACTTGTGAC
1 CTTCAATTCTGCTCCACTGCAACTTCAGGGAGATAAGA-TTGT-AG
* *
43668349 CTT-AA-TCTGC-CCACTACAACTTCA-GGAGGATAAGATTGATAT
1 CTTCAATTCTGCTCCACTGCAACTTCAGGGA-GATAAGATTG-TAG
* * * * * *
43668391 CTTCAA-CCTACTCCACTACAACTTCAGGGAAATAAGGTCTGCTAA
1 CTTCAATTCTGCTCCACTGCAACTTCAGGGAGATAAGAT-TG-TAG
* * * * * * *
43668436 CTTC-AGTCTACTCTACTACAACTTTAGGGAGATAAAACTTGTAA
1 CTTCAATTCTGCTCCACTGCAACTTCAGGGAGATAAGA-TTGTAG
* * * * * *
43668480 CTTTAATAC-GTTCCACTGCAACTTCAGGGAGATAGGATTATTGG
1 CTTCAATTCTGCTCCACTGCAACTTCAGGGAGATAAGATT-GTAG
* *
43668524 CTTTAA-TCTGCTCCACTGCAACTTAAGGGAGATAAGATT
1 CTTCAATTCTGCTCCACTGCAACTTCAGGGAGATAAGATT
43668563 CGCCATAATA
Statistics
Matches: 453, Mismatches: 89, Indels: 78
0.73 0.14 0.13
Matches are distributed among these distances:
42 10 0.02
43 33 0.07
44 230 0.51
45 134 0.30
46 9 0.02
49 2 0.00
51 2 0.00
54 2 0.00
55 28 0.06
56 3 0.01
ACGTcount: A:0.30, C:0.23, G:0.18, T:0.29
Consensus pattern (44 bp):
CTTCAATTCTGCTCCACTGCAACTTCAGGGAGATAAGATTGTAG
Found at i:43668239 original size:89 final size:88
Alignment explanation
Indices: 43668096--43668560 Score: 240
Period size: 89 Copynumber: 5.3 Consensus size: 88
43668086 AGTCTACTCT
* * *
43668096 ACTGCAACTTCAGGGAGATAAGACTTGTAGCTTCAATCCGCTCCACTACAACTTCAAGGAGATAG
1 ACTGCAACTTCAGGGAGATAAGACTTGCAGCTTCAATCCGCCCCACTACAACTTCAAGGAGATAA
* * *
43668161 GA-TTATTAGCTTTAA-TATGCTCC
66 GACTT-GTAACTTCAACT-TGCTCC
* * * ** * *
43668184 ACTGCAACTTCAGGGAGATAAGA-TTCGCCATCTTCAGTCTGCCCCACTGTAACTTCAGGGGGAT
1 ACTGCAACTTCAGGGAGATAAGACTT-G-CAGCTTCAATCCGCCCCACTACAACTTCAAGGAGAT
43668248 AAGACTTGTAACTTCAACTTGCTCC
64 AAGACTTGTAACTTCAACTTGCTCC
* * * * * *
43668273 ACTGCAACTTCAGGGAGATAAG-GTCTGCTAAG-TTCAATCTGCTCTACTACAACCTCAGGGAGA
1 ACTGCAACTTCAGGGAGATAAGACT-TGC--AGCTTCAATCCGCCCCACTACAACTTCAAGGAGA
*
43668336 TAAGACTTGTGACCTT-AA-TCTGC-CC
63 TAAGACTTGT-AACTTCAACT-TGCTCC
* * * * * * *
43668361 ACTACAACTTCA-GGAGGATAAGA-TTGATATCTTCAA-CCTACTCCACTACAACTTCAGGGAAA
1 ACTGCAACTTCAGGGA-GATAAGACTTG-CAGCTTCAATCC-GCCCCACTACAACTTCAAGGAGA
* * * *
43668423 TAAG-GTCTGCTAACTTC-AGTCTACTCT
63 TAAGACT-TG-TAACTTCAACT-TGCTCC
* * * * * * * ** * * *
43668450 ACTACAACTTTAGGGAGATAAAACTTGTAACTTTAATACGTTCCACTGCAACTTCAGGGAGATAG
1 ACTGCAACTTCAGGGAGATAAGACTTGCAGCTTCAATCCGCCCCACTACAACTTCAAGGAGATAA
* ** *
43668515 GA-TTATTGGCTTTAA-TCTGCTCC
66 GACTT-GTAACTTCAACT-TGCTCC
*
43668538 ACTGCAACTTAAGGGAGATAAGA
1 ACTGCAACTTCAGGGAGATAAGA
43668561 TTCGCCATAA
Statistics
Matches: 298, Mismatches: 53, Indels: 52
0.74 0.13 0.13
Matches are distributed among these distances:
86 3 0.01
87 42 0.14
88 82 0.28
89 155 0.52
90 16 0.05
ACGTcount: A:0.30, C:0.23, G:0.19, T:0.28
Consensus pattern (88 bp):
ACTGCAACTTCAGGGAGATAAGACTTGCAGCTTCAATCCGCCCCACTACAACTTCAAGGAGATAA
GACTTGTAACTTCAACTTGCTCC
Found at i:43668397 original size:132 final size:132
Alignment explanation
Indices: 43668234--43668559 Score: 376
Period size: 132 Copynumber: 2.5 Consensus size: 132
43668224 GCCCCACTGT
*
43668234 AACTTCAGGGGGATAAGACTTG-TAACTTCAACTTGCTCCACTGCAACTTCAGGGAGATAAGGTC
1 AACTTCA-GGGGATAAGA-TTGATATCTTCAACTTGCTCCACTGCAACTTCAGGGAGATAAGGTC
* * * *
43668298 TGCTAAGTTCAATCTGCTCTACTACAACCTCAGGGAGATAAGACTTGTGACCTTAAT-C-TGCCC
64 TGCTAACTTCAATCTACTCTACTACAACCTCAGGGAGATAAAACTTGTAACCTTAATACGT-CCC
43668361 ACTAC
128 ACTAC
* * * *
43668366 AACTTCAGGAGGATAAGATTGATATCTTCAACCTACTCCACTACAACTTCAGGGAAATAAGGTCT
1 AACTTCAGG-GGATAAGATTGATATCTTCAACTTGCTCCACTGCAACTTCAGGGAGATAAGGTCT
* * * * *
43668431 GCTAACTTCAGTCTACTCTACTACAACTTTAGGGAGATAAAACTTGTAACTTTAATACGTTCCAC
65 GCTAACTTCAATCTACTCTACTACAACCTCAGGGAGATAAAACTTGTAACCTTAATACGTCCCAC
*
43668496 TGC
130 TAC
* * *
43668499 AACTTCAGGGAGATAGGATT-AT-TGGCTTTAA-TCTGCTCCACTGCAACTTAAGGGAGATAAG
1 AACTTCAGGG-GATAAGATTGATAT--CTTCAACT-TGCTCCACTGCAACTTCAGGGAGATAAG
43668560 ATTCGCCATA
Statistics
Matches: 164, Mismatches: 22, Indels: 15
0.82 0.11 0.07
Matches are distributed among these distances:
131 6 0.04
132 104 0.63
133 53 0.32
134 1 0.01
ACGTcount: A:0.31, C:0.22, G:0.19, T:0.28
Consensus pattern (132 bp):
AACTTCAGGGGATAAGATTGATATCTTCAACTTGCTCCACTGCAACTTCAGGGAGATAAGGTCTG
CTAACTTCAATCTACTCTACTACAACCTCAGGGAGATAAAACTTGTAACCTTAATACGTCCCACT
AC
Found at i:43668443 original size:221 final size:222
Alignment explanation
Indices: 43668083--43668513 Score: 523
Period size: 221 Copynumber: 1.9 Consensus size: 222
43668073 ATTCTCCATC
* * * *
43668083 TTCAGTCTACTCTACTGCAACTTCAGGGAGATAAGACTTGTAGCTTCAATCCGCTCCACTACAAC
1 TTCAATCTACTCTACTACAACCTCAGGGAGATAAGACTTGTACCTTCAATCCGCTCCACTACAAC
* * * * * *
43668148 TTCAAGGAGATAGGATTATTAGCTTTAATATGCTCCACTGCAACTTCAGGGAGATAAGATTCGCC
66 TTCAAGGAGATAAGATTATTAGCTTCAACATACTCCACTACAACTTCAGGGAAATAAGATTCGCC
* * ** * * *
43668213 ATCTTCAGTCTGCCCCACTGTAACTTCAGGGGGATAAGACTTGTAACTTCAACT-TGCTCCACTG
131 AACTTCAGTCTACCCCACTACAACTTCAGGGAGATAAAACTTGTAACTTCAA-TACGCTCCACTG
43668277 CAACTTCAGGGAGATAAGGTCTGCTAAG
195 CAACTTCAGGGAGATAAGGTCTGCTAAG
* *
43668305 TTCAATCTGCTCTACTACAACCTCAGGGAGATAAGACTTGTGACCTT-AATCTGC-CCACTACAA
1 TTCAATCTACTCTACTACAACCTCAGGGAGATAAGACTTGT-ACCTTCAATCCGCTCCACTACAA
* * *
43668368 CTTC-AGGAGGATAAGATTGA-TATCTTCAACCTACTCCACTACAACTTCAGGGAAATAAG-GTC
65 CTTCAAGGA-GATAAGATT-ATTAGCTTCAACATACTCCACTACAACTTCAGGGAAATAAGATTC
* * * * * *
43668430 TGCTAACTTCAGTCTACTCTACTACAACTTTAGGGAGATAAAACTTGTAACTTTAATACGTTCCA
128 -GCCAACTTCAGTCTACCCCACTACAACTTCAGGGAGATAAAACTTGTAACTTCAATACGCTCCA
43668495 CTGCAACTTCAGGGAGATA
192 CTGCAACTTCAGGGAGATA
43668514 GGATTATTGG
Statistics
Matches: 176, Mismatches: 28, Indels: 11
0.82 0.13 0.05
Matches are distributed among these distances:
220 7 0.04
221 121 0.69
222 44 0.25
223 4 0.02
ACGTcount: A:0.30, C:0.24, G:0.18, T:0.28
Consensus pattern (222 bp):
TTCAATCTACTCTACTACAACCTCAGGGAGATAAGACTTGTACCTTCAATCCGCTCCACTACAAC
TTCAAGGAGATAAGATTATTAGCTTCAACATACTCCACTACAACTTCAGGGAAATAAGATTCGCC
AACTTCAGTCTACCCCACTACAACTTCAGGGAGATAAAACTTGTAACTTCAATACGCTCCACTGC
AACTTCAGGGAGATAAGGTCTGCTAAG
Found at i:43668926 original size:24 final size:24
Alignment explanation
Indices: 43668890--43668947 Score: 107
Period size: 24 Copynumber: 2.4 Consensus size: 24
43668880 CAGATTGCCC
*
43668890 CCACTGTAATCTTCAAGGTTCAAT
1 CCACTGTACTCTTCAAGGTTCAAT
43668914 CCACTGTACTCTTCAAGGTTCAAT
1 CCACTGTACTCTTCAAGGTTCAAT
43668938 CCACTGTACT
1 CCACTGTACT
43668948 TTTTGGACAT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 33 1.00
ACGTcount: A:0.26, C:0.29, G:0.12, T:0.33
Consensus pattern (24 bp):
CCACTGTACTCTTCAAGGTTCAAT
Found at i:43669919 original size:43 final size:44
Alignment explanation
Indices: 43669850--43669975 Score: 164
Period size: 43 Copynumber: 2.9 Consensus size: 44
43669840 TGGCCTCTCC
* **
43669850 TTTTTTTTATGACTCAAAGCGCCCTTTTTGGGTTTTCACATTA-
1 TTTTTTTTAAGACTCAAAGCGCCCTTTGCGGGTTTTCACATTAG
* * *
43669893 TTTTTTTTAAGACTCAAGGCGTCCTTTGCGGGTTTTCACCTTAG
1 TTTTTTTTAAGACTCAAAGCGCCCTTTGCGGGTTTTCACATTAG
* * *
43669937 TCTTTTTTAGGACTCAAAGCGCCCTTTGCAGGTTTTCAC
1 TTTTTTTTAAGACTCAAAGCGCCCTTTGCGGGTTTTCAC
43669976 CTTGGTCCCT
Statistics
Matches: 71, Mismatches: 11, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
43 37 0.52
44 34 0.48
ACGTcount: A:0.17, C:0.21, G:0.17, T:0.44
Consensus pattern (44 bp):
TTTTTTTTAAGACTCAAAGCGCCCTTTGCGGGTTTTCACATTAG
Found at i:43669943 original size:44 final size:43
Alignment explanation
Indices: 43669852--43669978 Score: 164
Period size: 44 Copynumber: 2.9 Consensus size: 43
43669842 GCCTCTCCTT
* ** * *
43669852 TTTTTTATGACTCAAAGCGCCCTTTTTGGGTTTTCACATTATT
1 TTTTTTAAGACTCAAAGCGCCCTTTGCGGGTTTTCACCTTATC
* *
43669895 TTTTTTAAGACTCAAGGCGTCCTTTGCGGGTTTTCACCTTAGTC
1 TTTTTTAAGACTCAAAGCGCCCTTTGCGGGTTTTCACCTTA-TC
* *
43669939 TTTTTTAGGACTCAAAGCGCCCTTTGCAGGTTTTCACCTT
1 TTTTTTAAGACTCAAAGCGCCCTTTGCGGGTTTTCACCTT
43669979 GGTCCCTTCT
Statistics
Matches: 72, Mismatches: 11, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
43 35 0.49
44 37 0.51
ACGTcount: A:0.17, C:0.22, G:0.17, T:0.43
Consensus pattern (43 bp):
TTTTTTAAGACTCAAAGCGCCCTTTGCGGGTTTTCACCTTATC
Found at i:43671933 original size:16 final size:16
Alignment explanation
Indices: 43671912--43671943 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
43671902 ATTTTGTTGC
*
43671912 TAATTTTACTTTTTCA
1 TAATTTCACTTTTTCA
43671928 TAATTTCACTTTTTCA
1 TAATTTCACTTTTTCA
43671944 CTTTCAATCA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.25, C:0.16, G:0.00, T:0.59
Consensus pattern (16 bp):
TAATTTCACTTTTTCA
Found at i:43672285 original size:50 final size:51
Alignment explanation
Indices: 43672161--43672297 Score: 161
Period size: 51 Copynumber: 2.7 Consensus size: 51
43672151 ATTAATGATA
* * * *
43672161 CTGGTTCACATAGTAGCCTGCAGATAGTATTACACATGTGAACATCACTAT
1 CTGGTACACATAGTAGCCTGCACATAGTACTACACATGCGAACATCACTAT
* * * * *
43672212 CCGATACACATAGTAGCCAGCACATAGTACTGCACATGCGACCTATCA-T-T
1 CTGGTACACATAGTAGCCTGCACATAGTACTACACATGCGAAC-ATCACTAT
*
43672262 CTGGTACACGTAGTAGCCTGCACATAGTACTACACA
1 CTGGTACACATAGTAGCCTGCACATAGTACTACACA
43672298 CGTGACCATC
Statistics
Matches: 71, Mismatches: 14, Indels: 3
0.81 0.16 0.03
Matches are distributed among these distances:
50 32 0.45
51 35 0.49
52 4 0.06
ACGTcount: A:0.31, C:0.26, G:0.18, T:0.25
Consensus pattern (51 bp):
CTGGTACACATAGTAGCCTGCACATAGTACTACACATGCGAACATCACTAT
Found at i:43677143 original size:19 final size:19
Alignment explanation
Indices: 43677119--43677193 Score: 80
Period size: 19 Copynumber: 3.8 Consensus size: 19
43677109 CATACACAAT
43677119 AAATAAATATATAAAATAG
1 AAATAAATATATAAAATAG
43677138 AAATAAATATATAAAAATTCAGG
1 AAATAAATATAT-AAAA-T-A-G
*
43677161 AAA-AAATATATAAAATAT
1 AAATAAATATATAAAATAG
* *
43677179 AAAAAAACATATAAA
1 AAATAAATATATAAA
43677194 TTATAAAACT
Statistics
Matches: 49, Mismatches: 2, Indels: 10
0.80 0.03 0.16
Matches are distributed among these distances:
18 3 0.06
19 23 0.47
20 5 0.10
21 5 0.10
22 9 0.18
23 4 0.08
ACGTcount: A:0.69, C:0.03, G:0.04, T:0.24
Consensus pattern (19 bp):
AAATAAATATATAAAATAG
Found at i:43677198 original size:19 final size:19
Alignment explanation
Indices: 43677161--43677201 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 19
43677151 AAAATTCAGG
*
43677161 AAAAAATATATAAAATATA
1 AAAAAACATATAAAATATA
*
43677180 AAAAAACATATAAATTATA
1 AAAAAACATATAAAATATA
43677199 AAA
1 AAA
43677202 CTAAAATTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.73, C:0.02, G:0.00, T:0.24
Consensus pattern (19 bp):
AAAAAACATATAAAATATA
Found at i:43677747 original size:25 final size:25
Alignment explanation
Indices: 43677701--43677751 Score: 77
Period size: 25 Copynumber: 2.0 Consensus size: 25
43677691 ATATTTAAAT
43677701 ATTTAATATTATATTTTCTATTTTA
1 ATTTAATATTATATTTTCTATTTTA
*
43677726 ATTTAATTTTGATATTTT-TATTTTA
1 ATTTAATATT-ATATTTTCTATTTTA
43677751 A
1 A
43677752 ATAAAACTAA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
25 17 0.71
26 7 0.29
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65
Consensus pattern (25 bp):
ATTTAATATTATATTTTCTATTTTA
Found at i:43679038 original size:30 final size:27
Alignment explanation
Indices: 43678992--43679046 Score: 74
Period size: 29 Copynumber: 1.9 Consensus size: 27
43678982 TATAGAGTTT
*
43678992 CCACAGAGGCTTTCCTTTGACAGAGATCA
1 CCACAAAGGCTTTCCTTT--CAGAGATCA
43679021 CCACAAAGGCGTTTCCTTTCAGAGAT
1 CCACAAAGGC-TTTCCTTTCAGAGAT
43679047 TTGCCATAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
28 7 0.29
29 9 0.38
30 8 0.33
ACGTcount: A:0.27, C:0.27, G:0.20, T:0.25
Consensus pattern (27 bp):
CCACAAAGGCTTTCCTTTCAGAGATCA
Found at i:43680695 original size:25 final size:25
Alignment explanation
Indices: 43680658--43680737 Score: 83
Period size: 25 Copynumber: 3.2 Consensus size: 25
43680648 TCCTGATATT
**
43680658 TGGCTCTCACGAGCTTCCCGTTATA
1 TGGCTCTTGCGAGCTTCCCGTTATA
*
43680683 TGGTTCTTGCGAGCTTCCCGATTA-A
1 TGGCTCTTGCGAGCTTCCCG-TTATA
***
43680708 TGGCTCTTTTAAGCTTCCCGTT-TA
1 TGGCTCTTGCGAGCTTCCCGTTATA
43680732 TGGCTC
1 TGGCTC
43680738 CTCGGAGCTT
Statistics
Matches: 46, Mismatches: 7, Indels: 5
0.79 0.12 0.09
Matches are distributed among these distances:
24 9 0.20
25 34 0.74
26 3 0.07
ACGTcount: A:0.14, C:0.28, G:0.21, T:0.38
Consensus pattern (25 bp):
TGGCTCTTGCGAGCTTCCCGTTATA
Found at i:43680746 original size:24 final size:24
Alignment explanation
Indices: 43680668--43680747 Score: 72
Period size: 25 Copynumber: 3.2 Consensus size: 24
43680658 TGGCTCTCAC
*
43680668 GAGCTTCCCGTTATATGG-TTCTTG
1 GAGCTTCCCGTT-TATGGCTCCTTG
* * *
43680692 CGAGCTTCCCGATTAATGGCTCTTTT
1 -GAGCTTCCCG-TTTATGGCTCCTTG
* *
43680718 AAGCTTCCCGTTTATGGCTCCTCG
1 GAGCTTCCCGTTTATGGCTCCTTG
43680742 GAGCTT
1 GAGCTT
43680748 TTCGATAATT
Statistics
Matches: 43, Mismatches: 10, Indels: 5
0.74 0.17 0.09
Matches are distributed among these distances:
24 15 0.35
25 23 0.53
26 5 0.12
ACGTcount: A:0.14, C:0.26, G:0.23, T:0.38
Consensus pattern (24 bp):
GAGCTTCCCGTTTATGGCTCCTTG
Found at i:43680770 original size:25 final size:24
Alignment explanation
Indices: 43680741--43680829 Score: 81
Period size: 25 Copynumber: 3.6 Consensus size: 24
43680731 ATGGCTCCTC
* *
43680741 GGAGCTTTTCGATAATTGGATCTT
1 GGAGCTTCTCGATAACTGGATCTT
*
43680765 AGGAGCTTCTCGATAACTGGCTCTT
1 -GGAGCTTCTCGATAACTGGATCTT
* *
43680790 GTGAGCTTCTCGGTTAA-TGGCTCTT
1 G-GAGCTTCTC-GATAACTGGATCTT
*
43680815 CAGAGCTTCTCGATA
1 -GGAGCTTCTCGATA
43680830 TTGGCTCGCT
Statistics
Matches: 55, Mismatches: 6, Indels: 7
0.81 0.09 0.10
Matches are distributed among these distances:
24 4 0.07
25 47 0.85
26 4 0.07
ACGTcount: A:0.19, C:0.20, G:0.25, T:0.36
Consensus pattern (24 bp):
GGAGCTTCTCGATAACTGGATCTT
Found at i:43680786 original size:74 final size:74
Alignment explanation
Indices: 43680658--43680833 Score: 180
Period size: 74 Copynumber: 2.4 Consensus size: 74
43680648 TCCTGATATT
* * * *
43680658 TGGCT-CTCACGAGCTTCCCGTTATATGGTTCTT-GCGAGCTTCCCGATTAATGGCTCTTTTAAG
1 TGGCTCCTCA-GAGCTTCTCGATAT-TGGATCTTAG-GAGCTTCCCGATTAATGGCTCTTGTAAG
*
43680721 CTTC-CCGTTTA
63 CTTCTCCGTTAA
* * * *
43680732 TGGCTCCTCGGAGCTTTTCGATAATTGGATCTTAGGAGCTTCTCGA-TAACTGGCTCTTGTGAGC
1 TGGCTCCTCAGAGCTTCTCGAT-ATTGGATCTTAGGAGCTTCCCGATTAA-TGGCTCTTGTAAGC
*
43680796 TTCTCGGTTAA
64 TTCTCCGTTAA
*
43680807 TGGCTCTTCAGAGCTTCTCGATATTGG
1 TGGCTCCTCAGAGCTTCTCGATATTGG
43680834 CTCGCTTGAA
Statistics
Matches: 84, Mismatches: 13, Indels: 10
0.79 0.12 0.09
Matches are distributed among these distances:
73 3 0.04
74 51 0.61
75 30 0.36
ACGTcount: A:0.16, C:0.24, G:0.23, T:0.37
Consensus pattern (74 bp):
TGGCTCCTCAGAGCTTCTCGATATTGGATCTTAGGAGCTTCCCGATTAATGGCTCTTGTAAGCTT
CTCCGTTAA
Found at i:43680847 original size:24 final size:24
Alignment explanation
Indices: 43680826--43680884 Score: 84
Period size: 24 Copynumber: 2.5 Consensus size: 24
43680816 AGAGCTTCTC
*
43680826 GATATTGGCTCGCTTGAACTTCCT
1 GATATTGGCTCGCATGAACTTCCT
*
43680850 GATATTGGCTCGCATGAGCTTCCT
1 GATATTGGCTCGCATGAACTTCCT
43680874 GA-ATTTGGCTC
1 GATA-TTGGCTC
43680885 TCTTAAGCTT
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
23 1 0.03
24 31 0.97
ACGTcount: A:0.17, C:0.24, G:0.24, T:0.36
Consensus pattern (24 bp):
GATATTGGCTCGCATGAACTTCCT
Found at i:43680871 original size:48 final size:48
Alignment explanation
Indices: 43680817--43680935 Score: 118
Period size: 48 Copynumber: 2.4 Consensus size: 48
43680807 TGGCTCTTCA
*
43680817 GAGCTTCTCGATATTGGCTCGCTTGAA-CTTCCTGATAT-TGGCTCGCAT
1 GAGCTTC-CGATATTGGCTCGCTT-AAGCTTCCTGATATATGGCTCACAT
* * *
43680865 GAGCTTCCTGA-ATTTGGCTCTCTTAAGCTTCTTGTTATATGGCTCACAT
1 GAGCTTCC-GATA-TTGGCTCGCTTAAGCTTCCTGATATATGGCTCACAT
*
43680914 GAGCTTCCCGTTATATGGCTCG
1 GAGCTT-CCGATAT-TGGCTCG
43680936 AAAGAGCTTC
Statistics
Matches: 58, Mismatches: 6, Indels: 12
0.76 0.08 0.16
Matches are distributed among these distances:
47 4 0.07
48 28 0.48
49 17 0.29
50 9 0.16
ACGTcount: A:0.17, C:0.24, G:0.22, T:0.37
Consensus pattern (48 bp):
GAGCTTCCGATATTGGCTCGCTTAAGCTTCCTGATATATGGCTCACAT
Found at i:43680893 original size:24 final size:24
Alignment explanation
Indices: 43680818--43680909 Score: 82
Period size: 24 Copynumber: 3.8 Consensus size: 24
43680808 GGCTCTTCAG
43680818 AGCTT-CTCGATATTGGCTCGCTTGA
1 AGCTTCCT-GATATTGGCTCGCTT-A
* *
43680843 A-CTTCCTGATATTGGCTCGCATG
1 AGCTTCCTGATATTGGCTCGCTTA
*
43680866 AGCTTCCTGA-ATTTGGCTCTCTTA
1 AGCTTCCTGATA-TTGGCTCGCTTA
* *
43680890 AGCTTCTTGTTATATGGCTC
1 AGCTTCCTGATAT-TGGCTC
43680910 ACATGAGCTT
Statistics
Matches: 55, Mismatches: 7, Indels: 10
0.76 0.10 0.14
Matches are distributed among these distances:
23 2 0.04
24 43 0.78
25 10 0.18
ACGTcount: A:0.16, C:0.24, G:0.21, T:0.39
Consensus pattern (24 bp):
AGCTTCCTGATATTGGCTCGCTTA
Found at i:43680909 original size:25 final size:25
Alignment explanation
Indices: 43680879--43680934 Score: 67
Period size: 25 Copynumber: 2.2 Consensus size: 25
43680869 TTCCTGAATT
* * **
43680879 TGGCTCTCTTAAGCTTCTTGTTATA
1 TGGCTCACATAAGCTTCCCGTTATA
*
43680904 TGGCTCACATGAGCTTCCCGTTATA
1 TGGCTCACATAAGCTTCCCGTTATA
43680929 TGGCTC
1 TGGCTC
43680935 GAAAGAGCTT
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.16, C:0.25, G:0.20, T:0.39
Consensus pattern (25 bp):
TGGCTCACATAAGCTTCCCGTTATA
Found at i:43680942 original size:25 final size:25
Alignment explanation
Indices: 43680898--43680952 Score: 76
Period size: 25 Copynumber: 2.2 Consensus size: 25
43680888 TAAGCTTCTT
*
43680898 GTTATATGGCTCACATGAGCTTCCC
1 GTTATATGGCTCACAAGAGCTTCCC
*
43680923 GTTATATGGCTCGA-AAGAGCTTCTC
1 GTTATATGGCTC-ACAAGAGCTTCCC
43680948 GTTAT
1 GTTAT
43680953 GTGCTCGTAT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
25 26 0.96
26 1 0.04
ACGTcount: A:0.22, C:0.22, G:0.22, T:0.35
Consensus pattern (25 bp):
GTTATATGGCTCACAAGAGCTTCCC
Found at i:43688527 original size:9 final size:9
Alignment explanation
Indices: 43688513--43688543 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
43688503 GTTAAACGAA
43688513 TCGAGTTAT
1 TCGAGTTAT
*
43688522 TCGAGTTAA
1 TCGAGTTAT
43688531 TCGAGTTAT
1 TCGAGTTAT
43688540 TCGA
1 TCGA
43688544 ATCAACTCGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.26, C:0.13, G:0.23, T:0.39
Consensus pattern (9 bp):
TCGAGTTAT
Found at i:43694953 original size:27 final size:26
Alignment explanation
Indices: 43694883--43695008 Score: 92
Period size: 27 Copynumber: 4.7 Consensus size: 26
43694873 GGCGGACTGG
* * *
43694883 CTCGCGAACAGGAGACTGACGAACTGT
1 CTCGCGAACAGG-GACTGACGGATTGC
*
43694910 CTCGTGAACAGAGGACTGACGGATTGC
1 CTCGCGAACAG-GGACTGACGGATTGC
* *
43694937 CTCGCGAATAGGTGACTGATGGATTGC
1 CTCGCGAACAGG-GACTGACGGATTGC
* * *
43694964 CTTGCAAACAGGGGACT-AGCGGACTGC
1 CTCGCGAACA-GGGACTGA-CGGATTGC
* *
43694991 CTTGTGAACAGGGGACTG
1 CTCGCGAACA-GGGACTG
43695009 GTGGATTGTC
Statistics
Matches: 80, Mismatches: 14, Indels: 9
0.78 0.14 0.09
Matches are distributed among these distances:
26 2 0.03
27 75 0.94
28 3 0.04
ACGTcount: A:0.25, C:0.22, G:0.33, T:0.19
Consensus pattern (26 bp):
CTCGCGAACAGGGACTGACGGATTGC
Found at i:43697725 original size:26 final size:26
Alignment explanation
Indices: 43697695--43697745 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 26
43697685 CTTACTAACA
*
43697695 ACTTAACTACTGCAGTAGTTCATTCT
1 ACTTAACTACTGCAGCAGTTCATTCT
* *
43697721 ACTTAACTGCTGCTGCAGTTCATTC
1 ACTTAACTACTGCAGCAGTTCATTC
43697746 CTTAACATGC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.24, C:0.25, G:0.14, T:0.37
Consensus pattern (26 bp):
ACTTAACTACTGCAGCAGTTCATTCT
Found at i:43702448 original size:22 final size:22
Alignment explanation
Indices: 43702422--43702466 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
43702412 AAGCAACTAG
43702422 CAGAAACATTGCCAATGCAGGT
1 CAGAAACATTGCCAATGCAGGT
43702444 CAGAAACATTGCCAATGCAGGT
1 CAGAAACATTGCCAATGCAGGT
43702466 C
1 C
43702467 GATAACTAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.36, C:0.24, G:0.22, T:0.18
Consensus pattern (22 bp):
CAGAAACATTGCCAATGCAGGT
Found at i:43704703 original size:17 final size:17
Alignment explanation
Indices: 43704673--43704705 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
43704663 ATAGAAACAA
43704673 ACAAACAAACACCAAAC
1 ACAAACAAACACCAAAC
43704690 ACAAGACAAA-ACCAAA
1 ACAA-ACAAACACCAAA
43704706 ACTCTCTCAG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.67, C:0.30, G:0.03, T:0.00
Consensus pattern (17 bp):
ACAAACAAACACCAAAC
Found at i:43721793 original size:800 final size:800
Alignment explanation
Indices: 43720253--43721853 Score: 3202
Period size: 800 Copynumber: 2.0 Consensus size: 800
43720243 TTCAAGTCTG
43720253 TGTAAGACTTCTGCCTATCGGATGCCATTTTCAATCGGTCTCAAATCAATCTAACTTTATCCTCG
1 TGTAAGACTTCTGCCTATCGGATGCCATTTTCAATCGGTCTCAAATCAATCTAACTTTATCCTCG
43720318 GTATCAGAAACTAGTTCAGGGCCCAAAACACGCTGCTCACCCAACTCAGTCCAACATGAAAGTGT
66 GTATCAGAAACTAGTTCAGGGCCCAAAACACGCTGCTCACCCAACTCAGTCCAACATGAAAGTGT
43720383 GCGATACCTACGACCATATAATGCCTCCTAAGGTGCCATCTGAATGCCAGACTGATAGCTGTTGT
131 GCGATACCTACGACCATATAATGCCTCCTAAGGTGCCATCTGAATGCCAGACTGATAGCTGTTGT
43720448 TATAAGCAAACTCTGCTAGTGGCAGGTAGTCCTCCCAACTACCTCGGAAGTCAATGATACAGCTC
196 TATAAGCAAACTCTGCTAGTGGCAGGTAGTCCTCCCAACTACCTCGGAAGTCAATGATACAGCTC
43720513 CTCAACACATCCTCCAGTATCTGAATCACCCTCTCAGATTGACCATCTGTTTGAGGATGGAACGC
261 CTCAACACATCCTCCAGTATCTGAATCACCCTCTCAGATTGACCATCTGTTTGAGGATGGAACGC
43720578 AGTACTGAAGTTCAACCTTGTACCCAGAGCTTCATGTAGTTTTTTCTAAAACCGAGACGTGAAGC
326 AGTACTGAAGTTCAACCTTGTACCCAGAGCTTCATGTAGTTTTTTCTAAAACCGAGACGTGAAGC
43720643 GATGATCCCTATCAGATATGATCAAAATCGGTACCCCATGCAGTCCAACTATATCAAACACATAG
391 GATGATCCCTATCAGATATGATCAAAATCGGTACCCCATGCAGTCCAACTATATCAAACACATAG
43720708 AGTTTAGCCAGCTTCTACAGCGAGTAGTCAGTACGAACAAGAATGAAATGGGCAGACTTGGTAAA
456 AGTTTAGCCAGCTTCTACAGCGAGTAGTCAGTACGAACAAGAATGAAATGGGCAGACTTGGTAAA
43720773 TCGATCCACGATGATCCATACATAGTCCTTCTTAGTGGGTGTTAGAGGCAACCCAATAACGAAGT
521 TCGATCCACGATGATCCATACATAGTCCTTCTTAGTGGGTGTTAGAGGCAACCCAATAACGAAGT
43720838 CCATAGTTACGCACTCCCACTTCCATAGTGGAATTTTAACTGGCTGCAGCAAACCTGAAGGTAAC
586 CCATAGTTACGCACTCCCACTTCCATAGTGGAATTTTAACTGGCTGCAGCAAACCTGAAGGTAAC
43720903 TAATGCTCAACCTTAACCTGCTAGCATGTCAGACATTTAGCGACAAACTTGGTAGCCTCTCACTT
651 TAATGCTCAACCTTAACCTGCTAGCATGTCAGACATTTAGCGACAAACTTGGTAGCCTCTCACTT
43720968 AAGACCTGACCACCAATATAACTCGCAAAGGTTTCGGTACAACTTATTTTCGCTGGGATGCATAG
716 AAGACCTGACCACCAATATAACTCGCAAAGGTTTCGGTACAACTTATTTTCGCTGGGATGCATAG
43721033 CATAAGGGCTACTATGCACC
781 CATAAGGGCTACTATGCACC
43721053 TGTAAGACTTCTGCCTATCGGATGCCATTTTCAATCGGTCTCAAATCAATCTAACTTTATCCTCG
1 TGTAAGACTTCTGCCTATCGGATGCCATTTTCAATCGGTCTCAAATCAATCTAACTTTATCCTCG
43721118 GTATCAGAAACTAGTTCAGGGCCCAAAACACGCTGCTCACCCAACTCAGTCCAACATGAAAGTGT
66 GTATCAGAAACTAGTTCAGGGCCCAAAACACGCTGCTCACCCAACTCAGTCCAACATGAAAGTGT
43721183 GCGATACCTACGACCATATAATGCCTCCTAAGGTGCCATCTGAATGCCAGACTGATAGCTGTTGT
131 GCGATACCTACGACCATATAATGCCTCCTAAGGTGCCATCTGAATGCCAGACTGATAGCTGTTGT
43721248 TATAAGCAAACTCTGCTAGTGGCAGGTAGTCCTCCCAACTACCTCGGAAGTCAATGATACAGCTC
196 TATAAGCAAACTCTGCTAGTGGCAGGTAGTCCTCCCAACTACCTCGGAAGTCAATGATACAGCTC
43721313 CTCAACACATCCTCCAGTATCTGAATCACCCTCTCAGATTGACCATCTGTTTGAGGATGGAACGC
261 CTCAACACATCCTCCAGTATCTGAATCACCCTCTCAGATTGACCATCTGTTTGAGGATGGAACGC
43721378 AGTACTGAAGTTCAACCTTGTACCCAGAGCTTCATGTAGTTTTTTCTAAAACCGAGACGTGAAGC
326 AGTACTGAAGTTCAACCTTGTACCCAGAGCTTCATGTAGTTTTTTCTAAAACCGAGACGTGAAGC
43721443 GATGATCCCTATCAGATATGATCAAAATCGGTACCCCATGCAGTCCAACTATATCAAACACATAG
391 GATGATCCCTATCAGATATGATCAAAATCGGTACCCCATGCAGTCCAACTATATCAAACACATAG
43721508 AGTTTAGCCAGCTTCTACAGCGAGTAGTCAGTACGAACAAGAATGAAATGGGCAGACTTGGTAAA
456 AGTTTAGCCAGCTTCTACAGCGAGTAGTCAGTACGAACAAGAATGAAATGGGCAGACTTGGTAAA
43721573 TCGATCCACGATGATCCATACATAGTCCTTCTTAGTGGGTGTTAGAGGCAACCCAATAACGAAGT
521 TCGATCCACGATGATCCATACATAGTCCTTCTTAGTGGGTGTTAGAGGCAACCCAATAACGAAGT
43721638 CCATAGTTACGCACTCCCACTTCCATAGTGGAATTTTAACTGGCTGCAGCAAACCTGAAGGTAAC
586 CCATAGTTACGCACTCCCACTTCCATAGTGGAATTTTAACTGGCTGCAGCAAACCTGAAGGTAAC
43721703 TAATGCTCAACCTTAACCTGCTAGCATGTCAGACATTTAGCGACAAACTTGGTAGCCTCTCACTT
651 TAATGCTCAACCTTAACCTGCTAGCATGTCAGACATTTAGCGACAAACTTGGTAGCCTCTCACTT
43721768 AAGACCTGACCACCAATATAACTCGCAAAGGTTTCGGTACAACTTATTTTCGCTGGGATGCATAG
716 AAGACCTGACCACCAATATAACTCGCAAAGGTTTCGGTACAACTTATTTTCGCTGGGATGCATAG
43721833 CATAAGGGCTACTATGCACC
781 CATAAGGGCTACTATGCACC
43721853 T
1 T
43721854 CCCTCAGTAT
Statistics
Matches: 801, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
800 801 1.00
ACGTcount: A:0.30, C:0.26, G:0.19, T:0.26
Consensus pattern (800 bp):
TGTAAGACTTCTGCCTATCGGATGCCATTTTCAATCGGTCTCAAATCAATCTAACTTTATCCTCG
GTATCAGAAACTAGTTCAGGGCCCAAAACACGCTGCTCACCCAACTCAGTCCAACATGAAAGTGT
GCGATACCTACGACCATATAATGCCTCCTAAGGTGCCATCTGAATGCCAGACTGATAGCTGTTGT
TATAAGCAAACTCTGCTAGTGGCAGGTAGTCCTCCCAACTACCTCGGAAGTCAATGATACAGCTC
CTCAACACATCCTCCAGTATCTGAATCACCCTCTCAGATTGACCATCTGTTTGAGGATGGAACGC
AGTACTGAAGTTCAACCTTGTACCCAGAGCTTCATGTAGTTTTTTCTAAAACCGAGACGTGAAGC
GATGATCCCTATCAGATATGATCAAAATCGGTACCCCATGCAGTCCAACTATATCAAACACATAG
AGTTTAGCCAGCTTCTACAGCGAGTAGTCAGTACGAACAAGAATGAAATGGGCAGACTTGGTAAA
TCGATCCACGATGATCCATACATAGTCCTTCTTAGTGGGTGTTAGAGGCAACCCAATAACGAAGT
CCATAGTTACGCACTCCCACTTCCATAGTGGAATTTTAACTGGCTGCAGCAAACCTGAAGGTAAC
TAATGCTCAACCTTAACCTGCTAGCATGTCAGACATTTAGCGACAAACTTGGTAGCCTCTCACTT
AAGACCTGACCACCAATATAACTCGCAAAGGTTTCGGTACAACTTATTTTCGCTGGGATGCATAG
CATAAGGGCTACTATGCACC
Found at i:43725359 original size:27 final size:27
Alignment explanation
Indices: 43725329--43725380 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 27
43725319 TAAAGTCTAT
* *
43725329 CTATAGTAGTCTCAGTATATACTATAC
1 CTATAGCAGTCTCAGGATATACTATAC
* *
43725356 CTATAGCAGTTTTAGGATATACTAT
1 CTATAGCAGTCTCAGGATATACTAT
43725381 CAGAAACAGT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 21 1.00
ACGTcount: A:0.33, C:0.15, G:0.13, T:0.38
Consensus pattern (27 bp):
CTATAGCAGTCTCAGGATATACTATAC
Found at i:43741447 original size:19 final size:20
Alignment explanation
Indices: 43741415--43741452 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
43741405 CGGCGCCGAT
43741415 TCTGTAAGTGTTTT-AAAAC
1 TCTGTAAGTGTTTTGAAAAC
43741434 TCTGATAAGT-TTTTGAAAA
1 TCTG-TAAGTGTTTTGAAAA
43741453 TATGAGTAGC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 8 0.47
20 9 0.53
ACGTcount: A:0.34, C:0.08, G:0.16, T:0.42
Consensus pattern (20 bp):
TCTGTAAGTGTTTTGAAAAC
Found at i:43747900 original size:133 final size:134
Alignment explanation
Indices: 43747651--43747919 Score: 522
Period size: 133 Copynumber: 2.0 Consensus size: 134
43747641 TAGACAACTT
43747651 TGAAGGAACATATAAGTAAATAGTGAAAACATATATGAATAATTAACTAGCACGGGTTACATTAA
1 TGAAGGAACA-ATAAGTAAATAGTGAAAACATATATGAATAATTAACTAGCACGGGTTACATTAA
43747716 AAATGGATCACGTGGCCAAGGCCAATTTGGGAAGGGTCGGTAAGCTTTACTTAGACCCCTATATG
65 AAATGGATCACGTGGCCAAGGCCAATTTGGGAAGGGTCGGTAAGCTTTACTTAGACCCCTATATG
43747781 TGTGA
130 TGTGA
43747786 TGAAGGAAC-ATAAGTAAATAGTGAAAACATATATGAATAATTAACTAGCACGGGTTACATTAAA
1 TGAAGGAACAATAAGTAAATAGTGAAAACATATATGAATAATTAACTAGCACGGGTTACATTAAA
43747850 AATGGATCACGTGGCCAAGGCCAATTTGGGAAGGGTCGGTAAGCTTTACTTAGACCCCTATATGT
66 AATGGATCACGTGGCCAAGGCCAATTTGGGAAGGGTCGGTAAGCTTTACTTAGACCCCTATATGT
43747915 GTGA
131 GTGA
43747919 T
1 T
43747920 CTGTCTGTCT
Statistics
Matches: 134, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
133 125 0.93
135 9 0.07
ACGTcount: A:0.37, C:0.14, G:0.23, T:0.26
Consensus pattern (134 bp):
TGAAGGAACAATAAGTAAATAGTGAAAACATATATGAATAATTAACTAGCACGGGTTACATTAAA
AATGGATCACGTGGCCAAGGCCAATTTGGGAAGGGTCGGTAAGCTTTACTTAGACCCCTATATGT
GTGA
Found at i:43752707 original size:12 final size:12
Alignment explanation
Indices: 43752669--43752712 Score: 54
Period size: 12 Copynumber: 3.7 Consensus size: 12
43752659 ACTGGTCATA
43752669 GAGAGAATTGAG
1 GAGAGAATTGAG
* *
43752681 GAGGGATATT-TG
1 GAGAGA-ATTGAG
43752693 GAGAGAATTGAG
1 GAGAGAATTGAG
43752705 GAGAGAAT
1 GAGAGAAT
43752713 ATTGAGATTT
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
11 3 0.12
12 20 0.77
13 3 0.12
ACGTcount: A:0.39, C:0.00, G:0.41, T:0.20
Consensus pattern (12 bp):
GAGAGAATTGAG
Found at i:43752716 original size:14 final size:13
Alignment explanation
Indices: 43752669--43752718 Score: 52
Period size: 12 Copynumber: 4.0 Consensus size: 13
43752659 ACTGGTCATA
43752669 GAGAGA-ATTGAG
1 GAGAGATATTGAG
* *
43752681 GAGGGATATT-TG
1 GAGAGATATTGAG
43752693 GAGAGA-ATTGAG
1 GAGAGATATTGAG
43752705 GAGAGAATATTGAG
1 GAGAG-ATATTGAG
43752719 ATTTGGGGAG
Statistics
Matches: 30, Mismatches: 4, Indels: 6
0.75 0.10 0.15
Matches are distributed among these distances:
11 3 0.10
12 17 0.57
13 4 0.13
14 6 0.20
ACGTcount: A:0.38, C:0.00, G:0.40, T:0.22
Consensus pattern (13 bp):
GAGAGATATTGAG
Found at i:43753435 original size:27 final size:27
Alignment explanation
Indices: 43753384--43753476 Score: 93
Period size: 27 Copynumber: 3.5 Consensus size: 27
43753374 TCGATATCTA
43753384 GACCAAAATACCCTCGAAGGATAAAAT
1 GACCAAAATACCCTCGAAGGATAAAAT
* *
43753411 GACCAAAATACCCT-TAATGGGTAAAAT
1 GACCAAAATACCCTCGAA-GGATAAAAT
* * *
43753438 GACCGAAATACTCTCGTAGG-TAAGAAT
1 GACCAAAATACCCTCGAAGGATAA-AAT
*
43753465 -ACCGAAATACCC
1 GACCAAAATACCC
43753477 CCATAAGTTA
Statistics
Matches: 56, Mismatches: 7, Indels: 7
0.80 0.10 0.10
Matches are distributed among these distances:
26 16 0.29
27 39 0.70
28 1 0.02
ACGTcount: A:0.43, C:0.23, G:0.16, T:0.18
Consensus pattern (27 bp):
GACCAAAATACCCTCGAAGGATAAAAT
Found at i:43753515 original size:27 final size:27
Alignment explanation
Indices: 43753429--43753654 Score: 194
Period size: 27 Copynumber: 8.5 Consensus size: 27
43753419 TACCCTTAAT
* *
43753429 GGGTAAAATGACCGAAATA-CTCTCGTA
1 GGGTAAAATGACCGTAATACCCCT-GTA
* **
43753456 -GGTAAGAAT-ACCGAAATACCCCCATA
1 GGGTAA-AATGACCGTAATACCCCTGTA
* * * **
43753482 AGTTAAAATGATCGTAATATTCCTGTA
1 GGGTAAAATGACCGTAATACCCCTGTA
*
43753509 GGGTAAAATGACCGTAATACCCCTATA
1 GGGTAAAATGACCGTAATACCCCTGTA
* *
43753536 GGGTAAAA-GAACCG-AAAACCCCTATA
1 GGGTAAAATG-ACCGTAATACCCCTGTA
* *
43753562 GGGTAAAATGATCGTAAT-GCCCTGTA
1 GGGTAAAATGACCGTAATACCCCTGTA
* *
43753588 GGATAAAATGACCGTAATGCCCCTGTA
1 GGGTAAAATGACCGTAATACCCCTGTA
* * *
43753615 GGGTAAAATGATCGTAATGCCCCTATA
1 GGGTAAAATGACCGTAATACCCCTGTA
*
43753642 GGTTAAAATGACC
1 GGGTAAAATGACC
43753655 ACAATGCCCT
Statistics
Matches: 162, Mismatches: 29, Indels: 16
0.78 0.14 0.08
Matches are distributed among these distances:
26 64 0.40
27 98 0.60
ACGTcount: A:0.37, C:0.19, G:0.20, T:0.23
Consensus pattern (27 bp):
GGGTAAAATGACCGTAATACCCCTGTA
Found at i:43753665 original size:53 final size:52
Alignment explanation
Indices: 43753503--43753675 Score: 190
Period size: 53 Copynumber: 3.3 Consensus size: 52
43753493 TCGTAATATT
* * * **
43753503 CCTGTAGGGTAAAATGACCGTAATACCCCTATAGGGTAAAA-GAACCGAAAACC
1 CCTGTAGGGTAAAATGATCGTAATGCCCCTATAGGATAAAATG-ACC-AAATGC
* * *
43753556 CCTATAGGGTAAAATGATCGTAATG-CCCTGTAGGATAAAATGACCGTAATGCC
1 CCTGTAGGGTAAAATGATCGTAATGCCCCTATAGGATAAAATGACC-AAATG-C
*
43753609 CCTGTAGGGTAAAATGATCGTAATGCCCCTATAGGTTAAAATGACCACAATGC
1 CCTGTAGGGTAAAATGATCGTAATGCCCCTATAGGATAAAATGACCA-AATGC
43753662 CCTGGT-GGGTAAAA
1 CCT-GTAGGGTAAAA
43753676 GACTATTTTT
Statistics
Matches: 103, Mismatches: 12, Indels: 10
0.82 0.10 0.08
Matches are distributed among these distances:
52 19 0.18
53 60 0.58
54 24 0.23
ACGTcount: A:0.35, C:0.20, G:0.23, T:0.22
Consensus pattern (52 bp):
CCTGTAGGGTAAAATGATCGTAATGCCCCTATAGGATAAAATGACCAAATGC
Found at i:43753674 original size:26 final size:27
Alignment explanation
Indices: 43753485--43753675 Score: 185
Period size: 27 Copynumber: 7.2 Consensus size: 27
43753475 CCCCATAAGT
* ***
43753485 TAAAATGATCGTAATATTCCTGTAGGG
1 TAAAATGACCGTAATGCCCCTGTAGGG
* *
43753512 TAAAATGACCGTAATACCCCTATAGGG
1 TAAAATGACCGTAATGCCCCTGTAGGG
** *
43753539 TAAAA-GAACCG-AAAACCCCTATAGGG
1 TAAAATG-ACCGTAATGCCCCTGTAGGG
* *
43753565 TAAAATGATCGTAATG-CCCTGTAGGA
1 TAAAATGACCGTAATGCCCCTGTAGGG
43753591 TAAAATGACCGTAATGCCCCTGTAGGG
1 TAAAATGACCGTAATGCCCCTGTAGGG
* * *
43753618 TAAAATGATCGTAATGCCCCTATAGGT
1 TAAAATGACCGTAATGCCCCTGTAGGG
**
43753645 TAAAATGACCACAATG-CCCTGGT-GGG
1 TAAAATGACCGTAATGCCCCT-GTAGGG
43753671 TAAAA
1 TAAAA
43753676 GACTATTTTT
Statistics
Matches: 139, Mismatches: 20, Indels: 11
0.82 0.12 0.06
Matches are distributed among these distances:
26 57 0.41
27 82 0.59
ACGTcount: A:0.36, C:0.19, G:0.21, T:0.24
Consensus pattern (27 bp):
TAAAATGACCGTAATGCCCCTGTAGGG
Found at i:43753726 original size:23 final size:23
Alignment explanation
Indices: 43753699--43753765 Score: 89
Period size: 23 Copynumber: 2.9 Consensus size: 23
43753689 CATCGAGGTC
*
43753699 AAATGATTGTTTTGTCTGTGGTT
1 AAATGATTGATTTGTCTGTGGTT
*
43753722 AAATGATTGATTTGTCTGTGTTT
1 AAATGATTGATTTGTCTGTGGTT
* *
43753745 AGTATGACTGATTTGTCTGTG
1 A-AATGATTGATTTGTCTGTG
43753766 ATTTGAATGA
Statistics
Matches: 39, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
23 22 0.56
24 17 0.44
ACGTcount: A:0.19, C:0.06, G:0.25, T:0.49
Consensus pattern (23 bp):
AAATGATTGATTTGTCTGTGGTT
Found at i:43753756 original size:24 final size:24
Alignment explanation
Indices: 43753700--43753781 Score: 96
Period size: 24 Copynumber: 3.5 Consensus size: 24
43753690 ATCGAGGTCA
* * *
43753700 AATGATTGTTTTGTCTGTGGTTA-
1 AATGACTGATTTGTCTGTGTTTAG
*
43753723 AATGATTGATTTGTCTGTGTTTAG
1 AATGACTGATTTGTCTGTGTTTAG
*
43753747 TATGACTGATTTGTCTGTGATTT-G
1 AATGACTGATTTGTCTGTG-TTTAG
43753771 AATGACTGATT
1 AATGACTGATT
43753782 CTGAGCATGG
Statistics
Matches: 52, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
23 21 0.40
24 28 0.54
25 3 0.06
ACGTcount: A:0.21, C:0.06, G:0.24, T:0.49
Consensus pattern (24 bp):
AATGACTGATTTGTCTGTGTTTAG
Found at i:43753906 original size:27 final size:27
Alignment explanation
Indices: 43753850--43753907 Score: 64
Period size: 27 Copynumber: 2.1 Consensus size: 27
43753840 GGAAGTACTG
* *
43753850 TACTGGTGGCTCTACCACAATCACTGT
1 TACTAGTGGCTCTACCACAATCACTAT
* *
43753877 TACTAGTGGCTTTGCCACATAT-ACTAT
1 TACTAGTGGCTCTACCACA-ATCACTAT
43753904 TACT
1 TACT
43753908 GGCAGCTTTA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
27 24 0.92
28 2 0.08
ACGTcount: A:0.24, C:0.26, G:0.16, T:0.34
Consensus pattern (27 bp):
TACTAGTGGCTCTACCACAATCACTAT
Found at i:43753962 original size:26 final size:26
Alignment explanation
Indices: 43753907--43753962 Score: 60
Period size: 26 Copynumber: 2.2 Consensus size: 26
43753897 ATACTATTAC
* *
43753907 TGGCAGCTTTACTGCGATACTATTGC
1 TGGCAGCTTTACTGCGATACTACTGA
* *
43753933 TGGCAGCTTTGCTTG-GATGCTACTGA
1 TGGCAGCTTTAC-TGCGATACTACTGA
43753959 TGGC
1 TGGC
43753963 TTTGTGCCGA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
26 23 0.92
27 2 0.08
ACGTcount: A:0.16, C:0.21, G:0.29, T:0.34
Consensus pattern (26 bp):
TGGCAGCTTTACTGCGATACTACTGA
Found at i:43753997 original size:32 final size:32
Alignment explanation
Indices: 43753953--43754040 Score: 124
Period size: 32 Copynumber: 2.8 Consensus size: 32
43753943 GCTTGGATGC
*
43753953 TACTGATGGCTTTGTGCCGATCATAGTACCGT
1 TACTGATGGCTTTGTGCCGATCATAGTACCAT
* *
43753985 TACTGATAGCTTTGTGCCGATCATATTACCAT
1 TACTGATGGCTTTGTGCCGATCATAGTACCAT
*
43754017 TACT-AGTGGCTATGTGCCGATCAT
1 TACTGA-TGGCTTTGTGCCGATCAT
43754041 TTCATTGTTA
Statistics
Matches: 50, Mismatches: 5, Indels: 2
0.88 0.09 0.04
Matches are distributed among these distances:
31 1 0.02
32 49 0.98
ACGTcount: A:0.22, C:0.22, G:0.22, T:0.35
Consensus pattern (32 bp):
TACTGATGGCTTTGTGCCGATCATAGTACCAT
Found at i:43754072 original size:32 final size:32
Alignment explanation
Indices: 43753950--43754123 Score: 104
Period size: 32 Copynumber: 5.5 Consensus size: 32
43753940 TTTGCTTGGA
* *
43753950 TGCTACTGATGGCTTTGTGCCGATCATAGT-AC
1 TGCTACTGATGGCTTTGTGACAATCATA-TCAC
* * * * * *
43753982 CGTTACTGATAGCTTTGTGCCGATCATATTAC
1 TGCTACTGATGGCTTTGTGACAATCATATCAC
*** * * * * *
43754014 CATTACT-AGTGGCTATGTGCCGATCATTTCAT
1 TGCTACTGA-TGGCTTTGTGACAATCATATCAC
*
43754046 TGTTACTGATGG-TTGTGTGACAATCATATCAC
1 TGCTACTGATGGCTT-TGTGACAATCATATCAC
* * *
43754078 TGCTACTGATGGCTTTGTGCCAATCACATTAC
1 TGCTACTGATGGCTTTGTGACAATCATATCAC
*
43754110 TG-TACTTATGGCTT
1 TGCTACTGATGGCTT
43754124 GTAGTCATTC
Statistics
Matches: 116, Mismatches: 21, Indels: 11
0.78 0.14 0.07
Matches are distributed among these distances:
31 14 0.12
32 99 0.85
33 3 0.03
ACGTcount: A:0.21, C:0.21, G:0.21, T:0.37
Consensus pattern (32 bp):
TGCTACTGATGGCTTTGTGACAATCATATCAC
Found at i:43754202 original size:26 final size:26
Alignment explanation
Indices: 43754173--43754225 Score: 79
Period size: 26 Copynumber: 2.0 Consensus size: 26
43754163 GGCTCTTAGC
* *
43754173 CATTCTGACTACTGGCAGCTCTGCTG
1 CATTATGACTACTGGCAGCTATGCTG
*
43754199 CATTATTACTACTGGCAGCTATGCTG
1 CATTATGACTACTGGCAGCTATGCTG
43754225 C
1 C
43754226 GATATTGGTG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.19, C:0.28, G:0.21, T:0.32
Consensus pattern (26 bp):
CATTATGACTACTGGCAGCTATGCTG
Found at i:43758635 original size:12 final size:12
Alignment explanation
Indices: 43758618--43758652 Score: 70
Period size: 12 Copynumber: 2.9 Consensus size: 12
43758608 ATGTGATGTC
43758618 CATAGTTTCCAA
1 CATAGTTTCCAA
43758630 CATAGTTTCCAA
1 CATAGTTTCCAA
43758642 CATAGTTTCCA
1 CATAGTTTCCA
43758653 TTATATTATG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.31, C:0.26, G:0.09, T:0.34
Consensus pattern (12 bp):
CATAGTTTCCAA
Found at i:43760740 original size:21 final size:21
Alignment explanation
Indices: 43760707--43760755 Score: 57
Period size: 21 Copynumber: 2.3 Consensus size: 21
43760697 ATCATGTTAT
*
43760707 TTAT-TTTTATTTGATTTTG-
1 TTATGTTTTATTTGAATTTGA
43760726 TTATGTTTATATTTGAATTTGAA
1 TTATGTTT-TATTTGAATTTG-A
43760749 TTATGTT
1 TTATGTT
43760756 AGCACCACTG
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
19 4 0.16
20 3 0.12
21 11 0.44
23 7 0.28
ACGTcount: A:0.22, C:0.00, G:0.12, T:0.65
Consensus pattern (21 bp):
TTATGTTTTATTTGAATTTGA
Found at i:43761733 original size:23 final size:23
Alignment explanation
Indices: 43761707--43761752 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
43761697 GAGTGTATAA
*
43761707 ATGTATGCATATGAAT-TATTTTG
1 ATGTATGAAT-TGAATGTATTTTG
*
43761730 ATGTTTGAATTGAATGTATTTTG
1 ATGTATGAATTGAATGTATTTTG
43761753 TTATAATAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 5 0.25
23 15 0.75
ACGTcount: A:0.28, C:0.02, G:0.20, T:0.50
Consensus pattern (23 bp):
ATGTATGAATTGAATGTATTTTG
Found at i:43762874 original size:14 final size:14
Alignment explanation
Indices: 43762855--43762890 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
43762845 ATTTTCTTCA
43762855 CTTGAACCCTGCAC
1 CTTGAACCCTGCAC
*
43762869 CTTGAATCCTGCAC
1 CTTGAACCCTGCAC
43762883 CTTGAACC
1 CTTGAACC
43762891 TTAGATCCTG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.22, C:0.39, G:0.14, T:0.25
Consensus pattern (14 bp):
CTTGAACCCTGCAC
Found at i:43762991 original size:28 final size:27
Alignment explanation
Indices: 43762947--43762999 Score: 70
Period size: 28 Copynumber: 1.9 Consensus size: 27
43762937 GGGTCTTGGA
* * *
43762947 CAAGTTCAGGGTTCAAAGTCTAAGATT
1 CAAGTTCACGGTCCAAAGTATAAGATT
43762974 CAAGATTCACGGTCCAAAGTATAAGA
1 CAAG-TTCACGGTCCAAAGTATAAGA
43763000 CCTAGGAGCT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
27 4 0.18
28 18 0.82
ACGTcount: A:0.38, C:0.17, G:0.21, T:0.25
Consensus pattern (27 bp):
CAAGTTCACGGTCCAAAGTATAAGATT
Found at i:43766604 original size:3 final size:3
Alignment explanation
Indices: 43766596--43766656 Score: 122
Period size: 3 Copynumber: 20.3 Consensus size: 3
43766586 ACAACCTTGA
43766596 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
43766644 AAT AAT AAT AAT A
1 AAT AAT AAT AAT A
43766657 CAAAGCAATT
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 58 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:43770588 original size:43 final size:43
Alignment explanation
Indices: 43770541--43770803 Score: 190
Period size: 43 Copynumber: 6.2 Consensus size: 43
43770531 TCGGACAGGA
* *
43770541 CGAAGTAATTATACTGGTACACATAGTACATCATTGGATAAAC
1 CGAAGTAATTATACTGGCACACATAGTGCATCATTGGATAAAC
* ** ** **
43770584 CGAAGCAATTATGTTGGCACGTA-AGTGCATCATTGGATGTAC
1 CGAAGTAATTATACTGGCACACATAGTGCATCATTGGATAAAC
* * * * ** * *
43770626 TGAAGAAAATATA-TCG-ACATGTAAGTGCATCATAGGATATAC
1 CGAAGTAATTATACTGGCACACAT-AGTGCATCATTGGATAAAC
* * * * * * **
43770668 CAAAGCAATTATACTGACACACATAGTGCATTATCGGACAAGT
1 CGAAGTAATTATACTGGCACACATAGTGCATCATTGGATAAAC
* * * * * **
43770711 CAAATTAATTATACTAGCACACACAGTGCATCATTGGACAAGG
1 CGAAGTAATTATACTGGCACACATAGTGCATCATTGGATAAAC
* *
43770754 TGAAGTAATTATACTGGCACACATAGTGCATCATTGGATAAAT
1 CGAAGTAATTATACTGGCACACATAGTGCATCATTGGATAAAC
43770797 CGAAGTA
1 CGAAGTA
43770804 TAAATTATAC
Statistics
Matches: 167, Mismatches: 49, Indels: 8
0.75 0.22 0.04
Matches are distributed among these distances:
40 3 0.02
41 2 0.01
42 51 0.31
43 107 0.64
44 4 0.02
ACGTcount: A:0.38, C:0.17, G:0.19, T:0.26
Consensus pattern (43 bp):
CGAAGTAATTATACTGGCACACATAGTGCATCATTGGATAAAC
Found at i:43770621 original size:42 final size:42
Alignment explanation
Indices: 43770569--43770680 Score: 125
Period size: 42 Copynumber: 2.7 Consensus size: 42
43770559 ACACATAGTA
* * * *
43770569 CATCATTGGATAAACCGAAGCAATTATGTTGGCACGTAAGTG
1 CATCATTGGATATACCGAAGCAATTATATCGACACGTAAGTG
* * * * *
43770611 CATCATTGGATGTACTGAAGAAAATATATCGACATGTAAGTG
1 CATCATTGGATATACCGAAGCAATTATATCGACACGTAAGTG
* *
43770653 CATCATAGGATATACCAAAGCAATTATA
1 CATCATTGGATATACCGAAGCAATTATA
43770681 CTGACACACA
Statistics
Matches: 55, Mismatches: 15, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
42 55 1.00
ACGTcount: A:0.38, C:0.15, G:0.20, T:0.27
Consensus pattern (42 bp):
CATCATTGGATATACCGAAGCAATTATATCGACACGTAAGTG
Found at i:43776435 original size:13 final size:14
Alignment explanation
Indices: 43776408--43776438 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
43776398 ATAATACAAC
43776408 AATTCTGTAAAAAA
1 AATTCTGTAAAAAA
43776422 AATTCTGTAAAAAA
1 AATTCTGTAAAAAA
43776436 AAT
1 AAT
43776439 CCGATGTTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.58, C:0.06, G:0.06, T:0.29
Consensus pattern (14 bp):
AATTCTGTAAAAAA
Found at i:43777368 original size:14 final size:14
Alignment explanation
Indices: 43777349--43777375 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
43777339 AAAATTAAAA
43777349 AAAATATTAGAATT
1 AAAATATTAGAATT
43777363 AAAATATTAGAAT
1 AAAATATTAGAAT
43777376 CACAATAAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.59, C:0.00, G:0.07, T:0.33
Consensus pattern (14 bp):
AAAATATTAGAATT
Found at i:43777382 original size:14 final size:14
Alignment explanation
Indices: 43777349--43777382 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
43777339 AAAATTAAAA
*
43777349 AAAATATTAGAATT
1 AAAATATTAGAATC
43777363 AAAATATTAGAATC
1 AAAATATTAGAATC
*
43777377 ACAATA
1 AAAATA
43777383 AAACAAAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.59, C:0.06, G:0.06, T:0.29
Consensus pattern (14 bp):
AAAATATTAGAATC
Found at i:43781597 original size:28 final size:30
Alignment explanation
Indices: 43781565--43781628 Score: 73
Period size: 28 Copynumber: 2.3 Consensus size: 30
43781555 ATCCTAGATT
*
43781565 TTAAAATTTAAAAA-GTAG-GACTAAATTC
1 TTAAAATTTAAAAATATAGAGACTAAATTC
* *
43781593 TTAAAA-ATAAAAATATAGAGACTCAATTC
1 TTAAAATTTAAAAATATAGAGACTAAATTC
43781622 -TAAAATT
1 TTAAAATT
43781629 ACGAAGACTA
Statistics
Matches: 29, Mismatches: 4, Indels: 5
0.76 0.11 0.13
Matches are distributed among these distances:
27 6 0.21
28 14 0.48
29 9 0.31
ACGTcount: A:0.53, C:0.08, G:0.08, T:0.31
Consensus pattern (30 bp):
TTAAAATTTAAAAATATAGAGACTAAATTC
Found at i:43782583 original size:14 final size:14
Alignment explanation
Indices: 43782572--43782601 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
43782562 TTAAAATGTT
43782572 TTTC-GGAAAATGA
1 TTTCTGGAAAATGA
43782585 TTTCTGGAAAATGA
1 TTTCTGGAAAATGA
43782599 TTT
1 TTT
43782602 ACTTTTCTGG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 4 0.25
14 12 0.75
ACGTcount: A:0.33, C:0.07, G:0.20, T:0.40
Consensus pattern (14 bp):
TTTCTGGAAAATGA
Found at i:43782610 original size:20 final size:20
Alignment explanation
Indices: 43782585--43782624 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
43782575 CGGAAAATGA
*
43782585 TTTCTGGAAAATGATTTACT
1 TTTCTGGAAAATGACTTACT
43782605 TTTCTGGAAAATGACTTACT
1 TTTCTGGAAAATGACTTACT
43782625 GAAAATATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.30, C:0.12, G:0.15, T:0.42
Consensus pattern (20 bp):
TTTCTGGAAAATGACTTACT
Found at i:43782614 original size:34 final size:32
Alignment explanation
Indices: 43782571--43782634 Score: 85
Period size: 34 Copynumber: 1.9 Consensus size: 32
43782561 ATTAAAATGT
*
43782571 TTTTCGGAAAATGA-TTTCTGGAAAATGATTTAC
1 TTTTCGGAAAATGACTTACT-GAAAAT-ATTTAC
43782604 TTTTCTGGAAAATGACTTACTGAAAATATTT
1 TTTTC-GGAAAATGACTTACTGAAAATATTT
43782635 TCTGGTGTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
33 9 0.32
34 15 0.54
35 4 0.14
ACGTcount: A:0.34, C:0.09, G:0.16, T:0.41
Consensus pattern (32 bp):
TTTTCGGAAAATGACTTACTGAAAATATTTAC
Found at i:43783912 original size:32 final size:32
Alignment explanation
Indices: 43783866--43783930 Score: 121
Period size: 32 Copynumber: 2.0 Consensus size: 32
43783856 TGTCAATCAT
43783866 TTCAATATCCAACAAGCTTAAAACATAATAAA
1 TTCAATATCCAACAAGCTTAAAACATAATAAA
*
43783898 TTCAATATCTAACAAGCTTAAAACATAATAAA
1 TTCAATATCCAACAAGCTTAAAACATAATAAA
43783930 T
1 T
43783931 ATCTAACATT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.52, C:0.17, G:0.03, T:0.28
Consensus pattern (32 bp):
TTCAATATCCAACAAGCTTAAAACATAATAAA
Found at i:43783933 original size:27 final size:29
Alignment explanation
Indices: 43783869--43783938 Score: 90
Period size: 32 Copynumber: 2.4 Consensus size: 29
43783859 CAATCATTTC
*
43783869 AATATCCAACAAGCTTAAAACATAATAAATT
1 AATATCTAACAAGCTTAAAACATAAT-AA-T
43783900 CAATATCTAACAAGCTTAAAACATAAT-A-
1 -AATATCTAACAAGCTTAAAACATAATAAT
43783928 AATATCTAACA
1 AATATCTAACA
43783939 TTCAAGACAT
Statistics
Matches: 37, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
27 11 0.30
30 1 0.03
32 25 0.68
ACGTcount: A:0.54, C:0.17, G:0.03, T:0.26
Consensus pattern (29 bp):
AATATCTAACAAGCTTAAAACATAATAAT
Found at i:43786183 original size:2 final size:2
Alignment explanation
Indices: 43786176--43786211 Score: 54
Period size: 2 Copynumber: 18.0 Consensus size: 2
43786166 GCTCGTTGTA
* *
43786176 AT AT AT AT TT AT AT AT AT AT AT AT AC AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
43786212 CCAAGAATCA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:43792965 original size:19 final size:18
Alignment explanation
Indices: 43792941--43792976 Score: 63
Period size: 19 Copynumber: 1.9 Consensus size: 18
43792931 CATGCTTTCT
43792941 ATTCACATTTTCATATTCA
1 ATTCACATTTT-ATATTCA
43792960 ATTCACATTTTATATTC
1 ATTCACATTTTATATTC
43792977 CACAATCACG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 6 0.35
19 11 0.65
ACGTcount: A:0.31, C:0.19, G:0.00, T:0.50
Consensus pattern (18 bp):
ATTCACATTTTATATTCA
Found at i:43793948 original size:29 final size:29
Alignment explanation
Indices: 43793900--43793957 Score: 66
Period size: 29 Copynumber: 2.0 Consensus size: 29
43793890 TTAAGCAATT
43793900 CTAATCAATAATTCTATCAA-ATAAACCC
1 CTAATCAATAATTCTATCAACATAAACCC
* *
43793928 CTAATTCAATCATT-TATTCAACATGAACCC
1 CTAA-TCAATAATTCTA-TCAACATAAACCC
43793958 TACTAAAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
28 6 0.24
29 12 0.48
30 7 0.28
ACGTcount: A:0.41, C:0.26, G:0.02, T:0.31
Consensus pattern (29 bp):
CTAATCAATAATTCTATCAACATAAACCC
Found at i:43794261 original size:18 final size:17
Alignment explanation
Indices: 43794236--43794274 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 17
43794226 TTACTTTATT
* *
43794236 ATATTATTTTATAATAA
1 ATATTATTTAATAACAA
43794253 ATATCTATTTAATAACAA
1 ATAT-TATTTAATAACAA
43794271 ATAT
1 ATAT
43794275 AAATATTACA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 4 0.21
18 15 0.79
ACGTcount: A:0.49, C:0.05, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATTATTTAATAACAA
Found at i:43794408 original size:33 final size:32
Alignment explanation
Indices: 43794360--43794431 Score: 94
Period size: 33 Copynumber: 2.2 Consensus size: 32
43794350 TATTTATCAT
*
43794360 ATAAAA-ATCTTTTACTAATTAGTA-ATGAATA
1 ATAAAATATCTTTTACTAATTA-TATATAAATA
43794391 ATAAAATATCTTTTTACTAATTATATATAAATA
1 ATAAAATATC-TTTTACTAATTATATATAAATA
43794424 ATACAAAT
1 ATA-AAAT
43794432 GTACTCATTT
Statistics
Matches: 36, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
31 6 0.17
32 5 0.14
33 21 0.58
34 4 0.11
ACGTcount: A:0.50, C:0.07, G:0.03, T:0.40
Consensus pattern (32 bp):
ATAAAATATCTTTTACTAATTATATATAAATA
Found at i:43794494 original size:144 final size:142
Alignment explanation
Indices: 43794246--43794508 Score: 316
Period size: 144 Copynumber: 1.8 Consensus size: 142
43794236 ATATTATTTT
* * * *
43794246 ATAATAAATATCTATTTAATAACAAATATAAATATTACAAATGTACTCATATATATTTTACATTT
1 ATAATAAATATCTATTTAATAACAAATATAAATAATACAAATGTACTCATATAAATTATACACTT
* *
43794311 GTATTTTATCATCACCATCCACTTGTCATAATTTCAATTTATTT-ATCATATAAAAATCTTTTAC
66 GTATTTTATCATCACCATACACTTGTCAT-ATTTCAATTTATTTCATAATATAAAAATCTTTTAC
43794375 TAATTAGTAATGA
130 TAATTAGTAATGA
* * * * *
43794388 ATAATAAAATATCTTTTTACTAATTATATATAAATAATACAAATGTACTCATTTAAATTAATACA
1 ATAAT-AAATATCTATTTAATAA-CAAATATAAATAATACAAATGTACTCATATAAATT-ATACA
** * *
43794453 CTTGTATTTTATTTTTACCTTACACTTGTC-T-TTTCTTAATTTATTTCATAATATAA
63 CTTGTATTTTATCATCACCATACACTTGTCATATTTC--AATTTATTTCATAATATAA
43794509 TAATATAATC
Statistics
Matches: 100, Mismatches: 15, Indels: 9
0.81 0.12 0.07
Matches are distributed among these distances:
142 9 0.09
143 15 0.15
144 40 0.40
145 36 0.36
ACGTcount: A:0.40, C:0.12, G:0.03, T:0.45
Consensus pattern (142 bp):
ATAATAAATATCTATTTAATAACAAATATAAATAATACAAATGTACTCATATAAATTATACACTT
GTATTTTATCATCACCATACACTTGTCATATTTCAATTTATTTCATAATATAAAAATCTTTTACT
AATTAGTAATGA
Found at i:43794513 original size:8 final size:8
Alignment explanation
Indices: 43794500--43794552 Score: 51
Period size: 8 Copynumber: 7.0 Consensus size: 8
43794490 AATTTATTTC
43794500 ATAATATA
1 ATAATATA
43794508 ATAATATA
1 ATAATATA
43794516 ATCAAT-T-
1 AT-AATATA
*
43794523 -TAAT-TT
1 ATAATATA
43794529 ATAATATA
1 ATAATATA
*
43794537 ATAAAATA
1 ATAATATA
43794545 ATAATATA
1 ATAATATA
43794553 TTTTATTATT
Statistics
Matches: 38, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
5 4 0.11
6 1 0.03
7 4 0.11
8 26 0.68
9 3 0.08
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (8 bp):
ATAATATA
Found at i:43794532 original size:29 final size:29
Alignment explanation
Indices: 43794490--43794555 Score: 91
Period size: 29 Copynumber: 2.3 Consensus size: 29
43794480 GTCTTTTCTT
*
43794490 AATTTATTTCATAATATAATAATATAATC
1 AATTTATTTCATAATATAATAAAATAATC
43794519 AATTTAATTT-ATAATATAATAAAATAAT-
1 AATTT-ATTTCATAATATAATAAAATAATC
*
43794547 AATATATTT
1 AATTTATTT
43794556 TATTATTAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
27 4 0.12
28 4 0.12
29 22 0.65
30 4 0.12
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (29 bp):
AATTTATTTCATAATATAATAAAATAATC
Found at i:43794639 original size:15 final size:15
Alignment explanation
Indices: 43794619--43794648 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
43794609 ATTAGAATAG
*
43794619 GCTTAATTTCCTATT
1 GCTTAATTGCCTATT
43794634 GCTTAATTGCCTATT
1 GCTTAATTGCCTATT
43794649 TAGTCCCCCT
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:0.20, C:0.20, G:0.10, T:0.50
Consensus pattern (15 bp):
GCTTAATTGCCTATT
Found at i:43799221 original size:24 final size:24
Alignment explanation
Indices: 43799187--43799238 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
43799177 TTTCAAGAAG
* **
43799187 ATTTAGTATTTATGAGTATAATAT
1 ATTTAGCATTTATGAACATAATAT
*
43799211 ATTTAGCATTTATTAACATAATAT
1 ATTTAGCATTTATGAACATAATAT
43799235 ATTT
1 ATTT
43799239 GACTTTGATT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.38, C:0.04, G:0.08, T:0.50
Consensus pattern (24 bp):
ATTTAGCATTTATGAACATAATAT
Found at i:43801560 original size:51 final size:52
Alignment explanation
Indices: 43801500--43801718 Score: 223
Period size: 51 Copynumber: 4.3 Consensus size: 52
43801490 CGGTGGTTTG
* * *
43801500 CACATAGTACCACCCATGTGACCATTGTC-ATCTGATACACGTAGTAGCCTA
1 CACATAGTACTACACATGTGACCATTGTCTATCCGATACACGTAGTAGCCTA
* * * * * *
43801551 CACATAGTACTACACATGTGATCA-AG-CTTTCCGGTTCACGTACTAGCCTA
1 CACATAGTACTACACATGTGACCATTGTCTATCCGATACACGTAGTAGCCTA
* * * * * *
43801601 CACATAGTACTACACACGTGACCA-AGGCCATCCGATACACATAGTAGCCTG
1 CACATAGTACTACACATGTGACCATTGTCTATCCGATACACGTAGTAGCCTA
* * *
43801652 CACATAGTACTACACATGTGACCATTATCTAT-AGATACACGTAGTAGCCTG
1 CACATAGTACTACACATGTGACCATTGTCTATCCGATACACGTAGTAGCCTA
* *
43801703 CACTTATTACTACACA
1 CACATAGTACTACACA
43801719 CGTGTTCATA
Statistics
Matches: 138, Mismatches: 27, Indels: 6
0.81 0.16 0.04
Matches are distributed among these distances:
49 1 0.01
50 42 0.30
51 92 0.67
52 3 0.02
ACGTcount: A:0.32, C:0.28, G:0.15, T:0.25
Consensus pattern (52 bp):
CACATAGTACTACACATGTGACCATTGTCTATCCGATACACGTAGTAGCCTA
Found at i:43809530 original size:39 final size:39
Alignment explanation
Indices: 43809476--43809555 Score: 160
Period size: 39 Copynumber: 2.1 Consensus size: 39
43809466 CTTTGAGCTC
43809476 TTAGTAAGTTCATGTAACAAAAATTATACTTACCTAATA
1 TTAGTAAGTTCATGTAACAAAAATTATACTTACCTAATA
43809515 TTAGTAAGTTCATGTAACAAAAATTATACTTACCTAATA
1 TTAGTAAGTTCATGTAACAAAAATTATACTTACCTAATA
43809554 TT
1 TT
43809556 TTCAATACAA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 41 1.00
ACGTcount: A:0.42, C:0.12, G:0.07, T:0.38
Consensus pattern (39 bp):
TTAGTAAGTTCATGTAACAAAAATTATACTTACCTAATA
Found at i:43817878 original size:31 final size:31
Alignment explanation
Indices: 43817840--43817929 Score: 162
Period size: 31 Copynumber: 2.9 Consensus size: 31
43817830 TTACCAGTCC
*
43817840 AGGCTAAATCCCCTGTAATATAAACTCATAG
1 AGGCTAAATCCCTTGTAATATAAACTCATAG
43817871 AGGCTAAATCCCTTGTAATATAAACTCATAG
1 AGGCTAAATCCCTTGTAATATAAACTCATAG
*
43817902 AGGCTAAATCCCTTGTAATACAAACTCA
1 AGGCTAAATCCCTTGTAATATAAACTCA
43817930 ACATTCAACT
Statistics
Matches: 57, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 57 1.00
ACGTcount: A:0.39, C:0.22, G:0.12, T:0.27
Consensus pattern (31 bp):
AGGCTAAATCCCTTGTAATATAAACTCATAG
Found at i:43820583 original size:50 final size:49
Alignment explanation
Indices: 43820511--43820698 Score: 223
Period size: 51 Copynumber: 3.7 Consensus size: 49
43820501 TGTCATCTGA
* * *
43820511 TACAAGTAGTAGCCTACACATAGTACTACACACGTGATCAAGCTTTCAGG
1 TACACGTAGTAGCCTGCACATAGTACTACACACGTGACCAAGCTTTC-GG
* *
43820561 TGCACGTAGTAGCCTGCACATAGTACTACACACGTGACCAAGGCATTCCGG
1 TACACGTAGTAGCCTGCACATAGTACTACACACGTGACCAA-GC-TTTCGG
* * * * *
43820612 TACACATAGGAGCCTGCACATAGTACTACACATGTGACCATTATCTATCGG
1 TACACGTAGTAGCCTGCACATAGTACTACACACGTGACCA--AGCTTTCGG
* *
43820663 TACACGTAGTAGGCTGCACTTAGTACTACACACGTG
1 TACACGTAGTAGCCTGCACATAGTACTACACACGTG
43820699 TTCATAAGTA
Statistics
Matches: 117, Mismatches: 17, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
50 37 0.32
51 75 0.64
52 4 0.03
53 1 0.01
ACGTcount: A:0.30, C:0.26, G:0.20, T:0.23
Consensus pattern (49 bp):
TACACGTAGTAGCCTGCACATAGTACTACACACGTGACCAAGCTTTCGG
Done.