Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032253.1 Gossypioides kirkii chromosome KI_11
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: 55708359
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 2600 characters in sequence are not A, C, G, or T
File 165 of 182
Found at i:50142782 original size:12 final size:12
Alignment explanation
Indices: 50142767--50142820 Score: 92
Period size: 12 Copynumber: 4.6 Consensus size: 12
50142757 TTTTTTTCTT
50142767 TTTTTTCCTCAA
1 TTTTTTCCTCAA
50142779 TTTTTTCCTCAA
1 TTTTTTCCTCAA
50142791 TTTTTTCCTCAA
1 TTTTTTCCTCAA
*
50142803 TTTTTT-TTCAA
1 TTTTTTCCTCAA
50142814 TTTTTTC
1 TTTTTTC
50142821 GATTTTTTTT
Statistics
Matches: 40, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
11 10 0.25
12 30 0.75
ACGTcount: A:0.15, C:0.20, G:0.00, T:0.65
Consensus pattern (12 bp):
TTTTTTCCTCAA
Found at i:50143766 original size:5 final size:5
Alignment explanation
Indices: 50143756--50143810 Score: 56
Period size: 5 Copynumber: 9.8 Consensus size: 5
50143746 ATTGCATAAT
50143756 TAAAA TAAAA TTAAAAA TAAAA TAAAA TAAAA CTAAAAA TGAAAA TGAAAA
1 TAAAA TAAAA -T-AAAA TAAAA TAAAA TAAAA -T-AAAA T-AAAA T-AAAA
50143807 TAAA
1 TAAA
50143811 TATACTATTT
Statistics
Matches: 45, Mismatches: 1, Indels: 8
0.83 0.02 0.15
Matches are distributed among these distances:
5 22 0.49
6 15 0.33
7 8 0.18
ACGTcount: A:0.75, C:0.02, G:0.04, T:0.20
Consensus pattern (5 bp):
TAAAA
Found at i:50143776 original size:6 final size:6
Alignment explanation
Indices: 50143757--50143810 Score: 58
Period size: 6 Copynumber: 9.3 Consensus size: 6
50143747 TTGCATAATT
* * * *
50143757 AAAATA AAATTA AAAAT- AAAAT- AAAATA AAACTA AAAATG AAAATG
1 AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA
50143803 AAAATA AA
1 AAAATA AA
50143811 TATACTATTT
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
5 10 0.24
6 31 0.76
ACGTcount: A:0.76, C:0.02, G:0.04, T:0.19
Consensus pattern (6 bp):
AAAATA
Found at i:50143776 original size:17 final size:16
Alignment explanation
Indices: 50143756--50143810 Score: 65
Period size: 17 Copynumber: 3.2 Consensus size: 16
50143746 ATTGCATAAT
50143756 TAAAATAAAATTAAAAA
1 TAAAATAAAA-TAAAAA
*
50143773 TAAAATAAAATAAAAC
1 TAAAATAAAATAAAAA
*
50143789 TAAAAATGAAAATGAAAA
1 T-AAAAT-AAAATAAAAA
50143807 TAAA
1 TAAA
50143811 TATACTATTT
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
16 6 0.18
17 18 0.55
18 9 0.27
ACGTcount: A:0.75, C:0.02, G:0.04, T:0.20
Consensus pattern (16 bp):
TAAAATAAAATAAAAA
Found at i:50143853 original size:10 final size:11
Alignment explanation
Indices: 50143827--50143852 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
50143817 ATTTTTTTAA
50143827 TTTTTCAAATT
1 TTTTTCAAATT
50143838 TTTTTCAAATT
1 TTTTTCAAATT
50143849 TTTT
1 TTTT
50143853 CCATTTTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.23, C:0.08, G:0.00, T:0.69
Consensus pattern (11 bp):
TTTTTCAAATT
Found at i:50152746 original size:95 final size:96
Alignment explanation
Indices: 50152625--50152806 Score: 262
Period size: 95 Copynumber: 1.9 Consensus size: 96
50152615 ATGCATATTT
* *
50152625 AATATATAAACTAAATAAATTAATAGTTAATATATAAGTAAATAAATATAAA-AGGA-TTA-AAA
1 AATACATAAACTAAACAAATTAATAGTTAATATATAAGTAAATAAATATAAATA--ATTTATAAA
*
50152687 AAATAAAAGAATCAAAACGGTGATATATATATA
64 AAATAAAAAAATCAAAACGGTGATATATATATA
* * *
50152720 AATACATAAACTAAGCAAGTTAATAGTTAATATATAAGTAAATAAATATAAATAATTTATTTAAA
1 AATACATAAACTAAACAAATTAATAGTTAATATATAAGTAAATAAATATAAATAATTTA-TAAAA
50152785 AATAAAAAAATCAAAACGGTGA
65 AATAAAAAAATCAAAACGGTGA
50152807 GAGGAAATTA
Statistics
Matches: 77, Mismatches: 6, Indels: 6
0.87 0.07 0.07
Matches are distributed among these distances:
94 1 0.01
95 51 0.66
96 1 0.01
97 24 0.31
ACGTcount: A:0.59, C:0.04, G:0.08, T:0.29
Consensus pattern (96 bp):
AATACATAAACTAAACAAATTAATAGTTAATATATAAGTAAATAAATATAAATAATTTATAAAAA
ATAAAAAAATCAAAACGGTGATATATATATA
Found at i:50155210 original size:208 final size:209
Alignment explanation
Indices: 50154833--50155297 Score: 603
Period size: 208 Copynumber: 2.2 Consensus size: 209
50154823 TATTTGTTTT
** * ** *
50154833 ACCCTACTTCTCTACATCTCATCAAGAAA-ATGGGGGTTTGAAGTTTTACTCGTATTGAGCTTTA
1 ACCC-ACTTCTCTGTATCTCATC-AGAAAGATGGGGGTTTGAAGTTTCACTCACATTGAGCTTCA
* * * *
50154897 CTTCATTGATTTGGTCTACTTCTCTGTGTCTCATCAGGAAGATGACCGACTCATTGTTTCAATCC
64 CTTCATCGATTTGGTCTACTTCTCAGTATCTCATCAGGAAGATAACCGACTCATTGTTTCAATCC
* * * * * *
50154962 ACTTCTCTATATCTCATCAAGAAGACGAATTTGGTTCACTTTTCTATATCTCATTAGGAAGGTGA
129 ACTTCTCTATATCTCATCAAGAAGACGAATTTGATTCACTTCTCTACATCTCATCAAGAAGATGA
** *
50155027 CCGTTTTATTGCTTTG
194 CCACTTTATTACTTTG
* *
50155043 ACCCACTTCTCTGTATCTTATCAGAAAGATGGGGGTTTGAAGTTTCACTCACATTGAGCTTCGCT
1 ACCCACTTCTCTGTATCTCATCAGAAAGATGGGGGTTTGAAGTTTCACTCACATTGAGCTTCACT
*
50155108 TCATCGATTTGGTCTAC-TCTCAGTATCTCATCAGGAAGATAACCGCCTCATTGTTTCAATCCAC
66 TCATCGATTTGGTCTACTTCTCAGTATCTCATCAGGAAGATAACCGACTCATTGTTTCAATCCAC
* * * * * *
50155172 TTCTCTGTATCTCATCAGGAAGATGGATTTGATTCACTTCTCTACATCTCGTCAAGAAGATGATC
131 TTCTCTATATCTCATCAAGAAGACGAATTTGATTCACTTCTCTACATCTCATCAAGAAGATGACC
*
50155237 ACTTTATTATTTTG
196 ACTTTATTACTTTG
* *
50155251 ACCCACTTCTCTGTATCTCATTAGGAAGAT-GGGGTGTTGAAGTTTCA
1 ACCCACTTCTCTGTATCTCATCAGAAAGATGGGGGT-TTGAAGTTTCA
50155298 TCTTGCTCTT
Statistics
Matches: 221, Mismatches: 32, Indels: 6
0.85 0.12 0.02
Matches are distributed among these distances:
207 5 0.02
208 149 0.67
209 63 0.29
210 4 0.02
ACGTcount: A:0.24, C:0.22, G:0.17, T:0.37
Consensus pattern (209 bp):
ACCCACTTCTCTGTATCTCATCAGAAAGATGGGGGTTTGAAGTTTCACTCACATTGAGCTTCACT
TCATCGATTTGGTCTACTTCTCAGTATCTCATCAGGAAGATAACCGACTCATTGTTTCAATCCAC
TTCTCTATATCTCATCAAGAAGACGAATTTGATTCACTTCTCTACATCTCATCAAGAAGATGACC
ACTTTATTACTTTG
Found at i:50155544 original size:50 final size:50
Alignment explanation
Indices: 50155489--50155719 Score: 140
Period size: 49 Copynumber: 4.7 Consensus size: 50
50155479 TCGCCGTTGT
50155489 GGCCTCAACCTTTCCCTTCATGTCTTCATTGGTACCGGATTCACCATTGC
1 GGCCTCAACCTTTCCCTTCATGTCTTCATTGGTACCGGATTCACCATTGC
* ** * * * *
50155539 GGCCTCAA-CTTTTCCTATCA-CACTTCA-TGGTATCGAATTCATCATTGT
1 GGCCTCAACCTTTCCCT-TCATGTCTTCATTGGTACCGGATTCACCATTGC
* * * * * * *
50155587 GGCCTTAATCC-CT-CCTATCACGTCTTC-TGAGGTACCGGGTTCACCGTTGT
1 GGCCTCAA-CCTTTCCCT-TCATGTCTTCAT-TGGTACCGGATTCACCATTGC
* * *
50155637 GGCCTCAACCTTTCCCTT--TGT-TTCTTTGTGGTACCGGATTCATCGTTGC
1 GGCCTCAACCTTTCCCTTCATGTCTTC-AT-TGGTACCGGATTCACCATTGC
* * * *
50155686 GACCTCAATCTTTCTCTTCATTATCTTCA-TGGTA
1 GGCCTCAACCTTTCCCTTCA-TGTCTTCATTGGTA
50155720 TCGGGTTCGT
Statistics
Matches: 138, Mismatches: 29, Indels: 28
0.71 0.15 0.14
Matches are distributed among these distances:
47 3 0.02
48 33 0.24
49 53 0.38
50 41 0.30
51 3 0.02
52 2 0.01
53 3 0.02
ACGTcount: A:0.16, C:0.30, G:0.16, T:0.37
Consensus pattern (50 bp):
GGCCTCAACCTTTCCCTTCATGTCTTCATTGGTACCGGATTCACCATTGC
Found at i:50156783 original size:16 final size:18
Alignment explanation
Indices: 50156762--50156807 Score: 64
Period size: 16 Copynumber: 2.8 Consensus size: 18
50156752 TTGACCTCTC
50156762 CTTTTTC-TTTTT-ATTT
1 CTTTTTCATTTTTCATTT
50156778 CTTTTTCATTTTTCA-TT
1 CTTTTTCATTTTTCATTT
50156795 -TTTTTCATTTTTC
1 CTTTTTCATTTTTC
50156808 TCTTTTTTCT
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
16 20 0.71
17 7 0.25
18 1 0.04
ACGTcount: A:0.09, C:0.15, G:0.00, T:0.76
Consensus pattern (18 bp):
CTTTTTCATTTTTCATTT
Found at i:50156796 original size:23 final size:23
Alignment explanation
Indices: 50156763--50156807 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
50156753 TGACCTCTCC
*
50156763 TTTTTCTTTTTATTTC-TTTTTCA
1 TTTTTCATTTT-TTTCATTTTTCA
50156786 TTTTTCATTTTTTTCATTTTTC
1 TTTTTCATTTTTTTCATTTTTC
50156808 TCTTTTTTCT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 4 0.20
23 16 0.80
ACGTcount: A:0.09, C:0.13, G:0.00, T:0.78
Consensus pattern (23 bp):
TTTTTCATTTTTTTCATTTTTCA
Found at i:50156813 original size:16 final size:16
Alignment explanation
Indices: 50156779--50156816 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
50156769 TTTTTATTTC
50156779 TTTTTCATTTTTCATT
1 TTTTTCATTTTTCATT
50156795 TTTTTCATTTTTC-TCT
1 TTTTTCATTTTTCAT-T
50156811 TTTTTC
1 TTTTTC
50156817 TTTGTTTGGG
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
15 1 0.05
16 20 0.95
ACGTcount: A:0.08, C:0.16, G:0.00, T:0.76
Consensus pattern (16 bp):
TTTTTCATTTTTCATT
Found at i:50157305 original size:16 final size:16
Alignment explanation
Indices: 50157264--50157305 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
50157254 GAAACAGAAT
50157264 TAAAAATAAAAGAAAG
1 TAAAAATAAAAGAAAG
* *
50157280 TATAATTAAAAGAAA-
1 TAAAAATAAAAGAAAG
50157295 TAGAAAATAAA
1 TA-AAAATAAA
50157306 GAAGTTGAAG
Statistics
Matches: 21, Mismatches: 4, Indels: 2
0.78 0.15 0.07
Matches are distributed among these distances:
15 2 0.10
16 19 0.90
ACGTcount: A:0.71, C:0.00, G:0.10, T:0.19
Consensus pattern (16 bp):
TAAAAATAAAAGAAAG
Found at i:50158123 original size:19 final size:19
Alignment explanation
Indices: 50158099--50158141 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
50158089 AAACATAAAT
50158099 TAAATACAAAT-TTAAATAA
1 TAAATA-AAATCTTAAATAA
* *
50158118 TAAATAATATCTTAAATAT
1 TAAATAAAATCTTAAATAA
50158137 TAAAT
1 TAAAT
50158142 CCTAATATAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 3 0.14
19 18 0.86
ACGTcount: A:0.58, C:0.05, G:0.00, T:0.37
Consensus pattern (19 bp):
TAAATAAAATCTTAAATAA
Found at i:50164729 original size:17 final size:17
Alignment explanation
Indices: 50164681--50164729 Score: 55
Period size: 18 Copynumber: 2.8 Consensus size: 17
50164671 GTTTTTTTTT
*
50164681 ATTTTAATGTAAATGGAC
1 ATTTTAAT-TAAATAGAC
50164699 ATTTTAAATTAAATAGA-
1 ATTTT-AATTAAATAGAC
50164716 ATTTTAATTCAAAT
1 ATTTTAATT-AAAT
50164730 TTTTTTATTT
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
16 4 0.14
17 9 0.32
18 12 0.43
19 3 0.11
ACGTcount: A:0.45, C:0.04, G:0.08, T:0.43
Consensus pattern (17 bp):
ATTTTAATTAAATAGAC
Found at i:50167101 original size:2 final size:2
Alignment explanation
Indices: 50167094--50167118 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
50167084 ATTTTACTTT
50167094 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
50167119 TTTTTATTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:50174849 original size:2 final size:2
Alignment explanation
Indices: 50174842--50174870 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
50174832 ATAGAAACAT
50174842 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
50174871 TCAAAAAGAG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:50182777 original size:28 final size:27
Alignment explanation
Indices: 50182746--50182798 Score: 72
Period size: 28 Copynumber: 1.9 Consensus size: 27
50182736 CCAAAAGCTA
50182746 ATTA-ATAATATATAACAACTAAAAAGAG
1 ATTACATAA-ATATAACAAC-AAAAAGAG
*
50182774 ATTACATAAATGTAACAACAAAAAG
1 ATTACATAAATATAACAACAAAAAG
50182799 GAGAATAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
27 6 0.26
28 13 0.57
29 4 0.17
ACGTcount: A:0.60, C:0.09, G:0.08, T:0.23
Consensus pattern (27 bp):
ATTACATAAATATAACAACAAAAAGAG
Found at i:50203294 original size:27 final size:29
Alignment explanation
Indices: 50203235--50203295 Score: 81
Period size: 29 Copynumber: 2.2 Consensus size: 29
50203225 AAAAGTGTTT
* *
50203235 AAAATTTTAAAAAATATATATAAATTATT
1 AAAATTTCAAAAAATATATATAAATTATA
*
50203264 AAAATTTCAGAAAATATATAT-AA-TATA
1 AAAATTTCAAAAAATATATATAAATTATA
50203291 AAAAT
1 AAAAT
50203296 GGTAAAAAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
27 8 0.28
28 2 0.07
29 19 0.66
ACGTcount: A:0.61, C:0.02, G:0.02, T:0.36
Consensus pattern (29 bp):
AAAATTTCAAAAAATATATATAAATTATA
Found at i:50203304 original size:27 final size:28
Alignment explanation
Indices: 50203242--50203304 Score: 67
Period size: 27 Copynumber: 2.2 Consensus size: 28
50203232 TTTAAAATTT
* *
50203242 TAAAAAATATATATAAATTATTAAAATT
1 TAAAAAATATATATAAATTATAAAAATG
*
50203270 TCAGAAAATATATAT-AA-TATAAAAATGG
1 T-AAAAAATATATATAAATTATAAAAAT-G
50203298 TAAAAAA
1 TAAAAAA
50203305 AGTAAAAATA
Statistics
Matches: 29, Mismatches: 4, Indels: 5
0.76 0.11 0.13
Matches are distributed among these distances:
27 13 0.45
28 4 0.14
29 12 0.41
ACGTcount: A:0.62, C:0.02, G:0.05, T:0.32
Consensus pattern (28 bp):
TAAAAAATATATATAAATTATAAAAATG
Found at i:50204078 original size:15 final size:15
Alignment explanation
Indices: 50204058--50204087 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
50204048 TTAAATCCAA
*
50204058 TTTTAACTTTTAATT
1 TTTTAAATTTTAATT
50204073 TTTTAAATTTTAATT
1 TTTTAAATTTTAATT
50204088 CATGATTGAA
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:0.30, C:0.03, G:0.00, T:0.67
Consensus pattern (15 bp):
TTTTAAATTTTAATT
Found at i:50204154 original size:17 final size:16
Alignment explanation
Indices: 50204129--50204186 Score: 62
Period size: 17 Copynumber: 3.4 Consensus size: 16
50204119 AACTTTTCTT
50204129 TTAAGTTTAAATTTAAA
1 TTAA-TTTAAATTTAAA
*
50204146 TTAACTTTAAATTTAAT
1 TTAA-TTTAAATTTAAA
*
50204163 TTGAATTTAAGTTTAAAA
1 TT-AATTTAAATTT-AAA
50204181 TTAATT
1 TTAATT
50204187 AAAAAAAGGT
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
17 29 0.83
18 6 0.17
ACGTcount: A:0.43, C:0.02, G:0.05, T:0.50
Consensus pattern (16 bp):
TTAATTTAAATTTAAA
Found at i:50204160 original size:23 final size:24
Alignment explanation
Indices: 50204128--50204184 Score: 64
Period size: 23 Copynumber: 2.5 Consensus size: 24
50204118 AAACTTTTCT
*
50204128 TTTAAGTTTAAATTT-AAATTAAC
1 TTTAAATTTAAATTTGAAATTAAC
* *
50204151 TTTAAATTT-AATTTGAATTTAAG
1 TTTAAATTTAAATTTGAAATTAAC
*
50204174 TTTAAAATTAA
1 TTTAAATTTAA
50204185 TTAAAAAAAG
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
22 5 0.18
23 22 0.79
24 1 0.04
ACGTcount: A:0.44, C:0.02, G:0.05, T:0.49
Consensus pattern (24 bp):
TTTAAATTTAAATTTGAAATTAAC
Found at i:50205645 original size:29 final size:29
Alignment explanation
Indices: 50205566--50205781 Score: 193
Period size: 30 Copynumber: 7.3 Consensus size: 29
50205556 CTAAACTGTC
*
50205566 CAAAAATTATATTTTGACCCCT-AAACTTCT
1 CAAAAATTATATTTTTA-CCCTAAAACTT-T
* *
50205596 CTAAAATTATATTTTTGACCCTAAAACTTA
1 CAAAAATTATATTTTT-ACCCTAAAACTTT
*
50205626 CAAAAATTACATTTTTACCCTAAAACTTT
1 CAAAAATTATATTTTTACCCTAAAACTTT
*
50205655 CAAAAATTATATTTTTGTCCCTAAAACTTT
1 CAAAAATTATATTTTT-ACCCTAAAACTTT
* * * * *
50205685 TAGAAAATTACATTTTAACCCTGAAACTTC
1 CA-AAAATTATATTTTTACCCTAAAACTTT
* **
50205715 CAAAAATTATGTTTTTACCCTCGAAC-TT
1 CAAAAATTATATTTTTACCCTAAAACTTT
* * * *
50205743 CTAAAAATTCTATTTTCGATCCTGAAACTTT
1 C-AAAAATTATATTTT-TACCCTAAAACTTT
*
50205774 TAAAAATT
1 CAAAAATT
50205782 TCAATGTCAT
Statistics
Matches: 151, Mismatches: 28, Indels: 14
0.78 0.15 0.07
Matches are distributed among these distances:
28 2 0.01
29 58 0.38
30 70 0.46
31 21 0.14
ACGTcount: A:0.38, C:0.19, G:0.04, T:0.39
Consensus pattern (29 bp):
CAAAAATTATATTTTTACCCTAAAACTTT
Found at i:50205663 original size:89 final size:87
Alignment explanation
Indices: 50205566--50205758 Score: 217
Period size: 89 Copynumber: 2.2 Consensus size: 87
50205556 CTAAACTGTC
** * *
50205566 CAAAAATTATATTTTGACCCCT-AAACTTCTCTAAAATTATATTTTTGACCCTAAAACTTACAAA
1 CAAAAATTATATTTTG-CCCCTAAAACTTCTAGAAAATTACA-TTTTAACCCTAAAACTTACAAA
50205630 AATTACATTTTTACCCTAAAACTTT
64 AATTACATTTTTACCCTAAAAC-TT
* * * *
50205655 CAAAAATTATATTTTTGTCCCTAAAACTTTTAGAAAATTACATTTTAACCCTGAAACTTCCAAAA
1 CAAAAATTATA-TTTTGCCCCTAAAACTTCTAGAAAATTACATTTTAACCCTAAAACTTACAAAA
** **
50205720 ATTATGTTTTTACCCTCGAACTT
65 ATTACATTTTTACCCTAAAACTT
*
50205743 CTAAAAATTCTATTTT
1 C-AAAAATTATATTTT
50205759 CGATCCTGAA
Statistics
Matches: 88, Mismatches: 13, Indels: 7
0.81 0.12 0.06
Matches are distributed among these distances:
88 7 0.08
89 61 0.69
90 20 0.23
ACGTcount: A:0.38, C:0.19, G:0.04, T:0.39
Consensus pattern (87 bp):
CAAAAATTATATTTTGCCCCTAAAACTTCTAGAAAATTACATTTTAACCCTAAAACTTACAAAAA
TTACATTTTTACCCTAAAACTT
Found at i:50207157 original size:28 final size:29
Alignment explanation
Indices: 50207122--50207185 Score: 76
Period size: 29 Copynumber: 2.2 Consensus size: 29
50207112 AAACGAGACT
*
50207122 TTTTGGACAC-CCAAGGGTAAAATAGTAA
1 TTTTGGACACTCCAAGGGCAAAATAGTAA
* * * *
50207150 TTTTGGACTCTCGAGGGGCAAAATGGTAA
1 TTTTGGACACTCCAAGGGCAAAATAGTAA
50207179 TTTTGGA
1 TTTTGGA
50207186 AAAATTTAGG
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
28 9 0.30
29 21 0.70
ACGTcount: A:0.31, C:0.12, G:0.27, T:0.30
Consensus pattern (29 bp):
TTTTGGACACTCCAAGGGCAAAATAGTAA
Found at i:50207317 original size:29 final size:29
Alignment explanation
Indices: 50207285--50207474 Score: 188
Period size: 29 Copynumber: 6.5 Consensus size: 29
50207275 ATCCGAAGGT
*
50207285 AAAATGGTAA-TTTTGGGAGTTTTGGGGTC
1 AAAAT-GTAATTTTTGGAAGTTTTGGGGTC
* *
50207314 AAAATGGAATTTTTGGAAGTTTTAGGGTC
1 AAAATGTAATTTTTGGAAGTTTTGGGGTC
* * * * *
50207343 AAAAATGGAATTTTTGGAAG-ATCGAGAGTA
1 -AAAATGTAATTTTTGGAAGTTTTG-GGGTC
* *
50207373 AAAATGTAATTTTTAGAAGTTTAT-TGGTC
1 AAAATGTAATTTTTGGAAGTTT-TGGGGTC
50207402 AAAATGTAATTTTTGGAAGTTTTGGGGTC
1 AAAATGTAATTTTTGGAAGTTTTGGGGTC
* * *
50207431 AAAAATGTAATTTTTGAAAGTTTAGGGGTT
1 -AAAATGTAATTTTTGGAAGTTTTGGGGTC
*
50207461 AAAATATAATTTTT
1 AAAATGTAATTTTT
50207475 AAATAGTTTA
Statistics
Matches: 133, Mismatches: 21, Indels: 14
0.79 0.12 0.08
Matches are distributed among these distances:
28 4 0.03
29 80 0.60
30 49 0.37
ACGTcount: A:0.34, C:0.03, G:0.24, T:0.39
Consensus pattern (29 bp):
AAAATGTAATTTTTGGAAGTTTTGGGGTC
Found at i:50207435 original size:59 final size:58
Alignment explanation
Indices: 50207285--50207474 Score: 192
Period size: 59 Copynumber: 3.2 Consensus size: 58
50207275 ATCCGAAGGT
* *
50207285 AAAATGGTAA-TTTTGGGAGTTTTGGGGTC-AAAATGGAATTTTTGGAAGTTT-TAGGGTC
1 AAAAT-GTAATTTTTGGAAGTTTTGGGGTCAAAAATGTAATTTTT-GAAGTTTAT-GGGTC
* * * * *
50207343 AAAAATGGAATTTTTGGAAG-ATCGAGAGT-AAAAATGTAATTTTTAGAAGTTTATTGGTC
1 -AAAATGTAATTTTTGGAAGTTTTG-GGGTCAAAAATGTAATTTTT-GAAGTTTATGGGTC
* *
50207402 AAAATGTAATTTTTGGAAGTTTTGGGGTCAAAAATGTAATTTTTGAAAGTTTAGGGGTT
1 AAAATGTAATTTTTGGAAGTTTTGGGGTCAAAAATGTAATTTTTG-AAGTTTATGGGTC
*
50207461 AAAATATAATTTTT
1 AAAATGTAATTTTT
50207475 AAATAGTTTA
Statistics
Matches: 108, Mismatches: 16, Indels: 14
0.78 0.12 0.10
Matches are distributed among these distances:
58 27 0.25
59 80 0.74
60 1 0.01
ACGTcount: A:0.34, C:0.03, G:0.24, T:0.39
Consensus pattern (58 bp):
AAAATGTAATTTTTGGAAGTTTTGGGGTCAAAAATGTAATTTTTGAAGTTTATGGGTC
Found at i:50207483 original size:30 final size:29
Alignment explanation
Indices: 50207370--50207487 Score: 128
Period size: 29 Copynumber: 4.0 Consensus size: 29
50207360 AAGATCGAGA
* **
50207370 GTAAAAATGTAATTTTTAGAAGTTTATTG
1 GTAAAAATGTAATTTTTAAAAGTTTAGGG
* ** *
50207399 GTCAAAATGTAATTTTTGGAAGTTTTGGG
1 GTAAAAATGTAATTTTTAAAAGTTTAGGG
*
50207428 GTCAAAAATGTAATTTTTGAAAGTTTAGGG
1 GT-AAAAATGTAATTTTTAAAAGTTTAGGG
* *
50207458 GTTAAAATATAATTTTTAAATAGTTTAGGG
1 GTAAAAATGTAATTTTTAAA-AGTTTAGGG
50207488 ACCTCTAGAG
Statistics
Matches: 76, Mismatches: 11, Indels: 3
0.84 0.12 0.03
Matches are distributed among these distances:
29 41 0.54
30 35 0.46
ACGTcount: A:0.36, C:0.02, G:0.21, T:0.42
Consensus pattern (29 bp):
GTAAAAATGTAATTTTTAAAAGTTTAGGG
Found at i:50208594 original size:17 final size:17
Alignment explanation
Indices: 50208572--50208607 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 17
50208562 TTCTTTTTTA
50208572 TATTAA-AAATTAATTAT
1 TATTAATAAA-TAATTAT
50208589 TATTAATAAATAATTAT
1 TATTAATAAATAATTAT
50208606 TA
1 TA
50208608 CTGCTATTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 15 0.83
18 3 0.17
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (17 bp):
TATTAATAAATAATTAT
Found at i:50209376 original size:12 final size:12
Alignment explanation
Indices: 50209361--50209410 Score: 50
Period size: 11 Copynumber: 4.3 Consensus size: 12
50209351 ACTTTTTTAA
50209361 TTAATTTTAAAT
1 TTAATTTTAAAT
* *
50209373 TTAAATTCAAA-
1 TTAATTTTAAAT
* *
50209384 TTAATTTTCAAC
1 TTAATTTTAAAT
50209396 TTAA-TTTAAAT
1 TTAATTTTAAAT
50209407 TTAA
1 TTAA
50209411 ACTTTAAAAG
Statistics
Matches: 30, Mismatches: 7, Indels: 3
0.75 0.17 0.08
Matches are distributed among these distances:
11 17 0.57
12 13 0.43
ACGTcount: A:0.44, C:0.06, G:0.00, T:0.50
Consensus pattern (12 bp):
TTAATTTTAAAT
Found at i:50209410 original size:23 final size:23
Alignment explanation
Indices: 50209359--50209407 Score: 64
Period size: 23 Copynumber: 2.2 Consensus size: 23
50209349 GGACTTTTTT
*
50209359 AATTAATTTTAAATTTAAATTCA
1 AATTAATTTTAAACTTAAATTCA
* *
50209382 AATTAATTTTCAACTT-AATTTA
1 AATTAATTTTAAACTTAAATTCA
50209404 AATT
1 AATT
50209408 TAAACTTTAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
22 9 0.39
23 14 0.61
ACGTcount: A:0.45, C:0.06, G:0.00, T:0.49
Consensus pattern (23 bp):
AATTAATTTTAAACTTAAATTCA
Found at i:50215482 original size:20 final size:20
Alignment explanation
Indices: 50215457--50215499 Score: 77
Period size: 20 Copynumber: 2.1 Consensus size: 20
50215447 TAAAAATACC
50215457 CAATCAAACAAATAATAAGG
1 CAATCAAACAAATAATAAGG
*
50215477 CAATCAAATAAATAATAAGG
1 CAATCAAACAAATAATAAGG
50215497 CAA
1 CAA
50215500 ATTAAAATGG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.60, C:0.14, G:0.09, T:0.16
Consensus pattern (20 bp):
CAATCAAACAAATAATAAGG
Found at i:50228750 original size:36 final size:36
Alignment explanation
Indices: 50228710--50228812 Score: 179
Period size: 36 Copynumber: 2.9 Consensus size: 36
50228700 TGTGAAAGTG
*
50228710 AATATGTGGGTATGTTCTTCATGCCATTTGATAGAA
1 AATATGTGGGTATGTTCTTCATGCCATGTGATAGAA
*
50228746 AATATGTGAGTATGTTCTTCATGCCATGTGATAGAA
1 AATATGTGGGTATGTTCTTCATGCCATGTGATAGAA
*
50228782 AATATGTGGGTATGTTCTTCGTGCCATGTGA
1 AATATGTGGGTATGTTCTTCATGCCATGTGA
50228813 CTAGTTATAT
Statistics
Matches: 63, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 63 1.00
ACGTcount: A:0.26, C:0.12, G:0.24, T:0.38
Consensus pattern (36 bp):
AATATGTGGGTATGTTCTTCATGCCATGTGATAGAA
Found at i:50232659 original size:614 final size:613
Alignment explanation
Indices: 50230943--50233198 Score: 3602
Period size: 614 Copynumber: 3.7 Consensus size: 613
50230933 TATATTTTAT
* ** * * *
50230943 ATTTTTCTAATGTTAAAGTGGTTAAAGGATTGAATGCGCAACTCAA-TCTTTCTTTTTTAAAGTC
1 ATTTTTCTAATGTTAAAGTAGTTAAAATATTGAATGCGC-A-TTAAGTCTCTCTTTCTTAAAGTC
* * * * * *
50231007 AAATGTATTATAATAAGAAACTAAAAGATTGTGAAGCTAATTAATAATAGATAACAAAATTCTAT
64 AAACGTATTATATTAATAAATTAAAATATTGTGAAGCTAATTAATAATGGATAACAAAATTCTAT
* * * * * * **
50231072 TGCAACTT-GAAGAGTTTGTTTAATTGTAACAATAAAAAGGAGAAGAAA-AATGATATGATACCT
129 TACAA-TTAGAAGAGATCGCTTAATTGTAAAAATAAAAA-AAGAA-AAAGAATGATACAATACCT
* * ** * * * * * *
50231135 GTTAAGTTGTTATTAGAAAACCCAATCATCTTGAGAGAAGTAAGGTTTCCAATAACTAGA-TAAC
191 ATTAAGTTGTTATAAGAAAAATCAATGACCTCGAGAGAAGTAAGATTTCCAATAACTAAAGGAA-
* * * * * *
50231199 TTTCACATGAAACATATAATTAAATTTGTCAAAATTTATTA--ATTTTTTTAGCAAGCTATTAAT
255 TTTCACCTGAAACATATAATTAAATTTGTCAAGATTCATTATTATTTTTCTACCAAGCCATTAAT
*
50231262 TTATTTTTTTGAGCATTATAGGCATCTATTATTCTTCATC-T-TT-TTAGTTTTTTAAAACTTGT
320 TTATTTTTTTAAGCATTATAGGCATCTATT-TTCTTCATCTTATTATTA-TTTTTTAAAACTTGT
50231324 AAATTGTATTCAATTTTATAGTACTTATAACAACAACTACAAATATGGACATGCATCATTCATGT
383 AAATTGTATTCAATTTTATAGTACTTATAACAACAACTACAAATATGGACATGCATCATTCATGT
* * *
50231389 TTTAAATGGTTTTAATAAAATTTAATATCGCATAAAAGAGTTTAAAAAATAAAATATTCCCATTC
448 TTTAAATGTTTTTAATAAAATCTAATATGGCATAAAAGAGTTTAAAAAATAAAATATTCCCATTC
*
50231454 TGAGTCCA-AATTTCATTCATTTGAGTTTAACTTTCAAATTCTTAAATCATTGAATTTAAGTAAT
513 TGAGTCCAGAA-TTCATTCATTTGAGTTTAACTTTCAAATTTTTAAATCATTGAATTTAAGTAAT
* **
50231518 TTTAATTCAAATTATTGTTTCTACTAATATTTCCTAC
577 TTTAATTTAAATTATTGACTCTACTAATATTTCCTAC
*
50231555 ATTTTTCTAATGTTAAAGTAGTTAAAATATTGAATGCGCCATTAAGTCTCTCTTT-TCTAAAGCC
1 ATTTTTCTAATGTTAAAGTAGTTAAAATATTGAATGCG-CATTAAGTCTCTCTTTCT-TAAAGTC
*
50231619 AAACATATTATATTAATAAATTAAAATATTGTGAAGCTAATTAATAATGGATAACAAAATTCTAT
64 AAACGTATTATATTAATAAATTAAAATATTGTGAAGCTAATTAATAATGGATAACAAAATTCTAT
* * * * * *
50231684 TACAATTAGAAGAGATTGCTTAATTGTAAAAATAAAAAGAGAAAAAAAAATTATATAATACCTGT
129 TACAATTAGAAGAGATCGCTTAATTGTAAAAATAAAAAAAG-AAAAAGAATGATACAATACCTAT
*
50231749 TAAGTTGTTATTAGAAAAA-CTAATGACCTCGAGAGAAGTAAGATTTCCAATAAC-AGAAGGAAT
193 TAAGTTGTTATAAGAAAAATC-AATGACCTCGAGAGAAGTAAGATTTCCAATAACTA-AAGGAAT
50231812 TTCACCTGAAACATATAATTAAATTTGTCAAGATTCATTATTATTTTTCTACCAAGCCATTAATT
256 TTCACCTGAAACATATAATTAAATTTGTCAAGATTCATTATTATTTTTCTACCAAGCCATTAATT
50231877 TATTTTTTTAAGCATTATAGGCATCTATTTTCTTCATCTTATTATTATTTTTTAAAACTTGTAAA
321 TATTTTTTTAAGCATTATAGGCATCTATTTTCTTCATCTTATTATTATTTTTTAAAACTTGTAAA
50231942 TTGTATTCAATTTTATAGTACTTATAACAACAACTACAAATATGGACATGCATCATTCATGTTTT
386 TTGTATTCAATTTTATAGTACTTATAACAACAACTACAAATATGGACATGCATCATTCATGTTTT
50232007 AAATGTTTTTAATAAAATCTAATATGGCATAAAAGAGTTTAAAAAATAAAATATTCCCATTCTGA
451 AAATGTTTTTAATAAAATCTAATATGGCATAAAAGAGTTTAAAAAATAAAATATTCCCATTCTGA
50232072 GTCCAGAATTCATTCATTTGAGTTTAACTTTCAAATTTTTAAATCATTGAATTTAAGTAATTTTA
516 GTCCAGAATTCATTCATTTGAGTTTAACTTTCAAATTTTTAAATCATTGAATTTAAGTAATTTTA
50232137 ATTTAAATTATTGACTCTACTAATATTTCCTAC
581 ATTTAAATTATTGACTCTACTAATATTTCCTAC
50232170 ATTTTTCTAATGTTAAAGTAGTTAAAATATTGAATGCGACATTAAGTCTCTCTTTCTTAAAGTCA
1 ATTTTTCTAATGTTAAAGTAGTTAAAATATTGAATGCG-CATTAAGTCTCTCTTTCTTAAAGTCA
* *
50232235 AACGTATTATATTAATAAATTAAAATATTGTGAAGTTAATTAATAATGGATAACAAAGTTCTATT
65 AACGTATTATATTAATAAATTAAAATATTGTGAAGCTAATTAATAATGGATAACAAAATTCTATT
50232300 ACAATTAGAAGAGATCGCTTAATTGTAAAAATAAAAAAAGAAAAAGAATGATACAATACCTATTA
130 ACAATTAGAAGAGATCGCTTAATTGTAAAAATAAAAAAAGAAAAAGAATGATACAATACCTATTA
* * *
50232365 AGTTGTTATAAGAAAAATCAATGGCCTTGAGAGAAATAAGATTTCCAATAACTAAAGGAATTTCA
195 AGTTGTTATAAGAAAAATCAATGACCTCGAGAGAAGTAAGATTTCCAATAACTAAAGGAATTTCA
* *
50232430 CCTGAAACATATAATTAAATTTGTCAATATTCATTATTACTTTTCTACCAAGCCATTAATTTATT
260 CCTGAAACATATAATTAAATTTGTCAAGATTCATTATTATTTTTCTACCAAGCCATTAATTTATT
50232495 TTTTTAAGCATTATAGGCATCTATTTTCTTCATCTTATTATTATTTTTTAAAACTTGTAAATTGT
325 TTTTTAAGCATTATAGGCATCTATTTTCTTCATCTTATTATTATTTTTTAAAACTTGTAAATTGT
*
50232560 TTTCAATTTTATAGTACTTATAACAACAACTACAAATATGGACATGCATCATTCATGTTTTAAAT
390 ATTCAATTTTATAGTACTTATAACAACAACTACAAATATGGACATGCATCATTCATGTTTTAAAT
* *
50232625 GTTTTTAATAAAATCTATTATGGCATAAAAGAGTTTAAAAAATAAAATATTCCCATTCTGAGTTC
455 GTTTTTAATAAAATCTAATATGGCATAAAAGAGTTTAAAAAATAAAATATTCCCATTCTGAGTCC
*
50232690 AGAATTCATTCATTTGAGTTTAACTTTCAAATTTTTAAATCATTGAATTTAAGCAATTTTAATTT
520 AGAATTCATTCATTTGAGTTTAACTTTCAAATTTTTAAATCATTGAATTTAAGTAATTTTAATTT
50232755 AAATTATTGACTCTACTAATATTTCCTAC
585 AAATTATTGACTCTACTAATATTTCCTAC
*
50232784 ATTTTTCTAATATTAAAGTAGTTAAAATATTGAATGCGTCATTAAGTCTCTCTTTCTTAAAGTCA
1 ATTTTTCTAATGTTAAAGTAGTTAAAATATTGAATGCG-CATTAAGTCTCTCTTTCTTAAAGTCA
* *
50232849 AACGTATTATATTAATAAATTAAAATATTGTGAAGTTAATTAATAATGGATAACAAAGTTCTATT
65 AACGTATTATATTAATAAATTAAAATATTGTGAAGCTAATTAATAATGGATAACAAAATTCTATT
*
50232914 ATAATTAGAAGAGATCGCTTAATTGTAAAAATAAAAAAAAGAAAAAGAATGATACAATACCTATT
130 ACAATTAGAAGAGATCGCTTAATTGTAAAAAT-AAAAAAAGAAAAAGAATGATACAATACCTATT
** *
50232979 AAGTTGTTATAAGAAAAATCAATGGTCTCGAGAGAAGTAAGATTTCCAATAACTGAAGGAATTTC
194 AAGTTGTTATAAGAAAAATCAATGACCTCGAGAGAAGTAAGATTTCCAATAACTAAAGGAATTTC
*
50233044 ACCTGAAACATATAATTAAATTTGTCAAGATTCATTATTATTTTTTCTAACAAGCCATTAATTTA
259 ACCTGAAACATATAATTAAATTTGTCAAGATTCATTATTA-TTTTTCTACCAAGCCATTAATTTA
*
50233109 TTTTTTTAAGCATTATAGGCATCTATTTTCTTCATCTTATTATTATTATTTAAAACTTGTAAATT
323 TTTTTTTAAGCATTATAGGCATCTATTTTCTTCATCTTATTATTATTTTTTAAAACTTGTAAATT
50233174 GTATTCAATTTTATAGTACTTATAA
388 GTATTCAATTTTATAGTACTTATAA
50233199 TAATTAGAAA
Statistics
Matches: 1551, Mismatches: 73, Indels: 36
0.93 0.04 0.02
Matches are distributed among these distances:
611 14 0.01
612 242 0.16
613 12 0.01
614 634 0.41
615 533 0.34
616 116 0.07
ACGTcount: A:0.39, C:0.11, G:0.10, T:0.39
Consensus pattern (613 bp):
ATTTTTCTAATGTTAAAGTAGTTAAAATATTGAATGCGCATTAAGTCTCTCTTTCTTAAAGTCAA
ACGTATTATATTAATAAATTAAAATATTGTGAAGCTAATTAATAATGGATAACAAAATTCTATTA
CAATTAGAAGAGATCGCTTAATTGTAAAAATAAAAAAAGAAAAAGAATGATACAATACCTATTAA
GTTGTTATAAGAAAAATCAATGACCTCGAGAGAAGTAAGATTTCCAATAACTAAAGGAATTTCAC
CTGAAACATATAATTAAATTTGTCAAGATTCATTATTATTTTTCTACCAAGCCATTAATTTATTT
TTTTAAGCATTATAGGCATCTATTTTCTTCATCTTATTATTATTTTTTAAAACTTGTAAATTGTA
TTCAATTTTATAGTACTTATAACAACAACTACAAATATGGACATGCATCATTCATGTTTTAAATG
TTTTTAATAAAATCTAATATGGCATAAAAGAGTTTAAAAAATAAAATATTCCCATTCTGAGTCCA
GAATTCATTCATTTGAGTTTAACTTTCAAATTTTTAAATCATTGAATTTAAGTAATTTTAATTTA
AATTATTGACTCTACTAATATTTCCTAC
Found at i:50241499 original size:613 final size:614
Alignment explanation
Indices: 50240185--50242105 Score: 3354
Period size: 613 Copynumber: 3.1 Consensus size: 614
50240175 CAAAAACCTT
50240185 TTATAGGCATCTATTATTCTTCATC-T-TT-TTAGTTTTTTAAAACTTGTAAATTGTATTCAATT
1 TTATAGGCATCTATT-TTCTTCATCTTATTATTA-TTTTTTAAAACTTGTAAATTGTATTCAATT
*
50240247 TTATAGTACTTATAACAACAACTACAAATATGGACATGCATCATTCATGTTTTAAATGGTTTTAA
64 TTATAGTACTTATAACAACAACTACAAATATGGACATGCATCATTCATGTTTTAAATGTTTTTAA
* * *
50240312 TAAAATTTAATATCGCATAAAAGAGTTTAAAAAATAAAATATTCCCATTCTGAGTCCA-AATTTC
129 TAAAATCTATTATGGCATAAAAGAGTTTAAAAAATAAAATATTCCCATTCTGAGTCCAGAA-TTC
* * *
50240376 ATTCATTTGAGTTTAACTTTTAAATTCTTAAATCATTGAATTTAAGTAATTTTAATTCAAATTAT
193 ATTCATTTGAGTTTAACTTTCAAATTTTTAAATCATTGAATTTAAGTAATTTTAATTTAAATTAT
** *
50240441 TGTTTCTACTAATATTTCCTACATTTTTCTAATGTTAAAGTAGTTAAAATATTGAATGCGCCATT
258 TGACTCTACTAATATTTCCTACATTTTTCTAATGTTAAAGTAGTTAAAATATTGAATGCGACATT
* * *
50240506 AAGTCTCTCTTT-TCTAAAGCCAAACATATTATATTAATAAATTAAAATATTGTGAAGCTAATTA
323 AAGTCTCTCTTTCT-TAAAGTCAAACGTATTATATTAATAAATTAAAATATTGTGAAGTTAATTA
* * *
50240570 ATAATGGATAACAAAATTCTATTACAATTAGAAGAGATTGCTTAATTGTAAAAATAAAAAGAGAA
387 ATAATGGATAACAAAGTTCTATTACAATTAGAAGAGATCGCTTAATTGTAAAAATAAAAAAAG-A
* * * * * *
50240635 AAAAAAATTATATAATACCTGTTAAGTTGTTATTAGAAAAA-CTAATGACCTCGAGAGAAGTAAG
451 AAAAGAATGATACAATACCTATTAAGTTGTTATAAGAAAAATC-AATGGCCTCGAGAGAAGTAAG
50240699 ATTTCCAATAAC-AGAAGGAATTTCACCTGAAACATATAATTAAATTTGTCAAGATTCATTATTA
515 ATTTCCAATAACTA-AAGGAATTTCACCTGAAACATATAATTAAATTTGTCAAGATTCATTATTA
50240763 TTTTTCTACCAAGCCATTAATTTATTTTTTTAAGCA
579 TTTTTCTACCAAGCCATTAATTTATTTTTTTAAGCA
50240799 TTATAGGCATCTATTTTCTTCATCTTATTATTATTTTTTAAAACTTGTAAATTGTATTCAATTTT
1 TTATAGGCATCTATTTTCTTCATCTTATTATTATTTTTTAAAACTTGTAAATTGTATTCAATTTT
50240864 ATAGTACTTATAACAACAACTACAAATATGGACATGCATCATTCATGTTTTAAATGTTTTTAATA
66 ATAGTACTTATAACAACAACTACAAATATGGACATGCATCATTCATGTTTTAAATGTTTTTAATA
50240929 AAATCTATTATGGCATAAAAGAGTTTAAAAAATAAAATATTCCCATTCTGAGTCCAGAATTCATT
131 AAATCTATTATGGCATAAAAGAGTTTAAAAAATAAAATATTCCCATTCTGAGTCCAGAATTCATT
50240994 CATTTGAGTTTAACTTTCAAATTTTTAAATCATTGAATTTAAGTAATTTTAATTTAAATTATTGA
196 CATTTGAGTTTAACTTTCAAATTTTTAAATCATTGAATTTAAGTAATTTTAATTTAAATTATTGA
*
50241059 CTCTACTAATATTT-CTACATTTTTTTAATGTTAAAGTAGTTAAAATATTGAATGCGACATTAAG
261 CTCTACTAATATTTCCTACATTTTTCTAATGTTAAAGTAGTTAAAATATTGAATGCGACATTAAG
50241123 TCTCTCTTTCTTAAAGTCAAACGTATTATATTAATAAATTAAAATATTGTGAAGTTAATTAATAA
326 TCTCTCTTTCTTAAAGTCAAACGTATTATATTAATAAATTAAAATATTGTGAAGTTAATTAATAA
50241188 TGGATAACAAAGTTCTATTACAATTAGAAGAGATCGCTTAATTGTAAAAATAAAAAAAGAAAAAG
391 TGGATAACAAAGTTCTATTACAATTAGAAGAGATCGCTTAATTGTAAAAATAAAAAAAGAAAAAG
* *
50241253 AATGATACAATACCTATTAAGTTGTTATAAGAAAAATCAATGGCCTTGAGAGAAATAAGATTTCC
456 AATGATACAATACCTATTAAGTTGTTATAAGAAAAATCAATGGCCTCGAGAGAAGTAAGATTTCC
* *
50241318 AATAACTAAAGGAATTTCACCTGAAACATATAATTAAATTTGTCAATATTCATTATTACTTTTCT
521 AATAACTAAAGGAATTTCACCTGAAACATATAATTAAATTTGTCAAGATTCATTATTATTTTTCT
50241383 ACCAAGCCATTAATTTATTTTTTTAAGCA
586 ACCAAGCCATTAATTTATTTTTTTAAGCA
*
50241412 TTATAGGCATCTATTTTCTTCATCTTATTATTATTTTTTAAAACTTGTAAATTGTTTTCAATTTT
1 TTATAGGCATCTATTTTCTTCATCTTATTATTATTTTTTAAAACTTGTAAATTGTATTCAATTTT
50241477 ATAGTACTTATAACAACAACTACAAATATGGACATGCATCATTCATGTTTTAAATGTTTTTAATA
66 ATAGTACTTATAACAACAACTACAAATATGGACATGCATCATTCATGTTTTAAATGTTTTTAATA
* *
50241542 AAATCTATTATGGCATAAAAGAGTTTAAAAAATAAAAGATTCCCATTCTGAGTTCAGAATTCATT
131 AAATCTATTATGGCATAAAAGAGTTTAAAAAATAAAATATTCCCATTCTGAGTCCAGAATTCATT
*
50241607 CATTTGAGTTTAACTTTCAAATTTTTAAATCATTGAATTTAAGCAATTTTAATTTAAATTATTGA
196 CATTTGAGTTTAACTTTCAAATTTTTAAATCATTGAATTTAAGTAATTTTAATTTAAATTATTGA
* *
50241672 CTCTACTAATATTTCCTACATTTTTCTAATATTAAAGTAGTTAAAATATTGAATGCGTCATTAAG
261 CTCTACTAATATTTCCTACATTTTTCTAATGTTAAAGTAGTTAAAATATTGAATGCGACATTAAG
50241737 TCTCTCTTTCTTAAAGTCAAACGTATTATATTAATAAATTAAAATATTGTGAAGTTAATTAATAA
326 TCTCTCTTTCTTAAAGTCAAACGTATTATATTAATAAATTAAAATATTGTGAAGTTAATTAATAA
* *
50241802 TGGATAACAAAGTTCTATTATAATTAGAAGAGATCGCTTAATTGTAAAAATAAAAAAAAGAAGAA
391 TGGATAACAAAGTTCTATTACAATTAGAAGAGATCGCTTAATTGTAAAAAT-AAAAAAAGAAAAA
*
50241867 GAATGATACAATACCTATTAAGTTGTTATAAGAAAAATCAATGGTCTCGAGAGAAGTAAGATTTC
455 GAATGATACAATACCTATTAAGTTGTTATAAGAAAAATCAATGGCCTCGAGAGAAGTAAGATTTC
*
50241932 CAATAACTGAAGGAATTTCACCTGAAACATATAATTAAATTTGTCAAGATTCATTATTATTTTTT
520 CAATAACTAAAGGAATTTCACCTGAAACATATAATTAAATTTGTCAAGATTCATTATTA-TTTTT
*
50241997 CTAACAAGCCATTAATTTATTTTTTTAAGCA
584 CTACCAAGCCATTAATTTATTTTTTTAAGCA
*
50242028 TTATAGGCATCTATTTTCTTCATCTTATTATTATTATTTAAAACTTGTAAATTGTATTCAATTTT
1 TTATAGGCATCTATTTTCTTCATCTTATTATTATTTTTTAAAACTTGTAAATTGTATTCAATTTT
50242093 ATAGTACTTATAA
66 ATAGTACTTATAA
50242106 TAATTAGAAA
Statistics
Matches: 1252, Mismatches: 45, Indels: 18
0.95 0.03 0.01
Matches are distributed among these distances:
613 430 0.34
614 344 0.27
615 363 0.29
616 115 0.09
ACGTcount: A:0.39, C:0.11, G:0.10, T:0.40
Consensus pattern (614 bp):
TTATAGGCATCTATTTTCTTCATCTTATTATTATTTTTTAAAACTTGTAAATTGTATTCAATTTT
ATAGTACTTATAACAACAACTACAAATATGGACATGCATCATTCATGTTTTAAATGTTTTTAATA
AAATCTATTATGGCATAAAAGAGTTTAAAAAATAAAATATTCCCATTCTGAGTCCAGAATTCATT
CATTTGAGTTTAACTTTCAAATTTTTAAATCATTGAATTTAAGTAATTTTAATTTAAATTATTGA
CTCTACTAATATTTCCTACATTTTTCTAATGTTAAAGTAGTTAAAATATTGAATGCGACATTAAG
TCTCTCTTTCTTAAAGTCAAACGTATTATATTAATAAATTAAAATATTGTGAAGTTAATTAATAA
TGGATAACAAAGTTCTATTACAATTAGAAGAGATCGCTTAATTGTAAAAATAAAAAAAGAAAAAG
AATGATACAATACCTATTAAGTTGTTATAAGAAAAATCAATGGCCTCGAGAGAAGTAAGATTTCC
AATAACTAAAGGAATTTCACCTGAAACATATAATTAAATTTGTCAAGATTCATTATTATTTTTCT
ACCAAGCCATTAATTTATTTTTTTAAGCA
Found at i:50273648 original size:28 final size:28
Alignment explanation
Indices: 50273608--50273667 Score: 104
Period size: 28 Copynumber: 2.1 Consensus size: 28
50273598 AAATGAGACT
50273608 TTTTGGATACTCGGGGGCAAAATGGTAA
1 TTTTGGATACTCGGGGGCAAAATGGTAA
50273636 TTTTGGACT-CTCGGGGGCAAAATGGTAA
1 TTTTGGA-TACTCGGGGGCAAAATGGTAA
50273664 TTTT
1 TTTT
50273668 TAAAAGTTTT
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
28 30 0.97
29 1 0.03
ACGTcount: A:0.25, C:0.12, G:0.30, T:0.33
Consensus pattern (28 bp):
TTTTGGATACTCGGGGGCAAAATGGTAA
Found at i:50273756 original size:30 final size:28
Alignment explanation
Indices: 50273654--50273820 Score: 115
Period size: 30 Copynumber: 5.6 Consensus size: 28
50273644 TCTCGGGGGC
*
50273654 AAAATGGTAATTTTTAAAAGTTTTAGGGTCA
1 AAAAT-GTAATTTTTGAAAGTTTT-GGGT-A
* **
50273685 AAAATAG-AATTTTTGGACA-TTCAAGGGT-
1 AAAAT-GTAATTTTT-GAAAGTT-TTGGGTA
50273713 AAAATGGTAATTTTTGAAAGTTTTGGGATAA
1 AAAAT-GTAATTTTTGAAAGTTTTGGG-T-A
* *
50273744 AAAATATAATTTTTGGAAGTTTTGAGGTCA
1 AAAATGTAATTTTTGAAAGTTTTG-GGT-A
* * * *
50273774 AAAGTGTAATTTTTGGAATTTTTGGGGTT
1 AAAATGTAATTTTTGAAAGTTTT-GGGTA
50273803 AAAATGTAATTTTTGAAA
1 AAAATGTAATTTTTGAAA
50273821 ATTTGAGGGT
Statistics
Matches: 109, Mismatches: 18, Indels: 20
0.74 0.12 0.14
Matches are distributed among these distances:
28 12 0.11
29 26 0.24
30 55 0.50
31 16 0.15
ACGTcount: A:0.37, C:0.02, G:0.21, T:0.40
Consensus pattern (28 bp):
AAAATGTAATTTTTGAAAGTTTTGGGTA
Found at i:50273824 original size:30 final size:29
Alignment explanation
Indices: 50273712--50273820 Score: 119
Period size: 30 Copynumber: 3.7 Consensus size: 29
50273702 CATTCAAGGG
*
50273712 TAAAATGGTAATTTTTGAAAGTTTTGGGAT
1 TAAAAT-GTAATTTTTGAAAGTTTTGGGGT
* * * *
50273742 AAAAAATATAATTTTTGGAAGTTTTGAGGT
1 -TAAAATGTAATTTTTGAAAGTTTTGGGGT
* * *
50273772 CAAAAGTGTAATTTTTGGAATTTTTGGGGT
1 TAAAA-TGTAATTTTTGAAAGTTTTGGGGT
50273802 TAAAATGTAATTTTTGAAA
1 TAAAATGTAATTTTTGAAA
50273821 ATTTGAGGGT
Statistics
Matches: 66, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
29 17 0.26
30 44 0.67
31 5 0.08
ACGTcount: A:0.36, C:0.01, G:0.21, T:0.42
Consensus pattern (29 bp):
TAAAATGTAATTTTTGAAAGTTTTGGGGT
Found at i:50273842 original size:29 final size:30
Alignment explanation
Indices: 50273661--50273843 Score: 114
Period size: 30 Copynumber: 6.2 Consensus size: 30
50273651 GGCAAAATGG
*
50273661 TAATTTTT-AAAAGTTTT-AGGGTCAAAAATA
1 TAATTTTTGGAAA-TTTTGAGGGTC-AAAATA
* * ** *
50273691 GAATTTTTGGACA-TTCAAGGGT-AAAATGG
1 TAATTTTTGGAAATTTTGAGGGTCAAAAT-A
* *
50273720 TAATTTTT-GAAAGTTTTG-GGATAAAAAATA
1 TAATTTTTGGAAA-TTTTGAGGGT-CAAAATA
* *
50273750 TAATTTTTGGAAGTTTTGA-GGTCAAAAGTG
1 TAATTTTTGGAAATTTTGAGGGTCAAAA-TA
* * *
50273780 TAATTTTTGGAATTTTTG-GGGTTAAAATG
1 TAATTTTTGGAAATTTTGAGGGTCAAAATA
*
50273809 TAATTTTT-GAAAATTTGAGGGTCAAAATA
1 TAATTTTTGGAAATTTTGAGGGTCAAAATA
*
50273838 CAATTT
1 TAATTT
50273844 CTAGACAGTT
Statistics
Matches: 119, Mismatches: 22, Indels: 25
0.72 0.13 0.15
Matches are distributed among these distances:
28 15 0.13
29 40 0.34
30 54 0.45
31 10 0.08
ACGTcount: A:0.37, C:0.03, G:0.20, T:0.40
Consensus pattern (30 bp):
TAATTTTTGGAAATTTTGAGGGTCAAAATA
Found at i:50275381 original size:6 final size:6
Alignment explanation
Indices: 50275370--50275485 Score: 91
Period size: 6 Copynumber: 20.0 Consensus size: 6
50275360 TTATAATAAT
* * * *
50275370 TTTAAA TTTAAA -ATAAA TTTAGA CTTAAA -TTAAA TTCAAA TTTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
* * * *
50275416 GTTTAAT TTTAAA TTTAAA TTTAAA -ATAAA TCTAAA TTTAAA -TCAAA
1 -TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
*
50275463 TTT-AA TCTTAAA -ATAAA TTTAAA
1 TTTAAA T-TTAAA TTTAAA TTTAAA
50275486 GGGGTCCGGT
Statistics
Matches: 86, Mismatches: 16, Indels: 16
0.73 0.14 0.14
Matches are distributed among these distances:
5 24 0.28
6 55 0.64
7 7 0.08
ACGTcount: A:0.52, C:0.04, G:0.02, T:0.42
Consensus pattern (6 bp):
TTTAAA
Found at i:50275384 original size:17 final size:17
Alignment explanation
Indices: 50275358--50275485 Score: 89
Period size: 17 Copynumber: 7.1 Consensus size: 17
50275348 TTGGGTTTCC
* *
50275358 ATTTATAATAATTTTAA
1 ATTTAAAATAAATTTAA
50275375 ATTTAAAATAAATTTAGACTTA
1 ATTTAAAATAAATTT--A---A
* *
50275397 AATTAAATTCAAATTTAA
1 ATTTAAAAT-AAATTTAA
**
50275415 AGTTTAATTTTAAATTTAA
1 A-TTTAA-AATAAATTTAA
*
50275434 ATTTAAAATAAATCTAA
1 ATTTAAAATAAATTTAA
50275451 ATTT-AAATCAAATTT-A
1 ATTTAAAAT-AAATTTAA
50275467 ATCTTAAAATAAATTTAA
1 AT-TTAAAATAAATTTAA
50275485 A
1 A
50275486 GGGGTCCGGT
Statistics
Matches: 89, Mismatches: 10, Indels: 23
0.73 0.08 0.19
Matches are distributed among these distances:
16 7 0.08
17 38 0.43
18 13 0.15
19 14 0.16
20 2 0.02
21 1 0.01
22 8 0.09
23 6 0.07
ACGTcount: A:0.52, C:0.04, G:0.02, T:0.43
Consensus pattern (17 bp):
ATTTAAAATAAATTTAA
Found at i:50275428 original size:13 final size:12
Alignment explanation
Indices: 50275370--50275485 Score: 91
Period size: 11 Copynumber: 10.0 Consensus size: 12
50275360 TTATAATAAT
50275370 TTTAAATTTAAA
1 TTTAAATTTAAA
* *
50275382 -ATAAATTTAGA
1 TTTAAATTTAAA
*
50275393 CTTAAA-TTAAA
1 TTTAAATTTAAA
*
50275404 TTCAAATTTAAA
1 TTTAAATTTAAA
*
50275416 GTTTAATTTTAAA
1 -TTTAAATTTAAA
50275429 TTTAAATTTAAA
1 TTTAAATTTAAA
* *
50275441 -ATAAATCTAAA
1 TTTAAATTTAAA
*
50275452 TTTAAA-TCAAA
1 TTTAAATTTAAA
50275463 TTT-AATCTTAAA
1 TTTAAAT-TTAAA
*
50275475 -ATAAATTTAAA
1 TTTAAATTTAAA
50275486 GGGGTCCGGT
Statistics
Matches: 81, Mismatches: 16, Indels: 15
0.72 0.14 0.13
Matches are distributed among these distances:
10 2 0.02
11 38 0.47
12 31 0.38
13 10 0.12
ACGTcount: A:0.52, C:0.04, G:0.02, T:0.42
Consensus pattern (12 bp):
TTTAAATTTAAA
Found at i:50276291 original size:202 final size:200
Alignment explanation
Indices: 50275816--50276437 Score: 788
Period size: 202 Copynumber: 3.1 Consensus size: 200
50275806 TTCTTCTTAA
** * *
50275816 TATCTCATCAGGAAGATGACCGCATCACTTGTTTTGATCCACTTCTCTGTGTTTTATCAGGAAGA
1 TATCTCATCAGGAAGATGACCGCATCACTTGTTTCAATTCACTTCTCTGTGTCTTATCAGGAAGA
** * * * *
50275881 C-AGATTTGGTTTACTTCTCTGTATCTCATCAGGAAGCTAAACACTTTATTGCTTCAACCTGCTT
66 CGA-ATTTGGTCCACTTCTCAGTATCTCATCAGGAAGCTAACCATTTTATTGCTTCGACCTGCTT
* * * ** * * * *
50275945 CTCGGTATCTCATCAAGAAGCTGAGGTTCGAAGA--T-CAAGCGTG-G-GTCTAGTTTGGTCTTC
130 CTCAGTATCTCATCAGGAAGCTGAGGTTCAAAGATTTGCTCGCTTGAGCGTCAAG-TTGGTATAC
*
50276005 TTCTCAG
194 TTCTCTG
** * * * * *
50276012 TATCTCATCAGGAAGATGACAACACCACTTGTTTCAATTCACTTCTCAGTTTCTCATCAAGAAGA
1 TATCTCATCAGGAAGATGACCGCATCACTTGTTTCAATTCACTTCTCTGTGTCTTATCAGGAAGA
* * * *
50276077 CGAATTTGGTCCACTTCTCAGTATATAATCAGGAAGCTAACCATTTTATTGCTTTGACCTACTTC
66 CGAATTTGGTCCACTTCTCAGTATCTCATCAGGAAGCTAACCATTTTATTGCTTCGACCTGCTTC
* * * *
50276142 TCAGTATATCATCAGGAAGCTGTGGTTCAAAGATTTGCTCGCATTGAGCTTCGAGTTGGTATACT
131 TCAGTATCTCATCAGGAAGCTGAGGTTCAAAGATTTGCTCGC-TTGAGCGTCAAGTTGGTATACT
50276207 TCTCTG
195 TCTCTG
* *
50276213 TGTCTCATCAGGAAGATGACCGCAATCATTTGTTTCAATTCACTTCTCTGTGTCTTATCAGGAAG
1 TATCTCATCAGGAAGATGACCGC-ATCACTTGTTTCAATTCACTTCTCTGTGTCTTATCAGGAAG
*
50276278 ACGAATTTGGTCCACTTCTCAGTATCTCATCAGGAAGTTAACCATTTTATTGCTTCGACCTGCTT
65 ACGAATTTGGTCCACTTCTCAGTATCTCATCAGGAAGCTAACCATTTTATTGCTTCGACCTGCTT
* * *
50276343 TTCAGTATCTCATCAGGAAGCTGGGGTTCAAAGATTTGCTCGTGTTGAGCGTCAAGTTGGTATAC
130 CTCAGTATCTCATCAGGAAGCTGAGGTTCAAAGATTTGCTCG-CTTGAGCGTCAAGTTGGTATAC
50276408 TTCTCTG
194 TTCTCTG
50276415 TATCTCATCAGGAAGATGACCGC
1 TATCTCATCAGGAAGATGACCGC
50276438 CTCGCTATTT
Statistics
Matches: 362, Mismatches: 55, Indels: 12
0.84 0.13 0.03
Matches are distributed among these distances:
196 135 0.37
197 1 0.00
198 1 0.00
199 3 0.01
200 2 0.01
201 34 0.09
202 186 0.51
ACGTcount: A:0.24, C:0.22, G:0.19, T:0.35
Consensus pattern (200 bp):
TATCTCATCAGGAAGATGACCGCATCACTTGTTTCAATTCACTTCTCTGTGTCTTATCAGGAAGA
CGAATTTGGTCCACTTCTCAGTATCTCATCAGGAAGCTAACCATTTTATTGCTTCGACCTGCTTC
TCAGTATCTCATCAGGAAGCTGAGGTTCAAAGATTTGCTCGCTTGAGCGTCAAGTTGGTATACTT
CTCTG
Found at i:50279921 original size:29 final size:28
Alignment explanation
Indices: 50279889--50279989 Score: 94
Period size: 30 Copynumber: 3.4 Consensus size: 28
50279879 AAAAGTAATA
*
50279889 TTTGGAAAGTTCGAGGTTAAAATTTGATT
1 TTTGGAAAGTTCG-GGTTAAAATATGATT
* * * *
50279918 TTTGAAAAGTTTAGGGGTTAAAATGTAATT
1 TTTGGAAAG-TT-CGGGTTAAAATATGATT
50279948 TTTGGAAAGTTCGGGTGTCAAAATATGATT
1 TTTGGAAAGTTCGGGT-T-AAAATATGATT
* *
50279978 TCTGGATAGTTC
1 TTTGGAAAGTTC
50279990 AGGGACCTCT
Statistics
Matches: 58, Mismatches: 10, Indels: 7
0.77 0.13 0.09
Matches are distributed among these distances:
28 4 0.07
29 11 0.19
30 42 0.72
31 1 0.02
ACGTcount: A:0.31, C:0.05, G:0.25, T:0.40
Consensus pattern (28 bp):
TTTGGAAAGTTCGGGTTAAAATATGATT
Found at i:50280674 original size:76 final size:76
Alignment explanation
Indices: 50280593--50280736 Score: 270
Period size: 76 Copynumber: 1.9 Consensus size: 76
50280583 GGCGACTCAC
* *
50280593 TTTTTTTCCAATTTTTGATAATTTTAAAATATTGTTCGAGACCTGTTTGTTTTCCCTAAAATAAA
1 TTTTTTTCCAATTTTCGATAATTTCAAAATATTGTTCGAGACCTGTTTGTTTTCCCTAAAATAAA
50280658 TGTGACTCCCA
66 TGTGACTCCCA
50280669 TTTTTTTCCAATTTTCGATAATTTCAAAATATTGTTCGAGACCTGTTTGTTTTCCCTAAAATAAA
1 TTTTTTTCCAATTTTCGATAATTTCAAAATATTGTTCGAGACCTGTTTGTTTTCCCTAAAATAAA
50280734 TGT
66 TGT
50280737 TTCGACAAAT
Statistics
Matches: 66, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
76 66 1.00
ACGTcount: A:0.28, C:0.15, G:0.10, T:0.47
Consensus pattern (76 bp):
TTTTTTTCCAATTTTCGATAATTTCAAAATATTGTTCGAGACCTGTTTGTTTTCCCTAAAATAAA
TGTGACTCCCA
Found at i:50280758 original size:76 final size:76
Alignment explanation
Indices: 50280601--50280758 Score: 199
Period size: 76 Copynumber: 2.1 Consensus size: 76
50280591 ACTTTTTTTC
* * **
50280601 CAATTTTTGATAATTTTAAAATATTGTTCGAGACCTGTTTGTTTTCCCTAAAATAAATGTGACTC
1 CAATTTTCGATAATTTCAAAATATTGTTCGAGACCTGTTTGTTTTCCCTAAAATAAATGTGACGA
* * ****
50280666 CCATTTTTTTC
66 CAAATTTCAAA
**
50280677 CAATTTTCGATAATTTCAAAATATTGTTCGAGACCTGTTTGTTTTCCCTAAAATAAATGTTTCGA
1 CAATTTTCGATAATTTCAAAATATTGTTCGAGACCTGTTTGTTTTCCCTAAAATAAATGTGACGA
50280742 CAAATTTCAAA
66 CAAATTTCAAA
*
50280753 TAATTT
1 CAATTT
50280759 AGTGACTAAA
Statistics
Matches: 69, Mismatches: 13, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
76 69 1.00
ACGTcount: A:0.31, C:0.15, G:0.10, T:0.44
Consensus pattern (76 bp):
CAATTTTCGATAATTTCAAAATATTGTTCGAGACCTGTTTGTTTTCCCTAAAATAAATGTGACGA
CAAATTTCAAA
Found at i:50283444 original size:97 final size:97
Alignment explanation
Indices: 50283278--50283461 Score: 282
Period size: 97 Copynumber: 1.9 Consensus size: 97
50283268 AACCTTGGAA
*
50283278 AAGGGTATTCGATTATCCCGATTTGAAGAAAAGTCGCACCTAGTAAGTTAAGGCATAAAATTTCA
1 AAGGGTATTCGATTATCCCGATTTGAAGAAAAATCGCACCTAGTAAGTTAAGGCATAAAATTTCA
*
50283343 AAACCAGAGATAAAGAAATATTTTCTCGTTTT
66 AAACCAGAAATAAAGAAATATTTTCTCGTTTT
*
50283375 AAGGGTATTCGATTATCCC-AGTTTGAAGAAAAATCG-AGCCTAGTAAGTTAAGGCATAAATTTT
1 AAGGGTATTCGATTATCCCGA-TTTGAAGAAAAATCGCA-CCTAGTAAGTTAAGGCATAAAATTT
* * *
50283438 TAAAACCCGAAATAAAGGAATATT
64 CAAAACCAGAAATAAAGAAATATT
50283462 GCCTTGATTT
Statistics
Matches: 79, Mismatches: 6, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
96 2 0.03
97 77 0.97
ACGTcount: A:0.40, C:0.14, G:0.18, T:0.29
Consensus pattern (97 bp):
AAGGGTATTCGATTATCCCGATTTGAAGAAAAATCGCACCTAGTAAGTTAAGGCATAAAATTTCA
AAACCAGAAATAAAGAAATATTTTCTCGTTTT
Found at i:50283774 original size:29 final size:30
Alignment explanation
Indices: 50283732--50284005 Score: 199
Period size: 29 Copynumber: 9.3 Consensus size: 30
50283722 AGTTTCGAAG
*
50283732 AGTTT-GGGGTTAAAATGTAA-TTTTGGAA
1 AGTTTAGGGGTAAAAATGTAATTTTTGGAA
* *
50283760 AGCTTTAGGGGTAAAAATGTCATTTTAGGAA
1 AG-TTTAGGGGTAAAAATGTAATTTTTGGAA
* *
50283791 AATTT-GGGGTAAAAATGGAATTTTTGG-A
1 AGTTTAGGGGTAAAAATGTAATTTTTGGAA
* * *
50283819 AG-TTCGAGGGCAAAAATGGAATTTTTGG-A
1 AGTTTAG-GGGTAAAAATGTAATTTTTGGAA
* * * *
50283848 AGTTTTA-TGGCAAAATTGTAATTTTTGAAA
1 AG-TTTAGGGGTAAAAATGTAATTTTTGGAA
* *
50283878 AGTTTAAGGGTCAAAATGTAATTTTT-GAA
1 AGTTTAGGGGTAAAAATGTAATTTTTGGAA
* * *
50283907 AGGTTTA-GGTTCAAAATGTAATTTTTGTAA
1 A-GTTTAGGGGTAAAAATGTAATTTTTGGAA
* * *
50283937 AGTTTAAGGGGTTAAAATTTAATTTTT-AAA
1 AGTTT-AGGGGTAAAAATGTAATTTTTGGAA
* * * * **
50283967 AGTTTAGGTGTTATAATATAATTTTTGGCG
1 AGTTTAGGGGTAAAAATGTAATTTTTGGAA
50283997 AGTTTAGGG
1 AGTTTAGGG
50284006 ACCTTATGGG
Statistics
Matches: 200, Mismatches: 32, Indels: 26
0.78 0.12 0.10
Matches are distributed among these distances:
27 2 0.01
28 5 0.03
29 109 0.55
30 58 0.29
31 26 0.13
ACGTcount: A:0.34, C:0.03, G:0.24, T:0.39
Consensus pattern (30 bp):
AGTTTAGGGGTAAAAATGTAATTTTTGGAA
Found at i:50283901 original size:59 final size:59
Alignment explanation
Indices: 50283831--50283975 Score: 179
Period size: 59 Copynumber: 2.5 Consensus size: 59
50283821 TTCGAGGGCA
* * *
50283831 AAAATGGAATTTTTGGAAGTTTTATGG-CAAAATTGTAATTTTTGAAAAGTTTAA-GGGTC
1 AAAATGTAATTTTTGAAAGGTTTA-GGTCAAAA-TGTAATTTTTGAAAAGTTTAAGGGGTC
* *
50283890 AAAATGTAATTTTTGAAAGGTTTAGGTTCAAAATGTAATTTTTGTAAAGTTTAAGGGGTT
1 AAAATGTAATTTTTGAAAGGTTTAGG-TCAAAATGTAATTTTTGAAAAGTTTAAGGGGTC
* *
50283950 AAAATTTAATTTTT-AAAAGTTTAGGT
1 AAAATGTAATTTTTGAAAGGTTTAGGT
50283976 GTTATAATAT
Statistics
Matches: 76, Mismatches: 7, Indels: 7
0.84 0.08 0.08
Matches are distributed among these distances:
58 3 0.04
59 51 0.67
60 22 0.29
ACGTcount: A:0.37, C:0.02, G:0.20, T:0.41
Consensus pattern (59 bp):
AAAATGTAATTTTTGAAAGGTTTAGGTCAAAATGTAATTTTTGAAAAGTTTAAGGGGTC
Found at i:50284002 original size:60 final size:59
Alignment explanation
Indices: 50283739--50283994 Score: 170
Period size: 59 Copynumber: 4.4 Consensus size: 59
50283729 AAGAGTTTGG
* * * * * *
50283739 GGTT-AAAATGTAA-TTTTGGAAAGCTTTAGGGGTAAAAATGTCATTTTAGGAAAA-TTTG
1 GGTTCAAAATATAATTTTTGGAAAG-TTTAAGGGTCAAAATGTAATTTT-TGAAAAGTTTA
* * ** ** * *
50283797 GGGTAAAAATGGAATTTTTGG-AAGTTCGAGGG-CAAAAATGGAATTTTTG-GAAGTTTTA
1 GGTTCAAAATATAATTTTTGGAAAGTTTAAGGGTC-AAAATGTAATTTTTGAAAAG-TTTA
* * *
50283855 TGG--CAAAATTGTAATTTTTGAAAAGTTTAAGGGTCAAAATGTAATTTTTGAAAGGTTTA
1 -GGTTCAAAA-TATAATTTTTGGAAAGTTTAAGGGTCAAAATGTAATTTTTGAAAAGTTTA
* * * *
50283914 GGTTCAAAATGTAATTTTTGTAAAGTTTAAGGGGTTAAAATTTAATTTTT-AAAAGTTTA
1 GGTTCAAAATATAATTTTTGGAAAGTTTAA-GGGTCAAAATGTAATTTTTGAAAAGTTTA
* *
50283973 GGTGTTATAATATAATTTTTGG
1 GGT-TCAAAATATAATTTTTGG
50283995 CGAGTTTAGG
Statistics
Matches: 157, Mismatches: 27, Indels: 26
0.75 0.13 0.12
Matches are distributed among these distances:
56 2 0.01
57 5 0.03
58 34 0.22
59 71 0.45
60 45 0.29
ACGTcount: A:0.36, C:0.03, G:0.23, T:0.39
Consensus pattern (59 bp):
GGTTCAAAATATAATTTTTGGAAAGTTTAAGGGTCAAAATGTAATTTTTGAAAAGTTTA
Found at i:50285526 original size:17 final size:17
Alignment explanation
Indices: 50285506--50285591 Score: 102
Period size: 17 Copynumber: 5.1 Consensus size: 17
50285496 TAATTTTAAT
50285506 TTAAAATAAATTTAAAA
1 TTAAAATAAATTTAAAA
* *
50285523 TTAAAGTAAATTTAAAC
1 TTAAAATAAATTTAAAA
* * *
50285540 TCAAAATGAATTTAAAT
1 TTAAAATAAATTTAAAA
* *
50285557 TTAAAATAAATTCAAAG
1 TTAAAATAAATTTAAAA
50285574 TTAAAATAAA-TTAAAA
1 TTAAAATAAATTTAAAA
50285590 TT
1 TT
50285592 TAGACTCAGT
Statistics
Matches: 57, Mismatches: 12, Indels: 1
0.81 0.17 0.01
Matches are distributed among these distances:
16 6 0.11
17 51 0.89
ACGTcount: A:0.58, C:0.03, G:0.03, T:0.35
Consensus pattern (17 bp):
TTAAAATAAATTTAAAA
Found at i:50286195 original size:37 final size:37
Alignment explanation
Indices: 50286131--50286202 Score: 117
Period size: 37 Copynumber: 1.9 Consensus size: 37
50286121 CATCGCTTGT
* *
50286131 TTTGATCCGCTTCTCTGTATCTTATCAGGAAGACGGA
1 TTTGATCCACTTCTCTGTATCTCATCAGGAAGACGGA
*
50286168 TTTGGTCCACTTCTCTGTATCTCATCAGGAAGACG
1 TTTGATCCACTTCTCTGTATCTCATCAGGAAGACG
50286203 ACCACTTTAT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
37 32 1.00
ACGTcount: A:0.21, C:0.24, G:0.21, T:0.35
Consensus pattern (37 bp):
TTTGATCCACTTCTCTGTATCTCATCAGGAAGACGGA
Found at i:50286374 original size:210 final size:210
Alignment explanation
Indices: 50285999--50286552 Score: 797
Period size: 210 Copynumber: 2.6 Consensus size: 210
50285989 AGATGGCTAT
* * * * * *
50285999 TTTATTGC-TCGATCTGCTTCTTC-GTATCTCATCGGGAAGCTGGGGCTCGAAGTTTTGCTCACA
1 TTTATTGCTTCGACCTGCTTC-TCAGTACCTCATCAGGAAGCTGGGGTTCGAAGTTTCGCTAACA
* * * *
50286062 TCGAGCTTTGGTTTTATTCATTTGGTTTACTTCTCAGTATCTCATCAGGAAGATGACCGCATCGC
65 TCGAGCTTTGGTTTCATTGATTTGGTCTACTTCTCAGTATCTCATCAGGAAGATGACCGCATCAC
* * * * *
50286127 TTGTTTTGATCCGCTTCTCTGTATCTTATCAGGAAGACGGATTTGGTCCACTTCTCTGTATCTCA
130 TTGTTTTAATCCACTTCTCTGTATATCATCAGGAAGACGGATTTCGTCCACTTCTCTGTATCTCA
50286192 TCAGGAAGACGACCAC
195 TCAGGAAGACGACCAC
* * *
50286208 TTTATTGCTTCGACCTGCTTCTCAGTACCTCATTAGGAAGCTGGGGTTCGAAGTTTCACTTACAT
1 TTTATTGCTTCGACCTGCTTCTCAGTACCTCATCAGGAAGCTGGGGTTCGAAGTTTCGCTAACAT
*
50286273 CGAGCTTTGGTTTCATTGATTTGGTCTACTTCTCAGTATCTCATCAGGAAGATGACTGCATCACT
66 CGAGCTTTGGTTTCATTGATTTGGTCTACTTCTCAGTATCTCATCAGGAAGATGACCGCATCACT
* * *
50286338 TGTTTTAATCCACTTCTCTGTATATCATCAGGAAGACGGATTTCGTTCACTTTTTTGTATCTCAT
131 TGTTTTAATCCACTTCTCTGTATATCATCAGGAAGACGGATTTCGTCCACTTCTCTGTATCTCAT
*
50286403 CAGGAAGACGACCGC
196 CAGGAAGACGACCAC
* * *
50286418 ATTATTGCTTCGACCTGCTTCTTAGTACCTCATCAGGAAGCTGGGGTTTGAAGTTTCGCTAACAT
1 TTTATTGCTTCGACCTGCTTCTCAGTACCTCATCAGGAAGCTGGGGTTCGAAGTTTCGCTAACAT
* ** * * *
50286483 CGAGCTTTGGTTTCATTGTTTTGGTCTACTTCTTTGTATCTCATCAGGAAGATGATCACCTCACT
66 CGAGCTTTGGTTTCATTGATTTGGTCTACTTCTCAGTATCTCATCAGGAAGATGACCGCATCACT
50286548 TGTTT
131 TGTTT
50286553 CAGTTTGCTT
Statistics
Matches: 308, Mismatches: 35, Indels: 3
0.89 0.10 0.01
Matches are distributed among these distances:
209 10 0.03
210 298 0.97
ACGTcount: A:0.20, C:0.22, G:0.20, T:0.37
Consensus pattern (210 bp):
TTTATTGCTTCGACCTGCTTCTCAGTACCTCATCAGGAAGCTGGGGTTCGAAGTTTCGCTAACAT
CGAGCTTTGGTTTCATTGATTTGGTCTACTTCTCAGTATCTCATCAGGAAGATGACCGCATCACT
TGTTTTAATCCACTTCTCTGTATATCATCAGGAAGACGGATTTCGTCCACTTCTCTGTATCTCAT
CAGGAAGACGACCAC
Found at i:50287213 original size:23 final size:23
Alignment explanation
Indices: 50287184--50287229 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
50287174 CTGCCAAGTA
50287184 TACAACAAAAGACAATTAGTTGC
1 TACAACAAAAGACAATTAGTTGC
50287207 TACAACAAAAGACAATTAGTTGC
1 TACAACAAAAGACAATTAGTTGC
50287230 CCCGGATATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.48, C:0.17, G:0.13, T:0.22
Consensus pattern (23 bp):
TACAACAAAAGACAATTAGTTGC
Found at i:50297144 original size:75 final size:75
Alignment explanation
Indices: 50297061--50297208 Score: 251
Period size: 75 Copynumber: 2.0 Consensus size: 75
50297051 CTATCGAAAT
50297061 GTTTATTTTAAGGAAAACAAACAAGTCTCGAACAATATTTTAAAATTATCGAAAATTGAAAAAAA
1 GTTTATTTTAAGGAAAACAAACAAGTCTCGAACAATATTTTAAAATTATCGAAAATTGAAAAAAA
*
50297126 TGGGAGTCAC
66 TAGGAGTCAC
* * * *
50297136 GTTTATTTTAAGGAAAACAAATAGGTCTCGAACAATATTTTAAAATTATCGATAATTGGAAAAAA
1 GTTTATTTTAAGGAAAACAAACAAGTCTCGAACAATATTTTAAAATTATCGAAAATTGAAAAAAA
50297201 TAGGAGTC
66 TAGGAGTC
50297209 GCCACCAATC
Statistics
Matches: 68, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
75 68 1.00
ACGTcount: A:0.45, C:0.09, G:0.16, T:0.30
Consensus pattern (75 bp):
GTTTATTTTAAGGAAAACAAACAAGTCTCGAACAATATTTTAAAATTATCGAAAATTGAAAAAAA
TAGGAGTCAC
Found at i:50297668 original size:30 final size:29
Alignment explanation
Indices: 50297623--50297827 Score: 170
Period size: 29 Copynumber: 7.1 Consensus size: 29
50297613 TTTCAGAGAA
*
50297623 TTTG-GGGTTAAAATGTAA-TTTTGGAAAG
1 TTTGAGGGTAAAAATGTAATTTTTGG-AAG
* * *
50297651 TTTTAGGGTTAAAAATGTCATTTTGGGAAG
1 TTTGAGGG-TAAAAATGTAATTTTTGGAAG
* *
50297681 CTTGAGGGTAAAAATGAAATTTTTGGAAG
1 TTTGAGGGTAAAAATGTAATTTTTGGAAG
* * * *
50297710 TTCGAGAG-CAAAATGGAATTTTTGGAAG
1 TTTGAGGGTAAAAATGTAATTTTTGGAAG
*
50297738 TTTTG-GGGTAAAAATGTAATTTTTGAAAAG
1 -TTTGAGGGTAAAAATGTAATTTTTG-GAAG
* * ** *
50297768 TTTAAGGGTCAAAATGTAATTTTTAAAAA
1 TTTGAGGGTAAAAATGTAATTTTTGGAAG
*
50297797 TTT-AGGGT-CAAATGTAATTTTTGGATAG
1 TTTGAGGGTAAAAATGTAATTTTTGGA-AG
50297825 TTT
1 TTT
50297828 AGAGACCTTA
Statistics
Matches: 142, Mismatches: 27, Indels: 16
0.77 0.15 0.09
Matches are distributed among these distances:
27 14 0.10
28 32 0.23
29 52 0.37
30 39 0.27
31 5 0.04
ACGTcount: A:0.35, C:0.03, G:0.24, T:0.38
Consensus pattern (29 bp):
TTTGAGGGTAAAAATGTAATTTTTGGAAG
Found at i:50297692 original size:29 final size:29
Alignment explanation
Indices: 50297627--50297790 Score: 113
Period size: 30 Copynumber: 5.6 Consensus size: 29
50297617 AGAGAATTTG
* * *
50297627 GGGTTAAAATGTAATTTTGGAAAGTTTTA
1 GGGTAAAAATGTAATTTTGGAAAGCTTGA
* *
50297656 GGGTTAAAAATGTCATTTTGGGAAGCTTGA
1 GGG-TAAAAATGTAATTTTGGAAAGCTTGA
*
50297686 GGGTAAAAATGAAATTTTTGG-AAG-TTCGA
1 GGGTAAAAATGTAA-TTTTGGAAAGCTT-GA
* * * *
50297715 GAG-CAAAATGGAATTTTTGG-AAGTTTTG-
1 GGGTAAAAATGTAA-TTTTGGAAAG-CTTGA
* * *
50297743 GGGTAAAAATGTAATTTTTGAAAAGTTTAA
1 GGGTAAAAATGTAA-TTTTGGAAAGCTTGA
*
50297773 GGGTCAAAATGTAATTTT
1 GGGTAAAAATGTAATTTT
50297791 TAAAAATTTA
Statistics
Matches: 111, Mismatches: 16, Indels: 16
0.78 0.11 0.11
Matches are distributed among these distances:
28 22 0.20
29 41 0.37
30 48 0.43
ACGTcount: A:0.35, C:0.03, G:0.26, T:0.36
Consensus pattern (29 bp):
GGGTAAAAATGTAATTTTGGAAAGCTTGA
Found at i:50297782 original size:87 final size:87
Alignment explanation
Indices: 50297632--50297791 Score: 207
Period size: 87 Copynumber: 1.8 Consensus size: 87
50297622 ATTTGGGGTT
* * * ** *
50297632 AAAATGTAATTTTGGAAAGTTTTAGGGTTAAAAATGTCATTTTGGGAAGCTTGAGGGTAAAAATG
1 AAAATGGAATTTTGGAAAGTTTTAGGGGTAAAAATGTAATTTTGAAAAGCTTAAGGGTAAAAATG
50297697 AAATTTTTGGAAGTTCGAGAGC
66 AAATTTTTGGAAGTTCGAGAGC
* *
50297719 AAAATGGAATTTTTGG-AAGTTTT-GGGGTAAAAATGTAATTTTTGAAAAGTTTAAGGGTCAAAA
1 AAAATGGAA-TTTTGGAAAGTTTTAGGGGTAAAAATGTAA-TTTTGAAAAGCTTAAGGGTAAAAA
*
50297782 TGTAATTTTT
64 TGAAATTTTT
50297792 AAAAATTTAG
Statistics
Matches: 62, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
86 13 0.21
87 43 0.69
88 6 0.10
ACGTcount: A:0.36, C:0.03, G:0.24, T:0.36
Consensus pattern (87 bp):
AAAATGGAATTTTGGAAAGTTTTAGGGGTAAAAATGTAATTTTGAAAAGCTTAAGGGTAAAAATG
AAATTTTTGGAAGTTCGAGAGC
Found at i:50299867 original size:14 final size:15
Alignment explanation
Indices: 50299849--50299881 Score: 50
Period size: 15 Copynumber: 2.2 Consensus size: 15
50299839 AAAATATAAC
50299849 AAAAA-ATAAAAAACG
1 AAAAATATAAAAAA-G
50299864 AAAAATATAAAAAAG
1 AAAAATATAAAAAAG
50299879 AAA
1 AAA
50299882 TAAGCAAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 9 0.53
16 8 0.47
ACGTcount: A:0.82, C:0.03, G:0.06, T:0.09
Consensus pattern (15 bp):
AAAAATATAAAAAAG
Found at i:50299893 original size:26 final size:24
Alignment explanation
Indices: 50299837--50299893 Score: 60
Period size: 26 Copynumber: 2.2 Consensus size: 24
50299827 ATCATTTTCC
*
50299837 AAAAAATATAACAAAAAATAAAAA
1 AAAAAATATAAAAAAAAATAAAAA
**
50299861 ACGAAAAATATAAAAAAGAAATAAGCA
1 A--AAAAATATAAAAAA-AAATAAAAA
50299888 AAAAAA
1 AAAAAA
50299894 GGGCAGGTCA
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
24 1 0.04
25 5 0.19
26 13 0.48
27 8 0.30
ACGTcount: A:0.79, C:0.05, G:0.05, T:0.11
Consensus pattern (24 bp):
AAAAAATATAAAAAAAAATAAAAA
Found at i:50312553 original size:50 final size:50
Alignment explanation
Indices: 50312479--50312763 Score: 187
Period size: 49 Copynumber: 5.8 Consensus size: 50
50312469 TAGGTTTCAT
* *
50312479 GAAGACATGAAGGGAAAGATTTAAG-CAGCAACGGTGAATCCAATACCAC
1 GAAGATATGAAGGGAAAGATTTAAGTCAGCAACGGTGAATCCAGTACCAC
* * * * *
50312528 GAAGATAATGGAGGGAAAGGTTTAAGT-TGCAACGGCGAA-CCTTA-TACCTC
1 GAAGAT-ATGAAGGGAAAGATTTAAGTCAGCAACGGTGAATCC--AGTACCAC
* * * * **
50312578 AGAAG-TGTGAAGGAAAAGATTTAAGCCA-CAATGGAAAATCCAGTACCAC
1 -GAAGATATGAAGGGAAAGATTTAAGTCAGCAACGGTGAATCCAGTACCAC
* * * ** * *
50312627 GAAGATAATGGAGGAAAAGGTTTAAGTC-GCAACGACGAA-CCTTGTACCTC
1 GAAGAT-ATGAAGGGAAAGATTTAAGTCAGCAACGGTGAATCC-AGTACCAC
* * *
50312677 -AAAAGCATGAAGGGAAAGATTTAAG-CCGCAACGGTGAATCCAGTACCAC
1 GAAGA-TATGAAGGGAAAGATTTAAGTCAGCAACGGTGAATCCAGTACCAC
* * * *
50312726 AAAGATATAAAGGGAAAGGTTTAAGTCA-TAACGGTGAA
1 GAAGATATGAAGGGAAAGATTTAAGTCAGCAACGGTGAA
50312764 CCTTGTAGGA
Statistics
Matches: 178, Mismatches: 41, Indels: 34
0.70 0.16 0.13
Matches are distributed among these distances:
48 6 0.03
49 97 0.54
50 70 0.39
51 5 0.03
ACGTcount: A:0.41, C:0.16, G:0.25, T:0.18
Consensus pattern (50 bp):
GAAGATATGAAGGGAAAGATTTAAGTCAGCAACGGTGAATCCAGTACCAC
Found at i:50312659 original size:99 final size:98
Alignment explanation
Indices: 50312485--50312899 Score: 422
Period size: 99 Copynumber: 4.3 Consensus size: 98
50312475 TCATGAAGAC
* * * *
50312485 ATGAAGGGAAAGATTTAAG-CAGCAACGGTGAATCCAATACCACGAAGATAATGGAGGGAAAGGT
1 ATGAAGGAAAAGATTTAAGCCA-CAACGGAGAATCCAGTACCACGAAGATAATGGAGGAAAAGGT
*
50312549 TTAAGTTGCAACGGCGAACCTTATACCTCAGAAG
65 TTAAGTCGCAACGGCGAACCTTATACCTCAGAAG
* * *
50312583 TGTGAAGGAAAAGATTTAAGCCACAATGGAAAATCCAGTACCACGAAGATAATGGAGGAAAAGGT
1 -ATGAAGGAAAAGATTTAAGCCACAACGGAGAATCCAGTACCACGAAGATAATGGAGGAAAAGGT
* * *
50312648 TTAAGTCGCAACGACGAACCTTGTACCTCAAAAG
65 TTAAGTCGCAACGGCGAACCTTATACCTCAGAAG
* * * * ** *
50312682 CATGAAGGGAAAGATTTAAGCCGCAACGGTGAATCCAGTACCACAAAGAT-ATAAAGGGAAAGGT
1 -ATGAAGGAAAAGATTTAAGCCACAACGGAGAATCCAGTACCACGAAGATAATGGAGGAAAAGGT
** * *
50312746 TTAAGTCATAACGGTGAACC-T-T--GT-AG--G
65 TTAAGTCGCAACGGCGAACCTTATACCTCAGAAG
* * *
50312773 ATGAAGGGAAAA-ATTTAAGCCGCAAC-GACGAATCTAGTACCACGAAGATACTGGA-GAGAAAG
1 ATGAA-GGAAAAGATTTAAGCCACAACGGA-GAATCCAGTACCACGAAGATAATGGAGGA-AAAG
50312835 GTTTAAGTCGCAACGGCGAACCTTATACCTCAGAAG
63 GTTTAAGTCGCAACGGCGAACCTTATACCTCAGAAG
* * * *
50312871 CATAAAGGGAAAGATTGAAGCCGCAACGG
1 -ATGAAGGAAAAGATTTAAGCCACAACGG
50312900 TAAATCTTAT
Statistics
Matches: 258, Mismatches: 43, Indels: 29
0.78 0.13 0.09
Matches are distributed among these distances:
89 1 0.00
90 38 0.15
91 31 0.12
92 1 0.00
93 2 0.01
94 1 0.00
95 1 0.00
96 3 0.01
97 1 0.00
98 33 0.13
99 143 0.55
100 3 0.01
ACGTcount: A:0.40, C:0.17, G:0.26, T:0.18
Consensus pattern (98 bp):
ATGAAGGAAAAGATTTAAGCCACAACGGAGAATCCAGTACCACGAAGATAATGGAGGAAAAGGTT
TAAGTCGCAACGGCGAACCTTATACCTCAGAAG
Found at i:50312707 original size:49 final size:49
Alignment explanation
Indices: 50312484--50312899 Score: 158
Period size: 49 Copynumber: 8.6 Consensus size: 49
50312474 TTCATGAAGA
* * ** * * *
50312484 CATGAAGGGAAAGATTTAAGCAGCAACGGTGAATCC-AATACCACGAAGAT
1 CATGAAGGGAAAGATTTAAGCCGCAACGGCGAA-CCTTGTACCTC-AAAAG
* * * ** * *
50312534 AATGGAGGGAAAGGTTTAAGTTGCAACGGCGAACCTTATACCTCAGAAG
1 CATGAAGGGAAAGATTTAAGCCGCAACGGCGAACCTTGTACCTCAAAAG
** * * * ** * * * *
50312583 TGTGAAGGAAAAGATTTAAGCCACAATGGAAAATCC-AGTACCACGAAGAT
1 CATGAAGGGAAAGATTTAAGCCGCAACGGCGAA-CCTTGTACCTC-AAAAG
* * * * * *
50312633 AATGGAGGAAAAGGTTTAAGTCGCAACGACGAACCTTGTACCTCAAAAG
1 CATGAAGGGAAAGATTTAAGCCGCAACGGCGAACCTTGTACCTCAAAAG
* * *
50312682 CATGAAGGGAAAGATTTAAGCCGCAACGGTGAATCC-AGTACCAC-AAAG
1 CATGAAGGGAAAGATTTAAGCCGCAACGGCGAA-CCTTGTACCTCAAAAG
* * * * ** *
50312730 ATATAAAGGGAAAGGTTTAAGTCATAACGGTGAACCTTG----T----AG
1 -CATGAAGGGAAAGATTTAAGCCGCAACGGCGAACCTTGTACCTCAAAAG
* * * * * *
50312772 GATGAAGGGAAAAATTTAAGCCGCAACGACGAATCTAGTACCACGAAGATA-
1 CATGAAGGGAAAGATTTAAGCCGCAACGGCGAACCTTGTACCTC-AA-A-AG
* * * * * *
50312823 C-TGGAGAGAAAGGTTTAAGTCGCAACGGCGAACCTTATACCTCAGAAG
1 CATGAAGGGAAAGATTTAAGCCGCAACGGCGAACCTTGTACCTCAAAAG
* *
50312871 CATAAAGGGAAAGATTGAAGCCGCAACGG
1 CATGAAGGGAAAGATTTAAGCCGCAACGG
50312900 TAAATCTTAT
Statistics
Matches: 257, Mismatches: 89, Indels: 41
0.66 0.23 0.11
Matches are distributed among these distances:
41 27 0.11
42 2 0.01
47 1 0.00
48 8 0.03
49 118 0.46
50 100 0.39
52 1 0.00
ACGTcount: A:0.39, C:0.17, G:0.25, T:0.18
Consensus pattern (49 bp):
CATGAAGGGAAAGATTTAAGCCGCAACGGCGAACCTTGTACCTCAAAAG
Found at i:50312842 original size:189 final size:196
Alignment explanation
Indices: 50312484--50312905 Score: 531
Period size: 189 Copynumber: 2.2 Consensus size: 196
50312474 TTCATGAAGA
* * **
50312484 CATGAAGGGAAAGATTTAAGCAGCAACGGTGAATCCAATACCACGAAGATAATGGAGGGAAAGGT
1 CATGAAGGGAAAGATTTAAGCCGCAACGGTGAATCCAATACCACAAAGATAATAAAGGGAAAGGT
** * *
50312549 TTAAGTTGCAACGGCGAACCTTATACCTCAGAAGTGTGAAGGAAAAGATTTAAGCCACAATGGAA
66 TTAAGTCACAACGGCGAACCTTATA-CTCAG-AGTATGAAGGAAAAGATTTAAGCCACAATCGAA
*
50312614 AATCCAGTACCACGAAGATAATGGAGGAAAAGGTTTAAGTCGCAACGACGAACCTTGTACCTCAA
129 AATCCAGTACCACGAAGATAATGGAGGAAAAGGTTTAAGTCGCAACGACGAACCTTATACCTCAA
50312679 AAG
194 AAG
*
50312682 CATGAAGGGAAAGATTTAAGCCGCAACGGTGAATCCAGTACCACAAAGAT-ATAAAGGGAAAGGT
1 CATGAAGGGAAAGATTTAAGCCGCAACGGTGAATCCAATACCACAAAGATAATAAAGGGAAAGGT
* * * * *
50312746 TTAAGTCATAACGGTGAACC-T-T-GT-AG-G-ATGAAGGGAAAA-ATTTAAGCCGCAA-CGACG
66 TTAAGTCACAACGGCGAACCTTATACTCAGAGTATGAA-GGAAAAGATTTAAGCCACAATCGA-A
* * *
50312803 AATCTAGTACCACGAAGATACTGGA-GAGAAAGGTTTAAGTCGCAACGGCGAACCTTATACCTCA
129 AATCCAGTACCACGAAGATAATGGAGGA-AAAGGTTTAAGTCGCAACGACGAACCTTATACCTCA
*
50312867 GAAG
193 AAAG
* * *
50312871 CATAAAGGGAAAGATTGAAGCCGCAACGGTAAATC
1 CATGAAGGGAAAGATTTAAGCCGCAACGGTGAATC
50312906 TTATACCCTG
Statistics
Matches: 199, Mismatches: 22, Indels: 15
0.84 0.09 0.06
Matches are distributed among these distances:
188 4 0.02
189 108 0.54
190 7 0.04
192 2 0.01
193 1 0.01
195 1 0.01
196 1 0.01
197 28 0.14
198 47 0.24
ACGTcount: A:0.40, C:0.17, G:0.25, T:0.18
Consensus pattern (196 bp):
CATGAAGGGAAAGATTTAAGCCGCAACGGTGAATCCAATACCACAAAGATAATAAAGGGAAAGGT
TTAAGTCACAACGGCGAACCTTATACTCAGAGTATGAAGGAAAAGATTTAAGCCACAATCGAAAA
TCCAGTACCACGAAGATAATGGAGGAAAAGGTTTAAGTCGCAACGACGAACCTTATACCTCAAAA
G
Found at i:50316832 original size:26 final size:27
Alignment explanation
Indices: 50316795--50316850 Score: 78
Period size: 26 Copynumber: 2.1 Consensus size: 27
50316785 TGGACATTCT
* *
50316795 ATTTGGGTTTGTATTTG-GACCTTTTA
1 ATTTGGGCTTGTATGTGAGACCTTTTA
*
50316821 ATTTGGGCTTGTATGTGAGACTTTTTA
1 ATTTGGGCTTGTATGTGAGACCTTTTA
50316848 ATT
1 ATT
50316851 AATTTTAATT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
26 15 0.58
27 11 0.42
ACGTcount: A:0.18, C:0.07, G:0.23, T:0.52
Consensus pattern (27 bp):
ATTTGGGCTTGTATGTGAGACCTTTTA
Found at i:50316875 original size:6 final size:6
Alignment explanation
Indices: 50316851--50316956 Score: 60
Period size: 6 Copynumber: 18.3 Consensus size: 6
50316841 CTTTTTAATT
* * * * *
50316851 AATTTT AATTTA AA-ATA AATTTA AATTTA AA-GTA AATTTA AACTCA
1 AATTTA AATTTA AATTTA AATTTA AATTTA AATTTA AATTTA AATTTA
* * * * * *
50316897 AA-ATA AATTTA AATTTA AA-ATA AATTCA AACTTA AA-ATA AATTAA
1 AATTTA AATTTA AATTTA AATTTA AATTTA AATTTA AATTTA AATTTA
*
50316942 AATTTTA AAATTA AA
1 AA-TTTA AATTTA AA
50316957 ATTTGGACTC
Statistics
Matches: 74, Mismatches: 20, Indels: 12
0.70 0.19 0.11
Matches are distributed among these distances:
5 19 0.26
6 50 0.68
7 5 0.07
ACGTcount: A:0.58, C:0.04, G:0.01, T:0.38
Consensus pattern (6 bp):
AATTTA
Found at i:50316877 original size:17 final size:17
Alignment explanation
Indices: 50316851--50316952 Score: 132
Period size: 17 Copynumber: 5.9 Consensus size: 17
50316841 CTTTTTAATT
*
50316851 AATTTTAATTTAAAATA
1 AATTTAAATTTAAAATA
*
50316868 AATTTAAATTTAAAGTA
1 AATTTAAATTTAAAATA
* *
50316885 AATTTAAACTCAAAATA
1 AATTTAAATTTAAAATA
50316902 AATTTAAATTTAAAATA
1 AATTTAAATTTAAAATA
* *
50316919 AATTCAAACTTAAAATA
1 AATTTAAATTTAAAATA
*
50316936 AATTAAAATTTTAAAAT
1 AATTTAAA-TTTAAAAT
50316953 TAAAATTTGG
Statistics
Matches: 73, Mismatches: 11, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
17 66 0.90
18 7 0.10
ACGTcount: A:0.57, C:0.04, G:0.01, T:0.38
Consensus pattern (17 bp):
AATTTAAATTTAAAATA
Found at i:50316931 original size:23 final size:23
Alignment explanation
Indices: 50316883--50316932 Score: 57
Period size: 23 Copynumber: 2.2 Consensus size: 23
50316873 AAATTTAAAG
* *
50316883 TAAATTTAAACTCAAAATAAATT
1 TAAATTTAAAATCAAAATAAACT
*
50316906 TAAATTTAAAAT-AAATTCAAACT
1 TAAATTTAAAATCAAAAT-AAACT
50316929 TAAA
1 TAAA
50316933 ATAAATTAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
22 4 0.17
23 19 0.83
ACGTcount: A:0.58, C:0.08, G:0.00, T:0.34
Consensus pattern (23 bp):
TAAATTTAAAATCAAAATAAACT
Found at i:50317467 original size:2 final size:2
Alignment explanation
Indices: 50317462--50317486 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
50317452 TCAAAATTCA
50317462 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
50317487 AATTACTAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:50318133 original size:20 final size:20
Alignment explanation
Indices: 50318101--50318139 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
50318091 ATAATTAAGA
*
50318101 AATTAAAACTTAAA-AAAAT
1 AATTAAAAATTAAATAAAAT
50318120 AATTGAAAAATTAAATAAAA
1 AATT-AAAAATTAAATAAAA
50318140 ACAATATGTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 4 0.24
20 9 0.53
21 4 0.24
ACGTcount: A:0.69, C:0.03, G:0.03, T:0.26
Consensus pattern (20 bp):
AATTAAAAATTAAATAAAAT
Found at i:50318609 original size:166 final size:169
Alignment explanation
Indices: 50318328--50318702 Score: 578
Period size: 166 Copynumber: 2.2 Consensus size: 169
50318318 TTTACCACTA
*
50318328 CACAAGCTAAGTTATTTAAAGACTGCATGATTCACGTTTGGATGGACATACATTGGGTTGAGCCA
1 CACAAGATAAGTTATTTAAAGACTGCATGATTCACGTTTGGATGGACATACATTGGGTTGAGCCA
50318393 TTATTCATCTCCCTTAAATCAGGCAATGGTTTTTACACTTTCTTCTATTCAATCATGAATTT-TA
66 TTATTCATCTCCCTTAAATCAGGCAATGGTTTTTACACTTTCTTCTATTCAATCATGAATTTGT-
* **
50318457 AAAGAATGA-CCTCCTTTTT-ACCAC-GGCACAAGCTTTC
130 AAAGAATGACCCACCTTTTTCACCACTCACACAAGCTTTC
* *
50318494 CACAAGATAAGTTATTTTAAGACTGCATGATTCACGTTTGGATGGATATACATTGGGTTGAGCCA
1 CACAAGATAAGTTATTTAAAGACTGCATGATTCACGTTTGGATGGACATACATTGGGTTGAGCCA
*
50318559 TTATTCATCTCCCTTAATTCAGGCAATGGTTTTTACACTTTCTTCTATTCAATCATGAATTTGTA
66 TTATTCATCTCCCTTAAATCAGGCAATGGTTTTTACACTTTCTTCTATTCAATCATGAATTTGTA
50318624 AAGAATGACCCACCTTTTTCCACCACTAATTTCACACAAGCTTTC
131 AAGAATGACCCACCTTTTT-CACCAC-----TCACACAAGCTTTC
* *
50318669 CACAAGATAAGTTATTTGAAGACTGCCTGATTCA
1 CACAAGATAAGTTATTTAAAGACTGCATGATTCA
50318703 AACATTGAAT
Statistics
Matches: 190, Mismatches: 9, Indels: 11
0.90 0.04 0.05
Matches are distributed among these distances:
166 132 0.69
167 10 0.05
169 5 0.03
175 43 0.23
ACGTcount: A:0.29, C:0.21, G:0.15, T:0.35
Consensus pattern (169 bp):
CACAAGATAAGTTATTTAAAGACTGCATGATTCACGTTTGGATGGACATACATTGGGTTGAGCCA
TTATTCATCTCCCTTAAATCAGGCAATGGTTTTTACACTTTCTTCTATTCAATCATGAATTTGTA
AAGAATGACCCACCTTTTTCACCACTCACACAAGCTTTC
Found at i:50322771 original size:30 final size:30
Alignment explanation
Indices: 50322703--50322801 Score: 101
Period size: 30 Copynumber: 3.3 Consensus size: 30
50322693 CTGTTTTATT
** * * *
50322703 TAAAAATGGTGTTTTGACTCCCGAACATTC
1 TAAAAATTATGTTTTGACCCCCAAACTTTC
* * * *
50322733 CAATAATTATGTTTT-ATCCTCTAAACTTTC
1 TAAAAATTATGTTTTGA-CCCCCAAACTTTC
50322763 TAAAAATTATGTTTTGACCCCCAAACTTTC
1 TAAAAATTATGTTTTGACCCCCAAACTTTC
50322793 TAAAAATTA
1 TAAAAATTA
50322802 AAAAATAATG
Statistics
Matches: 54, Mismatches: 13, Indels: 4
0.76 0.18 0.06
Matches are distributed among these distances:
29 1 0.02
30 52 0.96
31 1 0.02
ACGTcount: A:0.34, C:0.19, G:0.08, T:0.38
Consensus pattern (30 bp):
TAAAAATTATGTTTTGACCCCCAAACTTTC
Found at i:50323247 original size:24 final size:24
Alignment explanation
Indices: 50323219--50323270 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
50323209 TTCGCAGGTC
* *
50323219 AAATAAATTATGCTAATAAATACT
1 AAATAAATTATACTAATAAATAAT
**
50323243 AAATATGTTATACTAATAAATAAT
1 AAATAAATTATACTAATAAATAAT
50323267 AAAT
1 AAAT
50323271 CTTCTTGAAA
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:0.56, C:0.06, G:0.04, T:0.35
Consensus pattern (24 bp):
AAATAAATTATACTAATAAATAAT
Found at i:50326788 original size:23 final size:23
Alignment explanation
Indices: 50326758--50326813 Score: 94
Period size: 23 Copynumber: 2.4 Consensus size: 23
50326748 CTGAGGTGGC
50326758 ATCCAGTCAGCAGCTTCTAGAAG
1 ATCCAGTCAGCAGCTTCTAGAAG
50326781 ATCCAGTCAGCAGCTTCTAGAAG
1 ATCCAGTCAGCAGCTTCTAGAAG
* *
50326804 GTCTAGTCAG
1 ATCCAGTCAG
50326814 TAAGGATGGA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
23 31 1.00
ACGTcount: A:0.29, C:0.25, G:0.23, T:0.23
Consensus pattern (23 bp):
ATCCAGTCAGCAGCTTCTAGAAG
Found at i:50330799 original size:3 final size:3
Alignment explanation
Indices: 50330791--50330816 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
50330781 CCAATTCAAT
50330791 TCA TCA TCA TCA TCA TCA TCA TCA TC
1 TCA TCA TCA TCA TCA TCA TCA TCA TC
50330817 TCTTTCAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.31, C:0.35, G:0.00, T:0.35
Consensus pattern (3 bp):
TCA
Found at i:50333532 original size:3 final size:3
Alignment explanation
Indices: 50333524--50333559 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
50333514 ATCAATATTT
50333524 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
50333560 GATGGATGAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:50334627 original size:24 final size:24
Alignment explanation
Indices: 50334566--50334628 Score: 90
Period size: 24 Copynumber: 2.6 Consensus size: 24
50334556 TAGAGTAATA
* *
50334566 AGAGTTTGACTCAAACAAATAAAC
1 AGAGTTTAACTGAAACAAATAAAC
* *
50334590 AGAGTTTAATTGAAACAAATAAAT
1 AGAGTTTAACTGAAACAAATAAAC
50334614 AGAGTTTAACTGAAA
1 AGAGTTTAACTGAAA
50334629 GATTATTTCT
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 34 1.00
ACGTcount: A:0.51, C:0.10, G:0.14, T:0.25
Consensus pattern (24 bp):
AGAGTTTAACTGAAACAAATAAAC
Found at i:50336617 original size:24 final size:24
Alignment explanation
Indices: 50336556--50336618 Score: 90
Period size: 24 Copynumber: 2.6 Consensus size: 24
50336546 TAGAGTAATA
* * *
50336556 AGAGTTTGACTCAAACAAATAAAT
1 AGAGTTTAACTGAAACAAATAAAC
*
50336580 AGAGTTTAATTGAAACAAATAAAC
1 AGAGTTTAACTGAAACAAATAAAC
50336604 AGAGTTTAACTGAAA
1 AGAGTTTAACTGAAA
50336619 GATTATTTCT
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 34 1.00
ACGTcount: A:0.51, C:0.10, G:0.14, T:0.25
Consensus pattern (24 bp):
AGAGTTTAACTGAAACAAATAAAC
Found at i:50349312 original size:58 final size:58
Alignment explanation
Indices: 50349215--50349362 Score: 140
Period size: 58 Copynumber: 2.6 Consensus size: 58
50349205 TACCCCGGGC
* *** * * * *
50349215 AAAATGGTA-ATTTTGGAC-TCTCGAAGGTAAAATGGTAATTTTGAAAAAATTTGGGGTTA
1 AAAATGG-ACATTTTGGACATC-CGAGGGTAAAACAATAATTTT-AAAAAAATAGGGATCA
50349274 AAAAT-GACATTTTGGACATCCGAGGGTAAAACAATAATTTTAAAAAAATAGGGATCA
1 AAAATGGACATTTTGGACATCCGAGGGTAAAACAATAATTTTAAAAAAATAGGGATCA
** * *
50349331 AAAATGGATTTTTTGGACATTCGGGGGTAAAA
1 AAAATGGACATTTTGGACATCCGAGGGTAAAA
50349363 TTGTAATTTT
Statistics
Matches: 74, Mismatches: 12, Indels: 7
0.80 0.13 0.08
Matches are distributed among these distances:
57 18 0.24
58 49 0.66
59 7 0.09
ACGTcount: A:0.41, C:0.07, G:0.22, T:0.30
Consensus pattern (58 bp):
AAAATGGACATTTTGGACATCCGAGGGTAAAACAATAATTTTAAAAAAATAGGGATCA
Found at i:50349370 original size:58 final size:57
Alignment explanation
Indices: 50349215--50349490 Score: 159
Period size: 59 Copynumber: 4.7 Consensus size: 57
50349205 TACCCCGGGC
** * * *
50349215 AAAATGGTAA-TTTTGGAC-TCTCGAAGGTAAAATGGTAATTTTGAAAAAATTTGGGGTTA
1 AAAATGG-AATTTTTGGACAT-TCGGGGGTAAAATTGTAATTTT-AAAAAA-TTAGGGTCA
* * *** *
50349274 AAAAT-GACA-TTTTGGACATCCGAGGGTAAAACAATAATTTTAAAAAAATAGGGATCA
1 AAAATGGA-ATTTTTGGACATTCGGGGGTAAAATTGTAATTTTAAAAAATTAGGG-TCA
* * ** *
50349331 AAAATGGATTTTTTGGACATTCGGGGGTAAAATTGTAATTTTTGAAAGTTTCGAGGTCA
1 AAAATGGAATTTTTGGACATTCGGGGGTAAAATTGTAA-TTTTAAAAAATTAG-GGTCA
* * ** ** * *
50349390 AAAATGGAATTTTTGGA-AGTTAGGGGGTAAAAATGTAATTTTTGGAAGTTTCGAGATCA
1 AAAATGGAATTTTTGGACA-TTCGGGGGTAAAATTGTAA-TTTTAAAAAATTAG-GGTCA
* * *
50349449 AAAATAGAATTTTTGGA-AGTTCGAGGGTAAAAATGTAATTTT
1 AAAATGGAATTTTTGGACA-TTCGGGGGTAAAATTGTAATTTT
50349491 TGAAAGTTTC
Statistics
Matches: 182, Mismatches: 27, Indels: 17
0.81 0.12 0.08
Matches are distributed among these distances:
56 4 0.02
57 14 0.08
58 57 0.31
59 105 0.58
60 2 0.01
ACGTcount: A:0.38, C:0.06, G:0.23, T:0.33
Consensus pattern (57 bp):
AAAATGGAATTTTTGGACATTCGGGGGTAAAATTGTAATTTTAAAAAATTAGGGTCA
Found at i:50349401 original size:30 final size:29
Alignment explanation
Indices: 50349330--50349589 Score: 222
Period size: 29 Copynumber: 8.8 Consensus size: 29
50349320 AATAGGGATC
* *
50349330 AAAAATGGATTTTTTGGACA--TTCGGGGGT
1 AAAAATGGAATTTTTGGA-AGTTTC-GAGGT
* * *
50349359 AAAATTGTAATTTTTGAAAGTTTCGAGGT
1 AAAAATGGAATTTTTGGAAGTTTCGAGGT
** *
50349388 CAAAAATGGAATTTTTGGAAGTTAGGGGGT
1 -AAAAATGGAATTTTTGGAAGTTTCGAGGT
* *
50349418 AAAAATGTAATTTTTGGAAGTTTCGAGAT
1 AAAAATGGAATTTTTGGAAGTTTCGAGGT
*
50349447 CAAAAATAGAATTTTTGGAAG-TTCGAGGGT
1 -AAAAATGGAATTTTTGGAAGTTTCGA-GGT
* *
50349477 AAAAATGTAATTTTTGAAAGTTTC-AGGGT
1 AAAAATGGAATTTTTGGAAGTTTCGA-GGT
* * ** * *
50349506 GAAAATGGAGTTTTTAAAAGTTTAAGGGGT
1 AAAAATGGAATTTTTGGAAGTTT-CGAGGT
*
50349536 AAAAATGTAATTTTTGGAAGTTTCGAGGT
1 AAAAATGGAATTTTTGGAAGTTTCGAGGT
*
50349565 CAAAAATAGAATTTTTGGATAGTTT
1 -AAAAATGGAATTTTTGGA-AGTTT
50349590 AGGGACCTTC
Statistics
Matches: 184, Mismatches: 37, Indels: 18
0.77 0.15 0.08
Matches are distributed among these distances:
28 1 0.01
29 92 0.50
30 86 0.47
31 5 0.03
ACGTcount: A:0.35, C:0.04, G:0.25, T:0.36
Consensus pattern (29 bp):
AAAAATGGAATTTTTGGAAGTTTCGAGGT
Found at i:50349416 original size:59 final size:59
Alignment explanation
Indices: 50349328--50349593 Score: 331
Period size: 59 Copynumber: 4.5 Consensus size: 59
50349318 AAAATAGGGA
* * *
50349328 TCAAAAATGGATTTTTTGGACA-TTCGGGGGTAAAATTGTAATTTTTGAAAGTTTCGAGG
1 TCAAAAATGGAATTTTTGGA-AGTTAGGGGGTAAAAATGTAATTTTTGAAAGTTTCGAGG
* *
50349387 TCAAAAATGGAATTTTTGGAAGTTAGGGGGTAAAAATGTAATTTTTGGAAGTTTCGAGA
1 TCAAAAATGGAATTTTTGGAAGTTAGGGGGTAAAAATGTAATTTTTGAAAGTTTCGAGG
* * *
50349446 TCAAAAATAGAATTTTTGGAAGTTCGAGGGTAAAAATGTAATTTTTGAAAGTTTC-AGGG
1 TCAAAAATGGAATTTTTGGAAGTTAGGGGGTAAAAATGTAATTTTTGAAAGTTTCGA-GG
* * ** * *
50349505 T-GAAAATGGAGTTTTTAAAAGTTTAAGGGGTAAAAATGTAATTTTTGGAAGTTTCGAGG
1 TCAAAAATGGAATTTTTGGAAG-TTAGGGGGTAAAAATGTAATTTTTGAAAGTTTCGAGG
*
50349564 TCAAAAATAGAATTTTTGGATAGTTTAGGG
1 TCAAAAATGGAATTTTTGGA-AG-TTAGGG
50349594 ACCTTCAGGG
Statistics
Matches: 176, Mismatches: 25, Indels: 10
0.83 0.12 0.05
Matches are distributed among these distances:
58 17 0.10
59 137 0.78
60 14 0.08
61 8 0.05
ACGTcount: A:0.35, C:0.04, G:0.26, T:0.35
Consensus pattern (59 bp):
TCAAAAATGGAATTTTTGGAAGTTAGGGGGTAAAAATGTAATTTTTGAAAGTTTCGAGG
Found at i:50349486 original size:118 final size:119
Alignment explanation
Indices: 50349326--50349588 Score: 381
Period size: 118 Copynumber: 2.2 Consensus size: 119
50349316 AAAAAATAGG
* * * *
50349326 GATCAAAAATGGATTTTTTGGACA-TTCGGGGGTAAAATTGTAATTTTTGAAAGTTTC-GAGGTC
1 GATCAAAAATAGAATTTTTGGACAGTTCGAGGGTAAAAATGTAATTTTTGAAAGTTTCAG-GGT-
** *
50349389 AAAAATGGAATTTTTGGAAG-TTAGGGGGTAAAAATGTAATTTTTGGAAGTTTCGA
64 AAAAATGGAATTTTTAAAAGTTTAAGGGGTAAAAATGTAATTTTTGGAAGTTTCGA
*
50349444 GATCAAAAATAGAATTTTTGGA-AGTTCGAGGGTAAAAATGTAATTTTTGAAAGTTTCAGGGTGA
1 GATCAAAAATAGAATTTTTGGACAGTTCGAGGGTAAAAATGTAATTTTTGAAAGTTTCAGGGTAA
*
50349508 AAATGGAGTTTTTAAAAGTTTAAGGGGTAAAAATGTAATTTTTGGAAGTTTCGA
66 AAATGGAATTTTTAAAAGTTTAAGGGGTAAAAATGTAATTTTTGGAAGTTTCGA
* *
50349562 GGTCAAAAATAGAATTTTTGGATAGTT
1 GATCAAAAATAGAATTTTTGGACAGTT
50349589 TAGGGACCTT
Statistics
Matches: 131, Mismatches: 10, Indels: 7
0.89 0.07 0.05
Matches are distributed among these distances:
117 17 0.13
118 109 0.83
119 5 0.04
ACGTcount: A:0.35, C:0.04, G:0.25, T:0.35
Consensus pattern (119 bp):
GATCAAAAATAGAATTTTTGGACAGTTCGAGGGTAAAAATGTAATTTTTGAAAGTTTCAGGGTAA
AAATGGAATTTTTAAAAGTTTAAGGGGTAAAAATGTAATTTTTGGAAGTTTCGA
Found at i:50351395 original size:13 final size:14
Alignment explanation
Indices: 50351355--50351395 Score: 57
Period size: 14 Copynumber: 2.9 Consensus size: 14
50351345 CAATTGAACT
50351355 TTTGTAATTTGGACA
1 TTTGTAA-TTGGACA
50351370 TTTGTAATTGGACA
1 TTTGTAATTGGACA
*
50351384 TTT-TAGTTGGAC
1 TTTGTAATTGGAC
50351396 CTTTAATTAA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
13 8 0.32
14 10 0.40
15 7 0.28
ACGTcount: A:0.24, C:0.07, G:0.22, T:0.46
Consensus pattern (14 bp):
TTTGTAATTGGACA
Found at i:50351434 original size:11 final size:11
Alignment explanation
Indices: 50351419--50351508 Score: 83
Period size: 11 Copynumber: 8.0 Consensus size: 11
50351409 TATAATAATT
50351419 TTAAATTTAAA
1 TTAAATTTAAA
* *
50351430 ATAAATTCAAA
1 TTAAATTTAAA
*
50351441 CTTAAATTTAAT
1 -TTAAATTTAAA
*
50351453 TTAATTTTAAA
1 TTAAATTTAAA
50351464 TTAAATTTAAA
1 TTAAATTTAAA
**
50351475 TTTAAA-ACAAA
1 -TTAAATTTAAA
*
50351486 TTTAATTTTAAA
1 -TTAAATTTAAA
50351498 TTAAATTTAAA
1 TTAAATTTAAA
50351509 ATAATTTAGT
Statistics
Matches: 62, Mismatches: 14, Indels: 6
0.76 0.17 0.07
Matches are distributed among these distances:
11 46 0.74
12 16 0.26
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.44
Consensus pattern (11 bp):
TTAAATTTAAA
Found at i:50351445 original size:17 final size:17
Alignment explanation
Indices: 50351402--50351508 Score: 115
Period size: 17 Copynumber: 6.3 Consensus size: 17
50351392 GGACCTTTAA
* *
50351402 TTAAATTTATAATAATT
1 TTAAATTTAAAATAAAT
50351419 TTAAATTTAAAATAAAT
1 TTAAATTTAAAATAAAT
* * * *
50351436 TCAAACTTAAATTTAAT
1 TTAAATTTAAAATAAAT
* *
50351453 TTAATTTTAAATTAAAT
1 TTAAATTTAAAATAAAT
*
50351470 TTAAATTTAAAACAAAT
1 TTAAATTTAAAATAAAT
* *
50351487 TTAATTTTAAATTAAAT
1 TTAAATTTAAAATAAAT
50351504 TTAAA
1 TTAAA
50351509 ATAATTTAGT
Statistics
Matches: 73, Mismatches: 17, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
17 73 1.00
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (17 bp):
TTAAATTTAAAATAAAT
Found at i:50351505 original size:34 final size:34
Alignment explanation
Indices: 50351402--50351508 Score: 133
Period size: 34 Copynumber: 3.1 Consensus size: 34
50351392 GGACCTTTAA
* * * *
50351402 TTAAATTTATAATAATTTTAAATTTAAAATAAAT
1 TTAAATTTAAAATAAATTTAATTTTAAATTAAAT
* * * *
50351436 TCAAACTTAAATTTAATTTAATTTTAAATTAAAT
1 TTAAATTTAAAATAAATTTAATTTTAAATTAAAT
*
50351470 TTAAATTTAAAACAAATTTAATTTTAAATTAAAT
1 TTAAATTTAAAATAAATTTAATTTTAAATTAAAT
50351504 TTAAA
1 TTAAA
50351509 ATAATTTAGT
Statistics
Matches: 60, Mismatches: 13, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
34 60 1.00
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (34 bp):
TTAAATTTAAAATAAATTTAATTTTAAATTAAAT
Found at i:50359091 original size:29 final size:30
Alignment explanation
Indices: 50358959--50359261 Score: 355
Period size: 30 Copynumber: 10.2 Consensus size: 30
50358949 AAAATTGTCC
*
50358959 AAAATTACATTTTGACACCT-AAACTTTCCA
1 AAAATCACATTTTGAC-CCTCAAACTTTCCA
* ** *
50358989 AAAATTACATTTTGACCCCTCGTACTTTTCA
1 AAAATCACATTTTGA-CCCTCAAACTTTCCA
*
50359020 AAAATCACATTTTGACCCTCAAACTTTCTA
1 AAAATCACATTTTGACCCTCAAACTTTCCA
50359050 AAAATCACATTTTGACCCTCAAAC-TTCCA
1 AAAATCACATTTTGACCCTCAAACTTTCCA
*
50359079 AAAATCACATTTTAACCCTCAAAC-TTCCA
1 AAAATCACATTTTGACCCTCAAACTTTCCA
* * * *
50359108 AAAAACACATTTTAAGCTTCAAACTTTCCA
1 AAAATCACATTTTGACCCTCAAACTTTCCA
*
50359138 AAAATCACATTTGGACCC-CTAAACTTTCCA
1 AAAATCACATTTTGACCCTC-AAACTTTCCA
* * **
50359168 AAAA-AACATTTTGGCCCTCAAACTTTTTA
1 AAAATCACATTTTGACCCTCAAACTTTCCA
* * * * *
50359197 AAAATTACATTTTAACCCTTAAAGTTTTCA
1 AAAATCACATTTTGACCCTCAAACTTTCCA
50359227 AAAATCACATTTTGACCCTCAAACTTTCCA
1 AAAATCACATTTTGACCCTCAAACTTTCCA
50359257 AAAAT
1 AAAAT
50359262 TATCCTTGAA
Statistics
Matches: 233, Mismatches: 34, Indels: 12
0.84 0.12 0.04
Matches are distributed among these distances:
29 76 0.33
30 135 0.58
31 22 0.09
ACGTcount: A:0.39, C:0.25, G:0.04, T:0.32
Consensus pattern (30 bp):
AAAATCACATTTTGACCCTCAAACTTTCCA
Found at i:50359103 original size:59 final size:60
Alignment explanation
Indices: 50358959--50359261 Score: 355
Period size: 59 Copynumber: 5.1 Consensus size: 60
50358949 AAAATTGTCC
* * ** *
50358959 AAAATTACATTTTGACACCT-AAACTTTCCAAAAATTACATTTTGACCCCTCGTACTTTTCA
1 AAAATCACATTTTGAC-CCTCAAACTTTCCAAAAATCACATTTTGA-CCCTCAAACTTTCCA
*
50359020 AAAATCACATTTTGACCCTCAAACTTTCTAAAAATCACATTTTGACCCTCAAAC-TTCCA
1 AAAATCACATTTTGACCCTCAAACTTTCCAAAAATCACATTTTGACCCTCAAACTTTCCA
* * * * *
50359079 AAAATCACATTTTAACCCTCAAAC-TTCCAAAAAACACATTTTAAGCTTCAAACTTTCCA
1 AAAATCACATTTTGACCCTCAAACTTTCCAAAAATCACATTTTGACCCTCAAACTTTCCA
* * * **
50359138 AAAATCACATTTGGACCC-CTAAACTTTCCAAAAA-AACATTTTGGCCCTCAAACTTTTTA
1 AAAATCACATTTTGACCCTC-AAACTTTCCAAAAATCACATTTTGACCCTCAAACTTTCCA
* * * * *
50359197 AAAATTACATTTTAACCCTTAAAGTTTTCAAAAATCACATTTTGACCCTCAAACTTTCCA
1 AAAATCACATTTTGACCCTCAAACTTTCCAAAAATCACATTTTGACCCTCAAACTTTCCA
50359257 AAAAT
1 AAAAT
50359262 TATCCTTGAA
Statistics
Matches: 205, Mismatches: 31, Indels: 13
0.82 0.12 0.05
Matches are distributed among these distances:
58 25 0.12
59 97 0.47
60 45 0.22
61 38 0.19
ACGTcount: A:0.39, C:0.25, G:0.04, T:0.32
Consensus pattern (60 bp):
AAAATCACATTTTGACCCTCAAACTTTCCAAAAATCACATTTTGACCCTCAAACTTTCCA
Found at i:50359340 original size:82 final size:82
Alignment explanation
Indices: 50359188--50359342 Score: 199
Period size: 82 Copynumber: 1.9 Consensus size: 82
50359178 TTGGCCCTCA
* *
50359188 AACTTTTTAAAAATTACATTTTAACCCTTAAAGTTTTCAAAAATCACATTTTGACCCTCAAACTT
1 AACTTTTCAAAAATTACATTTTAACCCTCAAAGTTTTCAAAAATCACATTTTGACCCTCAAACTT
50359253 TCCAAAAATTATCCTTG
66 TCCAAAAATTATCCTTG
* ** * *
50359270 AACTTTTCAAAAATTACATTTTGAA-CCTCAAA-TTTTTACAAAATTTCATTTTGA-TCTCGAAC
1 AACTTTTCAAAAATTACATTTT-AACCCTCAAAGTTTTCA-AAAATCACATTTTGACCCTCAAAC
*
50359332 TTTCCCAAAAT
64 TTTCCAAAAAT
50359343 CACATTTTAA
Statistics
Matches: 63, Mismatches: 8, Indels: 5
0.83 0.11 0.07
Matches are distributed among these distances:
81 21 0.33
82 40 0.63
83 2 0.03
ACGTcount: A:0.37, C:0.20, G:0.04, T:0.39
Consensus pattern (82 bp):
AACTTTTCAAAAATTACATTTTAACCCTCAAAGTTTTCAAAAATCACATTTTGACCCTCAAACTT
TCCAAAAATTATCCTTG
Found at i:50360283 original size:15 final size:15
Alignment explanation
Indices: 50360259--50360300 Score: 52
Period size: 14 Copynumber: 2.9 Consensus size: 15
50360249 TAAGCACATC
50360259 AAAT-AAGAATTAAT
1 AAATCAAGAATTAAT
* *
50360273 AACTCAAGAA-TATT
1 AAATCAAGAATTAAT
50360287 AAATCAAGAATTAA
1 AAATCAAGAATTAA
50360301 GCACACATAA
Statistics
Matches: 22, Mismatches: 4, Indels: 3
0.76 0.14 0.10
Matches are distributed among these distances:
14 15 0.68
15 7 0.32
ACGTcount: A:0.60, C:0.07, G:0.07, T:0.26
Consensus pattern (15 bp):
AAATCAAGAATTAAT
Found at i:50360705 original size:25 final size:23
Alignment explanation
Indices: 50360677--50360722 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 23
50360667 GTTGAATCCA
50360677 AATTAAATTCTAAAAAGATAATTAG
1 AATTAAA-TCTAAAAA-ATAATTAG
*
50360702 AATTAAATCTAAACAATAATT
1 AATTAAATCTAAAAAATAATT
50360723 CCCTAATTGG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 6 0.30
24 7 0.35
25 7 0.35
ACGTcount: A:0.57, C:0.07, G:0.04, T:0.33
Consensus pattern (23 bp):
AATTAAATCTAAAAAATAATTAG
Found at i:50361811 original size:7 final size:7
Alignment explanation
Indices: 50361799--50361837 Score: 60
Period size: 7 Copynumber: 5.6 Consensus size: 7
50361789 GCCCAGCTTC
50361799 TTTCCAA
1 TTTCCAA
50361806 TTTCCAA
1 TTTCCAA
50361813 TTTCCAA
1 TTTCCAA
*
50361820 TTTCCAT
1 TTTCCAA
*
50361827 TTTCCAT
1 TTTCCAA
50361834 TTTC
1 TTTC
50361838 AAATATTTGA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
7 31 1.00
ACGTcount: A:0.21, C:0.28, G:0.00, T:0.51
Consensus pattern (7 bp):
TTTCCAA
Found at i:50383922 original size:68 final size:68
Alignment explanation
Indices: 50383807--50384008 Score: 251
Period size: 68 Copynumber: 3.0 Consensus size: 68
50383797 TTTACACATT
* * * * * * * *
50383807 AATCACATTAATCATATGAGTACTTAAACATTTAACACAACACATATTAATCACATTTAATCACA
1 AATCACATTAGTCACATGAATATTTCAACATTTATCACATCATATATTAATCACATTTAATCACA
50383872 TAC
66 TAC
* * * *
50383875 AATCACATTAGTCACATGAATATTTCAGCATTTATCACATCGTATATTAATCACATTTAGTCATA
1 AATCACATTAGTCACATGAATATTTCAACATTTATCACATCATATATTAATCACATTTAATCACA
**
50383940 TTT
66 TAC
* * *
50383943 AATCACATTGGTCACATGAATATTTCAACATTTATCACATCATGTATTAATCTCATTTAATCACA
1 AATCACATTAGTCACATGAATATTTCAACATTTATCACATCATATATTAATCACATTTAATCACA
50384008 T
66 T
50384009 GAATATTTCA
Statistics
Matches: 113, Mismatches: 21, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
68 113 1.00
ACGTcount: A:0.39, C:0.19, G:0.05, T:0.36
Consensus pattern (68 bp):
AATCACATTAGTCACATGAATATTTCAACATTTATCACATCATATATTAATCACATTTAATCACA
TAC
Found at i:50384008 original size:117 final size:108
Alignment explanation
Indices: 50383924--50384157 Score: 278
Period size: 108 Copynumber: 2.2 Consensus size: 108
50383914 TCGTATATTA
* * * ** * *
50383924 ATCACAT-TTAGTCATATTTAATCACA-TTGGTCACATGAATATTTCAACATTTATCACATCATG
1 ATCACATATTAATCACATTTAGTCACATTTAATCACATGAATATTTTAACATTTATCACATCACG
* *
50383987 TATTAATCTCATTTAATCACATGAATATTTCAGTATTTATCAC
66 TATTAATCACATTTAATCACATGAATATTTCAGCATTTATCAC
*
50384030 ATCACATATTAATCACATTTAGTCACATTTAATCACATGAATATTTTAACATTTATCACATCCCG
1 ATCACATATTAATCACATTTAGTCACATTTAATCACATGAATATTTTAACATTTATCACATCACG
* * * * **
50384095 TATTAATCACATTTAGTCACATTAATATGTAAGCATAAATCAC
66 TATTAATCACATTTAATCACATGAATATTTCAGCATTTATCAC
*
50384138 ATTA-ATATTCAA-CACATTTA
1 ATCACATATT-AATCACATTTA
50384158 ATTATAATTA
Statistics
Matches: 108, Mismatches: 17, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
106 7 0.06
107 29 0.27
108 72 0.67
ACGTcount: A:0.38, C:0.18, G:0.06, T:0.38
Consensus pattern (108 bp):
ATCACATATTAATCACATTTAGTCACATTTAATCACATGAATATTTTAACATTTATCACATCACG
TATTAATCACATTTAATCACATGAATATTTCAGCATTTATCAC
Found at i:50384009 original size:49 final size:49
Alignment explanation
Indices: 50383954--50384122 Score: 167
Period size: 49 Copynumber: 3.2 Consensus size: 49
50383944 ATCACATTGG
*
50383954 TCACATGAATATTTCAACATTTATCACATCATGTATTAATCTCATTTAA
1 TCACATGAATATTTCAACATTTATCACATCACGTATTAATCTCATTTAA
** *
50384003 TCACATGAATATTTCAGTATTTATCACATCACATATTAATCACATTTAGTCACATTTAA
1 TCACATGAATATTTCAACATTTATCACATCACGTATTAAT--C------T--CATTTAA
* * * *
50384062 TCACATGAATATTTTAACATTTATCACATCCCGTATTAATCACATTTAG
1 TCACATGAATATTTCAACATTTATCACATCACGTATTAATCTCATTTAA
*
50384111 TCACATTAATAT
1 TCACATGAATAT
50384123 GTAAGCATAA
Statistics
Matches: 98, Mismatches: 12, Indels: 20
0.75 0.09 0.15
Matches are distributed among these distances:
49 53 0.54
51 1 0.01
57 2 0.02
59 42 0.43
ACGTcount: A:0.37, C:0.19, G:0.05, T:0.40
Consensus pattern (49 bp):
TCACATGAATATTTCAACATTTATCACATCACGTATTAATCTCATTTAA
Found at i:50384057 original size:10 final size:10
Alignment explanation
Indices: 50384030--50384067 Score: 58
Period size: 10 Copynumber: 3.7 Consensus size: 10
50384020 TATTTATCAC
50384030 ATCACATATTA
1 ATCACAT-TTA
50384041 ATCACATTTA
1 ATCACATTTA
*
50384051 GTCACATTTA
1 ATCACATTTA
50384061 ATCACAT
1 ATCACAT
50384068 GAATATTTTA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
10 18 0.72
11 7 0.28
ACGTcount: A:0.39, C:0.21, G:0.03, T:0.37
Consensus pattern (10 bp):
ATCACATTTA
Found at i:50384066 original size:59 final size:59
Alignment explanation
Indices: 50383856--50384117 Score: 224
Period size: 59 Copynumber: 4.5 Consensus size: 59
50383846 ACACATATTA
** * * *
50383856 ATCACAT-TTAATCACATACAATCACA-TTAGTCACATGAATATTTCAGCATTTATCAC
1 ATCACATATTAATCACATTTAGTCACATTTAATCACATGAATATTTCAACATTTATCAC
** *
50383913 ATCGTATATTAATCACATTTAGTCATATTTAATCACATTGGTCACATGAATATTTCAACATTTAT
1 ATCACATATTAATCACATTTAGTCACA-TT--T-A-A----TCACATGAATATTTCAACATTTAT
50383978 CAC
57 CAC
** **
50383981 ATCATGTATTAAT--C------T--CATTTAATCACATGAATATTTCAGTATTTATCAC
1 ATCACATATTAATCACATTTAGTCACATTTAATCACATGAATATTTCAACATTTATCAC
*
50384030 ATCACATATTAATCACATTTAGTCACATTTAATCACATGAATATTTTAACATTTATCAC
1 ATCACATATTAATCACATTTAGTCACATTTAATCACATGAATATTTCAACATTTATCAC
* *
50384089 ATCCCGTATTAATCACATTTAGTCACATT
1 ATCACATATTAATCACATTTAGTCACATT
50384118 AATATGTAAG
Statistics
Matches: 164, Mismatches: 20, Indels: 40
0.73 0.09 0.18
Matches are distributed among these distances:
49 36 0.22
51 1 0.01
53 1 0.01
54 1 0.01
55 1 0.01
57 8 0.05
58 16 0.10
59 58 0.35
60 2 0.01
62 1 0.01
63 1 0.01
66 1 0.01
68 37 0.23
ACGTcount: A:0.36, C:0.19, G:0.06, T:0.39
Consensus pattern (59 bp):
ATCACATATTAATCACATTTAGTCACATTTAATCACATGAATATTTCAACATTTATCAC
Found at i:50384073 original size:108 final size:106
Alignment explanation
Indices: 50383924--50384122 Score: 281
Period size: 108 Copynumber: 1.9 Consensus size: 106
50383914 TCGTATATTA
* * ** *
50383924 ATCACATTTAGTCATATTTAATCACATTGGTCACATGAATATTTCAACATTTATCACATCATGTA
1 ATCACATTTAATCACATTTAATCACATTAATCACATGAATATTTCAACATTTATCACATCACGTA
*
50383989 TTAATCTCATTTAATCACATGAATATTTCAGTATTTATCAC
66 TTAATCACATTTAATCACATGAATATTTCAGTATTTATCAC
* * *
50384030 ATCACATATTAATCACATTTAGTCACATTTAATCACATGAATATTTTAACATTTATCACATCCCG
1 ATCACAT-TTAATCACATTTAATCACA-TTAATCACATGAATATTTCAACATTTATCACATCACG
* *
50384095 TATTAATCACATTTAGTCACATTAATAT
64 TATTAATCACATTTAATCACATGAATAT
50384123 GTAAGCATAA
Statistics
Matches: 80, Mismatches: 11, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
106 7 0.09
107 16 0.20
108 57 0.71
ACGTcount: A:0.36, C:0.19, G:0.06, T:0.40
Consensus pattern (106 bp):
ATCACATTTAATCACATTTAATCACATTAATCACATGAATATTTCAACATTTATCACATCACGTA
TTAATCACATTTAATCACATGAATATTTCAGTATTTATCAC
Found at i:50384354 original size:66 final size:65
Alignment explanation
Indices: 50384226--50384361 Score: 182
Period size: 66 Copynumber: 2.1 Consensus size: 65
50384216 GATACACAAA
* * * * * *
50384226 TCTCCAAACACACCAAAAGACTCATAGATCGAACATATTCCAAAACTGAAGCATATAGCTAACAC
1 TCTCCAAACACACCAAAAGAATCATAAACCAAACATATCCCAAAACTGAAGCATAAAGCTAACAC
* * *
50384291 TCTCCAAACACACCAAAAGAATCATAAAGCCAAACATGTCCCAAAAGTTAAGCATAAAGCTAACA
1 TCTCCAAACACACCAAAAGAATCATAAA-CCAAACATATCCCAAAACTGAAGCATAAAGCTAACA
50384356 C
65 C
50384357 TCTCC
1 TCTCC
50384362 TTATTTCCCC
Statistics
Matches: 61, Mismatches: 9, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
65 26 0.43
66 35 0.57
ACGTcount: A:0.45, C:0.29, G:0.09, T:0.18
Consensus pattern (65 bp):
TCTCCAAACACACCAAAAGAATCATAAACCAAACATATCCCAAAACTGAAGCATAAAGCTAACAC
Found at i:50384669 original size:36 final size:36
Alignment explanation
Indices: 50384609--50384791 Score: 226
Period size: 36 Copynumber: 5.1 Consensus size: 36
50384599 TTAGCACAAA
* * * *
50384609 ATATTTACTGTCACATTGCATGAATAACATACTCAT
1 ATATTTATTGTCACATGGCATGAATAACATACCCAC
* *
50384645 ATATTTATTGTCTCATGGCTTGAATAACATACCCAC
1 ATATTTATTGTCACATGGCATGAATAACATACCCAC
* *
50384681 ATATTTA--CTCACATGGCATGAATAACATACCAAC
1 ATATTTATTGTCACATGGCATGAATAACATACCCAC
*
50384715 ATATTTATTGTCTCATGGCATGAATAACATACCCCAC
1 ATATTTATTGTCACATGGCATGAATAACATA-CCCAC
* ** *
50384752 ATATTTATTATCACATGATATGAATAACATACCTAC
1 ATATTTATTGTCACATGGCATGAATAACATACCCAC
50384788 ATAT
1 ATAT
50384792 CCACTTTCAC
Statistics
Matches: 126, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
34 30 0.24
36 65 0.52
37 31 0.25
ACGTcount: A:0.37, C:0.21, G:0.09, T:0.34
Consensus pattern (36 bp):
ATATTTATTGTCACATGGCATGAATAACATACCCAC
Found at i:50384724 original size:70 final size:70
Alignment explanation
Indices: 50384609--50384791 Score: 242
Period size: 70 Copynumber: 2.5 Consensus size: 70
50384599 TTAGCACAAA
* * *
50384609 ATATTTACTGTCACATTGCATGAATAACATACTCATATATTTATTGTCTCATGGCTTGAATAACA
1 ATATTTAC--TCACATGGCATGAATAACATAC-CACATATTTATTGTCTCATGGCATGAATAACA
50384674 TA-CCCAC
63 TACCCCAC
50384681 ATATTTACTCACATGGCATGAATAACATACCAACATATTTATTGTCTCATGGCATGAATAACATA
1 ATATTTACTCACATGGCATGAATAACATACC-ACATATTTATTGTCTCATGGCATGAATAACATA
50384746 CCCCAC
65 CCCCAC
* **
50384752 ATATTTATTATCACATGATATGAATAACATACCTACATAT
1 ATATTTA--CTCACATGGCATGAATAACATACC-ACATAT
50384792 CCACTTTCAC
Statistics
Matches: 100, Mismatches: 7, Indels: 7
0.88 0.06 0.06
Matches are distributed among these distances:
69 1 0.01
70 52 0.52
71 12 0.12
72 8 0.08
73 27 0.27
ACGTcount: A:0.37, C:0.21, G:0.09, T:0.34
Consensus pattern (70 bp):
ATATTTACTCACATGGCATGAATAACATACCACATATTTATTGTCTCATGGCATGAATAACATAC
CCCAC
Found at i:50395576 original size:11 final size:12
Alignment explanation
Indices: 50395552--50395576 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
50395542 AAATACATTT
50395552 AAAAACATTAAA
1 AAAAACATTAAA
50395564 AAAAACATTAAA
1 AAAAACATTAAA
50395576 A
1 A
50395577 TAAATAAATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.76, C:0.08, G:0.00, T:0.16
Consensus pattern (12 bp):
AAAAACATTAAA
Found at i:50395788 original size:12 final size:12
Alignment explanation
Indices: 50395773--50395841 Score: 63
Period size: 12 Copynumber: 5.8 Consensus size: 12
50395763 CAATATTAAA
*
50395773 AACAATAAAAAT
1 AACAACAAAAAT
*
50395785 AACAACAAAAAC
1 AACAACAAAAAT
50395797 AACAACAAAAAT
1 AACAACAAAAAT
*
50395809 AA-ACACAAAAAC
1 AACA-ACAAAAAT
*
50395821 AAC-ACGAAAA-
1 AACAACAAAAAT
50395831 AACAATCAAAA
1 AACAA-CAAAA
50395842 TAGTAAAAAA
Statistics
Matches: 47, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
10 3 0.06
11 8 0.17
12 36 0.77
ACGTcount: A:0.74, C:0.19, G:0.01, T:0.06
Consensus pattern (12 bp):
AACAACAAAAAT
Found at i:50395794 original size:32 final size:31
Alignment explanation
Indices: 50395702--50395794 Score: 78
Period size: 32 Copynumber: 2.9 Consensus size: 31
50395692 TGAAATAATA
* *
50395702 ATAAAAACATATAAAAAATAACATCCAAACAAT
1 ATAAAAACA-AT-AAAAATAACAACAAAACAAT
* ** * * *
50395735 AAAAATAACAACCAAAACAGCAGCAAAACAAT
1 ATAAA-AACAATAAAAATAACAACAAAACAAT
50395767 ATTAAAAACAATAAAAATAACAACAAAA
1 A-TAAAAACAATAAAAATAACAACAAAA
50395795 ACAACAACAA
Statistics
Matches: 45, Mismatches: 13, Indels: 5
0.71 0.21 0.08
Matches are distributed among these distances:
32 33 0.73
33 8 0.18
34 4 0.09
ACGTcount: A:0.69, C:0.16, G:0.02, T:0.13
Consensus pattern (31 bp):
ATAAAAACAATAAAAATAACAACAAAACAAT
Found at i:50395830 original size:24 final size:24
Alignment explanation
Indices: 50395773--50395841 Score: 81
Period size: 24 Copynumber: 2.9 Consensus size: 24
50395763 CAATATTAAA
*
50395773 AACAATAAAAATAACAACAAAAAC
1 AACAACAAAAATAACAACAAAAAC
50395797 AACAACAAAAATAA-ACACAAAAAC
1 AACAACAAAAATAACA-ACAAAAAC
*
50395821 AAC-ACGAAAA-AACAATCAAAA
1 AACAACAAAAATAACAA-CAAAA
50395842 TAGTAAAAAA
Statistics
Matches: 40, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
22 3 0.08
23 13 0.32
24 24 0.60
ACGTcount: A:0.74, C:0.19, G:0.01, T:0.06
Consensus pattern (24 bp):
AACAACAAAAATAACAACAAAAAC
Found at i:50395884 original size:23 final size:23
Alignment explanation
Indices: 50395858--50395902 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
50395848 AAAACAACAT
50395858 AAAACAGCAACCAAAACAATAAAA
1 AAAACAGC-ACCAAAACAATAAAA
* *
50395882 AAAATAGCATCAAAACAATAA
1 AAAACAGCACCAAAACAATAA
50395903 TATAATTTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 12 0.63
24 7 0.37
ACGTcount: A:0.69, C:0.18, G:0.04, T:0.09
Consensus pattern (23 bp):
AAAACAGCACCAAAACAATAAAA
Found at i:50427982 original size:3 final size:3
Alignment explanation
Indices: 50427965--50428021 Score: 87
Period size: 3 Copynumber: 19.0 Consensus size: 3
50427955 AATTACTGCC
* *
50427965 ATT ATT ATC ACT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
*
50428013 ATT AAT ATT
1 ATT ATT ATT
50428022 CACATTTTAA
Statistics
Matches: 48, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
3 48 1.00
ACGTcount: A:0.35, C:0.04, G:0.00, T:0.61
Consensus pattern (3 bp):
ATT
Found at i:50428724 original size:17 final size:17
Alignment explanation
Indices: 50428706--50428780 Score: 80
Period size: 17 Copynumber: 4.4 Consensus size: 17
50428696 TTTTTTTAAT
* *
50428706 TTTAATTTTAAAAT-TA
1 TTTAAATTTAAAATAAA
*
50428722 TTTCAAATTTAAACTAAA
1 TTT-AAATTTAAAATAAA
*
50428740 TTTAAATTTAAAGTAAA
1 TTTAAATTTAAAATAAA
*
50428757 TTTAATTTTAGAAATAAA
1 TTTAAATTTA-AAATAAA
50428775 TTTAAA
1 TTTAAA
50428781 ATTCATTTTA
Statistics
Matches: 49, Mismatches: 7, Indels: 4
0.82 0.12 0.07
Matches are distributed among these distances:
16 3 0.06
17 31 0.63
18 15 0.31
ACGTcount: A:0.49, C:0.03, G:0.03, T:0.45
Consensus pattern (17 bp):
TTTAAATTTAAAATAAA
Found at i:50428747 original size:6 final size:6
Alignment explanation
Indices: 50428700--50428807 Score: 55
Period size: 6 Copynumber: 18.3 Consensus size: 6
50428690 TTGGGTTTTT
* * * *
50428700 TTTAAT TTTAAT TTTAAA ATT--A TTTCAAA TTTAAA -CTAAA TTTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTT-AAA TTTAAA TTTAAA TTTAAA
* * * * * *
50428746 TTTAAA -GTAAA TTTAAT TTTAGAA -ATAAA TTTAAA ATTCAT TTTAAA
1 TTTAAA TTTAAA TTTAAA TTTA-AA TTTAAA TTTAAA TTTAAA TTTAAA
*
50428793 CTTTAAA TTAAAA TT
1 -TTTAAA TTTAAA TT
50428808 GACCCAAAAT
Statistics
Matches: 76, Mismatches: 18, Indels: 16
0.69 0.16 0.15
Matches are distributed among these distances:
4 3 0.04
5 10 0.13
6 52 0.68
7 11 0.14
ACGTcount: A:0.47, C:0.04, G:0.02, T:0.47
Consensus pattern (6 bp):
TTTAAA
Found at i:50429831 original size:31 final size:30
Alignment explanation
Indices: 50429771--50429850 Score: 90
Period size: 31 Copynumber: 2.6 Consensus size: 30
50429761 ATTTAACGAA
*
50429771 GAGTGACCAAAATAGAAAA-ATCTAAAATGT
1 GAGTGACCAAAATA-AAAATATATAAAATGT
*
50429801 GAGTAACCAAAATAAAAATGATATAAAATGT
1 GAGTGACCAAAATAAAAAT-ATATAAAATGT
* * *
50429832 TAGTGACTAAATTAAAAAT
1 GAGTGACCAAAATAAAAAT
50429851 TTTCATAGTT
Statistics
Matches: 42, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
29 4 0.10
30 13 0.31
31 25 0.60
ACGTcount: A:0.55, C:0.07, G:0.14, T:0.24
Consensus pattern (30 bp):
GAGTGACCAAAATAAAAATATATAAAATGT
Found at i:50430201 original size:13 final size:13
Alignment explanation
Indices: 50430183--50430207 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
50430173 AGAATTTTTT
50430183 TACATTTTTTAAA
1 TACATTTTTTAAA
50430196 TACATTTTTTAA
1 TACATTTTTTAA
50430208 CACGTTAGAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.08, G:0.00, T:0.56
Consensus pattern (13 bp):
TACATTTTTTAAA
Found at i:50431545 original size:29 final size:29
Alignment explanation
Indices: 50431508--50431679 Score: 70
Period size: 30 Copynumber: 5.8 Consensus size: 29
50431498 GGCAAAAACA
50431508 AGGTCAAAAATGAAATTTTGGAAAGTTCGG
1 AGGT-AAAAATGAAATTTTGGAAAGTTCGG
** *
50431538 AGGTAAAACGGTAAGTTTTGGTGAAA--TCAGG
1 AGGTAAAAATG-AAATTTT-G-GAAAGTTC-GG
* * * * *
50431569 -GTTAAAAATGAGATTTAGGGAAGTT-TG
1 AGGTAAAAATGAAATTTTGGAAAGTTCGG
* *
50431596 AGGGTAAAAATGGTAATTTTTGAAAGTTTCGG
1 A-GGTAAAAAT-GAAATTTTGGAAAG-TTCGG
* *
50431628 -GGTCAAAGT-ATAATTTTGGAAAAGTTTCGG
1 AGGTAAAAATGA-AATTTTGG-AAAG-TTCGG
* *
50431658 A-GTTAAAATGTAATTTTGGAAA
1 AGGTAAAAATGAAATTTTGGAAA
50431680 AGTTTAGGGG
Statistics
Matches: 102, Mismatches: 25, Indels: 31
0.65 0.16 0.20
Matches are distributed among these distances:
27 4 0.04
28 1 0.01
29 28 0.27
30 59 0.58
31 5 0.05
32 5 0.05
ACGTcount: A:0.37, C:0.04, G:0.27, T:0.31
Consensus pattern (29 bp):
AGGTAAAAATGAAATTTTGGAAAGTTCGG
Found at i:50431545 original size:59 final size:59
Alignment explanation
Indices: 50431482--50431617 Score: 139
Period size: 59 Copynumber: 2.3 Consensus size: 59
50431472 ATTTGGGGAA
*
50431482 TAAAATGGTAAATTTTGGCAAAAACAAGGTCAAAAATGAAATTTTGGAAAGTTCGGA-GG
1 TAAAATGGTAAATTTTGGCAAAAACAAGGTCAAAAATGAAATTTAGGAAAGTT-GGAGGG
* * ** * * * * * *
50431541 TAAAACGGTAAGTTTTGGTGAAATCAGGGTTAAAAATGAGATTTAGGGAAGTTTGAGGG
1 TAAAATGGTAAATTTTGGCAAAAACAAGGTCAAAAATGAAATTTAGGAAAGTTGGAGGG
*
50431600 TAAAAATGGTAATTTTTG
1 T-AAAATGGTAAATTTTG
50431618 AAAGTTTCGG
Statistics
Matches: 62, Mismatches: 13, Indels: 3
0.79 0.17 0.04
Matches are distributed among these distances:
58 2 0.03
59 46 0.74
60 14 0.23
ACGTcount: A:0.40, C:0.04, G:0.26, T:0.29
Consensus pattern (59 bp):
TAAAATGGTAAATTTTGGCAAAAACAAGGTCAAAAATGAAATTTAGGAAAGTTGGAGGG
Found at i:50431623 original size:30 final size:30
Alignment explanation
Indices: 50431589--50431768 Score: 161
Period size: 30 Copynumber: 6.0 Consensus size: 30
50431579 AGATTTAGGG
* *
50431589 AAGTTT-GAGGGTAAAAATGGTAATTTTTG-A
1 AAGTTTCG-GGGTCAAAAT-GTAATTTTGGAA
* *
50431619 AAGTTTCGGGGTCAAAGTATAATTTTGGAA
1 AAGTTTCGGGGTCAAAATGTAATTTTGGAA
* *
50431649 AAGTTTCGGAGTTAAAATGTAATTTTGGAA
1 AAGTTTCGGGGTCAAAATGTAATTTTGGAA
* *
50431679 AAGTTTAGGGGTCAAAATGTAATTTT-TAGA
1 AAGTTTCGGGGTCAAAATGTAATTTTGGA-A
* * *
50431709 AAGTTTTGGGGTCAAAATATAATTTT-CAA
1 AAGTTTCGGGGTCAAAATGTAATTTTGGAA
* * *
50431738 ATAGTTTTGGGGTCGAAATATAATTTCTGGA
1 A-AGTTTCGGGGTCAAAATGTAATTT-TGGA
50431769 CAAATTAGGG
Statistics
Matches: 127, Mismatches: 17, Indels: 10
0.82 0.11 0.06
Matches are distributed among these distances:
29 11 0.09
30 113 0.89
31 2 0.02
32 1 0.01
ACGTcount: A:0.35, C:0.04, G:0.24, T:0.37
Consensus pattern (30 bp):
AAGTTTCGGGGTCAAAATGTAATTTTGGAA
Found at i:50431762 original size:90 final size:91
Alignment explanation
Indices: 50431589--50431768 Score: 224
Period size: 90 Copynumber: 2.0 Consensus size: 91
50431579 AGATTTAGGG
* *
50431589 AAGTTTGAGGGTAAAAATGGTAATTTTTGAAAGTTTCGGGGTCAAAGTATAATTTTGGAAAAGTT
1 AAGTTTGAGGGTAAAAATGGTAATTTTTGAAAGTTTCGGGGTCAAAATATAATTTTGCAAAAGTT
* *
50431654 TCGGAGTTAAAATGTAATTT-TGGAA
66 TCGGAGTCAAAATATAATTTCTGGAA
* *
50431679 AAGTTT-AGGGGTCAAAAT-GTAATTTTTAGAAAGTTTTGGGGTCAAAATATAATTTT-CAAATA
1 AAGTTTGA-GGGTAAAAATGGTAATTTTT-GAAAGTTTCGGGGTCAAAATATAATTTTGCAAA-A
* * *
50431741 GTTTTGGGGTCGAAATATAATTTCTGGA
63 GTTTCGGAGTCAAAATATAATTTCTGGA
50431769 CAAATTAGGG
Statistics
Matches: 77, Mismatches: 9, Indels: 7
0.83 0.10 0.08
Matches are distributed among these distances:
89 13 0.17
90 60 0.78
91 4 0.05
ACGTcount: A:0.35, C:0.04, G:0.24, T:0.37
Consensus pattern (91 bp):
AAGTTTGAGGGTAAAAATGGTAATTTTTGAAAGTTTCGGGGTCAAAATATAATTTTGCAAAAGTT
TCGGAGTCAAAATATAATTTCTGGAA
Found at i:50432528 original size:19 final size:19
Alignment explanation
Indices: 50432500--50432543 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
50432490 TTTCTTCTTT
*
50432500 TTTTTGTTCT-TTATTTCCC
1 TTTTTATTCTATT-TTTCCC
*
50432519 TTTTTATTCTATTTTTCCT
1 TTTTTATTCTATTTTTCCC
50432538 TTTTTA
1 TTTTTA
50432544 CTTTCTTTCT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 20 0.91
20 2 0.09
ACGTcount: A:0.09, C:0.16, G:0.02, T:0.73
Consensus pattern (19 bp):
TTTTTATTCTATTTTTCCC
Found at i:50433714 original size:49 final size:48
Alignment explanation
Indices: 50433653--50433748 Score: 120
Period size: 49 Copynumber: 2.0 Consensus size: 48
50433643 TACTTTGTTA
* * * *
50433653 TTGAATTTGGGCTAGCCAAATTTAGCCTAATTGGGCTTGTAAAATGGG
1 TTGAATTTGGGCTAACCAAATTTAGCCCAATCGGGCTTCTAAAATGGG
* * *
50433701 TTGAACTTTGGGCTAATCAAATTTGGCCCAATCGGGCTTCTAAGATGG
1 TTGAA-TTTGGGCTAACCAAATTTAGCCCAATCGGGCTTCTAAAATGG
50433749 ACTTTGGACA
Statistics
Matches: 40, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
48 5 0.12
49 35 0.88
ACGTcount: A:0.26, C:0.16, G:0.26, T:0.32
Consensus pattern (48 bp):
TTGAATTTGGGCTAACCAAATTTAGCCCAATCGGGCTTCTAAAATGGG
Found at i:50433829 original size:17 final size:16
Alignment explanation
Indices: 50433776--50433831 Score: 51
Period size: 17 Copynumber: 3.3 Consensus size: 16
50433766 TAGTTTTAAG
50433776 TTTAAATTTATAATAAA
1 TTTAAA-TTATAATAAA
* *
50433793 TTCAAATT-TTATGCAAA
1 TTTAAATTATAAT--AAA
50433810 TTTAAATTCATAATAAA
1 TTTAAATT-ATAATAAA
50433827 TTTAA
1 TTTAA
50433832 TTTTAAAACT
Statistics
Matches: 31, Mismatches: 4, Indels: 8
0.72 0.09 0.19
Matches are distributed among these distances:
15 3 0.10
16 2 0.06
17 23 0.74
19 3 0.10
ACGTcount: A:0.48, C:0.05, G:0.02, T:0.45
Consensus pattern (16 bp):
TTTAAATTATAATAAA
Found at i:50436746 original size:21 final size:21
Alignment explanation
Indices: 50436703--50436743 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
50436693 TGTATTTCAT
*
50436703 TTTTTAGTATTTTTTTTATTA
1 TTTTTAGTATTTTTTGTATTA
50436724 TTTTTAGTATTTTTATGTAT
1 TTTTTAGTATTTTT-TGTAT
50436744 ATTGTATAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 14 0.78
22 4 0.22
ACGTcount: A:0.20, C:0.00, G:0.07, T:0.73
Consensus pattern (21 bp):
TTTTTAGTATTTTTTGTATTA
Done.