Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A06
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: 115140250
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2234201 characters in sequence are not A, C, G, or T
File 288 of 345
Found at i:98014788 original size:20 final size:20
Alignment explanation
Indices: 98014763--98014812 Score: 70
Period size: 17 Copynumber: 2.6 Consensus size: 20
98014753 TGGCTTAAAA
98014763 TTGGTAGTGGATTGTTGTTG
1 TTGGTAGTGGATTGTTGTTG
98014783 TTGGTAGTGG---GTTGTTG
1 TTGGTAGTGGATTGTTGTTG
*
98014800 GTGGTAGTGGATT
1 TTGGTAGTGGATT
98014813 AGTGGATGGT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
17 16 0.62
20 10 0.38
ACGTcount: A:0.10, C:0.00, G:0.44, T:0.46
Consensus pattern (20 bp):
TTGGTAGTGGATTGTTGTTG
Found at i:98026231 original size:23 final size:22
Alignment explanation
Indices: 98026179--98026231 Score: 56
Period size: 23 Copynumber: 2.4 Consensus size: 22
98026169 TCCACGTCTT
*
98026179 TTTCTTTTGTTTCTTTTTCTAA
1 TTTCTTTTCTTTCTTTTTCTAA
98026201 -TTCATTTTCTCTTCTTTCTTC-AA
1 TTTC-TTTTCT-TTCTTT-TTCTAA
98026224 TTTCTTTT
1 TTTCTTTT
98026232 TCACTCTCAA
Statistics
Matches: 26, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 3 0.12
22 5 0.19
23 12 0.46
24 6 0.23
ACGTcount: A:0.09, C:0.19, G:0.02, T:0.70
Consensus pattern (22 bp):
TTTCTTTTCTTTCTTTTTCTAA
Found at i:98028612 original size:12 final size:12
Alignment explanation
Indices: 98028590--98028621 Score: 55
Period size: 12 Copynumber: 2.6 Consensus size: 12
98028580 CATAAAAATT
98028590 TAAACTAAGTAAA
1 TAAA-TAAGTAAA
98028603 TAAATAAGTAAA
1 TAAATAAGTAAA
98028615 TAAATAA
1 TAAATAA
98028622 AAATAAAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 15 0.79
13 4 0.21
ACGTcount: A:0.66, C:0.03, G:0.06, T:0.25
Consensus pattern (12 bp):
TAAATAAGTAAA
Found at i:98035324 original size:15 final size:15
Alignment explanation
Indices: 98035304--98035343 Score: 53
Period size: 15 Copynumber: 2.6 Consensus size: 15
98035294 ATCAGAACTT
* *
98035304 TTTTTTTATTTATAA
1 TTTTTTTATTAAAAA
98035319 TTTTTTTATTAAAAA
1 TTTTTTTATTAAAAA
98035334 TTGTTTTTAT
1 TT-TTTTTAT
98035344 AATTTTATAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 15 0.68
16 7 0.32
ACGTcount: A:0.28, C:0.00, G:0.03, T:0.70
Consensus pattern (15 bp):
TTTTTTTATTAAAAA
Found at i:98036075 original size:15 final size:16
Alignment explanation
Indices: 98036029--98036075 Score: 51
Period size: 17 Copynumber: 2.8 Consensus size: 16
98036019 TATAAAAATC
*
98036029 ATATATAAAACCTTAAT
1 ATATATAAAA-ATTAAT
98036046 ATATATGAAATAATTAA-
1 ATATAT-AAA-AATTAAT
98036063 ATATATAAAAATT
1 ATATATAAAAATT
98036076 CAAAAAAATA
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
15 4 0.15
16 3 0.11
17 12 0.44
18 7 0.26
19 1 0.04
ACGTcount: A:0.57, C:0.04, G:0.02, T:0.36
Consensus pattern (16 bp):
ATATATAAAAATTAAT
Found at i:98038050 original size:31 final size:31
Alignment explanation
Indices: 98038015--98038095 Score: 126
Period size: 31 Copynumber: 2.6 Consensus size: 31
98038005 ATGTTTACAC
*
98038015 TTTCATTTTAGTCACTCAACCTTTAGGACGA
1 TTTCATTTTAGTCACCCAACCTTTAGGACGA
* *
98038046 TTTCATTTTAGTCACCCAACTTTTAGGTCGA
1 TTTCATTTTAGTCACCCAACCTTTAGGACGA
*
98038077 TTTCATTTTGGTCACCCAA
1 TTTCATTTTAGTCACCCAA
98038096 AAAATATTTT
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
31 46 1.00
ACGTcount: A:0.23, C:0.23, G:0.12, T:0.41
Consensus pattern (31 bp):
TTTCATTTTAGTCACCCAACCTTTAGGACGA
Found at i:98055564 original size:146 final size:146
Alignment explanation
Indices: 98055300--98055593 Score: 570
Period size: 146 Copynumber: 2.0 Consensus size: 146
98055290 GTATATACAA
98055300 TTGTATATCAAAATATAACCTCAAACACAACTTATCAATTCATCAAATCCACACTTAACCAATGC
1 TTGTATATCAAAATATAACCTCAAACACAACTTATCAATTCATCAAATCCACACTTAACCAATGC
* *
98055365 ACCTATCATAGGTACCTCAAATACACATATCATTAACACATACCATTTCTATTTGCATTGAAATA
66 ACCTATCATAGGCACCTCAAATACACATATCATTAACACATACCATTTATATTTGCATTGAAATA
98055430 TCTACCTCATTCACAT
131 TCTACCTCATTCACAT
98055446 TTGTATATCAAAATATAACCTCAAACACAACTTATCAATTCATCAAATCCACACTTAACCAATGC
1 TTGTATATCAAAATATAACCTCAAACACAACTTATCAATTCATCAAATCCACACTTAACCAATGC
98055511 ACCTATCATAGGCACCTCAAATACACATATCATTAACACATACCATTTATATTTGCATTGAAATA
66 ACCTATCATAGGCACCTCAAATACACATATCATTAACACATACCATTTATATTTGCATTGAAATA
98055576 TCTACCTCATTCACAT
131 TCTACCTCATTCACAT
98055592 TT
1 TT
98055594 ATCTTAAGGT
Statistics
Matches: 146, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
146 146 1.00
ACGTcount: A:0.39, C:0.26, G:0.04, T:0.31
Consensus pattern (146 bp):
TTGTATATCAAAATATAACCTCAAACACAACTTATCAATTCATCAAATCCACACTTAACCAATGC
ACCTATCATAGGCACCTCAAATACACATATCATTAACACATACCATTTATATTTGCATTGAAATA
TCTACCTCATTCACAT
Found at i:98059162 original size:14 final size:14
Alignment explanation
Indices: 98059143--98059170 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
98059133 GACATGTAAA
98059143 TGTCATCTTTTCTT
1 TGTCATCTTTTCTT
98059157 TGTCATCTTTTCTT
1 TGTCATCTTTTCTT
98059171 GGTACTCAGG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.07, C:0.21, G:0.07, T:0.64
Consensus pattern (14 bp):
TGTCATCTTTTCTT
Found at i:98059749 original size:31 final size:31
Alignment explanation
Indices: 98059703--98059775 Score: 110
Period size: 31 Copynumber: 2.3 Consensus size: 31
98059693 ACCACTGGTA
*
98059703 AAGTGTTCCCATCACCTAAGGAGGCATACTCT
1 AAGTGTT-CCATCACCTAAGAAGGCATACTCT
* *
98059735 AAGTGTTCCATCACCTAAGAATGCATACTTT
1 AAGTGTTCCATCACCTAAGAAGGCATACTCT
98059766 AAGTGTTCCA
1 AAGTGTTCCA
98059776 GTAACGGTTT
Statistics
Matches: 38, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
31 31 0.82
32 7 0.18
ACGTcount: A:0.30, C:0.25, G:0.16, T:0.29
Consensus pattern (31 bp):
AAGTGTTCCATCACCTAAGAAGGCATACTCT
Found at i:98065051 original size:43 final size:43
Alignment explanation
Indices: 98065002--98065087 Score: 111
Period size: 43 Copynumber: 2.0 Consensus size: 43
98064992 TCATATTTCA
* **
98065002 TTTCTCATCTCCTATTCATTTCTCATATTTG-ACATTTCAATAT
1 TTTCTCATCTCATAACCATTTCTCATATTTGCA-ATTTCAATAT
* *
98065045 TTTCTCATCTCATAACCATTTCTTATCTTTGCAATTTCAATAT
1 TTTCTCATCTCATAACCATTTCTCATATTTGCAATTTCAATAT
98065088 CAATCACATA
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
43 36 0.97
44 1 0.03
ACGTcount: A:0.24, C:0.23, G:0.02, T:0.50
Consensus pattern (43 bp):
TTTCTCATCTCATAACCATTTCTCATATTTGCAATTTCAATAT
Found at i:98065195 original size:114 final size:114
Alignment explanation
Indices: 98065034--98065253 Score: 379
Period size: 114 Copynumber: 1.9 Consensus size: 114
98065024 TCATATTTGA
*
98065034 CATTTCAATATTTTCTCATCTCATAACCATTTCTTATCTTTGCAATTTCAATATCAATCACATAG
1 CATTTCAATATTTTCTCATCTCATAACCATTTCTTATCTTTGCAATTTCAATATCAATCACATAA
98065099 ATTATTAATTTATTTTCCCTATTAACACGACT-AGGACTCGAACGACTGT
66 ATTATTAATTTATTTTCCCTATTAACACGACTCA-GACTCGAACGACTGT
* * *
98065148 CATTTTAATATTTTCTCATCTCATAATCATTTCTTATCTTTGCAATTTCAATATCTATCACATAA
1 CATTTCAATATTTTCTCATCTCATAACCATTTCTTATCTTTGCAATTTCAATATCAATCACATAA
*
98065213 ATTATTAATTTATTTTTCCTATTAACACGACTCAGACTCGA
66 ATTATTAATTTATTTTCCCTATTAACACGACTCAGACTCGA
98065254 TATGTACATG
Statistics
Matches: 100, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
114 99 0.99
115 1 0.01
ACGTcount: A:0.31, C:0.21, G:0.05, T:0.43
Consensus pattern (114 bp):
CATTTCAATATTTTCTCATCTCATAACCATTTCTTATCTTTGCAATTTCAATATCAATCACATAA
ATTATTAATTTATTTTCCCTATTAACACGACTCAGACTCGAACGACTGT
Found at i:98066766 original size:29 final size:30
Alignment explanation
Indices: 98066726--98066790 Score: 114
Period size: 30 Copynumber: 2.2 Consensus size: 30
98066716 TCAATAACCC
*
98066726 TTTGTTTTTTTTC-TTTTTTTTCTTTTGCT
1 TTTGTATTTTTTCTTTTTTTTTCTTTTGCT
98066755 TTTGTATTTTTTCTTTTTTTTTCTTTTGCT
1 TTTGTATTTTTTCTTTTTTTTTCTTTTGCT
98066785 TTTGTA
1 TTTGTA
98066791 CCAGCAATAC
Statistics
Matches: 34, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
29 12 0.35
30 22 0.65
ACGTcount: A:0.03, C:0.09, G:0.08, T:0.80
Consensus pattern (30 bp):
TTTGTATTTTTTCTTTTTTTTTCTTTTGCT
Found at i:98076678 original size:21 final size:21
Alignment explanation
Indices: 98076652--98076700 Score: 71
Period size: 21 Copynumber: 2.3 Consensus size: 21
98076642 ATACTTAAAT
98076652 ATTTAAAAAATAAAATAAAAA
1 ATTTAAAAAATAAAATAAAAA
* * *
98076673 ATTTAAAAAATATAATCATAA
1 ATTTAAAAAATAAAATAAAAA
98076694 ATTTAAA
1 ATTTAAA
98076701 TTTGATATTA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (21 bp):
ATTTAAAAAATAAAATAAAAA
Found at i:98088781 original size:23 final size:23
Alignment explanation
Indices: 98088684--98088784 Score: 80
Period size: 23 Copynumber: 4.4 Consensus size: 23
98088674 TCAAATCGTA
** *
98088684 AGAGCTTACTGTTATCAACTCATT
1 AGAGCTTACCATT-TCAACTCAAT
* ** *
98088708 AGAGCTTACCTTTTCGGCTCGTAT
1 AGAGCTTACCATTTCAACTC-AAT
* * *
98088732 A-AGCTTACAATTT-AGCTCGAT
1 AGAGCTTACCATTTCAACTCAAT
98088753 AGAGCTTACCATTTCAACTCAAT
1 AGAGCTTACCATTTCAACTCAAT
98088776 AGAGCTTAC
1 AGAGCTTAC
98088785 TGTCCATTAG
Statistics
Matches: 61, Mismatches: 13, Indels: 7
0.75 0.16 0.09
Matches are distributed among these distances:
21 3 0.05
22 15 0.25
23 30 0.49
24 13 0.21
ACGTcount: A:0.29, C:0.23, G:0.15, T:0.34
Consensus pattern (23 bp):
AGAGCTTACCATTTCAACTCAAT
Found at i:98092253 original size:17 final size:18
Alignment explanation
Indices: 98092231--98092265 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
98092221 AATCTAGATG
98092231 TGTGGGCC-ACACAAGCA
1 TGTGGGCCTACACAAGCA
*
98092248 TGTGGGCCTACACGAGCA
1 TGTGGGCCTACACAAGCA
98092266 AGCCACACGG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.26, C:0.29, G:0.31, T:0.14
Consensus pattern (18 bp):
TGTGGGCCTACACAAGCA
Found at i:98092716 original size:13 final size:12
Alignment explanation
Indices: 98092694--98092737 Score: 52
Period size: 13 Copynumber: 3.3 Consensus size: 12
98092684 GGGGTAGGAT
98092694 TCTGATTATCTGA
1 TCTG-TTATCTGA
98092707 TCTGTATATCTGA
1 TCTGT-TATCTGA
98092720 CTCTGTTATCTGAA
1 -TCTGTTATCTG-A
98092734 TCTG
1 TCTG
98092738 AAATGGGCAT
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
12 1 0.04
13 21 0.75
14 6 0.21
ACGTcount: A:0.20, C:0.18, G:0.16, T:0.45
Consensus pattern (12 bp):
TCTGTTATCTGA
Found at i:98097345 original size:27 final size:27
Alignment explanation
Indices: 98097315--98097389 Score: 98
Period size: 27 Copynumber: 2.8 Consensus size: 27
98097305 CTGATTTGTG
* *
98097315 AAATTTCTGAAATACCTTCGACCTGTA
1 AAATTACTGAAATACCCTCGACCTGTA
*
98097342 AAATTACTGAAATACCCTCGACTTGTA
1 AAATTACTGAAATACCCTCGACCTGTA
*
98097369 AAATTAC-CAAAGTACCCTCGA
1 AAATTACTGAAA-TACCCTCGA
98097390 TTTACAAAAT
Statistics
Matches: 43, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
26 3 0.07
27 40 0.93
ACGTcount: A:0.37, C:0.24, G:0.11, T:0.28
Consensus pattern (27 bp):
AAATTACTGAAATACCCTCGACCTGTA
Found at i:98097398 original size:27 final size:26
Alignment explanation
Indices: 98097341--98097428 Score: 77
Period size: 27 Copynumber: 3.3 Consensus size: 26
98097331 TTCGACCTGT
* * **
98097341 AAAATTACTGAAATACCCTCGACTTGT
1 AAAATTAC-CAAATACCCTCGATTTAC
98097368 AAAATTACCAAAGTACCCTCGATTTAC
1 AAAATTACCAAA-TACCCTCGATTTAC
** **
98097395 AAAATTACCATTTTACCCTTTATTTAC
1 AAAATTACCA-AATACCCTCGATTTAC
98097422 AAAATTA
1 AAAATTA
98097429 TAGAAATACC
Statistics
Matches: 51, Mismatches: 8, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
26 3 0.06
27 48 0.94
ACGTcount: A:0.40, C:0.22, G:0.06, T:0.33
Consensus pattern (26 bp):
AAAATTACCAAATACCCTCGATTTAC
Found at i:98097454 original size:27 final size:27
Alignment explanation
Indices: 98097431--98097495 Score: 76
Period size: 27 Copynumber: 2.4 Consensus size: 27
98097421 CAAAATTATA
*
98097431 GAAATACCCTTGTAAGGTAGAATTACT
1 GAAATACCCCTGTAAGGTAGAATTACT
* * *
98097458 GAAATACCCCTGTAGGGTAGGACTACT
1 GAAATACCCCTGTAAGGTAGAATTACT
**
98097485 GATTTACCCCT
1 GAAATACCCCT
98097496 AGAGGGTAAA
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.31, C:0.22, G:0.20, T:0.28
Consensus pattern (27 bp):
GAAATACCCCTGTAAGGTAGAATTACT
Found at i:98098112 original size:27 final size:26
Alignment explanation
Indices: 98098068--98098119 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
98098058 CTCGTTGCAA
*
98098068 TCTGGTGGCCTCGCCACATATATCTGT
1 TCTGGTGACCTCGCCACA-ATATCTGT
* *
98098095 TCTGGTGACTTCGTCACAATATCTG
1 TCTGGTGACCTCGCCACAATATCTG
98098120 GCAGCCTGTG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.17, C:0.27, G:0.21, T:0.35
Consensus pattern (26 bp):
TCTGGTGACCTCGCCACAATATCTGT
Found at i:98103846 original size:27 final size:28
Alignment explanation
Indices: 98103816--98103998 Score: 216
Period size: 27 Copynumber: 6.8 Consensus size: 28
98103806 AGTGGATAAG
98103816 TTGTAAAATTACCAAAATACCCCTAG-T
1 TTGTAAAATTACCAAAATACCCCTAGAT
*
98103843 TTGTAAAATTACCAAAATACCCCT-GGT
1 TTGTAAAATTACCAAAATACCCCTAGAT
98103870 TTGTAAAATTACCAAAATACCCCTAG-T
1 TTGTAAAATTACCAAAATACCCCTAGAT
*
98103897 TTGTAAAATTACCAAAATACTCCT-GAT
1 TTGTAAAATTACCAAAATACCCCTAGAT
* * * * *
98103924 TTGTGAAATTACTAAAATA-CCATTGAC
1 TTGTAAAATTACCAAAATACCCCTAGAT
*** * *
98103951 TTGTAAAATTATTGAAATA-CCCTCGAC
1 TTGTAAAATTACCAAAATACCCCTAGAT
98103978 TTGTAAAATTACCAAAATACC
1 TTGTAAAATTACCAAAATACC
98103999 TTTTATTTAC
Statistics
Matches: 137, Mismatches: 14, Indels: 9
0.86 0.09 0.06
Matches are distributed among these distances:
26 4 0.03
27 131 0.96
28 2 0.01
ACGTcount: A:0.40, C:0.20, G:0.09, T:0.31
Consensus pattern (28 bp):
TTGTAAAATTACCAAAATACCCCTAGAT
Found at i:98104068 original size:27 final size:27
Alignment explanation
Indices: 98104038--98104097 Score: 68
Period size: 27 Copynumber: 2.2 Consensus size: 27
98104028 CGATTTACAA
*
98104038 AATTACAAAAAT-ACCCTTGTATGGTAG
1 AATTACAAAAATAACCC-TGTAGGGTAG
**
98104065 AATTACTGAAATAACCCTGTAGGGTAG
1 AATTACAAAAATAACCCTGTAGGGTAG
*
98104092 GATTAC
1 AATTAC
98104098 CGATTTACCC
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
27 24 0.86
28 4 0.14
ACGTcount: A:0.38, C:0.15, G:0.18, T:0.28
Consensus pattern (27 bp):
AATTACAAAAATAACCCTGTAGGGTAG
Found at i:98104791 original size:27 final size:26
Alignment explanation
Indices: 98104747--98104798 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
98104737 CTCGCTGTAA
*
98104747 TCTGGTGGCCTCGCCACATATATCTGT
1 TCTGGTGACCTCGCCACA-ATATCTGT
* *
98104774 TCTGGTGACTTCGTCACAATATCTG
1 TCTGGTGACCTCGCCACAATATCTG
98104799 GCAGCCTCGC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.17, C:0.27, G:0.21, T:0.35
Consensus pattern (26 bp):
TCTGGTGACCTCGCCACAATATCTGT
Found at i:98109095 original size:68 final size:67
Alignment explanation
Indices: 98109023--98109172 Score: 171
Period size: 67 Copynumber: 2.2 Consensus size: 67
98109013 CATCATGTGT
* * * *
98109023 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACC
1 ACAAGAGAGCTAC--GACA-TAT-ATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACC
98109085 ATGTAG
62 ATGTAG
** * *
98109091 ACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGT
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
98109156 AG
66 AG
98109158 ACAAGAGAGCTACGA
1 ACAAGAGAGCTACGA
98109173 GATAAACTGG
Statistics
Matches: 70, Mismatches: 9, Indels: 7
0.81 0.10 0.08
Matches are distributed among these distances:
64 20 0.29
65 7 0.10
66 4 0.06
67 26 0.37
68 13 0.19
ACGTcount: A:0.33, C:0.17, G:0.29, T:0.21
Consensus pattern (67 bp):
ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
AG
Found at i:98109128 original size:64 final size:64
Alignment explanation
Indices: 98109047--98109230 Score: 194
Period size: 67 Copynumber: 2.8 Consensus size: 64
98109037 AGACATTATG
* *
98109047 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * * *
98109111 ATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
98109176 AA
63 AA
* * * *
98109178 ACTG--GCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGT-GTACAAGAGAGC
1 A-TGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAG-ACAAGAGAGC
98109231 CGAACTATAT
Statistics
Matches: 98, Mismatches: 17, Indels: 11
0.78 0.13 0.09
Matches are distributed among these distances:
62 1 0.01
63 19 0.19
64 21 0.21
65 8 0.08
66 16 0.16
67 31 0.32
68 2 0.02
ACGTcount: A:0.30, C:0.17, G:0.30, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:98111235 original size:16 final size:14
Alignment explanation
Indices: 98111210--98111252 Score: 50
Period size: 15 Copynumber: 2.9 Consensus size: 14
98111200 GAAGTGAGAT
*
98111210 AAAAAAAAAGGAAGG
1 AAAAAAAAA-GAAAG
98111225 AAAAGAAAAAGAAAG
1 AAAA-AAAAAGAAAG
*
98111240 AAAATAAAAGAAA
1 AAAAAAAAAGAAA
98111253 TGTATTTTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
14 8 0.32
15 12 0.48
16 5 0.20
ACGTcount: A:0.79, C:0.00, G:0.19, T:0.02
Consensus pattern (14 bp):
AAAAAAAAAGAAAG
Found at i:98111615 original size:12 final size:12
Alignment explanation
Indices: 98111600--98111628 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
98111590 CTTTTTCTTC
98111600 TTTTTTTTTCAA
1 TTTTTTTTTCAA
98111612 TTTTTTTTTCAA
1 TTTTTTTTTCAA
98111624 TTTTT
1 TTTTT
98111629 CGATTAGTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.14, C:0.07, G:0.00, T:0.79
Consensus pattern (12 bp):
TTTTTTTTTCAA
Found at i:98111627 original size:20 final size:19
Alignment explanation
Indices: 98111604--98111647 Score: 52
Period size: 20 Copynumber: 2.3 Consensus size: 19
98111594 TTCTTCTTTT
**
98111604 TTTTTCAATTTTTTTTTCAA
1 TTTTTCAATTAGTTTTTC-A
*
98111624 TTTTTCGATTAGTTTTTCA
1 TTTTTCAATTAGTTTTTCA
98111643 TTTTT
1 TTTTT
98111648 TGATATATTT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
19 6 0.29
20 15 0.71
ACGTcount: A:0.16, C:0.09, G:0.05, T:0.70
Consensus pattern (19 bp):
TTTTTCAATTAGTTTTTCA
Found at i:98117206 original size:44 final size:44
Alignment explanation
Indices: 98117154--98117359 Score: 144
Period size: 44 Copynumber: 4.4 Consensus size: 44
98117144 TGCTCCGCTA
98117154 CAACTTCAGGGAGATAAGACTTGTGGCTTCAATCTACTCCACTG
1 CAACTTCAGGGAGATAAGACTTGTGGCTTCAATCTACTCCACTG
* * * **
98117198 CAACTTCAGGAAGATAAGATTTGTCATAATTTATAGCTTCAATCTGTTCCACTG
1 CAACTTCAGGGAGATAAGA-----C-----TTGTGGCTTCAATCTACTCCACTG
* * * * * * * *
98117252 CCATTTTAGGGAAATAAGA-TTCGCTGTCTTCAGTCTGCTCCGCTG
1 CAACTTCAGGGAGATAAGACTT-G-TGGCTTCAATCTACTCCACTG
* * *
98117297 TAACTTCAGGGAGATAAGACTTGTGGCTTCAATCAACTCCACTA
1 CAACTTCAGGGAGATAAGACTTGTGGCTTCAATCTACTCCACTG
*
98117341 CAACTTCACGGAGATAAGA
1 CAACTTCAGGGAGATAAGA
98117360 TTCGTCATGA
Statistics
Matches: 120, Mismatches: 29, Indels: 26
0.69 0.17 0.15
Matches are distributed among these distances:
43 2 0.02
44 50 0.42
45 31 0.26
46 2 0.02
49 1 0.01
54 34 0.28
ACGTcount: A:0.29, C:0.22, G:0.19, T:0.30
Consensus pattern (44 bp):
CAACTTCAGGGAGATAAGACTTGTGGCTTCAATCTACTCCACTG
Found at i:98117271 original size:143 final size:143
Alignment explanation
Indices: 98117089--98117367 Score: 436
Period size: 143 Copynumber: 2.0 Consensus size: 143
98117079 GTGTATTTGC
98117089 AGCTTCAATCTGTTCCACTGCAGCTTCAGGGAAAAAAGATTCGCTATATTCAGTCTGCTCCGCTA
1 AGCTTCAATCTGTTCCACTGCAGCTTCAGGGAAAAAAGATTCGCTATATTCAGTCTGCTCCGCTA
* *
98117154 CAACTTCAGGGAGATAAGACTTGTGGCTTCAATCTACTCCACTGCAACTTCA-GGAAGATAAGAT
66 CAACTTCAGGGAGATAAGACTTGTGGCTTCAATCAACTCCACTACAACTTCACGG-AGATAAGAT
*
98117218 TTGTCATAATTTAT
130 TCGTCATAATTTAT
* * * * *
98117232 AGCTTCAATCTGTTCCACTGCCA-TTTTAGGGAAATAAGATTCGCTGTCTTCAGTCTGCTCCGCT
1 AGCTTCAATCTGTTCCACTG-CAGCTTCAGGGAAAAAAGATTCGCTATATTCAGTCTGCTCCGCT
**
98117296 GTAACTTCAGGGAGATAAGACTTGTGGCTTCAATCAACTCCACTACAACTTCACGGAGATAAGAT
65 ACAACTTCAGGGAGATAAGACTTGTGGCTTCAATCAACTCCACTACAACTTCACGGAGATAAGAT
98117361 TCGTCAT
130 TCGTCAT
98117368 GATGACTTAA
Statistics
Matches: 124, Mismatches: 10, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
143 120 0.97
144 4 0.03
ACGTcount: A:0.28, C:0.23, G:0.19, T:0.30
Consensus pattern (143 bp):
AGCTTCAATCTGTTCCACTGCAGCTTCAGGGAAAAAAGATTCGCTATATTCAGTCTGCTCCGCTA
CAACTTCAGGGAGATAAGACTTGTGGCTTCAATCAACTCCACTACAACTTCACGGAGATAAGATT
CGTCATAATTTAT
Found at i:98130470 original size:11 final size:12
Alignment explanation
Indices: 98130447--98130482 Score: 51
Period size: 11 Copynumber: 3.2 Consensus size: 12
98130437 AATTTGCTCC
98130447 TTTTGCTTGTTG
1 TTTTGCTTGTTG
98130459 TTTTGC-TGTTG
1 TTTTGCTTGTTG
98130470 TTTT-CTTG-TG
1 TTTTGCTTGTTG
98130480 TTT
1 TTT
98130483 ACATGCAAGT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
10 6 0.26
11 11 0.48
12 6 0.26
ACGTcount: A:0.00, C:0.08, G:0.22, T:0.69
Consensus pattern (12 bp):
TTTTGCTTGTTG
Found at i:98135997 original size:3 final size:3
Alignment explanation
Indices: 98135989--98136017 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
98135979 CATATTCCCA
98135989 CAT CAT CAT CAT CAT CAT CAT CAT CAT CA
1 CAT CAT CAT CAT CAT CAT CAT CAT CAT CA
98136018 CAATAATTCT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.34, C:0.34, G:0.00, T:0.31
Consensus pattern (3 bp):
CAT
Found at i:98154589 original size:52 final size:52
Alignment explanation
Indices: 98154506--98154607 Score: 195
Period size: 52 Copynumber: 2.0 Consensus size: 52
98154496 CCAAACTTAG
98154506 CTAAATGACCTTGACCACCGCTCTAGCCACCGCAGCGCCACCGCTATAGTAA
1 CTAAATGACCTTGACCACCGCTCTAGCCACCGCAGCGCCACCGCTATAGTAA
*
98154558 CTAAATGACCTTGACCACCGCTCTAGTCACCGCAGCGCCACCGCTATAGT
1 CTAAATGACCTTGACCACCGCTCTAGCCACCGCAGCGCCACCGCTATAGT
98154608 CATCGCTTCT
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
52 49 1.00
ACGTcount: A:0.25, C:0.38, G:0.18, T:0.19
Consensus pattern (52 bp):
CTAAATGACCTTGACCACCGCTCTAGCCACCGCAGCGCCACCGCTATAGTAA
Found at i:98172072 original size:17 final size:17
Alignment explanation
Indices: 98172050--98172096 Score: 62
Period size: 17 Copynumber: 2.8 Consensus size: 17
98172040 TGTTTGTGGG
*
98172050 TTTATTTAAAAATTTAT
1 TTTATTTAAAAAATTAT
98172067 TTTATTTAAAAAATTA-
1 TTTATTTAAAAAATTAT
98172083 -TTATTTAAATAAAT
1 TTTATTTAAA-AAAT
98172097 ACATTTCTTG
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
15 9 0.32
16 4 0.14
17 15 0.54
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (17 bp):
TTTATTTAAAAAATTAT
Found at i:98184986 original size:34 final size:34
Alignment explanation
Indices: 98184943--98185011 Score: 138
Period size: 34 Copynumber: 2.0 Consensus size: 34
98184933 AGAAATTGAA
98184943 ATAATGTTTCTAGTCAAGCCTGGCACAAAATAAC
1 ATAATGTTTCTAGTCAAGCCTGGCACAAAATAAC
98184977 ATAATGTTTCTAGTCAAGCCTGGCACAAAATAAC
1 ATAATGTTTCTAGTCAAGCCTGGCACAAAATAAC
98185011 A
1 A
98185012 ATCCTCCAAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.39, C:0.20, G:0.14, T:0.26
Consensus pattern (34 bp):
ATAATGTTTCTAGTCAAGCCTGGCACAAAATAAC
Found at i:98194472 original size:17 final size:17
Alignment explanation
Indices: 98194434--98194472 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
98194424 AATTGGGTAG
98194434 AAAAAATAATTTAATTA
1 AAAAAATAATTTAATTA
*
98194451 GAAAAATCAATTTAA-TA
1 AAAAAAT-AATTTAATTA
98194468 AAAAA
1 AAAAA
98194473 TTAACTAACT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
17 12 0.63
18 7 0.37
ACGTcount: A:0.67, C:0.03, G:0.03, T:0.28
Consensus pattern (17 bp):
AAAAAATAATTTAATTA
Found at i:98199737 original size:96 final size:96
Alignment explanation
Indices: 98199627--98199816 Score: 247
Period size: 96 Copynumber: 2.0 Consensus size: 96
98199617 AGGTTGCATG
* * * * *
98199627 TTGATTGAATTGAGAAAACCATTATTGT-TGAACAATTTAGGATGGTTTTATAAATCGTTATAGA
1 TTGATTGAATTGAGAAAACCATTACTGTCGGAA-AATCTAAGATGGTATTATAAATCGTTATAGA
98199691 ATCATCGTTGTCGAGCAACCCAAGGTGACATA
65 ATCATCGTTGTCGAGCAACCCAAGGTGACATA
* * * **
98199723 TTGATTGAATTGAGAAAACCATTGCTGTCGGGAAATCTAAGATGGTATTATAAATTGTTATAGTG
1 TTGATTGAATTGAGAAAACCATTACTGTCGGAAAATCTAAGATGGTATTATAAATCGTTATAGAA
* **
98199788 TCATCGTTGTCGTGCAACCCGGGGTGACA
66 TCATCGTTGTCGAGCAACCCAAGGTGACA
98199817 GATCCGTGTA
Statistics
Matches: 80, Mismatches: 13, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
96 78 0.98
97 2 0.03
ACGTcount: A:0.32, C:0.13, G:0.23, T:0.33
Consensus pattern (96 bp):
TTGATTGAATTGAGAAAACCATTACTGTCGGAAAATCTAAGATGGTATTATAAATCGTTATAGAA
TCATCGTTGTCGAGCAACCCAAGGTGACATA
Found at i:98200402 original size:17 final size:17
Alignment explanation
Indices: 98200380--98200413 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
98200370 ACTCAACAAT
98200380 TTTTGTTCATTT-TTGGC
1 TTTTGTT-ATTTATTGGC
98200397 TTTTGTTATTTATTGGC
1 TTTTGTTATTTATTGGC
98200414 ATGTACCTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 4 0.25
17 12 0.75
ACGTcount: A:0.09, C:0.09, G:0.18, T:0.65
Consensus pattern (17 bp):
TTTTGTTATTTATTGGC
Found at i:98210383 original size:19 final size:18
Alignment explanation
Indices: 98210361--98210404 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
98210351 ATTTTTAAAA
98210361 ATTAAAAACTATTAAAATT
1 ATTAAAAACTA-TAAAATT
* *
98210380 ATTAAAAAGTATAAATTT
1 ATTAAAAACTATAAAATT
98210398 A-TAAAAA
1 ATTAAAAA
98210405 AAATATGTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 6 0.26
18 7 0.30
19 10 0.43
ACGTcount: A:0.61, C:0.02, G:0.02, T:0.34
Consensus pattern (18 bp):
ATTAAAAACTATAAAATT
Found at i:98213379 original size:96 final size:96
Alignment explanation
Indices: 98213227--98213408 Score: 265
Period size: 96 Copynumber: 1.9 Consensus size: 96
98213217 GCTCCTCTTA
* * * * *
98213227 GCCCTTTTGGCTTCAGCTTTTCCCTTGCTCGAACCAAGCATCTTGGGATCCTTGTCTGCTCTATT
1 GCCCTCTTGGCTTCAGCTTTTCCCTTGCTCGAACCAAGCATCTTGGGATCCGTGTCTACTCCATC
* * *
98213292 TTTCCCTTCGATGACAGACTTGCTCCCCATT
66 GTTCACATCGATGACAGACTTGCTCCCCATT
* * *
98213323 GCCCTCTTGGCTTCGGCTTTTCCCTTGCTCGAACCAAGCTTCTTGGGCTCCGTGTCTACTCCATC
1 GCCCTCTTGGCTTCAGCTTTTCCCTTGCTCGAACCAAGCATCTTGGGATCCGTGTCTACTCCATC
98213388 GTTCACATCGATGACAGACTT
66 GTTCACATCGATGACAGACTT
98213409 CTTCGGACAC
Statistics
Matches: 75, Mismatches: 11, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
96 75 1.00
ACGTcount: A:0.14, C:0.33, G:0.18, T:0.35
Consensus pattern (96 bp):
GCCCTCTTGGCTTCAGCTTTTCCCTTGCTCGAACCAAGCATCTTGGGATCCGTGTCTACTCCATC
GTTCACATCGATGACAGACTTGCTCCCCATT
Found at i:98227984 original size:20 final size:20
Alignment explanation
Indices: 98227935--98228000 Score: 82
Period size: 20 Copynumber: 3.3 Consensus size: 20
98227925 CGTACAAACT
98227935 GTAATTCATTCA-TATAACCA
1 GTAATTCA-TCAGTATAACCA
* *
98227955 GCAATTCATCTGTATAACCA
1 GTAATTCATCAGTATAACCA
98227975 GTAATTCATCAGTAATAA-CA
1 GTAATTCATCAGT-ATAACCA
98227995 GTAATT
1 GTAATT
98228001 TATCCGTATC
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
19 2 0.05
20 34 0.85
21 4 0.10
ACGTcount: A:0.39, C:0.18, G:0.09, T:0.33
Consensus pattern (20 bp):
GTAATTCATCAGTATAACCA
Found at i:98228198 original size:24 final size:23
Alignment explanation
Indices: 98228143--98228270 Score: 116
Period size: 23 Copynumber: 5.5 Consensus size: 23
98228133 AAGTCATGGT
*
98228143 CGGTAAGCTCCTCTTGAGCTGATAAA
1 CGGTAAGCT-CTATTGAGCTG--AAA
*
98228169 CAGTAAGCTCTATTGAGCTGAAAA
1 CGGTAAGCTCTATTGAGCTG-AAA
*
98228193 CGGTAAGCTCTATTAAGCTGAAA
1 CGGTAAGCTCTATTGAGCTGAAA
* *
98228216 --GTAAGCTCTATCGAGCTGAAT
1 CGGTAAGCTCTATTGAGCTGAAA
* * *
98228237 CGGTAAGCTCCAATAAGCTGAAA
1 CGGTAAGCTCTATTGAGCTGAAA
**
98228260 TAGTAAGCTCT
1 CGGTAAGCTCT
98228271 TACGGGCTAA
Statistics
Matches: 84, Mismatches: 16, Indels: 7
0.79 0.15 0.07
Matches are distributed among these distances:
21 18 0.21
23 27 0.32
24 21 0.25
25 10 0.12
26 8 0.10
ACGTcount: A:0.33, C:0.20, G:0.22, T:0.26
Consensus pattern (23 bp):
CGGTAAGCTCTATTGAGCTGAAA
Found at i:98228246 original size:23 final size:23
Alignment explanation
Indices: 98228171--98228302 Score: 87
Period size: 23 Copynumber: 5.8 Consensus size: 23
98228161 CTGATAAACA
* *
98228171 GTAAGCTCTATTGAGCTGAAAACG
1 GTAAGCTCTATCGAGCTG-AATCG
** *
98228195 GTAAGCTCTATTAAGCTGAA--A
1 GTAAGCTCTATCGAGCTGAATCG
98228216 GTAAGCTCTATCGAGCTGAATCG
1 GTAAGCTCTATCGAGCTGAATCG
* * *
98228239 GTAAGCTCCAAT-AAGCTGAAAT-A
1 GTAAGCT-CTATCGAGCTG-AATCG
* *
98228262 GTAAGCTCT-TACGGGCTAAATCG
1 GTAAGCTCTAT-CGAGCTGAATCG
98228285 GTAAGCTC-ATACGAGCTG
1 GTAAGCTCTAT-CGAGCTG
98228303 TGGTGAGTCT
Statistics
Matches: 85, Mismatches: 15, Indels: 17
0.73 0.13 0.15
Matches are distributed among these distances:
21 19 0.22
22 4 0.05
23 39 0.46
24 23 0.27
ACGTcount: A:0.33, C:0.19, G:0.23, T:0.25
Consensus pattern (23 bp):
GTAAGCTCTATCGAGCTGAATCG
Found at i:98228302 original size:46 final size:44
Alignment explanation
Indices: 98228170--98228292 Score: 149
Period size: 46 Copynumber: 2.7 Consensus size: 44
98228160 GCTGATAAAC
* * * *
98228170 AGTAAGCTCTATTGAGCTGAAAACGGTAAGCTCTATTAAGCTGAA
1 AGTAAGCTCTATCGAGCT-AAATCGGTAAGCTCCAATAAGCTGAA
*
98228215 AGTAAGCTCTATCGAGCTGAATCGGTAAGCTCCAATAAGCTGAAA
1 AGTAAGCTCTATCGAGCTAAATCGGTAAGCTCCAATAAGCTG-AA
*
98228260 TAGTAAGCTCT-TACGGGCTAAATCGGTAAGCTC
1 -AGTAAGCTCTAT-CGAGCTAAATCGGTAAGCTC
98228293 ATACGAGCTG
Statistics
Matches: 68, Mismatches: 7, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
44 20 0.29
45 20 0.29
46 28 0.41
ACGTcount: A:0.33, C:0.19, G:0.23, T:0.25
Consensus pattern (44 bp):
AGTAAGCTCTATCGAGCTAAATCGGTAAGCTCCAATAAGCTGAA
Found at i:98229122 original size:21 final size:21
Alignment explanation
Indices: 98229075--98229124 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 21
98229065 AAATCACTTT
*
98229075 ATAAAAC-TTATTAATCTAGC
1 ATAAAACATTAATAATCTAGC
* * *
98229095 TTCAAACATTAATAATCTATC
1 ATAAAACATTAATAATCTAGC
98229116 ATAAAACAT
1 ATAAAACAT
98229125 ATAAAAAACC
Statistics
Matches: 23, Mismatches: 6, Indels: 1
0.77 0.20 0.03
Matches are distributed among these distances:
20 5 0.22
21 18 0.78
ACGTcount: A:0.48, C:0.16, G:0.02, T:0.34
Consensus pattern (21 bp):
ATAAAACATTAATAATCTAGC
Found at i:98238582 original size:20 final size:20
Alignment explanation
Indices: 98238557--98238595 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
98238547 ATGGACTAAA
* *
98238557 ATGAAAAGTTGTAAAATTTG
1 ATGAAAAATTCTAAAATTTG
98238577 ATGAAAAATTCTAAAATTT
1 ATGAAAAATTCTAAAATTT
98238596 TATGGATACA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.49, C:0.03, G:0.13, T:0.36
Consensus pattern (20 bp):
ATGAAAAATTCTAAAATTTG
Found at i:98247909 original size:18 final size:18
Alignment explanation
Indices: 98247886--98247950 Score: 85
Period size: 18 Copynumber: 3.6 Consensus size: 18
98247876 GCGACTCAGT
* * *
98247886 GGTAGCTGGTGCAATAGA
1 GGTAGCAGGTGGAACAGA
98247904 GGTAGCAGGTGGAACAGA
1 GGTAGCAGGTGGAACAGA
*
98247922 GGTAGCAGATGGAACAGA
1 GGTAGCAGGTGGAACAGA
98247940 GGTAGCTAGGT
1 GGTAGC-AGGT
98247951 TGAGAGTTAG
Statistics
Matches: 41, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
18 38 0.93
19 3 0.07
ACGTcount: A:0.31, C:0.11, G:0.42, T:0.17
Consensus pattern (18 bp):
GGTAGCAGGTGGAACAGA
Found at i:98253000 original size:35 final size:35
Alignment explanation
Indices: 98252954--98253025 Score: 135
Period size: 35 Copynumber: 2.1 Consensus size: 35
98252944 GTTTGGTATC
98252954 TTGAGACGGGGTTAGCCATTATCTTGAATTTATTG
1 TTGAGACGGGGTTAGCCATTATCTTGAATTTATTG
*
98252989 TTGAGATGGGGTTAGCCATTATCTTGAATTTATTG
1 TTGAGACGGGGTTAGCCATTATCTTGAATTTATTG
98253024 TT
1 TT
98253026 TACTTATGAA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.22, C:0.10, G:0.25, T:0.43
Consensus pattern (35 bp):
TTGAGACGGGGTTAGCCATTATCTTGAATTTATTG
Found at i:98256119 original size:9 final size:10
Alignment explanation
Indices: 98256092--98256116 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
98256082 TTTTTTTTTT
98256092 ATAAAATTAC
1 ATAAAATTAC
98256102 ATAAAATTAC
1 ATAAAATTAC
98256112 ATAAA
1 ATAAA
98256117 TTATATTATA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.64, C:0.08, G:0.00, T:0.28
Consensus pattern (10 bp):
ATAAAATTAC
Found at i:98256207 original size:14 final size:14
Alignment explanation
Indices: 98256169--98256213 Score: 56
Period size: 14 Copynumber: 3.1 Consensus size: 14
98256159 TTAATCTCAT
98256169 AATTTATAACTATAAA
1 AATTTATAA-T-TAAA
*
98256185 AAATT-TAATTAAA
1 AATTTATAATTAAA
98256198 AATTTATAATTAAA
1 AATTTATAATTAAA
98256212 AA
1 AA
98256214 ATGCTAATAT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
13 8 0.31
14 11 0.42
15 3 0.12
16 4 0.15
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (14 bp):
AATTTATAATTAAA
Found at i:98258129 original size:16 final size:15
Alignment explanation
Indices: 98258108--98258137 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
98258098 CTTTAAAAGT
98258108 TATAAAAAATATAAAC
1 TATAAAAAAT-TAAAC
98258124 TATAAAAAATTAAA
1 TATAAAAAATTAAA
98258138 ATTTCATTCA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.70, C:0.03, G:0.00, T:0.27
Consensus pattern (15 bp):
TATAAAAAATTAAAC
Found at i:98259097 original size:26 final size:26
Alignment explanation
Indices: 98259050--98259100 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 26
98259040 TAAGCGAACC
* *
98259050 CTAGGTAGTAAGTTTAATATGCGAGT
1 CTAGGTAGTAAGTATAACATGCGAGT
* *
98259076 CTAGGTAGTATGTATGACATGCGAG
1 CTAGGTAGTAAGTATAACATGCGAG
98259101 CCCTAAGTGA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.29, C:0.10, G:0.29, T:0.31
Consensus pattern (26 bp):
CTAGGTAGTAAGTATAACATGCGAGT
Found at i:98259517 original size:18 final size:19
Alignment explanation
Indices: 98259487--98259522 Score: 65
Period size: 18 Copynumber: 1.9 Consensus size: 19
98259477 AGGATTTTTA
98259487 CATGTGAAACCCTAGGTAT
1 CATGTGAAACCCTAGGTAT
98259506 CATGTG-AACCCTAGGTA
1 CATGTGAAACCCTAGGTA
98259523 ATATGCGAAC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 11 0.65
19 6 0.35
ACGTcount: A:0.31, C:0.22, G:0.22, T:0.25
Consensus pattern (19 bp):
CATGTGAAACCCTAGGTAT
Found at i:98259532 original size:18 final size:18
Alignment explanation
Indices: 98259494--98259532 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
98259484 TTACATGTGA
*
98259494 AACCCTAGGTATCATGTG
1 AACCCTAGGTATCATGCG
98259512 AACCCTAGGTAAT-ATGCG
1 AACCCTAGGT-ATCATGCG
98259530 AAC
1 AAC
98259533 ATTGTATACA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 17 0.89
19 2 0.11
ACGTcount: A:0.33, C:0.23, G:0.21, T:0.23
Consensus pattern (18 bp):
AACCCTAGGTATCATGCG
Found at i:98261684 original size:13 final size:13
Alignment explanation
Indices: 98261666--98261690 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
98261656 GTGAAGAATT
98261666 AATTTTAGTTTTA
1 AATTTTAGTTTTA
98261679 AATTTTAGTTTT
1 AATTTTAGTTTT
98261691 CTTTTGCTTT
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:0.28, C:0.00, G:0.08, T:0.64
Consensus pattern (13 bp):
AATTTTAGTTTTA
Found at i:98261923 original size:5 final size:5
Alignment explanation
Indices: 98261899--98261958 Score: 52
Period size: 5 Copynumber: 12.0 Consensus size: 5
98261889 GTGTTAATAA
* * * *
98261899 ATTTT A-TTT CTTTT AGTTTT ATTTT GTTTT ATTTT CTTTTT GTTTT ATTTT
1 ATTTT ATTTT ATTTT A-TTTT ATTTT ATTTT ATTTT -ATTTT ATTTT ATTTT
98261950 -TTTT ATTTT
1 ATTTT ATTTT
98261959 TCTTCTCCAT
Statistics
Matches: 44, Mismatches: 7, Indels: 8
0.75 0.12 0.14
Matches are distributed among these distances:
4 7 0.16
5 28 0.64
6 9 0.20
ACGTcount: A:0.12, C:0.03, G:0.05, T:0.80
Consensus pattern (5 bp):
ATTTT
Found at i:98261939 original size:16 final size:15
Alignment explanation
Indices: 98261909--98261953 Score: 63
Period size: 16 Copynumber: 2.9 Consensus size: 15
98261899 ATTTTATTTC
*
98261909 TTTTAGTTTTATTTTG
1 TTTTA-TTTTTTTTTG
98261925 TTTTATTTTCTTTTTG
1 TTTTATTTT-TTTTTG
98261941 TTTTATTTTTTTT
1 TTTTATTTTTTTT
98261954 ATTTTTCTTC
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
15 8 0.30
16 19 0.70
ACGTcount: A:0.09, C:0.02, G:0.07, T:0.82
Consensus pattern (15 bp):
TTTTATTTTTTTTTG
Found at i:98261962 original size:26 final size:26
Alignment explanation
Indices: 98261900--98261958 Score: 95
Period size: 26 Copynumber: 2.3 Consensus size: 26
98261890 TGTTAATAAA
98261900 TTTTA-TTTCTTTTAGTTTTATTTTG
1 TTTTATTTTCTTTTAGTTTTATTTTG
*
98261925 TTTTATTTTCTTTTTGTTTTATTTT-
1 TTTTATTTTCTTTTAGTTTTATTTTG
98261950 TTTTATTTT
1 TTTTATTTT
98261959 TCTTCTCCAT
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
25 14 0.44
26 18 0.56
ACGTcount: A:0.10, C:0.03, G:0.05, T:0.81
Consensus pattern (26 bp):
TTTTATTTTCTTTTAGTTTTATTTTG
Found at i:98272426 original size:25 final size:27
Alignment explanation
Indices: 98272398--98272454 Score: 66
Period size: 25 Copynumber: 2.2 Consensus size: 27
98272388 AAAAAATTTA
* *
98272398 AAAATTATT-AATGATTCAAT-AAATT
1 AAAATTATTAAATAATTAAATAAAATT
*
98272423 AAAA-AATTAAATAATTAAATAAAATT
1 AAAATTATTAAATAATTAAATAAAATT
98272449 AAAATT
1 AAAATT
98272455 TAGGAGAAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
24 3 0.12
25 13 0.52
26 9 0.36
ACGTcount: A:0.61, C:0.02, G:0.02, T:0.35
Consensus pattern (27 bp):
AAAATTATTAAATAATTAAATAAAATT
Found at i:98272515 original size:20 final size:20
Alignment explanation
Indices: 98272485--98272522 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
98272475 ACCACCCTTT
98272485 CTAAAAAAATTAA-GAACTC
1 CTAAAAAAATTAATGAACTC
98272504 CTAAAAATAATTAATGAAC
1 CTAAAAA-AATTAATGAAC
98272523 AAAAGAGGTC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 7 0.41
20 6 0.35
21 4 0.24
ACGTcount: A:0.58, C:0.13, G:0.05, T:0.24
Consensus pattern (20 bp):
CTAAAAAAATTAATGAACTC
Found at i:98273029 original size:17 final size:18
Alignment explanation
Indices: 98273002--98273035 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
98272992 AATTAAATAT
98273002 ATGCATATTAAATTATTA
1 ATGCATATTAAATTATTA
*
98273020 ATGC-TATTAATTTATT
1 ATGCATATTAAATTATT
98273036 TAAACAAACA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.38, C:0.06, G:0.06, T:0.50
Consensus pattern (18 bp):
ATGCATATTAAATTATTA
Found at i:98273375 original size:29 final size:30
Alignment explanation
Indices: 98273319--98273376 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 30
98273309 CTTTTGAAAA
* * * *
98273319 TATTTACAAAAAGAAGCATCTAATTTTTAT
1 TATTCACAAAAAGAAGCAACCAAATTTTAT
98273349 TATTCACAAAAA-AAGCAACCAAATTTTA
1 TATTCACAAAAAGAAGCAACCAAATTTTA
98273377 AAAATAGTTC
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
29 13 0.54
30 11 0.46
ACGTcount: A:0.48, C:0.14, G:0.05, T:0.33
Consensus pattern (30 bp):
TATTCACAAAAAGAAGCAACCAAATTTTAT
Found at i:98280545 original size:14 final size:14
Alignment explanation
Indices: 98280526--98280556 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
98280516 TCTCCTTGGC
*
98280526 CGGTTCGGTTCACT
1 CGGTTCGGTTCAAT
98280540 CGGTTCGGTTCAAT
1 CGGTTCGGTTCAAT
98280554 CGG
1 CGG
98280557 ACCATTTTTC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.10, C:0.26, G:0.32, T:0.32
Consensus pattern (14 bp):
CGGTTCGGTTCAAT
Found at i:98285039 original size:52 final size:52
Alignment explanation
Indices: 98284961--98285065 Score: 201
Period size: 52 Copynumber: 2.0 Consensus size: 52
98284951 AATTTTGAGA
*
98284961 TACCTTTTTTTACTGCAAGGATTTCTTTGAAAGTGGAGTGATAATGTATCTC
1 TACCTTTTTTTACTACAAGGATTTCTTTGAAAGTGGAGTGATAATGTATCTC
98285013 TACCTTTTTTTACTACAAGGATTTCTTTGAAAGTGGAGTGATAATGTATCTC
1 TACCTTTTTTTACTACAAGGATTTCTTTGAAAGTGGAGTGATAATGTATCTC
98285065 T
1 T
98285066 GCTTCTGAAA
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
52 52 1.00
ACGTcount: A:0.26, C:0.13, G:0.18, T:0.43
Consensus pattern (52 bp):
TACCTTTTTTTACTACAAGGATTTCTTTGAAAGTGGAGTGATAATGTATCTC
Found at i:98287706 original size:221 final size:218
Alignment explanation
Indices: 98287306--98287743 Score: 650
Period size: 220 Copynumber: 2.0 Consensus size: 218
98287296 GATTTATTAA
* * * *
98287306 TGATTTAAGAAAAATATAAGTACCTGAAATAATGTGTCTGACACAAAATATATTATATATGAATT
1 TGATTTAAAAAAAATATAAGTACATGAAAGAATGTGTATGACACAAAATATATTATATATGAATT
* *
98287371 ATTTTGACTTAATAAATCATAAAACACATAGTTCAGTAATCCATCAAAATTCTTTTATTCCCGTT
66 ATTTTGACTTAATAAATCATAAAACACATAGTTCAATAATCCATCAAAATTCGTTTATTCCCGTT
98287436 TAAATAAATATAAATACTTGAAGAAATGTGTAACACAAAATATATTATATATGAA-TATTTTGAC
131 TAAATAAATATAAATACTTGAAGAAATGTGTAACACAAAATATATTATATATGAATTATTTTGAC
*
98287500 TTTTAAAAAACCATAAAACACAC
196 TTTCAAAAAACCATAAAACACAC
*
98287523 TGATTTAAAAAAATATATAAGTACAT-AAAGAGATGTGTAT-ACCATAAAATATATTATATATGA
1 TGATTTAAAAAAA-ATATAAGTACATGAAAGA-ATGTGTATGA-CACAAAATATATTATATATGA
* * *
98287586 ATTATTTTGACTTTTGATAAATCATAAAACACATAGTTCAATAATCCATCAAATTTGGTTTATTC
63 ATTATTTTGAC--TTAATAAATCATAAAACACATAGTTCAATAATCCATCAAAATTCGTTTATTC
* *
98287651 CTGATTT-AATAAAATATAAGTACTTGAAGAAATGTGTAACACAAAATATATTATATATGAATTA
126 CCG-TTTAAAT-AAATATAAATACTTGAAGAAATGTGTAACACAAAATATATTATATATGAATTA
* *
98287715 TTTTGACTTTCAATAAACTATAAAACACA
189 TTTTGACTTTCAAAAAACCATAAAACACA
98287744 TTATTTAGTA
Statistics
Matches: 198, Mismatches: 15, Indels: 11
0.88 0.07 0.05
Matches are distributed among these distances:
217 17 0.09
218 49 0.25
220 52 0.26
221 52 0.26
222 28 0.14
ACGTcount: A:0.45, C:0.11, G:0.09, T:0.35
Consensus pattern (218 bp):
TGATTTAAAAAAAATATAAGTACATGAAAGAATGTGTATGACACAAAATATATTATATATGAATT
ATTTTGACTTAATAAATCATAAAACACATAGTTCAATAATCCATCAAAATTCGTTTATTCCCGTT
TAAATAAATATAAATACTTGAAGAAATGTGTAACACAAAATATATTATATATGAATTATTTTGAC
TTTCAAAAAACCATAAAACACAC
Found at i:98288196 original size:38 final size:40
Alignment explanation
Indices: 98288147--98288225 Score: 101
Period size: 38 Copynumber: 2.0 Consensus size: 40
98288137 GGTCCTAAAA
*
98288147 ATATTATTTTAGAAAATTCT-AAAATTTTAACTT-TTTTAT
1 ATATTATTTTAG-AAATTCTAAAAATTTTAAATTGTTTTAT
* *
98288186 ATATT-TTTTAGAATTTTTAAAAATTTTAAATTGTTTTAT
1 ATATTATTTTAGAAATTCTAAAAATTTTAAATTGTTTTAT
98288225 A
1 A
98288226 AAATATGAAT
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
37 5 0.14
38 18 0.51
39 12 0.34
ACGTcount: A:0.38, C:0.03, G:0.04, T:0.56
Consensus pattern (40 bp):
ATATTATTTTAGAAATTCTAAAAATTTTAAATTGTTTTAT
Found at i:98288229 original size:20 final size:19
Alignment explanation
Indices: 98288166--98288229 Score: 60
Period size: 20 Copynumber: 3.3 Consensus size: 19
98288156 TAGAAAATTC
*
98288166 TAAAATTTTAACTTTTTTA
1 TAAAATTTTAAATTTTTTA
**
98288185 TATATTTTTTAGAA-TTTTTA
1 TA-AAATTTTA-AATTTTTTA
98288205 -AAAATTTTAAATTGTTTTA
1 TAAAATTTTAAATT-TTTTA
98288224 TAAAAT
1 TAAAAT
98288230 ATGAATGTTG
Statistics
Matches: 35, Mismatches: 5, Indels: 9
0.71 0.10 0.18
Matches are distributed among these distances:
17 2 0.06
18 7 0.20
19 8 0.23
20 17 0.49
21 1 0.03
ACGTcount: A:0.39, C:0.02, G:0.03, T:0.56
Consensus pattern (19 bp):
TAAAATTTTAAATTTTTTA
Found at i:98288373 original size:9 final size:9
Alignment explanation
Indices: 98288359--98288391 Score: 57
Period size: 9 Copynumber: 3.7 Consensus size: 9
98288349 CAAATCTGTC
98288359 ATTCAAGTT
1 ATTCAAGTT
*
98288368 ATTCAAATT
1 ATTCAAGTT
98288377 ATTCAAGTT
1 ATTCAAGTT
98288386 ATTCAA
1 ATTCAA
98288392 ATTGTGAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.39, C:0.12, G:0.06, T:0.42
Consensus pattern (9 bp):
ATTCAAGTT
Found at i:98288382 original size:18 final size:18
Alignment explanation
Indices: 98288359--98288394 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
98288349 CAAATCTGTC
98288359 ATTCAAGTTATTCAAATT
1 ATTCAAGTTATTCAAATT
98288377 ATTCAAGTTATTCAAATT
1 ATTCAAGTTATTCAAATT
98288395 GTGAAATTCA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.39, C:0.11, G:0.06, T:0.44
Consensus pattern (18 bp):
ATTCAAGTTATTCAAATT
Found at i:98292968 original size:21 final size:21
Alignment explanation
Indices: 98292925--98292968 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 21
98292915 AACGAAATTT
98292925 TTATCTTAGTTTCTGGTCACAA
1 TTATCTTAGTTTC-GGTCACAA
98292947 TTATCTTAGTTTC-GTCCACAA
1 TTATCTTAGTTTCGGT-CACAA
98292968 T
1 T
98292969 AAGGAATTCC
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
20 2 0.10
21 6 0.29
22 13 0.62
ACGTcount: A:0.23, C:0.20, G:0.11, T:0.45
Consensus pattern (21 bp):
TTATCTTAGTTTCGGTCACAA
Found at i:98296636 original size:21 final size:21
Alignment explanation
Indices: 98296610--98296650 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
98296600 CTATGTGGCA
98296610 AGTTAACTGGCCACATCAGCT
1 AGTTAACTGGCCACATCAGCT
*
98296631 AGTTAACTTGCCACATCAGC
1 AGTTAACTGGCCACATCAGC
98296651 GGTTCTGTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.29, C:0.29, G:0.17, T:0.24
Consensus pattern (21 bp):
AGTTAACTGGCCACATCAGCT
Found at i:98296750 original size:30 final size:31
Alignment explanation
Indices: 98296685--98296752 Score: 77
Period size: 31 Copynumber: 2.2 Consensus size: 31
98296675 ACCATTAGTC
* * *
98296685 AGTGACTGTTTTGTCACTTTTTTATAACGTT
1 AGTGACTATTTTGTCACTTTTTCATAAAGTT
*
98296716 AGTGACTATTTTGTTA-TTTTTCA-AAAGTT
1 AGTGACTATTTTGTCACTTTTTCATAAAGTT
98296745 GAGTGACT
1 -AGTGACT
98296753 GAAATGAAAC
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
29 5 0.16
30 13 0.41
31 14 0.44
ACGTcount: A:0.24, C:0.10, G:0.18, T:0.49
Consensus pattern (31 bp):
AGTGACTATTTTGTCACTTTTTCATAAAGTT
Found at i:98296924 original size:20 final size:19
Alignment explanation
Indices: 98296899--98296938 Score: 62
Period size: 20 Copynumber: 2.1 Consensus size: 19
98296889 TAATTGATTT
98296899 AATCAATCCAATCAATATAA
1 AATCAATCCAATC-ATATAA
*
98296919 AATCAATTCAATCATATAA
1 AATCAATCCAATCATATAA
98296938 A
1 A
98296939 TAAAATATTC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 7 0.37
20 12 0.63
ACGTcount: A:0.55, C:0.17, G:0.00, T:0.28
Consensus pattern (19 bp):
AATCAATCCAATCATATAA
Found at i:98297980 original size:30 final size:30
Alignment explanation
Indices: 98297946--98298007 Score: 97
Period size: 30 Copynumber: 2.1 Consensus size: 30
98297936 ACTTATTTTA
98297946 TTGTTAATTTTGTTATTATTTTAAAGGCAT
1 TTGTTAATTTTGTTATTATTTTAAAGGCAT
* * *
98297976 TTGTTAATTTTTTTATTATTTTAGAGGTAT
1 TTGTTAATTTTGTTATTATTTTAAAGGCAT
98298006 TT
1 TT
98298008 TCTTGTTAAG
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.24, C:0.02, G:0.13, T:0.61
Consensus pattern (30 bp):
TTGTTAATTTTGTTATTATTTTAAAGGCAT
Found at i:98299833 original size:85 final size:85
Alignment explanation
Indices: 98299685--98299869 Score: 257
Period size: 85 Copynumber: 2.2 Consensus size: 85
98299675 AACACTCCAC
** * **
98299685 ATACTTGTGTTGTTATAGGTATGTCACAGGATCATCTCAAATTTGATTCTAACCTTATCTCTAAT
1 ATACTTGTGTTGTTGCAGGTATGCCACAAAATCATCTCAAATTTGATTCTAACCTTATCTCTAAT
*
98299750 ATTGTCTTACGTATGATGAA
66 ATTGTCTTACATATGATGAA
* *
98299770 ATACTTGTGTTGTTGCAGGTATGCCACAAAATCATC-CTAAA-TTGAATTCTGACCTTATTTCTA
1 ATACTTGTGTTGTTGCAGGTATGCCACAAAATCATCTC-AAATTTG-ATTCTAACCTTATCTCTA
*
98299833 ATATTGTCTTACATATGGTGAA
64 ATATTGTCTTACATATGATGAA
98299855 ATACTTGTGTTGTTG
1 ATACTTGTGTTGTTG
98299870 TAAAGAAAGA
Statistics
Matches: 89, Mismatches: 9, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
84 4 0.04
85 85 0.96
ACGTcount: A:0.28, C:0.15, G:0.16, T:0.41
Consensus pattern (85 bp):
ATACTTGTGTTGTTGCAGGTATGCCACAAAATCATCTCAAATTTGATTCTAACCTTATCTCTAAT
ATTGTCTTACATATGATGAA
Found at i:98305449 original size:3 final size:3
Alignment explanation
Indices: 98305443--98305468 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
98305433 CTAAAAAAAA
98305443 AAG AAG AAG AAG AAG AAG AAG AAG AA
1 AAG AAG AAG AAG AAG AAG AAG AAG AA
98305469 AAAAAAAAAA
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:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:98307576 original size:21 final size:20
Alignment explanation
Indices: 98307513--98307570 Score: 55
Period size: 21 Copynumber: 2.8 Consensus size: 20
98307503 TTTAGTTATT
*
98307513 TTAATTTTTAATTTCTAAATT-
1 TTAAATTTTAATTT-T-AATTA
*
98307534 TGAAATTTTAATTTTAATTA
1 TTAAATTTTAATTTTAATTA
98307554 TTAAATTATTAAGTTTT
1 TTAAATT-TTAA-TTTT
98307571 GATATTTTTA
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
19 4 0.13
20 7 0.23
21 16 0.52
22 4 0.13
ACGTcount: A:0.36, C:0.02, G:0.03, T:0.59
Consensus pattern (20 bp):
TTAAATTTTAATTTTAATTA
Found at i:98312725 original size:47 final size:47
Alignment explanation
Indices: 98312672--98312763 Score: 184
Period size: 47 Copynumber: 2.0 Consensus size: 47
98312662 ACAATTAGGG
98312672 TTTTCATACTTATAGGGTTCACATATATGTATATAAGTAAGGATTGA
1 TTTTCATACTTATAGGGTTCACATATATGTATATAAGTAAGGATTGA
98312719 TTTTCATACTTATAGGGTTCACATATATGTATATAAGTAAGGATT
1 TTTTCATACTTATAGGGTTCACATATATGTATATAAGTAAGGATT
98312764 CGCATACGTA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 45 1.00
ACGTcount: A:0.34, C:0.09, G:0.16, T:0.41
Consensus pattern (47 bp):
TTTTCATACTTATAGGGTTCACATATATGTATATAAGTAAGGATTGA
Found at i:98318794 original size:21 final size:21
Alignment explanation
Indices: 98318747--98318787 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
98318737 AGTCGGTGCC
98318747 GCAACACGAAATCCCAGTGTA
1 GCAACACGAAATCCCAGTGTA
* *
98318768 GCAACACGGAATCCCTGTGT
1 GCAACACGAAATCCCAGTGT
98318788 TACAACATCA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.32, C:0.29, G:0.22, T:0.17
Consensus pattern (21 bp):
GCAACACGAAATCCCAGTGTA
Found at i:98328224 original size:25 final size:25
Alignment explanation
Indices: 98328196--98328274 Score: 65
Period size: 25 Copynumber: 3.3 Consensus size: 25
98328186 CTAATGGCCG
98328196 ATGTGATGAATGTGAAAGTGTATAT
1 ATGTGATGAATGTGAAAGTGTATAT
* *** ****
98328221 ATGTGAT-AAGGCCTAA-TG-GCCG
1 ATGTGATGAATGTGAAAGTGTATAT
98328243 ATGTGATGAATGTGAAAGTGTATAT
1 ATGTGATGAATGTGAAAGTGTATAT
98328268 ATGTGAT
1 ATGTGAT
98328275 AAGGCCTAAT
Statistics
Matches: 35, Mismatches: 16, Indels: 6
0.61 0.28 0.11
Matches are distributed among these distances:
22 7 0.20
23 7 0.20
24 7 0.20
25 14 0.40
ACGTcount: A:0.33, C:0.05, G:0.29, T:0.33
Consensus pattern (25 bp):
ATGTGATGAATGTGAAAGTGTATAT
Found at i:98328246 original size:47 final size:47
Alignment explanation
Indices: 98328180--98328653 Score: 795
Period size: 47 Copynumber: 10.1 Consensus size: 47
98328170 GAAATGATAG
98328180 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
98328227 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
98328274 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* *
98328321 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* *
98328368 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
98328415 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
98328462 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTAA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
98328509 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
98328556 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*** * * * * * * *
98328603 CGGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGCATAAATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
98328650 TAAG
1 TAAG
98328654 TCCCGAAGGG
Statistics
Matches: 408, Mismatches: 19, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 408 1.00
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (47 bp):
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
Found at i:98337879 original size:26 final size:26
Alignment explanation
Indices: 98337832--98337883 Score: 79
Period size: 26 Copynumber: 2.0 Consensus size: 26
98337822 CATATTTGGC
*
98337832 CATAACATATATAAATTCTAACATTT
1 CATAACACATATAAATTCTAACATTT
98337858 CATAACAGCATATAAATT-TAACATTT
1 CATAACA-CATATAAATTCTAACATTT
98337884 AATTACCATT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
26 15 0.62
27 9 0.38
ACGTcount: A:0.46, C:0.15, G:0.02, T:0.37
Consensus pattern (26 bp):
CATAACACATATAAATTCTAACATTT
Found at i:98341422 original size:23 final size:21
Alignment explanation
Indices: 98341381--98341433 Score: 56
Period size: 21 Copynumber: 2.5 Consensus size: 21
98341371 TATATGATAG
*
98341381 TATTTATATTTCATTATATTT
1 TATTTATATTTCATTATATTA
98341402 TATTTATATATT-ATTACATATTA
1 TATTTATAT-TTCATT--ATATTA
98341425 TATTT-TATT
1 TATTTATATT
98341434 ATATATTATT
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
21 13 0.46
22 5 0.18
23 10 0.36
ACGTcount: A:0.32, C:0.04, G:0.00, T:0.64
Consensus pattern (21 bp):
TATTTATATTTCATTATATTA
Found at i:98341427 original size:17 final size:17
Alignment explanation
Indices: 98341405--98341442 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
98341395 TATATTTTAT
98341405 TTATATATTATTACATA
1 TTATATATTATTACATA
* *
98341422 TTATATTTTATTATATA
1 TTATATATTATTACATA
98341439 TTAT
1 TTAT
98341443 TCTTTATAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.37, C:0.03, G:0.00, T:0.61
Consensus pattern (17 bp):
TTATATATTATTACATA
Found at i:98341433 original size:10 final size:10
Alignment explanation
Indices: 98341384--98341443 Score: 54
Period size: 10 Copynumber: 6.2 Consensus size: 10
98341374 ATGATAGTAT
*
98341384 TTATATTTCA
1 TTATATTTTA
98341394 TTATATTTTA
1 TTATATTTTA
*
98341404 TTTATATATTA
1 -TTATATTTTA
*
98341415 TTACA---TA
1 TTATATTTTA
98341422 TTATATTTTA
1 TTATATTTTA
*
98341432 TTATATATTA
1 TTATATTTTA
98341442 TT
1 TT
98341444 CTTTATAATA
Statistics
Matches: 41, Mismatches: 5, Indels: 8
0.76 0.09 0.15
Matches are distributed among these distances:
7 6 0.15
10 26 0.63
11 9 0.22
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.63
Consensus pattern (10 bp):
TTATATTTTA
Found at i:98341448 original size:17 final size:16
Alignment explanation
Indices: 98341412--98341505 Score: 66
Period size: 17 Copynumber: 5.8 Consensus size: 16
98341402 TATTTATATA
*
98341412 TTATTACATATTATATT
1 TTATTATATATTAT-TT
98341429 TTATTATATATTATTCT
1 TTATTATATATTATT-T
* * **
98341446 TTATAATATCTTCCTT
1 TTATTATATATTATTT
*
98341462 TTATTATATATTA-TA
1 TTATTATATATTATTT
* *
98341477 TTA-TATACATTATAT
1 TTATTATATATTATTT
*
98341492 ATATTTATATATTA
1 TTA-TTATATATTA
98341506 CTTATAATAT
Statistics
Matches: 59, Mismatches: 14, Indels: 8
0.73 0.17 0.10
Matches are distributed among these distances:
14 8 0.14
15 6 0.10
16 12 0.20
17 33 0.56
ACGTcount: A:0.35, C:0.06, G:0.00, T:0.59
Consensus pattern (16 bp):
TTATTATATATTATTT
Found at i:98341488 original size:21 final size:19
Alignment explanation
Indices: 98341464--98341502 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 19
98341454 TCTTCCTTTT
98341464 ATTATATATTATATTATATAC
1 ATTATATA-TAT-TTATATAC
98341485 ATTATATATATTTATATA
1 ATTATATATATTTATATA
98341503 TTACTTATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 7 0.39
20 3 0.17
21 8 0.44
ACGTcount: A:0.44, C:0.03, G:0.00, T:0.54
Consensus pattern (19 bp):
ATTATATATATTTATATAC
Found at i:98341503 original size:21 final size:23
Alignment explanation
Indices: 98341466--98341535 Score: 65
Period size: 23 Copynumber: 3.0 Consensus size: 23
98341456 TTCCTTTTAT
98341466 TATATATTATATTATA-TACATTA
1 TATATATTATATTATATTAC-TTA
98341489 TATATATT-TA-TATATTACTTA
1 TATATATTATATTATATTACTTA
*
98341510 TAATATGGTTATATTATTATGTACTT
1 T-ATAT-ATTATATTA-TAT-TACTT
98341536 TGTTTATAAA
Statistics
Matches: 39, Mismatches: 1, Indels: 10
0.78 0.02 0.20
Matches are distributed among these distances:
21 8 0.21
22 9 0.23
23 10 0.26
24 2 0.05
25 2 0.05
26 3 0.08
27 5 0.13
ACGTcount: A:0.37, C:0.04, G:0.04, T:0.54
Consensus pattern (23 bp):
TATATATTATATTATATTACTTA
Found at i:98354014 original size:220 final size:220
Alignment explanation
Indices: 98353634--98354033 Score: 665
Period size: 220 Copynumber: 1.8 Consensus size: 220
98353624 AAATCTGACC
* * * * *
98353634 TTCAGGTGTTTATGTTGAAGTAGGTCCAAGATGATTTGGCATCTCTGTATTGTCAGAGAGCAAAT
1 TTCACGTGTTTACGCTGAAGTAGATCCAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAAT
* * *
98353699 TGAAGAAACAGATTTGGCATCTCCATATTCGACGGAGAGCAGATCGAAGACATAGTAGATCTAAC
66 CGAAGAAACAGATTTGGCATCTCCATATTCGACGGAGAGCAGATCGAAGACATAGCAGATCAAAC
* *
98353764 TTTCGGATGTTGTCACATCAAAGTAGATCCAAGATGATTTGGCATCCTTGTGTTTACAAGGAGCA
131 CTTCGGATGTTGTCACATCAAAGCAGATCCAAGATGATTTGGCATCCTTGTGTTTACAAGGAGCA
98353829 GATCGAAGACATAGCAGATTTGGAT
196 GATCGAAGACATAGCAGATTTGGAT
*
98353854 TTCACGTGTTTACGCTGAAGTAGATCTAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAAT
1 TTCACGTGTTTACGCTGAAGTAGATCCAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAAT
98353919 CGAAGAAACAGATTTGGCATCTCCATATTCGACGGAGAGCAGATCGAAGACATAGCAGATCAAAC
66 CGAAGAAACAGATTTGGCATCTCCATATTCGACGGAGAGCAGATCGAAGACATAGCAGATCAAAC
* ** *
98353984 CTTCGGATGTTTTTGCATCGAAGCAGATCCAAGATGATTTGGCATCCTTG
131 CTTCGGATGTTGTCACATCAAAGCAGATCCAAGATGATTTGGCATCCTTG
98354034 CATTTATCAG
Statistics
Matches: 165, Mismatches: 15, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
220 165 1.00
ACGTcount: A:0.31, C:0.17, G:0.24, T:0.28
Consensus pattern (220 bp):
TTCACGTGTTTACGCTGAAGTAGATCCAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAAT
CGAAGAAACAGATTTGGCATCTCCATATTCGACGGAGAGCAGATCGAAGACATAGCAGATCAAAC
CTTCGGATGTTGTCACATCAAAGCAGATCCAAGATGATTTGGCATCCTTGTGTTTACAAGGAGCA
GATCGAAGACATAGCAGATTTGGAT
Found at i:98354091 original size:44 final size:44
Alignment explanation
Indices: 98354040--98354161 Score: 174
Period size: 44 Copynumber: 2.8 Consensus size: 44
98354030 CTTGCATTTA
*
98354040 TCAGAGAGCAGGTTGAAGATAACAGATTTGGCGTCTCTGTATTG
1 TCAGAGAGCAGGTCGAAGATAACAGATTTGGCGTCTCTGTATTG
* * * *
98354084 TCAGAGAGTAGATCAAAGATAGCAGATTTGGCGTCTCTGTATTG
1 TCAGAGAGCAGGTCGAAGATAACAGATTTGGCGTCTCTGTATTG
*
98354128 TCAGAGAGC-GGATCGAAGATAACAGATCTGGCGT
1 TCAGAGAGCAGG-TCGAAGATAACAGATTTGGCGT
98354162 TCCTGAGTTT
Statistics
Matches: 67, Mismatches: 10, Indels: 2
0.85 0.13 0.03
Matches are distributed among these distances:
43 1 0.01
44 66 0.99
ACGTcount: A:0.30, C:0.15, G:0.30, T:0.26
Consensus pattern (44 bp):
TCAGAGAGCAGGTCGAAGATAACAGATTTGGCGTCTCTGTATTG
Found at i:98354378 original size:4 final size:4
Alignment explanation
Indices: 98354369--98354394 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
98354359 GGGCCCATGG
98354369 AATA AATA AATA AATA AATA AATA AA
1 AATA AATA AATA AATA AATA AATA AA
98354395 AATTTATTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (4 bp):
AATA
Found at i:98356227 original size:46 final size:46
Alignment explanation
Indices: 98356102--98356229 Score: 220
Period size: 46 Copynumber: 2.8 Consensus size: 46
98356092 GGTTGAGCAT
* *
98356102 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTAAGGATGCGAATGT
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGC
*
98356148 CCGAACTCGTTGAGTTGAGTCCGAGATCACTTATGGATGCGAATGC
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGC
*
98356194 CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
98356230 GCGGGTTACA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
46 77 1.00
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.28
Consensus pattern (46 bp):
CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGC
Found at i:98359161 original size:15 final size:15
Alignment explanation
Indices: 98359141--98359196 Score: 87
Period size: 15 Copynumber: 3.7 Consensus size: 15
98359131 GTATCTTGGG
98359141 TTTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
98359156 TTTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
*
98359171 TTTCTCTA-TCTTGGA
1 TTTCTTTATTC-TGGA
98359186 TTTCTTTATTC
1 TTTCTTTATTC
98359197 GTTTCTTGTT
Statistics
Matches: 37, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
14 2 0.05
15 33 0.89
16 2 0.05
ACGTcount: A:0.12, C:0.16, G:0.11, T:0.61
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:98361621 original size:46 final size:46
Alignment explanation
Indices: 98361571--98361743 Score: 187
Period size: 46 Copynumber: 3.7 Consensus size: 46
98361561 TTGAGCATCC
*
98361571 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCT
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCA
*
98361617 GAACTCGTTGAGTTGAGTCCGAGTTCA---A-GAGATG-TAACTAGGCATCA
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATG-GATGCGAA-T--G--TCA
* * *
98361664 GAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCA
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG-TCA
*
98361711 -AGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
98361744 GCGGGTTACA
Statistics
Matches: 109, Mismatches: 7, Indels: 22
0.79 0.05 0.16
Matches are distributed among these distances:
42 3 0.03
43 6 0.06
45 1 0.01
46 60 0.55
47 30 0.28
48 1 0.01
50 5 0.05
51 3 0.03
ACGTcount: A:0.23, C:0.19, G:0.29, T:0.29
Consensus pattern (46 bp):
GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCA
Found at i:98361724 original size:93 final size:93
Alignment explanation
Indices: 98361565--98361736 Score: 283
Period size: 93 Copynumber: 1.8 Consensus size: 93
98361555 GGATGGTTGA
* * **
98361565 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCTGAACTCGTTGAGT
1 GCATCAGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCCAACTCGTTGAGT
98361630 TGAGTCCGAGTTCAAGAGATGTAACTAG
66 TGAGTCCGAGTTCAAGAGATGTAACTAG
*
98361658 GCATCAGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG-CCCAAGCTCGTTGAG
1 GCATCAGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCCAA-CTCGTTGAG
98361722 TTGAGTCCGAGTTCA
65 TTGAGTCCGAGTTCA
98361737 CTTATGGGCG
Statistics
Matches: 73, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
92 3 0.04
93 70 0.96
ACGTcount: A:0.23, C:0.20, G:0.28, T:0.28
Consensus pattern (93 bp):
GCATCAGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCCAACTCGTTGAGT
TGAGTCCGAGTTCAAGAGATGTAACTAG
Found at i:98363952 original size:12 final size:12
Alignment explanation
Indices: 98363938--98363994 Score: 51
Period size: 12 Copynumber: 4.5 Consensus size: 12
98363928 TTATTTTTAT
*
98363938 TATTATACATTT
1 TATTATACATTA
*
98363950 TATTTATAAATTA
1 TA-TTATACATTA
*
98363963 TATCATACATTA
1 TATTATACATTA
*
98363975 TATTTTACAATATA
1 TATTATAC-AT-TA
98363989 TATTAT
1 TATTAT
98363995 TCCTTACATT
Statistics
Matches: 35, Mismatches: 7, Indels: 4
0.76 0.15 0.09
Matches are distributed among these distances:
12 16 0.46
13 12 0.34
14 7 0.20
ACGTcount: A:0.40, C:0.07, G:0.00, T:0.53
Consensus pattern (12 bp):
TATTATACATTA
Found at i:98364194 original size:27 final size:27
Alignment explanation
Indices: 98364144--98364221 Score: 129
Period size: 27 Copynumber: 2.9 Consensus size: 27
98364134 TTTATATTTC
98364144 ATTATATTTTATTTATATATTATTACAT
1 ATTATATTTTA-TTATATATTATTACAT
98364172 ATTATATTTTATTATATATTATTACAT
1 ATTATATTTTATTATATATTATTACAT
* *
98364199 ATTATATATTATTATATTTTATT
1 ATTATATTTTATTATATATTATT
98364222 CTTTATAATA
Statistics
Matches: 48, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
27 37 0.77
28 11 0.23
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.62
Consensus pattern (27 bp):
ATTATATTTTATTATATATTATTACAT
Found at i:98364211 original size:10 final size:10
Alignment explanation
Indices: 98364135--98364221 Score: 71
Period size: 10 Copynumber: 9.2 Consensus size: 10
98364125 ATGATAGTAT
98364135 TTATAT-TTCA
1 TTATATATT-A
*
98364145 TTATATTTTA
1 TTATATATTA
98364155 TTTATATATTA
1 -TTATATATTA
*
98364166 TTACATATTA
1 TTATATATTA
98364176 -TAT-T-TTA
1 TTATATATTA
98364183 TTATATATTA
1 TTATATATTA
*
98364193 -T-TACA-TA
1 TTATATATTA
98364200 TTATATATTA
1 TTATATATTA
*
98364210 TTATATTTTA
1 TTATATATTA
98364220 TT
1 TT
98364222 CTTTATAATA
Statistics
Matches: 63, Mismatches: 6, Indels: 16
0.74 0.07 0.19
Matches are distributed among these distances:
7 5 0.08
8 8 0.13
9 7 0.11
10 32 0.51
11 11 0.17
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.62
Consensus pattern (10 bp):
TTATATATTA
Found at i:98364220 original size:17 final size:17
Alignment explanation
Indices: 98364134--98364220 Score: 69
Period size: 17 Copynumber: 5.3 Consensus size: 17
98364124 TATGATAGTA
98364134 TTTATAT-TTCATTATA-
1 TTTATATATT-ATTATAT
98364150 TTT-TAT-TTA-TATAT
1 TTTATATATTATTATAT
* *
98364164 TATTACATATTA-TATTT
1 T-TTATATATTATTATAT
*
98364181 TATTATATATTATTACAT
1 T-TTATATATTATTATAT
*
98364199 ATTATATATTATTATAT
1 TTTATATATTATTATAT
98364216 TTTAT
1 TTTAT
98364221 TCTTTATAAT
Statistics
Matches: 58, Mismatches: 8, Indels: 9
0.77 0.11 0.12
Matches are distributed among these distances:
13 4 0.07
14 2 0.03
15 7 0.12
16 5 0.09
17 37 0.64
18 3 0.05
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.62
Consensus pattern (17 bp):
TTTATATATTATTATAT
Found at i:98364266 original size:21 final size:21
Alignment explanation
Indices: 98364242--98364282 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
98364232 TCTTCCTTTT
98364242 ATTATATAT-TATATTATATAC
1 ATTATATATATAT-TTATATAC
98364263 ATTATATATATATTTATATA
1 ATTATATATATATTTATATA
98364283 TTACTTATCA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 16 0.84
22 3 0.16
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (21 bp):
ATTATATATATATTTATATAC
Found at i:98370349 original size:57 final size:57
Alignment explanation
Indices: 98370288--98370402 Score: 221
Period size: 57 Copynumber: 2.0 Consensus size: 57
98370278 AAGGAAGAGG
98370288 AAAATGATCCTTTTTTGTCGCATCATTTAGCTTTCTGTAATCAATTCATACCTTCCA
1 AAAATGATCCTTTTTTGTCGCATCATTTAGCTTTCTGTAATCAATTCATACCTTCCA
*
98370345 AAAATGATCCTTTTTTGTCGCATCGTTTAGCTTTCTGTAATCAATTCATACCTTCCA
1 AAAATGATCCTTTTTTGTCGCATCATTTAGCTTTCTGTAATCAATTCATACCTTCCA
98370402 A
1 A
98370403 CCATTGACTG
Statistics
Matches: 57, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
57 57 1.00
ACGTcount: A:0.26, C:0.23, G:0.10, T:0.42
Consensus pattern (57 bp):
AAAATGATCCTTTTTTGTCGCATCATTTAGCTTTCTGTAATCAATTCATACCTTCCA
Found at i:98375446 original size:18 final size:18
Alignment explanation
Indices: 98375423--98375461 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
98375413 GGTGTATGAG
*
98375423 CCACACAGGCGTGTGGAC
1 CCACACAGGCATGTGGAC
* *
98375441 CCACACTGGCATGTGGGC
1 CCACACAGGCATGTGGAC
98375459 CCA
1 CCA
98375462 TAATACTGAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.21, C:0.36, G:0.31, T:0.13
Consensus pattern (18 bp):
CCACACAGGCATGTGGAC
Found at i:98401791 original size:20 final size:20
Alignment explanation
Indices: 98401766--98401807 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
98401756 TCTGTTATTG
* *
98401766 TTTGACGTATAAATGGTAAA
1 TTTGACATATAAATGGAAAA
98401786 TTTGACATATAAATGGAAAA
1 TTTGACATATAAATGGAAAA
98401806 TT
1 TT
98401808 AAGTATAGAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.43, C:0.05, G:0.17, T:0.36
Consensus pattern (20 bp):
TTTGACATATAAATGGAAAA
Found at i:98408144 original size:13 final size:13
Alignment explanation
Indices: 98408126--98408150 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
98408116 TTGGGATTTT
98408126 TTAATTATTTTAG
1 TTAATTATTTTAG
98408139 TTAATTATTTTA
1 TTAATTATTTTA
98408151 AAAATCGGTA
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:0.32, C:0.00, G:0.04, T:0.64
Consensus pattern (13 bp):
TTAATTATTTTAG
Found at i:98412422 original size:2 final size:2
Alignment explanation
Indices: 98412417--98412445 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
98412407 ATTTTTTCCC
98412417 AT AT 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 AT AT A
98412446 ATTTAAACAA
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:98413506 original size:16 final size:16
Alignment explanation
Indices: 98413487--98413517 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
98413477 TAATATTAAA
98413487 TTATTTTTAAATTTTT
1 TTATTTTTAAATTTTT
*
98413503 TTATTTTTTAATTTT
1 TTATTTTTAAATTTT
98413518 AAGTAACTTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (16 bp):
TTATTTTTAAATTTTT
Found at i:98414977 original size:6 final size:7
Alignment explanation
Indices: 98414962--98414987 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
98414952 CGCTTTGAAA
98414962 TTTTATT
1 TTTTATT
98414969 TTTTATT
1 TTTTATT
98414976 TTTTATT
1 TTTTATT
98414983 TTTTA
1 TTTTA
98414988 AAAGGGAGTG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (7 bp):
TTTTATT
Found at i:98415087 original size:19 final size:19
Alignment explanation
Indices: 98415063--98415099 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
98415053 GAAATGAATA
98415063 ATTTCAGGCAAATAGGTTG
1 ATTTCAGGCAAATAGGTTG
*
98415082 ATTTCATGCAAATAGGTT
1 ATTTCAGGCAAATAGGTT
98415100 AGCAATCTCA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.32, C:0.11, G:0.22, T:0.35
Consensus pattern (19 bp):
ATTTCAGGCAAATAGGTTG
Found at i:98416302 original size:15 final size:17
Alignment explanation
Indices: 98416268--98416310 Score: 63
Period size: 15 Copynumber: 2.6 Consensus size: 17
98416258 GAGGTTAGGT
*
98416268 TTTTTTCTTTTTCTTCA
1 TTTTTTATTTTTCTTCA
98416285 TTTTTTATTTTT-TT-A
1 TTTTTTATTTTTCTTCA
98416300 TTTTTTATTTT
1 TTTTTTATTTT
98416311 GGGTTGTATT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
15 12 0.48
16 2 0.08
17 11 0.44
ACGTcount: A:0.09, C:0.07, G:0.00, T:0.84
Consensus pattern (17 bp):
TTTTTTATTTTTCTTCA
Found at i:98416648 original size:44 final size:44
Alignment explanation
Indices: 98416600--98417317 Score: 1038
Period size: 44 Copynumber: 16.5 Consensus size: 44
98416590 TCTCGTCTAA
*
98416600 TACAGAGACGCCAAATCCGTTATCTTCGATCTGCTCTCCGCCGC
1 TACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGC
*
98416644 TACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCTGC
1 TACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGC
*
98416688 TACAGAGACGCCAAATCTATTATCTTCGATCTGCTCTCCGCCGC
1 TACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGC
* *
98416732 TACAGAGACGCCAAATTTGTTATCTTCGATCTGCTCTCTGCCGC
1 TACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGC
* *
98416776 TATAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGTCGC
1 TACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGC
*
98416820 TACAGAGATGCCAAATC----ATCTTCGATCTGCTCTCCGCCGC
1 TACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGC
* *
98416860 TACAGAGACGCCAAATATATTATCTTCGATCTGCTCTCCGCCGC
1 TACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGC
* *
98416904 TACAGAGATGCCAAATCTATTATCTTCGATCTGCTCTCCGCCGC
1 TACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGC
* * * *
98416948 TACAGAGAAGCCAAATCTGCTATCTTCGATCTACTCTCTGCCGC
1 TACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGC
* * *
98416992 TACAGAAACGTCAAATCTGTTATCTTCGATCTACTCTCCGCCGC
1 TACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGC
* *
98417036 TACAGAGATGCCAAATC----ATCTTCGATCTGCTCTCCTCCGC
1 TACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGC
* * *
98417076 TACAGAGATGCCAAATCTGTTATCTTCGATTTTCTCTCCGCCGC
1 TACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGC
* **
98417120 TACAGAGACGCCAAATCTGTTATCTTCGACCTATTCTCCGCCGC
1 TACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGC
* * *
98417164 TACAGAGACGCCAAATCTATTATCTTCGATTTGCTCTCCGTCGC
1 TACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGC
* * *
98417208 TACAGAGATGCCAAATTTGTTATCTTCGATCTGCTCTCTGCCGC
1 TACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGC
* * **
98417252 TACAGAGAAGCCAAATCTGTTATCTTCGATCTGTTCTCTTCCGC
1 TACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGC
98417296 TACAGAGACGCCAAATCATGTT
1 TACAGAGACGCCAAATC-TGTT
98417318 GGATTTGCTT
Statistics
Matches: 607, Mismatches: 58, Indels: 17
0.89 0.09 0.02
Matches are distributed among these distances:
40 75 0.12
44 528 0.87
45 4 0.01
ACGTcount: A:0.23, C:0.31, G:0.17, T:0.29
Consensus pattern (44 bp):
TACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGC
Found at i:98416919 original size:216 final size:216
Alignment explanation
Indices: 98416621--98417317 Score: 1061
Period size: 216 Copynumber: 3.2 Consensus size: 216
98416611 CAAATCCGTT
*
98416621 ATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCT
1 ATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCC
*
98416686 GCTACAGAGACGCCAAATCTATTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAAATTTG
66 GCTACAGAGACGCCAAATCTATTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAAATCTG
*
98416751 TTATCTTCGATCTGCTCTCTGCCGCTATAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCG
131 TTATCTTCGATCTGCTCTCTGCCGCTACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCG
*
98416816 TCGCTACAGAGATGCCAAATC
196 CCGCTACAGAGATGCCAAATC
* *
98416837 ATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAAATATATTATCTTCGATCTGCTCTCCGCC
1 ATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCC
* *
98416902 GCTACAGAGATGCCAAATCTATTATCTTCGATCTGCTCTCCGCCGCTACAGAGAAGCCAAATCTG
66 GCTACAGAGACGCCAAATCTATTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAAATCTG
* * * * *
98416967 CTATCTTCGATCTACTCTCTGCCGCTACAGAAACGTCAAATCTGTTATCTTCGATCTACTCTCCG
131 TTATCTTCGATCTGCTCTCTGCCGCTACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCG
98417032 CCGCTACAGAGATGCCAAATC
196 CCGCTACAGAGATGCCAAATC
* * * *
98417053 ATCTTCGATCTGCTCTCCTCCGCTACAGAGATGCCAAATCTGTTATCTTCGATTTTCTCTCCGCC
1 ATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCC
* * ** *
98417118 GCTACAGAGACGCCAAATCTGTTATCTTCGACCTATTCTCCGCCGCTACAGAGACGCCAAATCTA
66 GCTACAGAGACGCCAAATCTATTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAAATCTG
* * * * * *
98417183 TTATCTTCGATTTGCTCTCCGTCGCTACAGAGATGCCAAATTTGTTATCTTCGATCTGCTCTCTG
131 TTATCTTCGATCTGCTCTCTGCCGCTACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCG
*
98417248 CCGCTACAGAGAAGCCAAATC
196 CCGCTACAGAGATGCCAAATC
* **
98417269 TGTTATCTTCGATCTGTTCTCTTCCGCTACAGAGACGCCAAATCATGTT
1 ----ATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAAATC-TGTT
98417318 GGATTTGCTT
Statistics
Matches: 435, Mismatches: 41, Indels: 5
0.90 0.09 0.01
Matches are distributed among these distances:
216 394 0.91
220 37 0.09
221 4 0.01
ACGTcount: A:0.22, C:0.31, G:0.16, T:0.30
Consensus pattern (216 bp):
ATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCC
GCTACAGAGACGCCAAATCTATTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAAATCTG
TTATCTTCGATCTGCTCTCTGCCGCTACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCG
CCGCTACAGAGATGCCAAATC
Found at i:98417638 original size:61 final size:64
Alignment explanation
Indices: 98417519--98417641 Score: 184
Period size: 61 Copynumber: 2.0 Consensus size: 64
98417509 TCATGTATCC
98417519 ATGCTTATGCCAAATAATTAGGATGCTATGATTGAAATGAATCAAATTCTCCTAACTAAATGTG
1 ATGCTTATGCCAAATAATTAGGATGCTATGATTGAAATGAATCAAATTCTCCTAACTAAATGTG
*
98417583 ATGCTTTATGTCAAATAATTAGGATG-T-T-A-TGAAATGAATCAAATGT-TCCTAACTAAATG
1 ATGC-TTATGCCAAATAATTAGGATGCTATGATTGAAATGAATCAAAT-TCTCCTAACTAAATG
98417642 AATGGTTATG
Statistics
Matches: 56, Mismatches: 1, Indels: 7
0.88 0.02 0.11
Matches are distributed among these distances:
61 28 0.50
62 2 0.04
63 1 0.02
64 5 0.09
65 20 0.36
ACGTcount: A:0.38, C:0.12, G:0.15, T:0.34
Consensus pattern (64 bp):
ATGCTTATGCCAAATAATTAGGATGCTATGATTGAAATGAATCAAATTCTCCTAACTAAATGTG
Found at i:98418342 original size:53 final size:52
Alignment explanation
Indices: 98418263--98418364 Score: 161
Period size: 53 Copynumber: 1.9 Consensus size: 52
98418253 AAACCCCTTT
* *
98418263 GGTCTCAAAGTGCCCTTTTGCGGGTTTTCACCTTGGCCTTTCCATTTTTTTTTG
1 GGTCTCAAAGCGCCCTTTTGCGGGTTTTCACCTCGGCCTTT-C-TTTTTTTTTG
98418317 GGTCTCAAAGCGCCC-TTTGCGGGTTTTCACCTCGGCCTTTCTTTTTTT
1 GGTCTCAAAGCGCCCTTTTGCGGGTTTTCACCTCGGCCTTTCTTTTTTT
98418365 AGGTAAAATA
Statistics
Matches: 46, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
51 7 0.15
52 1 0.02
53 24 0.52
54 14 0.30
ACGTcount: A:0.09, C:0.26, G:0.21, T:0.44
Consensus pattern (52 bp):
GGTCTCAAAGCGCCCTTTTGCGGGTTTTCACCTCGGCCTTTCTTTTTTTTTG
Found at i:98429462 original size:6 final size:7
Alignment explanation
Indices: 98429447--98429472 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
98429437 CGCTTTGAAA
98429447 TTTTATT
1 TTTTATT
98429454 TTTTATT
1 TTTTATT
98429461 TTTTATT
1 TTTTATT
98429468 TTTTA
1 TTTTA
98429473 AAAGGGAATG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (7 bp):
TTTTATT
Found at i:98429572 original size:19 final size:19
Alignment explanation
Indices: 98429548--98429585 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
98429538 GAAATGAATA
98429548 ATTTCAGGCAAATAGGTTG
1 ATTTCAGGCAAATAGGTTG
*
98429567 ATTTCATGCAAATAGGTTG
1 ATTTCAGGCAAATAGGTTG
98429586 GCAATCTCAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.32, C:0.11, G:0.24, T:0.34
Consensus pattern (19 bp):
ATTTCAGGCAAATAGGTTG
Found at i:98430772 original size:15 final size:17
Alignment explanation
Indices: 98430738--98430780 Score: 63
Period size: 15 Copynumber: 2.6 Consensus size: 17
98430728 GAGGTTAGAT
*
98430738 TTTTTTCTTTTTCTTCA
1 TTTTTTATTTTTCTTCA
98430755 TTTTTTATTTTT-TT-A
1 TTTTTTATTTTTCTTCA
98430770 TTTTTTATTTT
1 TTTTTTATTTT
98430781 AGGTTGTATT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
15 12 0.48
16 2 0.08
17 11 0.44
ACGTcount: A:0.09, C:0.07, G:0.00, T:0.84
Consensus pattern (17 bp):
TTTTTTATTTTTCTTCA
Found at i:98435965 original size:5 final size:5
Alignment explanation
Indices: 98435955--98435983 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
98435945 TACTCACTCT
98435955 CCCTC CCCTC CCCTC CCCTC CCCTC CCCT
1 CCCTC CCCTC CCCTC CCCTC CCCTC CCCT
98435984 TCATGCCTTC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.00, C:0.79, G:0.00, T:0.21
Consensus pattern (5 bp):
CCCTC
Found at i:98437325 original size:3 final size:3
Alignment explanation
Indices: 98437317--98437377 Score: 61
Period size: 3 Copynumber: 20.0 Consensus size: 3
98437307 AAATAGCTTA
* * * *
98437317 AAT AAT AAT AAT AAT AAT AAT GAT AAT GAT AAT GAT AAT ATT AAT -AT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
98437364 AAAT AAT AAGT AAT
1 -AAT AAT AA-T AAT
98437378 CTAAAACTTA
Statistics
Matches: 47, Mismatches: 8, Indels: 6
0.77 0.13 0.10
Matches are distributed among these distances:
2 2 0.04
3 40 0.85
4 5 0.11
ACGTcount: A:0.59, C:0.00, G:0.07, T:0.34
Consensus pattern (3 bp):
AAT
Found at i:98437646 original size:12 final size:12
Alignment explanation
Indices: 98437631--98437655 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
98437621 AAAAAATACT
98437631 ATTAAAAATTTA
1 ATTAAAAATTTA
98437643 ATTAAAAATTTA
1 ATTAAAAATTTA
98437655 A
1 A
98437656 AGTAGGCTGA
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:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (12 bp):
ATTAAAAATTTA
Found at i:98437709 original size:3 final size:3
Alignment explanation
Indices: 98437703--98437909 Score: 110
Period size: 3 Copynumber: 69.7 Consensus size: 3
98437693 GTTTTAAAAA
* * *
98437703 AAT AAT AAT AAT AAT TAT AAAT AAT AAT AAT AGT AAT AAA AAGGT AA-
1 AAT AAT AAT AAT AAT AAT -AAT AAT AAT AAT AAT AAT AAT AA--T AAT
* * * * * *
98437750 AA- AAT AAT AA- AAT AAT AAA AAT ACT ATT ACGTT ACT ACT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A--AT AAT AAT AAT AAT
* * * * * *
98437795 AAT AA- AAA AAG AA- AAC AAT AAT -AT TAT ATAG AAT AAT AGT AA-
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A-AT AAT AAT AAT AAT
*
98437837 AAGT AAT AAAT AAT AAT AAT AAT AAT AGT AAT AA- AA- AAT AAT AAT
1 AA-T AAT -AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* *
98437882 AAT AAT -AT AAT AAC AAT AAT AAA AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
98437910 CATTCTCCTC
Statistics
Matches: 163, Mismatches: 25, Indels: 32
0.74 0.11 0.15
Matches are distributed among these distances:
2 20 0.12
3 129 0.79
4 9 0.06
5 5 0.03
ACGTcount: A:0.65, C:0.03, G:0.04, T:0.28
Consensus pattern (3 bp):
AAT
Done.