Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold138
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: 1735418
ACGTcount: A:0.34, C:0.17, G:0.16, T:0.33
Warning! 2489 characters in sequence are not A, C, G, or T
File 7 of 11
Found at i:969051 original size:13 final size:13
Alignment explanation
Indices: 968969--969032 Score: 86
Period size: 13 Copynumber: 5.4 Consensus size: 13
968959 ATACATTTCT
968969 CATTGTATCGATA
1 CATTGTATCGATA
968982 CATTGTATCGATA
1 CATTGTATCGATA
968995 CATTG---C--T-
1 CATTGTATCGATA
969002 CATTGTATCGATA
1 CATTGTATCGATA
969015 CATTGTATCGATA
1 CATTGTATCGATA
969028 CATTG
1 CATTG
969033 CTCATTGTAT
Statistics
Matches: 45, Mismatches: 0, Indels: 12
0.79 0.00 0.21
Matches are distributed among these distances:
7 5 0.11
8 1 0.02
10 2 0.04
12 1 0.02
13 36 0.80
ACGTcount: A:0.28, C:0.17, G:0.16, T:0.39
Consensus pattern (13 bp):
CATTGTATCGATA
Found at i:971628 original size:51 final size:51
Alignment explanation
Indices: 971570--971689 Score: 143
Period size: 51 Copynumber: 2.4 Consensus size: 51
971560 TTATTTTCGA
* * *
971570 GGGGATACTCCAGCCCCGATTTTATTTCTAAAATACTAAATTT-TCACAATC
1 GGGGATACTCCAACCCCGATTTTATTTCAAAAACAC-AAATTTCTCACAATC
* *** *
971621 GGGGATACTCTAACTTTGATTTTATTTCAAAAACACCAATTTCTCACAATC
1 GGGGATACTCCAACCCCGATTTTATTTCAAAAACACAAATTTCTCACAATC
*
971672 GGGGATACTCTAACCCCG
1 GGGGATACTCCAACCCCG
971690 TTATTTTCAT
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
50 5 0.09
51 52 0.91
ACGTcount: A:0.31, C:0.24, G:0.13, T:0.32
Consensus pattern (51 bp):
GGGGATACTCCAACCCCGATTTTATTTCAAAAACACAAATTTCTCACAATC
Found at i:971725 original size:79 final size:76
Alignment explanation
Indices: 971642--971922 Score: 292
Period size: 79 Copynumber: 3.6 Consensus size: 76
971632 AACTTTGATT
*
971642 TTATTTCAAAAACACCAATTTCTCACAATCGGGGATACTCTAACCCCGTTATTTTCATGGAGATA
1 TTATTTC-AAAACACCAATTT-TCACAATCGGGGATACTCTAACCCCGTTATTTTCA-GGGGATA
*
971707 CTCCAACCCCGGCC
63 CTCCAACCCCGACC
* * * * *
971721 TTATTTCTAAAGCATCGATTTTCCACAATTGGGGATACTCCAACCCCGTTATTTTCGAGGGGATA
1 TTATTTC-AAAACACCAATTTT-CACAATCGGGGATACTCTAACCCCGTTATTTTC-AGGGGATA
* **
971786 CTCCAACCCTGATT
63 CTCCAACCCCGACC
* *
971800 TTATTTTCAAAACACCAATTTTCTAAAATCGGGGATACTCTAACCCCGTTATTTCCAAGGGGATA
1 TTA-TTTCAAAACACCAATTTTC-ACAATCGGGGATACTCTAACCCCGTTATTTTC-AGGGGATA
* **
971865 CTCCAACCCCAATT
63 CTCCAACCCCGACC
* * * *
971879 TTATTTCTAAAACATCAATTTTCCATAATCGGAGTTACTCTAAC
1 TTATTTC-AAAACACCAATTTT-CACAATCGGGGATACTCTAAC
971923 TCCGATTTTA
Statistics
Matches: 171, Mismatches: 25, Indels: 12
0.82 0.12 0.06
Matches are distributed among these distances:
78 6 0.04
79 159 0.93
80 6 0.04
ACGTcount: A:0.30, C:0.26, G:0.12, T:0.32
Consensus pattern (76 bp):
TTATTTCAAAACACCAATTTTCACAATCGGGGATACTCTAACCCCGTTATTTTCAGGGGATACTC
CAACCCCGACC
Found at i:971918 original size:158 final size:158
Alignment explanation
Indices: 971621--971918 Score: 411
Period size: 158 Copynumber: 1.9 Consensus size: 158
971611 TTTCACAATC
* ** *
971621 GGGGATACTCTAACTTTGATTTTATTTCAAAAACACCAATTTCTCACAATCGGGGATACTCTAAC
1 GGGGATACTCCAACCCTGATTTTATTTCAAAAACACCAATTTCTCAAAATCGGGGATACTCTAAC
* * ** * * *
971686 CCCGTTATTTTCATGGAGATACTCCAACCCCGGCCTTATTTCTAAAGCATCGATTTTCCACAATT
66 CCCGTTATTTCCAAGGAGATACTCCAACCCCAACCTTATTTCTAAAACATCAATTTTCCACAATC
*
971751 GGGGATACTCCAACCCCGTTATTTTCGA
131 GGAGATACTCCAACCCCGTTATTTTCGA
971779 GGGGATACTCCAACCCTGATTTTATTTTC-AAAACACCAATTT-TCTAAAATCGGGGATACTCTA
1 GGGGATACTCCAACCCTGATTTTA-TTTCAAAAACACCAATTTCTC-AAAATCGGGGATACTCTA
* ** *
971842 ACCCCGTTATTTCCAAGGGGATACTCCAACCCCAATTTTATTTCTAAAACATCAATTTTCCATAA
64 ACCCCGTTATTTCCAAGGAGATACTCCAACCCCAACCTTATTTCTAAAACATCAATTTTCCACAA
*
971907 TCGGAGTTACTC
129 TCGGAGATACTC
971919 TAACTCCGAT
Statistics
Matches: 121, Mismatches: 17, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
157 2 0.02
158 115 0.95
159 4 0.03
ACGTcount: A:0.29, C:0.26, G:0.13, T:0.32
Consensus pattern (158 bp):
GGGGATACTCCAACCCTGATTTTATTTCAAAAACACCAATTTCTCAAAATCGGGGATACTCTAAC
CCCGTTATTTCCAAGGAGATACTCCAACCCCAACCTTATTTCTAAAACATCAATTTTCCACAATC
GGAGATACTCCAACCCCGTTATTTTCGA
Found at i:971969 original size:51 final size:51
Alignment explanation
Indices: 971858--971976 Score: 143
Period size: 51 Copynumber: 2.3 Consensus size: 51
971848 TTATTTCCAA
*
971858 GGGGATACTCCAACCCCAATTTTATTTCTAAAACATCAATTTTCCATAATC
1 GGGGATACTCCAACCCCAATTTTATTTCTAAAACATCAATTTTCCACAATC
* * * * *
971909 GGAGTTACTCTAACTCCGATTTTATTT-TCAAAACATCAAATTTT-CACAATC
1 GGGGATACTCCAACCCCAATTTTATTTCT-AAAACATC-AATTTTCCACAATC
*
971960 GGGGGTACTCCAACCCC
1 GGGGATACTCCAACCCC
971977 GTTATTTCAT
Statistics
Matches: 56, Mismatches: 10, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
50 1 0.02
51 49 0.88
52 6 0.11
ACGTcount: A:0.31, C:0.26, G:0.11, T:0.32
Consensus pattern (51 bp):
GGGGATACTCCAACCCCAATTTTATTTCTAAAACATCAATTTTCCACAATC
Found at i:975237 original size:52 final size:52
Alignment explanation
Indices: 975159--975287 Score: 213
Period size: 52 Copynumber: 2.5 Consensus size: 52
975149 CCCGAAATAT
** *
975159 GAAAATTTATCTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGG
1 GAAAATTTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGG
*
975211 GAAAATTTGCCTGCATGTATCGATACATTTTATAATGTATCGATACATCTGG
1 GAAAATTTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGG
*
975263 GCAAATTTGCCTGCATGTATCGATA
1 GAAAATTTGCCTGCATGTATCGATA
975288 TAAAGATCAG
Statistics
Matches: 72, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
52 72 1.00
ACGTcount: A:0.31, C:0.16, G:0.18, T:0.36
Consensus pattern (52 bp):
GAAAATTTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGG
Found at i:975302 original size:52 final size:52
Alignment explanation
Indices: 975159--975309 Score: 189
Period size: 52 Copynumber: 2.9 Consensus size: 52
975149 CCCGAAATAT
** *
975159 GAAAATTTATCTGCATGTATCGATACATTTA-ATAGTGTATCGATACATCTGG
1 GAAAATTTGCCTGCATGTATCGATACA-TAAGATAGTGTATCGATACATCTGG
*** *
975211 GAAAATTTGCCTGCATGTATCGATACATTTTATAATGTATCGATACATCTGG
1 GAAAATTTGCCTGCATGTATCGATACATAAGATAGTGTATCGATACATCTGG
* *
975263 GCAAATTTGCCTGCATGTATCGATATA-AAGATCAGTGTATCGATACA
1 GAAAATTTGCCTGCATGTATCGATACATAAGAT-AGTGTATCGATACA
975310 ATGTATCGAT
Statistics
Matches: 87, Mismatches: 10, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
51 4 0.05
52 83 0.95
ACGTcount: A:0.32, C:0.15, G:0.18, T:0.34
Consensus pattern (52 bp):
GAAAATTTGCCTGCATGTATCGATACATAAGATAGTGTATCGATACATCTGG
Found at i:975316 original size:13 final size:13
Alignment explanation
Indices: 975298--975322 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
975288 TAAAGATCAG
975298 TGTATCGATACAA
1 TGTATCGATACAA
975311 TGTATCGATACA
1 TGTATCGATACA
975323 TGTGAGTAAT
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:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:975406 original size:13 final size:13
Alignment explanation
Indices: 975388--975412 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
975378 CAAAAAAATA
975388 TGTATCGATACAT
1 TGTATCGATACAT
975401 TGTATCGATACA
1 TGTATCGATACA
975413 ACATTTTATG
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:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:982255 original size:20 final size:21
Alignment explanation
Indices: 982184--982256 Score: 89
Period size: 20 Copynumber: 3.6 Consensus size: 21
982174 ACCCGGATGA
* *
982184 ATCGATACATT-TTTCAATGT
1 ATCGATACATTCTATAAATGT
*
982204 ATCGATACA-TGTATAAATGT
1 ATCGATACATTCTATAAATGT
*
982224 ATCGATACATTCTAT-AATAT
1 ATCGATACATTCTATAAATGT
982244 ATCGATACATTCT
1 ATCGATACATTCT
982257 GTCTTTTTAC
Statistics
Matches: 47, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
19 1 0.02
20 42 0.89
21 4 0.09
ACGTcount: A:0.36, C:0.15, G:0.10, T:0.40
Consensus pattern (21 bp):
ATCGATACATTCTATAAATGT
Found at i:990428 original size:80 final size:80
Alignment explanation
Indices: 990268--990470 Score: 208
Period size: 80 Copynumber: 2.6 Consensus size: 80
990258 AACTTCAAAA
* * * *
990268 AGAG-TGAAAA-TTTAAT-TTTTAG-CG-AAAATCGAGATTGGAGTATCCCTTCGAAGATGGTAG
1 AGAGATGAAAATTTTAATGTTTTAGAAGCAAAAACGAGGTTGGAGTATCCCTTCGAAGATGATAG
990328 GGTTAGGATATCCCT
66 GGTTAGGATATCCCT
* * *
990343 AGAGATGTAAAA-TTTAATGTTTTGGAAGTAAAAACGAGGTTGGTGTATCCCTTCGGAA-ATGAT
1 AGAGATG-AAAATTTTAATGTTTTAGAAGCAAAAACGAGGTTGGAGTATCCCTTC-GAAGATGAT
990406 -GAGGTT-GGAGTATCCCT
64 AG-GGTTAGGA-TATCCCT
* ** *
990423 TGAGATGAAAATTTTGGTGTTTTAGAAGCAAAAACGGGGTTGGAGTAT
1 AGAGATGAAAATTTTAATGTTTTAGAAGCAAAAACGAGGTTGGAGTAT
990471 TTCTTTAAAG
Statistics
Matches: 106, Mismatches: 13, Indels: 13
0.80 0.10 0.10
Matches are distributed among these distances:
75 4 0.04
76 2 0.02
77 10 0.09
78 5 0.05
79 9 0.08
80 73 0.69
81 3 0.03
ACGTcount: A:0.32, C:0.09, G:0.28, T:0.31
Consensus pattern (80 bp):
AGAGATGAAAATTTTAATGTTTTAGAAGCAAAAACGAGGTTGGAGTATCCCTTCGAAGATGATAG
GGTTAGGATATCCCT
Found at i:990631 original size:88 final size:89
Alignment explanation
Indices: 990481--990643 Score: 247
Period size: 88 Copynumber: 1.8 Consensus size: 89
990471 TTCTTTAAAG
* * *
990481 ATGGTGCGGTCGGAGTATACCCAGAGATGAAAATTTTGGTGTTTGAGAAATAAAAATGGGGTTGG
1 ATGGTGCGGTCGGAGTATACCCAAAGATGAAAAATTTGGTGTTTGAGAAATAAAAATAGGGTTGG
*
990546 TGTA-CCCCTTTTGATGTTTTGAA
66 AGTATCCCCTTTTGATGTTTTGAA
* * * *
990569 ATGGTGCGGTTGGAGTATTCCCAAAGATGAAAAATTTGGTGTTTGGGGAATAAAAATAGGGTTGG
1 ATGGTGCGGTCGGAGTATACCCAAAGATGAAAAATTTGGTGTTTGAGAAATAAAAATAGGGTTGG
990634 AGTATCCCCT
66 AGTATCCCCT
990644 CGAAAATAGT
Statistics
Matches: 66, Mismatches: 8, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
88 61 0.92
89 5 0.08
ACGTcount: A:0.28, C:0.10, G:0.30, T:0.31
Consensus pattern (89 bp):
ATGGTGCGGTCGGAGTATACCCAAAGATGAAAAATTTGGTGTTTGAGAAATAAAAATAGGGTTGG
AGTATCCCCTTTTGATGTTTTGAA
Found at i:990797 original size:80 final size:80
Alignment explanation
Indices: 990683--990864 Score: 197
Period size: 80 Copynumber: 2.3 Consensus size: 80
990673 AGTTGAAAAT
* * ** * * * * *
990683 TTCAGTGTTTTATAAGTAAAAACGGGGTTAGAGTATCCT-TTTAGAAATGGTGGGCTTAGAGTAT
1 TTCAATGTTTTAGAAGTAAAAACATGATTGGAGTATCCTCTTGA-AAATGATGGGATTAGAGTAT
* *
990747 CCCCAAAGGTGAAGAAA
65 -CCCAAAGATAAAGAAA
*
990764 TTCAATG-TTTAGAAGTAAAAACATGATTGGAGTATCCTCTTGAAAATGATGGGATTGGAGTATC
1 TTCAATGTTTTAGAAGTAAAAACATGATTGGAGTATCCTCTTGAAAATGATGGGATTAGAGTATC
* * *
990828 CTAGATATAAAGAAA
66 CCAAAGATAAAGAAA
990843 TTCAATGTTTTAGAAGTAAAAA
1 TTCAATGTTTTAGAAGTAAAAA
990865 TGGGGGTTGG
Statistics
Matches: 84, Mismatches: 15, Indels: 5
0.81 0.14 0.05
Matches are distributed among these distances:
79 18 0.21
80 57 0.68
81 9 0.11
ACGTcount: A:0.37, C:0.09, G:0.23, T:0.31
Consensus pattern (80 bp):
TTCAATGTTTTAGAAGTAAAAACATGATTGGAGTATCCTCTTGAAAATGATGGGATTAGAGTATC
CCAAAGATAAAGAAA
Found at i:993213 original size:20 final size:20
Alignment explanation
Indices: 993197--993235 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
993187 ATTGATATAT
* *
993197 TGAAGAATGTGTCGATACAA
1 TGAAAAATGTATCGATACAA
993217 TGAAAAATGTATCGATACA
1 TGAAAAATGTATCGATACA
993236 TTCACTTATG
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:0.44, C:0.10, G:0.21, T:0.26
Consensus pattern (20 bp):
TGAAAAATGTATCGATACAA
Found at i:993952 original size:70 final size:69
Alignment explanation
Indices: 993823--994904 Score: 680
Period size: 70 Copynumber: 15.4 Consensus size: 69
993813 AGTAAATAGC
* * * * * * * *
993823 TGCCACCAACTTGTATGGGCTTTGAGAAA-TAAAAGAAGTCCGGCTTTTTTAGGAC-AAAAGGGA
1 TGCCACCAGCTTGTGTGGGCTTT-AAAAAGAAAAAGCA-TCCTGCTCTTTAAGGACTAAAA-GGA
993886 TAAAAGG
63 TAAAAGG
* * * * *
993893 TGCCACCAGCTTATATAGGCTTTAAAAAGAAAAGGCATCCTACTCTTTAAGGACTAAAAGGATAA
1 TGCCACCAGCTTGTGTGGGCTTTAAAAAGAAAAAGCATCCTGCTCTTTAAGGACTAAAAGGATAA
*
993958 AAAG
66 AAGG
* * *
993962 TGCCACTAGCTTGTGTGGGCTTTAAAAAGAAAAAG-ATGTCCTACTCTTTGAGGACTAAAAGGAT
1 TGCCACCAGCTTGTGTGGGCTTTAAAAAGAAAAAGCA--TCCTGCTCTTTAAGGACTAAAAGGAT
994026 AAAAGG
64 AAAAGG
* * * * * *
994032 TGCCACCGGCTTCTGTGGGCTTT---TA-AAAAAGCGTCATGCTCTTTGAA-GACTGAAAGGATA
1 TGCCACCAGCTTGTGTGGGCTTTAAAAAGAAAAAGCATCCTGCTCTTT-AAGGACTAAAAGGATA
994092 AAAGG
65 AAAGG
* * * * * * * * *
994097 TGCTACCAGTTTGTGCGAGTTTTAAAAAGAAAAA-AATGTCATACTTTTTGAA-GACTAAAAGGA
1 TGCCACCAGCTTGTGTGGGCTTTAAAAAGAAAAAGCA--TCCTGCTCTTT-AAGGACTAAAAGGA
994160 TAAAAGGG
63 TAAAA-GG
** * *
994168 TTTGCCACCAGCTTGTGTGGGCTTT-AAAAGAAAAAAGCATATTGCTCTTTGAGAACTAAAAAGG
1 --TGCCACCAGCTTGTGTGGGCTTTAAAAAG-AAAAAGCATCCTGCTCTTTAAGGACT-AAAAGG
994232 ATAAAAAGAGG
62 AT--AAA-AGG
* * * * * *
994243 TGCCACCAGCTTATGTAGACTTTAAGAAA-AAAAAGATATCTTGCTCTTTAAGGACTAAAAATGA
1 TGCCACCAGCTTGTGTGGGCTTTAA-AAAGAAAAAG-CATCCTGCTCTTTAAGGACT-AAAAGGA
994307 TAAAAAGAG
63 T-AAAAG-G
* * * * * * *
994316 TGCCGCTAGCTTGTGTAGGCTTTAAAAAGAAAAAAAAAACGTCCTACTCTTTGAGGACTAAAAGG
1 TGCCACCAGCTTGTGTGGGCTTTAAAAAG----AAAAAGCATCCTGCTCTTTAAGGACTAAAAGG
994381 ATAAAAGAGTG
62 AT-AAA-AG-G
* *
994392 TGCCACCAGCTTGTGTGGGCTTT-AAAAGAAAAAG-A-----C-ATTTGAGGACTAAAAAGGATA
1 TGCCACCAGCTTGTGTGGGCTTTAAAAAGAAAAAGCATCCTGCTCTTTAAGGACT-AAAAGGATA
994449 AAAGGGG
65 AAA--GG
* * *
994456 TGCCACTAACTTGTGTGGGCTTT-AAAAGAAAAAG-AGGTCCTGCTCTTTGAGGACTAAAAAGGA
1 TGCCACCAGCTTGTGTGGGCTTTAAAAAGAAAAAGCA--TCCTGCTCTTTAAGGACT-AAAAGGA
994519 TAAAAAGGG
63 T-AAAA-GG
* * * * * * *
994528 TGCCACTAGCTTGTGTGGGCTTTAAAAGGAAAAAAAACTTCATGCTTTTTGAA-GACTGAAAGGA
1 TGCCACCAGCTTGTGTGGGCTTTAAAA--AGAAAAAGCATCCTGCTCTTT-AAGGACTAAAAGGA
994592 TAAAAGG
63 TAAAAGG
* ** *** * *
994599 T-CCACTAGCTTGTGTCAGCTTTAAAAAGAAAAAATGTCTTAG-TCTTTGAGGACTAAAAGG-TA
1 TGCCACCAGCTTGTGTGGGCTTTAAAAAGAAAAAGCATCCT-GCTCTTTAAGGACTAAAAGGATA
*
994661 AAAAG
65 AAAGG
* * * * * *
994666 TGCCTACCAACTTGTGTGGGCTTTAAAAAGAAAAAAACGTCATGCTCTTTGAGGATTGAAAAGG-
1 TGCC-ACCAGCTTGTGTGGGCTTTAAAAAG-AAAAAGCATCCTGCTCTTTAAGGACT-AAAAGGA
*
994730 TAAAGGG
63 TAAAAGG
* * *
994737 TGCCACCAGCTTATATGGGCTTTAAAAAGAAAAAGGCATTCTGCTCTTTTAA-GACTGAAAAGG-
1 TGCCACCAGCTTGTGTGGGCTTTAAAAAGAAAAA-GCATCCTGCTC-TTTAAGGACT-AAAAGGA
994800 TAAAAGG
63 TAAAAGG
* * * * * *
994807 TGCCACCAACTTTTATTGGCTTTAAAAAGAAAAAGCGTCTTGCTCTTTGAA-GACTAAAAGG-TA
1 TGCCACCAGCTTGTGTGGGCTTTAAAAAGAAAAAGCATCCTGCTCTTT-AAGGACTAAAAGGATA
*
994870 AAATG
65 AAAGG
* * * *
994875 TGCTACTTA-CTTCTGTGAGCTTTAAAAAGA
1 TGCCAC-CAGCTTGTGTGGGCTTTAAAAAGA
994905 GTTTAAGTTT
Statistics
Matches: 820, Mismatches: 132, Indels: 122
0.76 0.12 0.11
Matches are distributed among these distances:
63 1 0.00
64 47 0.06
65 52 0.06
66 7 0.01
67 9 0.01
68 64 0.08
69 104 0.13
70 226 0.28
71 31 0.04
72 68 0.08
73 97 0.12
74 39 0.05
75 31 0.04
76 39 0.05
77 5 0.01
ACGTcount: A:0.38, C:0.14, G:0.22, T:0.26
Consensus pattern (69 bp):
TGCCACCAGCTTGTGTGGGCTTTAAAAAGAAAAAGCATCCTGCTCTTTAAGGACTAAAAGGATAA
AAGG
Found at i:994439 original size:64 final size:67
Alignment explanation
Indices: 994293--994561 Score: 262
Period size: 72 Copynumber: 3.9 Consensus size: 67
994283 TTGCTCTTTA
* * * * *
994293 AGGACTAAAAATGATAAAA-AGAGTGCCGCTAGCTTGTGTAGGCTTTAAAAAGAAAAAAAAAACG
1 AGGACTAAAAAGGATAAAAGAGGGTGCCACTAGCTTGTGTGGGCTTT-AAAAG---AAAAAGA-G
994357 TCCTACTCTTTG
61 --CTA---TTTG
* *
994369 AGGACT-AAAAGGATAAAAGAGTGTGCCACCAGCTTGTGTGGGCTTTAAAAGAAAAAGA-C-ATT
1 AGGACTAAAAAGGATAAAAGAGGGTGCCACTAGCTTGTGTGGGCTTTAAAAGAAAAAGAGCTATT
994431 TG
66 TG
*
994433 AGGACTAAAAAGGATAAAAG-GGGTGCCACTAACTTGTGTGGGCTTTAAAAGAAAAAGAGGTCCT
1 AGGACTAAAAAGGATAAAAGAGGGTGCCACTAGCTTGTGTGGGCTTTAAAAGAAAAAGA------
*
994497 GCTCTTTG
60 GCTATTTG
994505 AGGACTAAAAAGGATAAAA-AGGGTGCCACTAGCTTGTGTGGGCTTTAAAAGGAAAAA
1 AGGACTAAAAAGGATAAAAGAGGGTGCCACTAGCTTGTGTGGGCTTTAAAA-GAAAAA
994562 AAACTTCATG
Statistics
Matches: 170, Mismatches: 11, Indels: 27
0.82 0.05 0.13
Matches are distributed among these distances:
64 45 0.26
65 13 0.08
67 1 0.01
68 1 0.01
71 1 0.01
72 58 0.34
73 6 0.04
75 16 0.09
76 29 0.17
ACGTcount: A:0.39, C:0.13, G:0.25, T:0.22
Consensus pattern (67 bp):
AGGACTAAAAAGGATAAAAGAGGGTGCCACTAGCTTGTGTGGGCTTTAAAAGAAAAAGAGCTATT
TG
Found at i:994481 original size:286 final size:275
Alignment explanation
Indices: 994143--994700 Score: 682
Period size: 286 Copynumber: 2.0 Consensus size: 275
994133 TGTCATACTT
* *
994143 TTTGAAGACTAAAAGGATAAAAGGGTTTGCCACCAGCTTGTGTGGGCTTTAAAAGAAAAA-AGCA
1 TTTGAAGACTAAAAGGATAAAAGGGTGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAAGAG-A
*
994207 TATTGCTCTTTGAGAACTAAAAAGGATAAAAAGAGGTGCCACCAGCTTATGTAGACTTT-AA-GA
65 TACTGCTCTTTGAGAACTAAAAAGGATAAAAAG-GGTGCCACCAGCTTATGTAGACTTTAAAGGA
* * *
994270 AAAAAAAGATATCTTGCTCTTT-AAGGACTAAAAATGATAAAAAGAGTGCCGCTAGCTTGTGT-A
129 AAAAAAA-AT-TCATGCTCTTTGAA-GACT-AAAAGGAT-AAAAG-GT-CCACTAGCTTGTGTCA
994333 GGCTTTAAAAAGAAAAAAAAAACGTCCTACTCTTTGAGGACTAAAAGGATAAAAGAGTGTGCC-A
187 -GCTTTAAAAAG----AAAAAACGTCCTACTCTTTGAGGACTAAAAGG-TAAAA-A--GTGCCTA
*
994397 CCAGCTTGTGTGGGCTTT-AAAAGAAAAAGACA
243 CCAACTTGTGTGGGCTTTAAAAAGAAAAAGACA
* * *
994429 TTTGAGGACTAAAAAGGATAAAAGGG-GTGCCACTAACTTGTGTGGGCTTTAAAAGAAAAAGAGG
1 TTTGAAGACT-AAAAGGATAAAAGGGTGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAAGAGA
* * * * * *
994493 TCCTGCTCTTTGAGGACTAAAAAGGATAAAAAGGGTGCCACTAGCTTGTGTGGGCTTTAAAAGGA
65 TACTGCTCTTTGAGAACTAAAAAGGATAAAAAGGGTGCCACCAGCTTATGTAGACTTT-AAAGGA
* * *
994558 AAAAAAACTTCATGCTTTTTGAAGACTGAAAGGATAAAAGGTCCACTAGCTTGTGTCAGCTTTAA
129 AAAAAAAATTCATGCTCTTTGAAGACTAAAAGGATAAAAGGTCCACTAGCTTGTGTCAGCTTTAA
* * *
994623 AAAGAAAAAATGTCTTAGTCTTTGAGGACTAAAAGGTAAAAAGTGCCTACCAACTTGTGTGGGCT
194 AAAGAAAAAACGTCCTACTCTTTGAGGACTAAAAGGTAAAAAGTGCCTACCAACTTGTGTGGGCT
994688 TTAAAAAGAAAAA
259 TTAAAAAGAAAAA
994701 AACGTCATGC
Statistics
Matches: 241, Mismatches: 22, Indels: 28
0.83 0.08 0.10
Matches are distributed among these distances:
274 5 0.02
275 18 0.07
276 11 0.05
277 5 0.02
278 29 0.12
282 24 0.10
283 3 0.01
284 5 0.02
285 27 0.11
286 83 0.34
287 22 0.09
288 9 0.04
ACGTcount: A:0.39, C:0.13, G:0.23, T:0.25
Consensus pattern (275 bp):
TTTGAAGACTAAAAGGATAAAAGGGTGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAAGAGAT
ACTGCTCTTTGAGAACTAAAAAGGATAAAAAGGGTGCCACCAGCTTATGTAGACTTTAAAGGAAA
AAAAAATTCATGCTCTTTGAAGACTAAAAGGATAAAAGGTCCACTAGCTTGTGTCAGCTTTAAAA
AGAAAAAACGTCCTACTCTTTGAGGACTAAAAGGTAAAAAGTGCCTACCAACTTGTGTGGGCTTT
AAAAAGAAAAAGACA
Found at i:994556 original size:39 final size:39
Alignment explanation
Indices: 994440--994563 Score: 111
Period size: 39 Copynumber: 3.3 Consensus size: 39
994430 TTGAGGACTA
* *
994440 AAAAGGATAAAAGGGGTGCCACTAACTTGTGTGGGCTTT
1 AAAAGGATAAAAAGGGTGCCACTAGCTTGTGTGGGCTTT
* * * *
994479 AAAA-G--AAAAAGAGGT--C-CT-GCTCTTTGAGGAC-TA
1 AAAAGGATAAAAAG-GGTGCCACTAGCT-TGTGTGGGCTTT
994512 AAAAGGATAAAAAGGGTGCCACTAGCTTGTGTGGGCTTT
1 AAAAGGATAAAAAGGGTGCCACTAGCTTGTGTGGGCTTT
*
994551 AAAAGGAAAAAAA
1 AAAAGGATAAAAA
994564 ACTTCATGCT
Statistics
Matches: 64, Mismatches: 11, Indels: 20
0.67 0.12 0.21
Matches are distributed among these distances:
33 7 0.11
34 9 0.14
35 4 0.06
36 11 0.17
37 4 0.06
38 9 0.14
39 20 0.31
ACGTcount: A:0.39, C:0.12, G:0.27, T:0.22
Consensus pattern (39 bp):
AAAAGGATAAAAAGGGTGCCACTAGCTTGTGTGGGCTTT
Found at i:994748 original size:139 final size:139
Alignment explanation
Indices: 993823--994871 Score: 789
Period size: 139 Copynumber: 7.5 Consensus size: 139
993813 AGTAAATAGC
* * * * * ** * *
993823 TGCCACCAACTTGTATGGGCTTTGAGAAATAAAAGAA-GTCCGGCTTTTTTAGGAC-AAAAGGGA
1 TGCCACCAGCTTGTGTGGGCTTT-AAAAAGAAAAAAACGTCATGCTCTTTGAGGACTAAAA-GGA
* * * * ** * * *
993886 TAAAAGGTGCCACCAGCTTATATAGGCTTTAAAAAGAAAAGGCATCCTACTCTTTAAGGACTAAA
64 TAAAGGGTGCCACCAGCTTGTGTGGGCTTTAAAAAGAAAAAACGTCCTGCTCTTTGAGGACTAAA
993951 AGGATAAAAAG
129 AGGATAAAAAG
* * * * *
993962 TGCCACTAGCTTGTGTGGGCTTTAAAAAGAAAAAGATGTCCTACTCTTTGAGGACTAAAAGGATA
1 TGCCACCAGCTTGTGTGGGCTTTAAAAAGAAAAAAACGTCATGCTCTTTGAGGACTAAAAGGATA
* * * * * * * *
994027 AAAGGTGCCACCGGCTTCTGTGGGCTTT---TA-AAAAAGCGTCATGCTCTTTGAAGACTGAAAG
66 AAGGGTGCCACCAGCTTGTGTGGGCTTTAAAAAGAAAAAACGTCCTGCTCTTTGAGGACTAAAAG
*
994088 GATAAAAGG
131 GATAAAAAG
* * * * * * * * *
994097 TGCTACCAGTTTGTGCGAGTTTTAAAAAGAAAAAAATGTCATACTTTTTGAAGACTAAAAGGATA
1 TGCCACCAGCTTGTGTGGGCTTTAAAAAGAAAAAAACGTCATGCTCTTTGAGGACTAAAAGGAT-
* ** *
994162 AAAGGGTTTGCCACCAGCTTGTGTGGGCTTT-AAAAGAAAAAAGCATATTGCTCTTTGAGAACTA
65 AAAGGG--TGCCACCAGCTTGTGTGGGCTTTAAAAAGAAAAAA-CGTCCTGCTCTTTGAGGACT-
994226 AAAAGGATAAAAAGAGG
126 AAAAGGAT-AAAA-A-G
* * * * ** * * *
994243 TGCCACCAGCTTATGTAGACTTTAAGAAA-AAAAAGATATCTTGCTCTTTAAGGACTAAAAATGA
1 TGCCACCAGCTTGTGTGGGCTTTAA-AAAGAAAAAAACGTCATGCTCTTTGAGGACT-AAAAGGA
* * * * *
994307 TAAAAAGAGTGCCGCTAGCTTGTGTAGGCTTTAAAAAGAAAAAAAAAACGTCCTACTCTTTGAGG
64 T--AAAGGGTGCCACCAGCTTGTGTGGGCTTTAAAAAG----AAAAAACGTCCTGCTCTTTGAGG
994372 ACTAAAAGGATAAAAGAGTG
123 ACTAAAAGGATAAAA-A--G
*
994392 TGCCACCAGCTTGTGTGGGCTTT-AAAAG--AAAAA-G--A--C-ATTTGAGGACTAAAAAGGAT
1 TGCCACCAGCTTGTGTGGGCTTTAAAAAGAAAAAAACGTCATGCTCTTTGAGGACT-AAAAGGAT
* * *
994448 AAAAGGGGTGCCACTAACTTGTGTGGGCTTT-AAAAGAAAAAGAGGTCCTGCTCTTTGAGGACTA
65 -AAA-GGGTGCCACCAGCTTGTGTGGGCTTTAAAAAGAAAAA-ACGTCCTGCTCTTTGAGGACT-
994512 AAAAGGATAAAAAGGG
126 AAAAGGATAAAAA--G
* * * * * *
994528 TGCCACTAGCTTGTGTGGGCTTTAAAAGGAAAAAAAACTTCATGCTTTTTGAAGACTGAAAGGAT
1 TGCCACCAGCTTGTGTGGGCTTTAAAAAG-AAAAAAACGTCATGCTCTTTGAGGACTAAAAGGAT
* * ** * *
994593 AAAAGGT-CCACTAGCTTGTGTCAGCTTTAAAAAGAAAAAATGTCTTAG-TCTTTGAGGACTAAA
65 AAAGGGTGCCACCAGCTTGTGTGGGCTTTAAAAAGAAAAAACGTCCT-GCTCTTTGAGGACTAAA
994656 AGG-TAAAAAG
129 AGGATAAAAAG
* *
994666 TGCCTACCAACTTGTGTGGGCTTTAAAAAGAAAAAAACGTCATGCTCTTTGAGGATTGAAAAGG-
1 TGCC-ACCAGCTTGTGTGGGCTTTAAAAAGAAAAAAACGTCATGCTCTTTGAGGACT-AAAAGGA
* * * * * * *
994730 TAAAGGGTGCCACCAGCTTATATGGGCTTTAAAAAGAAAAAGGCATTCTGCTCTTTTAAGACTGA
64 TAAAGGGTGCCACCAGCTTGTGTGGGCTTTAAAAAGAAAAA-ACGTCCTGCTCTTTGAGGACT-A
*
994795 AAAGG-TAAAAGG
127 AAAGGATAAAAAG
* * * * * * *
994807 TGCCACCAACTTTTATTGGCTTTAAAAAG-AAAAAGCGTCTTGCTCTTTGAAGACTAAAAGG-TA
1 TGCCACCAGCTTGTGTGGGCTTTAAAAAGAAAAAAACGTCATGCTCTTTGAGGACTAAAAGGATA
994870 AA
66 AA
994872 ATGTGCTACT
Statistics
Matches: 737, Mismatches: 129, Indels: 89
0.77 0.14 0.09
Matches are distributed among these distances:
135 91 0.12
136 50 0.07
137 16 0.02
138 75 0.10
139 149 0.20
140 89 0.12
141 28 0.04
142 50 0.07
143 22 0.03
144 7 0.01
145 8 0.01
146 71 0.10
147 18 0.02
148 13 0.02
149 29 0.04
150 15 0.02
151 6 0.01
ACGTcount: A:0.38, C:0.14, G:0.22, T:0.25
Consensus pattern (139 bp):
TGCCACCAGCTTGTGTGGGCTTTAAAAAGAAAAAAACGTCATGCTCTTTGAGGACTAAAAGGATA
AAGGGTGCCACCAGCTTGTGTGGGCTTTAAAAAGAAAAAACGTCCTGCTCTTTGAGGACTAAAAG
GATAAAAAG
Found at i:1008511 original size:80 final size:80
Alignment explanation
Indices: 1008374--1008558 Score: 196
Period size: 80 Copynumber: 2.3 Consensus size: 80
1008364 TGATGTTTTG
*
1008374 AAATGGTGGGGTTAGAGTATCCCCAAAGATGAAAAATTCGGTGTTTAGAGAACAAAAAC-GAGGT
1 AAATGGTGGGGTTAGAGTATCCCCAAAGATGAAAAATTCAGTGTTTAGAGAACAAAAACAG-GGT
1008438 TGGAGTATC-CATTCAA
65 TGGAGTATCTC-TTCAA
* * * ** * **
1008454 AAATGGTGGAGTTAGAGTATTCTCTGAGATGAAAATTTCAGTGTTTTAGA-AGTAAAAACAGGGT
1 AAATGGTGGGGTTAGAGTATCCCCAAAGATGAAAAATTCAGTG-TTTAGAGAACAAAAACAGGGT
* **
1008518 TTGAGTATCTCTTCGG
65 TGGAGTATCTCTTCAA
* *
1008534 AAATGGTGGGGTTGGAGTACCCCCA
1 AAATGGTGGGGTTAGAGTATCCCCA
1008559 GGATGAAGAA
Statistics
Matches: 84, Mismatches: 18, Indels: 6
0.78 0.17 0.06
Matches are distributed among these distances:
80 76 0.90
81 8 0.10
ACGTcount: A:0.33, C:0.12, G:0.28, T:0.28
Consensus pattern (80 bp):
AAATGGTGGGGTTAGAGTATCCCCAAAGATGAAAAATTCAGTGTTTAGAGAACAAAAACAGGGTT
GGAGTATCTCTTCAA
Found at i:1008579 original size:80 final size:82
Alignment explanation
Indices: 1008479--1008679 Score: 207
Period size: 80 Copynumber: 2.5 Consensus size: 82
1008469 AGTATTCTCT
* * * * **
1008479 GAGATGAA-AATTTCAGTGTTTTAGAAGTAAAAACAGGGTTTG-AGTA-TCTCTTCGGAAATGGT
1 GAGATGAAGAAATTCAATGTTTTAGAAGTAAAAACAGGGTTTGAAGTATTC-CCTCGAAAATAAT
*
1008541 GGGGTTGGAGTACCCCCA
65 GAGGTTGGAGTACCCCCA
* * *
1008559 G-GATGAAGAACTTCAATGTTTT-GAAAGTAAAAA-TGGGGTTGAAGTATTCCCTCGAAAATAAT
1 GAGATGAAGAAATTCAATGTTTTAG-AAGTAAAAACAGGGTTTGAAGTATTCCCTCGAAAATAAT
* *
1008621 GAGGTTGGTGTATCCCCA
65 GAGGTTGGAGTACCCCCA
* * *
1008639 GAGTTGAAGAAATTTAATGTTTTAGAAGTAAAAACGGGGTT
1 GAGATGAAGAAATTCAATGTTTTAGAAGTAAAAACAGGGTT
1008680 GGTGTACCCT
Statistics
Matches: 98, Mismatches: 16, Indels: 12
0.78 0.13 0.10
Matches are distributed among these distances:
79 13 0.13
80 51 0.52
81 29 0.30
82 5 0.05
ACGTcount: A:0.33, C:0.10, G:0.27, T:0.29
Consensus pattern (82 bp):
GAGATGAAGAAATTCAATGTTTTAGAAGTAAAAACAGGGTTTGAAGTATTCCCTCGAAAATAATG
AGGTTGGAGTACCCCCA
Found at i:1015697 original size:13 final size:13
Alignment explanation
Indices: 1015679--1015704 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1015669 CAATTTTTTG
1015679 TGTATCGATACAT
1 TGTATCGATACAT
1015692 TGTATCGATACAT
1 TGTATCGATACAT
1015705 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1015769 original size:21 final size:21
Alignment explanation
Indices: 1015743--1015818 Score: 100
Period size: 21 Copynumber: 3.7 Consensus size: 21
1015733 CTGCCAAGAA
*
1015743 ATGTATCGATACATCTTTTTT
1 ATGTATCGATACATCTTTTTC
****
1015764 ATGTATCGATACAT-TGCAAC
1 ATGTATCGATACATCTTTTTC
1015784 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACATCTTTTTC
1015805 ATGTATCGATACAT
1 ATGTATCGATACAT
1015819 TGCAACATGT
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
20 15 0.33
21 30 0.67
ACGTcount: A:0.29, C:0.17, G:0.12, T:0.42
Consensus pattern (21 bp):
ATGTATCGATACATCTTTTTC
Found at i:1015789 original size:20 final size:20
Alignment explanation
Indices: 1015764--1015836 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
1015754 CATCTTTTTT
1015764 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
****
1015784 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACAT-TGCAAC
1015805 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
1015825 ATGTATCGATAC
1 ATGTATCGATAC
1015837 TTTGAATTGT
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
20 28 0.64
21 16 0.36
ACGTcount: A:0.32, C:0.19, G:0.14, T:0.36
Consensus pattern (20 bp):
ATGTATCGATACATTGCAAC
Found at i:1015800 original size:41 final size:41
Alignment explanation
Indices: 1015743--1015836 Score: 179
Period size: 41 Copynumber: 2.3 Consensus size: 41
1015733 CTGCCAAGAA
*
1015743 ATGTATCGATACATCTTTTTTATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
1015784 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
1015825 ATGTATCGATAC
1 ATGTATCGATAC
1015837 TTTGAATTGT
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 52 1.00
ACGTcount: A:0.30, C:0.18, G:0.13, T:0.39
Consensus pattern (41 bp):
ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
Found at i:1016510 original size:73 final size:73
Alignment explanation
Indices: 1016420--1016569 Score: 291
Period size: 73 Copynumber: 2.1 Consensus size: 73
1016410 TTAATAAGGT
1016420 AATTCACGCATTCTCTCCTTTGTCTCCCCCGTTTATTAATAAATCTCCCCCTTAATCAAGTAATT
1 AATTCACGCATTCTCTCCTTTGTCTCCCCCGTTTATTAATAAATCTCCCCCTTAATCAAGTAATT
*
1016485 CATGTCAA
66 CATATCAA
1016493 AATTCACGCATTCTCTCCTTTGTCTCCCCCGTTTATTAATAAATCTCCCCCTTAATCAAGTAATT
1 AATTCACGCATTCTCTCCTTTGTCTCCCCCGTTTATTAATAAATCTCCCCCTTAATCAAGTAATT
1016558 CATATCAA
66 CATATCAA
1016566 AATT
1 AATT
1016570 TATTTGCACT
Statistics
Matches: 76, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
73 76 1.00
ACGTcount: A:0.27, C:0.29, G:0.06, T:0.37
Consensus pattern (73 bp):
AATTCACGCATTCTCTCCTTTGTCTCCCCCGTTTATTAATAAATCTCCCCCTTAATCAAGTAATT
CATATCAA
Found at i:1018210 original size:21 final size:21
Alignment explanation
Indices: 1018186--1018232 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 21
1018176 TTTAATGCTG
1018186 ATTTTG-A-TGAAAAACGAAGT
1 ATTTTGAAGTGAAAAAC-AAGT
1018206 -TATTTGAAGTGAAAAACAAGT
1 AT-TTTGAAGTGAAAAACAAGT
1018227 ATTTTG
1 ATTTTG
1018233 CAAAAGATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 7
0.77 0.00 0.23
Matches are distributed among these distances:
19 1 0.04
20 4 0.17
21 9 0.39
22 9 0.39
ACGTcount: A:0.43, C:0.04, G:0.19, T:0.34
Consensus pattern (21 bp):
ATTTTGAAGTGAAAAACAAGT
Found at i:1018371 original size:13 final size:13
Alignment explanation
Indices: 1018353--1018391 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
1018343 ATAATCACCC
*
1018353 TGTATCGATACAG
1 TGTATCGATACAA
1018366 TGTATCGATACAA
1 TGTATCGATACAA
1018379 TGTATCGATACAA
1 TGTATCGATACAA
1018392 AGAAAAATGT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.36, C:0.15, G:0.18, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1018402 original size:20 final size:20
Alignment explanation
Indices: 1018377--1018455 Score: 77
Period size: 20 Copynumber: 3.7 Consensus size: 20
1018367 GTATCGATAC
1018377 AATGTATCGATACAAAGAAA
1 AATGTATCGATACAAAGAAA
*
1018397 AATGTATCGATACATAGAATTTCCA
1 AATGTATCGATACAAAGAA-----A
* *
1018422 GATGTATCGATACACAGAAA
1 AATGTATCGATACAAAGAAA
*
1018442 CATGTATCGATACA
1 AATGTATCGATACA
1018456 TTTTGGACCT
Statistics
Matches: 50, Mismatches: 4, Indels: 10
0.78 0.06 0.16
Matches are distributed among these distances:
20 32 0.64
25 18 0.36
ACGTcount: A:0.44, C:0.15, G:0.15, T:0.25
Consensus pattern (20 bp):
AATGTATCGATACAAAGAAA
Found at i:1020492 original size:15 final size:15
Alignment explanation
Indices: 1020472--1020502 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
1020462 ATTTCGTTTG
*
1020472 GAGCTTCTTCATTTT
1 GAGCTTCCTCATTTT
1020487 GAGCTTCCTCATTTT
1 GAGCTTCCTCATTTT
1020502 G
1 G
1020503 GACATTTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.23, G:0.16, T:0.48
Consensus pattern (15 bp):
GAGCTTCCTCATTTT
Found at i:1024582 original size:13 final size:13
Alignment explanation
Indices: 1024564--1024589 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1024554 CAATTTTTTG
1024564 TGTATCGATACAT
1 TGTATCGATACAT
1024577 TGTATCGATACAT
1 TGTATCGATACAT
1024590 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1024654 original size:21 final size:21
Alignment explanation
Indices: 1024628--1024703 Score: 100
Period size: 21 Copynumber: 3.7 Consensus size: 21
1024618 CTGCCAAGAA
*
1024628 ATGTATCGATACATCTTTTTT
1 ATGTATCGATACATCTTTTTC
****
1024649 ATGTATCGATACAT-TGCAAC
1 ATGTATCGATACATCTTTTTC
1024669 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACATCTTTTTC
1024690 ATGTATCGATACAT
1 ATGTATCGATACAT
1024704 TGCAACATGT
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
20 15 0.33
21 30 0.67
ACGTcount: A:0.29, C:0.17, G:0.12, T:0.42
Consensus pattern (21 bp):
ATGTATCGATACATCTTTTTC
Found at i:1024674 original size:20 final size:20
Alignment explanation
Indices: 1024649--1024721 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
1024639 CATCTTTTTT
1024649 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
****
1024669 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACAT-TGCAAC
1024690 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
1024710 ATGTATCGATAC
1 ATGTATCGATAC
1024722 TTTGAATTGT
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
20 28 0.64
21 16 0.36
ACGTcount: A:0.32, C:0.19, G:0.14, T:0.36
Consensus pattern (20 bp):
ATGTATCGATACATTGCAAC
Found at i:1024685 original size:41 final size:41
Alignment explanation
Indices: 1024628--1024721 Score: 179
Period size: 41 Copynumber: 2.3 Consensus size: 41
1024618 CTGCCAAGAA
*
1024628 ATGTATCGATACATCTTTTTTATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
1024669 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
1024710 ATGTATCGATAC
1 ATGTATCGATAC
1024722 TTTGAATTGT
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 52 1.00
ACGTcount: A:0.30, C:0.18, G:0.13, T:0.39
Consensus pattern (41 bp):
ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
Found at i:1026597 original size:41 final size:41
Alignment explanation
Indices: 1026552--1026639 Score: 115
Period size: 41 Copynumber: 2.1 Consensus size: 41
1026542 TTTTTCAAAG
* * *
1026552 TTAGTGGCATTTTAT-TTGAAAACGCCGTTAATGTATTAAAT
1 TTAGTGGCATTTT-TCGTAAAAACGCCATTAATGTATTAAAT
* *
1026593 TTAGTGGCATTTTTCGTAAAAACGCCATTAATTTCTTAAAT
1 TTAGTGGCATTTTTCGTAAAAACGCCATTAATGTATTAAAT
1026634 TTAGTG
1 TTAGTG
1026640 ACAATTTCTC
Statistics
Matches: 41, Mismatches: 5, Indels: 2
0.85 0.10 0.04
Matches are distributed among these distances:
40 1 0.02
41 40 0.98
ACGTcount: A:0.31, C:0.11, G:0.16, T:0.42
Consensus pattern (41 bp):
TTAGTGGCATTTTTCGTAAAAACGCCATTAATGTATTAAAT
Found at i:1032259 original size:13 final size:13
Alignment explanation
Indices: 1032241--1032267 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
1032231 TACAAAAACA
1032241 ATATAACATAAAT
1 ATATAACATAAAT
1032254 ATATAACATAAAT
1 ATATAACATAAAT
1032267 A
1 A
1032268 AAATAAAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.63, C:0.07, G:0.00, T:0.30
Consensus pattern (13 bp):
ATATAACATAAAT
Found at i:1035336 original size:19 final size:20
Alignment explanation
Indices: 1035299--1035339 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
1035289 TCAGTTGAAC
1035299 AAAAGAATTGACAGAAGAAA
1 AAAAGAATTGACAGAAGAAA
1035319 AAAAGAAGTTGA-AG-AGAAA
1 AAAAGAA-TTGACAGAAGAAA
1035338 AA
1 AA
1035340 CAAAATATAC
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
19 7 0.35
20 9 0.45
21 4 0.20
ACGTcount: A:0.66, C:0.02, G:0.22, T:0.10
Consensus pattern (20 bp):
AAAAGAATTGACAGAAGAAA
Found at i:1035792 original size:15 final size:15
Alignment explanation
Indices: 1035768--1035833 Score: 50
Period size: 15 Copynumber: 4.7 Consensus size: 15
1035758 ATAATTAATG
* *
1035768 ATATTTTTAATGTAA
1 ATATTATTAATATAA
1035783 ATATTATTAATAT-A
1 ATATTATTAATATAA
*
1035797 A-ATTATTTA-AT-A
1 ATATTATTAATATAA
* * *
1035809 ATATTTTTATTTTAA
1 ATATTATTAATATAA
1035824 ATATTATTAA
1 ATATTATTAA
1035834 ACTTTTAAAT
Statistics
Matches: 39, Mismatches: 9, Indels: 6
0.72 0.17 0.11
Matches are distributed among these distances:
12 4 0.10
13 12 0.31
14 3 0.08
15 20 0.51
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.55
Consensus pattern (15 bp):
ATATTATTAATATAA
Found at i:1035807 original size:41 final size:41
Alignment explanation
Indices: 1035748--1035833 Score: 127
Period size: 41 Copynumber: 2.1 Consensus size: 41
1035738 TAAAACATTG
*
1035748 TTAATATAAAATAATTAATGATATTTTTAATGTAAATATTA
1 TTAATATAAAATAATTAATAATATTTTTAATGTAAATATTA
* * * *
1035789 TTAATATAAATTATTTAATAATATTTTTATTTTAAATATTA
1 TTAATATAAAATAATTAATAATATTTTTAATGTAAATATTA
1035830 TTAA
1 TTAA
1035834 ACTTTTAAAT
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
41 40 1.00
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (41 bp):
TTAATATAAAATAATTAATAATATTTTTAATGTAAATATTA
Found at i:1036581 original size:18 final size:17
Alignment explanation
Indices: 1036558--1036611 Score: 54
Period size: 18 Copynumber: 2.9 Consensus size: 17
1036548 ATAATACATC
1036558 AAAATTAATAATAAAAA
1 AAAATTAATAATAAAAA
*
1036575 TAAAATTGATAATATAAAA
1 -AAAATTAATAATA-AAAA
*
1036594 AAAAGTGAATTAATAAAA
1 AAAA-TTAA-TAATAAAA
1036612 TTAATATTTA
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
18 16 0.53
19 9 0.30
20 5 0.17
ACGTcount: A:0.69, C:0.00, G:0.06, T:0.26
Consensus pattern (17 bp):
AAAATTAATAATAAAAA
Found at i:1039720 original size:28 final size:30
Alignment explanation
Indices: 1039678--1039778 Score: 82
Period size: 28 Copynumber: 3.2 Consensus size: 30
1039668 AATATCACAT
*
1039678 TTTATTATCTAATATTATATCATAA-ATAATA
1 TTTA-TAT-TAATATTATATCATAATAAAATA
* *
1039709 TTTA-A-TATATATAATATTATAATAAAATA
1 TTTATATTA-ATATTATATCATAATAAAATA
*
1039738 TTTATATTAATATTATATATTATAATTATAAATA
1 TTTATATTAATA-T-TATATCATAA-TA-AAATA
1039772 TTTATAT
1 TTTATAT
1039779 AACCATGATA
Statistics
Matches: 58, Mismatches: 4, Indels: 13
0.77 0.05 0.17
Matches are distributed among these distances:
27 2 0.03
28 12 0.21
29 10 0.17
30 4 0.07
31 7 0.12
32 9 0.16
33 2 0.03
34 12 0.21
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (30 bp):
TTTATATTAATATTATATCATAATAAAATA
Found at i:1039730 original size:24 final size:24
Alignment explanation
Indices: 1039703--1039773 Score: 62
Period size: 24 Copynumber: 3.0 Consensus size: 24
1039693 TATATCATAA
1039703 ATAATATTTAATATATATAATATT
1 ATAATATTTAATATATATAATATT
*
1039727 ATAATA--AAATATTTATATTAATATT
1 ATAATATTTAATA--TATA-TAATATT
1039752 AT-ATATTATAAT-TATA-AATATT
1 ATAATATT-TAATATATATAATATT
1039774 TATATAACCA
Statistics
Matches: 39, Mismatches: 2, Indels: 14
0.71 0.04 0.25
Matches are distributed among these distances:
22 10 0.26
24 17 0.44
25 9 0.23
27 3 0.08
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (24 bp):
ATAATATTTAATATATATAATATT
Found at i:1039756 original size:13 final size:14
Alignment explanation
Indices: 1039661--1039763 Score: 72
Period size: 13 Copynumber: 7.1 Consensus size: 14
1039651 ATCTCTCTGT
1039661 ATATTATA-ATATCA
1 ATATTATATATAT-A
* *
1039675 CATTTTAT-TATCTA
1 -ATATTATATATATA
1039689 ATATTATATCATAAATA
1 ATATTATAT-AT--ATA
1039706 ATATTTAATATATATA
1 ATA-TT-ATATATATA
*
1039722 ATATTATA-ATAAA
1 ATATTATATATATA
1039735 ATATT-TATAT-TA
1 ATATTATATATATA
1039747 ATATTATATATTATA
1 ATATTATATA-TATA
1039762 AT
1 AT
1039764 TATAAATATT
Statistics
Matches: 71, Mismatches: 6, Indels: 22
0.72 0.06 0.22
Matches are distributed among these distances:
12 8 0.11
13 21 0.30
14 6 0.08
15 17 0.24
16 6 0.08
17 5 0.07
18 4 0.06
19 4 0.06
ACGTcount: A:0.48, C:0.04, G:0.00, T:0.49
Consensus pattern (14 bp):
ATATTATATATATA
Found at i:1039771 original size:34 final size:36
Alignment explanation
Indices: 1039687--1039778 Score: 117
Period size: 34 Copynumber: 2.8 Consensus size: 36
1039677 TTTTATTATC
* *
1039687 TAATATTAT-ATCATAAATA-ATAT-TTAATATATA
1 TAATATTATAATTATAAATATTTATATTAATATATA
1039720 TAATATTATAA-TA-AAATATTTATATTAATAT-TA
1 TAATATTATAATTATAAATATTTATATTAATATATA
1039753 T-ATATTATAATTATAAATATTTATAT
1 TAATATTATAATTATAAATATTTATAT
1039779 AACCATGATA
Statistics
Matches: 52, Mismatches: 2, Indels: 9
0.83 0.03 0.14
Matches are distributed among these distances:
32 14 0.27
33 18 0.35
34 20 0.38
ACGTcount: A:0.50, C:0.01, G:0.00, T:0.49
Consensus pattern (36 bp):
TAATATTATAATTATAAATATTTATATTAATATATA
Found at i:1039870 original size:17 final size:17
Alignment explanation
Indices: 1039848--1039882 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
1039838 AATATATATA
*
1039848 ATATATATTATACAATT
1 ATATATAGTATACAATT
*
1039865 ATATATAGTATATAATT
1 ATATATAGTATACAATT
1039882 A
1 A
1039883 ATGCATATAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.49, C:0.03, G:0.03, T:0.46
Consensus pattern (17 bp):
ATATATAGTATACAATT
Found at i:1041231 original size:19 final size:20
Alignment explanation
Indices: 1041207--1041254 Score: 64
Period size: 19 Copynumber: 2.5 Consensus size: 20
1041197 ATGCATAAAA
1041207 ATAATATA-ATAAATAAGAT
1 ATAATATATATAAATAAGAT
* *
1041226 ATAATATATTTAAATATGAT
1 ATAATATATATAAATAAGAT
1041246 -TAATATATA
1 ATAATATATA
1041255 ATTATAAATA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
19 16 0.64
20 9 0.36
ACGTcount: A:0.56, C:0.00, G:0.04, T:0.40
Consensus pattern (20 bp):
ATAATATATATAAATAAGAT
Found at i:1044392 original size:16 final size:16
Alignment explanation
Indices: 1044371--1044417 Score: 58
Period size: 16 Copynumber: 2.8 Consensus size: 16
1044361 ACATACTTTT
1044371 ATTAAAAAAATAAAAA
1 ATTAAAAAAATAAAAA
**
1044387 ATTAAAAAAATATTAA
1 ATTAAAAAAATAAAAA
1044403 ATATAAAAAATATAA
1 AT-TAAAAAA-ATAA
1044418 TATAATATGT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
16 16 0.62
17 7 0.27
18 3 0.12
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (16 bp):
ATTAAAAAAATAAAAA
Found at i:1044413 original size:9 final size:9
Alignment explanation
Indices: 1044373--1044417 Score: 51
Period size: 8 Copynumber: 5.3 Consensus size: 9
1044363 ATACTTTTAT
1044373 TAAAAAA-A
1 TAAAAAATA
1044381 TAAAAAAT-
1 TAAAAAATA
1044389 TAAAAAA-A
1 TAAAAAATA
**
1044397 TATTAAATA
1 TAAAAAATA
1044406 TAAAAAATA
1 TAAAAAATA
1044415 TAA
1 TAA
1044418 TATAATATGT
Statistics
Matches: 30, Mismatches: 4, Indels: 5
0.77 0.10 0.13
Matches are distributed among these distances:
8 19 0.63
9 11 0.37
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (9 bp):
TAAAAAATA
Found at i:1044534 original size:20 final size:20
Alignment explanation
Indices: 1044509--1044551 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 20
1044499 CATAAATAAT
*
1044509 ATTATATAT-GATATTACTTA
1 ATTATATATAAATATTA-TTA
1044529 ATTATATATAAATATTATTA
1 ATTATATATAAATATTATTA
1044549 ATT
1 ATT
1044552 TCATAAAATA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 15 0.71
21 6 0.29
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.51
Consensus pattern (20 bp):
ATTATATATAAATATTATTA
Found at i:1044564 original size:21 final size:21
Alignment explanation
Indices: 1044519--1044564 Score: 51
Period size: 20 Copynumber: 2.2 Consensus size: 21
1044509 ATTATATATG
*
1044519 ATATTACTTAATTATATATAA
1 ATATTACTTAATTATATAAAA
1044540 ATATTA-TTAATT-TCATAAAA
1 ATATTACTTAATTAT-ATAAAA
1044560 TATAT
1 -ATAT
1044565 AAATATTAGT
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
19 1 0.05
20 11 0.50
21 10 0.45
ACGTcount: A:0.48, C:0.04, G:0.00, T:0.48
Consensus pattern (21 bp):
ATATTACTTAATTATATAAAA
Found at i:1044819 original size:156 final size:158
Alignment explanation
Indices: 1044659--1044972 Score: 605
Period size: 158 Copynumber: 2.0 Consensus size: 158
1044649 ATATAATTAT
*
1044659 AATATAATAAAAATATATGAATATAATATTAATACATAAATTTAC-AAAAAAAAAAGACATACAA
1 AATATAATAAAAATATATAAATATAATATTAATACATAAATTTACAAAAAAAAAAAGACATACAA
1044723 CAACATGCCTTCATCGGAAGAGTGTACCTATAT-AAAAAAAAGGCTTGTGCTCTACTTTATAAAA
66 CAACATGCCTTCATCGGAAGAGTGTACCTATATAAAAAAAAAGGCTTGTGCTCTACTTTATAAAA
1044787 AAATATTTTTTACAAATTTTTTAATAAA
131 AAATATTTTTTACAAATTTTTTAATAAA
1044815 AATATAATAAAAATATATAAATATAATATTAATACATAAATTTACAAAAAAAAAAAGACATACAA
1 AATATAATAAAAATATATAAATATAATATTAATACATAAATTTACAAAAAAAAAAAGACATACAA
1044880 CAACATGCCTTCATCGGAAGAGTGTACCTATATAAAAAAAAAGGCTTGTGCTCTACTTTATAAAA
66 CAACATGCCTTCATCGGAAGAGTGTACCTATATAAAAAAAAAGGCTTGTGCTCTACTTTATAAAA
1044945 AAATATTTTTTACAAATTTTTTAATAAA
131 AAATATTTTTTACAAATTTTTTAATAAA
1044973 GGCATTTTTA
Statistics
Matches: 155, Mismatches: 1, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
156 44 0.28
157 52 0.34
158 59 0.38
ACGTcount: A:0.51, C:0.11, G:0.07, T:0.31
Consensus pattern (158 bp):
AATATAATAAAAATATATAAATATAATATTAATACATAAATTTACAAAAAAAAAAAGACATACAA
CAACATGCCTTCATCGGAAGAGTGTACCTATATAAAAAAAAAGGCTTGTGCTCTACTTTATAAAA
AAATATTTTTTACAAATTTTTTAATAAA
Found at i:1044848 original size:19 final size:19
Alignment explanation
Indices: 1044814--1044855 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
1044804 TTTTTAATAA
*
1044814 AAATATAATAAAAATATAT
1 AAATATAATAAAAATACAT
**
1044833 AAATATAATATTAATACAT
1 AAATATAATAAAAATACAT
1044852 AAAT
1 AAAT
1044856 TTACAAAAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.33
Consensus pattern (19 bp):
AAATATAATAAAAATACAT
Found at i:1045309 original size:66 final size:66
Alignment explanation
Indices: 1045181--1045321 Score: 155
Period size: 66 Copynumber: 2.1 Consensus size: 66
1045171 ATGATGAAAG
* * ** * *
1045181 TTAATAATGTTTTATATAATTACATATATAAGTAAAATTTAATGTAACTTGTAATGAGTATATAT
1 TTAATAATATTTTATATAATTACATATAAAAGTAAAATTT-ATACAACTTATAATGAATATATAT
1045246 AA
65 AA
1045248 TTAATAA-ATTTTATATAATTACATATAAAAGTAATATATTT-TACAACTTATAAT-ACATATAT
1 TTAATAATATTTTATATAATTACATATAAAAGTAA-A-ATTTATACAACTTATAATGA-ATATAT
*
1045310 GTAA
63 ATAA
1045314 TT-ATAATA
1 TTAATAATA
1045322 ATATCATATA
Statistics
Matches: 63, Mismatches: 7, Indels: 9
0.80 0.09 0.11
Matches are distributed among these distances:
65 5 0.08
66 46 0.73
67 8 0.13
68 4 0.06
ACGTcount: A:0.47, C:0.04, G:0.06, T:0.43
Consensus pattern (66 bp):
TTAATAATATTTTATATAATTACATATAAAAGTAAAATTTATACAACTTATAATGAATATATATA
A
Found at i:1045353 original size:20 final size:20
Alignment explanation
Indices: 1045295--1045344 Score: 59
Period size: 20 Copynumber: 2.5 Consensus size: 20
1045285 ATTTTACAAC
*
1045295 TTATAATACATAT-ATGT-AA
1 TTATAATA-ATATCATATAAA
1045314 TTATAATAATATCATATAAA
1 TTATAATAATATCATATAAA
*
1045334 TTTTAATAATA
1 TTATAATAATA
1045345 ATATCTAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
18 4 0.15
19 11 0.41
20 12 0.44
ACGTcount: A:0.50, C:0.04, G:0.02, T:0.44
Consensus pattern (20 bp):
TTATAATAATATCATATAAA
Found at i:1046021 original size:14 final size:14
Alignment explanation
Indices: 1046004--1046032 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
1045994 TTATTAAATA
1046004 TATCATATTATTTT
1 TATCATATTATTTT
1046018 TATCATATTATTTT
1 TATCATATTATTTT
1046032 T
1 T
1046033 TATATTTATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.28, C:0.07, G:0.00, T:0.66
Consensus pattern (14 bp):
TATCATATTATTTT
Found at i:1046531 original size:13 final size:13
Alignment explanation
Indices: 1046513--1046537 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1046503 TAATAAAAAA
1046513 TAAAATATATTTT
1 TAAAATATATTTT
1046526 TAAAATATATTT
1 TAAAATATATTT
1046538 AAAAAAATAA
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (13 bp):
TAAAATATATTTT
Found at i:1047480 original size:19 final size:19
Alignment explanation
Indices: 1047456--1047523 Score: 76
Period size: 19 Copynumber: 3.9 Consensus size: 19
1047446 AATTCAACAA
1047456 TTTGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
*
1047475 TTTGTATTGATAC--AA--
1 TTTGTATCGATACATAAGT
1047490 --TGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
*
1047507 ATTGTATCGATACATAA
1 TTTGTATCGATACATAA
1047524 TTAGCTACTG
Statistics
Matches: 41, Mismatches: 2, Indels: 12
0.75 0.04 0.22
Matches are distributed among these distances:
13 10 0.24
15 2 0.05
17 2 0.05
19 27 0.66
ACGTcount: A:0.35, C:0.10, G:0.15, T:0.40
Consensus pattern (19 bp):
TTTGTATCGATACATAAGT
Found at i:1047499 original size:32 final size:32
Alignment explanation
Indices: 1047458--1047520 Score: 108
Period size: 32 Copynumber: 2.0 Consensus size: 32
1047448 TTCAACAATT
* *
1047458 TGTATCGATACATAAGTTTTGTATTGATACAA
1 TGTATCGATACATAAGTATTGTATCGATACAA
1047490 TGTATCGATACATAAGTATTGTATCGATACA
1 TGTATCGATACATAAGTATTGTATCGATACA
1047521 TAATTAGCTA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.35, C:0.11, G:0.16, T:0.38
Consensus pattern (32 bp):
TGTATCGATACATAAGTATTGTATCGATACAA
Found at i:1050020 original size:51 final size:50
Alignment explanation
Indices: 1049924--1050020 Score: 124
Period size: 49 Copynumber: 1.9 Consensus size: 50
1049914 AATTCTCCAC
* * *
1049924 AATCGGGGATATTCCAACTCCAATTTTATTTTCAAAACACTAATTTTCTAT
1 AATCGGGGA-ATTCCAACACCAATTTTATTTCCAAAACACCAATTTTCTAT
*
1049975 AATCGGGG-ATTCCAACACCGATTTTATTTCCAAAAATCACCAATTT
1 AATCGGGGAATTCCAACACCAATTTTATTTCC-AAAA-CACCAATTT
1050021 CTTCACAATC
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
49 20 0.50
50 4 0.10
51 16 0.40
ACGTcount: A:0.34, C:0.22, G:0.09, T:0.35
Consensus pattern (50 bp):
AATCGGGGAATTCCAACACCAATTTTATTTCCAAAACACCAATTTTCTAT
Found at i:1050114 original size:31 final size:28
Alignment explanation
Indices: 1050031--1050103 Score: 96
Period size: 27 Copynumber: 2.6 Consensus size: 28
1050021 CTTCACAATC
* * *
1050031 GGGGACACTCCAACCCCGTTA-ATCAT-C
1 GGGGATACTCCAACCCCGTTATTTC-TGA
1050058 GGGGATACTCCAACCCCGTTATTTCTGA
1 GGGGATACTCCAACCCCGTTATTTCTGA
1050086 GGGGATACTCCAACCCCG
1 GGGGATACTCCAACCCCG
1050104 ACTTTATTTC
Statistics
Matches: 41, Mismatches: 3, Indels: 3
0.87 0.06 0.06
Matches are distributed among these distances:
27 21 0.51
28 20 0.49
ACGTcount: A:0.23, C:0.34, G:0.22, T:0.21
Consensus pattern (28 bp):
GGGGATACTCCAACCCCGTTATTTCTGA
Found at i:1050148 original size:51 final size:51
Alignment explanation
Indices: 1050086--1050255 Score: 189
Period size: 52 Copynumber: 3.3 Consensus size: 51
1050076 TTATTTCTGA
* * *
1050086 GGGGATACTCCAACCCCGACTTTATTTCTAAAATATTGATTTTTCATAATC
1 GGGGATACTCCAACCCCGATTTTATTTCTAAAATACTAATTTTTCATAATC
* * * * *
1050137 GGGGATACTCCAACCCCGGTTTTATTT-TCAAAACACCAATTTTCCTTTAATC
1 GGGGATACTCCAACCCCGATTTTATTTCT-AAAATACTAATTTTTC-ATAATC
* * * *
1050189 AGGGATACTCCAACACCGATTTTATTTCCAAAAATACTAATTTTTCACAATC
1 GGGGATACTCCAACCCCGATTTTATTT-CTAAAATACTAATTTTTCATAATC
*
1050241 GAGGATACTCCAACC
1 GGGGATACTCCAACC
1050256 TCGTTATTTC
Statistics
Matches: 95, Mismatches: 20, Indels: 7
0.78 0.16 0.06
Matches are distributed among these distances:
50 1 0.01
51 36 0.38
52 45 0.47
53 13 0.14
ACGTcount: A:0.31, C:0.25, G:0.11, T:0.33
Consensus pattern (51 bp):
GGGGATACTCCAACCCCGATTTTATTTCTAAAATACTAATTTTTCATAATC
Found at i:1050274 original size:28 final size:28
Alignment explanation
Indices: 1050238--1050319 Score: 96
Period size: 28 Copynumber: 2.9 Consensus size: 28
1050228 ATTTTTCACA
* *
1050238 ATCGAGGATACTCCAACCTCGTTATTTC
1 ATCGGGGATACTCCAACCCCGTTATTTC
*
1050266 ATCGGGGATACTCCAACCCCGTTACTTC
1 ATCGGGGATACTCCAACCCCGTTATTTC
*
1050294 --CGAGGGAACACTCCAACCCCGTTATT
1 ATCG-GGG-ATACTCCAACCCCGTTATT
1050320 ATCTCCAAAA
Statistics
Matches: 47, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
26 2 0.04
27 3 0.06
28 42 0.89
ACGTcount: A:0.24, C:0.33, G:0.17, T:0.26
Consensus pattern (28 bp):
ATCGGGGATACTCCAACCCCGTTATTTC
Found at i:1050311 original size:211 final size:209
Alignment explanation
Indices: 1049924--1050314 Score: 588
Period size: 211 Copynumber: 1.9 Consensus size: 209
1049914 AATTCTCCAC
* * * *
1049924 AATCGGGGATATTCCAACTCCAATTTTATTTTCAAAACACTAATTTTCTATAATCGGGGATTCCA
1 AATCGGGGATACTCCAACCCCAATTTTATTTTCAAAACACCAATTTTCTATAATCAGGGATTCCA
*
1049989 ACACCGATTTTATTTCCAAAAATCACCAATTTCTTCACAATCGGGGACACTCCAACCCCGTTAAT
66 ACACCGATTTTATTTCCAAAAATCACCAATTTCTTCACAATCGAGGACACTCCAACCCCGTTAAT
* * * *
1050054 CATCGGGGATACTCCAACCCCGTTATTTCTGAGGGGATACTCCAACCCCGACTTTATTTCTAAAA
131 CATCGGGGATACTCCAACCCCGTTACTTCCGAGGGAACACTCCAACCCCGACTTTATTTCTAAAA
1050119 TATTGATTTTTCAT
196 TATTGATTTTTCAT
** *
1050133 AATCGGGGATACTCCAACCCCGGTTTTATTTTCAAAACACCAATTTTCCTTTAATCAGGGATACT
1 AATCGGGGATACTCCAACCCCAATTTTATTTTCAAAACACCAATTTT-CTATAATCAGGGAT--T
* * *
1050198 CCAACACCGATTTTATTTCCAAAAAT-ACTAATTT-TTCACAATCGAGGATACTCCAACCTCGTT
63 CCAACACCGATTTTATTTCCAAAAATCACCAATTTCTTCACAATCGAGGACACTCCAACCCCGTT
*
1050261 ATTTCATCGGGGATACTCCAACCCCGTTACTTCCGAGGGAACACTCCAACCCCG
128 A-ATCATCGGGGATACTCCAACCCCGTTACTTCCGAGGGAACACTCCAACCCCG
1050315 TTATTATCTC
Statistics
Matches: 162, Mismatches: 16, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
209 42 0.26
210 39 0.24
211 54 0.33
212 27 0.17
ACGTcount: A:0.29, C:0.27, G:0.13, T:0.31
Consensus pattern (209 bp):
AATCGGGGATACTCCAACCCCAATTTTATTTTCAAAACACCAATTTTCTATAATCAGGGATTCCA
ACACCGATTTTATTTCCAAAAATCACCAATTTCTTCACAATCGAGGACACTCCAACCCCGTTAAT
CATCGGGGATACTCCAACCCCGTTACTTCCGAGGGAACACTCCAACCCCGACTTTATTTCTAAAA
TATTGATTTTTCAT
Found at i:1063834 original size:59 final size:59
Alignment explanation
Indices: 1063722--1064789 Score: 1639
Period size: 59 Copynumber: 18.2 Consensus size: 59
1063712 TCCGCTTTTT
* **
1063722 AGTCCTCAAAGAGCAGGATACCTTTTCCTTTTAAAAGCCCACACAAGTTGGTGGCACCTTC
1 AGTCCTCAAAGAGCGGGACGCCTTTT-CTTTT-AAAGCCCACACAAGTTGGTGGCACCTTC
1063783 AGTCCTCAAAGAGCGGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTC
1 AGTCCTCAAAGAGCGGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTC
* *
1063842 AGTCCTCAAAGAGCGGGATGCCTTTTCTTTTAAAGCCTACACAAGTTGGTGGCACCTTC
1 AGTCCTCAAAGAGCGGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTC
1063901 AGTCCTCAAAGAGCGGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTC
1 AGTCCTCAAAGAGCGGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTC
* *
1063960 AGTCCTCAAAGAGCGGGACACCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTT
1 AGTCCTCAAAGAGCGGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTC
1064019 AGTCCTCAAAGAGCGGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTC
1 AGTCCTCAAAGAGCGGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTC
*
1064078 AGTCCTCAAAGAGCAGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTC
1 AGTCCTCAAAGAGCGGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTC
* *
1064137 AGTCCTCAAAGAGCGGGACACCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTT
1 AGTCCTCAAAGAGCGGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTC
1064196 AGTCCTCAAAGAGCGGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTC
1 AGTCCTCAAAGAGCGGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTC
* *
1064255 AGTCCTCAAAGAGCAGGACGCCTTTTCTCTTAAAGCCCACACAAGTTGGTGGCACCTTC
1 AGTCCTCAAAGAGCGGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTC
*
1064314 AGTCCTCAAAGAGCGGGATGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTC
1 AGTCCTCAAAGAGCGGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTC
*
1064373 AGTCCTCAAAGAGCGGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTT
1 AGTCCTCAAAGAGCGGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTC
* *
1064432 AGTCCTCAAAGAGCGAGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTT
1 AGTCCTCAAAGAGCGGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTC
*
1064491 AGTCCTCAAAGAGCGGGACGCATTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTC
1 AGTCCTCAAAGAGCGGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTC
* * *
1064550 AGTCCTCAAAGAGCAGGACACC---TC--TCAAAGCCCACACAAGTTGGTGGCACCTTTC
1 AGTCCTCAAAGAGCGGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACC-TTC
* * ** **
1064605 AGTCCCCAAAGAGCAGGAC-CC----CTTTCGAAGCCCACACAAGTTGGTGGCATTTTTC
1 AGTCCTCAAAGAGCGGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCA-CCTTC
* *
1064660 AGTCCTCAAAGAGCAGGACACC---TC--TTAAAGCCCACACAAGTTGGTGGCA-CTTCCC
1 AGTCCTCAAAGAGCGGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTT--C
* * ** *
1064715 AGTCCTCAGAGAGCAGGACGCCTTCGCCTTTTAAAGCCCACACAAGTTGTTGGCA-CTTC
1 AGTCCTCAAAGAGCGGGACGCCTT-TTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTC
1064774 TTAGTCCTCAAAGAGC
1 --AGTCCTCAAAGAGC
1064790 AGGATACACT
Statistics
Matches: 946, Mismatches: 45, Indels: 32
0.92 0.04 0.03
Matches are distributed among these distances:
53 3 0.00
54 28 0.03
55 110 0.12
56 4 0.00
57 1 0.00
59 732 0.77
60 5 0.01
61 63 0.07
ACGTcount: A:0.25, C:0.29, G:0.21, T:0.25
Consensus pattern (59 bp):
AGTCCTCAAAGAGCGGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTC
Found at i:1065601 original size:19 final size:19
Alignment explanation
Indices: 1065577--1065644 Score: 85
Period size: 19 Copynumber: 3.9 Consensus size: 19
1065567 AATTCAACAA
1065577 TTTGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
1065596 TTTGTATCGATAC--AA--
1 TTTGTATCGATACATAAGT
1065611 --TGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
*
1065628 ATTGTATCGATACATAA
1 TTTGTATCGATACATAA
1065645 TTAGCTACTG
Statistics
Matches: 43, Mismatches: 0, Indels: 12
0.78 0.00 0.22
Matches are distributed among these distances:
13 11 0.26
15 2 0.05
17 2 0.05
19 28 0.65
ACGTcount: A:0.35, C:0.12, G:0.15, T:0.38
Consensus pattern (19 bp):
TTTGTATCGATACATAAGT
Found at i:1065616 original size:13 final size:13
Alignment explanation
Indices: 1065598--1065622 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1065588 ACATAAGTTT
1065598 TGTATCGATACAA
1 TGTATCGATACAA
1065611 TGTATCGATACA
1 TGTATCGATACA
1065623 TAAGTATTGT
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:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1065620 original size:32 final size:32
Alignment explanation
Indices: 1065579--1065641 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
1065569 TTCAACAATT
*
1065579 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTATTGTATCGATACAA
1065611 TGTATCGATACATAAGTATTGTATCGATACA
1 TGTATCGATACATAAGTATTGTATCGATACA
1065642 TAATTAGCTA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.37
Consensus pattern (32 bp):
TGTATCGATACATAAGTATTGTATCGATACAA
Found at i:1065702 original size:13 final size:13
Alignment explanation
Indices: 1065684--1065709 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1065674 CATTTTTCTG
1065684 TGTATCGATACAT
1 TGTATCGATACAT
1065697 TGTATCGATACAT
1 TGTATCGATACAT
1065710 GGATCTTTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1065706 original size:33 final size:33
Alignment explanation
Indices: 1065664--1065730 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
1065654 GCCAAGGAAA
***
1065664 TGTATCGATACATTTTTCTGTGTATCGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
*
1065697 TGTATCGATACATGGATCTTTGTATCGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
1065730 T
1 T
1065731 TGGAAATTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.25, C:0.15, G:0.16, T:0.43
Consensus pattern (33 bp):
TGTATCGATACATGGATCTGTGTATCGATACAT
Found at i:1068201 original size:54 final size:51
Alignment explanation
Indices: 1068068--1068411 Score: 173
Period size: 51 Copynumber: 6.6 Consensus size: 51
1068058 TTGAGTTTCT
* * * * *
1068068 CAATTCTCCACAATCGGGGATATTTCAACTCCGATTTTATTTTCAAAACAC
1 CAATTCTTCACAATCGGGGATACTCCAACACCGATTTTATTTCCAAAACAC
* *
1068119 TAATT-TTCTATAATCGGGGATACTCCAACACCGATTTTATTTCCAAAAAACAC
1 CAATTCTTC-ACAATCGGGGATACTCCAACACCGATTTTATTTCC--AAAACAC
* * * * ** * *
1068172 CAATTTCTTCACAATCGGGGACACTCCAACCCCG--TTAATCATCGGGGATACTC
1 CAA-TTCTTCACAATCGGGGATACTCCAACACCGATTTTAT-TTC--CAAAACAC
** ** * * * * *
1068225 CAACCCCGTT-A-TTTCTGAGGGGATACTCCAACCCCGACTTTATTTCTAAAATAT
1 CAA-TTC-TTCACAATC---GGGGATACTCCAACACCGATTTTATTTCCAAAACAC
** * * * * *
1068279 TGATTTTTCATAATCGGAGATACTCCAAC-CTCGGTTTTATTTTCAAAACAC
1 CAATTCTTCACAATCGGGGATACTCCAACAC-CGATTTTATTTCCAAAACAC
*
1068330 CAATT-TTC-CTTTAATCGGGGATACTCCAACACCGATTTTATTTCCAAAAATAC
1 CAATTCTTCAC---AATCGGGGATACTCCAACACCGATTTTATTTCC-AAAACAC
* *
1068383 CAATTTTTCACAATCGAGGATACTCCAAC
1 CAATTCTTCACAATCGGGGATACTCCAAC
1068412 CTCGTTATTT
Statistics
Matches: 216, Mismatches: 53, Indels: 47
0.68 0.17 0.15
Matches are distributed among these distances:
50 6 0.03
51 64 0.30
52 53 0.25
53 33 0.15
54 33 0.15
55 21 0.10
56 2 0.01
57 4 0.02
ACGTcount: A:0.31, C:0.26, G:0.12, T:0.32
Consensus pattern (51 bp):
CAATTCTTCACAATCGGGGATACTCCAACACCGATTTTATTTCCAAAACAC
Found at i:1068271 original size:31 final size:28
Alignment explanation
Indices: 1068188--1068260 Score: 96
Period size: 27 Copynumber: 2.6 Consensus size: 28
1068178 CTTCACAATC
* * *
1068188 GGGGACACTCCAACCCCGTTA-ATCAT-C
1 GGGGATACTCCAACCCCGTTATTTC-TGA
1068215 GGGGATACTCCAACCCCGTTATTTCTGA
1 GGGGATACTCCAACCCCGTTATTTCTGA
1068243 GGGGATACTCCAACCCCG
1 GGGGATACTCCAACCCCG
1068261 ACTTTATTTC
Statistics
Matches: 41, Mismatches: 3, Indels: 3
0.87 0.06 0.06
Matches are distributed among these distances:
27 21 0.51
28 20 0.49
ACGTcount: A:0.23, C:0.34, G:0.22, T:0.21
Consensus pattern (28 bp):
GGGGATACTCCAACCCCGTTATTTCTGA
Found at i:1068308 original size:51 final size:51
Alignment explanation
Indices: 1068246--1068412 Score: 167
Period size: 52 Copynumber: 3.2 Consensus size: 51
1068236 TTTCTGAGGG
* ***
1068246 GATACTCCAACCCCGACTTTATTTCTAAAATATTGATTTTTCATAATCGGA
1 GATACTCCAACCCCGATTTTATTTCTAAAATACCAATTTTTCATAATCGGA
* * * * * *
1068297 GATACTCCAACCTCGGTTTTATTT-TCAAAACACCAATTTTCCTTTAATCGGG
1 GATACTCCAACCCCGATTTTATTTCT-AAAATACCAATTTTTC-ATAATCGGA
* * *
1068349 GATACTCCAACACCGATTTTATTTCCAAAAATACCAATTTTTCACAATC-GA
1 GATACTCCAACCCCGATTTTATTT-CTAAAATACCAATTTTTCATAATCGGA
1068400 GGATACTCCAACC
1 -GATACTCCAACC
1068413 TCGTTATTTC
Statistics
Matches: 91, Mismatches: 20, Indels: 9
0.76 0.17 0.08
Matches are distributed among these distances:
50 1 0.01
51 33 0.36
52 43 0.47
53 14 0.15
ACGTcount: A:0.32, C:0.25, G:0.10, T:0.34
Consensus pattern (51 bp):
GATACTCCAACCCCGATTTTATTTCTAAAATACCAATTTTTCATAATCGGA
Found at i:1068427 original size:28 final size:28
Alignment explanation
Indices: 1068395--1068476 Score: 105
Period size: 28 Copynumber: 2.9 Consensus size: 28
1068385 ATTTTTCACA
*
1068395 ATCGAGGATACTCCAACCTCGTTATTTC
1 ATCGAGGATACTCCAACCCCGTTATTTC
*
1068423 ATCGAGGATACTCCAACCCCGTTACTTC
1 ATCGAGGATACTCCAACCCCGTTATTTC
*
1068451 --CGAGGGAACACTCCAACCCCGTTATT
1 ATCGA-GG-ATACTCCAACCCCGTTATT
1068477 ATCTCCAAAA
Statistics
Matches: 48, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
26 3 0.06
27 2 0.04
28 43 0.90
ACGTcount: A:0.26, C:0.33, G:0.16, T:0.26
Consensus pattern (28 bp):
ATCGAGGATACTCCAACCCCGTTATTTC
Found at i:1069471 original size:2 final size:2
Alignment explanation
Indices: 1069464--1069489 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
1069454 TCTTGAAGGA
1069464 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
1069490 GACCTAAAGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1070100 original size:22 final size:22
Alignment explanation
Indices: 1070086--1070130 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
1070076 AAATTATAAA
1070086 TATTAAAATTTAAAATTTAAAAG
1 TATT-AAATTTAAAATTTAAAAG
*
1070109 TATTAAATTTAATATCTTAAAA
1 TATTAAATTTAAAAT-TTAAAA
1070131 ATGATTATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 10 0.50
23 10 0.50
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.42
Consensus pattern (22 bp):
TATTAAATTTAAAATTTAAAAG
Found at i:1072120 original size:72 final size:75
Alignment explanation
Indices: 1071975--1072120 Score: 178
Period size: 75 Copynumber: 2.0 Consensus size: 75
1071965 ACATTTAACC
*
1071975 ATAATTAACAAAAATTAACAAAATAATATAATAAATTAAAACGAAAAAATATATATTAAAAACTC
1 ATAATTAAAAAAAATTAACAAAATAATATAATAAATTAAAACGAAAAAATATATATTAAAAACTC
**
1072040 GTCACTTCAA
66 ACCACTTCAA
*
1072050 ATAATTAAAAAAAATTAACAAAAT-A-A-AA-AAA-TAAAACCGAAAAAA-ATATAAGTTAAGAA
1 ATAATTAAAAAAAATTAACAAAATAATATAATAAATTAAAA-CGAAAAAATATAT-A-TTAAAAA
*
1072109 CTCACCTCTTCA
63 CTCACCACTTCA
1072121 GAGAGGGTGA
Statistics
Matches: 63, Mismatches: 5, Indels: 9
0.82 0.06 0.12
Matches are distributed among these distances:
70 9 0.14
71 12 0.19
72 17 0.27
73 1 0.02
74 1 0.02
75 23 0.37
ACGTcount: A:0.61, C:0.12, G:0.03, T:0.24
Consensus pattern (75 bp):
ATAATTAAAAAAAATTAACAAAATAATATAATAAATTAAAACGAAAAAATATATATTAAAAACTC
ACCACTTCAA
Found at i:1072915 original size:42 final size:44
Alignment explanation
Indices: 1072858--1072940 Score: 102
Period size: 42 Copynumber: 1.9 Consensus size: 44
1072848 GACGTAAAAG
* *
1072858 ATTTTATAATAATAAAGATTATTTAAATTTT-A-ATTATAAAATAC
1 ATTTTATAATAATAAA-A-AAATTAAATTTTAATATTATAAAATAC
1072902 ATTTTA-AAT-ATAAAAAAATTAAATTTTAATATTATAAAA
1 ATTTTATAATAATAAAAAAATTAAATTTTAATATTATAAAA
1072941 AATTTTCAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
40 10 0.29
41 2 0.06
42 14 0.40
43 3 0.09
44 6 0.17
ACGTcount: A:0.54, C:0.01, G:0.01, T:0.43
Consensus pattern (44 bp):
ATTTTATAATAATAAAAAAATTAAATTTTAATATTATAAAATAC
Found at i:1073180 original size:18 final size:18
Alignment explanation
Indices: 1073154--1073188 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
1073144 TGTTCTCCCC
1073154 AAATCAAAAAAAAAAATA
1 AAATCAAAAAAAAAAATA
*
1073172 AAATTAAAAAAAAAAAT
1 AAATCAAAAAAAAAAAT
1073189 TGTTTCTCTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.83, C:0.03, G:0.00, T:0.14
Consensus pattern (18 bp):
AAATCAAAAAAAAAAATA
Found at i:1073600 original size:32 final size:33
Alignment explanation
Indices: 1073535--1073602 Score: 84
Period size: 32 Copynumber: 2.1 Consensus size: 33
1073525 AAATAAGAGG
* *
1073535 TAATATAAATATATAAATATGTAAAAATTTATA
1 TAATATAAATATATAAATATATAAAAATATATA
* **
1073568 TAATATAAAT-TATTAATATATTGAAATATATA
1 TAATATAAATATATAAATATATAAAAATATATA
1073600 TAA
1 TAA
1073603 ATTTATAATA
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
32 20 0.67
33 10 0.33
ACGTcount: A:0.56, C:0.00, G:0.03, T:0.41
Consensus pattern (33 bp):
TAATATAAATATATAAATATATAAAAATATATA
Found at i:1075019 original size:27 final size:28
Alignment explanation
Indices: 1074958--1075034 Score: 70
Period size: 27 Copynumber: 2.8 Consensus size: 28
1074948 TTATTATAAT
* *
1074958 TATATTTAAATATTATTTATATAAATTT
1 TATATTTAAATATTATTTATAAAAATTA
*
1074986 TAGTATTTTAAT-TT-TTTATAAAAATTAA
1 TA-TATTTAAATATTATTTATAAAAATT-A
*
1075014 TATATTTATAT-TATATTTATA
1 TATATTTAAATAT-TATTTATA
1075035 TTTTTTTATA
Statistics
Matches: 40, Mismatches: 5, Indels: 7
0.77 0.10 0.13
Matches are distributed among these distances:
27 19 0.47
28 7 0.17
29 14 0.35
ACGTcount: A:0.42, C:0.00, G:0.01, T:0.57
Consensus pattern (28 bp):
TATATTTAAATATTATTTATAAAAATTA
Found at i:1075030 original size:11 final size:11
Alignment explanation
Indices: 1075014--1075050 Score: 58
Period size: 11 Copynumber: 3.5 Consensus size: 11
1075004 TAAAAATTAA
1075014 TATATTTATAT
1 TATATTTATAT
1075025 TATATTTATAT
1 TATATTTATAT
*
1075036 T-TTTTTATAT
1 TATATTTATAT
1075046 TATAT
1 TATAT
1075051 AATCATATAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
10 9 0.39
11 14 0.61
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (11 bp):
TATATTTATAT
Found at i:1076267 original size:29 final size:31
Alignment explanation
Indices: 1076223--1076285 Score: 96
Period size: 29 Copynumber: 2.1 Consensus size: 31
1076213 TAAATACCAT
1076223 TATTATATATATATATATAATAAT-TTTAA-A
1 TATTATATATATATATATAA-AATATTTAATA
1076253 TATTATA-ATATATATATAAAATATTTAATA
1 TATTATATATATATATATAAAATATTTAATA
1076283 TAT
1 TAT
1076286 GATAGGTTAT
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
28 3 0.10
29 17 0.55
30 11 0.35
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (31 bp):
TATTATATATATATATATAAAATATTTAATA
Found at i:1076374 original size:14 final size:14
Alignment explanation
Indices: 1076341--1076392 Score: 61
Period size: 15 Copynumber: 3.6 Consensus size: 14
1076331 ATTAATTTTT
*
1076341 TAAAATATATAAATA
1 TAAAATATTTAAA-A
1076356 TAAAATATTTAAAA
1 TAAAATATTTAAAA
1076370 TAAAAT-TATTATAAA
1 TAAAATAT-TTA-AAA
1076385 TAAAATAT
1 TAAAATAT
1076393 AAATTCATAA
Statistics
Matches: 33, Mismatches: 1, Indels: 5
0.85 0.03 0.13
Matches are distributed among these distances:
13 1 0.03
14 10 0.30
15 21 0.64
16 1 0.03
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (14 bp):
TAAAATATTTAAAA
Found at i:1079025 original size:2 final size:2
Alignment explanation
Indices: 1079018--1079050 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
1079008 TTATATCGAG
1079018 TA TA 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 TA TA T
1079051 GTTAGATTTA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:1079400 original size:23 final size:22
Alignment explanation
Indices: 1079365--1079428 Score: 83
Period size: 24 Copynumber: 2.8 Consensus size: 22
1079355 TATTTATATC
1079365 AAAATTATAAATTATTTGTGAGA
1 AAAATTATAAATTATTTGT-AGA
* *
1079388 AAAATTTATAATTTTATTTGTATA
1 AAAA-TTATAA-ATTATTTGTAGA
1079412 AAAATTATAAATTATTT
1 AAAATTATAAATTATTT
1079429 ATGAATAGGA
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
22 6 0.17
23 10 0.28
24 12 0.33
25 8 0.22
ACGTcount: A:0.47, C:0.00, G:0.06, T:0.47
Consensus pattern (22 bp):
AAAATTATAAATTATTTGTAGA
Found at i:1079414 original size:24 final size:22
Alignment explanation
Indices: 1079353--1079428 Score: 80
Period size: 22 Copynumber: 3.3 Consensus size: 22
1079343 GGGTTTGAAG
* *
1079353 TTTATTTATATCAAAATTATAA
1 TTTATTTGTATAAAAATTATAA
* *
1079375 ATTATTTGTGAGAAAAATTTATAA
1 TTTATTTGT-ATAAAAA-TTATAA
1079399 TTTTATTTGTATAAAAATTATAA
1 -TTTATTTGTATAAAAATTATAA
*
1079422 ATTATTT
1 TTTATTT
1079429 ATGAATAGGA
Statistics
Matches: 44, Mismatches: 7, Indels: 6
0.77 0.12 0.11
Matches are distributed among these distances:
22 13 0.30
23 11 0.25
24 12 0.27
25 8 0.18
ACGTcount: A:0.43, C:0.01, G:0.05, T:0.50
Consensus pattern (22 bp):
TTTATTTGTATAAAAATTATAA
Found at i:1079968 original size:16 final size:16
Alignment explanation
Indices: 1079926--1079999 Score: 76
Period size: 16 Copynumber: 4.6 Consensus size: 16
1079916 ATTCAGATTC
*
1079926 ATTCGGGTTTAAGCTT
1 ATTCGGGTTTGAGCTT
* **
1079942 ATTTGAATTTGAGCTT
1 ATTCGGGTTTGAGCTT
*
1079958 ATTCGGGTTTGAGTTT
1 ATTCGGGTTTGAGCTT
* *
1079974 TTTCGGGTTTGAACTT
1 ATTCGGGTTTGAGCTT
*
1079990 ATTCGAGTTT
1 ATTCGGGTTT
1080000 AGGCTTTTTG
Statistics
Matches: 45, Mismatches: 13, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
16 45 1.00
ACGTcount: A:0.18, C:0.09, G:0.24, T:0.49
Consensus pattern (16 bp):
ATTCGGGTTTGAGCTT
Found at i:1080008 original size:32 final size:31
Alignment explanation
Indices: 1079926--1080013 Score: 79
Period size: 32 Copynumber: 2.8 Consensus size: 31
1079916 ATTCAGATTC
* * ** *
1079926 ATTCGGGTTTAAGCTTATTTGAATTTGAGCTT
1 ATTCGAGTTTGAGCTT-TTTGGGTTTGAACTT
* *
1079958 ATTCGGGTTTGAGTTTTTTCGGGTTTGAACTT
1 ATTCGAGTTTGAGCTTTTT-GGGTTTGAACTT
1079990 ATTCGAGTTT-AGGCTTTTTGGGTT
1 ATTCGAGTTTGA-GCTTTTTGGGTT
1080014 CGAGTTCGGG
Statistics
Matches: 47, Mismatches: 7, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
31 9 0.19
32 38 0.81
ACGTcount: A:0.16, C:0.09, G:0.26, T:0.49
Consensus pattern (31 bp):
ATTCGAGTTTGAGCTTTTTGGGTTTGAACTT
Found at i:1080249 original size:18 final size:18
Alignment explanation
Indices: 1080210--1080249 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
1080200 ATATTTATAT
*
1080210 ATAAAATTAATTTGTTAT
1 ATAAAATTAATTTGTTAA
*
1080228 ATAAAATTAATTTTTTAA
1 ATAAAATTAATTTGTTAA
1080246 ATAA
1 ATAA
1080250 TTTATTATTA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (18 bp):
ATAAAATTAATTTGTTAA
Found at i:1080468 original size:16 final size:15
Alignment explanation
Indices: 1080441--1080470 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
1080431 ATGTTAACTT
1080441 TATATTTTATTTTAC
1 TATATTTTATTTTAC
1080456 TATATTGTTATTTTA
1 TATATT-TTATTTTA
1080471 AGTGAAACAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.27, C:0.03, G:0.03, T:0.67
Consensus pattern (15 bp):
TATATTTTATTTTAC
Found at i:1080990 original size:16 final size:16
Alignment explanation
Indices: 1080966--1081021 Score: 76
Period size: 16 Copynumber: 3.5 Consensus size: 16
1080956 TTCTTTTGAA
*
1080966 TTCGGGTTCGAACTTT
1 TTCGAGTTCGAACTTT
1080982 TTCGAGTTCGAACTTT
1 TTCGAGTTCGAACTTT
* *
1080998 TTCGAATTTGAACTTT
1 TTCGAGTTCGAACTTT
*
1081014 TTCAAGTT
1 TTCGAGTT
1081022 TGAGTTGTCT
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 35 1.00
ACGTcount: A:0.20, C:0.16, G:0.18, T:0.46
Consensus pattern (16 bp):
TTCGAGTTCGAACTTT
Found at i:1083197 original size:2 final size:2
Alignment explanation
Indices: 1083192--1083216 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
1083182 TATAAAAAAG
1083192 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
1083217 AAATCAAGAA
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:1083615 original size:13 final size:14
Alignment explanation
Indices: 1083589--1083621 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
1083579 AATTAAATTA
1083589 AATTATATTTTAAT
1 AATTATATTTTAAT
*
1083603 ATTTATA-TTTAAT
1 AATTATATTTTAAT
1083616 AATTAT
1 AATTAT
1083622 TTAAGTTTAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
13 11 0.65
14 6 0.35
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (14 bp):
AATTATATTTTAAT
Found at i:1083635 original size:16 final size:16
Alignment explanation
Indices: 1083609--1083652 Score: 54
Period size: 16 Copynumber: 2.7 Consensus size: 16
1083599 TAATATTTAT
1083609 ATTTAATAATTATT-TAA
1 ATTTAA-AATT-TTATAA
*
1083626 GTTTAAAATTTTATAA
1 ATTTAAAATTTTATAA
1083642 ATTTAAAATTT
1 ATTTAAAATTT
1083653 AAATTTCGTT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
15 2 0.08
16 17 0.71
17 5 0.21
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (16 bp):
ATTTAAAATTTTATAA
Found at i:1085101 original size:24 final size:24
Alignment explanation
Indices: 1085045--1085101 Score: 62
Period size: 24 Copynumber: 2.4 Consensus size: 24
1085035 TATTTAAATA
*
1085045 TAAATTTATTAAATAATATATTTT
1 TAAATTTATTAAATAATAAATTTT
* * *
1085069 AAAAATTATTACATAA-AAATTATT
1 TAAATTTATTAAATAATAAATT-TT
1085093 TAAATTTAT
1 TAAATTTAT
1085102 CTTTTTATAT
Statistics
Matches: 26, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
23 4 0.15
24 22 0.85
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (24 bp):
TAAATTTATTAAATAATAAATTTT
Found at i:1085543 original size:5 final size:5
Alignment explanation
Indices: 1085524--1085565 Score: 52
Period size: 5 Copynumber: 8.4 Consensus size: 5
1085514 AACTCAAAAA
1085524 AATTT AA-TT AA-TT AATTT AAATTT AAATTT AATTT AATTT AA
1 AATTT AATTT AATTT AATTT -AATTT -AATTT AATTT AATTT AA
1085566 ATTGATAAAA
Statistics
Matches: 35, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
4 8 0.23
5 16 0.46
6 11 0.31
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (5 bp):
AATTT
Found at i:1085548 original size:6 final size:6
Alignment explanation
Indices: 1085537--1085568 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
1085527 TTAATTAATT
1085537 AATTTA AATTTA AATTT- AATTT- AATTTA AATT
1 AATTTA AATTTA AATTTA AATTTA AATTTA AATT
1085569 GATAAAAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
5 10 0.40
6 15 0.60
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (6 bp):
AATTTA
Found at i:1085562 original size:16 final size:16
Alignment explanation
Indices: 1085524--1085568 Score: 60
Period size: 16 Copynumber: 2.9 Consensus size: 16
1085514 AACTCAAAAA
1085524 AATTTAA-TT-AA-TT
1 AATTTAATTTAAATTT
1085537 AATTTAAATTTAAATTT
1 AATTT-AATTTAAATTT
1085554 AATTTAATTTAAATT
1 AATTTAATTTAAATT
1085569 GATAAAAAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
13 5 0.18
14 2 0.07
15 2 0.07
16 12 0.43
17 7 0.25
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (16 bp):
AATTTAATTTAAATTT
Found at i:1086503 original size:16 final size:16
Alignment explanation
Indices: 1086484--1086535 Score: 59
Period size: 16 Copynumber: 3.2 Consensus size: 16
1086474 CAAAATGACC
1086484 TGAACTCGAAATGATT
1 TGAACTCGAAATGATT
* * *
1086500 TGAAATCGGAATAATT
1 TGAACTCGAAATGATT
* *
1086516 TAAACTCAAAATGATT
1 TGAACTCGAAATGATT
1086532 TGAA
1 TGAA
1086536 TCTAAAAGTA
Statistics
Matches: 27, Mismatches: 9, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
16 27 1.00
ACGTcount: A:0.44, C:0.10, G:0.15, T:0.31
Consensus pattern (16 bp):
TGAACTCGAAATGATT
Found at i:1086606 original size:16 final size:15
Alignment explanation
Indices: 1086565--1086606 Score: 66
Period size: 15 Copynumber: 2.7 Consensus size: 15
1086555 TTTTAAAATT
1086565 TAAAATAACTCAATC
1 TAAAATAACTCAATC
*
1086580 TAAAGTAACTCAATC
1 TAAAATAACTCAATC
1086595 TAAAATTAACTC
1 TAAAA-TAACTC
1086607 GATCAATTAG
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
15 18 0.75
16 6 0.25
ACGTcount: A:0.50, C:0.19, G:0.02, T:0.29
Consensus pattern (15 bp):
TAAAATAACTCAATC
Found at i:1087556 original size:3 final size:3
Alignment explanation
Indices: 1087548--1087592 Score: 90
Period size: 3 Copynumber: 15.0 Consensus size: 3
1087538 TCAATAGATT
1087548 TAA TAA TAA 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 TAA TAA TAA
1087593 CAAAGTTACT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:1087948 original size:14 final size:14
Alignment explanation
Indices: 1087925--1087954 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
1087915 TTCAGTATCT
1087925 TATTTCAAATTTTA
1 TATTTCAAATTTTA
*
1087939 TATTTTAAATTTTA
1 TATTTCAAATTTTA
1087953 TA
1 TA
1087955 CAATCGACAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.37, C:0.03, G:0.00, T:0.60
Consensus pattern (14 bp):
TATTTCAAATTTTA
Found at i:1088519 original size:3 final size:3
Alignment explanation
Indices: 1088511--1088545 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
1088501 TTGCCTACTT
1088511 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1088546 TATTATTATT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:1092322 original size:16 final size:16
Alignment explanation
Indices: 1092298--1092336 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
1092288 TTTATCAATG
*
1092298 CTTTTTTCTTTCTTTC
1 CTTTCTTCTTTCTTTC
*
1092314 CTTTCTTCTTTCTTTT
1 CTTTCTTCTTTCTTTC
1092330 CTTTCTT
1 CTTTCTT
1092337 TGTTTTCCTT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (16 bp):
CTTTCTTCTTTCTTTC
Found at i:1092343 original size:9 final size:9
Alignment explanation
Indices: 1092301--1092337 Score: 51
Period size: 9 Copynumber: 4.3 Consensus size: 9
1092291 ATCAATGCTT
1092301 TTTTCTTTC
1 TTTTCTTTC
*
1092310 TTTCCTTTC
1 TTTTCTTTC
1092319 --TTCTTTC
1 TTTTCTTTC
1092326 TTTTCTTTC
1 TTTTCTTTC
1092335 TTT
1 TTT
1092338 GTTTTCCTTC
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
7 6 0.25
9 18 0.75
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (9 bp):
TTTTCTTTC
Found at i:1101733 original size:82 final size:80
Alignment explanation
Indices: 1101524--1101734 Score: 204
Period size: 78 Copynumber: 2.6 Consensus size: 80
1101514 GATTTTTTAT
* * *
1101524 GTAAAAATGAGGTTGGAGTATCC-CTTC-AAAGATGGTGGGGTTGGAGTAT--CCAGAGACGAAA
1 GTAAAAATGGGGTTAGAATATCCTC-TCGAAA-ATGGTGGGGTTGGAGTATCCCCAGAGACGAAA
*
1101585 AATTTAGTGTTTTGGAA
64 AATTTAGTGTTTTGAAA
* * * * * *
1101602 GTAAAAATGGGGTTGGAGTATCCTCTCGGAGATGGTGGGGTTAGAGTATCCCCA-AGGATGAAAA
1 GTAAAAATGGGGTTAGAATATCCTCTCGAAAATGGTGGGGTTGGAGTATCCCCAGA-GACGAAAA
1101666 ATTCGATA-T-TTTTGAAA
65 ATT---TAGTGTTTTGAAA
1101683 GTAATAAA-GGGGTTAGAATATCCTTCTCGAAAATGGTGGGGTTGGAGTATCC
1 GTAA-AAATGGGGTTAGAATATCC-TCTCGAAAATGGTGGGGTTGGAGTATCC
1101735 GTTTTTAATG
Statistics
Matches: 112, Mismatches: 11, Indels: 16
0.81 0.08 0.12
Matches are distributed among these distances:
78 41 0.37
79 3 0.03
80 13 0.12
81 24 0.21
82 29 0.26
83 2 0.02
ACGTcount: A:0.31, C:0.10, G:0.30, T:0.28
Consensus pattern (80 bp):
GTAAAAATGGGGTTAGAATATCCTCTCGAAAATGGTGGGGTTGGAGTATCCCCAGAGACGAAAAA
TTTAGTGTTTTGAAA
Found at i:1105106 original size:61 final size:61
Alignment explanation
Indices: 1105011--1105133 Score: 228
Period size: 61 Copynumber: 2.0 Consensus size: 61
1105001 AACATCAAAA
*
1105011 CCTTGGTAAGATTCAGTAGATCACCTTGAAGAAATAGTTTTTATCTTTTTTTTTTCTAGTT
1 CCTTGGTAAGATTCAGCAGATCACCTTGAAGAAATAGTTTTTATCTTTTTTTTTTCTAGTT
*
1105072 CCTTGGTAAGATTCAGCAGATCACCTTGAAGAAATAGTTTTTGTCTTTTTTTTTTCTAGTT
1 CCTTGGTAAGATTCAGCAGATCACCTTGAAGAAATAGTTTTTATCTTTTTTTTTTCTAGTT
1105133 C
1 C
1105134 TTACAAAATC
Statistics
Matches: 60, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
61 60 1.00
ACGTcount: A:0.24, C:0.15, G:0.15, T:0.46
Consensus pattern (61 bp):
CCTTGGTAAGATTCAGCAGATCACCTTGAAGAAATAGTTTTTATCTTTTTTTTTTCTAGTT
Found at i:1117953 original size:2 final size:2
Alignment explanation
Indices: 1117946--1117997 Score: 104
Period size: 2 Copynumber: 26.0 Consensus size: 2
1117936 ATTAATAAGG
1117946 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1117988 TA TA TA TA TA
1 TA TA TA TA TA
1117998 CACATAATTT
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 50 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:1118324 original size:29 final size:30
Alignment explanation
Indices: 1118291--1118351 Score: 90
Period size: 29 Copynumber: 2.1 Consensus size: 30
1118281 ATTATAAATT
*
1118291 TTAAAATTATATAATAA-ATTTTT-AATATA
1 TTAAAATT-TATAAAAATATTTTTAAATATA
1118320 TTAAAATTTATAAAAATATTTTTAAATATA
1 TTAAAATTTATAAAAATATTTTTAAATATA
1118350 TT
1 TT
1118352 TTAAATATAA
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
28 7 0.24
29 14 0.48
30 8 0.28
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (30 bp):
TTAAAATTTATAAAAATATTTTTAAATATA
Found at i:1118340 original size:12 final size:12
Alignment explanation
Indices: 1118325--1118367 Score: 52
Period size: 12 Copynumber: 3.7 Consensus size: 12
1118315 ATATATTAAA
*
1118325 ATTTATAAAAAT
1 ATTTATAAATAT
*
1118337 ATTTTTAAATAT
1 ATTTATAAATAT
1118349 ATTT-TAAATAT
1 ATTTATAAATAT
*
1118360 AATTATAA
1 ATTTATAA
1118368 CATAAAAATA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
11 10 0.37
12 17 0.63
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (12 bp):
ATTTATAAATAT
Found at i:1118373 original size:28 final size:27
Alignment explanation
Indices: 1118342--1118406 Score: 76
Period size: 28 Copynumber: 2.3 Consensus size: 27
1118332 AAAATATTTT
* * *
1118342 TAAATATATTTTAAATATAATTATAACA
1 TAAATATAATATAAATATAA-TATAAAA
*
1118370 TAAAAATAATATAAATATAATATAAAA
1 TAAATATAATATAAATATAATATAAAA
1118397 TAAAATATAA
1 T-AAATATAA
1118407 ATTATGAAAT
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
27 7 0.23
28 24 0.77
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (27 bp):
TAAATATAATATAAATATAATATAAAA
Found at i:1118378 original size:11 final size:11
Alignment explanation
Indices: 1118364--1118407 Score: 52
Period size: 11 Copynumber: 3.9 Consensus size: 11
1118354 AAATATAATT
*
1118364 ATAACATAAAA
1 ATAATATAAAA
*
1118375 ATAATATAAAT
1 ATAATATAAAA
1118386 ATAATATAAAA
1 ATAATATAAAA
*
1118397 TAAAATATAAA
1 -ATAATATAAA
1118408 TTATGAAATT
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
11 19 0.68
12 9 0.32
ACGTcount: A:0.70, C:0.02, G:0.00, T:0.27
Consensus pattern (11 bp):
ATAATATAAAA
Found at i:1118381 original size:22 final size:23
Alignment explanation
Indices: 1118354--1118411 Score: 73
Period size: 22 Copynumber: 2.5 Consensus size: 23
1118344 AATATATTTT
1118354 AAATATAATTATAACATAAAA-A
1 AAATATAATTATAACATAAAATA
* * *
1118376 TAATATAAATATAATATAAAATA
1 AAATATAATTATAACATAAAATA
1118399 AAATATAAATTAT
1 AAATAT-AATTAT
1118412 GAAATTTATT
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
22 18 0.62
23 6 0.21
24 5 0.17
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.33
Consensus pattern (23 bp):
AAATATAATTATAACATAAAATA
Found at i:1118408 original size:6 final size:6
Alignment explanation
Indices: 1118353--1118408 Score: 50
Period size: 6 Copynumber: 9.8 Consensus size: 6
1118343 AAATATATTT
*
1118353 TAAATA TAATTA TAACATA -AAA-A T-AATA TAAATA T-AATA TAAA-A
1 TAAATA TAAATA TAA-ATA TAAATA TAAATA TAAATA TAAATA TAAATA
1118397 TAAAATA TAAAT
1 T-AAATA TAAAT
1118409 TATGAAATTT
Statistics
Matches: 41, Mismatches: 2, Indels: 14
0.72 0.04 0.25
Matches are distributed among these distances:
4 3 0.07
5 10 0.24
6 24 0.59
7 4 0.10
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (6 bp):
TAAATA
Found at i:1119521 original size:18 final size:18
Alignment explanation
Indices: 1119498--1119575 Score: 72
Period size: 18 Copynumber: 4.3 Consensus size: 18
1119488 TATACAATGA
*
1119498 AAAATATTAATATAATCT
1 AAAATATTAATATAATAT
1119516 AAAATATT-ATATTAATAT
1 AAAATATTAATA-TAATAT
**
1119534 ATGATATTAATAT-ATAT
1 AAAATATTAATATAATAT
*
1119551 ATAAAT-TTTATATAAATAT
1 A-AAATATTAATAT-AATAT
1119570 AAAATA
1 AAAATA
1119576 ATTTAAATAT
Statistics
Matches: 48, Mismatches: 6, Indels: 11
0.74 0.09 0.17
Matches are distributed among these distances:
17 14 0.29
18 26 0.54
19 8 0.17
ACGTcount: A:0.55, C:0.01, G:0.01, T:0.42
Consensus pattern (18 bp):
AAAATATTAATATAATAT
Found at i:1119540 original size:13 final size:12
Alignment explanation
Indices: 1119501--1119570 Score: 56
Period size: 13 Copynumber: 5.9 Consensus size: 12
1119491 ACAATGAAAA
1119501 ATATTAATATA-
1 ATATTAATATAT
* *
1119512 AT-CTAAAATATT
1 ATATTAATATA-T
1119524 ATATTAATATAT
1 ATATTAATATAT
1119536 GATATTAATATAT
1 -ATATTAATATAT
* *
1119549 ATATAAAT-TTT
1 ATATTAATATAT
*
1119560 ATATAAATATA
1 ATATTAATATA
1119571 AAATAATTTA
Statistics
Matches: 47, Mismatches: 7, Indels: 9
0.75 0.11 0.14
Matches are distributed among these distances:
10 6 0.13
11 12 0.26
12 11 0.23
13 18 0.38
ACGTcount: A:0.51, C:0.01, G:0.01, T:0.46
Consensus pattern (12 bp):
ATATTAATATAT
Found at i:1119542 original size:36 final size:36
Alignment explanation
Indices: 1119501--1119570 Score: 97
Period size: 36 Copynumber: 1.9 Consensus size: 36
1119491 ACAATGAAAA
* *
1119501 ATATTAATATA-ATCTAAAATATTATATTAATATATG
1 ATATTAATATATATAT-AAATATTATATAAATATATG
*
1119537 ATATTAATATATATATAAATTTTATATAAATATA
1 ATATTAATATATATATAAATATTATATAAATATA
1119571 AAATAATTTA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
36 27 0.90
37 3 0.10
ACGTcount: A:0.51, C:0.01, G:0.01, T:0.46
Consensus pattern (36 bp):
ATATTAATATATATATAAATATTATATAAATATATG
Found at i:1120141 original size:23 final size:23
Alignment explanation
Indices: 1120114--1120170 Score: 73
Period size: 23 Copynumber: 2.5 Consensus size: 23
1120104 CTATTAAAAA
1120114 ATATTAAAAATATTTTTAT-ATTT
1 ATATT-AAAATATTTTTATAATTT
*
1120137 ATATTAATATATTTTTATAATTT
1 ATATTAAAATATTTTTATAATTT
1120160 A-ATTTAAAATA
1 ATA-TTAAAATA
1120171 AAATTTTTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
22 13 0.43
23 17 0.57
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (23 bp):
ATATTAAAATATTTTTATAATTT
Found at i:1123946 original size:14 final size:14
Alignment explanation
Indices: 1123929--1123977 Score: 71
Period size: 14 Copynumber: 3.4 Consensus size: 14
1123919 TATAATTTTA
1123929 AAAATATAAAAATT
1 AAAATATAAAAATT
* *
1123943 AAAATATTAAATTT
1 AAAATATAAAAATT
1123957 AATAATATAAAAATT
1 AA-AATATAAAAATT
1123972 AAAATA
1 AAAATA
1123978 CTTTCTTAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
14 18 0.60
15 12 0.40
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (14 bp):
AAAATATAAAAATT
Found at i:1123946 original size:15 final size:15
Alignment explanation
Indices: 1123926--1123975 Score: 66
Period size: 15 Copynumber: 3.4 Consensus size: 15
1123916 TATTATAATT
1123926 TTAAAAATATAAAAA
1 TTAAAAATATAAAAA
* *
1123941 TT-AAAATATTAAAT
1 TTAAAAATATAAAAA
*
1123955 TTAATAATATAAAAA
1 TTAAAAATATAAAAA
1123970 TTAAAA
1 TTAAAA
1123976 TACTTTCTTA
Statistics
Matches: 28, Mismatches: 6, Indels: 2
0.78 0.17 0.06
Matches are distributed among these distances:
14 12 0.43
15 16 0.57
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (15 bp):
TTAAAAATATAAAAA
Done.