Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr10 ID=Chr10-JGI_221_v2.0
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: 62175169
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 981721 characters in sequence are not A, C, G, or T
File 199 of 202
Found at i:60819994 original size:30 final size:30
Alignment explanation
Indices: 60819951--60820049 Score: 101
Period size: 30 Copynumber: 3.3 Consensus size: 30
60819941 CATATTTTTA
**
60819951 ATATGC-AATCCCTATATGTACGAACCCTGT
1 ATATGCGAA-CCCTATATGTACGAACCCTAC
* * * *
60819981 ATATGCGGACCCTACATGTGCGAACTCTAC
1 ATATGCGAACCCTATATGTACGAACCCTAC
* *
60820011 ATATGCGAACCTTATAGGTACGAACCCTAC
1 ATATGCGAACCCTATATGTACGAACCCTAC
*
60820041 ATGTGCGAA
1 ATATGCGAA
60820050 TCTTGTAGGT
Statistics
Matches: 55, Mismatches: 13, Indels: 2
0.79 0.19 0.03
Matches are distributed among these distances:
30 54 0.98
31 1 0.02
ACGTcount: A:0.30, C:0.26, G:0.18, T:0.25
Consensus pattern (30 bp):
ATATGCGAACCCTATATGTACGAACCCTAC
Found at i:60820002 original size:15 final size:15
Alignment explanation
Indices: 60819960--60820049 Score: 72
Period size: 15 Copynumber: 6.0 Consensus size: 15
60819950 AATATGCAAT
* *
60819960 CCCTATATGTACGAA
1 CCCTACATGTGCGAA
** * *
60819975 CCCTGTATATGCGGA
1 CCCTACATGTGCGAA
60819990 CCCTACATGTGCGAA
1 CCCTACATGTGCGAA
* *
60820005 CTCTACATATGCGAA
1 CCCTACATGTGCGAA
* * * *
60820020 CCTTATAGGTACGAA
1 CCCTACATGTGCGAA
60820035 CCCTACATGTGCGAA
1 CCCTACATGTGCGAA
60820050 TCTTGTAGGT
Statistics
Matches: 55, Mismatches: 20, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
15 55 1.00
ACGTcount: A:0.29, C:0.28, G:0.19, T:0.24
Consensus pattern (15 bp):
CCCTACATGTGCGAA
Found at i:60820059 original size:30 final size:30
Alignment explanation
Indices: 60819963--60820067 Score: 93
Period size: 30 Copynumber: 3.5 Consensus size: 30
60819953 ATGCAATCCC
* ** * *
60819963 TATATGTACGAACCCTGTATATGCGGACCC
1 TATAGGTACGAACCCTACATATGCGAACCT
* * * *
60819993 TACATGTGCGAACTCTACATATGCGAACCT
1 TATAGGTACGAACCCTACATATGCGAACCT
* *
60820023 TATAGGTACGAACCCTACATGTGCGAATCT
1 TATAGGTACGAACCCTACATATGCGAACCT
* *
60820053 TGTAGGTGCGAACCC
1 TATAGGTACGAACCC
60820068 ATATGTATGA
Statistics
Matches: 60, Mismatches: 15, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
30 60 1.00
ACGTcount: A:0.28, C:0.26, G:0.21, T:0.26
Consensus pattern (30 bp):
TATAGGTACGAACCCTACATATGCGAACCT
Found at i:60820086 original size:29 final size:29
Alignment explanation
Indices: 60820016--60820125 Score: 112
Period size: 29 Copynumber: 3.8 Consensus size: 29
60820006 TCTACATATG
* * * * *
60820016 CGAACCTTATAGGTACGAACCCTACATGTG
1 CGAACCCTGTAGGTGCGAACCC-ATATGTA
* *
60820046 CGAATCTTGTAGGTGCGAACCCATATGTA
1 CGAACCCTGTAGGTGCGAACCCATATGTA
* *
60820075 TGAACCCTGTAGGTGCGAACCCATATTTA
1 CGAACCCTGTAGGTGCGAACCCATATGTA
* *
60820104 CGAACCCTATAGGTGTGAACCC
1 CGAACCCTGTAGGTGCGAACCC
60820126 TGTATGTGGG
Statistics
Matches: 68, Mismatches: 12, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
29 49 0.72
30 19 0.28
ACGTcount: A:0.28, C:0.25, G:0.22, T:0.25
Consensus pattern (29 bp):
CGAACCCTGTAGGTGCGAACCCATATGTA
Found at i:60820096 original size:15 final size:15
Alignment explanation
Indices: 60820014--60820156 Score: 83
Period size: 15 Copynumber: 9.7 Consensus size: 15
60820004 ACTCTACATA
*
60820014 TGCGAACCTTATAGG
1 TGCGAACCCTATAGG
* * *
60820029 TACGAACCCTACATG
1 TGCGAACCCTATAGG
* * *
60820044 TGCGAATCTTGTAGG
1 TGCGAACCCTATAGG
*
60820059 TGCGAACCC-ATATG
1 TGCGAACCCTATAGG
** *
60820073 TATGAACCCTGTAGG
1 TGCGAACCCTATAGG
**
60820088 TGCGAACCC-ATATT
1 TGCGAACCCTATAGG
*
60820102 TACGAACCCTATAGG
1 TGCGAACCCTATAGG
* * *
60820117 TGTGAACCCTGTATG
1 TGCGAACCCTATAGG
* ** *
60820132 TGGGAACTTTATAAG
1 TGCGAACCCTATAGG
60820147 TGCGAACCCT
1 TGCGAACCCT
60820157 TCGTGTGAAC
Statistics
Matches: 88, Mismatches: 38, Indels: 4
0.68 0.29 0.03
Matches are distributed among these distances:
14 20 0.23
15 68 0.77
ACGTcount: A:0.27, C:0.23, G:0.23, T:0.27
Consensus pattern (15 bp):
TGCGAACCCTATAGG
Found at i:60822600 original size:14 final size:14
Alignment explanation
Indices: 60822581--60822617 Score: 51
Period size: 12 Copynumber: 2.7 Consensus size: 14
60822571 TTCTATTTAT
60822581 TTTTTATATATATA
1 TTTTTATATATATA
60822595 TTTTTA-A-ATATA
1 TTTTTATATATATA
60822607 TTTATTATATA
1 TTT-TTATATA
60822618 AAATATTTCA
Statistics
Matches: 20, Mismatches: 0, Indels: 5
0.80 0.00 0.20
Matches are distributed among these distances:
12 8 0.40
13 4 0.20
14 7 0.35
15 1 0.05
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (14 bp):
TTTTTATATATATA
Found at i:60823347 original size:31 final size:31
Alignment explanation
Indices: 60823280--60823348 Score: 93
Period size: 31 Copynumber: 2.2 Consensus size: 31
60823270 ATTAAGTACT
* * * *
60823280 AAATTAAGAAAAAGTGTCAAGTTCATGTACC
1 AAATTAGGAAAAAGTGTCAAGTTAAGGCACC
*
60823311 GAATTAGGAAAAAGTGTCAAGTTAAGGCACC
1 AAATTAGGAAAAAGTGTCAAGTTAAGGCACC
60823342 AAATTAG
1 AAATTAG
60823349 ACCAAAGAAA
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.45, C:0.12, G:0.20, T:0.23
Consensus pattern (31 bp):
AAATTAGGAAAAAGTGTCAAGTTAAGGCACC
Found at i:60824175 original size:6 final size:7
Alignment explanation
Indices: 60824158--60824183 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
60824148 AAAATATTCA
60824158 AAAAATT
1 AAAAATT
60824165 AAAAATT
1 AAAAATT
60824172 AAAAATT
1 AAAAATT
60824179 AAAAA
1 AAAAA
60824184 AAAGTTGGCA
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:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (7 bp):
AAAAATT
Found at i:60824247 original size:11 final size:11
Alignment explanation
Indices: 60824231--60824257 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
60824221 AAAATTTAAC
60824231 ATTTTAGTAGT
1 ATTTTAGTAGT
60824242 ATTTTAGTAGT
1 ATTTTAGTAGT
60824253 ATTTT
1 ATTTT
60824258 TTGAAAAGTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.26, C:0.00, G:0.15, T:0.59
Consensus pattern (11 bp):
ATTTTAGTAGT
Found at i:60833845 original size:31 final size:31
Alignment explanation
Indices: 60833772--60833855 Score: 89
Period size: 31 Copynumber: 2.7 Consensus size: 31
60833762 TCCCTCAAAG
* * **
60833772 TTTTTAGAGATTCTAATTAAACTCTTTGGAA
1 TTTTTAGAAATTCTAATTAAACCCTTTAAAA
* *
60833803 GTTTT-GAAAATTTTAATTAAACCCTTTAAAA
1 TTTTTAG-AAATTCTAATTAAACCCTTTAAAA
*
60833834 TTTTTAGAAATTCTCATTAAAC
1 TTTTTAGAAATTCTAATTAAAC
60833856 TCTCTCTCTC
Statistics
Matches: 42, Mismatches: 9, Indels: 4
0.76 0.16 0.07
Matches are distributed among these distances:
30 1 0.02
31 40 0.95
32 1 0.02
ACGTcount: A:0.37, C:0.11, G:0.08, T:0.44
Consensus pattern (31 bp):
TTTTTAGAAATTCTAATTAAACCCTTTAAAA
Found at i:60840499 original size:29 final size:28
Alignment explanation
Indices: 60840440--60840500 Score: 70
Period size: 29 Copynumber: 2.1 Consensus size: 28
60840430 TCTTTATAAC
*
60840440 TTTAGAATTTAGTCCTTATATTTTTACT
1 TTTAGAATTTAGTCCTTATATTTTCACT
*
60840468 TTTAGGAATTTAGTCTCTT-TACTTTTCATT
1 TTTA-GAATTTAGTC-CTTATA-TTTTCACT
60840498 TTT
1 TTT
60840501 CTAGTTACAT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
28 4 0.14
29 12 0.43
30 12 0.43
ACGTcount: A:0.21, C:0.11, G:0.08, T:0.59
Consensus pattern (28 bp):
TTTAGAATTTAGTCCTTATATTTTCACT
Found at i:60841064 original size:44 final size:44
Alignment explanation
Indices: 60840996--60841089 Score: 152
Period size: 44 Copynumber: 2.1 Consensus size: 44
60840986 TCATATTTCA
* * *
60840996 TGATCACATGATTTTGATAGATCATCTTATATGCATGTGTTAAAT
1 TGAT-ACATGATTTTGAAAGATCATCTCATATGCATGTGTCAAAT
60841041 TGATACATGATTTTGAAAGATCATCTCATATGCATGTGTCAAAT
1 TGATACATGATTTTGAAAGATCATCTCATATGCATGTGTCAAAT
60841085 TGATA
1 TGATA
60841090 ATCGAAATAT
Statistics
Matches: 46, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
44 42 0.91
45 4 0.09
ACGTcount: A:0.33, C:0.12, G:0.16, T:0.39
Consensus pattern (44 bp):
TGATACATGATTTTGAAAGATCATCTCATATGCATGTGTCAAAT
Found at i:60841864 original size:20 final size:20
Alignment explanation
Indices: 60841840--60841878 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
60841830 AATAAAATAA
60841840 AAAAATAGAAATTAAATAATT
1 AAAAAT-GAAATTAAATAATT
60841861 AAAAATGAAATTAAATAA
1 AAAAATGAAATTAAATAA
60841879 ACATATATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 12 0.67
21 6 0.33
ACGTcount: A:0.69, C:0.00, G:0.05, T:0.26
Consensus pattern (20 bp):
AAAAATGAAATTAAATAATT
Found at i:60858240 original size:4 final size:4
Alignment explanation
Indices: 60858233--60858259 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
60858223 CGCTCTGAAA
60858233 TTAT TTAT TTAT TTAT TTAT TTAT TTA
1 TTAT TTAT TTAT TTAT TTAT TTAT TTA
60858260 ATATTTTTGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (4 bp):
TTAT
Found at i:60858314 original size:24 final size:24
Alignment explanation
Indices: 60858287--60858347 Score: 65
Period size: 23 Copynumber: 2.6 Consensus size: 24
60858277 TGTCTAGTGA
60858287 ATTTATAAAAA-TATAAATAATAAT
1 ATTTATAAAAATTATAAATAA-AAT
* *
60858311 ATTT-TAAAAATTGTAAATTAAAT
1 ATTTATAAAAATTATAAATAAAAT
*
60858334 ATTTAT-TAAATTAT
1 ATTTATAAAAATTAT
60858348 TACGATTACA
Statistics
Matches: 31, Mismatches: 4, Indels: 5
0.77 0.10 0.12
Matches are distributed among these distances:
23 19 0.61
24 12 0.39
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (24 bp):
ATTTATAAAAATTATAAATAAAAT
Found at i:60858818 original size:17 final size:17
Alignment explanation
Indices: 60858796--60858837 Score: 57
Period size: 17 Copynumber: 2.5 Consensus size: 17
60858786 ATCTAACTTT
*
60858796 AAAATAATGTAAATCTA
1 AAAATAATGTAAATCCA
*
60858813 AAAATAATTTAAATCCA
1 AAAATAATGTAAATCCA
*
60858830 AAATTAAT
1 AAAATAAT
60858838 TCGATAAAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.60, C:0.07, G:0.02, T:0.31
Consensus pattern (17 bp):
AAAATAATGTAAATCCA
Found at i:60875797 original size:20 final size:20
Alignment explanation
Indices: 60875761--60875798 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
60875751 TTGTTATTTT
*
60875761 TTAAAAGTTGAATGACTGAG
1 TTAAAAGTTGAACGACTGAG
*
60875781 TTAAAAGTTGAGCGACTG
1 TTAAAAGTTGAACGACTG
60875799 CTCTGTTATT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.37, C:0.08, G:0.26, T:0.29
Consensus pattern (20 bp):
TTAAAAGTTGAACGACTGAG
Found at i:60879379 original size:31 final size:31
Alignment explanation
Indices: 60879344--60879404 Score: 88
Period size: 31 Copynumber: 2.0 Consensus size: 31
60879334 TTAACAGTCT
*
60879344 AGTGACTTGAAT-AAAATTTTTTGAATAATTC
1 AGTGACTTAAATGAAAA-TTTTTGAATAATTC
*
60879375 AGTGATTTAAATGAAAATTTTTGAATAATT
1 AGTGACTTAAATGAAAATTTTTGAATAATT
60879405 TAATGATCAT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
31 23 0.85
32 4 0.15
ACGTcount: A:0.41, C:0.03, G:0.13, T:0.43
Consensus pattern (31 bp):
AGTGACTTAAATGAAAATTTTTGAATAATTC
Found at i:60879733 original size:31 final size:32
Alignment explanation
Indices: 60879692--60879771 Score: 85
Period size: 31 Copynumber: 2.6 Consensus size: 32
60879682 GCCCATCATT
*
60879692 TTTTTAAAATTTTAATTAAATCCT-TCAAAAA
1 TTTTGAAAATTTTAATTAAATCCTCTCAAAAA
* * * *
60879723 TTTTGGAAATTCTT-GTT-GATCCTCTCAAAAT
1 TTTTGAAAATT-TTAATTAAATCCTCTCAAAAA
60879754 TTTTGAAAATTTTAATTA
1 TTTTGAAAATTTTAATTA
60879772 GACCCCTAAA
Statistics
Matches: 38, Mismatches: 7, Indels: 7
0.73 0.13 0.13
Matches are distributed among these distances:
30 7 0.18
31 29 0.76
32 2 0.05
ACGTcount: A:0.36, C:0.10, G:0.06, T:0.47
Consensus pattern (32 bp):
TTTTGAAAATTTTAATTAAATCCTCTCAAAAA
Found at i:60881606 original size:30 final size:30
Alignment explanation
Indices: 60881570--60881627 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
60881560 ATTATAAATT
*
60881570 ATAAATTAAACAGATCTTATGGAATTAACC
1 ATAAATTAAACAGATCTTATGCAATTAACC
**
60881600 ATAAATTAAGGAGATCTTATGCAATTAA
1 ATAAATTAAACAGATCTTATGCAATTAA
60881628 TCAGTAACCT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.47, C:0.10, G:0.12, T:0.31
Consensus pattern (30 bp):
ATAAATTAAACAGATCTTATGCAATTAACC
Found at i:60882209 original size:14 final size:16
Alignment explanation
Indices: 60882175--60882215 Score: 73
Period size: 16 Copynumber: 2.6 Consensus size: 16
60882165 GGGGGGGGGG
60882175 GAGAGGAAATTAATAA
1 GAGAGGAAATTAATAA
60882191 GAGAGGAAATTAATAA
1 GAGAGGAAATTAATAA
*
60882207 GAGAAGAAA
1 GAGAGGAAA
60882216 CTCATGCATT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.59, C:0.00, G:0.27, T:0.15
Consensus pattern (16 bp):
GAGAGGAAATTAATAA
Found at i:60883188 original size:2 final size:2
Alignment explanation
Indices: 60883181--60883211 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
60883171 AGGGGTGGTT
60883181 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 T
60883212 GCAGATGGCG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:60884204 original size:10 final size:10
Alignment explanation
Indices: 60884189--60884213 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
60884179 ATCTCTTTTT
60884189 CTTTTGTTTC
1 CTTTTGTTTC
60884199 CTTTTGTTTC
1 CTTTTGTTTC
60884209 CTTTT
1 CTTTT
60884214 TTTTTTACCA
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:0.00, C:0.20, G:0.08, T:0.72
Consensus pattern (10 bp):
CTTTTGTTTC
Found at i:60887644 original size:17 final size:16
Alignment explanation
Indices: 60887622--60887673 Score: 61
Period size: 17 Copynumber: 3.2 Consensus size: 16
60887612 TTTTAAAATT
60887622 TTTATATATTATTTATA
1 TTTATATATT-TTTATA
60887639 TTTATAT-TTTTTATGA
1 TTTATATATTTTTAT-A
* *
60887655 TTTTTGTATTTTTATA
1 TTTATATATTTTTATA
60887671 TTT
1 TTT
60887674 TTAAATATTT
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
15 5 0.16
16 12 0.39
17 14 0.45
ACGTcount: A:0.25, C:0.00, G:0.04, T:0.71
Consensus pattern (16 bp):
TTTATATATTTTTATA
Found at i:60887665 original size:8 final size:8
Alignment explanation
Indices: 60887621--60887676 Score: 60
Period size: 8 Copynumber: 6.8 Consensus size: 8
60887611 TTTTTAAAAT
60887621 TTTTATATA
1 TTTT-TATA
60887630 TTATTTATA
1 TT-TTTATA
*
60887639 TTTATAT-
1 TTTTTATA
60887646 TTTTTATGA
1 TTTTTAT-A
*
60887655 TTTTTGTA
1 TTTTTATA
60887663 TTTTTATA
1 TTTTTATA
60887671 TTTTTA
1 TTTTTA
60887677 AATATTTAAT
Statistics
Matches: 40, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
7 6 0.15
8 18 0.45
9 14 0.35
10 2 0.05
ACGTcount: A:0.25, C:0.00, G:0.04, T:0.71
Consensus pattern (8 bp):
TTTTTATA
Found at i:60887683 original size:26 final size:25
Alignment explanation
Indices: 60887619--60887683 Score: 78
Period size: 26 Copynumber: 2.6 Consensus size: 25
60887609 TTTTTTTAAA
*
60887619 ATTTTTATATATTATTTATATTTAT
1 ATTTTTATATATTTTTTATATTTAT
*
60887644 ATTTTT-TATGATTTTTGTATTTTTAT
1 ATTTTTATAT-ATTTTT-TATATTTAT
*
60887670 ATTTTTAAATATTT
1 ATTTTTATATATTT
60887684 AATAAATTTT
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
24 3 0.09
25 11 0.32
26 18 0.53
27 2 0.06
ACGTcount: A:0.28, C:0.00, G:0.03, T:0.69
Consensus pattern (25 bp):
ATTTTTATATATTTTTTATATTTAT
Found at i:60891759 original size:28 final size:28
Alignment explanation
Indices: 60891702--60891761 Score: 86
Period size: 29 Copynumber: 2.1 Consensus size: 28
60891692 GCATTTAATT
*
60891702 AATTTTTTAAAAATTTAAAATATATAAA
1 AATTTTTTAAAAATTAAAAATATATAAA
*
60891730 AATTGTTTTAAAAATTAAAAAT-TATTAA
1 AATT-TTTTAAAAATTAAAAATATATAAA
60891758 AATT
1 AATT
60891762 ACAAAAAAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
28 13 0.45
29 16 0.55
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (28 bp):
AATTTTTTAAAAATTAAAAATATATAAA
Found at i:60891795 original size:38 final size:38
Alignment explanation
Indices: 60891702--60891795 Score: 86
Period size: 38 Copynumber: 2.5 Consensus size: 38
60891692 GCATTTAATT
* * * *
60891702 AATTTTTTAAAAATTTAAAATATATAAAAATTGTTTTA
1 AATTTTTTAAAAAATTAAAATATAAAAAAAATATTTTA
**
60891740 AA--AATTAAAAATTATTAAAAT-TACAAAAAAATATTTTA
1 AATTTTTTAAAAA--ATTAAAATATA-AAAAAAATATTTTA
60891778 AATTTTTTAAAAAATTAA
1 AATTTTTTAAAAAATTAA
60891796 TTAAAAGTTG
Statistics
Matches: 43, Mismatches: 8, Indels: 10
0.70 0.13 0.16
Matches are distributed among these distances:
36 7 0.16
37 2 0.05
38 27 0.63
40 7 0.16
ACGTcount: A:0.56, C:0.01, G:0.01, T:0.41
Consensus pattern (38 bp):
AATTTTTTAAAAAATTAAAATATAAAAAAAATATTTTA
Found at i:60893591 original size:8 final size:8
Alignment explanation
Indices: 60893572--60893614 Score: 50
Period size: 8 Copynumber: 5.0 Consensus size: 8
60893562 TTTAAAATTT
60893572 TTAAAAATA
1 TTAAAAA-A
60893581 TTAAAAAA
1 TTAAAAAA
60893589 TTAAAAAA
1 TTAAAAAA
*
60893597 TTCGTAAAAA
1 TT--AAAAAA
60893607 TTAAAAAA
1 TTAAAAAA
60893615 AAACATGAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
8 16 0.53
9 7 0.23
10 7 0.23
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.28
Consensus pattern (8 bp):
TTAAAAAA
Found at i:60894117 original size:2 final size:2
Alignment explanation
Indices: 60894110--60894136 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
60894100 AAACATTCAA
60894110 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 A
60894137 ACTACAACAG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:60898952 original size:31 final size:31
Alignment explanation
Indices: 60898910--60898971 Score: 88
Period size: 31 Copynumber: 2.0 Consensus size: 31
60898900 TACACCCAAG
*
60898910 ATCATTAAACTATTCAAAAGTTTTCATTTAA
1 ATCATTAAACTATCCAAAAGTTTTCATTTAA
* * *
60898941 ATCATTGAACTATCCGAAAGTTTTTATTTAA
1 ATCATTAAACTATCCAAAAGTTTTCATTTAA
60898972 TTCAACGTGC
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.39, C:0.13, G:0.06, T:0.42
Consensus pattern (31 bp):
ATCATTAAACTATCCAAAAGTTTTCATTTAA
Found at i:60906701 original size:20 final size:20
Alignment explanation
Indices: 60906676--60906748 Score: 67
Period size: 20 Copynumber: 3.5 Consensus size: 20
60906666 AGTTCAAGTT
60906676 TTTTTTTTATTCGTTTTAAA
1 TTTTTTTTATTCGTTTTAAA
* **
60906696 TTTTTTTAATTAATTTT-AA
1 TTTTTTTTATTCGTTTTAAA
60906715 TTTTTTAATTATTTCGTGTTTAAA
1 TTTTTT--TTA-TTCGT-TTTAAA
60906739 TTATTTTTTA
1 TT-TTTTTTA
60906749 GATCGAGTTT
Statistics
Matches: 41, Mismatches: 6, Indels: 9
0.73 0.11 0.16
Matches are distributed among these distances:
19 8 0.20
20 14 0.34
21 2 0.05
22 3 0.07
23 6 0.15
24 4 0.10
25 4 0.10
ACGTcount: A:0.25, C:0.03, G:0.04, T:0.68
Consensus pattern (20 bp):
TTTTTTTTATTCGTTTTAAA
Found at i:60912560 original size:14 final size:14
Alignment explanation
Indices: 60912523--60912561 Score: 60
Period size: 14 Copynumber: 2.7 Consensus size: 14
60912513 TGGGGGTGGG
60912523 TTTTATTTTTGATT
1 TTTTATTTTTGATT
*
60912537 TTTGATTTTTGATTT
1 TTTTATTTTTGA-TT
60912552 TTTTATTTTT
1 TTTTATTTTT
60912562 TTATTGGGAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 11 0.50
15 11 0.50
ACGTcount: A:0.13, C:0.00, G:0.08, T:0.79
Consensus pattern (14 bp):
TTTTATTTTTGATT
Found at i:60912562 original size:7 final size:7
Alignment explanation
Indices: 60912523--60912553 Score: 55
Period size: 7 Copynumber: 4.6 Consensus size: 7
60912513 TGGGGGTGGG
60912523 TTTT-AT
1 TTTTGAT
60912529 TTTTGAT
1 TTTTGAT
60912536 TTTTGAT
1 TTTTGAT
60912543 TTTTGAT
1 TTTTGAT
60912550 TTTT
1 TTTT
60912554 TTATTTTTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 4 0.17
7 20 0.83
ACGTcount: A:0.13, C:0.00, G:0.10, T:0.77
Consensus pattern (7 bp):
TTTTGAT
Found at i:60913977 original size:23 final size:22
Alignment explanation
Indices: 60913950--60914261 Score: 144
Period size: 23 Copynumber: 13.3 Consensus size: 22
60913940 ACCAATTTGG
60913950 ACAGCACTTATACACAAAATTTA
1 ACAGCA-TTATACACAAAATTTA
* **
60913973 ACAGCATGTATATACAAAATTGG
1 ACAGCAT-TATACACAAAATTTA
* *
60913996 ACAGCATTGATTCACCAAAAATTA
1 ACAGCATT-ATACA-CAAAATTTA
* * * * *
60914020 GGCAGCATACATATAC-CAATTTGG
1 -ACAGCAT-TATACACAAAATTT-A
60914044 ACAGCACTTATACACAAAATTTA
1 ACAGCA-TTATACACAAAATTTA
* * **
60914067 GCAGCATGTATATACAAAATTGG
1 ACAGCAT-TATACACAAAATTTA
* *
60914090 ACAGCATTGATTCACCAAAAATTA
1 ACAGCATT-ATACA-CAAAATTTA
* * * *
60914114 GGCAGCATACATACAC-CAATTTGG
1 -ACAGCAT-TATACACAAAATTT-A
60914138 ACAGCACTTATACACAAAATTTA
1 ACAGCA-TTATACACAAAATTTA
* **
60914161 ACAGCATGTATATACAAAATTGG
1 ACAGCAT-TATACACAAAATTTA
* *
60914184 ACAGCATTGATTCACCAAAAATTA
1 ACAGCATT-ATACA-CAAAATTTA
* * * *
60914208 GGCAGCATACATACAC-CAATTTGG
1 -ACAGCAT-TATACACAAAATTT-A
60914232 ACAGCACTTATACACAAAATTTA
1 ACAGCA-TTATACACAAAATTTA
60914255 ACAGCAT
1 ACAGCAT
60914262 GTGTATATAA
Statistics
Matches: 207, Mismatches: 58, Indels: 49
0.66 0.18 0.16
Matches are distributed among these distances:
22 7 0.03
23 132 0.64
24 39 0.19
25 29 0.14
ACGTcount: A:0.43, C:0.20, G:0.12, T:0.25
Consensus pattern (22 bp):
ACAGCATTATACACAAAATTTA
Found at i:60914096 original size:94 final size:94
Alignment explanation
Indices: 60913935--60914332 Score: 665
Period size: 94 Copynumber: 4.2 Consensus size: 94
60913925 NNNNNNNNNN
60913935 CATATACCAATTTGGACAGCACTTATACACAAAATTTAACAGCATGTATATACAAAATTGGACAG
1 CATATACCAATTTGGACAGCACTTATACACAAAATTTAACAGCATGTATATACAAAATTGGACAG
60914000 CATTGATTCACCAAAAATTAGGCAGCATA
66 CATTGATTCACCAAAAATTAGGCAGCATA
*
60914029 CATATACCAATTTGGACAGCACTTATACACAAAATTTAGCAGCATGTATATACAAAATTGGACAG
1 CATATACCAATTTGGACAGCACTTATACACAAAATTTAACAGCATGTATATACAAAATTGGACAG
60914094 CATTGATTCACCAAAAATTAGGCAGCATA
66 CATTGATTCACCAAAAATTAGGCAGCATA
*
60914123 CATACACCAATTTGGACAGCACTTATACACAAAATTTAACAGCATGTATATACAAAATTGGACAG
1 CATATACCAATTTGGACAGCACTTATACACAAAATTTAACAGCATGTATATACAAAATTGGACAG
60914188 CATTGATTCACCAAAAATTAGGCAGCATA
66 CATTGATTCACCAAAAATTAGGCAGCATA
* * *
60914217 CATACACCAATTTGGACAGCACTTATACACAAAATTTAACAGCATGTGTATATAAAATTGGACAG
1 CATATACCAATTTGGACAGCACTTATACACAAAATTTAACAGCATGTATATACAAAATTGGACAG
* * *
60914282 CATT-TTTACATCAAAAATTTGGACAGCATA
66 CATTGATT-CACCAAAAATTAGG-CAGCATA
* *
60914312 TATATGA-CAATTTGGGCAGCA
1 CATAT-ACCAATTTGGACAGCA
60914333 TAAATACATC
Statistics
Matches: 290, Mismatches: 11, Indels: 5
0.95 0.04 0.02
Matches are distributed among these distances:
93 2 0.01
94 264 0.91
95 23 0.08
96 1 0.00
ACGTcount: A:0.41, C:0.19, G:0.14, T:0.26
Consensus pattern (94 bp):
CATATACCAATTTGGACAGCACTTATACACAAAATTTAACAGCATGTATATACAAAATTGGACAG
CATTGATTCACCAAAAATTAGGCAGCATA
Found at i:60914331 original size:23 final size:23
Alignment explanation
Indices: 60914297--60914355 Score: 68
Period size: 23 Copynumber: 2.6 Consensus size: 23
60914287 TTACATCAAA
* * *
60914297 AATTTGGACAGCATATATATGA-C
1 AATTTGGGCAGCATAAATA-CATC
60914320 AATTTGGGCAGCATAAATACATC
1 AATTTGGGCAGCATAAATACATC
60914343 AA-TTGGGCAGCAT
1 AATTTGGGCAGCAT
60914356 TTAAGCATAA
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
22 12 0.38
23 20 0.62
ACGTcount: A:0.37, C:0.15, G:0.20, T:0.27
Consensus pattern (23 bp):
AATTTGGGCAGCATAAATACATC
Found at i:60922317 original size:12 final size:12
Alignment explanation
Indices: 60922300--60922334 Score: 61
Period size: 12 Copynumber: 2.9 Consensus size: 12
60922290 AAAGATGAAA
*
60922300 ACTTGATTAATG
1 ACTTGATGAATG
60922312 ACTTGATGAATG
1 ACTTGATGAATG
60922324 ACTTGATGAAT
1 ACTTGATGAAT
60922335 AAATGAACAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.34, C:0.09, G:0.20, T:0.37
Consensus pattern (12 bp):
ACTTGATGAATG
Found at i:60924798 original size:20 final size:20
Alignment explanation
Indices: 60924773--60924836 Score: 53
Period size: 20 Copynumber: 3.2 Consensus size: 20
60924763 TAATAAGGTT
60924773 TTAATAAGGCATATTATCTA
1 TTAATAAGGCATATTATCTA
* **
60924793 TTAAT-AGACATCCAAGAGT-T-
1 TTAATAAGGCAT--ATTA-TCTA
60924813 TTAATAAGGCATATTATCTA
1 TTAATAAGGCATATTATCTA
60924833 TTAA
1 TTAA
60924837 AAGACATCTA
Statistics
Matches: 32, Mismatches: 6, Indels: 12
0.64 0.12 0.24
Matches are distributed among these distances:
18 1 0.03
19 8 0.25
20 14 0.44
21 8 0.25
22 1 0.03
ACGTcount: A:0.41, C:0.11, G:0.11, T:0.38
Consensus pattern (20 bp):
TTAATAAGGCATATTATCTA
Found at i:60924814 original size:40 final size:40
Alignment explanation
Indices: 60924770--60924850 Score: 144
Period size: 40 Copynumber: 2.0 Consensus size: 40
60924760 TCCTAATAAG
*
60924770 GTTTTAATAAGGCATATTATCTATTAATAGACATCCAAGA
1 GTTTTAATAAGGCATATTATCTATTAAAAGACATCCAAGA
*
60924810 GTTTTAATAAGGCATATTATCTATTAAAAGACATCTAAGA
1 GTTTTAATAAGGCATATTATCTATTAAAAGACATCCAAGA
60924850 G
1 G
60924851 AGAGTATTAT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 39 1.00
ACGTcount: A:0.41, C:0.11, G:0.14, T:0.35
Consensus pattern (40 bp):
GTTTTAATAAGGCATATTATCTATTAAAAGACATCCAAGA
Found at i:60930542 original size:129 final size:129
Alignment explanation
Indices: 60930387--60930857 Score: 637
Period size: 129 Copynumber: 3.6 Consensus size: 129
60930377 AAGAAAGAAA
* *
60930387 GCTCAAAAATCACATTGTTCAACTCAAAAACCTAAATCTAAACTTAACCAGCAACACTGAATCAA
1 GCTCAAAAATCACATTGTTCATCTCAAAAAACTAAATCTAAACTTAACCAGCAACACTGAATCAA
60930452 TAAAAATTCAAATTAGTACATAGAAATCTCAAAGTCAATGCTAGCAAAAACGACAAAAAAAAAG
66 TAAAAATTCAAATTAGTACATAGAAATCTCAAAGTCAATGCTAGCAAAAACGACAAAAAAAAAG
** *
60930516 GCTCAAAAATCACATTGTTCATCTCAAAAAAAAAAATCTAAACTTAACCAGCAACACAGAATCAA
1 GCTCAAAAATCACATTGTTCATCTCAAAAAACTAAATCTAAACTTAACCAGCAACACTGAATCAA
* * *
60930581 TAAAAATTCAAATTGGTACATAGAAATCTCAAAGTCAATGCTAACAAAAACGAC--AAAAGAAG
66 TAAAAATTCAAATTAGTACATAGAAATCTCAAAGTCAATGCTAGCAAAAACGACAAAAAAAAAG
60930643 GCTCAAAAATCACATTGTTCGA-CTCAAAAAAACTAAATCTAAACTTAAACCAGCTAA-ACTGAA
1 GCTCAAAAATCACATTGTTC-ATCTC-AAAAAACTAAATCTAAACTT-AACCAGC-AACACTGAA
* * * * * * *
60930706 TCAATAAAAATTCAAAAATAGTACATAGAAATCACAGACTCAATACTAGCAAAAACTAAAAAAAA
62 TCAATAAAAATTC-AAATTAGTACATAGAAATCTCAAAGTCAATGCTAGCAAAAAC--GACAAAA
60930771 AGAAGAAG
124 A-AA-AAG
* * * *
60930779 AAGCTCAAAAACCACATTGTTCATCTC-AAAAACTAAATCTAAACTAAACCTGCAACCCTGAATC
1 --GCTCAAAAATCACATTGTTCATCTCAAAAAACTAAATCTAAACTTAACCAGCAACACTGAATC
60930843 AATAAAAATTCAAAT
64 AATAAAAATTCAAAT
60930858 CAATTCAAAA
Statistics
Matches: 301, Mismatches: 26, Indels: 25
0.86 0.07 0.07
Matches are distributed among these distances:
127 30 0.10
128 19 0.06
129 137 0.46
130 37 0.12
132 1 0.00
134 8 0.03
135 25 0.08
136 21 0.07
137 1 0.00
138 22 0.07
ACGTcount: A:0.52, C:0.20, G:0.08, T:0.20
Consensus pattern (129 bp):
GCTCAAAAATCACATTGTTCATCTCAAAAAACTAAATCTAAACTTAACCAGCAACACTGAATCAA
TAAAAATTCAAATTAGTACATAGAAATCTCAAAGTCAATGCTAGCAAAAACGACAAAAAAAAAG
Found at i:60933431 original size:13 final size:14
Alignment explanation
Indices: 60933415--60933456 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
60933405 TTTTTATCGG
60933415 ATTAATTT-AATAA
1 ATTAATTTGAATAA
*
60933428 ATTATTTTGAATAA
1 ATTAATTTGAATAA
*
60933442 ATTATTTTGAA-AA
1 ATTAATTTGAATAA
60933455 AT
1 AT
60933457 AGAGAAAATT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
13 11 0.41
14 16 0.59
ACGTcount: A:0.48, C:0.00, G:0.05, T:0.48
Consensus pattern (14 bp):
ATTAATTTGAATAA
Found at i:60933442 original size:14 final size:14
Alignment explanation
Indices: 60933423--60933456 Score: 61
Period size: 14 Copynumber: 2.5 Consensus size: 14
60933413 GGATTAATTT
60933423 AATAAATTATTTTG
1 AATAAATTATTTTG
60933437 AATAAATTATTTTG
1 AATAAATTATTTTG
60933451 AA-AAAT
1 AATAAAT
60933457 AGAGAAAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 4 0.20
14 16 0.80
ACGTcount: A:0.50, C:0.00, G:0.06, T:0.44
Consensus pattern (14 bp):
AATAAATTATTTTG
Found at i:60938115 original size:30 final size:29
Alignment explanation
Indices: 60938062--60938123 Score: 81
Period size: 30 Copynumber: 2.1 Consensus size: 29
60938052 TTTTTTATTA
*
60938062 TTATATATTTTATAATCAAATTAAATCGC
1 TTATATATTTTATAATCAAATTAAATCAC
*
60938091 TTATATTTTATTATTAAT-AAATTAAATCAC
1 TTATATATT-TTA-TAATCAAATTAAATCAC
60938121 TTA
1 TTA
60938124 CTGTTCTCGC
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
29 8 0.28
30 17 0.59
31 4 0.14
ACGTcount: A:0.42, C:0.08, G:0.02, T:0.48
Consensus pattern (29 bp):
TTATATATTTTATAATCAAATTAAATCAC
Found at i:60939749 original size:15 final size:17
Alignment explanation
Indices: 60939721--60939770 Score: 59
Period size: 15 Copynumber: 3.0 Consensus size: 17
60939711 TTATTATGTT
*
60939721 ATATATAGTTTATAATG
1 ATATATAATTTATAATG
*
60939738 AT-TA-AATTTATAATA
1 ATATATAATTTATAATG
60939753 ATATATAATATTATAATG
1 ATATATAAT-TTATAATG
60939771 TAAATATAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
15 11 0.41
16 4 0.15
17 5 0.19
18 7 0.26
ACGTcount: A:0.48, C:0.00, G:0.06, T:0.46
Consensus pattern (17 bp):
ATATATAATTTATAATG
Found at i:60940723 original size:22 final size:21
Alignment explanation
Indices: 60940673--60940723 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 21
60940663 CTGTTACTCT
*
60940673 CTACCCTCTTTAACCCTAAAAC
1 CTACCC-CTTTAACCCCAAAAC
* *
60940695 CTTCCCCTTTAAACCCCAAACC
1 CTACCCCTTT-AACCCCAAAAC
60940717 CTACCCC
1 CTACCCC
60940724 AATATCCCCT
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
21 4 0.17
22 20 0.83
ACGTcount: A:0.27, C:0.49, G:0.00, T:0.24
Consensus pattern (21 bp):
CTACCCCTTTAACCCCAAAAC
Found at i:60949970 original size:58 final size:58
Alignment explanation
Indices: 60949876--60949988 Score: 208
Period size: 58 Copynumber: 1.9 Consensus size: 58
60949866 GTAACGAAAG
60949876 GGCCTTATTGATATAATATCGATAGTTTGAGAATGTAACTAGAATGCTGTGAAGTTTA
1 GGCCTTATTGATATAATATCGATAGTTTGAGAATGTAACTAGAATGCTGTGAAGTTTA
* *
60949934 GGCCTTATTGATATAATATCGATAGTTTGAGGATGTAACTAGAATGCTTTGAAGT
1 GGCCTTATTGATATAATATCGATAGTTTGAGAATGTAACTAGAATGCTGTGAAGT
60949989 ATAATGACCA
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
58 53 1.00
ACGTcount: A:0.32, C:0.09, G:0.23, T:0.36
Consensus pattern (58 bp):
GGCCTTATTGATATAATATCGATAGTTTGAGAATGTAACTAGAATGCTGTGAAGTTTA
Found at i:60954034 original size:16 final size:18
Alignment explanation
Indices: 60953995--60954028 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
60953985 TAAGTTTATA
60953995 ATATTT-TATATTATGTT
1 ATATTTATATATTATGTT
60954012 ATATTTATATATTATGT
1 ATATTTATATATTATGT
60954029 AATTTAGAAC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.32, C:0.00, G:0.06, T:0.62
Consensus pattern (18 bp):
ATATTTATATATTATGTT
Found at i:60955329 original size:11 final size:10
Alignment explanation
Indices: 60955313--60955359 Score: 51
Period size: 10 Copynumber: 4.7 Consensus size: 10
60955303 CTTTCTGCTA
60955313 AATTTTTTAT
1 AATTTTTTAT
*
60955323 GAATTTTTTGT
1 -AATTTTTTAT
*
60955334 AAGTTTTTAT
1 AATTTTTTAT
*
60955344 -TTTTTTTAT
1 AATTTTTTAT
60955353 AATTTTT
1 AATTTTT
60955360 AATTTATTTG
Statistics
Matches: 29, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
9 7 0.24
10 13 0.45
11 9 0.31
ACGTcount: A:0.23, C:0.00, G:0.06, T:0.70
Consensus pattern (10 bp):
AATTTTTTAT
Found at i:60955350 original size:19 final size:18
Alignment explanation
Indices: 60955326--60955370 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
60955316 TTTTTATGAA
*
60955326 TTTTTTGTAAGTTTTTATT
1 TTTTTTGTAA-TTTTTAAT
*
60955345 TTTTTTATAATTTTTAAT
1 TTTTTTGTAATTTTTAAT
*
60955363 TTATTTGT
1 TTTTTTGT
60955371 TGACATAACA
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
18 13 0.59
19 9 0.41
ACGTcount: A:0.20, C:0.00, G:0.07, T:0.73
Consensus pattern (18 bp):
TTTTTTGTAATTTTTAAT
Found at i:60955515 original size:24 final size:25
Alignment explanation
Indices: 60955479--60955534 Score: 62
Period size: 24 Copynumber: 2.3 Consensus size: 25
60955469 ATCAACATTC
* * *
60955479 AAAAAATTAAAGACT-AAATTTAACT
1 AAAAAAATAAAGAATCAAA-TTAACA
60955504 AAAAAAAT-AAGAATCAAATTAACA
1 AAAAAAATAAAGAATCAAATTAACA
60955528 AAAAAAA
1 AAAAAAA
60955535 AACATAAACT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
24 17 0.63
25 10 0.37
ACGTcount: A:0.70, C:0.07, G:0.04, T:0.20
Consensus pattern (25 bp):
AAAAAAATAAAGAATCAAATTAACA
Found at i:60957038 original size:50 final size:50
Alignment explanation
Indices: 60956963--60957062 Score: 200
Period size: 50 Copynumber: 2.0 Consensus size: 50
60956953 TAACAGAATG
60956963 ACCAGTTTTCTCTTTGATCTAATATATAAAGATAGATTTGCCCATTTTCT
1 ACCAGTTTTCTCTTTGATCTAATATATAAAGATAGATTTGCCCATTTTCT
60957013 ACCAGTTTTCTCTTTGATCTAATATATAAAGATAGATTTGCCCATTTTCT
1 ACCAGTTTTCTCTTTGATCTAATATATAAAGATAGATTTGCCCATTTTCT
60957063 GAGTAGAGGG
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
50 50 1.00
ACGTcount: A:0.28, C:0.18, G:0.10, T:0.44
Consensus pattern (50 bp):
ACCAGTTTTCTCTTTGATCTAATATATAAAGATAGATTTGCCCATTTTCT
Found at i:60958071 original size:90 final size:92
Alignment explanation
Indices: 60957881--60958084 Score: 286
Period size: 94 Copynumber: 2.2 Consensus size: 92
60957871 TTCTTTGATG
*
60957881 ATAACAGTTAAAGCAATCCCATTTACACTCATCATATATATAAACAAACAGGTGCAAGCTCACAC
1 ATAACAGTTAAAGCAATCCCATTTACACTCATCATATATATAAACAAACA-GTGCAAGCACACAC
* * **
60957946 ACACACGTATATATGAAAATTTTTCCACA
65 ACACACG-ACATATGAAAAATAATCCACA
* **
60957975 ATAACAGTTAAAGCGATCCCATTTACACTCATCATATATATAAACAAACA-TGCGTGCACACACA
1 ATAACAGTTAAAGCAATCCCATTTACACTCATCATATATATAAACAAACAGTGCAAGCACACACA
*
60958039 CACAC-ACATGTGAAAAATAATCCACA
66 CACACGACATATGAAAAATAATCCACA
*
60958065 ATAACAGTTAATGCAATCCC
1 ATAACAGTTAAAGCAATCCC
60958085 GTAATTCCCA
Statistics
Matches: 99, Mismatches: 11, Indels: 4
0.87 0.10 0.04
Matches are distributed among these distances:
90 34 0.34
92 16 0.16
94 49 0.49
ACGTcount: A:0.43, C:0.25, G:0.09, T:0.24
Consensus pattern (92 bp):
ATAACAGTTAAAGCAATCCCATTTACACTCATCATATATATAAACAAACAGTGCAAGCACACACA
CACACGACATATGAAAAATAATCCACA
Found at i:60964378 original size:59 final size:59
Alignment explanation
Indices: 60964304--60964429 Score: 182
Period size: 59 Copynumber: 2.2 Consensus size: 59
60964294 ATTAAATGGT
*
60964304 TTGA-TGACCATTTTGTAACTTTTCATAGTTGGGTGACCAAAAAAGAAAAAAAACATAG
1 TTGAGTGACCATTTTGTAACTTTTCATAGTTAGGTGACCAAAAAAGAAAAAAAACATAG
* * * * *
60964362 TTGAGTGACTATTTTGTAACTTTTCATCGTTAGTTGATCAAAAAAGAAAAAAATCATAG
1 TTGAGTGACCATTTTGTAACTTTTCATAGTTAGGTGACCAAAAAAGAAAAAAAACATAG
*
60964421 TTGGGTGAC
1 TTGAGTGAC
60964430 ATCTACTAAA
Statistics
Matches: 60, Mismatches: 7, Indels: 1
0.88 0.10 0.01
Matches are distributed among these distances:
58 4 0.07
59 56 0.93
ACGTcount: A:0.38, C:0.11, G:0.18, T:0.33
Consensus pattern (59 bp):
TTGAGTGACCATTTTGTAACTTTTCATAGTTAGGTGACCAAAAAAGAAAAAAAACATAG
Found at i:60965023 original size:15 final size:14
Alignment explanation
Indices: 60964977--60965024 Score: 55
Period size: 15 Copynumber: 3.4 Consensus size: 14
60964967 ATTTTTATTA
60964977 AATAAA-ATAAAAT
1 AATAAATATAAAAT
*
60964990 AAATAATTATAAAAT
1 -AATAAATATAAAAT
60965005 -ATAAATATAAAACT
1 AATAAATATAAAA-T
60965019 AATAAA
1 AATAAA
60965025 ATGTAAAATT
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
13 11 0.38
14 6 0.21
15 12 0.41
ACGTcount: A:0.71, C:0.02, G:0.00, T:0.27
Consensus pattern (14 bp):
AATAAATATAAAAT
Found at i:60965023 original size:22 final size:21
Alignment explanation
Indices: 60964977--60965031 Score: 60
Period size: 22 Copynumber: 2.6 Consensus size: 21
60964967 ATTTTTATTA
60964977 AATAAAATA-AAATAAATAAT
1 AATAAAATATAAATAAATAAT
*
60964997 TATAAAATATAAATATAA-AACT
1 AATAAAATATAAATA-AATAA-T
*
60965019 AATAAAATGTAAA
1 AATAAAATATAAA
60965032 ATTTATTCTA
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
20 8 0.28
21 7 0.24
22 14 0.48
ACGTcount: A:0.69, C:0.02, G:0.02, T:0.27
Consensus pattern (21 bp):
AATAAAATATAAATAAATAAT
Found at i:60965209 original size:17 final size:17
Alignment explanation
Indices: 60965187--60965222 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
60965177 GATATTGTAT
60965187 TTCATTATTCAAAATAA
1 TTCATTATTCAAAATAA
**
60965204 TTCATTATTGTAAATAA
1 TTCATTATTCAAAATAA
60965221 TT
1 TT
60965223 TGCTTTCTAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.42, C:0.08, G:0.03, T:0.47
Consensus pattern (17 bp):
TTCATTATTCAAAATAA
Found at i:60968291 original size:11 final size:11
Alignment explanation
Indices: 60968275--60968300 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
60968265 ATAAAAAATA
60968275 AAAAGTATTTT
1 AAAAGTATTTT
60968286 AAAAGTATTTT
1 AAAAGTATTTT
60968297 AAAA
1 AAAA
60968301 TTTAAAATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.54, C:0.00, G:0.08, T:0.38
Consensus pattern (11 bp):
AAAAGTATTTT
Found at i:60970570 original size:12 final size:11
Alignment explanation
Indices: 60970541--60970570 Score: 51
Period size: 11 Copynumber: 2.6 Consensus size: 11
60970531 TTTTATTTTT
60970541 TAATTTTAAAA
1 TAATTTTAAAA
60970552 TAATTTTAAAA
1 TAATTTTAAAA
60970563 TAAATTTT
1 T-AATTTT
60970571 TTTTTAAATA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 12 0.67
12 6 0.33
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (11 bp):
TAATTTTAAAA
Found at i:60970574 original size:16 final size:17
Alignment explanation
Indices: 60970555--60970587 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
60970545 TTTAAAATAA
60970555 TTTTAAAAT-AAATTTT
1 TTTTAAAATAAAATTTT
*
60970571 TTTTTAAATAAAATTTT
1 TTTTAAAATAAAATTTT
60970588 AATGTTTATT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (17 bp):
TTTTAAAATAAAATTTT
Found at i:60970575 original size:17 final size:17
Alignment explanation
Indices: 60970555--60970587 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
60970545 TTTAAAATAA
60970555 TTTTAAA-ATAAATTTTT
1 TTTTAAATA-AAATTTTT
60970572 TTTTAAATAAAATTTT
1 TTTTAAATAAAATTTT
60970588 AATGTTTATT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 14 0.93
18 1 0.07
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (17 bp):
TTTTAAATAAAATTTTT
Found at i:60975028 original size:2 final size:2
Alignment explanation
Indices: 60975021--60975046 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
60975011 ACCCACTAAC
60975021 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
60975047 TAATTGATAC
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:60975752 original size:2 final size:2
Alignment explanation
Indices: 60975745--60975770 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
60975735 AGTAAACCCA
60975745 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
60975771 GAATAAGACC
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:60976062 original size:18 final size:18
Alignment explanation
Indices: 60976056--60976110 Score: 65
Period size: 18 Copynumber: 2.9 Consensus size: 18
60976046 ATTTTAAAAA
60976056 TAAAAAATAAAAAATATT
1 TAAAAAATAAAAAATATT
* * *
60976074 TTAAAAATAAAAATAAAAT
1 TAAAAAATAAAAA-ATATT
60976093 TAAAAAATTAAAAAATAT
1 TAAAAAA-TAAAAAATAT
60976111 ATATTTATTA
Statistics
Matches: 29, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
18 12 0.41
19 11 0.38
20 6 0.21
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (18 bp):
TAAAAAATAAAAAATATT
Found at i:60976063 original size:7 final size:7
Alignment explanation
Indices: 60976051--60976109 Score: 50
Period size: 7 Copynumber: 8.0 Consensus size: 7
60976041 AAAATATTTT
60976051 AAAAATA
1 AAAAATA
60976058 AAAAATA
1 AAAAATA
60976065 AAAAATA
1 AAAAATA
60976072 TTTTAAAAAT-
1 ----AAAAATA
60976082 AAAAAT-
1 AAAAATA
*
60976088 AAAATTA
1 AAAAATA
60976095 AAAAATTA
1 AAAAA-TA
60976103 AAAAATA
1 AAAAATA
60976110 TATATTTATT
Statistics
Matches: 44, Mismatches: 2, Indels: 12
0.76 0.03 0.21
Matches are distributed among these distances:
6 11 0.25
7 20 0.45
8 7 0.16
11 6 0.14
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (7 bp):
AAAAATA
Found at i:60976072 original size:25 final size:24
Alignment explanation
Indices: 60976039--60976091 Score: 97
Period size: 25 Copynumber: 2.2 Consensus size: 24
60976029 NNNNNTATTA
60976039 AAAAAATATTTTAAAAATAAAAAAT
1 AAAAAATATTTTAAAAAT-AAAAAT
60976064 AAAAAATATTTTAAAAATAAAAAT
1 AAAAAATATTTTAAAAATAAAAAT
60976088 AAAA
1 AAAA
60976092 TTAAAAAATT
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
24 10 0.36
25 18 0.64
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (24 bp):
AAAAAATATTTTAAAAATAAAAAT
Found at i:60985499 original size:22 final size:22
Alignment explanation
Indices: 60985457--60985500 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
60985447 TAATTTGTTT
* *
60985457 TTTTATTTCTTATTTATAAATC
1 TTTTATTTCGTATTCATAAATC
60985479 TTTTATTT-GTATTCATCAAATC
1 TTTTATTTCGTATTCAT-AAATC
60985501 AAGGAACAAG
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 6 0.32
22 13 0.68
ACGTcount: A:0.27, C:0.11, G:0.02, T:0.59
Consensus pattern (22 bp):
TTTTATTTCGTATTCATAAATC
Found at i:60992914 original size:2 final size:2
Alignment explanation
Indices: 60992907--60992950 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
60992897 AAAGAAGACT
60992907 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
60992949 TA
1 TA
60992951 AGATTTTGTA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:60995136 original size:11 final size:11
Alignment explanation
Indices: 60995120--60995144 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
60995110 ACTAATTAAT
60995120 ATTATGTGTTA
1 ATTATGTGTTA
60995131 ATTATGTGTTA
1 ATTATGTGTTA
60995142 ATT
1 ATT
60995145 TCAAGACTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.28, C:0.00, G:0.16, T:0.56
Consensus pattern (11 bp):
ATTATGTGTTA
Found at i:61002081 original size:6 final size:6
Alignment explanation
Indices: 61002070--61002100 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
61002060 CGAAAGGGAA
*
61002070 GGACCC GGACCC GGACCC GGACCC AGACCC G
1 GGACCC GGACCC GGACCC GGACCC GGACCC G
61002101 AACCTAGATG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.19, C:0.48, G:0.32, T:0.00
Consensus pattern (6 bp):
GGACCC
Found at i:61004469 original size:2 final size:2
Alignment explanation
Indices: 61004462--61004494 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
61004452 NNNNNNNNNN
61004462 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
61004495 GAAATTGATG
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:61012417 original size:13 final size:13
Alignment explanation
Indices: 61012384--61012421 Score: 51
Period size: 13 Copynumber: 3.0 Consensus size: 13
61012374 TTAATCGACT
*
61012384 TTTATAATGTAT-
1 TTTATAATATATA
*
61012396 TTTTTAATATATA
1 TTTATAATATATA
61012409 TTTATAATATATA
1 TTTATAATATATA
61012422 ATAAACATAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
12 10 0.45
13 12 0.55
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.58
Consensus pattern (13 bp):
TTTATAATATATA
Found at i:61012983 original size:92 final size:92
Alignment explanation
Indices: 61012821--61013000 Score: 297
Period size: 92 Copynumber: 2.0 Consensus size: 92
61012811 CATTAATTTT
* * *
61012821 ATTATAGGTTGTTATCATATCTGCTCTTTGTTGATACAATGCTTAGAACTACCCATAGTCCCTCC
1 ATTATAGGTTATTATCATATCTGCTCTTTGTTAATACAATGCTTAGAACTACCCATAGCCCCTCC
*
61012886 GCAACTCTTAAATAGGAGGATAACATC
66 GCAACTCTTAAATAGGAAGATAACATC
* *
61012913 ATTATATGTTATTATCATATCTGCTTTTTGTTAATACAATGCTTAGAACTACCCATAGCCCCTCC
1 ATTATAGGTTATTATCATATCTGCTCTTTGTTAATACAATGCTTAGAACTACCCATAGCCCCTCC
*
61012978 TCAACTCTTAAATAGGAAGATAA
66 GCAACTCTTAAATAGGAAGATAA
61013001 TGCGCTTCAG
Statistics
Matches: 81, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
92 81 1.00
ACGTcount: A:0.31, C:0.21, G:0.13, T:0.35
Consensus pattern (92 bp):
ATTATAGGTTATTATCATATCTGCTCTTTGTTAATACAATGCTTAGAACTACCCATAGCCCCTCC
GCAACTCTTAAATAGGAAGATAACATC
Found at i:61014508 original size:20 final size:19
Alignment explanation
Indices: 61014470--61014512 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 19
61014460 ATTTATTAAA
*
61014470 AAATATATTTTTATAAATTT
1 AAATATATATTTATAAA-TT
61014490 AAATATATATTTACT-AATT
1 AAATATATATTTA-TAAATT
61014509 AAAT
1 AAAT
61014513 TTTGATAATT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
19 6 0.29
20 14 0.67
21 1 0.05
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (19 bp):
AAATATATATTTATAAATT
Found at i:61022684 original size:118 final size:118
Alignment explanation
Indices: 61022265--61022773 Score: 546
Period size: 117 Copynumber: 4.3 Consensus size: 118
61022255 TGTGATCGAT
* * * * ** *
61022265 GTTT-CAAGTGAATAATTGCAGTTGATTGGTTTGTGATTGCCAGAAAACCGAGTTTAGGGTGTTT
1 GTTTACAAGTGATTTATTGCAGTTGGTTGGTATGTGATTGCTGGAAAACCGAGTTTAGGGCGTTT
* * * *
61022329 GAGATATACATATAGGAGTGAAGATTTCAGTCTT-CAACTGTTGGTGAGTTCA
66 GAGATATACATATAGGAGTGAAGATTTTAGTCTTGAAACAGTCGGTGAGTTCA
* * * * * *
61022381 GTTTACGAGTGATTTACTGCATTTGGTTGGTACGTGGTTGCTGGAAAACTGAGTTTAGGGCGTTT
1 GTTTACAAGTGATTTATTGCAGTTGGTTGGTATGTGATTGCTGGAAAACCGAGTTTAGGGCGTTT
* * *
61022446 GAGATATACATATAGGAGTGAGGATTTTAGTCTCGAAACA-TCGGTCAGTTCA
66 GAGATATACATATAGGAGTGAAGATTTTAGTCTTGAAACAGTCGGTGAGTTCA
* * * *
61022498 GTTTTCAAGTGAATTATTGCAGTTGGTTGGTAAGTGATTGCTGGAAAACCGAGTTTAGGGCATTT
1 GTTTACAAGTGATTTATTGCAGTTGGTTGGTATGTGATTGCTGGAAAACCGAGTTTAGGGCGTTT
** * *
61022563 GAGAT-TAACGCATAGGAGTTAAGATTTTAGTCTTGAAAC-GTCGGTGAGTTCG
66 GAGATAT-ACATATAGGAGTGAAGATTTTAGTCTTGAAACAGTCGGTGAGTTCA
* * * * *
61022615 GTTTACGAGTGAGTTTTTTGCAGTTGGTTGGTATGTGATTGCTGGAAAACCAAGTTTATGGTGTT
1 GTTTACAAGTGA-TTTATTGCAGTTGGTTGGTATGTGATTGCTGGAAAACCGAGTTTAGGGCGTT
* ** * * *
61022680 TGAGATTTATGTATGGGAGTGAAGATTTTAGTCTTG-AACAGTTGGTGAGCTT-G
65 TGAGATATACATATAGGAGTGAAGATTTTAGTCTTGAAACAGTCGGTGAG-TTCA
* * **
61022733 GTTTACAAGTGAGTTTTTTTCAGTTGGTTTTTATGTGATTG
1 GTTTACAAGTGA-TTTATTGCAGTTGGTTGGTATGTGATTG
61022774 TTGGGAACTG
Statistics
Matches: 331, Mismatches: 54, Indels: 14
0.83 0.14 0.04
Matches are distributed among these distances:
116 5 0.02
117 199 0.60
118 124 0.37
119 3 0.01
ACGTcount: A:0.25, C:0.09, G:0.29, T:0.37
Consensus pattern (118 bp):
GTTTACAAGTGATTTATTGCAGTTGGTTGGTATGTGATTGCTGGAAAACCGAGTTTAGGGCGTTT
GAGATATACATATAGGAGTGAAGATTTTAGTCTTGAAACAGTCGGTGAGTTCA
Found at i:61032788 original size:26 final size:27
Alignment explanation
Indices: 61032742--61032809 Score: 93
Period size: 26 Copynumber: 2.5 Consensus size: 27
61032732 TTGAATATAA
*
61032742 TAAATATATTTTTTTAATTTTTTAATTT
1 TAAA-ATAATTTTTTAATTTTTTAATTT
* *
61032770 TAAAATACTTTTTT-ATTTTTTATTTT
1 TAAAATAATTTTTTAATTTTTTAATTT
61032796 TAAAATAATTTTTT
1 TAAAATAATTTTTT
61032810 GGTGTTTATT
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
26 24 0.65
27 9 0.24
28 4 0.11
ACGTcount: A:0.32, C:0.01, G:0.00, T:0.66
Consensus pattern (27 bp):
TAAAATAATTTTTTAATTTTTTAATTT
Found at i:61032817 original size:26 final size:26
Alignment explanation
Indices: 61032762--61032819 Score: 71
Period size: 26 Copynumber: 2.2 Consensus size: 26
61032752 TTTTTAATTT
* * * *
61032762 TTTAATTTTAAAATACTTTTTTATTT
1 TTTATTTTTAAAATAATTTTTTAGTG
*
61032788 TTTATTTTTAAAATAATTTTTTGGTG
1 TTTATTTTTAAAATAATTTTTTAGTG
61032814 TTTATT
1 TTTATT
61032820 AAAAATGGGT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.28, C:0.02, G:0.05, T:0.66
Consensus pattern (26 bp):
TTTATTTTTAAAATAATTTTTTAGTG
Found at i:61042913 original size:20 final size:19
Alignment explanation
Indices: 61042888--61042929 Score: 59
Period size: 20 Copynumber: 2.2 Consensus size: 19
61042878 TTTTGAGCAA
61042888 TTTAATTTTTCTTT-TATTTT
1 TTTAATTTTT-TTTCT-TTTT
61042908 TTTAATTTTTTTTCTTTTT
1 TTTAATTTTTTTTCTTTTT
61042927 TTT
1 TTT
61042930 CCATTCTCTT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 10 0.48
20 11 0.52
ACGTcount: A:0.12, C:0.05, G:0.00, T:0.83
Consensus pattern (19 bp):
TTTAATTTTTTTTCTTTTT
Found at i:61048386 original size:21 final size:20
Alignment explanation
Indices: 61048338--61048386 Score: 55
Period size: 21 Copynumber: 2.5 Consensus size: 20
61048328 TGTAAAAAAA
*
61048338 TCTTTA-AAAATTTACAAAG
1 TCTTTACAAAATTTACAAAC
*
61048357 TCTTAACAAAATTTATCAAAC
1 TCTTTACAAAATTTA-CAAAC
*
61048378 TTTTTACAA
1 TCTTTACAA
61048387 GGCTTTCTTT
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
19 5 0.21
20 8 0.33
21 11 0.46
ACGTcount: A:0.45, C:0.14, G:0.02, T:0.39
Consensus pattern (20 bp):
TCTTTACAAAATTTACAAAC
Found at i:61049639 original size:7 final size:7
Alignment explanation
Indices: 61049582--61049646 Score: 53
Period size: 7 Copynumber: 9.4 Consensus size: 7
61049572 TTTAGAAATT
61049582 TAATAAA
1 TAATAAA
* *
61049589 AAATAAT
1 TAATAAA
*
61049596 TATTAAA
1 TAATAAA
*
61049603 TATTAAA
1 TAATAAA
61049610 TAAT-AA
1 TAATAAA
61049616 TAAT-AA
1 TAATAAA
**
61049622 TAATATT
1 TAATAAA
61049629 TAATAAA
1 TAATAAA
61049636 TAATAATA
1 TAATAA-A
61049644 TAA
1 TAA
61049647 GGTACCTAAA
Statistics
Matches: 46, Mismatches: 10, Indels: 3
0.78 0.17 0.05
Matches are distributed among these distances:
6 12 0.26
7 30 0.65
8 4 0.09
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (7 bp):
TAATAAA
Found at i:61049639 original size:17 final size:16
Alignment explanation
Indices: 61049613--61049644 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
61049603 TATTAAATAA
61049613 TAATAATAATAATATT
1 TAATAATAATAATATT
61049629 TAATAAATAATAATAT
1 TAAT-AATAATAATAT
61049645 AAGGTACCTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (16 bp):
TAATAATAATAATATT
Found at i:61049944 original size:12 final size:13
Alignment explanation
Indices: 61049927--61049956 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
61049917 AGTTTTTAGT
61049927 TTAGA-TCTACTA
1 TTAGATTCTACTA
61049939 TTAGATTCTACTA
1 TTAGATTCTACTA
61049952 TTAGA
1 TTAGA
61049957 GCTTGTGCTC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 5 0.29
13 12 0.71
ACGTcount: A:0.33, C:0.13, G:0.10, T:0.43
Consensus pattern (13 bp):
TTAGATTCTACTA
Found at i:61051426 original size:37 final size:39
Alignment explanation
Indices: 61051343--61051476 Score: 116
Period size: 39 Copynumber: 3.4 Consensus size: 39
61051333 ACCAGAATGG
* *
61051343 CACCCAGTGCCTCATCGGATAGTTCGAAGCAATAGTTGA
1 CACCCAGTGCCTCATCGGAAAGTCCGAAGCAATAGTTGA
*
61051382 CACCCAGTGTCTCATCGGCAAAG-CCGAAG-AA-AGTTGA
1 CACCCAGTGCCTCATCGG-AAAGTCCGAAGCAATAGTTGA
* * * *
61051419 TACCCAGTACCTCATCGGATCTA-TCCGAAGAAATA-TAATGA
1 CACCCAGTGCCTCATCGGA--AAGTCCGAAGCAATAGT--TGA
*
61051460 CACCCAGTGTCTCATCG
1 CACCCAGTGCCTCATCG
61051477 ACTCGAGGTC
Statistics
Matches: 77, Mismatches: 10, Indels: 14
0.76 0.10 0.14
Matches are distributed among these distances:
36 1 0.01
37 21 0.27
38 9 0.12
39 25 0.32
40 4 0.05
41 17 0.22
ACGTcount: A:0.31, C:0.28, G:0.20, T:0.22
Consensus pattern (39 bp):
CACCCAGTGCCTCATCGGAAAGTCCGAAGCAATAGTTGA
Found at i:61051648 original size:23 final size:24
Alignment explanation
Indices: 61051604--61051649 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 24
61051594 TTTCTCACAT
* **
61051604 TTTCAATTCAATCATTTTTCCACC
1 TTTCAATTCAATAATTAATCCACC
61051628 TTTCAA-TCAATAATTAATCCAC
1 TTTCAATTCAATAATTAATCCAC
61051650 AATTCACACA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
23 13 0.68
24 6 0.32
ACGTcount: A:0.33, C:0.26, G:0.00, T:0.41
Consensus pattern (24 bp):
TTTCAATTCAATAATTAATCCACC
Found at i:61051801 original size:3 final size:3
Alignment explanation
Indices: 61051793--61051855 Score: 126
Period size: 3 Copynumber: 21.0 Consensus size: 3
61051783 CCACTCATTT
61051793 TAA 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 TAA
61051841 TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA
61051856 CAACAACAAC
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 60 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:61052836 original size:9 final size:9
Alignment explanation
Indices: 61052818--61052858 Score: 50
Period size: 8 Copynumber: 4.8 Consensus size: 9
61052808 TTGGTTTATT
61052818 TAATAATAA
1 TAATAATAA
*
61052827 TAATAGTAA
1 TAATAATAA
61052836 TAATAAT-A
1 TAATAATAA
*
61052844 TAAAAAT-A
1 TAATAATAA
61052852 TAATAAT
1 TAATAAT
61052859 GTTTAATAAT
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
8 14 0.50
9 14 0.50
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.34
Consensus pattern (9 bp):
TAATAATAA
Found at i:61052868 original size:3 final size:3
Alignment explanation
Indices: 61052818--61052858 Score: 50
Period size: 3 Copynumber: 14.3 Consensus size: 3
61052808 TTGGTTTATT
* *
61052818 TAA TAA TAA TAA TAG TAA TAA TAA T-A TAA AAA T-A TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
61052859 GTTTAATAAT
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
2 4 0.12
3 28 0.88
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:61055023 original size:17 final size:17
Alignment explanation
Indices: 61054996--61055041 Score: 56
Period size: 17 Copynumber: 2.7 Consensus size: 17
61054986 CCGATATAAT
* * *
61054996 AAATATATTTATTTTTT
1 AAATATTTTTAATTTTA
*
61055013 AAATTTTTTTAATTTTA
1 AAATATTTTTAATTTTA
61055030 AAATATTTTTAA
1 AAATATTTTTAA
61055042 AATACTTTTT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
17 24 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (17 bp):
AAATATTTTTAATTTTA
Found at i:61055073 original size:21 final size:21
Alignment explanation
Indices: 61055034--61055073 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
61055024 ATTTTAAAAT
***
61055034 ATTTTTAAAATACTTTTTTTA
1 ATTTTTAAAATAAAGTTTTTA
61055055 ATTTTTAAAATAAAGTTTT
1 ATTTTTAAAATAAAGTTTT
61055074 GGTATTTATT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.38, C:0.03, G:0.03, T:0.57
Consensus pattern (21 bp):
ATTTTTAAAATAAAGTTTTTA
Found at i:61058929 original size:27 final size:28
Alignment explanation
Indices: 61058871--61058932 Score: 72
Period size: 27 Copynumber: 2.2 Consensus size: 28
61058861 TTTAAAAAAA
* * * *
61058871 ATTTAAATAAAGTTTTAAATGGAAATTTT
1 ATTTAAATAAAG-TTAAAATAGAAAATAT
61058900 ATTTAAATAAA-TTAAAATAGAAAATAT
1 ATTTAAATAAAGTTAAAATAGAAAATAT
61058927 ATTTAA
1 ATTTAA
61058933 TTTGACATTT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
27 18 0.62
29 11 0.38
ACGTcount: A:0.53, C:0.00, G:0.06, T:0.40
Consensus pattern (28 bp):
ATTTAAATAAAGTTAAAATAGAAAATAT
Found at i:61059438 original size:18 final size:19
Alignment explanation
Indices: 61059405--61059452 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 19
61059395 AAAAAAATAT
*
61059405 TTTTTTAAA-ATAATAATAA
1 TTTTTTAAAGATAATTAT-A
61059424 TTTTGTTAAAGATAATTATA
1 TTTT-TTAAAGATAATTATA
61059444 TTTTTTAAA
1 TTTTTTAAA
61059453 AAATAAAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
19 9 0.35
20 10 0.38
21 7 0.27
ACGTcount: A:0.44, C:0.00, G:0.04, T:0.52
Consensus pattern (19 bp):
TTTTTTAAAGATAATTATA
Found at i:61059448 original size:21 final size:19
Alignment explanation
Indices: 61059400--61059458 Score: 68
Period size: 19 Copynumber: 3.1 Consensus size: 19
61059390 CTGGAAAAAA
61059400 AATATTTTTTTAAAATAAT
1 AATATTTTTTTAAAATAAT
*
61059419 AATAATTTTGTTAAAGATAAT
1 AAT-ATTTTTTTAAA-ATAAT
*
61059440 TATA-TTTTTTAAAA-AAT
1 AATATTTTTTTAAAATAAT
61059457 AA
1 AA
61059459 AAAATAATTT
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
17 4 0.12
18 1 0.03
19 11 0.32
20 11 0.32
21 7 0.21
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.47
Consensus pattern (19 bp):
AATATTTTTTTAAAATAAT
Found at i:61062437 original size:18 final size:18
Alignment explanation
Indices: 61062414--61062448 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
61062404 TAAATAAATT
*
61062414 TTCTTTTTGATTTTTGTG
1 TTCTTTTTCATTTTTGTG
61062432 TTCTTTTTCATTTTTGT
1 TTCTTTTTCATTTTTGT
61062449 CATTTAAAAT
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:0.06, C:0.09, G:0.11, T:0.74
Consensus pattern (18 bp):
TTCTTTTTCATTTTTGTG
Found at i:61069193 original size:58 final size:58
Alignment explanation
Indices: 61069085--61069194 Score: 148
Period size: 58 Copynumber: 1.9 Consensus size: 58
61069075 TTAATATAAC
* * ***
61069085 ATTTAGTATCTGAACTTTACACTTTTTTCTAATTTGGTACCAACTTTTTTTTAGCCCA
1 ATTTAGTACCTGAACTTGACACTTTTTTCTAATTTGGTACCAAAACTTTTTTAGCCCA
* * *
61069143 ATTTGGTACCTGAACTTGACACTTTTTTGTAATTTGGTATCAAAACTTTTTT
1 ATTTAGTACCTGAACTTGACACTTTTTTCTAATTTGGTACCAAAACTTTTTT
61069195 GGGGCCTAAT
Statistics
Matches: 44, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
58 44 1.00
ACGTcount: A:0.25, C:0.16, G:0.11, T:0.48
Consensus pattern (58 bp):
ATTTAGTACCTGAACTTGACACTTTTTTCTAATTTGGTACCAAAACTTTTTTAGCCCA
Found at i:61071920 original size:2 final size:2
Alignment explanation
Indices: 61071913--61071940 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
61071903 GCATGTGTCT
61071913 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
61071941 ACAAATTAGT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:61074152 original size:39 final size:38
Alignment explanation
Indices: 61074103--61074211 Score: 128
Period size: 38 Copynumber: 2.8 Consensus size: 38
61074093 TGTTGTGGGC
61074103 ATGCCATAAGTCCCTGTACCTTTTTGTAAATTTATCATT
1 ATGCCATAAGTCCCTGTA-CTTTTTGTAAATTTATCATT
* * * **
61074142 ATGTCATAAGTCCTTGTACTTTTTGTAATTTTATTTTT
1 ATGCCATAAGTCCCTGTACTTTTTGTAAATTTATCATT
* ** *
61074180 ATGCCATAAATTTCTGTATTTTTTGTAAATTT
1 ATGCCATAAGTCCCTGTACTTTTTGTAAATTT
61074212 GTCCTTTATT
Statistics
Matches: 58, Mismatches: 12, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
38 42 0.72
39 16 0.28
ACGTcount: A:0.25, C:0.14, G:0.10, T:0.51
Consensus pattern (38 bp):
ATGCCATAAGTCCCTGTACTTTTTGTAAATTTATCATT
Found at i:61093395 original size:51 final size:51
Alignment explanation
Indices: 61093319--61093421 Score: 197
Period size: 51 Copynumber: 2.0 Consensus size: 51
61093309 AACTATCTAT
61093319 AGCCCCTCTCCAACCCTTAAATAGAAGGATAATGCGCTTTAGCCCACTCGA
1 AGCCCCTCTCCAACCCTTAAATAGAAGGATAATGCGCTTTAGCCCACTCGA
*
61093370 AGCCCCTCTCCAACCCTTAAATAGAAGGATAATGCGTTTTAGCCCACTCGA
1 AGCCCCTCTCCAACCCTTAAATAGAAGGATAATGCGCTTTAGCCCACTCGA
61093421 A
1 A
61093422 CCAGCGTCCT
Statistics
Matches: 51, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
51 51 1.00
ACGTcount: A:0.30, C:0.32, G:0.16, T:0.22
Consensus pattern (51 bp):
AGCCCCTCTCCAACCCTTAAATAGAAGGATAATGCGCTTTAGCCCACTCGA
Found at i:61094116 original size:30 final size:30
Alignment explanation
Indices: 61094082--61094141 Score: 111
Period size: 30 Copynumber: 2.0 Consensus size: 30
61094072 TTTGGGGTCC
*
61094082 GAGGTTGGACAATAATGTTGTCCCTAAAGT
1 GAGGTTGGACAATAATATTGTCCCTAAAGT
61094112 GAGGTTGGACAATAATATTGTCCCTAAAGT
1 GAGGTTGGACAATAATATTGTCCCTAAAGT
61094142 TTGAACTTAA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.32, C:0.13, G:0.25, T:0.30
Consensus pattern (30 bp):
GAGGTTGGACAATAATATTGTCCCTAAAGT
Found at i:61096257 original size:39 final size:39
Alignment explanation
Indices: 61096212--61096291 Score: 117
Period size: 40 Copynumber: 2.1 Consensus size: 39
61096202 ATAAAATAAC
* *
61096212 AAAAA-CCTAACCTTTATCTAAATAAACATTTTTTATTAA
1 AAAAACCCTAACATTTATCTAAATAAACAATTTTT-TTAA
*
61096251 AAAAACCCTAACATTTGTCTAAATAAACAATTTTTTTAA
1 AAAAACCCTAACATTTATCTAAATAAACAATTTTTTTAA
61096290 AA
1 AA
61096292 TATAATCAAA
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
39 11 0.30
40 26 0.70
ACGTcount: A:0.47, C:0.15, G:0.01, T:0.36
Consensus pattern (39 bp):
AAAAACCCTAACATTTATCTAAATAAACAATTTTTTTAA
Found at i:61096410 original size:13 final size:13
Alignment explanation
Indices: 61096359--61096411 Score: 52
Period size: 14 Copynumber: 3.9 Consensus size: 13
61096349 TATTTTTTGG
*
61096359 GTTTCGAGTTTAAA
1 GTTTAGAGTTT-AA
**
61096373 GTTTATTGTTTAA
1 GTTTAGAGTTTAA
61096386 GATTTAGAGTTTAA
1 G-TTTAGAGTTTAA
*
61096400 GTTTAGGGTTTA
1 GTTTAGAGTTTA
61096412 TGGTTATATC
Statistics
Matches: 32, Mismatches: 6, Indels: 3
0.78 0.15 0.07
Matches are distributed among these distances:
13 13 0.41
14 19 0.59
ACGTcount: A:0.26, C:0.02, G:0.23, T:0.49
Consensus pattern (13 bp):
GTTTAGAGTTTAA
Found at i:61096620 original size:22 final size:23
Alignment explanation
Indices: 61096590--61096638 Score: 57
Period size: 22 Copynumber: 2.2 Consensus size: 23
61096580 TATTTTTTTT
*
61096590 AAATATTTAT-AAAAAATACTTTA
1 AAATATTTATCAAAAAATA-TTCA
*
61096613 AAAT-TTTATCAAATAATATTCA
1 AAATATTTATCAAAAAATATTCA
61096635 AAAT
1 AAAT
61096639 CCATAAAACA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
22 12 0.52
23 11 0.48
ACGTcount: A:0.55, C:0.06, G:0.00, T:0.39
Consensus pattern (23 bp):
AAATATTTATCAAAAAATATTCA
Found at i:61099528 original size:10 final size:9
Alignment explanation
Indices: 61099489--61099618 Score: 51
Period size: 9 Copynumber: 14.7 Consensus size: 9
61099479 ACATGTGACA
*
61099489 AAAAATGAT
1 AAAAATTAT
61099498 AAAAA--AT
1 AAAAATTAT
*
61099505 AAAAATCAAT
1 AAAAAT-TAT
*
61099515 AAAAGTTAT
1 AAAAATTAT
61099524 AAAAATTAT
1 AAAAATTAT
* *
61099533 -TAAATTTT
1 AAAAATTAT
*
61099541 AAAAAATATTT
1 -AAAAAT-TAT
*
61099552 AAAAGTTAT
1 AAAAATTAT
*
61099561 TAAAATTA-
1 AAAAATTAT
*
61099569 GAAAA--A-
1 AAAAATTAT
*
61099575 AAAAGTTAT
1 AAAAATTAT
61099584 AAAAATCGTA-
1 AAAAAT--TAT
61099594 AAAAATTAT
1 AAAAATTAT
61099603 AAAAATATAT
1 AAAAAT-TAT
*
61099613 AGAAAT
1 AAAAAT
61099619 ATAGAAAAAA
Statistics
Matches: 93, Mismatches: 15, Indels: 25
0.70 0.11 0.19
Matches are distributed among these distances:
6 4 0.04
7 7 0.08
8 13 0.14
9 34 0.37
10 30 0.32
11 5 0.05
ACGTcount: A:0.64, C:0.02, G:0.05, T:0.29
Consensus pattern (9 bp):
AAAAATTAT
Found at i:61099536 original size:19 final size:19
Alignment explanation
Indices: 61099503--61099568 Score: 64
Period size: 19 Copynumber: 3.5 Consensus size: 19
61099493 ATGATAAAAA
* *
61099503 ATAAAAATCAATAAAAGTT
1 ATAAAAATTATTAAAAGTT
61099522 ATAAAAATTATT-AAA-TT
1 ATAAAAATTATTAAAAGTT
* *
61099539 TTAAAAAATATTTAAAAGTT
1 ATAAAAATTA-TTAAAAGTT
*
61099559 ATTAAAATTA
1 ATAAAAATTA
61099569 GAAAAAAAAA
Statistics
Matches: 37, Mismatches: 7, Indels: 5
0.76 0.14 0.10
Matches are distributed among these distances:
17 10 0.27
18 5 0.14
19 13 0.35
20 9 0.24
ACGTcount: A:0.59, C:0.02, G:0.03, T:0.36
Consensus pattern (19 bp):
ATAAAAATTATTAAAAGTT
Found at i:61099596 original size:23 final size:23
Alignment explanation
Indices: 61099552--61099598 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 23
61099542 AAAAATATTT
*
61099552 AAAAGTTATTAAAATTAGAAAAA
1 AAAAGTTATTAAAAATAGAAAAA
* *
61099575 AAAAGTTA-TAAAAATCGTAAAA
1 AAAAGTTATTAAAAATAGAAAAA
61099597 AA
1 AA
61099599 TTATAAAAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
22 13 0.62
23 8 0.38
ACGTcount: A:0.66, C:0.02, G:0.09, T:0.23
Consensus pattern (23 bp):
AAAAGTTATTAAAAATAGAAAAA
Found at i:61100380 original size:186 final size:186
Alignment explanation
Indices: 61100066--61100618 Score: 915
Period size: 186 Copynumber: 3.0 Consensus size: 186
61100056 AAATATTTCT
61100066 ATTTTACAGACTCGATTTACGAAAATAAAGTTCCGAAACCATTAAAAATTGAGTCATTACAATTT
1 ATTTTACAGACTCGATTTACGAAAATAAAGTTCCGAAACCATTAAAAATTGAGTCATTACAATTT
* *
61100131 TAATCGAATTTCTAACATACAGAGAAATCATTTTACTCATTGTAAAAAGCATTAGGGACCAAAAT
66 TAATCGAATTTCTAACATACAGAAAAATCATTTTACTCACTGTAAAAAGCATTAGGGACCAAAAT
* *
61100196 ATAATACATGAGACGGGTACAATGATAAGAATAGGAGAAAGTGAGTGACAATAGCA
131 ATAATACATGAGACGGGTACAATAATAAGAATAGGAGAAAGTGAGTGACAAAAGCA
*
61100252 ATTTTACAGACTCGATTTACGAAAATAAAGTTCCGAAACCATTAAAAATTGAGCCATTACAATTT
1 ATTTTACAGACTCGATTTACGAAAATAAAGTTCCGAAACCATTAAAAATTGAGTCATTACAATTT
*
61100317 TAATCGAATTTCTAACATATAGAAAAATCATTTTACTCACTGTAAAAAGCATTAGGGACCAAAAT
66 TAATCGAATTTCTAACATACAGAAAAATCATTTTACTCACTGTAAAAAGCATTAGGGACCAAAAT
* *
61100382 ATAATACATGAGACGGGTACAATAATAAGAATAGGAGAAAGTAAGTTACAAAAGCA
131 ATAATACATGAGACGGGTACAATAATAAGAATAGGAGAAAGTGAGTGACAAAAGCA
* * * *
61100438 ATTTTACAGACTCAATTTACGAAAATAAAGTTCCGAAACCATTGAAAATTGAGTCGTTACAAATT
1 ATTTTACAGACTCGATTTACGAAAATAAAGTTCCGAAACCATTAAAAATTGAGTCATTACAATTT
* * *
61100503 TAGTCAAATTTCTAACATACAGAAAAATCATTTTACTCACTGTAAAAAGCATCAGGGACCAAAAT
66 TAATCGAATTTCTAACATACAGAAAAATCATTTTACTCACTGTAAAAAGCATTAGGGACCAAAAT
61100568 ATAATACAT-------G-ACAATAATAAGAATAGGAGAAAGTGAGTGACAAAAGCA
131 ATAATACATGAGACGGGTACAATAATAAGAATAGGAGAAAGTGAGTGACAAAAGCA
61100616 ATT
1 ATT
61100619 AGACAACCGT
Statistics
Matches: 348, Mismatches: 19, Indels: 8
0.93 0.05 0.02
Matches are distributed among these distances:
178 39 0.11
179 1 0.00
186 308 0.89
ACGTcount: A:0.45, C:0.14, G:0.15, T:0.26
Consensus pattern (186 bp):
ATTTTACAGACTCGATTTACGAAAATAAAGTTCCGAAACCATTAAAAATTGAGTCATTACAATTT
TAATCGAATTTCTAACATACAGAAAAATCATTTTACTCACTGTAAAAAGCATTAGGGACCAAAAT
ATAATACATGAGACGGGTACAATAATAAGAATAGGAGAAAGTGAGTGACAAAAGCA
Found at i:61102177 original size:333 final size:335
Alignment explanation
Indices: 61101364--61102791 Score: 1674
Period size: 333 Copynumber: 4.3 Consensus size: 335
61101354 TCTGCACATG
*
61101364 GGTGCTTGGATTCGGGTGTGAGTGT--ACACAGGTGAGTTCAAAAAGGGTATTTTC--TGTGTTA
1 GGTGCTTGGATTCGGGTGTGAGTGTGCACACA-GTGAGTTCAAAAAGGGTATTTTCTATGTATTA
* * * * * *
61101425 AGAGGATCTCTGGACGAT-AGTATTCCTATACTCGTGTTCAAGTTAGAGGTGTCTATGATTTAGA
65 AAAGGATCTTTGGAAGATCA-TATTCCTATACTTGTGTTCAAGTCAGAGGTGTCTATGAGTTAGA
* * * * *
61101489 CCTAG-TGAATGTGTAGTATCAACACTATATAGGTTTCATATTTTGGCCAAGTTCATTCTCAAGC
129 CCCAGCT-CATGTGTAGCATCAACACTATATAGGTCTCATATTTTGGCCAAGTTCATTCTCAGGC
* * * * *
61101553 TTAATATTTTTGTATAAATCTTCCCAAATA-CAGGGTGGGGCTTTGCACAAAGGTCCTTGGACAG
193 TTAATATTTTTGTCTAAACCTTCCCAAATACCA-GGTGGGGCTTTGCTCATAGGTCCTTGGACAA
* ** * *
61101617 GTCTAGTTCAAGTATGTGTCAGACATGATTACTGAAAGAAAAGCAAGGGGAAGCGATAGCTTTTT
257 GTCTAGTTCAAGTATGTGTCAGACACGATTACTTCAAGAAAAGCAA-GGGAAGTGTTAGCTTTTT
* *
61101682 GGCTCCGGGTGCTAA
321 GGCTTCGGGTGCTAT
* * * * * *
61101697 GGTACTTGGATTTGCGTGTGAGTGTGCACACAAGCGTGTTAAAAAAGGGTGTATTTTCTATGTAT
1 GGTGCTTGGATTCGGGTGTGAGTGTGCACAC-AGTGAGTTCAAAAA-GG-GTATTTTCTATGTAT
* * ** * ** * * * *
61101762 TAATAGGATCTCTGGAAGATCATATTGTTATA-TTCGTGATCGGGTCTGAGGTGTCTAGGAGATG
63 TAAAAGGATCTTTGGAAGATCATATTCCTATACTT-GTGTTCAAGTCAGAGGTGTCTATGAGTTA
*
61101826 GA-CCAGGCTCATGTGTAGCATCAACACTACATAGGTCTCATATTTTGGCCAAGTTCATTCTCAG
127 GACCCA-GCTCATGTGTAGCATCAACACTATATAGGTCTCATATTTTGGCCAAGTTCATTCTCAG
* * * *
61101890 GCTTTATA-TTATGTCTAAACCTTCCCAAATACCAGGTGGAGCTTTGCTCATGGGTCCTTGGACA
191 GCTTAATATTTTTGTCTAAACCTTCCCAAATACCAGGTGGGGCTTTGCTCATAGGTCCTTGGACA
* * * *
61101954 AGTCTAGTACAAGTATGTGTCAGACACGATTA-TTGAAGAAAAG-AGGGGAAGTGTTAACTTTTT
256 AGTCTAGTTCAAGTATGTGTCAGACACGATTACTTCAAGAAAAGCAAGGGAAGTGTTAGCTTTTT
* * *
61102017 TGCTTCGGGAGATAT
321 GGCTTCGGGTGCTAT
* * *
61102032 GGTGCTTGGGTTCGGGTGTGAGTGTGTACACGAGTGAGGTCAAAAAGGGTATTTTCTATGTATTA
1 GGTGCTTGGATTCGGGTGTGAGTGTGCACAC-AGTGAGTTCAAAAAGGGTATTTTCTATGTATTA
* * *** *
61102097 AAAAGATCTTTGGAAGATCATATTCCGATACTTGTGTTTGGGTCAGAGGTGTCTATGAGTTGGAC
65 AAAGGATCTTTGGAAGATCATATTCCTATACTTGTGTTCAAGTCAGAGGTGTCTATGAGTTAGAC
* * ***
61102162 CCAGCTCATGTGTAGCATTAACACTATATAGGTCTCATGTTTCCACCAAGTTCATTCTCAGGCTT
130 CCAGCTCATGTGTAGCATCAACACTATATAGGTCTCATATTTTGGCCAAGTTCATTCTCAGGCTT
* * * ** * * *
61102227 GATATTTTTGTCTAAACCTTCTCGAATACTGGGTAGGGCTTTGGTCATGGGTCCTTGGA-AAGGT
195 AATATTTTTGTCTAAACCTTCCCAAATACCAGGTGGGGCTTTGCTCATAGGTCCTTGGACAA-GT
* *
61102291 CTAGTTCAAGTATGTGTCAGACACAATTACTTCAAGAAAAGCAAAGGTAAGTGTTAGCTTTTTGG
259 CTAGTTCAAGTATGTGTCAGACACGATTACTTCAAGAAAAGC-AAGGGAAGTGTTAGCTTTTTGG
* *
61102356 CTTCGAGTGTTAT
323 CTTCGGGTGCTAT
* * * *
61102369 GGTGCTTGGATTCGGGTGTCAGTGTGCACACGGGTGTGTTC-GAAAGGGTATTTTCTATGTATTA
1 GGTGCTTGGATTCGGGTGTGAGTGTGCACAC-AGTGAGTTCAAAAAGGGTATTTTCTATGTATTA
* * * * * *
61102433 AGAGGAT-TTT--TAGATCATATTCCTATACTAGTGTTCAAATCAAAGGTATCTATGAGTTAGAC
65 AAAGGATCTTTGGAAGATCATATTCCTATACTTGTGTTCAAGTCAGAGGTGTCTATGAGTTAGAC
* * * *
61102495 CAAGCTCATATGTAGCATCAACACTATATAGGTCTCATATTTTGGCCAAGTTCATTATCAGGCCT
130 CCAGCTCATGTGTAGCATCAACACTATATAGGTCTCATATTTTGGCCAAGTTCATTCTCAGGCTT
61102560 AATATTTTTGTCTAAACCTTCCCAAATACC-GGTGGGGCTTTG-TACATAGGTCCTTGGACAAGT
195 AATATTTTTGTCTAAACCTTCCCAAATACCAGGTGGGGCTTTGCT-CATAGGTCCTTGGACAAGT
*
61102623 CTAGTTCAAGTATGTGT-TGTACACGATTACTTCAAGAAAAGCAAGGGAAGTGTTAGCTTTTTGG
259 CTAGTTCAAGTATGTGTCAG-ACACGATTACTTCAAGAAAAGCAAGGGAAGTGTTAGCTTTTTGG
61102687 CTTCGGGTGCTAT
323 CTTCGGGTGCTAT
* *
61102700 GGTGCTTGGATTCAGGTGTGAGTGTGCACACAG-GAGTGTTCGAAAAGGGTATTTTCTATGTATT
1 GGTGCTTGGATTCGGGTGTGAGTGTGCACACAGTGA--GTTCAAAAAGGGTATTTTCTATGTATT
*
61102764 AAAAGGATCTTTGAAAGATCATATTCCT
64 AAAAGGATCTTTGGAAGATCATATTCCT
61102792 GTAATCATGT
Statistics
Matches: 926, Mismatches: 141, Indels: 54
0.83 0.13 0.05
Matches are distributed among these distances:
329 1 0.00
330 1 0.00
331 67 0.07
332 92 0.10
333 279 0.30
334 82 0.09
335 101 0.11
336 31 0.03
337 80 0.09
338 78 0.08
339 112 0.12
340 2 0.00
ACGTcount: A:0.26, C:0.15, G:0.25, T:0.33
Consensus pattern (335 bp):
GGTGCTTGGATTCGGGTGTGAGTGTGCACACAGTGAGTTCAAAAAGGGTATTTTCTATGTATTAA
AAGGATCTTTGGAAGATCATATTCCTATACTTGTGTTCAAGTCAGAGGTGTCTATGAGTTAGACC
CAGCTCATGTGTAGCATCAACACTATATAGGTCTCATATTTTGGCCAAGTTCATTCTCAGGCTTA
ATATTTTTGTCTAAACCTTCCCAAATACCAGGTGGGGCTTTGCTCATAGGTCCTTGGACAAGTCT
AGTTCAAGTATGTGTCAGACACGATTACTTCAAGAAAAGCAAGGGAAGTGTTAGCTTTTTGGCTT
CGGGTGCTAT
Found at i:61107056 original size:2 final size:2
Alignment explanation
Indices: 61107049--61107085 Score: 56
Period size: 2 Copynumber: 18.5 Consensus size: 2
61107039 AAGCAACATC
* *
61107049 AT AT AT AT AT AT AT AT AT AT AT AT AC AC AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
61107086 CCACAAAAGG
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.05, G:0.00, T:0.43
Consensus pattern (2 bp):
AT
Found at i:61112506 original size:23 final size:23
Alignment explanation
Indices: 61112478--61112528 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 23
61112468 TAGTATTAAT
*
61112478 AATAATATCA-TAATAATAAAATA
1 AATAATATCACTAA-AATAAAAAA
*
61112501 AATAATGTCACTTAAAATAAAAAA
1 AATAATATCAC-TAAAATAAAAAA
61112525 AATA
1 AATA
61112529 TATAAAAAGA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
23 9 0.38
24 12 0.50
25 3 0.12
ACGTcount: A:0.65, C:0.06, G:0.02, T:0.27
Consensus pattern (23 bp):
AATAATATCACTAAAATAAAAAA
Found at i:61112734 original size:19 final size:19
Alignment explanation
Indices: 61112700--61112736 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
61112690 ATATGTGAAA
**
61112700 AAACAAATAAGTAATAAAT
1 AAACAAATAAAAAATAAAT
61112719 AAACAAATAAAAAATAAA
1 AAACAAATAAAAAATAAA
61112737 AAAAATTGTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.76, C:0.05, G:0.03, T:0.16
Consensus pattern (19 bp):
AAACAAATAAAAAATAAAT
Found at i:61117237 original size:47 final size:47
Alignment explanation
Indices: 61117168--61117290 Score: 185
Period size: 47 Copynumber: 2.6 Consensus size: 47
61117158 CGTTTGTAGG
61117168 ACAACCGAACATCGAAAACATTATATGAGGTACCAGAAGCATGGACT
1 ACAACCGAACATCGAAAACATTATATGAGGTACCAGAAGCATGGACT
* * *
61117215 ACAACTGAACCA-CGAAAACATTATATGAGGTGCTAGAAGCATGGACT
1 ACAACCGAA-CATCGAAAACATTATATGAGGTACCAGAAGCATGGACT
* *
61117262 ACAACCGAACATTGAAAACATTTTATGAG
1 ACAACCGAACATCGAAAACATTATATGAG
61117291 ATCAATAGAA
Statistics
Matches: 68, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
46 2 0.03
47 64 0.94
48 2 0.03
ACGTcount: A:0.42, C:0.20, G:0.19, T:0.20
Consensus pattern (47 bp):
ACAACCGAACATCGAAAACATTATATGAGGTACCAGAAGCATGGACT
Found at i:61122470 original size:2 final size:2
Alignment explanation
Indices: 61122463--61122501 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
61122453 AGCTTTTAAC
61122463 TA TA TA 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 TA TA TA T
61122502 NNNNNNNNNN
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:61127411 original size:20 final size:20
Alignment explanation
Indices: 61127383--61127422 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
61127373 AACCAACCTT
* *
61127383 GGGTTATTGGGTTGGGTTTA
1 GGGTCATTGGGTTGAGTTTA
61127403 GGGTCATTGGGTTGAGTTTA
1 GGGTCATTGGGTTGAGTTTA
61127423 TATGGTTATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.12, C:0.03, G:0.42, T:0.42
Consensus pattern (20 bp):
GGGTCATTGGGTTGAGTTTA
Found at i:61130370 original size:20 final size:20
Alignment explanation
Indices: 61130332--61130370 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
61130322 TGCAAAGAAA
*
61130332 AAAATAAAACAAAATAAGAG
1 AAAATAAAACAAAAGAAGAG
61130352 AAAATAAAA-AACAAGAAGA
1 AAAATAAAACAA-AAGAAGA
61130371 AATAGTAAGG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 2 0.12
20 15 0.88
ACGTcount: A:0.77, C:0.05, G:0.10, T:0.08
Consensus pattern (20 bp):
AAAATAAAACAAAAGAAGAG
Found at i:61135277 original size:2 final size:2
Alignment explanation
Indices: 61135270--61135294 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
61135260 ATTTTGTAAT
61135270 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
61135295 TTGTAGGAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:61138725 original size:34 final size:35
Alignment explanation
Indices: 61138680--61138747 Score: 102
Period size: 34 Copynumber: 2.0 Consensus size: 35
61138670 CCAGTAAAAT
*
61138680 ATTTTCCGTAAAATGATTT-CGGGAAAATGTTTTA
1 ATTTTCCGTAAAATGATTTACGGGAAAATATTTTA
* *
61138714 ATTTTCTGTAAAATGATTTACTGGAAAATATTTT
1 ATTTTCCGTAAAATGATTTACGGGAAAATATTTT
61138748 CTGGTGTTTG
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 18 0.60
35 12 0.40
ACGTcount: A:0.34, C:0.07, G:0.15, T:0.44
Consensus pattern (35 bp):
ATTTTCCGTAAAATGATTTACGGGAAAATATTTTA
Found at i:61138751 original size:14 final size:15
Alignment explanation
Indices: 61138714--61138751 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
61138704 AAATGTTTTA
*
61138714 ATTTTCTGTAAAATG
1 ATTTTCTGGAAAATG
*
61138729 ATTTACTGGAAAAT-
1 ATTTTCTGGAAAATG
61138743 ATTTTCTGG
1 ATTTTCTGG
61138752 TGTTTGATTG
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
14 8 0.40
15 12 0.60
ACGTcount: A:0.32, C:0.08, G:0.16, T:0.45
Consensus pattern (15 bp):
ATTTTCTGGAAAATG
Found at i:61139595 original size:11 final size:11
Alignment explanation
Indices: 61139558--61139596 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
61139548 CAATAACAAT
61139558 AAAATAATAGC
1 AAAATAATAGC
*
61139569 AATATAATAGC
1 AAAATAATAGC
* *
61139580 GAAATGATAGC
1 AAAATAATAGC
61139591 AAAATA
1 AAAATA
61139597 GTAAAAAAAA
Statistics
Matches: 22, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
11 22 1.00
ACGTcount: A:0.59, C:0.08, G:0.13, T:0.21
Consensus pattern (11 bp):
AAAATAATAGC
Found at i:61139658 original size:23 final size:23
Alignment explanation
Indices: 61139632--61139675 Score: 79
Period size: 23 Copynumber: 1.9 Consensus size: 23
61139622 TTTTAGGTGG
*
61139632 CAAATTCGGGCTTATATTTTTTT
1 CAAATTCGGACTTATATTTTTTT
61139655 CAAATTCGGACTTATATTTTT
1 CAAATTCGGACTTATATTTTT
61139676 ACTCAAACCC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.25, C:0.14, G:0.11, T:0.50
Consensus pattern (23 bp):
CAAATTCGGACTTATATTTTTTT
Found at i:61139681 original size:24 final size:23
Alignment explanation
Indices: 61139632--61139682 Score: 75
Period size: 23 Copynumber: 2.2 Consensus size: 23
61139622 TTTTAGGTGG
* *
61139632 CAAATTCGGGCTTATATTTTTTT
1 CAAATTCGGACTTATATTTTTCT
61139655 CAAATTCGGACTTATATTTTTACT
1 CAAATTCGGACTTATATTTTT-CT
61139679 CAAA
1 CAAA
61139683 CCCACTCTCA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
23 20 0.80
24 5 0.20
ACGTcount: A:0.29, C:0.16, G:0.10, T:0.45
Consensus pattern (23 bp):
CAAATTCGGACTTATATTTTTCT
Found at i:61141053 original size:44 final size:44
Alignment explanation
Indices: 61141005--61141100 Score: 185
Period size: 44 Copynumber: 2.2 Consensus size: 44
61140995 TTTTAATGAT
61141005 ATATCAATTGTTTTCTAGGTATAATTATGCTAGAATAGTTATTA
1 ATATCAATTGTTTTCTAGGTATAATTATGCTAGAATAGTTATTA
61141049 ATATCAATTGTTTTCTAGGTATAATTATGCTAGAATAGTTATTA
1 ATATCAATTGTTTTCTAGGTATAATTATGCTAGAATAGTTATTA
61141093 ATAT-AATT
1 ATATCAATT
61141101 TTTATTATCA
Statistics
Matches: 52, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
43 4 0.08
44 48 0.92
ACGTcount: A:0.35, C:0.06, G:0.12, T:0.46
Consensus pattern (44 bp):
ATATCAATTGTTTTCTAGGTATAATTATGCTAGAATAGTTATTA
Done.