Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008935.1 Hibiscus syriacus cultivar Beakdansim tig00112253_pilon, whole genome shotgun sequence
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: 1775090
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 4 of 9
Found at i:794911 original size:20 final size:18
Alignment explanation
Indices: 794888--794934 Score: 58
Period size: 18 Copynumber: 2.5 Consensus size: 18
794878 GAGTATATAG
794888 TATATTATATTATTATATCA
1 TATATTATA-T-TTATATCA
* *
794908 TATAGTATATTTATATTA
1 TATATTATATTTATATCA
794926 TATATTATA
1 TATATTATA
794935 AACATACTAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
18 15 0.62
19 1 0.04
20 8 0.33
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.55
Consensus pattern (18 bp):
TATATTATATTTATATCA
Found at i:794916 original size:25 final size:25
Alignment explanation
Indices: 794882--794930 Score: 82
Period size: 25 Copynumber: 2.0 Consensus size: 25
794872 GATCTTGAGT
794882 ATATAGTATA-TTATATTATTATATC
1 ATATAGTATATTTATATTA-TATATC
794907 ATATAGTATATTTATATTATATAT
1 ATATAGTATATTTATATTATATAT
794931 TATAAACATA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
25 15 0.65
26 8 0.35
ACGTcount: A:0.41, C:0.02, G:0.04, T:0.53
Consensus pattern (25 bp):
ATATAGTATATTTATATTATATATC
Found at i:794929 original size:13 final size:14
Alignment explanation
Indices: 794888--794934 Score: 51
Period size: 13 Copynumber: 3.1 Consensus size: 14
794878 GAGTATATAG
794888 TATATTATATTATTA
1 TATATTATA-TATTA
794903 TATCATATAGTATATT-
1 TAT-AT-TA-TATATTA
794919 TATATTATATATTA
1 TATATTATATATTA
794933 TA
1 TA
794935 AACATACTAT
Statistics
Matches: 28, Mismatches: 0, Indels: 9
0.76 0.00 0.24
Matches are distributed among these distances:
13 6 0.21
14 4 0.14
15 5 0.18
16 5 0.18
17 6 0.21
18 2 0.07
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.55
Consensus pattern (14 bp):
TATATTATATATTA
Found at i:796345 original size:6 final size:6
Alignment explanation
Indices: 796334--796379 Score: 76
Period size: 6 Copynumber: 7.7 Consensus size: 6
796324 GACAATAATC
796334 ATTTTT ATTTTT ATTTTT ATTTTT A-TTTT ATTTTTT ATTTTT ATTT
1 ATTTTT ATTTTT ATTTTT ATTTTT ATTTTT A-TTTTT ATTTTT ATTT
796380 AATTAATTTT
Statistics
Matches: 38, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
5 5 0.13
6 28 0.74
7 5 0.13
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (6 bp):
ATTTTT
Found at i:803253 original size:44 final size:44
Alignment explanation
Indices: 803190--803273 Score: 150
Period size: 44 Copynumber: 1.9 Consensus size: 44
803180 TTCTTCTTAC
*
803190 TTCATTTCATTTCCTTTTGAATTTAATTTTCTTTCATTCTGTAA
1 TTCATTTCATCTCCTTTTGAATTTAATTTTCTTTCATTCTGTAA
*
803234 TTCATTTCATCTCCTTTTGAATTTAGTTTTCTTTCATTCT
1 TTCATTTCATCTCCTTTTGAATTTAATTTTCTTTCATTCT
803274 ATGTGGGATA
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
44 38 1.00
ACGTcount: A:0.18, C:0.18, G:0.05, T:0.60
Consensus pattern (44 bp):
TTCATTTCATCTCCTTTTGAATTTAATTTTCTTTCATTCTGTAA
Found at i:808096 original size:7 final size:7
Alignment explanation
Indices: 808044--808106 Score: 58
Period size: 7 Copynumber: 8.6 Consensus size: 7
808034 TCCAATCTTG
808044 TATATA-
1 TATATAT
808050 TAGTATAT
1 TA-TATAT
808058 TATATTAT
1 TATA-TAT
*
808066 TATATCCAA
1 TATAT--AT
808075 TAGTATAT
1 TA-TATAT
808083 T-TATAT
1 TATATAT
808089 TATATAT
1 TATATAT
808096 TATATAT
1 TATATAT
808103 TATA
1 TATA
808107 AACATATTAT
Statistics
Matches: 48, Mismatches: 2, Indels: 13
0.76 0.03 0.21
Matches are distributed among these distances:
6 8 0.17
7 23 0.48
8 11 0.23
9 3 0.06
10 3 0.06
ACGTcount: A:0.41, C:0.03, G:0.03, T:0.52
Consensus pattern (7 bp):
TATATAT
Found at i:808106 original size:25 final size:24
Alignment explanation
Indices: 808046--808239 Score: 71
Period size: 25 Copynumber: 8.0 Consensus size: 24
808036 CAATCTTGTA
808046 TATATAGTATATTATATTATTATAT
1 TATATAGTATATTATATTA-TATAT
*
808071 CCA-ATAGTATATTTATATTATATAT
1 -TATATAGTATA-TTATATTATATAT
* **
808096 TATATATTATAAACATATTATATGAT
1 TATATAGTAT-ATTATATTATAT-AT
** * *
808122 TATGCA-TTTATTATATGGTATAGCA-
1 TATATAGTATATTATAT--TATA-TAT
* *
808147 TACATA-TATATATATATTATATAG
1 TATATAGTATAT-TATATTATATAT
** **
808171 TACGTAG-CGA-TATATT-TATAT
1 TATATAGTATATTATATTATATAT
* *
808192 TATATAGTATA-TATACATATTTAT
1 TATATAGTATATTATA-TTATATAT
* *
808216 TACATAGTATATTTTTATTATATA
1 TATATAGTATA-TTATATTATATA
808240 GTACATTATT
Statistics
Matches: 123, Mismatches: 30, Indels: 31
0.67 0.16 0.17
Matches are distributed among these distances:
21 9 0.07
22 11 0.09
23 2 0.02
24 30 0.24
25 42 0.34
26 29 0.24
ACGTcount: A:0.40, C:0.05, G:0.07, T:0.48
Consensus pattern (24 bp):
TATATAGTATATTATATTATATAT
Found at i:808211 original size:28 final size:30
Alignment explanation
Indices: 808130--808211 Score: 80
Period size: 28 Copynumber: 2.8 Consensus size: 30
808120 ATTATGCATT
* *
808130 TATTATATGGTATAGCATACATATATATATA
1 TATTATATAGTATA-TATACATATATATATA
** *
808161 TATTATATAGTACGTA-GCGATATAT-T-TA
1 TATTATATAGTATATATAC-ATATATATATA
808189 TATTATATAGTATATATACATAT
1 TATTATATAGTATATATACATAT
808212 TTATTACATA
Statistics
Matches: 41, Mismatches: 8, Indels: 7
0.73 0.14 0.12
Matches are distributed among these distances:
28 20 0.49
29 3 0.07
30 7 0.17
31 11 0.27
ACGTcount: A:0.40, C:0.06, G:0.10, T:0.44
Consensus pattern (30 bp):
TATTATATAGTATATATACATATATATATA
Found at i:808251 original size:18 final size:18
Alignment explanation
Indices: 808199--808255 Score: 57
Period size: 18 Copynumber: 3.3 Consensus size: 18
808189 TATTATATAG
808199 TATATA-TACA-TATTTAT
1 TATATAGTACATTA-TTAT
* * *
808216 TACATAGTATATTTTTAT
1 TATATAGTACATTATTAT
808234 TATATAGTACATTATTA-
1 TATATAGTACATTATTAT
808251 TATAT
1 TATAT
808256 TACTATAATT
Statistics
Matches: 32, Mismatches: 6, Indels: 4
0.76 0.14 0.10
Matches are distributed among these distances:
17 10 0.31
18 21 0.66
19 1 0.03
ACGTcount: A:0.39, C:0.05, G:0.04, T:0.53
Consensus pattern (18 bp):
TATATAGTACATTATTAT
Found at i:809706 original size:21 final size:21
Alignment explanation
Indices: 809682--809724 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
809672 CCAAAAATAA
* *
809682 TCATTCTT-ATTTATTTTATTT
1 TCATT-TTAATTTAATTAATTT
809703 TCATTTTAATTTAATTAATTT
1 TCATTTTAATTTAATTAATTT
809724 T
1 T
809725 TAAATCGTCT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 2 0.11
21 17 0.89
ACGTcount: A:0.26, C:0.07, G:0.00, T:0.67
Consensus pattern (21 bp):
TCATTTTAATTTAATTAATTT
Found at i:811908 original size:21 final size:20
Alignment explanation
Indices: 811868--811908 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
811858 GTTGTGGCCG
*
811868 TTTCTAGCCGTTGGGGATGA
1 TTTCTAGCCGTTGAGGATGA
811888 TTTCTAGCCGTTTGAGGATGA
1 TTTCTAGCCG-TTGAGGATGA
811909 AATCTCTACA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 10 0.53
21 9 0.47
ACGTcount: A:0.17, C:0.15, G:0.32, T:0.37
Consensus pattern (20 bp):
TTTCTAGCCGTTGAGGATGA
Found at i:814040 original size:22 final size:21
Alignment explanation
Indices: 813996--814045 Score: 64
Period size: 22 Copynumber: 2.3 Consensus size: 21
813986 CTTTCATGTC
* *
813996 TTTTTTTTTCGAACAGTTTTT
1 TTTTTTTTTCGAACAGCTATT
*
814017 TTTTCTTTTTCGAACTGCTATT
1 TTTT-TTTTTCGAACAGCTATT
814039 TTTTTTT
1 TTTTTTT
814046 CAACATTTTT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
21 7 0.28
22 18 0.72
ACGTcount: A:0.12, C:0.12, G:0.08, T:0.68
Consensus pattern (21 bp):
TTTTTTTTTCGAACAGCTATT
Found at i:818215 original size:14 final size:15
Alignment explanation
Indices: 818196--818227 Score: 57
Period size: 14 Copynumber: 2.2 Consensus size: 15
818186 AAAAGATAAT
818196 AAAGTAATTAAA-TA
1 AAAGTAATTAAAGTA
818210 AAAGTAATTAAAGTA
1 AAAGTAATTAAAGTA
818225 AAA
1 AAA
818228 ATAAGAAGAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 12 0.71
15 5 0.29
ACGTcount: A:0.66, C:0.00, G:0.09, T:0.25
Consensus pattern (15 bp):
AAAGTAATTAAAGTA
Found at i:824925 original size:20 final size:21
Alignment explanation
Indices: 824900--824939 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
824890 TTTACCCCAA
* *
824900 TTCATC-CAGTATCGATACTG
1 TTCATCACAATATCAATACTG
824920 TTCATCACAATATCAATACT
1 TTCATCACAATATCAATACT
824940 CAAACCCAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.33, C:0.25, G:0.07, T:0.35
Consensus pattern (21 bp):
TTCATCACAATATCAATACTG
Found at i:834539 original size:2 final size:2
Alignment explanation
Indices: 834532--834583 Score: 104
Period size: 2 Copynumber: 26.0 Consensus size: 2
834522 TTTTAAAATA
834532 AT AT AT AT AT AT AT AT 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 AT AT AT AT AT AT AT AT
834574 AT AT AT AT AT
1 AT AT AT AT AT
834584 TAACAATATT
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):
AT
Found at i:835696 original size:24 final size:24
Alignment explanation
Indices: 835648--835699 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
835638 CAACTCGTAT
* *
835648 AAATTGCACCGAAGTGCCGCTTAG
1 AAATTGCACCGAAGTGCCACATAG
*
835672 AAATTGCACCGAAGTGTCACATAG
1 AAATTGCACCGAAGTGCCACATAG
835696 AAAT
1 AAAT
835700 GTCCCAAAGG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.37, C:0.21, G:0.21, T:0.21
Consensus pattern (24 bp):
AAATTGCACCGAAGTGCCACATAG
Found at i:835718 original size:23 final size:23
Alignment explanation
Indices: 835689--835734 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
835679 ACCGAAGTGT
835689 CACATAGAAATGTCCCAAAGGAC
1 CACATAGAAATGTCCCAAAGGAC
* * *
835712 CACATAGTATTGTTCCAAAGGAC
1 CACATAGAAATGTCCCAAAGGAC
835735 AACGTAGATT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.39, C:0.24, G:0.17, T:0.20
Consensus pattern (23 bp):
CACATAGAAATGTCCCAAAGGAC
Found at i:839918 original size:36 final size:37
Alignment explanation
Indices: 839870--839944 Score: 134
Period size: 37 Copynumber: 2.1 Consensus size: 37
839860 ATAGCAAAAG
*
839870 AAATCGTCTTTATTCGAA-TTTTGCCAAAAATAGCAA
1 AAATCGTATTTATTCGAATTTTTGCCAAAAATAGCAA
839906 AAATCGTATTTATTCGAATTTTTGCCAAAAATAGCAA
1 AAATCGTATTTATTCGAATTTTTGCCAAAAATAGCAA
839943 AA
1 AA
839945 TCCCGAAAAT
Statistics
Matches: 37, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
36 17 0.46
37 20 0.54
ACGTcount: A:0.41, C:0.15, G:0.11, T:0.33
Consensus pattern (37 bp):
AAATCGTATTTATTCGAATTTTTGCCAAAAATAGCAA
Found at i:844433 original size:15 final size:15
Alignment explanation
Indices: 844415--844444 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
844405 CCACGGTGCT
844415 CCCGGAATCCTGCGC
1 CCCGGAATCCTGCGC
844430 CCCGGAATCCTGCGC
1 CCCGGAATCCTGCGC
844445 GATTGTGATA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.47, G:0.27, T:0.13
Consensus pattern (15 bp):
CCCGGAATCCTGCGC
Found at i:844912 original size:35 final size:37
Alignment explanation
Indices: 844865--844938 Score: 125
Period size: 35 Copynumber: 2.1 Consensus size: 37
844855 ATAGCAAAAG
*
844865 AAATCGTCTTTATTCGAA-TTTTGCC-AAAATAGCAA
1 AAATCGTATTTATTCGAATTTTTGCCAAAAATAGCAA
844900 AAATCGTATTTATTCGAATTTTTGCCAAAAATAGCAA
1 AAATCGTATTTATTCGAATTTTTGCCAAAAATAGCAA
844937 AA
1 AA
844939 TCCCGAAAAT
Statistics
Matches: 36, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
35 17 0.47
36 7 0.19
37 12 0.33
ACGTcount: A:0.41, C:0.15, G:0.11, T:0.34
Consensus pattern (37 bp):
AAATCGTATTTATTCGAATTTTTGCCAAAAATAGCAA
Found at i:847096 original size:21 final size:21
Alignment explanation
Indices: 847072--847116 Score: 72
Period size: 21 Copynumber: 2.1 Consensus size: 21
847062 AGATTCCGGT
847072 GGTTTACCGTTAGGCGGTATG
1 GGTTTACCGTTAGGCGGTATG
* *
847093 GGTTTACCTTTGGGCGGTATG
1 GGTTTACCGTTAGGCGGTATG
847114 GGT
1 GGT
847117 CCATTTGCAC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.11, C:0.13, G:0.40, T:0.36
Consensus pattern (21 bp):
GGTTTACCGTTAGGCGGTATG
Found at i:851256 original size:24 final size:25
Alignment explanation
Indices: 851197--851257 Score: 63
Period size: 24 Copynumber: 2.5 Consensus size: 25
851187 TTAATTTTTT
*
851197 AATAATAAATAA-TAAAAAATGTAA
1 AATAAAAAATAATTAAAAAATGTAA
* * * *
851221 CATTAAATATAATTAAATAAT-TAA
1 AATAAAAAATAATTAAAAAATGTAA
851245 AATAAAAAATAAT
1 AATAAAAAATAAT
851258 AGATAAGTAA
Statistics
Matches: 28, Mismatches: 8, Indels: 2
0.74 0.21 0.05
Matches are distributed among these distances:
24 21 0.75
25 7 0.25
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.30
Consensus pattern (25 bp):
AATAAAAAATAATTAAAAAATGTAA
Found at i:853261 original size:19 final size:18
Alignment explanation
Indices: 853232--853272 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 18
853222 GCTCTCATCT
853232 TTATTATAAATCAGTTTA
1 TTATTATAAATCAGTTTA
*
853250 TTATTCATAAATCATTTTA
1 TTATT-ATAAATCAGTTTA
853269 TTAT
1 TTAT
853273 AAAAGCCCCT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
18 5 0.24
19 16 0.76
ACGTcount: A:0.37, C:0.07, G:0.02, T:0.54
Consensus pattern (18 bp):
TTATTATAAATCAGTTTA
Found at i:853705 original size:18 final size:18
Alignment explanation
Indices: 853665--853701 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
853655 TAATAGTGAG
853665 TTATTATAAAATATATTT
1 TTATTATAAAATATATTT
*
853683 TTATTAT-AATTATATTT
1 TTATTATAAAATATATTT
853700 TT
1 TT
853702 TATTTGTATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 11 0.61
18 7 0.39
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (18 bp):
TTATTATAAAATATATTT
Found at i:853721 original size:15 final size:14
Alignment explanation
Indices: 853697--853726 Score: 51
Period size: 15 Copynumber: 2.1 Consensus size: 14
853687 TATAATTATA
853697 TTTTTTATTTGTAT
1 TTTTTTATTTGTAT
853711 TTTTTATATTTGTAT
1 TTTTT-TATTTGTAT
853726 T
1 T
853727 ATAGTTTAAC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 5 0.33
15 10 0.67
ACGTcount: A:0.17, C:0.00, G:0.07, T:0.77
Consensus pattern (14 bp):
TTTTTTATTTGTAT
Found at i:853747 original size:2 final size:2
Alignment explanation
Indices: 853740--853773 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
853730 GTTTAACTTG
853740 AT AT AT AT 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 AT AT AT AT
853774 TCTATTTTGA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:855099 original size:41 final size:41
Alignment explanation
Indices: 855015--855101 Score: 106
Period size: 41 Copynumber: 2.1 Consensus size: 41
855005 TTCTATAACC
* **
855015 CATTATTGGTTACTTTTTCATCCTTAGTAAAAAGAGTACGA
1 CATTATTGATTACTTTTTCATCCTTAGTAAAAAGACAACGA
*
855056 CATTATTGATTA-TTTTTCCATCCTT-GTTAAAAAGACAATGA
1 CATTATTGATTACTTTTT-CATCCTTAG-TAAAAAGACAACGA
855097 CATTA
1 CATTA
855102 GCTTCGATGT
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
40 6 0.15
41 34 0.85
ACGTcount: A:0.33, C:0.15, G:0.11, T:0.40
Consensus pattern (41 bp):
CATTATTGATTACTTTTTCATCCTTAGTAAAAAGACAACGA
Found at i:859031 original size:19 final size:18
Alignment explanation
Indices: 859007--859074 Score: 64
Period size: 20 Copynumber: 3.4 Consensus size: 18
858997 TAGATTGTTA
859007 TTTATAAAGCGTTTTTATT
1 TTTATAAAG-GTTTTTATT
* *
859026 TTTATAAAAGATATATTGATT
1 TTTAT-AAAGGT-T-TTTATT
859047 TTTATAAAGTGTTTTTATT
1 TTTATAAAG-GTTTTTATT
859066 TTTAATAAA
1 TTT-ATAAA
859075 AGATATATTA
Statistics
Matches: 40, Mismatches: 4, Indels: 9
0.75 0.08 0.17
Matches are distributed among these distances:
19 14 0.35
20 15 0.38
21 11 0.28
ACGTcount: A:0.35, C:0.01, G:0.09, T:0.54
Consensus pattern (18 bp):
TTTATAAAGGTTTTTATT
Found at i:859049 original size:21 final size:21
Alignment explanation
Indices: 859023--859095 Score: 87
Period size: 21 Copynumber: 3.5 Consensus size: 21
859013 AAGCGTTTTT
*
859023 ATTTTTATAAAAGATATATTG
1 ATTTTTATAAAAGATATATTA
* * *
859044 ATTTTTAT-AAAG-TGTTTTT
1 ATTTTTATAAAAGATATATTA
859063 ATTTTTAATAAAAGATATATTA
1 ATTTTT-ATAAAAGATATATTA
859085 ATTTTTATAAA
1 ATTTTTATAAA
859096 TATTATTTAT
Statistics
Matches: 43, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
19 10 0.23
20 6 0.14
21 17 0.40
22 10 0.23
ACGTcount: A:0.41, C:0.00, G:0.07, T:0.52
Consensus pattern (21 bp):
ATTTTTATAAAAGATATATTA
Found at i:859051 original size:40 final size:41
Alignment explanation
Indices: 859007--859095 Score: 153
Period size: 41 Copynumber: 2.2 Consensus size: 41
858997 TAGATTGTTA
*
859007 TTTATAAAGCGTTTTTATTTTT-ATAAAAGATATATTGATT
1 TTTATAAAGCGTTTTTATTTTTAATAAAAGATATATTAATT
*
859047 TTTATAAAGTGTTTTTATTTTTAATAAAAGATATATTAATT
1 TTTATAAAGCGTTTTTATTTTTAATAAAAGATATATTAATT
859088 TTTATAAA
1 TTTATAAA
859096 TATTATTTAT
Statistics
Matches: 46, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
40 21 0.46
41 25 0.54
ACGTcount: A:0.38, C:0.01, G:0.08, T:0.53
Consensus pattern (41 bp):
TTTATAAAGCGTTTTTATTTTTAATAAAAGATATATTAATT
Found at i:859105 original size:41 final size:40
Alignment explanation
Indices: 859007--859105 Score: 137
Period size: 41 Copynumber: 2.5 Consensus size: 40
858997 TAGATTGTTA
** *
859007 TTTATAAAGCGTTTTTATTTTTATAAAAGATATATTGATT
1 TTTATAAAGTATTTTTATTTTTATAAAAGATATATTAATT
*
859047 TTTATAAAGTGTTTTTATTTTTAATAAAAGATATATTAATT
1 TTTATAAAGTATTTTTATTTTT-ATAAAAGATATATTAATT
859088 TTTATAAA-TATTATTTAT
1 TTTATAAAGTATT-TTTAT
859106 AAAAGATGTA
Statistics
Matches: 54, Mismatches: 3, Indels: 3
0.90 0.05 0.05
Matches are distributed among these distances:
40 24 0.44
41 30 0.56
ACGTcount: A:0.37, C:0.01, G:0.07, T:0.55
Consensus pattern (40 bp):
TTTATAAAGTATTTTTATTTTTATAAAAGATATATTAATT
Found at i:859360 original size:31 final size:31
Alignment explanation
Indices: 859290--859373 Score: 127
Period size: 30 Copynumber: 2.7 Consensus size: 31
859280 AATAAAATAC
*
859290 TTAAATTTATATCAATATCCAT-TCTAATTA
1 TTAAATTTATATCAATATACATGTCTAATTA
859320 TTAAATTTATATCAATATACATGT-TAATTA
1 TTAAATTTATATCAATATACATGTCTAATTA
*
859350 TTAAAATTTATATCAATATTCATG
1 TT-AAATTTATATCAATATACATG
859374 AATAAATCTA
Statistics
Matches: 50, Mismatches: 2, Indels: 3
0.91 0.04 0.05
Matches are distributed among these distances:
30 29 0.58
31 21 0.42
ACGTcount: A:0.42, C:0.10, G:0.02, T:0.46
Consensus pattern (31 bp):
TTAAATTTATATCAATATACATGTCTAATTA
Found at i:860817 original size:20 final size:22
Alignment explanation
Indices: 860772--860829 Score: 77
Period size: 20 Copynumber: 2.7 Consensus size: 22
860762 CTGGAACGAG
860772 CCGTTGACTGTTGACTTCCGTTGA
1 CCGTTGACTGTTGACTT-C-TTGA
860796 CCGTT-ACTGTTGACTT-TTGA
1 CCGTTGACTGTTGACTTCTTGA
860816 CCGTTGACT-TTGAC
1 CCGTTGACTGTTGAC
860830 CAAAAAGTCA
Statistics
Matches: 33, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
20 14 0.42
21 3 0.09
23 11 0.33
24 5 0.15
ACGTcount: A:0.14, C:0.24, G:0.22, T:0.40
Consensus pattern (22 bp):
CCGTTGACTGTTGACTTCTTGA
Found at i:862371 original size:12 final size:13
Alignment explanation
Indices: 862349--862389 Score: 52
Period size: 12 Copynumber: 3.4 Consensus size: 13
862339 TCTGGTATGG
862349 ATTCTGTTCTGAT
1 ATTCTGTTCTGAT
*
862362 A-TCTGATCTGA-
1 ATTCTGTTCTGAT
862373 ATTCTGTTCTGAT
1 ATTCTGTTCTGAT
862386 -TTCT
1 ATTCT
862390 TATTTCTGTT
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
11 1 0.04
12 22 0.92
13 1 0.04
ACGTcount: A:0.17, C:0.17, G:0.15, T:0.51
Consensus pattern (13 bp):
ATTCTGTTCTGAT
Found at i:862376 original size:24 final size:24
Alignment explanation
Indices: 862325--862385 Score: 77
Period size: 24 Copynumber: 2.5 Consensus size: 24
862315 TCTTATCCGG
* * * *
862325 ATTCTATTATGATATCTGGTATGG
1 ATTCTGTTCTGATATCTGATATGA
*
862349 ATTCTGTTCTGATATCTGATCTGA
1 ATTCTGTTCTGATATCTGATATGA
862373 ATTCTGTTCTGAT
1 ATTCTGTTCTGAT
862386 TTCTTATTTC
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 32 1.00
ACGTcount: A:0.21, C:0.13, G:0.18, T:0.48
Consensus pattern (24 bp):
ATTCTGTTCTGATATCTGATATGA
Found at i:862563 original size:20 final size:20
Alignment explanation
Indices: 862535--862573 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
862525 AAGGCGACCA
862535 TTGGCTAGGCTCTACGGCCC
1 TTGGCTAGGCTCTACGGCCC
* *
862555 TTGGGTAGGCTCTGCGGCC
1 TTGGCTAGGCTCTACGGCC
862574 TTTAGATTTT
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:0.08, C:0.31, G:0.36, T:0.26
Consensus pattern (20 bp):
TTGGCTAGGCTCTACGGCCC
Found at i:867479 original size:13 final size:13
Alignment explanation
Indices: 867463--867498 Score: 63
Period size: 13 Copynumber: 2.8 Consensus size: 13
867453 TCTTTTTATA
*
867463 ATATTTTTTTGCC
1 ATATTTCTTTGCC
867476 ATATTTCTTTGCC
1 ATATTTCTTTGCC
867489 ATATTTCTTT
1 ATATTTCTTT
867499 CTAGGATAAC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.17, C:0.17, G:0.06, T:0.61
Consensus pattern (13 bp):
ATATTTCTTTGCC
Found at i:872926 original size:20 final size:20
Alignment explanation
Indices: 872883--872927 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
872873 AACAGGTGGG
* * *
872883 TATCAATACTAAAGGTTTAG
1 TATCAATACTAAAGGGTCAA
*
872903 TATCAATACTGAAGGGTCAA
1 TATCAATACTAAAGGGTCAA
872923 TATCA
1 TATCA
872928 GTACCAAAGA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.40, C:0.13, G:0.16, T:0.31
Consensus pattern (20 bp):
TATCAATACTAAAGGGTCAA
Found at i:885423 original size:2 final size:2
Alignment explanation
Indices: 885418--885455 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
885408 GAGTTTTTTA
885418 AT AT AT AT AT AT 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 AT AT AT AT AT AT
885456 TAAAAAGAAT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:896857 original size:18 final size:18
Alignment explanation
Indices: 896830--896864 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
896820 TAAAAAATAG
*
896830 AAAAATTGTAATGACTTC
1 AAAAAATGTAATGACTTC
896848 AAAAAATGTAATGACTT
1 AAAAAATGTAATGACTT
896865 AAATTTCACT
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:0.49, C:0.09, G:0.11, T:0.31
Consensus pattern (18 bp):
AAAAAATGTAATGACTTC
Found at i:900755 original size:20 final size:20
Alignment explanation
Indices: 900730--900767 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
900720 TCCCCTGTGG
*
900730 GGGGGGATCGGTTCCCTCAT
1 GGGGGGATCGATTCCCTCAT
900750 GGGGGGATCGATTCCCTC
1 GGGGGGATCGATTCCCTC
900768 TGCACCAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.11, C:0.26, G:0.39, T:0.24
Consensus pattern (20 bp):
GGGGGGATCGATTCCCTCAT
Found at i:904061 original size:15 final size:16
Alignment explanation
Indices: 904025--904063 Score: 71
Period size: 16 Copynumber: 2.5 Consensus size: 16
904015 ACTCTTTTAG
904025 TTTGATTTGCAAATCT
1 TTTGATTTGCAAATCT
904041 TTTGATTTGCAAATC-
1 TTTGATTTGCAAATCT
904056 TTTGATTT
1 TTTGATTT
904064 TACTTTCAAG
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
15 8 0.35
16 15 0.65
ACGTcount: A:0.23, C:0.10, G:0.13, T:0.54
Consensus pattern (16 bp):
TTTGATTTGCAAATCT
Found at i:907588 original size:30 final size:30
Alignment explanation
Indices: 907552--907612 Score: 104
Period size: 30 Copynumber: 2.0 Consensus size: 30
907542 AGAAAACAAC
907552 CGATAAAGGTAATATCAACAACATATATGT
1 CGATAAAGGTAATATCAACAACATATATGT
**
907582 CGATAAAGGTAATATCAACGCCATATATGT
1 CGATAAAGGTAATATCAACAACATATATGT
907612 C
1 C
907613 TATGACCTCA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.43, C:0.16, G:0.15, T:0.26
Consensus pattern (30 bp):
CGATAAAGGTAATATCAACAACATATATGT
Found at i:915312 original size:24 final size:24
Alignment explanation
Indices: 915284--915339 Score: 69
Period size: 24 Copynumber: 2.3 Consensus size: 24
915274 ATTTTCACAC
915284 AAAAAAGATTTAGTTTAAAAA-AAA
1 AAAAAAGA-TTAGTTTAAAAACAAA
* * *
915308 TAAAAATATTATTTTAAAAACAAA
1 AAAAAAGATTAGTTTAAAAACAAA
915332 AAAAAAGA
1 AAAAAAGA
915340 AACAATTCCC
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
23 11 0.42
24 15 0.58
ACGTcount: A:0.68, C:0.02, G:0.05, T:0.25
Consensus pattern (24 bp):
AAAAAAGATTAGTTTAAAAACAAA
Found at i:916327 original size:33 final size:35
Alignment explanation
Indices: 916263--916338 Score: 95
Period size: 33 Copynumber: 2.2 Consensus size: 35
916253 CATATATATC
* *
916263 TATATATTATATAGTTTGCAAATAGTTTTTGAAAA
1 TATATATAATATAGTTTGCAAATAGTATTTGAAAA
916298 TATATATAATATAGTTTTG-AAA-A-TATTTGAAAA
1 TATATATAATATAG-TTTGCAAATAGTATTTGAAAA
*
916331 TATTTATA
1 TATATATA
916339 TATTATATAA
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
33 16 0.43
34 1 0.03
35 16 0.43
36 4 0.11
ACGTcount: A:0.43, C:0.01, G:0.09, T:0.46
Consensus pattern (35 bp):
TATATATAATATAGTTTGCAAATAGTATTTGAAAA
Found at i:916332 original size:24 final size:24
Alignment explanation
Indices: 916284--916333 Score: 66
Period size: 23 Copynumber: 2.1 Consensus size: 24
916274 TAGTTTGCAA
*
916284 ATAGTTTTTGAAAATATATATAAT
1 ATAGTTTTTGAAAATATATAAAAT
*
916308 ATAG-TTTTGAAAATATTTGAAAAT
1 ATAGTTTTTGAAAATATAT-AAAAT
916332 AT
1 AT
916334 TTATATATTA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
23 13 0.57
24 10 0.43
ACGTcount: A:0.46, C:0.00, G:0.10, T:0.44
Consensus pattern (24 bp):
ATAGTTTTTGAAAATATATAAAAT
Found at i:916363 original size:37 final size:37
Alignment explanation
Indices: 916298--916373 Score: 89
Period size: 37 Copynumber: 2.1 Consensus size: 37
916288 TTTTTGAAAA
* *
916298 TATATATAATATAGTTTTGAAAATATTTGAAAATATT
1 TATATATAATATAATTTTGAAAACATTTGAAAATATT
* * * * *
916335 TATATATTATATAATTTTTAAAGCATTTGATAATTTT
1 TATATATAATATAATTTTGAAAACATTTGAAAATATT
916372 TA
1 TA
916374 AAGCATTTGA
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
37 32 1.00
ACGTcount: A:0.42, C:0.01, G:0.07, T:0.50
Consensus pattern (37 bp):
TATATATAATATAATTTTGAAAACATTTGAAAATATT
Found at i:916369 original size:19 final size:19
Alignment explanation
Indices: 916345--916383 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
916335 TATATATTAT
916345 ATAATTTTTAAAGCATTTG
1 ATAATTTTTAAAGCATTTG
916364 ATAATTTTTAAAGCATTTG
1 ATAATTTTTAAAGCATTTG
916383 A
1 A
916384 AAATAAATAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.38, C:0.05, G:0.10, T:0.46
Consensus pattern (19 bp):
ATAATTTTTAAAGCATTTG
Found at i:916412 original size:34 final size:37
Alignment explanation
Indices: 916369--916541 Score: 150
Period size: 37 Copynumber: 4.6 Consensus size: 37
916359 ATTTGATAAT
916369 TTTTAAAGCA-TTTGAAAATA-A-ATATA-ATATATAG
1 TTTTAAA-CATTTTGAAAATATATATATATATATATAG
*
916403 TTTTAAAGCATTTTTAAAAATATATTATATCTATATTATATAG
1 TTTTAAA-CA-TTTTGAAAATATA-TATA--TATA-TATATAG
916446 TTTTTAAA-ATTTTG-AAA-ATA-A-ATA-ATATATAG
1 -TTTTAAACATTTTGAAAATATATATATATATATATAG
*
916478 TTTTTAAAACATTTTTGAAAATATATATATATATATATAT
1 -TTTT-AAACA-TTTTGAAAATATATATATATATATATAG
*
916518 TTTTAAATATTTTGAAAATATATA
1 TTTTAAACATTTTGAAAATATATA
916542 GTTTTAAAAA
Statistics
Matches: 117, Mismatches: 4, Indels: 33
0.76 0.03 0.21
Matches are distributed among these distances:
32 12 0.10
33 4 0.03
34 13 0.11
35 5 0.04
36 13 0.11
37 20 0.17
38 5 0.04
39 13 0.11
40 10 0.09
41 6 0.05
42 2 0.02
43 7 0.06
44 7 0.06
ACGTcount: A:0.46, C:0.02, G:0.05, T:0.46
Consensus pattern (37 bp):
TTTTAAACATTTTGAAAATATATATATATATATATAG
Found at i:916463 original size:77 final size:73
Alignment explanation
Indices: 916379--916537 Score: 225
Period size: 76 Copynumber: 2.1 Consensus size: 73
916369 TTTTAAAGCA
*
916379 TTTGAAAATAAATATAATATATAG-TTTTAAAGCATTTTTAAAAATATATTATATCTATATTATA
1 TTTGAAAATAAA-ATAATATATAGTTTTTAAAACATTTTTAAAAATATA-TATA--TATA-TATA
916443 TAGTTTTTAAA-AT
61 TA-TTTTTAAATAT
*
916456 TTTGAAAAT-AAATAATATATAGTTTTTAAAACATTTTTGAAAATATATATATATATATATATTT
1 TTTGAAAATAAAATAATATATAGTTTTTAAAACATTTTTAAAAATATATATATATATATATATTT
916520 TTAAATAT
66 TTAAATAT
916528 TTTGAAAATA
1 TTTGAAAATA
916538 TATAGTTTTA
Statistics
Matches: 77, Mismatches: 2, Indels: 10
0.87 0.02 0.11
Matches are distributed among these distances:
71 8 0.10
72 17 0.22
73 4 0.05
75 15 0.19
76 24 0.31
77 9 0.12
ACGTcount: A:0.47, C:0.02, G:0.05, T:0.47
Consensus pattern (73 bp):
TTTGAAAATAAAATAATATATAGTTTTTAAAACATTTTTAAAAATATATATATATATATATATTT
TTAAATAT
Found at i:916475 original size:43 final size:42
Alignment explanation
Indices: 916391--916475 Score: 100
Period size: 43 Copynumber: 2.0 Consensus size: 42
916381 TGAAAATAAA
* * *
916391 TATAATATATAGTTTTAAAGCATTTTTAAAAATATATTATATC
1 TATAATATATAGTTTTAAA-CATTTTGAAAAAAATAATATATC
*
916434 TATATTATATAGTTTTTAAA-ATTTTGAAAATAAATAATATAT
1 TATAATATATAG-TTTTAAACATTTTGAAAA-AAATAATATAT
916476 AGTTTTTAAA
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
42 9 0.25
43 20 0.56
44 7 0.19
ACGTcount: A:0.46, C:0.02, G:0.05, T:0.47
Consensus pattern (42 bp):
TATAATATATAGTTTTAAACATTTTGAAAAAAATAATATATC
Found at i:916559 original size:29 final size:28
Alignment explanation
Indices: 916511--916600 Score: 80
Period size: 27 Copynumber: 3.2 Consensus size: 28
916501 TATATATATA
*
916511 TATATATTTT-TAAATA-TTTTGAAAA-
1 TATATATTTTAAAAATATTTTTGAAAAC
916536 TATATAGTTTTAAAAAATATTTTTTGAAAAC
1 TATATA-TTTT-AAAAATA-TTTTTGAAAAC
* * * *
916567 TATA-ATTTTGAAAACATTTTTAAAAAG
1 TATATATTTTAAAAATATTTTTGAAAAC
916594 TATATAT
1 TATATAT
916601 AATTTATAAT
Statistics
Matches: 53, Mismatches: 5, Indels: 11
0.77 0.07 0.16
Matches are distributed among these distances:
25 6 0.11
26 4 0.08
27 13 0.25
28 12 0.23
29 4 0.08
30 10 0.19
31 4 0.08
ACGTcount: A:0.46, C:0.02, G:0.06, T:0.47
Consensus pattern (28 bp):
TATATATTTTAAAAATATTTTTGAAAAC
Found at i:916565 original size:15 final size:16
Alignment explanation
Indices: 916527--916580 Score: 51
Period size: 15 Copynumber: 3.6 Consensus size: 16
916517 TTTTTAAATA
*
916527 TTTTGAAAATATATAG
1 TTTTGAAAAAATATAG
*
916543 TTTT-AAAAAATAT-T
1 TTTTGAAAAAATATAG
* *
916557 TTTTG-AAAACTATAA
1 TTTTGAAAAAATATAG
916572 TTTTGAAAA
1 TTTTGAAAA
916581 CATTTTTAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 6
0.76 0.10 0.15
Matches are distributed among these distances:
14 11 0.35
15 13 0.42
16 7 0.23
ACGTcount: A:0.46, C:0.02, G:0.07, T:0.44
Consensus pattern (16 bp):
TTTTGAAAAAATATAG
Found at i:916581 original size:15 final size:15
Alignment explanation
Indices: 916526--916581 Score: 53
Period size: 14 Copynumber: 3.7 Consensus size: 15
916516 ATTTTTAAAT
916526 ATTTTGAAAA-TATA
1 ATTTTGAAAACTATA
* *
916540 TAGTTTTAAAAAATAT-
1 -A-TTTTGAAAACTATA
*
916556 TTTTTGAAAACTATA
1 ATTTTGAAAACTATA
916571 ATTTTGAAAAC
1 ATTTTGAAAAC
916582 ATTTTTAAAA
Statistics
Matches: 33, Mismatches: 5, Indels: 6
0.75 0.11 0.14
Matches are distributed among these distances:
14 11 0.33
15 11 0.33
16 8 0.24
17 3 0.09
ACGTcount: A:0.46, C:0.04, G:0.07, T:0.43
Consensus pattern (15 bp):
ATTTTGAAAACTATA
Found at i:917525 original size:13 final size:14
Alignment explanation
Indices: 917500--917530 Score: 55
Period size: 13 Copynumber: 2.3 Consensus size: 14
917490 GTATCTGAGA
917500 GAGAAACAAAGGAG
1 GAGAAACAAAGGAG
917514 GAGAAA-AAAGGAG
1 GAGAAACAAAGGAG
917527 GAGA
1 GAGA
917531 GAACGGCTGA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.65
14 6 0.35
ACGTcount: A:0.58, C:0.03, G:0.39, T:0.00
Consensus pattern (14 bp):
GAGAAACAAAGGAG
Found at i:918062 original size:22 final size:21
Alignment explanation
Indices: 918034--918087 Score: 65
Period size: 22 Copynumber: 2.5 Consensus size: 21
918024 TCTTTTCTTA
918034 TTATTTATTATTTTGATAAATT
1 TTATTTATTATTTT-ATAAATT
* *
918056 TTATTTATCCATTTTTTAAATT
1 TTATTTAT-TATTTTATAAATT
918078 TTA-TTATTAT
1 TTATTTATTAT
918088 CATTTAACTA
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
20 2 0.07
21 4 0.14
22 17 0.61
23 5 0.18
ACGTcount: A:0.30, C:0.04, G:0.02, T:0.65
Consensus pattern (21 bp):
TTATTTATTATTTTATAAATT
Found at i:918148 original size:18 final size:20
Alignment explanation
Indices: 918115--918152 Score: 62
Period size: 18 Copynumber: 2.0 Consensus size: 20
918105 TTTCTTCTTT
918115 CTTTTGTTTATATTATTTTA
1 CTTTTGTTTATATTATTTTA
918135 CTTTT-TTT-TATTATTTTA
1 CTTTTGTTTATATTATTTTA
918153 TCTAACATAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 10 0.56
19 3 0.17
20 5 0.28
ACGTcount: A:0.18, C:0.05, G:0.03, T:0.74
Consensus pattern (20 bp):
CTTTTGTTTATATTATTTTA
Found at i:920801 original size:180 final size:179
Alignment explanation
Indices: 920495--920853 Score: 652
Period size: 180 Copynumber: 2.0 Consensus size: 179
920485 AGTCCCGGAC
920495 TTGGTTCTTCCTCCGAAATTTAAGTCCCCGAAATTTGAGAAGTTGACGGAACAGTTGTCCATCTG
1 TTGGTTCTTCCTCCGAAATTTAAGTCCCCGAAATTTGAGAAGTTGACGGAACAGTTGTCCATCTG
920560 CTCACATCACCATGTTCTGCCGAAAGATGACAGGATATGGAGGAACGACCAACTCCTGATCCACT
66 CTCACATCACCATGTTCTGCCGAAAGATGACAGGATATGGAGGAACGACCAACTCCTGATCCACT
*
920625 GCTTCCA-G-GAGTCTGTCGGGCTCAGCCATTCGGTGGTACAACCAATTAA
131 GCTTCCAGGAGAGTC-GTCGAGCTCAGCCATTCGGTGGTAC-ACCAATTAA
920674 TTGGTTCTTCCTCCGAAATTTAAGTCCCCGAAATTTGAGAAGTTTGACGGAACAGTTGTCCATCT
1 TTGGTTCTTCCTCCGAAATTTAAGTCCCCGAAATTTGAGAAG-TTGACGGAACAGTTGTCCATCT
920739 GCTCACATCACCATGTTCTGCCGAAAGATGACAGGATATGGAGGAAACGACCAACT-CTGATCCA
65 GCTCACATCACCATGTTCTGCCGAAAGATGACAGGATATGGAGG-AACGACCAACTCCTGATCCA
920803 CTGCTTCCAGGAGAGTCGTCGAGCTCAGCCATTCGGTGGTACACCAATTAA
129 CTGCTTCCAGGAGAGTCGTCGAGCTCAGCCATTCGGTGGTACACCAATTAA
920854 GCCGATCAAA
Statistics
Matches: 175, Mismatches: 1, Indels: 7
0.96 0.01 0.04
Matches are distributed among these distances:
179 42 0.24
180 92 0.53
181 36 0.21
182 5 0.03
ACGTcount: A:0.27, C:0.25, G:0.22, T:0.26
Consensus pattern (179 bp):
TTGGTTCTTCCTCCGAAATTTAAGTCCCCGAAATTTGAGAAGTTGACGGAACAGTTGTCCATCTG
CTCACATCACCATGTTCTGCCGAAAGATGACAGGATATGGAGGAACGACCAACTCCTGATCCACT
GCTTCCAGGAGAGTCGTCGAGCTCAGCCATTCGGTGGTACACCAATTAA
Found at i:923870 original size:84 final size:82
Alignment explanation
Indices: 923480--924383 Score: 780
Period size: 84 Copynumber: 11.0 Consensus size: 82
923470 TAAACAAACT
* * * * * * * *
923480 ATTTGCAGCATAGCTTAAGTCGATAAGGGCTATCTG--CCAAAGACCCTCAAGTTCGATTACACT
1 ATTTGCAGCATAACTTAAGTCTAGAAGGGTTATCTGCACCAAAGACCTTCGAGTTCGACTACGCT
* * *
923543 CAGCTTCGAGGGCACATT
66 CAGC-TCCAAGGCACATC
* * * * **
923561 ATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTATCACCAAATCCCTTCGAGTTCGACTACGC
1 ATTTGCAGCATAACTTAAGTCTAGAAGGGTTATCT-GCACCAAAGACCTTCGAGTTCGACTACGC
*
923626 TCAGCTCCAAGGCACGTC
65 TCAGCTCCAAGGCACATC
* * * * * * *
923644 ATTTGCAGCATAGCTTAAGTCGAGAAAGGCTATCTG--CCAAAGACCCTCGAGTTCGATTACACT
1 ATTTGCAGCATAACTTAAGTCTAGAAGGGTTATCTGCACCAAAGACCTTCGAGTTCGACTACGCT
* * *
923707 CAGCTTC-AGACATATC
66 CAGCTCCAAGGCACATC
* * * * *
923723 ATTTACAACATAACTCAAGGCTAGAAGGGTTATCTGTCACCAAAGACCTCCGAGTTCGACTACGC
1 ATTTGCAGCATAACTTAAGTCTAGAAGGGTTATCTG-CACCAAAGACCTTCGAGTTCGACTACGC
*
923788 TCAGCTCCAAGGCATATC
65 TCAGCTCCAAGGCACATC
* * * *
923806 ATTTGCAGCACAACTTAAGTCTAGAAGGGTTGTCTGCCAACGAAAGACCTTTGAGTTCGACTACG
1 ATTTGCAGCATAACTTAAGTCTAGAAGGGTTATCTG-C-ACCAAAGACCTTCGAGTTCGACTACG
*
923871 CTCAACT-CAAGGACACATC
64 CTCAGCTCCAAGG-CACATC
* * * * * * * * *
923890 ATTTACAGTATAGCTTAAGTCGATAAGGGCTATCTG--CC-AA-ACC-CCGAGTTCGATTACACT
1 ATTTGCAGCATAACTTAAGTCTAGAAGGGTTATCTGCACCAAAGACCTTCGAGTTCGACTACGCT
* *
923950 CAGCTTCGAGGGCACATC
66 CAGC-TCCAAGGCACATC
* * *
923968 ATTTGCAGTATAACTTAAGT-TGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTTGACTAT
1 ATTTGCAGCATAACTTAAGTCT-AGAAGGGTTATCTG-C-ACCAAAGACCTTCGAGTTCGACTAC
924032 GCTCAGCTCCAAGGCACATC
63 GCTCAGCTCCAAGGCACATC
* * * * * ** * *
924052 ATTTGCAGTATAGCTTAAGTCGAGAAAGGTTATCT--ACCGAAGACCCCCGAGTTCGATTACACT
1 ATTTGCAGCATAACTTAAGTCTAGAAGGGTTATCTGCACCAAAGACCTTCGAGTTCGACTACGCT
* *
924115 CAGCATCGAGGGCACATC
66 CAGC-TCCAAGGCACATC
* * * * * * *
924133 ATTTACAGTATAACTCAAGGCTAAAAGGGTTATCAGTCACCAATGACCTTCGAGTTCGACTACGC
1 ATTTGCAGCATAACTTAAGTCTAGAAGGGTTATCTG-CACCAAAGACCTTCGAGTTCGACTACGC
*
924198 TCA-CTCTAAGGCACATC
65 TCAGCTCCAAGGCACATC
* * * * * *
924215 ATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTG--CCAAAGACCCTCGAGTTCGATTACACT
1 ATTTGCAGCATAACTTAAGTCTAGAAGGGTTATCTGCACCAAAGACCTTCGAGTTCGACTACGCT
* *
924278 CAGCTTCGAGGGCACATC
66 CAGC-TCCAAGGCACATC
** * * * *
924296 ATTCACAGCATAACTCAAGGCTAGAAGGGTTATCTGTCACCAGAAGACCTTTGAGTTCGACCACG
1 ATTTGCAGCATAACTTAAGTCTAGAAGGGTTATCTG-CACCA-AAGACCTTCGAGTTCGACTACG
924361 CTCAGCTCCAAGGCACATC
64 CTCAGCTCCAAGGCACATC
924380 ATTT
1 ATTT
924384 ATAGCATAGC
Statistics
Matches: 646, Mismatches: 147, Indels: 57
0.76 0.17 0.07
Matches are distributed among these distances:
77 16 0.02
78 40 0.06
79 64 0.10
80 55 0.09
81 106 0.16
82 69 0.11
83 84 0.13
84 173 0.27
85 39 0.06
ACGTcount: A:0.30, C:0.26, G:0.20, T:0.25
Consensus pattern (82 bp):
ATTTGCAGCATAACTTAAGTCTAGAAGGGTTATCTGCACCAAAGACCTTCGAGTTCGACTACGCT
CAGCTCCAAGGCACATC
Found at i:924279 original size:163 final size:165
Alignment explanation
Indices: 923516--924412 Score: 829
Period size: 162 Copynumber: 5.5 Consensus size: 165
923506 GGGCTATCTG
* * * * * * * * * *
923516 CCAAAGACCCTCAAGTTCGATTACACTCAGCTTCGAGGGCACATTATTTACAGCATAACTCAAGG
1 CCAAAGACCTTCGAGTTCGACTACGCTCAGC-TCCAAGGCACATCATTTACAGCATAGCTTAAGT
* * * * * * * * *
923581 CTAGAAGGGTTATCTATCACCAAA-TCCCTTCGAGTTCGACTACGCTCAGC-TCCAAGGCACGTC
65 CGAGAAGGGCTATC--T-GCCAAAGACCC-TCGAGTTCGATTACACTCAGCTTCGAGGGCACATC
* * * * * * *
923644 ATTTGCAGCATAGCTTAAGTCGAGAAAGGCTATCTG----
126 ATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGCCAA
* * * * * * * * * *
923680 CCAAAGACCCTCGAGTTCGATTACACTCAGCTTC-AGACATATCATTTACAACATAACTCAAGGC
1 CCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTACAGCATAGCTTAAGTC
* * * * * * *
923744 TAGAAGGGTTATCTGTCACCAAAGA-CCTCCGAGTTCGACTACGCTCAGC-TCCAAGGCATATCA
66 GAGAAGGGCTATCTG---CCAAAGACCCT-CGAGTTCGATTACACTCAGCTTCGAGGGCACATCA
* * * * *
923807 TTTGCAGCACAACTTAAGTCTAGAAGGGTTGTCTGCCAA
127 TTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGCCAA
* * * *
923846 CGAAAGACCTTTGAGTTCGACTACGCTCAACT-CAAGGACACATCATTTACAGTATAGCTTAAGT
1 CCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGG-CACATCATTTACAGCATAGCTTAAGT
*
923910 CGATAAGGGCTATCTGCC-AA-ACCC-CGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTT
65 CGAGAAGGGCTATCTGCCAAAGACCCTCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTT
* * * *
923972 GCAGTATAACTTAA-GTTGAGAAGGGTTATCTGCCAA
130 ACAGCATAACTCAAGGCT-AGAAGGGTTATCTGCCAA
* * * *
924008 CCAAAGACCTTCGAGTTTGACTATGCTCAGCTCCAAGGCACATCATTTGCAGTATAGCTTAAGTC
1 CCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTACAGCATAGCTTAAGTC
* * * * * *
924073 GAGAAAGGTTATCTACCGAAGACCCCCGAGTTCGATTACACTCAGCATCGAGGGCACATCATTTA
66 GAGAAGGGCTATCTGCCAAAGACCCTCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTA
* * * *
924138 CAGTATAACTCAAGGCTAAAAGGGTTATCAGTC-A
131 CAGCATAACTCAAGGCTAGAAGGGTTATCTGCCAA
* * *
924172 CCAATGACCTTCGAGTTCGACTACGCTCA-CTCTAAGGCACATCATTTGCAGCATAGCTTAAGTC
1 CCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTACAGCATAGCTTAAGTC
*
924236 GAGAAGGGCTATCTGCCAAAGACCCTCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTCA
66 GAGAAGGGCTATCTGCCAAAGACCCTCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTA
*
924301 CAGCATAACTCAAGGCTAGAAGGGTTATCTGTC-A
131 CAGCATAACTCAAGGCTAGAAGGGTTATCTGCCAA
* * * * *
924335 CCAGAAGACCTTTGAGTTCGACCACGCTCAGCTCCAAGGCACATCATTTATAGCATAGCTCAAGG
1 CCA-AAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTACAGCATAGCTTAAGT
*
924400 CAAGAAGGGCTAT
65 CGAGAAGGGCTAT
924413 TTGTCAACAA
Statistics
Matches: 627, Mismatches: 85, Indels: 41
0.83 0.11 0.05
Matches are distributed among these distances:
160 1 0.00
161 20 0.03
162 216 0.34
163 137 0.22
164 86 0.14
165 104 0.17
166 30 0.05
167 33 0.05
ACGTcount: A:0.30, C:0.26, G:0.20, T:0.24
Consensus pattern (165 bp):
CCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTACAGCATAGCTTAAGTC
GAGAAGGGCTATCTGCCAAAGACCCTCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTA
CAGCATAACTCAAGGCTAGAAGGGTTATCTGCCAA
Found at i:924279 original size:328 final size:326
Alignment explanation
Indices: 923765--924383 Score: 861
Period size: 328 Copynumber: 1.9 Consensus size: 326
923755 TCTGTCACCA
* * * * * * *
923765 AAGACCTCCGAGTTCGACTACGCTCAGCTCCAAGGCATATCATTTGCAGCACAACTTAAGTCTAG
1 AAGACCCCCGAGTTCGACTACACTCAGCTCCAAGGCACATCATTTACAGCACAACTCAAGGCTAA
* * * *
923830 AAGGGTTGTCTGCCAACGAAAGACCTTTGAGTTCGACTACGCTCAACTCAAGGACACATCATTTA
66 AAGGGTTATCAGCCAACCAAAGACCTTCGAGTTCGACTACGCTCAACTCAAGGACACATCATTTA
* *
923895 CAGTATAGCTTAAGTCGATAAGGGCTATCTGCCAAACCCCGAGTTCGATTACACTCAGCTTCGAG
131 CAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAACCCCGAGTTCGATTACACTCAGCTTCGAG
** * * *
923960 GGCACATCATTTGCAGTATAACTTAA-GTTGAGAAGGGTTATCTGCCAACCA-AAGACCTTCGAG
196 GGCACATCATTCACAGCATAACTCAAGGCT-AGAAGGGTTATCTGCC-ACCAGAAGACCTTCGAG
* * *
924023 TTTGACTATGCTCAGCTCCAAGGCACATCATTTGCAGTATAGCTTAAGTCGAGAAAGGTTATCTA
259 TTCGACCACGCTCAGCTCCAAGGCACATCATTTGCAGTATAGCTTAAGTCGAGAAAGGTTATCTA
924088 CCG
324 CCG
* * * * *
924091 AAGACCCCCGAGTTCGATTACACTCAGCATCGAGGGCACATCATTTACAGTATAACTCAAGGCTA
1 AAGACCCCCGAGTTCGACTACACTCAGC-TCCAAGGCACATCATTTACAGCACAACTCAAGGCTA
* *
924156 AAAGGGTTATCAGTC-ACCAATGACCTTCGAGTTCGACTACGCTC-ACTCTAAGG-CACATCATT
65 AAAGGGTTATCAGCCAACCAAAGACCTTCGAGTTCGACTACGCTCAACTC-AAGGACACATCATT
*
924218 TGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCTCGAGTTCGATTACACTCAGCT
129 TACAGCATAGCTTAAGTCGAGAAGGGCTATCTGCC-AA-ACCC-CGAGTTCGATTACACTCAGCT
* *
924283 TCGAGGGCACATCATTCACAGCATAACTCAAGGCTAGAAGGGTTATCTGTCACCAGAAGACCTTT
191 TCGAGGGCACATCATTCACAGCATAACTCAAGGCTAGAAGGGTTATCTGCCACCAGAAGACCTTC
924348 GAGTTCGACCACGCTCAGCTCCAAGGCACATCATTT
256 GAGTTCGACCACGCTCAGCTCCAAGGCACATCATTT
924384 ATAGCATAGC
Statistics
Matches: 255, Mismatches: 31, Indels: 12
0.86 0.10 0.04
Matches are distributed among these distances:
325 45 0.18
326 57 0.22
327 47 0.18
328 104 0.41
329 2 0.01
ACGTcount: A:0.29, C:0.26, G:0.20, T:0.24
Consensus pattern (326 bp):
AAGACCCCCGAGTTCGACTACACTCAGCTCCAAGGCACATCATTTACAGCACAACTCAAGGCTAA
AAGGGTTATCAGCCAACCAAAGACCTTCGAGTTCGACTACGCTCAACTCAAGGACACATCATTTA
CAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAACCCCGAGTTCGATTACACTCAGCTTCGAG
GGCACATCATTCACAGCATAACTCAAGGCTAGAAGGGTTATCTGCCACCAGAAGACCTTCGAGTT
CGACCACGCTCAGCTCCAAGGCACATCATTTGCAGTATAGCTTAAGTCGAGAAAGGTTATCTACC
G
Found at i:924855 original size:37 final size:36
Alignment explanation
Indices: 924813--925012 Score: 226
Period size: 36 Copynumber: 5.5 Consensus size: 36
924803 TGCAAATGGT
*
924813 TTTTGAAAATATATATATAATATAGTTTTGAAAACA
1 TTTTGAAAATATATATATAATATAGTTTTTAAAACA
* * * * *
924849 TGTTTGAAAACATTTATATATTATTAATTTTTAAAGCA
1 T-TTTGAAAATATATATATAATA-TAGTTTTTAAAACA
* *
924887 TTTTGAAAATAAATATA-ATATATAGTTTTTAAAGCA
1 TTTTGAAAATATATATATA-ATATAGTTTTTAAAACA
*
924923 TTTT-AAAATATATATATTATATAGTTTTTAAAACA
1 TTTTGAAAATATATATATAATATAGTTTTTAAAACA
* *
924958 CTTTGAAAATAAATATA-ATATATAGTTTTTAAAACA
1 TTTTGAAAATATATATATA-ATATAGTTTTTAAAACA
*
924994 TTTTTGAAAAAATATATAT
1 -TTTTGAAAATATATATAT
925013 TATAGTAAAT
Statistics
Matches: 136, Mismatches: 20, Indels: 14
0.80 0.12 0.08
Matches are distributed among these distances:
35 30 0.22
36 47 0.35
37 47 0.35
38 12 0.09
ACGTcount: A:0.46, C:0.04, G:0.07, T:0.44
Consensus pattern (36 bp):
TTTTGAAAATATATATATAATATAGTTTTTAAAACA
Found at i:925063 original size:35 final size:35
Alignment explanation
Indices: 925024--925090 Score: 100
Period size: 35 Copynumber: 1.9 Consensus size: 35
925014 ATAGTAAATA
*
925024 TATATAGTTTTTAAAAAA-ATTTTAAAAATATATAT
1 TATATA-TTTTAAAAAAACATTTTAAAAATATATAT
*
925059 TATATATTTTAAAAAAACATTTTGAAAATATA
1 TATATATTTTAAAAAAACATTTTAAAAATATA
925091 GTTTTTAAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
34 10 0.34
35 19 0.66
ACGTcount: A:0.52, C:0.01, G:0.03, T:0.43
Consensus pattern (35 bp):
TATATATTTTAAAAAAACATTTTAAAAATATATAT
Found at i:925095 original size:14 final size:13
Alignment explanation
Indices: 925060--925184 Score: 55
Period size: 13 Copynumber: 9.5 Consensus size: 13
925050 AATATATATT
*
925060 ATATATTTTAAAA
1 ATATATTTTGAAA
* *
925073 AAACATTTTGAAA
1 ATATATTTTGAAA
*
925086 ATATAGTTTTTAAAAA
1 ATATA--TTTT-GAAA
*
925102 ATATTTTTTGAAA
1 ATATATTTTGAAA
925115 ACTATATATTTGAAA
1 A-TATAT-TTTGAAA
*
925130 ACAT-TTTT-AAA
1 ATATATTTTGAAA
* *
925141 AGTATA-TAT-AAT
1 A-TATATTTTGAAA
925153 ATATAATTTT-AAA
1 ATAT-ATTTTGAAA
*
925166 ATAT-TTTTATAAA
1 ATATATTTT-GAAA
925179 ATATAT
1 ATATAT
925185 ATTATATAGA
Statistics
Matches: 85, Mismatches: 15, Indels: 23
0.69 0.12 0.19
Matches are distributed among these distances:
11 11 0.13
12 11 0.13
13 33 0.39
14 11 0.13
15 12 0.14
16 7 0.08
ACGTcount: A:0.49, C:0.02, G:0.04, T:0.45
Consensus pattern (13 bp):
ATATATTTTGAAA
Found at i:925121 original size:16 final size:14
Alignment explanation
Indices: 925078--925130 Score: 54
Period size: 15 Copynumber: 3.6 Consensus size: 14
925068 TAAAAAAACA
925078 TTTTGAAAATATAGT
1 TTTTGAAAATATA-T
*
925093 TTTT-AAAAAATATT
1 TTTTGAAAATATA-T
925107 TTTTGAAAACTATAT
1 TTTTGAAAA-TATAT
*
925122 ATTTGAAAA
1 TTTTGAAAA
925131 CATTTTTAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
14 12 0.38
15 17 0.53
16 3 0.09
ACGTcount: A:0.45, C:0.02, G:0.08, T:0.45
Consensus pattern (14 bp):
TTTTGAAAATATAT
Found at i:926098 original size:13 final size:13
Alignment explanation
Indices: 926080--926105 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
926070 AAGAGAAACG
926080 AAGGAGGAGAGAA
1 AAGGAGGAGAGAA
926093 AAGGAGGAGAGAA
1 AAGGAGGAGAGAA
926106 TGGATGAGGT
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:0.54, C:0.00, G:0.46, T:0.00
Consensus pattern (13 bp):
AAGGAGGAGAGAA
Found at i:930384 original size:15 final size:16
Alignment explanation
Indices: 930348--930387 Score: 64
Period size: 15 Copynumber: 2.6 Consensus size: 16
930338 GGTGTGCAAA
930348 TCCGGGTACCCGGATT
1 TCCGGGTACCCGGATT
*
930364 TTCGGGTACCC-GATT
1 TCCGGGTACCCGGATT
930379 TCCGGGTAC
1 TCCGGGTAC
930388 TCGAAACTTC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 12 0.55
16 10 0.45
ACGTcount: A:0.12, C:0.30, G:0.30, T:0.28
Consensus pattern (16 bp):
TCCGGGTACCCGGATT
Found at i:930460 original size:15 final size:15
Alignment explanation
Indices: 930440--930496 Score: 69
Period size: 15 Copynumber: 3.7 Consensus size: 15
930430 CCGGATGTTA
*
930440 CGGGTATCCGGTAAT
1 CGGGTACCCGGTAAT
**
930455 CGGGTACCCGGATTTT
1 CGGGTACCCGG-TAAT
930471 GCGGGTACCCGGTAAT
1 -CGGGTACCCGGTAAT
930487 CGGGTACCCG
1 CGGGTACCCG
930497 ATACCCGGTT
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
15 20 0.57
16 4 0.11
17 11 0.31
ACGTcount: A:0.16, C:0.26, G:0.35, T:0.23
Consensus pattern (15 bp):
CGGGTACCCGGTAAT
Found at i:930476 original size:32 final size:32
Alignment explanation
Indices: 930428--930496 Score: 111
Period size: 32 Copynumber: 2.2 Consensus size: 32
930418 CCGTGTCCCG
*
930428 ACCCGGATGTTACGGGTATCCGGTAATCGGGT
1 ACCCGGATGTTACGGGTACCCGGTAATCGGGT
* *
930460 ACCCGGATTTTGCGGGTACCCGGTAATCGGGT
1 ACCCGGATGTTACGGGTACCCGGTAATCGGGT
930492 ACCCG
1 ACCCG
930497 ATACCCGGTT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.17, C:0.26, G:0.33, T:0.23
Consensus pattern (32 bp):
ACCCGGATGTTACGGGTACCCGGTAATCGGGT
Found at i:936494 original size:83 final size:83
Alignment explanation
Indices: 936394--936566 Score: 192
Period size: 83 Copynumber: 2.1 Consensus size: 83
936384 TAATTTATAT
* * *
936394 ATAAATAAGATATTTATTTA-GTTAGAAATATCAGAAAA-GGGCTTCTAGGTT-CTTTAAGACAA
1 ATAAATAAGATATTTATTTATGTTA-AAATATCAGAAAATGGACATCCA-GTTGCTTTAAGA-AA
*
936456 CTCTTTTCTTAATATTAAAAA
63 CTCCTTTCTTAATATTAAAAA
* * ***
936477 ATAAATAA-ATATTTTATTTATTTTAAAATATCATAAAATGGACATCCAGTTGCTTTAAGATTGT
1 ATAAATAAGATA-TTTATTTATGTTAAAATATCAGAAAATGGACATCCAGTTGCTTTAAGAAACT
*
936541 CCTTTCTTAATATTGAAAA
65 CCTTTCTTAATATTAAAAA
936560 ATAAATA
1 ATAAATA
936567 TTAAAATATG
Statistics
Matches: 76, Mismatches: 10, Indels: 8
0.81 0.11 0.09
Matches are distributed among these distances:
82 3 0.04
83 56 0.74
84 17 0.22
ACGTcount: A:0.42, C:0.09, G:0.10, T:0.39
Consensus pattern (83 bp):
ATAAATAAGATATTTATTTATGTTAAAATATCAGAAAATGGACATCCAGTTGCTTTAAGAAACTC
CTTTCTTAATATTAAAAA
Found at i:938135 original size:3 final size:3
Alignment explanation
Indices: 938127--938186 Score: 77
Period size: 3 Copynumber: 19.7 Consensus size: 3
938117 TGGGTCTGTA
* *
938127 AAT AAT AAT AAT ATT AAT AAT AAAT AAT AAT AAT AGT AAT AAAT AA-
1 AAT AAT AAT AAT AAT AAT AAT -AAT AAT AAT AAT AAT AAT -AAT AAT
938173 AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AA
938187 CAAATGAATG
Statistics
Matches: 50, Mismatches: 4, Indels: 6
0.83 0.07 0.10
Matches are distributed among these distances:
2 2 0.04
3 42 0.84
4 6 0.12
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:938598 original size:122 final size:122
Alignment explanation
Indices: 938405--938705 Score: 487
Period size: 122 Copynumber: 2.5 Consensus size: 122
938395 GTTGAACAAG
* * * * *
938405 TTCTTCTTCTTCTTTAGATGAGTTCTTCTCATTATGAACATT-TCTGGAAATGTTGATGCTGATC
1 TTCTTCTTCCTCTTCAGATAAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGTTGATGCTGATC
* *
938469 TATCTCCTTTTGTGATAGAGTCATGCAAAGGTTGAACAAGCTCTTCTAATTATGCAC
66 TATCTCCTTCTGTGATAGAGTCATGCAAAGGTTGAACAAGCTCTTCTAATTATGAAC
*
938526 TTCTTCTTCCTCTTCAGATAAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGTTGATGTTGATC
1 TTCTTCTTCCTCTTCAGATAAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGTTGATGCTGATC
*
938591 TATCTCCTTCTGTGATAGAGTCATGCAAAGGTTGAACAAGCTCTTCTCATTATGAAC
66 TATCTCCTTCTGTGATAGAGTCATGCAAAGGTTGAACAAGCTCTTCTAATTATGAAC
* * *
938648 TTCTTGTTCCTCTTCAGATAAGCTCTTCTCATTATGAGCTTTCTCTGGAAAAGTTGAT
1 TTCTTCTTCCTCTTCAGATAAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGTTGAT
938706 CCATCAAGTG
Statistics
Matches: 167, Mismatches: 12, Indels: 1
0.93 0.07 0.01
Matches are distributed among these distances:
121 38 0.23
122 129 0.77
ACGTcount: A:0.24, C:0.20, G:0.16, T:0.41
Consensus pattern (122 bp):
TTCTTCTTCCTCTTCAGATAAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGTTGATGCTGATC
TATCTCCTTCTGTGATAGAGTCATGCAAAGGTTGAACAAGCTCTTCTAATTATGAAC
Found at i:938771 original size:113 final size:113
Alignment explanation
Indices: 938617--939043 Score: 428
Period size: 113 Copynumber: 3.6 Consensus size: 113
938607 AGAGTCATGC
** * *
938617 AAAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTGTTCC-TCTTCAGATAAGCTCTTCTCATT
1 AAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGCTCTTCTCATT
938681 ATGAGCTTTCTCTGGAAAAGTTGATCCATCAAGTGATGAATTCAAGCA
66 ATGAGCTTTCTCTGGAAAAGTTGATCCATCAAGTGATGAATTCAAGCA
* * *
938729 AAATGTTTGAACAAATTCTTCTCATTATGAA-TATCTTCTTCCTTTTTCTGATGAGTTCTCCTTT
1 AAA-GGTTGAACAAATTCTTCTCATTATGAACT-TCTTCTTCCTTCTTCAGATGAG--CT-C-TT
* * * *** *
938793 TTC-TTATGAGTTCTTCTCATTATGAACTTCTTTGGAAAAGTTGATCCATCAAGTGATGAATTCA
60 CTCATTATGAGCT-TTCTC--T-GGAA--AAGTT-G---A--T--C-CATCAAGTGATGAATTCA
*
938857 AGAAA
110 AG-CA
*
938862 AAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
1 AAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGCTCTTCTCATT
* *
938927 ATGAACTTCCTCTGGAAAAGTTGATCCATCAAGTGATGAATTCAAGCA
66 ATGAGCTTTCTCTGGAAAAGTTGATCCATCAAGTGATGAATTCAAGCA
* * * * *
938975 AAAGGTTGAACAAATTCTTCTCATTATGAACTTATTCTTCCTTCTTTAAATGAGTTATTCTCATT
1 AAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGCTCTTCTCATT
939040 ATGA
66 ATGA
939044 ACTCTACCTG
Statistics
Matches: 257, Mismatches: 33, Indels: 49
0.76 0.10 0.14
Matches are distributed among these distances:
112 4 0.02
113 98 0.38
114 29 0.11
116 2 0.01
117 10 0.04
118 9 0.04
119 1 0.00
120 1 0.00
121 3 0.01
122 1 0.00
123 4 0.02
124 1 0.00
125 3 0.01
126 1 0.00
127 1 0.00
128 8 0.03
129 9 0.04
130 1 0.00
132 66 0.26
133 5 0.02
ACGTcount: A:0.29, C:0.19, G:0.14, T:0.39
Consensus pattern (113 bp):
AAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGCTCTTCTCATT
ATGAGCTTTCTCTGGAAAAGTTGATCCATCAAGTGATGAATTCAAGCA
Found at i:938792 original size:19 final size:19
Alignment explanation
Indices: 938768--938806 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
938758 AATATCTTCT
938768 TCCTTTTTCTGATGAGTTC
1 TCCTTTTTCTGATGAGTTC
*
938787 TCCTTTTTCTTATGAGTTC
1 TCCTTTTTCTGATGAGTTC
938806 T
1 T
938807 TCTCATTATG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.10, C:0.21, G:0.13, T:0.56
Consensus pattern (19 bp):
TCCTTTTTCTGATGAGTTC
Found at i:938871 original size:132 final size:133
Alignment explanation
Indices: 938671--938919 Score: 412
Period size: 132 Copynumber: 1.9 Consensus size: 133
938661 TCAGATAAGC
* * * *
938671 TCTTCTCATTATGAGCTTTCTCTGGAAAAGTTGATCCATCAAGTGATGAATTCAAGCAAAATGTT
1 TCTTCTCATTATGAACTTTCTCTGGAAAAGTTGATCCATCAAGTGATGAATTCAAGAAAAAAGGT
* *
938736 TGAACAAATTCTTCTCATTATGAA-TATCTTCTTCCTTTTTCTGATGAGTTCTCCTTTTTCTTAT
66 TGAACAAATTCTTCTCATTATGAACT-TCTTCTTCCTTCTTCAGATGAGTTCTCCTTTTTCTTAT
938800 GAGT
130 GAGT
*
938804 TCTTCTCATTATGAAC-TTCTTTGGAAAAGTTGATCCATCAAGTGATGAATTCAAGAAAAAAGGT
1 TCTTCTCATTATGAACTTTCTCTGGAAAAGTTGATCCATCAAGTGATGAATTCAAGAAAAAAGGT
938868 TGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCT
66 TGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCT
938920 TCTCATTATG
Statistics
Matches: 108, Mismatches: 7, Indels: 3
0.92 0.06 0.03
Matches are distributed among these distances:
132 92 0.85
133 16 0.15
ACGTcount: A:0.28, C:0.18, G:0.14, T:0.41
Consensus pattern (133 bp):
TCTTCTCATTATGAACTTTCTCTGGAAAAGTTGATCCATCAAGTGATGAATTCAAGAAAAAAGGT
TGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTCCTTTTTCTTATG
AGT
Found at i:942081 original size:15 final size:16
Alignment explanation
Indices: 942061--942101 Score: 50
Period size: 14 Copynumber: 2.7 Consensus size: 16
942051 CCTTTTGATA
*
942061 TTATTTTATTGAAT-T
1 TTATTTTAATGAATGT
942076 TTA-TTTAATGAATGT
1 TTATTTTAATGAATGT
*
942091 TTATCTTAATG
1 TTATTTTAATG
942102 TAAAAAACTA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
14 9 0.41
15 7 0.32
16 6 0.27
ACGTcount: A:0.29, C:0.02, G:0.10, T:0.59
Consensus pattern (16 bp):
TTATTTTAATGAATGT
Found at i:942165 original size:15 final size:15
Alignment explanation
Indices: 942117--942159 Score: 61
Period size: 15 Copynumber: 2.9 Consensus size: 15
942107 AACTATAAAG
942117 AAAAT-AATGTAATGA
1 AAAATGAATGT-ATGA
*
942132 ATAATGAATGTATGA
1 AAAATGAATGTATGA
942147 AAAATGAATGTAT
1 AAAATGAATGTAT
942160 ACAAAAGGTA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
15 20 0.80
16 5 0.20
ACGTcount: A:0.53, C:0.00, G:0.16, T:0.30
Consensus pattern (15 bp):
AAAATGAATGTATGA
Found at i:945432 original size:27 final size:27
Alignment explanation
Indices: 945402--945461 Score: 68
Period size: 27 Copynumber: 2.2 Consensus size: 27
945392 AAAATAAAAC
*
945402 TAAAAACATTAATAAAAATAA-TATATA
1 TAAAAACATGAA-AAAAATAAGTATATA
* * *
945429 TAAATATATGAAAATAATAAGTATATA
1 TAAAAACATGAAAAAAATAAGTATATA
945456 TAAAAA
1 TAAAAA
945462 TTTTAAAAAG
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
26 7 0.26
27 20 0.74
ACGTcount: A:0.65, C:0.02, G:0.03, T:0.30
Consensus pattern (27 bp):
TAAAAACATGAAAAAAATAAGTATATA
Found at i:945980 original size:23 final size:23
Alignment explanation
Indices: 945953--945996 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
945943 TTAAGAAACT
*
945953 ATATTAATTTATATATAAATAAG
1 ATATTAATTTATATAGAAATAAG
* *
945976 ATATTTATTTATTTAGAAATA
1 ATATTAATTTATATAGAAATA
945997 TCAGGAAAAG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.48, C:0.00, G:0.05, T:0.48
Consensus pattern (23 bp):
ATATTAATTTATATAGAAATAAG
Found at i:946298 original size:3 final size:3
Alignment explanation
Indices: 946290--946314 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
946280 TTACATGACT
946290 TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA T
946315 TAAATATATG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:946410 original size:36 final size:37
Alignment explanation
Indices: 946340--946415 Score: 95
Period size: 36 Copynumber: 2.1 Consensus size: 37
946330 ATAAAATTTA
*
946340 AAATATAAATAAACAATAACTAAAATTAACATTAAAT
1 AAATAAAAATAAACAATAACTAAAATTAACATTAAAT
*
946377 AAATAAAAAT-AACAATAA-TAAGACTTATA-ATTAAAT
1 AAATAAAAATAAACAATAACTAA-AATTA-ACATTAAAT
946413 AAA
1 AAA
946416 GGTATTAAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
35 3 0.09
36 22 0.63
37 10 0.29
ACGTcount: A:0.66, C:0.07, G:0.01, T:0.26
Consensus pattern (37 bp):
AAATAAAAATAAACAATAACTAAAATTAACATTAAAT
Found at i:947698 original size:29 final size:29
Alignment explanation
Indices: 947665--947722 Score: 71
Period size: 29 Copynumber: 2.0 Consensus size: 29
947655 AAACCTTGAA
* * *
947665 TGGGTTTAGGGTTTGTAGTTAGGCCGGTC
1 TGGGTTGAGCGTTTGTAATTAGGCCGGTC
* *
947694 TGGGTTGATCTTTTGTAATTAGGCCGGTC
1 TGGGTTGAGCGTTTGTAATTAGGCCGGTC
947723 CAGTTTTGGG
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
29 24 1.00
ACGTcount: A:0.12, C:0.12, G:0.36, T:0.40
Consensus pattern (29 bp):
TGGGTTGAGCGTTTGTAATTAGGCCGGTC
Found at i:947747 original size:3 final size:3
Alignment explanation
Indices: 947739--947818 Score: 94
Period size: 3 Copynumber: 26.7 Consensus size: 3
947729 TGGGTTTGTA
*
947739 AAT AAT AAT AAT AAT ATT AAT AAAT AAT AAT AAT -AT AAT AAAT AA-
1 AAT AAT AAT AAT AAT AAT AAT -AAT AAT AAT AAT AAT AAT -AAT AAT
*
947784 AAT AAT AAT AGT AAT AAAT AA- AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT -AAT AAT AAT AAT AAT AAT AA
947819 CAAATGGATG
Statistics
Matches: 67, Mismatches: 4, Indels: 12
0.81 0.05 0.14
Matches are distributed among these distances:
2 6 0.09
3 52 0.78
4 9 0.13
ACGTcount: A:0.68, C:0.00, G:0.01, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:950118 original size:20 final size:20
Alignment explanation
Indices: 950093--950133 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
950083 TACGTCACTT
950093 TTATGGTATACGATATGCGC
1 TTATGGTATACGATATGCGC
950113 TTATGGTATACGATATGCGC
1 TTATGGTATACGATATGCGC
950133 T
1 T
950134 GTAGAATTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.24, C:0.15, G:0.24, T:0.37
Consensus pattern (20 bp):
TTATGGTATACGATATGCGC
Found at i:950816 original size:70 final size:69
Alignment explanation
Indices: 950688--950819 Score: 174
Period size: 70 Copynumber: 1.9 Consensus size: 69
950678 TTGAGGGTTA
* * * ** * *
950688 TCCGGTATCGTTATTGCTTCGTCGAGGTCGAATTGATGGGTGAGATAAGGGATCATTACAGAAGC
1 TCCGGCATCGTAATTGCATCGTCGAGGTCGAATTGATGAATGAGATAAGGCATAATTACAGAAGC
950753 GTTT
66 GTTT
* *
950757 TCCGGCATCGTAATTGCATCGTCGAAGGTCGAATTGCTGAATGGGATAAGGCATAATTACAGA
1 TCCGGCATCGTAATTGCATCGTCG-AGGTCGAATTGATGAATGAGATAAGGCATAATTACAGA
950820 GTTATTGTTG
Statistics
Matches: 53, Mismatches: 9, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
69 21 0.40
70 32 0.60
ACGTcount: A:0.27, C:0.16, G:0.29, T:0.29
Consensus pattern (69 bp):
TCCGGCATCGTAATTGCATCGTCGAGGTCGAATTGATGAATGAGATAAGGCATAATTACAGAAGC
GTTT
Found at i:951529 original size:48 final size:48
Alignment explanation
Indices: 951411--951597 Score: 207
Period size: 50 Copynumber: 3.8 Consensus size: 48
951401 TAAGTATGTG
* *
951411 TTAAGTGCTACATTTTTTTATTTTATTCACTTACACCGGTGTA-GTATGT
1 TTAAGTGCTACACTTTTTTATTTTATTCACTTACACCGGCGTATGTA--T
*
951460 GTTAAGTGCTACACTTTTTTGTTTTATTCACTTACACCGGCGTATGTAT
1 -TTAAGTGCTACACTTTTTTATTTTATTCACTTACACCGGCGTATGTAT
* * * *
951509 TTAAGTGCTGCACTTTTTTGTTTTATTCGCTTATACCGGCGTAAGTTTGTA-
1 TTAAGTGCTACACTTTTTTATTTTATTCACTTACACCGGCGT-A---TGTAT
* * *
951560 TTAAGTGTTACACTTGTTTATTTTATTCAATTACACCG
1 TTAAGTGCTACACTTTTTTATTTTATTCACTTACACCG
951598 ATGTAAATAT
Statistics
Matches: 119, Mismatches: 13, Indels: 9
0.84 0.09 0.06
Matches are distributed among these distances:
48 39 0.33
49 2 0.02
50 40 0.34
51 34 0.29
52 4 0.03
ACGTcount: A:0.21, C:0.16, G:0.16, T:0.47
Consensus pattern (48 bp):
TTAAGTGCTACACTTTTTTATTTTATTCACTTACACCGGCGTATGTAT
Found at i:951587 original size:99 final size:98
Alignment explanation
Indices: 951411--951597 Score: 257
Period size: 99 Copynumber: 1.9 Consensus size: 98
951401 TAAGTATGTG
* * *
951411 TTAAGTGCTACATTTTTTTATTTTATTCACTTACACCGGTGTAGTATGTGTTAAGTGCTACACTT
1 TTAAGTGCTACACTTTTTTATTTTATTCACTTACACCGGCGTAGTATGTATTAAGTGCTACACTT
* * *
951476 TTTTGTTTTATTCACTTACACCGGCGTATGTAT
66 GTTTATTTTATTCAATTACACCGGCGTATGTAT
* * * * * *
951509 TTAAGTGCTGCACTTTTTTGTTTTATTCGCTTATACCGGCGTAAGTTTGTATTAAGTGTTACACT
1 TTAAGTGCTACACTTTTTTATTTTATTCACTTACACCGGCGT-AGTATGTATTAAGTGCTACACT
951574 TGTTTATTTTATTCAATTACACCG
65 TGTTTATTTTATTCAATTACACCG
951598 ATGTAAATAT
Statistics
Matches: 76, Mismatches: 12, Indels: 1
0.85 0.13 0.01
Matches are distributed among these distances:
98 36 0.47
99 40 0.53
ACGTcount: A:0.21, C:0.16, G:0.16, T:0.47
Consensus pattern (98 bp):
TTAAGTGCTACACTTTTTTATTTTATTCACTTACACCGGCGTAGTATGTATTAAGTGCTACACTT
GTTTATTTTATTCAATTACACCGGCGTATGTAT
Found at i:951611 original size:51 final size:51
Alignment explanation
Indices: 951392--951629 Score: 268
Period size: 51 Copynumber: 4.7 Consensus size: 51
951382 AGACATACTC
* * *
951392 ACACCGTTGTAAGTATGTGTTAAGTGCTACATTTTTTTATTTTATTCACTT
1 ACACCGGTGTAAGTATGTATTAAGTGCTACACTTTTTTATTTTATTCACTT
* *
951443 ACACCGGTGT-AGTATGTGTTAAGTGCTACACTTTTTTGTTTTATTCACTT
1 ACACCGGTGTAAGTATGTATTAAGTGCTACACTTTTTTATTTTATTCACTT
* * * * *
951493 ACACCGGCGTATGTA--T-TTAAGTGCTGCACTTTTTTGTTTTATTCGCTT
1 ACACCGGTGTAAGTATGTATTAAGTGCTACACTTTTTTATTTTATTCACTT
* * * * * *
951541 ATACCGGCGTAAGTTTGTATTAAGTGTTACACTTGTTTATTTTATTCAATT
1 ACACCGGTGTAAGTATGTATTAAGTGCTACACTTTTTTATTTTATTCACTT
* * * *
951592 ACACCGATGTAAATATGTATTAAGTGCAACATTTTTTT
1 ACACCGGTGTAAGTATGTATTAAGTGCTACACTTTTTT
951630 GCAGTATGAA
Statistics
Matches: 158, Mismatches: 25, Indels: 8
0.83 0.13 0.04
Matches are distributed among these distances:
48 42 0.27
49 1 0.01
50 48 0.30
51 67 0.42
ACGTcount: A:0.24, C:0.15, G:0.16, T:0.46
Consensus pattern (51 bp):
ACACCGGTGTAAGTATGTATTAAGTGCTACACTTTTTTATTTTATTCACTT
Found at i:955232 original size:18 final size:18
Alignment explanation
Indices: 955209--955243 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
955199 TATGTGATAT
955209 GTGGTCCTTCGGGACATA
1 GTGGTCCTTCGGGACATA
*
955227 GTGGTCCTTTGGGACAT
1 GTGGTCCTTCGGGACAT
955244 TTCTACGCGG
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:0.14, C:0.20, G:0.34, T:0.31
Consensus pattern (18 bp):
GTGGTCCTTCGGGACATA
Found at i:955263 original size:23 final size:23
Alignment explanation
Indices: 955229--955288 Score: 111
Period size: 23 Copynumber: 2.6 Consensus size: 23
955219 GGGACATAGT
*
955229 GGTCCTTTGGGACATTTCTACGC
1 GGTCCTTCGGGACATTTCTACGC
955252 GGTCCTTCGGGACATTTCTACGC
1 GGTCCTTCGGGACATTTCTACGC
955275 GGTCCTTCGGGACA
1 GGTCCTTCGGGACA
955289 AATATTTAGT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.13, C:0.28, G:0.28, T:0.30
Consensus pattern (23 bp):
GGTCCTTCGGGACATTTCTACGC
Found at i:959730 original size:18 final size:18
Alignment explanation
Indices: 959707--959741 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
959697 CAATTATTTT
*
959707 ATAATTTAAAGATTATAA
1 ATAATTTAAACATTATAA
959725 ATAATTTAAACATTATA
1 ATAATTTAAACATTATA
959742 TTACTAATAA
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:0.54, C:0.03, G:0.03, T:0.40
Consensus pattern (18 bp):
ATAATTTAAACATTATAA
Found at i:962739 original size:31 final size:28
Alignment explanation
Indices: 962688--962793 Score: 95
Period size: 29 Copynumber: 3.5 Consensus size: 28
962678 TTTTCATTTA
* *
962688 AATAATTAAAGTATTTTTTTTGGTTAAAAT
1 AATATTTAAAGTA--TTTTTTGATTAAAAT
* *
962718 AAGTATTTAAATTTATATTTTTGATCAAAAT
1 AA-TATTTAAA-GTAT-TTTTTGATTAAAAT
**
962749 AAATACCTAAAGTATTTTTTGATTAAAAT
1 -AATATTTAAAGTATTTTTTGATTAAAAT
962778 ATATATTTAAAGTATT
1 A-ATATTTAAAGTATT
962794 CGATTTTTTC
Statistics
Matches: 61, Mismatches: 10, Indels: 11
0.74 0.12 0.13
Matches are distributed among these distances:
28 1 0.02
29 25 0.41
30 6 0.10
31 25 0.41
32 4 0.07
ACGTcount: A:0.42, C:0.03, G:0.08, T:0.47
Consensus pattern (28 bp):
AATATTTAAAGTATTTTTTGATTAAAAT
Found at i:962929 original size:29 final size:30
Alignment explanation
Indices: 962876--962945 Score: 90
Period size: 29 Copynumber: 2.3 Consensus size: 30
962866 AAAAAATTAA
962876 ATACTTTAAGTACATATTTTGATAAAAAA-AAT
1 ATACTTTAAGTACATA---TGATAAAAAAGAAT
962908 ATAACTTTAAGTACATA-GATAAAAAAGAAT
1 AT-ACTTTAAGTACATATGATAAAAAAGAAT
962938 ATACTTTA
1 ATACTTTA
962946 GATACTTATT
Statistics
Matches: 36, Mismatches: 0, Indels: 7
0.84 0.00 0.16
Matches are distributed among these distances:
29 15 0.42
30 5 0.14
32 2 0.06
33 14 0.39
ACGTcount: A:0.51, C:0.07, G:0.07, T:0.34
Consensus pattern (30 bp):
ATACTTTAAGTACATATGATAAAAAAGAAT
Found at i:963564 original size:136 final size:136
Alignment explanation
Indices: 963320--963584 Score: 392
Period size: 136 Copynumber: 1.9 Consensus size: 136
963310 GAACTTTAGC
*
963320 AATGTAGCAATTTTGCCACCAAACTTTTAAACAATTTTCTTTTCTAGCACTGCACTTTTCAGCAG
1 AATGTAGCAATTTTGCCACCAAACTTATAAACAATTTTCTTTTCTAGCACTGCACTTTTCAGCAG
963385 CCAAGCATCGTCTGTCATTAGTAATATTTTACGACAAGATCGATAACAAAACATCCGTATTTCAT
66 CCAAGCATCGTCTGTCATTAGTAATATTTTACGACAAGATCGATAACAAAACATCCGTATTTCAT
963450 TCATTT
131 TCATTT
** *
963456 AATGTAGTGATTTTGCCACCAAACTTATAAACAATTTTCTTTTCTAGCACTGCCCTTTTC-GACA
1 AATGTAGCAATTTTGCCACCAAACTTATAAACAATTTTCTTTTCTAGCACTGCACTTTTCAG-CA
* * * * * *
963520 GCCAATCATCAT-TCGTCATT-GATCATATTTTGCGACAAGATCGATAACAAAACGTTCGTATTT
65 GCCAAGCATCGTCT-GTCATTAG-TAATATTTTACGACAAGATCGATAACAAAACATCCGTATTT
963583 CA
128 CA
963585 CTCAGTTTTC
Statistics
Matches: 116, Mismatches: 10, Indels: 6
0.88 0.08 0.05
Matches are distributed among these distances:
135 3 0.03
136 113 0.97
ACGTcount: A:0.31, C:0.22, G:0.12, T:0.35
Consensus pattern (136 bp):
AATGTAGCAATTTTGCCACCAAACTTATAAACAATTTTCTTTTCTAGCACTGCACTTTTCAGCAG
CCAAGCATCGTCTGTCATTAGTAATATTTTACGACAAGATCGATAACAAAACATCCGTATTTCAT
TCATTT
Found at i:964952 original size:24 final size:24
Alignment explanation
Indices: 964925--964975 Score: 102
Period size: 24 Copynumber: 2.1 Consensus size: 24
964915 TAAAATGTTA
964925 TTGTAGGTAATACTTTATTACCCC
1 TTGTAGGTAATACTTTATTACCCC
964949 TTGTAGGTAATACTTTATTACCCC
1 TTGTAGGTAATACTTTATTACCCC
964973 TTG
1 TTG
964976 GAGGGAATTC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.24, C:0.20, G:0.14, T:0.43
Consensus pattern (24 bp):
TTGTAGGTAATACTTTATTACCCC
Found at i:973851 original size:41 final size:41
Alignment explanation
Indices: 973794--973879 Score: 172
Period size: 41 Copynumber: 2.1 Consensus size: 41
973784 TTTCAAAATG
973794 TTTTGTTCCAACTTTATCAAAAGAAGCTTTAAGATCATCAA
1 TTTTGTTCCAACTTTATCAAAAGAAGCTTTAAGATCATCAA
973835 TTTTGTTCCAACTTTATCAAAAGAAGCTTTAAGATCATCAA
1 TTTTGTTCCAACTTTATCAAAAGAAGCTTTAAGATCATCAA
973876 TTTT
1 TTTT
973880 CTTTTGATGA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 45 1.00
ACGTcount: A:0.35, C:0.16, G:0.09, T:0.40
Consensus pattern (41 bp):
TTTTGTTCCAACTTTATCAAAAGAAGCTTTAAGATCATCAA
Found at i:975084 original size:88 final size:88
Alignment explanation
Indices: 974935--975110 Score: 352
Period size: 88 Copynumber: 2.0 Consensus size: 88
974925 TCATCTAGTC
974935 CAAGAGCACAAAATATGATATGAACGGCTTTGGAGTTGAGCTCGAACATTCTTGTCTCTCCTTCA
1 CAAGAGCACAAAATATGATATGAACGGCTTTGGAGTTGAGCTCGAACATTCTTGTCTCTCCTTCA
975000 CTCCACAATCTTGGATGAGTCTG
66 CTCCACAATCTTGGATGAGTCTG
975023 CAAGAGCACAAAATATGATATGAACGGCTTTGGAGTTGAGCTCGAACATTCTTGTCTCTCCTTCA
1 CAAGAGCACAAAATATGATATGAACGGCTTTGGAGTTGAGCTCGAACATTCTTGTCTCTCCTTCA
975088 CTCCACAATCTTGGATGAGTCTG
66 CTCCACAATCTTGGATGAGTCTG
975111 AGGCTTGATG
Statistics
Matches: 88, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
88 88 1.00
ACGTcount: A:0.27, C:0.23, G:0.20, T:0.30
Consensus pattern (88 bp):
CAAGAGCACAAAATATGATATGAACGGCTTTGGAGTTGAGCTCGAACATTCTTGTCTCTCCTTCA
CTCCACAATCTTGGATGAGTCTG
Found at i:988547 original size:22 final size:22
Alignment explanation
Indices: 988516--988579 Score: 101
Period size: 22 Copynumber: 2.9 Consensus size: 22
988506 AATGTAAATT
988516 TGTCCTGAAGGACCTATGTATA
1 TGTCCTGAAGGACCTATGTATA
* *
988538 TGTCCCGAAGGACCTCTGTATA
1 TGTCCTGAAGGACCTATGTATA
*
988560 TGTCTTGAAGGACCTATGTA
1 TGTCCTGAAGGACCTATGTA
988580 ACCCTCGACT
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 37 1.00
ACGTcount: A:0.25, C:0.20, G:0.23, T:0.31
Consensus pattern (22 bp):
TGTCCTGAAGGACCTATGTATA
Found at i:989300 original size:20 final size:20
Alignment explanation
Indices: 989245--989301 Score: 96
Period size: 20 Copynumber: 2.9 Consensus size: 20
989235 GTATCGTACC
*
989245 CCAGGTATCGATACCACCCT
1 CCAGGTATCGATACCTCCCT
*
989265 CCAGGTATCGATACCTCTCT
1 CCAGGTATCGATACCTCCCT
989285 CCAGGTATCGATACCTC
1 CCAGGTATCGATACCTC
989302 ATACATAATT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 35 1.00
ACGTcount: A:0.23, C:0.37, G:0.16, T:0.25
Consensus pattern (20 bp):
CCAGGTATCGATACCTCCCT
Found at i:994667 original size:22 final size:22
Alignment explanation
Indices: 994637--994678 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
994627 ATGTAAAATT
* *
994637 TGTCTCGAATGACCTATGTATA
1 TGTCCCGAAGGACCTATGTATA
994659 TGTCCCGAAGGACCTATGTA
1 TGTCCCGAAGGACCTATGTA
994679 ACCCTCGACT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.26, C:0.21, G:0.21, T:0.31
Consensus pattern (22 bp):
TGTCCCGAAGGACCTATGTATA
Found at i:997297 original size:41 final size:42
Alignment explanation
Indices: 997251--997335 Score: 102
Period size: 41 Copynumber: 2.0 Consensus size: 42
997241 CGGATCGGAA
* *
997251 TCGGGTCAGGTGGAGG-GTATATATTTTTGGGTCGGG-TTAGG
1 TCGGGTCAGGTGAAGGAGTA-AAATTTTTGGGTCGGGTTTAGG
* *
997292 TCGGGTCTGGTGAAGGATGTAAAATTTTTTGGTCGGGTTTAGG
1 TCGGGTCAGGTGAAGGA-GTAAAATTTTTGGGTCGGGTTTAGG
997335 T
1 T
997336 TGTGTTTCGG
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
41 14 0.38
42 14 0.38
43 9 0.24
ACGTcount: A:0.16, C:0.07, G:0.40, T:0.36
Consensus pattern (42 bp):
TCGGGTCAGGTGAAGGAGTAAAATTTTTGGGTCGGGTTTAGG
Found at i:1003113 original size:20 final size:20
Alignment explanation
Indices: 1003088--1003140 Score: 97
Period size: 20 Copynumber: 2.6 Consensus size: 20
1003078 AGGTTAACAT
1003088 TGGGGTATCGATACCTTGAG
1 TGGGGTATCGATACCTTGAG
1003108 TGGGGTATCGATACCTTGAG
1 TGGGGTATCGATACCTTGAG
*
1003128 TGGGGTACCGATA
1 TGGGGTATCGATA
1003141 TTGTAGGGCC
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.21, C:0.15, G:0.36, T:0.28
Consensus pattern (20 bp):
TGGGGTATCGATACCTTGAG
Found at i:1005924 original size:13 final size:13
Alignment explanation
Indices: 1005906--1005939 Score: 68
Period size: 13 Copynumber: 2.6 Consensus size: 13
1005896 CTAGCATGCT
1005906 CATGTAGTGAATA
1 CATGTAGTGAATA
1005919 CATGTAGTGAATA
1 CATGTAGTGAATA
1005932 CATGTAGT
1 CATGTAGT
1005940 ACAATACATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.35, C:0.09, G:0.24, T:0.32
Consensus pattern (13 bp):
CATGTAGTGAATA
Found at i:1006676 original size:20 final size:20
Alignment explanation
Indices: 1006651--1006698 Score: 87
Period size: 20 Copynumber: 2.4 Consensus size: 20
1006641 AAAAGAAAGG
*
1006651 CTAAACTATATGTTTAGTAT
1 CTAAACTATATGCTTAGTAT
1006671 CTAAACTATATGCTTAGTAT
1 CTAAACTATATGCTTAGTAT
1006691 CTAAACTA
1 CTAAACTA
1006699 ATATTACTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.38, C:0.15, G:0.08, T:0.40
Consensus pattern (20 bp):
CTAAACTATATGCTTAGTAT
Found at i:1013286 original size:36 final size:36
Alignment explanation
Indices: 1013245--1013321 Score: 154
Period size: 36 Copynumber: 2.1 Consensus size: 36
1013235 AGAATAGACA
1013245 ATAACTTAACAAACTCACTTCCATTATCAAAGAATG
1 ATAACTTAACAAACTCACTTCCATTATCAAAGAATG
1013281 ATAACTTAACAAACTCACTTCCATTATCAAAGAATG
1 ATAACTTAACAAACTCACTTCCATTATCAAAGAATG
1013317 ATAAC
1 ATAAC
1013322 ACAATGGATC
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 41 1.00
ACGTcount: A:0.45, C:0.22, G:0.05, T:0.27
Consensus pattern (36 bp):
ATAACTTAACAAACTCACTTCCATTATCAAAGAATG
Found at i:1014509 original size:39 final size:39
Alignment explanation
Indices: 1014447--1014542 Score: 124
Period size: 39 Copynumber: 2.5 Consensus size: 39
1014437 AAGTTTTGGG
* *
1014447 ATTTGTTCATCAATGGAAGATAGTGG-GAAAAGC-TCTAAA
1 ATTTATTCATCAATGGAAAATAGTGGAG-AAAGCTTC-AAA
* *
1014486 ATTTATTCATCAATGTAAAATAGTGGAGAAATCTTCAAA
1 ATTTATTCATCAATGGAAAATAGTGGAGAAAGCTTCAAA
1014525 ATTTATTCATCAATGGAA
1 ATTTATTCATCAATGGAA
1014543 GATAACGTTG
Statistics
Matches: 50, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
39 47 0.94
40 3 0.06
ACGTcount: A:0.41, C:0.10, G:0.17, T:0.32
Consensus pattern (39 bp):
ATTTATTCATCAATGGAAAATAGTGGAGAAAGCTTCAAA
Found at i:1015808 original size:6 final size:6
Alignment explanation
Indices: 1015797--1015824 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
1015787 CTTCTCTCCT
1015797 TCCGCC TCCGCC TCCGCC TCCGCC TCCG
1 TCCGCC TCCGCC TCCGCC TCCGCC TCCG
1015825 GTCAGTCCTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.00, C:0.64, G:0.18, T:0.18
Consensus pattern (6 bp):
TCCGCC
Found at i:1024706 original size:22 final size:22
Alignment explanation
Indices: 1024678--1024723 Score: 83
Period size: 22 Copynumber: 2.1 Consensus size: 22
1024668 GTAGTGACCA
1024678 TTCCTCTATTGTTTTTCATATC
1 TTCCTCTATTGTTTTTCATATC
*
1024700 TTCCTCTATTGTTTTTCATTTC
1 TTCCTCTATTGTTTTTCATATC
1024722 TT
1 TT
1024724 GCGGAATATG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.11, C:0.22, G:0.04, T:0.63
Consensus pattern (22 bp):
TTCCTCTATTGTTTTTCATATC
Found at i:1025280 original size:20 final size:22
Alignment explanation
Indices: 1025241--1025282 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
1025231 TGATAATTTC
1025241 TTTTTCAAAAACCCATTTATTA
1 TTTTTCAAAAACCCATTTATTA
*
1025263 TTTTT-AAAACCCCA-TTATTA
1 TTTTTCAAAAACCCATTTATTA
1025283 ATTGAGAACC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 6 0.32
21 8 0.42
22 5 0.26
ACGTcount: A:0.36, C:0.19, G:0.00, T:0.45
Consensus pattern (22 bp):
TTTTTCAAAAACCCATTTATTA
Found at i:1032792 original size:24 final size:24
Alignment explanation
Indices: 1032765--1032818 Score: 99
Period size: 24 Copynumber: 2.2 Consensus size: 24
1032755 CCGGTTGATT
1032765 TTCAAACTAAGGGGCTGCTTTGAA
1 TTCAAACTAAGGGGCTGCTTTGAA
*
1032789 TTCAAATTAAGGGGCTGCTTTGAA
1 TTCAAACTAAGGGGCTGCTTTGAA
1032813 TTCAAA
1 TTCAAA
1032819 ATAGGGTGGC
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.31, C:0.15, G:0.22, T:0.31
Consensus pattern (24 bp):
TTCAAACTAAGGGGCTGCTTTGAA
Found at i:1032829 original size:25 final size:24
Alignment explanation
Indices: 1032765--1032830 Score: 96
Period size: 24 Copynumber: 2.7 Consensus size: 24
1032755 CCGGTTGATT
*
1032765 TTCAAACTAAGGGGCTGCTTTGAA
1 TTCAAAATAAGGGGCTGCTTTGAA
*
1032789 TTCAAATTAAGGGGCTGCTTTGAA
1 TTCAAAATAAGGGGCTGCTTTGAA
*
1032813 TTCAAAATAGGGTGGCTG
1 TTCAAAATAAGG-GGCTG
1032831 TTTTAGTTGA
Statistics
Matches: 38, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
24 33 0.87
25 5 0.13
ACGTcount: A:0.29, C:0.14, G:0.27, T:0.30
Consensus pattern (24 bp):
TTCAAAATAAGGGGCTGCTTTGAA
Found at i:1035164 original size:24 final size:24
Alignment explanation
Indices: 1035136--1035181 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
1035126 CTATAAGGCC
1035136 GGTTGATTTTCAAACTAAGGGGTT
1 GGTTGATTTTCAAACTAAGGGGTT
* *
1035160 GGTTGATTTTTAAATTAAGGGG
1 GGTTGATTTTCAAACTAAGGGG
1035182 CTGCTTTGAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.26, C:0.04, G:0.30, T:0.39
Consensus pattern (24 bp):
GGTTGATTTTCAAACTAAGGGGTT
Found at i:1043064 original size:73 final size:73
Alignment explanation
Indices: 1042943--1043123 Score: 209
Period size: 73 Copynumber: 2.4 Consensus size: 73
1042933 AATGACTAGG
* * * * * * *
1042943 GGTATCGGTACCTCTAAGGGGGTATCGGTATCCATAGGGCATTATGTTTTTCTCAGAGCCAAGAT
1 GGTATCGGTACCTATTA-GGGGTATCGGTACCCATAGGACAATATGTTTTTCTCAGAACCAAAAT
*
1043008 TTGCATAAA
65 TGGCATAAA
* * *
1043017 GGTATCAGTACCTATTAGGGGTATCGGTACCCATTGGACAATCTGTTTTTCTCAGAACCAAAATT
1 GGTATCGGTACCTATTAGGGGTATCGGTACCCATAGGACAATATGTTTTTCTCAGAACCAAAATT
**
1043082 GGCATAGG
66 GGCATAAA
1043090 GGTATCGGTACACCATATTAGGGGTATCGGTACC
1 GGTATCGGT--ACC-TATTAGGGGTATCGGTACC
1043124 TCCCTATTTA
Statistics
Matches: 90, Mismatches: 14, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
73 54 0.60
74 14 0.16
75 3 0.03
76 19 0.21
ACGTcount: A:0.26, C:0.19, G:0.25, T:0.30
Consensus pattern (73 bp):
GGTATCGGTACCTATTAGGGGTATCGGTACCCATAGGACAATATGTTTTTCTCAGAACCAAAATT
GGCATAAA
Found at i:1043802 original size:20 final size:20
Alignment explanation
Indices: 1043754--1043805 Score: 63
Period size: 20 Copynumber: 2.6 Consensus size: 20
1043744 ATTCAAGTTC
*
1043754 AAACATCCAAA-CATCCATA
1 AAACATCAAAATCATCCATA
1043773 AAACATTCAAAATCAATCCA-A
1 AAACA-TCAAAATC-ATCCATA
1043794 AAACATCAAAAT
1 AAACATCAAAAT
1043806 GTTTAACAAT
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
19 5 0.17
20 12 0.41
21 7 0.24
22 5 0.17
ACGTcount: A:0.58, C:0.25, G:0.00, T:0.17
Consensus pattern (20 bp):
AAACATCAAAATCATCCATA
Found at i:1045015 original size:12 final size:12
Alignment explanation
Indices: 1044998--1045027 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
1044988 TGGTTGAAAA
1044998 GGAGGTGGATTT
1 GGAGGTGGATTT
1045010 GGAGGTGGATTT
1 GGAGGTGGATTT
*
1045022 TGAGGT
1 GGAGGT
1045028 CAGTTTGAAC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.17, C:0.00, G:0.50, T:0.33
Consensus pattern (12 bp):
GGAGGTGGATTT
Found at i:1045392 original size:20 final size:22
Alignment explanation
Indices: 1045343--1045398 Score: 80
Period size: 23 Copynumber: 2.6 Consensus size: 22
1045333 TACCTTTATG
1045343 GGGGTATCGATACACATTCAAA
1 GGGGTATCGATACACATTCAAA
*
1045365 TGGGGTATCGATACACGTT-AAA
1 -GGGGTATCGATACACATTCAAA
1045387 -GGGTATCGATAC
1 GGGGTATCGATAC
1045399 CTGGTGCACA
Statistics
Matches: 32, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
20 12 0.38
22 3 0.09
23 17 0.53
ACGTcount: A:0.32, C:0.16, G:0.27, T:0.25
Consensus pattern (22 bp):
GGGGTATCGATACACATTCAAA
Found at i:1050446 original size:74 final size:74
Alignment explanation
Indices: 1050317--1050482 Score: 217
Period size: 74 Copynumber: 2.2 Consensus size: 74
1050307 GTTAAATGAC
* * * * *
1050317 TAGGGGTATCCGTACCCATAGGACATTCTGTTTTTCTCGGAGCCAAGATTTGCATAGGGGTATCG
1 TAGGGGTAT-CGTACCCATAGGACAATCTGTTTTTCTCAGAACCAAAATTGGCATAGGGGTATCG
1050382 G-TACCCTAT
65 GATACCCTAT
* * *
1050391 TAGGGGTATCGATACCCATTGGGCAATCTGTTTTTCTTAGAACCAAAATTGGCATAGGGGTATCG
1 TAGGGGTATCG-TACCCATAGGACAATCTGTTTTTCTCAGAACCAAAATTGGCATAGGGGTATCG
1050456 GTATACCCTAT
65 G-ATACCCTAT
1050467 TAGGGGTATCGGTACC
1 TAGGGGTATC-GTACC
1050483 TCCCTATTTA
Statistics
Matches: 80, Mismatches: 8, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
73 2 0.03
74 55 0.69
76 22 0.28
77 1 0.01
ACGTcount: A:0.23, C:0.20, G:0.26, T:0.31
Consensus pattern (74 bp):
TAGGGGTATCGTACCCATAGGACAATCTGTTTTTCTCAGAACCAAAATTGGCATAGGGGTATCGG
ATACCCTAT
Found at i:1051921 original size:27 final size:28
Alignment explanation
Indices: 1051858--1051923 Score: 75
Period size: 27 Copynumber: 2.4 Consensus size: 28
1051848 AAAATTTGAT
*
1051858 AAATAAAT-AAATAATAATAATATAACC
1 AAATAAATAAAATAATAATAATATAACA
* *
1051885 TAATATATAAAATAAT-ATAAT-TAACA
1 AAATAAATAAAATAATAATAATATAACA
1051911 AAATGAAATAAAA
1 AAAT-AAATAAAA
1051924 AAGAAAAATA
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
26 7 0.22
27 18 0.56
28 7 0.22
ACGTcount: A:0.67, C:0.05, G:0.02, T:0.27
Consensus pattern (28 bp):
AAATAAATAAAATAATAATAATATAACA
Found at i:1052038 original size:35 final size:35
Alignment explanation
Indices: 1051996--1052418 Score: 149
Period size: 30 Copynumber: 12.6 Consensus size: 35
1051986 AAAAACTATT
* *
1051996 TTTAAAAACTATATTA-TATATGCTTTCAAAACCGG
1 TTTAAAAACTATA-TACTATACGCTTTCAAAACCAG
* * *
1052031 TTTAAAAACTATATACTATACGTTTTCAAAACTAT
1 TTTAAAAACTATATACTATACGCTTTCAAAACCAG
* * *
1052066 TTTAAAAAC--TAT--T-TACGTTTTCAAAACTAT
1 TTTAAAAACTATATACTATACGCTTTCAAAACCAG
* ** *
1052096 TTTAAAAAC--TAT--T-TACGTTTTCAAAATTAT
1 TTTAAAAACTATATACTATACGCTTTCAAAACCAG
** *
1052126 TTTAAAAACTATATAC-AT----TTTCAAAATTAT
1 TTTAAAAACTATATACTATACGCTTTCAAAACCAG
* * ** *
1052156 TTTAAAAACTATAT--TATATGTTTTCAAAATTAT
1 TTTAAAAACTATATACTATACGCTTTCAAAACCAG
** * * ** *
1052189 TTTAAAAACGGTAT--TATATGTTTTCAAAATTAT
1 TTTAAAAACTATATACTATACGCTTTCAAAACCAG
* * * ** *
1052222 TTTAAAAA-T-TATATTATATGTTTTCAAAATTAT
1 TTTAAAAACTATATACTATACGCTTTCAAAACCAG
* *
1052255 TTTAAAAAACTATATACTATATGTTTTCAAAACC-G
1 TTT-AAAAACTATATACTATACGCTTTCAAAACCAG
* * * * *
1052290 TTTAAAAACTATATATTATATGTTTTCAAAACTATTT
1 TTTAAAAACTATATACTATACGCTTTCAAAACCA--G
* *** **
1052327 TTTAAAAACTATATATTAT-TTTTTTCAAAATTA-
1 TTTAAAAACTATATACTATACGCTTTCAAAACCAG
* * * **
1052360 TCTTAAAAACTATATGCTATATGTTTTCAAAAATAG
1 T-TTAAAAACTATATACTATACGCTTTCAAAACCAG
*
1052396 TTTTAAAAACTATATATTATACG
1 -TTTAAAAACTATATACTATACG
1052419 TTTTTTAAAA
Statistics
Matches: 340, Mismatches: 25, Indels: 45
0.83 0.06 0.11
Matches are distributed among these distances:
29 2 0.01
30 81 0.24
31 4 0.01
32 3 0.01
33 77 0.23
34 52 0.15
35 52 0.15
36 49 0.14
37 20 0.06
ACGTcount: A:0.42, C:0.10, G:0.04, T:0.44
Consensus pattern (35 bp):
TTTAAAAACTATATACTATACGCTTTCAAAACCAG
Found at i:1052083 original size:30 final size:31
Alignment explanation
Indices: 1052047--1052408 Score: 309
Period size: 33 Copynumber: 11.0 Consensus size: 31
1052037 AACTATATAC
*
1052047 TATACGTTTTCAAAACTATTTTAAAAACTAT
1 TATACGTTTTCAAAATTATTTTAAAAACTAT
*
1052078 T-TACGTTTTCAAAACTATTTTAAAAACTAT
1 TATACGTTTTCAAAATTATTTTAAAAACTAT
1052108 T-TACGTTTTCAAAATTATTTTAAAAACTA-
1 TATACGTTTTCAAAATTATTTTAAAAACTAT
*
1052137 TATACATTTTCAAAATTATTTTAAAAACTATAT
1 TATACGTTTTCAAAATTATTTTAAAAAC--TAT
*
1052170 TATATGTTTTCAAAATTATTTTAAAAACGGTAT
1 TATACGTTTTCAAAATTATTTTAAAAAC--TAT
* *
1052203 TATATGTTTTCAAAATTATTTTAAAAATTATAT
1 TATACGTTTTCAAAATTATTTTAAAAA--CTAT
*
1052236 TATATGTTTTCAAAATTATTTTAAAAAACTATAT
1 TATACGTTTTCAAAATTATTTT-AAAAAC--TAT
* ***
1052270 ACTATATGTTTTCAAAA-CCGTTTAAAAACTATATAT
1 --TATACGTTTTCAAAATTATTTTAAAAAC----TAT
* *
1052306 TATATGTTTTCAAAACTATTTTTTAAAAACTAT
1 TATACGTTTTCAAAA-T-TATTTTAAAAACTAT
** *
1052339 ATATTATTTTTTTCAAAATTATCTTAAAAACTATAT
1 -TA-TA-CGTTTTCAAAATTATTTTAAAAAC--TAT
* *
1052375 GCTATATGTTTTCAAAAATAGTTTTAAAAACTAT
1 --TATACGTTTTCAAAATTA-TTTTAAAAACTAT
1052409 ATATTATACG
Statistics
Matches: 287, Mismatches: 21, Indels: 43
0.82 0.06 0.12
Matches are distributed among these distances:
29 1 0.00
30 82 0.29
31 1 0.00
32 2 0.01
33 84 0.29
34 44 0.15
35 18 0.06
36 44 0.15
37 11 0.04
ACGTcount: A:0.42, C:0.09, G:0.04, T:0.45
Consensus pattern (31 bp):
TATACGTTTTCAAAATTATTTTAAAAACTAT
Done.