Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008075.1 Hibiscus syriacus cultivar Beakdansim tig00110577_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: 1947163
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 5 of 10
Found at i:846275 original size:27 final size:29
Alignment explanation
Indices: 846245--846303 Score: 79
Period size: 29 Copynumber: 2.1 Consensus size: 29
846235 TAAATTTTAA
*
846245 TTAATT-AA-AAATAAAAGTAA-ATATATC
1 TTAATTAAATAAATAAAA-AAATATATATC
846272 TTAATTAAATAAATAAAAAAATATATATC
1 TTAATTAAATAAATAAAAAAATATATATC
846301 TTA
1 TTA
846304 TTTTTTTTCA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
27 6 0.21
28 4 0.14
29 18 0.64
ACGTcount: A:0.59, C:0.03, G:0.02, T:0.36
Consensus pattern (29 bp):
TTAATTAAATAAATAAAAAAATATATATC
Found at i:847748 original size:33 final size:33
Alignment explanation
Indices: 847700--847768 Score: 111
Period size: 33 Copynumber: 2.1 Consensus size: 33
847690 ATTTAATTTA
** *
847700 TATAAATTTTGATAGTTTATATATTAAATATGC
1 TATAAATTTCAATAGTTTATATATTAAATATAC
847733 TATAAATTTCAATAGTTTATATATTAAATATAC
1 TATAAATTTCAATAGTTTATATATTAAATATAC
847766 TAT
1 TAT
847769 TTTTCCAGTA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.42, C:0.04, G:0.06, T:0.48
Consensus pattern (33 bp):
TATAAATTTCAATAGTTTATATATTAAATATAC
Found at i:853681 original size:2 final size:2
Alignment explanation
Indices: 853676--853705 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
853666 GTGTGTGTGT
*
853676 GA GA GA GA GA GA GT GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
853706 CCCTCATGGA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.47, C:0.00, G:0.50, T:0.03
Consensus pattern (2 bp):
GA
Found at i:853693 original size:14 final size:14
Alignment explanation
Indices: 853674--853702 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
853664 AGGTGTGTGT
853674 GTGAGAGAGAGAGA
1 GTGAGAGAGAGAGA
853688 GTGAGAGAGAGAGA
1 GTGAGAGAGAGAGA
853702 G
1 G
853703 AGACCCTCAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.41, C:0.00, G:0.52, T:0.07
Consensus pattern (14 bp):
GTGAGAGAGAGAGA
Found at i:863995 original size:388 final size:387
Alignment explanation
Indices: 863231--864014 Score: 1300
Period size: 388 Copynumber: 2.0 Consensus size: 387
863221 TTTTCTCTTA
* * *
863231 TATTATCTTATAAGTGGCATGTTATTTTGTACTAAGTATTATTTCTTTGTTGTATCTACCTTCAA
1 TATTATCTTACAAATGGCATATTATTTTGTACTAAGTATTATTTCTTTGTTGTATCTACCTTCAA
* *
863296 GGTGATGCCTTTATGACAACTACCTATTGAGCAAGTATAACCCAAGTTGGGGAGAAATAGCATTT
66 GGTGATGCCTTTATAACAACTACCTATTGAGCAAGTATAACCCAAGTTGGGGAGAAATAGCACTT
* *
863361 TGTTCCAAAAAAGCCAACTTATCATTTTAAGAGATGGCTCTCTATATTTTCTTCGATTTAGATGT
131 TGTTCCAAAAAAGCCAACTTATCATTATAAGAGATGGCTCTCTATATTATCTTCGATTTAGATGT
**
863426 TACAAACAATTCCCTTTGAGTGATTATTACCTAATGAATGGATTAATGCAAGTTCTCTTGCAAAT
196 TACAAACAAAGCCCTTTGAGTGATTATTACCTAATGAATGGATTAATGCAAGTTCTCTTGCAAAT
* * *
863491 TTGTGTTTATGGAAATTCTTATGAATTTAATATCTTTTAGATTTCTTTCTTATTTGGATAAACTT
261 TTGTGTTTATAGAAATTCTTATGAATTCAATATCTTTTAGATTTCTTTCTTATTTGGATAAAATT
* *
863556 ATATTGTCTTTTTATTTTTCTGCACAATTGTTCATTTGAAATTTATTGGGTTCTTTTTTCAT
326 ATATTGTCTTTTTATTTTTCTGCACAAGTGTTAATTTGAAATTTATTGGGTTCTTTTTTCAT
* * *
863618 TATTATTTTACAAATGGCATATTATTTTGTACTAAGTATTATTTCTTTGGTTGTATTTCCCTTCA
1 TATTATCTTACAAATGGCATATTATTTTGTACTAAGTATTATTTCTTT-GTTGTATCTACCTTCA
* *
863683 AGTTGATGCCTTTATAACAACTACCTATTGAGCAAGTATAGCCCAAGTTGGGGAGAAATAGCACT
65 AGGTGATGCCTTTATAACAACTACCTATTGAGCAAGTATAACCCAAGTTGGGGAGAAATAGCACT
863748 TTGTTCCAAAAAAGCCAACTTATCATTATAAGAGATCGGCTCTCTATATTATCTTCGATTTAGAT
130 TTGTTCCAAAAAAGCCAACTTATCATTATAAGAGAT-GGCTCTCTATATTATCTTCGATTTAGAT
* *
863813 GTTACAAACAAAGCCCTTTGAGTGGTTATTACCTCATGAATGGATTAATGCAAGTTCTCTTGCAA
194 GTTACAAACAAAGCCCTTTGAGTGATTATTACCTAATGAATGGATTAATGCAAGTTCTCTTGCAA
* * * * *
863878 ATTTTTGTTTTTAGAAATTCTTCTGAATTCAGTATTTTTTAGATTTCTTTCTTATTTGGATAAAA
259 ATTTGTGTTTATAGAAATTCTTATGAATTCAATATCTTTTAGATTTCTTTCTTATTTGGATAAAA
863943 TTATATTGT-TTTTTATTTTTCTGCACAAGTGTTAATTTGAAATTTATTGGGTTCTTTTTTCAT
324 TTATATTGTCTTTTTATTTTTCTGCACAAGTGTTAATTTGAAATTTATTGGGTTCTTTTTTCAT
*
864006 TATTCTCTT
1 TATTATCTT
864015 TCTCTGCAGC
Statistics
Matches: 367, Mismatches: 28, Indels: 3
0.92 0.07 0.01
Matches are distributed among these distances:
387 44 0.12
388 169 0.46
389 154 0.42
ACGTcount: A:0.28, C:0.14, G:0.14, T:0.44
Consensus pattern (387 bp):
TATTATCTTACAAATGGCATATTATTTTGTACTAAGTATTATTTCTTTGTTGTATCTACCTTCAA
GGTGATGCCTTTATAACAACTACCTATTGAGCAAGTATAACCCAAGTTGGGGAGAAATAGCACTT
TGTTCCAAAAAAGCCAACTTATCATTATAAGAGATGGCTCTCTATATTATCTTCGATTTAGATGT
TACAAACAAAGCCCTTTGAGTGATTATTACCTAATGAATGGATTAATGCAAGTTCTCTTGCAAAT
TTGTGTTTATAGAAATTCTTATGAATTCAATATCTTTTAGATTTCTTTCTTATTTGGATAAAATT
ATATTGTCTTTTTATTTTTCTGCACAAGTGTTAATTTGAAATTTATTGGGTTCTTTTTTCAT
Found at i:867846 original size:46 final size:46
Alignment explanation
Indices: 867779--867870 Score: 175
Period size: 46 Copynumber: 2.0 Consensus size: 46
867769 CTTTAGAAAA
*
867779 ATATGCATCTACTTTTTGTCTGTTATTTCAGTTAAAAGGAGTGTTG
1 ATATGCATCTACTTTTTGTCTGTTATTTCAGTTAAAAAGAGTGTTG
867825 ATATGCATCTACTTTTTGTCTGTTATTTCAGTTAAAAAGAGTGTTG
1 ATATGCATCTACTTTTTGTCTGTTATTTCAGTTAAAAAGAGTGTTG
867871 GGACAATTTT
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 45 1.00
ACGTcount: A:0.25, C:0.11, G:0.18, T:0.46
Consensus pattern (46 bp):
ATATGCATCTACTTTTTGTCTGTTATTTCAGTTAAAAAGAGTGTTG
Found at i:870449 original size:24 final size:24
Alignment explanation
Indices: 870389--870449 Score: 97
Period size: 24 Copynumber: 2.6 Consensus size: 24
870379 TGGCACTATA
870389 GTGC-ATTTCTACGTGGCACTTCG
1 GTGCAATTTCTACGTGGCACTTCG
*
870412 GTGCAAATTCTACGTGGCACTTCG
1 GTGCAATTTCTACGTGGCACTTCG
*
870436 GTGCAATTTATACG
1 GTGCAATTTCTACG
870450 AGCTGTGGTG
Statistics
Matches: 34, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
23 4 0.12
24 30 0.88
ACGTcount: A:0.20, C:0.23, G:0.25, T:0.33
Consensus pattern (24 bp):
GTGCAATTTCTACGTGGCACTTCG
Found at i:877038 original size:23 final size:24
Alignment explanation
Indices: 877001--877049 Score: 64
Period size: 23 Copynumber: 2.1 Consensus size: 24
876991 ATATTTTGCA
*
877001 TTTTATATTTCATTTTT-ATTTTT
1 TTTTATATTTCATTTTTCATGTTT
* *
877024 TTTTATTTTTTATTTTTCATGTTT
1 TTTTATATTTCATTTTTCATGTTT
877048 TT
1 TT
877050 ACATTCGTAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
23 15 0.68
24 7 0.32
ACGTcount: A:0.14, C:0.04, G:0.02, T:0.80
Consensus pattern (24 bp):
TTTTATATTTCATTTTTCATGTTT
Found at i:895171 original size:106 final size:108
Alignment explanation
Indices: 894908--895176 Score: 269
Period size: 110 Copynumber: 2.5 Consensus size: 108
894898 CTTCCCAATT
* * **
894908 TCAGAGCTAATTTCAACTTCACAACGAAGGATATTGGACTCAATACAACACAAGCTCAACTTCAC
1 TCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCAGGACAACACAAGCTCAACTTCAC
* ** * *
894973 AAAGAAGGGGCGACTGGTTGTCAACAATCAACTTTTCAGTTTC
66 AAAGAACGGGCGACTGACTATCAACAATCAACTTTCCAGTTTC
* * **
895016 ATTTAGAGTCAATTTCAACTTCACAGTTAAGGATATTGGACTC-GAGACAACACAAGCTCAACTT
1 --TCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCAG-GACAACACAAGCTCAACTT
* ** **
895080 CATAGCGAACGGGCGGTTGACTATCAACAAAT-AA-TTTCCTAG-TTC
63 CACAAAGAACGGGCGACTGACTATCAAC-AATCAACTTTCC-AGTTTC
* * *
895125 -CAGAGCCAATTTCAACTTCACGGCGGAGGATATTGGACTCAGGACAATACAA
1 TCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCAGGACAACACAA
895177 CTTACTTGGA
Statistics
Matches: 130, Mismatches: 25, Indels: 12
0.78 0.15 0.07
Matches are distributed among these distances:
106 43 0.33
107 1 0.01
109 7 0.05
110 76 0.58
111 3 0.02
ACGTcount: A:0.35, C:0.22, G:0.18, T:0.25
Consensus pattern (108 bp):
TCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCAGGACAACACAAGCTCAACTTCAC
AAAGAACGGGCGACTGACTATCAACAATCAACTTTCCAGTTTC
Found at i:897695 original size:15 final size:15
Alignment explanation
Indices: 897675--897740 Score: 105
Period size: 15 Copynumber: 4.4 Consensus size: 15
897665 TTCCGGAAAA
*
897675 TGAATTACTGGAGTT
1 TGAATTACTGGAATT
897690 TGAATTACTGGAATT
1 TGAATTACTGGAATT
**
897705 TGAATTACTGGAAAA
1 TGAATTACTGGAATT
897720 TGAATTACTGGAATT
1 TGAATTACTGGAATT
897735 TGAATT
1 TGAATT
897741 CTGAAAAATG
Statistics
Matches: 46, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 46 1.00
ACGTcount: A:0.35, C:0.06, G:0.21, T:0.38
Consensus pattern (15 bp):
TGAATTACTGGAATT
Found at i:897711 original size:30 final size:30
Alignment explanation
Indices: 897675--897756 Score: 121
Period size: 30 Copynumber: 2.8 Consensus size: 30
897665 TTCCGGAAAA
***
897675 TGAATTACTGGAGTTTGAATTACTGGAATT
1 TGAATTACTGGAAAATGAATTACTGGAATT
897705 TGAATTACTGGAAAATGAATTACTGGAATT
1 TGAATTACTGGAAAATGAATTACTGGAATT
*
897735 TGAATT-CTGAAAAATGAATTAC
1 TGAATTACTGGAAAATGAATTAC
897757 ATTTCTGGAA
Statistics
Matches: 48, Mismatches: 4, Indels: 1
0.91 0.08 0.02
Matches are distributed among these distances:
29 15 0.31
30 33 0.69
ACGTcount: A:0.38, C:0.07, G:0.20, T:0.35
Consensus pattern (30 bp):
TGAATTACTGGAAAATGAATTACTGGAATT
Found at i:897754 original size:14 final size:15
Alignment explanation
Indices: 897669--897756 Score: 97
Period size: 15 Copynumber: 5.9 Consensus size: 15
897659 TTGGTTTTCC
897669 GGAAAATGAATTACT
1 GGAAAATGAATTACT
***
897684 GGAGTTTGAATTACT
1 GGAAAATGAATTACT
**
897699 GGAATTTGAATTACT
1 GGAAAATGAATTACT
897714 GGAAAATGAATTACT
1 GGAAAATGAATTACT
**
897729 GGAATTTGAATT-CT
1 GGAAAATGAATTACT
*
897743 GAAAAATGAATTAC
1 GGAAAATGAATTAC
897757 ATTTCTGGAA
Statistics
Matches: 61, Mismatches: 11, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
14 11 0.18
15 50 0.82
ACGTcount: A:0.40, C:0.07, G:0.20, T:0.33
Consensus pattern (15 bp):
GGAAAATGAATTACT
Found at i:897762 original size:20 final size:20
Alignment explanation
Indices: 897739--897788 Score: 82
Period size: 20 Copynumber: 2.5 Consensus size: 20
897729 GGAATTTGAA
897739 TTCTGAAAAATGAATTACAT
1 TTCTGAAAAATGAATTACAT
*
897759 TTCTGGAAAATGAATTACAT
1 TTCTGAAAAATGAATTACAT
897779 TTCTGGAAAA
1 TTCT-GAAAA
897789 CATCTGAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
20 23 0.85
21 4 0.15
ACGTcount: A:0.42, C:0.10, G:0.14, T:0.34
Consensus pattern (20 bp):
TTCTGAAAAATGAATTACAT
Found at i:898042 original size:30 final size:28
Alignment explanation
Indices: 897986--898087 Score: 93
Period size: 30 Copynumber: 3.5 Consensus size: 28
897976 TTTACTAAAA
*
897986 TATTATTGAAATATATAAATAA-TATTAT
1 TATTATT-AAATATATAAAAAATTATTAT
898014 TCATTATTAAATATATAAAAAATTTATTAT
1 T-ATTATTAAATATATAAAAAA-TTATTAT
* *
898044 ATATTATTAAA-ATAAAATAAAATATCTTA-
1 -TATTATTAAATATATAA-AAAAT-TATTAT
898073 TATTATTATAATATA
1 TATTATTA-AATATA
898088 ATTGATTATT
Statistics
Matches: 63, Mismatches: 3, Indels: 14
0.79 0.04 0.17
Matches are distributed among these distances:
28 22 0.35
29 14 0.22
30 26 0.41
31 1 0.02
ACGTcount: A:0.52, C:0.02, G:0.01, T:0.45
Consensus pattern (28 bp):
TATTATTAAATATATAAAAAATTATTAT
Found at i:898101 original size:28 final size:28
Alignment explanation
Indices: 897985--898131 Score: 82
Period size: 28 Copynumber: 4.9 Consensus size: 28
897975 CTTTACTAAA
* * * *
897985 ATATTATTGAAAT-ATATAAATAATATT
1 ATATTATTAAAATAAAATAAATTATTTT
*
898012 ATTCATTATTAAATATATAAA-AAATTTATTAT
1 A-T-ATTATTAAA-ATA-AAATAAA-TTATTTT
* *
898044 ATATTATTAAAATAAAATAAAATATCTT
1 ATATTATTAAAATAAAATAAATTATTTT
* * **
898072 ATATTATTATAATATAATTGATTATTTT
1 ATATTATTAAAATAAAATAAATTATTTT
898100 ATATAATATTAAAAATATAATATAATATTATT
1 ATAT--TATT-AAAATA-AA-ATAA-ATTATT
898132 ATAAATATTA
Statistics
Matches: 89, Mismatches: 18, Indels: 19
0.71 0.14 0.15
Matches are distributed among these distances:
27 1 0.01
28 34 0.38
29 14 0.16
30 15 0.17
31 9 0.10
32 8 0.09
33 2 0.02
34 6 0.07
ACGTcount: A:0.51, C:0.01, G:0.01, T:0.46
Consensus pattern (28 bp):
ATATTATTAAAATAAAATAAATTATTTT
Found at i:898110 original size:15 final size:16
Alignment explanation
Indices: 898072--898135 Score: 58
Period size: 19 Copynumber: 3.8 Consensus size: 16
898062 AAAATATCTT
898072 ATATTATTATAATATA
1 ATATTATTATAATATA
*
898088 ATTGATTATT-TTATATA
1 A-T-ATTATTATAATATA
*
898105 ATATTAAAAATATAATATA
1 ATATT---ATTATAATATA
898124 ATATTATTATAA
1 ATATTATTATAA
898136 ATATTAATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 12
0.70 0.07 0.22
Matches are distributed among these distances:
15 3 0.08
16 8 0.21
17 8 0.21
18 8 0.21
19 11 0.29
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (16 bp):
ATATTATTATAATATA
Found at i:898135 original size:30 final size:30
Alignment explanation
Indices: 897989--898150 Score: 99
Period size: 31 Copynumber: 5.4 Consensus size: 30
897979 ACTAAAATAT
*
897989 TATTGAAATATATAA-ATAATATTATTCAT--
1 TATT-AAAAATATAATATAATATTATT-ATAA
* *
898018 TATTAAATATATAA-AAAAT-TTATTAT-A
1 TATTAAAAATATAATATAATATTATTATAA
* * * *
898045 TATTATTAAAATAAAATAAAATA-TCTTATAT
1 TATTA--AAAATATAATATAATATTATTATAA
* * *
898076 TATT-ATAATATAAT-TGATTATTTTATATAA
1 TATTAAAAATATAATAT-AATATTAT-TATAA
898106 TATTAAAAATATAATATAATATTATTATAAA
1 TATTAAAAATATAATATAATATTATTAT-AA
898137 TATTAATAAATATA
1 TATTAA-AAATATA
898151 TTTTAAATAT
Statistics
Matches: 106, Mismatches: 14, Indels: 23
0.74 0.10 0.16
Matches are distributed among these distances:
26 2 0.02
27 10 0.09
28 25 0.24
29 13 0.12
30 21 0.20
31 27 0.25
32 8 0.08
ACGTcount: A:0.52, C:0.01, G:0.01, T:0.45
Consensus pattern (30 bp):
TATTAAAAATATAATATAATATTATTATAA
Found at i:898145 original size:10 final size:10
Alignment explanation
Indices: 898104--898149 Score: 51
Period size: 10 Copynumber: 4.5 Consensus size: 10
898094 TATTTTATAT
898104 AATATTAA-A
1 AATATTAATA
898113 AATA-TAATA
1 AATATTAATA
898122 TAATATTATTATA
1 -AATATTA--ATA
898135 AATATTAATA
1 AATATTAATA
898145 AATAT
1 AATAT
898150 ATTTTAAATA
Statistics
Matches: 32, Mismatches: 0, Indels: 9
0.78 0.00 0.22
Matches are distributed among these distances:
8 3 0.09
9 5 0.16
10 12 0.38
11 2 0.06
12 7 0.22
13 3 0.09
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (10 bp):
AATATTAATA
Found at i:898152 original size:21 final size:22
Alignment explanation
Indices: 898105--898161 Score: 73
Period size: 22 Copynumber: 2.6 Consensus size: 22
898095 ATTTTATATA
*
898105 ATATTAAAAATA-TAATATAAT
1 ATATTATAAATATTAATATAAT
898126 ATTATTATAAATATTAATA-AAT
1 A-TATTATAAATATTAATATAAT
*
898148 ATATTTTAAATATT
1 ATATTATAAATATT
898162 TTAATAATTA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
21 13 0.41
22 14 0.44
23 5 0.16
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (22 bp):
ATATTATAAATATTAATATAAT
Found at i:898166 original size:23 final size:21
Alignment explanation
Indices: 898112--898161 Score: 66
Period size: 21 Copynumber: 2.3 Consensus size: 21
898102 ATAATATTAA
*
898112 AAATA-TAATATAATATTATTAT
1 AAATATTAATA-AATA-TATTTT
898134 AAATATTAATAAATATATTTT
1 AAATATTAATAAATATATTTT
898155 AAATATT
1 AAATATT
898162 TTAATAATTA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
21 12 0.46
22 9 0.35
23 5 0.19
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (21 bp):
AAATATTAATAAATATATTTT
Found at i:898409 original size:42 final size:42
Alignment explanation
Indices: 898350--898469 Score: 213
Period size: 42 Copynumber: 2.9 Consensus size: 42
898340 ATGAATTACA
*
898350 TTCCGGAAAACGAATTACGTGAAACAAACACGGGAAAACGTT
1 TTCCGGAAAACGAATTACGTGAAACAAACACGGGAAAACATT
898392 TTCCGGAAAACGAATTACGTGAAACAAACACGGGAAAACATT
1 TTCCGGAAAACGAATTACGTGAAACAAACACGGGAAAACATT
* *
898434 TTCCGAAAAACGAATTACGTGAAACAAACACTGGAA
1 TTCCGGAAAACGAATTACGTGAAACAAACACGGGAA
898470 TTCGGGAAAA
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
42 75 1.00
ACGTcount: A:0.45, C:0.19, G:0.19, T:0.17
Consensus pattern (42 bp):
TTCCGGAAAACGAATTACGTGAAACAAACACGGGAAAACATT
Found at i:899943 original size:57 final size:57
Alignment explanation
Indices: 899881--900069 Score: 238
Period size: 57 Copynumber: 3.2 Consensus size: 57
899871 TTAACTTTTA
* *
899881 AAAATATATCTTAAATTAAAATAAAAGTAAAATATATTTTTAAACTAAAATAAGAGT
1 AAAATATATCTTAAATTAAAATAAAAGTAAAATATATTTTTAAATTAAAATAAGAAT
* * *
899938 TAAATATATCTTAAATTAAAATAAAAGTAAAATATATATATCTCATAAATTAAGATAAAAAT
1 AAAATATATCTTAAATTAAAATAAAAGTAAAATATAT-T-T-T--TAAATTAAAATAAGAAT
* * *
900000 AAAATA-ATTTTTAAACTAAAATAAGAGTAAAATATATTTTTAAATTAAAATAAGAAT
1 AAAATATA-TCTTAAATTAAAATAAAAGTAAAATATATTTTTAAATTAAAATAAGAAT
900057 AAAATATAT-TTAA
1 AAAATATATCTTAA
900070 TAAGTTAAGG
Statistics
Matches: 114, Mismatches: 11, Indels: 15
0.81 0.08 0.11
Matches are distributed among these distances:
56 4 0.04
57 58 0.51
58 2 0.02
59 2 0.02
60 2 0.02
61 2 0.02
62 44 0.39
ACGTcount: A:0.58, C:0.03, G:0.04, T:0.34
Consensus pattern (57 bp):
AAAATATATCTTAAATTAAAATAAAAGTAAAATATATTTTTAAATTAAAATAAGAAT
Found at i:899943 original size:90 final size:91
Alignment explanation
Indices: 899884--900065 Score: 257
Period size: 91 Copynumber: 2.0 Consensus size: 91
899874 ACTTTTAAAA
* *
899884 ATATATCT-TAAATTAAAATAAAAGTAAAATATATTTTTAAACTAAAATAAGAGT-TAA-ATATA
1 ATATATCTATAAATTAAAATAAAAATAAAATA-ATTTTTAAACTAAAATAAGAGTAAAATATATA
*
899946 TCTTAAATTAAAATAAAAGTAAAATAT
65 TATTAAATTAAAATAAAAGTAAAATAT
*
899973 ATATATCTCATAAATTAAGATAAAAATAAAATAATTTTTAAACTAAAATAAGAGTAAAATATAT-
1 ATATATCT-ATAAATTAAAATAAAAATAAAATAATTTTTAAACTAAAATAAGAGTAAAATATATA
*
900037 TTTTAAATTAAAATAAGAA-TAAAATAT
65 TATTAAATTAAAATAA-AAGTAAAATAT
900064 AT
1 AT
900066 TTAATAAGTT
Statistics
Matches: 84, Mismatches: 4, Indels: 8
0.88 0.04 0.08
Matches are distributed among these distances:
89 8 0.10
90 22 0.26
91 48 0.57
92 6 0.07
ACGTcount: A:0.58, C:0.03, G:0.04, T:0.35
Consensus pattern (91 bp):
ATATATCTATAAATTAAAATAAAAATAAAATAATTTTTAAACTAAAATAAGAGTAAAATATATAT
ATTAAATTAAAATAAAAGTAAAATAT
Found at i:899990 original size:34 final size:29
Alignment explanation
Indices: 899881--900067 Score: 211
Period size: 29 Copynumber: 6.4 Consensus size: 29
899871 TTAACTTTTA
*
899881 AAAATATA-TCTTAAATTAAAATAAAAGT
1 AAAATATATTTTTAAATTAAAATAAAAGT
* *
899909 AAAATATATTTTTAAACTAAAATAAGAGT
1 AAAATATATTTTTAAATTAAAATAAAAGT
* *
899938 TAAATATA-TCTTAAATTAAAATAAAAGT
1 AAAATATATTTTTAAATTAAAATAAAAGT
* *
899966 AAAATATATATATCTCATAAATTAAGATAAAAAT
1 AAAATATAT-T-T-T--TAAATTAAAATAAAAGT
* *
900000 AAAATA-ATTTTTAAACTAAAATAAGAGT
1 AAAATATATTTTTAAATTAAAATAAAAGT
900028 AAAATATATTTTTAAATTAAAATAAGAA-T
1 AAAATATATTTTTAAATTAAAATAA-AAGT
900057 AAAATATATTT
1 AAAATATATTT
900068 AATAAGTTAA
Statistics
Matches: 133, Mismatches: 17, Indels: 17
0.80 0.10 0.10
Matches are distributed among these distances:
28 51 0.38
29 53 0.40
30 3 0.02
31 1 0.01
32 2 0.02
33 2 0.02
34 21 0.16
ACGTcount: A:0.58, C:0.03, G:0.04, T:0.35
Consensus pattern (29 bp):
AAAATATATTTTTAAATTAAAATAAAAGT
Found at i:900073 original size:20 final size:22
Alignment explanation
Indices: 900048--900092 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 22
900038 TTTAAATTAA
900048 AATAAG-AA-TAAAATATATTT
1 AATAAGTAAGTAAAATATATTT
900068 AATAAGTTAAGGTAAAATATATTT
1 AATAAG-TAA-GTAAAATATATTT
900092 A
1 A
900093 CCAATATGGA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
20 6 0.29
22 2 0.10
24 13 0.62
ACGTcount: A:0.56, C:0.00, G:0.09, T:0.36
Consensus pattern (22 bp):
AATAAGTAAGTAAAATATATTT
Found at i:900523 original size:31 final size:30
Alignment explanation
Indices: 900459--900526 Score: 84
Period size: 30 Copynumber: 2.2 Consensus size: 30
900449 CATTACAATG
* *
900459 TATCAAACTATTATAAATACTTATTAAATT
1 TATCAAACTATTATAAATACTCATTAAACT
*
900489 TATCAAACTATTATAAA-ACGGTCCTTAAACT
1 TATCAAACTATTATAAATAC--TCATTAAACT
900520 TATCAAA
1 TATCAAA
900527 ATTCATCATT
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
29 2 0.06
30 17 0.52
31 14 0.42
ACGTcount: A:0.46, C:0.15, G:0.03, T:0.37
Consensus pattern (30 bp):
TATCAAACTATTATAAATACTCATTAAACT
Found at i:916827 original size:2 final size:2
Alignment explanation
Indices: 916820--916847 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
916810 TTACCTAATA
916820 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
916848 TTCAGGTTGA
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):
AT
Found at i:918616 original size:23 final size:23
Alignment explanation
Indices: 918590--918667 Score: 129
Period size: 23 Copynumber: 3.4 Consensus size: 23
918580 AAAATATGAA
918590 GTAATAGGTAGCGCTTATATAAT
1 GTAATAGGTAGCGCTTATATAAT
918613 GTAATAGGTAGCGCTTATATAAT
1 GTAATAGGTAGCGCTTATATAAT
*
918636 GTAATAGGTAACGCTTATATAAT
1 GTAATAGGTAGCGCTTATATAAT
**
918659 AAAATAGGT
1 GTAATAGGT
918668 TAATTACTGA
Statistics
Matches: 52, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 52 1.00
ACGTcount: A:0.38, C:0.08, G:0.21, T:0.33
Consensus pattern (23 bp):
GTAATAGGTAGCGCTTATATAAT
Found at i:918739 original size:23 final size:23
Alignment explanation
Indices: 918707--918754 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 23
918697 AACATATTAT
* **
918707 GTAGCGCTTATATAATGTAATAG
1 GTAGCACTTATATAATAAAATAG
918730 GTAGCACTTATATAATAAAATAG
1 GTAGCACTTATATAATAAAATAG
918753 GT
1 GT
918755 TAATTACTGA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.40, C:0.08, G:0.19, T:0.33
Consensus pattern (23 bp):
GTAGCACTTATATAATAAAATAG
Found at i:918808 original size:23 final size:23
Alignment explanation
Indices: 918782--918841 Score: 66
Period size: 23 Copynumber: 2.6 Consensus size: 23
918772 ATCAAGCACA
*
918782 ATAACATATTAGGTACCGCTTAT
1 ATAACATAATAGGTACCGCTTAT
** *
918805 ATAATGTAATAGGTAGCGCTTAT
1 ATAACATAATAGGTACCGCTTAT
* *
918828 ATAATAAAATAGGT
1 ATAACATAATAGGT
918842 TAATTATTTA
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 31 1.00
ACGTcount: A:0.40, C:0.10, G:0.17, T:0.33
Consensus pattern (23 bp):
ATAACATAATAGGTACCGCTTAT
Found at i:918860 original size:87 final size:87
Alignment explanation
Indices: 918617--918847 Score: 408
Period size: 87 Copynumber: 2.7 Consensus size: 87
918607 TATAATGTAA
*
918617 TAGGTAGCGCTTATATAATGTAATAGGTAACGCTTATATAATAAAATAGGTTAATTACTGAAAAC
1 TAGGTAGCGCTTATATAATGTAATAGGTAGCGCTTATATAATAAAATAGGTTAATTACTGAAAAC
918682 ATTATCAAACACAACAACATAT
66 ATTATCAAACACAACAACATAT
* *
918704 TATGTAGCGCTTATATAATGTAATAGGTAGCACTTATATAATAAAATAGGTTAATTACTGAAAAC
1 TAGGTAGCGCTTATATAATGTAATAGGTAGCGCTTATATAATAAAATAGGTTAATTACTGAAAAC
* *
918769 ATTATCAAGCACAATAACATAT
66 ATTATCAAACACAACAACATAT
*
918791 TAGGTACCGCTTATATAATGTAATAGGTAGCGCTTATATAATAAAATAGGTTAATTA
1 TAGGTAGCGCTTATATAATGTAATAGGTAGCGCTTATATAATAAAATAGGTTAATTA
918848 TTTAATTTAT
Statistics
Matches: 136, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
87 136 1.00
ACGTcount: A:0.43, C:0.11, G:0.14, T:0.32
Consensus pattern (87 bp):
TAGGTAGCGCTTATATAATGTAATAGGTAGCGCTTATATAATAAAATAGGTTAATTACTGAAAAC
ATTATCAAACACAACAACATAT
Found at i:919236 original size:26 final size:26
Alignment explanation
Indices: 919120--919238 Score: 72
Period size: 26 Copynumber: 4.6 Consensus size: 26
919110 CAAAATAATA
*
919120 ATATTATTTTTAAAATATTATA-CTA-
1 ATATT-TTATTAAAATATTATATCTAT
* * * *
919145 AT-TTAT-TTAATATTATT-TATGTAA
1 ATATTTTATTAA-AATATTATATCTAT
919169 ATATTATTATTAAAATATTATATCTAT
1 ATATT-TTATTAAAATATTATATCTAT
* *
919196 A-ATTTTATAAAAAAAATTATGAT-TATT
1 ATATTTTAT-TAAAATATTAT-ATCTA-T
919223 ATATTTTATTAAAATA
1 ATATTTTATTAAAATA
919239 AAATTATTAT
Statistics
Matches: 72, Mismatches: 11, Indels: 20
0.70 0.11 0.19
Matches are distributed among these distances:
22 6 0.08
23 8 0.11
24 4 0.06
25 8 0.11
26 20 0.28
27 19 0.26
28 7 0.10
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.51
Consensus pattern (26 bp):
ATATTTTATTAAAATATTATATCTAT
Found at i:919244 original size:30 final size:29
Alignment explanation
Indices: 919197--919260 Score: 85
Period size: 30 Copynumber: 2.2 Consensus size: 29
919187 TATATCTATA
*
919197 ATTTTATAAAAAAAATTATGAT-TATTAT
1 ATTTTATAAAAAAAATTATGATAAATTAT
*
919225 ATTTTATTAAAATAAAATTATTATAAATTAT
1 ATTTTA-TAAAA-AAAATTATGATAAATTAT
919256 ATTTT
1 ATTTT
919261 TATTTTTTAT
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
28 6 0.19
29 5 0.16
30 10 0.32
31 10 0.32
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (29 bp):
ATTTTATAAAAAAAATTATGATAAATTAT
Found at i:919810 original size:30 final size:29
Alignment explanation
Indices: 919776--919851 Score: 72
Period size: 24 Copynumber: 2.7 Consensus size: 29
919766 ATATATATAT
919776 ATAATTAGAATATAATTTTAAAAAATAATC
1 ATAATTAGAATATAA-TTTAAAAAATAATC
* *
919806 ATAA-T-GAA-GTGA--TAAAAAATAATC
1 ATAATTAGAATATAATTTAAAAAATAATC
*
919830 ATAATTACAATATAATTATAAA
1 ATAATTAGAATATAATT-TAAA
919852 CATCAAATAC
Statistics
Matches: 35, Mismatches: 5, Indels: 12
0.67 0.10 0.23
Matches are distributed among these distances:
24 16 0.46
25 1 0.03
26 2 0.06
27 4 0.11
28 3 0.09
29 1 0.03
30 8 0.23
ACGTcount: A:0.58, C:0.04, G:0.05, T:0.33
Consensus pattern (29 bp):
ATAATTAGAATATAATTTAAAAAATAATC
Found at i:919961 original size:14 final size:14
Alignment explanation
Indices: 919944--920029 Score: 50
Period size: 14 Copynumber: 6.1 Consensus size: 14
919934 ATTTATGTCT
919944 ATATTATTATTAAA
1 ATATTATTATTAAA
*
919958 ATATTA-TATCTATA
1 ATATTATTAT-TAAA
* * *
919972 ATTTTATAAATAAA
1 ATATTATTATTAAA
* * **
919986 AAATTATGATTATT
1 ATATTATTATTAAA
920000 ATATT-TTATTAAA
1 ATATTATTATTAAA
**
920013 ATAAAATTATTATAA
1 ATATTATTATTA-AA
920028 AT
1 AT
920030 TATATTTATT
Statistics
Matches: 51, Mismatches: 17, Indels: 7
0.68 0.23 0.09
Matches are distributed among these distances:
13 11 0.22
14 35 0.69
15 5 0.10
ACGTcount: A:0.50, C:0.01, G:0.01, T:0.48
Consensus pattern (14 bp):
ATATTATTATTAAA
Found at i:919978 original size:25 final size:25
Alignment explanation
Indices: 919936--920015 Score: 65
Period size: 25 Copynumber: 3.0 Consensus size: 25
919926 TTAATATTAT
*
919936 TTATGTCTAT-ATTATTATTAAAATA
1 TTATATCTATAATT-TTATTAAAATA
*
919961 TTATATCTATAATTTTATAAATAAAAAA
1 TTATATCTATAATTTTAT---TAAAATA
919989 TTATGAT-TATTATATTTTATTAAAATA
1 TTAT-ATCTA-TA-ATTTTATTAAAATA
920016 AAATTATTAT
Statistics
Matches: 45, Mismatches: 3, Indels: 12
0.75 0.05 0.20
Matches are distributed among these distances:
25 13 0.29
26 3 0.07
27 6 0.13
28 12 0.27
29 4 0.09
30 7 0.16
ACGTcount: A:0.45, C:0.03, G:0.03, T:0.50
Consensus pattern (25 bp):
TTATATCTATAATTTTATTAAAATA
Found at i:919978 original size:28 final size:28
Alignment explanation
Indices: 919944--920032 Score: 76
Period size: 28 Copynumber: 3.2 Consensus size: 28
919934 ATTTATGTCT
919944 ATATTATTATTAAAATATTAT-ATCTATA
1 ATATTATTATTAAAATATTATGAT-TATA
* * * * *
919972 ATTTTATAAATAAAAAATTATGATTATT
1 ATATTATTATTAAAATATTATGATTATA
** *
920000 ATATT-TTATTAAAATAAAATTATTATA
1 ATATTATTATTAAAATATTATGATTATA
920027 A-ATTAT
1 ATATTAT
920033 ATTTATTATT
Statistics
Matches: 46, Mismatches: 13, Indels: 5
0.72 0.20 0.08
Matches are distributed among these distances:
26 3 0.07
27 17 0.37
28 24 0.52
29 2 0.04
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.48
Consensus pattern (28 bp):
ATATTATTATTAAAATATTATGATTATA
Found at i:920035 original size:31 final size:31
Alignment explanation
Indices: 919972--920040 Score: 81
Period size: 30 Copynumber: 2.3 Consensus size: 31
919962 TATATCTATA
*
919972 ATTTTA-TAAATAAAAAATTATGATTATTAT
1 ATTTTATTAAATAAAAAATTATGATAATTAT
* *
920002 ATTTTATTAAA-ATAAAATTATTATAAATTAT
1 ATTTTATTAAATAAAAAATTATGAT-AATTAT
920033 A-TTTATTA
1 ATTTTATTA
920041 TTTATTATAA
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
30 24 0.71
31 10 0.29
ACGTcount: A:0.49, C:0.00, G:0.01, T:0.49
Consensus pattern (31 bp):
ATTTTATTAAATAAAAAATTATGATAATTAT
Found at i:920530 original size:196 final size:196
Alignment explanation
Indices: 920143--920805 Score: 890
Period size: 197 Copynumber: 3.4 Consensus size: 196
920133 CATATGTTAT
* * * *
920143 ATCGAAACTAATAATTATAATGTAATAGGTAAATTTATAATGTAACCAGTATAAATATACCGGTT
1 ATCGAAACTCATAATTACAATGTAATAGGTAAATTTACAATGT-ACCAGTAGAAATATACCGGTT
* * *** *
920208 TTATGA-AAGAATATGTCTACATAATGTATCGACACAAATTTAA-AAAGTGTCGATACATTTTGT
65 TTATGAGAA-AATAGGTCTACATAATGTATCGACAC-ATTTTAAGTTTGTGTCGATAC-TTTTTT
* *
920271 CCATAATGAATGCCAAACGAGGTGCACGCATAAAGTGTTGATACATTTATTAAAAATATCGAT-C
127 CCATAATGAATGCC-AACGAGGTGCACGCATAAAGTGTCGATACATTTATTAAAAGTATCGATCC
*
920335 CTAAAA
191 CAAAAA
* * *
920341 ATCGAAAC-CATAATTACAATGTAATAGGTAAATTTACAATGTACTCGGTAGAAATTTATCGGTT
1 ATCGAAACTCATAATTACAATGTAATAGGTAAATTTACAATGTAC-CAGTAGAAATATACCGGTT
*
920405 TTATGAGAAAATAGGTCTACATAATGTATCGACACATTTTAAGTTTGTGTCAATACTTTTTTCCA
65 TTATGAGAAAATAGGTCTACATAATGTATCGACACATTTTAAGTTTGTGTCGATACTTTTTTCCA
*
920470 TAATGAATGTCCAACGAGGTGCACACATAAAGTGTCGATACATTTATTAAAAGTATCGATCCCAA
130 TAATGAATG-CCAACGAGGTGCACGCATAAAGTGTCGATACATTTATTAAAAGTATCGATCCCAA
920535 AAA
194 AAA
* * *
920538 ATCCAAACTGATAATTACAATGTAATAAGTAAATTTACAATGTACCAGTAGAAATATACCGGTTT
1 ATCGAAACTCATAATTACAATGTAATAGGTAAATTTACAATGTACCAGTAGAAATATACCGGTTT
* * *
920603 TATGAGAAAATAGTTCTACATAATGTATCGACACATTTTAAGTTTGTGCCGATACTTTTTTCCAG
66 TATGAGAAAATAGGTCTACATAATGTATCGACACATTTTAAGTTTGTGTCGATACTTTTTTCCAT
*
920668 AATGAATGCCCAACGAGGTGCACGCATAAAGTGTCGATACATTTA--AAATTGTATCGATCCCAA
131 AATGAATG-CCAACGAGGTGCACGCATAAAGTGTCGATACATTTATTAAA-AGTATCGATCCCAA
920731 AAA
194 AAA
* ** * * *
920734 CATCGAAAC-CGATAATTATAATGTAATAGGTAAATTTGTAATGTTACCGGTATAAATATACCTG
1 -ATCGAAACTC-ATAATTACAATGTAATAGGTAAATTTACAATG-TACCAGTAGAAATATACCGG
920798 TTTTATGA
63 TTTTATGA
920806 TAGAATAAGT
Statistics
Matches: 415, Mismatches: 40, Indels: 20
0.87 0.08 0.04
Matches are distributed among these distances:
195 3 0.01
196 86 0.21
197 257 0.62
198 69 0.17
ACGTcount: A:0.39, C:0.14, G:0.15, T:0.32
Consensus pattern (196 bp):
ATCGAAACTCATAATTACAATGTAATAGGTAAATTTACAATGTACCAGTAGAAATATACCGGTTT
TATGAGAAAATAGGTCTACATAATGTATCGACACATTTTAAGTTTGTGTCGATACTTTTTTCCAT
AATGAATGCCAACGAGGTGCACGCATAAAGTGTCGATACATTTATTAAAAGTATCGATCCCAAAA
A
Found at i:920924 original size:85 final size:86
Alignment explanation
Indices: 920818--921054 Score: 309
Period size: 85 Copynumber: 2.8 Consensus size: 86
920808 GAATAAGTCA
*
920818 ATATAAGCGCTACCTATTACATTATATAAGCGCTACCTAATATGTTATTGTACTTGATAATATTT
1 ATATAA-CGCTATCTATTACATTATATAAGCGCTACCTAATATGTTATTGTACTTGATAATATTT
920883 ACAGTAATTAACATA-TTTTATT
65 -CAGTAATTAACATATTTTTATT
* * * * *
920905 ATA-AAGTGTTA-CTATTACATTATATAAACGCTACCTAATATGTTATTGTGCTTGATAATGTTT
1 ATATAA-CGCTATCTATTACATTATATAAGCGCTACCTAATATGTTATTGTACTTGATAATATTT
* *
920968 CAGTAATTACCCTATTTTTATT
65 CAGTAATTAACATATTTTTATT
* * * * *
920990 ATATAACGCTATCTATTACATTATATAAGCGTTATCTAATTTATTATTTTACTTGATAATATTTC
1 ATATAACGCTATCTATTACATTATATAAGCGCTACCTAATATGTTATTGTACTTGATAATATTTC
921055 CAATTAAATG
Statistics
Matches: 130, Mismatches: 17, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
84 12 0.09
85 62 0.48
86 53 0.41
87 3 0.02
ACGTcount: A:0.34, C:0.13, G:0.09, T:0.44
Consensus pattern (86 bp):
ATATAACGCTATCTATTACATTATATAAGCGCTACCTAATATGTTATTGTACTTGATAATATTTC
AGTAATTAACATATTTTTATT
Found at i:921035 original size:23 final size:21
Alignment explanation
Indices: 920984--921036 Score: 61
Period size: 23 Copynumber: 2.4 Consensus size: 21
920974 TTACCCTATT
920984 TTTATTATATAACGCTATCTA
1 TTTATTATATAACGCTATCTA
* *
921005 TTACATTATATAAGCGTTATCTAA
1 TT-TATTATATAA-CGCTATCT-A
921029 TTTATTAT
1 TTTATTAT
921037 TTTACTTGAT
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
21 2 0.08
22 9 0.35
23 12 0.46
24 3 0.12
ACGTcount: A:0.34, C:0.11, G:0.06, T:0.49
Consensus pattern (21 bp):
TTTATTATATAACGCTATCTA
Found at i:933851 original size:15 final size:15
Alignment explanation
Indices: 933831--933861 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
933821 AGTTAAAAGA
933831 TAAACTGGTCTGCGT
1 TAAACTGGTCTGCGT
933846 TAAACTGGTCTGCGT
1 TAAACTGGTCTGCGT
933861 T
1 T
933862 TTAACCAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.19, C:0.19, G:0.26, T:0.35
Consensus pattern (15 bp):
TAAACTGGTCTGCGT
Found at i:934194 original size:16 final size:15
Alignment explanation
Indices: 934156--934231 Score: 55
Period size: 16 Copynumber: 4.8 Consensus size: 15
934146 AAAAAATAAA
*
934156 TATTAATAAAACATT
1 TATTAATAAAAAATT
934171 TATCTAATAAAAAATT
1 TAT-TAATAAAAAATT
* *
934187 TGATTAATATTATAATT
1 T-ATTAATA-AAAAATT
* *
934204 TATAAAAGTAAAATATT
1 TAT-TAA-TAAAAAATT
934221 TATTAA-AAAAA
1 TATTAATAAAAA
934232 TATCAGAAAA
Statistics
Matches: 47, Mismatches: 9, Indels: 11
0.70 0.13 0.16
Matches are distributed among these distances:
14 4 0.09
15 3 0.06
16 21 0.45
17 17 0.36
18 2 0.04
ACGTcount: A:0.55, C:0.03, G:0.03, T:0.39
Consensus pattern (15 bp):
TATTAATAAAAAATT
Found at i:934239 original size:136 final size:132
Alignment explanation
Indices: 934082--934438 Score: 409
Period size: 136 Copynumber: 2.6 Consensus size: 132
934072 ATAAGATATT
* * * * *
934082 TATTTATTTAGAAATATCAGAAAAGGGATTCTAGGTACTTTAAGAC-AGCTCATTTCTTAATATT
1 TATTTATTAAAAAATATCAGAAAATGGATTCTAGTTGCTTTAAGACTAGC-C-TTTCTTAATATT
*
934146 AAAAAATAAATAT-TA-ATAAAACATTTATCTAATAAAAAATTTGATTAATAT-TATAATTTATA
64 AAAAAATAAATATATATATAAAACATTTATC---T-AAAAA-TAGATTAATATATATAATTTATA
*
934208 AAAGTAAAA
124 AAAATAAAA
* * * * *
934217 TATTTATTAAAAAAATATCAGAAAATTGACATCCAGTTGCTTTAAGACTACCCTTTCCTAATATT
1 TATTTATT-AAAAAATATCAGAAAATGGA-TTCTAGTTGCTTTAAGACTAGCCTTTCTTAATA-T
934282 TAAAAAATAAATATATATTGATAAAACATTTATCTAAAAATAGATTAATATATATAATTTATAAA
63 TAAAAAATAAATATATA-T-ATAAAACATTTATCTAAAAATAGATTAATATATATAATTTATAAA
934347 AATAAAA
126 AATAAAA
* * * * *
934354 TATTTATTTAAAAATATCAGAAAATGAATATCTAGTTGCTTTAAGGCTGGCCTTTCTTAATATTG
1 TATTTATTAAAAAATATCAGAAAATGGAT-TCTAGTTGCTTTAAGACTAGCCTTTCTTAATATTA
934419 AAAAATAAATATATAT-TAAA
65 AAAAATAAATATATATATAAA
934439 TATGATAAAA
Statistics
Matches: 190, Mismatches: 22, Indels: 23
0.81 0.09 0.10
Matches are distributed among these distances:
132 4 0.02
134 1 0.01
135 25 0.13
136 79 0.42
137 62 0.33
138 5 0.03
141 14 0.07
ACGTcount: A:0.47, C:0.08, G:0.08, T:0.37
Consensus pattern (132 bp):
TATTTATTAAAAAATATCAGAAAATGGATTCTAGTTGCTTTAAGACTAGCCTTTCTTAATATTAA
AAAATAAATATATATATAAAACATTTATCTAAAAATAGATTAATATATATAATTTATAAAAATAA
AA
Found at i:934470 original size:14 final size:14
Alignment explanation
Indices: 934433--934474 Score: 59
Period size: 14 Copynumber: 3.0 Consensus size: 14
934423 ATAAATATAT
*
934433 ATTAAATATGATAAA
1 ATTAAAT-TTATAAA
934448 ATT-AATTTATAAA
1 ATTAAATTTATAAA
934461 ATTAAATTTATAAA
1 ATTAAATTTATAAA
934475 TAGAATTTTA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
13 9 0.36
14 13 0.52
15 3 0.12
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.40
Consensus pattern (14 bp):
ATTAAATTTATAAA
Found at i:934668 original size:16 final size:17
Alignment explanation
Indices: 934637--934671 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
934627 AAAAGTAATA
*
934637 ATATTAAAATGCAAAAT
1 ATATTAAAATGAAAAAT
934654 ATATT-AAATGAAAAAT
1 ATATTAAAATGAAAAAT
934670 AT
1 AT
934672 CCAACTGTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 12 0.71
17 5 0.29
ACGTcount: A:0.60, C:0.03, G:0.06, T:0.31
Consensus pattern (17 bp):
ATATTAAAATGAAAAAT
Found at i:935969 original size:21 final size:21
Alignment explanation
Indices: 935944--935986 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
935934 TAATAAATAA
*
935944 TAATAGTAA-TATATATTATAT
1 TAATAATAATTAT-TATTATAT
935965 TAATAATAATTATTATTATAT
1 TAATAATAATTATTATTATAT
935986 T
1 T
935987 TATGAAAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 17 0.85
22 3 0.15
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (21 bp):
TAATAATAATTATTATTATAT
Found at i:937472 original size:229 final size:227
Alignment explanation
Indices: 937067--937515 Score: 781
Period size: 229 Copynumber: 2.0 Consensus size: 227
937057 GTAAATTATC
* * *
937067 TATCCTTTTTATAAAAGTGTCCATACTTATTTCACTGTGAAAATATATTTATTATTATCTTTAGT
1 TATCATTTTTATAAAAGTGTCCATACTTATTTCACTGTGAAAACATATTTATTATTATATTTAGT
* *
937132 TAATATTGTTAAATTTAAAATCTAAATAATATTTTATAAAATATCAAAACAATCAAATAATTTTT
66 TAATATTGTTAAATTTAAAATCTAAATAATATTTTATAAAATATCAAAAAAATCAAATAATATTT
*
937197 TGTGTAAATGAAATTATTAAATTAATATTGTAGGTGAAAAACATGAAACACTATTAAAAAAATTG
131 TGTGTAAATGAAATTATTAAATTAATATTGTAGGTGAAAAACATGAAACACTATTAAAAAAATTA
937262 AAACATAAATTACATAACTTTCAAAAAAATATA
196 AAACATAAATTACATAACTTT-AAAAAAATATA
*
937295 TATCATTTTTATAAAAGTGTCCATACTTATTTCACTGTTGAAAACATATTTATTATTATATTTGG
1 TATCATTTTTATAAAAGTGTCCATACTTATTTCACTG-TGAAAACATATTTATTATTATATTTAG
*
937360 TTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAAAAAATCAAATAATATT
65 TTAATATTGTTAAATTTAAAATCTAAATAATATTTTATAAAATATCAAAAAAATCAAATAATATT
* * *
937425 TTGTGTAAATTAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAATAAATT
130 TTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGAAAAACATGAAACACTATTAAAAAAATT
937490 AAAACATAAATTACATAACTTTAAAA
195 AAAACATAAATTACATAACTTTAAAA
937516 GCAGTTTTAA
Statistics
Matches: 209, Mismatches: 11, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
228 40 0.19
229 169 0.81
ACGTcount: A:0.46, C:0.08, G:0.07, T:0.40
Consensus pattern (227 bp):
TATCATTTTTATAAAAGTGTCCATACTTATTTCACTGTGAAAACATATTTATTATTATATTTAGT
TAATATTGTTAAATTTAAAATCTAAATAATATTTTATAAAATATCAAAAAAATCAAATAATATTT
TGTGTAAATGAAATTATTAAATTAATATTGTAGGTGAAAAACATGAAACACTATTAAAAAAATTA
AAACATAAATTACATAACTTTAAAAAAATATA
Found at i:937765 original size:17 final size:17
Alignment explanation
Indices: 937745--937793 Score: 71
Period size: 20 Copynumber: 2.7 Consensus size: 17
937735 CGATATAACA
937745 GGTAAAATGATAAAACC
1 GGTAAAATGATAAAACC
937762 GGTATCAAAATGATAAAACC
1 GG--T-AAAATGATAAAACC
937782 GGTAAAATGATA
1 GGTAAAATGATA
937794 CCGGATATAT
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
17 11 0.38
18 1 0.03
19 1 0.03
20 16 0.55
ACGTcount: A:0.51, C:0.10, G:0.18, T:0.20
Consensus pattern (17 bp):
GGTAAAATGATAAAACC
Found at i:937773 original size:20 final size:20
Alignment explanation
Indices: 937748--937785 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
937738 TATAACAGGT
937748 AAAATGATAAAACCGGTATC
1 AAAATGATAAAACCGGTATC
937768 AAAATGATAAAACCGGTA
1 AAAATGATAAAACCGGTA
937786 AAATGATACC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.53, C:0.13, G:0.16, T:0.18
Consensus pattern (20 bp):
AAAATGATAAAACCGGTATC
Found at i:939318 original size:199 final size:199
Alignment explanation
Indices: 938979--939610 Score: 1131
Period size: 199 Copynumber: 3.2 Consensus size: 199
938969 AAGATGCAAC
* * *
938979 ATATATGGATCGACATTTTATGAGTGCACTCTGTTTTCCATTCATTCTGG-AAAAAAATATCGAC
1 ATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAAAAAATATCGAC
939043 ACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATAATTGTAC
66 ACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATAATTGTAC
939108 CGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGATCGACACT
131 CGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGATCGACACT
939173 TTTT
196 TTTT
939177 ATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAAAAAATATCGAC
1 ATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAAAAAATATCGAC
939242 ACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATAATTGTAC
66 ACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATAATTGTAC
*
939307 CGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGATCGACATT
131 CGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGATCGACACT
939372 TTTT
196 TTTT
* * *
939376 ATATATGGATCGACACTTTATGGGTGCACCCTGTTTTACATTCATTATGGACAAAAAATATCGAC
1 ATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAAAAAATATCGAC
* *
939441 ACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTAGACTTGTAC
66 ACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATAATTGTAC
* * * *
939506 CGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGATTGATAC
131 CGGTTAGATTGAAAAATTACATATTACATTATACTTTTGG-GTTCGATGATTTTGGGATCGACAC
939571 TTTTT
195 TTTTT
939576 ATATATGGATCGACACTTTATGGGTGCACCCTGTT
1 ATATATGGATCGACACTTTATGGGTGCACCCTGTT
939611 GGCCATATTG
Statistics
Matches: 418, Mismatches: 14, Indels: 2
0.96 0.03 0.00
Matches are distributed among these distances:
198 47 0.11
199 312 0.75
200 59 0.14
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.37
Consensus pattern (199 bp):
ATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAAAAAATATCGAC
ACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATAATTGTAC
CGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGATCGACACT
TTTT
Found at i:939775 original size:19 final size:19
Alignment explanation
Indices: 939729--939777 Score: 80
Period size: 19 Copynumber: 2.6 Consensus size: 19
939719 TTATATTCAC
*
939729 ATACAAAAATATAAATCGT
1 ATACAAAATTATAAATCGT
*
939748 ATACAAAATTATAAATCTT
1 ATACAAAATTATAAATCGT
939767 ATACAAAATTA
1 ATACAAAATTA
939778 ACCCTACATT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.57, C:0.10, G:0.02, T:0.31
Consensus pattern (19 bp):
ATACAAAATTATAAATCGT
Found at i:942205 original size:25 final size:25
Alignment explanation
Indices: 942177--942241 Score: 85
Period size: 25 Copynumber: 2.6 Consensus size: 25
942167 TTATCATTAA
942177 ATTTAGGTATGTACAATAACTACAT
1 ATTTAGGTATGTACAATAACTACAT
****
942202 ATTTAGGTATGTTTGTTAACTACAT
1 ATTTAGGTATGTACAATAACTACAT
*
942227 ATTTAGGTATATACA
1 ATTTAGGTATGTACA
942242 TCTTTTGAGT
Statistics
Matches: 32, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
25 32 1.00
ACGTcount: A:0.35, C:0.09, G:0.14, T:0.42
Consensus pattern (25 bp):
ATTTAGGTATGTACAATAACTACAT
Found at i:942592 original size:22 final size:22
Alignment explanation
Indices: 942525--942583 Score: 109
Period size: 22 Copynumber: 2.7 Consensus size: 22
942515 ATTACATAAC
*
942525 TTTTAAAAAAAGTATCGATCCT
1 TTTTATAAAAAGTATCGATCCT
942547 TTTTATAAAAAGTATCGATCCT
1 TTTTATAAAAAGTATCGATCCT
942569 TTTTATAAAAAGTAT
1 TTTTATAAAAAGTAT
942584 GGACACTTTC
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 36 1.00
ACGTcount: A:0.41, C:0.10, G:0.08, T:0.41
Consensus pattern (22 bp):
TTTTATAAAAAGTATCGATCCT
Found at i:942641 original size:23 final size:23
Alignment explanation
Indices: 942610--942682 Score: 101
Period size: 23 Copynumber: 3.2 Consensus size: 23
942600 ATAGGTAAAC
*
942610 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
* *
942633 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTAGCGCTT
* *
942656 ATATAATGTAATAGGTAGTGGTT
1 ATATAATGTAATAGGTAGCGCTT
942679 ATAT
1 ATAT
942683 TGTAAAGTGT
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 44 1.00
ACGTcount: A:0.34, C:0.04, G:0.22, T:0.40
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:943072 original size:23 final size:23
Alignment explanation
Indices: 943041--943113 Score: 101
Period size: 23 Copynumber: 3.2 Consensus size: 23
943031 ATAGGTAAAA
*
943041 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
* *
943064 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTAGCGCTT
* *
943087 ATATAATGTAATAGGTAGTGGTT
1 ATATAATGTAATAGGTAGCGCTT
943110 ATAT
1 ATAT
943114 TGTAAAGTGT
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 44 1.00
ACGTcount: A:0.34, C:0.04, G:0.22, T:0.40
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:943317 original size:30 final size:29
Alignment explanation
Indices: 943258--943324 Score: 73
Period size: 30 Copynumber: 2.2 Consensus size: 29
943248 GTTACGATAT
* *
943258 ATATTATTATTAAATTAAAAATTCTAAATA
1 ATATT-TTATAAAATTAAAAAATCTAAATA
943288 ATATTTTATAAAATATCAAAAAATC-AAATA
1 ATATTTTATAAAAT-T-AAAAAATCTAAATA
*
943318 ATTTTTT
1 ATATTTT
943325 GTGCAAATGA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
29 8 0.25
30 17 0.53
31 7 0.22
ACGTcount: A:0.52, C:0.04, G:0.00, T:0.43
Consensus pattern (29 bp):
ATATTTTATAAAATTAAAAAATCTAAATA
Found at i:944366 original size:21 final size:20
Alignment explanation
Indices: 944342--944391 Score: 50
Period size: 21 Copynumber: 2.5 Consensus size: 20
944332 CCCATATATA
* *
944342 TATTCAATTAAATTATATTTT
1 TATTCAATAAAAATA-ATTTT
*
944363 TATTGAATAAAAATAATTTT
1 TATTCAATAAAAATAATTTT
944383 T-TT-AATAAA
1 TATTCAATAAA
944392 TACATTATTT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
18 6 0.23
19 2 0.08
20 6 0.23
21 12 0.46
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.50
Consensus pattern (20 bp):
TATTCAATAAAAATAATTTT
Found at i:944931 original size:15 final size:16
Alignment explanation
Indices: 944895--944933 Score: 62
Period size: 16 Copynumber: 2.5 Consensus size: 16
944885 AGAGCTTCTG
944895 AATCATTCAACATTTA
1 AATCATTCAACATTTA
*
944911 AATCATTCAACGTTT-
1 AATCATTCAACATTTA
944926 AATCATTC
1 AATCATTC
944934 TGAAGTAAAC
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
15 8 0.36
16 14 0.64
ACGTcount: A:0.38, C:0.21, G:0.03, T:0.38
Consensus pattern (16 bp):
AATCATTCAACATTTA
Found at i:945019 original size:104 final size:104
Alignment explanation
Indices: 944906--945114 Score: 373
Period size: 104 Copynumber: 2.0 Consensus size: 104
944896 ATCATTCAAC
**
944906 ATTTAAATCATTCAACGTTTAATCATTCTGAAGTAAACAAACATCCTTTCAAACTTTTAGTACAT
1 ATTTAAATCATTCAACACTTAATCATTCTGAAGTAAACAAACATCCTTTCAAACTTTTAGTACAT
*
944971 GTAATATTATGAAATTGTTTTTGGTAAGAGAGTACACAA
66 GTAATATTATAAAATTGTTTTTGGTAAGAGAGTACACAA
* *
945010 ATTTAAATCATTCAACACTTAATTATTCTGAAGTAAACAAACATCCTTTCAAACTTTTAGTACTT
1 ATTTAAATCATTCAACACTTAATCATTCTGAAGTAAACAAACATCCTTTCAAACTTTTAGTACAT
945075 GTAATATTATAAAATTGTTTTTGGTAAGAGAGTACACAA
66 GTAATATTATAAAATTGTTTTTGGTAAGAGAGTACACAA
945114 A
1 A
945115 ATTTTAAAAT
Statistics
Matches: 100, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
104 100 1.00
ACGTcount: A:0.39, C:0.13, G:0.11, T:0.37
Consensus pattern (104 bp):
ATTTAAATCATTCAACACTTAATCATTCTGAAGTAAACAAACATCCTTTCAAACTTTTAGTACAT
GTAATATTATAAAATTGTTTTTGGTAAGAGAGTACACAA
Found at i:951756 original size:29 final size:29
Alignment explanation
Indices: 951719--951779 Score: 79
Period size: 29 Copynumber: 2.1 Consensus size: 29
951709 ATTCTTAACA
* *
951719 AAAAATATATTTTAGTCA-TATATTAACTT
1 AAAAATATAATTTA-TCATTACATTAACTT
*
951748 AAAAATATAATTTATTATTACATTAACTT
1 AAAAATATAATTTATCATTACATTAACTT
951777 AAA
1 AAA
951780 TATTTATATT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
28 2 0.07
29 26 0.93
ACGTcount: A:0.49, C:0.07, G:0.02, T:0.43
Consensus pattern (29 bp):
AAAAATATAATTTATCATTACATTAACTT
Found at i:951902 original size:32 final size:32
Alignment explanation
Indices: 951846--951910 Score: 80
Period size: 32 Copynumber: 2.0 Consensus size: 32
951836 TTTCTATTTA
* *
951846 AAAAATATTTTTTTTAAAGTTAAG-ATGAAAAT
1 AAAAATATTTTTATTAAAGATAAGAAT-AAAAT
951878 AAAAATATTTTATATTAAA-ATAAGAATAAAAT
1 AAAAATATTTT-TATTAAAGATAAGAATAAAAT
951910 A
1 A
951911 TATACTTTAA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
32 21 0.72
33 8 0.28
ACGTcount: A:0.57, C:0.00, G:0.06, T:0.37
Consensus pattern (32 bp):
AAAAATATTTTTATTAAAGATAAGAATAAAAT
Found at i:951923 original size:25 final size:25
Alignment explanation
Indices: 951892--951990 Score: 87
Period size: 28 Copynumber: 3.9 Consensus size: 25
951882 ATATTTTATA
951892 TTAAAATAAGAATAAAATATATACT
1 TTAAAATAAGAATAAAATATATACT
951917 TTAAAAT-A-AA-AAAATATATACATT
1 TTAAAATAAGAATAAAATATATAC--T
** * * *
951941 TTAAGTTAATAATAATATATATTTCT
1 TTAAAATAAGAATAAAATATA-TACT
951967 AGTTAAAATAAGAATAAAATATAT
1 --TTAAAATAAGAATAAAATATAT
951991 TTTTAATTAA
Statistics
Matches: 58, Mismatches: 8, Indels: 14
0.73 0.10 0.17
Matches are distributed among these distances:
22 11 0.19
23 2 0.03
24 7 0.12
25 8 0.14
26 3 0.05
27 8 0.14
28 19 0.33
ACGTcount: A:0.57, C:0.03, G:0.04, T:0.36
Consensus pattern (25 bp):
TTAAAATAAGAATAAAATATATACT
Found at i:951954 original size:22 final size:21
Alignment explanation
Indices: 951927--951976 Score: 57
Period size: 23 Copynumber: 2.3 Consensus size: 21
951917 TTAAAATAAA
951927 AAAATATATACATTT-TAAGTT
1 AAAATATATACATTTCT-AGTT
*
951948 AATAATAATATATATTTCTAGTT
1 AA-AAT-ATATACATTTCTAGTT
951971 AAAATA
1 AAAATA
951977 AGAATAAAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 6
0.78 0.03 0.19
Matches are distributed among these distances:
21 3 0.12
22 6 0.24
23 15 0.60
24 1 0.04
ACGTcount: A:0.50, C:0.04, G:0.04, T:0.42
Consensus pattern (21 bp):
AAAATATATACATTTCTAGTT
Found at i:951964 original size:23 final size:22
Alignment explanation
Indices: 951907--951977 Score: 63
Period size: 22 Copynumber: 3.1 Consensus size: 22
951897 ATAAGAATAA
* ** *
951907 AATATATACTTTAAAATAAAAA
1 AATATATATTTTAAGTTAAAAT
951929 AATATATACATTTTAAGTTAATAAT
1 AATATAT--ATTTTAAGTTAA-AAT
951954 AATATATATTTCT-AGTTAAAAT
1 AATATATATTT-TAAGTTAAAAT
951976 AA
1 AA
951978 GAATAAAATA
Statistics
Matches: 41, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
22 12 0.29
23 10 0.24
24 10 0.24
25 9 0.22
ACGTcount: A:0.54, C:0.04, G:0.03, T:0.39
Consensus pattern (22 bp):
AATATATATTTTAAGTTAAAAT
Found at i:952023 original size:31 final size:31
Alignment explanation
Indices: 951955--952082 Score: 138
Period size: 31 Copynumber: 4.2 Consensus size: 31
951945 GTTAATAATA
* *
951955 ATATATATTTCTAGTT-AAAATAAGAATAA-
1 ATATATATTTTTAATTAAAAATAAGAATAAG
951984 A-ATATATTTTTAATTAAAAATAAGAATAAG
1 ATATATATTTTTAATTAAAAATAAGAATAAG
* *
952014 ATATATATTTTTAATTGAAGATAAGAATAAAG
1 ATATATATTTTTAATTAAAAATAAGAAT-AAG
* * * *
952046 ATCTATATTTTAAAATTAAAATTAA-AATAAA
1 ATATATATTTT-TAATTAAAAATAAGAATAAG
952077 ATATAT
1 ATATAT
952083 TTAATAAGTT
Statistics
Matches: 83, Mismatches: 11, Indels: 8
0.81 0.11 0.08
Matches are distributed among these distances:
28 12 0.14
29 14 0.17
30 1 0.01
31 31 0.37
32 16 0.19
33 9 0.11
ACGTcount: A:0.54, C:0.02, G:0.06, T:0.38
Consensus pattern (31 bp):
ATATATATTTTTAATTAAAAATAAGAATAAG
Found at i:952075 original size:63 final size:59
Alignment explanation
Indices: 951948--952082 Score: 155
Period size: 63 Copynumber: 2.2 Consensus size: 59
951938 ATTTTAAGTT
* *
951948 AATAATAATATATATTTCTAGTTAAAATAAGAATAAAATATATTTTTAATTAAAAATAAG
1 AATAA-AATATATATTTCTAATTAAAATAAGAATAAAATATATTTTAAATTAAAAATAAG
* * * *
952008 AATAAGATATATATTTTTAATTGAAGATAAGAATAAAGATCTATATTTTAAAATTAAAATTAA-
1 AATAAAATATATATTTCTAATT-AAAATAAGAATAAA-A--TATATTTT-AAATTAAAAATAAG
952071 AATAAAATATAT
1 AATAAAATATAT
952083 TTAATAAGTT
Statistics
Matches: 63, Mismatches: 7, Indels: 7
0.82 0.09 0.09
Matches are distributed among these distances:
59 14 0.22
60 18 0.29
61 1 0.02
63 19 0.30
64 11 0.17
ACGTcount: A:0.55, C:0.01, G:0.06, T:0.38
Consensus pattern (59 bp):
AATAAAATATATATTTCTAATTAAAATAAGAATAAAATATATTTTAAATTAAAAATAAG
Found at i:953632 original size:28 final size:27
Alignment explanation
Indices: 953601--953657 Score: 62
Period size: 28 Copynumber: 2.0 Consensus size: 27
953591 TCCACTATCA
*
953601 ATAT-TCTTATCATTTATATCTTATAATC
1 ATATCTCTTAT-ATCTAT-TCTTATAATC
*
953629 ATATCCTCTTATATCTATTCTTTTAATC
1 ATAT-CTCTTATATCTATTCTTATAATC
953657 A
1 A
953658 ACATATGATT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
28 14 0.56
29 5 0.20
30 6 0.24
ACGTcount: A:0.30, C:0.18, G:0.00, T:0.53
Consensus pattern (27 bp):
ATATCTCTTATATCTATTCTTATAATC
Found at i:953993 original size:23 final size:23
Alignment explanation
Indices: 953961--954042 Score: 119
Period size: 23 Copynumber: 3.6 Consensus size: 23
953951 CCATAGCTCG
* * * *
953961 TATAAATGCACCAAAGTGCCACG
1 TATAATTGCACCGAAGTGCCGCT
*
953984 TAGAATTGCACCGAAGTGCCGCT
1 TATAATTGCACCGAAGTGCCGCT
954007 TATAATTGCACCGAAGTGCCGCT
1 TATAATTGCACCGAAGTGCCGCT
954030 TATAATTGCACCG
1 TATAATTGCACCG
954043 TAGTTCCATA
Statistics
Matches: 53, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 53 1.00
ACGTcount: A:0.30, C:0.26, G:0.21, T:0.23
Consensus pattern (23 bp):
TATAATTGCACCGAAGTGCCGCT
Found at i:955310 original size:42 final size:44
Alignment explanation
Indices: 955263--955357 Score: 133
Period size: 44 Copynumber: 2.2 Consensus size: 44
955253 TTGTGCTTAA
* *
955263 TGCATCGATACACC-T-AACAGTGCATCGATGCA-TCCTTGAATG
1 TGCATCGATACACCATGAA-AGTGCACCGATGCACGCCTTGAATG
*
955305 TGCATCGATACACCATGAAGGTGCACCGATGCACGCCTTGAATG
1 TGCATCGATACACCATGAAAGTGCACCGATGCACGCCTTGAATG
955349 TGCATCGAT
1 TGCATCGAT
955358 GCACAAGGCC
Statistics
Matches: 47, Mismatches: 3, Indels: 4
0.87 0.06 0.07
Matches are distributed among these distances:
42 14 0.30
43 13 0.28
44 20 0.43
ACGTcount: A:0.27, C:0.26, G:0.22, T:0.24
Consensus pattern (44 bp):
TGCATCGATACACCATGAAAGTGCACCGATGCACGCCTTGAATG
Found at i:955328 original size:21 final size:21
Alignment explanation
Indices: 955263--955357 Score: 86
Period size: 23 Copynumber: 4.4 Consensus size: 21
955253 TTGTGCTTAA
*
955263 TGCATCGATACACC-T-AACAG
1 TGCATCGATACACCTTGAA-TG
*
955283 TGCATCGATGCATCCTTGAATG
1 TGCATCGATACA-CCTTGAATG
* *
955305 TGCATCGATACACCATGAAGG
1 TGCATCGATACACCTTGAATG
* *
955326 TGCACCGATGCACGCCTTGAATG
1 TGCATCGAT--ACACCTTGAATG
955349 TGCATCGAT
1 TGCATCGAT
955358 GCACAAGGCC
Statistics
Matches: 60, Mismatches: 10, Indels: 7
0.78 0.13 0.09
Matches are distributed among these distances:
20 11 0.18
21 17 0.28
22 13 0.22
23 19 0.32
ACGTcount: A:0.27, C:0.26, G:0.22, T:0.24
Consensus pattern (21 bp):
TGCATCGATACACCTTGAATG
Found at i:955351 original size:23 final size:23
Alignment explanation
Indices: 955282--955362 Score: 96
Period size: 23 Copynumber: 3.7 Consensus size: 23
955272 ACACCTAACA
*
955282 GTGCATCGATGCA-TCCTTGAAT
1 GTGCATCGATGCACACCTTGAAT
* *
955304 GTGCATCGAT--ACACCATGAAG
1 GTGCATCGATGCACACCTTGAAT
* *
955325 GTGCACCGATGCACGCCTTGAAT
1 GTGCATCGATGCACACCTTGAAT
955348 GTGCATCGATGCACA
1 GTGCATCGATGCACA
955363 AGGCCATGCA
Statistics
Matches: 47, Mismatches: 9, Indels: 5
0.77 0.15 0.08
Matches are distributed among these distances:
20 1 0.02
21 15 0.32
22 10 0.21
23 21 0.45
ACGTcount: A:0.26, C:0.26, G:0.25, T:0.23
Consensus pattern (23 bp):
GTGCATCGATGCACACCTTGAAT
Found at i:955378 original size:43 final size:42
Alignment explanation
Indices: 955281--955380 Score: 112
Period size: 43 Copynumber: 2.3 Consensus size: 42
955271 TACACCTAAC
* * *
955281 AGTGCATCGATGCATCCTTGAATGTGCATCGATACACCATGA
1 AGTGCATCGATGCAGCCTTGAATGTGCATCGATACACAAGGA
* * *
955323 AGGTGCACCGATGCACGCCTTGAATGTGCATCGATGCACAAGGCC
1 A-GTGCATCGATGCA-GCCTTGAATGTGCATCGATACACAAGG-A
955368 A-TGCATCGATGCA
1 AGTGCATCGATGCA
955381 TCCGTTGGGT
Statistics
Matches: 48, Mismatches: 7, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
42 1 0.02
43 23 0.48
44 23 0.48
45 1 0.02
ACGTcount: A:0.27, C:0.26, G:0.25, T:0.22
Consensus pattern (42 bp):
AGTGCATCGATGCAGCCTTGAATGTGCATCGATACACAAGGA
Found at i:956945 original size:21 final size:21
Alignment explanation
Indices: 956903--956946 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
956893 ACTCCGGGAG
*
956903 CTAGTTCTTCACGAGCTGCTC
1 CTAGTTCTTCACGAGCTCCTC
* *
956924 CTAGTTCTTCTCGTGCTCCTC
1 CTAGTTCTTCACGAGCTCCTC
956945 CT
1 CT
956947 CCTCCTTCGG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.09, C:0.36, G:0.16, T:0.39
Consensus pattern (21 bp):
CTAGTTCTTCACGAGCTCCTC
Found at i:957777 original size:21 final size:21
Alignment explanation
Indices: 957748--957788 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
957738 AACAAATTAA
957748 TTTTAAATGAATTT-TAAGAT
1 TTTTAAATGAATTTCTAAGAT
*
957768 TTTTCAAATGATTTTCTAAGA
1 TTTT-AAATGAATTTCTAAGA
957789 ATATTTGATT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 4 0.22
21 9 0.50
22 5 0.28
ACGTcount: A:0.37, C:0.05, G:0.10, T:0.49
Consensus pattern (21 bp):
TTTTAAATGAATTTCTAAGAT
Found at i:958051 original size:45 final size:45
Alignment explanation
Indices: 958002--958091 Score: 155
Period size: 45 Copynumber: 2.0 Consensus size: 45
957992 ATGAACATCG
*
958002 AATGCATTTTATGCATCGATGCACATA-CCATGCATCGATGCACTC
1 AATGCATTTGATGCATCGATGCACA-AGCCATGCATCGATGCACTC
958047 AATGCATTTGATGCATCGATGCACAAGCCATGCATCGATGCACTC
1 AATGCATTTGATGCATCGATGCACAAGCCATGCATCGATGCACTC
958092 TGGCTAATTT
Statistics
Matches: 43, Mismatches: 1, Indels: 2
0.93 0.02 0.04
Matches are distributed among these distances:
44 1 0.02
45 42 0.98
ACGTcount: A:0.29, C:0.27, G:0.18, T:0.27
Consensus pattern (45 bp):
AATGCATTTGATGCATCGATGCACAAGCCATGCATCGATGCACTC
Found at i:958081 original size:19 final size:19
Alignment explanation
Indices: 958012--958089 Score: 68
Period size: 19 Copynumber: 3.7 Consensus size: 19
958002 AATGCATTTT
958012 ATGCATCGATGCACATA-CC
1 ATGCATCGATGCACA-AGCC
*
958031 ATGCATCGATGCACTCAATGCATTTG
1 ATGCATCGATGCA--CAA-GC----C
958057 ATGCATCGATGCACAAGCC
1 ATGCATCGATGCACAAGCC
958076 ATGCATCGATGCAC
1 ATGCATCGATGCAC
958090 TCTGGCTAAT
Statistics
Matches: 49, Mismatches: 2, Indels: 16
0.73 0.03 0.24
Matches are distributed among these distances:
19 27 0.55
20 1 0.02
21 2 0.04
22 1 0.02
23 2 0.04
24 3 0.06
26 13 0.27
ACGTcount: A:0.29, C:0.28, G:0.19, T:0.23
Consensus pattern (19 bp):
ATGCATCGATGCACAAGCC
Found at i:959254 original size:463 final size:462
Alignment explanation
Indices: 958389--959281 Score: 1356
Period size: 463 Copynumber: 1.9 Consensus size: 462
958379 AATAAGAGAA
* * *
958389 AAAGCATCAAACATCAATTTTGTGCAGTTCAAGCCAAATTTCCTTTCAATATTCATTTTGCTTTC
1 AAAGCATCAAACATCAATTTTGAGCACTTCAAGCCAAATTTCCATTCAATATTCATTTTGCTTTC
* * *
958454 AAGAACACAATTTGTGCTCAATTATAATTATCTTTGAGTGTTCTTATCTTGTTATAGAATTGTGC
66 AAGAACACAACTTGTACTCAATTATAATTATCTTTGAGTGTTATTATCTTGTTATAGAATTGTGC
958519 AAACAATCTACCTTGTGAGGATTTCCTTGTAAGTTTGCAAATTTATAATCTTCTCTTTGAGAAAG
131 AAACAATCTACCTTGTGAGGATTTCCTTGTAAGTTTGCAAATTTATAATCTTCTCTTTGAGAAAG
*
958584 AGTGTTCTCAAGAATTGGGGTATATTCTTGAGGGAGTTGTAAGGTTATCATTTTGGCCTCAAAAG
196 AGTGTTCTCAAGAATTGGGGTATATTCTTGAGGGAGTTATAAGGTTATCATTTTGGCCTCAAAAG
958649 AAAGATCAAATTAGTGAATTTGTTGGAAAATCCTTAGTGTGGATAGCTAAGGTAGTGGACGTAGA
261 AAAGATCAAATTAGTGAATTTGTTGGAAAATCCTTAGTGTGGATAGCTAAGGTAGTGGACGTAGA
*
958714 CTTTGGTTGAAAAAGTCGAACCACTCTAAATCGATGTGCAAATCTTTTCAATTTTCTGCAAAAGC
326 CTTTGGTTGAAAAAGTCGAACCACTCAAAATCGATGTGCAAATCTTTTCAATTTTCTGCAAAAGC
958779 TTCCACCAAAATTTTAATTACCAATTCACCCCCCTCTTGGCCTATTCCATCGATAGTTTAACTCA
391 TTCCACCAAAATTTTAATTACCAATTCA-CCCCCTCTTGGCCTATTCCATCGATAGTTTAACTCA
958844 ACAAAGAG
455 ACAAAGAG
* * * *
958852 AAAGCATCAAAC-TCATTGTTTGAGCACTTCAAGCCTATTTTTCATTCAATATTCATTTTGCTTT
1 AAAGCATCAAACATCAAT-TTTGAGCACTTCAAGCCAAATTTCCATTCAATATTCATTTTGCTTT
* *
958916 CAAGAACACTACTTGTACTCAATTAT-ATTCAT-TCTTGAGTGTTATT-TCTTTGTTCTAGAATT
65 CAAGAACACAACTTGTACTCAATTATAATT-ATCT-TTGAGTGTTATTATC-TTGTTATAGAATT
* * * * *
958978 GTGCAAAC-ATCTTGCCTTGTGAGGATTTTCTTGTAAGTTTGCAAAATTTGTATTGTTCTCTTTG
127 GTGCAAACAATC-TACCTTGTGAGGATTTCCTTGTAAGTTTGC-AAATTTATAATCTTCTCTTTG
* * * * *
959042 GGAGAGTGTGTTCTCAAGAATTTGGGGTATAATTCTTGAGGGATTTATAAGGTTA-CTATTTT-T
190 AGAAAGAGTGTTCTCAAGAA-TTGGGGTAT-ATTCTTGAGGGAGTTATAAGGTTATC-ATTTTGG
959105 CCTCAAAAGAAAGA-CAAATTAGTGAATTTG-TGGAAAATCCTTAGTGTGGATAGCTAAGGTAGT
252 CCTCAAAAGAAAGATCAAATTAGTGAATTTGTTGGAAAATCCTTAGTGTGGATAGCTAAGGTAGT
* * * *
959168 GGACGTAGACTTTGGTTGAGAAAGTCGAACCACTCAAAATCGCTGTGTAATTAC-TTTCAATTTT
317 GGACGTAGACTTTGGTTGAAAAAGTCGAACCACTCAAAATCGATGTGCAAAT-CTTTTCAATTTT
*
959232 CTGCAAAAGCTTCCACCAAAATTTTAATTGCCAATTCACCCCCTCTTGGC
381 CTGCAAAAGCTTCCACCAAAATTTTAATTACCAATTCACCCCCTCTTGGC
959282 TATATTCGTC
Statistics
Matches: 391, Mismatches: 29, Indels: 21
0.89 0.07 0.05
Matches are distributed among these distances:
462 25 0.06
463 263 0.67
464 52 0.13
465 24 0.06
466 27 0.07
ACGTcount: A:0.30, C:0.17, G:0.17, T:0.36
Consensus pattern (462 bp):
AAAGCATCAAACATCAATTTTGAGCACTTCAAGCCAAATTTCCATTCAATATTCATTTTGCTTTC
AAGAACACAACTTGTACTCAATTATAATTATCTTTGAGTGTTATTATCTTGTTATAGAATTGTGC
AAACAATCTACCTTGTGAGGATTTCCTTGTAAGTTTGCAAATTTATAATCTTCTCTTTGAGAAAG
AGTGTTCTCAAGAATTGGGGTATATTCTTGAGGGAGTTATAAGGTTATCATTTTGGCCTCAAAAG
AAAGATCAAATTAGTGAATTTGTTGGAAAATCCTTAGTGTGGATAGCTAAGGTAGTGGACGTAGA
CTTTGGTTGAAAAAGTCGAACCACTCAAAATCGATGTGCAAATCTTTTCAATTTTCTGCAAAAGC
TTCCACCAAAATTTTAATTACCAATTCACCCCCTCTTGGCCTATTCCATCGATAGTTTAACTCAA
CAAAGAG
Found at i:971344 original size:21 final size:21
Alignment explanation
Indices: 971318--971398 Score: 81
Period size: 21 Copynumber: 3.9 Consensus size: 21
971308 ATTAAGGAGT
971318 GGTCTTTTGGGACATATACGA
1 GGTCTTTTGGGACATATACGA
* * * *
971339 GGTCTTTTGAGACATACATGT
1 GGTCTTTTGGGACATATACGA
* *
971360 CGTCTTTCGGGACATATACGA
1 GGTCTTTTGGGACATATACGA
* * *
971381 GGTCCTTTAGGAGATATA
1 GGTCTTTTGGGACATATA
971399 AGTTGTCATT
Statistics
Matches: 45, Mismatches: 15, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
21 45 1.00
ACGTcount: A:0.25, C:0.16, G:0.26, T:0.33
Consensus pattern (21 bp):
GGTCTTTTGGGACATATACGA
Found at i:971411 original size:42 final size:42
Alignment explanation
Indices: 971326--971415 Score: 112
Period size: 42 Copynumber: 2.1 Consensus size: 42
971316 GTGGTCTTTT
* *
971326 GGGACATATACGAGGTCTTTTGAGACATACATGTCGTCTTTC
1 GGGACATATACGAGGTCTTTGGAGACATACATGTCGTCATTC
* *
971368 GGGACATATACGAGGTCCTTTAGGAGATATA-A-GTTGTCATTC
1 GGGACATATACGAGGT-CTTT-GGAGACATACATGTCGTCATTC
971410 GGGACA
1 GGGACA
971416 ATTTTACATG
Statistics
Matches: 42, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
42 30 0.71
43 5 0.12
44 7 0.17
ACGTcount: A:0.27, C:0.17, G:0.27, T:0.30
Consensus pattern (42 bp):
GGGACATATACGAGGTCTTTGGAGACATACATGTCGTCATTC
Found at i:971753 original size:31 final size:30
Alignment explanation
Indices: 971685--971749 Score: 78
Period size: 30 Copynumber: 2.2 Consensus size: 30
971675 ACAAGCCTTA
* * * *
971685 GAAAATTTTGGGGACCATTTTGTAATTTTT
1 GAAAAGTTAGGGGACCAATTAGTAATTTTT
971715 GAAAAGTTAGGGGACCAATTAGATAA-TTTT
1 GAAAAGTTAGGGGACCAATTAG-TAATTTTT
971745 GAAAA
1 GAAAA
971750 AGTTGTGAAT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
30 27 0.90
31 3 0.10
ACGTcount: A:0.37, C:0.06, G:0.22, T:0.35
Consensus pattern (30 bp):
GAAAAGTTAGGGGACCAATTAGTAATTTTT
Found at i:972954 original size:21 final size:21
Alignment explanation
Indices: 972928--973036 Score: 105
Period size: 21 Copynumber: 5.2 Consensus size: 21
972918 GTAGCCTTTT
972928 GGGACATATACGAGGTCATTC
1 GGGACATATACGAGGTCATTC
* * * *
972949 GGGACATACA-TATCGTCCTTC
1 GGGACATATACGA-GGTCATTC
972970 GGGACATATACGAGGTTC-TTC
1 GGGACATATACGAGG-TCATTC
* ** *
972991 GGGACATATAAGTTGTCTTTC
1 GGGACATATACGAGGTCATTC
*
973012 AGGACATATACGAGGTCATTC
1 GGGACATATACGAGGTCATTC
973033 GGGA
1 GGGA
973037 TAATTTTATA
Statistics
Matches: 68, Mismatches: 16, Indels: 8
0.74 0.17 0.09
Matches are distributed among these distances:
20 3 0.04
21 62 0.91
22 3 0.04
ACGTcount: A:0.27, C:0.19, G:0.27, T:0.28
Consensus pattern (21 bp):
GGGACATATACGAGGTCATTC
Found at i:972992 original size:42 final size:42
Alignment explanation
Indices: 972928--973036 Score: 150
Period size: 42 Copynumber: 2.6 Consensus size: 42
972918 GTAGCCTTTT
972928 GGGACATATACGAGGTCATTCGGGACATACATA-TCGTCCTTC
1 GGGACATATACGAGGTCATTCGGGACATACA-AGTCGTCCTTC
* * *
972970 GGGACATATACGAGGTTC-TTCGGGACATATAAGTTGTCTTTC
1 GGGACATATACGAGG-TCATTCGGGACATACAAGTCGTCCTTC
*
973012 AGGACATATACGAGGTCATTCGGGA
1 GGGACATATACGAGGTCATTCGGGA
973037 TAATTTTATA
Statistics
Matches: 60, Mismatches: 4, Indels: 6
0.86 0.06 0.09
Matches are distributed among these distances:
41 3 0.05
42 55 0.92
43 2 0.03
ACGTcount: A:0.27, C:0.19, G:0.27, T:0.28
Consensus pattern (42 bp):
GGGACATATACGAGGTCATTCGGGACATACAAGTCGTCCTTC
Found at i:973307 original size:28 final size:28
Alignment explanation
Indices: 973275--973329 Score: 101
Period size: 28 Copynumber: 2.0 Consensus size: 28
973265 ATATGATATG
*
973275 TTACAAATGTTAAGTACAAGATGACATA
1 TTACAAAGGTTAAGTACAAGATGACATA
973303 TTACAAAGGTTAAGTACAAGATGACAT
1 TTACAAAGGTTAAGTACAAGATGACAT
973330 GTTTTAAATG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.45, C:0.11, G:0.16, T:0.27
Consensus pattern (28 bp):
TTACAAAGGTTAAGTACAAGATGACATA
Found at i:973448 original size:28 final size:28
Alignment explanation
Indices: 973416--973470 Score: 101
Period size: 28 Copynumber: 2.0 Consensus size: 28
973406 ATATGATATG
*
973416 TTACAAATGTTAAGTACAAGATGACATA
1 TTACAAAGGTTAAGTACAAGATGACATA
973444 TTACAAAGGTTAAGTACAAGATGACAT
1 TTACAAAGGTTAAGTACAAGATGACAT
973471 GCTTTAAATG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.45, C:0.11, G:0.16, T:0.27
Consensus pattern (28 bp):
TTACAAAGGTTAAGTACAAGATGACATA
Found at i:973493 original size:141 final size:141
Alignment explanation
Indices: 973239--973519 Score: 553
Period size: 141 Copynumber: 2.0 Consensus size: 141
973229 ATGTGATATT
973239 GTGTATATTGCTTGGTGAAATGTATTATATGATATGTTACAAATGTTAAGTACAAGATGACATAT
1 GTGTATATTGCTTGGTGAAATGTATTATATGATATGTTACAAATGTTAAGTACAAGATGACATAT
*
973304 TACAAAGGTTAAGTACAAGATGACATGTTTTAAATGGGTTAATGATAATGATAGAGATCATGATA
66 TACAAAGGTTAAGTACAAGATGACATGCTTTAAATGGGTTAATGATAATGATAGAGATCATGATA
973369 ATGATGTTGAA
131 ATGATGTTGAA
973380 GTGTATATTGCTTGGTGAAATGTATTATATGATATGTTACAAATGTTAAGTACAAGATGACATAT
1 GTGTATATTGCTTGGTGAAATGTATTATATGATATGTTACAAATGTTAAGTACAAGATGACATAT
973445 TACAAAGGTTAAGTACAAGATGACATGCTTTAAATGGGTTAATGATAATGATAGAGATCATGATA
66 TACAAAGGTTAAGTACAAGATGACATGCTTTAAATGGGTTAATGATAATGATAGAGATCATGATA
973510 ATGATGTTGA
131 ATGATGTTGA
973520 TGTTGATAAT
Statistics
Matches: 139, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
141 139 1.00
ACGTcount: A:0.38, C:0.06, G:0.21, T:0.35
Consensus pattern (141 bp):
GTGTATATTGCTTGGTGAAATGTATTATATGATATGTTACAAATGTTAAGTACAAGATGACATAT
TACAAAGGTTAAGTACAAGATGACATGCTTTAAATGGGTTAATGATAATGATAGAGATCATGATA
ATGATGTTGAA
Found at i:981871 original size:3 final size:3
Alignment explanation
Indices: 981863--981891 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
981853 AGACATACGT
981863 TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
981892 ATTTTTTTGG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (3 bp):
TTC
Found at i:1000456 original size:63 final size:64
Alignment explanation
Indices: 1000317--1000478 Score: 177
Period size: 63 Copynumber: 2.5 Consensus size: 64
1000307 ATTGTTCAAG
* * **** *
1000317 GTGTATCGATGCACATGAAGTGCATCGATGCACTATTTTAAAATAAAAACATCGAATGCCTTCA
1 GTGTATCGATGCACAAGTAGTGCATCGATGCACCCCCTTAAAATAAAAACATCGAATGCATTCA
* * *
1000381 GTGTATCGATGCACAAGTAGTGCATCGATGCACCCCCTT-AAATACAAACATCGAATAGGATTTA
1 GTGTATCGATGCACAAGTAGTGCATCGATGCACCCCCTTAAAATAAAAACATCGAAT-GCATTCA
* *
1000445 -TGTATAGATGCA-TAGATAGTGCATCGATGCACCC
1 GTGTATCGATGCACAAG-TAGTGCATCGATGCACCC
1000479 GTCAAGGGAT
Statistics
Matches: 84, Mismatches: 12, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
62 2 0.02
63 45 0.54
64 37 0.44
ACGTcount: A:0.34, C:0.20, G:0.19, T:0.27
Consensus pattern (64 bp):
GTGTATCGATGCACAAGTAGTGCATCGATGCACCCCCTTAAAATAAAAACATCGAATGCATTCA
Found at i:1001186 original size:23 final size:23
Alignment explanation
Indices: 1001118--1001186 Score: 59
Period size: 23 Copynumber: 3.0 Consensus size: 23
1001108 CAATCTTATA
* * *
1001118 TGGCACTACGGTGCAATTATA-T
1 TGGCACTTCGGTACAATTATACG
*
1001140 TCGGCACTTCGGTACAATTCTACG
1 T-GGCACTTCGGTACAATTATACG
* * *
1001164 TGGCACTTGGGTGCATTTATACG
1 TGGCACTTCGGTACAATTATACG
1001187 AGCTGTGGTG
Statistics
Matches: 37, Mismatches: 8, Indels: 3
0.77 0.17 0.06
Matches are distributed among these distances:
22 1 0.03
23 35 0.95
24 1 0.03
ACGTcount: A:0.22, C:0.22, G:0.25, T:0.32
Consensus pattern (23 bp):
TGGCACTTCGGTACAATTATACG
Found at i:1007476 original size:20 final size:20
Alignment explanation
Indices: 1007451--1007499 Score: 98
Period size: 20 Copynumber: 2.5 Consensus size: 20
1007441 CGTCAAGGGA
1007451 TGCATCGATACATGGTGTAG
1 TGCATCGATACATGGTGTAG
1007471 TGCATCGATACATGGTGTAG
1 TGCATCGATACATGGTGTAG
1007491 TGCATCGAT
1 TGCATCGAT
1007500 GCATACTTTC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.24, C:0.16, G:0.29, T:0.31
Consensus pattern (20 bp):
TGCATCGATACATGGTGTAG
Found at i:1008141 original size:23 final size:23
Alignment explanation
Indices: 1008115--1008169 Score: 65
Period size: 23 Copynumber: 2.4 Consensus size: 23
1008105 ACTACAATGC
*
1008115 AATTATACGCGGCACTTCGGTGA
1 AATTATACGCGGCACTTCAGTGA
* * *
1008138 AATTCTACGTGGCACTTCAGTGC
1 AATTATACGCGGCACTTCAGTGA
*
1008161 ATTTATACG
1 AATTATACG
1008170 AGCTGTGGTG
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.25, C:0.22, G:0.22, T:0.31
Consensus pattern (23 bp):
AATTATACGCGGCACTTCAGTGA
Found at i:1011339 original size:17 final size:17
Alignment explanation
Indices: 1011291--1011339 Score: 57
Period size: 15 Copynumber: 3.0 Consensus size: 17
1011281 AAATTTAAAT
*
1011291 AAATAATAATTATATAA
1 AAATAATATTTATATAA
* *
1011308 ATATTAT-TTTA-ATAA
1 AAATAATATTTATATAA
1011323 AAATAATATTTATATAA
1 AAATAATATTTATATAA
1011340 TTATATTAAT
Statistics
Matches: 25, Mismatches: 5, Indels: 4
0.74 0.15 0.12
Matches are distributed among these distances:
15 9 0.36
16 7 0.28
17 9 0.36
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (17 bp):
AAATAATATTTATATAA
Found at i:1011361 original size:32 final size:32
Alignment explanation
Indices: 1011291--1011363 Score: 87
Period size: 32 Copynumber: 2.3 Consensus size: 32
1011281 AAATTTAAAT
*
1011291 AAATAATAATTATATAAATATTATTTTAATAA
1 AAATAATAATTATATAAATATTATTATAATAA
* *
1011323 AAATAATATTTATATAATTA-TATTA-ATATAA
1 AAATAATAATTATATAAATATTATTATA-ATAA
1011354 AATATAATAA
1 AA-ATAATAA
1011364 CTATTTTAAA
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
30 1 0.03
31 10 0.29
32 24 0.69
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (32 bp):
AAATAATAATTATATAAATATTATTATAATAA
Found at i:1011372 original size:24 final size:24
Alignment explanation
Indices: 1011336--1011385 Score: 57
Period size: 24 Copynumber: 2.1 Consensus size: 24
1011326 TAATATTTAT
* *
1011336 ATAATTATATTAATATAAAATA-TA
1 ATAACTATATTAA-AAAAAATACTA
*
1011360 ATAACTATTTTAAAAAAAATACTA
1 ATAACTATATTAAAAAAAATACTA
1011384 AT
1 AT
1011386 TGAAAAATAA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
23 7 0.32
24 15 0.68
ACGTcount: A:0.58, C:0.04, G:0.00, T:0.38
Consensus pattern (24 bp):
ATAACTATATTAAAAAAAATACTA
Found at i:1014217 original size:53 final size:53
Alignment explanation
Indices: 1014159--1014264 Score: 194
Period size: 53 Copynumber: 2.0 Consensus size: 53
1014149 TATTGGGAGA
*
1014159 AAGAAATTATTTGGGATGATTTTAAAGCTAAATGAGTTAGGGTATTTATAGTT
1 AAGAAATTATTTGGGATGATTTTAAAGCTAAATGAGTTAGAGTATTTATAGTT
*
1014212 AAGAAATTATTTGGGATGATTTTAAAGCTAAATGGGTTAGAGTATTTATAGTT
1 AAGAAATTATTTGGGATGATTTTAAAGCTAAATGAGTTAGAGTATTTATAGTT
1014265 GAAGCATAAA
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
53 51 1.00
ACGTcount: A:0.36, C:0.02, G:0.23, T:0.40
Consensus pattern (53 bp):
AAGAAATTATTTGGGATGATTTTAAAGCTAAATGAGTTAGAGTATTTATAGTT
Found at i:1014244 original size:26 final size:26
Alignment explanation
Indices: 1014162--1014244 Score: 75
Period size: 26 Copynumber: 3.2 Consensus size: 26
1014152 TGGGAGAAAG
1014162 AAATTATTTGGGATGATTTTAAAGCT
1 AAATTATTTGGGATGATTTTAAAGCT
* *
1014188 AAATGAGTTAGGG-T-ATTTATAGTTAAG--
1 AAATTA-TTTGGGATGATTT-TA---AAGCT
1014215 AAATTATTTGGGATGATTTTAAAGCT
1 AAATTATTTGGGATGATTTTAAAGCT
1014241 AAAT
1 AAAT
1014245 GGGTTAGAGT
Statistics
Matches: 44, Mismatches: 4, Indels: 18
0.67 0.06 0.27
Matches are distributed among these distances:
24 3 0.07
25 4 0.09
26 17 0.39
27 13 0.30
28 4 0.09
29 3 0.07
ACGTcount: A:0.37, C:0.02, G:0.20, T:0.40
Consensus pattern (26 bp):
AAATTATTTGGGATGATTTTAAAGCT
Found at i:1019061 original size:12 final size:12
Alignment explanation
Indices: 1019044--1019068 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
1019034 ATGGTGTTTT
1019044 CTCTGTCGGAAC
1 CTCTGTCGGAAC
1019056 CTCTGTCGGAAC
1 CTCTGTCGGAAC
1019068 C
1 C
1019069 ACCAATTCGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.36, G:0.24, T:0.24
Consensus pattern (12 bp):
CTCTGTCGGAAC
Found at i:1019440 original size:20 final size:20
Alignment explanation
Indices: 1019415--1019508 Score: 100
Period size: 20 Copynumber: 4.7 Consensus size: 20
1019405 AATTGGGAAA
*
1019415 ATCGCAATGCGATACTGACT
1 ATCGCAACGCGATACTGACT
* *
1019435 ATCGCAATGCGATACTTACT
1 ATCGCAACGCGATACTGACT
* *
1019455 ATCGCAACGCGATAAT-ACAAA
1 ATCGCAACGCGATACTGAC--T
*
1019476 ATCGCAACGAGATACTGACT
1 ATCGCAACGCGATACTGACT
*
1019496 TTCGCAACGCGAT
1 ATCGCAACGCGAT
1019509 TTACATAGCG
Statistics
Matches: 62, Mismatches: 9, Indels: 6
0.81 0.12 0.08
Matches are distributed among these distances:
19 2 0.03
20 44 0.71
21 14 0.23
22 2 0.03
ACGTcount: A:0.34, C:0.26, G:0.18, T:0.22
Consensus pattern (20 bp):
ATCGCAACGCGATACTGACT
Found at i:1020112 original size:19 final size:19
Alignment explanation
Indices: 1020065--1020106 Score: 66
Period size: 19 Copynumber: 2.2 Consensus size: 19
1020055 ACGAGAGAAT
*
1020065 CGCAACGCGAAATAAAAAA
1 CGCAACGCGAAACAAAAAA
*
1020084 CGCAACGCGAAACAAAAAT
1 CGCAACGCGAAACAAAAAA
1020103 CGCA
1 CGCA
1020107 TTGCGATTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.52, C:0.26, G:0.17, T:0.05
Consensus pattern (19 bp):
CGCAACGCGAAACAAAAAA
Found at i:1020124 original size:19 final size:19
Alignment explanation
Indices: 1020102--1020191 Score: 135
Period size: 19 Copynumber: 4.7 Consensus size: 19
1020092 GAAACAAAAA
*
1020102 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
*
1020121 TCGCGTTGCGCTTTTCATT
1 TCGCGTTGCGATTTTCATT
*
1020140 TCGCGTTGCGATTTTTATT
1 TCGCGTTGCGATTTTCATT
1020159 TCGCGGTTGCGATTTTCATT
1 TCGC-GTTGCGATTTTCATT
*
1020179 TCACGTTGCGATT
1 TCGCGTTGCGATT
1020192 GTCTGGTCGC
Statistics
Matches: 64, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
19 47 0.73
20 17 0.27
ACGTcount: A:0.11, C:0.21, G:0.21, T:0.47
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:1020179 original size:39 final size:38
Alignment explanation
Indices: 1020102--1020191 Score: 135
Period size: 39 Copynumber: 2.3 Consensus size: 38
1020092 GAAACAAAAA
* *
1020102 TCGCATTGCGATTTTCATTTCGCGTTGCGCTTTTCATT
1 TCGCGTTGCGATTTTCATTTCGCGTTGCGATTTTCATT
*
1020140 TCGCGTTGCGATTTTTATTTCGCGGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATTTCGC-GTTGCGATTTTCATT
*
1020179 TCACGTTGCGATT
1 TCGCGTTGCGATT
1020192 GTCTGGTCGC
Statistics
Matches: 47, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
38 21 0.45
39 26 0.55
ACGTcount: A:0.11, C:0.21, G:0.21, T:0.47
Consensus pattern (38 bp):
TCGCGTTGCGATTTTCATTTCGCGTTGCGATTTTCATT
Found at i:1020202 original size:39 final size:39
Alignment explanation
Indices: 1020121--1020202 Score: 96
Period size: 39 Copynumber: 2.1 Consensus size: 39
1020111 GATTTTCATT
* * * **
1020121 TCGC-GTTGCGCTTTTCATTTCGCGTTGCGATTTTTATT
1 TCGCGGTTGCGATTTTCATTTCACGTTGCGATTTCTAGG
1020159 TCGCGGTTGCGATTTTCATTTCACGTTGCGATTGTCT-GG
1 TCGCGGTTGCGATTTTCATTTCACGTTGCGATT-TCTAGG
1020198 TCGCG
1 TCGCG
1020203 ATAGTCATTT
Statistics
Matches: 37, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
38 4 0.11
39 31 0.84
40 2 0.05
ACGTcount: A:0.09, C:0.22, G:0.26, T:0.44
Consensus pattern (39 bp):
TCGCGGTTGCGATTTTCATTTCACGTTGCGATTTCTAGG
Found at i:1020277 original size:20 final size:20
Alignment explanation
Indices: 1020243--1020300 Score: 64
Period size: 20 Copynumber: 2.9 Consensus size: 20
1020233 GTGATTATAT
**
1020243 CGTTGCGATAGTCATTTCCG
1 CGTTGCGATTCTCATTTCCG
*
1020263 CGTTGCGATTCTCATTAT-CT
1 CGTTGCGATTCTCATT-TCCG
*
1020283 CGTTGCGATTTTCATTTC
1 CGTTGCGATTCTCATTTC
1020301 AACCAAAAGA
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
19 1 0.03
20 30 0.94
21 1 0.03
ACGTcount: A:0.14, C:0.24, G:0.19, T:0.43
Consensus pattern (20 bp):
CGTTGCGATTCTCATTTCCG
Found at i:1022358 original size:39 final size:39
Alignment explanation
Indices: 1022287--1022362 Score: 98
Period size: 39 Copynumber: 1.9 Consensus size: 39
1022277 GACTCGCCTG
* * *
1022287 TCATCCCTCAAGAGTCCACCTATCGTTGAAGAGGCCATA
1 TCATCCCTCAAGAGTCCACCCACCGTTCAAGAGGCCATA
* * *
1022326 TCATTCCTCGAGAGTCCCCCCACCGTTCAAGAGGCCA
1 TCATCCCTCAAGAGTCCACCCACCGTTCAAGAGGCCA
1022363 ACTGTCATCG
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
39 31 1.00
ACGTcount: A:0.25, C:0.36, G:0.18, T:0.21
Consensus pattern (39 bp):
TCATCCCTCAAGAGTCCACCCACCGTTCAAGAGGCCATA
Found at i:1023762 original size:14 final size:14
Alignment explanation
Indices: 1023743--1023775 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
1023733 ATTGTTTAAT
1023743 TGATTTGTAAAAGG
1 TGATTTGTAAAAGG
*
1023757 TGATTTGTAAAAGT
1 TGATTTGTAAAAGG
1023771 TGATT
1 TGATT
1023776 GTTTTTAATA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.33, C:0.00, G:0.24, T:0.42
Consensus pattern (14 bp):
TGATTTGTAAAAGG
Found at i:1023978 original size:19 final size:19
Alignment explanation
Indices: 1023956--1024084 Score: 76
Period size: 19 Copynumber: 7.7 Consensus size: 19
1023946 CGAAATTAAA
*
1023956 TTCGCGTTGCGATTTTCAT
1 TTCGCATTGCGATTTTCAT
1023975 TTCGCATTGCGA--TTC--
1 TTCGCATTGCGATTTTCAT
*
1023990 CTCG--TTGCGATTTTCAT
1 TTCGCATTGCGATTTTCAT
*
1024007 TTCGCATTGCGA-----AA
1 TTCGCATTGCGATTTTCAT
* *
1024021 TTAGCGTTGCGATTTTCAT
1 TTCGCATTGCGATTTTCAT
1024040 TTCGCATTGCGA--TTC-T
1 TTCGCATTGCGATTTTCAT
* *
1024056 CTCG--TTGTGA-TTTCAT
1 TTCGCATTGCGATTTTCAT
1024072 TTCGCATTGCGAT
1 TTCGCATTGCGAT
1024085 AGTAATTTCC
Statistics
Matches: 81, Mismatches: 13, Indels: 32
0.64 0.10 0.25
Matches are distributed among these distances:
13 6 0.07
14 16 0.20
15 9 0.11
16 8 0.10
17 9 0.11
18 5 0.06
19 28 0.35
ACGTcount: A:0.15, C:0.22, G:0.20, T:0.43
Consensus pattern (19 bp):
TTCGCATTGCGATTTTCAT
Found at i:1024001 original size:32 final size:32
Alignment explanation
Indices: 1023960--1024084 Score: 182
Period size: 32 Copynumber: 3.9 Consensus size: 32
1023950 ATTAAATTCG
1023960 CGTTGCGATTTTCATTTCGCATTGCGATTCCT
1 CGTTGCGATTTTCATTTCGCATTGCGATTCCT
**
1023992 CGTTGCGATTTTCATTTCGCATTGCGAAATT-AG
1 CGTTGCGATTTTCATTTCGCATTGCG--ATTCCT
1024025 CGTTGCGATTTTCATTTCGCATTGCGATTCTCT
1 CGTTGCGATTTTCATTTCGCATTGCGATTC-CT
*
1024058 CGTTGTGA-TTTCATTTCGCATTGCGAT
1 CGTTGCGATTTTCATTTCGCATTGCGAT
1024085 AGTAATTTCC
Statistics
Matches: 84, Mismatches: 5, Indels: 8
0.87 0.05 0.08
Matches are distributed among these distances:
31 3 0.04
32 45 0.54
33 33 0.39
34 3 0.04
ACGTcount: A:0.15, C:0.22, G:0.20, T:0.43
Consensus pattern (32 bp):
CGTTGCGATTTTCATTTCGCATTGCGATTCCT
Found at i:1024047 original size:65 final size:65
Alignment explanation
Indices: 1023953--1024083 Score: 228
Period size: 65 Copynumber: 2.0 Consensus size: 65
1023943 ACGCGAAATT
*
1023953 AAATTCGCGTTGCGATTTTCATTTCGCATTGCGATTC-CTCGTTGCGATTTTCATTTCGCATTGC
1 AAATTAGCGTTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGA-TTTCATTTCGCATTGC
1024017 G
65 G
*
1024018 AAATTAGCGTTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGTGATTTCATTTCGCATTGCG
1 AAATTAGCGTTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTCATTTCGCATTGCG
1024083 A
1 A
1024084 TAGTAATTTC
Statistics
Matches: 63, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
65 54 0.86
66 9 0.14
ACGTcount: A:0.17, C:0.21, G:0.20, T:0.42
Consensus pattern (65 bp):
AAATTAGCGTTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTCATTTCGCATTGCG
Found at i:1026371 original size:12 final size:12
Alignment explanation
Indices: 1026354--1026378 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
1026344 TCTTCGGGGA
1026354 CTTTTTCTTCTT
1 CTTTTTCTTCTT
1026366 CTTTTTCTTCTT
1 CTTTTTCTTCTT
1026378 C
1 C
1026379 AGGATTATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (12 bp):
CTTTTTCTTCTT
Found at i:1026585 original size:24 final size:24
Alignment explanation
Indices: 1026551--1026604 Score: 72
Period size: 24 Copynumber: 2.2 Consensus size: 24
1026541 CTGAAACATC
* * *
1026551 ATCAAAATCCGTGTATTGACCAAT
1 ATCAAAATCCGGGTATTAACCAAG
*
1026575 ATCAAAGTCCGGGTATTAACCAAG
1 ATCAAAATCCGGGTATTAACCAAG
1026599 ATCAAA
1 ATCAAA
1026605 TTTCGAATAC
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.41, C:0.20, G:0.15, T:0.24
Consensus pattern (24 bp):
ATCAAAATCCGGGTATTAACCAAG
Found at i:1027679 original size:20 final size:20
Alignment explanation
Indices: 1027654--1027711 Score: 98
Period size: 20 Copynumber: 2.9 Consensus size: 20
1027644 ATTCATTTGA
*
1027654 CTATCGCAACGCGAAAATGG
1 CTATCGCAACGAGAAAATGG
*
1027674 CTATCGCAACGTGAAAATGG
1 CTATCGCAACGAGAAAATGG
1027694 CTATCGCAACGAGAAAAT
1 CTATCGCAACGAGAAAAT
1027712 CGCAATGCGA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.38, C:0.22, G:0.22, T:0.17
Consensus pattern (20 bp):
CTATCGCAACGAGAAAATGG
Found at i:1027774 original size:19 final size:19
Alignment explanation
Indices: 1027752--1027797 Score: 83
Period size: 19 Copynumber: 2.4 Consensus size: 19
1027742 TTTCTCGTTG
1027752 CGATTTTCATTTCGCATTA
1 CGATTTTCATTTCGCATTA
*
1027771 CGATTTTCATTTCGCATTG
1 CGATTTTCATTTCGCATTA
1027790 CGATTTTC
1 CGATTTTC
1027798 TCGTTGCGAT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 26 1.00
ACGTcount: A:0.17, C:0.22, G:0.13, T:0.48
Consensus pattern (19 bp):
CGATTTTCATTTCGCATTA
Found at i:1027933 original size:14 final size:14
Alignment explanation
Indices: 1027914--1027950 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
1027904 CATCAATTAA
1027914 ACAAATCAACATTT
1 ACAAATCAACATTT
* *
1027928 ACAAATCATCTTTT
1 ACAAATCAACATTT
1027942 ACAAATCAA
1 ACAAATCAA
1027951 TTAAACAATC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.49, C:0.22, G:0.00, T:0.30
Consensus pattern (14 bp):
ACAAATCAACATTT
Found at i:1029827 original size:18 final size:18
Alignment explanation
Indices: 1029804--1029854 Score: 57
Period size: 20 Copynumber: 2.7 Consensus size: 18
1029794 GAAACTTAAA
1029804 ATCGCAATGCGAATAACT
1 ATCGCAATGCGAATAACT
* **
1029822 ATCGCAACGCGGAAATGGCT
1 ATCGCAATGC-G-AATAACT
1029842 ATCGCAATGCGAA
1 ATCGCAATGCGAA
1029855 ATGAAAATCG
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
18 11 0.41
19 2 0.07
20 14 0.52
ACGTcount: A:0.35, C:0.24, G:0.24, T:0.18
Consensus pattern (18 bp):
ATCGCAATGCGAATAACT
Found at i:1029845 original size:20 final size:19
Alignment explanation
Indices: 1029820--1029857 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
1029810 ATGCGAATAA
1029820 CTATCGCAACGCGGAAATGG
1 CTATCGCAACGC-GAAATGG
*
1029840 CTATCGCAATGCGAAATG
1 CTATCGCAACGCGAAATG
1029858 AAAATCGCAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 6 0.35
20 11 0.65
ACGTcount: A:0.32, C:0.24, G:0.26, T:0.18
Consensus pattern (19 bp):
CTATCGCAACGCGAAATGG
Found at i:1029877 original size:14 final size:14
Alignment explanation
Indices: 1029858--1029915 Score: 71
Period size: 14 Copynumber: 3.9 Consensus size: 14
1029848 ATGCGAAATG
1029858 AAAATCGCAACGAC
1 AAAATCGCAACGAC
*
1029872 AAAATCGCAACGCGAA
1 AAAATCGCAA--CGAC
1029888 ATGAAATCGCAACGAC
1 A--AAATCGCAACGAC
1029904 AAAATCGCAACG
1 AAAATCGCAACG
1029916 CGAAACACAA
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
14 21 0.55
16 8 0.21
18 9 0.24
ACGTcount: A:0.48, C:0.26, G:0.17, T:0.09
Consensus pattern (14 bp):
AAAATCGCAACGAC
Found at i:1029900 original size:32 final size:33
Alignment explanation
Indices: 1029842--1029920 Score: 142
Period size: 32 Copynumber: 2.4 Consensus size: 33
1029832 GGAAATGGCT
*
1029842 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
1 ATCGCAACGCGAAATGAAAATCGCAACGACAAA
1029875 ATCGCAACGCGAAATG-AAATCGCAACGACAAA
1 ATCGCAACGCGAAATGAAAATCGCAACGACAAA
1029907 ATCGCAACGCGAAA
1 ATCGCAACGCGAAA
1029921 CACAAATCGC
Statistics
Matches: 45, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
32 30 0.67
33 15 0.33
ACGTcount: A:0.47, C:0.24, G:0.19, T:0.10
Consensus pattern (33 bp):
ATCGCAACGCGAAATGAAAATCGCAACGACAAA
Found at i:1030004 original size:14 final size:13
Alignment explanation
Indices: 1029949--1030006 Score: 53
Period size: 14 Copynumber: 3.9 Consensus size: 13
1029939 TTTCATTTCG
1029949 CGTTGCGATCTTTT
1 CGTTGCGAT-TTTT
1029963 CGTTGCGATTTCATTT
1 CGTTGCGA-TT--TTT
1029979 CGCATTGCGATTTTGT
1 CG--TTGCGATTTT-T
1029995 CGTTGCGATTTT
1 CGTTGCGATTTT
1030007 CATTTCGCAT
Statistics
Matches: 38, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
14 19 0.50
15 3 0.08
16 8 0.21
17 2 0.05
18 6 0.16
ACGTcount: A:0.10, C:0.19, G:0.22, T:0.48
Consensus pattern (13 bp):
CGTTGCGATTTTT
Found at i:1030013 original size:33 final size:33
Alignment explanation
Indices: 1029932--1030022 Score: 150
Period size: 32 Copynumber: 2.8 Consensus size: 33
1029922 ACAAATCGCA
*
1029932 TTGCGATTTTCATTTCGCGTTGCGATCTTTTCG
1 TTGCGATTTTCATTTCGCATTGCGATCTTTTCG
1029965 TTGCGA-TTTCATTTCGCATTGCGAT-TTTGTCG
1 TTGCGATTTTCATTTCGCATTGCGATCTTT-TCG
1029997 TTGCGATTTTCATTTCGCATTGCGAT
1 TTGCGATTTTCATTTCGCATTGCGAT
1030023 AGCCATTTCC
Statistics
Matches: 55, Mismatches: 1, Indels: 4
0.92 0.02 0.07
Matches are distributed among these distances:
31 3 0.05
32 27 0.49
33 25 0.45
ACGTcount: A:0.12, C:0.20, G:0.21, T:0.47
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCATTGCGATCTTTTCG
Found at i:1030041 original size:20 final size:19
Alignment explanation
Indices: 1030007--1030061 Score: 65
Period size: 20 Copynumber: 2.8 Consensus size: 19
1029997 TTGCGATTTT
*
1030007 CATTTCGCATTGCGATAGC
1 CATTTCGCGTTGCGATAGC
*
1030026 CATTTCCGCGTTGCGATAGT
1 CATTT-CGCGTTGCGATAGC
*
1030046 CATTTTCGTGTTGCGA
1 CA-TTTCGCGTTGCGA
1030062 AAGTAAACTA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
19 5 0.16
20 23 0.74
21 3 0.10
ACGTcount: A:0.16, C:0.24, G:0.24, T:0.36
Consensus pattern (19 bp):
CATTTCGCGTTGCGATAGC
Done.