Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008091.1 Hibiscus syriacus cultivar Beakdansim tig00110602_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: 2471235
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 3 of 11
Found at i:550853 original size:59 final size:58
Alignment explanation
Indices: 550751--550889 Score: 145
Period size: 59 Copynumber: 2.4 Consensus size: 58
550741 AGTGAATCCT
* *** * *
550751 AAACTTTTGAATATTCTAATTTCATCCTTAAACTATGTTTTCATTTTAAATT-ATTCTCC
1 AAACTTTTGAATATTCTAA-TTCATCCTCAAACTATACCTTCATTCTAAATTGA-TCCCC
* * *
550810 AAACTTTTGAATATTCCAATTCATCCTCAAATTATAACCTTCATTCTATATTGATCCCC
1 AAACTTTTGAATATTCTAATTCATCCTCAAACTAT-ACCTTCATTCTAAATTGATCCCC
* *
550869 AAGCTTTTAAATATTCTAATT
1 AAACTTTTGAATATTCTAATT
550890 TTAACTTTGA
Statistics
Matches: 66, Mismatches: 12, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
58 14 0.21
59 51 0.77
60 1 0.02
ACGTcount: A:0.32, C:0.19, G:0.04, T:0.45
Consensus pattern (58 bp):
AAACTTTTGAATATTCTAATTCATCCTCAAACTATACCTTCATTCTAAATTGATCCCC
Found at i:551036 original size:60 final size:60
Alignment explanation
Indices: 550938--551065 Score: 179
Period size: 60 Copynumber: 2.1 Consensus size: 60
550928 TGGAATATTT
* *
550938 AAAAGTTTGGGGACTAATCTAGAATAAGGGTCACAGTTTGAGGG-TGAATTTGAAATGTTC
1 AAAAGTTTGGGGACTAATCTAGAATAAGGGTCACAGTTT-AGGGATGAAATTAAAATGTTC
* * *
550998 AAAAGTTTGGGGACTAATTTAGAAT-GGGAGTCATAGTTTAGGGATGAAATTAAAATGTTC
1 AAAAGTTTGGGGACTAATCTAGAATAAGG-GTCACAGTTTAGGGATGAAATTAAAATGTTC
551058 AAAAGTTT
1 AAAAGTTT
551066 ATGGACCAAT
Statistics
Matches: 61, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
59 6 0.10
60 55 0.90
ACGTcount: A:0.36, C:0.06, G:0.27, T:0.31
Consensus pattern (60 bp):
AAAAGTTTGGGGACTAATCTAGAATAAGGGTCACAGTTTAGGGATGAAATTAAAATGTTC
Found at i:551092 original size:60 final size:60
Alignment explanation
Indices: 550972--551094 Score: 140
Period size: 60 Copynumber: 2.0 Consensus size: 60
550962 TAAGGGTCAC
* * * * * *** *
550972 AGTTTGAGGGTGAATTTGAAATGTTCAAAAGTTTGGGGACTAATTTAGAATGGGAGTCAT
1 AGTTTGAGGGTGAAATTAAAATGTTCAAAAGTTTAGGGACCAATTTAAAATAAAAATCAT
*
551032 AGTTT-AGGGATGAAATTAAAATGTTCAAAAGTTTATGGACCAATTTAAAATAAAAATCAT
1 AGTTTGAGGG-TGAAATTAAAATGTTCAAAAGTTTAGGGACCAATTTAAAATAAAAATCAT
551092 AGT
1 AGT
551095 CGGGGATATA
Statistics
Matches: 52, Mismatches: 10, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
59 4 0.08
60 48 0.92
ACGTcount: A:0.39, C:0.06, G:0.23, T:0.33
Consensus pattern (60 bp):
AGTTTGAGGGTGAAATTAAAATGTTCAAAAGTTTAGGGACCAATTTAAAATAAAAATCAT
Found at i:551960 original size:35 final size:34
Alignment explanation
Indices: 551884--551962 Score: 140
Period size: 34 Copynumber: 2.3 Consensus size: 34
551874 CTCAGAGGAC
*
551884 AATAAAAAAAATACTTTAGGCAGGTACCTATTTT
1 AATAAAAAAAATACTTTAGGCAGGCACCTATTTT
*
551918 AATAAAAAAAATACTTTAGGTAGGCACCTATTTT
1 AATAAAAAAAATACTTTAGGCAGGCACCTATTTT
551952 AATAAAAAAAA
1 AATAAAAAAAA
551963 ATACATCAAC
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
34 43 1.00
ACGTcount: A:0.51, C:0.10, G:0.10, T:0.29
Consensus pattern (34 bp):
AATAAAAAAAATACTTTAGGCAGGCACCTATTTT
Found at i:552723 original size:3 final size:3
Alignment explanation
Indices: 552715--552741 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
552705 TCTTCCTTCA
552715 ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT
552742 TATTGATTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:556614 original size:30 final size:30
Alignment explanation
Indices: 556568--556646 Score: 97
Period size: 30 Copynumber: 2.6 Consensus size: 30
556558 GACAATCTGG
* *
556568 TTTAATAATTACTTTGTAAAAATT-GATAAA
1 TTTAATAACTA-TTTGTAAAAATTCAATAAA
* *
556598 TTTAATGACTATTTTGTAATAATTCAATAAA
1 TTTAATAACTA-TTTGTAAAAATTCAATAAA
556629 TTTAATAACTATTTGTAA
1 TTTAATAACTATTTGTAA
556647 GTTTAAAAAA
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
30 27 0.64
31 15 0.36
ACGTcount: A:0.43, C:0.05, G:0.06, T:0.46
Consensus pattern (30 bp):
TTTAATAACTATTTGTAAAAATTCAATAAA
Found at i:558792 original size:21 final size:20
Alignment explanation
Indices: 558768--558815 Score: 53
Period size: 21 Copynumber: 2.4 Consensus size: 20
558758 TATAATTTTT
558768 ATTTTAATATTAAGATTAA-AA
1 ATTTTAATATTAA-A-TAACAA
* *
558789 ATTTAAATCTTAAATAACAA
1 ATTTTAATATTAAATAACAA
558809 ATTTTAA
1 ATTTTAA
558816 ATTCCAAAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
19 3 0.13
20 9 0.39
21 11 0.48
ACGTcount: A:0.52, C:0.04, G:0.02, T:0.42
Consensus pattern (20 bp):
ATTTTAATATTAAATAACAA
Found at i:561326 original size:14 final size:14
Alignment explanation
Indices: 561307--561338 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
561297 TTTTTTATCA
*
561307 AAAATTAAAATATT
1 AAAATTAAAATACT
561321 AAAATTAAAATACT
1 AAAATTAAAATACT
561335 AAAA
1 AAAA
561339 AATTAAAAAC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.69, C:0.03, G:0.00, T:0.28
Consensus pattern (14 bp):
AAAATTAAAATACT
Found at i:561528 original size:13 final size:13
Alignment explanation
Indices: 561507--561558 Score: 50
Period size: 13 Copynumber: 3.8 Consensus size: 13
561497 ATATAAATTG
*
561507 ATTTAATATTTAA
1 ATTTTATATTTAA
561520 ATTTTATATTTAAA
1 ATTTTATATTT-AA
*
561534 ATGTAATATATTTAA
1 AT-T-TTATATTTAA
*
561549 AATTTATATT
1 ATTTTATATT
561559 ATATGATTGT
Statistics
Matches: 32, Mismatches: 4, Indels: 6
0.76 0.10 0.14
Matches are distributed among these distances:
13 16 0.50
14 5 0.16
15 4 0.12
16 7 0.22
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (13 bp):
ATTTTATATTTAA
Found at i:566424 original size:256 final size:256
Alignment explanation
Indices: 565969--566480 Score: 936
Period size: 256 Copynumber: 2.0 Consensus size: 256
565959 TAAATTCCAT
*
565969 GACTTCTACTTTTTATACGGTTCTGTCATTGGAATTTATAAAGGCTTAGAACTAAGGTAGCGGAG
1 GACTTCTACTTTTTATACGATTCTGTCATTGGAATTTATAAAGGCTTAGAACTAAGGTAGCGGAG
566034 TAATTTTTCCTTAGTTTAGGTTTTAACCCATTTGACTTTTTACCTTATCGTAGCTTGCTATCACT
66 TAATTTTTCCTTAGTTTAGGTTTTAACCCATTTGACTTTTTACCTTATCGTAGCTTGCTATCACT
566099 GACTAATGGGTATCATTTTCTGCATGTTTCCTCTTTTTAAATTTAGTCGGGACTTACTTTTTCTG
131 GACTAATGGGTATCATTTTCTGCATGTTTCCTCTTTTTAAATTTAGTCGGGACTTACTTTTTCTG
566164 TCTATATGCAGAGATTTTTACGCATGAATTTATTTGTAGTGATTACTTCCCATTACAGATA
196 TCTATATGCAGAGATTTTTACGCATGAATTTATTTGTAGTGATTACTTCCCATTACAGATA
* *
566225 GACTTCTACTTTTTATACGATTCTTTCATTGGAATTTATAAAGGCTTAGAACTAGGGTAGCGGAG
1 GACTTCTACTTTTTATACGATTCTGTCATTGGAATTTATAAAGGCTTAGAACTAAGGTAGCGGAG
*
566290 TAGTTTTGT-CTTAGTTTAGGTTTTAACCCATTTGACTTTTTACCTTATCGTAGCTTGCTATCAC
66 TAATTTT-TCCTTAGTTTAGGTTTTAACCCATTTGACTTTTTACCTTATCGTAGCTTGCTATCAC
* * *
566354 TGACTACTGGGTATCATTTTCTGTATGTTTCCTCTTTTTAAATTTAGTCGGTACTTACTTTTTCT
130 TGACTAATGGGTATCATTTTCTGCATGTTTCCTCTTTTTAAATTTAGTCGGGACTTACTTTTTCT
*
566419 GTCTATATGCAGAGATTTTTACGCATGAATTTATTTGTAGTGGTTACTTCCCATTACAGATA
195 GTCTATATGCAGAGATTTTTACGCATGAATTTATTTGTAGTGATTACTTCCCATTACAGATA
566481 CGCATTTGAA
Statistics
Matches: 247, Mismatches: 8, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
256 246 1.00
257 1 0.00
ACGTcount: A:0.23, C:0.16, G:0.17, T:0.44
Consensus pattern (256 bp):
GACTTCTACTTTTTATACGATTCTGTCATTGGAATTTATAAAGGCTTAGAACTAAGGTAGCGGAG
TAATTTTTCCTTAGTTTAGGTTTTAACCCATTTGACTTTTTACCTTATCGTAGCTTGCTATCACT
GACTAATGGGTATCATTTTCTGCATGTTTCCTCTTTTTAAATTTAGTCGGGACTTACTTTTTCTG
TCTATATGCAGAGATTTTTACGCATGAATTTATTTGTAGTGATTACTTCCCATTACAGATA
Found at i:576663 original size:21 final size:20
Alignment explanation
Indices: 576625--576663 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
576615 CAATTCGGTT
*
576625 AATTAACCGATTTCGAACCA
1 AATTAACCGATATCGAACCA
576645 AATTAACCGATAATCGAAC
1 AATTAACCGAT-ATCGAAC
576664 TTTAAAAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.44, C:0.23, G:0.10, T:0.23
Consensus pattern (20 bp):
AATTAACCGATATCGAACCA
Found at i:578129 original size:19 final size:21
Alignment explanation
Indices: 578105--578156 Score: 81
Period size: 21 Copynumber: 2.6 Consensus size: 21
578095 CGGCCAAGAG
*
578105 CATGTATCTTCA-TT-AAAAT
1 CATGTATTTTCATTTAAAAAT
578124 CATGTATTTTCATTTAAAAAT
1 CATGTATTTTCATTTAAAAAT
578145 CATGTATTTTCA
1 CATGTATTTTCA
578157 AAGGGGTTTC
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
19 11 0.37
20 2 0.07
21 17 0.57
ACGTcount: A:0.35, C:0.13, G:0.06, T:0.46
Consensus pattern (21 bp):
CATGTATTTTCATTTAAAAAT
Found at i:578914 original size:14 final size:12
Alignment explanation
Indices: 578882--578927 Score: 51
Period size: 12 Copynumber: 3.8 Consensus size: 12
578872 AAAAGAACGA
578882 AAAAGAAAAAAG
1 AAAAGAAAAAAG
*
578894 AAGAGAAAAATCAG
1 AAAAGAAAAA--AG
578908 AAAAG-AAAAA-
1 AAAAGAAAAAAG
578918 AAAAGAAAAA
1 AAAAGAAAAA
578928 TTCAAAAAGA
Statistics
Matches: 29, Mismatches: 2, Indels: 7
0.76 0.05 0.18
Matches are distributed among these distances:
10 5 0.17
11 5 0.17
12 9 0.31
13 4 0.14
14 6 0.21
ACGTcount: A:0.80, C:0.02, G:0.15, T:0.02
Consensus pattern (12 bp):
AAAAGAAAAAAG
Found at i:578924 original size:24 final size:26
Alignment explanation
Indices: 578881--578939 Score: 88
Period size: 24 Copynumber: 2.3 Consensus size: 26
578871 AAAAAGAACG
578881 AAAAAGAAAAAAGAAGAGAAAAA-TC
1 AAAAAGAAAAAAGAAGAGAAAAATTC
578906 AGAAAAGAAAAAA-AA-AGAAAAATTC
1 A-AAAAGAAAAAAGAAGAGAAAAATTC
578931 AAAAAGAAA
1 AAAAAGAAA
578940 GCAAGCCAAG
Statistics
Matches: 32, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
24 15 0.47
25 6 0.19
26 11 0.34
ACGTcount: A:0.78, C:0.03, G:0.14, T:0.05
Consensus pattern (26 bp):
AAAAAGAAAAAAGAAGAGAAAAATTC
Found at i:582086 original size:19 final size:21
Alignment explanation
Indices: 582062--582113 Score: 81
Period size: 21 Copynumber: 2.6 Consensus size: 21
582052 CGGCCAAGAG
*
582062 CATGTATCTTCA-TT-AAAAT
1 CATGTATTTTCATTTAAAAAT
582081 CATGTATTTTCATTTAAAAAT
1 CATGTATTTTCATTTAAAAAT
582102 CATGTATTTTCA
1 CATGTATTTTCA
582114 AAGGGGTTTC
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
19 11 0.37
20 2 0.07
21 17 0.57
ACGTcount: A:0.35, C:0.13, G:0.06, T:0.46
Consensus pattern (21 bp):
CATGTATTTTCATTTAAAAAT
Found at i:583422 original size:18 final size:17
Alignment explanation
Indices: 583394--583461 Score: 64
Period size: 18 Copynumber: 3.8 Consensus size: 17
583384 GTTACAACCT
583394 ATTTTATGGTTGCACCAC
1 ATTTTA-GGTTGCACCAC
* *
583412 CTTTTCAGGTTGCACTAC
1 ATTTT-AGGTTGCACCAC
* *
583430 TTTTTGAAGTTGCCACCAC
1 ATTTT-AGGTTG-CACCAC
583449 ATTTTAGGTTGCA
1 ATTTTAGGTTGCA
583462 ATTCCTATTT
Statistics
Matches: 40, Mismatches: 8, Indels: 5
0.75 0.15 0.09
Matches are distributed among these distances:
17 2 0.05
18 28 0.70
19 10 0.25
ACGTcount: A:0.21, C:0.22, G:0.18, T:0.40
Consensus pattern (17 bp):
ATTTTAGGTTGCACCAC
Found at i:586642 original size:18 final size:16
Alignment explanation
Indices: 586593--586644 Score: 50
Period size: 17 Copynumber: 3.0 Consensus size: 16
586583 TCGCAACCTA
*
586593 TTTTATAGTTGTACCAC
1 TTTT-TAGTTGTATCAC
*
586610 TTTTTAGATTATATCAC
1 TTTTTAG-TTGTATCAC
586627 TTTTTCAAGTTGTATCAC
1 TTTTT--AGTTGTATCAC
586645 ATTTGCACCA
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
16 3 0.10
17 16 0.55
18 8 0.28
19 2 0.07
ACGTcount: A:0.25, C:0.15, G:0.10, T:0.50
Consensus pattern (16 bp):
TTTTTAGTTGTATCAC
Found at i:587846 original size:22 final size:22
Alignment explanation
Indices: 587821--587891 Score: 133
Period size: 22 Copynumber: 3.2 Consensus size: 22
587811 CATACGCACA
*
587821 CAAGCAAGCAAACCCAAGTCCC
1 CAAGCAAGCAAACCTAAGTCCC
587843 CAAGCAAGCAAACCTAAGTCCC
1 CAAGCAAGCAAACCTAAGTCCC
587865 CAAGCAAGCAAACCTAAGTCCC
1 CAAGCAAGCAAACCTAAGTCCC
587887 CAAGC
1 CAAGC
587892 TGGGATTTCA
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
22 48 1.00
ACGTcount: A:0.41, C:0.38, G:0.14, T:0.07
Consensus pattern (22 bp):
CAAGCAAGCAAACCTAAGTCCC
Found at i:590183 original size:50 final size:50
Alignment explanation
Indices: 590108--590203 Score: 183
Period size: 50 Copynumber: 1.9 Consensus size: 50
590098 AATTGTATAG
*
590108 AATTAAAAAAATTACATTATATAATAGGATACTATCTCGATAATATGTAA
1 AATTAAAAAAAATACATTATATAATAGGATACTATCTCGATAATATGTAA
590158 AATTAAAAAAAATACATTATATAATAGGATACTATCTCGATAATAT
1 AATTAAAAAAAATACATTATATAATAGGATACTATCTCGATAATAT
590204 ATAACTTTAT
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
50 45 1.00
ACGTcount: A:0.51, C:0.08, G:0.07, T:0.33
Consensus pattern (50 bp):
AATTAAAAAAAATACATTATATAATAGGATACTATCTCGATAATATGTAA
Found at i:604273 original size:21 final size:20
Alignment explanation
Indices: 604247--604287 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
604237 ACTTTATCTA
*
604247 ATTTATATATAAATTATTTTT
1 ATTTATAGAT-AATTATTTTT
*
604268 ATTTATGGATAATTATTTTT
1 ATTTATAGATAATTATTTTT
604288 TTCATACCGG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 10 0.56
21 8 0.44
ACGTcount: A:0.34, C:0.00, G:0.05, T:0.61
Consensus pattern (20 bp):
ATTTATAGATAATTATTTTT
Found at i:605885 original size:12 final size:13
Alignment explanation
Indices: 605864--605892 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
605854 TCCAGTTCTA
605864 TTTTCTTTTTGTT
1 TTTTCTTTTTGTT
605877 TTTTC-TTTTGTT
1 TTTTCTTTTTGTT
605889 TTTT
1 TTTT
605893 AATAAGAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 11 0.69
13 5 0.31
ACGTcount: A:0.00, C:0.07, G:0.07, T:0.86
Consensus pattern (13 bp):
TTTTCTTTTTGTT
Found at i:607056 original size:12 final size:12
Alignment explanation
Indices: 607039--607070 Score: 64
Period size: 12 Copynumber: 2.7 Consensus size: 12
607029 CCCGGTGAAG
607039 AGATGAGTTGCA
1 AGATGAGTTGCA
607051 AGATGAGTTGCA
1 AGATGAGTTGCA
607063 AGATGAGT
1 AGATGAGT
607071 CGATGTTATC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.34, C:0.06, G:0.34, T:0.25
Consensus pattern (12 bp):
AGATGAGTTGCA
Found at i:614722 original size:12 final size:12
Alignment explanation
Indices: 614692--614726 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
614682 TATATTTTAT
614692 TTATCTTGTTT-
1 TTATCTTGTTTC
*
614703 TAATCTTGTTTC
1 TTATCTTGTTTC
614715 TTATCTTGTTTC
1 TTATCTTGTTTC
614727 CAGCACCTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
11 10 0.48
12 11 0.52
ACGTcount: A:0.11, C:0.14, G:0.09, T:0.66
Consensus pattern (12 bp):
TTATCTTGTTTC
Found at i:615070 original size:8 final size:8
Alignment explanation
Indices: 615057--615097 Score: 50
Period size: 8 Copynumber: 5.2 Consensus size: 8
615047 TTTTACAAAC
615057 AAAAAATA
1 AAAAAATA
615065 AAAAAAT-
1 AAAAAATA
615072 AAAAAATA
1 AAAAAATA
615080 AAACAAA-A
1 AAA-AAATA
*
615088 AATAAATA
1 AAAAAATA
615096 AA
1 AA
615098 TAAGCCAAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
7 10 0.34
8 16 0.55
9 3 0.10
ACGTcount: A:0.85, C:0.02, G:0.00, T:0.12
Consensus pattern (8 bp):
AAAAAATA
Found at i:619390 original size:12 final size:12
Alignment explanation
Indices: 619360--619407 Score: 80
Period size: 12 Copynumber: 4.1 Consensus size: 12
619350 TATATTTTAT
619360 TTATCTTGTTT-
1 TTATCTTGTTTC
*
619371 TAATCTTGTTTC
1 TTATCTTGTTTC
619383 TTATCTTGTTTC
1 TTATCTTGTTTC
619395 TTATCTTGTTTC
1 TTATCTTGTTTC
619407 T
1 T
619408 AGCACCTAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
11 10 0.29
12 24 0.71
ACGTcount: A:0.10, C:0.15, G:0.08, T:0.67
Consensus pattern (12 bp):
TTATCTTGTTTC
Found at i:620789 original size:16 final size:16
Alignment explanation
Indices: 620768--620806 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
620758 GTTAACACAA
* *
620768 TTTTTCTTTTTACCTT
1 TTTTTCTTCTTAACTT
*
620784 TTTTTCTTCTTAATTT
1 TTTTTCTTCTTAACTT
620800 TTTTTCT
1 TTTTTCT
620807 AAGTTTTGTC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.08, C:0.15, G:0.00, T:0.77
Consensus pattern (16 bp):
TTTTTCTTCTTAACTT
Found at i:623081 original size:12 final size:12
Alignment explanation
Indices: 623047--623086 Score: 53
Period size: 12 Copynumber: 3.3 Consensus size: 12
623037 ATTGCTTTCT
*
623047 TATATACATACA
1 TATATACATATA
*
623059 TACATACATATA
1 TATATACATATA
*
623071 TATATATATATA
1 TATATACATATA
623083 TATA
1 TATA
623087 ATGTCACAAG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 24 1.00
ACGTcount: A:0.50, C:0.10, G:0.00, T:0.40
Consensus pattern (12 bp):
TATATACATATA
Found at i:627241 original size:4 final size:4
Alignment explanation
Indices: 627232--627257 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
627222 TCATATATAC
627232 ATGT ATGT ATGT ATGT ATGT ATGT AT
1 ATGT ATGT ATGT ATGT ATGT ATGT AT
627258 TTACCTCGGC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.27, C:0.00, G:0.23, T:0.50
Consensus pattern (4 bp):
ATGT
Found at i:630609 original size:32 final size:32
Alignment explanation
Indices: 630564--630625 Score: 88
Period size: 32 Copynumber: 1.9 Consensus size: 32
630554 GATTTTGTCC
*
630564 CCCTCATTATCTATGATTAAGTATACTTTGTT
1 CCCTAATTATCTATGATTAAGTATACTTTGTT
* * *
630596 CCCTAATTTTCTATGATTAATTATATTTTG
1 CCCTAATTATCTATGATTAAGTATACTTTG
630626 CCCCCAAATT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
32 26 1.00
ACGTcount: A:0.26, C:0.16, G:0.08, T:0.50
Consensus pattern (32 bp):
CCCTAATTATCTATGATTAAGTATACTTTGTT
Found at i:631186 original size:31 final size:32
Alignment explanation
Indices: 631119--631207 Score: 126
Period size: 31 Copynumber: 2.8 Consensus size: 32
631109 AAAATCTAGA
* *
631119 TACTAAAATGAAATAAAAAGTTAACAATGGGG
1 TACTAAAATGAAATAAAAAGTAAACAATCGGG
* * *
631151 TACTAAAATGAAACAAAAAGCAAACGA-CGGG
1 TACTAAAATGAAATAAAAAGTAAACAATCGGG
631182 TACTAAAATGAAATAAAAAGTAAACA
1 TACTAAAATGAAATAAAAAGTAAACA
631208 TTAGGTATGA
Statistics
Matches: 49, Mismatches: 8, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
31 26 0.53
32 23 0.47
ACGTcount: A:0.57, C:0.10, G:0.16, T:0.17
Consensus pattern (32 bp):
TACTAAAATGAAATAAAAAGTAAACAATCGGG
Found at i:633415 original size:15 final size:15
Alignment explanation
Indices: 633395--633423 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
633385 TATCACAATC
633395 GCGCAGGATTCCGGT
1 GCGCAGGATTCCGGT
633410 GCGCAGGATTCCGG
1 GCGCAGGATTCCGG
633424 GAGCACCGTG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.14, C:0.28, G:0.41, T:0.17
Consensus pattern (15 bp):
GCGCAGGATTCCGGT
Found at i:637275 original size:52 final size:52
Alignment explanation
Indices: 637197--637301 Score: 210
Period size: 52 Copynumber: 2.0 Consensus size: 52
637187 TCGATCGTTT
637197 TCTGTTGGTGAGTATAATAAGCTTAAGGATCGGAAGATTGGACCTTGTGAGG
1 TCTGTTGGTGAGTATAATAAGCTTAAGGATCGGAAGATTGGACCTTGTGAGG
637249 TCTGTTGGTGAGTATAATAAGCTTAAGGATCGGAAGATTGGACCTTGTGAGG
1 TCTGTTGGTGAGTATAATAAGCTTAAGGATCGGAAGATTGGACCTTGTGAGG
637301 T
1 T
637302 AAGGAGATTG
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
52 53 1.00
ACGTcount: A:0.27, C:0.10, G:0.32, T:0.31
Consensus pattern (52 bp):
TCTGTTGGTGAGTATAATAAGCTTAAGGATCGGAAGATTGGACCTTGTGAGG
Found at i:643353 original size:21 final size:21
Alignment explanation
Indices: 643236--643373 Score: 77
Period size: 21 Copynumber: 6.7 Consensus size: 21
643226 ACGCGAAATA
**
643236 AAAATCGCAACGCGA-TCCCC
1 AAAATCGCAACGCGATTTTCC
* ** *
643256 AGAATCGCAAATC-AGTTTCC
1 AAAATCGCAACGCGATTTTCC
* *
643276 AAAATCGCAACGTGATTCTT-G
1 AAAATCGCAACGCGATT-TTCC
* ** *
643297 AAAATCGCAATGCGATAGTAC
1 AAAATCGCAACGCGATTTTCC
* **
643318 AAATTCGCATTGCGATTTTCC
1 AAAATCGCAACGCGATTTTCC
* * *
643339 AAAATCGCAACGCGAATAT-G
1 AAAATCGCAACGCGATTTTCC
643359 AAAATCGCAACGCGA
1 AAAATCGCAACGCGA
643374 ACACATAAAT
Statistics
Matches: 87, Mismatches: 27, Indels: 8
0.71 0.22 0.07
Matches are distributed among these distances:
19 1 0.01
20 38 0.44
21 46 0.53
22 2 0.02
ACGTcount: A:0.37, C:0.25, G:0.17, T:0.21
Consensus pattern (21 bp):
AAAATCGCAACGCGATTTTCC
Found at i:643402 original size:20 final size:20
Alignment explanation
Indices: 643340--643569 Score: 232
Period size: 20 Copynumber: 11.5 Consensus size: 20
643330 CGATTTTCCA
* ** *
643340 AAATCGCAACGCGAATATGA
1 AAATCGCAACGCGTATCCGT
* *
643360 AAATCGCAACGCG-AACACAT
1 AAATCGCAACGCGTATC-CGT
643380 AAATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
643400 AAATCGCAACGTGTATCCGT
1 AAATCGCAACGCGTATCCGT
**
643420 AAATCGCAACGCGTATGGGT
1 AAATCGCAACGCGTATCCGT
*
643440 AAATCGCAATGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
643460 ATATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
643480 AAATCGCAACG-ATAATCCGT
1 AAATCGCAACGCGT-ATCCGT
* * *
643500 AAATCGCAACGAGAATCTGT
1 AAATCGCAACGCGTATCCGT
*
643520 AAATCGCAACG-ATAATCCGT
1 AAATCGCAACGCGT-ATCCGT
* * *
643540 AAATCGCAACGAGAATCTGT
1 AAATCGCAACGCGTATCCGT
*
643560 AAATCACAAC
1 AAATCGCAAC
643570 ACTGAAATTT
Statistics
Matches: 176, Mismatches: 28, Indels: 12
0.81 0.13 0.06
Matches are distributed among these distances:
19 2 0.01
20 172 0.98
21 2 0.01
ACGTcount: A:0.37, C:0.25, G:0.19, T:0.20
Consensus pattern (20 bp):
AAATCGCAACGCGTATCCGT
Found at i:646795 original size:33 final size:34
Alignment explanation
Indices: 646744--646974 Score: 237
Period size: 33 Copynumber: 6.7 Consensus size: 34
646734 CGGAAATTAC
*
646744 AATCGCAACGA-GAGAATCGCAATGCGAAATGAA
1 AATCGCAACGATGAAAATCGCAATGCGAAATGAA
*
646777 AATCCCAAC-ATGAAAATCGCAATGCGGAAATGAA
1 AATCGCAACGATGAAAATCGCAATGC-GAAATGAA
*
646811 AATCGCAACGA-GAGAATCGCAATGCGAAATGAA
1 AATCGCAACGATGAAAATCGCAATGCGAAATGAA
*
646844 AATCGCAATGCGAAATGAAAATCGCAA--CG--A-GAG
1 AATCGCAA--CG--ATGAAAATCGCAATGCGAAATGAA
646877 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
1 AATCGCAA--CG--ATGAAAATCGCAATGCGAAATGAA
*
646915 AATCGCAACGA-GAGAATCGCAATGCGAAATGAA
1 AATCGCAACGATGAAAATCGCAATGCGAAATGAA
646948 AATCGCAATGCGAAATGAAAATCGCAA
1 AATCGCAA--CG--ATGAAAATCGCAA
646975 CGAGAGAATC
Statistics
Matches: 171, Mismatches: 9, Indels: 31
0.81 0.04 0.15
Matches are distributed among these distances:
32 1 0.01
33 95 0.56
34 31 0.18
35 7 0.04
36 4 0.02
37 3 0.02
38 30 0.18
ACGTcount: A:0.46, C:0.18, G:0.22, T:0.13
Consensus pattern (34 bp):
AATCGCAACGATGAAAATCGCAATGCGAAATGAA
Found at i:646871 original size:52 final size:52
Alignment explanation
Indices: 646786--647011 Score: 418
Period size: 52 Copynumber: 4.3 Consensus size: 52
646776 AAATCCCAAC
646786 ATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
1 ATGAAAATCGCAATGC-GAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
646839 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
646891 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
646943 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCG-A
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
* *
646994 ATTAAAATCGCATTGCGA
1 ATGAAAATCGCAATGCGA
647012 TTCTCTCGTT
Statistics
Matches: 171, Mismatches: 2, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
51 17 0.10
52 138 0.81
53 16 0.09
ACGTcount: A:0.45, C:0.17, G:0.23, T:0.15
Consensus pattern (52 bp):
ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
Found at i:646985 original size:33 final size:33
Alignment explanation
Indices: 646844--647005 Score: 161
Period size: 33 Copynumber: 4.8 Consensus size: 33
646834 GCGAAATGAA
646844 AATCGCAATGCGAAATGAAAATCGCAACGAGAG
1 AATCGCAATGCGAAATGAAAATCGCAACGAGAG
* *
646877 AATCGCAATGCGAAATGAAAATCGCAATGCGA-
1 AATCGCAATGCGAAATGAAAATCGCAACGAGAG
* * * *
646909 AAT-GAAAAT-CGCAACGAGAGAATCGCAATGCGAAATGAA
1 AATCG-CAATGCGAAATGA-A-AATCGCAA--CG--A-GAG
646948 AATCGCAATGCGAAATGAAAATCGCAACGAGAG
1 AATCGCAATGCGAAATGAAAATCGCAACGAGAG
*
646981 AATCGCAATGCG-AATTAAAATCGCA
1 AATCGCAATGCGAAATGAAAATCGCA
647006 TTGCGATTCT
Statistics
Matches: 106, Mismatches: 12, Indels: 23
0.75 0.09 0.16
Matches are distributed among these distances:
31 7 0.07
32 19 0.18
33 52 0.49
34 1 0.01
35 1 0.01
36 2 0.02
38 10 0.09
39 7 0.07
40 7 0.07
ACGTcount: A:0.46, C:0.18, G:0.22, T:0.14
Consensus pattern (33 bp):
AATCGCAATGCGAAATGAAAATCGCAACGAGAG
Found at i:647044 original size:19 final size:18
Alignment explanation
Indices: 647001--647097 Score: 93
Period size: 19 Copynumber: 5.7 Consensus size: 18
646991 CGAATTAAAA
*
647001 TCGCATTGCGA-TTC-TC
1 TCGCATTGCGATTTCATT
647017 TCG--TTGCGATTTCATT
1 TCGCATTGCGATTTCATT
647033 TCCGCATTGCGATTTTCATT
1 T-CGCATTGCGA-TTTCATT
*
647053 TCGCATTGCGA-TTC-TC
1 TCGCATTGCGATTTCATT
647069 TCG--TTGCGATTTTCATT
1 TCGCATTGCGA-TTTCATT
647086 TCGCATTGCGAT
1 TCGCATTGCGAT
647098 AGTCATTTTT
Statistics
Matches: 67, Mismatches: 3, Indels: 20
0.74 0.03 0.22
Matches are distributed among these distances:
14 12 0.18
15 3 0.04
16 12 0.18
17 9 0.13
18 1 0.01
19 22 0.33
20 8 0.12
ACGTcount: A:0.13, C:0.25, G:0.19, T:0.43
Consensus pattern (18 bp):
TCGCATTGCGATTTCATT
Found at i:647104 original size:52 final size:52
Alignment explanation
Indices: 647001--647105 Score: 176
Period size: 52 Copynumber: 2.0 Consensus size: 52
646991 CGAATTAAAA
**
647001 TCGCATTGCGATTCTCTCGTTGCGATTTCATTTCCGCATTGCGATTTTCATT
1 TCGCATTGCGATTCTCTCGTTGCGATTTCATTTCCGCATTGCGATAGTCATT
647053 TCGCATTGCGATTCTCTCGTTGCGATTTTCATTT-CGCATTGCGATAGTCATT
1 TCGCATTGCGATTCTCTCGTTGCGA-TTTCATTTCCGCATTGCGATAGTCATT
647105 T
1 T
647106 TTGCCTTCAA
Statistics
Matches: 50, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
52 42 0.84
53 8 0.16
ACGTcount: A:0.14, C:0.24, G:0.18, T:0.44
Consensus pattern (52 bp):
TCGCATTGCGATTCTCTCGTTGCGATTTCATTTCCGCATTGCGATAGTCATT
Found at i:647105 original size:19 final size:19
Alignment explanation
Indices: 647020--647097 Score: 96
Period size: 19 Copynumber: 4.4 Consensus size: 19
647010 GATTCTCTCG
647020 TTGCGA-TTTCATTTCCGCA
1 TTGCGATTTTCATTT-CGCA
647039 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
647058 TTGCGA--TTC-TCTCG--
1 TTGCGATTTTCATTTCGCA
647072 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
647091 TTGCGAT
1 TTGCGAT
647098 AGTCATTTTT
Statistics
Matches: 51, Mismatches: 2, Indels: 12
0.78 0.03 0.18
Matches are distributed among these distances:
14 6 0.12
16 7 0.14
17 7 0.14
19 23 0.45
20 8 0.16
ACGTcount: A:0.14, C:0.23, G:0.18, T:0.45
Consensus pattern (19 bp):
TTGCGATTTTCATTTCGCA
Found at i:648690 original size:21 final size:21
Alignment explanation
Indices: 648625--648690 Score: 62
Period size: 21 Copynumber: 3.2 Consensus size: 21
648615 GTGAATCGGG
648625 CTCTTGAATGGTGGGA-GGGA
1 CTCTTGAATGGTGGGAGGGGA
* * ** * *
648645 CTCTTCAATGATGACAGTGGC
1 CTCTTGAATGGTGGGAGGGGA
*
648666 CTCTTGAACGGTGGGAGGGGA
1 CTCTTGAATGGTGGGAGGGGA
648687 CTCT
1 CTCT
648691 CGAAATGATA
Statistics
Matches: 32, Mismatches: 13, Indels: 1
0.70 0.28 0.02
Matches are distributed among these distances:
20 12 0.38
21 20 0.62
ACGTcount: A:0.20, C:0.18, G:0.36, T:0.26
Consensus pattern (21 bp):
CTCTTGAATGGTGGGAGGGGA
Found at i:649288 original size:29 final size:30
Alignment explanation
Indices: 649214--649300 Score: 122
Period size: 29 Copynumber: 2.8 Consensus size: 30
649204 CGCGAAACCA
*
649214 AATCGCAACGCGAAATGAAAATCGCAACGATAG
1 AATCGCAACGCGAAATGAAAATCG---CGAAAG
*
649247 AATCGCAATGCG-AATGAAAATCGCGAAAG
1 AATCGCAACGCGAAATGAAAATCGCGAAAG
649276 AATCGCAACGCGAAATGAAAATCGC
1 AATCGCAACGCGAAATGAAAATCGC
649301 AATGCGATTT
Statistics
Matches: 50, Mismatches: 3, Indels: 5
0.86 0.05 0.09
Matches are distributed among these distances:
29 16 0.32
30 12 0.24
32 11 0.22
33 11 0.22
ACGTcount: A:0.45, C:0.21, G:0.22, T:0.13
Consensus pattern (30 bp):
AATCGCAACGCGAAATGAAAATCGCGAAAG
Found at i:649300 original size:19 final size:19
Alignment explanation
Indices: 649140--649307 Score: 123
Period size: 19 Copynumber: 9.6 Consensus size: 19
649130 TAGTTTACTT
* *
649140 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAA-TGAAAA
*
649160 TCGCAACGCGAAATGATAA
1 TCGCAACGCGAAATGAAAA
* **
649179 TCGCAACGAGAAACCAAAA
1 TCGCAACGCGAAATGAAAA
**
649198 TCGCAACGCGAAA-CCAAA
1 TCGCAACGCGAAATGAAAA
649216 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
649235 TCGCAA--CG--AT-AGAA
1 TCGCAACGCGAAATGAAAA
*
649249 TCGCAATGCG-AATGAAAA
1 TCGCAACGCGAAATGAAAA
649267 T-----CGCGAAA-G--AA
1 TCGCAACGCGAAATGAAAA
649278 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
649297 TCGCAATGCGA
1 TCGCAACGCGA
649308 TTTTGGTTTC
Statistics
Matches: 119, Mismatches: 15, Indels: 29
0.73 0.09 0.18
Matches are distributed among these distances:
11 3 0.03
13 4 0.03
14 11 0.09
15 2 0.02
16 9 0.08
17 5 0.04
18 21 0.18
19 52 0.44
20 12 0.10
ACGTcount: A:0.45, C:0.23, G:0.20, T:0.12
Consensus pattern (19 bp):
TCGCAACGCGAAATGAAAA
Found at i:649325 original size:19 final size:19
Alignment explanation
Indices: 649303--649431 Score: 107
Period size: 19 Copynumber: 7.3 Consensus size: 19
649293 AAAATCGCAA
649303 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
* *
649322 TGCGA-TCT--TAT--CGT
1 TGCGATTTTGGTTTCGCGT
*
649336 TGTGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
*
649355 TGCGATTCT-G--T--CGT
1 TGCGATTTTGGTTTCGCGT
**
649369 TGCGATTTTCATTTCGCGT
1 TGCGATTTTGGTTTCGCGT
649388 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
* *
649407 TGCGATTTTAAGTTTCGTGT
1 TGCGATTTT-GGTTTCGCGT
649427 TGCGA
1 TGCGA
649432 AAGTAAACTA
Statistics
Matches: 86, Mismatches: 13, Indels: 21
0.72 0.11 0.17
Matches are distributed among these distances:
14 18 0.21
15 2 0.02
16 3 0.03
17 3 0.03
18 3 0.03
19 44 0.51
20 13 0.15
ACGTcount: A:0.09, C:0.16, G:0.28, T:0.47
Consensus pattern (19 bp):
TGCGATTTTGGTTTCGCGT
Found at i:649348 original size:33 final size:33
Alignment explanation
Indices: 649303--649394 Score: 132
Period size: 33 Copynumber: 2.8 Consensus size: 33
649293 AAAATCGCAA
649303 TGCGATTTTGGTTTCGCGTTGCGA-TCTTATCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTC-TATCGT
* *
649336 TGTGATTTTGGTTTCGCGTTGCGATTCTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTCTATCGT
**
649369 TGCGATTTTCATTTCGCGTTGCGATT
1 TGCGATTTTGGTTTCGCGTTGCGATT
649395 TTGGTTTCGC
Statistics
Matches: 53, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
33 51 0.96
34 2 0.04
ACGTcount: A:0.09, C:0.17, G:0.27, T:0.47
Consensus pattern (33 bp):
TGCGATTTTGGTTTCGCGTTGCGATTCTATCGT
Found at i:649738 original size:93 final size:92
Alignment explanation
Indices: 649479--649757 Score: 494
Period size: 89 Copynumber: 3.1 Consensus size: 92
649469 ATGGATTGCA
*
649479 TTAC-TTCAACCAAAAGACGAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAA-CAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
649543 TAGCAGAATTGGCAGCAACCGAACAAAT
65 TAGCAGAATTGGCAGCAACCGAACAAAT
649571 TTACTTT---CAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTTT
1 TTACTTTCAACAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTTT
649633 AGCAGAATTGGCAGCAACCGAACAAAT
66 AGCAGAATTGGCAGCAACCGAACAAAT
649660 TTACTTTCAACAAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAAC-AAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
*
649725 TAGCAGAATTGGCAGCAACCGAATAAAT
65 TAGCAGAATTGGCAGCAACCGAACAAAT
649753 TTACT
1 TTACT
649758 AAGCAATCTA
Statistics
Matches: 180, Mismatches: 2, Indels: 9
0.94 0.01 0.05
Matches are distributed among these distances:
89 88 0.49
92 5 0.03
93 87 0.48
ACGTcount: A:0.46, C:0.18, G:0.13, T:0.23
Consensus pattern (92 bp):
TTACTTTCAACAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTTT
AGCAGAATTGGCAGCAACCGAACAAAT
Found at i:651485 original size:20 final size:20
Alignment explanation
Indices: 651454--651550 Score: 100
Period size: 20 Copynumber: 5.2 Consensus size: 20
651444 TTTTGGTTGA
651454 AATGAAAATCGCAACGAGAG
1 AATGAAAATCGCAACGAGAG
***
651474 AATGACTGTCGCAACGAGAG
1 AATGAAAATCGCAACGAGAG
651494 AAATGAAAATCGCAAC--GAG
1 -AATGAAAATCGCAACGAGAG
*
651513 -A-G--AATCGCAACGCGA-
1 AATGAAAATCGCAACGAGAG
651528 AATGAAAATCGCAACGAGAG
1 AATGAAAATCGCAACGAGAG
651548 AAT
1 AAT
651551 CGCAACGCGA
Statistics
Matches: 62, Mismatches: 7, Indels: 16
0.73 0.08 0.19
Matches are distributed among these distances:
14 9 0.15
16 4 0.06
17 2 0.03
19 15 0.24
20 20 0.32
21 12 0.19
ACGTcount: A:0.46, C:0.18, G:0.25, T:0.11
Consensus pattern (20 bp):
AATGAAAATCGCAACGAGAG
Found at i:651506 original size:21 final size:21
Alignment explanation
Indices: 651452--651516 Score: 96
Period size: 21 Copynumber: 3.1 Consensus size: 21
651442 TCTTTTGGTT
651452 GAAATGAAAATCGCAACGAGA
1 GAAATGAAAATCGCAACGAGA
***
651473 G-AATGACTGTCGCAACGAGA
1 GAAATGAAAATCGCAACGAGA
651493 GAAATGAAAATCGCAACGAGA
1 GAAATGAAAATCGCAACGAGA
651514 GAA
1 GAA
651517 TCGCAACGCG
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
20 17 0.46
21 20 0.54
ACGTcount: A:0.48, C:0.15, G:0.26, T:0.11
Consensus pattern (21 bp):
GAAATGAAAATCGCAACGAGA
Found at i:651520 original size:14 final size:14
Alignment explanation
Indices: 651501--651557 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
651491 GAGAAATGAA
651501 AATCGCAACGAGAG
1 AATCGCAACGAGAG
*
651515 AATCGCAACGCGAAATGAA
1 AATCGCAA--CG--A-GAG
651534 AATCGCAACGAGAG
1 AATCGCAACGAGAG
651548 AATCGCAACG
1 AATCGCAACG
651558 CGAAATGAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
14 20 0.56
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 10 0.28
ACGTcount: A:0.44, C:0.23, G:0.25, T:0.09
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:651533 original size:33 final size:33
Alignment explanation
Indices: 651452--651574 Score: 165
Period size: 33 Copynumber: 3.5 Consensus size: 33
651442 TCTTTTGGTT
*
651452 GAAATGAAAATCGCAACGAGAGAATGACTGTCGCAACGAGA
1 GAAATGAAAATCGCAACGAGAG-A--A---TCGCAAC--GC
651493 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
651526 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
651559 GAAATGAAAATCGCAA
1 GAAATGAAAATCGCAA
651575 TGCGATTTTG
Statistics
Matches: 81, Mismatches: 1, Indels: 8
0.90 0.01 0.09
Matches are distributed among these distances:
33 50 0.62
35 7 0.09
38 1 0.01
40 1 0.01
41 22 0.27
ACGTcount: A:0.46, C:0.19, G:0.24, T:0.11
Consensus pattern (33 bp):
GAAATGAAAATCGCAACGAGAGAATCGCAACGC
Found at i:651610 original size:14 final size:14
Alignment explanation
Indices: 651591--651647 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
651581 TTTGGTTTCG
651591 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
651605 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
651624 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
651638 CGTTGCGATT
1 CGTTGCGATT
651648 TTCATTTCTC
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
14 20 0.56
16 3 0.08
17 3 0.08
19 10 0.28
ACGTcount: A:0.09, C:0.25, G:0.23, T:0.44
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:651623 original size:33 final size:33
Alignment explanation
Indices: 651575--651655 Score: 144
Period size: 33 Copynumber: 2.5 Consensus size: 33
651565 AAAATCGCAA
**
651575 TGCGATTTTGGTTTCGCGTTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
651608 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
651641 TGCGATTTTCATTTC
1 TGCGATTTTCATTTC
651656 TCTCGTTGCG
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
33 46 1.00
ACGTcount: A:0.09, C:0.22, G:0.22, T:0.47
Consensus pattern (33 bp):
TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
Found at i:651658 original size:21 final size:21
Alignment explanation
Indices: 651632--651707 Score: 109
Period size: 21 Copynumber: 3.7 Consensus size: 21
651622 CGCGTTGCGA
651632 TTCTCTCGTTGCGATTTTCAT
1 TTCTCTCGTTGCGATTTTCAT
***
651653 TTCTCTCGTTGCGACAGTCA-
1 TTCTCTCGTTGCGATTTTCAT
651673 TTCTCTCGTTGCGATTTTCAT
1 TTCTCTCGTTGCGATTTTCAT
*
651694 TTATCTCGTTGCGA
1 TTCTCTCGTTGCGA
651708 CTCTTCTGCA
Statistics
Matches: 47, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
20 17 0.36
21 30 0.64
ACGTcount: A:0.12, C:0.25, G:0.17, T:0.46
Consensus pattern (21 bp):
TTCTCTCGTTGCGATTTTCAT
Found at i:651688 original size:41 final size:41
Alignment explanation
Indices: 651631--651708 Score: 147
Period size: 41 Copynumber: 1.9 Consensus size: 41
651621 TCGCGTTGCG
*
651631 ATTCTCTCGTTGCGATTTTCATTTCTCTCGTTGCGACAGTC
1 ATTCTCTCGTTGCGATTTTCATTTATCTCGTTGCGACAGTC
651672 ATTCTCTCGTTGCGATTTTCATTTATCTCGTTGCGAC
1 ATTCTCTCGTTGCGATTTTCATTTATCTCGTTGCGAC
651709 TCTTCTGCAA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
41 36 1.00
ACGTcount: A:0.13, C:0.26, G:0.17, T:0.45
Consensus pattern (41 bp):
ATTCTCTCGTTGCGATTTTCATTTATCTCGTTGCGACAGTC
Found at i:651829 original size:33 final size:33
Alignment explanation
Indices: 651787--651857 Score: 108
Period size: 33 Copynumber: 2.2 Consensus size: 33
651777 AATACTAACT
651787 TGAAAATCGCAACGA-GAGAATAGCAACGCGAAA
1 TGAAAATCGCAACGACG-GAATAGCAACGCGAAA
* *
651820 TGAAAATCGCAACGACGGAATCGTAACGCGAAA
1 TGAAAATCGCAACGACGGAATAGCAACGCGAAA
651853 TGAAA
1 TGAAA
651858 TCTAAGTGAA
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
33 34 0.97
34 1 0.03
ACGTcount: A:0.46, C:0.18, G:0.24, T:0.11
Consensus pattern (33 bp):
TGAAAATCGCAACGACGGAATAGCAACGCGAAA
Found at i:652091 original size:22 final size:22
Alignment explanation
Indices: 652039--652093 Score: 74
Period size: 22 Copynumber: 2.5 Consensus size: 22
652029 TGGTTGTGAG
**
652039 GGATTTCGCCGGAGATGGGGAC
1 GGATTTCTTCGGAGATGGGGAC
**
652061 GGAAATCTTCGGAGATGGGGAC
1 GGATTTCTTCGGAGATGGGGAC
652083 GGATTTCTTCG
1 GGATTTCTTCG
652094 CCGTAGAGAG
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.20, C:0.16, G:0.40, T:0.24
Consensus pattern (22 bp):
GGATTTCTTCGGAGATGGGGAC
Found at i:652265 original size:20 final size:20
Alignment explanation
Indices: 652240--652433 Score: 221
Period size: 20 Copynumber: 9.7 Consensus size: 20
652230 CTTTAAATAT
652240 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
652260 CGCGTTGCGATTTTATGTATTA
1 CGCGTTGCGA-TTTACGGA-TA
*
652282 -TCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
652301 CGCGTTGCGATATACGGATA
1 CGCGTTGCGATTTACGGATA
* **
652321 CGCATTGCGATTTACCCATA
1 CGCGTTGCGATTTACGGATA
652341 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
652361 CACGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
652381 CGCGTTGCGATTTATGTG-TT
1 CGCGTTGCGATTTACG-GATA
* ** *
652401 CGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTTACGGATA
652421 CGCGTTGCGATTT
1 CGCGTTGCGATTT
652434 TGGAAAATCG
Statistics
Matches: 147, Mismatches: 22, Indels: 10
0.82 0.12 0.06
Matches are distributed among these distances:
19 2 0.01
20 128 0.87
21 15 0.10
22 2 0.01
ACGTcount: A:0.19, C:0.20, G:0.26, T:0.36
Consensus pattern (20 bp):
CGCGTTGCGATTTACGGATA
Found at i:652427 original size:60 final size:60
Alignment explanation
Indices: 652240--652433 Score: 253
Period size: 60 Copynumber: 3.2 Consensus size: 60
652230 CTTTAAATAT
**
652240 CGCGTTGCGATTTACGGATACGCGTTGCGATTTTATGTATTATCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATACGCGTTGCGA-TTTATGTATTCGCGTTGCGATTTACGGATA
* * *** *
652301 CGCGTTGCGATATACGGATACGCATTGCGATTTACCCATACGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATA
* * * ** *
652361 CACGTTGCGATTTACGGATACGCGTTGCGATTTATGTGTTCGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATA
652421 CGCGTTGCGATTT
1 CGCGTTGCGATTT
652434 TGGAAAATCG
Statistics
Matches: 112, Mismatches: 21, Indels: 1
0.84 0.16 0.01
Matches are distributed among these distances:
60 84 0.75
61 28 0.25
ACGTcount: A:0.19, C:0.20, G:0.26, T:0.36
Consensus pattern (60 bp):
CGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATA
Found at i:652450 original size:21 final size:21
Alignment explanation
Indices: 652420--652502 Score: 78
Period size: 21 Copynumber: 4.0 Consensus size: 21
652410 ATTTTCATAT
*
652420 TCGCGTTGCGATTTTGGAAAA
1 TCGCATTGCGATTTTGGAAAA
* * * **
652441 TCGCAATGCGAATTTGTACTA
1 TCGCATTGCGATTTTGGAAAA
*
652462 TCGCATTGCGATTTT-CAAGAA
1 TCGCATTGCGATTTTGGAA-AA
*
652483 TCGCGTTGCGATTTTGGAAA
1 TCGCATTGCGATTTTGGAAA
652503 CTGATTTGCG
Statistics
Matches: 47, Mismatches: 13, Indels: 4
0.73 0.20 0.06
Matches are distributed among these distances:
20 1 0.02
21 44 0.94
22 2 0.04
ACGTcount: A:0.25, C:0.17, G:0.24, T:0.34
Consensus pattern (21 bp):
TCGCATTGCGATTTTGGAAAA
Found at i:652493 original size:42 final size:43
Alignment explanation
Indices: 652400--652498 Score: 100
Period size: 42 Copynumber: 2.4 Consensus size: 43
652390 ATTTATGTGT
* *
652400 TCGCGTTGCG-ATTT-TCATATTCGCGTTGCGATTTTGGAAAA
1 TCGCGTTGCGAATTTGTCATATTCGCATTGCGATTTTGCAAAA
**
652441 TCGCAATGCGAATTTGT-ACTA-TCGCATTGCGATTTT-CAAGAA
1 TCGCGTTGCGAATTTGTCA-TATTCGCATTGCGATTTTGCAA-AA
*
652483 TCGCGTTGCGATTTTG
1 TCGCGTTGCGAATTTG
652499 GAAACTGATT
Statistics
Matches: 47, Mismatches: 7, Indels: 7
0.77 0.11 0.11
Matches are distributed among these distances:
41 10 0.21
42 34 0.72
43 3 0.06
ACGTcount: A:0.21, C:0.18, G:0.23, T:0.37
Consensus pattern (43 bp):
TCGCGTTGCGAATTTGTCATATTCGCATTGCGATTTTGCAAAA
Found at i:654470 original size:41 final size:42
Alignment explanation
Indices: 654416--654498 Score: 114
Period size: 42 Copynumber: 2.0 Consensus size: 42
654406 CATCATGTTA
* * * * *
654416 AATCCATGGTTATTAAT-TTTTGTATTTGTAAGATTGTTAAT
1 AATCCATGATTATTAATATATTGTAGTAGTAACATTGTTAAT
654457 AATCCATGATTATTAATATATTGTAGTAGTAACATTGTTAAT
1 AATCCATGATTATTAATATATTGTAGTAGTAACATTGTTAAT
654499 CAAATTAAAT
Statistics
Matches: 36, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
41 16 0.44
42 20 0.56
ACGTcount: A:0.34, C:0.06, G:0.13, T:0.47
Consensus pattern (42 bp):
AATCCATGATTATTAATATATTGTAGTAGTAACATTGTTAAT
Found at i:654663 original size:16 final size:16
Alignment explanation
Indices: 654635--654668 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
654625 CAGTATCATC
654635 AATATTTTATTTTTAA
1 AATATTTTATTTTTAA
654651 AATATATTT-TTTTTAA
1 AATAT-TTTATTTTTAA
654667 AA
1 AA
654669 ATAAAATGAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 14 0.82
17 3 0.18
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (16 bp):
AATATTTTATTTTTAA
Found at i:657779 original size:21 final size:21
Alignment explanation
Indices: 657754--657795 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
657744 GTAAATATCA
* *
657754 GAATTCAACTCTTACTTTATT
1 GAATTCAACTCTCACCTTATT
657775 GAATTCAACTCTCACCTTATT
1 GAATTCAACTCTCACCTTATT
657796 TAAAGAAGTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.29, C:0.24, G:0.05, T:0.43
Consensus pattern (21 bp):
GAATTCAACTCTCACCTTATT
Found at i:658274 original size:33 final size:33
Alignment explanation
Indices: 658233--658307 Score: 114
Period size: 33 Copynumber: 2.3 Consensus size: 33
658223 GCGACCTACC
* * *
658233 CTCGCTCGGTTGCCCTCGGATTCCCTCGCATAG
1 CTCGCTCGGCTGCCCTCGGATGCCATCGCATAG
658266 CTCGCTCGGCTGCCCTCGGATGCCATCGCATAG
1 CTCGCTCGGCTGCCCTCGGATGCCATCGCATAG
*
658299 CTCGTTCGG
1 CTCGCTCGG
658308 ATGGTCTCGG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
33 38 1.00
ACGTcount: A:0.09, C:0.39, G:0.27, T:0.25
Consensus pattern (33 bp):
CTCGCTCGGCTGCCCTCGGATGCCATCGCATAG
Found at i:658411 original size:29 final size:29
Alignment explanation
Indices: 658374--658431 Score: 89
Period size: 29 Copynumber: 2.0 Consensus size: 29
658364 GCAATCTCTT
*
658374 GTAGCTCGCCGGGAAGACATGGCGACCTA
1 GTAGCTCGCCCGGAAGACATGGCGACCTA
* *
658403 GTAGGTCGCCCGGAAGGCATGGCGACCTA
1 GTAGCTCGCCCGGAAGACATGGCGACCTA
658432 CGACCAACAT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.22, C:0.28, G:0.36, T:0.14
Consensus pattern (29 bp):
GTAGCTCGCCCGGAAGACATGGCGACCTA
Found at i:658924 original size:88 final size:88
Alignment explanation
Indices: 658775--658955 Score: 362
Period size: 88 Copynumber: 2.1 Consensus size: 88
658765 AATGAGTTAA
658775 TCTCAGCTTTTGATTTCTCTTTATCCAACGATCTTATGTAAAATTTAAAATTTTATATTAGTTGT
1 TCTCAGCTTTTGATTTCTCTTTATCCAACGATCTTATGTAAAATTTAAAATTTTATATTAGTTGT
658840 AATTGAATCCTAACCCATATATT
66 AATTGAATCCTAACCCATATATT
658863 TCTCAGCTTTTGATTTCTCTTTATCCAACGATCTTATGTAAAATTTAAAATTTTATATTAGTTGT
1 TCTCAGCTTTTGATTTCTCTTTATCCAACGATCTTATGTAAAATTTAAAATTTTATATTAGTTGT
658928 AATTGAATCCTAACCCATATATT
66 AATTGAATCCTAACCCATATATT
658951 TCTCA
1 TCTCA
658956 TTTTTATTAG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
88 93 1.00
ACGTcount: A:0.30, C:0.17, G:0.08, T:0.45
Consensus pattern (88 bp):
TCTCAGCTTTTGATTTCTCTTTATCCAACGATCTTATGTAAAATTTAAAATTTTATATTAGTTGT
AATTGAATCCTAACCCATATATT
Found at i:659369 original size:13 final size:13
Alignment explanation
Indices: 659351--659376 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
659341 ACGTTCATAT
659351 TTTTTTAAAAATA
1 TTTTTTAAAAATA
659364 TTTTTTAAAAATA
1 TTTTTTAAAAATA
659377 AAATCAAAAA
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:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (13 bp):
TTTTTTAAAAATA
Found at i:660320 original size:167 final size:165
Alignment explanation
Indices: 660044--660375 Score: 628
Period size: 167 Copynumber: 2.0 Consensus size: 165
660034 ATCATATATT
*
660044 AAATCAATTTTAAAATGCAATTTATATGAAAAAAATCAAATTAATTTGATATTAATATTTTAAGT
1 AAATCAATTTTAAAATGCAATTTATATGAAAAAAATCAAAATAATTTGATATTAATATTTTAAGT
660109 TTTATAAAATGCAAATTGTTAGTATATACTATAAAGTAAACAAATTATCTATTAACTTTGTGGAT
66 TTTATAAAATGCAAATTGTTAGTATATACTATAAAGTAAACAAATTATCTATTAACTTTGTGGAT
660174 CGACTTTTTGAATATTGTTGTTTTTTTAATAGAATAC
131 CGACTTTTTGAATATTG-T-TTTTTTTAATAGAATAC
*
660211 AAATCAATTTTAAAATGCAATTTATATGAAGAAAATCAAAATAATTTGATATTAATATTTTAAGT
1 AAATCAATTTTAAAATGCAATTTATATGAAAAAAATCAAAATAATTTGATATTAATATTTTAAGT
660276 TTTATAAAATGCAAATTGTTAGTATATACTATAAAGTAAACAAATTATCTATTAACTTTGTGGAT
66 TTTATAAAATGCAAATTGTTAGTATATACTATAAAGTAAACAAATTATCTATTAACTTTGTGGAT
660341 CGACTTTTTGAATATTGTTTTTTTTAATAGAATAC
131 CGACTTTTTGAATATTGTTTTTTTTAATAGAATAC
660376 GCTAGTATTA
Statistics
Matches: 163, Mismatches: 2, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
165 17 0.10
166 1 0.01
167 145 0.89
ACGTcount: A:0.42, C:0.07, G:0.10, T:0.42
Consensus pattern (165 bp):
AAATCAATTTTAAAATGCAATTTATATGAAAAAAATCAAAATAATTTGATATTAATATTTTAAGT
TTTATAAAATGCAAATTGTTAGTATATACTATAAAGTAAACAAATTATCTATTAACTTTGTGGAT
CGACTTTTTGAATATTGTTTTTTTTAATAGAATAC
Found at i:660881 original size:23 final size:23
Alignment explanation
Indices: 660830--660881 Score: 59
Period size: 23 Copynumber: 2.3 Consensus size: 23
660820 AGAAGAAGAA
* * *
660830 AAACATACTACAAAGACATATAT
1 AAACGTACTACAAAGACAGAGAT
*
660853 AAACGTACTACAAATACAGAGAT
1 AAACGTACTACAAAGACAGAGAT
*
660876 AGACGT
1 AAACGT
660882 GCAACACATA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.52, C:0.17, G:0.12, T:0.19
Consensus pattern (23 bp):
AAACGTACTACAAAGACAGAGAT
Found at i:665471 original size:22 final size:22
Alignment explanation
Indices: 665420--665473 Score: 65
Period size: 22 Copynumber: 2.5 Consensus size: 22
665410 CCATCAATAC
* *
665420 ACGAAAGTGCCTTAGCACTGGT
1 ACGAAAGTGCCTCAGCACTGAT
*
665442 ACTG-AAGTGCCTCAGCATTGAT
1 AC-GAAAGTGCCTCAGCACTGAT
665464 ACGAAAGTGC
1 ACGAAAGTGC
665474 ATTTGCACTT
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
21 1 0.04
22 25 0.93
23 1 0.04
ACGTcount: A:0.30, C:0.22, G:0.26, T:0.22
Consensus pattern (22 bp):
ACGAAAGTGCCTCAGCACTGAT
Found at i:667866 original size:2 final size:2
Alignment explanation
Indices: 667861--667913 Score: 106
Period size: 2 Copynumber: 26.5 Consensus size: 2
667851 CACCTATGTT
667861 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
667903 TA TA TA TA TA T
1 TA TA TA TA TA T
667914 CATCAAGTAT
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 51 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:677046 original size:18 final size:18
Alignment explanation
Indices: 677019--677053 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
677009 ATACAAAAGA
* *
677019 ATTAGGAAAATGAATTAT
1 ATTAGAAAAATCAATTAT
677037 ATTAGAAAAATCAATTA
1 ATTAGAAAAATCAATTA
677054 CATCTATCAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.54, C:0.03, G:0.11, T:0.31
Consensus pattern (18 bp):
ATTAGAAAAATCAATTAT
Found at i:685187 original size:3 final size:3
Alignment explanation
Indices: 685162--685225 Score: 58
Period size: 3 Copynumber: 20.7 Consensus size: 3
685152 TTTTGGTAAA
* * * *
685162 TAT TAC TAT TAGT TAT AAT TAT TAT TGAC TA- TATT TAT TAT AAT TAT
1 TAT TAT TAT TA-T TAT TAT TAT TAT T-AT TAT TA-T TAT TAT TAT TAT
685209 TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TA
685226 ATCCTGATTT
Statistics
Matches: 50, Mismatches: 7, Indels: 8
0.77 0.11 0.12
Matches are distributed among these distances:
2 2 0.04
3 41 0.82
4 7 0.14
ACGTcount: A:0.36, C:0.03, G:0.03, T:0.58
Consensus pattern (3 bp):
TAT
Found at i:688576 original size:30 final size:29
Alignment explanation
Indices: 688533--688613 Score: 85
Period size: 29 Copynumber: 2.8 Consensus size: 29
688523 ATTAGCACCC
*
688533 TTTT-AAAATTAATTACGAAAATAGT-ATCAT
1 TTTTCAAAA-TAATTACCAAAATA-TCAT-AT
* *
688563 TTTTCGAAATAATTACCAAAATATCATTT
1 TTTTCAAAATAATTACCAAAATATCATAT
*
688592 TTTTCAAAATAATTATCAAAAT
1 TTTTCAAAATAATTACCAAAAT
688614 CACTTTTTTT
Statistics
Matches: 44, Mismatches: 5, Indels: 5
0.81 0.09 0.09
Matches are distributed among these distances:
29 22 0.50
30 19 0.43
31 3 0.07
ACGTcount: A:0.46, C:0.10, G:0.04, T:0.41
Consensus pattern (29 bp):
TTTTCAAAATAATTACCAAAATATCATAT
Found at i:688604 original size:29 final size:29
Alignment explanation
Indices: 688562--688636 Score: 98
Period size: 29 Copynumber: 2.6 Consensus size: 29
688552 AATAGTATCA
688562 TTTTTCGAAATAATTACCAAAAT-ATCATT
1 TTTTTCGAAATAATTACCAAAATCA-CATT
* * *
688591 TTTTTCAAAATAATTATCAAAATCACTTT
1 TTTTTCGAAATAATTACCAAAATCACATT
*
688620 TTTTTCGAAATATTTAC
1 TTTTTCGAAATAATTAC
688637 GCAACTAACA
Statistics
Matches: 39, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
29 38 0.97
30 1 0.03
ACGTcount: A:0.39, C:0.13, G:0.03, T:0.45
Consensus pattern (29 bp):
TTTTTCGAAATAATTACCAAAATCACATT
Found at i:688672 original size:29 final size:29
Alignment explanation
Indices: 688628--688698 Score: 88
Period size: 29 Copynumber: 2.4 Consensus size: 29
688618 TTTTTTTCGA
*
688628 AATATTTACGCAACTAACACCTTCATAAC
1 AATATTTACGAAACTAACACCTTCATAAC
* ** **
688657 AGTATTTACGAAACTAACATTTTTTTAAC
1 AATATTTACGAAACTAACACCTTCATAAC
688686 AATATTTACGAAA
1 AATATTTACGAAA
688699 ATACCACCAT
Statistics
Matches: 35, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
29 35 1.00
ACGTcount: A:0.42, C:0.18, G:0.06, T:0.34
Consensus pattern (29 bp):
AATATTTACGAAACTAACACCTTCATAAC
Found at i:689360 original size:21 final size:22
Alignment explanation
Indices: 689327--689384 Score: 73
Period size: 21 Copynumber: 2.6 Consensus size: 22
689317 TAGTGCTCTA
* *
689327 TATTTAATATTTATAGTGTTTAT
1 TATTT-ATATTTATAATGCTTAT
689350 TATTT-TATTTATAATGCTTAT
1 TATTTATATTTATAATGCTTAT
*
689371 TATTTATATATATA
1 TATTTATATTTATA
689385 TTTTTCTAGT
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
21 19 0.61
22 7 0.23
23 5 0.16
ACGTcount: A:0.33, C:0.02, G:0.05, T:0.60
Consensus pattern (22 bp):
TATTTATATTTATAATGCTTAT
Found at i:695946 original size:29 final size:30
Alignment explanation
Indices: 695894--695962 Score: 88
Period size: 29 Copynumber: 2.3 Consensus size: 30
695884 CCATTTTTTG
*
695894 AAATAATTATCAAAATATCATTTTTTTTCA
1 AAATAATTACCAAAATATCATTTTTTTTCA
*
695924 AAATAATTACC-AAA-ATCACTTTTTTTTCG
1 AAATAATTACCAAAATATCA-TTTTTTTTCA
*
695953 AAATATTTAC
1 AAATAATTAC
695963 GCAACTAACA
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
28 4 0.11
29 21 0.60
30 10 0.29
ACGTcount: A:0.42, C:0.13, G:0.01, T:0.43
Consensus pattern (30 bp):
AAATAATTACCAAAATATCATTTTTTTTCA
Found at i:696011 original size:29 final size:29
Alignment explanation
Indices: 695954--696020 Score: 80
Period size: 29 Copynumber: 2.3 Consensus size: 29
695944 TTTTTTTCGA
*
695954 AATATTTACGCAACTAACACCTTCATAAC
1 AATATTTACGAAACTAACACCTTCATAAC
* ** **
695983 AGTATTTACGAAACTAACATTTTTTTAAC
1 AATATTTACGAAACTAACACCTTCATAAC
696012 AATATTTAC
1 AATATTTAC
696021 TAAAATACCA
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.40, C:0.19, G:0.04, T:0.36
Consensus pattern (29 bp):
AATATTTACGAAACTAACACCTTCATAAC
Found at i:696691 original size:21 final size:22
Alignment explanation
Indices: 696658--696715 Score: 73
Period size: 21 Copynumber: 2.6 Consensus size: 22
696648 TAGTGCTCTA
* *
696658 TATTTAATATTTATAGTGTTTAT
1 TATTT-ATATTTATAATGCTTAT
696681 TATTT-TATTTATAATGCTTAT
1 TATTTATATTTATAATGCTTAT
*
696702 TATTTATATATATA
1 TATTTATATTTATA
696716 TTTTTCTAGT
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
21 19 0.61
22 7 0.23
23 5 0.16
ACGTcount: A:0.33, C:0.02, G:0.05, T:0.60
Consensus pattern (22 bp):
TATTTATATTTATAATGCTTAT
Found at i:712004 original size:37 final size:36
Alignment explanation
Indices: 711905--712006 Score: 161
Period size: 35 Copynumber: 2.8 Consensus size: 36
711895 TGGCAACCAA
*
711905 CTTTGAAAAATTGGTTTTCAAAGTTTGATAAATGTTT
1 CTTTGAAAAA-TGGTTTTCAAAGTTTGGTAAATGTTT
711942 CTTTG-AAAATGGTTTTCAAAGTTTGGTAAATGTTT
1 CTTTGAAAAATGGTTTTCAAAGTTTGGTAAATGTTT
*
711977 CTTTGAAAAATAGTTTTTCAAAGTTTGGTA
1 CTTTGAAAAAT-GGTTTTCAAAGTTTGGTA
712007 GACGTTTGTT
Statistics
Matches: 61, Mismatches: 2, Indels: 4
0.91 0.03 0.06
Matches are distributed among these distances:
35 30 0.49
36 9 0.15
37 22 0.36
ACGTcount: A:0.31, C:0.06, G:0.18, T:0.45
Consensus pattern (36 bp):
CTTTGAAAAATGGTTTTCAAAGTTTGGTAAATGTTT
Found at i:715304 original size:17 final size:17
Alignment explanation
Indices: 715282--715314 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
715272 AAAATCCTCA
*
715282 GTGCATCGGTGCATGGT
1 GTGCATCGATGCATGGT
715299 GTGCATCGATGCATGG
1 GTGCATCGATGCATGG
715315 AATGCATTCG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.15, C:0.18, G:0.39, T:0.27
Consensus pattern (17 bp):
GTGCATCGATGCATGGT
Found at i:715319 original size:63 final size:64
Alignment explanation
Indices: 715172--715330 Score: 191
Period size: 64 Copynumber: 2.5 Consensus size: 64
715162 TGCACTAAGA
* *
715172 GTGCATCGATGCATCAAGTGCATTCGATGTT-TCAAAATAGCCAGAGTGCATCGATGCATGGCTG
1 GTGCATCGATGCAT-AAATGCATTCGATGTTCTCAAAATAGCCACAGTGCATCGATGCATGGCTG
* * * *
715236 GTGCATCGATGCATCAAATGCATTCGATGTTCTTATAAA-ATCCTCAGTGCATCGGTGCATGG-T
1 GTGCATCGATGCAT-AAATGCATTCGATGTTCTCA-AAATAGCCACAGTGCATCGATGCATGGCT
715299 -
64 G
*
715299 GTGCATCGATGCATGGAATGCATTCGATGTTC
1 GTGCATCGATGCAT-AAATGCATTCGATGTTC
715331 AATTTAATTC
Statistics
Matches: 85, Mismatches: 8, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
63 30 0.35
64 31 0.36
65 21 0.25
66 3 0.04
ACGTcount: A:0.25, C:0.20, G:0.25, T:0.30
Consensus pattern (64 bp):
GTGCATCGATGCATAAATGCATTCGATGTTCTCAAAATAGCCACAGTGCATCGATGCATGGCTG
Found at i:715320 original size:17 final size:17
Alignment explanation
Indices: 715283--715327 Score: 54
Period size: 17 Copynumber: 2.6 Consensus size: 17
715273 AAATCCTCAG
* **
715283 TGCATCGGTGCATGGTG
1 TGCATCGATGCATGGAA
715300 TGCATCGATGCATGGAA
1 TGCATCGATGCATGGAA
715317 TGCATTCGATG
1 TGCA-TCGATG
715328 TTCAATTTAA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
17 18 0.75
18 6 0.25
ACGTcount: A:0.20, C:0.18, G:0.33, T:0.29
Consensus pattern (17 bp):
TGCATCGATGCATGGAA
Found at i:717017 original size:41 final size:41
Alignment explanation
Indices: 716965--717080 Score: 198
Period size: 41 Copynumber: 2.8 Consensus size: 41
716955 GACCCCGTGC
716965 ATCGATGCACATTCAAGGCGTGCATCGGTGCATCATGATGA
1 ATCGATGCACATTCAAGGCGTGCATCGGTGCATCATGATGA
717006 ATCGATGCACATTCAAGGCGTGCATCGGTGCATCATGATGA
1 ATCGATGCACATTCAAGGCGTGCATCGGTGCATCATGATGA
*
717047 ATCGATGCACATTCAAAGG-GATGCATCGATGCAT
1 ATCGATGCACATTC-AAGGCG-TGCATCGGTGCAT
717081 TAAATGCATC
Statistics
Matches: 72, Mismatches: 1, Indels: 3
0.95 0.01 0.04
Matches are distributed among these distances:
41 56 0.78
42 16 0.22
ACGTcount: A:0.28, C:0.22, G:0.26, T:0.24
Consensus pattern (41 bp):
ATCGATGCACATTCAAGGCGTGCATCGGTGCATCATGATGA
Found at i:720932 original size:22 final size:21
Alignment explanation
Indices: 720890--720929 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
720880 GAGTTTATTT
*
720890 TCATTTTTCAATTTTGAAACA
1 TCATTTTTCAATTTTAAAACA
720911 TCATTTTT-ATATTTTAAAA
1 TCATTTTTCA-ATTTTAAAA
720930 ACAATTTCTC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 1 0.06
21 16 0.94
ACGTcount: A:0.35, C:0.10, G:0.03, T:0.53
Consensus pattern (21 bp):
TCATTTTTCAATTTTAAAACA
Found at i:722917 original size:18 final size:17
Alignment explanation
Indices: 722863--722911 Score: 53
Period size: 19 Copynumber: 2.7 Consensus size: 17
722853 TTGGACCCTT
* *
722863 AGTGCATCGGTGCACTAA
1 AGTGCATCGATGCA-TCA
722881 GAGTGCATCGATGCATCA
1 -AGTGCATCGATGCATCA
722899 AGTGCATTCGATG
1 AGTGCA-TCGATG
722912 TTTCAAAATA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
17 6 0.22
18 8 0.30
19 13 0.48
ACGTcount: A:0.27, C:0.20, G:0.29, T:0.24
Consensus pattern (17 bp):
AGTGCATCGATGCATCA
Found at i:725733 original size:37 final size:36
Alignment explanation
Indices: 725615--725716 Score: 170
Period size: 35 Copynumber: 2.8 Consensus size: 36
725605 TGGCAACCAA
725615 CTTTGAAAAACTGGTTTTCAAAGTTTGGTAAATGTTT
1 CTTTGAAAAA-TGGTTTTCAAAGTTTGGTAAATGTTT
725652 CTTTG-AAAATGGTTTTCAAAGTTTGGTAAATGTTT
1 CTTTGAAAAATGGTTTTCAAAGTTTGGTAAATGTTT
*
725687 CTTTGAAAAATAGTTTTTCAAAGTTTGGTA
1 CTTTGAAAAAT-GGTTTTCAAAGTTTGGTA
725717 GACGTTTGTT
Statistics
Matches: 62, Mismatches: 1, Indels: 4
0.93 0.01 0.06
Matches are distributed among these distances:
35 31 0.50
36 9 0.15
37 22 0.35
ACGTcount: A:0.30, C:0.07, G:0.19, T:0.44
Consensus pattern (36 bp):
CTTTGAAAAATGGTTTTCAAAGTTTGGTAAATGTTT
Found at i:728943 original size:63 final size:62
Alignment explanation
Indices: 728876--729024 Score: 167
Period size: 63 Copynumber: 2.4 Consensus size: 62
728866 GCACTAAGAG
*
728876 TGCATCGATGCATTCGATGTT-TCA-AAATAGCCAGAGTGCATCAATGCATGGCTGGTGCATCGA
1 TGCATCGATGCATTCGATGTTCTCATAAA-AGCCACAGTGCATCAATGCATGG-T-GTGCATCGA
* * * * **
728939 TGCATCAAATGCATTCGATGTTCTTATAAAATCCTCAGTGCATCGGTGCATGGTGTGCATCGA
1 TGCATC-GATGCATTCGATGTTCTCATAAAAGCCACAGTGCATCAATGCATGGTGTGCATCGA
*
729002 TGCATGGAATGCATTCGATGTTC
1 TGCATCG-ATGCATTCGATGTTC
729025 AATTTAATTC
Statistics
Matches: 73, Mismatches: 9, Indels: 8
0.81 0.10 0.09
Matches are distributed among these distances:
63 35 0.48
64 15 0.21
65 20 0.27
66 3 0.04
ACGTcount: A:0.26, C:0.20, G:0.24, T:0.30
Consensus pattern (62 bp):
TGCATCGATGCATTCGATGTTCTCATAAAAGCCACAGTGCATCAATGCATGGTGTGCATCGA
Found at i:728998 original size:17 final size:17
Alignment explanation
Indices: 728976--729008 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
728966 AAAATCCTCA
*
728976 GTGCATCGGTGCATGGT
1 GTGCATCGATGCATGGT
728993 GTGCATCGATGCATGG
1 GTGCATCGATGCATGG
729009 AATGCATTCG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.15, C:0.18, G:0.39, T:0.27
Consensus pattern (17 bp):
GTGCATCGATGCATGGT
Found at i:729014 original size:17 final size:17
Alignment explanation
Indices: 728977--729021 Score: 54
Period size: 17 Copynumber: 2.6 Consensus size: 17
728967 AAATCCTCAG
* **
728977 TGCATCGGTGCATGGTG
1 TGCATCGATGCATGGAA
728994 TGCATCGATGCATGGAA
1 TGCATCGATGCATGGAA
729011 TGCATTCGATG
1 TGCA-TCGATG
729022 TTCAATTTAA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
17 18 0.75
18 6 0.25
ACGTcount: A:0.20, C:0.18, G:0.33, T:0.29
Consensus pattern (17 bp):
TGCATCGATGCATGGAA
Found at i:734796 original size:22 final size:21
Alignment explanation
Indices: 734754--734793 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
734744 GAGTTTATTT
*
734754 TCATTTTTCAATTTTGAAACA
1 TCATTTTTCAATTTTAAAACA
734775 TCATTTTT-ATATTTTAAAA
1 TCATTTTTCA-ATTTTAAAA
734794 ACAATTTCTC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 1 0.06
21 16 0.94
ACGTcount: A:0.35, C:0.10, G:0.03, T:0.53
Consensus pattern (21 bp):
TCATTTTTCAATTTTAAAACA
Found at i:736774 original size:18 final size:18
Alignment explanation
Indices: 736745--736792 Score: 80
Period size: 18 Copynumber: 2.7 Consensus size: 18
736735 GTGCACTAAG
736745 AGTGCA-TCGATGCATCA
1 AGTGCATTCGATGCATCA
736762 AGTGCATTCGATGCATCA
1 AGTGCATTCGATGCATCA
*
736780 AATGCATTCGATG
1 AGTGCATTCGATG
736793 TTCTTATAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
17 6 0.21
18 23 0.79
ACGTcount: A:0.29, C:0.21, G:0.23, T:0.27
Consensus pattern (18 bp):
AGTGCATTCGATGCATCA
Found at i:740601 original size:6 final size:6
Alignment explanation
Indices: 740592--740632 Score: 82
Period size: 6 Copynumber: 6.8 Consensus size: 6
740582 ATCCTCACTC
740592 TCCTCG TCCTCG TCCTCG TCCTCG TCCTCG TCCTCG TCCTC
1 TCCTCG TCCTCG TCCTCG TCCTCG TCCTCG TCCTCG TCCTC
740633 ATTCTCACTC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 35 1.00
ACGTcount: A:0.00, C:0.51, G:0.15, T:0.34
Consensus pattern (6 bp):
TCCTCG
Found at i:750191 original size:21 final size:21
Alignment explanation
Indices: 750165--750209 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
750155 GATTTCTGGG
* *
750165 CAAGGGGAATCGGTACCCATT
1 CAAGGGGAACCGATACCCATT
*
750186 CAAGGGGAACCGATACCCCTT
1 CAAGGGGAACCGATACCCATT
750207 CAA
1 CAA
750210 ACGACAGAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.31, C:0.29, G:0.24, T:0.16
Consensus pattern (21 bp):
CAAGGGGAACCGATACCCATT
Found at i:751679 original size:31 final size:31
Alignment explanation
Indices: 751635--751840 Score: 197
Period size: 30 Copynumber: 6.8 Consensus size: 31
751625 ACCTATATCT
* * * *
751635 TTCAAGACATATGGACAGTTTACCTAGGTTC
1 TTCAGGACCTATGGACAGTTTACCGAGGATC
*
751666 TTCGGGACCTATGGACAGTTTACCGAGGATC
1 TTCAGGACCTATGGACAGTTTACCGAGGATC
* * *
751697 TTTATGACCTCTGGACAG-TTACCGAGGATC
1 TTCAGGACCTATGGACAGTTTACCGAGGATC
* * *
751727 TTTATGACCTCTGGACAG-TTACCGAGGATC
1 TTCAGGACCTATGGACAGTTTACCGAGGATC
* * *
751757 TTTATGACCTCTGGACAG-TTACCGAGGATC
1 TTCAGGACCTATGGACAGTTTACCGAGGATC
* * *
751787 TTTATGACCTCTGGACAG-TTACCGAGGATC
1 TTCAGGACCTATGGACAGTTTACCGAGGATC
* * *
751817 TTTATGACCTCTGGACAG-TTACCG
1 TTCAGGACCTATGGACAGTTTACCG
751841 GGGTCTTTGT
Statistics
Matches: 166, Mismatches: 9, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
30 126 0.76
31 40 0.24
ACGTcount: A:0.24, C:0.23, G:0.23, T:0.30
Consensus pattern (31 bp):
TTCAGGACCTATGGACAGTTTACCGAGGATC
Found at i:751721 original size:30 final size:30
Alignment explanation
Indices: 751671--751860 Score: 337
Period size: 30 Copynumber: 6.3 Consensus size: 30
751661 GGTTCTTCGG
*
751671 GACCTATGGACAGTTTACCGAGGATCTTTAT
1 GACCTCTGGACAG-TTACCGAGGATCTTTAT
751702 GACCTCTGGACAGTTACCGAGGATCTTTAT
1 GACCTCTGGACAGTTACCGAGGATCTTTAT
751732 GACCTCTGGACAGTTACCGAGGATCTTTAT
1 GACCTCTGGACAGTTACCGAGGATCTTTAT
751762 GACCTCTGGACAGTTACCGAGGATCTTTAT
1 GACCTCTGGACAGTTACCGAGGATCTTTAT
751792 GACCTCTGGACAGTTACCGAGGATCTTTAT
1 GACCTCTGGACAGTTACCGAGGATCTTTAT
* *
751822 GACCTCTGGACAGTTACCG-GGGTCTTTGT
1 GACCTCTGGACAGTTACCGAGGATCTTTAT
751851 GACCTCTGGA
1 GACCTCTGGA
751861 TAGGTCCTTC
Statistics
Matches: 156, Mismatches: 3, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
29 18 0.12
30 126 0.81
31 12 0.08
ACGTcount: A:0.22, C:0.23, G:0.25, T:0.30
Consensus pattern (30 bp):
GACCTCTGGACAGTTACCGAGGATCTTTAT
Found at i:753052 original size:24 final size:24
Alignment explanation
Indices: 753023--753075 Score: 106
Period size: 24 Copynumber: 2.2 Consensus size: 24
753013 TAAACCGGTT
753023 GAACCGCTACTAGTGAACCGGCCA
1 GAACCGCTACTAGTGAACCGGCCA
753047 GAACCGCTACTAGTGAACCGGCCA
1 GAACCGCTACTAGTGAACCGGCCA
753071 GAACC
1 GAACC
753076 ACTGAACCGT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.30, C:0.34, G:0.25, T:0.11
Consensus pattern (24 bp):
GAACCGCTACTAGTGAACCGGCCA
Found at i:756494 original size:24 final size:24
Alignment explanation
Indices: 756467--756518 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 24
756457 ATAAATATTT
* *
756467 ATTTTTATTACAT-AGATAGTTTAG
1 ATTTTT-TTACATAAGATAATTTAA
*
756491 ATTTTTTTATATAAGATAATTTAA
1 ATTTTTTTACATAAGATAATTTAA
756515 ATTT
1 ATTT
756519 AGTTTTTGTT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
23 5 0.21
24 19 0.79
ACGTcount: A:0.37, C:0.02, G:0.08, T:0.54
Consensus pattern (24 bp):
ATTTTTTTACATAAGATAATTTAA
Found at i:758384 original size:18 final size:18
Alignment explanation
Indices: 758363--758398 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
758353 CGTGTTCATG
758363 TTCGTACTCGTACTCGTA
1 TTCGTACTCGTACTCGTA
* *
758381 TTCGTGCTCGTGCTCGTA
1 TTCGTACTCGTACTCGTA
758399 CTATAAATTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.11, C:0.28, G:0.22, T:0.39
Consensus pattern (18 bp):
TTCGTACTCGTACTCGTA
Found at i:759980 original size:23 final size:23
Alignment explanation
Indices: 759954--760000 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
759944 TAAGAACCTA
759954 TCTGACTTTAT-GACACGTTTTTT
1 TCTGACTTTATAG-CACGTTTTTT
* *
759977 TCTGTCTTTGTAGCACGTTTTTT
1 TCTGACTTTATAGCACGTTTTTT
760000 T
1 T
760001 TTTTGTTTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
23 20 0.95
24 1 0.05
ACGTcount: A:0.13, C:0.17, G:0.15, T:0.55
Consensus pattern (23 bp):
TCTGACTTTATAGCACGTTTTTT
Found at i:762654 original size:21 final size:20
Alignment explanation
Indices: 762620--762658 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
762610 ATTAATTATT
762620 TAAAAAATTAAATAAAAATA
1 TAAAAAATTAAATAAAAATA
*
762640 TAAAAACATTTAATAAAAA
1 TAAAAA-ATTAAATAAAAA
762659 ACAGTTTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.72, C:0.03, G:0.00, T:0.26
Consensus pattern (20 bp):
TAAAAAATTAAATAAAAATA
Found at i:763103 original size:24 final size:24
Alignment explanation
Indices: 763076--763159 Score: 168
Period size: 24 Copynumber: 3.5 Consensus size: 24
763066 ATTCTTTCGT
763076 TTCAATCGAGCTCGAATTTCAGGC
1 TTCAATCGAGCTCGAATTTCAGGC
763100 TTCAATCGAGCTCGAATTTCAGGC
1 TTCAATCGAGCTCGAATTTCAGGC
763124 TTCAATCGAGCTCGAATTTCAGGC
1 TTCAATCGAGCTCGAATTTCAGGC
763148 TTCAATCGAGCT
1 TTCAATCGAGCT
763160 TCTAAATTTT
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 60 1.00
ACGTcount: A:0.25, C:0.25, G:0.20, T:0.30
Consensus pattern (24 bp):
TTCAATCGAGCTCGAATTTCAGGC
Found at i:766691 original size:13 final size:14
Alignment explanation
Indices: 766673--766705 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
766663 CGAAAATGTT
*
766673 AATATTTTT-TTTA
1 AATATTTTTGATTA
766686 AATATTTTTGATTA
1 AATATTTTTGATTA
766700 AATATT
1 AATATT
766706 ACTTAAAATA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 9 0.50
14 9 0.50
ACGTcount: A:0.36, C:0.00, G:0.03, T:0.61
Consensus pattern (14 bp):
AATATTTTTGATTA
Found at i:768911 original size:21 final size:20
Alignment explanation
Indices: 768869--768914 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
768859 GAAAAACATG
*
768869 AAACAGAAACTGAGTGAAAA
1 AAACAGAAAATGAGTGAAAA
*
768889 AAACAGAACAATGAGTTAGAAA
1 AAACAGAA-AATGAGTGA-AAA
768911 AAAC
1 AAAC
768915 GTGGCTTTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 8 0.36
21 7 0.32
22 7 0.32
ACGTcount: A:0.61, C:0.11, G:0.17, T:0.11
Consensus pattern (20 bp):
AAACAGAAAATGAGTGAAAA
Found at i:769153 original size:12 final size:12
Alignment explanation
Indices: 769136--769167 Score: 64
Period size: 12 Copynumber: 2.7 Consensus size: 12
769126 AGTCCACTAA
769136 CCGAACCTATTT
1 CCGAACCTATTT
769148 CCGAACCTATTT
1 CCGAACCTATTT
769160 CCGAACCT
1 CCGAACCT
769168 GGGTCCGAAC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.25, C:0.38, G:0.09, T:0.28
Consensus pattern (12 bp):
CCGAACCTATTT
Found at i:771977 original size:6 final size:6
Alignment explanation
Indices: 771966--772002 Score: 74
Period size: 6 Copynumber: 6.2 Consensus size: 6
771956 AGGAATACTC
771966 ATAAGA ATAAGA ATAAGA ATAAGA ATAAGA ATAAGA A
1 ATAAGA ATAAGA ATAAGA ATAAGA ATAAGA ATAAGA A
772003 ACATATACTA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 31 1.00
ACGTcount: A:0.68, C:0.00, G:0.16, T:0.16
Consensus pattern (6 bp):
ATAAGA
Found at i:773186 original size:279 final size:279
Alignment explanation
Indices: 772601--773118 Score: 707
Period size: 279 Copynumber: 1.9 Consensus size: 279
772591 GTGGTCCTGT
* **
772601 GCCATAACAAT-AAATAGGCCTTTTAAAACTAAAATATTAGATATATAAAGAAGTTCACTAATAT
1 GCCATAACAATAAAATAGACAATTTAAAACTAAAATATTAGATATATAAAGAAGTTCACTAATAT
*
772665 TTTAAAATTTGGTGGCCATATACCATAACAGTAAAATAAGCATTGGACATGAAAATTCTTCAGCC
66 TTCAAAATTTGGTGGCCATATACCATAACAGTAAAATAAGCATTGGACATGAAAATTCTTCAGCC
* *
772730 AAATATCCTAAATACACATATATACAAAAACTTAAAAAAAATTGGAGGCCCTTATAAAAATTGGG
131 AAATATCCTAAATACACATACATACAAAAACTTAAAAAAAATTGGAGGCCCTTACAAAAATTGGG
* * *
772795 CCTTGTACGGTTGGGCAACCCGCACAAGCCCAAAATCAGCCCTGCAAAACGACAGGGCCGTCTTG
196 CCCTGTACGGTTGGGCAACCCGCACAAGCCCAAAACCAGCCCTGCAAAACGAAAGGGCCGTCTTG
* ** * **
772860 TAAATTTTGGTGGCCCTGT
261 TAAAATGAGATGGCCCTAA
* **
772879 GCCATAACAATAAAATAGGCCTTTTAAAACTAAAATATTAGATATATAAAGAAGTTCACTAATAT
1 GCCATAACAATAAAATAGACAATTTAAAACTAAAATATTAGATATATAAAGAAGTTCACTAATAT
* * * **
772944 TTCAAAATTTGGTGATCC-TATACCATAACAGTAAAATAAGCCTTGGACTTGAAAATTCTTGGGC
66 TTCAAAATTTGGTG-GCCATATACCATAACAGTAAAATAAGCATTGGACATGAAAATTCTTCAGC
* * * ***
773008 TAAATATTCTAAATACACATACATACAAAAGGCTTAAAAATTTTTGGAGGCCCTTACAAAAATTG
130 CAAATATCCTAAATACACATACATACAAAA-ACTTAAAAAAAATTGGAGGCCCTTACAAAAATTG
* * * *
773073 GGCCCTGTGCGGTTGGGCAGCCCGCACAGGCCCAAAACCGGCCCTG
194 GGCCCTGTACGGTTGGGCAACCCGCACAAGCCCAAAACCAGCCCTG
773119 GTCACATCAA
Statistics
Matches: 217, Mismatches: 20, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
278 11 0.05
279 135 0.62
280 71 0.33
ACGTcount: A:0.38, C:0.19, G:0.16, T:0.26
Consensus pattern (279 bp):
GCCATAACAATAAAATAGACAATTTAAAACTAAAATATTAGATATATAAAGAAGTTCACTAATAT
TTCAAAATTTGGTGGCCATATACCATAACAGTAAAATAAGCATTGGACATGAAAATTCTTCAGCC
AAATATCCTAAATACACATACATACAAAAACTTAAAAAAAATTGGAGGCCCTTACAAAAATTGGG
CCCTGTACGGTTGGGCAACCCGCACAAGCCCAAAACCAGCCCTGCAAAACGAAAGGGCCGTCTTG
TAAAATGAGATGGCCCTAA
Found at i:774766 original size:2 final size:2
Alignment explanation
Indices: 774759--774797 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
774749 GAGATTAAAT
774759 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
774798 TATTAATAAT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:774989 original size:18 final size:19
Alignment explanation
Indices: 774954--774990 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
774944 CACGGAATGT
774954 AAGATTACCAGTGGGAATAA
1 AAGATTACCAG-GGGAATAA
774974 AAGATTACCA-GGGAATA
1 AAGATTACCAGGGGAATA
774991 TGATTACTGG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 7 0.41
20 10 0.59
ACGTcount: A:0.46, C:0.11, G:0.24, T:0.19
Consensus pattern (19 bp):
AAGATTACCAGGGGAATAA
Found at i:777056 original size:19 final size:19
Alignment explanation
Indices: 777034--777073 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
777024 ATAAATTCAA
* * *
777034 AATAAATTAATTATATTTT
1 AATAAATGAATCATAATTT
777053 AATAAATGAATCATAATTT
1 AATAAATGAATCATAATTT
777072 AA
1 AA
777074 CTTGATATTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.53, C:0.03, G:0.03, T:0.42
Consensus pattern (19 bp):
AATAAATGAATCATAATTT
Found at i:779629 original size:30 final size:31
Alignment explanation
Indices: 779565--779636 Score: 103
Period size: 31 Copynumber: 2.4 Consensus size: 31
779555 AAAACAATTA
779565 ATAAACTATATAATTTATATGTAGTATATAT
1 ATAAACTATATAATTTATATGTAGTATATAT
* *
779596 ATAAACTATATAGTTTATTAT-TA-TATATGT
1 ATAAACTATATAATTTA-TATGTAGTATATAT
779626 ATAAACTATAT
1 ATAAACTATAT
779637 GAACAAATAT
Statistics
Matches: 38, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
30 17 0.45
31 18 0.47
32 3 0.08
ACGTcount: A:0.44, C:0.04, G:0.06, T:0.46
Consensus pattern (31 bp):
ATAAACTATATAATTTATATGTAGTATATAT
Found at i:779676 original size:20 final size:18
Alignment explanation
Indices: 779653--779689 Score: 56
Period size: 20 Copynumber: 1.9 Consensus size: 18
779643 ATATATATGA
779653 ACTATATATTATTAATATAC
1 ACTATATA-TATT-ATATAC
779673 ACTATATATATTATATA
1 ACTATATATATTATATA
779690 GTTCATTAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 5 0.29
19 4 0.24
20 8 0.47
ACGTcount: A:0.46, C:0.08, G:0.00, T:0.46
Consensus pattern (18 bp):
ACTATATATATTATATAC
Found at i:779698 original size:31 final size:29
Alignment explanation
Indices: 779655--779820 Score: 129
Period size: 31 Copynumber: 5.8 Consensus size: 29
779645 ATATATGAAC
*
779655 TATATATTATTAATATACACTATATATAT
1 TATATATTATTAATATAAACTATATATAT
*
779684 TATATAGTTCATTAATATAAAC--TATGTAT
1 TATATA-TT-ATTAATATAAACTATATATAT
*
779713 TA-AT-TTATTAACATAAACTATATATAT
1 TATATATTATTAATATAAACTATATATAT
* *
779740 TATATAGTTCATTAGTATAAACTATATGA-AC
1 TATATA-TT-ATTAATATAAACTATAT-ATAT
*
779771 TATAT-TATATTACTAT--A-TATA-A-AT
1 TATATAT-TATTAATATAAACTATATATAT
779795 TATATAGTGTATTAATATAAACTATA
1 TATATA-T-TATTAATATAAACTATA
779821 GTTTATTAAT
Statistics
Matches: 111, Mismatches: 11, Indels: 30
0.73 0.07 0.20
Matches are distributed among these distances:
24 7 0.06
25 11 0.10
26 15 0.14
27 9 0.08
28 5 0.05
29 26 0.23
30 5 0.05
31 32 0.29
32 1 0.01
ACGTcount: A:0.45, C:0.07, G:0.04, T:0.45
Consensus pattern (29 bp):
TATATATTATTAATATAAACTATATATAT
Found at i:779722 original size:56 final size:56
Alignment explanation
Indices: 779661--779819 Score: 193
Period size: 56 Copynumber: 2.9 Consensus size: 56
779651 GAACTATATA
*
779661 TTATTAATATACACTATATATATTATATAGTTCATTAATATAAACTATGTATTAA-T
1 TTATTAATATACACTATATATATTATATAGTTCATTAATATAAACTAT-TATGAACT
* * *
779717 TTATTAACATAAACTATATATATTATATAGTTCATTAGTATAAACTA-TATGAACT
1 TTATTAATATACACTATATATATTATATAGTTCATTAATATAAACTATTATGAACT
* *
779772 ATATT-ATATTACTA-TATATAAATTATATAGTGT-ATTAATATAAACTAT
1 TTATTAATA-TAC-ACTATATATATTATATAGT-TCATTAATATAAACTAT
779820 AGTTTATTAA
Statistics
Matches: 89, Mismatches: 9, Indels: 10
0.82 0.08 0.09
Matches are distributed among these distances:
54 7 0.08
55 36 0.40
56 46 0.52
ACGTcount: A:0.44, C:0.07, G:0.04, T:0.45
Consensus pattern (56 bp):
TTATTAATATACACTATATATATTATATAGTTCATTAATATAAACTATTATGAACT
Found at i:779815 original size:22 final size:22
Alignment explanation
Indices: 779787--779861 Score: 84
Period size: 22 Copynumber: 3.5 Consensus size: 22
779777 ATATTACTAT
*
779787 ATATAAATTATATAGTGTATTA
1 ATATAAATTATATAGTTTATTA
*
779809 ATATAAA--CTATAGTTTATTA
1 ATATAAATTATATAGTTTATTA
*
779829 ATATAAAGTATATAGTTTA-TA
1 ATATAAATTATATAGTTTATTA
779850 CATATAATATTA
1 -ATATAA-ATTA
779862 ATTGAAAAAA
Statistics
Matches: 45, Mismatches: 4, Indels: 7
0.80 0.07 0.12
Matches are distributed among these distances:
20 18 0.40
21 2 0.04
22 22 0.49
23 3 0.07
ACGTcount: A:0.47, C:0.03, G:0.07, T:0.44
Consensus pattern (22 bp):
ATATAAATTATATAGTTTATTA
Found at i:779822 original size:20 final size:20
Alignment explanation
Indices: 779797--779840 Score: 70
Period size: 20 Copynumber: 2.2 Consensus size: 20
779787 ATATAAATTA
779797 TATAGTGTATTAATATAAAC
1 TATAGTGTATTAATATAAAC
* *
779817 TATAGTTTATTAATATAAAG
1 TATAGTGTATTAATATAAAC
779837 TATA
1 TATA
779841 TAGTTTATAC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.45, C:0.02, G:0.09, T:0.43
Consensus pattern (20 bp):
TATAGTGTATTAATATAAAC
Found at i:780389 original size:101 final size:101
Alignment explanation
Indices: 780196--780390 Score: 252
Period size: 101 Copynumber: 1.9 Consensus size: 101
780186 AAATCTTTTT
* *
780196 ATTTTTTTATCAAACACCTCAAATCATCCCTTGTTCATCCATGTTCATCCCCAAAACCATCATTT
1 ATTTTTTTATCAAACACCTCAAATCAACCCTTATTCATCCATGTTCATCCCCAAAACCATCATTT
*
780261 GATCTTCACAAACACCAAAAACCAAACCCTATCATA
66 GATCTTCACAAACACCAAAAACAAAACCCTATCATA
* ** * * *
780297 ATTTTTTTATCAAACACC-CAAATTCAACCCTTATTCGTCTGTGTTCATCCCTAAACCCTTC-TT
1 ATTTTTTTATCAAACACCTCAAA-TCAACCCTTATTCATCCATGTTCATCCCCAAAACCATCATT
*
780360 TGATCCTT-ACAAACACCCAAAACTAAAACCC
65 TGAT-CTTCACAAACACCAAAAAC-AAAACCC
780391 AACTTGTCTT
Statistics
Matches: 81, Mismatches: 10, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
100 24 0.30
101 57 0.70
ACGTcount: A:0.34, C:0.32, G:0.04, T:0.31
Consensus pattern (101 bp):
ATTTTTTTATCAAACACCTCAAATCAACCCTTATTCATCCATGTTCATCCCCAAAACCATCATTT
GATCTTCACAAACACCAAAAACAAAACCCTATCATA
Found at i:782609 original size:22 final size:22
Alignment explanation
Indices: 782577--782629 Score: 63
Period size: 22 Copynumber: 2.4 Consensus size: 22
782567 AACAGTGTTG
782577 TGAACAGTAAT-ATACAATACCA
1 TGAACAGTAATGA-ACAATACCA
* * *
782599 TGAACATTAATGAACAGTACCG
1 TGAACAGTAATGAACAATACCA
782621 TGAACAGTA
1 TGAACAGTA
782630 TCAAATGCTA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
22 25 0.96
23 1 0.04
ACGTcount: A:0.45, C:0.17, G:0.15, T:0.23
Consensus pattern (22 bp):
TGAACAGTAATGAACAATACCA
Found at i:782693 original size:21 final size:22
Alignment explanation
Indices: 782653--782694 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
782643 TTTTCCAGAA
*
782653 TGCTACAGGGGTATCGATACCC
1 TGCTACAGGGGTACCGATACCC
*
782675 TGCTACA-GTGTACCGATACC
1 TGCTACAGGGGTACCGATACC
782695 ATTACTACAG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 11 0.61
22 7 0.39
ACGTcount: A:0.24, C:0.29, G:0.24, T:0.24
Consensus pattern (22 bp):
TGCTACAGGGGTACCGATACCC
Done.