Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008192.1 Hibiscus syriacus cultivar Beakdansim tig00110809_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: 1702141
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 6 of 9
Found at i:840415 original size:14 final size:14
Alignment explanation
Indices: 840396--840432 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
840386 CATCAATTAA
840396 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
840410 ACAAATCACCTTTT
1 ACAAATCAACTTTT
840424 ACAAATCAA
1 ACAAATCAA
840433 TTAAACAATC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.46, C:0.24, G:0.00, T:0.30
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:841856 original size:21 final size:21
Alignment explanation
Indices: 841790--841856 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
841780 GTGAATCGGG
*
841790 CTCTTGAATGGTGGGA-GGGA
1 CTCTTGAACGGTGGGAGGGGA
* * ** * *
841810 CCTCTTCAACGATGACAGTGGC
1 -CTCTTGAACGGTGGGAGGGGA
841832 CTCTTGAACGGTGGGAGGGGA
1 CTCTTGAACGGTGGGAGGGGA
841853 CTCT
1 CTCT
841857 CGAGGAATGA
Statistics
Matches: 32, Mismatches: 13, Indels: 2
0.68 0.28 0.04
Matches are distributed among these distances:
21 30 0.94
22 2 0.06
ACGTcount: A:0.19, C:0.21, G:0.36, T:0.24
Consensus pattern (21 bp):
CTCTTGAACGGTGGGAGGGGA
Found at i:841875 original size:42 final size:41
Alignment explanation
Indices: 841790--841912 Score: 113
Period size: 42 Copynumber: 2.9 Consensus size: 41
841780 GTGAATCGGG
* * * * *
841790 CTCTTGAATGGTGGGA-GGGACCTCTTCAACGATGACAGTGGC
1 CTCTTGAACGGTGGGAGGGGA-CTC-TCGAGGATGATAGGGGC
841832 CTCTTGAACGGTGGGAGGGGACTCTCGAGGAATGATAGGGGC
1 CTCTTGAACGGTGGGAGGGGACTCTCGAGG-ATGATAGGGGC
* * * * *
841874 CTCTTCAACGATAGGAGTGGACTCTTGAGGGATGATAGG
1 CTCTTGAACGGTGGGAGGGGACTCTCGA-GGATGATAGG
841913 CGAGTCGGGC
Statistics
Matches: 68, Mismatches: 10, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
41 4 0.06
42 58 0.85
43 6 0.09
ACGTcount: A:0.23, C:0.18, G:0.37, T:0.23
Consensus pattern (41 bp):
CTCTTGAACGGTGGGAGGGGACTCTCGAGGATGATAGGGGC
Found at i:843946 original size:20 final size:19
Alignment explanation
Indices: 843915--844113 Score: 166
Period size: 19 Copynumber: 10.8 Consensus size: 19
843905 TCTTTTGGTT
843915 GAAATGAAAATCGCAACGA
1 GAAATGAAAATCGCAACGA
* *
843934 GATAATGAGAATCGCAACGCG
1 GA-AATGAAAATCGCAACG-A
**
843955 GAAATGACTATCGCAACGA
1 GAAATGAAAATCGCAACGA
*
843974 G--A-G--AATCGCAACGC
1 GAAATGAAAATCGCAACGA
**
843988 GAAATGACTATCG---CGA
1 GAAATGAAAATCGCAACGA
** *
844004 -CCA-GAAAATCGCAACGC
1 GAAATGAAAATCGCAACGA
*
844021 GAAATGAAAATCGCAACCGC
1 GAAATGAAAATCGCAA-CGA
*
844041 GAAATGAAAATCGCAACGC
1 GAAATGAAAATCGCAACGA
*
844060 GAAATGAAAATCGCAACGC
1 GAAATGAAAATCGCAACGA
* *
844079 GAAATGAAAATCGCAATGC
1 GAAATGAAAATCGCAACGA
844098 GAAATGAAAATCGCAA
1 GAAATGAAAATCGCAA
844114 TGCGATTTTG
Statistics
Matches: 150, Mismatches: 17, Indels: 26
0.78 0.09 0.13
Matches are distributed among these distances:
14 16 0.11
15 1 0.01
16 4 0.03
17 4 0.03
18 1 0.01
19 74 0.49
20 48 0.32
21 2 0.01
ACGTcount: A:0.45, C:0.21, G:0.22, T:0.12
Consensus pattern (19 bp):
GAAATGAAAATCGCAACGA
Found at i:843997 original size:33 final size:33
Alignment explanation
Indices: 843940--844038 Score: 144
Period size: 33 Copynumber: 3.0 Consensus size: 33
843930 ACGAGATAAT
*
843940 GAGAATCGCAACGCGGAAATGACTATCGCAACGA
1 GAGAATCGCAACGC-GAAATGACTATCGCAACCA
*
843974 GAGAATCGCAACGCGAAATGACTATCGCGACCA
1 GAGAATCGCAACGCGAAATGACTATCGCAACCA
* **
844007 GAAAATCGCAACGCGAAATGAAAATCGCAACC
1 GAGAATCGCAACGCGAAATGACTATCGCAACC
844039 GCGAAATGAA
Statistics
Matches: 59, Mismatches: 6, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
33 45 0.76
34 14 0.24
ACGTcount: A:0.40, C:0.25, G:0.23, T:0.11
Consensus pattern (33 bp):
GAGAATCGCAACGCGAAATGACTATCGCAACCA
Found at i:844021 original size:19 final size:19
Alignment explanation
Indices: 844007--844118 Score: 197
Period size: 19 Copynumber: 5.8 Consensus size: 19
843997 ATCGCGACCA
844007 GAAAATCGCAACGCGAAAT
1 GAAAATCGCAACGCGAAAT
844026 GAAAATCGCAACCGCGAAAT
1 GAAAATCGCAA-CGCGAAAT
844046 GAAAATCGCAACGCGAAAT
1 GAAAATCGCAACGCGAAAT
844065 GAAAATCGCAACGCGAAAT
1 GAAAATCGCAACGCGAAAT
*
844084 GAAAATCGCAATGCGAAAT
1 GAAAATCGCAACGCGAAAT
*
844103 GAAAATCGCAATGCGA
1 GAAAATCGCAACGCGA
844119 TTTTGGTTTC
Statistics
Matches: 91, Mismatches: 1, Indels: 2
0.97 0.01 0.02
Matches are distributed among these distances:
19 72 0.79
20 19 0.21
ACGTcount: A:0.46, C:0.21, G:0.21, T:0.12
Consensus pattern (19 bp):
GAAAATCGCAACGCGAAAT
Found at i:844136 original size:19 final size:19
Alignment explanation
Indices: 844114--844157 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
844104 AAAATCGCAA
*
844114 TGCGATTTTGGTTTCACGT
1 TGCGATTTTGATTTCACGT
* *
844133 TGCGATTTTTATTTCGCGT
1 TGCGATTTTGATTTCACGT
844152 TGCGAT
1 TGCGAT
844158 AGTCATTTCC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.11, C:0.16, G:0.25, T:0.48
Consensus pattern (19 bp):
TGCGATTTTGATTTCACGT
Found at i:844183 original size:20 final size:19
Alignment explanation
Indices: 844125--844184 Score: 66
Period size: 19 Copynumber: 3.1 Consensus size: 19
844115 GCGATTTTGG
* * *
844125 TTTCACGTTGCGATTTTTA
1 TTTCGCGTTGCGATTCTCA
**
844144 TTTCGCGTTGCGATAGTCA
1 TTTCGCGTTGCGATTCTCA
844163 TTTCCGCGTTGCGATTCTCA
1 TTT-CGCGTTGCGATTCTCA
844183 TT
1 TT
844185 CTCGAAACTA
Statistics
Matches: 34, Mismatches: 6, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
19 18 0.53
20 16 0.47
ACGTcount: A:0.13, C:0.22, G:0.20, T:0.45
Consensus pattern (19 bp):
TTTCGCGTTGCGATTCTCA
Found at i:844727 original size:20 final size:20
Alignment explanation
Indices: 844702--844753 Score: 86
Period size: 20 Copynumber: 2.6 Consensus size: 20
844692 CGCTAAGTAA
*
844702 ATCGCGTTGCGAAAGTCAGT
1 ATCGCGTTGCGAAAGTAAGT
844722 ATCGCGTTGCGAAAGTAAGT
1 ATCGCGTTGCGAAAGTAAGT
*
844742 ATCTCGTTGCGA
1 ATCGCGTTGCGA
844754 TTTTTTATTA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.25, C:0.19, G:0.29, T:0.27
Consensus pattern (20 bp):
ATCGCGTTGCGAAAGTAAGT
Found at i:844773 original size:41 final size:41
Alignment explanation
Indices: 844721--844798 Score: 102
Period size: 41 Copynumber: 1.9 Consensus size: 41
844711 CGAAAGTCAG
* * *
844721 TATCGCGTTGCGAAAGTAAGTATCTCGTTGCGATTTTTTAT
1 TATCGCATTGCGAAAGTAAGTATCGCATTGCGATTTTTTAT
* * *
844762 TATCGCATTGCGATAGTCATTATCGCATTGCGATTTT
1 TATCGCATTGCGAAAGTAAGTATCGCATTGCGATTTT
844799 CCCAATTCGC
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
41 31 1.00
ACGTcount: A:0.22, C:0.17, G:0.21, T:0.41
Consensus pattern (41 bp):
TATCGCATTGCGAAAGTAAGTATCGCATTGCGATTTTTTAT
Found at i:844814 original size:41 final size:41
Alignment explanation
Indices: 844784--844879 Score: 165
Period size: 41 Copynumber: 2.3 Consensus size: 41
844774 ATAGTCATTA
* *
844784 TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTTACTTAT
1 TCGCATTGCGAATTTCCCAATTCGCGTTGCGATTCACTTAT
*
844825 TCGCATTGCGAATTTCCCAATTCGCGTTGCGATTTACTTAT
1 TCGCATTGCGAATTTCCCAATTCGCGTTGCGATTCACTTAT
844866 TCGCATTGCGAATT
1 TCGCATTGCGAATT
844880 GGGAAAATCG
Statistics
Matches: 54, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 54 1.00
ACGTcount: A:0.19, C:0.24, G:0.18, T:0.40
Consensus pattern (41 bp):
TCGCATTGCGAATTTCCCAATTCGCGTTGCGATTCACTTAT
Found at i:844828 original size:20 final size:20
Alignment explanation
Indices: 844784--844876 Score: 96
Period size: 20 Copynumber: 4.5 Consensus size: 20
844774 ATAGTCATTA
* **
844784 TCGCATTGCGATTTTCCCAAT
1 TCGCATTGCGA-TTTACTTAT
*
844805 TCGCGTTGCGATTTACTTAT
1 TCGCATTGCGATTTACTTAT
* **
844825 TCGCATTGCGAATTTCCCAAT
1 TCGCATTGCG-ATTTACTTAT
*
844846 TCGCGTTGCGATTTACTTAT
1 TCGCATTGCGATTTACTTAT
844866 TCGCATTGCGA
1 TCGCATTGCGA
844877 ATTGGGAAAA
Statistics
Matches: 58, Mismatches: 13, Indels: 3
0.78 0.18 0.04
Matches are distributed among these distances:
20 32 0.55
21 26 0.45
ACGTcount: A:0.18, C:0.25, G:0.18, T:0.39
Consensus pattern (20 bp):
TCGCATTGCGATTTACTTAT
Found at i:846951 original size:20 final size:21
Alignment explanation
Indices: 846926--846967 Score: 61
Period size: 20 Copynumber: 2.0 Consensus size: 21
846916 AACGTCAAAC
846926 TATCATAACAA-TAGA-AAAAA
1 TATCATAA-AAGTAGACAAAAA
846946 TATCATAAAAGTAGACAAAAA
1 TATCATAAAAGTAGACAAAAA
846967 T
1 T
846968 TAACGTTCAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
19 2 0.10
20 12 0.60
21 6 0.30
ACGTcount: A:0.62, C:0.10, G:0.07, T:0.21
Consensus pattern (21 bp):
TATCATAAAAGTAGACAAAAA
Found at i:848980 original size:32 final size:31
Alignment explanation
Indices: 848934--849001 Score: 84
Period size: 32 Copynumber: 2.2 Consensus size: 31
848924 TCCAACTTAA
**
848934 GAGG-GCAAAATATAATTAATTATAGAAAAT
1 GAGGAGCAAAATATAATTAACCATAGAAAAT
* *
848964 GATGGAGCAAAGTATAATTAACCATAGAATAT
1 GA-GGAGCAAAATATAATTAACCATAGAAAAT
848996 GAGGAG
1 GAGGAG
849002 AGAAAAATAA
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
30 2 0.06
31 6 0.19
32 24 0.75
ACGTcount: A:0.49, C:0.06, G:0.22, T:0.24
Consensus pattern (31 bp):
GAGGAGCAAAATATAATTAACCATAGAAAAT
Found at i:850995 original size:16 final size:16
Alignment explanation
Indices: 850964--850995 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
850954 TTTCAAGCTC
*
850964 GACTCGAACTCGAAAA
1 GACTCGAACTCAAAAA
850980 GACTCGAACTCAAAAA
1 GACTCGAACTCAAAAA
850996 AATCAAGAGC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.47, C:0.25, G:0.16, T:0.12
Consensus pattern (16 bp):
GACTCGAACTCAAAAA
Found at i:851058 original size:23 final size:23
Alignment explanation
Indices: 851026--851081 Score: 67
Period size: 23 Copynumber: 2.4 Consensus size: 23
851016 CTCAAGACTC
* *
851026 GAGCTTGATTAAAACTCAATTTT
1 GAGCTCGATTAAAACCCAATTTT
* * *
851049 GAGCTCGATTCAAGCCCGATTTT
1 GAGCTCGATTAAAACCCAATTTT
851072 GAGCTCGATT
1 GAGCTCGATT
851082 TTGAGCTCGA
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 28 1.00
ACGTcount: A:0.27, C:0.20, G:0.20, T:0.34
Consensus pattern (23 bp):
GAGCTCGATTAAAACCCAATTTT
Found at i:851082 original size:12 final size:12
Alignment explanation
Indices: 851044--851117 Score: 96
Period size: 12 Copynumber: 6.2 Consensus size: 12
851034 TTAAAACTCA
851044 ATTTTGAGCTCG
1 ATTTTGAGCTCG
** *
851056 A-TTCAAGCCCG
1 ATTTTGAGCTCG
851067 ATTTTGAGCTCG
1 ATTTTGAGCTCG
851079 ATTTTGAGCTCG
1 ATTTTGAGCTCG
*
851091 ATTTTGAGCTTG
1 ATTTTGAGCTCG
*
851103 ATTTTGAACTCG
1 ATTTTGAGCTCG
851115 ATT
1 ATT
851118 CAAGCTCAAA
Statistics
Matches: 52, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
11 8 0.15
12 44 0.85
ACGTcount: A:0.20, C:0.18, G:0.22, T:0.41
Consensus pattern (12 bp):
ATTTTGAGCTCG
Found at i:852697 original size:7 final size:7
Alignment explanation
Indices: 852685--852731 Score: 67
Period size: 7 Copynumber: 6.7 Consensus size: 7
852675 CATAATCATA
*
852685 TTTAGGT
1 TTTAGGG
852692 TTTAGGG
1 TTTAGGG
852699 TTTAGGG
1 TTTAGGG
**
852706 TTTATAG
1 TTTAGGG
852713 TTTAGGG
1 TTTAGGG
852720 TTTAGGG
1 TTTAGGG
852727 TTTAG
1 TTTAG
852732 AATTTATTAC
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
7 35 1.00
ACGTcount: A:0.17, C:0.00, G:0.34, T:0.49
Consensus pattern (7 bp):
TTTAGGG
Found at i:852737 original size:21 final size:21
Alignment explanation
Indices: 852692--852737 Score: 74
Period size: 21 Copynumber: 2.2 Consensus size: 21
852682 ATATTTAGGT
* *
852692 TTTAGGGTTTAGGGTTTATAG
1 TTTAGGGTTTAGGGTTTAGAA
852713 TTTAGGGTTTAGGGTTTAGAA
1 TTTAGGGTTTAGGGTTTAGAA
852734 TTTA
1 TTTA
852738 TTACAAAGAC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.22, C:0.00, G:0.30, T:0.48
Consensus pattern (21 bp):
TTTAGGGTTTAGGGTTTAGAA
Found at i:852815 original size:14 final size:13
Alignment explanation
Indices: 852789--852827 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 13
852779 GGTAAGTATA
852789 ATTTAGGGTTTAGG
1 ATTTAGGG-TTAGG
852803 ATTTATGGGTTAGG
1 ATTTA-GGGTTAGG
*
852817 GTTTAGGGTTA
1 ATTTAGGGTTA
852828 ATTACAAGTA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
13 6 0.26
14 14 0.61
15 3 0.13
ACGTcount: A:0.21, C:0.00, G:0.36, T:0.44
Consensus pattern (13 bp):
ATTTAGGGTTAGG
Found at i:853323 original size:31 final size:30
Alignment explanation
Indices: 853255--853345 Score: 100
Period size: 31 Copynumber: 3.1 Consensus size: 30
853245 TTCATTTAAA
* *
853255 TACTTAAAATATA-TTTTGGTCAAAATAAA
1 TACTTAAAGTATATTTTTGGTCAAAATAAG
853284 TA-TATAAAGTTATATTTTTGGTCAAAATAAG
1 TACT-TAAAG-TATATTTTTGGTCAAAATAAG
* *
853315 TACTTAAAGTAT-TTTAT-GTCAAAATAGG
1 TACTTAAAGTATATTTTTGGTCAAAATAAG
853343 TAC
1 TAC
853346 CTAACCTATT
Statistics
Matches: 54, Mismatches: 4, Indels: 9
0.81 0.06 0.13
Matches are distributed among these distances:
28 14 0.26
29 10 0.19
30 7 0.13
31 22 0.41
32 1 0.02
ACGTcount: A:0.43, C:0.07, G:0.11, T:0.40
Consensus pattern (30 bp):
TACTTAAAGTATATTTTTGGTCAAAATAAG
Found at i:853355 original size:28 final size:28
Alignment explanation
Indices: 853296--853355 Score: 68
Period size: 28 Copynumber: 2.1 Consensus size: 28
853286 TATAAAGTTA
* *
853296 TATTTTTGGTCAAAATAAGTACTTAAAG
1 TATTTTTGGTCAAAATAAGTACCTAAAC
* *
853324 TATTTTAT-GTCAAAATAGGTACCTAACC
1 TATTTT-TGGTCAAAATAAGTACCTAAAC
853352 TATT
1 TATT
853356 CAAGTTTTTT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
28 26 0.96
29 1 0.04
ACGTcount: A:0.37, C:0.12, G:0.12, T:0.40
Consensus pattern (28 bp):
TATTTTTGGTCAAAATAAGTACCTAAAC
Found at i:856137 original size:16 final size:17
Alignment explanation
Indices: 856111--856144 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
856101 GGAAAGGAGA
*
856111 AATAGAATTTTGTTTCT
1 AATAGAATTTTGATTCT
856128 AATA-AATTTTGATTCT
1 AATAGAATTTTGATTCT
856144 A
1 A
856145 CAATTTAAAG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 12 0.75
17 4 0.25
ACGTcount: A:0.35, C:0.06, G:0.09, T:0.50
Consensus pattern (17 bp):
AATAGAATTTTGATTCT
Found at i:856749 original size:108 final size:108
Alignment explanation
Indices: 856612--856838 Score: 445
Period size: 108 Copynumber: 2.1 Consensus size: 108
856602 TCACTTTACT
*
856612 TTTATGATTTAGTTGTTAACATCAAAAAAGAGGTCACTTAGATTTTGTTTAGTGCGAAGAATAAA
1 TTTATGAGTTAGTTGTTAACATCAAAAAAGAGGTCACTTAGATTTTGTTTAGTGCGAAGAATAAA
856677 AAGAAAAAGAAAAAAATATTAATTAAATACTAAATCAATAAAA
66 AAGAAAAAGAAAAAAATATTAATTAAATACTAAATCAATAAAA
856720 TTTATGAGTTAGTTGTTAACATCAAAAAAGAGGTCACTTAGATTTTGTTTAGTGCGAAGAATAAA
1 TTTATGAGTTAGTTGTTAACATCAAAAAAGAGGTCACTTAGATTTTGTTTAGTGCGAAGAATAAA
856785 AAGAAAAAGAAAAAAATATTAATTAAATACTAAATCAATAAAA
66 AAGAAAAAGAAAAAAATATTAATTAAATACTAAATCAATAAAA
856828 TTTATGAGTTA
1 TTTATGAGTTA
856839 TGATTGCATA
Statistics
Matches: 118, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
108 118 1.00
ACGTcount: A:0.49, C:0.06, G:0.14, T:0.31
Consensus pattern (108 bp):
TTTATGAGTTAGTTGTTAACATCAAAAAAGAGGTCACTTAGATTTTGTTTAGTGCGAAGAATAAA
AAGAAAAAGAAAAAAATATTAATTAAATACTAAATCAATAAAA
Found at i:857856 original size:24 final size:25
Alignment explanation
Indices: 857810--857857 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
857800 ATTAAATATT
*
857810 AAATAAATTAAAGAAAAACATAAAA
1 AAATAAAGTAAAGAAAAACATAAAA
857835 AAATAAAGTAACA-AAAAA-ATAAA
1 AAATAAAGTAA-AGAAAAACATAAA
857858 TCAAAAGGGA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
24 5 0.24
25 15 0.71
26 1 0.05
ACGTcount: A:0.77, C:0.04, G:0.04, T:0.15
Consensus pattern (25 bp):
AAATAAAGTAAAGAAAAACATAAAA
Found at i:857958 original size:25 final size:25
Alignment explanation
Indices: 857916--858015 Score: 94
Period size: 25 Copynumber: 3.8 Consensus size: 25
857906 GACAAAATGT
*
857916 AAAAGTAAAAATAAAAAGAATAAATC
1 AAAAGTAAAAA-AAAAAGAATAAATA
*
857942 AAAAGTAAAAAATAAAGAATAAATA
1 AAAAGTAAAAAAAAAAGAATAAATA
*
857967 AAAAATAAGAAAAAAGGAA-AATAAATA
1 AAAAGTAA-AAAAAA--AAGAATAAATA
*
857994 AATAAATAAATAAATAAAAGAA
1 AA-AAGTAAA-AAA-AAAAGAA
858016 AAAACGTAAC
Statistics
Matches: 63, Mismatches: 4, Indels: 12
0.80 0.05 0.15
Matches are distributed among these distances:
25 19 0.30
26 16 0.25
27 13 0.21
28 13 0.21
29 2 0.03
ACGTcount: A:0.76, C:0.01, G:0.08, T:0.15
Consensus pattern (25 bp):
AAAAGTAAAAAAAAAAGAATAAATA
Found at i:857968 original size:4 final size:4
Alignment explanation
Indices: 857924--858011 Score: 55
Period size: 4 Copynumber: 22.8 Consensus size: 4
857914 GTAAAAGTAA
* * * *
857924 AAAT AAAA AGAAT AAAT CAA- AAGT AAA- AAAT AAA- GAAT AAAT AAA-
1 AAAT AAAT A-AAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT
857969 AAAT AAGA- AAA- AAGGA- AAAT AAAT AAAT AAAT AAAT AAAT AAA
1 AAAT AA-AT AAAT AA--AT AAAT AAAT AAAT AAAT AAAT AAAT AAA
858012 AGAAAAAACG
Statistics
Matches: 67, Mismatches: 8, Indels: 18
0.72 0.09 0.19
Matches are distributed among these distances:
3 13 0.19
4 47 0.70
5 7 0.10
ACGTcount: A:0.76, C:0.01, G:0.07, T:0.16
Consensus pattern (4 bp):
AAAT
Found at i:858013 original size:31 final size:31
Alignment explanation
Indices: 857959--858018 Score: 86
Period size: 31 Copynumber: 1.9 Consensus size: 31
857949 AAAAATAAAG
*
857959 AATAAATAAAAAATAAGAAAAAAGGAAAATA
1 AATAAATAAAAAATAAGAAAAAAGAAAAATA
*
857990 AATAAATAAATAAATAA-ATAAAAGAAAAA
1 AATAAATAAA-AAATAAGAAAAAAGAAAAA
858019 ACGTAACAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
31 20 0.77
32 6 0.23
ACGTcount: A:0.78, C:0.00, G:0.07, T:0.15
Consensus pattern (31 bp):
AATAAATAAAAAATAAGAAAAAAGAAAAATA
Found at i:858080 original size:22 final size:24
Alignment explanation
Indices: 858055--858113 Score: 70
Period size: 22 Copynumber: 2.6 Consensus size: 24
858045 ATATAAGAAT
*
858055 TAAAAAAATTAAAAAGT-AATA-A
1 TAAAAAAATTAAAAAATGAATAGA
* *
858077 TAAATAAATTAAAAAATGAATAGT
1 TAAAAAAATTAAAAAATGAATAGA
858101 TAAAAAAA-TAAAA
1 TAAAAAAATTAAAA
858114 GGACCAAATT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
22 15 0.48
23 9 0.29
24 7 0.23
ACGTcount: A:0.71, C:0.00, G:0.05, T:0.24
Consensus pattern (24 bp):
TAAAAAAATTAAAAAATGAATAGA
Found at i:859822 original size:84 final size:83
Alignment explanation
Indices: 859691--860784 Score: 1022
Period size: 84 Copynumber: 13.1 Consensus size: 83
859681 GCTATGTTGT
*
859691 AAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTGACAGATAACCCTTCT
1 AAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTGGCAGATAACCCTTCT
* * * *
859756 AGCCTTGAGTTACGCTGT
66 AGACTTAAGTTATGCTGC
* * * * * ** *
859774 AAATGATATGCCCTCGAAGCTGAGTGTAATCGAACTCGGGGGTC-TT--TGGCAGATAGCCCTTC
1 AAATGATGTG-CCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTGGCAGATAACCCTTC
* *
859836 TCGACTTAAGCTATGCTGC
65 TAGACTTAAGTTATGCTGC
* * * * *
859855 AAATGATGTGCCTTGGAGTTGAACGTAGTCGAACTCGAAGGTCTTTTGTTGGCAGACAAACCTTC
1 AAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTC-TTTGGTGGCAGATAACCCTTC
* *
859920 TAGACTTAAGTTGTGCTGT
65 TAGACTTAAGTTATGCTGC
* * * * * * *
859939 AAATGATATGCCTTGGAGCTGAGCATAGTCGAGCTCGAAGGTCTTTAGCTGACAAATAGCCCTTC
1 AAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTT-GGTGGCAGATAACCCTTC
* * * * *
860004 TTGCCTTGAGCTATGTTGC
65 TAGACTTAAGTTATGCTGC
860023 AAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGCTGGCAGATAACCCTTC
1 AAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGG-TGGCAGATAACCCTTC
* *
860088 TCGACTTAAGTTATGTTGC
65 TAGACTTAAGTTATGCTGC
* * * * ** *
860107 AAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCGGGGGTTTTTGTCGGGGGTCTTTGGCAG
1 AAATGATGTG-CCTTGGAGCTGAGCGTAGTCGAACTCGAAGG-TCTT-T----GG----TGGCAG
* * *
860172 ATAGCCCTTCTCGACTTAAGCTATGCTGC
55 ATAACCCTTCTAGACTTAAGTTATGCTGC
* * * ** * * *
860201 AAATGGTGTGACGTT-GAGCTGAGAGTAGTTAAACTCAAAGGTCTTGTGTTGGCAGACAACCCTT
1 AAATGATGTG-CCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTT-TGGTGGCAGATAACCCTT
* *
860265 CTAGACTTAAGTTGTGCTTC
64 CTAGACTTAAGTTATGCTGC
* * *
860285 AAATGATATGCCTTAGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTGACAGATAACCCTTCT
1 AAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTGGCAGATAACCCTTCT
* * *
860350 AGCCTTGAGTTATGCTGT
66 AGACTTAAGTTATGCTGC
* *** * * ** * *
860368 AAATGATATGCCCTCAAAGCTGAGTGTAATCGAACTCGGGGGTCTTTGGT---AGATAGCCCTTA
1 AAATGATGTG-CCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTGGCAGATAACCCTTC
* *
860430 TCGACTTAAGCTATGCTGC
65 TAGACTTAAGTTATGCTGC
* * * *
860449 AAATGATGTGCCTTGGAGCTGAACGTAGTCGAACTCAAAGGTCTTGTGTTGGCAGACAACCCTTC
1 AAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTT-TGGTGGCAGATAACCCTTC
* *
860514 TAGACTTAAGTTGTGCTAC
65 TAGACTTAAGTTATGCTGC
* ** *
860533 AAATAATAAGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTGACAGATAACCCTTCT
1 AAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTGGCAGATAACCCTTCT
* * *
860598 AGCCTTGAGTTATGCTGT
66 AGACTTAAGTTATGCTGC
* * * * * ** *
860616 AAATGATATGCCCTCGAAGCTGAGTGTAATCGAACTCGGGGGTC-TT--TGGCAGATAGCCCTTC
1 AAATGATGTG-CCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTGGCAGATAACCCTTC
860678 TCA-ACTTAAGTTATGCTGC
65 T-AGACTTAAGTTATGCTGC
* * *
860697 AAATGATGTGCCTTGGAGCTTAACGTAGTCGAACTCGAAGGTCTTTGTTGGCAGATAACCCTTCT
1 AAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTGGCAGATAACCCTTCT
* *
860762 AGCCTTGAGTTATGCTGC
66 AGACTTAAGTTATGCTGC
860780 AAATG
1 AAATG
860785 TTGTCTTAAA
Statistics
Matches: 807, Mismatches: 175, Indels: 58
0.78 0.17 0.06
Matches are distributed among these distances:
80 76 0.09
81 111 0.14
82 4 0.00
83 133 0.16
84 385 0.48
85 25 0.03
86 3 0.00
87 1 0.00
88 1 0.00
91 2 0.00
92 5 0.01
93 18 0.02
94 43 0.05
ACGTcount: A:0.24, C:0.20, G:0.26, T:0.30
Consensus pattern (83 bp):
AAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTGGCAGATAACCCTTCT
AGACTTAAGTTATGCTGC
Found at i:860593 original size:248 final size:248
Alignment explanation
Indices: 860155--860783 Score: 1039
Period size: 248 Copynumber: 2.5 Consensus size: 248
860145 GGGGTTTTTG
* *
860155 TCGGGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGGTGTGACGTT-GAG
1 TCGGGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTG-CCTTGGAG
**
860219 CTGAGA-GTAGTTAAACTCAAAGGTCTTGTGTTGGCAGACAACCCTTCTAGACTTAAGTTGTGCT
65 CTGA-ACGTAGTCGAACTCAAAGGTCTTGTGTTGGCAGACAACCCTTCTAGACTTAAGTTGTGCT
* * *
860283 TCAAATGATATGCCTTAGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTGACAGATAACCCTT
129 ACAAATAATAAGCCTTAGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTGACAGATAACCCTT
860348 CTAGCCTTGAGTTATGCTGTAAATGATATGCCCTCAAAGCTGAGTGTAATCGAAC
194 CTAGCCTTGAGTTATGCTGTAAATGATATGCCCTCAAAGCTGAGTGTAATCGAAC
* *
860403 TCGGGGGTCTTTGGTAGATAGCCCTTATCGACTTAAGCTATGCTGCAAATGATGTGCCTTGGAGC
1 TCGGGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTTGGAGC
860468 TGAACGTAGTCGAACTCAAAGGTCTTGTGTTGGCAGACAACCCTTCTAGACTTAAGTTGTGCTAC
66 TGAACGTAGTCGAACTCAAAGGTCTTGTGTTGGCAGACAACCCTTCTAGACTTAAGTTGTGCTAC
*
860533 AAATAATAAGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTGACAGATAACCCTTCT
131 AAATAATAAGCCTTAGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTGACAGATAACCCTTCT
*
860598 AGCCTTGAGTTATGCTGTAAATGATATGCCCTCGAAGCTGAGTGTAATCGAAC
196 AGCCTTGAGTTATGCTGTAAATGATATGCCCTCAAAGCTGAGTGTAATCGAAC
* *
860651 TCGGGGGTCTTTGGCAGATAGCCCTTCTCAACTTAAGTTATGCTGCAAATGATGTGCCTTGGAGC
1 TCGGGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTTGGAGC
* * * * * * *
860716 TTAACGTAGTCGAACTCGAAGGTCTT-TGTTGGCAGATAACCCTTCTAGCCTTGAGTTATGCTGC
66 TGAACGTAGTCGAACTCAAAGGTCTTGTGTTGGCAGACAACCCTTCTAGACTTAAGTTGTGCTAC
860780 AAAT
131 AAAT
860784 GTTGTCTTAA
Statistics
Matches: 357, Mismatches: 22, Indels: 5
0.93 0.06 0.01
Matches are distributed among these distances:
247 41 0.11
248 316 0.89
ACGTcount: A:0.25, C:0.20, G:0.25, T:0.30
Consensus pattern (248 bp):
TCGGGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTTGGAGC
TGAACGTAGTCGAACTCAAAGGTCTTGTGTTGGCAGACAACCCTTCTAGACTTAAGTTGTGCTAC
AAATAATAAGCCTTAGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTGACAGATAACCCTTCT
AGCCTTGAGTTATGCTGTAAATGATATGCCCTCAAAGCTGAGTGTAATCGAAC
Found at i:865806 original size:48 final size:49
Alignment explanation
Indices: 865768--865904 Score: 136
Period size: 48 Copynumber: 2.8 Consensus size: 49
865758 ATTTTCGATT
* *
865768 TGAATTCTGATCTGATACTTGACATGGATTCTGATCTGA-TATCTGACA
1 TGAATTATGATATGATACTTGACATGGATTCTGATCTGATTATCTGACA
* * * *
865816 TGGATTATGATATGATACTTGACTTGGATTCTGATATGA-TA-CTTGACC
1 TGAATTATGATATGATACTTGACATGGATTCTGATCTGATTATC-TGACA
* * * * * *
865864 TGGATTTTGATATGATACTTGACGTGAATTATGATTTGATT
1 TGAATTATGATATGATACTTGACATGGATTCTGATCTGATT
865905 TTTTTATATA
Statistics
Matches: 76, Mismatches: 11, Indels: 3
0.84 0.12 0.03
Matches are distributed among these distances:
47 1 0.01
48 74 0.97
49 1 0.01
ACGTcount: A:0.27, C:0.12, G:0.20, T:0.41
Consensus pattern (49 bp):
TGAATTATGATATGATACTTGACATGGATTCTGATCTGATTATCTGACA
Found at i:865903 original size:24 final size:24
Alignment explanation
Indices: 865771--865886 Score: 162
Period size: 24 Copynumber: 4.8 Consensus size: 24
865761 TTCGATTTGA
*
865771 ATTCTGATCTGATACTTGACATGG
1 ATTCTGATATGATACTTGACATGG
*
865795 ATTCTGATCTGATA-TCTGACATGG
1 ATTCTGATATGATACT-TGACATGG
* *
865819 ATTATGATATGATACTTGACTTGG
1 ATTCTGATATGATACTTGACATGG
*
865843 ATTCTGATATGATACTTGACCTGG
1 ATTCTGATATGATACTTGACATGG
*
865867 ATTTTGATATGATACTTGAC
1 ATTCTGATATGATACTTGAC
865887 GTGAATTATG
Statistics
Matches: 84, Mismatches: 6, Indels: 4
0.89 0.06 0.04
Matches are distributed among these distances:
23 1 0.01
24 82 0.98
25 1 0.01
ACGTcount: A:0.27, C:0.14, G:0.20, T:0.40
Consensus pattern (24 bp):
ATTCTGATATGATACTTGACATGG
Found at i:869002 original size:5 final size:5
Alignment explanation
Indices: 868984--869158 Score: 84
Period size: 5 Copynumber: 34.6 Consensus size: 5
868974 AAATGATTAA
* *
868984 ATAA- ATAA- ATAAT ATAAT AT-AT ATAAAT ATAAT ATAAT TTAAAT ATACT
1 ATAAT ATAAT ATAAT ATAAT ATAAT AT-AAT ATAAT ATAAT AT-AAT ATAAT
* *
869033 ATACT ATAAT AT-AT AATAAAT ATATAT ATACT AATAAT AT-AT A-ACAT
1 ATAAT ATAAT ATAAT -AT-AAT ATA-AT ATAAT -ATAAT ATAAT ATA-AT
* *
869080 ATAAT AT-AT A-ATAT AATACT ATAAT ATATAT AATAAT ATACT AT-AT
1 ATAAT ATAAT ATA-AT -ATAAT ATAAT ATA-AT -ATAAT ATAAT ATAAT
* *
869126 A-AAT ATTAT A-ATAT ATAAT ATAAAC ATAAT ATA
1 ATAAT ATAAT ATA-AT ATAAT AT-AAT ATAAT ATA
869159 TAATACTATA
Statistics
Matches: 134, Mismatches: 14, Indels: 45
0.69 0.07 0.23
Matches are distributed among these distances:
4 25 0.19
5 72 0.54
6 31 0.23
7 6 0.04
ACGTcount: A:0.57, C:0.04, G:0.00, T:0.39
Consensus pattern (5 bp):
ATAAT
Found at i:869005 original size:7 final size:7
Alignment explanation
Indices: 868992--869245 Score: 166
Period size: 7 Copynumber: 37.1 Consensus size: 7
868982 AAATAAATAA
868992 ATAATAT
1 ATAATAT
868999 A-ATATAT
1 ATA-ATAT
869006 ATAA-AT
1 ATAATAT
869012 AT-A-AT
1 ATAATAT
*
869017 ATAATTT
1 ATAATAT
869024 A-AATAT
1 ATAATAT
869030 ACT-ATACT
1 A-TAATA-T
869038 ATAATAT
1 ATAATAT
*
869045 ATAATAA
1 ATAATAT
869052 ATATATAT
1 ATA-ATAT
*
869060 ATACTA-
1 ATAATAT
869066 ATAATAT
1 ATAATAT
*
869073 ATAACAT
1 ATAATAT
869080 ATAATAT
1 ATAATAT
869087 AT-A-AT
1 ATAATAT
869092 ATAATACT
1 ATAATA-T
869100 ATAATAT
1 ATAATAT
869107 AT-ATA-
1 ATAATAT
869112 ATAATAT
1 ATAATAT
869119 ACT-ATAT
1 A-TAATAT
869126 A-AATATT
1 ATAATA-T
869133 ATAATAT
1 ATAATAT
869140 AT-A-AT
1 ATAATAT
*
869145 ATAA-AC
1 ATAATAT
869151 ATAATAT
1 ATAATAT
869158 ATAATACT
1 ATAATA-T
869166 ATATACTAT
1 ATA-A-TAT
869175 ATAA-AT
1 ATAATAT
*
869181 ATTATAT
1 ATAATAT
**
869188 ATGCTAT
1 ATAATAT
*
869195 ATAATACC
1 ATAATA-T
*
869203 ATACTAT
1 ATAATAT
869210 ATAATAT
1 ATAATAT
**
869217 ATGCTAT
1 ATAATAT
869224 ATGAA-AT
1 AT-AATAT
869231 ATAATAT
1 ATAATAT
869238 ATAATAT
1 ATAATAT
869245 A
1 A
869246 CCATAATACT
Statistics
Matches: 196, Mismatches: 23, Indels: 56
0.71 0.08 0.20
Matches are distributed among these distances:
5 15 0.08
6 41 0.21
7 99 0.51
8 34 0.17
9 5 0.03
10 2 0.01
ACGTcount: A:0.54, C:0.06, G:0.01, T:0.40
Consensus pattern (7 bp):
ATAATAT
Found at i:869007 original size:2 final size:2
Alignment explanation
Indices: 868995--869245 Score: 109
Period size: 2 Copynumber: 131.5 Consensus size: 2
868985 TAAATAAATA
* * *
868995 AT AT A- AT AT AT AT AA AT AT A- AT AT A- AT TT AA AT AT ACT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A-T AT
*
869035 ACT AT A- AT AT AT A- AT AA AT AT AT AT AT ACT A- AT A- AT AT AT
1 A-T AT AT AT AT AT AT AT AT AT AT AT AT AT A-T AT AT AT AT AT AT
*
869075 A- AC AT AT A- AT AT AT A- AT AT A- AT ACT AT A- AT AT AT AT A-
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A-T AT AT AT AT AT AT AT
* * *
869112 AT A- AT AT ACT AT AT AA AT AT -T AT A- AT AT AT A- AT AT AA AC
1 AT AT AT AT A-T AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* *
869151 AT A- AT AT AT A- AT ACT AT AT ACT AT AT AA AT AT -T AT AT AT GCT
1 AT AT AT AT AT AT AT A-T AT AT A-T AT AT AT AT AT AT AT AT AT -AT
* * *
869193 AT AT A- AT ACC AT ACT AT AT A- AT AT AT GCT AT AT GAA AT AT A-
1 AT AT AT AT A-T AT A-T AT AT AT AT AT AT -AT AT AT -AT AT AT AT
869234 AT AT AT A- AT AT A
1 AT AT AT AT AT AT A
869246 CCATAATACT
Statistics
Matches: 189, Mismatches: 24, Indels: 72
0.66 0.08 0.25
Matches are distributed among these distances:
1 24 0.13
2 145 0.77
3 20 0.11
ACGTcount: A:0.53, C:0.06, G:0.01, T:0.40
Consensus pattern (2 bp):
AT
Found at i:880603 original size:42 final size:43
Alignment explanation
Indices: 880471--880681 Score: 171
Period size: 43 Copynumber: 4.9 Consensus size: 43
880461 GTTTTGTATT
* * * * * *
880471 AAAAACACCACTAAAAACAATATAATTAGTGTCGTTTGTGGCA
1 AAAAATACCACTAAAGACAAGAAAATTAGCGGCGTTTGTGGCA
* * * * * * *
880514 AAAAA-AGGCTACTAAAGACGAGAGAAGTAACGTCATATT-TGG-A
1 AAAAATA--CCACTAAAGACAAGAAAATTAGCGGCGT-TTGTGGCA
* *
880557 AAAAATACCACTAAAGACAAGAGAATTAGCGGTGTTTGTGGCA
1 AAAAATACCACTAAAGACAAGAAAATTAGCGGCGTTTGTGGCA
* * *
880600 AAAAATGCCACTAAAGATAAGAAAATTAGTGGCGTTTGTGGCA
1 AAAAATACCACTAAAGACAAGAAAATTAGCGGCGTTTGTGGCA
* *
880643 AAAAAGA-CACTAAAGAC-AGAAAAATTAGCAGCGTTTGTG
1 AAAAATACCACTAAAGACAAG-AAAATTAGCGGCGTTTGTG
880682 AACAAAAATG
Statistics
Matches: 135, Mismatches: 26, Indels: 15
0.77 0.15 0.09
Matches are distributed among these distances:
41 4 0.03
42 51 0.38
43 55 0.41
44 23 0.17
45 2 0.01
ACGTcount: A:0.45, C:0.13, G:0.21, T:0.21
Consensus pattern (43 bp):
AAAAATACCACTAAAGACAAGAAAATTAGCGGCGTTTGTGGCA
Found at i:880689 original size:43 final size:42
Alignment explanation
Indices: 880479--880681 Score: 160
Period size: 42 Copynumber: 4.8 Consensus size: 42
880469 TTAAAAACAC
* * * * * *
880479 CACTAAAAACAATATAATTAGTGTCGTTTGTGGCAAAAAAAGG
1 CACTAAAGACAAGAAAATTAGCGGCGTTTGTGGC-AAAAAAGA
* * * * * * *
880522 CTACTAAAGACGAGAGAAGTAACGTCATATT-TGG-AAAAAATA
1 C-ACTAAAGACAAGAAAATTAGCGGCGT-TTGTGGCAAAAAAGA
* * *
880564 CCACTAAAGACAAGAGAATTAGCGGTGTTTGTGGCAAAAAATGC
1 -CACTAAAGACAAGAAAATTAGCGGCGTTTGTGGCAAAAAA-GA
* *
880608 CACTAAAGATAAGAAAATTAGTGGCGTTTGTGGCAAAAAAGA
1 CACTAAAGACAAGAAAATTAGCGGCGTTTGTGGCAAAAAAGA
*
880650 CACTAAAGAC-AGAAAAATTAGCAGCGTTTGTG
1 CACTAAAGACAAG-AAAATTAGCGGCGTTTGTG
880682 AACAAAAATG
Statistics
Matches: 127, Mismatches: 26, Indels: 15
0.76 0.15 0.09
Matches are distributed among these distances:
41 4 0.03
42 56 0.44
43 44 0.35
44 21 0.17
45 2 0.02
ACGTcount: A:0.43, C:0.13, G:0.22, T:0.22
Consensus pattern (42 bp):
CACTAAAGACAAGAAAATTAGCGGCGTTTGTGGCAAAAAAGA
Found at i:883511 original size:47 final size:47
Alignment explanation
Indices: 883457--883551 Score: 172
Period size: 47 Copynumber: 2.0 Consensus size: 47
883447 CTCAGATGAA
*
883457 ACTAATATACACACTAAATTTAAGCATCATAAATTATAATATGATAT
1 ACTAATATACACACTAAATTTAAGCATCATAAATTATAATAAGATAT
*
883504 ACTAATATACACACTAAATTTAAGCATCTTAAATTATAATAAGATAT
1 ACTAATATACACACTAAATTTAAGCATCATAAATTATAATAAGATAT
883551 A
1 A
883552 TTCTATTTTT
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 46 1.00
ACGTcount: A:0.49, C:0.13, G:0.04, T:0.34
Consensus pattern (47 bp):
ACTAATATACACACTAAATTTAAGCATCATAAATTATAATAAGATAT
Found at i:883767 original size:25 final size:22
Alignment explanation
Indices: 883725--883774 Score: 64
Period size: 25 Copynumber: 2.1 Consensus size: 22
883715 CTAAGTATTG
*
883725 ATAATATTTATAATTTTTAATGT
1 ATAATATTTATAAATTTTAAT-T
883748 ATAATATTTATATAAATTTTAATT
1 ATAATA-TT-TATAAATTTTAATT
883772 ATA
1 ATA
883775 TTTAAAATTA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
23 6 0.25
24 6 0.25
25 12 0.50
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (22 bp):
ATAATATTTATAAATTTTAATT
Found at i:884046 original size:24 final size:24
Alignment explanation
Indices: 884019--884107 Score: 115
Period size: 24 Copynumber: 3.7 Consensus size: 24
884009 CATAGGTTTC
* * *
884019 GTTCGTTCATTTACGTTCGGTTAT
1 GTTCGTTCAGTTATGTTCGTTTAT
*
884043 GTTCGTTCGGTTATGTTCGTTTAT
1 GTTCGTTCAGTTATGTTCGTTTAT
*
884067 GTTCGTTCGGTTATGTTCGTTTAT
1 GTTCGTTCAGTTATGTTCGTTTAT
* *
884091 GTTCATTCATTTATGTT
1 GTTCGTTCAGTTATGTT
884108 TAACTCAATC
Statistics
Matches: 58, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 58 1.00
ACGTcount: A:0.11, C:0.13, G:0.21, T:0.54
Consensus pattern (24 bp):
GTTCGTTCAGTTATGTTCGTTTAT
Found at i:884049 original size:14 final size:14
Alignment explanation
Indices: 884032--884087 Score: 84
Period size: 14 Copynumber: 4.3 Consensus size: 14
884022 CGTTCATTTA
884032 CGTTCGGTTATGTT
1 CGTTCGGTTATGTT
884046 CGTTCGGTTATGTT
1 CGTTCGGTTATGTT
884060 CG-T---TTATGTT
1 CGTTCGGTTATGTT
884070 CGTTCGGTTATGTT
1 CGTTCGGTTATGTT
884084 CGTT
1 CGTT
884088 TATGTTCATT
Statistics
Matches: 38, Mismatches: 0, Indels: 8
0.83 0.00 0.17
Matches are distributed among these distances:
10 9 0.24
11 1 0.03
13 1 0.03
14 27 0.71
ACGTcount: A:0.07, C:0.14, G:0.27, T:0.52
Consensus pattern (14 bp):
CGTTCGGTTATGTT
Found at i:885211 original size:16 final size:16
Alignment explanation
Indices: 885190--885256 Score: 102
Period size: 16 Copynumber: 4.3 Consensus size: 16
885180 GTCTCCAACG
885190 TTTATGTTCGTGTTCA
1 TTTATGTTCGTGTTCA
*
885206 TTTATGTTCGTGTTCG
1 TTTATGTTCGTGTTCA
*
885222 TTTATGTTCGTGTTCG
1 TTTATGTTCGTGTTCA
885238 TTTATGTTCGT-TT-A
1 TTTATGTTCGTGTTCA
885252 TTTAT
1 TTTAT
885257 TAAATGAACG
Statistics
Matches: 49, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
14 5 0.10
15 2 0.04
16 42 0.86
ACGTcount: A:0.10, C:0.10, G:0.19, T:0.60
Consensus pattern (16 bp):
TTTATGTTCGTGTTCA
Found at i:885229 original size:32 final size:32
Alignment explanation
Indices: 885188--885248 Score: 113
Period size: 32 Copynumber: 1.9 Consensus size: 32
885178 GGGTCTCCAA
885188 CGTTTATGTTCGTGTTCATTTATGTTCGTGTT
1 CGTTTATGTTCGTGTTCATTTATGTTCGTGTT
*
885220 CGTTTATGTTCGTGTTCGTTTATGTTCGT
1 CGTTTATGTTCGTGTTCATTTATGTTCGT
885249 TTATTTATTA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 28 1.00
ACGTcount: A:0.08, C:0.13, G:0.23, T:0.56
Consensus pattern (32 bp):
CGTTTATGTTCGTGTTCATTTATGTTCGTGTT
Found at i:898963 original size:18 final size:18
Alignment explanation
Indices: 898940--898995 Score: 50
Period size: 18 Copynumber: 3.4 Consensus size: 18
898930 GTTTTGTAAC
898940 TGAAATAGTACTATAAAT
1 TGAAATAGTACTATAAAT
** *
898958 TGAAAT--T--TGCAACT
1 TGAAATAGTACTATAAAT
898972 -GAAATAGTACTATAAAT
1 TGAAATAGTACTATAAAT
898989 TGAAATA
1 TGAAATA
898996 TGCCACAAAC
Statistics
Matches: 27, Mismatches: 6, Indels: 10
0.63 0.14 0.23
Matches are distributed among these distances:
13 5 0.19
14 4 0.15
15 1 0.04
16 1 0.04
17 4 0.15
18 12 0.44
ACGTcount: A:0.48, C:0.07, G:0.12, T:0.32
Consensus pattern (18 bp):
TGAAATAGTACTATAAAT
Found at i:898973 original size:31 final size:31
Alignment explanation
Indices: 898932--898994 Score: 117
Period size: 31 Copynumber: 2.0 Consensus size: 31
898922 CTGTTTTTGT
*
898932 TTTGTAACTGAAATAGTACTATAAATTGAAA
1 TTTGCAACTGAAATAGTACTATAAATTGAAA
898963 TTTGCAACTGAAATAGTACTATAAATTGAAA
1 TTTGCAACTGAAATAGTACTATAAATTGAAA
898994 T
1 T
898995 ATGCCACAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.44, C:0.08, G:0.13, T:0.35
Consensus pattern (31 bp):
TTTGCAACTGAAATAGTACTATAAATTGAAA
Found at i:899707 original size:14 final size:14
Alignment explanation
Indices: 899688--899719 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
899678 ACGGTGGACG
899688 TTGTTCTGAACTTC
1 TTGTTCTGAACTTC
*
899702 TTGTTCTGAACTTG
1 TTGTTCTGAACTTC
899716 TTGT
1 TTGT
899720 GTTTGGTGAT
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:0.12, C:0.16, G:0.19, T:0.53
Consensus pattern (14 bp):
TTGTTCTGAACTTC
Found at i:903503 original size:18 final size:19
Alignment explanation
Indices: 903469--903504 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
903459 AAGATTAATT
*
903469 TTTAGTTCAACATATGAAC
1 TTTAGTTCAAAATATGAAC
903488 TTTAGTT-AAAATATGAA
1 TTTAGTTCAAAATATGAA
903505 TGTAATATAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 9 0.56
19 7 0.44
ACGTcount: A:0.42, C:0.08, G:0.11, T:0.39
Consensus pattern (19 bp):
TTTAGTTCAAAATATGAAC
Found at i:909594 original size:13 final size:13
Alignment explanation
Indices: 909576--909601 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
909566 ACAGACGCGC
909576 ATATGAAGACTAT
1 ATATGAAGACTAT
909589 ATATGAAGACTAT
1 ATATGAAGACTAT
909602 TCAAATTATG
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:0.08, G:0.15, T:0.31
Consensus pattern (13 bp):
ATATGAAGACTAT
Found at i:909662 original size:7 final size:6
Alignment explanation
Indices: 909636--909668 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
909626 ATACAATGCA
*
909636 TTTTA- TTTTAT TTTTAT TTTTAT TTTTAA TTTT
1 TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTT
909669 CTGACTGTCG
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
5 5 0.19
6 21 0.81
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (6 bp):
TTTTAT
Found at i:914205 original size:18 final size:20
Alignment explanation
Indices: 914165--914205 Score: 50
Period size: 18 Copynumber: 2.1 Consensus size: 20
914155 AAGAAAAGTA
*
914165 TTATAATTTGAGCACTTAAT
1 TTATAATTTAAGCACTTAAT
*
914185 TTATAA-TTAAGC-CTTATT
1 TTATAATTTAAGCACTTAAT
914203 TTA
1 TTA
914206 ACGTCACTGA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
18 8 0.42
19 5 0.26
20 6 0.32
ACGTcount: A:0.34, C:0.10, G:0.07, T:0.49
Consensus pattern (20 bp):
TTATAATTTAAGCACTTAAT
Found at i:915043 original size:23 final size:22
Alignment explanation
Indices: 914995--915068 Score: 78
Period size: 23 Copynumber: 3.3 Consensus size: 22
914985 AGAATAATTA
* *
914995 TGTCTTTGTGACATG-TTTCTC
1 TGTCTTTATGACACGTTTTCTC
915016 TGTCTTTATGACACGTTTATCTC
1 TGTCTTTATGACACGTTT-TCTC
* **
915039 AGTCTTTATGGTACGTTTTTCTC
1 TGTCTTTATGACACG-TTTTCTC
915062 TGTCTTT
1 TGTCTTT
915069 TGATAGTTTA
Statistics
Matches: 44, Mismatches: 6, Indels: 4
0.81 0.11 0.07
Matches are distributed among these distances:
21 13 0.30
22 2 0.05
23 26 0.59
24 3 0.07
ACGTcount: A:0.12, C:0.19, G:0.16, T:0.53
Consensus pattern (22 bp):
TGTCTTTATGACACGTTTTCTC
Found at i:918108 original size:38 final size:36
Alignment explanation
Indices: 918035--918109 Score: 98
Period size: 36 Copynumber: 2.0 Consensus size: 36
918025 GTTGAAAAAT
* *
918035 ATTTATATATTTTTTTTAAAAATTTAAATTCATAAA
1 ATTTATATATTTTTTTTAAAAATTGAAAATCATAAA
918071 ATTTATATATATTTTTTTAACAAAATTGAAAAT-ATAAA
1 ATTTATATAT-TTTTTTT-A-AAAATTGAAAATCATAAA
918109 A
1 A
918110 ATGTTTAATG
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
36 10 0.29
37 7 0.21
38 7 0.21
39 10 0.29
ACGTcount: A:0.48, C:0.03, G:0.01, T:0.48
Consensus pattern (36 bp):
ATTTATATATTTTTTTTAAAAATTGAAAATCATAAA
Found at i:918947 original size:20 final size:20
Alignment explanation
Indices: 918922--918959 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
918912 ATCCTATTCT
*
918922 CTGATAATCTTTTATTCCCA
1 CTGATAATCTTATATTCCCA
918942 CTGATAATCTTATATTCC
1 CTGATAATCTTATATTCC
918960 ATAACCAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.26, C:0.24, G:0.05, T:0.45
Consensus pattern (20 bp):
CTGATAATCTTATATTCCCA
Found at i:919229 original size:20 final size:18
Alignment explanation
Indices: 919192--919230 Score: 51
Period size: 20 Copynumber: 2.1 Consensus size: 18
919182 AAATTTTTTG
919192 TATTTTTTATTGATAATT
1 TATTTTTTATTGATAATT
*
919210 TATTTTTGTATCTTATAATT
1 TATTTTT-TAT-TGATAATT
919230 T
1 T
919231 TAGAAGTTCG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 7 0.39
19 3 0.17
20 8 0.44
ACGTcount: A:0.26, C:0.03, G:0.05, T:0.67
Consensus pattern (18 bp):
TATTTTTTATTGATAATT
Found at i:919361 original size:32 final size:32
Alignment explanation
Indices: 919320--919383 Score: 101
Period size: 32 Copynumber: 2.0 Consensus size: 32
919310 CTTATCTAAA
* *
919320 TTTGTACTTCGATAATTTATAATATAGAAGTT
1 TTTGTACTTCAATAATTTATAATATAAAAGTT
*
919352 TTTGTACTTCAATAATTTGTAATATAAAAGTT
1 TTTGTACTTCAATAATTTATAATATAAAAGTT
919384 ATCTTTGAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.36, C:0.06, G:0.11, T:0.47
Consensus pattern (32 bp):
TTTGTACTTCAATAATTTATAATATAAAAGTT
Found at i:919815 original size:2 final size:2
Alignment explanation
Indices: 919808--919886 Score: 158
Period size: 2 Copynumber: 39.5 Consensus size: 2
919798 TTAAAGTATC
919808 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
919850 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 T
919887 GTTTATCATA
Statistics
Matches: 77, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 77 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:932844 original size:3 final size:3
Alignment explanation
Indices: 932838--932905 Score: 127
Period size: 3 Copynumber: 22.7 Consensus size: 3
932828 TTTTTACCCA
932838 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
*
932886 CAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TA
932906 AATATATATT
Statistics
Matches: 63, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
3 63 1.00
ACGTcount: A:0.34, C:0.01, G:0.00, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:945749 original size:13 final size:12
Alignment explanation
Indices: 945731--945782 Score: 59
Period size: 13 Copynumber: 4.2 Consensus size: 12
945721 ATTATGCTTG
945731 AAGAAAAAAGGAA
1 AAGAAAAAA-GAA
*
945744 AAGAAAAAAAAA
1 AAGAAAAAAGAA
*
945756 GAAAAAAAAAGAA
1 -AAGAAAAAAGAA
*
945769 GAGAAAAAAGAA
1 AAGAAAAAAGAA
945781 AA
1 AA
945783 AAGGGGGGTC
Statistics
Matches: 32, Mismatches: 6, Indels: 3
0.78 0.15 0.07
Matches are distributed among these distances:
12 13 0.41
13 19 0.59
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (12 bp):
AAGAAAAAAGAA
Found at i:945754 original size:15 final size:14
Alignment explanation
Indices: 945734--945786 Score: 61
Period size: 15 Copynumber: 3.6 Consensus size: 14
945724 ATGCTTGAAG
945734 AAAAAAGGAAAAGAA
1 AAAAAAGGAAAA-AA
*
945749 AAAAAAAGAAAAAA
1 AAAAAAGGAAAAAA
*
945763 AAAGAAGAGAAAAAA
1 AAAAAAG-GAAAAAA
945778 GAAAAAAGG
1 -AAAAAAGG
945787 GGGGTCAAGG
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
14 7 0.22
15 19 0.59
16 6 0.19
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (14 bp):
AAAAAAGGAAAAAA
Found at i:945757 original size:10 final size:10
Alignment explanation
Indices: 945742--945784 Score: 68
Period size: 10 Copynumber: 4.1 Consensus size: 10
945732 AGAAAAAAGG
945742 AAAAGAAAAA
1 AAAAGAAAAA
945752 AAAAGAAAAA
1 AAAAGAAAAA
945762 AAAAGAAGAGAA
1 AAAAGAA-A-AA
945774 AAAAGAAAAA
1 AAAAGAAAAA
945784 A
1 A
945785 GGGGGGTCAA
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
10 20 0.65
11 2 0.06
12 9 0.29
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (10 bp):
AAAAGAAAAA
Found at i:945757 original size:23 final size:25
Alignment explanation
Indices: 945731--945786 Score: 77
Period size: 22 Copynumber: 2.4 Consensus size: 25
945721 ATTATGCTTG
945731 AAGAAAAAAGGAAAAGAA-A-AAAA
1 AAGAAAAAAGGAAAAGAAGAGAAAA
945754 AAG-AAAAA--AAAAGAAGAGAAAA
1 AAGAAAAAAGGAAAAGAAGAGAAAA
945776 AAGAAAAAAGG
1 AAGAAAAAAGG
945787 GGGGTCAAGG
Statistics
Matches: 28, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
20 7 0.25
21 1 0.04
22 12 0.43
23 8 0.29
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (25 bp):
AAGAAAAAAGGAAAAGAAGAGAAAA
Found at i:947017 original size:83 final size:83
Alignment explanation
Indices: 946878--947045 Score: 300
Period size: 83 Copynumber: 2.0 Consensus size: 83
946868 AACATTAACT
* * *
946878 GGAAGATGAATTTGCCAATAGCATCTTTTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCA
1 GGAAGATGAATGTGCCAATAGCATCTTCTGGAAGTATTCTTTGAGTTATCTGATCTGGTTTGGCA
946943 GAACCAATCATTGAATTG
66 GAACCAATCATTGAATTG
*
946961 GGAAGATGAATGTGCTAATAGCATCTTCTGGAAGTATTCTTTGAGTTATCTGATCTGGTTTGGCA
1 GGAAGATGAATGTGCCAATAGCATCTTCTGGAAGTATTCTTTGAGTTATCTGATCTGGTTTGGCA
947026 GAACCAATCATTGAATTG
66 GAACCAATCATTGAATTG
947044 GG
1 GG
947046 CTGGAAGTGT
Statistics
Matches: 81, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
83 81 1.00
ACGTcount: A:0.27, C:0.13, G:0.25, T:0.35
Consensus pattern (83 bp):
GGAAGATGAATGTGCCAATAGCATCTTCTGGAAGTATTCTTTGAGTTATCTGATCTGGTTTGGCA
GAACCAATCATTGAATTG
Found at i:947078 original size:58 final size:58
Alignment explanation
Indices: 946988--947100 Score: 192
Period size: 58 Copynumber: 1.9 Consensus size: 58
946978 ATAGCATCTT
*
946988 CTGGAAGTATTCTTTGAGTTATCTGATCTGGTTTG-GCAGAACCAATCATTGAATTGGG
1 CTGGAAGTATTCTTTGAGTTATCTGATCTGG-TTGAACAGAACCAATCATTGAATTGGG
*
947046 CTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGAACAGAACCAATCATTGAATT
1 CTGGAAGTATTCTTTGAGTTATCTGATCTGGTTGAACAGAACCAATCATTGAATT
947101 TAAAAGATGA
Statistics
Matches: 52, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
57 3 0.06
58 49 0.94
ACGTcount: A:0.26, C:0.14, G:0.24, T:0.36
Consensus pattern (58 bp):
CTGGAAGTATTCTTTGAGTTATCTGATCTGGTTGAACAGAACCAATCATTGAATTGGG
Found at i:947160 original size:141 final size:141
Alignment explanation
Indices: 946906--947183 Score: 461
Period size: 141 Copynumber: 2.0 Consensus size: 141
946896 TAGCATCTTT
* **
946906 TGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAGAACCAATCATTGAATTGGGAAGATGAA
1 TGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGACAGAACCAATCATTGAATTGAAAAGATGAA
*
946971 TGTGCTAATAGCATCTTCTGGAAGTATTCTTTGAGTTATCTGATCTGGTTTG-GCAGAACCAATC
66 TGTGCTAATAGCATCTTCTGGAAGTATTCTTTGAGTTATCTGATCTGG-TTGAACAGAACCAATC
947035 ATTGAATTGGGC
130 ATTGAATTGGGC
*
947047 TGGAAGTGTTCTTTGAGTTATCTGATCTGG-TTGAACAGAACCAATCATTGAATTTAAAAGATGA
1 TGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTG-ACAGAACCAATCATTGAATTGAAAAGATGA
* *
947111 ATTTGCTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGAACAGAACCAATC
65 ATGTGCTAATAGCATCTTCTGGAAGTATTCTTTGAGTTATCTGATCTGGTTGAACAGAACCAATC
947176 ATTGAATT
130 ATTGAATT
947184 TAAAAGATGA
Statistics
Matches: 128, Mismatches: 7, Indels: 4
0.92 0.05 0.03
Matches are distributed among these distances:
140 6 0.05
141 122 0.95
ACGTcount: A:0.28, C:0.13, G:0.23, T:0.36
Consensus pattern (141 bp):
TGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGACAGAACCAATCATTGAATTGAAAAGATGAA
TGTGCTAATAGCATCTTCTGGAAGTATTCTTTGAGTTATCTGATCTGGTTGAACAGAACCAATCA
TTGAATTGGGC
Found at i:947185 original size:83 final size:83
Alignment explanation
Indices: 947046--947277 Score: 439
Period size: 83 Copynumber: 2.8 Consensus size: 83
947036 TTGAATTGGG
947046 CTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGAACAGAACCAATCATTGAATTTAAAAGATGA
1 CTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGAACAGAACCAATCATTGAATTTAAAAGATGA
*
947111 ATTTGCTAATAGCATCTT
66 ATTTGCCAATAGCATCTT
947129 CTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGAACAGAACCAATCATTGAATTTAAAAGATGA
1 CTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGAACAGAACCAATCATTGAATTTAAAAGATGA
947194 ATTTGCCAATAGCATCTT
66 ATTTGCCAATAGCATCTT
947212 CTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGAACAGAACCAATCATTGGAA-TTAAAAGATG
1 CTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGAACAGAACCAATCATT-GAATTTAAAAGATG
947276 AA
65 AA
947278 CTGCATGATC
Statistics
Matches: 147, Mismatches: 1, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
83 144 0.98
84 3 0.02
ACGTcount: A:0.32, C:0.13, G:0.20, T:0.34
Consensus pattern (83 bp):
CTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGAACAGAACCAATCATTGAATTTAAAAGATGA
ATTTGCCAATAGCATCTT
Found at i:948169 original size:113 final size:112
Alignment explanation
Indices: 947965--948968 Score: 1565
Period size: 113 Copynumber: 8.9 Consensus size: 112
947955 AGCAAAGATT
*
947965 TAAATTCATCAATTGATGGATCAGCTTTTCCAGAGCAAGTTCATAATGAGAAGAACTCATCTGAA
1 TAAATTCATCAATTGATGGATCAG-TTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAA
* *
948030 GAAGGAAGAAGAAGTTCATAATGAGAAGAGCTTGTTCAACCTTTTGC-
65 GAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTACA
* *
948077 TCAAATCCATCATTTGATGGATCAGTATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGA
1 T-AAATTCATCAATTGATGGATCAGT-TTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGA
948142 AGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTACA
64 AGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTACA
*
948191 TGAATTCATCAATTGATGGATCAGCTTTTCCAGAGAAAG-TCATAATGAGAAGAACTCATCTGAA
1 TAAATTCATCAATTGATGGATCAG-TTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAA
* *
948255 GAAGGAAGAAGAAGTTCATAATGAGAAGAGCTTGTTCAACCTTTTGC-
65 GAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTACA
* *
948302 TCAAATCCATCATTTGATGGATCAGTATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGA
1 T-AAATTCATCAATTGATGGATCAGT-TTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGA
948367 AGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTACA
64 AGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTACA
*
948416 TGAATTCATCAATTGATGGATCAGTATTTCCAGAG-AAGTTCATAATGAGAAGAACTCATCTGAA
1 TAAATTCATCAATTGATGGATCAGT-TTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAA
* *
948480 GAAGGAAGAAGAAGTTCATAATGAGAAGAGCTTGTTCAACCTTTTGC-
65 GAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTACA
* * *
948527 TCAAATCCATCATTTGATGGATCAACTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGA
1 T-AAATTCATCAATTGATGGATC-AGTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGA
948592 AGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTACA
64 AGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTACA
*
948641 TGAATTCATCAATTGATGGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAA
1 TAAATTCATCAATTGATGGATCAG-TTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAA
* *
948706 TAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACA
65 GAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTACA
* *
948754 TGAATTCATCAATTGATGGATCAGTATTTCCAGAG-AAGTTCATAATGAGAATAACTCATCTGAA
1 TAAATTCATCAATTGATGGATCAGT-TTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAA
* * * *
948818 GAAGGAAGAAGAAATTCACAATGAGAAGAATTTGTTCAACCTTTTGC-
65 GAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTACA
* * *
948865 TCAAATCCATCACTTGATGGATCAGCTTTTCCAGAG-AAGTTCATAATGAGAAGAACTCATTTGA
1 T-AAATTCATCAATTGATGGATCAG-TTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGA
* *
948929 AGAAGAAAGAAGAAGTTCATAATAAGAAGAACTTGTTCAA
64 AGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAA
948969 TAATTCTATC
Statistics
Matches: 829, Mismatches: 47, Indels: 32
0.91 0.05 0.04
Matches are distributed among these distances:
111 4 0.00
112 369 0.45
113 452 0.55
114 4 0.00
ACGTcount: A:0.39, C:0.14, G:0.19, T:0.28
Consensus pattern (112 bp):
TAAATTCATCAATTGATGGATCAGTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAG
AAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTACA
Found at i:948359 original size:225 final size:225
Alignment explanation
Indices: 947967--948968 Score: 1719
Period size: 225 Copynumber: 4.4 Consensus size: 225
947957 CAAAGATTTA
947967 AATTCATCAATTGATGGATCAGCTTTTCCAGAGCAAGTTCATAATGAGAAGAACTCATCTGAAGA
1 AATTCATCAATTGATGGATCAGCTTTTCCAGAG-AAGTTCATAATGAGAAGAACTCATCTGAAGA
948032 AGGAAGAAGAAGTTCATAATGAGAAGAGCTTGTTCAACCTTTTGCTCAAATCCATCATTTGATGG
65 AGGAAGAAGAAGTTCATAATGAGAAGAGCTTGTTCAACCTTTTGCTCAAATCCATCATTTGATGG
948097 ATCAGTATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCAT
130 ATCAGTATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCAT
948162 AATGAGAAGAACTTGTTCAACCTTTTACATG
195 AATGAGAAGAACTTGTTCAACCTTTTACATG
948193 AATTCATCAATTGATGGATCAGCTTTTCCAGAGAAAG-TCATAATGAGAAGAACTCATCTGAAGA
1 AATTCATCAATTGATGGATCAGCTTTTCCAGAG-AAGTTCATAATGAGAAGAACTCATCTGAAGA
948257 AGGAAGAAGAAGTTCATAATGAGAAGAGCTTGTTCAACCTTTTGCTCAAATCCATCATTTGATGG
65 AGGAAGAAGAAGTTCATAATGAGAAGAGCTTGTTCAACCTTTTGCTCAAATCCATCATTTGATGG
948322 ATCAGTATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCAT
130 ATCAGTATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCAT
948387 AATGAGAAGAACTTGTTCAACCTTTTACATG
195 AATGAGAAGAACTTGTTCAACCTTTTACATG
948418 AATTCATCAATTGATGGATCAG-TATTTCCAGAGAAGTTCATAATGAGAAGAACTCATCTGAAGA
1 AATTCATCAATTGATGGATCAGCT-TTTCCAGAGAAGTTCATAATGAGAAGAACTCATCTGAAGA
948482 AGGAAGAAGAAGTTCATAATGAGAAGAGCTTGTTCAACCTTTTGCTCAAATCCATCATTTGATGG
65 AGGAAGAAGAAGTTCATAATGAGAAGAGCTTGTTCAACCTTTTGCTCAAATCCATCATTTGATGG
*
948547 ATCAACT-TTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCA
130 ATC-AGTATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCA
948611 TAATGAGAAGAACTTGTTCAACCTTTTACATG
194 TAATGAGAAGAACTTGTTCAACCTTTTACATG
*
948643 AATTCATCAATTGATGGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAATA
1 AATTCATCAATTGATGGATCAGCTTTTCCAGAG-AAGTTCATAATGAGAAGAACTCATCTGAAGA
** * * * *
948708 AGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACAT-GAATTCATCAATTGATG
65 AGGAAGAAGAAGTTCATAATGAGAAGAGCTTGTTCAACCTTTTGC-TCAAATCCATCATTTGATG
* *
948772 GATCAGTATTTCCAGAG-AAGTTCATAATGAGAATAACTCATCTGAAGAAGGAAGAAGAAATTCA
129 GATCAGTATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCA
* * * *
948836 CAATGAGAAGAATTTGTTCAACCTTTTGC-TCA
194 TAATGAGAAGAACTTGTTCAACCTTTTACAT-G
* * *
948868 AATCCATCACTTGATGGATCAGCTTTTCCAGAGAAGTTCATAATGAGAAGAACTCATTTGAAGAA
1 AATTCATCAATTGATGGATCAGCTTTTCCAGAGAAGTTCATAATGAGAAGAACTCATCTGAAGAA
* * *
948933 GAAAGAAGAAGTTCATAATAAGAAGAACTTGTTCAA
66 GGAAGAAGAAGTTCATAATGAGAAGAGCTTGTTCAA
948969 TAATTCTATC
Statistics
Matches: 745, Mismatches: 23, Indels: 18
0.95 0.03 0.02
Matches are distributed among these distances:
224 68 0.09
225 538 0.72
226 138 0.19
227 1 0.00
ACGTcount: A:0.39, C:0.14, G:0.19, T:0.28
Consensus pattern (225 bp):
AATTCATCAATTGATGGATCAGCTTTTCCAGAGAAGTTCATAATGAGAAGAACTCATCTGAAGAA
GGAAGAAGAAGTTCATAATGAGAAGAGCTTGTTCAACCTTTTGCTCAAATCCATCATTTGATGGA
TCAGTATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATA
ATGAGAAGAACTTGTTCAACCTTTTACATG
Found at i:948593 original size:338 final size:338
Alignment explanation
Indices: 947965--948968 Score: 1678
Period size: 338 Copynumber: 3.0 Consensus size: 338
947955 AGCAAAGATT
*
947965 TAAATTCATCAATTGATGGATCAGCTTTTCCAGAGCAAGTTCATAATGAGAAGAACTCATCTGAA
1 TAAATTCATCAATTGATGGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAA
* * * * *
948030 GAAGGAAGAAGAAGTTCATAATGAGAAGAGCTTGTTCAACCTTTTGC-TCAAATCCATCATTTGA
66 GAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTACAT-GAATTCATCAATTGA
948094 TGGATCAGTATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTT
130 TGGATCAGTATTTCCAGAG-AAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTT
* * *
948159 CATAATGAGAAGAACTTGTTCAACCTTTTACAT-GAATTCATCAATTGATGGATCAGCTTTTCCA
194 CATAATGAGAAGAACTTGTTCAACCTTTTGC-TCAAATCCATCAATTGATGGATCAGCTTTTCCA
*
948223 GAGAAAG-TCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAGCT
258 GAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACT
*
948287 TGTTCAACCTTTTGC-
323 TGTTCAACCTTTTACA
* *
948302 TCAAATCCATCATTTGATGGATCAG-TATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTG
1 T-AAATTCATCAATTGATGGATCAGCT-TTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTG
948366 AAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTACATGAATTCATCAATTG
64 AAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTACATGAATTCATCAATTG
948431 ATGGATCAGTATTTCCAGAGAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTT
129 ATGGATCAGTATTTCCAGAGAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTT
* * *
948496 CATAATGAGAAGAGCTTGTTCAACCTTTTGCTCAAATCCATCATTTGATGGATCAACTTTTCCAG
194 CATAATGAGAAGAACTTGTTCAACCTTTTGCTCAAATCCATCAATTGATGGATCAGCTTTTCCAG
948561 AGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTT
259 AGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTT
948626 GTTCAACCTTTTACA
324 GTTCAACCTTTTACA
*
948641 TGAATTCATCAATTGATGGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAA
1 TAAATTCATCAATTGATGGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAA
* *
948706 TAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACATGAATTCATCAATTGAT
66 GAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTACATGAATTCATCAATTGAT
* *
948771 GGATCAGTATTTCCAGAGAAGTTCATAATGAGAATAACTCATCTGAAGAAGGAAGAAGAAATTCA
131 GGATCAGTATTTCCAGAGAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCA
* * *
948836 CAATGAGAAGAATTTGTTCAACCTTTTGCTCAAATCCATCACTTGATGGATCAGCTTTTCCAGAG
196 TAATGAGAAGAACTTGTTCAACCTTTTGCTCAAATCCATCAATTGATGGATCAGCTTTTCCAGAG
* * *
948901 -AAGTTCATAATGAGAAGAACTCATTTGAAGAAGAAAGAAGAAGTTCATAATAAGAAGAACTTGT
261 AAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGT
948965 TCAA
326 TCAA
948969 TAATTCTATC
Statistics
Matches: 629, Mismatches: 31, Indels: 14
0.93 0.05 0.02
Matches are distributed among these distances:
336 1 0.00
337 175 0.28
338 450 0.72
339 3 0.00
ACGTcount: A:0.39, C:0.14, G:0.19, T:0.28
Consensus pattern (338 bp):
TAAATTCATCAATTGATGGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAA
GAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTACATGAATTCATCAATTGAT
GGATCAGTATTTCCAGAGAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCA
TAATGAGAAGAACTTGTTCAACCTTTTGCTCAAATCCATCAATTGATGGATCAGCTTTTCCAGAG
AAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGT
TCAACCTTTTACA
Found at i:949292 original size:3 final size:3
Alignment explanation
Indices: 949286--949380 Score: 172
Period size: 3 Copynumber: 31.7 Consensus size: 3
949276 TTTTTACCCA
*
949286 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT CAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
*
949334 TAT TAT TAT TAT TAT TAT TAT TAT TAT CAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
949381 AATATATATT
Statistics
Matches: 88, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 88 1.00
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (3 bp):
TAT
Found at i:953203 original size:24 final size:24
Alignment explanation
Indices: 953161--953230 Score: 68
Period size: 24 Copynumber: 2.8 Consensus size: 24
953151 TTTTAAATTC
* *
953161 AGTTAATACCAAAATATATTTAATA
1 AGTTAATA-TAAAAAATATTTAATA
* **
953186 ATTTAATATAAAAAATATTTTTTA
1 AGTTAATATAAAAAATATTTAATA
953210 AGTTAATATATATAAAATATT
1 AGTTAATATA-A-AAAATATT
953231 ATGAATTTAA
Statistics
Matches: 37, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
24 21 0.57
25 8 0.22
26 8 0.22
ACGTcount: A:0.51, C:0.03, G:0.03, T:0.43
Consensus pattern (24 bp):
AGTTAATATAAAAAATATTTAATA
Found at i:957192 original size:19 final size:19
Alignment explanation
Indices: 957164--957214 Score: 57
Period size: 20 Copynumber: 2.6 Consensus size: 19
957154 ACCAACAAAA
* *
957164 TCGCAATGCGATCTCTAAT
1 TCGCATTGCGATCTCCAAT
* *
957183 TCGCATTGCGATTTTCCATT
1 TCGCATTGCGA-TCTCCAAT
957203 TCGCATTGCGAT
1 TCGCATTGCGAT
957215 AGTCTACAGT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
19 11 0.41
20 16 0.59
ACGTcount: A:0.20, C:0.25, G:0.18, T:0.37
Consensus pattern (19 bp):
TCGCATTGCGATCTCCAAT
Found at i:957363 original size:6 final size:6
Alignment explanation
Indices: 957307--957360 Score: 81
Period size: 6 Copynumber: 9.0 Consensus size: 6
957297 GACACGTATT
* *
957307 TCCACG TCCACG TCCACG TCCACG TCCACG TCCACG ACCACG ACCACG
1 TCCACG TCCACG TCCACG TCCACG TCCACG TCCACG TCCACG TCCACG
*
957355 ACCACG
1 TCCACG
957361 ACCCGAGACG
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
6 47 1.00
ACGTcount: A:0.22, C:0.50, G:0.17, T:0.11
Consensus pattern (6 bp):
TCCACG
Found at i:958017 original size:22 final size:22
Alignment explanation
Indices: 957991--958134 Score: 131
Period size: 22 Copynumber: 6.7 Consensus size: 22
957981 AATTTGGAAA
*
957991 ATCGCAACGATAACTGTAGACT
1 ATCGCAACGACAACTGTAGACT
**
958013 ATCGCAACG-CGAACTG--GAAA
1 ATCGCAACGAC-AACTGTAGACT
* **
958033 ATCGCAACG-CGAAATG--GAAA
1 ATCGCAACGAC-AACTGTAGACT
*
958053 ATCGCAACGACAACTATAGACT
1 ATCGCAACGACAACTGTAGACT
* *
958075 TTCGCAACAACAACTGTAGACT
1 ATCGCAACGACAACTGTAGACT
958097 ATCGCAACGACAACTGTAGACT
1 ATCGCAACGACAACTGTAGACT
958119 ATCGCAAC-ACGAACTG
1 ATCGCAACGAC-AACTG
958135 GAAAATCGCA
Statistics
Matches: 104, Mismatches: 13, Indels: 10
0.82 0.10 0.08
Matches are distributed among these distances:
20 33 0.32
21 3 0.03
22 68 0.65
ACGTcount: A:0.39, C:0.26, G:0.19, T:0.17
Consensus pattern (22 bp):
ATCGCAACGACAACTGTAGACT
Found at i:958038 original size:20 final size:20
Alignment explanation
Indices: 957985--958210 Score: 116
Period size: 20 Copynumber: 10.8 Consensus size: 20
957975 ATAACGAATT
**
957985 TGGAAAATCGCAACGATAAC
1 TGGAAAATCGCAACGCGAAC
**
958005 TGTAGACTATCGCAACGCGAAC
1 TG--GAAAATCGCAACGCGAAC
*
958027 TGGAAAATCGCAACGCGAAA
1 TGGAAAATCGCAACGCGAAC
958047 TGGAAAATCGCAACGAC-AAC
1 TGGAAAATCGCAACG-CGAAC
* *** *
958067 TATAGACTTTCGCAACAAC-AAC
1 --TGGAAAATCGCAAC-GCGAAC
**
958089 TGTAGACTATCGCAACGAC-AAC
1 TG--GAAAATCGCAACG-CGAAC
** *
958111 TGTAGACTATCGCAACACGAAC
1 TG--GAAAATCGCAACGCGAAC
*
958133 TGGAAAATCGCAACGCGAAA
1 TGGAAAATCGCAACGCGAAC
* **
958153 TGAAAAATCGCAACGCGATT
1 TGGAAAATCGCAACGCGAAC
** * *
958173 TTCAACTATCGCAACGCGAAA
1 TGGAA-AATCGCAACGCGAAC
958194 TGGAAAATCGCAACGCG
1 TGGAAAATCGCAACGCG
958211 GTTTTCAACT
Statistics
Matches: 163, Mismatches: 32, Indels: 22
0.75 0.15 0.10
Matches are distributed among these distances:
20 80 0.49
21 17 0.10
22 66 0.40
ACGTcount: A:0.40, C:0.24, G:0.20, T:0.16
Consensus pattern (20 bp):
TGGAAAATCGCAACGCGAAC
Found at i:958185 original size:21 final size:21
Alignment explanation
Indices: 958159--958253 Score: 120
Period size: 21 Copynumber: 4.6 Consensus size: 21
958149 GAAATGAAAA
958159 ATCGCAACGCGATTTTCAACT
1 ATCGCAACGCGATTTTCAACT
** ** *
958180 ATCGCAACGCGAAATGGAA-A
1 ATCGCAACGCGATTTTCAACT
*
958200 ATCGCAACGCGGTTTTCAACT
1 ATCGCAACGCGATTTTCAACT
*
958221 ATCGCAACGCGATTTTCAATT
1 ATCGCAACGCGATTTTCAACT
958242 ATCGCAACGCGA
1 ATCGCAACGCGA
958254 AATGCAACGC
Statistics
Matches: 60, Mismatches: 13, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
20 14 0.23
21 46 0.77
ACGTcount: A:0.32, C:0.26, G:0.19, T:0.23
Consensus pattern (21 bp):
ATCGCAACGCGATTTTCAACT
Found at i:958187 original size:41 final size:41
Alignment explanation
Indices: 958139--958232 Score: 170
Period size: 41 Copynumber: 2.3 Consensus size: 41
958129 GAACTGGAAA
958139 ATCGCAACGCGAAATGAAAAATCGCAACGCGATTTTCAACT
1 ATCGCAACGCGAAATGAAAAATCGCAACGCGATTTTCAACT
* *
958180 ATCGCAACGCGAAATGGAAAATCGCAACGCGGTTTTCAACT
1 ATCGCAACGCGAAATGAAAAATCGCAACGCGATTTTCAACT
958221 ATCGCAACGCGA
1 ATCGCAACGCGA
958233 TTTTCAATTA
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
41 51 1.00
ACGTcount: A:0.36, C:0.26, G:0.20, T:0.18
Consensus pattern (41 bp):
ATCGCAACGCGAAATGAAAAATCGCAACGCGATTTTCAACT
Found at i:958248 original size:62 final size:61
Alignment explanation
Indices: 958116--958257 Score: 194
Period size: 62 Copynumber: 2.3 Consensus size: 61
958106 ACAACTGTAG
* * *
958116 ACTATCGCAACACGAACTGGAAAATCGCAACGCGAAATGAAAAATCGCAACGCGATTTTCA
1 ACTATCGCAACGCGAAATGGAAAATCGCAACGCGAAATCAAAAATCGCAACGCGATTTTCA
*** **
958177 ACTATCGCAACGCGAAATGGAAAATCGCAACGCGGTTTTCAACTATCGCAACGCGATTTTCA
1 ACTATCGCAACGCGAAATGGAAAATCGCAACGC-GAAATCAAAAATCGCAACGCGATTTTCA
*
958239 ATTATCGCAACGCGAAATG
1 ACTATCGCAACGCGAAATG
958258 CAACGCGAAT
Statistics
Matches: 71, Mismatches: 9, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
61 31 0.44
62 40 0.56
ACGTcount: A:0.37, C:0.25, G:0.19, T:0.20
Consensus pattern (61 bp):
ACTATCGCAACGCGAAATGGAAAATCGCAACGCGAAATCAAAAATCGCAACGCGATTTTCA
Found at i:958634 original size:23 final size:24
Alignment explanation
Indices: 958601--958647 Score: 62
Period size: 23 Copynumber: 2.0 Consensus size: 24
958591 GTTCATGAAC
*
958601 GAGCTCGTTTA-AAGCTT-GTTTAT
1 GAGCTCATTTATAAG-TTCGTTTAT
958624 GAGCTCATTTATAAGTTCGTTTAT
1 GAGCTCATTTATAAGTTCGTTTAT
958648 CGACTTGTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
23 12 0.57
24 9 0.43
ACGTcount: A:0.23, C:0.13, G:0.19, T:0.45
Consensus pattern (24 bp):
GAGCTCATTTATAAGTTCGTTTAT
Found at i:958894 original size:11 final size:11
Alignment explanation
Indices: 958857--958886 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
958847 ATTGAACATA
*
958857 TAAACAAACGC
1 TAAACAAACAC
958868 TAAACAAACAC
1 TAAACAAACAC
958879 TAAACAAA
1 TAAACAAA
958887 TATTAAACGA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.63, C:0.23, G:0.03, T:0.10
Consensus pattern (11 bp):
TAAACAAACAC
Found at i:959520 original size:23 final size:25
Alignment explanation
Indices: 959463--959527 Score: 66
Period size: 23 Copynumber: 2.8 Consensus size: 25
959453 TAATCTCTAC
*
959463 ATGTTCGCGAACATATAAACGAGCT
1 ATGTTCGCGAACATATAAACGAGAT
* * *
959488 -CGTTCACGAACAT-TAAGCGA-AT
1 ATGTTCGCGAACATATAAACGAGAT
959510 ATGTTCGCGAACA-ATAAA
1 ATGTTCGCGAACATATAAA
959528 TAAACGAATA
Statistics
Matches: 31, Mismatches: 7, Indels: 6
0.70 0.16 0.14
Matches are distributed among these distances:
22 1 0.03
23 19 0.61
24 11 0.35
ACGTcount: A:0.38, C:0.20, G:0.18, T:0.23
Consensus pattern (25 bp):
ATGTTCGCGAACATATAAACGAGAT
Found at i:959556 original size:26 final size:25
Alignment explanation
Indices: 959525--959611 Score: 68
Period size: 26 Copynumber: 3.3 Consensus size: 25
959515 CGCGAACAAT
959525 AAATAAACGAATACGAACACCTTCAA
1 AAATAAACGAA-ACGAACACCTTCAA
* * * *
959551 AAATAAA-TAAACGAATACGATACTAA
1 AAATAAACGAAACGAACAC-CTTC-AA
*
959577 AAATTTAAACGAACATGAACACCTTCAA
1 AAA--TAAACGAA-ACGAACACCTTCAA
959605 AAATAAA
1 AAATAAA
959612 TAAACAAATA
Statistics
Matches: 46, Mismatches: 9, Indels: 12
0.69 0.13 0.18
Matches are distributed among these distances:
24 7 0.15
25 4 0.09
26 16 0.35
28 9 0.20
29 4 0.09
30 6 0.13
ACGTcount: A:0.57, C:0.17, G:0.07, T:0.18
Consensus pattern (25 bp):
AAATAAACGAAACGAACACCTTCAA
Found at i:959557 original size:30 final size:30
Alignment explanation
Indices: 959522--959621 Score: 113
Period size: 30 Copynumber: 3.5 Consensus size: 30
959512 GTTCGCGAAC
959522 AATAAATAAACGAATACGAACACCTTCAAA
1 AATAAATAAACGAATACGAACACCTTCAAA
*
959552 AATAAATAAACGAATACG-ATA-C-T-AAA
1 AATAAATAAACGAATACGAACACCTTCAAA
* * *
959578 AAT--TTAAACGAACATGAACACCTTCAAA
1 AATAAATAAACGAATACGAACACCTTCAAA
*
959606 AATAAATAAACAAATA
1 AATAAATAAACGAATA
959622 TAATACTAAA
Statistics
Matches: 56, Mismatches: 8, Indels: 12
0.74 0.11 0.16
Matches are distributed among these distances:
24 10 0.18
25 2 0.04
26 7 0.12
27 2 0.04
28 7 0.12
29 2 0.04
30 26 0.46
ACGTcount: A:0.59, C:0.16, G:0.06, T:0.19
Consensus pattern (30 bp):
AATAAATAAACGAATACGAACACCTTCAAA
Found at i:959597 original size:54 final size:54
Alignment explanation
Indices: 959528--959649 Score: 199
Period size: 54 Copynumber: 2.3 Consensus size: 54
959518 GAACAATAAA
* * * *
959528 TAAACGAATACGAACACCTTCAAAAATAAATAAACGAATACGATACTAAAAATT
1 TAAACGAACATGAACACCTTCAAAAATAAATAAACAAATACAATACTAAAAATT
*
959582 TAAACGAACATGAACACCTTCAAAAATAAATAAACAAATATAATACTAAAAATT
1 TAAACGAACATGAACACCTTCAAAAATAAATAAACAAATACAATACTAAAAATT
959636 TAAACGAACATGAA
1 TAAACGAACATGAA
959650 TCGAGCATAA
Statistics
Matches: 63, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
54 63 1.00
ACGTcount: A:0.57, C:0.16, G:0.07, T:0.20
Consensus pattern (54 bp):
TAAACGAACATGAACACCTTCAAAAATAAATAAACAAATACAATACTAAAAATT
Found at i:959606 original size:28 final size:25
Alignment explanation
Indices: 959572--959649 Score: 68
Period size: 24 Copynumber: 3.0 Consensus size: 25
959562 CGAATACGAT
959572 ACTAAAAATTTAAACGAACATGAAC
1 ACTAAAAATTTAAACGAACATGAAC
* * * *
959597 ACCTTCAAAAATAAATAAACAAATAT-AAT
1 A-C-T-AAAAAT--TTAAACGAACATGAAC
959626 ACTAAAAATTTAAACGAACATGAA
1 ACTAAAAATTTAAACGAACATGAA
959650 TCGAGCATAA
Statistics
Matches: 40, Mismatches: 7, Indels: 12
0.68 0.12 0.20
Matches are distributed among these distances:
24 9 0.22
25 3 0.08
26 7 0.17
27 2 0.05
28 7 0.17
29 3 0.08
30 9 0.22
ACGTcount: A:0.59, C:0.14, G:0.05, T:0.22
Consensus pattern (25 bp):
ACTAAAAATTTAAACGAACATGAAC
Found at i:964928 original size:2 final size:2
Alignment explanation
Indices: 964921--964952 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
964911 GATCTGTCCA
964921 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
964953 TCCCATCATT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:965739 original size:21 final size:22
Alignment explanation
Indices: 965696--965742 Score: 71
Period size: 21 Copynumber: 2.2 Consensus size: 22
965686 ATTCTACTTA
965696 TTTATATTATATATGTATATTT
1 TTTATATTATATATGTATATTT
965718 TTTAT-TTATATTAT-TATATTT
1 TTTATATTATA-TATGTATATTT
965739 TTTA
1 TTTA
965743 CTTTCTCTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
21 16 0.67
22 8 0.33
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.68
Consensus pattern (22 bp):
TTTATATTATATATGTATATTT
Found at i:965781 original size:12 final size:11
Alignment explanation
Indices: 965751--965796 Score: 58
Period size: 11 Copynumber: 4.2 Consensus size: 11
965741 TACTTTCTCT
*
965751 TTCTTTTATTA
1 TTCTTGTATTA
965762 TTCTTGTATTA
1 TTCTTGTATTA
965773 TTACTTGTATTA
1 TT-CTTGTATTA
*
965785 TT-TTATATTA
1 TTCTTGTATTA
965795 TT
1 TT
965797 TATTTTGTTA
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
10 9 0.28
11 12 0.38
12 11 0.34
ACGTcount: A:0.22, C:0.07, G:0.04, T:0.67
Consensus pattern (11 bp):
TTCTTGTATTA
Found at i:967608 original size:19 final size:20
Alignment explanation
Indices: 967572--967609 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
967562 ACCTTACTAA
*
967572 CTCTTTTCATTTTTTTTCCT
1 CTCTTTTCATTTTATTTCCT
967592 CTCTTTT-ATTTTATTTCC
1 CTCTTTTCATTTTATTTCC
967610 ATCATCTGCA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 10 0.59
20 7 0.41
ACGTcount: A:0.08, C:0.24, G:0.00, T:0.68
Consensus pattern (20 bp):
CTCTTTTCATTTTATTTCCT
Found at i:971071 original size:24 final size:22
Alignment explanation
Indices: 971036--971109 Score: 62
Period size: 23 Copynumber: 3.2 Consensus size: 22
971026 CAAAAAGGGC
971036 AAAAAC-AAAAAAGAAAAGAAGCA
1 AAAAACAAAAAAAG-AAAGAA-CA
*
971059 AAAAAGAACAAAAAGAAAGAACA
1 AAAAACAA-AAAAAGAAAGAACA
* *
971082 AAAATCAAAAAGAA-AAAGGGACA
1 AAAAACAAAAA-AAGAAA-GAACA
971105 AAAAA
1 AAAAA
971110 GCACATGCAA
Statistics
Matches: 42, Mismatches: 5, Indels: 8
0.76 0.09 0.15
Matches are distributed among these distances:
22 6 0.14
23 23 0.55
24 7 0.17
25 6 0.14
ACGTcount: A:0.77, C:0.08, G:0.14, T:0.01
Consensus pattern (22 bp):
AAAAACAAAAAAAGAAAGAACA
Found at i:971079 original size:13 final size:13
Alignment explanation
Indices: 971061--971085 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
971051 AAGAAGCAAA
971061 AAAGAACAAAAAG
1 AAAGAACAAAAAG
971074 AAAGAACAAAAA
1 AAAGAACAAAAA
971086 TCAAAAAGAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.80, C:0.08, G:0.12, T:0.00
Consensus pattern (13 bp):
AAAGAACAAAAAG
Found at i:971774 original size:22 final size:22
Alignment explanation
Indices: 971700--971776 Score: 91
Period size: 22 Copynumber: 3.5 Consensus size: 22
971690 GCTACCCCAT
* * *
971700 CAAACCGTTGTGCATCAAATTC
1 CAAACCTTTGAGCATCAAATGC
* * * *
971722 TAAACCTATGAGCATCACATGT
1 CAAACCTTTGAGCATCAAATGC
971744 CAAACCTTTGAGCATCAAATGC
1 CAAACCTTTGAGCATCAAATGC
971766 CAAACCTTTGA
1 CAAACCTTTGA
971777 CCAAACACAA
Statistics
Matches: 44, Mismatches: 11, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
22 44 1.00
ACGTcount: A:0.35, C:0.26, G:0.13, T:0.26
Consensus pattern (22 bp):
CAAACCTTTGAGCATCAAATGC
Found at i:972677 original size:106 final size:106
Alignment explanation
Indices: 972488--974378 Score: 2790
Period size: 106 Copynumber: 17.9 Consensus size: 106
972478 TCGAGAGTGG
* * * * ** *
972488 AGTTCAACTTCACGAAGAAGGGACAGCTGCTTGTGAATAAACAGTTTCCCAATTTCAGAGTCAAT
1 AGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCCAATTTCAGAGCCAAT
**
972553 TTCAACTTCACATTGAAGGATATTGGACTCAAGACAACGCA
66 TTCAACTTCACAGCGAAGGATATTGGACTCAAGACAACGCA
* *
972594 AGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCTAATTTCAGAGCTAAT
1 AGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCCAATTTCAGAGCCAAT
972659 TTCAACTTCACAGCGAAGGATATTGGACTCAAGACAACGCA
66 TTCAACTTCACAGCGAAGGATATTGGACTCAAGACAACGCA
* * *
972700 AGTTCAACTTCACGACGAAGGGACCGATGGTTGTCAACAAACAACTTCTCAATTTCAGAGCCAAT
1 AGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCCAATTTCAGAGCCAAT
** * *
972765 TTCAACTTCACAATGAAGGATATTGGACTCCAGACAACACA
66 TTCAACTTCACAGCGAAGGATATTGGACTCAAGACAACGCA
* * * * **
972806 AGTTCAACTTCACGATGAAGGGACCACTGGTTGTCAACAAATATTTTCCCAATTTCAGAGCCAAT
1 AGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCCAATTTCAGAGCCAAT
*
972871 TTCAACTTCACATCGAAGGATATTGGACTCAAGACAACGCA
66 TTCAACTTCACAGCGAAGGATATTGGACTCAAGACAACGCA
* * * * * * *
972912 AGTTCAACTTCACAATGAAGGGACCGCTGGTTGTTAACAAATAACTTCTCAATTTCATAGCCAAT
1 AGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCCAATTTCAGAGCCAAT
* *
972977 TTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCA
66 TTCAACTTCACAGCGAAGGATATTGGACTCAAGACAACGCA
* * * *
973018 AGTTCAACTTCACGACGAAGGGAGCGCTGGTTGTCAATAAAAAATTTCTCAATTTCAGAGCCAAT
1 AGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCCAATTTCAGAGCCAAT
*
973083 TTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCA
66 TTCAACTTCACAGCGAAGGATATTGGACTCAAGACAACGCA
* * * *
973124 AGTTTAACTTCACAACGAAGGGACCGCTGGTTGTCAATAAACGACTTCTCAATTTCAGAGCCAAT
1 AGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCCAATTTCAGAGCCAAT
* * *
973189 TTCAACTTCACAACGAAGGATATTGGACTCCAGATAACGCA
66 TTCAACTTCACAGCGAAGGATATTGGACTCAAGACAACGCA
* *
973230 AGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAATAATTTCCCAATTTCAGAGCCAAT
1 AGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCCAATTTCAGAGCCAAT
*
973295 TTCAACTTCACAGCGAAGGATATTGGAGTCAAGACAACGCA
66 TTCAACTTCACAGCGAAGGATATTGGACTCAAGACAACGCA
*
973336 AGTTCAACTTCACGACGAAGAGACCGCTGGTTGTCAATAAACAACTTCCCAATTTCAGAGCCAAT
1 AGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCCAATTTCAGAGCCAAT
* *
973401 TTCAACTTCACAGCGAATGATATTGGACTCCAGACAACGCA
66 TTCAACTTCACAGCGAAGGATATTGGACTCAAGACAACGCA
* *
973442 AGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCTCAATTTCAGAGCCAAT
1 AGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCCAATTTCAGAGCCAAT
* * *
973507 TTCAACTTTACAACGAAGGATATTGGACTCCAGACAACGCA
66 TTCAACTTCACAGCGAAGGATATTGGACTCAAGACAACGCA
* * *
973548 AGTTCAACTTCACGACGAAGGGACCGCTAGTTGTCAATAAACAATTTCCCAATTTTAGAGCCAAT
1 AGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCCAATTTCAGAGCCAAT
*
973613 TTCAACTTCACAGCGTAGGATATTGGACTCAAGACAACGCA
66 TTCAACTTCACAGCGAAGGATATTGGACTCAAGACAACGCA
* *
973654 AGTTCAACTTCACGATGAAGGGACCGCTGGTTGTCAATAAATAACTTCCCAATTTCAGAGCCAAT
1 AGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCCAATTTCAGAGCCAAT
*
973719 TTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCA
66 TTCAACTTCACAGCGAAGGATATTGGACTCAAGACAACGCA
* *
973760 AGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAA-TTTCCAATTTCAGAGCCAAT
1 AGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCCAATTTCAGAGCCAAT
*
973824 TTCAACTTCATAGCGAAGGATATTGGACTCAAGACAACGCA
66 TTCAACTTCACAGCGAAGGATATTGGACTCAAGACAACGCA
* * * * *
973865 AGTTCAACTTCACGACGAAAGGACCGCTGGTTGTTAACAAACAACTTCTCAATTTTAGAGCCAAT
1 AGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCCAATTTCAGAGCCAAT
* * *
973930 TTCAACTTCACAACGAAGGATATTGGACTCCAGACAACACA
66 TTCAACTTCACAGCGAAGGATATTGGACTCAAGACAACGCA
*
973971 AGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAATTTCCCAATTTCAGAGCCAAT
1 AGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCCAATTTCAGAGCCAAT
* *
974036 TTCAACTTCACAACGTAGGATATTGGACTCAAGACAACGCA
66 TTCAACTTCACAGCGAAGGATATTGGACTCAAGACAACGCA
*
974077 AGTTCAACTTCACGACGAAGGGACCTCTGGTTGTCAATAAACAACTTCCCAATTTCAGAGCCAAT
1 AGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCCAATTTCAGAGCCAAT
* * * * *
974142 TTCAACTTCTCAGTGAAGGATCTTGGACCCAAGACAACACA
66 TTCAACTTCACAGCGAAGGATATTGGACTCAAGACAACGCA
* * * * * **
974183 AGCTCAACTTCACGACGAAGGGGCGGCTGATTGTCAAT-AA-AA-TT-TC-A-TTCAGAGTTAAT
1 AGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCCAATTTCAGAGCCAAT
* * *
974242 TTCAACTTCACACCGAAGGATATTGGACTCGAGACAACACA
66 TTCAACTTCACAGCGAAGGATATTGGACTCAAGACAACGCA
* * * * * ** *
974283 AGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAAATAATTTCCCGGTTCCAGAGCCAAT
1 AGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCCAATTTCAGAGCCAAT
*
974348 TTCAACTTCAC-GACGGAGGATATTGGACTCA
66 TTCAACTTCACAG-CGAAGGATATTGGACTCA
974379 GAACAATGCT
Statistics
Matches: 1622, Mismatches: 155, Indels: 16
0.90 0.09 0.01
Matches are distributed among these distances:
100 78 0.05
101 3 0.00
102 3 0.00
103 4 0.00
104 3 0.00
105 102 0.06
106 1429 0.88
ACGTcount: A:0.34, C:0.24, G:0.18, T:0.24
Consensus pattern (106 bp):
AGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCCAATTTCAGAGCCAAT
TTCAACTTCACAGCGAAGGATATTGGACTCAAGACAACGCA
Found at i:975159 original size:188 final size:189
Alignment explanation
Indices: 974825--975202 Score: 733
Period size: 188 Copynumber: 2.0 Consensus size: 189
974815 TTTCTCAGTT
974825 CGATTCCGATCCAAGGTCTTTAAACCGAGAAGAAGACCGAAGGGGCAACGAGAAGCCACGTGCTG
1 CGATTCCGATCCAAGGTCTTTAAACCGAGAAGAAGACCGAAGGGGCAACGAGAAGCCACGTGCTG
974890 ATTCAAATTCCGAACTACGGCTTCAATTTATATCATTTCAAGATGAACTCGGCTTCACAAACGGA
66 ATTCAAATTCCGAACTACGGCTTCAATTTATATCATTTCAAGATGAACTCGGCTTCACAAACGGA
974955 GGAGTCATCCGTAACTCAATTCGACAAGGAGTTATTGAAATATCAGAGTCAATTTTCAA
131 GGAGTCATCCGTAACTCAATTCGACAAGGAGTTATTGAAATATCAGAGTCAATTTTCAA
975014 CGATTCCGATCCAAGGTCTTTAAACCGAGAAGAAGACCGAA-GGGCAACGAGAAGCCACGTGCTG
1 CGATTCCGATCCAAGGTCTTTAAACCGAGAAGAAGACCGAAGGGGCAACGAGAAGCCACGTGCTG
975078 ATTCAAATTCCGAACTACGGCTTCAATTTCATATCATTTCAAGATGAACTCGGCTTCAC-AACGG
66 ATTCAAATTCCGAACTACGGCTTCAATTT-ATATCATTTCAAGATGAACTCGGCTTCACAAACGG
975142 AGGAGTCATCCGTAACTCAATTCGACAAGGAGTTATTGAAATATCAGAGTCAATTTTCAA
130 AGGAGTCATCCGTAACTCAATTCGACAAGGAGTTATTGAAATATCAGAGTCAATTTTCAA
975202 C
1 C
975203 TCCACCGAAC
Statistics
Matches: 188, Mismatches: 0, Indels: 3
0.98 0.00 0.02
Matches are distributed among these distances:
188 118 0.63
189 70 0.37
ACGTcount: A:0.34, C:0.22, G:0.20, T:0.24
Consensus pattern (189 bp):
CGATTCCGATCCAAGGTCTTTAAACCGAGAAGAAGACCGAAGGGGCAACGAGAAGCCACGTGCTG
ATTCAAATTCCGAACTACGGCTTCAATTTATATCATTTCAAGATGAACTCGGCTTCACAAACGGA
GGAGTCATCCGTAACTCAATTCGACAAGGAGTTATTGAAATATCAGAGTCAATTTTCAA
Found at i:975350 original size:37 final size:37
Alignment explanation
Indices: 975297--975401 Score: 156
Period size: 37 Copynumber: 2.8 Consensus size: 37
975287 CCTTTTCGTC
975297 CTACTAGGATTCAAACTCCTAAAAATAGGATAGAATT
1 CTACTAGGATTCAAACTCCTAAAAATAGGATAGAATT
* * *
975334 TTGCTAGGATTCAAACTCCTAAAAATAGGATAGAGTT
1 CTACTAGGATTCAAACTCCTAAAAATAGGATAGAATT
* * *
975371 CTACTATGATTTAAACTCCTAAAGATAGGAT
1 CTACTAGGATTCAAACTCCTAAAAATAGGAT
975402 CCACAAGGAC
Statistics
Matches: 60, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 60 1.00
ACGTcount: A:0.40, C:0.15, G:0.15, T:0.30
Consensus pattern (37 bp):
CTACTAGGATTCAAACTCCTAAAAATAGGATAGAATT
Found at i:975979 original size:23 final size:23
Alignment explanation
Indices: 975943--976039 Score: 85
Period size: 23 Copynumber: 4.2 Consensus size: 23
975933 CTTTACATTT
975943 TTATTATTACTATTATATTTATTA
1 TTATT-TTACTATTATATTTATTA
*
975967 TTATTTTACTATTATATTTCCTT-
1 TTATTTTACTATTATATTT-ATTA
*
975990 TTATTCTACTTATTATATTATATGTA
1 TTATTTTAC-TATTATATT-TAT-TA
* *
976016 -TATTTT-TTATTTTA-TTATTA
1 TTATTTTACTATTATATTTATTA
976036 TTAT
1 TTAT
976040 ATTTTTTACT
Statistics
Matches: 61, Mismatches: 6, Indels: 15
0.74 0.07 0.18
Matches are distributed among these distances:
20 2 0.03
21 6 0.10
22 1 0.02
23 28 0.46
24 17 0.28
25 7 0.11
ACGTcount: A:0.28, C:0.06, G:0.01, T:0.65
Consensus pattern (23 bp):
TTATTTTACTATTATATTTATTA
Found at i:976040 original size:23 final size:23
Alignment explanation
Indices: 975999--976047 Score: 73
Period size: 23 Copynumber: 2.1 Consensus size: 23
975989 TTTATTCTAC
975999 TTATTATATTATATGTATATTTT
1 TTATTATATTATATGTATATTTT
*
976022 TTATTTTATTATTAT-TATATTTT
1 TTATTATATTA-TATGTATATTTT
976045 TTA
1 TTA
976048 CTTTCTCTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
23 21 0.88
24 3 0.12
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.69
Consensus pattern (23 bp):
TTATTATATTATATGTATATTTT
Found at i:976076 original size:11 final size:11
Alignment explanation
Indices: 976056--976090 Score: 52
Period size: 11 Copynumber: 3.2 Consensus size: 11
976046 TACTTTCTCT
*
976056 TTCTTTTATTA
1 TTCTTGTATTA
976067 TTCTTGTATTA
1 TTCTTGTATTA
*
976078 TACTTGTATTA
1 TTCTTGTATTA
976089 TT
1 TT
976091 TTTATAATTT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.20, C:0.09, G:0.06, T:0.66
Consensus pattern (11 bp):
TTCTTGTATTA
Found at i:976125 original size:21 final size:23
Alignment explanation
Indices: 976099--976140 Score: 70
Period size: 21 Copynumber: 1.9 Consensus size: 23
976089 TTTTTATAAT
976099 TTATTTTG-TATAT-ATATATTA
1 TTATTTTGTTATATAATATATTA
976120 TTATTTTGTTATATAATATAT
1 TTATTTTGTTATATAATATAT
976141 ATGCGTATGT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 8 0.42
22 5 0.26
23 6 0.32
ACGTcount: A:0.33, C:0.00, G:0.05, T:0.62
Consensus pattern (23 bp):
TTATTTTGTTATATAATATATTA
Found at i:976125 original size:25 final size:25
Alignment explanation
Indices: 976092--976142 Score: 59
Period size: 25 Copynumber: 2.0 Consensus size: 25
976082 TGTATTATTT
* *
976092 TTATAATTTATTTTGTAT-ATATATA
1 TTATAATTT-TGTTATATAATATATA
*
976117 TTATTATTTTGTTATATAATATATA
1 TTATAATTTTGTTATATAATATATA
976142 T
1 T
976143 GCGTATGTTC
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
24 6 0.27
25 16 0.73
ACGTcount: A:0.35, C:0.00, G:0.04, T:0.61
Consensus pattern (25 bp):
TTATAATTTTGTTATATAATATATA
Found at i:976590 original size:30 final size:30
Alignment explanation
Indices: 976556--976622 Score: 77
Period size: 30 Copynumber: 2.3 Consensus size: 30
976546 TCGTCATTTA
* *
976556 ATTTATTAATTTATATATATT-TACTTTTTT
1 ATTTATTAATATATAT-TATTCTACTTTGTT
976586 ATTTATT-ATATATATTATTCGTACTTTGTT
1 ATTTATTAATATATATTATTC-TACTTTGTT
976616 A-TTATTA
1 ATTTATTA
976623 TTTTGTTTTA
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
28 4 0.12
29 12 0.38
30 16 0.50
ACGTcount: A:0.30, C:0.04, G:0.03, T:0.63
Consensus pattern (30 bp):
ATTTATTAATATATATTATTCTACTTTGTT
Found at i:976635 original size:13 final size:13
Alignment explanation
Indices: 976610--976644 Score: 52
Period size: 13 Copynumber: 2.6 Consensus size: 13
976600 TTATTCGTAC
976610 TTTGTTATTATTAT
1 TTTGTT-TTATTAT
976624 TTTGTTTTATTAT
1 TTTGTTTTATTAT
*
976637 TTTCTTTT
1 TTTGTTTT
976645 CTTTTCTTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
13 14 0.70
14 6 0.30
ACGTcount: A:0.14, C:0.03, G:0.06, T:0.77
Consensus pattern (13 bp):
TTTGTTTTATTAT
Found at i:976680 original size:13 final size:12
Alignment explanation
Indices: 976617--976694 Score: 52
Period size: 13 Copynumber: 6.0 Consensus size: 12
976607 TACTTTGTTA
976617 TTATTATTTTGTT
1 TTATTATTTT-TT
976630 TTATTATTTTCTT
1 TTATTATTTT-TT
*
976643 TTCTT-TTCTTTT
1 TTATTATT-TTTT
*
976655 TTATATATATTTTA
1 TTAT-TAT-TTTTT
976669 TTATT-TGTTTTT
1 TTATTAT-TTTTT
976681 TTACTTATTATTTT
1 TTA-TTATT-TTTT
976695 ATCTTTGCTT
Statistics
Matches: 52, Mismatches: 6, Indels: 13
0.73 0.08 0.18
Matches are distributed among these distances:
12 15 0.29
13 23 0.44
14 13 0.25
15 1 0.02
ACGTcount: A:0.17, C:0.05, G:0.03, T:0.76
Consensus pattern (12 bp):
TTATTATTTTTT
Found at i:978583 original size:19 final size:19
Alignment explanation
Indices: 978542--978612 Score: 63
Period size: 20 Copynumber: 3.6 Consensus size: 19
978532 ATGACCAACA
*
978542 AATTCGCAACGCAATCTCG
1 AATTCGCAACGCAATCTCC
978561 AATTCGCAACGCGAA-CTCC
1 AATTCGCAACGC-AATCTCC
* * * *
978580 AATTTCACAACTCAGTTTCC
1 AA-TTCGCAACGCAATCTCC
978600 AAATTCGCAACGC
1 -AATTCGCAACGC
978613 GAATATGTAA
Statistics
Matches: 41, Mismatches: 7, Indels: 7
0.75 0.13 0.13
Matches are distributed among these distances:
19 18 0.44
20 21 0.51
21 2 0.05
ACGTcount: A:0.32, C:0.32, G:0.13, T:0.23
Consensus pattern (19 bp):
AATTCGCAACGCAATCTCC
Found at i:978647 original size:20 final size:20
Alignment explanation
Indices: 978601--978650 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
978591 TCAGTTTCCA
*
978601 AATTCGCAACGCGAATATGT
1 AATTCGCAACGAGAATATGT
* *
978621 AAATCGCAACGAGAATTTGT
1 AATTCGCAACGAGAATATGT
*
978641 ATTTCGCAAC
1 AATTCGCAAC
978651 ACAGAAGTCA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.36, C:0.20, G:0.18, T:0.26
Consensus pattern (20 bp):
AATTCGCAACGAGAATATGT
Found at i:978666 original size:20 final size:20
Alignment explanation
Indices: 978643--978685 Score: 77
Period size: 20 Copynumber: 2.1 Consensus size: 20
978633 GAATTTGTAT
978643 TTCGCAACACAGAAGTCAAA
1 TTCGCAACACAGAAGTCAAA
*
978663 TTCGCAACACATAAGTCAAA
1 TTCGCAACACAGAAGTCAAA
978683 TTC
1 TTC
978686 ACAAAGCGCG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.42, C:0.26, G:0.12, T:0.21
Consensus pattern (20 bp):
TTCGCAACACAGAAGTCAAA
Found at i:981154 original size:21 final size:21
Alignment explanation
Indices: 981103--981178 Score: 93
Period size: 21 Copynumber: 3.6 Consensus size: 21
981093 GAAGCACTTG
*
981103 TCATCGTTCAAGAGGCCTCT-
1 TCATCGTTCAAGAGGCCCCTA
*
981123 CCTATCGTTCAAGAGGCCCCTA
1 TC-ATCGTTCAAGAGGCCCCTA
*
981145 TCATAC-TTCAAGAGGCCCCTG
1 TCAT-CGTTCAAGAGGCCCCTA
981166 TCATCGTTCAAGA
1 TCATCGTTCAAGA
981179 AGTCCCTCCC
Statistics
Matches: 48, Mismatches: 4, Indels: 7
0.81 0.07 0.12
Matches are distributed among these distances:
20 2 0.04
21 44 0.92
22 2 0.04
ACGTcount: A:0.24, C:0.32, G:0.18, T:0.26
Consensus pattern (21 bp):
TCATCGTTCAAGAGGCCCCTA
Found at i:981185 original size:21 final size:21
Alignment explanation
Indices: 981101--981185 Score: 75
Period size: 21 Copynumber: 4.0 Consensus size: 21
981091 CCGAAGCACT
* *
981101 TGTCATCGTTCAAGAGGCCTC
1 TGTCATCGTTCAAGAAGCCCC
* *
981122 T-CCTATCGTTCAAGAGGCCCC
1 TGTC-ATCGTTCAAGAAGCCCC
* *
981143 TATCATAC-TTCAAGAGGCCCC
1 TGTCAT-CGTTCAAGAAGCCCC
*
981164 TGTCATCGTTCAAGAAGTCCC
1 TGTCATCGTTCAAGAAGCCCC
981185 T
1 T
981186 CCCACCGTTC
Statistics
Matches: 54, Mismatches: 6, Indels: 8
0.79 0.09 0.12
Matches are distributed among these distances:
20 2 0.04
21 50 0.93
22 2 0.04
ACGTcount: A:0.22, C:0.32, G:0.19, T:0.27
Consensus pattern (21 bp):
TGTCATCGTTCAAGAAGCCCC
Found at i:982576 original size:13 final size:14
Alignment explanation
Indices: 982551--982583 Score: 59
Period size: 13 Copynumber: 2.4 Consensus size: 14
982541 AAATTTATGT
982551 ATTTGTAAAAGTTG
1 ATTTGTAAAAGTTG
982565 ATTTGT-AAAGTTG
1 ATTTGTAAAAGTTG
982578 ATTTGT
1 ATTTGT
982584 TTAATTGATG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 13 0.68
14 6 0.32
ACGTcount: A:0.30, C:0.00, G:0.21, T:0.48
Consensus pattern (14 bp):
ATTTGTAAAAGTTG
Found at i:982640 original size:64 final size:64
Alignment explanation
Indices: 982562--982712 Score: 241
Period size: 64 Copynumber: 2.4 Consensus size: 64
982552 TTTGTAAAAG
*
982562 TTGATTTGT-AAAGTTGATTTGTTTAATTGATGAGGAAATAAGAATTATTTTTTGCTTGTTTAA
1 TTGATTTGTAAAAGTTGATTTGTTTAATTGATGAGGAAATAAGAATTATTTTTTGATTGTTTAA
* * **
982625 TTGATTTGTAAAAGTTGATTTGTTTAATTGATGTGTAAATAATTATTATTTTTTGATTGTTTAA
1 TTGATTTGTAAAAGTTGATTTGTTTAATTGATGAGGAAATAAGAATTATTTTTTGATTGTTTAA
*
982689 TTGATTTATAAAAGTTGATTTGTT
1 TTGATTTGTAAAAGTTGATTTGTT
982713 GTTTTTAAAT
Statistics
Matches: 81, Mismatches: 6, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
63 9 0.11
64 72 0.89
ACGTcount: A:0.30, C:0.01, G:0.17, T:0.52
Consensus pattern (64 bp):
TTGATTTGTAAAAGTTGATTTGTTTAATTGATGAGGAAATAAGAATTATTTTTTGATTGTTTAA
Found at i:982860 original size:20 final size:20
Alignment explanation
Indices: 982835--982885 Score: 75
Period size: 20 Copynumber: 2.5 Consensus size: 20
982825 TGCTTGCGAT
982835 AGTCAAATTCGCAACACGAA
1 AGTCAAATTCGCAACACGAA
**
982855 AGTCAAATTCGCAACGTGAA
1 AGTCAAATTCGCAACACGAA
*
982875 AGCCAAATTCG
1 AGTCAAATTCG
982886 TTTGCGTTGC
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.41, C:0.24, G:0.18, T:0.18
Consensus pattern (20 bp):
AGTCAAATTCGCAACACGAA
Found at i:983131 original size:18 final size:18
Alignment explanation
Indices: 983108--983143 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
983098 AAGCCGGTTG
983108 TGATTGAGATTTTGATTT
1 TGATTGAGATTTTGATTT
*
983126 TGATTGCGATTTTGATTT
1 TGATTGAGATTTTGATTT
983144 CCTTTTGCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.19, C:0.03, G:0.22, T:0.56
Consensus pattern (18 bp):
TGATTGAGATTTTGATTT
Found at i:984825 original size:24 final size:24
Alignment explanation
Indices: 984798--984844 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
984788 CAAAATTTGA
*
984798 GTATTGACCAAGATCAAAGTTCGG
1 GTATTGACCAACATCAAAGTTCGG
*
984822 GTATTGACCAACATCAAATTTCG
1 GTATTGACCAACATCAAAGTTCG
984845 AATACTGGCT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.34, C:0.19, G:0.19, T:0.28
Consensus pattern (24 bp):
GTATTGACCAACATCAAAGTTCGG
Found at i:984985 original size:12 final size:12
Alignment explanation
Indices: 984964--984997 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
984954 GGTTGTAGGT
*
984964 TTTGAGATTGTG
1 TTTGATATTGTG
984976 TTTGATATTGTG
1 TTTGATATTGTG
*
984988 TTTGGTATTG
1 TTTGATATTG
984998 GAAATGTGGT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.15, C:0.00, G:0.29, T:0.56
Consensus pattern (12 bp):
TTTGATATTGTG
Found at i:985623 original size:14 final size:15
Alignment explanation
Indices: 985587--985624 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
985577 AAAAACATTG
985587 AAAAATTATATAGAA
1 AAAAATTATATAGAA
*
985602 ATAAAATTATGTA-AA
1 A-AAAATTATATAGAA
985617 AAAAATTA
1 AAAAATTA
985625 GAGATGAGGA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
14 7 0.33
15 4 0.19
16 10 0.48
ACGTcount: A:0.66, C:0.00, G:0.05, T:0.29
Consensus pattern (15 bp):
AAAAATTATATAGAA
Found at i:985815 original size:20 final size:20
Alignment explanation
Indices: 985788--985911 Score: 92
Period size: 20 Copynumber: 6.2 Consensus size: 20
985778 CCTGTTGTGA
985788 AATT-AAAATTCGTGTTGCG
1 AATTCAAAATTCGTGTTGCG
* * *
985807 AATTCAAAAATCGAGTTGCT
1 AATTCAAAATTCGTGTTGCG
* *
985827 ACA-ACAAAATTCGCGTTGCG
1 A-ATTCAAAATTCGTGTTGCG
*
985847 AATTCAGAAA-TCGAGTTGCG
1 AATTCA-AAATTCGTGTTGCG
**
985867 AATTTGAAATTCAGTGTTGCG
1 AATTCAAAATTC-GTGTTGCG
* * *
985888 AATTTGAAATTTAGTGTTGCG
1 AA-TTCAAAATTCGTGTTGCG
985909 AAT
1 AAT
985912 ATGGAAATTG
Statistics
Matches: 82, Mismatches: 16, Indels: 13
0.74 0.14 0.12
Matches are distributed among these distances:
19 8 0.10
20 45 0.55
21 23 0.28
22 6 0.07
ACGTcount: A:0.34, C:0.13, G:0.21, T:0.32
Consensus pattern (20 bp):
AATTCAAAATTCGTGTTGCG
Found at i:985877 original size:40 final size:39
Alignment explanation
Indices: 985793--985954 Score: 121
Period size: 40 Copynumber: 4.0 Consensus size: 39
985783 TGTGAAATTA
* * ***
985793 AAATTCGTGTTGCGAATTCAAAAATCGAGTTGCTACA-ACA
1 AAATTCGTGTTGCGAATT-AGAAATCGAGTTGCGA-ATTTG
*
985833 AAATTCGCGTTGCGAATTCAGAAATCGAGTTGCGAATTTG
1 AAATTCGTGTTGCGAATT-AGAAATCGAGTTGCGAATTTG
* * * *
985873 AAATTCAGTGTTGCGAATTTGAAATTTAGTGTTGCGAATATGG
1 AAATTC-GTGTTGCGAATTAGAAA--TCGAGTTGCGAAT-TTG
* **
985916 AAATT-GAGTTGCGAAATTAGAGTTCGAGTTGCGAATTTG
1 AAATTCGTGTTGCG-AATTAGAAATCGAGTTGCGAATTTG
985955 TTGGTCATTT
Statistics
Matches: 98, Mismatches: 18, Indels: 13
0.76 0.14 0.10
Matches are distributed among these distances:
39 3 0.03
40 53 0.54
41 18 0.18
42 17 0.17
43 7 0.07
ACGTcount: A:0.32, C:0.12, G:0.24, T:0.32
Consensus pattern (39 bp):
AAATTCGTGTTGCGAATTAGAAATCGAGTTGCGAATTTG
Found at i:985887 original size:21 final size:21
Alignment explanation
Indices: 985861--985920 Score: 93
Period size: 21 Copynumber: 2.8 Consensus size: 21
985851 CAGAAATCGA
985861 GTTGCGAATTTGAAATTCAGT
1 GTTGCGAATTTGAAATTCAGT
*
985882 GTTGCGAATTTGAAATTTAGT
1 GTTGCGAATTTGAAATTCAGT
*
985903 GTTGCGAATATGGAAATT
1 GTTGCGAAT-TTGAAATT
985921 GAGTTGCGAA
Statistics
Matches: 36, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
21 29 0.81
22 7 0.19
ACGTcount: A:0.30, C:0.07, G:0.25, T:0.38
Consensus pattern (21 bp):
GTTGCGAATTTGAAATTCAGT
Found at i:991695 original size:21 final size:21
Alignment explanation
Indices: 991666--991705 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
991656 TTCAAAAAAT
*
991666 ACAAATACCATTTACTGATCA
1 ACAAATACCACTTACTGATCA
* *
991687 ACAATTACCACTTCCTGAT
1 ACAAATACCACTTACTGAT
991706 GGTTTCCTCG
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.38, C:0.28, G:0.05, T:0.30
Consensus pattern (21 bp):
ACAAATACCACTTACTGATCA
Found at i:993965 original size:14 final size:13
Alignment explanation
Indices: 993942--993982 Score: 52
Period size: 13 Copynumber: 3.3 Consensus size: 13
993932 AATATTTATT
993942 AATATTAAATAAA
1 AATATTAAATAAA
993955 AATATTTAAAT-AA
1 AATA-TTAAATAAA
993968 AAT-TT-AATAAA
1 AATATTAAATAAA
993979 AATA
1 AATA
993983 AATGTGGCTG
Statistics
Matches: 25, Mismatches: 0, Indels: 7
0.78 0.00 0.22
Matches are distributed among these distances:
10 3 0.12
11 7 0.28
13 9 0.36
14 6 0.24
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (13 bp):
AATATTAAATAAA
Done.