Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008242.1 Hibiscus syriacus cultivar Beakdansim tig00110890_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: 16962412
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 44 of 73
Found at i:10515366 original size:4 final size:4
Alignment explanation
Indices: 10515359--10515394 Score: 54
Period size: 4 Copynumber: 8.8 Consensus size: 4
10515349 ATATATATAT
*
10515359 AATA AATA AATA AATA AATA AGATA TATA AATA AAT
1 AATA AATA AATA AATA AATA A-ATA AATA AATA AAT
10515395 CGTTATGTAA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
4 26 0.90
5 3 0.10
ACGTcount: A:0.69, C:0.00, G:0.03, T:0.28
Consensus pattern (4 bp):
AATA
Found at i:10515390 original size:17 final size:16
Alignment explanation
Indices: 10515342--10515394 Score: 61
Period size: 17 Copynumber: 3.2 Consensus size: 16
10515332 AGAAAACTAC
* *
10515342 AATATATATATATATA
1 AATAAATATATAAATA
*
10515358 TAATAAATAAATAAATA
1 -AATAAATATATAAATA
10515375 AATAAGATATATAAATA
1 AATAA-ATATATAAATA
10515392 AAT
1 AAT
10515395 CGTTATGTAA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
16 5 0.16
17 26 0.84
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (16 bp):
AATAAATATATAAATA
Found at i:10515446 original size:2 final size:2
Alignment explanation
Indices: 10515439--10515473 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
10515429 ATAAAAAGGA
10515439 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
10515474 AATGTTAGAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:10516434 original size:21 final size:20
Alignment explanation
Indices: 10516410--10516448 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
10516400 TTTCCTCGTA
10516410 TTTCTTGCGTATTTTCTTGTG
1 TTTCTTGCGTA-TTTCTTGTG
*
10516431 TTTCTTGTGTATTTCTTG
1 TTTCTTGCGTATTTCTTG
10516449 GTGATATTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.05, C:0.13, G:0.18, T:0.64
Consensus pattern (20 bp):
TTTCTTGCGTATTTCTTGTG
Found at i:10516932 original size:7 final size:7
Alignment explanation
Indices: 10516916--10516975 Score: 59
Period size: 7 Copynumber: 8.4 Consensus size: 7
10516906 TGTATAAATA
10516916 ATATAAT
1 ATATAAT
*
10516923 ATATACT
1 ATATAAT
10516930 ATATAAT
1 ATATAAT
*
10516937 -TATAGT
1 ATATAAT
10516943 ATATAAT
1 ATATAAT
*
10516950 ATAGTATGT
1 ATA-TA-AT
*
10516959 ATATATT
1 ATATAAT
10516966 ATATAAT
1 ATATAAT
10516973 ATA
1 ATA
10516976 ATACATATAC
Statistics
Matches: 43, Mismatches: 7, Indels: 6
0.77 0.12 0.11
Matches are distributed among these distances:
6 5 0.12
7 30 0.70
8 4 0.09
9 4 0.09
ACGTcount: A:0.48, C:0.02, G:0.05, T:0.45
Consensus pattern (7 bp):
ATATAAT
Found at i:10516934 original size:23 final size:23
Alignment explanation
Indices: 10516908--10516984 Score: 59
Period size: 23 Copynumber: 3.2 Consensus size: 23
10516898 AATTAACATG
10516908 TATAAATAATATAATATATACTA
1 TATAAATAATATAATATATACTA
*
10516931 TATAATTATAGTATATAATATAGTA-TG
1 TATAA--ATA--ATATAATATA-TACTA
* *
10516958 TATATATTATATAATATAATAC-A
1 TATAAATAATATAATAT-ATACTA
10516981 TATA
1 TATA
10516985 CGCTATATAC
Statistics
Matches: 43, Mismatches: 4, Indels: 14
0.70 0.07 0.23
Matches are distributed among these distances:
23 20 0.47
24 1 0.02
25 5 0.12
27 15 0.35
28 2 0.05
ACGTcount: A:0.51, C:0.03, G:0.04, T:0.43
Consensus pattern (23 bp):
TATAAATAATATAATATATACTA
Found at i:10520164 original size:4 final size:4
Alignment explanation
Indices: 10520155--10520281 Score: 254
Period size: 4 Copynumber: 31.8 Consensus size: 4
10520145 AAACTGTCAA
10520155 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
10520203 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
10520251 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATA
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATA
10520282 TAATGAAATA
Statistics
Matches: 123, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 123 1.00
ACGTcount: A:0.50, C:0.24, G:0.00, T:0.25
Consensus pattern (4 bp):
ATAC
Found at i:10520653 original size:24 final size:24
Alignment explanation
Indices: 10520625--10520673 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
10520615 CCTAAGCTAT
*
10520625 GATTTATGGTTTAGAGGTTATGAG
1 GATTTATGGTTTAGAAGTTATGAG
10520649 GATTTATGGTTTAGAAGTTATGAG
1 GATTTATGGTTTAGAAGTTATGAG
10520673 G
1 G
10520674 TTGTGATTTA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.27, C:0.00, G:0.33, T:0.41
Consensus pattern (24 bp):
GATTTATGGTTTAGAAGTTATGAG
Found at i:10526350 original size:14 final size:14
Alignment explanation
Indices: 10526333--10526360 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
10526323 ATCATAATAA
10526333 AATTATATAACTAT
1 AATTATATAACTAT
10526347 AATTATATAACTAT
1 AATTATATAACTAT
10526361 TCTTTCACTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.50, C:0.07, G:0.00, T:0.43
Consensus pattern (14 bp):
AATTATATAACTAT
Found at i:10526862 original size:4 final size:4
Alignment explanation
Indices: 10526853--10528355 Score: 2880
Period size: 4 Copynumber: 380.2 Consensus size: 4
10526843 GAAAGAAGAC
10526853 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
10526901 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
10526949 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
10526997 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
10527045 GTAT GTA- GTAT GTAT GTAT GTAT GTAT G--T GTAT GTAT GTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
10527090 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
10527138 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
10527186 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
10527234 GTAT GTAT GTAT GTAT GTAT G--T GTAT GTAT GTAT GTAT GTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
10527280 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTA- -TAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
10527326 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
10527374 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
10527422 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
10527470 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
10527518 GTAT GTAT GTAT G--T GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
10527564 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
10527612 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
10527660 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTA- -TAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
10527706 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
10527754 GTAT GTAT G--T GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
10527800 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
10527848 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT G--T GTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
10527894 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
10527942 GTAT GTAT GTA- GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
10527989 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
10528037 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
10528085 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
10528133 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
10528181 GTAT GTAT GTA- -TAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
10528227 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
10528275 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
10528323 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT G
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT G
10528356 AGTTCTTCAA
Statistics
Matches: 1481, Mismatches: 0, Indels: 36
0.98 0.00 0.02
Matches are distributed among these distances:
2 16 0.01
3 6 0.00
4 1459 0.99
ACGTcount: A:0.25, C:0.00, G:0.25, T:0.50
Consensus pattern (4 bp):
GTAT
Found at i:10531039 original size:22 final size:22
Alignment explanation
Indices: 10531006--10531047 Score: 68
Period size: 22 Copynumber: 1.9 Consensus size: 22
10530996 ATAGTTGAAC
10531006 TTATAACAAGTCGAATTTATAT
1 TTATAACAAGTCGAATTTATAT
10531028 TTATAA-ATAGTCGAATTTAT
1 TTATAACA-AGTCGAATTTAT
10531048 TCTTTTTACA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 1 0.05
22 18 0.95
ACGTcount: A:0.40, C:0.07, G:0.10, T:0.43
Consensus pattern (22 bp):
TTATAACAAGTCGAATTTATAT
Found at i:10531045 original size:16 final size:16
Alignment explanation
Indices: 10530984--10531026 Score: 52
Period size: 16 Copynumber: 2.7 Consensus size: 16
10530974 TCAATTTAAA
10530984 TCGAATTTATAA-ATAG
1 TCGAATTTATAACA-AG
* *
10531000 TTGAACTTATAACAAG
1 TCGAATTTATAACAAG
10531016 TCGAATTTATA
1 TCGAATTTATA
10531027 TTTATAAATA
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
16 21 0.95
17 1 0.05
ACGTcount: A:0.42, C:0.09, G:0.12, T:0.37
Consensus pattern (16 bp):
TCGAATTTATAACAAG
Found at i:10531110 original size:17 final size:15
Alignment explanation
Indices: 10531076--10531115 Score: 53
Period size: 17 Copynumber: 2.5 Consensus size: 15
10531066 AGAGACATGC
10531076 ATATTTAATATTATA
1 ATATTTAATATTATA
*
10531091 ATATTTAAGTTTTAATA
1 ATATTTAA-TATT-ATA
10531108 ATATTTAA
1 ATATTTAA
10531116 CATAACCCCA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 8 0.36
16 3 0.14
17 11 0.50
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.53
Consensus pattern (15 bp):
ATATTTAATATTATA
Found at i:10531247 original size:20 final size:20
Alignment explanation
Indices: 10531218--10531272 Score: 83
Period size: 20 Copynumber: 2.8 Consensus size: 20
10531208 CAGGTAAAAC
10531218 TATGACAAAATCGGTTTCAT
1 TATGACAAAATCGGTTTCAT
* *
10531238 TATGATAAAATCGGGTTCAT
1 TATGACAAAATCGGTTTCAT
*
10531258 TATGACAAAACCGGT
1 TATGACAAAATCGGT
10531273 AAAGTTCTAC
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.36, C:0.15, G:0.18, T:0.31
Consensus pattern (20 bp):
TATGACAAAATCGGTTTCAT
Found at i:10531741 original size:21 final size:20
Alignment explanation
Indices: 10531691--10531737 Score: 69
Period size: 21 Copynumber: 2.3 Consensus size: 20
10531681 TATTATAATA
10531691 TTTAAGTTTATTATTTAGGG
1 TTTAAGTTTATTATTTAGGG
10531711 TTTATAGTTTAGTT-TTTAGGG
1 TTTA-AGTTTA-TTATTTAGGG
10531732 TTTAAG
1 TTTAAG
10531738 GTTTTCAATA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
20 6 0.24
21 17 0.68
22 2 0.08
ACGTcount: A:0.23, C:0.00, G:0.21, T:0.55
Consensus pattern (20 bp):
TTTAAGTTTATTATTTAGGG
Found at i:10531946 original size:277 final size:275
Alignment explanation
Indices: 10531450--10531976 Score: 885
Period size: 277 Copynumber: 1.9 Consensus size: 275
10531440 TATTTTAGGG
* * * **
10531450 TTTAGGGTTTAGGGTTTTCAACAACAATCAAAATATTTTTAGGGTTTAGTGTTTGTAAAATCAAT
1 TTTAGGGTTTAAGGTTTTCAACAACAACCAAAATATTTTTAGGGTTTAGGGTTTACAAAATCAAT
*
10531515 AGTTTACGCCTCTTTGAAATCAACTAGCAACAAACACATGTTACTATAAACTTTAAACCCTAAAC
66 AGTTTACGCCTCTTTGAAATCAACTAGCAACAAACACATGTTACTATAAACCTTAAACCCTAAAC
*
10531580 ACTAAAATATAAACCCTAAACTTAAATATTATAATATTAAATATGCATGTATCTACGTTAAATGC
131 ACTAAAATATAAACCCAAAACTTAAATATTATAATATTAAATATGCATGTATCTACGTTAAATGC
* *
10531645 AAAAAGAATAAATTTGATTATTTATAAATATTTTAATATTATAATATTTAAGTTTATTATTTAGG
196 AAAAAGAATAAATTCGACTATTTATAAATATTTTAATATTATAATATTTAAGTTTATTATTTAGG
10531710 GTTTATAGTTTAGTT
261 GTTTATAGTTTAGTT
*
10531725 TTTAGGGTTTAAGGTTTTCAATAACAACCAAAATA-TTTTAGGGTTTAGGGTTTACAAAATCAAT
1 TTTAGGGTTTAAGGTTTTCAACAACAACCAAAATATTTTTAGGGTTTAGGGTTTACAAAATCAAT
*
10531789 AGTTTATGCCTCTTTGAAATCAACTAGCAACAAACACAACATGTTACTATAAACCTTAAACCCTA
66 AGTTTACGCCTCTTTGAAATCAACTAGCAAC-AA-AC-ACATGTTACTATAAACCTTAAACCCTA
* *
10531854 AACACTAAACTATAAACCCAAAACTTAAATATTATAATATTAAATATGCATGTTTCTACGTTAAA
128 AACACTAAAATATAAACCCAAAACTTAAATATTATAATATTAAATATGCATGTATCTACGTTAAA
* *
10531919 TGTAAAAAGAATAAATTCGACTATTTATAAATGTTTTAATATTATAATATTTAAGTTT
193 TGCAAAAAGAATAAATTCGACTATTTATAAATATTTTAATATTATAATATTTAAGTTT
10531977 GGGGTTTATA
Statistics
Matches: 234, Mismatches: 15, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
274 56 0.24
275 34 0.15
276 2 0.01
277 142 0.61
ACGTcount: A:0.41, C:0.12, G:0.10, T:0.37
Consensus pattern (275 bp):
TTTAGGGTTTAAGGTTTTCAACAACAACCAAAATATTTTTAGGGTTTAGGGTTTACAAAATCAAT
AGTTTACGCCTCTTTGAAATCAACTAGCAACAAACACATGTTACTATAAACCTTAAACCCTAAAC
ACTAAAATATAAACCCAAAACTTAAATATTATAATATTAAATATGCATGTATCTACGTTAAATGC
AAAAAGAATAAATTCGACTATTTATAAATATTTTAATATTATAATATTTAAGTTTATTATTTAGG
GTTTATAGTTTAGTT
Found at i:10532090 original size:7 final size:7
Alignment explanation
Indices: 10532080--10532151 Score: 58
Period size: 7 Copynumber: 10.3 Consensus size: 7
10532070 GTGTTTAAAC
10532080 TTAGGGT
1 TTAGGGT
*
10532087 TTAGTGT
1 TTAGGGT
*
10532094 CTAGGGTT
1 TTAGGG-T
10532102 TTA-GGT
1 TTAGGGT
*
10532108 TTTGGGT
1 TTAGGGT
*
10532115 TTATAGG-
1 TTA-GGGT
*
10532122 TTAGGGA
1 TTAGGGT
10532129 TTAGGGT
1 TTAGGGT
10532136 TTAGGGT
1 TTAGGGT
*
10532143 TTAGAGT
1 TTAGGGT
10532150 TT
1 TT
10532152 TCAATAGTAA
Statistics
Matches: 51, Mismatches: 10, Indels: 8
0.74 0.14 0.12
Matches are distributed among these distances:
6 5 0.10
7 41 0.80
8 5 0.10
ACGTcount: A:0.17, C:0.01, G:0.36, T:0.46
Consensus pattern (7 bp):
TTAGGGT
Found at i:10532462 original size:17 final size:15
Alignment explanation
Indices: 10532439--10532479 Score: 55
Period size: 17 Copynumber: 2.6 Consensus size: 15
10532429 TTGGGGTTAT
10532439 ATTAAATATTATTAAA
1 ATTAAATATTA-TAAA
*
10532455 ACTTAAATATTATAAT
1 A-TTAAATATTATAAA
10532471 ATTAAATAT
1 ATTAAATAT
10532480 GCATGTCTCT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
15 8 0.35
16 5 0.22
17 10 0.43
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (15 bp):
ATTAAATATTATAAA
Found at i:10532529 original size:16 final size:16
Alignment explanation
Indices: 10532529--10532571 Score: 52
Period size: 16 Copynumber: 2.7 Consensus size: 16
10532519 TATTTATAAA
10532529 TATAAATTCGACTTGT
1 TATAAATTCGACTTGT
* *
10532545 TATAAGTTCAACTAT-T
1 TATAAATTCGACT-TGT
10532561 TATAAATTCGA
1 TATAAATTCGA
10532572 TTTAAATTGA
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
16 21 0.95
17 1 0.05
ACGTcount: A:0.37, C:0.12, G:0.09, T:0.42
Consensus pattern (16 bp):
TATAAATTCGACTTGT
Found at i:10532533 original size:22 final size:22
Alignment explanation
Indices: 10532508--10532549 Score: 68
Period size: 22 Copynumber: 1.9 Consensus size: 22
10532498 TGTAAAAAGA
10532508 ATAAATTCGACTAT-TTATAAAT
1 ATAAATTCGACT-TGTTATAAAT
10532530 ATAAATTCGACTTGTTATAA
1 ATAAATTCGACTTGTTATAA
10532550 GTTCAACTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 1 0.05
22 18 0.95
ACGTcount: A:0.43, C:0.10, G:0.07, T:0.40
Consensus pattern (22 bp):
ATAAATTCGACTTGTTATAAAT
Found at i:10532772 original size:26 final size:26
Alignment explanation
Indices: 10532743--10532798 Score: 112
Period size: 26 Copynumber: 2.2 Consensus size: 26
10532733 ATGCAATAAG
10532743 CACACAATATTGTTTTATTATTCCCC
1 CACACAATATTGTTTTATTATTCCCC
10532769 CACACAATATTGTTTTATTATTCCCC
1 CACACAATATTGTTTTATTATTCCCC
10532795 CACA
1 CACA
10532799 TTTCTTAAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.29, C:0.29, G:0.04, T:0.39
Consensus pattern (26 bp):
CACACAATATTGTTTTATTATTCCCC
Found at i:10542309 original size:20 final size:20
Alignment explanation
Indices: 10542279--10542365 Score: 93
Period size: 20 Copynumber: 4.3 Consensus size: 20
10542269 ATTTCCCATG
* *
10542279 AATTCGTAAAGCCTTCAGGT
1 AATTTGTAAAGCCTTCGGGT
* * *
10542299 TATTTGTAAAGCATCCGGGT
1 AATTTGTAAAGCCTTCGGGT
*
10542319 AATTTGTAAAACCTTCGGGT
1 AATTTGTAAAGCCTTCGGGT
* *
10542339 AATTTGTAAATCCTTTGGGT
1 AATTTGTAAAGCCTTCGGGT
*
10542359 CATTTGT
1 AATTTGT
10542366 CAATCTCTCG
Statistics
Matches: 55, Mismatches: 12, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 55 1.00
ACGTcount: A:0.26, C:0.15, G:0.21, T:0.38
Consensus pattern (20 bp):
AATTTGTAAAGCCTTCGGGT
Found at i:10542567 original size:35 final size:35
Alignment explanation
Indices: 10542457--10542552 Score: 165
Period size: 35 Copynumber: 2.7 Consensus size: 35
10542447 AGTCATTTTT
*
10542457 CAACCTTCCCGGAAGAGTAGTGAAGTCGATCAATC
1 CAACCTTCACGGAAGAGTAGTGAAGTCGATCAATC
*
10542492 CAACCTTCACGGAAGAGTAGCGAAGTCGATCAATC
1 CAACCTTCACGGAAGAGTAGTGAAGTCGATCAATC
*
10542527 CAACCTTCACGGAATAGTAGTGAAGT
1 CAACCTTCACGGAAGAGTAGTGAAGT
10542553 AATTCAAGCC
Statistics
Matches: 57, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
35 57 1.00
ACGTcount: A:0.33, C:0.24, G:0.23, T:0.20
Consensus pattern (35 bp):
CAACCTTCACGGAAGAGTAGTGAAGTCGATCAATC
Found at i:10542879 original size:2 final size:2
Alignment explanation
Indices: 10542867--10542943 Score: 140
Period size: 2 Copynumber: 39.5 Consensus size: 2
10542857 TCATTATTGT
10542867 TA TA T- 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
10542908 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -A TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
10542944 TATTATTATT
Statistics
Matches: 73, Mismatches: 0, Indels: 4
0.95 0.00 0.05
Matches are distributed among these distances:
1 2 0.03
2 71 0.97
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:10544148 original size:29 final size:28
Alignment explanation
Indices: 10544115--10544169 Score: 67
Period size: 29 Copynumber: 1.9 Consensus size: 28
10544105 AAATTATATT
10544115 ATTAG-CACTTATAGTTTATAATATTTTGA
1 ATTAGACAC-TATAGTTT-TAATATTTTGA
* *
10544144 ATTAGAGACTATAGTTTTATTATTTT
1 ATTAGACACTATAGTTTTAATATTTT
10544170 ATAATTTAGT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
28 8 0.35
29 13 0.57
30 2 0.09
ACGTcount: A:0.33, C:0.05, G:0.11, T:0.51
Consensus pattern (28 bp):
ATTAGACACTATAGTTTTAATATTTTGA
Found at i:10544879 original size:13 final size:13
Alignment explanation
Indices: 10544861--10544885 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
10544851 ATAAACTTCA
10544861 ATTTTTATTTTTT
1 ATTTTTATTTTTT
10544874 ATTTTTATTTTT
1 ATTTTTATTTTT
10544886 ATAAATGAGA
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:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (13 bp):
ATTTTTATTTTTT
Found at i:10546299 original size:11 final size:10
Alignment explanation
Indices: 10546272--10546298 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
10546262 AAAGCCTAAA
10546272 CATTTTTCTT
1 CATTTTTCTT
10546282 CATTTTTCTT
1 CATTTTTCTT
10546292 CATTTTT
1 CATTTTT
10546299 TTTCTTAACT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.11, C:0.19, G:0.00, T:0.70
Consensus pattern (10 bp):
CATTTTTCTT
Found at i:10549307 original size:23 final size:23
Alignment explanation
Indices: 10549248--10549312 Score: 94
Period size: 23 Copynumber: 2.8 Consensus size: 23
10549238 CACCACAGCT
* *
10549248 CGTATAAATGCACCAAAGTGCCA
1 CGTAGAAATGCACCGAAGTGCCA
* *
10549271 CGTAGAATTACACCGAAGTGCCA
1 CGTAGAAATGCACCGAAGTGCCA
10549294 CGTAGAAATGCACCGAAGT
1 CGTAGAAATGCACCGAAGT
10549313 CCCATATAAG
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.37, C:0.25, G:0.22, T:0.17
Consensus pattern (23 bp):
CGTAGAAATGCACCGAAGTGCCA
Found at i:10549414 original size:21 final size:22
Alignment explanation
Indices: 10549390--10549439 Score: 61
Period size: 20 Copynumber: 2.4 Consensus size: 22
10549380 GTCTATGTCT
10549390 CAAAGGACCT-CATAAATGTTC
1 CAAAGGACCTACATAAATGTTC
*
10549411 CAAAGGA--TACATATATGTTC
1 CAAAGGACCTACATAAATGTTC
*
10549431 CGAAGGACC
1 CAAAGGACC
10549440 GCTTAGACCC
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
19 1 0.04
20 16 0.67
21 7 0.29
ACGTcount: A:0.38, C:0.22, G:0.18, T:0.22
Consensus pattern (22 bp):
CAAAGGACCTACATAAATGTTC
Found at i:10549838 original size:2 final size:2
Alignment explanation
Indices: 10549831--10549878 Score: 96
Period size: 2 Copynumber: 24.0 Consensus size: 2
10549821 ATATGTAGTC
10549831 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
10549873 AT AT AT
1 AT AT AT
10549879 TCTTTCATAA
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 46 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:10554437 original size:23 final size:23
Alignment explanation
Indices: 10554404--10554468 Score: 85
Period size: 23 Copynumber: 2.8 Consensus size: 23
10554394 TAGCTCGTAT
10554404 AAATGCACCGAAGTGCCATGTAG
1 AAATGCACCGAAGTGCCATGTAG
* * ***
10554427 AATTGCACCGAAGTTCTGCGTAG
1 AAATGCACCGAAGTGCCATGTAG
10554450 AAATGCACCGAAGTGCCAT
1 AAATGCACCGAAGTGCCAT
10554469 ATAAGATGTC
Statistics
Matches: 32, Mismatches: 10, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
23 32 1.00
ACGTcount: A:0.32, C:0.23, G:0.25, T:0.20
Consensus pattern (23 bp):
AAATGCACCGAAGTGCCATGTAG
Found at i:10554992 original size:2 final size:2
Alignment explanation
Indices: 10554987--10555031 Score: 90
Period size: 2 Copynumber: 22.5 Consensus size: 2
10554977 CATGTAGTCT
10554987 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
10555029 TA T
1 TA T
10555032 TCTTTTATAA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:10558817 original size:19 final size:19
Alignment explanation
Indices: 10558793--10558831 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
10558783 TGGAACAGTC
10558793 GAGTAGGTGAATCTAGTTT
1 GAGTAGGTGAATCTAGTTT
10558812 GAGTAGGTGAATCTAGTTT
1 GAGTAGGTGAATCTAGTTT
10558831 G
1 G
10558832 GGTCGATTGC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.26, C:0.05, G:0.33, T:0.36
Consensus pattern (19 bp):
GAGTAGGTGAATCTAGTTT
Found at i:10559125 original size:95 final size:95
Alignment explanation
Indices: 10558962--10559155 Score: 334
Period size: 95 Copynumber: 2.0 Consensus size: 95
10558952 TATTATATAT
* * *
10558962 ATATATAATAAATCTTGAGTTGTCCCTCTAAAGTAATTGGTTAAAAGCCCCGACTTTATGGATAA
1 ATATACAATAAAGCTTGAGTTGTCCCTCTAAAGCAATTGGTTAAAAGCCCCGACTTTATGGATAA
10559027 GATTCAGCTAGCCTGATAAAGGTGATCATA
66 GATTCAGCTAGCCTGATAAAGGTGATCATA
*
10559057 ATATACAATAAAGCTTGAGTTGTCCCTCTAAAGCAATTGGTTAAATGCCCCGACTTTATGGATAA
1 ATATACAATAAAGCTTGAGTTGTCCCTCTAAAGCAATTGGTTAAAAGCCCCGACTTTATGGATAA
* *
10559122 GATTCAGCTAGCCTGATAAAGGTGTTTATA
66 GATTCAGCTAGCCTGATAAAGGTGATCATA
10559152 ATAT
1 ATAT
10559156 TGAGATATTC
Statistics
Matches: 93, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
95 93 1.00
ACGTcount: A:0.34, C:0.16, G:0.18, T:0.32
Consensus pattern (95 bp):
ATATACAATAAAGCTTGAGTTGTCCCTCTAAAGCAATTGGTTAAAAGCCCCGACTTTATGGATAA
GATTCAGCTAGCCTGATAAAGGTGATCATA
Found at i:10560755 original size:85 final size:85
Alignment explanation
Indices: 10560587--10561185 Score: 720
Period size: 85 Copynumber: 7.1 Consensus size: 85
10560577 TCCCAGCCTA
* * * * **
10560587 TTACAACATTACTCAAGGCGAGAAGGGCTATCTGTCAAC-AA-ACCTTTAAGTTTGATTACATTC
1 TTACAGCATAACTCAAGGTGAGAAGGGTTATCTGTCAACAAAGACCTTCGAGTTTGATTACATTC
* *
10560650 AGCTCAAGGGCACATCAAAT
66 AACTCAAGGGCATATCAAAT
* *
10560670 TTACAGTATAACTCAAGGTGAGAAGGGTTATCTGTTAACAAAGACCTTCGAGTTTGATTACATTC
1 TTACAGCATAACTCAAGGTGAGAAGGGTTATCTGTCAACAAAGACCTTCGAGTTTGATTACATTC
* *
10560735 AACTCAAAGGTATATCAAAT
66 AACTCAAGGGCATATCAAAT
* * * * * ** *
10560755 TTGCAACATAACTCAAGGCGAGAAGGGCTATCTGCCAGTAAAGACCTTCGAGTTCGATTACATTC
1 TTACAGCATAACTCAAGGTGAGAAGGGTTATCTGTCAACAAAGACCTTCGAGTTTGATTACATTC
*
10560820 AACTCAATGGCATATCAAAT
66 AACTCAAGGGCATATCAAAT
* * * ** * * * *
10560840 TTGCAGCATAGCTCAAGGTGAGAATGACTATCTATCGACAAAGACCTTAGAGTTCGATTACATTC
1 TTACAGCATAACTCAAGGTGAGAAGGGTTATCTGTCAACAAAGACCTTCGAGTTTGATTACATTC
*
10560905 AACTCAAGGGAATATCAAAT
66 AACTCAAGGGCATATCAAAT
*
10560925 TTACAGCATAACTCAAGGTGATAAGGGTTATCTGTCAATC-AAGACCTTCGAGTTTGATTACATT
1 TTACAGCATAACTCAAGGTGAGAAGGGTTATCTGTCAA-CAAAGACCTTCGAGTTTGATTACATT
* *
10560989 CAGCTCAAGGGCATGTCAAAT
65 CAACTCAAGGGCATATCAAAT
* * * * *
10561010 TTACAGCATAACTCAAGGTGAGAATGGTTATCTATCAGCAATGACCTTCGAGTTCGATTACATTC
1 TTACAGCATAACTCAAGGTGAGAAGGGTTATCTGTCAACAAAGACCTTCGAGTTTGATTACATTC
* *
10561075 AGCTCAAGGACATATCAAAT
66 AACTCAAGGGCATATCAAAT
* * * *
10561095 TTACAGCATGACTCAAGGCGAGAAGGGTTATCTATCAACAAATACCTTCGAGTTTGATT-CTATT
1 TTACAGCATAACTCAAGGTGAGAAGGGTTATCTGTCAACAAAGACCTTCGAGTTTGATTAC-ATT
* **
10561159 CAACTCAAGGGAATGCCAAAT
65 CAACTCAAGGGCATATCAAAT
10561180 TTACAG
1 TTACAG
10561186 TATATCTTAA
Statistics
Matches: 441, Mismatches: 70, Indels: 8
0.85 0.13 0.02
Matches are distributed among these distances:
83 33 0.07
84 4 0.01
85 403 0.91
86 1 0.00
ACGTcount: A:0.35, C:0.20, G:0.18, T:0.28
Consensus pattern (85 bp):
TTACAGCATAACTCAAGGTGAGAAGGGTTATCTGTCAACAAAGACCTTCGAGTTTGATTACATTC
AACTCAAGGGCATATCAAAT
Found at i:10564243 original size:12 final size:12
Alignment explanation
Indices: 10564226--10564263 Score: 67
Period size: 12 Copynumber: 3.2 Consensus size: 12
10564216 TTGTTGTGTT
10564226 TGCTCCTCGGGC
1 TGCTCCTCGGGC
10564238 TGCTCCTCGGGC
1 TGCTCCTCGGGC
*
10564250 TGCTCTTCGGGC
1 TGCTCCTCGGGC
10564262 TG
1 TG
10564264 ATCAGGCTCA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 25 1.00
ACGTcount: A:0.00, C:0.37, G:0.34, T:0.29
Consensus pattern (12 bp):
TGCTCCTCGGGC
Found at i:10565910 original size:21 final size:21
Alignment explanation
Indices: 10565884--10565923 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
10565874 CAGAACCCCA
*
10565884 GGGGGGTATCGATTCCCCTGT
1 GGGGGGAATCGATTCCCCTGT
*
10565905 GGGGGGAATCGGTTCCCCT
1 GGGGGGAATCGATTCCCCT
10565924 TCAAAGGGGG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.10, C:0.25, G:0.40, T:0.25
Consensus pattern (21 bp):
GGGGGGAATCGATTCCCCTGT
Found at i:10569815 original size:22 final size:21
Alignment explanation
Indices: 10569773--10569812 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
10569763 GAGTTTGTTT
*
10569773 TCATTTTTCAATTTTGAAACA
1 TCATTTTTCAATTTTAAAACA
10569794 TCATTTTT-ATATTTTAAAA
1 TCATTTTTCA-ATTTTAAAA
10569813 ACAATTTCTC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 1 0.06
21 16 0.94
ACGTcount: A:0.35, C:0.10, G:0.03, T:0.53
Consensus pattern (21 bp):
TCATTTTTCAATTTTAAAACA
Found at i:10573249 original size:6 final size:6
Alignment explanation
Indices: 10573233--10573262 Score: 51
Period size: 6 Copynumber: 4.8 Consensus size: 6
10573223 CGAATTGAAT
10573233 TTTTAAA TTTTAA TTTTAA TTTTAA TTTTA
1 TTTT-AA TTTTAA TTTTAA TTTTAA TTTTA
10573263 GCAATTAAGA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 19 0.83
7 4 0.17
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (6 bp):
TTTTAA
Found at i:10575431 original size:18 final size:17
Alignment explanation
Indices: 10575377--10575425 Score: 53
Period size: 19 Copynumber: 2.7 Consensus size: 17
10575367 TTGGACTCCT
* *
10575377 AGTGCATCGGTGCACTAA
1 AGTGCATCGATGCA-TGA
10575395 GAGTGCATCGATGCATGA
1 -AGTGCATCGATGCATGA
10575413 AGTGCATTCGATG
1 AGTGCA-TCGATG
10575426 TTTGAAAAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
17 6 0.22
18 8 0.30
19 13 0.48
ACGTcount: A:0.27, C:0.18, G:0.31, T:0.24
Consensus pattern (17 bp):
AGTGCATCGATGCATGA
Found at i:10575524 original size:19 final size:19
Alignment explanation
Indices: 10575500--10575550 Score: 61
Period size: 19 Copynumber: 2.7 Consensus size: 19
10575490 TAATTAAATC
10575500 AGAGTGCATTGATGCATGG
1 AGAGTGCATTGATGCATGG
* *
10575519 AGAGTGCATCGGTGCATGG
1 AGAGTGCATTGATGCATGG
10575538 A-A-TGCATTCGATG
1 AGAGTGCATT-GATG
10575551 TTTCAATTTA
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
17 5 0.19
18 4 0.15
19 18 0.67
ACGTcount: A:0.25, C:0.14, G:0.35, T:0.25
Consensus pattern (19 bp):
AGAGTGCATTGATGCATGG
Found at i:10575588 original size:21 final size:21
Alignment explanation
Indices: 10575564--10575603 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
10575554 CAATTTATTC
*
10575564 ATTGATGCATCGTTGCATGGT
1 ATTGATGCATCGGTGCATGGT
10575585 ATTGATGCATCGGTGCATG
1 ATTGATGCATCGGTGCATG
10575604 CCTTTGAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.15, G:0.30, T:0.35
Consensus pattern (21 bp):
ATTGATGCATCGGTGCATGGT
Found at i:10582059 original size:22 final size:21
Alignment explanation
Indices: 10582017--10582056 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
10582007 GAGTTTGTTT
*
10582017 TCATTTTTCAATTTTGAAATA
1 TCATTTTTCAATTTTAAAATA
10582038 TCATTTTT-ATATTTTAAAA
1 TCATTTTTCA-ATTTTAAAA
10582057 ATAATTTCTC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 1 0.06
21 16 0.94
ACGTcount: A:0.35, C:0.07, G:0.03, T:0.55
Consensus pattern (21 bp):
TCATTTTTCAATTTTAAAATA
Found at i:10584037 original size:18 final size:17
Alignment explanation
Indices: 10583983--10584031 Score: 53
Period size: 19 Copynumber: 2.7 Consensus size: 17
10583973 TTGGACTCCT
* *
10583983 AGTGCATCGGTGCACTAA
1 AGTGCATCGATGCA-TGA
10584001 GAGTGCATCGATGCATGA
1 -AGTGCATCGATGCATGA
10584019 AGTGCATTCGATG
1 AGTGCA-TCGATG
10584032 TTTGAAAAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
17 6 0.22
18 8 0.30
19 13 0.48
ACGTcount: A:0.27, C:0.18, G:0.31, T:0.24
Consensus pattern (17 bp):
AGTGCATCGATGCATGA
Found at i:10584072 original size:64 final size:62
Alignment explanation
Indices: 10583983--10584192 Score: 203
Period size: 64 Copynumber: 3.3 Consensus size: 62
10583973 TTGGACTCCT
* *
10583983 AGTGCATCGGTGCACT-AAGAGTGCATCGATGCATGAAGTGCATTCGATGTTTGAA-AAAT-AG
1 AGTGCATCGATGCA-TGGAGAGTGCATCGATGCATGAA-TGCATTCGATGTTTGAATAAATCAG
* ** * *
10584044 CCTGGTGCATCGATGCATGGATTGTGCATCGATGCATCAAATGCATTCGATGTTTTAATTAAATC
1 ---AGTGCATCGATGCATGGAGAGTGCATCGATGCAT-GAATGCATTCGATGTTTGAA-TAAATC
10584109 AG
61 AG
* * *
10584111 AGTGCATCGATGCATGGAGAGTGCATCGGTGCATGGAATGCATTCGATGTTTGAATTTATTCATT
1 AGTGCATCGATGCATGGAGAGTGCATCGATGCAT-GAATGCATTCGATGTTTGAA-TAAATCA--
10584176 G
62 G
10584177 A-TGCATCGATGCATGG
1 AGTGCATCGATGCATGG
10584193 TATTGATGCA
Statistics
Matches: 123, Mismatches: 16, Indels: 13
0.81 0.11 0.09
Matches are distributed among these distances:
63 1 0.01
64 97 0.79
65 17 0.14
66 6 0.05
67 2 0.02
ACGTcount: A:0.27, C:0.16, G:0.27, T:0.30
Consensus pattern (62 bp):
AGTGCATCGATGCATGGAGAGTGCATCGATGCATGAATGCATTCGATGTTTGAATAAATCAG
Found at i:10584133 original size:19 final size:19
Alignment explanation
Indices: 10584109--10584159 Score: 70
Period size: 19 Copynumber: 2.7 Consensus size: 19
10584099 TAATTAAATC
10584109 AGAGTGCATCGATGCATGG
1 AGAGTGCATCGATGCATGG
*
10584128 AGAGTGCATCGGTGCATGG
1 AGAGTGCATCGATGCATGG
10584147 A-A-TGCATTCGATG
1 AGAGTGCA-TCGATG
10584160 TTTGAATTTA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
17 4 0.14
18 6 0.21
19 19 0.66
ACGTcount: A:0.25, C:0.16, G:0.35, T:0.24
Consensus pattern (19 bp):
AGAGTGCATCGATGCATGG
Found at i:10584197 original size:21 final size:21
Alignment explanation
Indices: 10584173--10584212 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
10584163 GAATTTATTC
10584173 ATTGATGCATCGATGCATGGT
1 ATTGATGCATCGATGCATGGT
*
10584194 ATTGATGCATCGGTGCATG
1 ATTGATGCATCGATGCATG
10584213 CCTTTGAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.23, C:0.15, G:0.30, T:0.33
Consensus pattern (21 bp):
ATTGATGCATCGATGCATGGT
Found at i:10586265 original size:36 final size:36
Alignment explanation
Indices: 10586225--10586363 Score: 224
Period size: 36 Copynumber: 3.9 Consensus size: 36
10586215 ACGGTGCTGG
*
10586225 ACATTGTTACACGAATGTACCAAAGCTGATATGATA
1 ACATTGATACACGAATGTACCAAAGCTGATATGATA
* *
10586261 ACATTGATACATGAATGTACCAAAGCAGATATGATA
1 ACATTGATACACGAATGTACCAAAGCTGATATGATA
* *
10586297 ACATTGATACATGAATGTACCAAAGCTAATATGATA
1 ACATTGATACACGAATGTACCAAAGCTGATATGATA
*
10586333 ACATTGATACACGAATGTATCAAAGCTGATA
1 ACATTGATACACGAATGTACCAAAGCTGATA
10586364 ATGGATAAAT
Statistics
Matches: 95, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
36 95 1.00
ACGTcount: A:0.42, C:0.15, G:0.16, T:0.27
Consensus pattern (36 bp):
ACATTGATACACGAATGTACCAAAGCTGATATGATA
Found at i:10596120 original size:182 final size:185
Alignment explanation
Indices: 10595815--10596201 Score: 579
Period size: 182 Copynumber: 2.1 Consensus size: 185
10595805 ATTTCGAATT
* * *
10595815 TATATAA-AAATTAAATA-TTTTTTAATTAAAAAAACAGTTTATAATTAATTTAAATAATATATA
1 TATATAATATATTTAATATTTTTTTAATTAAAAAAACAGTTTACAATTAATTTAAATAATATAT-
*
10595878 ATTATAAAATAAAAATTTTATATAAATTTTTTAATTAATTAATATTGATTTAAGTTTAAAAATTA
65 ATAATAAAATAAAAATTTTATATAAATTTTTTAATTAATTAATATTGATTTAAGTTTAAAAATTA
* * * *
10595943 TTGTATCTTAAATTATTAATTGGGTTTTAAATGGTTTG-ACTTAGCCCATATGTTA
130 TTGAATCTTAAATTATTAATTAGATTTTAAATGGTTTGAACTAAGCCCATATGTTA
* *
10595998 TATATAATATATTTAATATTTTTTTAA-TCAAAAAATAGTTTACAATTAATTTAAATAATATAT-
1 TATATAATATATTTAATATTTTTTTAATTAAAAAAACAGTTTACAATTAATTTAAATAATATATA
* * *
10596061 TAAT-AAATAAAAATTTTATAATAATTTTTTTAATTAATTAATATTGATTTAGGTTTAAAAGTTA
66 TAATAAAATAAAAATTTTAT-ATAAATTTTTTAATTAATTAATATTGATTTAAGTTTAAAAATTA
*
10596125 TTGAATCTTAAATTATTAATTAGATTTTAAATGGTTTGAACTAAGCTCATATGTTA
130 TTGAATCTTAAATTATTAATTAGATTTTAAATGGTTTGAACTAAGCCCATATGTTA
*
10596181 TATATAATATATTTAAAATTT
1 TATATAATATATTTAATATTT
10596202 AATTTCGGTT
Statistics
Matches: 185, Mismatches: 15, Indels: 8
0.89 0.07 0.04
Matches are distributed among these distances:
181 15 0.08
182 79 0.43
183 42 0.23
184 41 0.22
185 8 0.04
ACGTcount: A:0.44, C:0.03, G:0.06, T:0.47
Consensus pattern (185 bp):
TATATAATATATTTAATATTTTTTTAATTAAAAAAACAGTTTACAATTAATTTAAATAATATATA
TAATAAAATAAAAATTTTATATAAATTTTTTAATTAATTAATATTGATTTAAGTTTAAAAATTAT
TGAATCTTAAATTATTAATTAGATTTTAAATGGTTTGAACTAAGCCCATATGTTA
Found at i:10596404 original size:37 final size:37
Alignment explanation
Indices: 10596363--10596466 Score: 88
Period size: 37 Copynumber: 3.1 Consensus size: 37
10596353 CGCAATTTTT
10596363 TAATTATACATATTCAATTATGATTGGTTCATACTTA
1 TAATTATACATATTCAATTATGATTGGTTCATACTTA
* *
10596400 TAATTTTA-ATATTC--TT-T-AAT--TT--T--TT-
1 TAATTATACATATTCAATTATGATTGGTTCATACTTA
*
10596425 TAATTATACATATTCAATTATGATTGGCTCATACTTA
1 TAATTATACATATTCAATTATGATTGGTTCATACTTA
*
10596462 AAATT
1 TAATT
10596467 TTAATACTGT
Statistics
Matches: 49, Mismatches: 6, Indels: 24
0.62 0.08 0.30
Matches are distributed among these distances:
25 7 0.14
26 8 0.16
28 3 0.06
29 1 0.02
30 4 0.08
32 3 0.06
33 1 0.02
34 3 0.06
36 8 0.16
37 11 0.22
ACGTcount: A:0.35, C:0.10, G:0.06, T:0.50
Consensus pattern (37 bp):
TAATTATACATATTCAATTATGATTGGTTCATACTTA
Found at i:10596427 original size:62 final size:62
Alignment explanation
Indices: 10596358--10596482 Score: 214
Period size: 62 Copynumber: 2.0 Consensus size: 62
10596348 GTACCCGCAA
* * *
10596358 TTTTTTAATTATACATATTCAATTATGATTGGTTCATACTTATAATTTTAATATTCTTTAAT
1 TTTTTTAATTATACATATTCAATTATGATTGGCTCATACTTAAAATTTTAATACTCTTTAAT
*
10596420 TTTTTTAATTATACATATTCAATTATGATTGGCTCATACTTAAAATTTTAATACTGTTTAAT
1 TTTTTTAATTATACATATTCAATTATGATTGGCTCATACTTAAAATTTTAATACTCTTTAAT
10596482 T
1 T
10596483 AAACAATTAA
Statistics
Matches: 59, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
62 59 1.00
ACGTcount: A:0.33, C:0.09, G:0.06, T:0.53
Consensus pattern (62 bp):
TTTTTTAATTATACATATTCAATTATGATTGGCTCATACTTAAAATTTTAATACTCTTTAAT
Found at i:10616011 original size:30 final size:30
Alignment explanation
Indices: 10615975--10616035 Score: 122
Period size: 30 Copynumber: 2.0 Consensus size: 30
10615965 ACCACTGAAA
10615975 CCGAATACATTTCAGCTGGTAGTTGTTGTG
1 CCGAATACATTTCAGCTGGTAGTTGTTGTG
10616005 CCGAATACATTTCAGCTGGTAGTTGTTGTG
1 CCGAATACATTTCAGCTGGTAGTTGTTGTG
10616035 C
1 C
10616036 AAAAGTTTTA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.20, C:0.18, G:0.26, T:0.36
Consensus pattern (30 bp):
CCGAATACATTTCAGCTGGTAGTTGTTGTG
Found at i:10616631 original size:23 final size:23
Alignment explanation
Indices: 10616600--10616653 Score: 90
Period size: 23 Copynumber: 2.3 Consensus size: 23
10616590 TAGAGAGAAT
*
10616600 CGATACCCCCCTTGAAGGGGAAC
1 CGATTCCCCCCTTGAAGGGGAAC
*
10616623 CGATTCCCCCTTTGAAGGGGAAC
1 CGATTCCCCCCTTGAAGGGGAAC
10616646 CGATTCCC
1 CGATTCCC
10616654 TCTTAGGGGA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
23 29 1.00
ACGTcount: A:0.22, C:0.35, G:0.24, T:0.19
Consensus pattern (23 bp):
CGATTCCCCCCTTGAAGGGGAAC
Found at i:10616663 original size:20 final size:22
Alignment explanation
Indices: 10616606--10616675 Score: 81
Period size: 23 Copynumber: 3.2 Consensus size: 22
10616596 GAATCGATAC
*
10616606 CCCCCTTGAAGGGGAACCGATT
1 CCCCCTTTAAGGGGAACCGATT
10616628 CCCCCTTTGAAGGGGAACCGATT
1 CCCCCTTT-AAGGGGAACCGATT
* * *
10616651 CCCTC-TT-AGGGGAATCGATA
1 CCCCCTTTAAGGGGAACCGATT
10616671 CCCCC
1 CCCCC
10616676 CCACGGGTTC
Statistics
Matches: 42, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
20 15 0.36
22 9 0.21
23 18 0.43
ACGTcount: A:0.21, C:0.34, G:0.24, T:0.20
Consensus pattern (22 bp):
CCCCCTTTAAGGGGAACCGATT
Found at i:10627247 original size:12 final size:12
Alignment explanation
Indices: 10627230--10627260 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
10627220 CCTAGAACCA
10627230 TACACCCACCTG
1 TACACCCACCTG
*
10627242 TACACCTACCTG
1 TACACCCACCTG
10627254 TACACCC
1 TACACCC
10627261 GGTAAGGGCC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.26, C:0.48, G:0.06, T:0.19
Consensus pattern (12 bp):
TACACCCACCTG
Found at i:10627345 original size:39 final size:38
Alignment explanation
Indices: 10627291--10627425 Score: 198
Period size: 39 Copynumber: 3.5 Consensus size: 38
10627281 AGCTTAAGGT
* *
10627291 CCTGCGGTAAGGACTTACCCTGTGCACAAAGCAGATGAG
1 CCTGCGGTAAGGACTTACCCTGAGCACAAAGC-GAGGAG
*
10627330 CCTGCGGTAAGGACTTACCCTGAGCACAAAGTTGAGGAG
1 CCTGCGGTAAGGACTTACCCTGAGCACAAAG-CGAGGAG
* *
10627369 CCTGCGGTAAGGACTTGCCCTGAGCACAAATTCGAGGAG
1 CCTGCGGTAAGGACTTACCCTGAGCACAAA-GCGAGGAG
10627408 CCTGCGGTAAGGACTTAC
1 CCTGCGGTAAGGACTTAC
10627426 AAGTCATAAA
Statistics
Matches: 87, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
39 87 1.00
ACGTcount: A:0.27, C:0.25, G:0.30, T:0.19
Consensus pattern (38 bp):
CCTGCGGTAAGGACTTACCCTGAGCACAAAGCGAGGAG
Found at i:10636095 original size:3 final size:3
Alignment explanation
Indices: 10636087--10636162 Score: 143
Period size: 3 Copynumber: 25.3 Consensus size: 3
10636077 TAAATCAAAT
10636087 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
*
10636135 ATA ATA ATA CTA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA A
10636163 ATTTATAAAT
Statistics
Matches: 71, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
3 71 1.00
ACGTcount: A:0.66, C:0.01, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:10638212 original size:41 final size:41
Alignment explanation
Indices: 10637948--10638333 Score: 301
Period size: 41 Copynumber: 9.5 Consensus size: 41
10637938 TGCCACAAAA
* *
10637948 TAGTAACTTTAGCGGCGTTTTTATACAAAACGCCGCAACAGAG
1 TAGT-ACTTTAGTGGCGTTTTTATAC-AAACGCCGCAATAGAG
10637991 TAGTACTTTAGTGGCGTTTTTATACAAACGCCGCAATAG-G
1 TAGTACTTTAGTGGCGTTTTTATACAAACGCCGCAATAGAG
* *
10638031 TAGTA---TAGTGGCGTTTTTTAAACAAACGCCGCAATAG-T
1 TAGTACTTTAGTGGCG-TTTTTATACAAACGCCGCAATAGAG
* * * * * *
10638069 TCA-TATTTTAGCGGCGTTTTAATAAAAACGCTGCAATAGGG
1 T-AGTACTTTAGTGGCGTTTTTATACAAACGCCGCAATAGAG
* * * *
10638110 TTCA-TA-TATTA-TGGCATTTTTA-ATAAACGCTGCAACAGAG
1 -T-AGTACT-TTAGTGGCGTTTTTATACAAACGCCGCAATAGAG
* * *
10638150 TAGTACTTTAGTGACGTTTTTTATACAAACACCGCAAAAGAG
1 TAGTACTTTAGTGGCG-TTTTTATACAAACGCCGCAATAGAG
* * *
10638192 TAGTACTTTAGCGGCGTTTTTATACAAAAGCCGCTATAGA-
1 TAGTACTTTAGTGGCGTTTTTATACAAACGCCGCAATAGAG
* * * ** *
10638232 CACATACTTTAGTGGCGTTTTTATTCAAACGCCGCTGTA-AA
1 TA-GTACTTTAGTGGCGTTTTTATACAAACGCCGCAATAGAG
* * * * * *
10638273 TACATTCTTTAGCGGCATTTTTATACAAACGCCGCTATAGAC
1 TA-GTACTTTAGTGGCGTTTTTATACAAACGCCGCAATAGAG
*
10638315 TCGTACTTTAGTGGCGTTT
1 TAGTACTTTAGTGGCGTTT
10638334 GTGTTTACAA
Statistics
Matches: 281, Mismatches: 46, Indels: 34
0.78 0.13 0.09
Matches are distributed among these distances:
37 8 0.03
38 26 0.09
39 7 0.02
40 46 0.16
41 132 0.47
42 58 0.21
43 4 0.01
ACGTcount: A:0.30, C:0.18, G:0.19, T:0.33
Consensus pattern (41 bp):
TAGTACTTTAGTGGCGTTTTTATACAAACGCCGCAATAGAG
Found at i:10641444 original size:42 final size:41
Alignment explanation
Indices: 10641393--10641602 Score: 242
Period size: 42 Copynumber: 5.0 Consensus size: 41
10641383 GGCGTTTGCA
* * *
10641393 TCCAAAAACGCCGCTATAGATCTGAAATTTTACTGCGTTTAT
1 TCCAAAAACGCCGCTATAGATCTGACATTTTGCGGCGTTT-T
* * * *
10641435 TCCAAAAACGACGCTATAAATCTGACCTTTTGCAGCGTTTT
1 TCCAAAAACGCCGCTATAGATCTGACATTTTGCGGCGTTTT
10641476 CTCCAAAAACGCCGCTATAGATCTGACATTTTGCGGCG-TTT
1 -TCCAAAAACGCCGCTATAGATCTGACATTTTGCGGCGTTTT
* * * *
10641517 TCATAGAAAACGCCGTTATAGATCTCGACCTATTGCGGCGTTTGT
1 TC-CA-AAAACGCCGCTATAGATCT-GACATTTTGCGGCGTTT-T
* *
10641562 TCCAAAAACGCCGCTATAGATTTGACCTTTTGCGGCGTTTT
1 TCCAAAAACGCCGCTATAGATCTGACATTTTGCGGCGTTTT
10641603 CAGAGCTCGA
Statistics
Matches: 144, Mismatches: 18, Indels: 13
0.82 0.10 0.07
Matches are distributed among these distances:
40 2 0.01
41 6 0.04
42 101 0.70
43 29 0.20
44 3 0.02
45 3 0.02
ACGTcount: A:0.26, C:0.24, G:0.18, T:0.32
Consensus pattern (41 bp):
TCCAAAAACGCCGCTATAGATCTGACATTTTGCGGCGTTTT
Found at i:10641593 original size:85 final size:83
Alignment explanation
Indices: 10641381--10641604 Score: 272
Period size: 85 Copynumber: 2.7 Consensus size: 83
10641371 ACGATAATTA
* * * *
10641381 GCGGCGTTTGCATCCAAAAACGCCGCTATAGATCTGAAATTTTACTGCGTTTATTC-CAAAAACG
1 GCGGCGTTTG-TTCCAAAAACGCCGCTATAGATCTGACATTTTGCGGCG-TT-TTCACAAAAACG
*
10641445 ACGCTATAAATCTGACCTTTT
63 ACGCTATAAATCTGACCTATT
* * *
10641466 GCAGCGTTT-TCTCCAAAAACGCCGCTATAGATCTGACATTTTGCGGCGTTTTCATAGAAAACGC
1 GCGGCGTTTGT-TCCAAAAACGCCGCTATAGATCTGACATTTTGCGGCGTTTTCACA-AAAACGA
* *
10641530 CGTTATAGATCTCGACCTATT
64 CGCTATAAATCT-GACCTATT
* *
10641551 GCGGCGTTTGTTCCAAAAACGCCGCTATAGATTTGACCTTTTGCGGCGTTTTCA
1 GCGGCGTTTGTTCCAAAAACGCCGCTATAGATCTGACATTTTGCGGCGTTTTCA
10641605 GAGCTCGACT
Statistics
Matches: 121, Mismatches: 13, Indels: 10
0.84 0.09 0.07
Matches are distributed among these distances:
82 3 0.02
83 3 0.02
84 50 0.41
85 64 0.53
86 1 0.01
ACGTcount: A:0.25, C:0.24, G:0.19, T:0.31
Consensus pattern (83 bp):
GCGGCGTTTGTTCCAAAAACGCCGCTATAGATCTGACATTTTGCGGCGTTTTCACAAAAACGACG
CTATAAATCTGACCTATT
Found at i:10641664 original size:69 final size:68
Alignment explanation
Indices: 10641540--10641672 Score: 194
Period size: 69 Copynumber: 1.9 Consensus size: 68
10641530 CGTTATAGAT
* *** *
10641540 CTCGACCTATTGCGGCGTTTGTTCCAAAAACGCCGCTATAGATTTGACCTTTTGCGGCGTTTTCA
1 CTCGACCTATTGCGGCGTTTGTTCCAAAAACGCCACTATAGAGCCGACCTGTTGCGGCGTTTTCA
10641605 GAG
66 GAG
* *
10641608 CTCGACTTATTGCGGCGTTTGTTACGAAAAACGCCACTATAGAGCCGACCTGTTGCGGCGTTTTC
1 CTCGACCTATTGCGGCGTTTGTT-CCAAAAACGCCACTATAGAGCCGACCTGTTGCGGCGTTTTC
10641673 TAAAAAAACG
Statistics
Matches: 57, Mismatches: 7, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
68 22 0.39
69 35 0.61
ACGTcount: A:0.20, C:0.26, G:0.24, T:0.31
Consensus pattern (68 bp):
CTCGACCTATTGCGGCGTTTGTTCCAAAAACGCCACTATAGAGCCGACCTGTTGCGGCGTTTTCA
GAG
Found at i:10644366 original size:18 final size:18
Alignment explanation
Indices: 10644343--10644377 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
10644333 ATGACGTTTT
10644343 AATAAAATGATAATATTC
1 AATAAAATGATAATATTC
* *
10644361 AATAAATTGATCATATT
1 AATAAAATGATAATATT
10644378 TTAACTTGAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.51, C:0.06, G:0.06, T:0.37
Consensus pattern (18 bp):
AATAAAATGATAATATTC
Found at i:10647418 original size:2 final size:2
Alignment explanation
Indices: 10647399--10647441 Score: 59
Period size: 2 Copynumber: 21.5 Consensus size: 2
10647389 TTGTTTCATT
* * *
10647399 TA TA CA TA TA TG TG 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
10647441 T
1 T
10647442 CCCTTGTTGT
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.44, C:0.02, G:0.05, T:0.49
Consensus pattern (2 bp):
TA
Found at i:10649685 original size:110 final size:110
Alignment explanation
Indices: 10649487--10649743 Score: 321
Period size: 110 Copynumber: 2.4 Consensus size: 110
10649477 GCTTCTCAAT
*
10649487 TTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCAAGACAACACAAGCTCAACTTCA
1 TTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTAGACTCAAGACAACACAAGCTCAACTTCA
* *
10649552 CAATGAAGGGGCGACTGATTGTCAACAAACAACTTTTTAGTTTCA
66 CAACGAAGGGGCGACTGACTGTCAACAAACAACTTTTTAGTTTCA
* * *
10649597 TTCAGAGTCAATTTGAACTTCACAGCGAATGATATTAGACTCAAGACAACACAAGCTCAACTTCA
1 TTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTAGACTCAAGACAACACAAGCTCAACTTCA
* * ***
10649662 CAGCGAAGGGGC-AGCT-AGCTGTCAACAAACAA--TCTCCCTTT--
66 CAACGAAGGGGCGA-CTGA-CTGTCAACAAACAACTTTTTAGTTTCA
* *
10649703 TTCATAGCCAATTTCAACTTCAC-GACGAAGGATATTGGACT
1 TTCAGAGCCAATTTCAACTTCACAG-CGAAGGATATTAGACT
10649744 TGAAGCAACA
Statistics
Matches: 128, Mismatches: 16, Indels: 10
0.83 0.10 0.06
Matches are distributed among these distances:
105 1 0.01
106 34 0.27
108 5 0.04
109 2 0.02
110 86 0.67
ACGTcount: A:0.35, C:0.24, G:0.17, T:0.25
Consensus pattern (110 bp):
TTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTAGACTCAAGACAACACAAGCTCAACTTCA
CAACGAAGGGGCGACTGACTGTCAACAAACAACTTTTTAGTTTCA
Found at i:10649907 original size:54 final size:54
Alignment explanation
Indices: 10649828--10649972 Score: 183
Period size: 54 Copynumber: 2.7 Consensus size: 54
10649818 ACGAAGGAGT
*
10649828 CATCCAC-AGTTTCAACTTCACGACGAAGGGA-ATCGTGCCCACCAA-TAAC-AT-T
1 CATCCACGA-TTTCAACTTCACGACGAA-GGATATCGTGCCCA-CAAGTAACAATGC
*
10649880 CATCTCCACGATTTCAACTTCACGACGAAGGATATCGTGCCCACAAGTAGCAATGC
1 CA--TCCACGATTTCAACTTCACGACGAAGGATATCGTGCCCACAAGTAACAATGC
*
10649936 CATCCACGATTTCAACTTCACGACGAAAGATATCGTG
1 CATCCACGATTTCAACTTCACGACGAAGGATATCGTG
10649973 TTTAAGTGGA
Statistics
Matches: 83, Mismatches: 3, Indels: 12
0.85 0.03 0.12
Matches are distributed among these distances:
52 2 0.02
53 6 0.07
54 70 0.84
55 3 0.04
56 2 0.02
ACGTcount: A:0.32, C:0.30, G:0.17, T:0.22
Consensus pattern (54 bp):
CATCCACGATTTCAACTTCACGACGAAGGATATCGTGCCCACAAGTAACAATGC
Found at i:10653269 original size:14 final size:14
Alignment explanation
Indices: 10653224--10653269 Score: 83
Period size: 14 Copynumber: 3.3 Consensus size: 14
10653214 CATTGTTTAT
10653224 ATTGAATAAAAATA
1 ATTGAATAAAAATA
*
10653238 ATTAAATAAAAATA
1 ATTGAATAAAAATA
10653252 ATTGAATAAAAATA
1 ATTGAATAAAAATA
10653266 ATTG
1 ATTG
10653270 TTTTATTATT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 30 1.00
ACGTcount: A:0.63, C:0.00, G:0.07, T:0.30
Consensus pattern (14 bp):
ATTGAATAAAAATA
Found at i:10653721 original size:18 final size:18
Alignment explanation
Indices: 10653694--10653741 Score: 62
Period size: 18 Copynumber: 2.7 Consensus size: 18
10653684 TATGGAATTG
*
10653694 GATTCTAATTCC-TGACA
1 GATTCTAATTCCTTCACA
10653711 GATTCTAAATTCCTTCACA
1 GATTCT-AATTCCTTCACA
*
10653730 GATTCCAATTCC
1 GATTCTAATTCC
10653742 CTCAAAAACA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
17 6 0.22
18 12 0.44
19 9 0.33
ACGTcount: A:0.29, C:0.27, G:0.08, T:0.35
Consensus pattern (18 bp):
GATTCTAATTCCTTCACA
Found at i:10654150 original size:11 final size:11
Alignment explanation
Indices: 10654134--10654159 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
10654124 AATCAAAATT
10654134 TATAAATAATA
1 TATAAATAATA
10654145 TATAAATAATA
1 TATAAATAATA
10654156 TATA
1 TATA
10654160 TTATATATTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (11 bp):
TATAAATAATA
Found at i:10654249 original size:2 final size:2
Alignment explanation
Indices: 10654242--10654278 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
10654232 CTAAAGCTAA
10654242 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
10654279 CATACTATTA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:10654468 original size:2 final size:2
Alignment explanation
Indices: 10654461--10654486 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
10654451 ATGAACACCC
10654461 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
10654487 GATTTAATAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:10654937 original size:32 final size:32
Alignment explanation
Indices: 10654876--10654965 Score: 89
Period size: 32 Copynumber: 2.9 Consensus size: 32
10654866 ATGAATCATT
* *
10654876 CTCTCCCTCTCTCCCCTTCTCCCTTTCCCTTC
1 CTCTCCCCCTCTCCCCTTCTCCCTCTCCCTTC
10654908 CTCTCCCCCT-TCCCCTCTCTCACC-CTCCCTT-
1 CTCTCCCCCTCTCCCCT-TCTC-CCTCTCCCTTC
* **
10654939 -TCTCCACCTCTTTCCTTCTCCCTCTCC
1 CTCTCCCCCTCTCCCCTTCTCCCTCTCC
10654966 TATGTCTCTC
Statistics
Matches: 49, Mismatches: 5, Indels: 10
0.77 0.08 0.16
Matches are distributed among these distances:
29 2 0.04
30 16 0.33
31 10 0.20
32 19 0.39
33 2 0.04
ACGTcount: A:0.02, C:0.60, G:0.00, T:0.38
Consensus pattern (32 bp):
CTCTCCCCCTCTCCCCTTCTCCCTCTCCCTTC
Found at i:10654942 original size:16 final size:16
Alignment explanation
Indices: 10654901--10655032 Score: 62
Period size: 16 Copynumber: 8.3 Consensus size: 16
10654891 CTTCTCCCTT
* *
10654901 TCCCTTCCTCTCCCCC
1 TCCCTTTCTCTCTCCC
* *
10654917 TTCCC-CTCTCTCACCC
1 -TCCCTTTCTCTCTCCC
*
10654933 TCCCTTTCTC-C-ACC
1 TCCCTTTCTCTCTCCC
10654947 T--CTTTC-CTTCTCCC
1 TCCCTTTCTC-TCTCCC
10654961 TCTCCTATGTCTCTCTCCC
1 TC-CCT-T-TCTCTCTCCC
10654980 TCCCTCTT-TCTCTCCC
1 TCCCT-TTCTCTCTCCC
* * *
10654996 TCCCTCTCTTTCTCCA
1 TCCCTTTCTCTCTCCC
* **
10655012 TCTCTGCCTCTCTCCC
1 TCCCTTTCTCTCTCCC
10655028 TCCCT
1 TCCCT
10655033 CCGTGACGAG
Statistics
Matches: 88, Mismatches: 16, Indels: 23
0.69 0.13 0.18
Matches are distributed among these distances:
11 1 0.01
12 5 0.06
13 1 0.01
14 6 0.07
15 6 0.07
16 46 0.52
17 7 0.08
18 5 0.06
19 10 0.11
20 1 0.01
ACGTcount: A:0.03, C:0.56, G:0.02, T:0.39
Consensus pattern (16 bp):
TCCCTTTCTCTCTCCC
Found at i:10671280 original size:10 final size:10
Alignment explanation
Indices: 10671265--10671289 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
10671255 GAGAGTGGGG
10671265 TTTTAGGGAA
1 TTTTAGGGAA
10671275 TTTTAGGGAA
1 TTTTAGGGAA
10671285 TTTTA
1 TTTTA
10671290 CAAAATCCTC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.28, C:0.00, G:0.24, T:0.48
Consensus pattern (10 bp):
TTTTAGGGAA
Found at i:10683958 original size:14 final size:15
Alignment explanation
Indices: 10683936--10683966 Score: 55
Period size: 14 Copynumber: 2.1 Consensus size: 15
10683926 AAAATCTTTC
10683936 TTTCTCCTTCTTGAT
1 TTTCTCCTTCTTGAT
10683951 TTTC-CCTTCTTGAT
1 TTTCTCCTTCTTGAT
10683965 TT
1 TT
10683967 CAATCTACCA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 12 0.75
15 4 0.25
ACGTcount: A:0.06, C:0.26, G:0.06, T:0.61
Consensus pattern (15 bp):
TTTCTCCTTCTTGAT
Found at i:10689534 original size:20 final size:20
Alignment explanation
Indices: 10689509--10689575 Score: 77
Period size: 20 Copynumber: 3.5 Consensus size: 20
10689499 TTGTTTTGAC
10689509 TTGAAGGAGGAGAATAGACG
1 TTGAAGGAGGAGAATAGACG
*
10689529 TTGAAGG-GGA-ACTTAGAC-
1 TTGAAGGAGGAGA-ATAGACG
* *
10689547 TTGAAGGGGGAGAATAGAAG
1 TTGAAGGAGGAGAATAGACG
10689567 TTGAAGGAG
1 TTGAAGGAG
10689576 AACTTACTTG
Statistics
Matches: 39, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
18 8 0.21
19 15 0.38
20 16 0.41
ACGTcount: A:0.37, C:0.04, G:0.40, T:0.18
Consensus pattern (20 bp):
TTGAAGGAGGAGAATAGACG
Found at i:10689559 original size:38 final size:38
Alignment explanation
Indices: 10689506--10689581 Score: 125
Period size: 38 Copynumber: 2.0 Consensus size: 38
10689496 CTTTTGTTTT
* *
10689506 GACTTGAAGGAGGAGAATAGACGTTGAAGGGGAACTTA
1 GACTTGAAGGAGGAGAATAGAAGTTGAAGGAGAACTTA
*
10689544 GACTTGAAGGGGGAGAATAGAAGTTGAAGGAGAACTTA
1 GACTTGAAGGAGGAGAATAGAAGTTGAAGGAGAACTTA
10689582 CTTGAGGGGT
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
38 35 1.00
ACGTcount: A:0.38, C:0.07, G:0.37, T:0.18
Consensus pattern (38 bp):
GACTTGAAGGAGGAGAATAGAAGTTGAAGGAGAACTTA
Found at i:10689564 original size:19 final size:19
Alignment explanation
Indices: 10689506--10689564 Score: 68
Period size: 19 Copynumber: 3.1 Consensus size: 19
10689496 CTTTTGTTTT
*
10689506 GACTTGAAGGAGGAGAATA
1 GACTTGAAGGGGGAGAATA
*
10689525 GACGTTGAA-GGGGA-ACTTA
1 GAC-TTGAAGGGGGAGA-ATA
10689544 GACTTGAAGGGGGAGAATA
1 GACTTGAAGGGGGAGAATA
10689563 GA
1 GA
10689565 AGTTGAAGGA
Statistics
Matches: 33, Mismatches: 3, Indels: 8
0.75 0.07 0.18
Matches are distributed among these distances:
18 6 0.18
19 21 0.64
20 6 0.18
ACGTcount: A:0.37, C:0.07, G:0.39, T:0.17
Consensus pattern (19 bp):
GACTTGAAGGGGGAGAATA
Found at i:10695198 original size:25 final size:24
Alignment explanation
Indices: 10695170--10695236 Score: 73
Period size: 24 Copynumber: 2.8 Consensus size: 24
10695160 AAAAAATATA
* *
10695170 TATTTAATTTTAAAGTCATATTATT
1 TATTTAATTTTAAA-TAATATTAGT
*
10695195 TATTTATTTTTAAATAATATTAGT
1 TATTTAATTTTAAATAATATTAGT
* *
10695219 TATATAA-TTGAAATAATA
1 TATTTAATTTTAAATAATA
10695237 ATATTTTTCT
Statistics
Matches: 36, Mismatches: 6, Indels: 2
0.82 0.14 0.05
Matches are distributed among these distances:
23 10 0.28
24 13 0.36
25 13 0.36
ACGTcount: A:0.42, C:0.01, G:0.04, T:0.52
Consensus pattern (24 bp):
TATTTAATTTTAAATAATATTAGT
Found at i:10695215 original size:21 final size:21
Alignment explanation
Indices: 10695159--10695215 Score: 51
Period size: 25 Copynumber: 2.5 Consensus size: 21
10695149 TATAATATTA
* *
10695159 TAAAAAATATATATTTAATTT
1 TAAATAATATTTATTTAATTT
*
10695180 TAAAGTCATATTATTTATTTATTTT
1 TAAA-T-A-A-TATTTATTTAATTT
10695205 TAAATAATATT
1 TAAATAATATT
10695216 AGTTATATAA
Statistics
Matches: 29, Mismatches: 3, Indels: 8
0.73 0.08 0.20
Matches are distributed among these distances:
21 8 0.28
22 1 0.03
23 2 0.07
24 2 0.07
25 16 0.55
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.53
Consensus pattern (21 bp):
TAAATAATATTTATTTAATTT
Found at i:10696755 original size:30 final size:30
Alignment explanation
Indices: 10696698--10696760 Score: 72
Period size: 30 Copynumber: 2.1 Consensus size: 30
10696688 TAAAGTTTGG
* * *
10696698 AAAAGTTTAAGAACTAAAAGGGTAATTTTC
1 AAAAGTTTAAGAACCAAAAGGGCAATTTCC
* * *
10696728 AAAAGTTTAGGGACCAAAAGTGCAATTTCC
1 AAAAGTTTAAGAACCAAAAGGGCAATTTCC
10696758 AAA
1 AAA
10696761 TGTTAGGAGT
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.46, C:0.11, G:0.17, T:0.25
Consensus pattern (30 bp):
AAAAGTTTAAGAACCAAAAGGGCAATTTCC
Found at i:10699059 original size:61 final size:61
Alignment explanation
Indices: 10698928--10699059 Score: 147
Period size: 61 Copynumber: 2.2 Consensus size: 61
10698918 GTGTACAAGG
* ** ** *
10698928 AAACTTAGTGTAAATGGTGGGCACAACCTTATGTATCATATTCGGATCAACGTTAGAGTGT
1 AAACTTAGTGTAAATGGTGGGCACAACCTTATGTATCATATCCAAATCAACACTAGAGCGT
* ** * * *
10698989 AAACCTAGTGTAGGTGGTGGGCACAACCTTATGTGTCATATCCAAATTAGCACTAGAGCGT
1 AAACTTAGTGTAAATGGTGGGCACAACCTTATGTATCATATCCAAATCAACACTAGAGCGT
*
10699050 AAGCTTAGTG
1 AAACTTAGTG
10699060 CATGTTTAGC
Statistics
Matches: 57, Mismatches: 14, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
61 57 1.00
ACGTcount: A:0.30, C:0.17, G:0.24, T:0.29
Consensus pattern (61 bp):
AAACTTAGTGTAAATGGTGGGCACAACCTTATGTATCATATCCAAATCAACACTAGAGCGT
Found at i:10709942 original size:31 final size:31
Alignment explanation
Indices: 10709907--10709966 Score: 111
Period size: 31 Copynumber: 1.9 Consensus size: 31
10709897 GGAGCCTGAG
*
10709907 GAATTTTCATTGGAGGTGGAGTAGTCTAGAT
1 GAATTTCCATTGGAGGTGGAGTAGTCTAGAT
10709938 GAATTTCCATTGGAGGTGGAGTAGTCTAG
1 GAATTTCCATTGGAGGTGGAGTAGTCTAG
10709967 CTTACTCACA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.25, C:0.08, G:0.33, T:0.33
Consensus pattern (31 bp):
GAATTTCCATTGGAGGTGGAGTAGTCTAGAT
Found at i:10721255 original size:21 final size:21
Alignment explanation
Indices: 10721230--10721269 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
10721220 AAGAGCCGAG
*
10721230 GAGCAGTATTACAAAGTCAAT
1 GAGCAGTATCACAAAGTCAAT
*
10721251 GAGCATTATCACAAAGTCA
1 GAGCAGTATCACAAAGTCA
10721270 CAGTTCATCT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.42, C:0.17, G:0.17, T:0.23
Consensus pattern (21 bp):
GAGCAGTATCACAAAGTCAAT
Found at i:10725282 original size:21 final size:21
Alignment explanation
Indices: 10725258--10725299 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
10725248 AGACAAGGTA
10725258 TAGGATTCCTTAGTAACTTAG
1 TAGGATTCCTTAGTAACTTAG
10725279 TAGGATTCCTTAGTAACTTAG
1 TAGGATTCCTTAGTAACTTAG
10725300 CATTCTTTAC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.29, C:0.14, G:0.19, T:0.38
Consensus pattern (21 bp):
TAGGATTCCTTAGTAACTTAG
Found at i:10727409 original size:25 final size:25
Alignment explanation
Indices: 10727381--10727428 Score: 71
Period size: 25 Copynumber: 1.9 Consensus size: 25
10727371 CTCAGCTCTG
*
10727381 CTCC-AGACAGCTCAGCTCGACTCGT
1 CTCCGAGA-AGCTCAGCTCAACTCGT
10727406 CTCCGAGAAGCTCAGCTCAACTC
1 CTCCGAGAAGCTCAGCTCAACTC
10727429 CAGACGATTC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 18 0.86
26 3 0.14
ACGTcount: A:0.23, C:0.40, G:0.19, T:0.19
Consensus pattern (25 bp):
CTCCGAGAAGCTCAGCTCAACTCGT
Found at i:10728665 original size:182 final size:181
Alignment explanation
Indices: 10728357--10728951 Score: 851
Period size: 182 Copynumber: 3.3 Consensus size: 181
10728347 CGTAACAAAT
* * *
10728357 TAAAAATGTATCGATCCATAGCAACATAACAGGTAAAAATATGATAAAACCGATG-C-C-ATTAT
1 TAAAAATGTATCGATCCATAGCAATATAACAGGTAAAAATATGACAAAA-C-ATGTCTCGA-AAT
*** *
10728419 GATAAAA-CGGTAAAGCGCTACCGGATATATTGAAAGTGTCGATAAATTAATATAAGTGTCGACA
63 GATAAAACCGGTAAAAAACTACCGGATATATTGAAAGTGTCGATAAATTAATATAAGTATCGACA
10728483 CTTTTGTAATTTAAAAGAGAAGAAGTTATAGCGCCTAAAAGGTGTCGATACTTTA
128 CTTTTGTAATTTAAAAGAGAAGAAGTTATAGCGCCTAAAA-GTGTCGATACTTTA
* * *
10728538 TAAAAATATGTCGATCCATAGCAATATAACAGGTAATAATATGACAAAACATGTCTCGAAATGAT
1 TAAAAATGTATCGATCCATAGCAATATAACAGGTAAAAATATGACAAAACATGTCTCGAAATGAT
10728603 AAAACCGGTAAAAAACTACCGGATATATTGAAAGTGTCGATAAATTAATATAAGTATCGACACTT
66 AAAACCGGTAAAAAACTACCGGATATATTGAAAGTGTCGATAAATTAATATAAGTATCGACACTT
10728668 TTGTAATTTAAAAGAGAAGAAGTTATAGCGCCTGAAAAGTGTCGATACTTTA
131 TTGTAATTTAAAAGAGAAGAAGTTATAGCGCCT-AAAAGTGTCGATACTTTA
* * * * * * * * *
10728720 TACAAATGTATTGATCTATAGTAATATATCCGGTAATAATATGACAAAAGAGGTCTCGAAATGAT
1 TAAAAATGTATCGATCCATAGCAATATAACAGGTAAAAATATGACAAAACATGTCTCGAAATGAT
10728785 AAAACCGGTAAAAAGA-TACCGGATATATTGAAAGTGTCGATAAATTAATATAAGTATCGACACT
66 AAAACCGGTAAAAA-ACTACCGGATATATTGAAAGTGTCGATAAATTAATATAAGTATCGACACT
* * *
10728849 TTCGTAATTTAAAAGAGAAGAAATTATAACGCCTAAAAAGTGTCGATACTTTA
130 TTTGTAATTTAAAAGAGAAGAAGTTATAGCGCCT-AAAAGTGTCGATACTTTA
* * *
10728902 -AGAAAATGTATCGATCCATAACAATATAATAGGTAAAAATATGATAAAAC
1 TA-AAAATGTATCGATCCATAGCAATATAACAGGTAAAAATATGACAAAAC
10728952 CGGTAAAGCG
Statistics
Matches: 372, Mismatches: 35, Indels: 13
0.89 0.08 0.03
Matches are distributed among these distances:
179 3 0.01
180 2 0.01
181 55 0.15
182 307 0.83
183 5 0.01
ACGTcount: A:0.44, C:0.12, G:0.17, T:0.27
Consensus pattern (181 bp):
TAAAAATGTATCGATCCATAGCAATATAACAGGTAAAAATATGACAAAACATGTCTCGAAATGAT
AAAACCGGTAAAAAACTACCGGATATATTGAAAGTGTCGATAAATTAATATAAGTATCGACACTT
TTGTAATTTAAAAGAGAAGAAGTTATAGCGCCTAAAAGTGTCGATACTTTA
Found at i:10730439 original size:106 final size:107
Alignment explanation
Indices: 10730319--10730511 Score: 262
Period size: 106 Copynumber: 1.8 Consensus size: 107
10730309 ATGACAAATG
* * * *
10730319 ATATAATGTAATAGGTAAATTGACAATGTAACCAGTACACATATACC-GTTTAATTATAAAATAG
1 ATATAATGTAATAGGTAAATTGACAATGTAACCAGTACAAATATACCGGGTTAATGAGAAAATAG
*
10730383 GTTAACATAAAGTATCGACACTATTAGATTTTGTGTCGATAA
66 GTCAACATAAAGTATCGACACTATTAGATTTTGTGTCGATAA
*** * * * * *
10730425 ATATAATGTAATAGGTAAATTTTTAATGTAACCGGTAGAAATATACCGGGTTCATGAGAGAATAT
1 ATATAATGTAATAGGTAAATTGACAATGTAACCAGTACAAATATACCGGGTTAATGAGAAAATAG
10730490 GTCAACATAAAGTATCGACACT
66 GTCAACATAAAGTATCGACACT
10730512 TTGTTTAATT
Statistics
Matches: 73, Mismatches: 13, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
106 41 0.56
107 32 0.44
ACGTcount: A:0.41, C:0.11, G:0.16, T:0.32
Consensus pattern (107 bp):
ATATAATGTAATAGGTAAATTGACAATGTAACCAGTACAAATATACCGGGTTAATGAGAAAATAG
GTCAACATAAAGTATCGACACTATTAGATTTTGTGTCGATAA
Found at i:10730857 original size:197 final size:199
Alignment explanation
Indices: 10730419--10730868 Score: 538
Period size: 197 Copynumber: 2.3 Consensus size: 199
10730409 GATTTTGTGT
* * *
10730419 CGATAAATATAATGTAATAGGTAAATTTTTAATGTAACCGG-TAGAAATATACCGGGTTCATGAG
1 CGATAATTATAATGTAATAGGTAAATTTATAATGTAACCGGTTA-AAATATACCGGGTTAATGAG
* * * * *
10730483 AGAATATGTCAACATAAAGTATCGACACTTTGTTTAATTTGTGTCGATACATTTTTTCAAAATGA
65 AGAATAGGTCAACATAAAGTATCAACACTCTGTTAAATATGTGTCGATACATTTTTTCAAAATGA
* * *
10730548 ATGGAAAACGAGGTGTACGCATAAAGTGTCGATACATTTTTAAAAAGTATCGATCCTCGAAACAT
130 AAGCAAAACGAGGTGCACGCATAAAGTGTCGATACA-TTTTAAAAAGTATCGATCCTCGAAACAT
*
10730613 CGAAAT
194 CGAAAC
* * * * *
10730619 CGATAATTATTATGTAACAGGTAAATTTACAATGTAACCGGTTAAAATATACC-TGTTAATTAGC
1 CGATAATTATAATGTAATAGGTAAATTTATAATGTAACCGGTTAAAATATACCGGGTTAATGAG-
* * * *
10730683 A-AATAGGTCTACATTATGTATTAACACTCT-TTAAATATGTGTCGATAC-TTTTTTCCAAAAT-
65 AGAATAGGTCAACATAAAGTATCAACACTCTGTTAAATATGTGTCGATACATTTTTT-CAAAATG
* *
10730744 AAAGCACAAACGAGTTGCACGCATAAAGTGTCGATACA-TTTAAAATTGTATCGATCCT-GAAAA
129 AAAGCA-AAACGAGGTGCACGCATAAAGTGTCGATACATTTTAAAA-AGTATCGATCCTCG-AAA
10730807 CATCGAAAC
191 CATCGAAAC
* * * *
10730816 CGATATTTATAATGTAATAGGTCAATTTATAATGTAACCGGTTTAAATTTACC
1 CGATAATTATAATGTAATAGGTAAATTTATAATGTAACCGGTTAAAATATACC
10730869 ATTTTTATGA
Statistics
Matches: 214, Mismatches: 30, Indels: 15
0.83 0.12 0.06
Matches are distributed among these distances:
196 8 0.04
197 78 0.36
198 51 0.24
199 29 0.14
200 46 0.21
201 2 0.01
ACGTcount: A:0.38, C:0.14, G:0.16, T:0.33
Consensus pattern (199 bp):
CGATAATTATAATGTAATAGGTAAATTTATAATGTAACCGGTTAAAATATACCGGGTTAATGAGA
GAATAGGTCAACATAAAGTATCAACACTCTGTTAAATATGTGTCGATACATTTTTTCAAAATGAA
AGCAAAACGAGGTGCACGCATAAAGTGTCGATACATTTTAAAAAGTATCGATCCTCGAAACATCG
AAAC
Found at i:10730994 original size:87 final size:87
Alignment explanation
Indices: 10730891--10731053 Score: 265
Period size: 87 Copynumber: 1.9 Consensus size: 87
10730881 AAATATGTCA
*
10730891 ATATAAGCGCTACCTATTACATTATATAAGCGCTACCTAATTTGTTATTGTACTTG-ATAATATT
1 ATATAAGCGCTACCTATTACATTATATAAGCGCTACCTAATATGTTATTGTACTTGCA-AATATT
10730955 TCCGGTTAAATGCCTATTTTATT
65 TCCGGTTAAATGCCTATTTTATT
* * * *
10730978 ATATAAGCGCTACCTATTACATTATCTAAGTGCTATCTAATATGTTATTGTGCTTGCAAATATTT
1 ATATAAGCGCTACCTATTACATTATATAAGCGCTACCTAATATGTTATTGTACTTGCAAATATTT
10731043 CCGGTTAAATG
66 CCGGTTAAATG
10731054 ATATAACATA
Statistics
Matches: 70, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
87 69 0.99
88 1 0.01
ACGTcount: A:0.30, C:0.16, G:0.13, T:0.41
Consensus pattern (87 bp):
ATATAAGCGCTACCTATTACATTATATAAGCGCTACCTAATATGTTATTGTACTTGCAAATATTT
CCGGTTAAATGCCTATTTTATT
Found at i:10734359 original size:141 final size:141
Alignment explanation
Indices: 10734105--10734529 Score: 832
Period size: 141 Copynumber: 3.0 Consensus size: 141
10734095 TCTCATGATG
*
10734105 TGGTGGGTGATGTGAATTTTTTATCCATTACAAAATTAAATATTTTCCTTAAATATGACATATCA
1 TGGTGGGTGATGTGAATATTTTATCCATTACAAAATTAAATATTTTCCTTAAATATGACATATCA
10734170 TTTTAAATATTCTTAATTAAAAAGAATATTATATGATTTCCTTTAATTCAAATGTTAATATGATA
66 TTTTAAATATTCTTAATTAAAAAGAATATTATATGATTTCCTTTAATTCAAATGTTAATATGATA
10734235 TGACTTACAAT
131 TGACTTACAAT
10734246 TGGTGGGTGATGTGAATATTTTATCCATTACAAAATTAAATATTTTCCTTAAATATGACATATCA
1 TGGTGGGTGATGTGAATATTTTATCCATTACAAAATTAAATATTTTCCTTAAATATGACATATCA
10734311 TTTTAAATATTCTTAATTAAAAAGAATATTATATGATTTCCTTTAATTCAAATGTTAATATGATA
66 TTTTAAATATTCTTAATTAAAAAGAATATTATATGATTTCCTTTAATTCAAATGTTAATATGATA
10734376 TGACTTACAAT
131 TGACTTACAAT
10734387 TGGTGGGTGATGTGAATATTTTATCCATTACAAAATTAAATATTTTCCTTAAATATGACATATCA
1 TGGTGGGTGATGTGAATATTTTATCCATTACAAAATTAAATATTTTCCTTAAATATGACATATCA
10734452 TTTTAAATATTCTTAATTAAAAAGAATATTATATGATTTCCTTTTAATTCAAATGTTAATATGAT
66 TTTTAAATATTCTTAATTAAAAAGAATATTATATGATTTCC-TTTAATTCAAATGTTAATATGAT
10734517 ATGACTTACAAT
130 ATGACTTACAAT
10734529 T
1 T
10734530 CATAAATATA
Statistics
Matches: 282, Mismatches: 1, Indels: 1
0.99 0.00 0.00
Matches are distributed among these distances:
141 246 0.87
142 36 0.13
ACGTcount: A:0.38, C:0.09, G:0.10, T:0.43
Consensus pattern (141 bp):
TGGTGGGTGATGTGAATATTTTATCCATTACAAAATTAAATATTTTCCTTAAATATGACATATCA
TTTTAAATATTCTTAATTAAAAAGAATATTATATGATTTCCTTTAATTCAAATGTTAATATGATA
TGACTTACAAT
Found at i:10734875 original size:29 final size:29
Alignment explanation
Indices: 10734843--10734929 Score: 138
Period size: 29 Copynumber: 3.0 Consensus size: 29
10734833 TATTAATTAT
10734843 AAGGACTAAAATGAATTTTAATTAAATTC
1 AAGGACTAAAATGAATTTTAATTAAATTC
10734872 AAGGACTAAAATGAATTTTAATTAAATTC
1 AAGGACTAAAATGAATTTTAATTAAATTC
* * *
10734901 AAGGACTAAAGTGAAGTTTTCATAAAATT
1 AAGGACTAAAATGAA-TTTTAATTAAATT
10734930 TGGGTCAAAT
Statistics
Matches: 54, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
29 43 0.80
30 11 0.20
ACGTcount: A:0.47, C:0.07, G:0.13, T:0.33
Consensus pattern (29 bp):
AAGGACTAAAATGAATTTTAATTAAATTC
Found at i:10741872 original size:15 final size:14
Alignment explanation
Indices: 10741840--10741884 Score: 54
Period size: 15 Copynumber: 3.0 Consensus size: 14
10741830 TAGAGTTTCC
*
10741840 TTTTGTTTAGTTTAT
1 TTTTGTTTA-TTTTT
10741855 TTTTGTTTTATTTTT
1 TTTTG-TTTATTTTT
10741870 TTTTGGTTTATTTTT
1 TTTT-GTTTATTTTT
10741885 ATAATATAAC
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
15 22 0.81
16 5 0.19
ACGTcount: A:0.09, C:0.00, G:0.11, T:0.80
Consensus pattern (14 bp):
TTTTGTTTATTTTT
Found at i:10741910 original size:2 final size:2
Alignment explanation
Indices: 10741903--10741945 Score: 50
Period size: 2 Copynumber: 21.0 Consensus size: 2
10741893 ACATTATAAT
* * *
10741903 TA TA TA TA TA TA TA TA TA TG TA TG TA TG TA TA CTA 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
10741946 GTTTGAAAAA
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
2 32 0.94
3 2 0.06
ACGTcount: A:0.42, C:0.02, G:0.07, T:0.49
Consensus pattern (2 bp):
TA
Found at i:10741969 original size:27 final size:29
Alignment explanation
Indices: 10741927--10741993 Score: 93
Period size: 29 Copynumber: 2.3 Consensus size: 29
10741917 TATATGTATG
10741927 TATGTATACTATATATATAG-TTTGAAAAA
1 TATGTATA-TATATATATAGTTTTGAAAAA
*
10741956 TATGTATATA-ATATATAGTTTTGAAATA
1 TATGTATATATATATATAGTTTTGAAAAA
10741984 TATGGTATAT
1 TAT-GTATAT
10741994 TTTTGAAAAT
Statistics
Matches: 35, Mismatches: 1, Indels: 4
0.88 0.03 0.10
Matches are distributed among these distances:
27 8 0.23
28 13 0.37
29 14 0.40
ACGTcount: A:0.42, C:0.01, G:0.12, T:0.45
Consensus pattern (29 bp):
TATGTATATATATATATAGTTTTGAAAAA
Found at i:10741984 original size:20 final size:20
Alignment explanation
Indices: 10741961--10742012 Score: 54
Period size: 20 Copynumber: 2.6 Consensus size: 20
10741951 AAAAATATGT
10741961 ATATAATATATAGTTTTGAA
1 ATATAATATATAGTTTTGAA
* *
10741981 ATAT-ATGGTATATTTTTGAA
1 ATATAAT-ATATAGTTTTGAA
10742001 A-ATAAATATATA
1 ATAT-AATATATA
10742013 ATAAAGTATT
Statistics
Matches: 26, Mismatches: 3, Indels: 6
0.74 0.09 0.17
Matches are distributed among these distances:
19 4 0.15
20 20 0.77
21 2 0.08
ACGTcount: A:0.46, C:0.00, G:0.10, T:0.44
Consensus pattern (20 bp):
ATATAATATATAGTTTTGAA
Found at i:10741985 original size:22 final size:21
Alignment explanation
Indices: 10741960--10742012 Score: 58
Period size: 22 Copynumber: 2.6 Consensus size: 21
10741950 GAAAAATATG
10741960 TATATAATATATAGTTTTGAAA
1 TATATAATATATA-TTTTGAAA
**
10741982 TATATGGTATAT-TTTTGAAA
1 TATATAATATATATTTTGAAA
10742002 -ATA-AATATATA
1 TATATAATATATA
10742013 ATAAAGTATT
Statistics
Matches: 26, Mismatches: 4, Indels: 5
0.74 0.11 0.14
Matches are distributed among these distances:
18 5 0.19
19 3 0.12
20 8 0.31
22 10 0.38
ACGTcount: A:0.45, C:0.00, G:0.09, T:0.45
Consensus pattern (21 bp):
TATATAATATATATTTTGAAA
Found at i:10749721 original size:190 final size:188
Alignment explanation
Indices: 10749349--10749723 Score: 527
Period size: 188 Copynumber: 2.0 Consensus size: 188
10749339 GCAAATAGTA
* * *
10749349 TGAGAGATCAGAAGGACTGGATGATAGAACCTGTAACATTTCTTTGTGATGTTGTTGGTAACCCA
1 TGAGAGATCAGAAGGACTGGAGGATAGAACCTGTAACATTTCTTTGTAACGTTGTTGGTAACCCA
* ** *
10749414 TCAAGAAACATATAATCGCCTTATTCGAAAAGGGAACATATCCAGTTCATAACAAAAATGCAAGA
66 TCAAGAAACAAATAATCGCCTTATTCGAAAAGGGAACATATCCAACTCATAAAAAAAATGCAAGA
*
10749479 AATTTTGTTAGAAGAATTAATCACTTCTTAAGTGTCCATGGCAACATGAAGAGAAGTC
131 AATTTTGTTAGAAGAATTAATCACTTCTTAAGTGTCCATGGAAACATGAAGAGAAGTC
* * * *
10749537 TGAGATATCAGAAGGGCTGGAGGATAGAACTTGTAACATTTCTTTGTAACGTTGTCT-GTAACCT
1 TGAGAGATCAGAAGGACTGGAGGATAGAACCTGTAACATTTCTTTGTAACGTTGT-TGGTAACCC
* * * * *
10749601 GTTAAGAAGCAAATAATCGCCTTATTCGAAAAGGGCATATATCCCAACTCATAGAAAAAAATGCA
65 ATCAAGAAACAAATAATCGCCTTATTCGAAAAGGGAACATAT-CCAACTCATA-AAAAAAATGCA
* * * *
10749666 ATACATTTTGTTAGAAGAATTGATCACTTCTTAAGTGTCCGTGGAAACATGAAGAGAA
128 AGAAATTTTGTTAGAAGAATTAATCACTTCTTAAGTGTCCATGGAAACATGAAGAGAA
10749724 ACCCTCATGC
Statistics
Matches: 163, Mismatches: 21, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
188 91 0.56
189 9 0.06
190 63 0.39
ACGTcount: A:0.37, C:0.15, G:0.20, T:0.28
Consensus pattern (188 bp):
TGAGAGATCAGAAGGACTGGAGGATAGAACCTGTAACATTTCTTTGTAACGTTGTTGGTAACCCA
TCAAGAAACAAATAATCGCCTTATTCGAAAAGGGAACATATCCAACTCATAAAAAAAATGCAAGA
AATTTTGTTAGAAGAATTAATCACTTCTTAAGTGTCCATGGAAACATGAAGAGAAGTC
Found at i:10750055 original size:88 final size:88
Alignment explanation
Indices: 10749904--10750100 Score: 250
Period size: 88 Copynumber: 2.2 Consensus size: 88
10749894 TTACAACTTG
* * *
10749904 AAATGTTGGGATATTTTTGAAGGCTTATATCATCCAGAAATGATAAATGTTACGATATATTTTAA
1 AAATGTTGAGATATTTTTGAAGGCTCATATAATCCAGAAATGATAAATGTTACGATATATTTTAA
* * *
10749969 GGCTGATATCATCTAAAAATGAT
66 GGATCATATCATCCAAAAATGAT
* * ** * *
10749992 AAATGTTGAGATATTTTTGAAGGCTCATATAATCTAGAAATTATAAATGTTGGGGTATTTTTTAA
1 AAATGTTGAGATATTTTTGAAGGCTCATATAATCCAGAAATGATAAATGTTACGATATATTTTAA
* *
10750057 GGATCATATCATCCAGATATGAT
66 GGATCATATCATCCAAAAATGAT
**
10750080 AAATGTTGAGGCATTTTTGAA
1 AAATGTTGAGATATTTTTGAA
10750101 AGCCTGTATC
Statistics
Matches: 93, Mismatches: 16, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
88 93 1.00
ACGTcount: A:0.36, C:0.08, G:0.18, T:0.38
Consensus pattern (88 bp):
AAATGTTGAGATATTTTTGAAGGCTCATATAATCCAGAAATGATAAATGTTACGATATATTTTAA
GGATCATATCATCCAAAAATGAT
Found at i:10750087 original size:44 final size:44
Alignment explanation
Indices: 10749904--10750100 Score: 227
Period size: 44 Copynumber: 4.5 Consensus size: 44
10749894 TTACAACTTG
* *
10749904 AAATGTTGGGATATTTTTGAAGGCTTATATCATCCAGAAATGAT
1 AAATGTTGAGATATTTTTGAAGGCTCATATCATCCAGAAATGAT
* * *
10749948 AAATGTT-ACGATATATTTT-AAGGCTGATATCATCTAAAAATGAT
1 AAATGTTGA-GATAT-TTTTGAAGGCTCATATCATCCAGAAATGAT
* * *
10749992 AAATGTTGAGATATTTTTGAAGGCTCATATAATCTAGAAATTAT
1 AAATGTTGAGATATTTTTGAAGGCTCATATCATCCAGAAATGAT
* * * * *
10750036 AAATGTTGGGGTATTTTTTAAGGATCATATCATCCAGATATGAT
1 AAATGTTGAGATATTTTTGAAGGCTCATATCATCCAGAAATGAT
**
10750080 AAATGTTGAGGCATTTTTGAA
1 AAATGTTGAGATATTTTTGAA
10750101 AGCCTGTATC
Statistics
Matches: 130, Mismatches: 19, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
43 4 0.03
44 121 0.93
45 5 0.04
ACGTcount: A:0.36, C:0.08, G:0.18, T:0.38
Consensus pattern (44 bp):
AAATGTTGAGATATTTTTGAAGGCTCATATCATCCAGAAATGAT
Found at i:10753749 original size:29 final size:29
Alignment explanation
Indices: 10753704--10753773 Score: 78
Period size: 27 Copynumber: 2.5 Consensus size: 29
10753694 TATTATAGTT
10753704 AATATAT-GTATACT-ATATA-TAGTTTGA
1 AATATATAGTATA-TAATATATTAGTTTGA
*
10753731 AA-A-ATACGTATATAATATATTGGTTTGA
1 AATATATA-GTATATAATATATTAGTTTGA
10753759 AATATATAGTATATA
1 AATATATAGTATATA
10753774 GTGTTTGAAA
Statistics
Matches: 36, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
25 2 0.06
26 2 0.06
27 12 0.33
28 9 0.25
29 8 0.22
30 3 0.08
ACGTcount: A:0.44, C:0.03, G:0.11, T:0.41
Consensus pattern (29 bp):
AATATATAGTATATAATATATTAGTTTGA
Found at i:10753764 original size:22 final size:23
Alignment explanation
Indices: 10753739--10753797 Score: 66
Period size: 22 Copynumber: 2.6 Consensus size: 23
10753729 GAAAAATACG
*
10753739 TATATAATATATTG-GTTTGAAA
1 TATATAATATATAGTGTTTGAAA
*
10753761 TATATAGTATATAGTGTTTGAAA
1 TATATAATATATAGTGTTTGAAA
* *
10753784 AAAATATATATATA
1 TATATA-ATATATA
10753798 ATATATGGTT
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
22 12 0.40
23 12 0.40
24 6 0.20
ACGTcount: A:0.46, C:0.00, G:0.12, T:0.42
Consensus pattern (23 bp):
TATATAATATATAGTGTTTGAAA
Found at i:10753766 original size:24 final size:23
Alignment explanation
Indices: 10753739--10753797 Score: 57
Period size: 24 Copynumber: 2.5 Consensus size: 23
10753729 GAAAAATACG
* *
10753739 TATATAATATATTGGTTTGAAATA
1 TATATAATATAGT-GTTTGAAAAA
10753763 TATAGT-ATATAGTGTTTGAAAAA
1 TATA-TAATATAGTGTTTGAAAAA
*
10753786 AATATATATATA
1 TATATA-ATATA
10753798 ATATATGGTT
Statistics
Matches: 29, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
22 1 0.03
23 12 0.41
24 15 0.52
25 1 0.03
ACGTcount: A:0.46, C:0.00, G:0.12, T:0.42
Consensus pattern (23 bp):
TATATAATATAGTGTTTGAAAAA
Found at i:10753771 original size:27 final size:28
Alignment explanation
Indices: 10753689--10753771 Score: 72
Period size: 28 Copynumber: 3.1 Consensus size: 28
10753679 TATTTAATAA
10753689 TATAATAT-TATAG-TT--AATATAT-G
1 TATAATATATATAGTTTGAAATATATAG
* *
10753712 TATACTATATATAGTTTGAAAAATACGTA-
1 TATAATATATATAGTTTGAAATATA--TAG
*
10753741 TATAATATAT-TGGTTTGAAATATATAG
1 TATAATATATATAGTTTGAAATATATAG
10753768 TATA
1 TATA
10753772 TAGTGTTTGA
Statistics
Matches: 47, Mismatches: 5, Indels: 12
0.73 0.08 0.19
Matches are distributed among these distances:
23 7 0.15
24 5 0.11
25 2 0.04
26 2 0.04
27 9 0.19
28 12 0.26
29 10 0.21
ACGTcount: A:0.43, C:0.02, G:0.11, T:0.43
Consensus pattern (28 bp):
TATAATATATATAGTTTGAAATATATAG
Found at i:10753780 original size:51 final size:51
Alignment explanation
Indices: 10753712--10753810 Score: 130
Period size: 53 Copynumber: 1.9 Consensus size: 51
10753702 TTAATATATG
*
10753712 TATACTATATATAGTTTG-AAAAATACGTATATAATATATTGGTTTGAAATA
1 TATACTATATATAGTTTGAAAAAATACATATATAATATA-TGGTTTGAAATA
* *
10753763 TATAGTATATAGT-GTTTGAAAAAAATATATATATAATATATGGTTTGA
1 TATACTATATA-TAGTTTG-AAAAAATACATATATAATATATGGTTTGA
10753811 GAAATAAATA
Statistics
Matches: 42, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
51 15 0.36
52 9 0.21
53 18 0.43
ACGTcount: A:0.43, C:0.02, G:0.13, T:0.41
Consensus pattern (51 bp):
TATACTATATATAGTTTGAAAAAATACATATATAATATATGGTTTGAAATA
Found at i:10753803 original size:31 final size:31
Alignment explanation
Indices: 10753760--10753825 Score: 91
Period size: 31 Copynumber: 2.1 Consensus size: 31
10753750 TTGGTTTGAA
*
10753760 ATATATAGTATATAGTGTTTGA-AAA-AAATAT
1 ATATATAATATAT-G-GTTTGAGAAATAAATAT
10753791 ATATATAATATATGGTTTGAGAAATAAATAT
1 ATATATAATATATGGTTTGAGAAATAAATAT
10753822 ATAT
1 ATAT
10753826 GGTGTATTTT
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
29 6 0.19
30 4 0.12
31 22 0.69
ACGTcount: A:0.48, C:0.00, G:0.12, T:0.39
Consensus pattern (31 bp):
ATATATAATATATGGTTTGAGAAATAAATAT
Found at i:10753825 original size:53 final size:53
Alignment explanation
Indices: 10753730--10753830 Score: 134
Period size: 53 Copynumber: 1.9 Consensus size: 53
10753720 ATATAGTTTG
* *
10753730 AAAAATACGTATATAATATATTGGTTTGAAATATATAGTATATAGTGTTTGAA
1 AAAAATACATATATAATATATTGGTTTGAAATAAATAGTATATAGTGTTTGAA
* *
10753783 AAAAATATATATATAATATA-TGGTTTGAGAAATAAATA-TATATGGTGT
1 AAAAATACATATATAATATATTGGTTT--GAAATAAATAGTATATAGTGT
10753831 ATTTTTTAAA
Statistics
Matches: 42, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
52 6 0.14
53 27 0.64
54 9 0.21
ACGTcount: A:0.46, C:0.01, G:0.15, T:0.39
Consensus pattern (53 bp):
AAAAATACATATATAATATATTGGTTTGAAATAAATAGTATATAGTGTTTGAA
Found at i:10757176 original size:17 final size:17
Alignment explanation
Indices: 10757154--10757203 Score: 66
Period size: 17 Copynumber: 3.0 Consensus size: 17
10757144 TTAATATTTT
10757154 GTATTTAATTTATTTAA
1 GTATTTAATTTATTTAA
*
10757171 GTATTTAATTGATTTAA
1 GTATTTAATTTATTTAA
* *
10757188 -TATTTTACTTATTTAA
1 GTATTTAATTTATTTAA
10757204 TTTTTTACAG
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
16 13 0.45
17 16 0.55
ACGTcount: A:0.34, C:0.02, G:0.06, T:0.58
Consensus pattern (17 bp):
GTATTTAATTTATTTAA
Found at i:10757201 original size:16 final size:16
Alignment explanation
Indices: 10757163--10757211 Score: 55
Period size: 16 Copynumber: 3.0 Consensus size: 16
10757153 TGTATTTAAT
*
10757163 TTATTTAAGTA-TTTAA
1 TTATTTAA-TATTTTAC
10757179 TTGATTTAATATTTTAC
1 TT-ATTTAATATTTTAC
*
10757196 TTATTTAATTTTTTAC
1 TTATTTAATATTTTAC
10757212 AGATATGAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
16 17 0.59
17 12 0.41
ACGTcount: A:0.31, C:0.04, G:0.04, T:0.61
Consensus pattern (16 bp):
TTATTTAATATTTTAC
Found at i:10758929 original size:27 final size:27
Alignment explanation
Indices: 10758883--10758940 Score: 71
Period size: 27 Copynumber: 2.1 Consensus size: 27
10758873 AGCCATATAT
*
10758883 GATGTCACCACCACCTTTCCATTACCA
1 GATGTCACCACCACCATTCCATTACCA
* * * *
10758910 GATGTCACCGCCGCCATTCCCTTACCC
1 GATGTCACCACCACCATTCCATTACCA
10758937 GATG
1 GATG
10758941 CCGCCGCTGC
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.21, C:0.41, G:0.14, T:0.24
Consensus pattern (27 bp):
GATGTCACCACCACCATTCCATTACCA
Found at i:10758947 original size:27 final size:27
Alignment explanation
Indices: 10758899--10758952 Score: 63
Period size: 27 Copynumber: 2.0 Consensus size: 27
10758889 ACCACCACCT
*
10758899 TTCCATTACCAGATGTCACCGCCGCCA
1 TTCCATTACCAGATGCCACCGCCGCCA
* * * *
10758926 TTCCCTTACCCGATGCCGCCGCTGCCA
1 TTCCATTACCAGATGCCACCGCCGCCA
10758953 CCATCACCTG
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.17, C:0.44, G:0.17, T:0.22
Consensus pattern (27 bp):
TTCCATTACCAGATGCCACCGCCGCCA
Found at i:10762765 original size:21 final size:21
Alignment explanation
Indices: 10762739--10762783 Score: 72
Period size: 21 Copynumber: 2.1 Consensus size: 21
10762729 AGAAATATTA
* *
10762739 AAAAATATTACTATTTTAAAT
1 AAAAATAATAATATTTTAAAT
10762760 AAAAATAATAATATTTTAAAT
1 AAAAATAATAATATTTTAAAT
10762781 AAA
1 AAA
10762784 TTTTACAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (21 bp):
AAAAATAATAATATTTTAAAT
Found at i:10764875 original size:20 final size:20
Alignment explanation
Indices: 10764850--10764892 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
10764840 TCTTAGAACT
*
10764850 CATTTAGGATCATATAGATG
1 CATTTAGGAGCATATAGATG
*
10764870 CATTTAGGAGCATATAGTTG
1 CATTTAGGAGCATATAGATG
10764890 CAT
1 CAT
10764893 GTGGTGAAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.33, C:0.12, G:0.21, T:0.35
Consensus pattern (20 bp):
CATTTAGGAGCATATAGATG
Found at i:10779027 original size:15 final size:15
Alignment explanation
Indices: 10779007--10779076 Score: 60
Period size: 15 Copynumber: 4.9 Consensus size: 15
10778997 ACCAATTACG
10779007 CTTCCTCCAGTTGAA
1 CTTCCTCCAGTTGAA
10779022 CTTCCTCCAG-T-AA
1 CTTCCTCCAGTTGAA
10779035 CTATTCCTCCAG-TGAA
1 C--TTCCTCCAGTTGAA
* *
10779051 --GCCACCAGTTGAA
1 CTTCCTCCAGTTGAA
*
10779064 CTCCCTCCAGTTG
1 CTTCCTCCAGTTG
10779077 TTAAACCACC
Statistics
Matches: 45, Mismatches: 4, Indels: 12
0.74 0.07 0.20
Matches are distributed among these distances:
12 6 0.13
13 7 0.16
14 1 0.02
15 29 0.64
16 2 0.04
ACGTcount: A:0.21, C:0.36, G:0.14, T:0.29
Consensus pattern (15 bp):
CTTCCTCCAGTTGAA
Found at i:10779233 original size:15 final size:15
Alignment explanation
Indices: 10779215--10779251 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 15
10779205 CCAGCTACAC
*
10779215 TTCCTCCAGTGACTG
1 TTCCTCCAGTGACGG
*
10779230 TTCCTCCGGTGACGG
1 TTCCTCCAGTGACGG
10779245 TTCCTCC
1 TTCCTCC
10779252 TGTACTGAAG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.08, C:0.38, G:0.22, T:0.32
Consensus pattern (15 bp):
TTCCTCCAGTGACGG
Found at i:10780423 original size:58 final size:57
Alignment explanation
Indices: 10780333--10780464 Score: 169
Period size: 58 Copynumber: 2.3 Consensus size: 57
10780323 CCAAAAGGAG
* * * *
10780333 AAAG-TATACAAATGGTCCCGACTATATCATATTATTTTTTGAGTTCTC-AACTATTA
1 AAAGTTATA-AAATGGTCCCGACTATAGCATATTATTTTGTGAGTCCCCTAACTATTA
*
10780389 AAAGTTATAAAATGGCTCCCTGACTATAGGATATTATTTTGTGAGTCCCCTAACTATTA
1 AAAGTTATAAAATGG-TCCC-GACTATAGCATATTATTTTGTGAGTCCCCTAACTATTA
*
10780448 AAAGTTACAAAATGGTC
1 AAAGTTATAAAATGGTC
10780465 ACCCAACTAT
Statistics
Matches: 66, Mismatches: 6, Indels: 6
0.85 0.08 0.08
Matches are distributed among these distances:
56 10 0.15
57 8 0.12
58 26 0.39
59 22 0.33
ACGTcount: A:0.35, C:0.16, G:0.14, T:0.36
Consensus pattern (57 bp):
AAAGTTATAAAATGGTCCCGACTATAGCATATTATTTTGTGAGTCCCCTAACTATTA
Found at i:10780474 original size:59 final size:58
Alignment explanation
Indices: 10780361--10780474 Score: 149
Period size: 59 Copynumber: 1.9 Consensus size: 58
10780351 CGACTATATC
* * * * **
10780361 ATATTATTTTTTGAGTTCTCAACTATTAAAAGTTATAAAATGGCTCCCTGACTATAGG
1 ATATTATTTTGTGAGTCCCCAACTATTAAAAGTTACAAAATGGCTCCCCAACTATAGG
10780419 ATATTATTTTGTGAGTCCCCTAACTATTAAAAGTTACAAAATGG-TCACCCAACTAT
1 ATATTATTTTGTGAGTCCCC-AACTATTAAAAGTTACAAAATGGCTC-CCCAACTAT
10780475 TTAAATGTTC
Statistics
Matches: 48, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
58 19 0.40
59 29 0.60
ACGTcount: A:0.34, C:0.17, G:0.12, T:0.37
Consensus pattern (58 bp):
ATATTATTTTGTGAGTCCCCAACTATTAAAAGTTACAAAATGGCTCCCCAACTATAGG
Found at i:10790238 original size:23 final size:23
Alignment explanation
Indices: 10790178--10790238 Score: 70
Period size: 23 Copynumber: 2.7 Consensus size: 23
10790168 AAAGTGTATA
* *
10790178 ACTATTCATCATGAATAAATATG
1 ACTATTCATGATGAATAAACATG
* *
10790201 ACTATTCATGGTGAATAGACATG
1 ACTATTCATGATGAATAAACATG
10790224 ACTATGT-ATGATGAA
1 ACTAT-TCATGATGAA
10790239 AAGATGTTAT
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
23 31 0.97
24 1 0.03
ACGTcount: A:0.39, C:0.11, G:0.16, T:0.33
Consensus pattern (23 bp):
ACTATTCATGATGAATAAACATG
Found at i:10790517 original size:2 final size:2
Alignment explanation
Indices: 10790510--10790537 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
10790500 TTACATTCCT
10790510 TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC
10790538 AACTAACTAG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:10792775 original size:21 final size:19
Alignment explanation
Indices: 10792746--10792784 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 19
10792736 AGTTTATTCC
10792746 TAACATTATGTTAATAATTT
1 TAACATTATGTTAA-AATTT
10792766 TAACAATTATGTTAAAATT
1 TAAC-ATTATGTTAAAATT
10792785 GATAAAAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 8 0.44
21 10 0.56
ACGTcount: A:0.44, C:0.05, G:0.05, T:0.46
Consensus pattern (19 bp):
TAACATTATGTTAAAATTT
Found at i:10796806 original size:15 final size:15
Alignment explanation
Indices: 10796782--10796823 Score: 66
Period size: 15 Copynumber: 2.8 Consensus size: 15
10796772 ATCTTGCTTA
*
10796782 ACCGGTTACCCGTCG
1 ACCGGATACCCGTCG
10796797 ACCGGATACCCGTCG
1 ACCGGATACCCGTCG
*
10796812 ACCGGGTACCCG
1 ACCGGATACCCG
10796824 ATTTATTATA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 25 1.00
ACGTcount: A:0.17, C:0.40, G:0.29, T:0.14
Consensus pattern (15 bp):
ACCGGATACCCGTCG
Done.