Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009633.1 Hibiscus syriacus cultivar Beakdansim tig00117032_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: 2608659
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 5 of 13
Found at i:737277 original size:41 final size:41
Alignment explanation
Indices: 737188--737320 Score: 128
Period size: 41 Copynumber: 3.2 Consensus size: 41
737178 AGTCAGTATC
* * * **
737188 GCGTTGCGAAAGTAAGTATCTCGTTGCGATTTT--TTATTAT
1 GCGTTGCGATAGTAAGTATCGCATTGCGATTTTCCCAATT-T
*
737228 CGCATTGCGATAGTAAGTATCGCATTGCGATTTTCCCAATTT
1 -GCGTTGCGATAGTAAGTATCGCATTGCGATTTTCCCAATTT
* ** *
737270 GCGTTGCGAT-TTACTTATTCGCATTGCGATTTTCCCAATTC
1 GCGTTGCGATAGTAAGTA-TCGCATTGCGATTTTCCCAATTT
737311 GCGTTGCGAT
1 GCGTTGCGAT
737321 TTACTTATTC
Statistics
Matches: 78, Mismatches: 11, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
40 4 0.05
41 70 0.90
42 1 0.01
43 3 0.04
ACGTcount: A:0.20, C:0.20, G:0.21, T:0.39
Consensus pattern (41 bp):
GCGTTGCGATAGTAAGTATCGCATTGCGATTTTCCCAATTT
Found at i:737278 original size:21 final size:21
Alignment explanation
Indices: 737247--737322 Score: 91
Period size: 21 Copynumber: 3.7 Consensus size: 21
737237 ATAGTAAGTA
*
737247 TCGCATTGCGATTTTCCCAAT
1 TCGCGTTGCGATTTTCCCAAT
* * **
737268 TTGCGTTGCGA-TTTACTTAT
1 TCGCGTTGCGATTTTCCCAAT
*
737288 TCGCATTGCGATTTTCCCAAT
1 TCGCGTTGCGATTTTCCCAAT
737309 TCGCGTTGCGATTT
1 TCGCGTTGCGATTT
737323 ACTTATTCGC
Statistics
Matches: 43, Mismatches: 11, Indels: 2
0.77 0.20 0.04
Matches are distributed among these distances:
20 15 0.35
21 28 0.65
ACGTcount: A:0.16, C:0.24, G:0.18, T:0.42
Consensus pattern (21 bp):
TCGCGTTGCGATTTTCCCAAT
Found at i:737298 original size:20 final size:20
Alignment explanation
Indices: 737273--737339 Score: 89
Period size: 20 Copynumber: 3.3 Consensus size: 20
737263 CCAATTTGCG
737273 TTGCGATTTACTTATTCGCA
1 TTGCGATTTACTTATTCGCA
* ** *
737293 TTGCGATTTTCCCAATTCGCG
1 TTGCGA-TTTACTTATTCGCA
737314 TTGCGATTTACTTATTCGCA
1 TTGCGATTTACTTATTCGCA
737334 TTGCGA
1 TTGCGA
737340 ATTGGGAAAA
Statistics
Matches: 38, Mismatches: 8, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
20 22 0.58
21 16 0.42
ACGTcount: A:0.18, C:0.22, G:0.18, T:0.42
Consensus pattern (20 bp):
TTGCGATTTACTTATTCGCA
Found at i:737321 original size:41 final size:41
Alignment explanation
Indices: 737247--737339 Score: 177
Period size: 41 Copynumber: 2.3 Consensus size: 41
737237 ATAGTAAGTA
*
737247 TCGCATTGCGATTTTCCCAATTTGCGTTGCGATTTACTTAT
1 TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTTACTTAT
737288 TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTTACTTAT
1 TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTTACTTAT
737329 TCGCATTGCGA
1 TCGCATTGCGA
737340 ATTGGGAAAA
Statistics
Matches: 51, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 51 1.00
ACGTcount: A:0.17, C:0.24, G:0.18, T:0.41
Consensus pattern (41 bp):
TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTTACTTAT
Found at i:738111 original size:13 final size:13
Alignment explanation
Indices: 738093--738117 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
738083 GAGTGCTTCA
738093 TACTATATATTTT
1 TACTATATATTTT
738106 TACTATATATTT
1 TACTATATATTT
738118 GCAGGTTGAT
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:0.32, C:0.08, G:0.00, T:0.60
Consensus pattern (13 bp):
TACTATATATTTT
Found at i:741986 original size:20 final size:20
Alignment explanation
Indices: 741961--742000 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
741951 GGATTTGGCT
*
741961 GGTTTTCCATTTTAGCGTAA
1 GGTTTTCCATTTCAGCGTAA
741981 GGTTTTCCATTTCAGCGTAA
1 GGTTTTCCATTTCAGCGTAA
742001 CCAAATCTTC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.20, C:0.17, G:0.20, T:0.42
Consensus pattern (20 bp):
GGTTTTCCATTTCAGCGTAA
Found at i:745621 original size:18 final size:18
Alignment explanation
Indices: 745598--745632 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
745588 ACTGAATATT
* *
745598 TGTCCCGAATGACCACTA
1 TGTCCCAAAGGACCACTA
745616 TGTCCCAAAGGACCACT
1 TGTCCCAAAGGACCACT
745633 GTTAATCCCT
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:0.29, C:0.34, G:0.17, T:0.20
Consensus pattern (18 bp):
TGTCCCAAAGGACCACTA
Found at i:745898 original size:2 final size:2
Alignment explanation
Indices: 745891--745951 Score: 115
Period size: 2 Copynumber: 31.0 Consensus size: 2
745881 TATAACAATA
745891 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A- 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
745932 AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT
745952 GCATGTACAT
Statistics
Matches: 58, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
1 1 0.02
2 57 0.98
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:749091 original size:31 final size:31
Alignment explanation
Indices: 749053--749112 Score: 120
Period size: 31 Copynumber: 1.9 Consensus size: 31
749043 AACGGTCGGT
749053 GACCATATTGCAAACAGACTAAATGTTGGGG
1 GACCATATTGCAAACAGACTAAATGTTGGGG
749084 GACCATATTGCAAACAGACTAAATGTTGG
1 GACCATATTGCAAACAGACTAAATGTTGG
749113 AGGATTGTAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.37, C:0.17, G:0.23, T:0.23
Consensus pattern (31 bp):
GACCATATTGCAAACAGACTAAATGTTGGGG
Found at i:750037 original size:74 final size:72
Alignment explanation
Indices: 749903--750042 Score: 199
Period size: 74 Copynumber: 1.9 Consensus size: 72
749893 TTTTAAGTTT
* * * ** * *
749903 AATAATTAAAAATATTTTTAAACATATTTTTTTATTTCAAATATTTTAAAATATGGTAATTTAGT
1 AATAATTAAAAATATTTTTAAACATATTTTTTTATTTAAAAAACTCGAAAATATGATAATTCAGT
749968 GGGCTCC
66 GGGCTCC
749975 AATAATTAAAAAATATTTTTAAACATCATTTTTTTATTTAAAAAACTCGAAAATATGATAATTCA
1 AATAATT-AAAAATATTTTTAAACAT-ATTTTTTTATTTAAAAAACTCGAAAATATGATAATTCA
750040 GTG
64 GTG
750043 AGCCCTATTT
Statistics
Matches: 59, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
72 7 0.12
73 18 0.31
74 34 0.58
ACGTcount: A:0.43, C:0.07, G:0.07, T:0.43
Consensus pattern (72 bp):
AATAATTAAAAATATTTTTAAACATATTTTTTTATTTAAAAAACTCGAAAATATGATAATTCAGT
GGGCTCC
Found at i:753023 original size:31 final size:31
Alignment explanation
Indices: 752964--753027 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
752954 TTTTTATTTT
* *
752964 TTATTAAAGTTTTCTATTAAGGTCTTTTTCA
1 TTATTAAAGTTTTCTATTAAAGTATTTTTCA
*
752995 TTATTAAAGTTTTCTATTAAATTATTTTTCA
1 TTATTAAAGTTTTCTATTAAAGTATTTTTCA
753026 TT
1 TT
753028 TATTTCTTTA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.28, C:0.08, G:0.06, T:0.58
Consensus pattern (31 bp):
TTATTAAAGTTTTCTATTAAAGTATTTTTCA
Found at i:754187 original size:13 final size:13
Alignment explanation
Indices: 754138--754200 Score: 56
Period size: 13 Copynumber: 4.5 Consensus size: 13
754128 AAATTAAATG
754138 AAAAATACTTTAA-
1 AAAAA-ACTTTAAT
754151 AAGAAAACTTTAACAAT
1 AA-AAAACTTT---AAT
*
754168 AAAAAAATCTTAAT
1 AAAAAACT-TTAAT
754182 AAAAAACTTTAAT
1 AAAAAACTTTAAT
754195 AAAAAA
1 AAAAAA
754201 GACATCATTA
Statistics
Matches: 42, Mismatches: 2, Indels: 12
0.75 0.04 0.21
Matches are distributed among these distances:
13 18 0.43
14 13 0.31
16 7 0.17
17 4 0.10
ACGTcount: A:0.65, C:0.08, G:0.02, T:0.25
Consensus pattern (13 bp):
AAAAAACTTTAAT
Found at i:754287 original size:42 final size:44
Alignment explanation
Indices: 754238--754328 Score: 141
Period size: 42 Copynumber: 2.1 Consensus size: 44
754228 AAAAGAATGG
*
754238 AAAAAACATAATCATTACATTAATC-TTTTGGT-GTTTTAATAA
1 AAAAAACATAATCATTACATTAATCTTTTTGGTAGGTTTAATAA
**
754280 AAAAAACATAATCATTTTATTAATCTTTTTGGTAGGTTTAATAA
1 AAAAAACATAATCATTACATTAATCTTTTTGGTAGGTTTAATAA
754324 AAAAA
1 AAAAA
754329 TTGATATATT
Statistics
Matches: 44, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
42 23 0.52
43 7 0.16
44 14 0.32
ACGTcount: A:0.45, C:0.08, G:0.08, T:0.40
Consensus pattern (44 bp):
AAAAAACATAATCATTACATTAATCTTTTTGGTAGGTTTAATAA
Found at i:754355 original size:2 final size:2
Alignment explanation
Indices: 754350--754403 Score: 108
Period size: 2 Copynumber: 27.0 Consensus size: 2
754340 AGACTAACCC
754350 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
754392 AT AT AT AT AT AT
1 AT AT AT AT AT AT
754404 TATCATGGTA
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 52 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:755460 original size:21 final size:21
Alignment explanation
Indices: 755436--755509 Score: 69
Period size: 21 Copynumber: 3.6 Consensus size: 21
755426 GCGTTGCATT
755436 TCACGTTGCGATAGTTGAAAA
1 TCACGTTGCGATAGTTGAAAA
* * ** **
755457 TCACGTTGCGCT-TTTCCATT
1 TCACGTTGCGATAGTTGAAAA
*
755477 TCGCGTTGCGATAGTTGAAAA
1 TCACGTTGCGATAGTTGAAAA
*
755498 TCGCGTTGCGAT
1 TCACGTTGCGAT
755510 TTTCCATTTC
Statistics
Matches: 39, Mismatches: 13, Indels: 2
0.72 0.24 0.04
Matches are distributed among these distances:
20 13 0.33
21 26 0.67
ACGTcount: A:0.22, C:0.20, G:0.24, T:0.34
Consensus pattern (21 bp):
TCACGTTGCGATAGTTGAAAA
Found at i:755484 original size:41 final size:41
Alignment explanation
Indices: 755432--755532 Score: 175
Period size: 41 Copynumber: 2.5 Consensus size: 41
755422 ATTCGCGTTG
* *
755432 CATTTCACGTTGCGATAGTTGAAAATCACGTTGCGCTTTTC
1 CATTTCGCGTTGCGATAGTTGAAAATCACGTTGCGATTTTC
*
755473 CATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTC
1 CATTTCGCGTTGCGATAGTTGAAAATCACGTTGCGATTTTC
755514 CATTTCGCGTTGCGATAGT
1 CATTTCGCGTTGCGATAGT
755533 CTACAGTTGT
Statistics
Matches: 57, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 57 1.00
ACGTcount: A:0.20, C:0.21, G:0.23, T:0.37
Consensus pattern (41 bp):
CATTTCGCGTTGCGATAGTTGAAAATCACGTTGCGATTTTC
Found at i:755485 original size:20 final size:20
Alignment explanation
Indices: 755460--755529 Score: 77
Period size: 20 Copynumber: 3.5 Consensus size: 20
755450 TTGAAAATCA
*
755460 CGTTGCGCTTTTCCATTTCG
1 CGTTGCGATTTTCCATTTCG
* ** **
755480 CGTTGCGATAGTTGAAAATCG
1 CGTTGCGAT-TTTCCATTTCG
755501 CGTTGCGATTTTCCATTTCG
1 CGTTGCGATTTTCCATTTCG
755521 CGTTGCGAT
1 CGTTGCGAT
755530 AGTCTACAGT
Statistics
Matches: 38, Mismatches: 11, Indels: 2
0.75 0.22 0.04
Matches are distributed among these distances:
20 23 0.61
21 15 0.39
ACGTcount: A:0.14, C:0.23, G:0.24, T:0.39
Consensus pattern (20 bp):
CGTTGCGATTTTCCATTTCG
Found at i:755549 original size:22 final size:22
Alignment explanation
Indices: 755521--755614 Score: 122
Period size: 22 Copynumber: 4.4 Consensus size: 22
755511 TTCCATTTCG
755521 CGTTGCGATAGTCTACAGTTGT
1 CGTTGCGATAGTCTACAGTTGT
* * **
755543 CGTTGCGAT--TTTCCAAAT-T
1 CGTTGCGATAGTCTACAGTTGT
755562 CGTTGCGATAGTCTACAGTTGT
1 CGTTGCGATAGTCTACAGTTGT
*
755584 CGTTGCAATAGTCTACAGTTGT
1 CGTTGCGATAGTCTACAGTTGT
755606 CGTTGCGAT
1 CGTTGCGAT
755615 TTTCCAAATT
Statistics
Matches: 59, Mismatches: 10, Indels: 6
0.79 0.13 0.08
Matches are distributed among these distances:
19 10 0.17
20 5 0.08
21 5 0.08
22 39 0.66
ACGTcount: A:0.19, C:0.19, G:0.24, T:0.37
Consensus pattern (22 bp):
CGTTGCGATAGTCTACAGTTGT
Found at i:755551 original size:63 final size:62
Alignment explanation
Indices: 755480--755634 Score: 152
Period size: 63 Copynumber: 2.5 Consensus size: 62
755470 TTCCATTTCG
* * * * *
755480 CGTTGCGATAGTTGAAAATCGCGTTGCGAT-TTTCCATTTCG-CGTTGCGATAGTCTACAGTTGT
1 CGTTGCGAT-GTTCAAAAT-GCGTTGCGATATCTACAGTT-GTCGTTGCAATAGTCTACAGTTGT
* * *
755543 CGTTGCGATTTTCCAAATTCGTTGCGATAGTCTACAGTTGTCGTTGCAATAGTCTACAGTTGT
1 CGTTGCGATGTTCAAAATGCGTTGCGATA-TCTACAGTTGTCGTTGCAATAGTCTACAGTTGT
* * * *
755606 CGTTGCGATTTTCCAAATTCGTTGTGATA
1 CGTTGCGATGTTCAAAATGCGTTGCGATA
755635 GTTAAAAAAA
Statistics
Matches: 80, Mismatches: 9, Indels: 6
0.84 0.09 0.06
Matches are distributed among these distances:
61 9 0.11
62 7 0.09
63 64 0.80
ACGTcount: A:0.20, C:0.19, G:0.23, T:0.38
Consensus pattern (62 bp):
CGTTGCGATGTTCAAAATGCGTTGCGATATCTACAGTTGTCGTTGCAATAGTCTACAGTTGT
Found at i:755566 original size:41 final size:41
Alignment explanation
Indices: 755460--755589 Score: 149
Period size: 41 Copynumber: 3.1 Consensus size: 41
755450 TTGAAAATCA
* * * * *
755460 CGTTGCGCTTTTCCATTTCGCGTTGCGATAGT-TGAAAATCG-
1 CGTTGCGATTTTCCAATTC-CGTTGCGATAGTCT-ACAGTTGT
*
755501 CGTTGCGATTTTCCATTTCGCGTTGCGATAGTCTACAGTTGT
1 CGTTGCGATTTTCCAATTC-CGTTGCGATAGTCTACAGTTGT
755543 CGTTGCGATTTTCCAAATT-CGTTGCGATAGTCTACAGTTGT
1 CGTTGCGATTTTCC-AATTCCGTTGCGATAGTCTACAGTTGT
755584 CGTTGC
1 CGTTGC
755590 AATAGTCTAC
Statistics
Matches: 81, Mismatches: 5, Indels: 6
0.88 0.05 0.07
Matches are distributed among these distances:
41 63 0.78
42 15 0.19
43 3 0.04
ACGTcount: A:0.16, C:0.22, G:0.24, T:0.38
Consensus pattern (41 bp):
CGTTGCGATTTTCCAATTCCGTTGCGATAGTCTACAGTTGT
Found at i:755724 original size:6 final size:6
Alignment explanation
Indices: 755713--755745 Score: 66
Period size: 6 Copynumber: 5.5 Consensus size: 6
755703 GACACGTATT
755713 ACCACG ACCACG ACCACG ACCACG ACCACG ACC
1 ACCACG ACCACG ACCACG ACCACG ACCACG ACC
755746 CGAGACGAGA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.33, C:0.52, G:0.15, T:0.00
Consensus pattern (6 bp):
ACCACG
Found at i:755756 original size:5 final size:5
Alignment explanation
Indices: 755746--755781 Score: 65
Period size: 5 Copynumber: 7.4 Consensus size: 5
755736 GACCACGACC
755746 CGAGA CGAGA CGAGA CGAGA CGAGA CGAGA C-AGA CG
1 CGAGA CGAGA CGAGA CGAGA CGAGA CGAGA CGAGA CG
755782 GCGCGCGAGA
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
4 4 0.13
5 26 0.87
ACGTcount: A:0.39, C:0.22, G:0.39, T:0.00
Consensus pattern (5 bp):
CGAGA
Found at i:756396 original size:19 final size:19
Alignment explanation
Indices: 756369--756434 Score: 114
Period size: 19 Copynumber: 3.5 Consensus size: 19
756359 CAATGAATTT
756369 TCGCAACGAATTTGGAAAA
1 TCGCAACGAATTTGGAAAA
* *
756388 TCACAACGAATTTAGAAAA
1 TCGCAACGAATTTGGAAAA
756407 TCGCAACGAATTTGGAAAA
1 TCGCAACGAATTTGGAAAA
756426 TCGCAACGA
1 TCGCAACGA
756435 CTGTAGACTA
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 43 1.00
ACGTcount: A:0.44, C:0.18, G:0.18, T:0.20
Consensus pattern (19 bp):
TCGCAACGAATTTGGAAAA
Found at i:756399 original size:32 final size:33
Alignment explanation
Indices: 756355--756434 Score: 90
Period size: 38 Copynumber: 2.3 Consensus size: 33
756345 TTTTTTAACT
*
756355 ATCACAATGAATTT-TCGCAACGAATTTGGAAA
1 ATCACAACGAATTTATCGCAACGAATTTGGAAA
756387 ATCACAACGAATTTAGAAAATCGCAACGAATTTGGAAA
1 ATCACAACGAATTT-----ATCGCAACGAATTTGGAAA
*
756425 ATCGCAACGA
1 ATCACAACGA
756435 CTGTAGACTA
Statistics
Matches: 40, Mismatches: 2, Indels: 6
0.83 0.04 0.12
Matches are distributed among these distances:
32 13 0.32
38 27 0.68
ACGTcount: A:0.44, C:0.17, G:0.16, T:0.23
Consensus pattern (33 bp):
ATCACAACGAATTTATCGCAACGAATTTGGAAA
Found at i:756448 original size:38 final size:38
Alignment explanation
Indices: 756369--756451 Score: 121
Period size: 38 Copynumber: 2.2 Consensus size: 38
756359 CAATGAATTT
*
756369 TCGCAACGAATTTGGAAAATCACAACGAATTTAGAAAA
1 TCGCAACGAATTTGGAAAATCACAACGAATGTAGAAAA
* * **
756407 TCGCAACGAATTTGGAAAATCGCAACGACTGTAGACTA
1 TCGCAACGAATTTGGAAAATCACAACGAATGTAGAAAA
756445 TCGCAAC
1 TCGCAAC
756452 ACGAAATGAA
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
38 40 1.00
ACGTcount: A:0.41, C:0.20, G:0.18, T:0.20
Consensus pattern (38 bp):
TCGCAACGAATTTGGAAAATCACAACGAATGTAGAAAA
Found at i:756498 original size:41 final size:41
Alignment explanation
Indices: 756441--756541 Score: 166
Period size: 41 Copynumber: 2.5 Consensus size: 41
756431 ACGACTGTAG
* *
756441 ACTATCGCAACACGAAATGAAAAATCGCAACGCGATTTTCA
1 ACTATCGCAACGCGAAATGAAAAATCGCAACACGATTTTCA
* *
756482 ACTATTGCAACGCGAAATGGAAAATCGCAACACGATTTTCA
1 ACTATCGCAACGCGAAATGAAAAATCGCAACACGATTTTCA
756523 ACTATCGCAACGCGAAATG
1 ACTATCGCAACGCGAAATG
756542 CAACGCGAAT
Statistics
Matches: 55, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
41 55 1.00
ACGTcount: A:0.40, C:0.24, G:0.17, T:0.20
Consensus pattern (41 bp):
ACTATCGCAACGCGAAATGAAAAATCGCAACACGATTTTCA
Found at i:756545 original size:21 final size:21
Alignment explanation
Indices: 756441--756545 Score: 79
Period size: 21 Copynumber: 5.1 Consensus size: 21
756431 ACGACTGTAG
*
756441 ACTATCGCAACACGAAATG-A
1 ACTATCGCAACGCGAAATGCA
** ** *
756461 AAAATCGCAACGCGATTTTCA
1 ACTATCGCAACGCGAAATGCA
* *
756482 ACTATTGCAACGCGAAATGGA
1 ACTATCGCAACGCGAAATGCA
* * ** *
756503 A-AATCGCAACACGATTTTCA
1 ACTATCGCAACGCGAAATGCA
756523 ACTATCGCAACGCGAAATGCA
1 ACTATCGCAACGCGAAATGCA
756544 AC
1 AC
756546 GCGAATTTGC
Statistics
Matches: 58, Mismatches: 25, Indels: 3
0.67 0.29 0.03
Matches are distributed among these distances:
20 26 0.45
21 32 0.55
ACGTcount: A:0.40, C:0.25, G:0.16, T:0.19
Consensus pattern (21 bp):
ACTATCGCAACGCGAAATGCA
Found at i:760845 original size:60 final size:60
Alignment explanation
Indices: 760729--760860 Score: 151
Period size: 60 Copynumber: 2.2 Consensus size: 60
760719 AGATTGAGGG
* * * * * **
760729 TCATAGTTTGGGGATGAAATTTAAATGTTCAAAAGTTTAAGGACTAGTTTAAAATGAGTA
1 TCATAGTTTGAGGATGAAAATTAAATATTCAAAAGTTTAAGGAATAATTTAAAATGAAAA
* *
760789 TCATGGTTTGAGGAT-AAAATTAGAATATTCAAAAGTTT-AGGAATCAATTTAGAATGAAAA
1 TCATAGTTTGAGGATGAAAATTA-AATATTCAAAAGTTTAAGGAAT-AATTTAAAATGAAAA
760849 TCATAGTTTGAG
1 TCATAGTTTGAG
760861 TACATATGAT
Statistics
Matches: 60, Mismatches: 10, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
59 11 0.18
60 49 0.82
ACGTcount: A:0.40, C:0.05, G:0.20, T:0.34
Consensus pattern (60 bp):
TCATAGTTTGAGGATGAAAATTAAATATTCAAAAGTTTAAGGAATAATTTAAAATGAAAA
Found at i:763878 original size:30 final size:30
Alignment explanation
Indices: 763812--763902 Score: 112
Period size: 30 Copynumber: 3.0 Consensus size: 30
763802 TTGGATTCAT
* **
763812 GGATTAAATTAATATTTTATGC-AAGGTTTAA
1 GGATCAAATTAATATTTTAT-CTAAAATTT-A
* *
763843 GGATCAAATTAGTATTTTATCTAAACTTTA
1 GGATCAAATTAATATTTTATCTAAAATTTA
763873 GGATCAAATTAATATTTTATCTAAAATTTA
1 GGATCAAATTAATATTTTATCTAAAATTTA
763903 TAAGTAAAGT
Statistics
Matches: 53, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
30 30 0.57
31 23 0.43
ACGTcount: A:0.40, C:0.07, G:0.11, T:0.43
Consensus pattern (30 bp):
GGATCAAATTAATATTTTATCTAAAATTTA
Found at i:765051 original size:3 final size:3
Alignment explanation
Indices: 765045--765120 Score: 73
Period size: 3 Copynumber: 24.7 Consensus size: 3
765035 TTCATTTAAA
* * *
765045 TAT TAT T-T ATAT TAT TAT TAT TAT TAT AAT TAC TAA TAT TAT TATT
1 TAT TAT TAT -TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA-T
* *
765091 TAT TAT TAA TAT TAT TAT TAAA TAT TAT TA
1 TAT TAT TAT TAT TAT TAT T-AT TAT TAT TA
765121 CAAGCCCAAA
Statistics
Matches: 60, Mismatches: 9, Indels: 8
0.78 0.12 0.10
Matches are distributed among these distances:
2 1 0.02
3 53 0.88
4 6 0.10
ACGTcount: A:0.39, C:0.01, G:0.00, T:0.59
Consensus pattern (3 bp):
TAT
Found at i:765626 original size:15 final size:15
Alignment explanation
Indices: 765606--765647 Score: 59
Period size: 15 Copynumber: 2.8 Consensus size: 15
765596 ACAACGCAGC
765606 AAAGAAACAG-AAAAG
1 AAAGAAA-AGAAAAAG
765621 AAAGAAAAGAAAAAG
1 AAAGAAAAGAAAAAG
*
765636 AAAGAAGAGAAA
1 AAAGAAAAGAAA
765648 CTTACCGAGG
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
14 2 0.08
15 23 0.92
ACGTcount: A:0.76, C:0.02, G:0.21, T:0.00
Consensus pattern (15 bp):
AAAGAAAAGAAAAAG
Found at i:765631 original size:20 final size:20
Alignment explanation
Indices: 765606--765647 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
765596 ACAACGCAGC
*
765606 AAAGAAACAGAAAAGAA-AGA
1 AAAGAAAAAG-AAAGAAGAGA
765626 AAAGAAAAAGAAAGAAGAGA
1 AAAGAAAAAGAAAGAAGAGA
765646 AA
1 AA
765648 CTTACCGAGG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 6 0.30
20 14 0.70
ACGTcount: A:0.76, C:0.02, G:0.21, T:0.00
Consensus pattern (20 bp):
AAAGAAAAAGAAAGAAGAGA
Found at i:766529 original size:17 final size:17
Alignment explanation
Indices: 766507--766546 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
766497 TTATGTAGTC
766507 ATAAATATATATAATAA
1 ATAAATATATATAATAA
* **
766524 ATAAATATTTATTTTAA
1 ATAAATATATATAATAA
766541 ATAAAT
1 ATAAAT
766547 TATTTTAATA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.42
Consensus pattern (17 bp):
ATAAATATATATAATAA
Found at i:766541 original size:13 final size:13
Alignment explanation
Indices: 766525--766564 Score: 55
Period size: 12 Copynumber: 3.1 Consensus size: 13
766515 ATATAATAAA
766525 TAAATATTTATTT
1 TAAATATTTATTT
*
766538 TAAATAAATTATTT
1 TAAAT-ATTTATTT
766552 T-AATATTTATTT
1 TAAATATTTATTT
766564 T
1 T
766565 TCAATATCGA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
12 8 0.33
13 8 0.33
14 8 0.33
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (13 bp):
TAAATATTTATTT
Found at i:777943 original size:17 final size:17
Alignment explanation
Indices: 777923--778019 Score: 103
Period size: 16 Copynumber: 5.8 Consensus size: 17
777913 TGCTTGAAGA
777923 AAAAAGAAAAAAGAAAG
1 AAAAAGAAAAAAGAAAG
*
777940 -AAAAGATAAAA-AAAG
1 AAAAAGAAAAAAGAAAG
*
777955 AAAAAGAAAAAA-AGAG
1 AAAAAGAAAAAAGAAAG
777971 AAAAAAGAAAAAAAGAGAA-
1 -AAAAAG-AAAAAAGA-AAG
*
777990 AAAGAGAAAAAAGAAAG
1 AAAAAGAAAAAAGAAAG
*
778007 AAAAAGGAAAAAG
1 AAAAAGAAAAAAG
778020 GGGGTCAAGG
Statistics
Matches: 67, Mismatches: 7, Indels: 12
0.78 0.08 0.14
Matches are distributed among these distances:
15 4 0.06
16 25 0.37
17 25 0.37
18 11 0.16
19 1 0.01
20 1 0.01
ACGTcount: A:0.80, C:0.00, G:0.19, T:0.01
Consensus pattern (17 bp):
AAAAAGAAAAAAGAAAG
Found at i:777945 original size:16 final size:16
Alignment explanation
Indices: 777924--778010 Score: 90
Period size: 17 Copynumber: 5.2 Consensus size: 16
777914 GCTTGAAGAA
777924 AAAAGAAAAAAGAAAG
1 AAAAGAAAAAAGAAAG
*
777940 AAAAGATAAAA-AAAG
1 AAAAGAAAAAAGAAAG
777955 AAAAAGAAAAAAAGAGAA-
1 -AAAAG-AAAAAAGA-AAG
777973 AAAAGAAAAAAAGAGAA-
1 AAAAG-AAAAAAGA-AAG
777990 AAAGAGAAAAAAGAAAG
1 AAA-AGAAAAAAGAAAG
778007 AAAA
1 AAAA
778011 AGGAAAAAGG
Statistics
Matches: 63, Mismatches: 2, Indels: 12
0.82 0.03 0.16
Matches are distributed among these distances:
15 4 0.06
16 18 0.29
17 36 0.57
18 3 0.05
19 2 0.03
ACGTcount: A:0.82, C:0.00, G:0.17, T:0.01
Consensus pattern (16 bp):
AAAAGAAAAAAGAAAG
Found at i:777951 original size:8 final size:8
Alignment explanation
Indices: 777922--778010 Score: 101
Period size: 9 Copynumber: 10.8 Consensus size: 8
777912 ATGCTTGAAG
777922 AAAAAAG-
1 AAAAAAGA
777929 AAAAAAGA
1 AAAAAAGA
777937 AAGAAAAGA
1 AA-AAAAGA
777946 TAAAAAA-A
1 -AAAAAAGA
*
777954 GAAAAAGA
1 AAAAAAGA
777962 AAAAAAGA
1 AAAAAAGA
777970 GAAAAAAGA
1 -AAAAAAGA
777979 AAAAAAGA
1 AAAAAAGA
*
777987 GAAAAAGA
1 AAAAAAGA
777995 GAAAAAAGA
1 -AAAAAAGA
778004 AAGAAAA
1 AA-AAAA
778011 AGGAAAAAGG
Statistics
Matches: 71, Mismatches: 4, Indels: 12
0.82 0.05 0.14
Matches are distributed among these distances:
7 12 0.17
8 28 0.39
9 29 0.41
10 2 0.03
ACGTcount: A:0.82, C:0.00, G:0.17, T:0.01
Consensus pattern (8 bp):
AAAAAAGA
Found at i:777957 original size:33 final size:32
Alignment explanation
Indices: 777919--778010 Score: 125
Period size: 33 Copynumber: 2.8 Consensus size: 32
777909 ATTATGCTTG
777919 AAGAAAAAAGAAAAAAGAAAGAAAAGATAAAAA
1 AAGAAAAAAGAAAAAAGAAAGAAAAGA-AAAAA
777952 AAG-AAAAAGAAAAAAAGAGAA-AAAAGAAAAAA
1 AAGAAAAAAG-AAAAAAGA-AAGAAAAGAAAAAA
777984 AGAGAAAAAGAGAAAAAAGAAAGAAAA
1 A-AGAAAAA-AGAAAAAAGAAAGAAAA
778011 AGGAAAAAGG
Statistics
Matches: 53, Mismatches: 0, Indels: 11
0.83 0.00 0.17
Matches are distributed among these distances:
32 12 0.23
33 21 0.40
34 18 0.34
35 2 0.04
ACGTcount: A:0.82, C:0.00, G:0.17, T:0.01
Consensus pattern (32 bp):
AAGAAAAAAGAAAAAAGAAAGAAAAGAAAAAA
Found at i:777958 original size:25 final size:24
Alignment explanation
Indices: 777922--778018 Score: 106
Period size: 26 Copynumber: 3.8 Consensus size: 24
777912 ATGCTTGAAG
*
777922 AAAAAAGAAAAAAGAAAGAAAAGATA
1 AAAAAAG-AAAAAGAAA-AAAAGAAA
777948 AAAAAAGAAAAAGAAAAAAAGAGAA
1 AAAAAAGAAAAAGAAAAAAAGA-AA
777973 AAAAGAA-AAAAAGAGAAAAAGAGAAA
1 AAAA-AAGAAAAAGA-AAAAA-AGAAA
*
777999 AAAGAAAGAAAAAGGAAAAA
1 AAA-AAAGAAAAAGAAAAAA
778019 GGGGGTCAAG
Statistics
Matches: 63, Mismatches: 2, Indels: 12
0.82 0.03 0.16
Matches are distributed among these distances:
24 6 0.10
25 21 0.33
26 26 0.41
27 10 0.16
ACGTcount: A:0.81, C:0.00, G:0.18, T:0.01
Consensus pattern (24 bp):
AAAAAAGAAAAAGAAAAAAAGAAA
Found at i:777978 original size:42 final size:41
Alignment explanation
Indices: 777922--778019 Score: 135
Period size: 42 Copynumber: 2.3 Consensus size: 41
777912 ATGCTTGAAG
*
777922 AAAAAAGAAAAAAGAAAGAAAAGATAAAAAAAG-AAAAAGAA
1 AAAAAAGAAAAAAGAAA-AAAAGAGAAAAAAAGAAAAAAGAA
*
777963 AAAAAGAGAAAAAAGAAAAAAAGAGAAAAAGAGAAAAAAGAA
1 AAAAA-AGAAAAAAGAAAAAAAGAGAAAAAAAGAAAAAAGAA
*
778005 AGAAAAAGGAAAAAG
1 A-AAAAAGAAAAAAG
778020 GGGGTCAAGG
Statistics
Matches: 51, Mismatches: 3, Indels: 5
0.86 0.05 0.08
Matches are distributed among these distances:
41 18 0.35
42 29 0.57
43 4 0.08
ACGTcount: A:0.81, C:0.00, G:0.18, T:0.01
Consensus pattern (41 bp):
AAAAAAGAAAAAAGAAAAAAAGAGAAAAAAAGAAAAAAGAA
Found at i:779517 original size:83 final size:83
Alignment explanation
Indices: 779378--779971 Score: 1026
Period size: 83 Copynumber: 7.2 Consensus size: 83
779368 GGAACAAATA
* *
779378 AATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAGAACCAAT
1 AATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAAAACCAAT
*
779443 CATTGAAATTGAAAGATG
66 CATTGAATTTGAAAGATG
* * *
779461 AATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTAGTTTGGCAGAACCAAT
1 AATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAAAACCAAT
*
779526 CATTGAAATTGAAAGATG
66 CATTGAATTTGAAAGATG
779544 AATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAAAACCAAT
1 AATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAAAACCAAT
779609 CATTGAATTTGAAAGATG
66 CATTGAATTTGAAAGATG
*
779627 AATATGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAAAACCAAT
1 AATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAAAACCAAT
779692 CATTGAATTTGAAAGATG
66 CATTGAATTTGAAAGATG
* * *
779710 AATGTGCTTATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAGAACCAAT
1 AATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAAAACCAAT
*
779775 CATTGAAATTGAAAGATG
66 CATTGAATTTGAAAGATG
* * *
779793 AATGTGTTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCGGATCTGGTTTGGTAAAACCAGT
1 AATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAAAACCAAT
779858 CATTGAATTTGAAAGATG
66 CATTGAATTTGAAAGATG
*
779876 AATGTGCTCATAGCATCTTCTGGAAGTGTTTTTTGAGTTATCTGATCTGGTTTGGTAAAACCAAT
1 AATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAAAACCAAT
*
779941 CATTGAATTTAAAAGATG
66 CATTGAATTTGAAAGATG
*
779959 AATTTGCTCATAG
1 AATGTGCTCATAG
779972 TAGAAATAAG
Statistics
Matches: 487, Mismatches: 24, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
83 487 1.00
ACGTcount: A:0.28, C:0.13, G:0.22, T:0.37
Consensus pattern (83 bp):
AATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAAAACCAAT
CATTGAATTTGAAAGATG
Found at i:780959 original size:113 final size:113
Alignment explanation
Indices: 780761--782221 Score: 1998
Period size: 113 Copynumber: 13.0 Consensus size: 113
780751 ATTTAAATTC
*
780761 ATCACTTGATGGATCAGCTTTTCCAGTTCGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAT
1 ATCACTTGATGGATTAGCTTTTCCAGTTCGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAT
780826 GAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGCTCAAATCT
66 GAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGCTCAAATCT
* *
780874 ATCACTTGATGGATTATCTTTTCCAGTTCGAGTTCATAATTAGAAGAACTCATCTGAAGAAGGAT
1 ATCACTTGATGGATTAGCTTTTCCAGTTCGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAT
780939 GAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGCTCAAATCT
66 GAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGCTCAAATCT
* *
780987 ATCACTTGATAGATTAGCTTTTCCAGTTCGAGTTCATAATGAGAAGAACTCATCTGAAGAATGAT
1 ATCACTTGATGGATTAGCTTTTCCAGTTCGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAT
*
781052 GAAGAAGTTCATAATGAGAAGAATTTGTTCAACTTTTTGCTCAAATCT
66 GAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGCTCAAATCT
* *
781100 ATCACTTGATAGATTAGCTTTTCCAGTTCGAGTTCATAATGAGAAGAACTCATCTGAAGAATGAT
1 ATCACTTGATGGATTAGCTTTTCCAGTTCGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAT
*
781165 GAAGAAGTTCATAATGAGAAGAATTTGTTCAACTTTTTGCTCAAATCT
66 GAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGCTCAAATCT
*
781213 ATCACTTGATAGATTAGCTTTTCCAGTTCGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAT
1 ATCACTTGATGGATTAGCTTTTCCAGTTCGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAT
* *
781278 GAAGAAGTTCATAATGAGAAGAATTTGTTTAACTTTTTGCTCAAATCT
66 GAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGCTCAAATCT
*
781326 ATCACTTGATAGATTAGCTTTTCCAGTTCGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAT
1 ATCACTTGATGGATTAGCTTTTCCAGTTCGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAT
781391 GAAGAAGTTC-TAATGAGAAGAATTTGTTCAACCTTTTGCTCAAATCT
66 GAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGCTCAAATCT
*
781438 ATCACTTGATGGATTATCTTTTCCAGTTCGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAT
1 ATCACTTGATGGATTAGCTTTTCCAGTTCGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAT
* *
781503 GAAGAAGTTCATAATGAGAAGAATTTGTTCAATCTTTTGCTCAAATCC
66 GAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGCTCAAATCT
* * **** * *
781551 ATCATTTGATGGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAAGAA
1 ATCACTTGATGGATTAGCTTTTCCAGTTCGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAT
* * *
781616 GAATAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGTTTAAAT-T
66 GAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGCTCAAATCT
* * * * * *
781663 CATCATTTGATGGATTAACATTGCCAGGTAGAGTTCATAATGAGAAGAACTCGTCATCTGAAG-A
1 -ATCACTTGATGGATTAGCTTTTCCAGTTCGAGTTCATAATGAGAAGAA--C-TCATCTGAAGAA
* * * *
781727 --A-GAAGAAATTCATAATGAGAAGAGTTTGTTCAATCTTTTGCTCAAATCC
62 GGATGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGCTCAAATCT
* * **** * * *
781776 ATCATTTGATGGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTAAAGAAAGAA
1 ATCACTTGATGGATTAGCTTTTCCAGTTCGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAT
* * *
781841 GAATAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGTTTAAAT-T
66 GAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGCTCAAATCT
* * * * * *
781888 CATCATTTGATGGATTAACATTGCCAGGTAGAGTTCATAATGAGAAGAACTCGTCATCTGAAG-A
1 -ATCACTTGATGGATTAGCTTTTCCAGTTCGAGTTCATAATGAGAAGAA--C-TCATCTGAAGAA
* * *
781952 --A-GAAGAAATTCATAATGAGAAGAATTTGTTCAACTTTTTGCTCAAATCC
62 GGATGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGCTCAAATCT
** *
782001 ATCACTTGATGGAGCAGCTTTTCCAG--AGAAGTTCATAATGAGAAGAACTCATCTGAAG-A--A
1 ATCACTTGATGGATTAGCTTTTCCAGTTCG-AGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
* ** * *
782061 -GAAGAAGTTCATAATAAGAAGAGCTTGTTCAACTTTTTGCTCAAATCC
65 TGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGCTCAAATCT
* *
782109 ATCACTTGATGGAGTAGCTTTTCCAG--AGAAGTTCATAATGAGAAGAACTCATCTGAAG-A--A
1 ATCACTTGATGGATTAGCTTTTCCAGTTCG-AGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
* ** * *
782169 -GAAGAAGTTCATAATAAGAAGAGCTTGTTCAACTTTTTGCAT-AATTCT
65 TGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGC-TCAAATCT
782217 ATCAC
1 ATCAC
782222 AGAAGGAGAT
Statistics
Matches: 1245, Mismatches: 86, Indels: 39
0.91 0.06 0.03
Matches are distributed among these distances:
108 164 0.13
109 11 0.01
110 4 0.00
111 18 0.01
112 251 0.20
113 774 0.62
115 4 0.00
116 19 0.02
ACGTcount: A:0.35, C:0.14, G:0.18, T:0.32
Consensus pattern (113 bp):
ATCACTTGATGGATTAGCTTTTCCAGTTCGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAT
GAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGCTCAAATCT
Found at i:781155 original size:226 final size:225
Alignment explanation
Indices: 780761--782221 Score: 2005
Period size: 225 Copynumber: 6.5 Consensus size: 225
780751 ATTTAAATTC
*
780761 ATCACTTGATGGATCAGCTTTTCCAGTTCGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAT
1 ATCACTTGATGGATTAGCTTTTCCAGTTCGAGTTCATAATGAGAAGAACTCATCTGAAGAA-GAT
* * *
780826 GAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGCTCAAATCTATCACTTGATGGATTAT
65 GAAGAAGTTCATAATGAGAAGAATTTGTTCAACTTTTTGCTCAAATCTATCACTTGATGGATCAG
* * *
780891 CTTTTCCAGTTCGAGTTCATAATTAGAAGAACTCATCTGAAGAAGGATGAAGAAGTTCATAATGA
130 CTTTTCCAGTTAGAGTTCATAATGAGAAGAACTCATCTGAAGAAAGATGAAGAAGTTCATAATGA
780956 GAAGAATTTGTTCAACCTTTTGCTCAAATCT
195 GAAGAATTTGTTCAACCTTTTGCTCAAATCT
*
780987 ATCACTTGATAGATTAGCTTTTCCAGTTCGAGTTCATAATGAGAAGAACTCATCTGAAGAATGAT
1 ATCACTTGATGGATTAGCTTTTCCAGTTCGAGTTCATAATGAGAAGAACTCATCTGAAGAA-GAT
* *
781052 GAAGAAGTTCATAATGAGAAGAATTTGTTCAACTTTTTGCTCAAATCTATCACTTGATAGATTAG
65 GAAGAAGTTCATAATGAGAAGAATTTGTTCAACTTTTTGCTCAAATCTATCACTTGATGGATCAG
* *
781117 CTTTTCCAGTTCGAGTTCATAATGAGAAGAACTCATCTGAAGAATGATGAAGAAGTTCATAATGA
130 CTTTTCCAGTTAGAGTTCATAATGAGAAGAACTCATCTGAAGAAAGATGAAGAAGTTCATAATGA
*
781182 GAAGAATTTGTTCAACTTTTTGCTCAAATCT
195 GAAGAATTTGTTCAACCTTTTGCTCAAATCT
*
781213 ATCACTTGATAGATTAGCTTTTCCAGTTCGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAT
1 ATCACTTGATGGATTAGCTTTTCCAGTTCGAGTTCATAATGAGAAGAACTCATCTGAAGAA-GAT
* * *
781278 GAAGAAGTTCATAATGAGAAGAATTTGTTTAACTTTTTGCTCAAATCTATCACTTGATAGATTAG
65 GAAGAAGTTCATAATGAGAAGAATTTGTTCAACTTTTTGCTCAAATCTATCACTTGATGGATCAG
* *
781343 CTTTTCCAGTTCGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGATGAAGAAGTTC-TAATGA
130 CTTTTCCAGTTAGAGTTCATAATGAGAAGAACTCATCTGAAGAAAGATGAAGAAGTTCATAATGA
781407 GAAGAATTTGTTCAACCTTTTGCTCAAATCT
195 GAAGAATTTGTTCAACCTTTTGCTCAAATCT
*
781438 ATCACTTGATGGATTATCTTTTCCAGTTCGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAT
1 ATCACTTGATGGATTAGCTTTTCCAGTTCGAGTTCATAATGAGAAGAACTCATCTGAAGAA-GAT
* *
781503 GAAGAAGTTCATAATGAGAAGAATTTGTTCAA-TCTTTTGCTCAAATCCATCATTTGATGGATCA
65 GAAGAAGTTCATAATGAGAAGAATTTGTTCAACT-TTTTGCTCAAATCTATCACTTGATGGATCA
** * * *
781567 GCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAAGAAGAATAAGTTCATAATG
129 GCTTTTCCAGTTAGAGTTCATAATGAGAAGAACTCATCTGAAGAAAGATGAAGAAGTTCATAATG
* *
781632 AGAAGAATTTGTTCAACCTTTTGTTTAAAT-T
194 AGAAGAATTTGTTCAACCTTTTGCTCAAATCT
* * * * * *
781663 CATCATTTGATGGATTAACATTGCCAGGTAGAGTTCATAATGAGAAGAACTCGTCATCTGAAG-A
1 -ATCACTTGATGGATTAGCTTTTCCAGTTCGAGTTCATAATGAGAAGAA--C-TCATCTGAAGAA
* * * *
781727 -A-GAAGAAATTCATAATGAGAAGAGTTTGTTCAA-TCTTTTGCTCAAATCCATCATTTGATGGA
62 GATGAAGAAGTTCATAATGAGAAGAATTTGTTCAACT-TTTTGCTCAAATCTATCACTTGATGGA
** * * * *
781789 TCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTAAAGAAAGAAGAATAAGTTCATA
126 TCAGCTTTTCCAGTTAGAGTTCATAATGAGAAGAACTCATCTGAAGAAAGATGAAGAAGTTCATA
* *
781854 ATGAGAAGAATTTGTTCAACCTTTTGTTTAAAT-T
191 ATGAGAAGAATTTGTTCAACCTTTTGCTCAAATCT
* * * * * *
781888 CATCATTTGATGGATTAACATTGCCAGGTAGAGTTCATAATGAGAAGAACTCGTCATCTGAAG-A
1 -ATCACTTGATGGATTAGCTTTTCCAGTTCGAGTTCATAATGAGAAGAA--C-TCATCTGAAGAA
* * *
781952 -A-GAAGAAATTCATAATGAGAAGAATTTGTTCAACTTTTTGCTCAAATCCATCACTTGATGGAG
62 GATGAAGAAGTTCATAATGAGAAGAATTTGTTCAACTTTTTGCTCAAATCTATCACTTGATGGAT
782015 CAGCTTTTCCAG--AGAAGTTCATAATGAGAAGAACTCATCTGAAG--A-A-GAAGAAGTTCATA
127 CAGCTTTTCCAGTTAG-AGTTCATAATGAGAAGAACTCATCTGAAGAAAGATGAAGAAGTTCATA
* ** * *
782074 ATAAGAAGAGCTTGTTCAACTTTTTGCTCAAATCC
191 ATGAGAAGAATTTGTTCAACCTTTTGCTCAAATCT
* *
782109 ATCACTTGATGGAGTAGCTTTTCCAG--AGAAGTTCATAATGAGAAGAACTCATCTGAAG-A-A-
1 ATCACTTGATGGATTAGCTTTTCCAGTTCG-AGTTCATAATGAGAAGAACTCATCTGAAGAAGAT
* ** *
782169 GAAGAAGTTCATAATAAGAAGAGCTTGTTCAACTTTTTGCAT-AATTCTATCAC
65 GAAGAAGTTCATAATGAGAAGAATTTGTTCAACTTTTTGC-TCAAATCTATCAC
782222 AGAAGGAGAT
Statistics
Matches: 1162, Mismatches: 62, Indels: 32
0.93 0.05 0.03
Matches are distributed among these distances:
216 57 0.05
217 2 0.00
218 2 0.00
219 18 0.02
220 60 0.05
221 1 0.00
222 1 0.00
223 1 0.00
224 29 0.02
225 500 0.43
226 479 0.41
228 2 0.00
229 10 0.01
ACGTcount: A:0.35, C:0.14, G:0.18, T:0.32
Consensus pattern (225 bp):
ATCACTTGATGGATTAGCTTTTCCAGTTCGAGTTCATAATGAGAAGAACTCATCTGAAGAAGATG
AAGAAGTTCATAATGAGAAGAATTTGTTCAACTTTTTGCTCAAATCTATCACTTGATGGATCAGC
TTTTCCAGTTAGAGTTCATAATGAGAAGAACTCATCTGAAGAAAGATGAAGAAGTTCATAATGAG
AAGAATTTGTTCAACCTTTTGCTCAAATCT
Found at i:782081 original size:17 final size:17
Alignment explanation
Indices: 782027--782082 Score: 51
Period size: 17 Copynumber: 3.2 Consensus size: 17
782017 GCTTTTCCAG
*
782027 AGAAGTTCATAATGAGA
1 AGAAGTTCATAATAAGA
* *
782044 AGAA-CTCATCTGAAGAAGA
1 AGAAGTTCA--T-AATAAGA
782063 AGAAGTTCATAATAAGA
1 AGAAGTTCATAATAAGA
782080 AGA
1 AGA
782083 GCTTGTTCAA
Statistics
Matches: 30, Mismatches: 5, Indels: 8
0.70 0.12 0.19
Matches are distributed among these distances:
16 3 0.10
17 13 0.43
18 2 0.07
19 9 0.30
20 3 0.10
ACGTcount: A:0.50, C:0.09, G:0.21, T:0.20
Consensus pattern (17 bp):
AGAAGTTCATAATAAGA
Found at i:782189 original size:17 final size:17
Alignment explanation
Indices: 782135--782190 Score: 51
Period size: 17 Copynumber: 3.2 Consensus size: 17
782125 GCTTTTCCAG
*
782135 AGAAGTTCATAATGAGA
1 AGAAGTTCATAATAAGA
* *
782152 AGAA-CTCATCTGAAGAAGA
1 AGAAGTTCA--T-AATAAGA
782171 AGAAGTTCATAATAAGA
1 AGAAGTTCATAATAAGA
782188 AGA
1 AGA
782191 GCTTGTTCAA
Statistics
Matches: 30, Mismatches: 5, Indels: 8
0.70 0.12 0.19
Matches are distributed among these distances:
16 3 0.10
17 13 0.43
18 2 0.07
19 9 0.30
20 3 0.10
ACGTcount: A:0.50, C:0.09, G:0.21, T:0.20
Consensus pattern (17 bp):
AGAAGTTCATAATAAGA
Found at i:782327 original size:84 final size:82
Alignment explanation
Indices: 782173--782356 Score: 199
Period size: 84 Copynumber: 2.2 Consensus size: 82
782163 GAAGAAGAAG
* * * * * * *
782173 AAGTTCATAATAAGAAGAGCTTGTTCAACTTTTTGCATAATTCTATCACAGAAGGAGATAGATTA
1 AAGTTCATAATGAGAAGAGCTTATTCAACCTTTTGAATAACTCTATCACAGAAGGAAATAGATCA
*
782238 GCATCAGCCTTTCCAG-AGA
66 ACATCAGCC---CCAGCAGA
* * * *
782257 AAGTTCATAATGAGAAGAGCTTATTTAACCTTTTGAATGACTCTATTACAGAAGGAAATAGGTCA
1 AAGTTCATAATGAGAAGAGCTTATTCAACCTTTTGAATAACTCTATCACAGAAGGAAATAGATCA
*
782322 ACATCATCCCCAGCAGA
66 ACATCAGCCCCAGCAGA
* *
782339 AGGTTCATAATGAAAAGA
1 AAGTTCATAATGAGAAGA
782357 ACTCATCTGA
Statistics
Matches: 84, Mismatches: 15, Indels: 4
0.82 0.15 0.04
Matches are distributed among these distances:
81 4 0.05
82 19 0.23
84 61 0.73
ACGTcount: A:0.38, C:0.16, G:0.18, T:0.28
Consensus pattern (82 bp):
AAGTTCATAATGAGAAGAGCTTATTCAACCTTTTGAATAACTCTATCACAGAAGGAAATAGATCA
ACATCAGCCCCAGCAGA
Found at i:782521 original size:3 final size:3
Alignment explanation
Indices: 782515--782608 Score: 118
Period size: 3 Copynumber: 30.7 Consensus size: 3
782505 TTCATTTAAA
782515 TAT TAT T-T ATAT 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
* * * *
782560 TAT TAC TAA TAT TAT TATT TAT TAT TAA TAT TAT TAT TAAA TAT TAT
1 TAT TAT TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT T-AT TAT TAT
782607 TA
1 TA
782609 CAAGCCCAAA
Statistics
Matches: 80, Mismatches: 7, Indels: 8
0.84 0.07 0.08
Matches are distributed among these distances:
2 1 0.01
3 73 0.91
4 6 0.08
ACGTcount: A:0.37, C:0.01, G:0.00, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:783125 original size:15 final size:15
Alignment explanation
Indices: 783105--783136 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
783095 AAATAAACAG
783105 AAAAGAAAGAAAAGA
1 AAAAGAAAGAAAAGA
*
783120 AAAAGAAAGAAGAGA
1 AAAAGAAAGAAAAGA
783135 AA
1 AA
783137 CTTACCGAGG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (15 bp):
AAAAGAAAGAAAAGA
Found at i:784020 original size:17 final size:17
Alignment explanation
Indices: 783998--784037 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
783988 TTATGTAGTC
783998 ATAAATATATATAATAA
1 ATAAATATATATAATAA
* **
784015 ATAAATATTTATTTTAA
1 ATAAATATATATAATAA
784032 ATAAAT
1 ATAAAT
784038 TATTTTAATA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.42
Consensus pattern (17 bp):
ATAAATATATATAATAA
Found at i:784032 original size:13 final size:13
Alignment explanation
Indices: 784016--784055 Score: 55
Period size: 12 Copynumber: 3.1 Consensus size: 13
784006 ATATAATAAA
784016 TAAATATTTATTT
1 TAAATATTTATTT
*
784029 TAAATAAATTATTT
1 TAAAT-ATTTATTT
784043 T-AATATTTATTT
1 TAAATATTTATTT
784055 T
1 T
784056 TCAATATCGA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
12 8 0.33
13 8 0.33
14 8 0.33
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (13 bp):
TAAATATTTATTT
Found at i:797023 original size:21 final size:21
Alignment explanation
Indices: 796997--797164 Score: 173
Period size: 21 Copynumber: 8.2 Consensus size: 21
796987 TTTCTAAATT
796997 CGTTGCGATAGTCGAAGTTCG
1 CGTTGCGATAGTCGAAGTTCG
*
797018 TGTTGCGATAGTCGAAGTTCG
1 CGTTGCGATAGTCGAAGTTCG
** ** *
797039 CGTTGCGATTTTTTAAATT--
1 CGTTGCGATAGTCGAAGTTCG
* *
797058 CGTTGCGATAGTCCAAGTTCA
1 CGTTGCGATAGTCGAAGTTCG
797079 CGTTGCGATAGTCGAAGTTCG
1 CGTTGCGATAGTCGAAGTTCG
*
797100 CGTTGTGATAGTCGAAGTTCG
1 CGTTGCGATAGTCGAAGTTCG
** * *
797121 CGTTGCGATTTTCCAAATT--
1 CGTTGCGATAGTCGAAGTTCG
* *
797140 CGTTGCGATAGTCCAAGTTCA
1 CGTTGCGATAGTCGAAGTTCG
797161 CGTT
1 CGTT
797165 CGAAGTTCGC
Statistics
Matches: 120, Mismatches: 23, Indels: 8
0.79 0.15 0.05
Matches are distributed among these distances:
19 30 0.25
21 90 0.75
ACGTcount: A:0.20, C:0.18, G:0.27, T:0.35
Consensus pattern (21 bp):
CGTTGCGATAGTCGAAGTTCG
Found at i:797094 original size:82 final size:82
Alignment explanation
Indices: 796997--797164 Score: 300
Period size: 82 Copynumber: 2.0 Consensus size: 82
796987 TTTCTAAATT
* **
796997 CGTTGCGATAGTCGAAGTTCGTGTTGCGATAGTCGAAGTTCGCGTTGCGATTTTTTAAATTCGTT
1 CGTTGCGATAGTCGAAGTTCGCGTTGCGATAGTCGAAGTTCGCGTTGCGATTTTCCAAATTCGTT
797062 GCGATAGTCCAAGTTCA
66 GCGATAGTCCAAGTTCA
*
797079 CGTTGCGATAGTCGAAGTTCGCGTTGTGATAGTCGAAGTTCGCGTTGCGATTTTCCAAATTCGTT
1 CGTTGCGATAGTCGAAGTTCGCGTTGCGATAGTCGAAGTTCGCGTTGCGATTTTCCAAATTCGTT
797144 GCGATAGTCCAAGTTCA
66 GCGATAGTCCAAGTTCA
797161 CGTT
1 CGTT
797165 CGAAGTTCGC
Statistics
Matches: 82, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
82 82 1.00
ACGTcount: A:0.20, C:0.18, G:0.27, T:0.35
Consensus pattern (82 bp):
CGTTGCGATAGTCGAAGTTCGCGTTGCGATAGTCGAAGTTCGCGTTGCGATTTTCCAAATTCGTT
GCGATAGTCCAAGTTCA
Found at i:797099 original size:61 final size:61
Alignment explanation
Indices: 796957--797104 Score: 217
Period size: 61 Copynumber: 2.4 Consensus size: 61
796947 AGTTCAAATT
* * * *
796957 CGTTGCGATAGTTC-AAGTTCACATTGCAATTTTCTAAATTCGTTGCGATAGTCGAAGTTCG
1 CGTTGCGATAG-TCGAAGTTCGCGTTGCAATTTTCTAAATTCGTTGCGATAGTCCAAGTTCA
* * *
797018 TGTTGCGATAGTCGAAGTTCGCGTTGCGATTTTTTAAATTCGTTGCGATAGTCCAAGTTCA
1 CGTTGCGATAGTCGAAGTTCGCGTTGCAATTTTCTAAATTCGTTGCGATAGTCCAAGTTCA
797079 CGTTGCGATAGTCGAAGTTCGCGTTG
1 CGTTGCGATAGTCGAAGTTCGCGTTG
797105 TGATAGTCGA
Statistics
Matches: 78, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
60 2 0.03
61 76 0.97
ACGTcount: A:0.22, C:0.18, G:0.25, T:0.36
Consensus pattern (61 bp):
CGTTGCGATAGTCGAAGTTCGCGTTGCAATTTTCTAAATTCGTTGCGATAGTCCAAGTTCA
Found at i:797426 original size:21 final size:20
Alignment explanation
Indices: 797400--797480 Score: 83
Period size: 21 Copynumber: 4.0 Consensus size: 20
797390 TTCTAAATTC
797400 GTTGCGATAGTCCAAGTTCA
1 GTTGCGATAGTCCAAGTTCA
*
797420 TGTTGCGATAGTCCAAGTTCGC
1 -GTTGCGATAGTCCAAGTTC-A
** * *
797442 GTTGCGATTTTTCAAATTC-
1 GTTGCGATAGTCCAAGTTCA
*
797461 GTTGCAATAGTCCAAGTTCA
1 GTTGCGATAGTCCAAGTTCA
797481 CGTTCAAAGT
Statistics
Matches: 48, Mismatches: 10, Indels: 5
0.76 0.16 0.08
Matches are distributed among these distances:
19 14 0.29
21 34 0.71
ACGTcount: A:0.23, C:0.20, G:0.22, T:0.35
Consensus pattern (20 bp):
GTTGCGATAGTCCAAGTTCA
Found at i:797532 original size:53 final size:53
Alignment explanation
Indices: 797111--797524 Score: 579
Period size: 53 Copynumber: 7.8 Consensus size: 53
797101 GTTGTGATAG
797111 TCGAAGTTCGCGTTGCGATTTTCCAAATTCGTTGCGATAGTCCAAGTTCACGT
1 TCGAAGTTCGCGTTGCGATTTTCCAAATTCGTTGCGATAGTCCAAGTTCACGT
* * *
797164 TCGAAGTTCGCGTTGCGATTTTCTAAATTCGTTGCGATTGTCTAAGTTCACGT
1 TCGAAGTTCGCGTTGCGATTTTCCAAATTCGTTGCGATAGTCCAAGTTCACGT
*
797217 TCGAAGTTCGCGTTGCGATTTTTCAAATTCGTTGCGATAGTCCAAGTTCACGT
1 TCGAAGTTCGCGTTGCGATTTTCCAAATTCGTTGCGATAGTCCAAGTTCACGT
* *
797270 TCGAAGTTCGCGTTGCGATTTTTCAAATTCGTTGCGATTGTCCAAGTTCACGT
1 TCGAAGTTCGCGTTGCGATTTTCCAAATTCGTTGCGATAGTCCAAGTTCACGT
* *
797323 TCGAAGTTCGCGTTGTGATTTTCGAAATTCGTTGCGATAGTCC-----CA-GT
1 TCGAAGTTCGCGTTGCGATTTTCCAAATTCGTTGCGATAGTCCAAGTTCACGT
* *
797370 TCGAAGTTCGCATTGCGATTTTCTAAATTCGTTGCGATAGTCCAAGTTCATGTTGCGAT
1 TCGAAGTTCGCGTTGCGATTTTCCAAATTCGTTGCGATAGTCCAAGTTCA-----CG-T
* * *
797429 AGTCCAAGTTCGCGTTGCGATTTTTCAAATTCGTTGCAATAGTCCAAGTTCACGT
1 --TCGAAGTTCGCGTTGCGATTTTCCAAATTCGTTGCGATAGTCCAAGTTCACGT
* *
797484 TCAAAGTTCGCGTTGCGATTTTCCAAATTTGTTGCGATAGT
1 TCGAAGTTCGCGTTGCGATTTTCCAAATTCGTTGCGATAGT
797525 TGAAGTTCGC
Statistics
Matches: 323, Mismatches: 24, Indels: 28
0.86 0.06 0.07
Matches are distributed among these distances:
47 42 0.13
48 2 0.01
52 2 0.01
53 227 0.70
55 1 0.00
56 2 0.01
58 1 0.00
59 1 0.00
61 45 0.14
ACGTcount: A:0.21, C:0.20, G:0.22, T:0.37
Consensus pattern (53 bp):
TCGAAGTTCGCGTTGCGATTTTCCAAATTCGTTGCGATAGTCCAAGTTCACGT
Found at i:797532 original size:114 final size:108
Alignment explanation
Indices: 797326--797542 Score: 274
Period size: 114 Copynumber: 2.0 Consensus size: 108
797316 TTCACGTTCG
* * *
797326 AAGTTCGCGTTGTGATTTTCGAAATTCGTTGCGATAGTCCCAGTTCGAAGTTCGCATTGCGATTT
1 AAGTTCGCGTTGCGATTTTCGAAATTCGTTGCAATAGTCCCAGTTCAAAGTTCGCATTGCGATTT
* *
797391 TCTAAATTCGTTGCGATAGTCCAAGTTCATGTTGCGATAGTCC
66 TCCAAATTCGTTGCGATAGTCCAAGTTCACGTTGCGATAGTCC
*
797434 AAGTTCGCGTTGCGATTTTTC-AAATTCGTTGCAATAGTCCAAGTTCACGTTCAAAGTTCGCGTT
1 AAGTTCGCGTTGCGA-TTTTCGAAATTCGTTGCAATAGTCC-----CA-GTTCAAAGTTCGCATT
* ** *
797498 GCGATTTTCCAAATTTGTTGCGATAGTTGAAGTTCGCGTTGCGAT
59 GCGATTTTCCAAATTCGTTGCGATAGTCCAAGTTCACGTTGCGAT
797543 TTTTCAAATT
Statistics
Matches: 92, Mismatches: 10, Indels: 8
0.84 0.09 0.07
Matches are distributed among these distances:
108 32 0.35
109 5 0.05
113 2 0.02
114 53 0.58
ACGTcount: A:0.22, C:0.19, G:0.23, T:0.36
Consensus pattern (108 bp):
AAGTTCGCGTTGCGATTTTCGAAATTCGTTGCAATAGTCCCAGTTCAAAGTTCGCATTGCGATTT
TCCAAATTCGTTGCGATAGTCCAAGTTCACGTTGCGATAGTCC
Found at i:798034 original size:19 final size:19
Alignment explanation
Indices: 798007--798044 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
797997 ACGTTTTTCA
*
798007 AACTCTCGCAACACATTTT
1 AACTATCGCAACACATTTT
798026 AACTATCGCAACACATTTT
1 AACTATCGCAACACATTTT
798045 TTAAAATCGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.34, C:0.29, G:0.05, T:0.32
Consensus pattern (19 bp):
AACTATCGCAACACATTTT
Found at i:798783 original size:34 final size:33
Alignment explanation
Indices: 798677--798783 Score: 124
Period size: 34 Copynumber: 3.2 Consensus size: 33
798667 ATAAATGTTT
* *
798677 TTAAAATACAAATTATATTATTCAAAATTTAAA
1 TTAAAATAAAAATTATATTATTCGAAATTTAAA
* * *
798710 ATAGAAATAAAAATAATATTATTTGAAATTTAAA
1 TTA-AAATAAAAATTATATTATTCGAAATTTAAA
* *
798744 TTTAAAATATAAATTATAGTATTCGAAATTTAACA
1 -TTAAAATAAAAATTATATTATTCGAAATTTAA-A
798779 TTAAA
1 TTAAA
798784 TTTCAACTTA
Statistics
Matches: 61, Mismatches: 10, Indels: 5
0.80 0.13 0.07
Matches are distributed among these distances:
33 2 0.03
34 56 0.92
35 3 0.05
ACGTcount: A:0.54, C:0.04, G:0.04, T:0.38
Consensus pattern (33 bp):
TTAAAATAAAAATTATATTATTCGAAATTTAAA
Found at i:800205 original size:13 final size:14
Alignment explanation
Indices: 800187--800220 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
800177 ACTGTTTCAA
*
800187 TTAAAAT-TAAATT
1 TTAAAATCTAAAAT
800200 TTAAAATCTAAAAT
1 TTAAAATCTAAAAT
800214 TTAAAAT
1 TTAAAAT
800221 AATATAATGA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 7 0.37
14 12 0.63
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.41
Consensus pattern (14 bp):
TTAAAATCTAAAAT
Found at i:806871 original size:2 final size:2
Alignment explanation
Indices: 806860--806894 Score: 54
Period size: 2 Copynumber: 17.5 Consensus size: 2
806850 ATTAATCAGT
806860 TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TCA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T-A TA T
806895 TATTTTATTA
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
1 1 0.03
2 28 0.90
3 2 0.06
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:807763 original size:2 final size:2
Alignment explanation
Indices: 807756--807801 Score: 92
Period size: 2 Copynumber: 23.0 Consensus size: 2
807746 AAATAATTTA
807756 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
807798 AT AT
1 AT AT
807802 TTGAAAAGAC
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:809161 original size:28 final size:28
Alignment explanation
Indices: 809121--809203 Score: 130
Period size: 28 Copynumber: 3.0 Consensus size: 28
809111 CTCTATTTAT
**
809121 ATTATATCATCGAGTCAGTGCTTGAAAC
1 ATTATATTGTCGAGTCAGTGCTTGAAAC
*
809149 ATTATATTGTCGAGTCAGTTCTTGAAAC
1 ATTATATTGTCGAGTCAGTGCTTGAAAC
*
809177 ATTATGTTGTCGAGTCAGTGCTTGAAA
1 ATTATATTGTCGAGTCAGTGCTTGAAA
809204 ACAATAGTGG
Statistics
Matches: 50, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 50 1.00
ACGTcount: A:0.29, C:0.14, G:0.20, T:0.36
Consensus pattern (28 bp):
ATTATATTGTCGAGTCAGTGCTTGAAAC
Found at i:817868 original size:2 final size:2
Alignment explanation
Indices: 817857--817891 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
817847 TTTACATTTG
817857 AT AT -T 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
817892 GGATATGATT
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 31 0.97
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:819271 original size:29 final size:29
Alignment explanation
Indices: 819229--819317 Score: 124
Period size: 29 Copynumber: 3.1 Consensus size: 29
819219 ACCGGGGGGT
*
819229 AGGTCGCCATGCACGCCCGGCGACCTACC
1 AGGTCGCCATGCACGCCCAGCGACCTACC
***
819258 AGGTCGCCATGCACGCCCAGCGACCTGGT
1 AGGTCGCCATGCACGCCCAGCGACCTACC
* *
819287 AGGTCGCCATGCATGCCCTGCGACCTACC
1 AGGTCGCCATGCACGCCCAGCGACCTACC
819316 AG
1 AG
819318 CCAACGACCT
Statistics
Matches: 51, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 51 1.00
ACGTcount: A:0.18, C:0.40, G:0.28, T:0.13
Consensus pattern (29 bp):
AGGTCGCCATGCACGCCCAGCGACCTACC
Found at i:819347 original size:10 final size:10
Alignment explanation
Indices: 819332--819357 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
819322 CGACCTCCAT
819332 GCCCATGCAC
1 GCCCATGCAC
819342 GCCCATGCAC
1 GCCCATGCAC
819352 GCCCAT
1 GCCCAT
819358 CTCGCCAAAG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.19, C:0.50, G:0.19, T:0.12
Consensus pattern (10 bp):
GCCCATGCAC
Found at i:819393 original size:41 final size:41
Alignment explanation
Indices: 819342--819419 Score: 156
Period size: 41 Copynumber: 1.9 Consensus size: 41
819332 GCCCATGCAC
819342 GCCCATGCACGCCCATCTCGCCAAAGGTCACCATGCACCAT
1 GCCCATGCACGCCCATCTCGCCAAAGGTCACCATGCACCAT
819383 GCCCATGCACGCCCATCTCGCCAAAGGTCACCATGCA
1 GCCCATGCACGCCCATCTCGCCAAAGGTCACCATGCA
819420 ATGCACGTCC
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 37 1.00
ACGTcount: A:0.24, C:0.44, G:0.18, T:0.14
Consensus pattern (41 bp):
GCCCATGCACGCCCATCTCGCCAAAGGTCACCATGCACCAT
Found at i:819436 original size:33 final size:33
Alignment explanation
Indices: 819377--819452 Score: 116
Period size: 33 Copynumber: 2.3 Consensus size: 33
819367 GGTCACCATG
* *
819377 CACCATGCCCATGCACGCCCATCTCGCCAAAGGT
1 CACCATG-CAATGCACGCCCAGCTCGCCAAAGGT
*
819411 CACCATGCAATGCACGTCCAGCTCGCCAAAGGT
1 CACCATGCAATGCACGCCCAGCTCGCCAAAGGT
819444 CACCATGCA
1 CACCATGCA
819453 GTCCATGCTT
Statistics
Matches: 39, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
33 32 0.82
34 7 0.18
ACGTcount: A:0.26, C:0.41, G:0.18, T:0.14
Consensus pattern (33 bp):
CACCATGCAATGCACGCCCAGCTCGCCAAAGGT
Found at i:819663 original size:12 final size:11
Alignment explanation
Indices: 819643--819678 Score: 54
Period size: 11 Copynumber: 3.2 Consensus size: 11
819633 GAAATCAACT
819643 GCATTATTGCA
1 GCATTATTGCA
*
819654 GCACTTATTGCT
1 GCA-TTATTGCA
819666 GCATTATTGCA
1 GCATTATTGCA
819677 GC
1 GC
819679 CCGTGAACGT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
11 12 0.55
12 10 0.45
ACGTcount: A:0.22, C:0.22, G:0.19, T:0.36
Consensus pattern (11 bp):
GCATTATTGCA
Found at i:820007 original size:28 final size:27
Alignment explanation
Indices: 819968--820020 Score: 79
Period size: 28 Copynumber: 1.9 Consensus size: 27
819958 ATATTAAAAA
819968 AATAATTAATTAGTGTGTTAGTTAGTCT
1 AATAATTAATTAGTGTG-TAGTTAGTCT
* *
819996 AATATTTAATTAGTTTGTAGTTAGT
1 AATAATTAATTAGTGTGTAGTTAGT
820021 TAAATAGTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
27 8 0.35
28 15 0.65
ACGTcount: A:0.32, C:0.02, G:0.17, T:0.49
Consensus pattern (27 bp):
AATAATTAATTAGTGTGTAGTTAGTCT
Found at i:820026 original size:27 final size:29
Alignment explanation
Indices: 819967--820031 Score: 82
Period size: 27 Copynumber: 2.3 Consensus size: 29
819957 TATATTAAAA
819967 AAATAATTAATTAGTGTGTTAGTTAGTCT
1 AAATAATTAATTAGTGTGTTAGTTAGTCT
* *
819996 -AATATTTAATTAGTTTG-TAGTTAGT-T
1 AAATAATTAATTAGTGTGTTAGTTAGTCT
*
820022 AAATAGTTAA
1 AAATAATTAA
820032 GTTATATTTT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
26 1 0.03
27 16 0.50
28 15 0.47
ACGTcount: A:0.37, C:0.02, G:0.15, T:0.46
Consensus pattern (29 bp):
AAATAATTAATTAGTGTGTTAGTTAGTCT
Found at i:820124 original size:34 final size:36
Alignment explanation
Indices: 820056--820125 Score: 101
Period size: 37 Copynumber: 2.0 Consensus size: 36
820046 GTTGAATTTA
820056 TATTATATAAAAATTAGTTTATTAGTAGTTTAAGTTT
1 TATTATATAAAAATTAGTTTATTA-TAGTTTAAGTTT
820093 TATTATAATAAAAA-TAGTTTA-T-TAGTTTAAGTT
1 TATTAT-ATAAAAATTAGTTTATTATAGTTTAAGTT
820126 ATATAAAGAA
Statistics
Matches: 32, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
34 11 0.34
36 1 0.03
37 13 0.41
38 7 0.22
ACGTcount: A:0.40, C:0.00, G:0.10, T:0.50
Consensus pattern (36 bp):
TATTATATAAAAATTAGTTTATTATAGTTTAAGTTT
Found at i:820167 original size:18 final size:18
Alignment explanation
Indices: 820144--820198 Score: 52
Period size: 18 Copynumber: 3.4 Consensus size: 18
820134 AATAATTATT
820144 TAAATTAGTTTATTGTTA
1 TAAATTAGTTTATTGTTA
820162 TAAATTA--TTA--G-T-
1 TAAATTAGTTTATTGTTA
*
820174 T-AATTAGTTTATTATTA
1 TAAATTAGTTTATTGTTA
820191 TAAATTAG
1 TAAATTAG
820199 GGTAAAACAA
Statistics
Matches: 29, Mismatches: 1, Indels: 14
0.66 0.02 0.32
Matches are distributed among these distances:
11 5 0.17
12 1 0.03
13 4 0.14
14 1 0.03
16 4 0.14
17 1 0.03
18 13 0.45
ACGTcount: A:0.38, C:0.00, G:0.09, T:0.53
Consensus pattern (18 bp):
TAAATTAGTTTATTGTTA
Found at i:820251 original size:21 final size:21
Alignment explanation
Indices: 820226--820265 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
820216 GTTAATTAGT
820226 TTGTTAGTTTAAGTTATATTA
1 TTGTTAGTTTAAGTTATATTA
820247 TTGTTAGTTTAAGTTATAT
1 TTGTTAGTTTAAGTTATAT
820266 CATATAGAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.28, C:0.00, G:0.15, T:0.57
Consensus pattern (21 bp):
TTGTTAGTTTAAGTTATATTA
Found at i:822846 original size:14 final size:14
Alignment explanation
Indices: 822827--822874 Score: 66
Period size: 14 Copynumber: 3.6 Consensus size: 14
822817 TTCAAGTCGT
822827 AAATCATTACTATC
1 AAATCATTACTATC
822841 AAATCATTAC--T-
1 AAATCATTACTATC
*
822852 AAATCATTAATATC
1 AAATCATTACTATC
822866 AAATCATTA
1 AAATCATTA
822875 AATATTAATA
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
11 9 0.30
12 1 0.03
13 1 0.03
14 19 0.63
ACGTcount: A:0.48, C:0.17, G:0.00, T:0.35
Consensus pattern (14 bp):
AAATCATTACTATC
Found at i:822908 original size:48 final size:49
Alignment explanation
Indices: 822846--823266 Score: 196
Period size: 60 Copynumber: 7.5 Consensus size: 49
822836 CTATCAAATC
*
822846 ATTACTAAATCATTAATATCAAATCATTAAATATTAATAATAAATT-ATT
1 ATTACT-AATCATTAATATCAAATCATTAAAAATTAATAATAAATTCATT
* *
822895 ATTACTAATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATT
1 ATTACTAATCATTAATATCAAATCATTAAAAATTAATAATAAATTCATT
* * *
822944 ATTACTAATCATTACTAAATCATTACTATCAAATCATACATAATTAATAATAATTTCATT
1 ATTACTAATCATTA--ATATCA--A--ATC--AT--TA-AAAATTAATAATAAATTCATT
*
823004 ATTACTAATCATTACTAAATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATT
1 ATTACTAATC---A-T---T-A--A-TATCAAATCATTAAAAATTAATAATAAATTCATT
* * *
823064 ATTACTAATCATTACTAAGTCATTACTATCAAATCATACATAATTAATAATAATTTCATT
1 ATTACTAATCATTAAT-A-TCA--A--ATC--AT--TA-AAAATTAATAATAAATTCATT
*
823124 ATTACTAATCATTACTAAATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATT
1 ATTACTAATC---A-T---T-A--A-TATCAAATCATTAAAAATTAATAATAAATTCATT
* * *
823184 ATTACTAATCATTACTAAATCATTACTATCAAATCATACATAATTAATAATAATTTCATT
1 ATTACTAATCATTA--ATATCA--A--ATC--AT--TA-AAAATTAATAATAAATTCATT
*
823244 ATTACTAATCATTACTATCAAAT
1 ATTACTAATCATTAATATCAAAT
823267 TACTATTAAA
Statistics
Matches: 302, Mismatches: 18, Indels: 99
0.72 0.04 0.24
Matches are distributed among these distances:
48 36 0.12
49 24 0.08
50 1 0.00
51 11 0.04
52 4 0.01
53 5 0.02
54 2 0.01
55 9 0.03
56 3 0.01
57 8 0.03
58 4 0.01
59 6 0.02
60 154 0.51
61 4 0.01
63 6 0.02
64 2 0.01
65 6 0.02
67 4 0.01
68 4 0.01
69 7 0.02
70 1 0.00
71 1 0.00
ACGTcount: A:0.46, C:0.14, G:0.00, T:0.40
Consensus pattern (49 bp):
ATTACTAATCATTAATATCAAATCATTAAAAATTAATAATAAATTCATT
Found at i:822970 original size:60 final size:60
Alignment explanation
Indices: 822895--823324 Score: 710
Period size: 60 Copynumber: 7.2 Consensus size: 60
822885 ATAAATTATT
822895 ATTACT-AATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATTATTACTAATC
1 ATTACTAAATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATTATTACTAATC
*
822954 ATTACTAAATCATTACTATCAAATCA-TACATAATTAATAATAATTTCATTATTACTAATC
1 ATTACTAAATCATTACTATCAAATCATTA-AAAATTAATAATAATTTCATTATTACTAATC
823014 ATTACTAAATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATTATTACTAATC
1 ATTACTAAATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATTATTACTAATC
* *
823074 ATTACTAAGTCATTACTATCAAATCA-TACATAATTAATAATAATTTCATTATTACTAATC
1 ATTACTAAATCATTACTATCAAATCATTA-AAAATTAATAATAATTTCATTATTACTAATC
823134 ATTACTAAATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATTATTACTAATC
1 ATTACTAAATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATTATTACTAATC
*
823194 ATTACTAAATCATTACTATCAAATCA-TACATAATTAATAATAATTTCATTATTACTAATC
1 ATTACTAAATCATTACTATCAAATCATTA-AAAATTAATAATAATTTCATTATTACTAATC
* * *
823254 ATTACT--ATCAAATTACTATTAAATCATTAAATATTAATAATAATTTCATCATTACTAATC
1 ATTACTAAATC--ATTACTATCAAATCATTAAAAATTAATAATAATTTCATTATTACTAATC
823314 ATTACTAAATC
1 ATTACTAAATC
823325 TTATAAATAC
Statistics
Matches: 349, Mismatches: 11, Indels: 19
0.92 0.03 0.05
Matches are distributed among these distances:
58 3 0.01
59 12 0.03
60 325 0.93
61 6 0.02
62 3 0.01
ACGTcount: A:0.45, C:0.14, G:0.00, T:0.40
Consensus pattern (60 bp):
ATTACTAAATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATTATTACTAATC
Found at i:826424 original size:28 final size:28
Alignment explanation
Indices: 826393--826446 Score: 99
Period size: 28 Copynumber: 1.9 Consensus size: 28
826383 ATAATCTAAT
*
826393 ATATAACTTAAACTAACAAATTAATATA
1 ATATAACTTAAACTAACAAACTAATATA
826421 ATATAACTTAAACTAACAAACTAATA
1 ATATAACTTAAACTAACAAACTAATA
826447 ATTTATACTA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.57, C:0.13, G:0.00, T:0.30
Consensus pattern (28 bp):
ATATAACTTAAACTAACAAACTAATATA
Found at i:826453 original size:28 final size:28
Alignment explanation
Indices: 826389--826453 Score: 96
Period size: 28 Copynumber: 2.3 Consensus size: 28
826379 TTATATAATC
*
826389 TAATATATAACTTAAACTAACAAATTAA
1 TAATATATAACTTAAACTAACAAACTAA
826417 T-ATAATATAACTTAAACTAACAAACTAA
1 TAAT-ATATAACTTAAACTAACAAACTAA
*
826445 TAATTTATA
1 TAATATATA
826454 CTAACAAACT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
27 2 0.06
28 29 0.88
29 2 0.06
ACGTcount: A:0.55, C:0.11, G:0.00, T:0.34
Consensus pattern (28 bp):
TAATATATAACTTAAACTAACAAACTAA
Found at i:826456 original size:21 final size:21
Alignment explanation
Indices: 826423--826471 Score: 71
Period size: 21 Copynumber: 2.3 Consensus size: 21
826413 TTAATATAAT
826423 ATAACTTAAACTAACAAACTA
1 ATAACTTAAACTAACAAACTA
* *
826444 ATAATTTATACTAACAAACTA
1 ATAACTTAAACTAACAAACTA
826465 ATTAACT
1 A-TAACT
826472 AAATTTCTGT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.53, C:0.16, G:0.00, T:0.31
Consensus pattern (21 bp):
ATAACTTAAACTAACAAACTA
Found at i:827149 original size:30 final size:30
Alignment explanation
Indices: 827113--827270 Score: 181
Period size: 30 Copynumber: 5.0 Consensus size: 30
827103 GCGAGCTGGG
827113 CGTGCATGGAGGTCGTTGGGCGTGCATGGC
1 CGTGCATGGAGGTCGTTGGGCGTGCATGGC
* * *
827143 CGTGCATGGAGGTCGTTGGACGTGCCTGGG
1 CGTGCATGGAGGTCGTTGGGCGTGCATGGC
*
827173 CATGCATGGAGGTCGTTGGGCGTGCATGGGC
1 CGTGCATGGAGGTCGTTGGGCGTGCAT-GGC
* *
827204 GTGCATGGAGGTCATGGAGGTCGTTGGGCGTGCATGGG
1 ---C---G-TG-CATGGAGGTCGTTGGGCGTGCATGGC
827242 CGTGCATGGAGGTCGTTGGGCGTGCATGG
1 CGTGCATGGAGGTCGTTGGGCGTGCATGG
827271 GCGTTGGCTG
Statistics
Matches: 108, Mismatches: 11, Indels: 18
0.79 0.08 0.13
Matches are distributed among these distances:
30 76 0.70
31 3 0.03
32 1 0.01
34 1 0.01
35 1 0.01
38 3 0.03
39 23 0.21
ACGTcount: A:0.11, C:0.18, G:0.47, T:0.23
Consensus pattern (30 bp):
CGTGCATGGAGGTCGTTGGGCGTGCATGGC
Found at i:827204 original size:10 final size:10
Alignment explanation
Indices: 827189--827274 Score: 67
Period size: 10 Copynumber: 8.7 Consensus size: 10
827179 TGGAGGTCGT
827189 TGGGCGTGCA
1 TGGGCGTGCA
827199 TGGGCGTGCA
1 TGGGCGTGCA
827209 TGGAG-GT-CA
1 TGG-GCGTGCA
*
827218 TGGAG-GT-CGT
1 TGG-GCGTGC-A
827228 TGGGCGTGCA
1 TGGGCGTGCA
827238 TGGGCGTGCA
1 TGGGCGTGCA
*
827248 TGGAG-GT-CGT
1 TGG-GCGTGC-A
827258 TGGGCGTGCA
1 TGGGCGTGCA
827268 TGGGCGT
1 TGGGCGT
827275 TGGCTGGTAG
Statistics
Matches: 64, Mismatches: 4, Indels: 16
0.76 0.05 0.19
Matches are distributed among these distances:
9 13 0.20
10 47 0.73
11 4 0.06
ACGTcount: A:0.10, C:0.16, G:0.50, T:0.23
Consensus pattern (10 bp):
TGGGCGTGCA
Found at i:827221 original size:39 final size:39
Alignment explanation
Indices: 827177--827255 Score: 158
Period size: 39 Copynumber: 2.0 Consensus size: 39
827167 CCTGGGCATG
827177 CATGGAGGTCGTTGGGCGTGCATGGGCGTGCATGGAGGT
1 CATGGAGGTCGTTGGGCGTGCATGGGCGTGCATGGAGGT
827216 CATGGAGGTCGTTGGGCGTGCATGGGCGTGCATGGAGGT
1 CATGGAGGTCGTTGGGCGTGCATGGGCGTGCATGGAGGT
827255 C
1 C
827256 GTTGGGCGTG
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 40 1.00
ACGTcount: A:0.13, C:0.16, G:0.48, T:0.23
Consensus pattern (39 bp):
CATGGAGGTCGTTGGGCGTGCATGGGCGTGCATGGAGGT
Found at i:827242 original size:69 final size:70
Alignment explanation
Indices: 827129--827274 Score: 240
Period size: 69 Copynumber: 2.1 Consensus size: 70
827119 TGGAGGTCGT
* *
827129 TGGGCGTGCATGGCCGTGCATGGAGGTCGTTGGACGTGCCTGGGCATGCATGGAGGTCGTTGGGC
1 TGGGCGTGCATGGACGTGCATGGAGGTCGTTGGACGTGCATGGGCATGCATGGAGGTCGTTGGGC
827194 GTGCA
66 GTGCA
* * *
827199 TGGGCGTGCATGGAGGT-CATGGAGGTCGTTGGGCGTGCATGGGCGTGCATGGAGGTCGTTGGGC
1 TGGGCGTGCATGGACGTGCATGGAGGTCGTTGGACGTGCATGGGCATGCATGGAGGTCGTTGGGC
827263 GTGCA
66 GTGCA
827268 TGGGCGT
1 TGGGCGT
827275 TGGCTGGTAG
Statistics
Matches: 71, Mismatches: 5, Indels: 1
0.92 0.06 0.01
Matches are distributed among these distances:
69 56 0.79
70 15 0.21
ACGTcount: A:0.11, C:0.18, G:0.48, T:0.23
Consensus pattern (70 bp):
TGGGCGTGCATGGACGTGCATGGAGGTCGTTGGACGTGCATGGGCATGCATGGAGGTCGTTGGGC
GTGCA
Found at i:827323 original size:29 final size:29
Alignment explanation
Indices: 827283--827369 Score: 120
Period size: 29 Copynumber: 3.0 Consensus size: 29
827273 GTTGGCTGGT
*
827283 AGGTCGCAGGGCATGCATGGCGACCTACC
1 AGGTCGCAGGGCGTGCATGGCGACCTACC
* ***
827312 AGGTCGCTGGGCGTGCATGGCGACCTGGT
1 AGGTCGCAGGGCGTGCATGGCGACCTACC
*
827341 AGGTCGCCGGGCGTGCATGGCGACCTACC
1 AGGTCGCAGGGCGTGCATGGCGACCTACC
827370 CCCCGGTACT
Statistics
Matches: 49, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
29 49 1.00
ACGTcount: A:0.15, C:0.30, G:0.39, T:0.16
Consensus pattern (29 bp):
AGGTCGCAGGGCGTGCATGGCGACCTACC
Found at i:827360 original size:58 final size:60
Alignment explanation
Indices: 827251--827369 Score: 170
Period size: 58 Copynumber: 2.0 Consensus size: 60
827241 GCGTGCATGG
* **
827251 AGGTCGTTGGGCGTGCATGGGCGTTGGCTGGTAGGTCGCAGGGCATGCATGGCGACCTACC
1 AGGTCGCTGGGCGTGCATGGGCG-TACCTGGTAGGTCGCAGGGCATGCATGGCGACCTACC
* *
827312 AGGTCGCTGGGCGTGCAT-GGCG-ACCTGGTAGGTCGCCGGGCGTGCATGGCGACCTACC
1 AGGTCGCTGGGCGTGCATGGGCGTACCTGGTAGGTCGCAGGGCATGCATGGCGACCTACC
827370 CCCCGGTACT
Statistics
Matches: 53, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
58 32 0.60
60 4 0.08
61 17 0.32
ACGTcount: A:0.13, C:0.26, G:0.42, T:0.19
Consensus pattern (60 bp):
AGGTCGCTGGGCGTGCATGGGCGTACCTGGTAGGTCGCAGGGCATGCATGGCGACCTACC
Found at i:832357 original size:2 final size:2
Alignment explanation
Indices: 832350--832379 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
832340 TCTGCTACGA
832350 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
832380 GTCCTGTTCA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:851404 original size:27 final size:27
Alignment explanation
Indices: 851374--851433 Score: 111
Period size: 27 Copynumber: 2.2 Consensus size: 27
851364 GCGGATTCAA
851374 AATTTTATAAATAGGGTCTAAAATTTT
1 AATTTTATAAATAGGGTCTAAAATTTT
*
851401 AATTTTATAAATGGGGTCTAAAATTTT
1 AATTTTATAAATAGGGTCTAAAATTTT
851428 AATTTT
1 AATTTT
851434 CTTCTCTTAA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.38, C:0.03, G:0.12, T:0.47
Consensus pattern (27 bp):
AATTTTATAAATAGGGTCTAAAATTTT
Found at i:860044 original size:60 final size:60
Alignment explanation
Indices: 859909--860055 Score: 145
Period size: 60 Copynumber: 2.4 Consensus size: 60
859899 AACATAATGA
* * * * * * *
859909 ATAGTTAGATGACTATTTTGTAACTTTTAATAGTTGATGTACTCAACAAAGTAATTCCCT
1 ATAGTTGGAGGACCATTTTGTAATTTTTAATAGTTGAGGGACTCAACAAAGCAATTCCCT
* * * **
859969 GTAGTCGG-GGTACCATTTTATAATTTTTAATAGTTGAGGGACTCAAGTAAGCAATAT-CCT
1 ATAGTTGGAGG-ACCATTTTGTAATTTTTAATAGTTGAGGGACTCAACAAAGCAAT-TCCCT
860029 ATAGTTGGAGGACCATTTATGTAATTT
1 ATAGTTGGAGGACCATTT-TGTAATTT
860056 ACCCTTCTTT
Statistics
Matches: 68, Mismatches: 15, Indels: 7
0.76 0.17 0.08
Matches are distributed among these distances:
59 1 0.01
60 57 0.84
61 10 0.15
ACGTcount: A:0.31, C:0.12, G:0.18, T:0.38
Consensus pattern (60 bp):
ATAGTTGGAGGACCATTTTGTAATTTTTAATAGTTGAGGGACTCAACAAAGCAATTCCCT
Found at i:869898 original size:2 final size:2
Alignment explanation
Indices: 869891--869916 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
869881 AAATAAATAA
869891 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
869917 TTAATAATTT
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:881879 original size:12 final size:12
Alignment explanation
Indices: 881858--881898 Score: 50
Period size: 12 Copynumber: 3.5 Consensus size: 12
881848 TTAAACTTTT
*
881858 ATATTAAAATAA
1 ATATTTAAATAA
881870 ATATTTAAATAA
1 ATATTTAAATAA
881882 AT-TTTATAA-AA
1 ATATTTA-AATAA
881893 ATATTT
1 ATATTT
881899 TAATCGTTTC
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
11 8 0.31
12 18 0.69
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (12 bp):
ATATTTAAATAA
Found at i:890059 original size:2 final size:2
Alignment explanation
Indices: 890052--890078 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
890042 TAAGATTCTA
890052 AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG A
890079 ATCATTACTG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:891826 original size:29 final size:29
Alignment explanation
Indices: 891770--891826 Score: 69
Period size: 29 Copynumber: 2.0 Consensus size: 29
891760 TGTTTTATTT
* * * *
891770 AAAGGATGACATTTCGGTAAATATTAATG
1 AAAGAATGACAATTCGATAAATAATAATG
*
891799 AAAGAATGACAATTCGATAATTAATAAT
1 AAAGAATGACAATTCGATAAATAATAAT
891827 TTTTAGGGTG
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
29 23 1.00
ACGTcount: A:0.47, C:0.07, G:0.16, T:0.30
Consensus pattern (29 bp):
AAAGAATGACAATTCGATAAATAATAATG
Found at i:897652 original size:110 final size:105
Alignment explanation
Indices: 897473--897840 Score: 363
Period size: 110 Copynumber: 3.4 Consensus size: 105
897463 CAAATGACGA
* * * * * ** *
897473 GTCCGCTCCCTATTTCTTCAGGGAGTATAAGACTCACACAATCTTCAGCAAACGGGTCTGCTCCC
1 GTCCGCTCCCTATTCCTTCAGAGAGTATAGGACT--C-TAATCTTCAACAAACATGTCCGCTCCC
* *
897538 TATTCATTCAGGGAGTATAAGACTCAGACAATCTTCAACAAACAG
63 TATTCCTTCAGAGAGTATAAGACTC-GACAATCTTCAACAAAC-G
* * * * * *
897583 GTCCACTCCCTATTCGTTCAGAGAATATATGACTCGATCAATCTTCATA-AAACATGTCCGTTCT
1 GTCCGCTCCCTATTCCTTCAGAGAGTATAGGACTC--T-AATCTTCA-ACAAACATGTCCGCTCC
*
897647 TTATTCCTTCAGAGAGTAT-AGAACTCGAACAATCTTCAACAAACGG
62 CTATTCCTTCAGAGAGTATAAG-ACTCG-ACAATCTTCAACAAAC-G
* * * **
897693 GTCTGCTGCCTATTCCTTCAGAGAGTATAGGACT-TGATCTTCAACAAATGTGTCCGCTCCCTAT
1 GTCCGCTCCCTATTCCTTCAGAGAGTATAGGACTCTAATCTTCAACAAACATGTCCGCTCCCTAT
897757 TCCTTCAGAGAGTATAAGACTCG---ATCTTCAACAAACG
66 TCCTTCAGAGAGTATAAGACTCGACAATCTTCAACAAACG
*
897794 TGTCCGCTCCCTATTCCTTCAAAGAGTATAGGACTCT-ATCTTCAACA
1 -GTCCGCTCCCTATTCCTTCAGAGAGTATAGGACTCTAATCTTCAACA
897841 GAAGTGAGTT
Statistics
Matches: 217, Mismatches: 32, Indels: 26
0.79 0.12 0.09
Matches are distributed among these distances:
101 1 0.00
102 54 0.25
103 1 0.00
105 1 0.00
106 41 0.19
107 3 0.01
108 1 0.00
109 4 0.02
110 111 0.51
ACGTcount: A:0.29, C:0.26, G:0.16, T:0.29
Consensus pattern (105 bp):
GTCCGCTCCCTATTCCTTCAGAGAGTATAGGACTCTAATCTTCAACAAACATGTCCGCTCCCTAT
TCCTTCAGAGAGTATAAGACTCGACAATCTTCAACAAACG
Found at i:897756 original size:51 final size:51
Alignment explanation
Indices: 897473--897840 Score: 317
Period size: 55 Copynumber: 6.9 Consensus size: 51
897463 CAAATGACGA
* * * * * *
897473 GTCCGCTCCCTATTTCTTCAGGGAGTATAAGACTCACACAATCTTCAGCAAACGG
1 GTCCGCTCCCTATTCCTTCAGAGAGTATAGGACT----CGATCTTCAACAAACGT
* * * *
897528 GTCTGCTCCCTATTCATTCAGGGAGTATAAGACTCAGACAATCTTCAACAAACAG-
1 GTCCGCTCCCTATTCCTTCAGAGAGTATAGGACTC-G---ATCTTCAACAAAC-GT
* * * * *
897583 GTCCACTCCCTATTCGTTCAGAGAATATATGACTCGATCAATCTTCATA-AAACAT
1 GTCCGCTCCCTATTCCTTCAGAGAGTATAGGACTCG----ATCTTCA-ACAAACGT
* ** * *
897638 GTCCGTTCTTTATTCCTTCAGAGAGTATAGAACTCGAACAATCTTCAACAAACGG
1 GTCCGCTCCCTATTCCTTCAGAGAGTATAGGACTCG----ATCTTCAACAAACGT
* * * *
897693 GTCTGCTGCCTATTCCTTCAGAGAGTATAGGACTTGATCTTCAACAAATGT
1 GTCCGCTCCCTATTCCTTCAGAGAGTATAGGACTCGATCTTCAACAAACGT
*
897744 GTCCGCTCCCTATTCCTTCAGAGAGTATAAGACTCGATCTTCAACAAACGT
1 GTCCGCTCCCTATTCCTTCAGAGAGTATAGGACTCGATCTTCAACAAACGT
* *
897795 GTCCGCTCCCTATTCCTTCAAAGAGTATAGGACTCTATCTTCAACA
1 GTCCGCTCCCTATTCCTTCAGAGAGTATAGGACTCGATCTTCAACA
897841 GAAGTGAGTT
Statistics
Matches: 263, Mismatches: 41, Indels: 22
0.81 0.13 0.07
Matches are distributed among these distances:
51 103 0.39
54 2 0.01
55 156 0.59
56 2 0.01
ACGTcount: A:0.29, C:0.26, G:0.16, T:0.29
Consensus pattern (51 bp):
GTCCGCTCCCTATTCCTTCAGAGAGTATAGGACTCGATCTTCAACAAACGT
Found at i:897906 original size:37 final size:37
Alignment explanation
Indices: 897850--898036 Score: 259
Period size: 37 Copynumber: 5.1 Consensus size: 37
897840 AGAAGTGAGT
* * * * *
897850 TTGCTTCACTACTCCTCCATGAAGGCTTATAGA-TGAT
1 TTGCTTCACTGCTCTTTCGTGAAGGCTTA-AGATTGAA
* * * *
897887 TTGTTTCACTACTCTTCCATGAAGGCTTAAGATTGAA
1 TTGCTTCACTGCTCTTTCGTGAAGGCTTAAGATTGAA
*
897924 TTGCTTCACTGCTCTTTCGTGAAGGCTTAAGATTTAA
1 TTGCTTCACTGCTCTTTCGTGAAGGCTTAAGATTGAA
*
897961 TTGCTTCACTGCTCTTTCGTGAAGGCTTGAGATTGAA
1 TTGCTTCACTGCTCTTTCGTGAAGGCTTAAGATTGAA
897998 TTGCTTCACTGCTCTTTCGTGAAGGCTTAAGATTGAA
1 TTGCTTCACTGCTCTTTCGTGAAGGCTTAAGATTGAA
898035 TT
1 TT
898037 ATTTCAAAGG
Statistics
Matches: 138, Mismatches: 11, Indels: 2
0.91 0.07 0.01
Matches are distributed among these distances:
36 3 0.02
37 135 0.98
ACGTcount: A:0.22, C:0.20, G:0.19, T:0.39
Consensus pattern (37 bp):
TTGCTTCACTGCTCTTTCGTGAAGGCTTAAGATTGAA
Found at i:899240 original size:18 final size:19
Alignment explanation
Indices: 899219--899254 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
899209 TTTTCATTTT
899219 CATTTTC-ATTTTTTCTTC
1 CATTTTCTATTTTTTCTTC
899237 CATTTTCTATTTTTTCTT
1 CATTTTCTATTTTTTCTT
899255 TTCTATTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 7 0.41
19 10 0.59
ACGTcount: A:0.11, C:0.19, G:0.00, T:0.69
Consensus pattern (19 bp):
CATTTTCTATTTTTTCTTC
Found at i:899240 original size:24 final size:24
Alignment explanation
Indices: 899180--899249 Score: 72
Period size: 24 Copynumber: 2.8 Consensus size: 24
899170 TGAACCCCCC
* *
899180 TTTTATTTCTTTTTCTTTTTTCATCA
1 TTTT-TTTCATTTTCTATTTTCAT-A
899206 TTTTTTTCATTTTC-ATTTTCAT-
1 TTTTTTTCATTTTCTATTTTCATA
899228 TTTTTCTTCCATTTTCTATTTT
1 TTTTT-TT-CATTTTCTATTTT
899250 TTCTTTTCTA
Statistics
Matches: 39, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
22 5 0.13
23 2 0.05
24 14 0.36
25 14 0.36
26 4 0.10
ACGTcount: A:0.11, C:0.16, G:0.00, T:0.73
Consensus pattern (24 bp):
TTTTTTTCATTTTCTATTTTCATA
Found at i:899251 original size:21 final size:20
Alignment explanation
Indices: 899205--899296 Score: 59
Period size: 18 Copynumber: 4.5 Consensus size: 20
899195 TTTTTTCATC
*
899205 ATTTTTTTCATTTTCATTTTC-
1 ATTTTTTT--TTTCCATTTTCT
*
899226 A-TTTTTTCTTCCATTTTCT
1 ATTTTTTTTTTCCATTTTCT
*
899245 ATTTTTTCTTTTCTATTTTTTCT
1 ATTTTTT-TTTTCCA--TTTTCT
*
899268 CTTTTTTTTTT-CATTTT-T
1 ATTTTTTTTTTCCATTTTCT
899286 -TTTTTATTTTT
1 ATTTTT-TTTTT
899297 TTTTCTATTT
Statistics
Matches: 59, Mismatches: 6, Indels: 15
0.74 0.08 0.19
Matches are distributed among these distances:
17 5 0.08
18 15 0.25
19 5 0.08
20 11 0.19
21 7 0.12
22 4 0.07
23 12 0.20
ACGTcount: A:0.10, C:0.13, G:0.00, T:0.77
Consensus pattern (20 bp):
ATTTTTTTTTTCCATTTTCT
Found at i:899256 original size:24 final size:23
Alignment explanation
Indices: 899206--899258 Score: 58
Period size: 24 Copynumber: 2.3 Consensus size: 23
899196 TTTTTCATCA
899206 TTTTT-TT-CATTTTCATTTTCAT
1 TTTTTCTTCCATTTTCATTTT-AT
899228 TTTTTCTTCCATTTTCTATTTT-T
1 TTTTTCTTCCATTTTC-ATTTTAT
899251 TCTTTTCT
1 T-TTTTCT
899259 ATTTTTTCTC
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
22 5 0.19
23 4 0.15
24 13 0.48
25 5 0.19
ACGTcount: A:0.09, C:0.17, G:0.00, T:0.74
Consensus pattern (23 bp):
TTTTTCTTCCATTTTCATTTTAT
Found at i:899272 original size:23 final size:22
Alignment explanation
Indices: 899239--899306 Score: 84
Period size: 23 Copynumber: 3.0 Consensus size: 22
899229 TTTTCTTCCA
899239 TTTTCTATTTTTTCTTTTCTATT
1 TTTTCTATTTTTT-TTTTCTATT
*
899262 TTTTCTCTTTTTTTTTTC-ATT
1 TTTTCTATTTTTTTTTTCTATT
* *
899283 TTTTTTTTATTTTTTTTTCTATT
1 TTTTCTAT-TTTTTTTTTCTATT
899306 T
1 T
899307 CTTATTCAAG
Statistics
Matches: 40, Mismatches: 3, Indels: 4
0.85 0.06 0.09
Matches are distributed among these distances:
21 9 0.22
22 15 0.38
23 16 0.40
ACGTcount: A:0.07, C:0.10, G:0.00, T:0.82
Consensus pattern (22 bp):
TTTTCTATTTTTTTTTTCTATT
Found at i:899298 original size:14 final size:14
Alignment explanation
Indices: 899239--899300 Score: 52
Period size: 14 Copynumber: 4.1 Consensus size: 14
899229 TTTTCTTCCA
*
899239 TTTTCTATTTTTTC
1 TTTTCTATTTTTTT
899253 TTTTCTATTTTTTCT
1 TTTTCTATTTTTT-T
* *
899268 CTTTTTTTTTTCATTTT
1 -TTTTCTATTT--TTTT
*
899285 TTTTTTATTTTTTT
1 TTTTCTATTTTTTT
899299 TT
1 TT
899301 CTATTTCTTA
Statistics
Matches: 40, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
14 19 0.47
16 17 0.43
17 1 0.03
18 3 0.08
ACGTcount: A:0.06, C:0.10, G:0.00, T:0.84
Consensus pattern (14 bp):
TTTTCTATTTTTTT
Found at i:913605 original size:19 final size:18
Alignment explanation
Indices: 913557--913616 Score: 59
Period size: 19 Copynumber: 3.2 Consensus size: 18
913547 AAATCAAAAG
913557 AAAAATGTAAAAAAATAATT
1 AAAAATGT-AAAAAA-AATT
*
913577 AATAAT-TAAAAAAAATT
1 AAAAATGTAAAAAAAATT
* *
913594 AAAAATGATAAAATAAATC
1 AAAAATG-TAAAAAAAATT
913613 AAAA
1 AAAA
913617 GGAAAAAAGA
Statistics
Matches: 34, Mismatches: 4, Indels: 5
0.79 0.09 0.12
Matches are distributed among these distances:
17 9 0.26
18 6 0.18
19 14 0.41
20 5 0.15
ACGTcount: A:0.72, C:0.02, G:0.03, T:0.23
Consensus pattern (18 bp):
AAAAATGTAAAAAAAATT
Found at i:913667 original size:13 final size:14
Alignment explanation
Indices: 913651--913708 Score: 57
Period size: 13 Copynumber: 4.1 Consensus size: 14
913641 AAGAAAAGGC
913651 AAAGAAAA-AAATA
1 AAAGAAAATAAATA
913664 AAAGAAAATAAATA
1 AAAGAAAATAAATA
*
913678 AATAAATAAATAAAT-
1 AA-AGA-AAATAAATA
* *
913693 AAACATAATAAATA
1 AAAGAAAATAAATA
913707 AA
1 AA
913709 TCAAAGAGGA
Statistics
Matches: 38, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
13 15 0.39
14 11 0.29
15 4 0.11
16 8 0.21
ACGTcount: A:0.78, C:0.02, G:0.03, T:0.17
Consensus pattern (14 bp):
AAAGAAAATAAATA
Found at i:913678 original size:4 final size:4
Alignment explanation
Indices: 913669--913709 Score: 64
Period size: 4 Copynumber: 10.0 Consensus size: 4
913659 AAATAAAAGA
*
913669 AAAT AAAT AAAT AAAT AAAT AAAT AAAC ATAAT AAAT AAAT
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT A-AAT AAAT AAAT
913710 CAAAGAGGAA
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
4 31 0.91
5 3 0.09
ACGTcount: A:0.73, C:0.02, G:0.00, T:0.24
Consensus pattern (4 bp):
AAAT
Found at i:915427 original size:84 final size:84
Alignment explanation
Indices: 915332--916200 Score: 854
Period size: 84 Copynumber: 10.5 Consensus size: 84
915322 AAATTTGGTT
* * *
915332 TGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTCGGTTGACAGATAACCCTTCTCGACTTA
1 TGCCTTGGAGCTGAGCGTAATCGAACTCGAAGGTCTTTGGTTGACAGATAACCCTTCTCGACTTA
* *
915397 AGCTATGATGCAAATGATG
66 AGTTATGCTGCAAATGATG
* * * * * *
915416 AGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTTTTTTGG-TGATAGATAACCCTTCTAGCCTT
1 TGCCTTGGAGCTGAGCGTAATCGAACTCGAAGG-TCTTTGGTTGACAGATAACCCTTCTCGACTT
* *
915480 GAA-TTATACTGTAAATGATG
65 -AAGTTATGCTGCAAATGATG
* * * * * * *
915500 TGCCATCGAAGTTGAGTGTAATCGAACTCGAGGGTCTTT-G--G-CAGATAGCCCTTCTTGACTT
1 TGCC-TTGGAGCTGAGCGTAATCGAACTCGAAGGTCTTTGGTTGACAGATAACCCTTCTCGACTT
*
915561 AAGCTATGCTGCAAATGATG
65 AAGTTATGCTGCAAATGATG
* * * *
915581 TGCCTTGGAGCTGAGCATATTCAAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTA
1 TGCCTTGGAGCTGAGCGTAATCGAACTCGAAGGTCTTTGGTTGACAGATAACCCTTCTCGACTTA
*
915646 AGTTATGCTGCAAATGATA
66 AGTTATGCTGCAAATGATG
* * * * * * *
915665 TGCCTTAGAGCTGAGCGTAGTTGAACTCGAAGGTTTTTTGG-TGACAAATAACCCTTCTAGCCTT
1 TGCCTTGGAGCTGAGCGTAATCGAACTCGAAGG-TCTTTGGTTGACAGATAACCCTTCTCGACTT
* * *
915729 GAGTTATGTTGTAAATGATG
65 AAGTTATGCTGCAAATGATG
* * * * * * *
915749 TGTCCTCGAAGTTAAGTGTAATCAAACTCGAGGGTCTTT-G--G-CAGATAACCCTTCTCGACTT
1 TG-CCTTGGAGCTGAGCGTAATCGAACTCGAAGGTCTTTGGTTGACAGATAACCCTTCTCGACTT
* *
915810 AAGCTAAGCTGCAAATGATG
65 AAGTTATGCTGCAAATGATG
*
915830 TGCCTTGGAGCTGAGCGTAATCGAACTCGAAGGTCTTTGGTTGGA-AGATAACTCTTCTCGACTT
1 TGCCTTGGAGCTGAGCGTAATCGAACTCGAAGGTCTTTGGTT-GACAGATAACCCTTCTCGACTT
*
915894 AAGTTATGCTGCAAATGATA
65 AAGTTATGCTGCAAATGATG
* * * * * * * *
915914 TGCCTTGGAGTTGAGCATAGTCGAACTCAAAGATCTTTTGG-TGACAGATAACCCTTATAGCCTT
1 TGCCTTGGAGCTGAGCGTAATCGAACTCGAAGGTC-TTTGGTTGACAGATAACCCTTCTCGACTT
* *
915978 GAGTTATGCTGTAAATGATG
65 AAGTTATGCTGCAAATGATG
* * * * * *
915998 TGCCCTCGATGCTGAGTGTAATCGAACTCGAGGGCCTTT-G--G-CAGATAACCCTTTTCGACTT
1 TGCCTTGGA-GCTGAGCGTAATCGAACTCGAAGGTCTTTGGTTGACAGATAACCCTTCTCGACTT
*
916059 AAGCTATGCTGCAAATGATG
65 AAGTTATGCTGCAAATGATG
* * * * * * *
916079 TGTCTTGGAGCTGAGCGTAGTCGAACTCGAACGTCTTTGGTTGGCAAATAACCCTTCTCAACCTA
1 TGCCTTGGAGCTGAGCGTAATCGAACTCGAAGGTCTTTGGTTGACAGATAACCCTTCTCGACTTA
* *
916144 AGTTATGTTGCAAATGATA
66 AGTTATGCTGCAAATGATG
* * * *
916163 TGCCTTGGAGCTGGGCGTAGTCGAACTCAAAGGCCTTT
1 TGCCTTGGAGCTGAGCGTAATCGAACTCGAAGGTCTTT
916201 AGTGGGTACG
Statistics
Matches: 631, Mismatches: 132, Indels: 44
0.78 0.16 0.05
Matches are distributed among these distances:
80 81 0.13
81 111 0.18
82 3 0.00
83 7 0.01
84 349 0.55
85 80 0.13
ACGTcount: A:0.26, C:0.19, G:0.24, T:0.31
Consensus pattern (84 bp):
TGCCTTGGAGCTGAGCGTAATCGAACTCGAAGGTCTTTGGTTGACAGATAACCCTTCTCGACTTA
AGTTATGCTGCAAATGATG
Found at i:915567 original size:165 final size:164
Alignment explanation
Indices: 915340--916190 Score: 761
Period size: 165 Copynumber: 5.1 Consensus size: 164
915330 TTTGCCTTTG
* * *
915340 AGCTGAGTGTAATCGAACTCGAAGGTCTTCGGTTGACAGATAACCCTTCTCGACTTAAGCTATGA
1 AGCTGAGTGTAATCGAACTCGAGGGTC-T---TTGGCAGATAACCCTTCTCGACTTAAGCTATGC
* * *
915405 TGCAAATGATGAGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTTTTTTGGTGATAGATAACCC
62 TGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTTCTTTGGTGACAGATAACCC
* *
915470 TTCTAGCCTTGAA-TTATACTGTAAATGATGTGCCATCGA
127 TTCTAGACTT-AAGTTATACTGCAAATGATGTGCC-TCGA
* * *
915509 AGTTGAGTGTAATCGAACTCGAGGGTCTTTGGCAGATAGCCCTTCTTGACTTAAGCTATGCTGCA
1 AGCTGAGTGTAATCGAACTCGAGGGTCTTTGGCAGATAACCCTTCTCGACTTAAGCTATGCTGCA
* * * *
915574 AATGATGTGCCTTGGAGCTGAGCATATTCAAACTCGAAGG-TCTTTGGTTGGCAGATAACCCTTC
66 AATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTTCTTTGG-TGACAGATAACCCTTC
* * * *
915638 TCGACTTAAGTTATGCTGCAAATGATATGCCT-TA
130 TAGACTTAAGTTATACTGCAAATGATGTGCCTCGA
* * * * * * * * * *
915672 GAGCTGAGCGTAGTTGAACTCGAAGGTTTTTTGGTGACAAATAACCCTTCTAGCCTTGAGTTATG
1 -AGCTGAGTGTAATCGAACTCG-AGGGTCTTT-G-G-CAGATAACCCTTCTCGACTTAAGCTATG
* * * * * * * * * *
915737 TTGTAAATGATGTGTCCTCGAAGTTAAGTGTAATCAAACTCG-AGGGTCTTT-G-G-CAGATAAC
61 CTGCAAATGATGTG-CCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTTCTTTGGTGACAGATAAC
* * * *
915798 CCTTCTCGACTTAAGCTA-AGCTGCAAATGATGTGCCTTGG
125 CCTTCTAGACTTAAGTTATA-CTGCAAATGATGTGCCTCGA
* * * * *
915838 AGCTGAGCGTAATCGAACTCGAAGGTCTTTGGTTGGAAGATAACTCTTCTCGACTTAAGTTATGC
1 AGCTGAGTGTAATCGAACTCGAGGGTC--T--TTGGCAGATAACCCTTCTCGACTTAAGCTATGC
* * * * *
915903 TGCAAATGATATGCCTTGGAGTTGAGCATAGTCGAACTC-AAAGATCTTTTGGTGACAGATAACC
62 TGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTTC-TTTGGTGACAGATAACC
* * * * *
915967 CTTATAGCCTTGAGTTATGCTGTAAATGATGTGCCCTCGA
126 CTTCTAGACTTAAGTTATACTGCAAATGATGTG-CCTCGA
* * *
916007 TGCTGAGTGTAATCGAACTCGAGGGCCTTTGGCAGATAACCCTTTTCGACTTAAGCTATGCTGCA
1 AGCTGAGTGTAATCGAACTCGAGGGTCTTTGGCAGATAACCCTTCTCGACTTAAGCTATGCTGCA
* * * *
916072 AATGATGTGTCTTGGAGCTGAGCGTAGTCGAACTCGAACG-TCTTTGGTTGGCAAATAACCCTTC
66 AATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTTCTTTGG-TGACAGATAACCCTTC
* ** * * *
916136 TCA-ACCTAAGTTATGTTGCAAATGATATGCCTTGG
130 T-AGACTTAAGTTATACTGCAAATGATGTGCCTCGA
* * *
916171 AGCTGGGCGTAGTCGAACTC
1 AGCTGAGTGTAATCGAACTC
916191 AAAGGCCTTT
Statistics
Matches: 552, Mismatches: 105, Indels: 55
0.78 0.15 0.08
Matches are distributed among these distances:
163 1 0.00
164 77 0.14
165 309 0.56
166 9 0.02
167 4 0.01
168 75 0.14
169 77 0.14
ACGTcount: A:0.26, C:0.19, G:0.24, T:0.30
Consensus pattern (164 bp):
AGCTGAGTGTAATCGAACTCGAGGGTCTTTGGCAGATAACCCTTCTCGACTTAAGCTATGCTGCA
AATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTTCTTTGGTGACAGATAACCCTTCT
AGACTTAAGTTATACTGCAAATGATGTGCCTCGA
Found at i:915631 original size:249 final size:248
Alignment explanation
Indices: 915290--916195 Score: 1303
Period size: 249 Copynumber: 3.6 Consensus size: 248
915280 AATTTATTGA
* * * ** * * * *
915290 CAGATAGCCCTTCTTGGCTTGAGCTATGCTATAAATTTGGTTTGCCTTTGAGCTGAGTGTAATCG
1 CAGATAACCCTTCTTGACTTAAGCTATGCTGCAAA--TGATGTGCCTTGGAGCTGAGCGTAATCG
* * * *
915355 AACTCGAAGGTCTTCGGTTGACAGATAACCCTTCTCGACTTAAGCTATGATGCAAATGATGA-GC
64 AACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGAT-ATGC
* * *
915419 CTTGGAGCTGAGCGTAGTCGAACTCGAAGGTTTTTTGGTGATAGATAACCCTTCTAGCCTTGAAT
128 CTTGGAGCTGAGCGTAGTCGAACTCAAAGGTTTTTTGGTGACAGATAACCCTTCTAGCCTTGAGT
*
915484 TATACTGTAAATGATGTGCCATCGAAGTTGAGTGTAATCGAACTCGAGGGTCTTTGG
193 TATGCTGTAAATGATGTGCC-TCGAAGTTGAGTGTAATCGAACTCGAGGGTCTTTGG
* * * *
915541 CAGATAGCCCTTCTTGACTTAAGCTATGCTGCAAATGATGTGCCTTGGAGCTGAGCATATTCAAA
1 CAGATAACCCTTCTTGACTTAAGCTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAATCGAA
915606 CTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATATGCCTT
66 CTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATATGCCTT
* * * *
915671 AGAGCTGAGCGTAGTTGAACTCGAAGGTTTTTTGGTGACAAATAACCCTTCTAGCCTTGAGTTAT
131 GGAGCTGAGCGTAGTCGAACTCAAAGGTTTTTTGGTGACAGATAACCCTTCTAGCCTTGAGTTAT
* * *
915736 GTTGTAAATGATGTGTCCTCGAAGTTAAGTGTAATCAAACTCGAGGGTCTTTGG
196 GCTGTAAATGATGTG-CCTCGAAGTTGAGTGTAATCGAACTCGAGGGTCTTTGG
* *
915790 CAGATAACCCTTCTCGACTTAAGCTAAGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAATCGAA
1 CAGATAACCCTTCTTGACTTAAGCTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAATCGAA
* *
915855 CTCGAAGGTCTTTGGTTGGAAGATAACTCTTCTCGACTTAAGTTATGCTGCAAATGATATGCCTT
66 CTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATATGCCTT
* * * * *
915920 GGAGTTGAGCATAGTCGAACTCAAAGATCTTTTGGTGACAGATAACCCTTATAGCCTTGAGTTAT
131 GGAGCTGAGCGTAGTCGAACTCAAAGGTTTTTTGGTGACAGATAACCCTTCTAGCCTTGAGTTAT
* * *
915985 GCTGTAAATGATGTGCCCTCGATGCTGAGTGTAATCGAACTCGAGGGCCTTTGG
196 GCTGTAAATGATGTG-CCTCGAAGTTGAGTGTAATCGAACTCGAGGGTCTTTGG
* *
916039 CAGATAACCCTT-TTCGACTTAAGCTATGCTGCAAATGATGTGTCTTGGAGCTGAGCGTAGTCGA
1 CAGATAACCCTTCTT-GACTTAAGCTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAATCGA
* * * * *
916103 ACTCGAACGTCTTTGGTTGGCAAATAACCCTTCTCAACCTAAGTTATGTTGCAAATGATATGCCT
65 ACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATATGCCT
*
916168 TGGAGCTGGGCGTAGTCGAACTCAAAGG
130 TGGAGCTGAGCGTAGTCGAACTCAAAGG
916196 CCTTTAGTGG
Statistics
Matches: 589, Mismatches: 63, Indels: 8
0.89 0.10 0.01
Matches are distributed among these distances:
248 2 0.00
249 554 0.94
250 2 0.00
251 31 0.05
ACGTcount: A:0.26, C:0.19, G:0.24, T:0.31
Consensus pattern (248 bp):
CAGATAACCCTTCTTGACTTAAGCTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAATCGAA
CTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATATGCCTT
GGAGCTGAGCGTAGTCGAACTCAAAGGTTTTTTGGTGACAGATAACCCTTCTAGCCTTGAGTTAT
GCTGTAAATGATGTGCCTCGAAGTTGAGTGTAATCGAACTCGAGGGTCTTTGG
Found at i:916520 original size:110 final size:110
Alignment explanation
Indices: 916310--916745 Score: 574
Period size: 110 Copynumber: 4.0 Consensus size: 110
916300 ATCCAAATAT
* * * * * *
916310 TTGTGTTATTTCGAGGCCAATTTCATTCGCCGTGAAGTTGAAATTGACTC----TGAAACTGGAA
1 TTGTGTTGTCTCGAGTCCAATATCATTCGCTGTGAAGTTGAAATTGACTCTGAATGAAACTGAAA
** * * *
916371 AGTTGTTTGTTGACAACCAGCCGCCCCTTCGCAGTGAAGTTGAGC
66 AGTTGTTTGTTGACAGTCAGTCACCCCTTCGCTGTGAAGTTGAGC
* * * * *
916416 TTGAGTTGCCTCAAGTCCAATATCTTTCGCTGTGAAGTTGAAATTGACTCTGAATGAAACTAAAA
1 TTGTGTTGTCTCGAGTCCAATATCATTCGCTGTGAAGTTGAAATTGACTCTGAATGAAACTGAAA
* *
916481 AGTTGTTTGTTGATAGTCAGTTACCCCTTCGCTGTGAAGTTGAGC
66 AGTTGTTTGTTGACAGTCAGTCACCCCTTCGCTGTGAAGTTGAGC
*
916526 TTGTGTTGTCTCGAGTCCAATATCATTCGCTGTGAAGTTGAAATTGACTCTGAATAAAACTGAAA
1 TTGTGTTGTCTCGAGTCCAATATCATTCGCTGTGAAGTTGAAATTGACTCTGAATGAAACTGAAA
* * * * *
916591 AGTTGTTTGTTGACAGTCATTCGCCCATTCGATGTGAAGTTGAGT
66 AGTTGTTTGTTGACAGTCAGTCACCCCTTCGCTGTGAAGTTGAGC
* * * *
916636 TTGTGTTGTCTCGAGTTCAATATCCTTCGCTATGAAGTTGAAATTGACTCTGAATGAAAATGAAA
1 TTGTGTTGTCTCGAGTCCAATATCATTCGCTGTGAAGTTGAAATTGACTCTGAATGAAACTGAAA
**
916701 AGTTGTTTGTTGACAGTCAGTCACCCCTTTACTGTGAAGTTGAGC
66 AGTTGTTTGTTGACAGTCAGTCACCCCTTCGCTGTGAAGTTGAGC
916746 AACCACCATC
Statistics
Matches: 283, Mismatches: 43, Indels: 4
0.86 0.13 0.01
Matches are distributed among these distances:
106 41 0.14
110 242 0.86
ACGTcount: A:0.26, C:0.17, G:0.23, T:0.34
Consensus pattern (110 bp):
TTGTGTTGTCTCGAGTCCAATATCATTCGCTGTGAAGTTGAAATTGACTCTGAATGAAACTGAAA
AGTTGTTTGTTGACAGTCAGTCACCCCTTCGCTGTGAAGTTGAGC
Found at i:920494 original size:4 final size:4
Alignment explanation
Indices: 920485--920592 Score: 53
Period size: 4 Copynumber: 25.8 Consensus size: 4
920475 TAGAAAAAAG
** *
920485 AATA AATA AATA AATA TTTA AATA AATCA AATGA AAAA ACATAA GAATGAA
1 AATA AATA AATA AATA AATA AATA AAT-A AAT-A AATA A-AT-A -AAT--A
* * *
920536 AATA AAT- AAT- AAT- AATA AATCAA AAGA AAGA AA-G AATA AATA AATA
1 AATA AATA AATA AATA AATA AAT--A AATA AATA AATA AATA AATA AATA
920582 AATA AATA AAT
1 AATA AATA AAT
920593 CAAAAGGGAA
Statistics
Matches: 85, Mismatches: 10, Indels: 18
0.75 0.09 0.16
Matches are distributed among these distances:
3 11 0.13
4 54 0.64
5 8 0.09
6 9 0.11
7 3 0.04
ACGTcount: A:0.69, C:0.03, G:0.06, T:0.22
Consensus pattern (4 bp):
AATA
Found at i:920596 original size:37 final size:37
Alignment explanation
Indices: 920534--920638 Score: 114
Period size: 37 Copynumber: 2.9 Consensus size: 37
920524 CATAAGAATG
920534 AAAATAAAT-AAT-AAT-AATAAATCAAAAGAAAGA-
1 AAAATAAATAAATAAATAAATAAATCAAAAGAAAGAT
* *
920567 AAGAATAAATAAATAAATAAATAAATCAAAAGGGAATAT
1 AA-AATAAATAAATAAATAAATAAATCAAAA-GAAAGAT
*
920606 AAAAT-AAT-AATATATTAAATAAATCAAAAGAAA
1 AAAATAAATAAATA-AATAAATAAATCAAAAGAAA
920639 AAATGTAAAA
Statistics
Matches: 61, Mismatches: 4, Indels: 11
0.80 0.05 0.14
Matches are distributed among these distances:
33 2 0.03
34 7 0.11
35 3 0.05
36 10 0.16
37 30 0.49
38 7 0.11
39 2 0.03
ACGTcount: A:0.70, C:0.03, G:0.07, T:0.21
Consensus pattern (37 bp):
AAAATAAATAAATAAATAAATAAATCAAAAGAAAGAT
Found at i:920652 original size:27 final size:27
Alignment explanation
Indices: 920622--920676 Score: 67
Period size: 27 Copynumber: 2.0 Consensus size: 27
920612 ATAATATATT
*
920622 AAATAAATCAAAA-GAAAAAATGTAAAA
1 AAATAAATAAAAATGAAAAAAT-TAAAA
* *
920649 AAATAATTAAAAATTAAAAAATTAAAA
1 AAATAAATAAAAATGAAAAAATTAAAA
920676 A
1 A
920677 TGATAAAATA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
27 17 0.71
28 7 0.29
ACGTcount: A:0.75, C:0.02, G:0.04, T:0.20
Consensus pattern (27 bp):
AAATAAATAAAAATGAAAAAATTAAAA
Found at i:920673 original size:15 final size:16
Alignment explanation
Indices: 920648--920687 Score: 55
Period size: 15 Copynumber: 2.4 Consensus size: 16
920638 AAAATGTAAA
920648 AAAATAATTAAAAATT
1 AAAATAATTAAAAATT
920664 AAAA-AATTAAAAATGAT
1 AAAATAATTAAAAAT--T
920681 AAAATAA
1 AAAATAA
920688 ATCAAAAGGG
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
15 10 0.48
16 4 0.19
17 5 0.24
18 2 0.10
ACGTcount: A:0.72, C:0.00, G:0.03, T:0.25
Consensus pattern (16 bp):
AAAATAATTAAAAATT
Found at i:920725 original size:21 final size:20
Alignment explanation
Indices: 920701--920779 Score: 63
Period size: 21 Copynumber: 3.8 Consensus size: 20
920691 AAAAGGGAAA
920701 AAAGATAAAGAATAAATAAAC
1 AAAGATAAA-AATAAATAAAC
* *
920722 AAAGA-AAAACAAAGAAAAAATC
1 AAAGATAAAA-ATA-AATAAA-C
*
920744 AAAGA-AAAAATAAATAAAA
1 AAAGATAAAAATAAATAAAC
*
920763 AAACATAATAAATAAAT
1 AAAGATAA-AAATAAAT
920780 CAAAGAGGAA
Statistics
Matches: 47, Mismatches: 6, Indels: 10
0.75 0.10 0.16
Matches are distributed among these distances:
19 5 0.11
20 12 0.26
21 20 0.43
22 10 0.21
ACGTcount: A:0.76, C:0.05, G:0.06, T:0.13
Consensus pattern (20 bp):
AAAGATAAAAATAAATAAAC
Found at i:920746 original size:12 final size:12
Alignment explanation
Indices: 920721--920785 Score: 64
Period size: 11 Copynumber: 5.5 Consensus size: 12
920711 AATAAATAAA
920721 CAAAG-AAAAA-
1 CAAAGAAAAAAT
920731 CAAAGAAAAAAT
1 CAAAGAAAAAAT
920743 CAAAGAAAAAAT
1 CAAAGAAAAAAT
* *
920755 -AAATAAAAAAA
1 CAAAGAAAAAAT
*
920766 CATAATAAATAAAT
1 CA-AAGAAA-AAAT
920780 CAAAGA
1 CAAAGA
920786 GGAAAAAAAT
Statistics
Matches: 46, Mismatches: 4, Indels: 7
0.81 0.07 0.12
Matches are distributed among these distances:
10 5 0.11
11 14 0.30
12 13 0.28
13 9 0.20
14 5 0.11
ACGTcount: A:0.75, C:0.08, G:0.06, T:0.11
Consensus pattern (12 bp):
CAAAGAAAAAAT
Found at i:920762 original size:22 final size:22
Alignment explanation
Indices: 920711--920764 Score: 58
Period size: 22 Copynumber: 2.4 Consensus size: 22
920701 AAAGATAAAG
920711 AATAAATAAACAAAGAAAAACAA
1 AATAAA-AAACAAAGAAAAACAA
*
920734 AGA-AAAAATCAAAGAAAAA-ATA
1 A-ATAAAAAACAAAGAAAAACA-A
920756 AATAAAAAA
1 AATAAAAAA
920765 ACATAATAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 7
0.74 0.06 0.20
Matches are distributed among these distances:
21 2 0.08
22 19 0.73
23 4 0.15
24 1 0.04
ACGTcount: A:0.80, C:0.06, G:0.06, T:0.09
Consensus pattern (22 bp):
AATAAAAAACAAAGAAAAACAA
Found at i:923006 original size:18 final size:19
Alignment explanation
Indices: 922985--923031 Score: 69
Period size: 19 Copynumber: 2.5 Consensus size: 19
922975 ACCTTGTATC
922985 AATAATTAA-AATGAAACA
1 AATAATTAATAATGAAACA
*
923003 AATAAATAATAATGAAACA
1 AATAATTAATAATGAAACA
*
923022 AAAAATTAAT
1 AATAATTAAT
923032 CAAAATTTGT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
18 8 0.32
19 17 0.68
ACGTcount: A:0.68, C:0.04, G:0.04, T:0.23
Consensus pattern (19 bp):
AATAATTAATAATGAAACA
Found at i:923010 original size:22 final size:21
Alignment explanation
Indices: 922985--923037 Score: 58
Period size: 19 Copynumber: 2.6 Consensus size: 21
922975 ACCTTGTATC
922985 AATAATTAAAATGAAACAAATA
1 AATAATTAAAATGAAACAAA-A
923007 AATAA-T--AATGAAACAAAA
1 AATAATTAAAATGAAACAAAA
*
923025 AATTAATCAAAAT
1 AA-TAATTAAAAT
923038 TTGTTTGATA
Statistics
Matches: 26, Mismatches: 1, Indels: 8
0.74 0.03 0.23
Matches are distributed among these distances:
18 3 0.12
19 14 0.54
21 1 0.04
22 8 0.31
ACGTcount: A:0.68, C:0.06, G:0.04, T:0.23
Consensus pattern (21 bp):
AATAATTAAAATGAAACAAAA
Found at i:923018 original size:19 final size:18
Alignment explanation
Indices: 922985--923027 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
922975 ACCTTGTATC
*
922985 AATAATTAAAATGAAACA
1 AATAAATAAAATGAAACA
923003 AATAAATAATAATGAAACA
1 AATAAATAA-AATGAAACA
923022 AA-AAAT
1 AATAAAT
923028 TAATCAAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 12 0.52
19 11 0.48
ACGTcount: A:0.70, C:0.05, G:0.05, T:0.21
Consensus pattern (18 bp):
AATAAATAAAATGAAACA
Found at i:932037 original size:3 final size:3
Alignment explanation
Indices: 932029--932107 Score: 158
Period size: 3 Copynumber: 26.3 Consensus size: 3
932019 TATACACCCT
932029 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
932077 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA G
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA G
932108 GGTAAGCCAG
Statistics
Matches: 76, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 76 1.00
ACGTcount: A:0.66, C:0.00, G:0.34, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:933462 original size:30 final size:30
Alignment explanation
Indices: 933428--933490 Score: 90
Period size: 30 Copynumber: 2.1 Consensus size: 30
933418 GTTATATGAG
* *
933428 CTATGAGATAAAGGTATGTAAATGATATGT
1 CTATGAGATAAAGGTATGGAAATAATATGT
**
933458 CTATGTTATAAAGGTATGGAAATAATATGT
1 CTATGAGATAAAGGTATGGAAATAATATGT
933488 CTA
1 CTA
933491 CGCAATATGA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.40, C:0.05, G:0.21, T:0.35
Consensus pattern (30 bp):
CTATGAGATAAAGGTATGGAAATAATATGT
Done.