Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr6
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: 47432654
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2298022 characters in sequence are not A, C, G, or T
File 84 of 136
Found at i:27552106 original size:25 final size:25
Alignment explanation
Indices: 27552078--27552134 Score: 78
Period size: 25 Copynumber: 2.3 Consensus size: 25
27552068 ATCCCCAACA
* *
27552078 AAATTTTGACTATTTTACCCCTGGT
1 AAATTTTGACAATTTTACCCCTAGT
* *
27552103 AAATTTTGACAATTTTGCCCCTATT
1 AAATTTTGACAATTTTACCCCTAGT
27552128 AAATTTT
1 AAATTTT
27552135 CGAGAAACTA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.28, C:0.18, G:0.09, T:0.46
Consensus pattern (25 bp):
AAATTTTGACAATTTTACCCCTAGT
Found at i:27555356 original size:23 final size:23
Alignment explanation
Indices: 27555304--27555356 Score: 56
Period size: 23 Copynumber: 2.3 Consensus size: 23
27555294 TAGTTTTGAT
27555304 ATTATTACAAATTTAATCCATAC
1 ATTATTACAAATTTAATCCATAC
* *
27555327 ATGATTA-AACATTTAA-GCATAC
1 ATTATTACAA-ATTTAATCCATAC
27555349 AATTATTA
1 -ATTATTA
27555357 TGTTGATTAA
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
22 7 0.28
23 18 0.72
ACGTcount: A:0.45, C:0.13, G:0.04, T:0.38
Consensus pattern (23 bp):
ATTATTACAAATTTAATCCATAC
Found at i:27579034 original size:15 final size:15
Alignment explanation
Indices: 27579014--27579043 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
27579004 CACAGTTTCA
27579014 CTATAGCTTTATAAT
1 CTATAGCTTTATAAT
*
27579029 CTATAGTTTTATAAT
1 CTATAGCTTTATAAT
27579044 ATAAAGTTTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.33, C:0.10, G:0.07, T:0.50
Consensus pattern (15 bp):
CTATAGCTTTATAAT
Found at i:27579075 original size:15 final size:15
Alignment explanation
Indices: 27579057--27579091 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
27579047 AAGTTTTGCT
*
27579057 GTCTATTGTTTCACA
1 GTCTATAGTTTCACA
27579072 GTCTATAGTTTCACA
1 GTCTATAGTTTCACA
*
27579087 ATCTA
1 GTCTA
27579092 GATTTTAGTA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.26, C:0.20, G:0.11, T:0.43
Consensus pattern (15 bp):
GTCTATAGTTTCACA
Found at i:27580510 original size:42 final size:42
Alignment explanation
Indices: 27580464--27580553 Score: 121
Period size: 42 Copynumber: 2.1 Consensus size: 42
27580454 CTAAGATCAA
* *
27580464 CATAGTC-AGCATGCTTAACATGCT-AATCAAATCTCAATTTAT
1 CATAGTCGA-CATGCTTAACATG-TAAATCAAATATCAATTAAT
27580506 CATAGTCGACATGCTTAACATGTAAATCAAATATCAATTAAT
1 CATAGTCGACATGCTTAACATGTAAATCAAATATCAATTAAT
*
27580548 AATAGT
1 CATAGT
27580554 GGCATGATTA
Statistics
Matches: 43, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
41 1 0.02
42 41 0.95
43 1 0.02
ACGTcount: A:0.40, C:0.18, G:0.10, T:0.32
Consensus pattern (42 bp):
CATAGTCGACATGCTTAACATGTAAATCAAATATCAATTAAT
Found at i:27582948 original size:46 final size:46
Alignment explanation
Indices: 27582894--27582987 Score: 170
Period size: 46 Copynumber: 2.0 Consensus size: 46
27582884 ATAGTGTGGC
*
27582894 GTTCATCATATACCAAGGTTCCTATCGTCCTTGATAGTGGGTCGAG
1 GTTCATCATATACCAAGGTTCCTATCATCCTTGATAGTGGGTCGAG
*
27582940 GTTCATCATATACCAAGGTTCCTATCATTCTTGATAGTGGGTCGAG
1 GTTCATCATATACCAAGGTTCCTATCATCCTTGATAGTGGGTCGAG
27582986 GT
1 GT
27582988 ATTTTCTTTG
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
46 46 1.00
ACGTcount: A:0.22, C:0.20, G:0.23, T:0.34
Consensus pattern (46 bp):
GTTCATCATATACCAAGGTTCCTATCATCCTTGATAGTGGGTCGAG
Found at i:27583416 original size:62 final size:64
Alignment explanation
Indices: 27583321--27583464 Score: 222
Period size: 62 Copynumber: 2.2 Consensus size: 64
27583311 AAAAAAATGT
* *
27583321 AAAAAAAGAATTTAGTTTCCATTCAAAATTCAAGAGTGGATATCAAGTTGT-AAAAAAAATTTTG
1 AAAAAAA-AAGTTAG-TTCCATTCAAAATTCAAGAGTGGATATCAAGTTGTAAAAAAAAATTCT-
27583385 TG
63 TG
27583387 AAAAAAAAA-TTAGTTCCATTC-AAATTCAAGAGTGGATATCAAGTTGTAAAAAAAAATTCTTG
1 AAAAAAAAAGTTAGTTCCATTCAAAATTCAAGAGTGGATATCAAGTTGTAAAAAAAAATTCTTG
27583449 AAAAAAAAAGTTAGTT
1 AAAAAAAAAGTTAGTT
27583465 TTGAACATAC
Statistics
Matches: 75, Mismatches: 1, Indels: 7
0.90 0.01 0.08
Matches are distributed among these distances:
62 37 0.49
63 25 0.33
64 4 0.05
65 2 0.03
66 7 0.09
ACGTcount: A:0.49, C:0.08, G:0.14, T:0.30
Consensus pattern (64 bp):
AAAAAAAAAGTTAGTTCCATTCAAAATTCAAGAGTGGATATCAAGTTGTAAAAAAAAATTCTTG
Found at i:27584427 original size:19 final size:19
Alignment explanation
Indices: 27584382--27584435 Score: 63
Period size: 19 Copynumber: 2.8 Consensus size: 19
27584372 CCAAAATGAA
**
27584382 ATTGAGAAAAGAAAAAAATG
1 ATTGA-AAAAGAAAAAAAAC
**
27584402 AGAGAAAAAGAAAAAAAAC
1 ATTGAAAAAGAAAAAAAAC
27584421 ATTGAAAAAGAAAAA
1 ATTGAAAAAGAAAAA
27584436 GAGAGTGAGA
Statistics
Matches: 28, Mismatches: 6, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
19 25 0.89
20 3 0.11
ACGTcount: A:0.72, C:0.02, G:0.17, T:0.09
Consensus pattern (19 bp):
ATTGAAAAAGAAAAAAAAC
Found at i:27586664 original size:46 final size:46
Alignment explanation
Indices: 27586613--27586704 Score: 166
Period size: 46 Copynumber: 2.0 Consensus size: 46
27586603 AGTGTGGCGC
27586613 TCATCATATACCAAGGTTCCTATCACCCTTGATAGTGGGTCGAGGT
1 TCATCATATACCAAGGTTCCTATCACCCTTGATAGTGGGTCGAGGT
**
27586659 TCATCATATACCAAGGTTCCTATCATTCTTGATAGTGGGTCGAGGT
1 TCATCATATACCAAGGTTCCTATCACCCTTGATAGTGGGTCGAGGT
27586705 CTTTTATTTG
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
46 44 1.00
ACGTcount: A:0.24, C:0.22, G:0.22, T:0.33
Consensus pattern (46 bp):
TCATCATATACCAAGGTTCCTATCACCCTTGATAGTGGGTCGAGGT
Found at i:27588971 original size:10 final size:10
Alignment explanation
Indices: 27588952--27589012 Score: 70
Period size: 11 Copynumber: 5.7 Consensus size: 10
27588942 GTAGGTTCGG
27588952 AAAAAGAATTC
1 AAAAA-AATTC
27588963 AAAAAAATTC
1 AAAAAAATTC
27588973 AAACAAAAAATTC
1 --A-AAAAAATTC
27588986 GAAAAAAATTC
1 -AAAAAAATTC
27588997 -AAAAAATTC
1 AAAAAAATTC
27589006 AAAAAAA
1 AAAAAAA
27589013 AAGATATATT
Statistics
Matches: 45, Mismatches: 1, Indels: 9
0.82 0.02 0.16
Matches are distributed among these distances:
9 9 0.20
10 11 0.24
11 14 0.31
12 2 0.04
13 9 0.20
ACGTcount: A:0.70, C:0.10, G:0.03, T:0.16
Consensus pattern (10 bp):
AAAAAAATTC
Found at i:27588980 original size:13 final size:12
Alignment explanation
Indices: 27588963--27589014 Score: 58
Period size: 9 Copynumber: 4.6 Consensus size: 12
27588953 AAAAGAATTC
27588963 AAAAAAATTCAA
1 AAAAAAATTCAA
*
27588975 ACAAAAAATTC-G
1 A-AAAAAATTCAA
27588987 AAAAAAATTC--
1 AAAAAAATTCAA
27588997 -AAAAAATTCAA
1 AAAAAAATTCAA
27589008 AAAAAAA
1 AAAAAAA
27589015 GATATATTTT
Statistics
Matches: 35, Mismatches: 1, Indels: 8
0.80 0.02 0.18
Matches are distributed among these distances:
9 9 0.26
11 9 0.26
12 8 0.23
13 9 0.26
ACGTcount: A:0.73, C:0.10, G:0.02, T:0.15
Consensus pattern (12 bp):
AAAAAAATTCAA
Found at i:27588990 original size:24 final size:24
Alignment explanation
Indices: 27588953--27588999 Score: 78
Period size: 24 Copynumber: 2.0 Consensus size: 24
27588943 TAGGTTCGGA
27588953 AAAAGAATTCAAAAAAATTCAAAC
1 AAAAGAATTCAAAAAAATTCAAAC
27588977 AAAA-AATTCGAAAAAAATTCAAA
1 AAAAGAATTC-AAAAAAATTCAAA
27589000 AAATTCAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
23 5 0.23
24 17 0.77
ACGTcount: A:0.68, C:0.11, G:0.04, T:0.17
Consensus pattern (24 bp):
AAAAGAATTCAAAAAAATTCAAAC
Found at i:27588997 original size:34 final size:33
Alignment explanation
Indices: 27588951--27589014 Score: 103
Period size: 33 Copynumber: 1.9 Consensus size: 33
27588941 AGTAGGTTCG
27588951 GAAAAAGAATTCAAAAAAATTCAAACAAAAAATTC
1 GAAAAAGAATTC-AAAAAATTCAAA-AAAAAATTC
27588986 GAAAAA-AATTCAAAAAATTCAAAAAAAAA
1 GAAAAAGAATTCAAAAAATTCAAAAAAAAA
27589015 GATATATTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
32 6 0.21
33 12 0.41
34 5 0.17
35 6 0.21
ACGTcount: A:0.70, C:0.09, G:0.05, T:0.16
Consensus pattern (33 bp):
GAAAAAGAATTCAAAAAATTCAAAAAAAAATTC
Found at i:27589001 original size:20 final size:19
Alignment explanation
Indices: 27588953--27589012 Score: 66
Period size: 24 Copynumber: 2.8 Consensus size: 19
27588943 TAGGTTCGGA
27588953 AAAAGAATTCAAAAAAATTCAAAC
1 AAAA-AATTCAAAAAAATT----C
27588977 AAAAAATTCGAAAAAAATTC
1 AAAAAATTC-AAAAAAATTC
27588997 AAAAAATTCAAAAAAA
1 AAAAAATTCAAAAAAA
27589013 AAGATATATT
Statistics
Matches: 35, Mismatches: 0, Indels: 7
0.83 0.00 0.17
Matches are distributed among these distances:
19 7 0.20
20 10 0.29
23 5 0.14
24 13 0.37
ACGTcount: A:0.70, C:0.10, G:0.03, T:0.17
Consensus pattern (19 bp):
AAAAAATTCAAAAAAATTC
Found at i:27589013 original size:20 final size:20
Alignment explanation
Indices: 27588976--27589013 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
27588966 AAAATTCAAA
*
27588976 CAAAAAATTCGAAAAAAATT
1 CAAAAAATTCAAAAAAAATT
27588996 CAAAAAATTCAAAAAAAA
1 CAAAAAATTCAAAAAAAA
27589014 AGATATATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.71, C:0.11, G:0.03, T:0.16
Consensus pattern (20 bp):
CAAAAAATTCAAAAAAAATT
Found at i:27589975 original size:15 final size:15
Alignment explanation
Indices: 27589955--27589983 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
27589945 ATGTTGTAAT
27589955 GAAAAAGAAAAAGAG
1 GAAAAAGAAAAAGAG
27589970 GAAAAAGAAAAAGA
1 GAAAAAGAAAAAGA
27589984 AGTTGAAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (15 bp):
GAAAAAGAAAAAGAG
Found at i:27589993 original size:18 final size:18
Alignment explanation
Indices: 27589954--27590014 Score: 65
Period size: 18 Copynumber: 3.6 Consensus size: 18
27589944 CATGTTGTAA
27589954 TGAAAAAGAAAAAG-AG-
1 TGAAAAAGAAAAAGAAGT
27589970 -GAAAAAGAAAAAGAAGT
1 TGAAAAAGAAAAAGAAGT
* * *
27589987 TGAAAAAGAGACAGAATT
1 TGAAAAAGAAAAAGAAGT
*
27590005 TGAGAAAGAA
1 TGAAAAAGAA
27590015 CATAAGAGTG
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
15 13 0.35
16 2 0.05
18 22 0.59
ACGTcount: A:0.64, C:0.02, G:0.25, T:0.10
Consensus pattern (18 bp):
TGAAAAAGAAAAAGAAGT
Found at i:27590125 original size:34 final size:32
Alignment explanation
Indices: 27590062--27590134 Score: 85
Period size: 34 Copynumber: 2.2 Consensus size: 32
27590052 AATGAAAGTG
*
27590062 TGAGGAAAAAGAGAAAATTGAAAAGGAAAAAAA
1 TGAGGAAAAAGAGAAAAGTGAAAAGG-AAAAAA
**
27590095 TGAGAGAAAAAGAGGCAAGTGAATAA-GAAAAAA
1 TGAG-GAAAAAGAGAAAAGTGAA-AAGGAAAAAA
27590128 TGAGGAA
1 TGAGGAA
27590135 TCTGTTTACT
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
32 3 0.09
33 14 0.40
34 16 0.46
35 2 0.06
ACGTcount: A:0.62, C:0.01, G:0.27, T:0.10
Consensus pattern (32 bp):
TGAGGAAAAAGAGAAAAGTGAAAAGGAAAAAA
Found at i:27595411 original size:39 final size:39
Alignment explanation
Indices: 27595355--27595650 Score: 324
Period size: 39 Copynumber: 7.4 Consensus size: 39
27595345 AATGAAATAT
* * * *
27595355 TGATTATACTAAATGCTTGTTTAAACGAGCATTATCCAC
1 TGATTATATTGAATGCTTGCTCAAACGAGCATTATCCAC
*
27595394 TAATTATATTGAATGCTTGCTCAAACGAGCATTATCCAC
1 TGATTATATTGAATGCTTGCTCAAACGAGCATTATCCAC
* *
27595433 TGATTATATTGAATGATTGCTCAAACGAGCATTATTCAC
1 TGATTATATTGAATGCTTGCTCAAACGAGCATTATCCAC
* *
27595472 TAATTATACTAAATGGTTGAATGCTTTCTCAAACGAAGCATTATCCAC
1 TGA-T-TA-T--A---TTGAATGCTTGCTCAAACG-AGCATTATCCAC
*
27595520 TGATTATATTGACTGCTTGCTCAAACGAGCATTATCCAC
1 TGATTATATTGAATGCTTGCTCAAACGAGCATTATCCAC
* ** *
27595559 TGATTATACTGAATGCTTGCTCAAGTGAGCATTATCCAT
1 TGATTATATTGAATGCTTGCTCAAACGAGCATTATCCAC
* * * *
27595598 TGATTATACTT-AATGCTTACTCAAATGAGCATTACCCAT
1 TGATTATA-TTGAATGCTTGCTCAAACGAGCATTATCCAC
*
27595637 TGATTATACTGAAT
1 TGATTATATTGAAT
27595651 AAGATTTTTT
Statistics
Matches: 221, Mismatches: 25, Indels: 22
0.82 0.09 0.08
Matches are distributed among these distances:
38 1 0.00
39 162 0.73
40 19 0.09
41 2 0.01
42 1 0.00
43 1 0.00
44 1 0.00
45 1 0.00
46 2 0.01
47 18 0.08
48 13 0.06
ACGTcount: A:0.32, C:0.19, G:0.14, T:0.35
Consensus pattern (39 bp):
TGATTATATTGAATGCTTGCTCAAACGAGCATTATCCAC
Found at i:27595514 original size:87 final size:86
Alignment explanation
Indices: 27595402--27595646 Score: 283
Period size: 87 Copynumber: 2.9 Consensus size: 86
27595392 ACTAATTATA
27595402 TTGAATGCTTGCTCAAACGAGCATTATCCACTGATTATATTGAATGATTGCTCAAACGAGCATTA
1 TTGAATGCTTGCTCAAACGAGCATTATCCACTGATTATATTGAATGATTGCTCAAACGAGCATTA
*
27595467 TTCACTAATTATACTAAATGG
66 TCCACTAATTATACTAAATGG
* * *
27595488 TTGAATGCTTTCTCAAACGAAGCATTATCCACTGATTATATTGACTGCTTGCTCAAACGAGCATT
1 TTGAATGCTTGCTCAAACG-AGCATTATCCACTGATTATATTGAATGATTGCTCAAACGAGCATT
*
27595553 ATCCACTGATTATAC-------
65 ATCCACTAATTATACTAAATGG
** * * * *
27595568 -TGAATGCTTGCTCAAGTGAGCATTATCCATTGATTATACTT-AATGCTTACTCAAATGAGCATT
1 TTGAATGCTTGCTCAAACGAGCATTATCCACTGATTATA-TTGAATGATTGCTCAAACGAGCATT
* * *
27595631 ACCCATTGATTATACT
65 ATCCACTAATTATACT
27595647 GAATAAGATT
Statistics
Matches: 142, Mismatches: 14, Indels: 13
0.84 0.08 0.08
Matches are distributed among these distances:
78 51 0.36
79 17 0.12
86 18 0.13
87 56 0.39
ACGTcount: A:0.31, C:0.20, G:0.14, T:0.35
Consensus pattern (86 bp):
TTGAATGCTTGCTCAAACGAGCATTATCCACTGATTATATTGAATGATTGCTCAAACGAGCATTA
TCCACTAATTATACTAAATGG
Found at i:27595607 original size:126 final size:125
Alignment explanation
Indices: 27595377--27595612 Score: 373
Period size: 126 Copynumber: 1.9 Consensus size: 125
27595367 ATGCTTGTTT
*
27595377 AAACGAGCATTATCCACTAATTATATTGAATGCTTGCTCAAACGAGCATTATCCACTGATTATAT
1 AAACGAGCATTATCCACTAATTATATTGAATGCTTGCTCAAACGAGCATTATCCACTGATTATAC
*
27595442 TGAATGATTGCTCAAACGAGCATTATTCACTAATTATACTAAATGGTTGAATGCTTTCTC
66 TGAATGATTGCTCAAACGAGCATTATCCACTAATTATACTAAATGGTTGAATGCTTTCTC
* *
27595502 AAACGAAGCATTATCCACTGATTATATTGACTGCTTGCTCAAACGAGCATTATCCACTGATTATA
1 AAACG-AGCATTATCCACTAATTATATTGAATGCTTGCTCAAACGAGCATTATCCACTGATTATA
* ** * * *
27595567 CTGAATGCTTGCTCAAGTGAGCATTATCCATTGATTATACTTAATG
65 CTGAATGATTGCTCAAACGAGCATTATCCACTAATTATACTAAATG
27595613 CTTACTCAAA
Statistics
Matches: 100, Mismatches: 10, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
125 5 0.05
126 95 0.95
ACGTcount: A:0.33, C:0.19, G:0.14, T:0.34
Consensus pattern (125 bp):
AAACGAGCATTATCCACTAATTATATTGAATGCTTGCTCAAACGAGCATTATCCACTGATTATAC
TGAATGATTGCTCAAACGAGCATTATCCACTAATTATACTAAATGGTTGAATGCTTTCTC
Found at i:27597703 original size:14 final size:15
Alignment explanation
Indices: 27597669--27597709 Score: 52
Period size: 14 Copynumber: 2.9 Consensus size: 15
27597659 TAGCCCCAAC
*
27597669 AATATAATATCTCAT
1 AATATAATATTTCAT
27597684 AA-ATAATATTTC-T
1 AATATAATATTTCAT
27597697 AATATAA-ATTTCA
1 AATATAATATTTCA
27597710 CGTGAAATGA
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
13 8 0.35
14 13 0.57
15 2 0.09
ACGTcount: A:0.49, C:0.10, G:0.00, T:0.41
Consensus pattern (15 bp):
AATATAATATTTCAT
Found at i:27604041 original size:45 final size:44
Alignment explanation
Indices: 27603969--27604053 Score: 118
Period size: 45 Copynumber: 1.9 Consensus size: 44
27603959 GAGTTATGGA
*
27603969 AATTGATAAACCATTTTCATCAGGCAATTCAGGGTGACAAGAATG
1 AATTGATAAACCATTTTCATCAAGCAATTCAGGGTG-CAAGAATG
* *
27604014 AATTGATAAACCATTATT-GTCAAGCAATTCAGTGTGCAAG
1 AATTGATAAACCATT-TTCATCAAGCAATTCAGGGTGCAAG
27604054 TCATCGTCCT
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
44 4 0.11
45 30 0.83
46 2 0.06
ACGTcount: A:0.38, C:0.15, G:0.19, T:0.28
Consensus pattern (44 bp):
AATTGATAAACCATTTTCATCAAGCAATTCAGGGTGCAAGAATG
Found at i:27607796 original size:20 final size:20
Alignment explanation
Indices: 27607771--27607810 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
27607761 CCAGTGACTG
27607771 TATCGCCACATCGAAGGCAA
1 TATCGCCACATCGAAGGCAA
27607791 TATCGCCACATCGAAGGCAA
1 TATCGCCACATCGAAGGCAA
27607811 GACACCGAAG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.35, C:0.30, G:0.20, T:0.15
Consensus pattern (20 bp):
TATCGCCACATCGAAGGCAA
Found at i:27609916 original size:18 final size:18
Alignment explanation
Indices: 27609893--27609931 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
27609883 CTCACAATAC
27609893 ACAGTTTGACAAATTAAT
1 ACAGTTTGACAAATTAAT
* *
27609911 ACAGTTTGCCATATTAAT
1 ACAGTTTGACAAATTAAT
27609929 ACA
1 ACA
27609932 AATCACCAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.41, C:0.15, G:0.10, T:0.33
Consensus pattern (18 bp):
ACAGTTTGACAAATTAAT
Found at i:27609943 original size:36 final size:36
Alignment explanation
Indices: 27609902--27609983 Score: 92
Period size: 36 Copynumber: 2.3 Consensus size: 36
27609892 CACAGTTTGA
* * * *
27609902 CAAATTAATACAGTTTGCCATATTAATACAAATCAC
1 CAAATTAACACAATTCGCCATAATAATACAAATCAC
* * *
27609938 CAAATTAACACAATTCGTCATAATAATATAATTCAC
1 CAAATTAACACAATTCGCCATAATAATACAAATCAC
*
27609974 CAAGTTAACA
1 CAAATTAACA
27609984 TGGTTCACAA
Statistics
Matches: 38, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
36 38 1.00
ACGTcount: A:0.46, C:0.20, G:0.05, T:0.29
Consensus pattern (36 bp):
CAAATTAACACAATTCGCCATAATAATACAAATCAC
Found at i:27622037 original size:23 final size:22
Alignment explanation
Indices: 27621994--27622037 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 22
27621984 TTCTAAGCTG
27621994 ATATTCAATTCAATTCCACACCT
1 ATATTCAATTCAATT-CACACCT
27622017 ATATTCATTATTCAATT-ACAC
1 ATATTCA--ATTCAATTCACAC
27622038 TTAGTAATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
23 11 0.58
25 8 0.42
ACGTcount: A:0.36, C:0.25, G:0.00, T:0.39
Consensus pattern (22 bp):
ATATTCAATTCAATTCACACCT
Found at i:27626868 original size:99 final size:104
Alignment explanation
Indices: 27626744--27626977 Score: 255
Period size: 99 Copynumber: 2.3 Consensus size: 104
27626734 ACTGCCAATT
* * * ** * **
27626744 CCATATCCCAGATATGGTCTAACATGGGAGTTCTCATAT-AGGTGCCCATGCCATGTCCCAGACA
1 CCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCA-GTGCCAACACCATGTCCCAGACA
* *
27626808 TGGTCTTACGGGGGACCTC-TCATCTC-A-G-TGCCAACG
65 TGGTCTTACAGGGGACCTCTTAATCTCAATGATGCCAACG
* *
27626844 CCATGTCCCAGACAT-GTCTTACATGGAACCTCTCATCTCAGTGCCAACACCATGTCCCAGACAT
1 CCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCAGTGCCAACACCATGTCCCAGACAT
* *
27626908 GGTCTTACATGGGACCTCTTATAATCTCAATGATGCCAATG
66 GGTCTTACAGGGGACCTC-T-TAATCTCAATGATGCCAACG
* *
27626949 TCATGTCCCAGAGATGGTCTTACATGGGA
1 CCATGTCCCAGACATGGTCTTACATGGGA
27626978 TCTCATCCTC
Statistics
Matches: 109, Mismatches: 17, Indels: 10
0.80 0.12 0.07
Matches are distributed among these distances:
99 55 0.50
100 14 0.13
102 6 0.06
103 1 0.01
104 1 0.01
105 20 0.18
106 12 0.11
ACGTcount: A:0.25, C:0.29, G:0.21, T:0.26
Consensus pattern (104 bp):
CCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCAGTGCCAACACCATGTCCCAGACAT
GGTCTTACAGGGGACCTCTTAATCTCAATGATGCCAACG
Found at i:27626954 original size:56 final size:50
Alignment explanation
Indices: 27626687--27626984 Score: 255
Period size: 49 Copynumber: 5.9 Consensus size: 50
27626677 GAATATAACA
* * * ** * * * *
27626687 TGCCAAAGCTATGTCCCAGACATAGTCTTACATGGGATGTTTCTTGT-AC
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCAG
** * * * ** *
27626736 TGCCAATTCCATATCCCAGATATGGTCTAACATGGGAGTTCTCATAT-AGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCA-G
* * **
27626786 TGCCCATGCCATGTCCCAGACATGGTCTTACGGGGGACCTCTCATCTCAG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCAG
*
27626836 TGCCAACGCCATGTCCCAGACAT-GTCTTACATGGAACCTCTCATCTCAG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCAG
* *
27626885 TGCCAACACCATGTCCCAGACATGGTCTTACATGGGACCTCTTATAATCTCAATG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTC---TCATCTC-A-G
* * *
27626940 ATGCCAATGTCATGTCCCAGAGATGGTCTTACATGGGA--TCTCATC
1 -TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATC
27626985 CTCTTAATGT
Statistics
Matches: 204, Mismatches: 36, Indels: 16
0.80 0.14 0.06
Matches are distributed among these distances:
49 81 0.40
50 75 0.37
51 5 0.02
53 6 0.03
54 3 0.01
55 1 0.00
56 33 0.16
ACGTcount: A:0.24, C:0.28, G:0.20, T:0.28
Consensus pattern (50 bp):
TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCAG
Found at i:27636941 original size:22 final size:22
Alignment explanation
Indices: 27636916--27637007 Score: 64
Period size: 22 Copynumber: 4.0 Consensus size: 22
27636906 AACACACCAT
27636916 TTGTAGATAAGCCACCACATAA
1 TTGTAGATAAGCCACCACATAA
* *
27636938 TTGTCGAT-AGACGACCACATAACACA
1 TTGTAGATAAG-CCACCACAT---A-A
* *
27636964 TTGTGGACAAGCCACCACATAA
1 TTGTAGATAAGCCACCACATAA
*
27636986 TTGCTA-ATAA-CGACCACATAA
1 TTG-TAGATAAGCCACCACATAA
27637007 T
1 T
27637008 CCATATAAAC
Statistics
Matches: 55, Mismatches: 8, Indels: 15
0.71 0.10 0.19
Matches are distributed among these distances:
21 13 0.24
22 22 0.40
23 2 0.04
25 1 0.02
26 15 0.27
27 2 0.04
ACGTcount: A:0.39, C:0.25, G:0.14, T:0.22
Consensus pattern (22 bp):
TTGTAGATAAGCCACCACATAA
Found at i:27648327 original size:42 final size:42
Alignment explanation
Indices: 27648270--27648352 Score: 139
Period size: 42 Copynumber: 2.0 Consensus size: 42
27648260 AATATGTGTG
*
27648270 AAACATTTGGAATTCAAACATTTGAACTCTTGTTCTTATCCA
1 AAACATTTGAAATTCAAACATTTGAACTCTTGTTCTTATCCA
* *
27648312 AAACGTTTGAAATTCAAATATTTGAACTCTTGTTCTTATCC
1 AAACATTTGAAATTCAAACATTTGAACTCTTGTTCTTATCC
27648353 CTTTGAATTT
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
42 38 1.00
ACGTcount: A:0.33, C:0.18, G:0.10, T:0.40
Consensus pattern (42 bp):
AAACATTTGAAATTCAAACATTTGAACTCTTGTTCTTATCCA
Found at i:27654119 original size:10 final size:9
Alignment explanation
Indices: 27654104--27654145 Score: 57
Period size: 9 Copynumber: 4.6 Consensus size: 9
27654094 TATTTTTCTA
27654104 TTTTGTTTGT
1 TTTTGTTT-T
27654114 TTTTGTTTT
1 TTTTGTTTT
*
27654123 TTGTGTTTT
1 TTTTGTTTT
*
27654132 TTTTGCTTT
1 TTTTGTTTT
27654141 TTTTG
1 TTTTG
27654146 GTGCAGAACG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
9 21 0.72
10 8 0.28
ACGTcount: A:0.00, C:0.02, G:0.17, T:0.81
Consensus pattern (9 bp):
TTTTGTTTT
Found at i:27654141 original size:19 final size:19
Alignment explanation
Indices: 27654107--27654143 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
27654097 TTTTCTATTT
27654107 TGTTTGTTTTTGTTTTTTG
1 TGTTTGTTTTTGTTTTTTG
27654126 TGTTT-TTTTTGCTTTTTT
1 TGTTTGTTTTTG-TTTTTT
27654144 TGGTGCAGAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 6 0.35
19 11 0.65
ACGTcount: A:0.00, C:0.03, G:0.16, T:0.81
Consensus pattern (19 bp):
TGTTTGTTTTTGTTTTTTG
Found at i:27656985 original size:20 final size:20
Alignment explanation
Indices: 27656926--27656987 Score: 72
Period size: 20 Copynumber: 3.1 Consensus size: 20
27656916 AATTATTTAA
*
27656926 TGATTGCACTTACGTGCCCC
1 TGATTGTACTTACGTGCCCC
* * *
27656946 TGTTTGTAC-TCCAGTACCCC
1 TGATTGTACTTAC-GTGCCCC
27656966 TGATTGTACTTACGTGCCCC
1 TGATTGTACTTACGTGCCCC
27656986 TG
1 TG
27656988 TTTTCACTTT
Statistics
Matches: 33, Mismatches: 7, Indels: 4
0.75 0.16 0.09
Matches are distributed among these distances:
19 2 0.06
20 29 0.88
21 2 0.06
ACGTcount: A:0.15, C:0.32, G:0.19, T:0.34
Consensus pattern (20 bp):
TGATTGTACTTACGTGCCCC
Found at i:27656996 original size:20 final size:19
Alignment explanation
Indices: 27656933--27656996 Score: 58
Period size: 20 Copynumber: 3.2 Consensus size: 19
27656923 TAATGATTGC
27656933 ACTTACGTGCCCCTGTTTGT
1 ACTTACGTGCCCCTGTTT-T
* * *
27656953 AC-TCCAGTACCCCTGATTGT
1 ACTTAC-GTGCCCCTG-TTTT
27656973 ACTTACGTGCCCCTGTTTT
1 ACTTACGTGCCCCTGTTTT
27656992 CACTT
1 -ACTT
27656997 TAGTGCCCTT
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
19 5 0.15
20 25 0.74
21 4 0.12
ACGTcount: A:0.14, C:0.33, G:0.16, T:0.38
Consensus pattern (19 bp):
ACTTACGTGCCCCTGTTTT
Found at i:27661198 original size:22 final size:20
Alignment explanation
Indices: 27661173--27661218 Score: 51
Period size: 19 Copynumber: 2.3 Consensus size: 20
27661163 TTTTTTATGT
27661173 ATAAAGGTTATAATAATTAAA
1 ATAAAGG-TATAATAATTAAA
*
27661194 A-ATAA-GTATTATAATTAAA
1 ATA-AAGGTATAATAATTAAA
27661213 ATAAAG
1 ATAAAG
27661219 ATGAAAATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 7
0.72 0.03 0.24
Matches are distributed among these distances:
19 15 0.71
20 3 0.14
21 3 0.14
ACGTcount: A:0.59, C:0.00, G:0.09, T:0.33
Consensus pattern (20 bp):
ATAAAGGTATAATAATTAAA
Found at i:27665031 original size:17 final size:18
Alignment explanation
Indices: 27664995--27665032 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
27664985 AGAAAATTGA
*
27664995 AAACGAGATTGAAGAAAG
1 AAACGAGAGTGAAGAAAG
27665013 AAACGAGAGTGAA-AAAG
1 AAACGAGAGTGAAGAAAG
27665030 AAA
1 AAA
27665033 TGAGTGATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 7 0.37
18 12 0.63
ACGTcount: A:0.61, C:0.05, G:0.26, T:0.08
Consensus pattern (18 bp):
AAACGAGAGTGAAGAAAG
Found at i:27666816 original size:20 final size:20
Alignment explanation
Indices: 27666771--27666818 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
27666761 TTCAACTCAA
* *
27666771 TTTTAGCTCAATGAGCTCGT
1 TTTTAGCTCAATGAGATCAT
* *
27666791 TCTTAGCTCGATGAGATCAT
1 TTTTAGCTCAATGAGATCAT
27666811 TTTTAGCT
1 TTTTAGCT
27666819 GACTTTAGTT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.21, C:0.19, G:0.19, T:0.42
Consensus pattern (20 bp):
TTTTAGCTCAATGAGATCAT
Found at i:27684675 original size:26 final size:25
Alignment explanation
Indices: 27684629--27684705 Score: 102
Period size: 26 Copynumber: 3.0 Consensus size: 25
27684619 TTTCTTAACT
27684629 CAATTTTACCCCAGTAAAATTTTGA
1 CAATTTTACCCCAGTAAAATTTTGA
*
27684654 CGATTTTACTCCC-GATAAAATTTTGA
1 CAATTTTAC-CCCAG-TAAAATTTTGA
*
27684680 CAATTTTACCCCTAGTAAAAATTTGA
1 CAATTTTACCCC-AGTAAAATTTTGA
27684706 GAAAATTCGT
Statistics
Matches: 45, Mismatches: 3, Indels: 7
0.82 0.05 0.13
Matches are distributed among these distances:
25 12 0.27
26 32 0.71
27 1 0.02
ACGTcount: A:0.35, C:0.19, G:0.09, T:0.36
Consensus pattern (25 bp):
CAATTTTACCCCAGTAAAATTTTGA
Found at i:27688055 original size:45 final size:45
Alignment explanation
Indices: 27687949--27688077 Score: 131
Period size: 45 Copynumber: 2.9 Consensus size: 45
27687939 ACCGTTACAT
* * *
27687949 GGTGG-ATCAGCACATAGC-ACCATCCT-TATAATCAATCATATT-T
1 GGTGGAATCAACACATAGCAACCA-CCTATATAATCAATGAT-TTCC
* * **
27687992 GGTGGAATCAGCATATAGCAACCACCTATATTTTCAATGATTTCC
1 GGTGGAATCAACACATAGCAACCACCTATATAATCAATGATTTCC
* *
27688037 GGTGGAGTCAACACATAGCAACCACCTTTATAATCAATGAT
1 GGTGGAATCAACACATAGCAACCACCTATATAATCAATGAT
27688078 ACTCAGTACA
Statistics
Matches: 71, Mismatches: 11, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
43 5 0.07
44 17 0.24
45 49 0.69
ACGTcount: A:0.33, C:0.22, G:0.16, T:0.29
Consensus pattern (45 bp):
GGTGGAATCAACACATAGCAACCACCTATATAATCAATGATTTCC
Found at i:27693348 original size:44 final size:45
Alignment explanation
Indices: 27693198--27693398 Score: 208
Period size: 45 Copynumber: 4.5 Consensus size: 45
27693188 CAGTACATTG
* * ** * *
27693198 CCACCCTTATAATCAATTATATTCGGTGGAATCAACATATAGCAA
1 CCACCTTTATAATCAATGATACCCGGTGGAATCAACACATAGAAA
** ** * * *
27693243 CCACCTTTATTTTCAATGATTTCTGGTGCAGTCAACACATAGAAA
1 CCACCTTTATAATCAATGATACCCGGTGGAATCAACACATAGAAA
*
27693288 CCACCTTTATAATCAATGGTACCCGGTGGAATCAACACATAG-AA
1 CCACCTTTATAATCAATGATACCCGGTGGAATCAACACATAGAAA
* * * *
27693332 CCACCTTTATAATCAATGGTACCCGGTAGAACCAGCACATA-ACAA
1 CCACCTTTATAATCAATGATACCCGGTGGAATCAACACATAGA-AA
*
27693377 CCACTTTTATAATCAATGATAC
1 CCACCTTTATAATCAATGATAC
27693399 TCAGTACACG
Statistics
Matches: 130, Mismatches: 24, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
44 40 0.31
45 90 0.69
ACGTcount: A:0.36, C:0.24, G:0.12, T:0.27
Consensus pattern (45 bp):
CCACCTTTATAATCAATGATACCCGGTGGAATCAACACATAGAAA
Found at i:27693380 original size:89 final size:90
Alignment explanation
Indices: 27693198--27693398 Score: 219
Period size: 89 Copynumber: 2.2 Consensus size: 90
27693188 CAGTACATTG
* * ** * **
27693198 CCACCCTTATAATCAATTATATTCGGTGGAATCAACATATAGCAACCACCTTTATTTTCAATGAT
1 CCACCTTTATAATCAATGATACCCGGTGGAATCAACACATAGCAACCACCTTTATAATCAATGAT
** * **
27693263 TTCTGGTGCAGTCAACACATAGAAA
66 ACCCGGTGCAACCAACACATAGAAA
* *
27693288 CCACCTTTATAATCAATGGTACCCGGTGGAATCAACACATAG-AACCACCTTTATAATCAATGGT
1 CCACCTTTATAATCAATGATACCCGGTGGAATCAACACATAGCAACCACCTTTATAATCAATGAT
*
27693352 ACCCGGTAG-AACCAGCACATA-ACAA
66 ACCCGGT-GCAACCAACACATAGA-AA
*
27693377 CCACTTTTATAATCAATGATAC
1 CCACCTTTATAATCAATGATAC
27693399 TCAGTACACG
Statistics
Matches: 92, Mismatches: 17, Indels: 5
0.81 0.15 0.04
Matches are distributed among these distances:
88 1 0.01
89 54 0.59
90 37 0.40
ACGTcount: A:0.36, C:0.24, G:0.12, T:0.27
Consensus pattern (90 bp):
CCACCTTTATAATCAATGATACCCGGTGGAATCAACACATAGCAACCACCTTTATAATCAATGAT
ACCCGGTGCAACCAACACATAGAAA
Found at i:27708928 original size:31 final size:34
Alignment explanation
Indices: 27708867--27708928 Score: 85
Period size: 32 Copynumber: 1.9 Consensus size: 34
27708857 TAATCATATA
* *
27708867 TTGTTATTATATTGTTTTTTTTATAGTTAAATTG
1 TTGTTATTATAATGTTTTTTTTACAGTTAAATTG
27708901 TTGTT-TTATAATG-TTTTTTTACA-TTAAA
1 TTGTTATTATAATGTTTTTTTTACAGTTAAA
27708929 AGGATTAAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
31 5 0.19
32 9 0.35
33 7 0.27
34 5 0.19
ACGTcount: A:0.26, C:0.02, G:0.10, T:0.63
Consensus pattern (34 bp):
TTGTTATTATAATGTTTTTTTTACAGTTAAATTG
Found at i:27709792 original size:31 final size:31
Alignment explanation
Indices: 27709725--27709803 Score: 88
Period size: 31 Copynumber: 2.5 Consensus size: 31
27709715 AATTGATAAA
* *
27709725 CCATCGTCATCGGGCAATCTGTGGTGGTAAG
1 CCATCGTCATCGGGCAAACTGTGGTGGCAAG
*
27709756 CCATCGTCATCGGGCAAACTAG-GGTGGCATG
1 CCATCGTCATCGGGCAAACT-GTGGTGGCAAG
* * *
27709787 TCATCGTCCTTGGGCAA
1 CCATCGTCATCGGGCAA
27709804 TCCGGGATGA
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
31 40 0.98
32 1 0.02
ACGTcount: A:0.20, C:0.25, G:0.30, T:0.24
Consensus pattern (31 bp):
CCATCGTCATCGGGCAAACTGTGGTGGCAAG
Found at i:27714845 original size:14 final size:14
Alignment explanation
Indices: 27714826--27714852 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
27714816 CTTTTGGCCC
27714826 TAGAGACCTACACT
1 TAGAGACCTACACT
27714840 TAGAGACCTACAC
1 TAGAGACCTACAC
27714853 GCCCCCCCCC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.37, C:0.30, G:0.15, T:0.19
Consensus pattern (14 bp):
TAGAGACCTACACT
Found at i:27715768 original size:5 final size:5
Alignment explanation
Indices: 27715754--27715797 Score: 52
Period size: 5 Copynumber: 8.8 Consensus size: 5
27715744 ATTGACTTTT
* * * *
27715754 TACCC AACCC TACCC TATCC TATCC TACCC TACCT TACCC TACC
1 TACCC TACCC TACCC TACCC TACCC TACCC TACCC TACCC TACC
27715798 ATTACTTTCT
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
5 33 1.00
ACGTcount: A:0.23, C:0.52, G:0.00, T:0.25
Consensus pattern (5 bp):
TACCC
Found at i:27724890 original size:51 final size:49
Alignment explanation
Indices: 27724756--27724947 Score: 179
Period size: 51 Copynumber: 3.8 Consensus size: 49
27724746 ATTATTATCA
* * * * *
27724756 TTCGATACACGTAGTAGCCCT-CACATAGTACTACACACGTGATCAAACTT
1 TTCGGTACACATAGTAG-CCTGCACATAGTACTACACACGTAACCAAAC-C
* * * *
27724806 TTCGGTTCACGTAGTAGCTTGCACATGGTACTACACACGTAACCAAAGCC
1 TTCGGTACACATAGTAGCCTGCACATAGTACTACACACGTAACCAAA-CC
* * * * *
27724856 TTCCGGTACACATAATAGCCTGCACATATTACTACACATGTAACCATTATC
1 TT-CGGTACACATAGTAGCCTGCACATAGTACTACACACGTAACCA-AACC
* *
27724907 TATCGATACACATAGTAGCCTGCACTTAGTACTACACACGT
1 T-TCGGTACACATAGTAGCCTGCACATAGTACTACACACGT
27724948 GTTTATAGGC
Statistics
Matches: 116, Mismatches: 21, Indels: 9
0.79 0.14 0.06
Matches are distributed among these distances:
49 2 0.02
50 40 0.34
51 72 0.62
52 2 0.02
ACGTcount: A:0.31, C:0.28, G:0.15, T:0.27
Consensus pattern (49 bp):
TTCGGTACACATAGTAGCCTGCACATAGTACTACACACGTAACCAAACC
Found at i:27731371 original size:27 final size:27
Alignment explanation
Indices: 27731339--27731416 Score: 93
Period size: 27 Copynumber: 2.9 Consensus size: 27
27731329 TTTCATCTCC
**
27731339 TAGGGGTATAACAGTTATTTTACCCTA
1 TAGGGGTATTTCAGTTATTTTACCCTA
* * * *
27731366 TGGGGGTATTTCGGTCATTTTAACCTA
1 TAGGGGTATTTCAGTTATTTTACCCTA
*
27731393 TAGGGGTATTTCAATTATTTTACC
1 TAGGGGTATTTCAGTTATTTTACC
27731417 TATTTTGGGG
Statistics
Matches: 40, Mismatches: 11, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
27 40 1.00
ACGTcount: A:0.24, C:0.14, G:0.21, T:0.41
Consensus pattern (27 bp):
TAGGGGTATTTCAGTTATTTTACCCTA
Found at i:27741055 original size:22 final size:22
Alignment explanation
Indices: 27741027--27741130 Score: 145
Period size: 22 Copynumber: 4.7 Consensus size: 22
27741017 CATCAGTGTT
*
27741027 ATCAGTGGCAGTTTATCTAAAA
1 ATCAGTGGCAGTTTATCTACAA
27741049 ATCAGTGGCAGTTTATCTACAA
1 ATCAGTGGCAGTTTATCTACAA
*
27741071 ATCAGTGGCAGTTTATCTATAA
1 ATCAGTGGCAGTTTATCTACAA
* * *
27741093 TTCAGTGGTAGTTTATCTGCAA
1 ATCAGTGGCAGTTTATCTACAA
* *
27741115 ATTAGTGGCAGCTTAT
1 ATCAGTGGCAGTTTAT
27741131 TTGTAAATCA
Statistics
Matches: 72, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 72 1.00
ACGTcount: A:0.30, C:0.14, G:0.20, T:0.36
Consensus pattern (22 bp):
ATCAGTGGCAGTTTATCTACAA
Found at i:27742738 original size:135 final size:134
Alignment explanation
Indices: 27742484--27742745 Score: 470
Period size: 135 Copynumber: 1.9 Consensus size: 134
27742474 TGGTGTTAGA
* * * *
27742484 TTTTGTCGCACTTTATCACAATACAGTGTGATAACTTTTTTCCATATAAGGAACGACTTTGAGAT
1 TTTTGCCGCACTTTATCACAATACAGTGTGATAACTTTTTTCCACATAAGGAACGACTATGAGAC
27742549 CCATAAGAAACTTCTGAAGCCATATTGCTTCTTCTATCTTCTCAAAAGAAGCTATATATTTGAGA
66 CCATAAGAAACTTCTGAAGCCATATTGCTTCTTCTATCTTCTCAAAAGAAGCTATATATTTGAGA
27742614 TAAC
131 TAAC
27742618 TTTTGCCGCACTATTATCACAATACAGTGTGATAACTTTTTTCCACATAAGGAACGACTATGAGA
1 TTTTGCCGCACT-TTATCACAATACAGTGTGATAACTTTTTTCCACATAAGGAACGACTATGAGA
*
27742683 CCCATAAGGAACTTCTGAAGCCATATTGCTTCTTCTATCTTCTCAAAAGAAGCTATATATTTG
65 CCCATAAGAAACTTCTGAAGCCATATTGCTTCTTCTATCTTCTCAAAAGAAGCTATATATTTG
27742746 TACACTCAAA
Statistics
Matches: 122, Mismatches: 5, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
134 11 0.09
135 111 0.91
ACGTcount: A:0.32, C:0.20, G:0.14, T:0.35
Consensus pattern (134 bp):
TTTTGCCGCACTTTATCACAATACAGTGTGATAACTTTTTTCCACATAAGGAACGACTATGAGAC
CCATAAGAAACTTCTGAAGCCATATTGCTTCTTCTATCTTCTCAAAAGAAGCTATATATTTGAGA
TAAC
Found at i:27765697 original size:63 final size:63
Alignment explanation
Indices: 27765610--27765735 Score: 218
Period size: 63 Copynumber: 2.0 Consensus size: 63
27765600 TAAGTTTAGG
*
27765610 GGTGTGTAAACTGAAAAATATATAGGAATTTTCCTATATAATTCA-CATCTTTTTAACTTAAAT
1 GGTGTGTAAACTGAAAAATATATAGGAATTTTCCTATATAATTCATCACCTTTTT-ACTTAAAT
*
27765673 GGTGTGTAAACTGAAAAATATATAGGATTTTTCCTATATAATTCATCACCTTTTTACTTAAAT
1 GGTGTGTAAACTGAAAAATATATAGGAATTTTCCTATATAATTCATCACCTTTTTACTTAAAT
27765736 TTATTGTTAA
Statistics
Matches: 60, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
63 52 0.87
64 8 0.13
ACGTcount: A:0.37, C:0.12, G:0.11, T:0.40
Consensus pattern (63 bp):
GGTGTGTAAACTGAAAAATATATAGGAATTTTCCTATATAATTCATCACCTTTTTACTTAAAT
Found at i:27773903 original size:25 final size:25
Alignment explanation
Indices: 27773840--27773913 Score: 71
Period size: 25 Copynumber: 3.0 Consensus size: 25
27773830 TTACCGATTG
*
27773840 CAGCTCGTGAGAGCTTACTGATTCT
1 CAGCTCGTGAGAGCTTATTGATTCT
27773865 CAGCTCGT-ATGAGCTTATTGATT-T
1 CAGCTCGTGA-GAGCTTATTGATTCT
* * * *
27773889 GTAGCTCATGAGAGCATATCGATTC
1 -CAGCTCGTGAGAGCTTATTGATTC
27773914 ATAGTTCGTA
Statistics
Matches: 40, Mismatches: 5, Indels: 7
0.77 0.10 0.13
Matches are distributed among these distances:
24 2 0.05
25 37 0.93
26 1 0.03
ACGTcount: A:0.23, C:0.20, G:0.23, T:0.34
Consensus pattern (25 bp):
CAGCTCGTGAGAGCTTATTGATTCT
Found at i:27778097 original size:37 final size:37
Alignment explanation
Indices: 27778047--27778134 Score: 124
Period size: 37 Copynumber: 2.4 Consensus size: 37
27778037 GTGTCGAGGT
* *
27778047 GTGTTATTGGTTGGATTAGCTCTCATGAGCGTTTGGC
1 GTGTTATTGGTTGGATTAGCACTCATGAGCGCTTGGC
*
27778084 GTGTTATTGGTTGGATTAGCACTTATGAGCGCTTGGC
1 GTGTTATTGGTTGGATTAGCACTCATGAGCGCTTGGC
* *
27778121 ATGTT-TCGGTTGGA
1 GTGTTATTGGTTGGA
27778135 CTACTTATGT
Statistics
Matches: 46, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
36 8 0.17
37 38 0.83
ACGTcount: A:0.15, C:0.12, G:0.33, T:0.40
Consensus pattern (37 bp):
GTGTTATTGGTTGGATTAGCACTCATGAGCGCTTGGC
Found at i:27782584 original size:45 final size:44
Alignment explanation
Indices: 27782462--27782622 Score: 139
Period size: 45 Copynumber: 3.5 Consensus size: 44
27782452 GTGATTGTTG
* * *
27782462 TGTACTGATTCTACCGGGTATCATTGATTATAAAGGTGGTGCTATGTGCTA
1 TGTACTGATTCCACCGAGTATCATTGACTAT-AAGGT-G-GC----TGCTA
* * *
27782513 TGTGCTGATTCCATCAAGTA-CTATTGACTATGAAGGTGGCTGCTA
1 TGTACTGATTCCACCGAGTATC-ATTGACTAT-AAGGTGGCTGCTA
27782558 TGTACTGATTCCACCGAGTATCATTGACTATAAGGGTGG-TGCTA
1 TGTACTGATTCCACCGAGTATCATTGACTATAA-GGTGGCTGCTA
* *
27782602 TGTGCTGA-TCCACCGTGTATC
1 TGTACTGATTCCACCGAGTATC
27782623 TGTTATTATT
Statistics
Matches: 95, Mismatches: 12, Indels: 14
0.79 0.10 0.12
Matches are distributed among these distances:
43 12 0.13
44 14 0.15
45 36 0.38
46 1 0.01
49 2 0.02
50 2 0.02
51 28 0.29
ACGTcount: A:0.23, C:0.18, G:0.25, T:0.34
Consensus pattern (44 bp):
TGTACTGATTCCACCGAGTATCATTGACTATAAGGTGGCTGCTA
Found at i:27796437 original size:21 final size:21
Alignment explanation
Indices: 27796413--27796456 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
27796403 AAAGTTTCAT
*
27796413 TAAGAAATTTTAACGTTTTGA
1 TAAGAAATTTTAACGTTTCGA
*
27796434 TAAGAAATTTTAATGTTTCGA
1 TAAGAAATTTTAACGTTTCGA
27796455 TA
1 TA
27796457 GTTAATTAAG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.39, C:0.05, G:0.14, T:0.43
Consensus pattern (21 bp):
TAAGAAATTTTAACGTTTCGA
Found at i:27801108 original size:24 final size:23
Alignment explanation
Indices: 27801072--27801141 Score: 70
Period size: 24 Copynumber: 3.0 Consensus size: 23
27801062 CATATTTTCG
* *
27801072 AAATCATTGTGTATTATTATTCTA
1 AAATTATTATGTATTATTATT-TA
*
27801096 AAATTATTATGTATTATTACTTA
1 AAATTATTATGTATTATTATTTA
*
27801119 AAAGTTA-TACTATATTATTATTT
1 AAA-TTATTA-TGTATTATTATTT
27801142 TTTTCATTTG
Statistics
Matches: 39, Mismatches: 5, Indels: 4
0.81 0.10 0.08
Matches are distributed among these distances:
23 7 0.18
24 32 0.82
ACGTcount: A:0.37, C:0.06, G:0.06, T:0.51
Consensus pattern (23 bp):
AAATTATTATGTATTATTATTTA
Found at i:27806785 original size:7 final size:7
Alignment explanation
Indices: 27806773--27806819 Score: 78
Period size: 7 Copynumber: 6.9 Consensus size: 7
27806763 CTGAGTCAAA
27806773 AAAAATG
1 AAAAATG
27806780 AAAAATG
1 AAAAATG
27806787 AAAAATG
1 AAAAATG
27806794 AAAAATG
1 AAAAATG
*
27806801 -AGAATG
1 AAAAATG
27806807 AAAAATG
1 AAAAATG
27806814 AAAAAT
1 AAAAAT
27806820 AGAGAGGCTA
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
6 5 0.14
7 32 0.86
ACGTcount: A:0.70, C:0.00, G:0.15, T:0.15
Consensus pattern (7 bp):
AAAAATG
Found at i:27806797 original size:13 final size:13
Alignment explanation
Indices: 27806774--27806817 Score: 70
Period size: 13 Copynumber: 3.3 Consensus size: 13
27806764 TGAGTCAAAA
27806774 AAAATGAAAAATG
1 AAAATGAAAAATG
27806787 AAAAATGAAAAATG
1 -AAAATGAAAAATG
*
27806801 AGAATGAAAAATG
1 AAAATGAAAAATG
27806814 AAAA
1 AAAA
27806818 ATAGAGAGGC
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
13 15 0.54
14 13 0.46
ACGTcount: A:0.70, C:0.00, G:0.16, T:0.14
Consensus pattern (13 bp):
AAAATGAAAAATG
Found at i:27806806 original size:20 final size:20
Alignment explanation
Indices: 27806773--27806824 Score: 77
Period size: 20 Copynumber: 2.5 Consensus size: 20
27806763 CTGAGTCAAA
*
27806773 AAAAATGAAAAATGAAAAATG
1 AAAAATG-AGAATGAAAAATG
27806794 AAAAATGAGAATGAAAAATG
1 AAAAATGAGAATGAAAAATG
27806814 AAAAATAGAGA
1 AAAAAT-GAGA
27806825 GGCTAAGGGG
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
20 18 0.62
21 11 0.38
ACGTcount: A:0.69, C:0.00, G:0.17, T:0.13
Consensus pattern (20 bp):
AAAAATGAGAATGAAAAATG
Found at i:27808224 original size:44 final size:44
Alignment explanation
Indices: 27808169--27808667 Score: 164
Period size: 44 Copynumber: 10.7 Consensus size: 44
27808159 TAAAGAAGCA
*
27808169 AATCTTATCTCCCTGAGATTACAGCGGAGTAGATTGAAGCGAGT
1 AATCTTATCTCCCTGAGATTACAGCGGAGTAGATTGAAGCAAGT
* * ** * **
27808213 AATCCTATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAG-
1 AATCTTATCTCCCTGAGATTACAGCGGAGTAGATT-GAAGCAAGT
* * * * *
27808257 GATCTTATCTCTCTGA-AGTTACAGTAGAGTAGATCGCATCAGATTGAAGCCAGA
1 AATCTTATCTCCCTGAGA-TTAC---AGCG--GA--G--T-AGATTGAAGCAAGT
* * *
27808311 AATCTTATCTCCCTGAGATTACAGCGGAATAGATGGAAGCTAGT
1 AATCTTATCTCCCTGAGATTACAGCGGAGTAGATTGAAGCAAGT
* ** * **
27808355 AATCTTATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAG-
1 AATCTTATCTCCCTGAGATTACAGCGGAGTAGATT-GAAGCAAGT
* * * * *
27808399 GATCTTATCTCTCTGA-AGTTACAGTAGAGTAGATCGCATCAGATTGAAGCCAGA
1 AATCTTATCTCCCTGAGA-TTAC---AGCG--GA--G--T-AGATTGAAGCAAGT
* * * * *
27808453 AATCTTATCTCTCTGAGATTATAGCGGAGCAGATGGAAGCTAGT
1 AATCTTATCTCCCTGAGATTACAGCGGAGTAGATTGAAGCAAGT
* * * ** * **
27808497 AATCCTATCTCCCTGAGATTATAGTGGAGCGGATTAAAATAAAG-
1 AATCTTATCTCCCTGAGATTACAGCGGAGTAGATT-GAAGCAAGT
* * * * * *
27808541 GATCTTATCTCTCT-AAAGTTACAGTAGAGTAGATTGCATCAGATTGAAGCCAGA
1 AATCTTATCTCCCTGAGA-TTAC---AGCG--GA--G--T-AGATTGAAGCAAGT
* * * *
27808595 AATCTTATCTCCCTGAAATTGCAGCGGAGCAGATTGAAGCTAGT
1 AATCTTATCTCCCTGAGATTACAGCGGAGTAGATTGAAGCAAGT
* *
27808639 AATCCTATCTCCCTGAGATTACAGTGGAG
1 AATCTTATCTCCCTGAGATTACAGCGGAG
27808668 CGGATTAAAA
Statistics
Matches: 331, Mismatches: 82, Indels: 84
0.67 0.16 0.17
Matches are distributed among these distances:
43 4 0.01
44 199 0.60
45 13 0.04
47 11 0.03
49 12 0.04
51 12 0.04
53 12 0.04
54 63 0.19
55 5 0.02
ACGTcount: A:0.32, C:0.18, G:0.22, T:0.28
Consensus pattern (44 bp):
AATCTTATCTCCCTGAGATTACAGCGGAGTAGATTGAAGCAAGT
Found at i:27808424 original size:142 final size:142
Alignment explanation
Indices: 27808168--27808724 Score: 961
Period size: 142 Copynumber: 3.9 Consensus size: 142
27808158 CTAAAGAAGC
* * *
27808168 AAATCTTATCTCCCTGAGATTACAGCGGAGTAGATTGAAGCGAGTAATCCTATCTCCCTGAGATT
1 AAATCTTATCTCCCTGAGATTACAGCGGAGCAGATGGAAGCTAGTAATCCTATCTCCCTGAGATT
27808233 ACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCA
66 ACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCA
27808298 GATTGAAGCCAG
131 GATTGAAGCCAG
** *
27808310 AAATCTTATCTCCCTGAGATTACAGCGGAATAGATGGAAGCTAGTAATCTTATCTCCCTGAGATT
1 AAATCTTATCTCCCTGAGATTACAGCGGAGCAGATGGAAGCTAGTAATCCTATCTCCCTGAGATT
27808375 ACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCA
66 ACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCA
27808440 GATTGAAGCCAG
131 GATTGAAGCCAG
* *
27808452 AAATCTTATCTCTCTGAGATTATAGCGGAGCAGATGGAAGCTAGTAATCCTATCTCCCTGAGATT
1 AAATCTTATCTCCCTGAGATTACAGCGGAGCAGATGGAAGCTAGTAATCCTATCTCCCTGAGATT
* * *
27808517 ATAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTAAAGTTACAGTAGAGTAGATTGCATCA
66 ACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCA
27808582 GATTGAAGCCAG
131 GATTGAAGCCAG
* * *
27808594 AAATCTTATCTCCCTGAAATTGCAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATT
1 AAATCTTATCTCCCTGAGATTACAGCGGAGCAGATGGAAGCTAGTAATCCTATCTCCCTGAGATT
* * *
27808659 ACAGTGGAGCGGATTAAAATAAAAGATTTTAACTCTCTGAAGTTACAGTAGAGTAGATCGCATCA
66 ACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCA
27808724 G
131 G
27808725 GTCTTATCTC
Statistics
Matches: 392, Mismatches: 23, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
142 392 1.00
ACGTcount: A:0.33, C:0.18, G:0.22, T:0.28
Consensus pattern (142 bp):
AAATCTTATCTCCCTGAGATTACAGCGGAGCAGATGGAAGCTAGTAATCCTATCTCCCTGAGATT
ACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCA
GATTGAAGCCAG
Found at i:27808844 original size:50 final size:50
Alignment explanation
Indices: 27808803--27809164 Score: 291
Period size: 50 Copynumber: 7.2 Consensus size: 50
27808793 AGTGGAACAT
* *
27808803 ATTAAAGCCACATCGGTGAATCTTGCTTCCCCGACATTGCAGTTAAAAAG
1 ATTAAAGCCACATCAGTGAATCTTGCTTCCCCGACATTGCAGTGAAAAAG
* * * * * * ** * **
27808853 ATTAAAGCTATAGCAGCGAATCTTACTT-CCCTAGCGGTGCAGTGGAACGG
1 ATTAAAGCCACATCAGTGAATCTTGCTTCCCCGA-CATTGCAGTGAAAAAG
* *
27808903 ATTAAAGCCACATCAGTGAATCTTGCTTACCCGACATTGCAGTTAAAAAG
1 ATTAAAGCCACATCAGTGAATCTTGCTTCCCCGACATTGCAGTGAAAAAG
* * * * * * ** * * *
27808953 ATTAAAGCTACAACAGCGAATCTTACTTCCCTGGCGGTGTAGTGGAACAG
1 ATTAAAGCCACATCAGTGAATCTTGCTTCCCCGACATTGCAGTGAAAAAG
* * *
27809003 ATTAAAGCCACATCGGTGAATCTTGCTTCCCCGACATTGTAGTTAAAAAG
1 ATTAAAGCCACATCAGTGAATCTTGCTTCCCCGACATTGCAGTGAAAAAG
* * * * * * * * *
27809053 ATTAAAGCTACAACAGCGAATCTTACTT-CCCTA-GTGGTGAAGTGGAACAG
1 ATTAAAGCCACATCAGTGAATCTTGCTTCCCCGACAT--TGCAGTGAAAAAG
* * *
27809103 ATTAAAGCCACATC-GATGAATCTTGCTTCCTCGACATTACAGTTAAAAAG
1 ATTAAAGCCACATCAG-TGAATCTTGCTTCCCCGACATTGCAGTGAAAAAG
27809153 ATTAAAGCCACA
1 ATTAAAGCCACA
27809165 ATGGCGAATC
Statistics
Matches: 232, Mismatches: 73, Indels: 14
0.73 0.23 0.04
Matches are distributed among these distances:
48 1 0.00
49 9 0.04
50 214 0.92
51 7 0.03
52 1 0.00
ACGTcount: A:0.33, C:0.22, G:0.19, T:0.25
Consensus pattern (50 bp):
ATTAAAGCCACATCAGTGAATCTTGCTTCCCCGACATTGCAGTGAAAAAG
Found at i:27808951 original size:100 final size:100
Alignment explanation
Indices: 27808771--27809180 Score: 658
Period size: 100 Copynumber: 4.1 Consensus size: 100
27808761 AGAATTACAG
*
27808771 ATCTTATCTTCCCTAGCGGTGCAGTGGAACATATTAAAGCCACATCGGTGAATCTTGCTTCCCCG
1 ATCTTA-CTTCCCTAGCGGTGCAGTGGAACAGATTAAAGCCACATCGGTGAATCTTGCTTCCCCG
* *
27808836 ACATTGCAGTTAAAAAGATTAAAGCTATAGCAGCGA
65 ACATTGCAGTTAAAAAGATTAAAGCTACAACAGCGA
* * *
27808872 ATCTTACTTCCCTAGCGGTGCAGTGGAACGGATTAAAGCCACATCAGTGAATCTTGCTTACCCGA
1 ATCTTACTTCCCTAGCGGTGCAGTGGAACAGATTAAAGCCACATCGGTGAATCTTGCTTCCCCGA
27808937 CATTGCAGTTAAAAAGATTAAAGCTACAACAGCGA
66 CATTGCAGTTAAAAAGATTAAAGCTACAACAGCGA
* *
27808972 ATCTTACTTCCCTGGCGGTGTAGTGGAACAGATTAAAGCCACATCGGTGAATCTTGCTTCCCCGA
1 ATCTTACTTCCCTAGCGGTGCAGTGGAACAGATTAAAGCCACATCGGTGAATCTTGCTTCCCCGA
*
27809037 CATTGTAGTTAAAAAGATTAAAGCTACAACAGCGA
66 CATTGCAGTTAAAAAGATTAAAGCTACAACAGCGA
* * * *
27809072 ATCTTACTTCCCTAGTGGTGAAGTGGAACAGATTAAAGCCACATCGATGAATCTTGCTTCCTCGA
1 ATCTTACTTCCCTAGCGGTGCAGTGGAACAGATTAAAGCCACATCGGTGAATCTTGCTTCCCCGA
* * **
27809137 CATTACAGTTAAAAAGATTAAAGCCACAATGGCGA
66 CATTGCAGTTAAAAAGATTAAAGCTACAACAGCGA
27809172 ATCTTACTT
1 ATCTTACTT
27809181 TCCAAAAGTT
Statistics
Matches: 287, Mismatches: 22, Indels: 1
0.93 0.07 0.00
Matches are distributed among these distances:
100 281 0.98
101 6 0.02
ACGTcount: A:0.32, C:0.22, G:0.20, T:0.26
Consensus pattern (100 bp):
ATCTTACTTCCCTAGCGGTGCAGTGGAACAGATTAAAGCCACATCGGTGAATCTTGCTTCCCCGA
CATTGCAGTTAAAAAGATTAAAGCTACAACAGCGA
Found at i:27810889 original size:24 final size:23
Alignment explanation
Indices: 27810832--27810922 Score: 76
Period size: 24 Copynumber: 3.8 Consensus size: 23
27810822 TTTCATCATG
* *
27810832 TATTATGTATTCATATTTTTGAAAT
1 TATTATGTATT-AT-TATTTAAAAT
* *
27810857 CATTGTGTATTATTATTCTAAAAT
1 TATTATGTATTATTATT-TAAAAT
*
27810881 TATTATGTATTATTACTTAAAAGT
1 TATTATGTATTATTATTTAAAA-T
*
27810905 TA-TACTATATTATTATTT
1 TATTA-TGTATTATTATTT
27810923 TTTCATTTGT
Statistics
Matches: 54, Mismatches: 9, Indels: 7
0.77 0.13 0.10
Matches are distributed among these distances:
23 10 0.19
24 35 0.65
25 9 0.17
ACGTcount: A:0.34, C:0.05, G:0.07, T:0.54
Consensus pattern (23 bp):
TATTATGTATTATTATTTAAAAT
Found at i:27814426 original size:21 final size:22
Alignment explanation
Indices: 27814383--27814426 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
27814373 ATTCATGACA
*
27814383 GAAACTAAGAGAAACACTTACC
1 GAAACTAAGAGAAACACTAACC
* *
27814405 GAAACTAAGTG-AGCACTAACC
1 GAAACTAAGAGAAACACTAACC
27814426 G
1 G
27814427 CGTATGAAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
21 9 0.47
22 10 0.53
ACGTcount: A:0.45, C:0.23, G:0.18, T:0.14
Consensus pattern (22 bp):
GAAACTAAGAGAAACACTAACC
Found at i:27829551 original size:53 final size:52
Alignment explanation
Indices: 27829467--27829775 Score: 329
Period size: 53 Copynumber: 5.9 Consensus size: 52
27829457 ACATGCCAAA
* * * *
27829467 AAATGGAAGCCTTTGTAGCAATCTATGAAATGAAAGTCTTTGCGGCGTATCTG
1 AAATGGAAGCCTTTGTGGCAATATATGAAATGAAAGCCTTTGTGGC-TATCTG
* * *
27829520 AAATGGAAGCCTTTGTGGCAATATATCAAATGGAAGCCTTTGTGGCAATCTATG
1 AAATGGAAGCCTTTGTGGCAATATATGAAATGAAAGCCTTTGTGGCTATC--TG
* * * * *
27829574 AAATGGAAACC-TTATGGC-ATATCTGAAATGGAAGCCTTTGTGGCAATCCATG
1 AAATGGAAGCCTTTGTGGCAATATATGAAATGAAAGCCTTTGTGGCTAT-C-TG
* * * *
27829626 AAATGAAAGCCTTTGTGGC-ATATCTGAAATGGAAGTCTTTGTGGCATATCTG
1 AAATGGAAGCCTTTGTGGCAATATATGAAATGAAAGCCTTTGTGGC-TATCTG
* *
27829678 AAATGGAAGCCTTTGTGGCAATCTATGAAAT-AGAAGCCTTTGTGCCATATCTG
1 AAATGGAAGCCTTTGTGGCAATATATGAAATGA-AAGCCTTTGTGGC-TATCTG
* * *
27829731 AAATGGAAGACTTTTTGGCAATCTATGAAATGAAAGCCTTTGTGG
1 AAATGGAAGCCTTTGTGGCAATATATGAAATGAAAGCCTTTGTGG
27829776 TGATCTATGG
Statistics
Matches: 223, Mismatches: 25, Indels: 16
0.84 0.09 0.06
Matches are distributed among these distances:
52 62 0.28
53 146 0.65
54 15 0.07
ACGTcount: A:0.31, C:0.15, G:0.24, T:0.30
Consensus pattern (52 bp):
AAATGGAAGCCTTTGTGGCAATATATGAAATGAAAGCCTTTGTGGCTATCTG
Found at i:27829630 original size:79 final size:78
Alignment explanation
Indices: 27829467--27829784 Score: 358
Period size: 79 Copynumber: 4.0 Consensus size: 78
27829457 ACATGCCAAA
* * * *
27829467 AAATGGAAGCCTTTGTAGCA-ATCTATGAAATGAAAG-TCTTTGCGGCGTATCTGAAATGGAAGC
1 AAATGGAAGCCTTTGTGGCATATC--TGAAATGGAAGACCTTT--GGCATATCTGAAATGGAAGC
* *
27829530 CTTTGTGGCAATATATC
62 CTTTGTGGCAATCTATG
27829547 AAATGGAAGCCTTTGTGGCA-ATCTATGAAATGGAA-ACCTTATGGCATATCTGAAATGGAAGCC
1 AAATGGAAGCCTTTGTGGCATATC--TGAAATGGAAGACCTT-TGGCATATCTGAAATGGAAGCC
*
27829610 TTTGTGGCAATCCATG
63 TTTGTGGCAATCTATG
* * *
27829626 AAATGAAAGCCTTTGTGGCATATCTGAAATGGAAGTCTTTGTGGCATATCTGAAATGGAAGCCTT
1 AAATGGAAGCCTTTGTGGCATATCTGAAATGGAAGACCTT-TGGCATATCTGAAATGGAAGCCTT
27829691 TGTGGCAATCTATG
65 TGTGGCAATCTATG
* * * *
27829705 AAATAGAAGCCTTTGTGCCATATCTGAAATGGAAGACTTTTTGGCA-ATCTATGAAATGAAAGCC
1 AAATGGAAGCCTTTGTGGCATATCTGAAATGGAAGAC-CTTTGGCATATC--TGAAATGGAAGCC
**
27829769 TTTGTGGTGATCTATG
63 TTTGTGGCAATCTATG
27829785 GAAAGGGTTA
Statistics
Matches: 212, Mismatches: 19, Indels: 14
0.87 0.08 0.06
Matches are distributed among these distances:
78 13 0.06
79 130 0.61
80 68 0.32
81 1 0.00
ACGTcount: A:0.31, C:0.15, G:0.24, T:0.31
Consensus pattern (78 bp):
AAATGGAAGCCTTTGTGGCATATCTGAAATGGAAGACCTTTGGCATATCTGAAATGGAAGCCTTT
GTGGCAATCTATG
Found at i:27829727 original size:132 final size:132
Alignment explanation
Indices: 27829467--27829775 Score: 478
Period size: 132 Copynumber: 2.3 Consensus size: 132
27829457 ACATGCCAAA
* * * *
27829467 AAATGGAAGCCTTTGTAGCAATCTATGAAATGAAAGTCTTTGCGGCGTATCTGAAATGGAAGCCT
1 AAATGGAAGCCTTTGTGGCAATCTATGAAATGAAAGCCTTTGTGGCATATCTGAAATGGAAGCCT
*
27829532 TTGTGGCAATATATCAAATGGAAGCCTTTGTGGCAATCTATGAAATGGAAACCTTATGGCATATC
66 TTGTGGCAATATATCAAATGGAAGCCTTTGTGGCAATCTATGAAATAGAAACCTTATGGCATATC
27829597 TG
131 TG
* *
27829599 AAATGGAAGCCTTTGTGGCAATCCATGAAATGAAAGCCTTTGTGGCATATCTGAAATGGAAGTCT
1 AAATGGAAGCCTTTGTGGCAATCTATGAAATGAAAGCCTTTGTGGCATATCTGAAATGGAAGCCT
* * *
27829664 TTGTGGC-ATATCTGAAATGGAAGCCTTTGTGGCAATCTATGAAATAGAAGCCTT-TGTGCCATA
66 TTGTGGCAATATATCAAATGGAAGCCTTTGTGGCAATCTATGAAATAGAAACCTTATG-G-CATA
27829727 TCTG
129 TCTG
* *
27829731 AAATGGAAGACTTTTTGGCAATCTATGAAATGAAAGCCTTTGTGG
1 AAATGGAAGCCTTTGTGGCAATCTATGAAATGAAAGCCTTTGTGG
27829776 TGATCTATGG
Statistics
Matches: 162, Mismatches: 13, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
130 2 0.01
131 44 0.27
132 116 0.72
ACGTcount: A:0.31, C:0.15, G:0.24, T:0.30
Consensus pattern (132 bp):
AAATGGAAGCCTTTGTGGCAATCTATGAAATGAAAGCCTTTGTGGCATATCTGAAATGGAAGCCT
TTGTGGCAATATATCAAATGGAAGCCTTTGTGGCAATCTATGAAATAGAAACCTTATGGCATATC
TG
Found at i:27829781 original size:27 final size:27
Alignment explanation
Indices: 27829467--27829784 Score: 343
Period size: 27 Copynumber: 12.0 Consensus size: 27
27829457 ACATGCCAAA
*
27829467 AAATGGAAGCCTTTGTAGCAATCTATG
1 AAATGGAAGCCTTTGTGGCAATCTATG
* * * *
27829494 AAATGAAAGTCTTTGCGGCGTATC--TG
1 AAATGGAAGCCTTTGTGGC-AATCTATG
* *
27829520 AAATGGAAGCCTTTGTGGCAATATATC
1 AAATGGAAGCCTTTGTGGCAATCTATG
27829547 AAATGGAAGCCTTTGTGGCAATCTATG
1 AAATGGAAGCCTTTGTGGCAATCTATG
* *
27829574 AAATGGAAACC-TTATGGCATATC--TG
1 AAATGGAAGCCTTTGTGGCA-ATCTATG
*
27829599 AAATGGAAGCCTTTGTGGCAATCCATG
1 AAATGGAAGCCTTTGTGGCAATCTATG
*
27829626 AAATGAAAGCCTTTGTGGCATATC--TG
1 AAATGGAAGCCTTTGTGGCA-ATCTATG
*
27829652 AAATGGAAGTCTTTGTGGCATATC--TG
1 AAATGGAAGCCTTTGTGGCA-ATCTATG
27829678 AAATGGAAGCCTTTGTGGCAATCTATG
1 AAATGGAAGCCTTTGTGGCAATCTATG
* *
27829705 AAATAGAAGCCTTTGTGCCATATC--TG
1 AAATGGAAGCCTTTGTGGCA-ATCTATG
* *
27829731 AAATGGAAGACTTTTTGGCAATCTATG
1 AAATGGAAGCCTTTGTGGCAATCTATG
* **
27829758 AAATGAAAGCCTTTGTGGTGATCTATG
1 AAATGGAAGCCTTTGTGGCAATCTATG
27829785 GAAAGGGTTA
Statistics
Matches: 246, Mismatches: 32, Indels: 26
0.81 0.11 0.09
Matches are distributed among these distances:
25 23 0.09
26 95 0.39
27 119 0.48
28 9 0.04
ACGTcount: A:0.31, C:0.15, G:0.24, T:0.31
Consensus pattern (27 bp):
AAATGGAAGCCTTTGTGGCAATCTATG
Found at i:27829968 original size:27 final size:27
Alignment explanation
Indices: 27829938--27830034 Score: 81
Period size: 27 Copynumber: 3.6 Consensus size: 27
27829928 AGACTGGATG
*
27829938 GTATGGCAAACACTAAAGGAATAGTAC
1 GTATGGCAAACACTGAAGGAATAGTAC
* *
27829965 GTATAG-AGAACATTGAAGGAAT-GATAC
1 GTATGGCA-AACACTGAAGGAATAG-TAC
* * * **
27829992 ATATGGCGAACACTGTAGGAATAGTGT
1 GTATGGCAAACACTGAAGGAATAGTAC
*
27830019 GTATGGCGAACACTGA
1 GTATGGCAAACACTGA
27830035 GAGAAATGGT
Statistics
Matches: 54, Mismatches: 12, Indels: 8
0.73 0.16 0.11
Matches are distributed among these distances:
26 2 0.04
27 51 0.94
28 1 0.02
ACGTcount: A:0.39, C:0.12, G:0.27, T:0.22
Consensus pattern (27 bp):
GTATGGCAAACACTGAAGGAATAGTAC
Found at i:27835103 original size:45 final size:45
Alignment explanation
Indices: 27835052--27835138 Score: 138
Period size: 45 Copynumber: 1.9 Consensus size: 45
27835042 TGTGAACCGA
* * *
27835052 ACATCATTGATTAGTAAAGTGGTTGCTATGTGCTGATTCCACTGG
1 ACATCATTGATTAATAAAGGGGTTGCTATGTGCTGAATCCACTGG
*
27835097 ACATCATTGATTAATAAGGGGGTTGCTATGTGCTGAATCCAC
1 ACATCATTGATTAATAAAGGGGTTGCTATGTGCTGAATCCAC
27835139 CGAGTATCTG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
45 38 1.00
ACGTcount: A:0.26, C:0.16, G:0.24, T:0.33
Consensus pattern (45 bp):
ACATCATTGATTAATAAAGGGGTTGCTATGTGCTGAATCCACTGG
Found at i:27837618 original size:153 final size:155
Alignment explanation
Indices: 27837451--27837761 Score: 608
Period size: 153 Copynumber: 2.0 Consensus size: 155
27837441 GTTTTAAAAT
27837451 AAACAATATATATAAGTATGAAATGTTTTCAAACTAAAGTAAAAAAAATAAACATTATGTAAAAT
1 AAACAATATATATAAGTATGAAATGTTTTCAAACTAAAGTAAAAAAAATAAACATTATGTAAAAT
27837516 AAATCATACATAATGAATTTTAAAATTAATGTATAATAAATCTAAAATGATAATATAATAAATTT
66 AAATCATACATAATGAATTTTAAAATTAATGTATAATAAATCTAAAATGATAATATAATAAATTT
27837581 ATAATACAAAT-AAAA-ACATAATA
131 ATAATACAAATAAAAATACATAATA
27837604 AAACAATATATATAAGTATGAAATGTTTTCAAACTAAAGTAAAAAAAATAAACATTATGTAAAAT
1 AAACAATATATATAAGTATGAAATGTTTTCAAACTAAAGTAAAAAAAATAAACATTATGTAAAAT
27837669 AAATCATACATAATGAATTTTAAAATTAATGTATAATAAATCTAAAATGATAATATAATAAATTT
66 AAATCATACATAATGAATTTTAAAATTAATGTATAATAAATCTAAAATGATAATATAATAAATTT
27837734 ATAATACAAATAAAAATACATAATA
131 ATAATACAAATAAAAATACATAATA
27837759 AAA
1 AAA
27837762 TATATGACAA
Statistics
Matches: 156, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
153 141 0.90
154 4 0.03
155 11 0.07
ACGTcount: A:0.58, C:0.06, G:0.05, T:0.31
Consensus pattern (155 bp):
AAACAATATATATAAGTATGAAATGTTTTCAAACTAAAGTAAAAAAAATAAACATTATGTAAAAT
AAATCATACATAATGAATTTTAAAATTAATGTATAATAAATCTAAAATGATAATATAATAAATTT
ATAATACAAATAAAAATACATAATA
Found at i:27837905 original size:3 final size:3
Alignment explanation
Indices: 27837885--27837971 Score: 70
Period size: 3 Copynumber: 29.3 Consensus size: 3
27837875 AATACTAAAT
* * * * * *
27837885 ATA ATA ATG ATA ACA ATA ATA AGA ATA AGT- ATA ATA ACA CTA ATG
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA A-TA ATA ATA ATA ATA ATA
* * *
27837930 ATA ATA ATA ATA AGA ATA TTA ATA A-A ATA ATA ATA AAA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
27837972 GGACTAATTT
Statistics
Matches: 63, Mismatches: 18, Indels: 6
0.72 0.21 0.07
Matches are distributed among these distances:
2 3 0.05
3 59 0.94
4 1 0.02
ACGTcount: A:0.63, C:0.03, G:0.06, T:0.28
Consensus pattern (3 bp):
ATA
Found at i:27839399 original size:35 final size:35
Alignment explanation
Indices: 27839331--27839451 Score: 172
Period size: 35 Copynumber: 3.5 Consensus size: 35
27839321 AGTACATCTA
* *
27839331 TAATCCAACCGAAACACACCAGATGCTCATAAGAGC
1 TAATCCATCCAAAACACACCA-ATGCTCATAAGAGC
* *
27839367 TAATCCATCCAGAACACATCAATGCTCATAAGAGC
1 TAATCCATCCAAAACACACCAATGCTCATAAGAGC
* *
27839402 TAATCCATCTAAAACACACCAATGCTCATAAGAGA
1 TAATCCATCCAAAACACACCAATGCTCATAAGAGC
27839437 T-ATCCATCCAAAACA
1 TAATCCATCCAAAACA
27839452 TGCCAAAACA
Statistics
Matches: 76, Mismatches: 9, Indels: 2
0.87 0.10 0.02
Matches are distributed among these distances:
34 13 0.17
35 46 0.61
36 17 0.22
ACGTcount: A:0.43, C:0.29, G:0.10, T:0.18
Consensus pattern (35 bp):
TAATCCATCCAAAACACACCAATGCTCATAAGAGC
Found at i:27842521 original size:51 final size:50
Alignment explanation
Indices: 27842462--27842646 Score: 203
Period size: 51 Copynumber: 3.7 Consensus size: 50
27842452 CCGGTTCACA
* *
27842462 TAGTAGCCTGCACATAGTACTACACATGTGACCATTTTCATCTGATACACG
1 TAGTAGCCTGCACATAGTACTACACACGTGACCA-TATCATCTGATACACG
* * * * *
27842513 TAGTAGCCTGCACATAGTACTACACACGTGATCGA-AGCTATCTGTTACGCA
1 TAGTAGCCTGCACATAGTACTACACACGTGA-CCATATC-ATCTGATACACG
* * * * *
27842564 TAGTAGCCTACACATAGTACTACACATGCGACC-TATCATTCCGGTACACG
1 TAGTAGCCTGCACATAGTACTACACACGTGACCATATCA-TCTGATACACG
*
27842614 TAGTATCCTGCACATAGTACTACACACGTGACC
1 TAGTAGCCTGCACATAGTACTACACACGTGACC
27842647 TAGCAACTTC
Statistics
Matches: 110, Mismatches: 20, Indels: 9
0.79 0.14 0.06
Matches are distributed among these distances:
49 1 0.01
50 40 0.36
51 67 0.61
52 2 0.02
ACGTcount: A:0.30, C:0.28, G:0.17, T:0.26
Consensus pattern (50 bp):
TAGTAGCCTGCACATAGTACTACACACGTGACCATATCATCTGATACACG
Found at i:27842637 original size:101 final size:101
Alignment explanation
Indices: 27842460--27842644 Score: 291
Period size: 101 Copynumber: 1.8 Consensus size: 101
27842450 ACCCGGTTCA
* * * *
27842460 CATAGTAGCCTGCACATAGTACTACACATGTGACCATTTTCATCTGATACACGTAGTAGCCTGCA
1 CATAGTAGCCTACACATAGTACTACACATGCGACCA-TATCATCCGATACACGTAGTAGCCTGCA
27842525 CATAGTACTACACACGTGATCGAAGCTATCTGTTACG
65 CATAGTACTACACACGTGATCGAAGCTATCTGTTACG
* *
27842562 CATAGTAGCCTACACATAGTACTACACATGCGACC-TATCATTCCGGTACACGTAGTATCCTGCA
1 CATAGTAGCCTACACATAGTACTACACATGCGACCATATCA-TCCGATACACGTAGTAGCCTGCA
27842626 CATAGTACTACACACGTGA
65 CATAGTACTACACACGTGA
27842645 CCTAGCAACT
Statistics
Matches: 76, Mismatches: 6, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
100 4 0.05
101 39 0.51
102 33 0.43
ACGTcount: A:0.30, C:0.27, G:0.17, T:0.26
Consensus pattern (101 bp):
CATAGTAGCCTACACATAGTACTACACATGCGACCATATCATCCGATACACGTAGTAGCCTGCAC
ATAGTACTACACACGTGATCGAAGCTATCTGTTACG
Found at i:27847546 original size:26 final size:28
Alignment explanation
Indices: 27847499--27847557 Score: 79
Period size: 26 Copynumber: 2.2 Consensus size: 28
27847489 AAAGTGCATC
*
27847499 AAAATTTTCATATAATATAACATACTTA-
1 AAAATTTTCATATAAAATAACATA-TTAT
27847527 AAAATTTT-A-ATAAAATAACATATTAT
1 AAAATTTTCATATAAAATAACATATTAT
27847553 AAAAT
1 AAAAT
27847558 AAGAAAATGG
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
25 3 0.10
26 17 0.59
27 1 0.03
28 8 0.28
ACGTcount: A:0.56, C:0.07, G:0.00, T:0.37
Consensus pattern (28 bp):
AAAATTTTCATATAAAATAACATATTAT
Found at i:27847727 original size:197 final size:197
Alignment explanation
Indices: 27847392--27847782 Score: 782
Period size: 197 Copynumber: 2.0 Consensus size: 197
27847382 TTAAAATAAA
27847392 TAACTTAAATATATTTTAAGATTTACATTATAATATTATATAATTAATTTTCAAATAATAACATA
1 TAACTTAAATATATTTTAAGATTTACATTATAATATTATATAATTAATTTTCAAATAATAACATA
27847457 GTTACGGTTTGAAGGTTTTAATGGTGATTAAAAAAGTGCATCAAAATTTTCATATAATATAACAT
66 GTTACGGTTTGAAGGTTTTAATGGTGATTAAAAAAGTGCATCAAAATTTTCATATAATATAACAT
27847522 ACTTAAAAATTTTAATAAAATAACATATTATAAAATAAGAAAATGGGTCTAATCCATCTATGTTA
131 ACTTAAAAATTTTAATAAAATAACATATTATAAAATAAGAAAATGGGTCTAATCCATCTATGTTA
27847587 AT
196 AT
27847589 TAACTTAAATATATTTTAAGATTTACATTATAATATTATATAATTAATTTTCAAATAATAACATA
1 TAACTTAAATATATTTTAAGATTTACATTATAATATTATATAATTAATTTTCAAATAATAACATA
27847654 GTTACGGTTTGAAGGTTTTAATGGTGATTAAAAAAGTGCATCAAAATTTTCATATAATATAACAT
66 GTTACGGTTTGAAGGTTTTAATGGTGATTAAAAAAGTGCATCAAAATTTTCATATAATATAACAT
27847719 ACTTAAAAATTTTAATAAAATAACATATTATAAAATAAGAAAATGGGTCTAATCCATCTATGTT
131 ACTTAAAAATTTTAATAAAATAACATATTATAAAATAAGAAAATGGGTCTAATCCATCTATGTT
27847783 TAGGCTTTCA
Statistics
Matches: 194, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
197 194 1.00
ACGTcount: A:0.45, C:0.08, G:0.09, T:0.39
Consensus pattern (197 bp):
TAACTTAAATATATTTTAAGATTTACATTATAATATTATATAATTAATTTTCAAATAATAACATA
GTTACGGTTTGAAGGTTTTAATGGTGATTAAAAAAGTGCATCAAAATTTTCATATAATATAACAT
ACTTAAAAATTTTAATAAAATAACATATTATAAAATAAGAAAATGGGTCTAATCCATCTATGTTA
AT
Found at i:27847743 original size:26 final size:28
Alignment explanation
Indices: 27847696--27847754 Score: 79
Period size: 26 Copynumber: 2.2 Consensus size: 28
27847686 AAAGTGCATC
*
27847696 AAAATTTTCATATAATATAACATACTTA-
1 AAAATTTTCATATAAAATAACATA-TTAT
27847724 AAAATTTT-A-ATAAAATAACATATTAT
1 AAAATTTTCATATAAAATAACATATTAT
27847750 AAAAT
1 AAAAT
27847755 AAGAAAATGG
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
25 3 0.10
26 17 0.59
27 1 0.03
28 8 0.28
ACGTcount: A:0.56, C:0.07, G:0.00, T:0.37
Consensus pattern (28 bp):
AAAATTTTCATATAAAATAACATATTAT
Found at i:27848583 original size:13 final size:13
Alignment explanation
Indices: 27848565--27848606 Score: 59
Period size: 13 Copynumber: 3.2 Consensus size: 13
27848555 CAGTTAATAA
27848565 AAATCAGTTAGTC
1 AAATCAGTTAGTC
*
27848578 AAATCAGTTAAT-
1 AAATCAGTTAGTC
27848590 AGAATCAGTTAGTC
1 A-AATCAGTTAGTC
27848604 AAA
1 AAA
27848607 CCAGCAATTA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
12 1 0.04
13 23 0.92
14 1 0.04
ACGTcount: A:0.45, C:0.12, G:0.14, T:0.29
Consensus pattern (13 bp):
AAATCAGTTAGTC
Found at i:27848600 original size:26 final size:27
Alignment explanation
Indices: 27848555--27848606 Score: 88
Period size: 26 Copynumber: 2.0 Consensus size: 27
27848545 TTTAAATAAA
27848555 CAGTTAATAAAAATCAGTTAGTCAAAT
1 CAGTTAATAAAAATCAGTTAGTCAAAT
*
27848582 CAGTTAAT-AGAATCAGTTAGTCAAA
1 CAGTTAATAAAAATCAGTTAGTCAAA
27848607 CCAGCAATTA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
26 16 0.67
27 8 0.33
ACGTcount: A:0.46, C:0.12, G:0.13, T:0.29
Consensus pattern (27 bp):
CAGTTAATAAAAATCAGTTAGTCAAAT
Found at i:27848621 original size:26 final size:26
Alignment explanation
Indices: 27848566--27848622 Score: 71
Period size: 26 Copynumber: 2.2 Consensus size: 26
27848556 AGTTAATAAA
* * *
27848566 AATCAGTTAGTCAAATCAGTTAATAG
1 AATCAGTTAGTCAAACCAGTCAATAC
27848592 AATCAGTTAGTCAAACCAG-CAATTAC
1 AATCAGTTAGTCAAACCAGTCAA-TAC
27848618 AATCA
1 AATCA
27848623 ACTATCAGCC
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
25 2 0.07
26 25 0.93
ACGTcount: A:0.44, C:0.18, G:0.12, T:0.26
Consensus pattern (26 bp):
AATCAGTTAGTCAAACCAGTCAATAC
Found at i:27848871 original size:20 final size:20
Alignment explanation
Indices: 27848826--27848874 Score: 66
Period size: 19 Copynumber: 2.5 Consensus size: 20
27848816 TTTGTAATGG
*
27848826 TTATATCTTAATACTTAAAA
1 TTATATTTTAATACTTAAAA
27848846 -TATATTTTATATA-TTAAAA
1 TTATATTTTA-ATACTTAAAA
27848865 TTATATTTTA
1 TTATATTTTA
27848875 GAAATAATTA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
19 14 0.54
20 12 0.46
ACGTcount: A:0.43, C:0.04, G:0.00, T:0.53
Consensus pattern (20 bp):
TTATATTTTAATACTTAAAA
Found at i:27851666 original size:6 final size:7
Alignment explanation
Indices: 27851649--27851676 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
27851639 TAACAAACCA
27851649 AAAAAAG
1 AAAAAAG
27851656 AAAAAAG
1 AAAAAAG
27851663 AAAAAAG
1 AAAAAAG
27851670 AAAAAAG
1 AAAAAAG
27851677 TGTGATATTC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (7 bp):
AAAAAAG
Found at i:27855008 original size:8 final size:8
Alignment explanation
Indices: 27854995--27855019 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
27854985 ATAGATACAA
27854995 TTTTTAAT
1 TTTTTAAT
27855003 TTTTTAAT
1 TTTTTAAT
27855011 TTTTTAAT
1 TTTTTAAT
27855019 T
1 T
27855020 CCTTTCAGGT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (8 bp):
TTTTTAAT
Found at i:27858387 original size:10 final size:11
Alignment explanation
Indices: 27858367--27858395 Score: 51
Period size: 10 Copynumber: 2.7 Consensus size: 11
27858357 TAAATTGACC
27858367 AAAAATCAAGG
1 AAAAATCAAGG
27858378 AAAAAT-AAGG
1 AAAAATCAAGG
27858388 AAAAATCA
1 AAAAATCA
27858396 GCTCAACTTG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
10 10 0.59
11 7 0.41
ACGTcount: A:0.69, C:0.07, G:0.14, T:0.10
Consensus pattern (11 bp):
AAAAATCAAGG
Found at i:27858887 original size:15 final size:14
Alignment explanation
Indices: 27858863--27858893 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 14
27858853 TTCATGTTTA
27858863 TAATGTTTGTGCCT
1 TAATGTTTGTGCCT
27858877 TAATCGTTTGTGCCT
1 TAAT-GTTTGTGCCT
27858892 TA
1 TA
27858894 GTCGATCAGG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 4 0.25
15 12 0.75
ACGTcount: A:0.16, C:0.16, G:0.19, T:0.48
Consensus pattern (14 bp):
TAATGTTTGTGCCT
Found at i:27867412 original size:30 final size:30
Alignment explanation
Indices: 27867366--27867423 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
27867356 TTTGAGCTTT
27867366 GGGGCAAAAGTGTAATTATGTAAAAGTTTA
1 GGGGCAAAAGTGTAATTATGTAAAAGTTTA
* * * *
27867396 GGGGTAAAATTGTAATTTTGTCAAAGTT
1 GGGGCAAAAGTGTAATTATGTAAAAGTT
27867424 AGAGCCGAGG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.36, C:0.03, G:0.26, T:0.34
Consensus pattern (30 bp):
GGGGCAAAAGTGTAATTATGTAAAAGTTTA
Found at i:27867658 original size:13 final size:13
Alignment explanation
Indices: 27867636--27867666 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
27867626 TTTCCAAAAA
*
27867636 TTATGCATTTATT
1 TTATGAATTTATT
27867649 TTATGAATTTATT
1 TTATGAATTTATT
27867662 TTATG
1 TTATG
27867667 TTGACTCCAG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.26, C:0.03, G:0.10, T:0.61
Consensus pattern (13 bp):
TTATGAATTTATT
Found at i:27867893 original size:50 final size:50
Alignment explanation
Indices: 27867762--27867954 Score: 224
Period size: 50 Copynumber: 3.8 Consensus size: 50
27867752 ATTTGGGTAA
* ** *
27867762 AGAGGTCCCATGTAAGACCATGTCTGGTACACAGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCAAGATG
*
27867812 AGAGGTCCCATGTAAGAGCATGTCTGGGACATGGCGTTGGCACCAAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCAAGATG
** * * ** *
27867862 AGAGGTCCCCCGTAAGACCATGTCTGGGACATGGCATGGGCACTGATATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCAAGATG
** * * *
27867912 AGAACATCCCATGTAAGACCATATCTGGGAGATGGCTTTGGCA
1 AG-AGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA
27867955 TGTTATTATC
Statistics
Matches: 121, Mismatches: 21, Indels: 1
0.85 0.15 0.01
Matches are distributed among these distances:
50 89 0.74
51 32 0.26
ACGTcount: A:0.26, C:0.22, G:0.31, T:0.21
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCAAGATG
Found at i:27874332 original size:82 final size:82
Alignment explanation
Indices: 27874192--27874355 Score: 310
Period size: 82 Copynumber: 2.0 Consensus size: 82
27874182 GTGAGTTGAT
* *
27874192 GGATTAGCGAGGGATGATGGAATGAGAAGTGAGGGTTGGTATTTGTAGTAGAGGGATGGCATAGG
1 GGATTAGCGAGGGATGATGGAATGAGAAGTGAGGGTTGGTATTTATAGTAGAGAGATGGCATAGG
27874257 AGTTTATTAAAAATAGC
66 AGTTTATTAAAAATAGC
27874274 GGATTAGCGAGGGATGATGGAATGAGAAGTGAGGGTTGGTATTTATAGTAGAGAGATGGCATAGG
1 GGATTAGCGAGGGATGATGGAATGAGAAGTGAGGGTTGGTATTTATAGTAGAGAGATGGCATAGG
27874339 AGTTTATTAAAAATAGC
66 AGTTTATTAAAAATAGC
27874356 TTGGAGATCC
Statistics
Matches: 80, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
82 80 1.00
ACGTcount: A:0.33, C:0.04, G:0.37, T:0.27
Consensus pattern (82 bp):
GGATTAGCGAGGGATGATGGAATGAGAAGTGAGGGTTGGTATTTATAGTAGAGAGATGGCATAGG
AGTTTATTAAAAATAGC
Found at i:27896911 original size:20 final size:20
Alignment explanation
Indices: 27896888--27896934 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
27896878 GGGTTGAGGT
27896888 TGAGCTGAATTCAACTCGAA
1 TGAGCTGAATTCAACTCGAA
* * * *
27896908 TGAGCTGACTTGAGCTCGAG
1 TGAGCTGAATTCAACTCGAA
27896928 TGAGCTG
1 TGAGCTG
27896935 GAAACGAGCT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.26, C:0.19, G:0.30, T:0.26
Consensus pattern (20 bp):
TGAGCTGAATTCAACTCGAA
Found at i:27910677 original size:15 final size:16
Alignment explanation
Indices: 27910644--27910677 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
27910634 TTATTCTATT
27910644 TTTCTTCACCTACTCC
1 TTTCTTCACCTACTCC
*
27910660 TTTCTTCCCCTA-TCC
1 TTTCTTCACCTACTCC
27910675 TTT
1 TTT
27910678 GCCAAACCAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 6 0.35
16 11 0.65
ACGTcount: A:0.09, C:0.41, G:0.00, T:0.50
Consensus pattern (16 bp):
TTTCTTCACCTACTCC
Found at i:27911976 original size:22 final size:22
Alignment explanation
Indices: 27911951--27911995 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 22
27911941 ATTATGATGA
27911951 TTGATATG-ATGAGATTGATATT
1 TTGATATGTATGAGATT-ATATT
*
27911973 TTGATATGTATGTGATTATATT
1 TTGATATGTATGAGATTATATT
27911995 T
1 T
27911996 GTGTTGATCT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 14 0.67
23 7 0.33
ACGTcount: A:0.29, C:0.00, G:0.20, T:0.51
Consensus pattern (22 bp):
TTGATATGTATGAGATTATATT
Found at i:27918852 original size:14 final size:14
Alignment explanation
Indices: 27918833--27918859 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
27918823 CTAAAAATAA
27918833 AATTAAAGAAAAGG
1 AATTAAAGAAAAGG
27918847 AATTAAAGAAAAG
1 AATTAAAGAAAAG
27918860 AAAGATGAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.67, C:0.00, G:0.19, T:0.15
Consensus pattern (14 bp):
AATTAAAGAAAAGG
Found at i:27927709 original size:15 final size:16
Alignment explanation
Indices: 27927691--27927724 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
27927681 AGATTAAATT
27927691 AATTAA-CTAAATGCA
1 AATTAACCTAAATGCA
27927706 AATTAACCTAAATGCA
1 AATTAACCTAAATGCA
27927722 AAT
1 AAT
27927725 GAGATGAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 6 0.33
16 12 0.67
ACGTcount: A:0.53, C:0.15, G:0.06, T:0.26
Consensus pattern (16 bp):
AATTAACCTAAATGCA
Found at i:27928112 original size:35 final size:35
Alignment explanation
Indices: 27928066--27928135 Score: 131
Period size: 35 Copynumber: 2.0 Consensus size: 35
27928056 ATAGATATAA
*
27928066 TTTGGTTAAGTTATTAGAGTTAAGCTTGATTAATG
1 TTTGGTCAAGTTATTAGAGTTAAGCTTGATTAATG
27928101 TTTGGTCAAGTTATTAGAGTTAAGCTTGATTAATG
1 TTTGGTCAAGTTATTAGAGTTAAGCTTGATTAATG
27928136 CTAAAGCAAA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.29, C:0.04, G:0.23, T:0.44
Consensus pattern (35 bp):
TTTGGTCAAGTTATTAGAGTTAAGCTTGATTAATG
Found at i:27935044 original size:16 final size:16
Alignment explanation
Indices: 27935023--27935054 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
27935013 TCTTTCTTAA
27935023 CAACTTCCTTCATGAT
1 CAACTTCCTTCATGAT
27935039 CAACTTCCTTCATGAT
1 CAACTTCCTTCATGAT
27935055 GGGATTCAAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.25, C:0.31, G:0.06, T:0.38
Consensus pattern (16 bp):
CAACTTCCTTCATGAT
Found at i:27942697 original size:14 final size:14
Alignment explanation
Indices: 27942678--27942714 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
27942668 CTATACAGAA
27942678 ATCTTACAGTAAAC
1 ATCTTACAGTAAAC
*
27942692 ATCTTACAATAAAC
1 ATCTTACAGTAAAC
27942706 ATCTTACAG
1 ATCTTACAG
27942715 AAATCTTAAC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.43, C:0.22, G:0.05, T:0.30
Consensus pattern (14 bp):
ATCTTACAGTAAAC
Found at i:27948372 original size:26 final size:26
Alignment explanation
Indices: 27948342--27948402 Score: 79
Period size: 26 Copynumber: 2.3 Consensus size: 26
27948332 CATAACATCA
27948342 TTTTAATTTCTTTTGTAACTCC-TAT
1 TTTTAATTTCTTTTGTAACTCCATAT
* *
27948367 TCTTTATTTTGTTTTGTAACTCCATAT
1 T-TTTAATTTCTTTTGTAACTCCATAT
*
27948394 TTTAAATTT
1 TTTTAATTT
27948403 GAAAAGGGTA
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
25 1 0.03
26 25 0.83
27 4 0.13
ACGTcount: A:0.21, C:0.13, G:0.05, T:0.61
Consensus pattern (26 bp):
TTTTAATTTCTTTTGTAACTCCATAT
Found at i:27949572 original size:22 final size:22
Alignment explanation
Indices: 27949544--27949588 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
27949534 CCTTGTGGAA
27949544 AAGGTTAGAAACTCTTTATGCG
1 AAGGTTAGAAACTCTTTATGCG
27949566 AAGGTTAGAAACTCTTTATGCG
1 AAGGTTAGAAACTCTTTATGCG
27949588 A
1 A
27949589 CTAAGTCTCT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.33, C:0.13, G:0.22, T:0.31
Consensus pattern (22 bp):
AAGGTTAGAAACTCTTTATGCG
Found at i:27950703 original size:21 final size:21
Alignment explanation
Indices: 27950642--27950709 Score: 63
Period size: 20 Copynumber: 3.4 Consensus size: 21
27950632 TGCTTATACA
*
27950642 GGCACAAATGTGC--TTTAGG
1 GGCACCAATGTGCAATTTAGG
* *
27950661 AGCACCGAA-GTGCAA-ATAGG
1 GGCACC-AATGTGCAATTTAGG
27950681 GGCACCAATGTGCAATTTAGG
1 GGCACCAATGTGCAATTTAGG
*
27950702 GGTACCAA
1 GGCACCAA
27950710 AGTACAAACA
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
19 10 0.26
20 17 0.45
21 11 0.29
ACGTcount: A:0.32, C:0.19, G:0.29, T:0.19
Consensus pattern (21 bp):
GGCACCAATGTGCAATTTAGG
Found at i:27950932 original size:2 final size:2
Alignment explanation
Indices: 27950925--27950950 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
27950915 GTAATTTCAC
27950925 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
27950951 CAATTAAGTA
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:27957238 original size:1 final size:1
Alignment explanation
Indices: 27957232--27957257 Score: 52
Period size: 1 Copynumber: 26.0 Consensus size: 1
27957222 AACCAAAGCA
27957232 CCCCCCCCCCCCCCCCCCCCCCCCCC
1 CCCCCCCCCCCCCCCCCCCCCCCCCC
27957258 NNNNNNNNNN
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 25 1.00
ACGTcount: A:0.00, C:1.00, G:0.00, T:0.00
Consensus pattern (1 bp):
C
Found at i:27973858 original size:24 final size:24
Alignment explanation
Indices: 27973831--27973889 Score: 68
Period size: 23 Copynumber: 2.5 Consensus size: 24
27973821 CGATAACAAT
*
27973831 ATGCAGAAAATTTTGCCAGTAAAA
1 ATGCAGAAAATTCTGCCAGTAAAA
* *
27973855 ATGCAGACAA-GCTGCCAGTAAAA
1 ATGCAGAAAATTCTGCCAGTAAAA
27973878 ATGC-GATAAATT
1 ATGCAGA-AAATT
27973890 GCCATTTCCC
Statistics
Matches: 28, Mismatches: 5, Indels: 4
0.76 0.14 0.11
Matches are distributed among these distances:
22 2 0.07
23 17 0.61
24 9 0.32
ACGTcount: A:0.44, C:0.15, G:0.19, T:0.22
Consensus pattern (24 bp):
ATGCAGAAAATTCTGCCAGTAAAA
Found at i:27977012 original size:65 final size:65
Alignment explanation
Indices: 27976911--27977756 Score: 1692
Period size: 65 Copynumber: 13.0 Consensus size: 65
27976901 TGACAAGTAA
27976911 ATTATTATTATTATTATTATTTTAATGTCTATGGGATGTTAGTAAGGTCATATTAAAATTTCATT
1 ATTATTATTATTATTATTATTTTAATGTCTATGGGATGTTAGTAAGGTCATATTAAAATTTCATT
27976976 ATTATTATTATTATTATTATTTTAATGTCTATGGGATGTTAGTAAGGTCATATTAAAATTTCATT
1 ATTATTATTATTATTATTATTTTAATGTCTATGGGATGTTAGTAAGGTCATATTAAAATTTCATT
27977041 ATTATTATTATTATTATTATTTTAATGTCTATGGGATGTTAGTAAGGTCATATTAAAATTTCATT
1 ATTATTATTATTATTATTATTTTAATGTCTATGGGATGTTAGTAAGGTCATATTAAAATTTCATT
27977106 ATTATTATTATTATTATTATTTTAATGTCTATGGGATGTTAGTAAGGTCATATTAAAATTTCATT
1 ATTATTATTATTATTATTATTTTAATGTCTATGGGATGTTAGTAAGGTCATATTAAAATTTCATT
27977171 ATTATTATTATTATTATTATTTTAATGTCTATGGGATGTTAGTAAGGTCATATTAAAATTTCATT
1 ATTATTATTATTATTATTATTTTAATGTCTATGGGATGTTAGTAAGGTCATATTAAAATTTCATT
27977236 ATTATTATTATTATTATTATTTTAATGTCTATGGGATGTTAGTAAGGTCATATTAAAATTTCATT
1 ATTATTATTATTATTATTATTTTAATGTCTATGGGATGTTAGTAAGGTCATATTAAAATTTCATT
27977301 ATTATTATTATTATTATTATTTTAATGTCTATGGGATGTTAGTAAGGTCATATTAAAATTTCATT
1 ATTATTATTATTATTATTATTTTAATGTCTATGGGATGTTAGTAAGGTCATATTAAAATTTCATT
27977366 ATTATTATTATTATTATTATTTTAATGTCTATGGGATGTTAGTAAGGTCATATTAAAATTTCATT
1 ATTATTATTATTATTATTATTTTAATGTCTATGGGATGTTAGTAAGGTCATATTAAAATTTCATT
27977431 ATTATTATTATTATTATTATTTTAATGTCTATGGGATGTTAGTAAGGTCATATTAAAATTTCATT
1 ATTATTATTATTATTATTATTTTAATGTCTATGGGATGTTAGTAAGGTCATATTAAAATTTCATT
27977496 ATTATTATTATTATTATTATTTTAATGTCTATGGGATGTTAGTAAGGTCATATTAAAATTTCATT
1 ATTATTATTATTATTATTATTTTAATGTCTATGGGATGTTAGTAAGGTCATATTAAAATTTCATT
27977561 ATTATTATTATTATTATTATTTTAATGTCTATGGGATGTTAGTAAGGTCATATTAAAATTTCATT
1 ATTATTATTATTATTATTATTTTAATGTCTATGGGATGTTAGTAAGGTCATATTAAAATTTCATT
27977626 ATTATTATTATTATTATTATTTTAATGTCTATGGGATGTTAGTAAGGTCATATTAAAATTTCATT
1 ATTATTATTATTATTATTATTTTAATGTCTATGGGATGTTAGTAAGGTCATATTAAAATTTCATT
27977691 ATTATTATTATTATTATTATTTTAATGTCTATGGGATGTTAGTAAGGTCATATTAAAATTTCATT
1 ATTATTATTATTATTATTATTTTAATGTCTATGGGATGTTAGTAAGGTCATATTAAAATTTCATT
27977756 A
1 A
27977757 AGAAATTTTG
Statistics
Matches: 781, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
65 781 1.00
ACGTcount: A:0.32, C:0.05, G:0.12, T:0.51
Consensus pattern (65 bp):
ATTATTATTATTATTATTATTTTAATGTCTATGGGATGTTAGTAAGGTCATATTAAAATTTCATT
Found at i:27982625 original size:216 final size:218
Alignment explanation
Indices: 27982246--27982677 Score: 841
Period size: 216 Copynumber: 2.0 Consensus size: 218
27982236 ATTTTTGTCT
*
27982246 AAAAGGTTAACCAATGGTCTAATTACCATTTAAGGACCTCCAATTTAAAATTTCATAACAATTGG
1 AAAAAGTTAACCAATGGTCTAATTACCATTTAAGGACCTCCAATTTAAAATTTCATAACAATTGG
27982311 ACACTCCTAACATGTAGAACTCAACTTTTGCACTTTTTATAATTTAGTTCTTTTGGTTAAATTGA
66 ACACTCCTAACATGTAGAACTCAACTTTTGCACTTTTTATAATTTAGTTCTTTTGGTTAAATTGA
27982376 GTGCCCAAACGACAAAATTTTTGAACGAAATTTTCAAGAAATCATTCCGTGAAATTGTAGA-CAT
131 GTGCCCAAACGACAAAATTTTTGAACGAAATTTTCAAGAAATCATTCCGTGAAATTGTAGACCAT
27982440 AAAAATATAA-AAAAAATTAACC
196 AAAAATATAATAAAAAATTAACC
27982462 AAAAAGTTAACCAATGGTCTAATTACCATTTAAGGACCTCCAATTTAAAATTTCATAACAATTGG
1 AAAAAGTTAACCAATGGTCTAATTACCATTTAAGGACCTCCAATTTAAAATTTCATAACAATTGG
27982527 ACACTCCTAACATGTAGAACTCAACTTTTGCACTTTTTATAATTTAGTTCTTTTGGTTAAATTGA
66 ACACTCCTAACATGTAGAACTCAACTTTTGCACTTTTTATAATTTAGTTCTTTTGGTTAAATTGA
27982592 GTGCCCAAACGACAAAATTTTTGAACGAAATTTTCAAGAAATCATTCCGTGAAATTGTAGACCAT
131 GTGCCCAAACGACAAAATTTTTGAACGAAATTTTCAAGAAATCATTCCGTGAAATTGTAGACCAT
27982657 AAAAATATAATAAAAAATTAA
196 AAAAATATAATAAAAAATTAA
27982678 TTTTTCCTCG
Statistics
Matches: 213, Mismatches: 1, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
216 190 0.89
217 13 0.06
218 10 0.05
ACGTcount: A:0.40, C:0.16, G:0.11, T:0.33
Consensus pattern (218 bp):
AAAAAGTTAACCAATGGTCTAATTACCATTTAAGGACCTCCAATTTAAAATTTCATAACAATTGG
ACACTCCTAACATGTAGAACTCAACTTTTGCACTTTTTATAATTTAGTTCTTTTGGTTAAATTGA
GTGCCCAAACGACAAAATTTTTGAACGAAATTTTCAAGAAATCATTCCGTGAAATTGTAGACCAT
AAAAATATAATAAAAAATTAACC
Found at i:27990382 original size:19 final size:19
Alignment explanation
Indices: 27990355--27990393 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
27990345 TTATTCCAGC
27990355 AACTAAATTAACTAAGATG
1 AACTAAATTAACTAAGATG
*
27990374 AACTTAATTAACTAAGATG
1 AACTAAATTAACTAAGATG
27990393 A
1 A
27990394 GTAATTTATT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.51, C:0.10, G:0.10, T:0.28
Consensus pattern (19 bp):
AACTAAATTAACTAAGATG
Found at i:27990405 original size:54 final size:54
Alignment explanation
Indices: 27990345--27990470 Score: 207
Period size: 54 Copynumber: 2.3 Consensus size: 54
27990335 CAACAATAAA
* * *
27990345 TTATTCCAGCAACTAAATTAACTAAGATGAACTTAATTAACTAAGATGAGTAAT
1 TTATTCCAGCAACTAAATTAAATAAGATAAACTCAATTAACTAAGATGAGTAAT
*
27990399 TTATTCCAGCAACTTAATTAAATAAGATAAACTCAATTAACTAAGATGAGTAAT
1 TTATTCCAGCAACTAAATTAAATAAGATAAACTCAATTAACTAAGATGAGTAAT
*
27990453 TTATTCCAACAACTAAAT
1 TTATTCCAGCAACTAAAT
27990471 ACTTATTCCA
Statistics
Matches: 66, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
54 66 1.00
ACGTcount: A:0.45, C:0.14, G:0.09, T:0.32
Consensus pattern (54 bp):
TTATTCCAGCAACTAAATTAAATAAGATAAACTCAATTAACTAAGATGAGTAAT
Found at i:27990436 original size:19 final size:19
Alignment explanation
Indices: 27990409--27990445 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
27990399 TTATTCCAGC
*
27990409 AACTTAATTAAATAAGATA
1 AACTCAATTAAATAAGATA
*
27990428 AACTCAATTAACTAAGAT
1 AACTCAATTAAATAAGAT
27990446 GAGTAATTTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.54, C:0.11, G:0.05, T:0.30
Consensus pattern (19 bp):
AACTCAATTAAATAAGATA
Found at i:27994458 original size:19 final size:19
Alignment explanation
Indices: 27994431--27994523 Score: 79
Period size: 19 Copynumber: 5.1 Consensus size: 19
27994421 TTGTTTTAGC
*
27994431 AACTAAATTAACTAAGATG
1 AACTTAATTAACTAAGATG
27994450 AACTTAATTAACTAAGATG
1 AACTTAATTAACTAAGATG
* * * *
27994469 -A-GTAA-TATATTCCAG--C
1 AACTTAATTA-ACT-AAGATG
27994485 AACTTAATTAACTAAGATG
1 AACTTAATTAACTAAGATG
*
27994504 AACTCAATTAACTAAGATG
1 AACTTAATTAACTAAGATG
27994523 A
1 A
27994524 GTAATTTATT
Statistics
Matches: 57, Mismatches: 10, Indels: 14
0.70 0.12 0.17
Matches are distributed among these distances:
16 2 0.04
17 8 0.14
18 8 0.14
19 39 0.68
ACGTcount: A:0.47, C:0.13, G:0.11, T:0.29
Consensus pattern (19 bp):
AACTTAATTAACTAAGATG
Found at i:27994488 original size:54 final size:54
Alignment explanation
Indices: 27994428--27994546 Score: 202
Period size: 54 Copynumber: 2.2 Consensus size: 54
27994418 AAATTGTTTT
*
27994428 AGCAACTAAATTAACTAAGATGAACTTAATTAACTAAGATGAGTAATATATTCC
1 AGCAACTAAATTAACTAAGATGAACTCAATTAACTAAGATGAGTAATATATTCC
* *
27994482 AGCAACTTAATTAACTAAGATGAACTCAATTAACTAAGATGAGTAATTTATTCC
1 AGCAACTAAATTAACTAAGATGAACTCAATTAACTAAGATGAGTAATATATTCC
*
27994536 AACAACTAAAT
1 AGCAACTAAAT
27994547 ACTTATTCCA
Statistics
Matches: 60, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
54 60 1.00
ACGTcount: A:0.46, C:0.14, G:0.10, T:0.29
Consensus pattern (54 bp):
AGCAACTAAATTAACTAAGATGAACTCAATTAACTAAGATGAGTAATATATTCC
Found at i:28023480 original size:13 final size:13
Alignment explanation
Indices: 28023464--28023492 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
28023454 TGATGATGAT
28023464 ATGATATGATAGC
1 ATGATATGATAGC
28023477 ATGATATGATAGC
1 ATGATATGATAGC
28023490 ATG
1 ATG
28023493 TTTAAAATGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.38, C:0.07, G:0.24, T:0.31
Consensus pattern (13 bp):
ATGATATGATAGC
Found at i:28031814 original size:30 final size:30
Alignment explanation
Indices: 28031757--28031818 Score: 81
Period size: 30 Copynumber: 2.1 Consensus size: 30
28031747 GTTTTTTGAA
* * *
28031757 AATATTTACAAAAAGATGCATCTAATTTTT
1 AATATTTACAAAAAGATGAACCAAATTTTT
28031787 AATATTTACAAAAAGA-GAAACCAAATTTTT
1 AATATTTACAAAAAGATG-AACCAAATTTTT
28031817 AA
1 AA
28031819 AAATAATTCA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
29 1 0.04
30 27 0.96
ACGTcount: A:0.50, C:0.10, G:0.06, T:0.34
Consensus pattern (30 bp):
AATATTTACAAAAAGATGAACCAAATTTTT
Found at i:28040045 original size:20 final size:20
Alignment explanation
Indices: 28039985--28040046 Score: 52
Period size: 20 Copynumber: 3.0 Consensus size: 20
28039975 TACTCATTAG
* * *
28039985 AACATATTTAATAGACTTAA
1 AACATATTTAACACACATAA
* **
28040005 GACATATTAATAACATGCATAA
1 AACATATT--TAACACACATAA
28040027 AACATATTTAACACACATAA
1 AACATATTTAACACACATAA
28040047 TTAAATTTGT
Statistics
Matches: 32, Mismatches: 8, Indels: 4
0.73 0.18 0.09
Matches are distributed among these distances:
20 17 0.53
22 15 0.47
ACGTcount: A:0.52, C:0.15, G:0.05, T:0.29
Consensus pattern (20 bp):
AACATATTTAACACACATAA
Found at i:28040108 original size:9 final size:9
Alignment explanation
Indices: 28040096--28040129 Score: 50
Period size: 9 Copynumber: 3.8 Consensus size: 9
28040086 TTAATTGAGT
28040096 TAATTTAAC
1 TAATTTAAC
28040105 TAATTTAAC
1 TAATTTAAC
* *
28040114 TAATTCAAA
1 TAATTTAAC
28040123 TAATTTA
1 TAATTTA
28040130 TTCCAACAAC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.47, C:0.09, G:0.00, T:0.44
Consensus pattern (9 bp):
TAATTTAAC
Found at i:28046043 original size:2 final size:2
Alignment explanation
Indices: 28046031--28046067 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
28046021 AGTCTATTTC
*
28046031 AT AT TT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
28046068 CATACTGTTC
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:28046613 original size:43 final size:43
Alignment explanation
Indices: 28046557--28046913 Score: 542
Period size: 43 Copynumber: 8.4 Consensus size: 43
28046547 TTTTTTCTAA
* **
28046557 AAACGCCGTTAAAGACCATTACCTTTAGCGGCGCTTTTCCCAC
1 AAACGCCGCTAAAGACCAGGACCTTTAGCGGCGCTTTTCCCAC
* *
28046600 AAACGCCGCTAAAGACAAAGACCTTTAGCGGCGCTTTTCCCAC
1 AAACGCCGCTAAAGACCAGGACCTTTAGCGGCGCTTTTCCCAC
28046643 AAACGCCGCTAAAGACCAGGACCTTTAGCGGCGCTTTTCCCAC
1 AAACGCCGCTAAAGACCAGGACCTTTAGCGGCGCTTTTCCCAC
* * * * *
28046686 AAACGCTGCTAAAAACCAAGACCTTTAGCGGGGCTTTTCCAAC
1 AAACGCCGCTAAAGACCAGGACCTTTAGCGGCGCTTTTCCCAC
*
28046729 AAA---CGCTAAAGACCAAGACCTTTAGCGGCGCTTTTCCCAC
1 AAACGCCGCTAAAGACCAGGACCTTTAGCGGCGCTTTTCCCAC
*
28046769 AAACGTCGCTAAAGACCAGGACCTTTAGCGGCGCTTTTCCCAC
1 AAACGCCGCTAAAGACCAGGACCTTTAGCGGCGCTTTTCCCAC
28046812 AAACGCCGCTAAAGACCAGGACCTTTAGCGGCGCTTTTCCCAC
1 AAACGCCGCTAAAGACCAGGACCTTTAGCGGCGCTTTTCCCAC
* * *
28046855 AAACGTCGCTAAAAACCAGGACCTTTAGC-GCACTTTTCCCAC
1 AAACGCCGCTAAAGACCAGGACCTTTAGCGGCGCTTTTCCCAC
*
28046897 AAACACCGCTAAAGACC
1 AAACGCCGCTAAAGACC
28046914 TTTCCCCAAA
Statistics
Matches: 288, Mismatches: 23, Indels: 7
0.91 0.07 0.02
Matches are distributed among these distances:
40 36 0.12
42 26 0.09
43 226 0.78
ACGTcount: A:0.29, C:0.33, G:0.18, T:0.20
Consensus pattern (43 bp):
AAACGCCGCTAAAGACCAGGACCTTTAGCGGCGCTTTTCCCAC
Found at i:28046762 original size:169 final size:169
Alignment explanation
Indices: 28046566--28046884 Score: 568
Period size: 169 Copynumber: 1.9 Consensus size: 169
28046556 AAAACGCCGT
**
28046566 TAAAGACCATTACCTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGACAAAGACCTTTAGCGG
1 TAAAGACCAAGACCTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGACAAAGACCTTTAGCGG
28046631 CGCTTTTCCCACAAACGCCGCTAAAGACCAGGACCTTTAGCGGCGCTTTTCCCACAAACG-CTGC
66 CGCTTTTCCCACAAACGCCGCTAAAGACCAGGACCTTTAGCGGCGCTTTTCCCACAAACGTC-GC
28046695 TAAAAACCAAGACCTTTAGCGGGGCTTTTCCAACAAACGC
130 TAAAAACCAAGACCTTTAGCGGGGCTTTTCCAACAAACGC
* * *
28046735 TAAAGACCAAGACCTTTAGCGGCGCTTTTCCCACAAACGTCGCTAAAGACCAGGACCTTTAGCGG
1 TAAAGACCAAGACCTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGACAAAGACCTTTAGCGG
28046800 CGCTTTTCCCACAAACGCCGCTAAAGACCAGGACCTTTAGCGGCGCTTTTCCCACAAACGTCGCT
66 CGCTTTTCCCACAAACGCCGCTAAAGACCAGGACCTTTAGCGGCGCTTTTCCCACAAACGTCGCT
*
28046865 AAAAACCAGGACCTTTAGCG
131 AAAAACCAAGACCTTTAGCG
28046885 CACTTTTCCC
Statistics
Matches: 143, Mismatches: 6, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
169 142 0.99
170 1 0.01
ACGTcount: A:0.29, C:0.32, G:0.19, T:0.20
Consensus pattern (169 bp):
TAAAGACCAAGACCTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGACAAAGACCTTTAGCGG
CGCTTTTCCCACAAACGCCGCTAAAGACCAGGACCTTTAGCGGCGCTTTTCCCACAAACGTCGCT
AAAAACCAAGACCTTTAGCGGGGCTTTTCCAACAAACGC
Found at i:28046926 original size:26 final size:26
Alignment explanation
Indices: 28046887--28046939 Score: 79
Period size: 26 Copynumber: 2.0 Consensus size: 26
28046877 CTTTAGCGCA
* *
28046887 CTTTTCCCACAAACACCGCTAAAGAC
1 CTTTCCCCAAAAACACCGCTAAAGAC
*
28046913 CTTTCCCCAAAAACGCCGCTAAAGAC
1 CTTTCCCCAAAAACACCGCTAAAGAC
28046939 C
1 C
28046940 AAGACCTTTA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.34, C:0.40, G:0.09, T:0.17
Consensus pattern (26 bp):
CTTTCCCCAAAAACACCGCTAAAGAC
Done.