Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008668.1 Hibiscus syriacus cultivar Beakdansim tig00111671_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: 2122653
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 5 of 9
Found at i:835818 original size:57 final size:56
Alignment explanation
Indices: 835739--835876 Score: 204
Period size: 57 Copynumber: 2.4 Consensus size: 56
835729 GTTTCCAAAT
* * *
835739 TCGCAATGCGAAATTTTGTTTTCGCAACGCTAATTACCGATATAGGTAAACACAACTA
1 TCGCAATGCG-AATTTCGTTTTCGCAACGATAATTACCGACATAGGTAAACAC-ACTA
* *
835797 TCGCAAAGCGAATTTCGTTTTCGCAACGATAATTACCGACATATGTAAACACACTA
1 TCGCAATGCGAATTTCGTTTTCGCAACGATAATTACCGACATAGGTAAACACACTA
*
835853 TCGCAATGCGAATTTCATTTTCGC
1 TCGCAATGCGAATTTCGTTTTCGC
835877 TACTCGAATT
Statistics
Matches: 73, Mismatches: 7, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
56 26 0.36
57 38 0.52
58 9 0.12
ACGTcount: A:0.33, C:0.22, G:0.15, T:0.30
Consensus pattern (56 bp):
TCGCAATGCGAATTTCGTTTTCGCAACGATAATTACCGACATAGGTAAACACACTA
Found at i:836487 original size:21 final size:20
Alignment explanation
Indices: 836448--836507 Score: 93
Period size: 21 Copynumber: 3.0 Consensus size: 20
836438 TCAGTAATTA
836448 GCGTTGCGAATTTGAAAATC
1 GCGTTGCGAATTTGAAAATC
836468 GCGTTGCGAATTTAGAAAATC
1 GCGTTGCGAATTT-GAAAATC
* *
836489 TCGTTGCGAATTTGGAAAT
1 GCGTTGCGAATTTGAAAAT
836508 TATGTTGCGA
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
20 18 0.49
21 19 0.51
ACGTcount: A:0.30, C:0.13, G:0.25, T:0.32
Consensus pattern (20 bp):
GCGTTGCGAATTTGAAAATC
Found at i:836514 original size:20 final size:20
Alignment explanation
Indices: 836450--836518 Score: 66
Period size: 20 Copynumber: 3.4 Consensus size: 20
836440 AGTAATTAGC
* ***
836450 GTTGCGAATTTGAAAATCGC
1 GTTGCGAATTTGGAAATTAT
* * *
836470 GTTGCGAATTTAGAAAATCT
1 GTTGCGAATTTGGAAATTAT
836490 CGTTGCGAATTTGGAAATTAT
1 -GTTGCGAATTTGGAAATTAT
836511 GTTGCGAA
1 GTTGCGAA
836519 ATTAGAGTCC
Statistics
Matches: 39, Mismatches: 9, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
20 22 0.56
21 17 0.44
ACGTcount: A:0.30, C:0.12, G:0.25, T:0.33
Consensus pattern (20 bp):
GTTGCGAATTTGGAAATTAT
Found at i:837023 original size:2 final size:2
Alignment explanation
Indices: 837016--837053 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
837006 AATTCTTGTA
837016 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
837054 TTAATCAATC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:840278 original size:30 final size:30
Alignment explanation
Indices: 840244--840312 Score: 111
Period size: 30 Copynumber: 2.3 Consensus size: 30
840234 TCGTAAACAT
* *
840244 AAACACGAAAACCTGCAAAAATAAATAAGC
1 AAACACGAAAACCTACAAAAATAAATAAAC
840274 AAACACGAAAACCTACAAAAATAAATAAAC
1 AAACACGAAAACCTACAAAAATAAATAAAC
*
840304 GAACACGAA
1 AAACACGAA
840313 CATGATATTA
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
30 36 1.00
ACGTcount: A:0.62, C:0.20, G:0.09, T:0.09
Consensus pattern (30 bp):
AAACACGAAAACCTACAAAAATAAATAAAC
Found at i:864751 original size:41 final size:41
Alignment explanation
Indices: 864694--864776 Score: 166
Period size: 41 Copynumber: 2.0 Consensus size: 41
864684 GAAATCATTT
864694 AGCTAATCTAAATAAATATAAAGACCAGAGGGACAGGCCTG
1 AGCTAATCTAAATAAATATAAAGACCAGAGGGACAGGCCTG
864735 AGCTAATCTAAATAAATATAAAGACCAGAGGGACAGGCCTG
1 AGCTAATCTAAATAAATATAAAGACCAGAGGGACAGGCCTG
864776 A
1 A
864777 CCTGTCAGCA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 42 1.00
ACGTcount: A:0.45, C:0.17, G:0.22, T:0.17
Consensus pattern (41 bp):
AGCTAATCTAAATAAATATAAAGACCAGAGGGACAGGCCTG
Found at i:866757 original size:2 final size:2
Alignment explanation
Indices: 866701--866741 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
866691 TCGAAATAAC
866701 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
866742 TTGACATACT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:866975 original size:15 final size:15
Alignment explanation
Indices: 866952--866991 Score: 52
Period size: 11 Copynumber: 2.9 Consensus size: 15
866942 AGGGACCATC
866952 TACTTTATTTATTC-
1 TACTTTATTTATTCA
866966 T--TTT-TTTATTCA
1 TACTTTATTTATTCA
866978 TACTTTATTTATTC
1 TACTTTATTTATTC
866992 TTAAGAGTCT
Statistics
Matches: 22, Mismatches: 0, Indels: 7
0.76 0.00 0.24
Matches are distributed among these distances:
11 7 0.32
12 4 0.18
14 4 0.18
15 7 0.32
ACGTcount: A:0.20, C:0.12, G:0.00, T:0.68
Consensus pattern (15 bp):
TACTTTATTTATTCA
Found at i:867813 original size:3 final size:3
Alignment explanation
Indices: 867799--867844 Score: 65
Period size: 3 Copynumber: 15.3 Consensus size: 3
867789 TTAAAAGTTG
* * *
867799 TAT TAA TAT TAT TAT TAT TAT TAT TAT TAT TAT TGT TGT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
867845 GTGACTTTAT
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.30, C:0.00, G:0.04, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:876242 original size:2 final size:2
Alignment explanation
Indices: 876235--876265 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
876225 AGCCCTAAAG
*
876235 GA GA GA GA GA GA GA GA GA GA GA GA GG GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
876266 GGAGCTCACA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.45, C:0.00, G:0.55, T:0.00
Consensus pattern (2 bp):
GA
Found at i:881413 original size:160 final size:160
Alignment explanation
Indices: 881029--881827 Score: 1309
Period size: 160 Copynumber: 5.0 Consensus size: 160
881019 CTATGCTTCA
* * *
881029 GTTCCTATAGCCACAATGACAATG-ACTACTTCATATCTGCATCCCTATGGTAGATAATACAAAA
1 GTTCCTACAGCCACAACGAC-ATGCACTACTTCATATCTGCATCCCTATGGTAGATGATACAAAA
*
881093 ATTATAACTAGAACTGGTGATTACTGCAAATTACCAGAATATA-T-TT-TTGTTGTTGTTCAACC
65 TTTATAACTAGAACTGGTGATTACTGCAAATTACCAGAATATATTGTTGTTGTTGTTGTTCAACC
*
881155 ATTGTCTTCTGTTTCAAAAGATGCCTTTGTT
130 ATTGTCTTCTGTTCCAAAAGATGCCTTTGTT
* * *
881186 GTTCCTAAAGCCACAACGACATGCACTACTTCATATCTGCATCCCTATGGTCGATGATACGAAAT
1 GTTCCTACAGCCACAACGACATGCACTACTTCATATCTGCATCCCTATGGTAGATGATACAAAAT
*
881251 TTATAACTAGATCTGGTGATTACTGCAAATTACCAGAATATATTGTTGTTGTTGTTGTTCAACCA
66 TTATAACTAGAACTGGTGATTACTGCAAATTACCAGAATATATTGTTGTTGTTGTTGTTCAACCA
*
881316 TTGCCTTCTGTTCCAAAAGATGCCTTTGTT
131 TTGTCTTCTGTTCCAAAAGATGCCTTTGTT
* * * * *
881346 GTTCCTACACCCACAACGACATGCACTACTTCATATCTGAATCCCTGTAGTAGATGGTACAAAAT
1 GTTCCTACAGCCACAACGACATGCACTACTTCATATCTGCATCCCTATGGTAGATGATACAAAAT
*
881411 TTATAACAAGAACTGGTGATTACTGCAAATTACCAGAATATATTGTTGTTGTTGTTGTTCAACCA
66 TTATAACTAGAACTGGTGATTACTGCAAATTACCAGAATATATTGTTGTTGTTGTTGTTCAACCA
*
881476 TTTTCTTCTGTTCCAAAAGATGCCTTTGTT
131 TTGTCTTCTGTTCCAAAAGATGCCTTTGTT
* **
881506 GTTCCTACAGCCACAACGACATGCACTACTTCATATCTGCATTCCTATGGTAGATGATACTGAAT
1 GTTCCTACAGCCACAACGACATGCACTACTTCATATCTGCATCCCTATGGTAGATGATACAAAAT
* *
881571 TTATAACTAGAACTGGTGATTACTGCAAATTACCAGAATATATTGTTGTTGTTCTTGCTCAACCA
66 TTATAACTAGAACTGGTGATTACTGCAAATTACCAGAATATATTGTTGTTGTTGTTGTTCAACCA
881636 TTGTCTTCTGTTCCAAAAGATGCCTTTGTT
131 TTGTCTTCTGTTCCAAAAGATGCCTTTGTT
881666 GTTCCTACAGCCACAACGACATGCACTACTTCATATCTGCATCCCTATGGTAGATGATACAAAAT
1 GTTCCTACAGCCACAACGACATGCACTACTTCATATCTGCATCCCTATGGTAGATGATACAAAAT
881731 TTATAACTAGAACTGGTGATTACTGCAAATTACCAGAATATATTGTTGTTGTTGATGTTGTTGTT
66 TTATAACTAGAACTGGTGATTACTGCAAATTACCAGAATATA---TTGTTG-T--TGTTGTTGTT
881796 CAACCATTGTCTTCTGTTCCAAAAGATGCCTT
125 CAACCATTGTCTTCTGTTCCAAAAGATGCCTT
881828 GGTGTTTCCT
Statistics
Matches: 594, Mismatches: 38, Indels: 11
0.92 0.06 0.02
Matches are distributed among these distances:
156 3 0.01
157 96 0.16
158 1 0.00
159 2 0.00
160 445 0.75
163 6 0.01
164 1 0.00
166 40 0.07
ACGTcount: A:0.29, C:0.20, G:0.15, T:0.35
Consensus pattern (160 bp):
GTTCCTACAGCCACAACGACATGCACTACTTCATATCTGCATCCCTATGGTAGATGATACAAAAT
TTATAACTAGAACTGGTGATTACTGCAAATTACCAGAATATATTGTTGTTGTTGTTGTTCAACCA
TTGTCTTCTGTTCCAAAAGATGCCTTTGTT
Found at i:881937 original size:18 final size:18
Alignment explanation
Indices: 881910--881946 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
881900 TCAACCGTTT
881910 CCTCTGCTGGTGCCTCTA
1 CCTCTGCTGGTGCCTCTA
*
881928 CCTCTTCTGGTGCCTCTA
1 CCTCTGCTGGTGCCTCTA
881946 C
1 C
881947 TTCTACCTCA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.05, C:0.41, G:0.19, T:0.35
Consensus pattern (18 bp):
CCTCTGCTGGTGCCTCTA
Found at i:882860 original size:27 final size:27
Alignment explanation
Indices: 882830--882881 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 27
882820 GTGAAAGATC
*
882830 TCACCAGCCCGGAACTTGTGGGGGGGT
1 TCACCAGCACGGAACTTGTGGGGGGGT
* *
882857 TCACCGGCACGGGACTTGTGGGGGG
1 TCACCAGCACGGAACTTGTGGGGGG
882882 TTTGGCACTT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.13, C:0.25, G:0.44, T:0.17
Consensus pattern (27 bp):
TCACCAGCACGGAACTTGTGGGGGGGT
Found at i:884495 original size:8 final size:7
Alignment explanation
Indices: 884466--884520 Score: 51
Period size: 7 Copynumber: 7.7 Consensus size: 7
884456 AAACTTCATT
*
884466 TTTTTTG
1 TTTTTTA
884473 TTTTTT-
1 TTTTTTA
*
884479 TGTTTTA
1 TTTTTTA
884486 TTTTTCTA
1 TTTTT-TA
884494 TTTTTTA
1 TTTTTTA
884501 -TTTTTA
1 TTTTTTA
884507 TGTTATTTA
1 T-TT-TTTA
884516 TTTTT
1 TTTTT
884521 AGGTTATTAG
Statistics
Matches: 41, Mismatches: 2, Indels: 10
0.77 0.04 0.19
Matches are distributed among these distances:
6 11 0.27
7 14 0.34
8 11 0.27
9 5 0.12
ACGTcount: A:0.11, C:0.02, G:0.05, T:0.82
Consensus pattern (7 bp):
TTTTTTA
Found at i:884499 original size:15 final size:15
Alignment explanation
Indices: 884481--884521 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
884471 TGTTTTTTTG
*
884481 TTTTATTTTTCTATT
1 TTTTATTTTTATATT
*
884496 TTTTATTTTTATGTT
1 TTTTATTTTTATATT
*
884511 ATTTATTTTTA
1 TTTTATTTTTA
884522 GGTTATTAGG
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.17, C:0.02, G:0.02, T:0.78
Consensus pattern (15 bp):
TTTTATTTTTATATT
Found at i:884526 original size:15 final size:15
Alignment explanation
Indices: 884497--884528 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
884487 TTTTCTATTT
*
884497 TTTATTTTTATGTTA
1 TTTATTTTTAGGTTA
884512 TTTATTTTTAGGTTA
1 TTTATTTTTAGGTTA
884527 TT
1 TT
884529 AGGAACTAAT
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:0.19, C:0.00, G:0.09, T:0.72
Consensus pattern (15 bp):
TTTATTTTTAGGTTA
Found at i:892924 original size:28 final size:28
Alignment explanation
Indices: 892893--892953 Score: 68
Period size: 28 Copynumber: 2.2 Consensus size: 28
892883 AAAAACTAAT
**
892893 TTTAACCCTTAAAGTTTTAAAAATTCAA
1 TTTAACCCCAAAAGTTTTAAAAATTCAA
* * * *
892921 TTTATCCCCAAAATTTTTAGAAATTTAA
1 TTTAACCCCAAAAGTTTTAAAAATTCAA
892949 TTTAA
1 TTTAA
892954 ATTTTATTTT
Statistics
Matches: 26, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.41, C:0.13, G:0.03, T:0.43
Consensus pattern (28 bp):
TTTAACCCCAAAAGTTTTAAAAATTCAA
Found at i:896367 original size:33 final size:33
Alignment explanation
Indices: 896324--896386 Score: 81
Period size: 33 Copynumber: 1.9 Consensus size: 33
896314 TGTTTCGGAT
* *
896324 GAAGAAGATGATGAAGATTATGAAGTGGAGGAA
1 GAAGAAGATGAAGAAGAATATGAAGTGGAGGAA
* * *
896357 GAAGATGATGAAGAGGAATATGAGGTGGAG
1 GAAGAAGATGAAGAAGAATATGAAGTGGAG
896387 AAGGAGGAGG
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
33 25 1.00
ACGTcount: A:0.43, C:0.00, G:0.40, T:0.17
Consensus pattern (33 bp):
GAAGAAGATGAAGAAGAATATGAAGTGGAGGAA
Found at i:901132 original size:89 final size:89
Alignment explanation
Indices: 900984--901162 Score: 358
Period size: 89 Copynumber: 2.0 Consensus size: 89
900974 TAGTTCATAT
900984 TATAACTATTACAATAGCCATTTAAGTAACATAGTAACTTCTGAAGCAGAAGCTTAAAACTTCAA
1 TATAACTATTACAATAGCCATTTAAGTAACATAGTAACTTCTGAAGCAGAAGCTTAAAACTTCAA
901049 CAACTTGGGTCCATAACAAACAAC
66 CAACTTGGGTCCATAACAAACAAC
901073 TATAACTATTACAATAGCCATTTAAGTAACATAGTAACTTCTGAAGCAGAAGCTTAAAACTTCAA
1 TATAACTATTACAATAGCCATTTAAGTAACATAGTAACTTCTGAAGCAGAAGCTTAAAACTTCAA
901138 CAACTTGGGTCCATAACAAACAAC
66 CAACTTGGGTCCATAACAAACAAC
901162 T
1 T
901163 CCCTTTCCAA
Statistics
Matches: 90, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
89 90 1.00
ACGTcount: A:0.42, C:0.20, G:0.11, T:0.26
Consensus pattern (89 bp):
TATAACTATTACAATAGCCATTTAAGTAACATAGTAACTTCTGAAGCAGAAGCTTAAAACTTCAA
CAACTTGGGTCCATAACAAACAAC
Found at i:907869 original size:41 final size:38
Alignment explanation
Indices: 907824--907922 Score: 121
Period size: 41 Copynumber: 2.6 Consensus size: 38
907814 AAAAAAGTAT
907824 TTTCAAAACTATATATTATATATATTTATTTAAAAAAACAA
1 TTTCAAAACTATATATTATATATA--TATTTAAAAAAA-AA
** *
907865 TTTCAAAA-TAATATATTATATATATATTTTCAAAAATA
1 TTTCAAAACT-ATATATTATATATATATTTAAAAAAAAA
907903 TTTCAAAACTATATA-TATAT
1 TTTCAAAACTATATATTATAT
907923 TTTCAAAATG
Statistics
Matches: 53, Mismatches: 3, Indels: 8
0.83 0.05 0.12
Matches are distributed among these distances:
37 5 0.09
38 14 0.26
39 11 0.21
40 1 0.02
41 22 0.42
ACGTcount: A:0.49, C:0.07, G:0.00, T:0.43
Consensus pattern (38 bp):
TTTCAAAACTATATATTATATATATATTTAAAAAAAAA
Found at i:907895 original size:27 final size:29
Alignment explanation
Indices: 907865--907931 Score: 75
Period size: 31 Copynumber: 2.3 Consensus size: 29
907855 AAAAAAACAA
* *
907865 TTTCAAAATA-AT-ATATTATATATATAT
1 TTTCAAAATATATAAAACTATATATATAT
*
907892 TTTCAAAAATATTTCAAAACTATATATATAT
1 TTTC-AAAATATAT-AAAACTATATATATAT
907923 TTTCAAAAT
1 TTTCAAAAT
907932 GTTTTCAAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
27 4 0.12
28 6 0.18
29 1 0.03
30 5 0.15
31 17 0.52
ACGTcount: A:0.48, C:0.07, G:0.00, T:0.45
Consensus pattern (29 bp):
TTTCAAAATATATAAAACTATATATATAT
Found at i:907919 original size:31 final size:32
Alignment explanation
Indices: 907881--907955 Score: 109
Period size: 31 Copynumber: 2.3 Consensus size: 32
907871 AATAATATAT
907881 TATATATATATTTTCAAAAAT-ATTTC-AAAAC
1 TATATATATATTTTC-AAAATGATTTCAAAAAC
*
907912 TATATATATATTTTCAAAATGTTTTCAAAAAC
1 TATATATATATTTTCAAAATGATTTCAAAAAC
907944 TATATATTATAT
1 TATATA-TATAT
907956 ATATGTTATA
Statistics
Matches: 40, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
30 5 0.12
31 19 0.47
32 11 0.28
33 5 0.12
ACGTcount: A:0.45, C:0.08, G:0.01, T:0.45
Consensus pattern (32 bp):
TATATATATATTTTCAAAATGATTTCAAAAAC
Found at i:908571 original size:21 final size:21
Alignment explanation
Indices: 908533--908573 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
908523 CATTCTCTTA
*
908533 TCATGTTTATTTATATCATTT
1 TCATGTTTATTTACATCATTT
908554 TCATGTTTATCTT-CATCATT
1 TCATGTTTAT-TTACATCATT
908574 CTCAATTATT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 16 0.89
22 2 0.11
ACGTcount: A:0.22, C:0.15, G:0.05, T:0.59
Consensus pattern (21 bp):
TCATGTTTATTTACATCATTT
Found at i:908995 original size:16 final size:17
Alignment explanation
Indices: 908957--909003 Score: 78
Period size: 18 Copynumber: 2.8 Consensus size: 17
908947 TGTTTATGAG
908957 GGAATTGGAATCTGTGAA
1 GGAATTGGAATCTGT-AA
908975 GGAATTGGAATCTGT-A
1 GGAATTGGAATCTGTAA
908991 GGAATTGGAATCT
1 GGAATTGGAATCT
909004 AATTCCATAT
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
16 14 0.48
18 15 0.52
ACGTcount: A:0.32, C:0.06, G:0.32, T:0.30
Consensus pattern (17 bp):
GGAATTGGAATCTGTAA
Found at i:909844 original size:244 final size:238
Alignment explanation
Indices: 909532--910132 Score: 787
Period size: 244 Copynumber: 2.4 Consensus size: 238
909522 TATAAGGTAA
* * * *
909532 AATTATATATTTTTTTCGTGTCAGTCTGATTTTTTTCACCCTAAACCCGAACCCGACCCGAATAT
1 AATTATATA-TATTTTCGGGTCGGTCTGATTTTTTTCACCCTAAACCCGAACCCGACCAGAATAT
* * *
909597 CACACTTAAAAAAACCCGACCCGACTCAACCCGAATATCAAACTT-AAAA-A-ACCTGACCTGAA
65 CACACTTAAAAAAACCCGACCCGACTCGACCCGAATATCAAACTTAAAAACACACCCGACCCGAA
909659 CAAAATAAAATTTCATCCGACCCGACCCGAATATATGAATTAGAAATCCGACCTGACCCGACCCG
130 CAAAATAAAATTTCATCCGACCCGACCCGAATATATGAATTAG-AA----A--T---CCGACCCG
*
909724 AAATAATAAAAAATTATTTTTATTTAATAAAAACATTGACTTAAT-CCGACCCG
185 AAATAATAAAAAATTATTTTTATTTAATAAAAACAGTGACTTAATCCCGACCCG
* *
909777 AATTATATATATTTTCGGGTCGGTCTAATTTTTTTCACCCTAAACCCGAACCCGACCTGAATATC
1 AATTATATATATTTTCGGGTCGGTCTGATTTTTTTCACCCTAAACCCGAACCCGACCAGAATATC
* *
909842 ACACTTAAAAAACCCCGACCCGACTCGACCCGAATATCACACTTAAAAAACCCGACCCGACCCGA
66 ACACTTAAAAAAACCCGACCCGACTCGACCCGAATATCAAACTT-AAAAA--C-A--C-ACCCGA
*
909907 CCCGAACAAAATAAAGTTTCATCCGACCCGACCCGAATATATGAATTAGAAATCCGACCCGAAAT
124 CCCGAACAAAATAAAATTTCATCCGACCCGACCCGAATATATGAATTAGAAATCCGACCCGAAAT
909972 AATAAAAAATTATTTTTATTTAATAAAAACAGTGACTTAATCCGACCCGACCCG
189 AATAAAAAATTATTTTTATTTAATAAAAACAGTGACTTAAT----CCCGACCCG
*
910026 AATTATATATATTTTCGGGTCGGTCTGGTTTTTTTCACCCTAAACCCGAACCCGACCCGACCAGA
1 AATTATATATATTTTCGGGTCGGTCTGATTTTTTTCACCCTAAACCCG-A----ACCCGACCAGA
* *
910091 ATGTCACACTTAAAAACACCCGACCCGACTCGACCCGAATAT
61 ATATCACACTTAAAAAAACCCGACCCGACTCGACCCGAATAT
910133 TTTCGGGTCG
Statistics
Matches: 318, Mismatches: 18, Indels: 31
0.87 0.05 0.08
Matches are distributed among these distances:
244 144 0.45
245 9 0.03
246 4 0.01
247 1 0.00
249 55 0.17
250 2 0.01
253 2 0.01
254 101 0.32
ACGTcount: A:0.36, C:0.28, G:0.11, T:0.25
Consensus pattern (238 bp):
AATTATATATATTTTCGGGTCGGTCTGATTTTTTTCACCCTAAACCCGAACCCGACCAGAATATC
ACACTTAAAAAAACCCGACCCGACTCGACCCGAATATCAAACTTAAAAACACACCCGACCCGAAC
AAAATAAAATTTCATCCGACCCGACCCGAATATATGAATTAGAAATCCGACCCGAAATAATAAAA
AATTATTTTTATTTAATAAAAACAGTGACTTAATCCCGACCCG
Found at i:909899 original size:37 final size:38
Alignment explanation
Indices: 909820--909912 Score: 152
Period size: 38 Copynumber: 2.4 Consensus size: 38
909810 TTCACCCTAA
*
909820 ACCCGAACCCGACCTGAATATCACACTTAAAAAACCCCG
1 ACCCG-ACCCGACCCGAATATCACACTTAAAAAACCCCG
*
909859 ACCCGACTCGACCCGAATATCACACTTAAAAAA-CCCG
1 ACCCGACCCGACCCGAATATCACACTTAAAAAACCCCG
909896 ACCCGACCCGACCCGAA
1 ACCCGACCCGACCCGAA
909913 CAAAATAAAG
Statistics
Matches: 51, Mismatches: 3, Indels: 2
0.91 0.05 0.04
Matches are distributed among these distances:
37 20 0.39
38 26 0.51
39 5 0.10
ACGTcount: A:0.37, C:0.41, G:0.12, T:0.11
Consensus pattern (38 bp):
ACCCGACCCGACCCGAATATCACACTTAAAAAACCCCG
Found at i:910166 original size:95 final size:95
Alignment explanation
Indices: 910034--910227 Score: 388
Period size: 95 Copynumber: 2.0 Consensus size: 95
910024 CGAATTATAT
910034 ATATTTTCGGGTCGGTCTGGTTTTTTTCACCCTAAACCCGAACCCGACCCGACCAGAATGTCACA
1 ATATTTTCGGGTCGGTCTGGTTTTTTTCACCCTAAACCCGAACCCGACCCGACCAGAATGTCACA
910099 CTTAAAAACACCCGACCCGACTCGACCCGA
66 CTTAAAAACACCCGACCCGACTCGACCCGA
910129 ATATTTTCGGGTCGGTCTGGTTTTTTTCACCCTAAACCCGAACCCGACCCGACCAGAATGTCACA
1 ATATTTTCGGGTCGGTCTGGTTTTTTTCACCCTAAACCCGAACCCGACCCGACCAGAATGTCACA
910194 CTTAAAAACACCCGACCCGACTCGACCCGA
66 CTTAAAAACACCCGACCCGACTCGACCCGA
910224 ATAT
1 ATAT
910228 CACACTTAAA
Statistics
Matches: 99, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
95 99 1.00
ACGTcount: A:0.27, C:0.34, G:0.16, T:0.23
Consensus pattern (95 bp):
ATATTTTCGGGTCGGTCTGGTTTTTTTCACCCTAAACCCGAACCCGACCCGACCAGAATGTCACA
CTTAAAAACACCCGACCCGACTCGACCCGA
Found at i:910220 original size:38 final size:37
Alignment explanation
Indices: 910162--910253 Score: 139
Period size: 38 Copynumber: 2.4 Consensus size: 37
910152 TTTTCACCCT
*
910162 AAACCCGAACCCGACCCGACCAGAATGTCACACTTAAA
1 AAACCCG-ACCCGACCCGACCAGAATATCACACTTAAA
* *
910200 AACACCCGACCCGACTCGACCCGAATATCACACTTAAA
1 AA-ACCCGACCCGACCCGACCAGAATATCACACTTAAA
910238 AAACCCGACCCGACCC
1 AAACCCGACCCGACCC
910254 AAACTAAATA
Statistics
Matches: 49, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
37 13 0.27
38 31 0.63
39 5 0.10
ACGTcount: A:0.37, C:0.41, G:0.12, T:0.10
Consensus pattern (37 bp):
AAACCCGACCCGACCCGACCAGAATATCACACTTAAA
Found at i:910265 original size:344 final size:339
Alignment explanation
Indices: 909785--910433 Score: 952
Period size: 349 Copynumber: 1.9 Consensus size: 339
909775 CGAATTATAT
*
909785 ATATTTTCGGGTCGGTCTAATTTTTTTCACCCTAAACCCGAACCCGACCTGAATATCACACTTAA
1 ATATTTTCGGGTCGGTCTAATTTTTTTCACCCTAAACCCGAACCCGACCAGAATATCACACTTAA
909850 AAAACCCCGACCCGACTCGACCCGAATATCACACTTAAAAAACCCGACCCGACCCGACCCGAACA
66 AAAACCCCGACCCGACTCGACCCGAATATCACACTTAAAAAACCCGACCCGACCCGA--C-AACA
909915 AAATAAAGTTTCATCCGACCCGACCCGAATATATGAATTAGAAAT-CCGA-C-CC-GAAATAATA
128 AAATAAAGTTTCAT-----CCGACCCGAATATATGAATTAGAAATCCCGACCACCTGAAATAATA
*
909976 AAAAATTATTTTTATTTAATAAAAACAGTGACTTAATCCGACCCGACCCGAATTATATATATTTT
188 AAAAATTATTTTTATTTAATAAAAACAGTGACTTAATCCGACCCGACCCAAATTATATATATTTT
* **
910041 CGGGTCGGTCTGGTTTTTTTCACCCTAAACCCGAACCCGACCCGACCAGAATGTCACACTTAAAA
253 CGGATCGGTCCCGTTTTTTTCACCCTAAACCCGAA-CCGACCCGACCAGAATGTCACACTTAAAA
910106 ACACCCGACCCGACTCGACCCGA
317 ACACCCGACCCGACTCGACCCGA
** *
910129 ATATTTTCGGGTCGGTCTGGTTTTTTTCACCCTAAACCCGAACCCGACCCGACCAGAATGTCACA
1 ATATTTTCGGGTCGGTCTAATTTTTTTCACCCTAAACCCG-A----ACCCGACCAGAATATCACA
910194 CTT-AAAAACACCCGACCCGACTCGACCCGAATATCACACTTAAAAAACCCGACCCGACCC-A-A
61 CTTAAAAAAC-CCCGACCCGACTCGACCCGAATATCACACTTAAAAAACCCGACCCGACCCGACA
*
910256 ACTAAATAAAGTTTCATCCGACCCGAATATATGAATTAGAAATCCAACCCGACCCGACCTGAAAT
125 ACAAAATAAAGTTTCATCCGACCCGAATATATGAATTAGAAAT----CCCGA-CC-ACCTGAAAT
* *
910321 AATAAAAAATTATTTTTATTTAATAAAAACAGTGACTTAATCCGATCCGACCTAAATTATATATA
184 AATAAAAAATTATTTTTATTTAATAAAAACAGTGACTTAATCCGACCCGACCCAAATTATATATA
*
910386 TTTTCGGATCGGTCCCGTTTTTTTCACCCTAAACTCGAACCGACCCGA
249 TTTTCGGATCGGTCCCGTTTTTTTCACCCTAAACCCGAACCGACCCGA
910434 ATATCACACT
Statistics
Matches: 277, Mismatches: 12, Indels: 28
0.87 0.04 0.09
Matches are distributed among these distances:
339 26 0.09
344 59 0.21
345 1 0.00
346 1 0.00
348 18 0.06
349 172 0.62
ACGTcount: A:0.34, C:0.29, G:0.13, T:0.24
Consensus pattern (339 bp):
ATATTTTCGGGTCGGTCTAATTTTTTTCACCCTAAACCCGAACCCGACCAGAATATCACACTTAA
AAAACCCCGACCCGACTCGACCCGAATATCACACTTAAAAAACCCGACCCGACCCGACAACAAAA
TAAAGTTTCATCCGACCCGAATATATGAATTAGAAATCCCGACCACCTGAAATAATAAAAAATTA
TTTTTATTTAATAAAAACAGTGACTTAATCCGACCCGACCCAAATTATATATATTTTCGGATCGG
TCCCGTTTTTTTCACCCTAAACCCGAACCGACCCGACCAGAATGTCACACTTAAAAACACCCGAC
CCGACTCGACCCGA
Found at i:913782 original size:21 final size:21
Alignment explanation
Indices: 913755--913796 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
913745 CCGGAAATAT
*
913755 TAAAAAAAATTAATGTTTTAGA
1 TAAAAATAA-TAATGTTTTAGA
913777 TAAAAATAATAATGTTTTAG
1 TAAAAATAATAATGTTTTAG
913797 GTAATTTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 11 0.58
22 8 0.42
ACGTcount: A:0.52, C:0.00, G:0.10, T:0.38
Consensus pattern (21 bp):
TAAAAATAATAATGTTTTAGA
Found at i:914846 original size:22 final size:24
Alignment explanation
Indices: 914831--914881 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
914821 TTTGTGACAC
*
914831 TAAATTAACACGTTTGTGAACATA
1 TAAATGAACACGTTTGTGAACATA
* *
914855 TAAATGAACACGTTCGCGAAC-TA
1 TAAATGAACACGTTTGTGAACATA
914878 TAAA
1 TAAA
914882 CAAACGAACA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
23 6 0.25
24 18 0.75
ACGTcount: A:0.43, C:0.16, G:0.14, T:0.27
Consensus pattern (24 bp):
TAAATGAACACGTTTGTGAACATA
Found at i:916673 original size:12 final size:12
Alignment explanation
Indices: 916656--916681 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
916646 GATCACCACT
916656 CTCTACCTTCAC
1 CTCTACCTTCAC
916668 CTCTACCTTCAC
1 CTCTACCTTCAC
916680 CT
1 CT
916682 AATTACCCAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.15, C:0.50, G:0.00, T:0.35
Consensus pattern (12 bp):
CTCTACCTTCAC
Found at i:925926 original size:16 final size:17
Alignment explanation
Indices: 925905--925937 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
925895 TTACTATTCA
925905 CGTGAATAGT-AAATTT
1 CGTGAATAGTGAAATTT
925921 CGTGAATAGTGAAATTT
1 CGTGAATAGTGAAATTT
925938 TGTCGGCGAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.62
17 6 0.38
ACGTcount: A:0.36, C:0.06, G:0.21, T:0.36
Consensus pattern (17 bp):
CGTGAATAGTGAAATTT
Found at i:933329 original size:23 final size:24
Alignment explanation
Indices: 933303--933360 Score: 64
Period size: 29 Copynumber: 2.2 Consensus size: 24
933293 CACCTAAATT
933303 AATTTA-ATGTCATTGCTTACATC
1 AATTTATATGTCATTGCTTACATC
933326 AATTTAGTTTTGATGTCATTGCTTACATC
1 AATTTA----T-ATGTCATTGCTTACATC
933355 AATTTA
1 AATTTA
933361 GTTAAGTGAA
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
23 6 0.21
29 23 0.79
ACGTcount: A:0.29, C:0.14, G:0.10, T:0.47
Consensus pattern (24 bp):
AATTTATATGTCATTGCTTACATC
Found at i:938025 original size:29 final size:29
Alignment explanation
Indices: 937991--938049 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
937981 CCTAAATTAA
937991 TTTGATGTCATTGCTTACATCAATTTAGT
1 TTTGATGTCATTGCTTACATCAATTTAGT
938020 TTTGATGTCATTGCTTACATCAATTTAGT
1 TTTGATGTCATTGCTTACATCAATTTAGT
938049 T
1 T
938050 AGGTGAAAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.24, C:0.14, G:0.14, T:0.49
Consensus pattern (29 bp):
TTTGATGTCATTGCTTACATCAATTTAGT
Found at i:944252 original size:109 final size:109
Alignment explanation
Indices: 944061--944279 Score: 438
Period size: 109 Copynumber: 2.0 Consensus size: 109
944051 TTGGTATTTT
944061 ACTCTGAAGAGCTGAACCACCGATATCAATGGAACGTTTCACTTCAAGGGCTCACGAGTTTCTAA
1 ACTCTGAAGAGCTGAACCACCGATATCAATGGAACGTTTCACTTCAAGGGCTCACGAGTTTCTAA
944126 TACCAATGGTATTTTACTCATTATTCTGCCTTGTCTTAACTGTC
66 TACCAATGGTATTTTACTCATTATTCTGCCTTGTCTTAACTGTC
944170 ACTCTGAAGAGCTGAACCACCGATATCAATGGAACGTTTCACTTCAAGGGCTCACGAGTTTCTAA
1 ACTCTGAAGAGCTGAACCACCGATATCAATGGAACGTTTCACTTCAAGGGCTCACGAGTTTCTAA
944235 TACCAATGGTATTTTACTCATTATTCTGCCTTGTCTTAACTGTC
66 TACCAATGGTATTTTACTCATTATTCTGCCTTGTCTTAACTGTC
944279 A
1 A
944280 GTGTTGCAGG
Statistics
Matches: 110, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
109 110 1.00
ACGTcount: A:0.27, C:0.24, G:0.16, T:0.33
Consensus pattern (109 bp):
ACTCTGAAGAGCTGAACCACCGATATCAATGGAACGTTTCACTTCAAGGGCTCACGAGTTTCTAA
TACCAATGGTATTTTACTCATTATTCTGCCTTGTCTTAACTGTC
Found at i:955151 original size:96 final size:96
Alignment explanation
Indices: 955040--955233 Score: 334
Period size: 96 Copynumber: 2.0 Consensus size: 96
955030 TTTTCCACTT
** *
955040 TTTCTTTTTTAGTTTGTTGATTTTTCAAAGGTAGATGTTGCTTTCTTTCAGTTACAGCCATAGAA
1 TTTCTTTTTTAGTTTGTTGATTTTTCAAAGACAGATGTTGCTTTCTTTCAGTTAAAGCCATAGAA
* * *
955105 TAAATGAGTTATTGACAGTGAAGATTAAATA
66 TAAATGAATAATTGACAATGAAGATTAAATA
955136 TTTCTTTTTTAGTTTGTTGATTTTTCAAAGACAGATGTTGCTTTCTTTCAGTTAAAGCCATAGAA
1 TTTCTTTTTTAGTTTGTTGATTTTTCAAAGACAGATGTTGCTTTCTTTCAGTTAAAGCCATAGAA
955201 TAAATGAATAATTGACAATGAAGATTAAATA
66 TAAATGAATAATTGACAATGAAGATTAAATA
955232 TT
1 TT
955234 ATCCCATTGT
Statistics
Matches: 92, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
96 92 1.00
ACGTcount: A:0.31, C:0.09, G:0.16, T:0.43
Consensus pattern (96 bp):
TTTCTTTTTTAGTTTGTTGATTTTTCAAAGACAGATGTTGCTTTCTTTCAGTTAAAGCCATAGAA
TAAATGAATAATTGACAATGAAGATTAAATA
Found at i:964867 original size:41 final size:41
Alignment explanation
Indices: 964699--964923 Score: 138
Period size: 41 Copynumber: 5.5 Consensus size: 41
964689 AATGACCAAC
* * * * * ** *
964699 AAATTCGCAACGTGAA-CTCCAATTTCGCAACACAATAACC
1 AAATTCGCAACGCGAATTTCCAAATTCACAACACGATTTCA
* *
964739 AAATTCGCAACGCGAATTTCCCAAATTCGCAACTC-AGTTTCTA
1 AAATTCGCAACGCGAATTT-CCAAATTCACAACACGA-TTTC-A
* * ** * *
964782 CAA-TCGCAACGTGAATTT-C-TTTCTCGCAACACGATTTTCC
1 AAATTCGCAACGCGAATTTCCAAAT-TCACAACACGA-TTTCA
* * * *
964822 AAATTCGCAACACGATTTTCCAAATTCTCAACGCGATTTCA
1 AAATTCGCAACGCGAATTTCCAAATTCACAACACGATTTCA
* * *
964863 AAATTCGCAACGCGAAATTT-CAAATTCACAACTCTATTTCT
1 AAATTCGCAACGCG-AATTTCCAAATTCACAACACGATTTCA
*
964904 GAATTCGCAACGCGAATTTC
1 AAATTCGCAACGCGAATTTC
964924 TTTTTTGCAA
Statistics
Matches: 144, Mismatches: 30, Indels: 21
0.74 0.15 0.11
Matches are distributed among these distances:
39 1 0.01
40 31 0.22
41 66 0.46
42 43 0.30
43 3 0.02
ACGTcount: A:0.33, C:0.28, G:0.11, T:0.28
Consensus pattern (41 bp):
AAATTCGCAACGCGAATTTCCAAATTCACAACACGATTTCA
Found at i:964889 original size:21 final size:20
Alignment explanation
Indices: 964698--964923 Score: 122
Period size: 20 Copynumber: 11.1 Consensus size: 20
964688 AAATGACCAA
* * *
964698 CAAATTCGCAACGTGAACTC
1 CAAATTCGCAACGCGAATTT
* * **
964718 CAATTTCGCAACAC-AATAAC
1 CAAATTCGCAACGCGAAT-TT
964738 CAAATTCGCAACGCGAATTT
1 CAAATTCGCAACGCGAATTT
* *
964758 CCCAAATTCGCAACTC-AGTTT
1 --CAAATTCGCAACGCGAATTT
*
964779 CTACAA-TCGCAACGTGAATTT
1 C-A-AATTCGCAACGCGAATTT
** * *
964800 C-TTTCTCGCAACACGATTTT
1 CAAAT-TCGCAACGCGAATTT
* *
964820 CCAAATTCGCAACACGATTTT
1 -CAAATTCGCAACGCGAATTT
*
964841 CCAAATTCTCAACGCG-ATTT
1 -CAAATTCGCAACGCGAATTT
964861 CAAAATTCGCAACGCGAAATTT
1 C-AAATTCGCAACGCG-AATTT
* * *
964883 CAAATTCACAACTC-TATTT
1 CAAATTCGCAACGCGAATTT
*
964902 CTGAATTCGCAACGCGAATTT
1 C-AAATTCGCAACGCGAATTT
964923 C
1 C
964924 TTTTTTGCAA
Statistics
Matches: 158, Mismatches: 32, Indels: 31
0.71 0.14 0.14
Matches are distributed among these distances:
19 9 0.06
20 70 0.44
21 60 0.38
22 19 0.12
ACGTcount: A:0.33, C:0.28, G:0.11, T:0.28
Consensus pattern (20 bp):
CAAATTCGCAACGCGAATTT
Found at i:964924 original size:21 final size:21
Alignment explanation
Indices: 964739--964924 Score: 134
Period size: 21 Copynumber: 9.0 Consensus size: 21
964729 CACAATAACC
*
964739 AAATTCGCAACGCGAATTTCCC
1 AAATTCGCAACGCGAATTT-CT
* *
964761 AAATTCGCAACTC-AGTTTCT
1 AAATTCGCAACGCGAATTTCT
*
964781 ACAA-TCGCAACGTGAATTTCT
1 A-AATTCGCAACGCGAATTTCT
* * * *
964802 --TTCTCGCAACACGATTTTCC
1 AAAT-TCGCAACGCGAATTTCT
* * *
964822 AAATTCGCAACACGATTTTCC
1 AAATTCGCAACGCGAATTTCT
* *
964843 AAATTCTCAACGCG-ATTTCA
1 AAATTCGCAACGCGAATTTCT
964863 AAATTCGCAACGCGAAATTTC-
1 AAATTCGCAACGCG-AATTTCT
* * *
964884 AAATTCACAACTC-TATTTCT
1 AAATTCGCAACGCGAATTTCT
*
964904 GAATTCGCAACGCGAATTTCT
1 AAATTCGCAACGCGAATTTCT
964925 TTTTTGCAAC
Statistics
Matches: 130, Mismatches: 24, Indels: 21
0.74 0.14 0.12
Matches are distributed among these distances:
19 5 0.04
20 49 0.38
21 58 0.45
22 18 0.14
ACGTcount: A:0.32, C:0.27, G:0.11, T:0.30
Consensus pattern (21 bp):
AAATTCGCAACGCGAATTTCT
Found at i:964991 original size:20 final size:20
Alignment explanation
Indices: 964907--965035 Score: 70
Period size: 20 Copynumber: 6.5 Consensus size: 20
964897 TATTTCTGAA
*
964907 TTCGCAACGCGAA-TTTCTTT
1 TTCGCAACACGAATTTTC-TT
* *
964927 TTTGCAACAC-AAGTTTCCTT
1 TTCGCAACACGAA-TTTTCTT
* *
964947 TTCGCAACAAG-ATTTTCTAA
1 TTCGCAACACGAATTTTCT-T
* *
964967 ATCGCAACACGAATTTTGTT
1 TTCGCAACACGAATTTTCTT
* *
964987 TTCGCAACTC-AATTTT-TGAA
1 TTCGCAACACGAATTTTCT--T
* **
965007 TTCGCAACATGAATTTTAAT
1 TTCGCAACACGAATTTTCTT
965027 TTCGCAACA
1 TTCGCAACA
965036 GCTTTTATTT
Statistics
Matches: 82, Mismatches: 18, Indels: 18
0.69 0.15 0.15
Matches are distributed among these distances:
18 1 0.01
19 13 0.16
20 53 0.65
21 15 0.18
ACGTcount: A:0.29, C:0.22, G:0.12, T:0.37
Consensus pattern (20 bp):
TTCGCAACACGAATTTTCTT
Found at i:965002 original size:40 final size:40
Alignment explanation
Indices: 964945--965035 Score: 105
Period size: 40 Copynumber: 2.3 Consensus size: 40
964935 ACAAGTTTCC
*
964945 TTTTCGCAACAAGATTTTCT-AAATCGCAACACGAATTTTG
1 TTTTCGCAACAAGATTTT-TGAAATCGCAACACGAATTTTA
* * *
964985 TTTTCGCAACTCA-ATTTTTGAATTCGCAACATGAATTTTA
1 TTTTCGCAAC-AAGATTTTTGAAATCGCAACACGAATTTTA
*
965025 ATTTCGCAACA
1 TTTTCGCAACA
965036 GCTTTTATTT
Statistics
Matches: 43, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
39 1 0.02
40 41 0.95
41 1 0.02
ACGTcount: A:0.32, C:0.20, G:0.11, T:0.37
Consensus pattern (40 bp):
TTTTCGCAACAAGATTTTTGAAATCGCAACACGAATTTTA
Found at i:965218 original size:16 final size:16
Alignment explanation
Indices: 965193--965229 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
965183 CCCCATCTCT
*
965193 ATTTTTTTTTTACATA
1 ATTTTATTTTTACATA
*
965209 ATTTTATTTTTATATA
1 ATTTTATTTTTACATA
965225 ATTTT
1 ATTTT
965230 TCAATGATTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.27, C:0.03, G:0.00, T:0.70
Consensus pattern (16 bp):
ATTTTATTTTTACATA
Found at i:968248 original size:18 final size:18
Alignment explanation
Indices: 968225--968260 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
968215 AAGAAAAAGG
*
968225 AAATCAAAATCGCAATCA
1 AAATCAAAATCCCAATCA
968243 AAATCAAAATCCCAATCA
1 AAATCAAAATCCCAATCA
968261 CAACCGGCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.56, C:0.25, G:0.03, T:0.17
Consensus pattern (18 bp):
AAATCAAAATCCCAATCA
Found at i:969995 original size:20 final size:20
Alignment explanation
Indices: 969958--969995 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
969948 ATGGAATCGC
* *
969958 GTTGCGAATTTCATTTTCGT
1 GTTGCGAATTTAAGTTTCGT
969978 GTTGCGAATTTAAGTTTC
1 GTTGCGAATTTAAGTTTC
969996 AAAAACTATT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.18, C:0.13, G:0.21, T:0.47
Consensus pattern (20 bp):
GTTGCGAATTTAAGTTTCGT
Found at i:970349 original size:22 final size:22
Alignment explanation
Indices: 970321--970369 Score: 80
Period size: 22 Copynumber: 2.2 Consensus size: 22
970311 AGAGGGGGGA
*
970321 CGCCGGATATGGAGACGGATGT
1 CGCCGGAGATGGAGACGGATGT
*
970343 CGCCGGAGATGGGGACGGATGT
1 CGCCGGAGATGGAGACGGATGT
970365 CGCCG
1 CGCCG
970370 TAGAGATTGA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.18, C:0.22, G:0.45, T:0.14
Consensus pattern (22 bp):
CGCCGGAGATGGAGACGGATGT
Found at i:970495 original size:19 final size:20
Alignment explanation
Indices: 970473--970510 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
970463 AATATTGTGT
*
970473 TTCGAATT-TGAAAATAAAA
1 TTCGAATTGCGAAAATAAAA
*
970492 TTCGCATTGCGAAAATAAA
1 TTCGAATTGCGAAAATAAA
970511 CACGCTTTGC
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 7 0.44
20 9 0.56
ACGTcount: A:0.47, C:0.11, G:0.13, T:0.29
Consensus pattern (20 bp):
TTCGAATTGCGAAAATAAAA
Found at i:970579 original size:20 final size:20
Alignment explanation
Indices: 970556--970688 Score: 90
Period size: 20 Copynumber: 6.5 Consensus size: 20
970546 TGATTTTTGT
970556 GTTGCGAATTACAAATTCGC
1 GTTGCGAATTACAAATTCGC
* *
970576 GTTGCGATTTACATATTCGC
1 GTTGCGAATTACAAATTCGC
** *
970596 GTTGCGAATTTGGAAAATCGC
1 GTTGCGAA-TTACAAATTCGC
* * *
970617 GTTGCGGAA-AAGAAATTCGA
1 GTTGC-GAATTACAAATTCGC
* *
970637 GTTGCGAATTTCAAAATT-GA
1 GTTGCGAATTAC-AAATTCGC
**
970657 GTTGCGAATATGGGAAATTCGC
1 GTTGCGAAT-T-ACAAATTCGC
*
970679 GTTGCAAATT
1 GTTGCGAATT
970689 TAGAAACTGT
Statistics
Matches: 88, Mismatches: 18, Indels: 13
0.74 0.15 0.11
Matches are distributed among these distances:
19 3 0.03
20 48 0.55
21 25 0.28
22 12 0.14
ACGTcount: A:0.30, C:0.14, G:0.25, T:0.31
Consensus pattern (20 bp):
GTTGCGAATTACAAATTCGC
Found at i:977859 original size:2 final size:2
Alignment explanation
Indices: 977852--977905 Score: 108
Period size: 2 Copynumber: 27.0 Consensus size: 2
977842 TTTGACAAAA
977852 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
977894 AT AT AT AT AT AT
1 AT AT AT AT AT AT
977906 TCATGTGCAT
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:982753 original size:29 final size:29
Alignment explanation
Indices: 982719--982800 Score: 146
Period size: 29 Copynumber: 2.8 Consensus size: 29
982709 CACCCTTTTT
982719 CGAATTATTTACCAGAATAGCACCAAAAC
1 CGAATTATTTACCAGAATAGCACCAAAAC
*
982748 TGAATTATTTACCAGAATAGCACCAAAAC
1 CGAATTATTTACCAGAATAGCACCAAAAC
*
982777 CGAATTATTTACCAAAATAGCACC
1 CGAATTATTTACCAGAATAGCACC
982801 GGTCAACGGT
Statistics
Matches: 50, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 50 1.00
ACGTcount: A:0.44, C:0.23, G:0.10, T:0.23
Consensus pattern (29 bp):
CGAATTATTTACCAGAATAGCACCAAAAC
Found at i:982812 original size:7 final size:7
Alignment explanation
Indices: 982800--982825 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
982790 AAAATAGCAC
982800 CGGTCAA
1 CGGTCAA
982807 CGGTCAA
1 CGGTCAA
982814 CGGTCAA
1 CGGTCAA
982821 CGGTC
1 CGGTC
982826 GGGTCGGGTC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.23, C:0.31, G:0.31, T:0.15
Consensus pattern (7 bp):
CGGTCAA
Found at i:982839 original size:31 final size:31
Alignment explanation
Indices: 982801--982869 Score: 97
Period size: 31 Copynumber: 2.2 Consensus size: 31
982791 AAATAGCACC
982801 GGTCAAC-GGTCAACGGTCAAC-GGTCGGGTCG
1 GGTCAACGGGTC--CGGTCAACGGGTCGGGTCG
*
982832 GGTCAACGGGTCGGGTCAACGGGTCGGGTCG
1 GGTCAACGGGTCCGGTCAACGGGTCGGGTCG
982863 GGTCAAC
1 GGTCAAC
982870 TATCGGGTCG
Statistics
Matches: 35, Mismatches: 1, Indels: 4
0.88 0.03 0.10
Matches are distributed among these distances:
30 7 0.20
31 24 0.69
32 4 0.11
ACGTcount: A:0.17, C:0.25, G:0.42, T:0.16
Consensus pattern (31 bp):
GGTCAACGGGTCCGGTCAACGGGTCGGGTCG
Found at i:982843 original size:13 final size:13
Alignment explanation
Indices: 982825--982861 Score: 74
Period size: 13 Copynumber: 2.8 Consensus size: 13
982815 GGTCAACGGT
982825 CGGGTCGGGTCAA
1 CGGGTCGGGTCAA
982838 CGGGTCGGGTCAA
1 CGGGTCGGGTCAA
982851 CGGGTCGGGTC
1 CGGGTCGGGTC
982862 GGGTCAACTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.11, C:0.24, G:0.49, T:0.16
Consensus pattern (13 bp):
CGGGTCGGGTCAA
Found at i:982845 original size:18 final size:17
Alignment explanation
Indices: 982815--982883 Score: 83
Period size: 17 Copynumber: 4.2 Consensus size: 17
982805 AACGGTCAAC
982815 GGTCAACGGTCGGGTCG
1 GGTCAACGGTCGGGTCG
982832 GGTCAA----CGGGTCG
1 GGTCAACGGTCGGGTCG
982845 GGTCAACGGGTCGGGTCG
1 GGTCAAC-GGTCGGGTCG
**
982863 GGTCAACTATCGGGTCG
1 GGTCAACGGTCGGGTCG
982880 GGTC
1 GGTC
982884 GTGACAGGTC
Statistics
Matches: 45, Mismatches: 2, Indels: 10
0.79 0.04 0.18
Matches are distributed among these distances:
13 13 0.29
17 18 0.40
18 14 0.31
ACGTcount: A:0.13, C:0.23, G:0.45, T:0.19
Consensus pattern (17 bp):
GGTCAACGGTCGGGTCG
Found at i:990028 original size:29 final size:29
Alignment explanation
Indices: 989987--990067 Score: 144
Period size: 29 Copynumber: 2.8 Consensus size: 29
989977 CACCCTTTTT
989987 CGAATTATTTACCAGAATAGCACCAAAAC
1 CGAATTATTTACCAGAATAGCACCAAAAC
*
990016 TGAATTATTTACCAGAATAGCACCAAAAC
1 CGAATTATTTACCAGAATAGCACCAAAAC
*
990045 CGAATTATTTACCAAAATAGCAC
1 CGAATTATTTACCAGAATAGCAC
990068 AGGTCAACGG
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 49 1.00
ACGTcount: A:0.44, C:0.22, G:0.10, T:0.23
Consensus pattern (29 bp):
CGAATTATTTACCAGAATAGCACCAAAAC
Found at i:990081 original size:7 final size:7
Alignment explanation
Indices: 990069--990100 Score: 64
Period size: 7 Copynumber: 4.6 Consensus size: 7
990059 AAATAGCACA
990069 GGTCAAC
1 GGTCAAC
990076 GGTCAAC
1 GGTCAAC
990083 GGTCAAC
1 GGTCAAC
990090 GGTCAAC
1 GGTCAAC
990097 GGTC
1 GGTC
990101 GGGTCGGGTC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 25 1.00
ACGTcount: A:0.25, C:0.28, G:0.31, T:0.16
Consensus pattern (7 bp):
GGTCAAC
Found at i:990111 original size:31 final size:31
Alignment explanation
Indices: 990076--990144 Score: 97
Period size: 31 Copynumber: 2.2 Consensus size: 31
990066 ACAGGTCAAC
990076 GGTCAAC-GGTCAACGGTCAAC-GGTCGGGTCG
1 GGTCAACGGGTC--CGGTCAACGGGTCGGGTCG
*
990107 GGTCAACGGGTCGGGTCAACGGGTCGGGTCG
1 GGTCAACGGGTCCGGTCAACGGGTCGGGTCG
990138 GGTCAAC
1 GGTCAAC
990145 TATCGGGTCG
Statistics
Matches: 35, Mismatches: 1, Indels: 4
0.88 0.03 0.10
Matches are distributed among these distances:
30 7 0.20
31 24 0.69
32 4 0.11
ACGTcount: A:0.17, C:0.25, G:0.42, T:0.16
Consensus pattern (31 bp):
GGTCAACGGGTCCGGTCAACGGGTCGGGTCG
Found at i:990118 original size:13 final size:13
Alignment explanation
Indices: 990100--990136 Score: 74
Period size: 13 Copynumber: 2.8 Consensus size: 13
990090 GGTCAACGGT
990100 CGGGTCGGGTCAA
1 CGGGTCGGGTCAA
990113 CGGGTCGGGTCAA
1 CGGGTCGGGTCAA
990126 CGGGTCGGGTC
1 CGGGTCGGGTC
990137 GGGTCAACTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.11, C:0.24, G:0.49, T:0.16
Consensus pattern (13 bp):
CGGGTCGGGTCAA
Found at i:990120 original size:18 final size:17
Alignment explanation
Indices: 990090--990158 Score: 83
Period size: 17 Copynumber: 4.2 Consensus size: 17
990080 AACGGTCAAC
990090 GGTCAACGGTCGGGTCG
1 GGTCAACGGTCGGGTCG
990107 GGTCAA----CGGGTCG
1 GGTCAACGGTCGGGTCG
990120 GGTCAACGGGTCGGGTCG
1 GGTCAAC-GGTCGGGTCG
**
990138 GGTCAACTATCGGGTCG
1 GGTCAACGGTCGGGTCG
990155 GGTC
1 GGTC
990159 GTGACCGGTC
Statistics
Matches: 45, Mismatches: 2, Indels: 10
0.79 0.04 0.18
Matches are distributed among these distances:
13 13 0.29
17 18 0.40
18 14 0.31
ACGTcount: A:0.13, C:0.23, G:0.45, T:0.19
Consensus pattern (17 bp):
GGTCAACGGTCGGGTCG
Found at i:996480 original size:22 final size:22
Alignment explanation
Indices: 996452--996501 Score: 91
Period size: 22 Copynumber: 2.3 Consensus size: 22
996442 ACGAGTATTC
996452 AAACGAGCTTGTTCATGAACAT
1 AAACGAGCTTGTTCATGAACAT
*
996474 AAACGAGCTTGTTCATGAAGAT
1 AAACGAGCTTGTTCATGAACAT
996496 AAACGA
1 AAACGA
996502 ACTAGACTCG
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.40, C:0.16, G:0.20, T:0.24
Consensus pattern (22 bp):
AAACGAGCTTGTTCATGAACAT
Found at i:999043 original size:6 final size:6
Alignment explanation
Indices: 999029--999065 Score: 56
Period size: 6 Copynumber: 6.2 Consensus size: 6
999019 AACCTCTGAA
* *
999029 ATTACC ATCACC ATCACC ATTACC ATTACC ATTACC A
1 ATTACC ATTACC ATTACC ATTACC ATTACC ATTACC A
999066 ACCCTAGGGT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.35, C:0.38, G:0.00, T:0.27
Consensus pattern (6 bp):
ATTACC
Found at i:1000721 original size:22 final size:21
Alignment explanation
Indices: 1000673--1000721 Score: 55
Period size: 22 Copynumber: 2.3 Consensus size: 21
1000663 AATTATAATT
1000673 TTTAAAAAATATATTTTTAAA
1 TTTAAAAAATATATTTTTAAA
* *
1000694 TGTAAAATAATAT-TTTTGTAAG
1 TTTAAAA-AATATATTTT-TAAA
1000716 TTTAAA
1 TTTAAA
1000722 TTCGAGTTTG
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
21 10 0.43
22 13 0.57
ACGTcount: A:0.47, C:0.00, G:0.06, T:0.47
Consensus pattern (21 bp):
TTTAAAAAATATATTTTTAAA
Found at i:1001365 original size:24 final size:24
Alignment explanation
Indices: 1001333--1001381 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
1001323 AAATATAATG
1001333 ATAAAATTATCTCCTAATGTATGC
1 ATAAAATTATCTCCTAATGTATGC
1001357 ATAAAATTATCTCCTAATGTATGC
1 ATAAAATTATCTCCTAATGTATGC
1001381 A
1 A
1001382 CAAATGGTCA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.39, C:0.16, G:0.08, T:0.37
Consensus pattern (24 bp):
ATAAAATTATCTCCTAATGTATGC
Found at i:1018369 original size:29 final size:29
Alignment explanation
Indices: 1018337--1018514 Score: 143
Period size: 29 Copynumber: 6.3 Consensus size: 29
1018327 TTTACACATT
*
1018337 TATCACCCTTTT-AAAAAAATTTACAAAAA
1 TATCACCCTTTTCAAAAAAA-TTACGAAAA
* *
1018366 TATCACCCTTTTCAAAATAATTACTAAAA
1 TATCACCCTTTTCAAAAAAATTACGAAAA
*** * * *
1018395 TATCA---TTTT-TTTAAATTTATGAAAT
1 TATCACCCTTTTCAAAAAAATTACGAAAA
* * *
1018420 TATC-TCTTTTTAAAAAAAATTACGAAAA
1 TATCACCCTTTTCAAAAAAATTACGAAAA
* *
1018448 TATCACCATTTTCAAAAATAATTACCAAAA
1 TATCACCCTTTTCAAAAA-AATTACGAAAA
* * *
1018478 TATCACCATTTTCAAAATAATTACTAAAA
1 TATCACCCTTTTCAAAAAAATTACGAAAA
1018507 TATCACCC
1 TATCACCC
1018515 GATAAACGGT
Statistics
Matches: 119, Mismatches: 23, Indels: 14
0.76 0.15 0.09
Matches are distributed among these distances:
25 12 0.10
26 4 0.03
27 4 0.03
28 14 0.12
29 52 0.44
30 33 0.28
ACGTcount: A:0.46, C:0.17, G:0.01, T:0.36
Consensus pattern (29 bp):
TATCACCCTTTTCAAAAAAATTACGAAAA
Found at i:1018495 original size:17 final size:17
Alignment explanation
Indices: 1018444--1018496 Score: 60
Period size: 17 Copynumber: 3.4 Consensus size: 17
1018434 AAAAATTACG
1018444 AAAATATCACCATTTTC
1 AAAATATCACCATTTTC
**
1018461 AAAA-AT-A--ATTACC
1 AAAATATCACCATTTTC
1018474 AAAATATCACCATTTTC
1 AAAATATCACCATTTTC
1018491 AAAATA
1 AAAATA
1018497 ATTACTAAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 8
0.70 0.10 0.20
Matches are distributed among these distances:
13 8 0.29
14 2 0.07
15 2 0.07
16 2 0.07
17 14 0.50
ACGTcount: A:0.51, C:0.19, G:0.00, T:0.30
Consensus pattern (17 bp):
AAAATATCACCATTTTC
Found at i:1019339 original size:42 final size:43
Alignment explanation
Indices: 1019293--1019412 Score: 138
Period size: 43 Copynumber: 2.8 Consensus size: 43
1019283 AGGTTGTTAC
* * *
1019293 AGAATTATCAGCGTTTATGGCAAAAAA-ACCTCTAAAGACAAG
1 AGAATTAGCAGCGTTTATGACAAAAAATACCACTAAAGACAAG
* * * *
1019335 AGAATTAGCGGCGTTTTTGACAAAAAATGCCACTAAAGATAAG
1 AGAATTAGCAGCGTTTATGACAAAAAATACCACTAAAGACAAG
1019378 AGAATTAGC-GACGTTTATAGAC-AAAAATACCACTA
1 AGAATTAGCAG-CGTTTAT-GACAAAAAATACCACTA
1019413 TAAATCACAA
Statistics
Matches: 66, Mismatches: 9, Indels: 5
0.82 0.11 0.06
Matches are distributed among these distances:
42 24 0.36
43 39 0.59
44 3 0.05
ACGTcount: A:0.44, C:0.16, G:0.17, T:0.23
Consensus pattern (43 bp):
AGAATTAGCAGCGTTTATGACAAAAAATACCACTAAAGACAAG
Found at i:1020313 original size:38 final size:38
Alignment explanation
Indices: 1020258--1020348 Score: 132
Period size: 38 Copynumber: 2.4 Consensus size: 38
1020248 ACGATTGTCT
* *
1020258 TAAATTATAGCCG-AAACCCCTATTTCACTCAAAATTCA
1 TAAATTATAG-CGAAAACCCCTATTTCACACAAAAGTCA
*
1020296 TAAATTATAGCGAAAACCCCTATTTCGCACAAAAGTCA
1 TAAATTATAGCGAAAACCCCTATTTCACACAAAAGTCA
1020334 TAAATTATAGC-AAAA
1 TAAATTATAGCGAAAA
1020349 TAGATTATAG
Statistics
Matches: 49, Mismatches: 3, Indels: 3
0.89 0.05 0.05
Matches are distributed among these distances:
37 6 0.12
38 43 0.88
ACGTcount: A:0.44, C:0.22, G:0.08, T:0.26
Consensus pattern (38 bp):
TAAATTATAGCGAAAACCCCTATTTCACACAAAAGTCA
Found at i:1025622 original size:31 final size:31
Alignment explanation
Indices: 1025584--1025642 Score: 91
Period size: 31 Copynumber: 1.9 Consensus size: 31
1025574 AGATGCTGGT
*
1025584 TTTGTGTGTTTTTATACTAAATTAAGTTGGG
1 TTTGTGTGTTTTCATACTAAATTAAGTTGGG
* *
1025615 TTTGTGTGTTTTCATACTGAATTGAGTT
1 TTTGTGTGTTTTCATACTAAATTAAGTT
1025643 TTGGTTGGTG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.20, C:0.05, G:0.22, T:0.53
Consensus pattern (31 bp):
TTTGTGTGTTTTCATACTAAATTAAGTTGGG
Found at i:1032298 original size:22 final size:22
Alignment explanation
Indices: 1032249--1032301 Score: 97
Period size: 22 Copynumber: 2.4 Consensus size: 22
1032239 AAGCATTAAG
*
1032249 GATGCATTTTCATTTGTATGGT
1 GATGCGTTTTCATTTGTATGGT
1032271 GATGCGTTTTCATTTGTATGGT
1 GATGCGTTTTCATTTGTATGGT
1032293 GATGCGTTT
1 GATGCGTTT
1032302 GACGAGTTCA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.15, C:0.09, G:0.26, T:0.49
Consensus pattern (22 bp):
GATGCGTTTTCATTTGTATGGT
Found at i:1032792 original size:29 final size:29
Alignment explanation
Indices: 1032749--1032831 Score: 139
Period size: 29 Copynumber: 2.8 Consensus size: 29
1032739 CTCACCTAAC
1032749 TAAATTGATGTAAGCAATGACATCATTAAT
1 TAAA-TGATGTAAGCAATGACATCATTAAT
*
1032779 TAAATGATGTAAGCAATGACATCTTTAAT
1 TAAATGATGTAAGCAATGACATCATTAAT
*
1032808 TAAATGATGTAAGTAATGACATCA
1 TAAATGATGTAAGCAATGACATCA
1032832 ATTTAGTTTG
Statistics
Matches: 50, Mismatches: 3, Indels: 1
0.93 0.06 0.02
Matches are distributed among these distances:
29 46 0.92
30 4 0.08
ACGTcount: A:0.43, C:0.10, G:0.14, T:0.33
Consensus pattern (29 bp):
TAAATGATGTAAGCAATGACATCATTAAT
Found at i:1037560 original size:29 final size:29
Alignment explanation
Indices: 1037517--1037599 Score: 139
Period size: 29 Copynumber: 2.8 Consensus size: 29
1037507 CTCACCTAAC
1037517 TAAATTGATGTAAGCAATGACATCATTAAT
1 TAAA-TGATGTAAGCAATGACATCATTAAT
*
1037547 TAAATGATGTAAGCAATGACATCTTTAAT
1 TAAATGATGTAAGCAATGACATCATTAAT
*
1037576 TAAATGATGTAAGTAATGACATCA
1 TAAATGATGTAAGCAATGACATCA
1037600 ATTTAGTTTG
Statistics
Matches: 50, Mismatches: 3, Indels: 1
0.93 0.06 0.02
Matches are distributed among these distances:
29 46 0.92
30 4 0.08
ACGTcount: A:0.43, C:0.10, G:0.14, T:0.33
Consensus pattern (29 bp):
TAAATGATGTAAGCAATGACATCATTAAT
Found at i:1049523 original size:20 final size:19
Alignment explanation
Indices: 1049494--1049533 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 19
1049484 TGGCATAACC
*
1049494 AAAATGTTCACATTTATCAT
1 AAAATATTCACATTTA-CAT
*
1049514 AAAATATTCATATTTACAT
1 AAAATATTCACATTTACAT
1049533 A
1 A
1049534 TATTTAGATA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 4 0.22
20 14 0.78
ACGTcount: A:0.45, C:0.12, G:0.03, T:0.40
Consensus pattern (19 bp):
AAAATATTCACATTTACAT
Found at i:1053053 original size:28 final size:28
Alignment explanation
Indices: 1052997--1053096 Score: 119
Period size: 28 Copynumber: 3.5 Consensus size: 28
1052987 CAACTTTTAA
*
1052997 GAAATTAGCACCCTTTTTAAAAATAATTAC
1 GAAAATAGCACCC-TTTT-AAAATAATTAC
*
1053027 GAAAATAGCACCCTTCTAAAATAATTAC
1 GAAAATAGCACCCTTTTAAAATAATTAC
* * * *
1053055 AAAAACAGTACCCTTTTAAAGTTAATTAC
1 GAAAATAGCACCCTTTTAAA-ATAATTAC
1053084 GAAAATAGCACCC
1 GAAAATAGCACCC
1053097 GGGTCGGGTC
Statistics
Matches: 59, Mismatches: 10, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
28 27 0.46
29 20 0.34
30 12 0.20
ACGTcount: A:0.45, C:0.20, G:0.08, T:0.27
Consensus pattern (28 bp):
GAAAATAGCACCCTTTTAAAATAATTAC
Found at i:1053114 original size:13 final size:13
Alignment explanation
Indices: 1053096--1053120 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1053086 AAATAGCACC
1053096 CGGGTCGGGTCAG
1 CGGGTCGGGTCAG
1053109 CGGGTCGGGTCA
1 CGGGTCGGGTCA
1053121 AACCGGTTCG
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:0.08, C:0.24, G:0.52, T:0.16
Consensus pattern (13 bp):
CGGGTCGGGTCAG
Found at i:1053164 original size:19 final size:19
Alignment explanation
Indices: 1053116--1053165 Score: 64
Period size: 19 Copynumber: 2.6 Consensus size: 19
1053106 CAGCGGGTCG
*
1053116 GGTCAAACCGGTTCGGACC
1 GGTCAAACCGGTTCAGACC
* *
1053135 GGTTAAACCGGTTCAGACT
1 GGTCAAACCGGTTCAGACC
*
1053154 GGTCAAGCCGGT
1 GGTCAAACCGGT
1053166 CAAACAATGC
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
19 26 1.00
ACGTcount: A:0.22, C:0.26, G:0.32, T:0.20
Consensus pattern (19 bp):
GGTCAAACCGGTTCAGACC
Found at i:1054637 original size:18 final size:18
Alignment explanation
Indices: 1054582--1054663 Score: 89
Period size: 18 Copynumber: 4.6 Consensus size: 18
1054572 ATTCTAAATG
* *
1054582 TTTATAGTTATCAGA-CA
1 TTTACAGTTATCAGATGA
1054599 TTTCACAGTTATCAGAT-A
1 TTT-ACAGTTATCAGATGA
*
1054617 TTTACAGTTATCAAATGA
1 TTTACAGTTATCAGATGA
*
1054635 TTTTA-AGTTATCAGATGT
1 -TTTACAGTTATCAGATGA
1054653 TTTACAGTTAT
1 TTTACAGTTAT
1054664 TAGACGTAGA
Statistics
Matches: 56, Mismatches: 4, Indels: 9
0.81 0.06 0.13
Matches are distributed among these distances:
17 19 0.34
18 33 0.59
19 4 0.07
ACGTcount: A:0.33, C:0.11, G:0.12, T:0.44
Consensus pattern (18 bp):
TTTACAGTTATCAGATGA
Found at i:1056279 original size:30 final size:29
Alignment explanation
Indices: 1056243--1056347 Score: 140
Period size: 29 Copynumber: 3.6 Consensus size: 29
1056233 CAGTCAACTT
*
1056243 TTACGAAAATAGCACCATTTTTAAAAATAA
1 TTACGAAAATAGCACC-CTTTTAAAAATAA
*
1056273 TTACGAAAAT-GACACCCTTCTAAAAATAA
1 TTACGAAAATAG-CACCCTTTTAAAAATAA
* * *
1056302 TTACAAAAATAACACCCTTTTAAAATTAA
1 TTACGAAAATAGCACCCTTTTAAAAATAA
1056331 TTACGAAAATAGCACCC
1 TTACGAAAATAGCACCC
1056348 AGATCGGGTC
Statistics
Matches: 65, Mismatches: 8, Indels: 5
0.83 0.10 0.06
Matches are distributed among these distances:
29 51 0.78
30 14 0.22
ACGTcount: A:0.49, C:0.19, G:0.06, T:0.27
Consensus pattern (29 bp):
TTACGAAAATAGCACCCTTTTAAAAATAA
Found at i:1063353 original size:12 final size:12
Alignment explanation
Indices: 1063336--1063368 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
1063326 CCCAAGAGCT
1063336 TCTCGAGGGGCC
1 TCTCGAGGGGCC
1063348 TCTCGAGGGGCC
1 TCTCGAGGGGCC
*
1063360 TGTCGAGGG
1 TCTCGAGGG
1063369 ATCCCGGAGG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.09, C:0.27, G:0.45, T:0.18
Consensus pattern (12 bp):
TCTCGAGGGGCC
Found at i:1075269 original size:169 final size:174
Alignment explanation
Indices: 1074990--1075332 Score: 651
Period size: 169 Copynumber: 2.0 Consensus size: 174
1074980 TCGTGTTCGA
1074990 ACTCGAAGCATCTCAAAATAACAGCCACCCTTTTAGTTGGTGCATTGATTTTCCTTCCTTGATTC
1 ACTCGAAGCATCTCAAAATAACAGCCACCCTTTTAGTTGGTGCATTGATTTTCCTTCCTTGATTC
1075055 AGCTTCAAAATTTGTAAGATGAGTTGACCCATGCACGACGGCATTTAGTTTAGATAAATAAGGAA
66 AGCTTCAAAATTTGTAAGATGAGTTGACCCATGCACGACGGCATTTAGTTTAGATAAATAAGGAA
1075120 CCGTGTGAATC-AA-A-T-TATTTATGATAAC-AAACTTCAAAC
131 CCGTGTGAATCAAATATTATATTTATGATAACAAAACTTCAAAC
1075159 ACTCGAAGCATCTCAAAATAACAGCCACCCTTTTAGTTGGTGCATTGATTTTCCTTCCTTGATTC
1 ACTCGAAGCATCTCAAAATAACAGCCACCCTTTTAGTTGGTGCATTGATTTTCCTTCCTTGATTC
1075224 AGCTTCAAAATTTGTAAGATGAGTTGACCCATGCACGACGGCATTTAGTTTAGATAAATAAGGAA
66 AGCTTCAAAATTTGTAAGATGAGTTGACCCATGCACGACGGCATTTAGTTTAGATAAATAAGGAA
1075289 CCGTGTGAATCAAATATTATATTTATGATAACAAAACTTCAAAC
131 CCGTGTGAATCAAATATTATATTTATGATAACAAAACTTCAAAC
1075333 GTATTTCTTA
Statistics
Matches: 169, Mismatches: 0, Indels: 5
0.97 0.00 0.03
Matches are distributed among these distances:
169 141 0.83
170 2 0.01
171 1 0.01
172 1 0.01
173 13 0.08
174 11 0.07
ACGTcount: A:0.34, C:0.19, G:0.16, T:0.31
Consensus pattern (174 bp):
ACTCGAAGCATCTCAAAATAACAGCCACCCTTTTAGTTGGTGCATTGATTTTCCTTCCTTGATTC
AGCTTCAAAATTTGTAAGATGAGTTGACCCATGCACGACGGCATTTAGTTTAGATAAATAAGGAA
CCGTGTGAATCAAATATTATATTTATGATAACAAAACTTCAAAC
Found at i:1076290 original size:72 final size:72
Alignment explanation
Indices: 1076173--1076388 Score: 360
Period size: 72 Copynumber: 3.0 Consensus size: 72
1076163 ACTATCAACA
* *
1076173 ATGTTTGCAGGGACGAACGCAGGATCGTTGGTGTTGTTCCCAAGCTGTCCTTGTAAGAACAAATT
1 ATGTTTGCAGGGACGGACGCAGGATCGTTGGTGTTGTTCCCAAGCTGTCCTTGTAAGAACAAATC
1076238 CGCATCC
66 CGCATCC
* * * *
1076245 ATGTTTTCAGGGATGGACACAGGATCGTTGGTGTTGTTCCCAAGCTGTCCTTCTAAGAACAAATC
1 ATGTTTGCAGGGACGGACGCAGGATCGTTGGTGTTGTTCCCAAGCTGTCCTTGTAAGAACAAATC
1076310 CGCATCC
66 CGCATCC
* *
1076317 ATGTTTGCAGGGACGGATGCAGGATCGTTGGTGTTGTTCTCAAGCTGTCCTTGTAAGAACAAATC
1 ATGTTTGCAGGGACGGACGCAGGATCGTTGGTGTTGTTCCCAAGCTGTCCTTGTAAGAACAAATC
1076382 CGCATCC
66 CGCATCC
1076389 GTCACTTCAT
Statistics
Matches: 132, Mismatches: 12, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
72 132 1.00
ACGTcount: A:0.23, C:0.22, G:0.26, T:0.29
Consensus pattern (72 bp):
ATGTTTGCAGGGACGGACGCAGGATCGTTGGTGTTGTTCCCAAGCTGTCCTTGTAAGAACAAATC
CGCATCC
Found at i:1076712 original size:209 final size:210
Alignment explanation
Indices: 1076304--1076726 Score: 668
Period size: 209 Copynumber: 2.0 Consensus size: 210
1076294 CTTCTAAGAA
* *
1076304 CAAATCCGCATCCATGTTTGCAGGGACGGATGCAGGATCGTTGGTGTTGTTCTCAAGCTGTCCTT
1 CAAATCCGCATCCATGTTTGCAGGGACGGATGCAGGATCGTTGGTGTTGTTCCCAAACTGTCCTT
* *
1076369 GTAAGAACAAATCCGCATCCGTCACTTCATTTTAAAAACCGGCTTGTGTGTTGGTCGAAAACATG
66 GTAAGAACAAATCCGCATCCGTCACGTCATCTTAAAAACCGGCTTGTGTGTTGGTCGAAAACATG
* *
1076434 TTTTGACGATGATTATCTAATGTTTGGAACATTGGTGGTTGCTGCTGCAAAGGGAAAGGTCCCGC
131 TTTTGACCATGATCATCTAATGTTTGGAACATTGGTGGTTGCTGCTGCAAAGGGAAAGGTCCCGC
*
1076499 AAATTCACTTTGTGG
196 AAATTCACTTGGTGG
* *
1076514 CAAATTCGCATCCATGTTTGCAGGTACGGATGCAGGATCGTTGGTGTTGTTCCCAAACTGTCCTT
1 CAAATCCGCATCCATGTTTGCAGGGACGGATGCAGGATCGTTGGTGTTGTTCCCAAACTGTCCTT
* * * * * *
1076579 GTAAGAACAAATTCGCATCCGTCACGTCA-CTTGAAAACCGGGTTGTGTGTTGTTTGACAACATG
66 GTAAGAACAAATCCGCATCCGTCACGTCATCTTAAAAACCGGCTTGTGTGTTGGTCGAAAACATG
** * *
1076643 TTTTGACCATGATCATCTAATGTTTGGAACATTGGTGGTTGCTGCTGCAAAGGGACTGGTTCTGC
131 TTTTGACCATGATCATCTAATGTTTGGAACATTGGTGGTTGCTGCTGCAAAGGGAAAGGTCCCGC
1076708 AAATTCACTTGGTGG
196 AAATTCACTTGGTGG
1076723 CAAA
1 CAAA
1076727 CAGTTGTACT
Statistics
Matches: 194, Mismatches: 19, Indels: 1
0.91 0.09 0.00
Matches are distributed among these distances:
209 106 0.55
210 88 0.45
ACGTcount: A:0.24, C:0.20, G:0.25, T:0.31
Consensus pattern (210 bp):
CAAATCCGCATCCATGTTTGCAGGGACGGATGCAGGATCGTTGGTGTTGTTCCCAAACTGTCCTT
GTAAGAACAAATCCGCATCCGTCACGTCATCTTAAAAACCGGCTTGTGTGTTGGTCGAAAACATG
TTTTGACCATGATCATCTAATGTTTGGAACATTGGTGGTTGCTGCTGCAAAGGGAAAGGTCCCGC
AAATTCACTTGGTGG
Found at i:1085072 original size:28 final size:28
Alignment explanation
Indices: 1085032--1085086 Score: 74
Period size: 28 Copynumber: 2.0 Consensus size: 28
1085022 AAATTAGAAA
* * *
1085032 ATTTTTAAAAAAAATCGGTTCGGTTAAT
1 ATTTTAAAAAAAAATAGGTTCGATTAAT
*
1085060 ATTTTAAAAAAAATTAGGTTCGATTAA
1 ATTTTAAAAAAAAATAGGTTCGATTAA
1085087 CGGTTAAAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 23 1.00
ACGTcount: A:0.44, C:0.05, G:0.13, T:0.38
Consensus pattern (28 bp):
ATTTTAAAAAAAAATAGGTTCGATTAAT
Found at i:1085493 original size:18 final size:18
Alignment explanation
Indices: 1085470--1085505 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
1085460 ATTTACACTC
*
1085470 AAGATGGTGATGATGCCA
1 AAGATGATGATGATGCCA
1085488 AAGATGATGATGATGCCA
1 AAGATGATGATGATGCCA
1085506 CTTTTGAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.36, C:0.11, G:0.31, T:0.22
Consensus pattern (18 bp):
AAGATGATGATGATGCCA
Found at i:1086122 original size:61 final size:60
Alignment explanation
Indices: 1085975--1086156 Score: 177
Period size: 61 Copynumber: 3.0 Consensus size: 60
1085965 ATCATATGAT
* ** * * * *
1085975 CCCAAAGCTATGACCTTCATTTTAAATTCTTCCTTAAATTTTTGAATCTTTCGATTTCATC
1 CCCAAA-CTATGACCCTCATTTTAAATTAGTCCTTAAACTTTTGAATCTTCCAAATTCATC
* * * *
1086036 CTCAAACTATGACTCTCATTCTAAATTAGTCCTTAAACTTTTGAA-CATTCCAAATTCTTC
1 CCCAAACTATGACCCTCATTTTAAATTAGTCCTTAAACTTTTGAATC-TTCCAAATTCATC
* * ** * *
1086096 CCCTAAACTATGGCCCTCATTTTAAATTGGTCCCCAAACTTTTAAATCTTCCAATTTCATC
1 CCC-AAACTATGACCCTCATTTTAAATTAGTCCTTAAACTTTTGAATCTTCCAAATTCATC
1086157 ATCGAATCCA
Statistics
Matches: 97, Mismatches: 21, Indels: 6
0.78 0.17 0.05
Matches are distributed among these distances:
59 1 0.01
60 44 0.45
61 51 0.53
62 1 0.01
ACGTcount: A:0.29, C:0.26, G:0.06, T:0.40
Consensus pattern (60 bp):
CCCAAACTATGACCCTCATTTTAAATTAGTCCTTAAACTTTTGAATCTTCCAAATTCATC
Found at i:1086350 original size:31 final size:32
Alignment explanation
Indices: 1086312--1086397 Score: 83
Period size: 28 Copynumber: 2.8 Consensus size: 32
1086302 GAAATGTTCA
1086312 AAAAGTTTGAGGACTAATTTAGAATGAAG-GC
1 AAAAGTTTGAGGACTAATTTAGAATGAAGTGC
* * * * * *
1086343 CATAGTTTGGGGA-AAAATT-GAA--AAGTTC
1 AAAAGTTTGAGGACTAATTTAGAATGAAGTGC
1086371 AAAAGTTTGAGGACTAATTTAGAATGA
1 AAAAGTTTGAGGACTAATTTAGAATGA
1086398 TATCATATTA
Statistics
Matches: 39, Mismatches: 11, Indels: 9
0.66 0.19 0.15
Matches are distributed among these distances:
27 3 0.08
28 11 0.28
29 7 0.18
30 7 0.18
31 10 0.26
32 1 0.03
ACGTcount: A:0.42, C:0.06, G:0.24, T:0.28
Consensus pattern (32 bp):
AAAAGTTTGAGGACTAATTTAGAATGAAGTGC
Found at i:1086420 original size:59 final size:59
Alignment explanation
Indices: 1086284--1086458 Score: 189
Period size: 59 Copynumber: 3.0 Consensus size: 59
1086274 GTATATACGT
*
1086284 ATAGTTT-GGGATGAAATTGAAATGTTCAAAAAGTTTGAGGACTAATTTAGAATGAAGGCC
1 ATAGTTTAAGGATGAAATTGAAATGTTC-AAAAGTTTGAGGACTAATTTAGAATGAA-GCC
** * * *
1086344 ATAGTTTGGGGA-AAAATTGAAAAGTTCAAAAGTTTGAGGACTAATTTAGAATGATA-TC
1 ATAGTTTAAGGATGAAATTGAAATGTTCAAAAGTTTGAGGACTAATTTAGAATGA-AGCC
* * *
1086402 ATA-TTATAAGGATGAAATTGGAATGATT-AAAAGTTTAAGGATTAATTTAGAATGAAG
1 ATAGTT-TAAGGATGAAATTGAAATG-TTCAAAAGTTTGAGGACTAATTTAGAATGAAG
1086459 ATCATAATTT
Statistics
Matches: 99, Mismatches: 10, Indels: 13
0.81 0.08 0.11
Matches are distributed among these distances:
57 2 0.02
58 9 0.09
59 61 0.62
60 23 0.23
61 4 0.04
ACGTcount: A:0.42, C:0.04, G:0.23, T:0.31
Consensus pattern (59 bp):
ATAGTTTAAGGATGAAATTGAAATGTTCAAAAGTTTGAGGACTAATTTAGAATGAAGCC
Found at i:1086454 original size:29 final size:30
Alignment explanation
Indices: 1086371--1086456 Score: 86
Period size: 29 Copynumber: 2.9 Consensus size: 30
1086361 TGAAAAGTTC
* *
1086371 AAAAGTTTGAGGACTAATTTAGAATGATAT
1 AAAAGTTTAAGGATTAATTTAGAATGATAT
* * * * *
1086401 CATA-TTATAAGGATGAAATTGGAATGAT-T
1 AAAAGTT-TAAGGATTAATTTAGAATGATAT
1086430 AAAAGTTTAAGGATTAATTTAGAATGA
1 AAAAGTTTAAGGATTAATTTAGAATGA
1086457 AGATCATAAT
Statistics
Matches: 42, Mismatches: 12, Indels: 5
0.71 0.20 0.08
Matches are distributed among these distances:
29 22 0.52
30 20 0.48
ACGTcount: A:0.44, C:0.02, G:0.20, T:0.34
Consensus pattern (30 bp):
AAAAGTTTAAGGATTAATTTAGAATGATAT
Found at i:1086616 original size:60 final size:60
Alignment explanation
Indices: 1086549--1086680 Score: 183
Period size: 60 Copynumber: 2.2 Consensus size: 60
1086539 GCATCATATG
* * * * *
1086549 TCCCCAAACTATAACCCTTATTCTAAATTAGTCCTTAAACTTTTTAATATTTTAATTTCA
1 TCCCCAAACTATAACCCTCATTCTAAAGTAGTCCTTAAACTTTTGAACATTCTAATTTCA
* * *
1086609 TCCCCAAACTATGACTCTCATTCTAAAGTAGTCTTTAAACTTTTGAACATTCTAATTTCA
1 TCCCCAAACTATAACCCTCATTCTAAAGTAGTCCTTAAACTTTTGAACATTCTAATTTCA
*
1086669 TCCCAAAACTAT
1 TCCCCAAACTAT
1086681 TACTCCCTTT
Statistics
Matches: 63, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
60 63 1.00
ACGTcount: A:0.33, C:0.23, G:0.04, T:0.39
Consensus pattern (60 bp):
TCCCCAAACTATAACCCTCATTCTAAAGTAGTCCTTAAACTTTTGAACATTCTAATTTCA
Found at i:1086709 original size:60 final size:60
Alignment explanation
Indices: 1086568--1086715 Score: 147
Period size: 60 Copynumber: 2.5 Consensus size: 60
1086558 TATAACCCTT
* * * * * * *
1086568 ATTCTAAATTAGTC-CTTAAACTTTTTAATATTTTAATTTCATCCCCAAACTATGACTCTC
1 ATTCTAAAGTAGTCGC-CAAACTTTTGAACATTCTAATTTCATCCCAAAACTATGACTCCC
*** *
1086628 ATTCTAAAGTAGTCTTTAAACTTTTGAACATTCTAATTTCATCCCAAAACTATTACTCCC
1 ATTCTAAAGTAGTCGCCAAACTTTTGAACATTCTAATTTCATCCCAAAACTATGACTCCC
* *
1086688 TTTCTTAA-TAAGTCGCCAAACTTTTGAA
1 ATTCTAAAGT-AGTCGCCAAACTTTTGAA
1086716 TATCCCACTT
Statistics
Matches: 73, Mismatches: 13, Indels: 4
0.81 0.14 0.04
Matches are distributed among these distances:
59 1 0.01
60 72 0.99
ACGTcount: A:0.32, C:0.22, G:0.05, T:0.41
Consensus pattern (60 bp):
ATTCTAAAGTAGTCGCCAAACTTTTGAACATTCTAATTTCATCCCAAAACTATGACTCCC
Found at i:1088267 original size:27 final size:27
Alignment explanation
Indices: 1088236--1088300 Score: 96
Period size: 28 Copynumber: 2.4 Consensus size: 27
1088226 TGTTCGGGTC
1088236 GGGTCGGGTTTTTTAAGTGTGATATTCT
1 GGGTCGGGTTTTTTAAGTGTGATATT-T
*
1088264 -GGTCGGATTTTTTTAAGTGTGATATTT
1 GGGTCGG-GTTTTTTAAGTGTGATATTT
1088291 GGGTCGGGTT
1 GGGTCGGGTT
1088301 CGGGTTTAGG
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
27 9 0.27
28 24 0.73
ACGTcount: A:0.14, C:0.06, G:0.34, T:0.46
Consensus pattern (27 bp):
GGGTCGGGTTTTTTAAGTGTGATATTT
Found at i:1088719 original size:18 final size:18
Alignment explanation
Indices: 1088687--1088746 Score: 95
Period size: 18 Copynumber: 3.4 Consensus size: 18
1088677 AATTTTATTC
*
1088687 CAATTCC-TGACAGATTT
1 CAATTCCTTCACAGATTT
1088704 CAATTCCTTCACAGATTT
1 CAATTCCTTCACAGATTT
*
1088722 CAATTCCTTCATAGATTT
1 CAATTCCTTCACAGATTT
1088740 CAATTCC
1 CAATTCC
1088747 CTCATAAACA
Statistics
Matches: 40, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
17 7 0.17
18 33 0.82
ACGTcount: A:0.28, C:0.27, G:0.07, T:0.38
Consensus pattern (18 bp):
CAATTCCTTCACAGATTT
Found at i:1088751 original size:18 final size:18
Alignment explanation
Indices: 1088698--1088752 Score: 92
Period size: 18 Copynumber: 3.1 Consensus size: 18
1088688 AATTCCTGAC
*
1088698 AGATTTCAATTCCTTCAC
1 AGATTTCAATTCCTTCAT
1088716 AGATTTCAATTCCTTCAT
1 AGATTTCAATTCCTTCAT
*
1088734 AGATTTCAATTCCCTCAT
1 AGATTTCAATTCCTTCAT
1088752 A
1 A
1088753 AACATTCTAG
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 35 1.00
ACGTcount: A:0.29, C:0.25, G:0.05, T:0.40
Consensus pattern (18 bp):
AGATTTCAATTCCTTCAT
Found at i:1089474 original size:30 final size:31
Alignment explanation
Indices: 1089432--1089498 Score: 109
Period size: 30 Copynumber: 2.2 Consensus size: 31
1089422 ATTAATATGT
*
1089432 TCTTATAAAAATATGTCTTATTGTTTGTTAA
1 TCTTATAAAAATATGTCTTATTGTTTGATAA
*
1089463 TCTTA-AAAAATATGTCTTCTTGTTTGATAA
1 TCTTATAAAAATATGTCTTATTGTTTGATAA
1089493 TCTTAT
1 TCTTAT
1089499 CATTTAGACT
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
30 28 0.85
31 5 0.15
ACGTcount: A:0.31, C:0.09, G:0.09, T:0.51
Consensus pattern (31 bp):
TCTTATAAAAATATGTCTTATTGTTTGATAA
Found at i:1089813 original size:16 final size:16
Alignment explanation
Indices: 1089734--1089871 Score: 80
Period size: 16 Copynumber: 8.6 Consensus size: 16
1089724 TATTGATCTT
* *
1089734 GTTCGGTTTACTTTCG
1 GTTCGGGTTAATTTCG
* *
1089750 GATT-GGGTTAAATTCA
1 G-TTCGGGTTAATTTCG
* * *
1089766 GTTCGAGTTACTTTCA
1 GTTCGGGTTAATTTCG
* ** *
1089782 ATTCAAGTTATTTTCG
1 GTTCGGGTTAATTTCG
*
1089798 GTTCGGGTTACTTTCG
1 GTTCGGGTTAATTTCG
** ** *
1089814 GTTTTGGTTGTTTTTG
1 GTTCGGGTTAATTTCG
*
1089830 GTTTGGGTTAATTTCG
1 GTTCGGGTTAATTTCG
*
1089846 GTTCGGGTTAATTTTG
1 GTTCGGGTTAATTTCG
*
1089862 GTTTGGGTTA
1 GTTCGGGTTA
1089872 TTTTTTATTC
Statistics
Matches: 93, Mismatches: 27, Indels: 4
0.75 0.22 0.03
Matches are distributed among these distances:
15 2 0.02
16 89 0.96
17 2 0.02
ACGTcount: A:0.14, C:0.10, G:0.27, T:0.49
Consensus pattern (16 bp):
GTTCGGGTTAATTTCG
Found at i:1089876 original size:16 final size:16
Alignment explanation
Indices: 1089788--1089875 Score: 97
Period size: 16 Copynumber: 5.5 Consensus size: 16
1089778 TTCAATTCAA
*
1089788 GTTATTTTCGGTTCGG
1 GTTATTTTCGGTTTGG
* *
1089804 GTTACTTTCGGTTTTG
1 GTTATTTTCGGTTTGG
* *
1089820 GTTGTTTTTGGTTTGG
1 GTTATTTTCGGTTTGG
* *
1089836 GTTAATTTCGGTTCGG
1 GTTATTTTCGGTTTGG
1089852 GTTAATTTT-GGTTTGG
1 GTT-ATTTTCGGTTTGG
1089868 GTTATTTT
1 GTTATTTT
1089876 TTATTCGGGT
Statistics
Matches: 58, Mismatches: 13, Indels: 3
0.78 0.18 0.04
Matches are distributed among these distances:
15 5 0.09
16 49 0.84
17 4 0.07
ACGTcount: A:0.08, C:0.07, G:0.30, T:0.56
Consensus pattern (16 bp):
GTTATTTTCGGTTTGG
Found at i:1089883 original size:32 final size:32
Alignment explanation
Indices: 1089825--1089885 Score: 86
Period size: 32 Copynumber: 1.9 Consensus size: 32
1089815 TTTTGGTTGT
*
1089825 TTTTGGTTTGGGTTAATTTCGGTTCGGGTTAA
1 TTTTGGTTTGGGTTAATTTCGATTCGGGTTAA
* **
1089857 TTTTGGTTTGGGTTATTTTTTATTCGGGT
1 TTTTGGTTTGGGTTAATTTCGATTCGGGT
1089886 CAAATTGGAT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
32 25 1.00
ACGTcount: A:0.10, C:0.05, G:0.30, T:0.56
Consensus pattern (32 bp):
TTTTGGTTTGGGTTAATTTCGATTCGGGTTAA
Found at i:1089885 original size:16 final size:16
Alignment explanation
Indices: 1089834--1089885 Score: 50
Period size: 16 Copynumber: 3.2 Consensus size: 16
1089824 TTTTTGGTTT
* *
1089834 GGGTTAATTTCGGTTC
1 GGGTTAATTTTGATTC
* *
1089850 GGGTTAATTTTGGTTT
1 GGGTTAATTTTGATTC
* *
1089866 GGGTTATTTTTTATTC
1 GGGTTAATTTTGATTC
1089882 GGGT
1 GGGT
1089886 CAAATTGGAT
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
16 30 1.00
ACGTcount: A:0.12, C:0.06, G:0.31, T:0.52
Consensus pattern (16 bp):
GGGTTAATTTTGATTC
Found at i:1092116 original size:16 final size:16
Alignment explanation
Indices: 1092095--1092128 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
1092085 CCACCACTTG
1092095 TCTCTTCTGTTCCCTT
1 TCTCTTCTGTTCCCTT
1092111 TCTCTTCTGTTCCCTT
1 TCTCTTCTGTTCCCTT
1092127 TC
1 TC
1092129 AACTGCAAGT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.00, C:0.38, G:0.06, T:0.56
Consensus pattern (16 bp):
TCTCTTCTGTTCCCTT
Found at i:1092168 original size:41 final size:41
Alignment explanation
Indices: 1092111--1092190 Score: 151
Period size: 41 Copynumber: 2.0 Consensus size: 41
1092101 CTGTTCCCTT
*
1092111 TCTCTTCTGTTCCCTTTCAACTGCAAGTAGGGATGCACTTA
1 TCTCTTCTGTTCCCTTTCAACTACAAGTAGGGATGCACTTA
1092152 TCTCTTCTGTTCCCTTTCAACTACAAGTAGGGATGCACT
1 TCTCTTCTGTTCCCTTTCAACTACAAGTAGGGATGCACT
1092191 ACGAGGGATG
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
41 38 1.00
ACGTcount: A:0.20, C:0.28, G:0.16, T:0.36
Consensus pattern (41 bp):
TCTCTTCTGTTCCCTTTCAACTACAAGTAGGGATGCACTTA
Found at i:1092268 original size:24 final size:21
Alignment explanation
Indices: 1092230--1092277 Score: 51
Period size: 24 Copynumber: 2.1 Consensus size: 21
1092220 ATTTTTTAAA
* *
1092230 TTATTATATATTTTTTATTTT
1 TTATTATATATTTTTCATCTT
1092251 TTATTAATAATATGTTTTCATCTT
1 TTATT-AT-ATAT-TTTTCATCTT
1092275 TTA
1 TTA
1092278 AAATTTAATA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
21 5 0.23
22 2 0.09
23 4 0.18
24 11 0.50
ACGTcount: A:0.27, C:0.04, G:0.02, T:0.67
Consensus pattern (21 bp):
TTATTATATATTTTTCATCTT
Found at i:1092803 original size:20 final size:20
Alignment explanation
Indices: 1092780--1092827 Score: 78
Period size: 20 Copynumber: 2.4 Consensus size: 20
1092770 AGTTATCAAA
1092780 TTTATAATTTATCCTAAAGT
1 TTTATAATTTATCCTAAAGT
* *
1092800 TTTATAATTTATCCTAGATT
1 TTTATAATTTATCCTAAAGT
1092820 TTTATAAT
1 TTTATAAT
1092828 ATTTAAATGA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.33, C:0.08, G:0.04, T:0.54
Consensus pattern (20 bp):
TTTATAATTTATCCTAAAGT
Found at i:1097903 original size:21 final size:23
Alignment explanation
Indices: 1097868--1097915 Score: 64
Period size: 22 Copynumber: 2.2 Consensus size: 23
1097858 TTAAGACGGT
*
1097868 TTTAACTTAAAATATTAT-TATA
1 TTTAACTTAAAATATTATATAAA
*
1097890 TTTAGCTT-AAATATTATATAAA
1 TTTAACTTAAAATATTATATAAA
1097912 TTTA
1 TTTA
1097916 TAATATTTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
21 9 0.39
22 14 0.61
ACGTcount: A:0.44, C:0.04, G:0.02, T:0.50
Consensus pattern (23 bp):
TTTAACTTAAAATATTATATAAA
Found at i:1102576 original size:24 final size:23
Alignment explanation
Indices: 1102549--1102606 Score: 62
Period size: 24 Copynumber: 2.5 Consensus size: 23
1102539 ATCCACCATA
*
1102549 ATTTCATAAATATTTTATTTATAT
1 ATTTCATAAATAATTTATTT-TAT
* * *
1102573 ATTTGATTAATAATTTATTTTGT
1 ATTTCATAAATAATTTATTTTAT
*
1102596 ATTTTATAAAT
1 ATTTCATAAAT
1102607 TTATTTTTTT
Statistics
Matches: 28, Mismatches: 6, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
23 11 0.39
24 17 0.61
ACGTcount: A:0.36, C:0.02, G:0.03, T:0.59
Consensus pattern (23 bp):
ATTTCATAAATAATTTATTTTAT
Found at i:1112945 original size:25 final size:24
Alignment explanation
Indices: 1112900--1112953 Score: 65
Period size: 25 Copynumber: 2.2 Consensus size: 24
1112890 TATTATATAT
* * *
1112900 TTTTAATTTTTTAGTATTTTATTA
1 TTTTAATTTTTGAATAGTTTATTA
1112924 TATTTAATTTTTGAATAGTTTA-TA
1 T-TTTAATTTTTGAATAGTTTATTA
1112948 TTTTAA
1 TTTTAA
1112954 ATTTAAAATA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
23 5 0.19
24 4 0.15
25 17 0.65
ACGTcount: A:0.30, C:0.00, G:0.06, T:0.65
Consensus pattern (24 bp):
TTTTAATTTTTGAATAGTTTATTA
Found at i:1113356 original size:64 final size:64
Alignment explanation
Indices: 1113277--1113399 Score: 210
Period size: 64 Copynumber: 1.9 Consensus size: 64
1113267 CTTTTGCCCT
* *
1113277 AAAAATTTCCCGATAAATATTTATCCCTAACATCGAGTAAAATTATCATTCCTAATATCCCTAA
1 AAAAAATTCCCGATAAATATTTATCCCTAACATCGAGTAAAATTATCATCCCTAATATCCCTAA
* *
1113341 AAAAAATTCCTGATAAATATTTATCCCTAATATCGAGTAAAATTATCATCCCTAATATC
1 AAAAAATTCCCGATAAATATTTATCCCTAACATCGAGTAAAATTATCATCCCTAATATC
1113400 GCTTGTTAAA
Statistics
Matches: 55, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
64 55 1.00
ACGTcount: A:0.41, C:0.20, G:0.05, T:0.33
Consensus pattern (64 bp):
AAAAAATTCCCGATAAATATTTATCCCTAACATCGAGTAAAATTATCATCCCTAATATCCCTAA
Found at i:1116592 original size:14 final size:14
Alignment explanation
Indices: 1116573--1116603 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
1116563 AACCAAAAAC
1116573 TATCAAGAAAGCTA
1 TATCAAGAAAGCTA
1116587 TATCAAGAAAGCTA
1 TATCAAGAAAGCTA
1116601 TAT
1 TAT
1116604 GTTCCCTTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.48, C:0.13, G:0.13, T:0.26
Consensus pattern (14 bp):
TATCAAGAAAGCTA
Found at i:1118416 original size:19 final size:19
Alignment explanation
Indices: 1118394--1118432 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
1118384 ATATCGAATG
* *
1118394 CATTTTATGCATCGATGCA
1 CATTTGATGCACCGATGCA
*
1118413 CATTTGGTGCACCGATGCA
1 CATTTGATGCACCGATGCA
1118432 C
1 C
1118433 TAAGTGTTCC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.23, C:0.26, G:0.21, T:0.31
Consensus pattern (19 bp):
CATTTGATGCACCGATGCA
Found at i:1120369 original size:21 final size:21
Alignment explanation
Indices: 1120344--1120383 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
1120334 AAGACTCTAT
1120344 TTTCAAAATACAAAAATGATA
1 TTTCAAAATACAAAAATGATA
**
1120365 TTTCAAAATTGAAAAATGA
1 TTTCAAAATACAAAAATGA
1120384 AAATAGTCTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.55, C:0.07, G:0.07, T:0.30
Consensus pattern (21 bp):
TTTCAAAATACAAAAATGATA
Found at i:1122355 original size:42 final size:42
Alignment explanation
Indices: 1122296--1122379 Score: 150
Period size: 42 Copynumber: 2.0 Consensus size: 42
1122286 GAAGAGTCTA
1122296 TACATGTTGTTTTCGATGATAATCCCCTTACAAGGAAGGATT
1 TACATGTTGTTTTCGATGATAATCCCCTTACAAGGAAGGATT
* *
1122338 TACATGTTGTTTTCGATGATAATCCCCTTCCAAGTAAGGATT
1 TACATGTTGTTTTCGATGATAATCCCCTTACAAGGAAGGATT
1122380 CTTGTGTTAA
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 40 1.00
ACGTcount: A:0.27, C:0.18, G:0.18, T:0.37
Consensus pattern (42 bp):
TACATGTTGTTTTCGATGATAATCCCCTTACAAGGAAGGATT
Found at i:1126106 original size:21 final size:21
Alignment explanation
Indices: 1126064--1126107 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 21
1126054 ACTCCGGGAG
* *
1126064 CTAGTTCCTCACGAGCTGCTC
1 CTAGCTCCTCACGAGCTCCTC
* *
1126085 CTAGCTCCTCTCGTGCTCCTC
1 CTAGCTCCTCACGAGCTCCTC
1126106 CT
1 CT
1126108 CCTCCTCCTC
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.09, C:0.43, G:0.16, T:0.32
Consensus pattern (21 bp):
CTAGCTCCTCACGAGCTCCTC
Found at i:1127295 original size:19 final size:19
Alignment explanation
Indices: 1127273--1127311 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
1127263 ACATCGAATG
* *
1127273 CATTTTATGCATCGATGCA
1 CATTTGATGCACCGATGCA
*
1127292 CATTTGGTGCACCGATGCA
1 CATTTGATGCACCGATGCA
1127311 C
1 C
1127312 TAAGTGTTCC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.23, C:0.26, G:0.21, T:0.31
Consensus pattern (19 bp):
CATTTGATGCACCGATGCA
Found at i:1131001 original size:23 final size:23
Alignment explanation
Indices: 1130957--1131001 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
1130947 ACATATAGAC
* **
1130957 GAATATTTTCGTGAACGTTAAAT
1 GAATATGTTCGTGAACACTAAAT
1130980 GAATATGTTCGTGAACACTAAA
1 GAATATGTTCGTGAACACTAAA
1131002 CGAACGAATA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.38, C:0.11, G:0.18, T:0.33
Consensus pattern (23 bp):
GAATATGTTCGTGAACACTAAAT
Found at i:1144121 original size:31 final size:31
Alignment explanation
Indices: 1144086--1144149 Score: 119
Period size: 31 Copynumber: 2.1 Consensus size: 31
1144076 CATTTATTAG
1144086 AATTGATCTTGACATATATAAGTATTCACGT
1 AATTGATCTTGACATATATAAGTATTCACGT
*
1144117 AATTGATCTTGATATATATAAGTATTCACGT
1 AATTGATCTTGACATATATAAGTATTCACGT
1144148 AA
1 AA
1144150 CCAGGGATGG
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.38, C:0.11, G:0.12, T:0.39
Consensus pattern (31 bp):
AATTGATCTTGACATATATAAGTATTCACGT
Found at i:1153248 original size:23 final size:24
Alignment explanation
Indices: 1153218--1153277 Score: 70
Period size: 23 Copynumber: 2.6 Consensus size: 24
1153208 GTAGATATAT
*
1153218 ATATAAACGAATA-ATTCGTGAAC
1 ATATAAACGAATATATTCGCGAAC
* *
1153241 ATATAAACAAATATTTTCGCGAAC
1 ATATAAACGAATATATTCGCGAAC
*
1153265 AT-TAAATGAATAT
1 ATATAAACGAATAT
1153278 GTTTGTGAAC
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
23 21 0.68
24 10 0.32
ACGTcount: A:0.48, C:0.12, G:0.10, T:0.30
Consensus pattern (24 bp):
ATATAAACGAATATATTCGCGAAC
Found at i:1153287 original size:23 final size:24
Alignment explanation
Indices: 1153218--1153287 Score: 65
Period size: 23 Copynumber: 3.0 Consensus size: 24
1153208 GTAGATATAT
* *
1153218 ATATAAACGAATA-ATTCGTGAAC
1 ATATAAACAAATATTTTCGTGAAC
*
1153241 ATATAAACAAATATTTTCGCGAAC
1 ATATAAACAAATATTTTCGTGAAC
**
1153265 AT-TAAATGAATATGTTT-GTGAAC
1 ATATAAACAAATAT-TTTCGTGAAC
1153288 CCTAAACGAA
Statistics
Matches: 39, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
23 26 0.67
24 13 0.33
ACGTcount: A:0.44, C:0.11, G:0.13, T:0.31
Consensus pattern (24 bp):
ATATAAACAAATATTTTCGTGAAC
Found at i:1153626 original size:31 final size:31
Alignment explanation
Indices: 1153585--1153648 Score: 92
Period size: 31 Copynumber: 2.1 Consensus size: 31
1153575 AATTTAAAAT
*
1153585 ATTTAATCACTTTCGATTTTATTTAATTAAG
1 ATTTAATCACTTTCGATTTTATGTAATTAAG
* * *
1153616 ATTTGATCACTTTTGTTTTTATGTAATTAAG
1 ATTTAATCACTTTCGATTTTATGTAATTAAG
1153647 AT
1 AT
1153649 GTCGTCATTG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.30, C:0.08, G:0.09, T:0.53
Consensus pattern (31 bp):
ATTTAATCACTTTCGATTTTATGTAATTAAG
Found at i:1166267 original size:32 final size:33
Alignment explanation
Indices: 1166213--1166285 Score: 121
Period size: 32 Copynumber: 2.2 Consensus size: 33
1166203 AAAATGGCAT
* *
1166213 CTGTTTCGTTTCGTTCTCGTACACTAATATCGA
1 CTGTTTCATTTCATTCTCGTACACTAATATCGA
1166246 CT-TTTCATTTCATTCTCGTACACTAATATCGA
1 CTGTTTCATTTCATTCTCGTACACTAATATCGA
1166278 CTGTTTCA
1 CTGTTTCA
1166286 GACAACACTA
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
32 30 0.81
33 7 0.19
ACGTcount: A:0.21, C:0.25, G:0.11, T:0.44
Consensus pattern (33 bp):
CTGTTTCATTTCATTCTCGTACACTAATATCGA
Found at i:1169140 original size:19 final size:20
Alignment explanation
Indices: 1169096--1169145 Score: 82
Period size: 20 Copynumber: 2.5 Consensus size: 20
1169086 AAAATTTATG
*
1169096 ATTTTTTAAAATATAAAATA
1 ATTTTTTAAAATATAAAACA
1169116 ATTTTTTAAAATATAAAACA
1 ATTTTTTAAAATATAAAACA
*
1169136 ATTTTATAAA
1 ATTTTTTAAA
1169146 CTTGCTATTA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (20 bp):
ATTTTTTAAAATATAAAACA
Found at i:1169462 original size:22 final size:22
Alignment explanation
Indices: 1169437--1169489 Score: 97
Period size: 22 Copynumber: 2.4 Consensus size: 22
1169427 ATATTTATAA
1169437 CATGTTTTCTTCTGTCTTTTGG
1 CATGTTTTCTTCTGTCTTTTGG
*
1169459 CATGTTTTCTTTTGTCTTTTGG
1 CATGTTTTCTTCTGTCTTTTGG
1169481 CATGTTTTC
1 CATGTTTTC
1169490 AATCGTTTGA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.06, C:0.17, G:0.17, T:0.60
Consensus pattern (22 bp):
CATGTTTTCTTCTGTCTTTTGG
Found at i:1170747 original size:2 final size:2
Alignment explanation
Indices: 1170740--1170764 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
1170730 TTTTTAATTG
1170740 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 A
1170765 ATAGTAATAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Done.