Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168004.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_26, 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: 16099665
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 97000 characters in sequence are not A, C, G, or T
File 23 of 77
Found at i:4392512 original size:199 final size:198
Alignment explanation
Indices: 4392158--4392531 Score: 662
Period size: 199 Copynumber: 1.9 Consensus size: 198
4392148 TAATTTCAAT
4392158 TATTTTTTGGTCATTATTAATTTTAAATATTTTTACATTACAACTATACATCTAACACATAATTA
1 TATTTTTTGGTCATTATTAATTTTAAATATTTTTACATTACAACTATACATCTAACACATAATTA
4392223 TAATTTAAAAATAAATAAAAAATTAAGTATTCATTTGCAACATATAGACCTAACAAGTTTTGATA
66 TAATTTAAAAATAAATAAAAAATTAAGTATTCATTTGCAACATATAGACCTAACAAGTTTTGATA
* *
4392288 TGACAAGATAATATGATATGAAAACGATATGAAAAAAATCATATATATATTTTAAAAAAATGTAT
131 TGACAAGATAATATAATACGAAAACGATATGAAAAAAA-CATATATATATTTTAAAAAAATGTAT
4392353 TTTA
195 TTTA
4392357 TATTTTTTGGTCATTATTAATTTTAAATATTTTTACATTACAACTATACATCTAACACATAATTA
1 TATTTTTTGGTCATTATTAATTTTAAATATTTTTACATTACAACTATACATCTAACACATAATTA
*
4392422 TAATTTAAAAATAAATAAAAAATTAAGTATTCATTTGCAACATATAGACCTAACCA-TTTTCGAT
66 TAATTTAAAAATAAATAAAAAATTAAGTATTCATTTGCAACATATAGACCTAACAAGTTTT-GAT
* *
4392486 ATGA-AATGGTGATATAATACGAAAACGATATGAAAAAAACATATAT
130 ATGACAA-GATAATATAATACGAAAACGATATGAAAAAAACATATAT
4392532 GTAATTTATA
Statistics
Matches: 168, Mismatches: 5, Indels: 5
0.94 0.03 0.03
Matches are distributed among these distances:
198 13 0.08
199 155 0.92
ACGTcount: A:0.46, C:0.10, G:0.07, T:0.37
Consensus pattern (198 bp):
TATTTTTTGGTCATTATTAATTTTAAATATTTTTACATTACAACTATACATCTAACACATAATTA
TAATTTAAAAATAAATAAAAAATTAAGTATTCATTTGCAACATATAGACCTAACAAGTTTTGATA
TGACAAGATAATATAATACGAAAACGATATGAAAAAAACATATATATATTTTAAAAAAATGTATT
TTA
Found at i:4393221 original size:29 final size:29
Alignment explanation
Indices: 4393189--4393273 Score: 84
Period size: 31 Copynumber: 2.9 Consensus size: 29
4393179 TATACTTGTG
4393189 TTAGTCATGTCTATTTGTATATATCAT-TA
1 TTAGTCATGTCTATTTGTATATAT-ATGTA
* * *
4393218 TTAGTTATATCTATTCATATATATATATGTA
1 TTAGTCATGTCTATT--TGTATATATATGTA
* *
4393249 TTATTCATGTTTATTTGTAT-TATAT
1 TTAGTCATGTCTATTTGTATATATAT
4393274 TTAAACTGAT
Statistics
Matches: 45, Mismatches: 8, Indels: 7
0.75 0.13 0.12
Matches are distributed among these distances:
28 5 0.11
29 17 0.38
30 2 0.04
31 21 0.47
ACGTcount: A:0.29, C:0.07, G:0.08, T:0.55
Consensus pattern (29 bp):
TTAGTCATGTCTATTTGTATATATATGTA
Found at i:4394342 original size:31 final size:31
Alignment explanation
Indices: 4394285--4394343 Score: 75
Period size: 31 Copynumber: 1.9 Consensus size: 31
4394275 AAACTTACTT
*
4394285 ATTAATGAGGTAGTATAATCTGATTCATCTC
1 ATTAATGAGGTAGTATAATCTAATTCATCTC
* *
4394316 ATTAATGATGT-GATATTATCTAATTCAT
1 ATTAATGAGGTAG-TATAATCTAATTCAT
4394344 TGACAGTATA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 1 0.04
31 23 0.96
ACGTcount: A:0.34, C:0.10, G:0.14, T:0.42
Consensus pattern (31 bp):
ATTAATGAGGTAGTATAATCTAATTCATCTC
Found at i:4396846 original size:27 final size:25
Alignment explanation
Indices: 4396788--4396847 Score: 66
Period size: 27 Copynumber: 2.2 Consensus size: 25
4396778 ATAAAGTTTG
* *
4396788 TAAATTTTTTTAAAAAATAATTTAA
1 TAAATTTTATTAAAAAATAAATTAA
4396813 TAAAAATTTTATTAAAAAATTAAAATTAA
1 T--AAATTTTATTAAAAAA-T-AAATTAA
4396842 TAAATT
1 TAAATT
4396848 AATAGAGTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
25 1 0.03
27 20 0.69
28 1 0.03
29 7 0.24
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (25 bp):
TAAATTTTATTAAAAAATAAATTAA
Found at i:4399898 original size:3 final size:3
Alignment explanation
Indices: 4399890--4399919 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
4399880 GTGATGACAG
*
4399890 TAA TAA TAA TAA AAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
4399920 CACCAATATC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (3 bp):
TAA
Found at i:4403681 original size:34 final size:36
Alignment explanation
Indices: 4403632--4403700 Score: 90
Period size: 35 Copynumber: 2.0 Consensus size: 36
4403622 TAGTGTTTGT
*
4403632 AAAATTTATTATCTTTT-G-AGTTGATGTAGGCATTG
1 AAAATTTATTATCTTTTCGCA-TGGATGTAGGCATTG
*
4403667 AAAATTT-TTCTCTTTTCGCATGGATGTAGGCATT
1 AAAATTTATTATCTTTTCGCATGGATGTAGGCATT
4403701 TTAAATTGAT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
34 8 0.27
35 21 0.70
36 1 0.03
ACGTcount: A:0.26, C:0.10, G:0.19, T:0.45
Consensus pattern (36 bp):
AAAATTTATTATCTTTTCGCATGGATGTAGGCATTG
Found at i:4405188 original size:11 final size:11
Alignment explanation
Indices: 4405148--4405206 Score: 50
Period size: 11 Copynumber: 5.5 Consensus size: 11
4405138 AGCTTCAAGC
*
4405148 TTTCTTTAGGT
1 TTTCTTTAAGT
*
4405159 TTTATTCT-AGT
1 TTTCTT-TAAGT
4405170 TTTC-TTAAGT
1 TTTCTTTAAGT
*
4405180 TTTCTTTAAGC
1 TTTCTTTAAGT
**
4405191 ACTCTTTAAGT
1 TTTCTTTAAGT
4405202 TTTCT
1 TTTCT
4405207 AGTTCTTAGT
Statistics
Matches: 36, Mismatches: 9, Indels: 6
0.71 0.18 0.12
Matches are distributed among these distances:
9 1 0.03
10 8 0.22
11 26 0.72
12 1 0.03
ACGTcount: A:0.17, C:0.14, G:0.10, T:0.59
Consensus pattern (11 bp):
TTTCTTTAAGT
Found at i:4407265 original size:17 final size:18
Alignment explanation
Indices: 4407240--4407274 Score: 63
Period size: 17 Copynumber: 2.0 Consensus size: 18
4407230 ATCATTGGAT
4407240 AATTATTATTTATTTTTA
1 AATTATTATTTATTTTTA
4407258 AATT-TTATTTATTTTTA
1 AATTATTATTTATTTTTA
4407275 TTTTTATTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 13 0.76
18 4 0.24
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (18 bp):
AATTATTATTTATTTTTA
Found at i:4409358 original size:24 final size:24
Alignment explanation
Indices: 4409316--4409361 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
4409306 TTTAACTGTA
*
4409316 AATTTTAATCTCATATAAACTCCT
1 AATTTTAATCCCATATAAACTCCT
4409340 AATTTTAATCCCACT-TAAACTC
1 AATTTTAATCCCA-TATAAACTC
4409362 ATCCTATTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
24 19 0.95
25 1 0.05
ACGTcount: A:0.37, C:0.24, G:0.00, T:0.39
Consensus pattern (24 bp):
AATTTTAATCCCATATAAACTCCT
Found at i:4409676 original size:41 final size:41
Alignment explanation
Indices: 4409627--4410048 Score: 399
Period size: 41 Copynumber: 10.5 Consensus size: 41
4409617 GCTCAATAAT
* * *
4409627 TTTTAAAAATAAAAGGCTCTTCTAAACAAAGGCACAACAAC
1 TTTTAAAAATAAAATGCTCTTCTAAACAGAGGCACCACAAC
* * *
4409668 TTTTAAAAATAAAATGCTCTTCTAAACTGAGGTACCATAAC
1 TTTTAAAAATAAAATGCTCTTCTAAACAGAGGCACCACAAC
*
4409709 TTTTGAAAAAT-AAATGCTC-T-T---C--A---ACCATAAC
1 TTTT-AAAAATAAAATGCTCTTCTAAACAGAGGCACCACAAC
4409740 TTTTGAAAAAT-AAATGCTCTTCTAAACAGAGGCACCACAAC
1 TTTT-AAAAATAAAATGCTCTTCTAAACAGAGGCACCACAAC
* * * *
4409781 TTTTAAAAAAATAAATGCTCTTCTAAATAGAGGTACCATAAC
1 TTTTAAAAATA-AAATGCTCTTCTAAACAGAGGCACCACAAC
* *
4409823 TTTTGAAAAATAAATTGCTCCTT-TAAACAGTGGCACCACAAC
1 TTTT-AAAAATAAAATGCT-CTTCTAAACAGAGGCACCACAAC
* * *
4409865 TTTGAAAAATAAATTGCTCCTT-TAAATAGAGGCACCACAAC
1 TTTTAAAAATAAAATGCT-CTTCTAAACAGAGGCACCACAAC
* *
4409906 TTTGAAAAATAAAATGCTTCTT-TAAAC-TAGGCACCACAAC
1 TTTTAAAAATAAAATGC-TCTTCTAAACAGAGGCACCACAAC
* * * * * *
4409946 TTTGAAAAATAAATTACCCCTCTAAACAGAAGCACCACAAC
1 TTTTAAAAATAAAATGCTCTTCTAAACAGAGGCACCACAAC
* * * * *
4409987 TTTGAAAAATAAATTACTATTCTAAACAAAGGCACCACAAC
1 TTTTAAAAATAAAATGCTCTTCTAAACAGAGGCACCACAAC
*
4410028 TTTGAAAAATAAAATGCTCTT
1 TTTTAAAAATAAAATGCTCTT
4410049 TGACGATCAT
Statistics
Matches: 326, Mismatches: 37, Indels: 36
0.82 0.09 0.09
Matches are distributed among these distances:
31 27 0.08
32 1 0.00
33 1 0.00
34 1 0.00
36 2 0.01
38 1 0.00
39 3 0.01
40 38 0.12
41 181 0.56
42 62 0.19
43 9 0.03
ACGTcount: A:0.44, C:0.19, G:0.10, T:0.27
Consensus pattern (41 bp):
TTTTAAAAATAAAATGCTCTTCTAAACAGAGGCACCACAAC
Found at i:4409736 original size:31 final size:31
Alignment explanation
Indices: 4409701--4409761 Score: 122
Period size: 31 Copynumber: 2.0 Consensus size: 31
4409691 AAACTGAGGT
4409701 ACCATAACTTTTGAAAAATAAATGCTCTTCA
1 ACCATAACTTTTGAAAAATAAATGCTCTTCA
4409732 ACCATAACTTTTGAAAAATAAATGCTCTTC
1 ACCATAACTTTTGAAAAATAAATGCTCTTC
4409762 TAAACAGAGG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.41, C:0.20, G:0.07, T:0.33
Consensus pattern (31 bp):
ACCATAACTTTTGAAAAATAAATGCTCTTCA
Found at i:4409982 original size:122 final size:122
Alignment explanation
Indices: 4409732--4410049 Score: 419
Period size: 122 Copynumber: 2.6 Consensus size: 122
4409722 ATGCTCTTCA
* * *
4409732 ACCATAACTTTTGAAAAATAAA-TGCTCTTCTAAACAGAGGCACCACAACTTTTAAAAAAATAAA
1 ACCACAAC-TTTGAAAAATAAATTGCTCTTCTAAACAGAGGCACCACAACTTTGAAAAATA-AAA
* * * * * **
4409796 TGCTCTTCTAAATAGAGGTACCATAACTTTTGAAAAATAAATTGCTCCTTTAAACAGTGGC
64 TGCTCTT-TAAATA-AGGCACCACAACTTTTGAAAAATAAATTACCCCTCTAAACAGAAGC
*
4409857 ACCACAACTTTGAAAAATAAATTGCTCCTT-TAAATAGAGGCACCACAACTTTGAAAAATAAAAT
1 ACCACAACTTTGAAAAATAAATTGCT-CTTCTAAACAGAGGCACCACAACTTTGAAAAATAAAAT
4409921 GCTTCTTTAAACT-AGGCACCACAAC-TTTGAAAAATAAATTACCCCTCTAAACAGAAGC
65 GC-TCTTTAAA-TAAGGCACCACAACTTTTGAAAAATAAATTACCCCTCTAAACAGAAGC
* * *
4409979 ACCACAACTTTGAAAAATAAATTACTATTCTAAACAAAGGCACCACAACTTTGAAAAATAAAATG
1 ACCACAACTTTGAAAAATAAATTGCTCTTCTAAACAGAGGCACCACAACTTTGAAAAATAAAATG
4410044 CTCTTT
66 CTCTTT
4410050 GACGATCATG
Statistics
Matches: 173, Mismatches: 15, Indels: 14
0.86 0.07 0.07
Matches are distributed among these distances:
121 7 0.04
122 87 0.50
123 10 0.06
124 23 0.13
125 43 0.25
126 3 0.02
ACGTcount: A:0.43, C:0.20, G:0.10, T:0.27
Consensus pattern (122 bp):
ACCACAACTTTGAAAAATAAATTGCTCTTCTAAACAGAGGCACCACAACTTTGAAAAATAAAATG
CTCTTTAAATAAGGCACCACAACTTTTGAAAAATAAATTACCCCTCTAAACAGAAGC
Found at i:4410467 original size:79 final size:78
Alignment explanation
Indices: 4410379--4410630 Score: 371
Period size: 79 Copynumber: 3.2 Consensus size: 78
4410369 GTTTCACACC
* * *
4410379 TCAAAGATTCTCATTTGAGTTCGAAGATTCACATTAGACAAATTTTGGCTTTCATATCTCAAATA
1 TCAAAGATTCTCATTTGAGTTCGAAGATTCACATTAGACAAATTTTGG-TTTCACACCTCAAAGA
*
4410444 TTCTAATTTGAAAT
65 TTCTCATTTGAAAT
* * * *
4410458 TCAAAGATTCTTATTTGAGTTTGAAGATTCACATTTGACAAATTTTGGGTTTCACACCTTAAAGA
1 TCAAAGATTCTCATTTGAGTTCGAAGATTCACATTAGACAAATTTT-GGTTTCACACCTCAAAGA
4410523 TTCTCATTTGAAAT
65 TTCTCATTTGAAAT
*
4410537 TCAAAGATTCTCATTTGAGTTCAAAGATTCACATTCA-ACAAATTTTAGGTTTCACACCTCAAAG
1 TCAAAGATTCTCATTTGAGTTCGAAGATTCACATT-AGACAAATTTT-GGTTTCACACCTCAAAG
4410601 ATTCTCATTTGAAAT
64 ATTCTCATTTGAAAT
*
4410616 TTAAAGATTCTCATT
1 TCAAAGATTCTCATT
4410631 CGACATTCAA
Statistics
Matches: 156, Mismatches: 15, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
79 154 0.99
80 2 0.01
ACGTcount: A:0.34, C:0.16, G:0.12, T:0.39
Consensus pattern (78 bp):
TCAAAGATTCTCATTTGAGTTCGAAGATTCACATTAGACAAATTTTGGTTTCACACCTCAAAGAT
TCTCATTTGAAAT
Found at i:4410561 original size:20 final size:21
Alignment explanation
Indices: 4410518--4410736 Score: 125
Period size: 21 Copynumber: 10.6 Consensus size: 21
4410508 TTCACACCTT
4410518 AAAGATTCTCATTTGAAATTC
1 AAAGATTCTCATTTGAAATTC
*
4410539 AAAGATTCTCATTTG-AGTTC
1 AAAGATTCTCATTTGAAATTC
* *
4410559 AAAGATTCACA-TT-CAA--C
1 AAAGATTCTCATTTGAAATTC
* * **
4410576 -AA-ATT-TTAGGTTTCACACCTC
1 AAAGATTCTCA--TTTGA-AATTC
*
4410597 AAAGATTCTCATTTGAAATTT
1 AAAGATTCTCATTTGAAATTC
* *
4410618 AAAGATTCTCATTCGACATTC
1 AAAGATTCTCATTTGAAATTC
*
4410639 AAAGATCCTCATTTGAAATTC
1 AAAGATTCTCATTTGAAATTC
* *
4410660 ATAGA-TCTTCATTTGAGAACTC
1 AAAGATTC-TCATTTGA-AATTC
* *
4410682 GAAGATCCTCA-TTGAAAATTC
1 AAAGATTCTCATTTG-AAATTC
* * * *
4410703 AAAGATTTTTATTTAAAAACTC
1 AAAGATTCTCATTT-GAAATTC
*
4410725 AAAAATTCTCAT
1 AAAGATTCTCAT
4410737 CAAAAGATTC
Statistics
Matches: 147, Mismatches: 34, Indels: 33
0.69 0.16 0.15
Matches are distributed among these distances:
14 1 0.01
15 3 0.02
16 2 0.01
17 3 0.02
19 4 0.03
20 15 0.10
21 80 0.54
22 33 0.22
23 4 0.03
24 2 0.01
ACGTcount: A:0.37, C:0.17, G:0.10, T:0.36
Consensus pattern (21 bp):
AAAGATTCTCATTTGAAATTC
Found at i:4410724 original size:43 final size:43
Alignment explanation
Indices: 4410640--4410724 Score: 109
Period size: 43 Copynumber: 2.0 Consensus size: 43
4410630 TCGACATTCA
* * *
4410640 AAGATCCTCATTTGAAATTCATAGATCTTCATTTGAGAACTCG
1 AAGATCCTCATTTGAAATTCAAAGATCTTCATTTAAAAACTCG
* *
4410683 AAGATCCTCA-TTGAAAATTCAAAGATTTTTATTTAAAAACTC
1 AAGATCCTCATTTG-AAATTCAAAGATCTTCATTTAAAAACTC
4410725 AAAAATTCTC
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
42 3 0.08
43 33 0.92
ACGTcount: A:0.38, C:0.16, G:0.11, T:0.35
Consensus pattern (43 bp):
AAGATCCTCATTTGAAATTCAAAGATCTTCATTTAAAAACTCG
Found at i:4412000 original size:19 final size:20
Alignment explanation
Indices: 4411978--4412020 Score: 56
Period size: 19 Copynumber: 2.2 Consensus size: 20
4411968 TGAGCCTTTC
4411978 TTTTCTCTCATT-TTT-ATTT
1 TTTTCTC-CATTCTTTCATTT
4411997 TTTT-TCCATTCTTTCATTT
1 TTTTCTCCATTCTTTCATTT
4412016 TTTTC
1 TTTTC
4412021 ATTTTTTTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
17 4 0.19
18 5 0.24
19 12 0.57
ACGTcount: A:0.09, C:0.19, G:0.00, T:0.72
Consensus pattern (20 bp):
TTTTCTCCATTCTTTCATTT
Found at i:4413314 original size:10 final size:10
Alignment explanation
Indices: 4413301--4413325 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
4413291 TTTTTTTCTC
4413301 TTTTTTTAAT
1 TTTTTTTAAT
4413311 TTTTTTTAAT
1 TTTTTTTAAT
4413321 TTTTT
1 TTTTT
4413326 ATTATTGCAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (10 bp):
TTTTTTTAAT
Found at i:4413706 original size:19 final size:18
Alignment explanation
Indices: 4413661--4413726 Score: 64
Period size: 19 Copynumber: 3.6 Consensus size: 18
4413651 CAATCATCCA
4413661 TTTCTTT-TTTTTTTCCT
1 TTTCTTTCTTTTTTTCCT
4413678 TTTCTTTCTTTCTTTT-CT
1 TTTCTTTCTTT-TTTTCCT
* **
4413696 TTTGTTCTCTTTTTTTGTT
1 TTTCTT-TCTTTTTTTCCT
4413715 TCTTCTTTCTTT
1 T-TTCTTTCTTT
4413727 CATTTTCTTC
Statistics
Matches: 41, Mismatches: 3, Indels: 8
0.79 0.06 0.15
Matches are distributed among these distances:
17 7 0.17
18 14 0.34
19 16 0.39
20 4 0.10
ACGTcount: A:0.00, C:0.18, G:0.03, T:0.79
Consensus pattern (18 bp):
TTTCTTTCTTTTTTTCCT
Found at i:4413726 original size:34 final size:35
Alignment explanation
Indices: 4413678--4413743 Score: 91
Period size: 34 Copynumber: 1.9 Consensus size: 35
4413668 TTTTTTTCCT
* *
4413678 TTTCTTTCTTTCTTTTC-TTTTGTTCTCTTTTTTTG
1 TTTCTTTCTTTC-TTTCATTTTCTTCCCTTTTTTTG
4413713 TTTC-TTCTTTCTTTCATTTTCTTCCCTTTTT
1 TTTCTTTCTTTCTTTCATTTTCTTCCCTTTTT
4413744 CCTTATTTTC
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
33 4 0.14
34 20 0.71
35 4 0.14
ACGTcount: A:0.02, C:0.21, G:0.03, T:0.74
Consensus pattern (35 bp):
TTTCTTTCTTTCTTTCATTTTCTTCCCTTTTTTTG
Found at i:4413733 original size:17 final size:16
Alignment explanation
Indices: 4413661--4413736 Score: 55
Period size: 17 Copynumber: 4.4 Consensus size: 16
4413651 CAATCATCCA
* *
4413661 TTTCTTTTTTTTTTCCT
1 TTTCTTCTTTCTTT-CT
4413678 TTTCTTTCTTTCTTTTCT
1 TTTC-TTCTTTC-TTTCT
* *
4413696 TTTGTTCTCTT-TTTTT
1 TTTCTTCT-TTCTTTCT
4413712 GTTTCTTCTTTCTTTCAT
1 -TTTCTTCTTTCTTTC-T
4413730 TTTCTTC
1 TTTCTTC
4413737 CCTTTTTCCT
Statistics
Matches: 47, Mismatches: 6, Indels: 12
0.72 0.09 0.18
Matches are distributed among these distances:
16 6 0.13
17 25 0.53
18 13 0.28
19 3 0.06
ACGTcount: A:0.01, C:0.20, G:0.03, T:0.76
Consensus pattern (16 bp):
TTTCTTCTTTCTTTCT
Found at i:4415175 original size:16 final size:16
Alignment explanation
Indices: 4415154--4415201 Score: 64
Period size: 16 Copynumber: 3.1 Consensus size: 16
4415144 AACTTTATTA
4415154 AATTACATATTAAATT
1 AATTACATATTAAATT
4415170 AATTACATA--AAACTT
1 AATTACATATTAAA-TT
*
4415185 AACTACATATTAAATT
1 AATTACATATTAAATT
4415201 A
1 A
4415202 TTATAATAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
14 3 0.11
15 10 0.36
16 12 0.43
17 3 0.11
ACGTcount: A:0.52, C:0.10, G:0.00, T:0.38
Consensus pattern (16 bp):
AATTACATATTAAATT
Found at i:4426078 original size:25 final size:24
Alignment explanation
Indices: 4426025--4426078 Score: 65
Period size: 25 Copynumber: 2.2 Consensus size: 24
4426015 TTCACCTAAG
*
4426025 AATTTTATAGAAATTTATCATTTGA
1 AATTTTATA-AAATTTATCATTGGA
4426050 AATTTTAT-AAATTTCATCATTGGA
1 AATTTTATAAAATTT-ATCATTGGA
4426074 TAATT
1 -AATT
4426079 AATATTTATT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
23 6 0.23
24 8 0.31
25 12 0.46
ACGTcount: A:0.39, C:0.06, G:0.07, T:0.48
Consensus pattern (24 bp):
AATTTTATAAAATTTATCATTGGA
Found at i:4426950 original size:7 final size:7
Alignment explanation
Indices: 4426938--4426981 Score: 56
Period size: 7 Copynumber: 6.3 Consensus size: 7
4426928 AGAAACCAAG
4426938 AAAATAA
1 AAAATAA
4426945 AAAAT-A
1 AAAATAA
4426951 AAAATGAA
1 AAAAT-AA
4426959 AATAA-AA
1 AA-AATAA
4426966 AAAATAA
1 AAAATAA
4426973 AAAATAA
1 AAAATAA
4426980 AA
1 AA
4426982 TTAGGCCAAT
Statistics
Matches: 33, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
6 8 0.24
7 20 0.61
8 3 0.09
9 2 0.06
ACGTcount: A:0.84, C:0.00, G:0.02, T:0.14
Consensus pattern (7 bp):
AAAATAA
Found at i:4428278 original size:16 final size:17
Alignment explanation
Indices: 4428249--4428284 Score: 56
Period size: 16 Copynumber: 2.1 Consensus size: 17
4428239 GCATTTTCAA
4428249 TATTTTTTCATAATTTTT
1 TATTTTTT-ATAATTTTT
4428267 TATTTTTT-TAATTTTT
1 TATTTTTTATAATTTTT
4428283 TA
1 TA
4428285 CTCGATTCTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 10 0.56
18 8 0.44
ACGTcount: A:0.22, C:0.03, G:0.00, T:0.75
Consensus pattern (17 bp):
TATTTTTTATAATTTTT
Found at i:4428329 original size:22 final size:20
Alignment explanation
Indices: 4428301--4428349 Score: 62
Period size: 22 Copynumber: 2.4 Consensus size: 20
4428291 TCTTTTTATA
4428301 TATTTTTATACATTTTTATTT
1 TATTTTTATACA-TTTTATTT
* *
4428322 CTATTTTTCTATATTTTATTT
1 -TATTTTTATACATTTTATTT
4428343 TATTTTT
1 TATTTTT
4428350 GTGTGAACTT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
20 7 0.28
21 8 0.32
22 10 0.40
ACGTcount: A:0.20, C:0.06, G:0.00, T:0.73
Consensus pattern (20 bp):
TATTTTTATACATTTTATTT
Found at i:4428689 original size:17 final size:17
Alignment explanation
Indices: 4428669--4428712 Score: 54
Period size: 17 Copynumber: 2.6 Consensus size: 17
4428659 TTAAATTCTT
*
4428669 TAAGCATAAA-AATAAAA
1 TAAG-ATAAATAAAAAAA
4428686 TAAGATAAATAAAAAAA
1 TAAGATAAATAAAAAAA
*
4428703 TAAAATAAAT
1 TAAGATAAAT
4428713 GTTGGAAAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
16 5 0.21
17 19 0.79
ACGTcount: A:0.73, C:0.02, G:0.05, T:0.20
Consensus pattern (17 bp):
TAAGATAAATAAAAAAA
Found at i:4431930 original size:28 final size:27
Alignment explanation
Indices: 4431892--4431949 Score: 73
Period size: 28 Copynumber: 2.1 Consensus size: 27
4431882 GAATTATAGT
4431892 AAAATGTTTAA-TAAGATACTTAATTTTA
1 AAAATGTTTAATTAAG-TACTTAA-TTTA
* *
4431920 AAAATTTTTAATTTAGTACTTAATTTA
1 AAAATGTTTAATTAAGTACTTAATTTA
4431947 AAA
1 AAA
4431950 TCTGTTAACT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
27 7 0.26
28 17 0.63
29 3 0.11
ACGTcount: A:0.47, C:0.03, G:0.05, T:0.45
Consensus pattern (27 bp):
AAAATGTTTAATTAAGTACTTAATTTA
Found at i:4431957 original size:27 final size:29
Alignment explanation
Indices: 4431908--4431962 Score: 71
Period size: 28 Copynumber: 2.0 Consensus size: 29
4431898 TTTAATAAGA
*
4431908 TACTTAATTTTAAAAATTTTTAA-TTTAG
1 TACTTAATTTTAAAAATTGTTAACTTTAG
4431936 TACTTAA-TTT-AAAATCTGTTAACTTTA
1 TACTTAATTTTAAAAAT-TGTTAACTTTA
4431963 TTTTGCAAAG
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
26 5 0.21
27 8 0.33
28 11 0.46
ACGTcount: A:0.38, C:0.07, G:0.04, T:0.51
Consensus pattern (29 bp):
TACTTAATTTTAAAAATTGTTAACTTTAG
Found at i:4436420 original size:20 final size:19
Alignment explanation
Indices: 4436395--4436435 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
4436385 AATTTCAGAT
*
4436395 ATTTTATTGAGACAAATTAA
1 ATTTTAATGA-ACAAATTAA
*
4436415 ATTTTAATGATCAAATTAA
1 ATTTTAATGAACAAATTAA
4436434 AT
1 AT
4436436 AAATAAAATT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 10 0.53
20 9 0.47
ACGTcount: A:0.46, C:0.05, G:0.07, T:0.41
Consensus pattern (19 bp):
ATTTTAATGAACAAATTAA
Found at i:4446423 original size:84 final size:84
Alignment explanation
Indices: 4446280--4446451 Score: 220
Period size: 84 Copynumber: 2.0 Consensus size: 84
4446270 AATTTGTCAG
* *
4446280 ATCTCCAAGTTCTTTGAGCAAGATTAATAAGTCTTCCCAATTGAATCTGTTTTAAAGTTAAAATT
1 ATCTCCAAGTTCTTTAAGCAAGATTAATAAGTATTCCCAATTGAATCTGTTTTAAAGTTAAAATT
*
4446345 GATAAGACCTCCGAGCATA
66 GATAAGACATCCGAGCATA
* * * * * * *
4446364 ATCTCCAAG-TCTTTTAAGTAAGATTCATAAGTATTTCGAGTTGAATTTGTTTTAGAGTTAAAAT
1 ATCTCCAAGTTC-TTTAAGCAAGATTAATAAGTATTCCCAATTGAATCTGTTTTAAAGTTAAAAT
* *
4446428 TTATAAGACATCCGGGCATA
65 TGATAAGACATCCGAGCATA
4446448 ATCT
1 ATCT
4446452 TTAAGTCCTC
Statistics
Matches: 75, Mismatches: 12, Indels: 2
0.84 0.13 0.02
Matches are distributed among these distances:
83 2 0.03
84 73 0.97
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.36
Consensus pattern (84 bp):
ATCTCCAAGTTCTTTAAGCAAGATTAATAAGTATTCCCAATTGAATCTGTTTTAAAGTTAAAATT
GATAAGACATCCGAGCATA
Found at i:4446534 original size:21 final size:21
Alignment explanation
Indices: 4446510--4446551 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
4446500 TAGAGTCAAG
4446510 ATTTGTAAGACCTCCAAGCAA
1 ATTTGTAAGACCTCCAAGCAA
* * *
4446531 ATTTTTAAGTCCTCTAAGCAA
1 ATTTGTAAGACCTCCAAGCAA
4446552 GATTCATAAG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.36, C:0.21, G:0.12, T:0.31
Consensus pattern (21 bp):
ATTTGTAAGACCTCCAAGCAA
Found at i:4446563 original size:83 final size:84
Alignment explanation
Indices: 4446320--4446606 Score: 276
Period size: 84 Copynumber: 3.4 Consensus size: 84
4446310 GTCTTCCCAA
* * * * ** * * *
4446320 TTGAATCTGTTTTAAAGTTAA-AATTGATAAGACCTCCGAGCATAATCTCCAAGTCTTTTAAGTA
1 TTGAATCTGTTTTAGAGTCAAGATTTG-TAAGACCTCCAAGCATAATCTTTAAGTCCTCTAAGCA
* **
4446384 AGATTCATAAGTATTTCGAG
65 AGATTCATAAGTTTTTTTAG
* * * * * ** *
4446404 TTGAATTTGTTTTAGAGTTAAAATTTATAAGACATCCGGGCATAATCTTTAAGTCCTC-CAGACA
1 TTGAATCTGTTTTAGAGTCAAGATTTGTAAGACCTCCAAGCATAATCTTTAAGTCCTCTAAG-CA
* **
4446468 AAATAGATAAGTTTTTTTAG
65 AGATTCATAAGTTTTTTTAG
* * *
4446488 TTAAATCTATTTTAGAGTCAAGATTTGTAAGACCTCCAAGCA-AATTTTTAAGTCCTCTAAGCAA
1 TTGAATCTGTTTTAGAGTCAAGATTTGTAAGACCTCCAAGCATAATCTTTAAGTCCTCTAAGCAA
4446552 GATTCATAAG-TTTTTTAGG
66 GATTCATAAGTTTTTTTA-G
*
4446571 CTGAATCTGTTTTAGAGTCAAGATTTGTAAGACCTC
1 TTGAATCTGTTTTAGAGTCAAGATTTGTAAGACCTC
4446607 TAGCGTAATC
Statistics
Matches: 164, Mismatches: 35, Indels: 9
0.79 0.17 0.04
Matches are distributed among these distances:
82 7 0.04
83 60 0.37
84 94 0.57
85 3 0.02
ACGTcount: A:0.33, C:0.14, G:0.16, T:0.37
Consensus pattern (84 bp):
TTGAATCTGTTTTAGAGTCAAGATTTGTAAGACCTCCAAGCATAATCTTTAAGTCCTCTAAGCAA
GATTCATAAGTTTTTTTAG
Found at i:4449057 original size:20 final size:22
Alignment explanation
Indices: 4449034--4449074 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
4449024 TTTAGTATTG
4449034 TTGAG-AAATT-TTTTTATTTA
1 TTGAGTAAATTATTTTTATTTA
*
4449054 TTGAGTAATTTATTTTTATTT
1 TTGAGTAAATTATTTTTATTT
4449075 GTGAAAGATT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 5 0.28
21 4 0.22
22 9 0.50
ACGTcount: A:0.27, C:0.00, G:0.10, T:0.63
Consensus pattern (22 bp):
TTGAGTAAATTATTTTTATTTA
Found at i:4449345 original size:25 final size:24
Alignment explanation
Indices: 4449315--4449371 Score: 78
Period size: 25 Copynumber: 2.3 Consensus size: 24
4449305 GTTTTGAAGT
4449315 AATTTATATATTGATAGTATAGTGA
1 AATTTATATATTGATAGT-TAGTGA
* *
4449340 AATTTATATATTGCTAGTTATTGA
1 AATTTATATATTGATAGTTAGTGA
4449364 AATATTAT
1 AAT-TTAT
4449372 GGTTTTATTT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
24 8 0.28
25 21 0.72
ACGTcount: A:0.39, C:0.02, G:0.12, T:0.47
Consensus pattern (24 bp):
AATTTATATATTGATAGTTAGTGA
Found at i:4453494 original size:15 final size:15
Alignment explanation
Indices: 4453474--4453510 Score: 65
Period size: 15 Copynumber: 2.5 Consensus size: 15
4453464 TAACAAAAAT
*
4453474 ATGATGATAATGATG
1 ATGATGATAAGGATG
4453489 ATGATGATAAGGATG
1 ATGATGATAAGGATG
4453504 ATGATGA
1 ATGATGA
4453511 AACACATGAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.41, C:0.00, G:0.30, T:0.30
Consensus pattern (15 bp):
ATGATGATAAGGATG
Found at i:4453894 original size:18 final size:18
Alignment explanation
Indices: 4453871--4453908 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
4453861 CTACATGATC
*
4453871 CACCATATAGGTTAGCTT
1 CACCATACAGGTTAGCTT
*
4453889 CACCATACGGGTTAGCTT
1 CACCATACAGGTTAGCTT
4453907 CA
1 CA
4453909 TCACAAATAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.26, C:0.26, G:0.18, T:0.29
Consensus pattern (18 bp):
CACCATACAGGTTAGCTT
Found at i:4454164 original size:18 final size:19
Alignment explanation
Indices: 4454123--4454164 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 19
4454113 CGTTATGAGA
4454123 AATGTATTAATTGTTTTCTT
1 AATG-ATTAATTGTTTTCTT
*
4454143 -ATGATTATTTGTTTT-TT
1 AATGATTAATTGTTTTCTT
4454160 AATGA
1 AATGA
4454165 ATTCGATCAA
Statistics
Matches: 20, Mismatches: 1, Indels: 4
0.80 0.04 0.16
Matches are distributed among these distances:
17 2 0.10
18 15 0.75
19 3 0.15
ACGTcount: A:0.26, C:0.02, G:0.12, T:0.60
Consensus pattern (19 bp):
AATGATTAATTGTTTTCTT
Found at i:4456148 original size:11 final size:11
Alignment explanation
Indices: 4456132--4456228 Score: 67
Period size: 11 Copynumber: 8.6 Consensus size: 11
4456122 GGATTGATGC
4456132 TATGGATGTTT
1 TATGGATGTTT
4456143 TATGGATGGATATTT
1 TATGGAT-G---TTT
4456158 TAT-GATGTTT
1 TATGGATGTTT
4456168 TATGGATG--T
1 TATGGATGTTT
*
4456177 TAAGGATGTTT
1 TATGGATGTTT
* *
4456188 GATGGATATTT
1 TATGGATGTTT
4456199 TAT-GATGTATT
1 TATGGATGT-TT
* *
4456210 TAATAGATGTTA
1 T-ATGGATGTTT
4456222 TATGGAT
1 TATGGAT
4456229 CTGTATTTTA
Statistics
Matches: 68, Mismatches: 8, Indels: 20
0.71 0.08 0.21
Matches are distributed among these distances:
9 8 0.12
10 10 0.15
11 30 0.44
12 5 0.07
13 6 0.09
14 3 0.04
15 6 0.09
ACGTcount: A:0.27, C:0.00, G:0.25, T:0.48
Consensus pattern (11 bp):
TATGGATGTTT
Found at i:4456821 original size:23 final size:21
Alignment explanation
Indices: 4456783--4456859 Score: 59
Period size: 22 Copynumber: 3.5 Consensus size: 21
4456773 TATTTCATTC
**
4456783 ATATATATATAATAAATTTTAAA
1 ATATATATA-AATAAA-AATAAA
4456806 ATATATATAAATTAAAAATAAA
1 ATATATATAAA-TAAAAATAAA
*
4456828 AT-TATATAAAAGTAAAAATTAA
1 ATATATAT-AAA-TAAAAATAAA
*
4456850 ATTTA-ATAAA
1 ATATATATAAA
4456860 ATATATAATT
Statistics
Matches: 47, Mismatches: 4, Indels: 8
0.80 0.07 0.14
Matches are distributed among these distances:
21 8 0.17
22 24 0.51
23 15 0.32
ACGTcount: A:0.62, C:0.00, G:0.01, T:0.36
Consensus pattern (21 bp):
ATATATATAAATAAAAATAAA
Found at i:4456823 original size:17 final size:19
Alignment explanation
Indices: 4456787--4456825 Score: 55
Period size: 17 Copynumber: 2.2 Consensus size: 19
4456777 TCATTCATAT
*
4456787 ATATATAATAAATTTTAAA
1 ATATATAATAAATTTAAAA
4456806 ATATAT-ATAAA-TTAAAA
1 ATATATAATAAATTTAAAA
4456823 ATA
1 ATA
4456826 AAATTATATA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 8 0.42
18 5 0.26
19 6 0.32
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (19 bp):
ATATATAATAAATTTAAAA
Found at i:4456843 original size:22 final size:22
Alignment explanation
Indices: 4456802--4456860 Score: 68
Period size: 22 Copynumber: 2.7 Consensus size: 22
4456792 TAATAAATTT
*
4456802 TAAAA-TATATATAAATTAAAAA
1 TAAAATTATATA-AAAGTAAAAA
4456824 TAAAATTATATAAAAGTAAAAA
1 TAAAATTATATAAAAGTAAAAA
*
4456846 TTAAATT-TAATAAAA
1 TAAAATTAT-ATAAAA
4456861 TATATAATTT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
21 1 0.03
22 26 0.79
23 6 0.18
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.32
Consensus pattern (22 bp):
TAAAATTATATAAAAGTAAAAA
Found at i:4470061 original size:23 final size:23
Alignment explanation
Indices: 4470035--4470081 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
4470025 ATGATAGTTT
4470035 ATTAAAAT-TATTTAAAATATCAA
1 ATTAAAATATATTT-AAATATCAA
* *
4470058 ATTAATATATATTTTAATATCAA
1 ATTAAAATATATTTAAATATCAA
4470081 A
1 A
4470082 CTAATATAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
23 16 0.76
24 5 0.24
ACGTcount: A:0.53, C:0.04, G:0.00, T:0.43
Consensus pattern (23 bp):
ATTAAAATATATTTAAATATCAA
Found at i:4476332 original size:10 final size:10
Alignment explanation
Indices: 4476319--4476352 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
4476309 TTTTCCACAC
4476319 TTTTTTCTTT
1 TTTTTTCTTT
4476329 TTTTTTCTTT
1 TTTTTTCTTT
*
4476339 TTCTTTCTATT
1 TTTTTTCT-TT
4476350 TTT
1 TTT
4476353 GCACACAATT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
10 17 0.81
11 4 0.19
ACGTcount: A:0.03, C:0.12, G:0.00, T:0.85
Consensus pattern (10 bp):
TTTTTTCTTT
Found at i:4477098 original size:13 final size:13
Alignment explanation
Indices: 4477075--4477116 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
4477065 AACATGAGAA
4477075 AAAGTAAATAACAG
1 AAAG-AAATAACAG
*
4477089 AAAGAAATAACAT
1 AAAGAAATAACAG
*
4477102 AAATAAATAA-AG
1 AAAGAAATAACAG
4477114 AAA
1 AAA
4477117 AAACTTGGGT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
12 4 0.16
13 17 0.68
14 4 0.16
ACGTcount: A:0.71, C:0.05, G:0.10, T:0.14
Consensus pattern (13 bp):
AAAGAAATAACAG
Found at i:4478988 original size:21 final size:22
Alignment explanation
Indices: 4478962--4479005 Score: 72
Period size: 21 Copynumber: 2.0 Consensus size: 22
4478952 AAGCTAAAGC
*
4478962 AATAGCCTAAATCAAC-AAGAA
1 AATAGCATAAATCAACAAAGAA
4478983 AATAGCATAAATCAACAAAGAA
1 AATAGCATAAATCAACAAAGAA
4479005 A
1 A
4479006 CAGCTTAACA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
21 15 0.71
22 6 0.29
ACGTcount: A:0.61, C:0.16, G:0.09, T:0.14
Consensus pattern (22 bp):
AATAGCATAAATCAACAAAGAA
Found at i:4481895 original size:54 final size:54
Alignment explanation
Indices: 4481831--4481938 Score: 207
Period size: 54 Copynumber: 2.0 Consensus size: 54
4481821 AACAATAAGG
*
4481831 CAAAAGTTACTAAGGCATGAAGTAAAACTCAAATATGATTAAAACTAATAATTA
1 CAAAAATTACTAAGGCATGAAGTAAAACTCAAATATGATTAAAACTAATAATTA
4481885 CAAAAATTACTAAGGCATGAAGTAAAACTCAAATATGATTAAAACTAATAATTA
1 CAAAAATTACTAAGGCATGAAGTAAAACTCAAATATGATTAAAACTAATAATTA
4481939 AGCATTAAAA
Statistics
Matches: 53, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
54 53 1.00
ACGTcount: A:0.53, C:0.11, G:0.10, T:0.26
Consensus pattern (54 bp):
CAAAAATTACTAAGGCATGAAGTAAAACTCAAATATGATTAAAACTAATAATTA
Found at i:4482826 original size:19 final size:19
Alignment explanation
Indices: 4482802--4482844 Score: 77
Period size: 19 Copynumber: 2.3 Consensus size: 19
4482792 AGGCATTATG
*
4482802 TTAAACATGTGAAGAACTT
1 TTAAACATATGAAGAACTT
4482821 TTAAACATATGAAGAACTT
1 TTAAACATATGAAGAACTT
4482840 TTAAA
1 TTAAA
4482845 AATGAAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.47, C:0.09, G:0.12, T:0.33
Consensus pattern (19 bp):
TTAAACATATGAAGAACTT
Found at i:4485864 original size:1 final size:1
Alignment explanation
Indices: 4485858--4485883 Score: 52
Period size: 1 Copynumber: 26.0 Consensus size: 1
4485848 GCCTTCCTTG
4485858 TTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTT
4485884 GGCACTTCTC
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:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:4493025 original size:42 final size:42
Alignment explanation
Indices: 4492970--4493053 Score: 132
Period size: 42 Copynumber: 2.0 Consensus size: 42
4492960 TTTTGATACT
*
4492970 TAATTTATACTATGATTTAGTATCTTGTCCTTAAAACATTAA
1 TAATCTATACTATGATTTAGTATCTTGTCCTTAAAACATTAA
* **
4493012 TAATCTATACTATGATTTAGTATCTTGTTCTTATGACATTAA
1 TAATCTATACTATGATTTAGTATCTTGTCCTTAAAACATTAA
4493054 CTTAGGGCTT
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 38 1.00
ACGTcount: A:0.33, C:0.12, G:0.08, T:0.46
Consensus pattern (42 bp):
TAATCTATACTATGATTTAGTATCTTGTCCTTAAAACATTAA
Found at i:4494983 original size:16 final size:17
Alignment explanation
Indices: 4494951--4494983 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
4494941 TCAAACACAA
*
4494951 TAATTTAATATTATTAT
1 TAATTTAATAATATTAT
4494968 TAATTT-ATAATATTAT
1 TAATTTAATAATATTAT
4494984 ACTAAACATA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (17 bp):
TAATTTAATAATATTAT
Found at i:4495302 original size:17 final size:17
Alignment explanation
Indices: 4495261--4495304 Score: 52
Period size: 17 Copynumber: 2.6 Consensus size: 17
4495251 TTTTAAAATT
*
4495261 TTTAATTTATTCTTAAA
1 TTTATTTTATTCTTAAA
* * *
4495278 TCTCTTTTATTCTTATA
1 TTTATTTTATTCTTAAA
4495295 TTTATTTTAT
1 TTTATTTTAT
4495305 ATTTGTCTGG
Statistics
Matches: 21, Mismatches: 6, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.25, C:0.09, G:0.00, T:0.66
Consensus pattern (17 bp):
TTTATTTTATTCTTAAA
Found at i:4496570 original size:84 final size:84
Alignment explanation
Indices: 4496418--4496598 Score: 195
Period size: 84 Copynumber: 2.2 Consensus size: 84
4496408 GGAAACTGAA
* * * * * * *
4496418 CTTGATAATGATGTTCAACTTGAACAAACTGATAATGATACTGGTGATAAGGTGTTTGATGATTC
1 CTTGGTAATGATGTTCAACTCGAACAAACTGATAAGGATACTCGTGATAAGGTGTTAGATCATAC
*
4496483 AACTAGTAAGGAACATCAG
66 AACTAATAAGGAACATCAG
* * *
4496502 CTTGGTAATGAT-TTGCAACTCGAACAAACTGATAAGGATATTCGTGGTGAGGTGTTAGA-CACT
1 CTTGGTAATGATGTT-CAACTCGAACAAACTGATAAGGATACTCGTGATAAGGTGTTAGATCA-T
* * * *
4496565 ACAACTAATGATGAGCATCGG
64 ACAACTAATAAGGAACATCAG
4496586 CTTGGTAATGATG
1 CTTGGTAATGATG
4496599 GAACAATGGC
Statistics
Matches: 79, Mismatches: 15, Indels: 5
0.80 0.15 0.05
Matches are distributed among these distances:
83 3 0.04
84 76 0.96
ACGTcount: A:0.33, C:0.13, G:0.24, T:0.30
Consensus pattern (84 bp):
CTTGGTAATGATGTTCAACTCGAACAAACTGATAAGGATACTCGTGATAAGGTGTTAGATCATAC
AACTAATAAGGAACATCAG
Found at i:4500358 original size:27 final size:28
Alignment explanation
Indices: 4500319--4500378 Score: 86
Period size: 27 Copynumber: 2.2 Consensus size: 28
4500309 AGGAAATGGC
*
4500319 ACATCTCTATAATAACAAAGTAACAA-A
1 ACATCTCTATAATAACAAAGTAAAAATA
* *
4500346 ACATCTTTTTAATAACAAAGTAAAAATA
1 ACATCTCTATAATAACAAAGTAAAAATA
4500374 ACATC
1 ACATC
4500379 ATAACAAAGT
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
27 23 0.79
28 6 0.21
ACGTcount: A:0.53, C:0.17, G:0.03, T:0.27
Consensus pattern (28 bp):
ACATCTCTATAATAACAAAGTAAAAATA
Found at i:4504426 original size:17 final size:17
Alignment explanation
Indices: 4504384--4504435 Score: 54
Period size: 19 Copynumber: 2.9 Consensus size: 17
4504374 TCTTCTTTCA
4504384 TTTTTTC-TTCTTTTTCCAT
1 TTTTTTCTTTCTTTTT---T
4504403 TTTTTTCTTT-TTTTTT
1 TTTTTTCTTTCTTTTTT
4504419 TTTGTTTCTTTCTTTTT
1 TTT-TTTCTTTCTTTTT
4504436 ATCTCTCTAT
Statistics
Matches: 30, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
16 4 0.13
17 7 0.23
18 5 0.17
19 12 0.40
20 2 0.07
ACGTcount: A:0.02, C:0.13, G:0.02, T:0.83
Consensus pattern (17 bp):
TTTTTTCTTTCTTTTTT
Found at i:4511110 original size:22 final size:23
Alignment explanation
Indices: 4511085--4511137 Score: 83
Period size: 22 Copynumber: 2.4 Consensus size: 23
4511075 CAACTAAATG
4511085 AATATTTA-AATATTAATTTAAT
1 AATATTTATAATATTAATTTAAT
*
4511107 AATA-TTATAATATTATTTTAAT
1 AATATTTATAATATTAATTTAAT
4511129 AATATTTAT
1 AATATTTAT
4511138 GTGTAATATT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
21 3 0.11
22 21 0.75
23 4 0.14
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (23 bp):
AATATTTATAATATTAATTTAAT
Found at i:4511135 original size:11 final size:11
Alignment explanation
Indices: 4511085--4511135 Score: 57
Period size: 11 Copynumber: 4.6 Consensus size: 11
4511075 CAACTAAATG
*
4511085 AATATTTAAAT
1 AATATTTTAAT
* *
4511096 ATTAATTTAAT
1 AATATTTTAAT
*
4511107 AATATTATAAT
1 AATATTTTAAT
*
4511118 ATTATTTTAAT
1 AATATTTTAAT
4511129 AATATTT
1 AATATTT
4511136 ATGTGTAATA
Statistics
Matches: 31, Mismatches: 9, Indels: 0
0.77 0.22 0.00
Matches are distributed among these distances:
11 31 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (11 bp):
AATATTTTAAT
Found at i:4512955 original size:28 final size:29
Alignment explanation
Indices: 4512895--4512954 Score: 84
Period size: 29 Copynumber: 2.1 Consensus size: 29
4512885 AAAAAATTGC
* * * *
4512895 TTTCCTCTTTTGAAAAGGGAAAGGTAATT
1 TTTCCCCTTTTGAAAAAGAAAAGGCAATT
4512924 TTTCCCCTTTTGAAAAAGAAAAGGCAATT
1 TTTCCCCTTTTGAAAAAGAAAAGGCAATT
4512953 TT
1 TT
4512955 CGAAAAAAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.33, C:0.13, G:0.17, T:0.37
Consensus pattern (29 bp):
TTTCCCCTTTTGAAAAAGAAAAGGCAATT
Found at i:4513837 original size:15 final size:15
Alignment explanation
Indices: 4513817--4513858 Score: 57
Period size: 16 Copynumber: 2.7 Consensus size: 15
4513807 AAATATACTT
*
4513817 TTTTAATATTAATAA
1 TTTTAATATAAATAA
4513832 TTTTAATAATAAATAA
1 TTTTAAT-ATAAATAA
*
4513848 TTTCAATATAA
1 TTTTAATATAA
4513859 TTTAATCATA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
15 11 0.46
16 13 0.54
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (15 bp):
TTTTAATATAAATAA
Found at i:4513848 original size:25 final size:25
Alignment explanation
Indices: 4513827--4513876 Score: 64
Period size: 26 Copynumber: 2.0 Consensus size: 25
4513817 TTTTAATATT
4513827 AATAATTTTAATAATAAATAATTTC
1 AATAATTTTAATAATAAATAATTTC
* * *
4513852 AATATAATTTAATCATAAATTATTT
1 AATA-ATTTTAATAATAAATAATTT
4513877 TGAATATTTT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
25 4 0.19
26 17 0.81
ACGTcount: A:0.50, C:0.04, G:0.00, T:0.46
Consensus pattern (25 bp):
AATAATTTTAATAATAAATAATTTC
Found at i:4517031 original size:21 final size:20
Alignment explanation
Indices: 4516989--4517031 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
4516979 TGAATTTTTA
*
4516989 GAAAAAGAAAATTTTGATTT
1 GAAAAAGAAAATTTTGAATT
4517009 GAAAAAG-AAATTTGATGAATT
1 GAAAAAGAAAATTT--TGAATT
4517030 GA
1 GA
4517032 TGAATGAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
19 6 0.30
20 7 0.35
21 7 0.35
ACGTcount: A:0.51, C:0.00, G:0.19, T:0.30
Consensus pattern (20 bp):
GAAAAAGAAAATTTTGAATT
Found at i:4518885 original size:22 final size:22
Alignment explanation
Indices: 4518857--4518898 Score: 84
Period size: 22 Copynumber: 1.9 Consensus size: 22
4518847 GCTTGTAAAT
4518857 GATATGTGTTATTGGTTCATAC
1 GATATGTGTTATTGGTTCATAC
4518879 GATATGTGTTATTGGTTCAT
1 GATATGTGTTATTGGTTCAT
4518899 CTATTGTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.21, C:0.07, G:0.24, T:0.48
Consensus pattern (22 bp):
GATATGTGTTATTGGTTCATAC
Found at i:4520632 original size:21 final size:21
Alignment explanation
Indices: 4520599--4520641 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
4520589 ATAATTTTGC
* * *
4520599 TTGATTTGTTTTGTGTTAACA
1 TTGATATGCTTTGTGATAACA
4520620 TTGATATGCTTTGTGATAACA
1 TTGATATGCTTTGTGATAACA
4520641 T
1 T
4520642 ATCTTTAACA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.23, C:0.07, G:0.19, T:0.51
Consensus pattern (21 bp):
TTGATATGCTTTGTGATAACA
Found at i:4520660 original size:16 final size:16
Alignment explanation
Indices: 4520641--4520691 Score: 93
Period size: 16 Copynumber: 3.2 Consensus size: 16
4520631 TGTGATAACA
*
4520641 TATCTTTAACAATTGG
1 TATCCTTAACAATTGG
4520657 TATCCTTAACAATTGG
1 TATCCTTAACAATTGG
4520673 TATCCTTAACAATTGG
1 TATCCTTAACAATTGG
4520689 TAT
1 TAT
4520692 ATGCTTGTAT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
16 34 1.00
ACGTcount: A:0.31, C:0.16, G:0.12, T:0.41
Consensus pattern (16 bp):
TATCCTTAACAATTGG
Found at i:4522025 original size:17 final size:17
Alignment explanation
Indices: 4522003--4522037 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
4521993 GCTGAATGGT
*
4522003 TGTCCCTTATTTTACAC
1 TGTCCCCTATTTTACAC
4522020 TGTCCCCTATTTTACAC
1 TGTCCCCTATTTTACAC
4522037 T
1 T
4522038 CTACTCACTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.17, C:0.31, G:0.06, T:0.46
Consensus pattern (17 bp):
TGTCCCCTATTTTACAC
Found at i:4531314 original size:184 final size:184
Alignment explanation
Indices: 4531024--4531430 Score: 568
Period size: 184 Copynumber: 2.2 Consensus size: 184
4531014 TTTAAACATG
* * * ***
4531024 TAATTAACACATAAATTTACAAAAGCCATGC--CACAATATGCCAAAAAAACACACAAATCACCA
1 TAATTAACACATAAATTTACAAAACCCATACTTCA-AAT-TTCTTCAAAAACACACAAATCACCA
* * *
4531087 TGAATTTGAGAATAAAATTTCATGTTCATACCTATTCTTGACCCATTTTTGTTACTTAATTTTCT
64 TGAATTTGAGAATAAAATTTCATGTTCATACCCATTATTGACCCATTGTTGTTACTTAATTTTCT
***
4531152 TTCATCAATTTGTT-ATGTTTTCCTTGAGTTTTAATGCAATTAAATATTCTAAACTT
129 TTCATCAATTT-TTCATGTTTTCCTTGAGTTTTAATGCAATTAAATACAATAAACTT
* * *
4531208 TAATTAACACATATATTTACAAAATCCATACTTCAAATTTCTTCAAAAACATACAAATCACCATG
1 TAATTAACACATAAATTTACAAAACCCATACTTCAAATTTCTTCAAAAACACACAAATCACCATG
* *
4531273 AATTTGAGAATAAAATTTCATGTTCATACCCATTATTGACCCATTGTTGTTACTTGATTTTTTTT
66 AATTTGAGAATAAAATTTCATGTTCATACCCATTATTGACCCATTGTTGTTACTTAATTTTCTTT
* * * *
4531338 TATCGATTTTTCATGTTTTCCTTGAGTTTTAATGCAATTAAATGCAATAAATTT
131 CATCAATTTTTCATGTTTTCCTTGAGTTTTAATGCAATTAAATACAATAAACTT
*
4531392 TAATTAATACATAAATTTACAAAACCCATACTTCAAATT
1 TAATTAACACATAAATTTACAAAACCCATACTTCAAATT
4531431 ACACTAAAAC
Statistics
Matches: 197, Mismatches: 23, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
183 2 0.01
184 190 0.96
185 3 0.02
186 2 0.01
ACGTcount: A:0.37, C:0.17, G:0.07, T:0.39
Consensus pattern (184 bp):
TAATTAACACATAAATTTACAAAACCCATACTTCAAATTTCTTCAAAAACACACAAATCACCATG
AATTTGAGAATAAAATTTCATGTTCATACCCATTATTGACCCATTGTTGTTACTTAATTTTCTTT
CATCAATTTTTCATGTTTTCCTTGAGTTTTAATGCAATTAAATACAATAAACTT
Found at i:4534113 original size:18 final size:18
Alignment explanation
Indices: 4534086--4534191 Score: 101
Period size: 18 Copynumber: 6.1 Consensus size: 18
4534076 CCTTTGTTTT
*
4534086 TGATACATTTGAGGTTGA
1 TGATACATTTGAGGTGGA
*
4534104 TGATATATTTGA---GGA
1 TGATACATTTGAGGTGGA
* *
4534119 TGATACATTTGTGGTGGG
1 TGATACATTTGAGGTGGA
* * **
4534137 GGATACATTTGTGGTAAA
1 TGATACATTTGAGGTGGA
*
4534155 TGATATATTTGAGGTGGA
1 TGATACATTTGAGGTGGA
*
4534173 GGATACATTTGAGGTGGA
1 TGATACATTTGAGGTGGA
4534191 T
1 T
4534192 AATAAACATA
Statistics
Matches: 68, Mismatches: 17, Indels: 6
0.75 0.19 0.07
Matches are distributed among these distances:
15 12 0.18
18 56 0.82
ACGTcount: A:0.27, C:0.04, G:0.32, T:0.37
Consensus pattern (18 bp):
TGATACATTTGAGGTGGA
Found at i:4534192 original size:51 final size:49
Alignment explanation
Indices: 4534087--4534189 Score: 116
Period size: 51 Copynumber: 2.0 Consensus size: 49
4534077 CTTTGTTTTT
** * *
4534087 GATACATTTGAGGTTGATGATATATTTGAGGATGATACATTTGTGGTGGGG
1 GATACATTTGAGGTAAATGATATATTTGAGGAGGATACATTTGAGGT--GG
*
4534138 GATACATTTGTGGTAAATGATATATTTGAGGTGGAGGATACATTTGAGGTGG
1 GATACATTTGAGGTAAATGATATATTTGA---GGAGGATACATTTGAGGTGG
4534190 ATAATAAACA
Statistics
Matches: 44, Mismatches: 5, Indels: 5
0.81 0.09 0.09
Matches are distributed among these distances:
51 26 0.59
52 2 0.05
54 16 0.36
ACGTcount: A:0.27, C:0.04, G:0.33, T:0.36
Consensus pattern (49 bp):
GATACATTTGAGGTAAATGATATATTTGAGGAGGATACATTTGAGGTGG
Found at i:4534551 original size:3 final size:3
Alignment explanation
Indices: 4534537--4534570 Score: 59
Period size: 3 Copynumber: 11.3 Consensus size: 3
4534527 AAATTCGCAC
*
4534537 CAT CAC CAT CAT CAT CAT CAT CAT CAT CAT CAT C
1 CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT C
4534571 TAGACTTAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.32, C:0.38, G:0.00, T:0.29
Consensus pattern (3 bp):
CAT
Found at i:4542075 original size:32 final size:32
Alignment explanation
Indices: 4542039--4542100 Score: 115
Period size: 32 Copynumber: 1.9 Consensus size: 32
4542029 TTGGCCACAC
*
4542039 TCTAACAGATGAACAATAGGTTCAAGCTATAG
1 TCTAACAGATGAACAATAAGTTCAAGCTATAG
4542071 TCTAACAGATGAACAATAAGTTCAAGCTAT
1 TCTAACAGATGAACAATAAGTTCAAGCTAT
4542101 TATTTATTCT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.42, C:0.16, G:0.16, T:0.26
Consensus pattern (32 bp):
TCTAACAGATGAACAATAAGTTCAAGCTATAG
Found at i:4546746 original size:12 final size:12
Alignment explanation
Indices: 4546729--4546768 Score: 53
Period size: 12 Copynumber: 3.3 Consensus size: 12
4546719 GTCCAGATAA
4546729 TGATGATGATGG
1 TGATGATGATGG
4546741 TGATGATGATGG
1 TGATGATGATGG
** *
4546753 AAATGGTGATGG
1 TGATGATGATGG
4546765 TGAT
1 TGAT
4546769 AGTGCGAATT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.28, C:0.00, G:0.40, T:0.33
Consensus pattern (12 bp):
TGATGATGATGG
Found at i:4547117 original size:18 final size:18
Alignment explanation
Indices: 4547096--4547166 Score: 54
Period size: 18 Copynumber: 3.8 Consensus size: 18
4547086 ATGGTTATCC
*
4547096 ACCTCAAATGTATCCTCT
1 ACCTCAAATGTATCATCT
*
4547114 ACCTCCTCAAATGTATGAT-T
1 A---CCTCAAATGTATCATCT
* *
4547134 CACCTTAAATGTATCATTT
1 -ACCTCAAATGTATCATCT
*
4547153 ACCACAAATGTATC
1 ACCTCAAATGTATC
4547167 CCCTACTATA
Statistics
Matches: 42, Mismatches: 6, Indels: 10
0.72 0.10 0.17
Matches are distributed among these distances:
18 26 0.62
19 1 0.02
20 1 0.02
21 14 0.33
ACGTcount: A:0.32, C:0.27, G:0.07, T:0.34
Consensus pattern (18 bp):
ACCTCAAATGTATCATCT
Found at i:4551053 original size:20 final size:20
Alignment explanation
Indices: 4551024--4551065 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
4551014 AAAGCTGGTA
*
4551024 AAATAGAACTTTTAGTAAGG
1 AAATAGAACTCTTAGTAAGG
*
4551044 AAATATAACTCTTAGTAAGG
1 AAATAGAACTCTTAGTAAGG
4551064 AA
1 AA
4551066 TTCTTACATT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.48, C:0.07, G:0.17, T:0.29
Consensus pattern (20 bp):
AAATAGAACTCTTAGTAAGG
Found at i:4552151 original size:8 final size:8
Alignment explanation
Indices: 4552140--4552185 Score: 65
Period size: 8 Copynumber: 5.8 Consensus size: 8
4552130 TATTTTTTAA
*
4552140 TTATTTAT
1 TTATATAT
4552148 TTATATAT
1 TTATATAT
*
4552156 TTATATAA
1 TTATATAT
4552164 TTATATAT
1 TTATATAT
*
4552172 TTAAATAT
1 TTATATAT
4552180 TTATAT
1 TTATAT
4552186 TTAAAAAATA
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
8 33 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (8 bp):
TTATATAT
Found at i:4552172 original size:24 final size:24
Alignment explanation
Indices: 4552137--4552185 Score: 80
Period size: 24 Copynumber: 2.0 Consensus size: 24
4552127 AATTATTTTT
* *
4552137 TAATTATTTATTTATATATTTATA
1 TAATTATATATTTAAATATTTATA
4552161 TAATTATATATTTAAATATTTATA
1 TAATTATATATTTAAATATTTATA
4552185 T
1 T
4552186 TTAAAAAATA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (24 bp):
TAATTATATATTTAAATATTTATA
Found at i:4552184 original size:14 final size:16
Alignment explanation
Indices: 4552148--4552203 Score: 64
Period size: 16 Copynumber: 3.7 Consensus size: 16
4552138 AATTATTTAT
*
4552148 TTATATATTTATATAA
1 TTATATATTTAAATAA
4552164 TTATATATTTAAAT-A
1 TTATATATTTAAATAA
*
4552179 TT-TATATTTAAAAAA
1 TTATATATTTAAATAA
*
4552194 TAATAT-TTTA
1 TTATATATTTA
4552204 TTAATTTCTA
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
14 10 0.29
15 9 0.26
16 16 0.46
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (16 bp):
TTATATATTTAAATAA
Found at i:4552503 original size:22 final size:22
Alignment explanation
Indices: 4552458--4552503 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
4552448 AAATTTTTTC
**
4552458 TAAATAAAAGGGAATATATTTT
1 TAAATAAAAGGGAATATAAGTT
4552480 TAAATAAAAGGGAATGA-AAGTT
1 TAAATAAAAGGGAAT-ATAAGTT
4552502 TA
1 TA
4552504 TTTAAATATA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 20 0.95
23 1 0.05
ACGTcount: A:0.52, C:0.00, G:0.17, T:0.30
Consensus pattern (22 bp):
TAAATAAAAGGGAATATAAGTT
Found at i:4552940 original size:16 final size:17
Alignment explanation
Indices: 4552916--4552950 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
4552906 GATTCAACCT
*
4552916 AAAATTTAAT-TTAAAA
1 AAAAATTAATCTTAAAA
4552932 AAAAATTAATCTTAAAA
1 AAAAATTAATCTTAAAA
4552949 AA
1 AA
4552951 TTAAATCAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 9 0.53
17 8 0.47
ACGTcount: A:0.66, C:0.03, G:0.00, T:0.31
Consensus pattern (17 bp):
AAAAATTAATCTTAAAA
Found at i:4553914 original size:3 final size:3
Alignment explanation
Indices: 4553908--4553939 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
4553898 AGTGGGATTG
*
4553908 TTA TTA TTA TTA TTA TTA TTA TTA GTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
4553940 TAACTAAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.31, C:0.00, G:0.03, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:4560558 original size:64 final size:65
Alignment explanation
Indices: 4560414--4560559 Score: 172
Period size: 64 Copynumber: 2.2 Consensus size: 65
4560404 TGGTTTAAAT
* * *
4560414 TCACTTTTTTGAATTAATTCTAATCTAGTTGTGGTTTTGGTCATATCTAGAATTTGTTTGGGTTG
1 TCAC-TTTTTAAATTAATTCTAATCTAGTTGTAGTTTTGGTCATATCTAGAATTTGTTTGGCTTG
*
4560479 T
65 A
* * *
4560480 TCACTTTTTTAATTAATTCTAATCTAGTTG-AGTTTTGGTCATATCTATAATTTGCTTTATGCTT
1 TCACTTTTTAAATTAATTCTAATCTAGTTGTAGTTTTGGTCATATCTAGAATTTG-TTT-GGCTT
4560544 -A
64 GA
*
4560545 T-AGTTTTTAAATTAA
1 TCACTTTTTAAATTAA
4560560 GTTGGAATTG
Statistics
Matches: 70, Mismatches: 8, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
64 34 0.49
65 29 0.41
66 7 0.10
ACGTcount: A:0.24, C:0.10, G:0.14, T:0.52
Consensus pattern (65 bp):
TCACTTTTTAAATTAATTCTAATCTAGTTGTAGTTTTGGTCATATCTAGAATTTGTTTGGCTTGA
Found at i:4564097 original size:2 final size:2
Alignment explanation
Indices: 4564090--4564117 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
4564080 AAGGCGCAAA
4564090 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
4564118 GGATAAGAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4569731 original size:15 final size:15
Alignment explanation
Indices: 4569711--4569753 Score: 59
Period size: 15 Copynumber: 2.8 Consensus size: 15
4569701 CTTTAATTTT
4569711 TGCATTTTCTTATAC
1 TGCATTTTCTTATAC
*
4569726 TGCATTTTCTTGTAC
1 TGCATTTTCTTATAC
*
4569741 TACATTTTACTTA
1 TGCATTTT-CTTA
4569754 ACAAACAAAC
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
15 21 0.88
16 3 0.12
ACGTcount: A:0.21, C:0.19, G:0.07, T:0.53
Consensus pattern (15 bp):
TGCATTTTCTTATAC
Found at i:4579426 original size:20 final size:20
Alignment explanation
Indices: 4579401--4579452 Score: 77
Period size: 20 Copynumber: 2.6 Consensus size: 20
4579391 AAATAATTCA
*
4579401 AATAAAATTTATTGTTTATT
1 AATAAAATTTATTATTTATT
4579421 AATAAAATTTATTATTTATT
1 AATAAAATTTATTATTTATT
* *
4579441 AACAAATTTTAT
1 AATAAAATTTAT
4579453 ATAATAAATA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.52
Consensus pattern (20 bp):
AATAAAATTTATTATTTATT
Found at i:4587000 original size:14 final size:15
Alignment explanation
Indices: 4586981--4587010 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
4586971 CTAATGATAT
4586981 TTATTTTTA-AAAAA
1 TTATTTTTACAAAAA
4586995 TTATTTTTACAAAAA
1 TTATTTTTACAAAAA
4587010 T
1 T
4587011 CTAAACTAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 9 0.60
15 6 0.40
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (15 bp):
TTATTTTTACAAAAA
Found at i:4590396 original size:1 final size:1
Alignment explanation
Indices: 4590390--4590414 Score: 50
Period size: 1 Copynumber: 25.0 Consensus size: 1
4590380 TCTTTGTTTT
4590390 AAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAA
4590415 CAGAAGAGTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 24 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:4591250 original size:2 final size:2
Alignment explanation
Indices: 4591243--4591276 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
4591233 GAAACGAAAG
4591243 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
4591277 TTTCATAAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:4592672 original size:10 final size:10
Alignment explanation
Indices: 4592657--4592686 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
4592647 GTAACCAAAT
*
4592657 TAACTAATTA
1 TAACTAACTA
4592667 TAACTAACTA
1 TAACTAACTA
4592677 TAACTAACTA
1 TAACTAACTA
4592687 CTCAACCAAC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.50, C:0.17, G:0.00, T:0.33
Consensus pattern (10 bp):
TAACTAACTA
Found at i:4602672 original size:18 final size:18
Alignment explanation
Indices: 4602639--4602675 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
4602629 TGCAAGTTAA
**
4602639 TTTTTTTTTATTTTTATC
1 TTTTTTTTTAAATTTATC
4602657 TTTTTTTTTAAATTTATC
1 TTTTTTTTTAAATTTATC
4602675 T
1 T
4602676 AATTAAAAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.16, C:0.05, G:0.00, T:0.78
Consensus pattern (18 bp):
TTTTTTTTTAAATTTATC
Found at i:4603096 original size:11 final size:11
Alignment explanation
Indices: 4603080--4603104 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
4603070 CTTTATCAAT
4603080 GAAAAAAGAAA
1 GAAAAAAGAAA
4603091 GAAAAAAGAAA
1 GAAAAAAGAAA
4603102 GAA
1 GAA
4603105 CCAAACATAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (11 bp):
GAAAAAAGAAA
Found at i:4603324 original size:17 final size:16
Alignment explanation
Indices: 4603276--4603324 Score: 53
Period size: 17 Copynumber: 2.9 Consensus size: 16
4603266 TAAGTAATTA
* *
4603276 AAAAAACTAAAAAAAT
1 AAAAAAGTAAAAAAAC
*
4603292 AAAAAAGTATAGAAAAC
1 AAAAAAGTA-AAAAAAC
4603309 AAAAAAGTAAATAAAA
1 AAAAAAGTAAA-AAAA
4603325 AGATGAAGGT
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
16 9 0.33
17 18 0.67
ACGTcount: A:0.78, C:0.04, G:0.06, T:0.12
Consensus pattern (16 bp):
AAAAAAGTAAAAAAAC
Found at i:4612159 original size:17 final size:17
Alignment explanation
Indices: 4612129--4612178 Score: 64
Period size: 18 Copynumber: 2.8 Consensus size: 17
4612119 AATGGTTATT
*
4612129 AAAAAGTAAAAAAATAAA
1 AAAAAGTAAAAAAA-ACA
*
4612147 AAAAAGTATAAAAAACA
1 AAAAAGTAAAAAAAACA
4612164 AAAAAGTAAATAAAA
1 AAAAAGTAAA-AAAA
4612179 GGATAATGGT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
17 11 0.39
18 17 0.61
ACGTcount: A:0.80, C:0.02, G:0.06, T:0.12
Consensus pattern (17 bp):
AAAAAGTAAAAAAAACA
Found at i:4612176 original size:19 final size:19
Alignment explanation
Indices: 4612129--4612178 Score: 63
Period size: 17 Copynumber: 2.8 Consensus size: 19
4612119 AATGGTTATT
4612129 AAAAAGTAAA-AAAATAAA
1 AAAAAGTAAATAAAATAAA
4612147 AAAAAGT--ATAAAA-AACA
1 AAAAAGTAAATAAAATAA-A
4612164 AAAAAGTAAATAAAA
1 AAAAAGTAAATAAAA
4612179 GGATAATGGT
Statistics
Matches: 28, Mismatches: 0, Indels: 7
0.80 0.00 0.20
Matches are distributed among these distances:
16 3 0.11
17 12 0.43
18 7 0.25
19 6 0.21
ACGTcount: A:0.80, C:0.02, G:0.06, T:0.12
Consensus pattern (19 bp):
AAAAAGTAAATAAAATAAA
Found at i:4613799 original size:23 final size:23
Alignment explanation
Indices: 4613773--4613818 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
4613763 GAAGCATAAG
*
4613773 CAATTTTTTTATTATTCTGCATC
1 CAATTTCTTTATTATTCTGCATC
*
4613796 CAATTTCTTTATTGTTCTGCATC
1 CAATTTCTTTATTATTCTGCATC
4613819 AACACATAAC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.20, C:0.20, G:0.07, T:0.54
Consensus pattern (23 bp):
CAATTTCTTTATTATTCTGCATC
Found at i:4620168 original size:2 final size:2
Alignment explanation
Indices: 4620156--4620185 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
4620146 TTAATTGGGG
*
4620156 AT AT AT TT 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
4620186 CTAGCAATTT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
AT
Found at i:4621409 original size:428 final size:427
Alignment explanation
Indices: 4620582--4621436 Score: 1496
Period size: 428 Copynumber: 2.0 Consensus size: 427
4620572 TATATATATG
* *
4620582 TGAATTTAGGTAAGGTTAGGCTGGTCTTAGTTTTAAATATTTTATGAAGGACCTGACTCGAAATT
1 TGAATTTAGGTAAGGCTAGGCTGGTCTTAGTTTTAAATATTTTATCAAGGACCTGACTCGAAATT
*
4620647 TAAACGGGTTTAAAAATTATGCCCAAATTGGTTTAATGAATTTTAATTTTTTATCCAAGCTTTCT
66 TAAACGGGTTTAAAAATTATGCCCAAATTCGTTTAATGAATTTTAATTTTTTATCCAAGCTTTCT
4620712 CAAAACTTGGGCGAGCCTTTGGGTTTGGGCTAGTAGCTCGACATTTGAATAGATTTGCATCTGAT
131 CAAAACTTGGGCGAGCCTTTGGGTTTGGGCTAGTAGCTCGACATTTGAATAGATTTGCATCTGAT
* *
4620777 TGTGTTTTATAAATTTTTAAAGCCATTAGATTTGAGAGCACAATGATCCTATAGTGTGATTGATA
196 TGTGTTCTATAAATTTTTAAAGCCATTAGATTTGAGAGCACAATAATCCTATAGTGTGATTGATA
*
4620842 TGCTTGGACACCAAGTTTAGTAAAAAAACATGAAAAATTTATCACCCTTTTATGAAGTTTATTAC
261 TGCTTGGACACCAAGTTTAGTAAAAAAACATGAAAAATTTATCACCCTTTTATGAAGTTTAATAC
* *
4620907 AATGGCCATTGTAGTGAGAAAGTGTCTTTAAAAAGACATTTTTAGGGTTATGATGAGGGATTGGC
326 AATGGCCATTGTAGTGAGAAAGTGTCTTTAAAAAAACATTTGTAGGGTTATGATGAGGGATTGGC
**
4620972 AACAAGAGAAAGTGGCAGTAATTACTAAAAAAAAAAA
391 AACAAGAGAAAGTGGCAACAATTACTAAAAAAAAAAA
* *
4621009 TGAATTTAGGTAAGGCTAGGCTGGTTTTAGATTTTAAATATTTTATCAAGGACCTGACTTGAAAT
1 TGAATTTAGGTAAGGCTAGGCTGGTCTTAG-TTTTAAATATTTTATCAAGGACCTGACTCGAAAT
4621074 TTAAACGGGTTTAAAAATTATGCCCAAATTCGTTTAATGAATTTTAATTTTTTATCCAAGCTTTC
65 TTAAACGGGTTTAAAAATTATGCCCAAATTCGTTTAATGAATTTTAATTTTTTATCCAAGCTTTC
*
4621139 TCAAAACTTGGGCGAGCCTTTGGGTTTGGGCTAGTAGCTCGACATTTGAATA-AGTTTGCATTTG
130 TCAAAACTTGGGCGAGCCTTTGGGTTTGGGCTAGTAGCTCGACATTTGAATAGA-TTTGCATCTG
* * *
4621203 ATTGTGTTCTATAAATTTTTAAAGCCATTATATTTGAGAGCACGATAATTCTATAGTGTGATTGA
194 ATTGTGTTCTATAAATTTTTAAAGCCATTAGATTTGAGAGCACAATAATCCTATAGTGTGATTGA
*
4621268 TATGCTTGGACATCAAGTTTAGTAAAAAAACATGAAAAATTTATCACCCTTTTATGAAGTTTAAT
259 TATGCTTGGACACCAAGTTTAGTAAAAAAACATGAAAAATTTATCACCCTTTTATGAAGTTTAAT
* * *
4621333 ACAATGGCCCTTGTAGTGAGAAAGTGTTTTTAAAAAAACATTTGTAGGGTTGTGATGAGGGATTG
324 ACAATGGCCATTGTAGTGAGAAAGTGTCTTTAAAAAAACATTTGTAGGGTTATGATGAGGGATTG
*
4621398 GCAACAAGAGAAAGTGGCAACAATTACTAAAAAAGAAAA
389 GCAACAAGAGAAAGTGGCAACAATTACTAAAAAAAAAAA
4621437 GAAAAATAAA
Statistics
Matches: 405, Mismatches: 21, Indels: 3
0.94 0.05 0.01
Matches are distributed among these distances:
427 29 0.07
428 376 0.93
ACGTcount: A:0.34, C:0.11, G:0.20, T:0.35
Consensus pattern (427 bp):
TGAATTTAGGTAAGGCTAGGCTGGTCTTAGTTTTAAATATTTTATCAAGGACCTGACTCGAAATT
TAAACGGGTTTAAAAATTATGCCCAAATTCGTTTAATGAATTTTAATTTTTTATCCAAGCTTTCT
CAAAACTTGGGCGAGCCTTTGGGTTTGGGCTAGTAGCTCGACATTTGAATAGATTTGCATCTGAT
TGTGTTCTATAAATTTTTAAAGCCATTAGATTTGAGAGCACAATAATCCTATAGTGTGATTGATA
TGCTTGGACACCAAGTTTAGTAAAAAAACATGAAAAATTTATCACCCTTTTATGAAGTTTAATAC
AATGGCCATTGTAGTGAGAAAGTGTCTTTAAAAAAACATTTGTAGGGTTATGATGAGGGATTGGC
AACAAGAGAAAGTGGCAACAATTACTAAAAAAAAAAA
Found at i:4624247 original size:15 final size:15
Alignment explanation
Indices: 4624206--4624261 Score: 51
Period size: 15 Copynumber: 3.6 Consensus size: 15
4624196 AATTTTAAAT
4624206 ATATTTTAA-AGATTA
1 ATATTTTAATA-ATTA
**
4624221 ATTATATTTAATTTTTA
1 A-TAT-TTTAATAATTA
4624238 ATATTTTAATAATTA
1 ATATTTTAATAATTA
*
4624253 ATTTTTTAA
1 ATATTTTAA
4624262 GAGAAATCAT
Statistics
Matches: 33, Mismatches: 5, Indels: 6
0.75 0.11 0.14
Matches are distributed among these distances:
15 18 0.55
16 6 0.18
17 9 0.27
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (15 bp):
ATATTTTAATAATTA
Found at i:4644623 original size:33 final size:33
Alignment explanation
Indices: 4644586--4645068 Score: 521
Period size: 33 Copynumber: 14.8 Consensus size: 33
4644576 CTTTAAAACT
* * * * *
4644586 TTAAAACTTCTTTTAGGGCCAAATAAATTGGGC
1 TTAAAACTTCATTGATGGCCAGATAAACTGGGC
* * *
4644619 TT-AAATTTTATTGAAGGCCA-ACTAAACTGGGC
1 TTAAAACTTCATTGATGGCCAGA-TAAACTGGGC
*
4644651 TTAAAACCTCATTGATGGCCAGATAAACTGGGC
1 TTAAAACTTCATTGATGGCCAGATAAACTGGGC
* * *
4644684 TTAAAATTTCATTGATGGCCAGACAAACTGGGT
1 TTAAAACTTCATTGATGGCCAGATAAACTGGGC
** *
4644717 TTAAATGTT-ATTGATGGTCAGATAAACTGGGC
1 TTAAAACTTCATTGATGGCCAGATAAACTGGGC
* * *
4644749 TTAAAGCTTAATTAATGGCCAGATAAACTGGGC
1 TTAAAACTTCATTGATGGCCAGATAAACTGGGC
* *
4644782 TT-AAGCTTCATTAATGGCCAGATAAACTGGGC
1 TTAAAACTTCATTGATGGCCAGATAAACTGGGC
* * * * *
4644814 TTAAAGCCTCATTGTTGGCCAGATAAACTCGAC
1 TTAAAACTTCATTGATGGCCAGATAAACTGGGC
* * *
4644847 TTAAAACTTCATTTGA-GGCAAGATAAATTAGGC
1 TTAAAACTTCA-TTGATGGCCAGATAAACTGGGC
* ***
4644880 TTAAAGCTTCATTGATGGTTGGATAAACTGGGC
1 TTAAAACTTCATTGATGGCCAGATAAACTGGGC
*
4644913 TTAAAACTTCATTAATGGCCAGATAAACT-GGC
1 TTAAAACTTCATTGATGGCCAGATAAACTGGGC
**
4644945 TTAAAGTTTCATTGATGGCCAGATAAACTGGGC
1 TTAAAACTTCATTGATGGCCAGATAAACTGGGC
* *
4644978 TTAAAACTTCATTGATGGTCAGATAAA-TTGGC
1 TTAAAACTTCATTGATGGCCAGATAAACTGGGC
** *
4645010 TTAAATTTTCATTGATGGCCAAATAAACTGGGC
1 TTAAAACTTCATTGATGGCCAGATAAACTGGGC
* *
4645043 TTAAAGCTTCATTAATGGCCAGATAA
1 TTAAAACTTCATTGATGGCCAGATAA
4645069 CCCTAAAAAT
Statistics
Matches: 378, Mismatches: 63, Indels: 18
0.82 0.14 0.04
Matches are distributed among these distances:
31 1 0.00
32 142 0.38
33 231 0.61
34 4 0.01
ACGTcount: A:0.34, C:0.16, G:0.20, T:0.30
Consensus pattern (33 bp):
TTAAAACTTCATTGATGGCCAGATAAACTGGGC
Found at i:4644655 original size:65 final size:66
Alignment explanation
Indices: 4644586--4645068 Score: 557
Period size: 65 Copynumber: 7.4 Consensus size: 66
4644576 CTTTAAAACT
* * * * * * *
4644586 TTAAAACTTCTTTTAGGGCCAAATAAATTGGGCTTAAA-TTTTATTGAAGGCCA-ACTAAACTGG
1 TTAAAACTTCATTGATGGCCAGATAAACTGGGCTTAAAGTTTCATTGATGGCCAGA-TAAACTGG
4644649 GC
65 GC
* * *
4644651 TTAAAACCTCATTGATGGCCAGATAAACTGGGCTTAAAATTTCATTGATGGCCAGACAAACTGGG
1 TTAAAACTTCATTGATGGCCAGATAAACTGGGCTTAAAGTTTCATTGATGGCCAGATAAACTGGG
*
4644716 T
66 C
** * * * *
4644717 TTAAATGTT-ATTGATGGTCAGATAAACTGGGCTTAAAGCTTAATTAATGGCCAGATAAACTGGG
1 TTAAAACTTCATTGATGGCCAGATAAACTGGGCTTAAAGTTTCATTGATGGCCAGATAAACTGGG
4644781 C
66 C
* * ** * * *
4644782 TT-AAGCTTCATTAATGGCCAGATAAACTGGGCTTAAAGCCTCATTGTTGGCCAGATAAACTCGA
1 TTAAAACTTCATTGATGGCCAGATAAACTGGGCTTAAAGTTTCATTGATGGCCAGATAAACTGGG
4644846 C
66 C
* * * * ***
4644847 TTAAAACTTCATTTGA-GGCAAGATAAATTAGGCTTAAAGCTTCATTGATGGTTGGATAAACTGG
1 TTAAAACTTCA-TTGATGGCCAGATAAACTGGGCTTAAAGTTTCATTGATGGCCAGATAAACTGG
4644911 GC
65 GC
*
4644913 TTAAAACTTCATTAATGGCCAGATAAACT-GGCTTAAAGTTTCATTGATGGCCAGATAAACTGGG
1 TTAAAACTTCATTGATGGCCAGATAAACTGGGCTTAAAGTTTCATTGATGGCCAGATAAACTGGG
4644977 C
66 C
* * * *
4644978 TTAAAACTTCATTGATGGTCAGATAAA-TTGGCTTAAATTTTCATTGATGGCCAAATAAACTGGG
1 TTAAAACTTCATTGATGGCCAGATAAACTGGGCTTAAAGTTTCATTGATGGCCAGATAAACTGGG
4645042 C
66 C
* *
4645043 TTAAAGCTTCATTAATGGCCAGATAA
1 TTAAAACTTCATTGATGGCCAGATAA
4645069 CCCTAAAAAT
Statistics
Matches: 355, Mismatches: 56, Indels: 14
0.84 0.13 0.03
Matches are distributed among these distances:
64 5 0.01
65 250 0.70
66 96 0.27
67 4 0.01
ACGTcount: A:0.34, C:0.16, G:0.20, T:0.30
Consensus pattern (66 bp):
TTAAAACTTCATTGATGGCCAGATAAACTGGGCTTAAAGTTTCATTGATGGCCAGATAAACTGGG
C
Found at i:4644767 original size:98 final size:98
Alignment explanation
Indices: 4644586--4645068 Score: 528
Period size: 98 Copynumber: 4.9 Consensus size: 98
4644576 CTTTAAAACT
* * * * * * *
4644586 TTAAAACTTCTTTTAGGGCCAAATAAATTGGGCTTAAATTTTATTGAAGGCCA-ACTAAACTGGG
1 TTAAAACTTCATTGATGGCCAGATAAACTGGGCTTAAATGTTATTGATGGCCAGA-TAAACTGGG
* *
4644650 CTTAAAACCTCATTGATGGCCAGATAAACTGGGC
65 CTTAAAGCTTCATTGATGGCCAGATAAACTGGGC
* * * *
4644684 TTAAAATTTCATTGATGGCCAGACAAACTGGGTTTAAATGTTATTGATGGTCAGATAAACTGGGC
1 TTAAAACTTCATTGATGGCCAGATAAACTGGGCTTAAATGTTATTGATGGCCAGATAAACTGGGC
* *
4644749 TTAAAGCTTAATTAATGGCCAGATAAACTGGGC
66 TTAAAGCTTCATTGATGGCCAGATAAACTGGGC
* * * * *
4644782 TT-AAGCTTCATTAATGGCCAGATAAACTGGGCTTAAA-GCCTCATTGTTGGCCAGATAAACTCG
1 TTAAAACTTCATTGATGGCCAGATAAACTGGGCTTAAATG--TTATTGATGGCCAGATAAACTGG
* * * * *
4644845 ACTTAAAACTTCATTTGA-GGCAAGATAAATTAGGC
64 GCTTAAAGCTTCA-TTGATGGCCAGATAAACTGGGC
* *** ** *
4644880 TTAAAGCTTCATTGATGGTTGGATAAACTGGGCTTAAAACTTCATTAATGGCCAGATAAACT-GG
1 TTAAAACTTCATTGATGGCCAGATAAACTGGGCTTAAATGTT-ATTGATGGCCAGATAAACTGGG
*
4644944 CTTAAAGTTTCATTGATGGCCAGATAAACTGGGC
65 CTTAAAGCTTCATTGATGGCCAGATAAACTGGGC
* * * *
4644978 TTAAAACTTCATTGATGGTCAGATAAA-TTGGCTTAAATTTTCATTGATGGCCAAATAAACTGGG
1 TTAAAACTTCATTGATGGCCAGATAAACTGGGCTTAAATGTT-ATTGATGGCCAGATAAACTGGG
*
4645042 CTTAAAGCTTCATTAATGGCCAGATAA
65 CTTAAAGCTTCATTGATGGCCAGATAA
4645069 CCCTAAAAAT
Statistics
Matches: 321, Mismatches: 55, Indels: 18
0.81 0.14 0.05
Matches are distributed among these distances:
96 1 0.00
97 63 0.20
98 205 0.64
99 52 0.16
ACGTcount: A:0.34, C:0.16, G:0.20, T:0.30
Consensus pattern (98 bp):
TTAAAACTTCATTGATGGCCAGATAAACTGGGCTTAAATGTTATTGATGGCCAGATAAACTGGGC
TTAAAGCTTCATTGATGGCCAGATAAACTGGGC
Found at i:4645049 original size:229 final size:229
Alignment explanation
Indices: 4644648--4645068 Score: 596
Period size: 229 Copynumber: 1.8 Consensus size: 229
4644638 AACTAAACTG
* *
4644648 GGCTTAAAACCTCATTGATGGCCAGATAAACTGGGCTTAAAATTTCATTGATGGCCAGACAAACT
1 GGCTTAAAACCTCATTGATGGCCAGATAAACTGGGCTTAAAACTTCATTAATGGCCAGACAAACT
* * *
4644713 GGGTTTAAATGTTATTGATGGTCAGATAAACTGGGCTTAAAGCTTAATTAATGGCCAGATAAACT
66 GGGCTTAAATGTTATTGATGGCCAGATAAACTGGGCTTAAAACTTAATTAATGGCCAGATAAACT
* **
4644778 GGGCTTAAGCTTCATTAATGGCCAGATAAACTGGGCTTAAAGCCTCATTGTTGGCCAGATAAACT
131 GGGCTTAAGCTTCATTAATGGCCAAATAAACTGGGCTTAAAGCCTCATTAATGGCCAGATAAACT
4644843 CGACTTAAAACTTCATTTGAGGCAAGATAAATTA
196 CGACTTAAAACTTCATTTGAGGCAAGATAAATTA
* * *** *
4644877 GGCTTAAAGCTTCATTGATGGTTGGATAAACTGGGCTTAAAACTTCATTAATGGCCAGATAAACT
1 GGCTTAAAACCTCATTGATGGCCAGATAAACTGGGCTTAAAACTTCATTAATGGCCAGACAAACT
* * *
4644942 -GGCTTAAA-GTTTCATTGATGGCCAGATAAACTGGGCTTAAAACTTCATTGATGGTCAGATAAA
66 GGGCTTAAATG-TT-ATTGATGGCCAGATAAACTGGGCTTAAAACTTAATTAATGGCCAGATAAA
* ** * *
4645005 -TTGGCTTAAATTTTCATTGATGGCCAAATAAACTGGGCTTAAAGCTTCATTAATGGCCAGATAA
129 CTGGGCTT-AAGCTTCATTAATGGCCAAATAAACTGGGCTTAAAGCCTCATTAATGGCCAGATAA
4645069 CCCTAAAAAT
Statistics
Matches: 167, Mismatches: 22, Indels: 6
0.86 0.11 0.03
Matches are distributed among these distances:
227 1 0.01
228 15 0.09
229 151 0.90
ACGTcount: A:0.33, C:0.16, G:0.21, T:0.30
Consensus pattern (229 bp):
GGCTTAAAACCTCATTGATGGCCAGATAAACTGGGCTTAAAACTTCATTAATGGCCAGACAAACT
GGGCTTAAATGTTATTGATGGCCAGATAAACTGGGCTTAAAACTTAATTAATGGCCAGATAAACT
GGGCTTAAGCTTCATTAATGGCCAAATAAACTGGGCTTAAAGCCTCATTAATGGCCAGATAAACT
CGACTTAAAACTTCATTTGAGGCAAGATAAATTA
Found at i:4646053 original size:19 final size:20
Alignment explanation
Indices: 4646008--4646045 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
4645998 AGTGATAAGA
4646008 AAGAAAAGATAAAGAGGAAG
1 AAGAAAAGATAAAGAGGAAG
*
4646028 AAGAAAAG-TGAAGAGGAA
1 AAGAAAAGATAAAGAGGAA
4646046 AGAGAAAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.63, C:0.00, G:0.32, T:0.05
Consensus pattern (20 bp):
AAGAAAAGATAAAGAGGAAG
Found at i:4647780 original size:21 final size:21
Alignment explanation
Indices: 4647728--4647784 Score: 62
Period size: 21 Copynumber: 2.7 Consensus size: 21
4647718 AAGTGTATTT
*
4647728 ATTTTTTTAATATAAAATTATA
1 ATTTTTTT-ATATAAAAATATA
* **
4647750 ACTTAATTATATAAAAATATA
1 ATTTTTTTATATAAAAATATA
4647771 ATTTTTTTAT-TAAA
1 ATTTTTTTATATAAA
4647785 TTAAGATATT
Statistics
Matches: 28, Mismatches: 7, Indels: 2
0.76 0.19 0.05
Matches are distributed among these distances:
20 4 0.14
21 19 0.68
22 5 0.18
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (21 bp):
ATTTTTTTATATAAAAATATA
Found at i:4648736 original size:58 final size:56
Alignment explanation
Indices: 4648674--4648789 Score: 178
Period size: 56 Copynumber: 2.0 Consensus size: 56
4648664 TAAAATTTAA
4648674 TAAAAAATATTAAAAAATAAAGAATGGAGAAAAAAAATGGGATGTCTCGTGGACATCC
1 TAAAAAATATTAAAAAATAAAGAATGGAG--AAAAAATGGGATGTCTCGTGGACATCC
* * * *
4648732 TAAAAAATATTAAAAATTAGAGAATGGAGGAAAGATGGGATGTCTCGTGGACATCC
1 TAAAAAATATTAAAAAATAAAGAATGGAGAAAAAATGGGATGTCTCGTGGACATCC
4648788 TA
1 TA
4648790 TCCTTCATCC
Statistics
Matches: 54, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
56 27 0.50
58 27 0.50
ACGTcount: A:0.47, C:0.09, G:0.22, T:0.22
Consensus pattern (56 bp):
TAAAAAATATTAAAAAATAAAGAATGGAGAAAAAATGGGATGTCTCGTGGACATCC
Found at i:4653603 original size:20 final size:21
Alignment explanation
Indices: 4653556--4653607 Score: 70
Period size: 20 Copynumber: 2.5 Consensus size: 21
4653546 AAAAAAGAAA
*
4653556 AAAAAAAGAAATCTGATAAAC
1 AAAAAAAGAAATCAGATAAAC
* *
4653577 GAGAAAA-AAATCAGATAAAC
1 AAAAAAAGAAATCAGATAAAC
4653597 AAAAAAAGAAA
1 AAAAAAAGAAA
4653608 AAAAATAGAT
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
20 17 0.68
21 8 0.32
ACGTcount: A:0.71, C:0.08, G:0.12, T:0.10
Consensus pattern (21 bp):
AAAAAAAGAAATCAGATAAAC
Found at i:4653625 original size:25 final size:25
Alignment explanation
Indices: 4653545--4653626 Score: 76
Period size: 25 Copynumber: 3.2 Consensus size: 25
4653535 ATCAGCCCCA
*
4653545 AAAAAAAGAAAAAAAAAAGA-AATCT
1 AAAAAAAGAAAAAAAATAGATAAT-T
* * * **
4653570 GATAAACGAGAAAAAAATCAGATAAAC
1 AAAAAAAGA-AAAAAAAT-AGATAATT
4653597 AAAAAAAGAAAAAAAATAGATAATT
1 AAAAAAAGAAAAAAAATAGATAATT
4653622 AAAAA
1 AAAAA
4653627 TAATAATAAG
Statistics
Matches: 43, Mismatches: 11, Indels: 6
0.72 0.18 0.10
Matches are distributed among these distances:
25 17 0.40
26 15 0.35
27 9 0.21
28 2 0.05
ACGTcount: A:0.74, C:0.05, G:0.10, T:0.11
Consensus pattern (25 bp):
AAAAAAAGAAAAAAAATAGATAATT
Found at i:4653650 original size:22 final size:22
Alignment explanation
Indices: 4653614--4653685 Score: 87
Period size: 22 Copynumber: 3.4 Consensus size: 22
4653604 GAAAAAAAAT
*
4653614 AGAT-AATTAAAAATAATAATA
1 AGATAAATAAAAAATAATAATA
* *
4653635 AGATAAATAAAAAATACT-ACA
1 AGATAAATAAAAAATAATAATA
4653656 AGATAAATAAAAAAATAATAATA
1 AGATAAAT-AAAAAATAATAATA
4653679 A-ATAAAT
1 AGATAAAT
4653686 TATAATAATA
Statistics
Matches: 43, Mismatches: 5, Indels: 5
0.81 0.09 0.09
Matches are distributed among these distances:
21 14 0.33
22 26 0.60
23 3 0.07
ACGTcount: A:0.69, C:0.03, G:0.04, T:0.24
Consensus pattern (22 bp):
AGATAAATAAAAAATAATAATA
Found at i:4653682 original size:4 final size:4
Alignment explanation
Indices: 4653631--4653821 Score: 58
Period size: 4 Copynumber: 47.5 Consensus size: 4
4653621 TAAAAATAAT
* * *
4653631 AATA AGATA AATA AA-A AATA CTACA AGATA AATA AAAA AAT- AAT- AATA
1 AATA A-ATA AATA AATA AATA -AATA A-ATA AATA AATA AATA AATA AATA
* * * * *
4653679 AATA AATTA TAAT- AATA AATA TATA ACTA GATA AATA ACATA CATA TATA
1 AATA AA-TA -AATA AATA AATA AATA AATA AATA AATA A-ATA AATA AATA
* * * * * *
4653729 GAT- ATTA ACAGA AA-A AA-A AGAAA AATA AATA AATA AATA AAGA TATA
1 AATA AATA A-ATA AATA AATA A-ATA AATA AATA AATA AATA AATA AATA
* * * * *
4653776 CATA TATT AATA CATA GTAAT- AATA AATA AAT- AATA AATA CATA AA
1 AATA AATA AATA AATA --AATA AATA AATA AATA AATA AATA AATA AA
4653822 ATACAAAAGA
Statistics
Matches: 138, Mismatches: 32, Indels: 34
0.68 0.16 0.17
Matches are distributed among these distances:
3 24 0.17
4 91 0.66
5 19 0.14
6 4 0.03
ACGTcount: A:0.65, C:0.05, G:0.04, T:0.26
Consensus pattern (4 bp):
AATA
Found at i:4653812 original size:14 final size:14
Alignment explanation
Indices: 4653610--4653716 Score: 62
Period size: 14 Copynumber: 7.4 Consensus size: 14
4653600 AAAAGAAAAA
*
4653610 AAATAGATAATTAA-
1 AAATA-ATAATAAAT
4653624 AAATAATAATAAGAT
1 AAATAATAATAA-AT
4653639 AAATAA-AA-AATACT
1 AAATAATAATAA-A-T
* *
4653653 ACAA-GATAAATAAAA
1 A-AATAAT-AATAAAT
4653668 AAATAATAATAAAT
1 AAATAATAATAAAT
*
4653682 AAATTATAAT-AAT
1 AAATAATAATAAAT
*
4653695 AAATATATAACTAGAT
1 AAATA-ATAA-TAAAT
4653711 AAATAA
1 AAATAA
4653717 CATACATATA
Statistics
Matches: 73, Mismatches: 9, Indels: 21
0.71 0.09 0.20
Matches are distributed among these distances:
13 16 0.22
14 32 0.44
15 13 0.18
16 10 0.14
17 2 0.03
ACGTcount: A:0.67, C:0.03, G:0.04, T:0.26
Consensus pattern (14 bp):
AAATAATAATAAAT
Found at i:4653840 original size:20 final size:19
Alignment explanation
Indices: 4653817--4653854 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
4653807 TAATAAATAC
4653817 ATAAAATACAAAAGAAAAAA
1 ATAAAATA-AAAAGAAAAAA
*
4653837 ATAAAATAAAAATAAAAA
1 ATAAAATAAAAAGAAAAA
4653855 TACACAATAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.82, C:0.03, G:0.03, T:0.13
Consensus pattern (19 bp):
ATAAAATAAAAAGAAAAAA
Found at i:4653863 original size:19 final size:17
Alignment explanation
Indices: 4653800--4653867 Score: 55
Period size: 20 Copynumber: 3.5 Consensus size: 17
4653790 TAGTAATAAT
4653800 AAATAAATAATAAATACATA
1 AAATAAA-AATAAA-A-ATA
*
4653820 AAATACAAAAGAAAAAAATA
1 AAAT--AAAA-ATAAAAATA
4653840 AAATAAAAATAAAAATA
1 AAATAAAAATAAAAATA
4653857 CACAATAAAAA
1 -A-AATAAAAA
4653868 ACCAAATTGG
Statistics
Matches: 41, Mismatches: 2, Indels: 11
0.76 0.04 0.20
Matches are distributed among these distances:
17 8 0.20
18 5 0.12
19 8 0.20
20 11 0.27
21 2 0.05
22 7 0.17
ACGTcount: A:0.76, C:0.06, G:0.01, T:0.16
Consensus pattern (17 bp):
AAATAAAAATAAAAATA
Found at i:4654150 original size:42 final size:40
Alignment explanation
Indices: 4654061--4654228 Score: 185
Period size: 42 Copynumber: 4.0 Consensus size: 40
4654051 TTCATCTAGG
* * *
4654061 CAGAGGCTCAATGACTTTGAGAAACATAAATGGCTCCTCTAA
1 CAGAGGCACAACGACTTTGA-AAA-ATAAATTGCTCCTCTAA
* *
4654103 TCAGAGGCTCAACAACTTTGAAAAAATAAATTGCTCCTCTCAA
1 -CAGAGGCACAACGACTTTG-AAAAATAAATTGCTCCTCT-AA
* *
4654146 CAGAGGCACCACGACTTTGAAAAGTAAATTGCTCCTCTAAA
1 CAGAGGCACAACGACTTTGAAAAATAAATTGCTCCTCT-AA
* *
4654187 CAGAGGCACCACGACTTTTGAAAAGTAAATTGCTCCT-TAA
1 CAGAGGCACAACGAC-TTTGAAAAATAAATTGCTCCTCTAA
4654227 CA
1 CA
4654229 TTCATGTCCA
Statistics
Matches: 114, Mismatches: 8, Indels: 9
0.87 0.06 0.07
Matches are distributed among these distances:
40 4 0.04
41 36 0.32
42 51 0.45
43 22 0.19
44 1 0.01
ACGTcount: A:0.37, C:0.23, G:0.16, T:0.24
Consensus pattern (40 bp):
CAGAGGCACAACGACTTTGAAAAATAAATTGCTCCTCTAA
Found at i:4654189 original size:41 final size:41
Alignment explanation
Indices: 4654073--4654223 Score: 194
Period size: 42 Copynumber: 3.6 Consensus size: 41
4654063 GAGGCTCAAT
* * * *
4654073 GACTTTGAGAAACATAAATGGCTCCTCTAATCAGAGGCTCAAC
1 GACTTTGA-AAA-ATAAATTGCTCCTCTAAACAGAGGCACCAC
* *
4654116 AACTTTGAAAAAATAAATTGCTCCTCTCAACAGAGGCACCAC
1 GACTTTG-AAAAATAAATTGCTCCTCTAAACAGAGGCACCAC
*
4654158 GACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCAC
1 GACTTTGAAAAATAAATTGCTCCTCTAAACAGAGGCACCAC
*
4654199 GACTTTTGAAAAGTAAATTGCTCCT
1 GAC-TTTGAAAAATAAATTGCTCCT
4654224 TAACATTCAT
Statistics
Matches: 97, Mismatches: 9, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
41 35 0.36
42 52 0.54
43 9 0.09
44 1 0.01
ACGTcount: A:0.36, C:0.23, G:0.16, T:0.25
Consensus pattern (41 bp):
GACTTTGAAAAATAAATTGCTCCTCTAAACAGAGGCACCAC
Found at i:4655220 original size:8 final size:8
Alignment explanation
Indices: 4655206--4655286 Score: 103
Period size: 8 Copynumber: 10.0 Consensus size: 8
4655196 TTGAGTCTTC
4655206 TTTTTTCA
1 TTTTTTCA
* *
4655214 CTTTTTCT
1 TTTTTTCA
4655222 TTTTTTCA
1 TTTTTTCA
4655230 TTTTTTTTCA
1 --TTTTTTCA
4655240 TTTTTTCA
1 TTTTTTCA
4655248 TTTTTTCA
1 TTTTTTCA
4655256 -TTTTTCA
1 TTTTTTCA
4655263 TTTTTTC-
1 TTTTTTCA
4655270 TATTTTTCA
1 T-TTTTTCA
4655279 TTTTTTCA
1 TTTTTTCA
4655287 AGCATAGTAT
Statistics
Matches: 64, Mismatches: 4, Indels: 10
0.82 0.05 0.13
Matches are distributed among these distances:
7 8 0.12
8 47 0.73
9 1 0.02
10 8 0.12
ACGTcount: A:0.11, C:0.14, G:0.00, T:0.75
Consensus pattern (8 bp):
TTTTTTCA
Found at i:4655234 original size:10 final size:10
Alignment explanation
Indices: 4655221--4655253 Score: 52
Period size: 10 Copynumber: 3.5 Consensus size: 10
4655211 TCACTTTTTC
4655221 TTTTTTTCAT
1 TTTTTTTCAT
4655231 TTTTTTTCA-
1 TTTTTTTCAT
4655240 -TTTTTTCAT
1 TTTTTTTCAT
4655249 TTTTT
1 TTTTT
4655254 CATTTTTCAT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
8 8 0.38
10 13 0.62
ACGTcount: A:0.09, C:0.09, G:0.00, T:0.82
Consensus pattern (10 bp):
TTTTTTTCAT
Found at i:4665884 original size:118 final size:115
Alignment explanation
Indices: 4665694--4666026 Score: 490
Period size: 118 Copynumber: 2.8 Consensus size: 115
4665684 TTTTGTGTAG
* * ** *
4665694 GGAAAATTGATACTTTCAACTTTTTCC-C-AAAATATTCTTTTGAAACTTTAATTTCGAGGAAAA
1 GGAAAATTGATACTTTCAAC-TTTTCCTCAAAAATATTTTTTTGAAAATTT-ATTTTTAAGAAAA
4665757 TTGATACTTTCAACTTTTCTCCAAAAATATTTTTTGGAAACTTTGATTTTCAA
64 TTGATACTTTCAACTTTTC-CCAAAAATATTTTTTGGAAACTTTGATTTTCAA
4665810 GGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTTGAAAATTTATTTTTAAAGAAAA
1 GGAAAATTGATACTTTCAACTTTTCCTCAAAAATA-TTTTTTTGAAAATTTATTTTT-AAGAAAA
*
4665875 TTGATACTTTCAACTTTTCCCTAAAAATATTCTTTGGAAACTTTGATTTTCAA
64 TTGATACTTTCAACTTTTCCC-AAAAATATTTTTTGGAAACTTTGATTTTCAA
* **
4665928 GGAAAATTGATACTTTCAACATTTCCTCAAAAATCCTTTTTTGAAAATTTATTTTTAAGAAAAAT
1 GGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTGAAAATTTATTTTTAAG-AAAAT
*
4665993 TGATACTTTTAACTTTTCCTCAAAAATATTTTTT
65 TGATACTTTCAACTTTTCC-CAAAAATATTTTTT
4666027 TTTATTTTTA
Statistics
Matches: 199, Mismatches: 11, Indels: 13
0.89 0.05 0.06
Matches are distributed among these distances:
115 6 0.03
116 24 0.12
117 67 0.34
118 102 0.51
ACGTcount: A:0.35, C:0.14, G:0.08, T:0.44
Consensus pattern (115 bp):
GGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTGAAAATTTATTTTTAAGAAAATT
GATACTTTCAACTTTTCCCAAAAATATTTTTTGGAAACTTTGATTTTCAA
Found at i:4666027 original size:58 final size:58
Alignment explanation
Indices: 4665694--4666027 Score: 442
Period size: 59 Copynumber: 5.7 Consensus size: 58
4665684 TTTTGTGTAG
* * *
4665694 GGAAAATTGATACTTTCAACTTTTTCC-C-AAAATATTCTTTTGAAACTTTAATTTCGA
1 GGAAAATTGATACTTTCAAC-TTTTCCTCAAAAATATTTTTTTGAAACTTTATTTTCAA
*
4665751 GGAAAATTGATACTTTCAACTTTT-CTCCAAAAATATTTTTTGGAAACTTTGATTTTCAA
1 GGAAAATTGATACTTTCAACTTTTCCT-CAAAAATATTTTTTTGAAACTTT-ATTTTCAA
* *
4665810 GGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTTGAAAATTTATTTTTAA
1 GGAAAATTGATACTTTCAACTTTTCCTCAAAAATA-TTTTTTTGAAACTTTATTTTCAA
* * *
4665869 AGAAAATTGATACTTTCAACTTTTCC-CTAAAAATATTCTTTGGAAACTTTGATTTTCAA
1 GGAAAATTGATACTTTCAACTTTTCCTC-AAAAATATTTTTTTGAAACTTT-ATTTTCAA
* ** * *
4665928 GGAAAATTGATACTTTCAACATTTCCTCAAAAATCCTTTTTTGAAAATTTATTTTTAA
1 GGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTGAAACTTTATTTTCAA
* *
4665986 GAAAAATTGATACTTTTAACTTTTCCTCAAAAATATTTTTTT
1 GGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTT
4666028 TTATTTTTAT
Statistics
Matches: 243, Mismatches: 25, Indels: 17
0.85 0.09 0.06
Matches are distributed among these distances:
55 1 0.00
56 4 0.02
57 21 0.09
58 76 0.31
59 125 0.51
60 16 0.07
ACGTcount: A:0.35, C:0.13, G:0.08, T:0.44
Consensus pattern (58 bp):
GGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTGAAACTTTATTTTCAA
Found at i:4666090 original size:6 final size:6
Alignment explanation
Indices: 4666062--4666139 Score: 58
Period size: 6 Copynumber: 13.7 Consensus size: 6
4666052 ATAATGAAAC
* * * *
4666062 AAAATA AAAGTG AAAAT- -AAATA AAAATA AAAA-A ATAAAGA AAAGT-
1 AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA A-AAATA AAAATA
* *
4666107 AAAACA AAAATA AAAAT- AAAATA AAGATA AAAA
1 AAAATA AAAATA AAAATA AAAATA AAAATA AAAA
4666140 GAATATTAAA
Statistics
Matches: 56, Mismatches: 10, Indels: 12
0.72 0.13 0.15
Matches are distributed among these distances:
4 4 0.07
5 10 0.18
6 40 0.71
7 2 0.04
ACGTcount: A:0.78, C:0.01, G:0.06, T:0.14
Consensus pattern (6 bp):
AAAATA
Found at i:4666094 original size:17 final size:17
Alignment explanation
Indices: 4666074--4666204 Score: 67
Period size: 17 Copynumber: 7.7 Consensus size: 17
4666064 AATAAAAGTG
4666074 AAAATAAATAAAAATAAA
1 AAAATAAATAAAAAT-AA
* *
4666092 AAAATAAAGAAAAGTAA
1 AAAATAAATAAAAATAA
4666109 AACAA-AAATAAAAATAA
1 AA-AATAAATAAAAATAA
* *
4666126 AATAA-AGATAAAAA-GA
1 AA-AATAAATAAAAATAA
* * **
4666142 ATATTAAATAAACCTAA
1 AAAATAAATAAAAATAA
**
4666159 TCTAATAAATAAAAA-AA
1 -AAAATAAATAAAAATAA
*
4666176 TAAAA-AAA-ACAAATAA
1 -AAAATAAATAAAAATAA
4666192 ACAAATAAATAAA
1 A-AAATAAATAAA
4666205 TAAATTGAAA
Statistics
Matches: 84, Mismatches: 21, Indels: 16
0.69 0.17 0.13
Matches are distributed among these distances:
15 6 0.07
16 16 0.19
17 35 0.42
18 27 0.32
ACGTcount: A:0.76, C:0.05, G:0.03, T:0.17
Consensus pattern (17 bp):
AAAATAAATAAAAATAA
Found at i:4666094 original size:29 final size:28
Alignment explanation
Indices: 4666062--4666127 Score: 73
Period size: 29 Copynumber: 2.3 Consensus size: 28
4666052 ATAATGAAAC
*
4666062 AAAATAAAAGTGAAAA-T-AAATAAAAATA
1 AAAATAAAA--GAAAAGTAAAACAAAAATA
*
4666090 AAAAAATAAAGAAAAGTAAAACAAAAATA
1 AAAATA-AAAGAAAAGTAAAACAAAAATA
4666119 AAAATAAAA
1 AAAATAAAA
4666128 TAAAGATAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
27 5 0.16
28 9 0.28
29 18 0.56
ACGTcount: A:0.79, C:0.02, G:0.06, T:0.14
Consensus pattern (28 bp):
AAAATAAAAGAAAAGTAAAACAAAAATA
Found at i:4666097 original size:18 final size:18
Alignment explanation
Indices: 4666074--4666127 Score: 74
Period size: 18 Copynumber: 3.1 Consensus size: 18
4666064 AATAAAAGTG
4666074 AAAATAAATAAAAATAAA
1 AAAATAAATAAAAATAAA
* *
4666092 AAAATAAAGAAAAGTAAA
1 AAAATAAATAAAAATAAA
*
4666110 ACAA-AAATAAAAATAAA
1 AAAATAAATAAAAATAAA
4666127 A
1 A
4666128 TAAAGATAAA
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
17 12 0.39
18 19 0.61
ACGTcount: A:0.81, C:0.02, G:0.04, T:0.13
Consensus pattern (18 bp):
AAAATAAATAAAAATAAA
Found at i:4666169 original size:4 final size:4
Alignment explanation
Indices: 4666162--4666209 Score: 51
Period size: 4 Copynumber: 11.8 Consensus size: 4
4666152 AACCTAATCT
* * * *
4666162 AATA AATA AAAA AATAA AAAA AACA AATA AACA AATA AATA AATA AAT
1 AATA AATA AATA AAT-A AATA AATA AATA AATA AATA AATA AATA AAT
4666210 TGAAAAAAAA
Statistics
Matches: 36, Mismatches: 7, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
4 33 0.92
5 3 0.08
ACGTcount: A:0.79, C:0.04, G:0.00, T:0.17
Consensus pattern (4 bp):
AATA
Done.