Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009592.1 Hibiscus syriacus cultivar Beakdansim tig00116971_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: 7920512
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 26 of 39
Found at i:5073534 original size:2 final size:2
Alignment explanation
Indices: 5073527--5073561 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
5073517 GCGAAAGGAA
5073527 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
5073562 CACACACATA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:5079352 original size:59 final size:59
Alignment explanation
Indices: 5079275--5079443 Score: 182
Period size: 59 Copynumber: 2.8 Consensus size: 59
5079265 TATAAACTCA
* * *
5079275 TTTTAAATTAGTCTTTAAACTTTTAAATATTTTAATTTCATCCTCAAATTATGA-CTT-
1 TTTTAAATTAGTCCTTAAACTTTTGAATATTCTAATTTCATCCTCAAATTATGATCTTC
* * *
5079332 TATTCTAAATTAGTCCTTAAACTTTTGAACATTCTAATTTAAT-CTCTAAACTATGATCTTC
1 T-TT-TAAATTAGTCCTTAAACTTTTGAATATTCTAATTTCATCCTC-AAATTATGATCTTC
* ** * *
5079393 TTTTAAATTGGTCCCCCAAACTTTTGAATATTCTAACTTCATCCCCAAATT
1 TTTTAAATTAGT-CCTTAAACTTTTGAATATTCTAATTTCATCCTCAAATT
5079444 CATCCAAATA
Statistics
Matches: 91, Mismatches: 14, Indels: 11
0.78 0.12 0.09
Matches are distributed among these distances:
57 1 0.01
58 5 0.05
59 49 0.54
60 33 0.36
61 3 0.03
ACGTcount: A:0.32, C:0.18, G:0.05, T:0.45
Consensus pattern (59 bp):
TTTTAAATTAGTCCTTAAACTTTTGAATATTCTAATTTCATCCTCAAATTATGATCTTC
Found at i:5079723 original size:60 final size:58
Alignment explanation
Indices: 5079556--5079723 Score: 135
Period size: 60 Copynumber: 2.8 Consensus size: 58
5079546 GTATATACGT
* *
5079556 ATAGTTT-GGGATGAAATTGGAATTTTCAAAAAGTTTAGGAACCAATTCAGAATAAAAGTC
1 ATAGTTTAAGGATGAAATT-GAATTTTC--AAAGTTTAGGAACCAATTTAGAATAAAAGTC
** * * * * * * *
5079616 ATAGTTTTGGGATGAAACTGAAATGTTTTAAAGTTTA-AATACTAATTTATAATGATAGTC
1 ATAGTTTAAGGATGAAATTG-AAT-TTTCAAAGTTTAGGA-ACCAATTTAGAATAAAAGTC
5079676 ATA-TTTAAGGAGTGAAATTAGAATATTTCAAAGTTTAGGAACCAATTT
1 ATAGTTTAAGGA-TGAAATT-GAAT-TTTCAAAGTTTAGGAACCAATTT
5079724 TAAATGAAGA
Statistics
Matches: 86, Mismatches: 15, Indels: 14
0.75 0.13 0.12
Matches are distributed among these distances:
59 7 0.08
60 61 0.71
61 15 0.17
62 3 0.03
ACGTcount: A:0.40, C:0.07, G:0.18, T:0.35
Consensus pattern (58 bp):
ATAGTTTAAGGATGAAATTGAATTTTCAAAGTTTAGGAACCAATTTAGAATAAAAGTC
Found at i:5079915 original size:21 final size:22
Alignment explanation
Indices: 5079891--5079943 Score: 67
Period size: 21 Copynumber: 2.5 Consensus size: 22
5079881 TATCATTTTT
5079891 AAATTATATTAA-TAACATATA
1 AAATTATATTAATTAACATATA
*
5079912 AAATTATA-TAATTAATATATA
1 AAATTATATTAATTAACATATA
5079933 AATATTA-ATTA
1 AA-ATTATATTA
5079944 CTTTAATTAT
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
20 3 0.11
21 19 0.68
22 6 0.21
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.42
Consensus pattern (22 bp):
AAATTATATTAATTAACATATA
Found at i:5079967 original size:2 final size:2
Alignment explanation
Indices: 5079960--5079989 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
5079950 TTATAACTTC
5079960 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
5079990 TATTAAACTA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:5082574 original size:20 final size:20
Alignment explanation
Indices: 5082549--5082598 Score: 100
Period size: 20 Copynumber: 2.5 Consensus size: 20
5082539 GTTCATAAGG
5082549 TATCGATACTGTAAGAATAA
1 TATCGATACTGTAAGAATAA
5082569 TATCGATACTGTAAGAATAA
1 TATCGATACTGTAAGAATAA
5082589 TATCGATACT
1 TATCGATACT
5082599 TCTTGTACAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.42, C:0.12, G:0.14, T:0.32
Consensus pattern (20 bp):
TATCGATACTGTAAGAATAA
Found at i:5085859 original size:27 final size:28
Alignment explanation
Indices: 5085829--5085892 Score: 85
Period size: 27 Copynumber: 2.3 Consensus size: 28
5085819 GAAAGGACTG
* *
5085829 AAATACCCTTGAATTATAAAATAACC-A
1 AAATACCCCTGAAGTATAAAATAACCTA
* *
5085856 AAATACCCCTGAAGTGTGAAATAACCTA
1 AAATACCCCTGAAGTATAAAATAACCTA
5085884 AAATACCCC
1 AAATACCCC
5085893 CAAGCCTGGG
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
27 22 0.69
28 10 0.31
ACGTcount: A:0.47, C:0.23, G:0.08, T:0.22
Consensus pattern (28 bp):
AAATACCCCTGAAGTATAAAATAACCTA
Found at i:5087010 original size:32 final size:32
Alignment explanation
Indices: 5086933--5087056 Score: 106
Period size: 32 Copynumber: 3.9 Consensus size: 32
5086923 TAAGGTGACA
* * * *
5086933 CTTGGGTAGGCTCTGAGGCCCCAAGGTATTTC
1 CTTGGGTAGACTCTAAGGCCCCAAGATATTAC
* * * *
5086965 TTTGTGCACACTCTAAGGCCCCAAGATATTAC
1 CTTGGGTAGACTCTAAGGCCCCAAGATATTAC
* * * *
5086997 CTTGGGTAGACTCTTAGGCACCGAGATA-AAC
1 CTTGGGTAGACTCTAAGGCCCCAAGATATTAC
* *
5087028 TCTTGGGTAGGCTCTCAGGCCCCAAGATA
1 -CTTGGGTAGACTCTAAGGCCCCAAGATA
5087057 ATCCCTCAGG
Statistics
Matches: 71, Mismatches: 20, Indels: 2
0.76 0.22 0.02
Matches are distributed among these distances:
31 2 0.03
32 69 0.97
ACGTcount: A:0.23, C:0.26, G:0.25, T:0.26
Consensus pattern (32 bp):
CTTGGGTAGACTCTAAGGCCCCAAGATATTAC
Found at i:5087677 original size:17 final size:18
Alignment explanation
Indices: 5087647--5087683 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
5087637 TCAAGAATAT
5087647 ATATATATATAATTTAAA
1 ATATATATATAATTTAAA
*
5087665 ATATATA-ATAATTTGAA
1 ATATATATATAATTTAAA
5087682 AT
1 AT
5087684 TAAAAAAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 11 0.61
18 7 0.39
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.43
Consensus pattern (18 bp):
ATATATATATAATTTAAA
Found at i:5088593 original size:14 final size:14
Alignment explanation
Indices: 5088552--5088594 Score: 54
Period size: 14 Copynumber: 3.2 Consensus size: 14
5088542 TAGTCAAAAT
*
5088552 ATTAATATAATAAA
1 ATTAATATTATAAA
*
5088566 AATAATA-T-TAAA
1 ATTAATATTATAAA
5088578 ATTAATATTATAAA
1 ATTAATATTATAAA
5088592 ATT
1 ATT
5088595 CATTTTTTCT
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
12 10 0.42
13 1 0.04
14 13 0.54
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (14 bp):
ATTAATATTATAAA
Found at i:5089533 original size:29 final size:29
Alignment explanation
Indices: 5089498--5089574 Score: 129
Period size: 29 Copynumber: 2.7 Consensus size: 29
5089488 ACCTAATATG
5089498 CCCTAAATAACACCCTTTGAC-CAATATTT
1 CCCTAAATAACACCCTTT-ACTCAATATTT
5089527 CCCTAAATAACACCCTTTACTCAATATTT
1 CCCTAAATAACACCCTTTACTCAATATTT
*
5089556 CCCTAACTAACACCCTTTA
1 CCCTAAATAACACCCTTTA
5089575 GTCTCAGGTG
Statistics
Matches: 46, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
28 2 0.04
29 44 0.96
ACGTcount: A:0.34, C:0.34, G:0.01, T:0.31
Consensus pattern (29 bp):
CCCTAAATAACACCCTTTACTCAATATTT
Found at i:5093765 original size:19 final size:19
Alignment explanation
Indices: 5093741--5093890 Score: 76
Period size: 19 Copynumber: 7.5 Consensus size: 19
5093731 AAAATATTAA
5093741 AAAATATTAATTATTTATT
1 AAAATATTAATTATTTATT
5093760 AAAATAAGTGTATTATATATTT-TT
1 AAAAT-A-T-TA--AT-TATTTATT
* *
5093784 AAAATAATAAATA-TTATT
1 AAAATATTAATTATTTATT
*
5093802 AATTATATTAATTATTT-TT
1 AA-AATATTAATTATTTATT
*
5093821 AAAA-AATAATTATATTATT
1 AAAATATTAATTAT-TTATT
** *
5093840 ATTATAGTAAAATTATTATATT
1 AAAATA-T-TAATTATT-TATT
*
5093862 AAAATA-TAAATATTATATT
1 AAAATATTAATTATT-TATT
*
5093881 ATAATATTAA
1 AAAATATTAA
5093891 ATATATAAAT
Statistics
Matches: 99, Mismatches: 16, Indels: 31
0.68 0.11 0.21
Matches are distributed among these distances:
17 10 0.10
18 9 0.09
19 38 0.38
20 7 0.07
21 4 0.04
22 16 0.16
23 1 0.01
24 9 0.09
25 5 0.05
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (19 bp):
AAAATATTAATTATTTATT
Found at i:5093851 original size:25 final size:25
Alignment explanation
Indices: 5093801--5093862 Score: 72
Period size: 25 Copynumber: 2.4 Consensus size: 25
5093791 TAAATATTAT
*
5093801 TAATTATATTAATTATTTTTAAAAAA
1 TAATTATATT-ATTATTTATAAAAAA
*
5093827 TAATTATATTATTA-TTATAGTAAAA
1 TAATTATATTATTATTTATA-AAAAA
*
5093852 TTATTATATTA
1 TAATTATATTA
5093863 AAATATAAAT
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
24 4 0.12
25 18 0.56
26 10 0.31
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.52
Consensus pattern (25 bp):
TAATTATATTATTATTTATAAAAAA
Found at i:5093856 original size:14 final size:14
Alignment explanation
Indices: 5093837--5093866 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
5093827 TAATTATATT
5093837 ATTATTATAGTAAA
1 ATTATTATAGTAAA
*
5093851 ATTATTATATTAAA
1 ATTATTATAGTAAA
5093865 AT
1 AT
5093867 ATAAATATTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (14 bp):
ATTATTATAGTAAA
Found at i:5093874 original size:14 final size:14
Alignment explanation
Indices: 5093857--5093901 Score: 56
Period size: 14 Copynumber: 3.2 Consensus size: 14
5093847 TAAAATTATT
5093857 ATATTAAAATATAA
1 ATATTAAAATATAA
* *
5093871 ATATTATATTAT-A
1 ATATTAAAATATAA
5093884 ATATTAAATATATAA
1 ATATTAAA-ATATAA
5093899 ATA
1 ATA
5093902 ATATTATTCA
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
13 8 0.32
14 13 0.52
15 4 0.16
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (14 bp):
ATATTAAAATATAA
Found at i:5093897 original size:19 final size:20
Alignment explanation
Indices: 5093832--5093907 Score: 72
Period size: 19 Copynumber: 4.0 Consensus size: 20
5093822 AAAAATAATT
*
5093832 ATATTATTATTATAGTA--AA
1 ATATTA-TATTATAATATTAA
*
5093851 ATTATTATATTAAAATA-TAA
1 A-TATTATATTATAATATTAA
5093871 ATATTATATTATAATATTAA
1 ATATTATATTATAATATTAA
*
5093891 ATA-TATA-AATAATATTA
1 ATATTATATTATAATATTA
5093908 TTCATTATAA
Statistics
Matches: 50, Mismatches: 4, Indels: 7
0.82 0.07 0.11
Matches are distributed among these distances:
18 9 0.18
19 27 0.54
20 14 0.28
ACGTcount: A:0.53, C:0.00, G:0.01, T:0.46
Consensus pattern (20 bp):
ATATTATATTATAATATTAA
Found at i:5093905 original size:26 final size:26
Alignment explanation
Indices: 5093851--5093908 Score: 82
Period size: 27 Copynumber: 2.2 Consensus size: 26
5093841 TTATAGTAAA
*
5093851 ATTATTATATTAAAATATAAATATTAT
1 ATTATAATATTAAAATATAAATA-TAT
5093878 ATTATAATATTAAATATATAAATA-AT
1 ATTATAATATTAAA-ATATAAATATAT
5093904 ATTAT
1 ATTAT
5093909 TCATTATAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
26 7 0.24
27 13 0.45
28 9 0.31
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (26 bp):
ATTATAATATTAAAATATAAATATAT
Found at i:5094058 original size:17 final size:17
Alignment explanation
Indices: 5094036--5094076 Score: 64
Period size: 17 Copynumber: 2.4 Consensus size: 17
5094026 CCGAGTATAT
5094036 TATTATAGTATTAAAAG
1 TATTATAGTATTAAAAG
* *
5094053 TATTATATTATTAAAAT
1 TATTATAGTATTAAAAG
5094070 TATTATA
1 TATTATA
5094077 AATATATTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.46, C:0.00, G:0.05, T:0.49
Consensus pattern (17 bp):
TATTATAGTATTAAAAG
Found at i:5094822 original size:3 final size:3
Alignment explanation
Indices: 5094814--5094870 Score: 107
Period size: 3 Copynumber: 19.3 Consensus size: 3
5094804 GAAGTTAAAG
5094814 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
5094861 TTA TTA TTA T
1 TTA TTA TTA T
5094871 GTCGCTCCCC
Statistics
Matches: 53, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
2 2 0.04
3 51 0.96
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:5095203 original size:22 final size:21
Alignment explanation
Indices: 5095174--5095216 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 21
5095164 TTAATATAAT
*
5095174 TTTATTTTATGACATGTTTTC
1 TTTATTTTATGACACGTTTTC
*
5095195 TTTACTTTTATGAGACGTTTTC
1 TTTA-TTTTATGACACGTTTTC
5095217 ATTTGTTTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 4 0.21
22 15 0.79
ACGTcount: A:0.19, C:0.12, G:0.12, T:0.58
Consensus pattern (21 bp):
TTTATTTTATGACACGTTTTC
Found at i:5095728 original size:31 final size:31
Alignment explanation
Indices: 5095681--5095754 Score: 96
Period size: 31 Copynumber: 2.4 Consensus size: 31
5095671 TTAAAACTTG
*
5095681 CAATACAGT-CCCCAACATTTAGTCCGTTTA
1 CAATATAGTCCCCCAACATTTAGTCCGTTTA
* *
5095711 CAATATAGTCCCCCAACATTTAGTCTGTTTG
1 CAATATAGTCCCCCAACATTTAGTCCGTTTA
* *
5095742 CAGTATGGTCCCC
1 CAATATAGTCCCC
5095755 GACCATTTGA
Statistics
Matches: 38, Mismatches: 5, Indels: 1
0.86 0.11 0.02
Matches are distributed among these distances:
30 8 0.21
31 30 0.79
ACGTcount: A:0.26, C:0.30, G:0.14, T:0.31
Consensus pattern (31 bp):
CAATATAGTCCCCCAACATTTAGTCCGTTTA
Found at i:5103354 original size:25 final size:25
Alignment explanation
Indices: 5103323--5103370 Score: 96
Period size: 25 Copynumber: 1.9 Consensus size: 25
5103313 AACTACCTAA
5103323 TAGTTATCCTTATCTATTTAACTAG
1 TAGTTATCCTTATCTATTTAACTAG
5103348 TAGTTATCCTTATCTATTTAACT
1 TAGTTATCCTTATCTATTTAACT
5103371 CTCTAAGAGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.27, C:0.17, G:0.06, T:0.50
Consensus pattern (25 bp):
TAGTTATCCTTATCTATTTAACTAG
Found at i:5104131 original size:13 final size:13
Alignment explanation
Indices: 5104094--5104123 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
5104084 TTAGTTTACC
5104094 TACTAGCCTTTGA
1 TACTAGCCTTTGA
5104107 TACTAGCCTTTGA
1 TACTAGCCTTTGA
5104120 TACT
1 TACT
5104124 GTTCTTTGTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.23, C:0.23, G:0.13, T:0.40
Consensus pattern (13 bp):
TACTAGCCTTTGA
Found at i:5120544 original size:18 final size:18
Alignment explanation
Indices: 5120521--5120564 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
5120511 AAAGACGGCT
* *
5120521 GAACAGTAGTAGATGGCG
1 GAACAGTAGTAGACGACG
*
5120539 GAACAGAAGTAGACGACG
1 GAACAGTAGTAGACGACG
5120557 GAACAGTA
1 GAACAGTA
5120565 ACAGTTTCTG
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.41, C:0.14, G:0.34, T:0.11
Consensus pattern (18 bp):
GAACAGTAGTAGACGACG
Found at i:5125268 original size:25 final size:24
Alignment explanation
Indices: 5125213--5125268 Score: 62
Period size: 24 Copynumber: 2.3 Consensus size: 24
5125203 ATCGGAAAGC
5125213 TTATA-ATTTTTAAGTAATAACTA
1 TTATATATTTTTAAGTAATAACTA
* *
5125236 TTACATATTTTTAATTATATAA-TA
1 TTATATATTTTTAAGTA-ATAACTA
5125260 TATATATAT
1 T-TATATAT
5125269 ATATATGTTT
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
23 4 0.15
24 13 0.48
25 10 0.37
ACGTcount: A:0.43, C:0.04, G:0.02, T:0.52
Consensus pattern (24 bp):
TTATATATTTTTAAGTAATAACTA
Found at i:5125292 original size:22 final size:22
Alignment explanation
Indices: 5125267--5125311 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
5125257 ATATATATAT
5125267 ATATATATGTTTATATTAGATA
1 ATATATATGTTTATATTAGATA
*
5125289 ATATATATGTTTATATTATATA
1 ATATATATGTTTATATTAGATA
5125311 A
1 A
5125312 ATAATTCTAC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.42, C:0.00, G:0.07, T:0.51
Consensus pattern (22 bp):
ATATATATGTTTATATTAGATA
Found at i:5132218 original size:32 final size:32
Alignment explanation
Indices: 5132182--5132245 Score: 110
Period size: 32 Copynumber: 2.0 Consensus size: 32
5132172 TCAACTCAAT
5132182 GAGTTGAAATCGTGTTCCAACATCTTAAAGCC
1 GAGTTGAAATCGTGTTCCAACATCTTAAAGCC
* *
5132214 GAGTTGAAATCGTGTTCTAGCATCTTAAAGCC
1 GAGTTGAAATCGTGTTCCAACATCTTAAAGCC
5132246 CCTACATGGG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.30, C:0.20, G:0.20, T:0.30
Consensus pattern (32 bp):
GAGTTGAAATCGTGTTCCAACATCTTAAAGCC
Found at i:5141663 original size:2 final size:2
Alignment explanation
Indices: 5141656--5141701 Score: 69
Period size: 2 Copynumber: 24.0 Consensus size: 2
5141646 CCGCAAAAGC
*
5141656 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T AC AT AT A-
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
5141696 AT AT AT
1 AT AT AT
5141702 TTTGTTATTA
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
1 2 0.05
2 38 0.95
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:5141871 original size:18 final size:18
Alignment explanation
Indices: 5141848--5141893 Score: 65
Period size: 18 Copynumber: 2.6 Consensus size: 18
5141838 TCGCGTAGAA
*
5141848 ATGTCCCGAATGACCATT
1 ATGTCCCGAATGACCACT
*
5141866 ATGTCCAGAATGACCACT
1 ATGTCCCGAATGACCACT
*
5141884 GTGTCCCGAA
1 ATGTCCCGAA
5141894 GAACCACGTA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.28, C:0.28, G:0.20, T:0.24
Consensus pattern (18 bp):
ATGTCCCGAATGACCACT
Found at i:5148641 original size:17 final size:17
Alignment explanation
Indices: 5148619--5148654 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
5148609 TACCCTTAAA
*
5148619 AACAAAACAGAAAAGAG
1 AACAAAACAAAAAAGAG
*
5148636 AACAAAATAAAAAAGAG
1 AACAAAACAAAAAAGAG
5148653 AA
1 AA
5148655 AATAACCTTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.75, C:0.08, G:0.14, T:0.03
Consensus pattern (17 bp):
AACAAAACAAAAAAGAG
Found at i:5148846 original size:21 final size:21
Alignment explanation
Indices: 5148822--5148874 Score: 79
Period size: 21 Copynumber: 2.5 Consensus size: 21
5148812 ATTCTGACTA
*
5148822 TCGCATTGTGATTTTCCAAAT
1 TCGCATTGCGATTTTCCAAAT
*
5148843 TCGCATTGCGATTTTCCGAAT
1 TCGCATTGCGATTTTCCAAAT
*
5148864 TCGCAATGCGA
1 TCGCATTGCGA
5148875 ATATGTAAAT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.23, C:0.23, G:0.19, T:0.36
Consensus pattern (21 bp):
TCGCATTGCGATTTTCCAAAT
Found at i:5148889 original size:20 final size:20
Alignment explanation
Indices: 5148864--5148911 Score: 96
Period size: 20 Copynumber: 2.4 Consensus size: 20
5148854 TTTTCCGAAT
5148864 TCGCAATGCGAATATGTAAA
1 TCGCAATGCGAATATGTAAA
5148884 TCGCAATGCGAATATGTAAA
1 TCGCAATGCGAATATGTAAA
5148904 TCGCAATG
1 TCGCAATG
5148912 AGATTCTGAC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.38, C:0.17, G:0.21, T:0.25
Consensus pattern (20 bp):
TCGCAATGCGAATATGTAAA
Found at i:5148926 original size:20 final size:20
Alignment explanation
Indices: 5148903--5148990 Score: 131
Period size: 20 Copynumber: 4.4 Consensus size: 20
5148893 GAATATGTAA
*
5148903 ATCGCAATGAGATTCTGACT
1 ATCGCAACGAGATTCTGACT
* *
5148923 ATCGCAACGCGATTCTGATT
1 ATCGCAACGAGATTCTGACT
5148943 ATCGCAACGAGATTCTGACT
1 ATCGCAACGAGATTCTGACT
*
5148963 ATCGCAACGCGATTCTGACT
1 ATCGCAACGAGATTCTGACT
*
5148983 GTCGCAAC
1 ATCGCAAC
5148991 ACTGAATTTC
Statistics
Matches: 61, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 61 1.00
ACGTcount: A:0.27, C:0.26, G:0.20, T:0.26
Consensus pattern (20 bp):
ATCGCAACGAGATTCTGACT
Found at i:5148927 original size:40 final size:40
Alignment explanation
Indices: 5148883--5148974 Score: 123
Period size: 40 Copynumber: 2.3 Consensus size: 40
5148873 GAATATGTAA
* *
5148883 ATCGCAATGCGAATATG-TAAATCGCAATGAGATTCTGACT
1 ATCGCAACGCGAATATGAT-AATCGCAACGAGATTCTGACT
* * *
5148923 ATCGCAACGCGATTCTGATTATCGCAACGAGATTCTGACT
1 ATCGCAACGCGAATATGATAATCGCAACGAGATTCTGACT
5148963 ATCGCAACGCGA
1 ATCGCAACGCGA
5148975 TTCTGACTGT
Statistics
Matches: 46, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
40 45 0.98
41 1 0.02
ACGTcount: A:0.32, C:0.23, G:0.21, T:0.25
Consensus pattern (40 bp):
ATCGCAACGCGAATATGATAATCGCAACGAGATTCTGACT
Found at i:5148975 original size:40 final size:40
Alignment explanation
Indices: 5148903--5148990 Score: 149
Period size: 40 Copynumber: 2.2 Consensus size: 40
5148893 GAATATGTAA
* *
5148903 ATCGCAATGAGATTCTGACTATCGCAACGCGATTCTGATT
1 ATCGCAACGAGATTCTGACTATCGCAACGCGATTCTGACT
5148943 ATCGCAACGAGATTCTGACTATCGCAACGCGATTCTGACT
1 ATCGCAACGAGATTCTGACTATCGCAACGCGATTCTGACT
*
5148983 GTCGCAAC
1 ATCGCAAC
5148991 ACTGAATTTC
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 45 1.00
ACGTcount: A:0.27, C:0.26, G:0.20, T:0.26
Consensus pattern (40 bp):
ATCGCAACGAGATTCTGACTATCGCAACGCGATTCTGACT
Found at i:5152138 original size:6 final size:6
Alignment explanation
Indices: 5152127--5152154 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
5152117 AGAAAAAGGC
5152127 AATCAA AATCAA AATCAA AATCAA AATC
1 AATCAA AATCAA AATCAA AATCAA AATC
5152155 CCAATCACAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.64, C:0.18, G:0.00, T:0.18
Consensus pattern (6 bp):
AATCAA
Found at i:5152357 original size:20 final size:20
Alignment explanation
Indices: 5152332--5152482 Score: 170
Period size: 20 Copynumber: 7.8 Consensus size: 20
5152322 TTACACATTC
*
5152332 ATTTGAATATCGCAACGCGA
1 ATTTGACTATCGCAACGCGA
5152352 ATTTGACTATCGCAA--CGA
1 ATTTGACTATCGCAACGCGA
**
5152370 A----AAAATCGCAACGCGA
1 ATTTGACTATCGCAACGCGA
5152386 ATTTGACTATCGCAACGCGA
1 ATTTGACTATCGCAACGCGA
*
5152406 ATTTGACTATCGCAACGTGA
1 ATTTGACTATCGCAACGCGA
*
5152426 ATTTGACTATCGCAACGTGA
1 ATTTGACTATCGCAACGCGA
* * *
5152446 ATTTGATTATCGCAACGGGT
1 ATTTGACTATCGCAACGCGA
* *
5152466 ATTCGACTATCACAACG
1 ATTTGACTATCGCAACG
5152483 AGAAAATCGC
Statistics
Matches: 113, Mismatches: 12, Indels: 12
0.82 0.09 0.09
Matches are distributed among these distances:
14 8 0.07
16 4 0.04
18 4 0.04
20 97 0.86
ACGTcount: A:0.33, C:0.22, G:0.19, T:0.26
Consensus pattern (20 bp):
ATTTGACTATCGCAACGCGA
Found at i:5152550 original size:20 final size:20
Alignment explanation
Indices: 5152525--5152563 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
5152515 CGCGAATTGA
5152525 CTTTCGCATTGCGATTTTGG
1 CTTTCGCATTGCGATTTTGG
5152545 CTTTCGCATTGCGATTTTG
1 CTTTCGCATTGCGATTTTG
5152564 AGTTTAGTGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.10, C:0.21, G:0.23, T:0.46
Consensus pattern (20 bp):
CTTTCGCATTGCGATTTTGG
Found at i:5152709 original size:15 final size:14
Alignment explanation
Indices: 5152689--5152730 Score: 50
Period size: 14 Copynumber: 3.0 Consensus size: 14
5152679 TTATTTACAC
5152689 ATCAATATTAAACAA
1 ATCAAT-TTAAACAA
**
5152704 ATCAATTTTTACAA
1 ATCAATTTAAACAA
5152718 ATCAA-TTAAACAA
1 ATCAATTTAAACAA
5152731 GCAAAAATTG
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
13 6 0.26
14 11 0.48
15 6 0.26
ACGTcount: A:0.55, C:0.14, G:0.00, T:0.31
Consensus pattern (14 bp):
ATCAATTTAAACAA
Found at i:5152719 original size:14 final size:14
Alignment explanation
Indices: 5152677--5152724 Score: 51
Period size: 14 Copynumber: 3.3 Consensus size: 14
5152667 CACAAATAAG
*
5152677 AATTATTTACACATC
1 AATT-TTTACAAATC
**
5152692 AATATTAAACAAATC
1 AAT-TTTTACAAATC
5152707 AATTTTTACAAATC
1 AATTTTTACAAATC
5152721 AATT
1 AATT
5152725 AAACAAGCAA
Statistics
Matches: 27, Mismatches: 5, Indels: 3
0.77 0.14 0.09
Matches are distributed among these distances:
14 13 0.48
15 13 0.48
16 1 0.04
ACGTcount: A:0.48, C:0.15, G:0.00, T:0.38
Consensus pattern (14 bp):
AATTTTTACAAATC
Found at i:5154206 original size:21 final size:21
Alignment explanation
Indices: 5154125--5154211 Score: 84
Period size: 21 Copynumber: 4.1 Consensus size: 21
5154115 GAATGTTGGG
* *
5154125 AGGGACCTCTTCAACGATGAC
1 AGGGGCCTCTTGAACGATGAC
* * **
5154146 AGTGGCCTCTTGAACGGTGGG
1 AGGGGCCTCTTGAACGATGAC
* ** *
5154167 AGGGGACTCTTGAGGGATGAT
1 AGGGGCCTCTTGAACGATGAC
5154188 AGGGGCCTCTTGAACGATGAC
1 AGGGGCCTCTTGAACGATGAC
5154209 AGG
1 AGG
5154212 TGAGTCGGGC
Statistics
Matches: 49, Mismatches: 17, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
21 49 1.00
ACGTcount: A:0.23, C:0.20, G:0.37, T:0.21
Consensus pattern (21 bp):
AGGGGCCTCTTGAACGATGAC
Found at i:5154714 original size:20 final size:20
Alignment explanation
Indices: 5154689--5154755 Score: 100
Period size: 20 Copynumber: 3.4 Consensus size: 20
5154679 TAGTTTACTT
*
5154689 TCGCAACGCGAAA-ATGACTA
1 TCGCAACGC-AAATTTGACTA
5154709 TCGCAACGCAAATTTGACTA
1 TCGCAACGCAAATTTGACTA
*
5154729 TCGCAACACAAATTTGACTA
1 TCGCAACGCAAATTTGACTA
5154749 TCGCAAC
1 TCGCAAC
5154756 TAAAGAATCG
Statistics
Matches: 44, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
19 3 0.07
20 41 0.93
ACGTcount: A:0.37, C:0.27, G:0.15, T:0.21
Consensus pattern (20 bp):
TCGCAACGCAAATTTGACTA
Found at i:5154824 original size:20 final size:20
Alignment explanation
Indices: 5154799--5154886 Score: 158
Period size: 20 Copynumber: 4.4 Consensus size: 20
5154789 GCGATTCTCT
**
5154799 CGTTGCGATAGTCAAATTCG
1 CGTTGCGATAGTCATTTTCG
5154819 CGTTGCGATAGTCATTTTCG
1 CGTTGCGATAGTCATTTTCG
5154839 CGTTGCGATAGTCATTTTCG
1 CGTTGCGATAGTCATTTTCG
5154859 CGTTGCGATAGTCATTTTCG
1 CGTTGCGATAGTCATTTTCG
5154879 CGTTGCGA
1 CGTTGCGA
5154887 AAGTAAACTA
Statistics
Matches: 66, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 66 1.00
ACGTcount: A:0.17, C:0.20, G:0.26, T:0.36
Consensus pattern (20 bp):
CGTTGCGATAGTCATTTTCG
Found at i:5155057 original size:18 final size:18
Alignment explanation
Indices: 5155034--5155083 Score: 100
Period size: 18 Copynumber: 2.8 Consensus size: 18
5155024 TTTACTAAGC
5155034 AATCTAAGTGAAATGGTT
1 AATCTAAGTGAAATGGTT
5155052 AATCTAAGTGAAATGGTT
1 AATCTAAGTGAAATGGTT
5155070 AATCTAAGTGAAAT
1 AATCTAAGTGAAAT
5155084 TACGAGTAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 32 1.00
ACGTcount: A:0.42, C:0.06, G:0.20, T:0.32
Consensus pattern (18 bp):
AATCTAAGTGAAATGGTT
Found at i:5156797 original size:20 final size:20
Alignment explanation
Indices: 5156774--5156860 Score: 88
Period size: 20 Copynumber: 4.5 Consensus size: 20
5156764 TTTGAAACTT
5156774 AAAATCGCAACACGAAAATG
1 AAAATCGCAACACGAAAATG
*
5156794 AAAATCGCAATACGAAAATG
1 AAAATCGCAACACGAAAATG
** * *
5156814 ACTATCGCAACGCG-AAATA
1 AAAATCGCAACACGAAAATG
* * *
5156833 AAAATTGCAACGCGAAACT-
1 AAAATCGCAACACGAAAATG
5156852 AAAATCGCA
1 AAAATCGCA
5156861 TTGCGATTCT
Statistics
Matches: 55, Mismatches: 11, Indels: 3
0.80 0.16 0.04
Matches are distributed among these distances:
19 23 0.42
20 32 0.58
ACGTcount: A:0.51, C:0.21, G:0.15, T:0.14
Consensus pattern (20 bp):
AAAATCGCAACACGAAAATG
Found at i:5157494 original size:20 final size:20
Alignment explanation
Indices: 5157469--5157575 Score: 151
Period size: 20 Copynumber: 5.3 Consensus size: 20
5157459 GAAAATCACA
*
5157469 TTGCGATAGTCAGTATCGCG
1 TTGCGATAGTCAGAATCGCG
*
5157489 TTGCGATAGTCAGAATTGCG
1 TTGCGATAGTCAGAATCGCG
* *
5157509 TTGTGATAGTCAGAATCTCG
1 TTGCGATAGTCAGAATCGCG
*
5157529 TTGCGATAGTCAGAATCGCA
1 TTGCGATAGTCAGAATCGCG
* *
5157549 TTACGATAGTTAGAATCGCG
1 TTGCGATAGTCAGAATCGCG
5157569 TTGCGAT
1 TTGCGAT
5157576 TTACATATTC
Statistics
Matches: 75, Mismatches: 12, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 75 1.00
ACGTcount: A:0.25, C:0.17, G:0.27, T:0.31
Consensus pattern (20 bp):
TTGCGATAGTCAGAATCGCG
Found at i:5157593 original size:60 final size:61
Alignment explanation
Indices: 5157468--5157635 Score: 166
Period size: 60 Copynumber: 2.8 Consensus size: 61
5157458 TGAAAATCAC
* * * * *
5157468 ATTGCGATAGTCAGTATCGCGTTGCGATAGTCAGAATTGCGTTGTGATAGTCAGAATCTCG
1 ATTGCGATAGTCAGAATCGCATTACGATAGTCAGAATCGCGTTGCGATAGTCAGAATCTCG
* * *
5157529 -TTGCGATAGTCAGAATCGCATTACGATAGTTAGAATCGCGTTGCGAT-TTACA-TAT-TCG
1 ATTGCGATAGTCAGAATCGCATTACGATAGTCAGAATCGCGTTGCGATAGT-CAGAATCTCG
* * *
5157587 TATTGCGA-ATTCGGAAAATCGCAATACGATAGTCAGAATCGCGTTGCGA
1 -ATTGCGATAGTC--AGAATCGCATTACGATAGTCAGAATCGCGTTGCGA
5157636 ATCTGGAAAC
Statistics
Matches: 90, Mismatches: 12, Indels: 10
0.80 0.11 0.09
Matches are distributed among these distances:
58 3 0.03
59 6 0.07
60 49 0.54
61 32 0.36
ACGTcount: A:0.28, C:0.17, G:0.25, T:0.30
Consensus pattern (61 bp):
ATTGCGATAGTCAGAATCGCATTACGATAGTCAGAATCGCGTTGCGATAGTCAGAATCTCG
Found at i:5162410 original size:35 final size:35
Alignment explanation
Indices: 5162364--5162475 Score: 154
Period size: 35 Copynumber: 3.2 Consensus size: 35
5162354 AAAACATTCC
* *
5162364 TCAATTTCATTCTAAACCCCAATTTTCAAAGTAAT
1 TCAATTTCATTCTAAACCCCAAATTTCAAAATAAT
*
5162399 TCAATTTCATTCTAAACCCTAAATTTCAAAATAAT
1 TCAATTTCATTCTAAACCCCAAATTTCAAAATAAT
* * *
5162434 TCAATTACATTCTAAAACCCAAA-TTCTAAAATATT
1 TCAATTTCATTCTAAACCCCAAATTTC-AAAATAAT
5162469 TCAATTT
1 TCAATTT
5162476 AAGGAGGAAT
Statistics
Matches: 68, Mismatches: 8, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
34 3 0.04
35 65 0.96
ACGTcount: A:0.41, C:0.21, G:0.01, T:0.38
Consensus pattern (35 bp):
TCAATTTCATTCTAAACCCCAAATTTCAAAATAAT
Found at i:5163590 original size:35 final size:34
Alignment explanation
Indices: 5163542--5163653 Score: 161
Period size: 35 Copynumber: 3.2 Consensus size: 34
5163532 AAAAAGACAA
* *
5163542 AAATTGAAGTATTTTAGAATTTGGGTTTTAGAATG
1 AAATTGAATTATTTTGGAATTTGGG-TTTAGAATG
*
5163577 TAATTGAATTATTTTGGAATTTAGGGTTTAGAATG
1 AAATTGAATTATTTTGGAATTT-GGGTTTAGAATG
*
5163612 AAATTGAATTACTTTGGAATTTGTGGTTTAGAATG
1 AAATTGAATTATTTTGGAATTTG-GGTTTAGAATG
5163647 AAATTGA
1 AAATTGA
5163654 GGATTGTTTT
Statistics
Matches: 70, Mismatches: 5, Indels: 4
0.89 0.06 0.05
Matches are distributed among these distances:
34 1 0.01
35 66 0.94
36 3 0.04
ACGTcount: A:0.34, C:0.01, G:0.22, T:0.43
Consensus pattern (34 bp):
AAATTGAATTATTTTGGAATTTGGGTTTAGAATG
Found at i:5171727 original size:2 final size:2
Alignment explanation
Indices: 5171716--5171746 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
5171706 TAGTTATGTA
5171716 AT AT -T 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
5171747 TAAAAATTAC
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 27 0.96
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Found at i:5172189 original size:22 final size:22
Alignment explanation
Indices: 5172164--5172223 Score: 84
Period size: 22 Copynumber: 2.7 Consensus size: 22
5172154 ATACGGTATG
* *
5172164 AACAATACTGTGAACAGTAATT
1 AACAGTACCGTGAACAGTAATT
* *
5172186 AACAGTACCATGAACAGTAGTT
1 AACAGTACCGTGAACAGTAATT
5172208 AACAGTACCGTGAACA
1 AACAGTACCGTGAACA
5172224 ATATCGAATG
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 33 1.00
ACGTcount: A:0.43, C:0.18, G:0.17, T:0.22
Consensus pattern (22 bp):
AACAGTACCGTGAACAGTAATT
Found at i:5172279 original size:22 final size:21
Alignment explanation
Indices: 5172251--5172292 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
5172241 TTTCCAGAAT
*
5172251 GCTACAGAGGTATCGATACCCA
1 GCTACAG-GGTACCGATACCCA
*
5172273 GCTACAGTGTACCGATACCC
1 GCTACAGGGTACCGATACCC
5172293 TTACTACAGT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 11 0.61
22 7 0.39
ACGTcount: A:0.29, C:0.31, G:0.21, T:0.19
Consensus pattern (21 bp):
GCTACAGGGTACCGATACCCA
Found at i:5174101 original size:22 final size:22
Alignment explanation
Indices: 5174039--5174103 Score: 76
Period size: 22 Copynumber: 2.9 Consensus size: 22
5174029 AAAATATGGT
*
5174039 ATGAACAGTACCGTATGAACAGTA
1 ATGAACAGTACCG--TGAACACTA
* **
5174063 ATGAACAATACTATGAACACTA
1 ATGAACAGTACCGTGAACACTA
5174085 ATGAACAGTACCGTGAACA
1 ATGAACAGTACCGTGAACA
5174104 ATACTCGAAT
Statistics
Matches: 34, Mismatches: 7, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
22 24 0.71
24 10 0.29
ACGTcount: A:0.45, C:0.18, G:0.17, T:0.20
Consensus pattern (22 bp):
ATGAACAGTACCGTGAACACTA
Found at i:5174870 original size:21 final size:21
Alignment explanation
Indices: 5174833--5174927 Score: 136
Period size: 21 Copynumber: 4.5 Consensus size: 21
5174823 CATTGGAAAT
* *
5174833 TTATCCTGAAAGACCACTGTA
1 TTATCCCGAAGGACCACTGTA
* *
5174854 TTGTCCCGAAGGACCACTATA
1 TTATCCCGAAGGACCACTGTA
*
5174875 TTGTCCCGAAGGACCACTGTA
1 TTATCCCGAAGGACCACTGTA
*
5174896 TTATCCCAAAGGACCACTGTA
1 TTATCCCGAAGGACCACTGTA
5174917 TTATCCCGAAG
1 TTATCCCGAAG
5174928 AACCTATAAA
Statistics
Matches: 66, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 66 1.00
ACGTcount: A:0.29, C:0.27, G:0.18, T:0.25
Consensus pattern (21 bp):
TTATCCCGAAGGACCACTGTA
Found at i:5180537 original size:21 final size:21
Alignment explanation
Indices: 5180507--5180584 Score: 120
Period size: 21 Copynumber: 3.7 Consensus size: 21
5180497 CATATGAAAT
*
5180507 TTGTCCCGAACGACCACTGTA
1 TTGTCCCGAAGGACCACTGTA
*
5180528 TTGTCTCGAAGGACCACTGTA
1 TTGTCCCGAAGGACCACTGTA
* *
5180549 TTGTCCCAAAGGACCATTGTA
1 TTGTCCCGAAGGACCACTGTA
5180570 TTGTCCCGAAGGACC
1 TTGTCCCGAAGGACC
5180585 TATGAAACCC
Statistics
Matches: 51, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 51 1.00
ACGTcount: A:0.24, C:0.28, G:0.22, T:0.26
Consensus pattern (21 bp):
TTGTCCCGAAGGACCACTGTA
Found at i:5185090 original size:4 final size:4
Alignment explanation
Indices: 5185081--5185106 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
5185071 TCAGTATTAA
5185081 AAAT AAAT AAAT AAAT AAAT AAAT AA
1 AAAT AAAT AAAT AAAT AAAT AAAT AA
5185107 GAATATAATG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (4 bp):
AAAT
Found at i:5189107 original size:31 final size:31
Alignment explanation
Indices: 5189072--5189130 Score: 93
Period size: 31 Copynumber: 1.9 Consensus size: 31
5189062 GACAATTCTA
*
5189072 GATGCATAA-TGGATACTATCCCCTAATGATG
1 GATGCATAACT-GAAACTATCCCCTAATGATG
5189103 GATGCATAACTGAAACTATCCCCTAATG
1 GATGCATAACTGAAACTATCCCCTAATG
5189131 CATAAAGTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
31 25 0.96
32 1 0.04
ACGTcount: A:0.34, C:0.22, G:0.17, T:0.27
Consensus pattern (31 bp):
GATGCATAACTGAAACTATCCCCTAATGATG
Found at i:5191223 original size:3 final size:3
Alignment explanation
Indices: 5191215--5191241 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
5191205 CTGGAAACTC
5191215 TCT TCT TCT TCT TCT TCT TCT TCT TCT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT
5191242 CATCTCTTCT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
TCT
Found at i:5192387 original size:22 final size:21
Alignment explanation
Indices: 5192339--5192398 Score: 86
Period size: 22 Copynumber: 2.9 Consensus size: 21
5192329 GTCGAGGGTT
*
5192339 CATAGGTCATTCGGGAC-ATA
1 CATAGGTCCTTCGGGACAATA
*
5192359 CAAAGGTCCTTCGGGACAAATA
1 CATAGGTCCTTCGGGAC-AATA
5192381 CATAGGTCCTTCGGGACA
1 CATAGGTCCTTCGGGACA
5192399 TATTTCACAT
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
20 15 0.43
21 1 0.03
22 19 0.54
ACGTcount: A:0.30, C:0.23, G:0.25, T:0.22
Consensus pattern (21 bp):
CATAGGTCCTTCGGGACAATA
Found at i:5192632 original size:3 final size:3
Alignment explanation
Indices: 5192624--5192687 Score: 121
Period size: 3 Copynumber: 21.7 Consensus size: 3
5192614 CATGAAATAC
5192624 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
5192672 ATT ATT ATT A-T ATT AT
1 ATT ATT ATT ATT ATT AT
5192688 ATGTTATGCC
Statistics
Matches: 60, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
2 2 0.03
3 58 0.97
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:5193138 original size:19 final size:19
Alignment explanation
Indices: 5193114--5193163 Score: 82
Period size: 19 Copynumber: 2.6 Consensus size: 19
5193104 AACGGTACAT
*
5193114 GTACTATTCATACTATATA
1 GTACTATTCATACCATATA
5193133 GTACTATTCATACCATATA
1 GTACTATTCATACCATATA
*
5193152 ATACTATTCATA
1 GTACTATTCATA
5193164 AAAATGTTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.38, C:0.18, G:0.04, T:0.40
Consensus pattern (19 bp):
GTACTATTCATACCATATA
Found at i:5195294 original size:18 final size:18
Alignment explanation
Indices: 5195271--5195305 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
5195261 AGTGAAATTT
5195271 TGAA-TTAGAGGGTTTAAA
1 TGAATTTAGA-GGTTTAAA
5195289 TGAATTTAGAGGTTTAA
1 TGAATTTAGAGGTTTAA
5195306 TTTGACTTGT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 11 0.69
19 5 0.31
ACGTcount: A:0.37, C:0.00, G:0.26, T:0.37
Consensus pattern (18 bp):
TGAATTTAGAGGTTTAAA
Found at i:5196302 original size:18 final size:18
Alignment explanation
Indices: 5196279--5196331 Score: 88
Period size: 18 Copynumber: 2.9 Consensus size: 18
5196269 AGAGATATAC
5196279 AGTGGTCCTTCGGGACAT
1 AGTGGTCCTTCGGGACAT
*
5196297 AGTGGTCTTTCGGGACAT
1 AGTGGTCCTTCGGGACAT
*
5196315 AGTAGTCCTTCGGGACA
1 AGTGGTCCTTCGGGACA
5196332 AATATTCAGT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 32 1.00
ACGTcount: A:0.19, C:0.21, G:0.32, T:0.28
Consensus pattern (18 bp):
AGTGGTCCTTCGGGACAT
Found at i:5200835 original size:22 final size:22
Alignment explanation
Indices: 5200789--5200870 Score: 114
Period size: 22 Copynumber: 3.8 Consensus size: 22
5200779 GAGGGTTCAT
5200789 AGGTCCTTCGGGAC--ATACAG
1 AGGTCCTTCGGGACATATACAG
*
5200809 AGGTCCTTCGGGACATATAGAG
1 AGGTCCTTCGGGACATATACAG
* *
5200831 AGGTCCTTCGGGACAAATACAT
1 AGGTCCTTCGGGACATATACAG
*
5200853 AGGTCATTCGGGACATAT
1 AGGTCCTTCGGGACATAT
5200871 TTCACATGCT
Statistics
Matches: 54, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
20 14 0.26
22 40 0.74
ACGTcount: A:0.28, C:0.21, G:0.28, T:0.23
Consensus pattern (22 bp):
AGGTCCTTCGGGACATATACAG
Found at i:5200863 original size:44 final size:42
Alignment explanation
Indices: 5200789--5200870 Score: 128
Period size: 44 Copynumber: 1.9 Consensus size: 42
5200779 GAGGGTTCAT
*
5200789 AGGTCCTTCGGGACATACAGAGGTCCTTCGGGACATATAGAG
1 AGGTCCTTCGGGACATACAGAGGTCATTCGGGACATATAGAG
*
5200831 AGGTCCTTCGGGACAAATACATAGGTCATTCGGGACATAT
1 AGGTCCTTCGGGAC--ATACAGAGGTCATTCGGGACATAT
5200871 TTCACATGCT
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
42 14 0.39
44 22 0.61
ACGTcount: A:0.28, C:0.21, G:0.28, T:0.23
Consensus pattern (42 bp):
AGGTCCTTCGGGACATACAGAGGTCATTCGGGACATATAGAG
Found at i:5201564 original size:19 final size:19
Alignment explanation
Indices: 5201537--5201619 Score: 130
Period size: 19 Copynumber: 4.4 Consensus size: 19
5201527 ACAGTACCGA
*
5201537 TATTGTTCATACTATATAG
1 TATTATTCATACTATATAG
5201556 TATTATTCATACTATATAG
1 TATTATTCATACTATATAG
*
5201575 TACTATTCATACTATATAG
1 TATTATTCATACTATATAG
*
5201594 TATTATTCATACCATATAG
1 TATTATTCATACTATATAG
*
5201613 TACTATT
1 TATTATT
5201620 TATAAAAACG
Statistics
Matches: 59, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 59 1.00
ACGTcount: A:0.35, C:0.13, G:0.06, T:0.46
Consensus pattern (19 bp):
TATTATTCATACTATATAG
Found at i:5201593 original size:38 final size:38
Alignment explanation
Indices: 5201542--5201619 Score: 147
Period size: 38 Copynumber: 2.1 Consensus size: 38
5201532 ACCGATATTG
*
5201542 TTCATACTATATAGTATTATTCATACTATATAGTACTA
1 TTCATACTATATAGTATTATTCATACCATATAGTACTA
5201580 TTCATACTATATAGTATTATTCATACCATATAGTACTA
1 TTCATACTATATAGTATTATTCATACCATATAGTACTA
5201618 TT
1 TT
5201620 TATAAAAACG
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
38 39 1.00
ACGTcount: A:0.36, C:0.14, G:0.05, T:0.45
Consensus pattern (38 bp):
TTCATACTATATAGTATTATTCATACCATATAGTACTA
Found at i:5203583 original size:253 final size:250
Alignment explanation
Indices: 5203078--5203583 Score: 942
Period size: 253 Copynumber: 2.0 Consensus size: 250
5203068 AAAATTTACA
5203078 AACTAAATTAGAATGAGAATCATATTTTAAAGACGTAATATATTGATTTTTTAATTTACACAATC
1 AACTAAATTAGAATGAGAATCATATTTTAAAGACGTAATATATTGATTTTTTAATTTACACAATC
5203143 TTTAAAAATTCAACTTTCTGAATACATTATCATCATTTACAATACATGAAGAATCTTTGCATGGT
66 TTTAAAAATTCAACTTTCTGAATACATTATCATCATTTACAATACATGAAGAATCTTTGCATGGT
5203208 TAATTCAGCACTGGCGGAACAAAGTATTGCTAATAACAATTATAGTTTTCAAATCTTAATACTAC
131 TAATTCAGCACTGGCGGAACAAAGTATTGCTAATAACAATTATAGTTTTCAAATCTTAATACTAC
5203273 TTAAATACGCTATGCTCGAATTTCAGATAATATGGTAATCTCTCGGATTTCTTTCTTT
196 TTAAATACGCTATGCTCGAATTTCAGATAATATGGTAATCTCTCGGA--T-TTTCTTT
5203331 AACTAAATTAGAATGAGAATCATATTTTAAAGACGTAATATATTGATTTTTTAATTTACACAATC
1 AACTAAATTAGAATGAGAATCATATTTTAAAGACGTAATATATTGATTTTTTAATTTACACAATC
5203396 TTTAAAAATTCAACTTTCTGAATACATTATCATCATTTACAATACATGAAGAATCTTTGCAATGG
66 TTTAAAAATTCAACTTTCTGAATACATTATCATCATTTACAATACATGAAGAATCTTTGC-ATGG
5203461 TTAATTCAGCACTGGCGGAACAAAGTATTGCTAATAACAATTATAGTTTTCAAATCTTAATACTA
130 TTAATTCAGCACTGGCGGAACAAAGTATTGCTAATAACAATTATAGTTTTCAAATCTTAATACTA
5203526 CTTAAATACGCTATGCTCGAATTTCAGATAATTATATGGTAATCTCTCGGA-TTTCTTT
195 CTTAAATACGCTATGCTCGAATTTCAGAT-A--ATATGGTAATCTCTCGGATTTTCTTT
5203584 CTTTCCTATA
Statistics
Matches: 249, Mismatches: 0, Indels: 8
0.97 0.00 0.03
Matches are distributed among these distances:
253 132 0.53
254 98 0.39
255 1 0.00
257 18 0.07
ACGTcount: A:0.37, C:0.14, G:0.11, T:0.38
Consensus pattern (250 bp):
AACTAAATTAGAATGAGAATCATATTTTAAAGACGTAATATATTGATTTTTTAATTTACACAATC
TTTAAAAATTCAACTTTCTGAATACATTATCATCATTTACAATACATGAAGAATCTTTGCATGGT
TAATTCAGCACTGGCGGAACAAAGTATTGCTAATAACAATTATAGTTTTCAAATCTTAATACTAC
TTAAATACGCTATGCTCGAATTTCAGATAATATGGTAATCTCTCGGATTTTCTTT
Found at i:5207052 original size:16 final size:16
Alignment explanation
Indices: 5207031--5207107 Score: 68
Period size: 16 Copynumber: 4.8 Consensus size: 16
5207021 TTGTCTACAC
5207031 GTGACCGGTTAAACAA
1 GTGACCGGTTAAACAA
5207047 GTGACCGGTT-AA-AA
1 GTGACCGGTTAAACAA
* * * ** *
5207061 TTTATCGGTATGCTACAC
1 GTGACCGGT-T-AAACAA
5207079 GTGACCGGTTAAACAA
1 GTGACCGGTTAAACAA
5207095 GTGACCGGTTAAA
1 GTGACCGGTTAAA
5207108 ATTTATATCG
Statistics
Matches: 46, Mismatches: 11, Indels: 8
0.71 0.17 0.12
Matches are distributed among these distances:
14 8 0.17
15 3 0.07
16 26 0.57
17 2 0.04
18 7 0.15
ACGTcount: A:0.32, C:0.18, G:0.25, T:0.25
Consensus pattern (16 bp):
GTGACCGGTTAAACAA
Found at i:5207657 original size:23 final size:23
Alignment explanation
Indices: 5207631--5207693 Score: 99
Period size: 23 Copynumber: 2.7 Consensus size: 23
5207621 ATATAACCAC
5207631 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
* *
5207654 TACCTATTACATTATATAAGCGC
1 TACCTATTACATTATATAAACGA
*
5207677 TACCTATTACATCATAT
1 TACCTATTACATTATAT
5207694 TTTTACCTAT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.38, C:0.21, G:0.05, T:0.37
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:5208078 original size:21 final size:22
Alignment explanation
Indices: 5208053--5208125 Score: 101
Period size: 23 Copynumber: 3.2 Consensus size: 22
5208043 ACACTTTACA
*
5208053 ATATAACCACTACCTATTACATT
1 ATATAAACA-TACCTATTACATT
5208076 ATATAAACGATACCTATTACATT
1 ATATAAAC-ATACCTATTACATT
*
5208099 ATATAAACGATACCTATTACATC
1 ATATAAAC-ATACCTATTACATT
5208122 ATAT
1 ATAT
5208126 TTTTACCTAT
Statistics
Matches: 47, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
23 46 0.98
24 1 0.02
ACGTcount: A:0.42, C:0.21, G:0.03, T:0.34
Consensus pattern (22 bp):
ATATAAACATACCTATTACATT
Found at i:5208079 original size:432 final size:431
Alignment explanation
Indices: 5207279--5208335 Score: 1953
Period size: 432 Copynumber: 2.5 Consensus size: 431
5207269 TTATAATATG
5207279 TTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAATTTATGTT
1 TTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAATTTATGTT
* *
5207344 TCAATTTTTTGAATAGTGTTTCATGTTTTCCACCTATAATATTAATTTAATAATTTCATTTGCAC
66 TCAATTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCAC
5207409 AAAAAATTATTTGATTATTTGATATTTTATAAAATATTATTTAGAATTTTTAATTTA-ATA-A-T
131 AAAAAATTATTTGATTATTTGATATTTTATAAAATATTATTTAGAATTTTTAATTTACA-ACATT
5207471 AATATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAAAATCTTAAA
195 AATATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAAAATCTTAAA
*
5207536 ACTCACTCAAAAGATAACCTTAAATTAATGTTTTTAACAGTGAAAAAAGTATGGACACTTTTATA
260 ACTCACTCAAAAGATAACCTTAAATTAATGTTTTCAACAGTGAAAAAAGTATGGACACTTTTATA
5207601 AAAAGGATAGACACTTTACAATATAACCACTACCTATTACATTATATAAACGATACCTATTACAT
325 AAAAGGATAGACACTTTACAATATAACCACTACCTATTACATTATATAAACGATACCTATTACAT
* *
5207666 TATATAAGCGCTACCTATTACATCATATTTTTACCTATTATA
390 TATATAAACGATACCTATTACATCATATTTTTACCTATTATA
5207708 TTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAATTTATGTT
1 TTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAATTTATGTT
* *
5207773 TCAATTTTTTTTAATAATGTTTCATGTTTTTCACCTACAATATTAATTTAATAATTTCATTTGCA
66 TCAA-TTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCA
5207838 CAAAAAATTATTTGATTATTTGATATTTTATAAAAATATTATTTAGAATTTTTAATTTACAACAT
130 CAAAAAATTATTTGATTATTTGATATTTTAT-AAAATATTATTTAGAATTTTTAATTTACAACAT
5207903 TAATATATATCGTAACGT-AAAAATAAATCATTAGACGCCTATAATTACTAAATTAAAATCTTAA
194 TAATATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAAAATCTTAA
*
5207967 AACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTAT
259 AACTCACTCAAAAGATAACCTTAAATTAATGTTTTCAACAGTGAAAAAAGTATGGACACTTTTAT
5208032 AAAAAGGATAGACACTTTACAATATAACCACTACCTATTACATTATATAAACGATACCTATTACA
324 AAAAAGGATAGACACTTTACAATATAACCACTACCTATTACATTATATAAACGATACCTATTACA
5208097 TTATATAAACGATACCTATTACATCATATTTTTACCTATTATA
389 TTATATAAACGATACCTATTACATCATATTTTTACCTATTATA
*
5208140 TTGAAAGTGTCCATACCTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAATTTATGTT
1 TTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAATTTATGTT
5208205 TCAA-TTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCAC
66 TCAATTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCAC
*
5208269 AAAAAATTATTTGATTTTTTGATATTTTATAAAATATTATTTAGAATTTTTAATTTAACAACATT
131 AAAAAATTATTTGATTATTTGATATTTTATAAAATATTATTTAGAATTTTTAATTT-ACAACATT
5208334 AA
195 AA
5208336 CCAAAGAGAT
Statistics
Matches: 610, Mismatches: 12, Indels: 11
0.96 0.02 0.02
Matches are distributed among these distances:
429 95 0.16
430 184 0.30
431 28 0.05
432 285 0.47
433 18 0.03
ACGTcount: A:0.39, C:0.12, G:0.08, T:0.41
Consensus pattern (431 bp):
TTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAATTTATGTT
TCAATTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCAC
AAAAAATTATTTGATTATTTGATATTTTATAAAATATTATTTAGAATTTTTAATTTACAACATTA
ATATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAAAATCTTAAAA
CTCACTCAAAAGATAACCTTAAATTAATGTTTTCAACAGTGAAAAAAGTATGGACACTTTTATAA
AAAGGATAGACACTTTACAATATAACCACTACCTATTACATTATATAAACGATACCTATTACATT
ATATAAACGATACCTATTACATCATATTTTTACCTATTATA
Found at i:5208089 original size:23 final size:23
Alignment explanation
Indices: 5208063--5208125 Score: 117
Period size: 23 Copynumber: 2.7 Consensus size: 23
5208053 ATATAACCAC
5208063 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
5208086 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
*
5208109 TACCTATTACATCATAT
1 TACCTATTACATTATAT
5208126 TTTTACCTAT
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
23 39 1.00
ACGTcount: A:0.41, C:0.19, G:0.03, T:0.37
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:5208597 original size:38 final size:37
Alignment explanation
Indices: 5208546--5208623 Score: 120
Period size: 37 Copynumber: 2.1 Consensus size: 37
5208536 AGTTGTAGAT
*
5208546 TTTGATTTCCTTTTGCTTGGCATCATATGAGATTTGAA
1 TTTGATTTCCTTTTGCTT-GCACCATATGAGATTTGAA
* *
5208584 TTTGATTTCCTTTTGCTTGCACCATATGAGCTTTGGA
1 TTTGATTTCCTTTTGCTTGCACCATATGAGATTTGAA
5208621 TTT
1 TTT
5208624 TGATGAGCAT
Statistics
Matches: 37, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
37 19 0.51
38 18 0.49
ACGTcount: A:0.18, C:0.15, G:0.18, T:0.49
Consensus pattern (37 bp):
TTTGATTTCCTTTTGCTTGCACCATATGAGATTTGAA
Found at i:5208626 original size:38 final size:38
Alignment explanation
Indices: 5208543--5208627 Score: 127
Period size: 38 Copynumber: 2.2 Consensus size: 38
5208533 TCAAGTTGTA
*
5208543 GATTTTGATTTCCTTTTGCTTGGCATCATATGAGATTT
1 GATTTTGATTTCCTTTTGCTTGGCACCATATGAGATTT
* *
5208581 GAATTTGATTTCCTTTTGCTT-GCACCATATGAGCTTT
1 GATTTTGATTTCCTTTTGCTTGGCACCATATGAGATTT
5208618 GGATTTTGAT
1 -GATTTTGAT
5208628 GAGCATCGGA
Statistics
Matches: 42, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
37 14 0.33
38 28 0.67
ACGTcount: A:0.19, C:0.14, G:0.19, T:0.48
Consensus pattern (38 bp):
GATTTTGATTTCCTTTTGCTTGGCACCATATGAGATTT
Found at i:5208904 original size:18 final size:18
Alignment explanation
Indices: 5208881--5208917 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
5208871 GCCGAAATAT
5208881 ATTGAAATTCAAACTCAA
1 ATTGAAATTCAAACTCAA
* *
5208899 ATTGAAATTTAAATTCAA
1 ATTGAAATTCAAACTCAA
5208917 A
1 A
5208918 CTCCAATTAC
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:0.51, C:0.11, G:0.05, T:0.32
Consensus pattern (18 bp):
ATTGAAATTCAAACTCAA
Found at i:5209371 original size:28 final size:26
Alignment explanation
Indices: 5209339--5209400 Score: 67
Period size: 23 Copynumber: 2.4 Consensus size: 26
5209329 GATAGATACT
*
5209339 TTACAATATATTATATAAGCGCTACCTA
1 TTACAATATATTATA-AA-CGATACCTA
5209367 TTAC-AT-TA-TATAAACGATACCTA
1 TTACAATATATTATAAACGATACCTA
*
5209390 TTACATTATAT
1 TTACAATATAT
5209401 ACTTGTAGTT
Statistics
Matches: 29, Mismatches: 2, Indels: 8
0.74 0.05 0.21
Matches are distributed among these distances:
23 12 0.41
24 3 0.10
25 6 0.21
26 2 0.07
27 2 0.07
28 4 0.14
ACGTcount: A:0.40, C:0.16, G:0.05, T:0.39
Consensus pattern (26 bp):
TTACAATATATTATAAACGATACCTA
Found at i:5209378 original size:23 final size:23
Alignment explanation
Indices: 5209348--5209401 Score: 90
Period size: 23 Copynumber: 2.3 Consensus size: 23
5209338 TTTACAATAT
* *
5209348 ATTATATAAGCGCTACCTATTAC
1 ATTATATAAACGATACCTATTAC
5209371 ATTATATAAACGATACCTATTAC
1 ATTATATAAACGATACCTATTAC
5209394 ATTATATA
1 ATTATATA
5209402 CTTGTAGTTA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
23 29 1.00
ACGTcount: A:0.41, C:0.17, G:0.06, T:0.37
Consensus pattern (23 bp):
ATTATATAAACGATACCTATTAC
Found at i:5212226 original size:180 final size:182
Alignment explanation
Indices: 5211870--5212485 Score: 1043
Period size: 179 Copynumber: 3.4 Consensus size: 182
5211860 CGACACATTT
*
5211870 TAGGTTGTAGACATATTCGCGCATAAAACCGGTATATTT-TACC-GTTATATTACAAAATTATCT
1 TAGGTTGTAGACCTATTCGCGCATAAAACCGGTATATTTATACCTGTTATATTACAAAATTATCT
*
5211933 ATTACAGTA-AATTATGGGTTCCGATGTGTAAATGTCGACACTTTTTTAAATCGTATCGACACAT
66 ATTACATTATAATTATGGGTTCCGATGTGTAAATGTCGACACTTTTTTAAATCGTATCGACACAT
5211997 TTTTCTTCCAATATGGACATAAAGTACCGACACAATATT-AAAAGTGTCGATA
131 TTTTCTT-CAATATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATA
* *
5212049 TAGGTTGTAGACCTATTCGCTCATACAACCGGTATATTTATACCTGTTATATTAC-AAATTATCT
1 TAGGTTGTAGACCTATTCGCGCATAAAACCGGTATATTTATACCTGTTATATTACAAAATTATCT
5212113 ATTACATTATAATTATGGGTTCCGATGTGTAAATGTCGACAC-TTTTTAAATCGTATCGACACAT
66 ATTACATTATAATTATGGGTTCCGATGTGTAAATGTCGACACTTTTTTAAATCGTATCGACACAT
5212177 TTTTCTTCAATATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATA
131 TTTTCTTCAATATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATA
* *
5212229 TAGGTTGTAGACCTATTCGCTCATACAACCGGTATATTTATACCTGTTATATTACAAAATTA-CT
1 TAGGTTGTAGACCTATTCGCGCATAAAACCGGTATATTTATACCTGTTATATTACAAAATTATCT
5212293 ATTACATTATAATTATGGGTTCCGATGTGTAAATGTCGACACTTTTTTAAATCGTATCG--ACAT
66 ATTACATTATAATTATGGGTTCCGATGTGTAAATGTCGACACTTTTTTAAATCGTATCGACACAT
*
5212356 TTTTCTTCCATATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATA
131 TTTTCTTCAATATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATA
* * * *
5212408 TAGGTTGTAGACCTATTCGCGCATAAAACCGGTATATTTATACCGGTTATATTGCAAATTTACCT
1 TAGGTTGTAGACCTATTCGCGCATAAAACCGGTATATTTATACCTGTTATATTACAAAATTATCT
**
5212473 ATTTTATTATAAT
66 ATTACATTATAAT
5212486 ATGTTGAAAG
Statistics
Matches: 418, Mismatches: 12, Indels: 13
0.94 0.03 0.03
Matches are distributed among these distances:
179 179 0.43
180 175 0.42
181 64 0.15
ACGTcount: A:0.33, C:0.16, G:0.14, T:0.36
Consensus pattern (182 bp):
TAGGTTGTAGACCTATTCGCGCATAAAACCGGTATATTTATACCTGTTATATTACAAAATTATCT
ATTACATTATAATTATGGGTTCCGATGTGTAAATGTCGACACTTTTTTAAATCGTATCGACACAT
TTTTCTTCAATATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATA
Found at i:5213937 original size:3 final size:3
Alignment explanation
Indices: 5213929--5214002 Score: 60
Period size: 3 Copynumber: 25.0 Consensus size: 3
5213919 ACTTGTTTGG
* * ** * *
5213929 ATC ATC ATC TTC ATC ATC ATC ATC GTC ATC ATC -TC ATC GCC AGC TTC
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC
* * *
5213976 ATC GTC ATC ATC ATC GTC ATC TTC ATC
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC
5214003 GTCAGCTTCA
Statistics
Matches: 53, Mismatches: 17, Indels: 2
0.74 0.24 0.03
Matches are distributed among these distances:
2 2 0.04
3 51 0.96
ACGTcount: A:0.23, C:0.35, G:0.07, T:0.35
Consensus pattern (3 bp):
ATC
Found at i:5213946 original size:12 final size:12
Alignment explanation
Indices: 5213933--5214014 Score: 85
Period size: 12 Copynumber: 6.9 Consensus size: 12
5213923 GTTTGGATCA
*
5213933 TCATCTTCATCA
1 TCATCTTCATCG
* * *
5213945 TCATCATCGTCA
1 TCATCTTCATCG
5213957 TCATC-TCATCG
1 TCATCTTCATCG
* *
5213968 CCAGCTTCATCG
1 TCATCTTCATCG
*
5213980 TCATCATCATCG
1 TCATCTTCATCG
5213992 TCATCTTCATCG
1 TCATCTTCATCG
*
5214004 TCAGCTTCATC
1 TCATCTTCATC
5214015 TTCTGCGACC
Statistics
Matches: 58, Mismatches: 11, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
11 7 0.12
12 51 0.88
ACGTcount: A:0.21, C:0.35, G:0.09, T:0.35
Consensus pattern (12 bp):
TCATCTTCATCG
Found at i:5214015 original size:18 final size:18
Alignment explanation
Indices: 5213957--5214017 Score: 70
Period size: 18 Copynumber: 3.4 Consensus size: 18
5213947 ATCATCGTCA
*
5213957 TCATC-TCATCGCCAGCT
1 TCATCTTCATCGTCAGCT
* * * *
5213974 TCATCGTCATCATCATCG
1 TCATCTTCATCGTCAGCT
5213992 TCATCTTCATCGTCAGCT
1 TCATCTTCATCGTCAGCT
5214010 TCATCTTC
1 TCATCTTC
5214018 TGCGACCGCT
Statistics
Matches: 35, Mismatches: 8, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
17 5 0.14
18 30 0.86
ACGTcount: A:0.18, C:0.36, G:0.10, T:0.36
Consensus pattern (18 bp):
TCATCTTCATCGTCAGCT
Found at i:5214017 original size:6 final size:6
Alignment explanation
Indices: 5213933--5214017 Score: 55
Period size: 6 Copynumber: 14.3 Consensus size: 6
5213923 GTTTGGATCA
* * * * * * * *
5213933 TCATCT TCATCA TCATCA TCGTCA TCATC- TCATCG CCAGCT TCATCG
1 TCATCT TCATCT TCATCT TCATCT TCATCT TCATCT TCATCT TCATCT
* * * *
5213980 TCATCA TCATCG TCATCT TCATCG TCAGCT TCATCT TC
1 TCATCT TCATCT TCATCT TCATCT TCATCT TCATCT TC
5214018 TGCGACCGCT
Statistics
Matches: 62, Mismatches: 16, Indels: 2
0.77 0.20 0.03
Matches are distributed among these distances:
5 5 0.08
6 57 0.92
ACGTcount: A:0.20, C:0.35, G:0.08, T:0.36
Consensus pattern (6 bp):
TCATCT
Found at i:5216033 original size:194 final size:197
Alignment explanation
Indices: 5215256--5217282 Score: 3515
Period size: 195 Copynumber: 10.5 Consensus size: 197
5215246 TTTAAATTAG
5215256 TATCGACACAAACTATATTAGTGTCGACACA-TATTTAGACATATTCTCACAT-AAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCACATAAAACCGGTATA
5215319 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
5215384 CGACAC-TTT-TATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAATA
131 CGACACTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAATA
5215447 AA
196 AA
5215449 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCACATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCACATAAAACCGGTATA
*
5215514 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTGGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
*
5215579 CGACACTTTTATATATGGATCGACACTTTAT-GGTGCACCCTG-TTTCCATTCATTCTGGAAAAA
131 CGACACTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGG-AAAT
5215642 AAA
195 AAA
5215645 TATCGACACAAAC--TATTAGTGTCGACACATTTATTTAGACATA-T-TC-CATAAAACCGGTAT
1 TATCGACACAAACTATATTAGTGTCGACACA-TTATTTAGACATATTCTCACATAAAACCGGTAT
*
5215705 AATTGTACCGG-TAGATTGAAAAAATTACATATTACATTATA-ATTTGGGTTCGATGATTTTGGG
65 AATTGTACCGGTTAGATTG-AAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGG
5215768 ATCGACACTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAA
129 ATCGACACTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAA
5215833 TAAA
194 TAAA
5215837 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCACAT-AAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCACATAAAACCGGTATA
5215901 ATTGTACCGG-TAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
5215965 CGACACTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCA-TCTGGAAATA
131 CGACACTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAATA
5216029 AA
196 AA
5216031 TATCGACAC-AA--ATATTAGTGTCGACACATTATTTAGACATATTCTCACATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCACATAAAACCGGTATA
*
5216093 ATTGTATCGGTTAGATTG-AAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
5216157 CGACACTTTTTATATATGGATCGACACTTTAT-GGTGCACCCCCTGTTTTCCATTCATTCTGGAA
131 CGACAC-TTTTATATATGGATCGACACTTTATGGGTGCA--CCCTGTTTTCCATTCATTCTGGAA
5216221 A-AAA
193 ATAAA
*
5216225 TATCGACACAAAATATATTAGTGTCGACACATTATTTAGACATATTCTCACATAAAAACCGGTAT
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCACAT-AAAACCGGTAT
5216290 AATTGTACCGGTTAGATTGAAAAATTACATATTACA-TA-ACTTTTGGGTTCGATGATTTTGGGA
65 AATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGA
5216353 TCGACACTTTT-TATATGGATCGACACTTTATGGGTGCACCCTGTTTT-CATTCATTCTGGAAAT
130 TCGACACTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAT
5216416 AAA
195 AAA
5216419 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCACATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCACATAAAACCGGTATA
5216484 A-TGTACCGGTTAGATTGAAAAA-TACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
*
5216547 CGACATTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAT
131 CGACA-CTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAT
5216612 -AA
195 AAA
5216614 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATA-TCTCACATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCACATAAAACCGGTATA
5216678 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
*
5216743 CGACACTTTTATATATGGATCGACACTTTAT-GGTGCACCCTGTTTTCCATTCATTCTGGAAAAA
131 CGACACTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGG-AAAT
5216807 AAA
195 AAA
5216810 TATCGACACAAAC--TATTAGTGTCGACACATT-TTTAGACATA-TCTCACATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCACATAAAACCGGTATA
5216871 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATAC-TTTGGGTTCGATGA-TTT-GGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
5216933 CGACACTTTT-TATATAGGATCGACACTTTATGGGTGCA-CCTG-TTTCCATTCATTCTGGAAAT
131 CGACACTTTTATATAT-GGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAT
5216995 AAA
195 AAA
5216998 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATA-T-TCAC-T-AAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCACATAAAACCGGTATA
5217059 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTTATACTTTTGGGTTCG-TGATTTTGGGA
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACA-TTATACTTTTGGGTTCGATGATTTTGGGA
5217123 TCGACAC-TTT-T-TATGGATCGACACTTTAT-GGTGCACCCTGTTTTCCATTCATTCTGGAAAA
130 TCGACACTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGG--AA
*
5217184 AAAAA
193 ATAAA
5217189 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCACATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCACATAAAACCGGTATA
5217254 ATTGTACCGGTTAGATTGAAAAATTACAT
66 ATTGTACCGGTTAGATTGAAAAATTACAT
5217283 CCTTTTGGCC
Statistics
Matches: 1766, Mismatches: 14, Indels: 106
0.94 0.01 0.06
Matches are distributed among these distances:
187 6 0.00
188 84 0.05
189 50 0.03
190 72 0.04
191 190 0.11
192 193 0.11
193 230 0.13
194 262 0.15
195 418 0.24
196 123 0.07
197 91 0.05
198 31 0.02
199 16 0.01
ACGTcount: A:0.32, C:0.17, G:0.16, T:0.35
Consensus pattern (197 bp):
TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCACATAAAACCGGTATA
ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
CGACACTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAATA
AA
Found at i:5216111 original size:388 final size:393
Alignment explanation
Indices: 5215256--5217282 Score: 3534
Period size: 388 Copynumber: 5.2 Consensus size: 393
5215246 TTTAAATTAG
5215256 TATCGACACAAACTATATTAGTGTCGACACA-TATTTAGACATATTCTCACAT-AAACCGGTATA
1 TATCGACACAAAC-ATATTAGTGTCGACACATTATTTAGACATATTCTCACATAAAACCGGTATA
5215319 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
65 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
5215384 CGACAC-TTT-TATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAATA
130 CGACACTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAATA
5215447 AATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCACATAAAACCGGTA
195 AATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCACATAAAACCGGTA
*
5215512 TAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTGGGG
260 TAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGG
5215577 ATCGACACTTTTATATATGGATCGACACTTTATGGTGCACCCTG-TTTCCATTCATTCTGGAAAA
325 ATCGACACTTTTATATATGGATCGACACTTTATGGTGCACCCTGTTTTCCATTCATTCTGGAAAA
5215641 AAAA
390 AAAA
5215645 TATCGACACAAAC-TATTAGTGTCGACACATTTATTTAGACATA-T-TC-CATAAAACCGGTATA
1 TATCGACACAAACATATTAGTGTCGACACA-TTATTTAGACATATTCTCACATAAAACCGGTATA
*
5215706 ATTGTACCGG-TAGATTGAAAAAATTACATATTACATTATA-ATTTGGGTTCGATGATTTTGGGA
65 ATTGTACCGGTTAGATTG-AAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGA
5215769 TCGACACTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAT
129 TCGACACTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAT
5215834 AAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCACAT-AAACCGGT
194 AAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCACATAAAACCGGT
5215898 ATAATTGTACCGG-TAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGG
259 ATAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGG
5215962 GATCGACACTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCA-TCTGG-A
324 GATCGACACTTTTATATATGGATCGACACTTTAT-GGTGCACCCTGTTTTCCATTCATTCTGGAA
*
5216025 AATAAA
388 AAAAAA
5216031 TATCGACAC-AA-ATATTAGTGTCGACACATTATTTAGACATATTCTCACATAAAACCGGTATAA
1 TATCGACACAAACATATTAGTGTCGACACATTATTTAGACATATTCTCACATAAAACCGGTATAA
*
5216094 TTGTATCGGTTAGATTG-AAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGATC
66 TTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGATC
5216158 GACACTTTTTATATATGGATCGACACTTTAT-GGTGCACCCCCTGTTTTCCATTCATTCTGGAAA
131 GACAC-TTTTATATATGGATCGACACTTTATGGGTGCA--CCCTGTTTTCCATTCATTCTGGAAA
*
5216222 -AAATATCGACACAAAATATATTAGTGTCGACACATTATTTAGACATATTCTCACATAAAAACCG
193 TAAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCACAT-AAAACCG
5216286 GTATAATTGTACCGGTTAGATTGAAAAATTACATATTACA-TA-ACTTTTGGGTTCGATGATTTT
257 GTATAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTT
5216349 GGGATCGACACTTTT-TATATGGATCGACACTTTATGGGTGCACCCTGTTTT-CATTCATTCTGG
322 GGGATCGACACTTTTATATATGGATCGACACTTTAT-GGTGCACCCTGTTTTCCATTCATTCTGG
*
5216412 -AAATAAA
386 AAAAAAAA
5216419 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCACATAAAACCGGTATA
1 TATCGACACAAAC-ATATTAGTGTCGACACATTATTTAGACATATTCTCACATAAAACCGGTATA
5216484 A-TGTACCGGTTAGATTGAAAAA-TACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
65 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
*
5216547 CGACATTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAT
130 CGACA-CTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAT
5216612 -AATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATA-TCTCACATAAAACCGGT
194 AAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCACATAAAACCGGT
5216675 ATAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGG
259 ATAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGG
5216740 GATCGACACTTTTATATATGGATCGACACTTTATGGTGCACCCTGTTTTCCATTCATTCTGGAAA
324 GATCGACACTTTTATATATGGATCGACACTTTATGGTGCACCCTGTTTTCCATTCATTCTGGAAA
5216805 AAAAA
389 AAAAA
5216810 TATCGACACAAAC-TATTAGTGTCGACACATT-TTTAGACATA-TCTCACATAAAACCGGTATAA
1 TATCGACACAAACATATTAGTGTCGACACATTATTTAGACATATTCTCACATAAAACCGGTATAA
5216872 TTGTACCGGTTAGATTGAAAAATTACATATTACATTATAC-TTTGGGTTCGATGA-TTT-GGATC
66 TTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGATC
5216934 GACACTTTT-TATATAGGATCGACACTTTATGGGTGCA-CCTG-TTTCCATTCATTCTGGAAATA
131 GACACTTTTATATAT-GGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAATA
5216996 AATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATA-T-TCAC-T-AAACCGGTA
195 AATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCACATAAAACCGGTA
5217057 TAATTGTACCGGTTAGATTGAAAAATTACATATTACATTTATACTTTTGGGTTCG-TGATTTTGG
260 TAATTGTACCGGTTAGATTGAAAAATTACATATTACA-TTATACTTTTGGGTTCGATGATTTTGG
5217121 GATCGACAC-TTT-T-TATGGATCGACACTTTATGGTGCACCCTGTTTTCCATTCATTCTGGAAA
324 GATCGACACTTTTATATATGGATCGACACTTTATGGTGCACCCTGTTTTCCATTCATTCTGG-AA
5217183 AAAAAA
388 AAAAAA
5217189 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCACATAAAACCGGTATA
1 TATCGACACAAAC-ATATTAGTGTCGACACATTATTTAGACATATTCTCACATAAAACCGGTATA
5217254 ATTGTACCGGTTAGATTGAAAAATTACAT
65 ATTGTACCGGTTAGATTGAAAAATTACAT
5217283 CCTTTTGGCC
Statistics
Matches: 1584, Mismatches: 11, Indels: 92
0.94 0.01 0.05
Matches are distributed among these distances:
378 46 0.03
379 22 0.01
380 3 0.00
381 82 0.05
382 28 0.02
383 73 0.05
384 69 0.04
385 45 0.03
386 170 0.11
387 237 0.15
388 319 0.20
389 244 0.15
390 141 0.09
391 105 0.07
ACGTcount: A:0.32, C:0.17, G:0.16, T:0.35
Consensus pattern (393 bp):
TATCGACACAAACATATTAGTGTCGACACATTATTTAGACATATTCTCACATAAAACCGGTATAA
TTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGATC
GACACTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAATAA
ATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCACATAAAACCGGTAT
AATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGA
TCGACACTTTTATATATGGATCGACACTTTATGGTGCACCCTGTTTTCCATTCATTCTGGAAAAA
AAA
Found at i:5217150 original size:15 final size:16
Alignment explanation
Indices: 5217120--5217153 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 16
5217110 CGTGATTTTG
5217120 GGATCGACACTTTTTAT
1 GGATCGACAC-TTTTAT
5217137 GGATCGACAC-TTTAT
1 GGATCGACACTTTTAT
5217152 GG
1 GG
5217154 TGCACCCTGT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 7 0.41
17 10 0.59
ACGTcount: A:0.24, C:0.18, G:0.24, T:0.35
Consensus pattern (16 bp):
GGATCGACACTTTTAT
Found at i:5217433 original size:19 final size:18
Alignment explanation
Indices: 5217402--5217446 Score: 63
Period size: 19 Copynumber: 2.4 Consensus size: 18
5217392 AATTATTCAC
5217402 ATACGAAAATATAAATCGT
1 ATAC-AAAATATAAATCGT
*
5217421 ATACAAAATTATAAATCTT
1 ATACAAAA-TATAAATCGT
5217440 ATACAAA
1 ATACAAA
5217447 TTAACCCTAC
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
18 4 0.17
19 20 0.83
ACGTcount: A:0.56, C:0.11, G:0.04, T:0.29
Consensus pattern (18 bp):
ATACAAAATATAAATCGT
Found at i:5218455 original size:108 final size:106
Alignment explanation
Indices: 5218254--5218467 Score: 378
Period size: 108 Copynumber: 2.0 Consensus size: 106
5218244 CTTCTCACAG
5218254 TCGGTGAATTTCACATAGTTATCCAATATGAACCCCAGAAGGTAGAAATACTCTCACACTTTCTT
1 TCGGTGAATTTCACATAGTTATCCAATATGAACCCCAGAAGGTAGAAATACTCTCACACTTTCTT
5218319 GTTGTGGCTTCCAACGCCTGTTGCTGTAATTACGC-ACAAA
66 GTTGTGGCTTCCAACGCCTGTTGCTGTAATTACGCAACAAA
5218359 TCGGTGAATTTCACATAGTTATCCAATATGACACCCCAGAAGGTAGAAATACTCTCAAACAC-TT
1 TCGGTGAATTTCACATAGTTATCCAATATGA-ACCCCAGAAGGTAGAAATACTCTC--ACACTTT
5218423 CTTGTTGTTGGCTTCCAACGCCTGTTGCTGTAATTACGCAACAAA
63 CTTGTTG-TGGCTTCCAACGCCTGTTGCTGTAATTACGCAACAAA
5218468 CATTATTAAT
Statistics
Matches: 104, Mismatches: 0, Indels: 6
0.95 0.00 0.05
Matches are distributed among these distances:
105 31 0.30
106 24 0.23
107 9 0.09
108 35 0.34
109 5 0.05
ACGTcount: A:0.29, C:0.24, G:0.17, T:0.30
Consensus pattern (106 bp):
TCGGTGAATTTCACATAGTTATCCAATATGAACCCCAGAAGGTAGAAATACTCTCACACTTTCTT
GTTGTGGCTTCCAACGCCTGTTGCTGTAATTACGCAACAAA
Found at i:5221657 original size:17 final size:18
Alignment explanation
Indices: 5221635--5221677 Score: 61
Period size: 20 Copynumber: 2.3 Consensus size: 18
5221625 ATATATCCGG
5221635 TATCATTT-TACCGGTTT
1 TATCATTTATACCGGTTT
5221652 TATCATTTTGATACCGGTTT
1 TATCA-TTT-ATACCGGTTT
5221672 TATCAT
1 TATCAT
5221678 ATTTTTACAT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
17 5 0.22
18 3 0.13
19 1 0.04
20 14 0.61
ACGTcount: A:0.21, C:0.16, G:0.12, T:0.51
Consensus pattern (18 bp):
TATCATTTATACCGGTTT
Found at i:5222325 original size:225 final size:223
Alignment explanation
Indices: 5221916--5222356 Score: 726
Period size: 225 Copynumber: 2.0 Consensus size: 223
5221906 TTATAACTGC
5221916 TTTTAAAGTTATGTAATTTATGTTTCAATTTATTTAATAGTGTTTCATGTTTTCCACCTACAATA
1 TTTTAAAGTTATGTAATTTATGTTTCAATTTATTTAATAGTGTTTCATGTTTTCCACCTACAATA
**
5221981 TTAATTTAATAATTTAATTTACCAAATTTTATTTGATTGTTTTGATATTTTATAAAATATTATTT
66 TTAATTTAATAATTTAATTTACCAAAAATTATTTGATTGTTTTGATATTTTATAAAATATTATTT
* * *
5222046 AGAATTTAAATTTAACAATATTAACCAAATATAATAAATATGTTTTCAACAGTGAAATAAGTATG
131 AGAATTTAAATTTAACAATATTAACCAAAGATAATAAAAATATTTTCAACAGTGAAATAAGTATG
*
5222111 GACACTTTTATAAAAATGATATATACTT
196 GACACTTTTATAAAAAGGATATATACTT
*
5222139 TTTTGAAAGTTATGTAATTTATGTTTCAATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAA
1 TTTT-AAAGTTATGTAATTTATGTTTCAA-TTTATTTAATAGTGTTTCATGTTTTCCACCTACAA
*
5222204 TATTAATTTAATAATTTCATTTACACAAAAAATTA-TTGATTG-TTTGATATTTTATAAAATATT
64 TATTAATTTAATAATTTAATTTAC-C-AAAAATTATTTGATTGTTTTGATATTTTATAAAATATT
* *
5222267 ATTTAGATTTTAAATTTAACAATATTAACTAAAGATAATAATAAATATTTTC-ACAGTGAAATAA
127 ATTTAGAATTTAAATTTAACAATATTAACCAAAGATAATAA-AAATATTTTCAACAGTGAAATAA
5222331 GTATGGACACTTTTATAAAAAGGATA
191 GTATGGACACTTTTATAAAAAGGATA
5222357 GATAATTTAC
Statistics
Matches: 203, Mismatches: 10, Indels: 8
0.92 0.05 0.04
Matches are distributed among these distances:
223 4 0.02
224 24 0.12
225 153 0.75
226 16 0.08
227 6 0.03
ACGTcount: A:0.39, C:0.07, G:0.08, T:0.45
Consensus pattern (223 bp):
TTTTAAAGTTATGTAATTTATGTTTCAATTTATTTAATAGTGTTTCATGTTTTCCACCTACAATA
TTAATTTAATAATTTAATTTACCAAAAATTATTTGATTGTTTTGATATTTTATAAAATATTATTT
AGAATTTAAATTTAACAATATTAACCAAAGATAATAAAAATATTTTCAACAGTGAAATAAGTATG
GACACTTTTATAAAAAGGATATATACTT
Found at i:5223232 original size:14 final size:14
Alignment explanation
Indices: 5223202--5223231 Score: 51
Period size: 15 Copynumber: 2.1 Consensus size: 14
5223192 TACATAAAAC
5223202 TTATTATAATATTT
1 TTATTATAATATTT
5223216 TTATATATAATATTT
1 TTAT-TATAATATTT
5223231 T
1 T
5223232 ACATTTCTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 4 0.27
15 11 0.73
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (14 bp):
TTATTATAATATTT
Found at i:5223242 original size:26 final size:26
Alignment explanation
Indices: 5223228--5223339 Score: 179
Period size: 26 Copynumber: 4.2 Consensus size: 26
5223218 ATATATAATA
5223228 TTTTACATTTCTTTTAATAGACAATC
1 TTTTACATTTCTTTTAATAGACAATC
5223254 TTTTACATTTCTTTTAATAGACAATC
1 TTTTACATTTCTTTTAATAGACAATC
5223280 TTTTACATTTCTTTTAATAGACAATC
1 TTTTACATTTCTTTTAATAGACAATC
* *
5223306 TTTTATATATAATTTTTTAATAGACAATC
1 TTTTACAT-T--TCTTTTAATAGACAATC
5223335 TTTTA
1 TTTTA
5223340 ATAGACAATG
Statistics
Matches: 81, Mismatches: 2, Indels: 3
0.94 0.02 0.03
Matches are distributed among these distances:
26 59 0.73
27 1 0.01
29 21 0.26
ACGTcount: A:0.32, C:0.12, G:0.04, T:0.52
Consensus pattern (26 bp):
TTTTACATTTCTTTTAATAGACAATC
Found at i:5223257 original size:15 final size:15
Alignment explanation
Indices: 5223237--5223348 Score: 75
Period size: 15 Copynumber: 8.1 Consensus size: 15
5223227 ATTTTACATT
5223237 TCTTTTAATAGACAA
1 TCTTTTAATAGACAA
*
5223252 TC-TTT--T--ACAT
1 TCTTTTAATAGACAA
5223262 TTCTTTTAATAGACAA
1 T-CTTTTAATAGACAA
**
5223278 TCTTTTACAT-TTC--
1 TCTTTTA-ATAGACAA
5223291 T-TTT-AATAGACAA
1 TCTTTTAATAGACAA
* *
5223304 TCTTTT-ATATATAA
1 TCTTTTAATAGACAA
*
5223318 TTTTTTAATAGACAA
1 TCTTTTAATAGACAA
5223333 TCTTTTAATAGACAA
1 TCTTTTAATAGACAA
5223348 T
1 T
5223349 GAGTAAATAA
Statistics
Matches: 72, Mismatches: 12, Indels: 26
0.65 0.11 0.24
Matches are distributed among these distances:
10 6 0.08
11 3 0.04
12 7 0.10
13 2 0.03
14 18 0.25
15 30 0.42
16 6 0.08
ACGTcount: A:0.35, C:0.12, G:0.04, T:0.48
Consensus pattern (15 bp):
TCTTTTAATAGACAA
Found at i:5227863 original size:16 final size:15
Alignment explanation
Indices: 5227838--5227867 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
5227828 ATTAAAATTA
5227838 GTTAAATATGATTCT
1 GTTAAATATGATTCT
5227853 GTTACAATATGATTC
1 GTTA-AATATGATTC
5227868 AAAGCCAATT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.33, C:0.10, G:0.13, T:0.43
Consensus pattern (15 bp):
GTTAAATATGATTCT
Found at i:5237212 original size:43 final size:43
Alignment explanation
Indices: 5237144--5237228 Score: 125
Period size: 43 Copynumber: 2.0 Consensus size: 43
5237134 GCCAACTTGG
* *
5237144 CTCAACCACATGTATATGATGCCTTGGATAGTTCTGATAGTGA
1 CTCAACCACATGTATACGATACCTTGGATAGTTCTGATAGTGA
* * *
5237187 CTCAACCATATGTATCCGATACCTTGGATAGTTTTGATAGTG
1 CTCAACCACATGTATACGATACCTTGGATAGTTCTGATAGTG
5237229 TTGAGGAGGT
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
43 37 1.00
ACGTcount: A:0.27, C:0.19, G:0.20, T:0.34
Consensus pattern (43 bp):
CTCAACCACATGTATACGATACCTTGGATAGTTCTGATAGTGA
Found at i:5245482 original size:28 final size:28
Alignment explanation
Indices: 5245446--5245503 Score: 116
Period size: 28 Copynumber: 2.1 Consensus size: 28
5245436 TTTACTCCGT
5245446 TTCGTGCCTTGATTTATTATTCTTTTTC
1 TTCGTGCCTTGATTTATTATTCTTTTTC
5245474 TTCGTGCCTTGATTTATTATTCTTTTTC
1 TTCGTGCCTTGATTTATTATTCTTTTTC
5245502 TT
1 TT
5245504 ATTATAATTA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.10, C:0.17, G:0.10, T:0.62
Consensus pattern (28 bp):
TTCGTGCCTTGATTTATTATTCTTTTTC
Found at i:5247684 original size:17 final size:17
Alignment explanation
Indices: 5247662--5247700 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
5247652 ATTCTTTTTA
*
5247662 ATATATTTA-ATATATTT
1 ATATATATATATATA-TT
5247679 ATATATATATATATATT
1 ATATATATATATATATT
5247696 ATATA
1 ATATA
5247701 GTTTGCAAAC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 15 0.75
18 5 0.25
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATATATATATATATATT
Found at i:5247846 original size:35 final size:36
Alignment explanation
Indices: 5247724--5248068 Score: 308
Period size: 36 Copynumber: 9.7 Consensus size: 36
5247714 TTTTGAAAAC
* *
5247724 ATGTATA-ATATATATAGTTTTCAAAAACATTTTGGAA
1 ATGTATATA-ATATATAGTTTT-TAAAACATTTTAGAA
* *
5247761 ATGTATATAATATATAGTTTTTAAAATATTTTTGAA
1 ATGTATATAATATATAGTTTTTAAAACATTTTAGAA
* * *
5247797 ATCTATATAGTATATAATTTTTAAAACATTTTAGAA
1 ATGTATATAATATATAGTTTTTAAAACATTTTAGAA
*
5247833 A-GTATATAATATATAGTTTTTAAAATCATTTTAAAA
1 ATGTATATAATATATAGTTTTTAAAA-CATTTTAGAA
* * * *
5247869 ATTTATATAATATATGGTTTTGAAAACATTTTTGAAA
1 ATGTATATAATATATAGTTTTTAAAACATTTTAG-AA
* **
5247906 ACGTTTATATGTTATATAGTTTTTAAAAACATTTT-GAAA
1 A--TGTATATAATATATAGTTTTT-AAAACATTTTAG-AA
* *
5247945 ATATATATAATATATAGTTTTTAAAACATTTTTGAAA
1 ATGTATATAATATATAGTTTTTAAAACATTTTAG-AA
5247982 AT-T-T-T-ATATATAGTTTTTAAAAAACATTTTA-AA
1 ATGTATATAATATATAGTTTTT--AAAACATTTTAGAA
*
5248015 A--TATATAATAT-TAGTTTTTAAAATATTTT-GAA
1 ATGTATATAATATATAGTTTTTAAAACATTTTAGAA
5248047 A---ATAT-ATATCATAGTTTTTAAA
1 ATGTATATAATAT-ATAGTTTTTAAA
5248069 TGCTTTTGAA
Statistics
Matches: 266, Mismatches: 26, Indels: 37
0.81 0.08 0.11
Matches are distributed among these distances:
30 4 0.02
31 4 0.02
32 24 0.09
33 17 0.06
34 10 0.04
35 36 0.14
36 71 0.27
37 67 0.25
38 1 0.00
39 22 0.08
40 10 0.04
ACGTcount: A:0.43, C:0.03, G:0.07, T:0.46
Consensus pattern (36 bp):
ATGTATATAATATATAGTTTTTAAAACATTTTAGAA
Found at i:5248096 original size:66 final size:65
Alignment explanation
Indices: 5247918--5248122 Score: 229
Period size: 66 Copynumber: 3.1 Consensus size: 65
5247908 GTTTATATGT
*
5247918 TATATAGTTTTTAAAAACATTTTGAAAATATATATAATATATAGTTTTTAAAACATTTTTGAAAA
1 TATATAGTTTTTAAAAACATTTTGAAAATAT-TAT-A-ATATAGTTTTTAAAATA-TTTTGAAAA
*
5247983 TTTTA
62 -TATA
5247988 TATATAGTTTTTAAAAAACATTTT-AAAATA-TATAATATTAGTTTTTAAAATATTTTGAAAATA
1 TATATAGTTTTT-AAAAACATTTTGAAAATATTATAATA-TAGTTTTTAAAATATTTTGAAAATA
5248051 TA
64 TA
** * * * *
5248053 TATCATAGTTTTTAAATGC-TTTTGAAAATATGTATAATATAGTTTCTAAAATGTTTAG-AAATT
1 TAT-ATAGTTTTTAAAAACATTTTGAAAATAT-TATAATATAGTTTTTAAAATATTTTGAAAATA
5248116 TA
64 TA
5248118 TATAT
1 TATAT
5248123 TACATATTTT
Statistics
Matches: 121, Mismatches: 8, Indels: 18
0.82 0.05 0.12
Matches are distributed among these distances:
64 6 0.05
65 25 0.21
66 37 0.31
67 21 0.17
68 3 0.02
70 18 0.15
71 11 0.09
ACGTcount: A:0.43, C:0.03, G:0.07, T:0.47
Consensus pattern (65 bp):
TATATAGTTTTTAAAAACATTTTGAAAATATTATAATATAGTTTTTAAAATATTTTGAAAATATA
Found at i:5248171 original size:28 final size:28
Alignment explanation
Indices: 5248140--5248203 Score: 67
Period size: 28 Copynumber: 2.3 Consensus size: 28
5248130 TTTTTGAAAA
5248140 TATTTATATATATAATTA-TTATTATGAT
1 TATTTATATATAT-ATTATTTATTATGAT
* * * * *
5248168 TATTTTTATTTATTTTATTTCTTATTAT
1 TATTTATATATATATTATTTATTATGAT
5248196 TATTTATA
1 TATTTATA
5248204 CTTTTTGTCA
Statistics
Matches: 29, Mismatches: 6, Indels: 2
0.78 0.16 0.05
Matches are distributed among these distances:
27 3 0.10
28 26 0.90
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.66
Consensus pattern (28 bp):
TATTTATATATATATTATTTATTATGAT
Found at i:5250303 original size:15 final size:15
Alignment explanation
Indices: 5250285--5250359 Score: 59
Period size: 15 Copynumber: 5.3 Consensus size: 15
5250275 TGAAACGATT
5250285 CAATCTAACTATATA
1 CAATCTAACTATATA
* * *
5250300 CAAT-TCA-TGTATT
1 CAATCTAACTATATA
5250313 CAATCTAACTATATA
1 CAATCTAACTATATA
* * *
5250328 CAAT-TCA-TGTATT
1 CAATCTAACTATATA
*
5250341 CAATCTAACCATATA
1 CAATCTAACTATATA
5250356 CAAT
1 CAAT
5250360 TCATGTATAC
Statistics
Matches: 43, Mismatches: 13, Indels: 8
0.67 0.20 0.12
Matches are distributed among these distances:
13 16 0.37
14 8 0.19
15 19 0.44
ACGTcount: A:0.41, C:0.20, G:0.03, T:0.36
Consensus pattern (15 bp):
CAATCTAACTATATA
Found at i:5250322 original size:28 final size:28
Alignment explanation
Indices: 5250282--5250367 Score: 163
Period size: 28 Copynumber: 3.1 Consensus size: 28
5250272 AACTGAAACG
5250282 ATTCAATCTAACTATATACAATTCATGT
1 ATTCAATCTAACTATATACAATTCATGT
5250310 ATTCAATCTAACTATATACAATTCATGT
1 ATTCAATCTAACTATATACAATTCATGT
*
5250338 ATTCAATCTAACCATATACAATTCATGT
1 ATTCAATCTAACTATATACAATTCATGT
5250366 AT
1 AT
5250368 ACTTAGGTAA
Statistics
Matches: 57, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
28 57 1.00
ACGTcount: A:0.40, C:0.19, G:0.03, T:0.38
Consensus pattern (28 bp):
ATTCAATCTAACTATATACAATTCATGT
Found at i:5251044 original size:27 final size:26
Alignment explanation
Indices: 5250974--5251044 Score: 74
Period size: 27 Copynumber: 2.7 Consensus size: 26
5250964 ATTCTTATAA
* *
5250974 ATTT-AAACTATTCTAAATATATATT
1 ATTTAAAAATATTATAAATATATATT
*
5250999 ATTTAAAATTAATTATAAATATATATT
1 ATTTAAAAAT-ATTATAAATATATATT
5251026 AATATTAAAAATATT-TAAA
1 -AT-TTAAAAATATTATAAA
5251045 AAGGAAATAG
Statistics
Matches: 39, Mismatches: 3, Indels: 6
0.81 0.06 0.12
Matches are distributed among these distances:
25 4 0.10
26 4 0.10
27 19 0.49
28 5 0.13
29 7 0.18
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (26 bp):
ATTTAAAAATATTATAAATATATATT
Found at i:5251575 original size:14 final size:15
Alignment explanation
Indices: 5251542--5251583 Score: 54
Period size: 13 Copynumber: 3.0 Consensus size: 15
5251532 TTAGTGTTCA
5251542 TATATTAACAAAAA-
1 TATATTAACAAAAAT
5251556 -ATATTAA-AAAAAT
1 TATATTAACAAAAAT
*
5251569 TATATTAATAAAAAT
1 TATATTAACAAAAAT
5251584 ATAAAAATGA
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
12 5 0.20
13 7 0.28
14 7 0.28
15 6 0.24
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.33
Consensus pattern (15 bp):
TATATTAACAAAAAT
Found at i:5251586 original size:14 final size:13
Alignment explanation
Indices: 5251541--5251586 Score: 58
Period size: 14 Copynumber: 3.4 Consensus size: 13
5251531 TTTAGTGTTC
5251541 ATATATTAACAAAA
1 ATATATTAA-AAAA
5251555 A-ATATTAAAAAA
1 ATATATTAAAAAA
5251567 ATTATATTAATAAAA
1 A-TATATTAA-AAAA
5251582 ATATA
1 ATATA
5251587 AAAATGAAAC
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
12 5 0.17
13 7 0.24
14 12 0.41
15 5 0.17
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (13 bp):
ATATATTAAAAAA
Found at i:5256625 original size:25 final size:25
Alignment explanation
Indices: 5256597--5256644 Score: 87
Period size: 25 Copynumber: 1.9 Consensus size: 25
5256587 TATTTTCGAT
5256597 TCTTAAAATTTTATAAATTTATTTC
1 TCTTAAAATTTTATAAATTTATTTC
*
5256622 TCTTCAAATTTTATAAATTTATT
1 TCTTAAAATTTTATAAATTTATT
5256645 CTCCTAACAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.35, C:0.08, G:0.00, T:0.56
Consensus pattern (25 bp):
TCTTAAAATTTTATAAATTTATTTC
Found at i:5256691 original size:2 final size:2
Alignment explanation
Indices: 5256684--5256732 Score: 98
Period size: 2 Copynumber: 24.5 Consensus size: 2
5256674 TATTCTTTAT
5256684 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
5256726 TA TA TA T
1 TA TA TA T
5256733 CACATAACAG
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 47 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:5258215 original size:26 final size:25
Alignment explanation
Indices: 5258157--5258215 Score: 64
Period size: 26 Copynumber: 2.3 Consensus size: 25
5258147 ACGCTCAGCC
* * *
5258157 CTATTTTTAATAATTAATTTTTATT
1 CTATTTATAATAATTAATTATAATT
* *
5258182 ATAATTATAATATATTAATTATAATT
1 CTATTTATAATA-ATTAATTATAATT
5258208 CTATTTAT
1 CTATTTAT
5258216 TCAGCATGTT
Statistics
Matches: 26, Mismatches: 7, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
25 9 0.35
26 17 0.65
ACGTcount: A:0.39, C:0.03, G:0.00, T:0.58
Consensus pattern (25 bp):
CTATTTATAATAATTAATTATAATT
Found at i:5259082 original size:17 final size:18
Alignment explanation
Indices: 5259047--5259091 Score: 58
Period size: 17 Copynumber: 2.6 Consensus size: 18
5259037 TTTAAGAGGT
5259047 AAAA-ATAAATTATCAATA
1 AAAATATAAATTAT-AATA
5259065 AAAATATAAATTAT-ATA
1 AAAATATAAATTATAATA
*
5259082 AAAATTTAAA
1 AAAATATAAA
5259092 ATTTTGAAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
17 12 0.48
18 4 0.16
19 9 0.36
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (18 bp):
AAAATATAAATTATAATA
Found at i:5261612 original size:24 final size:23
Alignment explanation
Indices: 5261564--5261614 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 23
5261554 TATATATATT
*
5261564 TATT-TTTTTAATAATGATATGA
1 TATTATTTTTAATAATGATATAA
5261586 TATTATTTTATAATAATG-TATTAA
1 TATTATTTT-TAATAATGATA-TAA
5261610 TATTA
1 TATTA
5261615 ATATTACTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
22 4 0.16
23 6 0.24
24 15 0.60
ACGTcount: A:0.39, C:0.00, G:0.06, T:0.55
Consensus pattern (23 bp):
TATTATTTTTAATAATGATATAA
Found at i:5266915 original size:20 final size:20
Alignment explanation
Indices: 5266886--5266928 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
5266876 TGAAATTATT
*
5266886 ATAATATTTTAAAATTAATA
1 ATAATATTTTAAAATAAATA
* *
5266906 ATAATTTTTTATAATAAATA
1 ATAATATTTTAAAATAAATA
5266926 ATA
1 ATA
5266929 TTAATTAATA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (20 bp):
ATAATATTTTAAAATAAATA
Found at i:5266972 original size:22 final size:23
Alignment explanation
Indices: 5266915--5266959 Score: 67
Period size: 22 Copynumber: 2.0 Consensus size: 23
5266905 AATAATTTTT
*
5266915 TATAATAAAT-AATATTAATTAA
1 TATATTAAATAAATATTAATTAA
5266937 TATATTAAATAAATA-TAATTAA
1 TATATTAAATAAATATTAATTAA
5266959 T
1 T
5266960 CATTTTATAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 17 0.81
23 4 0.19
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (23 bp):
TATATTAAATAAATATTAATTAA
Found at i:5270430 original size:139 final size:138
Alignment explanation
Indices: 5270154--5270697 Score: 840
Period size: 139 Copynumber: 3.9 Consensus size: 138
5270144 CATGTTCTCA
* *
5270154 GGGGCGCGCCTTCCATTATTTTGTAAGAGAATATGTTATCATTGCCCTATTATGCCACTCATGT-
1 GGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTATTATGTCACTCATGTC
* * * *
5270218 CCCTCGTAGAACTATTCATGTCAGTACCTATTATTTCTGAGAGGACTTGACAAAGTGGTGAAAGC
66 CCCCCGAAGAACTATTCATGTCAGTACCTATTATTTCTGAGGGGACTTGGCAAAGTGGTGAAAGC
5270283 GCGTTCCC
131 GCGTTCCC
5270291 GAGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTATTATGTCACTCATGT
1 G-GGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTATTATGTCACTCATGT
5270356 CCCCCCGAAGAACTATTCATGTCAGTACCTATTATTTCTGAGGGGACTTGGCAAAGTGGTGAAAG
65 CCCCCCGAAGAACTATTCATGTCAGTACCTATTATTTCTGAGGGGACTTGGCAAAGTGGTGAAAG
*
5270421 TGCGTTCCC
130 CGCGTTCCC
* * * * *
5270430 GGGGGCACGCATTCTATTATTTTGTCATAGAATATGTTATCATTACCCTATTATGTCACTCATGT
1 -GGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTATTATGTCACTCATGT
* * *
5270495 CCCTCAG-AGAACTATTCATGTCAGTACCTATTATTTCTGAGGGGACTTGGCAAAGTGGTGAAGG
65 CCCCCCGAAGAACTATTCATGTCAGTACCTATTATTTCTGAGGGGACTTGGCAAAGTGGTGAAAG
5270559 CGCGTTCCC
130 CGCGTTCCC
* * * *
5270568 GGGGATGCGCCTTCCATTATTTTATCATAGAATATGTTATCACTGCCCTATTATGTCACTCATGT
1 GGGG-CGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTATTATGTCACTCATGT
* * * *
5270633 CCCCCTGAAGAACTATTTATGTCAGTACCTATTATTTCTAAGGGGACTTGGCAAAGTGGTAAAAG
65 CCCCCCGAAGAACTATTCATGTCAGTACCTATTATTTCTGAGGGGACTTGGCAAAGTGGTGAAAG
5270698 TGCGCCCTAT
Statistics
Matches: 373, Mismatches: 29, Indels: 8
0.91 0.07 0.02
Matches are distributed among these distances:
137 5 0.01
138 183 0.49
139 184 0.49
140 1 0.00
ACGTcount: A:0.24, C:0.22, G:0.21, T:0.33
Consensus pattern (138 bp):
GGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTATTATGTCACTCATGTC
CCCCCGAAGAACTATTCATGTCAGTACCTATTATTTCTGAGGGGACTTGGCAAAGTGGTGAAAGC
GCGTTCCC
Found at i:5270564 original size:138 final size:138
Alignment explanation
Indices: 5270154--5270697 Score: 847
Period size: 138 Copynumber: 3.9 Consensus size: 138
5270144 CATGTTCTCA
* *
5270154 GGGGCGCGCCTTCCATTATTTTGTAAGAGAATATGTTATCATTGCCCTATTATGCCACTCATGTC
1 GGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTATTATGTCACTCATGTC
* * * *
5270219 CCTCGTAGAACTATTCATGTCAGTACCTATTATTTCTGAGAGGACTTGACAAAGTGGTGAAAGCG
66 CCCCGAAGAACTATTCATGTCAGTACCTATTATTTCTGAGGGGACTTGGCAAAGTGGTGAAAGCG
5270284 CGTTCCCG
131 CGTTCCCG
*
5270292 AGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTATTATGTCACTCATGTC
1 GGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTATTATGTCACTCATGT-
*
5270357 CCCCCGAAGAACTATTCATGTCAGTACCTATTATTTCTGAGGGGACTTGGCAAAGTGGTGAAAGT
65 CCCCCGAAGAACTATTCATGTCAGTACCTATTATTTCTGAGGGGACTTGGCAAAGTGGTGAAAGC
5270422 GCGTTCCCG
130 GCGTTCCCG
* * * * *
5270431 GGGGCACGCATTCTATTATTTTGTCATAGAATATGTTATCATTACCCTATTATGTCACTCATGTC
1 GGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTATTATGTCACTCATGTC
* *
5270496 CCTC-AGAGAACTATTCATGTCAGTACCTATTATTTCTGAGGGGACTTGGCAAAGTGGTGAAGGC
66 CCCCGA-AGAACTATTCATGTCAGTACCTATTATTTCTGAGGGGACTTGGCAAAGTGGTGAAAGC
5270560 GCGTTCCCG
130 GCGTTCCCG
** * * *
5270569 GGGATGCGCCTTCCATTATTTTATCATAGAATATGTTATCACTGCCCTATTATGTCACTCATGTC
1 GGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTATTATGTCACTCATGTC
* * *
5270634 CCCCTGAAGAACTATTTATGTCAGTACCTATTATTTCTAAGGGGACTTGGCAAAGTGGTAAAAG
66 CCCC-GAAGAACTATTCATGTCAGTACCTATTATTTCTGAGGGGACTTGGCAAAGTGGTGAAAG
5270698 TGCGCCCTAT
Statistics
Matches: 372, Mismatches: 30, Indels: 7
0.91 0.07 0.02
Matches are distributed among these distances:
137 1 0.00
138 190 0.51
139 180 0.48
140 1 0.00
ACGTcount: A:0.24, C:0.22, G:0.21, T:0.33
Consensus pattern (138 bp):
GGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTATTATGTCACTCATGTC
CCCCGAAGAACTATTCATGTCAGTACCTATTATTTCTGAGGGGACTTGGCAAAGTGGTGAAAGCG
CGTTCCCG
Found at i:5270662 original size:277 final size:277
Alignment explanation
Indices: 5270154--5270701 Score: 902
Period size: 277 Copynumber: 2.0 Consensus size: 277
5270144 CATGTTCTCA
* * *
5270154 GGGGCGCGCCTTCCATTATTTTGTAAGAGAATATGTTATCATTGCCCTATTATGCCACTCATGTC
1 GGGGCACGCATTCCATTATTTTGTAAGAGAATATGTTATCATTACCCTATTATGCCACTCATGTC
5270219 CCTCGTAGAACTATTCATGTCAGTACCTATTATTTCTGAGAGGACTTGACAAAGTGGTGAAAGCG
66 CCTCGTAGAACTATTCATGTCAGTACCTATTATTTCTGAGAGGACTTGACAAAGTGGTGAAAGCG
* *
5270284 CGTTCCCGAGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTATTATGTCA
131 CGTTCCCGAGGGCGCGCCTTCCATTATTTTATCAGAGAATATGTTATCACTGCCCTATTATGTCA
*
5270349 CTCATGTCCCCCCGAAGAACTATTCATGTCAGTACCTATTATTTCTGAGGGGACTTGGCAAAGTG
196 CTCATGTCCCCCCGAAGAACTATTCATGTCAGTACCTATTATTTCTAAGGGGACTTGGCAAAGTG
*
5270414 GTGAAAGTGCGTTCCCG
261 GTAAAAGTGCGTTCCCG
* * * *
5270431 GGGGCACGCATTCTATTATTTTGTCATAGAATATGTTATCATTACCCTATTATGTCACTCATGTC
1 GGGGCACGCATTCCATTATTTTGTAAGAGAATATGTTATCATTACCCTATTATGCCACTCATGTC
* * *
5270496 CCTCAG-AGAACTATTCATGTCAGTACCTATTATTTCTGAGGGGACTTGGCAAAGTGGTGAAGGC
66 CCTC-GTAGAACTATTCATGTCAGTACCTATTATTTCTGAGAGGACTTGACAAAGTGGTGAAAGC
* *
5270560 GCGTTCCCG-GGGATGCGCCTTCCATTATTTTATCATAGAATATGTTATCACTGCCCTATTATGT
130 GCGTTCCCGAGGG-CGCGCCTTCCATTATTTTATCAGAGAATATGTTATCACTGCCCTATTATGT
* *
5270624 CACTCATGTCCCCCTGAAGAACTATTTATGTCAGTACCTATTATTTCTAAGGGGACTTGGCAAAG
194 CACTCATGTCCCCCCGAAGAACTATTCATGTCAGTACCTATTATTTCTAAGGGGACTTGGCAAAG
5270689 TGGTAAAAGTGCG
259 TGGTAAAAGTGCG
5270702 CCCTATTATT
Statistics
Matches: 251, Mismatches: 18, Indels: 4
0.92 0.07 0.01
Matches are distributed among these distances:
276 3 0.01
277 247 0.98
278 1 0.00
ACGTcount: A:0.24, C:0.22, G:0.21, T:0.33
Consensus pattern (277 bp):
GGGGCACGCATTCCATTATTTTGTAAGAGAATATGTTATCATTACCCTATTATGCCACTCATGTC
CCTCGTAGAACTATTCATGTCAGTACCTATTATTTCTGAGAGGACTTGACAAAGTGGTGAAAGCG
CGTTCCCGAGGGCGCGCCTTCCATTATTTTATCAGAGAATATGTTATCACTGCCCTATTATGTCA
CTCATGTCCCCCCGAAGAACTATTCATGTCAGTACCTATTATTTCTAAGGGGACTTGGCAAAGTG
GTAAAAGTGCGTTCCCG
Found at i:5270883 original size:23 final size:23
Alignment explanation
Indices: 5270857--5270919 Score: 99
Period size: 23 Copynumber: 2.7 Consensus size: 23
5270847 ATGTGATGTT
5270857 TGAATAAATTGGATAAAATATTA
1 TGAATAAATTGGATAAAATATTA
*
5270880 TGAATAAATTGGATAAAATGTTA
1 TGAATAAATTGGATAAAATATTA
* *
5270903 TGGATAAATTGAATAAA
1 TGAATAAATTGGATAAA
5270920 TGTGAAGTGA
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.16, T:0.33
Consensus pattern (23 bp):
TGAATAAATTGGATAAAATATTA
Found at i:5271271 original size:22 final size:22
Alignment explanation
Indices: 5271207--5271271 Score: 53
Period size: 22 Copynumber: 3.0 Consensus size: 22
5271197 ATTAAGTTTA
*
5271207 ATTTAATGTTAAATTTCGAATAC
1 ATTTAATGTTAAATTT-GAAAAC
* ** *
5271230 -TATAAT-TTGTATATTAAAAAC
1 ATTTAATGTTAAAT-TTGAAAAC
5271251 ATTTAATGTTAAATTTGAAAA
1 ATTTAATGTTAAATTTGAAAA
5271272 AAAAATAACA
Statistics
Matches: 30, Mismatches: 9, Indels: 7
0.65 0.20 0.15
Matches are distributed among these distances:
21 8 0.27
22 18 0.60
23 4 0.13
ACGTcount: A:0.45, C:0.05, G:0.08, T:0.43
Consensus pattern (22 bp):
ATTTAATGTTAAATTTGAAAAC
Found at i:5271696 original size:21 final size:21
Alignment explanation
Indices: 5271667--5271757 Score: 96
Period size: 21 Copynumber: 4.3 Consensus size: 21
5271657 CATATGGTGT
*
5271667 CATAAAACCCTGCGGGCTAGG
1 CATATAACCCTGCGGGCTAGG
5271688 CATATAA-CCTGGCGGGCTAGG
1 CATATAACCCT-GCGGGCTAGG
* *
5271709 AATATAACCCTGAGGGCTAGG
1 CATATAACCCTGCGGGCTAGG
* * *
5271730 AATGTAACCCTGCGGAGAT-GG
1 CATATAACCCTGCGG-GCTAGG
5271751 CATATAA
1 CATATAA
5271758 ACTGGTGGGC
Statistics
Matches: 59, Mismatches: 8, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
20 3 0.05
21 51 0.86
22 5 0.08
ACGTcount: A:0.31, C:0.22, G:0.29, T:0.19
Consensus pattern (21 bp):
CATATAACCCTGCGGGCTAGG
Found at i:5273583 original size:19 final size:19
Alignment explanation
Indices: 5273527--5273584 Score: 52
Period size: 17 Copynumber: 3.2 Consensus size: 19
5273517 AAAAAATAAT
*
5273527 TAAAATAAATAATAATTATA
1 TAAAA-AAATAATATTTATA
* *
5273547 T--AAATATTAT-TTTA-A
1 TAAAAAAATAATATTTATA
5273562 TAAAAAAATAATATTTATA
1 TAAAAAAATAATATTTATA
5273581 TAAA
1 TAAA
5273585 TATTATAATA
Statistics
Matches: 29, Mismatches: 5, Indels: 9
0.67 0.12 0.21
Matches are distributed among these distances:
15 2 0.07
16 3 0.10
17 12 0.41
18 6 0.21
19 5 0.17
20 1 0.03
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (19 bp):
TAAAAAAATAATATTTATA
Found at i:5273594 original size:31 final size:31
Alignment explanation
Indices: 5273522--5273626 Score: 104
Period size: 34 Copynumber: 3.2 Consensus size: 31
5273512 GAACAAAAAA
5273522 ATAATTAAAATAAATAATAATTATATAAATATT
1 ATAA-TAAAA-AAATAATAATTATATAAATATT
*
5273555 ATTTTAATAAAAAAATAATATTTATATAAATATT
1 A---TAATAAAAAAATAATAATTATATAAATATT
* * * *
5273589 ATAATAAAAAATATAACAACTATTTAAA-ATA
1 ATAATAAAAAA-ATAATAATTATATAAATATT
5273620 ATAATAA
1 ATAATAA
5273627 CTTAAACAAA
Statistics
Matches: 62, Mismatches: 6, Indels: 10
0.79 0.08 0.13
Matches are distributed among these distances:
31 19 0.31
32 12 0.19
33 1 0.02
34 22 0.35
35 5 0.08
36 3 0.05
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (31 bp):
ATAATAAAAAAATAATAATTATATAAATATT
Done.