Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008747.1 Hibiscus syriacus cultivar Beakdansim tig00111837_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: 12616935
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 28 of 51
Found at i:7336590 original size:2 final size:2
Alignment explanation
Indices: 7336583--7337489 Score: 151
Period size: 2 Copynumber: 462.0 Consensus size: 2
7336573 CAATTATAAT
*
7336583 TA TA TA TA TA TA TC 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
*
7336625 TA -A TA TA TA -A TA TA TA CTG TA TA T- TA -A CTA TA TA TA T- TA
1 TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA -TA TA TA TA TA TA
* * * *
7336664 TG TA TA AA CTA TA TA T- TT TA T- TA -A TA TA AA T- 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
* * * * *
7336703 -A AA TA TA CA T- TG TA TA GTT TA T- TA -A TA TA AA CTA TA TA T-
1 TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA -TA TA TA TA
* * *
7336742 TT TA TA TT TA TA TA T- TA TA TA TA TA CTA TA TA GTT TA TA T- TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA -TA TA TA TA TA
* * * * *
7336784 TA TA GTA TA TA TA TA AA CTT TG TA TA T- TA -A GTA TA AA CTA TG
1 TA TA -TA TA TA TA TA TA -TA TA TA TA TA TA TA -TA TA TA -TA TA
* * * *
7336826 TA TT TA TA TA AA CTA TA TA GTT TA T- TA -A TA TA AA T- 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
* * * * * *
7336867 GTT TA TA TA -A AA TA TA TA TGA -A TT TA TT TA AA TA TA TA CA -A
1 -TA TA TA TA TA TA TA TA TA T-A TA TA TA TA TA TA TA TA TA TA TA
* *
7336908 CT- TA TA T- TA TA T- TA TG TA TA T- TA TA AA T- TA TA TA T- TA
1 -TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* * * *
7336945 TA TG TA TA AA T- TA -A TA GTT TA T- TA -A TA TA AA T- 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
* * * * *
7336983 TA AA CTA AA T- TA TA TA TA CTA TT TA TA AA T- TA TA TA GTT TA
1 TA TA -TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA -TA TA
* * * *
7337024 -A TA TA -A AA TA TA TA TA AA CTA TA AA T- TA TA TA TA TA TA AA
1 TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA
* * * **
7337064 GTA TA -A T- TA CA AA GA CTA -A CG TA TA TA -A GTA TA TA -A TA
1 -TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA -TA TA TA TA TA
* * * *
7337102 TA AA GTA TA TA -A GTA TA TA AA GTA TA TA TA CA TA TA AA GTA TA
1 TA TA -TA TA TA TA -TA TA TA TA -TA TA TA TA TA TA TA TA -TA TA
* * * * * *
7337145 -A GTA TG TA TG TA TG TA TG TA TA TA TA TA TA TA TA TA AA GT- TT
1 TA -TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA
* * * * * *
7337187 TA GTA TA AA GTA TA CA TA CA TA TA TA AA AA TA TA AA GTA TA -A
1 TA -TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA
* * *
7337229 GTA TA T- TA TA TA TA TA TA TA AA CTA TA -A T- TA TA AA AA CTA
1 -TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA -TA
* * * * *
7337269 AA GTA TA TA -A CCA TA TA -A TA TA AA GTA TA TA TG TA TA TA AA
1 TA -TA TA TA TA -TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA
* * * * *
7337310 GTA TA TA TA CA TG TA AA GCA TA TG TA TA TA TA TA TA TA T- TA TA
1 -TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA
* *
7337353 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TG TA TG 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
* * * * *
7337395 AA CA -A TA -A GTA -A AA GTA TA TA TA TA TA TA -A TG T- TT TA GTA
1 TA TA TA TA TA -TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA -TA
* * *
7337435 TA AA GTA TA TA TA CA TA TA TA -A TA -A TA TA AA CTA TA -A GTA
1 TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA -TA
7337475 TA T- TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA
7337490 AAGTTGTAGA
Statistics
Matches: 641, Mismatches: 153, Indels: 222
0.63 0.15 0.22
Matches are distributed among these distances:
1 64 0.10
2 528 0.82
3 49 0.08
ACGTcount: A:0.48, C:0.03, G:0.05, T:0.43
Consensus pattern (2 bp):
TA
Found at i:7336730 original size:29 final size:29
Alignment explanation
Indices: 7336693--7336762 Score: 79
Period size: 29 Copynumber: 2.3 Consensus size: 29
7336683 ATTAATATAA
7336693 ATTATATATAAAATATACATTGTATAGTTT
1 ATTATATATAAAATATACATTGTATA-TTT
* * *
7336723 ATTA-ATATAAACTATATATTTTATATTT
1 ATTATATATAAAATATACATTGTATATTT
7336751 ATATATTATATA
1 AT-TA-TATATA
7336763 TATACTATAT
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
28 5 0.15
29 20 0.59
30 4 0.12
31 5 0.15
ACGTcount: A:0.44, C:0.03, G:0.03, T:0.50
Consensus pattern (29 bp):
ATTATATATAAAATATACATTGTATATTT
Found at i:7336747 original size:9 final size:8
Alignment explanation
Indices: 7336735--7336781 Score: 51
Period size: 9 Copynumber: 5.6 Consensus size: 8
7336725 TAATATAAAC
7336735 TATATATT
1 TATATATT
7336743 T-TATATT
1 TATATATT
7336750 TATATATT
1 TATATATT
*
7336758 ATATATATAC
1 -TATATAT-T
7336768 TATATAGTT
1 TATATA-TT
7336777 TATAT
1 TATAT
7336782 TATATAGTAT
Statistics
Matches: 33, Mismatches: 2, Indels: 7
0.79 0.05 0.17
Matches are distributed among these distances:
7 7 0.21
8 7 0.21
9 18 0.55
10 1 0.03
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.57
Consensus pattern (8 bp):
TATATATT
Found at i:7336820 original size:20 final size:17
Alignment explanation
Indices: 7336722--7336841 Score: 68
Period size: 17 Copynumber: 6.9 Consensus size: 17
7336712 TTGTATAGTT
* *
7336722 TATTAATATAAACTATA
1 TATTTATATAAACTATG
** *
7336739 TATTT-TAT-ATTTATA
1 TATTTATATAAACTATG
* *
7336754 TATTATATATATACTATA
1 TATT-TATATAAACTATG
*
7336772 TAGTTTATAT-TA-TATAG
1 TA-TTTATATAAACTAT-G
* *
7336789 TATATATATAAACTTTG
1 TATTTATATAAACTATG
7336806 TATATTAAGTATAAACTATG
1 TAT-TT-A-TATAAACTATG
7336826 TATTTATATAAACTAT
1 TATTTATATAAACTAT
7336842 ATAGTTTATT
Statistics
Matches: 81, Mismatches: 12, Indels: 20
0.72 0.11 0.18
Matches are distributed among these distances:
15 9 0.11
16 13 0.16
17 26 0.32
18 15 0.19
19 5 0.06
20 13 0.16
ACGTcount: A:0.42, C:0.04, G:0.04, T:0.49
Consensus pattern (17 bp):
TATTTATATAAACTATG
Found at i:7337027 original size:55 final size:56
Alignment explanation
Indices: 7336930--7337060 Score: 178
Period size: 57 Copynumber: 2.3 Consensus size: 56
7336920 TATGTATATT
*
7336930 ATAAATTATATATTATATGTATAAATTAATAGTTTATTAATATAAATTATATATAAAC
1 ATAAATTATATA-TATATGTATAAATTAATAG-TTATTAATATAAAATATATATAAAC
*
7336988 -TAAATTATATATACTATTTATAAATTATATAG-T-TTAATATAAAATATATATAAAC
1 ATAAATTATATATA-TATGTATAAATTA-ATAGTTATTAATATAAAATATATATAAAC
7337043 TATAAATTATATATATAT
1 -ATAAATTATATATATAT
7337061 AAAGTATAAT
Statistics
Matches: 67, Mismatches: 2, Indels: 10
0.85 0.03 0.13
Matches are distributed among these distances:
55 21 0.31
56 6 0.09
57 36 0.54
58 4 0.06
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.45
Consensus pattern (56 bp):
ATAAATTATATATATATGTATAAATTAATAGTTATTAATATAAAATATATATAAAC
Found at i:7338399 original size:32 final size:32
Alignment explanation
Indices: 7338361--7338425 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
7338351 ATATAAAGGG
7338361 GGAGGGGATTTTTTGATTCAAATGAAAACAAA
1 GGAGGGGATTTTTTGATTCAAATGAAAACAAA
7338393 GGAGGGGATTTTTTGATTCAAATGAAAACAAA
1 GGAGGGGATTTTTTGATTCAAATGAAAACAAA
7338425 G
1 G
7338426 AATTTTTTAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.40, C:0.06, G:0.26, T:0.28
Consensus pattern (32 bp):
GGAGGGGATTTTTTGATTCAAATGAAAACAAA
Found at i:7338795 original size:22 final size:23
Alignment explanation
Indices: 7338767--7338810 Score: 63
Period size: 24 Copynumber: 1.9 Consensus size: 23
7338757 TACCATATTT
7338767 TATTTTA-ACTATATACTTTTAA
1 TATTTTATACTATATACTTTTAA
*
7338789 TATTTTATTACTATGTACTTTT
1 TATTTTA-TACTATATACTTTT
7338811 TGCTTGCCAC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 7 0.37
24 12 0.63
ACGTcount: A:0.30, C:0.09, G:0.02, T:0.59
Consensus pattern (23 bp):
TATTTTATACTATATACTTTTAA
Found at i:7341648 original size:120 final size:119
Alignment explanation
Indices: 7341428--7341667 Score: 471
Period size: 120 Copynumber: 2.0 Consensus size: 119
7341418 TCACGGTGAC
7341428 AGCTATAAGAAGATGATCAAAGAAGCAGCCGATTCATGGAGGAAAGTATTCGGATGGATGTTGTA
1 AGCTATAAGAAGATGATCAAAGAAGCAGCCGATTCATGGAGGAAAGTATTCGGATGGATGTTGTA
7341493 GCTGCCAGAAGCATGCTTACTCCTGATTATGTGGAGTGGCGAAGGTTGAGGAAA
66 GCTGCCAGAAGCATGCTTACTCCTGATTATGTGGAGTGGCGAAGGTTGAGGAAA
7341547 AGCTATAAGAAGATGATCAAAGAAGCAGCCGATTCATGGAGGAAAGTATTCCGGATGGATGTTGT
1 AGCTATAAGAAGATGATCAAAGAAGCAGCCGATTCATGGAGGAAAGTATT-CGGATGGATGTTGT
7341612 AGCTGCCAGAAGCATGCTTACTCCTGATTATGTGGAGTGGCGAAGGTTGAGGAAA
65 AGCTGCCAGAAGCATGCTTACTCCTGATTATGTGGAGTGGCGAAGGTTGAGGAAA
7341667 A
1 A
7341668 ATGACAATAT
Statistics
Matches: 120, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
119 50 0.42
120 70 0.58
ACGTcount: A:0.32, C:0.14, G:0.31, T:0.23
Consensus pattern (119 bp):
AGCTATAAGAAGATGATCAAAGAAGCAGCCGATTCATGGAGGAAAGTATTCGGATGGATGTTGTA
GCTGCCAGAAGCATGCTTACTCCTGATTATGTGGAGTGGCGAAGGTTGAGGAAA
Found at i:7349538 original size:21 final size:20
Alignment explanation
Indices: 7349513--7349562 Score: 59
Period size: 21 Copynumber: 2.5 Consensus size: 20
7349503 TCCTAAGTCG
*
7349513 AAAAG-ACAGAAAATAAAGAGA
1 AAAAGAACA-AAAAGAAA-AGA
7349534 AAAAGAACAAAAAGAAAAGA
1 AAAAGAACAAAAAGAAAAGA
7349554 AAAA-AACAA
1 AAAAGAACAA
7349563 GGTGGGTTCA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
19 5 0.19
20 7 0.26
21 12 0.44
22 3 0.11
ACGTcount: A:0.78, C:0.06, G:0.14, T:0.02
Consensus pattern (20 bp):
AAAAGAACAAAAAGAAAAGA
Found at i:7350874 original size:64 final size:64
Alignment explanation
Indices: 7350769--7351074 Score: 438
Period size: 64 Copynumber: 4.8 Consensus size: 64
7350759 ATTGGACTCA
* *
7350769 AGACAACACAAGTTCAACTTCACAACGAAGGGGCCGTTGGTTGTCAACAAAGTTTCCCAATTTC
1 AGACAACACAAGTTCAACTTCACAACGAAGGGGCCGCTGGTTGTCAACAAAGTTTCCCAGTTTC
* * * *
7350833 AGACAACACAAGTTCAACTTCACGACGAAGGGGCTGCTGGTTTTCAACAAAGTTTCCCTGTTTC
1 AGACAACACAAGTTCAACTTCACAACGAAGGGGCCGCTGGTTGTCAACAAAGTTTCCCAGTTTC
* * * *
7350897 AGACAACACAAGTTCAACTTCACGATGAAGGGGCCGCTGGTTGTCAACAAAATTTTTCCCAGTAT
1 AGACAACACAAGTTCAACTTCACAACGAAGGGGCCGCTGGTTGTCAAC-AAA-GTTTCCCAGTTT
7350962 C
64 C
* * *
7350963 AGAC-A-AC-AGTTCAATTTCACAACGAAGGGGCCGCTGGTTGTCAACAAAATTTCCCAGTTTA
1 AGACAACACAAGTTCAACTTCACAACGAAGGGGCCGCTGGTTGTCAACAAAGTTTCCCAGTTTC
* *
7351024 AGACAGCACAAGTTCAACTTCACAACGAAGGGGCCGCTGGCTGTCAACAAA
1 AGACAACACAAGTTCAACTTCACAACGAAGGGGCCGCTGGTTGTCAACAAA
7351075 CAACTTCCTA
Statistics
Matches: 216, Mismatches: 21, Indels: 10
0.87 0.09 0.04
Matches are distributed among these distances:
61 14 0.06
62 3 0.01
63 37 0.17
64 144 0.67
65 4 0.02
66 14 0.06
ACGTcount: A:0.32, C:0.25, G:0.20, T:0.23
Consensus pattern (64 bp):
AGACAACACAAGTTCAACTTCACAACGAAGGGGCCGCTGGTTGTCAACAAAGTTTCCCAGTTTC
Found at i:7351028 original size:127 final size:129
Alignment explanation
Indices: 7350768--7351074 Score: 442
Period size: 127 Copynumber: 2.4 Consensus size: 129
7350758 TATTGGACTC
* *
7350768 AAGACAACACAAGTTCAACTTCACAACGAAGGGGCCGTTGGTTGTCAAC-AAAGTTTCCCAATTT
1 AAGACAACACAAGTTCAACTTCACAACGAAGGGGCCGCTGGTTGTCAACAAAAGTTTCCCAATAT
* * * * *
7350832 CAGACAACACAAGTTCAACTTCACGACGAAGGGGCTGCTGGTTTTCAACAAAGTTTCCCTGTTT
66 CAGACAACACAAGTTCAACTTCACAACGAAGGGGCCGCTGGTTGTCAACAAAATTTCCCAGTTT
* * * * *
7350896 CAGACAACACAAGTTCAACTTCACGATGAAGGGGCCGCTGGTTGTCAACAAAATTTTTCCCAGTA
1 AAGACAACACAAGTTCAACTTCACAACGAAGGGGCCGCTGGTTGTCAACAAAA-GTTTCCCAATA
*
7350961 TCAGAC-A-AC-AGTTCAATTTCACAACGAAGGGGCCGCTGGTTGTCAACAAAATTTCCCAGTTT
65 TCAGACAACACAAGTTCAACTTCACAACGAAGGGGCCGCTGGTTGTCAACAAAATTTCCCAGTTT
* *
7351023 AAGACAGCACAAGTTCAACTTCACAACGAAGGGGCCGCTGGCTGTCAACAAA
1 AAGACAACACAAGTTCAACTTCACAACGAAGGGGCCGCTGGTTGTCAACAAA
7351075 CAACTTCCTA
Statistics
Matches: 159, Mismatches: 18, Indels: 5
0.87 0.10 0.03
Matches are distributed among these distances:
127 94 0.59
128 47 0.30
129 4 0.03
130 14 0.09
ACGTcount: A:0.32, C:0.25, G:0.20, T:0.23
Consensus pattern (129 bp):
AAGACAACACAAGTTCAACTTCACAACGAAGGGGCCGCTGGTTGTCAACAAAAGTTTCCCAATAT
CAGACAACACAAGTTCAACTTCACAACGAAGGGGCCGCTGGTTGTCAACAAAATTTCCCAGTTT
Found at i:7351092 original size:127 final size:129
Alignment explanation
Indices: 7350768--7351117 Score: 435
Period size: 127 Copynumber: 2.8 Consensus size: 129
7350758 TATTGGACTC
* * *
7350768 AAGACAACACAAGTTCAACTTCACAACGAAGGGGCCGTTGGTTGTCAAC-AAAGTTTCCCAATTT
1 AAGACAACACAAGTTCAACTTCACAACGAAGGGGCCGCTGGTTGTCAACAAAAATTTCCCAATAT
* * * * *
7350832 CAGACAACACAAGTTCAACTTCACGACGAAGGGGCTGCTGGTTTTCAACAAAGTTTCCCTGTTT
66 CAGACAACACAAGTTCAACTTCACAACGAAGGGGCCGCTGGTTGTCAACAAAATTTCCCAGTTT
* * * * *
7350896 CAGACAACACAAGTTCAACTTCACGATGAAGGGGCCGCTGGTTGTCAACAAAATTTTTCCCAGTA
1 AAGACAACACAAGTTCAACTTCACAACGAAGGGGCCGCTGGTTGTCAACAAAA-ATTTCCCAATA
*
7350961 TCAGAC-A-AC-AGTTCAATTTCACAACGAAGGGGCCGCTGGTTGTCAACAAAATTTCCCAGTTT
65 TCAGACAACACAAGTTCAACTTCACAACGAAGGGGCCGCTGGTTGTCAACAAAATTTCCCAGTTT
* * * * *
7351023 AAGACAGCACAAGTTCAACTTCACAACGAAGGGGCCGCTGGCTGTCAACAAACAACTTCCTAATG
1 AAGACAACACAAGTTCAACTTCACAACGAAGGGGCCGCTGGTTGTCAACAAA-AATTTCCCAATA
* * *
7351088 TCAG--AGC-CAATTTCAACTTCACAGCGAAGG
65 TCAGACAACACAAGTTCAACTTCACAACGAAGG
7351118 ATATTGGACT
Statistics
Matches: 189, Mismatches: 27, Indels: 13
0.83 0.12 0.06
Matches are distributed among these distances:
126 1 0.01
127 122 0.65
128 48 0.25
129 4 0.02
130 14 0.07
ACGTcount: A:0.32, C:0.25, G:0.20, T:0.23
Consensus pattern (129 bp):
AAGACAACACAAGTTCAACTTCACAACGAAGGGGCCGCTGGTTGTCAACAAAAATTTCCCAATAT
CAGACAACACAAGTTCAACTTCACAACGAAGGGGCCGCTGGTTGTCAACAAAATTTCCCAGTTT
Found at i:7352581 original size:10 final size:10
Alignment explanation
Indices: 7352566--7352593 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
7352556 GTTTTTGATT
7352566 CAAATGAAAA
1 CAAATGAAAA
7352576 CAAATGAAAA
1 CAAATGAAAA
7352586 CAAATGAA
1 CAAATGAA
7352594 TTTTTTAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.68, C:0.11, G:0.11, T:0.11
Consensus pattern (10 bp):
CAAATGAAAA
Found at i:7353362 original size:35 final size:36
Alignment explanation
Indices: 7353304--7353371 Score: 104
Period size: 35 Copynumber: 1.9 Consensus size: 36
7353294 TTTCGGTGGG
*
7353304 GTGATGGGGGATAGGTTTCCTTTTT-TTAATATTGAA
1 GTGATGGGGGATAGGTTTACTTTTTCTT-ATATTGAA
7353340 GTGATGGGGG-TAGGTTTACTTTTTCTTATATT
1 GTGATGGGGGATAGGTTTACTTTTTCTTATATT
7353372 TATTATGTAT
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
35 18 0.60
36 12 0.40
ACGTcount: A:0.19, C:0.06, G:0.28, T:0.47
Consensus pattern (36 bp):
GTGATGGGGGATAGGTTTACTTTTTCTTATATTGAA
Found at i:7353508 original size:4 final size:4
Alignment explanation
Indices: 7353494--7353528 Score: 52
Period size: 4 Copynumber: 8.8 Consensus size: 4
7353484 TTATCTAATC
* *
7353494 TTAT CTAT TTAT TTAT TTAT TTAA TTAT TTAT TTA
1 TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTA
7353529 GTTTTCTTTC
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
4 27 1.00
ACGTcount: A:0.29, C:0.03, G:0.00, T:0.69
Consensus pattern (4 bp):
TTAT
Found at i:7353962 original size:22 final size:22
Alignment explanation
Indices: 7353937--7353991 Score: 85
Period size: 22 Copynumber: 2.5 Consensus size: 22
7353927 ATAAATAAAG
7353937 TAAAGTATATAAGTATAT-AATA
1 TAAAGTATATAAGTAT-TGAATA
*
7353959 TAAAATATATAAGTATTGAATA
1 TAAAGTATATAAGTATTGAATA
7353981 TAAAGTATATA
1 TAAAGTATATA
7353992 TATATACACG
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
21 1 0.03
22 29 0.97
ACGTcount: A:0.55, C:0.00, G:0.09, T:0.36
Consensus pattern (22 bp):
TAAAGTATATAAGTATTGAATA
Found at i:7354045 original size:62 final size:62
Alignment explanation
Indices: 7353941--7354061 Score: 149
Period size: 62 Copynumber: 2.0 Consensus size: 62
7353931 ATAAAGTAAA
*
7353941 GTATATAAGTATATAATATAAAATATATAAGTATTGAATATAAAGTATATATATATACACGT
1 GTATATAAGTATATAATATAAAATATATAAGTATTGAATATAAAGTATATATACATACACGT
* * * *
7354003 GTATAATAA-TATAT-ATATATATATATATAATGT-TTTAGTATAAATTATATATACATACA
1 GTAT-ATAAGTATATAATATA-AAATATATAA-GTATTGAATATAAAGTATATATACATACA
7354062 TAATAATATA
Statistics
Matches: 51, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
61 5 0.10
62 40 0.78
63 6 0.12
ACGTcount: A:0.49, C:0.03, G:0.07, T:0.40
Consensus pattern (62 bp):
GTATATAAGTATATAATATAAAATATATAAGTATTGAATATAAAGTATATATACATACACGT
Found at i:7355974 original size:2 final size:2
Alignment explanation
Indices: 7355967--7356006 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
7355957 AGTCCCATGA
7355967 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
7356007 GCATGTTTCA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:7358002 original size:9 final size:9
Alignment explanation
Indices: 7357988--7358043 Score: 51
Period size: 9 Copynumber: 6.2 Consensus size: 9
7357978 TAAACACTTA
7357988 ATTTTTTTT
1 ATTTTTTTT
7357997 ATTTTTTATT
1 ATTTTTT-TT
**
7358007 ATTTAATTT
1 ATTTTTTTT
*
7358016 ATTTTTCTT
1 ATTTTTTTT
*
7358025 A-TTATTTT
1 ATTTTTTTT
*
7358033 ATTTTATTT
1 ATTTTTTTT
7358042 AT
1 AT
7358044 GGTGCATTTC
Statistics
Matches: 36, Mismatches: 9, Indels: 4
0.73 0.18 0.08
Matches are distributed among these distances:
8 6 0.17
9 23 0.64
10 7 0.19
ACGTcount: A:0.21, C:0.02, G:0.00, T:0.77
Consensus pattern (9 bp):
ATTTTTTTT
Found at i:7358028 original size:21 final size:21
Alignment explanation
Indices: 7357994--7358041 Score: 64
Period size: 22 Copynumber: 2.3 Consensus size: 21
7357984 CTTAATTTTT
7357994 TTTA-TTTTTTATTA-TTTAA
1 TTTATTTTTTTATTATTTTAA
*
7358013 TTTATTTTTCTTATTATTTTAT
1 TTTATTTTT-TTATTATTTTAA
7358035 TTTATTT
1 TTTATTT
7358042 ATGGTGCATT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
19 4 0.16
20 4 0.16
21 6 0.24
22 11 0.44
ACGTcount: A:0.21, C:0.02, G:0.00, T:0.77
Consensus pattern (21 bp):
TTTATTTTTTTATTATTTTAA
Found at i:7358029 original size:24 final size:24
Alignment explanation
Indices: 7357985--7358030 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
7357975 GATTAAACAC
* *
7357985 TTAATTTTTTTTATTTTTTATTAT
1 TTAATTTTTTTTACTTATTATTAT
7358009 TTAATTTATTTTT-CTTATTATT
1 TTAATTT-TTTTTACTTATTATT
7358031 TTATTTTATT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
24 14 0.74
25 5 0.26
ACGTcount: A:0.22, C:0.02, G:0.00, T:0.76
Consensus pattern (24 bp):
TTAATTTTTTTTACTTATTATTAT
Found at i:7370023 original size:8 final size:8
Alignment explanation
Indices: 7369994--7370037 Score: 54
Period size: 8 Copynumber: 5.2 Consensus size: 8
7369984 GAAAAAGAAA
7369994 AAAAAGATG
1 AAAAA-ATG
7370003 -AAAAATG
1 AAAAAATG
7370010 AAAAAATG
1 AAAAAATG
7370018 AAAAAAAATG
1 --AAAAAATG
7370028 AAAAAATG
1 AAAAAATG
7370036 AA
1 AA
7370038 GAGAGAAAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
7 3 0.09
8 21 0.66
10 8 0.25
ACGTcount: A:0.75, C:0.00, G:0.14, T:0.11
Consensus pattern (8 bp):
AAAAAATG
Found at i:7370024 original size:18 final size:18
Alignment explanation
Indices: 7370003--7370037 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
7369993 AAAAAAGATG
7370003 AAAAATGAAAAAATGAAA
1 AAAAATGAAAAAATGAAA
7370021 AAAAATGAAAAAATGAA
1 AAAAATGAAAAAATGAA
7370038 GAGAGAAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.77, C:0.00, G:0.11, T:0.11
Consensus pattern (18 bp):
AAAAATGAAAAAATGAAA
Found at i:7371153 original size:136 final size:136
Alignment explanation
Indices: 7370909--7371245 Score: 420
Period size: 136 Copynumber: 2.5 Consensus size: 136
7370899 AGGTGAACCA
* *
7370909 ACATTTCCAATGGAGAGTTCATAATGAGAAGAACTCATCCGACAGAGGGAGAAAAAGTTCATAAT
1 ACATTTCCAAAGGAGAGTTCATAATGAGAAGAACTCATCCGAAAGAGGGAGAAAAAGTTCATAAT
* * * *
7370974 GAGAAGAGCTTGTTCGACCTGTCACTCGATTCACGGCATTTCGAGTCAGTGACACCTTGCTTGAG
66 GAGAAGAGCTTGTTCGACCTATCACTCAATTCACAGCATTTCGAATCAGTGACACCTTGCTTGAG
7371039 GGATTG
131 GGATTG
* * *
7371045 ACATTTCCAAAGGAGGGTTCATAATGAGAAGAGCTCATCCGAAAGAGGGAGAAGAAGTTCATAAT
1 ACATTTCCAAAGGAGAGTTCATAATGAGAAGAACTCATCCGAAAGAGGGAGAAAAAGTTCATAAT
* * **
7371110 GAGAAGAGCTTGTTCGACCTATCACTCAATTCATAGTATTTCGAATCAGTGACACCCCG-TTGGA
66 GAGAAGAGCTTGTTCGACCTATCACTCAATTCACAGCATTTCGAATCAGTGACACCTTGCTT-GA
* * *
7371174 TGGACTA
130 GGGATTG
* * * **
7371181 ACATTTCC--AGAAGAGTTTATAATGAGAATAACTCAT-CTTAA-A-GGAG--AAAGTTCATAAT
1 ACATTTCCAAAGGAGAGTTCATAATGAGAAGAACTCATCCGAAAGAGGGAGAAAAAGTTCATAAT
7371239 GAGAAGA
66 GAGAAGA
7371246 ACATGTTCCT
Statistics
Matches: 176, Mismatches: 24, Indels: 9
0.84 0.11 0.04
Matches are distributed among these distances:
129 18 0.10
131 4 0.02
132 1 0.01
133 3 0.02
134 23 0.13
135 2 0.01
136 125 0.71
ACGTcount: A:0.35, C:0.17, G:0.23, T:0.25
Consensus pattern (136 bp):
ACATTTCCAAAGGAGAGTTCATAATGAGAAGAACTCATCCGAAAGAGGGAGAAAAAGTTCATAAT
GAGAAGAGCTTGTTCGACCTATCACTCAATTCACAGCATTTCGAATCAGTGACACCTTGCTTGAG
GGATTG
Found at i:7371444 original size:17 final size:17
Alignment explanation
Indices: 7371392--7371447 Score: 51
Period size: 17 Copynumber: 3.1 Consensus size: 17
7371382 TTCCAATGGA
7371392 AAGTTCATAATGAGAAG
1 AAGTTCATAATGAGAAG
* *
7371409 AA-CTCATCCAACGAAAGAAG
1 AAGTTCAT--AATG--AGAAG
7371429 AAGTTCATAATGAGAAG
1 AAGTTCATAATGAGAAG
7371446 AA
1 AA
7371448 CTTGTTCAAC
Statistics
Matches: 30, Mismatches: 4, Indels: 10
0.68 0.09 0.23
Matches are distributed among these distances:
16 4 0.13
17 9 0.30
18 3 0.10
19 3 0.10
20 7 0.23
21 4 0.13
ACGTcount: A:0.50, C:0.12, G:0.20, T:0.18
Consensus pattern (17 bp):
AAGTTCATAATGAGAAG
Found at i:7371486 original size:89 final size:90
Alignment explanation
Indices: 7371282--7371546 Score: 374
Period size: 89 Copynumber: 2.9 Consensus size: 90
7371272 AAGGAGATAG
* * *
7371282 ATCAGTGTTTCCAATGG-AGAGTTCATAATGAGAAGAACTCATTCGACAGAGGGAGAAGAAGTTC
1 ATCAGTATTTCCAATGGAAGAGTTCATAATGAGAAGAACTCATCCAAC-GA--GAGAAGAAGTTC
*
7371346 ATAATGAGAAGAACTTGTTTAACCGTAC
63 ATAATGAGAAGAACTTGTTCAACCGTAC
* *
7371374 ATCAGTGTTTCCAATGGAA-AGTTCATAATGAGAAGAACTCATCCAACGAAAGAAGAAGTTCATA
1 ATCAGTATTTCCAATGGAAGAGTTCATAATGAGAAGAACTCATCCAACGAGAGAAGAAGTTCATA
* *
7371438 ATGAGAAGAACTTGTTCAACCTTGC
66 ATGAGAAGAACTTGTTCAACCGTAC
* * *
7371463 ATCAGTATTTCTAGT-GAAGAGTTCATAATGAGAAGAACTCATCCACAAGAGAGAAGAAGTTCAT
1 ATCAGTATTTCCAATGGAAGAGTTCATAATGAGAAGAACTCATCCA-ACGAGAGAAGAAGTTCAT
7371527 AATGAGAAGAACTTGTTCAA
65 AATGAGAAGAACTTGTTCAA
7371547 TCAAATAATG
Statistics
Matches: 159, Mismatches: 11, Indels: 8
0.89 0.06 0.04
Matches are distributed among these distances:
88 3 0.02
89 74 0.47
90 36 0.23
91 2 0.01
92 43 0.27
93 1 0.01
ACGTcount: A:0.39, C:0.15, G:0.21, T:0.25
Consensus pattern (90 bp):
ATCAGTATTTCCAATGGAAGAGTTCATAATGAGAAGAACTCATCCAACGAGAGAAGAAGTTCATA
ATGAGAAGAACTTGTTCAACCGTAC
Found at i:7373217 original size:21 final size:21
Alignment explanation
Indices: 7373184--7373232 Score: 73
Period size: 22 Copynumber: 2.3 Consensus size: 21
7373174 CTTAATTTTT
7373184 TTTATTTTTTTATTA-TTTAA
1 TTTATTTTTTTATTATTTTAA
*
7373204 TTTATTTTTCTTATTATTTTAT
1 TTTATTTTT-TTATTATTTTAA
7373226 TTTATTT
1 TTTATTT
7373233 ATGGTGCATT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
20 9 0.35
21 6 0.23
22 11 0.42
ACGTcount: A:0.20, C:0.02, G:0.00, T:0.78
Consensus pattern (21 bp):
TTTATTTTTTTATTATTTTAA
Found at i:7373224 original size:17 final size:18
Alignment explanation
Indices: 7373190--7373228 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 18
7373180 TTTTTTTATT
7373190 TTTTTATTATTTAATTTA
1 TTTTTATTATTTAATTTA
* *
7373208 TTTTTCTTA-TTATTTTA
1 TTTTTATTATTTAATTTA
7373225 TTTT
1 TTTT
7373229 ATTTATGGTG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 11 0.58
18 8 0.42
ACGTcount: A:0.21, C:0.03, G:0.00, T:0.77
Consensus pattern (18 bp):
TTTTTATTATTTAATTTA
Found at i:7380699 original size:161 final size:161
Alignment explanation
Indices: 7380423--7380740 Score: 555
Period size: 161 Copynumber: 2.0 Consensus size: 161
7380413 CCTTACATTC
* *
7380423 AGTGTTGAAGTTTGGAAAGCATAACATGAGATGTTAGCAAGTCCAAACAGCAATGGTATTGAGTA
1 AGTGTTGAAGTTTGGAAAGCATAACATGAGATGCTAGCAAGTCCAAACAGCAATGATATTGAGTA
* *
7380488 GTAATGTCTTCTATTAGTTCACAATAAGCCTCAATAAGATTAAACATCAGTAGTATTGTAATTTC
66 GTAATCTCTTCTATTAGTTCACAATAAGCCTCAATAAGAGTAAACATCAGTAGTATTGTAATTTC
*
7380553 TGTATTTTATTCTGTAGTGGCCAATTTGGAA
131 TGTATTTTATGCTGTAGTGGCCAATTTGGAA
7380584 AGTGTTGAAGTTTGGAAAGCATAACATGAGATGCTAGCAAGTCCAAACAGCAATGATATTGAGTA
1 AGTGTTGAAGTTTGGAAAGCATAACATGAGATGCTAGCAAGTCCAAACAGCAATGATATTGAGTA
* * *
7380649 GTAATCTCTTCTATTAGTTCCCAATAAGCCTCAATAAGAGTAAGCATCAGTGGTATTGTAATTTC
66 GTAATCTCTTCTATTAGTTCACAATAAGCCTCAATAAGAGTAAACATCAGTAGTATTGTAATTTC
*
7380714 TGTGTTTTATGCTGTAGTGGCCAATTT
131 TGTATTTTATGCTGTAGTGGCCAATTT
7380741 TGTTCTTATA
Statistics
Matches: 148, Mismatches: 9, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
161 148 1.00
ACGTcount: A:0.32, C:0.14, G:0.20, T:0.34
Consensus pattern (161 bp):
AGTGTTGAAGTTTGGAAAGCATAACATGAGATGCTAGCAAGTCCAAACAGCAATGATATTGAGTA
GTAATCTCTTCTATTAGTTCACAATAAGCCTCAATAAGAGTAAACATCAGTAGTATTGTAATTTC
TGTATTTTATGCTGTAGTGGCCAATTTGGAA
Found at i:7381956 original size:21 final size:21
Alignment explanation
Indices: 7381927--7381993 Score: 82
Period size: 21 Copynumber: 3.2 Consensus size: 21
7381917 ATTCCGACTA
*
7381927 TCGCATTGCGA-TTTCTCAAAT
1 TCGCGTTGCGATTTTC-CAAAT
*
7381948 TCGCGTTGCGATTTTCCTAAT
1 TCGCGTTGCGATTTTCCAAAT
**
7381969 TCGCGTTGCGATTTTCTTAAT
1 TCGCGTTGCGATTTTCCAAAT
7381990 TCGC
1 TCGC
7381994 AACACGAATA
Statistics
Matches: 42, Mismatches: 3, Indels: 2
0.89 0.06 0.04
Matches are distributed among these distances:
21 38 0.90
22 4 0.10
ACGTcount: A:0.16, C:0.24, G:0.18, T:0.42
Consensus pattern (21 bp):
TCGCGTTGCGATTTTCCAAAT
Found at i:7382037 original size:20 final size:20
Alignment explanation
Indices: 7381990--7382037 Score: 71
Period size: 20 Copynumber: 2.4 Consensus size: 20
7381980 TTTTCTTAAT
*
7381990 TCGCAACACGAATACGTAAA
1 TCGCAACGCGAATACGTAAA
7382010 TCGCAACGCGAAT-CTGTAAA
1 TCGCAACGCGAATAC-GTAAA
7382030 TCGCAACG
1 TCGCAACG
7382038 AGATTCTGAC
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
19 1 0.04
20 25 0.96
ACGTcount: A:0.38, C:0.27, G:0.19, T:0.17
Consensus pattern (20 bp):
TCGCAACGCGAATACGTAAA
Found at i:7382045 original size:20 final size:20
Alignment explanation
Indices: 7382005--7382045 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
7381995 ACACGAATAC
*
7382005 GTAAATCGCAACGCGAATCT
1 GTAAATCGCAACGAGAATCT
*
7382025 GTAAATCGCAACGAGATTCT
1 GTAAATCGCAACGAGAATCT
7382045 G
1 G
7382046 ACTATCGCAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.34, C:0.22, G:0.22, T:0.22
Consensus pattern (20 bp):
GTAAATCGCAACGAGAATCT
Found at i:7382924 original size:24 final size:24
Alignment explanation
Indices: 7382892--7382950 Score: 91
Period size: 24 Copynumber: 2.5 Consensus size: 24
7382882 AGTCAGTATT
*
7382892 CGAAATTTGATCTTGGTCAATACC
1 CGAACTTTGATCTTGGTCAATACC
*
7382916 CGGACTTTGATCTTGGTCAATACC
1 CGAACTTTGATCTTGGTCAATACC
*
7382940 CGAATTTTGAT
1 CGAACTTTGAT
7382951 GATGAAACAG
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 31 1.00
ACGTcount: A:0.25, C:0.20, G:0.19, T:0.36
Consensus pattern (24 bp):
CGAACTTTGATCTTGGTCAATACC
Found at i:7385101 original size:17 final size:15
Alignment explanation
Indices: 7385065--7385103 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
7385055 GGTGTGCAAA
*
7385065 TCCGGGTACCCGATT
1 TCCGGGTACCCGACT
7385080 TCCGGGTACCCGGAACT
1 TCCGGGTACCC-G-ACT
7385097 TCCGGGT
1 TCCGGGT
7385104 CGACGATTTC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 11 0.52
16 1 0.05
17 9 0.43
ACGTcount: A:0.13, C:0.33, G:0.31, T:0.23
Consensus pattern (15 bp):
TCCGGGTACCCGACT
Found at i:7385859 original size:20 final size:20
Alignment explanation
Indices: 7385834--7385922 Score: 135
Period size: 20 Copynumber: 4.5 Consensus size: 20
7385824 CAACGCGGAA
7385834 ATCGCAACGC-GAATATGACT
1 ATCGCAACGCGGAA-ATGACT
*
7385854 ATCGCAACACGGAAATGACT
1 ATCGCAACGCGGAAATGACT
* *
7385874 ATCGCAATGCGGAATTGACT
1 ATCGCAACGCGGAAATGACT
7385894 ATCGCAACGCGGAAATGACT
1 ATCGCAACGCGGAAATGACT
7385914 ATCGCAACG
1 ATCGCAACG
7385923 AGAGAATCGC
Statistics
Matches: 62, Mismatches: 6, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
20 59 0.95
21 3 0.05
ACGTcount: A:0.35, C:0.25, G:0.22, T:0.18
Consensus pattern (20 bp):
ATCGCAACGCGGAAATGACT
Found at i:7385998 original size:34 final size:34
Alignment explanation
Indices: 7385955--7386050 Score: 140
Period size: 33 Copynumber: 2.9 Consensus size: 34
7385945 ACTAATTTCG
7385955 CGTTGCGATTTTCATTTTCGCATTGCGATTCACT
1 CGTTGCGATTTTCATTTTCGCATTGCGATTCACT
*
7385989 CGTTGCGATTTTCA-TTTCGCATTGCGATTCTCT
1 CGTTGCGATTTTCATTTTCGCATTGCGATTCACT
** * *
7386022 CGTTGCGATAGTCATTTCCGCGTTGCGAT
1 CGTTGCGATTTTCATTTTCGCATTGCGAT
7386051 AGTCATTTCC
Statistics
Matches: 56, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
33 30 0.54
34 26 0.46
ACGTcount: A:0.14, C:0.24, G:0.21, T:0.42
Consensus pattern (34 bp):
CGTTGCGATTTTCATTTTCGCATTGCGATTCACT
Found at i:7386047 original size:20 final size:20
Alignment explanation
Indices: 7386022--7386074 Score: 106
Period size: 20 Copynumber: 2.6 Consensus size: 20
7386012 GCGATTCTCT
7386022 CGTTGCGATAGTCATTTCCG
1 CGTTGCGATAGTCATTTCCG
7386042 CGTTGCGATAGTCATTTCCG
1 CGTTGCGATAGTCATTTCCG
7386062 CGTTGCGATAGTC
1 CGTTGCGATAGTC
7386075 TGTTTTGCAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.15, C:0.25, G:0.26, T:0.34
Consensus pattern (20 bp):
CGTTGCGATAGTCATTTCCG
Found at i:7386191 original size:14 final size:14
Alignment explanation
Indices: 7386172--7386208 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
7386162 CATCAATTAA
7386172 ACAAATCAACATTT
1 ACAAATCAACATTT
* *
7386186 ACAAATCATCTTTT
1 ACAAATCAACATTT
7386200 ACAAATCAA
1 ACAAATCAA
7386209 TTAAACAATT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.49, C:0.22, G:0.00, T:0.30
Consensus pattern (14 bp):
ACAAATCAACATTT
Found at i:7387658 original size:42 final size:42
Alignment explanation
Indices: 7387578--7387670 Score: 100
Period size: 42 Copynumber: 2.2 Consensus size: 42
7387568 CCTCTTCAAC
* * *
7387578 GATGACAGTGGCCTCTTGAACGGTGGGAGGGGACTCTTGAGG
1 GATGACAGGGGCCTCTTGAACGATGGGAGAGGACTCTTGAGG
* **
7387620 GATGATAGGGGCCTCTTGAACGATAGGGA-AGG-CTTCTTGAAC
1 GATGACAGGGGCCTCTTGAACGAT-GGGAGAGGAC-TCTTGAGG
7387662 GATGACAGG
1 GATGACAGG
7387671 TGAGTCGGGC
Statistics
Matches: 42, Mismatches: 7, Indels: 4
0.79 0.13 0.08
Matches are distributed among these distances:
41 1 0.02
42 37 0.88
43 4 0.10
ACGTcount: A:0.24, C:0.16, G:0.39, T:0.22
Consensus pattern (42 bp):
GATGACAGGGGCCTCTTGAACGATGGGAGAGGACTCTTGAGG
Found at i:7388181 original size:20 final size:20
Alignment explanation
Indices: 7388158--7388216 Score: 118
Period size: 20 Copynumber: 3.0 Consensus size: 20
7388148 AAATCACAAC
7388158 GCGAAAATGACTATCGCAAT
1 GCGAAAATGACTATCGCAAT
7388178 GCGAAAATGACTATCGCAAT
1 GCGAAAATGACTATCGCAAT
7388198 GCGAAAATGACTATCGCAA
1 GCGAAAATGACTATCGCAA
7388217 CGGGAGAATC
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 39 1.00
ACGTcount: A:0.41, C:0.20, G:0.20, T:0.19
Consensus pattern (20 bp):
GCGAAAATGACTATCGCAAT
Found at i:7388273 original size:19 final size:19
Alignment explanation
Indices: 7388251--7388294 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
7388241 AAATCGCAAC
*
7388251 GCGATTATAGTTTCGCGTT
1 GCGATTATAGTTTCCCGTT
* *
7388270 GCGATTTTGGTTTCCCGTT
1 GCGATTATAGTTTCCCGTT
7388289 GCGATT
1 GCGATT
7388295 TTGTCGTTGC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.11, C:0.18, G:0.27, T:0.43
Consensus pattern (19 bp):
GCGATTATAGTTTCCCGTT
Found at i:7388308 original size:33 final size:33
Alignment explanation
Indices: 7388266--7388361 Score: 129
Period size: 33 Copynumber: 2.9 Consensus size: 33
7388256 TATAGTTTCG
** * *
7388266 CGTTGCGATTTTGGTTTCCCGTTGCGATTTTGT
1 CGTTGCGATTTTCATTTCCCGTTGCGATTCTCT
**
7388299 CGTTGCGATTTTCATTTCGGGTTGCGATTCTCT
1 CGTTGCGATTTTCATTTCCCGTTGCGATTCTCT
*
7388332 CGTTGCGATTTTCATTTCTCGTTGCGATTC
1 CGTTGCGATTTTCATTTCCCGTTGCGATTC
7388362 ATTTCGCGTT
Statistics
Matches: 55, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
33 55 1.00
ACGTcount: A:0.08, C:0.21, G:0.24, T:0.47
Consensus pattern (33 bp):
CGTTGCGATTTTCATTTCCCGTTGCGATTCTCT
Found at i:7388324 original size:19 final size:18
Alignment explanation
Indices: 7388261--7388399 Score: 80
Period size: 19 Copynumber: 7.9 Consensus size: 18
7388251 GCGATTATAG
**
7388261 TTTCGCGTTGCGATTTTGG
1 TTTCGCGTTGCGA-TTTCA
*
7388280 TTTCCCGTTGCGATTT--
1 TTTCGCGTTGCGATTTCA
*
7388296 TGT--CGTTGCGATTTTCA
1 TTTCGCGTTGCGA-TTTCA
*
7388313 TTTCGGGTTGCGA-TTC-
1 TTTCGCGTTGCGATTTCA
*
7388329 --TCTCGTTGCGATTTTCA
1 TTTCGCGTTGCGA-TTTCA
*
7388346 TTTCTCGTTGCGA-TTCA
1 TTTCGCGTTGCGATTTCA
*
7388363 TTTCGCGTTGCGATAGTCA
1 TTTCGCGTTGCGAT-TTCA
*
7388382 TTTTTCACGTTGCGATTT
1 --TTTCGCGTTGCGATTT
7388400 TAAGTTTCGT
Statistics
Matches: 96, Mismatches: 10, Indels: 27
0.72 0.08 0.20
Matches are distributed among these distances:
14 17 0.18
15 3 0.03
16 5 0.05
17 21 0.22
18 3 0.03
19 33 0.34
20 1 0.01
21 13 0.14
ACGTcount: A:0.10, C:0.20, G:0.23, T:0.47
Consensus pattern (18 bp):
TTTCGCGTTGCGATTTCA
Found at i:7388364 original size:17 final size:17
Alignment explanation
Indices: 7388298--7388376 Score: 74
Period size: 17 Copynumber: 4.6 Consensus size: 17
7388288 TGCGATTTTG
7388298 TCGTTGCGATTTTCATTTC
1 TCGTTGCGA--TTCATTTC
**
7388317 GGGTTGCGATTC---TC
1 TCGTTGCGATTCATTTC
7388331 TCGTTGCGATTTTCATTTC
1 TCGTTGCGA--TTCATTTC
7388350 TCGTTGCGATTCATTTC
1 TCGTTGCGATTCATTTC
*
7388367 GCGTTGCGAT
1 TCGTTGCGAT
7388377 AGTCATTTTT
Statistics
Matches: 50, Mismatches: 5, Indels: 12
0.75 0.07 0.18
Matches are distributed among these distances:
14 9 0.18
16 3 0.06
17 20 0.40
19 18 0.36
ACGTcount: A:0.10, C:0.22, G:0.23, T:0.46
Consensus pattern (17 bp):
TCGTTGCGATTCATTTC
Found at i:7388610 original size:94 final size:94
Alignment explanation
Indices: 7388464--7388841 Score: 629
Period size: 94 Copynumber: 4.1 Consensus size: 94
7388454 ATGGATTGCA
* *
7388464 TTAC-TTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCAGAGTATTAAAGAATACACAGT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGT
*
7388528 TTAGCAGAATTGACAGCAATCGAACAAAT
66 TTAGCAGAATTGACAGCAACCGAACAAAT
7388557 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGT
7388622 TTAGCAGAATTGACAGCAACCGAACAAAT
66 TTAGCAGAATTGACAGCAACCGAACAAAT
*
7388651 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCATAGTGTTAAAGAATACACAGT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGT
* *
7388716 TTAGCAGAATTGGCAGCAACCGAATAAAT
66 TTAGCAGAATTGACAGCAACCGAACAAAT
*
7388745 TTAC-TTCAACCAAAAGACAAAACAAAAGAC--ATACTAACTTCACAGTGTTAAAGAATACACAA
1 TTACTTTCAACCAAAAGACAAAAC-AAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAG
** *
7388807 TTTAGCAGAATTGGTAGCAACCGAATAAAT
65 TTTAGCAGAATTGACAGCAACCGAACAAAT
7388837 TTACT
1 TTACT
7388842 AAGCAATCTA
Statistics
Matches: 273, Mismatches: 9, Indels: 6
0.95 0.03 0.02
Matches are distributed among these distances:
92 63 0.23
93 23 0.08
94 187 0.68
ACGTcount: A:0.48, C:0.19, G:0.12, T:0.22
Consensus pattern (94 bp):
TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGT
TTAGCAGAATTGACAGCAACCGAACAAAT
Found at i:7390494 original size:20 final size:19
Alignment explanation
Indices: 7390471--7390522 Score: 70
Period size: 20 Copynumber: 2.6 Consensus size: 19
7390461 TGAAATGAAA
7390471 ATCGCAACGAGAGAATGACT
1 ATCGCAACGAGA-AATGACT
7390491 ATCGCAAAGCG-GAAATGACT
1 ATCGC-AA-CGAGAAATGACT
7390511 ATCGCAACGAGA
1 ATCGCAACGAGA
7390523 TAATCGCAAC
Statistics
Matches: 29, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
18 2 0.07
19 4 0.14
20 17 0.59
21 4 0.14
22 2 0.07
ACGTcount: A:0.40, C:0.21, G:0.25, T:0.13
Consensus pattern (19 bp):
ATCGCAACGAGAAATGACT
Found at i:7390506 original size:40 final size:36
Alignment explanation
Indices: 7390462--7390559 Score: 103
Period size: 40 Copynumber: 2.7 Consensus size: 36
7390452 TCTTTTAGTT
7390462 GAAATGAAAATCGCAACGAGAGAATGACTATCGCAAAGC
1 GAAATGAAAATCGCAACGAGAGAAT-A--ATCGCAAAGC
** *
7390501 GGAAATGACTATCGCAAC--GAG-ATAATCGCAACGC
1 -GAAATGAAAATCGCAACGAGAGAATAATCGCAAAGC
*
7390535 GAAATTAAAATCGCAACGAGAGAAT
1 GAAATGAAAATCGCAACGAGAGAAT
7390560 CGCAACGTGC
Statistics
Matches: 49, Mismatches: 6, Indels: 10
0.75 0.09 0.15
Matches are distributed among these distances:
33 14 0.29
34 9 0.18
35 3 0.06
36 3 0.06
37 2 0.04
38 3 0.06
40 15 0.31
ACGTcount: A:0.45, C:0.18, G:0.22, T:0.14
Consensus pattern (36 bp):
GAAATGAAAATCGCAACGAGAGAATAATCGCAAAGC
Found at i:7390652 original size:40 final size:41
Alignment explanation
Indices: 7390591--7390685 Score: 124
Period size: 40 Copynumber: 2.4 Consensus size: 41
7390581 CGCGTTGCGA
**
7390591 TTCTCTCGTTGCGATTTTCA-TTTCGCGTTGCGATTTTCAT
1 TTCTCTCGTTGCGATAGTCATTTTCGCGTTGCGATTTTCAT
**
7390631 TTCTCTCGTTGCGATAGTCATTTTCTTGTTGCGATTTTCAT
1 TTCTCTCGTTGCGATAGTCATTTTCGCGTTGCGATTTTCAT
7390672 TT-TCAT-GTTGCGAT
1 TTCTC-TCGTTGCGAT
7390686 TTTAAGTTTA
Statistics
Matches: 49, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
40 28 0.57
41 21 0.43
ACGTcount: A:0.12, C:0.20, G:0.18, T:0.51
Consensus pattern (41 bp):
TTCTCTCGTTGCGATAGTCATTTTCGCGTTGCGATTTTCAT
Found at i:7390663 original size:20 final size:20
Alignment explanation
Indices: 7390598--7390688 Score: 112
Period size: 20 Copynumber: 4.5 Consensus size: 20
7390588 CGATTCTCTC
**
7390598 GTTGCGATTTTCA-TTTCGC
1 GTTGCGATTTTCATTTTCTT
*
7390617 GTTGCGATTTTCATTTCTCTC
1 GTTGCGATTTTCATTT-TCTT
**
7390638 GTTGCGATAGTCATTTTCTT
1 GTTGCGATTTTCATTTTCTT
*
7390658 GTTGCGATTTTCATTTTCAT
1 GTTGCGATTTTCATTTTCTT
7390678 GTTGCGATTTT
1 GTTGCGATTTT
7390689 AAGTTTAGAA
Statistics
Matches: 63, Mismatches: 7, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
19 13 0.21
20 33 0.52
21 17 0.27
ACGTcount: A:0.12, C:0.18, G:0.19, T:0.52
Consensus pattern (20 bp):
GTTGCGATTTTCATTTTCTT
Found at i:7391264 original size:20 final size:20
Alignment explanation
Indices: 7391239--7391452 Score: 216
Period size: 20 Copynumber: 10.6 Consensus size: 20
7391229 CTTTAAATAT
*
7391239 CGCGTTGCGACTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
7391259 CGCGTTGCGATTTTACGTAT-
1 CGCGTTGCGA-TTTACGGATA
* *
7391279 TGTCGTTGCGATTTAAGGATA
1 CG-CGTTGCGATTTACGGATA
* * *
7391300 CGCATTGCGATTTACGTATT
1 CGCGTTGCGATTTACGGATA
* * *
7391320 CTCATTGCGATTTACAGATA
1 CGCGTTGCGATTTACGGATA
* *
7391340 CGCGTTGCGATTTACGTATT
1 CGCGTTGCGATTTACGGATA
*
7391360 CTCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
7391380 CGCGTTGCGATTTTACGTAT-
1 CGCGTTGCGA-TTTACGGATA
*
7391400 TGTCGTTGCGATTTACGGATA
1 CG-CGTTGCGATTTACGGATA
7391421 CGCGTTGCGATTTTACGGATA
1 CGCGTTGCGA-TTTACGGATA
**
7391442 CTTGTTGCGAT
1 CGCGTTGCGAT
7391453 AGTCAGAATC
Statistics
Matches: 158, Mismatches: 29, Indels: 14
0.79 0.14 0.07
Matches are distributed among these distances:
20 107 0.68
21 51 0.32
ACGTcount: A:0.19, C:0.19, G:0.25, T:0.37
Consensus pattern (20 bp):
CGCGTTGCGATTTACGGATA
Found at i:7391449 original size:41 final size:41
Alignment explanation
Indices: 7391241--7391452 Score: 320
Period size: 41 Copynumber: 5.2 Consensus size: 41
7391231 TTAAATATCG
* *
7391241 CGTTGCGACTTACGGATACGCGTTGCGATTTTACGTATTGT
1 CGTTGCGATTTACGGATACGCGTTGCGATTTTACGTATTCT
* *
7391282 CGTTGCGATTTAAGGATACGCATTGCGA-TTTACGTATTCT
1 CGTTGCGATTTACGGATACGCGTTGCGATTTTACGTATTCT
* *
7391322 CATTGCGATTTACAGATACGCGTTGCGA-TTTACGTATTCT
1 CGTTGCGATTTACGGATACGCGTTGCGATTTTACGTATTCT
*
7391362 CGTTGCGATTTACGGATACGCGTTGCGATTTTACGTATTGT
1 CGTTGCGATTTACGGATACGCGTTGCGATTTTACGTATTCT
* *
7391403 CGTTGCGATTTACGGATACGCGTTGCGATTTTACGGATACT
1 CGTTGCGATTTACGGATACGCGTTGCGATTTTACGTATTCT
*
7391444 TGTTGCGAT
1 CGTTGCGAT
7391453 AGTCAGAATC
Statistics
Matches: 155, Mismatches: 15, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
40 73 0.47
41 82 0.53
ACGTcount: A:0.19, C:0.18, G:0.25, T:0.37
Consensus pattern (41 bp):
CGTTGCGATTTACGGATACGCGTTGCGATTTTACGTATTCT
Found at i:7391488 original size:20 final size:20
Alignment explanation
Indices: 7391465--7391513 Score: 73
Period size: 20 Copynumber: 2.5 Consensus size: 20
7391455 TCAGAATCAA
*
7391465 GTTGCGATTTAT-ATGTTCGC
1 GTTGCGATTT-TCATATTCGC
7391485 GTTGCGATTTTCATATTCGC
1 GTTGCGATTTTCATATTCGC
7391505 GTTGCGATT
1 GTTGCGATT
7391514 CTGGAAAATC
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
19 1 0.04
20 26 0.96
ACGTcount: A:0.14, C:0.16, G:0.24, T:0.45
Consensus pattern (20 bp):
GTTGCGATTTTCATATTCGC
Found at i:7391488 original size:81 final size:79
Alignment explanation
Indices: 7391238--7391513 Score: 252
Period size: 81 Copynumber: 3.4 Consensus size: 79
7391228 GCTTTAAATA
* * *
7391238 TCGCGTTGCGACTTACGGATACGCGTTGCGATTTTACGTATTGTCGTTGCGATTTAAGGAT-ACG
1 TCGCGTTGCGATTTACAGATACGCGTTGCGATTTTACGTATTCTCGTTGCGA-TTAAGGATCACG
** *
7391302 CATTGCGATTTACGTAT
65 --TTGCGATTTATATGT
* * * *
7391319 TCTCATTGCGATTTACAGATACGCGTTGCGA-TTTACGTATTCTCGTTGCGATTTACGGATACGC
1 TCGCGTTGCGATTTACAGATACGCGTTGCGATTTTACGTATTCTCGTTGCGA-TTAAGGAT-CAC
*
7391383 GTTGCGATTT-TACGT
64 GTTGCGATTTATATGT
* * * * * * *
7391398 ATTGTCGTTGCGATTTACGGATACGCGTTGCGATTTTACGGATACTTGTTGCGATAGTCAGAATC
1 -TCG-CGTTGCGATTTACAGATACGCGTTGCGATTTTACGTATTCTCGTTGCGAT--TAAGGATC
*
7391463 AAGTTGCGATTTATATGT
62 ACGTTGCGATTTATATGT
* * *
7391481 TCGCGTTGCGATTTTCATATTCGCGTTGCGATT
1 TCGCGTTGCGATTTACAGATACGCGTTGCGATT
7391514 CTGGAAAATC
Statistics
Matches: 158, Mismatches: 29, Indels: 16
0.78 0.14 0.08
Matches are distributed among these distances:
79 1 0.01
80 37 0.23
81 80 0.51
82 32 0.20
83 8 0.05
ACGTcount: A:0.20, C:0.18, G:0.25, T:0.38
Consensus pattern (79 bp):
TCGCGTTGCGATTTACAGATACGCGTTGCGATTTTACGTATTCTCGTTGCGATTAAGGATCACGT
TGCGATTTATATGT
Found at i:7391574 original size:42 final size:42
Alignment explanation
Indices: 7391481--7391574 Score: 95
Period size: 42 Copynumber: 2.3 Consensus size: 42
7391471 ATTTATATGT
* *
7391481 TCGCGTTGCG-ATTTTCATATTCGCGTTGCGATTCTGGAAAA
1 TCGCGTTGCGAATTTTCATATTCGCATTGCGATTCTGCAAAA
** * *
7391522 TCGCAATGCGAATTTGT-ACTA-TCGCATTGCGATTCTTCATAA
1 TCGCGTTGCGAATTT-TCA-TATTCGCATTGCGATTCTGCAAAA
7391564 TCGCGTTGCGA
1 TCGCGTTGCGA
7391575 TTCTGGGAAT
Statistics
Matches: 42, Mismatches: 8, Indels: 5
0.76 0.15 0.09
Matches are distributed among these distances:
41 8 0.19
42 31 0.74
43 3 0.07
ACGTcount: A:0.21, C:0.21, G:0.22, T:0.35
Consensus pattern (42 bp):
TCGCGTTGCGAATTTTCATATTCGCATTGCGATTCTGCAAAA
Found at i:7400623 original size:35 final size:35
Alignment explanation
Indices: 7400577--7400647 Score: 142
Period size: 35 Copynumber: 2.0 Consensus size: 35
7400567 TAAAGATCCC
7400577 CATTAGGCATATTTTGAGAGCTGCTAATTGGGAAT
1 CATTAGGCATATTTTGAGAGCTGCTAATTGGGAAT
7400612 CATTAGGCATATTTTGAGAGCTGCTAATTGGGAAT
1 CATTAGGCATATTTTGAGAGCTGCTAATTGGGAAT
7400647 C
1 C
7400648 GGATAAATTA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.28, C:0.13, G:0.25, T:0.34
Consensus pattern (35 bp):
CATTAGGCATATTTTGAGAGCTGCTAATTGGGAAT
Found at i:7402025 original size:18 final size:18
Alignment explanation
Indices: 7401977--7402026 Score: 51
Period size: 18 Copynumber: 3.2 Consensus size: 18
7401967 AAATTCTTTA
7401977 AATATGTTACAGATTTTT
1 AATATGTTACAGATTTTT
7401995 -A-A--TT--AGA-TTTT
1 AATATGTTACAGATTTTT
7402006 AATATGTTACAGATTTTT
1 AATATGTTACAGATTTTT
7402024 AAT
1 AAT
7402027 TGTCTTTAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 14
0.64 0.00 0.36
Matches are distributed among these distances:
11 4 0.16
12 4 0.16
13 1 0.04
14 2 0.08
15 2 0.08
16 1 0.04
17 4 0.16
18 7 0.28
ACGTcount: A:0.36, C:0.04, G:0.10, T:0.50
Consensus pattern (18 bp):
AATATGTTACAGATTTTT
Found at i:7402038 original size:29 final size:31
Alignment explanation
Indices: 7401971--7402039 Score: 110
Period size: 29 Copynumber: 2.4 Consensus size: 31
7401961 ATACCAAAAT
7401971 TCTTTAAATATGTTACAGATTTTTAATTAGA
1 TCTTTAAATATGTTACAGATTTTTAATTAGA
7402002 T-TTT-AATATGTTACAGATTTTTAATT-G-
1 TCTTTAAATATGTTACAGATTTTTAATTAGA
7402029 TCTTTAAATAT
1 TCTTTAAATAT
7402040 ATTATTAGGA
Statistics
Matches: 36, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
27 1 0.03
28 4 0.11
29 27 0.75
30 3 0.08
31 1 0.03
ACGTcount: A:0.33, C:0.06, G:0.09, T:0.52
Consensus pattern (31 bp):
TCTTTAAATATGTTACAGATTTTTAATTAGA
Found at i:7402742 original size:40 final size:39
Alignment explanation
Indices: 7402698--7402834 Score: 105
Period size: 40 Copynumber: 3.4 Consensus size: 39
7402688 ACATTAACGT
*
7402698 CGTTTTTAAACAAACACCTCTAAAACTCATACTTTAGCGG
1 CGTTTTTAAACAAACACCTCTAAAA-TCATACTTTAGTGG
** * * *
7402738 CGTTTATTTGACAAAC-GCTGCTAAAGATAAGTACTTTAGTGA
1 CGTTT-TTAAACAAACACCT-CTAAA-ATCA-TACTTTAGTGG
* * * * * *
7402780 CGTTTGTAAACAAATACCACCATAAATCATTCTTTAGTTG
1 CGTTTTTAAACAAACACCTCTA-AAATCATACTTTAGTGG
7402820 CGTTTTTAAACAAAC
1 CGTTTTTAAACAAAC
7402835 GCCGCAATAG
Statistics
Matches: 72, Mismatches: 19, Indels: 12
0.70 0.18 0.12
Matches are distributed among these distances:
40 28 0.39
41 26 0.36
42 18 0.25
ACGTcount: A:0.35, C:0.20, G:0.12, T:0.33
Consensus pattern (39 bp):
CGTTTTTAAACAAACACCTCTAAAATCATACTTTAGTGG
Found at i:7410206 original size:20 final size:21
Alignment explanation
Indices: 7410160--7410217 Score: 82
Period size: 21 Copynumber: 2.8 Consensus size: 21
7410150 AGATTTATTA
*
7410160 TTATGTATTTCAAGTTTCTTG
1 TTATGGATTTCAAGTTTCTTG
*
7410181 TTATGGATTTCAAGTTTGTT-
1 TTATGGATTTCAAGTTTCTTG
*
7410201 TTATGGATGTCAAGTTT
1 TTATGGATTTCAAGTTT
7410218 ATTGGATAAT
Statistics
Matches: 34, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
20 16 0.47
21 18 0.53
ACGTcount: A:0.21, C:0.07, G:0.19, T:0.53
Consensus pattern (21 bp):
TTATGGATTTCAAGTTTCTTG
Found at i:7411848 original size:14 final size:14
Alignment explanation
Indices: 7411829--7411856 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
7411819 AAAAAATATT
7411829 AAATATTTAAAATA
1 AAATATTTAAAATA
7411843 AAATATTTAAAATA
1 AAATATTTAAAATA
7411857 TTCAACAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (14 bp):
AAATATTTAAAATA
Found at i:7418977 original size:49 final size:49
Alignment explanation
Indices: 7418921--7419020 Score: 173
Period size: 49 Copynumber: 2.0 Consensus size: 49
7418911 ATTTGGCTTT
* *
7418921 TAACAATTCCCCTTCTGATCTCACTCACTCAATATGTCTTTTTCCATTC
1 TAACAATTCCCCTTCTGATCTCACTCACTCAATATGCCTTTTTCCACTC
*
7418970 TAACAATTCCCCTTCTGATCTCACTCTCTCAATATGCCTTTTTCCACTC
1 TAACAATTCCCCTTCTGATCTCACTCACTCAATATGCCTTTTTCCACTC
7419019 TA
1 TA
7419021 TCTCTCTTGT
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
49 48 1.00
ACGTcount: A:0.22, C:0.34, G:0.04, T:0.40
Consensus pattern (49 bp):
TAACAATTCCCCTTCTGATCTCACTCACTCAATATGCCTTTTTCCACTC
Found at i:7419768 original size:23 final size:22
Alignment explanation
Indices: 7419731--7419774 Score: 61
Period size: 23 Copynumber: 2.0 Consensus size: 22
7419721 AATTATAAAT
*
7419731 GAAGATGTTGGTGGTCTTGATG
1 GAAGATGTTGATGGTCTTGATG
*
7419753 GAAGATGGTTGATGGTGTTGAT
1 GAAGAT-GTTGATGGTCTTGAT
7419775 ATTGTATGGA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 6 0.32
23 13 0.68
ACGTcount: A:0.20, C:0.02, G:0.41, T:0.36
Consensus pattern (22 bp):
GAAGATGTTGATGGTCTTGATG
Found at i:7426230 original size:21 final size:21
Alignment explanation
Indices: 7426200--7426249 Score: 82
Period size: 21 Copynumber: 2.4 Consensus size: 21
7426190 GTTTTATAAA
*
7426200 AAGTTCTCTCTTTTATTTTAC
1 AAGTTTTCTCTTTTATTTTAC
*
7426221 AAGTTTTCTCTTTTATTTTTC
1 AAGTTTTCTCTTTTATTTTAC
7426242 AAGTTTTC
1 AAGTTTTC
7426250 ATATTTCTCT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.18, C:0.16, G:0.06, T:0.60
Consensus pattern (21 bp):
AAGTTTTCTCTTTTATTTTAC
Found at i:7432115 original size:54 final size:54
Alignment explanation
Indices: 7432053--7432357 Score: 335
Period size: 54 Copynumber: 5.6 Consensus size: 54
7432043 TATTTATTCC
* * * *
7432053 AACTCATTAT-AAGTTCCGTGGGGTGTACACATAGTGCCGATATGATCATTCATA
1 AACTCATTATGAA-TTCCGTGGGTTGCACACTTAGTGCCGATATGGTCATTCATA
* *
7432107 AACTCATTATGAATTCCATGGGTTGCACACTTAGTGCCGATATGGTCATTTATA
1 AACTCATTATGAATTCCGTGGGTTGCACACTTAGTGCCGATATGGTCATTCATA
* ** * *
7432161 AACTTATTATGAATTTTGTGGGTTGCACACTTAGTGCCGATACGGTCACTCATA
1 AACTCATTATGAATTCCGTGGGTTGCACACTTAGTGCCGATATGGTCATTCATA
* *** * * ** *
7432215 AACTTATTATGAATTTTTTGGGTTGCAGACTTAGTGCTGATACAGTCGTTCATA
1 AACTCATTATGAATTCCGTGGGTTGCACACTTAGTGCCGATATGGTCATTCATA
* * * * * *
7432269 AACTTATTATGAATTCTGTGGGTTACACAGTTAGTGCCGATACGGTCGTTCATA
1 AACTCATTATGAATTCCGTGGGTTGCACACTTAGTGCCGATATGGTCATTCATA
*
7432323 AACGT-ATTATGAATTCCGTGGGTTTCACACTTAGT
1 AAC-TCATTATGAATTCCGTGGGTTGCACACTTAGT
7432358 TCCAATACAT
Statistics
Matches: 220, Mismatches: 29, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
54 217 0.99
55 3 0.01
ACGTcount: A:0.27, C:0.17, G:0.20, T:0.36
Consensus pattern (54 bp):
AACTCATTATGAATTCCGTGGGTTGCACACTTAGTGCCGATATGGTCATTCATA
Found at i:7432247 original size:108 final size:108
Alignment explanation
Indices: 7432053--7432366 Score: 369
Period size: 108 Copynumber: 2.9 Consensus size: 108
7432043 TATTTATTCC
* * * * * * * *
7432053 AACTCATTAT-AAGTTCCGTGGGGTGTACACATAGTGCCGATATGATCATTCATAAACTCATTAT
1 AACTTATTATGAA-TTCTGTGGGTTGCACACTTAGTGCCGATACGGTCATTCATAAACTTATTAT
** *
7432117 GAATTCCATGGGTTGCACACTTAGTGCCGATATGGTCATTTATA
65 GAATTCCATGGGTTGCACACTTAGTGCCGATACAGTCATTCATA
* *
7432161 AACTTATTATGAATTTTGTGGGTTGCACACTTAGTGCCGATACGGTCACTCATAAACTTATTATG
1 AACTTATTATGAATTCTGTGGGTTGCACACTTAGTGCCGATACGGTCATTCATAAACTTATTATG
*** * * *
7432226 AATTTTTTGGGTTGCAGACTTAGTGCTGATACAGTCGTTCATA
66 AATTCCATGGGTTGCACACTTAGTGCCGATACAGTCATTCATA
* * * *
7432269 AACTTATTATGAATTCTGTGGGTTACACAGTTAGTGCCGATACGGTCGTTCATAAACGTATTATG
1 AACTTATTATGAATTCTGTGGGTTGCACACTTAGTGCCGATACGGTCATTCATAAACTTATTATG
* * * *
7432334 AATTCCGTGGGTTTCACACTTAGTTCCAATACA
66 AATTCCATGGGTTGCACACTTAGTGCCGATACA
7432367 TAAAAAATGC
Statistics
Matches: 172, Mismatches: 33, Indels: 2
0.83 0.16 0.01
Matches are distributed among these distances:
108 170 0.99
109 2 0.01
ACGTcount: A:0.27, C:0.18, G:0.20, T:0.35
Consensus pattern (108 bp):
AACTTATTATGAATTCTGTGGGTTGCACACTTAGTGCCGATACGGTCATTCATAAACTTATTATG
AATTCCATGGGTTGCACACTTAGTGCCGATACAGTCATTCATA
Found at i:7432735 original size:22 final size:21
Alignment explanation
Indices: 7432685--7432749 Score: 96
Period size: 20 Copynumber: 3.1 Consensus size: 21
7432675 ATATTGGTAC
7432685 CCCTCCTATGGTATCGATAC-
1 CCCTCCTATGGTATCGATACT
7432705 CCCTCCTATGGTATCGATACTT
1 CCCTCCTATGGTATCGATAC-T
* *
7432727 CCCTACTATGGTATCGTTACT
1 CCCTCCTATGGTATCGATACT
7432748 CC
1 CC
7432750 TTTCAGTATC
Statistics
Matches: 41, Mismatches: 2, Indels: 3
0.89 0.04 0.07
Matches are distributed among these distances:
20 20 0.49
21 3 0.07
22 18 0.44
ACGTcount: A:0.18, C:0.34, G:0.14, T:0.34
Consensus pattern (21 bp):
CCCTCCTATGGTATCGATACT
Found at i:7435897 original size:95 final size:95
Alignment explanation
Indices: 7435734--7435920 Score: 349
Period size: 95 Copynumber: 2.0 Consensus size: 95
7435724 GAATCAAAAA
7435734 GTGAACCTTGGTGAAAACATTTCCGCTATCTTTCAGACAAGGCTTCTACCAAAATACAAGGATCA
1 GTGAACCTTGGTGAAAACATTTCCGCTATCTTTCAGACAAGGCTTCTACCAAAATACAAGGATCA
7435799 ATGCATGTTCTTCATACCTTGCAAACCTTG
66 ATGCATGTTCTTCATACCTTGCAAACCTTG
*
7435829 GTGAACCTTGGTGAAAACATTTCCGCTATCTTTCAGAGAAGGCTTGC-ACCAAAATACAAGGATC
1 GTGAACCTTGGTGAAAACATTTCCGCTATCTTTCAGACAAGGCTT-CTACCAAAATACAAGGATC
7435893 AATGCATGTTCTTCATACCTTGCAAACC
65 AATGCATGTTCTTCATACCTTGCAAACC
7435921 CGACAATGTC
Statistics
Matches: 90, Mismatches: 1, Indels: 2
0.97 0.01 0.02
Matches are distributed among these distances:
95 89 0.99
96 1 0.01
ACGTcount: A:0.31, C:0.24, G:0.17, T:0.28
Consensus pattern (95 bp):
GTGAACCTTGGTGAAAACATTTCCGCTATCTTTCAGACAAGGCTTCTACCAAAATACAAGGATCA
ATGCATGTTCTTCATACCTTGCAAACCTTG
Found at i:7438018 original size:73 final size:73
Alignment explanation
Indices: 7437899--7438045 Score: 294
Period size: 73 Copynumber: 2.0 Consensus size: 73
7437889 ATTTGATCAT
7437899 GCAGATCTGAAGTGTATTTGATGAATATGAAGGAAACGAAGCCAAGATTGATTTGTTAGATTCTT
1 GCAGATCTGAAGTGTATTTGATGAATATGAAGGAAACGAAGCCAAGATTGATTTGTTAGATTCTT
7437964 CTGCTTCA
66 CTGCTTCA
7437972 GCAGATCTGAAGTGTATTTGATGAATATGAAGGAAACGAAGCCAAGATTGATTTGTTAGATTCTT
1 GCAGATCTGAAGTGTATTTGATGAATATGAAGGAAACGAAGCCAAGATTGATTTGTTAGATTCTT
7438037 CTGCTTCA
66 CTGCTTCA
7438045 G
1 G
7438046 GAATTTGATC
Statistics
Matches: 74, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
73 74 1.00
ACGTcount: A:0.31, C:0.12, G:0.24, T:0.33
Consensus pattern (73 bp):
GCAGATCTGAAGTGTATTTGATGAATATGAAGGAAACGAAGCCAAGATTGATTTGTTAGATTCTT
CTGCTTCA
Found at i:7439428 original size:20 final size:20
Alignment explanation
Indices: 7439403--7439451 Score: 89
Period size: 20 Copynumber: 2.5 Consensus size: 20
7439393 GATGAACCGA
7439403 GAGCTTAAAGAAAGGTCGTC
1 GAGCTTAAAGAAAGGTCGTC
7439423 GAGCTTAAAGAAAGGTCGTC
1 GAGCTTAAAGAAAGGTCGTC
*
7439443 AAGCTTAAA
1 GAGCTTAAA
7439452 TGATGTTAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.39, C:0.14, G:0.27, T:0.20
Consensus pattern (20 bp):
GAGCTTAAAGAAAGGTCGTC
Found at i:7444327 original size:17 final size:17
Alignment explanation
Indices: 7444305--7444341 Score: 74
Period size: 17 Copynumber: 2.2 Consensus size: 17
7444295 TCTAGAAGAT
7444305 GAAGTAGAATCTAACCA
1 GAAGTAGAATCTAACCA
7444322 GAAGTAGAATCTAACCA
1 GAAGTAGAATCTAACCA
7444339 GAA
1 GAA
7444342 TTACAAGACG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.49, C:0.16, G:0.19, T:0.16
Consensus pattern (17 bp):
GAAGTAGAATCTAACCA
Found at i:7466956 original size:17 final size:18
Alignment explanation
Indices: 7466919--7466957 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 18
7466909 ACTCAACCCT
*
7466919 ATTTAATATAAATTAAGA
1 ATTTAATATAAAATAAGA
*
7466937 ATTTAAT-TAAAATAATA
1 ATTTAATATAAAATAAGA
7466954 ATTT
1 ATTT
7466958 TTTAAAATTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 12 0.63
18 7 0.37
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.44
Consensus pattern (18 bp):
ATTTAATATAAAATAAGA
Found at i:7467933 original size:29 final size:28
Alignment explanation
Indices: 7467880--7467934 Score: 74
Period size: 28 Copynumber: 1.9 Consensus size: 28
7467870 AAATTTGCAT
*
7467880 TGTTAATTTTTAACTTATTATTTTTACA
1 TGTTAATTTTTAACTTATTAATTTTACA
* *
7467908 TGTTAATTTTTTATTTATTTAATTTTA
1 TGTTAATTTTTAACTTA-TTAATTTTA
7467935 GTTTTAATTG
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
28 15 0.65
29 8 0.35
ACGTcount: A:0.27, C:0.04, G:0.04, T:0.65
Consensus pattern (28 bp):
TGTTAATTTTTAACTTATTAATTTTACA
Found at i:7481582 original size:19 final size:19
Alignment explanation
Indices: 7481551--7481601 Score: 66
Period size: 19 Copynumber: 2.6 Consensus size: 19
7481541 TAAAGTCAAT
*
7481551 GGTCAACAGTTAATGGTTCA
1 GGTCAA-AGTTAATGGGTCA
*
7481571 GGTCAAAGTTAATGGGTCG
1 GGTCAAAGTTAATGGGTCA
*
7481590 GGTTAAAGTTAA
1 GGTCAAAGTTAA
7481602 CAGGTCGGGT
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
19 22 0.79
20 6 0.21
ACGTcount: A:0.31, C:0.10, G:0.29, T:0.29
Consensus pattern (19 bp):
GGTCAAAGTTAATGGGTCA
Found at i:7481607 original size:19 final size:19
Alignment explanation
Indices: 7481575--7481612 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
7481565 GGTTCAGGTC
**
7481575 AAAGTTAATGGGTCGGGTT
1 AAAGTTAACAGGTCGGGTT
7481594 AAAGTTAACAGGTCGGGTT
1 AAAGTTAACAGGTCGGGTT
7481613 GACTCGATTC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.29, C:0.08, G:0.34, T:0.29
Consensus pattern (19 bp):
AAAGTTAACAGGTCGGGTT
Found at i:7483090 original size:40 final size:40
Alignment explanation
Indices: 7483030--7483139 Score: 193
Period size: 40 Copynumber: 2.8 Consensus size: 40
7483020 ATATTTGTGC
*
7483030 TACACATAAGGTCGTACCCACCATATACACCGAAGTGCAT
1 TACACATAAGGTCGTGCCCACCATATACACCGAAGTGCAT
*
7483070 TACACATAAGGTCGTGCCCACCATATACACCGAAGTGTAT
1 TACACATAAGGTCGTGCCCACCATATACACCGAAGTGCAT
*
7483110 TACACATAAGGTCGTGCCCGCCATATACAC
1 TACACATAAGGTCGTGCCCACCATATACAC
7483140 TTAGTGTCCT
Statistics
Matches: 67, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 67 1.00
ACGTcount: A:0.33, C:0.30, G:0.16, T:0.21
Consensus pattern (40 bp):
TACACATAAGGTCGTGCCCACCATATACACCGAAGTGCAT
Found at i:7489256 original size:30 final size:30
Alignment explanation
Indices: 7489179--7489267 Score: 92
Period size: 30 Copynumber: 3.0 Consensus size: 30
7489169 GAACAATTTT
* * *
7489179 AACTTTTTAAAA-TTACTATTTTGGTCCCTA
1 AACTTTTCAAAATTTA-TAATTTGGTCACTA
* *
7489209 AACTTTTCAAAGTTTATACTTTGGTCACTA
1 AACTTTTCAAAATTTATAATTTGGTCACTA
*
7489239 AAC-TTTCAAAATCTTATAATTTGGCCACT
1 AACTTTTCAAAAT-TTATAATTTGGTCACT
7489268 CACTAAATCC
Statistics
Matches: 50, Mismatches: 7, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
29 8 0.16
30 39 0.78
31 3 0.06
ACGTcount: A:0.31, C:0.18, G:0.08, T:0.43
Consensus pattern (30 bp):
AACTTTTCAAAATTTATAATTTGGTCACTA
Found at i:7491209 original size:40 final size:40
Alignment explanation
Indices: 7491117--7491194 Score: 129
Period size: 40 Copynumber: 1.9 Consensus size: 40
7491107 TTTGCATCGT
* * *
7491117 AGTGTTTTACACATAAGGTCGTGCCCACCTTATACACTAA
1 AGTGTATTACACATAAAGTCGTGCCCACCATATACACTAA
7491157 AGTGTATTACACATAAAGTCGTGCCCACCATATACACT
1 AGTGTATTACACATAAAGTCGTGCCCACCATATACACT
7491195 TAGTGTCCTT
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 35 1.00
ACGTcount: A:0.32, C:0.26, G:0.14, T:0.28
Consensus pattern (40 bp):
AGTGTATTACACATAAAGTCGTGCCCACCATATACACTAA
Found at i:7494665 original size:39 final size:39
Alignment explanation
Indices: 7494637--7494767 Score: 140
Period size: 39 Copynumber: 3.4 Consensus size: 39
7494627 TATTAAATGG
7494637 GATAATGCCTAAGGTGAGGATGTTGAGTGCAATAAAGGA
1 GATAATGCCTAAGGTGAGGATGTTGAGTGCAATAAAGGA
* * * *
7494676 GATAATG-CTAAGGTAAGGATATTGATTGCAATAAAGGC
1 GATAATGCCTAAGGTGAGGATGTTGAGTGCAATAAAGGA
* * * ** *
7494714 GATAAAT-CCTAAGGTGAGGGTGATGAGTTCAATAGGGGC
1 GAT-AATGCCTAAGGTGAGGATGTTGAGTGCAATAAAGGA
*
7494753 GATAATGCCCAAGGT
1 GATAATGCCTAAGGT
7494768 TGTGATGAAA
Statistics
Matches: 76, Mismatches: 13, Indels: 6
0.80 0.14 0.06
Matches are distributed among these distances:
38 33 0.43
39 43 0.57
ACGTcount: A:0.35, C:0.10, G:0.31, T:0.24
Consensus pattern (39 bp):
GATAATGCCTAAGGTGAGGATGTTGAGTGCAATAAAGGA
Found at i:7494706 original size:38 final size:38
Alignment explanation
Indices: 7494637--7494728 Score: 121
Period size: 38 Copynumber: 2.4 Consensus size: 38
7494627 TATTAAATGG
* *
7494637 GATAATGCCTAAGGTGAGGATGTTGAGTGCAATAAAGGA
1 GATAATG-CTAAGGTAAGGATATTGAGTGCAATAAAGGA
* *
7494676 GATAATGCTAAGGTAAGGATATTGATTGCAATAAAGGC
1 GATAATGCTAAGGTAAGGATATTGAGTGCAATAAAGGA
*
7494714 GATAAATCCTAAGGT
1 GAT-AATGCTAAGGT
7494729 GAGGGTGATG
Statistics
Matches: 47, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
38 30 0.64
39 17 0.36
ACGTcount: A:0.38, C:0.09, G:0.28, T:0.25
Consensus pattern (38 bp):
GATAATGCTAAGGTAAGGATATTGAGTGCAATAAAGGA
Found at i:7496015 original size:5 final size:6
Alignment explanation
Indices: 7495999--7496032 Score: 50
Period size: 6 Copynumber: 5.5 Consensus size: 6
7495989 TTTTTTTCCC
*
7495999 ATTTTT ATTTTT ATTTTT ATCTATT ATTTTT ATT
1 ATTTTT ATTTTT ATTTTT AT-TTTT ATTTTT ATT
7496033 ATATTATATA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
6 20 0.80
7 5 0.20
ACGTcount: A:0.21, C:0.03, G:0.00, T:0.76
Consensus pattern (6 bp):
ATTTTT
Found at i:7496044 original size:2 final size:2
Alignment explanation
Indices: 7496032--7496075 Score: 81
Period size: 2 Copynumber: 22.5 Consensus size: 2
7496022 TTATTTTTAT
7496032 TA TA T- 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
7496073 TA T
1 TA T
7496076 TATTACTATT
Statistics
Matches: 41, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.02
2 40 0.98
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:7497733 original size:145 final size:143
Alignment explanation
Indices: 7497566--7497950 Score: 653
Period size: 145 Copynumber: 2.7 Consensus size: 143
7497556 ATTAAATAAA
* *
7497566 AATATTTATTTATTTTTTAATATTAAGAAAGGGGTTGTCTTAAAGTAACTAGATATCCTTTTCTG
1 AATATTTATTTATTTTTTAATATTAAGAAAGGGGTTGTCTTAAAGTAACTAGATGTCATTTTCTG
7497631 ATATTTTTAAATAAATCAAATATTATATTTAATCTAATTTTATTTACATTATTTTTTAGGAAAAA
66 ATATTTTTAAATAAAT-AAATATTATATTTAATCTAATTTTATTTACATTATTTTTTAGGAAAAA
7497696 TTATCATATTATTT
130 TTATCATATTATTT
7497710 AATATTTATTTATTTTTTTAATATTAAGAAAGGGGTTGTCTTAAAGTAACTAGATGTCATTTTCT
1 AATATTTATTTA-TTTTTTAATATTAAGAAAGGGGTTGTCTTAAAGTAACTAGATGTCATTTTCT
*
7497775 GATATTTTTAAATAAATAAAATATTATATTTAATCTAATTTTATTTACATTATTTTTTAGGAACA
65 GATATTTTTAAATAAAT-AAATATTATATTTAATCTAATTTTATTTACATTATTTTTTAGGAAAA
7497840 ATTATCATATTATTT
129 ATTATCATATTATTT
* * * * *
7497855 AATATTTATTTATTTTTTAATATTAAAGAAAGAGGTTATCTTAAAGCAACAATATGTCATTTTCT
1 AATATTTATTTATTTTTTAATATT-AAGAAAGGGGTTGTCTTAAAGTAACTAGATGTCATTTTCT
*
7497920 GATATTTTTAAATAAATAAATATTTTATTTA
65 GATATTTTTAAATAAATAAATATTATATTTA
7497951 TAATTTCTAA
Statistics
Matches: 229, Mismatches: 10, Indels: 4
0.94 0.04 0.02
Matches are distributed among these distances:
144 37 0.16
145 192 0.84
ACGTcount: A:0.38, C:0.06, G:0.08, T:0.49
Consensus pattern (143 bp):
AATATTTATTTATTTTTTAATATTAAGAAAGGGGTTGTCTTAAAGTAACTAGATGTCATTTTCTG
ATATTTTTAAATAAATAAATATTATATTTAATCTAATTTTATTTACATTATTTTTTAGGAAAAAT
TATCATATTATTT
Found at i:7501492 original size:20 final size:20
Alignment explanation
Indices: 7501467--7501515 Score: 89
Period size: 20 Copynumber: 2.5 Consensus size: 20
7501457 TCGACCTGTA
7501467 TGAAGAAAATTGGAAAATTT
1 TGAAGAAAATTGGAAAATTT
7501487 TGAAGAAAATTGGAAAATTT
1 TGAAGAAAATTGGAAAATTT
*
7501507 TGTAGAAAA
1 TGAAGAAAA
7501516 GTTATACAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.51, C:0.00, G:0.20, T:0.29
Consensus pattern (20 bp):
TGAAGAAAATTGGAAAATTT
Found at i:7504486 original size:18 final size:18
Alignment explanation
Indices: 7504463--7504502 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
7504453 GGAATGTTTT
*
7504463 ATTACCGGCGGGAATAGG
1 ATTACCGGCGGGAATAAG
**
7504481 ATTACCGGTTGGAATAAG
1 ATTACCGGCGGGAATAAG
7504499 ATTA
1 ATTA
7504503 TTGGGAATGT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.33, C:0.12, G:0.30, T:0.25
Consensus pattern (18 bp):
ATTACCGGCGGGAATAAG
Found at i:7509909 original size:27 final size:27
Alignment explanation
Indices: 7509860--7509917 Score: 73
Period size: 27 Copynumber: 2.1 Consensus size: 27
7509850 GCTTAGAGGT
* *
7509860 ATTTTAGGTCATTTAACATTTTAGGGAC
1 ATTTTAGGTCATTTAACACTTTA-AGAC
*
7509888 ATTTT-GGTCATTTTACACTTTAAGAC
1 ATTTTAGGTCATTTAACACTTTAAGAC
7509914 ATTT
1 ATTT
7509918 CTATAAATCC
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
26 7 0.26
27 15 0.56
28 5 0.19
ACGTcount: A:0.28, C:0.12, G:0.14, T:0.47
Consensus pattern (27 bp):
ATTTTAGGTCATTTAACACTTTAAGAC
Found at i:7510346 original size:3 final size:3
Alignment explanation
Indices: 7510338--7510378 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
7510328 ATCACCGAGC
7510338 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
7510379 TCGTATTGAT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:7510920 original size:15 final size:15
Alignment explanation
Indices: 7510900--7510952 Score: 58
Period size: 15 Copynumber: 3.6 Consensus size: 15
7510890 TGACTCGGAT
7510900 GAGTTGACTCATACC
1 GAGTTGACTCATACC
7510915 GAGTTGACTCGA-A-C
1 GAGTTGACTC-ATACC
*
7510929 GGGTTGACTC-TAACC
1 GAGTTGACTCAT-ACC
7510944 GAGTTGACT
1 GAGTTGACT
7510953 TAGTGACTGG
Statistics
Matches: 32, Mismatches: 2, Indels: 8
0.76 0.05 0.19
Matches are distributed among these distances:
14 11 0.34
15 20 0.62
16 1 0.03
ACGTcount: A:0.25, C:0.23, G:0.26, T:0.26
Consensus pattern (15 bp):
GAGTTGACTCATACC
Found at i:7510934 original size:29 final size:29
Alignment explanation
Indices: 7510886--7510952 Score: 91
Period size: 29 Copynumber: 2.3 Consensus size: 29
7510876 CAAAGTCAAT
* *
7510886 GAGTTGACTCGGATGAGTTGACTC-ATACC
1 GAGTTGACTCGAACGAGTTGACTCTA-ACC
*
7510915 GAGTTGACTCGAACGGGTTGACTCTAACC
1 GAGTTGACTCGAACGAGTTGACTCTAACC
7510944 GAGTTGACT
1 GAGTTGACT
7510953 TAGTGACTGG
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
29 33 0.97
30 1 0.03
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (29 bp):
GAGTTGACTCGAACGAGTTGACTCTAACC
Found at i:7510936 original size:14 final size:15
Alignment explanation
Indices: 7510886--7510952 Score: 68
Period size: 14 Copynumber: 4.6 Consensus size: 15
7510876 CAAAGTCAAT
* *
7510886 GAGTTGACTCGGA-T
1 GAGTTGACTCGAACC
7510900 GAGTTGACTC-ATACC
1 GAGTTGACTCGA-ACC
7510915 GAGTTGACTCGAA-C
1 GAGTTGACTCGAACC
* *
7510929 GGGTTGACTCTAACC
1 GAGTTGACTCGAACC
7510944 GAGTTGACT
1 GAGTTGACT
7510953 TAGTGACTGG
Statistics
Matches: 44, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
14 23 0.52
15 20 0.45
16 1 0.02
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (15 bp):
GAGTTGACTCGAACC
Found at i:7511593 original size:14 final size:14
Alignment explanation
Indices: 7511574--7511601 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
7511564 CAACCCAAGA
7511574 AAAATGGGATAATT
1 AAAATGGGATAATT
7511588 AAAATGGGATAATT
1 AAAATGGGATAATT
7511602 CGGGTTTAAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.50, C:0.00, G:0.21, T:0.29
Consensus pattern (14 bp):
AAAATGGGATAATT
Found at i:7513061 original size:36 final size:36
Alignment explanation
Indices: 7513019--7513094 Score: 143
Period size: 36 Copynumber: 2.1 Consensus size: 36
7513009 TATAGCTAAA
*
7513019 AAAAATCGTCTTTATTCGAATTTTGCCAAAAATAGC
1 AAAAATCGTATTTATTCGAATTTTGCCAAAAATAGC
7513055 AAAAATCGTATTTATTCGAATTTTGCCAAAAATAGC
1 AAAAATCGTATTTATTCGAATTTTGCCAAAAATAGC
7513091 AAAA
1 AAAA
7513095 TCCCGAAAAT
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
36 39 1.00
ACGTcount: A:0.43, C:0.14, G:0.11, T:0.32
Consensus pattern (36 bp):
AAAAATCGTATTTATTCGAATTTTGCCAAAAATAGC
Found at i:7517580 original size:15 final size:15
Alignment explanation
Indices: 7517562--7517591 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
7517552 CCACGGTGCT
7517562 CCCGGAATCCTGCGC
1 CCCGGAATCCTGCGC
7517577 CCCGGAATCCTGCGC
1 CCCGGAATCCTGCGC
7517592 GATTGTGATA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.47, G:0.27, T:0.13
Consensus pattern (15 bp):
CCCGGAATCCTGCGC
Found at i:7518067 original size:36 final size:36
Alignment explanation
Indices: 7518017--7518092 Score: 143
Period size: 36 Copynumber: 2.1 Consensus size: 36
7518007 ATAGCTAAAA
*
7518017 AAAAATCGTCTTTATTCGAATTTTGCCAAAAATAGC
1 AAAAATCGTATTTATTCGAATTTTGCCAAAAATAGC
7518053 AAAAATCGTATTTATTCGAATTTTGCCAAAAATAGC
1 AAAAATCGTATTTATTCGAATTTTGCCAAAAATAGC
7518089 AAAA
1 AAAA
7518093 TCCCGAAAAT
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
36 39 1.00
ACGTcount: A:0.43, C:0.14, G:0.11, T:0.32
Consensus pattern (36 bp):
AAAAATCGTATTTATTCGAATTTTGCCAAAAATAGC
Found at i:7520986 original size:45 final size:45
Alignment explanation
Indices: 7520922--7521142 Score: 374
Period size: 45 Copynumber: 4.9 Consensus size: 45
7520912 GTAACCATGC
7520922 AAATAAGCTTACGAGCTTATGGGATAAATGGTAAGTATATTGGTA
1 AAATAAGCTTACGAGCTTATGGGATAAATGGTAAGTATATTGGTA
*
7520967 AAATAAGCTTACGAGCTTATGGGATAAGTGGTAAGTATATTGGTA
1 AAATAAGCTTACGAGCTTATGGGATAAATGGTAAGTATATTGGTA
* * *
7521012 AAATAATCTTACGAGCTTATGTGATAAATGGTAAGCATATTGGTA
1 AAATAAGCTTACGAGCTTATGGGATAAATGGTAAGTATATTGGTA
7521057 AAATAAGCTT-CGAGCTTATGGGATAAATGGTAAGTATATTGGTA
1 AAATAAGCTTACGAGCTTATGGGATAAATGGTAAGTATATTGGTA
*
7521101 AAATAAGCTTACGAGCTTATGGGATAAATAGG-AAATATATTG
1 AAATAAGCTTACGAGCTTATGGGATAAAT-GGTAAGTATATTG
7521143 ATAAGAAATT
Statistics
Matches: 165, Mismatches: 9, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
44 42 0.25
45 121 0.73
46 2 0.01
ACGTcount: A:0.38, C:0.07, G:0.24, T:0.31
Consensus pattern (45 bp):
AAATAAGCTTACGAGCTTATGGGATAAATGGTAAGTATATTGGTA
Found at i:7521141 original size:89 final size:90
Alignment explanation
Indices: 7520922--7521142 Score: 374
Period size: 89 Copynumber: 2.5 Consensus size: 90
7520912 GTAACCATGC
7520922 AAATAAGCTTACGAGCTTATGGGATAAATGGTAAGTATATTGGTAAAATAAGCTTACGAGCTTAT
1 AAATAAGCTTACGAGCTTATGGGATAAATGGTAAGTATATTGGTAAAATAAGCTTACGAGCTTAT
*
7520987 GGGATAAGTGGTAAGTATATTGGTA
66 GGGATAAATGGTAAGTATATTGGTA
* * *
7521012 AAATAATCTTACGAGCTTATGTGATAAATGGTAAGCATATTGGTAAAATAAGCTT-CGAGCTTAT
1 AAATAAGCTTACGAGCTTATGGGATAAATGGTAAGTATATTGGTAAAATAAGCTTACGAGCTTAT
7521076 GGGATAAATGGTAAGTATATTGGTA
66 GGGATAAATGGTAAGTATATTGGTA
*
7521101 AAATAAGCTTACGAGCTTATGGGATAAATAGG-AAATATATTG
1 AAATAAGCTTACGAGCTTATGGGATAAAT-GGTAAGTATATTG
7521143 ATAAGAAATT
Statistics
Matches: 122, Mismatches: 8, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
89 68 0.56
90 54 0.44
ACGTcount: A:0.38, C:0.07, G:0.24, T:0.31
Consensus pattern (90 bp):
AAATAAGCTTACGAGCTTATGGGATAAATGGTAAGTATATTGGTAAAATAAGCTTACGAGCTTAT
GGGATAAATGGTAAGTATATTGGTA
Found at i:7523797 original size:3 final size:3
Alignment explanation
Indices: 7523789--7523814 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
7523779 ATCACCGAGC
7523789 TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TT
7523815 TCCTATTGAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:7530173 original size:6 final size:6
Alignment explanation
Indices: 7530160--7530201 Score: 57
Period size: 6 Copynumber: 7.0 Consensus size: 6
7530150 ACCCTTGTGT
* * *
7530160 CATGAC CGTGAC CGTGAC CGTGAC CATGAC CATGAC CATGAC
1 CATGAC CATGAC CATGAC CATGAC CATGAC CATGAC CATGAC
7530202 ATATGGGTCT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
6 34 1.00
ACGTcount: A:0.26, C:0.33, G:0.24, T:0.17
Consensus pattern (6 bp):
CATGAC
Found at i:7530179 original size:12 final size:12
Alignment explanation
Indices: 7530160--7530201 Score: 66
Period size: 12 Copynumber: 3.5 Consensus size: 12
7530150 ACCCTTGTGT
7530160 CATGACCGTGAC
1 CATGACCGTGAC
*
7530172 CGTGACCGTGAC
1 CATGACCGTGAC
*
7530184 CATGACCATGAC
1 CATGACCGTGAC
7530196 CATGAC
1 CATGAC
7530202 ATATGGGTCT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
12 27 1.00
ACGTcount: A:0.26, C:0.33, G:0.24, T:0.17
Consensus pattern (12 bp):
CATGACCGTGAC
Found at i:7534464 original size:2 final size:2
Alignment explanation
Indices: 7534355--7534448 Score: 63
Period size: 2 Copynumber: 49.0 Consensus size: 2
7534345 CATACCATAC
* * * * *
7534355 AT AT AT AT AT GT AC GT AT AT AT AT AT AT AT AT AT AT -T AC CT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* * * *
7534396 -T ACC AT AT -T A- AA AT AT AC A- AT TT AT AT AT AT AT AT AT AT
1 AT A-T AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
7534435 AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT
7534449 TCTTTAAACA
Statistics
Matches: 71, Mismatches: 15, Indels: 12
0.72 0.15 0.12
Matches are distributed among these distances:
1 5 0.07
2 65 0.92
3 1 0.01
ACGTcount: A:0.46, C:0.06, G:0.02, T:0.46
Consensus pattern (2 bp):
AT
Found at i:7536226 original size:4 final size:4
Alignment explanation
Indices: 7536219--7537168 Score: 1679
Period size: 4 Copynumber: 240.0 Consensus size: 4
7536209 ACACATATAT
7536219 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
7536267 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
7536315 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
*
7536363 ATAC ATAAT ATAC ATAC ATAC ATA- ATAC ATAC ATA- ATAC ATAC ATAC
1 ATAC AT-AC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
7536410 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
7536458 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
7536506 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
*
7536554 ATAC ATAC ATGC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
7536602 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
* * * * * *
7536650 ATAC ATGC ATGC ATGC ATAC ATAC AAAC ATAC ATAC ATGC ATGC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
* * * *
7536698 ATAC AGAC ATAC ATAC ATAC ATAT ATGC ATAC AT-- ATAT ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
* *
7536744 ATAC AT-- ATAC ATAC ATAC AT-- ATAC ATAC ATAT ATAT ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
7536788 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
*
7536836 ATAC ATAC ATAC ATAC ATAT ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
7536884 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
7536932 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
7536980 ATAC ATAC ATAC AT-- ATAC ATAC ATAC ATAC ATAC -TAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
7537025 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
7537073 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
7537121 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
7537169 TCCTTACTTT
Statistics
Matches: 913, Mismatches: 21, Indels: 24
0.95 0.02 0.03
Matches are distributed among these distances:
2 8 0.01
3 9 0.01
4 893 0.98
5 3 0.00
ACGTcount: A:0.49, C:0.24, G:0.01, T:0.26
Consensus pattern (4 bp):
ATAC
Found at i:7536739 original size:10 final size:10
Alignment explanation
Indices: 7536714--7536790 Score: 68
Period size: 10 Copynumber: 7.7 Consensus size: 10
7536704 ACATACATAC
7536714 ATACATATAT
1 ATACATATAT
7536724 GCATACATATAT
1 --ATACATATAT
*
7536736 ATAC--ATAC
1 ATACATATAT
*
7536744 ATACATATAC
1 ATACATATAT
*
7536754 ATACATACAT
1 ATACATATAT
*
7536764 ATACATACAT
1 ATACATATAT
* *
7536774 ATATATATAC
1 ATACATATAT
7536784 ATACATA
1 ATACATA
7536791 CATACATACA
Statistics
Matches: 56, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
8 7 0.12
10 39 0.70
12 10 0.18
ACGTcount: A:0.49, C:0.17, G:0.01, T:0.32
Consensus pattern (10 bp):
ATACATATAT
Found at i:7537385 original size:21 final size:21
Alignment explanation
Indices: 7537335--7537385 Score: 70
Period size: 20 Copynumber: 2.5 Consensus size: 21
7537325 TAAAAATAGT
*
7537335 ATGAAGTATCGATACTTGCAT
1 ATGAAGTATCGATACTTGCAA
7537356 AT-AAGTATCGATACTTG-AA
1 ATGAAGTATCGATACTTGCAA
7537375 ATGAGAGTATC
1 ATGA-AGTATC
7537386 AACACTCTCT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
19 3 0.11
20 16 0.59
21 8 0.30
ACGTcount: A:0.37, C:0.12, G:0.20, T:0.31
Consensus pattern (21 bp):
ATGAAGTATCGATACTTGCAA
Found at i:7543077 original size:19 final size:18
Alignment explanation
Indices: 7543055--7543100 Score: 65
Period size: 19 Copynumber: 2.4 Consensus size: 18
7543045 ACAAATAATT
*
7543055 AATAAAATAAAAAATATAC
1 AATAAAATAAAAAA-ATAA
7543074 AATAAATATAAAAAAATAA
1 AATAAA-ATAAAAAAATAA
7543093 AATAAAAT
1 AATAAAAT
7543101 TTATACTTTC
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
18 2 0.08
19 15 0.60
20 8 0.32
ACGTcount: A:0.76, C:0.02, G:0.00, T:0.22
Consensus pattern (18 bp):
AATAAAATAAAAAAATAA
Found at i:7543095 original size:26 final size:28
Alignment explanation
Indices: 7543019--7543096 Score: 76
Period size: 26 Copynumber: 2.9 Consensus size: 28
7543009 TTTATAACTG
* *
7543019 CAAA-AAATAAAAAAAAAATATTAAT-TA
1 CAAATAAATAATAAAAAAATA-AAATATA
* *
7543046 CAAATAATTAATAAAATAA-AAAATATA
1 CAAATAAATAATAAAAAAATAAAATATA
7543073 C-AATAAAT-ATAAAAAAATAAAATA
1 CAAATAAATAATAAAAAAATAAAATA
7543097 AAATTTATAC
Statistics
Matches: 42, Mismatches: 6, Indels: 7
0.76 0.11 0.13
Matches are distributed among these distances:
25 8 0.19
26 15 0.36
27 8 0.19
28 11 0.26
ACGTcount: A:0.73, C:0.04, G:0.00, T:0.23
Consensus pattern (28 bp):
CAAATAAATAATAAAAAAATAAAATATA
Found at i:7544443 original size:10 final size:11
Alignment explanation
Indices: 7544430--7544471 Score: 52
Period size: 10 Copynumber: 3.9 Consensus size: 11
7544420 CCCGTCCCGA
7544430 GTCG-GGTCGG
1 GTCGTGGTCGG
7544440 GTCG-GGTCGG
1 GTCGTGGTCGG
*
7544450 ATCGTGGTCGTG
1 GTCGTGGTCG-G
7544462 GTCGTGGTCG
1 GTCGTGGTCG
7544472 TGGTAATACG
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
10 13 0.46
11 5 0.18
12 10 0.36
ACGTcount: A:0.02, C:0.19, G:0.52, T:0.26
Consensus pattern (11 bp):
GTCGTGGTCGG
Found at i:7544622 original size:20 final size:20
Alignment explanation
Indices: 7544597--7544772 Score: 172
Period size: 20 Copynumber: 8.7 Consensus size: 20
7544587 ACTGTAGACT
7544597 ATCGCAACGCGAAATGGAAA
1 ATCGCAACGCGAAATGGAAA
** ** *
7544617 ATCGCAACGCGATTTTCAATT
1 ATCGCAACGCGAAATGGAA-A
7544638 ATCGCAACGCGAAATGGAAA
1 ATCGCAACGCGAAATGGAAA
** ** *
7544658 ATCGCAACGCGATTTTCAACT
1 ATCGCAACGCGAAATGGAA-A
7544679 ATCGCAACGCGAAATGGAAA
1 ATCGCAACGCGAAATGGAAA
* ** ** *
7544699 AGCGCAACGCGATTTTCAACT
1 ATCGCAACGCGAAATGGAA-A
*
7544720 ATCGCAACGCGAAATGAAAA
1 ATCGCAACGCGAAATGGAAA
7544740 ATCGCAACGCGAAATGGAAA
1 ATCGCAACGCGAAATGGAAA
7544760 ATCGCAACGCGAA
1 ATCGCAACGCGAA
7544773 TTTGCGATAG
Statistics
Matches: 120, Mismatches: 33, Indels: 6
0.75 0.21 0.04
Matches are distributed among these distances:
20 76 0.63
21 44 0.37
ACGTcount: A:0.39, C:0.23, G:0.21, T:0.16
Consensus pattern (20 bp):
ATCGCAACGCGAAATGGAAA
Found at i:7544641 original size:41 final size:41
Alignment explanation
Indices: 7544594--7544751 Score: 289
Period size: 41 Copynumber: 3.9 Consensus size: 41
7544584 ACAACTGTAG
7544594 ACTATCGCAACGCGAAATGGAAAATCGCAACGCGATTTTCA
1 ACTATCGCAACGCGAAATGGAAAATCGCAACGCGATTTTCA
*
7544635 ATTATCGCAACGCGAAATGGAAAATCGCAACGCGATTTTCA
1 ACTATCGCAACGCGAAATGGAAAATCGCAACGCGATTTTCA
*
7544676 ACTATCGCAACGCGAAATGGAAAAGCGCAACGCGATTTTCA
1 ACTATCGCAACGCGAAATGGAAAATCGCAACGCGATTTTCA
*
7544717 ACTATCGCAACGCGAAATGAAAAATCGCAACGCGA
1 ACTATCGCAACGCGAAATGGAAAATCGCAACGCGA
7544752 AATGGAAAAT
Statistics
Matches: 112, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
41 112 1.00
ACGTcount: A:0.38, C:0.24, G:0.20, T:0.18
Consensus pattern (41 bp):
ACTATCGCAACGCGAAATGGAAAATCGCAACGCGATTTTCA
Found at i:7544643 original size:21 final size:20
Alignment explanation
Indices: 7544617--7544731 Score: 104
Period size: 21 Copynumber: 5.6 Consensus size: 20
7544607 GAAATGGAAA
7544617 ATCGCAACGCGATTTTCAATT
1 ATCGCAACGCGATTTTCAA-T
** ** *
7544638 ATCGCAACGCGAAATGGAAA
1 ATCGCAACGCGATTTTCAAT
7544658 ATCGCAACGCGATTTTCAACT
1 ATCGCAACGCGATTTTCAA-T
** ** *
7544679 ATCGCAACGCGAAATGGAAA
1 ATCGCAACGCGATTTTCAAT
*
7544699 AGCGCAACGCGATTTTCAACT
1 ATCGCAACGCGATTTTCAA-T
7544720 ATCGCAACGCGA
1 ATCGCAACGCGA
7544732 AATGAAAAAT
Statistics
Matches: 70, Mismatches: 22, Indels: 4
0.73 0.23 0.04
Matches are distributed among these distances:
20 29 0.41
21 41 0.59
ACGTcount: A:0.35, C:0.25, G:0.20, T:0.20
Consensus pattern (20 bp):
ATCGCAACGCGATTTTCAAT
Found at i:7544705 original size:61 final size:61
Alignment explanation
Indices: 7544597--7544772 Score: 156
Period size: 61 Copynumber: 2.9 Consensus size: 61
7544587 ACTGTAGACT
** ** ** * * *
7544597 ATCGCAACGCGAAATGGAAAATCGCAACGCGATTTTCAATTATCGCAACGCGAAATGGAA-A
1 ATCGCAACGCGAAATCAAAAATCGCAACGCGAAATGGAA-AAGCGCAACGCGAAATGCAACA
** ** ** * *
7544658 ATCGCAACGCGATTTTCAACTATCGCAACGCGAAATGGAAAAGCGCAACGCGATTTTCAACT
1 ATCGCAACGCGA-AATCAAAAATCGCAACGCGAAATGGAAAAGCGCAACGCGAAATGCAACA
* *
7544720 ATCGCAACGCGAAATGAAAAATCGCAACGCGAAATGGAAAATCGCAACGCGAA
1 ATCGCAACGCGAAATCAAAAATCGCAACGCGAAATGGAAAAGCGCAACGCGAA
7544773 TTTGCGATAG
Statistics
Matches: 89, Mismatches: 24, Indels: 4
0.76 0.21 0.03
Matches are distributed among these distances:
61 60 0.67
62 29 0.33
ACGTcount: A:0.39, C:0.23, G:0.21, T:0.16
Consensus pattern (61 bp):
ATCGCAACGCGAAATCAAAAATCGCAACGCGAAATGGAAAAGCGCAACGCGAAATGCAACA
Found at i:7544779 original size:28 final size:28
Alignment explanation
Indices: 7544748--7544802 Score: 67
Period size: 28 Copynumber: 2.0 Consensus size: 28
7544738 AAATCGCAAC
7544748 GCGA-AATGGAAAATCGCAACGCGAATTT
1 GCGATAATGG-AAATCGCAACGCGAATTT
* * *
7544776 GCGATAGTGGAGATCGCAATGCGAATT
1 GCGATAATGGAAATCGCAACGCGAATT
7544803 AGAGATCGCA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
28 19 0.83
29 4 0.17
ACGTcount: A:0.35, C:0.16, G:0.29, T:0.20
Consensus pattern (28 bp):
GCGATAATGGAAATCGCAACGCGAATTT
Found at i:7547314 original size:6 final size:6
Alignment explanation
Indices: 7547303--7547366 Score: 68
Period size: 6 Copynumber: 11.3 Consensus size: 6
7547293 ACTATTTATA
7547303 ATTAAT ATTAAT A-TAA- ATTATAT ATT-AT AATTAAT ATTAAT ATTAAT
1 ATTAAT ATTAAT ATTAAT ATTA-AT ATTAAT -ATTAAT ATTAAT ATTAAT
7547350 -TT-AT ATTAAT A-TAAT AT
1 ATTAAT ATTAAT ATTAAT AT
7547367 AGTTTATAAT
Statistics
Matches: 50, Mismatches: 0, Indels: 16
0.76 0.00 0.24
Matches are distributed among these distances:
4 3 0.06
5 16 0.32
6 26 0.52
7 5 0.10
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (6 bp):
ATTAAT
Found at i:7547317 original size:39 final size:36
Alignment explanation
Indices: 7547274--7547360 Score: 89
Period size: 29 Copynumber: 2.5 Consensus size: 36
7547264 TTTCATCCCT
7547274 ATATAATTTATATTAATAAACTATTTATAATTAATATTA
1 ATATAATTTATATTAAT-AA-TA-TTATAATTAATATTA
7547313 ATAT-A---A-ATT-AT-ATATTATAATTAATATTA
1 ATATAATTTATATTAATAATATTATAATTAATATTA
7547342 ATATTAATTTATATTAATA
1 ATA-TAATTTATATTAATA
7547361 TAATATAGTT
Statistics
Matches: 40, Mismatches: 0, Indels: 18
0.69 0.00 0.31
Matches are distributed among these distances:
29 18 0.45
30 3 0.08
31 2 0.05
33 2 0.05
34 4 0.10
35 4 0.10
36 2 0.05
38 1 0.03
39 4 0.10
ACGTcount: A:0.49, C:0.01, G:0.00, T:0.49
Consensus pattern (36 bp):
ATATAATTTATATTAATAATATTATAATTAATATTA
Found at i:7547374 original size:50 final size:52
Alignment explanation
Indices: 7547296--7547395 Score: 143
Period size: 50 Copynumber: 2.0 Consensus size: 52
7547286 TTAATAAACT
7547296 ATTTATAATTAATATTAATATAAATTAT-ATATTATAATTAATATTAATATTA
1 ATTTATAATTAATATTAATATAAATTATAAT-TTATAATTAATATTAATATTA
** *
7547348 ATTTAT-ATTAATA-TAATATAGTTTATAATTTGTAATTAATATTAATAT
1 ATTTATAATTAATATTAATATAAATTATAATTTATAATTAATATTAATAT
7547396 AAAATATAGT
Statistics
Matches: 44, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
50 29 0.66
51 9 0.20
52 6 0.14
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (52 bp):
ATTTATAATTAATATTAATATAAATTATAATTTATAATTAATATTAATATTA
Found at i:7547419 original size:31 final size:31
Alignment explanation
Indices: 7547381--7547443 Score: 99
Period size: 31 Copynumber: 2.0 Consensus size: 31
7547371 TATAATTTGT
7547381 AATTAATATTAATATAAAATATAGTCTATAA
1 AATTAATATTAATATAAAATATAGTCTATAA
* * *
7547412 AATTAATATTAATATAAACTATATTTTATAA
1 AATTAATATTAATATAAAATATAGTCTATAA
7547443 A
1 A
7547444 TTATATAGTA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.54, C:0.03, G:0.02, T:0.41
Consensus pattern (31 bp):
AATTAATATTAATATAAAATATAGTCTATAA
Found at i:7547433 original size:24 final size:25
Alignment explanation
Indices: 7547388--7547434 Score: 60
Period size: 24 Copynumber: 1.9 Consensus size: 25
7547378 TGTAATTAAT
**
7547388 ATTAATATAAAATATAGTCTATAAA
1 ATTAATATAAAATATAAACTATAAA
*
7547413 ATTAATAT-TAATATAAACTATA
1 ATTAATATAAAATATAAACTATA
7547435 TTTTATAAAT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
24 11 0.58
25 8 0.42
ACGTcount: A:0.55, C:0.04, G:0.02, T:0.38
Consensus pattern (25 bp):
ATTAATATAAAATATAAACTATAAA
Found at i:7547455 original size:21 final size:21
Alignment explanation
Indices: 7547424--7547491 Score: 82
Period size: 21 Copynumber: 3.2 Consensus size: 21
7547414 TTAATATTAA
*
7547424 TATAAACTATATTTTATAAAT
1 TATATACTATATTTTATAAAT
* * *
7547445 TATATAGTATAGTTTATAAAC
1 TATATACTATATTTTATAAAT
*
7547466 TATATACTATATTAATATAAAT
1 TATATACTATATT-TTATAAAT
7547488 TATA
1 TATA
7547492 GTTAAGATAA
Statistics
Matches: 38, Mismatches: 8, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
21 28 0.74
22 10 0.26
ACGTcount: A:0.47, C:0.04, G:0.03, T:0.46
Consensus pattern (21 bp):
TATATACTATATTTTATAAAT
Found at i:7547463 original size:88 final size:88
Alignment explanation
Indices: 7547358--7547565 Score: 221
Period size: 88 Copynumber: 2.4 Consensus size: 88
7547348 ATTTATATTA
** * * *
7547358 ATATAATATAGTTTATAATTTGTA-ATTAATATTAATATAAAATATAGTCTATA-A-AATTAATA
1 ATATAATATAGTTTATAAACTATATACT-ATATTAATATAAAATATAGT-TA-AGATAATTAACA
7547420 TTAATATAAACTATATTTTATAAATT
63 TTAATATAAACTATATTTTATAAATT
* *
7547446 ATATAGTATAGTTTATAAACTATATACTATATTAATATAAATTATAGTTAAGATAATTAACATTA
1 ATATAATATAGTTTATAAACTATATACTATATTAATATAAAATATAGTTAAGATAATTAACATTA
*
7547511 ATATAAACTATA---TAGTACATT
66 ATATAAACTATATTTTA-TAAATT
* *
7547532 AATATAAACTATAGTTTATAAATTAGATACTATA
1 -ATAT-AA-TATAGTTTATAAACTATATACTATA
7547566 GGTTATAAAA
Statistics
Matches: 102, Mismatches: 11, Indels: 13
0.81 0.09 0.10
Matches are distributed among these distances:
85 2 0.02
86 6 0.06
87 7 0.07
88 62 0.61
89 25 0.25
ACGTcount: A:0.49, C:0.04, G:0.05, T:0.42
Consensus pattern (88 bp):
ATATAATATAGTTTATAAACTATATACTATATTAATATAAAATATAGTTAAGATAATTAACATTA
ATATAAACTATATTTTATAAATT
Found at i:7547485 original size:110 final size:108
Alignment explanation
Indices: 7547302--7547586 Score: 242
Period size: 110 Copynumber: 2.6 Consensus size: 108
7547292 AACTATTTAT
* * *
7547302 AATTAATATTAATATAAATTATATATTAT-AATTAATATTAATATTAATTTATATTAATATAA-T
1 AATTAATATTAATATAAACTATATTTTATAAATT-ATA-TAATA-TAGTTTATA--AATATAACT
* * * **
7547365 ATAGTTTATAATTTGTAATT-A-AT-ATTAATATAAAATATAGTCTATAA
61 ATAGTTTATAAATTATAATTAAGATAATTAACAT-AAATATAAACTAT-A
*
7547412 AATTAATATTAATATAAACTATATTTTATAAATTATATAGTATAGTTTATAAACTATATACTATA
1 AATTAATATTAATATAAACTATATTTTATAAATTATATAATATAGTTTATAAA-TATA-ACTATA
* *
7547477 -TTAATATAAATTATAGTTAAGATAATTAACATTAATATAAACTATA
64 GTT--TATAAATTATAATTAAGATAATTAACATAAATATAAACTATA
* * * * * * *
7547523 TAGT-ACATTAATATAAACTATAGTTTATAAATTAGATACTATAGGTTATAAAATATAAACTATA
1 AATTAATATTAATATAAACTATATTTTATAAATTATATAATATAGTTTAT-AAATAT-AACTATA
7547587 CAGTACACTA
Statistics
Matches: 146, Mismatches: 18, Indels: 22
0.78 0.10 0.12
Matches are distributed among these distances:
106 2 0.01
107 4 0.03
108 11 0.08
109 8 0.05
110 90 0.62
111 12 0.08
112 12 0.08
113 7 0.05
ACGTcount: A:0.49, C:0.04, G:0.04, T:0.43
Consensus pattern (108 bp):
AATTAATATTAATATAAACTATATTTTATAAATTATATAATATAGTTTATAAATATAACTATAGT
TTATAAATTATAATTAAGATAATTAACATAAATATAAACTATA
Found at i:7547546 original size:20 final size:21
Alignment explanation
Indices: 7547505--7547546 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 21
7547495 AAGATAATTA
7547505 ACATTAATATAAACTATATAGT
1 ACATTAATATAAAC-ATATAGT
7547527 ACATTAATATAAAC-TATAGT
1 ACATTAATATAAACATATAGT
7547547 TTATAAATTA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
20 6 0.30
22 14 0.70
ACGTcount: A:0.50, C:0.10, G:0.05, T:0.36
Consensus pattern (21 bp):
ACATTAATATAAACATATAGT
Found at i:7547584 original size:21 final size:21
Alignment explanation
Indices: 7547532--7547586 Score: 74
Period size: 21 Copynumber: 2.6 Consensus size: 21
7547522 ATAGTACATT
*
7547532 AATATAAACTATAGTTTATAA
1 AATATAAACTATAGGTTATAA
* * *
7547553 ATTAGATACTATAGGTTATAA
1 AATATAAACTATAGGTTATAA
7547574 AATATAAACTATA
1 AATATAAACTATA
7547587 CAGTACACTA
Statistics
Matches: 27, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.51, C:0.05, G:0.07, T:0.36
Consensus pattern (21 bp):
AATATAAACTATAGGTTATAA
Done.