Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr5
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: 65570391
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1216948 characters in sequence are not A, C, G, or T
File 31 of 203
Found at i:10426560 original size:20 final size:20
Alignment explanation
Indices: 10426537--10426599 Score: 58
Period size: 20 Copynumber: 3.2 Consensus size: 20
10426527 GTATATACGC
10426537 ATATATGTATATATATATTT
1 ATATATGTATATATATATTT
* * *
10426557 ATATATATATATA-ATAATA
1 ATATATGTATATATATATTT
* *
10426576 ATA-AAGTATATATAAAATTT
1 ATATATGTATATAT-ATATTT
10426596 ATAT
1 ATAT
10426600 GAATTTTAAA
Statistics
Matches: 32, Mismatches: 8, Indels: 5
0.71 0.18 0.11
Matches are distributed among these distances:
18 7 0.22
19 7 0.22
20 18 0.56
ACGTcount: A:0.51, C:0.00, G:0.03, T:0.46
Consensus pattern (20 bp):
ATATATGTATATATATATTT
Found at i:10427597 original size:50 final size:50
Alignment explanation
Indices: 10427537--10428011 Score: 317
Period size: 50 Copynumber: 9.5 Consensus size: 50
10427527 CGGGGAAACG
* * * *
10427537 AGATCTGCCGTCGTAACTTCAATCTGCTCCACTGCACTGCCAGGTAAGTA
1 AGATCCGCCGTTGTGACTTCAATCTGCTCCACTGCACTGCCAGGGAAGTA
* ** ** * * ** * **
10427587 AGATCCGCCGTTGTGGCTTCAATCTTTTTAATTGCGCTATCGGGGAAACA
1 AGATCCGCCGTTGTGACTTCAATCTGCTCCACTGCACTGCCAGGGAAGTA
* * *
10427637 AGATCCGTCGTTGTAACTTCAATCTGCTCCACTGCACCGCCAGGGAAGTA
1 AGATCCGCCGTTGTGACTTCAATCTGCTCCACTGCACTGCCAGGGAAGTA
* * * ** * * ***
10427687 AGATCTGCCGTTGTGGCTTCAATCT-TTTTACTTGCGCTGTCAGGGAAACC
1 AGATCCGCCGTTGTGACTTCAATCTGCTCCAC-TGCACTGCCAGGGAAGTA
* * * * * *
10427737 GGATTCGTCGTTGTAACTTCAATTTGCTCCACTGCACCGCCAGGGAAGTA
1 AGATCCGCCGTTGTGACTTCAATCTGCTCCACTGCACTGCCAGGGAAGTA
* ** ** * * * * * ***
10427787 AGATCCGCCGTTGTGGCTTCAATCTTTTTAATTACGCTGTCGGGGAAACC
1 AGATCCGCCGTTGTGACTTCAATCTGCTCCACTGCACTGCCAGGGAAGTA
* *
10427837 AGATCTGCCGTTGTGACTTCAATCTGCTCCACTGCACCGCCAGGGAAGTA
1 AGATCCGCCGTTGTGACTTCAATCTGCTCCACTGCACTGCCAGGGAAGTA
* * ** ** * * * *
10427887 AGATCCGCCGTTATGGCTTCAATCTTTTTAATTGCGCTGTC-GGGAA-AA
1 AGATCCGCCGTTGTGACTTCAATCTGCTCCACTGCACTGCCAGGGAAGTA
* * * *
10427935 CCAGATCTGCTGTTGTGACTTCAATTTGCTCCACTGCACCGCCAGGGAAGTA
1 --AGATCCGCCGTTGTGACTTCAATCTGCTCCACTGCACTGCCAGGGAAGTA
*
10427987 AGATCCGCCGTTGTGGCTTCAATCT
1 AGATCCGCCGTTGTGACTTCAATCT
10428012 TTTTAATTGC
Statistics
Matches: 295, Mismatches: 124, Indels: 12
0.68 0.29 0.03
Matches are distributed among these distances:
48 1 0.00
49 8 0.03
50 277 0.94
51 8 0.03
52 1 0.00
ACGTcount: A:0.21, C:0.26, G:0.23, T:0.29
Consensus pattern (50 bp):
AGATCCGCCGTTGTGACTTCAATCTGCTCCACTGCACTGCCAGGGAAGTA
Found at i:10427665 original size:100 final size:100
Alignment explanation
Indices: 10427479--10428021 Score: 809
Period size: 100 Copynumber: 5.4 Consensus size: 100
10427469 GCGCCGCTAA
* ** * * ** *
10427479 GGAAGTAAGATTCGCTATTGTGGCTTCAATCTTTTAAAATTACAATGTCGGGGAAACGAGATCTG
1 GGAAGTAAGATCCGCCGTTGTGGCTTCAATCTTTT-TAATTGCGCTGTCGGGGAAACCAGATCTG
* *
10427544 CCGTCGTAACTTCAATCTGCTCCACTGCACTGCCAG
65 CCGTTGTAACTTCAATCTGCTCCACTGCACCGCCAG
* * * * *
10427580 GTAAGTAAGATCCGCCGTTGTGGCTTCAATCTTTTTAATTGCGCTATCGGGGAAACAAGATCCGT
1 GGAAGTAAGATCCGCCGTTGTGGCTTCAATCTTTTTAATTGCGCTGTCGGGGAAACCAGATCTGC
10427645 CGTTGTAACTTCAATCTGCTCCACTGCACCGCCAG
66 CGTTGTAACTTCAATCTGCTCCACTGCACCGCCAG
* * * *
10427680 GGAAGTAAGATCTGCCGTTGTGGCTTCAATCTTTTTACTTGCGCTGTCAGGGAAACCGGAT-TCG
1 GGAAGTAAGATCCGCCGTTGTGGCTTCAATCTTTTTAATTGCGCTGTCGGGGAAACCAGATCT-G
* *
10427744 TCGTTGTAACTTCAATTTGCTCCACTGCACCGCCAG
65 CCGTTGTAACTTCAATCTGCTCCACTGCACCGCCAG
*
10427780 GGAAGTAAGATCCGCCGTTGTGGCTTCAATCTTTTTAATTACGCTGTCGGGGAAACCAGATCTGC
1 GGAAGTAAGATCCGCCGTTGTGGCTTCAATCTTTTTAATTGCGCTGTCGGGGAAACCAGATCTGC
*
10427845 CGTTGTGACTTCAATCTGCTCCACTGCACCGCCAG
66 CGTTGTAACTTCAATCTGCTCCACTGCACCGCCAG
* *
10427880 GGAAGTAAGATCCGCCGTTATGGCTTCAATCTTTTTAATTGCGCTGTCGGGAAAACCAGATCTGC
1 GGAAGTAAGATCCGCCGTTGTGGCTTCAATCTTTTTAATTGCGCTGTCGGGGAAACCAGATCTGC
* * *
10427945 TGTTGTGACTTCAATTTGCTCCACTGCACCGCCAG
66 CGTTGTAACTTCAATCTGCTCCACTGCACCGCCAG
10427980 GGAAGTAAGATCCGCCGTTGTGGCTTCAATCTTTTTAATTGC
1 GGAAGTAAGATCCGCCGTTGTGGCTTCAATCTTTTTAATTGC
10428022 CAAAGAGATA
Statistics
Matches: 403, Mismatches: 37, Indels: 5
0.91 0.08 0.01
Matches are distributed among these distances:
100 371 0.92
101 32 0.08
ACGTcount: A:0.22, C:0.25, G:0.23, T:0.30
Consensus pattern (100 bp):
GGAAGTAAGATCCGCCGTTGTGGCTTCAATCTTTTTAATTGCGCTGTCGGGGAAACCAGATCTGC
CGTTGTAACTTCAATCTGCTCCACTGCACCGCCAG
Found at i:10443135 original size:17 final size:17
Alignment explanation
Indices: 10443092--10443135 Score: 54
Period size: 17 Copynumber: 2.5 Consensus size: 17
10443082 ATGGGATTAA
*
10443092 AAATATGTAAAATATAT
1 AAATATATAAAATATAT
10443109 AAATATTATAAAATA-AT
1 AAATA-TATAAAATATAT
10443126 AATATATATA
1 AA-ATATATA
10443136 CGTGTATATA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
17 13 0.54
18 11 0.46
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.36
Consensus pattern (17 bp):
AAATATATAAAATATAT
Found at i:10443280 original size:3 final size:3
Alignment explanation
Indices: 10443272--10443322 Score: 59
Period size: 3 Copynumber: 16.7 Consensus size: 3
10443262 CCTATAGGTG
* *
10443272 TAA TAA TAA TATA TAA T-A TAA TTA TAA TTA TAA TAA TAA TAA TTAA
1 TAA TAA TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA -TAA
10443318 TAA TA
1 TAA TA
10443323 CAACAATAGT
Statistics
Matches: 41, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
2 2 0.05
3 33 0.80
4 6 0.15
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (3 bp):
TAA
Found at i:10444493 original size:31 final size:32
Alignment explanation
Indices: 10444442--10444520 Score: 87
Period size: 31 Copynumber: 2.6 Consensus size: 32
10444432 ATTACCTTTT
10444442 TTTCTTTTTTTTTC-C-T-TCCTTCCCTCTTC
1 TTTCTTTTTTTTTCTCTTCTCCTTCCCTCTTC
* *
10444471 -TTCTTTTTTTTTCTCTTCTCCTTTCCTTTTC
1 TTTCTTTTTTTTTCTCTTCTCCTTCCCTCTTC
* *
10444502 TTTCCTTCTTTTTCT-TTCT
1 TTTCTTTTTTTTTCTCTTCT
10444521 TTCCTCTCCT
Statistics
Matches: 42, Mismatches: 4, Indels: 6
0.81 0.08 0.12
Matches are distributed among these distances:
28 13 0.31
29 1 0.02
30 1 0.02
31 15 0.36
32 12 0.29
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (32 bp):
TTTCTTTTTTTTTCTCTTCTCCTTCCCTCTTC
Found at i:10444519 original size:4 final size:4
Alignment explanation
Indices: 10444498--10444569 Score: 62
Period size: 4 Copynumber: 18.0 Consensus size: 4
10444488 CTCCTTTCCT
* *
10444498 TTTC TTTC CTTC -TT- TTTC TTTC TTTCC TCTCC TTTTC TTTTC TTTC
1 TTTC TTTC TTTC TTTC TTTC TTTC TTT-C T-TTC -TTTC -TTTC TTTC
10444544 TTTC TTTC TTTC TTTC -TTC -TTC TTTC
1 TTTC TTTC TTTC TTTC TTTC TTTC TTTC
10444570 CCTCTCATTC
Statistics
Matches: 59, Mismatches: 3, Indels: 12
0.80 0.04 0.16
Matches are distributed among these distances:
3 10 0.17
4 37 0.63
5 10 0.17
6 2 0.03
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (4 bp):
TTTC
Found at i:10444522 original size:28 final size:28
Alignment explanation
Indices: 10444491--10444569 Score: 94
Period size: 28 Copynumber: 2.9 Consensus size: 28
10444481 TTCTCTTCTC
10444491 CTTTCCTTTTCTTTCCTTCTT-TTTCTTT
1 CTTTCCTTTTCTTT-CTTCTTCTTTCTTT
* *
10444519 CTTTCCTCTCCTTTTCTT-TTCTTTCTTT
1 CTTTCCTTTTC-TTTCTTCTTCTTTCTTT
10444547 CTTT-C-TTTCTTTCTTCTTCTTTC
1 CTTTCCTTTTCTTTCTTCTTCTTTC
10444570 CCTCTCATTC
Statistics
Matches: 44, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
25 6 0.14
26 9 0.20
27 3 0.07
28 23 0.52
29 3 0.07
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (28 bp):
CTTTCCTTTTCTTTCTTCTTCTTTCTTT
Found at i:10444536 original size:64 final size:64
Alignment explanation
Indices: 10444443--10444570 Score: 147
Period size: 64 Copynumber: 2.0 Consensus size: 64
10444433 TTACCTTTTT
* *
10444443 TTCTTTTTTTTTCCTTCCTTCCCTCTTCTTCTT-TTTTTTTCTCTTC-TCCTTTCCTT-TTCTTT
1 TTCTTTTTCTTTCCTTCCTTCCCTCTTCTT-TTCTTTCTTTCT-TTCTTCCTTT-CTTCTTCTTT
10444505 CC
63 CC
* * *
10444507 TTCTTTTTCTTTCTTTCC-TCTCCTTTTCTTTTCTTTCTTTCTTTCTTTCTTTCTTCTTCTTTCC
1 TTCTTTTTCTTTCCTTCCTTC-CCTCTTCTTTTCTTTCTTTCTTTCTTCCTTTCTTCTTCTTTCC
10444571 CTCTCATTCT
Statistics
Matches: 55, Mismatches: 5, Indels: 8
0.81 0.07 0.12
Matches are distributed among these distances:
63 10 0.18
64 45 0.82
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (64 bp):
TTCTTTTTCTTTCCTTCCTTCCCTCTTCTTTTCTTTCTTTCTTTCTTCCTTTCTTCTTCTTTCC
Found at i:10444552 original size:36 final size:37
Alignment explanation
Indices: 10444471--10444570 Score: 116
Period size: 36 Copynumber: 2.7 Consensus size: 37
10444461 TTCCCTCTTC
10444471 TTCTTT-TTT-TTTCTCTTCTCCTTTCCTTTTCTTTCCT
1 TTCTTTCTTTCTTTC-C-TCTCCTTTCCTTTTCTTTCCT
* *
10444508 TCTTTTTCTTTCTTTCCTCTCCTTTTCTTTTCTTT-CT
1 T-TCTTTCTTTCTTTCCTCTCCTTTCCTTTTCTTTCCT
* *
10444545 TTCTTTCTTTCTTTCTTCTTCTTTCC
1 TTCTTTCTTTCTTTCCTCTCCTTTCC
10444571 CTCTCATTCT
Statistics
Matches: 54, Mismatches: 6, Indels: 7
0.81 0.09 0.10
Matches are distributed among these distances:
36 21 0.39
37 4 0.07
38 21 0.39
39 4 0.07
40 4 0.07
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (37 bp):
TTCTTTCTTTCTTTCCTCTCCTTTCCTTTTCTTTCCT
Found at i:10444566 original size:18 final size:18
Alignment explanation
Indices: 10444466--10444569 Score: 90
Period size: 18 Copynumber: 5.7 Consensus size: 18
10444456 CTTCCTTCCC
*
10444466 TCTTCTTCTTT-TTTTTT
1 TCTTCTTCTTTCTTTCTT
*
10444483 CTCTTCTCCTTTCCTTTTCTT
1 -TCTTCTTCTTT-C-TTTCTT
10444504 TCCTTCTT-TTTCTTTCTT
1 T-CTTCTTCTTTCTTTCTT
* *
10444522 TCCTCTCCTTTTCTTTTCTT
1 TCTTCTTC-TTTC-TTTCTT
10444542 TC-T-TTCTTTCTTTCTT
1 TCTTCTTCTTTCTTTCTT
10444558 TCTTCTTCTTTC
1 TCTTCTTCTTTC
10444570 CCTCTCATTC
Statistics
Matches: 71, Mismatches: 6, Indels: 18
0.75 0.06 0.19
Matches are distributed among these distances:
16 8 0.11
17 9 0.13
18 26 0.37
19 6 0.08
20 12 0.17
21 10 0.14
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (18 bp):
TCTTCTTCTTTCTTTCTT
Found at i:10444748 original size:19 final size:19
Alignment explanation
Indices: 10444724--10444761 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
10444714 CCGGCGCAGC
*
10444724 TTTTTTTTTCTATTTTTTG
1 TTTTTTTTTCTATATTTTG
*
10444743 TTTTTTTTTGTATATTTTG
1 TTTTTTTTTCTATATTTTG
10444762 GTAAATAAAA
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:0.08, C:0.03, G:0.08, T:0.82
Consensus pattern (19 bp):
TTTTTTTTTCTATATTTTG
Found at i:10444988 original size:12 final size:11
Alignment explanation
Indices: 10444959--10444984 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
10444949 TAAATAATAT
10444959 TAAATTATTTA
1 TAAATTATTTA
10444970 TAAATTATTTA
1 TAAATTATTTA
10444981 TAAA
1 TAAA
10444985 ATTAAATTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (11 bp):
TAAATTATTTA
Found at i:10445084 original size:61 final size:60
Alignment explanation
Indices: 10445009--10445122 Score: 149
Period size: 61 Copynumber: 1.9 Consensus size: 60
10444999 AATATTCATT
* *
10445009 TTTATATCAGATATTATAATTATTTAAA-TTTATTTTTACCTAATTAATATTTAGATGCCA
1 TTTATATCAGATATTACAATTA-TTAAATTTTATTTTTACCAAATTAATATTTAGATGCCA
* * * *
10445069 TTTATATTTAGATATTGCGATTATTAAATTTTATTTTTATCAAATTAATATTTA
1 TTTATA-TCAGATATTACAATTATTAAATTTTATTTTTACCAAATTAATATTTA
10445123 AATACTATTT
Statistics
Matches: 46, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
60 11 0.24
61 35 0.76
ACGTcount: A:0.36, C:0.06, G:0.05, T:0.53
Consensus pattern (60 bp):
TTTATATCAGATATTACAATTATTAAATTTTATTTTTACCAAATTAATATTTAGATGCCA
Found at i:10445923 original size:22 final size:23
Alignment explanation
Indices: 10445881--10445923 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
10445871 CAAAACAACG
*
10445881 TAGTTTTGCCTTTTTATCTTTGA
1 TAGTTTTGCCTTTTTAACTTTGA
*
10445904 TAGTTTTGGC-TTTTAACTTT
1 TAGTTTTGCCTTTTTAACTTT
10445924 AGAAAAGGCA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 9 0.50
23 9 0.50
ACGTcount: A:0.14, C:0.12, G:0.14, T:0.60
Consensus pattern (23 bp):
TAGTTTTGCCTTTTTAACTTTGA
Found at i:10446255 original size:23 final size:21
Alignment explanation
Indices: 10446217--10446274 Score: 59
Period size: 21 Copynumber: 2.8 Consensus size: 21
10446207 CCAAAATTAT
10446217 TATTTTATTAAATTTTAAATA
1 TATTTTATTAAATTTTAAATA
*
10446238 TATTTTATATATATTTTTAAA-A
1 TATTTTAT-TA-AATTTTAAATA
*
10446260 -AATTTA-TAAATTTTA
1 TATTTTATTAAATTTTA
10446275 TCAGAGCCAA
Statistics
Matches: 32, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
18 6 0.19
19 2 0.06
21 13 0.41
22 3 0.09
23 8 0.25
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (21 bp):
TATTTTATTAAATTTTAAATA
Found at i:10450503 original size:21 final size:23
Alignment explanation
Indices: 10450461--10450503 Score: 54
Period size: 21 Copynumber: 2.0 Consensus size: 23
10450451 TAATTAATTA
* *
10450461 TAAACAGAAGCAAATCTCTTTTC
1 TAAACAGAAGCAAATATATTTTC
10450484 TAAA-AGAAG-AAATATATTTT
1 TAAACAGAAGCAAATATATTTT
10450504 AAATAATTGA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 9 0.50
22 5 0.28
23 4 0.22
ACGTcount: A:0.47, C:0.12, G:0.09, T:0.33
Consensus pattern (23 bp):
TAAACAGAAGCAAATATATTTTC
Found at i:10453688 original size:19 final size:17
Alignment explanation
Indices: 10453661--10453703 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 17
10453651 TTTCAGAAAT
*
10453661 CAAAGTTTTAAAGTTTCTC
1 CAAA-TTTTTAAGTTT-TC
10453680 CAAATTTTTAAGTTTTC
1 CAAATTTTTAAGTTTTC
*
10453697 AAAATTT
1 CAAATTT
10453704 AAAGTTTTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
17 8 0.36
18 10 0.45
19 4 0.18
ACGTcount: A:0.35, C:0.12, G:0.07, T:0.47
Consensus pattern (17 bp):
CAAATTTTTAAGTTTTC
Found at i:10453721 original size:17 final size:17
Alignment explanation
Indices: 10453660--10453721 Score: 72
Period size: 16 Copynumber: 3.6 Consensus size: 17
10453650 ATTTCAGAAA
*
10453660 TCAAAGTTTTAAAGTTT
1 TCAAAATTTTAAAGTTT
* *
10453677 CTCCAAATTTTTAAGTTT
1 -TCAAAATTTTAAAGTTT
10453695 TCAAAA-TTTAAAGTTT
1 TCAAAATTTTAAAGTTT
*
10453711 TAAAAATTTTA
1 TCAAAATTTTA
10453722 TTACAAAATT
Statistics
Matches: 37, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
16 14 0.38
17 9 0.24
18 14 0.38
ACGTcount: A:0.39, C:0.08, G:0.06, T:0.47
Consensus pattern (17 bp):
TCAAAATTTTAAAGTTT
Found at i:10453822 original size:19 final size:18
Alignment explanation
Indices: 10453791--10453837 Score: 51
Period size: 19 Copynumber: 2.6 Consensus size: 18
10453781 TTTTAAAATG
*
10453791 TAAA-ATTTAGAATTTCTA
1 TAAATATTTTGAATTT-TA
10453809 TAAATATTTTGAATTTTA
1 TAAATATTTTGAATTTTA
*
10453827 AAAATTATTTT
1 TAAA-TATTTT
10453838 CAAAATTTGA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
18 9 0.36
19 16 0.64
ACGTcount: A:0.43, C:0.02, G:0.04, T:0.51
Consensus pattern (18 bp):
TAAATATTTTGAATTTTA
Found at i:10454467 original size:9 final size:9
Alignment explanation
Indices: 10454453--10454477 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
10454443 GTAATTTCAC
10454453 ACCACTGAA
1 ACCACTGAA
10454462 ACCACTGAA
1 ACCACTGAA
10454471 ACCACTG
1 ACCACTG
10454478 GATGATTAGC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.40, C:0.36, G:0.12, T:0.12
Consensus pattern (9 bp):
ACCACTGAA
Found at i:10458474 original size:13 final size:13
Alignment explanation
Indices: 10458458--10458484 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
10458448 TTTAAATTAA
10458458 ACTTTTCAAAAGC
1 ACTTTTCAAAAGC
10458471 ACTTTTCAAAAGC
1 ACTTTTCAAAAGC
10458484 A
1 A
10458485 TTGCCAAACT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.22, G:0.07, T:0.30
Consensus pattern (13 bp):
ACTTTTCAAAAGC
Found at i:10463331 original size:15 final size:15
Alignment explanation
Indices: 10463311--10463344 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
10463301 TGCAAATTTT
10463311 AAATAAATATTGTAA
1 AAATAAATATTGTAA
* *
10463326 AAATAAATGTTTTAA
1 AAATAAATATTGTAA
10463341 AAAT
1 AAAT
10463345 CTTAAATTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.59, C:0.00, G:0.06, T:0.35
Consensus pattern (15 bp):
AAATAAATATTGTAA
Found at i:10463412 original size:13 final size:13
Alignment explanation
Indices: 10463394--10463418 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
10463384 TTATTTAGTA
10463394 ATTTTTTATTTTT
1 ATTTTTTATTTTT
10463407 ATTTTTTATTTT
1 ATTTTTTATTTT
10463419 AAAATATATT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (13 bp):
ATTTTTTATTTTT
Found at i:10470430 original size:31 final size:31
Alignment explanation
Indices: 10470394--10470457 Score: 119
Period size: 31 Copynumber: 2.1 Consensus size: 31
10470384 CAATTTTTAA
10470394 TTTTTCAATCAAACACGTTTTCTGTAGTGTT
1 TTTTTCAATCAAACACGTTTTCTGTAGTGTT
*
10470425 TTTTTCAATCAAACACGTTTTCTTTAGTGTT
1 TTTTTCAATCAAACACGTTTTCTGTAGTGTT
10470456 TT
1 TT
10470458 CCATTTTCAA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.22, C:0.16, G:0.11, T:0.52
Consensus pattern (31 bp):
TTTTTCAATCAAACACGTTTTCTGTAGTGTT
Found at i:10471773 original size:30 final size:30
Alignment explanation
Indices: 10471737--10471793 Score: 105
Period size: 30 Copynumber: 1.9 Consensus size: 30
10471727 CAACATAAAA
*
10471737 GTAAAATGATGTTCTATTTGTTGGTTTCAT
1 GTAAAATGATGTTCTATATGTTGGTTTCAT
10471767 GTAAAATGATGTTCTATATGTTGGTTT
1 GTAAAATGATGTTCTATATGTTGGTTT
10471794 TATCAGGAAG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.25, C:0.05, G:0.21, T:0.49
Consensus pattern (30 bp):
GTAAAATGATGTTCTATATGTTGGTTTCAT
Found at i:10475566 original size:15 final size:15
Alignment explanation
Indices: 10475546--10475577 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
10475536 AAATCCCTCC
10475546 AACCACCATTAATAG
1 AACCACCATTAATAG
10475561 AACCACCATTAATAG
1 AACCACCATTAATAG
10475576 AA
1 AA
10475578 TTCTTACCTG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.50, C:0.25, G:0.06, T:0.19
Consensus pattern (15 bp):
AACCACCATTAATAG
Found at i:10486367 original size:27 final size:25
Alignment explanation
Indices: 10486323--10486372 Score: 82
Period size: 27 Copynumber: 1.9 Consensus size: 25
10486313 GAGGAATATG
10486323 TTTTAAAAATTAATTATTTTATTCA
1 TTTTAAAAATTAATTATTTTATTCA
10486348 TTTTAAAAATATTAATTATTTTATT
1 TTTT-AAAA-ATTAATTATTTTATT
10486373 TATATGAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
25 4 0.17
26 4 0.17
27 15 0.65
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (25 bp):
TTTTAAAAATTAATTATTTTATTCA
Found at i:10486382 original size:27 final size:26
Alignment explanation
Indices: 10486327--10486386 Score: 77
Period size: 27 Copynumber: 2.3 Consensus size: 26
10486317 AATATGTTTT
* *
10486327 AAAA-ATTAATTATTTTATTCATTTTA
1 AAAATATTAATTATTTTATTCA-TATG
*
10486353 AAAATATTAATTATTTTATTTATATG
1 AAAATATTAATTATTTTATTCATATG
10486379 AAAATATT
1 AAAATATT
10486387 TAGAAATATA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
26 14 0.47
27 16 0.53
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.52
Consensus pattern (26 bp):
AAAATATTAATTATTTTATTCATATG
Found at i:10487578 original size:87 final size:87
Alignment explanation
Indices: 10487476--10487653 Score: 349
Period size: 87 Copynumber: 2.1 Consensus size: 87
10487466 TAAATAAATT
10487476 TAAATAATATTTATAAATATGAACGAATTAACTGAAATTCATATGTTTTTTTGTCTTTTAATTAA
1 TAAATAATATTTATAAATATGAACGAATTAACTGAAATTCATATGTTTTTTTGTCTTTTAATTAA
10487541 AATAAGTGTATAAATACATAAA
66 AATAAGTGTATAAATACATAAA
10487563 TAAATAATATTTATAAATATGAACGAATTAACTGAAATTCATATGTTTTTTTGTCTTTTAATTAA
1 TAAATAATATTTATAAATATGAACGAATTAACTGAAATTCATATGTTTTTTTGTCTTTTAATTAA
10487628 AATAAGTGTATAAATACATAAA
66 AATAAGTGTATAAATACATAAA
10487650 -AAAT
1 TAAAT
10487654 GTTGCTAATA
Statistics
Matches: 91, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
86 4 0.04
87 87 0.96
ACGTcount: A:0.46, C:0.06, G:0.08, T:0.41
Consensus pattern (87 bp):
TAAATAATATTTATAAATATGAACGAATTAACTGAAATTCATATGTTTTTTTGTCTTTTAATTAA
AATAAGTGTATAAATACATAAA
Found at i:10494685 original size:21 final size:21
Alignment explanation
Indices: 10494659--10494699 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
10494649 AGACGAGCAA
* *
10494659 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
10494680 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
10494700 TTGAGCAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:10496638 original size:16 final size:16
Alignment explanation
Indices: 10496605--10496638 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
10496595 GGAGATTGTT
* *
10496605 AACATTAATGGGAGAC
1 AACATTAATGGCAAAC
10496621 AACATTAATGGCAAAC
1 AACATTAATGGCAAAC
10496637 AA
1 AA
10496639 TACAAAGTGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.15, G:0.18, T:0.18
Consensus pattern (16 bp):
AACATTAATGGCAAAC
Found at i:10518220 original size:25 final size:25
Alignment explanation
Indices: 10518192--10518444 Score: 169
Period size: 25 Copynumber: 10.1 Consensus size: 25
10518182 CTTATGAGTA
*
10518192 TCCCGCTATTTGGCTCTCACGAGCT
1 TCCCGATATTTGGCTCTCACGAGCT
*
10518217 TCCCGATACTTGGCTCTCACGAGCT
1 TCCCGATATTTGGCTCTCACGAGCT
* *
10518242 TCCC-ATTATTTAGCTCTCATGAGCT
1 TCCCGA-TATTTGGCTCTCACGAGCT
* * *
10518267 TCTCGAT-TAATGGCTCTCTCTTGAGCT
1 TCCCGATAT-TTGGCTCTCAC--GAGCT
* * *
10518294 TCCAGTTATATGGCTCTCACGAGCT
1 TCCCGATATTTGGCTCTCACGAGCT
* * ** *
10518319 TCTCGATATATGGCTCTCATAAGAT
1 TCCCGATATTTGGCTCTCACGAGCT
* * *
10518344 TACCGATATTTGGCTCACATGAGCT
1 TCCCGATATTTGGCTCTCACGAGCT
*
10518369 TCCCG-T-TTATGGCTCGT-ATGAGCT
1 TCCCGATATT-TGGCTC-TCACGAGCT
* *
10518393 TCCCGAT-TATTGGCTCGCAAGAGCT
1 TCCCGATAT-TTGGCTCTCACGAGCT
* * *
10518418 TCCC-ATTATATAGCTCACACGAGCT
1 TCCCGA-TATTTGGCTCTCACGAGCT
10518443 TC
1 TC
10518445 TCGTTACATT
Statistics
Matches: 181, Mismatches: 34, Indels: 26
0.75 0.14 0.11
Matches are distributed among these distances:
23 2 0.01
24 22 0.12
25 134 0.74
26 3 0.02
27 19 0.10
28 1 0.01
ACGTcount: A:0.19, C:0.28, G:0.19, T:0.34
Consensus pattern (25 bp):
TCCCGATATTTGGCTCTCACGAGCT
Found at i:10518310 original size:52 final size:50
Alignment explanation
Indices: 10518202--10518337 Score: 159
Period size: 52 Copynumber: 2.7 Consensus size: 50
10518192 TCCCGCTATT
* * *
10518202 TGGCTCTCACGAGCTTCCCGATACTTGGCTCTCACGAGCTTCCCATTATT
1 TGGCTCTCACGAGCTTCTCGATACATGGCTCTCACGAGCTTCCCATTATA
* * *
10518252 TAGCTCTCATGAGCTTCTCGATTA-ATGGCTCTCTCTTGAGCTT-CCAGTTATA
1 TGGCTCTCACGAGCTTCTCGA-TACATGGCTCTCAC--GAGCTTCCCA-TTATA
*
10518304 TGGCTCTCACGAGCTTCTCGATATATGGCTCTCA
1 TGGCTCTCACGAGCTTCTCGATACATGGCTCTCA
10518338 TAAGATTACC
Statistics
Matches: 72, Mismatches: 9, Indels: 8
0.81 0.10 0.09
Matches are distributed among these distances:
50 27 0.38
51 7 0.10
52 38 0.53
ACGTcount: A:0.18, C:0.29, G:0.18, T:0.35
Consensus pattern (50 bp):
TGGCTCTCACGAGCTTCTCGATACATGGCTCTCACGAGCTTCCCATTATA
Found at i:10522134 original size:6 final size:6
Alignment explanation
Indices: 10522120--10522150 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
10522110 AGGGTGAGTT
*
10522120 GAGATG GAGACG GAGATG GAGATG GAGATG G
1 GAGATG GAGATG GAGATG GAGATG GAGATG G
10522151 GGCTTTCAAG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.32, C:0.03, G:0.52, T:0.13
Consensus pattern (6 bp):
GAGATG
Found at i:10524650 original size:17 final size:17
Alignment explanation
Indices: 10524628--10524661 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
10524618 ATCCACTAAT
*
10524628 CCACTACCACCAACAAC
1 CCACTACCAACAACAAC
10524645 CCACTACCAACAACAAC
1 CCACTACCAACAACAAC
10524662 AATCCACTAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.50, G:0.00, T:0.06
Consensus pattern (17 bp):
CCACTACCAACAACAAC
Found at i:10529289 original size:17 final size:17
Alignment explanation
Indices: 10529267--10529300 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
10529257 ATCCACTAAT
*
10529267 CCACTACCACCAACAAC
1 CCACTACCAACAACAAC
10529284 CCACTACCAACAACAAC
1 CCACTACCAACAACAAC
10529301 AATCCACTAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.50, G:0.00, T:0.06
Consensus pattern (17 bp):
CCACTACCAACAACAAC
Found at i:10535227 original size:19 final size:19
Alignment explanation
Indices: 10535205--10535244 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
10535195 AGTGAAATTG
* *
10535205 TAACAAATTAGTGAAAAAA
1 TAACAAAATAGTAAAAAAA
10535224 TAACAAAATAGTAAAAAAA
1 TAACAAAATAGTAAAAAAA
10535243 TA
1 TA
10535245 GCAAGAAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.68, C:0.05, G:0.07, T:0.20
Consensus pattern (19 bp):
TAACAAAATAGTAAAAAAA
Found at i:10537254 original size:51 final size:48
Alignment explanation
Indices: 10537199--10537324 Score: 123
Period size: 51 Copynumber: 2.6 Consensus size: 48
10537189 ATAATAAATA
*
10537199 TTTTTATTTTTTAAAATTTAAATTTTTTTAAAAT-TTTTTTTAAAATACTTT
1 TTTTTATTTTTTAAAATTTAAATTTTTTTAAAATACTTTTTT--AAT--TTT
* * * *
10537250 TTTTTATTTTTTTAATTTTAAAATATATTTAAAATACTTTTTTAATTTT
1 TTTTTATTTTTTAAAATTT-AAATTTTTTTAAAATACTTTTTTAATTTT
*
10537299 TATTTTAATTTTTAAAA--TAAATTTTT
1 T-TTTTATTTTTTAAAATTTAAATTTTT
10537325 GGTATTTACT
Statistics
Matches: 62, Mismatches: 10, Indels: 10
0.76 0.12 0.12
Matches are distributed among these distances:
47 6 0.10
48 1 0.02
49 4 0.06
50 12 0.19
51 20 0.32
52 13 0.21
53 6 0.10
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (48 bp):
TTTTTATTTTTTAAAATTTAAATTTTTTTAAAATACTTTTTTAATTTT
Found at i:10537269 original size:41 final size:43
Alignment explanation
Indices: 10537223--10537316 Score: 124
Period size: 40 Copynumber: 2.2 Consensus size: 43
10537213 AATTTAAATT
* *
10537223 TTTTTAAAATTTTTTTTAAAATACTTTTTT-TTATTT-TTTTAA
1 TTTTTAAAATTATATTTAAAATACTTTTTTATT-TTTATTTTAA
10537265 -TTTTAAAA-TATATTTAAAATACTTTTTTAATTTTTATTTTAA
1 TTTTTAAAATTATATTTAAAATACTTTTTT-ATTTTTATTTTAA
10537307 TTTTTAAAAT
1 TTTTTAAAAT
10537317 AAATTTTTGG
Statistics
Matches: 45, Mismatches: 2, Indels: 8
0.82 0.04 0.15
Matches are distributed among these distances:
40 18 0.40
41 11 0.24
42 8 0.18
43 8 0.18
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (43 bp):
TTTTTAAAATTATATTTAAAATACTTTTTTATTTTTATTTTAA
Found at i:10541796 original size:15 final size:16
Alignment explanation
Indices: 10541757--10541803 Score: 62
Period size: 15 Copynumber: 3.0 Consensus size: 16
10541747 TCTTCATAAA
*
10541757 CATATATCATTCATTT
1 CATATATCAATCATTT
10541773 CATTATATCAAT-ATTT
1 CA-TATATCAATCATTT
10541789 CATATATC-ATCATTT
1 CATATATCAATCATTT
10541804 TCATGAATTT
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
14 2 0.07
15 10 0.36
16 8 0.29
17 8 0.29
ACGTcount: A:0.34, C:0.17, G:0.00, T:0.49
Consensus pattern (16 bp):
CATATATCAATCATTT
Found at i:10541805 original size:16 final size:16
Alignment explanation
Indices: 10541757--10541807 Score: 54
Period size: 16 Copynumber: 3.2 Consensus size: 16
10541747 TCTTCATAAA
10541757 CATATATCATTCA-TTT
1 CATATATCA-TCATTTT
10541773 CAT-TAT-ATCAATATTT
1 CATATATCATC-AT-TTT
10541789 CATATATCATCATTTT
1 CATATATCATCATTTT
10541805 CAT
1 CAT
10541808 GAATTTTGTA
Statistics
Matches: 30, Mismatches: 0, Indels: 10
0.75 0.00 0.25
Matches are distributed among these distances:
13 2 0.07
14 2 0.07
15 3 0.10
16 15 0.50
17 5 0.17
18 3 0.10
ACGTcount: A:0.33, C:0.18, G:0.00, T:0.49
Consensus pattern (16 bp):
CATATATCATCATTTT
Found at i:10549166 original size:39 final size:39
Alignment explanation
Indices: 10549123--10549199 Score: 102
Period size: 40 Copynumber: 1.9 Consensus size: 39
10549113 TTGAGACTGA
10549123 TACTGAACTGAATTATGGAA-TACTGAATATTGTTTTGAG
1 TACTGAACTGAATTAT-GAAGTACTGAATATTGTTTTGAG
** *
10549162 TACTGAGTTGAATTGTGAAGTTACTGAATATTGTTTTG
1 TACTGAACTGAATTATGAAG-TACTGAATATTGTTTTG
10549200 TATATTGCAT
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
38 3 0.09
39 13 0.39
40 17 0.52
ACGTcount: A:0.30, C:0.06, G:0.22, T:0.42
Consensus pattern (39 bp):
TACTGAACTGAATTATGAAGTACTGAATATTGTTTTGAG
Found at i:10549194 original size:40 final size:40
Alignment explanation
Indices: 10549143--10549229 Score: 115
Period size: 40 Copynumber: 2.2 Consensus size: 40
10549133 AATTATGGAA
* *
10549143 TACTGAATATTGTTTTG-AGTACTG-AGTTGAATTGTGAAGT
1 TACTGAATATTGTTTTGTA-TACTGCA-TTGAACTGTGAAAT
*
10549183 TACTGAATATTGTTTTGTATATTGCATTGAACTGTGAAAT
1 TACTGAATATTGTTTTGTATACTGCATTGAACTGTGAAAT
10549223 TACTGAA
1 TACTGAA
10549230 GTTATGAATT
Statistics
Matches: 42, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
40 40 0.95
41 2 0.05
ACGTcount: A:0.30, C:0.07, G:0.21, T:0.43
Consensus pattern (40 bp):
TACTGAATATTGTTTTGTATACTGCATTGAACTGTGAAAT
Found at i:10549501 original size:45 final size:44
Alignment explanation
Indices: 10549429--10549746 Score: 362
Period size: 45 Copynumber: 7.2 Consensus size: 44
10549419 ATATGTCGAC
* *
10549429 TACTGTTACTGTTACTGATTAGGCACTTTGTGTGTCGAATACTGT
1 TACTGTTACTGTTAC-GATTCGACACTTTGTGTGTCGAATACTGT
* * * *
10549474 TATTGTTATTGTTACATATTCGACACTTTGTGCGTCGAATACTGT
1 TACTGTTACTGTTAC-GATTCGACACTTTGTGTGTCGAATACTGT
* *
10549519 TACTGTTAC---T--GATTCGGCACTGTGTGTGTCGAATACTGT
1 TACTGTTACTGTTACGATTCGACACTTTGTGTGTCGAATACTGT
* *
10549558 TACCGTTACTGTTACCGATTCGGCACTTTGTGTGTCGAATACTGT
1 TACTGTTACTGTTA-CGATTCGACACTTTGTGTGTCGAATACTGT
* *
10549603 TACTGTTACTGTTACCGATTCGGCACTTTGTGTGTCAAATACTGT
1 TACTGTTACTGTTA-CGATTCGACACTTTGTGTGTCGAATACTGT
* * *
10549648 TACCG-TGCTGTTATCGATTCGACACTTTGTGTGTCAAATACTGT
1 TACTGTTACTGTTA-CGATTCGACACTTTGTGTGTCGAATACTGT
* * * *
10549692 TACCG-TACTATTACAGATTCAACACTTTGTGTGTTGAATACTGT
1 TACTGTTACTGTTAC-GATTCGACACTTTGTGTGTCGAATACTGT
10549736 TACTGTTACTG
1 TACTGTTACTG
10549747 CTACTGTTAC
Statistics
Matches: 237, Mismatches: 28, Indels: 16
0.84 0.10 0.06
Matches are distributed among these distances:
39 33 0.14
42 2 0.01
43 1 0.00
44 77 0.32
45 124 0.52
ACGTcount: A:0.21, C:0.19, G:0.20, T:0.40
Consensus pattern (44 bp):
TACTGTTACTGTTACGATTCGACACTTTGTGTGTCGAATACTGT
Found at i:10549571 original size:84 final size:83
Alignment explanation
Indices: 10549422--10549746 Score: 355
Period size: 84 Copynumber: 3.8 Consensus size: 83
10549412 GGCATTTATA
* * ** *
10549422 TGTCGACTACTGTTACTGTTACTGATTAGGCACTTTGTGTGTCGAATACTGTTATTGTTATTGTT
1 TGTCGAATACTGTTACTGTTACTGATTCGGCACTTTGTGTGTCGAATACTGTTACCGTTACTGTT
*
10549487 ACATATTCGACACTTTGTG
66 AC-GATTCGACACTTTGTG
* *
10549506 CGTCGAATACTGTTACTGTTACTGATTCGGCACTGTGTGTGTCGAATACTGTTACCGTTACTGTT
1 TGTCGAATACTGTTACTGTTACTGATTCGGCACTTTGTGTGTCGAATACTGTTACCGTTACTGTT
*
10549571 ACCGATTCGGCACTTTGTG
66 A-CGATTCGACACTTTGTG
*
10549590 TGTCGAATACTGTTACTGTTACTGTTACCGATTCGGCACTTTGTGTGTCAAATACTGTTACCG-T
1 TGTCGAATACTGTTACTGTTAC---T---GATTCGGCACTTTGTGTGTCGAATACTGTTACCGTT
*
10549654 GCTGTTATCGATTCGACACTTTGTG
60 ACTGTTA-CGATTCGACACTTTGTG
* * * ** * *
10549679 TGTCAAATACTGTTACCGTACTATTACAGATTCAACACTTTGTGTGTTGAATACTGTTACTGTTA
1 TGTCGAATACTG-T----TACTGTTACTGATTCGGCACTTTGTGTGTCGAATACTGTTACCGTTA
10549744 CTG
61 CTG
10549747 CTACTGTTAC
Statistics
Matches: 204, Mismatches: 24, Indels: 21
0.82 0.10 0.08
Matches are distributed among these distances:
84 94 0.46
85 1 0.00
87 1 0.00
88 29 0.14
89 38 0.19
90 33 0.16
94 8 0.04
ACGTcount: A:0.21, C:0.19, G:0.21, T:0.40
Consensus pattern (83 bp):
TGTCGAATACTGTTACTGTTACTGATTCGGCACTTTGTGTGTCGAATACTGTTACCGTTACTGTT
ACGATTCGACACTTTGTG
Found at i:10549633 original size:129 final size:130
Alignment explanation
Indices: 10549433--10549746 Score: 409
Period size: 129 Copynumber: 2.4 Consensus size: 130
10549423 GTCGACTACT
* * * * *
10549433 GTTACTGTTACTGATTAGGCACTTTGTGTGTCGAATACTGTTATTGTTATTGTTACATATTCGAC
1 GTTACTGTTACAGATTCGGCACTTTGTGTGTCGAATACTGTTACTGTTACTGTTACAGATTCGAC
* * *
10549498 ACTTTGTGCGTCGAATACTGTTA-CTGTTA-CTGATTCGGCACTGTGTGTGTCGAATACTGTTAC
66 ACTTTGTGCGTCAAATACTGTTACCTGTTATC-GATTCGACACTGTGTGTGTCAAATACTGTTAC
10549561 C
130 C
* * *
10549562 GTTACTGTTACCGATTCGGCACTTTGTGTGTCGAATACTGTTACTGTTACTGTTACCGATTCGGC
1 GTTACTGTTACAGATTCGGCACTTTGTGTGTCGAATACTGTTACTGTTACTGTTACAGATTCGAC
* *
10549627 ACTTTGTGTGTCAAATACTGTTACCGTGCTGTTATCGATTCGACACTTTGTGTGTCAAATACTGT
66 ACTTTGTGCGTCAAATACTGTTA-C---CTGTTATCGATTCGACACTGTGTGTGTCAAATACTGT
10549692 TACC
127 TACC
* ** *
10549696 G-TACTATTACAGATTCAACACTTTGTGTGTTGAATACTGTTACTGTTACTG
1 GTTACTGTTACAGATTCGGCACTTTGTGTGTCGAATACTGTTACTGTTACTG
10549747 CTACTGTTAC
Statistics
Matches: 162, Mismatches: 17, Indels: 8
0.87 0.09 0.04
Matches are distributed among these distances:
129 79 0.49
133 45 0.28
134 37 0.23
135 1 0.01
ACGTcount: A:0.21, C:0.18, G:0.21, T:0.40
Consensus pattern (130 bp):
GTTACTGTTACAGATTCGGCACTTTGTGTGTCGAATACTGTTACTGTTACTGTTACAGATTCGAC
ACTTTGTGCGTCAAATACTGTTACCTGTTATCGATTCGACACTGTGTGTGTCAAATACTGTTACC
Found at i:10549741 original size:6 final size:6
Alignment explanation
Indices: 10549730--10549767 Score: 58
Period size: 6 Copynumber: 6.2 Consensus size: 6
10549720 GTGTGTTGAA
*
10549730 TACTGT TACTGT TACTGC TACTGT TACTGAT TACTGT T
1 TACTGT TACTGT TACTGT TACTGT TACTG-T TACTGT T
10549768 TAGGTACTTG
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
6 23 0.79
7 6 0.21
ACGTcount: A:0.18, C:0.18, G:0.16, T:0.47
Consensus pattern (6 bp):
TACTGT
Found at i:10549753 original size:18 final size:19
Alignment explanation
Indices: 10549730--10549765 Score: 65
Period size: 18 Copynumber: 1.9 Consensus size: 19
10549720 GTGTGTTGAA
10549730 TACTGTTACTG-TTACTGC
1 TACTGTTACTGATTACTGC
10549748 TACTGTTACTGATTACTG
1 TACTGTTACTGATTACTG
10549766 TTTAGGTACT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 11 0.65
19 6 0.35
ACGTcount: A:0.19, C:0.19, G:0.17, T:0.44
Consensus pattern (19 bp):
TACTGTTACTGATTACTGC
Found at i:10550810 original size:43 final size:43
Alignment explanation
Indices: 10550763--10550845 Score: 112
Period size: 43 Copynumber: 1.9 Consensus size: 43
10550753 TGAGTTTTAG
* *
10550763 TTTAACCCTAATGGGTTTCCATTCAGCTCTTTTGAGCTTCAGT
1 TTTAACCCTAATGGGTTTCCATTCAGCTCCTATGAGCTTCAGT
** * *
10550806 TTTAACCCTTTTGGGTTTCCGTTTAGCTCCTATGAGCTTC
1 TTTAACCCTAATGGGTTTCCATTCAGCTCCTATGAGCTTC
10550846 TGTTCAATCC
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
43 34 1.00
ACGTcount: A:0.16, C:0.24, G:0.17, T:0.43
Consensus pattern (43 bp):
TTTAACCCTAATGGGTTTCCATTCAGCTCCTATGAGCTTCAGT
Found at i:10552449 original size:27 final size:25
Alignment explanation
Indices: 10552419--10552468 Score: 73
Period size: 27 Copynumber: 1.9 Consensus size: 25
10552409 AAGCGAGCCA
10552419 TTAATCAGGAAGCTCATGAAAGAGCTT
1 TTAATCAGGAAGCTC-TG-AAGAGCTT
*
10552446 TTAATCGGGAAGCTCTGAAGAGC
1 TTAATCAGGAAGCTCTGAAGAGC
10552469 CATATATCGG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 6 0.27
26 2 0.09
27 14 0.64
ACGTcount: A:0.34, C:0.16, G:0.26, T:0.24
Consensus pattern (25 bp):
TTAATCAGGAAGCTCTGAAGAGCTT
Found at i:10552639 original size:24 final size:24
Alignment explanation
Indices: 10552553--10552639 Score: 75
Period size: 25 Copynumber: 3.5 Consensus size: 24
10552543 GAAGAGCTAT
*** *
10552553 TAATGGGAAGCTCCCAAGAACCATA
1 TAATGGGAAGCTCATGAGAGCCA-A
*
10552578 TAATGGGAAGCTCGTGAGAGCCAA
1 TAATGGGAAGCTCATGAGAGCCAA
* * *
10552602 GTATTGGGATGCTCATGAGAGCTAA
1 -TAATGGGAAGCTCATGAGAGCCAA
*
10552627 TAATGGGACGCTC
1 TAATGGGAAGCTC
10552640 TTTCGAGCTG
Statistics
Matches: 51, Mismatches: 10, Indels: 3
0.80 0.16 0.05
Matches are distributed among these distances:
24 12 0.24
25 39 0.76
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (24 bp):
TAATGGGAAGCTCATGAGAGCCAA
Found at i:10555918 original size:46 final size:46
Alignment explanation
Indices: 10555735--10555924 Score: 139
Period size: 46 Copynumber: 4.1 Consensus size: 46
10555725 TATATGTTAT
* * **
10555735 TTCAACCTTAATGGGTGACCAGACACTATTATCCAATTTGTATAGG
1 TTCAACCCTAACGGGTGACCAGACACTATTATCCAATTCATATAGG
* * * * * * * * *
10555781 TCCAACCTTAACTGGTGACCGGACATTATTGTTCGATTCATATAAG
1 TTCAACCCTAACGGGTGACCAGACACTATTATCCAATTCATATAGG
* * * * * * * ****
10555827 TCCAACCCTAATGGGTGACCAAACATTTTTATTCGATTTGGGTAGG
1 TTCAACCCTAACGGGTGACCAGACACTATTATCCAATTCATATAGG
*
10555873 TTCAACCCTAACGGGTGACCATG-CACTATTATCCAATTCATGTAGG
1 TTCAACCCTAACGGGTGACCA-GACACTATTATCCAATTCATATAGG
10555919 TTCAAC
1 TTCAAC
10555925 TCGAAAGGGT
Statistics
Matches: 110, Mismatches: 33, Indels: 2
0.76 0.23 0.01
Matches are distributed among these distances:
46 110 1.00
ACGTcount: A:0.28, C:0.22, G:0.18, T:0.32
Consensus pattern (46 bp):
TTCAACCCTAACGGGTGACCAGACACTATTATCCAATTCATATAGG
Found at i:10558572 original size:25 final size:25
Alignment explanation
Indices: 10558479--10558573 Score: 122
Period size: 25 Copynumber: 3.8 Consensus size: 25
10558469 GAGCGATAAA
*
10558479 CGGTAAGTTCCT-CAGAGCTG-AATAT
1 CGGTAAGCTCCTAC-GAGCTGCAA-AT
*
10558504 CGGTAAGCTCCTATGAGCTGCAAAT
1 CGGTAAGCTCCTACGAGCTGCAAAT
*
10558529 CGGTAAGCTCCTACAAGCTGCAAAT
1 CGGTAAGCTCCTACGAGCTGCAAAT
*
10558554 CGGTAAGCTCATACGAGCTG
1 CGGTAAGCTCCTACGAGCTG
10558574 TGATGAGTCC
Statistics
Matches: 62, Mismatches: 6, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
25 60 0.97
26 2 0.03
ACGTcount: A:0.28, C:0.24, G:0.24, T:0.23
Consensus pattern (25 bp):
CGGTAAGCTCCTACGAGCTGCAAAT
Found at i:10558832 original size:20 final size:20
Alignment explanation
Indices: 10558807--10558847 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
10558797 GACTAAATCT
10558807 AAAACTCAAAAAATTTTCAA
1 AAAACTCAAAAAATTTTCAA
***
10558827 AAAACTTTCAAAATTTTCAA
1 AAAACTCAAAAAATTTTCAA
10558847 A
1 A
10558848 GGTCTAGGGG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.56, C:0.15, G:0.00, T:0.29
Consensus pattern (20 bp):
AAAACTCAAAAAATTTTCAA
Found at i:10559439 original size:14 final size:14
Alignment explanation
Indices: 10559420--10559446 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
10559410 TAACATACCT
10559420 ATAAGCCAACATTA
1 ATAAGCCAACATTA
10559434 ATAAGCCAACATT
1 ATAAGCCAACATT
10559447 GGCCAAATTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.48, C:0.22, G:0.07, T:0.22
Consensus pattern (14 bp):
ATAAGCCAACATTA
Found at i:10567882 original size:25 final size:24
Alignment explanation
Indices: 10567853--10567944 Score: 85
Period size: 25 Copynumber: 3.7 Consensus size: 24
10567843 GCGATAAACA
* *
10567853 GTAAGCTCTTCCGAGCTAAATATCG
1 GTAAGCTCCTACGAGCTAAA-ATCG
* * * *
10567878 GTAAGTTCCTATGAGCTGCAAATCA
1 GTAAGCTCCTACGAGCT-AAAATCG
10567903 GTAAGCTCCTACGAGCTATAAATCG
1 GTAAGCTCCTACGAGCTA-AAATCG
**
10567928 GTAAGCTGATACGAGCT
1 GTAAGCTCCTACGAGCT
10567945 GTGGTGAGTC
Statistics
Matches: 53, Mismatches: 12, Indels: 4
0.77 0.17 0.06
Matches are distributed among these distances:
25 51 0.96
26 2 0.04
ACGTcount: A:0.30, C:0.22, G:0.22, T:0.26
Consensus pattern (24 bp):
GTAAGCTCCTACGAGCTAAAATCG
Found at i:10567944 original size:50 final size:50
Alignment explanation
Indices: 10567834--10567945 Score: 122
Period size: 50 Copynumber: 2.3 Consensus size: 50
10567824 TACATGTAGA
* * *
10567834 CTCATACGAGC-G-ATAAACAGTAAGCTCTTCCGAGCTAAATATCGGTAAG
1 CTCATACGAGCTGCA-AATCAGTAAGCTCCTACGAGCTAAATATCGGTAAG
* * *
10567883 TTCCTATGAGCTGCAAATCAGTAAGCTCCTACGAGCTATAA-ATCGGTAAG
1 CTCATACGAGCTGCAAATCAGTAAGCTCCTACGAGCTA-AATATCGGTAAG
*
10567933 CTGATACGAGCTG
1 CTCATACGAGCTG
10567946 TGGTGAGTCC
Statistics
Matches: 50, Mismatches: 10, Indels: 5
0.77 0.15 0.08
Matches are distributed among these distances:
49 8 0.16
50 39 0.78
51 3 0.06
ACGTcount: A:0.32, C:0.22, G:0.21, T:0.24
Consensus pattern (50 bp):
CTCATACGAGCTGCAAATCAGTAAGCTCCTACGAGCTAAATATCGGTAAG
Found at i:10569635 original size:24 final size:23
Alignment explanation
Indices: 10569603--10569671 Score: 61
Period size: 24 Copynumber: 2.9 Consensus size: 23
10569593 TTTAGCATCG
*
10569603 ATTCTTAAATTATAAGTTTATA-TT
1 ATTCATAAATTA-AA-TTTATATTT
*
10569627 ATTCATAAATTACAATTTTTATTT
1 ATTCATAAATTA-AATTTATATTT
10569651 ATAT-ATAAATTAAACTTTATA
1 AT-TCATAAATTAAA-TTTATA
10569672 AATAATTTAT
Statistics
Matches: 38, Mismatches: 4, Indels: 6
0.79 0.08 0.12
Matches are distributed among these distances:
23 7 0.18
24 30 0.79
25 1 0.03
ACGTcount: A:0.42, C:0.06, G:0.01, T:0.51
Consensus pattern (23 bp):
ATTCATAAATTAAATTTATATTT
Found at i:10570644 original size:5 final size:5
Alignment explanation
Indices: 10570634--10570658 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
10570624 ATCTCCCACA
10570634 TCTTT TCTTT TCTTT TCTTT TCTTT
1 TCTTT TCTTT TCTTT TCTTT TCTTT
10570659 AAAAATACAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (5 bp):
TCTTT
Found at i:10577573 original size:24 final size:24
Alignment explanation
Indices: 10577541--10577590 Score: 91
Period size: 24 Copynumber: 2.1 Consensus size: 24
10577531 GCCATAGCAA
*
10577541 TTGCCTTTGACCCCGAGGTGAAAG
1 TTGCCTTTGACCCCAAGGTGAAAG
10577565 TTGCCTTTGACCCCAAGGTGAAAG
1 TTGCCTTTGACCCCAAGGTGAAAG
10577589 TT
1 TT
10577591 CAATCTTATT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.22, C:0.24, G:0.26, T:0.28
Consensus pattern (24 bp):
TTGCCTTTGACCCCAAGGTGAAAG
Found at i:10577687 original size:82 final size:82
Alignment explanation
Indices: 10577550--10578452 Score: 1806
Period size: 82 Copynumber: 11.0 Consensus size: 82
10577540 ATTGCCTTTG
10577550 ACCCCGAGGTGAAAGTTGCCTTTGACCCCAAGGTGAAAGTTCAATCTTATTATAAACTAAGATAG
1 ACCCCGAGGTGAAAGTTGCCTTTGACCCCAAGGTGAAAGTTCAATCTTATTATAAACTAAGATAG
10577615 CTTTGTTGGCCCATAAA
66 CTTTGTTGGCCCATAAA
10577632 ACCCCGAGGTGAAAGTTGCCTTTGACCCCAAGGTGAAAGTTCAATCTTATTATAAACTAAGATAG
1 ACCCCGAGGTGAAAGTTGCCTTTGACCCCAAGGTGAAAGTTCAATCTTATTATAAACTAAGATAG
10577697 CTTTGTTGGCCCATAAA
66 CTTTGTTGGCCCATAAA
10577714 ACCCCGAGGTGAAAGTTGCCTTTGACCCCAAGGTGAAAGTTCAATCTTATTATAAACTAAGATAG
1 ACCCCGAGGTGAAAGTTGCCTTTGACCCCAAGGTGAAAGTTCAATCTTATTATAAACTAAGATAG
10577779 CTTTGTTGGCCCATAAA
66 CTTTGTTGGCCCATAAA
10577796 ACCCCGAGGTGAAAGTTGCCTTTGACCCCAAGGTGAAAGTTCAATCTTATTATAAACTAAGATAG
1 ACCCCGAGGTGAAAGTTGCCTTTGACCCCAAGGTGAAAGTTCAATCTTATTATAAACTAAGATAG
10577861 CTTTGTTGGCCCATAAA
66 CTTTGTTGGCCCATAAA
10577878 ACCCCGAGGTGAAAGTTGCCTTTGACCCCAAGGTGAAAGTTCAATCTTATTATAAACTAAGATAG
1 ACCCCGAGGTGAAAGTTGCCTTTGACCCCAAGGTGAAAGTTCAATCTTATTATAAACTAAGATAG
10577943 CTTTGTTGGCCCATAAA
66 CTTTGTTGGCCCATAAA
10577960 ACCCCGAGGTGAAAGTTGCCTTTGACCCCAAGGTGAAAGTTCAATCTTATTATAAACTAAGATAG
1 ACCCCGAGGTGAAAGTTGCCTTTGACCCCAAGGTGAAAGTTCAATCTTATTATAAACTAAGATAG
10578025 CTTTGTTGGCCCATAAA
66 CTTTGTTGGCCCATAAA
10578042 ACCCCGAGGTGAAAGTTGCCTTTGACCCCAAGGTGAAAGTTCAATCTTATTATAAACTAAGATAG
1 ACCCCGAGGTGAAAGTTGCCTTTGACCCCAAGGTGAAAGTTCAATCTTATTATAAACTAAGATAG
10578107 CTTTGTTGGCCCATAAA
66 CTTTGTTGGCCCATAAA
10578124 ACCCCGAGGTGAAAGTTGCCTTTGACCCCAAGGTGAAAGTTCAATCTTATTATAAACTAAGATAG
1 ACCCCGAGGTGAAAGTTGCCTTTGACCCCAAGGTGAAAGTTCAATCTTATTATAAACTAAGATAG
10578189 CTTTGTTGGCCCATAAA
66 CTTTGTTGGCCCATAAA
10578206 ACCCCGAGGTGAAAGTTGCCTTTGACCCCAAGGTGAAAGTTCAATCTTATTATAAACTAAGATAG
1 ACCCCGAGGTGAAAGTTGCCTTTGACCCCAAGGTGAAAGTTCAATCTTATTATAAACTAAGATAG
10578271 CTTTGTTGGCCCATAAA
66 CTTTGTTGGCCCATAAA
10578288 ACCCCGAGGTGAAAGTTGCCTTTGACCCCAAGGTGAAAGTTCAATCTTATTATAAACTAAGATAG
1 ACCCCGAGGTGAAAGTTGCCTTTGACCCCAAGGTGAAAGTTCAATCTTATTATAAACTAAGATAG
10578353 CTTTGTTGGCCCATAAA
66 CTTTGTTGGCCCATAAA
10578370 ACCCCGAGGTGAAAGTTGCCTTTGACCCCAAGGTGAAAGTTCAATCTTATTATAAACTAAGATAG
1 ACCCCGAGGTGAAAGTTGCCTTTGACCCCAAGGTGAAAGTTCAATCTTATTATAAACTAAGATAG
10578435 CTTTGTTGGCCCATAAA
66 CTTTGTTGGCCCATAAA
10578452 A
1 A
10578453 TTTTGAACCA
Statistics
Matches: 821, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
82 821 1.00
ACGTcount: A:0.32, C:0.21, G:0.19, T:0.28
Consensus pattern (82 bp):
ACCCCGAGGTGAAAGTTGCCTTTGACCCCAAGGTGAAAGTTCAATCTTATTATAAACTAAGATAG
CTTTGTTGGCCCATAAA
Found at i:10580662 original size:10 final size:10
Alignment explanation
Indices: 10580612--10580659 Score: 53
Period size: 10 Copynumber: 4.9 Consensus size: 10
10580602 TAAACTCCCA
10580612 AAAGATAAAT
1 AAAGATAAAT
* ** *
10580622 ACATTTAATT
1 AAAGATAAAT
10580632 AAAGATAAAT
1 AAAGATAAAT
10580642 AAAGATAAAT
1 AAAGATAAAT
10580652 AAA-ATAAA
1 AAAGATAAA
10580660 ATACTAAAAT
Statistics
Matches: 30, Mismatches: 8, Indels: 1
0.77 0.21 0.03
Matches are distributed among these distances:
9 5 0.17
10 25 0.83
ACGTcount: A:0.67, C:0.02, G:0.06, T:0.25
Consensus pattern (10 bp):
AAAGATAAAT
Found at i:10580704 original size:15 final size:14
Alignment explanation
Indices: 10580683--10580718 Score: 54
Period size: 15 Copynumber: 2.5 Consensus size: 14
10580673 ATAATCCTTA
*
10580683 ATAATTATCTTAAT
1 ATAATTATCCTAAT
10580697 ATTAATTATCCTAAT
1 A-TAATTATCCTAAT
10580712 ATAATTA
1 ATAATTA
10580719 AAATAGAGTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
14 7 0.35
15 13 0.65
ACGTcount: A:0.44, C:0.08, G:0.00, T:0.47
Consensus pattern (14 bp):
ATAATTATCCTAAT
Found at i:10580843 original size:27 final size:27
Alignment explanation
Indices: 10580812--10580870 Score: 109
Period size: 27 Copynumber: 2.2 Consensus size: 27
10580802 TCCCTGTGTC
10580812 GCACATTGGCCCATTTTATCTCTAAAT
1 GCACATTGGCCCATTTTATCTCTAAAT
10580839 GCACATTGGCCCATTTTATCTCTAAAT
1 GCACATTGGCCCATTTTATCTCTAAAT
*
10580866 TCACA
1 GCACA
10580871 CTTTTGGCCC
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.27, C:0.27, G:0.10, T:0.36
Consensus pattern (27 bp):
GCACATTGGCCCATTTTATCTCTAAAT
Found at i:10583248 original size:10 final size:10
Alignment explanation
Indices: 10583233--10583260 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
10583223 CTTATTAATA
10583233 CATAATTTAT
1 CATAATTTAT
10583243 CATAATTTAT
1 CATAATTTAT
10583253 CATAATTT
1 CATAATTT
10583261 TATGGAAATT
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:0.39, C:0.11, G:0.00, T:0.50
Consensus pattern (10 bp):
CATAATTTAT
Found at i:10584338 original size:168 final size:168
Alignment explanation
Indices: 10584056--10584566 Score: 869
Period size: 168 Copynumber: 3.0 Consensus size: 168
10584046 CCGTGCAAGC
* *
10584056 AACATGAAGAGTACCACGAGTCACACAAATCGAAGGAGCACGAAGAGTACCAGAAAGAAAAACCC
1 AACATGAAGAGTACCACGAGTCACACGAATCGAAGGAGCACGAAGAGTACGAGAAAGAAAAACCC
* * ** *
10584121 GAGTTCCCCAAATTGGAAAAGCCTAAAGAGCACGAGAAACACAAAGTCGAATATCCGAAAATACC
66 AATTTCCCCAAAGGGGAAAAGCCTAAAGAGCACGAGAAACACGAAGTCGAATATCCGAAAATACC
*
10584186 CGAGTACAAGGAAAACCAAGATGAGGGTAAGGAACATA
131 CGAGTACAAGGAAAAACAAGATGAGGGTAAGGAACATA
* *
10584224 AACATGAAGAGTACCACGAATCACGCGAATCGAAGGAGCACGAAGAGTACGAGAAAGAAAAACCC
1 AACATGAAGAGTACCACGAGTCACACGAATCGAAGGAGCACGAAGAGTACGAGAAAGAAAAACCC
* *
10584289 AATTTCCCCAAAGGGGAAAAGCCCAAAGAGCACGAGAAACATGAAGTCGAATATCCGAAAATACC
66 AATTTCCCCAAAGGGGAAAAGCCTAAAGAGCACGAGAAACACGAAGTCGAATATCCGAAAATACC
*
10584354 CGAGTACAAGGAAAAACAAGATGAGGGCAAGGAACATA
131 CGAGTACAAGGAAAAACAAGATGAGGGTAAGGAACATA
* *
10584392 AACATGATGAGTGCCACGAGTCACACGAATCGAAGGAGCACGAAGAGTACGAGAAAGAAAAACCC
1 AACATGAAGAGTACCACGAGTCACACGAATCGAAGGAGCACGAAGAGTACGAGAAAGAAAAACCC
*
10584457 AATTTCCCCAAAGGGGAAAAGCCTAAAGAGCATGAGAAACACGAAGTCGAATATCCGAAAATACC
66 AATTTCCCCAAAGGGGAAAAGCCTAAAGAGCACGAGAAACACGAAGTCGAATATCCGAAAATACC
*
10584522 CGAATACAAGGAAAAACAAGATGAGGGTAAGGAACATA
131 CGAGTACAAGGAAAAACAAGATGAGGGTAAGGAACATA
10584560 AACATGA
1 AACATGA
10584567 GTTCCAAAAG
Statistics
Matches: 321, Mismatches: 22, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
168 321 1.00
ACGTcount: A:0.46, C:0.20, G:0.23, T:0.11
Consensus pattern (168 bp):
AACATGAAGAGTACCACGAGTCACACGAATCGAAGGAGCACGAAGAGTACGAGAAAGAAAAACCC
AATTTCCCCAAAGGGGAAAAGCCTAAAGAGCACGAGAAACACGAAGTCGAATATCCGAAAATACC
CGAGTACAAGGAAAAACAAGATGAGGGTAAGGAACATA
Found at i:10585205 original size:74 final size:74
Alignment explanation
Indices: 10585117--10585262 Score: 283
Period size: 74 Copynumber: 2.0 Consensus size: 74
10585107 TATTCTTAAC
10585117 TACATTTAAACAAATTCCACTTAAAATTTTAATAAATAATAACAAATAATTATGGTAATATAATA
1 TACATTTAAACAAATTCCACTTAAAATTTTAATAAATAATAACAAATAATTATGGTAATATAATA
10585182 CATTAAACT
66 CATTAAACT
*
10585191 TACATTTAAACAAATTCCACTTAAAATTTTAATAAATAATAACAAATAATTATTGTAATATAATA
1 TACATTTAAACAAATTCCACTTAAAATTTTAATAAATAATAACAAATAATTATGGTAATATAATA
10585256 CATTAAA
66 CATTAAA
10585263 TGCAACAAAA
Statistics
Matches: 71, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
74 71 1.00
ACGTcount: A:0.52, C:0.10, G:0.02, T:0.36
Consensus pattern (74 bp):
TACATTTAAACAAATTCCACTTAAAATTTTAATAAATAATAACAAATAATTATGGTAATATAATA
CATTAAACT
Found at i:10585579 original size:27 final size:27
Alignment explanation
Indices: 10585434--10585586 Score: 88
Period size: 27 Copynumber: 5.8 Consensus size: 27
10585424 AAATATATTA
10585434 AAATT-TTAATTATACC-AATTTAATTT
1 AAATTCTTAATTAT-CCTAATTTAATTT
* * ** *
10585460 AAATTATTAATTATCTTAAATAAAATCTA
1 AAATTCTTAATTATCCT-AATTTAAT-TT
* *
10585489 AAATT-TTATTTAACCT-A-TTAA-TT
1 AAATTCTTAATTATCCTAATTTAATTT
* * * *
10585512 AAATTCCTAATTAT-CTTATCTAAATTA
1 AAATTCTTAATTATCCTAAT-TTAATTT
* *
10585539 AAAATC-TAAATATCCTAATTTAATTT
1 AAATTCTTAATTATCCTAATTTAATTT
*
10585565 AAATTCTTAATTATCTTAATTT
1 AAATTCTTAATTATCCTAATTT
10585587 GTAACCTCCT
Statistics
Matches: 93, Mismatches: 23, Indels: 21
0.68 0.17 0.15
Matches are distributed among these distances:
23 8 0.09
24 6 0.06
25 2 0.02
26 26 0.28
27 31 0.33
28 14 0.15
29 6 0.06
ACGTcount: A:0.43, C:0.10, G:0.00, T:0.47
Consensus pattern (27 bp):
AAATTCTTAATTATCCTAATTTAATTT
Found at i:10585710 original size:21 final size:22
Alignment explanation
Indices: 10585668--10585710 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
10585658 AACAGTCGAA
*
10585668 TTTAAAACATTTATTTATTTTT
1 TTTAAAACATTTATCTATTTTT
10585690 TTTAAAA-ATTTAGTCTATTTT
1 TTTAAAACATTTA-TCTATTTT
10585711 CAGAAGAACG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 5 0.26
22 14 0.74
ACGTcount: A:0.33, C:0.05, G:0.02, T:0.60
Consensus pattern (22 bp):
TTTAAAACATTTATCTATTTTT
Found at i:10588603 original size:15 final size:15
Alignment explanation
Indices: 10588583--10588611 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
10588573 CACATCTCAA
10588583 AAATTGGGTTAGTAT
1 AAATTGGGTTAGTAT
10588598 AAATTGGGTTAGTA
1 AAATTGGGTTAGTA
10588612 AACCAAGAGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.34, C:0.00, G:0.28, T:0.38
Consensus pattern (15 bp):
AAATTGGGTTAGTAT
Found at i:10590198 original size:6 final size:6
Alignment explanation
Indices: 10590187--10590214 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
10590177 AGGGGGTAGG
10590187 ATCTAT ATCTAT ATCTAT ATCTAT ATCT
1 ATCTAT ATCTAT ATCTAT ATCTAT ATCT
10590215 GCATTTGAAA
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:0.32, C:0.18, G:0.00, T:0.50
Consensus pattern (6 bp):
ATCTAT
Found at i:10598407 original size:26 final size:26
Alignment explanation
Indices: 10598377--10598449 Score: 85
Period size: 27 Copynumber: 2.8 Consensus size: 26
10598367 AACCTATTAA
10598377 TTAAATTCCTAATTATCTTATCTAAT
1 TTAAATTCCTAATTATCTTATCTAAT
* * *
10598403 TTAAA-ACTCTAATTATCCTAATTTAAT
1 TTAAATTC-CTAATTAT-CTTATCTAAT
*
10598430 TTAAATTCTTAATTATCTTA
1 TTAAATTCCTAATTATCTTA
10598450 ATTTGTAACC
Statistics
Matches: 38, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
25 1 0.03
26 16 0.42
27 20 0.53
28 1 0.03
ACGTcount: A:0.37, C:0.14, G:0.00, T:0.49
Consensus pattern (26 bp):
TTAAATTCCTAATTATCTTATCTAAT
Found at i:10600230 original size:30 final size:31
Alignment explanation
Indices: 10600174--10600231 Score: 75
Period size: 30 Copynumber: 1.9 Consensus size: 31
10600164 AGTTTTTAAT
*
10600174 AATTTATATAATTTTTGTATCATTTATACTA
1 AATTTATATAATTTTTGCATCATTTATACTA
*
10600205 AATTT-TATAATTTTGTGCA-CTTTTATA
1 AATTTATATAATTTT-TGCATCATTTATA
10600232 TAGTTTAATA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
30 16 0.67
31 8 0.33
ACGTcount: A:0.33, C:0.07, G:0.05, T:0.55
Consensus pattern (31 bp):
AATTTATATAATTTTTGCATCATTTATACTA
Found at i:10600686 original size:15 final size:15
Alignment explanation
Indices: 10600666--10600741 Score: 59
Period size: 15 Copynumber: 5.1 Consensus size: 15
10600656 TTATGGAAAG
*
10600666 TCAAATATATGGTTA
1 TCAAATATATGGATA
*
10600681 TCAAATA-ATGGAAA
1 TCAAATATATGGATA
*
10600695 GTCAAAGATATGTG-TA
1 -TCAAATATATG-GATA
* *
10600711 TCAAATAT-TGAAAA
1 TCAAATATATGGATA
*
10600725 TCAAATATATGGGTA
1 TCAAATATATGGATA
10600740 TC
1 TC
10600742 GAGATATTGG
Statistics
Matches: 46, Mismatches: 10, Indels: 10
0.70 0.15 0.15
Matches are distributed among these distances:
14 16 0.35
15 25 0.54
16 4 0.09
17 1 0.02
ACGTcount: A:0.45, C:0.08, G:0.16, T:0.32
Consensus pattern (15 bp):
TCAAATATATGGATA
Found at i:10600694 original size:30 final size:29
Alignment explanation
Indices: 10600657--10600741 Score: 109
Period size: 30 Copynumber: 2.9 Consensus size: 29
10600647 CATCCGTATT
10600657 TATGGAAAGTCAAATATATGGTTATCAAA
1 TATGGAAAGTCAAATATATGGTTATCAAA
*
10600686 TAATGGAAAGTCAAAGATAT-GTGTATCAAA
1 T-ATGGAAAGTCAAATATATGGT-TATCAAA
* * *
10600716 TATTGAAAATCAAATATATGGGTATC
1 TATGGAAAGTCAAATATATGGTTATC
10600742 GAGATATTGG
Statistics
Matches: 48, Mismatches: 5, Indels: 6
0.81 0.08 0.10
Matches are distributed among these distances:
29 22 0.46
30 26 0.54
ACGTcount: A:0.45, C:0.07, G:0.18, T:0.31
Consensus pattern (29 bp):
TATGGAAAGTCAAATATATGGTTATCAAA
Found at i:10605358 original size:30 final size:29
Alignment explanation
Indices: 10605322--10605406 Score: 116
Period size: 30 Copynumber: 2.8 Consensus size: 29
10605312 ATCCGTATTT
*
10605322 ATGGAAAGTCAAATATATGGTTATCAAATA
1 ATGGAAAGTCAAAGATATGG-TATCAAATA
10605352 ATGGAAAGTCAAAGATATAGGTATCAAATA
1 ATGGAAAGTCAAAGATAT-GGTATCAAATA
* *
10605382 TTGGAAAATCAAAGATATGGGTATC
1 ATGGAAAGTCAAAGATAT-GGTATC
10605407 GAGATATTGA
Statistics
Matches: 50, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
30 48 0.96
31 2 0.04
ACGTcount: A:0.46, C:0.07, G:0.20, T:0.27
Consensus pattern (29 bp):
ATGGAAAGTCAAAGATATGGTATCAAATA
Found at i:10608399 original size:15 final size:15
Alignment explanation
Indices: 10608375--10608469 Score: 76
Period size: 15 Copynumber: 6.7 Consensus size: 15
10608365 AGTGCCACCT
*
10608375 CCATTTCCACCAATA
1 CCATTGCCACCAATA
10608390 CCATTGCCACC--T-
1 CCATTGCCACCAATA
* *
10608402 CCATTGTCGCCAATA
1 CCATTGCCACCAATA
* *
10608417 CCATTGTCACCAGTA
1 CCATTGCCACCAATA
*
10608432 CCATTGCTACC--T-
1 CCATTGCCACCAATA
* *
10608444 CCATTGTCGCCAATA
1 CCATTGCCACCAATA
10608459 CCATTGCCACC
1 CCATTGCCACC
10608470 TCCATTTTTA
Statistics
Matches: 62, Mismatches: 12, Indels: 12
0.72 0.14 0.14
Matches are distributed among these distances:
12 17 0.27
13 2 0.03
14 2 0.03
15 41 0.66
ACGTcount: A:0.24, C:0.40, G:0.09, T:0.26
Consensus pattern (15 bp):
CCATTGCCACCAATA
Found at i:10608405 original size:27 final size:27
Alignment explanation
Indices: 10608367--10608427 Score: 88
Period size: 27 Copynumber: 2.3 Consensus size: 27
10608357 CTTCAGCAAG
10608367 TGCCACCTCCATT-TCCACCAATACCAT
1 TGCCACCTCCATTGT-CACCAATACCAT
*
10608394 TGCCACCTCCATTGTCGCCAATACCAT
1 TGCCACCTCCATTGTCACCAATACCAT
*
10608421 TGTCACC
1 TGCCACC
10608428 AGTACCATTG
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
27 30 0.97
28 1 0.03
ACGTcount: A:0.23, C:0.43, G:0.08, T:0.26
Consensus pattern (27 bp):
TGCCACCTCCATTGTCACCAATACCAT
Found at i:10608434 original size:42 final size:42
Alignment explanation
Indices: 10608375--10608469 Score: 154
Period size: 42 Copynumber: 2.3 Consensus size: 42
10608365 AGTGCCACCT
*
10608375 CCATTTCCACCAATACCATTGCCACCTCCATTGTCGCCAATA
1 CCATTGCCACCAATACCATTGCCACCTCCATTGTCGCCAATA
* * *
10608417 CCATTGTCACCAGTACCATTGCTACCTCCATTGTCGCCAATA
1 CCATTGCCACCAATACCATTGCCACCTCCATTGTCGCCAATA
10608459 CCATTGCCACC
1 CCATTGCCACC
10608470 TCCATTTTTA
Statistics
Matches: 48, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
42 48 1.00
ACGTcount: A:0.24, C:0.40, G:0.09, T:0.26
Consensus pattern (42 bp):
CCATTGCCACCAATACCATTGCCACCTCCATTGTCGCCAATA
Found at i:10608447 original size:27 final size:27
Alignment explanation
Indices: 10608417--10608536 Score: 127
Period size: 27 Copynumber: 4.4 Consensus size: 27
10608407 GTCGCCAATA
*
10608417 CCATTGTCACCAGTACCATTGCTACCT
1 CCATTGTCACCAGTACCATTGCCACCT
* *
10608444 CCATTGTCGCCAATACCATTGCCACCT
1 CCATTGTCACCAGTACCATTGCCACCT
* * *
10608471 CCATTTTTACCAGTACCATTGCCATCT
1 CCATTGTCACCAGTACCATTGCCACCT
* * *
10608498 GCATAT-TTACCGGTACCATTGCCACCT
1 CCAT-TGTCACCAGTACCATTGCCACCT
10608525 CCGA-TGTCACCA
1 CC-ATTGTCACCA
10608537 CTTCCTTTAA
Statistics
Matches: 76, Mismatches: 14, Indels: 6
0.79 0.15 0.06
Matches are distributed among these distances:
26 1 0.01
27 73 0.96
28 2 0.03
ACGTcount: A:0.23, C:0.37, G:0.12, T:0.29
Consensus pattern (27 bp):
CCATTGTCACCAGTACCATTGCCACCT
Found at i:10610356 original size:27 final size:26
Alignment explanation
Indices: 10610300--10610368 Score: 88
Period size: 25 Copynumber: 2.7 Consensus size: 26
10610290 CAAAATTATT
10610300 TTATAAAATATA-AAAATTGCAAAAA
1 TTATAAAATATATAAAATTGCAAAAA
* *
10610325 TTATAAAATATATAAAATTGCAGATA
1 TTATAAAATATATAAAATTGCAAAAA
10610351 TATATATAAAT-TATAAAA
1 T-TATA-AAATATATAAAA
10610369 ATGATTATAA
Statistics
Matches: 39, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
25 12 0.31
26 12 0.31
27 11 0.28
28 4 0.10
ACGTcount: A:0.59, C:0.03, G:0.04, T:0.33
Consensus pattern (26 bp):
TTATAAAATATATAAAATTGCAAAAA
Found at i:10610377 original size:19 final size:18
Alignment explanation
Indices: 10610350--10610416 Score: 57
Period size: 19 Copynumber: 3.7 Consensus size: 18
10610340 AATTGCAGAT
10610350 ATATATATAAATTATAAAA
1 ATAT-TATAAATTATAAAA
**
10610369 ATGATTATAAACGA-AAAA
1 AT-ATTATAAATTATAAAA
*
10610387 A-AATATAAATTATAAAA
1 ATATTATAAATTATAAAA
*
10610404 ATTATTAAAAATT
1 A-TATTATAAATT
10610417 GTGAAAAGCA
Statistics
Matches: 37, Mismatches: 7, Indels: 8
0.71 0.13 0.15
Matches are distributed among these distances:
16 8 0.22
17 5 0.14
18 5 0.14
19 17 0.46
20 2 0.05
ACGTcount: A:0.63, C:0.01, G:0.03, T:0.33
Consensus pattern (18 bp):
ATATTATAAATTATAAAA
Found at i:10610491 original size:16 final size:17
Alignment explanation
Indices: 10610472--10610519 Score: 53
Period size: 19 Copynumber: 2.7 Consensus size: 17
10610462 TAAATTATGA
10610472 AAAATT-TAAAAAAATT
1 AAAATTATAAAAAAATT
10610488 AAAATTATGAAAAAATATT
1 AAAATTAT-AAAAAA-ATT
*
10610507 TAAATATATAAAA
1 AAAAT-TATAAAA
10610520 TATTATTAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
16 6 0.22
17 1 0.04
18 6 0.22
19 11 0.41
20 3 0.11
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (17 bp):
AAAATTATAAAAAAATT
Found at i:10610503 original size:27 final size:28
Alignment explanation
Indices: 10610444--10610501 Score: 86
Period size: 26 Copynumber: 2.2 Consensus size: 28
10610434 GTACTAAAAT
10610444 AAAAA-TTAAAAAAACATATAAATTATG
1 AAAAATTTAAAAAAACATATAAATTATG
*
10610471 AAAAATTTAAAAAAA-TTA-AAATTATG
1 AAAAATTTAAAAAAACATATAAATTATG
10610497 AAAAA
1 AAAAA
10610502 ATATTTAAAT
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
26 13 0.45
27 7 0.24
28 9 0.31
ACGTcount: A:0.69, C:0.02, G:0.03, T:0.26
Consensus pattern (28 bp):
AAAAATTTAAAAAAACATATAAATTATG
Found at i:10610507 original size:29 final size:28
Alignment explanation
Indices: 10610449--10610541 Score: 82
Period size: 29 Copynumber: 3.2 Consensus size: 28
10610439 AAAATAAAAA
*
10610449 TTAAAAAAACATATAAATTATG-AAAA-AT
1 TTAAAAAAA-TTA-AAATTATGAAAAATAT
10610477 TTAAAAAAATTAAAATTATGAAAAAATAT
1 TTAAAAAAATTAAAATTATG-AAAAATAT
* * * *
10610506 TTAAATATATAAAATATTATTAAAAATAT
1 TTAAAAAAATTAAA-ATTATGAAAAATAT
10610535 TATAAAA
1 T-TAAAA
10610542 TATAGAAAAT
Statistics
Matches: 54, Mismatches: 6, Indels: 8
0.79 0.09 0.12
Matches are distributed among these distances:
26 8 0.15
27 2 0.04
28 13 0.24
29 22 0.41
30 9 0.17
ACGTcount: A:0.63, C:0.01, G:0.02, T:0.33
Consensus pattern (28 bp):
TTAAAAAAATTAAAATTATGAAAAATAT
Found at i:10610511 original size:19 final size:17
Alignment explanation
Indices: 10610472--10610524 Score: 54
Period size: 17 Copynumber: 3.1 Consensus size: 17
10610462 TAAATTATGA
*
10610472 AAAATTTAAAAAA-ATT
1 AAAATATAAAAAATATT
10610488 AAAATTATGAAAAAATATT
1 AAAA-TAT-AAAAAATATT
* *
10610507 TAAATATATAAAATATT
1 AAAATATAAAAAATATT
10610524 A
1 A
10610525 TTAAAAATAT
Statistics
Matches: 30, Mismatches: 4, Indels: 5
0.77 0.10 0.13
Matches are distributed among these distances:
16 4 0.13
17 11 0.37
18 9 0.30
19 6 0.20
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (17 bp):
AAAATATAAAAAATATT
Found at i:10610535 original size:9 final size:9
Alignment explanation
Indices: 10610471--10610544 Score: 53
Period size: 10 Copynumber: 7.9 Consensus size: 9
10610461 ATAAATTATG
10610471 AAAAAT-TT
1 AAAAATATT
*
10610479 AAAAAAATT
1 AAAAATATT
* *
10610488 AAAATTATGA
1 AAAAATAT-T
10610498 AAAAATATT
1 AAAAATATT
*
10610507 -TAAATATAT
1 AAAAATAT-T
10610516 AAAATATTATT
1 AAAA-A-TATT
10610527 AAAAATATT
1 AAAAATATT
10610536 ATAAAATAT
1 A-AAAATAT
10610545 AGAAAATTGG
Statistics
Matches: 51, Mismatches: 8, Indels: 12
0.72 0.11 0.17
Matches are distributed among these distances:
8 11 0.22
9 14 0.27
10 17 0.33
11 6 0.12
12 3 0.06
ACGTcount: A:0.64, C:0.00, G:0.01, T:0.35
Consensus pattern (9 bp):
AAAAATATT
Found at i:10610559 original size:29 final size:29
Alignment explanation
Indices: 10610491--10610560 Score: 72
Period size: 29 Copynumber: 2.4 Consensus size: 29
10610481 AAAAATTAAA
10610491 ATTATGAAAAAATATTTAAATATATAAAAT
1 ATTA-GAAAAAATATTTAAATATATAAAAT
**
10610521 ATTATTAAAAATATTATAAA-ATATAGAAA-
1 ATTAGAAAAAATATT-TAAATATATA-AAAT
*
10610550 ATTGGAAAAAA
1 ATTAGAAAAAA
10610561 ATAAATTATT
Statistics
Matches: 33, Mismatches: 5, Indels: 5
0.77 0.12 0.12
Matches are distributed among these distances:
29 22 0.67
30 11 0.33
ACGTcount: A:0.61, C:0.00, G:0.06, T:0.33
Consensus pattern (29 bp):
ATTAGAAAAAATATTTAAATATATAAAAT
Found at i:10610663 original size:19 final size:18
Alignment explanation
Indices: 10610641--10610691 Score: 50
Period size: 19 Copynumber: 2.7 Consensus size: 18
10610631 GTAAAAATAC
*
10610641 TAAAACATATAAAATATTA
1 TAAAACAAATAAAAT-TTA
*
10610660 TAAAA-AGCATAAAATTTA
1 TAAAACA-AATAAAATTTA
10610678 TAATAACAAATAAA
1 TAA-AACAAATAAA
10610692 TAAAAACTAT
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
18 7 0.26
19 19 0.70
20 1 0.04
ACGTcount: A:0.65, C:0.06, G:0.02, T:0.27
Consensus pattern (18 bp):
TAAAACAAATAAAATTTA
Found at i:10610679 original size:28 final size:26
Alignment explanation
Indices: 10610596--10610680 Score: 80
Period size: 28 Copynumber: 3.0 Consensus size: 26
10610586 AAATGGTAAT
*
10610596 AAATATTTAAAAAGATAGAAAGTTATTA
1 AAATATTTAAAAAGATA-AAACTTA-TA
* *
10610624 AAATATTGTAAAAATACTAAAACATATA
1 AAATATT-TAAAAAGA-TAAAACTTATA
*
10610652 AAATATTATAAAAAGCATAAAATTTATA
1 AAATATT-TAAAAAG-ATAAAACTTATA
10610680 A
1 A
10610681 TAACAAATAA
Statistics
Matches: 47, Mismatches: 7, Indels: 6
0.78 0.12 0.10
Matches are distributed among these distances:
28 32 0.68
29 13 0.28
30 2 0.04
ACGTcount: A:0.60, C:0.04, G:0.06, T:0.31
Consensus pattern (26 bp):
AAATATTTAAAAAGATAAAACTTATA
Found at i:10611170 original size:14 final size:15
Alignment explanation
Indices: 10611150--10611190 Score: 50
Period size: 14 Copynumber: 2.9 Consensus size: 15
10611140 TTTGATTGGC
10611150 AGTAAAATGTTTTC-
1 AGTAAAATGTTTTCT
* *
10611164 CGTAAAATGATTTCT
1 AGTAAAATGTTTTCT
10611179 AG-AAAATGTTTT
1 AGTAAAATGTTTT
10611191 ACTTTTCTGT
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
14 21 0.95
15 1 0.05
ACGTcount: A:0.37, C:0.07, G:0.15, T:0.41
Consensus pattern (15 bp):
AGTAAAATGTTTTCT
Found at i:10611203 original size:34 final size:35
Alignment explanation
Indices: 10611159--10611225 Score: 91
Period size: 34 Copynumber: 1.9 Consensus size: 35
10611149 CAGTAAAATG
* *
10611159 TTTTCCGTAAAATGA-TTTCTAGAAAATGTTTTAC
1 TTTTCCGTAAAATGACTTACTAGAAAATATTTTAC
* *
10611193 TTTTCTGTAAAATGACTTACTGGAAAATATTTT
1 TTTTCCGTAAAATGACTTACTAGAAAATATTTT
10611226 CTGGTGTTTG
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
34 14 0.50
35 14 0.50
ACGTcount: A:0.33, C:0.10, G:0.12, T:0.45
Consensus pattern (35 bp):
TTTTCCGTAAAATGACTTACTAGAAAATATTTTAC
Found at i:10617051 original size:28 final size:29
Alignment explanation
Indices: 10617020--10617130 Score: 70
Period size: 29 Copynumber: 3.8 Consensus size: 29
10617010 AATGTTTTCT
*
10617020 TTTTGCAATTTTTTAATAATTTATATAAT
1 TTTTGCAATTTTTTAATAATTTATATAAC
* * * * *
10617049 TTTTG-TATCATTTATACTACTTTTTATAA-
1 TTTTGCAAT--TTTTTAATAATTTATATAAC
10617078 TTTTGTTC-A-TTTTTATATAATTT-TATAAC
1 TTTTG--CAATTTTTTA-ATAATTTATATAAC
* *
10617107 TTTTGTAATTTTTTAATATTTTAT
1 TTTTGCAATTTTTTAATAATTTAT
10617131 GATTTTCTAT
Statistics
Matches: 62, Mismatches: 10, Indels: 20
0.67 0.11 0.22
Matches are distributed among these distances:
28 19 0.31
29 27 0.44
30 15 0.24
31 1 0.02
ACGTcount: A:0.29, C:0.05, G:0.04, T:0.62
Consensus pattern (29 bp):
TTTTGCAATTTTTTAATAATTTATATAAC
Found at i:10617093 original size:30 final size:28
Alignment explanation
Indices: 10617031--10617113 Score: 82
Period size: 28 Copynumber: 2.9 Consensus size: 28
10617021 TTTGCAATTT
*
10617031 TTTA-ATAATTTATATAATTTTTGTATCA
1 TTTATATAATTT-TATAACTTTTGTATCA
*
10617059 TTTATACTACTTTTTATAA-TTTTGT-TCA
1 TTTATA-TA-ATTTTATAACTTTTGTATCA
10617087 TTTTTATATAATTTTATAACTTTTGTA
1 --TTTATATAATTTTATAACTTTTGTA
10617114 ATTTTTTAAT
Statistics
Matches: 46, Mismatches: 2, Indels: 12
0.77 0.03 0.20
Matches are distributed among these distances:
28 15 0.33
29 15 0.33
30 13 0.28
31 3 0.07
ACGTcount: A:0.30, C:0.06, G:0.04, T:0.60
Consensus pattern (28 bp):
TTTATATAATTTTATAACTTTTGTATCA
Found at i:10617110 original size:20 final size:19
Alignment explanation
Indices: 10617029--10617110 Score: 53
Period size: 20 Copynumber: 4.2 Consensus size: 19
10617019 TTTTTGCAAT
*
10617029 TTTTTA-ATAATTTATATAA
1 TTTTTATATAATTT-TATAC
* *
10617048 TTTTTGTATCA-TTTATAC
1 TTTTTATATAATTTTATAC
* *
10617066 TACTTTT-TATAATTTTGTTC
1 T--TTTTATATAATTTTATAC
10617086 ATTTTTATATAATTTTATAAC
1 -TTTTTATATAATTTTAT-AC
10617107 TTTT
1 TTTT
10617111 GTAATTTTTT
Statistics
Matches: 48, Mismatches: 8, Indels: 13
0.70 0.12 0.19
Matches are distributed among these distances:
18 5 0.10
19 15 0.31
20 26 0.54
21 2 0.04
ACGTcount: A:0.29, C:0.06, G:0.02, T:0.62
Consensus pattern (19 bp):
TTTTTATATAATTTTATAC
Found at i:10622278 original size:195 final size:195
Alignment explanation
Indices: 10621937--10622319 Score: 552
Period size: 195 Copynumber: 2.0 Consensus size: 195
10621927 TTTTGTTTAA
* * * ** *
10621937 TAAGGTTGCATGATTTACATTCTATATGTGATATTATTTCACTGTTATGCTATAACTTATCATAA
1 TAAGCTTGCATGATTTACATTATATATATGATATTATACCACTGTTATGATATAACTTATCATAA
* * * *
10622002 CATACATTGCAAGTAAGTGGTGTGTTGGAGGTTAGGTTGGGAATTGATGGAGAGTCACTTCGGTG
66 CATACATTGCAAGTAAGTGGTGTGTTAGAGGTTAGATTGGGAATTAATGGAAAGTCACTTCGGTG
* * *
10622067 GCTAATGTAACTCGCCAAATTTGGGTCGAACCTACTC-AGCCGGGTTTGGGGTGTTACATTGGTT
131 GCTAATGTAACTCGCCAAATTTAGGTCGAACCTACTCGA-CCGAGTTTAGGGTGTTACATTGGTT
10622131 T
195 T
* * **
10622132 TAAGCTTGCATGATTTACATTATATGTATTATATTATACCGTTGTTATGATATAACTTATCATAA
1 TAAGCTTGCATGATTTACATTATATATATGATATTATACCACTGTTATGATATAACTTATCATAA
* * *
10622197 TATACGTTGCAAGTAAGTGGTGTGTTAGAGGTTAGATTGGGAGTTAATGGAAAGTCACTTCGGTG
66 CATACATTGCAAGTAAGTGGTGTGTTAGAGGTTAGATTGGGAATTAATGGAAAGTCACTTCGGTG
* *
10622262 GCTAATGTAGCTCGCCAAATTTAGGTCGAACCTATTCGACCGAGTTTAGGGTGTTACA
131 GCTAATGTAACTCGCCAAATTTAGGTCGAACCTACTCGACCGAGTTTAGGGTGTTACA
10622320 ATGAAAAGAA
Statistics
Matches: 165, Mismatches: 22, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
195 164 0.99
196 1 0.01
ACGTcount: A:0.27, C:0.13, G:0.24, T:0.36
Consensus pattern (195 bp):
TAAGCTTGCATGATTTACATTATATATATGATATTATACCACTGTTATGATATAACTTATCATAA
CATACATTGCAAGTAAGTGGTGTGTTAGAGGTTAGATTGGGAATTAATGGAAAGTCACTTCGGTG
GCTAATGTAACTCGCCAAATTTAGGTCGAACCTACTCGACCGAGTTTAGGGTGTTACATTGGTTT
Found at i:10623864 original size:3 final size:3
Alignment explanation
Indices: 10623858--10623895 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
10623848 TTTAATGTTG
10623858 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 TT
10623896 TTCCTTTATT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:10623985 original size:14 final size:14
Alignment explanation
Indices: 10623966--10623999 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
10623956 TATTTTCATA
10623966 ATATATATGTATAT
1 ATATATATGTATAT
* *
10623980 ATATATATTTTTAT
1 ATATATATGTATAT
10623994 ATATAT
1 ATATAT
10624000 GCGTACACAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.56
Consensus pattern (14 bp):
ATATATATGTATAT
Found at i:10627348 original size:30 final size:30
Alignment explanation
Indices: 10627314--10627416 Score: 99
Period size: 30 Copynumber: 3.4 Consensus size: 30
10627304 GGATTCCCAA
*
10627314 TTCCACCACTTCCTAACCTTACCCCCAGTC
1 TTCCACCACTTCCTAACCCTACCCCCAGTC
*
10627344 TTCCACCACTTCCTAGA--GTA---CCAGTACC
1 TTCCACCACTTCCTA-ACCCTACCCCCAGT--C
*
10627372 AATTCCACCACTTCCTAACCCTACCCCCATTC
1 --TTCCACCACTTCCTAACCCTACCCCCAGTC
10627404 TTCCACCACTTCC
1 TTCCACCACTTCC
10627417 CAGCGTACCA
Statistics
Matches: 60, Mismatches: 3, Indels: 20
0.72 0.04 0.24
Matches are distributed among these distances:
26 5 0.08
28 1 0.02
29 3 0.05
30 43 0.72
31 3 0.05
32 1 0.02
34 4 0.07
ACGTcount: A:0.22, C:0.48, G:0.04, T:0.26
Consensus pattern (30 bp):
TTCCACCACTTCCTAACCCTACCCCCAGTC
Found at i:10627383 original size:60 final size:60
Alignment explanation
Indices: 10627310--10627426 Score: 198
Period size: 60 Copynumber: 1.9 Consensus size: 60
10627300 GCCTGGATTC
* *
10627310 CCAATTCCACCACTTCCTAACCTTACCCCCAGTCTTCCACCACTTCCTAGAGTACCAGTA
1 CCAATTCCACCACTTCCTAACCCTACCCCCAGTCTTCCACCACTTCCCAGAGTACCAGTA
* *
10627370 CCAATTCCACCACTTCCTAACCCTACCCCCATTCTTCCACCACTTCCCAGCGTACCA
1 CCAATTCCACCACTTCCTAACCCTACCCCCAGTCTTCCACCACTTCCCAGAGTACCA
10627427 ATTCCACCAC
Statistics
Matches: 53, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
60 53 1.00
ACGTcount: A:0.24, C:0.47, G:0.05, T:0.24
Consensus pattern (60 bp):
CCAATTCCACCACTTCCTAACCCTACCCCCAGTCTTCCACCACTTCCCAGAGTACCAGTA
Found at i:10627431 original size:54 final size:54
Alignment explanation
Indices: 10627281--10627441 Score: 187
Period size: 60 Copynumber: 2.9 Consensus size: 54
10627271 CCACCACTTC
* ** ** * *
10627281 CCCCCATTCTTCCACCACTGCCTGGATTCCCAATTCCACCACTTCCTAACCTTA
1 CCCCCATTCTTCCACCACTTCCCAGCGTACCAATTCCACCACTTCCTAACCCTA
* *
10627335 CCCCCAGTCTTCCACCACTTCCTAGAGTACCAGTACCAATTCCACCACTTCCTAACCCTA
1 CCCCCATTCTTCCACCACTTCC--CAG---C-GTACCAATTCCACCACTTCCTAACCCTA
10627395 CCCCCATTCTTCCACCACTTCCCAGCGTACCAATTCCACCACTTCCT
1 CCCCCATTCTTCCACCACTTCCCAGCGTACCAATTCCACCACTTCCT
10627442 CCTATATTGC
Statistics
Matches: 91, Mismatches: 10, Indels: 12
0.81 0.09 0.11
Matches are distributed among these distances:
54 41 0.45
55 1 0.01
56 1 0.01
58 2 0.02
60 46 0.51
ACGTcount: A:0.22, C:0.47, G:0.06, T:0.25
Consensus pattern (54 bp):
CCCCCATTCTTCCACCACTTCCCAGCGTACCAATTCCACCACTTCCTAACCCTA
Found at i:10629738 original size:72 final size:72
Alignment explanation
Indices: 10629659--10629805 Score: 242
Period size: 72 Copynumber: 2.0 Consensus size: 72
10629649 TTATAATTTA
10629659 TATATTTATGCACACACACACATATATATGCCTATTATTTTGTATGTTATTGATTTGTCCTTTT-
1 TATATTTATGCACACACACACATATATATGCCTATTATTTTGTATGTTATTGATTTGTCCTTTTC
10629723 ATTTGTCT
66 A-TTGTCT
* * * *
10629731 TATATTTATGTACACACATATATATATATGCTTATTATTTTGTATGTTATTGATTTGTCCTTTTC
1 TATATTTATGCACACACACACATATATATGCCTATTATTTTGTATGTTATTGATTTGTCCTTTTC
10629796 ATTGTCT
66 ATTGTCT
10629803 TAT
1 TAT
10629806 TTTCGTTGTT
Statistics
Matches: 70, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
72 69 0.99
73 1 0.01
ACGTcount: A:0.25, C:0.13, G:0.10, T:0.52
Consensus pattern (72 bp):
TATATTTATGCACACACACACATATATATGCCTATTATTTTGTATGTTATTGATTTGTCCTTTTC
ATTGTCT
Found at i:10635521 original size:24 final size:24
Alignment explanation
Indices: 10635487--10635542 Score: 67
Period size: 24 Copynumber: 2.3 Consensus size: 24
10635477 ATCCCCAGAG
* * *
10635487 ATTACAATGGATTGAACTTTGAAA
1 ATTACAGTGGATCGAACATTGAAA
* *
10635511 ATTACAGTGGATCGGACATTGAAG
1 ATTACAGTGGATCGAACATTGAAA
10635535 ATTACAGT
1 ATTACAGT
10635543 AGGGGCAAGC
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.38, C:0.11, G:0.21, T:0.30
Consensus pattern (24 bp):
ATTACAGTGGATCGAACATTGAAA
Found at i:10635939 original size:50 final size:50
Alignment explanation
Indices: 10635885--10636147 Score: 172
Period size: 50 Copynumber: 5.3 Consensus size: 50
10635875 AGTAGAATAT
* * * * *
10635885 ATTGAAGCTACAATAGTAAATCTTGCTTCCCCGACATTGCAATTAAAAAG
1 ATTGAAGCTACAATGGTGAATCTTACTTCCCCGACATTGTAATTGAAAAG
* * * ** * ** * * *
10635935 ATTGAAGCCACAACGGCGAATCTTACTTCCTAGGCGGTGTAGTGGAACAG
1 ATTGAAGCTACAATGGTGAATCTTACTTCCCCGACATTGTAATTGAAAAG
** * ** * * *
10635985 ATTGAAGCTGTAACGGCAAATCTTGCTTCCTCGACATTGCAAGTT-AAAAG
1 ATTGAAGCTACAATGGTGAATCTTACTTCCCCGACATTGTAA-TTGAAAAG
* * * * * * * *
10636035 ATTGAAGCTACAATAGTGGATCTTACTT-TCCTA-GTGGTGTAGTGGAACAG
1 ATTGAAGCTACAATGGTGAATCTTACTTCCCCGACAT--TGTAATTGAAAAG
* *
10636085 ATTGAAGCAACAATGGTGAATCTTACTTCCCCGACATTGTAATTTAAAAG
1 ATTGAAGCTACAATGGTGAATCTTACTTCCCCGACATTGTAATTGAAAAG
10636135 ATTGAAGCTACAA
1 ATTGAAGCTACAA
10636148 CAACGGATAT
Statistics
Matches: 151, Mismatches: 56, Indels: 12
0.69 0.26 0.05
Matches are distributed among these distances:
48 1 0.01
49 3 0.02
50 142 0.94
51 4 0.03
52 1 0.01
ACGTcount: A:0.33, C:0.19, G:0.21, T:0.28
Consensus pattern (50 bp):
ATTGAAGCTACAATGGTGAATCTTACTTCCCCGACATTGTAATTGAAAAG
Found at i:10636006 original size:100 final size:100
Alignment explanation
Indices: 10635821--10636408 Score: 572
Period size: 100 Copynumber: 5.9 Consensus size: 100
10635811 ACTCCTGATG
* * * * * * * *
10635821 TTGCAATTAAAAATATTTAAGCCACAA-TGCTGAATCTTACTTTCCTGGCAGTGCAGTAGAATAT
1 TTGCAATTAAAAAGATTGAAGCTACAACAGC-GAATCTTACTTTCCTGGCGGTGCAGTGGAACAG
* *
10635885 ATTGAAGCTACAATAGTAAATCTTGCTTCCCCGACA
65 ATTGAAGCTACAACAGCAAATCTTGCTTCCCCGACA
* * *
10635921 TTGCAATTAAAAAGATTGAAGCCACAACGGCGAATCTTAC-TTCCTAGGCGGTGTAGTGGAACAG
1 TTGCAATTAAAAAGATTGAAGCTACAACAGCGAATCTTACTTTCCT-GGCGGTGCAGTGGAACAG
** * *
10635985 ATTGAAGCTGTAACGGCAAATCTTGCTTCCTCGACA
65 ATTGAAGCTACAACAGCAAATCTTGCTTCCCCGACA
* * * * * *
10636021 TTGCAAGTT-AAAAGATTGAAGCTACAATAGTGGATCTTACTTTCCTAGTGGTGTAGTGGAACAG
1 TTGCAA-TTAAAAAGATTGAAGCTACAACAGCGAATCTTACTTTCCTGGCGGTGCAGTGGAACAG
* ** ** *
10636085 ATTGAAGCAACAATGGTGAATCTTACTTCCCCGACA
65 ATTGAAGCTACAACAGCAAATCTTGCTTCCCCGACA
* * * * * * * *
10636121 TTGTAATTTAAAAGATTGAAGCTACAACAACGGATATTACTTTCCTGGTGGTGTAGTGGAACAAA
1 TTGCAATTAAAAAGATTGAAGCTACAACAGCGAATCTTACTTTCCTGGCGGTGCAGTGGAACAGA
* * * * *
10636186 TTGAAGCCATAACAACGAATATTGCTTCCCCGACA
66 TTGAAGCTACAACAGCAAATCTTGCTTCCCCGACA
* * * * ** * *
10636221 TTGCAGTTAAAAAGATTGAAACTGCAACAGCGGATCTTACTTTCCTGGCAATACAGTAGAACAGA
1 TTGCAATTAAAAAGATTGAAGCTACAACAGCGAATCTTACTTTCCTGGCGGTGCAGTGGAACAGA
*
10636286 TTGAAGCTACAACAGCAAATATTGCTTCCCC-AGCA
66 TTGAAGCTACAACAGCAAATCTTGCTTCCCCGA-CA
* * * * ** *
10636321 TTGCAGTTAAAAAGGTTGAAGCTACAACAGCGAATCTTACCTCCCTAACGTTGCAGTGGAACAGA
1 TTGCAATTAAAAAGATTGAAGCTACAACAGCGAATCTTACTTTCCTGGCGGTGCAGTGGAACAGA
* *
10636386 TTGAAGCTACAACAACGAATCTT
66 TTGAAGCTACAACAGCAAATCTT
10636409 ACTCCCCTGA
Statistics
Matches: 405, Mismatches: 77, Indels: 12
0.82 0.16 0.02
Matches are distributed among these distances:
99 8 0.02
100 388 0.96
101 9 0.02
ACGTcount: A:0.34, C:0.20, G:0.19, T:0.27
Consensus pattern (100 bp):
TTGCAATTAAAAAGATTGAAGCTACAACAGCGAATCTTACTTTCCTGGCGGTGCAGTGGAACAGA
TTGAAGCTACAACAGCAAATCTTGCTTCCCCGACA
Found at i:10636161 original size:50 final size:50
Alignment explanation
Indices: 10636107--10636415 Score: 158
Period size: 50 Copynumber: 6.2 Consensus size: 50
10636097 ATGGTGAATC
* *
10636107 TTACTTCCCCGACATTGTAATTTAAAAGATTGAAGCTACAACAACGGATA
1 TTACTTCCCCGACATTGTAGTTAAAAAGATTGAAGCTACAACAACGGATA
* * **** * * * * *
10636157 TTACTTTCCTGGTGGTGTAGTGGAACAA-ATTGAAGCCATAACAACGAATA
1 TTACTTCCCCGACATTGTAGT-TAAAAAGATTGAAGCTACAACAACGGATA
* * * * * *
10636207 TTGCTTCCCCGACATTGCAGTTAAAAAGATTGAAACTGCAACAGCGGATC
1 TTACTTCCCCGACATTGTAGTTAAAAAGATTGAAGCTACAACAACGGATA
* * * * ** * * **
10636257 TTACTTTCCTGGCAATACAG-TAGAACAGATTGAAGCTACAACAGCAAATA
1 TTACTTCCCCGACATTGTAGTTA-AAAAGATTGAAGCTACAACAACGGATA
* * * * * *
10636307 TTGCTTCCCC-AGCATTGCAGTTAAAAAGGTTGAAGCTACAACAGCGAATC
1 TTACTTCCCCGA-CATTGTAGTTAAAAAGATTGAAGCTACAACAACGGATA
* ** * * ** * * *
10636357 TTACCTCCCTAACGTTGCAGTGGAACAGATTGAAGCTACAACAACGAATC
1 TTACTTCCCCGACATTGTAGTTAAAAAGATTGAAGCTACAACAACGGATA
10636407 TTAC-TCCCC
1 TTACTTCCCC
10636416 TGACGAACCT
Statistics
Matches: 191, Mismatches: 62, Indels: 13
0.72 0.23 0.05
Matches are distributed among these distances:
49 10 0.05
50 175 0.92
51 6 0.03
ACGTcount: A:0.34, C:0.23, G:0.18, T:0.25
Consensus pattern (50 bp):
TTACTTCCCCGACATTGTAGTTAAAAAGATTGAAGCTACAACAACGGATA
Found at i:10636402 original size:200 final size:200
Alignment explanation
Indices: 10635854--10636405 Score: 651
Period size: 200 Copynumber: 2.8 Consensus size: 200
10635844 ACAATGCTGA
* *
10635854 ATCTTACTTTCCTGGCAGTGCAGTAGAATATATTGAAGCTACAATAGTAAATCTTGCTTCCCCGA
1 ATCTTACTTTCCTGGCAGTGCAGTAGAACAGATTGAAGCTACAATAGTAAATCTTGCTTCCCCGA
* *
10635919 CATTGCAATTAAAAAGATTGAAGCCACAACGGCGAATCTTA-CTTCCTAGGCGGTGTAGTGGAAC
66 CATTGCAATTAAAAAGATTGAAGCTACAACAGCGAATCTTACCTTCCTA-GCGGTGTAGTGGAAC
* ** * * * *
10635983 AGATTGAAGCTGTAACGGCAAATCTTGCTTCCTCGACATTGCAAGTTAAAAGATTGAAGCTACAA
130 AGATTGAAGCTATAACAACGAATATTGCTTCCCCGACATTGCAAGTTAAAAGATTGAAACTACAA
* *
10636048 TAGTGG
195 CAGCGG
* ** * * * * * *
10636054 ATCTTACTTTCCTAGTGGTGTAGTGGAACAGATTGAAGCAACAATGGTGAATCTTACTTCCCCGA
1 ATCTTACTTTCCTGGCAGTGCAGTAGAACAGATTGAAGCTACAATAGTAAATCTTGCTTCCCCGA
* * * * * * * *
10636119 CATTGTAATTTAAAAGATTGAAGCTACAACAACGGATATTACTTTCCTGGTGGTGTAGTGGAACA
66 CATTGCAATTAAAAAGATTGAAGCTACAACAGCGAATCTTACCTTCCTAGCGGTGTAGTGGAACA
* * *
10636184 AATTGAAGCCATAACAACGAATATTGCTTCCCCGACATTGC-AGTTAAAAAGATTGAAACTGCAA
131 GATTGAAGCTATAACAACGAATATTGCTTCCCCGACATTGCAAGTT-AAAAGATTGAAACTACAA
10636248 CAGCGG
195 CAGCGG
* * * * *
10636254 ATCTTACTTTCCTGGCAATACAGTAGAACAGATTGAAGCTACAACAGCAAATATTGCTTCCCC-A
1 ATCTTACTTTCCTGGCAGTGCAGTAGAACAGATTGAAGCTACAATAGTAAATCTTGCTTCCCCGA
* * * * * *
10636318 GCATTGCAGTTAAAAAGGTTGAAGCTACAACAGCGAATCTTACCTCCCTAACGTTGCAGTGGAAC
66 -CATTGCAATTAAAAAGATTGAAGCTACAACAGCGAATCTTACCTTCCTAGCGGTGTAGTGGAAC
*
10636383 AGATTGAAGCTACAACAACGAAT
130 AGATTGAAGCTATAACAACGAAT
10636406 CTTACTCCCC
Statistics
Matches: 285, Mismatches: 64, Indels: 6
0.80 0.18 0.02
Matches are distributed among these distances:
199 5 0.02
200 275 0.96
201 5 0.02
ACGTcount: A:0.34, C:0.20, G:0.20, T:0.26
Consensus pattern (200 bp):
ATCTTACTTTCCTGGCAGTGCAGTAGAACAGATTGAAGCTACAATAGTAAATCTTGCTTCCCCGA
CATTGCAATTAAAAAGATTGAAGCTACAACAGCGAATCTTACCTTCCTAGCGGTGTAGTGGAACA
GATTGAAGCTATAACAACGAATATTGCTTCCCCGACATTGCAAGTTAAAAGATTGAAACTACAAC
AGCGG
Found at i:10638570 original size:75 final size:74
Alignment explanation
Indices: 10638456--10638599 Score: 243
Period size: 75 Copynumber: 1.9 Consensus size: 74
10638446 TCTTTTCAAA
* * * *
10638456 CTCAAGTTTTAAATGATCTCGGGAATTAAGAAGAGATCGTGTCCTAACTTACTGGGCATGATCCC
1 CTCAAGTTTTAAACGATATCGGGAATTAAGAAAAGATCGTGTCCTAACTTACTGGACATGATCCC
10638521 TTTTTCTTC
66 TTTTTCTTC
10638530 CTCAAGTTTTTAAACGATATCGGGAATTAAGAAAAGATCGTGTCCTAACTTACTGGACATGATCC
1 CTCAAG-TTTTAAACGATATCGGGAATTAAGAAAAGATCGTGTCCTAACTTACTGGACATGATCC
10638595 CTTTT
65 CTTTT
10638600 CTAAGCTTGA
Statistics
Matches: 65, Mismatches: 4, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
74 6 0.09
75 59 0.91
ACGTcount: A:0.28, C:0.19, G:0.18, T:0.34
Consensus pattern (74 bp):
CTCAAGTTTTAAACGATATCGGGAATTAAGAAAAGATCGTGTCCTAACTTACTGGACATGATCCC
TTTTTCTTC
Found at i:10647914 original size:3 final size:3
Alignment explanation
Indices: 10647906--10647956 Score: 59
Period size: 3 Copynumber: 17.0 Consensus size: 3
10647896 AAGATGAAGT
* * *
10647906 GAA GAA GAA GAA GAA GAA GAA GAA GAT GAG GAA AAA GAA -AA GGAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA -GAA
10647951 GAA GAA
1 GAA GAA
10647957 TAAAAGGGCT
Statistics
Matches: 41, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
2 2 0.05
3 37 0.90
4 2 0.05
ACGTcount: A:0.65, C:0.00, G:0.33, T:0.02
Consensus pattern (3 bp):
GAA
Found at i:10648116 original size:2 final size:2
Alignment explanation
Indices: 10648109--10648136 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
10648099 ATCTACTGCT
10648109 TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG
10648137 ATGTTTTAGG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (2 bp):
TG
Found at i:10651086 original size:21 final size:21
Alignment explanation
Indices: 10651062--10651114 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
10651052 AATGGTGGCA
* *
10651062 GTGAGATTAGTTATTGTAGCC
1 GTGAGATTAGATACTGTAGCC
*
10651083 GTGAGATTAGATACTGTAGCG
1 GTGAGATTAGATACTGTAGCC
*
10651104 GTGAGAATAGA
1 GTGAGATTAGA
10651115 AACAACCATG
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.30, C:0.08, G:0.32, T:0.30
Consensus pattern (21 bp):
GTGAGATTAGATACTGTAGCC
Found at i:10657820 original size:16 final size:15
Alignment explanation
Indices: 10657801--10657836 Score: 54
Period size: 16 Copynumber: 2.3 Consensus size: 15
10657791 CTAAGATCTT
10657801 ATATATCTAGATAAAA
1 ATATATCTAGA-AAAA
*
10657817 ATATATCTATAAAAA
1 ATATATCTAGAAAAA
10657832 ATATA
1 ATATA
10657837 GACAATATAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 9 0.47
16 10 0.53
ACGTcount: A:0.58, C:0.06, G:0.03, T:0.33
Consensus pattern (15 bp):
ATATATCTAGAAAAA
Found at i:10660181 original size:22 final size:22
Alignment explanation
Indices: 10660135--10660181 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
10660125 CACTAATAAC
* * *
10660135 AAATAGTAACAACATAATAGTA
1 AAATAGTAACAAAACAATAGCA
*
10660157 AAATAGTAACAAAACAGTAGCA
1 AAATAGTAACAAAACAATAGCA
10660179 AAA
1 AAA
10660182 AATGAGAAAA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.62, C:0.11, G:0.11, T:0.17
Consensus pattern (22 bp):
AAATAGTAACAAAACAATAGCA
Found at i:10666425 original size:31 final size:30
Alignment explanation
Indices: 10666368--10666435 Score: 84
Period size: 31 Copynumber: 2.2 Consensus size: 30
10666358 CTTTTTTTTT
* *
10666368 AAGTTAAATTTGACATTTAATTTTTTAAAA
1 AAGTTAAATTTGACATCTAATCTTTTAAAA
*
10666398 AGAGTTAAATTTGATCA-CTAATCTTTTAAAG
1 A-AGTTAAATTTGA-CATCTAATCTTTTAAAA
10666429 AAGTTAA
1 AAGTTAA
10666436 TAATTAAATT
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
30 7 0.21
31 24 0.73
32 2 0.06
ACGTcount: A:0.43, C:0.06, G:0.10, T:0.41
Consensus pattern (30 bp):
AAGTTAAATTTGACATCTAATCTTTTAAAA
Found at i:10677542 original size:18 final size:18
Alignment explanation
Indices: 10677521--10677567 Score: 53
Period size: 17 Copynumber: 2.7 Consensus size: 18
10677511 TGAAAATTGA
10677521 TTATAATTTTTTTA-GTTT
1 TTATAATTTTTTTATG-TT
*
10677539 TTATAA-TCTTTTATGTT
1 TTATAATTTTTTTATGTT
*
10677556 TTATTATTTTTT
1 TTATAATTTTTT
10677568 ATTTTCTTAA
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
17 13 0.54
18 11 0.46
ACGTcount: A:0.21, C:0.02, G:0.04, T:0.72
Consensus pattern (18 bp):
TTATAATTTTTTTATGTT
Found at i:10679054 original size:21 final size:20
Alignment explanation
Indices: 10679024--10679064 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 20
10679014 AAAAATTGCA
* *
10679024 TTTTTTTACTTTTTTTCTAT
1 TTTTTTTACTATTTTACTAT
10679044 TTTTATTTACTATTTTACTAT
1 TTTT-TTTACTATTTTACTAT
10679065 AATTTCACCT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.17, C:0.10, G:0.00, T:0.73
Consensus pattern (20 bp):
TTTTTTTACTATTTTACTAT
Found at i:10679086 original size:32 final size:32
Alignment explanation
Indices: 10679050--10679115 Score: 123
Period size: 32 Copynumber: 2.1 Consensus size: 32
10679040 CTATTTTTAT
10679050 TTACTATTTTACTATAATTTCACCTATCTTAA
1 TTACTATTTTACTATAATTTCACCTATCTTAA
*
10679082 TTACTATTTTACTATCATTTCACCTATCTTAA
1 TTACTATTTTACTATAATTTCACCTATCTTAA
10679114 TT
1 TT
10679116 GGATTATAAT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.29, C:0.20, G:0.00, T:0.52
Consensus pattern (32 bp):
TTACTATTTTACTATAATTTCACCTATCTTAA
Found at i:10680212 original size:15 final size:17
Alignment explanation
Indices: 10680189--10680230 Score: 61
Period size: 17 Copynumber: 2.5 Consensus size: 17
10680179 ATACATTGAG
10680189 AATTATTAA-ATTTATT
1 AATTATTAACATTTATT
10680205 AA-TATTAAACATTTATT
1 AATTATT-AACATTTATT
10680222 AATTATTAA
1 AATTATTAA
10680231 TAGTAAATAA
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
15 4 0.17
16 4 0.17
17 11 0.48
18 4 0.17
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (17 bp):
AATTATTAACATTTATT
Found at i:10683527 original size:26 final size:26
Alignment explanation
Indices: 10683485--10683534 Score: 66
Period size: 26 Copynumber: 1.9 Consensus size: 26
10683475 ATTTATTTTA
*
10683485 ATATTTTTTATTGTATTTGATATATT
1 ATATTTTTAATTGTATTTGATATATT
*
10683511 ATATTTTTAAATT-TATTTTATATA
1 ATATTTTT-AATTGTATTTGATATA
10683535 AAAATAATAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
26 18 0.86
27 3 0.14
ACGTcount: A:0.32, C:0.00, G:0.04, T:0.64
Consensus pattern (26 bp):
ATATTTTTAATTGTATTTGATATATT
Done.