Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold212
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: 1080337
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
File 8 of 10
Found at i:850496 original size:27 final size:27
Alignment explanation
Indices: 850452--850518 Score: 77
Period size: 27 Copynumber: 2.5 Consensus size: 27
850442 AATCAAATTA
850452 ATATTTAAAATATATTTAATAAA-ATAT
1 ATATTTAAAATATATTTAA-AAATATAT
* *
850479 ATATTTATAAAT-TTTTTAAAAATATTT
1 ATATTTA-AAATATATTTAAAAATATAT
850506 ATATTT-AAATATA
1 ATATTTAAAATATA
850519 AATACAAGAA
Statistics
Matches: 34, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
25 4 0.12
26 4 0.12
27 22 0.65
28 4 0.12
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (27 bp):
ATATTTAAAATATATTTAAAAATATAT
Found at i:851617 original size:19 final size:18
Alignment explanation
Indices: 851578--851630 Score: 54
Period size: 19 Copynumber: 2.9 Consensus size: 18
851568 TTTAAATTAA
* *
851578 ATTATATTAAATAATTATT
1 ATTAT-TTAAATATTTTTT
851597 ATTTATTTAAATATTTTTT
1 A-TTATTTAAATATTTTTT
*
851616 ATAATTTAAA-ATTTT
1 ATTATTTAAATATTTT
851631 ATATAATTAA
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
17 5 0.17
18 8 0.27
19 13 0.43
20 4 0.13
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (18 bp):
ATTATTTAAATATTTTTT
Found at i:851635 original size:17 final size:18
Alignment explanation
Indices: 851601--851642 Score: 61
Period size: 17 Copynumber: 2.4 Consensus size: 18
851591 ATTATTATTT
*
851601 ATTTAAATATTTTTTATA
1 ATTTAAATATTTTATATA
851619 ATTTAAA-ATTTTATATA
1 ATTTAAATATTTTATATA
851636 A-TTAAAT
1 ATTTAAAT
851643 TTGAAGTTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
16 5 0.23
17 10 0.45
18 7 0.32
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (18 bp):
ATTTAAATATTTTATATA
Found at i:851735 original size:26 final size:24
Alignment explanation
Indices: 851675--851739 Score: 69
Period size: 24 Copynumber: 2.6 Consensus size: 24
851665 ATTATAATCG
* *
851675 TGAAAATATATAATAAATTGATAT
1 TGAAAAAATATAATAAATTGAGAT
*
851699 TGAAAATATATAATAAATTGAGAT
1 TGAAAAAATATAATAAATTGAGAT
851723 AT-AATATAAATATAATA
1 -TGAA-A-AAATATAATA
851740 TGAAAAAATA
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
24 25 0.69
25 2 0.06
26 9 0.25
ACGTcount: A:0.57, C:0.00, G:0.08, T:0.35
Consensus pattern (24 bp):
TGAAAAAATATAATAAATTGAGAT
Found at i:851786 original size:10 final size:10
Alignment explanation
Indices: 851771--851804 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
851761 ATGTGACACA
851771 AAAATAATAT
1 AAAATAATAT
851781 AAAATAATAT
1 AAAATAATAT
*
851791 AAATATGATAT
1 AAA-ATAATAT
851802 AAA
1 AAA
851805 TATATGAATG
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
10 13 0.59
11 9 0.41
ACGTcount: A:0.68, C:0.00, G:0.03, T:0.29
Consensus pattern (10 bp):
AAAATAATAT
Found at i:851801 original size:11 final size:11
Alignment explanation
Indices: 851774--851808 Score: 54
Period size: 11 Copynumber: 3.3 Consensus size: 11
851764 TGACACAAAA
851774 ATAATATAAA-
1 ATAATATAAAT
851784 ATAATATAAAT
1 ATAATATAAAT
*
851795 ATGATATAAAT
1 ATAATATAAAT
851806 ATA
1 ATA
851809 TGAATGTGTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
10 10 0.45
11 12 0.55
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.34
Consensus pattern (11 bp):
ATAATATAAAT
Found at i:852551 original size:14 final size:12
Alignment explanation
Indices: 852522--852590 Score: 65
Period size: 11 Copynumber: 5.9 Consensus size: 12
852512 TTTAATTTTT
852522 AAAT-ATATAAA
1 AAATAATATAAA
852533 AAATAATAT-AA
1 AAATAATATAAA
* *
852544 ATACAATATAAA
1 AAATAATATAAA
852556 AAATTAAT-TAAA
1 AAA-TAATATAAA
*
852568 ATATAATAT-AA
1 AAATAATATAAA
852579 AAATAAATATAA
1 AAAT-AATATAA
852591 TTGATTATAA
Statistics
Matches: 46, Mismatches: 6, Indels: 10
0.74 0.10 0.16
Matches are distributed among these distances:
11 22 0.48
12 20 0.43
13 4 0.09
ACGTcount: A:0.70, C:0.01, G:0.00, T:0.29
Consensus pattern (12 bp):
AAATAATATAAA
Found at i:852563 original size:24 final size:24
Alignment explanation
Indices: 852526--852590 Score: 82
Period size: 23 Copynumber: 2.8 Consensus size: 24
852516 ATTTTTAAAT
852526 ATATAAAAAA-TAATATAAATACA
1 ATATAAAAAATTAATATAAATACA
*
852549 ATATAAAAAATTAAT-TAAAATATA
1 ATATAAAAAATTAATAT-AAATACA
*
852573 ATAT-AAAAATAAATATAA
1 ATATAAAAAATTAATATAA
852591 TTGATTATAA
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
23 22 0.59
24 15 0.41
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.29
Consensus pattern (24 bp):
ATATAAAAAATTAATATAAATACA
Found at i:852568 original size:11 final size:13
Alignment explanation
Indices: 852526--852590 Score: 63
Period size: 12 Copynumber: 5.5 Consensus size: 13
852516 ATTTTTAAAT
852526 ATATAAAAA-ATA
1 ATATAAAAATATA
*
852538 ATAT--AAATACA
1 ATATAAAAATATA
852549 ATATAAAAA-ATTA
1 ATATAAAAATA-TA
852562 AT-T-AAAATATA
1 ATATAAAAATATA
852573 ATATAAAAATA-A
1 ATATAAAAATATA
852585 ATATAA
1 ATATAA
852591 TTGATTATAA
Statistics
Matches: 44, Mismatches: 2, Indels: 14
0.73 0.03 0.23
Matches are distributed among these distances:
10 3 0.07
11 14 0.32
12 15 0.34
13 12 0.27
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.29
Consensus pattern (13 bp):
ATATAAAAATATA
Found at i:853161 original size:2 final size:2
Alignment explanation
Indices: 853154--853186 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
853144 ATTAAAAATT
853154 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
853187 CCCAAGTTCA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:858065 original size:2 final size:2
Alignment explanation
Indices: 858058--858105 Score: 87
Period size: 2 Copynumber: 24.0 Consensus size: 2
858048 AGAATACATT
858058 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
*
858100 TT TA TA
1 TA TA TA
858106 CAAAAGAAGA
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:858706 original size:23 final size:21
Alignment explanation
Indices: 858680--858722 Score: 59
Period size: 23 Copynumber: 2.0 Consensus size: 21
858670 AATATAAATA
*
858680 TAAATTTTTAGTTATTTATTATT
1 TAAATTTATA-TTATTT-TTATT
858703 TAAATTTATATTATTTTTAT
1 TAAATTTATATTATTTTTAT
858723 ATATAATAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 4 0.21
22 6 0.32
23 9 0.47
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (21 bp):
TAAATTTATATTATTTTTATT
Found at i:858739 original size:15 final size:15
Alignment explanation
Indices: 858721--858765 Score: 53
Period size: 14 Copynumber: 3.3 Consensus size: 15
858711 TATTATTTTT
858721 ATATATAATAAATTC
1 ATATATAATAAATTC
858736 ATATAT-ATAAATT-
1 ATATATAATAAATTC
*
858749 -TAT-TATTAAATTC
1 ATATATAATAAATTC
858762 ATAT
1 ATAT
858766 TACTTCTATA
Statistics
Matches: 26, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
11 1 0.04
12 9 0.35
14 10 0.38
15 6 0.23
ACGTcount: A:0.49, C:0.04, G:0.00, T:0.47
Consensus pattern (15 bp):
ATATATAATAAATTC
Found at i:858794 original size:52 final size:53
Alignment explanation
Indices: 858693--858795 Score: 129
Period size: 52 Copynumber: 2.0 Consensus size: 53
858683 ATTTTTAGTT
* * * * *
858693 ATTTATTATTTAAATTTATATTATTTTTATATATAATAAATTCATATATATAA
1 ATTTATTATTTAAATTCATATTACTTCTATAAATAATAAATTCAAATATATAA
*
858746 ATTTATTA-TTAAATTCATATTACTTCTATAAATAATAGATGT-AAATATAT
1 ATTTATTATTTAAATTCATATTACTTCTATAAATAATAAAT-TCAAATATAT
858796 TTATTATAAA
Statistics
Matches: 43, Mismatches: 6, Indels: 3
0.83 0.12 0.06
Matches are distributed among these distances:
52 34 0.79
53 9 0.21
ACGTcount: A:0.44, C:0.04, G:0.02, T:0.50
Consensus pattern (53 bp):
ATTTATTATTTAAATTCATATTACTTCTATAAATAATAAATTCAAATATATAA
Found at i:858886 original size:26 final size:25
Alignment explanation
Indices: 858814--858893 Score: 74
Period size: 26 Copynumber: 3.2 Consensus size: 25
858804 AAATGTAATA
* *
858814 ATTTTAAGTCATTTAACGGATTCAG
1 ATTTTAAGTCATTTAACGAATTTAG
**
858839 ATATTTAA-T-ATTTAAATAAATTTAG
1 AT-TTTAAGTCATTT-AACGAATTTAG
*
858864 ATTTTAAGTCATTTATACGAATTTTG
1 ATTTTAAGTCATTTA-ACGAATTTAG
858890 ATTT
1 ATTT
858894 GAAAATTATA
Statistics
Matches: 43, Mismatches: 7, Indels: 9
0.73 0.12 0.15
Matches are distributed among these distances:
24 9 0.21
25 14 0.33
26 20 0.47
ACGTcount: A:0.36, C:0.06, G:0.10, T:0.47
Consensus pattern (25 bp):
ATTTTAAGTCATTTAACGAATTTAG
Found at i:859586 original size:18 final size:17
Alignment explanation
Indices: 859563--859604 Score: 50
Period size: 17 Copynumber: 2.4 Consensus size: 17
859553 ATAGAATCCG
859563 ATTTTT-TGTTTTTATGAA
1 ATTTTTATGTTTTTA-G-A
*
859581 ATTTTTATTTTTTTAGA
1 ATTTTTATGTTTTTAGA
859598 ATTTTTA
1 ATTTTTA
859605 AATTTATTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
17 8 0.36
18 7 0.32
19 7 0.32
ACGTcount: A:0.24, C:0.00, G:0.07, T:0.69
Consensus pattern (17 bp):
ATTTTTATGTTTTTAGA
Found at i:859614 original size:27 final size:26
Alignment explanation
Indices: 859582--859685 Score: 88
Period size: 27 Copynumber: 3.9 Consensus size: 26
859572 TTTTATGAAA
859582 TTTTTATTTTTTTAGAATTTTTAAATT
1 TTTTTATTTTTTTA-AATTTTTAAATT
* * *
859609 TATTTATATTTTT-AATTTTTATATTT
1 TTTTTATTTTTTTAAATTTTTA-AATT
**
859635 TTTTTATTTTCTAAAAATTTTT-AATT
1 TTTTTATTTT-TTTAAATTTTTAAATT
859661 ATTTTTATTTTTCTT-AATTATTTAA
1 -TTTTTATTTTT-TTAAATT-TTTAA
859686 GATTAAGAGA
Statistics
Matches: 60, Mismatches: 10, Indels: 13
0.72 0.12 0.16
Matches are distributed among these distances:
25 8 0.13
26 19 0.32
27 25 0.42
28 8 0.13
ACGTcount: A:0.28, C:0.02, G:0.01, T:0.69
Consensus pattern (26 bp):
TTTTTATTTTTTTAAATTTTTAAATT
Found at i:859628 original size:53 final size:51
Alignment explanation
Indices: 859571--859672 Score: 116
Period size: 53 Copynumber: 2.0 Consensus size: 51
859561 CGATTTTTTG
* * *
859571 TTTTTATGA-AATTTTTATTTTTTTAGAATTTTTAAATTTATTTATATTTTTAA
1 TTTTTAT-ATAATTTTTATTTTCTAAAAATTTTT-AA-TTATTTATATTTTTAA
** *
859624 TTTTTATATTTTTTTTATTTTCTAAAAATTTTTAATTATTTTTATTTTT
1 TTTTTATATAATTTTTATTTTCTAAAAATTTTTAATTATTTATATTTTT
859673 CTTAATTATT
Statistics
Matches: 42, Mismatches: 6, Indels: 4
0.81 0.12 0.08
Matches are distributed among these distances:
51 13 0.31
52 3 0.07
53 26 0.62
ACGTcount: A:0.27, C:0.01, G:0.02, T:0.70
Consensus pattern (51 bp):
TTTTTATATAATTTTTATTTTCTAAAAATTTTTAATTATTTATATTTTTAA
Found at i:859637 original size:17 final size:17
Alignment explanation
Indices: 859599--859684 Score: 57
Period size: 17 Copynumber: 4.8 Consensus size: 17
859589 TTTTTTAGAA
*
859599 TTTTTAAATTTATT-TAT
1 TTTTTTAATTT-TTATAT
*
859616 ATTTTTAATTTTTATAT
1 TTTTTTAATTTTTATAT
* * *
859633 TTTTTTTATTTTCTAAAA
1 TTTTTTAATTTT-TATAT
* *
859651 ATTTTTAATTATTTTTAT
1 TTTTTTAATT-TTTATAT
859669 TTTTCTTAATTATTTA
1 TTTT-TTAATT-TTTA
859685 AGATTAAGAG
Statistics
Matches: 52, Mismatches: 13, Indels: 6
0.73 0.18 0.08
Matches are distributed among these distances:
16 2 0.04
17 22 0.42
18 16 0.31
19 12 0.23
ACGTcount: A:0.28, C:0.02, G:0.00, T:0.70
Consensus pattern (17 bp):
TTTTTTAATTTTTATAT
Found at i:859962 original size:23 final size:23
Alignment explanation
Indices: 859927--859985 Score: 84
Period size: 23 Copynumber: 2.6 Consensus size: 23
859917 TATGTTCACA
859927 AATAAGATCATTTAAAACTCGTTT
1 AATAA-ATCATTTAAAACTCGTTT
*
859951 AATAAATCATTTAAAGCTCGTTT
1 AATAAATCATTTAAAACTCGTTT
*
859974 AA-AACTCATTTA
1 AATAAATCATTTA
859986 TTGTTCAATT
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
22 9 0.27
23 19 0.58
24 5 0.15
ACGTcount: A:0.42, C:0.14, G:0.07, T:0.37
Consensus pattern (23 bp):
AATAAATCATTTAAAACTCGTTT
Found at i:859976 original size:11 final size:11
Alignment explanation
Indices: 859937--859985 Score: 53
Period size: 11 Copynumber: 4.4 Consensus size: 11
859927 AATAAGATCA
859937 TTTAAAACTCG
1 TTTAAAACTCG
* *
859948 TTTAATAAATCA
1 TTTAA-AACTCG
*
859960 TTTAAAGCTCG
1 TTTAAAACTCG
*
859971 TTTAAAACTCA
1 TTTAAAACTCG
859982 TTTA
1 TTTA
859986 TTGTTCAATT
Statistics
Matches: 30, Mismatches: 7, Indels: 2
0.77 0.18 0.05
Matches are distributed among these distances:
11 21 0.70
12 9 0.30
ACGTcount: A:0.39, C:0.14, G:0.06, T:0.41
Consensus pattern (11 bp):
TTTAAAACTCG
Found at i:860565 original size:3 final size:3
Alignment explanation
Indices: 860557--860592 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
860547 CTAATTATTG
860557 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
860593 TTCTTTGTTT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:861766 original size:404 final size:404
Alignment explanation
Indices: 860977--861793 Score: 1580
Period size: 404 Copynumber: 2.0 Consensus size: 404
860967 CTCATTATAT
860977 AATTTTGATCAGTAAAATTTTTAAATTTCATAAATAATATTAATCAGATAATAGAGTTTTAAGAT
1 AATTTTGATCAGTAAAATTTTTAAATTTCATAAATAATATTAATCAGATAATAGAGTTTTAAGAT
861042 ATAATAAAAAAAATTTAAAAAAATCAAAATAAAAATGAGATATGTGATCATATCTTAATCCGCTT
66 ATAATAAAAAAAATTTAAAAAAATCAAAATAAAAATGAGATATGTGATCATATCTTAATCCGCTT
861107 TTTAAGTTAAATAATTTTTGCCACCAATTTATCAAAAATAAACTCAAATAAAAATCAATATAAAA
131 TTTAAGTTAAATAATTTTTGCCACCAATTTATCAAAAATAAACTCAAATAAAAATCAATATAAAA
861172 AATATAATTTTTTATATGAGCAAAATATCAAAATATTGATGGGGTTCAAAAGTAGGAAAAAAAAA
196 AATATAATTTTTTATATGAGCAAAATATCAAAATATTGATGGGGTTCAAAAGTAGGAAAAAAAAA
*
861237 GTTGTTGATTCAAATCCATAAATAATTGGTTACCACGAAAGCAAAAGGCATTTATTAGGGAAAAA
261 GTTGTTGATTCAAATCCATAAATAATTAGTTACCACGAAAGCAAAAGGCATTTATTAGGGAAAAA
861302 AGATAAATATTTATTTATCCCTTATATTTTAATATGTTTTCAACGTGATATTTAAAAAAAATTAC
326 AGATAAATATTTATTTATCCCTTATATTTTAATATGTTTTCAACGTGATATTTAAAAAAAATTAC
861367 TAATTTGATATTTG
391 TAATTTGATATTTG
861381 AATTTTGATCAGTAAAATTTTTAAATTTCATAAATAATATTAATCAGATAATAGAGTTTTAAGAT
1 AATTTTGATCAGTAAAATTTTTAAATTTCATAAATAATATTAATCAGATAATAGAGTTTTAAGAT
*
861446 ATAATAAAAAAAATTTAAAAAAATCAAAATAAAAATGAGATATGTTATCATATCTTAATCCGCTT
66 ATAATAAAAAAAATTTAAAAAAATCAAAATAAAAATGAGATATGTGATCATATCTTAATCCGCTT
861511 TTTAAGTTAAATAATTTTTGCCACCAATTTATCAAAAATAAACTCAAATAAAAATCAATATAAAA
131 TTTAAGTTAAATAATTTTTGCCACCAATTTATCAAAAATAAACTCAAATAAAAATCAATATAAAA
861576 AATATAATTTTTTATATGAGCAAAATATCAAAATATTGATGGGGTTCAAAAGTAGGAAAAAAAAA
196 AATATAATTTTTTATATGAGCAAAATATCAAAATATTGATGGGGTTCAAAAGTAGG-AAAAAAAA
861641 AGTTGTTGATTCAAATCCATAAATAATTAGTTACCACGAAAGCAAAAGGCATTTATTAGGGAAAA
260 AGTTGTTGATTCAAATCCATAAATAATTAGTTACCACGAAAGCAAAAGGCATTTATTAGGGAAAA
*
861706 AAGTTAAATATTTATTTATCCCTTATATTTTAATATGTTTTCAACGTGATATTTAAAAAAAAAAT
325 AAGATAAATATTTATTTATCCCTTATATTTTAATATGTTTTCAACGTGATATTT--AAAAAAAAT
861771 TACTAATTTGATATTTG
388 TACTAATTTGATATTTG
861788 AATTTT
1 AATTTT
861794 TATTAATCAA
Statistics
Matches: 407, Mismatches: 3, Indels: 3
0.99 0.01 0.01
Matches are distributed among these distances:
404 250 0.61
405 125 0.31
407 32 0.08
ACGTcount: A:0.47, C:0.08, G:0.10, T:0.35
Consensus pattern (404 bp):
AATTTTGATCAGTAAAATTTTTAAATTTCATAAATAATATTAATCAGATAATAGAGTTTTAAGAT
ATAATAAAAAAAATTTAAAAAAATCAAAATAAAAATGAGATATGTGATCATATCTTAATCCGCTT
TTTAAGTTAAATAATTTTTGCCACCAATTTATCAAAAATAAACTCAAATAAAAATCAATATAAAA
AATATAATTTTTTATATGAGCAAAATATCAAAATATTGATGGGGTTCAAAAGTAGGAAAAAAAAA
GTTGTTGATTCAAATCCATAAATAATTAGTTACCACGAAAGCAAAAGGCATTTATTAGGGAAAAA
AGATAAATATTTATTTATCCCTTATATTTTAATATGTTTTCAACGTGATATTTAAAAAAAATTAC
TAATTTGATATTTG
Found at i:862054 original size:24 final size:24
Alignment explanation
Indices: 862027--862072 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
862017 GTGATGAAAA
*
862027 TTTAAGTATTAAATTAATAATTTT
1 TTTAAGTATTAAATTAAAAATTTT
*
862051 TTTAATTATTAAATTAAAAATT
1 TTTAAGTATTAAATTAAAAATT
862073 AAATTAAATT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (24 bp):
TTTAAGTATTAAATTAAAAATTTT
Found at i:862079 original size:24 final size:24
Alignment explanation
Indices: 862028--862084 Score: 60
Period size: 24 Copynumber: 2.3 Consensus size: 24
862018 TGATGAAAAT
* * ***
862028 TTAAGTATTAAATTAATAATTTTT
1 TTAATTATTAAATTAAAAATTAAA
862052 TTAATTATTAAATTAAAAATTAAA
1 TTAATTATTAAATTAAAAATTAAA
862076 TTAAATTAT
1 TT-AATTAT
862085 AAAAATCAAA
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
24 21 0.78
25 6 0.22
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (24 bp):
TTAATTATTAAATTAAAAATTAAA
Found at i:862761 original size:2 final size:2
Alignment explanation
Indices: 862754--862779 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
862744 CAATAAATAA
862754 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
862780 TACCATCATC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:863186 original size:17 final size:18
Alignment explanation
Indices: 863148--863185 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
863138 GTCTGGCTCG
863148 AAATAATATTTTTAATTA
1 AAATAATATTTTTAATTA
*
863166 AAATAATATTTTTATTTA
1 AAATAATATTTTTAATTA
863184 AA
1 AA
863186 TTTAATTATA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (18 bp):
AAATAATATTTTTAATTA
Found at i:864361 original size:2 final size:2
Alignment explanation
Indices: 864354--864395 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
864344 GATGCATACT
864354 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
864396 CATACATGTA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:864729 original size:21 final size:20
Alignment explanation
Indices: 864705--864754 Score: 55
Period size: 21 Copynumber: 2.4 Consensus size: 20
864695 AATTTAATTA
**
864705 AAAATTAAATCTAAAAGTAAT
1 AAAATTAAATAAAAAAGT-AT
*
864726 AAAATTACATAAAAAAGTAT
1 AAAATTAAATAAAAAAGTAT
864746 AATAATTAA
1 AA-AATTAA
864755 TAGTTGAATA
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
20 4 0.17
21 20 0.83
ACGTcount: A:0.64, C:0.04, G:0.04, T:0.28
Consensus pattern (20 bp):
AAAATTAAATAAAAAAGTAT
Found at i:865121 original size:17 final size:19
Alignment explanation
Indices: 865101--865138 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
865091 ATAAAATTTA
865101 TATATT-TTTAAATTT-TT
1 TATATTATTTAAATTTATT
*
865118 TATATTATTTATATTTATT
1 TATATTATTTAAATTTATT
865137 TA
1 TA
865139 ATTCATTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 6 0.33
18 8 0.44
19 4 0.22
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (19 bp):
TATATTATTTAAATTTATT
Found at i:865641 original size:19 final size:21
Alignment explanation
Indices: 865593--865645 Score: 67
Period size: 19 Copynumber: 2.6 Consensus size: 21
865583 AATTTTTATT
865593 TAAA-TTTAATTATAAAATATA
1 TAAATTTTAA-TATAAAATATA
865614 TAAATTTTAATATAAAA-ATA
1 TAAATTTTAATATAAAATATA
*
865634 -ATATTTTAATAT
1 TAAATTTTAATAT
865646 TTTTTAAATA
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
19 11 0.37
20 3 0.10
21 11 0.37
22 5 0.17
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (21 bp):
TAAATTTTAATATAAAATATA
Found at i:866045 original size:23 final size:23
Alignment explanation
Indices: 866010--866054 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
866000 TTATAATTAT
866010 TTTTAAAAATT-AATATTTAATAA
1 TTTTAAAAATTAAAT-TTTAATAA
**
866033 TTTTAAATTTTAAATTTTAATA
1 TTTTAAAAATTAAATTTTAATA
866055 TTTATATTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 16 0.84
24 3 0.16
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (23 bp):
TTTTAAAAATTAAATTTTAATAA
Found at i:866295 original size:31 final size:32
Alignment explanation
Indices: 866231--866312 Score: 87
Period size: 31 Copynumber: 2.6 Consensus size: 32
866221 TTATTATTTT
*
866231 ATAATAAAAATAATATTTTAATTAAAATTTAA
1 ATAATAAAAATAATATTTTAATTAAAATATAA
* * *
866263 AT-ATAAAAATATTTTTTTAA-TAATATAATAA
1 ATAATAAAAATAATATTTTAATTAAAAT-ATAA
*
866294 ATAATAAATAATAAAATTT
1 ATAATAAA-AATAATATTT
866313 CAAATCAATC
Statistics
Matches: 40, Mismatches: 7, Indels: 5
0.77 0.13 0.10
Matches are distributed among these distances:
30 5 0.12
31 21 0.52
32 7 0.17
33 7 0.17
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (32 bp):
ATAATAAAAATAATATTTTAATTAAAATATAA
Found at i:866944 original size:21 final size:20
Alignment explanation
Indices: 866920--866965 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 20
866910 TCGAGATAAA
866920 ATTTTGATCA-TTTAAAAATTT
1 ATTTT-ATCATTTTAAAAA-TT
*
866941 ATTTTATTATTTTAAAAATT
1 ATTTTATCATTTTAAAAATT
866961 ATTTT
1 ATTTT
866966 TAAATTAATA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
20 10 0.43
21 13 0.57
ACGTcount: A:0.37, C:0.02, G:0.02, T:0.59
Consensus pattern (20 bp):
ATTTTATCATTTTAAAAATT
Found at i:867600 original size:20 final size:21
Alignment explanation
Indices: 867577--867626 Score: 77
Period size: 20 Copynumber: 2.5 Consensus size: 21
867567 TGACACATTT
867577 TATATTTTATAATA-TAATTA
1 TATATTTTATAATAGTAATTA
*
867597 TATATATTATAATAGTAATTA
1 TATATTTTATAATAGTAATTA
867618 TA-ATTTTAT
1 TATATTTTAT
867627 TTTACTATGT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
20 19 0.70
21 8 0.30
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (21 bp):
TATATTTTATAATAGTAATTA
Found at i:867617 original size:12 final size:11
Alignment explanation
Indices: 867583--867621 Score: 55
Period size: 12 Copynumber: 3.6 Consensus size: 11
867573 ATTTTATATT
867583 TTATAATATAA
1 TTATAATATAA
867594 TTAT-ATAT-A
1 TTATAATATAA
867603 TTATAATAGTAA
1 TTATAATA-TAA
867615 TTATAAT
1 TTATAAT
867622 TTTATTTTAC
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
9 5 0.20
10 7 0.28
11 5 0.20
12 8 0.32
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (11 bp):
TTATAATATAA
Found at i:869227 original size:18 final size:20
Alignment explanation
Indices: 869197--869236 Score: 66
Period size: 19 Copynumber: 2.1 Consensus size: 20
869187 TCAAATTTAT
869197 TATTTTTTCATATATA-TAA
1 TATTTTTTCATATATATTAA
869216 TATTTTTT-ATATATATTAA
1 TATTTTTTCATATATATTAA
869235 TA
1 TA
869237 CACCTTCATT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
18 7 0.35
19 13 0.65
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.60
Consensus pattern (20 bp):
TATTTTTTCATATATATTAA
Found at i:870491 original size:2 final size:2
Alignment explanation
Indices: 870484--870512 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
870474 TCTTTGATGT
870484 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
870513 TCATTACAGA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:875523 original size:14 final size:14
Alignment explanation
Indices: 875504--875533 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
875494 TTTTTTTTCC
875504 CAAGCTATGTTACT
1 CAAGCTATGTTACT
875518 CAAGCTATGTTACT
1 CAAGCTATGTTACT
875532 CA
1 CA
875534 GACTCAGTGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.30, C:0.23, G:0.13, T:0.33
Consensus pattern (14 bp):
CAAGCTATGTTACT
Found at i:877786 original size:30 final size:30
Alignment explanation
Indices: 877727--877786 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
877717 TATCTATTAT
* * *
877727 AAATTTAAATATAAATATAATCTTTAAAAA
1 AAATTTAAATATAAAAAAAATCTTAAAAAA
877757 AAATTTAAATATATAAAAAAAT-TTAAAAAA
1 AAATTTAAATATA-AAAAAAATCTTAAAAAA
877787 TTACTTATTT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
30 20 0.77
31 6 0.23
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (30 bp):
AAATTTAAATATAAAAAAAATCTTAAAAAA
Found at i:878822 original size:29 final size:29
Alignment explanation
Indices: 878773--878831 Score: 75
Period size: 29 Copynumber: 2.0 Consensus size: 29
878763 AAAAGGGCTC
878773 TTTTAATAAAGAAAAATAAAATATTATTT
1 TTTTAATAAAGAAAAATAAAATATTATTT
* * *
878802 TTTTAATTAAATATAAA-AAAATTTTATTT
1 TTTTAA-TAAAGAAAAATAAAATATTATTT
878831 T
1 T
878832 CTAAAGATAT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
29 18 0.69
30 8 0.31
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (29 bp):
TTTTAATAAAGAAAAATAAAATATTATTT
Found at i:885440 original size:27 final size:27
Alignment explanation
Indices: 885408--885465 Score: 71
Period size: 27 Copynumber: 2.1 Consensus size: 27
885398 GGTCTCCTGT
* *
885408 TTAGGGCTACCCGTAGGGCTCTGTGGC
1 TTAGGGCTACCAGGAGGGCTCTGTGGC
* * *
885435 TTAGGGGTTCCAGGAGGGCTCTGTGTC
1 TTAGGGCTACCAGGAGGGCTCTGTGGC
885462 TTAG
1 TTAG
885466 CCGGAGGTGT
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.12, C:0.21, G:0.38, T:0.29
Consensus pattern (27 bp):
TTAGGGCTACCAGGAGGGCTCTGTGGC
Found at i:887071 original size:21 final size:21
Alignment explanation
Indices: 887047--887086 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
887037 AATTTGATTT
887047 AAATTAT-TATTTAATAATAAA
1 AAATTATAT-TTTAATAATAAA
887068 AAATTATATTTTAATAATA
1 AAATTATATTTTAATAATA
887087 TAATAAATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 17 0.94
22 1 0.06
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (21 bp):
AAATTATATTTTAATAATAAA
Found at i:887082 original size:18 final size:20
Alignment explanation
Indices: 887047--887084 Score: 53
Period size: 18 Copynumber: 1.9 Consensus size: 20
887037 AATTTGATTT
887047 AAATTATTATTTAATAATAAA
1 AAATTATTATTT-ATAATAAA
887068 AAATTA-TATTT-TAATAA
1 AAATTATTATTTATAATAA
887085 TATAATAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
18 6 0.35
20 5 0.29
21 6 0.35
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (20 bp):
AAATTATTATTTATAATAAA
Found at i:887213 original size:56 final size:56
Alignment explanation
Indices: 887125--887231 Score: 205
Period size: 56 Copynumber: 1.9 Consensus size: 56
887115 AGCAGTCTTG
*
887125 TGAGGTTACGTGAGGTTAGGCAACCTATGTATGAAAGCATGCCATGAACGTGCTTA
1 TGAGGTTACGTGAGGTTAGGCAACCTACGTATGAAAGCATGCCATGAACGTGCTTA
887181 TGAGGTTACGTGAGGTTAGGCAACCTACGTATGAAAGCATGCCATGAACGT
1 TGAGGTTACGTGAGGTTAGGCAACCTACGTATGAAAGCATGCCATGAACGT
887232 TAACCTTTGA
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 50 1.00
ACGTcount: A:0.29, C:0.17, G:0.29, T:0.25
Consensus pattern (56 bp):
TGAGGTTACGTGAGGTTAGGCAACCTACGTATGAAAGCATGCCATGAACGTGCTTA
Found at i:887723 original size:19 final size:19
Alignment explanation
Indices: 887699--887743 Score: 63
Period size: 19 Copynumber: 2.4 Consensus size: 19
887689 CGACGAAACC
*
887699 CAAAAAATAAAAATTAAAA
1 CAAAAAATAAAAATAAAAA
*
887718 CAAAAATTAAAAATAAAAA
1 CAAAAAATAAAAATAAAAA
*
887737 TAAAAAA
1 CAAAAAA
887744 CAACAAGAAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.80, C:0.04, G:0.00, T:0.16
Consensus pattern (19 bp):
CAAAAAATAAAAATAAAAA
Found at i:887743 original size:7 final size:6
Alignment explanation
Indices: 887701--887742 Score: 57
Period size: 6 Copynumber: 6.8 Consensus size: 6
887691 ACGAAACCCA
* *
887701 AAAAAT AAAAAT TAAAAC AAAAATT AAAAAT AAAAAT AAAAA
1 AAAAAT AAAAAT AAAAAT AAAAA-T AAAAAT AAAAAT AAAAA
887743 ACAACAAGAA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
6 26 0.84
7 5 0.16
ACGTcount: A:0.81, C:0.02, G:0.00, T:0.17
Consensus pattern (6 bp):
AAAAAT
Found at i:888448 original size:18 final size:18
Alignment explanation
Indices: 888425--888459 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
888415 TAAATCAATA
*
888425 TGTATATTTATTTTAAAG
1 TGTATAGTTATTTTAAAG
888443 TGTATAGTTATTTTAAA
1 TGTATAGTTATTTTAAA
888460 AGTAAAATGA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.34, C:0.00, G:0.11, T:0.54
Consensus pattern (18 bp):
TGTATAGTTATTTTAAAG
Found at i:891607 original size:2 final size:2
Alignment explanation
Indices: 891600--891641 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
891590 GTGTTTAAGA
891600 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
891642 GAAAACATTT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:891752 original size:2 final size:2
Alignment explanation
Indices: 891745--891780 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
891735 ATATAATAAT
891745 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
891781 ATCATTTGAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:897113 original size:20 final size:20
Alignment explanation
Indices: 897088--897128 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 20
897078 ATAAACCAAC
897088 AACAAAAA-AATAAAAAAGGA
1 AACAAAAACAA-AAAAAAGGA
897108 AACAAAAAGCAAAAAAAAGGA
1 AACAAAAA-CAAAAAAAAGGA
897129 GGAAAATGAG
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 8 0.42
21 9 0.47
22 2 0.11
ACGTcount: A:0.78, C:0.07, G:0.12, T:0.02
Consensus pattern (20 bp):
AACAAAAACAAAAAAAAGGA
Found at i:897839 original size:11 final size:11
Alignment explanation
Indices: 897825--897849 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
897815 AGAAAGAAAG
897825 AAAAAGAAAAT
1 AAAAAGAAAAT
897836 AAAAAGAAAAT
1 AAAAAGAAAAT
897847 AAA
1 AAA
897850 CAAGTTAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.84, C:0.00, G:0.08, T:0.08
Consensus pattern (11 bp):
AAAAAGAAAAT
Found at i:905642 original size:27 final size:27
Alignment explanation
Indices: 905543--906749 Score: 1721
Period size: 27 Copynumber: 44.0 Consensus size: 27
905533 ACTGTGACCT
* *
905543 CTTTAAAGCCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
* *
905570 CTTTTAGAGTCCACAACTTCGTGGCATC
1 CTTTTA-AGTCCACAACTCCGTGGCACC
**
905598 CTTTTAAAGTCCACAACTCCGTGGCATT
1 CTTTT-AAGTCCACAACTCCGTGGCACC
905626 CTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
*
905653 GTTTTAAAGTCCACAACTCCGTGGCACC
1 CTTTT-AAGTCCACAACTCCGTGGCACC
* *
905681 CTTTTAAGTCCACAAATCTGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
905708 CTTTTAAGTCCACAACTCCGTGGCATCC
1 CTTTTAAGTCCACAACTCCGTGGCA-CC
* * *
905736 TTTTTAAGACCACAACTCTGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
*
905763 CTTTTAAGTCCACAACTCTGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
* * **
905790 CTTTTAAGTCCATAACTCTGTGGCATAT
1 CTTTTAAGTCCACAACTCCGTGGCA-CC
*
905818 CTTTTAAGTCCACAACTCTGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
*
905845 CTTTTAAAGTCCACAACTCCATGGCACC
1 CTTTT-AAGTCCACAACTCCGTGGCACC
*
905873 CTTTTTAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
*
905900 CTTTTAAGTCCACAACTCCATGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
*
905927 CTTTTAAGTCCACAACTCTGTGGCATCC
1 CTTTTAAGTCCACAACTCCGTGGCA-CC
* *
905955 CTTTTAAGTCCACAACTTCGTGGCATC
1 CTTTTAAGTCCACAACTCCGTGGCACC
905982 CTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
*
906009 CTTTTAAGTCCACAACTTCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
906036 CTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
906063 CTTTTAAGTCCACAACTCCGTGGCATCC
1 CTTTTAAGTCCACAACTCCGTGGCA-CC
*
906091 CTTTTAAGTCCACAACTCCGTGGCATCT
1 CTTTTAAGTCCACAACTCCGTGGCA-CC
*
906119 CTTTTAAGACCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
906146 CTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
* * * *
906173 CTTTTAAGTCCATAACTCTGTCGCATCT
1 CTTTTAAGTCCACAACTCCGTGGCA-CC
*
906201 CTTTTAAGTCCACAACTCTGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
*
906228 CTTTTAAAGTCTACAACTCCGTGGCACC
1 CTTTT-AAGTCCACAACTCCGTGGCACC
*
906256 CTTTTTAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
*
906283 TTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
* *
906310 GTTTTAAGACCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
*
906337 CTTTTAAGTCCACAACTCTGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
906364 CTTTTAAGTCCACAACTCCGTGGCATCC
1 CTTTTAAGTCCACAACTCCGTGGCA-CC
* *
906392 CTTTTAAGTCCACAACTTCGTGGCATC
1 CTTTTAAGTCCACAACTCCGTGGCACC
906419 CTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
906446 CTTTTAAGTCCACAACTCCGTGGCATCC
1 CTTTTAAGTCCACAACTCCGTGGCA-CC
*
906474 CTTTTAAGACCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
*
906501 CTTTTAAGTCCACAACTTCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
* * * *
906528 CTTTTAAGTCCATAACTCTGTCGCATCT
1 CTTTTAAGTCCACAACTCCGTGGCA-CC
*
906556 CTTTTAAGTCCACAACTCTGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
906583 CTTTTAAAGTCCACAACTCCGTGGCACC
1 CTTTT-AAGTCCACAACTCCGTGGCACC
* * **
906611 ATTTTAAGACCACAACTTTGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
* *
906638 CTTTTAAGTCCATAACTCCGTGGCATCT
1 CTTTTAAGTCCACAACTCCGTGGCA-CC
**
906666 CTTTTAAGTCCACAACTCTATGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
* *
906693 CTTTTAAAATCCACAACTCCGTGGCACT
1 CTTTT-AAGTCCACAACTCCGTGGCACC
* *
906721 CTTTTAAAATCCACAACTCTGTGGCACC
1 CTTTT-AAGTCCACAACTCCGTGGCACC
906749 C
1 C
906750 ATTTCAAAGC
Statistics
Matches: 1065, Mismatches: 99, Indels: 31
0.89 0.08 0.03
Matches are distributed among these distances:
27 622 0.58
28 442 0.42
29 1 0.00
ACGTcount: A:0.23, C:0.33, G:0.14, T:0.29
Consensus pattern (27 bp):
CTTTTAAGTCCACAACTCCGTGGCACC
Found at i:905661 original size:55 final size:54
Alignment explanation
Indices: 905543--906749 Score: 1721
Period size: 55 Copynumber: 22.0 Consensus size: 54
905533 ACTGTGACCT
* * * *
905543 CTTTAAAGCCCACAACTCCGTGGCACCCTTTTAGAGTCCACAACTTCGTGGCATC
1 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTA-AGTCCACAACTCCGTGGCACC
**
905598 CTTTTAAAGTCCACAACTCCGTGGCATTCTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTT-AAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACC
* * *
905653 GTTTTAAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAAATCTGTGGCACC
1 CTTTT-AAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACC
* * *
905708 CTTTTAAGTCCACAACTCCGTGGCATCCTTTTTAAGACCACAACTCTGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCA-CCCTTTTAAGTCCACAACTCCGTGGCACC
* * * **
905763 CTTTTAAGTCCACAACTCTGTGGCACCCTTTTAAGTCCATAACTCTGTGGCATAT
1 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCA-CC
* *
905818 CTTTTAAGTCCACAACTCTGTGGCACCCTTTTAAAGTCCACAACTCCATGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACCCTTTT-AAGTCCACAACTCCGTGGCACC
* *
905873 CTTTTTAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCATGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACC
* * *
905927 CTTTTAAGTCCACAACTCTGTGGCATCCCTTTTAAGTCCACAACTTCGTGGCATC
1 CTTTTAAGTCCACAACTCCGTGGCA-CCCTTTTAAGTCCACAACTCCGTGGCACC
*
905982 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTTCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACC
906036 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCATCC
1 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCA-CC
* *
906091 CTTTTAAGTCCACAACTCCGTGGCATCTCTTTTAAGACCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCA-CCCTTTTAAGTCCACAACTCCGTGGCACC
* * * *
906146 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCATAACTCTGTCGCATCT
1 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCA-CC
* *
906201 CTTTTAAGTCCACAACTCTGTGGCACCCTTTTAAAGTCTACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACCCTTTT-AAGTCCACAACTCCGTGGCACC
* *
906256 CTTTTTAGTCCACAACTCCGTGGCACCTTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACC
* * *
906310 GTTTTAAGACCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCTGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACC
* *
906364 CTTTTAAGTCCACAACTCCGTGGCATCCCTTTTAAGTCCACAACTTCGTGGCATC
1 CTTTTAAGTCCACAACTCCGTGGCA-CCCTTTTAAGTCCACAACTCCGTGGCACC
906419 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCATCC
1 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCA-CC
* *
906474 CTTTTAAGACCACAACTCCGTGGCACCCTTTTAAGTCCACAACTTCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACC
* * * * *
906528 CTTTTAAGTCCATAACTCTGTCGCATCTCTTTTAAGTCCACAACTCTGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCA-CCCTTTTAAGTCCACAACTCCGTGGCACC
* * **
906583 CTTTTAAAGTCCACAACTCCGTGGCACCATTTTAAGACCACAACTTTGTGGCACC
1 CTTTT-AAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACC
* * **
906638 CTTTTAAGTCCATAACTCCGTGGCATCTCTTTTAAGTCCACAACTCTATGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCA-CCCTTTTAAGTCCACAACTCCGTGGCACC
* * * *
906693 CTTTTAAAATCCACAACTCCGTGGCACTCTTTTAAAATCCACAACTCTGTGGCACC
1 CTTTT-AAGTCCACAACTCCGTGGCACCCTTTT-AAGTCCACAACTCCGTGGCACC
906749 C
1 C
906750 ATTTCAAAGC
Statistics
Matches: 1044, Mismatches: 92, Indels: 31
0.89 0.08 0.03
Matches are distributed among these distances:
54 351 0.34
55 554 0.53
56 139 0.13
ACGTcount: A:0.23, C:0.33, G:0.14, T:0.29
Consensus pattern (54 bp):
CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACC
Found at i:905749 original size:82 final size:81
Alignment explanation
Indices: 905543--906749 Score: 1707
Period size: 82 Copynumber: 14.7 Consensus size: 81
905533 ACTGTGACCT
* * * *
905543 CTTTAAAGCCCACAACTCCGTGGCACCCTTTTAGAGTCCACAACTTCGTGGCATCCTTTTAAAGT
1 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTA-AGTCCACAACTCCGTGGCACCCTTTT-AAGT
* **
905608 CCACAACTCCGTGGCATT
64 CCACAACTCTGTGGCACC
*
905626 CTTTTAAGTCCACAACTCCGTGGCACCGTTTTAAAGTCCACAACTCCGTGGCACCCTTTTAAGTC
1 CTTTTAAGTCCACAACTCCGTGGCACCCTTTT-AAGTCCACAACTCCGTGGCACCCTTTTAAGTC
*
905691 CACAAATCTGTGGCACC
65 CACAACTCTGTGGCACC
* * *
905708 CTTTTAAGTCCACAACTCCGTGGCATCCTTTTTAAGACCACAACTCTGTGGCACCCTTTTAAGTC
1 CTTTTAAGTCCACAACTCCGTGGCA-CCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTC
905773 CACAACTCTGTGGCACC
65 CACAACTCTGTGGCACC
* * ** *
905790 CTTTTAAGTCCATAACTCTGTGGCATATCTTTTAAGTCCACAACTCTGTGGCACCCTTTTAAAGT
1 CTTTTAAGTCCACAACTCCGTGGCA-CCCTTTTAAGTCCACAACTCCGTGGCACCCTTTT-AAGT
**
905855 CCACAACTCCATGGCACC
64 CCACAACTCTGTGGCACC
* *
905873 CTTTTTAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCATGGCACCCTTTTAAGTCC
1 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCC
905938 ACAACTCTGTGGCATCC
66 ACAACTCTGTGGCA-CC
* *
905955 CTTTTAAGTCCACAACTTCGTGGCATCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCC
1 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCC
906020 ACAACT-TCGTGGCACC
66 ACAACTCT-GTGGCACC
906036 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCATCCCTTTTAAGTC
1 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCA-CCCTTTTAAGTC
* *
906101 CACAACTCCGTGGCATCT
65 CACAACTCTGTGGCA-CC
*
906119 CTTTTAAGACCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCC
1 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCC
* * *
906184 ATAACTCTGTCGCATCT
66 ACAACTCTGTGGCA-CC
* * *
906201 CTTTTAAGTCCACAACTCTGTGGCACCCTTTTAAAGTCTACAACTCCGTGGCACCCTTTTTAGTC
1 CTTTTAAGTCCACAACTCCGTGGCACCCTTTT-AAGTCCACAACTCCGTGGCACCCTTTTAAGTC
*
906266 CACAACTCCGTGGCACC
65 CACAACTCTGTGGCACC
* * *
906283 TTTTTAAGTCCACAACTCCGTGGCACCGTTTTAAGACCACAACTCCGTGGCACCCTTTTAAGTCC
1 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCC
906348 ACAACTCTGTGGCACC
66 ACAACTCTGTGGCACC
* *
906364 CTTTTAAGTCCACAACTCCGTGGCATCCCTTTTAAGTCCACAACTTCGTGGCATCCTTTTAAGTC
1 CTTTTAAGTCCACAACTCCGTGGCA-CCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTC
*
906429 CACAACTCCGTGGCACC
65 CACAACTCTGTGGCACC
*
906446 CTTTTAAGTCCACAACTCCGTGGCATCCCTTTTAAGACCACAACTCCGTGGCACCCTTTTAAGTC
1 CTTTTAAGTCCACAACTCCGTGGCA-CCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTC
906511 CACAACT-TCGTGGCACC
65 CACAACTCT-GTGGCACC
* * * * *
906528 CTTTTAAGTCCATAACTCTGTCGCATCTCTTTTAAGTCCACAACTCTGTGGCACCCTTTTAAAGT
1 CTTTTAAGTCCACAACTCCGTGGCA-CCCTTTTAAGTCCACAACTCCGTGGCACCCTTTT-AAGT
*
906593 CCACAACTCCGTGGCACC
64 CCACAACTCTGTGGCACC
* * ** * *
906611 ATTTTAAGACCACAACTTTGTGGCACCCTTTTAAGTCCATAACTCCGTGGCATCTCTTTTAAGTC
1 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCA-CCCTTTTAAGTC
*
906676 CACAACTCTATGGCACC
65 CACAACTCTGTGGCACC
* * * *
906693 CTTTTAAAATCCACAACTCCGTGGCACTCTTTTAAAATCCACAACTCTGTGGCACCC
1 CTTTT-AAGTCCACAACTCCGTGGCACCCTTTT-AAGTCCACAACTCCGTGGCACCC
906750 ATTTCAAAGC
Statistics
Matches: 1013, Mismatches: 95, Indels: 32
0.89 0.08 0.03
Matches are distributed among these distances:
81 140 0.14
82 590 0.58
83 265 0.26
84 18 0.02
ACGTcount: A:0.23, C:0.33, G:0.14, T:0.29
Consensus pattern (81 bp):
CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCC
ACAACTCTGTGGCACC
Found at i:906791 original size:32 final size:32
Alignment explanation
Indices: 906732--906967 Score: 402
Period size: 32 Copynumber: 7.4 Consensus size: 32
906722 TTTTAAAATC
* *
906732 CACAACTCTGTGGC-ACCCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
*
906763 CACAAGTCGGTGGCAACCAATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
*
906795 CACAAGTCGGTGGCAACCCTTTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
* *
906827 CACAAGTTGGTGGCAACCCATTCCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
906859 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
*
906891 CACAAGTCGGTGGCAACCCATTCCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
906923 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
906955 CACAAGTCGGTGG
1 CACAAGTCGGTGG
906968 GTGGCAACCC
Statistics
Matches: 192, Mismatches: 12, Indels: 1
0.94 0.06 0.00
Matches are distributed among these distances:
31 12 0.06
32 180 0.94
ACGTcount: A:0.31, C:0.34, G:0.19, T:0.16
Consensus pattern (32 bp):
CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
Found at i:907022 original size:32 final size:32
Alignment explanation
Indices: 906979--907289 Score: 455
Period size: 32 Copynumber: 9.7 Consensus size: 32
906969 TGGCAACCCA
**
906979 TCGGTGGCAACCTTTTTCAAAGCCCACACAAG
1 TCGGTGGCAACCCATTTCAAAGCCCACACAAG
* *
907011 TTGGTGGCAACCCATTCCAAAGCCCACACAAG
1 TCGGTGGCAACCCATTTCAAAGCCCACACAAG
907043 TCGGTGGCAACCCATTTCAAAGCCCACACAAG
1 TCGGTGGCAACCCATTTCAAAGCCCACACAAG
*
907075 TCGGTGGCAACCCATTCCAAAGCCCACACAAG
1 TCGGTGGCAACCCATTTCAAAGCCCACACAAG
907107 TCGGTGGCAACCCATTTCAAAGCCCACACAAG
1 TCGGTGGCAACCCATTTCAAAGCCCACACAAG
907139 TCGGTGGGTGGCAACCCATTTCAAAGCCCACACAAG
1 TC----GGTGGCAACCCATTTCAAAGCCCACACAAG
*
907175 TCGGTGGCAACCC-TTTC-CAGCCCACACAAG
1 TCGGTGGCAACCCATTTCAAAGCCCACACAAG
* *
907205 TCGGTGGCAACCCATTTAAAAGCCCACGCAAG
1 TCGGTGGCAACCCATTTCAAAGCCCACACAAG
* * *
907237 TCAGTGGCAACCCATTTAAAAGCCCACGCAAG
1 TCGGTGGCAACCCATTTCAAAGCCCACACAAG
* *
907269 TCAGTGGCAACCCTTTTCAAA
1 TCGGTGGCAACCCATTTCAAA
907290 TTACCATTTT
Statistics
Matches: 258, Mismatches: 15, Indels: 12
0.91 0.05 0.04
Matches are distributed among these distances:
30 25 0.10
31 7 0.03
32 194 0.75
36 32 0.12
ACGTcount: A:0.30, C:0.33, G:0.20, T:0.17
Consensus pattern (32 bp):
TCGGTGGCAACCCATTTCAAAGCCCACACAAG
Found at i:907034 original size:82 final size:82
Alignment explanation
Indices: 906897--907049 Score: 261
Period size: 82 Copynumber: 1.9 Consensus size: 82
906887 CCCACACAAG
*
906897 TCGGTGGCAACCCATTCCAAAGCCCACACAAGTCGGTGGCAACCCATTTCAAAGCCCACACAAGT
1 TCGGTGGCAACCCATTCCAAAGCCCACACAAGTCGGTGGCAACCCATTCCAAAGCCCACACAAGT
906962 CGGTGGGTGGCAACCCA
66 CGGTGGGTGGCAACCCA
** * *
906979 TCGGTGGCAACCTTTTTCAAAGCCCACACAAGTTGGTGGCAACCCATTCCAAAGCCCACACAAGT
1 TCGGTGGCAACCCATTCCAAAGCCCACACAAGTCGGTGGCAACCCATTCCAAAGCCCACACAAGT
907044 CGGTGG
66 CGGTGG
907050 CAACCCATTT
Statistics
Matches: 66, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
82 66 1.00
ACGTcount: A:0.27, C:0.33, G:0.23, T:0.17
Consensus pattern (82 bp):
TCGGTGGCAACCCATTCCAAAGCCCACACAAGTCGGTGGCAACCCATTCCAAAGCCCACACAAGT
CGGTGGGTGGCAACCCA
Found at i:907100 original size:178 final size:174
Alignment explanation
Indices: 906801--907289 Score: 759
Period size: 178 Copynumber: 2.9 Consensus size: 174
906791 CCCACACAAG
906801 TCGGTGGCAACCCTTTTCAAAGCCCACACAAGTTGGTGGCAACCCATTCCAAAGCCCACACAAGT
1 TCGGTGGCAA-CCTTTTCAAAGCCCACACAAGTTGGTGGCAACCCATTCCAAAGCCCACACAAGT
906866 CGGTGGCAACCCATTTCAAAGCCCACACAAGTCGGTGGCAACCCATTCCAAAGCCCACACAAGTC
65 CGGTGGCAACCCATTTCAAAGCCCACACAAGTCGGTGGCAACCCATTCCAAAGCCCACACAAGTC
906931 GGTGGCAACCCATTTCAAAGCCCACACAAGTCGGTGGGTGGCAACCC
130 GGTGGCAACCCATTTCAAAGCCCACACAAGTCGGTGGGTGGCAA--C
906978 ATCGGTGGCAACCTTTTTCAAAGCCCACACAAGTTGGTGGCAACCCATTCCAAAGCCCACACAAG
1 -TCGGTGGCAACC-TTTTCAAAGCCCACACAAGTTGGTGGCAACCCATTCCAAAGCCCACACAAG
907043 TCGGTGGCAACCCATTTCAAAGCCCACACAAGTCGGTGGCAACCCATTCCAAAGCCCACACAAGT
64 TCGGTGGCAACCCATTTCAAAGCCCACACAAGTCGGTGGCAACCCATTCCAAAGCCCACACAAGT
907108 CGGTGGCAACCCATTTCAAAGCCCACACAAGTCGGTGGGTGGCAAC
129 CGGTGGCAACCCATTTCAAAGCCCACACAAGTCGGTGGGTGGCAAC
* *
907154 -C-----C-A---TTTCAAAGCCCACACAAGTCGGTGGCAACCCTTTCC--AGCCCACACAAGTC
1 TCGGTGGCAACCTTTTCAAAGCCCACACAAGTTGGTGGCAACCCATTCCAAAGCCCACACAAGTC
* * * ** * *
907207 GGTGGCAACCCATTTAAAAGCCCACGCAAGTCAGTGGCAACCCATTTAAAAGCCCACGCAAGTCA
66 GGTGGCAACCCATTTCAAAGCCCACACAAGTCGGTGGCAACCCATTCCAAAGCCCACACAAGTCG
*
907272 GTGGCAACCCTTTTCAAA
131 GTGGCAACCCATTTCAAA
907290 TTACCATTTT
Statistics
Matches: 300, Mismatches: 10, Indels: 18
0.91 0.03 0.05
Matches are distributed among these distances:
162 89 0.30
164 34 0.11
168 1 0.00
169 1 0.00
174 1 0.00
176 1 0.00
177 2 0.01
178 171 0.57
ACGTcount: A:0.30, C:0.34, G:0.20, T:0.17
Consensus pattern (174 bp):
TCGGTGGCAACCTTTTCAAAGCCCACACAAGTTGGTGGCAACCCATTCCAAAGCCCACACAAGTC
GGTGGCAACCCATTTCAAAGCCCACACAAGTCGGTGGCAACCCATTCCAAAGCCCACACAAGTCG
GTGGCAACCCATTTCAAAGCCCACACAAGTCGGTGGGTGGCAAC
Found at i:907237 original size:130 final size:131
Alignment explanation
Indices: 906979--907275 Score: 451
Period size: 130 Copynumber: 2.3 Consensus size: 131
906969 TGGCAACCCA
**
906979 TCGGTGGCAACCTTTTTCAAAGCCCACACAAGT--T-GGTGGCAACCCATTCCAAAGCCCACACA
1 TCGGTGGCAACCCATTTCAAAGCCCACACAAGTCGTGGGTGGCAACCCATTCCAAAGCCCACACA
*
907041 AGTCGGTGGCAACCCATTTCAAAGCCCACACAAGTCGGTGGCAACCCATTCCAAAGCCCACACAA
66 AGTCGGTGGCAACCCATTTCAAAGCCCACACAAGTCGGTGGCAACCCATTCAAAAGCCCACACAA
907106 G
131 G
*
907107 TCGGTGGCAACCCATTTCAAAGCCCACACAAGTCGGTGGGTGGCAACCCATTTCAAAGCCCACAC
1 TCGGTGGCAACCCATTTCAAAGCCCACACAAGTC-GTGGGTGGCAACCCATTCCAAAGCCCACAC
* * *
907172 AAGTCGGTGGCAACCC-TTTC-CAGCCCACACAAGTCGGTGGCAACCCATTTAAAAGCCCACGCA
65 AAGTCGGTGGCAACCCATTTCAAAGCCCACACAAGTCGGTGGCAACCCATTCAAAAGCCCACACA
907235 AG
130 AG
* * *
907237 TCAGTGGCAACCCATTTAAAAGCCCACGCAAGTCAGTGG
1 TCGGTGGCAACCCATTTCAAAGCCCACACAAGTC-GTGG
907276 CAACCCTTTT
Statistics
Matches: 154, Mismatches: 11, Indels: 6
0.90 0.06 0.04
Matches are distributed among these distances:
128 31 0.20
130 76 0.49
131 5 0.03
132 42 0.27
ACGTcount: A:0.30, C:0.33, G:0.21, T:0.16
Consensus pattern (131 bp):
TCGGTGGCAACCCATTTCAAAGCCCACACAAGTCGTGGGTGGCAACCCATTCCAAAGCCCACACA
AGTCGGTGGCAACCCATTTCAAAGCCCACACAAGTCGGTGGCAACCCATTCAAAAGCCCACACAA
G
Found at i:907250 original size:162 final size:163
Alignment explanation
Indices: 906981--907289 Score: 494
Period size: 162 Copynumber: 1.9 Consensus size: 163
906971 GCAACCCATC
** *
906981 GGTGGCAACCTTTTTCAAAGCCCACACAAGTTGGTGGCAACCCATTCCAAAGCCCACACAAGTCG
1 GGTGGCAACCCATTTCAAAGCCCACACAAGTCGGTGGCAACCCATTCC-AAGCCCACACAAGTCG
* * * *
907046 GTGGCAACCCATTTCAAAGCCCACACAAGTCGGTGGCAACCCATTCCAAAGCCCACACAAGTCGG
65 GTGGCAACCCATTTAAAAGCCCACACAAGTCAGTGGCAACCCATTCAAAAGCCCACACAAGTCAG
907111 TGGCAACCCATTTCAAAGCCCACACAAGTCGGTG
130 TGGCAACCCATTTCAAAGCCCACACAAGTCGGTG
*
907145 GGTGGCAACCCATTTCAAAGCCCACACAAGTCGGTGGCAACCCTTTCC-AGCCCACACAAGTCGG
1 GGTGGCAACCCATTTCAAAGCCCACACAAGTCGGTGGCAACCCATTCCAAGCCCACACAAGTCGG
* * *
907209 TGGCAACCCATTTAAAAGCCCACGCAAGTCAGTGGCAACCCATTTAAAAGCCCACGCAAGTCAGT
66 TGGCAACCCATTTAAAAGCCCACACAAGTCAGTGGCAACCCATTCAAAAGCCCACACAAGTCAGT
*
907274 GGCAACCCTTTTCAAA
131 GGCAACCCATTTCAAA
907290 TTACCATTTT
Statistics
Matches: 133, Mismatches: 12, Indels: 2
0.90 0.08 0.01
Matches are distributed among these distances:
162 89 0.67
164 44 0.33
ACGTcount: A:0.30, C:0.33, G:0.20, T:0.17
Consensus pattern (163 bp):
GGTGGCAACCCATTTCAAAGCCCACACAAGTCGGTGGCAACCCATTCCAAGCCCACACAAGTCGG
TGGCAACCCATTTAAAAGCCCACACAAGTCAGTGGCAACCCATTCAAAAGCCCACACAAGTCAGT
GGCAACCCATTTCAAAGCCCACACAAGTCGGTG
Found at i:908556 original size:17 final size:17
Alignment explanation
Indices: 908514--908570 Score: 53
Period size: 17 Copynumber: 3.2 Consensus size: 17
908504 AATGTTAGGT
908514 AAAA-AAGAAAGAAAGA
1 AAAAGAAGAAAGAAAGA
*
908530 AGATGGAGAAGAAAGAAAGA
1 A-A--AAGAAGAAAGAAAGA
* *
908550 AAAAGAAAAAAAAAAGA
1 AAAAGAAGAAAGAAAGA
908567 AAAA
1 AAAA
908571 AAATATGAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 7
0.75 0.09 0.16
Matches are distributed among these distances:
16 1 0.03
17 17 0.52
19 2 0.06
20 13 0.39
ACGTcount: A:0.77, C:0.00, G:0.21, T:0.02
Consensus pattern (17 bp):
AAAAGAAGAAAGAAAGA
Found at i:908580 original size:12 final size:11
Alignment explanation
Indices: 908549--908573 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
908539 AGAAAGAAAG
908549 AAAAAGAAAAA
1 AAAAAGAAAAA
908560 AAAAAGAAAAA
1 AAAAAGAAAAA
908571 AAA
1 AAA
908574 TATGAAATTG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.92, C:0.00, G:0.08, T:0.00
Consensus pattern (11 bp):
AAAAAGAAAAA
Found at i:918776 original size:20 final size:20
Alignment explanation
Indices: 918750--918803 Score: 92
Period size: 20 Copynumber: 2.7 Consensus size: 20
918740 TTACCACTGT
918750 TTGTATCGATACATGAAACAA
1 TTGTATCGATACATGAAA-AA
918771 -TGTATCGATACATGAAAAA
1 TTGTATCGATACATGAAAAA
918790 TTGTATCGATACAT
1 TTGTATCGATACAT
918804 TACCTCGAAC
Statistics
Matches: 32, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
19 2 0.06
20 30 0.94
ACGTcount: A:0.41, C:0.13, G:0.15, T:0.31
Consensus pattern (20 bp):
TTGTATCGATACATGAAAAA
Found at i:924178 original size:15 final size:15
Alignment explanation
Indices: 924158--924192 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
924148 TAACTTTGGA
924158 GGTGGAGGTTATGGC
1 GGTGGAGGTTATGGC
*
924173 GGTGGAGGTTATGGT
1 GGTGGAGGTTATGGC
924188 GGTGG
1 GGTGG
924193 TGGTGGCTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.11, C:0.03, G:0.57, T:0.29
Consensus pattern (15 bp):
GGTGGAGGTTATGGC
Found at i:924203 original size:18 final size:18
Alignment explanation
Indices: 924182--924246 Score: 73
Period size: 18 Copynumber: 3.8 Consensus size: 18
924172 CGGTGGAGGT
924182 TATGGTGGTGGTGGTGGC
1 TATGGTGGTGGTGGTGGC
* *
924200 TATGGGGGCGGTGGTGGC
1 TATGGTGGTGGTGGTGGC
* *
924218 TA---TGGAGGCGGTGGC
1 TATGGTGGTGGTGGTGGC
924233 TATGGTGGTGGTGG
1 TATGGTGGTGGTGG
924247 CTATGGCAGA
Statistics
Matches: 37, Mismatches: 7, Indels: 6
0.74 0.14 0.12
Matches are distributed among these distances:
15 12 0.32
18 25 0.68
ACGTcount: A:0.08, C:0.08, G:0.57, T:0.28
Consensus pattern (18 bp):
TATGGTGGTGGTGGTGGC
Found at i:924230 original size:15 final size:15
Alignment explanation
Indices: 924212--924252 Score: 64
Period size: 15 Copynumber: 2.7 Consensus size: 15
924202 TGGGGGCGGT
924212 GGTGGCTATGGAGGC
1 GGTGGCTATGGAGGC
* *
924227 GGTGGCTATGGTGGT
1 GGTGGCTATGGAGGC
924242 GGTGGCTATGG
1 GGTGGCTATGG
924253 CAGAAATGAT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.10, C:0.10, G:0.54, T:0.27
Consensus pattern (15 bp):
GGTGGCTATGGAGGC
Found at i:925973 original size:51 final size:51
Alignment explanation
Indices: 925918--926023 Score: 167
Period size: 51 Copynumber: 2.1 Consensus size: 51
925908 AAAATAAATT
* *
925918 TAATGGCTAAGCACAATATCCAATCCACTACCTCAAGCTCTAGTAGTCTAA
1 TAATGGCTAAACACAATATCCAATCCACTACCTCAAGCTCTAATAGTCTAA
* * *
925969 TAATGGCTAAACCCAATATCTAATCCACTACTTCAAGCTCTAATAGTCTAA
1 TAATGGCTAAACACAATATCCAATCCACTACCTCAAGCTCTAATAGTCTAA
926020 TAAT
1 TAAT
926024 CTTACACAAT
Statistics
Matches: 50, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
51 50 1.00
ACGTcount: A:0.37, C:0.25, G:0.09, T:0.28
Consensus pattern (51 bp):
TAATGGCTAAACACAATATCCAATCCACTACCTCAAGCTCTAATAGTCTAA
Found at i:926818 original size:3 final size:3
Alignment explanation
Indices: 926810--926834 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
926800 TCTGATGCTG
926810 CAT CAT CAT CAT CAT CAT CAT CAT C
1 CAT CAT CAT CAT CAT CAT CAT CAT C
926835 TTTTTCTTCT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.36, G:0.00, T:0.32
Consensus pattern (3 bp):
CAT
Found at i:932506 original size:14 final size:14
Alignment explanation
Indices: 932487--932517 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
932477 TATATGTATG
932487 TATTATTTTTATAT
1 TATTATTTTTATAT
*
932501 TATTATTTTTTTAT
1 TATTATTTTTATAT
932515 TAT
1 TAT
932518 AATTATATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (14 bp):
TATTATTTTTATAT
Found at i:932512 original size:17 final size:19
Alignment explanation
Indices: 932476--932514 Score: 57
Period size: 16 Copynumber: 2.2 Consensus size: 19
932466 ATTTGATAAA
932476 TTATATGTATGTATTATTT
1 TTATATGTATGTATTATTT
932495 TTATAT-TAT-TATT-TTT
1 TTATATGTATGTATTATTT
932511 TTAT
1 TTAT
932515 TATAATTATA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
16 7 0.35
17 4 0.20
18 3 0.15
19 6 0.30
ACGTcount: A:0.26, C:0.00, G:0.05, T:0.69
Consensus pattern (19 bp):
TTATATGTATGTATTATTT
Found at i:932586 original size:21 final size:22
Alignment explanation
Indices: 932562--932604 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 22
932552 TTTTAAAATA
*
932562 AATTAATAATTTATTT-TATAT
1 AATTAATAATATATTTATATAT
**
932583 AATTTTTAATATATTTATATAT
1 AATTAATAATATATTTATATAT
932605 TTATATTATA
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (22 bp):
AATTAATAATATATTTATATAT
Found at i:932607 original size:33 final size:33
Alignment explanation
Indices: 932539--932615 Score: 84
Period size: 33 Copynumber: 2.3 Consensus size: 33
932529 ACATATTATC
*
932539 TATTTATATAAAATTTTAAAATAAATTAATAATT
1 TATTT-TATATAATTTTAAAATAAATTAATAATT
* * *
932573 TATTTTATATAATTTT-TAATATATTTATATATT
1 TATTTTATATAATTTTAAAATAAATTAATA-ATT
*
932606 TATATTATAT
1 TATTTTATAT
932616 TTAAAATTAT
Statistics
Matches: 37, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
32 10 0.27
33 22 0.59
34 5 0.14
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (33 bp):
TATTTTATATAATTTTAAAATAAATTAATAATT
Found at i:932614 original size:19 final size:20
Alignment explanation
Indices: 932572--932618 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 20
932562 AATTAATAAT
*
932572 TTAT-TTTATATAATTTTTA
1 TTATATTTATATAATTTATA
*
932591 ATATATTTATAT-ATTTATA
1 TTATATTTATATAATTTATA
932610 TTATATTTA
1 TTATATTTA
932619 AAATTATCAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
19 17 0.71
20 7 0.29
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (20 bp):
TTATATTTATATAATTTATA
Found at i:933095 original size:20 final size:19
Alignment explanation
Indices: 933072--933137 Score: 71
Period size: 19 Copynumber: 3.4 Consensus size: 19
933062 GTACATAATT
933072 TATATAAATAAAATATAAAA
1 TATATAAATAAAATA-AAAA
* *
933092 TATAATAATTAAATTAAAAA
1 TAT-ATAAATAAAATAAAAA
* *
933112 AATATAAATAATATAAAAA
1 TATATAAATAAAATAAAAA
933131 T-TATAAA
1 TATATAAA
933138 AAATATATAT
Statistics
Matches: 38, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
18 6 0.16
19 13 0.34
20 9 0.24
21 10 0.26
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (19 bp):
TATATAAATAAAATAAAAA
Found at i:933113 original size:29 final size:27
Alignment explanation
Indices: 933076--933144 Score: 79
Period size: 27 Copynumber: 2.4 Consensus size: 27
933066 ATAATTTATA
933076 TAAATAAAATATAAAAT-ATAATAATTAAAT
1 TAAA-AAAATATAAAATAAT-ATAA--AAAT
933106 TAAAAAAATAT-AAATAATATAAAAAT
1 TAAAAAAATATAAAATAATATAAAAAT
933132 TATAAAAAATATA
1 TA-AAAAAATATA
933145 TATGTATAAT
Statistics
Matches: 36, Mismatches: 0, Indels: 8
0.82 0.00 0.18
Matches are distributed among these distances:
26 6 0.17
27 9 0.25
28 8 0.22
29 9 0.25
30 4 0.11
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (27 bp):
TAAAAAAATATAAAATAATATAAAAAT
Found at i:933124 original size:9 final size:9
Alignment explanation
Indices: 933073--933144 Score: 50
Period size: 9 Copynumber: 8.6 Consensus size: 9
933063 TACATAATTT
933073 ATATAAATA
1 ATATAAATA
*
933082 AAATATAA-A
1 ATATA-AATA
933091 ATAT-AATA
1 ATATAAATA
933099 AT-TAAAT-
1 ATATAAATA
*
933106 -TA-AAAAA
1 ATATAAATA
933113 ATATAAATA
1 ATATAAATA
933122 ATATAAA-A
1 ATATAAATA
*
933130 ATTATAAAAA
1 A-TATAAATA
933140 ATATA
1 ATATA
933145 TATGTATAAT
Statistics
Matches: 50, Mismatches: 4, Indels: 18
0.69 0.06 0.25
Matches are distributed among these distances:
6 4 0.08
7 3 0.06
8 10 0.20
9 29 0.58
10 4 0.08
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (9 bp):
ATATAAATA
Found at i:933133 original size:31 final size:30
Alignment explanation
Indices: 933076--933133 Score: 82
Period size: 31 Copynumber: 1.9 Consensus size: 30
933066 ATAATTTATA
*
933076 TAAATAAAATATAAAATATAATAATTAAAT
1 TAAATAAAATATAAAATATAAAAATTAAAT
933106 TAAA-AAAATATAAATAATATAAAAATTA
1 TAAATAAAATAT-AA-AATATAAAAATTA
933134 TAAAAAATAT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
29 7 0.28
30 6 0.24
31 12 0.48
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (30 bp):
TAAATAAAATATAAAATATAAAAATTAAAT
Found at i:933500 original size:18 final size:19
Alignment explanation
Indices: 933464--933501 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
933454 TTTAAAATTT
*
933464 TAAAAATTAAATAATACAA
1 TAAAAATTAAATAAAACAA
*
933483 TAAAATTTAAA-AAAACAA
1 TAAAAATTAAATAAAACAA
933501 T
1 T
933502 CACCAACTAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 7 0.41
19 10 0.59
ACGTcount: A:0.68, C:0.05, G:0.00, T:0.26
Consensus pattern (19 bp):
TAAAAATTAAATAAAACAA
Found at i:934326 original size:24 final size:24
Alignment explanation
Indices: 934299--934358 Score: 59
Period size: 24 Copynumber: 2.5 Consensus size: 24
934289 AAAAAATATT
* *
934299 ATATTAATTACATTTATTT-TCAAA
1 ATATTAATTA-ATTAATTTCACAAA
* *
934323 ATATCATTTTAATTAATTTCACAAA
1 ATATTA-ATTAATTAATTTCACAAA
934348 ATATTAATTAA
1 ATATTAATTAA
934359 CTTTTTTTCT
Statistics
Matches: 28, Mismatches: 6, Indels: 4
0.74 0.16 0.11
Matches are distributed among these distances:
24 16 0.57
25 12 0.43
ACGTcount: A:0.45, C:0.08, G:0.00, T:0.47
Consensus pattern (24 bp):
ATATTAATTAATTAATTTCACAAA
Found at i:934606 original size:19 final size:19
Alignment explanation
Indices: 934584--934628 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
934574 AATTAATTAT
934584 AATATA-ATAAATATGATAA
1 AATATATATAAATATG-TAA
*
934603 AATATATTTAAATATGTAA
1 AATATATATAAATATGTAA
*
934622 ATTATAT
1 AATATAT
934629 TTATATTTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
19 15 0.65
20 8 0.35
ACGTcount: A:0.56, C:0.00, G:0.04, T:0.40
Consensus pattern (19 bp):
AATATATATAAATATGTAA
Found at i:934629 original size:19 final size:20
Alignment explanation
Indices: 934591--934631 Score: 66
Period size: 19 Copynumber: 2.1 Consensus size: 20
934581 TATAATATAA
934591 TAAATATGATAAAATATATT
1 TAAATATGATAAAATATATT
*
934611 TAAATATG-TAAATTATATT
1 TAAATATGATAAAATATATT
934630 TA
1 TA
934632 TATTTAAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
19 12 0.60
20 8 0.40
ACGTcount: A:0.51, C:0.00, G:0.05, T:0.44
Consensus pattern (20 bp):
TAAATATGATAAAATATATT
Found at i:934634 original size:25 final size:24
Alignment explanation
Indices: 934605--934657 Score: 70
Period size: 25 Copynumber: 2.2 Consensus size: 24
934595 TATGATAAAA
*
934605 TATATTTAAATATGTAAATTATATT
1 TATATTTAAAAATGTAAATTAT-TT
* *
934630 TATATTTAAAAATTTAATTTATTT
1 TATATTTAAAAATGTAAATTATTT
934654 TATA
1 TATA
934658 AATTATATTA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
24 6 0.24
25 19 0.76
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (24 bp):
TATATTTAAAAATGTAAATTATTT
Found at i:934668 original size:17 final size:18
Alignment explanation
Indices: 934619--934671 Score: 65
Period size: 19 Copynumber: 2.9 Consensus size: 18
934609 TTTAAATATG
934619 TAAATTATATTTATATTTA
1 TAAATTATATTTAT-TTTA
*
934638 AAAATT-TAATTTATTTTA
1 TAAATTAT-ATTTATTTTA
934656 TAAATTATA-TTATTTT
1 TAAATTATATTTATTTT
934672 TATATTTATA
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
17 7 0.23
18 11 0.37
19 12 0.40
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (18 bp):
TAAATTATATTTATTTTA
Found at i:934672 original size:18 final size:18
Alignment explanation
Indices: 934619--934675 Score: 55
Period size: 18 Copynumber: 3.1 Consensus size: 18
934609 TTTAAATATG
*
934619 TAAATTATATTTATATTTA
1 TAAATTATA-TTATTTTTA
*
934638 AAAATT-TAATT-TATTTTA
1 TAAATTAT-ATTAT-TTTTA
934656 TAAATTATATTATTTTTA
1 TAAATTATATTATTTTTA
934674 TA
1 TA
934676 TTTATAAAAT
Statistics
Matches: 31, Mismatches: 3, Indels: 9
0.72 0.07 0.21
Matches are distributed among these distances:
17 1 0.03
18 22 0.71
19 8 0.26
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (18 bp):
TAAATTATATTATTTTTA
Found at i:934701 original size:10 final size:10
Alignment explanation
Indices: 934678--934707 Score: 51
Period size: 10 Copynumber: 2.9 Consensus size: 10
934668 TTTTTATATT
934678 TATAAAATTAA
1 TATAAAA-TAA
934689 TATAAAATAA
1 TATAAAATAA
934699 TATAAAATA
1 TATAAAATA
934708 TAACACGTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 12 0.63
11 7 0.37
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (10 bp):
TATAAAATAA
Found at i:934899 original size:22 final size:22
Alignment explanation
Indices: 934874--934930 Score: 82
Period size: 22 Copynumber: 2.6 Consensus size: 22
934864 ATAATAATAT
*
934874 TATTTTTATATTAAAATTTATA
1 TATTTTTATATTAAAATTTAAA
934896 TATTTTTATTATT-AAATTTAAA
1 TATTTTTA-TATTAAAATTTAAA
934918 TATTTTT-TATTAA
1 TATTTTTATATTAA
934931 TAAAATAATA
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
20 4 0.12
21 1 0.03
22 23 0.72
23 4 0.12
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (22 bp):
TATTTTTATATTAAAATTTAAA
Found at i:934934 original size:23 final size:23
Alignment explanation
Indices: 934874--934934 Score: 74
Period size: 23 Copynumber: 2.7 Consensus size: 23
934864 ATAATAATAT
*
934874 TATTTTTATATT-A-AAATTTATA
1 TATTTTT-TATTAATAAATTTAAA
*
934896 TA-TTTTTATTATTAAATTTAAA
1 TATTTTTTATTAATAAATTTAAA
934918 TATTTTTTATTAATAAA
1 TATTTTTTATTAATAAA
934935 ATAATAATTA
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
20 4 0.12
21 4 0.12
22 12 0.36
23 13 0.39
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (23 bp):
TATTTTTTATTAATAAATTTAAA
Found at i:936861 original size:270 final size:266
Alignment explanation
Indices: 936380--936911 Score: 775
Period size: 270 Copynumber: 2.0 Consensus size: 266
936370 TTGAGTGAGG
* *
936380 ACGATGATGGATTTTTCGATGTTGAGGAAGGGCGTGAAGAGGCGGTCGAAGTTGACAGTGATAAC
1 ACGATGATGGATTTTTCGATGTTGAGGAAGGGCGTGAAGAGGAGGTCGAAGTTGACACTGATAAC
*
936445 AATGATGACGAAGAAAACAGTGTTCTTGAGGCAATGGTTTCGGGGCAAAAAGATAAGAAGAATGC
66 AATGATGACGAAGAAAACAGTGTTCTTGAAGCAATGGTTTCGGGGCAAAAAGATAAGAAGAATGC
* * *
936510 TTCTTTTAAGAGTGAGGGGGTGGTTTTGCAGACGAGATTTCATGTCGAGGATGAGAGTGATGATG
131 TTCTTTTAAGAGTGAGGAGGTGGTTTTGAAGACGAGATTTCATGTCGAGGACGAGAGTGATGATG
*
936575 AGGAATTTAAGGAACACGATAACCAGAAGAACAGAAGGAGAAACCGAAGAGGGAAGAAAGAGAAG
196 AGCAATTTAAGGAACACGATAACCAGAAGAACAGAAGGAGAAACCGAAGAGGGAAGAAAGAG-AG
936640 GGGAAGA
260 GGGAAGA
* * * *
936647 ACGATGATGG-GTTTTCTGATGTTGAGGAAGGGGGTGAAGAGGATGTCGAAGTTGATACTGATAA
1 ACGATGATGGATTTTTC-GATGTTGAGGAAGGGCGTGAAGAGGAGGTCGAAGTTGACACTGATAA
* * * * *
936711 TGATGATGATGATGAAGAAAATAGTGTTCTTGAAGCAATGGTTTTGGGGCGAAAAGATAAGAAGA
65 -CA--ATGATGACGAAGAAAACAGTGTTCTTGAAGCAATGGTTTCGGGGCAAAAAGATAAGAAGA
* *
936776 ATGCTTCTTTTAAGAGTGAGGATGTGGTTTAT-AAGAC-AGGATTTCGTGTC-ATGGACGAGAGT
127 ATGCTTCTTTTAAGAGTGAGGAGGTGGTTT-TGAAGACGA-GATTTCATGTCGA-GGACGAGAGT
* * *
936838 GATGATGAGCAATTTATGGAACACGATAACCGGAAGAACAGAAGGAGAAATCGAAGAGGGAAGAA
189 GATGATGAGCAATTTAAGGAACACGATAACCAGAAGAACAGAAGGAGAAACCGAAGAGGGAAGAA
936903 AGAGAGGGG
254 AGAGAGGGG
936912 CAAAAAGGAT
Statistics
Matches: 237, Mismatches: 21, Indels: 12
0.88 0.08 0.04
Matches are distributed among these distances:
266 5 0.02
267 52 0.22
268 1 0.00
269 7 0.03
270 171 0.72
271 1 0.00
ACGTcount: A:0.35, C:0.09, G:0.34, T:0.22
Consensus pattern (266 bp):
ACGATGATGGATTTTTCGATGTTGAGGAAGGGCGTGAAGAGGAGGTCGAAGTTGACACTGATAAC
AATGATGACGAAGAAAACAGTGTTCTTGAAGCAATGGTTTCGGGGCAAAAAGATAAGAAGAATGC
TTCTTTTAAGAGTGAGGAGGTGGTTTTGAAGACGAGATTTCATGTCGAGGACGAGAGTGATGATG
AGCAATTTAAGGAACACGATAACCAGAAGAACAGAAGGAGAAACCGAAGAGGGAAGAAAGAGAGG
GGAAGA
Found at i:944687 original size:11 final size:11
Alignment explanation
Indices: 944673--944712 Score: 53
Period size: 11 Copynumber: 3.4 Consensus size: 11
944663 ATTAATATTT
944673 AATATATTTAA
1 AATATATTTAA
944684 AATATATTTAATTA
1 AATATATTT-A--A
944698 AATATATTTAA
1 AATATATTTAA
944709 AATA
1 AATA
944713 AAAAAAATCG
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
11 14 0.54
12 1 0.04
13 1 0.04
14 10 0.38
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (11 bp):
AATATATTTAA
Found at i:944790 original size:28 final size:27
Alignment explanation
Indices: 944758--944826 Score: 77
Period size: 28 Copynumber: 2.5 Consensus size: 27
944748 TGATTTTATT
944758 ATTTTAATTTTAAAATTAATATCAA-TTA
1 ATTTTAATTTTAAAATTAAT-T-AAGTTA
* *
944786 ATTTTAATATTAAATTTAATTAAGTTA
1 ATTTTAATTTTAAAATTAATTAAGTTA
* *
944813 ATTTTGACTTTAAA
1 ATTTTAATTTTAAA
944827 CAAATCAAAT
Statistics
Matches: 35, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
26 2 0.06
27 15 0.43
28 18 0.51
ACGTcount: A:0.43, C:0.03, G:0.03, T:0.51
Consensus pattern (27 bp):
ATTTTAATTTTAAAATTAATTAAGTTA
Found at i:945786 original size:22 final size:21
Alignment explanation
Indices: 945760--945813 Score: 58
Period size: 23 Copynumber: 2.5 Consensus size: 21
945750 AATTAAAAAT
945760 TATTTTTATATT-AATATT-AA
1 TATTTTTATATTAAAT-TTAAA
945780 TATATTTTATAATTAAATTTAAA
1 TAT-TTTTAT-ATTAAATTTAAA
945803 TAATTTTTATA
1 T-ATTTTTATA
945814 AAATAATTAA
Statistics
Matches: 29, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
20 3 0.10
21 6 0.21
22 6 0.21
23 12 0.41
24 2 0.07
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (21 bp):
TATTTTTATATTAAATTTAAA
Found at i:945810 original size:23 final size:22
Alignment explanation
Indices: 945760--945828 Score: 67
Period size: 22 Copynumber: 3.2 Consensus size: 22
945750 AATTAAAAAT
945760 TATTTTTAT-ATTAATATT-AA
1 TATTTTTATAATTAATATTAAA
945780 TATATTTTATAATTAA-ATTTAAA
1 TAT-TTTTATAATTAATA-TTAAA
945803 TAATTTTTATAA--AATAATTAAA
1 T-ATTTTTATAATTAAT-ATTAAA
945825 TATT
1 TATT
945829 ATTGACAAAA
Statistics
Matches: 42, Mismatches: 0, Indels: 13
0.76 0.00 0.24
Matches are distributed among these distances:
20 3 0.07
21 12 0.29
22 13 0.31
23 12 0.29
24 2 0.05
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (22 bp):
TATTTTTATAATTAATATTAAA
Found at i:945990 original size:20 final size:19
Alignment explanation
Indices: 945952--945995 Score: 54
Period size: 20 Copynumber: 2.3 Consensus size: 19
945942 GTCAGTTCAC
945952 TTAAAAAATATTTCAAATA
1 TTAAAAAATATTTCAAATA
*
945971 TATAAAAAATGATTT-TAATA
1 T-TAAAAAAT-ATTTCAAATA
945991 TTAAA
1 TTAAA
945996 TACATATTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
19 5 0.23
20 13 0.59
21 4 0.18
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.39
Consensus pattern (19 bp):
TTAAAAAATATTTCAAATA
Found at i:948883 original size:6 final size:6
Alignment explanation
Indices: 948872--948897 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
948862 GCTTTTAGTA
948872 TTTTAT TTTTAT TTTTAT TTTTAT TT
1 TTTTAT TTTTAT TTTTAT TTTTAT TT
948898 ATCAGCTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (6 bp):
TTTTAT
Found at i:948987 original size:3 final size:3
Alignment explanation
Indices: 948981--949025 Score: 90
Period size: 3 Copynumber: 15.0 Consensus size: 3
948971 AGAAAAAAAT
948981 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
949026 AAGTTAATTA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:949152 original size:16 final size:17
Alignment explanation
Indices: 949116--949153 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
949106 GAAATTAATT
*
949116 TTAAAAATAAAAAAGAG
1 TTAATAATAAAAAAGAG
*
949133 TTAATAATAATAAA-AG
1 TTAATAATAAAAAAGAG
949149 TTAAT
1 TTAAT
949154 TATATATGTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
16 7 0.37
17 12 0.63
ACGTcount: A:0.63, C:0.00, G:0.08, T:0.29
Consensus pattern (17 bp):
TTAATAATAAAAAAGAG
Found at i:949204 original size:29 final size:29
Alignment explanation
Indices: 949172--949227 Score: 78
Period size: 29 Copynumber: 1.9 Consensus size: 29
949162 TTTTAAAGGA
* *
949172 AAAAAAT-AAATTATATATGGTAGTTTTTT
1 AAAAAATAAAATAAAATA-GGTAGTTTTTT
949201 AAAAAATAAAATAAAATAGGTAGTTTT
1 AAAAAATAAAATAAAATAGGTAGTTTT
949228 AAGAATTAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 16 0.67
30 8 0.33
ACGTcount: A:0.52, C:0.00, G:0.11, T:0.38
Consensus pattern (29 bp):
AAAAAATAAAATAAAATAGGTAGTTTTTT
Found at i:949564 original size:16 final size:16
Alignment explanation
Indices: 949523--949565 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 16
949513 TTTTTTTAAA
*
949523 AATTATTATATAAAAT
1 AATTATAATATAAAAT
*
949539 AATTAAAATATAAAAT
1 AATTATAATATAAAAT
**
949555 TTTTATAATAT
1 AATTATAATAT
949566 TATTATTTAA
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (16 bp):
AATTATAATATAAAAT
Found at i:949859 original size:20 final size:21
Alignment explanation
Indices: 949834--949880 Score: 60
Period size: 20 Copynumber: 2.3 Consensus size: 21
949824 ATAATATTAT
* *
949834 TATTTATGTTTTATT-TTTAA
1 TATTTATATTTCATTATTTAA
*
949854 TATTTATATTTCATTATTTTA
1 TATTTATATTTCATTATTTAA
949875 TATTTA
1 TATTTA
949881 AAACTAATAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
20 13 0.57
21 10 0.43
ACGTcount: A:0.28, C:0.02, G:0.02, T:0.68
Consensus pattern (21 bp):
TATTTATATTTCATTATTTAA
Found at i:950146 original size:27 final size:26
Alignment explanation
Indices: 950112--950162 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 26
950102 GATTATAAAT
950112 AATATTAT-TATTTATGTTATATTTTC
1 AATATTATATA-TTATGTTATATTTTC
*
950138 AATATTTATATATTATTTTATATTT
1 AATA-TTATATATTATGTTATATTT
950163 AAAATCAATA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
26 4 0.18
27 16 0.73
28 2 0.09
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.63
Consensus pattern (26 bp):
AATATTATATATTATGTTATATTTTC
Found at i:950277 original size:23 final size:23
Alignment explanation
Indices: 950233--950280 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 23
950223 ATTTGATTAT
**
950233 ATATTTATGAACATGTTCATTTA
1 ATATTTATGAACAAATTCATTTA
* *
950256 ATATTTATGAATAAATTTATTTA
1 ATATTTATGAACAAATTCATTTA
950279 AT
1 AT
950281 TTAAACGAAT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.40, C:0.04, G:0.06, T:0.50
Consensus pattern (23 bp):
ATATTTATGAACAAATTCATTTA
Found at i:951682 original size:3 final size:3
Alignment explanation
Indices: 951674--951734 Score: 122
Period size: 3 Copynumber: 20.3 Consensus size: 3
951664 CACCTCCCAC
951674 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
951722 ATA ATA ATA ATA A
1 ATA ATA ATA ATA A
951735 CAGTGACTTT
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 58 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:956370 original size:25 final size:25
Alignment explanation
Indices: 956341--956397 Score: 96
Period size: 25 Copynumber: 2.2 Consensus size: 25
956331 AAAAAACTTC
*
956341 ATATTTAATTTAGTTAATTTATATA
1 ATATTTAATTTAGTCAATTTATATA
956366 ATATTTAATTTAGTCAATTTATATA
1 ATATTTAATTTAGTCAATTTATATA
956391 ATTATTT
1 A-TATTT
956398 TTAAAAAATA
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
25 25 0.83
26 5 0.17
ACGTcount: A:0.39, C:0.02, G:0.04, T:0.56
Consensus pattern (25 bp):
ATATTTAATTTAGTCAATTTATATA
Found at i:956663 original size:2 final size:2
Alignment explanation
Indices: 956656--956699 Score: 79
Period size: 2 Copynumber: 22.0 Consensus size: 2
956646 GAAAGCAAGC
*
956656 AT AT AT AT AT AT AT AC AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
956698 AT
1 AT
956700 TTTGCAACGT
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:956941 original size:17 final size:17
Alignment explanation
Indices: 956907--956941 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
956897 TAATATTAAT
*
956907 TTTACAAATAAATAAAA
1 TTTACAAATAAACAAAA
*
956924 TTTACAAATAAACCAAA
1 TTTACAAATAAACAAAA
956941 T
1 T
956942 GAGAAAATCG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.60, C:0.11, G:0.00, T:0.29
Consensus pattern (17 bp):
TTTACAAATAAACAAAA
Found at i:957578 original size:14 final size:14
Alignment explanation
Indices: 957561--957610 Score: 57
Period size: 14 Copynumber: 3.5 Consensus size: 14
957551 ATTTAATATA
957561 TTTAAAAT-TTTATT
1 TTTAAAATATTT-TT
957575 TTTAAAATATTTTT
1 TTTAAAATATTTTT
*
957589 TATTAAAACATTTTT
1 T-TTAAAATATTTTT
*
957604 TATAAAA
1 TTTAAAA
957611 AGACTTTTAT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
14 16 0.50
15 16 0.50
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (14 bp):
TTTAAAATATTTTT
Found at i:957596 original size:15 final size:15
Alignment explanation
Indices: 957562--957610 Score: 59
Period size: 15 Copynumber: 3.4 Consensus size: 15
957552 TTTAATATAT
957562 TTAAAAT-TTTATTT-
1 TTAAAATATTT-TTTA
957576 TTAAAATATTTTTTA
1 TTAAAATATTTTTTA
*
957591 TTAAAACATTTTTTA
1 TTAAAATATTTTTTA
957606 -TAAAA
1 TTAAAA
957611 AGACTTTTAT
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
14 15 0.47
15 17 0.53
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (15 bp):
TTAAAATATTTTTTA
Found at i:957721 original size:21 final size:22
Alignment explanation
Indices: 957697--957861 Score: 73
Period size: 21 Copynumber: 7.6 Consensus size: 22
957687 ACAAATTAGA
957697 ATTTAATATATTATTTT-T-TTT
1 ATTTAA-ATATTATTTTATATTT
957718 ATTTAAA-ATTATTTTATATTT
1 ATTTAAATATTATTTTATATTT
* *
957739 ATATAAATTTTATTTTAAATAATTT
1 ATTTAAATATTATTTT--AT-ATTT
**
957764 ATATT--ATATTAATTTTA-AAAT
1 AT-TTAAATATT-ATTTTATATTT
**
957785 ATTTAAATATTTAAATTATATTT
1 ATTTAAATA-TTATTTTATATTT
* *
957808 A--TAAATTTTATATTATATTAT
1 ATTTAAATATTATTTTATATT-T
*
957829 ATTT-TA-ATTATTTT-TATATT
1 ATTTAAATATTATTTTATAT-TT
* *
957849 ATATAATTATTAT
1 ATTTAAATATTAT
957862 ATATTTAAAA
Statistics
Matches: 108, Mismatches: 18, Indels: 35
0.67 0.11 0.22
Matches are distributed among these distances:
19 8 0.07
20 22 0.20
21 33 0.31
22 20 0.19
23 7 0.06
24 6 0.06
25 11 0.10
26 1 0.01
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (22 bp):
ATTTAAATATTATTTTATATTT
Found at i:957753 original size:32 final size:30
Alignment explanation
Indices: 957714--957780 Score: 89
Period size: 30 Copynumber: 2.2 Consensus size: 30
957704 ATATTATTTT
*
957714 TTTTATTTAAAATTATTTTATATTTATATAAA
1 TTTTATTTAAAA-TAATTTATA-TTATATAAA
* *
957746 TTTTATTTTAAATAATTTATATTATATTAA
1 TTTTATTTAAAATAATTTATATTATATAAA
957776 TTTTA
1 TTTTA
957781 AAATATTTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
30 13 0.41
31 8 0.25
32 11 0.34
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (30 bp):
TTTTATTTAAAATAATTTATATTATATAAA
Found at i:957775 original size:19 final size:18
Alignment explanation
Indices: 957748--957806 Score: 61
Period size: 16 Copynumber: 3.4 Consensus size: 18
957738 TATATAAATT
* *
957748 TTATTTTAAATAATTTATA
1 TTATATTAAAT-ATTTAAA
957767 TTATATT-AAT-TTTAAA
1 TTATATTAAATATTTAAA
*
957783 ATAT-TTAAATATTTAAA
1 TTATATTAAATATTTAAA
957800 TTATATT
1 TTATATT
957807 TATAAATTTT
Statistics
Matches: 33, Mismatches: 4, Indels: 7
0.75 0.09 0.16
Matches are distributed among these distances:
15 2 0.06
16 11 0.33
17 9 0.27
18 5 0.15
19 6 0.18
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (18 bp):
TTATATTAAATATTTAAA
Found at i:957778 original size:25 final size:27
Alignment explanation
Indices: 957732--957852 Score: 112
Period size: 25 Copynumber: 4.6 Consensus size: 27
957722 AAAATTATTT
* *
957732 TATATTTATA-TAAATTTTATTTTAAA
1 TATATTTATATTATATTATATTTTAAA
957758 TA-ATTTATATTATATTA-ATTTTAAA
1 TATATTTATATTATATTATATTTTAAA
*
957783 -ATATTTAAATATTTAAATTATA-TTTATAA
1 TATATTT--ATA-TTATATTATATTTTA-AA
*
957812 -AT-TTTATATTATATTATATTTTAAT
1 TATATTTATATTATATTATATTTTAAA
*
957837 TATTTTTATATTATAT
1 TATATTTATATTATAT
957853 AATTATTATA
Statistics
Matches: 80, Mismatches: 5, Indels: 19
0.77 0.05 0.18
Matches are distributed among these distances:
24 1 0.01
25 29 0.36
26 16 0.20
27 15 0.19
28 14 0.17
29 5 0.06
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (27 bp):
TATATTTATATTATATTATATTTTAAA
Found at i:957795 original size:58 final size:54
Alignment explanation
Indices: 957719--957835 Score: 132
Period size: 54 Copynumber: 2.1 Consensus size: 54
957709 ATTTTTTTTA
* *
957719 TTTAAAATTATTTTATATTTATATAAATTTTATTT-TAAATAATTTATATTATATTA-AT
1 TTTAAAATTA-TTTA-A--TATTTAAATTATATTTATAAAT--TTTATATTATATTATAT
957777 TTTAAAA-TATTTAAATATTTAAATTATATTTATAAATTTTATATTATATTATAT
1 TTTAAAATTATTT-AATATTTAAATTATATTTATAAATTTTATATTATATTATAT
957831 TTTAA
1 TTTAA
957836 TTATTTTTAT
Statistics
Matches: 54, Mismatches: 2, Indels: 10
0.82 0.03 0.15
Matches are distributed among these distances:
53 14 0.26
54 21 0.39
55 5 0.09
56 4 0.07
57 3 0.06
58 7 0.13
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (54 bp):
TTTAAAATTATTTAATATTTAAATTATATTTATAAATTTTATATTATATTATAT
Found at i:957807 original size:19 final size:19
Alignment explanation
Indices: 957742--957826 Score: 65
Period size: 20 Copynumber: 4.6 Consensus size: 19
957732 TATATTTATA
*
957742 TAAATTTTATTTTAAATAATT
1 TAAATTATA-TTTAAAT-ATT
*
957763 TATATTATA-TT-AAT-TT
1 TAAATTATATTTAAATATT
957779 TAAA--ATATTTAAATATT
1 TAAATTATATTTAAATATT
957796 TAAATTATATTTATAA-ATTT
1 TAAATTATATTTA-AATA-TT
*
957816 TATATTATATT
1 TAAATTATATT
957827 ATATTTTAAT
Statistics
Matches: 53, Mismatches: 4, Indels: 15
0.74 0.06 0.21
Matches are distributed among these distances:
14 3 0.06
15 2 0.04
16 8 0.15
17 6 0.11
18 3 0.06
19 10 0.19
20 14 0.26
21 7 0.13
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (19 bp):
TAAATTATATTTAAATATT
Found at i:957840 original size:19 final size:19
Alignment explanation
Indices: 957765--957863 Score: 63
Period size: 19 Copynumber: 5.4 Consensus size: 19
957755 AAATAATTTA
*
957765 TATTATATTA-ATTTTAAAA
1 TATTATATTATATTTT-AAT
* *
957784 TATT-TA-AATATTTAAAT
1 TATTATATTATATTTTAAT
957801 TA-TAT-TTATAAATTTT-A-
1 TATTATATTAT--ATTTTAAT
957818 TATTATATTATATTTTAAT
1 TATTATATTATATTTTAAT
957837 TATT-T-TTATATTATATAAT
1 TATTATATTATATT-T-TAAT
957856 TATTATAT
1 TATTATAT
957864 ATTTAAAAGA
Statistics
Matches: 62, Mismatches: 5, Indels: 24
0.68 0.05 0.26
Matches are distributed among these distances:
16 1 0.02
17 22 0.35
18 13 0.21
19 24 0.39
20 1 0.02
21 1 0.02
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (19 bp):
TATTATATTATATTTTAAT
Found at i:957860 original size:22 final size:22
Alignment explanation
Indices: 957799--957866 Score: 63
Period size: 22 Copynumber: 3.1 Consensus size: 22
957789 AAATATTTAA
957799 ATTATATT-TATAAATT-TTA-T
1 ATTATATTATAT-AATTATTATT
*
957819 ATTATATTATAT-TTTAATTATT
1 ATTATATTATATAATT-ATTATT
*
957841 TTTATATTATATAATTATTATAT
1 ATTATATTATATAATTATTAT-T
957864 ATT
1 ATT
957867 TAAAAGATTT
Statistics
Matches: 38, Mismatches: 4, Indels: 9
0.75 0.08 0.18
Matches are distributed among these distances:
19 2 0.05
20 8 0.21
21 6 0.16
22 17 0.45
23 5 0.13
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (22 bp):
ATTATATTATATAATTATTATT
Found at i:957861 original size:58 final size:57
Alignment explanation
Indices: 957724--957863 Score: 145
Period size: 53 Copynumber: 2.5 Consensus size: 57
957714 TTTTATTTAA
957724 AATTA-TTTTATATTTATATAAATT-TTAT-TTTAAATAATTTATATTATATTAATTTT
1 AATTATTTTTATA-TTATAT-AATTATTATATTTAAATAATTTATATTATATTAATTTT
* **
957780 AAAATATTTAAATATT-TA-AATTA-TAT-TTATAAAT--TTTATATTATATTATATTTT
1 -AATTATTTTTATATTATATAATTATTATATT-TAAATAATTTATATTATATTA-ATTTT
957834 AATTATTTTTATATTATATAATTATTATAT
1 AATTATTTTTATATTATATAATTATTATAT
957864 ATTTAAAAGA
Statistics
Matches: 69, Mismatches: 6, Indels: 16
0.76 0.07 0.18
Matches are distributed among these distances:
53 26 0.38
54 16 0.23
55 10 0.14
56 5 0.07
57 7 0.10
58 5 0.07
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (57 bp):
AATTATTTTTATATTATATAATTATTATATTTAAATAATTTATATTATATTAATTTT
Found at i:958424 original size:24 final size:24
Alignment explanation
Indices: 958370--958425 Score: 60
Period size: 24 Copynumber: 2.3 Consensus size: 24
958360 ATATATAAAT
*
958370 TTTAATATGTTAATAATTTATATTA
1 TTTAA-ATGTTAATAATTTATAGTA
* *
958395 TGTAAATTTTAATATATTTAT-GTA
1 TTTAAATGTTAATA-ATTTATAGTA
958419 TTTAAAT
1 TTTAAAT
958426 CATATTATAT
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
24 16 0.62
25 10 0.38
ACGTcount: A:0.39, C:0.00, G:0.05, T:0.55
Consensus pattern (24 bp):
TTTAAATGTTAATAATTTATAGTA
Found at i:958781 original size:15 final size:14
Alignment explanation
Indices: 958746--958794 Score: 53
Period size: 15 Copynumber: 3.3 Consensus size: 14
958736 CATATAGTAA
*
958746 TTTAAAATTATTATT
1 TTTAAAATTAATA-T
*
958761 TATTAAATTTAATAAT
1 T-TTAAAATTAAT-AT
958777 TTTAAAATTAATAT
1 TTTAAAATTAATAT
958791 TTTA
1 TTTA
958795 TTTTAAAAAT
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
14 6 0.21
15 11 0.38
16 11 0.38
17 1 0.03
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (14 bp):
TTTAAAATTAATAT
Found at i:958876 original size:18 final size:19
Alignment explanation
Indices: 958855--958903 Score: 55
Period size: 21 Copynumber: 2.5 Consensus size: 19
958845 TTATTATAAA
958855 TTTTATATTTATATT-ATT
1 TTTTATATTTATATTAATT
958873 TTTTATCATAATTATATTAATT
1 TTTTAT-AT--TTATATTAATT
*
958895 TATTATATT
1 TTTTATATT
958904 AATAACAATA
Statistics
Matches: 26, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
18 6 0.23
19 3 0.12
21 9 0.35
22 8 0.31
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (19 bp):
TTTTATATTTATATTAATT
Done.