Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D07
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: 56457815
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1765025 characters in sequence are not A, C, G, or T
File 167 of 189
Found at i:49919972 original size:28 final size:29
Alignment explanation
Indices: 49919940--49919995 Score: 69
Period size: 28 Copynumber: 2.0 Consensus size: 29
49919930 ATATATTATT
*
49919940 TATATAAATATATAAATTA-ATTATAAAG
1 TATATAAATAAATAAATTACATTATAAAG
* * *
49919968 TATATTATTAAATTAATTACATTATAAA
1 TATATAAATAAATAAATTACATTATAAA
49919996 TATTATATTA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
28 15 0.65
29 8 0.35
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.43
Consensus pattern (29 bp):
TATATAAATAAATAAATTACATTATAAAG
Found at i:49919977 original size:19 final size:17
Alignment explanation
Indices: 49919930--49920016 Score: 56
Period size: 17 Copynumber: 5.1 Consensus size: 17
49919920 TTAGATTTTT
*
49919930 ATATATTATTTATATAA
1 ATATATTATTAATATAA
*
49919947 ATATATAAATTAATTATAA
1 ATATAT-TATTAA-TATAA
49919966 AGTATATTATTAA-ATTAA
1 A-TATATTATTAATA-TAA
* *
49919984 TTACATTA-TAA-AT-A
1 ATATATTATTAATATAA
*
49919998 TTATATTATTATATATAA
1 ATATATTATTA-ATATAA
49920016 A
1 A
49920017 AGAAACAAAA
Statistics
Matches: 55, Mismatches: 7, Indels: 15
0.71 0.09 0.19
Matches are distributed among these distances:
14 8 0.15
15 3 0.05
16 5 0.09
17 15 0.27
18 8 0.15
19 11 0.20
20 5 0.09
ACGTcount: A:0.51, C:0.01, G:0.01, T:0.47
Consensus pattern (17 bp):
ATATATTATTAATATAA
Found at i:49921792 original size:37 final size:39
Alignment explanation
Indices: 49921733--49921828 Score: 108
Period size: 39 Copynumber: 2.5 Consensus size: 39
49921723 CGGATAGATT
* * * *
49921733 CGATGAGGTACTGGGTACCAACT-TT-CTTCG-GCTTTGC
1 CGATGAGGCACTGGGTGCCAACTATTGCTTCGAACTAT-C
* *
49921770 CGATGAGACACTGGGTGTCAACTATTGCTTCGAACTATC
1 CGATGAGGCACTGGGTGCCAACTATTGCTTCGAACTATC
49921809 CGATGAGGCACTGGGTGCCA
1 CGATGAGGCACTGGGTGCCA
49921829 TTCTGGTGTG
Statistics
Matches: 48, Mismatches: 8, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
37 19 0.40
38 2 0.04
39 24 0.50
40 3 0.06
ACGTcount: A:0.21, C:0.24, G:0.28, T:0.27
Consensus pattern (39 bp):
CGATGAGGCACTGGGTGCCAACTATTGCTTCGAACTATC
Found at i:49923300 original size:29 final size:30
Alignment explanation
Indices: 49923240--49923300 Score: 70
Period size: 29 Copynumber: 2.1 Consensus size: 30
49923230 GGAAGGGAGG
* * ***
49923240 GGAGTAAAAGTTTTGGGGGGAAAGTGGGAA
1 GGAGTAAAAGTTTTGAGGGAAAAGTAAAAA
49923270 GGAGTAAAAG-TTTGAGGGAAAAGTAAAAA
1 GGAGTAAAAGTTTTGAGGGAAAAGTAAAAA
49923299 GG
1 GG
49923301 TTTGGGAGTT
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
29 16 0.62
30 10 0.38
ACGTcount: A:0.41, C:0.00, G:0.41, T:0.18
Consensus pattern (30 bp):
GGAGTAAAAGTTTTGAGGGAAAAGTAAAAA
Found at i:49923365 original size:18 final size:18
Alignment explanation
Indices: 49923342--49923378 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
49923332 TATAGTTTGA
49923342 TATTCGAATTATTAGAAT
1 TATTCGAATTATTAGAAT
* *
49923360 TATTCGAGTTATTTGAAT
1 TATTCGAATTATTAGAAT
49923378 T
1 T
49923379 CGAAAACTCA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.32, C:0.05, G:0.14, T:0.49
Consensus pattern (18 bp):
TATTCGAATTATTAGAAT
Found at i:49937372 original size:42 final size:41
Alignment explanation
Indices: 49937317--49937527 Score: 287
Period size: 43 Copynumber: 5.0 Consensus size: 41
49937307 GCGTTTACAG
*
49937317 AAAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGTTT
1 AAAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTT
*
49937358 AAAAAAAGATGCCGCTAAAGATCATGTTCTTTAGCGGCGCTT
1 AAAAAAA-ACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTT
* * *
49937400 AACAAAAAACGCCGCTAAAGAACATGGTCTTCAGCGGCGCTT
1 AA-AAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTT
*
49937442 AAAAGAAAAACGCCGCTAAAGATCATGTTCTTTAGTGGCGCTT
1 -AAA-AAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTT
* * *
49937485 GGTAAAAAAACGCCGCTATAGATCATGTTCTTTAGCAGCGCTT
1 --AAAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTT
49937528 TCATTACGAA
Statistics
Matches: 150, Mismatches: 15, Indels: 8
0.87 0.09 0.05
Matches are distributed among these distances:
41 7 0.05
42 65 0.43
43 76 0.51
44 2 0.01
ACGTcount: A:0.34, C:0.21, G:0.21, T:0.25
Consensus pattern (41 bp):
AAAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTT
Found at i:49937462 original size:43 final size:42
Alignment explanation
Indices: 49937317--49937527 Score: 296
Period size: 42 Copynumber: 5.0 Consensus size: 42
49937307 GCGTTTACAG
*
49937317 AAAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGTTTA
1 AAAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTA
* *
49937359 AAAAAAGATGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTA
1 AAAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTA
* * * *
49937401 ACAAAAAACGCCGCTAAAGAACATGGTCTTCAGCGGCGCTTA
1 AAAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTA
* *
49937443 AAAGAAAAACGCCGCTAAAGATCATGTTCTTTAGTGGCGCTTGG
1 AAA-AAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTT-A
* * *
49937487 TAAAAAAACGCCGCTATAGATCATGTTCTTTAGCAGCGCTT
1 AAAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTT
49937528 TCATTACGAA
Statistics
Matches: 148, Mismatches: 19, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
42 77 0.52
43 69 0.47
44 2 0.01
ACGTcount: A:0.34, C:0.21, G:0.21, T:0.25
Consensus pattern (42 bp):
AAAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTA
Found at i:49937549 original size:16 final size:16
Alignment explanation
Indices: 49937525--49937557 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
49937515 TTTAGCAGCG
49937525 CTTTCATTACGAACGC
1 CTTTCATTACGAACGC
*
49937541 CTTTTATTACGAACGC
1 CTTTCATTACGAACGC
49937557 C
1 C
49937558 GCGAAAAGTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.24, C:0.30, G:0.12, T:0.33
Consensus pattern (16 bp):
CTTTCATTACGAACGC
Found at i:49943513 original size:25 final size:25
Alignment explanation
Indices: 49943482--49943788 Score: 179
Period size: 25 Copynumber: 12.1 Consensus size: 25
49943472 TGATATATAT
* *
49943482 TTATGTATTAAGTAAATTATATAAG
1 TTATGTATTAAGTAAGTTATGTAAG
49943507 TTATGTACGTGT-A-TAAGTTATGTAAG
1 TTATGTA--T-TAAGTAAGTTATGTAAG
*
49943533 TTATGTATTAAGTAAGCTATGTAAG
1 TTATGTATTAAGTAAGTTATGTAAG
* *
49943558 TTGTGTATTATGTAAGTTATGTAAG
1 TTATGTATTAAGTAAGTTATGTAAG
* * *
49943583 TTAT-CA--AAGTAA-TGTATGTTAT
1 TTATGTATTAAGTAAGT-TATGTAAG
* *
49943605 TTAAGT-TGTAAGTTA-TTATGT-A-
1 TTATGTAT-TAAGTAAGTTATGTAAG
*
49943627 TTATGTAAGTTATGTAAGTTATGTAAG
1 TTATGT-A-TTAAGTAAGTTATGTAAG
* *
49943654 TTAAATGTATTATGTAGGTTATGTAAG
1 TT--ATGTATTAAGTAAGTTATGTAAG
* * **
49943681 TTGTGTAAGATATTTAAGTTATGTAAG
1 TTATGT-A-TTAAGTAAGTTATGTAAG
* *
49943708 TTTTGTATTATGTAAGTTATGTAAG
1 TTATGTATTAAGTAAGTTATGTAAG
*
49943733 TTATGTATGCTATGT-A-TTATGTAAG
1 TTATGTAT--TAAGTAAGTTATGTAAG
* *
49943758 TTGTCATGTTATTACGTAAGTTATGCAAG
1 -T-T-ATG-TATTAAGTAAGTTATGTAAG
49943787 TT
1 TT
49943789 TATATATAAG
Statistics
Matches: 226, Mismatches: 28, Indels: 54
0.73 0.09 0.18
Matches are distributed among these distances:
21 1 0.00
22 19 0.08
23 2 0.01
24 13 0.06
25 92 0.41
26 23 0.10
27 54 0.24
28 7 0.03
29 15 0.07
ACGTcount: A:0.32, C:0.02, G:0.20, T:0.46
Consensus pattern (25 bp):
TTATGTATTAAGTAAGTTATGTAAG
Found at i:49943537 original size:9 final size:9
Alignment explanation
Indices: 49943493--49943759 Score: 213
Period size: 9 Copynumber: 30.8 Consensus size: 9
49943483 TATGTATTAA
*
49943493 GTAAATTAT
1 GTAAGTTAT
*
49943502 ATAAGTTAT
1 GTAAGTTAT
*
49943511 GTACGTGTA-
1 GTAAGT-TAT
49943520 -TAAGTTAT
1 GTAAGTTAT
49943528 GTAAGTTAT
1 GTAAGTTAT
*
49943537 GT-A-TTAA
1 GTAAGTTAT
*
49943544 GTAAGCTAT
1 GTAAGTTAT
*
49943553 GTAAGTTGT
1 GTAAGTTAT
49943562 GT-A-TTAT
1 GTAAGTTAT
49943569 GTAAGTTAT
1 GTAAGTTAT
49943578 GTAAGTTAT
1 GTAAGTTAT
** *
49943587 CAAAGTAAT
1 GTAAGTTAT
*
49943596 GTATGTTAT
1 GTAAGTTAT
*
49943605 TTAAG-T-T
1 GTAAGTTAT
49943612 GTAAGTTAT
1 GTAAGTTAT
*
49943621 -TATGTATTAT
1 GTAAG--TTAT
49943631 GTAAGTTAT
1 GTAAGTTAT
49943640 GTAAGTTAT
1 GTAAGTTAT
49943649 GTAAGTTAAAT
1 GTAAGTT--AT
49943660 GT-A-TTAT
1 GTAAGTTAT
*
49943667 GTAGGTTAT
1 GTAAGTTAT
*
49943676 GTAAGTTGT
1 GTAAGTTAT
*
49943685 GTAAGATAT
1 GTAAGTTAT
*
49943694 TTAAGTTAT
1 GTAAGTTAT
*
49943703 GTAAGTTTT
1 GTAAGTTAT
49943712 GT-A-TTAT
1 GTAAGTTAT
49943719 GTAAGTTAT
1 GTAAGTTAT
49943728 GTAAGTTAT
1 GTAAGTTAT
* *
49943737 GTATGCTAT
1 GTAAGTTAT
49943746 GT-A-TTAT
1 GTAAGTTAT
49943753 GTAAGTT
1 GTAAGTT
49943760 GTCATGTTAT
Statistics
Matches: 201, Mismatches: 37, Indels: 40
0.72 0.13 0.14
Matches are distributed among these distances:
7 31 0.15
8 16 0.08
9 140 0.70
10 7 0.03
11 7 0.03
ACGTcount: A:0.33, C:0.01, G:0.20, T:0.46
Consensus pattern (9 bp):
GTAAGTTAT
Found at i:49943668 original size:36 final size:36
Alignment explanation
Indices: 49943483--49943788 Score: 175
Period size: 34 Copynumber: 8.7 Consensus size: 36
49943473 GATATATATT
* * * *
49943483 TATGTATTAAGTAAATTATATAAGTTATGTACGTGTA
1 TATGTATTATGTAAGTTATGTAAGTTATGTAAGT-TA
* * *
49943520 TAAG--TTATGTAAGTTATGT-A-TTAAGTAAG--C
1 TATGTATTATGTAAGTTATGTAAGTTATGTAAGTTA
*
49943550 TATGTAAGTTGTGT-A-TTATGTAAGTTATGTAAGTTA
1 TATGT-A-TTATGTAAGTTATGTAAGTTATGTAAGTTA
* * *
49943586 TCAAAGTA--ATGTATGTTATTTAAG-T-TGTAAGTTA
1 T--ATGTATTATGTAAGTTATGTAAGTTATGTAAGTTA
49943620 TTATGTATTATGTAAGTTATGTAAGTTATGTAAGTTA
1 -TATGTATTATGTAAGTTATGTAAGTTATGTAAGTTA
* * *
49943657 AATGTATTATGTAGGTTATGTAAGTTGTGTAAG--A
1 TATGTATTATGTAAGTTATGTAAGTTATGTAAGTTA
* *
49943691 TATTTAAGTTATGTAAGTTTTGT-A-TTATGTAAG-T-
1 TATGT-A-TTATGTAAGTTATGTAAGTTATGTAAGTTA
* * *
49943725 TATGTAAGTTATGTATGCTATGT-A-TTATGTAAGTTG
1 TATGT-A-TTATGTAAGTTATGTAAGTTATGTAAGTTA
* *
49943761 TCATGTTATTACGTAAGTTATGCAAGTT
1 T-ATG-TATTATGTAAGTTATGTAAGTT
49943789 TATATATAAG
Statistics
Matches: 209, Mismatches: 34, Indels: 51
0.71 0.12 0.17
Matches are distributed among these distances:
30 3 0.01
32 6 0.03
33 13 0.06
34 67 0.32
35 31 0.15
36 65 0.31
37 18 0.09
38 6 0.03
ACGTcount: A:0.32, C:0.02, G:0.20, T:0.45
Consensus pattern (36 bp):
TATGTATTATGTAAGTTATGTAAGTTATGTAAGTTA
Found at i:49943758 original size:34 final size:34
Alignment explanation
Indices: 49943520--49943759 Score: 177
Period size: 34 Copynumber: 6.9 Consensus size: 34
49943510 TGTACGTGTA
* * *
49943520 TAAGTTATGTAAGTTATGTATTAAGTAAGCTATG
1 TAAGTTATGTATGTTATGTATTATGTAAGTTATG
* *
49943554 TAAGTTGTGTA--TTATGTAAGTTATGTAAGTTATC
1 TAAGTTATGTATGTTATGT-A-TTATGTAAGTTATG
* * * *
49943588 AAAGTAATGTATGTTATTTAAGT-TGTAAGTTAT-
1 TAAGTTATGTATGTTATGT-ATTATGTAAGTTATG
* *
49943621 TATGTATTATGTAAGTTATGTAAGTTATGTAAGTTAAATG
1 TAAG--TTATGTATGTTATGT-A-TTATGTAAGTT--ATG
* * * *
49943661 T-A-TTATGTAGGTTATGTAAGTTGTGTAAGATATT
1 TAAGTTATGTATGTTATGT-A-TTATGTAAGTTATG
* *
49943695 TAAGTTATGTAAGTTTTGTATTATGTAAGTTATG
1 TAAGTTATGTATGTTATGTATTATGTAAGTTATG
*
49943729 TAAGTTATGTATGCTATGTATTATGTAAGTT
1 TAAGTTATGTATGTTATGTATTATGTAAGTT
49943760 GTCATGTTAT
Statistics
Matches: 165, Mismatches: 28, Indels: 26
0.75 0.13 0.12
Matches are distributed among these distances:
32 6 0.04
33 3 0.02
34 81 0.49
35 17 0.10
36 47 0.28
37 8 0.05
39 2 0.01
40 1 0.01
ACGTcount: A:0.32, C:0.01, G:0.20, T:0.46
Consensus pattern (34 bp):
TAAGTTATGTATGTTATGTATTATGTAAGTTATG
Found at i:49943778 original size:79 final size:77
Alignment explanation
Indices: 49943636--49943789 Score: 188
Period size: 79 Copynumber: 1.9 Consensus size: 77
49943626 ATTATGTAAG
*
49943636 TTATGTAAGTTATGTAAGTTAAATGTATTATGTAGGTTATGTAAGTTGTGTAAGATATTTAAGTT
1 TTATGTAAGTTATGTAAGTT-AATGTATTATGTA-GTTATGTAAGTTGTGCAAGATATTTAAGTT
*
49943701 ATGTAAGTTTTGTA
64 ATGCAAGTTTTGTA
* *
49943715 TTATGTAAGTTATGTAAGTT-ATGTATGCTATGTA-TTATGTAAGTTGT-CATGTTATTACGTAA
1 TTATGTAAGTTATGTAAGTTAATGTAT--TATGTAGTTATGTAAGTTGTGCAAGATATT---TAA
49943777 GTTATGCAAGTTT
61 GTTATGCAAGTTT
49943790 ATATATAAGC
Statistics
Matches: 66, Mismatches: 4, Indels: 10
0.82 0.05 0.12
Matches are distributed among these distances:
76 6 0.09
77 19 0.29
79 41 0.62
ACGTcount: A:0.30, C:0.03, G:0.21, T:0.47
Consensus pattern (77 bp):
TTATGTAAGTTATGTAAGTTAATGTATTATGTAGTTATGTAAGTTGTGCAAGATATTTAAGTTAT
GCAAGTTTTGTA
Found at i:49943887 original size:16 final size:16
Alignment explanation
Indices: 49943866--49943915 Score: 63
Period size: 16 Copynumber: 3.4 Consensus size: 16
49943856 AAAAAATTTA
49943866 TAAGTTATGTATTATG
1 TAAGTTATGTATTATG
*
49943882 TAAGTTA---A-CATG
1 TAAGTTATGTATTATG
49943894 TAAGTTATGTATTATG
1 TAAGTTATGTATTATG
49943910 TAAGTT
1 TAAGTT
49943916 TACATATAAG
Statistics
Matches: 28, Mismatches: 2, Indels: 8
0.74 0.05 0.21
Matches are distributed among these distances:
12 10 0.36
13 1 0.04
15 1 0.04
16 16 0.57
ACGTcount: A:0.34, C:0.02, G:0.18, T:0.46
Consensus pattern (16 bp):
TAAGTTATGTATTATG
Found at i:49943897 original size:28 final size:28
Alignment explanation
Indices: 49943864--49943932 Score: 111
Period size: 28 Copynumber: 2.4 Consensus size: 28
49943854 TAAAAAAATT
49943864 TATAAGTTATGTATTATGTAAGTTAACA
1 TATAAGTTATGTATTATGTAAGTTAACA
* *
49943892 TGTAAGTTATGTATTATGTAAGTTTACA
1 TATAAGTTATGTATTATGTAAGTTAACA
49943920 TATAAGTTTATGT
1 TATAAG-TTATGT
49943933 GATAGTTATG
Statistics
Matches: 37, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
28 31 0.84
29 6 0.16
ACGTcount: A:0.35, C:0.03, G:0.16, T:0.46
Consensus pattern (28 bp):
TATAAGTTATGTATTATGTAAGTTAACA
Found at i:49944137 original size:13 final size:13
Alignment explanation
Indices: 49944119--49944283 Score: 129
Period size: 13 Copynumber: 12.5 Consensus size: 13
49944109 TAAATTTGAG
*
49944119 TAAGTAATGTATT
1 TAAGTAATATATT
*
49944132 TAAGTAACATATT
1 TAAGTAATATATT
*
49944145 TAAGTAATAAATT
1 TAAGTAATATATT
**
49944158 TAAACAA-AGT-TT
1 TAAGTAATA-TATT
*
49944170 AGTAAGTAATGTATT
1 --TAAGTAATATATT
*
49944185 TAAGTAACATATT
1 TAAGTAATATATT
*
49944198 TAAGTAATAAATT
1 TAAGTAATATATT
** *
49944211 TAACCAA-ATTTT
1 TAAGTAATATATT
*
49944223 AGTAAGTAATGTATT
1 --TAAGTAATATATT
*
49944238 TAAGTAATTTATT
1 TAAGTAATATATT
49944251 TAAGTAATATATT
1 TAAGTAATATATT
*
49944264 CAAGTAATATATT
1 TAAGTAATATATT
*
49944277 AAAGTAA
1 TAAGTAA
49944284 ATTTTAGTAA
Statistics
Matches: 118, Mismatches: 26, Indels: 16
0.74 0.16 0.10
Matches are distributed among these distances:
12 6 0.05
13 96 0.81
14 11 0.09
15 5 0.04
ACGTcount: A:0.46, C:0.04, G:0.10, T:0.40
Consensus pattern (13 bp):
TAAGTAATATATT
Found at i:49944178 original size:27 final size:26
Alignment explanation
Indices: 49944145--49944232 Score: 81
Period size: 27 Copynumber: 3.3 Consensus size: 26
49944135 GTAACATATT
49944145 TAAGTAATAAATTTAAACAAAGTTTAG
1 TAAGTAATAAATTTAAACAAA-TTTAG
** **
49944172 TAAGTAATGTATTTAAGTAACATATT--
1 TAAGTAATAAATTTAAACAA-AT-TTAG
*
49944198 TAAGTAATAAATTTAACCAAATTTTAG
1 TAAGTAATAAATTTAAACAAA-TTTAG
49944225 TAAGTAAT
1 TAAGTAAT
49944233 GTATTTAAGT
Statistics
Matches: 48, Mismatches: 8, Indels: 10
0.73 0.12 0.15
Matches are distributed among these distances:
25 3 0.06
26 17 0.35
27 25 0.52
28 3 0.06
ACGTcount: A:0.48, C:0.05, G:0.10, T:0.38
Consensus pattern (26 bp):
TAAGTAATAAATTTAAACAAATTTAG
Found at i:49944182 original size:53 final size:53
Alignment explanation
Indices: 49944117--49944259 Score: 250
Period size: 53 Copynumber: 2.7 Consensus size: 53
49944107 CTTAAATTTG
49944117 AGTAAGTAATGTATTTAAGTAACATATTTAAGTAATAAATTTAAACAAAGTTT
1 AGTAAGTAATGTATTTAAGTAACATATTTAAGTAATAAATTTAAACAAAGTTT
* *
49944170 AGTAAGTAATGTATTTAAGTAACATATTTAAGTAATAAATTTAACCAAATTTT
1 AGTAAGTAATGTATTTAAGTAACATATTTAAGTAATAAATTTAAACAAAGTTT
**
49944223 AGTAAGTAATGTATTTAAGTAATTTATTTAAGTAATA
1 AGTAAGTAATGTATTTAAGTAACATATTTAAGTAATA
49944260 TATTCAAGTA
Statistics
Matches: 86, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
53 86 1.00
ACGTcount: A:0.45, C:0.03, G:0.11, T:0.40
Consensus pattern (53 bp):
AGTAAGTAATGTATTTAAGTAACATATTTAAGTAATAAATTTAAACAAAGTTT
Found at i:49944310 original size:66 final size:66
Alignment explanation
Indices: 49944172--49944300 Score: 168
Period size: 66 Copynumber: 2.0 Consensus size: 66
49944162 CAAAGTTTAG
* * ** *
49944172 TAAGTAATGTATTTAAGTAACATATTTAAGTAATAAATTTAACCAAATTTTAGTAAGTAATGTAT
1 TAAGTAATGTATTTAAGTAACATATTCAAGTAATAAATTAAACCAAATTTTAGTAAAAAATATAT
49944237 T
66 T
* * * **
49944238 TAAGTAATTTATTTAAGTAATATATTCAAGTAATATATTAAAGTAAATTTTAGTAAAAAATAT
1 TAAGTAATGTATTTAAGTAACATATTCAAGTAATAAATTAAACCAAATTTTAGTAAAAAATAT
49944301 GCTTTAGTAA
Statistics
Matches: 53, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
66 53 1.00
ACGTcount: A:0.47, C:0.03, G:0.09, T:0.41
Consensus pattern (66 bp):
TAAGTAATGTATTTAAGTAACATATTCAAGTAATAAATTAAACCAAATTTTAGTAAAAAATATAT
T
Found at i:49944466 original size:20 final size:19
Alignment explanation
Indices: 49944434--49944485 Score: 63
Period size: 18 Copynumber: 2.8 Consensus size: 19
49944424 TTGTAAAAAT
49944434 ATATTAAAA-ATATAATAA
1 ATATTAAAATATATAATAA
*
49944452 ATATTGAAAATATATATTAA
1 ATATT-AAAATATATAATAA
*
49944472 CT-TTAAAATATATA
1 ATATTAAAATATATA
49944486 TATTAATAAG
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
18 15 0.50
19 6 0.20
20 9 0.30
ACGTcount: A:0.58, C:0.02, G:0.02, T:0.38
Consensus pattern (19 bp):
ATATTAAAATATATAATAA
Found at i:49945268 original size:15 final size:15
Alignment explanation
Indices: 49945248--49945279 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
49945238 GTGATAACAG
*
49945248 TAAATTAGTACCAAA
1 TAAATTACTACCAAA
49945263 TAAATTACTACCAAA
1 TAAATTACTACCAAA
49945278 TA
1 TA
49945280 CTTCAACCCT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.53, C:0.16, G:0.03, T:0.28
Consensus pattern (15 bp):
TAAATTACTACCAAA
Found at i:49946906 original size:147 final size:145
Alignment explanation
Indices: 49946727--49947031 Score: 339
Period size: 147 Copynumber: 2.1 Consensus size: 145
49946717 GTTTTAACCG
* * * *
49946727 AAGCGCCACAAACTATAAATCAAAACGCAGTCGCTT-CATCAACACTTACCTCAAACCCGTGGCG
1 AAGCGCCACTAACTATAAATCAAAACGAAGTCGCTTCCCT-AACACTTAACTCAAACCCGTGGCG
* ** * * *
49946791 TTTTCGCAAAAACGCCACTAATAACATTTACAAAACGGCAACATTTCTATAAATGATAGA-ACAA
65 TTTTCACAAAAACGCCACTAATAACATAGACAAAACGACAACATTTCAATAAA-CATA-ATAC-A
49946855 TTTTACGGCATTTTGA-GTA
127 TTTTACGGCA-TTTGATGTA
* * * * * **
49946874 AAGCGCCACTAACTGTAAGCTC-AAACGAAGTCGTTTCCCTAACAGTTAACTCAAGCTTGTGGCG
1 AAGCGCCACTAACTATAA-ATCAAAACGAAGTCGCTTCCCTAACACTTAACTCAAACCCGTGGCG
* *
49946938 TTTTCATAAAAACGCCACTAATACCATAGACAAAACGACAACATTTCAATAAACATAATTACATT
65 TTTTCACAAAAACGCCACTAATAACATAGACAAAACGACAACATTTCAATAAACATAA-TACATT
*
49947003 TTGCGGCATTTGATGTA
129 TTACGGCATTTGATGTA
49947020 AAGCGCCACTAA
1 AAGCGCCACTAA
49947032 TAGCAACGTA
Statistics
Matches: 133, Mismatches: 20, Indels: 11
0.81 0.12 0.07
Matches are distributed among these distances:
145 6 0.05
146 28 0.21
147 95 0.71
148 4 0.03
ACGTcount: A:0.37, C:0.24, G:0.14, T:0.25
Consensus pattern (145 bp):
AAGCGCCACTAACTATAAATCAAAACGAAGTCGCTTCCCTAACACTTAACTCAAACCCGTGGCGT
TTTCACAAAAACGCCACTAATAACATAGACAAAACGACAACATTTCAATAAACATAATACATTTT
ACGGCATTTGATGTA
Found at i:49947775 original size:13 final size:14
Alignment explanation
Indices: 49947750--49947793 Score: 63
Period size: 13 Copynumber: 3.1 Consensus size: 14
49947740 CATAAATTCT
49947750 AAACCTTAAACCCCA
1 AAACC-TAAACCCCA
49947765 AAACC-AAACCCCA
1 AAACCTAAACCCCA
*
49947778 AACCCTAAACCCCA
1 AAACCTAAACCCCA
49947792 AA
1 AA
49947794 TCCCAAACCA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
13 12 0.44
14 10 0.37
15 5 0.19
ACGTcount: A:0.50, C:0.43, G:0.00, T:0.07
Consensus pattern (14 bp):
AAACCTAAACCCCA
Found at i:49947778 original size:7 final size:7
Alignment explanation
Indices: 49947757--49947802 Score: 58
Period size: 7 Copynumber: 6.7 Consensus size: 7
49947747 TCTAAACCTT
49947757 AAACCCC
1 AAACCCC
*
49947764 AAA-ACC
1 AAACCCC
49947770 AAACCCC
1 AAACCCC
*
49947777 AAACCCT
1 AAACCCC
49947784 AAACCCC
1 AAACCCC
*
49947791 AAATCCC
1 AAACCCC
49947798 AAACC
1 AAACC
49947803 ATAATATTCC
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
6 5 0.16
7 27 0.84
ACGTcount: A:0.48, C:0.48, G:0.00, T:0.04
Consensus pattern (7 bp):
AAACCCC
Found at i:49947788 original size:27 final size:28
Alignment explanation
Indices: 49947750--49947802 Score: 81
Period size: 27 Copynumber: 1.9 Consensus size: 28
49947740 CATAAATTCT
*
49947750 AAACCTTAAACCCCAAA-ACCAAACCCC
1 AAACCCTAAACCCCAAATACCAAACCCC
*
49947777 AAACCCTAAACCCCAAATCCCAAACC
1 AAACCCTAAACCCCAAATACCAAACC
49947803 ATAATATTCC
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
27 16 0.70
28 7 0.30
ACGTcount: A:0.47, C:0.45, G:0.00, T:0.08
Consensus pattern (28 bp):
AAACCCTAAACCCCAAATACCAAACCCC
Found at i:49947789 original size:14 final size:13
Alignment explanation
Indices: 49947757--49947802 Score: 65
Period size: 14 Copynumber: 3.4 Consensus size: 13
49947747 TCTAAACCTT
*
49947757 AAACCCCAAAACC
1 AAACCCCAAACCC
49947770 AAACCCCAAACCC
1 AAACCCCAAACCC
49947783 TAAACCCCAAATCCC
1 -AAACCCCAAA-CCC
49947798 AAACC
1 AAACC
49947803 ATAATATTCC
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
13 12 0.40
14 15 0.50
15 3 0.10
ACGTcount: A:0.48, C:0.48, G:0.00, T:0.04
Consensus pattern (13 bp):
AAACCCCAAACCC
Found at i:49948176 original size:14 final size:14
Alignment explanation
Indices: 49948165--49948204 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
49948155 TTTTAACCCT
49948165 TAACCCCAAACCAC
1 TAACCCCAAACCAC
* *
49948179 TAACCCCTAACTAC
1 TAACCCCAAACCAC
*
49948193 TAACCCTAAACC
1 TAACCCCAAACC
49948205 TTATTTAATA
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.40, C:0.45, G:0.00, T:0.15
Consensus pattern (14 bp):
TAACCCCAAACCAC
Found at i:49948267 original size:20 final size:20
Alignment explanation
Indices: 49948239--49948279 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
49948229 ATTAATTAAT
*
49948239 CAAAACCCTAAATCCTAACC
1 CAAAACCCTAAACCCTAACC
* *
49948259 CAAATCCCTAACCCCTAACC
1 CAAAACCCTAAACCCTAACC
49948279 C
1 C
49948280 TTAAACCTTA
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:0.39, C:0.46, G:0.00, T:0.15
Consensus pattern (20 bp):
CAAAACCCTAAACCCTAACC
Found at i:49948278 original size:81 final size:81
Alignment explanation
Indices: 49948183--49948339 Score: 228
Period size: 81 Copynumber: 1.9 Consensus size: 81
49948173 AACCACTAAC
* * *
49948183 CCCTAACTACTAACCC-TAAACCTTATTTAATATACAAATTAAAA-ATATTAATTAATCAAAACC
1 CCCTAACCACTAACCCTTAAACCTTATTTAATA-A-AAATTAAAATACACTAATTAATCAAAACC
49948246 CTAAATCCTAACCCAAAT
64 CTAAATCCTAACCCAAAT
* * *
49948264 CCCTAACCCCTAACCCTTAAACCTTATTTCATAAAAATTAAAATACACTAATTAATCTAAACCCT
1 CCCTAACCACTAACCCTTAAACCTTATTTAATAAAAATTAAAATACACTAATTAATCAAAACCCT
49948329 AAATCCTAACC
66 AAATCCTAACC
49948340 TGACACTAAA
Statistics
Matches: 68, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
80 9 0.13
81 44 0.65
82 15 0.22
ACGTcount: A:0.45, C:0.27, G:0.00, T:0.28
Consensus pattern (81 bp):
CCCTAACCACTAACCCTTAAACCTTATTTAATAAAAATTAAAATACACTAATTAATCAAAACCCT
AAATCCTAACCCAAAT
Found at i:49948431 original size:14 final size:15
Alignment explanation
Indices: 49948412--49948444 Score: 59
Period size: 14 Copynumber: 2.3 Consensus size: 15
49948402 CTTAAACCAG
49948412 AATCCCTAA-TCCAT
1 AATCCCTAATTCCAT
49948426 AATCCCTAATTCCAT
1 AATCCCTAATTCCAT
49948441 AATC
1 AATC
49948445 TATACGTTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 9 0.50
15 9 0.50
ACGTcount: A:0.36, C:0.33, G:0.00, T:0.30
Consensus pattern (15 bp):
AATCCCTAATTCCAT
Found at i:49949130 original size:113 final size:115
Alignment explanation
Indices: 49948807--49949403 Score: 610
Period size: 114 Copynumber: 5.3 Consensus size: 115
49948797 AAAAGTTTAG
* * * * *
49948807 AAAACGACGCCGTTGGGCTTAGGT-TTTTTGC-GACGC-TTCAACAAAAACGCCGCTAAAGCCCT
1 AAAACGGCGTCGTTGGGCTTAGGTATTTTTTCTGGCGCTTTC-TCAAAAACGCCGCTAAAGCCCT
* * * * * *
49948869 AAGCATTAGCGGCGCATT-C-TGAAAACGCCGCTAAAGCCCACGAATTG-TCAG
65 GAGCATTAGCGGCGC-TTACTTAAAAACGCCACTAAATCCC-CGAA-AGCTCAA
* * * *
49948920 AAAATGGTGTAGTTGGGCTTA--TTTTTTGTTGC-GGCGCTTTCTCAAAAACGCCGCTAAAGCCC
1 AAAACGGCGTCGTTGGGCTTAGGTATTTT-TT-CTGGCGCTTTCTCAAAAACGCCGCTAAAGCCC
* * *
49948982 TGAGCATTACCGGCGCTTACGTAAAAACGTCACTAAATCCCCGAAAGCTCAA
64 TGAGCATTAGCGGCGCTTACTTAAAAACGCCACTAAATCCCCGAAAGCTCAA
* * * * **
49949034 AAAACGGCGTCGTTGGGCTTTGGT-TTTTCTCTGGTGCTTTCTCAAAAATGCTACTAAAG-CCTG
1 AAAACGGCGTCGTTGGGCTTAGGTATTTTTTCTGGCGCTTTCTCAAAAACGCCGCTAAAGCCCTG
49949097 AGCATTAGCGGCGCTTACTTAAAAACGCCACTAAATCCCCGAAAGCTCAA
66 AGCATTAGCGGCGCTTACTTAAAAACGCCACTAAATCCCCGAAAGCTCAA
* * *
49949147 AAAACGACGTCGTTGGACTTAGGTATTTTTTC-GGCGCTTTCTCAAAAACGCCCCTAAAGCCCTG
1 AAAACGGCGTCGTTGGGCTTAGGTATTTTTTCTGGCGCTTTCTCAAAAACGCCGCTAAAGCCCTG
* * * *
49949211 AGCATTAGTGGCGTTTACTAAAAAACGCCACTAAATCCCCGAAAGCTCAG
66 AGCATTAGCGGCGCTTACTTAAAAACGCCACTAAATCCCCGAAAGCTCAA
* * * ** * *
49949261 AAAACAGCGTCGTTGGGCTTTA-CT-TTTTTTGTGGCGCTTTCTTGAAAACGCCGCGAAAGCCTT
1 AAAACGGCGTCGTTGGGC-TTAGGTATTTTTTCTGGCGCTTTCTCAAAAACGCCGCTAAAGCCCT
* ** * ***
49949324 GAGCATTAGCGGCGCTTTCTTAAAAATACCGCTAAATCCCCGAAAGCTTGG
65 GAGCATTAGCGGCGCTTACTTAAAAACGCCACTAAATCCCCGAAAGCTCAA
* *
49949375 AAAACGGTGTCATTGGGCTTAGGTATTTT
1 AAAACGGCGTCGTTGGGCTTAGGTATTTT
49949404 GCGGCGCTTT
Statistics
Matches: 405, Mismatches: 63, Indels: 30
0.81 0.13 0.06
Matches are distributed among these distances:
111 1 0.00
112 4 0.01
113 125 0.31
114 244 0.60
115 30 0.07
116 1 0.00
ACGTcount: A:0.28, C:0.25, G:0.22, T:0.26
Consensus pattern (115 bp):
AAAACGGCGTCGTTGGGCTTAGGTATTTTTTCTGGCGCTTTCTCAAAAACGCCGCTAAAGCCCTG
AGCATTAGCGGCGCTTACTTAAAAACGCCACTAAATCCCCGAAAGCTCAA
Found at i:49949212 original size:227 final size:227
Alignment explanation
Indices: 49948948--49949413 Score: 630
Period size: 227 Copynumber: 2.1 Consensus size: 227
49948938 TTATTTTTTG
* *
49948948 TTGCGGCGCTTTCTCAAAAACGCCGCTAAAGCCCTGAGCATTACCGGCGCTTACGT-AAAAACGT
1 TTGCGGCGCTTTCTCAAAAACGCCCCTAAAGCCCTGAGCATTACCGGCGCTTAC-TAAAAAACGC
* ** *
49949012 CACTAAATCCCCGAAAGCTCAAAAAACGGCGTCGTTGGGCTTTGGTTTTTCTCTGGTGCTTTCTC
65 CACTAAATCCCCGAAAGCTCAAAAAACAGCGTCGTTGGGCTTTACTTTTTCTCTGGCGCTTTCTC
* * * *
49949077 AAAAATGCTACTAAAGCC-TGAGCATTAGCGGCGCTTACTTAAAAACGCCACTAAATCCCCGAAA
130 AAAAACGCCACGAAAGCCTTGAGCATTAGCGGCGCTTACTTAAAAACACCACTAAATCCCCGAAA
*
49949141 GCTCAAAAAACGACGTCGTTGGACTTAGGTATTT
195 GCTCAAAAAACGACGTCATTGGACTTAGGTA-TT
* ** *
49949175 TTTCGGCGCTTTCTCAAAAACGCCCCTAAAGCCCTGAGCATTAGTGGCGTTTACTAAAAAACGCC
1 TTGCGGCGCTTTCTCAAAAACGCCCCTAAAGCCCTGAGCATTACCGGCGCTTACTAAAAAACGCC
* * * **
49949240 ACTAAATCCCCGAAAGCTCAGAAAACAGCGTCGTTGGGCTTTACTTTTTTTGTGGCGCTTTCTTG
66 ACTAAATCCCCGAAAGCTCAAAAAACAGCGTCGTTGGGCTTTACTTTTTCTCTGGCGCTTTCTCA
* * * *
49949305 AAAACGCCGCGAAAGCCTTGAGCATTAGCGGCGCTTTCTTAAAAATACCGCTAAATCCCCGAAAG
131 AAAACGCCACGAAAGCCTTGAGCATTAGCGGCGCTTACTTAAAAACACCACTAAATCCCCGAAAG
*** ** *
49949370 CTTGGAAAACGGTGTCATTGGGCTTAGGTATT
196 CTCAAAAAACGACGTCATTGGACTTAGGTATT
49949402 TTGCGGCGCTTT
1 TTGCGGCGCTTT
49949414 ATGGAAACGC
Statistics
Matches: 206, Mismatches: 31, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
226 1 0.00
227 139 0.67
228 66 0.32
ACGTcount: A:0.27, C:0.25, G:0.21, T:0.26
Consensus pattern (227 bp):
TTGCGGCGCTTTCTCAAAAACGCCCCTAAAGCCCTGAGCATTACCGGCGCTTACTAAAAAACGCC
ACTAAATCCCCGAAAGCTCAAAAAACAGCGTCGTTGGGCTTTACTTTTTCTCTGGCGCTTTCTCA
AAAACGCCACGAAAGCCTTGAGCATTAGCGGCGCTTACTTAAAAACACCACTAAATCCCCGAAAG
CTCAAAAAACGACGTCATTGGACTTAGGTATT
Found at i:49953688 original size:5 final size:5
Alignment explanation
Indices: 49953678--49953728 Score: 68
Period size: 5 Copynumber: 10.2 Consensus size: 5
49953668 ATATATTAAT
* *
49953678 TTCAA TTCAA TTCAA TTCAA TTCAA TTCAA -TCAA TTTTAA ATCAA TTCAA
1 TTCAA TTCAA TTCAA TTCAA TTCAA TTCAA TTCAA -TTCAA TTCAA TTCAA
49953728 T
1 T
49953729 AATCAAAGTG
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
4 4 0.10
5 33 0.82
6 3 0.08
ACGTcount: A:0.41, C:0.18, G:0.00, T:0.41
Consensus pattern (5 bp):
TTCAA
Found at i:49958508 original size:16 final size:16
Alignment explanation
Indices: 49958485--49958529 Score: 56
Period size: 16 Copynumber: 2.8 Consensus size: 16
49958475 ATTTCTAAAT
49958485 AAATAATTATTTTA-A
1 AAATAATTATTTTATA
**
49958500 AAATAAATTAAATTATA
1 AAAT-AATTATTTTATA
49958517 AAATAATTATTTT
1 AAATAATTATTTT
49958530 TAATTGTTAA
Statistics
Matches: 24, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
15 4 0.17
16 15 0.62
17 5 0.21
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (16 bp):
AAATAATTATTTTATA
Found at i:49964950 original size:44 final size:44
Alignment explanation
Indices: 49964871--49965440 Score: 219
Period size: 44 Copynumber: 12.6 Consensus size: 44
49964861 CATAGCAAAC
* * * * *
49964871 CTTATCTCCCTGAAGTTGCAGTGGAGTAGGTTGAAGTTACTAGT
1 CTTATCTCCTTGAAGTTGCAGTGGAGCAGATTGAAGATACAAGT
*
49964915 CTTATCTCCTTGAAGTTGCAGTGGAGCAGAATGAAGATAGCGAA-T
1 CTTATCTCCTTGAAGTTGCAGTGGAGCAGATTGAAGATA-C-AAGT
* * * *
49964960 CTTATTTTCC-TGAAGTTGTAGTGGAACAGATTGAAGCTATAAATTGCAGAT
1 CTTA-TCTCCTTGAAGTTGCAGTGGAGCAGATTGAAG--ATACA----AG-T
* * **
49965011 CTTATCT-CTCTGAAGTTGCAGTAGAGCAGA-T---CATAGCAAAC
1 CTTATCTCCT-TGAAGTTGCAGTGGAGCAGATTGAAGATA-CAAGT
* *
49965052 CTTATCT-CTCTGAAGTTGCAGTAGAGCAGGTTGAAGATACAAGT
1 CTTATCTCCT-TGAAGTTGCAGTGGAGCAGATTGAAGATACAAGT
* *
49965096 CTTATCTCTTTGAAGTTGCAGTGGAGCAGACTGAAGATAGCGAA-T
1 CTTATCTCCTTGAAGTTGCAGTGGAGCAGATTGAAGATA-C-AAGT
* * * * *
49965141 CTTAAT-TCCCTGAAGTTGTAGTGGAACTGATTGAAGCTATAAATTGTAGAT
1 CTT-ATCTCCTTGAAGTTGCAGTGGAGCAGATTGAAG--ATACA----AG-T
** * * * *
49965192 CTTATCT-CTCTGAAGTTGCAGCAGAACAGA-T-CATAT-CAAAT
1 CTTATCTCCT-TGAAGTTGCAGTGGAGCAGATTGAAGATACAAGT
* * * * **
49965233 CTTATCT-CTCTGAAGTTGCAGTAGAGTAGA-T-CATAT-CAAAC
1 CTTATCTCCT-TGAAGTTGCAGTGGAGCAGATTGAAGATACAAGT
* * * * * * *
49965274 CTTATCTCCCTAAAGTTGTAGTGGAACAGGTTAAAAATAAACCAA-T
1 CTTATCTCCTTGAAGTTGCAGTGGAGCAGATTGAAGAT--A-CAAGT
* * *
49965320 CTTATCTCCCTGAAGGTGCAGTGGAGCAGATTGAAGACAGGATACAAAT
1 CTTATCTCCTTGAAGTTGCAGTGGAGCAGATT---GA-A-GATACAAGT
* * * **
49965369 CTTATCT-CTCTGAAGTTGTAGTGGAGCAGATTAAAGACACAAAC
1 CTTATCTCCT-TGAAGTTGCAGTGGAGCAGATTGAAGATACAAGT
*
49965413 CTTATCTTCC-TGAAGTTGTAGTGGAGCA
1 CTTATC-TCCTTGAAGTTGCAGTGGAGCA
49965441 AATTAAAGCT
Statistics
Matches: 408, Mismatches: 70, Indels: 96
0.71 0.12 0.17
Matches are distributed among these distances:
41 88 0.22
42 5 0.01
43 3 0.01
44 101 0.25
45 69 0.17
46 40 0.10
47 11 0.03
48 4 0.01
49 34 0.08
50 8 0.02
51 45 0.11
ACGTcount: A:0.31, C:0.17, G:0.22, T:0.30
Consensus pattern (44 bp):
CTTATCTCCTTGAAGTTGCAGTGGAGCAGATTGAAGATACAAGT
Found at i:49964983 original size:89 final size:88
Alignment explanation
Indices: 49964879--49965165 Score: 287
Period size: 89 Copynumber: 3.2 Consensus size: 88
49964869 ACCTTATCTC
*
49964879 CCTGAAGTTGCAGTGGAGTAGGTTGAAGTTACTAGTCTTATCTCCTTGAAGTTGCAGTGGAGCAG
1 CCTGAAGTTGCAGTGGAGCAGGTTGAAGTTACTAGTCTTATCTCCTTGAAGTTGCAGTGGAGCAG
49964944 AATGAAGATAGCGAATCTTATTTT
66 AATGAAGATAGCGAATCTTA-TTT
* * * *
49964968 CCTGAAGTTGTAGTGGAACAGATTGAAGCTATAAATTGCAGATCTTATCT-CTCTGAAGTTGCAG
1 CCTGAAGTTGCAGTGGAGCAGGTTGAAG-T-T--ACT--AG-TCTTATCTCCT-TGAAGTTGCAG
* * * * *
49965032 TAGAGCAG-AT---CATAGCAAACCTTATCT
58 TGGAGCAGAATGAAGATAGCGAATCTTATTT
* * * *
49965059 CTCTGAAGTTGCAGTAGAGCAGGTTGAAGATACAAGTCTTATCTCTTTGAAGTTGCAGTGGAGCA
1 C-CTGAAGTTGCAGTGGAGCAGGTTGAAGTTACTAGTCTTATCTCCTTGAAGTTGCAGTGGAGCA
* *
49965124 GACTGAAGATAGCGAATCTTAATTC
65 GAATGAAGATAGCGAATCTT-ATTT
*
49965149 CCTGAAGTTGTAGTGGA
1 CCTGAAGTTGCAGTGGA
49965166 ACTGATTGAA
Statistics
Matches: 156, Mismatches: 27, Indels: 30
0.73 0.13 0.14
Matches are distributed among these distances:
85 26 0.17
86 4 0.03
88 1 0.01
89 48 0.31
90 5 0.03
91 4 0.03
92 34 0.22
93 2 0.01
95 6 0.04
96 26 0.17
ACGTcount: A:0.29, C:0.15, G:0.25, T:0.30
Consensus pattern (88 bp):
CCTGAAGTTGCAGTGGAGCAGGTTGAAGTTACTAGTCTTATCTCCTTGAAGTTGCAGTGGAGCAG
AATGAAGATAGCGAATCTTATTT
Found at i:49965041 original size:51 final size:47
Alignment explanation
Indices: 49964914--49965257 Score: 180
Period size: 45 Copynumber: 7.6 Consensus size: 47
49964904 AAGTTACTAG
* * *
49964914 TCTTATCTC-CTTGAAGTTGCAGTGGAGCAGAATGAAG-AT-AGC-GAA
1 TCTTATCTCTC-TGAAGTTGCAGTAGAACAGATTGAAGCATAAGCAG-A
* * *
49964959 TCTTAT-TTTCCTGAAGTTGTAGTGGAACAGATTGAAGCTATAAATTGCAGA
1 TCTTATCTCT-CTGAAGTTGCAGTAGAACAGATTGAAGC-AT-AA--GCAGA
* *
49965010 TCTTATCTCTCTGAAGTTGCAGTAGAGCAGA-T----CAT-AGCAAA
1 TCTTATCTCTCTGAAGTTGCAGTAGAACAGATTGAAGCATAAGCAGA
* * *
49965051 CCTTATCTCTCTGAAGTTGCAGTAGAGCAGGTTGAAG-AT-A-CA-A
1 TCTTATCTCTCTGAAGTTGCAGTAGAACAGATTGAAGCATAAGCAGA
* * * *
49965094 GTCTTATCTCTTTGAAGTTGCAGTGGAGCAGACTGAAG-AT-AGC-GAA
1 -TCTTATCTCTCTGAAGTTGCAGTAGAACAGATTGAAGCATAAGCAG-A
* * * * *
49965140 TCTTAAT-TCCCTGAAGTTGTAGTGGAACTGATTGAAGCTATAAATTGTAGA
1 TCTT-ATCTCTCTGAAGTTGCAGTAGAACAGATTGAAGC-AT-AA--GCAGA
* * *
49965191 TCTTATCTCTCTGAAGTTGCAGCAGAACAGA-T----CAT-ATCAAA
1 TCTTATCTCTCTGAAGTTGCAGTAGAACAGATTGAAGCATAAGCAGA
49965232 TCTTATCTCTCTGAAGTTGCAGTAGA
1 TCTTATCTCTCTGAAGTTGCAGTAGA
49965258 GTAGATCATA
Statistics
Matches: 239, Mismatches: 32, Indels: 60
0.72 0.10 0.18
Matches are distributed among these distances:
41 60 0.25
42 1 0.00
43 3 0.01
44 38 0.16
45 65 0.27
46 6 0.03
47 4 0.02
49 2 0.01
50 4 0.02
51 52 0.22
52 4 0.02
ACGTcount: A:0.31, C:0.16, G:0.22, T:0.31
Consensus pattern (47 bp):
TCTTATCTCTCTGAAGTTGCAGTAGAACAGATTGAAGCATAAGCAGA
Found at i:49965068 original size:41 final size:41
Alignment explanation
Indices: 49965009--49965291 Score: 174
Period size: 41 Copynumber: 6.5 Consensus size: 41
49964999 TAAATTGCAG
49965009 ATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCATAGCAA
1 ATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCATAGCAA
* * *
49965050 ACCTTATCTCTCTGAAGTTGCAGTAGAGCAGGTTGA-AGATACAA
1 ATCTTATCTCTCTGAAGTTGCAGTAGAGCA-GATCATAG---CAA
* * * * *
49965094 GTCTTATCTCTTTGAAGTTGCAGTGGAGCAGACTGAAGATAGCGA
1 ATCTTATCTCTCTGAAGTTGCAGTAGAGCAGA-T---CATAGCAA
* * * * * * *
49965139 ATCTTAAT-TCCCTGAAGTTGTAGTGGAACTGATTGAAGCTATAAATTGTAG
1 ATCTT-ATCTCTCTGAAGTTGCAGT---A--GA--GCAG--AT-CATAGCAA
* * *
49965190 ATCTTATCTCTCTGAAGTTGCAGCAGAACAGATCATATCAA
1 ATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCATAGCAA
* *
49965231 ATCTTATCTCTCTGAAGTTGCAGTAGAGTAGATCATATCAA
1 ATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCATAGCAA
* * *
49965272 ACCTTATCTCCCTAAAGTTG
1 ATCTTATCTCTCTGAAGTTG
49965292 TAGTGGAACA
Statistics
Matches: 186, Mismatches: 36, Indels: 40
0.71 0.14 0.15
Matches are distributed among these distances:
41 89 0.48
42 5 0.03
43 1 0.01
44 32 0.17
45 19 0.10
46 4 0.02
47 2 0.01
48 3 0.02
50 4 0.02
51 22 0.12
52 3 0.02
53 1 0.01
54 1 0.01
ACGTcount: A:0.31, C:0.18, G:0.20, T:0.31
Consensus pattern (41 bp):
ATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCATAGCAA
Found at i:49965161 original size:181 final size:181
Alignment explanation
Indices: 49964857--49965258 Score: 669
Period size: 181 Copynumber: 2.2 Consensus size: 181
49964847 GATGGACTGA
* * * * *
49964857 AGATCATAGCAAACCTTATCTCCCTGAAGTTGCAGTGGAGTAGGTTGAAGTTACTAGTCTTATCT
1 AGATCATAGCAAACCTTATCTCTCTGAAGTTGCAGTAGAGCAGGTTGAAGATACAAGTCTTATCT
* *
49964922 CCTTGAAGTTGCAGTGGAGCAGAATGAAGATAGCGAATCTTATTTTCCTGAAGTTGTAGTGGAAC
66 CCTTGAAGTTGCAGTGGAGCAGAATGAAGATAGCGAATCTTAATTCCCTGAAGTTGTAGTGGAAC
* *
49964987 AGATTGAAGCTATAAATTGCAGATCTTATCTCTCTGAAGTTGCAGTAGAGC
131 AGATTGAAGCTATAAATTGCAGATCTTATCTCTCTGAAGTTGCAGCAGAAC
49965038 AGATCATAGCAAACCTTATCTCTCTGAAGTTGCAGTAGAGCAGGTTGAAGATACAAGTCTTATCT
1 AGATCATAGCAAACCTTATCTCTCTGAAGTTGCAGTAGAGCAGGTTGAAGATACAAGTCTTATCT
* *
49965103 CTTTGAAGTTGCAGTGGAGCAGACTGAAGATAGCGAATCTTAATTCCCTGAAGTTGTAGTGGAAC
66 CCTTGAAGTTGCAGTGGAGCAGAATGAAGATAGCGAATCTTAATTCCCTGAAGTTGTAGTGGAAC
* *
49965168 TGATTGAAGCTATAAATTGTAGATCTTATCTCTCTGAAGTTGCAGCAGAAC
131 AGATTGAAGCTATAAATTGCAGATCTTATCTCTCTGAAGTTGCAGCAGAAC
* *
49965219 AGATCATATCAAATCTTATCTCTCTGAAGTTGCAGTAGAG
1 AGATCATAGCAAACCTTATCTCTCTGAAGTTGCAGTAGAG
49965259 TAGATCATAT
Statistics
Matches: 206, Mismatches: 15, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
181 206 1.00
ACGTcount: A:0.30, C:0.16, G:0.23, T:0.31
Consensus pattern (181 bp):
AGATCATAGCAAACCTTATCTCTCTGAAGTTGCAGTAGAGCAGGTTGAAGATACAAGTCTTATCT
CCTTGAAGTTGCAGTGGAGCAGAATGAAGATAGCGAATCTTAATTCCCTGAAGTTGTAGTGGAAC
AGATTGAAGCTATAAATTGCAGATCTTATCTCTCTGAAGTTGCAGCAGAAC
Found at i:49965211 original size:96 final size:94
Alignment explanation
Indices: 49964914--49965212 Score: 341
Period size: 96 Copynumber: 3.2 Consensus size: 94
49964904 AAGTTACTAG
* *
49964914 TCTTATCTC-CTTGAAGTTGCAGTGGAGCAGAATGAAGATAGCGAATCTTATTTTCCTGAAGTTG
1 TCTTATCTCTC-TGAAGTTGCAGTGGAGCAG-ATGAAGATAGCGAATCTTAATTCCCTGAAGTTG
49964978 TAGTGGAACAGATTGAAGCTATAAATTGCAGA
64 TAGTGGAACAGATTGAAGCTATAAATTG-AGA
* * * * * *
49965010 TCTTATCTCTCTGAAGTTGCAGTAGAGCAGAT---CATAGCAAACCTT-ATCTCTCTGAAGTTGC
1 TCTTATCTCTCTGAAGTTGCAGTGGAGCAGATGAAGATAGCGAATCTTAAT-TCCCTGAAGTTGT
* * * *
49965071 AGTAGAGCAGGTTGAAG--ATACA---AG-
65 AGTGGAACAGATTGAAGCTATAAATTGAGA
*
49965095 TCTTATCTCTTTGAAGTTGCAGTGGAGCAGACTGAAGATAGCGAATCTTAATTCCCTGAAGTTGT
1 TCTTATCTCTCTGAAGTTGCAGTGGAGCAGA-TGAAGATAGCGAATCTTAATTCCCTGAAGTTGT
*
49965160 AGTGGAACTGATTGAAGCTATAAATTGTAGA
65 AGTGGAACAGATTGAAGCTATAAATTG-AGA
49965191 TCTTATCTCTCTGAAGTTGCAG
1 TCTTATCTCTCTGAAGTTGCAG
49965213 CAGAACAGAT
Statistics
Matches: 164, Mismatches: 25, Indels: 28
0.76 0.12 0.13
Matches are distributed among these distances:
85 29 0.18
86 3 0.02
89 34 0.21
90 6 0.04
91 5 0.03
92 34 0.21
95 4 0.02
96 48 0.29
97 1 0.01
ACGTcount: A:0.30, C:0.16, G:0.23, T:0.31
Consensus pattern (94 bp):
TCTTATCTCTCTGAAGTTGCAGTGGAGCAGATGAAGATAGCGAATCTTAATTCCCTGAAGTTGTA
GTGGAACAGATTGAAGCTATAAATTGAGA
Found at i:49965420 original size:49 final size:48
Alignment explanation
Indices: 49965274--49965448 Score: 182
Period size: 49 Copynumber: 3.8 Consensus size: 48
49965264 CATATCAAAC
* * * *
49965274 CTTATCTCCCTAAAGTTGTAGTGGAACAGGTTAAA-A-ATAAACCAAT
1 CTTATCTCCCTGAAGTTGTAGTGGAGCAGATTAAAGACACAAACCAAT
* * * * * *
49965320 CTTATCTCCCTGAAGGTGCAGTGGAGCAGATTGAAGACAGGATACAAAT
1 CTTATCTCCCTGAAGTTGTAGTGGAGCAGATTAAAGACA-CAAACCAAT
*
49965369 CTTATCTCTCTGAAGTTGTAGTGGAGCAGATTAAAGACACAAA-C---
1 CTTATCTCCCTGAAGTTGTAGTGGAGCAGATTAAAGACACAAACCAAT
* *
49965413 CTTATCTTCCTGAAGTTGTAGTGGAGCAAATTAAAG
1 CTTATCTCCCTGAAGTTGTAGTGGAGCAGATTAAAG
49965449 CTATTAATCT
Statistics
Matches: 107, Mismatches: 19, Indels: 8
0.80 0.14 0.06
Matches are distributed among these distances:
44 33 0.31
46 29 0.27
47 1 0.01
48 3 0.03
49 41 0.38
ACGTcount: A:0.34, C:0.17, G:0.21, T:0.27
Consensus pattern (48 bp):
CTTATCTCCCTGAAGTTGTAGTGGAGCAGATTAAAGACACAAACCAAT
Found at i:49965461 original size:44 final size:44
Alignment explanation
Indices: 49965317--49965470 Score: 141
Period size: 44 Copynumber: 3.4 Consensus size: 44
49965307 AAAATAAACC
* * * * *
49965317 AATCTTATCTCCCTGAAGGTGCAGTGGAGCAGATTGAAGACAGGATACA
1 AATCTTATCTTCCTGAAGTTGTAGTGGAGCAAATT--A-A-A-GACACA
*
49965366 AATCTTATC-TCTCTGAAGTTGTAGTGGAGCAGATTAAAGACACA
1 AATCTTATCTTC-CTGAAGTTGTAGTGGAGCAAATTAAAGACACA
* **
49965410 AACCTTATCTTCCTGAAGTTGTAGTGGAGCAAATTAAAG-CTATT
1 AATCTTATCTTCCTGAAGTTGTAGTGGAGCAAATTAAAGAC-ACA
*
49965454 AATCTTATCTCCCTGAA
1 AATCTTATCTTCCTGAA
49965471 ATTACAATGG
Statistics
Matches: 92, Mismatches: 10, Indels: 11
0.81 0.09 0.10
Matches are distributed among these distances:
43 1 0.01
44 55 0.60
45 3 0.03
46 1 0.01
47 1 0.01
48 1 0.01
49 30 0.33
ACGTcount: A:0.32, C:0.18, G:0.20, T:0.29
Consensus pattern (44 bp):
AATCTTATCTTCCTGAAGTTGTAGTGGAGCAAATTAAAGACACA
Found at i:49965620 original size:44 final size:45
Alignment explanation
Indices: 49965552--49965647 Score: 131
Period size: 44 Copynumber: 2.2 Consensus size: 45
49965542 ATAGTAAGTT
* * *
49965552 TTATCTCCCTGAAATTGTAGTGGAGCAGATT-AAAACCACAAATC
1 TTATCTCCCTAAAATTGCAATGGAGCAGATTGAAAACCACAAATC
* **
49965596 TTATCTCCCTAAAATTGCAATGGAGCAGATTGCAAACCATTAATC
1 TTATCTCCCTAAAATTGCAATGGAGCAGATTGAAAACCACAAATC
49965641 TTATCTC
1 TTATCTC
49965648 TTTGAAGTTA
Statistics
Matches: 45, Mismatches: 6, Indels: 1
0.87 0.12 0.02
Matches are distributed among these distances:
44 28 0.62
45 17 0.38
ACGTcount: A:0.34, C:0.22, G:0.14, T:0.30
Consensus pattern (45 bp):
TTATCTCCCTAAAATTGCAATGGAGCAGATTGAAAACCACAAATC
Found at i:49967282 original size:60 final size:60
Alignment explanation
Indices: 49967163--49967274 Score: 138
Period size: 60 Copynumber: 1.9 Consensus size: 60
49967153 TATCATTCTC
* * * * *
49967163 TTACTTTTAAAATATTCAAATTTAATATTAGGTATTATTTTATCTATCTATTTATTTTTT
1 TTACTCTTAAAATATTCAAACTTAACATTAGGTATCATATTATCTATCTATTTATTTTTT
* *
49967223 TTACTCTTAAAATATTTAAACTTAACATTATGTATACATATT-T-TATCTATTT
1 TTACTCTTAAAATATTCAAACTTAACATTAGGTAT-CATATTATCTATCTATTT
49967275 CGTTTTTTAT
Statistics
Matches: 44, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
59 9 0.20
60 31 0.70
61 4 0.09
ACGTcount: A:0.34, C:0.09, G:0.03, T:0.54
Consensus pattern (60 bp):
TTACTCTTAAAATATTCAAACTTAACATTAGGTATCATATTATCTATCTATTTATTTTTT
Found at i:49967412 original size:10 final size:9
Alignment explanation
Indices: 49967382--49967416 Score: 54
Period size: 10 Copynumber: 3.9 Consensus size: 9
49967372 GAACTGTTTC
49967382 ATTTATTTT
1 ATTTATTTT
49967391 ATTT-TTTT
1 ATTTATTTT
49967399 ATTTATTATT
1 ATTTATT-TT
49967409 ATTTATTT
1 ATTTATTT
49967417 ACAAATTGCT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
8 8 0.33
9 7 0.29
10 9 0.38
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (9 bp):
ATTTATTTT
Found at i:49967486 original size:93 final size:94
Alignment explanation
Indices: 49967303--49967498 Score: 376
Period size: 93 Copynumber: 2.1 Consensus size: 94
49967293 ATTTTTATTA
*
49967303 TTATCTATTATGTATTTATTTACAAATTGCTCCTTTAACTTTTTCTTTCTTTCTTTCTTTTTTTC
1 TTATTTATTATGTATTTATTTACAAATTGCTCCTTTAACTTTTTCTTTCTTTCTTTCTTTTTTTC
49967368 CCAAGAACTGTTTCATTTATTTTATTTTT
66 CCAAGAACTGTTTCATTTATTTTATTTTT
49967397 TTATTTATTAT-TATTTATTTACAAATTGCTCCTTTAACTTTTTCTTTCTTTCTTTCTTTTTTTC
1 TTATTTATTATGTATTTATTTACAAATTGCTCCTTTAACTTTTTCTTTCTTTCTTTCTTTTTTTC
49967461 CCAAGAACTGTTTCATTTATTTTATTTTT
66 CCAAGAACTGTTTCATTTATTTTATTTTT
49967490 TTATTTATT
1 TTATTTATT
49967499 TAGTTTCAAA
Statistics
Matches: 101, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
93 91 0.90
94 10 0.10
ACGTcount: A:0.19, C:0.15, G:0.04, T:0.62
Consensus pattern (94 bp):
TTATTTATTATGTATTTATTTACAAATTGCTCCTTTAACTTTTTCTTTCTTTCTTTCTTTTTTTC
CCAAGAACTGTTTCATTTATTTTATTTTT
Found at i:49969074 original size:121 final size:117
Alignment explanation
Indices: 49968897--49969187 Score: 456
Period size: 121 Copynumber: 2.4 Consensus size: 117
49968887 TTAAAAAGAG
* * *
49968897 AAAATTTAGATTTTTAAAACTGAAAATATGTTTTTTAGTCATTTTAAAGGAAAAACTATTTCGAA
1 AAAATTTAGATTTTTAAAAATAAAAATAT-TTTTTTATTCATTTTAAAGGAAAAACTATTTCGAA
*
49968962 ATAAAAGTTTTGATCTTTTAGAAAAGTAGTGATTTTTTTAAAAGAAAAAAAAA
65 ATAAAAGTTTTGATCTTTAAGAAAAGTAGTGATTTTTTTAAAAGAAAAAAAAA
*
49969015 GAAGGAAGTTTAGATTTTTAAAAATAAAAATATTTTTTTATTCATTTTAAAGGAAAAACTATTTT
1 -AA--AA-TTTAGATTTTTAAAAATAAAAATATTTTTTTATTCATTTTAAAGGAAAAACTATTTC
* *
49969080 GAAATAAAAGTTTTGATCTTTAAGAAAAGTTGTGATTTTTTTAAAAGAAAAAAGAA
62 GAAATAAAAGTTTTGATCTTTAAGAAAAGTAGTGATTTTTTTAAAAGAAAAAAAAA
*
49969136 AAAATTTTGATTTTTAAAAATAAAAATAATTTTTTTATTCATTTTAAAGGAA
1 AAAATTTAGATTTTTAAAAATAAAAAT-ATTTTTTTATTCATTTTAAAGGAA
49969188 GGTTTAAAAT
Statistics
Matches: 160, Mismatches: 8, Indels: 9
0.90 0.05 0.05
Matches are distributed among these distances:
117 22 0.14
118 26 0.16
119 2 0.01
120 2 0.01
121 85 0.53
122 23 0.14
ACGTcount: A:0.46, C:0.03, G:0.11, T:0.40
Consensus pattern (117 bp):
AAAATTTAGATTTTTAAAAATAAAAATATTTTTTTATTCATTTTAAAGGAAAAACTATTTCGAAA
TAAAAGTTTTGATCTTTAAGAAAAGTAGTGATTTTTTTAAAAGAAAAAAAAA
Found at i:49969528 original size:155 final size:156
Alignment explanation
Indices: 49969070--49969593 Score: 675
Period size: 156 Copynumber: 3.4 Consensus size: 156
49969060 TTTAAAGGAA
* * * *
49969070 AAACTATTTTGAAATAAAAGTTTTGATCTTTAAGAAAAGTTGTGATTTTTTTAAAAG---AAAAA
1 AAACTATTTCGAAATAAAA-CTTTGATTTTTAAGAAAAGTAGTGATTTTTTTAAAAGAAAAAAAA
* * * * * *
49969132 AGAAAAAATTTTGATTTTTAAAAATAAAAATA-ATTTTTTTATTCATTTTAAAGGAAGGTTTAAA
65 AGAGAAAATTTAGATTTTAAAAAATAAAAATATGTTTTTTTAGTCATTTTAAAGGAAAGTTTAAA
* * * *
49969196 ATTTTAAAACAAAGTTTTAATCTTTTA
130 ATTTTAAAATAAAGTTATGATCTTTTT
* * *
49969223 AAACTATTTCGAAATAAAGCTTTGATTTTTAATAAATGTAGTGA-TTTTTTAAAAGAAAAAGAAA
1 AAACTATTTCGAAATAAAACTTTGATTTTTAAGAAAAGTAGTGATTTTTTTAAAAGAAAAA-AAA
* *
49969287 AGGAGAAAGTTTAAATTTTAAAAAATAAAAATATG-TTTTTTAGTCATTTTAAAGGAAAGTTTAA
65 A-GAGAAAATTTAGATTTTAAAAAATAAAAATATGTTTTTTTAGTCATTTTAAAGGAAAGTTTAA
*
49969351 AATTTTAAAATAAAGTTCTGATCTTTTT
129 AATTTTAAAATAAAGTTATGATCTTTTT
* * * *
49969379 AAACTATTTTGAAATAAAATTTTTATTTTTAAGAAAAGTAATGA-TTTTTTAAAAGAAAAAAAAA
1 AAACTATTTCGAAATAAAACTTTGATTTTTAAGAAAAGTAGTGATTTTTTTAAAAGAAAAAAAAA
* * *
49969443 GAGAAAATTTAGATTTTAAAAAATCAAAATATGTTTTTTTAGTCATTTTAAATGAAATTTTAAAA
66 GAGAAAATTTAGATTTTAAAAAATAAAAATATGTTTTTTTAGTCATTTTAAAGGAAAGTTTAAAA
49969508 TTTTAAAATAAAGTTATGATCTTTTT
131 TTTTAAAATAAAGTTATGATCTTTTT
* * * * * *
49969534 TAATTATTTCAAAATAAAGCTTTGATTTTTAAGAGAATTAGTGATTTTTTTAAAAGAAAA
1 AAACTATTTCGAAATAAAACTTTGATTTTTAAGAAAAGTAGTGATTTTTTTAAAAGAAAA
49969594 CTTTGATTTT
Statistics
Matches: 321, Mismatches: 42, Indels: 13
0.85 0.11 0.03
Matches are distributed among these distances:
151 11 0.03
152 20 0.06
153 17 0.05
154 32 0.10
155 96 0.30
156 145 0.45
ACGTcount: A:0.45, C:0.03, G:0.10, T:0.41
Consensus pattern (156 bp):
AAACTATTTCGAAATAAAACTTTGATTTTTAAGAAAAGTAGTGATTTTTTTAAAAGAAAAAAAAA
GAGAAAATTTAGATTTTAAAAAATAAAAATATGTTTTTTTAGTCATTTTAAAGGAAAGTTTAAAA
TTTTAAAATAAAGTTATGATCTTTTT
Found at i:49972291 original size:21 final size:20
Alignment explanation
Indices: 49972253--49972292 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
49972243 AATATTTTAC
*
49972253 ATTTTACCCCAAACCTTTTT
1 ATTTTACCCCAAAACTTTTT
*
49972273 ATTTTCCCCCAAAAACTTTT
1 ATTTTACCCC-AAAACTTTT
49972293 ACTTTCTCCC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.28, C:0.30, G:0.00, T:0.42
Consensus pattern (20 bp):
ATTTTACCCCAAAACTTTTT
Found at i:49972720 original size:42 final size:42
Alignment explanation
Indices: 49972673--49972757 Score: 170
Period size: 42 Copynumber: 2.0 Consensus size: 42
49972663 TAATTGTGTC
49972673 TCTACGTGGAATAATGATGGATTGATCATGTTGCACTGAGTT
1 TCTACGTGGAATAATGATGGATTGATCATGTTGCACTGAGTT
49972715 TCTACGTGGAATAATGATGGATTGATCATGTTGCACTGAGTT
1 TCTACGTGGAATAATGATGGATTGATCATGTTGCACTGAGTT
49972757 T
1 T
49972758 TTTGATTCGT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 43 1.00
ACGTcount: A:0.26, C:0.12, G:0.26, T:0.36
Consensus pattern (42 bp):
TCTACGTGGAATAATGATGGATTGATCATGTTGCACTGAGTT
Found at i:49979223 original size:23 final size:22
Alignment explanation
Indices: 49979172--49979223 Score: 54
Period size: 23 Copynumber: 2.3 Consensus size: 22
49979162 CCTCGTCTTT
*
49979172 TTCTTTTGTTTCTTTTTCTAAC
1 TTCTTTTCTTTCTTTTTCTAAC
49979194 -TCATTTTCTCTTCTTTCTT-TAAC
1 TTC-TTTTCT-TTCTTT-TTCTAAC
49979217 TTCTTTT
1 TTCTTTT
49979224 TCAATTTCTT
Statistics
Matches: 25, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 2 0.08
22 5 0.20
23 14 0.56
24 4 0.16
ACGTcount: A:0.10, C:0.21, G:0.02, T:0.67
Consensus pattern (22 bp):
TTCTTTTCTTTCTTTTTCTAAC
Found at i:49979242 original size:17 final size:18
Alignment explanation
Indices: 49979217--49979254 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 18
49979207 TTTCTTTAAC
* *
49979217 TTCTTTTTCA-ATTTCTT
1 TTCTGTTTCACATTCCTT
49979234 TTCTGTTTCACATTCCTT
1 TTCTGTTTCACATTCCTT
49979252 TTC
1 TTC
49979255 ACTCTCAATC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 9 0.50
18 9 0.50
ACGTcount: A:0.11, C:0.24, G:0.03, T:0.63
Consensus pattern (18 bp):
TTCTGTTTCACATTCCTT
Found at i:49987639 original size:20 final size:21
Alignment explanation
Indices: 49987614--49987653 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
49987604 TTTTTAATTT
49987614 TTTTTAA-AAT-TAATATAATA
1 TTTTTAAGAATCTAAT-TAATA
49987634 TTTTTAAGAATCTAATTAAT
1 TTTTTAAGAATCTAATTAAT
49987654 TAGATATTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 7 0.39
21 7 0.39
22 4 0.22
ACGTcount: A:0.45, C:0.03, G:0.03, T:0.50
Consensus pattern (21 bp):
TTTTTAAGAATCTAATTAATA
Found at i:49990188 original size:36 final size:36
Alignment explanation
Indices: 49990141--49990461 Score: 177
Period size: 36 Copynumber: 8.9 Consensus size: 36
49990131 AGAATTTTAG
*
49990141 AAACATGAAAA-TTTTAAAACCCAAGAATTTTTTTGA
1 AAACACGAAAATTTTTAAAA-CCAAGAATTTTTTTGA
49990177 AAACACGAAAATTTTTAAAA-CATGAGAA-TTTTTTGA
1 AAACACGAAAATTTTTAAAACCA--AGAATTTTTTTGA
* *
49990213 AAACACGAAAATTTTTGAAA-CATGAATTTTTTTTGA
1 AAACACGAAAATTTTTAAAACCAAGAA-TTTTTTTGA
* * * **
49990249 AAACACGAAAATTTAT-GAAGCGTGAATTTTTTTTTTGA
1 AAACACGAAAATTTTTAAAACCAAGAA---TTTTTTTGA
* ** *
49990287 AAACACGAAAATTTATGAAATGCGAGAATTTGTTTTTGA
1 AAACACGAAAATTT-TTAAAACCAAGAA-TT-TTTTTGA
* * * * *
49990326 AAACTC-AAATTTTTTTAACACGAA-AA--TTGTTGA
1 AAACACGAAA-ATTTTTAAAACCAAGAATTTTTTTGA
** *
49990359 AAACACGAACTTTTTTAAAA-CACGAAATTTTTTTGA
1 AAACACGAAAATTTTTAAAACCAAG-AATTTTTTTGA
* *
49990395 AAACACGGAAATTTTTGAAATACC--GAA-ATTTTTGA
1 AAACACGAAAATTTTT-AAA-ACCAAGAATTTTTTTGA
* * *
49990430 AAGCAC-AAAGATTTTTGAAA-CACGAATTTTTT
1 AAACACGAAA-ATTTTTAAAACCAAGAATTTTTT
49990462 GATTTTTCCT
Statistics
Matches: 227, Mismatches: 34, Indels: 49
0.73 0.11 0.16
Matches are distributed among these distances:
32 2 0.01
33 21 0.09
34 14 0.06
35 26 0.11
36 88 0.39
37 18 0.08
38 35 0.15
39 16 0.07
40 7 0.03
ACGTcount: A:0.42, C:0.10, G:0.12, T:0.35
Consensus pattern (36 bp):
AAACACGAAAATTTTTAAAACCAAGAATTTTTTTGA
Found at i:49990191 original size:18 final size:18
Alignment explanation
Indices: 49990119--49990455 Score: 175
Period size: 17 Copynumber: 18.8 Consensus size: 18
49990109 AATTTTTTAA
*
49990119 TTTGAAAACACGAGAATT
1 TTTGAAAACACGAAAATT
* *
49990137 TTAG-AAACATGAAAA-T
1 TTTGAAAACACGAAAATT
*
49990153 TTT-AAAAC-CCAAGAATTTT
1 TTTGAAAACACGAA-AA--TT
49990172 TTTGAAAACACGAAAATT
1 TTTGAAAACACGAAAATT
* *
49990190 TTT-AAAACATGAGAATTT
1 TTTGAAAACACGA-AAATT
49990208 TTTGAAAACACGAAAATT
1 TTTGAAAACACGAAAATT
* **
49990226 TTTG-AAACATGAATTTTT
1 TTTGAAAACACGAA-AATT
49990244 TTTGAAAACACGAAAATT
1 TTTGAAAACACGAAAATT
* * ** **
49990262 TATG-AAGCGTGAATTTTTTT
1 TTTGAAAACACGAA---AATT
49990282 TTTGAAAACACGAAAATT
1 TTTGAAAACACGAAAATT
* * **
49990300 TATGAAATGCGA-GAATTTGTT
1 TTTGAAA-AC-ACGAA--AATT
*
49990321 TTTGAAAACTC--AAATT
1 TTTGAAAACACGAAAATT
**
49990337 TTT-TTAACACGAAAATT
1 TTTGAAAACACGAAAATT
* *
49990354 GTTGAAAACACG-AACTT
1 TTTGAAAACACGAAAATT
* *
49990371 TTTTAAAACACGAAATTTT
1 TTTGAAAACACGAAA-ATT
*
49990390 TTTGAAAACACGGAAATT
1 TTTGAAAACACGAAAATT
49990408 TTTGAAATAC-CG-AAATT
1 TTTGAAA-ACACGAAAATT
*
49990425 TTTGAAAGCAC-AAAGATT
1 TTTGAAAACACGAAA-ATT
49990443 TTTG-AAACACGAA
1 TTTGAAAACACGAA
49990456 TTTTTTGATT
Statistics
Matches: 236, Mismatches: 53, Indels: 60
0.68 0.15 0.17
Matches are distributed among these distances:
15 6 0.03
16 15 0.06
17 72 0.31
18 71 0.30
19 41 0.17
20 14 0.06
21 17 0.07
ACGTcount: A:0.43, C:0.10, G:0.13, T:0.34
Consensus pattern (18 bp):
TTTGAAAACACGAAAATT
Found at i:49990244 original size:17 final size:17
Alignment explanation
Indices: 49990169--49990463 Score: 143
Period size: 18 Copynumber: 16.5 Consensus size: 17
49990159 ACCCAAGAAT
49990169 TTTTTTGAAAACACGAAA
1 TTTTTTG-AAACACGAAA
* * *
49990187 ATTTTTAAAACATGAGAA
1 TTTTTTGAAACACGA-AA
49990205 TTTTTTGAAAACACGAAA
1 TTTTTTG-AAACACGAAA
* * *
49990223 ATTTTTGAAACATGAATT
1 TTTTTTGAAACACGAA-A
49990241 TTTTTTGAAAACACGAAA
1 TTTTTTG-AAACACGAAA
* * * ** *
49990259 ATTTATGAAGCGTGAATTTT
1 TTTTTTGAAACACGAA---A
49990279 TTTTTTGAAAACACGAAA
1 TTTTTTG-AAACACGAAA
* * **
49990297 ATTTATGAAATGCGAGAA
1 TTTTTTGAAACACGA-AA
*
49990315 TTTGTTTTTGAAA-ACTCAAA
1 --T-TTTTTGAAACAC-GAAA
*
49990335 TTTTTT-TAACACGAAA
1 TTTTTTGAAACACGAAA
* * *
49990351 ATTGTTGAAAACACGAAC
1 TTTTTTG-AAACACGAAA
*
49990369 TTTTTTAAAACACGAAA
1 TTTTTTGAAACACGAAA
49990386 TTTTTTTGAAAACACGGAAA
1 -TTTTTTG-AAACAC-GAAA
*
49990406 -TTTTTGAAATACCGAAA
1 TTTTTTGAAACA-CGAAA
49990423 -TTTTTGAAAGCAC-AAA
1 TTTTTTGAAA-CACGAAA
*
49990439 GATTTTTGAAACACG-AA
1 -TTTTTTGAAACACGAAA
49990456 TTTTTTGA
1 TTTTTTGA
49990464 TTTTTCCTTA
Statistics
Matches: 207, Mismatches: 46, Indels: 50
0.68 0.15 0.17
Matches are distributed among these distances:
16 19 0.09
17 66 0.32
18 74 0.36
19 21 0.10
20 12 0.06
21 15 0.07
ACGTcount: A:0.41, C:0.10, G:0.13, T:0.36
Consensus pattern (17 bp):
TTTTTTGAAACACGAAA
Found at i:49991164 original size:6 final size:6
Alignment explanation
Indices: 49991155--49991225 Score: 63
Period size: 6 Copynumber: 11.3 Consensus size: 6
49991145 TTATTTTTAT
* *
49991155 TTTTTC TTTTT- TCTTCTC TTTTTC TTTTTT TTTCTCTC TTTTTC TTCTTTC
1 TTTTTC TTTTTC T-TTTTC TTTTTC TTTTTC TTT-T-TC TTTTTC TT-TTTC
* *
49991206 TTTTTC TTCTTC TTCTTC TT
1 TTTTTC TTTTTC TTTTTC TT
49991226 CTTTGGGCCG
Statistics
Matches: 55, Mismatches: 5, Indels: 10
0.79 0.07 0.14
Matches are distributed among these distances:
5 1 0.02
6 41 0.75
7 9 0.16
8 4 0.07
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (6 bp):
TTTTTC
Found at i:49991202 original size:3 final size:3
Alignment explanation
Indices: 49991165--49991228 Score: 53
Period size: 3 Copynumber: 21.7 Consensus size: 3
49991155 TTTTTCTTTT
* * * *
49991165 TTC TTC -TC TTT TTC TT- TT- TTT TTC TCTC TTT TTC TTC TTTC TTT
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC T-TC TTC TTC TTC -TTC TTC
49991209 TTC TTC TTC TTC TTC TTC TT
1 TTC TTC TTC TTC TTC TTC TT
49991229 TGGGCCGAAC
Statistics
Matches: 50, Mismatches: 7, Indels: 8
0.77 0.11 0.12
Matches are distributed among these distances:
2 6 0.12
3 38 0.76
4 6 0.12
ACGTcount: A:0.00, C:0.25, G:0.00, T:0.75
Consensus pattern (3 bp):
TTC
Found at i:49991213 original size:19 final size:19
Alignment explanation
Indices: 49991155--49991222 Score: 68
Period size: 19 Copynumber: 3.6 Consensus size: 19
49991145 TTATTTTTAT
* *
49991155 TTTTTCTTTTTTC-TTCTC
1 TTTTTCTTCTTTCTTTTTC
*
49991173 TTTTTCTT-TTTTTTTCTCTC
1 TTTTTCTTCTTTCTTT-T-TC
49991193 TTTTTCTTCTTTCTTTTTC
1 TTTTTCTTCTTTCTTTTTC
*
49991212 TTCTTCTTCTT
1 TTTTTCTTCTT
49991223 CTTCTTTGGG
Statistics
Matches: 42, Mismatches: 4, Indels: 7
0.79 0.08 0.13
Matches are distributed among these distances:
17 3 0.07
18 10 0.24
19 12 0.29
20 11 0.26
21 6 0.14
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (19 bp):
TTTTTCTTCTTTCTTTTTC
Found at i:49991344 original size:15 final size:15
Alignment explanation
Indices: 49991326--49991372 Score: 62
Period size: 15 Copynumber: 3.3 Consensus size: 15
49991316 TTCTCCTCTC
49991326 TTTTTCTTCTTTTCT
1 TTTTTCTTCTTTTCT
*
49991341 TTTTTCTTCTTTGCT
1 TTTTTCTTCTTTTCT
*
49991356 TGTTT-TT-TTTTCT
1 TTTTTCTTCTTTTCT
49991369 TTTT
1 TTTT
49991373 GTTTGTTGTT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
13 8 0.29
14 2 0.07
15 18 0.64
ACGTcount: A:0.00, C:0.15, G:0.04, T:0.81
Consensus pattern (15 bp):
TTTTTCTTCTTTTCT
Found at i:49991365 original size:20 final size:22
Alignment explanation
Indices: 49991340--49991395 Score: 73
Period size: 20 Copynumber: 2.7 Consensus size: 22
49991330 TCTTCTTTTC
49991340 TTTTTTCTTCTTTGCTTGTTT-
1 TTTTTTCTTCTTTGCTTGTTTG
*
49991361 TTTTTTCTT-TTTGTTTG-TTG
1 TTTTTTCTTCTTTGCTTGTTTG
*
49991381 TTTTTTTTTCTTTGC
1 TTTTTTCTTCTTTGC
49991396 CCTTTTTTAT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
19 2 0.07
20 15 0.50
21 13 0.43
ACGTcount: A:0.00, C:0.11, G:0.11, T:0.79
Consensus pattern (22 bp):
TTTTTTCTTCTTTGCTTGTTTG
Found at i:49991366 original size:23 final size:22
Alignment explanation
Indices: 49991324--49991393 Score: 74
Period size: 23 Copynumber: 3.2 Consensus size: 22
49991314 TCTTCTCCTC
* *
49991324 TCTTTTT-CTTCTTTTCTTTTT
1 TCTTTTTGCTTGTTTTTTTTTT
49991345 TCTTCTTTGCTTG--TTTTTTTT
1 TCTT-TTTGCTTGTTTTTTTTTT
*
49991366 TCTTTTTGTTTGTTGTTTTTTTT
1 TCTTTTTGCTTGTT-TTTTTTTT
49991389 TCTTT
1 TCTTT
49991394 GCCCTTTTTT
Statistics
Matches: 41, Mismatches: 3, Indels: 8
0.79 0.06 0.15
Matches are distributed among these distances:
20 7 0.17
21 15 0.37
22 3 0.07
23 16 0.39
ACGTcount: A:0.00, C:0.13, G:0.07, T:0.80
Consensus pattern (22 bp):
TCTTTTTGCTTGTTTTTTTTTT
Found at i:49991384 original size:21 final size:21
Alignment explanation
Indices: 49991340--49991395 Score: 80
Period size: 21 Copynumber: 2.7 Consensus size: 21
49991330 TCTTCTTTTC
49991340 TTTTTTCTTCTTTGCTTGTTT
1 TTTTTTCTTCTTTGCTTGTTT
*
49991361 TTTTTTCTT-TTTGTTTGTTGT
1 TTTTTTCTTCTTTGCTTGTT-T
49991382 TTTTTT-TTCTTTGC
1 TTTTTTCTTCTTTGC
49991396 CCTTTTTTAT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
20 11 0.35
21 20 0.65
ACGTcount: A:0.00, C:0.11, G:0.11, T:0.79
Consensus pattern (21 bp):
TTTTTTCTTCTTTGCTTGTTT
Found at i:49991510 original size:12 final size:11
Alignment explanation
Indices: 49991492--49991534 Score: 52
Period size: 12 Copynumber: 3.7 Consensus size: 11
49991482 CTTTTCGCTG
49991492 TTGTTTTTTGC
1 TTGTTTTTTGC
49991503 TTGATTTTTTGC
1 TTG-TTTTTTGC
49991515 TTGCTTTTGTTG-
1 TTG-TTTT-TTGC
49991527 TTGTTTTT
1 TTGTTTTT
49991535 CTCCTTTCTT
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
10 1 0.03
11 7 0.24
12 18 0.62
13 3 0.10
ACGTcount: A:0.02, C:0.07, G:0.19, T:0.72
Consensus pattern (11 bp):
TTGTTTTTTGC
Found at i:49991986 original size:30 final size:30
Alignment explanation
Indices: 49991915--49992021 Score: 103
Period size: 30 Copynumber: 3.6 Consensus size: 30
49991905 AGGAAAATAT
* * *
49991915 GGGGCCAAAATGTAA-TTTCTAGAAAGCTGA
1 GGGGCTAAAATGTAATTTTC-AAAAAGTTGA
* * *
49991945 -GGG-TCAAATGTAATTTTCAAAAATTTTA
1 GGGGCTAAAATGTAATTTTCAAAAAGTTGA
**
49991973 GGGGCTAAAATGTAATTTTTGAAAAGTTGA
1 GGGGCTAAAATGTAATTTTCAAAAAGTTGA
*
49992003 GGGGTTAAAATGTAATTTT
1 GGGGCTAAAATGTAATTTT
49992022 TATTTTTTTG
Statistics
Matches: 62, Mismatches: 12, Indels: 6
0.77 0.15 0.08
Matches are distributed among these distances:
28 14 0.23
29 10 0.16
30 38 0.61
ACGTcount: A:0.36, C:0.07, G:0.23, T:0.34
Consensus pattern (30 bp):
GGGGCTAAAATGTAATTTTCAAAAAGTTGA
Found at i:49992384 original size:25 final size:25
Alignment explanation
Indices: 49992350--49992399 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
49992340 GCAATATGAG
49992350 TTGATTTTTGGAAAATAGAAATTAA
1 TTGATTTTTGGAAAATAGAAATTAA
49992375 TTGATTTTTGGAAAATAGAAATTAA
1 TTGATTTTTGGAAAATAGAAATTAA
49992400 AATATACCTC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.44, C:0.00, G:0.16, T:0.40
Consensus pattern (25 bp):
TTGATTTTTGGAAAATAGAAATTAA
Found at i:49992516 original size:75 final size:75
Alignment explanation
Indices: 49992379--49992640 Score: 380
Period size: 75 Copynumber: 3.4 Consensus size: 75
49992369 AATTAATTGA
* * * * *
49992379 TTTTTGGAAAATAGAAATTAAAATATACCTCAGCATGTGACCCGAAGCTCAACTCACTTCTCGCA
1 TTTTTGAAAAACAGAAATTGAAA-ATACCTCAGC--GTGACCCGAGGCTCAACTCACCTCTCGCA
49992444 ATATGAGTTGATT
63 ATATGAGTTGATT
* *
49992457 TTTTTGAAAAACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCATTA
1 TTTTTGAAAAACAGAAATTGAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTCGCAATA
49992522 TGAGTTGATT
66 TGAGTTGATT
* * *
49992532 TTTTTTAAAAGCAGAAATTGAAAATACCTCAGCGTGACCCGAGGCTCAAATCACCTCTCGCAATA
1 TTTTTGAAAAACAGAAATTGAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTCGCAATA
49992597 TGAGTTGATT
66 TGAGTTGATT
* *
49992607 TTTTTCAAAAAACAAAAATTGAAAATACCTCAGC
1 TTTTT-GAAAAACAGAAATTGAAAATACCTCAGC
49992641 ATAAATGTAA
Statistics
Matches: 168, Mismatches: 15, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
75 113 0.67
76 25 0.15
77 10 0.06
78 20 0.12
ACGTcount: A:0.35, C:0.20, G:0.15, T:0.29
Consensus pattern (75 bp):
TTTTTGAAAAACAGAAATTGAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTCGCAATA
TGAGTTGATT
Found at i:49993045 original size:76 final size:76
Alignment explanation
Indices: 49992901--49993239 Score: 474
Period size: 75 Copynumber: 4.5 Consensus size: 76
49992891 ATAATCATGT
*
49992901 TGAGTTGATTTTTTGAAAAACAGAAATTGAAAAATACCTCAGCATGTGACCCGAGGCTCAACTCA
1 TGAGTTGATTTTTTGAAAAACAGAAATTGAAAAATACCTCAGGA-GTGACCCGAGGCTCAACTCA
49992966 CCTCTCGCAATA
65 CCTCTCGCAATA
* *
49992978 TGAGTTGATTTTTTTGAAAAACAGAAATAGAAAAATACC-CTAGGA-TGACCCGAGGCTCAAATC
1 TGAGTTGA-TTTTTTGAAAAACAGAAATTGAAAAATACCTC-AGGAGTGACCCGAGGCTCAACTC
*
49993041 ACCTCTCGCATTA
64 ACCTCTCGCAATA
* * *
49993054 TGAGTTGATTTTTTTGAAAAACAAAAATTG-AAAATACCTCA-GCGTGACCCGAGGCTTAACTCA
1 TGAGTTGA-TTTTTTGAAAAACAGAAATTGAAAAATACCTCAGGAGTGACCCGAGGCTCAACTCA
* *
49993117 CTTCTCGCATTA
65 CCTCTCGCAATA
* * *
49993129 TGAGTTGA-TTTTTGAAAAATAGGAATTG-AAAATACCTCAGGATGTGACCCAAGGCTCAACTCA
1 TGAGTTGATTTTTTGAAAAACAGAAATTGAAAAATACCTCAGGA-GTGACCCGAGGCTCAACTCA
*
49993192 CCTCTCACAATA
65 CCTCTCGCAATA
49993204 TGAGTTGATTTTTTGAAAAACAGAAATTGAAAAATA
1 TGAGTTGATTTTTTGAAAAACAGAAATTGAAAAATA
49993240 TAATTCTTGA
Statistics
Matches: 233, Mismatches: 21, Indels: 16
0.86 0.08 0.06
Matches are distributed among these distances:
73 28 0.12
74 2 0.01
75 80 0.34
76 76 0.33
77 15 0.06
78 32 0.14
ACGTcount: A:0.37, C:0.19, G:0.17, T:0.28
Consensus pattern (76 bp):
TGAGTTGATTTTTTGAAAAACAGAAATTGAAAAATACCTCAGGAGTGACCCGAGGCTCAACTCAC
CTCTCGCAATA
Found at i:50005225 original size:5 final size:6
Alignment explanation
Indices: 50005204--50005255 Score: 52
Period size: 6 Copynumber: 8.3 Consensus size: 6
50005194 ATTTTCCTGC
* *
50005204 AAAAAT AAAAAT GAAAAT -AAAAT AAAACAGT AAAAAT AAATAAT AATAAT
1 AAAAAT AAAAAT AAAAAT AAAAAT AAAA-A-T AAAAAT AAA-AAT AAAAAT
50005254 AA
1 AA
50005256 TATGAATTTT
Statistics
Matches: 40, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
5 5 0.12
6 23 0.57
7 7 0.17
8 5 0.12
ACGTcount: A:0.75, C:0.02, G:0.04, T:0.19
Consensus pattern (6 bp):
AAAAAT
Found at i:50011454 original size:39 final size:38
Alignment explanation
Indices: 50011384--50011501 Score: 150
Period size: 37 Copynumber: 3.1 Consensus size: 38
50011374 CGTGATCCGA
* *
50011384 TTGAAACACGAGAAATTTTTTGTTTGAAAACACGAGAATT
1 TTGAAACAC-ATAAATTTTTT-TTTGAAAACACGAAAATT
*
50011424 TTGAAACACAATAACTTTTTTTTTGAAAACACGAAAATT
1 TTGAAACAC-ATAAATTTTTTTTTGAAAACACGAAAATT
*
50011463 TT-AAA-ACATGAAAATTTTTTTTGAAAACACGAAAATT
1 TTGAAACACAT-AAATTTTTTTTTGAAAACACGAAAATT
50011500 TT
1 TT
50011502 TAAAACACGA
Statistics
Matches: 71, Mismatches: 6, Indels: 5
0.87 0.07 0.06
Matches are distributed among these distances:
36 2 0.03
37 29 0.41
38 3 0.04
39 19 0.27
40 18 0.25
ACGTcount: A:0.43, C:0.10, G:0.11, T:0.36
Consensus pattern (38 bp):
TTGAAACACATAAATTTTTTTTTGAAAACACGAAAATT
Found at i:50011481 original size:17 final size:18
Alignment explanation
Indices: 50011443--50011681 Score: 151
Period size: 17 Copynumber: 13.5 Consensus size: 18
50011433 AATAACTTTT
50011443 TTTTTGAAAACACGAAAA
1 TTTTTGAAAACACGAAAA
*
50011461 -TTTT-AAAACATGAAAA
1 TTTTTGAAAACACGAAAA
50011477 TTTTTTTTGAAAACACGAAAA
1 ---TTTTTGAAAACACGAAAA
*
50011498 TTTTT-AAAACACGAGAA
1 TTTTTGAAAACACGAAAA
*
50011515 TTTTTCGAAAACA-GGAAA
1 TTTTT-GAAAACACGAAAA
* **
50011533 TTTTTG-AAACATGAACTTT
1 TTTTTGAAAACACGAA--AA
*
50011552 TTTTTGAAAACTC--AAA
1 TTTTTGAAAACACGAAAA
** *
50011568 TTTTT-TTAACACAAAAA
1 TTTTTGAAAACACGAAAA
* **
50011585 TTGTTGAAAACACGAATT
1 TTTTTGAAAACACGAAAA
* **
50011603 TTTTTG-GAACACGAATT
1 TTTTTGAAAACACGAAAA
*
50011620 TTTTTGAAAACACGGAAA
1 TTTTTGAAAACACGAAAA
* *
50011638 TTTCTGAAATAC-CG-GAA
1 TTTTTGAAA-ACACGAAAA
50011655 TTTTTGAAAACAC-AAAGA
1 TTTTTGAAAACACGAAA-A
50011673 TTTTTGAAA
1 TTTTTGAAA
50011682 CATGAATTTT
Statistics
Matches: 171, Mismatches: 31, Indels: 38
0.71 0.13 0.16
Matches are distributed among these distances:
15 4 0.02
16 23 0.13
17 58 0.34
18 53 0.31
19 14 0.08
20 8 0.05
21 11 0.06
ACGTcount: A:0.43, C:0.11, G:0.12, T:0.35
Consensus pattern (18 bp):
TTTTTGAAAACACGAAAA
Found at i:50011490 original size:37 final size:37
Alignment explanation
Indices: 50011395--50011562 Score: 164
Period size: 36 Copynumber: 4.5 Consensus size: 37
50011385 TGAAACACGA
* *
50011395 GAAATTTTTTGTTTGAAAACACGAGAATTTTGAAACACAAT
1 GAAAATTTTT-TTTGAAAACACGAAAATTTT-AAA-AC-AT
**
50011436 -AACTTTTTTTTTGAAAACACGAAAATTTTAAAACAT
1 GAAAATTTTTTTTGAAAACACGAAAATTTTAAAACAT
*
50011472 GAAAATTTTTTTTGAAAACACGAAAATTTTTAAAACAC
1 GAAAATTTTTTTTGAAAACACGAAAA-TTTTAAAACAT
* * * * *
50011510 GAGAA--TTTTTCGAAAACAGGAAATTTTTGAAACAT
1 GAAAATTTTTTTTGAAAACACGAAAATTTTAAAACAT
*
50011545 G-AACTTTTTTTTGAAAAC
1 GAAAATTTTTTTTGAAAAC
50011563 TCAAATTTTT
Statistics
Matches: 109, Mismatches: 14, Indels: 13
0.80 0.10 0.10
Matches are distributed among these distances:
34 1 0.01
35 10 0.09
36 29 0.27
37 25 0.23
38 17 0.16
39 19 0.17
40 8 0.07
ACGTcount: A:0.43, C:0.10, G:0.11, T:0.36
Consensus pattern (37 bp):
GAAAATTTTTTTTGAAAACACGAAAATTTTAAAACAT
Found at i:50011552 original size:16 final size:16
Alignment explanation
Indices: 50011480--50011553 Score: 58
Period size: 16 Copynumber: 4.3 Consensus size: 16
50011470 ATGAAAATTT
*
50011480 TTTTTGAAAACACGAAAA
1 TTTTTG-AAACA-GGAAA
* *
50011498 TTTTTAAAACACGAGAA
1 TTTTTGAAACAGGA-AA
50011515 TTTTTCGAAAACAGGAAA
1 TTTTT-G-AAACAGGAAA
* *
50011533 TTTTTGAAACATGAAC
1 TTTTTGAAACAGGAAA
50011549 TTTTT
1 TTTTT
50011554 TTTGAAAACT
Statistics
Matches: 46, Mismatches: 7, Indels: 8
0.75 0.11 0.13
Matches are distributed among these distances:
16 14 0.30
17 13 0.28
18 12 0.26
19 7 0.15
ACGTcount: A:0.42, C:0.11, G:0.12, T:0.35
Consensus pattern (16 bp):
TTTTTGAAACAGGAAA
Found at i:50011627 original size:35 final size:35
Alignment explanation
Indices: 50011441--50011694 Score: 171
Period size: 35 Copynumber: 7.2 Consensus size: 35
50011431 ACAATAACTT
* * *
50011441 TTTTTTTGAAAACACGAA-AATTTTAAAACATGAAAA
1 TTTTTTTGAAAACACGAATATTTTTGAAACACG--AA
* *
50011477 TTTTTTTTGAAAACACGAAAATTTTTAAAACACGAGA
1 -TTTTTTTGAAAACACGAATATTTTTGAAACACGA-A
* * * *
50011514 ATTTTTCGAAAACAGGAA-ATTTTTGAAACATGAA
1 TTTTTTTGAAAACACGAATATTTTTGAAACACGAA
* ** *
50011548 CTTTTTTTTGAAAACTC-AA-ATTTTTTTAACACAAA
1 --TTTTTTTGAAAACACGAATATTTTTGAAACACGAA
** * * *
50011583 AATTGTTGAAAACACGAATTTTTTTGGAACACGAA
1 TTTTTTTGAAAACACGAATATTTTTGAAACACGAA
* *
50011618 TTTTTTTGAAAACACGGAA-ATTTCTGAAATACCGGAA
1 TTTTTTTGAAAACAC-GAATATTTTTGAAACA-C-GAA
* * *
50011655 --TTTTTGAAAACACAAAGATTTTTGAAACATGAA
1 TTTTTTTGAAAACACGAATATTTTTGAAACACGAA
50011688 TTTTTTT
1 TTTTTTT
50011695 TATTTTTCCT
Statistics
Matches: 171, Mismatches: 34, Indels: 26
0.74 0.15 0.11
Matches are distributed among these distances:
33 14 0.08
34 5 0.03
35 87 0.51
36 31 0.18
37 22 0.13
38 12 0.07
ACGTcount: A:0.41, C:0.11, G:0.11, T:0.37
Consensus pattern (35 bp):
TTTTTTTGAAAACACGAATATTTTTGAAACACGAA
Found at i:50011662 original size:70 final size:66
Alignment explanation
Indices: 50011443--50011694 Score: 227
Period size: 70 Copynumber: 3.6 Consensus size: 66
50011433 AATAACTTTT
* *
50011443 TTTTTGAAAACACGAAAATTTTAAAACATGAAAATTTTTTTTGAAAACACGAAAATTTTTAAAAC
1 TTTTTGAAAACACGAAATTTTTGAAACATG--AA-TTTTTTTGAAAACACG-AAATTTTTAAAAC
50011508 ACGAGAA
62 -CG-GAA
* * *
50011515 TTTTTCGAAAACAGGAAATTTTTGAAACATGAACTTTTTTTTGAAAACTC-AAATTTTTTTAACA
1 TTTTT-GAAAACACGAAATTTTTGAAACATGAA--TTTTTTTGAAAACACGAAA--TTTTTAAAA
***
50011579 CAAAAA
61 CCGGAA
* * * * *
50011585 TTGTTGAAAACACGAATTTTTTTGGAACACGAATTTTTTTGAAAACACGGAAATTTCTGAAATAC
1 TTTTTGAAAACACGAA-ATTTTTGAAACATGAATTTTTTTGAAAACAC-GAAATTT-TTAAA-AC
50011650 CGGAA
62 CGGAA
*
50011655 TTTTTGAAAACACAAAGATTTTTGAAACATGAATTTTTTT
1 TTTTTGAAAACACGAA-ATTTTTGAAACATGAATTTTTTT
50011695 TATTTTTCCT
Statistics
Matches: 146, Mismatches: 25, Indels: 20
0.76 0.13 0.10
Matches are distributed among these distances:
68 17 0.12
69 13 0.09
70 63 0.43
71 2 0.01
72 29 0.20
73 22 0.15
ACGTcount: A:0.42, C:0.11, G:0.12, T:0.36
Consensus pattern (66 bp):
TTTTTGAAAACACGAAATTTTTGAAACATGAATTTTTTTGAAAACACGAAATTTTTAAAACCGGA
A
Found at i:50012449 original size:19 final size:18
Alignment explanation
Indices: 50012423--50012480 Score: 62
Period size: 19 Copynumber: 3.1 Consensus size: 18
50012413 ATTATTTTTA
50012423 TTTTTTTTCCTTTTTTCT
1 TTTTTTTTCCTTTTTTCT
* *
50012441 TTCTTTTTTTCTTCTTTCT
1 TT-TTTTTTCCTTTTTTCT
* *
50012460 TTTTCTTTCTTTTTCTTCT
1 TTTTTTTTCCTTTT-TTCT
50012479 TT
1 TT
50012481 GGGCCGAACC
Statistics
Matches: 32, Mismatches: 6, Indels: 3
0.78 0.15 0.07
Matches are distributed among these distances:
18 10 0.31
19 22 0.69
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (18 bp):
TTTTTTTTCCTTTTTTCT
Found at i:50012475 original size:10 final size:10
Alignment explanation
Indices: 50012417--50012480 Score: 60
Period size: 11 Copynumber: 6.3 Consensus size: 10
50012407 TGTTATATTA
*
50012417 TTTTTATTT-
1 TTTTTCTTTC
*
50012426 TTTTTCCTTTT
1 TTTTT-CTTTC
*
50012437 TTCTTTCTTTT
1 TT-TTTCTTTC
50012448 TTTCTTCTTTC
1 TTT-TTCTTTC
50012459 TTTTTCTTTC
1 TTTTTCTTTC
50012469 TTTTTC-TTC
1 TTTTTCTTTC
50012478 TTT
1 TTT
50012481 GGGCCGAACC
Statistics
Matches: 49, Mismatches: 2, Indels: 8
0.83 0.03 0.14
Matches are distributed among these distances:
9 11 0.22
10 17 0.35
11 18 0.37
12 3 0.06
ACGTcount: A:0.02, C:0.17, G:0.00, T:0.81
Consensus pattern (10 bp):
TTTTTCTTTC
Found at i:50012611 original size:21 final size:24
Alignment explanation
Indices: 50012574--50012635 Score: 69
Period size: 22 Copynumber: 2.8 Consensus size: 24
50012564 TCCTCTTCTC
*
50012574 TTTTATTTTCTTCTTTGCTTG-T-
1 TTTTTTTTTCTTCTTTGCTTGCTA
*
50012596 TTTTTTTTTCTT-TTTGTTTGCTA
1 TTTTTTTTTCTTCTTTGCTTGCTA
*
50012619 TTTTTTTTT-GTCTTTGC
1 TTTTTTTTTCTTCTTTGC
50012636 CCTTTTTTAT
Statistics
Matches: 33, Mismatches: 4, Indels: 5
0.79 0.10 0.12
Matches are distributed among these distances:
21 7 0.21
22 13 0.39
23 13 0.39
ACGTcount: A:0.03, C:0.11, G:0.10, T:0.76
Consensus pattern (24 bp):
TTTTTTTTTCTTCTTTGCTTGCTA
Found at i:50013208 original size:30 final size:30
Alignment explanation
Indices: 50013131--50013240 Score: 125
Period size: 30 Copynumber: 3.7 Consensus size: 30
50013121 AGGAAAATAT
* *
50013131 GGGGCCAAAATGTAATTTTTAGAAAGTTGA
1 GGGGCTAAAATGTAATTTTTAAAAAGTTGA
* * *
50013161 -GGGTTAAAATGTCATTTTTAAAAAGTTTA
1 GGGGCTAAAATGTAATTTTTAAAAAGTTGA
* *
50013190 GGGGCTAAAATATAATTTTTGAAAAGTTGA
1 GGGGCTAAAATGTAATTTTTAAAAAGTTGA
*
50013220 GAGG-TCAAAATGTAATTTTTA
1 GGGGCT-AAAATGTAATTTTTA
50013241 TTTTTTGTAT
Statistics
Matches: 65, Mismatches: 13, Indels: 4
0.79 0.16 0.05
Matches are distributed among these distances:
29 25 0.38
30 40 0.62
ACGTcount: A:0.38, C:0.05, G:0.22, T:0.35
Consensus pattern (30 bp):
GGGGCTAAAATGTAATTTTTAAAAAGTTGA
Found at i:50020711 original size:17 final size:17
Alignment explanation
Indices: 50020669--50020749 Score: 78
Period size: 17 Copynumber: 4.6 Consensus size: 17
50020659 AATTCAATTT
*
50020669 TAATATAAAT-ATTCAA
1 TAATATAAATAATTTAA
50020685 T-ATGACTAAATAATTTAA
1 TAAT-A-TAAATAATTTAA
*
50020703 TAATATAAATAATATAA
1 TAATATAAATAATTTAA
50020720 -AATATGAAATTTAATTTAA
1 TAATAT-AAA--TAATTTAA
50020739 TAATATAAATA
1 TAATATAAATA
50020750 GTAGATATAA
Statistics
Matches: 54, Mismatches: 3, Indels: 15
0.75 0.04 0.21
Matches are distributed among these distances:
15 2 0.04
16 7 0.13
17 21 0.39
18 7 0.13
19 12 0.22
20 5 0.09
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.38
Consensus pattern (17 bp):
TAATATAAATAATTTAA
Found at i:50020734 original size:19 final size:19
Alignment explanation
Indices: 50020695--50020748 Score: 60
Period size: 19 Copynumber: 2.9 Consensus size: 19
50020685 TATGACTAAA
*
50020695 TAATTTAATAATATAAA--
1 TAATATAATAATATAAATT
50020712 TAATATAA-AATATGAAATT
1 TAATATAATAATAT-AAATT
*
50020731 TAATTTAATAATATAAAT
1 TAATATAATAATATAAAT
50020749 AGTAGATATA
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
16 5 0.16
17 10 0.32
19 11 0.35
20 5 0.16
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (19 bp):
TAATATAATAATATAAATT
Found at i:50021016 original size:29 final size:30
Alignment explanation
Indices: 50020975--50021031 Score: 71
Period size: 29 Copynumber: 1.9 Consensus size: 30
50020965 AGGTGGGATG
* *
50020975 GGAATGAAATAAAAGTTTT-AGGGAAAAGT
1 GGAAGGAAATAAAAATTTTGAGGGAAAAGT
* *
50021004 GGAAGGAAGTAAAAATTTTGGGGGAAAA
1 GGAAGGAAATAAAAATTTTGAGGGAAAA
50021032 TAAAATGTTT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
29 16 0.70
30 7 0.30
ACGTcount: A:0.47, C:0.00, G:0.32, T:0.21
Consensus pattern (30 bp):
GGAAGGAAATAAAAATTTTGAGGGAAAAGT
Found at i:50021694 original size:9 final size:9
Alignment explanation
Indices: 50021677--50021713 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
50021667 TGAGTTTTCG
50021677 AATTCGAAT
1 AATTCGAAT
*
50021686 AACTCGAAT
1 AATTCGAAT
*
50021695 TATTCGAAT
1 AATTCGAAT
50021704 AATTCGAAT
1 AATTCGAAT
50021713 A
1 A
50021714 TCAAACTATA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
9 24 1.00
ACGTcount: A:0.43, C:0.14, G:0.11, T:0.32
Consensus pattern (9 bp):
AATTCGAAT
Found at i:50022268 original size:17 final size:17
Alignment explanation
Indices: 50022211--50022290 Score: 60
Period size: 17 Copynumber: 4.6 Consensus size: 17
50022201 TTATATCTAC
*
50022211 TATTTATATTATTAAAT
1 TATTTATATTATTGAAT
*
50022228 TAAATTTCACATT-TT-AAT
1 T--ATTT-ATATTATTGAAT
50022246 TATTTATATTATTGAAT
1 TATTTATATTATTGAAT
*
50022263 TGTTTAGTCA-TATTGAA-
1 TATTTA-T-ATTATTGAAT
50022280 TATTTATATTA
1 TATTTATATTA
50022291 AAATTTAATT
Statistics
Matches: 51, Mismatches: 4, Indels: 17
0.71 0.06 0.24
Matches are distributed among these distances:
15 5 0.10
16 9 0.18
17 14 0.27
18 12 0.24
19 7 0.14
20 4 0.08
ACGTcount: A:0.36, C:0.04, G:0.05, T:0.55
Consensus pattern (17 bp):
TATTTATATTATTGAAT
Found at i:50036446 original size:15 final size:15
Alignment explanation
Indices: 50036426--50036459 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
50036416 ACAACAGTAC
50036426 AACAGAATCGAA-CAA
1 AACAGAAT-GAAGCAA
50036441 AACAGAATGAAGCAA
1 AACAGAATGAAGCAA
50036456 AACA
1 AACA
50036460 TAATAAAACG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 3 0.17
15 15 0.83
ACGTcount: A:0.62, C:0.18, G:0.15, T:0.06
Consensus pattern (15 bp):
AACAGAATGAAGCAA
Found at i:50038819 original size:19 final size:19
Alignment explanation
Indices: 50038797--50038833 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
50038787 GTATATTATT
*
50038797 TATCTTAATTCATATTGGA
1 TATCCTAATTCATATTGGA
50038816 TATCCTAATTCATATTGG
1 TATCCTAATTCATATTGG
50038834 GTTGAAGCTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.30, C:0.14, G:0.11, T:0.46
Consensus pattern (19 bp):
TATCCTAATTCATATTGGA
Found at i:50042697 original size:21 final size:21
Alignment explanation
Indices: 50042671--50042711 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
50042661 AGACGAGCAA
* *
50042671 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
50042692 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
50042712 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:50053416 original size:86 final size:85
Alignment explanation
Indices: 50053321--50053492 Score: 274
Period size: 86 Copynumber: 2.0 Consensus size: 85
50053311 TCTATGACCA
* * *
50053321 TATTTTACCACATTTAATACATAAGTTACTTTAATCTTAATTCTTTACATATAGAAAAG-GAAAA
1 TATTTTACCACAATTAATACATAAGTTACTTTAATATTAATTC-TTACATATAG-AAAGTAAAAA
50053385 GGAAAATGTGAAAATGTGAGAT
64 GGAAAATGTGAAAATGTGAGAT
*
50053407 TATTTTACCACAATTAATACATAAGTTACTTTAATATTAATTCTTATATATAGAAAGTAAAAAGG
1 TATTTTACCACAATTAATACATAAGTTACTTTAATATTAATTCTTACATATAGAAAGTAAAAAGG
*
50053472 AAAATGTGAAAATGTGGGAT
66 AAAATGTGAAAATGTGAGAT
50053492 T
1 T
50053493 TGAACCTTGA
Statistics
Matches: 80, Mismatches: 5, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
84 4 0.05
85 35 0.44
86 41 0.51
ACGTcount: A:0.44, C:0.08, G:0.13, T:0.35
Consensus pattern (85 bp):
TATTTTACCACAATTAATACATAAGTTACTTTAATATTAATTCTTACATATAGAAAGTAAAAAGG
AAAATGTGAAAATGTGAGAT
Found at i:50054950 original size:112 final size:113
Alignment explanation
Indices: 50054782--50055086 Score: 407
Period size: 113 Copynumber: 2.7 Consensus size: 113
50054772 GCGGCGCTTT
* * * * *
50054782 AAAAAACTAAGCCCAACGACGCCGTTTTCTAAGCTTCCGGGGGGTTTAGCGGCGTTTTTTAATAA
1 AAAAAATTAAACCCAACGACACCGTTTTCTTAGCTTTC-GGGGGTTTAGCGGCG-TTTTTAATAA
* * * * *
50054847 TGCGCTGCTAATGC-AAGGCTTTAGCGGCGTTTTTATGGAAGCGTCGC-A
64 AGCGCCGCTAATGCTAAGGCTTTAGCGGCGCTTTTATGAAAGCGCCGCAA
* *
50054895 AAAAAATTAAACCCAACGACACCGTTTTCTTTGCTTTCGGGGGTTTAGCGGCGTTTTTAGTAAAG
1 AAAAAATTAAACCCAACGACACCGTTTTCTTAGCTTTCGGGGGTTTAGCGGCGTTTTTAATAAAG
* **
50054960 CGCCGCTAATGCTGAGTTTTTAGCGGCGCTTTTATGAAAGCGCCGCAA
66 CGCCGCTAATGCTAAGGCTTTAGCGGCGCTTTTATGAAAGCGCCGCAA
* * *
50055008 AAAAAATTTAACCCAACGACACCATTTTCTTAGCTTTTCAGGGGTTTAGCGGCGTTTTTAATAAA
1 AAAAAATTAAACCCAACGACACCGTTTTCTTAGC-TTTCGGGGGTTTAGCGGCGTTTTTAATAAA
50055073 GCGCCGCTAATGCT
65 GCGCCGCTAATGCT
50055087 CAGGGATTTA
Statistics
Matches: 169, Mismatches: 20, Indels: 5
0.87 0.10 0.03
Matches are distributed among these distances:
111 21 0.12
112 42 0.25
113 64 0.38
114 42 0.25
ACGTcount: A:0.26, C:0.21, G:0.23, T:0.30
Consensus pattern (113 bp):
AAAAAATTAAACCCAACGACACCGTTTTCTTAGCTTTCGGGGGTTTAGCGGCGTTTTTAATAAAG
CGCCGCTAATGCTAAGGCTTTAGCGGCGCTTTTATGAAAGCGCCGCAA
Found at i:50055322 original size:21 final size:21
Alignment explanation
Indices: 50055298--50055342 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
50055288 TTAAGGTTCA
* *
50055298 AGGTTTTATGGTTTAAGGGTT
1 AGGTGTTATGATTTAAGGGTT
*
50055319 AGGTGTTATGATTTAGGGGTT
1 AGGTGTTATGATTTAAGGGTT
50055340 AGG
1 AGG
50055343 GGGATTTAGG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.20, C:0.00, G:0.38, T:0.42
Consensus pattern (21 bp):
AGGTGTTATGATTTAAGGGTT
Found at i:50055352 original size:31 final size:32
Alignment explanation
Indices: 50055317--50055379 Score: 92
Period size: 31 Copynumber: 2.0 Consensus size: 32
50055307 GGTTTAAGGG
*
50055317 TTAGGTGTTATGATTT-AGGGGTTAGGGGGAT
1 TTAGGGGTTATGATTTAAGGGGTTAGGGGGAT
* *
50055348 TTAGGGGTTATGCTTTAAGGGGTTATGGGGAT
1 TTAGGGGTTATGATTTAAGGGGTTAGGGGGAT
50055380 ATATTTAGGG
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
31 14 0.50
32 14 0.50
ACGTcount: A:0.19, C:0.02, G:0.41, T:0.38
Consensus pattern (32 bp):
TTAGGGGTTATGATTTAAGGGGTTAGGGGGAT
Found at i:50055591 original size:15 final size:15
Alignment explanation
Indices: 50055553--50055592 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
50055543 GGGATTAGTG
*
50055553 TTTAGGGTGTATAAT
1 TTTAGGGTTTATAAT
50055568 TTTAGGGTTTAGT-AT
1 TTTAGGGTTTA-TAAT
50055583 TTTAGGGTTT
1 TTTAGGGTTT
50055593 TGATTAATTA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 22 0.96
16 1 0.04
ACGTcount: A:0.20, C:0.00, G:0.28, T:0.53
Consensus pattern (15 bp):
TTTAGGGTTTATAAT
Found at i:50057423 original size:25 final size:25
Alignment explanation
Indices: 50057346--50057424 Score: 61
Period size: 25 Copynumber: 3.1 Consensus size: 25
50057336 TGAAATAAGA
*
50057346 AAATTCAAACTAGGGTTAAGAAAGT
1 AAATTCAAATTAGGGTTAAGAAAGT
* ** * * *
50057371 AAGA-ACATTTTTAGGTATTAATACAGT
1 AA-ATTCA-AATTAGG-GTTAAGAAAGT
50057398 AAATTCAAATTAGGGTTAAGAAAGT
1 AAATTCAAATTAGGGTTAAGAAAGT
50057423 AA
1 AA
50057425 GAACATTTTT
Statistics
Matches: 37, Mismatches: 13, Indels: 8
0.64 0.22 0.14
Matches are distributed among these distances:
25 14 0.38
26 11 0.30
27 12 0.32
ACGTcount: A:0.47, C:0.06, G:0.18, T:0.29
Consensus pattern (25 bp):
AAATTCAAATTAGGGTTAAGAAAGT
Found at i:50057424 original size:52 final size:52
Alignment explanation
Indices: 50057346--50057444 Score: 180
Period size: 52 Copynumber: 1.9 Consensus size: 52
50057336 TGAAATAAGA
*
50057346 AAATTCAAACTAGGGTTAAGAAAGTAAGAACATTTTTAGGTATTAATACAGT
1 AAATTCAAACTAGGGTTAAGAAAGTAAGAACATTTTTAGGTAATAATACAGT
*
50057398 AAATTCAAATTAGGGTTAAGAAAGTAAGAACATTTTTAGGTAATAAT
1 AAATTCAAACTAGGGTTAAGAAAGTAAGAACATTTTTAGGTAATAAT
50057445 TTACATAACC
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 45 1.00
ACGTcount: A:0.45, C:0.06, G:0.17, T:0.31
Consensus pattern (52 bp):
AAATTCAAACTAGGGTTAAGAAAGTAAGAACATTTTTAGGTAATAATACAGT
Found at i:50058715 original size:52 final size:52
Alignment explanation
Indices: 50058643--50058847 Score: 186
Period size: 52 Copynumber: 4.1 Consensus size: 52
50058633 GTATATAACT
*
50058643 TAATACATAATAACACAATACATAA-TTGGTATATAAGCTTGCATAACTTACA
1 TAATACATAATAACACAATACATAACTT-ATATATAAGCTTGCATAACTTACA
* *
50058695 TAATACATAATAACATAATACATAACTTATATATAAGCTTGTATAACTTACA
1 TAATACATAATAACACAATACATAACTTATATATAAGCTTGCATAACTTACA
* * *
50058747 TAATA-ACT--T----C----CGTAACTTATATATAATCTGAT-AAT-ACATTACA
1 TAATACA-TAATAACACAATACATAACTTATATATAAGCT--TGCATAAC-TTACA
* *
50058790 TAATACATAATAACATAATACATAACTTATATTATAATCTTGCATAACTTACA
1 TAATACATAATAACACAATACATAACTTATA-TATAAGCTTGCATAACTTACA
50058843 TAATA
1 TAATA
50058848 ACTTACATAA
Statistics
Matches: 124, Mismatches: 10, Indels: 37
0.73 0.06 0.22
Matches are distributed among these distances:
42 19 0.15
43 13 0.10
44 2 0.02
45 1 0.01
50 1 0.01
51 1 0.01
52 53 0.43
53 24 0.19
54 10 0.08
ACGTcount: A:0.46, C:0.15, G:0.04, T:0.35
Consensus pattern (52 bp):
TAATACATAATAACACAATACATAACTTATATATAAGCTTGCATAACTTACA
Found at i:50058741 original size:21 final size:20
Alignment explanation
Indices: 50058715--50058772 Score: 62
Period size: 21 Copynumber: 2.8 Consensus size: 20
50058705 TAACATAATA
*
50058715 CATAACTTATATATAAGCTTG
1 CATAACTTATATATAA-CTTC
* *
50058736 TATAACTTACATAATAACTTC
1 CATAACTTATAT-ATAACTTC
*
50058757 CGTAACTTATATATAA
1 CATAACTTATATATAA
50058773 TCTGATAATA
Statistics
Matches: 30, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
20 4 0.13
21 22 0.73
22 4 0.13
ACGTcount: A:0.41, C:0.16, G:0.05, T:0.38
Consensus pattern (20 bp):
CATAACTTATATATAACTTC
Found at i:50058794 original size:12 final size:14
Alignment explanation
Indices: 50058777--50058813 Score: 51
Period size: 15 Copynumber: 2.7 Consensus size: 14
50058767 ATATAATCTG
50058777 ATAATACAT-T-AC
1 ATAATACATATAAC
50058789 ATAATACATAATAAC
1 ATAATACAT-ATAAC
50058804 ATAATACATA
1 ATAATACATA
50058814 ACTTATATTA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
12 9 0.41
14 2 0.09
15 11 0.50
ACGTcount: A:0.57, C:0.14, G:0.00, T:0.30
Consensus pattern (14 bp):
ATAATACATATAAC
Found at i:50058799 original size:95 final size:96
Alignment explanation
Indices: 50058690--50058867 Score: 304
Period size: 96 Copynumber: 1.9 Consensus size: 96
50058680 CTTGCATAAC
*
50058690 TTACATAATACATAATAACATAATACATAACTTATA-TATAAGCTTGTATAACTTACATAATAAC
1 TTACATAATACATAATAACATAATACATAACTTATATTATAAGCTTGCATAACTTACATAATAAC
* * *
50058754 TTCCGTAACTTATATATAATCTGATAATACA
66 TTACATAACTTACATATAATCTGATAATACA
*
50058785 TTACATAATACATAATAACATAATACATAACTTATATTATAATCTTGCATAACTTACATAATAAC
1 TTACATAATACATAATAACATAATACATAACTTATATTATAAGCTTGCATAACTTACATAATAAC
50058850 TTACATAACTTACATATA
66 TTACATAACTTACATATA
50058868 TTCATTTACG
Statistics
Matches: 77, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
95 36 0.47
96 41 0.53
ACGTcount: A:0.46, C:0.15, G:0.03, T:0.36
Consensus pattern (96 bp):
TTACATAATACATAATAACATAATACATAACTTATATTATAAGCTTGCATAACTTACATAATAAC
TTACATAACTTACATATAATCTGATAATACA
Found at i:50058807 original size:8 final size:7
Alignment explanation
Indices: 50058777--50058814 Score: 53
Period size: 7 Copynumber: 5.6 Consensus size: 7
50058767 ATATAATCTG
50058777 ATAATAC
1 ATAATAC
50058784 AT--TAC
1 ATAATAC
50058789 ATAATAC
1 ATAATAC
50058796 ATAATAAC
1 ATAAT-AC
50058804 ATAATAC
1 ATAATAC
50058811 ATAA
1 ATAA
50058815 CTTATATTAT
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
5 5 0.18
7 16 0.57
8 7 0.25
ACGTcount: A:0.58, C:0.13, G:0.00, T:0.29
Consensus pattern (7 bp):
ATAATAC
Found at i:50058835 original size:22 final size:21
Alignment explanation
Indices: 50058777--50058865 Score: 85
Period size: 22 Copynumber: 4.1 Consensus size: 21
50058767 ATATAATCTG
50058777 ATAAT-ACATTACATAA--TAC
1 ATAATAAC-TTACATAACTTAC
*
50058796 ATAATAACATAATACATAACTTAT
1 ATAATAAC-T--TACATAACTTAC
* *
50058820 ATTATAATCTTGCATAACTTAC
1 ATAATAA-CTTACATAACTTAC
50058842 ATAATAACTTACATAACTTAC
1 ATAATAACTTACATAACTTAC
50058863 ATA
1 ATA
50058866 TATTCATTTA
Statistics
Matches: 58, Mismatches: 6, Indels: 10
0.78 0.08 0.14
Matches are distributed among these distances:
19 5 0.09
20 4 0.07
21 16 0.28
22 23 0.40
24 9 0.16
25 1 0.02
ACGTcount: A:0.48, C:0.16, G:0.01, T:0.35
Consensus pattern (21 bp):
ATAATAACTTACATAACTTAC
Found at i:50058850 original size:12 final size:12
Alignment explanation
Indices: 50058833--50058857 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
50058823 ATAATCTTGC
50058833 ATAACTTACATA
1 ATAACTTACATA
50058845 ATAACTTACATA
1 ATAACTTACATA
50058857 A
1 A
50058858 CTTACATATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.52, C:0.16, G:0.00, T:0.32
Consensus pattern (12 bp):
ATAACTTACATA
Found at i:50058941 original size:41 final size:41
Alignment explanation
Indices: 50058896--50059131 Score: 145
Period size: 41 Copynumber: 5.3 Consensus size: 41
50058886 CTATATTTAA
50058896 ATTTTATTAATAATAAATTTATAACTTAAATAAGTATTACT
1 ATTTTATTAATAATAAATTTATAACTTAAATAAGTATTACT
* * * ** *
50058937 ATTTTTTTAATATTATACATATATTCATTTACGTATGTAAGCTATATTTA-A
1 ATTTTATTAATA--ATA-A-AT-TT-A-TAACTTAAATAAG---TA-TTACT
50058988 ATTTTATTAATAATAAATTTATAACTTAAATAAGTATTACT
1 ATTTTATTAATAATAAATTTATAACTTAAATAAGTATTACT
* * * ** *
50059029 ATTTTTTTAATATTATACATATATTCATTTACGTATGTAAGCTATATTTA-A
1 ATTTTATTAATA--ATA-A-AT-TT-A-TAACTTAAATAAG---TA-TTACT
50059080 ATTTTATTAATAATAAATTTATAACTTAAATAAGTATTACT
1 ATTTTATTAATAATAAATTTATAACTTAAATAAGTATTACT
50059121 ATTTT-TTAATA
1 ATTTTATTAATA
50059132 TTATACATAT
Statistics
Matches: 147, Mismatches: 24, Indels: 49
0.67 0.11 0.22
Matches are distributed among these distances:
40 12 0.08
41 31 0.21
43 6 0.04
44 20 0.14
45 6 0.04
46 8 0.05
47 6 0.04
48 20 0.14
49 6 0.04
51 26 0.18
52 6 0.04
ACGTcount: A:0.41, C:0.06, G:0.04, T:0.49
Consensus pattern (41 bp):
ATTTTATTAATAATAAATTTATAACTTAAATAAGTATTACT
Found at i:50058967 original size:51 final size:50
Alignment explanation
Indices: 50058912--50059150 Score: 162
Period size: 42 Copynumber: 5.1 Consensus size: 50
50058902 TTAATAATAA
50058912 ATTTATAACTTAAATAAGTATTACTATTTTTTTAATATTATACATATATTC
1 ATTTATAACTTAAATAAGTATTACTA-TTTTTTAATATTATACATATATTC
* * * * **
50058963 A-TT-T-ACGT--AT--GTA--AGCTATATTTAAATTTTATTA-ATA-ATAA
1 ATTTATAACTTAAATAAGTATTA-CTATTTTTTAATATTA-TACATATATTC
50059004 ATTTATAACTTAAATAAGTATTACTATTTTTTTAATATTATACATATATTC
1 ATTTATAACTTAAATAAGTATTACTA-TTTTTTAATATTATACATATATTC
* * * * **
50059055 A-TT-T-ACGT--AT--GTA--AGCTATATTTAAATTTTATTA-ATA-ATAA
1 ATTTATAACTTAAATAAGTATTA-CTATTTTTTAATATTA-TACATATATTC
50059096 ATTTATAACTTAAATAAGTATTACTATTTTTTAATATTATACATATATTC
1 ATTTATAACTTAAATAAGTATTACTATTTTTTAATATTATACATATATTC
50059146 ATTTA
1 ATTTA
50059151 CATAACACAT
Statistics
Matches: 137, Mismatches: 24, Indels: 55
0.63 0.11 0.25
Matches are distributed among these distances:
41 6 0.04
42 32 0.23
43 12 0.09
44 12 0.09
46 8 0.06
48 14 0.10
49 23 0.17
50 26 0.19
51 4 0.03
ACGTcount: A:0.40, C:0.07, G:0.04, T:0.49
Consensus pattern (50 bp):
ATTTATAACTTAAATAAGTATTACTATTTTTTAATATTATACATATATTC
Found at i:50058970 original size:92 final size:92
Alignment explanation
Indices: 50058860--50059151 Score: 577
Period size: 92 Copynumber: 3.2 Consensus size: 92
50058850 TTACATAACT
50058860 TACATATATTCATTTACGTATGTAAGCTATATTTAAATTTTATTAATAATAAATTTATAACTTAA
1 TACATATATTCATTTACGTATGTAAGCTATATTTAAATTTTATTAATAATAAATTTATAACTTAA
50058925 ATAAGTATTACTATTTTTTTAATATTA
66 ATAAGTATTACTATTTTTTTAATATTA
50058952 TACATATATTCATTTACGTATGTAAGCTATATTTAAATTTTATTAATAATAAATTTATAACTTAA
1 TACATATATTCATTTACGTATGTAAGCTATATTTAAATTTTATTAATAATAAATTTATAACTTAA
50059017 ATAAGTATTACTATTTTTTTAATATTA
66 ATAAGTATTACTATTTTTTTAATATTA
50059044 TACATATATTCATTTACGTATGTAAGCTATATTTAAATTTTATTAATAATAAATTTATAACTTAA
1 TACATATATTCATTTACGTATGTAAGCTATATTTAAATTTTATTAATAATAAATTTATAACTTAA
50059109 ATAAGTATTACTA-TTTTTTAATATTA
66 ATAAGTATTACTATTTTTTTAATATTA
50059135 TACATATATTCATTTAC
1 TACATATATTCATTTAC
50059152 ATAACACATA
Statistics
Matches: 200, Mismatches: 0, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
91 30 0.15
92 170 0.85
ACGTcount: A:0.40, C:0.07, G:0.04, T:0.49
Consensus pattern (92 bp):
TACATATATTCATTTACGTATGTAAGCTATATTTAAATTTTATTAATAATAAATTTATAACTTAA
ATAAGTATTACTATTTTTTTAATATTA
Found at i:50059171 original size:9 final size:9
Alignment explanation
Indices: 50059148--50059523 Score: 111
Period size: 9 Copynumber: 43.9 Consensus size: 9
50059138 ATATATTCAT
50059148 TTACATAAC
1 TTACATAAC
50059157 --ACATAAC
1 TTACATAAC
50059164 TTACATAAC
1 TTACATAAC
* *
50059173 CTACTTAA-
1 TTACATAAC
*
50059181 -TATATAAC
1 TTACATAAC
*
50059189 TTGCATAAC
1 TTACATAAC
* *
50059198 TTAAATAAG
1 TTACATAAC
*
50059207 TTACGTAA-
1 TTACATAAC
50059215 TAATACATAA-
1 T--TACATAAC
*
50059225 -TACACAAC
1 TTACATAAC
*
50059233 TTACAT-GC
1 TTACATAAC
* *
50059241 GTAAATAA-
1 TTACATAAC
* *
50059249 -TACAGAGC
1 TTACATAAC
50059257 TTACATAAC
1 TTACATAAC
*
50059266 TTACATACC
1 TTACATAAC
* *
50059275 CTACATAAA
1 TTACATAAC
* *
50059284 TTAAATAAG
1 TTACATAAC
50059293 TTACATAA-
1 TTACATAAC
*
50059301 TAATACATACC
1 T--TACATAAC
* *
50059312 CTACATAAA
1 TTACATAAC
* *
50059321 TTAAATAAG
1 TTACATAAC
50059330 TTACATAA-
1 TTACATAAC
*
50059338 TAATACATACC
1 T--TACATAAC
*
50059349 CTACATAAC
1 TTACATAAC
50059358 TTACATAA-
1 TTACATAAC
*
50059366 -GACATAAC
1 TTACATAAC
*
50059374 TTTCATAA-
1 TTACATAAC
*
50059382 -TACACAAC
1 TTACATAAC
**
50059390 TTACGCAAC
1 TTACATAAC
50059399 TTACATAA-
1 TTACATAAC
*
50059407 -GACATAAC
1 TTACATAAC
*
50059415 TTACAT--G
1 TTACATAAC
*
50059422 TGTAAATAA-
1 T-TACATAAC
**
50059431 -TACATATT
1 TTACATAAC
50059439 TTACATAAC
1 TTACATAAC
50059448 TTACATAA-
1 TTACATAAC
*
50059456 -GACATAAC
1 TTACATAAC
*
50059464 TTACATAAG
1 TTACATAAC
*
50059473 TTTCATAA-
1 TTACATAAC
* *
50059481 -TACACATC
1 TTACATAAC
***
50059489 TTATGCAAC
1 TTACATAAC
*
50059498 TTACACAAC
1 TTACATAAC
50059507 TTACATAAC
1 TTACATAAC
50059516 TTACATAA
1 TTACATAA
50059524 TGTATATCTT
Statistics
Matches: 263, Mismatches: 72, Indels: 64
0.66 0.18 0.16
Matches are distributed among these distances:
7 55 0.21
8 12 0.05
9 178 0.68
10 18 0.07
ACGTcount: A:0.46, C:0.19, G:0.05, T:0.30
Consensus pattern (9 bp):
TTACATAAC
Found at i:50059311 original size:37 final size:37
Alignment explanation
Indices: 50059267--50059366 Score: 182
Period size: 37 Copynumber: 2.7 Consensus size: 37
50059257 TTACATAACT
50059267 TACATACCCTACATAAATTAAATAAGTTACATAATAA
1 TACATACCCTACATAAATTAAATAAGTTACATAATAA
50059304 TACATACCCTACATAAATTAAATAAGTTACATAATAA
1 TACATACCCTACATAAATTAAATAAGTTACATAATAA
* *
50059341 TACATACCCTACATAACTTACATAAG
1 TACATACCCTACATAAATTAAATAAG
50059367 ACATAACTTT
Statistics
Matches: 61, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 61 1.00
ACGTcount: A:0.49, C:0.19, G:0.03, T:0.29
Consensus pattern (37 bp):
TACATACCCTACATAAATTAAATAAGTTACATAATAA
Found at i:50059370 original size:16 final size:16
Alignment explanation
Indices: 50059351--50059472 Score: 82
Period size: 16 Copynumber: 8.0 Consensus size: 16
50059341 TACATACCCT
50059351 ACATAACTTACATAAG
1 ACATAACTTACATAAG
* *
50059367 ACATAACTTTCATAAT
1 ACATAACTTACATAAG
*
50059383 ACACAACTTAC----G
1 ACATAACTTACATAAG
50059395 -C--AACTTACATAAG
1 ACATAACTTACATAAG
**
50059408 ACATAACTTACATGTG
1 ACATAACTTACATAAG
* **
50059424 TAAATAA--TACATATTTT
1 -ACATAACTTACATA--AG
50059441 ACATAACTTACATAAG
1 ACATAACTTACATAAG
50059457 ACATAACTTACATAAG
1 ACATAACTTACATAAG
50059473 TTTCATAATA
Statistics
Matches: 81, Mismatches: 13, Indels: 24
0.69 0.11 0.20
Matches are distributed among these distances:
9 7 0.09
11 1 0.01
13 1 0.01
14 1 0.01
15 5 0.06
16 54 0.67
17 6 0.07
18 6 0.07
ACGTcount: A:0.46, C:0.19, G:0.06, T:0.30
Consensus pattern (16 bp):
ACATAACTTACATAAG
Found at i:50059491 original size:25 final size:25
Alignment explanation
Indices: 50059367--50059523 Score: 93
Period size: 25 Copynumber: 6.2 Consensus size: 25
50059357 CTTACATAAG
* * *
50059367 ACATAACTTTCATAATACACAACTT
1 ACATAACTTACATAATACATATCTT
** * *
50059392 ACGCAACTTACATAAGACATAACTT
1 ACATAACTTACATAATACATATCTT
* * *
50059417 ACAT--GTGTAAATAATACATATTTT
1 ACATAACT-TACATAATACATATCTT
* *
50059441 ACATAACTTACATAAGACATAACTT
1 ACATAACTTACATAATACATATCTT
* * *
50059466 ACATAAGTTTCATAATACACATCTT
1 ACATAACTTACATAATACATATCTT
*** * *
50059491 ATGCAACTTACACAACTTACATAACTT
1 ACATAACTTACATAA--TACATATCTT
50059518 ACATAA
1 ACATAA
50059524 TGTATATCTT
Statistics
Matches: 94, Mismatches: 33, Indels: 8
0.70 0.24 0.06
Matches are distributed among these distances:
23 1 0.01
24 17 0.18
25 64 0.68
26 1 0.01
27 11 0.12
ACGTcount: A:0.44, C:0.20, G:0.04, T:0.31
Consensus pattern (25 bp):
ACATAACTTACATAATACATATCTT
Found at i:50065055 original size:30 final size:30
Alignment explanation
Indices: 50065021--50065078 Score: 98
Period size: 30 Copynumber: 1.9 Consensus size: 30
50065011 GGGACACGGT
*
50065021 TGTGTGTCCCTATTTCGAATGTTACACGAC
1 TGTGTGTCCCTATTTCAAATGTTACACGAC
*
50065051 TGTGTGTCCTTATTTCAAATGTTACACG
1 TGTGTGTCCCTATTTCAAATGTTACACG
50065079 GCTTGAGACA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.21, C:0.21, G:0.19, T:0.40
Consensus pattern (30 bp):
TGTGTGTCCCTATTTCAAATGTTACACGAC
Found at i:50066312 original size:21 final size:21
Alignment explanation
Indices: 50066286--50066340 Score: 83
Period size: 21 Copynumber: 2.6 Consensus size: 21
50066276 AACAGCGGTG
*
50066286 GCGGTGAGATTAGTTACTGTA
1 GCGGTGAGATTAGGTACTGTA
*
50066307 GCGGTGAGATTGGGTACTGTA
1 GCGGTGAGATTAGGTACTGTA
*
50066328 GTGGTGAGATTAG
1 GCGGTGAGATTAG
50066341 AAACAATGGT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.22, C:0.07, G:0.40, T:0.31
Consensus pattern (21 bp):
GCGGTGAGATTAGGTACTGTA
Found at i:50066653 original size:22 final size:22
Alignment explanation
Indices: 50066602--50066653 Score: 52
Period size: 22 Copynumber: 2.3 Consensus size: 22
50066592 TTTTATAGTT
*
50066602 ATAATTAAATATTTTTTATAACA
1 ATAA-TAAATATTATTTATAACA
* *
50066625 ATGATAAATATTATTT-TCACAA
1 ATAATAAATATTATTTATAAC-A
50066647 ATAATAA
1 ATAATAA
50066654 CATTATACTT
Statistics
Matches: 24, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
21 3 0.12
22 18 0.75
23 3 0.12
ACGTcount: A:0.50, C:0.06, G:0.02, T:0.42
Consensus pattern (22 bp):
ATAATAAATATTATTTATAACA
Found at i:50075387 original size:21 final size:22
Alignment explanation
Indices: 50075337--50075387 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 22
50075327 ATATATATAT
* *
50075337 ATATTAATTATTTTTTTAAGAA
1 ATATTATTTATTTTTGTAAGAA
*
50075359 A-ATAATTTATTTTTGTAA-AA
1 ATATTATTTATTTTTGTAAGAA
50075379 ATATTATTT
1 ATATTATTT
50075388 TTATTTCCAT
Statistics
Matches: 24, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
20 3 0.12
21 20 0.83
22 1 0.04
ACGTcount: A:0.41, C:0.00, G:0.04, T:0.55
Consensus pattern (22 bp):
ATATTATTTATTTTTGTAAGAA
Found at i:50075753 original size:25 final size:24
Alignment explanation
Indices: 50075710--50075790 Score: 135
Period size: 24 Copynumber: 3.3 Consensus size: 24
50075700 ATTATATATT
50075710 AAATATATTTTTTAATTTTTAATC
1 AAATATATTTTTTAATTTTTAATC
50075734 AAATATATTTTTTAATTTTTAATC
1 AAATATATTTTTTAATTTTTAATC
* *
50075758 AAATATATATTTTTTATTTTTAATA
1 AAATATAT-TTTTTAATTTTTAATC
50075783 AAATATAT
1 AAATATAT
50075791 ATTTAACATG
Statistics
Matches: 54, Mismatches: 2, Indels: 1
0.95 0.04 0.02
Matches are distributed among these distances:
24 32 0.59
25 22 0.41
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (24 bp):
AAATATATTTTTTAATTTTTAATC
Found at i:50075791 original size:25 final size:25
Alignment explanation
Indices: 50075712--50075794 Score: 132
Period size: 25 Copynumber: 3.3 Consensus size: 25
50075702 TATATATTAA
50075712 ATATATTTTTTAATTTTTAATCAAAT
1 ATATATTTTTT-ATTTTTAATCAAAT
*
50075738 ATAT-TTTTTAATTTTTAATCAAAT
1 ATATATTTTTTATTTTTAATCAAAT
*
50075762 ATATATTTTTTATTTTTAATAAAAT
1 ATATATTTTTTATTTTTAATCAAAT
50075787 ATATATTT
1 ATATATTT
50075795 AACATGGGTC
Statistics
Matches: 53, Mismatches: 3, Indels: 3
0.90 0.05 0.05
Matches are distributed among these distances:
24 18 0.34
25 31 0.58
26 4 0.08
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (25 bp):
ATATATTTTTTATTTTTAATCAAAT
Found at i:50076991 original size:4 final size:4
Alignment explanation
Indices: 50076982--50077007 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
50076972 TGAGGTCTCT
50076982 TTTC TTTC TTTC TTTC TTTC TTTC TT
1 TTTC TTTC TTTC TTTC TTTC TTTC TT
50077008 CACATACAAG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (4 bp):
TTTC
Found at i:50084961 original size:26 final size:25
Alignment explanation
Indices: 50084930--50084982 Score: 70
Period size: 25 Copynumber: 2.1 Consensus size: 25
50084920 TAGTGTTTTT
*
50084930 TATTTTTATGTAATATTTTTTAAAAA
1 TATTTTTATGTAA-AGTTTTTAAAAA
* *
50084956 TATTTTTCTTTAAAGTTTTTAAAAA
1 TATTTTTATGTAAAGTTTTTAAAAA
50084981 TA
1 TA
50084983 ATCATAAAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
25 13 0.54
26 11 0.46
ACGTcount: A:0.38, C:0.02, G:0.04, T:0.57
Consensus pattern (25 bp):
TATTTTTATGTAAAGTTTTTAAAAA
Found at i:50085624 original size:22 final size:21
Alignment explanation
Indices: 50085544--50085664 Score: 54
Period size: 25 Copynumber: 5.3 Consensus size: 21
50085534 AGATATTGTG
50085544 ATAATTATACATTTAAAAATAATT
1 ATAATT-TA-ATTT-AAAATAATT
50085568 ATAATTTAA--TAAAAT--TT
1 ATAATTTAATTTAAAATAATT
*
50085585 GTAATAATTACACGTTTAGAAATAATT
1 ATAAT--TTA-A--TTTA-AAATAATT
50085612 ATAATTTAATTTACAAATATTACTT
1 ATAATTTAATTTA-AAATA--A-TT
*
50085637 AAAATTTTTAA-TTAAAATAATT
1 ATAA--TTTAATTTAAAATAATT
50085659 ATAATT
1 ATAATT
50085665 GAAGTAAAAG
Statistics
Matches: 77, Mismatches: 5, Indels: 34
0.66 0.04 0.29
Matches are distributed among these distances:
17 6 0.08
19 8 0.10
20 4 0.05
22 15 0.19
23 3 0.04
24 10 0.13
25 17 0.22
26 3 0.04
27 11 0.14
ACGTcount: A:0.50, C:0.04, G:0.02, T:0.44
Consensus pattern (21 bp):
ATAATTTAATTTAAAATAATT
Found at i:50086129 original size:31 final size:29
Alignment explanation
Indices: 50086091--50086160 Score: 86
Period size: 29 Copynumber: 2.3 Consensus size: 29
50086081 ACTATTAAAA
* *
50086091 TAGTCACTTTTGTTTGTCTAAGGTTACATTT
1 TAGTCACTTATGTTTG--AAAGGTTACATTT
* *
50086122 TAGTCACTTATGTTTGAAATGTTACGTTT
1 TAGTCACTTATGTTTGAAAGGTTACATTT
50086151 TAGTCACTTA
1 TAGTCACTTA
50086161 CGTTATCCTG
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
29 20 0.57
31 15 0.43
ACGTcount: A:0.23, C:0.13, G:0.16, T:0.49
Consensus pattern (29 bp):
TAGTCACTTATGTTTGAAAGGTTACATTT
Found at i:50086459 original size:20 final size:20
Alignment explanation
Indices: 50086438--50086474 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 20
50086428 AACAATTTCT
*
50086438 TTTTCTTTTTCT-TCTTCCC
1 TTTTATTTTTCTCTCTTCCC
50086457 TTTTATTTTTCTCTCTTC
1 TTTTATTTTTCTCTCTTC
50086475 TCATATTCTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
19 11 0.69
20 5 0.31
ACGTcount: A:0.03, C:0.27, G:0.00, T:0.70
Consensus pattern (20 bp):
TTTTATTTTTCTCTCTTCCC
Found at i:50087616 original size:15 final size:16
Alignment explanation
Indices: 50087588--50087620 Score: 59
Period size: 15 Copynumber: 2.1 Consensus size: 16
50087578 AGTTTACTCT
50087588 AATAAAAGTTCGTTCA
1 AATAAAAGTTCGTTCA
50087604 AATAAAA-TTCGTTCA
1 AATAAAAGTTCGTTCA
50087619 AA
1 AA
50087621 GTACACCTCC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 10 0.59
16 7 0.41
ACGTcount: A:0.48, C:0.12, G:0.09, T:0.30
Consensus pattern (16 bp):
AATAAAAGTTCGTTCA
Done.