Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr4
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: 30015117
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1306243 characters in sequence are not A, C, G, or T
File 29 of 85
Found at i:9686820 original size:3 final size:3
Alignment explanation
Indices: 9686812--9686882 Score: 61
Period size: 3 Copynumber: 22.7 Consensus size: 3
9686802 CTTAGTCCCT
* * * *
9686812 TTA TTA TTA TTA TTA TTA TTTA GTTCA TTG TTT TTA TTG CTA TTA TTA
1 TTA TTA TTA TTA TTA TTA -TTA -TT-A TTA TTA TTA TTA TTA TTA TTA
* *
9686860 TTA ATG TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TT
9686883 GTTTCTACAT
Statistics
Matches: 54, Mismatches: 12, Indels: 4
0.77 0.17 0.06
Matches are distributed among these distances:
3 46 0.85
4 7 0.13
5 1 0.02
ACGTcount: A:0.27, C:0.03, G:0.06, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:9692437 original size:7 final size:7
Alignment explanation
Indices: 9692427--9692489 Score: 58
Period size: 7 Copynumber: 8.9 Consensus size: 7
9692417 AAAAAAAAGG
9692427 AAAAAAC
1 AAAAAAC
9692434 AAAAAA-
1 AAAAAAC
9692440 AACAAAAC
1 AA-AAAAC
*
9692448 AAAAAAA
1 AAAAAAC
9692455 ATAAAAATC
1 A-AAAAA-C
9692464 -AAAAAC
1 AAAAAAC
*
9692470 AAAAATC
1 AAAAAAC
*
9692477 AAAAATC
1 AAAAAAC
9692484 AAAAAA
1 AAAAAA
9692490 ATCGAAGTAA
Statistics
Matches: 47, Mismatches: 4, Indels: 10
0.77 0.07 0.16
Matches are distributed among these distances:
6 3 0.06
7 37 0.79
8 7 0.15
ACGTcount: A:0.83, C:0.11, G:0.00, T:0.06
Consensus pattern (7 bp):
AAAAAAC
Found at i:9692467 original size:13 final size:13
Alignment explanation
Indices: 9692451--9692488 Score: 58
Period size: 13 Copynumber: 2.8 Consensus size: 13
9692441 ACAAAACAAA
9692451 AAAAATAAAAATC
1 AAAAATAAAAATC
*
9692464 AAAAACAAAAATC
1 AAAAATAAAAATC
9692477 AAAAATCAAAAA
1 AAAAAT-AAAAA
9692489 AATCGAAGTA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
13 17 0.77
14 5 0.23
ACGTcount: A:0.79, C:0.11, G:0.00, T:0.11
Consensus pattern (13 bp):
AAAAATAAAAATC
Found at i:9692474 original size:14 final size:14
Alignment explanation
Indices: 9692427--9692489 Score: 51
Period size: 13 Copynumber: 4.4 Consensus size: 14
9692417 AAAAAAAAGG
9692427 AAAAAA-CAAAAA-
1 AAAAAATCAAAAAC
* *
9692439 AAACAAAACAAAAAAA
1 AAA-AAATC-AAAAAC
9692455 ATAAAAATCAAAAAC
1 A-AAAAATCAAAAAC
9692470 -AAAAATCAAAAATC
1 AAAAAATCAAAAA-C
9692484 AAAAAA
1 AAAAAA
9692490 ATCGAAGTAA
Statistics
Matches: 42, Mismatches: 2, Indels: 11
0.76 0.04 0.20
Matches are distributed among these distances:
12 3 0.07
13 15 0.36
14 2 0.05
15 15 0.36
16 5 0.12
17 2 0.05
ACGTcount: A:0.83, C:0.11, G:0.00, T:0.06
Consensus pattern (14 bp):
AAAAAATCAAAAAC
Found at i:9692482 original size:20 final size:19
Alignment explanation
Indices: 9692451--9692488 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 19
9692441 ACAAAACAAA
9692451 AAAAATAAAAATCAAAAAC
1 AAAAATAAAAATCAAAAAC
9692470 AAAAATCAAAAATCAAAAA
1 AAAAAT-AAAAATCAAAAA
9692489 AATCGAAGTA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 6 0.33
20 12 0.67
ACGTcount: A:0.79, C:0.11, G:0.00, T:0.11
Consensus pattern (19 bp):
AAAAATAAAAATCAAAAAC
Found at i:9692513 original size:26 final size:27
Alignment explanation
Indices: 9692484--9692540 Score: 71
Period size: 26 Copynumber: 2.1 Consensus size: 27
9692474 ATCAAAAATC
** * *
9692484 AAAAAAATCGAAGTAAAAA-AAAAGGA
1 AAAAAAAGAGAAGAAAAAAGAAAAAGA
9692510 AAAAAAAGAGAAGAAAAAAGAAAAAGA
1 AAAAAAAGAGAAGAAAAAAGAAAAAGA
9692537 AAAA
1 AAAA
9692541 GGAGAGGTCA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
26 16 0.62
27 10 0.38
ACGTcount: A:0.79, C:0.02, G:0.16, T:0.04
Consensus pattern (27 bp):
AAAAAAAGAGAAGAAAAAAGAAAAAGA
Found at i:9692514 original size:13 final size:12
Alignment explanation
Indices: 9692498--9692540 Score: 50
Period size: 13 Copynumber: 3.3 Consensus size: 12
9692488 AAATCGAAGT
*
9692498 AAAAAAAAAGGA
1 AAAAAAAAAAGA
9692510 AAAAAAAGAGAAGA
1 AAAAAAA-A-AAGA
9692524 AAAAAGAAAAAGA
1 AAAAA-AAAAAGA
9692537 AAAA
1 AAAA
9692541 GGAGAGGTCA
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
12 7 0.26
13 9 0.33
14 9 0.33
15 2 0.07
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (12 bp):
AAAAAAAAAAGA
Found at i:9703282 original size:2 final size:2
Alignment explanation
Indices: 9703277--9703301 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
9703267 TATATATATA
9703277 TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG T
9703302 TTATATATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.00, C:0.00, G:0.48, T:0.52
Consensus pattern (2 bp):
TG
Found at i:9704815 original size:18 final size:19
Alignment explanation
Indices: 9704785--9704829 Score: 65
Period size: 19 Copynumber: 2.4 Consensus size: 19
9704775 TATTCTTCAA
9704785 AATTTTATATAAAT-TTTGG
1 AATTTT-TATAAATATTTGG
*
9704804 AATTTTTATAAATATTTTG
1 AATTTTTATAAATATTTGG
9704823 AATTTTT
1 AATTTTT
9704830 TTGTAATTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
18 7 0.29
19 17 0.71
ACGTcount: A:0.36, C:0.00, G:0.07, T:0.58
Consensus pattern (19 bp):
AATTTTTATAAATATTTGG
Found at i:9704830 original size:20 final size:19
Alignment explanation
Indices: 9704785--9704830 Score: 58
Period size: 18 Copynumber: 2.4 Consensus size: 19
9704775 TATTCTTCAA
*
9704785 AATTTTATATAAATTTTGG
1 AATTTTTTATAAATTTTGG
*
9704804 AA-TTTTTATAAATATTTTG
1 AATTTTTTATAAAT-TTTGG
9704823 AATTTTTT
1 AATTTTTT
9704831 TGTAATTTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
18 10 0.43
19 8 0.35
20 5 0.22
ACGTcount: A:0.35, C:0.00, G:0.07, T:0.59
Consensus pattern (19 bp):
AATTTTTTATAAATTTTGG
Found at i:9705902 original size:10 final size:9
Alignment explanation
Indices: 9705874--9705900 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
9705864 CGGAAATAAA
9705874 AATATTTTT
1 AATATTTTT
9705883 AATATTTTT
1 AATATTTTT
9705892 AATATTTTT
1 AATATTTTT
9705901 TATGTTAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (9 bp):
AATATTTTT
Found at i:9709063 original size:8 final size:8
Alignment explanation
Indices: 9709028--9709069 Score: 50
Period size: 8 Copynumber: 5.1 Consensus size: 8
9709018 CCAATTCTAA
9709028 TTTTCTTT
1 TTTTCTTT
9709036 TTTCTCTTCT
1 TTT-TCTT-T
*
9709046 TTAT-TTT
1 TTTTCTTT
9709053 TTTTCTTT
1 TTTTCTTT
9709061 TTTTCTTT
1 TTTTCTTT
9709069 T
1 T
9709070 GATTTGTTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
7 4 0.14
8 17 0.59
9 5 0.17
10 3 0.10
ACGTcount: A:0.02, C:0.14, G:0.00, T:0.83
Consensus pattern (8 bp):
TTTTCTTT
Found at i:9709956 original size:27 final size:25
Alignment explanation
Indices: 9709900--9709964 Score: 94
Period size: 25 Copynumber: 2.5 Consensus size: 25
9709890 TTTGTATATG
*
9709900 ATTATTTTAACTTGCTTTATAGATT
1 ATTATTTTAAGTTGCTTTATAGATT
*
9709925 ATTATTTTAAGTTGCTTTATATATT
1 ATTATTTTAAGTTGCTTTATAGATT
9709950 ATTTTATTTTAAGTT
1 A--TTATTTTAAGTT
9709965 ATTCTACATA
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
25 24 0.67
27 12 0.33
ACGTcount: A:0.28, C:0.05, G:0.08, T:0.60
Consensus pattern (25 bp):
ATTATTTTAAGTTGCTTTATAGATT
Found at i:9709975 original size:27 final size:26
Alignment explanation
Indices: 9709901--9709987 Score: 79
Period size: 25 Copynumber: 3.3 Consensus size: 26
9709891 TTGTATATGA
* * * *
9709901 TTATTTTAACTTGCTTTATAGATTA-
1 TTATTTTAAGTTGATTTACATATTAC
* * *
9709926 TTATTTTAAGTTGCTTTATATATTATT
1 TTATTTTAAGTTGATTTACATATTA-C
9709953 TTATTTTAAGTT-ATTCTACATATTAC
1 TTATTTTAAGTTGATT-TACATATTAC
9709979 TTATTTTAA
1 TTATTTTAA
9709988 AATTAACCCA
Statistics
Matches: 54, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
25 23 0.43
26 11 0.20
27 20 0.37
ACGTcount: A:0.29, C:0.07, G:0.06, T:0.59
Consensus pattern (26 bp):
TTATTTTAAGTTGATTTACATATTAC
Found at i:9722765 original size:44 final size:44
Alignment explanation
Indices: 9722243--9722764 Score: 811
Period size: 44 Copynumber: 12.0 Consensus size: 44
9722233 ATCGAAGATA
* *
9722243 TAAGTCCTATCTCCCTGACCAGCAGTGGAATAGGTGGAATATTG
1 TAAGCCCTATCTCCCTGACCAGCAGTGGAATAGGTGGAAGATTG
* *
9722287 TAAGTCCTATCTCACTGACCAGCAGTGGAATAGGTGGAAGATTG
1 TAAGCCCTATCTCCCTGACCAGCAGTGGAATAGGTGGAAGATTG
*
9722331 TAAGCCCTATCTCCCTGACCAGCAGTGGAATAAGTGGAAGATTG
1 TAAGCCCTATCTCCCTGACCAGCAGTGGAATAGGTGGAAGATTG
9722375 TAAGCCCTATCTCCCTGACCAGCAGTGGAATAGGTGGAAGATTG
1 TAAGCCCTATCTCCCTGACCAGCAGTGGAATAGGTGGAAGATTG
* *
9722419 TAAACCCTATCTCCCT-A--ACCA--GGAATAGGTGGAAGATTG
1 TAAGCCCTATCTCCCTGACCAGCAGTGGAATAGGTGGAAGATTG
**
9722458 TAAGCCCTATCTCCCTGACCAATAGTGGAATAGGTGGAAGATTG
1 TAAGCCCTATCTCCCTGACCAGCAGTGGAATAGGTGGAAGATTG
9722502 TAAGCCCTATCTCCCTGACCAGCAGTGGAATAGGTGGAAGATTG
1 TAAGCCCTATCTCCCTGACCAGCAGTGGAATAGGTGGAAGATTG
* *
9722546 TAAGTCCTATCTCCCTAACCAGCAGTGGAATAGGTGGAAGATTG
1 TAAGCCCTATCTCCCTGACCAGCAGTGGAATAGGTGGAAGATTG
*
9722590 TAAGCCCTATCTCCCTGACCAGCAGTGGAATAGGTGGAATATTG
1 TAAGCCCTATCTCCCTGACCAGCAGTGGAATAGGTGGAAGATTG
9722634 TAAGCCCTATCTCCCTGACCAGCAGTGGAATAGGTGGAAGATTG
1 TAAGCCCTATCTCCCTGACCAGCAGTGGAATAGGTGGAAGATTG
* * * *
9722678 TAAGTCCTATATCCCTGACCAGCAGTGGAATAGGTTGAAGATTA
1 TAAGCCCTATCTCCCTGACCAGCAGTGGAATAGGTGGAAGATTG
* * * ** *
9722722 CAAGTCCTATCTCCCTAATTAGCAGTGGAATAGGTGGATGATT
1 TAAGCCCTATCTCCCTGACCAGCAGTGGAATAGGTGGAAGATT
9722765 AGTTTCTATG
Statistics
Matches: 443, Mismatches: 30, Indels: 10
0.92 0.06 0.02
Matches are distributed among these distances:
39 33 0.07
40 1 0.00
41 3 0.01
42 2 0.00
43 1 0.00
44 403 0.91
ACGTcount: A:0.29, C:0.21, G:0.25, T:0.25
Consensus pattern (44 bp):
TAAGCCCTATCTCCCTGACCAGCAGTGGAATAGGTGGAAGATTG
Found at i:9724769 original size:17 final size:18
Alignment explanation
Indices: 9724738--9724771 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
9724728 CTAATTTTCC
9724738 TTTTTCTCTTCTTTATTA
1 TTTTTCTCTTCTTTATTA
*
9724756 TTTTTCT-TTTTTTATT
1 TTTTTCTCTTCTTTATT
9724772 TTGATTTGTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.09, C:0.12, G:0.00, T:0.79
Consensus pattern (18 bp):
TTTTTCTCTTCTTTATTA
Found at i:9725662 original size:27 final size:25
Alignment explanation
Indices: 9725606--9725670 Score: 94
Period size: 25 Copynumber: 2.5 Consensus size: 25
9725596 TTCATATATG
*
9725606 ATTATTTTAACTTGCTTTATAGATT
1 ATTATTTTAAGTTGCTTTATAGATT
*
9725631 ATTATTTTAAGTTGCTTTATATATT
1 ATTATTTTAAGTTGCTTTATAGATT
9725656 ATTTTATTTTAAGTT
1 A--TTATTTTAAGTT
9725671 ATTCTACATA
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
25 24 0.67
27 12 0.33
ACGTcount: A:0.28, C:0.05, G:0.08, T:0.60
Consensus pattern (25 bp):
ATTATTTTAAGTTGCTTTATAGATT
Found at i:9725681 original size:27 final size:26
Alignment explanation
Indices: 9725607--9725693 Score: 79
Period size: 25 Copynumber: 3.3 Consensus size: 26
9725597 TCATATATGA
* * * *
9725607 TTATTTTAACTTGCTTTATAGATTA-
1 TTATTTTAAGTTGATTTACATATTAC
* * *
9725632 TTATTTTAAGTTGCTTTATATATTATT
1 TTATTTTAAGTTGATTTACATATTA-C
9725659 TTATTTTAAGTT-ATTCTACATATTAC
1 TTATTTTAAGTTGATT-TACATATTAC
9725685 TTATTTTAA
1 TTATTTTAA
9725694 AATTAACCCA
Statistics
Matches: 54, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
25 23 0.43
26 11 0.20
27 20 0.37
ACGTcount: A:0.29, C:0.07, G:0.06, T:0.59
Consensus pattern (26 bp):
TTATTTTAAGTTGATTTACATATTAC
Found at i:9729696 original size:13 final size:14
Alignment explanation
Indices: 9729665--9729697 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
9729655 TTAAAATTAT
*
9729665 ATAAAAGGATATAA
1 ATAAAACGATATAA
9729679 ATAAAACGATAT-A
1 ATAAAACGATATAA
9729692 ATAAAA
1 ATAAAA
9729698 TAAATGTATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 7 0.39
14 11 0.61
ACGTcount: A:0.67, C:0.03, G:0.09, T:0.21
Consensus pattern (14 bp):
ATAAAACGATATAA
Found at i:9731398 original size:21 final size:22
Alignment explanation
Indices: 9731350--9731398 Score: 57
Period size: 21 Copynumber: 2.3 Consensus size: 22
9731340 TATGCCCTTG
*
9731350 CATTTCCTCTTTCTTTCTTTCT
1 CATTTTCTCTTTCTTTCTTTCT
*
9731372 CTTTTTCT-TTTCTTTCTGTT-T
1 CATTTTCTCTTTCTTTCT-TTCT
9731393 CATTTT
1 CATTTT
9731399 GGCTTGGCTT
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
21 15 0.65
22 8 0.35
ACGTcount: A:0.04, C:0.24, G:0.02, T:0.69
Consensus pattern (22 bp):
CATTTTCTCTTTCTTTCTTTCT
Found at i:9744206 original size:9 final size:9
Alignment explanation
Indices: 9744192--9744223 Score: 64
Period size: 9 Copynumber: 3.6 Consensus size: 9
9744182 CCAATATATA
9744192 TTATGTAAG
1 TTATGTAAG
9744201 TTATGTAAG
1 TTATGTAAG
9744210 TTATGTAAG
1 TTATGTAAG
9744219 TTATG
1 TTATG
9744224 ATCCAAAGTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 23 1.00
ACGTcount: A:0.31, C:0.00, G:0.22, T:0.47
Consensus pattern (9 bp):
TTATGTAAG
Found at i:9744597 original size:19 final size:18
Alignment explanation
Indices: 9744545--9744617 Score: 58
Period size: 19 Copynumber: 3.9 Consensus size: 18
9744535 AATTTCAACA
9744545 TTAA-TAAAAATATTATT
1 TTAATTAAAAATATTATT
** *
9744562 TTCCTTTAAAAAAATTATT
1 TT-AATTAAAAATATTATT
9744581 TTAATTAAATAATATTAATT
1 TTAATTAAA-AATATT-ATT
* * *
9744601 TTTATGATAAATATTAT
1 TTAATTAAAAATATTAT
9744618 ATTATGTTTT
Statistics
Matches: 43, Mismatches: 9, Indels: 7
0.73 0.15 0.12
Matches are distributed among these distances:
17 2 0.05
18 7 0.16
19 25 0.58
20 9 0.21
ACGTcount: A:0.47, C:0.03, G:0.01, T:0.49
Consensus pattern (18 bp):
TTAATTAAAAATATTATT
Found at i:9746897 original size:18 final size:18
Alignment explanation
Indices: 9746871--9746907 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
9746861 AAATCGATGC
9746871 ATGCCAAAATCAAATCCG
1 ATGCCAAAATCAAATCCG
* *
9746889 ATGCTAAAATTAAATCCG
1 ATGCCAAAATCAAATCCG
9746907 A
1 A
9746908 ACAATAAATG
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:0.46, C:0.22, G:0.11, T:0.22
Consensus pattern (18 bp):
ATGCCAAAATCAAATCCG
Found at i:9747351 original size:14 final size:14
Alignment explanation
Indices: 9747334--9747360 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
9747324 GTCGAATGAA
9747334 GATTTGGGGAATTT
1 GATTTGGGGAATTT
9747348 GATTTGGGGAATT
1 GATTTGGGGAATT
9747361 AGGGATTTGG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.22, C:0.00, G:0.37, T:0.41
Consensus pattern (14 bp):
GATTTGGGGAATTT
Found at i:9747388 original size:14 final size:14
Alignment explanation
Indices: 9747369--9747398 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
9747359 TTAGGGATTT
*
9747369 GGGAAAAAAATTAG
1 GGGAAAAAAATAAG
9747383 GGGAAAAAAATAAG
1 GGGAAAAAAATAAG
9747397 GG
1 GG
9747399 ATTTCGAGGA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.57, C:0.00, G:0.33, T:0.10
Consensus pattern (14 bp):
GGGAAAAAAATAAG
Found at i:9747526 original size:40 final size:41
Alignment explanation
Indices: 9747470--9747566 Score: 133
Period size: 41 Copynumber: 2.4 Consensus size: 41
9747460 TAAAATTATA
* * *
9747470 CTTTGCGGCGCTTTTTCTCCT-AGCGCCGCTAATGCTTGACC
1 CTTTGCAGCG-TTTTTCTCATAAACGCCGCTAATGCTTGACC
9747511 CTTTGCAGCGTTTTTCTCATAAACGCCGCTAATGCTTGACC
1 CTTTGCAGCGTTTTTCTCATAAACGCCGCTAATGCTTGACC
* *
9747552 TTTTGCAGTGTTTTT
1 CTTTGCAGCGTTTTT
9747567 TCGTTAGTGC
Statistics
Matches: 50, Mismatches: 5, Indels: 2
0.88 0.09 0.04
Matches are distributed among these distances:
40 9 0.18
41 41 0.82
ACGTcount: A:0.13, C:0.28, G:0.20, T:0.39
Consensus pattern (41 bp):
CTTTGCAGCGTTTTTCTCATAAACGCCGCTAATGCTTGACC
Found at i:9753590 original size:16 final size:15
Alignment explanation
Indices: 9753542--9753595 Score: 54
Period size: 15 Copynumber: 3.5 Consensus size: 15
9753532 AAATAATTAG
* *
9753542 TTAATAATAGTAAAA
1 TTAATAATAATGAAA
* *
9753557 ATAATAATAATTAAA
1 TTAATAATAATGAAA
*
9753572 TTAAATAATAATGATA
1 TT-AATAATAATGAAA
9753588 TTAATAAT
1 TTAATAAT
9753596 TGGGGCATTT
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
15 19 0.59
16 13 0.41
ACGTcount: A:0.59, C:0.00, G:0.04, T:0.37
Consensus pattern (15 bp):
TTAATAATAATGAAA
Found at i:9754258 original size:250 final size:251
Alignment explanation
Indices: 9753797--9754307 Score: 997
Period size: 250 Copynumber: 2.0 Consensus size: 251
9753787 CTTTTTCATT
*
9753797 TTAAAAATTTGTTAGATCTAAGATTGAAAGTTTTTTCTCAACTTTTTTTCACCTTTTAGATTTTC
1 TTAAAGATTTGTTAGATC-AAGATTGAAAGTTTTTTCTCAACTTTTTTTCACCTTTTAGATTTTC
9753862 TTAGCATCCAAACAGCCTCTATTCCTTCAATTTTGCAAGAAAATCACTCTTTCTACTCCAATTTC
65 TTAGCATCCAAACAGCCTCTATTCCTTCAATTTTGCAAGAAAATCACTCTTTCTACTCCAATTTC
9753927 TCACCTAATTGGTACAAACTCAAGGAGGTTTTCAAACTAAAGGTAAATCTATTGTTTTCTTATGT
130 TCACCTAATTGGTACAAACTCAAGGAGGTTTTCAAACTAAAGGTAAATCTATTGTTTTCTTATGT
9753992 ATTAAACTTTTATTAGGAGTTTTTAATTTGAATTTTCATAGTTCTAAGCAAGAAAAA
195 ATTAAACTTTTATTAGGAGTTTTTAATTTGAATTTTCATAGTTCTAAGCAAGAAAAA
9754049 TTAAAGATTTGTTAGATC-AGATTGAAAGTTTTTTCTCAACTTTTTTTCACCTTTTAGATTTTCT
1 TTAAAGATTTGTTAGATCAAGATTGAAAGTTTTTTCTCAACTTTTTTTCACCTTTTAGATTTTCT
9754113 TAGCATCCAAACAGCCTCTATTCCTTCAATTTTGCAAGAAAATCACTCTTTCTACTCCAATTTCT
66 TAGCATCCAAACAGCCTCTATTCCTTCAATTTTGCAAGAAAATCACTCTTTCTACTCCAATTTCT
9754178 CACCTAATTGGTACAAACTCAAGGAGGTTTTCAAACTAAAGGTAAATCTATTGTTTTCTTATGTA
131 CACCTAATTGGTACAAACTCAAGGAGGTTTTCAAACTAAAGGTAAATCTATTGTTTTCTTATGTA
9754243 TTAAACTTTTATTAGGAGTTTTTAATTTGAATTTTCATAGTTCTAAGCAAGAAAAA
196 TTAAACTTTTATTAGGAGTTTTTAATTTGAATTTTCATAGTTCTAAGCAAGAAAAA
9754299 TTAAAGATT
1 TTAAAGATT
9754308 CATGGTTTTA
Statistics
Matches: 258, Mismatches: 1, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
250 241 0.93
252 17 0.07
ACGTcount: A:0.32, C:0.16, G:0.11, T:0.41
Consensus pattern (251 bp):
TTAAAGATTTGTTAGATCAAGATTGAAAGTTTTTTCTCAACTTTTTTTCACCTTTTAGATTTTCT
TAGCATCCAAACAGCCTCTATTCCTTCAATTTTGCAAGAAAATCACTCTTTCTACTCCAATTTCT
CACCTAATTGGTACAAACTCAAGGAGGTTTTCAAACTAAAGGTAAATCTATTGTTTTCTTATGTA
TTAAACTTTTATTAGGAGTTTTTAATTTGAATTTTCATAGTTCTAAGCAAGAAAAA
Found at i:9754845 original size:15 final size:14
Alignment explanation
Indices: 9754825--9754854 Score: 51
Period size: 15 Copynumber: 2.1 Consensus size: 14
9754815 AGCTACAGGA
9754825 AATAAAAAAAGTTAT
1 AATAAAAAAA-TTAT
9754840 AATAAAAAAATTAT
1 AATAAAAAAATTAT
9754854 A
1 A
9754855 TGGTTTTGTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 5 0.33
15 10 0.67
ACGTcount: A:0.70, C:0.00, G:0.03, T:0.27
Consensus pattern (14 bp):
AATAAAAAAATTAT
Found at i:9757967 original size:19 final size:16
Alignment explanation
Indices: 9757924--9757967 Score: 52
Period size: 19 Copynumber: 2.5 Consensus size: 16
9757914 GTCGTTCGTT
9757924 TTTAAAATATTATTCA
1 TTTAAAATATTATTCA
9757940 TTTACAAATCATTATTCAA
1 TTTA-AAAT-ATTATTC-A
9757959 TTTCAAAAT
1 TTT-AAAAT
9757968 GTTTTTTTAT
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
16 4 0.17
17 4 0.17
18 7 0.29
19 8 0.33
20 1 0.04
ACGTcount: A:0.43, C:0.11, G:0.00, T:0.45
Consensus pattern (16 bp):
TTTAAAATATTATTCA
Found at i:9766305 original size:23 final size:20
Alignment explanation
Indices: 9766279--9766328 Score: 55
Period size: 20 Copynumber: 2.4 Consensus size: 20
9766269 GGTTTTTTAG
9766279 TATTTGTGCATATTAGATTTATT
1 TATTTGTGC--ATTA-ATTTATT
*
9766302 TATTCGTGCATTAATTTATT
1 TATTTGTGCATTAATTTATT
*
9766322 TAATTGT
1 TATTTGT
9766329 CTAATGTCAT
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
20 12 0.50
21 4 0.17
23 8 0.33
ACGTcount: A:0.26, C:0.06, G:0.12, T:0.56
Consensus pattern (20 bp):
TATTTGTGCATTAATTTATT
Found at i:9773608 original size:4 final size:4
Alignment explanation
Indices: 9773593--9773637 Score: 54
Period size: 4 Copynumber: 11.2 Consensus size: 4
9773583 CCAATTTTAA
* * * *
9773593 TCAT TTAT TCAT TCAT TCAT CCAT CCAT TCAT TCAT TCAC TCAT T
1 TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT T
9773638 TGTTTACTCA
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
4 35 1.00
ACGTcount: A:0.24, C:0.29, G:0.00, T:0.47
Consensus pattern (4 bp):
TCAT
Found at i:9776913 original size:42 final size:42
Alignment explanation
Indices: 9776854--9777090 Score: 332
Period size: 42 Copynumber: 5.6 Consensus size: 42
9776844 AAAGAAAGCA
* *
9776854 TTCATTGCATTTAGAGGCCCAGGTGTGGAGG-CCTATTTACTT
1 TTCATTGCATTTAGAGGCCCAAGTGTGGAGGTCC-ATTCACTT
* * *
9776896 TTCATTGTATTTAGAGGCTCAGGTGTGGAGGTCCATTCACTT
1 TTCATTGCATTTAGAGGCCCAAGTGTGGAGGTCCATTCACTT
* * *
9776938 TTGATTGCACTTAGAGGCCCAAGTGTGGAGGTCAATTCACTT
1 TTCATTGCATTTAGAGGCCCAAGTGTGGAGGTCCATTCACTT
* *
9776980 TTCATTGCATTTAGAGGCCCAGGTGTGGAGGTCCATTTACTT
1 TTCATTGCATTTAGAGGCCCAAGTGTGGAGGTCCATTCACTT
* *
9777022 GTCATTGCATTTAGAGGTCCAAGTGTGGAGGTCCATTCACTT
1 TTCATTGCATTTAGAGGCCCAAGTGTGGAGGTCCATTCACTT
* *
9777064 TTCATTGCACTTAGAGACCCAAGTGTG
1 TTCATTGCATTTAGAGGCCCAAGTGTG
9777091 TTTCATTGCA
Statistics
Matches: 172, Mismatches: 22, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
42 170 0.99
43 2 0.01
ACGTcount: A:0.21, C:0.19, G:0.26, T:0.34
Consensus pattern (42 bp):
TTCATTGCATTTAGAGGCCCAAGTGTGGAGGTCCATTCACTT
Found at i:9777105 original size:28 final size:28
Alignment explanation
Indices: 9777063--9777118 Score: 85
Period size: 28 Copynumber: 2.0 Consensus size: 28
9777053 TCCATTCACT
*
9777063 TTTCATTGCACTTAGAGACCCAAGTGTG
1 TTTCATTGCACTTAGAGACCCAACTGTG
* *
9777091 TTTCATTGCATTTAGAGGCCCAACTGTG
1 TTTCATTGCACTTAGAGACCCAACTGTG
9777119 GAGGTCAATT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.23, C:0.21, G:0.21, T:0.34
Consensus pattern (28 bp):
TTTCATTGCACTTAGAGACCCAACTGTG
Found at i:9777120 original size:112 final size:112
Alignment explanation
Indices: 9776979--9777181 Score: 352
Period size: 112 Copynumber: 1.8 Consensus size: 112
9776969 TCAATTCACT
** * *
9776979 TTTCATTGCATTTAGAGGCCCAGGTGTGGAGGTCCATTTACTTGTCATTGCATTTAGAGGTCCAA
1 TTTCATTGCATTTAGAGGCCCAACTGTGGAGGTCAATTTACTTGTCATTGCATTTAGAGGCCCAA
9777044 GTGTGGAGGTCCATTCACTTTTCATTGCACTTAGAGACCCAAGTGTG
66 GTGTGGAGGTCCATTCACTTTTCATTGCACTTAGAGACCCAAGTGTG
* *
9777091 TTTCATTGCATTTAGAGGCCCAACTGTGGAGGTCAATTTACTTTTCATTGCATTTAGAGGCCCAG
1 TTTCATTGCATTTAGAGGCCCAACTGTGGAGGTCAATTTACTTGTCATTGCATTTAGAGGCCCAA
9777156 GTGTGGAGGTCCATTCACTTTTCATT
66 GTGTGGAGGTCCATTCACTTTTCATT
9777182 TCATTTAAAG
Statistics
Matches: 85, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
112 85 1.00
ACGTcount: A:0.21, C:0.20, G:0.24, T:0.35
Consensus pattern (112 bp):
TTTCATTGCATTTAGAGGCCCAACTGTGGAGGTCAATTTACTTGTCATTGCATTTAGAGGCCCAA
GTGTGGAGGTCCATTCACTTTTCATTGCACTTAGAGACCCAAGTGTG
Found at i:9777136 original size:70 final size:70
Alignment explanation
Indices: 9777023--9777160 Score: 213
Period size: 70 Copynumber: 2.0 Consensus size: 70
9777013 CATTTACTTG
* * *
9777023 TCATTGCATTTAGAGGTCCAAGTGTGGAGGTCCATTCACTTTTCATTGCACTTAGAGACCCAAGT
1 TCATTGCATTTAGAGGCCCAACTGTGGAGGTCAATTCACTTTTCATTGCACTTAGAGACCCAAGT
9777088 GTGTT
66 GTGTT
* * * *
9777093 TCATTGCATTTAGAGGCCCAACTGTGGAGGTCAATTTACTTTTCATTGCATTTAGAGGCCCAGGT
1 TCATTGCATTTAGAGGCCCAACTGTGGAGGTCAATTCACTTTTCATTGCACTTAGAGACCCAAGT
9777158 GTG
66 GTG
9777161 GAGGTCCATT
Statistics
Matches: 61, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
70 61 1.00
ACGTcount: A:0.22, C:0.20, G:0.24, T:0.34
Consensus pattern (70 bp):
TCATTGCATTTAGAGGCCCAACTGTGGAGGTCAATTCACTTTTCATTGCACTTAGAGACCCAAGT
GTGTT
Found at i:9777150 original size:42 final size:42
Alignment explanation
Indices: 9777091--9777228 Score: 222
Period size: 42 Copynumber: 3.3 Consensus size: 42
9777081 CCCAAGTGTG
** *
9777091 TTTCATTGCATTTAGAGGCCCAACTGTGGAGGTCAATTTACT
1 TTTCATTGCATTTAGAGGCCCAGGTGTGGAGGTCCATTTACT
*
9777133 TTTCATTGCATTTAGAGGCCCAGGTGTGGAGGTCCATTCACT
1 TTTCATTGCATTTAGAGGCCCAGGTGTGGAGGTCCATTTACT
* *
9777175 TTTCATTTCATTTAAAGGCCCAGGTGTGGAGGTCCATTTACT
1 TTTCATTGCATTTAGAGGCCCAGGTGTGGAGGTCCATTTACT
9777217 TTTCATTGCATT
1 TTTCATTGCATT
9777229 GTGTATGAAG
Statistics
Matches: 88, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 88 1.00
ACGTcount: A:0.21, C:0.20, G:0.22, T:0.38
Consensus pattern (42 bp):
TTTCATTGCATTTAGAGGCCCAGGTGTGGAGGTCCATTTACT
Found at i:9777221 original size:154 final size:154
Alignment explanation
Indices: 9776941--9777226 Score: 482
Period size: 154 Copynumber: 1.9 Consensus size: 154
9776931 TTCACTTTTG
*
9776941 ATTGCACTTAGAGGCCCAAGTGTGGAGGTCAATTCACTTTTCATTGCATTTAGAGGCCCAGGTGT
1 ATTGCACTTAGAGGCCCAACTGTGGAGGTCAATTCACTTTTCATTGCATTTAGAGGCCCAGGTGT
* * *
9777006 GGAGGTCCATTTACTTGTCATTGCATTTAGAGGTCCAAGTGTGGAGGTCCATTCACTTTTCATTG
66 GGAGGTCCATTCACTTGTCATTGCATTTAAAGGCCCAAGTGTGGAGGTCCATTCACTTTTCATTG
9777071 CACTTAGAGACCCAAGTGTGTTTC
131 CACTTAGAGACCCAAGTGTGTTTC
* *
9777095 ATTGCATTTAGAGGCCCAACTGTGGAGGTCAATTTACTTTTCATTGCATTTAGAGGCCCAGGTGT
1 ATTGCACTTAGAGGCCCAACTGTGGAGGTCAATTCACTTTTCATTGCATTTAGAGGCCCAGGTGT
* * * *
9777160 GGAGGTCCATTCACTTTTCATTTCATTTAAAGGCCCAGGTGTGGAGGTCCATTTACTTTTCATTG
66 GGAGGTCCATTCACTTGTCATTGCATTTAAAGGCCCAAGTGTGGAGGTCCATTCACTTTTCATTG
9777225 CA
131 CA
9777227 TTGTGTATGA
Statistics
Matches: 122, Mismatches: 10, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
154 122 1.00
ACGTcount: A:0.22, C:0.20, G:0.24, T:0.34
Consensus pattern (154 bp):
ATTGCACTTAGAGGCCCAACTGTGGAGGTCAATTCACTTTTCATTGCATTTAGAGGCCCAGGTGT
GGAGGTCCATTCACTTGTCATTGCATTTAAAGGCCCAAGTGTGGAGGTCCATTCACTTTTCATTG
CACTTAGAGACCCAAGTGTGTTTC
Found at i:9778330 original size:153 final size:148
Alignment explanation
Indices: 9778051--9778482 Score: 579
Period size: 153 Copynumber: 2.9 Consensus size: 148
9778041 TTAAAAAAAA
* *
9778051 AGAGAAAGTTTAGATTTTAAAATATAAAAATATGTTTCTTTTAGTCATTTTAAAGGAAAGTTTAA
1 AGAGAAAGTTTAGATTTTAAAAAATAAAAATATGTTTTTTTTAGTCATTTTAAAGGAAAGTTTAA
* *
9778116 ATTTTTAAAACAATATTTTGATTTTTTTTAACTATTTCAAAGTAAAAGCATTAATCTTTAAGAAA
66 ATTTTTAAAACAA-ATTTTGATTTTTTTCAACTATTTCAAAGTAAAAGCTTTAATCTTTAAGAAA
9778181 AATAGTGTGTTTTTTTTTTAAATG
130 AATA--GTG--TTTTTTTTAAA-G
* * * *
9778205 -GAGAAAGTTTAGATTTTAAAAAATAAAAATTTGTTTTTTTTAATCATTTTAAAGAAAATTTTAA
1 AGAGAAAGTTTAGATTTTAAAAAATAAAAATATGTTTTTTTTAGTCATTTTAAAGGAAAGTTTAA
*
9778269 ATTTTTAAAACAAAGTTTTGATTTTTTTCAACTATTTCAAAGTAAAAGCTTTAATCTTTAAGGAA
66 ATTTTTAAAACAAA-TTTTGATTTTTTTCAACTATTTCAAAGTAAAAGCTTTAATCTTTAAGAAA
9778334 AATAGTGTTTTTTTTAAAG
130 AATAGTGTTTTTTTTAAAG
* * *
9778353 AGAGAAAGTTTAGATTTTGAAAAA-AAAAATAT-TTTTTTTTAGTCA-TTTAGAGGATAGTTTAA
1 AGAGAAAGTTTAGATTTTAAAAAATAAAAATATGTTTTTTTTAGTCATTTTAAAGGAAAGTTTAA
* * *
9778415 ATTTTTAAAACAAAATTTTGATTTTTTTTTCCAACTATTTCGAAA-T-AAAGTTTTGATTTTTAA
66 ATTTTTAAAAC-AAATTTTGA--TTTTTTT-CAACTATTTC-AAAGTAAAAGCTTTAATCTTTAA
9778478 GAAAA
126 GAAAA
9778483 GTAATAATTT
Statistics
Matches: 251, Mismatches: 20, Indels: 20
0.86 0.07 0.07
Matches are distributed among these distances:
146 30 0.12
147 15 0.06
148 33 0.13
149 44 0.18
150 3 0.01
151 3 0.01
152 1 0.00
153 122 0.49
ACGTcount: A:0.40, C:0.05, G:0.11, T:0.44
Consensus pattern (148 bp):
AGAGAAAGTTTAGATTTTAAAAAATAAAAATATGTTTTTTTTAGTCATTTTAAAGGAAAGTTTAA
ATTTTTAAAACAAATTTTGATTTTTTTCAACTATTTCAAAGTAAAAGCTTTAATCTTTAAGAAAA
ATAGTGTTTTTTTTAAAG
Found at i:9778483 original size:19 final size:19
Alignment explanation
Indices: 9778461--9778513 Score: 52
Period size: 20 Copynumber: 2.7 Consensus size: 19
9778451 ATTTCGAAAT
*
9778461 AAAGTTTTGATTTTTAAGA
1 AAAGTTTTGATTTTTAAAA
** *
9778480 AAAGTAATAATTTTTTAAAA
1 AAAGTTTTGA-TTTTTAAAA
*
9778500 AAAGCTTTGATTTT
1 AAAGTTTTGATTTT
9778514 ACACACAAAA
Statistics
Matches: 25, Mismatches: 8, Indels: 2
0.71 0.23 0.06
Matches are distributed among these distances:
19 11 0.44
20 14 0.56
ACGTcount: A:0.42, C:0.02, G:0.11, T:0.45
Consensus pattern (19 bp):
AAAGTTTTGATTTTTAAAA
Found at i:9780918 original size:37 final size:37
Alignment explanation
Indices: 9780868--9780940 Score: 128
Period size: 37 Copynumber: 2.0 Consensus size: 37
9780858 GGTCTCCTAA
9780868 AGAATGTAGAGGACTGAATAATCGAGTATATCCTTAG
1 AGAATGTAGAGGACTGAATAATCGAGTATATCCTTAG
**
9780905 AGAATGTAGAGGACTGGGTAATCGAGTATATCCTTA
1 AGAATGTAGAGGACTGAATAATCGAGTATATCCTTA
9780941 AGGAAGAAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 34 1.00
ACGTcount: A:0.36, C:0.11, G:0.26, T:0.27
Consensus pattern (37 bp):
AGAATGTAGAGGACTGAATAATCGAGTATATCCTTAG
Found at i:9781683 original size:41 final size:40
Alignment explanation
Indices: 9781612--9781703 Score: 121
Period size: 41 Copynumber: 2.3 Consensus size: 40
9781602 TTTATGGTTT
* *
9781612 TTAGGGTTTAAGGTTAGTGTTTAGTTAAAATAATTTAGGG
1 TTAGGGTTTAAGGGTAGGGTTTAGTTAAAATAATTTAGGG
* * *
9781652 TTAGGGTTATATGGGTAGGGTTTTGTTAAAATAATTTAGGT
1 TTAGGGTT-TAAGGGTAGGGTTTAGTTAAAATAATTTAGGG
*
9781693 TTAAGGTTTAA
1 TTAGGGTTTAA
9781704 AAATTTTAAA
Statistics
Matches: 44, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
40 10 0.23
41 34 0.77
ACGTcount: A:0.29, C:0.00, G:0.27, T:0.43
Consensus pattern (40 bp):
TTAGGGTTTAAGGGTAGGGTTTAGTTAAAATAATTTAGGG
Found at i:9782060 original size:126 final size:126
Alignment explanation
Indices: 9781851--9782169 Score: 446
Period size: 126 Copynumber: 2.5 Consensus size: 126
9781841 TTCTTTCAGG
* * * * * *
9781851 AAAATTAATTTTGAGAATACTGTTCTGAA-AAGATAATGTCAGAAACTA-TTCAAGTAGGATGCA
1 AAAAATAATTTTGAGAAGACGGTTCTGAACAA-ATAGTGTCAAAAAC-ACTTCAAGAAGGATGCA
* * *
9781914 CTATCAGTAAAATTACTGAAAAAGGCTCCCACGTGGACGCTCTTTTTCTACAGTAGTTTTTGA
64 CTATCAGCAAAATTACTGAAAAAAGCTCCCACGTGGACGCTCTTTTTCTACAGTAGTTCTTGA
* *
9781977 AAAAATAATTTTGAGAAGACGGTTCTGAACAAATAGTGTCAAAAACGCTTCAAGCAGGATGCACT
1 AAAAATAATTTTGAGAAGACGGTTCTGAACAAATAGTGTCAAAAACACTTCAAGAAGGATGCACT
* * *
9782042 GTCAGCAAATTTGA-TGAAAAAAGCTCCCATGTGGACGCTCTTTTTCTACAGTAGTTCTTGA
66 ATCAGCAAAATT-ACTGAAAAAAGCTCCCACGTGGACGCTCTTTTTCTACAGTAGTTCTTGA
* *
9782103 AAAAATAATTTTGAAAAGACGGTTCTGAACAAATAGTGCCAAAAACACTTCAAGAAGGATGCACT
1 AAAAATAATTTTGAGAAGACGGTTCTGAACAAATAGTGTCAAAAACACTTCAAGAAGGATGCACT
9782168 AT
66 AT
9782170 AACACCCCTT
Statistics
Matches: 172, Mismatches: 18, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
126 169 0.98
127 3 0.02
ACGTcount: A:0.38, C:0.16, G:0.18, T:0.28
Consensus pattern (126 bp):
AAAAATAATTTTGAGAAGACGGTTCTGAACAAATAGTGTCAAAAACACTTCAAGAAGGATGCACT
ATCAGCAAAATTACTGAAAAAAGCTCCCACGTGGACGCTCTTTTTCTACAGTAGTTCTTGA
Found at i:9783643 original size:37 final size:38
Alignment explanation
Indices: 9783589--9783661 Score: 112
Period size: 37 Copynumber: 1.9 Consensus size: 38
9783579 TTTTCATAAT
* *
9783589 TTCACTTTTTCACTTTCAA-TCACTATTCAATTCAAAA
1 TTCACTTTGTCACTTTCAAGTCAATATTCAATTCAAAA
*
9783626 TTCACTTTGTCATTTTCAAGTCAATATTCAATTCAA
1 TTCACTTTGTCACTTTCAAGTCAATATTCAATTCAA
9783662 TTCCACACAT
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
37 17 0.53
38 15 0.47
ACGTcount: A:0.32, C:0.22, G:0.03, T:0.44
Consensus pattern (38 bp):
TTCACTTTGTCACTTTCAAGTCAATATTCAATTCAAAA
Found at i:9784039 original size:102 final size:102
Alignment explanation
Indices: 9783865--9784682 Score: 1431
Period size: 102 Copynumber: 8.0 Consensus size: 102
9783855 GATACACGTA
* * * ** * * * * *
9783865 GTAGCCTTCACATAGTACTACACACGTGATCATGTTTTA-CGGTTCACGTAGTAGCCTTCACATA
1 GTAGCCTTCACTTAGTACTACACATGTGACCATCATTTATTGATTCACGTAATGGCCTTCACACA
* * * *
9783929 GTACTACACACGTGACCAAAGCTTTTCGGTACACATA
66 GTACTACACACATGACCAAAGCTTCTCAGTACACATT
* * * * *
9783966 GTAGCATTCACTTAGTACTACACATGTGACCATCATTTATCGATTCACGTAGTAGCCCTCACACA
1 GTAGCCTTCACTTAGTACTACACATGTGACCATCATTTATTGATTCACGTAATGGCCTTCACACA
* * *
9784031 GTACTACACACGTGACTAAAGCTTCTCGGTACACATT
66 GTACTACACACATGACCAAAGCTTCTCAGTACACATT
9784068 GTAGCCTTCACTTAGTACTACACATGTGACCATCATTTATTGATTCACGTAATGGCCTTCACACA
1 GTAGCCTTCACTTAGTACTACACATGTGACCATCATTTATTGATTCACGTAATGGCCTTCACACA
9784133 GTACTACACACATGACCAAAGCTTCTCAGTACACATT
66 GTACTACACACATGACCAAAGCTTCTCAGTACACATT
9784170 GTAGCCTTCACTTAGTACTACACATGTGACCATCATTTATTGATTCACGTAATGGCCTTCACACA
1 GTAGCCTTCACTTAGTACTACACATGTGACCATCATTTATTGATTCACGTAATGGCCTTCACACA
9784235 GTACTACACACATGACCAAAGCTTCTCAGTACACATT
66 GTACTACACACATGACCAAAGCTTCTCAGTACACATT
9784272 GTAGCCTTCACTTAGTACTACACATGTGACCATCATTTATTGATTCACGTAATGGCCTTCACACA
1 GTAGCCTTCACTTAGTACTACACATGTGACCATCATTTATTGATTCACGTAATGGCCTTCACACA
9784337 GTACTACACACATGACCAAAGCTTCTCAGTACACATT
66 GTACTACACACATGACCAAAGCTTCTCAGTACACATT
9784374 GTAGCCTTCACTTAGTACTACACATGTGACCATCATTTATTGATTCACGTAATGGCCTTCACACA
1 GTAGCCTTCACTTAGTACTACACATGTGACCATCATTTATTGATTCACGTAATGGCCTTCACACA
9784439 GTACTACACACATGACCAAAGCTTCTCAGTACACATT
66 GTACTACACACATGACCAAAGCTTCTCAGTACACATT
9784476 GTAGCCTTCACTTAGTACTACACATGTGACCATCATTTATTGATTCACGTAATGGCCTTCACACA
1 GTAGCCTTCACTTAGTACTACACATGTGACCATCATTTATTGATTCACGTAATGGCCTTCACACA
9784541 GTACTACACACATGACCAAAGCTTCTCAGTACACATT
66 GTACTACACACATGACCAAAGCTTCTCAGTACACATT
9784578 GTAGCCTTCACTTAGTACTACACATGTGACCATCATTTATTGATTCACGTAATGGCCTTCACACA
1 GTAGCCTTCACTTAGTACTACACATGTGACCATCATTTATTGATTCACGTAATGGCCTTCACACA
9784643 GTACTACACACATGACCAAAGCTTCTCAGTACACATT
66 GTACTACACACATGACCAAAGCTTCTCAGTACACATT
9784680 GTA
1 GTA
9784683 CTCACATTTA
Statistics
Matches: 696, Mismatches: 20, Indels: 1
0.97 0.03 0.00
Matches are distributed among these distances:
101 33 0.05
102 663 0.95
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.29
Consensus pattern (102 bp):
GTAGCCTTCACTTAGTACTACACATGTGACCATCATTTATTGATTCACGTAATGGCCTTCACACA
GTACTACACACATGACCAAAGCTTCTCAGTACACATT
Found at i:9788919 original size:18 final size:18
Alignment explanation
Indices: 9788898--9788932 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
9788888 GAAAAGGAAA
*
9788898 CATATAAGGGTTAGGATC
1 CATATAAGGGCTAGGATC
9788916 CATATAAGGGCTAGGAT
1 CATATAAGGGCTAGGAT
9788933 ACGCATCTGG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.34, C:0.11, G:0.29, T:0.26
Consensus pattern (18 bp):
CATATAAGGGCTAGGATC
Found at i:9790752 original size:30 final size:30
Alignment explanation
Indices: 9790687--9790755 Score: 102
Period size: 30 Copynumber: 2.3 Consensus size: 30
9790677 ATTAATTAAA
*
9790687 GAGAGCTTTGAGAAATTTAAGGAGAAATTT
1 GAGAGTTTTGAGAAATTTAAGGAGAAATTT
* * *
9790717 GAGAGTTTTGATAAATTTAGGGAGAATTTT
1 GAGAGTTTTGAGAAATTTAAGGAGAAATTT
9790747 GAGAGTTTT
1 GAGAGTTTT
9790756 TTGCCAAATT
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 35 1.00
ACGTcount: A:0.35, C:0.01, G:0.28, T:0.36
Consensus pattern (30 bp):
GAGAGTTTTGAGAAATTTAAGGAGAAATTT
Found at i:9791243 original size:41 final size:41
Alignment explanation
Indices: 9791197--9791278 Score: 155
Period size: 41 Copynumber: 2.0 Consensus size: 41
9791187 AAAAAGTTAA
*
9791197 ATTATTTCTTTTAATTGACATATTAATTAAAACGTTAATAT
1 ATTATTTCTTTTAATTGAAATATTAATTAAAACGTTAATAT
9791238 ATTATTTCTTTTAATTGAAATATTAATTAAAACGTTAATAT
1 ATTATTTCTTTTAATTGAAATATTAATTAAAACGTTAATAT
9791279 TTTTAACGAT
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 40 1.00
ACGTcount: A:0.40, C:0.06, G:0.05, T:0.49
Consensus pattern (41 bp):
ATTATTTCTTTTAATTGAAATATTAATTAAAACGTTAATAT
Found at i:9791539 original size:16 final size:16
Alignment explanation
Indices: 9791520--9791550 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
9791510 TTTTAACTTT
*
9791520 ATTTATTTTTATGTTC
1 ATTTATATTTATGTTC
9791536 ATTTATATTTATGTT
1 ATTTATATTTATGTT
9791551 TTTTTTACAC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.23, C:0.03, G:0.06, T:0.68
Consensus pattern (16 bp):
ATTTATATTTATGTTC
Found at i:9797515 original size:146 final size:145
Alignment explanation
Indices: 9797343--9797616 Score: 381
Period size: 146 Copynumber: 1.9 Consensus size: 145
9797333 TTTTATGATG
* * *
9797343 AAAAATTTAAGATTTACTACAAATTGTTAAA-TTTCAATT-AGATATTGAATTTTACTCAATTCT
1 AAAAATTTAAGATTTACTACAAATTGTCAAATTTTCAATTGA-AGATTGAATTTTACCCAATTCT
* * **
9797406 TTATTTTTTTTCCATACTTAAAATAATTATATTATATTAGTAACACTTTCTATAATTTGCCCATT
65 GTATTTCTTTT-CATACCCAAAATAATTATATTATATTAGTAACACTTTCTATAATTTGCCCATT
9797471 TTATTAATTTACAACTA
129 TTATTAATTTACAACTA
* * * *
9797488 AAAAATATTAAGATTTATTACATATTGTCAAATTTTCAGTTGAAGATTGATTTTTACCCAATTCT
1 AAAAAT-TTAAGATTTACTACAAATTGTCAAATTTTCAATTGAAGATTGAATTTTACCCAATTCT
* * *
9797553 GTATTTCTTTTCATACCCAAAATAATTATATTATATTAGTAACACTTTTTGTAGTTTGCCCATT
65 GTATTTCTTTTCATACCCAAAATAATTATATTATATTAGTAACACTTTCTATAATTTGCCCATT
9797617 CTTTGCGTAC
Statistics
Matches: 112, Mismatches: 14, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
145 6 0.05
146 70 0.62
147 35 0.31
148 1 0.01
ACGTcount: A:0.35, C:0.12, G:0.06, T:0.46
Consensus pattern (145 bp):
AAAAATTTAAGATTTACTACAAATTGTCAAATTTTCAATTGAAGATTGAATTTTACCCAATTCTG
TATTTCTTTTCATACCCAAAATAATTATATTATATTAGTAACACTTTCTATAATTTGCCCATTTT
ATTAATTTACAACTA
Found at i:9802644 original size:3 final size:3
Alignment explanation
Indices: 9802636--9802696 Score: 77
Period size: 3 Copynumber: 20.0 Consensus size: 3
9802626 TTAAATTAAG
* * *
9802636 AAT AAT AAT AAT AAT AAT AAT AAT AAT ATT AAT ATT AAT AAT ATT AAAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT
*
9802685 AAT AAT ATT AAT
1 AAT AAT AAT AAT
9802697 TAATTAATTA
Statistics
Matches: 49, Mismatches: 8, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
3 47 0.96
4 2 0.04
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (3 bp):
AAT
Found at i:9802700 original size:4 final size:4
Alignment explanation
Indices: 9802691--9802719 Score: 58
Period size: 4 Copynumber: 7.2 Consensus size: 4
9802681 AAATAATAAT
9802691 ATTA ATTA ATTA ATTA ATTA ATTA ATTA A
1 ATTA ATTA ATTA ATTA ATTA ATTA ATTA A
9802720 AGAAAACGAG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (4 bp):
ATTA
Found at i:9803115 original size:5 final size:5
Alignment explanation
Indices: 9803103--9803132 Score: 51
Period size: 5 Copynumber: 6.0 Consensus size: 5
9803093 ATTAAATTGA
*
9803103 AGTGG AGTAG AGTGG AGTGG AGTGG AGTGG
1 AGTGG AGTGG AGTGG AGTGG AGTGG AGTGG
9803133 TGCGGGGATG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.23, C:0.00, G:0.57, T:0.20
Consensus pattern (5 bp):
AGTGG
Found at i:9804827 original size:4 final size:4
Alignment explanation
Indices: 9804818--9804872 Score: 101
Period size: 4 Copynumber: 13.8 Consensus size: 4
9804808 AGTAGTTATA
*
9804818 TATG TATG TATG TATG CATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
9804866 TATG TAT
1 TATG TAT
9804873 TAATAATTTT
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
4 49 1.00
ACGTcount: A:0.25, C:0.02, G:0.24, T:0.49
Consensus pattern (4 bp):
TATG
Found at i:9807577 original size:18 final size:17
Alignment explanation
Indices: 9807535--9807578 Score: 52
Period size: 18 Copynumber: 2.5 Consensus size: 17
9807525 TGTTGTTCGT
9807535 TTTCAAAACATTATTCA
1 TTTCAAAACATTATTCA
* *
9807552 TTTACAAATCGTTATTCAA
1 TTT-CAAAACATTATTC-A
9807571 TTTCAAAA
1 TTTCAAAA
9807579 TGTTTTTTTA
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
17 3 0.14
18 15 0.68
19 4 0.18
ACGTcount: A:0.41, C:0.16, G:0.02, T:0.41
Consensus pattern (17 bp):
TTTCAAAACATTATTCA
Found at i:9809617 original size:13 final size:14
Alignment explanation
Indices: 9809593--9809623 Score: 55
Period size: 13 Copynumber: 2.3 Consensus size: 14
9809583 AGGAAACCGT
9809593 GAAAAATCGAAGAA
1 GAAAAATCGAAGAA
9809607 GAAAAAT-GAAGAA
1 GAAAAATCGAAGAA
9809620 GAAA
1 GAAA
9809624 GTCGACGTAG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 10 0.59
14 7 0.41
ACGTcount: A:0.68, C:0.03, G:0.23, T:0.06
Consensus pattern (14 bp):
GAAAAATCGAAGAA
Found at i:9810884 original size:21 final size:24
Alignment explanation
Indices: 9810835--9810881 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 24
9810825 ATCATTAATG
*
9810835 ATTTATAAAAATGAATAACAAAATA
1 ATTTAAAAAAAT-AATAACAAAATA
9810860 ATTTAAAAAAAT-ATAA-AAAATA
1 ATTTAAAAAAATAATAACAAAATA
9810882 TTTTGTTAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 6 0.29
23 4 0.19
25 11 0.52
ACGTcount: A:0.68, C:0.02, G:0.02, T:0.28
Consensus pattern (24 bp):
ATTTAAAAAAATAATAACAAAATA
Found at i:9811535 original size:21 final size:21
Alignment explanation
Indices: 9811492--9811536 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
9811482 GTATTCTTTG
*
9811492 TATTATTATTAATAATAATAT
1 TATTATTATTAATAATAACAT
*
9811513 TATTATTATTTCATAAT-ACAT
1 TATTATTA-TTAATAATAACAT
9811534 TAT
1 TAT
9811537 CAACACGAGC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 14 0.67
22 7 0.33
ACGTcount: A:0.42, C:0.04, G:0.00, T:0.53
Consensus pattern (21 bp):
TATTATTATTAATAATAACAT
Found at i:9818791 original size:289 final size:289
Alignment explanation
Indices: 9818324--9818904 Score: 955
Period size: 289 Copynumber: 2.0 Consensus size: 289
9818314 TTCTTTCTCT
** *
9818324 AGTACAAGTCCCACCCACTGAATTTTATAGATAGGATCCATGATCCTTGCTTTAAACCATTAAGA
1 AGTACAAGTCCCACCCACTGAACGTCATAGATAGGATCCATGATCCTTGCTTTAAACCATTAAGA
* *
9818389 CTCGAGTTTCCCAAGATCAAATACTCGAGATTGAATCAAATTGTTTTGTCCCTTGACAGATCTCT
66 CTCGAGTTTCCCAAGATCAAATACTCGAGATTGAATCAAACTGTTTTGTCCCTTGACAGATCCCT
9818454 TTTCAGTATTTGAAATAGTCCACTCGATACCTTTCTCGTGCCTTTTCAAAATAGTGAAGTCTAAC
131 TTTCAGTATTTGAAATAGTCCACTCGATACCTTTCTCGTGCCTTTTCAAAATAGTGAAGTCTAAC
* * *
9818519 TCGGATGGCTCTTCTCTTGATGGGTTGGGTTGCTTGTACTCATGTGATGATAGCTCTAATGACTC
196 TCGGATGACTCTTCTCTTGATGGGTTGGGTTCCTTGTACTAATGTGATGATAGCTCTAATGACTC
* *
9818584 GAATTTAACTTTTGAACTAAATTCTTCCA
261 AAATTTAAATTTTGAACTAAATTCTTCCA
* * * *
9818613 AGTACAAGTCCCACCCACTGAACGTCATAGATGGGATCCATTATCCTTGCTTTTAACCATTGAGA
1 AGTACAAGTCCCACCCACTGAACGTCATAGATAGGATCCATGATCCTTGCTTTAAACCATTAAGA
* * * * *
9818678 CTTGAGTTTTCCAGGATCAAATACTCGAGATTGAATCGAACTGTTTTGTCCCTTTACAGATCCCT
66 CTCGAGTTTCCCAAGATCAAATACTCGAGATTGAATCAAACTGTTTTGTCCCTTGACAGATCCCT
* * *
9818743 TTTCAGTATTTGTAATAGTCCACTCGATACCTTTCTCGTTCTTTTTCAAAATAGTGAAGTCTAAC
131 TTTCAGTATTTGAAATAGTCCACTCGATACCTTTCTCGTGCCTTTTCAAAATAGTGAAGTCTAAC
*
9818808 TCGGATGACTCTTCTCTTGATGGGTTGGTTTCCTTGTACTAATGTGATGATAGCTCTAATGACTC
196 TCGGATGACTCTTCTCTTGATGGGTTGGGTTCCTTGTACTAATGTGATGATAGCTCTAATGACTC
9818873 AAATTTAAATTTTGAACTAAATTCTTCCA
261 AAATTTAAATTTTGAACTAAATTCTTCCA
9818902 AGT
1 AGT
9818905 TAGCTTCCAA
Statistics
Matches: 269, Mismatches: 23, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
289 269 1.00
ACGTcount: A:0.27, C:0.21, G:0.16, T:0.36
Consensus pattern (289 bp):
AGTACAAGTCCCACCCACTGAACGTCATAGATAGGATCCATGATCCTTGCTTTAAACCATTAAGA
CTCGAGTTTCCCAAGATCAAATACTCGAGATTGAATCAAACTGTTTTGTCCCTTGACAGATCCCT
TTTCAGTATTTGAAATAGTCCACTCGATACCTTTCTCGTGCCTTTTCAAAATAGTGAAGTCTAAC
TCGGATGACTCTTCTCTTGATGGGTTGGGTTCCTTGTACTAATGTGATGATAGCTCTAATGACTC
AAATTTAAATTTTGAACTAAATTCTTCCA
Found at i:9821404 original size:21 final size:18
Alignment explanation
Indices: 9821359--9821404 Score: 56
Period size: 21 Copynumber: 2.3 Consensus size: 18
9821349 AAAAATAACA
9821359 AAAAAATAAATAATAAAG
1 AAAAAATAAATAATAAAG
9821377 AATAAAATAGGAATAATAAAGG
1 AA-AAAATA--AATAATAAA-G
9821399 AAAAAA
1 AAAAAA
9821405 GTTAAAGAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
18 2 0.08
19 6 0.25
21 13 0.54
22 3 0.12
ACGTcount: A:0.74, C:0.00, G:0.11, T:0.15
Consensus pattern (18 bp):
AAAAAATAAATAATAAAG
Found at i:9821511 original size:21 final size:18
Alignment explanation
Indices: 9821466--9821511 Score: 56
Period size: 21 Copynumber: 2.3 Consensus size: 18
9821456 AAAAATAACA
9821466 AAAAAATAAATAATAAAG
1 AAAAAATAAATAATAAAG
9821484 AATAAAATAGGAATAATAAAGG
1 AA-AAAATA--AATAATAAA-G
9821506 AAAAAA
1 AAAAAA
9821512 GTTAAAGAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
18 2 0.08
19 6 0.25
21 13 0.54
22 3 0.12
ACGTcount: A:0.74, C:0.00, G:0.11, T:0.15
Consensus pattern (18 bp):
AAAAAATAAATAATAAAG
Found at i:9821523 original size:107 final size:108
Alignment explanation
Indices: 9821336--9821552 Score: 427
Period size: 107 Copynumber: 2.0 Consensus size: 108
9821326 ATCTATACTT
9821336 ATGAAGACCTAAAAAAAATAACAAAAAAATAAATAATAAAGAATAAAATAGGAATAATAAAGGAA
1 ATGAAGACCTAAAAAAAATAACAAAAAAATAAATAATAAAGAATAAAATAGGAATAATAAAGGAA
9821401 AAAAGTTAAAGAATTAATTAGTAAATTTATAAATAAAATAAAA
66 AAAAGTTAAAGAATTAATTAGTAAATTTATAAATAAAATAAAA
9821444 ATGAAGACCT-AAAAAAATAACAAAAAAATAAATAATAAAGAATAAAATAGGAATAATAAAGGAA
1 ATGAAGACCTAAAAAAAATAACAAAAAAATAAATAATAAAGAATAAAATAGGAATAATAAAGGAA
9821508 AAAAGTTAAAGAATTAATTAGTAAATTTATAAATAAAATAAAA
66 AAAAGTTAAAGAATTAATTAGTAAATTTATAAATAAAATAAAA
9821551 AT
1 AT
9821553 AAAATAAAAA
Statistics
Matches: 109, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
107 99 0.91
108 10 0.09
ACGTcount: A:0.66, C:0.03, G:0.09, T:0.22
Consensus pattern (108 bp):
ATGAAGACCTAAAAAAAATAACAAAAAAATAAATAATAAAGAATAAAATAGGAATAATAAAGGAA
AAAAGTTAAAGAATTAATTAGTAAATTTATAAATAAAATAAAA
Found at i:9821554 original size:11 final size:11
Alignment explanation
Indices: 9821538--9821562 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
9821528 GTAAATTTAT
9821538 AAATAAAATAA
1 AAATAAAATAA
9821549 AAATAAAATAA
1 AAATAAAATAA
9821560 AAA
1 AAA
9821563 CCAAAATTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (11 bp):
AAATAAAATAA
Found at i:9826638 original size:14 final size:14
Alignment explanation
Indices: 9826619--9826647 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
9826609 ATCTATGGAC
9826619 TTACCTCGCCACCA
1 TTACCTCGCCACCA
9826633 TTACCTCGCCACCA
1 TTACCTCGCCACCA
9826647 T
1 T
9826648 AAAAGTGCAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.21, C:0.48, G:0.07, T:0.24
Consensus pattern (14 bp):
TTACCTCGCCACCA
Found at i:9827962 original size:19 final size:20
Alignment explanation
Indices: 9827935--9827979 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 20
9827925 CTTGGTAAAT
*
9827935 ACATGTGTA-ATAATAATAA
1 ACATATGTATATAATAATAA
*
9827954 ACATATGTATTTAATAATAA
1 ACATATGTATATAATAATAA
9827974 A-ATATG
1 ACATATG
9827980 AATTTCTTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
19 13 0.57
20 10 0.43
ACGTcount: A:0.51, C:0.04, G:0.09, T:0.36
Consensus pattern (20 bp):
ACATATGTATATAATAATAA
Found at i:9827984 original size:19 final size:20
Alignment explanation
Indices: 9827945--9827984 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
9827935 ACATGTGTAA
*
9827945 TAATAATAAACATATGTATT
1 TAATAATAAACATATGAATT
9827965 TAATAATAAA-ATATGAATT
1 TAATAATAAACATATGAATT
9827984 T
1 T
9827985 CTTATTAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 9 0.47
20 10 0.53
ACGTcount: A:0.53, C:0.03, G:0.05, T:0.40
Consensus pattern (20 bp):
TAATAATAAACATATGAATT
Found at i:9829124 original size:40 final size:40
Alignment explanation
Indices: 9829006--9829136 Score: 135
Period size: 40 Copynumber: 3.3 Consensus size: 40
9828996 TTTGAGTCGG
* * *
9829006 TGAGACAGTGGGTGTCAATTTATTACTTCGAATTAATTTC-A
1 TGAGACACTGGGTGTCAAATTATTACTTCGAATT-A-TCCGA
* * ** *
9829047 TGAGGCACTGGGTG-CCAA-T-TTACTTCGGTTTAGCCGA
1 TGAGACACTGGGTGTCAAATTATTACTTCGAATTATCCGA
9829084 TGAGACACTGGGTGTCAAATTATTACTTCGAATTATCCGA
1 TGAGACACTGGGTGTCAAATTATTACTTCGAATTATCCGA
*
9829124 TGAGGCACTGGGT
1 TGAGACACTGGGT
9829137 ACCAAACTGG
Statistics
Matches: 72, Mismatches: 14, Indels: 9
0.76 0.15 0.09
Matches are distributed among these distances:
36 1 0.01
37 15 0.21
38 13 0.18
39 2 0.03
40 29 0.40
41 12 0.17
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (40 bp):
TGAGACACTGGGTGTCAAATTATTACTTCGAATTATCCGA
Found at i:9834616 original size:25 final size:24
Alignment explanation
Indices: 9834566--9834610 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
9834556 TTACCATTCT
*
9834566 TTTTTATTATTTTATTTTATTTTA
1 TTTTTATTACTTTATTTTATTTTA
*
9834590 TTTTTATTACTTT-CTTTATTT
1 TTTTTATTACTTTATTTTATTT
9834611 GTTATTCTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 7 0.37
24 12 0.63
ACGTcount: A:0.18, C:0.04, G:0.00, T:0.78
Consensus pattern (24 bp):
TTTTTATTACTTTATTTTATTTTA
Found at i:9836059 original size:6 final size:6
Alignment explanation
Indices: 9836050--9836091 Score: 57
Period size: 6 Copynumber: 6.8 Consensus size: 6
9836040 TTTGTTTTCT
* *
9836050 TTTTAA TTTTAA TTTTAA TTTTAA TTTTTA TGTTTAT TTTTA
1 TTTTAA TTTTAA TTTTAA TTTTAA TTTTAA T-TTTAA TTTTA
9836092 TCTTTAGTTG
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
6 28 0.88
7 4 0.12
ACGTcount: A:0.26, C:0.00, G:0.02, T:0.71
Consensus pattern (6 bp):
TTTTAA
Found at i:9836085 original size:25 final size:24
Alignment explanation
Indices: 9836061--9836121 Score: 70
Period size: 25 Copynumber: 2.5 Consensus size: 24
9836051 TTTAATTTTA
*
9836061 ATTTTAATTTTAATTTTTATGTTT
1 ATTTTTATTTTAATTTTTATGTTT
*
9836085 ATTTTTATCTTTAGTTGTTT-TGTTT
1 ATTTTTAT-TTTAATT-TTTATGTTT
9836110 CATTTTTATTTT
1 -ATTTTTATTTT
9836122 CTTGTACTTC
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
24 7 0.22
25 14 0.44
26 11 0.34
ACGTcount: A:0.18, C:0.03, G:0.07, T:0.72
Consensus pattern (24 bp):
ATTTTTATTTTAATTTTTATGTTT
Found at i:9836092 original size:6 final size:6
Alignment explanation
Indices: 9836044--9836121 Score: 50
Period size: 6 Copynumber: 12.5 Consensus size: 6
9836034 ATTTTATTTG
* * * * *
9836044 TTTTCT TTTTAAT TTTAAT TTTAAT TTTAAT TTTTAT GTTTAT TTTTAT
1 TTTTAT TTTT-AT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT
* *
9836093 CTTTAGT TGTTT-T GTTTCAT TTTTAT TTT
1 TTTTA-T T-TTTAT -TTTTAT TTTTAT TTT
9836122 CTTGTACTTC
Statistics
Matches: 58, Mismatches: 9, Indels: 10
0.75 0.12 0.13
Matches are distributed among these distances:
6 48 0.83
7 7 0.12
8 3 0.05
ACGTcount: A:0.18, C:0.04, G:0.05, T:0.73
Consensus pattern (6 bp):
TTTTAT
Found at i:9846200 original size:2 final size:2
Alignment explanation
Indices: 9846193--9846220 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
9846183 TTTTACAATT
9846193 CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA
9846221 TATATATATA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:9849043 original size:15 final size:16
Alignment explanation
Indices: 9849012--9849047 Score: 56
Period size: 15 Copynumber: 2.3 Consensus size: 16
9849002 CATGGCTTTG
9849012 TTTATTTTTGTTAATT
1 TTTATTTTTGTTAATT
*
9849028 TTTATTTTT-TTCATT
1 TTTATTTTTGTTAATT
9849043 TTTAT
1 TTTAT
9849048 AAATAAATAC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 10 0.53
16 9 0.47
ACGTcount: A:0.17, C:0.03, G:0.03, T:0.78
Consensus pattern (16 bp):
TTTATTTTTGTTAATT
Found at i:9855778 original size:42 final size:44
Alignment explanation
Indices: 9855731--9855829 Score: 107
Period size: 45 Copynumber: 2.3 Consensus size: 44
9855721 GCACATAAGT
9855731 GCTAAACGGAAACCCGTA-AAG-GTTAAAC-G-AAAGCTCAAAAGA
1 GCTAAACGGAAA-CC-TAGAAGAGTTAAACTGCAAAGCTCAAAAGA
* * **
9855773 GCTAAACTGAAACCTAGAAGAGTTAAACTGCTGAAGCTCATGAGA
1 GCTAAACGGAAACCTAGAAGAGTTAAACTGC-AAAGCTCAAAAGA
9855818 GCTAAACGGAAA
1 GCTAAACGGAAA
9855830 GCAAACATGG
Statistics
Matches: 47, Mismatches: 5, Indels: 7
0.80 0.08 0.12
Matches are distributed among these distances:
40 2 0.04
41 5 0.11
42 18 0.38
43 1 0.02
45 21 0.45
ACGTcount: A:0.44, C:0.18, G:0.22, T:0.15
Consensus pattern (44 bp):
GCTAAACGGAAACCTAGAAGAGTTAAACTGCAAAGCTCAAAAGA
Found at i:9858400 original size:14 final size:15
Alignment explanation
Indices: 9858378--9858421 Score: 54
Period size: 14 Copynumber: 2.9 Consensus size: 15
9858368 ATTTCAATAC
9858378 TTTTAATAATA-TAT
1 TTTTAATAATATTAT
*
9858392 TTTTGATAATATTAT
1 TTTTAATAATATTAT
*
9858407 TTTAAATTAATATTA
1 TTTTAA-TAATATTA
9858422 ATACTTTTTT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
14 10 0.40
15 7 0.28
16 8 0.32
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (15 bp):
TTTTAATAATATTAT
Found at i:9858457 original size:21 final size:21
Alignment explanation
Indices: 9858413--9858457 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
9858403 TTATTTTAAA
* *
9858413 TTAATATTAATACTTTTTTGT
1 TTAATATTAATACTTTTATAT
9858434 TTAATATT-ATGACTTTTATAT
1 TTAATATTAAT-ACTTTTATAT
9858455 TTA
1 TTA
9858458 TTCATTTAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 2 0.10
21 19 0.90
ACGTcount: A:0.31, C:0.04, G:0.04, T:0.60
Consensus pattern (21 bp):
TTAATATTAATACTTTTATAT
Found at i:9861665 original size:14 final size:14
Alignment explanation
Indices: 9861646--9861675 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
9861636 AAGTAGCCAA
9861646 CCTTTGCCTTATAG
1 CCTTTGCCTTATAG
9861660 CCTTTGCCTTATAG
1 CCTTTGCCTTATAG
9861674 CC
1 CC
9861676 ATTGACGATC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.13, C:0.33, G:0.13, T:0.40
Consensus pattern (14 bp):
CCTTTGCCTTATAG
Found at i:9865235 original size:137 final size:137
Alignment explanation
Indices: 9864989--9865262 Score: 530
Period size: 137 Copynumber: 2.0 Consensus size: 137
9864979 GTTGGTGAAA
*
9864989 GCAAAGGCAAGAATTAAACAATGGACACAAATAATTTAGAGTGGTTCGACCCCAATTGCCTACTT
1 GCAAAGGCAAGAATTAAACAATGAACACAAATAATTTAGAGTGGTTCGACCCCAATTGCCTACTT
*
9865054 CACTACCTTAGCTTTCCACCACTAAGGATTTTTCCAATTTCACTAATTTTTTCACCCTTTGAGGA
66 CACTACCTTAGCTTTCCACCACTAAGGATTTTTCCAATTTCACTAATTTTTTCAACCTTTGAGGA
9865119 CAAGGTT
131 CAAGGTT
9865126 GCAAAGGCAAGAATTAAACAATGAACACAAATAATTTAGAGTGGTTCGACCCCAATTGCCTACTT
1 GCAAAGGCAAGAATTAAACAATGAACACAAATAATTTAGAGTGGTTCGACCCCAATTGCCTACTT
9865191 CACTACCTTAGCTTTCCACCACTAAGGATTTTTCCAATTTCACTAATTTTTTCAACCTTTGAGGA
66 CACTACCTTAGCTTTCCACCACTAAGGATTTTTCCAATTTCACTAATTTTTTCAACCTTTGAGGA
9865256 CAAGGTT
131 CAAGGTT
9865263 TAACCTTACA
Statistics
Matches: 135, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
137 135 1.00
ACGTcount: A:0.32, C:0.23, G:0.14, T:0.31
Consensus pattern (137 bp):
GCAAAGGCAAGAATTAAACAATGAACACAAATAATTTAGAGTGGTTCGACCCCAATTGCCTACTT
CACTACCTTAGCTTTCCACCACTAAGGATTTTTCCAATTTCACTAATTTTTTCAACCTTTGAGGA
CAAGGTT
Found at i:9865997 original size:20 final size:20
Alignment explanation
Indices: 9865954--9866002 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 20
9865944 AATCATTTTG
* * *
9865954 AAATGATTTTGACTTGATTG
1 AAATCATTTTGACATGATTA
*
9865974 AAATCATTTTGACATGGTTA
1 AAATCATTTTGACATGATTA
9865994 AAATCATTT
1 AAATCATTT
9866003 ACACTTGATT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.35, C:0.08, G:0.14, T:0.43
Consensus pattern (20 bp):
AAATCATTTTGACATGATTA
Found at i:9867710 original size:21 final size:23
Alignment explanation
Indices: 9867660--9867713 Score: 62
Period size: 21 Copynumber: 2.5 Consensus size: 23
9867650 TAGATCACAA
*
9867660 GGCTATGT-CCTTAGGTCACACG
1 GGCTATGTGCCTTAGGCCACACG
*
9867682 GGCT-TGTGCCTTA-GCCATAC-
1 GGCTATGTGCCTTAGGCCACACG
9867702 GGCTATGTGCCT
1 GGCTATGTGCCT
9867714 ACTTCCAAGC
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
20 4 0.14
21 15 0.54
22 9 0.32
ACGTcount: A:0.15, C:0.28, G:0.28, T:0.30
Consensus pattern (23 bp):
GGCTATGTGCCTTAGGCCACACG
Found at i:9869382 original size:20 final size:21
Alignment explanation
Indices: 9869357--9869408 Score: 56
Period size: 21 Copynumber: 2.6 Consensus size: 21
9869347 CACTAATAAG
* *
9869357 AAGATAGAAAAA-AATAAAAT
1 AAGATAGAAAAATAACAAAAC
9869377 AAGATA-AAAATATAACAAAAC
1 AAGATAGAAAA-ATAACAAAAC
9869398 AAG-TAGAAAAA
1 AAGATAGAAAAA
9869409 CAATTGAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
19 4 0.15
20 10 0.37
21 13 0.48
ACGTcount: A:0.73, C:0.04, G:0.10, T:0.13
Consensus pattern (21 bp):
AAGATAGAAAAATAACAAAAC
Found at i:9874237 original size:20 final size:20
Alignment explanation
Indices: 9874214--9874256 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
9874204 CAAATTTATT
* *
9874214 GATACTTTTATAAAGATATC
1 GATACTTGTATAAAAATATC
9874234 GATACTTGTATAAAAATATC
1 GATACTTGTATAAAAATATC
9874254 GAT
1 GAT
9874257 GCCTATTGAG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.42, C:0.09, G:0.12, T:0.37
Consensus pattern (20 bp):
GATACTTGTATAAAAATATC
Found at i:9876184 original size:17 final size:19
Alignment explanation
Indices: 9876149--9876185 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 19
9876139 GTAAAAATGA
9876149 ATGTCAAATTTTTTAATTT
1 ATGTCAAATTTTTTAATTT
9876168 ATGTC-AATTTTTT-ATTT
1 ATGTCAAATTTTTTAATTT
9876185 A
1 A
9876186 GGCCTTAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 5 0.28
18 8 0.44
19 5 0.28
ACGTcount: A:0.30, C:0.05, G:0.05, T:0.59
Consensus pattern (19 bp):
ATGTCAAATTTTTTAATTT
Found at i:9881046 original size:21 final size:21
Alignment explanation
Indices: 9881004--9881049 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 21
9880994 ACTTGAACTA
*
9881004 AATAATCAAATTCAATCCATTC
1 AATAATC-AATTCAATCAATTC
9881026 AATAATC-ATTCTAATCAATTC
1 AATAATCAATTC-AATCAATTC
9881047 AAT
1 AAT
9881050 CCATAAATCA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
20 4 0.18
21 11 0.50
22 7 0.32
ACGTcount: A:0.46, C:0.20, G:0.00, T:0.35
Consensus pattern (21 bp):
AATAATCAATTCAATCAATTC
Found at i:9887996 original size:20 final size:20
Alignment explanation
Indices: 9887971--9888056 Score: 84
Period size: 20 Copynumber: 4.3 Consensus size: 20
9887961 TTGTATGGGA
9887971 TTGCACTTTGGTGCCTCTAT
1 TTGCACTTTGGTGCCTCTAT
*
9887991 TTGCACTTCGGTGCCTCT-T
1 TTGCACTTTGGTGCCTCTAT
* * *
9888010 CTTACACTTTGGTGTCTCTGT
1 -TTGCACTTTGGTGCCTCTAT
* * * *
9888031 TTGCACTATGATGACTCTAA
1 TTGCACTTTGGTGCCTCTAT
9888051 TTGCAC
1 TTGCAC
9888057 AATTGTTCCT
Statistics
Matches: 54, Mismatches: 10, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
19 1 0.02
20 52 0.96
21 1 0.02
ACGTcount: A:0.14, C:0.26, G:0.19, T:0.42
Consensus pattern (20 bp):
TTGCACTTTGGTGCCTCTAT
Found at i:9890436 original size:27 final size:26
Alignment explanation
Indices: 9890406--9890462 Score: 60
Period size: 27 Copynumber: 2.2 Consensus size: 26
9890396 ATCCTAATTC
9890406 TAAAAAAATTCAAATACATATAATACA
1 TAAAAAAATTCAAATACATATAATA-A
* ** * *
9890433 TAAATATTTTTAAATATATATAATAA
1 TAAAAAAATTCAAATACATATAATAA
9890459 TAAA
1 TAAA
9890463 TTTAAAACTT
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
26 5 0.20
27 20 0.80
ACGTcount: A:0.60, C:0.05, G:0.00, T:0.35
Consensus pattern (26 bp):
TAAAAAAATTCAAATACATATAATAA
Found at i:9890582 original size:26 final size:26
Alignment explanation
Indices: 9890543--9890593 Score: 93
Period size: 26 Copynumber: 2.0 Consensus size: 26
9890533 AAATCAAAAA
9890543 CCCTCCCCTAACCCTCCCGCCATTGC
1 CCCTCCCCTAACCCTCCCGCCATTGC
*
9890569 CCCTCCCCTCACCCTCCCGCCATTG
1 CCCTCCCCTAACCCTCCCGCCATTG
9890594 TCCTCTCTAG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.10, C:0.63, G:0.08, T:0.20
Consensus pattern (26 bp):
CCCTCCCCTAACCCTCCCGCCATTGC
Found at i:9891549 original size:67 final size:67
Alignment explanation
Indices: 9891469--9891597 Score: 195
Period size: 67 Copynumber: 1.9 Consensus size: 67
9891459 AATATATCAT
9891469 CCTACAATCACATACAAAAAGTTATATTACTCCACCACCACACCCATTTACACATACAAAAAATG
1 CCTACAATCACATACAAAAAGTTATATTACTCCACCACCACACCCATTTACACATACAAAAAATG
9891534 AA
66 AA
* * * * * * *
9891536 CCTACAATTACATACAAAAAGTTATATTAGTTCACCACCACATCTATTTACGCATACCAAAA
1 CCTACAATCACATACAAAAAGTTATATTACTCCACCACCACACCCATTTACACATACAAAAA
9891598 GTGACAACCC
Statistics
Matches: 55, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
67 55 1.00
ACGTcount: A:0.44, C:0.28, G:0.04, T:0.24
Consensus pattern (67 bp):
CCTACAATCACATACAAAAAGTTATATTACTCCACCACCACACCCATTTACACATACAAAAAATG
AA
Found at i:9894536 original size:31 final size:31
Alignment explanation
Indices: 9894498--9894560 Score: 126
Period size: 31 Copynumber: 2.0 Consensus size: 31
9894488 GATTCGGATG
9894498 ATGTTCTCATTTGTTTATCTTGAAAATAGAA
1 ATGTTCTCATTTGTTTATCTTGAAAATAGAA
9894529 ATGTTCTCATTTGTTTATCTTGAAAATAGAA
1 ATGTTCTCATTTGTTTATCTTGAAAATAGAA
9894560 A
1 A
9894561 ATAGACTCAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.33, C:0.10, G:0.13, T:0.44
Consensus pattern (31 bp):
ATGTTCTCATTTGTTTATCTTGAAAATAGAA
Found at i:9895849 original size:23 final size:23
Alignment explanation
Indices: 9895818--9895868 Score: 75
Period size: 23 Copynumber: 2.2 Consensus size: 23
9895808 ACCTATTTTC
* * *
9895818 TTACTGTAGTAATTTTTGGGGTA
1 TTACAGTAGTAATTTTTAGGATA
9895841 TTACAGTAGTAATTTTTAGGATA
1 TTACAGTAGTAATTTTTAGGATA
9895864 TTACA
1 TTACA
9895869 ACGAATCAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.29, C:0.06, G:0.20, T:0.45
Consensus pattern (23 bp):
TTACAGTAGTAATTTTTAGGATA
Found at i:9912334 original size:3 final size:3
Alignment explanation
Indices: 9912326--9912377 Score: 50
Period size: 3 Copynumber: 16.7 Consensus size: 3
9912316 ATAAATTGGT
* * * *
9912326 TTA TTA TTA TTA TTA TTA TTA TTA CTTG TCA CTA TTAA TTA TTT TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TT-A TTA TTA TTA
9912373 TTA TT
1 TTA TT
9912378 CATCAATTTA
Statistics
Matches: 39, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
3 34 0.87
4 5 0.13
ACGTcount: A:0.29, C:0.06, G:0.02, T:0.63
Consensus pattern (3 bp):
TTA
Found at i:9915153 original size:23 final size:23
Alignment explanation
Indices: 9915133--9915177 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
9915123 TAGCACTTTG
* *
9915133 GTGCGATTCATTTTGGCACTTCA
1 GTGCGATCCATTCTGGCACTTCA
*
9915156 GTGGGATCCATTCTGGCACTTC
1 GTGCGATCCATTCTGGCACTTC
9915178 TTTGCAACTC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.16, C:0.24, G:0.24, T:0.36
Consensus pattern (23 bp):
GTGCGATCCATTCTGGCACTTCA
Found at i:9916745 original size:24 final size:23
Alignment explanation
Indices: 9916713--9916767 Score: 65
Period size: 23 Copynumber: 2.3 Consensus size: 23
9916703 ACCACTAATA
9916713 AAAATATGCAAAAAATCCTGCCAGT
1 AAAA-ATGCAAAAAA-CCTGCCAGT
* * *
9916738 AAAAATGCAGACAAGCTGCCAGT
1 AAAAATGCAAAAAACCTGCCAGT
9916761 AAAAATG
1 AAAAATG
9916768 TGATAAATCG
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
23 15 0.56
24 8 0.30
25 4 0.15
ACGTcount: A:0.49, C:0.18, G:0.16, T:0.16
Consensus pattern (23 bp):
AAAAATGCAAAAAACCTGCCAGT
Found at i:9923334 original size:34 final size:34
Alignment explanation
Indices: 9923291--9923359 Score: 138
Period size: 34 Copynumber: 2.0 Consensus size: 34
9923281 AGGACAGGAA
9923291 TGTTTAACGTGAAAATTGTAGGTGGAGGGTGGCT
1 TGTTTAACGTGAAAATTGTAGGTGGAGGGTGGCT
9923325 TGTTTAACGTGAAAATTGTAGGTGGAGGGTGGCT
1 TGTTTAACGTGAAAATTGTAGGTGGAGGGTGGCT
9923359 T
1 T
9923360 TTAGGTTCAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.23, C:0.06, G:0.38, T:0.33
Consensus pattern (34 bp):
TGTTTAACGTGAAAATTGTAGGTGGAGGGTGGCT
Found at i:9925794 original size:28 final size:27
Alignment explanation
Indices: 9925745--9925801 Score: 87
Period size: 28 Copynumber: 2.1 Consensus size: 27
9925735 AAAACGGTAA
9925745 TTTTACCCTTAGGGGTATTTTGGTCAT
1 TTTTACCCTTAGGGGTATTTTGGTCAT
* *
9925772 TTTTACCCTTCGAGGGTATTTTGTTCAT
1 TTTTACCCTTAG-GGGTATTTTGGTCAT
9925800 TT
1 TT
9925802 AACAACCTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
27 11 0.41
28 16 0.59
ACGTcount: A:0.14, C:0.16, G:0.19, T:0.51
Consensus pattern (27 bp):
TTTTACCCTTAGGGGTATTTTGGTCAT
Found at i:9929189 original size:49 final size:49
Alignment explanation
Indices: 9929126--9929358 Score: 184
Period size: 49 Copynumber: 4.8 Consensus size: 49
9929116 ATAAGATGGG
* * * *
9929126 CCACTAGTAGGGCATATTAGTTGCTAACCAGATTGGTAGATGTGAAAGA
1 CCACTGGTAGGGCATGTTAGTTGCTAACTAGATTGGTAGATATGAAAGA
* * * * *
9929175 CCACTGGTAAGGCATGTTAGTTGCTAACCAGATGGGT-GA-ATAAAATGGG
1 CCACTGGTAGGGCATGTTAGTTGCTAACTAGATTGGTAGATATGAAA--GA
* ** *
9929224 TCACTGGTAGGGCATGTTAGGTT-CTAACTAGATTGACAGATGTGAAAGA
1 CCACTGGTAGGGCATGTTA-GTTGCTAACTAGATTGGTAGATATGAAAGA
** * * * * * * * **
9929273 TGACTAGTAAGACTTGTTAGTTGCTAACTAGATGGGTAAATAAGGTAGA
1 CCACTGGTAGGGCATGTTAGTTGCTAACTAGATTGGTAGATATGAAAGA
* *
9929322 CCATTGGTAGGGTATGTTAGTTGCTAACTAGATTGGT
1 CCACTGGTAGGGCATGTTAGTTGCTAACTAGATTGGT
9929359 GTGAGCGCTG
Statistics
Matches: 140, Mismatches: 38, Indels: 12
0.74 0.20 0.06
Matches are distributed among these distances:
47 4 0.03
48 5 0.04
49 122 0.87
50 5 0.04
51 4 0.03
ACGTcount: A:0.30, C:0.12, G:0.28, T:0.29
Consensus pattern (49 bp):
CCACTGGTAGGGCATGTTAGTTGCTAACTAGATTGGTAGATATGAAAGA
Found at i:9929283 original size:98 final size:98
Alignment explanation
Indices: 9929113--9929356 Score: 301
Period size: 98 Copynumber: 2.5 Consensus size: 98
9929103 ACTCAATATC
* * * **
9929113 TGAATAAGATGGGCCACTAGTAGGGCATATTAGTTGCTAACCAGATTGGTAGATGTGAAAGACCA
1 TGAATAAGATGGGCCACTGGTAGGGCATGTTAGTTGCTAACTAGATTGACAGATGTGAAAGACCA
* *
9929178 CTGGTAAGGCATGTTAGTTGCTAACCAGATGGG
66 CTAGTAAGACATGTTAGTTGCTAACCAGATGGG
* * **
9929211 TGAATAAAATGGGTCACTGGTAGGGCATGTTAGGTT-CTAACTAGATTGACAGATGTGAAAGATG
1 TGAATAAGATGGGCCACTGGTAGGGCATGTTA-GTTGCTAACTAGATTGACAGATGTGAAAGACC
* *
9929275 ACTAGTAAGACTTGTTAGTTGCTAACTAGATGGG
65 ACTAGTAAGACATGTTAGTTGCTAACCAGATGGG
* * * * * *
9929309 TAAATAAGGTAGACCATTGGTAGGGTATGTTAGTTGCTAACTAGATTG
1 TGAATAAGATGGGCCACTGGTAGGGCATGTTAGTTGCTAACTAGATTG
9929357 GTGTGAGCGC
Statistics
Matches: 123, Mismatches: 21, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
97 3 0.02
98 117 0.95
99 3 0.02
ACGTcount: A:0.31, C:0.11, G:0.29, T:0.29
Consensus pattern (98 bp):
TGAATAAGATGGGCCACTGGTAGGGCATGTTAGTTGCTAACTAGATTGACAGATGTGAAAGACCA
CTAGTAAGACATGTTAGTTGCTAACCAGATGGG
Found at i:9938292 original size:23 final size:20
Alignment explanation
Indices: 9938240--9938293 Score: 54
Period size: 23 Copynumber: 2.5 Consensus size: 20
9938230 TGATCTATAC
9938240 TAATAATAATAAGAAAATAAA
1 TAATAA-AATAAGAAAATAAA
* *
9938261 GAATTAAATCAAGAGAAATCAAA
1 TAATAAAAT-AAGA-AAAT-AAA
9938284 TAATAAAATA
1 TAATAAAATA
9938294 TATATCAAAT
Statistics
Matches: 26, Mismatches: 4, Indels: 5
0.74 0.11 0.14
Matches are distributed among these distances:
20 3 0.12
21 8 0.31
22 5 0.19
23 10 0.38
ACGTcount: A:0.67, C:0.04, G:0.07, T:0.22
Consensus pattern (20 bp):
TAATAAAATAAGAAAATAAA
Found at i:9945097 original size:22 final size:23
Alignment explanation
Indices: 9945065--9945112 Score: 62
Period size: 22 Copynumber: 2.1 Consensus size: 23
9945055 GCATATTTCT
* *
9945065 TTTTTATTTTTAGTTTAG-TTTG
1 TTTTTAATTTTAATTTAGTTTTG
*
9945087 TTTTTAATTTTAATTTTGTTTTG
1 TTTTTAATTTTAATTTAGTTTTG
9945110 TTT
1 TTT
9945113 AGTTTGCTTG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
22 15 0.68
23 7 0.32
ACGTcount: A:0.15, C:0.00, G:0.10, T:0.75
Consensus pattern (23 bp):
TTTTTAATTTTAATTTAGTTTTG
Found at i:9946239 original size:19 final size:19
Alignment explanation
Indices: 9946215--9946253 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
9946205 TTATCTATCG
9946215 TAATA-TAAGATTTGATTAT
1 TAATATTAAGATTT-ATTAT
*
9946234 TAATATTTAGATTTATTAT
1 TAATATTAAGATTTATTAT
9946253 T
1 T
9946254 GTAAAGAGAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 11 0.61
20 7 0.39
ACGTcount: A:0.38, C:0.00, G:0.08, T:0.54
Consensus pattern (19 bp):
TAATATTAAGATTTATTAT
Found at i:9966649 original size:45 final size:44
Alignment explanation
Indices: 9966480--9966669 Score: 173
Period size: 45 Copynumber: 4.2 Consensus size: 44
9966470 TATGGACTCT
* * * * * * **
9966480 TACATGCGGACTCGTAGAAGAAGATTAATGGATATGGCAGGCTCA
1 TACATGCGAATTCATAGAAGAATATTTATAGATATGG-AGATTCA
* ***
9966525 TACATGCGGATTCATAGAAGAATATTTATAGATACCACAGATTCA
1 TACATGCGAATTCATAGAAGAATATTTATAGATA-TGGAGATTCA
* * *
9966570 TATATGCAAAATCATAGAAGAATATTTATAGATATGGTAGATTCA
1 TACATGCGAATTCATAGAAGAATATTTATAGATATGG-AGATTCA
* * *
9966615 TACATGCGAATTCATAGAAAAATATTCATAGATATAGGGGATTCA
1 TACATGCGAATTCATAGAAGAATATTTATAGATAT-GGAGATTCA
*
9966660 TACATACGAA
1 TACATGCGAA
9966670 CTCTGTTGCA
Statistics
Matches: 118, Mismatches: 24, Indels: 6
0.80 0.16 0.04
Matches are distributed among these distances:
45 116 0.98
46 2 0.02
ACGTcount: A:0.41, C:0.13, G:0.19, T:0.28
Consensus pattern (44 bp):
TACATGCGAATTCATAGAAGAATATTTATAGATATGGAGATTCA
Found at i:9974315 original size:13 final size:13
Alignment explanation
Indices: 9974297--9974322 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
9974287 CTATCATCCA
9974297 CTATCTCATAAAT
1 CTATCTCATAAAT
9974310 CTATCTCATAAAT
1 CTATCTCATAAAT
9974323 GGGATATTTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.23, G:0.00, T:0.38
Consensus pattern (13 bp):
CTATCTCATAAAT
Found at i:9980630 original size:59 final size:60
Alignment explanation
Indices: 9980538--9980664 Score: 220
Period size: 59 Copynumber: 2.1 Consensus size: 60
9980528 AAATGTAGAA
* *
9980538 AAGGGGGGACTTTTGTTTTTTTTTGAAATGGGTATCCAAACCTATTGAAACCTTTGTAAC
1 AAGGGGGGACTTTTGTTTTTTTTTGAAATGGGTATACAAACCGATTGAAACCTTTGTAAC
9980598 AAGGGGGGACTTTTG-TTTTTTTTGAAATGGGTATACAAACCGATTGAAACCTTTGTAAC
1 AAGGGGGGACTTTTGTTTTTTTTTGAAATGGGTATACAAACCGATTGAAACCTTTGTAAC
*
9980657 GAGGGGGG
1 AAGGGGGG
9980665 TTTTTTTTTT
Statistics
Matches: 64, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
59 49 0.77
60 15 0.23
ACGTcount: A:0.27, C:0.12, G:0.27, T:0.35
Consensus pattern (60 bp):
AAGGGGGGACTTTTGTTTTTTTTTGAAATGGGTATACAAACCGATTGAAACCTTTGTAAC
Found at i:9981514 original size:18 final size:18
Alignment explanation
Indices: 9981476--9981514 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
9981466 ATTTTTGTTA
*
9981476 TTATTATTATTTATTTAT
1 TTATTATTATTTATTAAT
9981494 TTATTATTATTT-TTAACT
1 TTATTATTATTTATTAA-T
9981512 TTA
1 TTA
9981515 AAATTTTGTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 3 0.16
18 16 0.84
ACGTcount: A:0.28, C:0.03, G:0.00, T:0.69
Consensus pattern (18 bp):
TTATTATTATTTATTAAT
Found at i:9981641 original size:12 final size:11
Alignment explanation
Indices: 9981624--9981677 Score: 55
Period size: 10 Copynumber: 5.2 Consensus size: 11
9981614 CACGTATTTT
9981624 TTTATATA-TA
1 TTTATATATTA
9981634 TATT-TATATTA
1 T-TTATATATTA
9981645 TTTTATATATTA
1 -TTTATATATTA
9981657 TTTAT-TATTA
1 TTTATATATTA
9981667 TTT-T-TATTA
1 TTTATATATTA
9981676 TT
1 TT
9981678 CTTATTTTCA
Statistics
Matches: 40, Mismatches: 0, Indels: 9
0.82 0.00 0.18
Matches are distributed among these distances:
9 8 0.20
10 13 0.32
11 11 0.28
12 8 0.20
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (11 bp):
TTTATATATTA
Found at i:9981643 original size:22 final size:22
Alignment explanation
Indices: 9981618--9981677 Score: 79
Period size: 22 Copynumber: 2.7 Consensus size: 22
9981608 TATATACACG
9981618 TATTTTTTTATATATATATTTA-
1 TATTTTTTTATATAT-TATTTAT
*
9981640 TATTATTTTATATATTATTTAT
1 TATTTTTTTATATATTATTTAT
9981662 TATTATTTTTAT-TATT
1 TATT-TTTTTATATATT
9981678 CTTATTTTCA
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
21 6 0.18
22 22 0.65
23 6 0.18
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (22 bp):
TATTTTTTTATATATTATTTAT
Found at i:9981653 original size:18 final size:19
Alignment explanation
Indices: 9981630--9981665 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
9981620 TTTTTTTATA
9981630 TATATATT-TATATTATTT
1 TATATATTATATATTATTT
*
9981648 TATATATTATTTATTATT
1 TATATATTATATATTATT
9981666 ATTTTTATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (19 bp):
TATATATTATATATTATTT
Found at i:9987422 original size:44 final size:44
Alignment explanation
Indices: 9987354--9987790 Score: 193
Period size: 44 Copynumber: 10.0 Consensus size: 44
9987344 TAGATCGCAT
* * * *
9987354 CAGATTGAGGCCAGAAATCTTATCTCCCTGAGATTACAGCGGAG
1 CAGATTGAAGCAAGTAATCTTATCTCCCTGAGATTACAGTGGAG
* *
9987398 CAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACAGTGGAG
1 CAGATTGAAGCAAGTAATCTTATCTCCCTGAGATTACAGTGGAG
* * * * * * *
9987442 CGGATTAAAACCAAG-GATCTTATCTCTCT-AAAGTTACAGTAGAG
1 CAGATT-GAAGCAAGTAATCTTATCTCCCTGAGA-TTACAGTGGAG
* * * * * *
9987486 TAGATTGCA-CCAG--GTCTTATTTCCCTGAGATTACAGTGGAA
1 CAGATTGAAGCAAGTAATCTTATCTCCCTGAGATTACAGTGGAG
** * *
9987527 CAGACCGAAG-AATTTCAGATCTTATCTCCCTGAGATTACAGCGGAG
1 CAGATTGAAGCAA-GT-A-ATCTTATCTCCCTGAGATTACAGTGGAG
* ** * *
9987573 TAGATTGAAGCTGGTAAATCCTATCT-CCTGAGATTATAGTGGAG
1 CAGATTGAAGCAAGT-AATCTTATCTCCCTGAGATTACAGTGGAG
* * * * *
9987617 CGGATTGAAACCAAG-GATCTTATCTCTCTGA-AGTTACAGTAGAG
1 CAGATTG-AAGCAAGTAATCTTATCTCCCTGAGA-TTACAGTGGAG
* * * * * * * * *
9987661 TAGATCGCA-CCAG--GTCTTATTTCCCTAAGATAACAGTGGAA
1 CAGATTGAAGCAAGTAATCTTATCTCCCTGAGATTACAGTGGAG
** * * * **
9987702 CAGACCGAAG-AATTTCAGATCTTATCTCCTTGAG-TTATAGTAAAG
1 CAGATTGAAGCAA-GT-A-ATCTTATCTCCCTGAGATTACAGTGGAG
* * *
9987747 CAGATTGAAGCTACTAATCCTATCTCCCTGA-AGTTACAGTGGAG
1 CAGATTGAAGCAAGTAATCTTATCTCCCTGAGA-TTACAGTGGAG
9987791 TGGAATAAAA
Statistics
Matches: 280, Mismatches: 90, Indels: 46
0.67 0.22 0.11
Matches are distributed among these distances:
41 51 0.18
42 9 0.03
43 26 0.09
44 116 0.41
45 32 0.11
46 46 0.16
ACGTcount: A:0.31, C:0.20, G:0.22, T:0.28
Consensus pattern (44 bp):
CAGATTGAAGCAAGTAATCTTATCTCCCTGAGATTACAGTGGAG
Found at i:9987654 original size:88 final size:88
Alignment explanation
Indices: 9987370--9987665 Score: 284
Period size: 88 Copynumber: 3.4 Consensus size: 88
9987360 GAGGCCAGAA
* * *
9987370 ATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTAC
1 ATCTTATCTCCCTGAGATTACAGCAGAGTAGATTGAAGCTGGTAATCCTATCTCCCTGAGATTAC
*
9987435 AGTGGAGCGGATTAAAACCAAGG
66 AGTGGAGCGGATTGAAACCAAGG
* * * * * * * *
9987458 ATCTTATCTCTCT-AAAGTTACAGTAGAGTAGATTGCACCAGG---TCTTATTTCCCTGAGATTA
1 ATCTTATCTCCCTGAGA-TTACAGCAGAGTAGATTGAAGCTGGTAATCCTATCTCCCTGAGATTA
* * ** *
9987519 CAGTGGAACAGACCGAAGAATTTC-A-G
65 CAGTGGAGCGGATTG-A-AA--CCAAGG
*
9987545 ATCTTATCTCCCTGAGATTACAGCGGAGTAGATTGAAGCTGGTAAATCCTATCT-CCTGAGATTA
1 ATCTTATCTCCCTGAGATTACAGCAGAGTAGATTGAAGCTGGT-AATCCTATCTCCCTGAGATTA
*
9987609 TAGTGGAGCGGATTGAAACCAAGG
65 CAGTGGAGCGGATTGAAACCAAGG
* *
9987633 ATCTTATCTCTCTGA-AGTTACAGTAGAGTAGAT
1 ATCTTATCTCCCTGAGA-TTACAGCAGAGTAGAT
9987666 CGCACCAGGT
Statistics
Matches: 160, Mismatches: 35, Indels: 26
0.72 0.16 0.12
Matches are distributed among these distances:
85 27 0.17
86 2 0.01
87 39 0.24
88 64 0.40
89 2 0.01
90 20 0.12
91 6 0.04
ACGTcount: A:0.30, C:0.19, G:0.22, T:0.28
Consensus pattern (88 bp):
ATCTTATCTCCCTGAGATTACAGCAGAGTAGATTGAAGCTGGTAATCCTATCTCCCTGAGATTAC
AGTGGAGCGGATTGAAACCAAGG
Found at i:9987661 original size:175 final size:175
Alignment explanation
Indices: 9987370--9987801 Score: 681
Period size: 175 Copynumber: 2.5 Consensus size: 175
9987360 GAGGCCAGAA
9987370 ATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTAC
1 ATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTAC
*
9987435 AGTGGAGCGGATTAAAACCAAGGATCTTATCTCTCTAAAGTTACAGTAGAGTAGATTGCACCAGG
66 AGTGGAGCGGATTAAAACCAAGGATCTTATCTCTCTAAAGTTACAGTAGAGTAGATCGCACCAGG
* *
9987500 TCTTATTTCCCTGAGATTACAGTGGAACAGACCGAAGAATTTCAG
131 TCTTATTTCCCTAAGATAACAGTGGAACAGACCGAAGAATTTCAG
* *
9987545 ATCTTATCTCCCTGAGATTACAGCGGAGTAGATTGAAGCTGGTAAATCCTATCT-CCTGAGATTA
1 ATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGT-AATCCTATCTCCCTGAGATTA
* * *
9987609 TAGTGGAGCGGATTGAAACCAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCACCAG
65 CAGTGGAGCGGATTAAAACCAAGGATCTTATCTCTCTAAAGTTACAGTAGAGTAGATCGCACCAG
9987674 GTCTTATTTCCCTAAGATAACAGTGGAACAGACCGAAGAATTTCAG
130 GTCTTATTTCCCTAAGATAACAGTGGAACAGACCGAAGAATTTCAG
* * *** *
9987720 ATCTTATCTCCTTGAG-TTATAGTAAAGCAGATTGAAGCTACTAATCCTATCTCCCTGA-AGTTA
1 ATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGA-TTA
* *
9987783 CAGTGGAGTGGAATAAAAC
65 CAGTGGAGCGGATTAAAAC
9987802 GATGAATCAT
Statistics
Matches: 234, Mismatches: 20, Indels: 7
0.90 0.08 0.03
Matches are distributed among these distances:
173 11 0.05
174 42 0.18
175 171 0.73
176 10 0.04
ACGTcount: A:0.31, C:0.20, G:0.21, T:0.28
Consensus pattern (175 bp):
ATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTAC
AGTGGAGCGGATTAAAACCAAGGATCTTATCTCTCTAAAGTTACAGTAGAGTAGATCGCACCAGG
TCTTATTTCCCTAAGATAACAGTGGAACAGACCGAAGAATTTCAG
Found at i:9989367 original size:3 final size:3
Alignment explanation
Indices: 9989361--9989412 Score: 50
Period size: 3 Copynumber: 16.3 Consensus size: 3
9989351 TATTTTAACG
* * *
9989361 TAT TAT TATT TAT CAT TTT TGT TAT TAT TAT TAT TATT TATT TAT TAT
1 TAT TAT TA-T TAT TAT TAT TAT TAT TAT TAT TAT TA-T TA-T TAT TAT
9989409 TAT T
1 TAT T
9989413 TTTAACTTTA
Statistics
Matches: 42, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
3 32 0.76
4 10 0.24
ACGTcount: A:0.27, C:0.02, G:0.02, T:0.69
Consensus pattern (3 bp):
TAT
Found at i:9989549 original size:12 final size:11
Alignment explanation
Indices: 9989532--9989585 Score: 55
Period size: 10 Copynumber: 5.2 Consensus size: 11
9989522 CACGTATTTT
9989532 TTTATATA-TA
1 TTTATATATTA
9989542 TATT-TATATTA
1 T-TTATATATTA
9989553 TTTTATATATTA
1 -TTTATATATTA
9989565 TTTAT-TATTA
1 TTTATATATTA
9989575 TTT-T-TATTA
1 TTTATATATTA
9989584 TT
1 TT
9989586 CTTATTTTCA
Statistics
Matches: 40, Mismatches: 0, Indels: 9
0.82 0.00 0.18
Matches are distributed among these distances:
9 8 0.20
10 13 0.32
11 11 0.28
12 8 0.20
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (11 bp):
TTTATATATTA
Found at i:9989551 original size:22 final size:22
Alignment explanation
Indices: 9989526--9989585 Score: 79
Period size: 22 Copynumber: 2.7 Consensus size: 22
9989516 TATATACACG
9989526 TATTTTTTTATATATATATTTA-
1 TATTTTTTTATATAT-TATTTAT
*
9989548 TATTATTTTATATATTATTTAT
1 TATTTTTTTATATATTATTTAT
9989570 TATTATTTTTAT-TATT
1 TATT-TTTTTATATATT
9989586 CTTATTTTCA
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
21 6 0.18
22 22 0.65
23 6 0.18
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (22 bp):
TATTTTTTTATATATTATTTAT
Found at i:9989561 original size:18 final size:19
Alignment explanation
Indices: 9989538--9989573 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
9989528 TTTTTTTATA
9989538 TATATATT-TATATTATTT
1 TATATATTATATATTATTT
*
9989556 TATATATTATTTATTATT
1 TATATATTATATATTATT
9989574 ATTTTTATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (19 bp):
TATATATTATATATTATTT
Found at i:9992221 original size:12 final size:12
Alignment explanation
Indices: 9992203--9992232 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
9992193 CCTCACACGC
9992203 CCGTGTGCTAGG
1 CCGTGTGCTAGG
*
9992215 TCGTGTGCTAGG
1 CCGTGTGCTAGG
9992227 CCGTGT
1 CCGTGT
9992233 AACAGCCTGA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.07, C:0.23, G:0.40, T:0.30
Consensus pattern (12 bp):
CCGTGTGCTAGG
Found at i:9993523 original size:24 final size:25
Alignment explanation
Indices: 9993441--9993551 Score: 104
Period size: 25 Copynumber: 4.5 Consensus size: 25
9993431 ATGAGCTATT
* * *
9993441 AATCGGTATGCTCTCAGGAGTTGTA-
1 AATCGGTAAGCTCTCACGAGCTG-AC
* *
9993466 AATCGATAAGCTCAT-ACGAGCTGAG
1 AATCGGTAAGCTC-TCACGAGCTGAC
9993491 AATCGGTAAGCTCTCACGAGCTG-C
1 AATCGGTAAGCTCTCACGAGCTGAC
*
9993515 AATCGGTAAGCTCTTACGAGCT-AC
1 AATCGGTAAGCTCTCACGAGCTGAC
* *
9993539 TATCAGTAAGCTC
1 AATCGGTAAGCTC
9993552 ATACAACCTG
Statistics
Matches: 73, Mismatches: 9, Indels: 9
0.80 0.10 0.10
Matches are distributed among these distances:
24 35 0.48
25 37 0.51
26 1 0.01
ACGTcount: A:0.29, C:0.23, G:0.23, T:0.25
Consensus pattern (25 bp):
AATCGGTAAGCTCTCACGAGCTGAC
Found at i:9995497 original size:21 final size:21
Alignment explanation
Indices: 9995471--9995510 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
9995461 TTACACCACA
9995471 TTGTGGATAAACCACTCATCG
1 TTGTGGATAAACCACTCATCG
9995492 TTGTGGATAAACCACTCAT
1 TTGTGGATAAACCACTCAT
9995511 AATAAAAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.30, C:0.23, G:0.17, T:0.30
Consensus pattern (21 bp):
TTGTGGATAAACCACTCATCG
Found at i:10005332 original size:14 final size:14
Alignment explanation
Indices: 10005308--10005349 Score: 68
Period size: 14 Copynumber: 3.1 Consensus size: 14
10005298 AATCAAAGTC
*
10005308 AAAAT-AAAAAATG
1 AAAATGAAAAAAGG
10005321 AAAATGAAAAAAGG
1 AAAATGAAAAAAGG
10005335 AAAATGAAAAAAGG
1 AAAATGAAAAAAGG
10005349 A
1 A
10005350 GAGGCCAAGG
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
13 5 0.19
14 22 0.81
ACGTcount: A:0.74, C:0.00, G:0.17, T:0.10
Consensus pattern (14 bp):
AAAATGAAAAAAGG
Found at i:10006143 original size:15 final size:15
Alignment explanation
Indices: 10006123--10006166 Score: 56
Period size: 14 Copynumber: 3.1 Consensus size: 15
10006113 TCGAGTCAAA
10006123 AAAAAGTGAAAAATG
1 AAAAAGTGAAAAATG
*
10006138 AAAAAGTG-AAAACG
1 AAAAAGTGAAAAATG
*
10006152 AAAAA-TAAAAAATG
1 AAAAAGTGAAAAATG
10006166 A
1 A
10006167 TGAAAGAGTA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
13 1 0.04
14 16 0.64
15 8 0.32
ACGTcount: A:0.70, C:0.02, G:0.16, T:0.11
Consensus pattern (15 bp):
AAAAAGTGAAAAATG
Found at i:10008023 original size:31 final size:31
Alignment explanation
Indices: 10007973--10008038 Score: 78
Period size: 31 Copynumber: 2.1 Consensus size: 31
10007963 GATCGCATCC
* * * * *
10007973 GATCTTATCTCTCTGAAGTTGCAGTGGAGCA
1 GATCCTATCTCCCTAAAGTTACAGTAGAGCA
*
10008004 GATCCTATCTCCCTAAAGTTACAGTAGAGCG
1 GATCCTATCTCCCTAAAGTTACAGTAGAGCA
10008035 GATC
1 GATC
10008039 AAAATGATGA
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.26, C:0.23, G:0.23, T:0.29
Consensus pattern (31 bp):
GATCCTATCTCCCTAAAGTTACAGTAGAGCA
Done.