Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A12
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: 103038859
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4950000 characters in sequence are not A, C, G, or T
File 23 of 320
Found at i:6561279 original size:17 final size:17
Alignment explanation
Indices: 6561250--6561284 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
6561240 TTTTTAAAAT
6561250 TTTTTCGTATTTTTTTA
1 TTTTTCGTATTTTTTTA
6561267 TTTTT-GTACTTTTTTTA
1 TTTTTCGTA-TTTTTTTA
6561284 T
1 T
6561285 CACTTTTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 3 0.18
17 14 0.82
ACGTcount: A:0.11, C:0.06, G:0.06, T:0.77
Consensus pattern (17 bp):
TTTTTCGTATTTTTTTA
Found at i:6562441 original size:14 final size:14
Alignment explanation
Indices: 6562402--6562434 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
6562392 AATATAAAAC
*
6562402 AAATAAATTAAATT
1 AAATAAATTAAAGT
6562416 AAATAAATTAAAGT
1 AAATAAATTAAAGT
6562430 AAATA
1 AAATA
6562435 GAATAAAACG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.67, C:0.00, G:0.03, T:0.30
Consensus pattern (14 bp):
AAATAAATTAAAGT
Found at i:6563510 original size:29 final size:27
Alignment explanation
Indices: 6563449--6563520 Score: 94
Period size: 27 Copynumber: 2.7 Consensus size: 27
6563439 AATGCCTTAT
6563449 TGGTGTGTTTGGGAGGATATGATATAC
1 TGGTGTGTTTGGGAGGATATGATATAC
*
6563476 TGGTGTGTTTGGGAGGCTAT-ATTATAC
1 TGGTGTGTTTGGGAGGATATGA-TATAC
*
6563503 TAGTGTGTTAT-GGAGGAT
1 TGGTGTGTT-TGGGAGGAT
6563521 TTATAATATT
Statistics
Matches: 40, Mismatches: 3, Indels: 4
0.85 0.06 0.09
Matches are distributed among these distances:
26 1 0.03
27 38 0.95
28 1 0.03
ACGTcount: A:0.21, C:0.04, G:0.36, T:0.39
Consensus pattern (27 bp):
TGGTGTGTTTGGGAGGATATGATATAC
Found at i:6573684 original size:15 final size:15
Alignment explanation
Indices: 6573664--6573722 Score: 50
Period size: 15 Copynumber: 3.7 Consensus size: 15
6573654 TGATTTTATG
6573664 TATTATATTTTATAT
1 TATTATATTTTATAT
6573679 TATTAT-TTACTTATAT
1 TATTATATT--TTATAT
*
6573695 T-TTATTATATTATAT
1 TATTA-TATTTTATAT
6573710 TACTTCATATTTT
1 TA-TT-ATATTTT
6573723 TATCATATTA
Statistics
Matches: 35, Mismatches: 2, Indels: 12
0.71 0.04 0.24
Matches are distributed among these distances:
14 2 0.06
15 16 0.46
16 8 0.23
17 8 0.23
18 1 0.03
ACGTcount: A:0.31, C:0.05, G:0.00, T:0.64
Consensus pattern (15 bp):
TATTATATTTTATAT
Found at i:6573692 original size:23 final size:24
Alignment explanation
Indices: 6573666--6573780 Score: 93
Period size: 24 Copynumber: 4.9 Consensus size: 24
6573656 ATTTTATGTA
6573666 TTATATTTTA-TATTATTAT-TTAC
1 TTATATTTTATTA-TATTATATTAC
6573689 TTATATTTTATTATATTATATTAC
1 TTATATTTTATTATATTATATTAC
*
6573713 TTCATATTTTTATCATATTA-A-TA-
1 TT-ATA-TTTTATTATATTATATTAC
**
6573736 -TATATTTTAACATA-TATCATTAC
1 TTATATTTTATTATATTAT-ATTAC
*
6573759 TCAT-TATTTATTATATTATATT
1 TTATAT-TTTATTATATTATATT
6573781 TTCATCACAT
Statistics
Matches: 76, Mismatches: 5, Indels: 21
0.75 0.05 0.21
Matches are distributed among these distances:
19 2 0.03
20 9 0.12
21 4 0.05
22 3 0.04
23 17 0.22
24 22 0.29
25 7 0.09
26 12 0.16
ACGTcount: A:0.34, C:0.07, G:0.00, T:0.59
Consensus pattern (24 bp):
TTATATTTTATTATATTATATTAC
Found at i:6573702 original size:26 final size:26
Alignment explanation
Indices: 6573673--6573732 Score: 79
Period size: 26 Copynumber: 2.3 Consensus size: 26
6573663 GTATTATATT
6573673 TTATATTATTATTTACTT-ATA-TTTTA
1 TTATATTA-TA-TTACTTCATATTTTTA
6573699 TTATATTATATTACTTCATATTTTTA
1 TTATATTATATTACTTCATATTTTTA
*
6573725 TCATATTA
1 TTATATTA
6573733 ATATATATTT
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
24 6 0.19
25 5 0.16
26 20 0.65
ACGTcount: A:0.32, C:0.07, G:0.00, T:0.62
Consensus pattern (26 bp):
TTATATTATATTACTTCATATTTTTA
Found at i:6573758 original size:46 final size:44
Alignment explanation
Indices: 6573690--6573776 Score: 104
Period size: 46 Copynumber: 1.9 Consensus size: 44
6573680 ATTATTTACT
** *
6573690 TATATTTTATTATATTATATTACTTCATATTTTTATCATATTAATA
1 TATATTTTAACATATTATATTAC-TCAT-TATTTATCATATTAATA
*
6573736 TATATTTTAACATA-TATCATTACTCATTATTTATTATATTA
1 TATATTTTAACATATTAT-ATTACTCATTATTTATCATATTA
6573777 TATTTTCATC
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
44 12 0.33
45 7 0.19
46 17 0.47
ACGTcount: A:0.36, C:0.08, G:0.00, T:0.56
Consensus pattern (44 bp):
TATATTTTAACATATTATATTACTCATTATTTATCATATTAATA
Found at i:6573839 original size:42 final size:41
Alignment explanation
Indices: 6573727--6573848 Score: 103
Period size: 42 Copynumber: 3.0 Consensus size: 41
6573717 TATTTTTATC
* * *
6573727 ATATTAATATATATTTTAAC-ATATATCA-TTACTCATTA-TT
1 ATATTATTTTATATTTTAACAATATATTATTTA-T-ATTATTT
* *
6573767 -TATTATATTATATTTTCATCACATA-A-TATTTATATATATTT
1 ATATTATTTTATATTTT-AACA-ATATATTATTTATAT-TATTT
6573808 ATATTATTTTATATTTTAACAATATATTATTTCATATTATT
1 ATATTATTTTATATTTTAACAATATATTATTT-ATATTATT
6573849 ATTATCTAAT
Statistics
Matches: 65, Mismatches: 7, Indels: 18
0.72 0.08 0.20
Matches are distributed among these distances:
39 15 0.23
40 9 0.14
41 10 0.15
42 27 0.42
43 4 0.06
ACGTcount: A:0.38, C:0.07, G:0.00, T:0.55
Consensus pattern (41 bp):
ATATTATTTTATATTTTAACAATATATTATTTATATTATTT
Found at i:6573851 original size:16 final size:16
Alignment explanation
Indices: 6573832--6573897 Score: 57
Period size: 16 Copynumber: 4.2 Consensus size: 16
6573822 TTTAACAATA
6573832 TATTATTTCATATTAT
1 TATTATTTCATATTAT
* *
6573848 TATTATCTAATA-TA-
1 TATTATTTCATATTAT
* *
6573862 TATTTTTTCATGTATAT
1 TATTATTTCATAT-TAT
*
6573879 TATTA-TTCACATTAT
1 TATTATTTCATATTAT
6573894 TATT
1 TATT
6573898 TCATATTAAA
Statistics
Matches: 38, Mismatches: 9, Indels: 7
0.70 0.17 0.13
Matches are distributed among these distances:
14 8 0.21
15 9 0.24
16 17 0.45
17 4 0.11
ACGTcount: A:0.32, C:0.08, G:0.02, T:0.59
Consensus pattern (16 bp):
TATTATTTCATATTAT
Found at i:6574052 original size:21 final size:22
Alignment explanation
Indices: 6574018--6574061 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
6574008 TATTTCAAAA
*
6574018 TTCATTATTAATT-ACTATGTT
1 TTCATTATTAATTAAATATGTT
6574039 TTCATGTATT-ATTAAATATGTT
1 TTCAT-TATTAATTAAATATGTT
6574061 T
1 T
6574062 ATTATCTTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
21 8 0.40
22 12 0.60
ACGTcount: A:0.30, C:0.07, G:0.07, T:0.57
Consensus pattern (22 bp):
TTCATTATTAATTAAATATGTT
Found at i:6578135 original size:21 final size:21
Alignment explanation
Indices: 6578111--6578161 Score: 84
Period size: 21 Copynumber: 2.4 Consensus size: 21
6578101 CCTCAAAACA
*
6578111 GTTGGAGGATCGTTGCAAGTG
1 GTTGGAGGATCATTGCAAGTG
6578132 GTTGGAGGATCATTGCAAGTG
1 GTTGGAGGATCATTGCAAGTG
*
6578153 GTTAGAGGA
1 GTTGGAGGA
6578162 GAATTTTAGA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.24, C:0.08, G:0.41, T:0.27
Consensus pattern (21 bp):
GTTGGAGGATCATTGCAAGTG
Found at i:6585987 original size:204 final size:205
Alignment explanation
Indices: 6585637--6586189 Score: 914
Period size: 206 Copynumber: 2.7 Consensus size: 205
6585627 GCAGATCTGG
6585637 CTGAAGCAAGATCCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCT
1 CTGAAGC-AGATCCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAA-ACATAGCT
*
6585702 GATTTGGCTTT-ACGTGCTTACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAG
64 GATTTGGCTTTCACGTGCTTACGCTGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAG
* *
6585766 AGAACAAATCGAAGTTTGGCGTCTCCATATTCGACGGAGAGCAGATACATAGCAGATCT-GCCTT
129 AGAACAAATCGAAGTTTGGCGTCTCCATATTCGACGGAGAGCAGACACATAGCAGATCTAACCTT
* *
6585830 -AGATGTTTATA
194 CAGATGATTAGA
* *
6585841 CTGAAGCAGATCCAAGATGATTTGGCATCCTTGTGTTTACAAGGAACAAATCGAAATCATAGCTG
1 CTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAA-CATAGCTG
* *
6585906 ATTTAGCTTTCACGTGCTTACGCTGAAGCAAGTCTAAGATGATTTGGCATCTCTGTATTGTCAGA
65 ATTTGGCTTTCACGTGCTTACGCTGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGA
*
6585971 GAACAAATCGAAGTTTGGCGTCTCCATATTCGACGGAGGGCAGACACATAGCAGATCTAACCTTC
130 GAACAAATCGAAGTTTGGCGTCTCCATATTCGACGGAGAGCAGACACATAGCAGATCTAACCTTC
6586036 AGATGATTAGA
195 AGATGATTAGA
* * *
6586047 CTGAAGCAGATCCAAGATGGTTTGGTATCCTTGTGCTTACAAGGAGCAAATCAAAGACATAGCTG
1 CTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAA-ACATAGCTG
* *
6586112 ATTTGGTTTTCGCGTGCTTACGCTGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGA
65 ATTTGGCTTTCACGTGCTTACGCTGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGA
6586177 GAACAAATCGAAG
130 GAACAAATCGAAG
6586190 AAGCAATTTG
Statistics
Matches: 325, Mismatches: 19, Indels: 8
0.92 0.05 0.02
Matches are distributed among these distances:
202 1 0.00
203 63 0.19
204 115 0.35
205 4 0.01
206 141 0.43
207 1 0.00
ACGTcount: A:0.30, C:0.18, G:0.23, T:0.28
Consensus pattern (205 bp):
CTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAACATAGCTGA
TTTGGCTTTCACGTGCTTACGCTGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGAG
AACAAATCGAAGTTTGGCGTCTCCATATTCGACGGAGAGCAGACACATAGCAGATCTAACCTTCA
GATGATTAGA
Found at i:6587924 original size:26 final size:26
Alignment explanation
Indices: 6587895--6587954 Score: 79
Period size: 26 Copynumber: 2.3 Consensus size: 26
6587885 GTATTATATT
6587895 TTATATTATTATTTACTT-ATA-TTTTA
1 TTATATTA-TA-TTACTTCATATTTTTA
6587921 TTATATTATATTACTTCATATTTTTA
1 TTATATTATATTACTTCATATTTTTA
*
6587947 TCATATTA
1 TTATATTA
6587955 ATATATATTT
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
24 6 0.19
25 5 0.16
26 20 0.65
ACGTcount: A:0.32, C:0.07, G:0.00, T:0.62
Consensus pattern (26 bp):
TTATATTATATTACTTCATATTTTTA
Found at i:6588033 original size:41 final size:42
Alignment explanation
Indices: 6587898--6588086 Score: 123
Period size: 42 Copynumber: 4.5 Consensus size: 42
6587888 TTATATTTTA
* * *
6587898 TATTATTATT-TACTTATATTTTATTATATTATATTACTTCATAT
1 TATTATTATTATA-TTATATTTTA--ACAATATATTATTTCATAT
* * *
6587942 TTTTATCATATTA-A-TATATATTTAAC-ATATATCATTAC-TCAT
1 TATTAT--TATTATATTATAT-TTTAACAATATATTATTTCAT-AT
*
6587984 TA-T-TTATTATATTATATTTTATCACATA-A-TATTT-ATAT
1 TATTATTATTATATTATATTTTAACA-ATATATTATTTCATAT
*
6588022 ATATT-TATATTATTTTATATTTTAACAATATATTATTTCATAT
1 -TATTAT-TATTATATTATATTTTAACAATATATTATTTCATAT
6588065 TATTATTATCTATA-TATATTTT
1 TATTATTAT-TATATTATATTTT
6588087 TTCATGTATA
Statistics
Matches: 114, Mismatches: 13, Indels: 38
0.69 0.08 0.23
Matches are distributed among these distances:
38 7 0.06
39 12 0.11
40 12 0.11
41 24 0.21
42 31 0.27
43 9 0.08
44 10 0.09
45 4 0.04
46 5 0.04
ACGTcount: A:0.35, C:0.07, G:0.00, T:0.58
Consensus pattern (42 bp):
TATTATTATTATATTATATTTTAACAATATATTATTTCATAT
Found at i:6588065 original size:39 final size:40
Alignment explanation
Indices: 6587927--6588073 Score: 99
Period size: 41 Copynumber: 3.6 Consensus size: 40
6587917 TTTATTATAT
* * * *
6587927 TATATTACTTCATATTTTTATCATATTAATATATATTTAACATA
1 TATATTATTTCATATTTATAT--TATT-TTATAT-TTTAACACA
* * *
6587971 TATCATTA-CTCAT-TATT-TATTATATTATATTTTATCACA
1 TAT-ATTATTTCATAT-TTATATTATTTTATATTTTAACACA
*
6588010 TAATATTTATAT-ATATTTATATTATTTTATATTTTAACA-A
1 T-ATA-TTATTTCATATTTATATTATTTTATATTTTAACACA
6588050 TATATTATTTCATA-TTATTATTAT
1 TATATTATTTCATATTTA-TATTAT
6588074 CTATATATAT
Statistics
Matches: 85, Mismatches: 9, Indels: 23
0.73 0.08 0.20
Matches are distributed among these distances:
38 8 0.09
39 21 0.25
40 16 0.19
41 23 0.27
43 4 0.05
44 9 0.11
45 4 0.05
ACGTcount: A:0.37, C:0.07, G:0.00, T:0.56
Consensus pattern (40 bp):
TATATTATTTCATATTTATATTATTTTATATTTTAACACA
Found at i:6588071 original size:16 final size:16
Alignment explanation
Indices: 6588052--6588116 Score: 57
Period size: 16 Copynumber: 4.2 Consensus size: 16
6588042 TTTAACAATA
6588052 TATTATTTCATATTAT
1 TATTATTTCATATTAT
*
6588068 TATTATCT-ATA-TA-
1 TATTATTTCATATTAT
* *
6588081 TATTTTTTCATGTATAT
1 TATTATTTCATAT-TAT
*
6588098 TATTA-TTCACATTAT
1 TATTATTTCATATTAT
6588113 TATT
1 TATT
6588117 TCATATTAAA
Statistics
Matches: 38, Mismatches: 7, Indels: 9
0.70 0.13 0.17
Matches are distributed among these distances:
13 6 0.16
14 4 0.11
15 10 0.26
16 14 0.37
17 4 0.11
ACGTcount: A:0.31, C:0.08, G:0.02, T:0.60
Consensus pattern (16 bp):
TATTATTTCATATTAT
Found at i:6588071 original size:29 final size:28
Alignment explanation
Indices: 6588049--6588124 Score: 91
Period size: 29 Copynumber: 2.6 Consensus size: 28
6588039 TATTTTAACA
*
6588049 ATATATTATTTCATATTATTATTATCTAT
1 ATATATTATTTCATATTATTATTAT-TAC
* *
6588078 ATATATTTTTTCATGTATATTATTATTCAC
1 ATATATTATTTCATAT-TATTATTATT-AC
6588108 AT-TATTATTTCATATTA
1 ATATATTATTTCATATTA
6588125 AATTGATATT
Statistics
Matches: 40, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
28 2 0.05
29 26 0.65
30 12 0.30
ACGTcount: A:0.33, C:0.08, G:0.01, T:0.58
Consensus pattern (28 bp):
ATATATTATTTCATATTATTATTATTAC
Found at i:6588271 original size:21 final size:22
Alignment explanation
Indices: 6588237--6588280 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
6588227 TATTTCAAAA
*
6588237 TTCATTATTAATT-ACTATGTT
1 TTCATTATTAATTAAATATGTT
6588258 TTCATGTATT-ATTAAATATGTT
1 TTCAT-TATTAATTAAATATGTT
6588280 T
1 T
6588281 ATTATCTTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
21 8 0.40
22 12 0.60
ACGTcount: A:0.30, C:0.07, G:0.07, T:0.57
Consensus pattern (22 bp):
TTCATTATTAATTAAATATGTT
Found at i:6591923 original size:20 final size:20
Alignment explanation
Indices: 6591898--6591942 Score: 90
Period size: 20 Copynumber: 2.2 Consensus size: 20
6591888 TTCGCGGGAG
6591898 TGTGCTCTCTGAAATGGAAA
1 TGTGCTCTCTGAAATGGAAA
6591918 TGTGCTCTCTGAAATGGAAA
1 TGTGCTCTCTGAAATGGAAA
6591938 TGTGC
1 TGTGC
6591943 GCACATGAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.27, C:0.16, G:0.27, T:0.31
Consensus pattern (20 bp):
TGTGCTCTCTGAAATGGAAA
Found at i:6592499 original size:23 final size:23
Alignment explanation
Indices: 6592473--6592517 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
6592463 TGGGTATGTG
*
6592473 ATGACGTTATCTT-ATAAATATGC
1 ATGAAGTTATCTTGA-AAATATGC
*
6592496 ATGAATTTATCTTGAAAATATG
1 ATGAAGTTATCTTGAAAATATG
6592518 TTGAATTGGT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 18 0.95
24 1 0.05
ACGTcount: A:0.38, C:0.09, G:0.13, T:0.40
Consensus pattern (23 bp):
ATGAAGTTATCTTGAAAATATGC
Found at i:6594753 original size:22 final size:23
Alignment explanation
Indices: 6594705--6594754 Score: 57
Period size: 22 Copynumber: 2.2 Consensus size: 23
6594695 TAAAGGTTAT
* *
6594705 GTTTTTTTTTTCAATGATAGTAG
1 GTTTTTTTTATCAATGATAGTAA
* *
6594728 GTTTTTTTTAT-AATTATATTAA
1 GTTTTTTTTATCAATGATAGTAA
6594750 GTTTT
1 GTTTT
6594755 GATTAAATTT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
22 13 0.57
23 10 0.43
ACGTcount: A:0.24, C:0.02, G:0.12, T:0.62
Consensus pattern (23 bp):
GTTTTTTTTATCAATGATAGTAA
Found at i:6610633 original size:20 final size:20
Alignment explanation
Indices: 6610610--6610657 Score: 53
Period size: 20 Copynumber: 2.4 Consensus size: 20
6610600 TAAATATAGA
6610610 TTTTAAATTATAATTATT-TT
1 TTTTAAATT-TAATTATTATT
* * *
6610630 TTTTACATTTTATTCTTATT
1 TTTTAAATTTAATTATTATT
6610650 TTTTAAAT
1 TTTTAAAT
6610658 ATTTCACATT
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
19 6 0.26
20 17 0.74
ACGTcount: A:0.29, C:0.04, G:0.00, T:0.67
Consensus pattern (20 bp):
TTTTAAATTTAATTATTATT
Found at i:6610738 original size:20 final size:20
Alignment explanation
Indices: 6610710--6610748 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
6610700 TTTGTATATG
*
6610710 ATAATATAATATT-AAAATAA
1 ATAAAATAA-ATTGAAAATAA
6610730 ATAAAATAAATTGAAAATA
1 ATAAAATAAATTGAAAATA
6610749 TTTTCTAACT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 3 0.18
20 14 0.82
ACGTcount: A:0.67, C:0.00, G:0.03, T:0.31
Consensus pattern (20 bp):
ATAAAATAAATTGAAAATAA
Found at i:6613186 original size:27 final size:27
Alignment explanation
Indices: 6613146--6613207 Score: 81
Period size: 27 Copynumber: 2.3 Consensus size: 27
6613136 TTAATCTTAT
* **
6613146 TCAACC-GATTTGTATCGCCTCACGGA
1 TCAACCAGTTTTGTATCGCCTCACAAA
*
6613172 TCAACCAGTTTTGTATCGGCTCACAAA
1 TCAACCAGTTTTGTATCGCCTCACAAA
6613199 TCAACCAGT
1 TCAACCAGT
6613208 CTAATGCCTC
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
26 6 0.19
27 25 0.81
ACGTcount: A:0.27, C:0.29, G:0.16, T:0.27
Consensus pattern (27 bp):
TCAACCAGTTTTGTATCGCCTCACAAA
Found at i:6614320 original size:29 final size:31
Alignment explanation
Indices: 6614262--6614321 Score: 72
Period size: 29 Copynumber: 2.0 Consensus size: 31
6614252 TACGTTACCT
* *
6614262 TATTTATTGAAATAAAAAAAATGAATGAAAA
1 TATTTATTGAAATAAAAAAAATAAAAGAAAA
6614293 TATTT-TT-AAAT-AAAAAAATAAAAAGAAAA
1 TATTTATTGAAATAAAAAAAAT-AAAAGAAAA
6614322 CTAATATCGA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
28 8 0.31
29 11 0.42
30 2 0.08
31 5 0.19
ACGTcount: A:0.65, C:0.00, G:0.07, T:0.28
Consensus pattern (31 bp):
TATTTATTGAAATAAAAAAAATAAAAGAAAA
Found at i:6614742 original size:27 final size:25
Alignment explanation
Indices: 6614616--6614813 Score: 114
Period size: 27 Copynumber: 8.1 Consensus size: 25
6614606 CGATATATAA
6614616 ATATACAT-ATAT-GTATT-AAAAT
1 ATATACATAATATAGTATTAAAAAT
** *
6614638 ATATACATAATAATAAAAGTAAAAAGT
1 ATATACATAAT-ATAGTATTAAAAA-T
*
6614665 GTATAC-----ATAGTATTAAAAAT
1 ATATACATAATATAGTATTAAAAAT
* * **
6614685 ATGTACATAATATGGCGTTAAAAAT
1 ATATACATAATATAGTATTAAAAAT
*
6614710 ACATACATAATATAGTTATTAAAAAAT
1 ATATACATAATATAG-TATT-AAAAAT
* *
6614737 ATATACATAAAATAATATGTAAAAA-
1 ATATACATAATATAGTAT-TAAAAAT
* *
6614762 A-AT--GTAATATAGTATTAGAAAT
1 ATATACATAATATAGTATTAAAAAT
* *
6614784 ATACACAATATATATGGTATTAAAAAT
1 ATATAC-ATA-ATATAGTATTAAAAAT
6614811 ATA
1 ATA
6614814 GTATTAAATA
Statistics
Matches: 129, Mismatches: 28, Indels: 33
0.68 0.15 0.17
Matches are distributed among these distances:
20 5 0.04
21 15 0.12
22 18 0.14
23 3 0.02
24 4 0.03
25 26 0.20
26 16 0.12
27 42 0.33
ACGTcount: A:0.54, C:0.05, G:0.08, T:0.33
Consensus pattern (25 bp):
ATATACATAATATAGTATTAAAAAT
Found at i:6615353 original size:6 final size:6
Alignment explanation
Indices: 6615342--6615431 Score: 50
Period size: 6 Copynumber: 15.5 Consensus size: 6
6615332 GTTAAGTAAA
** *
6615342 AATAAT AATAAT GCTAAT AAATAAT AA-ATAT AATAAT AATAGT AATAA-
1 AATAAT AATAAT AATAAT -AATAAT AATA-AT AATAAT AATAAT AATAAT
* *
6615390 AAT-AT AATAGT -ATACAT AATATT AA-AATT AA-AAT AA-AAT AAT
1 AATAAT AATAAT AATA-AT AATAAT AATAA-T AATAAT AATAAT AAT
6615432 GAGAAAAAGT
Statistics
Matches: 65, Mismatches: 10, Indels: 18
0.70 0.11 0.19
Matches are distributed among these distances:
4 1 0.02
5 19 0.29
6 37 0.57
7 8 0.12
ACGTcount: A:0.62, C:0.02, G:0.03, T:0.32
Consensus pattern (6 bp):
AATAAT
Found at i:6615374 original size:22 final size:22
Alignment explanation
Indices: 6615311--6615397 Score: 56
Period size: 22 Copynumber: 4.0 Consensus size: 22
6615301 ATAATACTAT
* *
6615311 ATAATACAT-ATACATATAAGTG
1 ATAATAAATAATAAATATAA-TG
*
6615333 TTAAGTAAA-AAT-AATAATAATG
1 ATAA-TAAATAATAAAT-ATAATG
* *
6615355 CTAATAAATAATAAATATAATA
1 ATAATAAATAATAAATATAATG
*
6615377 ATAAT-AGTAATAAAATATAAT
1 ATAATAAATAAT-AAATATAAT
6615398 AGTATACATA
Statistics
Matches: 52, Mismatches: 7, Indels: 12
0.73 0.10 0.17
Matches are distributed among these distances:
21 9 0.17
22 31 0.60
23 12 0.23
ACGTcount: A:0.59, C:0.03, G:0.06, T:0.32
Consensus pattern (22 bp):
ATAATAAATAATAAATATAATG
Found at i:6615409 original size:22 final size:22
Alignment explanation
Indices: 6615356--6615431 Score: 70
Period size: 22 Copynumber: 3.5 Consensus size: 22
6615346 ATAATAATGC
6615356 TAATAAATAAT-AAATATAATAA
1 TAAT-AATAATAAAATATAATAA
*
6615378 TAATAGTAATAAAATATAATAGTA
1 TAATAATAATAAAATATAATA--A
*
6615402 TACATAATATTAAAAT-TAA-AA
1 TA-ATAATAATAAAATATAATAA
6615423 TAA-AATAAT
1 TAATAATAAT
6615432 GAGAAAAAGT
Statistics
Matches: 46, Mismatches: 4, Indels: 11
0.75 0.07 0.18
Matches are distributed among these distances:
19 5 0.11
20 1 0.02
21 8 0.17
22 14 0.30
23 1 0.02
24 6 0.13
25 11 0.24
ACGTcount: A:0.63, C:0.01, G:0.03, T:0.33
Consensus pattern (22 bp):
TAATAATAATAAAATATAATAA
Found at i:6622482 original size:40 final size:40
Alignment explanation
Indices: 6622425--6622594 Score: 227
Period size: 40 Copynumber: 4.2 Consensus size: 40
6622415 CTAACGGGGT
* * * *
6622425 TAAGTCCCGAAGACATTTGTGCTAGTGATTAATTTCGGGC
1 TAAGTCCCGAAGGCATTTGTGCGAGTGACTAATTCCGGGC
*
6622465 TAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCCGGGC
1 TAAGTCCCGAAGGCATTTGTGCGAGTGACTAATTCCGGGC
*
6622505 TAAGTCCCGAAGGCATTTGTGCGAGTTACT-ATATCCGGGC
1 TAAGTCCCGAAGGCATTTGTGCGAGTGACTAAT-TCCGGGC
* *
6622545 TAAGTCCCGAAGGCATTTGTGCTAGTGAC-CATATCCGGGC
1 TAAGTCCCGAAGGCATTTGTGCGAGTGACTAAT-TCCGGGC
*
6622585 TAAGACCCGA
1 TAAGTCCCGA
6622595 TGGCCTTGCG
Statistics
Matches: 120, Mismatches: 8, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
39 2 0.02
40 118 0.98
ACGTcount: A:0.24, C:0.22, G:0.26, T:0.27
Consensus pattern (40 bp):
TAAGTCCCGAAGGCATTTGTGCGAGTGACTAATTCCGGGC
Found at i:6632674 original size:58 final size:58
Alignment explanation
Indices: 6632497--6632676 Score: 247
Period size: 58 Copynumber: 3.1 Consensus size: 58
6632487 TCATTGTCAT
* * * ** * * *
6632497 TTTTTATTTTTATTTTGGAGAAAACCA-CACTTGTTTCAAAATGATTC-CATTTCTCCA
1 TTTTCATTTTCATTTTGGAGAAAACCATAAC-CATTTCCAAATGTTTCTCACTTCTCCA
* *
6632554 TTTTTATTTTCATTTTAGAGAAAACCATAACCATTTCCAAATGTTTCTCACTTCTCCA
1 TTTTCATTTTCATTTTGGAGAAAACCATAACCATTTCCAAATGTTTCTCACTTCTCCA
6632612 TTTTCATTTTCATTTTGGAGAAAACCATAACCATTTCCAAATGTTTCTCACTTCTCCA
1 TTTTCATTTTCATTTTGGAGAAAACCATAACCATTTCCAAATGTTTCTCACTTCTCCA
6632670 TTTTCAT
1 TTTTCAT
6632677 CATTTCTGTT
Statistics
Matches: 111, Mismatches: 10, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
57 37 0.33
58 74 0.67
ACGTcount: A:0.28, C:0.21, G:0.07, T:0.44
Consensus pattern (58 bp):
TTTTCATTTTCATTTTGGAGAAAACCATAACCATTTCCAAATGTTTCTCACTTCTCCA
Found at i:6633431 original size:20 final size:20
Alignment explanation
Indices: 6633415--6633452 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
6633405 TATCAATGTC
6633415 TCTACTGTCAGTCCAATCGA
1 TCTACTGTCAGTCCAATCGA
*
6633435 TGTACTGTCAGTCCAATC
1 TCTACTGTCAGTCCAATC
6633453 AGTCATATCA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.24, C:0.29, G:0.16, T:0.32
Consensus pattern (20 bp):
TCTACTGTCAGTCCAATCGA
Found at i:6636187 original size:5 final size:5
Alignment explanation
Indices: 6636168--6636282 Score: 66
Period size: 5 Copynumber: 23.6 Consensus size: 5
6636158 TAATGTAAAT
* *
6636168 TATAA TATAA -A-AA TATAA TATAA TGT-A TATAA TATAA TATAA -AAAA
1 TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA
* * * *
6636214 TATCA TGAT-A TATAG TAAAA TATAA TATGTAA TA-AA TAT-A TACAAA
1 TATAA T-ATAA TATAA TATAA TATAA TA--TAA TATAA TATAA TA-TAA
*
6636260 TAGAA TATAA TGA-AA TATAA TAT
1 TATAA TATAA T-ATAA TATAA TAT
6636283 GATAAGGGAT
Statistics
Matches: 85, Mismatches: 12, Indels: 26
0.69 0.10 0.21
Matches are distributed among these distances:
3 2 0.02
4 18 0.21
5 54 0.64
6 6 0.07
7 5 0.06
ACGTcount: A:0.58, C:0.02, G:0.05, T:0.35
Consensus pattern (5 bp):
TATAA
Found at i:6636209 original size:32 final size:30
Alignment explanation
Indices: 6636144--6636241 Score: 117
Period size: 30 Copynumber: 3.1 Consensus size: 30
6636134 TAATTTACAA
*
6636144 ATAAAAATATATGATAATGTAAATTATAAT
1 ATAAAAATATATGATAATGTAAAATATAAT
6636174 ATAAAAATATAAT-ATAATGTATATAATATAAT
1 ATAAAAATAT-ATGATAATGTA-A-AATATAAT
6636206 ATAAAAAATATCATGATATATAGTAAAATATAAT
1 AT-AAAAATAT-ATGATA-AT-GTAAAATATAAT
6636240 AT
1 AT
6636242 GTAATAAATA
Statistics
Matches: 59, Mismatches: 2, Indels: 10
0.83 0.03 0.14
Matches are distributed among these distances:
30 18 0.31
31 3 0.05
32 9 0.15
33 10 0.17
34 13 0.22
35 3 0.05
36 3 0.05
ACGTcount: A:0.58, C:0.01, G:0.05, T:0.36
Consensus pattern (30 bp):
ATAAAAATATATGATAATGTAAAATATAAT
Found at i:6636216 original size:19 final size:19
Alignment explanation
Indices: 6636179--6636241 Score: 56
Period size: 19 Copynumber: 3.3 Consensus size: 19
6636169 ATAATATAAA
***
6636179 AATATAATATAATGTATAT
1 AATATAATATAAAAAATAT
6636198 AATATAATATAAAAAATAT
1 AATATAATATAAAAAATAT
* *
6636217 CATGAT-ATATAGTAAAATAT
1 AAT-ATAATATA-AAAAATAT
6636237 AATAT
1 AATAT
6636242 GTAATAAATA
Statistics
Matches: 36, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
19 25 0.69
20 11 0.31
ACGTcount: A:0.57, C:0.02, G:0.05, T:0.37
Consensus pattern (19 bp):
AATATAATATAAAAAATAT
Found at i:6638184 original size:43 final size:44
Alignment explanation
Indices: 6638071--6638198 Score: 177
Period size: 44 Copynumber: 2.9 Consensus size: 44
6638061 GCCATGTTGA
* * *
6638071 TATCTTTGATTTGCTCCCTGACAATACAAGGATGTCAAATCTGC
1 TATCTTCGATTTGCTCCCTGACAATACAAAGATGCCAAATCTGC
* * * *
6638115 TATCTTCGATCTGCTCTCTGATAATACAAAGATGCCAAATTTGC
1 TATCTTCGATTTGCTCCCTGACAATACAAAGATGCCAAATCTGC
*
6638159 T-TCTTCGATTTGTTCCCTGACAATACAAAGATGCCAAATC
1 TATCTTCGATTTGCTCCCTGACAATACAAAGATGCCAAATC
6638199 ATCTTAGATT
Statistics
Matches: 72, Mismatches: 12, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
43 34 0.47
44 38 0.53
ACGTcount: A:0.29, C:0.23, G:0.14, T:0.34
Consensus pattern (44 bp):
TATCTTCGATTTGCTCCCTGACAATACAAAGATGCCAAATCTGC
Found at i:6638328 original size:87 final size:88
Alignment explanation
Indices: 6638160--6638510 Score: 251
Period size: 87 Copynumber: 4.0 Consensus size: 88
6638150 CAAATTTGCT
* * * * * * * ***
6638160 TCTTCGATTTGTTCCCTG-ACAATACAAAGATGCCAAATCATCTTAGATTTGCTTCAACGTAAAC
1 TCTTCAATTTGTTCCTTGTACAACACAAGGACGCCAAATCATCTTGGATCTGCTTCAGTATAAAC
* *
6638224 A-CGTGAAAGCCAAATCTGCTATG
66 ATC-TGAAAGTCAGATCTGCTATG
*
6638247 TCTTCAATTTGTTCCTTGTAC-ACACAAGGATGCCAAATCATCTTGGATCTGCTTCAGTATAAAC
1 TCTTCAATTTGTTCCTTGTACAACACAAGGACGCCAAATCATCTTGGATCTGCTTCAGTATAAAC
* * *
6638311 AGCTGAAGGTTAGATCTGCTATG
66 ATCTGAAAGTCAGATCTGCTATG
* * * ** * * *
6638334 T-GTC--TGCT-TTCC--GT-CGAATA-TGGAGACGCCAGATTTGTTATCTTGGATCTGCTTTGA
1 TCTTCAAT-TTGTTCCTTGTAC-AACACAAG-GACGCCA-A---ATCATCTTGGATCTGC-TTCA
6638391 TGTGA-AAACATCTGAAAGTCAGATCTGCTATG
58 -GT-ATAAACATCTGAAAGTCAGATCTGCTATG
* * *
6638423 TCTTCAATTTGCTCCTTGTA-AACACAAGAACGCCAAATCATCTTGGATCTGCTTCAGTAAAAAC
1 TCTTCAATTTGTTCCTTGTACAACACAAGGACGCCAAATCATCTTGGATCTGCTTCAGTATAAAC
* *
6638487 ATCTGAAGGTTAGATCTGCTATG
66 ATCTGAAAGTCAGATCTGCTATG
6638510 T
1 T
6638511 ATTTGCTCTC
Statistics
Matches: 205, Mismatches: 37, Indels: 44
0.72 0.13 0.15
Matches are distributed among these distances:
81 1 0.00
82 3 0.01
83 8 0.04
84 6 0.03
85 1 0.00
86 3 0.01
87 112 0.55
88 9 0.04
89 41 0.20
90 3 0.01
91 1 0.00
92 5 0.02
93 9 0.04
94 3 0.01
ACGTcount: A:0.28, C:0.21, G:0.18, T:0.32
Consensus pattern (88 bp):
TCTTCAATTTGTTCCTTGTACAACACAAGGACGCCAAATCATCTTGGATCTGCTTCAGTATAAAC
ATCTGAAAGTCAGATCTGCTATG
Found at i:6638617 original size:177 final size:176
Alignment explanation
Indices: 6638227--6638789 Score: 874
Period size: 176 Copynumber: 3.2 Consensus size: 176
6638217 CGTAAACACG
* * * * *
6638227 TGAAAGCCAAATCTGCTATGTCTTCAATTTGTTCCTTGTACACACAAGGATGCCAAATCATCTTG
1 TGAAAGTCAGATCTGCTATGTCTTCAATTTGCTCCTTGTAAACACAAGAATGCCAAATCATCTTG
* * *
6638292 GATCTGCTTCAGTATAAACAGCTGAAGGTTAGATCTGCTATGTGTCTGCTTTCCGTCGAATATGG
66 GATCTGCTTCAGTAAAAACATCTGAAGGTTAGATCTGCTATGTGTCTGCTCTCCGTCGAATATGG
*
6638357 AGACGCCAGATTTGTTATCTTGGATCTGCTTTGATGTGAAAACATC
131 AGACGCCAGATCTGTTATCTTGGATCTGCTTTGATGTGAAAACATC
*
6638403 TGAAAGTCAGATCTGCTATGTCTTCAATTTGCTCCTTGTAAACACAAGAACGCCAAATCATCTTG
1 TGAAAGTCAGATCTGCTATGTCTTCAATTTGCTCCTTGTAAACACAAGAATGCCAAATCATCTTG
* * * *
6638468 GATCTGCTTCAGTAAAAACATCTGAAGGTTAGATCTGCTATGTATTTGCTCTCCATTTGAATATG
66 GATCTGCTTCAGTAAAAACATCTGAAGGTTAGATCTGCTATGTGTCTGCTCTCC-GTCGAATATG
* * *
6638533 GAGATGCCAGATCTATTATCTTGGATCTGCTTTGATGTGAGAACATC
130 GAGACGCCAGATCTGTTATCTTGGATCTGCTTTGATGTGAAAACATC
* * * * *
6638580 CGAAAGTCAGATCTTCTATGTTTTCAATTTACTCCTTGTAGACACAAGAATGCCAAATCATCTTG
1 TGAAAGTCAGATCTGCTATGTCTTCAATTTGCTCCTTGTAAACACAAGAATGCCAAATCATCTTG
* * *
6638645 GATCTACTTTAGAAAAAACATCTGAAGGTTAGATCTGCTATGTGTCTGCTCTCCGTCGAATATGG
66 GATCTGCTTCAGTAAAAACATCTGAAGGTTAGATCTGCTATGTGTCTGCTCTCCGTCGAATATGG
*
6638710 AGACGCCAGATCTGTTATCTTGGATCTTCTTTGATGTGAAAACATC
131 AGACGCCAGATCTGTTATCTTGGATCTGCTTTGATGTGAAAACATC
*
6638756 TGAAAGTCAGATCTGCTATGTCTTCGATTTGCTC
1 TGAAAGTCAGATCTGCTATGTCTTCAATTTGCTC
6638790 TCCGTCGAAG
Statistics
Matches: 347, Mismatches: 39, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
176 188 0.54
177 159 0.46
ACGTcount: A:0.27, C:0.20, G:0.19, T:0.34
Consensus pattern (176 bp):
TGAAAGTCAGATCTGCTATGTCTTCAATTTGCTCCTTGTAAACACAAGAATGCCAAATCATCTTG
GATCTGCTTCAGTAAAAACATCTGAAGGTTAGATCTGCTATGTGTCTGCTCTCCGTCGAATATGG
AGACGCCAGATCTGTTATCTTGGATCTGCTTTGATGTGAAAACATC
Found at i:6638814 original size:177 final size:175
Alignment explanation
Indices: 6638227--6638868 Score: 808
Period size: 176 Copynumber: 3.6 Consensus size: 175
6638217 CGTAAACACG
* * * * *
6638227 TGAAAGCCAAATCTGCTATGTCTTCAATTTGTTCCTTGTACACACAAG-GATGCCAAATCATCTT
1 TGAAAGTCAGATCTGCTATGTCTTCAATTTGCTCCTTGT-GA-ACAAGAGAAGCCAAATCATCTT
* * *
6638291 GGATCTGCTTCAGTATAAACAGCTGAAGGTTAGATCTGCTATGTGTCTGCTTTCCGTCGAATATG
64 GGATCTGCTTCAGTAAAAACATCTGAAGGTTAGATCTGCTATGTGTCTGCTCTCCGTCGAATATG
*
6638356 GAGACGCCAGATTTGTTATCTTGGATCTGCTTTGATGTGAAAACATC
129 GAGACGCCAGATCTGTTATCTTGGATCTGCTTTGATGTGAAAACATC
*
6638403 TGAAAGTCAGATCTGCTATGTCTTCAATTTGCTCCTTGTAAACACA-AGAACGCCAAATCATCTT
1 TGAAAGTCAGATCTGCTATGTCTTCAATTTGCTCCTTGTGAACA-AGAGAA-GCCAAATCATCTT
* * * *
6638467 GGATCTGCTTCAGTAAAAACATCTGAAGGTTAGATCTGCTATGTATTTGCTCTCCATTTGAATAT
64 GGATCTGCTTCAGTAAAAACATCTGAAGGTTAGATCTGCTATGTGTCTGCTCTCC-GTCGAATAT
* * *
6638532 GGAGATGCCAGATCTATTATCTTGGATCTGCTTTGATGTGAGAACATC
128 GGAGACGCCAGATCTGTTATCTTGGATCTGCTTTGATGTGAAAACATC
* * * * *
6638580 CGAAAGTCAGATCTTCTATGTTTTCAATTTACTCCTTGTAGACACAAGA-ATGCCAAATCATCTT
1 TGAAAGTCAGATCTGCTATGTCTTCAATTTGCTCCTTGT-GA-ACAAGAGAAGCCAAATCATCTT
* * *
6638644 GGATCTACTTTAGAAAAAACATCTGAAGGTTAGATCTGCTATGTGTCTGCTCTCCGTCGAATATG
64 GGATCTGCTTCAGTAAAAACATCTGAAGGTTAGATCTGCTATGTGTCTGCTCTCCGTCGAATATG
*
6638709 GAGACGCCAGATCTGTTATCTTGGATCTTCTTTGATGTGAAAACATC
129 GAGACGCCAGATCTGTTATCTTGGATCTGCTTTGATGTGAAAACATC
* * *
6638756 TGAAAGTCAGATCTGCTATGTCTTCGATTTGCT-CTCCGTCGAAGATAGAGAAGCCAAATCTTGT
1 TGAAAGTCAGATCTGCTATGTCTTCAATTTGCTCCT-TGT-GAACA-AGAGAAGCCAAATC----
** **
6638820 TATCTTGGATCTGCTTCAGTGTAAACA-CATGAAGGCCAGATCTGCTATG
59 -ATCTTGGATCTGCTTCAGTAAAAACATC-TGAAGGTTAGATCTGCTATG
6638869 CTTTGGTCTG
Statistics
Matches: 401, Mismatches: 49, Indels: 26
0.84 0.10 0.05
Matches are distributed among these distances:
174 3 0.01
175 8 0.02
176 185 0.46
177 158 0.39
178 3 0.01
179 4 0.01
181 1 0.00
182 39 0.10
ACGTcount: A:0.27, C:0.20, G:0.20, T:0.33
Consensus pattern (175 bp):
TGAAAGTCAGATCTGCTATGTCTTCAATTTGCTCCTTGTGAACAAGAGAAGCCAAATCATCTTGG
ATCTGCTTCAGTAAAAACATCTGAAGGTTAGATCTGCTATGTGTCTGCTCTCCGTCGAATATGGA
GACGCCAGATCTGTTATCTTGGATCTGCTTTGATGTGAAAACATC
Found at i:6638865 original size:93 final size:94
Alignment explanation
Indices: 6638338--6638868 Score: 314
Period size: 87 Copynumber: 5.9 Consensus size: 94
6638328 GCTATGTGTC
* * * * * * *
6638338 TGCTTTCCGTCGAATATGGAGACGCCAGATTTGTTATCTTGGATCTGCTTTGATGTGAAAACATC
1 TGCTCTCCGTCGAAGATAGAGAAGCCAAATCTGTTATCTTGGATCTGCTTTCATGTGAAAACATC
* *
6638403 TGAAAGTCAGATCTGCTATGTCTTCAATT
66 TGAAAGCCAGATCTGCTATGTCTTCGATT
* * * * *
6638432 TGCTC-CTTGT-AAACACA-AGAACGCCAAATC----ATCTTGGATCTGC-TTCA-GTAAAAACA
1 TGCTCTC-CGTCGAAGATAGAGAA-GCCAAATCTGTTATCTTGGATCTGCTTTCATGTGAAAACA
* **
6638488 TCTGAAGGTTAGATCTGCTATG---T--ATT
64 TCTGAAAGCCAGATCTGCTATGTCTTCGATT
* * * * * * * * *
6638514 TGCTCTCCATTTGAATATGGAGATGCCAGATCTATTATCTTGGATCTGCTTTGATGTGAGAACAT
1 TGCTCTCC-GTCGAAGATAGAGAAGCCAAATCTGTTATCTTGGATCTGCTTTCATGTGAAAACAT
* * * * *
6638579 CCGAAAGTCAGATCTTCTATGTTTTCAATT
65 CTGAAAGCCAGATCTGCTATGTCTTCGATT
* * * * * * **
6638609 TACTC-CTTGTAGACACA-AGA-ATGCCAAATC----ATCTTGGATCTACTTT-A-GAAAAAACA
1 TGCTCTC-CGTCGA-AGATAGAGAAGCCAAATCTGTTATCTTGGATCTGCTTTCATGTGAAAACA
* ** *
6638665 TCTGAAGGTTAGATCTGCTATG---T-G-TC
64 TCTGAAAGCCAGATCTGCTATGTCTTCGATT
* * * * * *
6638691 TGCTCTCCGTCGAATATGGAGACGCCAGATCTGTTATCTTGGATCTTCTTTGATGTGAAAACATC
1 TGCTCTCCGTCGAAGATAGAGAAGCCAAATCTGTTATCTTGGATCTGCTTTCATGTGAAAACATC
*
6638756 TGAAAGTCAGATCTGCTATGTCTTCGATT
66 TGAAAGCCAGATCTGCTATGTCTTCGATT
*
6638785 TGCTCTCCGTCGAAGATAGAGAAGCCAAATCTTGTTATCTTGGATCTGC-TTCA-GTGTAAACA-
1 TGCTCTCCGTCGAAGATAGAGAAGCCAAATC-TGTTATCTTGGATCTGCTTTCATGTGAAAACAT
*
6638847 CATGAAGGCCAGATCTGCTATG
65 C-TGAAAGCCAGATCTGCTATG
6638869 CTTTGGTCTG
Statistics
Matches: 335, Mismatches: 67, Indels: 71
0.71 0.14 0.15
Matches are distributed among these distances:
81 2 0.01
82 19 0.06
83 11 0.03
84 12 0.04
85 3 0.01
87 67 0.20
88 18 0.05
89 58 0.17
90 25 0.07
92 5 0.01
93 47 0.14
94 43 0.13
95 25 0.07
ACGTcount: A:0.27, C:0.20, G:0.20, T:0.33
Consensus pattern (94 bp):
TGCTCTCCGTCGAAGATAGAGAAGCCAAATCTGTTATCTTGGATCTGCTTTCATGTGAAAACATC
TGAAAGCCAGATCTGCTATGTCTTCGATT
Found at i:6650409 original size:17 final size:17
Alignment explanation
Indices: 6650378--6650434 Score: 57
Period size: 17 Copynumber: 3.5 Consensus size: 17
6650368 TAATAAATTT
*
6650378 AAAATATAATATATAATA
1 AAAATAT-ATTTATAATA
*
6650396 AAAATATATTTATAAGA
1 AAAATATATTTATAATA
*
6650413 ATAATA-A-TTAT-ATA
1 AAAATATATTTATAATA
6650427 AAAATATA
1 AAAATATA
6650435 AAATATAATG
Statistics
Matches: 33, Mismatches: 5, Indels: 5
0.77 0.12 0.12
Matches are distributed among these distances:
14 7 0.21
15 5 0.15
16 1 0.03
17 13 0.39
18 7 0.21
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (17 bp):
AAAATATATTTATAATA
Found at i:6650922 original size:22 final size:21
Alignment explanation
Indices: 6650887--6651005 Score: 68
Period size: 19 Copynumber: 5.7 Consensus size: 21
6650877 AAAAGGTATC
* *
6650887 TACAAATTAAATCTCTAAGAT
1 TACAAATCATATCTCTAAGAT
6650908 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATC-TCTAAGAT
* *
6650931 TGCATATCATA--TCTAAGAT
1 TACAAATCATATCTCTAAGAT
* * *
6650950 TGCAAATTGTATCATATCTAAGAT
1 TACAAA-T-CAT-ATCTCTAAGAT
* *
6650974 TGCATATCATA--TCTAAGAT
1 TACAAATCATATCTCTAAGAT
*
6650993 TGC-AATCATATCT
1 TACAAATCATATCT
6651006 AAGATTGTAT
Statistics
Matches: 80, Mismatches: 9, Indels: 19
0.74 0.08 0.18
Matches are distributed among these distances:
18 6 0.08
19 24 0.30
20 2 0.03
21 6 0.08
22 18 0.22
23 11 0.14
24 13 0.16
ACGTcount: A:0.39, C:0.16, G:0.08, T:0.36
Consensus pattern (21 bp):
TACAAATCATATCTCTAAGAT
Found at i:6650930 original size:23 final size:22
Alignment explanation
Indices: 6650887--6650987 Score: 66
Period size: 24 Copynumber: 4.6 Consensus size: 22
6650877 AAAAGGTATC
* *
6650887 TACAAATTAAATC-TCTAAGAT
1 TACAAATCATATCTTCTAAGAT
6650908 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATCTTCTAAGAT
* *
6650931 TGCATATCATA---TCTAAGAT
1 TACAAATCATATCTTCTAAGAT
* **
6650950 TGCAAATTGTATCATATCTAAGAT
1 TACAAATCATATC-T-TCTAAGAT
* *
6650974 TGCATATCATATCT
1 TACAAATCATATCT
6650988 AAGATTGCAA
Statistics
Matches: 63, Mismatches: 10, Indels: 12
0.74 0.12 0.14
Matches are distributed among these distances:
19 16 0.25
21 3 0.05
22 15 0.24
23 11 0.17
24 18 0.29
ACGTcount: A:0.40, C:0.16, G:0.08, T:0.37
Consensus pattern (22 bp):
TACAAATCATATCTTCTAAGAT
Found at i:6650966 original size:24 final size:21
Alignment explanation
Indices: 6650900--6651031 Score: 117
Period size: 19 Copynumber: 6.6 Consensus size: 21
6650890 AAATTAAATC
*
6650900 TCTAAGATTACAAA-ATCATA
1 TCTAAGATTGCAAATATCATA
6650920 TCTTCTAAGATTGC--ATATCATA
1 ---TCTAAGATTGCAAATATCATA
6650942 TCTAAGATTGCAAATTGTATCATA
1 TCTAAGATTGCAAA---TATCATA
6650966 TCTAAGATTGC--ATATCATA
1 TCTAAGATTGCAAATATCATA
6650985 TCTAAGATTGC--A-ATCATA
1 TCTAAGATTGCAAATATCATA
6651003 TCTAAGATTG----TATCATA
1 TCTAAGATTGCAAATATCATA
6651020 TCTAAGATTGCA
1 TCTAAGATTGCA
6651032 TATCATTGAA
Statistics
Matches: 99, Mismatches: 1, Indels: 22
0.81 0.01 0.18
Matches are distributed among these distances:
17 16 0.16
18 16 0.16
19 30 0.30
21 2 0.02
22 7 0.07
23 10 0.10
24 18 0.18
ACGTcount: A:0.38, C:0.15, G:0.11, T:0.36
Consensus pattern (21 bp):
TCTAAGATTGCAAATATCATA
Found at i:6650974 original size:43 final size:38
Alignment explanation
Indices: 6650900--6651037 Score: 156
Period size: 43 Copynumber: 3.5 Consensus size: 38
6650890 AAATTAAATC
*
6650900 TCTAAGATTACAAAATCATATCTTCTAAGATTGCATATCATA
1 TCTAAGATTGC-AAATCATA---TCTAAGATTGCATATCATA
6650942 TCTAAGATTGCAAATTGTATCATATCTAAGATTGCATATCATA
1 TCTAAGATTGC-AA----ATCATATCTAAGATTGCATATCATA
6650985 TCTAAGATTGC-AATCATATCTAAGATTG--TATCATA
1 TCTAAGATTGCAAATCATATCTAAGATTGCATATCATA
*
6651020 TCTAAGATTGCATATCAT
1 TCTAAGATTGCAAATCAT
6651038 TGAAGATTAT
Statistics
Matches: 89, Mismatches: 2, Indels: 16
0.83 0.02 0.15
Matches are distributed among these distances:
35 18 0.20
36 5 0.06
37 16 0.18
41 1 0.01
42 13 0.15
43 30 0.34
46 6 0.07
ACGTcount: A:0.38, C:0.15, G:0.10, T:0.37
Consensus pattern (38 bp):
TCTAAGATTGCAAATCATATCTAAGATTGCATATCATA
Found at i:6651045 original size:17 final size:19
Alignment explanation
Indices: 6650923--6651037 Score: 164
Period size: 19 Copynumber: 5.9 Consensus size: 19
6650913 AATCATATCT
6650923 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
6650942 TCTAAGATTGCAAATTGTATCATA
1 TCTAAGATTGC--A---TATCATA
6650966 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
6650985 TCTAAGATTGCA-ATCATA
1 TCTAAGATTGCATATCATA
6651003 TCTAAGATTG--TATCATA
1 TCTAAGATTGCATATCATA
6651020 TCTAAGATTGCATATCAT
1 TCTAAGATTGCATATCAT
6651038 TGAAGATTAT
Statistics
Matches: 88, Mismatches: 0, Indels: 16
0.85 0.00 0.15
Matches are distributed among these distances:
17 16 0.18
18 16 0.18
19 36 0.41
21 1 0.01
22 1 0.01
24 18 0.20
ACGTcount: A:0.37, C:0.15, G:0.11, T:0.37
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:6651570 original size:87 final size:87
Alignment explanation
Indices: 6651430--6651594 Score: 208
Period size: 87 Copynumber: 1.9 Consensus size: 87
6651420 ACAATAAAGA
* * *
6651430 GATGCCAAATCATCTTAGATTTGCTTCAGTGTAAACACGTGAAAGCCAAATCTGCTGTGTCTTCA
1 GATGCCAAATCATCTTAGATCTGCTTCAGTGAAAACACGTGAAAGCCAAATCTGCTATGTCTTCA
*
6651495 ATTTGCTCCTTGTGTACACAAG
66 ATCTGCTCCTTGTGTACACAAG
* * * *
6651517 GATGCCAAATCATCTTGGATCTGCTTCAGT-AAAATCATC-TGAAGGTCAGATCTGCTATGTCTT
1 GATGCCAAATCATCTTAGATCTGCTTCAGTGAAAA-CA-CGTGAAAGCCAAATCTGCTATGTCTT
* *
6651580 TAATCTGCTTCTTGT
64 CAATCTGCTCCTTGT
6651595 AAACTTATGA
Statistics
Matches: 66, Mismatches: 10, Indels: 4
0.82 0.12 0.05
Matches are distributed among these distances:
86 3 0.05
87 62 0.94
88 1 0.02
ACGTcount: A:0.26, C:0.21, G:0.18, T:0.35
Consensus pattern (87 bp):
GATGCCAAATCATCTTAGATCTGCTTCAGTGAAAACACGTGAAAGCCAAATCTGCTATGTCTTCA
ATCTGCTCCTTGTGTACACAAG
Found at i:6651784 original size:261 final size:256
Alignment explanation
Indices: 6651350--6651832 Score: 707
Period size: 261 Copynumber: 1.9 Consensus size: 256
6651340 AAGACTATCA
*
6651350 TGTTGATATCTTCGATCTGCTCTCCGTCGAACACAGAGACGCCAAATCTGCTTCTTCGATTTGTT
1 TGTTGATATCTTCGATCTGCTCTCCGCCGAACACAGAGACGCCAAATCTGCTTCTTCGATTTGTT
* * * ** *
6651415 TTCTGACAATAAAGAGATGCCAAATCATCTTAGATTTGCTTCAGTGTAAACACGTGAAAGCCAAA
66 CTCTAACAATAAAGAGATGCCAAATCATCTTAGATTTGCTTCAGCGTAAACACGCAAAAACCAAA
* * * *
6651480 TCTGCTGTGTCTTCAATTTGCTCCTTGTGTACACAAGGATGCCAAATCATCTTGGATCTGCTTCA
131 TCAGCTATGTCTTCAATTTGCTCCTTGTGAACACAAGGATGCCAAACCATCTTGGATCTGCTTCA
6651545 GTAAAATCATCTGAAGGTCAGATCTGCTATGTCTTTAATCTGCTTCTTGTAAACTTATGACTGTC
196 G-----TCATCTGAAGGTCAGATCTGCTATGTCTTTAATCTGCTTCTTGTAAACTTATGACTGTC
6651610 C
256 C
* * * * *
6651611 TGTTGATATCTTTGATCTGCTCTCCGCCGAATATAGAGACGCCAAATTTGTTTCTTCGATTTGTT
1 TGTTGATATCTTCGATCTGCTCTCCGCCGAACACAGAGACGCCAAATCTGCTTCTTCGATTTGTT
* *
6651676 CTCTAACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAGCGTAAGCACGCAAAAACCAAA
66 CTCTAACAATAAAGAGATGCCAAATCATCTTAGATTTGCTTCAGCGTAAACACGCAAAAACCAAA
* * *
6651741 TCAGCTATGTCTTCGATTTGTTTCTTGT-AAGCACAAGGATGCCAAACCATCTTGGATCTGCTTC
131 TCAGCTATGTCTTCAATTTGCTCCTTGTGAA-CACAAGGATGCCAAACCATCTTGGATCTGCTTC
*
6651805 AGTCATCTGAAGGTTAGATCTGCTATGT
195 AGTCATCTGAAGGTCAGATCTGCTATGT
6651833 ATCTGCTCTC
Statistics
Matches: 199, Mismatches: 22, Indels: 7
0.87 0.10 0.03
Matches are distributed among these distances:
256 25 0.13
260 1 0.01
261 173 0.87
ACGTcount: A:0.27, C:0.22, G:0.18, T:0.34
Consensus pattern (256 bp):
TGTTGATATCTTCGATCTGCTCTCCGCCGAACACAGAGACGCCAAATCTGCTTCTTCGATTTGTT
CTCTAACAATAAAGAGATGCCAAATCATCTTAGATTTGCTTCAGCGTAAACACGCAAAAACCAAA
TCAGCTATGTCTTCAATTTGCTCCTTGTGAACACAAGGATGCCAAACCATCTTGGATCTGCTTCA
GTCATCTGAAGGTCAGATCTGCTATGTCTTTAATCTGCTTCTTGTAAACTTATGACTGTCC
Found at i:6652118 original size:205 final size:205
Alignment explanation
Indices: 6651664--6652417 Score: 1232
Period size: 205 Copynumber: 3.7 Consensus size: 205
6651654 AAATTTGTTT
*
6651664 CTTCGATTTGTTCTCTAACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAGCGTAAGCAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAGCGTAAGCAC
* *
6651729 GCAAAAACCAAATCAGCTATGTCTTCGATTTGTTTCTTGTAAGCACAAGGATGCCAAACCATCTT
66 GCGAAAACCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
6651794 GGATCTGCTTCA--GT---CATCTGAAGGTTAGATCTGCTATGTATCTGCTCTCCATCGAAATGG
131 GGATCTGCTTCAGTGTAAACATCTGAAGGTTAGATCTGCTATGTATCTGCTCTCCATCGAAATGG
*
6651854 AGATGTCAGA
196 AGATGCCAGA
*
6651864 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAGCGTAAGCAC
* * *
6651929 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGACGCCAAACCATCTT
66 GCGAAAACCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
* *
6651994 GGATCTGCTTCAGTGTAAACATCTGAAGTTTAGATCTGCTATGTATCTACTCTCCATCGAAATGG
131 GGATCTGCTTCAGTGTAAACATCTGAAGGTTAGATCTGCTATGTATCTGCTCTCCATCGAAATGG
6652059 AGATGCCAGA
196 AGATGCCAGA
* *
6652069 CTTCAATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAGCGTAAACAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAGCGTAAGCAC
* * * *
6652134 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGGACAATGATGCCAAACCATCTT
66 GCGAAAACCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
* * *
6652199 GGATCTGCTTCAGTAG-AAACATTTGAAGGTTAGATCTGCTATGTATTTGCTCTCCGTCGAAATG
131 GGATCTGCTTCAGT-GTAAACATCTGAAGGTTAGATCTGCTATGTATCTGCTCTCCATCGAAATG
*
6652263 GAGATGCCAAA
195 GAGATGCCAGA
* *
6652274 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAAATTTGCTTTAGCGTAAGCAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAGCGTAAGCAC
* *
6652339 GCGAAAACCAAATTAGCTATGTCTTCGATTTGCTCCTTGTAAGCACAAGGATGCCAAACCATCTT
66 GCGAAAACCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
6652404 GGATCTTGCTTCAG
131 GGATC-TGCTTCAG
6652418 CCAGATCTAC
Statistics
Matches: 515, Mismatches: 32, Indels: 8
0.93 0.06 0.01
Matches are distributed among these distances:
200 135 0.26
202 2 0.00
205 369 0.72
206 9 0.02
ACGTcount: A:0.29, C:0.22, G:0.18, T:0.31
Consensus pattern (205 bp):
CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAGCGTAAGCAC
GCGAAAACCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
GGATCTGCTTCAGTGTAAACATCTGAAGGTTAGATCTGCTATGTATCTGCTCTCCATCGAAATGG
AGATGCCAGA
Found at i:6656174 original size:6 final size:6
Alignment explanation
Indices: 6656148--6656235 Score: 65
Period size: 6 Copynumber: 14.3 Consensus size: 6
6656138 AAGAAACATT
* * *
6656148 ATCAGA A-CTAGA ATTAGA ATCAGA ATCAAA ATCAG- GTGACAGA ATCAGA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA AT--CAGA ATCAGA
* *
6656197 ATCAGA ATCAGT ATCAGGTA AT-AGA ATCAAA ATCAGA AT
1 ATCAGA ATCAGA ATCA-G-A ATCAGA ATCAGA ATCAGA AT
6656236 GTGAATGCAA
Statistics
Matches: 64, Mismatches: 10, Indels: 16
0.71 0.11 0.18
Matches are distributed among these distances:
5 5 0.08
6 51 0.80
7 5 0.08
8 3 0.05
ACGTcount: A:0.49, C:0.14, G:0.17, T:0.20
Consensus pattern (6 bp):
ATCAGA
Found at i:6656191 original size:25 final size:25
Alignment explanation
Indices: 6656163--6656232 Score: 83
Period size: 25 Copynumber: 2.8 Consensus size: 25
6656153 AACTAGAATT
6656163 AGAATCAGAATCAAAATCAGGTGA-C
1 AGAATCAGAATCAAAATCAGGT-ATC
*
6656188 AGAATCAGAATCAGAATCA-GTATC
1 AGAATCAGAATCAAAATCAGGTATC
6656212 AGGTAAT-AGAATCAAAATCAG
1 A-G-AATCAGAATCAAAATCAG
6656233 AATGTGAATG
Statistics
Matches: 39, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
23 1 0.03
24 4 0.10
25 31 0.79
26 3 0.08
ACGTcount: A:0.49, C:0.14, G:0.19, T:0.19
Consensus pattern (25 bp):
AGAATCAGAATCAAAATCAGGTATC
Found at i:6656198 original size:31 final size:31
Alignment explanation
Indices: 6656157--6656235 Score: 104
Period size: 31 Copynumber: 2.5 Consensus size: 31
6656147 TATCAGAACT
* *
6656157 AGAATTAGAATCAGAATCAAAATCAGGTGAC
1 AGAATCAGAATCAGAATCAAAATCAGGTAAC
** *
6656188 AGAATCAGAATCAGAATCAGTATCAGGTAAT
1 AGAATCAGAATCAGAATCAAAATCAGGTAAC
*
6656219 AGAATCAAAATCAGAAT
1 AGAATCAGAATCAGAAT
6656236 GTGAATGCAA
Statistics
Matches: 42, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 42 1.00
ACGTcount: A:0.49, C:0.13, G:0.18, T:0.20
Consensus pattern (31 bp):
AGAATCAGAATCAGAATCAAAATCAGGTAAC
Found at i:6656460 original size:71 final size:67
Alignment explanation
Indices: 6656381--6656522 Score: 203
Period size: 67 Copynumber: 2.1 Consensus size: 67
6656371 TCACCGGATA
* * *
6656381 CAGATATTGTGGCTAGGCCACCAGAACAGATATATATATGTGGCGAAGCCACCAGATTGCAGCGA
1 CAGATATTGTGACGAAGCCACCAGAACAG----ATATATGTGGCGAAGCCACCAGATTGCAGCGA
6656446 GGCTGC
62 GGCTGC
* *
6656452 CAGATATTGTGACGAAGTCACCAGAACAGATATATGTGGCGAGGCCACCAGATTGCAGCGAGGCT
1 CAGATATTGTGACGAAGCCACCAGAACAGATATATGTGGCGAAGCCACCAGATTGCAGCGAGGCT
6656517 GC
66 GC
6656519 CAGA
1 CAGA
6656523 ACGCTTCCTC
Statistics
Matches: 66, Mismatches: 5, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
67 41 0.62
71 25 0.38
ACGTcount: A:0.30, C:0.23, G:0.29, T:0.18
Consensus pattern (67 bp):
CAGATATTGTGACGAAGCCACCAGAACAGATATATGTGGCGAAGCCACCAGATTGCAGCGAGGCT
GC
Found at i:6656500 original size:27 final size:26
Alignment explanation
Indices: 6656452--6656503 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
6656442 GCGAGGCTGC
*
6656452 CAGATATTGTGACGAAGTCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
* *
6656478 CAGATATATGTGGCGAGGCCACCAGA
1 CAGATAT-TGTGACGAAGCCACCAGA
6656504 TTGCAGCGAG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.35, C:0.21, G:0.27, T:0.17
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:6656777 original size:27 final size:27
Alignment explanation
Indices: 6656747--6656971 Score: 267
Period size: 27 Copynumber: 8.3 Consensus size: 27
6656737 AGGGTAAAAT
* *
6656747 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTTTACCCTACAAGGGTATTTC
* * *
6656774 GGTAATTCTACCCTATAGGGGTATTTC
1 GGTAATTTTACCCTACAAGGGTATTTC
* *
6656801 AGTAATTCTACCCTACAAGGGTATTTC
1 GGTAATTTTACCCTACAAGGGTATTTC
6656828 GGT-ATTTCTACCCTACAAGGGTATTTC
1 GGTAATTT-TACCCTACAAGGGTATTTC
* * * *
6656855 GATAATTCTACCCTACAGGGGTATTTT
1 GGTAATTTTACCCTACAAGGGTATTTC
* *
6656882 AGTAATTTTACCCTACAGGGGTATTTC
1 GGTAATTTTACCCTACAAGGGTATTTC
*
6656909 GGT-ATTTCTACCCTACAAGGGTATTTT
1 GGTAATTT-TACCCTACAAGGGTATTTC
*
6656936 TGT-ATTTCTACCCTACAAGGGTATTTC
1 GGTAATTT-TACCCTACAAGGGTATTTC
6656963 GGTAATTTT
1 GGTAATTTT
6656972 GTAAATTGAG
Statistics
Matches: 170, Mismatches: 24, Indels: 8
0.84 0.12 0.04
Matches are distributed among these distances:
26 7 0.04
27 156 0.92
28 7 0.04
ACGTcount: A:0.24, C:0.20, G:0.18, T:0.37
Consensus pattern (27 bp):
GGTAATTTTACCCTACAAGGGTATTTC
Found at i:6656875 original size:81 final size:80
Alignment explanation
Indices: 6656751--6656969 Score: 314
Period size: 81 Copynumber: 2.7 Consensus size: 80
6656741 TAAAATGGTA
* * *
6656751 ATTT-TACCCCACAAGGGTATCTCGGTAATTCTACCCTATAGGGGTATTTCAGTAATTCTACCCT
1 ATTTCTACCCTACAAGGGTATTTC-GTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCT
6656815 ACAAGGGTATTTCGGT
65 ACAAGGGTATTTCGGT
* *
6656831 ATTTCTACCCTACAAGGGTATTTCGATAATTCTACCCTACAGGGGTATTTTAGTAATTTTACCCT
1 ATTTCTACCCTACAAGGGTATTTCG-TAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCT
*
6656896 ACAGGGGTATTTCGGT
65 ACAAGGGTATTTCGGT
* * * *
6656912 ATTTCTACCCTACAAGGGTATTTTTGTATTTCTACCCTACAAGGGTATTTCGGTAATT
1 ATTTCTACCCTACAAGGGTA-TTTCGTAATTCTACCCTACAGGGGTATTTCAGTAATT
6656970 TTGTAAATTG
Statistics
Matches: 125, Mismatches: 11, Indels: 5
0.89 0.08 0.04
Matches are distributed among these distances:
80 5 0.04
81 116 0.93
82 4 0.03
ACGTcount: A:0.25, C:0.21, G:0.18, T:0.37
Consensus pattern (80 bp):
ATTTCTACCCTACAAGGGTATTTCGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCTA
CAAGGGTATTTCGGT
Found at i:6656983 original size:27 final size:27
Alignment explanation
Indices: 6656953--6657052 Score: 69
Period size: 27 Copynumber: 3.7 Consensus size: 27
6656943 CTACCCTACA
6656953 AGGGTATTTCGGTAATTTTGTAAATTG
1 AGGGTATTTCGGTAATTTTGTAAATTG
*** * *
6656980 AGGGTAAAACGGTAATTCTGTAAA-TC
1 AGGGTATTTCGGTAATTTTGTAAATTG
** * *
6657006 AGGGGTACTTT-GGTAATTTTACAAGTCG
1 A-GGGTA-TTTCGGTAATTTTGTAAATTG
**
6657034 AGGGTATTTCAATAATTTT
1 AGGGTATTTCGGTAATTTT
6657053 ACAGGTCGAG
Statistics
Matches: 53, Mismatches: 16, Indels: 8
0.69 0.21 0.10
Matches are distributed among these distances:
26 5 0.09
27 47 0.89
28 1 0.02
ACGTcount: A:0.30, C:0.08, G:0.24, T:0.38
Consensus pattern (27 bp):
AGGGTATTTCGGTAATTTTGTAAATTG
Found at i:6656993 original size:81 final size:79
Alignment explanation
Indices: 6656738--6656998 Score: 215
Period size: 81 Copynumber: 3.2 Consensus size: 79
6656728 TAACACCCTA
* * * * * *
6656738 GGGTAAAATGGTAATTT-TACCCCACAAGGGTATCTCGGTAATTCTACCCTATAGGGGTATTTCA
1 GGGTAAAACGGT-ATTTCTACCCTACAAGGGTATTTCGATAATTCTACCCTACAAGGGTATTTCA
*
6656802 GTAATTCTACCCTACAA-
65 GTAATT-T-TCCTA-AAG
*** * *
6656819 GGGTATTTCGGTATTTCTACCCTACAAGGGTATTTCGATAATTCTACCCTACAGGGGTATTTTAG
1 GGGTAAAACGGTATTTCTACCCTACAAGGGTATTTCGATAATTCTACCCTACAAGGGTATTTCAG
*
6656884 TAATTTTACCCTACAG
66 TAATTTT--CCTAAAG
*** * * *
6656900 GGGTATTTCGGTATTTCTACCCTACAAGGGTATTTTTG-TATTTCTACCCTACAAGGGTATTTCG
1 GGGTAAAACGGTATTTCTACCCTACAAGGGTA-TTTCGATAATTCTACCCTACAAGGGTATTTCA
*
6656964 GTAATTTT-GTAAATTG
65 GTAATTTTCCTAAA--G
*
6656980 AGGGTAAAACGGTAATTCT
1 -GGGTAAAACGGTATTTCT
6656999 GTAAATCAGG
Statistics
Matches: 150, Mismatches: 22, Indels: 16
0.80 0.12 0.09
Matches are distributed among these distances:
78 3 0.02
80 7 0.05
81 136 0.91
82 4 0.03
ACGTcount: A:0.26, C:0.18, G:0.20, T:0.36
Consensus pattern (79 bp):
GGGTAAAACGGTATTTCTACCCTACAAGGGTATTTCGATAATTCTACCCTACAAGGGTATTTCAG
TAATTTTCCTAAAG
Found at i:6657053 original size:27 final size:28
Alignment explanation
Indices: 6657019--6657204 Score: 125
Period size: 27 Copynumber: 6.9 Consensus size: 28
6657009 GGTACTTTGG
6657019 TAATTTTACAAGTCGA-GGGTATTTCAA
1 TAATTTTACAAGTCGAGGGGTATTTCAA
* * *
6657046 TAATTTTACAGGTCGA-GAGTATTTCAG
1 TAATTTTACAAGTCGAGGGGTATTTCAA
* * ***
6657073 TAATTTCACAAATC-AGGGGTATTTTGG
1 TAATTTTACAAGTCGAGGGGTATTTCAA
* * **
6657100 TAATTTTACAA-ACTAGGGGTATTTTGA
1 TAATTTTACAAGTCGAGGGGTATTTCAA
* * ***
6657127 TAATTTTACAA-ACTAGGGGTATTTTGG
1 TAATTTTACAAGTCGAGGGGTATTTCAA
* ***
6657154 TAATTTTACAAG-CCAGGGGTATTTTGG
1 TAATTTTACAAGTCGAGGGGTATTTCAA
*
6657181 TAATTTTACAAG-CTAGGGGTATTT
1 TAATTTTACAAGTCGAGGGGTATTT
6657205 TGGTAATTTA
Statistics
Matches: 141, Mismatches: 15, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
26 2 0.01
27 139 0.99
ACGTcount: A:0.30, C:0.10, G:0.22, T:0.39
Consensus pattern (28 bp):
TAATTTTACAAGTCGAGGGGTATTTCAA
Found at i:6657149 original size:81 final size:81
Alignment explanation
Indices: 6657005--6657374 Score: 388
Period size: 81 Copynumber: 4.6 Consensus size: 81
6656995 TTCTGTAAAT
* * * ** ** * *
6657005 CAGGGGTACTTTGGTAATTTTAC-AAGTCGAGGGTATTTCAATAATTTTAC-AGGTCGAGAGTAT
1 CAGGGGTATTTTGGTAATTTTACAAACTAG-GGGTATTTTGATAATTTTACAAACTAG-GGGTAT
* * *
6657068 TTCAGTAATTTCACAAAT
64 TTTAGTAATTTTACAAAC
6657086 CAGGGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGATAATTTTACAAACTAGGGGTATTT
1 CAGGGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGATAATTTTACAAACTAGGGGTATTT
* *
6657151 TGGTAATTTTACAAGC
66 TAGTAATTTTACAAAC
* * * * *
6657167 CAGGGGTATTTTGGTAATTTTACAAGCTAGGGGTATTTTGGTAA-TTTATAAACAAAGGGTATTT
1 CAGGGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGATAATTTTACAAACTAGGGGTATTT
6657231 TAGTAATTTTACAAAC
66 TAGTAATTTTACAAAC
* ** * * * *
6657247 CAAGGGTATTTTGGTAATTTTGTAAACCAAGAGTATTTTGGTAATTTTACAAACTAGGGGTATTT
1 CAGGGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGATAATTTTACAAACTAGGGGTATTT
* * *
6657312 TGGTGATTTTATAAAC
66 TAGTAATTTTACAAAC
** * *
6657328 CAAAGGTATTTTAGTAATTTTACAAACCAGGGGTATTTT-AGTAATTT
1 CAGGGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGA-TAATTT
6657375 GGTAAACTAA
Statistics
Matches: 244, Mismatches: 41, Indels: 8
0.83 0.14 0.03
Matches are distributed among these distances:
80 68 0.28
81 169 0.69
82 7 0.03
ACGTcount: A:0.31, C:0.09, G:0.21, T:0.39
Consensus pattern (81 bp):
CAGGGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGATAATTTTACAAACTAGGGGTATTT
TAGTAATTTTACAAAC
Found at i:6657205 original size:27 final size:27
Alignment explanation
Indices: 6657072--6657374 Score: 367
Period size: 27 Copynumber: 11.3 Consensus size: 27
6657062 GAGTATTTCA
*
6657072 GTAATTTCACAAA-TCAGGGGTATTTTG
1 GTAATTTTACAAACT-AGGGGTATTTTG
6657099 GTAATTTTACAAACTAGGGGTATTTTG
1 GTAATTTTACAAACTAGGGGTATTTTG
*
6657126 ATAATTTTACAAACTAGGGGTATTTTG
1 GTAATTTTACAAACTAGGGGTATTTTG
* *
6657153 GTAATTTTACAAGCCAGGGGTATTTTG
1 GTAATTTTACAAACTAGGGGTATTTTG
*
6657180 GTAATTTTACAAGCTAGGGGTATTTTG
1 GTAATTTTACAAACTAGGGGTATTTTG
* * * *
6657207 GTAA-TTTATAAACAAAGGGTATTTTA
1 GTAATTTTACAAACTAGGGGTATTTTG
* *
6657233 GTAATTTTACAAACCAAGGGTATTTTG
1 GTAATTTTACAAACTAGGGGTATTTTG
** * * *
6657260 GTAATTTTGTAAACCAAGAGTATTTTG
1 GTAATTTTACAAACTAGGGGTATTTTG
6657287 GTAATTTTACAAACTAGGGGTATTTTG
1 GTAATTTTACAAACTAGGGGTATTTTG
* * * ** *
6657314 GTGATTTTATAAACCAAAGGTATTTTA
1 GTAATTTTACAAACTAGGGGTATTTTG
* *
6657341 GTAATTTTACAAACCAGGGGTATTTTA
1 GTAATTTTACAAACTAGGGGTATTTTG
6657368 GTAATTT
1 GTAATTT
6657375 GGTAAACTAA
Statistics
Matches: 242, Mismatches: 32, Indels: 4
0.87 0.12 0.01
Matches are distributed among these distances:
26 21 0.09
27 220 0.91
28 1 0.00
ACGTcount: A:0.32, C:0.08, G:0.20, T:0.40
Consensus pattern (27 bp):
GTAATTTTACAAACTAGGGGTATTTTG
Found at i:6662800 original size:68 final size:65
Alignment explanation
Indices: 6662684--6662935 Score: 203
Period size: 68 Copynumber: 3.8 Consensus size: 65
6662674 TACAGATGGT
** * * * *
6662684 ATGTAGCTAGGTCACATGTATGGTGCTGA-GTGCACATCATGT-GTACAAGAGAGCTACGAGACA
1 ATGTAGCTAGGTCACATGGGTGATACT-ATGTGTACACCATGTAG-ACAAGAGAGCTACGAG--A
6662747 TTATA
62 -TATA
* *
6662752 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT-
1 ATGTAGCTAGGTCACATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATATA
* * * * * * *
6662816 ATGTAGTTAGGTCACATGCGTGGTTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCACATGGGT-GATACTA-TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
6662881 A-A
63 ATA
* * *
6662883 ACTG--GCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGT-GTACAAGAGAGC
1 A-TGTAGCTAGGTCACATGGGTGATACTATGTGTACACCATGTAG-ACAAGAGAGC
6662936 CGAACTATAT
Statistics
Matches: 150, Mismatches: 26, Indels: 21
0.76 0.13 0.11
Matches are distributed among these distances:
62 1 0.01
63 19 0.13
64 19 0.13
65 11 0.07
66 17 0.11
67 32 0.21
68 50 0.33
69 1 0.01
ACGTcount: A:0.31, C:0.17, G:0.29, T:0.24
Consensus pattern (65 bp):
ATGTAGCTAGGTCACATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATATA
Found at i:6666194 original size:17 final size:17
Alignment explanation
Indices: 6666135--6666194 Score: 63
Period size: 17 Copynumber: 3.5 Consensus size: 17
6666125 TAATAAATTT
6666135 AAAATATAATATATAATAA
1 AAAATATAAT-TAT-ATAA
6666154 AAAATAT-ATT-TAT-A
1 AAAATATAATTATATAA
*
6666168 AGAATAATAATTATATAA
1 AAAAT-ATAATTATATAA
6666186 AAAATATAA
1 AAAATATAA
6666195 AATATAATGG
Statistics
Matches: 35, Mismatches: 2, Indels: 10
0.74 0.04 0.21
Matches are distributed among these distances:
14 5 0.14
15 4 0.11
16 4 0.11
17 8 0.23
18 7 0.20
19 7 0.20
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (17 bp):
AAAATATAATTATATAA
Found at i:6666679 original size:22 final size:21
Alignment explanation
Indices: 6666644--6666713 Score: 63
Period size: 22 Copynumber: 3.3 Consensus size: 21
6666634 AAAAGGTATC
* *
6666644 TACAAATTAAATCTCTAAGAT
1 TACAAATCATATCTCTAAGAT
6666665 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATC-TCTAAGAT
* *
6666688 TGCATATCATA--TCTAAGAT
1 TACAAATCATATCTCTAAGAT
*
6666707 TGCAAAT
1 TACAAAT
6666714 TGTATCATAT
Statistics
Matches: 42, Mismatches: 5, Indels: 6
0.79 0.09 0.11
Matches are distributed among these distances:
19 14 0.33
21 3 0.07
22 15 0.36
23 10 0.24
ACGTcount: A:0.43, C:0.16, G:0.07, T:0.34
Consensus pattern (21 bp):
TACAAATCATATCTCTAAGAT
Found at i:6666687 original size:23 final size:22
Alignment explanation
Indices: 6666644--6666743 Score: 66
Period size: 23 Copynumber: 4.6 Consensus size: 22
6666634 AAAAGGTATC
* *
6666644 TACAAATTAAATC-TCTAAGAT
1 TACAAATCATATCTTCTAAGAT
6666665 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATCTTCTAAGAT
* *
6666688 TGCATATCATA---TCTAAGAT
1 TACAAATCATATCTTCTAAGAT
* **
6666707 TGCAAATTGTATCATATCTAAGAT
1 TACAAATCATATC-T-TCTAAGAT
*
6666731 TGC-AATCATATCT
1 TACAAATCATATCT
6666744 AAGATTGTAT
Statistics
Matches: 63, Mismatches: 9, Indels: 13
0.74 0.11 0.15
Matches are distributed among these distances:
19 16 0.25
21 3 0.05
22 16 0.25
23 17 0.27
24 11 0.17
ACGTcount: A:0.40, C:0.16, G:0.08, T:0.36
Consensus pattern (22 bp):
TACAAATCATATCTTCTAAGAT
Found at i:6666695 original size:17 final size:19
Alignment explanation
Indices: 6666680--6666775 Score: 126
Period size: 24 Copynumber: 4.9 Consensus size: 19
6666670 AATCATATCT
6666680 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
6666699 TCTAAGATTGCAAATTGTATCATA
1 TCTAAGATTGC--A---TATCATA
6666723 TCTAAGATTGCA-ATCATA
1 TCTAAGATTGCATATCATA
6666741 TCTAAGATTG--TATCATA
1 TCTAAGATTGCATATCATA
6666758 TCTAAGATTGCATATCAT
1 TCTAAGATTGCATATCAT
6666776 TGAATATTAT
Statistics
Matches: 69, Mismatches: 0, Indels: 16
0.81 0.00 0.19
Matches are distributed among these distances:
17 16 0.23
18 16 0.23
19 17 0.25
21 1 0.01
22 1 0.01
24 18 0.26
ACGTcount: A:0.36, C:0.15, G:0.11, T:0.38
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:6666773 original size:14 final size:15
Alignment explanation
Indices: 6666718--6666773 Score: 60
Period size: 17 Copynumber: 3.5 Consensus size: 15
6666708 GCAAATTGTA
6666718 TCATATCTAAGATTG
1 TCATATCTAAGATTG
6666733 CAATCATATCTAAGATTG
1 ---TCATATCTAAGATTG
6666751 TATCATATCTAAGATTG
1 --TCATATCTAAGATTG
6666768 -CATATC
1 TCATATC
6666774 ATTGAATATT
Statistics
Matches: 37, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
14 6 0.16
17 16 0.43
18 15 0.41
ACGTcount: A:0.36, C:0.16, G:0.11, T:0.38
Consensus pattern (15 bp):
TCATATCTAAGATTG
Found at i:6667265 original size:87 final size:87
Alignment explanation
Indices: 6667168--6667544 Score: 244
Period size: 87 Copynumber: 4.3 Consensus size: 87
6667158 ACAATAAAGA
*
6667168 GATGCCAAATCATCTTAGATCTGCTTCAGCGT-AAACACGTGAAAGCCAAATCTGCTGTGTCTTC
1 GATGCCAAATCATCTTAGATCTGCTTCAGCGTAAAACACGTGAAAGCCAAATCTGCTATGTCTTC
6667232 GATTTGCTCCTTGTGAACACAAG
66 GATTTGCTCCTTGT-AACACAAG
* * * *
6667255 GATGCCAAATCATCTTGGATCTGCTTCA--GTAAAATCATC-TGAAGGTCAGATCTGCTATGTCT
1 GATGCCAAATCATCTTAGATCTGCTTCAGCGTAAAA-CA-CGTGAAAGCCAAATCTGCTATGTCT
** * * * *
6667317 TTAATCTGCTTCTTGTAA-ACTTAT
64 TCGATTTGCTCCTTGTAACAC-AAG
** * * * * * *
6667341 GACTGTCCTGTTGAT-ATCTTTGATCTGCTCTCCGC-TGAAGACA-GAG-ACGCCAAATTTG-T-
1 GA-TG-CC---AAATCATCTTAGATCTGCT-TCAGCGT-AAAACACGTGAAAGCCAAATCTGCTA
* * *
6667400 T-TCTTCGATTTG-TTC-TCTAACAATACAG
59 TGTCTTCGATTTGCTCCTTGTAAC-ACA-AG
* * * * *
6667428 AGATGCCAAATCATCTTAGATTTGCTTCAGCGT-AAGCACGCGAAAACCAAATCAGCTATGTCTT
1 -GATGCCAAATCATCTTAGATCTGCTTCAGCGTAAAACACGTGAAAGCCAAATCTGCTATGTCTT
*
6667492 CGATTTGTTCCTTGTAAGCACAAG
65 CGATTTGCTCCTTGTAA-CACAAG
* *
6667516 GATGCCAAACCATCTTGGATCTGCTTCAG
1 GATGCCAAATCATCTTAGATCTGCTTCAG
6667545 TCATCTGAAG
Statistics
Matches: 216, Mismatches: 46, Indels: 56
0.68 0.14 0.18
Matches are distributed among these distances:
82 3 0.01
83 8 0.04
84 21 0.10
85 9 0.04
86 14 0.06
87 111 0.51
88 10 0.05
89 7 0.03
90 22 0.10
91 5 0.02
92 3 0.01
93 3 0.01
ACGTcount: A:0.27, C:0.23, G:0.18, T:0.32
Consensus pattern (87 bp):
GATGCCAAATCATCTTAGATCTGCTTCAGCGTAAAACACGTGAAAGCCAAATCTGCTATGTCTTC
GATTTGCTCCTTGTAACACAAG
Found at i:6667522 original size:261 final size:256
Alignment explanation
Indices: 6667088--6667570 Score: 718
Period size: 261 Copynumber: 1.9 Consensus size: 256
6667078 AAGACTATCA
* *
6667088 TGTTGATATCTTCGATCTACTCTCTGTCGAACATAGAGACGCCAAATCTGCTTCTTCGATTTGTT
1 TGTTGATATCTTCGATCTACTCTCCGTCGAACACAGAGACGCCAAATCTGCTTCTTCGATTTGTT
* * * *
6667153 TTCTGACAATAAAGAGATGCCAAATCATCTTAGATCTGCTTCAGCGTAAACACGTGAAAGCCAAA
66 CTCTAACAATAAAGAGATGCCAAATCATCTTAGATCTGCTTCAGCGTAAACACGCGAAAACCAAA
* * *
6667218 TCTGCTGTGTCTTCGATTTGCTCCTTGTGAACACAAGGATGCCAAATCATCTTGGATCTGCTTCA
131 TCAGCTATGTCTTCGATTTGCTCCTTGTGAACACAAGGATGCCAAACCATCTTGGATCTGCTTCA
6667283 GTAAAATCATCTGAAGGTCAGATCTGCTATGTCTTTAATCTGCTTCTTGTAAACTTATGACTGTC
196 G-----TCATCTGAAGGTCAGATCTGCTATGTCTTTAATCTGCTTCTTGTAAACTTATGACTGTC
6667348 C
256 C
* * * * *
6667349 TGTTGATATCTTTGATCTGCTCTCCG-CTGAAGACAGAGACGCCAAATTTGTTTCTTCGATTTGT
1 TGTTGATATCTTCGATCTACTCTCCGTC-GAACACAGAGACGCCAAATCTGCTTCTTCGATTTGT
* * *
6667413 TCTCTAACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAGCGTAAGCACGCGAAAACCAA
65 TCTCTAACAATAAAGAGATGCCAAATCATCTTAGATCTGCTTCAGCGTAAACACGCGAAAACCAA
*
6667478 ATCAGCTATGTCTTCGATTTGTTCCTTGT-AAGCACAAGGATGCCAAACCATCTTGGATCTGCTT
130 ATCAGCTATGTCTTCGATTTGCTCCTTGTGAA-CACAAGGATGCCAAACCATCTTGGATCTGCTT
*
6667542 CAGTCATCTGAAGGTTAGATCTGCTATGT
194 CAGTCATCTGAAGGTCAGATCTGCTATGT
6667571 ATCTGCTCTC
Statistics
Matches: 201, Mismatches: 19, Indels: 9
0.88 0.08 0.04
Matches are distributed among these distances:
256 25 0.12
260 3 0.01
261 173 0.86
ACGTcount: A:0.27, C:0.22, G:0.18, T:0.33
Consensus pattern (256 bp):
TGTTGATATCTTCGATCTACTCTCCGTCGAACACAGAGACGCCAAATCTGCTTCTTCGATTTGTT
CTCTAACAATAAAGAGATGCCAAATCATCTTAGATCTGCTTCAGCGTAAACACGCGAAAACCAAA
TCAGCTATGTCTTCGATTTGCTCCTTGTGAACACAAGGATGCCAAACCATCTTGGATCTGCTTCA
GTCATCTGAAGGTCAGATCTGCTATGTCTTTAATCTGCTTCTTGTAAACTTATGACTGTCC
Found at i:6667856 original size:205 final size:205
Alignment explanation
Indices: 6667402--6668155 Score: 1320
Period size: 205 Copynumber: 3.7 Consensus size: 205
6667392 AAATTTGTTT
*
6667402 CTTCGATTTGTTCTCTAACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAGCGTAAGCAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAGCGTAAGCAC
6667467 GCGAAAACCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
66 GCGAAAACCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
*
6667532 GGATCTGCTTCA--GT---CATCTGAAGGTTAGATCTGCTATGTATCTGCTCTCCATCGAAATGG
131 GGATCTGCTTCAGTGTAAACATCTGAAGGTTAGATCTGCTATGTATCTGCTCTCCGTCGAAATGG
*
6667592 AGATGTCAGA
196 AGATGCCAGA
*
6667602 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAGCGTAAGCAC
* *
6667667 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
66 GCGAAAACCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
* *
6667732 GGATCTGCTTCAGTGTAAACATCTGAAGTTTAGATATGCTATGTATCTGCTCTCCGTCGAAATGG
131 GGATCTGCTTCAGTGTAAACATCTGAAGGTTAGATCTGCTATGTATCTGCTCTCCGTCGAAATGG
6667797 AGATGCCAGA
196 AGATGCCAGA
*
6667807 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAGCGTAAACAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAGCGTAAGCAC
* *
6667872 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
66 GCGAAAACCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
* *
6667937 GGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATGTATCTGCTCTTCGTCGAAATGG
131 GGATCTGCTTCAGTGTAAACATCTGAAGGTTAGATCTGCTATGTATCTGCTCTCCGTCGAAATGG
*
6668002 AGATGCCAAA
196 AGATGCCAGA
6668012 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAGCGTAAGCAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAGCGTAAGCAC
* *
6668077 GCGAAAACCAAATTAGCTATGTCTTCGATTTGCTCCTTGTAAGCACAAGGATGCCAAACCATCTT
66 GCGAAAACCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
6668142 GGATCTTGCTTCAG
131 GGATC-TGCTTCAG
6668156 CTAGATCTAC
Statistics
Matches: 528, Mismatches: 20, Indels: 6
0.95 0.04 0.01
Matches are distributed among these distances:
200 138 0.26
202 2 0.00
205 380 0.72
206 8 0.02
ACGTcount: A:0.28, C:0.22, G:0.19, T:0.31
Consensus pattern (205 bp):
CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAGCGTAAGCAC
GCGAAAACCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
GGATCTGCTTCAGTGTAAACATCTGAAGGTTAGATCTGCTATGTATCTGCTCTCCGTCGAAATGG
AGATGCCAGA
Found at i:6671961 original size:19 final size:19
Alignment explanation
Indices: 6671909--6671961 Score: 61
Period size: 19 Copynumber: 2.8 Consensus size: 19
6671899 GAATTAGAAT
* *
6671909 CAGAATCAAAATCAAGTGA
1 CAGAATCAAAATCAGGTAA
**
6671928 CAGAATCAGTATCAGGTAA
1 CAGAATCAAAATCAGGTAA
*
6671947 TAGAATCAAAATCAG
1 CAGAATCAAAATCAG
6671962 AATGTGAATG
Statistics
Matches: 27, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
19 27 1.00
ACGTcount: A:0.49, C:0.15, G:0.17, T:0.19
Consensus pattern (19 bp):
CAGAATCAAAATCAGGTAA
Found at i:6672138 original size:26 final size:27
Alignment explanation
Indices: 6672083--6672142 Score: 79
Period size: 27 Copynumber: 2.3 Consensus size: 27
6672073 GCAAGGCTGC
6672083 CAGATATTGTGACGAAGTCACCAGATA
1 CAGATATTGTGACGAAGTCACCAGATA
* *
6672110 CAGATATTGTGGC-TAGTCCACCAGA-A
1 CAGATATTGTGACGAAGT-CACCAGATA
6672136 CAGATAT
1 CAGATAT
6672143 ATATATATGT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
26 11 0.37
27 19 0.63
ACGTcount: A:0.35, C:0.20, G:0.22, T:0.23
Consensus pattern (27 bp):
CAGATATTGTGACGAAGTCACCAGATA
Found at i:6672231 original size:27 final size:26
Alignment explanation
Indices: 6672183--6672234 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
6672173 GCGAGGCTGC
*
6672183 CAGATATTGTGACGAAGTCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
* *
6672209 CAGATATATGTGGCGAGGCCACCAGA
1 CAGATAT-TGTGACGAAGCCACCAGA
6672235 TTGCAGCGAG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.35, C:0.21, G:0.27, T:0.17
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:6672482 original size:27 final size:27
Alignment explanation
Indices: 6672452--6672676 Score: 276
Period size: 27 Copynumber: 8.3 Consensus size: 27
6672442 AGGGAAAAAT
* *
6672452 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTTTACCCTACAAGGGTATTTC
* *
6672479 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTTTACCCTACAAGGGTATTTC
* * *
6672506 AGTAATTCTACCATACAAGGGTATTTC
1 GGTAATTTTACCCTACAAGGGTATTTC
*
6672533 AGT-ATTTCTACCCTACAAGGGTATTTC
1 GGTAATTT-TACCCTACAAGGGTATTTC
* * *
6672560 GGTAATTCTACCCTACAGGGGTATTTT
1 GGTAATTTTACCCTACAAGGGTATTTC
* *
6672587 AGTAATTTTACCCTACAGGGGTATTTC
1 GGTAATTTTACCCTACAAGGGTATTTC
6672614 GGT-ATTTCTACCCTACAAGGGTATTTC
1 GGTAATTT-TACCCTACAAGGGTATTTC
6672641 GGT-ATTTCTACCCTACAAGGGTATTTC
1 GGTAATTT-TACCCTACAAGGGTATTTC
*
6672668 GGCAATTTT
1 GGTAATTTT
6672677 GTAAATCGAG
Statistics
Matches: 175, Mismatches: 19, Indels: 8
0.87 0.09 0.04
Matches are distributed among these distances:
26 7 0.04
27 161 0.92
28 7 0.04
ACGTcount: A:0.25, C:0.21, G:0.19, T:0.36
Consensus pattern (27 bp):
GGTAATTTTACCCTACAAGGGTATTTC
Found at i:6672542 original size:54 final size:54
Alignment explanation
Indices: 6672452--6672674 Score: 304
Period size: 54 Copynumber: 4.1 Consensus size: 54
6672442 AGGGAAAAAT
* * * * * *
6672452 GGTAATTTTACCCCACAAGGGTATCTCGGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTCAGTATTTCTACCCTACAAGGGTATTTC
* *
6672506 AGTAATTCTACCATACAAGGGTATTTCAGTATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTCAGTATTTCTACCCTACAAGGGTATTTC
* * *
6672560 GGTAATTCTACCCTACAGGGGTATTTTAGTAATTT-TACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTCAGT-ATTTCTACCCTACAAGGGTATTTC
* *
6672614 GGTATTTCTACCCTACAAGGGTATTTCGGTATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTCAGTATTTCTACCCTACAAGGGTATTTC
*
6672668 GGCAATT
1 GGTAATT
6672675 TTGTAAATCG
Statistics
Matches: 147, Mismatches: 20, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
53 4 0.03
54 139 0.95
55 4 0.03
ACGTcount: A:0.25, C:0.21, G:0.19, T:0.35
Consensus pattern (54 bp):
GGTAATTCTACCCTACAAGGGTATTTCAGTATTTCTACCCTACAAGGGTATTTC
Found at i:6672675 original size:81 final size:81
Alignment explanation
Indices: 6672456--6672676 Score: 336
Period size: 81 Copynumber: 2.7 Consensus size: 81
6672446 AAAAATGGTA
* * *
6672456 ATTT-TACCCCACAAGGGTATCTCGGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCAT
1 ATTTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCAGTAATTTTACCAT
6672520 ACAAGGGTATTTCAGT
66 ACAAGGGTATTTCAGT
* *
6672536 ATTTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTTAGTAATTTTACCCT
1 ATTTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCAGTAATTTTACCAT
* *
6672601 ACAGGGGTATTTCGGT
66 ACAAGGGTATTTCAGT
* * * *
6672617 ATTTCTACCCTACAAGGGTATTTCGGTATTTCTACCCTACAAGGGTATTTCGGCAATTTT
1 ATTTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCAGTAATTTT
6672677 GTAAATCGAG
Statistics
Matches: 128, Mismatches: 12, Indels: 1
0.91 0.09 0.01
Matches are distributed among these distances:
80 4 0.03
81 124 0.97
ACGTcount: A:0.25, C:0.21, G:0.18, T:0.36
Consensus pattern (81 bp):
ATTTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCAGTAATTTTACCAT
ACAAGGGTATTTCAGT
Found at i:6672743 original size:27 final size:28
Alignment explanation
Indices: 6672710--6673054 Score: 255
Period size: 27 Copynumber: 12.7 Consensus size: 28
6672700 TTCCATAAAT
* *
6672710 CAGGGGTACTTTGGTAATTTTAGAAGTC
1 CAGGGGTATTTTGGTAATTTTACAAGTC
* *** *
6672738 GA-GGGTATTTCAATAATTTTACAGGTC
1 CAGGGGTATTTTGGTAATTTTACAAGTC
* * ** * *
6672765 GA-TGGTATTTCAGTAATTTCACAAAT-
1 CAGGGGTATTTTGGTAATTTTACAAGTC
*
6672791 CAGGGGTATTTTGGTAATTTTACAA-AC
1 CAGGGGTATTTTGGTAATTTTACAAGTC
* * *
6672818 TAGGGGTATTTTGATAATTTTACAA-AC
1 CAGGGGTATTTTGGTAATTTTACAAGTC
6672845 CAGGGGTATTTTGGTAATTTTACAAG-C
1 CAGGGGTATTTTGGTAATTTTACAAGTC
* *
6672872 CAGGGGTATTTTGGTAATTTTATAA-AC
1 CAGGGGTATTTTGGTAATTTTACAAGTC
* * * * *
6672899 AAAGGGTGTTTTAGTAATTTTACAA-AC
1 CAGGGGTATTTTGGTAATTTTACAAGTC
** *
6672926 CAGGGGTATTTTTGGTAATTTTGTAA-AC
1 CAGGGGTA-TTTTGGTAATTTTACAAGTC
* * *
6672954 CAAGAGTATTTTGGTAATTTTACAA-AC
1 CAGGGGTATTTTGGTAATTTTACAAGTC
* * * *
6672981 TAGGGGTATTTTGGTGATTTTATAA-AC
1 CAGGGGTATTTTGGTAATTTTACAAGTC
** * *
6673008 CAAAGGTATTTTAGTAATTTTACAA-AC
1 CAGGGGTATTTTGGTAATTTTACAAGTC
6673035 CAGGGGTATTTTGGTAATTT
1 CAGGGGTATTTTGGTAATTT
6673055 GGTAAACTAA
Statistics
Matches: 260, Mismatches: 52, Indels: 11
0.80 0.16 0.03
Matches are distributed among these distances:
26 1 0.00
27 236 0.91
28 23 0.09
ACGTcount: A:0.30, C:0.09, G:0.21, T:0.39
Consensus pattern (28 bp):
CAGGGGTATTTTGGTAATTTTACAAGTC
Found at i:6672825 original size:81 final size:81
Alignment explanation
Indices: 6672710--6673054 Score: 370
Period size: 81 Copynumber: 4.2 Consensus size: 81
6672700 TTCCATAAAT
* * * * * *** *
6672710 CAGGGGTACTTTGGTAATTTTA-GAAGTCGAGGGTATTTCAATAATTTTACAGGTC-GATGGTAT
1 CAGGGGTATTTTGGTAATTTTACAAACTAG-GGGTATTTTAATAATTTTACAAACCAG-GGGTAT
* * *
6672773 TTCAGTAATTTCACAAAT
64 TTTAGTAATTTTACAAAC
*
6672791 CAGGGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGATAATTTTACAAACCAGGGGTATTT
1 CAGGGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTAATAATTTTACAAACCAGGGGTATTT
* *
6672856 TGGTAATTTTACAAGC
66 TAGTAATTTTACAAAC
* * * * *
6672872 CAGGGGTATTTTGGTAATTTTATAAACAAAGGGTGTTTTAGTAATTTTACAAACCAGGGGTATTT
1 CAGGGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTAATAATTTTACAAACCAGGGGTA-TT
* **
6672937 TTGGTAATTTTGTAAAC
65 TTAGTAATTTTACAAAC
* * ** * * **
6672954 CAAGAGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGGTGATTTTATAAACCAAAGGTATTT
1 CAGGGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTAATAATTTTACAAACCAGGGGTATTT
6673019 TAGTAATTTTACAAAC
66 TAGTAATTTTACAAAC
6673035 CAGGGGTATTTTGGTAATTT
1 CAGGGGTATTTTGGTAATTT
6673055 GGTAAACTAA
Statistics
Matches: 221, Mismatches: 40, Indels: 6
0.83 0.15 0.02
Matches are distributed among these distances:
81 149 0.67
82 72 0.33
ACGTcount: A:0.30, C:0.09, G:0.21, T:0.39
Consensus pattern (81 bp):
CAGGGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTAATAATTTTACAAACCAGGGGTATTT
TAGTAATTTTACAAAC
Found at i:6672986 original size:109 final size:109
Alignment explanation
Indices: 6672794--6673070 Score: 407
Period size: 109 Copynumber: 2.6 Consensus size: 109
6672784 CACAAATCAG
* * * ** * *
6672794 GGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGATAATTTTACAAACCAGGGGTATTTTGG
1 GGGTATTTTAGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTGTAAACCAAGAGTATTTTGG
*
6672859 TAATTTTACAAGCCAGGGGTATTTTGGTAATTTTATAAA-CAAA
66 TAATTTTACAAACCAGGGGTATTTTGGTAATTTTATAAACCAAA
*
6672902 GGGTGTTTTAGTAATTTTACAAACCAGGGGTATTTTTGGTAATTTTGTAAACCAAGAGTATTTTG
1 GGGTATTTTAGTAATTTTACAAACCAGGGGTA-TTTTGGTAATTTTGTAAACCAAGAGTATTTTG
* *
6672967 GTAATTTTACAAACTAGGGGTATTTTGGTGATTTTATAAACCAAA
65 GTAATTTTACAAACCAGGGGTATTTTGGTAATTTTATAAACCAAA
* *
6673012 -GGTATTTTAGTAATTTTACAAACCAGGGGTATTTTGGTAATTTGGTAAACTAA-AGTATT
1 GGGTATTTTAGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTGTAAACCAAGAGTATT
6673071 CTAAACAGGA
Statistics
Matches: 153, Mismatches: 14, Indels: 5
0.89 0.08 0.03
Matches are distributed among these distances:
107 6 0.04
108 49 0.32
109 94 0.61
110 4 0.03
ACGTcount: A:0.31, C:0.08, G:0.21, T:0.40
Consensus pattern (109 bp):
GGGTATTTTAGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTGTAAACCAAGAGTATTTTGG
TAATTTTACAAACCAGGGGTATTTTGGTAATTTTATAAACCAAA
Found at i:6673061 original size:27 final size:27
Alignment explanation
Indices: 6672768--6673054 Score: 367
Period size: 27 Copynumber: 10.6 Consensus size: 27
6672758 ACAGGTCGAT
** * *
6672768 GGTATTTCAGTAATTTCACAAATCAGG
1 GGTATTTTGGTAATTTTACAAACCAGG
*
6672795 GGTATTTTGGTAATTTTACAAACTAGG
1 GGTATTTTGGTAATTTTACAAACCAGG
*
6672822 GGTATTTTGATAATTTTACAAACCAGG
1 GGTATTTTGGTAATTTTACAAACCAGG
*
6672849 GGTATTTTGGTAATTTTACAAGCCAGG
1 GGTATTTTGGTAATTTTACAAACCAGG
* * *
6672876 GGTATTTTGGTAATTTTATAAACAAAG
1 GGTATTTTGGTAATTTTACAAACCAGG
* *
6672903 GGTGTTTTAGTAATTTTACAAACCAGG
1 GGTATTTTGGTAATTTTACAAACCAGG
** *
6672930 GGTATTTTTGGTAATTTTGTAAACCAAG
1 GGTA-TTTTGGTAATTTTACAAACCAGG
* *
6672958 AGTATTTTGGTAATTTTACAAACTAGG
1 GGTATTTTGGTAATTTTACAAACCAGG
* * **
6672985 GGTATTTTGGTGATTTTATAAACCAAA
1 GGTATTTTGGTAATTTTACAAACCAGG
*
6673012 GGTATTTTAGTAATTTTACAAACCAGG
1 GGTATTTTGGTAATTTTACAAACCAGG
6673039 GGTATTTTGGTAATTT
1 GGTATTTTGGTAATTT
6673055 GGTAAACTAA
Statistics
Matches: 219, Mismatches: 40, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
27 197 0.90
28 22 0.10
ACGTcount: A:0.31, C:0.09, G:0.21, T:0.40
Consensus pattern (27 bp):
GGTATTTTGGTAATTTTACAAACCAGG
Found at i:6673688 original size:35 final size:36
Alignment explanation
Indices: 6673632--6673757 Score: 184
Period size: 35 Copynumber: 3.5 Consensus size: 36
6673622 AATCATATCT
6673632 TCTAAGATTGCATATCATATCTAAGATTGCAATCATA
1 TCTAAGATTGC-TATCATATCTAAGATTGCAATCATA
6673669 TCTAAGATTG-TATCATATCTAAGATTGCATATCATA
1 TCTAAGATTGCTATCATATCTAAGATTGCA-ATCATA
* * *
6673705 TCTATGATTGCAATCATATCTAAGATTG-TATCATA
1 TCTAAGATTGCTATCATATCTAAGATTGCAATCATA
6673740 TCTAAGATTGCATATCAT
1 TCTAAGATTGC-TATCAT
6673758 TGAAGATTAT
Statistics
Matches: 81, Mismatches: 5, Indels: 7
0.87 0.05 0.08
Matches are distributed among these distances:
35 35 0.43
36 20 0.25
37 26 0.32
ACGTcount: A:0.36, C:0.15, G:0.11, T:0.38
Consensus pattern (36 bp):
TCTAAGATTGCTATCATATCTAAGATTGCAATCATA
Found at i:6673698 original size:54 final size:54
Alignment explanation
Indices: 6673632--6673757 Score: 243
Period size: 54 Copynumber: 2.3 Consensus size: 54
6673622 AATCATATCT
6673632 TCTAAGATTGCATATCATATCTAAGATTGCAATCATATCTAAGATTGTATCATA
1 TCTAAGATTGCATATCATATCTAAGATTGCAATCATATCTAAGATTGTATCATA
*
6673686 TCTAAGATTGCATATCATATCTATGATTGCAATCATATCTAAGATTGTATCATA
1 TCTAAGATTGCATATCATATCTAAGATTGCAATCATATCTAAGATTGTATCATA
6673740 TCTAAGATTGCATATCAT
1 TCTAAGATTGCATATCAT
6673758 TGAAGATTAT
Statistics
Matches: 71, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
54 71 1.00
ACGTcount: A:0.36, C:0.15, G:0.11, T:0.38
Consensus pattern (54 bp):
TCTAAGATTGCATATCATATCTAAGATTGCAATCATATCTAAGATTGTATCATA
Found at i:6673701 original size:14 final size:15
Alignment explanation
Indices: 6673646--6673755 Score: 78
Period size: 17 Copynumber: 6.5 Consensus size: 15
6673636 AGATTGCATA
6673646 TCATATCTAAGATTG
1 TCATATCTAAGATTG
6673661 CAATCATATCTAAGATTG
1 ---TCATATCTAAGATTG
6673679 TATCATATCTAAGATTG
1 --TCATATCTAAGATTG
*
6673696 CATATCATATCTATGATTG
1 ----TCATATCTAAGATTG
6673715 CAATCATATCTAAGATTG
1 ---TCATATCTAAGATTG
6673733 TATCATATCTAAGATTG
1 --TCATATCTAAGATTG
6673750 -CATATC
1 TCATATC
6673756 ATTGAAGATT
Statistics
Matches: 84, Mismatches: 6, Indels: 8
0.86 0.06 0.08
Matches are distributed among these distances:
14 6 0.07
17 32 0.38
18 30 0.36
19 16 0.19
ACGTcount: A:0.35, C:0.15, G:0.11, T:0.38
Consensus pattern (15 bp):
TCATATCTAAGATTG
Found at i:6673765 original size:17 final size:19
Alignment explanation
Indices: 6673632--6673757 Score: 201
Period size: 19 Copynumber: 6.9 Consensus size: 19
6673622 AATCATATCT
6673632 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
6673651 TCTAAGATTGCA-ATCATA
1 TCTAAGATTGCATATCATA
6673669 TCTAAGATTG--TATCATA
1 TCTAAGATTGCATATCATA
6673686 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
*
6673705 TCTATGATTGCA-ATCATA
1 TCTAAGATTGCATATCATA
6673723 TCTAAGATTG--TATCATA
1 TCTAAGATTGCATATCATA
6673740 TCTAAGATTGCATATCAT
1 TCTAAGATTGCATATCAT
6673758 TGAAGATTAT
Statistics
Matches: 99, Mismatches: 2, Indels: 12
0.88 0.02 0.11
Matches are distributed among these distances:
17 32 0.32
18 31 0.31
19 36 0.36
ACGTcount: A:0.36, C:0.15, G:0.11, T:0.38
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:6675737 original size:30 final size:33
Alignment explanation
Indices: 6675701--6675779 Score: 103
Period size: 30 Copynumber: 2.5 Consensus size: 33
6675691 TAATTTACAA
*
6675701 ATAAAAATAT-ATGATAATGTA-A-ATTATAAT
1 ATAAAAATATAATGATAATGTATATAATATAAT
6675731 ATAAAAATATAAT-ATAATGTATATAATATAAT
1 ATAAAAATATAATGATAATGTATATAATATAAT
*
6675763 ATAAAAAATATCATGAT
1 AT-AAAAATATAATGAT
6675780 GTCTAGTAAA
Statistics
Matches: 42, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
30 18 0.43
31 3 0.07
32 9 0.21
33 10 0.24
34 2 0.05
ACGTcount: A:0.58, C:0.01, G:0.05, T:0.35
Consensus pattern (33 bp):
ATAAAAATATAATGATAATGTATATAATATAAT
Found at i:6675744 original size:5 final size:5
Alignment explanation
Indices: 6675725--6675766 Score: 54
Period size: 5 Copynumber: 9.0 Consensus size: 5
6675715 TAATGTAAAT
*
6675725 TATAA TATAA -A-AA TATAA TATAA TGT-A TATAA TATAA TATAA
1 TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA
6675767 AAAATATCAT
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
3 2 0.06
4 5 0.16
5 25 0.78
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (5 bp):
TATAA
Found at i:6675766 original size:32 final size:30
Alignment explanation
Indices: 6675701--6675798 Score: 99
Period size: 30 Copynumber: 3.1 Consensus size: 30
6675691 TAATTTACAA
*
6675701 ATAAAAATATATGATAATGTAAATTATAAT
1 ATAAAAATATATGATAATGTAAAATATAAT
6675731 ATAAAAATATAAT-ATAATGTATATAATATAAT
1 ATAAAAATAT-ATGATAATGTA-A-AATATAAT
**
6675763 ATAAAAAATATCATGATGTCTAGTAAAATATAAT
1 AT-AAAAATAT-ATGAT-AAT-GTAAAATATAAT
6675797 AT
1 AT
6675799 GTAATAAATA
Statistics
Matches: 57, Mismatches: 4, Indels: 10
0.80 0.06 0.14
Matches are distributed among these distances:
30 18 0.32
31 3 0.05
32 9 0.16
33 10 0.18
34 12 0.21
35 2 0.04
36 3 0.05
ACGTcount: A:0.56, C:0.02, G:0.06, T:0.36
Consensus pattern (30 bp):
ATAAAAATATATGATAATGTAAAATATAAT
Found at i:6693595 original size:49 final size:47
Alignment explanation
Indices: 6693536--6694171 Score: 1002
Period size: 47 Copynumber: 13.3 Consensus size: 47
6693526 TACATGATAG
* *
6693536 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATA
1 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TA
6693585 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
1 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TA
6693634 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
1 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
*
6693681 TATATGTGATAAGGCCTAATAGCCGATGTGTTATGAATGTGAAAGTGTA
1 TATATGTGATAAGGCCTAATGGCCGATGTG--ATGAATGTGAAAGTGTA
* *
6693730 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATA
1 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TA
6693779 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
1 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
*
6693826 TATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTA
1 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
* *
6693873 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATA
1 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TA
6693922 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
1 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TA
6693971 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
1 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
*
6694018 TATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTA
1 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
*
6694065 TATATGTGATGAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
1 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
* * * * * * *
6694112 TATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTA
1 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
*
6694159 TAAATGTGATAAG
1 TATATGTGATAAG
6694172 TCCCGAAGGG
Statistics
Matches: 553, Mismatches: 28, Indels: 14
0.93 0.05 0.02
Matches are distributed among these distances:
47 278 0.50
49 275 0.50
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.29
Consensus pattern (47 bp):
TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
Found at i:6693926 original size:192 final size:190
Alignment explanation
Indices: 6693536--6694171 Score: 1096
Period size: 192 Copynumber: 3.3 Consensus size: 190
6693526 TACATGATAG
6693536 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCC
1 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCC
*
6693601 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGAT
66 TAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATAGCCGATGTGAT
*
6693666 GAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGTTATGAATGTGAAAGTGTA
129 GAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTG--ATGAATGTGAAAGTGTA
6693730 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCC
1 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCC
6693795 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGA
66 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGA
* *
6693860 ATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATA
131 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TA
* *
6693922 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCC
1 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCC
6693987 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGA
66 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGA
*
6694052 ATGTGAAAGTGTATATATGTGATGAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
131 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
* * * * *
6694112 TATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTATA-A-ATGTGATAAG
1 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAG
6694172 TCCCGAAGGG
Statistics
Matches: 424, Mismatches: 16, Indels: 10
0.94 0.04 0.02
Matches are distributed among these distances:
188 10 0.02
189 1 0.00
190 59 0.14
192 260 0.61
194 94 0.22
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.29
Consensus pattern (190 bp):
TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCC
TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGA
ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
Found at i:6696241 original size:44 final size:44
Alignment explanation
Indices: 6695936--6696218 Score: 449
Period size: 44 Copynumber: 6.4 Consensus size: 44
6695926 GGCGAATCCT
6695936 GCAGATTTGGCATCTCTGTATTGGCGGAGAGCAGATCGAAGATA
1 GCAGATTTGGCATCTCTGTATTGGCGGAGAGCAGATCGAAGATA
* * *
6695980 GCAGATTTTGCATCTCTGTATTGGCAGAGGGCAGATCGAAGATA
1 GCAGATTTGGCATCTCTGTATTGGCGGAGAGCAGATCGAAGATA
* ** *
6696024 GCAAATTTGGTGTCTCTGTATTGGCGAAGAGCAGATCGAAGATA
1 GCAGATTTGGCATCTCTGTATTGGCGGAGAGCAGATCGAAGATA
*
6696068 GCAGATTTGGCATCTCTGTATTGGCGGAGAGCAGGTCGAAGATA
1 GCAGATTTGGCATCTCTGTATTGGCGGAGAGCAGATCGAAGATA
* *
6696112 GCAGATTTGGAATCTCTGTATTGGCGGAGAGCAGATCGAAGATT
1 GCAGATTTGGCATCTCTGTATTGGCGGAGAGCAGATCGAAGATA
* * *
6696156 CCAGATTTGGCGTCTCTGTATTGGCGAAGAGCAGATCGAAGATA
1 GCAGATTTGGCATCTCTGTATTGGCGGAGAGCAGATCGAAGATA
6696200 GCAGATTTGGCATCTCTGT
1 GCAGATTTGGCATCTCTGT
6696219 GTTGACAAAG
Statistics
Matches: 214, Mismatches: 25, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
44 214 1.00
ACGTcount: A:0.27, C:0.16, G:0.31, T:0.27
Consensus pattern (44 bp):
GCAGATTTGGCATCTCTGTATTGGCGGAGAGCAGATCGAAGATA
Found at i:6696744 original size:27 final size:27
Alignment explanation
Indices: 6696714--6696938 Score: 285
Period size: 27 Copynumber: 8.3 Consensus size: 27
6696704 AGGGCAAAAT
* *
6696714 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTTTACCCTACAAGGGTATTTC
* *
6696741 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTTTACCCTACAAGGGTATTTC
* * *
6696768 AGTAATTCTACCATACAAGGGTATTTC
1 GGTAATTTTACCCTACAAGGGTATTTC
*
6696795 AGT-ATTTCTACCCTACAAGGGTATTTC
1 GGTAATTT-TACCCTACAAGGGTATTTC
* * *
6696822 GGTAATTCTACCCTACAGGGGTATTTT
1 GGTAATTTTACCCTACAAGGGTATTTC
* *
6696849 AGTAATTTTACCCTACAGGGGTATTTC
1 GGTAATTTTACCCTACAAGGGTATTTC
6696876 GGT-ATTTCTACCCTACAAGGGTATTTC
1 GGTAATTT-TACCCTACAAGGGTATTTC
6696903 GGT-ATTTCTACCCTACAAGGGTATTTC
1 GGTAATTT-TACCCTACAAGGGTATTTC
6696930 GGTAATTTT
1 GGTAATTTT
6696939 GTAAATCGAG
Statistics
Matches: 176, Mismatches: 18, Indels: 8
0.87 0.09 0.04
Matches are distributed among these distances:
26 7 0.04
27 162 0.92
28 7 0.04
ACGTcount: A:0.25, C:0.20, G:0.19, T:0.36
Consensus pattern (27 bp):
GGTAATTTTACCCTACAAGGGTATTTC
Found at i:6696937 original size:81 final size:81
Alignment explanation
Indices: 6696718--6696938 Score: 345
Period size: 81 Copynumber: 2.7 Consensus size: 81
6696708 CAAAATGGTA
* * *
6696718 ATTT-TACCCCACAAGGGTATCTCGGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCAT
1 ATTTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCAGTAATTTTACCAT
6696782 ACAAGGGTATTTCAGT
66 ACAAGGGTATTTCAGT
* *
6696798 ATTTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTTAGTAATTTTACCCT
1 ATTTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCAGTAATTTTACCAT
* *
6696863 ACAGGGGTATTTCGGT
66 ACAAGGGTATTTCAGT
* * *
6696879 ATTTCTACCCTACAAGGGTATTTCGGTATTTCTACCCTACAAGGGTATTTCGGTAATTTT
1 ATTTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCAGTAATTTT
6696939 GTAAATCGAG
Statistics
Matches: 129, Mismatches: 11, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
80 4 0.03
81 125 0.97
ACGTcount: A:0.25, C:0.21, G:0.18, T:0.36
Consensus pattern (81 bp):
ATTTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCAGTAATTTTACCAT
ACAAGGGTATTTCAGT
Found at i:6696950 original size:27 final size:27
Alignment explanation
Indices: 6696920--6697316 Score: 175
Period size: 27 Copynumber: 14.7 Consensus size: 27
6696910 CTACCCTACA
**
6696920 AGGGTATTTCGGTAATTTTGTAAATCG
1 AGGGTATTTCGGTAATTTTACAAATCG
*** ** *
6696947 AGGGTAAAACGGTAATTCCATAAATC-
1 AGGGTATTTCGGTAATTTTACAAATCG
* *
6696973 AGGGGTACTTT-GGTAATTTTAGAAGTCG
1 A-GGGTA-TTTCGGTAATTTTACAAATCG
** **
6697001 AGGGTATTTCAATAATTTTACAGGTCG
1 AGGGTATTTCGGTAATTTTACAAATCG
* *
6697028 AGGGTATTTCAGTAATTTCACAAATC-
1 AGGGTATTTCGGTAATTTTACAAATCG
* *
6697054 AGGGGTATTTTGGTAATTTTACAAA-CT
1 A-GGGTATTTCGGTAATTTTACAAATCG
* * *
6697081 AGGGGTATTTTGATAATTTTACAAA-CC
1 A-GGGTATTTCGGTAATTTTACAAATCG
* * *
6697108 AGGGGTATTTTGGTAATTTTAC-AAGCC
1 A-GGGTATTTCGGTAATTTTACAAATCG
* * *
6697135 AGGGGTATTTTGGTAATTTTATAAA-CAA
1 A-GGGTATTTCGGTAATTTTACAAATC-G
* ** *
6697163 AGGGTGTTTTAGTAATTTTACAAA-CC
1 AGGGTATTTCGGTAATTTTACAAATCG
* ** * *
6697189 AGGGGTATTTTTGGTAATTTTGTAAACCA
1 A-GGGTA-TTTCGGTAATTTTACAAATCG
* * *
6697218 AGAGTATTTTGGTAATTTTACAAA-CT
1 AGGGTATTTCGGTAATTTTACAAATCG
* * * * * *
6697244 AGGGGTATTTTGGTGATTCTATAAACCA
1 A-GGGTATTTCGGTAATTTTACAAATCG
* ** *
6697272 AAGGTATTTTAGTAATTTTACAAA-CC
1 AGGGTATTTCGGTAATTTTACAAATCG
*
6697298 AGGGGTATTTTGGTAATTT
1 A-GGGTATTTCGGTAATTT
6697317 GGTAAACTAA
Statistics
Matches: 300, Mismatches: 55, Indels: 30
0.78 0.14 0.08
Matches are distributed among these distances:
26 13 0.04
27 260 0.87
28 25 0.08
29 2 0.01
ACGTcount: A:0.31, C:0.09, G:0.22, T:0.38
Consensus pattern (27 bp):
AGGGTATTTCGGTAATTTTACAAATCG
Found at i:6697005 original size:81 final size:81
Alignment explanation
Indices: 6696920--6697105 Score: 194
Period size: 81 Copynumber: 2.3 Consensus size: 81
6696910 CTACCCTACA
** ** * *
6696920 AGGGTATTTCGGTAATTTTGTAAATCGAGGGTAAAACGGTAATTCCATAAATCAGGGGTACTTTG
1 AGGGTATTTCAATAATTTTACAAATCGAGGGTAAAACAGTAATTCCACAAATCAGGGGTACTTTG
6696985 GTAATTTTAGAAGTCG
66 GTAATTTTAGAAGTCG
** *** * *
6697001 AGGGTATTTCAATAATTTTACAGGTCGAGGGTATTTCAGTAATTTCACAAATCAGGGGTATTTTG
1 AGGGTATTTCAATAATTTTACAAATCGAGGGTAAAACAGTAATTCCACAAATCAGGGGTACTTTG
* * *
6697066 GTAATTTTACAA-ACT
66 GTAATTTTAGAAGTCG
**
6697081 AGGGGTATTTTGATAATTTTACAAA
1 A-GGGTATTTCAATAATTTTACAAA
6697106 CCAGGGGTAT
Statistics
Matches: 84, Mismatches: 20, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
80 2 0.02
81 82 0.98
ACGTcount: A:0.32, C:0.10, G:0.23, T:0.36
Consensus pattern (81 bp):
AGGGTATTTCAATAATTTTACAAATCGAGGGTAAAACAGTAATTCCACAAATCAGGGGTACTTTG
GTAATTTTAGAAGTCG
Found at i:6697114 original size:81 final size:81
Alignment explanation
Indices: 6696972--6697316 Score: 372
Period size: 81 Copynumber: 4.2 Consensus size: 81
6696962 TTCCATAAAT
* * * * ** ***
6696972 CAGGGGTACTTTGGTAATTTTA-GAAGTCGAGGGTATTTCAATAATTTTACAGGTC-GAGGGTAT
1 CAGGGGTATTTTGGTAATTTTACAAACTAG-GGGTATTTTGATAATTTTACAAACCAG-GGGTAT
* * *
6697035 TTCAGTAATTTCACAAAT
64 TTTAGTAATTTTACAAAC
6697053 CAGGGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGATAATTTTACAAACCAGGGGTATTT
1 CAGGGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGATAATTTTACAAACCAGGGGTATTT
* *
6697118 TGGTAATTTTACAAGC
66 TAGTAATTTTACAAAC
* * * *
6697134 CAGGGGTATTTTGGTAATTTTATAAACAAAGGGTGTTTT-AGTAATTTTACAAACCAGGGGTATT
1 CAGGGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGA-TAATTTTACAAACCAGGGGTA-T
* **
6697198 TTTGGTAATTTTGTAAAC
64 TTTAGTAATTTTACAAAC
* * * * * * **
6697216 CAAGAGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGGTGATTCTATAAACCAAAGGTATTT
1 CAGGGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGATAATTTTACAAACCAGGGGTATTT
6697281 TAGTAATTTTACAAAC
66 TAGTAATTTTACAAAC
6697297 CAGGGGTATTTTGGTAATTT
1 CAGGGGTATTTTGGTAATTT
6697317 GGTAAACTAA
Statistics
Matches: 221, Mismatches: 38, Indels: 10
0.82 0.14 0.04
Matches are distributed among these distances:
80 1 0.00
81 150 0.68
82 70 0.32
ACGTcount: A:0.30, C:0.09, G:0.22, T:0.39
Consensus pattern (81 bp):
CAGGGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGATAATTTTACAAACCAGGGGTATTT
TAGTAATTTTACAAAC
Found at i:6697248 original size:109 final size:109
Alignment explanation
Indices: 6697056--6697332 Score: 398
Period size: 109 Copynumber: 2.6 Consensus size: 109
6697046 CACAAATCAG
* * * ** * *
6697056 GGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGATAATTTTACAAACCAGGGGTATTTTGG
1 GGGTATTTTAGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTGTAAACCAAGAGTATTTTGG
* *
6697121 TAATTTTACAAGCCAGGGGTATTTTGGTAATTTTATAAA-CAAA
66 TAATTTTACAAACCAGGGGTATTTTGGTAATTCTATAAACCAAA
*
6697164 GGGTGTTTTAGTAATTTTACAAACCAGGGGTATTTTTGGTAATTTTGTAAACCAAGAGTATTTTG
1 GGGTATTTTAGTAATTTTACAAACCAGGGGTA-TTTTGGTAATTTTGTAAACCAAGAGTATTTTG
* *
6697229 GTAATTTTACAAACTAGGGGTATTTTGGTGATTCTATAAACCAAA
65 GTAATTTTACAAACCAGGGGTATTTTGGTAATTCTATAAACCAAA
* *
6697274 -GGTATTTTAGTAATTTTACAAACCAGGGGTATTTTGGTAATTTGGTAAACTAA-AGTATT
1 GGGTATTTTAGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTGTAAACCAAGAGTATT
6697333 CTAAACAGGA
Statistics
Matches: 152, Mismatches: 15, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
107 6 0.04
108 49 0.32
109 93 0.61
110 4 0.03
ACGTcount: A:0.31, C:0.08, G:0.21, T:0.39
Consensus pattern (109 bp):
GGGTATTTTAGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTGTAAACCAAGAGTATTTTGG
TAATTTTACAAACCAGGGGTATTTTGGTAATTCTATAAACCAAA
Found at i:6697323 original size:27 final size:27
Alignment explanation
Indices: 6697029--6697316 Score: 360
Period size: 27 Copynumber: 10.6 Consensus size: 27
6697019 TACAGGTCGA
** * *
6697029 GGGTATTTCAGTAATTTCACAAATCAG
1 GGGTATTTTGGTAATTTTACAAACCAG
*
6697056 GGGTATTTTGGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTACAAACCAG
*
6697083 GGGTATTTTGATAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTACAAACCAG
*
6697110 GGGTATTTTGGTAATTTTACAAGCCAG
1 GGGTATTTTGGTAATTTTACAAACCAG
* * *
6697137 GGGTATTTTGGTAATTTTATAAACAAA
1 GGGTATTTTGGTAATTTTACAAACCAG
* *
6697164 GGGTGTTTTAGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTACAAACCAG
** *
6697191 GGGTATTTTTGGTAATTTTGTAAACCAA
1 GGGTA-TTTTGGTAATTTTACAAACCAG
* *
6697219 GAGTATTTTGGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTACAAACCAG
* * * *
6697246 GGGTATTTTGGTGATTCTATAAACCAA
1 GGGTATTTTGGTAATTTTACAAACCAG
* *
6697273 AGGTATTTTAGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTACAAACCAG
6697300 GGGTATTTTGGTAATTT
1 GGGTATTTTGGTAATTT
6697317 GGTAAACTAA
Statistics
Matches: 218, Mismatches: 42, Indels: 2
0.83 0.16 0.01
Matches are distributed among these distances:
27 196 0.90
28 22 0.10
ACGTcount: A:0.31, C:0.09, G:0.21, T:0.39
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTACAAACCAG
Found at i:6697950 original size:35 final size:36
Alignment explanation
Indices: 6697894--6698019 Score: 184
Period size: 35 Copynumber: 3.5 Consensus size: 36
6697884 AATCATATCT
6697894 TCTAAGATTGCATATCATATCTAAGATTGCAATCATA
1 TCTAAGATTGC-TATCATATCTAAGATTGCAATCATA
6697931 TCTAAGATTG-TATCATATCTAAGATTGCATATCATA
1 TCTAAGATTGCTATCATATCTAAGATTGCA-ATCATA
* * *
6697967 TCTATGATTGCAATCATATCTAAGATTG-TATCATA
1 TCTAAGATTGCTATCATATCTAAGATTGCAATCATA
6698002 TCTAAGATTGCATATCAT
1 TCTAAGATTGC-TATCAT
6698020 TGAAGATTAT
Statistics
Matches: 81, Mismatches: 5, Indels: 7
0.87 0.05 0.08
Matches are distributed among these distances:
35 35 0.43
36 20 0.25
37 26 0.32
ACGTcount: A:0.36, C:0.15, G:0.11, T:0.38
Consensus pattern (36 bp):
TCTAAGATTGCTATCATATCTAAGATTGCAATCATA
Found at i:6697960 original size:54 final size:54
Alignment explanation
Indices: 6697894--6698019 Score: 243
Period size: 54 Copynumber: 2.3 Consensus size: 54
6697884 AATCATATCT
6697894 TCTAAGATTGCATATCATATCTAAGATTGCAATCATATCTAAGATTGTATCATA
1 TCTAAGATTGCATATCATATCTAAGATTGCAATCATATCTAAGATTGTATCATA
*
6697948 TCTAAGATTGCATATCATATCTATGATTGCAATCATATCTAAGATTGTATCATA
1 TCTAAGATTGCATATCATATCTAAGATTGCAATCATATCTAAGATTGTATCATA
6698002 TCTAAGATTGCATATCAT
1 TCTAAGATTGCATATCAT
6698020 TGAAGATTAT
Statistics
Matches: 71, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
54 71 1.00
ACGTcount: A:0.36, C:0.15, G:0.11, T:0.38
Consensus pattern (54 bp):
TCTAAGATTGCATATCATATCTAAGATTGCAATCATATCTAAGATTGTATCATA
Found at i:6697963 original size:14 final size:15
Alignment explanation
Indices: 6697908--6698017 Score: 78
Period size: 17 Copynumber: 6.5 Consensus size: 15
6697898 AGATTGCATA
6697908 TCATATCTAAGATTG
1 TCATATCTAAGATTG
6697923 CAATCATATCTAAGATTG
1 ---TCATATCTAAGATTG
6697941 TATCATATCTAAGATTG
1 --TCATATCTAAGATTG
*
6697958 CATATCATATCTATGATTG
1 ----TCATATCTAAGATTG
6697977 CAATCATATCTAAGATTG
1 ---TCATATCTAAGATTG
6697995 TATCATATCTAAGATTG
1 --TCATATCTAAGATTG
6698012 -CATATC
1 TCATATC
6698018 ATTGAAGATT
Statistics
Matches: 84, Mismatches: 6, Indels: 8
0.86 0.06 0.08
Matches are distributed among these distances:
14 6 0.07
17 32 0.38
18 30 0.36
19 16 0.19
ACGTcount: A:0.35, C:0.15, G:0.11, T:0.38
Consensus pattern (15 bp):
TCATATCTAAGATTG
Found at i:6698027 original size:17 final size:19
Alignment explanation
Indices: 6697894--6698019 Score: 201
Period size: 19 Copynumber: 6.9 Consensus size: 19
6697884 AATCATATCT
6697894 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
6697913 TCTAAGATTGCA-ATCATA
1 TCTAAGATTGCATATCATA
6697931 TCTAAGATTG--TATCATA
1 TCTAAGATTGCATATCATA
6697948 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
*
6697967 TCTATGATTGCA-ATCATA
1 TCTAAGATTGCATATCATA
6697985 TCTAAGATTG--TATCATA
1 TCTAAGATTGCATATCATA
6698002 TCTAAGATTGCATATCAT
1 TCTAAGATTGCATATCAT
6698020 TGAAGATTAT
Statistics
Matches: 99, Mismatches: 2, Indels: 12
0.88 0.02 0.11
Matches are distributed among these distances:
17 32 0.32
18 31 0.31
19 36 0.36
ACGTcount: A:0.36, C:0.15, G:0.11, T:0.38
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:6700000 original size:30 final size:33
Alignment explanation
Indices: 6699964--6700042 Score: 103
Period size: 30 Copynumber: 2.5 Consensus size: 33
6699954 TAATTTACAA
*
6699964 ATAAAAATAT-ATGATAATGTA-A-ATTATAAT
1 ATAAAAATATAATGATAATGTATATAATATAAT
6699994 ATAAAAATATAAT-ATAATGTATATAATATAAT
1 ATAAAAATATAATGATAATGTATATAATATAAT
*
6700026 ATAAAAAATATCATGAT
1 AT-AAAAATATAATGAT
6700043 GTCTAGTAAA
Statistics
Matches: 42, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
30 18 0.43
31 3 0.07
32 9 0.21
33 10 0.24
34 2 0.05
ACGTcount: A:0.58, C:0.01, G:0.05, T:0.35
Consensus pattern (33 bp):
ATAAAAATATAATGATAATGTATATAATATAAT
Found at i:6700007 original size:5 final size:5
Alignment explanation
Indices: 6699988--6700029 Score: 54
Period size: 5 Copynumber: 9.0 Consensus size: 5
6699978 TAATGTAAAT
*
6699988 TATAA TATAA -A-AA TATAA TATAA TGT-A TATAA TATAA TATAA
1 TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA
6700030 AAAATATCAT
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
3 2 0.06
4 5 0.16
5 25 0.78
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (5 bp):
TATAA
Found at i:6700029 original size:32 final size:30
Alignment explanation
Indices: 6699964--6700061 Score: 99
Period size: 30 Copynumber: 3.1 Consensus size: 30
6699954 TAATTTACAA
*
6699964 ATAAAAATATATGATAATGTAAATTATAAT
1 ATAAAAATATATGATAATGTAAAATATAAT
6699994 ATAAAAATATAAT-ATAATGTATATAATATAAT
1 ATAAAAATAT-ATGATAATGTA-A-AATATAAT
**
6700026 ATAAAAAATATCATGATGTCTAGTAAAATATAAT
1 AT-AAAAATAT-ATGAT-AAT-GTAAAATATAAT
6700060 AT
1 AT
6700062 GTAATAAATA
Statistics
Matches: 57, Mismatches: 4, Indels: 10
0.80 0.06 0.14
Matches are distributed among these distances:
30 18 0.32
31 3 0.05
32 9 0.16
33 10 0.18
34 12 0.21
35 2 0.04
36 3 0.05
ACGTcount: A:0.56, C:0.02, G:0.06, T:0.36
Consensus pattern (30 bp):
ATAAAAATATATGATAATGTAAAATATAAT
Found at i:6704132 original size:130 final size:130
Alignment explanation
Indices: 6703898--6704136 Score: 327
Period size: 130 Copynumber: 1.8 Consensus size: 130
6703888 AAAATACTTA
*
6703898 AAAATGAAGACGATGTTCAATGTTTGGCGATTTGAGAATCGTGCCCTATCGTGCTGGGTTGCGCT
1 AAAATGAAGACGATGTTCAATGTTTGGCGATTTGAGAATCGAGCCCTATCGTGCTGGGTTGCGCT
* * * * **
6703963 TTTTCATTGGTTCGAAACAATTGAACATCCCTTTGGAATTTCACTCACATTTTCTAAAATCTTTC
66 TTTTCATTGCTCCAAAACAATCGAACATCCCTTCAGAATTTCACTCACATTTTCTAAAATCTTTC
** * *
6704028 AAAATGAAGGTGATGTTCGATGTTTGGCGATTTGAGAATCGAGCCCTATCGTGTTGGGTTGCGCT
1 AAAATGAAGACGATGTTCAATGTTTGGCGATTTGAGAATCGAGCCCTATCGTGCTGGGTTGCGCT
* ** *
6704093 TTTTCATTTCTCCAAAATGATCGAATATCTCC-TCAGAATTTCAC
66 TTTTCATTGCTCCAAAACAATCGAACATC-CCTTCAGAATTTCAC
6704137 ACGTATTTTA
Statistics
Matches: 93, Mismatches: 15, Indels: 2
0.85 0.14 0.02
Matches are distributed among these distances:
130 91 0.98
131 2 0.02
ACGTcount: A:0.25, C:0.19, G:0.21, T:0.36
Consensus pattern (130 bp):
AAAATGAAGACGATGTTCAATGTTTGGCGATTTGAGAATCGAGCCCTATCGTGCTGGGTTGCGCT
TTTTCATTGCTCCAAAACAATCGAACATCCCTTCAGAATTTCACTCACATTTTCTAAAATCTTTC
Found at i:6705501 original size:23 final size:25
Alignment explanation
Indices: 6705457--6705503 Score: 62
Period size: 23 Copynumber: 2.0 Consensus size: 25
6705447 TATATTATTA
*
6705457 GGGGGTTATATATAATATATATAAG
1 GGGGGTTATATATAATACATATAAG
*
6705482 GGGGGTTGTA-AT-ATACATATAA
1 GGGGGTTATATATAATACATATAA
6705504 ATGTGTTTCC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 9 0.45
24 2 0.10
25 9 0.45
ACGTcount: A:0.38, C:0.02, G:0.26, T:0.34
Consensus pattern (25 bp):
GGGGGTTATATATAATACATATAAG
Found at i:6706686 original size:23 final size:23
Alignment explanation
Indices: 6706643--6706687 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
6706633 CACAGGCTGG
* *
6706643 CACATGGGCGTGTGGCTAGCCCT
1 CACACGGGCGTCTGGCTAGCCCT
6706666 CACACGGGCGTCT-GCTCAGCCC
1 CACACGGGCGTCTGGCT-AGCCC
6706688 GTGGGAATGG
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 3 0.16
23 16 0.84
ACGTcount: A:0.13, C:0.38, G:0.31, T:0.18
Consensus pattern (23 bp):
CACACGGGCGTCTGGCTAGCCCT
Found at i:6708522 original size:18 final size:19
Alignment explanation
Indices: 6708499--6708544 Score: 67
Period size: 19 Copynumber: 2.5 Consensus size: 19
6708489 GTCTAGGAAA
6708499 AAAAATAAACAG-AAAAAT
1 AAAAATAAACAGTAAAAAT
**
6708517 AAAAATAATTAGTAAAAAT
1 AAAAATAAACAGTAAAAAT
6708536 AAAAATAAA
1 AAAAATAAA
6708545 AATAAATGGA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
18 10 0.42
19 14 0.58
ACGTcount: A:0.76, C:0.02, G:0.04, T:0.17
Consensus pattern (19 bp):
AAAAATAAACAGTAAAAAT
Found at i:6708539 original size:5 final size:6
Alignment explanation
Indices: 6708499--6708550 Score: 59
Period size: 6 Copynumber: 8.5 Consensus size: 6
6708489 GTCTAGGAAA
* * * *
6708499 AAAAAT AAACAG AAAAAT AAAAAT AATTAGT AAAAAT AAAAAT AAAAAT
1 AAAAAT AAAAAT AAAAAT AAAAAT AA-AAAT AAAAAT AAAAAT AAAAAT
6708548 AAA
1 AAA
6708551 TGGACTCAAT
Statistics
Matches: 37, Mismatches: 8, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
6 33 0.89
7 4 0.11
ACGTcount: A:0.77, C:0.02, G:0.04, T:0.17
Consensus pattern (6 bp):
AAAAAT
Found at i:6711118 original size:30 final size:30
Alignment explanation
Indices: 6711082--6711142 Score: 95
Period size: 30 Copynumber: 2.0 Consensus size: 30
6711072 AAAGGGCTAG
* *
6711082 CACATGGGCGTGTGGCCTGCCCATGTGGAT
1 CACATGGGCGTGTGCCCAGCCCATGTGGAT
*
6711112 CACATGGGCGTGTGCCCAGGCCATGTGGAT
1 CACATGGGCGTGTGCCCAGCCCATGTGGAT
6711142 C
1 C
6711143 CTAAAAAGTC
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.15, C:0.28, G:0.36, T:0.21
Consensus pattern (30 bp):
CACATGGGCGTGTGCCCAGCCCATGTGGAT
Found at i:6713106 original size:19 final size:18
Alignment explanation
Indices: 6713075--6713130 Score: 51
Period size: 19 Copynumber: 2.8 Consensus size: 18
6713065 GTAAATTTTA
6713075 AAAT-TTTACATAATATACT
1 AAATATTTA-ATAATATA-T
6713094 AAATATTTAATAATGATAT
1 AAATATTTAATAAT-ATAT
6713113 ATATATTATTTAATAATA
1 A-A-A-TATTTAATAATA
6713131 GTTTACAAAT
Statistics
Matches: 32, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
19 11 0.34
20 8 0.25
21 2 0.06
22 11 0.34
ACGTcount: A:0.50, C:0.04, G:0.02, T:0.45
Consensus pattern (18 bp):
AAATATTTAATAATATAT
Found at i:6713163 original size:3 final size:3
Alignment explanation
Indices: 6713155--6713285 Score: 70
Period size: 3 Copynumber: 45.0 Consensus size: 3
6713145 AAAATTATAC
6713155 ATA ATA ATAA ATA ATA ATA AT- ATA AT- ATA AT- ATA AT- ATA AT-
1 ATA ATA AT-A ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * *
6713196 ATA AAA ATA AT- ATA ATGA ATA AT- ATA TTTA GTA A-A ATG AT- ATA
1 ATA ATA ATA ATA ATA AT-A ATA ATA ATA -ATA ATA ATA ATA ATA ATA
6713239 AT- ATA ATA A-A ATA TATAA ATA A-A ATA TATA ATGA ATTA ATA ATA
1 ATA ATA ATA ATA ATA -AT-A ATA ATA ATA -ATA AT-A A-TA ATA ATA
6713283 ATA
1 ATA
6713286 TGATAAATAA
Statistics
Matches: 102, Mismatches: 6, Indels: 40
0.69 0.04 0.27
Matches are distributed among these distances:
2 24 0.24
3 57 0.56
4 19 0.19
5 2 0.02
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.35
Consensus pattern (3 bp):
ATA
Found at i:6713170 original size:10 final size:10
Alignment explanation
Indices: 6713155--6713285 Score: 62
Period size: 10 Copynumber: 12.9 Consensus size: 10
6713145 AAAATTATAC
6713155 ATAATAATAA
1 ATAATAATAA
6713165 ATAATAATAA
1 ATAATAATAA
6713175 TATAAT-ATAA
1 -ATAATAATAA
6713185 TATAAT-ATAA
1 -ATAATAATAA
*
6713195 TATAAAAATAA
1 -ATAATAATAA
6713206 TATAATGAATAA
1 -ATAAT-AATAA
* *
6713218 TATATTTAGT-A
1 -ATA-ATAATAA
*
6713229 A-AATGATATA
1 ATAATAATA-A
6713239 AT-ATAAT-A
1 ATAATAATAA
6713247 A-AATATATAA
1 ATAATA-ATAA
*
6713257 ATAA-AATAT
1 ATAATAATAA
*
6713266 ATAATGAATTA
1 ATAAT-AATAA
6713277 ATAATAATA
1 ATAATAATA
6713286 TGATAAATAA
Statistics
Matches: 96, Mismatches: 12, Indels: 26
0.72 0.09 0.19
Matches are distributed among these distances:
8 7 0.07
9 10 0.10
10 42 0.44
11 25 0.26
12 11 0.11
13 1 0.01
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.35
Consensus pattern (10 bp):
ATAATAATAA
Found at i:6713181 original size:5 final size:5
Alignment explanation
Indices: 6713155--6713266 Score: 86
Period size: 5 Copynumber: 21.6 Consensus size: 5
6713145 AAAATTATAC
*
6713155 ATAAT AATAA- ATAAT AATAAT ATAAT ATAAT ATAAT ATAAT ATAAAA
1 ATAAT -ATAAT ATAAT -ATAAT ATAAT ATAAT ATAAT ATAAT AT-AAT
* * * *
6713202 ATAAT ATAAT GAATAAT ATATTT AGTAAA ATGAT ATAAT ATAAT AAAAT
1 ATAAT ATAAT --ATAAT ATA-AT A-TAAT ATAAT ATAAT ATAAT ATAAT
*
6713251 AT-AT A-AAT AAAAT ATA
1 ATAAT ATAAT ATAAT ATA
6713267 TAATGAATTA
Statistics
Matches: 86, Mismatches: 11, Indels: 19
0.74 0.09 0.16
Matches are distributed among these distances:
4 10 0.12
5 53 0.62
6 16 0.19
7 7 0.08
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.35
Consensus pattern (5 bp):
ATAAT
Found at i:6713184 original size:26 final size:26
Alignment explanation
Indices: 6713155--6713328 Score: 90
Period size: 26 Copynumber: 6.5 Consensus size: 26
6713145 AAAATTATAC
6713155 ATAATAATAAATAATAATAATATAAT
1 ATAATAATAAATAATAATAATATAAT
*
6713181 ATAAT-ATAATATAAT-ATAAAAATAAT
1 ATAATAATAA-ATAATAAT-AATATAAT
* * * *
6713207 ATAATGAATAATATATTTAGTAAAATGAT
1 ATAAT-AATAA-ATA-ATAATAATATAAT
* *
6713236 ATAAT-ATAATAAAATATATAA-ATAAA
1 ATAATAATAA-ATAATA-ATAATATAAT
* *
6713262 ATATATAATGAATTAATAATAATATGAT
1 ATA-ATAAT-AAATAATAATAATATAAT
** *
6713290 A-AATAATGCATAAGTAAAAATA-ACAT
1 ATAATAATAAATAA-TAATAATATA-AT
6713316 ATATATAATAAAT
1 ATA-ATAATAAAT
6713329 TATTTATATG
Statistics
Matches: 113, Mismatches: 20, Indels: 28
0.70 0.12 0.17
Matches are distributed among these distances:
25 9 0.08
26 45 0.40
27 18 0.16
28 25 0.22
29 15 0.13
30 1 0.01
ACGTcount: A:0.61, C:0.01, G:0.04, T:0.34
Consensus pattern (26 bp):
ATAATAATAAATAATAATAATATAAT
Found at i:6713247 original size:30 final size:28
Alignment explanation
Indices: 6713165--6713270 Score: 72
Period size: 31 Copynumber: 3.5 Consensus size: 28
6713155 ATAATAATAA
*
6713165 ATAATAATAATATAATATAAT-ATAATATAAT
1 ATAA-AAT-ATATAATATAATAAT-ATAT-TT
*
6713196 ATAAAAATAATATAAT-GAATAATATATTT
1 AT-AAAAT-ATATAATATAATAATATATTT
**
6713225 AGTAAAATGATATAATATAATAAAATATATAA
1 A-TAAAAT-ATATAATATAAT--AATATATTT
6713257 ATAAAATATATAAT
1 ATAAAATATATAAT
6713271 GAATTAATAA
Statistics
Matches: 63, Mismatches: 6, Indels: 13
0.77 0.07 0.16
Matches are distributed among these distances:
29 14 0.22
30 18 0.29
31 21 0.33
32 10 0.16
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.36
Consensus pattern (28 bp):
ATAAAATATATAATATAATAATATATTT
Found at i:6714913 original size:90 final size:90
Alignment explanation
Indices: 6714797--6715273 Score: 623
Period size: 90 Copynumber: 5.4 Consensus size: 90
6714787 TAATAACCTT
* * *
6714797 GATCTGCTCCCCGTCAAATACAGAGACGCCAAATCTG-CTATCTTCGATTTGCTTTGATGTAAAC
1 GATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGTC-ATCTTCGATCTGCTTCGATGTAAAC
*
6714861 ATACGAATGTCAGATCTGCTATCTTC
65 ACACGAATGTCAGATCTGCTATCTTC
* * * * * *
6714887 GATCTACTTCCCGTCTAATACAGAGACGCCAAATCTGTCATTTTCAATCTACTTTGATGT---CA
1 GATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGTCATCTTCGATCTGCTTCGATGTAAACA
6714949 -AC--A--T-AGATCTGCTATCTTC
66 CACGAATGTCAGATCTGCTATCTTC
* * *
6714968 GATCTGCTCCCCGTCTAATACGGAGATGCCAAATCTGTCATCTTCAATCTGCTTCGATGTAAACA
1 GATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGTCATCTTCGATCTGCTTCGATGTAAACA
6715033 CACGAATGTCAGATCTGCTATCTTC
66 CACGAATGTCAGATCTGCTATCTTC
**
6715058 GATCTGCTCCCCGTCTAATAGGGAGACGCCAAATCTGTCATCTTCGATCTGCTTCGATGTAAACA
1 GATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGTCATCTTCGATCTGCTTCGATGTAAACA
* *
6715123 CACGAATGTCAGATCTACTATCTTT
66 CACGAATGTCAGATCTGCTATCTTC
* ** * *
6715148 GATCTGCTCCCCATCTAATATGGAGACGCCAAATCTGTCATATTCGATCTGATTCGATGTAAACA
1 GATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGTCATCTTCGATCTGCTTCGATGTAAACA
* * *
6715213 CATGAATATCAGATCTTCTATCTTC
66 CACGAATGTCAGATCTGCTATCTTC
* * *
6715238 GATCTACTCCCCGCCTAATACAGAGATGCCAAATCT
1 GATCTGCTCCCCGTCTAATACAGAGACGCCAAATCT
6715274 ACTTCTTCGA
Statistics
Matches: 344, Mismatches: 33, Indels: 20
0.87 0.08 0.05
Matches are distributed among these distances:
81 68 0.20
82 1 0.00
84 3 0.01
85 2 0.01
86 2 0.01
87 3 0.01
89 1 0.00
90 263 0.76
91 1 0.00
ACGTcount: A:0.27, C:0.27, G:0.16, T:0.31
Consensus pattern (90 bp):
GATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGTCATCTTCGATCTGCTTCGATGTAAACA
CACGAATGTCAGATCTGCTATCTTC
Found at i:6714923 original size:45 final size:45
Alignment explanation
Indices: 6714797--6715323 Score: 210
Period size: 45 Copynumber: 12.0 Consensus size: 45
6714787 TAATAACCTT
* * *
6714797 GATCTGCTCCCCGTCAAATACAGAGACGCCAAATCTGCTATCTTC
1 GATCTGCTTCCCGTCTAATACAGAGATGCCAAATCTGCTATCTTC
* * * * * *
6714842 GATTTGCTT--TGATGTAA-ACATACGAATGTCAGATCTGCTATCTTC
1 GATCTGCTTCCCG-TCTAATACAGA-G-ATGCCAAATCTGCTATCTTC
* * *
6714887 GATCTACTTCCCGTCTAATACAGAGACGCCAAATCTG-TCATTTTC
1 GATCTGCTTCCCGTCTAATACAGAGATGCCAAATCTGCT-ATCTTC
* * * * * * *
6714932 AATCTACTT--TG-AT-GT-CA-ACAT---AGATCTGCTATCTTC
1 GATCTGCTTCCCGTCTAATACAGAGATGCCAAATCTGCTATCTTC
* *
6714968 GATCTGCTCCCCGTCTAATACGGAGATGCCAAATCTG-TCATCTTC
1 GATCTGCTTCCCGTCTAATACAGAGATGCCAAATCTGCT-ATCTTC
* * * * *
6715013 AATCTGCTT--CGATGTAA-ACACACGAATGTCAGATCTGCTATCTTC
1 GATCTGCTTCCCG-TCTAATACAGA-G-ATGCCAAATCTGCTATCTTC
* ** *
6715058 GATCTGCTCCCCGTCTAATAGGGAGACGCCAAATCTG-TCATCTTC
1 GATCTGCTTCCCGTCTAATACAGAGATGCCAAATCTGCT-ATCTTC
* * * * * *
6715103 GATCTGCTT--CGATGTAA-ACACACGAATGTCAGATCTACTATCTTT
1 GATCTGCTTCCCG-TCTAATACAGA-G-ATGCCAAATCTGCTATCTTC
* * ** * *
6715148 GATCTGCTCCCCATCTAATATGGAGACGCCAAATCTG-TCATATTC
1 GATCTGCTTCCCGTCTAATACAGAGATGCCAAATCTGCT-ATCTTC
* * * ** * *
6715193 GATCTGATT--CGATGTAA-ACACATGAATATCAGATCTTCTATCTTC
1 GATCTGCTTCCCG-TCTAATACAGA-G-ATGCCAAATCTGCTATCTTC
* * * *
6715238 GATCTACTCCCCGCCTAATACAGAGATGCCAAATCTACT-TCTTC
1 GATCTGCTTCCCGTCTAATACAGAGATGCCAAATCTGCTATCTTC
* *
6715282 GATTTG-TTCCCTGTC-AATATAGAGATGCCAAATCTGCTATCT
1 GATCTGCTTCCC-GTCTAATACAGAGATGCCAAATCTGCTATCT
6715324 ACATTGTCCC
Statistics
Matches: 337, Mismatches: 102, Indels: 87
0.64 0.19 0.17
Matches are distributed among these distances:
36 17 0.05
37 1 0.00
38 1 0.00
39 3 0.01
40 3 0.01
41 2 0.01
42 4 0.01
43 43 0.13
44 37 0.11
45 186 0.55
46 22 0.07
47 18 0.05
ACGTcount: A:0.27, C:0.26, G:0.15, T:0.31
Consensus pattern (45 bp):
GATCTGCTTCCCGTCTAATACAGAGATGCCAAATCTGCTATCTTC
Found at i:6715086 original size:171 final size:176
Alignment explanation
Indices: 6714797--6715273 Score: 633
Period size: 171 Copynumber: 2.7 Consensus size: 176
6714787 TAATAACCTT
* * * *
6714797 GATCTGCTCCCCGTCAAATACAGAGACGCCAAATCTG-CTATCTTCGATTTGCTTTGATGTAAAC
1 GATCTGCTCCCCGTCTAATACGGAGACGCCAAATCTGTC-ATCTTCGATCTGCTTCGATGTAAAC
* *
6714861 ATACGAATGTCAGATCTGCTATCTTCGATCTACTTCCCGTCTAATACAGAGACGCCAAATCTGTC
65 ACACGAATGTCAGATCTGCTATCTTCGATCTACTCCCCGTCTAATACAGAGACGCCAAATCTGTC
* * *
6714926 ATTTTCAATCTACTTTGATGT-CA-AC-A-T-AGATCTGCTATCTTC
130 ATCTTCAATCTACTTCGATGTACACACAAGTCAGATCTACTATCTTC
* *
6714968 GATCTGCTCCCCGTCTAATACGGAGATGCCAAATCTGTCATCTTCAATCTGCTTCGATGTAAACA
1 GATCTGCTCCCCGTCTAATACGGAGACGCCAAATCTGTCATCTTCGATCTGCTTCGATGTAAACA
* **
6715033 CACGAATGTCAGATCTGCTATCTTCGATCTGCTCCCCGTCTAATAGGGAGACGCCAAATCTGTCA
66 CACGAATGTCAGATCTGCTATCTTCGATCTACTCCCCGTCTAATACAGAGACGCCAAATCTGTCA
* * *
6715098 TCTTCGATCTGCTTCGATGTAAACACACGAATGTCAGATCTACTATCTTT
131 TCTTCAATCTACTTCGATGT--ACACAC-AA-GTCAGATCTACTATCTTC
* * * *
6715148 GATCTGCTCCCCATCTAATATGGAGACGCCAAATCTGTCATATTCGATCTGATTCGATGTAAACA
1 GATCTGCTCCCCGTCTAATACGGAGACGCCAAATCTGTCATCTTCGATCTGCTTCGATGTAAACA
* * * * *
6715213 CATGAATATCAGATCTTCTATCTTCGATCTACTCCCCGCCTAATACAGAGATGCCAAATCT
66 CACGAATGTCAGATCTGCTATCTTCGATCTACTCCCCGTCTAATACAGAGACGCCAAATCT
6715274 ACTTCTTCGA
Statistics
Matches: 265, Mismatches: 31, Indels: 11
0.86 0.10 0.04
Matches are distributed among these distances:
171 133 0.50
172 1 0.00
174 2 0.01
175 2 0.01
177 1 0.00
179 1 0.00
180 125 0.47
ACGTcount: A:0.27, C:0.27, G:0.16, T:0.31
Consensus pattern (176 bp):
GATCTGCTCCCCGTCTAATACGGAGACGCCAAATCTGTCATCTTCGATCTGCTTCGATGTAAACA
CACGAATGTCAGATCTGCTATCTTCGATCTACTCCCCGTCTAATACAGAGACGCCAAATCTGTCA
TCTTCAATCTACTTCGATGTACACACAAGTCAGATCTACTATCTTC
Found at i:6715284 original size:44 final size:43
Alignment explanation
Indices: 6715233--6715316 Score: 105
Period size: 43 Copynumber: 1.9 Consensus size: 43
6715223 AGATCTTCTA
6715233 TCTTCGATCTACTCCCCGCCTAATACAGAGATGCCAAATCTACT
1 TCTTCGATCTACTCCCCGCC-AATACAGAGATGCCAAATCTACT
* ** * * *
6715277 TCTTCGATTTGTTCCCTGTCAATATAGAGATGCCAAATCT
1 TCTTCGATCTACTCCCCGCCAATACAGAGATGCCAAATCT
6715317 GCTATCTACA
Statistics
Matches: 34, Mismatches: 6, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
43 19 0.56
44 15 0.44
ACGTcount: A:0.26, C:0.29, G:0.13, T:0.32
Consensus pattern (43 bp):
TCTTCGATCTACTCCCCGCCAATACAGAGATGCCAAATCTACT
Done.