Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008029.1 Hibiscus syriacus cultivar Beakdansim tig00110505_pilon, whole genome shotgun sequence
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: 3983240
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 13 of 18
Found at i:2506337 original size:22 final size:22
Alignment explanation
Indices: 2506312--2506354 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
2506302 AATTTATTAG
2506312 TATGGATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAAA
2506334 TATGGATTGATTTATTTTAAA
1 TATGGATTGATTTATTTTAAA
2506355 TAATTTATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.35, C:0.00, G:0.14, T:0.51
Consensus pattern (22 bp):
TATGGATTGATTTATTTTAAAA
Found at i:2506395 original size:22 final size:22
Alignment explanation
Indices: 2506370--2506462 Score: 87
Period size: 22 Copynumber: 3.8 Consensus size: 22
2506360 TATTAGTATG
2506370 GATTGATTTATTTTAAAATATA
1 GATTGATTTATTTTAAAATATA
2506392 GATTGATTTATTTTAAATAATTTATTA
1 GATTGATTTATTTT-AA-AA--TA-TA
*
2506419 GTATGGATTGATTTATTTTAAAATATA
1 G-ATTGA-T---TTATTTTAAAATATA
2506446 GATTGATTTATTTTAAA
1 GATTGATTTATTTTAAA
2506463 TAATTTATTA
Statistics
Matches: 59, Mismatches: 2, Indels: 20
0.73 0.02 0.25
Matches are distributed among these distances:
22 24 0.41
23 2 0.03
24 2 0.03
25 1 0.02
26 6 0.10
27 6 0.10
28 6 0.10
29 1 0.02
30 2 0.03
31 2 0.03
32 7 0.12
ACGTcount: A:0.38, C:0.00, G:0.11, T:0.52
Consensus pattern (22 bp):
GATTGATTTATTTTAAAATATA
Found at i:2506538 original size:80 final size:78
Alignment explanation
Indices: 2506237--2506941 Score: 578
Period size: 80 Copynumber: 8.8 Consensus size: 78
2506227 ATAAAATATG
* *
2506237 GATTGATTTATTTTAAAATA---ATTTATTTTAAATAATT-TATTAGTATGGATTGATTTATTTT
1 GATTGATTTATTTTAAAATATGGATTGA-TTT--ATTATTGTATT-GTATGGATTGATTTATTTT
2506298 AAATAATTTATTAGTAT
62 AAATAATTTATTAGTAT
*
2506315 GGATTGATTTATTTTAAAATATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTA
1 -GATTGATTTATTTTAAAATATGGATTGATTTA--TT--AT--TGTATT-GTATGGATTGATTTA
2506380 TTTT-AA-AA--TA-TAG-ATT
58 TTTTAAATAATTTATTAGTA-T
* * * *** *
2506396 GATTTATTTTAAATAATTTATTAGTATGGATTGATTTA-T-TT-TAAAATATAGATTGATTTATT
1 GATTGA-TTT--AT--TTTA-AAATATGGATTGATTTATTATTGTATTGTATGGATTGATTTATT
2506458 TTAAATAATTTATTAGTAAT
60 TTAAATAATTTATTAGT-AT
*
2506478 GATTGATTTATTTTAAAATATGGATTGATTTATTATTGTAGTTGTATAGATTGATTTATTTTAAA
1 GATTGATTTATTTTAAAATATGGATTGATTTATTATTGTA-TTGTATGGATTGATTTATTTTAAA
*
2506543 TAATTTAATAGTAT
65 TAATTTATTAGTAT
* * *
2506557 GAGTAGATTTATTTTAAAATATGAATTGATTTATTATTGTAGTTGTATGTATTGATTTATTTTAA
1 GA-TTGATTTATTTTAAAATATGGATTGATTTATTATTGTA-TTGTATGGATTGATTTATTTTAA
2506622 ATAATTTATTAGTAT
64 ATAATTTATTAGTAT
* * *** *
2506637 AGATTGATTTA-TTTAATAAT-T-TATT-A-GTATGTATT-TAAAATATTGATTGATTTATTTTA
1 -GATTGATTTATTTTAA-AATATGGATTGATTTAT-TATTGTATTGTATGGATTGATTTATTTTA
2506696 AATAATTTATTAGTAT
63 AATAATTTATTAGTAT
** ** *
2506712 GAATTGATTTATTTT-AAATAATTTATTAGTATGGATTGATT-TATTTTAAAATATGGA-TGATT
1 G-ATTGATTTATTTTAAAAT-ATGGATT-G-ATTTATT-ATTGTA--TT---GTATGGATTGATT
2506774 TATTTTAAATAATTTATTAGTAT
56 TATTTTAAATAATTTATTAGTAT
* *
2506797 GGATTGATTTATTTTAAAATATGGATTAATTTATTATTGTAGTTGTATGTATTGATTTATTTTAA
1 -GATTGATTTATTTTAAAATATGGATTGATTTATTATTGTA-TTGTATGGATTGATTTATTTTAA
2506862 ATAATTTATTAGTAT
64 ATAATTTATTAGTAT
* * *
2506877 TA-T--TTTATTTTAAAATATGGATTGATTTGTTTTAATTTTATTAGTATGGATTGATTTATTTT
1 GATTGATTTATTTTAAAATATGGATTGA-TT-TATT-ATTGTATT-GTATGGATTGATTTATTTT
2506939 AAA
62 AAA
2506942 ATATAGTTTG
Statistics
Matches: 525, Mismatches: 46, Indels: 110
0.77 0.07 0.16
Matches are distributed among these distances:
74 4 0.01
75 43 0.08
76 62 0.12
77 20 0.04
78 14 0.03
79 67 0.13
80 153 0.29
81 27 0.05
82 17 0.03
83 13 0.02
84 2 0.00
85 53 0.10
86 50 0.10
ACGTcount: A:0.35, C:0.00, G:0.12, T:0.53
Consensus pattern (78 bp):
GATTGATTTATTTTAAAATATGGATTGATTTATTATTGTATTGTATGGATTGATTTATTTTAAAT
AATTTATTAGTAT
Found at i:2506657 original size:30 final size:32
Alignment explanation
Indices: 2506607--2506666 Score: 106
Period size: 30 Copynumber: 1.9 Consensus size: 32
2506597 AGTTGTATGT
2506607 ATTGATTTATTTTAAATAATTTATTAGTATAG
1 ATTGATTTATTTTAAATAATTTATTAGTATAG
2506639 ATTGATTTA-TTT-AATAATTTATTAGTAT
1 ATTGATTTATTTTAAATAATTTATTAGTAT
2506667 GTATTTAAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
30 16 0.57
31 3 0.11
32 9 0.32
ACGTcount: A:0.37, C:0.00, G:0.08, T:0.55
Consensus pattern (32 bp):
ATTGATTTATTTTAAATAATTTATTAGTATAG
Found at i:2506671 original size:22 final size:22
Alignment explanation
Indices: 2506646--2506712 Score: 68
Period size: 22 Copynumber: 3.0 Consensus size: 22
2506636 TAGATTGATT
2506646 TATTTAATAATTTATTAGTATG
1 TATTTAATAATTTATTAGTATG
*
2506668 TATTTAA-AATATTGATT-G-ATT
1 TATTTAATAAT-TT-ATTAGTATG
2506689 TATTTTAAATAATTTATTAGTATG
1 TA-TTT-AATAATTTATTAGTATG
2506713 AATTGATTTA
Statistics
Matches: 36, Mismatches: 2, Indels: 12
0.72 0.04 0.24
Matches are distributed among these distances:
21 7 0.19
22 16 0.44
23 8 0.22
24 5 0.14
ACGTcount: A:0.37, C:0.00, G:0.09, T:0.54
Consensus pattern (22 bp):
TATTTAATAATTTATTAGTATG
Found at i:2506705 original size:14 final size:14
Alignment explanation
Indices: 2506686--2506738 Score: 52
Period size: 14 Copynumber: 3.5 Consensus size: 14
2506676 ATATTGATTG
2506686 ATTTATTTTAAATA
1 ATTTATTTTAAATA
* *
2506700 ATTTATTAGTATGAATTG
1 ATTTATT--T-T-AAATA
2506718 ATTTATTTTAAATA
1 ATTTATTTTAAATA
2506732 ATTTATT
1 ATTTATT
2506739 AGTATGGATT
Statistics
Matches: 31, Mismatches: 4, Indels: 8
0.72 0.09 0.19
Matches are distributed among these distances:
14 17 0.55
15 1 0.03
16 2 0.06
17 1 0.03
18 10 0.32
ACGTcount: A:0.38, C:0.00, G:0.06, T:0.57
Consensus pattern (14 bp):
ATTTATTTTAAATA
Found at i:2506723 original size:18 final size:18
Alignment explanation
Indices: 2506700--2506756 Score: 59
Period size: 18 Copynumber: 3.4 Consensus size: 18
2506690 ATTTTAAATA
2506700 ATTTATTAGTATGAATTG
1 ATTTATTAGTATGAATTG
* *
2506718 ATTTATT--T-T-AAATA
1 ATTTATTAGTATGAATTG
*
2506732 ATTTATTAGTATGGATTG
1 ATTTATTAGTATGAATTG
2506750 ATTTATT
1 ATTTATT
2506757 TTAAAATATG
Statistics
Matches: 30, Mismatches: 5, Indels: 8
0.70 0.12 0.19
Matches are distributed among these distances:
14 10 0.33
15 1 0.03
16 2 0.07
17 1 0.03
18 16 0.53
ACGTcount: A:0.33, C:0.00, G:0.12, T:0.54
Consensus pattern (18 bp):
ATTTATTAGTATGAATTG
Found at i:2506723 original size:32 final size:32
Alignment explanation
Indices: 2506682--2506761 Score: 151
Period size: 32 Copynumber: 2.5 Consensus size: 32
2506672 TAAAATATTG
2506682 ATTGATTTATTTTAAATAATTTATTAGTATGA
1 ATTGATTTATTTTAAATAATTTATTAGTATGA
*
2506714 ATTGATTTATTTTAAATAATTTATTAGTATGG
1 ATTGATTTATTTTAAATAATTTATTAGTATGA
2506746 ATTGATTTATTTTAAA
1 ATTGATTTATTTTAAA
2506762 ATATGGATGA
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
32 47 1.00
ACGTcount: A:0.36, C:0.00, G:0.10, T:0.54
Consensus pattern (32 bp):
ATTGATTTATTTTAAATAATTTATTAGTATGA
Found at i:2506773 original size:53 final size:54
Alignment explanation
Indices: 2506280--2506831 Score: 541
Period size: 54 Copynumber: 10.3 Consensus size: 54
2506270 AATTTATTAG
2506280 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAA
2506334 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAA
*
2506388 TATAGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAA
*
2506442 TATAGATTGATTTATTTTAAATAATTTATTAGTAAT-GATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAATAATTTATTAGT-ATGGATTGATTTATTTTAAAA
* * * * *
2506496 TATGGATTGATTTATTATT--GTAGTTGTA-TAG-ATTGATTTATTTTAAATAATTTAATAG
1 TATGGATTGATTTATT-TTAAATAATT-TATTAGTATGGATTGA-TTT--AT--TTTAA-AA
* * * * * ***
2506554 TAT-GAGTAGATTTATTTT-AA-AA--TA-T-GAATTGATTTA-TTATTGTAGTTG
1 TATGGA-TTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTA-AAA
* *
2506602 TATGTATTGATTTATTTTAAATAATTTATTAGTATAGATTGATTTA-TTTAATAA
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAA-AA
* * * * ** * ** * * *
2506656 T-T-TATTAGTATGTATTTAAAAT-ATTGATT-G-ATTTATTTTAAATAATTTATTAG
1 TATGGATT-G-ATTTATTTTAAATAATTTATTAGTATGGA-TTGATTTATTTTA-AAA
*
2506709 TATGAATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAA
2506763 TATGGA-TGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAA
*
2506816 TATGGATTAATTTATT
1 TATGGATTGATTTATT
2506832 ATTGTAGTTG
Statistics
Matches: 419, Mismatches: 45, Indels: 68
0.79 0.08 0.13
Matches are distributed among these distances:
48 18 0.04
49 3 0.01
50 4 0.01
51 5 0.01
52 19 0.05
53 90 0.21
54 232 0.55
55 22 0.05
56 3 0.01
57 10 0.02
58 13 0.03
ACGTcount: A:0.36, C:0.00, G:0.12, T:0.52
Consensus pattern (54 bp):
TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAA
Found at i:2506774 original size:21 final size:22
Alignment explanation
Indices: 2506741--2506782 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 22
2506731 AATTTATTAG
2506741 TATGGATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAAA
2506763 TATGGA-TGATTTATTTTAAA
1 TATGGATTGATTTATTTTAAA
2506783 TAATTTATTA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 14 0.70
22 6 0.30
ACGTcount: A:0.36, C:0.00, G:0.14, T:0.50
Consensus pattern (22 bp):
TATGGATTGATTTATTTTAAAA
Found at i:2506819 original size:22 final size:22
Alignment explanation
Indices: 2506794--2506955 Score: 74
Period size: 22 Copynumber: 6.6 Consensus size: 22
2506784 AATTTATTAG
2506794 TATGGATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAAA
* ***
2506816 TATGGATTAATTTATTATTGTAGTTG
1 TATGGATTGATTTA-T-TT-TA-AAA
*
2506842 TATGTATTGATTTATTTTAAATAA
1 TATGGATTGATTTATTTT-AA-AA
*
2506866 TTTATTAGTATT-ATTTTATTTTAAAA
1 --TA-T-GGATTGA-TTTATTTTAAAA
*
2506892 TATGGATTGATTTGTTTTAATTTTATTA
1 TATGGATTGATTTATTTTAA----A--A
2506920 GTATGGATTGATTTATTTTAAAA
1 -TATGGATTGATTTATTTTAAAA
* *
2506943 TATAGTTTGATTT
1 TATGGATTGATTT
2506956 TTAAATAATT
Statistics
Matches: 107, Mismatches: 14, Indels: 38
0.67 0.09 0.24
Matches are distributed among these distances:
22 37 0.35
23 5 0.05
24 7 0.07
25 4 0.04
26 17 0.16
27 4 0.04
28 14 0.13
29 19 0.18
ACGTcount: A:0.31, C:0.00, G:0.13, T:0.56
Consensus pattern (22 bp):
TATGGATTGATTTATTTTAAAA
Found at i:2506914 original size:46 final size:46
Alignment explanation
Indices: 2506850--2506986 Score: 127
Period size: 51 Copynumber: 2.9 Consensus size: 46
2506840 TGTATGTATT
* * *
2506850 GATTTATTTTAAATAATTTATTAGTATTATTTTATTTTAAAATATG
1 GATTGATTTTTAATAATTTATTAGTATTATTTTATTTTAAAATATA
* *
2506896 GATTGATTTGTT-TTAATTTTATTAGTATGGATTGATTTATTTTAAAATATA
1 GATTGATTT-TTAATAA-TTTATTAGTAT-TA-T--TTTATTTTAAAATATA
*
2506947 GTTTGATTTTTAAATAATTTATT-GTATTGA-TTTATTTTAA
1 GATTGATTTTT-AATAATTTATTAGTATT-ATTTTATTTTAA
2506987 TAATTTATTA
Statistics
Matches: 74, Mismatches: 8, Indels: 18
0.74 0.08 0.18
Matches are distributed among these distances:
46 21 0.28
47 12 0.16
48 1 0.01
49 1 0.01
50 7 0.09
51 29 0.39
52 3 0.04
ACGTcount: A:0.33, C:0.00, G:0.10, T:0.57
Consensus pattern (46 bp):
GATTGATTTTTAATAATTTATTAGTATTATTTTATTTTAAAATATA
Found at i:2507073 original size:74 final size:72
Alignment explanation
Indices: 2506892--2507084 Score: 223
Period size: 74 Copynumber: 2.6 Consensus size: 72
2506882 TATTTTAAAA
*
2506892 TATGGATTGATTTGTTTTAAT--TTTATTAGTATGGATTGATTTATTTTAAAATATAGTTTGATT
1 TATGGATTGATTTATTTTAATAATTTATTAGTATGGATTGA--T-TTTTAAAATATAGTTT-ATT
2506955 TTTAAATAATT
62 TTTAAATAATT
* *
2506966 TATTGTATTGATTTATTTTAATAATTTATTAGTATGGATTGATTTTTAAAATATGGATTT-TTTT
1 TA-TGGATTGATTTATTTTAATAATTTATTAGTATGGATTGATTTTTAAAATATAG-TTTATTTT
* **
2507030 T-ATTGTGTT
64 TAAAT-AATT
2507039 GTATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTT
1 -TATGGATTGATTTATTTT-AATAATTTATTAGTATGGATTGATTT
2507085 ATTTTAAAAT
Statistics
Matches: 105, Mismatches: 7, Indels: 14
0.83 0.06 0.11
Matches are distributed among these distances:
72 2 0.02
73 22 0.21
74 42 0.40
75 21 0.20
77 18 0.17
ACGTcount: A:0.30, C:0.00, G:0.15, T:0.56
Consensus pattern (72 bp):
TATGGATTGATTTATTTTAATAATTTATTAGTATGGATTGATTTTTAAAATATAGTTTATTTTTA
AATAATT
Found at i:2507076 original size:32 final size:32
Alignment explanation
Indices: 2507039--2507200 Score: 157
Period size: 32 Copynumber: 5.7 Consensus size: 32
2507029 TTATTGTGTT
2507039 GTATGGATTGATTTATTTTAAATAATTTATTA
1 GTATGGATTGATTTATTTTAAATAATTTATTA
2507071 GTATGGATTGATTTATTTT-AA-AA--TA-TA
1 GTATGGATTGATTTATTTTAAATAATTTATTA
2507098 --A---ATTGATTTATTTTAAATAATTTATTA
1 GTATGGATTGATTTATTTTAAATAATTTATTA
*
2507125 GTATAGATTGATTTATTTT-AA-AA--TA-T-
1 GTATGGATTGATTTATTTTAAATAATTTATTA
*
2507151 G--T--ATTAATTTATTTTAAATAATTTATTA
1 GTATGGATTGATTTATTTTAAATAATTTATTA
*
2507179 GTATGTATTGATTTATTTTAAA
1 GTATGGATTGATTTATTTTAAA
2507201 ATATGGATTG
Statistics
Matches: 108, Mismatches: 2, Indels: 40
0.72 0.01 0.27
Matches are distributed among these distances:
22 25 0.23
23 4 0.04
24 5 0.05
25 1 0.01
26 5 0.05
27 6 0.06
28 5 0.05
29 1 0.01
30 5 0.05
31 4 0.04
32 47 0.44
ACGTcount: A:0.37, C:0.00, G:0.10, T:0.53
Consensus pattern (32 bp):
GTATGGATTGATTTATTTTAAATAATTTATTA
Found at i:2507103 original size:54 final size:54
Alignment explanation
Indices: 2507040--2507217 Score: 293
Period size: 54 Copynumber: 3.3 Consensus size: 54
2507030 TATTGTGTTG
*
2507040 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAA
1 TATGAATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAA
* *
2507094 TATAAATTGATTTATTTTAAATAATTTATTAGTATAGATTGATTTATTTTAAAA
1 TATGAATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAA
* * *
2507148 TATGTATTAATTTATTTTAAATAATTTATTAGTATGTATTGATTTATTTTAAAA
1 TATGAATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAA
*
2507202 TATGGATTGATTTATT
1 TATGAATTGATTTATT
2507218 ATTGTAGTTG
Statistics
Matches: 114, Mismatches: 10, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
54 114 1.00
ACGTcount: A:0.37, C:0.00, G:0.10, T:0.53
Consensus pattern (54 bp):
TATGAATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAA
Found at i:2507399 original size:32 final size:32
Alignment explanation
Indices: 2507358--2507487 Score: 172
Period size: 32 Copynumber: 4.4 Consensus size: 32
2507348 AAATAGATTA
*
2507358 ATTTATTTTAAATAATTTATTAGTATGTATTG
1 ATTTATTTTAAATAATTTATTAGTATGAATTG
2507390 ATTTATTTT--A-AA---A-TA-TA--AATTG
1 ATTTATTTTAAATAATTTATTAGTATGAATTG
2507412 ATTTATTTTAAATAATTTATTAGTATGAATTG
1 ATTTATTTTAAATAATTTATTAGTATGAATTG
*
2507444 GTTTATTTTAAATAATTTATTAGTATGAATTG
1 ATTTATTTTAAATAATTTATTAGTATGAATTG
2507476 ATTTATTTTAAA
1 ATTTATTTTAAA
2507488 ATATGTATTG
Statistics
Matches: 85, Mismatches: 3, Indels: 20
0.79 0.03 0.19
Matches are distributed among these distances:
22 13 0.15
24 3 0.04
25 4 0.05
26 1 0.01
28 1 0.01
29 4 0.05
30 3 0.04
32 56 0.66
ACGTcount: A:0.38, C:0.00, G:0.08, T:0.54
Consensus pattern (32 bp):
ATTTATTTTAAATAATTTATTAGTATGAATTG
Found at i:2507433 original size:54 final size:54
Alignment explanation
Indices: 2507321--2507703 Score: 222
Period size: 54 Copynumber: 7.2 Consensus size: 54
2507311 TATTTATTTT
* *
2507321 TAATTTATTAGTATGAATTGA-TT-TTTT-AAATA--GATTAATTTATTTTAAA
1 TAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTATTTTAAA
* **
2507370 TAATTTATTAGTATGTATTGATTTATTTTAAAATATAAATTGATTTATTTTAAA
1 TAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTATTTTAAA
* *
2507424 TAATTTATTAGTATGAATTGGTTTATTTTAAATAATTTATTAGTATGAATTGATTTATTTTAAA
1 TAATTTATTAGTATGGATTGATTTATTTT-AA-AA--TA-T-G---G-ATTGATTTATTTTAAA
* **
2507488 -ATATGTATT-G-ATTTATT-ATTGTATTTGT----T-TGGATTGATTTATTTTAAA
1 TA-ATTTATTAGTATGGATTGATT-TATTT-TAAAATATGGATTGATTTATTTTAAA
* * * *
2507536 TAATTTATTAGTATGGATTGATTTATTTT-AAATA---ATTTA-TTAGTATGAAC
1 TAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTA-TTTTAAA
* * **** *
2507586 TGATTTATTTTAAAATATGGATTGATTT-TTATGTGTTGTATTGA-TGATTT-TTTT-AA
1 TAATTTA--TT--AGTATGGATTGATTTATT-T-TAAAATATGGATTGATTTATTTTAAA
2507642 TAA-TT-TTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTATTTTAAA
1 TAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTATTTTAAA
2507694 TAATTTATTA
1 TAATTTATTA
2507704 TTGTAGTTAT
Statistics
Matches: 256, Mismatches: 34, Indels: 83
0.69 0.09 0.22
Matches are distributed among these distances:
48 22 0.09
49 33 0.13
50 47 0.18
51 13 0.05
52 16 0.06
53 5 0.02
54 60 0.23
55 6 0.02
56 7 0.03
57 2 0.01
58 4 0.02
59 4 0.02
61 2 0.01
62 10 0.04
63 3 0.01
64 22 0.09
ACGTcount: A:0.34, C:0.00, G:0.11, T:0.54
Consensus pattern (54 bp):
TAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTATTTTAAA
Found at i:2507458 original size:86 final size:80
Alignment explanation
Indices: 2507358--2507567 Score: 285
Period size: 80 Copynumber: 2.5 Consensus size: 80
2507348 AAATAGATTA
*
2507358 ATTTATTTTAAATAATTTATTAGTATGTATTGATTTATTTTAAAATATAAATTGATTTATTTTAA
1 ATTTATTTTAAATAATTTATTAGTATGAATTGATTTATTTTAAAATATAAATTGATTTA--TT--
*
2507423 ATAATTTATTAGTATGAATTG
62 AT--TGTATTAGTATGAATTG
* **
2507444 GTTTATTTTAAATAATTTATTAGTATGAATTGATTTATTTTAAAATATGTATTGATTTATTATTG
1 ATTTATTTTAAATAATTTATTAGTATGAATTGATTTATTTTAAAATATAAATTGATTTATTATTG
* * *
2507509 TATTTGTTTGGATTG
66 TATTAGTATGAATTG
*
2507524 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAA
1 ATTTATTTTAAATAATTTATTAGTATGAATTGATTTATTTTAAA
2507568 TAATTTATTA
Statistics
Matches: 114, Mismatches: 10, Indels: 6
0.88 0.08 0.05
Matches are distributed among these distances:
80 55 0.48
82 2 0.02
84 2 0.02
86 55 0.48
ACGTcount: A:0.35, C:0.00, G:0.10, T:0.55
Consensus pattern (80 bp):
ATTTATTTTAAATAATTTATTAGTATGAATTGATTTATTTTAAAATATAAATTGATTTATTATTG
TATTAGTATGAATTG
Found at i:2507538 original size:112 final size:109
Alignment explanation
Indices: 2507231--2507671 Score: 463
Period size: 112 Copynumber: 4.1 Consensus size: 109
2507221 GTAGTTGTAG
*
2507231 ATTGATTTATTTT-AATAATTTATTAGTATGGATTGATTT-TTTTAAAATATAG-ATTGATTTAT
1 ATTGATTTATTTTAAATAATTTATTAGTATGAATTGATTTATTTTAAAATAT-GTATTGATTTAT
* *
2507293 TTTGTAGTTGTATCTATTTATTTATTTT--TAATTTATTAGTATGA
65 TTTGTAGTTGTAT-GATTGATTTATTTTAATAATTTATTAGTATGA
* * * * * *
2507337 ATTGA-TT-TTTTAAATAGATTAATTTA-TTTTAAATAATTTA--TT--AGTATGTATTGATTTA
1 ATTGATTTATTTTAAATA-ATTTA-TTAGTATGAATTGATTTATTTTAAAATATGTATTGATTTA
* ** * *
2507395 TTTT-AAAATATA-AATTGATTTATTTTAAATAATTTATTAGTATGA
64 TTTTGTAGTTGTATGATTGATTTATTTT-AATAATTTATTAGTATGA
*
2507440 ATTGGTTTATTTTAAATAATTTATTAGTATGAATTGATTTATTTTAAAATATGTATTGATTTATT
1 ATTGATTTATTTTAAATAATTTATTAGTATGAATTGATTTATTTTAAAATATGTATTGATTTATT
* * *
2507505 ATTGTATTTGTTTGGATTGATTTATTTTAAATAATTTATTAGTATGG
66 -TTGTAGTTGTAT-GATTGATTTATTTT-AATAATTTATTAGTATGA
* *
2507552 ATTGATTTATTTTAAATAATTTATTAGTATGAACTGATTTATTTTAAAATATGGATTGATTT-TT
1 ATTGATTTATTTTAAATAATTTATTAGTATGAATTGATTTATTTTAAAATATGTATTGATTTATT
* *
2507616 ATGT-GTTGTATTGA-TGATTT-TTTTAATAA-TT-TTAGTATGG
66 TTGTAGTTGTA-TGATTGATTTATTTTAATAATTTATTAGTATGA
2507656 ATTGATTTATTTTAAA
1 ATTGATTTATTTTAAA
2507672 ATATGGATTG
Statistics
Matches: 282, Mismatches: 33, Indels: 42
0.79 0.09 0.12
Matches are distributed among these distances:
100 12 0.04
102 5 0.02
103 40 0.14
104 45 0.16
105 19 0.07
106 24 0.09
107 7 0.02
108 23 0.08
109 8 0.03
110 7 0.02
111 2 0.01
112 90 0.32
ACGTcount: A:0.33, C:0.00, G:0.12, T:0.55
Consensus pattern (109 bp):
ATTGATTTATTTTAAATAATTTATTAGTATGAATTGATTTATTTTAAAATATGTATTGATTTATT
TTGTAGTTGTATGATTGATTTATTTTAATAATTTATTAGTATGA
Found at i:2507553 original size:32 final size:32
Alignment explanation
Indices: 2507517--2507599 Score: 148
Period size: 32 Copynumber: 2.6 Consensus size: 32
2507507 TGTATTTGTT
2507517 TGGATTGATTTATTTTAAATAATTTATTAGTA
1 TGGATTGATTTATTTTAAATAATTTATTAGTA
2507549 TGGATTGATTTATTTTAAATAATTTATTAGTA
1 TGGATTGATTTATTTTAAATAATTTATTAGTA
* *
2507581 TGAACTGATTTATTTTAAA
1 TGGATTGATTTATTTTAAA
2507600 ATATGGATTG
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
32 49 1.00
ACGTcount: A:0.35, C:0.01, G:0.12, T:0.52
Consensus pattern (32 bp):
TGGATTGATTTATTTTAAATAATTTATTAGTA
Found at i:2507679 original size:22 final size:22
Alignment explanation
Indices: 2507651--2507693 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
2507641 ATAATTTTAG
2507651 TATGGATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAAA
2507673 TATGGATTGATTTATTTTAAA
1 TATGGATTGATTTATTTTAAA
2507694 TAATTTATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.35, C:0.00, G:0.14, T:0.51
Consensus pattern (22 bp):
TATGGATTGATTTATTTTAAAA
Found at i:2509463 original size:20 final size:20
Alignment explanation
Indices: 2509434--2509472 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
2509424 CTGCAAAATG
*
2509434 TAATTTATATTAATAATATA
1 TAATTAATATTAATAATATA
*
2509454 TAATTAATATTTATAATAT
1 TAATTAATATTAATAATAT
2509473 TTTTTAAGCC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (20 bp):
TAATTAATATTAATAATATA
Found at i:2509468 original size:13 final size:14
Alignment explanation
Indices: 2509434--2509470 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 14
2509424 CTGCAAAATG
2509434 TAATTTAT-ATTAA
1 TAATTTATAATTAA
*
2509447 TAATATATAATTAA
1 TAATTTATAATTAA
2509461 T-ATTTATAAT
1 TAATTTATAAT
2509471 ATTTTTTAAG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
13 15 0.71
14 6 0.29
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (14 bp):
TAATTTATAATTAA
Found at i:2518580 original size:85 final size:86
Alignment explanation
Indices: 2518437--2518612 Score: 345
Period size: 85 Copynumber: 2.1 Consensus size: 86
2518427 TCAAGGATTC
2518437 CAAACAGCATACCGACCCAAATTCAATCACCCGTCACTACTAGCAGGAAAACAACGACAATGAGA
1 CAAACAGCATACCGACCCAAATTCAATCACCCGTCACTACTAGCAGGAAAACAACGACAATGAGA
2518502 TATATCCCAGCAAAAC-AATT
66 TATATCCCAGCAAAACAAATT
2518522 CAAACAGCATACCGACCCAAATTCAATCACCCGTCACTACTAGCAGGAAAACAACGACAATGAGA
1 CAAACAGCATACCGACCCAAATTCAATCACCCGTCACTACTAGCAGGAAAACAACGACAATGAGA
2518587 TATATCCCAGCAAAACAAATT
66 TATATCCCAGCAAAACAAATT
2518608 CAAAC
1 CAAAC
2518613 CGATGAATGC
Statistics
Matches: 90, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
85 81 0.90
86 9 0.10
ACGTcount: A:0.44, C:0.30, G:0.11, T:0.15
Consensus pattern (86 bp):
CAAACAGCATACCGACCCAAATTCAATCACCCGTCACTACTAGCAGGAAAACAACGACAATGAGA
TATATCCCAGCAAAACAAATT
Found at i:2521033 original size:31 final size:31
Alignment explanation
Indices: 2520995--2521100 Score: 101
Period size: 31 Copynumber: 3.5 Consensus size: 31
2520985 TAAGGCGATG
*
2520995 CTTGGGTAGGCTCTGTGACCCCGAGATCTTT
1 CTTGGGTAGGCTCTGTGGCCCCGAGATCTTT
*
2521026 CTTGGGTAGGC-CT-TCCGGCCTCGAGATCTTT
1 CTTGGGTAGGCTCTGT--GGCCCCGAGATCTTT
* * ** *
2521057 CTTGGGTAGACCCTGTGGCCCTAAGAACTTT
1 CTTGGGTAGGCTCTGTGGCCCCGAGATCTTT
*
2521088 CTT-TGTAGGCTCT
1 CTTGGGTAGGCTCT
2521101 CAGGCCCCAA
Statistics
Matches: 61, Mismatches: 10, Indels: 9
0.76 0.12 0.11
Matches are distributed among these distances:
29 1 0.02
30 9 0.15
31 48 0.79
32 2 0.03
33 1 0.02
ACGTcount: A:0.13, C:0.26, G:0.27, T:0.33
Consensus pattern (31 bp):
CTTGGGTAGGCTCTGTGGCCCCGAGATCTTT
Found at i:2523704 original size:81 final size:81
Alignment explanation
Indices: 2523613--2523787 Score: 287
Period size: 81 Copynumber: 2.2 Consensus size: 81
2523603 AGCTAATCCC
* * *
2523613 TTATTCTTTTACTCTATGGTATTTAACCATTCATCTAACTGGCATAACTGGCACCTTTCTACCAA
1 TTATTCTTTTACTCAACGGTATTTAACCATTCATCTAACTGGCATAACTGGCACATTTCTACCAA
2523678 TTGCACAGTTAGACCA
66 TTGCACAGTTAGACCA
* * *
2523694 TTATTATTTTACTCAACGGTGTTTAACCATTCATCTAACTGGCATAATTGGCACATTTCTACCAA
1 TTATTCTTTTACTCAACGGTATTTAACCATTCATCTAACTGGCATAACTGGCACATTTCTACCAA
*
2523759 TTGCATAGTTAGACCA
66 TTGCACAGTTAGACCA
2523775 TTATTCTTTTACT
1 TTATTCTTTTACT
2523788 TTGGACTAGT
Statistics
Matches: 86, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
81 86 1.00
ACGTcount: A:0.27, C:0.22, G:0.11, T:0.39
Consensus pattern (81 bp):
TTATTCTTTTACTCAACGGTATTTAACCATTCATCTAACTGGCATAACTGGCACATTTCTACCAA
TTGCACAGTTAGACCA
Found at i:2524054 original size:55 final size:55
Alignment explanation
Indices: 2523941--2524429 Score: 680
Period size: 55 Copynumber: 8.9 Consensus size: 55
2523931 GTAGTACCTA
* * * *
2523941 TACGG-TAGTTCATCAACTCATTATGAATTCCGT-AAGTTGCACACATCGTGCATG
1 TACGGTTA-TTCATCAACTCATGATGAATTCCGTGGATTTGCACACATAGTGCATG
** * *
2523995 TACGGTTATTCATCAACTCAAAATGAATTTCATGGATTTGCACACATAGTGCATG
1 TACGGTTATTCATCAACTCATGATGAATTCCGTGGATTTGCACACATAGTGCATG
* * **
2524050 TACGGTTATTCATCAACTCATGATGAATTTCATGGA-TTGCACACATAGTGGTTG
1 TACGGTTATTCATCAACTCATGATGAATTCCGTGGATTTGCACACATAGTGCATG
* *
2524104 TACGGTTATTCATCAACTCATGATGAATTTCGTGGATTTGCACACATAGTGCTTG
1 TACGGTTATTCATCAACTCATGATGAATTCCGTGGATTTGCACACATAGTGCATG
* *
2524159 TA-GGTTATTCATCAACTCATGATGAATTCCGTGTATTTGCACATATAGTGCATG
1 TACGGTTATTCATCAACTCATGATGAATTCCGTGGATTTGCACACATAGTGCATG
* * * *
2524213 TACGATTATTCATCAACTCATGATAAATTTCGTGGATTTGCACACATAGTGCTTG
1 TACGGTTATTCATCAACTCATGATGAATTCCGTGGATTTGCACACATAGTGCATG
*
2524268 TACGGTTATTCATCAACTCATGATGAATTCCGTGGATTTGAACACATAGTGCATG
1 TACGGTTATTCATCAACTCATGATGAATTCCGTGGATTTGCACACATAGTGCATG
* * * * * *
2524323 TACGGTTATTCATCAACTCATGATTAATTCCATGGATTTCCACACATAATACTTG
1 TACGGTTATTCATCAACTCATGATGAATTCCGTGGATTTGCACACATAGTGCATG
* *
2524378 TACGGTTATTCATCAACTCATGATGAATTCCGTGGATTTACACATATAGTGC
1 TACGGTTATTCATCAACTCATGATGAATTCCGTGGATTTGCACACATAGTGC
2524430 CTATTTGGTA
Statistics
Matches: 390, Mismatches: 41, Indels: 7
0.89 0.09 0.02
Matches are distributed among these distances:
54 127 0.33
55 263 0.67
ACGTcount: A:0.29, C:0.19, G:0.18, T:0.35
Consensus pattern (55 bp):
TACGGTTATTCATCAACTCATGATGAATTCCGTGGATTTGCACACATAGTGCATG
Found at i:2524332 original size:110 final size:110
Alignment explanation
Indices: 2523941--2524429 Score: 716
Period size: 109 Copynumber: 4.5 Consensus size: 110
2523931 GTAGTACCTA
* * * *
2523941 TACGG-TAGTTCATCAACTCATTATGAATTCCGT-AAGTTGCACACATCGTGCATGTACGGTTAT
1 TACGGTTA-TTCATCAACTCATGATGAATTCCGTGGATTTGCACACATAGTGCATGTACGGTTAT
** *
2524004 TCATCAACTCAAAATGAATTTCATGGATTTGCACACATAGTGCATG
65 TCATCAACTCATGATGAATTTCATGGATTTGCACACATAGTGCTTG
* * **
2524050 TACGGTTATTCATCAACTCATGATGAATTTCATGGA-TTGCACACATAGTGGTTGTACGGTTATT
1 TACGGTTATTCATCAACTCATGATGAATTCCGTGGATTTGCACACATAGTGCATGTACGGTTATT
*
2524114 CATCAACTCATGATGAATTTCGTGGATTTGCACACATAGTGCTTG
66 CATCAACTCATGATGAATTTCATGGATTTGCACACATAGTGCTTG
* * *
2524159 TA-GGTTATTCATCAACTCATGATGAATTCCGTGTATTTGCACATATAGTGCATGTACGATTATT
1 TACGGTTATTCATCAACTCATGATGAATTCCGTGGATTTGCACACATAGTGCATGTACGGTTATT
* *
2524223 CATCAACTCATGATAAATTTCGTGGATTTGCACACATAGTGCTTG
66 CATCAACTCATGATGAATTTCATGGATTTGCACACATAGTGCTTG
*
2524268 TACGGTTATTCATCAACTCATGATGAATTCCGTGGATTTGAACACATAGTGCATGTACGGTTATT
1 TACGGTTATTCATCAACTCATGATGAATTCCGTGGATTTGCACACATAGTGCATGTACGGTTATT
* * * * *
2524333 CATCAACTCATGATTAATTCCATGGATTTCCACACATAATACTTG
66 CATCAACTCATGATGAATTTCATGGATTTGCACACATAGTGCTTG
* *
2524378 TACGGTTATTCATCAACTCATGATGAATTCCGTGGATTTACACATATAGTGC
1 TACGGTTATTCATCAACTCATGATGAATTCCGTGGATTTGCACACATAGTGC
2524430 CTATTTGGTA
Statistics
Matches: 344, Mismatches: 32, Indels: 7
0.90 0.08 0.02
Matches are distributed among these distances:
108 30 0.09
109 165 0.48
110 149 0.43
ACGTcount: A:0.29, C:0.19, G:0.18, T:0.35
Consensus pattern (110 bp):
TACGGTTATTCATCAACTCATGATGAATTCCGTGGATTTGCACACATAGTGCATGTACGGTTATT
CATCAACTCATGATGAATTTCATGGATTTGCACACATAGTGCTTG
Found at i:2529456 original size:20 final size:20
Alignment explanation
Indices: 2529433--2529489 Score: 60
Period size: 20 Copynumber: 2.9 Consensus size: 20
2529423 TAGAACCGGT
*
2529433 TTAAGCAGAACCGAACCGAG
1 TTAACCAGAACCGAACCGAG
* * *
2529453 TTAACCCGACCCGAACTGAG
1 TTAACCAGAACCGAACCGAG
* *
2529473 TTAACCCGACCCGAACC
1 TTAACCAGAACCGAACC
2529490 ATTGATCGGT
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.33, C:0.35, G:0.19, T:0.12
Consensus pattern (20 bp):
TTAACCAGAACCGAACCGAG
Found at i:2529516 original size:22 final size:22
Alignment explanation
Indices: 2529491--2529560 Score: 77
Period size: 22 Copynumber: 3.2 Consensus size: 22
2529481 ACCCGAACCA
2529491 TTGATCGGTCAGACCGTTGACT
1 TTGATCGGTCAGACCGTTGACT
** *
2529513 TTGATCGGTCAGACTATTTACT
1 TTGATCGGTCAGACCGTTGACT
** **
2529535 TTGGCCGGTTTGACCGTTGACT
1 TTGATCGGTCAGACCGTTGACT
2529557 TTGA
1 TTGA
2529561 CTTTGACCGA
Statistics
Matches: 37, Mismatches: 11, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
22 37 1.00
ACGTcount: A:0.17, C:0.20, G:0.26, T:0.37
Consensus pattern (22 bp):
TTGATCGGTCAGACCGTTGACT
Found at i:2530353 original size:31 final size:31
Alignment explanation
Indices: 2530272--2530372 Score: 121
Period size: 31 Copynumber: 3.3 Consensus size: 31
2530262 AAGGCGACCA
* *
2530272 TTGGGTAGGCTCTTTGGCCCCGAGATCTTTC
1 TTGGGTAGGCCCTATGGCCCCGAGATCTTTC
* * *
2530303 TTGGGTAAGCCATACGGCCCCGAGATCTTTC
1 TTGGGTAGGCCCTATGGCCCCGAGATCTTTC
** * *
2530334 TTGGGTAGGCCCCGTGGCCCCAAGAACTTTC
1 TTGGGTAGGCCCTATGGCCCCGAGATCTTTC
2530365 TTGGGTAG
1 TTGGGTAG
2530373 ACTCTCAGAC
Statistics
Matches: 58, Mismatches: 12, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
31 58 1.00
ACGTcount: A:0.15, C:0.27, G:0.30, T:0.29
Consensus pattern (31 bp):
TTGGGTAGGCCCTATGGCCCCGAGATCTTTC
Found at i:2531822 original size:150 final size:151
Alignment explanation
Indices: 2531653--2531961 Score: 595
Period size: 150 Copynumber: 2.1 Consensus size: 151
2531643 TCTTAATCCT
2531653 GTAATTTTGATCACAATCCTACATATATTATCTCTCATTTTTATATGTTTCTATTTAACATTTCA
1 GTAATTTTGATCACAATCCTACATATATTATCTCTCATTTTTATATGTTTCTATTTAACATTTCA
2531718 CCCATAAATTCTCGTTACATATTCTAATATCCTAATTTCTTATATTCTCTTAATTCATTCCTC-C
66 CCCATAAATTCTCGTTACATATTCTAATATCCTAATTTCTTATATTCTCTTAATTCATTCCTCAC
2531782 CAAATCTTCATTTAATAAACA
131 CAAATCTTCATTTAATAAACA
2531803 GTAATTTTGATCACAATCCTACATATATTATCTCTCATTTTTATATGTTTCTATTTAACATTTCA
1 GTAATTTTGATCACAATCCTACATATATTATCTCTCATTTTTATATGTTTCTATTTAACATTTCA
2531868 CCCATAAATTCTCGTTACATATTCTAATATCCTAATTTCTTATATTCTCTTAATTCATTCCTCAC
66 CCCATAAATTCTCGTTACATATTCTAATATCCTAATTTCTTATATTCTCTTAATTCATTCCTCAC
2531933 CAAATCTTCATTTAATAAACA
131 CAAATCTTCATTTAATAAACA
2531954 -TACATTTT
1 GTA-ATTTT
2531962 CATATCTTAT
Statistics
Matches: 157, Mismatches: 0, Indels: 3
0.98 0.00 0.02
Matches are distributed among these distances:
150 130 0.83
151 27 0.17
ACGTcount: A:0.31, C:0.21, G:0.03, T:0.46
Consensus pattern (151 bp):
GTAATTTTGATCACAATCCTACATATATTATCTCTCATTTTTATATGTTTCTATTTAACATTTCA
CCCATAAATTCTCGTTACATATTCTAATATCCTAATTTCTTATATTCTCTTAATTCATTCCTCAC
CAAATCTTCATTTAATAAACA
Found at i:2532215 original size:2 final size:2
Alignment explanation
Indices: 2532208--2532249 Score: 66
Period size: 2 Copynumber: 21.0 Consensus size: 2
2532198 CTTATCTATG
* *
2532208 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TT TA TT TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
2532250 GCGTTCACTA
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (2 bp):
TA
Found at i:2532584 original size:18 final size:18
Alignment explanation
Indices: 2532556--2532629 Score: 94
Period size: 18 Copynumber: 3.9 Consensus size: 18
2532546 ATTGTATATT
*
2532556 TGTCCCAAAGGACCACTA
1 TGTCCCGAAGGACCACTA
*
2532574 TGTCCTGAAGGACCACTGA
1 TGTCCCGAAGGACCACT-A
*
2532593 TTTGTCCCGAATGACCACTA
1 --TGTCCCGAAGGACCACTA
2532613 TGTCCCGAAGGACCACT
1 TGTCCCGAAGGACCACT
2532630 CGTTAAGAAC
Statistics
Matches: 48, Mismatches: 5, Indels: 6
0.81 0.08 0.10
Matches are distributed among these distances:
18 31 0.65
19 1 0.02
20 1 0.02
21 15 0.31
ACGTcount: A:0.27, C:0.31, G:0.20, T:0.22
Consensus pattern (18 bp):
TGTCCCGAAGGACCACTA
Found at i:2532609 original size:39 final size:39
Alignment explanation
Indices: 2532553--2532629 Score: 127
Period size: 39 Copynumber: 2.0 Consensus size: 39
2532543 GGCATTGTAT
*
2532553 ATTTGTCCCAAAGGACCACTATGTCCTGAAGGACCACTG
1 ATTTGTCCCAAAGGACCACTATGTCCCGAAGGACCACTG
* *
2532592 ATTTGTCCCGAATGACCACTATGTCCCGAAGGACCACT
1 ATTTGTCCCAAAGGACCACTATGTCCCGAAGGACCACT
2532630 CGTTAAGAAC
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 35 1.00
ACGTcount: A:0.27, C:0.30, G:0.19, T:0.23
Consensus pattern (39 bp):
ATTTGTCCCAAAGGACCACTATGTCCCGAAGGACCACTG
Found at i:2537332 original size:21 final size:21
Alignment explanation
Indices: 2537293--2537332 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
2537283 TTCCTACACC
*
2537293 ACTTATCTAATATCCTTTTAT
1 ACTTATCTAATATCATTTTAT
2537314 ACTTATCT-ATATACATTTT
1 ACTTATCTAATAT-CATTTT
2537333 CCATTAATTA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.30, C:0.17, G:0.00, T:0.53
Consensus pattern (21 bp):
ACTTATCTAATATCATTTTAT
Found at i:2537412 original size:2 final size:2
Alignment explanation
Indices: 2537405--2537456 Score: 104
Period size: 2 Copynumber: 26.0 Consensus size: 2
2537395 CTTATCTATG
2537405 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
2537447 TA TA TA TA TA
1 TA TA TA TA TA
2537457 GCGTTCACTA
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 50 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:2537785 original size:18 final size:18
Alignment explanation
Indices: 2537762--2537796 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
2537752 ACTGTATATT
2537762 TGTCCCGAAGGACCACTA
1 TGTCCCGAAGGACCACTA
*
2537780 TGTCCCGAAGGATCACT
1 TGTCCCGAAGGACCACT
2537797 CCTTAAGAAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.26, C:0.31, G:0.23, T:0.20
Consensus pattern (18 bp):
TGTCCCGAAGGACCACTA
Found at i:2543789 original size:80 final size:80
Alignment explanation
Indices: 2543656--2543817 Score: 324
Period size: 80 Copynumber: 2.0 Consensus size: 80
2543646 TTCCATTTCC
2543656 ACATCAGTCATTCGATTTTGCCATATCATTTTCATTTGTATATATCATCACTAACTTTACTTAGG
1 ACATCAGTCATTCGATTTTGCCATATCATTTTCATTTGTATATATCATCACTAACTTTACTTAGG
2543721 TGACAAAGTAAAGTA
66 TGACAAAGTAAAGTA
2543736 ACATCAGTCATTCGATTTTGCCATATCATTTTCATTTGTATATATCATCACTAACTTTACTTAGG
1 ACATCAGTCATTCGATTTTGCCATATCATTTTCATTTGTATATATCATCACTAACTTTACTTAGG
2543801 TGACAAAGTAAAGTA
66 TGACAAAGTAAAGTA
2543816 AC
1 AC
2543818 TTGACAAATC
Statistics
Matches: 82, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
80 82 1.00
ACGTcount: A:0.33, C:0.18, G:0.11, T:0.38
Consensus pattern (80 bp):
ACATCAGTCATTCGATTTTGCCATATCATTTTCATTTGTATATATCATCACTAACTTTACTTAGG
TGACAAAGTAAAGTA
Found at i:2558271 original size:15 final size:15
Alignment explanation
Indices: 2558248--2558286 Score: 69
Period size: 15 Copynumber: 2.6 Consensus size: 15
2558238 CTACATGGAG
2558248 CGATGAAGAAAGTTT
1 CGATGAAGAAAGTTT
*
2558263 CGATAAAGAAAGTTT
1 CGATGAAGAAAGTTT
2558278 CGATGAAGA
1 CGATGAAGA
2558287 GGAGCAAGAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.44, C:0.08, G:0.26, T:0.23
Consensus pattern (15 bp):
CGATGAAGAAAGTTT
Found at i:2562305 original size:20 final size:19
Alignment explanation
Indices: 2562278--2562338 Score: 68
Period size: 21 Copynumber: 3.0 Consensus size: 19
2562268 CATTTTGGTG
2562278 CAGAGGGAATCGATCCCCC
1 CAGAGGGAATCGATCCCCC
*
2562297 CATGAGGGAACCGATTCCCCC
1 CA-GAGGGAATCGA-TCCCCC
*
2562318 CACAGGGGAATCGATACCCCC
1 CAGA-GGGAATCGAT-CCCCC
2562339 TTGGGTTCTG
Statistics
Matches: 35, Mismatches: 3, Indels: 6
0.80 0.07 0.14
Matches are distributed among these distances:
19 2 0.06
20 12 0.34
21 21 0.60
ACGTcount: A:0.26, C:0.38, G:0.25, T:0.11
Consensus pattern (19 bp):
CAGAGGGAATCGATCCCCC
Found at i:2562317 original size:21 final size:20
Alignment explanation
Indices: 2562280--2562319 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
2562270 TTTTGGTGCA
*
2562280 GAGGGAATCGATCCCCCCAT
1 GAGGGAACCGATCCCCCCAT
2562300 GAGGGAACCGATTCCCCCCA
1 GAGGGAACCGA-TCCCCCCA
2562320 CAGGGGAATC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 10 0.56
21 8 0.44
ACGTcount: A:0.25, C:0.38, G:0.25, T:0.12
Consensus pattern (20 bp):
GAGGGAACCGATCCCCCCAT
Found at i:2571978 original size:30 final size:32
Alignment explanation
Indices: 2571942--2572001 Score: 97
Period size: 30 Copynumber: 1.9 Consensus size: 32
2571932 AAAATTGGTC
*
2571942 ATAATAATAAAT-TTTA-AAAAAATTAAACCA
1 ATAATAATAAATATTAAGAAAAAATTAAACCA
2571972 ATAATAATAAATATTAAGAAAAAATTAAAC
1 ATAATAATAAATATTAAGAAAAAATTAAAC
2572002 ACTTATTGAC
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
30 12 0.44
31 3 0.11
32 12 0.44
ACGTcount: A:0.65, C:0.05, G:0.02, T:0.28
Consensus pattern (32 bp):
ATAATAATAAATATTAAGAAAAAATTAAACCA
Found at i:2573121 original size:29 final size:28
Alignment explanation
Indices: 2573088--2573155 Score: 66
Period size: 29 Copynumber: 2.3 Consensus size: 28
2573078 TAATTGTTTT
* *
2573088 TTTAATATCTGGTTTTGTTAATTCAGTTC
1 TTTAATATCTGGTTTTATT-ATTCAGTCC
*
2573117 TTTAAGTTAT-TGGTTTTATTATTTAGTCC
1 TTTAA--TATCTGGTTTTATTATTCAGTCC
2573146 TTTAAATATC
1 TTT-AATATC
2573156 ATATTTTCTG
Statistics
Matches: 32, Mismatches: 3, Indels: 8
0.74 0.07 0.19
Matches are distributed among these distances:
28 3 0.09
29 15 0.47
30 11 0.34
31 3 0.09
ACGTcount: A:0.24, C:0.09, G:0.12, T:0.56
Consensus pattern (28 bp):
TTTAATATCTGGTTTTATTATTCAGTCC
Found at i:2575961 original size:99 final size:97
Alignment explanation
Indices: 2575772--2576029 Score: 336
Period size: 98 Copynumber: 2.6 Consensus size: 97
2575762 ATATTACATA
* * * *
2575772 TATATAATAAAGCTTGAGTTGTCCCTCTAAAGCAATTGGTTAAACTCCCGGCTCTATGGATAAGA
1 TATACAAT-AAGCTTGAGTTGTCCCTCTAGAGCAATTGGTTAAACCCCCGGCTTTATGGATAAGA
* *
2575837 TTCAACTAACCTGATAAAGGTGATTATAATGTC
65 TTCAACTAACCTGATAAAGGAGATTATAATATC
*
2575870 TATACAATAGAGCTTGAGTTGTCCCTCTAGAGCAATTGGTTAAACACCCCGGCTTTATGGATAAT
1 TATACAATA-AGCTTGAGTTGTCCCTCTAGAGCAATTGGTTAAAC-CCCCGGCTTTATGGATAAG
* *
2575935 ATTCAGCTAGCCTGATAAAGGAGATTATAATATC
64 ATTCAACTAACCTGATAAAGGAGATTATAATATC
** ** ** *
2575969 TATACAATAATATTGAACTGAACCTCTAGAGCAATTGGTTAAACGCCCCGGATTTATGGAT
1 TATACAATAAGCTTGAGTTGTCCCTCTAGAGCAATTGGTTAAAC-CCCCGGCTTTATGGAT
2576030 TCAGCTAGCT
Statistics
Matches: 141, Mismatches: 17, Indels: 4
0.87 0.10 0.02
Matches are distributed among these distances:
97 1 0.01
98 85 0.60
99 55 0.39
ACGTcount: A:0.33, C:0.18, G:0.18, T:0.31
Consensus pattern (97 bp):
TATACAATAAGCTTGAGTTGTCCCTCTAGAGCAATTGGTTAAACCCCCGGCTTTATGGATAAGAT
TCAACTAACCTGATAAAGGAGATTATAATATC
Found at i:2577094 original size:37 final size:35
Alignment explanation
Indices: 2577053--2577217 Score: 161
Period size: 36 Copynumber: 4.6 Consensus size: 35
2577043 ACAAGGGGTC
*
2577053 GTCTCGCTTAAGACTAATTTACTC-AAAACAAAGTTTT
1 GTCTCTCTTAAGAC-AATTT-CTCTAAAACAAA-TTTT
* * *
2577090 GTCTCTCTTGAGACAGTTTCTCTTGAAACAAATTTT
1 GTCTCTCTTAAGACAATTTCTC-TAAAACAAATTTT
* * *
2577126 GTCTCTCTTAAGACAGTTTCCCTTGAAACAAATTTT
1 GTCTCTCTTAAGACAATTTCTC-TAAAACAAATTTT
* * *
2577162 GTCTCTCTTGAGACAATTTCCCTTGAAACAAATTTT
1 GTCTCTCTTAAGACAATTTCTC-TAAAACAAATTTT
* *
2577198 GTCTCTCTTGAGACAGTTTC
1 GTCTCTCTTAAGACAATTTC
2577218 CCTAGAAAAA
Statistics
Matches: 117, Mismatches: 9, Indels: 5
0.89 0.07 0.04
Matches are distributed among these distances:
35 3 0.03
36 95 0.81
37 19 0.16
ACGTcount: A:0.27, C:0.21, G:0.13, T:0.39
Consensus pattern (35 bp):
GTCTCTCTTAAGACAATTTCTCTAAAACAAATTTT
Found at i:2577131 original size:36 final size:36
Alignment explanation
Indices: 2577078--2577225 Score: 251
Period size: 36 Copynumber: 4.1 Consensus size: 36
2577068 AATTTACTCA
*
2577078 AAACAAAGTTTTGTCTCTCTTGAGACAGTTTCTCTTG
1 AAACAAA-TTTTGTCTCTCTTGAGACAGTTTCCCTTG
*
2577115 AAACAAATTTTGTCTCTCTTAAGACAGTTTCCCTTG
1 AAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTTG
*
2577151 AAACAAATTTTGTCTCTCTTGAGACAATTTCCCTTG
1 AAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTTG
*
2577187 AAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTAG
1 AAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTTG
2577223 AAA
1 AAA
2577226 AAAAATCTTT
Statistics
Matches: 105, Mismatches: 6, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
36 98 0.93
37 7 0.07
ACGTcount: A:0.28, C:0.21, G:0.13, T:0.38
Consensus pattern (36 bp):
AAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTTG
Found at i:2577133 original size:21 final size:21
Alignment explanation
Indices: 2577108--2577208 Score: 84
Period size: 21 Copynumber: 5.4 Consensus size: 21
2577098 TGAGACAGTT
2577108 TCTCTTGAAACAAATTTTGTC
1 TCTCTTGAAACAAATTTTGTC
*
2577129 TCTCTT-AAGAC--A-GTT-TC
1 TCTCTTGAA-ACAAATTTTGTC
2577146 -C-CTTGAAACAAATTTTGTC
1 TCTCTTGAAACAAATTTTGTC
*
2577165 TCTCTTGAGAC-AA--TT-TC
1 TCTCTTGAAACAAATTTTGTC
2577182 -C-CTTGAAACAAATTTTGTC
1 TCTCTTGAAACAAATTTTGTC
2577201 TCTCTTGA
1 TCTCTTGA
2577209 GACAGTTTCC
Statistics
Matches: 62, Mismatches: 4, Indels: 28
0.66 0.04 0.30
Matches are distributed among these distances:
15 12 0.19
16 6 0.10
17 5 0.08
18 8 0.13
19 5 0.08
20 6 0.10
21 20 0.32
ACGTcount: A:0.27, C:0.22, G:0.11, T:0.41
Consensus pattern (21 bp):
TCTCTTGAAACAAATTTTGTC
Found at i:2577272 original size:21 final size:21
Alignment explanation
Indices: 2577244--2577309 Score: 65
Period size: 21 Copynumber: 3.5 Consensus size: 21
2577234 TTGAATATGT
2577244 TCTC-CTTGAAACAAATTTTG
1 TCTCTCTTGAAACAAATTTTG
*
2577264 TCTCTCTTGAGAC--A-TTT-
1 TCTCTCTTGAAACAAATTTTG
*
2577281 TCT-T-TTGGAACAAATTTTG
1 TCTCTCTTGAAACAAATTTTG
2577300 TCTCTCTTGA
1 TCTCTCTTGA
2577310 GACAGTTTCC
Statistics
Matches: 35, Mismatches: 4, Indels: 13
0.67 0.08 0.25
Matches are distributed among these distances:
15 5 0.14
16 1 0.03
17 4 0.11
18 6 0.17
19 4 0.11
20 5 0.14
21 10 0.29
ACGTcount: A:0.23, C:0.20, G:0.12, T:0.45
Consensus pattern (21 bp):
TCTCTCTTGAAACAAATTTTG
Found at i:2577300 original size:36 final size:36
Alignment explanation
Indices: 2577253--2577364 Score: 145
Period size: 36 Copynumber: 3.1 Consensus size: 36
2577243 TTCTCCTTGA
*
2577253 AACAAATTTTGTCTCTCTTGAGACATTTTCTTTTGG
1 AACAAATTTTGTCTCTCTTGAGACAGTTTCTTTTGG
*
2577289 AACAAATTTTGTCTCTCTTGAGACAGTTTCCTTTGG
1 AACAAATTTTGTCTCTCTTGAGACAGTTTCTTTTGG
* * * * *
2577325 -ACTAAATTTTGCCTCCCTGGAGACAGTTTCTCTTGA
1 AAC-AAATTTTGTCTCTCTTGAGACAGTTTCTTTTGG
2577361 AACA
1 AACA
2577365 CAAAAAACCT
Statistics
Matches: 66, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
35 2 0.03
36 62 0.94
37 2 0.03
ACGTcount: A:0.24, C:0.21, G:0.15, T:0.40
Consensus pattern (36 bp):
AACAAATTTTGTCTCTCTTGAGACAGTTTCTTTTGG
Found at i:2577397 original size:33 final size:34
Alignment explanation
Indices: 2577350--2577431 Score: 130
Period size: 34 Copynumber: 2.4 Consensus size: 34
2577340 CCTGGAGACA
*
2577350 GTTTCTCTTGAAACAC-AAAAAACCTTTGAAATT
1 GTTTCTCTTGAAACACAAAAAAACCTTTGAAAAT
* *
2577383 TTTTCTCTTAAAACACAAAAAAACCTTTGAAAAT
1 GTTTCTCTTGAAACACAAAAAAACCTTTGAAAAT
2577417 GTTTCTCTTGAAACA
1 GTTTCTCTTGAAACA
2577432 TAAAGACCCT
Statistics
Matches: 43, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
33 14 0.33
34 29 0.67
ACGTcount: A:0.40, C:0.18, G:0.07, T:0.34
Consensus pattern (34 bp):
GTTTCTCTTGAAACACAAAAAAACCTTTGAAAAT
Found at i:2582205 original size:21 final size:21
Alignment explanation
Indices: 2582179--2582229 Score: 84
Period size: 21 Copynumber: 2.4 Consensus size: 21
2582169 TTCCAGATTT
2582179 GCAACGCGAACATCGACTATC
1 GCAACGCGAACATCGACTATC
*
2582200 GCAACGCGAACTTCGACTATC
1 GCAACGCGAACATCGACTATC
*
2582221 GCAATGCGA
1 GCAACGCGA
2582230 TTTTCCAAAT
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:0.31, C:0.31, G:0.22, T:0.16
Consensus pattern (21 bp):
GCAACGCGAACATCGACTATC
Found at i:2582476 original size:21 final size:21
Alignment explanation
Indices: 2582225--2582518 Score: 152
Period size: 21 Copynumber: 14.1 Consensus size: 21
2582215 ACTATCGCAA
*
2582225 TGCGA-TT-TTCCAAATTCGT
1 TGCGATTTATTCCAAGTTCGT
*
2582244 TGCGA--TAGTCCAAGTTCGCGT
1 TGCGATTTATTCCAAGTT--CGT
* * *
2582265 TACGATTTATTACAAATTCGCGT
1 TGCGATTTATTCCAAGTT--CGT
*
2582288 TGCGA--TAGTCCAAGTTCGT
1 TGCGATTTATTCCAAGTTCGT
* * *
2582307 TGTGA--TAGTCGAAGTTCGCGT
1 TGCGATTTATTCCAAGTT--CGT
* *
2582328 TGAGATTTATTTCAAGTTCGT
1 TGCGATTTATTCCAAGTTCGT
* *
2582349 TGCGA--TAGTCGAAGTTCGCGT
1 TGCGATTTATTCCAAGTT--CGT
*
2582370 TGCGATTTATTCCAAATTCGT
1 TGCGATTTATTCCAAGTTCGT
* *
2582391 TGCGA--TAGTCGAAGTTCGCGT
1 TGCGATTTATTCCAAGTT--CGT
2582412 TGCGATTTATTCCAAGTTCGT
1 TGCGATTTATTCCAAGTTCGT
* *
2582433 TGCGA--TAGTCGAAGTTCGTGT
1 TGCGATTTATTCCAAGTTC--GT
*
2582454 TGCGATTTATTCCAAATTCGT
1 TGCGATTTATTCCAAGTTCGT
* * *
2582475 TGTGA--TAGTCGAAGTTCGCAT
1 TGCGATTTATTCCAAGTTCG--T
2582496 TGCGATTTATTCCAAGTTCGT
1 TGCGATTTATTCCAAGTTCGT
2582517 TG
1 TG
2582519 TGATAGTCCA
Statistics
Matches: 210, Mismatches: 40, Indels: 48
0.70 0.13 0.16
Matches are distributed among these distances:
18 1 0.00
19 65 0.31
21 82 0.39
23 62 0.30
ACGTcount: A:0.21, C:0.18, G:0.24, T:0.37
Consensus pattern (21 bp):
TGCGATTTATTCCAAGTTCGT
Found at i:2582536 original size:42 final size:42
Alignment explanation
Indices: 2582281--2582526 Score: 388
Period size: 42 Copynumber: 5.9 Consensus size: 42
2582271 TTATTACAAA
* *
2582281 TTCGCGTTGCGA--TAGTCCAAGTTCGTTGTGATAGTCGAAG
1 TTCGCGTTGCGATTTATTCCAAGTTCGTTGCGATAGTCGAAG
* *
2582321 TTCGCGTTGAGATTTATTTCAAGTTCGTTGCGATAGTCGAAG
1 TTCGCGTTGCGATTTATTCCAAGTTCGTTGCGATAGTCGAAG
*
2582363 TTCGCGTTGCGATTTATTCCAAATTCGTTGCGATAGTCGAAG
1 TTCGCGTTGCGATTTATTCCAAGTTCGTTGCGATAGTCGAAG
2582405 TTCGCGTTGCGATTTATTCCAAGTTCGTTGCGATAGTCGAAG
1 TTCGCGTTGCGATTTATTCCAAGTTCGTTGCGATAGTCGAAG
* * *
2582447 TTCGTGTTGCGATTTATTCCAAATTCGTTGTGATAGTCGAAG
1 TTCGCGTTGCGATTTATTCCAAGTTCGTTGCGATAGTCGAAG
* *
2582489 TTCGCATTGCGATTTATTCCAAGTTCGTTGTGATAGTC
1 TTCGCGTTGCGATTTATTCCAAGTTCGTTGCGATAGTC
2582527 CAAAATCGCA
Statistics
Matches: 190, Mismatches: 14, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
40 11 0.06
42 179 0.94
ACGTcount: A:0.20, C:0.17, G:0.25, T:0.37
Consensus pattern (42 bp):
TTCGCGTTGCGATTTATTCCAAGTTCGTTGCGATAGTCGAAG
Found at i:2583302 original size:12 final size:11
Alignment explanation
Indices: 2583270--2583305 Score: 56
Period size: 10 Copynumber: 3.3 Consensus size: 11
2583260 GTCCGTCTCG
2583270 GGTCGGGTCG-
1 GGTCGGGTCGT
2583280 GGTCGGGTCGT
1 GGTCGGGTCGT
2583291 GGTCGTGGTCGT
1 GGTCG-GGTCGT
2583303 GGT
1 GGT
2583306 AATACGTGTC
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
10 10 0.42
11 5 0.21
12 9 0.38
ACGTcount: A:0.00, C:0.17, G:0.56, T:0.28
Consensus pattern (11 bp):
GGTCGGGTCGT
Found at i:2583305 original size:6 final size:5
Alignment explanation
Indices: 2583267--2583301 Score: 52
Period size: 5 Copynumber: 6.6 Consensus size: 5
2583257 GTCGTCCGTC
2583267 TCGGG TCGGG TCGGG TCGGG TCGTGG TCGTGG TCG
1 TCGGG TCGGG TCGGG TCGGG TCG-GG TCG-GG TCG
2583302 TGGTAATACG
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
5 18 0.62
6 11 0.38
ACGTcount: A:0.00, C:0.20, G:0.54, T:0.26
Consensus pattern (5 bp):
TCGGG
Found at i:2583449 original size:21 final size:19
Alignment explanation
Indices: 2583395--2583804 Score: 228
Period size: 21 Copynumber: 19.7 Consensus size: 19
2583385 CGTTGCGATT
**
2583395 TTGGACTATTACAACGAAC
1 TTGGACTATCGCAACGAAC
*
2583414 TTGGAATAAATCGCAATGCGAAC
1 TTGGACT--ATCGCAA--CGAAC
*
2583437 TTCGACTATCGCAACGCGAAC
1 TTGGACTATCGCAA--CGAAC
*
2583458 TTGGACTATCGCAACGAAT
1 TTGGACTATCGCAACGAAC
*
2583477 TTGGAATAAATCGCAACGCGAAC
1 TTGGACT--ATCGCAA--CGAAC
*
2583500 TTCGACTATCGCAACGAAC
1 TTGGACTATCGCAACGAAC
* * *
2583519 TTGGAATAAATCGCAATGAAT
1 TTGGACT--ATCGCAACGAAC
*
2583540 TTGGAATAAATCGCAACGCGAAC
1 TTGGACT--ATCGCAA--CGAAC
* * *
2583563 TTCGACTATTGCAACGAAT
1 TTGGACTATCGCAACGAAC
*
2583582 TTGGAATAAATCGCAACGAAC
1 TTGGACT--ATCGCAACGAAC
*
2583603 TTGGAATAAATCGCAACGCGAA-
1 TTGGACT--ATCGCAA--CGAAC
* *
2583625 TTCGACTATCGCAACGAAT
1 TTGGACTATCGCAACGAAC
*
2583644 TTGGAATAAATCGCAACGAAC
1 TTGGACT--ATCGCAACGAAC
*
2583665 TTGGAATAAATCGCAACGCGAAC
1 TTGGACT--ATCGCAA--CGAAC
* *
2583688 TTCGACTATCGCAACGAAT
1 TTGGACTATCGCAACGAAC
*
2583707 TTGGAATAAATCGCAACGCGAAC
1 TTGGACT--ATCGCAA--CGAAC
*
2583730 TTCGACTATCGCAACGAAC
1 TTGGACTATCGCAACGAAC
* *
2583749 TTAGACTATCGCAACGAAT
1 TTGGACTATCGCAACGAAC
* *
2583768 TTGTAATAAATCGCAACGCGAAC
1 TTGGACT--ATCGCAA--CGAAC
*
2583791 TTCGACTATCGCAA
1 TTGGACTATCGCAA
2583805 ATCAGTTTCC
Statistics
Matches: 314, Mismatches: 48, Indels: 56
0.75 0.11 0.13
Matches are distributed among these distances:
18 4 0.01
19 75 0.24
20 7 0.02
21 165 0.53
22 5 0.02
23 58 0.18
ACGTcount: A:0.37, C:0.22, G:0.19, T:0.22
Consensus pattern (19 bp):
TTGGACTATCGCAACGAAC
Found at i:2583452 original size:42 final size:41
Alignment explanation
Indices: 2583406--2583785 Score: 275
Period size: 42 Copynumber: 9.1 Consensus size: 41
2583396 TGGACTATTA
*
2583406 CAACGAACTTGGAATAAATCGCAATGCGAACTTCGACT-ATCG
1 CAACGAACTTGGAATAAATCGCAA--CGAACTTCGAATAATCG
* * *
2583448 CAACGCGAACTTGGACT--ATCGCAACGAATTTGGAATAAATCG
1 CAA--CGAACTTGGAATAAATCGCAACGAACTTCGAAT-AATCG
* * *
2583490 CAACGCGAACTTCGACT--ATCGCAACGAACTTGGAATAAATCG
1 CAA--CGAACTTGGAATAAATCGCAACGAACTTCGAAT-AATCG
* * * *
2583532 CAATGAATTTGGAATAAATCGCAACGCGAACTTCGACT-ATTG
1 CAACGAACTTGGAATAAATCGCAA--CGAACTTCGAATAATCG
* *
2583574 CAACGAATTTGGAATAAATCGCAACGAACTTGGAATAAATCG
1 CAACGAACTTGGAATAAATCGCAACGAACTTCGAAT-AATCG
* * * *
2583616 CAACGCGAA-TTCGACT--ATCGCAACGAATTTGGAATAAATCG
1 CAA--CGAACTTGGAATAAATCGCAACGAACTTCGAAT-AATCG
*
2583657 CAACGAACTTGGAATAAATCGCAACGCGAACTTCGACT-ATCG
1 CAACGAACTTGGAATAAATCGCAA--CGAACTTCGAATAATCG
* *
2583699 CAACGAATTTGGAATAAATCGCAACGCGAACTTCGACT-ATCG
1 CAACGAACTTGGAATAAATCGCAA--CGAACTTCGAATAATCG
* * *
2583741 CAACGAACTTAGACT--ATCGCAACGAA-TTTGTAATAAATCG
1 CAACGAACTTGGAATAAATCGCAACGAACTTCG-AAT-AATCG
2583781 CAACG
1 CAACG
2583786 CGAACTTCGA
Statistics
Matches: 287, Mismatches: 31, Indels: 42
0.80 0.09 0.12
Matches are distributed among these distances:
37 3 0.01
38 6 0.02
39 4 0.01
40 48 0.17
41 27 0.09
42 160 0.56
43 5 0.02
44 34 0.12
ACGTcount: A:0.37, C:0.22, G:0.19, T:0.22
Consensus pattern (41 bp):
CAACGAACTTGGAATAAATCGCAACGAACTTCGAATAATCG
Found at i:2583475 original size:63 final size:62
Alignment explanation
Indices: 2583406--2583785 Score: 511
Period size: 63 Copynumber: 6.1 Consensus size: 62
2583396 TGGACTATTA
* *
2583406 CAACGAACTTGGAATAAATCGCAATGCGAACTTCGACTATCGCAACGCGAACTTGGACT-ATCG
1 CAACGAACTTGGAATAAATCGCAACGCGAACTTCGACTATCGCAA--CGAACTTGGAATAATCG
*
2583469 CAACGAATTTGGAATAAATCGCAACGCGAACTTCGACTATCGCAACGAACTTGGAATAAATCG
1 CAACGAACTTGGAATAAATCGCAACGCGAACTTCGACTATCGCAACGAACTTGGAAT-AATCG
* * * *
2583532 CAATGAATTTGGAATAAATCGCAACGCGAACTTCGACTATTGCAACGAATTTGGAATAAATCG
1 CAACGAACTTGGAATAAATCGCAACGCGAACTTCGACTATCGCAACGAACTTGGAAT-AATCG
*
2583595 CAACGAACTTGGAATAAATCGCAACGCGAA-TTCGACTATCGCAACGAATTTGGAATAAATCG
1 CAACGAACTTGGAATAAATCGCAACGCGAACTTCGACTATCGCAACGAACTTGGAAT-AATCG
*
2583657 CAACGAACTTGGAATAAATCGCAACGCGAACTTCGACTATCGCAACGAATTTGGAATAAATCG
1 CAACGAACTTGGAATAAATCGCAACGCGAACTTCGACTATCGCAACGAACTTGGAAT-AATCG
* * * * *
2583720 CAACGCGAACTTCGACT--ATCGCAA--CGAACTTAGACTATCGCAACGAATTTGTAATAAATCG
1 CAA--CGAACTTGGAATAAATCGCAACGCGAACTTCGACTATCGCAACGAACTTGGAAT-AATCG
2583781 CAACG
1 CAACG
2583786 CGAACTTCGA
Statistics
Matches: 299, Mismatches: 13, Indels: 14
0.92 0.04 0.04
Matches are distributed among these distances:
59 2 0.01
61 49 0.16
62 61 0.20
63 177 0.59
65 10 0.03
ACGTcount: A:0.37, C:0.22, G:0.19, T:0.22
Consensus pattern (62 bp):
CAACGAACTTGGAATAAATCGCAACGCGAACTTCGACTATCGCAACGAACTTGGAATAATCG
Found at i:2583845 original size:21 final size:20
Alignment explanation
Indices: 2583819--2583871 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 20
2583809 GTTTCCAGAT
*
2583819 TCGCAACGCGAACTTCGACTA
1 TCGCAA-GCGAACTTGGACTA
2583840 TCGCAACGCGAACTTGGACTA
1 TCGCAA-GCGAACTTGGACTA
2583861 TCGCAATGCGA
1 TCGCAA-GCGA
2583872 TAGTCGAAGT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.28, C:0.30, G:0.23, T:0.19
Consensus pattern (20 bp):
TCGCAAGCGAACTTGGACTA
Found at i:2583950 original size:35 final size:35
Alignment explanation
Indices: 2583904--2583976 Score: 128
Period size: 35 Copynumber: 2.1 Consensus size: 35
2583894 TCTGGAAACT
* *
2583904 GATTTGTGATACCGGAGATCGCGTTGCGAATTATC
1 GATTTGCGATACCGGAGATCACGTTGCGAATTATC
2583939 GATTTGCGATACCGGAGATCACGTTGCGAATTATC
1 GATTTGCGATACCGGAGATCACGTTGCGAATTATC
2583974 GAT
1 GAT
2583977 CGCATTGCGA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.25, C:0.18, G:0.27, T:0.30
Consensus pattern (35 bp):
GATTTGCGATACCGGAGATCACGTTGCGAATTATC
Found at i:2589040 original size:3 final size:3
Alignment explanation
Indices: 2589025--2589069 Score: 54
Period size: 3 Copynumber: 15.0 Consensus size: 3
2589015 CCCGTTCCAG
* * * *
2589025 TTA TTA ATA TTA TTA TTA CTA CTA CTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
2589070 CAAGCCCAAT
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.36, C:0.07, G:0.00, T:0.58
Consensus pattern (3 bp):
TTA
Found at i:2590457 original size:64 final size:64
Alignment explanation
Indices: 2590387--2590546 Score: 223
Period size: 65 Copynumber: 2.5 Consensus size: 64
2590377 TGCACTAAGA
* * * * *
2590387 GTGCATCGATGCATGAAGTGCATTCGATGTTTCA-AACAAGCCAGAGTGCATCGATGCATGGTCT
1 GTGCATCGATGCATAAAATGCATTCGATGTTTCATAA-AACCCAGAGTGCATCAATGCATGGTAT
*
2590451 GTGCATCGATGCATAAAATGCATTCGATGTTTTCATAAAACCCTGAGTGCATCAATGCATGGTAT
1 GTGCATCGATGCATAAAATGCATTCGATG-TTTCATAAAACCCAGAGTGCATCAATGCATGGTAT
* *
2590516 GTGTATCAATGCATAAAATGCATTCGATGTT
1 GTGCATCGATGCATAAAATGCATTCGATGTT
2590547 CAATTTATTC
Statistics
Matches: 86, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
64 29 0.34
65 55 0.64
66 2 0.02
ACGTcount: A:0.29, C:0.18, G:0.23, T:0.30
Consensus pattern (64 bp):
GTGCATCGATGCATAAAATGCATTCGATGTTTCATAAAACCCAGAGTGCATCAATGCATGGTAT
Found at i:2593339 original size:21 final size:23
Alignment explanation
Indices: 2593283--2593339 Score: 73
Period size: 23 Copynumber: 2.6 Consensus size: 23
2593273 GCATGGCCTT
2593283 GTGCATCGATGCACATTCAATGA
1 GTGCATCGATGCACATTCAATGA
* *
2593306 GTGCATCGGTGCACCTTC-ATG-
1 GTGCATCGATGCACATTCAATGA
*
2593327 GTGTATCGATGCA
1 GTGCATCGATGCA
2593340 TCAAGCACAA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
21 11 0.37
22 3 0.10
23 16 0.53
ACGTcount: A:0.23, C:0.23, G:0.26, T:0.28
Consensus pattern (23 bp):
GTGCATCGATGCACATTCAATGA
Found at i:2598181 original size:65 final size:66
Alignment explanation
Indices: 2598055--2598217 Score: 192
Period size: 65 Copynumber: 2.5 Consensus size: 66
2598045 TGGACCCTTA
* * *
2598055 GTGCATCGATTCACTAAGAATGCATTCGATGTTTCAAACAAGCCAGAGTACATTGATGCATGGTA
1 GTGCATCGATGCACTAAGAATGCATTCGATGTTTCAAACAACCCAGAGTACATCGATGCATGGTA
2598120 T
66 T
* * * *
2598121 GTGCATCGATGCAC-AA-AATGCATTTGGTGTTTTCATAA-AACCCTGAGTGCATCGATGCATGG
1 GTGCATCGATGCACTAAGAATGCATTCGATG-TTTCA-AACAACCCAGAGTACATCGATGCATGG
2598183 TAT
64 TAT
**
2598186 GTGCATCGATG-TGTAA-AATGCATTCGATGTTT
1 GTGCATCGATGCACTAAGAATGCATTCGATGTTT
2598218 AATTTATTCA
Statistics
Matches: 83, Mismatches: 11, Indels: 8
0.81 0.11 0.08
Matches are distributed among these distances:
64 14 0.17
65 54 0.65
66 15 0.18
ACGTcount: A:0.29, C:0.17, G:0.23, T:0.31
Consensus pattern (66 bp):
GTGCATCGATGCACTAAGAATGCATTCGATGTTTCAAACAACCCAGAGTACATCGATGCATGGTA
T
Found at i:2600482 original size:238 final size:239
Alignment explanation
Indices: 2600037--2600514 Score: 924
Period size: 238 Copynumber: 2.0 Consensus size: 239
2600027 TTAAAATGAT
2600037 ATTAAAAGTCTAAAGATCAACTTATAATCTAAACCAAAATTTTATGTATCCCAACACTAATTTTA
1 ATTAAAAG-CTAAAGATCAACTTATAATCTAAACCAAAATTTTATGTATCCCAACACTAATTTTA
2600102 ATCATACCGGCCGTTACATCCATTCTCATGATAACAGCAACTACAAACTAACATCACTGGCACCA
65 ATCATACCGGCCGTTACATCCATTCTCATGATAACAGCAACTACAAACTAACATCACTGGCACCA
2600167 ATGTTTTTAACAATACGTAATCTCATACTCACAAGTAACTACTAACTAACTAGTATTAGTTTCAT
130 ATGTTTTTAACAATACGTAATCTCATACTCACAAGTAACTACTAACTAACTAGTATTAGTTTCAT
2600232 CACTAATTTATTTTAATCGAAATCAAACTCATCATCTTTCTAAAA
195 CACTAATTTATTTTAATCGAAATCAAACTCATCATCTTTCTAAAA
2600277 ATTAAAAG-TAAAGATCAACTTATAATCTAAACCAAAATTTTATGTATCCCAACACTAATTTTAA
1 ATTAAAAGCTAAAGATCAACTTATAATCTAAACCAAAATTTTATGTATCCCAACACTAATTTTAA
2600341 TCATACCGGCCGTTACATCCATTCTCATGATAACAGCAACTACAAACTAACATCACTGGCACCAA
66 TCATACCGGCCGTTACATCCATTCTCATGATAACAGCAACTACAAACTAACATCACTGGCACCAA
2600406 TGTTTTTAACAATACGTAATCTCATACTCACAAGTAACTACTAACTAA-TAGTATTAGTTTCATC
131 TGTTTTTAACAATACGTAATCTCATACTCACAAGTAACTACTAACTAACTAGTATTAGTTTCATC
2600470 ACTAATTTTATTTTAATCGAAATCAAACTCATCATCTTTCTAAAA
196 ACTAA-TTTATTTTAATCGAAATCAAACTCATCATCTTTCTAAAA
2600515 TGGAACTCGG
Statistics
Matches: 237, Mismatches: 0, Indels: 4
0.98 0.00 0.02
Matches are distributed among these distances:
237 21 0.09
238 208 0.88
240 8 0.03
ACGTcount: A:0.39, C:0.22, G:0.07, T:0.32
Consensus pattern (239 bp):
ATTAAAAGCTAAAGATCAACTTATAATCTAAACCAAAATTTTATGTATCCCAACACTAATTTTAA
TCATACCGGCCGTTACATCCATTCTCATGATAACAGCAACTACAAACTAACATCACTGGCACCAA
TGTTTTTAACAATACGTAATCTCATACTCACAAGTAACTACTAACTAACTAGTATTAGTTTCATC
ACTAATTTATTTTAATCGAAATCAAACTCATCATCTTTCTAAAA
Found at i:2603115 original size:42 final size:41
Alignment explanation
Indices: 2603068--2603187 Score: 125
Period size: 42 Copynumber: 2.9 Consensus size: 41
2603058 ACAGGCTCTA
* * * * *
2603068 AATTTTTAAATCATATCTTTTATTTTTATAATTGAGATTTTT
1 AATTTTTTAATCTTATTTTTTATATTTATAATTGAG-TTGTT
* * * *
2603110 AATTTTTTAATTTTATTTTTTCTCTTTAT-AGTGACGTTGTT
1 AATTTTTTAATCTTATTTTTTATATTTATAATTGA-GTTGTT
2603151 AATTTTTGTAATCTTATTTTTTATATTTATAATTGAG
1 AATTTTT-TAATCTTATTTTTTATATTTATAATTGAG
2603188 GTCCTTAATT
Statistics
Matches: 63, Mismatches: 12, Indels: 6
0.78 0.15 0.07
Matches are distributed among these distances:
41 15 0.24
42 44 0.70
43 4 0.06
ACGTcount: A:0.27, C:0.05, G:0.07, T:0.61
Consensus pattern (41 bp):
AATTTTTTAATCTTATTTTTTATATTTATAATTGAGTTGTT
Found at i:2603319 original size:40 final size:42
Alignment explanation
Indices: 2603264--2603379 Score: 118
Period size: 44 Copynumber: 2.8 Consensus size: 42
2603254 ATTTCACTTC
2603264 TTACCTTTACT-ATTGAAACCTCTAATTTTTTT-CTC-ATTTT
1 TTACCTTTA-TAATTGAAACCTCTAATTTTTTTACTCAATTTT
* *
2603304 TTACCTTTATAATTGAAGCC-CATAGTTTTTTTAAGCTCAATTTT
1 TTACCTTTATAATTGAAACCTC-TAATTTTTTT-A-CTCAATTTT
2603348 TTACCTTTATAATT-AAGA-CTCCTAATTTTTTT
1 TTACCTTTATAATTGAA-ACCT-CTAATTTTTTT
2603380 TCAATCCCAC
Statistics
Matches: 63, Mismatches: 4, Indels: 14
0.78 0.05 0.17
Matches are distributed among these distances:
39 2 0.03
40 26 0.41
43 6 0.10
44 28 0.44
45 1 0.02
ACGTcount: A:0.26, C:0.17, G:0.05, T:0.52
Consensus pattern (42 bp):
TTACCTTTATAATTGAAACCTCTAATTTTTTTACTCAATTTT
Found at i:2604578 original size:27 final size:27
Alignment explanation
Indices: 2604547--2604606 Score: 120
Period size: 27 Copynumber: 2.2 Consensus size: 27
2604537 ATCTCTGTTG
2604547 ATGAATGCAAATGTGTTATGATTGGTT
1 ATGAATGCAAATGTGTTATGATTGGTT
2604574 ATGAATGCAAATGTGTTATGATTGGTT
1 ATGAATGCAAATGTGTTATGATTGGTT
2604601 ATGAAT
1 ATGAAT
2604607 TCTCAAGAGT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 33 1.00
ACGTcount: A:0.32, C:0.03, G:0.25, T:0.40
Consensus pattern (27 bp):
ATGAATGCAAATGTGTTATGATTGGTT
Found at i:2605906 original size:16 final size:16
Alignment explanation
Indices: 2605885--2605917 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
2605875 TAATAAATAA
*
2605885 ACGAACATAAACGAAC
1 ACGAACATAAACAAAC
2605901 ACGAACATAAACAAAC
1 ACGAACATAAACAAAC
2605917 A
1 A
2605918 AATTTTTTTG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.61, C:0.24, G:0.09, T:0.06
Consensus pattern (16 bp):
ACGAACATAAACAAAC
Found at i:2606009 original size:16 final size:16
Alignment explanation
Indices: 2605988--2606027 Score: 71
Period size: 16 Copynumber: 2.5 Consensus size: 16
2605978 TAAATAAACA
2605988 AACATAAAAGAACACG
1 AACATAAAAGAACACG
*
2606004 AACATAAATGAACACG
1 AACATAAAAGAACACG
2606020 AACATAAA
1 AACATAAA
2606028 CGTTGGAGAC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.62, C:0.17, G:0.10, T:0.10
Consensus pattern (16 bp):
AACATAAAAGAACACG
Found at i:2607121 original size:14 final size:13
Alignment explanation
Indices: 2607104--2607149 Score: 53
Period size: 14 Copynumber: 3.6 Consensus size: 13
2607094 GATTGAGTTA
2607104 AACATAAATGAATG
1 AACATAAATGAA-G
2607118 AACAT-AA--AAG
1 AACATAAATGAAG
2607128 AACATAAATGAACG
1 AACATAAATGAA-G
2607142 AACATAAA
1 AACATAAA
2607150 CGAACATAAC
Statistics
Matches: 28, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
10 6 0.21
11 4 0.14
13 4 0.14
14 14 0.50
ACGTcount: A:0.63, C:0.11, G:0.11, T:0.15
Consensus pattern (13 bp):
AACATAAATGAAG
Found at i:2607136 original size:24 final size:24
Alignment explanation
Indices: 2607104--2607182 Score: 122
Period size: 24 Copynumber: 3.3 Consensus size: 24
2607094 GATTGAGTTA
* *
2607104 AACATAAATGAATGAACATAAAAG
1 AACATAAATGAACGAACATAAACG
2607128 AACATAAATGAACGAACATAAACG
1 AACATAAATGAACGAACATAAACG
**
2607152 AACATAACCGAACGAACATAAACG
1 AACATAAATGAACGAACATAAACG
2607176 AACATAA
1 AACATAA
2607183 CCGAACGTTC
Statistics
Matches: 51, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 51 1.00
ACGTcount: A:0.59, C:0.16, G:0.11, T:0.13
Consensus pattern (24 bp):
AACATAAATGAACGAACATAAACG
Found at i:2607154 original size:14 final size:14
Alignment explanation
Indices: 2607127--2607178 Score: 58
Period size: 14 Copynumber: 4.0 Consensus size: 14
2607117 GAACATAAAA
*
2607127 GAACATAAATGAAC
1 GAACATAAACGAAC
2607141 GAACAT--A--AAC
1 GAACATAAACGAAC
*
2607151 GAACATAACCGAAC
1 GAACATAAACGAAC
2607165 GAACATAAACGAAC
1 GAACATAAACGAAC
2607179 ATAACCGAAC
Statistics
Matches: 32, Mismatches: 2, Indels: 8
0.76 0.05 0.19
Matches are distributed among these distances:
10 9 0.28
12 1 0.03
14 22 0.69
ACGTcount: A:0.56, C:0.21, G:0.13, T:0.10
Consensus pattern (14 bp):
GAACATAAACGAAC
Found at i:2607158 original size:34 final size:34
Alignment explanation
Indices: 2607117--2607213 Score: 97
Period size: 34 Copynumber: 2.9 Consensus size: 34
2607107 ATAAATGAAT
*
2607117 GAACATAAAAGAACATAAATGAACGAACATAAAC
1 GAACATAAACGAACATAAATGAACGAACATAAAC
* * * *
2607151 GAACATAACCGAACGA-ACATAAACGAACATAACC
1 GAACATAAACGAAC-ATAAATGAACGAACATAAAC
* ** *
2607185 GAACGTTCACGAACGTAAATGAACGAACA
1 GAACATAAACGAACATAAATGAACGAACA
2607214 AGACCTATGT
Statistics
Matches: 49, Mismatches: 12, Indels: 4
0.75 0.18 0.06
Matches are distributed among these distances:
34 48 0.98
35 1 0.02
ACGTcount: A:0.54, C:0.21, G:0.14, T:0.11
Consensus pattern (34 bp):
GAACATAAACGAACATAAATGAACGAACATAAAC
Found at i:2607187 original size:10 final size:10
Alignment explanation
Indices: 2607138--2607188 Score: 57
Period size: 10 Copynumber: 4.7 Consensus size: 10
2607128 AACATAAATG
2607138 AACGAACATA
1 AACGAACATA
2607148 AACGAACATAA
1 AACGAACAT-A
2607159 CCGAACGAACATA
1 ---AACGAACATA
2607172 AACGAACATA
1 AACGAACATA
*
2607182 ACCGAAC
1 AACGAAC
2607189 GTTCACGAAC
Statistics
Matches: 36, Mismatches: 1, Indels: 8
0.80 0.02 0.18
Matches are distributed among these distances:
10 25 0.69
11 1 0.03
13 1 0.03
14 9 0.25
ACGTcount: A:0.55, C:0.25, G:0.12, T:0.08
Consensus pattern (10 bp):
AACGAACATA
Found at i:2607189 original size:14 final size:14
Alignment explanation
Indices: 2607148--2607189 Score: 56
Period size: 14 Copynumber: 3.3 Consensus size: 14
2607138 AACGAACATA
2607148 AACGAACATAACCG
1 AACGAACATAACCG
2607162 AACGAACAT-A---
1 AACGAACATAACCG
2607172 AACGAACATAACCG
1 AACGAACATAACCG
2607186 AACG
1 AACG
2607190 TTCACGAACG
Statistics
Matches: 24, Mismatches: 0, Indels: 8
0.75 0.00 0.25
Matches are distributed among these distances:
10 9 0.38
11 1 0.04
13 1 0.04
14 13 0.54
ACGTcount: A:0.52, C:0.26, G:0.14, T:0.07
Consensus pattern (14 bp):
AACGAACATAACCG
Found at i:2611110 original size:49 final size:49
Alignment explanation
Indices: 2611040--2611155 Score: 153
Period size: 49 Copynumber: 2.4 Consensus size: 49
2611030 CATGGTGAGG
** *
2611040 ATGTTGATGAATGCAGCTTGAAGCGTTGCATG-ATTGTTGAGCAGGATGA
1 ATGTTGATGAATGCAAATTGAAGCGTTG-AAGCATTGTTGAGCAGGATGA
* * * *
2611089 ATGTTGATGAATGCAAATTGAAGTGTTGAAGCTTTGTTGAGTAGGGTGA
1 ATGTTGATGAATGCAAATTGAAGCGTTGAAGCATTGTTGAGCAGGATGA
2611138 ATGTTGATGAATGCAAAT
1 ATGTTGATGAATGCAAAT
2611156 GTGTTATGAT
Statistics
Matches: 59, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
48 2 0.03
49 57 0.97
ACGTcount: A:0.29, C:0.07, G:0.31, T:0.33
Consensus pattern (49 bp):
ATGTTGATGAATGCAAATTGAAGCGTTGAAGCATTGTTGAGCAGGATGA
Found at i:2611280 original size:28 final size:28
Alignment explanation
Indices: 2611249--2611304 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
2611239 TGCTGTTACC
2611249 CGCTGAACGATTGTATGCATGAGTTTGT
1 CGCTGAACGATTGTATGCATGAGTTTGT
2611277 CGCTGAACGATTGTATGCATGAGTTTGT
1 CGCTGAACGATTGTATGCATGAGTTTGT
2611305 TAAGGAGCAG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.21, C:0.14, G:0.29, T:0.36
Consensus pattern (28 bp):
CGCTGAACGATTGTATGCATGAGTTTGT
Found at i:2627462 original size:18 final size:18
Alignment explanation
Indices: 2627439--2627473 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
2627429 TTCCATCCGG
*
2627439 TCTTATTATTTAATTCAA
1 TCTTATCATTTAATTCAA
*
2627457 TCTTATCATTTACTTCA
1 TCTTATCATTTAATTCA
2627474 GTCCTTTCGA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.29, C:0.17, G:0.00, T:0.54
Consensus pattern (18 bp):
TCTTATCATTTAATTCAA
Found at i:2628789 original size:13 final size:13
Alignment explanation
Indices: 2628771--2628795 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2628761 CGGTCAACGG
2628771 GTCAACGGGTCGA
1 GTCAACGGGTCGA
2628784 GTCAACGGGTCG
1 GTCAACGGGTCG
2628796 GGTCGGGTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.20, C:0.24, G:0.40, T:0.16
Consensus pattern (13 bp):
GTCAACGGGTCGA
Found at i:2640271 original size:17 final size:17
Alignment explanation
Indices: 2640249--2640282 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
2640239 TTATTTATAC
2640249 ATTTTAGTATTAATTTA
1 ATTTTAGTATTAATTTA
*
2640266 ATTTTAGTTTTAATTTA
1 ATTTTAGTATTAATTTA
2640283 TTATCTAATC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.32, C:0.00, G:0.06, T:0.62
Consensus pattern (17 bp):
ATTTTAGTATTAATTTA
Found at i:2646483 original size:2 final size:2
Alignment explanation
Indices: 2646476--2646525 Score: 100
Period size: 2 Copynumber: 25.0 Consensus size: 2
2646466 CCTACAAAGG
2646476 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2646518 AT AT AT AT
1 AT AT AT AT
2646526 CTTGAAAACT
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 48 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2657881 original size:3 final size:3
Alignment explanation
Indices: 2657873--2657902 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
2657863 CTTATTTATA
2657873 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
2657903 TCTCTTTTTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:2658776 original size:21 final size:19
Alignment explanation
Indices: 2658747--2658799 Score: 52
Period size: 21 Copynumber: 2.6 Consensus size: 19
2658737 ACATATTATC
*
2658747 AATCGAAAATACAGAAGGTAA
1 AATCTAAAATA-A-AAGGTAA
*
2658768 AATCTAAAAGGTAAAATGTAA
1 AATCTAAAA--TAAAAGGTAA
2658789 AATCTAAAATA
1 AATCTAAAATA
2658800 TATACTAATT
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
19 2 0.07
21 23 0.82
22 1 0.04
23 2 0.07
ACGTcount: A:0.58, C:0.08, G:0.13, T:0.21
Consensus pattern (19 bp):
AATCTAAAATAAAAGGTAA
Found at i:2658798 original size:14 final size:14
Alignment explanation
Indices: 2658761--2658790 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
2658751 GAAAATACAG
2658761 AAGGTAAAATCTAA
1 AAGGTAAAATCTAA
*
2658775 AAGGTAAAATGTAA
1 AAGGTAAAATCTAA
2658789 AA
1 AA
2658791 TCTAAAATAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.60, C:0.03, G:0.17, T:0.20
Consensus pattern (14 bp):
AAGGTAAAATCTAA
Found at i:2661060 original size:20 final size:20
Alignment explanation
Indices: 2661004--2661060 Score: 51
Period size: 20 Copynumber: 2.9 Consensus size: 20
2660994 ATCGATATAT
* *
2661004 GTATCGATACTTCTTTAACA
1 GTATCGATACTACTATAACA
* * ** *
2661024 ATATCGGTACTGTTATAGCA
1 GTATCGATACTACTATAACA
2661044 GTATCGATACTACTATA
1 GTATCGATACTACTATA
2661061 TTTAAAAATC
Statistics
Matches: 27, Mismatches: 10, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.32, C:0.18, G:0.14, T:0.37
Consensus pattern (20 bp):
GTATCGATACTACTATAACA
Found at i:2670358 original size:93 final size:93
Alignment explanation
Indices: 2670237--2670422 Score: 313
Period size: 93 Copynumber: 2.0 Consensus size: 93
2670227 TTTGTAGATA
* *
2670237 TAATCTTCAATCTGAAGAATTTGATCAAATTACTTTTCCATTCAACCACCAAAGCCTTTGTACAA
1 TAATCTTCAATCTGAAGAATTTGATCAAACTACTTTTCCACTCAACCACCAAAG-CTTTGTACAA
2670302 ATATTTGG-CCCATCCTTCAACCTAAAGCT
65 ATATTTGGCCCCATCCTTC-ACCTAAAGCT
*
2670331 TAATCTTCAATC-GAAGAATTTGGTCAAACTACTTTTCCACTCAACCACCAAAGCTTTGTACAAA
1 TAATCTTCAATCTGAAGAATTTGATCAAACTACTTTTCCACTCAACCACCAAAGCTTTGTACAAA
2670395 TATTTGGCCCCATCCTTCACCTAAAGCT
66 TATTTGGCCCCATCCTTCACCTAAAGCT
2670423 GATATCCCCT
Statistics
Matches: 88, Mismatches: 3, Indels: 4
0.93 0.03 0.04
Matches are distributed among these distances:
92 28 0.32
93 48 0.55
94 12 0.14
ACGTcount: A:0.32, C:0.27, G:0.09, T:0.32
Consensus pattern (93 bp):
TAATCTTCAATCTGAAGAATTTGATCAAACTACTTTTCCACTCAACCACCAAAGCTTTGTACAAA
TATTTGGCCCCATCCTTCACCTAAAGCT
Found at i:2671673 original size:21 final size:21
Alignment explanation
Indices: 2671639--2671686 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
2671629 ACTGAAAATA
2671639 TTATTATTTTTATCGATTTTG
1 TTATTATTTTTATCGATTTTG
2671660 TTATT-TTTTCTATCGA-TTT-
1 TTATTATTTT-TATCGATTTTG
2671679 TTATTATT
1 TTATTATT
2671687 GTTGGGCACT
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
19 5 0.20
20 9 0.36
21 11 0.44
ACGTcount: A:0.19, C:0.06, G:0.06, T:0.69
Consensus pattern (21 bp):
TTATTATTTTTATCGATTTTG
Found at i:2678027 original size:31 final size:31
Alignment explanation
Indices: 2677984--2678048 Score: 112
Period size: 31 Copynumber: 2.1 Consensus size: 31
2677974 CAAAACCTAC
*
2677984 TATTTTAATTCACGTTGTCTTCTTGTAAGGA
1 TATTTTAATTCACATTGTCTTCTTGTAAGGA
*
2678015 TATTTTATTTCACATTGTCTTCTTGTAAGGA
1 TATTTTAATTCACATTGTCTTCTTGTAAGGA
2678046 TAT
1 TAT
2678049 ATATATATAT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.23, C:0.12, G:0.14, T:0.51
Consensus pattern (31 bp):
TATTTTAATTCACATTGTCTTCTTGTAAGGA
Found at i:2678117 original size:20 final size:20
Alignment explanation
Indices: 2678094--2678132 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
2678084 TCATTTACTT
2678094 ATTACTTAACTT-TTATTTTA
1 ATTACTTAA-TTATTATTTTA
2678114 ATTACTTAATTATTATTTT
1 ATTACTTAATTATTATTTT
2678133 TAAAATCATT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 2 0.11
20 16 0.89
ACGTcount: A:0.31, C:0.08, G:0.00, T:0.62
Consensus pattern (20 bp):
ATTACTTAATTATTATTTTA
Found at i:2684146 original size:19 final size:19
Alignment explanation
Indices: 2684110--2684164 Score: 56
Period size: 19 Copynumber: 2.8 Consensus size: 19
2684100 TAAAGGAAAG
** *
2684110 AAAATATATTATTAATTTA
1 AAAATATAAAATTTATTTA
2684129 AAAATATAAAATTTATTTA
1 AAAATATAAAATTTATTTA
*
2684148 AACTATATAAAAATTTA
1 AA-AATAT-AAAATTTA
2684165 AAATTTTTAA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
19 18 0.60
20 4 0.13
21 8 0.27
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (19 bp):
AAAATATAAAATTTATTTA
Found at i:2684462 original size:59 final size:60
Alignment explanation
Indices: 2684398--2684513 Score: 146
Period size: 60 Copynumber: 1.9 Consensus size: 60
2684388 ACATATTTTA
* * * * *
2684398 AAATTATGATTCTTATT-TAAATTAGTC-TCTAAATTTTTAAATATTTTAATTTCATCCAT
1 AAATTATGACTCTCATTATAAATTAATCATC-AAACTTTTAAACATTTTAATTTCATCCAT
* *
2684457 AAATTATGACTCTCATTATAAATTAATCATCAACCTTTTGAACATTTTAATTTCATC
1 AAATTATGACTCTCATTATAAATTAATCATCAAACTTTTAAACATTTTAATTTCATC
2684514 GCCAAACTAA
Statistics
Matches: 48, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
59 15 0.31
60 31 0.65
61 2 0.04
ACGTcount: A:0.36, C:0.14, G:0.03, T:0.47
Consensus pattern (60 bp):
AAATTATGACTCTCATTATAAATTAATCATCAAACTTTTAAACATTTTAATTTCATCCAT
Found at i:2685045 original size:308 final size:297
Alignment explanation
Indices: 2684585--2685137 Score: 804
Period size: 308 Copynumber: 1.8 Consensus size: 297
2684575 CGAACTATAG
* *
2684585 ATATATTGATCACGCCACTTGTTAATAAAACCATTAAACCAAGCTATATTATTATATGTTTAGAA
1 ATATATTGATCACGCCACTTCTTAATAAAACCATTAAACCAAGCTATATAATTATATGTTTAGAA
* * * * *
2684650 AGAAATTTAGGATTAAACTATGCTTGAAGCTAATTATATATTTTGATGAATTTGGAGATAAATTT
66 AAAAATTTAGGATTAAACAATGATTGAAGCTAATTATATATTTGGATGAATTTAGAGATAAATTT
*
2684715 GAAAAAATAAAAAATCTAGAGACCGATATATAACGACGGTTATATTTTGAGG-GATAAAATTAAA
131 GAAAAAATAAAAAATCTAGAGACCAATATATAACGACGGTTATATTTTG-GGAGATAAAATTAAA
* * * * *
2684779 ATATTCAAAATTTTGAAGAATAATTTGAAATTAGAGTTTTAATTTGAGAATAAATTTAAAATATT
195 ACATTCAAAAGTTTGAAGAATAATTTAAAATTAGAGTTATAATTTAAGAATAAATTTAAAATATT
2684844 TAAAAAGTAATTTCTAATAAAACCATAATTATATTGAT
260 TAAAAAGTAATTTCTAATAAAACCATAATTATATTGAT
2684882 ATATATTGATCACGCCACTTCTTAATAAAACCATTAAACCAACCAAGCTATATAATTATATGTTT
1 ATATATTGATCACGCCACTTCTTAATAAAACCATT--A--AACCAAGCTATATAATTATATGTTT
2684947 GGAAAGAGAAAAAAAATTTAGGATTAAACAATGATTGAAGCTAATTATATATTTGGATGAATTTA
62 ------AG-AAAAAAATTTAGGATTAAACAATGATTGAAGCTAATTATATATTTGGATGAATTTA
* * *
2685012 GAGATAAATTTTG-AAAAATAAAAAATTTAGAGACCAATTTATAACGAGGGTTATATTTTGGGAG
120 GAGATAAA-TTTGAAAAAATAAAAAATCTAGAGACCAATATATAACGACGGTTATATTTTGGGAG
** *
2685076 ATAAAATTGGAACATTCAAAAGTTTGAAGACTAATTTAAAATTAGAGTTATAATTTAAGAAT
184 ATAAAATTAAAACATTCAAAAGTTTGAAGAATAATTTAAAATTAGAGTTATAATTTAAGAAT
2685138 TGTAGACACC
Statistics
Matches: 224, Mismatches: 19, Indels: 15
0.87 0.07 0.06
Matches are distributed among these distances:
297 34 0.15
299 1 0.00
301 24 0.11
307 4 0.02
308 157 0.70
309 4 0.02
ACGTcount: A:0.45, C:0.08, G:0.13, T:0.34
Consensus pattern (297 bp):
ATATATTGATCACGCCACTTCTTAATAAAACCATTAAACCAAGCTATATAATTATATGTTTAGAA
AAAAATTTAGGATTAAACAATGATTGAAGCTAATTATATATTTGGATGAATTTAGAGATAAATTT
GAAAAAATAAAAAATCTAGAGACCAATATATAACGACGGTTATATTTTGGGAGATAAAATTAAAA
CATTCAAAAGTTTGAAGAATAATTTAAAATTAGAGTTATAATTTAAGAATAAATTTAAAATATTT
AAAAAGTAATTTCTAATAAAACCATAATTATATTGAT
Found at i:2688129 original size:21 final size:21
Alignment explanation
Indices: 2688105--2688146 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
2688095 AGTTTATTTT
2688105 TAAACTTTATTTCAATTATCG
1 TAAACTTTATTTCAATTATCG
*
2688126 TAAACTTTGTTTCAATTATCG
1 TAAACTTTATTTCAATTATCG
2688147 AACTTGAAGT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.31, C:0.14, G:0.07, T:0.48
Consensus pattern (21 bp):
TAAACTTTATTTCAATTATCG
Found at i:2688194 original size:33 final size:33
Alignment explanation
Indices: 2688141--2688239 Score: 164
Period size: 33 Copynumber: 3.0 Consensus size: 33
2688131 TTTGTTTCAA
2688141 TTATCGAACTT-GAAGTTTTTAAGTATTTGAAT
1 TTATCGAACTTGGAAGTTTTTAAGTATTTGAAT
2688173 TTATCGAACTTGGAAGTTTTTAAGTATTTGAAT
1 TTATCGAACTTGGAAGTTTTTAAGTATTTGAAT
* * *
2688206 TTATCAAACTTGGAAGTATTTAAGTATTTCAAT
1 TTATCGAACTTGGAAGTTTTTAAGTATTTGAAT
2688239 T
1 T
2688240 ATGTTGAGTT
Statistics
Matches: 63, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
32 11 0.17
33 52 0.83
ACGTcount: A:0.32, C:0.07, G:0.15, T:0.45
Consensus pattern (33 bp):
TTATCGAACTTGGAAGTTTTTAAGTATTTGAAT
Found at i:2688268 original size:13 final size:13
Alignment explanation
Indices: 2688225--2688279 Score: 58
Period size: 13 Copynumber: 4.2 Consensus size: 13
2688215 TTGGAAGTAT
2688225 TTAAGTATTTCAA
1 TTAAGTATTTCAA
* *
2688238 TTATGTTGAGTT-AA
1 TTAAG-T-ATTTCAA
2688252 TTAAGTATTTCAA
1 TTAAGTATTTCAA
*
2688265 TTAAGTATTTGAA
1 TTAAGTATTTCAA
2688278 TT
1 TT
2688280 TATCGAACTT
Statistics
Matches: 34, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
12 3 0.09
13 21 0.62
14 7 0.21
15 3 0.09
ACGTcount: A:0.35, C:0.04, G:0.13, T:0.49
Consensus pattern (13 bp):
TTAAGTATTTCAA
Found at i:2688501 original size:21 final size:21
Alignment explanation
Indices: 2688475--2688531 Score: 105
Period size: 21 Copynumber: 2.7 Consensus size: 21
2688465 TGGAGCGTGG
*
2688475 GGGAATCGGTACCCTCTCATA
1 GGGAATCGGTTCCCTCTCATA
2688496 GGGAATCGGTTCCCTCTCATA
1 GGGAATCGGTTCCCTCTCATA
2688517 GGGAATCGGTTCCCT
1 GGGAATCGGTTCCCT
2688532 AAGTGTAAAA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.19, C:0.28, G:0.26, T:0.26
Consensus pattern (21 bp):
GGGAATCGGTTCCCTCTCATA
Found at i:2690234 original size:54 final size:53
Alignment explanation
Indices: 2690170--2690383 Score: 338
Period size: 54 Copynumber: 4.0 Consensus size: 53
2690160 AATGAGTTTT
* **
2690170 TAAGTAATTCATAATGACTTTGTGAATTATTGTATTGCCACTATGTGTGCAACC
1 TAAGTAATTCATAATGAGTTTGTGAATTACCGTATTG-CACTATGTGTGCAACC
* *
2690224 TAAGTAATTCATATTGAGTTTGTGAATTACCGTATTGACACTATGTGTGAAACC
1 TAAGTAATTCATAATGAGTTTGTGAATTACCGTATTG-CACTATGTGTGCAACC
*
2690278 TAAGTAATTCATAATGAGTTTGTGAATTACTGTATTGGCACTATGTGTGCAACC
1 TAAGTAATTCATAATGAGTTTGTGAATTACCGTATT-GCACTATGTGTGCAACC
2690332 TAAGTAATTCATAATGAGTTTGTGAATTACCGTATTAGCACTATGTGTGCAA
1 TAAGTAATTCATAATGAGTTTGTGAATTACCGTATT-GCACTATGTGTGCAA
2690384 AAACCACAGA
Statistics
Matches: 148, Mismatches: 11, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
54 147 0.99
55 1 0.01
ACGTcount: A:0.31, C:0.13, G:0.19, T:0.37
Consensus pattern (53 bp):
TAAGTAATTCATAATGAGTTTGTGAATTACCGTATTGCACTATGTGTGCAACC
Found at i:2692994 original size:4 final size:4
Alignment explanation
Indices: 2692987--2693028 Score: 84
Period size: 4 Copynumber: 10.5 Consensus size: 4
2692977 TTCTTTAGAC
2692987 TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TT
1 TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TT
2693029 TGCAAAAATC
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 38 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (4 bp):
TTAT
Found at i:2698109 original size:25 final size:24
Alignment explanation
Indices: 2698040--2698127 Score: 76
Period size: 24 Copynumber: 3.7 Consensus size: 24
2698030 AAAAGAATGG
* *
2698040 AAAAGAAAAAAAAGATGAAAAAA-
1 AAAAGAAAAAAGAGAAGAAAAAAT
*
2698063 AGAGAAGATAACAA-A-AAG-AAAAAT
1 A-A-AAGA-AAAAAGAGAAGAAAAAAT
2698087 AAAAGGAAAAAAGAGAAGAAAAAAT
1 AAAA-GAAAAAAGAGAAGAAAAAAT
*
2698112 AAAAGAAGAAAGAGAA
1 AAAAGAAAAAAGAGAA
2698128 CAAATCAAGT
Statistics
Matches: 53, Mismatches: 4, Indels: 15
0.74 0.06 0.21
Matches are distributed among these distances:
22 6 0.11
23 10 0.19
24 18 0.34
25 15 0.28
26 4 0.08
ACGTcount: A:0.76, C:0.01, G:0.18, T:0.05
Consensus pattern (24 bp):
AAAAGAAAAAAGAGAAGAAAAAAT
Found at i:2698116 original size:36 final size:36
Alignment explanation
Indices: 2698040--2698118 Score: 99
Period size: 36 Copynumber: 2.2 Consensus size: 36
2698030 AAAAGAATGG
* *
2698040 AAAAGAAAAAAAAGATGAAAAAAAGAGAAGATAACA
1 AAAAGAAAAAAAAGATGAAAAAAAGAGAAGAAAAAA
*
2698076 AAAAGAAAAATAAA-A-GGAAAAAAGAGAAGAAAAAA
1 AAAAGAAAAA-AAAGATGAAAAAAAGAGAAGAAAAAA
2698111 TAAAAGAA
1 -AAAAGAA
2698119 GAAAGAGAAC
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
35 17 0.45
36 18 0.47
37 3 0.08
ACGTcount: A:0.77, C:0.01, G:0.16, T:0.05
Consensus pattern (36 bp):
AAAAGAAAAAAAAGATGAAAAAAAGAGAAGAAAAAA
Found at i:2698117 original size:12 final size:12
Alignment explanation
Indices: 2698076--2698118 Score: 52
Period size: 12 Copynumber: 3.6 Consensus size: 12
2698066 GAAGATAACA
2698076 AAAAG-AAAAAT
1 AAAAGAAAAAAT
*
2698087 AAAAGGAAAAAAG
1 AAAA-GAAAAAAT
*
2698100 AGAAGAAAAAAT
1 AAAAGAAAAAAT
2698112 AAAAGAA
1 AAAAGAA
2698119 GAAAGAGAAC
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
11 4 0.15
12 14 0.54
13 8 0.31
ACGTcount: A:0.79, C:0.00, G:0.16, T:0.05
Consensus pattern (12 bp):
AAAAGAAAAAAT
Found at i:2699936 original size:16 final size:17
Alignment explanation
Indices: 2699915--2699948 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
2699905 TGTCACATTC
*
2699915 ACTTTT-CAAAATGATT
1 ACTTTTACAAAATAATT
2699931 ACTTTTACAAAATAATT
1 ACTTTTACAAAATAATT
2699948 A
1 A
2699949 AAATTTTAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.44, C:0.12, G:0.03, T:0.41
Consensus pattern (17 bp):
ACTTTTACAAAATAATT
Found at i:2700823 original size:12 final size:13
Alignment explanation
Indices: 2700806--2700835 Score: 53
Period size: 12 Copynumber: 2.4 Consensus size: 13
2700796 TACATGGATC
2700806 ATATAACATATA-
1 ATATAACATATAT
2700818 ATATAACATATAT
1 ATATAACATATAT
2700831 ATATA
1 ATATA
2700836 TATATATCAC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 12 0.71
13 5 0.29
ACGTcount: A:0.57, C:0.07, G:0.00, T:0.37
Consensus pattern (13 bp):
ATATAACATATAT
Found at i:2706938 original size:16 final size:17
Alignment explanation
Indices: 2706917--2706952 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
2706907 GGTATCACAT
2706917 TTACTTTT-CAAAACAA
1 TTACTTTTACAAAACAA
*
2706933 TTACTTTTACAAAATAA
1 TTACTTTTACAAAACAA
2706950 TTA
1 TTA
2706953 AAATTTTAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 8 0.44
17 10 0.56
ACGTcount: A:0.44, C:0.14, G:0.00, T:0.42
Consensus pattern (17 bp):
TTACTTTTACAAAACAA
Found at i:2709881 original size:232 final size:233
Alignment explanation
Indices: 2709461--2709985 Score: 659
Period size: 232 Copynumber: 2.2 Consensus size: 233
2709451 TTTATAGGTT
* * *
2709461 AAAAATGAGAAAAATTTCTCATTTAAATCT-AAATATTAAAATTTTTGAAAAGTAATAAAAGTTT
1 AAAAATGAGAAAAGTTTCTCATTTAAATCTGAAA-ATTGAAATTTTTGAAAAGTAAAAAAAGTTT
** * * * *
2709525 CTTATTTAGTAAACTATTTCCAAAATTAGTAAGTCCTTCGGGCCATCAGTAAGTCTTCGAGCATG
65 CTTACCTAGTAAAATATTCCCAAAATTAGTAAGTCATTCGGGCCATCAGTAAGTCTTCAAGCATG
* * **
2709590 AAGCTTAAATCATTTGGGTCATATGTAAGTTTTTCGAGCAAGATGATAAGTTATTCGGGCAATCC
130 AAGCATAAATCATTTGGGTCATATATAAGCCTTTCGAGCAAGATGATAAGTTATTCGGGCAATCC
* *
2709655 ATAAGACCTTCTGGG-AGGATGTTATCATATG-TCTCT-C-G
195 ATAAGACCTTC-GGGCAGGA-GTT-TCACATGTTCTCTCCAA
*
2709693 AAAAATGAGAAAAGTTTCTCACTTAAATCTGAAAATTGAAATTTTTGAAAAGTAAAAAAAGTTTC
1 AAAAATGAGAAAAGTTTCTCATTTAAATCTGAAAATTGAAATTTTTGAAAAGTAAAAAAAGTTTC
*
2709758 TTACCTAGTAAAATATTCCCAAAATTGGTAAGTCATTC-GGCCATCAGTAAGTCTTTCAAGCATG
66 TTACCTAGTAAAATATTCCCAAAATTAGTAAGTCATTCGGGCCATCAGTAAGTC-TTCAAGCATG
* * * * * *
2709822 ATGCATAAATCTTTTGGGTTATCTATAAGCCTTTCGAGCAAGATGGTAAGTCT-TTCGGGCCATC
130 AAGCATAAATCATTTGGGTCATATATAAGCCTTTCGAGCAAGATGATAAGT-TATTCGGGCAATC
* * * *
2709886 CATAAGATCTTCGGGCATGAGTTTCACATGTTTTTTTTCCAA
194 CATAAGACCTTCGGGCAGGAGTTTCACATG--TTCTCTCCAA
* * *
2709928 AAAAATAAGAAAAGTTTCTCATTTAAATCTGAAAATTGAAGTTTTTAAAAAGTAAAAA
1 AAAAATGAGAAAAGTTTCTCATTTAAATCTGAAAATTGAAATTTTTGAAAAGTAAAAA
2709986 GGGAATTTCC
Statistics
Matches: 253, Mismatches: 31, Indels: 15
0.85 0.10 0.05
Matches are distributed among these distances:
230 6 0.02
231 21 0.08
232 164 0.65
233 7 0.03
234 1 0.00
235 54 0.21
ACGTcount: A:0.36, C:0.14, G:0.16, T:0.34
Consensus pattern (233 bp):
AAAAATGAGAAAAGTTTCTCATTTAAATCTGAAAATTGAAATTTTTGAAAAGTAAAAAAAGTTTC
TTACCTAGTAAAATATTCCCAAAATTAGTAAGTCATTCGGGCCATCAGTAAGTCTTCAAGCATGA
AGCATAAATCATTTGGGTCATATATAAGCCTTTCGAGCAAGATGATAAGTTATTCGGGCAATCCA
TAAGACCTTCGGGCAGGAGTTTCACATGTTCTCTCCAA
Found at i:2709891 original size:41 final size:41
Alignment explanation
Indices: 2709783--2709891 Score: 96
Period size: 41 Copynumber: 2.7 Consensus size: 41
2709773 TTCCCAAAAT
* * *
2709783 TGGTAAGTCATTC-GGCCAT-CAGTAAGTCTTTCAAGCATGA
1 TGGTAAGTCTTTCGGGCCATCCA-TAAGCCTTTCAAGCAAGA
* * * ** * *
2709823 TGCATAAATCTTTTGGGTTATCTATAAGCCTTTCGAGCAAGA
1 TG-GTAAGTCTTTCGGGCCATCCATAAGCCTTTCAAGCAAGA
2709865 TGGTAAGTCTTTCGGGCCATCCATAAG
1 TGGTAAGTCTTTCGGGCCATCCATAAG
2709892 ATCTTCGGGC
Statistics
Matches: 50, Mismatches: 16, Indels: 5
0.70 0.23 0.07
Matches are distributed among these distances:
40 2 0.04
41 26 0.52
42 21 0.42
43 1 0.02
ACGTcount: A:0.27, C:0.19, G:0.22, T:0.32
Consensus pattern (41 bp):
TGGTAAGTCTTTCGGGCCATCCATAAGCCTTTCAAGCAAGA
Found at i:2714889 original size:17 final size:17
Alignment explanation
Indices: 2714867--2714900 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
2714857 TTTAGTTCGG
2714867 TTGGTGATCGAATTAAT
1 TTGGTGATCGAATTAAT
2714884 TTGGTGATCGAATTAAT
1 TTGGTGATCGAATTAAT
2714901 CGTTACACCC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.29, C:0.06, G:0.24, T:0.41
Consensus pattern (17 bp):
TTGGTGATCGAATTAAT
Found at i:2723649 original size:105 final size:104
Alignment explanation
Indices: 2723468--2723678 Score: 388
Period size: 105 Copynumber: 2.0 Consensus size: 104
2723458 CAACCAGTTT
2723468 GTGACAAACAAAACCCTCCAATCAAATCAAGAAAGAGTAAATAATAGGGCAGAAATGAATGAAAT
1 GTGACAAACAAAACCCTCCAATCAAATCAAGAAAGAGTAAATAATAGGGCAGAAATGAATGAAAT
2723533 TGAGAAAATTTGGATGAAATCAGTAAGAAAATGAAATCA
66 TGAGAAAATTTGGATGAAATCAGTAAGAAAATGAAATCA
*
2723572 GTGACAAACAAAA-CCTCCAATCACAAATCAAGAAAGAGTAAATAATAGGGTAGAAATGAATGAA
1 GTGACAAACAAAACCCTCCAAT--CAAATCAAGAAAGAGTAAATAATAGGGCAGAAATGAATGAA
2723636 ATTGAGAAAATTTGGATGAAATCAGTAAGAAAATGAAATCA
64 ATTGAGAAAATTTGGATGAAATCAGTAAGAAAATGAAATCA
2723677 GT
1 GT
2723679 ATGTGTGGAA
Statistics
Matches: 104, Mismatches: 1, Indels: 3
0.96 0.01 0.03
Matches are distributed among these distances:
103 8 0.08
104 13 0.12
105 83 0.80
ACGTcount: A:0.52, C:0.11, G:0.18, T:0.19
Consensus pattern (104 bp):
GTGACAAACAAAACCCTCCAATCAAATCAAGAAAGAGTAAATAATAGGGCAGAAATGAATGAAAT
TGAGAAAATTTGGATGAAATCAGTAAGAAAATGAAATCA
Found at i:2727467 original size:24 final size:24
Alignment explanation
Indices: 2727440--2727487 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 24
2727430 GTCTTGAGGG
2727440 AGCTGGTAGAAACATGGACTGTTC
1 AGCTGGTAGAAACATGGACTGTTC
*
2727464 AGCTGGTAGAAACGTGGACTGTTC
1 AGCTGGTAGAAACATGGACTGTTC
2727488 GGTGGAGAAG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.27, C:0.17, G:0.31, T:0.25
Consensus pattern (24 bp):
AGCTGGTAGAAACATGGACTGTTC
Found at i:2748247 original size:3 final size:3
Alignment explanation
Indices: 2748239--2748320 Score: 110
Period size: 3 Copynumber: 26.7 Consensus size: 3
2748229 ACGTTATTTA
* *
2748239 TAT TAT TAT TAT TAT TAT AAT TAT TAT TAT TAT TAT TAT AAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* *
2748287 TAT TAT TAT TAA TAT ATAT TATT TAT TAA TAT TA
1 TAT TAT TAT TAT TAT -TAT TA-T TAT TAT TAT TA
2748321 CAAAACCCAA
Statistics
Matches: 69, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
3 63 0.91
4 6 0.09
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (3 bp):
TAT
Found at i:2750261 original size:17 final size:18
Alignment explanation
Indices: 2750220--2750262 Score: 52
Period size: 19 Copynumber: 2.4 Consensus size: 18
2750210 AATTCTTTTT
* *
2750220 TATATATATATATTTTTA
1 TATATTTATATATTATTA
2750238 TAGTATTTATATATTATTA
1 TA-TATTTATATATTATTA
2750257 -ATATTT
1 TATATTT
2750263 CATTTTATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
17 5 0.23
18 3 0.14
19 14 0.64
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.60
Consensus pattern (18 bp):
TATATTTATATATTATTA
Found at i:2753571 original size:15 final size:15
Alignment explanation
Indices: 2753551--2753582 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
2753541 ATCAATAACT
2753551 TTTTGCATACATGCA
1 TTTTGCATACATGCA
*
2753566 TTTTGCATACATTCA
1 TTTTGCATACATGCA
2753581 TT
1 TT
2753583 ATTCATTTCA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.25, C:0.19, G:0.09, T:0.47
Consensus pattern (15 bp):
TTTTGCATACATGCA
Found at i:2756544 original size:113 final size:113
Alignment explanation
Indices: 2756346--2757111 Score: 1150
Period size: 113 Copynumber: 6.8 Consensus size: 113
2756336 GCAAAGATTT
* *
2756346 AAATCCATCA-TTCAATGGATCAACTTTTCCAGTTCGAGTTCATAATGAGAAGAACTCATCTGAA
1 AAATCCATCACTT-GATGGATCAACTTTTCCAGTTAGAGTTCATAATGAGAAGAACTCATCTGAA
2756410 GAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGCTC
65 GAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGCTC
*
2756459 AAATCCATCACTTGATGGATCAACTTTTCCAGTTCGAGTTCATAATGAGAAGAACTCATCTGAAG
1 AAATCCATCACTTGATGGATCAACTTTTCCAGTTAGAGTTCATAATGAGAAGAACTCATCTGAAG
2756524 AAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGCTC
66 AAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGCTC
* *
2756572 AAATCCATCACTTGATGGATCAACTTTTTCCAGTTCGAGTTCATAATGAGAAGAACTCATCTAAA
1 AAATCCATCACTTGATGGATCAAC-TTTTCCAGTTAGAGTTCATAATGAGAAGAACTCATCTGAA
2756637 GAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGCTC
65 GAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGCTC
*
2756686 AAATCCATCACTTGATGGATCAACTTTTCCAGTTTGAGTTCATAATGAGAAGAACTCATCTGAAG
1 AAATCCATCACTTGATGGATCAACTTTTCCAGTTAGAGTTCATAATGAGAAGAACTCATCTGAAG
*
2756751 AAGGAATAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGCTC
66 AAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGCTC
* * *
2756799 AAATCCATCACTTGATGGATTAGCTTTTCCAGTTAGAGTTCATAATAAGAAGAACTCATCTGAAG
1 AAATCCATCACTTGATGGATCAACTTTTCCAGTTAGAGTTCATAATGAGAAGAACTCATCTGAAG
* * *
2756864 AAGGAAGAAGAAGTTCATAATAAGAAGAACTTGTTCAA-CTTTTGCTT
66 AAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGCTC
* * * * * ** * *
2756911 GAATTCATCATTTGATGGATTAGCTTTTCCAGAAAGAGTTCATAATGAGAAGAATTTATCTGAAG
1 AAATCCATCACTTGATGGATCAACTTTTCCAGTTAGAGTTCATAATGAGAAGAACTCATCTGAAG
* * *
2756976 AAGGAAGAAGAAGTTCATAATAAGAAGAACTTGTTCAA-CTTTTGCTT
66 AAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGCTC
* * * * * ** * *
2757023 GAATTCATCACTTAATAGATCAACTTTTACAGAGAAAGTTCATAATGAGAAGAACTCGTCTGAAG
1 AAATCCATCACTTGATGGATCAACTTTTCCAGTTAGAGTTCATAATGAGAAGAACTCATCTGAAG
*
2757088 AA-G-AG--GAAGTTCATAATAAGAAGA
66 AAGGAAGAAGAAGTTCATAATGAGAAGA
2757112 GCTTATTCAA
Statistics
Matches: 619, Mismatches: 32, Indels: 9
0.94 0.05 0.01
Matches are distributed among these distances:
108 19 0.03
110 2 0.00
111 1 0.00
112 168 0.27
113 315 0.51
114 114 0.18
ACGTcount: A:0.37, C:0.15, G:0.18, T:0.30
Consensus pattern (113 bp):
AAATCCATCACTTGATGGATCAACTTTTCCAGTTAGAGTTCATAATGAGAAGAACTCATCTGAAG
AAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGCTC
Found at i:2756740 original size:227 final size:226
Alignment explanation
Indices: 2756346--2757111 Score: 1150
Period size: 227 Copynumber: 3.4 Consensus size: 226
2756336 GCAAAGATTT
*
2756346 AAATCCATCA-TTCAATGGATCAACTTTTCCAGTTCGAGTTCATAATGAGAAGAACTCATCTGAA
1 AAATCCATCACTT-AATGGATCAACTTTTCCAGTTAGAGTTCATAATGAGAAGAACTCATCTGAA
*
2756410 GAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGCTCAAATCCATCACTTGAT
65 GAAGGAAGAAGAAGTTCATAATAAGAAGAATTTGTTCAACCTTTTGCTCAAATCCATCACTTGAT
*
2756475 GGATCAACTTTTCCAGTTCGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTC
130 GGATCAACTTTTCCAGTTAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTC
2756540 ATAATGAGAAGAATTTGTTCAACCTTTTGCTC
195 ATAATGAGAAGAATTTGTTCAACCTTTTGCTC
* * *
2756572 AAATCCATCACTTGATGGATCAACTTTTTCCAGTTCGAGTTCATAATGAGAAGAACTCATCTAAA
1 AAATCCATCACTTAATGGATCAAC-TTTTCCAGTTAGAGTTCATAATGAGAAGAACTCATCTGAA
*
2756637 GAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGCTCAAATCCATCACTTGAT
65 GAAGGAAGAAGAAGTTCATAATAAGAAGAATTTGTTCAACCTTTTGCTCAAATCCATCACTTGAT
* *
2756702 GGATCAACTTTTCCAGTTTGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAATAAGAAGTTC
130 GGATCAACTTTTCCAGTTAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTC
2756767 ATAATGAGAAGAATTTGTTCAACCTTTTGCTC
195 ATAATGAGAAGAATTTGTTCAACCTTTTGCTC
* * * *
2756799 AAATCCATCACTTGATGGATTAGCTTTTCCAGTTAGAGTTCATAATAAGAAGAACTCATCTGAAG
1 AAATCCATCACTTAATGGATCAACTTTTCCAGTTAGAGTTCATAATGAGAAGAACTCATCTGAAG
* ** * *
2756864 AAGGAAGAAGAAGTTCATAATAAGAAGAACTTGTTCAA-CTTTTGCTTGAATTCATCATTTGATG
66 AAGGAAGAAGAAGTTCATAATAAGAAGAATTTGTTCAACCTTTTGCTCAAATCCATCACTTGATG
* * ** * *
2756928 GATTAGCTTTTCCAGAAAGAGTTCATAATGAGAAGAATTTATCTGAAGAAGGAAGAAGAAGTTCA
131 GATCAACTTTTCCAGTTAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCA
* * *
2756993 TAATAAGAAGAACTTGTTCAA-CTTTTGCTT
196 TAATGAGAAGAATTTGTTCAACCTTTTGCTC
* * * * ** * *
2757023 GAATTCATCACTTAATAGATCAACTTTTACAGAGAAAGTTCATAATGAGAAGAACTCGTCTGAAG
1 AAATCCATCACTTAATGGATCAACTTTTCCAGTTAGAGTTCATAATGAGAAGAACTCATCTGAAG
2757088 AA-G-AG--GAAGTTCATAATAAGAAGA
66 AAGGAAGAAGAAGTTCATAATAAGAAGA
2757112 GCTTATTCAA
Statistics
Matches: 500, Mismatches: 38, Indels: 10
0.91 0.07 0.02
Matches are distributed among these distances:
220 19 0.04
222 2 0.00
223 1 0.00
224 63 0.13
225 98 0.20
226 94 0.19
227 223 0.45
ACGTcount: A:0.37, C:0.15, G:0.18, T:0.30
Consensus pattern (226 bp):
AAATCCATCACTTAATGGATCAACTTTTCCAGTTAGAGTTCATAATGAGAAGAACTCATCTGAAG
AAGGAAGAAGAAGTTCATAATAAGAAGAATTTGTTCAACCTTTTGCTCAAATCCATCACTTGATG
GATCAACTTTTCCAGTTAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCA
TAATGAGAAGAATTTGTTCAACCTTTTGCTC
Found at i:2757369 original size:3 final size:3
Alignment explanation
Indices: 2757361--2757436 Score: 89
Period size: 3 Copynumber: 24.7 Consensus size: 3
2757351 ACGTTATTTA
* * *
2757361 TAT TAT TAT TAT TAT AAT TAT TAT TAT TAT TAT AAT AAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* *
2757409 TAT TAA TAT ATAT TATT TAT TAA TAT TA
1 TAT TAT TAT -TAT TA-T TAT TAT TAT TA
2757437 CAAAACCCAA
Statistics
Matches: 63, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
3 57 0.90
4 6 0.10
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (3 bp):
TAT
Found at i:2759959 original size:27 final size:27
Alignment explanation
Indices: 2759921--2759974 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
2759911 ATTATCAGTT
* *
2759921 TTGTTTTCTTTTTGTACCTAAGATTTC
1 TTGTTTTCTTTTAGTACCTAAAATTTC
* *
2759948 TTGTTTTGTTTTAGTACTTAAAATTTC
1 TTGTTTTCTTTTAGTACCTAAAATTTC
2759975 ATTTGTTTCG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.19, C:0.11, G:0.11, T:0.59
Consensus pattern (27 bp):
TTGTTTTCTTTTAGTACCTAAAATTTC
Found at i:2760464 original size:24 final size:24
Alignment explanation
Indices: 2760419--2760465 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
2760409 AAACATTAAA
*
2760419 TATGTTTTAAAACAAATGAAAATT
1 TATGTTTAAAAACAAATGAAAATT
*
2760443 TATGTATTAAAAAGAAAT-AAAAT
1 TATGT-TTAAAAACAAATGAAAAT
2760466 GATCGGATAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 10 0.50
25 10 0.50
ACGTcount: A:0.55, C:0.02, G:0.09, T:0.34
Consensus pattern (24 bp):
TATGTTTAAAAACAAATGAAAATT
Found at i:2767342 original size:15 final size:15
Alignment explanation
Indices: 2767324--2767379 Score: 67
Period size: 15 Copynumber: 3.6 Consensus size: 15
2767314 TAACCGGTTT
2767324 CGGTTTTAAAAAAAC
1 CGGTTTTAAAAAAAC
*
2767339 CGGTTTTTTTAAAAAAC
1 CGG--TTTTAAAAAAAC
*
2767356 CGGTTATAAAAAAAC
1 CGGTTTTAAAAAAAC
*
2767371 CGATTTTAA
1 CGGTTTTAA
2767380 TATTATTAAA
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
15 20 0.59
17 14 0.41
ACGTcount: A:0.43, C:0.12, G:0.12, T:0.32
Consensus pattern (15 bp):
CGGTTTTAAAAAAAC
Done.