Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr02 99090824
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: 99090824
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 317 characters in sequence are not A, C, G, or T
File 294 of 318
Found at i:92436702 original size:22 final size:21
Alignment explanation
Indices: 92436676--92436765 Score: 78
Period size: 22 Copynumber: 4.1 Consensus size: 21
92436666 TTGCTTATTT
*
92436676 AATTTATATTATTAATTTTAAA
1 AATTTATAATATT-ATTTTAAA
92436698 AATTTATAATA-TATATTTAAA
1 AATTTATAATATTAT-TTTAAA
* *
92436719 ATGTTTTATAATATT-TTTTTAA
1 A--ATTTATAATATTATTTTAAA
92436741 AATTT-TAATTATTATTTTTAAA
1 AATTTATAA-TATTA-TTTTAAA
92436763 AAT
1 AAT
92436766 ATTTTTTAAC
Statistics
Matches: 56, Mismatches: 5, Indels: 14
0.75 0.07 0.19
Matches are distributed among these distances:
19 3 0.05
20 9 0.16
21 8 0.14
22 25 0.45
23 10 0.18
24 1 0.02
ACGTcount: A:0.43, C:0.00, G:0.01, T:0.56
Consensus pattern (21 bp):
AATTTATAATATTATTTTAAA
Found at i:92436729 original size:23 final size:23
Alignment explanation
Indices: 92436700--92436743 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
92436690 ATTTTAAAAA
92436700 TTTATAATATATATTTAAAATGT
1 TTTATAATATATATTTAAAATGT
* *
92436723 TTTATAATATTTTTTTAAAAT
1 TTTATAATATATATTTAAAAT
92436744 TTTAATTATT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (23 bp):
TTTATAATATATATTTAAAATGT
Found at i:92436756 original size:23 final size:23
Alignment explanation
Indices: 92436691--92436763 Score: 66
Period size: 21 Copynumber: 3.3 Consensus size: 23
92436681 ATATTATTAA
* *
92436691 TTTTAAAA-ATTT-ATAATATAT
1 TTTTAAAATGTTTAATAATATTT
* *
92436712 ATTTAAAATGTTTTATAATATTT
1 TTTTAAAATGTTTAATAATATTT
92436735 TTTTAAAAT-TTTAAT--TATTAT
1 TTTTAAAATGTTTAATAATATT-T
92436756 TTTTAAAA
1 TTTTAAAA
92436764 ATATTTTTTA
Statistics
Matches: 44, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
20 4 0.09
21 16 0.36
22 8 0.18
23 16 0.36
ACGTcount: A:0.42, C:0.00, G:0.01, T:0.56
Consensus pattern (23 bp):
TTTTAAAATGTTTAATAATATTT
Found at i:92437050 original size:18 final size:18
Alignment explanation
Indices: 92437027--92437075 Score: 57
Period size: 18 Copynumber: 2.8 Consensus size: 18
92437017 GTGACTATTA
92437027 ATAAATTTAAATATAAAT
1 ATAAATTTAAATATAAAT
*
92437045 ATAAATTTTAA-A-AAAT
1 ATAAATTTAAATATAAAT
*
92437061 ATATATATTAAATAT
1 ATAAAT-TTAAATAT
92437076 TATTTTATAA
Statistics
Matches: 25, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
16 9 0.36
17 5 0.20
18 11 0.44
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (18 bp):
ATAAATTTAAATATAAAT
Found at i:92437274 original size:27 final size:26
Alignment explanation
Indices: 92437244--92437305 Score: 70
Period size: 27 Copynumber: 2.3 Consensus size: 26
92437234 TTTTAAACAC
* *
92437244 AATTTTTAAATACATTTAAAAAATTAT
1 AATTTTTAAATA-ATATAAAAAATCAT
* *
92437271 AATTTTTTAATAATATAAGAAATCAT
1 AATTTTTAAATAATATAAAAAATCAT
92437297 AATATTTTA
1 AAT-TTTTA
92437306 GATATTTTTT
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
26 14 0.48
27 15 0.52
ACGTcount: A:0.50, C:0.03, G:0.02, T:0.45
Consensus pattern (26 bp):
AATTTTTAAATAATATAAAAAATCAT
Found at i:92437293 original size:26 final size:27
Alignment explanation
Indices: 92437244--92437305 Score: 72
Period size: 26 Copynumber: 2.3 Consensus size: 27
92437234 TTTTAAACAC
* * *
92437244 AATTTTTAAATACATTTAAAAAATTAT
1 AATTTTTTAATACATATAAAAAATCAT
*
92437271 AATTTTTTAATA-ATATAAGAAATCAT
1 AATTTTTTAATACATATAAAAAATCAT
*
92437297 AATATTTTA
1 AATTTTTTA
92437306 GATATTTTTT
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
26 19 0.63
27 11 0.37
ACGTcount: A:0.50, C:0.03, G:0.02, T:0.45
Consensus pattern (27 bp):
AATTTTTTAATACATATAAAAAATCAT
Found at i:92437474 original size:21 final size:21
Alignment explanation
Indices: 92437435--92437478 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
92437425 ATTTAAAATG
92437435 TTTTATAATATATTTTTTATAA
1 TTTTATAATATATTTTTTA-AA
92437457 TTTTA-AATAT-TATTTTTAAA
1 TTTTATAATATAT-TTTTTAAA
92437477 TT
1 TT
92437479 CTTTTTTAAC
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
20 5 0.24
21 11 0.52
22 5 0.24
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (21 bp):
TTTTATAATATATTTTTTAAA
Found at i:92437603 original size:18 final size:18
Alignment explanation
Indices: 92437580--92437618 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
92437570 GTGGCTATTA
*
92437580 ATAAATTTAAATATAAAT
1 ATAAATTTAAAAATAAAT
*
92437598 ATAAATTTAAAAATATAT
1 ATAAATTTAAAAATAAAT
92437616 ATA
1 ATA
92437619 TTAAATATAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (18 bp):
ATAAATTTAAAAATAAAT
Found at i:92442518 original size:14 final size:13
Alignment explanation
Indices: 92442484--92442525 Score: 52
Period size: 14 Copynumber: 3.3 Consensus size: 13
92442474 ACTTGAAATG
92442484 TATTTTTTA-AAA
1 TATTTTTTATAAA
*
92442496 -ATGTTTTATAATA
1 TATTTTTTATAA-A
92442509 TATTTTTTATAAA
1 TATTTTTTATAAA
92442522 TATT
1 TATT
92442526 AAAAATATAT
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
11 7 0.28
12 2 0.08
13 6 0.24
14 10 0.40
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (13 bp):
TATTTTTTATAAA
Found at i:92442566 original size:31 final size:34
Alignment explanation
Indices: 92442512--92442578 Score: 95
Period size: 31 Copynumber: 2.0 Consensus size: 34
92442502 TATAATATAT
92442512 TTTTTATAAATATTAAAAATATATTTTCAA-ATTA
1 TTTTTATAAATATT-AAAATATATTTTCAATATTA
*
92442546 TTTTT-TAAATATT-AAATATATTTTTAATATTA
1 TTTTTATAAATATTAAAATATATTTTCAATATTA
92442578 T
1 T
92442579 AAAACATTTA
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
31 13 0.42
32 5 0.16
33 8 0.26
34 5 0.16
ACGTcount: A:0.43, C:0.01, G:0.00, T:0.55
Consensus pattern (34 bp):
TTTTTATAAATATTAAAATATATTTTCAATATTA
Found at i:92442587 original size:19 final size:19
Alignment explanation
Indices: 92442547--92442634 Score: 65
Period size: 19 Copynumber: 4.6 Consensus size: 19
92442537 TTCAAATTAT
*
92442547 TTTTTAAATATTA-AATATA
1 TTTTT-AATATTATAAAATA
*
92442566 TTTTTAATATTATAAAACA
1 TTTTTAATATTATAAAATA
**
92442585 TTTAAAATGATT-TAAAATA
1 TTTTTAAT-ATTATAAAATA
*
92442604 TTTTTTAATATT-TTAAATGA
1 -TTTTTAATATTATAAAAT-A
*
92442624 TTTTAAATATT
1 TTTTTAATATT
92442635 TTTTAAATTT
Statistics
Matches: 56, Mismatches: 9, Indels: 8
0.77 0.12 0.11
Matches are distributed among these distances:
18 7 0.12
19 39 0.70
20 10 0.18
ACGTcount: A:0.44, C:0.01, G:0.02, T:0.52
Consensus pattern (19 bp):
TTTTTAATATTATAAAATA
Found at i:92442635 original size:29 final size:28
Alignment explanation
Indices: 92442534--92442646 Score: 109
Period size: 29 Copynumber: 3.9 Consensus size: 28
92442524 TTAAAAATAT
* *
92442534 ATTTTCAAATTATTTTTTAAATATTAAATAT
1 ATTTT-AAA-TATTTTTTAAATTTTAAAT-G
* * ** *
92442565 ATTTTTAATATTATAAAACATTTAAAATG
1 ATTTTAAATATTTTTTAA-ATTTTAAATG
*
92442594 ATTTAAAATATTTTTTAATATTTTAAATG
1 ATTTTAAATATTTTTTAA-ATTTTAAATG
92442623 ATTTTAAATATTTTTTAAATTTTA
1 ATTTTAAATATTTTTTAAATTTTA
92442647 CATAGAATTT
Statistics
Matches: 66, Mismatches: 15, Indels: 5
0.77 0.17 0.06
Matches are distributed among these distances:
28 6 0.09
29 46 0.70
30 9 0.14
31 5 0.08
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.54
Consensus pattern (28 bp):
ATTTTAAATATTTTTTAAATTTTAAATG
Found at i:92442637 original size:10 final size:9
Alignment explanation
Indices: 92442548--92442636 Score: 63
Period size: 10 Copynumber: 9.4 Consensus size: 9
92442538 TCAAATTATT
92442548 TTTTAAATA
1 TTTTAAATA
*
92442557 -TTAAATATA
1 TTTTAA-ATA
*
92442566 TTTTTAATA
1 TTTTAAATA
* *
92442575 TTATAAAACA
1 TT-TTAAATA
*
92442585 TTTAAAATGA
1 TTTTAAAT-A
*
92442595 TTTAAAATA
1 TTTTAAATA
*
92442604 TTTTTTAATA
1 -TTTTAAATA
92442614 TTTTAAATGA
1 TTTTAAAT-A
92442624 TTTTAAATA
1 TTTTAAATA
92442633 TTTT
1 TTTT
92442637 TTAAATTTTA
Statistics
Matches: 64, Mismatches: 10, Indels: 12
0.74 0.12 0.14
Matches are distributed among these distances:
8 4 0.06
9 26 0.41
10 34 0.53
ACGTcount: A:0.44, C:0.01, G:0.02, T:0.53
Consensus pattern (9 bp):
TTTTAAATA
Found at i:92443382 original size:37 final size:36
Alignment explanation
Indices: 92443312--92443382 Score: 97
Period size: 37 Copynumber: 1.9 Consensus size: 36
92443302 AAATAATTAT
*
92443312 TTTTTAAAATTTTAAAAAAGTAATTTGAAAAATACA
1 TTTTTAAAATTTTAAAAAAGTAATTTCAAAAATACA
* * *
92443348 TTTTTAAAATTTATAAATAATTAATTTCACAAATA
1 TTTTTAAAATTT-TAAAAAAGTAATTTCAAAAATA
92443383 TATATATATA
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
36 12 0.40
37 18 0.60
ACGTcount: A:0.51, C:0.04, G:0.03, T:0.42
Consensus pattern (36 bp):
TTTTTAAAATTTTAAAAAAGTAATTTCAAAAATACA
Found at i:92443435 original size:23 final size:22
Alignment explanation
Indices: 92443407--92443487 Score: 80
Period size: 21 Copynumber: 3.8 Consensus size: 22
92443397 GTTAAAATAT
92443407 ATTTTTAAAAATAATAATTAAAA
1 ATTTTTAAAAAT-ATAATTAAAA
*
92443430 ATTTTTAAAAATATTA-TAAAA
1 ATTTTTAAAAATATAATTAAAA
* *
92443451 CA-TTTTAAATATAT-ATTATAA
1 -ATTTTTAAAAATATAATTAAAA
*
92443472 ATTTTTTAAAAT-TAAT
1 ATTTTTAAAAATATAAT
92443488 AATATACATT
Statistics
Matches: 49, Mismatches: 5, Indels: 10
0.77 0.08 0.16
Matches are distributed among these distances:
20 3 0.06
21 30 0.61
22 4 0.08
23 12 0.24
ACGTcount: A:0.53, C:0.01, G:0.00, T:0.46
Consensus pattern (22 bp):
ATTTTTAAAAATATAATTAAAA
Found at i:92443493 original size:23 final size:23
Alignment explanation
Indices: 92443407--92443493 Score: 76
Period size: 23 Copynumber: 3.9 Consensus size: 23
92443397 GTTAAAATAT
92443407 ATTTTTAAAAATAATAAT-TAAAA
1 ATTTTTAAAAATAATAATAT-AAA
92443430 ATTTTTAAAAAT-AT--TATAAA
1 ATTTTTAAAAATAATAATATAAA
* * *
92443450 ACATTTTAAATAT-ATATTATAAA
1 A-TTTTTAAAAATAATAATATAAA
* *
92443473 TTTTTTAAAATTAATAATATA
1 ATTTTTAAAAATAATAATATA
92443494 CATTAAATAA
Statistics
Matches: 52, Mismatches: 7, Indels: 10
0.75 0.10 0.14
Matches are distributed among these distances:
20 5 0.10
21 12 0.23
22 10 0.19
23 25 0.48
ACGTcount: A:0.54, C:0.01, G:0.00, T:0.45
Consensus pattern (23 bp):
ATTTTTAAAAATAATAATATAAA
Found at i:92443530 original size:18 final size:18
Alignment explanation
Indices: 92443480--92443531 Score: 52
Period size: 18 Copynumber: 2.9 Consensus size: 18
92443470 AAATTTTTTA
* *
92443480 AAATTAATAATATACATT
1 AAATAAATAATATAAATT
* *
92443498 AAATAAGTAAAATAAATT
1 AAATAAATAATATAAATT
92443516 AAGA-AAATAATATAAA
1 AA-ATAAATAATATAAA
92443532 ATTTAAAAAA
Statistics
Matches: 27, Mismatches: 6, Indels: 2
0.77 0.17 0.06
Matches are distributed among these distances:
18 26 0.96
19 1 0.04
ACGTcount: A:0.65, C:0.02, G:0.04, T:0.29
Consensus pattern (18 bp):
AAATAAATAATATAAATT
Found at i:92443614 original size:9 final size:8
Alignment explanation
Indices: 92443575--92443613 Score: 69
Period size: 8 Copynumber: 4.8 Consensus size: 8
92443565 AAATATAAGA
92443575 AAAAAAGT
1 AAAAAAGT
92443583 AAAAAAGTT
1 AAAAAAG-T
92443592 AAAAAAGT
1 AAAAAAGT
92443600 AAAAAAGT
1 AAAAAAGT
92443608 AAAAAA
1 AAAAAA
92443614 AAAATATAAG
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
8 22 0.73
9 8 0.27
ACGTcount: A:0.77, C:0.00, G:0.10, T:0.13
Consensus pattern (8 bp):
AAAAAAGT
Found at i:92448441 original size:65 final size:65
Alignment explanation
Indices: 92448337--92448466 Score: 260
Period size: 65 Copynumber: 2.0 Consensus size: 65
92448327 ATGACAAACA
92448337 GATTGTGAGTCCTGACCTTAACATAATCTAAATTGAAATAGTAAGCTATTATAATCAGTTTCTTC
1 GATTGTGAGTCCTGACCTTAACATAATCTAAATTGAAATAGTAAGCTATTATAATCAGTTTCTTC
92448402 GATTGTGAGTCCTGACCTTAACATAATCTAAATTGAAATAGTAAGCTATTATAATCAGTTTCTTC
1 GATTGTGAGTCCTGACCTTAACATAATCTAAATTGAAATAGTAAGCTATTATAATCAGTTTCTTC
92448467 ATTCTTTCCC
Statistics
Matches: 65, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
65 65 1.00
ACGTcount: A:0.34, C:0.15, G:0.14, T:0.37
Consensus pattern (65 bp):
GATTGTGAGTCCTGACCTTAACATAATCTAAATTGAAATAGTAAGCTATTATAATCAGTTTCTTC
Found at i:92452839 original size:53 final size:55
Alignment explanation
Indices: 92452725--92452839 Score: 132
Period size: 54 Copynumber: 2.1 Consensus size: 55
92452715 CCTTATAGTC
* * * *
92452725 GACA-CCCTTTCTATCAATTTAAAAAAAAAATTGAGTTTTGGGCACTCCATGGCT
1 GACACCCCTTTCTATCAATTTAAAAAAAAAATGGAGTTTTGGACACTCCATGCCA
*
92452779 GATACCCCTTT-TATCAATTTAAAAAAAAAATGGA-TTTTGGACA-TCCCATAGCCA
1 GACACCCCTTTCTATCAATTTAAAAAAAAAATGGAGTTTTGGACACT-CCAT-GCCA
92452833 G-CACCCC
1 GACACCCC
92452840 ATTAAAAAAA
Statistics
Matches: 52, Mismatches: 6, Indels: 7
0.80 0.09 0.11
Matches are distributed among these distances:
52 1 0.02
53 17 0.33
54 28 0.54
55 6 0.12
ACGTcount: A:0.35, C:0.23, G:0.13, T:0.29
Consensus pattern (55 bp):
GACACCCCTTTCTATCAATTTAAAAAAAAAATGGAGTTTTGGACACTCCATGCCA
Found at i:92455052 original size:3 final size:3
Alignment explanation
Indices: 92455020--92455161 Score: 81
Period size: 3 Copynumber: 49.3 Consensus size: 3
92455010 TGCTTTAACG
* * *
92455020 TTA TTA CTA TT- TTC TTA TCA TTA TTA -TA TTA TTA TTA TTA TTA -TA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* *
92455065 TTA -TA TTTA GTA TTA TCT- TTA ATA TTA -TA TT- TCTA TTA TTA -TA
1 TTA TTA -TTA TTA TTA T-TA TTA TTA TTA TTA TTA T-TA TTA TTA TTA
* * * *
92455108 TTTA TTA TTA TCTA TTA CT- TTA TTT TTA TTT TTA TT- TTA ATA TTA
1 -TTA TTA TTA T-TA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
92455153 TTA -TA TTA T
1 TTA TTA TTA T
92455162 ATTCACCTTT
Statistics
Matches: 106, Mismatches: 17, Indels: 32
0.68 0.11 0.21
Matches are distributed among these distances:
2 19 0.18
3 78 0.74
4 9 0.08
ACGTcount: A:0.30, C:0.05, G:0.01, T:0.64
Consensus pattern (3 bp):
TTA
Found at i:92455054 original size:17 final size:17
Alignment explanation
Indices: 92455034--92455068 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
92455024 TACTATTTTC
92455034 TTATCATTATTATATTA
1 TTATCATTATTATATTA
*
92455051 TTATTATTATTATATTA
1 TTATCATTATTATATTA
92455068 T
1 T
92455069 ATTTAGTATT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.63
Consensus pattern (17 bp):
TTATCATTATTATATTA
Found at i:92455066 original size:14 final size:14
Alignment explanation
Indices: 92455020--92455164 Score: 72
Period size: 14 Copynumber: 10.1 Consensus size: 14
92455010 TGCTTTAACG
* * *
92455020 TTATTACTATTTTC
1 TTATTATTATTATA
*
92455034 TTATCATTATTATA
1 TTATTATTATTATA
92455048 TTATTATTATTAT-
1 TTATTATTATTATA
92455061 TATATTA-TATTTAGTA
1 T-TATTATTA-TTA-TA
*
92455077 TTATCTTTAATATTATA
1 TTA---TTATTATTATA
92455094 TT-TCTATTATTATA
1 TTAT-TATTATTATA
*
92455108 TTTATTATTA-TCTA
1 -TTATTATTATTATA
92455122 TTACTTTATT-TT-TA
1 TTA--TTATTATTATA
*
92455136 TTTTTATT-TTAATA
1 TTATTATTATT-ATA
92455150 TTATTA-TATTATA
1 TTATTATTATTATA
92455163 TT
1 TT
92455165 CACCTTTTAT
Statistics
Matches: 105, Mismatches: 9, Indels: 35
0.70 0.06 0.23
Matches are distributed among these distances:
12 7 0.07
13 13 0.12
14 55 0.52
15 16 0.15
16 2 0.02
17 4 0.04
18 6 0.06
19 2 0.02
ACGTcount: A:0.30, C:0.05, G:0.01, T:0.64
Consensus pattern (14 bp):
TTATTATTATTATA
Found at i:92455078 original size:17 final size:17
Alignment explanation
Indices: 92455041--92455164 Score: 66
Period size: 17 Copynumber: 7.5 Consensus size: 17
92455031 TTCTTATCAT
*
92455041 TATTATATTATTATTAT
1 TATTATATTATTATTAG
92455058 TATTATATTA-TATTTAG
1 TATTATATTATTA-TTAG
* *
92455075 TATTATCTTTAATATTA-
1 TATTAT-ATTATTATTAG
*
92455092 TATT-T-CTATTATTA-
1 TATTATATTATTATTAG
*
92455106 TATT-TATTATTATCTAT
1 TATTATATTATTAT-TAG
* **
92455123 TACTT-TATTTTTATTTT
1 TA-TTATATTATTATTAG
* *
92455140 TATTTTAATATTATTA-
1 TATTATATTATTATTAG
92455156 TATTATATT
1 TATTATATT
92455165 CACCTTTTAT
Statistics
Matches: 87, Mismatches: 12, Indels: 17
0.75 0.10 0.15
Matches are distributed among these distances:
14 12 0.14
15 6 0.07
16 14 0.16
17 37 0.43
18 16 0.18
19 2 0.02
ACGTcount: A:0.31, C:0.03, G:0.01, T:0.65
Consensus pattern (17 bp):
TATTATATTATTATTAG
Found at i:92455105 original size:38 final size:36
Alignment explanation
Indices: 92455054--92455153 Score: 107
Period size: 38 Copynumber: 2.8 Consensus size: 36
92455044 TATATTATTA
* *
92455054 TTATTATTA-TATTATATTTAGTATTATCT-TTAAT
1 TTATTTTTATTATTATATTTAATATTATCTATTAAT
* *
92455088 ATTATATTTCTATTATTATATTTATTATTATCTATTACT
1 -TTAT-TTT-TATTATTATATTTAATATTATCTATTAAT
*
92455127 TTATTTTTATTTTTAT-TTTAATATTAT
1 TTATTTTTATTATTATATTTAATATTAT
92455154 TATATTATAT
Statistics
Matches: 56, Mismatches: 5, Indels: 8
0.81 0.07 0.12
Matches are distributed among these distances:
35 14 0.25
36 10 0.18
37 5 0.09
38 23 0.41
39 4 0.07
ACGTcount: A:0.30, C:0.04, G:0.01, T:0.65
Consensus pattern (36 bp):
TTATTTTTATTATTATATTTAATATTATCTATTAAT
Found at i:92455176 original size:26 final size:27
Alignment explanation
Indices: 92455142--92455192 Score: 77
Period size: 26 Copynumber: 1.9 Consensus size: 27
92455132 TTTATTTTTA
92455142 TTTTAATATTATTATATTATATTCACC
1 TTTTAATATTATTATATTATATTCACC
* *
92455169 TTTT-ATATTTTTATATTATTTTCA
1 TTTTAATATTATTATATTATATTCA
92455193 TTACTATTAC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 18 0.82
27 4 0.18
ACGTcount: A:0.29, C:0.08, G:0.00, T:0.63
Consensus pattern (27 bp):
TTTTAATATTATTATATTATATTCACC
Found at i:92455691 original size:11 final size:11
Alignment explanation
Indices: 92455669--92455699 Score: 53
Period size: 11 Copynumber: 2.7 Consensus size: 11
92455659 ATATCTATTT
92455669 TATATATATATG
1 TATATAT-TATG
92455681 TATATATTATG
1 TATATATTATG
92455692 TATATATT
1 TATATATT
92455700 TTAACTTTAC
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 12 0.63
12 7 0.37
ACGTcount: A:0.39, C:0.00, G:0.06, T:0.55
Consensus pattern (11 bp):
TATATATTATG
Found at i:92455739 original size:22 final size:23
Alignment explanation
Indices: 92455683--92455742 Score: 65
Period size: 22 Copynumber: 2.7 Consensus size: 23
92455673 TATATATGTA
92455683 TATA-TTATGTATATATTTTAAC
1 TATACTTATGTATATATTTTAAC
* *
92455705 TTTAC-TA-GTTATATATTTTTAC
1 TATACTTATG-TATATATTTTAAC
92455727 TAT-CTTATGTATATAT
1 TATACTTATGTATATAT
92455743 ACTTCAAACA
Statistics
Matches: 31, Mismatches: 3, Indels: 8
0.74 0.07 0.19
Matches are distributed among these distances:
21 2 0.06
22 28 0.90
23 1 0.03
ACGTcount: A:0.32, C:0.07, G:0.05, T:0.57
Consensus pattern (23 bp):
TATACTTATGTATATATTTTAAC
Found at i:92455775 original size:23 final size:22
Alignment explanation
Indices: 92455736--92455790 Score: 65
Period size: 23 Copynumber: 2.4 Consensus size: 22
92455726 CTATCTTATG
92455736 TATATATACTTCAAACACTATA
1 TATATATACTTCAAACACTATA
* *
92455758 TATAGTATATTTCTAACACTATTA
1 TATA-TATACTTCAAACACTA-TA
92455782 CTATATATA
1 -TATATATA
92455791 TATATATATA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
22 4 0.14
23 14 0.50
24 6 0.21
25 4 0.14
ACGTcount: A:0.42, C:0.15, G:0.02, T:0.42
Consensus pattern (22 bp):
TATATATACTTCAAACACTATA
Found at i:92455790 original size:2 final size:2
Alignment explanation
Indices: 92455783--92455829 Score: 78
Period size: 2 Copynumber: 24.0 Consensus size: 2
92455773 ACACTATTAC
*
92455783 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T- TA CA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
92455824 TA TA TA
1 TA TA TA
92455830 CTCTTAATTA
Statistics
Matches: 42, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
1 1 0.02
2 41 0.98
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:92460578 original size:32 final size:32
Alignment explanation
Indices: 92460541--92460605 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
92460531 GAAAAAAAAG
92460541 TAAGCTTACGTTTTCCTCAGAATGAGCCTTGA
1 TAAGCTTACGTTTTCCTCAGAATGAGCCTTGA
92460573 TAAGCTTACGTTTTCCTCAGAATGAGCCTTGA
1 TAAGCTTACGTTTTCCTCAGAATGAGCCTTGA
92460605 T
1 T
92460606 CATTTGGCGA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.25, C:0.22, G:0.18, T:0.35
Consensus pattern (32 bp):
TAAGCTTACGTTTTCCTCAGAATGAGCCTTGA
Found at i:92464859 original size:2 final size:2
Alignment explanation
Indices: 92464852--92464891 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
92464842 CTGAATATTC
92464852 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
92464892 TTTAAGCTTC
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:92470032 original size:36 final size:36
Alignment explanation
Indices: 92469957--92470060 Score: 111
Period size: 36 Copynumber: 2.8 Consensus size: 36
92469947 GTTAAAAATC
* *
92469957 AAAAGAGTTTTAAAAAATAAAAACTGAAAAATTCCAAA
1 AAAAGA-TTTTAAAAAATACAAACTGATAAATT-CAAA
* *
92469995 AAAATATTTTAAAAATTTACAAACTGATAAATT-AAA
1 AAAAGATTTTAAAAA-ATACAAACTGATAAATTCAAA
* *
92470031 AAAAGATTAATAAAAAGTACAAACTGATAA
1 AAAAGATT-TTAAAAAATACAAACTGATAA
92470061 TTTTTGAAAA
Statistics
Matches: 57, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
36 23 0.40
37 15 0.26
38 19 0.33
ACGTcount: A:0.62, C:0.07, G:0.07, T:0.25
Consensus pattern (36 bp):
AAAAGATTTTAAAAAATACAAACTGATAAATTCAAA
Found at i:92475049 original size:3 final size:3
Alignment explanation
Indices: 92475035--92475082 Score: 53
Period size: 3 Copynumber: 16.0 Consensus size: 3
92475025 AAAGGAAAAT
* * *
92475035 ATA ATA ACA ATA ATA ATA ATA ATA ATT ATT ATA ATTA A-A ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A-TA ATA ATA ATA
92475080 ATA
1 ATA
92475083 TAAATTTTAA
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
2 2 0.05
3 34 0.87
4 3 0.08
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.35
Consensus pattern (3 bp):
ATA
Found at i:92475186 original size:3 final size:3
Alignment explanation
Indices: 92475166--92475399 Score: 86
Period size: 3 Copynumber: 76.3 Consensus size: 3
92475156 AAATAAATGA
* * * * *
92475166 AAT AAT ACT ACT ACT AAT AAT AAT GAGAT AAT AAT AAT -AG AAG AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT -A-AT AAT AAT AAT AAT AAT AAT
** * * *
92475212 AAT GACAT GCT AAT AAT AAT AAT AAT AAT AAT AAC AAC AAG AAT AA-
1 AAT -A-AT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * * * * * * *
92475258 AAA AAGGT AA- AAT AAA AAT GAT GAC AAT AGT AAT AAA AAT AA- AAA
1 AAT AA--T AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * * * *
92475303 AAGC GAT GAT AAT AAT AAT AAT AGAA AAT AAT AAT AAT AAT AA- AAG
1 AA-T AAT AAT AAT AAT AAT AAT A-AT AAT AAT AAT AAT AAT AAT AAT
**
92475349 AAT AAT AAT AAT AAT AGA- AAT AATT AATT AATT AAT TTT AAT AAT AA-
1 AAT AAT AAT AAT AAT A-AT AAT AA-T AA-T AA-T AAT AAT AAT AAT AAT
92475396 AAT A
1 AAT A
92475400 GCAAAATAAC
Statistics
Matches: 181, Mismatches: 33, Indels: 34
0.73 0.13 0.14
Matches are distributed among these distances:
2 12 0.07
3 145 0.80
4 18 0.10
5 6 0.03
ACGTcount: A:0.62, C:0.04, G:0.08, T:0.26
Consensus pattern (3 bp):
AAT
Found at i:92475199 original size:14 final size:13
Alignment explanation
Indices: 92475180--92475244 Score: 62
Period size: 14 Copynumber: 4.8 Consensus size: 13
92475170 ATACTACTAC
92475180 TAATAATAATGAGA
1 TAATAATAAT-AGA
92475194 TAATAATAATAGAA
1 TAATAATAATAG-A
* *
92475208 GAATAATGACAT-GC
1 TAATAAT-A-ATAGA
92475222 TAATAATAATA-A
1 TAATAATAATAGA
92475234 TAATAATAATA
1 TAATAATAATA
92475245 ACAACAAGAA
Statistics
Matches: 43, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
12 13 0.30
13 3 0.07
14 23 0.53
15 2 0.05
16 2 0.05
ACGTcount: A:0.58, C:0.03, G:0.09, T:0.29
Consensus pattern (13 bp):
TAATAATAATAGA
Found at i:92475272 original size:42 final size:41
Alignment explanation
Indices: 92475226--92475372 Score: 118
Period size: 42 Copynumber: 3.5 Consensus size: 41
92475216 ACATGCTAAT
* * *
92475226 AATAATAATAATAATAATAACAACAAGAATAAAAAAAGGTAA
1 AATAATAATAATAATAATAATAATAAAAATAAAAAAAGG-AA
* * * * * *
92475268 AATAAAAATGATGACAATAGTAATAAAAATAAAAAAAGCGAT
1 AATAATAATAATAATAATAATAATAAAAATAAAAAAAG-GAA
* * * *
92475310 GATAATAATAATAATAGAAAATAATAATAATAATAAAA-GAA
1 AATAATAATAATAATA-ATAATAATAAAAATAAAAAAAGGAA
92475351 TAATAATAATAATAGA-AATAAT
1 -AATAATAATAATA-ATAATAAT
92475373 TAATTAATTA
Statistics
Matches: 80, Mismatches: 21, Indels: 9
0.73 0.19 0.08
Matches are distributed among these distances:
41 6 0.08
42 55 0.69
43 19 0.24
ACGTcount: A:0.67, C:0.03, G:0.08, T:0.22
Consensus pattern (41 bp):
AATAATAATAATAATAATAATAATAAAAATAAAAAAAGGAA
Found at i:92476105 original size:2 final size:2
Alignment explanation
Indices: 92476098--92476130 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
92476088 AAGAAAGAAA
92476098 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
92476131 AGACCTTAAC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:92481249 original size:11 final size:12
Alignment explanation
Indices: 92481218--92481252 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
92481208 GACCCGCTTG
*
92481218 TATTAATTTCTA
1 TATTAATTTTTA
92481230 TATTAATTTTTA
1 TATTAATTTTTA
92481242 TA-TAATTTTTA
1 TATTAATTTTTA
92481253 AATATATATA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
11 9 0.41
12 13 0.59
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.63
Consensus pattern (12 bp):
TATTAATTTTTA
Found at i:92481408 original size:30 final size:30
Alignment explanation
Indices: 92481372--92481436 Score: 112
Period size: 30 Copynumber: 2.2 Consensus size: 30
92481362 TAACTTAACA
*
92481372 AACAAATGCCTCTAAAATAATAACAAAATT
1 AACAAATACCTCTAAAATAATAACAAAATT
*
92481402 AACAAATACCTTTAAAATAATAACAAAATT
1 AACAAATACCTCTAAAATAATAACAAAATT
92481432 AACAA
1 AACAA
92481437 TAACATAAGT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 33 1.00
ACGTcount: A:0.60, C:0.15, G:0.02, T:0.23
Consensus pattern (30 bp):
AACAAATACCTCTAAAATAATAACAAAATT
Found at i:92481491 original size:22 final size:22
Alignment explanation
Indices: 92481466--92481508 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
92481456 TATCCAAACA
92481466 ATAATAACAAAATAGTAGCAAC
1 ATAATAACAAAATAGTAGCAAC
** *
92481488 ATAATATTAAAATGGTAGCAA
1 ATAATAACAAAATAGTAGCAA
92481509 AATAGAAAAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.56, C:0.09, G:0.12, T:0.23
Consensus pattern (22 bp):
ATAATAACAAAATAGTAGCAAC
Found at i:92486423 original size:34 final size:35
Alignment explanation
Indices: 92486367--92486446 Score: 83
Period size: 35 Copynumber: 2.3 Consensus size: 35
92486357 AAAATTATTA
* ** * *
92486367 TTTTAAAATTTTTAACTTTATAT-ATTCTTTAATTT
1 TTTTAAATTTTTTAACAATATATAATT-TTGAAGTT
92486402 TTTTAAATTTTTTAA-AATATATAAATTTTGAAGTT
1 TTTTAAATTTTTTAACAATATAT-AATTTTGAAGTT
92486437 TTTTAAATTT
1 TTTTAAATTT
92486447 ATTTTGAATT
Statistics
Matches: 38, Mismatches: 5, Indels: 4
0.81 0.11 0.09
Matches are distributed among these distances:
34 5 0.13
35 30 0.79
36 3 0.08
ACGTcount: A:0.35, C:0.03, G:0.03, T:0.60
Consensus pattern (35 bp):
TTTTAAATTTTTTAACAATATATAATTTTGAAGTT
Found at i:92486450 original size:21 final size:20
Alignment explanation
Indices: 92486426--92486481 Score: 67
Period size: 20 Copynumber: 2.7 Consensus size: 20
92486416 AAATATATAA
*
92486426 ATTTTGAAGTTTTTTAAATTT
1 ATTTTGAA-TTTTTTAAAATT
*
92486447 ATTTTGAATTTTTAAAAATT
1 ATTTTGAATTTTTTAAAATT
*
92486467 ACTTTGAACTTTTTT
1 ATTTTGAA-TTTTTT
92486482 TTTAATTTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
20 17 0.57
21 13 0.43
ACGTcount: A:0.30, C:0.04, G:0.07, T:0.59
Consensus pattern (20 bp):
ATTTTGAATTTTTTAAAATT
Found at i:92490926 original size:23 final size:22
Alignment explanation
Indices: 92490886--92490929 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
92490876 AGATTTGAAT
92490886 TTTTAAATCTGAACAATAAAAA
1 TTTTAAATCTGAACAATAAAAA
92490908 TTTTAAATTTCTGAA-AATAAAA
1 TTTTAAA--TCTGAACAATAAAA
92490930 GTAAGGAAAC
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
22 7 0.35
23 7 0.35
24 6 0.30
ACGTcount: A:0.52, C:0.07, G:0.05, T:0.36
Consensus pattern (22 bp):
TTTTAAATCTGAACAATAAAAA
Found at i:92491419 original size:5 final size:5
Alignment explanation
Indices: 92491409--92491434 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
92491399 TGCAATCTTA
92491409 GATAT GATAT GATAT GATAT GATAT G
1 GATAT GATAT GATAT GATAT GATAT G
92491435 CAATCTTGAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.38, C:0.00, G:0.23, T:0.38
Consensus pattern (5 bp):
GATAT
Found at i:92498576 original size:26 final size:26
Alignment explanation
Indices: 92498547--92498654 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
92498537 TGATACAAAT
*
92498547 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
92498573 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
92498599 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
92498625 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
92498651 TGAT
1 TGAT
92498655 GGGCATTTCA
Statistics
Matches: 76, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 76 1.00
ACGTcount: A:0.32, C:0.06, G:0.24, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:92502596 original size:205 final size:205
Alignment explanation
Indices: 92502244--92502989 Score: 1286
Period size: 205 Copynumber: 3.7 Consensus size: 205
92502234 GGCTGAAACA
* *
92502244 AGATCCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCAAAGACATAGATGATTTGGC
1 AGATCCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCTGATTTGGC
92502309 TTTCACGTGCTTACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAA
66 TTTCACGTGCTTACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAA
* *
92502374 TCGAAGTCTGGCATCTCCATTTCGACGGAGAGTAGATACATAGCAAATCTAACCTTCAGATGTTT
131 TCGAAGTCTGGCATCTCCATTTCGACGGAGAGCAGATACATAGCAGATCTAACCTTCAGATGTTT
92502439 ATACTAAAGC
196 ATACTAAAGC
*
92502449 AGATCCAAGATGGTTTGGCATCCTTGTGTTTACAAGGAACAAATCGAAGACATAGCTGATTTGGC
1 AGATCCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCTGATTTGGC
92502514 TTTCACGTGCTTACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAA
66 TTTCACGTGCTTACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAA
*
92502579 TCAAAGTCTGGCATCTCCATTTCGACGGAGAGCAGATACATAGCAGATCTAACCTTCAGATGTTT
131 TCGAAGTCTGGCATCTCCATTTCGACGGAGAGCAGATACATAGCAGATCTAACCTTCAGATGTTT
* *
92502644 ATACTGAAGT
196 ATACTAAAGC
* *
92502654 AGATCCAAGATGGTTTAGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCTAATTTGGC
1 AGATCCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCTGATTTGGC
*
92502719 TTTCACGTGCTTACGATGAAGTAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAA
66 TTTCACGTGCTTACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAA
92502784 TCGAAGTCTGGCATCTCCATTTCGACGGAGAGCAGATACATAGCAGATCTAACCTTCAGATG---
131 TCGAAGTCTGGCATCTCCATTTCGACGGAGAGCAGATACATAGCAGATCTAACCTTCAGATGTTT
92502846 --ACTAAAGC
196 ATACTAAAGC
* * *
92502854 AGATCCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAATAAATCGAAGATATAGCTGATTTGGT
1 AGATCCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCTGATTTGGC
** * * *
92502919 TTTTGCGTGCTTACGCTGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTTAAAGAACAAA
66 TTTCACGTGCTTACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAA
92502984 TCGAAG
131 TCGAAG
92502990 AAACAGATTT
Statistics
Matches: 515, Mismatches: 26, Indels: 5
0.94 0.05 0.01
Matches are distributed among these distances:
200 131 0.25
205 384 0.75
ACGTcount: A:0.32, C:0.18, G:0.21, T:0.29
Consensus pattern (205 bp):
AGATCCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCTGATTTGGC
TTTCACGTGCTTACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAA
TCGAAGTCTGGCATCTCCATTTCGACGGAGAGCAGATACATAGCAGATCTAACCTTCAGATGTTT
ATACTAAAGC
Found at i:92503279 original size:256 final size:255
Alignment explanation
Indices: 92502821--92503328 Score: 643
Period size: 256 Copynumber: 2.0 Consensus size: 255
92502811 GAGAGCAGAT
*
92502821 ACATAGCAGATCTAACCTTCAGATGACTAAAGCAGATCCAAGATGGTTTGGCATCCTTGTGCTTA
1 ACATAGCAGATCTAACCTTCAGATGACTAAAGCAGATCCAAGATGATTTGGCATCCTTGTGCTTA
* * * * * **
92502886 CAAGGAATAAATCGAAGATATAGCTGATTTGGTTTTTGCGTGCTTACGCTGAAGCAAATCTAAGA
66 CAAGGAACAAA-CGAACACATAGCAGATTTGGCTTTCACGTGCTTACGCTGAAGCAAATCTAAGA
*
92502951 TGATTTGGCATCTCTGTATTGTTAAAGAACAAATCGAAGAAACAGATTTGGCGTCTCTATATTCG
130 TGATTTGGCATCTCTGTATTGTCAAAGAACAAATCGAAGAAACAGATTTGGCGTCTCTATATTCG
* *
92503016 GCGGAGAGTAGATCGAAGATATCAACAGGACAGTCATAAGTTTACAA-GAAGCAGATTAAAG
195 ACGGAGAGCAGATCGAAGATATCAACAGGACAGTCATAAGTTTACAATG-AGCAGATTAAAG
* * *
92503077 ACATAGCAGATCTGACCTTCAGATGATTTTACTGAAGCAGATCCAAGATGATTTGGCATCTTTGT
1 ACATAGCAGATCTAACCTTCAGATG-----ACTAAAGCAGATCCAAGATGATTTGGCATCCTTGT
* * * *
92503142 G-TTCACAAGGAGCAAA-G-ACACA-A-CAGATTTGGCTTTCACGTGTTTACGTTGAAGCAGATC
61 GCTT-ACAAGGAACAAACGAACACATAGCAGATTTGGCTTTCACGTGCTTACGCTGAAGCAAATC
* * * *
92503202 TAAGATGATTTGGTATCTCTGTATTGTCAGAA-AACAAATCGAAGAAGCAGATTTGGTGTCTCTG
125 TAAGATGATTTGGCATCTCTGTATTGTCA-AAGAACAAATCGAAGAAACAGATTTGGCGTCTCTA
* * * * *
92503266 TGTTCGACGGAGAGCAGATCGAAGATATCAACATGACAGTCTTGAGTTTGCAATGAGCAGATT
189 TATTCGACGGAGAGCAGATCGAAGATATCAACAGGACAGTCATAAGTTTACAATGAGCAGATT
92503329 GAGGACCATG
Statistics
Matches: 217, Mismatches: 27, Indels: 16
0.83 0.10 0.06
Matches are distributed among these distances:
256 164 0.76
257 4 0.02
258 3 0.01
259 1 0.00
260 2 0.01
261 43 0.20
ACGTcount: A:0.33, C:0.16, G:0.23, T:0.28
Consensus pattern (255 bp):
ACATAGCAGATCTAACCTTCAGATGACTAAAGCAGATCCAAGATGATTTGGCATCCTTGTGCTTA
CAAGGAACAAACGAACACATAGCAGATTTGGCTTTCACGTGCTTACGCTGAAGCAAATCTAAGAT
GATTTGGCATCTCTGTATTGTCAAAGAACAAATCGAAGAAACAGATTTGGCGTCTCTATATTCGA
CGGAGAGCAGATCGAAGATATCAACAGGACAGTCATAAGTTTACAATGAGCAGATTAAAG
Found at i:92503638 original size:19 final size:19
Alignment explanation
Indices: 92503614--92503697 Score: 108
Period size: 19 Copynumber: 4.7 Consensus size: 19
92503604 AATCTTTAAG
92503614 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
92503633 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
*
92503652 GATAT--AGTCTTAGATAT
1 GATATGCAATCTTAGATAT
*
92503669 GATATG--AT-AT-GATAT
1 GATATGCAATCTTAGATAT
92503684 GATATGCAATCTTA
1 GATATGCAATCTTA
92503698 AAGATCTGAT
Statistics
Matches: 56, Mismatches: 4, Indels: 10
0.80 0.06 0.14
Matches are distributed among these distances:
15 11 0.20
16 1 0.02
17 19 0.34
18 1 0.02
19 24 0.43
ACGTcount: A:0.37, C:0.08, G:0.17, T:0.38
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:92503672 original size:5 final size:5
Alignment explanation
Indices: 92503664--92503689 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
92503654 TATAGTCTTA
92503664 GATAT GATAT GATAT GATAT GATAT G
1 GATAT GATAT GATAT GATAT GATAT G
92503690 CAATCTTAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.38, C:0.00, G:0.23, T:0.38
Consensus pattern (5 bp):
GATAT
Found at i:92505889 original size:4 final size:4
Alignment explanation
Indices: 92505880--92505920 Score: 57
Period size: 4 Copynumber: 10.5 Consensus size: 4
92505870 CCCATATATT
* *
92505880 AATA AATA AATG AACA AATA AATA AA-A AATA AATA AATA AA
1 AATA AATA AATA AATA AATA AATA AATA AATA AATA AATA AA
92505921 AGTTTATTTA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
3 3 0.09
4 29 0.91
ACGTcount: A:0.76, C:0.02, G:0.02, T:0.20
Consensus pattern (4 bp):
AATA
Found at i:92505911 original size:11 final size:11
Alignment explanation
Indices: 92505883--92505916 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
92505873 ATATATTAAT
*
92505883 AAATAAATGAAC
1 AAATAAAT-AAA
92505895 AAATAAATAAA
1 AAATAAATAAA
92505906 AAATAAATAAA
1 AAATAAATAAA
92505917 TAAAAGTTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
11 13 0.62
12 8 0.38
ACGTcount: A:0.76, C:0.03, G:0.03, T:0.18
Consensus pattern (11 bp):
AAATAAATAAA
Found at i:92505915 original size:15 final size:15
Alignment explanation
Indices: 92505880--92505921 Score: 57
Period size: 15 Copynumber: 2.7 Consensus size: 15
92505870 CCCATATATT
*
92505880 AATAAATAAATGAACA
1 AATAAATAAA-AAACA
*
92505896 AATAAATAAAAAATA
1 AATAAATAAAAAACA
92505911 AATAAATAAAA
1 AATAAATAAAA
92505922 GTTTATTTAT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
15 14 0.58
16 10 0.42
ACGTcount: A:0.76, C:0.02, G:0.02, T:0.19
Consensus pattern (15 bp):
AATAAATAAAAAACA
Found at i:92507384 original size:26 final size:28
Alignment explanation
Indices: 92507317--92507384 Score: 70
Period size: 27 Copynumber: 2.4 Consensus size: 28
92507307 ATTTTCATTG
92507317 TATATATTATTTATTTTACTATGTTTTATC
1 TATAT-TTATTTATTTTAC-ATGTTTTATC
92507347 TATTATTATATTT-TTTTA-AT-TTTTATC
1 TA-TATT-TATTTATTTTACATGTTTTATC
92507374 ATATATTTATT
1 -TATATTTATT
92507385 ATATATATTA
Statistics
Matches: 35, Mismatches: 0, Indels: 10
0.78 0.00 0.22
Matches are distributed among these distances:
26 4 0.11
27 11 0.31
28 4 0.11
30 8 0.23
31 8 0.23
ACGTcount: A:0.28, C:0.04, G:0.01, T:0.66
Consensus pattern (28 bp):
TATATTTATTTATTTTACATGTTTTATC
Found at i:92507598 original size:16 final size:14
Alignment explanation
Indices: 92507574--92507656 Score: 66
Period size: 14 Copynumber: 6.0 Consensus size: 14
92507564 ATATTTCCTC
*
92507574 ATATATTATATTAT
1 ATATATTTTATTAT
*
92507588 ATATATTTTATTAC
1 ATATATTTTATTAT
92507602 ATATATTTTTATTACT
1 ATATA-TTTTATTA-T
*
92507618 ATACGA-TTTA-TAT
1 ATA-TATTTTATTAT
92507631 -TATATTTTATT-T
1 ATATATTTTATTAT
* *
92507643 GTAGATTTTATTAT
1 ATATATTTTATTAT
92507657 GTTTCACCAT
Statistics
Matches: 56, Mismatches: 6, Indels: 14
0.74 0.08 0.18
Matches are distributed among these distances:
11 1 0.02
12 7 0.12
13 12 0.21
14 20 0.36
15 12 0.21
16 3 0.05
17 1 0.02
ACGTcount: A:0.34, C:0.04, G:0.04, T:0.59
Consensus pattern (14 bp):
ATATATTTTATTAT
Found at i:92522639 original size:44 final size:44
Alignment explanation
Indices: 92522220--92522628 Score: 667
Period size: 44 Copynumber: 9.3 Consensus size: 44
92522210 TAAGCAGTAG
*
92522220 GAGAGCAAATCGAGGATAGCAGATTTGGCGTCTCTGTATTGGCA
1 GAGAGCAGATCGAGGATAGCAGATTTGGCGTCTCTGTATTGGCA
92522264 GAGAGCAGATCGAGGATAGCAGATTTGGCGTCTCTGTATTGGCA
1 GAGAGCAGATCGAGGATAGCAGATTTGGCGTCTCTGTATTGGCA
* * * ** *
92522308 GAGAGCAGATCGACGATAGTAGATTTTGTATCTCTATATTGGCA
1 GAGAGCAGATCGAGGATAGCAGATTTGGCGTCTCTGTATTGGCA
* *
92522352 GAGAGCAGGTCGAGGATAGCAGATTTAGCGTCTCTGTATTGGCA
1 GAGAGCAGATCGAGGATAGCAGATTTGGCGTCTCTGTATTGGCA
92522396 GAGAGCAGATCGAGGATAGCAGATTTGGCGTCTCTGTATTGGCA
1 GAGAGCAGATCGAGGATAGCAGATTTGGCGTCTCTGTATTGGCA
92522440 GAGAGCAGATCGAGGATAGCAGATTTGGCGTCTCTGTATTGGCA
1 GAGAGCAGATCGAGGATAGCAGATTTGGCGTCTCTGTATTGGCA
* *
92522484 GAGAGCAGATCGAAGATAGCAGATTTGGCGTCTCT-AATTGGCA
1 GAGAGCAGATCGAGGATAGCAGATTTGGCGTCTCTGTATTGGCA
* *
92522527 GAGAGCAGATCAAAGATAGCAGATTTGGCGTCTCTGTATTGGCA
1 GAGAGCAGATCGAGGATAGCAGATTTGGCGTCTCTGTATTGGCA
* * *
92522571 GAGAGCAGATCGAAGATAGCAGATTTGGCGTCTTTGTATTGGTA
1 GAGAGCAGATCGAGGATAGCAGATTTGGCGTCTCTGTATTGGCA
92522615 GAGAGCAGATCGAG
1 GAGAGCAGATCGAG
92522629 AATAATAGAT
Statistics
Matches: 340, Mismatches: 24, Indels: 2
0.93 0.07 0.01
Matches are distributed among these distances:
43 41 0.12
44 299 0.88
ACGTcount: A:0.27, C:0.15, G:0.32, T:0.25
Consensus pattern (44 bp):
GAGAGCAGATCGAGGATAGCAGATTTGGCGTCTCTGTATTGGCA
Found at i:92522865 original size:4 final size:4
Alignment explanation
Indices: 92522856--92522896 Score: 57
Period size: 4 Copynumber: 10.5 Consensus size: 4
92522846 CCCATATATT
* *
92522856 AATA AATA AATG AACA AATA AATA AA-A AATA AATA AATA AA
1 AATA AATA AATA AATA AATA AATA AATA AATA AATA AATA AA
92522897 AGTTTATTTA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
3 3 0.09
4 29 0.91
ACGTcount: A:0.76, C:0.02, G:0.02, T:0.20
Consensus pattern (4 bp):
AATA
Found at i:92522887 original size:11 final size:11
Alignment explanation
Indices: 92522859--92522892 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
92522849 ATATATTAAT
*
92522859 AAATAAATGAAC
1 AAATAAAT-AAA
92522871 AAATAAATAAA
1 AAATAAATAAA
92522882 AAATAAATAAA
1 AAATAAATAAA
92522893 TAAAAGTTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
11 13 0.62
12 8 0.38
ACGTcount: A:0.76, C:0.03, G:0.03, T:0.18
Consensus pattern (11 bp):
AAATAAATAAA
Found at i:92522891 original size:15 final size:15
Alignment explanation
Indices: 92522856--92522897 Score: 57
Period size: 15 Copynumber: 2.7 Consensus size: 15
92522846 CCCATATATT
*
92522856 AATAAATAAATGAACA
1 AATAAATAAA-AAACA
*
92522872 AATAAATAAAAAATA
1 AATAAATAAAAAACA
92522887 AATAAATAAAA
1 AATAAATAAAA
92522898 GTTTATTTAT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
15 14 0.58
16 10 0.42
ACGTcount: A:0.76, C:0.02, G:0.02, T:0.19
Consensus pattern (15 bp):
AATAAATAAAAAACA
Found at i:92524341 original size:22 final size:25
Alignment explanation
Indices: 92524297--92524355 Score: 72
Period size: 22 Copynumber: 2.4 Consensus size: 25
92524287 TCATTGTATA
92524297 TATTATTTATTTTACTATGTTTTATC
1 TATTATTTATTTTAC-ATGTTTTATC
92524323 TATTATTT-TTTTA-AT-TTTTATC
1 TATTATTTATTTTACATGTTTTATC
92524345 -ATATATTTATT
1 TAT-TATTTATT
92524356 ATATATATTA
Statistics
Matches: 31, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
21 2 0.06
22 12 0.39
23 4 0.13
25 5 0.16
26 8 0.26
ACGTcount: A:0.25, C:0.05, G:0.02, T:0.68
Consensus pattern (25 bp):
TATTATTTATTTTACATGTTTTATC
Found at i:92524568 original size:16 final size:14
Alignment explanation
Indices: 92524544--92524605 Score: 61
Period size: 14 Copynumber: 4.1 Consensus size: 14
92524534 ATATTTCCTC
*
92524544 ATATATTATATTAT
1 ATATATTTTATTAT
*
92524558 ATATATTTTATTAC
1 ATATATTTTATTAT
92524572 ATATATTTTTATTACT
1 ATATA-TTTTATTA-T
*
92524588 ATACGATTTATATTAT
1 ATA-TATTT-TATTAT
92524604 AT
1 AT
92524606 TTTATTTGTA
Statistics
Matches: 40, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
14 17 0.43
15 8 0.20
16 9 0.22
17 6 0.15
ACGTcount: A:0.37, C:0.05, G:0.02, T:0.56
Consensus pattern (14 bp):
ATATATTTTATTAT
Found at i:92524579 original size:14 final size:14
Alignment explanation
Indices: 92524543--92524590 Score: 62
Period size: 14 Copynumber: 3.4 Consensus size: 14
92524533 TATATTTCCT
*
92524543 CATATATTATATTA
1 CATATATTTTATTA
*
92524557 TATATATTTTATTA
1 CATATATTTTATTA
92524571 CATATATTTTTATTA
1 CATATA-TTTTATTA
92524586 C-TATA
1 CATATA
92524591 CGATTTATAT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
14 21 0.70
15 9 0.30
ACGTcount: A:0.38, C:0.06, G:0.00, T:0.56
Consensus pattern (14 bp):
CATATATTTTATTA
Found at i:92526760 original size:19 final size:20
Alignment explanation
Indices: 92526733--92526787 Score: 69
Period size: 19 Copynumber: 2.9 Consensus size: 20
92526723 GTCTCTCTCA
92526733 ATAAAAATTCAAAACAATTT
1 ATAAAAATTCAAAACAATTT
* *
92526753 -TTAAAATTCAAAA-TATTT
1 ATAAAAATTCAAAACAATTT
*
92526771 ATAAAAATTTAAAACAA
1 ATAAAAATTCAAAACAA
92526788 AATTATAAAT
Statistics
Matches: 28, Mismatches: 5, Indels: 4
0.76 0.14 0.11
Matches are distributed among these distances:
18 4 0.14
19 23 0.82
20 1 0.04
ACGTcount: A:0.60, C:0.07, G:0.00, T:0.33
Consensus pattern (20 bp):
ATAAAAATTCAAAACAATTT
Found at i:92528566 original size:21 final size:21
Alignment explanation
Indices: 92528537--92528589 Score: 63
Period size: 21 Copynumber: 2.6 Consensus size: 21
92528527 AATTTTTAAA
* **
92528537 ATTTTAATTTTTTATGTATAT
1 ATTTAAATTTTTTATAAATAT
92528558 ATTTAAATTTTTTATAAATAT
1 ATTTAAATTTTTTATAAATAT
*
92528579 -TTTGAATTTTT
1 ATTTAAATTTTT
92528590 GAAACTTATT
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
20 10 0.36
21 18 0.64
ACGTcount: A:0.32, C:0.00, G:0.04, T:0.64
Consensus pattern (21 bp):
ATTTAAATTTTTTATAAATAT
Found at i:92528586 original size:20 final size:20
Alignment explanation
Indices: 92528529--92528610 Score: 73
Period size: 20 Copynumber: 4.2 Consensus size: 20
92528519 TTTTAGAAAA
92528529 TTTT-TAAA-ATTTT-AATT
1 TTTTATAAATATTTTGAATT
** *
92528546 TTTTATGTATATATTTAAATT
1 TTTTATAAATAT-TTTGAATT
92528567 TTTTATAAATATTTTGAATT
1 TTTTATAAATATTTTGAATT
* *
92528587 TTTGA-AACTTATTTTGAATT
1 TTTTATAA-ATATTTTGAATT
92528607 TTTT
1 TTTT
92528611 TAATTTTTTT
Statistics
Matches: 52, Mismatches: 8, Indels: 7
0.78 0.12 0.10
Matches are distributed among these distances:
17 4 0.08
18 2 0.04
19 4 0.08
20 28 0.54
21 14 0.27
ACGTcount: A:0.32, C:0.01, G:0.05, T:0.62
Consensus pattern (20 bp):
TTTTATAAATATTTTGAATT
Found at i:92531998 original size:20 final size:20
Alignment explanation
Indices: 92531973--92532013 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
92531963 CACATTCATG
92531973 CAAAGATGATGATTTTTCTT
1 CAAAGATGATGATTTTTCTT
92531993 CAAAGATGATGATTTTTCTT
1 CAAAGATGATGATTTTTCTT
92532013 C
1 C
92532014 GTTTAGCATA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.29, C:0.12, G:0.15, T:0.44
Consensus pattern (20 bp):
CAAAGATGATGATTTTTCTT
Found at i:92536203 original size:19 final size:18
Alignment explanation
Indices: 92536167--92536210 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
92536157 AAGTTGTTTG
*
92536167 TTTA-TTTTTCTTATTTA
1 TTTATTTTTTCTCATTTA
92536184 TTTATTTTTATCTCATTTA
1 TTTATTTTT-TCTCATTTA
*
92536203 TATATTTT
1 TTTATTTT
92536211 ACGATTTCTC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 4 0.17
18 4 0.17
19 15 0.65
ACGTcount: A:0.20, C:0.07, G:0.00, T:0.73
Consensus pattern (18 bp):
TTTATTTTTTCTCATTTA
Found at i:92538108 original size:326 final size:326
Alignment explanation
Indices: 92537515--92538497 Score: 1948
Period size: 326 Copynumber: 3.0 Consensus size: 326
92537505 CCAATTCTTG
*
92537515 CAGAATCAAAGAATGGCTTACGAGTATGAGTACATCGTTTTATTTATGCCATAGTCCAATTATGG
1 CAGAATCAAAGAATGGCTTACGAGTATGAGTACATCGTTTTATTTATCCCATAGTCCAATTATGG
92537580 TCTTACATGTATGTTGTTATGGCCCTGCCATGGTCTTACATTCGCAGTGCCATAACCCAGTTATG
66 TCTTACATGTATGTTGTTATGGCCCTGCCATGGTCTTACATTCGCAGTGCCATAACCCAGTTATG
92537645 GTCTTATTATCAGATTGCAATAGCCTATTATCACTGCCTTGGTCCAACCATGGTCTTATGTTCAT
131 GTCTTATTATCAGATTGCAATAGCCTATTATCACTGCCTTGGTCCAACCATGGTCTTATGTTCAT
92537710 AGTGCCATAACCCAATTATGGTCTTATCCGTTAATTCATTCTTTACATTAATGTCATAGCCTAGC
196 AGTGCCATAACCCAATTATGGTCTTATCCGTTAATTCATTCTTTACATTAATGTCATAGCCTAGC
92537775 TATGGTCTTACATATAAACATGCCATGGTCCAACCATGGTCTTATCCGGCAAATCATCCTTTACC
261 TATGGTCTTACATATAAACATGCCATGGTCCAACCATGGTCTTATCCGGCAAATCATCCTTTACC
92537840 A
326 A
92537841 CAGAATCAAAGAATGGCTTACGAGTATGAGTACATCGTTTTATTTATCCCATAGTCCAATTATGG
1 CAGAATCAAAGAATGGCTTACGAGTATGAGTACATCGTTTTATTTATCCCATAGTCCAATTATGG
92537906 TCTTACATGTATGTTGTTATGGCCCTGCCATGGTCTTACATTCGCAGTGCCATAACCCAGTTATG
66 TCTTACATGTATGTTGTTATGGCCCTGCCATGGTCTTACATTCGCAGTGCCATAACCCAGTTATG
92537971 GTCTTATTATCAGATTGCAATAGCCTATTATCACTGCCTTGGTCCAACCATGGTCTTATGTTCAT
131 GTCTTATTATCAGATTGCAATAGCCTATTATCACTGCCTTGGTCCAACCATGGTCTTATGTTCAT
92538036 AGTGCCATAACCCAATTATGGTCTTATCCGTTAATTCATTCTTTACATTAATGTCATAGCCTAGC
196 AGTGCCATAACCCAATTATGGTCTTATCCGTTAATTCATTCTTTACATTAATGTCATAGCCTAGC
92538101 TATGGTCTTACATATAAACATGCCATGGTCCAACCATGGTCTTATCCGGCAAATCATCCTTTACC
261 TATGGTCTTACATATAAACATGCCATGGTCCAACCATGGTCTTATCCGGCAAATCATCCTTTACC
92538166 A
326 A
92538167 CAGAATCAAAGAATGGCTTACGAGTATGAGTACATCGTTTTATTTATCCCATAGTCCAATTATGG
1 CAGAATCAAAGAATGGCTTACGAGTATGAGTACATCGTTTTATTTATCCCATAGTCCAATTATGG
92538232 TCTTACATGTATGTTGTTATGGCCCTGCCATGGTCTTACATTCGCAGTGCCATAACCCAGTTATG
66 TCTTACATGTATGTTGTTATGGCCCTGCCATGGTCTTACATTCGCAGTGCCATAACCCAGTTATG
*
92538297 GTCTTATTATCAGATTGCAATAGCCTATTATCACTGCCTTGGTCCAACCATGGTCTTATGTTCGT
131 GTCTTATTATCAGATTGCAATAGCCTATTATCACTGCCTTGGTCCAACCATGGTCTTATGTTCAT
92538362 AGTGCCATAACCCAATTATGGTCTTATCCGTTAATTCATTCTTTACATTAATGTCATAGCCTAGC
196 AGTGCCATAACCCAATTATGGTCTTATCCGTTAATTCATTCTTTACATTAATGTCATAGCCTAGC
92538427 TATGGTCTTACATATAAACATGCCATGGTCCAACCATGGTCTTATCCGGCAAATCATCCTTTACC
261 TATGGTCTTACATATAAACATGCCATGGTCCAACCATGGTCTTATCCGGCAAATCATCCTTTACC
92538492 A
326 A
92538493 CAGAA
1 CAGAA
92538498 CGAATGTACT
Statistics
Matches: 655, Mismatches: 2, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
326 655 1.00
ACGTcount: A:0.26, C:0.23, G:0.16, T:0.34
Consensus pattern (326 bp):
CAGAATCAAAGAATGGCTTACGAGTATGAGTACATCGTTTTATTTATCCCATAGTCCAATTATGG
TCTTACATGTATGTTGTTATGGCCCTGCCATGGTCTTACATTCGCAGTGCCATAACCCAGTTATG
GTCTTATTATCAGATTGCAATAGCCTATTATCACTGCCTTGGTCCAACCATGGTCTTATGTTCAT
AGTGCCATAACCCAATTATGGTCTTATCCGTTAATTCATTCTTTACATTAATGTCATAGCCTAGC
TATGGTCTTACATATAAACATGCCATGGTCCAACCATGGTCTTATCCGGCAAATCATCCTTTACC
A
Found at i:92544031 original size:8 final size:8
Alignment explanation
Indices: 92544018--92544050 Score: 50
Period size: 8 Copynumber: 4.2 Consensus size: 8
92544008 AGTTTTAGTT
92544018 TTTAAGTA
1 TTTAAGTA
92544026 TTTAAGTA
1 TTTAAGTA
*
92544034 TTTAAGAA
1 TTTAAGTA
92544042 TTTAA-TA
1 TTTAAGTA
92544049 TT
1 TT
92544051 ATATATAGTG
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
7 3 0.13
8 20 0.87
ACGTcount: A:0.39, C:0.00, G:0.09, T:0.52
Consensus pattern (8 bp):
TTTAAGTA
Found at i:92553090 original size:20 final size:20
Alignment explanation
Indices: 92553067--92553106 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
92553057 TTAGTTCAGT
*
92553067 GACCATTAAGTTTTTTGCAC
1 GACCATCAAGTTTTTTGCAC
92553087 GACCATCAAGTTTTTTGCAC
1 GACCATCAAGTTTTTTGCAC
92553107 CGTTGCCGAG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.25, C:0.23, G:0.15, T:0.38
Consensus pattern (20 bp):
GACCATCAAGTTTTTTGCAC
Found at i:92558093 original size:17 final size:17
Alignment explanation
Indices: 92558071--92558107 Score: 74
Period size: 17 Copynumber: 2.2 Consensus size: 17
92558061 GATAATTTTA
92558071 AATCTTTTGTTAATGTT
1 AATCTTTTGTTAATGTT
92558088 AATCTTTTGTTAATGTT
1 AATCTTTTGTTAATGTT
92558105 AAT
1 AAT
92558108 GAACATGTGG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.27, C:0.05, G:0.11, T:0.57
Consensus pattern (17 bp):
AATCTTTTGTTAATGTT
Found at i:92559502 original size:29 final size:28
Alignment explanation
Indices: 92559468--92559544 Score: 77
Period size: 29 Copynumber: 2.6 Consensus size: 28
92559458 TTTTCTTTAT
92559468 TTTATTTTTGATTTATTTCTGTA-TTATTA
1 TTTATTTTTGATTTATTT-T-TATTTATTA
*
92559497 TTTATTATATT-ATTTATTTTTATTTTTTA
1 TTTATT-T-TTGATTTATTTTTATTTATTA
*
92559526 TCTATTTTATGATTTATTT
1 TTTATTTT-TGATTTATTT
92559545 ATTTTGTTTT
Statistics
Matches: 41, Mismatches: 2, Indels: 10
0.77 0.04 0.19
Matches are distributed among these distances:
27 1 0.02
28 4 0.10
29 25 0.61
30 9 0.22
31 2 0.05
ACGTcount: A:0.22, C:0.03, G:0.04, T:0.71
Consensus pattern (28 bp):
TTTATTTTTGATTTATTTTTATTTATTA
Found at i:92559503 original size:7 final size:7
Alignment explanation
Indices: 92559491--92559560 Score: 51
Period size: 7 Copynumber: 10.1 Consensus size: 7
92559481 TATTTCTGTA
92559491 TTATTAT
1 TTATTAT
92559498 TTATTA-
1 TTATTAT
92559504 -TATTAT
1 TTATTAT
92559510 TTATT-T
1 TTATTAT
*
92559516 TTATTTT
1 TTATTAT
92559523 TTATCTATT
1 TTAT-TA-T
*
92559532 TTATGAT
1 TTATTAT
92559539 TTATTTAT
1 TTA-TTAT
92559547 TT-TGT-T
1 TTAT-TAT
92559553 TTATTAT
1 TTATTAT
92559560 T
1 T
92559561 CTTATTCTTA
Statistics
Matches: 51, Mismatches: 3, Indels: 18
0.71 0.04 0.25
Matches are distributed among these distances:
5 5 0.10
6 11 0.22
7 23 0.45
8 7 0.14
9 5 0.10
ACGTcount: A:0.23, C:0.01, G:0.03, T:0.73
Consensus pattern (7 bp):
TTATTAT
Found at i:92559514 original size:22 final size:23
Alignment explanation
Indices: 92559489--92559548 Score: 63
Period size: 22 Copynumber: 2.7 Consensus size: 23
92559479 TTTATTTCTG
92559489 TATTATTATTTATTATAT-TA-TT
1 TATTATTATTTATT-TATCTATTT
*
92559511 TATTTTTATTT-TTTATCTATTT
1 TATTATTATTTATTTATCTATTT
*
92559533 TATGATTTATTTATTT
1 TATTA-TTATTTATTT
92559549 TGTTTTATTA
Statistics
Matches: 31, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
20 3 0.10
21 4 0.13
22 15 0.48
23 6 0.19
24 3 0.10
ACGTcount: A:0.25, C:0.02, G:0.02, T:0.72
Consensus pattern (23 bp):
TATTATTATTTATTTATCTATTT
Found at i:92559541 original size:41 final size:40
Alignment explanation
Indices: 92559468--92559547 Score: 99
Period size: 41 Copynumber: 2.0 Consensus size: 40
92559458 TTTTCTTTAT
* *
92559468 TTTATTTTTGATTTATTTCTGTATTATTATTTATTATATTA
1 TTTATTTTTGATTTATTTCTATATTATGATTTATT-TATTA
* *
92559509 TTTATTTTT-ATTTTTTATCTATTTTATGATTTATTTATT
1 TTTATTTTTGATTTATT-TCTATATTATGATTTATTTATT
92559548 TTGTTTTATT
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
40 10 0.29
41 24 0.71
ACGTcount: A:0.23, C:0.03, G:0.04, T:0.71
Consensus pattern (40 bp):
TTTATTTTTGATTTATTTCTATATTATGATTTATTTATTA
Found at i:92559560 original size:29 final size:29
Alignment explanation
Indices: 92559464--92559565 Score: 82
Period size: 30 Copynumber: 3.3 Consensus size: 29
92559454 ACCCTTTTCT
* * *
92559464 TTATTTTATTTTTGATTTATTTCTGTATTA
1 TTATTTTATATTT-ATTTATTTATGTTTTA
*
92559494 TTA-TTTATTATATTATTTATTTTTATTTTTTA
1 TTATTTTA-TAT-TTATTTA--TTTATGTTTTA
92559526 TCTATTTTATGATTTATTTATTT-TGTTTTA
1 T-TATTTTAT-ATTTATTTATTTATGTTTTA
92559556 TTATTCTTAT
1 TTATT-TTAT
92559566 TCTTAGATTT
Statistics
Matches: 59, Mismatches: 5, Indels: 16
0.74 0.06 0.20
Matches are distributed among these distances:
29 8 0.14
30 21 0.36
31 5 0.08
32 9 0.15
33 10 0.17
34 6 0.10
ACGTcount: A:0.22, C:0.03, G:0.04, T:0.72
Consensus pattern (29 bp):
TTATTTTATATTTATTTATTTATGTTTTA
Found at i:92559649 original size:12 final size:12
Alignment explanation
Indices: 92559616--92559657 Score: 50
Period size: 12 Copynumber: 3.5 Consensus size: 12
92559606 AGTTATATTT
92559616 CTATTATTTTTA
1 CTATTATTTTTA
*
92559628 GCT-TTTTTTTTA
1 -CTATTATTTTTA
*
92559640 CTATTATTTTTG
1 CTATTATTTTTA
92559652 CTATTA
1 CTATTA
92559658 CCATTAATTT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
11 2 0.08
12 21 0.84
13 2 0.08
ACGTcount: A:0.19, C:0.10, G:0.05, T:0.67
Consensus pattern (12 bp):
CTATTATTTTTA
Found at i:92559760 original size:12 final size:12
Alignment explanation
Indices: 92559692--92559758 Score: 53
Period size: 12 Copynumber: 5.3 Consensus size: 12
92559682 AGTTTATTTC
*
92559692 TTTTCTTTTTCT
1 TTTTCTTTTTAT
92559704 TTTTCTTTTTAT
1 TTTTCTTTTTAT
* * *
92559716 CTTTATTTTTGT
1 TTTTCTTTTTAT
*
92559728 TTTTGTTTTTAGT
1 TTTTCTTTTTA-T
*
92559741 TGCTTTTTTTTTAT
1 T--TTTCTTTTTAT
92559755 TTTT
1 TTTT
92559759 TTAGACATAT
Statistics
Matches: 44, Mismatches: 8, Indels: 6
0.76 0.14 0.10
Matches are distributed among these distances:
12 31 0.70
13 2 0.05
14 2 0.05
15 9 0.20
ACGTcount: A:0.06, C:0.07, G:0.06, T:0.81
Consensus pattern (12 bp):
TTTTCTTTTTAT
Found at i:92582274 original size:16 final size:17
Alignment explanation
Indices: 92582250--92582283 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
92582240 TAATAACAAG
*
92582250 ATTCGTCTTAGGT-TTC
1 ATTCCTCTTAGGTATTC
92582266 ATTCCTCTTAGGTATTC
1 ATTCCTCTTAGGTATTC
92582283 A
1 A
92582284 GGGGATTTAG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 12 0.75
17 4 0.25
ACGTcount: A:0.18, C:0.21, G:0.15, T:0.47
Consensus pattern (17 bp):
ATTCCTCTTAGGTATTC
Found at i:92591125 original size:16 final size:17
Alignment explanation
Indices: 92591101--92591134 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
92591091 TAATAACAAG
92591101 ATTCATCTTAGGT-TTC
1 ATTCATCTTAGGTATTC
*
92591117 ATTCCTCTTAGGTATTC
1 ATTCATCTTAGGTATTC
92591134 A
1 A
92591135 GGGGATTTAG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 12 0.75
17 4 0.25
ACGTcount: A:0.21, C:0.21, G:0.12, T:0.47
Consensus pattern (17 bp):
ATTCATCTTAGGTATTC
Found at i:92594538 original size:4 final size:5
Alignment explanation
Indices: 92594519--92594591 Score: 55
Period size: 5 Copynumber: 14.8 Consensus size: 5
92594509 CATGGGATTC
* * *
92594519 TGATA T-ATA TGATA TG-TA TGACA TGAAAA TGATA TG-TA TGATA TGCACA
1 TGATA TGATA TGATA TGATA TGATA TG-ATA TGATA TGATA TGATA TG-ATA
*
92594568 TGATA TG-TA CGATA TGCATA TGAT
1 TGATA TGATA TGATA TG-ATA TGAT
92594592 GTATTCATAA
Statistics
Matches: 54, Mismatches: 7, Indels: 14
0.72 0.09 0.19
Matches are distributed among these distances:
4 15 0.28
5 26 0.48
6 13 0.24
ACGTcount: A:0.38, C:0.07, G:0.19, T:0.36
Consensus pattern (5 bp):
TGATA
Found at i:92594581 original size:20 final size:20
Alignment explanation
Indices: 92594527--92594591 Score: 85
Period size: 20 Copynumber: 3.2 Consensus size: 20
92594517 TCTGATATAT
* *
92594527 ATGATATGTATGACATGAAA
1 ATGATATGTATGATATGCAA
*
92594547 ATGATATGTATGATATGCAC
1 ATGATATGTATGATATGCAA
* *
92594567 ATGATATGTACGATATGCAT
1 ATGATATGTATGATATGCAA
92594587 ATGAT
1 ATGAT
92594592 GTATTCATAA
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 40 1.00
ACGTcount: A:0.38, C:0.08, G:0.20, T:0.34
Consensus pattern (20 bp):
ATGATATGTATGATATGCAA
Found at i:92594696 original size:25 final size:25
Alignment explanation
Indices: 92594638--92594707 Score: 90
Period size: 24 Copynumber: 2.8 Consensus size: 25
92594628 AAGGAAGTGC
*
92594638 AAAAGGGCTATGCCCCAG-TTACAG
1 AAAAGGGCTTTGCCCCAGTTTACAG
92594662 AAAAGGGCTTTGCCCCAGTTTATCA-
1 AAAAGGGCTTTGCCCCAGTTTA-CAG
*
92594687 AAAAGGGCTTTTGGCCCAGTT
1 AAAAGGGC-TTTGCCCCAGTT
92594708 ATTAAAAGAG
Statistics
Matches: 41, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
24 17 0.41
25 11 0.27
26 13 0.32
ACGTcount: A:0.29, C:0.23, G:0.24, T:0.24
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTACAG
Found at i:92594709 original size:25 final size:24
Alignment explanation
Indices: 92594638--92594714 Score: 93
Period size: 25 Copynumber: 3.1 Consensus size: 24
92594628 AAGGAAGTGC
*
92594638 AAAAGGGCTATGCCCCAGTTA-CA
1 AAAAGGGCTTTGCCCCAGTTATCA
92594661 GAAAAGGGCTTTGCCCCAGTTTATCA
1 -AAAAGGGCTTTGCCCCAG-TTATCA
* *
92594687 AAAAGGGCTTTTGGCCCAGTTATTA
1 AAAAGGGC-TTTGCCCCAGTTATCA
92594712 AAA
1 AAA
92594715 GAGGCTAGGC
Statistics
Matches: 47, Mismatches: 3, Indels: 5
0.85 0.05 0.09
Matches are distributed among these distances:
24 17 0.36
25 19 0.40
26 11 0.23
ACGTcount: A:0.32, C:0.21, G:0.22, T:0.25
Consensus pattern (24 bp):
AAAAGGGCTTTGCCCCAGTTATCA
Found at i:92594720 original size:25 final size:26
Alignment explanation
Indices: 92594662--92594720 Score: 63
Period size: 25 Copynumber: 2.4 Consensus size: 26
92594652 CCAGTTACAG
92594662 AAAAG-GGC-TTTGCCCCAGTTTATC
1 AAAAGAGGCTTTTGCCCCAGTTTATC
* *
92594686 AAAA-AGGGCTTTTGGCCCAG-TTATT
1 AAAAGA-GGCTTTTGCCCCAGTTTATC
92594711 AAAAGAGGCT
1 AAAAGAGGCT
92594721 AGGCCTCCAG
Statistics
Matches: 29, Mismatches: 2, Indels: 7
0.76 0.05 0.18
Matches are distributed among these distances:
24 4 0.14
25 15 0.52
26 10 0.34
ACGTcount: A:0.31, C:0.19, G:0.24, T:0.27
Consensus pattern (26 bp):
AAAAGAGGCTTTTGCCCCAGTTTATC
Found at i:92594964 original size:31 final size:31
Alignment explanation
Indices: 92594926--92595009 Score: 152
Period size: 31 Copynumber: 2.7 Consensus size: 31
92594916 TTGTTACAGT
92594926 AAAGGCTTCGGCCCAGTGATATGAATAATGA
1 AAAGGCTTCGGCCCAGTGATATGAATAATGA
*
92594957 AAAGGCTTCGGCCCAGTGATATGAATAATGT
1 AAAGGCTTCGGCCCAGTGATATGAATAATGA
92594988 AAAGGCTTCGGCCCAGT-ATATG
1 AAAGGCTTCGGCCCAGTGATATG
92595010 CTGAGATTGA
Statistics
Matches: 52, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
30 5 0.10
31 47 0.90
ACGTcount: A:0.32, C:0.18, G:0.26, T:0.24
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGATATGAATAATGA
Found at i:92602635 original size:20 final size:20
Alignment explanation
Indices: 92602610--92602656 Score: 94
Period size: 20 Copynumber: 2.4 Consensus size: 20
92602600 ATTCTGATAT
92602610 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
92602630 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
92602650 ACATGAT
1 ACATGAT
92602657 GTATTCATAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.36, C:0.11, G:0.19, T:0.34
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:92602731 original size:25 final size:24
Alignment explanation
Indices: 92602703--92602780 Score: 95
Period size: 25 Copynumber: 3.1 Consensus size: 24
92602693 GAGGAAGTGC
*
92602703 AAAAGGGCTATGCCCCAGTTA-CAGA
1 AAAAGGGCTTTGCCCCAGTTATC--A
92602728 AAAAGGGCTTTGCCCCAGTTTATCA
1 AAAAGGGCTTTGCCCCAG-TTATCA
*
92602753 AAAAGGGCTTTTGCCCCAGTTATTA
1 AAAAGGGC-TTTGCCCCAGTTATCA
92602778 AAA
1 AAA
92602781 GAGGCTAGGC
Statistics
Matches: 48, Mismatches: 2, Indels: 6
0.86 0.04 0.11
Matches are distributed among these distances:
25 34 0.71
26 13 0.27
27 1 0.02
ACGTcount: A:0.33, C:0.22, G:0.21, T:0.24
Consensus pattern (24 bp):
AAAAGGGCTTTGCCCCAGTTATCA
Found at i:92602786 original size:25 final size:26
Alignment explanation
Indices: 92602728--92602786 Score: 72
Period size: 25 Copynumber: 2.4 Consensus size: 26
92602718 CAGTTACAGA
92602728 AAAAG-GGC-TTTGCCCCAGTTTATC
1 AAAAGAGGCTTTTGCCCCAGTTTATC
*
92602752 AAAA-AGGGCTTTTGCCCCAG-TTATT
1 AAAAGA-GGCTTTTGCCCCAGTTTATC
92602777 AAAAGAGGCT
1 AAAAGAGGCT
92602787 AGGCCTCCAG
Statistics
Matches: 30, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
24 4 0.13
25 15 0.50
26 11 0.37
ACGTcount: A:0.31, C:0.20, G:0.22, T:0.27
Consensus pattern (26 bp):
AAAAGAGGCTTTTGCCCCAGTTTATC
Found at i:92603070 original size:31 final size:31
Alignment explanation
Indices: 92602991--92603076 Score: 147
Period size: 31 Copynumber: 2.8 Consensus size: 31
92602981 TATTGTTACA
*
92602991 GTAAAGGCTTCGGCCCAATGATATGAATAAT
1 GTAAAGGCTTCGGCCCAGTGATATGAATAAT
*
92603022 GAAAAGGCTTCGGCCCAGTGATATGAATAAT
1 GTAAAGGCTTCGGCCCAGTGATATGAATAAT
92603053 GTAAAGGCTTCGGCCCAGT-ATATG
1 GTAAAGGCTTCGGCCCAGTGATATG
92603077 CTGAGATTGA
Statistics
Matches: 52, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
30 5 0.10
31 47 0.90
ACGTcount: A:0.33, C:0.17, G:0.26, T:0.24
Consensus pattern (31 bp):
GTAAAGGCTTCGGCCCAGTGATATGAATAAT
Found at i:92604235 original size:6 final size:6
Alignment explanation
Indices: 92604220--92604267 Score: 73
Period size: 6 Copynumber: 8.3 Consensus size: 6
92604210 ATTGAGTACA
*
92604220 TTTATC TTTATT TTTATT TTTATT TTTA-T TTT-TT TTTATT TTTATT
1 TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT
92604266 TT
1 TT
92604268 GTCTTTATAT
Statistics
Matches: 39, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
5 8 0.21
6 31 0.79
ACGTcount: A:0.15, C:0.02, G:0.00, T:0.83
Consensus pattern (6 bp):
TTTATT
Found at i:92604255 original size:22 final size:24
Alignment explanation
Indices: 92604220--92604281 Score: 85
Period size: 22 Copynumber: 2.7 Consensus size: 24
92604210 ATTGAGTACA
92604220 TTTATCTTTATTTTTATTTTTATT
1 TTTATCTTTATTTTTATTTTTATT
92604244 TTTAT-TTT-TTTTTATTTTTA-T
1 TTTATCTTTATTTTTATTTTTATT
*
92604265 TTTGTCTTTATATTTTA
1 TTTATCTTTAT-TTTTA
92604282 AACTCTATTT
Statistics
Matches: 34, Mismatches: 1, Indels: 6
0.83 0.02 0.15
Matches are distributed among these distances:
21 5 0.15
22 15 0.44
23 4 0.12
24 10 0.29
ACGTcount: A:0.16, C:0.03, G:0.02, T:0.79
Consensus pattern (24 bp):
TTTATCTTTATTTTTATTTTTATT
Found at i:92604280 original size:28 final size:28
Alignment explanation
Indices: 92604226--92604280 Score: 83
Period size: 28 Copynumber: 1.9 Consensus size: 28
92604216 TACATTTATC
*
92604226 TTTATTTTTATTTTTATTTTTATTTTTT
1 TTTATTTTTATTTTTATTTATATTTTTT
*
92604254 TTTATTTTTATTTTGTCTTTATATTTT
1 TTTATTTTTATTTT-TATTTATATTTT
92604281 AAACTCTATT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
28 14 0.58
29 10 0.42
ACGTcount: A:0.15, C:0.02, G:0.02, T:0.82
Consensus pattern (28 bp):
TTTATTTTTATTTTTATTTATATTTTTT
Found at i:92607467 original size:61 final size:58
Alignment explanation
Indices: 92607355--92607486 Score: 192
Period size: 61 Copynumber: 2.2 Consensus size: 58
92607345 ATCACTTTAA
* * *
92607355 TATTAAATTAATATAATACTTATTAAGATAAATATTAGATTAAATTTAATATTAAATC
1 TATTAAATTAATAGAATACTTATTAAGATAAATATTAAATTAAATTAAATATTAAATC
*
92607413 TATTAAATTAATAGAATATTTATCTACAAGATAAATATTAAATTAAATTAAATATTAAATC
1 TATTAAATTAATAGAATACTTAT-T--AAGATAAATATTAAATTAAATTAAATATTAAATC
*
92607474 TATTAAAATAATA
1 TATTAAATTAATA
92607487 TTATTTTTAT
Statistics
Matches: 66, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
58 21 0.32
59 1 0.02
61 44 0.67
ACGTcount: A:0.52, C:0.04, G:0.03, T:0.41
Consensus pattern (58 bp):
TATTAAATTAATAGAATACTTATTAAGATAAATATTAAATTAAATTAAATATTAAATC
Found at i:92608223 original size:30 final size:30
Alignment explanation
Indices: 92608187--92608248 Score: 124
Period size: 30 Copynumber: 2.1 Consensus size: 30
92608177 TCTGATAATT
92608187 CACAATTTACTTAATCGTGGAGTTAGTCTA
1 CACAATTTACTTAATCGTGGAGTTAGTCTA
92608217 CACAATTTACTTAATCGTGGAGTTAGTCTA
1 CACAATTTACTTAATCGTGGAGTTAGTCTA
92608247 CA
1 CA
92608249 ATAAGTACCA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.31, C:0.18, G:0.16, T:0.35
Consensus pattern (30 bp):
CACAATTTACTTAATCGTGGAGTTAGTCTA
Found at i:92609269 original size:39 final size:38
Alignment explanation
Indices: 92609213--92609312 Score: 119
Period size: 39 Copynumber: 2.6 Consensus size: 38
92609203 CGAATATAAT
* * * *
92609213 AATTATAATTACCATAATTATAATAATGTTTGACCAAA
1 AATTACAATTACAATAATTATAATAATATTCGACCAAA
* **
92609251 AACTTACAATTACAATAATTATAATAATATTCGATCGTA
1 AA-TTACAATTACAATAATTATAATAATATTCGACCAAA
*
92609290 AATTATAATTACAATAATTATAA
1 AATTACAATTACAATAATTATAA
92609313 CAAGGATTTC
Statistics
Matches: 53, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
38 22 0.42
39 31 0.58
ACGTcount: A:0.49, C:0.10, G:0.04, T:0.37
Consensus pattern (38 bp):
AATTACAATTACAATAATTATAATAATATTCGACCAAA
Found at i:92612418 original size:27 final size:27
Alignment explanation
Indices: 92612342--92612431 Score: 119
Period size: 27 Copynumber: 3.3 Consensus size: 27
92612332 TTTAGTTTAC
* *
92612342 TAAAATTACCGAAATACCCTTAG-TTTG
1 TAAAATTACTGAAATA-CCTTCGATTTG
* *
92612369 TAAAAATACTGAAATACCCTCGATTTG
1 TAAAATTACTGAAATACCTTCGATTTG
*
92612396 TAAAATTACTGAAATACCTTCGACTTG
1 TAAAATTACTGAAATACCTTCGATTTG
92612423 TAAAATTAC
1 TAAAATTAC
92612432 CAAAGTACCC
Statistics
Matches: 55, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
26 4 0.07
27 51 0.93
ACGTcount: A:0.40, C:0.18, G:0.10, T:0.32
Consensus pattern (27 bp):
TAAAATTACTGAAATACCTTCGATTTG
Found at i:92612441 original size:54 final size:54
Alignment explanation
Indices: 92612342--92612448 Score: 128
Period size: 54 Copynumber: 2.0 Consensus size: 54
92612332 TTTAGTTTAC
* * *
92612342 TAAAATTACCGAAATACCCTTAGTTTGTAAAAATACTGAAATACCCTCGATTTG
1 TAAAATTACCGAAATACCCTTAGCTTGTAAAAATACTCAAATACCCCCGATTTG
* * *
92612396 TAAAATTACTGAAATA-CCTTCGACTTGTAAAATTAC-CAAAGTACCCCCGATTT
1 TAAAATTACCGAAATACCCTTAG-CTTGTAAAAATACTCAAA-TACCCCCGATTT
92612449 ACAGAATTAT
Statistics
Matches: 45, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
53 8 0.18
54 37 0.82
ACGTcount: A:0.38, C:0.21, G:0.10, T:0.31
Consensus pattern (54 bp):
TAAAATTACCGAAATACCCTTAGCTTGTAAAAATACTCAAATACCCCCGATTTG
Found at i:92612456 original size:27 final size:27
Alignment explanation
Indices: 92612437--92612701 Score: 253
Period size: 27 Copynumber: 9.8 Consensus size: 27
92612427 ATTACCAAAG
* *
92612437 TACCCCCGATTTACAGAATTATCGTTT
1 TACCCCCGATTTACAAAATTACCGTTT
*
92612464 TACCCCCGATTTACATAATTACCGTTT
1 TACCCCCGATTTACAAAATTACCGTTT
*
92612491 TACCCTCGATTTACAAAATTACCGTTT
1 TACCCCCGATTTACAAAATTACCGTTT
* * *
92612518 TACCCTC-ATTTTACAGAATTACTGTTT
1 TACCCCCGA-TTTACAAAATTACCGTTT
* *
92612545 TACCCTCGATTTATAAAATTACCGTTT
1 TACCCCCGATTTACAAAATTACCGTTT
** * *
92612572 TACCCTTGATTTACAGAATTACTGTTT
1 TACCCCCGATTTACAAAATTACCGTTT
* * * *
92612599 TACCCTCAATTTACAAAATTATCATTT
1 TACCCCCGATTTACAAAATTACCGTTT
** * * **
92612626 TACCGTCGATTTATAGAATTACTATTT
1 TACCCCCGATTTACAAAATTACCGTTT
** * **
92612653 TACCCTTGATTTACAGAATTACTATTT
1 TACCCCCGATTTACAAAATTACCGTTT
*
92612680 TACCCTCGATTTACAAAATTAC
1 TACCCCCGATTTACAAAATTAC
92612702 AAAAATACCC
Statistics
Matches: 206, Mismatches: 30, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
26 1 0.00
27 204 0.99
28 1 0.00
ACGTcount: A:0.29, C:0.23, G:0.08, T:0.40
Consensus pattern (27 bp):
TACCCCCGATTTACAAAATTACCGTTT
Found at i:92612484 original size:54 final size:54
Alignment explanation
Indices: 92612437--92612701 Score: 325
Period size: 54 Copynumber: 4.9 Consensus size: 54
92612427 ATTACCAAAG
* * * * * **
92612437 TACCCCCGATTTACAGAATTATCGTTTTACCCCCGATTTACATAATTACCGTTT
1 TACCCTCGATTTACAAAATTACCGTTTTACCCTCGATTTACAGAATTACTATTT
*
92612491 TACCCTCGATTTACAAAATTACCGTTTTACCCTC-ATTTTACAGAATTACTGTTT
1 TACCCTCGATTTACAAAATTACCGTTTTACCCTCGA-TTTACAGAATTACTATTT
* * *
92612545 TACCCTCGATTTATAAAATTACCGTTTTACCCTTGATTTACAGAATTACTGTTT
1 TACCCTCGATTTACAAAATTACCGTTTTACCCTCGATTTACAGAATTACTATTT
* * * * *
92612599 TACCCTCAATTTACAAAATTATCATTTTACCGTCGATTTATAGAATTACTATTT
1 TACCCTCGATTTACAAAATTACCGTTTTACCCTCGATTTACAGAATTACTATTT
* * ** *
92612653 TACCCTTGATTTACAGAATTACTATTTTACCCTCGATTTACAAAATTAC
1 TACCCTCGATTTACAAAATTACCGTTTTACCCTCGATTTACAGAATTAC
92612702 AAAAATACCC
Statistics
Matches: 185, Mismatches: 24, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
53 1 0.01
54 183 0.99
55 1 0.01
ACGTcount: A:0.29, C:0.23, G:0.08, T:0.40
Consensus pattern (54 bp):
TACCCTCGATTTACAAAATTACCGTTTTACCCTCGATTTACAGAATTACTATTT
Found at i:92612509 original size:81 final size:80
Alignment explanation
Indices: 92612445--92612700 Score: 325
Period size: 81 Copynumber: 3.2 Consensus size: 80
92612435 AGTACCCCCG
* * * *
92612445 ATTTACAGAATTATCGTTTTACCCCCGATTTACATAATTACCGTTTTACCCTCGATTTACAAAAT
1 ATTTACAGAATTATCGTTTTACCCTCGATTTATAAAATTACCGTTTTACCCTTGATTTACAAAAT
92612510 TACCGTTTTACCCTC
66 TACCGTTTTACCCTC
*
92612525 ATTTTACAGAATTA-CTGTTTTACCCTCGATTTATAAAATTACCGTTTTACCCTTGATTTACAGA
1 A-TTTACAGAATTATC-GTTTTACCCTCGATTTATAAAATTACCGTTTTACCCTTGATTTACAAA
*
92612589 ATTACTGTTTTACCCTC
64 ATTACCGTTTTACCCTC
* * * * ** *
92612606 AATTTACAAAATTATCATTTTACCGTCGATTTATAGAATTACTATTTTACCCTTGATTTACAGAA
1 -ATTTACAGAATTATCGTTTTACCCTCGATTTATAAAATTACCGTTTTACCCTTGATTTACAAAA
**
92612671 TTACTATTTTACCCTC
65 TTACCGTTTTACCCTC
*
92612687 GATTTACAAAATTA
1 -ATTTACAGAATTA
92612701 CAAAAATACC
Statistics
Matches: 158, Mismatches: 14, Indels: 7
0.88 0.08 0.04
Matches are distributed among these distances:
80 2 0.01
81 154 0.97
82 2 0.01
ACGTcount: A:0.30, C:0.21, G:0.07, T:0.41
Consensus pattern (80 bp):
ATTTACAGAATTATCGTTTTACCCTCGATTTATAAAATTACCGTTTTACCCTTGATTTACAAAAT
TACCGTTTTACCCTC
Found at i:92612710 original size:27 final size:27
Alignment explanation
Indices: 92612653--92612902 Score: 107
Period size: 27 Copynumber: 9.2 Consensus size: 27
92612643 ATTACTATTT
* * * ***
92612653 TACCCTTGATTTACAGAATTACTATTT
1 TACCCTCGATTTACAAAATTACAAAAA
92612680 TACCCTCGATTTACAAAATTACAAAAA
1 TACCCTCGATTTACAAAATTACAAAAA
* ** *
92612707 TACCCTCAATTTGTAAAATTACCAAAA
1 TACCCTCGATTTACAAAATTACAAAAA
* **
92612734 TACCC-CTAGTTTGTAAAATTATC-AAAA
1 TACCCTCGA-TTTACAAAATTA-CAAAAA
* *** **
92612761 TACCACT-GGTTTGTGAAATTACCGAAA
1 TACC-CTCGATTTACAAAATTACAAAAA
* * *
92612788 TACCCTCAATTT-TAAAATTACCAAAA
1 TACCCTCGATTTACAAAATTACAAAAA
* *
92612814 TACCC-CTGATTTACAAAGTTACAGAAA
1 TACCCTC-GATTTACAAAATTACAAAAA
* * *
92612841 TACCCTTGACTTT-CTAAAAATTATAGAAA
1 TACCCTCGA-TTTAC--AAAATTACAAAAA
* * * **
92612870 TACCATTGGTTTACAAAATTACTGAAA
1 TACCCTCGATTTACAAAATTACAAAAA
92612897 TACCCT
1 TACCCT
92612903 TGGTTTGTAG
Statistics
Matches: 178, Mismatches: 32, Indels: 26
0.75 0.14 0.11
Matches are distributed among these distances:
25 1 0.01
26 26 0.15
27 124 0.70
28 8 0.04
29 19 0.11
ACGTcount: A:0.40, C:0.20, G:0.08, T:0.32
Consensus pattern (27 bp):
TACCCTCGATTTACAAAATTACAAAAA
Found at i:92612727 original size:54 final size:54
Alignment explanation
Indices: 92612461--92612728 Score: 270
Period size: 54 Copynumber: 5.0 Consensus size: 54
92612451 AGAATTATCG
* * ** * **
92612461 TTTTACCCCCGATTTACATAATTACCGTTTTACCCTCGATTTACAAAATTACCG
1 TTTTACCCTCGATTTACAGAATTACTATTTTACCCTCAATTTACAAAATTACTA
* * * **
92612515 TTTTACCCTC-ATTTTACAGAATTACTGTTTTACCCTCGATTTATAAAATTACCG
1 TTTTACCCTCGA-TTTACAGAATTACTATTTTACCCTCAATTTACAAAATTACTA
* *
92612569 TTTTACCCTTGATTTACAGAATTACTGTTTTACCCTCAATTTACAAAATTA-TCA
1 TTTTACCCTCGATTTACAGAATTACTATTTTACCCTCAATTTACAAAATTACT-A
* * ** *
92612623 TTTTACCGTCGATTTATAGAATTACTATTTTACCCTTGATTTACAGAATTACTA
1 TTTTACCCTCGATTTACAGAATTACTATTTTACCCTCAATTTACAAAATTACTA
* * *** **
92612677 TTTTACCCTCGATTTACAAAATTACAAAAATACCCTCAATTTGTAAAATTAC
1 TTTTACCCTCGATTTACAGAATTACTATTTTACCCTCAATTTACAAAATTAC
92612729 CAAAATACCC
Statistics
Matches: 182, Mismatches: 28, Indels: 8
0.83 0.13 0.04
Matches are distributed among these distances:
53 1 0.01
54 179 0.98
55 2 0.01
ACGTcount: A:0.31, C:0.22, G:0.07, T:0.40
Consensus pattern (54 bp):
TTTTACCCTCGATTTACAGAATTACTATTTTACCCTCAATTTACAAAATTACTA
Found at i:92612727 original size:81 final size:79
Alignment explanation
Indices: 92612445--92612730 Score: 320
Period size: 81 Copynumber: 3.5 Consensus size: 79
92612435 AGTACCCCCG
* * * * * * * *
92612445 ATTTACAGAATTATCGTTTTACCCCCGATTTACATAATTACCGTTTTACCCTCGATTTACAAAAT
1 ATTTACAAAATTA-CATTTTACCCTCGATTTATAAAATTACCATTTTACCCTTGATTTACAGAAT
*
92612510 TACCGTTTTACCCTC
65 TACTGTTTTACCCTC
* * *
92612525 ATTTTACAGAATTACTGTTTTACCCTCGATTTATAAAATTACCGTTTTACCCTTGATTTACAGAA
1 A-TTTACAAAATTAC-ATTTTACCCTCGATTTATAAAATTACCATTTTACCCTTGATTTACAGAA
92612590 TTACTGTTTTACCCTC
64 TTACTGTTTTACCCTC
* * *
92612606 AATTTACAAAATTATCATTTTACCGTCGATTTATAGAATTACTATTTTACCCTTGATTTACAGAA
1 -ATTTACAAAATTA-CATTTTACCCTCGATTTATAAAATTACCATTTTACCCTTGATTTACAGAA
*
92612671 TTACTATTTTACCCTC
64 TTACTGTTTTACCCTC
*** * *
92612687 GATTTACAAAATTACAAAAATACCCTCAATTTGTAAAATTACCA
1 -ATTTACAAAATTAC-ATTTTACCCTCGATTTATAAAATTACCA
92612731 AAATACCCCT
Statistics
Matches: 179, Mismatches: 22, Indels: 9
0.85 0.10 0.04
Matches are distributed among these distances:
80 3 0.02
81 174 0.97
82 2 0.01
ACGTcount: A:0.32, C:0.21, G:0.07, T:0.40
Consensus pattern (79 bp):
ATTTACAAAATTACATTTTACCCTCGATTTATAAAATTACCATTTTACCCTTGATTTACAGAATT
ACTGTTTTACCCTC
Found at i:92612738 original size:54 final size:51
Alignment explanation
Indices: 92612680--92612818 Score: 136
Period size: 54 Copynumber: 2.6 Consensus size: 51
92612670 ATTACTATTT
* *
92612680 TACCCTCGATTTACAAAATTACAAAAATACCCTCAATTTGTAAAATTACCAAAA
1 TACCCTCAATTT-TAAAATTAC-AAAATACCCT-AATTTGTAAAATTACCAAAA
* ** * *
92612734 TACCC-CTAGTTTGTAAAATTATCAAAATACCACTGGTTTGTGAAATTACCGAAA
1 TACCCTC-AATTT-TAAAATTA-CAAAATACC-CTAATTTGTAAAATTACCAAAA
92612788 TACCCTCAATTTTAAAATTACCAAAATACCC
1 TACCCTCAATTTTAAAATTA-CAAAATACCC
92612819 CTGATTTACA
Statistics
Matches: 71, Mismatches: 10, Indels: 10
0.78 0.11 0.11
Matches are distributed among these distances:
52 1 0.01
53 18 0.25
54 48 0.68
55 4 0.06
ACGTcount: A:0.42, C:0.22, G:0.06, T:0.29
Consensus pattern (51 bp):
TACCCTCAATTTTAAAATTACAAAATACCCTAATTTGTAAAATTACCAAAA
Found at i:92612738 original size:81 final size:80
Alignment explanation
Indices: 92612491--92612828 Score: 211
Period size: 81 Copynumber: 4.2 Consensus size: 80
92612481 ATTACCGTTT
* * ** * **** *
92612491 TACCCTCGATTTACAAAATTACCGTTTTACCCTC-ATTTTACAGAATTACTGTTTTACCCTCGAT
1 TACCCTTGATTTACAGAATTACTATTTTACCCTCGA-TTTACAAAATTAC-AAAATACCCTCAAT
****
92612555 TTATAAAATTACCGTTT
64 TTATAAAATTACCAAAA
* * *** * *
92612572 TACCCTTGATTTACAGAATTACTGTTTTACCCTCAATTTACAAAATTATCATTTTACCGTCGATT
1 TACCCTTGATTTACAGAATTACTATTTTACCCTCGATTTACAAAATTA-CAAAATACCCTCAATT
* * ***
92612637 TATAGAATTACTATTT
65 TATAAAATTACCAAAA
92612653 TACCCTTGATTTACAGAATTACTATTTTACCCTCGATTTACAAAATTACAAAAATACCCTCAATT
1 TACCCTTGATTTACAGAATTACTATTTTACCCTCGATTTACAAAATTAC-AAAATACCCTCAATT
*
92612718 TGTAAAATTACCAAAA
65 TATAAAATTACCAAAA
* * *** * *** *
92612734 TACCCCTAGTTTGTA-A-AATTA-TCAAAATACCACT-GGTTTGTGAAATTACCGAAATACCCTC
1 TA-CCCTTGATT-TACAGAATTACT-ATTTTACC-CTCGATTTACAAAATTA-CAAAATACCCTC
92612795 AATTT-TAAAATTACCAAAA
61 AATTTATAAAATTACCAAAA
*
92612814 TACCCCTGATTTACA
1 TACCCTTGATTTACA
92612829 AAGTTACAGA
Statistics
Matches: 213, Mismatches: 35, Indels: 20
0.79 0.13 0.07
Matches are distributed among these distances:
78 2 0.01
79 7 0.03
80 18 0.08
81 171 0.80
82 13 0.06
83 2 0.01
ACGTcount: A:0.35, C:0.21, G:0.07, T:0.37
Consensus pattern (80 bp):
TACCCTTGATTTACAGAATTACTATTTTACCCTCGATTTACAAAATTACAAAATACCCTCAATTT
ATAAAATTACCAAAA
Found at i:92612992 original size:27 final size:27
Alignment explanation
Indices: 92612961--92613053 Score: 125
Period size: 27 Copynumber: 3.4 Consensus size: 27
92612951 TACCTCTATT
*
92612961 AGGTAAAAAGACCGTAAAGCCCCTGTA
1 AGGTAAAATGACCGTAAAGCCCCTGTA
* *
92612988 GGGTAAAGTGACCGTAAAGCCCCTGTA
1 AGGTAAAATGACCGTAAAGCCCCTGTA
*
92613015 AGGTAAAGTGACCGTAATA-CCCCTGTA
1 AGGTAAAATGACCGTAA-AGCCCCTGTA
*
92613042 TGGTAAAATGAC
1 AGGTAAAATGAC
92613054 GAATATGCCC
Statistics
Matches: 59, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
27 58 0.98
28 1 0.02
ACGTcount: A:0.35, C:0.20, G:0.25, T:0.19
Consensus pattern (27 bp):
AGGTAAAATGACCGTAAAGCCCCTGTA
Found at i:92614312 original size:9 final size:9
Alignment explanation
Indices: 92614300--92614356 Score: 51
Period size: 9 Copynumber: 5.9 Consensus size: 9
92614290 TTTGATAAAC
92614300 ATGATATGT
1 ATGATATGT
*
92614309 ATGATATGCAC
1 ATGATATG--T
*
92614320 ATGACATGT
1 ATGATATGT
*
92614329 ATGATATGCAC
1 ATGATATG--T
92614340 ATGATATGT
1 ATGATATGT
92614349 ATGATATG
1 ATGATATG
92614357 CACACGAGAT
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
9 23 0.61
11 15 0.39
ACGTcount: A:0.35, C:0.09, G:0.21, T:0.35
Consensus pattern (9 bp):
ATGATATGT
Found at i:92614323 original size:20 final size:20
Alignment explanation
Indices: 92614298--92614360 Score: 117
Period size: 20 Copynumber: 3.1 Consensus size: 20
92614288 ATTTTGATAA
92614298 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
92614318 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
92614338 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
92614358 ACA
1 ACA
92614361 CGAGATGTTC
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 41 1.00
ACGTcount: A:0.37, C:0.13, G:0.19, T:0.32
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:92614445 original size:23 final size:23
Alignment explanation
Indices: 92614415--92614534 Score: 186
Period size: 23 Copynumber: 5.1 Consensus size: 23
92614405 AGGAAGTGAA
92614415 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
*
92614438 AAAGGGCTTATGCCCCAGTTATCA
1 AAAGGGCTTATGCCCCAGTTAT-T
*
92614462 AAAGGGCTTACGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
*
92614485 AAAGGGCTTATGCCCCAGTTATAA
1 AAAGGGCTTATGCCCCAGTTAT-T
*
92614509 AAAGGGCTTTTGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
92614532 AAA
1 AAA
92614535 AGAGGCTAGG
Statistics
Matches: 88, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
23 46 0.52
24 42 0.48
ACGTcount: A:0.29, C:0.23, G:0.21, T:0.28
Consensus pattern (23 bp):
AAAGGGCTTATGCCCCAGTTATT
Found at i:92614470 original size:24 final size:23
Alignment explanation
Indices: 92614414--92614541 Score: 184
Period size: 24 Copynumber: 5.4 Consensus size: 23
92614404 GAGGAAGTGA
92614414 AAAAGGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTAT
*
92614437 TAAAGGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTAT
*
92614460 CAAAAGGGCTTACGCCCCAGTTAT
1 -AAAAGGGCTTATGCCCCAGTTAT
*
92614484 TAAAGGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTAT
*
92614507 AAAAAGGGCTTTTGCCCCAGTTATT
1 -AAAAGGGCTTATGCCCCAGTTA-T
92614532 AAAAGAGGCT
1 AAAAG-GGCT
92614542 AGGCCTCCAG
Statistics
Matches: 94, Mismatches: 7, Indels: 6
0.88 0.07 0.06
Matches are distributed among these distances:
23 43 0.46
24 46 0.49
25 5 0.05
ACGTcount: A:0.30, C:0.22, G:0.22, T:0.27
Consensus pattern (23 bp):
AAAAGGGCTTATGCCCCAGTTAT
Found at i:92614483 original size:47 final size:47
Alignment explanation
Indices: 92614413--92614534 Score: 217
Period size: 47 Copynumber: 2.6 Consensus size: 47
92614403 GGAGGAAGTG
92614413 AAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTAT
1 AAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTAT
* *
92614460 CAAAAGGGCTTACGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTAT
1 AAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTAT
*
92614507 AAAAAGGGCTTTTGCCCCAGTTATTAAA
1 AAAAAGGGCTTATGCCCCAGTTATTAAA
92614535 AGAGGCTAGG
Statistics
Matches: 70, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
47 70 1.00
ACGTcount: A:0.30, C:0.22, G:0.20, T:0.27
Consensus pattern (47 bp):
AAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTAT
Found at i:92614783 original size:31 final size:31
Alignment explanation
Indices: 92614748--92614811 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
92614738 CGTTTACAGT
*
92614748 AAAGGCTTCGGCCCAGTAATATGAAATTTGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
**
92614779 AAAGGCTTCGGCCCAGTGTTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
92614810 AA
1 AA
92614812 TATGAAAAGG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.36, C:0.16, G:0.23, T:0.25
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:92615123 original size:21 final size:21
Alignment explanation
Indices: 92615099--92615148 Score: 91
Period size: 21 Copynumber: 2.4 Consensus size: 21
92615089 TTAACTTTCC
92615099 TTTTATTTCTTTTCGAGGTTA
1 TTTTATTTCTTTTCGAGGTTA
*
92615120 TTTTATTTCTTTTCGGGGTTA
1 TTTTATTTCTTTTCGAGGTTA
92615141 TTTTATTT
1 TTTTATTT
92615149 TTAATAACTT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.12, C:0.08, G:0.14, T:0.66
Consensus pattern (21 bp):
TTTTATTTCTTTTCGAGGTTA
Found at i:92619160 original size:5 final size:5
Alignment explanation
Indices: 92619150--92619179 Score: 51
Period size: 5 Copynumber: 5.8 Consensus size: 5
92619140 CCAATTTGTG
92619150 AAAAT AAAAT AAAAT AAAATT AAAAT AAAA
1 AAAAT AAAAT AAAAT AAAA-T AAAAT AAAA
92619180 AGCACACAGA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
5 19 0.79
6 5 0.21
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (5 bp):
AAAAT
Found at i:92619175 original size:11 final size:10
Alignment explanation
Indices: 92619150--92619179 Score: 51
Period size: 11 Copynumber: 2.9 Consensus size: 10
92619140 CCAATTTGTG
92619150 AAAATAAAAT
1 AAAATAAAAT
92619160 AAAATAAAATT
1 AAAATAAAA-T
92619171 AAAATAAAA
1 AAAATAAAA
92619180 AGCACACAGA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 9 0.47
11 10 0.53
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (10 bp):
AAAATAAAAT
Found at i:92619175 original size:16 final size:15
Alignment explanation
Indices: 92619150--92619179 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
92619140 CCAATTTGTG
92619150 AAAATAAAATAAAAT
1 AAAATAAAATAAAAT
92619165 AAAATTAAAATAAAA
1 AAAA-TAAAATAAAA
92619180 AGCACACAGA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (15 bp):
AAAATAAAATAAAAT
Found at i:92621776 original size:14 final size:14
Alignment explanation
Indices: 92621726--92621776 Score: 52
Period size: 14 Copynumber: 3.6 Consensus size: 14
92621716 GGCTTATGGT
92621726 TTAAGGGTT-GGGG
1 TTAAGGGTTAGGGG
* *
92621739 TTTAAAGGTTATGGG
1 -TTAAGGGTTAGGGG
92621754 TT-AGTGGTTAGGGG
1 TTAAG-GGTTAGGGG
92621768 TTAAGGGTT
1 TTAAGGGTT
92621777 TATAGGTTAT
Statistics
Matches: 30, Mismatches: 4, Indels: 6
0.75 0.10 0.15
Matches are distributed among these distances:
13 1 0.03
14 24 0.80
15 5 0.17
ACGTcount: A:0.20, C:0.00, G:0.43, T:0.37
Consensus pattern (14 bp):
TTAAGGGTTAGGGG
Found at i:92621776 original size:36 final size:37
Alignment explanation
Indices: 92621712--92621808 Score: 128
Period size: 36 Copynumber: 2.7 Consensus size: 37
92621702 AGGATTATGT
* * *
92621712 TTATGGCTT-ATGGTTTAAGGGTT-GGGGTTTAAAGG
1 TTATGGGTTAATGGTTTAGGGGTTAAGGGTTTAAAGG
* *
92621747 TTATGGGTTAGTGG-TTAGGGGTTAAGGGTTTATAGG
1 TTATGGGTTAATGGTTTAGGGGTTAAGGGTTTAAAGG
92621783 TTATGGGTTAATGGTTTAGGGGTTAA
1 TTATGGGTTAATGGTTTAGGGGTTAA
92621809 TGCTTAGGGG
Statistics
Matches: 53, Mismatches: 6, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
35 16 0.30
36 26 0.49
37 11 0.21
ACGTcount: A:0.21, C:0.01, G:0.38, T:0.40
Consensus pattern (37 bp):
TTATGGGTTAATGGTTTAGGGGTTAAGGGTTTAAAGG
Found at i:92621779 original size:29 final size:28
Alignment explanation
Indices: 92621731--92621785 Score: 67
Period size: 29 Copynumber: 1.9 Consensus size: 28
92621721 ATGGTTTAAG
*
92621731 GGTTGGGGTTTAAAGGTTATGGGTTAGT
1 GGTTGGGGTTTAAAGGTTATAGGTTAGT
*
92621759 GGTTAGGGG-TTAAGGGTTTATAGGTTA
1 GGTT-GGGGTTTAAAGG-TTATAGGTTA
92621786 TGGGTTAATG
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
28 10 0.43
29 13 0.57
ACGTcount: A:0.20, C:0.00, G:0.42, T:0.38
Consensus pattern (28 bp):
GGTTGGGGTTTAAAGGTTATAGGTTAGT
Done.