Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168270.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_5, 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: 27802247
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 124000 characters in sequence are not A, C, G, or T
File 126 of 147
Found at i:22757574 original size:2 final size:2
Alignment explanation
Indices: 22757569--22757602 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
22757559 ATATATATAT
22757569 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
22757603 GTGGTCTTTC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:22759239 original size:19 final size:19
Alignment explanation
Indices: 22759210--22759253 Score: 61
Period size: 20 Copynumber: 2.3 Consensus size: 19
22759200 AATTAATTTA
* *
22759210 AAATAAAAATTTATATTATT
1 AAATAAAATTTTA-ATTACT
22759230 AAATAAAATTTTAATTACT
1 AAATAAAATTTTAATTACT
22759249 AAATA
1 AAATA
22759254 TGTAAAAATA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 10 0.45
20 12 0.55
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (19 bp):
AAATAAAATTTTAATTACT
Found at i:22763301 original size:11 final size:11
Alignment explanation
Indices: 22763263--22763301 Score: 53
Period size: 11 Copynumber: 3.5 Consensus size: 11
22763253 TAATATAATT
*
22763263 TAAAATTTTAA
1 TAAAAATTTAA
22763274 T-AAAATTTATA
1 TAAAAATTTA-A
22763285 TAAAAATTTAA
1 TAAAAATTTAA
22763296 TAAAAA
1 TAAAAA
22763302 AAAAAAATTT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
10 7 0.28
11 10 0.40
12 8 0.32
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (11 bp):
TAAAAATTTAA
Found at i:22764600 original size:2 final size:2
Alignment explanation
Indices: 22764593--22764631 Score: 60
Period size: 2 Copynumber: 19.5 Consensus size: 2
22764583 ACAAAAAGTT
* *
22764593 TA TA TA TA TA TA TA TA TA CA CA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
22764632 TAGCTTTCTC
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.05, G:0.00, T:0.46
Consensus pattern (2 bp):
TA
Found at i:22764933 original size:5 final size:5
Alignment explanation
Indices: 22764914--22764965 Score: 59
Period size: 5 Copynumber: 9.8 Consensus size: 5
22764904 TTTTGTTCTT
* *
22764914 TTTTA TTTTT TTTTA TTTTA TCTTA TTTTAA TTTTGA TTTTA TTATTA
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTTT-A TTTT-A TTTTA TT-TTA
22764962 TTTT
1 TTTT
22764966 TTTAAAAAAA
Statistics
Matches: 40, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
5 25 0.62
6 15 0.38
ACGTcount: A:0.19, C:0.02, G:0.02, T:0.77
Consensus pattern (5 bp):
TTTTA
Found at i:22764939 original size:20 final size:21
Alignment explanation
Indices: 22764916--22764968 Score: 63
Period size: 22 Copynumber: 2.5 Consensus size: 21
22764906 TTGTTCTTTT
* *
22764916 TTATTTTTTTTTATTTTA-TC
1 TTATTTTTTTTGATTTTATTA
22764936 TTATTTTAATTTTGATTTTATTA
1 TTATTTT--TTTTGATTTTATTA
22764959 TTATTTTTTT
1 TTATTTTTTT
22764969 AAAAAAAATT
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
20 7 0.25
21 3 0.11
22 10 0.36
23 8 0.29
ACGTcount: A:0.19, C:0.02, G:0.02, T:0.77
Consensus pattern (21 bp):
TTATTTTTTTTGATTTTATTA
Found at i:22765270 original size:6 final size:6
Alignment explanation
Indices: 22765259--22765310 Score: 52
Period size: 6 Copynumber: 8.5 Consensus size: 6
22765249 TTCTTATTAT
* * *
22765259 TTTTTA TTTTTA CTTATTTA TTTTTA TATTT- TTATTA TTTTTA TTATTA
1 TTTTTA TTTTTA -TT-TTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA
22765308 TTT
1 TTT
22765311 ACATTTTTTA
Statistics
Matches: 37, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
5 3 0.08
6 26 0.70
7 4 0.11
8 4 0.11
ACGTcount: A:0.21, C:0.02, G:0.00, T:0.77
Consensus pattern (6 bp):
TTTTTA
Found at i:22765276 original size:20 final size:20
Alignment explanation
Indices: 22765251--22765312 Score: 74
Period size: 21 Copynumber: 3.0 Consensus size: 20
22765241 GATTTTCATT
22765251 CTTATTATTTTTTATTTTTA
1 CTTATTATTTTTTATTTTTA
22765271 CTTATTTATTTTTATATTTTTA
1 CTTA-TTATTTTT-TATTTTTA
*
22765293 -TTATT-TTTATTATTATTTA
1 CTTATTATTTTTTATT-TTTA
22765312 C
1 C
22765313 ATTTTTTATA
Statistics
Matches: 37, Mismatches: 1, Indels: 8
0.80 0.02 0.17
Matches are distributed among these distances:
18 4 0.11
19 8 0.22
20 6 0.16
21 11 0.30
22 8 0.22
ACGTcount: A:0.23, C:0.05, G:0.00, T:0.73
Consensus pattern (20 bp):
CTTATTATTTTTTATTTTTA
Found at i:22765281 original size:21 final size:22
Alignment explanation
Indices: 22765251--22765298 Score: 75
Period size: 21 Copynumber: 2.3 Consensus size: 22
22765241 GATTTTCATT
22765251 CTTA-TTATTTTT-TATTTTTA
1 CTTATTTATTTTTATATTTTTA
22765271 CTTATTTATTTTTATATTTTTA
1 CTTATTTATTTTTATATTTTTA
22765293 -TTATTT
1 CTTATTT
22765299 TTATTATTAT
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
20 4 0.15
21 14 0.54
22 8 0.31
ACGTcount: A:0.21, C:0.04, G:0.00, T:0.75
Consensus pattern (22 bp):
CTTATTTATTTTTATATTTTTA
Found at i:22765302 original size:27 final size:27
Alignment explanation
Indices: 22765242--22765327 Score: 74
Period size: 27 Copynumber: 3.2 Consensus size: 27
22765232 ATCATCGAAG
* *
22765242 ATTTTCATTCTTA-TTAT-TTTTTATT
1 ATTTTTATTATTATTTATATTTTTATT
22765267 -TTTACTTATTTATT-TTTATATTTTTATT
1 ATTT--TTA-TTATTATTTATATTTTTATT
*
22765295 ATTTTTATTATTATTTACATTTTT-TAT
1 ATTTTTATTATTATTTATATTTTTAT-T
22765322 ATTTTT
1 ATTTTT
22765328 TGTACACATT
Statistics
Matches: 50, Mismatches: 3, Indels: 14
0.75 0.04 0.21
Matches are distributed among these distances:
24 3 0.06
26 8 0.16
27 28 0.56
28 8 0.16
29 3 0.06
ACGTcount: A:0.22, C:0.05, G:0.00, T:0.73
Consensus pattern (27 bp):
ATTTTTATTATTATTTATATTTTTATT
Found at i:22767744 original size:15 final size:15
Alignment explanation
Indices: 22767726--22767754 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
22767716 GAAAAATGAT
22767726 AAAAAGA-AAGAAAA
1 AAAAAGAGAAGAAAA
22767740 AAAAAGAGAAGAAAA
1 AAAAAGAGAAGAAAA
22767755 TGTTGACCTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 7 0.50
15 7 0.50
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (15 bp):
AAAAAGAGAAGAAAA
Found at i:22768505 original size:15 final size:16
Alignment explanation
Indices: 22768487--22768531 Score: 56
Period size: 17 Copynumber: 2.8 Consensus size: 16
22768477 TTGTTCTTTT
22768487 TTATTTTATTTT-ATC
1 TTATTTTATTTTGATC
*
22768502 TTATTTTAATTTTGATT
1 TTATTTT-ATTTTGATC
22768519 TTATTATTATTTT
1 TTATT-TTATTTT
22768532 TTTTTAAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
15 7 0.27
16 5 0.19
17 12 0.46
18 2 0.08
ACGTcount: A:0.22, C:0.02, G:0.02, T:0.73
Consensus pattern (16 bp):
TTATTTTATTTTGATC
Found at i:22768519 original size:6 final size:5
Alignment explanation
Indices: 22768485--22768537 Score: 61
Period size: 5 Copynumber: 10.0 Consensus size: 5
22768475 TTTTGTTCTT
* *
22768485 TTTTA TTTTA TTTTA TCTTA TTTTAA TTTTGA TTTTA TTATTA TTTTT
1 TTTTA TTTTA TTTTA TTTTA TTTT-A TTTT-A TTTTA TT-TTA TTTTA
22768533 TTTTA
1 TTTTA
22768538 AAAAATTATT
Statistics
Matches: 41, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
5 26 0.63
6 15 0.37
ACGTcount: A:0.21, C:0.02, G:0.02, T:0.75
Consensus pattern (5 bp):
TTTTA
Found at i:22768844 original size:20 final size:21
Alignment explanation
Indices: 22768819--22768869 Score: 79
Period size: 21 Copynumber: 2.5 Consensus size: 21
22768809 AATTTTCATT
22768819 CTTATTATTTTT-TATTTTTA
1 CTTATTATTTTTATATTTTTA
22768839 CTTATTTATTTTTATATTTTTA
1 CTTA-TTATTTTTATATTTTTA
22768861 -TTATTATTT
1 CTTATTATTT
22768870 ACATTTTTTA
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
20 10 0.34
21 11 0.38
22 8 0.28
ACGTcount: A:0.22, C:0.04, G:0.00, T:0.75
Consensus pattern (21 bp):
CTTATTATTTTTATATTTTTA
Found at i:22768860 original size:14 final size:13
Alignment explanation
Indices: 22768823--22768869 Score: 58
Period size: 14 Copynumber: 3.5 Consensus size: 13
22768813 TTCATTCTTA
22768823 TTATTTTTTATTT
1 TTATTTTTTATTT
*
22768836 TTACTTATTTATTT
1 TTA-TTTTTTATTT
*
22768850 TTATATTTTTATTA
1 TTAT-TTTTTATTT
22768864 TTATTT
1 TTATTT
22768870 ACATTTTTTA
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
13 6 0.21
14 23 0.79
ACGTcount: A:0.21, C:0.02, G:0.00, T:0.77
Consensus pattern (13 bp):
TTATTTTTTATTT
Found at i:22768887 original size:28 final size:29
Alignment explanation
Indices: 22768824--22768887 Score: 78
Period size: 28 Copynumber: 2.3 Consensus size: 29
22768814 TCATTCTTAT
* **
22768824 TATTTTTTATTTTTACTTATTTATTTTTA
1 TATTTTTTATTATTACTTACATATTTTTA
*
22768853 TA-TTTTTATTATTATTTACAT-TTTTTA
1 TATTTTTTATTATTACTTACATATTTTTA
22768880 TATTTTTT
1 TATTTTTT
22768888 GTACACGTAT
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
27 8 0.27
28 20 0.67
29 2 0.07
ACGTcount: A:0.22, C:0.03, G:0.00, T:0.75
Consensus pattern (29 bp):
TATTTTTTATTATTACTTACATATTTTTA
Found at i:22772837 original size:11 final size:10
Alignment explanation
Indices: 22772822--22772849 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
22772812 TCTCAAAAGT
22772822 GAAAAAAAAA
1 GAAAAAAAAA
22772832 GAAAAAAAAA
1 GAAAAAAAAA
22772842 GAAAAAAA
1 GAAAAAAA
22772850 TAAATACCAC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.89, C:0.00, G:0.11, T:0.00
Consensus pattern (10 bp):
GAAAAAAAAA
Found at i:22773267 original size:16 final size:16
Alignment explanation
Indices: 22773235--22773268 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
22773225 TGAATGAATG
*
22773235 AATGAAAAAATGAGAA
1 AATGAAAAAAAGAGAA
*
22773251 AATGAAAAAAAGTGAA
1 AATGAAAAAAAGAGAA
22773267 AA
1 AA
22773269 CCTGAAAAGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.71, C:0.00, G:0.18, T:0.12
Consensus pattern (16 bp):
AATGAAAAAAAGAGAA
Found at i:22774378 original size:22 final size:22
Alignment explanation
Indices: 22774342--22774395 Score: 56
Period size: 22 Copynumber: 2.5 Consensus size: 22
22774332 GAATATTTTG
* *
22774342 ATGAGAATATTTGAGAACTC-AA
1 ATGAGAATCTCTGAG-ACTCAAA
**
22774364 ATGAGAATCTCTGAGTTTCAAA
1 ATGAGAATCTCTGAGACTCAAA
22774386 ATGAGAATCT
1 ATGAGAATCT
22774396 TTGAAGAGTG
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
21 2 0.07
22 25 0.93
ACGTcount: A:0.41, C:0.11, G:0.19, T:0.30
Consensus pattern (22 bp):
ATGAGAATCTCTGAGACTCAAA
Found at i:22776064 original size:4 final size:4
Alignment explanation
Indices: 22776003--22776048 Score: 51
Period size: 4 Copynumber: 11.8 Consensus size: 4
22775993 TTTTTTTTGA
* *
22776003 ATTT ATTT ATTT ATTT GTTT ATTT A-TT -TTT ATTCT TTTT ATTT ATT
1 ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATT-T ATTT ATTT ATT
22776049 AGATTAGGTT
Statistics
Matches: 35, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
3 4 0.11
4 28 0.80
5 3 0.09
ACGTcount: A:0.20, C:0.02, G:0.02, T:0.76
Consensus pattern (4 bp):
ATTT
Found at i:22776091 original size:17 final size:18
Alignment explanation
Indices: 22776071--22776109 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 18
22776061 TTTAATATTC
22776071 TTTTATCTTTATTTTA-T
1 TTTTATCTTTATTTTACT
* *
22776088 TTTTATTTTTGTTTTACT
1 TTTTATCTTTATTTTACT
22776106 TTTT
1 TTTT
22776110 GTTTTAATTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 14 0.74
18 5 0.26
ACGTcount: A:0.13, C:0.05, G:0.03, T:0.79
Consensus pattern (18 bp):
TTTTATCTTTATTTTACT
Found at i:22776102 original size:12 final size:11
Alignment explanation
Indices: 22776078--22776137 Score: 70
Period size: 11 Copynumber: 5.5 Consensus size: 11
22776068 TTCTTTTATC
22776078 TTTATTTTAT-T
1 TTTATTTT-TGT
22776089 TTTATTTTTGT
1 TTTATTTTTGT
22776100 TTTACTTTTTGT
1 TTTA-TTTTTGT
*
22776112 TTTAATTTTGT
1 TTTATTTTTGT
*
22776123 TTTATTATT-T
1 TTTATTTTTGT
22776133 TTTAT
1 TTTAT
22776138 CTATTTTCAC
Statistics
Matches: 44, Mismatches: 3, Indels: 5
0.85 0.06 0.10
Matches are distributed among these distances:
10 7 0.16
11 26 0.59
12 11 0.25
ACGTcount: A:0.15, C:0.02, G:0.05, T:0.78
Consensus pattern (11 bp):
TTTATTTTTGT
Found at i:22776108 original size:23 final size:21
Alignment explanation
Indices: 22776078--22776137 Score: 75
Period size: 23 Copynumber: 2.7 Consensus size: 21
22776068 TTCTTTTATC
22776078 TTTATTTTATTTTTATTTTTGT
1 TTTATTTT-TTTTTATTTTTGT
*
22776100 TTTACTTTTTGTTTTAATTTTGT
1 TTTA-TTTTT-TTTTATTTTTGT
*
22776123 TTTATTATTTTTTAT
1 TTTATTTTTTTTTAT
22776138 CTATTTTCAC
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
21 5 0.15
22 9 0.27
23 19 0.58
ACGTcount: A:0.15, C:0.02, G:0.05, T:0.78
Consensus pattern (21 bp):
TTTATTTTTTTTTATTTTTGT
Found at i:22776276 original size:60 final size:59
Alignment explanation
Indices: 22776189--22776705 Score: 590
Period size: 59 Copynumber: 8.7 Consensus size: 59
22776179 AAATAAAAAT
22776189 AAAAAAA-AATTTTTTG-GAGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAAATTTC
1 AAAAAAATAA-TTTTTGAG-GAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAAATTTC
* *
22776248 AAAAAAATCAATTTCTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAAAGTTTC
1 AAAAAAAT-AATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAAA-TTTC
* * *
22776309 CAAAAAAT-ATTTTT-AGAGAAAAGTTGAAAGTATCAATTTTTCTTGAAAATAAAAGTTTC
1 AAAAAAATAATTTTTGAG-GAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAAA-TTTC
* * * *
22776368 CAAAAAAT-ATTTTTGGGGAAAGGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTC
1 AAAAAAATAATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAAATTTC
* * *
22776426 AAAAAAA-AATATTTTCGAGGAAAAGTTGAGAGCATCAATTTTCCTTGAAAATAAAAGTTTTC
1 AAAAAAATAAT-TTTT-GAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAAA--TTTC
* * *
22776488 -AAAAAAT-ATTTTTG-GAAAAAAGTTGAAAGTATCAATTTTCCTTAAATAT-AAATTTT
1 AAAAAAATAATTTTTGAG-GAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAAATTTC
* * * * *
22776544 TAAAAAATCAATTTTTGGGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATGAATTTTC
1 AAAAAAAT-AATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAAATTTC
* * *
22776604 AAAAAAATCAATTTTTGAGGAAAAGTTGAAAGTATCAATTTT-CTTCGAAATTAAAGTTTC
1 AAAAAAAT-AATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTT-AAAAATAAAATTTC
*
22776664 AAAAAAATATATTTTT-AGGGAAATGTTGAAAGTATCAATTTT
1 AAAAAAATA-ATTTTTGA-GGAAAAGTTGAAAGTATCAATTTT
22776706 TCGTGCACAA
Statistics
Matches: 402, Mismatches: 35, Indels: 41
0.84 0.07 0.09
Matches are distributed among these distances:
56 3 0.01
57 7 0.02
58 18 0.04
59 175 0.44
60 173 0.43
61 22 0.05
62 4 0.01
ACGTcount: A:0.45, C:0.07, G:0.13, T:0.35
Consensus pattern (59 bp):
AAAAAAATAATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAAATTTC
Found at i:22776498 original size:178 final size:176
Alignment explanation
Indices: 22776192--22776707 Score: 699
Period size: 178 Copynumber: 2.9 Consensus size: 176
22776182 TAAAAATAAA
* *
22776192 AAAAAAT-TTTTTGGAGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAAATTTC--AAAAAA
1 AAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTCAAAAAAAA
* *
22776254 ATCAATTTCTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAAAGTTTCCAAAAAATAT
66 AT-ATTTTC-GAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAAAGTTTTCAAAAAATAT
22776319 TTTTAGAGAAAAGTTGAAAGTATCAATTTTTCTTGAAA-ATAAAAGTTTCC
129 TTTTAGAGAAAAGTTGAAAGTATCAATTTTTCTT-AAATAT-AAA-TTTCC
*
22776369 AAAAAATATTTTTGGGGAAAGGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTCAAAAAAAA
1 AAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTCAAAAAAAA
* *
22776434 ATATTTTCGAGGAAAAGTTGAGAGCATCAATTTTCCTTGAAAATAAAAGTTTTCAAAAAATATTT
66 ATATTTTCGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAAAGTTTTCAAAAAATATTT
* * * **
22776499 TTGGAAAAAAGTTGAAAGTATCAATTTTCCTTAAATATAAATTTTT
131 TTAGAGAAAAGTTGAAAGTATCAATTTTTCTTAAATATAAATTTCC
* *
22776545 AAAAAATCAATTTTTGGGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATGAATTTTCAAAAAA
1 AAAAAAT--ATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTCAAAAAA
*
22776610 ATCAAT-TTTT-GAGGAAAAGTTGAAAGTATCAATTTT-CTTCG-AAATTAAAG-TTTCAAAAAA
64 A--AATATTTTCGAGGAAAAGTTGAAAGTATCAATTTTCCTT-GAAAATAAAAGTTTTC--AAAA
* *
22776670 ATATATTTTTAGGGAAATGTTGAAAGTATCAATTTTTC
124 A-ATATTTTTAGAGAAAAGTTGAAAGTATCAATTTTTC
22776708 GTGCACAAGA
Statistics
Matches: 304, Mismatches: 23, Indels: 22
0.87 0.07 0.06
Matches are distributed among these distances:
176 14 0.05
177 24 0.08
178 215 0.71
179 40 0.13
180 11 0.04
ACGTcount: A:0.44, C:0.08, G:0.13, T:0.35
Consensus pattern (176 bp):
AAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTCAAAAAAAA
ATATTTTCGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAAAGTTTTCAAAAAATATTT
TTAGAGAAAAGTTGAAAGTATCAATTTTTCTTAAATATAAATTTCC
Found at i:22776525 original size:27 final size:27
Alignment explanation
Indices: 22776495--22776586 Score: 67
Period size: 27 Copynumber: 3.2 Consensus size: 27
22776485 TTCAAAAAAT
22776495 ATTTTTGGAAAAAAGTTGAAAGTATCA
1 ATTTTTGGAAAAAAGTTGAAAGTATCA
** * * **
22776522 ATTTTCCTTAAATATAAATTTTTAAAAAATCA
1 ATTTT--TGGAA-A-AAA-GTTGAAAGTATCA
**
22776554 ATTTTTGGGGAAAAGTTGAAAGTATCA
1 ATTTTTGGAAAAAAGTTGAAAGTATCA
22776581 ATTTTT
1 ATTTTT
22776587 CTTAAAAATG
Statistics
Matches: 46, Mismatches: 14, Indels: 10
0.66 0.20 0.14
Matches are distributed among these distances:
27 20 0.43
28 3 0.07
29 4 0.09
30 2 0.04
31 3 0.07
32 14 0.30
ACGTcount: A:0.41, C:0.05, G:0.13, T:0.40
Consensus pattern (27 bp):
ATTTTTGGAAAAAAGTTGAAAGTATCA
Found at i:22776619 original size:17 final size:17
Alignment explanation
Indices: 22776577--22776619 Score: 52
Period size: 16 Copynumber: 2.6 Consensus size: 17
22776567 AGTTGAAAGT
**
22776577 ATCAATTTTTCTTAAAA
1 ATCAATTTTTCAAAAAA
*
22776594 ATGAA-TTTTCAAAAAA
1 ATCAATTTTTCAAAAAA
22776610 ATCAATTTTT
1 ATCAATTTTT
22776620 GAGGAAAAGT
Statistics
Matches: 21, Mismatches: 4, Indels: 2
0.78 0.15 0.07
Matches are distributed among these distances:
16 13 0.62
17 8 0.38
ACGTcount: A:0.44, C:0.09, G:0.02, T:0.44
Consensus pattern (17 bp):
ATCAATTTTTCAAAAAA
Found at i:22777534 original size:21 final size:19
Alignment explanation
Indices: 22777510--22777548 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 19
22777500 GGAATTTAAA
22777510 TAAAAAATTATTTAATCCAAT
1 TAAAAAA-TATTT-ATCCAAT
*
22777531 TAAATAATATTTATCCAA
1 TAAAAAATATTTATCCAA
22777549 AACGGATAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 6 0.35
20 5 0.29
21 6 0.35
ACGTcount: A:0.51, C:0.10, G:0.00, T:0.38
Consensus pattern (19 bp):
TAAAAAATATTTATCCAAT
Found at i:22779100 original size:3 final size:3
Alignment explanation
Indices: 22779092--22779117 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
22779082 ATCCATTTTT
22779092 ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA AT
22779118 TCAAACAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
ATA
Found at i:22780894 original size:13 final size:13
Alignment explanation
Indices: 22780876--22780901 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
22780866 AATAATTTTA
22780876 AATATAATATAAT
1 AATATAATATAAT
22780889 AATATAATATAAT
1 AATATAATATAAT
22780902 TATGATTAGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (13 bp):
AATATAATATAAT
Found at i:22780954 original size:12 final size:12
Alignment explanation
Indices: 22780937--22780975 Score: 55
Period size: 11 Copynumber: 3.4 Consensus size: 12
22780927 AATATAATTT
22780937 AAAATTTTAATA
1 AAAATTTTAATA
*
22780949 AAAATTAT-ATA
1 AAAATTTTAATA
22780960 AAAA-TTTAATA
1 AAAATTTTAATA
22780971 AAAAT
1 AAAAT
22780976 AAAAATATTT
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
10 2 0.09
11 14 0.61
12 7 0.30
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (12 bp):
AAAATTTTAATA
Found at i:22782590 original size:15 final size:16
Alignment explanation
Indices: 22782572--22782613 Score: 50
Period size: 17 Copynumber: 2.6 Consensus size: 16
22782562 TTGTTCTTTT
22782572 TTATTTTATTTT-ATC
1 TTATTTTATTTTGATC
*
22782587 TTATTTTAATTTTGATT
1 TTATTTT-ATTTTGATC
22782604 TTATTATTAT
1 TTATT-TTAT
22782614 GTTTTAAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
15 7 0.30
16 5 0.22
17 9 0.39
18 2 0.09
ACGTcount: A:0.24, C:0.02, G:0.02, T:0.71
Consensus pattern (16 bp):
TTATTTTATTTTGATC
Found at i:22782604 original size:6 final size:5
Alignment explanation
Indices: 22782570--22782613 Score: 52
Period size: 5 Copynumber: 8.2 Consensus size: 5
22782560 TTTTGTTCTT
*
22782570 TTTTA TTTTA TTTTA TCTTA TTTTAA TTTTGA TTTTA TTATTA T
1 TTTTA TTTTA TTTTA TTTTA TTTT-A TTTT-A TTTTA TT-TTA T
22782614 GTTTTAAAAA
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
5 20 0.59
6 14 0.41
ACGTcount: A:0.23, C:0.02, G:0.02, T:0.73
Consensus pattern (5 bp):
TTTTA
Found at i:22782604 original size:22 final size:19
Alignment explanation
Indices: 22782566--22782607 Score: 57
Period size: 22 Copynumber: 2.1 Consensus size: 19
22782556 CCCTTTTTGT
22782566 TCTTTTTTATTTTATTTTA
1 TCTTTTTTATTTTATTTTA
22782585 TCTTATTTTAATTTTGATTTTA
1 TCTT-TTTT-ATTTT-ATTTTA
22782607 T
1 T
22782608 TATTATGTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
19 4 0.20
20 4 0.20
21 5 0.25
22 7 0.35
ACGTcount: A:0.19, C:0.05, G:0.02, T:0.74
Consensus pattern (19 bp):
TCTTTTTTATTTTATTTTA
Found at i:22782920 original size:7 final size:7
Alignment explanation
Indices: 22782908--22782951 Score: 54
Period size: 7 Copynumber: 6.1 Consensus size: 7
22782898 TTCATTCTTA
22782908 TTATTTT
1 TTATTTT
22782915 TTATTTT
1 TTATTTT
22782922 TTA-TTT
1 TTATTTT
*
22782928 TTACTTAT
1 TTA-TTTT
22782936 TTATTTT
1 TTATTTT
22782943 TATATTTT
1 T-TATTTT
22782951 T
1 T
22782952 ATTATTTTTA
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
6 6 0.19
7 14 0.44
8 12 0.38
ACGTcount: A:0.18, C:0.02, G:0.00, T:0.80
Consensus pattern (7 bp):
TTATTTT
Found at i:22782928 original size:6 final size:6
Alignment explanation
Indices: 22782912--22782970 Score: 57
Period size: 6 Copynumber: 9.5 Consensus size: 6
22782902 TTCTTATTAT
* *
22782912 TTTTTA TTTTTTA TTTTTA CTTATTTA TTTTTA TATTT- TTATTA TTTTTA
1 TTTTTA -TTTTTA TTTTTA -TT-TTTA TTTTTA TTTTTA TTTTTA TTTTTA
*
22782962 TTATTA TTT
1 TTTTTA TTT
22782971 ACATTTTTTA
Statistics
Matches: 43, Mismatches: 6, Indels: 7
0.77 0.11 0.12
Matches are distributed among these distances:
5 3 0.07
6 26 0.60
7 10 0.23
8 4 0.09
ACGTcount: A:0.20, C:0.02, G:0.00, T:0.78
Consensus pattern (6 bp):
TTTTTA
Found at i:22782940 original size:21 final size:21
Alignment explanation
Indices: 22782912--22782970 Score: 50
Period size: 21 Copynumber: 2.8 Consensus size: 21
22782902 TTCTTATTAT
*
22782912 TTTTTATTTTTTATTTTTACT-
1 TTTTTATTATTTATTTTTA-TA
* *
22782933 TATTTATTTTTATATTTTTATTA
1 TTTTTATTATT-TATTTTTA-TA
22782956 TTTTTATTA-TTATTT
1 TTTTTATTATTTATTT
22782971 ACATTTTTTA
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
21 15 0.47
22 10 0.31
23 7 0.22
ACGTcount: A:0.20, C:0.02, G:0.00, T:0.78
Consensus pattern (21 bp):
TTTTTATTATTTATTTTTATA
Found at i:22782962 original size:27 final size:26
Alignment explanation
Indices: 22782905--22782987 Score: 82
Period size: 27 Copynumber: 3.1 Consensus size: 26
22782895 ATTTTCATTC
22782905 TTATTATTTTT-TATTTTTTATT-TTT
1 TTATTATTTTTATA-TTTTTATTATTT
22782930 ACTTATTTATTTTTATATTTTTATTATTT
1 --TTA-TTATTTTTATATTTTTATTATTT
*
22782959 TTATTATTATTTACATTTTT-TATATTT
1 TTATTATT-TTTATATTTTTAT-TATTT
22782986 TT
1 TT
22782988 TGTACACATA
Statistics
Matches: 50, Mismatches: 1, Indels: 10
0.82 0.02 0.16
Matches are distributed among these distances:
26 6 0.12
27 23 0.46
28 16 0.32
29 5 0.10
ACGTcount: A:0.22, C:0.02, G:0.00, T:0.76
Consensus pattern (26 bp):
TTATTATTTTTATATTTTTATTATTT
Found at i:22784005 original size:20 final size:20
Alignment explanation
Indices: 22783967--22784005 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
22783957 AATTTAAAGT
*
22783967 CCAAATTTTAATTTTAAAAC
1 CCAAATTTTAATTTGAAAAC
22783987 CCAAATTATTAA-TTGAAAA
1 CCAAATT-TTAATTTGAAAA
22784006 ATTACACAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.49, C:0.13, G:0.03, T:0.36
Consensus pattern (20 bp):
CCAAATTTTAATTTGAAAAC
Found at i:22784006 original size:21 final size:20
Alignment explanation
Indices: 22783967--22784006 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
22783957 AATTTAAAGT
**
22783967 CCAAATTTTAATTTTAAAAC
1 CCAAATTTTAATTGAAAAAC
22783987 CCAAATTATTAATTGAAAAA
1 CCAAATT-TTAATTGAAAAA
22784007 TTACACAAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.50, C:0.12, G:0.03, T:0.35
Consensus pattern (20 bp):
CCAAATTTTAATTGAAAAAC
Found at i:22785404 original size:16 final size:15
Alignment explanation
Indices: 22785378--22785407 Score: 51
Period size: 15 Copynumber: 1.9 Consensus size: 15
22785368 AAAAAAGGAT
22785378 AAAAAGAAAGAAAAA
1 AAAAAGAAAGAAAAA
22785393 AAAAAGAGAAGAAAA
1 AAAAAGA-AAGAAAA
22785408 TGTTGACCTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (15 bp):
AAAAAGAAAGAAAAA
Found at i:22787661 original size:27 final size:27
Alignment explanation
Indices: 22787631--22787690 Score: 66
Period size: 27 Copynumber: 2.2 Consensus size: 27
22787621 GAATTGATCT
22787631 AAATTAAATTAAACCTTAACCCAAATA
1 AAATTAAATTAAACCTTAACCCAAATA
* * ** * *
22787658 AAATTGAATTGAATTTTAACCTATATA
1 AAATTAAATTAAACCTTAACCCAAATA
22787685 AAATTA
1 AAATTA
22787691 CACAAAAGCA
Statistics
Matches: 26, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.52, C:0.12, G:0.03, T:0.33
Consensus pattern (27 bp):
AAATTAAATTAAACCTTAACCCAAATA
Found at i:22787786 original size:26 final size:26
Alignment explanation
Indices: 22787757--22787817 Score: 88
Period size: 26 Copynumber: 2.3 Consensus size: 26
22787747 TAATTGACTG
22787757 AAATCAAATCATTCAAAT-AAAGCATT
1 AAATCAAATCATTCAAATCAAA-CATT
* *
22787783 AAATCAAATCTTTCAAATCAAATATT
1 AAATCAAATCATTCAAATCAAACATT
22787809 AAATCAAAT
1 AAATCAAAT
22787818 TCAAATCAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
26 29 0.91
27 3 0.09
ACGTcount: A:0.54, C:0.15, G:0.02, T:0.30
Consensus pattern (26 bp):
AAATCAAATCATTCAAATCAAACATT
Found at i:22790380 original size:17 final size:17
Alignment explanation
Indices: 22790358--22790425 Score: 59
Period size: 18 Copynumber: 3.8 Consensus size: 17
22790348 ATAAATCACC
22790358 TTAATATTTTTATATTT
1 TTAATATTTTTATATTT
22790375 TTAATA-TTTTATACTTTT
1 TTAATATTTTTATA--TTT
*
22790393 TTAAATATTTCATT-TACTT
1 TT-AATATTT--TTATATTT
*
22790412 ATAATATTTTTATA
1 TTAATATTTTTATA
22790426 ATAATGTCAC
Statistics
Matches: 42, Mismatches: 2, Indels: 14
0.72 0.03 0.24
Matches are distributed among these distances:
16 9 0.21
17 8 0.19
18 12 0.29
19 7 0.17
20 2 0.05
21 2 0.05
22 2 0.05
ACGTcount: A:0.32, C:0.04, G:0.00, T:0.63
Consensus pattern (17 bp):
TTAATATTTTTATATTT
Found at i:22792607 original size:25 final size:25
Alignment explanation
Indices: 22792560--22792607 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
22792550 TATCACCTAA
*
22792560 AAATTTTATAAAATTTTACCATTTG
1 AAATTTTATAAAATTTCACCATTTG
*
22792585 AAATTTCTAT-AAATTTCATCATT
1 AAATTT-TATAAAATTTCACCATT
22792608 GGATAATTAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
25 17 0.85
26 3 0.15
ACGTcount: A:0.40, C:0.10, G:0.02, T:0.48
Consensus pattern (25 bp):
AAATTTTATAAAATTTCACCATTTG
Found at i:22792615 original size:26 final size:25
Alignment explanation
Indices: 22792560--22792615 Score: 60
Period size: 25 Copynumber: 2.2 Consensus size: 25
22792550 TATCACCTAA
* *
22792560 AAATTTTATAAAATTTTACCATTTG
1 AAATTTTATAAAATTTCACCATTGG
*
22792585 AAATTTCTAT-AAATTTCATCATTGG
1 AAATTT-TATAAAATTTCACCATTGG
22792610 ATAATT
1 A-AATT
22792616 AATATTTATT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
25 19 0.73
26 7 0.27
ACGTcount: A:0.39, C:0.09, G:0.05, T:0.46
Consensus pattern (25 bp):
AAATTTTATAAAATTTCACCATTGG
Found at i:22793695 original size:42 final size:42
Alignment explanation
Indices: 22793452--22793694 Score: 238
Period size: 42 Copynumber: 5.7 Consensus size: 42
22793442 ACGACTTTTG
* * * * *
22793452 AAAATAAAATGCTCCTCTAAATAGAAGCACCACAACTTTAAAATA
1 AAAATAAATTGCTCCTCTAAATAGAGGCACTATAACTTT--GA-A
*
22793497 AAAATAAATTGCTCCTCTAAATAGAGGCAAC-ACAACTTTGAA
1 AAAATAAATTGCTCCTCTAAATAGAGGC-ACTATAACTTTGAA
** * * *
22793539 AAAATAAATTTTTCATTTAAATAGAGGCACCATAACTTTG-A
1 AAAATAAATTGCTCCTCTAAATAGAGGCACTATAACTTTGAA
* * * * * *
22793580 AAAGTAAATTGCTCCTCTAAACAAAGGCCCTATGATTTTGAA
1 AAAATAAATTGCTCCTCTAAATAGAGGCACTATAACTTTGAA
* * * * *
22793622 AAAATAAATTGTTCCTATAAACAGAGGCACTGTGACTTTGAA
1 AAAATAAATTGCTCCTCTAAATAGAGGCACTATAACTTTGAA
22793664 AAAATAAATTGCTCCTCTAAATAGAGGCACT
1 AAAATAAATTGCTCCTCTAAATAGAGGCACT
22793695 GCAATTTTCG
Statistics
Matches: 166, Mismatches: 29, Indels: 9
0.81 0.14 0.04
Matches are distributed among these distances:
41 32 0.19
42 97 0.58
43 1 0.01
45 34 0.20
46 2 0.01
ACGTcount: A:0.44, C:0.17, G:0.12, T:0.27
Consensus pattern (42 bp):
AAAATAAATTGCTCCTCTAAATAGAGGCACTATAACTTTGAA
Found at i:22794653 original size:63 final size:63
Alignment explanation
Indices: 22794577--22794702 Score: 155
Period size: 63 Copynumber: 2.0 Consensus size: 63
22794567 TTGAAACAAG
* * * * * * *
22794577 TTTCATCTACCATCATTGGGTCACTACTCATAGGTGTCTTAGCATTAGCCATTCCAAAATAAA
1 TTTCATCTACCATCACTAGGTCACCACTCATAGGTGTCTCAACACTAACCATTCCAAAATAAA
* *
22794640 TTTCATCGT-CCATCACTAGGTCACCACTCATAGGTTTCTCAACGCTAACCATTCCAAAATAAA
1 TTTCATC-TACCATCACTAGGTCACCACTCATAGGTGTCTCAACACTAACCATTCCAAAATAAA
22794703 CTTTGTCCAC
Statistics
Matches: 53, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
63 52 0.98
64 1 0.02
ACGTcount: A:0.31, C:0.27, G:0.11, T:0.31
Consensus pattern (63 bp):
TTTCATCTACCATCACTAGGTCACCACTCATAGGTGTCTCAACACTAACCATTCCAAAATAAA
Found at i:22795506 original size:22 final size:21
Alignment explanation
Indices: 22795443--22795502 Score: 70
Period size: 22 Copynumber: 2.9 Consensus size: 21
22795433 CTCTTTTCCA
*
22795443 TTTTTTTCTTTTATTTCTTC-
1 TTTTTTTCTTTTTTTTCTTCT
* *
22795463 -TTATTTCTTTTTTTCCATTCT
1 TTTTTTTCTTTTTTTTC-TTCT
22795484 TTTTTTTCTTTTTTTTCTT
1 TTTTTTTCTTTTTTTTCTT
22795503 TCTTCATTCG
Statistics
Matches: 32, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
19 13 0.41
20 3 0.09
21 2 0.06
22 14 0.44
ACGTcount: A:0.05, C:0.15, G:0.00, T:0.80
Consensus pattern (21 bp):
TTTTTTTCTTTTTTTTCTTCT
Found at i:22802112 original size:21 final size:20
Alignment explanation
Indices: 22802073--22802113 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 20
22802063 TCTTATAATA
* *
22802073 TTGTTGTTCAAAGTAATTTT
1 TTGTTGTTAAAAATAATTTT
22802093 TTGTTGTTTAAAAATAATTTT
1 TTGTTG-TTAAAAATAATTTT
22802114 CGATCAAACA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.29, C:0.02, G:0.12, T:0.56
Consensus pattern (20 bp):
TTGTTGTTAAAAATAATTTT
Found at i:22802268 original size:17 final size:18
Alignment explanation
Indices: 22802246--22802288 Score: 63
Period size: 17 Copynumber: 2.4 Consensus size: 18
22802236 ATAAATCACC
22802246 TTAATATTTTTATA-TTT
1 TTAATATTTTTATACTTT
22802263 TTAATA-TTTTATACTTT
1 TTAATATTTTTATACTTT
22802280 TTAAATATT
1 TT-AATATT
22802289 CATTTACTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
16 7 0.30
17 11 0.48
18 4 0.17
19 1 0.04
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (18 bp):
TTAATATTTTTATACTTT
Found at i:22804528 original size:8 final size:8
Alignment explanation
Indices: 22804515--22804540 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
22804505 TTCTTAAAAT
22804515 TTATTTTA
1 TTATTTTA
22804523 TTATTTTA
1 TTATTTTA
22804531 TTATTTTA
1 TTATTTTA
22804539 TT
1 TT
22804541 TAATATCAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (8 bp):
TTATTTTA
Found at i:22804626 original size:29 final size:30
Alignment explanation
Indices: 22804564--22804620 Score: 80
Period size: 29 Copynumber: 1.9 Consensus size: 30
22804554 TGAAAATCAT
* *
22804564 AAAACAAAGTGAATAAATAAACAATTATGC
1 AAAACAAAGTGAATAAACAAACAATTAAGC
*
22804594 AAAACAAA-TGAATAAACAATCAATTAA
1 AAAACAAAGTGAATAAACAAACAATTAA
22804621 AGAAAAAAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 16 0.67
30 8 0.33
ACGTcount: A:0.63, C:0.11, G:0.07, T:0.19
Consensus pattern (30 bp):
AAAACAAAGTGAATAAACAAACAATTAAGC
Found at i:22805142 original size:15 final size:15
Alignment explanation
Indices: 22805122--22805154 Score: 50
Period size: 15 Copynumber: 2.2 Consensus size: 15
22805112 ATTTTTCTTT
22805122 TTATTTATT-TATTTA
1 TTATTTATTAT-TTTA
22805137 TTATTTATTATTTTA
1 TTATTTATTATTTTA
22805152 TTA
1 TTA
22805155 ACAAAAATTG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 16 0.94
16 1 0.06
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (15 bp):
TTATTTATTATTTTA
Found at i:22805447 original size:42 final size:42
Alignment explanation
Indices: 22805334--22805672 Score: 276
Period size: 42 Copynumber: 8.3 Consensus size: 42
22805324 ATGACTTTTG
* * * *
22805334 AAAATAAAATGCTTCTCTAAATAGAGGCACCACAACTTTAAAATA
1 AAAATAAATTGCTCCTCTAAACAGAGGCACCACAACTTT--GA-A
* * *
22805379 AAAATAAATTGCTCCTATAAATAGAGGCAACACAACTTTGAA
1 AAAATAAATTGCTCCTCTAAACAGAGGCACCACAACTTTGAA
* *
22805421 AAAATAAATTGTTCTTCTAAACAGAGGCACCACAACTTT-AA
1 AAAATAAATTGCTCCTCTAAACAGAGGCACCACAACTTTGAA
* * * *
22805462 AAAGTAAATTGCTCCTCTAAACAAAGGC-CCTACGATTTTGAA
1 AAAATAAATTGCTCCTCTAAACAGAGGCACC-ACAACTTTGAA
* * * ***
22805504 AAAATAAATTGTTCCTATAAACAGAGGCCCCGTGACTTTGAA
1 AAAATAAATTGCTCCTCTAAACAGAGGCACCACAACTTTGAA
* * *
22805546 AAAATAAATTGCTCCTCTAAATAGAGGCACCACAATTTTGGA
1 AAAATAAATTGCTCCTCTAAACAGAGGCACCACAACTTTGAA
* * * *
22805588 AAAGT-AA----------AA-CAGAGGAACGACTACTTTGAA
1 AAAATAAATTGCTCCTCTAAACAGAGGCACCACAACTTTGAA
* * *
22805618 AAAATAAATTGCTCCTCTAAATAGAGGCAACAGAACTTTG-A
1 AAAATAAATTGCTCCTCTAAACAGAGGCACCACAACTTTGAA
22805659 AAAATAAATTGCTC
1 AAAATAAATTGCTC
22805673 TTTGACAATC
Statistics
Matches: 233, Mismatches: 46, Indels: 34
0.74 0.15 0.11
Matches are distributed among these distances:
30 19 0.08
31 4 0.02
40 2 0.01
41 51 0.22
42 119 0.51
43 3 0.01
45 35 0.15
ACGTcount: A:0.44, C:0.18, G:0.13, T:0.25
Consensus pattern (42 bp):
AAAATAAATTGCTCCTCTAAACAGAGGCACCACAACTTTGAA
Found at i:22805515 original size:83 final size:83
Alignment explanation
Indices: 22805334--22805669 Score: 259
Period size: 83 Copynumber: 4.1 Consensus size: 83
22805324 ATGACTTTTG
* * *
22805334 AAAATAAAATGCTTCTCTAAATAGAGGCACCACAACTTTAAAATAAAAATAAATTGCTCCTATAA
1 AAAATAAATTG-TTCTCTAAACAGAGGCACCACAACTTT--AA-AAAAATAAATTGCTCCTCTAA
* *
22805399 ATAGAGGCAACACAACTTTGAA
62 ACAAAGGCAACACAACTTTGAA
*
22805421 AAAATAAATTGTTCTTCTAAACAGAGGCACCACAACTTT-AAAAAGTAAATTGCTCCTCTAAACA
1 AAAATAAATTGTTC-TCTAAACAGAGGCACCACAACTTTAAAAAAATAAATTGCTCCTCTAAACA
* * *
22805485 AAGGC-CCTACGATTTTGAA
65 AAGGCAAC-ACAACTTTGAA
* * *** * *
22805504 AAAATAAATTGTTCCTATAAACAGAGGCCCCGTGACTTTGAAAAAATAAATTGCTCCTCTAAATA
1 AAAATAAATTGTT-CTCTAAACAGAGGCACCACAACTTTAAAAAAATAAATTGCTCCTCTAAACA
* * *
22805569 GAGGCACCACAATTTTG--
65 AAGGCAACACAACTTTGAA
* * * * * * * *
22805586 --GA-AAA--G---T-AAAACAGAGGAACGACTACTTTGAAAAAATAAATTGCTCCTCTAAATAG
1 AAAATAAATTGTTCTCTAAACAGAGGCACCACAACTTTAAAAAAATAAATTGCTCCTCTAAACAA
*
22805642 AGGCAACAGAACTTTG-A
66 AGGCAACACAACTTTGAA
22805659 AAAATAAATTG
1 AAAATAAATTG
22805670 CTCTTTGACA
Statistics
Matches: 208, Mismatches: 30, Indels: 31
0.77 0.11 0.12
Matches are distributed among these distances:
72 55 0.26
73 1 0.00
75 1 0.00
76 3 0.01
77 1 0.00
78 1 0.00
79 3 0.01
80 1 0.00
82 1 0.00
83 66 0.32
84 37 0.18
85 2 0.01
86 3 0.01
87 33 0.16
ACGTcount: A:0.44, C:0.18, G:0.13, T:0.25
Consensus pattern (83 bp):
AAAATAAATTGTTCTCTAAACAGAGGCACCACAACTTTAAAAAAATAAATTGCTCCTCTAAACAA
AGGCAACACAACTTTGAA
Found at i:22806051 original size:22 final size:21
Alignment explanation
Indices: 22805977--22806052 Score: 73
Period size: 21 Copynumber: 3.6 Consensus size: 21
22805967 GGTTTCACAT
* *
22805977 CTCAAACATTCTCATTTAAAA
1 CTCAAAAATTCTCATTTGAAA
* *
22805998 TTCAAAGATTCTCATTTGAAA
1 CTCAAAAATTCTCATTTGAAA
* *
22806019 -TCCAAATATTCGCATTTGAGAA
1 CT-CAAAAATTCTCATTTGA-AA
22806041 CTCAAAAATTCT
1 CTCAAAAATTCT
22806053 TATAAAAAGA
Statistics
Matches: 45, Mismatches: 7, Indels: 5
0.79 0.12 0.09
Matches are distributed among these distances:
20 1 0.02
21 33 0.73
22 10 0.22
23 1 0.02
ACGTcount: A:0.39, C:0.20, G:0.07, T:0.34
Consensus pattern (21 bp):
CTCAAAAATTCTCATTTGAAA
Found at i:22806534 original size:63 final size:63
Alignment explanation
Indices: 22806458--22806583 Score: 155
Period size: 63 Copynumber: 2.0 Consensus size: 63
22806448 TTGAAACAAG
* * * * * * *
22806458 TTTCATCTACCATCATTGGGTCACTACTCATAGGTGTCTTAGCATTAGCCATTCCAAAATAAA
1 TTTCATCTACCATCACTAGGTCACCACTCATAGGTGTCTCAACACTAACCATTCCAAAATAAA
* *
22806521 TTTCATCGT-CCATCACTAGGTCACCACTCATAGGTTTCTCAACGCTAACCATTCCAAAATAAA
1 TTTCATC-TACCATCACTAGGTCACCACTCATAGGTGTCTCAACACTAACCATTCCAAAATAAA
22806584 CTTTGTCCAC
Statistics
Matches: 53, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
63 52 0.98
64 1 0.02
ACGTcount: A:0.31, C:0.27, G:0.11, T:0.31
Consensus pattern (63 bp):
TTTCATCTACCATCACTAGGTCACCACTCATAGGTGTCTCAACACTAACCATTCCAAAATAAA
Found at i:22813680 original size:26 final size:24
Alignment explanation
Indices: 22813651--22813722 Score: 74
Period size: 26 Copynumber: 2.8 Consensus size: 24
22813641 AAATTCAGAT
22813651 AAAATTTATCACTTAGAAATTTTATA
1 AAAATTTATCA-TTAGAAATTTT-TA
*
22813677 AAAATTTACCATTTA-AAATTTTTA
1 AAAATTTATCA-TTAGAAATTTTTA
*
22813701 TAAATTTCATCATTAGATAATT
1 AAAATTT-ATCATTAGA-AATT
22813723 AATATTTATT
Statistics
Matches: 39, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
24 11 0.28
25 11 0.28
26 17 0.44
ACGTcount: A:0.44, C:0.08, G:0.03, T:0.44
Consensus pattern (24 bp):
AAAATTTATCATTAGAAATTTTTA
Found at i:22813844 original size:29 final size:30
Alignment explanation
Indices: 22813782--22813838 Score: 80
Period size: 29 Copynumber: 1.9 Consensus size: 30
22813772 TGAAAATCAT
* *
22813782 AAAACAAAGTGAATAAATAAACAATTATGC
1 AAAACAAAGTGAATAAACAAACAATTAAGC
*
22813812 AAAACAAA-TGAATAAACAATCAATTAA
1 AAAACAAAGTGAATAAACAAACAATTAA
22813839 AGAAAAAAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 16 0.67
30 8 0.33
ACGTcount: A:0.63, C:0.11, G:0.07, T:0.19
Consensus pattern (30 bp):
AAAACAAAGTGAATAAACAAACAATTAAGC
Found at i:22819705 original size:11 final size:11
Alignment explanation
Indices: 22819689--22819716 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
22819679 GTTACTGTTG
22819689 TTGCTTAATTA
1 TTGCTTAATTA
22819700 TTGCTTAATTA
1 TTGCTTAATTA
22819711 TTGCTT
1 TTGCTT
22819717 TATATTATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.21, C:0.11, G:0.11, T:0.57
Consensus pattern (11 bp):
TTGCTTAATTA
Found at i:22822661 original size:356 final size:355
Alignment explanation
Indices: 22821949--22822711 Score: 951
Period size: 356 Copynumber: 2.1 Consensus size: 355
22821939 TATAACAAAT
* * * ** *
22821949 TATTGAAGGTATTTTATAATAAAAAATACCTTTAATAATCCGAAAAAATTTTTTAAAAAAATTAT
1 TATTGAAGGCATTTCATAATAAAAGACGCCTTTAATAATCCAAAAAAATTTTTTAAAAAAATTAT
* * *
22822014 TGAAGGTGTTGTTATCTGCAATTGCCTTCACTAATTATCTACAAACTGTGATAAGAATTATTAAA
66 TAAAGGCGTTGTTATCTGCAACTGCCTTCACTAATTATCTACAAACTGTGATAAGAATTATTAAA
* * * * * * *
22822079 GACGTCTTTCTTGGATATACACCTTCAATAACTGTGTTAGATTTGTGTGACAGTATATAGAAGGT
131 GACATCTTTATTAGATATACACCTTCAATAACTGTGTAAAATTTATGTGACAGTATATAGAAGGC
* *** * ** *
22822144 ATTTTATAGTAGAAAACGCCTTTAATAATTTTTAAAATTTTTAGTGTGAAAATTTTGAAGGCGTA
196 ATTTTACAGTAGAAAACGCCTTTAATAATTCCCAAAATTTTTAATGAAAAAATTTTGAAGACGTA
*
22822209 TGTTATTAACAAATGCCTTTAGTAATGGATTACTAAGTTTAAAGATATATTGAAGGTACCTTTTT
261 TGTTATTAACAAATGCCTTCAGTAATGGATTACTAAGTTTAAAGATATATTGAAGGTACCTTTTT
* *
22822274 GAATAAATGTCTTCTATAATCATCATGGTA
326 GAATAAACGTCTTCCATAATCATCATGGTA
** * ** *
22822304 TATTGAAGGTGTTTCATAATTAAAGACGTTTTTAATAATCCAAAAAAAATTTTTT-TAAAAATTA
1 TATTGAAGGCATTTCATAATAAAAGACGCCTTTAATAATCC-AAAAAAATTTTTTAAAAAAATTA
* * *
22822368 TTAAAGGCGTTGTTATCTGCAACTGCCTTCACTAATTATCTATAAATTGTGATAGGAATTATTAA
65 TTAAAGGCGTTGTTATCTGCAACTGCCTTCACTAATTATCTACAAACTGTGATAAGAATTATTAA
* * ***
22822433 AGGCATCTTTATTAGATATACGCCTTCAATAATCATGT-TAAAATTTATGTGGTGGTATATAGAA
130 AGACATCTTTATTAGATATACACCTTCAATAA-C-TGTGTAAAATTTATGTGACAGTATATAGAA
* * *
22822497 TGCATTTTACAGTAGAAAATGCCTTTAATGATTCCCAAAATTTTTAATGAAAAAATTTTGAAGAC
193 GGCATTTTACAGTAGAAAACGCCTTTAATAATTCCCAAAATTTTTAATGAAAAAATTTTGAAGAC
* * *
22822562 GTCTGTTATTAACAAATGCCTTCAGTAATTGATTACTAAGTTTAAACG-TATATTGAAGGTGCCT
258 GTATGTTATTAACAAATGCCTTCAGTAATGGATTACTAAGTTTAAA-GATATATTGAAGGTACCT
* **
22822626 TTTTGAATAGACG-CATTCCATAA-CAATTGTGGTA
322 TTTTGAATAAACGTC-TTCCATAATC-ATCATGGTA
* * * *
22822660 TATTGAAGGCATTTTATAATAAAATACGCCTTTAATAATCCGAAAAACTTTT
1 TATTGAAGGCATTTCATAATAAAAGACGCCTTTAATAATCCAAAAAAATTTT
22822712 GCTAAGCAAA
Statistics
Matches: 345, Mismatches: 57, Indels: 12
0.83 0.14 0.03
Matches are distributed among these distances:
355 138 0.40
356 203 0.59
357 4 0.01
ACGTcount: A:0.36, C:0.11, G:0.14, T:0.38
Consensus pattern (355 bp):
TATTGAAGGCATTTCATAATAAAAGACGCCTTTAATAATCCAAAAAAATTTTTTAAAAAAATTAT
TAAAGGCGTTGTTATCTGCAACTGCCTTCACTAATTATCTACAAACTGTGATAAGAATTATTAAA
GACATCTTTATTAGATATACACCTTCAATAACTGTGTAAAATTTATGTGACAGTATATAGAAGGC
ATTTTACAGTAGAAAACGCCTTTAATAATTCCCAAAATTTTTAATGAAAAAATTTTGAAGACGTA
TGTTATTAACAAATGCCTTCAGTAATGGATTACTAAGTTTAAAGATATATTGAAGGTACCTTTTT
GAATAAACGTCTTCCATAATCATCATGGTA
Found at i:22830761 original size:21 final size:21
Alignment explanation
Indices: 22830737--22830787 Score: 86
Period size: 21 Copynumber: 2.5 Consensus size: 21
22830727 CCCGAAATTA
22830737 ATAAAATATTATTTTTAAAAT
1 ATAAAATATTATTTTTAAAAT
*
22830758 ATAAAATATTATTTTTTAAAT
1 ATAAAATATTATTTTTAAAAT
22830779 AT-AAATATT
1 ATAAAATATT
22830788 TAAAAATATC
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
20 7 0.24
21 22 0.76
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (21 bp):
ATAAAATATTATTTTTAAAAT
Found at i:22837382 original size:20 final size:20
Alignment explanation
Indices: 22837357--22837395 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
22837347 GCTCCAATTA
*
22837357 AAATTTTTTTATTTCTATTG
1 AAATTTTTGTATTTCTATTG
*
22837377 AAATTTTTGTATTTTTATT
1 AAATTTTTGTATTTCTATT
22837396 ATGCCTTTAA
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:0.26, C:0.03, G:0.05, T:0.67
Consensus pattern (20 bp):
AAATTTTTGTATTTCTATTG
Found at i:22837672 original size:19 final size:18
Alignment explanation
Indices: 22837650--22837708 Score: 57
Period size: 18 Copynumber: 3.2 Consensus size: 18
22837640 TTATTTAATA
*
22837650 TAAAAATAATTGAATATTT
1 TAAAAAT-ATTAAATATTT
* *
22837669 T-AAAATATTTATTAATTT
1 TAAAAATATTAAAT-ATTT
*
22837687 TAAAAATATTAAATAATT
1 TAAAAATATTAAATATTT
22837705 TAAA
1 TAAA
22837709 TTTTTCATTA
Statistics
Matches: 33, Mismatches: 5, Indels: 5
0.77 0.12 0.12
Matches are distributed among these distances:
17 5 0.15
18 17 0.52
19 11 0.33
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (18 bp):
TAAAAATATTAAATATTT
Found at i:22837706 original size:18 final size:18
Alignment explanation
Indices: 22837645--22837708 Score: 58
Period size: 19 Copynumber: 3.5 Consensus size: 18
22837635 AATTATTATT
* *
22837645 TAATATAAAAATAATTGAA
1 TAATTTAAAAAT-ATTAAA
* * *
22837664 T-ATTTTAAAATATTTAT
1 TAATTTAAAAATATTAAA
22837681 TAATTTTAAAAATATTAAA
1 TAA-TTTAAAAATATTAAA
22837700 TAATTTAAA
1 TAATTTAAA
22837709 TTTTTCATTA
Statistics
Matches: 36, Mismatches: 7, Indels: 5
0.75 0.15 0.10
Matches are distributed among these distances:
17 5 0.14
18 15 0.42
19 16 0.44
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.44
Consensus pattern (18 bp):
TAATTTAAAAATATTAAA
Found at i:22840559 original size:19 final size:19
Alignment explanation
Indices: 22840527--22840569 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 19
22840517 TAAGCTTAAA
* *
22840527 TTTTATTTTTATTTTTATT
1 TTTTAATTTAATTTTTATT
*
22840546 TTTTAATTTAATTTTTGTT
1 TTTTAATTTAATTTTTATT
22840565 TTTTA
1 TTTTA
22840570 GTTAAAAGAG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.19, C:0.00, G:0.02, T:0.79
Consensus pattern (19 bp):
TTTTAATTTAATTTTTATT
Found at i:22840574 original size:18 final size:19
Alignment explanation
Indices: 22840537--22840574 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
22840527 TTTTATTTTT
*
22840537 ATTTTTATTTTTTAATTTA
1 ATTTTTATTTTTTAAGTTA
*
22840556 ATTTTTGTTTTTT-AGTTA
1 ATTTTTATTTTTTAAGTTA
22840574 A
1 A
22840575 AAGAGTTAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 5 0.29
19 12 0.71
ACGTcount: A:0.24, C:0.00, G:0.05, T:0.71
Consensus pattern (19 bp):
ATTTTTATTTTTTAAGTTA
Found at i:22841249 original size:20 final size:17
Alignment explanation
Indices: 22841192--22841240 Score: 66
Period size: 16 Copynumber: 3.0 Consensus size: 17
22841182 TTTGCATGAC
*
22841192 TAATATTATATTTGCA-
1 TAATATTTTATTTGCAT
*
22841208 TAATAATTTATTTGC-T
1 TAATATTTTATTTGCAT
22841224 TAATATTTTATTTGCAT
1 TAATATTTTATTTGCAT
22841241 GATTAATATA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
16 27 0.96
17 1 0.04
ACGTcount: A:0.33, C:0.06, G:0.06, T:0.55
Consensus pattern (17 bp):
TAATATTTTATTTGCAT
Found at i:22841294 original size:20 final size:19
Alignment explanation
Indices: 22841271--22841334 Score: 74
Period size: 20 Copynumber: 3.2 Consensus size: 19
22841261 TTATTGATAA
22841271 ATTTGCATGACTATTAATTT
1 ATTTGCATGA-TATTAATTT
*
22841291 ATTTGCATGATTTTTAATTT
1 ATTTGCATGA-TATTAATTT
* *
22841311 ATTTACATGATAATCAATTT
1 ATTTGCATGAT-ATTAATTT
22841331 ATTT
1 ATTT
22841335 ATTTGTGTGA
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
19 1 0.03
20 37 0.97
ACGTcount: A:0.31, C:0.08, G:0.08, T:0.53
Consensus pattern (19 bp):
ATTTGCATGATATTAATTT
Found at i:22841360 original size:3 final size:3
Alignment explanation
Indices: 22841352--22841394 Score: 77
Period size: 3 Copynumber: 14.0 Consensus size: 3
22841342 TGACTGCATG
22841352 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATAT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT-T ATT
22841395 TAATTGTGTG
Statistics
Matches: 39, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
3 36 0.92
4 3 0.08
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:22841438 original size:53 final size:53
Alignment explanation
Indices: 22841369--22841504 Score: 186
Period size: 53 Copynumber: 2.6 Consensus size: 53
22841359 TTATTATTAT
*
22841369 TATTATTATTAT-TATTATTATATATTTAATTGTGTG-TTTATTTGCATAATATA
1 TATTATTATT-TGTATTATTATATATTTAATTATG-GATTTATTTGCATAATATA
* *
22841422 TATTATTATTTGTATTATTATATATTTAATTATGGATTTATTTGCATGATTTA
1 TATTATTATTTGTATTATTATATATTTAATTATGGATTTATTTGCATAATATA
* * *
22841475 TATTATTATTTGCATGATTATGTATTTAAT
1 TATTATTATTTGTATTATTATATATTTAAT
22841505 AGCATGTTTT
Statistics
Matches: 75, Mismatches: 6, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
52 2 0.03
53 73 0.97
ACGTcount: A:0.31, C:0.02, G:0.09, T:0.58
Consensus pattern (53 bp):
TATTATTATTTGTATTATTATATATTTAATTATGGATTTATTTGCATAATATA
Found at i:22841483 original size:21 final size:21
Alignment explanation
Indices: 22841463--22841541 Score: 72
Period size: 21 Copynumber: 3.8 Consensus size: 21
22841453 ATGGATTTAT
*
22841463 TTGCATGATTTATATTATTAT
1 TTGCATGATTTATATTATTAA
*
22841484 TTGCATGA-TTAT-GTATTTAA
1 TTGCATGATTTATATTA-TTAA
* * *
22841504 TAGCATGTTTTACATTATTAA
1 TTGCATGATTTATATTATTAA
*
22841525 TTACATGATTATATATT
1 TTGCATGATT-TATATT
22841542 TAATTACATG
Statistics
Matches: 44, Mismatches: 10, Indels: 7
0.72 0.16 0.11
Matches are distributed among these distances:
19 2 0.05
20 13 0.30
21 22 0.50
22 7 0.16
ACGTcount: A:0.32, C:0.06, G:0.10, T:0.52
Consensus pattern (21 bp):
TTGCATGATTTATATTATTAA
Found at i:22841552 original size:41 final size:41
Alignment explanation
Indices: 22841457--22841552 Score: 113
Period size: 41 Copynumber: 2.3 Consensus size: 41
22841447 TTAATTATGG
* * * * * * *
22841457 ATTTATTTGCATGATTTATATTATTATTTGCATGATTATGT
1 ATTTAATTACATGTTTTACATTATTAATTACATGATTATAT
22841498 ATTTAA-TAGCATGTTTTACATTATTAATTACATGATTATAT
1 ATTTAATTA-CATGTTTTACATTATTAATTACATGATTATAT
22841539 ATTTAATTACATGT
1 ATTTAATTACATGT
22841553 CTATTTGTAT
Statistics
Matches: 46, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
40 1 0.02
41 43 0.93
42 2 0.04
ACGTcount: A:0.32, C:0.06, G:0.09, T:0.52
Consensus pattern (41 bp):
ATTTAATTACATGTTTTACATTATTAATTACATGATTATAT
Found at i:22841733 original size:21 final size:21
Alignment explanation
Indices: 22841707--22841746 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
22841697 ATCTGCATGA
22841707 TTATA-TATTTAATTGCATGTT
1 TTATATTA-TTAATTGCATGTT
22841728 TTATATTATTAATTGCATG
1 TTATATTATTAATTGCATG
22841747 ATTATAAACT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 16 0.89
22 2 0.11
ACGTcount: A:0.30, C:0.05, G:0.10, T:0.55
Consensus pattern (21 bp):
TTATATTATTAATTGCATGTT
Found at i:22841759 original size:20 final size:19
Alignment explanation
Indices: 22841700--22841762 Score: 72
Period size: 20 Copynumber: 3.1 Consensus size: 19
22841690 TATGTTTATC
22841700 TGCATGATTATATATTTAAT
1 TGCATGATTATATA-TTAAT
*
22841720 TGCATGTTTTATATTATTAAT
1 TGCATG-ATTATA-TATTAAT
*
22841741 TGCATGATTATAAACTTAAT
1 TGCATGATTATATA-TTAAT
22841761 TG
1 TG
22841763 TATGTCTATT
Statistics
Matches: 37, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
19 1 0.03
20 18 0.49
21 16 0.43
22 2 0.05
ACGTcount: A:0.33, C:0.06, G:0.11, T:0.49
Consensus pattern (19 bp):
TGCATGATTATATATTAAT
Found at i:22842056 original size:20 final size:21
Alignment explanation
Indices: 22842025--22842064 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
22842015 GGCATTTTAT
*
22842025 ATTATAATATATTTGTATGAC
1 ATTATAATATATTTATATGAC
22842046 ATTAT-ATATATTTATATGA
1 ATTATAATATATTTATATGA
22842065 TTACTATTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 13 0.72
21 5 0.28
ACGTcount: A:0.40, C:0.03, G:0.07, T:0.50
Consensus pattern (21 bp):
ATTATAATATATTTATATGAC
Found at i:22842121 original size:26 final size:26
Alignment explanation
Indices: 22842086--22842162 Score: 106
Period size: 26 Copynumber: 3.0 Consensus size: 26
22842076 ATTGCAAAAA
22842086 TTATG-TATAATTGCATGAATAATTT
1 TTATGATATAATTGCATGAATAATTT
22842111 TTATGATATAATTGCATGATATAA-TT
1 TTATGATATAATTGCATGA-ATAATTT
* *
22842137 TTATAATATATTTGCATG-ATAATTT
1 TTATGATATAATTGCATGAATAATTT
22842162 T
1 T
22842163 AGCATTGTAT
Statistics
Matches: 47, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
24 4 0.09
25 8 0.17
26 31 0.66
27 4 0.09
ACGTcount: A:0.36, C:0.04, G:0.10, T:0.49
Consensus pattern (26 bp):
TTATGATATAATTGCATGAATAATTT
Found at i:22842129 original size:13 final size:13
Alignment explanation
Indices: 22842091--22842157 Score: 64
Period size: 13 Copynumber: 5.2 Consensus size: 13
22842081 AAAAATTATG
22842091 TATAATTGCATGA
1 TATAATTGCATGA
**
22842104 -ATAATTTTTATGA
1 TATAA-TTGCATGA
22842117 TATAATTGCATGA
1 TATAATTGCATGA
** *
22842130 TATAATTTTATAA
1 TATAATTGCATGA
*
22842143 TATATTTGCATGA
1 TATAATTGCATGA
22842156 TA
1 TA
22842158 ATTTTAGCAT
Statistics
Matches: 41, Mismatches: 11, Indels: 4
0.73 0.20 0.07
Matches are distributed among these distances:
12 4 0.10
13 33 0.80
14 4 0.10
ACGTcount: A:0.39, C:0.04, G:0.10, T:0.46
Consensus pattern (13 bp):
TATAATTGCATGA
Found at i:22844256 original size:22 final size:21
Alignment explanation
Indices: 22844231--22844271 Score: 64
Period size: 22 Copynumber: 1.9 Consensus size: 21
22844221 TACATGTATA
*
22844231 ATAAAAATTATAATATAAATAT
1 ATAAAAATAATAA-ATAAATAT
22844253 ATAAAAATAATAAATAAAT
1 ATAAAAATAATAAATAAAT
22844272 CAAGTTAACA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 6 0.33
22 12 0.67
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (21 bp):
ATAAAAATAATAAATAAATAT
Found at i:22845710 original size:27 final size:27
Alignment explanation
Indices: 22845680--22845734 Score: 76
Period size: 27 Copynumber: 2.0 Consensus size: 27
22845670 AATTTAAAAA
*
22845680 AATATTAAAAACAT-ATATTACAAATAT
1 AATAATAAAAACATAATATT-CAAATAT
*
22845707 AATAATAAAAACATAATATTTAAATAT
1 AATAATAAAAACATAATATTCAAATAT
22845734 A
1 A
22845735 TCCACGTTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
27 20 0.80
28 5 0.20
ACGTcount: A:0.62, C:0.05, G:0.00, T:0.33
Consensus pattern (27 bp):
AATAATAAAAACATAATATTCAAATAT
Found at i:22845724 original size:14 final size:14
Alignment explanation
Indices: 22845680--22845726 Score: 60
Period size: 14 Copynumber: 3.4 Consensus size: 14
22845670 AATTTAAAAA
22845680 AATATTAAAAACAT
1 AATATTAAAAACAT
* *
22845694 -ATATTACAAATAT
1 AATATTAAAAACAT
*
22845707 AATAATAAAAACAT
1 AATATTAAAAACAT
22845721 AATATT
1 AATATT
22845727 TAAATATATC
Statistics
Matches: 26, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
13 11 0.42
14 15 0.58
ACGTcount: A:0.62, C:0.06, G:0.00, T:0.32
Consensus pattern (14 bp):
AATATTAAAAACAT
Found at i:22847900 original size:17 final size:17
Alignment explanation
Indices: 22847874--22847914 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
22847864 AATATGAAAA
*
22847874 TTATATAATTAAAAATT
1 TTATAAAATTAAAAATT
* *
22847891 TTATAAAATTATATATT
1 TTATAAAATTAAAAATT
22847908 TTATAAA
1 TTATAAA
22847915 TATATTTTAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (17 bp):
TTATAAAATTAAAAATT
Found at i:22850250 original size:2 final size:2
Alignment explanation
Indices: 22850243--22850272 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
22850233 GACATGATAG
22850243 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
22850273 AGTAAATTGA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:22856884 original size:26 final size:26
Alignment explanation
Indices: 22856827--22856886 Score: 68
Period size: 26 Copynumber: 2.3 Consensus size: 26
22856817 ACATGATATT
* * * *
22856827 ATTTAAA-ATTATATTTTATATTTTA
1 ATTTAAATATAATATTTTAAAGTTAA
*
22856852 ATATAAATATAATATTTTAAAGTTAA
1 ATTTAAATATAATATTTTAAAGTTAA
22856878 ATTTAAATA
1 ATTTAAATA
22856887 AAAATAATTT
Statistics
Matches: 28, Mismatches: 6, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
25 6 0.21
26 22 0.79
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (26 bp):
ATTTAAATATAATATTTTAAAGTTAA
Found at i:22858640 original size:8 final size:7
Alignment explanation
Indices: 22858623--22858663 Score: 50
Period size: 8 Copynumber: 5.9 Consensus size: 7
22858613 AAATTTTTTT
22858623 TTAAAAA
1 TTAAAAA
22858630 TTAATAAA
1 TTAA-AAA
22858638 TT-AAAA
1 TTAAAAA
22858644 -TAAAAA
1 TTAAAAA
22858650 TTAATAAA
1 TTAA-AAA
22858658 TTAAAA
1 TTAAAA
22858664 GATCTCATCA
Statistics
Matches: 30, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
5 1 0.03
6 7 0.23
7 10 0.33
8 12 0.40
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (7 bp):
TTAAAAA
Found at i:22858649 original size:20 final size:20
Alignment explanation
Indices: 22858624--22858663 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
22858614 AATTTTTTTT
22858624 TAAAAATTAATAAATTAAAA
1 TAAAAATTAATAAATTAAAA
22858644 TAAAAATTAATAAATTAAAA
1 TAAAAATTAATAAATTAAAA
22858664 GATCTCATCA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (20 bp):
TAAAAATTAATAAATTAAAA
Found at i:22858755 original size:26 final size:28
Alignment explanation
Indices: 22858712--22858764 Score: 67
Period size: 26 Copynumber: 2.0 Consensus size: 28
22858702 TTTTAATAAA
*
22858712 TTTTGATATATTTATTAA-A-TAAATAT
1 TTTTGATAAATTTATTAATATTAAATAT
22858738 TTTTGATAAAATTT-TTAATATTAAATA
1 TTTTGAT-AAATTTATTAATATTAAATA
22858765 AATATTAATT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
26 11 0.48
27 6 0.26
28 6 0.26
ACGTcount: A:0.43, C:0.00, G:0.04, T:0.53
Consensus pattern (28 bp):
TTTTGATAAATTTATTAATATTAAATAT
Found at i:22858812 original size:13 final size:12
Alignment explanation
Indices: 22858787--22858811 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
22858777 ATTTAAATTA
22858787 TAAATAATTTTT
1 TAAATAATTTTT
22858799 TAAATAATTTTT
1 TAAATAATTTTT
22858811 T
1 T
22858812 TTACATATTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (12 bp):
TAAATAATTTTT
Found at i:22860340 original size:9 final size:9
Alignment explanation
Indices: 22860326--22860355 Score: 51
Period size: 9 Copynumber: 3.2 Consensus size: 9
22860316 GATACTTTAT
22860326 TAATTAAAA
1 TAATTAAAA
22860335 TAATTAAAA
1 TAATTAAAA
22860344 TATATTAAAA
1 TA-ATTAAAA
22860354 TA
1 TA
22860356 TAAAAATTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 11 0.55
10 9 0.45
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (9 bp):
TAATTAAAA
Found at i:22860352 original size:10 final size:10
Alignment explanation
Indices: 22860328--22860357 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
22860318 TACTTTATTA
22860328 ATTAAAATA-
1 ATTAAAATAT
22860337 ATTAAAATAT
1 ATTAAAATAT
22860347 ATTAAAATAT
1 ATTAAAATAT
22860357 A
1 A
22860358 AAAATTTAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 9 0.45
10 11 0.55
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (10 bp):
ATTAAAATAT
Found at i:22860369 original size:19 final size:20
Alignment explanation
Indices: 22860325--22860369 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 20
22860315 AGATACTTTA
*
22860325 TTAATTAAAATAATTAAAAT
1 TTAATTAAAATAATAAAAAT
*
22860345 AT-ATTAAAAT-ATAAAAAT
1 TTAATTAAAATAATAAAAAT
22860363 TTAATTA
1 TTAATTA
22860370 CACTTATAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 3
0.78 0.11 0.11
Matches are distributed among these distances:
18 8 0.38
19 12 0.57
20 1 0.05
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (20 bp):
TTAATTAAAATAATAAAAAT
Found at i:22861602 original size:20 final size:20
Alignment explanation
Indices: 22861552--22861603 Score: 68
Period size: 20 Copynumber: 2.6 Consensus size: 20
22861542 ATTGAAATAA
* *
22861552 AATATTTTTAAATTTTAAGT
1 AATAATTTTAAATTTTAAAT
**
22861572 AATAAAATTAAATTTTAAAT
1 AATAATTTTAAATTTTAAAT
22861592 AATAATTTTAAA
1 AATAATTTTAAA
22861604 AATTTGTAGT
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (20 bp):
AATAATTTTAAATTTTAAAT
Found at i:22862047 original size:71 final size:71
Alignment explanation
Indices: 22861970--22862132 Score: 163
Period size: 71 Copynumber: 2.2 Consensus size: 71
22861960 TTTAAATGAC
* * *
22861970 ATATATTTAAATTATTAAGAAA-TTCATTTT-ATAATAT-CATTACATTTGAGATTTTTAAGTTT
1 ATATATTTAAATTATTAAGAAACTT-ATTTTAATAATATACATTACATTTGAAAATTTTAA-ATT
22862032 AAAAAAGAT
64 AAAAAA-AT
* *
22862041 ATATATTTACAA-TATTATGAAACTTATTTTAAAAGATAATATAACATTATATTTGAAAATTTTA
1 ATATATTTA-AATTATTAAGAAACTTATTTT---A-ATAATAT-ACATTACATTTGAAAATTTTA
*
22862105 AATTGAAAAAAT
60 AATTAAAAAAAT
22862117 ATATATTTAAATTATT
1 ATATATTTAAATTATT
22862133 TGGAAATACG
Statistics
Matches: 76, Mismatches: 6, Indels: 15
0.78 0.06 0.15
Matches are distributed among these distances:
71 23 0.30
72 4 0.05
75 2 0.03
76 22 0.29
77 7 0.09
78 18 0.24
ACGTcount: A:0.47, C:0.04, G:0.06, T:0.44
Consensus pattern (71 bp):
ATATATTTAAATTATTAAGAAACTTATTTTAATAATATACATTACATTTGAAAATTTTAAATTAA
AAAAAT
Found at i:22862413 original size:13 final size:12
Alignment explanation
Indices: 22862387--22862462 Score: 64
Period size: 13 Copynumber: 5.9 Consensus size: 12
22862377 TTTATCAAAT
22862387 TTATATATATATA
1 TTATATATA-ATA
22862400 TTATAATATAATA
1 TTAT-ATATAATA
* *
22862413 TTATATATCATGT
1 TTATATATAAT-A
*
22862426 TTATAAATGTAA-A
1 TTAT--ATATAATA
22862439 TTATAATATAATA
1 TTAT-ATATAATA
22862452 TTATATATAAT
1 TTATATATAAT
22862463 GCAAATATAA
Statistics
Matches: 52, Mismatches: 6, Indels: 11
0.75 0.09 0.16
Matches are distributed among these distances:
12 19 0.37
13 24 0.46
14 5 0.10
15 4 0.08
ACGTcount: A:0.47, C:0.01, G:0.03, T:0.49
Consensus pattern (12 bp):
TTATATATAATA
Found at i:22862441 original size:26 final size:26
Alignment explanation
Indices: 22862387--22862462 Score: 79
Period size: 26 Copynumber: 3.0 Consensus size: 26
22862377 TTTATCAAAT
22862387 TTATATATATATATTATAATATAATA
1 TTATATATATATATTATAATATAATA
* *
22862413 TTATATATCATGT-TTATAAATGTAA-A
1 TTATATAT-ATATATTAT-AATATAATA
22862439 TTATA-ATATAATATTAT-ATATAAT
1 TTATATATAT-ATATTATAATATAAT
22862463 GCAAATATAA
Statistics
Matches: 41, Mismatches: 4, Indels: 11
0.73 0.07 0.20
Matches are distributed among these distances:
24 7 0.17
25 3 0.07
26 22 0.54
27 9 0.22
ACGTcount: A:0.47, C:0.01, G:0.03, T:0.49
Consensus pattern (26 bp):
TTATATATATATATTATAATATAATA
Found at i:22864704 original size:7 final size:7
Alignment explanation
Indices: 22864692--22864721 Score: 51
Period size: 7 Copynumber: 4.1 Consensus size: 7
22864682 TTCTTATAAG
22864692 TTTTTTA
1 TTTTTTA
22864699 TTTTTTA
1 TTTTTTA
22864706 TTTATTTA
1 TTT-TTTA
22864714 TTTTTTA
1 TTTTTTA
22864721 T
1 T
22864722 GCCTGCTGTA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
7 15 0.68
8 7 0.32
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (7 bp):
TTTTTTA
Found at i:22868751 original size:28 final size:29
Alignment explanation
Indices: 22868689--22868757 Score: 72
Period size: 28 Copynumber: 2.4 Consensus size: 29
22868679 ATTAATGAAA
*
22868689 TATTAAATGTGATATTTAAATTAAAAAGTT
1 TATT-AATGTAATATTTAAATTAAAAAGTT
* **
22868719 T-TTAATGTAATATTTGAATTTTAAA-TT
1 TATTAATGTAATATTTAAATTAAAAAGTT
22868746 TATTAAT-TAATA
1 TATTAATGTAATA
22868758 ATATGATTAA
Statistics
Matches: 34, Mismatches: 4, Indels: 5
0.79 0.09 0.12
Matches are distributed among these distances:
27 8 0.24
28 23 0.68
29 2 0.06
30 1 0.03
ACGTcount: A:0.43, C:0.00, G:0.07, T:0.49
Consensus pattern (29 bp):
TATTAATGTAATATTTAAATTAAAAAGTT
Found at i:22881269 original size:17 final size:17
Alignment explanation
Indices: 22881244--22881279 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
22881234 AGCCGAGCCG
* *
22881244 TTTTGGTATTTTTTTTA
1 TTTTAGTATTTTATTTA
22881261 TTTTAGTATTTTATTTA
1 TTTTAGTATTTTATTTA
22881278 TT
1 TT
22881280 CATTTATTTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.17, C:0.00, G:0.08, T:0.75
Consensus pattern (17 bp):
TTTTAGTATTTTATTTA
Found at i:22881412 original size:25 final size:24
Alignment explanation
Indices: 22881384--22881431 Score: 60
Period size: 25 Copynumber: 2.0 Consensus size: 24
22881374 AATAAATACT
*
22881384 AATTATCCAATGATAGAATTTTTAA
1 AATTATCAAATGATA-AATTTTTAA
* *
22881409 AATTTTCAAATGGTAAATTTTTA
1 AATTATCAAATGATAAATTTTTA
22881432 TAAAATTTTT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
24 8 0.40
25 12 0.60
ACGTcount: A:0.42, C:0.06, G:0.08, T:0.44
Consensus pattern (24 bp):
AATTATCAAATGATAAATTTTTAA
Found at i:22897746 original size:98 final size:95
Alignment explanation
Indices: 22897636--22897943 Score: 319
Period size: 98 Copynumber: 3.1 Consensus size: 95
22897626 AGAAAAAATA
* * * *
22897636 AAATTTTTAAAGTTATTGAGCCTCTGCTCAGAGGAGTTTTTTCAAAATGAAATTTTAAAGTTATT
1 AAATTTTTAAAGTTGTTGAACCTCTGCTTAGAGGAG-TTTTTCAAGATGAAATTTTAAAGTTATT
* *
22897701 GAGCCTCTACTTAGAAAAGTTTTTTCCAAGAT
65 GAGCCTCTA-TTAGAGAAGTCTTTTCCAAGAT
* * * *
22897733 AAAATTTTTAAAGTTGTTGAACTTTTGCTTAGAAGAGTTTTTCTAAGATGAAATTTTTAAAGTTG
1 -AAATTTTTAAAGTTGTTGAACCTCTGCTTAGAGGAGTTTTTC-AAGATGAAA-TTTTAAAGTTA
* * *
22897798 TTGAGCCTTTGATTAGAGGAGCCTTTTCCAAGAT
63 TTGAGCCTCT-ATTAGAGAAGTCTTTTCCAAGAT
* * * * * * * * *
22897832 GAACTTTTAAAGTTGTTGAACCTCTGATTGGAAGAACCTTTTCCAAGATGGATTTTTAAAGTTAT
1 AAATTTTTAAAGTTGTTGAACCTCTGCTTAG-AGGA-GTTTTTCAAGATGAAATTTTAAAGTTAT
*
22897897 TGAGTCTCTAATTAGAGAAGTCTTTTCCAAGAT
64 TGAGCCTCT-ATTAGAGAAGTCTTTTCCAAGAT
*
22897930 GAATTTTTAAAGTT
1 AAATTTTTAAAGTT
22897944 TGTCATAACG
Statistics
Matches: 173, Mismatches: 32, Indels: 10
0.80 0.15 0.05
Matches are distributed among these distances:
97 6 0.03
98 115 0.66
99 46 0.27
100 6 0.03
ACGTcount: A:0.31, C:0.11, G:0.18, T:0.40
Consensus pattern (95 bp):
AAATTTTTAAAGTTGTTGAACCTCTGCTTAGAGGAGTTTTTCAAGATGAAATTTTAAAGTTATTG
AGCCTCTATTAGAGAAGTCTTTTCCAAGAT
Found at i:22897764 original size:50 final size:50
Alignment explanation
Indices: 22897633--22897943 Score: 258
Period size: 49 Copynumber: 6.3 Consensus size: 50
22897623 TCAAGAAAAA
* * * *
22897633 ATAAAATTTTTAAAGTTATTGAGCCTCTGCTCAGAGGAGTTTTTT-CAAA
1 ATAAAATTTTTAAAGTTGTTGAGCCTCTGCTTAGAAGAGTTTTTTCCAAG
* * * *
22897682 ATGAAA-TTTTAAAGTTATTGAGCCTCTACTTAGAAAAGTTTTTTCCAAG
1 ATAAAATTTTTAAAGTTGTTGAGCCTCTGCTTAGAAGAGTTTTTTCCAAG
* * * *
22897731 ATAAAATTTTTAAAGTTGTTGAACTTTTGCTTAGAAGAG-TTTTTCTAAG
1 ATAAAATTTTTAAAGTTGTTGAGCCTCTGCTTAGAAGAGTTTTTTCCAAG
* * * * **
22897780 ATGAAATTTTTAAAGTTGTTGAGCCTTTGATTAGAGGAGCCTTTTCCAAG
1 ATAAAATTTTTAAAGTTGTTGAGCCTCTGCTTAGAAGAGTTTTTTCCAAG
* * * * * ***
22897830 AT-GAACTTTTAAAGTTGTTGAACCTCTGATTGGAAGAACCTTTTCCAAG
1 ATAAAATTTTTAAAGTTGTTGAGCCTCTGCTTAGAAGAGTTTTTTCCAAG
** * * ** *
22897879 AT-GGATTTTTAAAGTTATTGAGTCTCTAATTAG-AGAAGTCTTTTCCAAG
1 ATAAAATTTTTAAAGTTGTTGAGCCTCTGCTTAGAAG-AGTTTTTTCCAAG
*
22897928 AT-GAATTTTTAAAGTT
1 ATAAAATTTTTAAAGTT
22897944 TGTCATAACG
Statistics
Matches: 220, Mismatches: 38, Indels: 8
0.83 0.14 0.03
Matches are distributed among these distances:
48 36 0.16
49 148 0.67
50 36 0.16
ACGTcount: A:0.32, C:0.11, G:0.17, T:0.40
Consensus pattern (50 bp):
ATAAAATTTTTAAAGTTGTTGAGCCTCTGCTTAGAAGAGTTTTTTCCAAG
Found at i:22897912 original size:147 final size:148
Alignment explanation
Indices: 22897636--22897943 Score: 333
Period size: 147 Copynumber: 2.1 Consensus size: 148
22897626 AGAAAAAATA
* * *
22897636 AAATTTTTAAAGTTATTGAGCCTCTGCTCAGAGGAGTTTTTTCAAAATGAAATTTTAAAGTTATT
1 AAATTTTTAAAGTTATTGAGCCTCTGATCAGAGGAGCTTTTCCAAAATGAAATTTTAAAGTTATT
* ** * * **
22897701 GAGCCTCTACTTAGAAAAGTTTTTTCCAAGATAAAATTTTTAAAGTTGTTGAACTTTTGCTTAGA
66 GAACCTCTACTTAGAAAAGCCTTTTCCAAGATAAAATTTTTAAAGTTATTGAACTTCTAATTAGA
*
22897766 -AGAGT-TTTTCTAAGATG
131 GA-AGTCTTTTCCAAGATG
* * * * * *
22897783 AAATTTTTAAAGTTGTTGAGCCTTTGATTAGAGGAGCCTTTTCCAAGATGAACTTTTAAAGTTGT
1 AAATTTTTAAAGTTATTGAGCCTCTGATCAGAGGAG-CTTTTCCAAAATGAAATTTTAAAGTTAT
* ** *
22897848 TGAACCTCTGA-TTGGAAGAA-CCTTTTCCAAGAT-GGATTTTTAAAGTTATTG-AGTCTCTAAT
65 TGAACCTCT-ACTTAGAA-AAGCCTTTTCCAAGATAAAATTTTTAAAGTTATTGAACT-TCTAAT
22897909 TAGAGAAGTCTTTTCCAAGATG
127 TAGAGAAGTCTTTTCCAAGATG
22897931 -AATTTTTAAAGTT
1 AAATTTTTAAAGTT
22897944 TGTCATAACG
Statistics
Matches: 134, Mismatches: 21, Indels: 12
0.80 0.13 0.07
Matches are distributed among these distances:
146 2 0.01
147 70 0.52
148 59 0.44
149 3 0.02
ACGTcount: A:0.31, C:0.11, G:0.18, T:0.40
Consensus pattern (148 bp):
AAATTTTTAAAGTTATTGAGCCTCTGATCAGAGGAGCTTTTCCAAAATGAAATTTTAAAGTTATT
GAACCTCTACTTAGAAAAGCCTTTTCCAAGATAAAATTTTTAAAGTTATTGAACTTCTAATTAGA
GAAGTCTTTTCCAAGATG
Found at i:22898597 original size:62 final size:59
Alignment explanation
Indices: 22898471--22898624 Score: 175
Period size: 62 Copynumber: 2.5 Consensus size: 59
22898461 AATGCCTTTA
* *
22898471 TTCAAGAAAAATTGATACTCTTAACTTTTCCTCAAAAAAATATTTTTTAAAAATTTTACC
1 TTCAAGAAAAATTGATACT-TTAACTTTTTCTCAAAAAAATATTTTTTAAAAATTTCACC
* * * **
22898531 TTCAA-AGCAAATTGGTACTTTCAACTTTTTCTCAAAAAAAAATATTTTTTGAAAATTTCATT
1 TTCAAGA-AAAATTGATACTTT-AACTTTTTCTC--AAAAAAATATTTTTTAAAAATTTCACC
*
22898593 TTCAAGAAAAATTAATACTTTTAACTTTTTCT
1 TTCAAGAAAAATTGATAC-TTTAACTTTTTCT
22898625 TGAAAATGTT
Statistics
Matches: 78, Mismatches: 10, Indels: 10
0.80 0.10 0.10
Matches are distributed among these distances:
59 3 0.04
60 25 0.32
62 46 0.59
63 4 0.05
ACGTcount: A:0.40, C:0.14, G:0.05, T:0.42
Consensus pattern (59 bp):
TTCAAGAAAAATTGATACTTTAACTTTTTCTCAAAAAAATATTTTTTAAAAATTTCACC
Found at i:22899822 original size:50 final size:50
Alignment explanation
Indices: 22899758--22899940 Score: 228
Period size: 49 Copynumber: 3.7 Consensus size: 50
22899748 AGGTGTCTAC
* **
22899758 AAAGTTATTGAGCCTCTAATTAGAAGAGCCTTTTCCAAGATGAAATTTTT
1 AAAGTTATTAAGCCTCTGCTTAGAAGAGCCTTTTCCAAGATGAAATTTTT
*
22899808 AAAGTTATTAAGCCTCTGCTTAAAAGAGCCTTTTCCAAGATG-AATTTTT
1 AAAGTTATTAAGCCTCTGCTTAGAAGAGCCTTTTCCAAGATGAAATTTTT
* * * * *
22899857 AAAGTTGTTAAGCCTTTGCTTAGAGGAG-CTTTTCCAAGATGAGATCTTT
1 AAAGTTATTAAGCCTCTGCTTAGAAGAGCCTTTTCCAAGATGAAATTTTT
* *
22899906 AAAGTTGTTGAA-CCTCTGCTTAGAGGAGCCCTTTT
1 AAAGTTATT-AAGCCTCTGCTTAGAAGAG-CCTTTT
22899941 AAAATATTCA
Statistics
Matches: 118, Mismatches: 11, Indels: 7
0.87 0.08 0.05
Matches are distributed among these distances:
48 13 0.11
49 60 0.51
50 40 0.34
51 5 0.04
ACGTcount: A:0.30, C:0.16, G:0.19, T:0.36
Consensus pattern (50 bp):
AAAGTTATTAAGCCTCTGCTTAGAAGAGCCTTTTCCAAGATGAAATTTTT
Found at i:22900224 original size:9 final size:9
Alignment explanation
Indices: 22900207--22900236 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
22900197 GTAAACATCA
22900207 TTTTATTAT
1 TTTTATTAT
*
22900216 TTTTTTTAT
1 TTTTATTAT
22900225 TTTTATTAT
1 TTTTATTAT
22900234 TTT
1 TTT
22900237 CTTTTTTTTG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (9 bp):
TTTTATTAT
Found at i:22900230 original size:18 final size:18
Alignment explanation
Indices: 22900207--22900245 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
22900197 GTAAACATCA
22900207 TTTTATTATTTT-TTTTAT
1 TTTTATTATTTTCTTTT-T
22900225 TTTTATTATTTTCTTTTT
1 TTTTATTATTTTCTTTTT
22900243 TTT
1 TTT
22900246 GTCACCTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
18 16 0.80
19 4 0.20
ACGTcount: A:0.13, C:0.03, G:0.00, T:0.85
Consensus pattern (18 bp):
TTTTATTATTTTCTTTTT
Found at i:22901374 original size:17 final size:16
Alignment explanation
Indices: 22901354--22901388 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
22901344 ATAAGATAAT
22901354 AATAATTAAAAATAAAA
1 AATAA-TAAAAATAAAA
*
22901371 AATAATACAAATAAAA
1 AATAATAAAAATAAAA
22901387 AA
1 AA
22901389 ATAAAAAATG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 12 0.71
17 5 0.29
ACGTcount: A:0.77, C:0.03, G:0.00, T:0.20
Consensus pattern (16 bp):
AATAATAAAAATAAAA
Found at i:22906330 original size:8 final size:8
Alignment explanation
Indices: 22906317--22906397 Score: 75
Period size: 8 Copynumber: 10.8 Consensus size: 8
22906307 ATAGTGAATG
22906317 AAAAAATT
1 AAAAAATT
22906325 AAAAAATT
1 AAAAAATT
22906333 AAAAAAATT
1 -AAAAAATT
22906342 -AAAAA-T
1 AAAAAATT
*
22906348 GAAAAA--
1 AAAAAATT
22906354 AAAAAATT
1 AAAAAATT
*
22906362 AAAAAATG
1 AAAAAATT
22906370 AAAAAA-T
1 AAAAAATT
*
22906377 GAAAAA-T
1 AAAAAATT
*
22906384 AAAAAATG
1 AAAAAATT
22906392 AAAAAA
1 AAAAAA
22906398 AAAAAATGAA
Statistics
Matches: 62, Mismatches: 6, Indels: 10
0.79 0.08 0.13
Matches are distributed among these distances:
6 6 0.10
7 21 0.34
8 27 0.44
9 8 0.13
ACGTcount: A:0.79, C:0.00, G:0.05, T:0.16
Consensus pattern (8 bp):
AAAAAATT
Found at i:22906336 original size:7 final size:7
Alignment explanation
Indices: 22906318--22906396 Score: 52
Period size: 7 Copynumber: 10.7 Consensus size: 7
22906308 TAGTGAATGA
22906318 AAAAATT
1 AAAAATT
22906325 AAAAAATT
1 -AAAAATT
22906333 AAAAAAATT
1 --AAAAATT
*
22906342 AAAAATG
1 AAAAATT
*
22906349 AAAAA-A
1 AAAAATT
22906355 AAAAATT
1 AAAAATT
*
22906362 AAAAAATGA
1 -AAAAAT-T
*
22906371 AAAAATG
1 AAAAATT
*
22906378 AAAAATA
1 AAAAATT
*
22906385 AAAAATG
1 AAAAATT
22906392 AAAAA
1 AAAAA
22906397 AAAAAAATGA
Statistics
Matches: 60, Mismatches: 7, Indels: 9
0.79 0.09 0.12
Matches are distributed among these distances:
6 5 0.08
7 28 0.47
8 19 0.32
9 8 0.13
ACGTcount: A:0.78, C:0.00, G:0.05, T:0.16
Consensus pattern (7 bp):
AAAAATT
Found at i:22906337 original size:9 final size:9
Alignment explanation
Indices: 22906317--22906367 Score: 59
Period size: 9 Copynumber: 5.6 Consensus size: 9
22906307 ATAGTGAATG
22906317 AAAAAATT-
1 AAAAAATTA
22906325 AAAAAATTA
1 AAAAAATTA
22906334 AAAAAATTA
1 AAAAAATTA
**
22906343 AAAATGAAAAA
1 AAAA--AATTA
22906354 AAAAAATTA
1 AAAAAATTA
22906363 AAAAA
1 AAAAA
22906368 TGAAAAAATG
Statistics
Matches: 36, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
8 8 0.22
9 21 0.58
11 7 0.19
ACGTcount: A:0.80, C:0.00, G:0.02, T:0.18
Consensus pattern (9 bp):
AAAAAATTA
Found at i:22906343 original size:36 final size:37
Alignment explanation
Indices: 22906317--22906408 Score: 118
Period size: 37 Copynumber: 2.5 Consensus size: 37
22906307 ATAGTGAATG
*
22906317 AAAAAATTAAAAAATTAAAAAAATTAAAAATGAAAAA
1 AAAAAATTAAAAAATGAAAAAAATTAAAAATGAAAAA
*
22906354 AAAAAATTAAAAAATG-AAAAAATGAAAAAT-AAAAA
1 AAAAAATTAAAAAATGAAAAAAATTAAAAATGAAAAA
*
22906389 ATGAAAAA-AAAAAAATGAAA
1 A--AAAAATTAAAAAATGAAA
22906409 CATTGTAAAA
Statistics
Matches: 49, Mismatches: 3, Indels: 6
0.84 0.05 0.10
Matches are distributed among these distances:
35 6 0.12
36 21 0.43
37 22 0.45
ACGTcount: A:0.79, C:0.00, G:0.05, T:0.15
Consensus pattern (37 bp):
AAAAAATTAAAAAATGAAAAAAATTAAAAATGAAAAA
Found at i:22906352 original size:14 final size:14
Alignment explanation
Indices: 22906335--22906408 Score: 96
Period size: 14 Copynumber: 5.2 Consensus size: 14
22906325 AAAAAATTAA
*
22906335 AAAAATTAAAAATG
1 AAAAATAAAAAATG
*
22906349 AAAAA-AAAAAATTA
1 AAAAATAAAAAA-TG
22906363 AAAAATGAAAAAATG
1 AAAAAT-AAAAAATG
22906378 AAAAATAAAAAATG
1 AAAAATAAAAAATG
*
22906392 AAAAAAAAAAAATG
1 AAAAATAAAAAATG
22906406 AAA
1 AAA
22906409 CATTGTAAAA
Statistics
Matches: 53, Mismatches: 4, Indels: 6
0.84 0.06 0.10
Matches are distributed among these distances:
13 5 0.09
14 35 0.66
15 7 0.13
16 6 0.11
ACGTcount: A:0.80, C:0.00, G:0.07, T:0.14
Consensus pattern (14 bp):
AAAAATAAAAAATG
Found at i:22906363 original size:29 final size:29
Alignment explanation
Indices: 22906313--22906408 Score: 117
Period size: 29 Copynumber: 3.2 Consensus size: 29
22906303 ATTAATAGTG
22906313 AATGAAAAAATTAAAAAATTAAAAAAATTAAA
1 AATG-AAAAA-TAAAAAATTAAAAAAA-TAAA
22906345 AATGAAAAA-AAAAAATT-AAAAAATGAAAA
1 AATGAAAAATAAAAAATTAAAAAAAT--AAA
*
22906374 AATGAAAAATAAAAAATGAAAAAAA-AAA
1 AATGAAAAATAAAAAATTAAAAAAATAAA
22906402 AATGAAA
1 AATGAAA
22906409 CATTGTAAAA
Statistics
Matches: 59, Mismatches: 1, Indels: 12
0.82 0.01 0.17
Matches are distributed among these distances:
27 1 0.02
28 16 0.27
29 20 0.34
30 7 0.12
31 11 0.19
32 4 0.07
ACGTcount: A:0.78, C:0.00, G:0.06, T:0.16
Consensus pattern (29 bp):
AATGAAAAATAAAAAATTAAAAAAATAAA
Found at i:22906364 original size:37 final size:35
Alignment explanation
Indices: 22906317--22906389 Score: 110
Period size: 36 Copynumber: 2.0 Consensus size: 35
22906307 ATAGTGAATG
*
22906317 AAAAAATTAAAAAATTAAAAAAATTAAAAATGAAAAA
1 AAAAAATTAAAAAA-TAAAAAAATGAAAAAT-AAAAA
*
22906354 AAAAAATTAAAAAATGAAAAAATGAAAAATAAAAA
1 AAAAAATTAAAAAATAAAAAAATGAAAAATAAAAA
22906389 A
1 A
22906390 TGAAAAAAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
35 6 0.18
36 14 0.41
37 14 0.41
ACGTcount: A:0.79, C:0.00, G:0.04, T:0.16
Consensus pattern (35 bp):
AAAAAATTAAAAAATAAAAAAATGAAAAATAAAAA
Found at i:22906423 original size:43 final size:43
Alignment explanation
Indices: 22906313--22906408 Score: 129
Period size: 44 Copynumber: 2.2 Consensus size: 43
22906303 ATTAATAGTG
* * *
22906313 AATGAAAAAATTAAAAAATTAAAAAAATTAAAAATGAAAAAAAAA
1 AATGAAAAAATGAAAAAA-T-GAAAAATAAAAAATGAAAAAAAAA
*
22906358 AATTAAAAAATGAAAAAATGAAAAATAAAAAATGAAAAAAAAAA
1 AATGAAAAAATGAAAAAATGAAAAATAAAAAATG-AAAAAAAAA
22906402 AATGAAA
1 AATGAAA
22906409 CATTGTAAAA
Statistics
Matches: 45, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
43 13 0.29
44 16 0.36
45 16 0.36
ACGTcount: A:0.78, C:0.00, G:0.06, T:0.16
Consensus pattern (43 bp):
AATGAAAAAATGAAAAAATGAAAAATAAAAAATGAAAAAAAAA
Found at i:22906947 original size:19 final size:19
Alignment explanation
Indices: 22906915--22906953 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
22906905 AGATGATAGG
*
22906915 GGTAAAAAAATGAAGAGAT
1 GGTAAAAAAATGAAAAGAT
**
22906934 GGTAAAAACTTGAAAAGAT
1 GGTAAAAAAATGAAAAGAT
22906953 G
1 G
22906954 ATTTGAAATG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.54, C:0.03, G:0.26, T:0.18
Consensus pattern (19 bp):
GGTAAAAAAATGAAAAGAT
Found at i:22907901 original size:89 final size:85
Alignment explanation
Indices: 22907790--22908113 Score: 321
Period size: 89 Copynumber: 3.7 Consensus size: 85
22907780 CTGATTAGAT
* * * **
22907790 GAGCGTTATTT-TTTTTCAAAGTCATGAACCTCTGTTTAAAGGAACCTTATTTATTTTTCGTAGT
1 GAGCTTTATTTATTTTTAAAAGTCTTGAACCTCTGTTTAAAGGAACCTTATTTATTTTTCAAAGT
*
22907854 TGTTAAGCCTCTGTTTAAAG
66 TGTTGAGCCTCTGTTTAAAG
* * *
22907874 GAGTCTTATTTATTTATTTTTAAAAGTCTTGAGCCTCTGTTTAGAGAAACCTTATTTA-TTTTCA
1 GAG-C---TTTATTTATTTTTAAAAGTCTTGAACCTCTGTTTAAAGGAACCTTATTTATTTTTC-
* * *
22907938 AAAATTGTTGAGTCTCTATTTAGAA-
61 AAAGTTGTTGAGCCTCTGTTTA-AAG
* * * * * * *
22907963 GAGCCTTATTTATTTGTAAAAGTCGTGGAGCCTCTGTTTAGATGAGCCTTATTTATTTTTCAAAG
1 GAGCTTTATTTATTTTTAAAAGTC-TTGAACCTCTGTTTAAAGGAACCTTATTTATTTTTCAAAG
* * *
22908028 TTGTTGAGCTTCTGCTTATAG
65 TTGTTGAGCCTCTGTTTAAAG
* * *
22908049 GAGCTTTATTTATTTTTTAAAAGTCGTTGAACCTCTGCTTAAAGGAGCTTTATTTATTTTTCAAA
1 GAGCTTTATTTA-TTTTTAAAAGTC-TTGAACCTCTGTTTAAAGGAACCTTATTTATTTTTCAAA
22908114 TTCATAAGCC
Statistics
Matches: 197, Mismatches: 32, Indels: 19
0.79 0.13 0.08
Matches are distributed among these distances:
84 3 0.02
85 20 0.10
86 54 0.27
87 50 0.25
88 12 0.06
89 56 0.28
90 2 0.01
ACGTcount: A:0.26, C:0.13, G:0.16, T:0.45
Consensus pattern (85 bp):
GAGCTTTATTTATTTTTAAAAGTCTTGAACCTCTGTTTAAAGGAACCTTATTTATTTTTCAAAGT
TGTTGAGCCTCTGTTTAAAG
Found at i:22908032 original size:86 final size:85
Alignment explanation
Indices: 22907883--22908177 Score: 274
Period size: 86 Copynumber: 3.4 Consensus size: 85
22907873 GGAGTCTTAT
*
22907883 TTATTTATTTTTAAAAGTC-TTGAGCCTCTGTTTAGAGAAACCTTATTTA-TTTTCAAAAATTGT
1 TTATTTATTTTTAAAAGTCGTTGAGCCTCTGTTTAGAG-AGCCTTATTTATTTTTC-AAAATTGT
*
22907946 TGAG-TCTCTATTTAGAAGAGCC
64 TGAGCT-TCTACTTAGAAGAGCC
* * *
22907968 TTATTTATTTGTAAAAGTCGTGGAGCCTCTGTTTAGATGAGCCTTATTTATTTTTCAAAGTTGTT
1 TTATTTATTTTTAAAAGTCGTTGAGCCTCTGTTTAGA-GAGCCTTATTTATTTTTCAAAATTGTT
* * * *
22908033 GAGCTTCTGCTTATAGGAGCT
65 GAGCTTCTACTTAGAAGAGCC
* * * * **
22908054 TTATTTATTTTTTAAAAGTCGTTGAACCTCTGCTTAAAGGAGCTTTATTTATTTTTC-AAATTCA
1 TTATTTA-TTTTTAAAAGTCGTTGAGCCTCTGTTTAGA-GAGCCTTATTTATTTTTCAAAATTGT
* * * * *
22908118 TAAGCCTCTACTGAGAAAAGCT
64 TGAGCTTCTACTTAGAAGAGCC
* * * * *
22908140 TTAGTTATTTTTTAAAAGTTGTAGAGTCTTTGTTTAGA
1 TTATTTA-TTTTTAAAAGTCGTTGAGCCTCTGTTTAGA
22908178 AGAGTTTTTA
Statistics
Matches: 171, Mismatches: 34, Indels: 9
0.80 0.16 0.04
Matches are distributed among these distances:
85 18 0.11
86 104 0.61
87 49 0.29
ACGTcount: A:0.27, C:0.12, G:0.16, T:0.44
Consensus pattern (85 bp):
TTATTTATTTTTAAAAGTCGTTGAGCCTCTGTTTAGAGAGCCTTATTTATTTTTCAAAATTGTTG
AGCTTCTACTTAGAAGAGCC
Found at i:22908078 original size:44 final size:43
Alignment explanation
Indices: 22907779--22908109 Score: 272
Period size: 43 Copynumber: 7.7 Consensus size: 43
22907769 GTTATGAGAA
* * * * * *
22907779 TCTGATTAGATGAGCGTTATTT-TTTTTCAAAGTC-ATGAACC
1 TCTGTTTAGAGGAGCCTTATTTATTTTTAAAAGTCGTTGAGCC
* * *** * *
22907820 TCTGTTTAAAGGAACCTTATTTATTTTTCGTAGTTGTTAAGCC
1 TCTGTTTAGAGGAGCCTTATTTATTTTTAAAAGTCGTTGAGCC
* *
22907863 TCTGTTTAAAGGAGTCTTATTTATTTATTTTTAAAAGTC-TTGAGCC
1 TCTGTTTAGAGGAG-C---CTTATTTATTTTTAAAAGTCGTTGAGCC
* * * * * *
22907909 TCTGTTTAGAGAAACCTTATTTATTTTCAAAAATTGTTGAGTC
1 TCTGTTTAGAGGAGCCTTATTTATTTTTAAAAGTCGTTGAGCC
* * * *
22907952 TCTATTTAGAAGAGCCTTATTTATTTGTAAAAGTCGTGGAGCC
1 TCTGTTTAGAGGAGCCTTATTTATTTTTAAAAGTCGTTGAGCC
* * * *
22907995 TCTGTTTAGATGAGCCTTATTTATTTTTCAAAGTTGTTGAGCT
1 TCTGTTTAGAGGAGCCTTATTTATTTTTAAAAGTCGTTGAGCC
* * * *
22908038 TCTGCTTATAGGAGCTTTATTTATTTTTTAAAAGTCGTTGAACC
1 TCTGTTTAGAGGAGCCTTATTTA-TTTTTAAAAGTCGTTGAGCC
* * *
22908082 TCTGCTTAAAGGAGCTTTATTTATTTTT
1 TCTGTTTAGAGGAGCCTTATTTATTTTT
22908110 CAAATTCATA
Statistics
Matches: 230, Mismatches: 52, Indels: 14
0.78 0.18 0.05
Matches are distributed among these distances:
41 17 0.07
42 25 0.11
43 116 0.50
44 39 0.17
45 1 0.00
46 17 0.07
47 15 0.07
ACGTcount: A:0.25, C:0.13, G:0.17, T:0.45
Consensus pattern (43 bp):
TCTGTTTAGAGGAGCCTTATTTATTTTTAAAAGTCGTTGAGCC
Done.