Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009001.1 Hibiscus syriacus cultivar Beakdansim tig00112383_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 4740655
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 24
Found at i:3887 original size:20 final size:20
Alignment explanation
Indices: 3845--3893 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 20
3835 TTAACTTTTC
*
3845 TTTTATCTTTCATTATTCAT
1 TTTTATCTTTCATTATTAAT
* *
3865 TTTTCTCTTTCATT-TTAAC
1 TTTTATCTTTCATTATTAAT
*
3884 TTTTACCTTT
1 TTTTATCTTT
3894 TCTCTTTCTT
Statistics
Matches: 24, Mismatches: 5, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
19 11 0.46
20 13 0.54
ACGTcount: A:0.16, C:0.18, G:0.00, T:0.65
Consensus pattern (20 bp):
TTTTATCTTTCATTATTAAT
Found at i:16571 original size:9 final size:9
Alignment explanation
Indices: 16557--16604 Score: 64
Period size: 9 Copynumber: 5.6 Consensus size: 9
16547 CCTAAATTAA
*
16557 AAAAAAGGG
1 AAAAAAGAG
16566 AAAAAAGAG
1 AAAAAAGAG
16575 AAAAAAGAG
1 AAAAAAGAG
16584 AAAAAAGA-
1 AAAAAAGAG
*
16592 ACAAAAG-G
1 AAAAAAGAG
16600 AAAAA
1 AAAAA
16605 GAAAAATAAG
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
8 10 0.29
9 25 0.71
ACGTcount: A:0.77, C:0.02, G:0.21, T:0.00
Consensus pattern (9 bp):
AAAAAAGAG
Found at i:16580 original size:18 final size:17
Alignment explanation
Indices: 16556--16615 Score: 70
Period size: 18 Copynumber: 3.5 Consensus size: 17
16546 CCCTAAATTA
16556 AAAAAAAGGGAAAAAAG
1 AAAAAAAGGGAAAAAAG
*
16573 AGAAAAAAGAGAAAAAAG
1 A-AAAAAAGGGAAAAAAG
*
16591 AACAAAA-GG-AAAAAG
1 AAAAAAAGGGAAAAAAG
16606 AAAAATAAGG
1 AAAAA-AAGG
16616 CAGGTTCAAG
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
15 10 0.28
16 3 0.08
17 7 0.19
18 16 0.44
ACGTcount: A:0.75, C:0.02, G:0.22, T:0.02
Consensus pattern (17 bp):
AAAAAAAGGGAAAAAAG
Found at i:16587 original size:16 final size:14
Alignment explanation
Indices: 16568--16610 Score: 50
Period size: 17 Copynumber: 2.8 Consensus size: 14
16558 AAAAAGGGAA
16568 AAAAGAGAAAAAAGAG
1 AAAA-AGAAAAAAG-G
16584 AAAAAAGAACAAAAGG
1 -AAAAAGAA-AAAAGG
16600 AAAAAGAAAAA
1 AAAAAGAAAAA
16611 TAAGGCAGGT
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
14 3 0.12
15 8 0.32
16 5 0.20
17 9 0.36
ACGTcount: A:0.79, C:0.02, G:0.19, T:0.00
Consensus pattern (14 bp):
AAAAAGAAAAAAGG
Found at i:20031 original size:43 final size:44
Alignment explanation
Indices: 19901--20009 Score: 116
Period size: 45 Copynumber: 2.4 Consensus size: 44
19891 ATTATTTTCG
* *
19901 ATATATATATATAT-TACGTTTTATTAGTTT--TATTATTATTAGTATT
1 ATATATATATATATATACATATTA-TA-TTTCCTATT-TTATT--TATT
*
19947 ATATATATATATATATACATAATTATATTTCCTATTTTATTTCTT
1 ATATATATATATATATACAT-ATTATATTTCCTATTTTATTTATT
19992 ATATATATATATATATAC
1 ATATATATATATATATAC
20010 TTTTGGTTTT
Statistics
Matches: 56, Mismatches: 3, Indels: 9
0.82 0.04 0.13
Matches are distributed among these distances:
45 21 0.38
46 17 0.30
47 11 0.20
48 7 0.12
ACGTcount: A:0.37, C:0.06, G:0.03, T:0.55
Consensus pattern (44 bp):
ATATATATATATATATACATATTATATTTCCTATTTTATTTATT
Found at i:20054 original size:2 final size:2
Alignment explanation
Indices: 20047--20082 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
20037 TATTTTACCT
20047 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
20083 CTTTTTTTAT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:20120 original size:13 final size:12
Alignment explanation
Indices: 20104--20155 Score: 52
Period size: 13 Copynumber: 4.2 Consensus size: 12
20094 TTTTATTTAC
20104 TTATTTATCTATT
1 TTATTT-TCTATT
20117 TTATTTT-TATTT
1 TTATTTTCTA-TT
*
20129 TTATTCTCTATT
1 TTATTTTCTATT
*
20141 TTATCTTTTTATT
1 TTAT-TTTCTATT
20154 TT
1 TT
20156 CCTTTTATTT
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
11 2 0.06
12 15 0.45
13 16 0.48
ACGTcount: A:0.17, C:0.08, G:0.00, T:0.75
Consensus pattern (12 bp):
TTATTTTCTATT
Found at i:20144 original size:33 final size:33
Alignment explanation
Indices: 20086--20155 Score: 92
Period size: 32 Copynumber: 2.1 Consensus size: 33
20076 ATATATACTT
20086 TTTTTATATTTTATTTACTTATTTATCTATTTTA
1 TTTTTATATTTTATTTACTTATTTATCT-TTTTA
20120 TTTTTAT-TTTTA-TT-CTCTATTTTATCTTTTTA
1 TTTTTATATTTTATTTACT-TA-TTTATCTTTTTA
20152 TTTT
1 TTTT
20156 CCTTTTATTT
Statistics
Matches: 34, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
31 2 0.06
32 13 0.38
33 12 0.35
34 7 0.21
ACGTcount: A:0.19, C:0.07, G:0.00, T:0.74
Consensus pattern (33 bp):
TTTTTATATTTTATTTACTTATTTATCTTTTTA
Found at i:20259 original size:9 final size:9
Alignment explanation
Indices: 20247--20309 Score: 51
Period size: 9 Copynumber: 7.0 Consensus size: 9
20237 ATTTTTCTTC
20247 ATTTTATTT
1 ATTTTATTT
20256 ATTTTATTT
1 ATTTTATTT
* *
20265 ATTCTATTC
1 ATTTTATTT
*
20274 ATTTT-TAT
1 ATTTTATTT
20282 A-TTTACTTT
1 ATTTTA-TTT
20291 ATTTTTATCTT
1 A-TTTTAT-TT
20302 A-TTTATTT
1 ATTTTATTT
20310 TTTATTACTT
Statistics
Matches: 43, Mismatches: 6, Indels: 11
0.72 0.10 0.18
Matches are distributed among these distances:
7 3 0.07
8 4 0.09
9 28 0.65
10 1 0.02
11 7 0.16
ACGTcount: A:0.22, C:0.06, G:0.00, T:0.71
Consensus pattern (9 bp):
ATTTTATTT
Found at i:20318 original size:30 final size:29
Alignment explanation
Indices: 20248--20320 Score: 85
Period size: 30 Copynumber: 2.4 Consensus size: 29
20238 TTTTTCTTCA
*
20248 TTTTATTTATTTTATTTATTCTATTCATT
1 TTTTATTTACTTTATTTATTCTATTCATT
* *
20277 TTTATATTTACTTTATTTTTATCTTATTTATT
1 TTT-TATTTACTTTATTTAT-TC-TATTCATT
20309 TTTTA-TTACTTT
1 TTTTATTTACTTT
20321 CCTTATTTCA
Statistics
Matches: 38, Mismatches: 3, Indels: 5
0.83 0.07 0.11
Matches are distributed among these distances:
29 3 0.08
30 21 0.55
31 4 0.11
32 10 0.26
ACGTcount: A:0.21, C:0.07, G:0.00, T:0.73
Consensus pattern (29 bp):
TTTTATTTACTTTATTTATTCTATTCATT
Found at i:22492 original size:3 final size:3
Alignment explanation
Indices: 22473--22509 Score: 56
Period size: 3 Copynumber: 12.0 Consensus size: 3
22463 TGCACAAATG
*
22473 TAA TAA TAT TAA TTAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA -TAA TAA TAA TAA TAA TAA TAA TAA
22510 ATAAATAAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
3 28 0.90
4 3 0.10
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (3 bp):
TAA
Found at i:23366 original size:241 final size:240
Alignment explanation
Indices: 22930--23785 Score: 1272
Period size: 241 Copynumber: 3.6 Consensus size: 240
22920 ATTCCCTTCA
* * *
22930 TCGTGAAGTTGAAA-CTGTGGATGGCCCCTCCGTCGTGAAGTTGAGCCTTGAATTTG-ATATCCT
1 TCGTGGAGTTGAAATC-GTGGATGGCCCCTTCGTCGTGAAGTTGAGCCTTG-ACTTGAATATCCT
* * * * *
22993 TCGTCATGAAGTTGAAATCCAATTAAGTTATATTGTTTCGATTCTAATATCCTCCGCCGTGAAGT
64 TCGTCGTGAAGTTGAAATCCAAGTAAGTTGTATTGTTTCGAGTCCAATATCCTCCGCCGTGAAGT
* * * *
23058 TGAAATTGGCTCTGAAATTGGGAAGCCCCTTCGTCATGAATTTAAGCCTCAAATGGCACGGTATC
129 TGAAATTGGCTCTGAAACTGGGAAG-CCCTTCGTCATGAAATTGAGCCTCAAATGGCACGATATC
*
23123 CTCTATCGTGGAGTTGAAATCGTGGATGTGTGGGTACGATATCCTCCG
193 CTCCATCGTGGAGTTGAAATCGTGGATGTGTGGGTACGATATCCTCCG
23171 TCGTGGAGTTGAAATCGTGGATGGCCCCTTCGTCGTGAAGTTGAGCCTTGACTTGAATATCCTTC
1 TCGTGGAGTTGAAATCGTGGATGGCCCCTTCGTCGTGAAGTTGAGCCTTGACTTGAATATCCTTC
23236 GTCGTGAAGTTGAAATCCAAGTAAGTTGTATTGTTTCGAGTCCAATATCCTCCGCCGTGAAGTTG
66 GTCGTGAAGTTGAAATCCAAGTAAGTTGTATTGTTTCGAGTCCAATATCCTCCGCCGTGAAGTTG
* * *
23301 AAATTGGCTCTGAAACTGGGAAGCCCTTTCATCATGAAGTTGAGCCTCAAATAGCACGATATCCT
131 AAATTGGCTCTGAAACTGGGAAGCCC-TTCGTCATGAAATTGAGCCTCAAATGGCACGATATCCT
* *
23366 CCATCGTGGACTTGAAATCGTGGATATGTGGGTACGATATCCTCCG
195 CCATCGTGGAGTTGAAATCGTGGATGTGTGGGTACGATATCCTCCG
* ** * *
23412 TTGTGGAGTTGAAATTATGGATGGCCCCTTCGTCGTGAAATTGAGCCTTGACTTGAATATCTTTC
1 TCGTGGAGTTGAAATCGTGGATGGCCCCTTCGTCGTGAAGTTGAGCCTTGACTTGAATATCCTTC
* ** *
23477 GTCGTGAAGTTGAAATCCAAGTAAGTTGTATTGTTTAGAGTTTAATATCCTCCACCGTGAAGTTG
66 GTCGTGAAGTTGAAATCCAAGTAAGTTGTATTGTTTCGAGTCCAATATCCTCCGCCGTGAAGTTG
* *
23542 AAATTGGCTCTGAAACTGGGAAGCTCCTTCGTCGTGAAATTGAGCCTCAAATGGCATGATATCCT
131 AAATTGGCTCTGAAACTGGGAAGC-CCTTCGTCATGAAATTGAGCCTCAAATGGCACGATATCCT
* * * *
23607 CCGTTGTGGAGTTGAAATCGTGGATGTGTGGATACGATATCCTCTG
195 CCATCGTGGAGTTGAAATCGTGGATGTGTGGGTACGATATCCTCCG
* *
23653 TTGTGGATTTGAAATCGTGGATGGCCCCTTCGTCGTGAAGTTGAGCCTTGACTTGAATATCCTTC
1 TCGTGGAGTTGAAATCGTGGATGGCCCCTTCGTCGTGAAGTTGAGCCTTGACTTGAATATCCTTC
* * * **
23718 GTCGTGAAGTTGAAATCCAAGT-A--TGTATTGTTTCAAGCCCAATATCCTTCGTTGTGAAGTTG
66 GTCGTGAAGTTGAAATCCAAGTAAGTTGTATTGTTTCGAGTCCAATATCCTCCGCCGTGAAGTTG
23780 AAATTG
131 AAATTG
23786 ACTTTGAACG
Statistics
Matches: 560, Mismatches: 51, Indels: 11
0.90 0.08 0.02
Matches are distributed among these distances:
238 36 0.06
240 8 0.01
241 513 0.92
242 3 0.01
ACGTcount: A:0.24, C:0.19, G:0.25, T:0.32
Consensus pattern (240 bp):
TCGTGGAGTTGAAATCGTGGATGGCCCCTTCGTCGTGAAGTTGAGCCTTGACTTGAATATCCTTC
GTCGTGAAGTTGAAATCCAAGTAAGTTGTATTGTTTCGAGTCCAATATCCTCCGCCGTGAAGTTG
AAATTGGCTCTGAAACTGGGAAGCCCTTCGTCATGAAATTGAGCCTCAAATGGCACGATATCCTC
CATCGTGGAGTTGAAATCGTGGATGTGTGGGTACGATATCCTCCG
Found at i:33653 original size:20 final size:20
Alignment explanation
Indices: 33611--33659 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 20
33601 TAACTTTTTC
*
33611 TTTTATCTTTCATTATTCAT
1 TTTTATCTTTCATTATTAAT
* *
33631 TTTTCTCTTTCATT-TTAAC
1 TTTTATCTTTCATTATTAAT
*
33650 TTTTACCTTT
1 TTTTATCTTT
33660 TCTCTTTCTT
Statistics
Matches: 24, Mismatches: 5, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
19 11 0.46
20 13 0.54
ACGTcount: A:0.16, C:0.18, G:0.00, T:0.65
Consensus pattern (20 bp):
TTTTATCTTTCATTATTAAT
Found at i:53829 original size:15 final size:15
Alignment explanation
Indices: 53804--53841 Score: 62
Period size: 14 Copynumber: 2.7 Consensus size: 15
53794 AGTCGAAGAA
53804 AGAAAAA-AAAAAGG
1 AGAAAAAGAAAAAGG
53818 AGAAAAAGAAAAAGG
1 AGAAAAAGAAAAAGG
53833 A-AAAAAGAA
1 AGAAAAAGAA
53842 GAAAAAAAGC
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
14 15 0.65
15 8 0.35
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (15 bp):
AGAAAAAGAAAAAGG
Found at i:53911 original size:7 final size:7
Alignment explanation
Indices: 53901--53935 Score: 52
Period size: 7 Copynumber: 4.7 Consensus size: 7
53891 AAAAGGGAAA
53901 AAAAAAG
1 AAAAAAG
53908 AAAAAAG
1 AAAAAAG
53915 AACAAAAGG
1 AA-AAAA-G
53924 AAAAAAG
1 AAAAAAG
53931 AAAAA
1 AAAAA
53936 TAAGGCGGGT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
7 15 0.58
8 8 0.31
9 3 0.12
ACGTcount: A:0.83, C:0.03, G:0.14, T:0.00
Consensus pattern (7 bp):
AAAAAAG
Found at i:53921 original size:16 final size:16
Alignment explanation
Indices: 53902--53932 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
53892 AAAGGGAAAA
53902 AAAAAGAAAAAAGAAC
1 AAAAAGAAAAAAGAAC
*
53918 AAAAGGAAAAAAGAA
1 AAAAAGAAAAAAGAA
53933 AAATAAGGCG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.81, C:0.03, G:0.16, T:0.00
Consensus pattern (16 bp):
AAAAAGAAAAAAGAAC
Found at i:57309 original size:2 final size:2
Alignment explanation
Indices: 57302--57345 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
57292 TTTTATTTCT
57302 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
57344 TA
1 TA
57346 CTTTTGGTTT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:57472 original size:33 final size:34
Alignment explanation
Indices: 57406--57476 Score: 94
Period size: 33 Copynumber: 2.1 Consensus size: 34
57396 ATATATACTT
57406 TTTTTATATTTTATTTACTTATTTATCTATTTTA
1 TTTTTATATTTTATTTACTTATTTATCTATTTTA
*
57440 TTTTTAT-TTTTATTCT-CTATTTTTATCT-TTTTA
1 TTTTTATATTTTATT-TACT-TATTTATCTATTTTA
57473 TTTT
1 TTTT
57477 CCTTTTATTT
Statistics
Matches: 34, Mismatches: 1, Indels: 5
0.85 0.03 0.12
Matches are distributed among these distances:
33 18 0.53
34 16 0.47
ACGTcount: A:0.18, C:0.07, G:0.00, T:0.75
Consensus pattern (34 bp):
TTTTTATATTTTATTTACTTATTTATCTATTTTA
Found at i:57583 original size:4 final size:4
Alignment explanation
Indices: 57574--57687 Score: 53
Period size: 4 Copynumber: 27.8 Consensus size: 4
57564 TTTTCTTCAT
*
57574 TTTA TTTA TTTTA TTTA TTCTA TTCA TTT- TTATA TTTA GTTTA -TT-
1 TTTA TTTA -TTTA TTTA TT-TA TTTA TTTA TT-TA TTTA -TTTA TTTA
* *
57619 TTTA TCTTA TTTA TTT- TTTA -TTA CTTTC CTTA TTTCA TTCGT- TTTA
1 TTTA T-TTA TTTA TTTA TTTA TTTA -TTTA TTTA TTT-A TT--TA TTTA
*
57665 CTTTC TTTA -TTA TTTA TTTA TTT
1 -TTTA TTTA TTTA TTTA TTTA TTT
57688 CTTCTAACAC
Statistics
Matches: 85, Mismatches: 8, Indels: 34
0.67 0.06 0.27
Matches are distributed among these distances:
3 16 0.19
4 40 0.47
5 28 0.33
7 1 0.01
ACGTcount: A:0.19, C:0.09, G:0.02, T:0.70
Consensus pattern (4 bp):
TTTA
Found at i:57584 original size:9 final size:9
Alignment explanation
Indices: 57572--57634 Score: 51
Period size: 9 Copynumber: 7.0 Consensus size: 9
57562 ATTTTTCTTC
57572 ATTTTATTT
1 ATTTTATTT
57581 ATTTTATTT
1 ATTTTATTT
* *
57590 ATTCTATTC
1 ATTTTATTT
*
57599 ATTTT-TAT
1 ATTTTATTT
57607 A-TTTAGTTT
1 ATTTTA-TTT
57616 ATTTTTATCTT
1 A-TTTTAT-TT
57627 A-TTTATTT
1 ATTTTATTT
57635 TTTATTACTT
Statistics
Matches: 43, Mismatches: 6, Indels: 11
0.72 0.10 0.18
Matches are distributed among these distances:
7 3 0.07
8 4 0.09
9 28 0.65
10 1 0.02
11 7 0.16
ACGTcount: A:0.22, C:0.05, G:0.02, T:0.71
Consensus pattern (9 bp):
ATTTTATTT
Found at i:57652 original size:23 final size:23
Alignment explanation
Indices: 57624--57686 Score: 67
Period size: 23 Copynumber: 2.7 Consensus size: 23
57614 TTATTTTTAT
57624 CTTATTTATTTTTTATTACTTTC
1 CTTATTTATTTTTTATTACTTTC
**
57647 CTTATTTCATTCGTT-TTACTTTC
1 CTTATTT-ATTTTTTATTACTTTC
*
57670 TTTA-TTATTTATTTATT
1 CTTATTTATTT-TTTATT
57687 TCTTCTAACA
Statistics
Matches: 32, Mismatches: 5, Indels: 6
0.74 0.12 0.14
Matches are distributed among these distances:
21 3 0.09
22 4 0.12
23 20 0.62
24 5 0.16
ACGTcount: A:0.17, C:0.13, G:0.02, T:0.68
Consensus pattern (23 bp):
CTTATTTATTTTTTATTACTTTC
Found at i:59813 original size:3 final size:3
Alignment explanation
Indices: 59805--59868 Score: 67
Period size: 3 Copynumber: 20.3 Consensus size: 3
59795 CTGCATAAAT
* *
59805 ATA ATA ATA TTA ATTA ATTA ATA ATA ATTA ATA ATA ATTA AAA ATA ATA
1 ATA ATA ATA ATA A-TA A-TA ATA ATA A-TA ATA ATA A-TA ATA ATA ATA
59854 AT- ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA A
59869 ATAAAATATT
Statistics
Matches: 53, Mismatches: 4, Indels: 8
0.82 0.06 0.12
Matches are distributed among these distances:
2 2 0.04
3 38 0.72
4 13 0.25
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (3 bp):
ATA
Found at i:59832 original size:10 final size:10
Alignment explanation
Indices: 59806--59868 Score: 75
Period size: 10 Copynumber: 6.9 Consensus size: 10
59796 TGCATAAATA
59806 TAATAAT-AT
1 TAATAATAAT
59815 TAAT--TAAT
1 TAATAATAAT
59823 TAATAATAAT
1 TAATAATAAT
59833 TAATAATAAT
1 TAATAATAAT
*
59843 TAAAAATAA-
1 TAATAATAAT
59852 TAAT-ATAA-
1 TAATAATAAT
59860 TAATAATAA
1 TAATAATAA
59869 ATAAAATATT
Statistics
Matches: 48, Mismatches: 2, Indels: 8
0.83 0.03 0.14
Matches are distributed among these distances:
7 1 0.02
8 14 0.29
9 11 0.23
10 22 0.46
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (10 bp):
TAATAATAAT
Found at i:59832 original size:14 final size:13
Alignment explanation
Indices: 59805--59868 Score: 69
Period size: 14 Copynumber: 4.8 Consensus size: 13
59795 CTGCATAAAT
59805 ATAATAAT-ATTA
1 ATAATAATAATTA
59817 ATTAATTAATAA-TA
1 A-TAA-TAATAATTA
59831 ATTAATAATAATTA
1 A-TAATAATAATTA
*
59845 AAAATAATAATATA
1 ATAATAATAAT-TA
59859 ATAATAATAA
1 ATAATAATAA
59869 ATAAAATATT
Statistics
Matches: 45, Mismatches: 2, Indels: 8
0.82 0.04 0.15
Matches are distributed among these distances:
12 1 0.02
13 18 0.40
14 25 0.56
15 1 0.02
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (13 bp):
ATAATAATAATTA
Found at i:59837 original size:24 final size:23
Alignment explanation
Indices: 59801--59866 Score: 82
Period size: 24 Copynumber: 2.9 Consensus size: 23
59791 CGGCCTGCAT
*
59801 AAAT-ATAA-TAATATTAATTAA
1 AAATAATAATTAATAATAATTAA
*
59822 TTAATAATAATTAATAATAATTAA
1 -AAATAATAATTAATAATAATTAA
59846 AAATAATAATATAATAATAAT
1 AAATAATAAT-TAATAATAAT
59867 AAATAAAATA
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
22 3 0.08
23 13 0.34
24 22 0.58
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (23 bp):
AAATAATAATTAATAATAATTAA
Found at i:59871 original size:10 final size:10
Alignment explanation
Indices: 59799--59876 Score: 62
Period size: 10 Copynumber: 8.3 Consensus size: 10
59789 GTCGGCCTGC
59799 ATAAAT-ATA
1 ATAAATAATA
*
59808 AT-AATATTA
1 ATAAATAATA
*
59817 ATTAATTAATA
1 A-TAAATAATA
*
59828 ATAATTAATA
1 ATAAATAATA
59838 AT-AAT--TA
1 ATAAATAATA
59845 A-AAATAATA
1 ATAAATAATA
59854 ATATAATAATA
1 ATA-AATAATA
59865 ATAAATAA-A
1 ATAAATAATA
59874 ATA
1 ATA
59877 TTTTCGTAAA
Statistics
Matches: 57, Mismatches: 4, Indels: 16
0.74 0.05 0.21
Matches are distributed among these distances:
7 6 0.11
8 3 0.05
9 14 0.25
10 18 0.32
11 16 0.28
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (10 bp):
ATAAATAATA
Found at i:77600 original size:21 final size:21
Alignment explanation
Indices: 77568--77607 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
77558 AACTGCTTAG
77568 TACAGAGGGTATCGATACTCC
1 TACAGAGGGTATCGATACTCC
*
77589 TACA-AGGAGTATCGGTACT
1 TACAGAGG-GTATCGATACT
77608 ACCTTTGTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 3 0.18
21 14 0.82
ACGTcount: A:0.30, C:0.20, G:0.25, T:0.25
Consensus pattern (21 bp):
TACAGAGGGTATCGATACTCC
Found at i:81221 original size:20 final size:20
Alignment explanation
Indices: 81194--81269 Score: 125
Period size: 20 Copynumber: 3.8 Consensus size: 20
81184 CAATGCTGGT
*
81194 AGTATCGATACTACCTAGTG
1 AGTATCGATACTTCCTAGTG
*
81214 ACTATCGATACTTCCTAGTG
1 AGTATCGATACTTCCTAGTG
*
81234 AGTATCGATACTTCTTAGTG
1 AGTATCGATACTTCCTAGTG
81254 AGTATCGATACTTCCT
1 AGTATCGATACTTCCT
81270 TTACCATTGG
Statistics
Matches: 51, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 51 1.00
ACGTcount: A:0.26, C:0.21, G:0.17, T:0.36
Consensus pattern (20 bp):
AGTATCGATACTTCCTAGTG
Found at i:83005 original size:20 final size:20
Alignment explanation
Indices: 82980--83017 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
82970 TTTGTTTCAC
*
82980 GGAATGTAAGATTACCAGTG
1 GGAATGTAAAATTACCAGTG
83000 GGAATGTAAAATTACCAG
1 GGAATGTAAAATTACCAG
83018 GGAATAAGAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.39, C:0.11, G:0.26, T:0.24
Consensus pattern (20 bp):
GGAATGTAAAATTACCAGTG
Found at i:86848 original size:16 final size:16
Alignment explanation
Indices: 86828--86865 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
86818 ATTCACCTTC
*
86828 TTTTTA-GAGTTCTTT
1 TTTTTAGGAATTCTTT
86843 TATTTTAGGAATTCTTT
1 T-TTTTAGGAATTCTTT
86860 TTTTTA
1 TTTTTA
86866 TGCGCCTCAT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
15 1 0.05
16 10 0.50
17 9 0.45
ACGTcount: A:0.18, C:0.05, G:0.11, T:0.66
Consensus pattern (16 bp):
TTTTTAGGAATTCTTT
Found at i:91830 original size:36 final size:35
Alignment explanation
Indices: 91783--91862 Score: 142
Period size: 36 Copynumber: 2.3 Consensus size: 35
91773 AATCAAAGTC
91783 TATTATAGTTCTTTTATGTAGATAAGAAAAGATGTT
1 TATTATAGTTCTTTTATGTAGATAAGAAAAGATG-T
91819 TATTATAGTTCTTTTATGTAGATAAGAAAAGATGT
1 TATTATAGTTCTTTTATGTAGATAAGAAAAGATGT
*
91854 CATTATAGT
1 TATTATAGT
91863 AGATTGGCAT
Statistics
Matches: 43, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
35 9 0.21
36 34 0.79
ACGTcount: A:0.36, C:0.04, G:0.16, T:0.44
Consensus pattern (35 bp):
TATTATAGTTCTTTTATGTAGATAAGAAAAGATGT
Found at i:97277 original size:3 final size:3
Alignment explanation
Indices: 97269--97323 Score: 110
Period size: 3 Copynumber: 18.3 Consensus size: 3
97259 AATTAAAAAT
97269 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
97317 ATA ATA A
1 ATA ATA A
97324 AGATAGTAGG
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 52 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:97659 original size:134 final size:133
Alignment explanation
Indices: 97475--98273 Score: 875
Period size: 134 Copynumber: 6.1 Consensus size: 133
97465 GCTGTCACTC
* * * *
97475 AGGGAGTATCAAATATGGGGATGTTGATCCATTCCGCTATCACTTAGGGAAGATTGAATCGGGGC
1 AGGGAATATCAGATCTGGGGA-GTTGATCCATTCCGCTATCACTCAGGGAAGATTGAATCGGGGC
* * *
97540 AGACTTGTTCCGCTGTTACTCAGGGAATATCAAATCTT-GAAAGAGAGGGATATGTTCTTCTTCT
65 AGACTTGTTCCGCTGTCACTCAGGGAATATCAAATCTTGGAAA-AGAGGGACATGTTCTGCTTCT
*
97604 TCTGG
129 TCTGA
* * * *
97609 AGGGAATATCATATATGGGGTAGTTGATCCATTCCGCTGTCACTCAGGGAAGATTGAATCTGGGC
1 AGGGAATATCAGATCTGGGG-AGTTGATCCATTCCGCTATCACTCAGGGAAGATTGAATCGGGGC
* * * * * * *
97674 ATAATTGTTCTGCTATCACTCAGGGAATATCAAAAT-TTGGAAAGGAGGGATATGTT-TCGCTTT
65 AGACTTGTTCCGCTGTCACTCAGGGAATATC-AAATCTTGGAAAAGAGGGACATGTTCT-GCTTC
97737 TTCTGA
128 TTCTGA
* *
97743 AGGGAATATCAGATCTGGATGAGTTAATCCATTCTC-CTATCACTCAGGGAAGATTGAATCGGGG
1 AGGGAATATCAGATCTGG-GGAGTTGATCCATTC-CGCTATCACTCAGGGAAGATTGAATCGGGG
* * *
97807 CAGACTTGTTCCGCTGTCACTCAGGGAATAGC---TCTTGGAAAAGAGGGACATATTCTGCATCT
64 CAGACTTGTTCCGCTGTCACTCAGGGAATATCAAATCTTGGAAAAGAGGGACATGTTCTGCTTCT
97869 TCTGA
129 TCTGA
* *
97874 AGGGAATATCAGATCTGGAGGAGTTG-T-CA-----C--T---T-AGGGAAGATCGAATCGGGGT
1 AGGGAATATCAGATCTGG-GGAGTTGATCCATTCCGCTATCACTCAGGGAAGATTGAATCGGGGC
** * * * * *
97926 AGACTTGTTCTACTGTCACTTAGGGAATATCAAATCTTGGAAAAGAGGGACCTATTCCGTTTCTT
65 AGACTTGTTCCGCTGTCACTCAGGGAATATCAAATCTTGGAAAAGAGGGACATGTTCTGCTTCTT
*
97991 TTGA
130 CTGA
* * * * * * *
97995 AGGGAATATCAGGTCTGGAGGAGTTTATCCATTCCGCTGTTACCCAAGGAAGATTGAATCAGGGC
1 AGGGAATATCAGATCTGG-GGAGTTGATCCATTCCGCTATCACTCAGGGAAGATTGAATCGGGGC
* * * * *
98060 AGACTTGTTCCGCTGTCACTCAGAGAATATCTAATCTTGGAAAATATGGACATGTTCCGCTTCTT
65 AGACTTGTTCCGCTGTCACTCAGGGAATATCAAATCTTGGAAAAGAGGGACATGTTCTGCTTCTT
98125 CTGA
130 CTGA
** *
98129 AGGGAATATCAGATCTGAGGGAGTTGATCCATTCTACTTTCACTCAGGGAAGATTGAATCGGGGC
1 AGGGAATATCAGATCTG-GGGAGTTGATCCATTCCGCTATCACTCAGGGAAGATTGAATCGGGGC
* * * *
98194 AGGCTTGTTCCGTTATCACTCAGGGAATATCAAATCTTGGAAAAGAGGGACCTGTTCCT-CTTCT
65 AGACTTGTTCCGCTGTCACTCAGGGAATATCAAATCTTGGAAAAGAGGGACATGTT-CTGCTTCT
98258 TCTGA
129 TCTGA
98263 AGGGAATATCA
1 AGGGAATATCA
98274 AATATGTAAA
Statistics
Matches: 560, Mismatches: 79, Indels: 52
0.81 0.11 0.08
Matches are distributed among these distances:
118 45 0.08
119 1 0.00
121 54 0.10
122 2 0.00
123 2 0.00
124 1 0.00
128 1 0.00
129 2 0.00
130 3 0.01
131 50 0.09
132 1 0.00
133 1 0.00
134 384 0.69
135 13 0.02
ACGTcount: A:0.27, C:0.18, G:0.26, T:0.30
Consensus pattern (133 bp):
AGGGAATATCAGATCTGGGGAGTTGATCCATTCCGCTATCACTCAGGGAAGATTGAATCGGGGCA
GACTTGTTCCGCTGTCACTCAGGGAATATCAAATCTTGGAAAAGAGGGACATGTTCTGCTTCTTC
TGA
Found at i:105231 original size:14 final size:13
Alignment explanation
Indices: 105206--105233 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
105196 ACATATTCGA
105206 AATAAAAAGGGGG
1 AATAAAAAGGGGG
105219 AATAAAAAGGGGG
1 AATAAAAAGGGGG
105232 AA
1 AA
105234 AATTACTAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.57, C:0.00, G:0.36, T:0.07
Consensus pattern (13 bp):
AATAAAAAGGGGG
Found at i:110629 original size:21 final size:21
Alignment explanation
Indices: 110605--110644 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
110595 TTTATTTTAT
110605 AACTTTATTTCAATTATCGTA
1 AACTTTATTTCAATTATCGTA
110626 AACTTTATTTCAATTATCG
1 AACTTTATTTCAATTATCG
110645 AACTTGAAGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.33, C:0.15, G:0.05, T:0.47
Consensus pattern (21 bp):
AACTTTATTTCAATTATCGTA
Found at i:110692 original size:33 final size:32
Alignment explanation
Indices: 110631--110739 Score: 157
Period size: 33 Copynumber: 3.4 Consensus size: 32
110621 TCGTAAACTT
*
110631 TATTTCAATTATCGAACTT-GAAGTTTTTAAG
1 TATTTGAATTATCGAACTTGGAAGTTTTTAAG
110662 TATTTGAATCTATCGAACTTGGAAGTTTTTAAG
1 TATTTGAAT-TATCGAACTTGGAAGTTTTTAAG
* *
110695 TATTTGAATTTATCAAACTTGGAAGTATTTAAG
1 TATTTGAA-TTATCGAACTTGGAAGTTTTTAAG
*
110728 TATTTCAATTAT
1 TATTTGAATTAT
110740 GTTGAGTTAA
Statistics
Matches: 71, Mismatches: 4, Indels: 5
0.89 0.05 0.06
Matches are distributed among these distances:
31 8 0.11
32 14 0.20
33 48 0.68
34 1 0.01
ACGTcount: A:0.33, C:0.08, G:0.14, T:0.45
Consensus pattern (32 bp):
TATTTGAATTATCGAACTTGGAAGTTTTTAAG
Found at i:110766 original size:13 final size:13
Alignment explanation
Indices: 110723--110777 Score: 58
Period size: 13 Copynumber: 4.2 Consensus size: 13
110713 TTGGAAGTAT
110723 TTAAGTATTTCAA
1 TTAAGTATTTCAA
* *
110736 TTATGTTGAGTT-AA
1 TTAAG-T-ATTTCAA
110750 TTAAGTATTTCAA
1 TTAAGTATTTCAA
*
110763 TTAAGTATTTGAA
1 TTAAGTATTTCAA
110776 TT
1 TT
110778 TATCGAACTT
Statistics
Matches: 34, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
12 3 0.09
13 21 0.62
14 7 0.21
15 3 0.09
ACGTcount: A:0.35, C:0.04, G:0.13, T:0.49
Consensus pattern (13 bp):
TTAAGTATTTCAA
Found at i:110999 original size:21 final size:21
Alignment explanation
Indices: 110973--111029 Score: 96
Period size: 21 Copynumber: 2.7 Consensus size: 21
110963 TGGAGCGTGG
*
110973 GGGAATCGGTACCCTCTCATA
1 GGGAATCGGTTCCCTCTCATA
*
110994 GGGAATCGGTTTCCTCTCATA
1 GGGAATCGGTTCCCTCTCATA
111015 GGGAATCGGTTCCCT
1 GGGAATCGGTTCCCT
111030 AAGTGTAAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.19, C:0.26, G:0.26, T:0.28
Consensus pattern (21 bp):
GGGAATCGGTTCCCTCTCATA
Found at i:111199 original size:15 final size:15
Alignment explanation
Indices: 111174--111229 Score: 76
Period size: 15 Copynumber: 3.6 Consensus size: 15
111164 ATCTGGAATA
*
111174 TTAAAATCGGTTTTT
1 TTAAAACCGGTTTTT
*
111189 TTATAACCGGTTTTTT
1 TTAAAACCGG-TTTTT
111205 TTAAAAACCGGTTTTT
1 TT-AAAACCGGTTTTT
111221 TTAAAACCG
1 TTAAAACCG
111230 AAACCGGTTA
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
15 15 0.42
16 14 0.39
17 7 0.19
ACGTcount: A:0.29, C:0.12, G:0.12, T:0.46
Consensus pattern (15 bp):
TTAAAACCGGTTTTT
Found at i:111206 original size:17 final size:17
Alignment explanation
Indices: 111184--111226 Score: 63
Period size: 16 Copynumber: 2.6 Consensus size: 17
111174 TTAAAATCGG
*
111184 TTTTTTT-ATAACCGGT
1 TTTTTTTAAAAACCGGT
111200 TTTTTTTAAAAACCGG-
1 TTTTTTTAAAAACCGGT
111216 TTTTTTTAAAA
1 TTTTTTTAAAA
111227 CCGAAACCGG
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
16 18 0.72
17 7 0.28
ACGTcount: A:0.28, C:0.09, G:0.09, T:0.53
Consensus pattern (17 bp):
TTTTTTTAAAAACCGGT
Found at i:124471 original size:17 final size:17
Alignment explanation
Indices: 124449--124482 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
124439 AAGTGGCAAC
124449 CATTCTATACATTTTTG
1 CATTCTATACATTTTTG
*
124466 CATTCTTTACATTTTTG
1 CATTCTATACATTTTTG
124483 TATATTCCAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.21, C:0.18, G:0.06, T:0.56
Consensus pattern (17 bp):
CATTCTATACATTTTTG
Found at i:126495 original size:8 final size:8
Alignment explanation
Indices: 126482--126560 Score: 72
Period size: 8 Copynumber: 9.8 Consensus size: 8
126472 ACACTTGAAG
126482 AAAAGAAA
1 AAAAGAAA
126490 AAAAGAAA
1 AAAAGAAA
**
126498 AATGGAAA
1 AAAAGAAA
126506 AAAAGAAA
1 AAAAGAAA
126514 AAGAA-AAA
1 AA-AAGAAA
* *
126522 AGAAGGGAA
1 A-AAAGAAA
126531 AAAAGAAA
1 AAAAGAAA
*
126539 GAAAA-TAA
1 -AAAAGAAA
126547 AAAAGAAA
1 AAAAGAAA
126555 AAAAGA
1 AAAAGA
126561 GAGGAGAAAA
Statistics
Matches: 56, Mismatches: 10, Indels: 10
0.74 0.13 0.13
Matches are distributed among these distances:
7 4 0.07
8 42 0.75
9 10 0.18
ACGTcount: A:0.80, C:0.00, G:0.18, T:0.03
Consensus pattern (8 bp):
AAAAGAAA
Found at i:126531 original size:12 final size:12
Alignment explanation
Indices: 126516--126575 Score: 50
Period size: 12 Copynumber: 4.8 Consensus size: 12
126506 AAAAGAAAAA
126516 GAAAAAAGAAGG
1 GAAAAAAGAAGG
*
126528 GAAAAAAGAA-A
1 GAAAAAAGAAGG
* *
126539 GAAAATAAAAAAG
1 GAAAA-AAGAAGG
*
126552 AAAAAAAGAGAGG
1 GAAAAAAGA-AGG
126565 AGAAAAAAGAA
1 -GAAAAAAGAA
126576 ATAAAATAGG
Statistics
Matches: 37, Mismatches: 7, Indels: 7
0.73 0.14 0.14
Matches are distributed among these distances:
11 5 0.14
12 17 0.46
13 7 0.19
14 8 0.22
ACGTcount: A:0.75, C:0.00, G:0.23, T:0.02
Consensus pattern (12 bp):
GAAAAAAGAAGG
Found at i:126532 original size:25 final size:24
Alignment explanation
Indices: 126482--126560 Score: 90
Period size: 24 Copynumber: 3.2 Consensus size: 24
126472 ACACTTGAAG
*
126482 AAAAGAAAAAAAGAAAAATGGAAA
1 AAAAGAAAAAAAGAAAAAAGGAAA
*
126506 AAAAGAAAAAGAA-AAAAGAAGGGAA
1 AAAAGAAAAA-AAGAAAA-AAGGAAA
*
126531 AAAAGAAAGAAAATAAAAAA-GAAA
1 AAAAGAAA-AAAAGAAAAAAGGAAA
126555 AAAAGA
1 AAAAGA
126561 GAGGAGAAAA
Statistics
Matches: 48, Mismatches: 3, Indels: 8
0.81 0.05 0.14
Matches are distributed among these distances:
24 23 0.48
25 19 0.40
26 6 0.12
ACGTcount: A:0.80, C:0.00, G:0.18, T:0.03
Consensus pattern (24 bp):
AAAAGAAAAAAAGAAAAAAGGAAA
Found at i:126582 original size:38 final size:35
Alignment explanation
Indices: 126511--126583 Score: 110
Period size: 38 Copynumber: 2.0 Consensus size: 35
126501 GGAAAAAAAG
126511 AAAAAGAAAAAAGAAGGGAAAAAAGAAAGAAAATA
1 AAAAAGAAAAAAGAAGGGAAAAAAGAAAGAAAATA
*
126546 AAAAAGAAAAAAAGAGAGGAGAAAAAAGAAATAAAATA
1 AAAAAG-AAAAAAGA-AGG-GAAAAAAGAAAGAAAATA
126584 GGGTTCAAGG
Statistics
Matches: 34, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
35 6 0.18
36 8 0.24
37 3 0.09
38 17 0.50
ACGTcount: A:0.77, C:0.00, G:0.19, T:0.04
Consensus pattern (35 bp):
AAAAAGAAAAAAGAAGGGAAAAAAGAAAGAAAATA
Found at i:138272 original size:12 final size:13
Alignment explanation
Indices: 138257--138289 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
138247 TGTTTTTCAT
138257 TTTTTTCATT-TC
1 TTTTTTCATTATC
*
138269 TTTTTTCTTTATC
1 TTTTTTCATTATC
138282 TTTTTTCA
1 TTTTTTCA
138290 AACAACATCT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
12 9 0.50
13 9 0.50
ACGTcount: A:0.09, C:0.15, G:0.00, T:0.76
Consensus pattern (13 bp):
TTTTTTCATTATC
Found at i:139348 original size:24 final size:24
Alignment explanation
Indices: 139304--139353 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
139294 ATAAAGAACC
*
139304 AAAATAAACTTAAATATACCATTA
1 AAAATAAACTTAAACATACCATTA
*
139328 AAAATAAAGTTCAAACA-ACCATTA
1 AAAATAAACTT-AAACATACCATTA
139352 AA
1 AA
139354 TCAACCACCA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
24 19 0.83
25 4 0.17
ACGTcount: A:0.60, C:0.14, G:0.02, T:0.24
Consensus pattern (24 bp):
AAAATAAACTTAAACATACCATTA
Found at i:140026 original size:18 final size:18
Alignment explanation
Indices: 140003--140044 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
139993 TTGCTATTCC
140003 CTGCACACCACAAACAAA
1 CTGCACACCACAAACAAA
***
140021 CTGCACTTTACAAACAAA
1 CTGCACACCACAAACAAA
140039 CTGCAC
1 CTGCAC
140045 TTTTTCCTCA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.43, C:0.36, G:0.07, T:0.14
Consensus pattern (18 bp):
CTGCACACCACAAACAAA
Found at i:140045 original size:18 final size:18
Alignment explanation
Indices: 140012--140047 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
140002 CCTGCACACC
140012 ACAAACAAACTGCACTTT
1 ACAAACAAACTGCACTTT
140030 ACAAACAAACTGCACTTT
1 ACAAACAAACTGCACTTT
140048 TTCCTCAAAC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.44, C:0.28, G:0.06, T:0.22
Consensus pattern (18 bp):
ACAAACAAACTGCACTTT
Found at i:142703 original size:19 final size:21
Alignment explanation
Indices: 142672--142724 Score: 56
Period size: 20 Copynumber: 2.6 Consensus size: 21
142662 TGAAGGAAAG
* *
142672 AGAAAAAGTAAAAGTTAA-AA
1 AGAAAGAGAAAAAGTTAATAA
*
142692 TA-AAAGAGAAAAAATTAATAA
1 -AGAAAGAGAAAAAGTTAATAA
142713 AGAAAGAGAAAA
1 AGAAAGAGAAAA
142725 GAAAAAGTTA
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
20 14 0.52
21 13 0.48
ACGTcount: A:0.72, C:0.00, G:0.15, T:0.13
Consensus pattern (21 bp):
AGAAAGAGAAAAAGTTAATAA
Found at i:149621 original size:24 final size:24
Alignment explanation
Indices: 149577--149626 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
149567 ATAAAGAACC
*
149577 AAAATAAACTTAAATATACCATTA
1 AAAATAAACTTAAACATACCATTA
*
149601 AAAATAAAGTTCAAACA-ACCATTA
1 AAAATAAACTT-AAACATACCATTA
149625 AA
1 AA
149627 TCAACCACCA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
24 19 0.83
25 4 0.17
ACGTcount: A:0.60, C:0.14, G:0.02, T:0.24
Consensus pattern (24 bp):
AAAATAAACTTAAACATACCATTA
Found at i:164921 original size:3 final size:3
Alignment explanation
Indices: 164915--164966 Score: 104
Period size: 3 Copynumber: 17.3 Consensus size: 3
164905 ATTATTATTA
164915 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG
1 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG
164963 TTG T
1 TTG T
164967 AGACTCATTT
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 49 1.00
ACGTcount: A:0.00, C:0.00, G:0.33, T:0.67
Consensus pattern (3 bp):
TTG
Found at i:165072 original size:37 final size:37
Alignment explanation
Indices: 165033--165321 Score: 290
Period size: 37 Copynumber: 7.8 Consensus size: 37
165023 TGCAAATGAT
*
165033 TTTTG-AAATATATATAATATATAGTTTTTGAAAGCA
1 TTTTGAAAATATATATAATATATAGTTTTTGAAAACA
* * * *
165069 TTTTGAAAACATATATATTATATTGTTTTTGAAAGCA
1 TTTTGAAAATATATATAATATATAGTTTTTGAAAACA
165106 TTTTGGAAACATATATATAATATATAGTTTTT-AAAACA
1 TTTT-GAAA-ATATATATAATATATAGTTTTTGAAAACA
*
165144 TTTTGAAAA-ACTTATATAATATATAG-TTTTGAAATCA
1 TTTTGAAAATA--TATATAATATATAGTTTTTGAAAACA
* **
165181 TTTTGAAAATTTATATAATATATAGTTTTAAAAATACA
1 TTTTGAAAATATATATAATATATAGTTTTTGAAA-ACA
* *
165219 TTTTGAAAATGTATACAATATAT-GATTTTT-AAAACA
1 TTTTGAAAATATATATAATATATAG-TTTTTGAAAACA
* * *
165255 TTTTGAAAA-CTATATAATATACAG--TTTGAAAACGG
1 TTTTGAAAATATATATAATATATAGTTTTTGAAAAC-A
*
165290 TTTTAAAAATTATATATATAATATATAGTTTT
1 TTTT-GAAA--ATATATATAATATATAGTTTT
165322 AAATTTCTTT
Statistics
Matches: 212, Mismatches: 22, Indels: 33
0.79 0.08 0.12
Matches are distributed among these distances:
33 3 0.01
34 5 0.02
35 15 0.07
36 40 0.19
37 74 0.35
38 41 0.19
39 32 0.15
41 2 0.01
ACGTcount: A:0.43, C:0.04, G:0.09, T:0.44
Consensus pattern (37 bp):
TTTTGAAAATATATATAATATATAGTTTTTGAAAACA
Found at i:165120 original size:74 final size:73
Alignment explanation
Indices: 165033--165281 Score: 265
Period size: 73 Copynumber: 3.4 Consensus size: 73
165023 TGCAAATGAT
* * *
165033 TTTTG-AAATATATATAATATATAGTTTTTGAAAGCATTTTGAAAACATATATATTATATTGTTT
1 TTTTGAAAACATATATAATATATAGTTTTT-AAAACATTTTGAAAACATATATAATATATTGTTT
*
165097 TTGAAAGCA
65 TTGAAAACA
* * *
165106 TTTTGGAAACATATATATAATATATAGTTTTTAAAACATTTTGAAAAACTTATATAATATATAG-
1 TTTT-GAAA-ACATATATAATATATAGTTTTTAAAACATTTTG-AAAACATATATAATATATTGT
*
165170 TTTTGAAATCA
63 TTTTGAAAACA
** * ** *
165181 TTTTGAAAATTTATATAATATATAGTTTTAAAAATACATTTTGAAAATGTATACAATATA-TGAT
1 TTTTGAAAACATATATAATATATAGTTTT-TAAA-ACATTTTGAAAACATATATAATATATTG-T
165245 TTTT-AAAACA
63 TTTTGAAAACA
*
165255 TTTTGAAAAC-TATATAATATACAGTTT
1 TTTTGAAAACATATATAATATATAGTTT
165282 GAAAACGGTT
Statistics
Matches: 154, Mismatches: 14, Indels: 16
0.84 0.08 0.09
Matches are distributed among these distances:
73 41 0.27
74 36 0.23
75 38 0.25
76 39 0.25
ACGTcount: A:0.43, C:0.05, G:0.08, T:0.44
Consensus pattern (73 bp):
TTTTGAAAACATATATAATATATAGTTTTTAAAACATTTTGAAAACATATATAATATATTGTTTT
TGAAAACA
Found at i:166328 original size:17 final size:16
Alignment explanation
Indices: 166280--166330 Score: 50
Period size: 17 Copynumber: 3.1 Consensus size: 16
166270 CTAGTTTCTC
* *
166280 TTTTCCTTTAATGTAA
1 TTTTTCTTTAATTTAA
*
166296 TCATTTCTTT-ATTTAA
1 T-TTTTCTTTAATTTAA
166312 TTTTTGCTTTAATTTAA
1 TTTTT-CTTTAATTTAA
166329 TT
1 TT
166331 GTTTTTCATT
Statistics
Matches: 28, Mismatches: 4, Indels: 5
0.76 0.11 0.14
Matches are distributed among these distances:
15 3 0.11
16 11 0.39
17 14 0.50
ACGTcount: A:0.24, C:0.10, G:0.04, T:0.63
Consensus pattern (16 bp):
TTTTTCTTTAATTTAA
Found at i:166348 original size:9 final size:9
Alignment explanation
Indices: 166334--166359 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
166324 TTTAATTGTT
166334 TTTCATTTC
1 TTTCATTTC
166343 TTTCATTTC
1 TTTCATTTC
166352 TTTCATTT
1 TTTCATTT
166360 TTTTATTTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.12, C:0.19, G:0.00, T:0.69
Consensus pattern (9 bp):
TTTCATTTC
Found at i:166375 original size:11 final size:11
Alignment explanation
Indices: 166359--166385 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
166349 TTCTTTCATT
166359 TTTTTATTTTA
1 TTTTTATTTTA
166370 TTTTTATTTTA
1 TTTTTATTTTA
166381 TTTTT
1 TTTTT
166386 TTTAATTTAG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (11 bp):
TTTTTATTTTA
Found at i:172816 original size:85 final size:85
Alignment explanation
Indices: 172037--172795 Score: 995
Period size: 85 Copynumber: 8.9 Consensus size: 85
172027 TAACTCAAAA
* * * *
172037 GCGAGAAGAGTTATCTGTCAACAAAAGATCTTCGAGTTCGATAACATTCAGCTCAAAGGCACATC
1 GCGAGAAGGGTTATCTGTCAAC-AAAGACCTTCGAGTTCGATTACATTCAGCTCAAAGGCATATC
*
172102 AAATTTACAGCATAGCTTAAG
65 AAATTTACAGCATAGCTCAAG
* * * *
172123 GAGAAAAGGGTTATCTATCAACAAAAGACCTTCGAGTTCGATTACATTCAGCTCAAA-G-ACATC
1 GCGAGAAGGGTTATCTGTCAAC-AAAGACCTTCGAGTTCGATTACATTCAGCTCAAAGGCATATC
*
172186 AAATTTACAACATAGCTCAAG
65 AAATTTACAGCATAGCTCAAG
* * * * * *
172207 GTGAGAAAGGCTATCTGTCAATAAAAAACCTTCGAGTTCAATTACATTCAGCTCAAAGGCATATC
1 GCGAGAAGGGTTATCTGTCAA-CAAAGACCTTCGAGTTCGATTACATTCAGCTCAAAGGCATATC
172272 AAATTTACAGCATAGCTCAAG
65 AAATTTACAGCATAGCTCAAG
* * * *
172293 GCGAGAAGGGCTATCTGTCAACAAAGACCTTCTAGTTCAATTACATTTAGCTCAAAGGCATATCA
1 GCGAGAAGGGTTATCTGTCAACAAAGACCTTCGAGTTCGATTACATTCAGCTCAAAGGCATATCA
*
172358 AATTTACAACATAGCTCAAG
66 AATTTACAGCATAGCTCAAG
* * * *
172378 GAGAGAAGGGTTATCTATCAACAACGACCTTCGAGTTCGATTACATTCAGTTCAAAGGCATATCA
1 GCGAGAAGGGTTATCTGTCAACAAAGACCTTCGAGTTCGATTACATTCAGCTCAAAGGCATATCA
172443 AATTTACAGCATAGCTCAAG
66 AATTTACAGCATAGCTCAAG
* * * *
172463 GCAAGAAGGGATATCTGTCAACAAATACCTTCGAGTTCGATTACATTCATCTCAAAGGCATATCA
1 GCGAGAAGGGTTATCTGTCAACAAAGACCTTCGAGTTCGATTACATTCAGCTCAAAGGCATATCA
*
172528 AATTTACAGCATAACTCAAG
66 AATTTACAGCATAGCTCAAG
* * * ** *
172548 GTGAGAAGGGTTATCTATCAACAAAGACCTTCAAGTTTAATTACATTCAACAT-AAAGGCATATC
1 GCGAGAAGGGTTATCTGTCAACAAAGACCTTCGAGTTCGATTACATTCAGC-TCAAAGGCATATC
172612 AAATTTACAGCATAGCTCAAG
65 AAATTTACAGCATAGCTCAAG
* *
172633 GCGAGAAGGGTTATCTGTCAACAAAGACCTTCAAGTTCGAGTACATTCAGCTCAAAGGCATATCA
1 GCGAGAAGGGTTATCTGTCAACAAAGACCTTCGAGTTCGATTACATTCAGCTCAAAGGCATATCA
* * *
172698 AATTTACATCATAACTCAAA
66 AATTTACAGCATAGCTCAAG
* * * * * * *
172718 GAGAGAATGGCTATCTATCAACAAATACCTTCGAGTTCGATTCCATTCAGCT-AAAGGGCATGTC
1 GCGAGAAGGGTTATCTGTCAACAAAGACCTTCGAGTTCGATTACATTCAGCTCAAA-GGCATATC
* *
172782 AAATTCACATCATA
65 AAATTTACAGCATA
172796 ATTTAAGTCG
Statistics
Matches: 595, Mismatches: 72, Indels: 13
0.88 0.11 0.02
Matches are distributed among these distances:
84 76 0.13
85 424 0.71
86 95 0.16
ACGTcount: A:0.38, C:0.20, G:0.17, T:0.26
Consensus pattern (85 bp):
GCGAGAAGGGTTATCTGTCAACAAAGACCTTCGAGTTCGATTACATTCAGCTCAAAGGCATATCA
AATTTACAGCATAGCTCAAG
Found at i:173254 original size:4 final size:4
Alignment explanation
Indices: 173245--173308 Score: 71
Period size: 4 Copynumber: 16.0 Consensus size: 4
173235 ATTTTCGTCC
*
173245 TTAT TTAT TTA- TTAT TTAT TTAT TTAT TTAT TT-T TTAT TT-T CTTTT
1 TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT -TTAT
173291 TTATT TTAT TTAT ATTAT
1 TTA-T TTAT TTAT -TTAT
173309 ATATATATAT
Statistics
Matches: 53, Mismatches: 1, Indels: 11
0.82 0.02 0.17
Matches are distributed among these distances:
3 7 0.13
4 37 0.70
5 9 0.17
ACGTcount: A:0.22, C:0.02, G:0.00, T:0.77
Consensus pattern (4 bp):
TTAT
Found at i:173293 original size:19 final size:19
Alignment explanation
Indices: 173245--173297 Score: 72
Period size: 19 Copynumber: 2.8 Consensus size: 19
173235 ATTTTCGTCC
*
173245 TTATTTATTTATTATTTAT
1 TTATTTATTTATTTTTTAT
173264 TTATTTATTTATTTTTTAT
1 TTATTTATTTATTTTTTAT
*
173283 TT-TCTTTTTTATTTT
1 TTAT-TTATTTATTTT
173298 ATTTATATTA
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
18 1 0.03
19 30 0.97
ACGTcount: A:0.19, C:0.02, G:0.00, T:0.79
Consensus pattern (19 bp):
TTATTTATTTATTTTTTAT
Found at i:173306 original size:23 final size:22
Alignment explanation
Indices: 173245--173306 Score: 67
Period size: 23 Copynumber: 2.9 Consensus size: 22
173235 ATTTTCGTCC
*
173245 TTATTTATTTATTATTTATTTAT
1 TTATTTATTTATT-TATATTTAT
*
173268 TTATTTATTT-TTTAT-TTTCT
1 TTATTTATTTATTTATATTTAT
173288 TT-TTTATTTTATTTATATT
1 TTATTTA-TTTATTTATATT
173307 ATATATATAT
Statistics
Matches: 34, Mismatches: 2, Indels: 7
0.79 0.05 0.16
Matches are distributed among these distances:
19 4 0.12
20 9 0.26
21 7 0.21
22 4 0.12
23 10 0.29
ACGTcount: A:0.21, C:0.02, G:0.00, T:0.77
Consensus pattern (22 bp):
TTATTTATTTATTTATATTTAT
Found at i:173413 original size:37 final size:38
Alignment explanation
Indices: 173340--173475 Score: 155
Period size: 37 Copynumber: 3.8 Consensus size: 38
173330 ATGATTTTGA
* *
173340 ATATATAT-A-ATATAGTTTTT-GAA-A-TTTGAAAAC
1 ATATATATAATATATAGTTTTTAAAACATTTTGGAAAC
* * *
173373 ATATATATTATAT-TGGTTTTTAAAGCATTTTGGAAAC
1 ATATATATAATATATAGTTTTTAAAACATTTTGGAAAC
*
173410 ATATATATAATATATAGTTTTTAAAACATTTT-GAAAA
1 ATATATATAATATATAGTTTTTAAAACATTTTGGAAAC
173447 AT-TATATAATATATAGTTTTTAAAA-ATTT
1 ATATATATAATATATAGTTTTTAAAACATTT
173476 ATTATATATA
Statistics
Matches: 89, Mismatches: 8, Indels: 10
0.83 0.07 0.09
Matches are distributed among these distances:
33 8 0.09
34 8 0.09
35 7 0.08
36 24 0.27
37 26 0.29
38 16 0.18
ACGTcount: A:0.43, C:0.03, G:0.08, T:0.46
Consensus pattern (38 bp):
ATATATATAATATATAGTTTTTAAAACATTTTGGAAAC
Found at i:173460 original size:36 final size:36
Alignment explanation
Indices: 173340--173697 Score: 339
Period size: 36 Copynumber: 10.3 Consensus size: 36
173330 ATGATTTTGA
*
173340 ATATATATAATATAGTTTTT-GAA-A-TTTGAAAACA-T
1 ATATA-AT-ATATAGTTTTTAAAACATTTTGAAAA-ATT
* * * *
173375 ATATATTATATTGGTTTTTAAAGCATTTTGGAAACATAT
1 ATATAATATA-TAGTTTTTAAAACATTTT-GAAAAAT-T
173414 ATATAATATATAGTTTTTAAAACATTTTGAAAAATT
1 ATATAATATATAGTTTTTAAAACATTTTGAAAAATT
173450 ATATAATATATAGTTTTTAAAA-A-TTT-----A-T
1 ATATAATATATAGTTTTTAAAACATTTTGAAAAATT
*
173478 -TAT-ATATATAGTTTTT--AACATTTTGAAAACTT
1 ATATAATATATAGTTTTTAAAACATTTTGAAAAATT
173510 ATATAATATAT--TTTTTAAAACATTTTGAAAAACTT
1 ATATAATATATAGTTTTTAAAACATTTTGAAAAA-TT
* * * *
173545 ATATAATACATAGTTTTGAAATCATTTTGAAAATTT
1 ATATAATATATAGTTTTTAAAACATTTTGAAAAATT
*
173581 ATATAATATATAGTTTTAAAAAAGCATTTTG-AAAATGT
1 ATATAATATATAGTTTT-TAAAA-CATTTTGAAAAAT-T
173619 ATATAATATAT-GATTTTTAAAACATTTTG-AAAATT
1 ATATAATATATAG-TTTTTAAAACATTTTGAAAAATT
* *
173654 ATATAATATATAG-TTTTAAAACTTTTTTAAAAATT
1 ATATAATATATAGTTTTTAAAACATTTTGAAAAATT
173689 ATAT-ATATA
1 ATATAATATA
173698 ATATATAGTT
Statistics
Matches: 273, Mismatches: 22, Indels: 57
0.78 0.06 0.16
Matches are distributed among these distances:
24 2 0.01
25 1 0.00
26 16 0.06
27 3 0.01
28 1 0.00
29 1 0.00
32 6 0.02
33 6 0.02
34 48 0.18
35 41 0.15
36 55 0.20
37 40 0.15
38 43 0.16
39 10 0.04
ACGTcount: A:0.44, C:0.04, G:0.07, T:0.46
Consensus pattern (36 bp):
ATATAATATATAGTTTTTAAAACATTTTGAAAAATT
Found at i:173471 original size:24 final size:26
Alignment explanation
Indices: 173438--173495 Score: 84
Period size: 26 Copynumber: 2.3 Consensus size: 26
173428 TTTTAAAACA
*
173438 TTTTGAAAAA-TTA-TATAATATATAG
1 TTTTTAAAAATTTATTAT-ATATATAG
173463 TTTTTAAAAATTTATTATATATATAG
1 TTTTTAAAAATTTATTATATATATAG
173489 TTTTTAA
1 TTTTTAA
173496 CATTTTGAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
25 9 0.30
26 18 0.60
27 3 0.10
ACGTcount: A:0.43, C:0.00, G:0.05, T:0.52
Consensus pattern (26 bp):
TTTTTAAAAATTTATTATATATATAG
Found at i:173485 original size:60 final size:59
Alignment explanation
Indices: 173406--173534 Score: 181
Period size: 60 Copynumber: 2.1 Consensus size: 59
173396 AGCATTTTGG
*
173406 AAACATATA-TATAATATATAGTTTTTAAAACATTTTGAAAAATTATATAATATATAGTTTTTA
1 AAACATTTATTAT-ATATATAGTTTTT--AACATTTTGAAAAATTATATAATATAT--TTTTTA
*
173469 AAA-ATTTATTATATATATAGTTTTTAACATTTTGAAAACTTATATAATATATTTTTTA
1 AAACATTTATTATATATATAGTTTTTAACATTTTGAAAAATTATATAATATATTTTTTA
173527 AAACATTT
1 AAACATTT
173535 TGAAAAACTT
Statistics
Matches: 62, Mismatches: 2, Indels: 8
0.86 0.03 0.11
Matches are distributed among these distances:
58 9 0.15
59 4 0.06
60 26 0.42
62 17 0.27
63 6 0.10
ACGTcount: A:0.45, C:0.04, G:0.04, T:0.47
Consensus pattern (59 bp):
AAACATTTATTATATATATAGTTTTTAACATTTTGAAAAATTATATAATATATTTTTTA
Found at i:173656 original size:109 final size:108
Alignment explanation
Indices: 173464--173712 Score: 316
Period size: 109 Copynumber: 2.3 Consensus size: 108
173454 AATATATAGT
*
173464 TTTTAAAAATTTAT-TATATATATAGTTTT---TAACATTTTGAAAACTTATATAATATATTTTT
1 TTTTAAAAATTTATATA-ATATATAGTTTTAAAAAACATTTTGAAAACTTATATAATATATTTTT
*
173525 TAAAACATTTTGAAAAACTTATATAATACATAGTTTTGAAA-TCA
65 TAAAACATTTTGAAAAACTTATATAATACATAGTTTTAAAACT-A
*
173569 TTTTGAAAATTTATATAATATATAGTTTTAAAAAAGCATTTTGAAAA-TGTATATAATATATGAT
1 TTTTAAAAATTTATATAATATATAGTTTTAAAAAA-CATTTTGAAAACT-TATATAATATAT--T
* *
173633 TTTTAAAACATTTTG-AAAA-TTATATAATATATAGTTTTAAAACTT
62 TTTTAAAACATTTTGAAAAACTTATATAATACATAGTTTTAAAACTA
173678 TTTTAAAAATTATATATATAATATATAGTTTTAAA
1 TTTTAAAAA-T-T-TATATAATATATAGTTTTAAA
173713 TTTCTTTTTT
Statistics
Matches: 126, Mismatches: 6, Indels: 17
0.85 0.04 0.11
Matches are distributed among these distances:
105 25 0.20
106 2 0.02
108 3 0.02
109 52 0.41
110 6 0.05
111 17 0.13
112 21 0.17
ACGTcount: A:0.45, C:0.04, G:0.06, T:0.46
Consensus pattern (108 bp):
TTTTAAAAATTTATATAATATATAGTTTTAAAAAACATTTTGAAAACTTATATAATATATTTTTT
AAAACATTTTGAAAAACTTATATAATACATAGTTTTAAAACTA
Found at i:173673 original size:73 final size:74
Alignment explanation
Indices: 173494--173674 Score: 241
Period size: 74 Copynumber: 2.5 Consensus size: 74
173484 TATAGTTTTT
*
173494 AACATTTTGAAAACTTATATAATATAT--TTTT-TAAAACATTTTGAAAAACTTATATAATACAT
1 AACATTTTGAAAACTTATATAATATATAGTTTTAAAAAACATTTTGAAAAACTTATATAATACAT
173556 AGTTTTGAA
66 AGTTTTGAA
* * *
173565 ATCATTTTGAAAATTTATATAATATATAGTTTTAAAAAAGCATTTTG-AAAA-TGTATATAATAT
1 AACATTTTGAAAACTTATATAATATATAGTTTTAAAAAA-CATTTTGAAAAACT-TATATAATAC
*
173628 AT-GATTTTTAA
64 ATAG-TTTTGAA
173639 AACATTTTGAAAA-TTATATAATATATAGTTTTAAAA
1 AACATTTTGAAAACTTATATAATATATAGTTTTAAAA
173675 CTTTTTTAAA
Statistics
Matches: 98, Mismatches: 6, Indels: 10
0.86 0.05 0.09
Matches are distributed among these distances:
71 25 0.26
73 29 0.30
74 37 0.38
75 7 0.07
ACGTcount: A:0.46, C:0.04, G:0.07, T:0.43
Consensus pattern (74 bp):
AACATTTTGAAAACTTATATAATATATAGTTTTAAAAAACATTTTGAAAAACTTATATAATACAT
AGTTTTGAA
Found at i:173720 original size:41 final size:39
Alignment explanation
Indices: 173653--173735 Score: 130
Period size: 39 Copynumber: 2.1 Consensus size: 39
173643 TTTTGAAAAT
*
173653 TATATAATATATAGTTTTAAAACTTTTTTAAAAATTATA
1 TATATAATATATAGTTTTAAAACTTTTTTAAAAAATATA
*
173692 TATATAATATATAGTTTTAAATTTCTTTTTTAAAAAATATA
1 TATATAATATATAGTTTTAAA--ACTTTTTTAAAAAATATA
173733 TAT
1 TAT
173736 TATTATTTTT
Statistics
Matches: 40, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
39 21 0.52
41 19 0.47
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.51
Consensus pattern (39 bp):
TATATAATATATAGTTTTAAAACTTTTTTAAAAAATATA
Found at i:173744 original size:109 final size:107
Alignment explanation
Indices: 173463--173746 Score: 287
Period size: 109 Copynumber: 2.6 Consensus size: 107
173453 TAATATATAG
* ** *
173463 TTTTTAAAAATTTAT-TAT-ATATATAGTTTTTAACATTTTGAAAACTTATATAATA-TATTTTT
1 TTTTTAAAAATTTATATATAATATATAGTTTTAAACATTTTGAAAAAATATATATTATTA-TTTT
*
173525 TAAAACATTTTGAAAAACTTATATAATACATAGTTTTGAAATC
65 TAAAACATTTTGAAAAACTTATATAATACATAGTTTTAAAATC
* * ** *
173568 ATTTTGAAAA-TT-TATATAATATATAGTTTTAAAAAAGCATTTTGAAAATGTATATAATATATG
1 TTTTTAAAAATTTATATATAATATATAGTTTT---AAA-CATTTTGAAAAAATATAT-AT-TATT
*
173631 ATTTTTAAAACATTTTG-AAAA-TTATATAATATATAGTTTTAAAA-C
60 ATTTTTAAAACATTTTGAAAAACTTATATAATACATAGTTTTAAAATC
* *
173676 TTTTTTAAAAATTATATATATAATATATAGTTTTAAATTTCTTTTTTAAAAAATATATATTATTA
1 -TTTTTAAAAATT-TATATATAATATATAGTTTTAAA---CATTTTGAAAAAATATATATTATTA
173741 TTTTTA
61 TTTTTA
173747 TTATTTGTTT
Statistics
Matches: 147, Mismatches: 17, Indels: 26
0.77 0.09 0.14
Matches are distributed among these distances:
103 1 0.01
104 5 0.03
105 20 0.14
108 3 0.02
109 58 0.39
110 8 0.05
111 33 0.22
112 19 0.13
ACGTcount: A:0.43, C:0.04, G:0.05, T:0.48
Consensus pattern (107 bp):
TTTTTAAAAATTTATATATAATATATAGTTTTAAACATTTTGAAAAAATATATATTATTATTTTT
AAAACATTTTGAAAAACTTATATAATACATAGTTTTAAAATC
Found at i:173786 original size:25 final size:23
Alignment explanation
Indices: 173733--173787 Score: 65
Period size: 24 Copynumber: 2.3 Consensus size: 23
173723 AAAAAATATA
**
173733 TATTATTATTTTTATTATTTGTT
1 TATTATTATTTTTATTATTCCTT
173756 TATTATATATTTTTATTAATTCCTT
1 TATTAT-TATTTTTATT-ATTCCTT
*
173781 TTTTATT
1 TATTATT
173788 TTCATTTTTT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
23 6 0.22
24 11 0.41
25 10 0.37
ACGTcount: A:0.24, C:0.04, G:0.02, T:0.71
Consensus pattern (23 bp):
TATTATTATTTTTATTATTCCTT
Found at i:174704 original size:5 final size:5
Alignment explanation
Indices: 174696--174720 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
174686 ATTTCTTTCA
174696 TTATT TTATT TTATT TTATT TTATT
1 TTATT TTATT TTATT TTATT TTATT
174721 ATTTTTAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (5 bp):
TTATT
Found at i:176335 original size:5 final size:5
Alignment explanation
Indices: 176309--176347 Score: 51
Period size: 5 Copynumber: 7.4 Consensus size: 5
176299 ATTCTCCCCG
*
176309 TATTT TAATT TATCTT TGATTT TATTT TATTT TATTT TA
1 TATTT TATTT TAT-TT T-ATTT TATTT TATTT TATTT TA
176348 GTCACTAACT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
5 22 0.73
6 6 0.20
7 2 0.07
ACGTcount: A:0.23, C:0.03, G:0.03, T:0.72
Consensus pattern (5 bp):
TATTT
Found at i:177021 original size:15 final size:15
Alignment explanation
Indices: 177001--177029 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
176991 TTTTTATCTT
177001 TTAAAATTATTTTAC
1 TTAAAATTATTTTAC
177016 TTAAAATTATTTTA
1 TTAAAATTATTTTA
177030 AAATATATTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.55
Consensus pattern (15 bp):
TTAAAATTATTTTAC
Found at i:179356 original size:19 final size:19
Alignment explanation
Indices: 179332--179379 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 19
179322 CAATACATTG
179332 ATGAAGAT-TGCAGTTGATT
1 ATGAAGATCT-CAGTTGATT
*
179351 ATGAAGATCTTAGTTGATT
1 ATGAAGATCTCAGTTGATT
*
179370 ATTAAGATCT
1 ATGAAGATCT
179380 TGTACAAAGA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
19 25 0.96
20 1 0.04
ACGTcount: A:0.33, C:0.06, G:0.21, T:0.40
Consensus pattern (19 bp):
ATGAAGATCTCAGTTGATT
Found at i:179380 original size:19 final size:19
Alignment explanation
Indices: 179343--179380 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
179333 TGAAGATTGC
179343 AGTTGATTATGAAGATCTT
1 AGTTGATTATGAAGATCTT
*
179362 AGTTGATTATTAAGATCTT
1 AGTTGATTATGAAGATCTT
179381 GTACAAAGAC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.32, C:0.05, G:0.18, T:0.45
Consensus pattern (19 bp):
AGTTGATTATGAAGATCTT
Found at i:179861 original size:23 final size:23
Alignment explanation
Indices: 179833--179894 Score: 63
Period size: 23 Copynumber: 2.7 Consensus size: 23
179823 CACATTTGTA
179833 TTGCATAATTTGCATTCCCATTTC
1 TTGCAT-ATTTGCATTCCCATTTC
* **
179857 -TGCATTTTTGCATTTGCATTTC
1 TTGCATATTTGCATTCCCATTTC
* *
179879 TTGCATCTTTACATTC
1 TTGCATATTTGCATTC
179895 ACATCTATAC
Statistics
Matches: 31, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
22 14 0.45
23 17 0.55
ACGTcount: A:0.18, C:0.23, G:0.10, T:0.50
Consensus pattern (23 bp):
TTGCATATTTGCATTCCCATTTC
Found at i:179868 original size:22 final size:23
Alignment explanation
Indices: 179841--179894 Score: 65
Period size: 22 Copynumber: 2.4 Consensus size: 23
179831 TATTGCATAA
*
179841 TTTGCATTCCCATTTC-TGCATT
1 TTTGCATTCCCATTTCTTGCATC
**
179863 TTTGCATTTGCATTTCTTGCATC
1 TTTGCATTCCCATTTCTTGCATC
*
179886 TTTACATTC
1 TTTGCATTC
179895 ACATCTATAC
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
22 14 0.54
23 12 0.46
ACGTcount: A:0.15, C:0.24, G:0.09, T:0.52
Consensus pattern (23 bp):
TTTGCATTCCCATTTCTTGCATC
Found at i:182097 original size:99 final size:99
Alignment explanation
Indices: 181980--182169 Score: 299
Period size: 99 Copynumber: 1.9 Consensus size: 99
181970 TTATAATATT
* * *
181980 ATATGTATACAATAAAGCTTGAGCTGTCCCTCTAGAGCAATTGGTTAAACGCCCCGGCTTTATGG
1 ATATATATACAATAAAGCTTGAGCTGTCCCTCTAAAGCAATTGGTTAAACGCCCCAGCTTTATGG
* *
182045 ATAAGATTCATCTAGCCTGATAAAGGTGATTATA
66 ATAAGATTCAACTAGCATGATAAAGGTGATTATA
* * *
182079 ATATATATACAATTAAGCTTGAGTTGTCCCTCTAAAGCAATTGGTTAAATGCCCCAGCTTTATGG
1 ATATATATACAATAAAGCTTGAGCTGTCCCTCTAAAGCAATTGGTTAAACGCCCCAGCTTTATGG
*
182144 ATAATATTCAACTAGCATGATAAAGG
66 ATAAGATTCAACTAGCATGATAAAGG
182170 CAAATTACAA
Statistics
Matches: 82, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
99 82 1.00
ACGTcount: A:0.33, C:0.17, G:0.18, T:0.31
Consensus pattern (99 bp):
ATATATATACAATAAAGCTTGAGCTGTCCCTCTAAAGCAATTGGTTAAACGCCCCAGCTTTATGG
ATAAGATTCAACTAGCATGATAAAGGTGATTATA
Found at i:183293 original size:33 final size:32
Alignment explanation
Indices: 183232--183293 Score: 79
Period size: 33 Copynumber: 1.9 Consensus size: 32
183222 AGTATAAAAT
* *
183232 AATGTTGGGCATTTTGAACGCTCTTATCAGCA
1 AATGTTGGGCATTTTGAACGCCCATATCAGCA
* *
183264 AATGTTGGGGCCTTTTGAAGGCCCATATCA
1 AATGTT-GGGCATTTTGAACGCCCATATCA
183294 TACAAGAATA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
32 6 0.24
33 19 0.76
ACGTcount: A:0.24, C:0.19, G:0.24, T:0.32
Consensus pattern (32 bp):
AATGTTGGGCATTTTGAACGCCCATATCAGCA
Found at i:184210 original size:15 final size:16
Alignment explanation
Indices: 184190--184221 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 16
184180 TAAATTTGTG
184190 TCATTTCAT-CATACA
1 TCATTTCATACATACA
184205 TCATTTCATACATACA
1 TCATTTCATACATACA
184221 T
1 T
184222 AATCTTCCTC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 9 0.56
16 7 0.44
ACGTcount: A:0.34, C:0.25, G:0.00, T:0.41
Consensus pattern (16 bp):
TCATTTCATACATACA
Found at i:184938 original size:62 final size:61
Alignment explanation
Indices: 184347--184938 Score: 600
Period size: 61 Copynumber: 9.6 Consensus size: 61
184337 TTTTTTTTTC
* * ** * * *
184347 TAGAGTCAATCCTTGACTTCCTCATAAAGAGAAGTCAAT-TGTTGTTATTTTTAAATCCCCA-
1 TAGAGTCAATCCTTGACTTCCTCGTGAAGAGAAGTCAATCT-TTGTT-TTCCTGACTCCTCAG
* * * * **
184408 TAAGAG-CAGATCTTTGACTTCCTCGTGAAGAAAAGTCAACCTCTGTTATTCCAAACTCCTCAG
1 T-AGAGTCA-ATCCTTGACTTCCTCGTGAAGAGAAGTCAATCTTTGTT-TTCCTGACTCCTCAG
* * *
184471 TAGAGTCAATCCTTGACTTTCTCGTGAAGATAAGTCTATCTTTGTTTTCCTGACTCCTCAG
1 TAGAGTCAATCCTTGACTTCCTCGTGAAGAGAAGTCAATCTTTGTTTTCCTGACTCCTCAG
* * * *
184532 TAGAGTCAATCCTAGACTTCCTCTTGAAGAGAAGTCAATATTTGTTTTTCTGACTCCTCAG
1 TAGAGTCAATCCTTGACTTCCTCGTGAAGAGAAGTCAATCTTTGTTTTCCTGACTCCTCAG
* * *
184593 TAGAGTAAATCCTTGACTTCCTCGT-AGAGAGAAGTCAATCTTTCTTTTCCTAACTCCTCAG
1 TAGAGTCAATCCTTGACTTCCTCGTGA-AGAGAAGTCAATCTTTGTTTTCCTGACTCCTCAG
* * * * *
184654 TAAAGTCAATCCTTGACTTCTTCGTGAAGAGAAGTCAACCTTTATTTTCCTGACTTCTCAG
1 TAGAGTCAATCCTTGACTTCCTCGTGAAGAGAAGTCAATCTTTGTTTTCCTGACTCCTCAG
* * * * * *
184715 TATAGTCAACCCTTAACTTTCTCGTGAAGAGAAGTCAACCTTTGTTTTCTTGACTCCTCAG
1 TAGAGTCAATCCTTGACTTCCTCGTGAAGAGAAGTCAATCTTTGTTTTCCTGACTCCTCAG
* * ** * * * * * *
184776 GAGAGTCAAACCTTTGACTTATTAGTGAATAAAAGTAAACCTTTGTTATCCCTGACTCC-CAG
1 TAGAGTCAATCC-TTGACTTCCTCGTGAAGAGAAGTCAATCTTTGTT-TTCCTGACTCCTCAG
* * * ** * *
184838 TAGTGTCAATCCTTGACTTTCTCGTGAAGAGAATTCAATCTTTGTTATTTTTGACTCCCCAA
1 TAGAGTCAATCCTTGACTTCCTCGTGAAGAGAAGTCAATCTTTGTT-TTCCTGACTCCTCAG
*
184900 TAGAGTCAATCCTTGACTTCCTCATGAAGAGAAGTCAAT
1 TAGAGTCAATCCTTGACTTCCTCGTGAAGAGAAGTCAAT
184939 ATTGCAGATT
Statistics
Matches: 442, Mismatches: 79, Indels: 19
0.82 0.15 0.04
Matches are distributed among these distances:
60 1 0.00
61 271 0.61
62 157 0.36
63 13 0.03
ACGTcount: A:0.27, C:0.22, G:0.15, T:0.35
Consensus pattern (61 bp):
TAGAGTCAATCCTTGACTTCCTCGTGAAGAGAAGTCAATCTTTGTTTTCCTGACTCCTCAG
Found at i:185207 original size:37 final size:36
Alignment explanation
Indices: 185106--185264 Score: 257
Period size: 36 Copynumber: 4.4 Consensus size: 36
185096 GAAAAGCAGC
185106 GAAGCAAATCAATCTAAGCCTTCAC-GAAGAGTAGT
1 GAAGCAAATCAATCTAAGCCTTCACGGAAGAGTAGT
*
185141 GAATCAAATCAATCTAAGCCTTCACGGAAGAGTAGT
1 GAAGCAAATCAATCTAAGCCTTCACGGAAGAGTAGT
*
185177 GAAGCAAATCAATCTTAAGCCTTCATGGAAGAGTAGT
1 GAAGCAAATCAATC-TAAGCCTTCACGGAAGAGTAGT
* * *
185214 GAAGAAAATCAATCTAAGCCTTCACGAAAGAGTATT
1 GAAGCAAATCAATCTAAGCCTTCACGGAAGAGTAGT
185250 GAAGCAAATCAATCT
1 GAAGCAAATCAATCT
185265 CGAGTATTAT
Statistics
Matches: 114, Mismatches: 8, Indels: 3
0.91 0.06 0.02
Matches are distributed among these distances:
35 24 0.21
36 56 0.49
37 34 0.30
ACGTcount: A:0.41, C:0.18, G:0.19, T:0.22
Consensus pattern (36 bp):
GAAGCAAATCAATCTAAGCCTTCACGGAAGAGTAGT
Found at i:185223 original size:73 final size:72
Alignment explanation
Indices: 185106--185264 Score: 257
Period size: 73 Copynumber: 2.2 Consensus size: 72
185096 GAAAAGCAGC
** *
185106 GAAGCAAATCAATC-TAAGCCTTCACGAAGAGTAGTGAATCAAATCAATCTAAGCCTTCACGGAA
1 GAAGCAAATCAATCTTAAGCCTTCACGAAGAGTAGTGAAGAAAATCAATCTAAGCCTTCACGAAA
185170 GAGTAGT
66 GAGTAGT
*
185177 GAAGCAAATCAATCTTAAGCCTTCATGGAAGAGTAGTGAAGAAAATCAATCTAAGCCTTCACGAA
1 GAAGCAAATCAATCTTAAGCCTTCA-CGAAGAGTAGTGAAGAAAATCAATCTAAGCCTTCACGAA
*
185242 AGAGTATT
65 AGAGTAGT
185250 GAAGCAAATCAATCT
1 GAAGCAAATCAATCT
185265 CGAGTATTAT
Statistics
Matches: 81, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
71 14 0.17
72 10 0.12
73 57 0.70
ACGTcount: A:0.41, C:0.18, G:0.19, T:0.22
Consensus pattern (72 bp):
GAAGCAAATCAATCTTAAGCCTTCACGAAGAGTAGTGAAGAAAATCAATCTAAGCCTTCACGAAA
GAGTAGT
Found at i:185324 original size:47 final size:47
Alignment explanation
Indices: 185271--185445 Score: 161
Period size: 47 Copynumber: 3.6 Consensus size: 47
185261 ATCTCGAGTA
* *
185271 TTATCTCCCTGAAAAAAGAGTGGAACATATTCATCTTCCCTTGGATC
1 TTATCTCCCTGAAAGAAGAGTGGAGCATATTCATCTTCCCTTGGATC
* * * * * * *
185318 TTATCTCCCTGAATGAATAGTGGAGCAAATCCATTTTCCAAAGATTTCTCGAGTC
1 TTATCTCCCTGAAAGAAGAGTGGAGCATATTCATCTTCC------CT-TGGA-TC
* *
185373 TTATCTCCCTGAAAGAATAGTGGAGCATATTCATCTTCCCTTGGATA
1 TTATCTCCCTGAAAGAAGAGTGGAGCATATTCATCTTCCCTTGGATC
* *
185420 ATATATCCCTGAAAGAAGAGTGGAGC
1 TTATCTCCCTGAAAGAAGAGTGGAGC
185446 GGATCCGTTT
Statistics
Matches: 101, Mismatches: 19, Indels: 16
0.74 0.14 0.12
Matches are distributed among these distances:
47 56 0.55
48 3 0.03
49 1 0.01
53 1 0.01
54 3 0.03
55 37 0.37
ACGTcount: A:0.30, C:0.21, G:0.18, T:0.31
Consensus pattern (47 bp):
TTATCTCCCTGAAAGAAGAGTGGAGCATATTCATCTTCCCTTGGATC
Found at i:185382 original size:55 final size:55
Alignment explanation
Indices: 185316--186219 Score: 410
Period size: 55 Copynumber: 17.5 Consensus size: 55
185306 TTCCCTTGGA
* * * * *
185316 TCTTATCTCCCTGAATGAATAGTGGAGCAAATCCATTTTCCAAAGATTTCTCGAG
1 TCTTATCTCCCTGAAAGAAGAGTGGAGCAGATCCGTTTTACAAAGATTTCTCGAG
* * * * * ** *
185371 TCTTATCTCCCTGAAAGAATAGTGGAGCATATTCATCTT-C-----CCT-TGGA-
1 TCTTATCTCCCTGAAAGAAGAGTGGAGCAGATCCGTTTTACAAAGATTTCTCGAG
** * * * *
185418 TAATATATCCCTGAAAGAAGAGTGGAGCGGATCCGTTTTAAAAAGATTTATCGAG
1 TCTTATCTCCCTGAAAGAAGAGTGGAGCAGATCCGTTTTACAAAGATTTCTCGAG
* *
185473 TCTT-TCACCCTGAAAGAAGAGTGGAGCAGATCCGTTTTACAAATATTTCTCGAG
1 TCTTATCTCCCTGAAAGAAGAGTGGAGCAGATCCGTTTTACAAAGATTTCTCGAG
* * * *
185527 TCTTATCTCCTTGAAAGAAGAGTGGAGTAGATCCGTTTTTCAAAGATTTCTTGAG
1 TCTTATCTCCCTGAAAGAAGAGTGGAGCAGATCCGTTTTACAAAGATTTCTCGAG
* * * * ** *
185582 TATTATCTCTCTGAAAGAAGAGTGGAGCAGATTCGTCTT-C-----CCT-TGGA-
1 TCTTATCTCCCTGAAAGAAGAGTGGAGCAGATCCGTTTTACAAAGATTTCTCGAG
* * * *
185629 TCTTATCTCACTGAAAGAAGAGTAGAGTAGATCCGTTTT-CTAAGGATTTCTCGAG
1 TCTTATCTCCCTGAAAGAAGAGTGGAGCAGATCCGTTTTAC-AAAGATTTCTCGAG
* * * * * * *
185684 TCTTACCTCTCTGAAATAAGAGTGGAGCAGATTCGTCTT-C-----CTT-TGGA-
1 TCTTATCTCCCTGAAAGAAGAGTGGAGCAGATCCGTTTTACAAAGATTTCTCGAG
* * ** *
185731 T-TGTATCTCCCT-AAACGAATAGTGGAGTAGATATGTTTTACAAAGATTTCTCTAG
1 TCT-TATCTCCCTGAAA-GAAGAGTGGAGCAGATCCGTTTTACAAAGATTTCTCGAG
* * * * * ** *
185786 TCTTATCTCCCTGATAA-AATAGTGAATCAGATTCGTCTT-C-----CCT-TGGA-
1 TCTTATCTCCCTGA-AAGAAGAGTGGAGCAGATCCGTTTTACAAAGATTTCTCGAG
* * * * *
185833 T-TTAATCTTCCTGAAAGAAGA--GAAGCAGATCCGTTTTCCAAATATTTCTAGAG
1 TCTT-ATCTCCCTGAAAGAAGAGTGGAGCAGATCCGTTTTACAAAGATTTCTCGAG
* * * * ** * ** *
185886 TCTTATCTCCCTGAAAAAATTAATGGAGCATATTTGTCTT-C-----CCT-TGGA-
1 TCTTATCTCCCTGAAAGAA-GAGTGGAGCAGATCCGTTTTACAAAGATTTCTCGAG
* * * * *
185934 TCTTATCTCCCTGAAAGAATAGTGGAACATATCCATTTTCCAAAGATTTCTCGAG
1 TCTTATCTCCCTGAAAGAAGAGTGGAGCAGATCCGTTTTACAAAGATTTCTCGAG
* * * * ** *
185989 TCTTATCTCCCTGAAAGAATAGTGGAGCAGATTCATCTT-C-----CCT-TGGA-
1 TCTTATCTCCCTGAAAGAAGAGTGGAGCAGATCCGTTTTACAAAGATTTCTCGAG
* * * *
186036 TTTTATCTCCCTGAAAGAAGAGTGGAGCAGATTCGTTTTCCAAATATTTCTCGAG
1 TCTTATCTCCCTGAAAGAAGAGTGGAGCAGATCCGTTTTACAAAGATTTCTCGAG
* *** * *
186091 TCTTATCTCCCTGAAAGAATAGTGGAGCAGA------TT-C--ATCCTCCTGGA-
1 TCTTATCTCCCTGAAAGAAGAGTGGAGCAGATCCGTTTTACAAAGATTTCTCGAG
* * * * *
186136 TCTTATCTCCCTGAAAGAATAGTGGAACATATCCGTTTTTCAAAGATCTCTCGAG
1 TCTTATCTCCCTGAAAGAAGAGTGGAGCAGATCCGTTTTACAAAGATTTCTCGAG
186191 TCTTATCTCCCTGAAAGAAGAGTGGAGCA
1 TCTTATCTCCCTGAAAGAAGAGTGGAGCA
186220 TATTCATTTT
Statistics
Matches: 638, Mismatches: 141, Indels: 140
0.69 0.15 0.15
Matches are distributed among these distances:
45 42 0.07
46 16 0.03
47 151 0.24
48 36 0.06
49 11 0.02
50 1 0.00
51 3 0.00
52 4 0.01
53 20 0.03
54 74 0.12
55 265 0.42
56 13 0.02
57 2 0.00
ACGTcount: A:0.29, C:0.20, G:0.19, T:0.33
Consensus pattern (55 bp):
TCTTATCTCCCTGAAAGAAGAGTGGAGCAGATCCGTTTTACAAAGATTTCTCGAG
Found at i:185402 original size:102 final size:102
Alignment explanation
Indices: 185262--186226 Score: 1057
Period size: 102 Copynumber: 9.4 Consensus size: 102
185252 AGCAAATCAA
* * * *
185262 TCTCGAGTATTATCTCCCTGAAAAAAGAGTGGAACATATTCATCTTCCCTTGGATCTTATCTCCC
1 TCTCGAGTCTTATCTCCCTGAAAGAAGAGTGGAGCAGATTCATCTTCCCTTGGATCTTATCTCCC
* * * *
185327 TGAATGAATAGTGGAGCAAATCCATTTTCCAAAGATT
66 TGAAAGAAGAGTGGAGCAGATCCGTTTTCCAAAGATT
* * ** *
185364 TCTCGAGTCTTATCTCCCTGAAAGAATAGTGGAGCATATTCATCTTCCCTTGGATAATATATCCC
1 TCTCGAGTCTTATCTCCCTGAAAGAAGAGTGGAGCAGATTCATCTTCCCTTGGATCTTATCTCCC
* **
185429 TGAAAGAAGAGTGGAGCGGATCCGTTTTAAAAAGATT
66 TGAAAGAAGAGTGGAGCAGATCCGTTTTCCAAAGATT
* * * * * ** *
185466 TATCGAGTCTT-TCACCCTGAAAGAAGAGTGGAGCAGATCCGTTTTACAAATATTTCTCGAGTCT
1 TCTCGAGTCTTATCTCCCTGAAAGAAGAGTGGAGCAGATTCATCTT-C-----CCT-TGGA-TCT
* * *
185530 TATCTCCTTGAAAGAAGAGTGGAGTAGATCCGTTTTTCAAAGATT
58 TATCTCCCTGAAAGAAGAGTGGAGCAGATCCGTTTTCCAAAGATT
* * * * *
185575 TCTTGAGTATTATCTCTCTGAAAGAAGAGTGGAGCAGATTCGTCTTCCCTTGGATCTTATCTCAC
1 TCTCGAGTCTTATCTCCCTGAAAGAAGAGTGGAGCAGATTCATCTTCCCTTGGATCTTATCTCCC
* * * *
185640 TGAAAGAAGAGTAGAGTAGATCCGTTTTCTAAGGATT
66 TGAAAGAAGAGTGGAGCAGATCCGTTTTCCAAAGATT
* * * * *
185677 TCTCGAGTCTTACCTCTCTGAAATAAGAGTGGAGCAGATTCGTCTTCCTTTGGAT-TGTATCTCC
1 TCTCGAGTCTTATCTCCCTGAAAGAAGAGTGGAGCAGATTCATCTTCCCTTGGATCT-TATCTCC
* * ** *
185741 CT-AAACGAATAGTGGAGTAGATATGTTTTACAAAGATT
65 CTGAAA-GAAGAGTGGAGCAGATCCGTTTTCCAAAGATT
* * * * * *
185779 TCTCTAGTCTTATCTCCCTGATAA-AATAGTGAATCAGATTCGTCTTCCCTTGGAT-TTAATCTT
1 TCTCGAGTCTTATCTCCCTGA-AAGAAGAGTGGAGCAGATTCATCTTCCCTTGGATCTT-ATCTC
* *
185842 CCTGAAAGAAGA--GAAGCAGATCCGTTTTCCAAATATT
64 CCTGAAAGAAGAGTGGAGCAGATCCGTTTTCCAAAGATT
* * * * * **
185879 TCTAGAGTCTTATCTCCCTGAAAAAATTAATGGAGCATATTTGTCTTCCCTTGGATCTTATCTCC
1 TCTCGAGTCTTATCTCCCTGAAAGAA-GAGTGGAGCAGATTCATCTTCCCTTGGATCTTATCTCC
* * * *
185944 CTGAAAGAATAGTGGAACATATCCATTTTCCAAAGATT
65 CTGAAAGAAGAGTGGAGCAGATCCGTTTTCCAAAGATT
* *
185982 TCTCGAGTCTTATCTCCCTGAAAGAATAGTGGAGCAGATTCATCTTCCCTTGGATTTTATCTCCC
1 TCTCGAGTCTTATCTCCCTGAAAGAAGAGTGGAGCAGATTCATCTTCCCTTGGATCTTATCTCCC
* *
186047 TGAAAGAAGAGTGGAGCAGATTCGTTTTCCAAATATT
66 TGAAAGAAGAGTGGAGCAGATCCGTTTTCCAAAGATT
* *
186084 TCTCGAGTCTTATCTCCCTGAAAGAATAGTGGAGCAGATTCATCCT-CC-TGGATCTTATCTCCC
1 TCTCGAGTCTTATCTCCCTGAAAGAAGAGTGGAGCAGATTCATCTTCCCTTGGATCTTATCTCCC
* * * * *
186147 TGAAAGAATAGTGGAACATATCCGTTTTTCAAAGATC
66 TGAAAGAAGAGTGGAGCAGATCCGTTTTCCAAAGATT
*
186184 TCTCGAGTCTTATCTCCCTGAAAGAAGAGTGGAGCATATTCAT
1 TCTCGAGTCTTATCTCCCTGAAAGAAGAGTGGAGCAGATTCAT
186227 TTTCTAGAAT
Statistics
Matches: 730, Mismatches: 114, Indels: 40
0.83 0.13 0.05
Matches are distributed among these distances:
99 2 0.00
100 125 0.17
101 74 0.10
102 393 0.54
103 52 0.07
104 1 0.00
107 1 0.00
108 3 0.00
109 49 0.07
110 30 0.04
ACGTcount: A:0.29, C:0.20, G:0.19, T:0.33
Consensus pattern (102 bp):
TCTCGAGTCTTATCTCCCTGAAAGAAGAGTGGAGCAGATTCATCTTCCCTTGGATCTTATCTCCC
TGAAAGAAGAGTGGAGCAGATCCGTTTTCCAAAGATT
Found at i:185984 original size:305 final size:303
Alignment explanation
Indices: 185266--186224 Score: 1106
Period size: 305 Copynumber: 3.1 Consensus size: 303
185256 AATCAATCTC
* *
185266 GAGTATTATCTCCCTGAAAAAAGAGTGGAACATATTCATCTTCCCTTGGATCTTATCTCCCTGAA
1 GAGTATTATCTCCCTGAAAAAAGAGTGGAGCATATTCGTCTTCCCTTGGATCTTATCTCCCTGAA
*
185331 TGAATAGTGGAGCAAATCCATTTTCCAAAGATTTCTCGAGTCTTATCTCCCTGAAAGAATAGTGG
66 AGAATAGTGGAGCAAATCCATTTTCCAAAGATTTCTCGAGTCTTATCTCCCTGAAAGAATAGTGG
* * * * * *
185396 AGCATATTCATCTTCCCTTGGATAATATATCCCTGAAAGAAGAGTGGAGCGGATCCGTTTTAAAA
131 AGCAGATTCATCTTCCCTTGGATTATATCTCCCTGAAAGAAGAGTGGAGCAGAT-TGTTTTACAA
* * * * * ** *
185461 AGATTTATCGAGTCTT-TCACCCTGAAAGAAGAGTGGAGCAGATCCGTTTTACAAATATTTCTCG
195 AGATTTCTCGAGTCTTATCTCCCTGAAAGAATAGTGGAGCAGATTCGTCTT-C-----CCT-TGG
* * *
185525 AGTCTTATC-TCCTTGAAAGAAGAGTGGAGTAGATCCGTTTTTCAAAGATTTCTT
253 A-TCTTATCTTCC-TGAAAGAAGA--GAAGCAGATCCGTTTTTCAAAGATTTCTA
* * * *
185579 GAGTATTATCTCTCTGAAAGAAGAGTGGAGCAGATTCGTCTTCCCTTGGATCTTATCTCACTGAA
1 GAGTATTATCTCCCTGAAAAAAGAGTGGAGCATATTCGTCTTCCCTTGGATCTTATCTCCCTGAA
* * * * * * * * * * *
185644 AGAAGAGTAGAGTAGATCCGTTTTCTAAGGATTTCTCGAGTCTTACCTCTCTGAAATAAGAGTGG
66 AGAATAGTGGAGCAAATCCATTTTCCAAAGATTTCTCGAGTCTTATCTCCCTGAAAGAATAGTGG
* * * * *
185709 AGCAGATTCGTCTTCCTTTGGATTGTATCTCCCT-AAACGAATAGTGGAGTAGATATGTTTTACA
131 AGCAGATTCATCTTCCCTTGGATTATATCTCCCTGAAA-GAAGAGTGGAGCAGAT-TGTTTTACA
* * *
185773 AAGATTTCTCTAGTCTTATCTCCCTGATAA-AATAGTGAATCAGATTCGTCTTCCCTTGGAT-TT
194 AAGATTTCTCGAGTCTTATCTCCCTGA-AAGAATAGTGGAGCAGATTCGTCTTCCCTTGGATCTT
* *
185836 AATCTTCCTGAAAGAAGAGAAGCAGATCCGTTTTCCAAATATTTCTA
258 -ATCTTCCTGAAAGAAGAGAAGCAGATCCGTTTTTCAAAGATTTCTA
* * * *
185883 GAGTCTTATCTCCCTGAAAAAATTAATGGAGCATATTTGTCTTCCCTTGGATCTTATCTCCCTGA
1 GAGTATTATCTCCCTGAAAAAA-GAGTGGAGCATATTCGTCTTCCCTTGGATCTTATCTCCCTGA
* *
185948 AAGAATAGTGGAACATATCCATTTTCCAAAGATTTCTCGAGTCTTATCTCCCTGAAAGAATAGTG
65 AAGAATAGTGGAGCAAATCCATTTTCCAAAGATTTCTCGAGTCTTATCTCCCTGAAAGAATAGTG
* *
186013 GAGCAGATTCATCTTCCCTTGGATTTTATCTCCCTGAAAGAAGAGTGGAGCAGATTCGTTTTCCA
130 GAGCAGATTCATCTTCCCTTGGATTATATCTCCCTGAAAGAAGAGTGGAGCAGATT-GTTTTACA
* * *
186078 AATATTTCTCGAGTCTTATCTCCCTGAAAGAATAGTGGAGCAGATTCATCCT-CC-TGGATCTTA
194 AAGATTTCTCGAGTCTTATCTCCCTGAAAGAATAGTGGAGCAGATTCGTCTTCCCTTGGATCTTA
* * * * *
186141 TCTCCCTGAAAGAATAGTGGAA-CATATCCGTTTTTCAAAGATCTCTC
259 TCTTCCTGAAAG-A-AG-AGAAGCAGATCCGTTTTTCAAAGATTTCTA
* *
186188 GAGTCTTATCTCCCTGAAAGAAGAGTGGAGCATATTC
1 GAGTATTATCTCCCTGAAAAAAGAGTGGAGCATATTC
186225 ATTTTCTAGA
Statistics
Matches: 544, Mismatches: 89, Indels: 35
0.81 0.13 0.05
Matches are distributed among these distances:
303 17 0.03
304 63 0.12
305 231 0.42
306 20 0.04
307 6 0.01
308 1 0.00
312 3 0.01
313 176 0.32
314 25 0.05
315 2 0.00
ACGTcount: A:0.29, C:0.20, G:0.19, T:0.33
Consensus pattern (303 bp):
GAGTATTATCTCCCTGAAAAAAGAGTGGAGCATATTCGTCTTCCCTTGGATCTTATCTCCCTGAA
AGAATAGTGGAGCAAATCCATTTTCCAAAGATTTCTCGAGTCTTATCTCCCTGAAAGAATAGTGG
AGCAGATTCATCTTCCCTTGGATTATATCTCCCTGAAAGAAGAGTGGAGCAGATTGTTTTACAAA
GATTTCTCGAGTCTTATCTCCCTGAAAGAATAGTGGAGCAGATTCGTCTTCCCTTGGATCTTATC
TTCCTGAAAGAAGAGAAGCAGATCCGTTTTTCAAAGATTTCTA
Found at i:186060 original size:47 final size:47
Alignment explanation
Indices: 185989--186161 Score: 197
Period size: 47 Copynumber: 3.6 Consensus size: 47
185979 ATTTCTCGAG
185989 TCTTATCTCCCTGAAAGAATAGTGGAGCAGATTCATCTTCCCTTGGA
1 TCTTATCTCCCTGAAAGAATAGTGGAGCAGATTCATCTTCCCTTGGA
* * * * * *
186036 TTTTATCTCCCTGAAAGAAGAGTGGAGCAGATTCGTTTTCCAAATATTTCTCGA
1 TCTTATCTCCCTGAAAGAATAGTGGAGCAGATTCATCTTCC------CT-TGGA
*
186090 GTCTTATCTCCCTGAAAGAATAGTGGAGCAGATTCATCCT-CC-TGGA
1 -TCTTATCTCCCTGAAAGAATAGTGGAGCAGATTCATCTTCCCTTGGA
186136 TCTTATCTCCCTGAAAGAATAGTGGA
1 TCTTATCTCCCTGAAAGAATAGTGGA
186162 ACATATCCGT
Statistics
Matches: 105, Mismatches: 13, Indels: 18
0.77 0.10 0.13
Matches are distributed among these distances:
45 26 0.25
46 3 0.03
47 37 0.35
53 1 0.01
54 4 0.04
55 34 0.32
ACGTcount: A:0.27, C:0.21, G:0.20, T:0.32
Consensus pattern (47 bp):
TCTTATCTCCCTGAAAGAATAGTGGAGCAGATTCATCTTCCCTTGGA
Found at i:188120 original size:15 final size:15
Alignment explanation
Indices: 188100--188128 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
188090 TTTTTATCTT
188100 TTAAAATTATTTTAC
1 TTAAAATTATTTTAC
188115 TTAAAATTATTTTA
1 TTAAAATTATTTTA
188129 AAAAATATTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.55
Consensus pattern (15 bp):
TTAAAATTATTTTAC
Found at i:188936 original size:115 final size:116
Alignment explanation
Indices: 188733--188976 Score: 339
Period size: 115 Copynumber: 2.1 Consensus size: 116
188723 GAGAAAGTAA
* * * *
188733 ATCAACATTACCAGTGGAAGGGTTCATAATGAGAAGAACTCGTCCGATGAGGGAAAAGAAGTTCC
1 ATCAACATTACCAATGGAAGGGTTCATAATGAGAAGAACTAGTCCCATGAGGGAAAAGAAGTTCA
* * * *
188798 TAATGATAAGTACTTGTTCAACCTTGGTTCGTCCATCACAAAAGGAGGTGG
66 TAATGAGAAGTAATTGTTCAACCTTAGCTCGTCCATCACAAAAGGAGGTGG
* *
188849 ATCAACATTTCCAATGGAA-GGTTCATAATGAGAAGAACTAGTCCCATGAGGGAGAAGAAGTTCA
1 ATCAACATTACCAATGGAAGGGTTCATAATGAGAAGAACTAGTCCCATGAGGGAAAAGAAGTTCA
* *
188913 TAATGAGAAG-AGATTGTTCAACCTTAGCTCGTCCATCACATAAGGAGTTGG
66 TAATGAGAAGTA-ATTGTTCAACCTTAGCTCGTCCATCACAAAAGGAGGTGG
* *
188964 ATCAGCATCACCA
1 ATCAACATTACCA
188977 TTTTGCTTGA
Statistics
Matches: 112, Mismatches: 15, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
114 1 0.01
115 94 0.84
116 17 0.15
ACGTcount: A:0.35, C:0.18, G:0.23, T:0.24
Consensus pattern (116 bp):
ATCAACATTACCAATGGAAGGGTTCATAATGAGAAGAACTAGTCCCATGAGGGAAAAGAAGTTCA
TAATGAGAAGTAATTGTTCAACCTTAGCTCGTCCATCACAAAAGGAGGTGG
Found at i:190725 original size:23 final size:23
Alignment explanation
Indices: 190699--190743 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
190689 AATATTAATT
*
190699 TTTTAGAATCTAGAATGGTTAGC
1 TTTTAGAATCTAGAATAGTTAGC
*
190722 TTTTAGAATCTAGGATAGTTAG
1 TTTTAGAATCTAGAATAGTTAG
190744 TGACCTCTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.31, C:0.07, G:0.22, T:0.40
Consensus pattern (23 bp):
TTTTAGAATCTAGAATAGTTAGC
Found at i:202002 original size:11 final size:11
Alignment explanation
Indices: 201986--202014 Score: 58
Period size: 11 Copynumber: 2.6 Consensus size: 11
201976 GATACTCAGG
201986 TAACTCATTTC
1 TAACTCATTTC
201997 TAACTCATTTC
1 TAACTCATTTC
202008 TAACTCA
1 TAACTCA
202015 CTTATACCAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.31, C:0.28, G:0.00, T:0.41
Consensus pattern (11 bp):
TAACTCATTTC
Found at i:202038 original size:11 final size:11
Alignment explanation
Indices: 201986--202038 Score: 56
Period size: 11 Copynumber: 5.0 Consensus size: 11
201976 GATACTCAGG
*
201986 TAACTCATTTC
1 TAACTCATTTA
*
201997 TAACTCATTTC
1 TAACTCATTTA
*
202008 TAACTCACTTA
1 TAACTCATTTA
202019 T-AC-CATTTA
1 TAACTCATTTA
*
202028 TAGCTCATTTA
1 TAACTCATTTA
202039 GATGAGATTT
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
9 6 0.17
10 3 0.08
11 27 0.75
ACGTcount: A:0.30, C:0.25, G:0.02, T:0.43
Consensus pattern (11 bp):
TAACTCATTTA
Found at i:213374 original size:3 final size:3
Alignment explanation
Indices: 213366--213413 Score: 96
Period size: 3 Copynumber: 16.0 Consensus size: 3
213356 CATCTCAAAC
213366 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
213414 GGCTTAATAT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 45 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:213576 original size:2 final size:2
Alignment explanation
Indices: 213571--213596 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
213561 TATTTTTTAT
213571 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
213597 ATTTGAACAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:214553 original size:3 final size:3
Alignment explanation
Indices: 214545--214570 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
214535 CATGAGGTGG
214545 TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TT
214571 CTAGTATATT
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:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:221475 original size:3 final size:3
Alignment explanation
Indices: 221460--221529 Score: 99
Period size: 3 Copynumber: 23.7 Consensus size: 3
221450 TTTTATTAAC
* *
221460 TAT TAT TAA TAT TAT TAAT T-T T-T TAT TAT TAT TGT TAT TAT TAT
1 TAT TAT TAT TAT TAT T-AT TAT TAT TAT TAT TAT TAT TAT TAT TAT
221504 TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TA
221530 CTCTATTTTA
Statistics
Matches: 61, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
2 4 0.07
3 54 0.89
4 3 0.05
ACGTcount: A:0.33, C:0.00, G:0.01, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:223144 original size:2 final size:2
Alignment explanation
Indices: 223137--223177 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
223127 ATTTACATAA
223137 AT AT AT AT 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 AT AT AT AT A
223178 CTTATTCATA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:225654 original size:21 final size:21
Alignment explanation
Indices: 225629--225668 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
225619 AAACCATTCA
225629 GGGGGAATCGATACCCTCTTG
1 GGGGGAATCGATACCCTCTTG
* * *
225650 GGGGGGATCGGTTCCCTCT
1 GGGGGAATCGATACCCTCT
225669 GGACAATCTG
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.12, C:0.25, G:0.38, T:0.25
Consensus pattern (21 bp):
GGGGGAATCGATACCCTCTTG
Found at i:225939 original size:3 final size:3
Alignment explanation
Indices: 225921--225979 Score: 84
Period size: 3 Copynumber: 19.7 Consensus size: 3
225911 CATAATTATT
*
225921 TAA TAA AAA T-A TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TTAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA -TAA
*
225966 TAA TAT TAA TAA TA
1 TAA TAA TAA TAA TA
225980 GTTAATAAAA
Statistics
Matches: 50, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
2 2 0.04
3 45 0.90
4 3 0.06
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:226421 original size:137 final size:137
Alignment explanation
Indices: 226168--226520 Score: 454
Period size: 137 Copynumber: 2.6 Consensus size: 137
226158 TAGGTAATTT
* * * ** * ** * ***
226168 TGGATATAACATGGTTCCTACGTGATGAGGAAATCTGGCTATCTAAGGATGACACGGCTCCTACG
1 TGGAGATAACATAGTTCATACACGATGAGGAAGTCTGATTATCTAAGGTTGACGTTGCTCCTACG
* * *
226233 TGATGAGGAGATCTAGTCGGTGGATGAAACTGTTCCTACGTGATTAAGACGGTTCGTCATCTTTA
66 TGATGAGGAGATCTAGTCGGTGGATGAAACGGTTCCTACGTGATGAAGACGGTTCGCCATCTTTA
226298 GGGATAA
131 GGGATAA
* * *
226305 TGGAGATAACATAGTTCCTATACGATTAGGAAGTCTGATTATCTAAGGTTGACGTTGCTCCTACG
1 TGGAGATAACATAGTTCATACACGATGAGGAAGTCTGATTATCTAAGGTTGACGTTGCTCCTACG
* * * * * * *
226370 TGATGAGGAGATTTGGTCGGTGGATGACACGGTTTCTATGTGATGAGGACGGTTGGCCATCTTTA
66 TGATGAGGAGATCTAGTCGGTGGATGAAACGGTTCCTACGTGATGAAGACGGTTCGCCATCTTTA
226435 GGGATAA
131 GGGATAA
* * *
226442 TGGAGATAACATGGTTCATACGCGATGAGGAAGTCTGGTTATCTAAGGTTGACGTTGCTCCTACG
1 TGGAGATAACATAGTTCATACACGATGAGGAAGTCTGATTATCTAAGGTTGACGTTGCTCCTACG
226507 TGATGAGGAGATCT
66 TGATGAGGAGATCT
226521 GTCATAGTTG
Statistics
Matches: 186, Mismatches: 30, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
137 186 1.00
ACGTcount: A:0.26, C:0.15, G:0.29, T:0.30
Consensus pattern (137 bp):
TGGAGATAACATAGTTCATACACGATGAGGAAGTCTGATTATCTAAGGTTGACGTTGCTCCTACG
TGATGAGGAGATCTAGTCGGTGGATGAAACGGTTCCTACGTGATGAAGACGGTTCGCCATCTTTA
GGGATAA
Found at i:230087 original size:21 final size:22
Alignment explanation
Indices: 230041--230088 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
230031 CTATTTTTTT
**
230041 AAAACAAAAAACAAAAAAGGCA
1 AAAACAAAAAACAAAAAAAACA
230063 AAAAC-AAAAACAAAAACAAACA
1 AAAACAAAAAACAAAAA-AAACA
230085 AAAA
1 AAAA
230089 AGCCAAAATT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
21 11 0.48
22 12 0.52
ACGTcount: A:0.81, C:0.15, G:0.04, T:0.00
Consensus pattern (22 bp):
AAAACAAAAAACAAAAAAAACA
Found at i:234381 original size:23 final size:22
Alignment explanation
Indices: 234343--234385 Score: 68
Period size: 23 Copynumber: 1.9 Consensus size: 22
234333 CAATTCCTTT
234343 ATCTTTTCTTTATCTTGTTTTA
1 ATCTTTTCTTTATCTTGTTTTA
*
234365 ATCTTATTTTTTATCTTGTTT
1 ATCTT-TTCTTTATCTTGTTT
234386 CCAGCACCAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 5 0.26
23 14 0.74
ACGTcount: A:0.14, C:0.12, G:0.05, T:0.70
Consensus pattern (22 bp):
ATCTTTTCTTTATCTTGTTTTA
Found at i:244617 original size:37 final size:37
Alignment explanation
Indices: 244559--244661 Score: 125
Period size: 37 Copynumber: 2.8 Consensus size: 37
244549 CCTTTTCGTC
*
244559 CTACTAGAATTCAAACTCCTAAAAATAGGATAGAATT
1 CTACTAGGATTCAAACTCCTAAAAATAGGATAGAATT
* * * *
244596 TTGCTAGGATTCAAACTCCTAAAAATAAGATAGAGTT
1 CTACTAGGATTCAAACTCCTAAAAATAGGATAGAATT
* * * *
244633 CTATTATGATTTAAACTCCTAAAGATAGG
1 CTACTAGGATTCAAACTCCTAAAAATAGG
244662 GTCCACAAGC
Statistics
Matches: 54, Mismatches: 12, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
37 54 1.00
ACGTcount: A:0.42, C:0.15, G:0.14, T:0.30
Consensus pattern (37 bp):
CTACTAGGATTCAAACTCCTAAAAATAGGATAGAATT
Found at i:245524 original size:4 final size:4
Alignment explanation
Indices: 245511--245566 Score: 62
Period size: 4 Copynumber: 14.2 Consensus size: 4
245501 TATATATTAA
**
245511 TATT TCATT TATT TATT TATT TATT TATT TATT T-TT CCTT TATT T-TT
1 TATT T-ATT TATT TATT TATT TATT TATT TATT TATT TATT TATT TATT
*
245558 TACT TATT T
1 TATT TATT T
245567 TATTCTTCAT
Statistics
Matches: 44, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
3 5 0.11
4 35 0.80
5 4 0.09
ACGTcount: A:0.20, C:0.07, G:0.00, T:0.73
Consensus pattern (4 bp):
TATT
Found at i:245532 original size:12 final size:11
Alignment explanation
Indices: 245511--245589 Score: 68
Period size: 12 Copynumber: 6.7 Consensus size: 11
245501 TATATATTAA
245511 TATTTCATTTATT
1 TATTT-ATTT-TT
245524 TATTTATTTATT
1 TATTTATTT-TT
245536 TATTTATTTTT
1 TATTTATTTTT
**
245547 CCTTTATTTTT
1 TATTTATTTTT
*
245558 TACTTATTTTAT
1 TATTTATTTT-T
* *
245570 TCTTCATTTTT
1 TATTTATTTTT
245581 TCATTTATT
1 T-ATTTATT
245590 CATTTTTCCC
Statistics
Matches: 54, Mismatches: 10, Indels: 5
0.78 0.14 0.07
Matches are distributed among these distances:
11 20 0.37
12 29 0.54
13 5 0.09
ACGTcount: A:0.19, C:0.09, G:0.00, T:0.72
Consensus pattern (11 bp):
TATTTATTTTT
Found at i:250061 original size:19 final size:19
Alignment explanation
Indices: 250032--250089 Score: 77
Period size: 19 Copynumber: 3.2 Consensus size: 19
250022 AATCAAGAAC
*
250032 AAAAAAGAAAGAAGCAAAAG
1 AAAAAA-AAAGAAACAAAAG
250052 AAAAAAAAAGAAACAAAAG
1 AAAAAAAAAGAAACAAAAG
250071 --AAAAAAAGAAA-AAAAG
1 AAAAAAAAAGAAACAAAAG
250087 AAA
1 AAA
250090 GAACAAAATC
Statistics
Matches: 35, Mismatches: 1, Indels: 6
0.83 0.02 0.14
Matches are distributed among these distances:
16 5 0.14
17 11 0.31
18 1 0.03
19 12 0.34
20 6 0.17
ACGTcount: A:0.83, C:0.03, G:0.14, T:0.00
Consensus pattern (19 bp):
AAAAAAAAAGAAACAAAAG
Found at i:250077 original size:8 final size:8
Alignment explanation
Indices: 250032--250089 Score: 66
Period size: 8 Copynumber: 7.2 Consensus size: 8
250022 AATCAAGAAC
250032 AAAAAAG-
1 AAAAAAGA
*
250039 AAAGAAGCA
1 AAAAAAG-A
*
250048 AAAGAA-A
1 AAAAAAGA
250055 AAAAAAGA
1 AAAAAAGA
250063 AACAAAAGA
1 AA-AAAAGA
250072 AAAAAAGA
1 AAAAAAGA
250080 AAAAAAGA
1 AAAAAAGA
250088 AA
1 AA
250090 GAACAAAATC
Statistics
Matches: 45, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
7 12 0.27
8 19 0.42
9 14 0.31
ACGTcount: A:0.83, C:0.03, G:0.14, T:0.00
Consensus pattern (8 bp):
AAAAAAGA
Found at i:250085 original size:27 final size:27
Alignment explanation
Indices: 250047--250110 Score: 78
Period size: 27 Copynumber: 2.4 Consensus size: 27
250037 AGAAAGAAGC
250047 AAAAG-AAAAAA-AAAGAAACAAAAGAAA
1 AAAAGAAAAAAAGAAAG-AACAAAA-AAA
**
250074 AAAAGAAAAAAAGAAAGAACAAAATCA
1 AAAAGAAAAAAAGAAAGAACAAAAAAA
250101 AAAAGAAAAA
1 AAAAGAAAAA
250111 GGGACAAAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
27 16 0.48
28 13 0.39
29 4 0.12
ACGTcount: A:0.83, C:0.05, G:0.11, T:0.02
Consensus pattern (27 bp):
AAAAGAAAAAAAGAAAGAACAAAAAAA
Found at i:250090 original size:20 final size:20
Alignment explanation
Indices: 250032--250097 Score: 66
Period size: 20 Copynumber: 3.2 Consensus size: 20
250022 AATCAAGAAC
*
250032 AAAAAAGAAAGAAGCAAAAG-
1 AAAAAAGAAAGAA-AAAAAGA
250052 AAAAAA-AAAGAAACAAAAGA
1 AAAAAAGAAAGAAA-AAAAGA
250072 AAAAAAGAAA-AAAAGAAAGA
1 AAAAAAGAAAGAAAA-AAAGA
250092 ACAAAA
1 A-AAAA
250098 TCAAAAAGAA
Statistics
Matches: 40, Mismatches: 1, Indels: 9
0.80 0.02 0.18
Matches are distributed among these distances:
19 12 0.30
20 21 0.52
21 7 0.17
ACGTcount: A:0.82, C:0.05, G:0.14, T:0.00
Consensus pattern (20 bp):
AAAAAAGAAAGAAAAAAAGA
Found at i:250960 original size:18 final size:18
Alignment explanation
Indices: 250937--250971 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
250927 GAAAGGGACA
250937 ATATTTTCAAAACTTTTG
1 ATATTTTCAAAACTTTTG
*
250955 ATATTTTCAGAACTTTT
1 ATATTTTCAAAACTTTT
250972 AAAATAAAGG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.31, C:0.11, G:0.06, T:0.51
Consensus pattern (18 bp):
ATATTTTCAAAACTTTTG
Found at i:251900 original size:105 final size:106
Alignment explanation
Indices: 251675--252618 Score: 1254
Period size: 105 Copynumber: 9.0 Consensus size: 106
251665 ATATCGTGCC
* * * * *
251675 ACTCGAGACAACACAAGTTCAACTTCACGACGAAGGGACGGCTGGTTGTCAACAAACAACTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAATTTCCC
251740 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* *
251781 ACTCCAAACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAATAATTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAATTTCCC
*
251846 AATTT-AGAGCCAATTTCAACTTCACAACGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
*
251886 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAATATCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAATTTCCC
*
251951 AATTTCAGAGCCAATTTCAATTTCACAGCGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * *
251992 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCTC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAATTTCCC
* *
252057 ATTTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * * * * * * *
252098 ACTCAAGACAACACAAGTTCAACTTCACAACGAATGGACGGCTAGTTGTCAA-CAATAATTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAATTTCCC
* *
252162 AATTTCAGAGCCAGTTTCAACTTCGCAGCGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
*
252203 ACTCCAGACAACGCAAGTTCAACTTCACGATGAAGGGA-C-CTGGTTGTCAATAAACAATTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAATTTCCC
*
252266 AATTT-AGATCCAATTT-AACTTCACAGCGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * * *
252305 ACTCCAAACAACGCAAGTTCAACTTCACGACGAAGGGACTGCTGATTGTCAATAAACAACTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAATTTCCC
* * *
252370 AATTTCAGAGTCAATTTCAAC-TCTCAGCGAAGGATCTTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* ** * * * *
252410 AC-CCAAGACAACACAAGCCCAACTTCACGACGAAGGGACGGTTGATTGTCAA-CAA-AATTT--
1 ACTCC-AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAATTTCC
**
252470 C-A-TTCAGAGTTAATTTCAACTTCACAGCGAAGGATA-TGG
65 CAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
** * * * * * * *
252509 ACTAGAGACAACACAAGTTCAACTTTACAAAGAAGGGACGGCTGGTTGTCAACAAATAATTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAATTTCCC
** * *
252574 TGTTCCAGAGCCAATTTCAACTTCAC-GACGGAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAG-CGAAGGATATTGG
252615 ACTC
1 ACTC
252619 GGAACAATGC
Statistics
Matches: 739, Mismatches: 82, Indels: 34
0.86 0.10 0.04
Matches are distributed among these distances:
99 62 0.08
100 16 0.02
101 6 0.01
102 58 0.08
103 24 0.03
104 47 0.06
105 276 0.37
106 250 0.34
ACGTcount: A:0.34, C:0.24, G:0.18, T:0.23
Consensus pattern (106 bp):
ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAATTTCCC
AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
Found at i:251953 original size:211 final size:210
Alignment explanation
Indices: 251675--252618 Score: 1266
Period size: 211 Copynumber: 4.5 Consensus size: 210
251665 ATATCGTGCC
*
251675 ACTCGAGACAACACAAGTTCAACTTCACGACGAAGGGACGGCTGGTTGTCAACAAACAACTTCCC
1 ACTCCAGACAACACAAGTTCAACTTCACGACGAAGGGACGGCTGGTTGTCAACAAACAA-TTCCC
251740 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAAACAACGCAAGTTCAACT
65 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAAACAACGCAAGTTCAACT
*
251805 TCACGACGAAGGGACCGCTGGTTGTCAATAAATAATTTCCCAATTTAGAGCCAATTTCAACTTCA
130 TCACGACGAAGGGACCGCTGGTTGTCAATAAACAATTTCCCAATTTAGAGCCAATTTCAACTTCA
251870 CAACGAAGGATATTGG
195 CAACGAAGGATATTGG
* * *
251886 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAATATCCC
1 ACTCCAGACAACACAAGTTCAACTTCACGACGAAGGGACGGCTGGTTGTCAACAAACAAT-TCCC
* *
251951 AATTTCAGAGCCAATTTCAATTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACT
65 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAAACAACGCAAGTTCAACT
* * * *
252016 TCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCTCATTTTCAGAGCCAATTTCAACTTC
130 TCACGACGAAGGGACCGCTGGTTGTCAATAAACAATTTCCCAATTT-AGAGCCAATTTCAACTTC
252081 ACAACGAAGGATATTGG
194 ACAACGAAGGATATTGG
* * * * *
252098 ACTCAAGACAACACAAGTTCAACTTCACAACGAATGGACGGCTAGTTGTCAACAATA-ATTTCCC
1 ACTCCAGACAACACAAGTTCAACTTCACGACGAAGGGACGGCTGGTTGTCAACAA-ACAATTCCC
* * *
252162 AATTTCAGAGCCAGTTTCAACTTCGCAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACT
65 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAAACAACGCAAGTTCAACT
* *
252227 TCACGATGAAGGGA-C-CTGGTTGTCAATAAACAATTTCCCAATTTAGATCCAATTT-AACTTCA
130 TCACGACGAAGGGACCGCTGGTTGTCAATAAACAATTTCCCAATTTAGAGCCAATTTCAACTTCA
*
252289 CAGCGAAGGATATTGG
195 CAACGAAGGATATTGG
* * * * *
252305 ACTCCAAACAACGCAAGTTCAACTTCACGACGAAGGGACTGCTGATTGTCAATAAACAACTTCCC
1 ACTCCAGACAACACAAGTTCAACTTCACGACGAAGGGACGGCTGGTTGTCAACAAACAA-TTCCC
* * * * **
252370 AATTTCAGAGTCAATTTCAAC-TCTCAGCGAAGGATCTTGGAC-CCAAGACAACACAAGCCCAAC
65 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAA-ACAACGCAAGTTCAAC
* * * * * **
252433 TTCACGACGAAGGGACGGTTGATTGTCAA-CAA-AATTT--C-ATTCAGAGTTAATTTCAACTTC
129 TTCACGACGAAGGGACCGCTGGTTGTCAATAAACAATTTCCCAATTTAGAGCCAATTTCAACTTC
*
252493 ACAGCGAAGGATA-TGG
194 ACAACGAAGGATATTGG
** * * * *
252509 ACTAGAGACAACACAAGTTCAACTTTACAAAGAAGGGACGGCTGGTTGTCAACAAATAATTTCCC
1 ACTCCAGACAACACAAGTTCAACTTCACGACGAAGGGACGGCTGGTTGTCAACAAACAA-TTCCC
** * *
252574 TGTTCCAGAGCCAATTTCAACTTCAC-GACGGAGGATATTGGACTC
65 AATTTCAGAGCCAATTTCAACTTCACAG-CGAAGGATATTGGACTC
252619 GGAACAATGC
Statistics
Matches: 646, Mismatches: 75, Indels: 29
0.86 0.10 0.04
Matches are distributed among these distances:
204 85 0.13
205 36 0.06
206 5 0.01
207 120 0.19
208 36 0.06
209 34 0.05
210 2 0.00
211 242 0.37
212 85 0.13
213 1 0.00
ACGTcount: A:0.34, C:0.24, G:0.18, T:0.23
Consensus pattern (210 bp):
ACTCCAGACAACACAAGTTCAACTTCACGACGAAGGGACGGCTGGTTGTCAACAAACAATTCCCA
ATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAAACAACGCAAGTTCAACTT
CACGACGAAGGGACCGCTGGTTGTCAATAAACAATTTCCCAATTTAGAGCCAATTTCAACTTCAC
AACGAAGGATATTGG
Found at i:253369 original size:35 final size:36
Alignment explanation
Indices: 253314--253414 Score: 132
Period size: 35 Copynumber: 2.8 Consensus size: 36
253304 CACCTTTTCG
*
253314 TCTACTAGAATTCAAACTCCTAAAAATAGATAGAAT
1 TCTACTAGGATTCAAACTCCTAAAAATAGATAGAAT
* *
253350 T-TTCTAGGATTCAAACTCCTAAAAATATGATAGAGT
1 TCTACTAGGATTCAAACTCCTAAAAATA-GATAGAAT
* * *
253386 TCTACTATGATTTAAACTCCTAAAGATAG
1 TCTACTAGGATTCAAACTCCTAAAAATAG
253415 GATCCACAAG
Statistics
Matches: 56, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
35 24 0.43
36 10 0.18
37 22 0.39
ACGTcount: A:0.42, C:0.16, G:0.11, T:0.32
Consensus pattern (36 bp):
TCTACTAGGATTCAAACTCCTAAAAATAGATAGAAT
Found at i:254281 original size:13 final size:14
Alignment explanation
Indices: 254249--254287 Score: 53
Period size: 13 Copynumber: 2.8 Consensus size: 14
254239 TATATATATA
*
254249 TATTTTATATTCATT
1 TATTTT-TATTTATT
254264 TATTTTTATTTA-T
1 TATTTTTATTTATT
254277 TATTTTTATTT
1 TATTTTTATTT
254288 TTCCTTTTAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 12 0.52
14 5 0.22
15 6 0.26
ACGTcount: A:0.23, C:0.03, G:0.00, T:0.74
Consensus pattern (14 bp):
TATTTTTATTTATT
Found at i:254295 original size:13 final size:12
Alignment explanation
Indices: 254262--254340 Score: 54
Period size: 12 Copynumber: 6.2 Consensus size: 12
254252 TTTATATTCA
254262 TTTATTTTTATT
1 TTTATTTTTATT
254274 TATTATTTTTATT
1 T-TTATTTTTATT
**
254287 TTTCCTTTTATT
1 TTTATTTTTATT
*
254299 TTT-TTACTTA-T
1 TTTATT-TTTATT
*
254310 TTTATTCTTCATT
1 TTTATT-TTTATT
254323 TTTCATTTATTCATT
1 TTT-ATTT-TT-ATT
254338 TTT
1 TTT
254341 CCCTCTAACA
Statistics
Matches: 52, Mismatches: 8, Indels: 11
0.73 0.11 0.15
Matches are distributed among these distances:
11 5 0.10
12 20 0.38
13 17 0.33
14 4 0.08
15 6 0.12
ACGTcount: A:0.16, C:0.09, G:0.00, T:0.75
Consensus pattern (12 bp):
TTTATTTTTATT
Found at i:254313 original size:29 final size:31
Alignment explanation
Indices: 254258--254324 Score: 79
Period size: 29 Copynumber: 2.3 Consensus size: 31
254248 ATATTTTATA
*
254258 TTCA-TTTATTTTTATTTATTATTTTTATTT
1 TTCATTTTATTTTTATTTATTATTTTTATTC
*
254288 TTCCTTTTA-TTTT-TTTACTTA-TTTTATTC
1 TTCATTTTATTTTTATTTA-TTATTTTTATTC
254317 TTCATTTT
1 TTCATTTT
254325 TCATTTATTC
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
29 18 0.56
30 10 0.31
31 4 0.12
ACGTcount: A:0.16, C:0.09, G:0.00, T:0.75
Consensus pattern (31 bp):
TTCATTTTATTTTTATTTATTATTTTTATTC
Found at i:255492 original size:22 final size:21
Alignment explanation
Indices: 255467--255507 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
255457 ATTTTCAAAC
255467 AAAAGATCATAATTGTTTTTTT
1 AAAAGAT-ATAATTGTTTTTTT
* *
255489 AAAATATTTAATTGTTTTT
1 AAAAGATATAATTGTTTTT
255508 CAAAAAAAAG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 11 0.65
22 6 0.35
ACGTcount: A:0.37, C:0.02, G:0.07, T:0.54
Consensus pattern (21 bp):
AAAAGATATAATTGTTTTTTT
Found at i:260977 original size:16 final size:15
Alignment explanation
Indices: 260952--260981 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
260942 CTTAGTTTAC
260952 AAATTTTATAATTTT
1 AAATTTTATAATTTT
260967 AAATATTTATAATTT
1 AAAT-TTTATAATTT
260982 ATTATGCTGC
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:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (15 bp):
AAATTTTATAATTTT
Found at i:279320 original size:14 final size:16
Alignment explanation
Indices: 279284--279328 Score: 67
Period size: 14 Copynumber: 2.9 Consensus size: 16
279274 GACTTTTGAC
279284 TGTAGAAAAACAGACTG
1 TGTAG-AAAACAGACTG
279301 TGTAGAAAACAGA-T-
1 TGTAGAAAACAGACTG
279315 TGTAGAAAACAGAC
1 TGTAGAAAACAGAC
279329 AAGTCTGTTA
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
14 13 0.48
15 1 0.04
16 8 0.30
17 5 0.19
ACGTcount: A:0.49, C:0.11, G:0.22, T:0.18
Consensus pattern (16 bp):
TGTAGAAAACAGACTG
Done.