Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167989.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_246, 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: 43605
ACGTcount: A:0.36, C:0.14, G:0.15, T:0.35
Found at i:2733 original size:9 final size:9
Alignment explanation
Indices: 2719--2819 Score: 99
Period size: 9 Copynumber: 11.8 Consensus size: 9
2709 TATGCTTGAA
2719 AAAAAAATG
1 AAAAAAATG
2728 AAAAAAATG
1 AAAAAAATG
2737 --AAAAA-G
1 AAAAAAATG
2743 AAAAAAATG
1 AAAAAAATG
2752 -AAAAAA-G
1 AAAAAAATG
2759 AAAAAAATG
1 AAAAAAATG
*
2768 AAAAAAGA-A
1 AAAAAA-ATG
2777 AAAAAAATG
1 AAAAAAATG
*
2786 AAAAAAAAGG
1 -AAAAAAATG
*
2796 AAAAAAAAG
1 AAAAAAATG
*
2805 -GAAAAATG
1 AAAAAAATG
2813 AAAAAAA
1 AAAAAAA
2820 AATGAATGAA
Statistics
Matches: 76, Mismatches: 7, Indels: 18
0.75 0.07 0.18
Matches are distributed among these distances:
6 1 0.01
7 6 0.08
8 24 0.32
9 36 0.47
10 9 0.12
ACGTcount: A:0.81, C:0.00, G:0.13, T:0.06
Consensus pattern (9 bp):
AAAAAAATG
Found at i:2751 original size:24 final size:25
Alignment explanation
Indices: 2719--2790 Score: 87
Period size: 24 Copynumber: 2.9 Consensus size: 25
2709 TATGCTTGAA
2719 AAAAAAATGAAAAAAATGAAAAA-G
1 AAAAAAATGAAAAAAATGAAAAATG
*
2743 AAAAAAATGAAAAAAGA-AAAAAATG
1 AAAAAAATGAAAAAA-ATGAAAAATG
*
2768 AAAAAAGA-AAAAAAAATGAAAAA
1 AAAAAA-ATGAAAAAAATGAAAAA
2791 AAAGGAAAAA
Statistics
Matches: 41, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
24 21 0.51
25 19 0.46
26 1 0.02
ACGTcount: A:0.82, C:0.00, G:0.11, T:0.07
Consensus pattern (25 bp):
AAAAAAATGAAAAAAATGAAAAATG
Found at i:2772 original size:38 final size:39
Alignment explanation
Indices: 2718--2831 Score: 128
Period size: 38 Copynumber: 2.9 Consensus size: 39
2708 CTATGCTTGA
2718 AAAAAAAATGAAAAAAATGAAAAAGAAAA-AAATGAAAAAAG
1 AAAAAAAATG--AAAAATGAAAAA-AAAATAAATGAAAAAAG
* *
2759 -AAAAAAATGAAAAAAGAAAAAAAAATGAAA--AAAAAGG
1 AAAAAAAATGAAAAATGAAAAAAAAAT-AAATGAAAAAAG
* *
2796 AAAAAAAAGGAAAAATGAAAAAAAAATGAATGAAAA
1 AAAAAAAATGAAAAATGAAAAAAAAATAAATGAAAA
2832 GGAGACTTAA
Statistics
Matches: 63, Mismatches: 5, Indels: 12
0.79 0.06 0.15
Matches are distributed among these distances:
37 12 0.19
38 35 0.56
39 7 0.11
40 9 0.14
ACGTcount: A:0.80, C:0.00, G:0.13, T:0.07
Consensus pattern (39 bp):
AAAAAAAATGAAAAATGAAAAAAAAATAAATGAAAAAAG
Found at i:2820 original size:10 final size:10
Alignment explanation
Indices: 2718--2810 Score: 79
Period size: 10 Copynumber: 9.5 Consensus size: 10
2708 CTATGCTTGA
2718 AAAAAAAATG
1 AAAAAAAATG
2728 -AAAAAAATG
1 AAAAAAAATG
*
2737 AAAAAGAAA-A
1 AAAAA-AAATG
*
2747 AAATGAAAAAAG
1 AAA--AAAAATG
2759 -AAAAAAATG
1 AAAAAAAATG
*
2768 AAAAAAGA--
1 AAAAAAAATG
2776 AAAAAAAATG
1 AAAAAAAATG
*
2786 AAAAAAAAGG
1 AAAAAAAATG
*
2796 AAAAAAAAGG
1 AAAAAAAATG
2806 AAAAA
1 AAAAA
2811 TGAAAAAAAA
Statistics
Matches: 69, Mismatches: 6, Indels: 16
0.76 0.07 0.18
Matches are distributed among these distances:
8 7 0.10
9 15 0.22
10 37 0.54
11 8 0.12
12 2 0.03
ACGTcount: A:0.82, C:0.00, G:0.13, T:0.05
Consensus pattern (10 bp):
AAAAAAAATG
Found at i:2832 original size:38 final size:39
Alignment explanation
Indices: 2730--2836 Score: 130
Period size: 38 Copynumber: 2.8 Consensus size: 39
2720 AAAAAATGAA
* * *
2730 AAAAATGAAAAAGAAAA-AAATGAAAA-AAGAAAAAAATG
1 AAAAATGAAAAA-AAAATGAATGAAAAGGAGAAAAAAAGG
* **
2768 AAAAAAGAAAAAAAAATGAAAAAAAAGGA-AAAAAAAGG
1 AAAAATGAAAAAAAAATGAATGAAAAGGAGAAAAAAAGG
2806 AAAAATGAAAAAAAAATGAATGAAAAGGAGA
1 AAAAATGAAAAAAAAATGAATGAAAAGGAGA
2837 CTTAAGGCGA
Statistics
Matches: 57, Mismatches: 9, Indels: 5
0.80 0.13 0.07
Matches are distributed among these distances:
37 4 0.07
38 51 0.89
39 2 0.04
ACGTcount: A:0.78, C:0.00, G:0.16, T:0.07
Consensus pattern (39 bp):
AAAAATGAAAAAAAAATGAATGAAAAGGAGAAAAAAAGG
Found at i:3164 original size:5 final size:5
Alignment explanation
Indices: 3150--3275 Score: 91
Period size: 5 Copynumber: 24.4 Consensus size: 5
3140 AAGTCTATGC
*
3150 TATTT T-TTT TATTT TCATTT T-TTAT T-TTT TATTT TATTT TATTT TATCT
1 TATTT TATTT TATTT T-ATTT TATT-T TATTT TATTT TATTT TATTT TATTT
** *
3199 TATTTT TATTTT TATCC TATTTT TATTT TATTT T-TAT TATTAT TATTT
1 TA-TTT TA-TTT TATTT TA-TTT TATTT TATTT TATTT TATT-T TATTT
*
3247 TATATAT T-TTT TCTTT TATTTT TATTT TA
1 TAT-T-T TATTT TATTT TA-TTT TATTT TA
3276 GCTATTTACT
Statistics
Matches: 100, Mismatches: 9, Indels: 24
0.75 0.07 0.18
Matches are distributed among these distances:
4 13 0.13
5 55 0.55
6 30 0.30
7 2 0.02
ACGTcount: A:0.19, C:0.04, G:0.00, T:0.77
Consensus pattern (5 bp):
TATTT
Found at i:3171 original size:7 final size:7
Alignment explanation
Indices: 3154--3274 Score: 56
Period size: 7 Copynumber: 16.6 Consensus size: 7
3144 CTATGCTATT
3154 TTTTTTA
1 TTTTTTA
*
3161 -TTTTCA
1 TTTTTTA
3167 TTTTTTA
1 TTTTTTA
3174 TTTTTTA
1 TTTTTTA
3181 TTTTATT-
1 TTTT-TTA
3188 TTATTTTA
1 TT-TTTTA
*
3196 TCTTATTTT
1 T-TT-TTTA
3205 TATTTTTA
1 T-TTTTTA
3213 TCCTATTTT-
1 T--T-TTTTA
*
3222 TATTTTA
1 TTTTTTA
3229 -TTTTTA
1 TTTTTTA
3235 TTATTATTA
1 TT-TT-TTA
*
3244 TTTTATA
1 TTTTTTA
3251 TATTTTT-
1 T-TTTTTA
*
3258 TCTTTTA
1 TTTTTTA
3265 -TTTTTA
1 TTTTTTA
3271 TTTT
1 TTTT
3275 AGCTATTTAC
Statistics
Matches: 87, Mismatches: 12, Indels: 30
0.67 0.09 0.23
Matches are distributed among these distances:
6 23 0.26
7 28 0.32
8 18 0.21
9 14 0.16
10 4 0.05
ACGTcount: A:0.18, C:0.04, G:0.00, T:0.78
Consensus pattern (7 bp):
TTTTTTA
Found at i:3177 original size:6 final size:6
Alignment explanation
Indices: 3155--3274 Score: 85
Period size: 6 Copynumber: 20.7 Consensus size: 6
3145 TATGCTATTT
* *
3155 TTTTTA TTTTCA TTTTTTA TTTTT- TATTTTA -TTTTA -TTTTA -TCTTA
1 TTTTTA TTTTTA -TTTTTA TTTTTA T-TTTTA TTTTTA TTTTTA TTTTTA
** *
3201 TTTTTA TTTTTA -TCCTA TTTTTA -TTTTA TTTTTA TTATTA TTATTT-
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TT-TTTA
* *
3247 TATATA TTTTT- TCTTTTA TTTTTA TTTT
1 TTTTTA TTTTTA T-TTTTA TTTTTA TTTT
3275 AGCTATTTAC
Statistics
Matches: 90, Mismatches: 14, Indels: 20
0.73 0.11 0.16
Matches are distributed among these distances:
5 26 0.29
6 56 0.62
7 8 0.09
ACGTcount: A:0.18, C:0.04, G:0.00, T:0.78
Consensus pattern (6 bp):
TTTTTA
Found at i:3178 original size:22 final size:20
Alignment explanation
Indices: 3150--3274 Score: 103
Period size: 20 Copynumber: 6.0 Consensus size: 20
3140 AAGTCTATGC
3150 TATTTTTTTTATTTTCATTTT
1 TATTTTTTTTATTTT-ATTTT
*
3171 T-TATTTTTTATTTTA-TTT
1 TATTTTTTTTATTTTATTTT
*
3189 TATTTTATCTTATTTTTATTTT
1 TATTTT-TTTTA-TTTTATTTT
*
3211 TATCCTATTTTTATTTTATTTT
1 TAT--TTTTTTTATTTTATTTT
* *
3233 TATTATTATTATTTTATATATT
1 TATTTTTTTTATTTTAT-T-TT
*
3255 T-TTTCTTTTATTTTTATTTT
1 TATTTTTTTTA-TTTTATTTT
3275 AGCTATTTAC
Statistics
Matches: 86, Mismatches: 9, Indels: 19
0.75 0.08 0.17
Matches are distributed among these distances:
18 4 0.05
19 4 0.05
20 31 0.36
21 14 0.16
22 27 0.31
23 4 0.05
24 2 0.02
ACGTcount: A:0.18, C:0.04, G:0.00, T:0.78
Consensus pattern (20 bp):
TATTTTTTTTATTTTATTTT
Found at i:3189 original size:11 final size:11
Alignment explanation
Indices: 3169--3275 Score: 94
Period size: 11 Copynumber: 9.5 Consensus size: 11
3159 TATTTTCATT
3169 TTTTATTTTTTA
1 TTTTA-TTTTTA
3181 TTTTA-TTTTA
1 TTTTATTTTTA
*
3191 TTTTA-TCTTA
1 TTTTATTTTTA
3201 TTTTTATTTTTA
1 -TTTTATTTTTA
**
3213 TCCTATTTTTA
1 TTTTATTTTTA
3224 TTTTATTTTTA
1 TTTTATTTTTA
3235 TTATTATTATTT-
1 TT-TTATT-TTTA
* *
3247 TATATATTTTTTC
1 T-TTTA-TTTTTA
3260 TTTTATTTTTA
1 TTTTATTTTTA
3271 TTTTA
1 TTTTA
3276 GCTATTTACT
Statistics
Matches: 79, Mismatches: 9, Indels: 15
0.77 0.09 0.15
Matches are distributed among these distances:
10 14 0.18
11 35 0.44
12 23 0.29
13 7 0.09
ACGTcount: A:0.20, C:0.04, G:0.00, T:0.77
Consensus pattern (11 bp):
TTTTATTTTTA
Found at i:3281 original size:27 final size:25
Alignment explanation
Indices: 3152--3282 Score: 83
Period size: 27 Copynumber: 5.0 Consensus size: 25
3142 GTCTATGCTA
* *
3152 TTTTTTTTATTTTCATTTT-TTATT
1 TTTTTTTTATTTTTATTTTACTATT
3176 TTTTATTTTA-TTTTATTTTATCTTATT
1 TTTT-TTTTATTTTTATTTTA-C-TATT
**
3203 TTTATTTTTA-TCCTATTTT--TATTT
1 TTT-TTTTTATTTTTATTTTACTA-TT
* *
3227 TATTTTTATTATTATTATTTTATATATT
1 T-TTTTT-TTATTTTTATTTTA-CTATT
3255 TTTTCTTTTATTTTTATTTTAGCTATT
1 TTTT-TTTTATTTTTATTTTA-CTATT
3282 T
1 T
3283 ACTTATTTAT
Statistics
Matches: 85, Mismatches: 9, Indels: 23
0.73 0.08 0.20
Matches are distributed among these distances:
23 2 0.02
24 18 0.21
25 10 0.12
26 7 0.08
27 40 0.47
28 6 0.07
29 2 0.02
ACGTcount: A:0.18, C:0.05, G:0.01, T:0.76
Consensus pattern (25 bp):
TTTTTTTTATTTTTATTTTACTATT
Found at i:3290 original size:35 final size:36
Alignment explanation
Indices: 3181--3282 Score: 100
Period size: 36 Copynumber: 2.8 Consensus size: 36
3171 TTATTTTTTA
* ** *
3181 TTTTATTTTATTTTATCTTATTTTTATTTT-TATCCTAT
1 TTTTATTTTATTTT-TATTATTACTATTTTATAT-AT-T
*
3219 TTTTATTTTATTTTTATTATTATTATTTTATATATT
1 TTTTATTTTATTTTTATTATTACTATTTTATATATT
*
3255 TTTTCTTTTATTTTTATT-TTAGCTATTT
1 TTTTATTTTATTTTTATTATTA-CTATTT
3283 ACTTATTTAT
Statistics
Matches: 57, Mismatches: 5, Indels: 6
0.84 0.07 0.09
Matches are distributed among these distances:
35 3 0.05
36 23 0.40
37 14 0.25
38 17 0.30
ACGTcount: A:0.20, C:0.05, G:0.01, T:0.75
Consensus pattern (36 bp):
TTTTATTTTATTTTTATTATTACTATTTTATATATT
Found at i:3449 original size:9 final size:9
Alignment explanation
Indices: 3420--3463 Score: 52
Period size: 9 Copynumber: 4.8 Consensus size: 9
3410 ATTTATCTGG
3420 TTTATTTTT
1 TTTATTTTT
*
3429 ATTTAATTTT
1 -TTTATTTTT
*
3439 TTTCTTTTT
1 TTTATTTTT
3448 TTTATTTTT
1 TTTATTTTT
*
3457 TTGATTT
1 TTTATTT
3464 ATCTGGCTGG
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
9 21 0.72
10 8 0.28
ACGTcount: A:0.14, C:0.02, G:0.02, T:0.82
Consensus pattern (9 bp):
TTTATTTTT
Found at i:3451 original size:18 final size:18
Alignment explanation
Indices: 3424--3458 Score: 54
Period size: 17 Copynumber: 1.9 Consensus size: 18
3414 ATCTGGTTTA
3424 TTTTTATTTAATTTTTTTC
1 TTTTTATTT-ATTTTTTTC
3443 TTTTT-TTTATTTTTTT
1 TTTTTATTTATTTTTTT
3459 GATTTATCTG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 8 0.50
18 3 0.19
19 5 0.31
ACGTcount: A:0.11, C:0.03, G:0.00, T:0.86
Consensus pattern (18 bp):
TTTTTATTTATTTTTTTC
Found at i:4339 original size:5 final size:5
Alignment explanation
Indices: 4322--4410 Score: 69
Period size: 5 Copynumber: 17.8 Consensus size: 5
4312 TTAATATTCT
* * *
4322 TTTTA TCTTTA TTTTA TTTT- TTTGTA CTTTC CTTTA -TTTA TTTTA TTTTA
1 TTTTA T-TTTA TTTTA TTTTA TTT-TA TTTTA TTTTA TTTTA TTTTA TTTTA
* *
4372 TTTTA TTTT- TTTCT- TTTCA CTTTTA TTTTG TTTTA TTTT
1 TTTTA TTTTA TTT-TA TTTTA -TTTTA TTTTA TTTTA TTTT
4411 TTTCCTTTTA
Statistics
Matches: 70, Mismatches: 7, Indels: 14
0.77 0.08 0.15
Matches are distributed among these distances:
4 10 0.14
5 49 0.70
6 11 0.16
ACGTcount: A:0.13, C:0.08, G:0.02, T:0.76
Consensus pattern (5 bp):
TTTTA
Found at i:4395 original size:25 final size:24
Alignment explanation
Indices: 4367--4420 Score: 74
Period size: 25 Copynumber: 2.2 Consensus size: 24
4357 ATTTATTTTA
4367 TTTTATTTTATTTT-TTTCTTTTCAC
1 TTTTATTTTATTTTATTT-TTTTC-C
*
4392 TTTTATTTTGTTTTATTTTTTTCC
1 TTTTATTTTATTTTATTTTTTTCC
4416 TTTTA
1 TTTTA
4421 AAAATAAAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
24 6 0.22
25 18 0.67
26 3 0.11
ACGTcount: A:0.11, C:0.09, G:0.02, T:0.78
Consensus pattern (24 bp):
TTTTATTTTATTTTATTTTTTTCC
Found at i:4397 original size:39 final size:39
Alignment explanation
Indices: 4322--4410 Score: 110
Period size: 39 Copynumber: 2.2 Consensus size: 39
4312 TTAATATTCT
*
4322 TTTTATCTTTATTTTATTTTTTTGTACTTTCCTTTA-TTTA
1 TTTTAT-TTTATTTTATTTTTTTCTA-TTTCCTTTATTTTA
*
4362 TTTTATTTTATTTTATTTTTTTCT-TTTCACTTTTATTTTG
1 TTTTATTTTATTTTATTTTTTTCTATTTC-C-TTTATTTTA
4402 TTTTATTTT
1 TTTTATTTT
4411 TTTCCTTTTA
Statistics
Matches: 44, Mismatches: 2, Indels: 6
0.85 0.04 0.12
Matches are distributed among these distances:
37 4 0.09
38 1 0.02
39 21 0.48
40 18 0.41
ACGTcount: A:0.13, C:0.08, G:0.02, T:0.76
Consensus pattern (39 bp):
TTTTATTTTATTTTATTTTTTTCTATTTCCTTTATTTTA
Found at i:4398 original size:30 final size:31
Alignment explanation
Indices: 4362--4419 Score: 100
Period size: 30 Copynumber: 1.9 Consensus size: 31
4352 CCTTTATTTA
4362 TTTTATTTTATTTTATTTTTTT-CTTTTCAC
1 TTTTATTTTATTTTATTTTTTTCCTTTTCAC
*
4392 TTTTATTTTGTTTTATTTTTTTCCTTTT
1 TTTTATTTTATTTTATTTTTTTCCTTTT
4420 AAAAATAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
30 21 0.81
31 5 0.19
ACGTcount: A:0.10, C:0.09, G:0.02, T:0.79
Consensus pattern (31 bp):
TTTTATTTTATTTTATTTTTTTCCTTTTCAC
Found at i:4528 original size:59 final size:58
Alignment explanation
Indices: 4445--4770 Score: 444
Period size: 59 Copynumber: 5.6 Consensus size: 58
4435 AAAAAAGGGG
*
4445 TTTTTGAGGAAAAGTTGAAGGTATCAATTTTCCTTGAAAATCAAAATTTCCAAAAAATA
1 TTTTTG-GGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATCAAAATTTCCAAAAAATA
* * * * **
4504 TTTTTAGGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAAT-AAATTTTCAAAAAAAGGG
1 TTTTT-GGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATCAAAATTTCCAAAAAA-TA
4563 TTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATCAAAATTTCCAAAAAATA
1 TTTTTG-GGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATCAAAATTTCCAAAAAATA
* * **
4622 TTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAAT--AAATTTTCAAAAAAGG
1 TTTTT-GGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATCAAAATTTCCAAAAAATA
*
4679 TTTTTGAGGAAAAGTTGAAAGTATCAATTTT-CTTCGAAAATCAAAGTTTCCAAAAAATA
1 TTTTTG-GGAAAAGTTGAAAGTATCAATTTTCCTT-GAAAATCAAAATTTCCAAAAAATA
4738 TTTTTGGGGAAAAGTTGAAAGTATCAATTTTCC
1 TTTTT-GGGAAAAGTTGAAAGTATCAATTTTCC
4771 CTGCACAAGA
Statistics
Matches: 234, Mismatches: 22, Indels: 21
0.84 0.08 0.08
Matches are distributed among these distances:
56 4 0.02
57 47 0.20
58 14 0.06
59 152 0.65
60 17 0.07
ACGTcount: A:0.42, C:0.09, G:0.14, T:0.35
Consensus pattern (58 bp):
TTTTTGGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATCAAAATTTCCAAAAAATA
Found at i:4759 original size:116 final size:118
Alignment explanation
Indices: 4418--4770 Score: 613
Period size: 118 Copynumber: 3.0 Consensus size: 118
4408 TTTTTTCCTT
* * *
4418 TTAAAAATAAAATTCCAAAAAAAGGGGTTTTTGAGGAAAAGTTGAAGGTATCAATTTTCCTTGAA
1 TTAAAAATAAATTTTCAAAAAAA-GGGTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAA
*
4483 AATCAAAATTTCCAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTTC
65 AATCAAAATTTCCAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCC
4537 TTAAAAATAAATTTTCAAAAAAAGGGTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAA
1 TTAAAAATAAATTTTCAAAAAAAGGGTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAA
4602 ATCAAAATTTCCAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCC
66 ATCAAAATTTCCAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCC
4655 TTAAAAATAAATTTTC-AAAAAA-GGTTTTTGAGGAAAAGTTGAAAGTATCAATTTT-CTTCGAA
1 TTAAAAATAAATTTTCAAAAAAAGGGTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTT-GAA
* *
4717 AATCAAAGTTTCCAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCC
65 AATCAAAATTTCCAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCC
4771 CTGCACAAGA
Statistics
Matches: 227, Mismatches: 6, Indels: 5
0.95 0.03 0.02
Matches are distributed among these distances:
115 3 0.01
116 88 0.39
117 6 0.03
118 109 0.48
119 21 0.09
ACGTcount: A:0.43, C:0.08, G:0.14, T:0.34
Consensus pattern (118 bp):
TTAAAAATAAATTTTCAAAAAAAGGGTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAA
ATCAAAATTTCCAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCC
Found at i:5203 original size:27 final size:27
Alignment explanation
Indices: 5145--5204 Score: 93
Period size: 27 Copynumber: 2.2 Consensus size: 27
5135 CCCTGAAAGG
*
5145 ATAGATTCTTTAAGTGGCCAATCATAG
1 ATAGATTCTTTAAGTGGCCAATCATAC
*
5172 ATAGATTCTTTAAGTGGCCAATCGTAC
1 ATAGATTCTTTAAGTGGCCAATCATAC
*
5199 CTAGAT
1 ATAGAT
5205 AAAAAAGATT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Consensus pattern (27 bp):
ATAGATTCTTTAAGTGGCCAATCATAC
Found at i:6122 original size:42 final size:40
Alignment explanation
Indices: 6018--6145 Score: 152
Period size: 40 Copynumber: 3.1 Consensus size: 40
6008 CTATTTTTTG
* *
6018 AAGTTGTGATGCCTCTGTTTAGAGGAGCCATTTATTTTCA
1 AAGTTGTGATGCCTCTATTTAGAGGAGCAATTTATTTTCA
*
6058 AAGTTGTGATGCCTCT-TATTAGAGGAGCAATTTACTTTCCAA
1 AAGTTGTGATGCCTCTAT-TTAGAGGAGCAATTTA-TTTTC-A
*
6100 AAGTTGTTGA-GCCTCTATTTAGAGGAGCTTTATTTATTTTCA
1 AAGTTG-TGATGCCTCTATTTAGAGGAGC--AATTTATTTTCA
6142 AAGT
1 AAGT
6146 CGTTGAGCCT
Statistics
Matches: 77, Mismatches: 4, Indels: 12
0.83 0.04 0.13
Matches are distributed among these distances:
39 1 0.01
40 31 0.40
41 4 0.05
42 28 0.36
43 8 0.10
44 5 0.06
ACGTcount: A:0.26, C:0.14, G:0.20, T:0.40
Consensus pattern (40 bp):
AAGTTGTGATGCCTCTATTTAGAGGAGCAATTTATTTTCA
Found at i:6151 original size:42 final size:42
Alignment explanation
Indices: 6028--6393 Score: 298
Period size: 42 Copynumber: 8.5 Consensus size: 42
6018 AAGTTGTGAT
* *
6028 GCCTCTGTTTAGAGGAGC--CATTTATTTTCAAAGTTG-TGA
1 GCCTCTGTTTAGAGGAGCTTTATTTATTTTCAAAGTCGTTGA
* * *
6067 TGCCTCT-TATTAGAGGAGC--AATTTACTTTCCAAAAGTTGTTGA
1 -GCCTCTGT-TTAGAGGAGCTTTATTTA-TTTTC-AAAGTCGTTGA
*
6110 GCCTCTATTTAGAGGAGCTTTATTTATTTTCAAAGTCGTTGA
1 GCCTCTGTTTAGAGGAGCTTTATTTATTTTCAAAGTCGTTGA
* *
6152 GCCTCTGATTAGAGAAGCTTTGTTTATTTATTTTCAAAGTCGTTGA
1 GCCTCTGTTTAGAGGAGC----TTTATTTATTTTCAAAGTCGTTGA
* *
6198 GCCT-TTTATTAGAGGAGCTTTATTTATTTTCAAAGTCATTGA
1 GCCTCTGT-TTAGAGGAGCTTTATTTATTTTCAAAGTCGTTGA
* **
6240 GCCTCTGTTTAGAGGAGTTTTATTTATTTTCCAAAGTTTTTGA
1 GCCTCTGTTTAGAGGAGCTTTATTTATTTT-CAAAGTCGTTGA
** * * * * *
6283 GCCTCTAATTAGAGAAGCTTTGCTTATGTTTTTCAAAGTCATTAA
1 GCCTCTGTTTAGAGGAGCTTT-ATT-T-ATTTTCAAAGTCGTTGA
* * *
6328 GCCTCTGCTTAGAGGAGCTTTGTATATGT-TTTTCAAAGTCATTAA
1 GCCTCTGTTTAGAGGAGC-TT-TAT-T-TATTTTCAAAGTCGTTGA
* *
6373 GCCTCTGCTTAGAAGAGCTTT
1 GCCTCTGTTTAGAGGAGCTTT
6394 GATCAGAATT
Statistics
Matches: 275, Mismatches: 31, Indels: 37
0.80 0.09 0.11
Matches are distributed among these distances:
39 1 0.00
40 21 0.08
41 4 0.01
42 96 0.35
43 38 0.14
44 9 0.03
45 59 0.21
46 44 0.16
47 3 0.01
ACGTcount: A:0.25, C:0.15, G:0.19, T:0.42
Consensus pattern (42 bp):
GCCTCTGTTTAGAGGAGCTTTATTTATTTTCAAAGTCGTTGA
Found at i:6219 original size:88 final size:88
Alignment explanation
Indices: 6099--6376 Score: 307
Period size: 88 Copynumber: 3.2 Consensus size: 88
6089 TTACTTTCCA
* * *
6099 AAAGTTGTTGAGCC-TCTATTTAGAGGAGCTTTATTTATTTTCAAAGTCGTTGAGCCTCTGATTA
1 AAAGTCGTTGAGCCTTTTA-TTAGAGGAGCTTTATTTATTTTCAAAGTCATTGAGCCTCTGATTA
*
6163 GAGAAGCTTTGTTTATTTATTTTC
65 GAGGAGCTTTGTTTATTTATTTTC
*
6187 AAAGTCGTTGAGCCTTTTATTAGAGGAGCTTTATTTATTTTCAAAGTCATTGAGCCTCTGTTTAG
1 AAAGTCGTTGAGCCTTTTATTAGAGGAGCTTTATTTATTTTCAAAGTCATTGAGCCTCTGATTAG
6252 AGGAG---T-TTTATTTATTTTCC
66 AGGAGCTTTGTTTATTTATTTT-C
** * * * * * * *
6272 AAAGTTTTTGAGCCTCTAATTAGAGAAGCTTTGCTTATGTTTTTCAAAGTCATTAAGCCTCTGCT
1 AAAGTCGTTGAGCCTTTTATTAGAGGAGCTTT-ATT-T-ATTTTCAAAGTCATTGAGCCTCTGAT
* *
6337 TAGAGGAGCTTTGTATATGT-TTTTC
63 TAGAGGAGCTTTGTTTATTTATTTTC
* *
6362 AAAGTCATTAAGCCT
1 AAAGTCGTTGAGCCT
6377 CTGCTTAGAA
Statistics
Matches: 162, Mismatches: 19, Indels: 16
0.82 0.10 0.08
Matches are distributed among these distances:
84 12 0.07
85 29 0.18
86 2 0.01
87 1 0.01
88 92 0.57
89 3 0.02
90 13 0.08
91 5 0.03
92 5 0.03
ACGTcount: A:0.25, C:0.14, G:0.19, T:0.43
Consensus pattern (88 bp):
AAAGTCGTTGAGCCTTTTATTAGAGGAGCTTTATTTATTTTCAAAGTCATTGAGCCTCTGATTAG
AGGAGCTTTGTTTATTTATTTTC
Found at i:6316 original size:130 final size:130
Alignment explanation
Indices: 6050--6393 Score: 401
Period size: 130 Copynumber: 2.6 Consensus size: 130
6040 AGGAGCCATT
* * * **
6050 TATTTTCAAAGTTG-TGATGCCTCTTATTAGAGGAGC--AATTTACTTTCCAAAAGTTGTTGAGC
1 TATTTTCAAAGTCGTTGA-GCCTCTTATTAGAGGAGCTTTATTTA-TTTTC-AAAGTCATTGAGC
* * *
6112 CTCTATTTAGAGGAGCTTTATTTATTTTCAAAGTCGTTGAGCCTCTGATTAGAGAAGCTTTGTTT
63 CTCTGTTTAGAGGAGCTTTATTTATTTTCAAAGTCGTTGAGCCTCTAATTAGAGAAGCTTTGCTT
*
6177 ATT
128 ATG
*
6180 TATTTTCAAAGTCGTTGAGCCTTTTATTAGAGGAGCTTTATTTATTTTCAAAGTCATTGAGCCTC
1 TATTTTCAAAGTCGTTGAGCCTCTTATTAGAGGAGCTTTATTTATTTTCAAAGTCATTGAGCCTC
* **
6245 TGTTTAGAGGAGTTTTATTTATTTTCCAAAGTTTTTGAGCCTCTAATTAGAGAAGCTTTGCTTAT
66 TGTTTAGAGGAGCTTTATTTATTTT-CAAAGTCGTTGAGCCTCTAATTAGAGAAGCTTTGCTTAT
6310 G
130 G
* * ** *
6311 T-TTTTCAAAGTCATTAAGCCTCTGCTTAGAGGAGCTTTGTATATGT-TTTTCAAAGTCATTAAG
1 TATTTTCAAAGTCGTTGAGCCTCTTATTAGAGGAGC-TT-TAT-T-TATTTTCAAAGTCATTGAG
* *
6374 CCTCTGCTTAGAAGAGCTTT
62 CCTCTGTTTAGAGGAGCTTT
6394 GATCAGAATT
Statistics
Matches: 184, Mismatches: 22, Indels: 13
0.84 0.10 0.06
Matches are distributed among these distances:
130 96 0.52
131 45 0.24
132 8 0.04
133 34 0.18
134 1 0.01
ACGTcount: A:0.25, C:0.14, G:0.19, T:0.42
Consensus pattern (130 bp):
TATTTTCAAAGTCGTTGAGCCTCTTATTAGAGGAGCTTTATTTATTTTCAAAGTCATTGAGCCTC
TGTTTAGAGGAGCTTTATTTATTTTCAAAGTCGTTGAGCCTCTAATTAGAGAAGCTTTGCTTATG
Found at i:6331 original size:45 final size:45
Alignment explanation
Indices: 6106--6396 Score: 278
Period size: 45 Copynumber: 6.6 Consensus size: 45
6096 CCAAAAGTTG
* *
6106 TTGAGCCTCT-ATTTAGAGGAGCTTT-ATT-T-ATTTTCAAAGTCG
1 TTGAGCCTCTGA-TTAGAGGAGCTTTGATTATGTTTTTCAAAGTCA
* * * *
6148 TTGAGCCTCTGATTAGAGAAGCTTTGTTTATTTATTTTCAAAGTCG
1 TTGAGCCTCTGATTAGAGGAGCTTTGATTATGT-TTTTCAAAGTCA
* * *
6194 TTGAGCCTTTTATTAGAGGAGCTTT-ATT-T-ATTTTCAAAGTCA
1 TTGAGCCTCTGATTAGAGGAGCTTTGATTATGTTTTTCAAAGTCA
* * * * **
6236 TTGAGCCTCTGTTTAGAGGAG-TTTTATT-TATTTTCCAAAGTTT
1 TTGAGCCTCTGATTAGAGGAGCTTTGATTATGTTTTTCAAAGTCA
* * *
6279 TTGAGCCTCTAATTAGAGAAGCTTTGCTTATGTTTTTCAAAGTCA
1 TTGAGCCTCTGATTAGAGGAGCTTTGATTATGTTTTTCAAAGTCA
* *
6324 TTAAGCCTCTGCTTAGAGGAGCTTTG-TATATGTTTTTCAAAGTCA
1 TTGAGCCTCTGATTAGAGGAGCTTTGAT-TATGTTTTTCAAAGTCA
* * *
6369 TTAAGCCTCTGCTTAGAAGAGCTTTGAT
1 TTGAGCCTCTGATTAGAGGAGCTTTGAT
6397 CAGAATTTTA
Statistics
Matches: 208, Mismatches: 30, Indels: 18
0.81 0.12 0.07
Matches are distributed among these distances:
41 3 0.01
42 55 0.26
43 30 0.14
44 8 0.04
45 77 0.37
46 35 0.17
ACGTcount: A:0.24, C:0.14, G:0.19, T:0.43
Consensus pattern (45 bp):
TTGAGCCTCTGATTAGAGGAGCTTTGATTATGTTTTTCAAAGTCA
Found at i:6602 original size:21 final size:21
Alignment explanation
Indices: 6576--6705 Score: 79
Period size: 21 Copynumber: 5.9 Consensus size: 21
6566 GGGTAGGCCC
6576 ATTTTATTTTTTTATTT-TTGT
1 ATTTTATTTTTTTATTTATT-T
*
6597 ATTTTATATTTTTATTTATTT
1 ATTTTATTTTTTTATTTATTT
*
6618 ATTTATATATTTTTTGTATCTTATGT
1 A-TT-T-TATTTTTT-TAT-TTATTT
*
6644 A-TTTATTTATTATTA-CTATTT
1 ATTTTATTT-TT-TTATTTATTT
* * * *
6665 ATTAATATATCTATATTTATTT
1 ATT-TTATTTTTTTATTTATTT
6687 A-TTTATTTTTGTTATTTAT
1 ATTTTATTTTT-TTATTTAT
6706 CTGTTAGTAT
Statistics
Matches: 83, Mismatches: 14, Indels: 24
0.69 0.12 0.20
Matches are distributed among these distances:
20 5 0.06
21 33 0.40
22 17 0.20
23 10 0.12
24 9 0.11
25 3 0.04
26 6 0.07
ACGTcount: A:0.25, C:0.02, G:0.03, T:0.70
Consensus pattern (21 bp):
ATTTTATTTTTTTATTTATTT
Found at i:6616 original size:4 final size:4
Alignment explanation
Indices: 6578--6807 Score: 88
Period size: 4 Copynumber: 57.8 Consensus size: 4
6568 GTAGGCCCAT
* *
6578 TTTA TTTT TTTA TTT- TTGTA TTTTA TATT- TTTA TTTA TTTA TTTA TATA
1 TTTA TTTA TTTA TTTA TT-TA -TTTA T-TTA TTTA TTTA TTTA TTTA TTTA
* * * *
6627 TTTT TTGTA TCTTA TGTA TTTA TTTA -TTA TTACTA TTTA TTAA TATA
1 TTTA TT-TA T-TTA TTTA TTTA TTTA TTTA TT--TA TTTA TTTA TTTA
* * * * *
6674 TCTATA TTTA TTTA TTTA TTTT TGTTA TTTA TCT- GTTA GTATA TGTA
1 T-T-TA TTTA TTTA TTTA TTTA T-TTA TTTA TTTA TTTA -TTTA TTTA
* * * **
6721 TGTA TTTA -TTA -TTA TTTA TCTA TTTA TATA -TTA -TTA TTTA CCTA
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA
* * * * *
6765 -TTA -TTA -TTA TTTA TCTA TTAA TAT- TTTA TTTA TCTA ATTA TTT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTT
6808 TCTTTTAATT
Statistics
Matches: 169, Mismatches: 38, Indels: 38
0.69 0.16 0.16
Matches are distributed among these distances:
3 29 0.17
4 115 0.68
5 15 0.09
6 10 0.06
ACGTcount: A:0.27, C:0.04, G:0.03, T:0.66
Consensus pattern (4 bp):
TTTA
Found at i:6665 original size:47 final size:45
Alignment explanation
Indices: 6580--6695 Score: 119
Period size: 47 Copynumber: 2.5 Consensus size: 45
6570 AGGCCCATTT
* * *
6580 TATTTTTTTATTTTTGTATTTTATATTTTTATTTATTTATTTATA
1 TATTTTTTTATTTATGTATTTTATATTATTATTTATTTATTAATA
6625 TATTTTTTGTATCTTATGTA-TTTAT-TTATTATTACTATTTATTAATA
1 TATTTTTT-TAT-TTATGTATTTTATATTATTATT--TATTTATTAATA
* *
6672 TATCTATATTTATTTATTTATTTT
1 TAT-T-TTTTTATTTATGTATTTT
6696 TGTTATTTAT
Statistics
Matches: 59, Mismatches: 5, Indels: 11
0.79 0.07 0.15
Matches are distributed among these distances:
45 15 0.25
46 8 0.14
47 26 0.44
48 7 0.12
49 3 0.05
ACGTcount: A:0.25, C:0.03, G:0.03, T:0.70
Consensus pattern (45 bp):
TATTTTTTTATTTATGTATTTTATATTATTATTTATTTATTAATA
Found at i:6758 original size:14 final size:14
Alignment explanation
Indices: 6603--6790 Score: 58
Period size: 14 Copynumber: 13.4 Consensus size: 14
6593 TTGTATTTTA
*
6603 TATTTTTAT-TTATT
1 TATTTATATATTA-T
6617 TATTTATATATT-T
1 TATTTATATATTAT
*
6630 T-TTGTATCTTATGTATT
1 TATT-TAT-ATAT-TA-T
*
6647 TATTTAT-TATTAC
1 TATTTATATATTAT
*
6660 TATTTAT-TAATA-
1 TATTTATATATTAT
*
6672 TATCTATAT-TTATT
1 TATTTATATATTA-T
* *
6686 TATTTAT-TTTTGT
1 TATTTATATATTAT
* * *
6699 TATTTATCTGTTAG
1 TATTTATATATTAT
*
6713 TA--TATGTATGTAT
1 TATTTATATAT-TAT
6726 T-TATTAT-TATTTAT
1 TAT-TTATATA-TTAT
6740 CTATTTATATATTAT
1 -TATTTATATATTAT
6755 TATTTACCTATTATTAT
1 TATTTA--TA-TATTAT
* *
6772 TATTTATCTATTAA
1 TATTTATATATTAT
6786 TATTT
1 TATTT
6791 TATTTATCTA
Statistics
Matches: 135, Mismatches: 16, Indels: 46
0.69 0.08 0.23
Matches are distributed among these distances:
12 15 0.11
13 29 0.21
14 47 0.35
15 20 0.15
16 5 0.04
17 17 0.13
18 2 0.01
ACGTcount: A:0.28, C:0.04, G:0.04, T:0.64
Consensus pattern (14 bp):
TATTTATATATTAT
Found at i:6758 original size:73 final size:75
Alignment explanation
Indices: 6639--6780 Score: 173
Period size: 73 Copynumber: 1.9 Consensus size: 75
6629 TTTTGTATCT
* * * ** * *
6639 TATGTATTTATTTATTATTACTATTTATTAATATATCTATATTTATTTATTTATTTTTGTTATTT
1 TATGTATGTATTTATTATTACTATCTATT-ATATATATATATTTATTTACCTATTATTATTATTT
6704 ATCTGTTAGTA
65 ATCTGTTAGTA
*
6715 TATGTATGTATTTATTATTATTTATCTATT-TATATAT-TA-TTATTTACCTATTATTATTATTT
1 TATGTATGTATTTATTATTA-CTATCTATTATATATATATATTTATTTACCTATTATTATTATTT
6777 ATCT
65 ATCT
6781 ATTAATATTT
Statistics
Matches: 57, Mismatches: 8, Indels: 5
0.81 0.11 0.07
Matches are distributed among these distances:
73 23 0.40
74 2 0.04
75 6 0.11
76 19 0.33
77 7 0.12
ACGTcount: A:0.28, C:0.05, G:0.04, T:0.63
Consensus pattern (75 bp):
TATGTATGTATTTATTATTACTATCTATTATATATATATATTTATTTACCTATTATTATTATTTA
TCTGTTAGTA
Found at i:6779 original size:39 final size:37
Alignment explanation
Indices: 6726--6806 Score: 119
Period size: 39 Copynumber: 2.1 Consensus size: 37
6716 ATGTATGTAT
6726 TTATTATTATTTATCTATTTATATATTATTATTTACCT-A
1 TTATTATTATTTATCTA-TTA-ATATT-TTATTTACCTAA
*
6765 TTATTATTATTTATCTATTAATATTTTATTTATCTAA
1 TTATTATTATTTATCTATTAATATTTTATTTACCTAA
6802 TTATT
1 TTATT
6807 TTCTTTTAAT
Statistics
Matches: 40, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
36 9 0.22
37 11 0.28
38 3 0.08
39 17 0.43
ACGTcount: A:0.31, C:0.06, G:0.00, T:0.63
Consensus pattern (37 bp):
TTATTATTATTTATCTATTAATATTTTATTTACCTAA
Found at i:6808 original size:17 final size:19
Alignment explanation
Indices: 6726--6806 Score: 80
Period size: 17 Copynumber: 4.3 Consensus size: 19
6716 ATGTATGTAT
6726 TTATTATTATTTATCTATTTA
1 TTATTATTATTTATCTA--TA
*
6747 TATATTATTATTTA-C-CTA
1 T-TATTATTATTTATCTATA
6765 TTATTATTATTTATCTATTA
1 TTATTATTATTTATCTA-TA
*
6785 ATATT-TTATTTATCTA-A
1 TTATTATTATTTATCTATA
6802 TTATT
1 TTATT
6807 TTCTTTTAAT
Statistics
Matches: 52, Mismatches: 4, Indels: 12
0.76 0.06 0.18
Matches are distributed among these distances:
17 17 0.33
18 4 0.08
19 11 0.21
20 6 0.12
21 2 0.04
22 12 0.23
ACGTcount: A:0.31, C:0.06, G:0.00, T:0.63
Consensus pattern (19 bp):
TTATTATTATTTATCTATA
Found at i:7457 original size:21 final size:21
Alignment explanation
Indices: 7428--7470 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
7418 TCTGAAAAAA
* *
7428 AACCTACCTTTAGCCTTATAT
1 AACCGACCTTCAGCCTTATAT
7449 AACCGACCTTCAGCCTTATAT
1 AACCGACCTTCAGCCTTATAT
7470 A
1 A
7471 CCCTCCCAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.30, C:0.30, G:0.07, T:0.33
Consensus pattern (21 bp):
AACCGACCTTCAGCCTTATAT
Found at i:7678 original size:19 final size:19
Alignment explanation
Indices: 7641--7678 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
7631 TATTATTTAT
*
7641 TTATTTATTATTATTATTA
1 TTATTTATTATTATGATTA
7660 TTATTTATTTATTA-GATTA
1 TTATTTA-TTATTATGATTA
7679 GAATTGTTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 11 0.65
20 6 0.35
ACGTcount: A:0.32, C:0.00, G:0.03, T:0.66
Consensus pattern (19 bp):
TTATTTATTATTATGATTA
Found at i:7713 original size:10 final size:10
Alignment explanation
Indices: 7694--7760 Score: 50
Period size: 10 Copynumber: 6.4 Consensus size: 10
7684 GTTTAATACT
7694 TTTTATTTTTA
1 TTTTA-TTTTA
7705 TTTTATTTT-
1 TTTTATTTTA
7714 TCTTTATTTTTA
1 T-TTTA-TTTTA
7726 TTTTTAATTTT-
1 -TTTT-ATTTTA
7737 TTTTAATTTTA
1 TTTT-ATTTTA
*
7748 -TTAATTTTA
1 TTTTATTTTA
7757 TTTT
1 TTTT
7761 CTTTAAATAA
Statistics
Matches: 47, Mismatches: 2, Indels: 15
0.73 0.03 0.23
Matches are distributed among these distances:
9 7 0.15
10 22 0.47
11 9 0.19
12 7 0.15
13 2 0.04
ACGTcount: A:0.19, C:0.01, G:0.00, T:0.79
Consensus pattern (10 bp):
TTTTATTTTA
Found at i:7713 original size:16 final size:16
Alignment explanation
Indices: 7693--7760 Score: 61
Period size: 16 Copynumber: 4.2 Consensus size: 16
7683 TGTTTAATAC
7693 TTTTTATTTTTATTTTA
1 TTTTTA-TTTTATTTTA
*
7710 TTTTT-CTTTATTTTTA
1 TTTTTATTTTA-TTTTA
7726 TTTTTAATTTT-TTTTA
1 TTTTT-ATTTTATTTTA
* *
7742 ATTTTA-TTAATTTTA
1 TTTTTATTTTATTTTA
7757 TTTT
1 TTTT
7761 CTTTAAATAA
Statistics
Matches: 42, Mismatches: 5, Indels: 10
0.74 0.09 0.18
Matches are distributed among these distances:
14 2 0.05
15 13 0.31
16 19 0.45
17 5 0.12
18 3 0.07
ACGTcount: A:0.19, C:0.01, G:0.00, T:0.79
Consensus pattern (16 bp):
TTTTTATTTTATTTTA
Found at i:7721 original size:15 final size:15
Alignment explanation
Indices: 7701--7760 Score: 66
Period size: 16 Copynumber: 3.9 Consensus size: 15
7691 ACTTTTTATT
*
7701 TTTATTTTATTTTTC
1 TTTATTTTATTTTTA
7716 TTTATTTTTATTTTTAA
1 TTTA-TTTTATTTTT-A
* *
7733 TTTTTTTTAATTTTA
1 TTTATTTTATTTTTA
*
7748 TTAATTTTATTTT
1 TTTATTTTATTTT
7761 CTTTAAATAA
Statistics
Matches: 37, Mismatches: 6, Indels: 4
0.79 0.13 0.09
Matches are distributed among these distances:
15 15 0.41
16 19 0.51
17 3 0.08
ACGTcount: A:0.20, C:0.02, G:0.00, T:0.78
Consensus pattern (15 bp):
TTTATTTTATTTTTA
Found at i:7735 original size:7 final size:6
Alignment explanation
Indices: 7693--7760 Score: 54
Period size: 6 Copynumber: 11.7 Consensus size: 6
7683 TGTTTAATAC
* *
7693 TTTTTA TTTTTA -TTTTA -TTTT- TCTTTA TTTTTA TTTTTA ATTTT-
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA
* *
7737 TTTTAA TTTTATTA ATTTTA TTTT
1 TTTTTA -TTT-TTA TTTTTA TTTT
7761 CTTTAAATAA
Statistics
Matches: 49, Mismatches: 8, Indels: 10
0.73 0.12 0.15
Matches are distributed among these distances:
5 15 0.31
6 27 0.55
7 5 0.10
8 2 0.04
ACGTcount: A:0.19, C:0.01, G:0.00, T:0.79
Consensus pattern (6 bp):
TTTTTA
Found at i:7956 original size:56 final size:56
Alignment explanation
Indices: 7789--7993 Score: 313
Period size: 55 Copynumber: 3.6 Consensus size: 56
7779 AAATATATAT
* *
7789 TTTTGAGGAAAAATTGAAAGTATCAATTTTCCTTGAAAATAAGTTTTTCAAAAAAAATA
1 TTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAG--TTTC-AAAAAAATA
*
7848 TTTTTGAGAAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAGTTTCAAAAAAATA
1 -TTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAGTTTCAAAAAAATA
* *
7905 -TTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAGTTTCTAAAAAATA
1 TTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAGTTTCAAAAAAATA
*
7960 TTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTT
1 TTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTT
7994 GTAACAAAAG
Statistics
Matches: 138, Mismatches: 6, Indels: 6
0.92 0.04 0.04
Matches are distributed among these distances:
55 52 0.38
56 33 0.24
57 9 0.07
58 4 0.03
60 40 0.29
ACGTcount: A:0.43, C:0.07, G:0.14, T:0.36
Consensus pattern (56 bp):
TTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAGTTTCAAAAAAATA
Found at i:17403 original size:19 final size:19
Alignment explanation
Indices: 17379--17425 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
17369 TAAAAAATTT
17379 AAATTATTTAA-TATTTATA
1 AAATTATTTAATTA-TTATA
**
17398 AAATTATAAAATTATTATA
1 AAATTATTTAATTATTATA
17417 AAATTATTT
1 AAATTATTT
17426 TATGTCAAAT
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
19 21 0.91
20 2 0.09
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (19 bp):
AAATTATTTAATTATTATA
Found at i:17414 original size:11 final size:11
Alignment explanation
Indices: 17400--17424 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
17390 TATTTATAAA
17400 ATTATAAAATT
1 ATTATAAAATT
17411 ATTATAAAATT
1 ATTATAAAATT
17422 ATT
1 ATT
17425 TTATGTCAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (11 bp):
ATTATAAAATT
Found at i:20081 original size:15 final size:15
Alignment explanation
Indices: 20041--20083 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
20031 CCACCTTAAT
*
20041 AAAGAAAAAAAAAAC
1 AAAGAAAAAAAAGAC
20056 ATAA-AAAAAAAAGAC
1 A-AAGAAAAAAAAGAC
*
20071 AAAGAAGAAAAAG
1 AAAGAAAAAAAAG
20084 TAGAAACATA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
14 2 0.08
15 20 0.83
16 2 0.08
ACGTcount: A:0.81, C:0.05, G:0.12, T:0.02
Consensus pattern (15 bp):
AAAGAAAAAAAAGAC
Found at i:21410 original size:13 final size:13
Alignment explanation
Indices: 21392--21418 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
21382 TTTTTCATCT
21392 AACTTCATGTATA
1 AACTTCATGTATA
21405 AACTTCATGTATA
1 AACTTCATGTATA
21418 A
1 A
21419 GCCAACTATG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.15, G:0.07, T:0.37
Consensus pattern (13 bp):
AACTTCATGTATA
Found at i:21501 original size:32 final size:33
Alignment explanation
Indices: 21433--21503 Score: 99
Period size: 34 Copynumber: 2.2 Consensus size: 33
21423 ACTATGCTTA
* *
21433 AAGAAATATATCTAATCAATGTGCTCTATTAAGT
1 AAGAAATATATCTAATCAA-GTACACTATTAAGT
*
21467 AAGAAATATATCTAATCAA-TACACTATTATGT
1 AAGAAATATATCTAATCAAGTACACTATTAAGT
21499 AAGAA
1 AAGAA
21504 TATTGAGAAG
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
32 15 0.44
34 19 0.56
ACGTcount: A:0.46, C:0.11, G:0.10, T:0.32
Consensus pattern (33 bp):
AAGAAATATATCTAATCAAGTACACTATTAAGT
Found at i:22619 original size:26 final size:25
Alignment explanation
Indices: 22558--22622 Score: 76
Period size: 27 Copynumber: 2.5 Consensus size: 25
22548 AATGATGAAA
22558 TTTTTAAAACTTTCAAATGATAAATT
1 TTTTTAAAA-TTTCAAATGATAAATT
* * *
22584 TTTAATAAAATTCTTAAGTGATAAATT
1 TTT-TTAAAATT-TCAAATGATAAATT
22611 TTTTTAAAATTT
1 TTTTTAAAATTT
22623 ATCCCAAATT
Statistics
Matches: 33, Mismatches: 4, Indels: 5
0.79 0.10 0.12
Matches are distributed among these distances:
25 1 0.03
26 12 0.36
27 20 0.61
ACGTcount: A:0.42, C:0.05, G:0.05, T:0.49
Consensus pattern (25 bp):
TTTTTAAAATTTCAAATGATAAATT
Found at i:22715 original size:18 final size:16
Alignment explanation
Indices: 22686--22719 Score: 50
Period size: 18 Copynumber: 2.0 Consensus size: 16
22676 TATTTTCAAT
22686 TAAAAAAATAATAAAA
1 TAAAAAAATAATAAAA
22702 TAAAAAATATTAATAAAA
1 TAAAAAA-A-TAATAAAA
22720 ATTTTGGAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.44
17 1 0.06
18 8 0.50
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (16 bp):
TAAAAAAATAATAAAA
Found at i:25142 original size:13 final size:15
Alignment explanation
Indices: 25124--25228 Score: 92
Period size: 17 Copynumber: 6.7 Consensus size: 15
25114 ATTCATCTCT
25124 TTTTATTT-AT-TTA
1 TTTTATTTAATATTA
25137 TTTTATTTAATATTA
1 TTTTATTTAATATTA
*
25152 TTTTAAATTTAATAAATA
1 TTTT--ATTTAAT-ATTA
25170 TTTTTATTT-A-ATTA
1 -TTTTATTTAATATTA
25184 TTTTATTTAATATTA
1 TTTTATTTAATATTA
*
25199 TTTTAAATTTAATAAATA
1 TTTT--ATTTAAT-ATTA
25217 TTTTTATTTAAT
1 -TTTTATTTAAT
25229 TATTTTGTGT
Statistics
Matches: 77, Mismatches: 3, Indels: 20
0.77 0.03 0.20
Matches are distributed among these distances:
13 16 0.21
14 6 0.08
15 15 0.19
16 1 0.01
17 25 0.32
18 6 0.08
19 8 0.10
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (15 bp):
TTTTATTTAATATTA
Found at i:25176 original size:47 final size:47
Alignment explanation
Indices: 25123--25234 Score: 215
Period size: 47 Copynumber: 2.4 Consensus size: 47
25113 CATTCATCTC
*
25123 TTTTTATTTATTTATTTTATTTAATATTATTTTAAATTTAATAAATA
1 TTTTTATTTAATTATTTTATTTAATATTATTTTAAATTTAATAAATA
25170 TTTTTATTTAATTATTTTATTTAATATTATTTTAAATTTAATAAATA
1 TTTTTATTTAATTATTTTATTTAATATTATTTTAAATTTAATAAATA
25217 TTTTTATTTAATTATTTT
1 TTTTTATTTAATTATTTT
25235 GTGTGTGGAC
Statistics
Matches: 64, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 64 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (47 bp):
TTTTTATTTAATTATTTTATTTAATATTATTTTAAATTTAATAAATA
Found at i:25874 original size:21 final size:19
Alignment explanation
Indices: 25848--25886 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 19
25838 ATGTATTTTA
25848 TAATAATATATTTACAAAAAT
1 TAATAA-ATATTTA-AAAAAT
*
25869 TAATAAATTTTTAAAAAA
1 TAATAAATATTTAAAAAA
25887 CTCTATCATC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 5 0.29
20 6 0.35
21 6 0.35
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (19 bp):
TAATAAATATTTAAAAAAT
Found at i:26542 original size:135 final size:134
Alignment explanation
Indices: 26344--26587 Score: 321
Period size: 135 Copynumber: 1.8 Consensus size: 134
26334 TCTTTGAGAC
* *
26344 GCCGCTACTTTAGAGGCATTTGAATCTGAAAATGGCTTAATATTGGTGGTGTTTGTATCTTTTAG
1 GCCGCTACTTTAGAGGCATTTGAATCTGAAAATGGCTTAATATTGGCGGCGTTTGTATCTTTTAG
* ** * *
26409 TCGCCGCTATTTCAATGGCATTTTTATGAGAAAAACATCATTGCATTGATGGCGTTTATAATAGA
66 GCAACGCTAATTCAATGGCATTGTTATGAGAAAAACATCATTGCATTGATGGCGTTTATAATAGA
26474 AAAT
131 AAAT
* * *
26478 GCCGCTACTTT-GCATGGCTTTTGAATCTGAAAAT-GCTTCAATATTTGCGGCGTTTGTATTTTT
1 GCCGCTACTTTAG-A-GGCATTTGAATCTGAAAATGGCTT-AATATTGGCGGCGTTTGTATCTTT
* * **
26541 TAGGCAATGCTAATTCAGTGGTGTTGTTATGAGAAAAACATCATTGC
63 TAGGCAACGCTAATTCAATGGCATTGTTATGAGAAAAACATCATTGC
26588 TTTAGTGACG
Statistics
Matches: 93, Mismatches: 14, Indels: 5
0.83 0.12 0.04
Matches are distributed among these distances:
133 1 0.01
134 16 0.17
135 76 0.82
ACGTcount: A:0.27, C:0.14, G:0.21, T:0.38
Consensus pattern (134 bp):
GCCGCTACTTTAGAGGCATTTGAATCTGAAAATGGCTTAATATTGGCGGCGTTTGTATCTTTTAG
GCAACGCTAATTCAATGGCATTGTTATGAGAAAAACATCATTGCATTGATGGCGTTTATAATAGA
AAAT
Found at i:34132 original size:357 final size:356
Alignment explanation
Indices: 33127--34735 Score: 1962
Period size: 357 Copynumber: 4.5 Consensus size: 356
33117 TGAAAATATT
* * * * ** * ** *
33127 GCCACATAAATTCTAACACTATTATTGAAAGCATTTATCCAAGAAAGACACCTTTAATAATTCCT
1 GCCACACAAATTCTAACACTATTATTGAAGGCGTATATTTAAGATAGATGCCTTTAATAATTCTT
* ** *
33192 ATCACAGTTTGTAGT-TAATTACTGAAGGCAGTTGCAG-AAACAAC-GCTTTCAATAATTTCTCT
66 ATCACAGTTTGTA-TATAATTACTGAAGGCAATTTTAGAAAACAACATCTTT-AATAATTTC-CT
* * *
33254 AAAAAAATTTTCTCGGATTATTAAAGGCATCTTTTATTATGACACACCTTCAATATACCACGATG
128 AAAAAAATTTTTTCGGATTATTAAAGGCATCTTTTATTATAAAACACCTTCAATATACCACGATG
* ** * ** *
33319 GTAATGAAAGGTGTTTATTAGAAAATGTGCCTTTAATATACCTTTAAACTTAGTAAT-CATTACT
193 GTAATGGAAGGCATTTATTAGAAAAGGCACCTTCAATATACCTTTAAACTTAGTAATCCATTACT
* * *
33383 AAAGGCATTTGTTAATAATAGACGCCTTCAAAATTTTCCCACTAAATATTTTAGGAATTATTAAA
258 GAAGGCATTTGTTAATAACAGACGCCTTCAAAATTTTTCCACTAAATATTTTAGGAATTATTAAA
* * * * *
33448 AGCATTTTTTATTGTAAAATACTTTCTATATACC
323 GGCATCTTCTACTGTAAAATGCTTTCTATATACC
* * * * *
33482 GTCACACAAATTTTAATACCATTATTGAAGGCGTATATTTAAGATAGATGCCTTTAATAATTCCT
1 GCCACACAAATTCTAACACTATTATTGAAGGCGTATATTTAAGATAGATGCCTTTAATAATTCTT
* * * *
33547 ATCACAGTTTGTATACAATTATTGAAGGCGATTTTAGAAAACAACATCTTTAATAATTTCCCAAA
66 ATCACAGTTTGTATATAATTACTGAAGGCAATTTTAGAAAACAACATCTTTAATAATTTCCTAAA
* * * * ** * *
33612 AAAATTTTTTTGAATTATTAAAGGCGTTTTTTATTATAAAACGTCTTCAATATACCATGATGTTA
131 AAAATTTTTTCGGATTATTAAAGGCATCTTTTATTATAAAACACCTTCAATATACCACGATGGTA
** **
33677 ATGGAAGGTGTTTATTAGAAAAGGTGCCTTCAATATACCTTTAAACTTAGTAATCCATTACTGAA
196 ATGGAAGGCATTTATTAGAAAAGGCACCTTCAATATACCTTTAAACTTAGTAATCCATTACTGAA
* * * *
33742 GGCATTTGTTAATAACAAATGCCTTCAAAA-TTTTCTCACTAAATAGTTTAAGAATTATTAAAGG
261 GGCATTTGTTAATAACAGACGCCTTCAAAATTTTTC-CACTAAATATTTTAGGAATTATTAAAGG
* * *
33806 CATCTTTTATTGTAAAATG-TCTTCTATATATC
325 CATCTTCTACTGTAAAATGCT-TTCTATATACC
* *
33838 GCCACACAAATTGTAACACTATTATTGAAGGCGTATATTTAAGATAGATGCCTTTAACAATTCTT
1 GCCACACAAATTCTAACACTATTATTGAAGGCGTATATTTAAGATAGATGCCTTTAATAATTCTT
* * * * *
33903 ATCATAGTTTATATATAATTACTGAAGGCAATTTTGGCAAACAACATCTTCAATAATTTTCCTAA
66 ATCACAGTTTGTATATAATTACTGAAGGCAATTTTAGAAAACAACATCTTTAATAA-TTTCCTAA
** * * *
33968 AAATTTTTTTTCAGATTATTAAAGGCATATTTTATTATAAAACACCTTCAATATACCATGATGGT
130 AAAAATTTTTTCGGATTATTAAAGGCATCTTTTATTATAAAACACCTTCAATATACCACGATGGT
*
34033 AATGGAAGGCATTTATTAGAAAAGGCACCTTCAATATACCTTTAAACTTAGTAATCCATTACTGC
195 AATGGAAGGCATTTATTAGAAAAGGCACCTTCAATATACCTTTAAACTTAGTAATCCATTACTGA
*
34098 AGGCATTTGTTAATAACAGACGCTTTCAAAATTTTTCCACTAAATATTTTAGGAATTATTAAAGG
260 AGGCATTTGTTAATAACAGACGCCTTCAAAATTTTTCCACTAAATATTTTAGGAATTATTAAAGG
**
34163 TGTCTTCTACTGTAAAATGCTTTCTATATACC
325 CATCTTCTACTGTAAAATGCTTTCTATATACC
* ** *
34195 GCCACACAAATTCTAACACTGTTATTGAAGGCGTATATCCAAGAAAGATGCCTTTAATAATTCCT
1 GCCACACAAATTCTAACACTATTATTGAAGGCGTATATTTAAGATAGATGCCTTTAATAATT-CT
* * * ***
34260 T-TCATAGTTTGTAGT-TAATTACTGAAGGCAGTTTGCAGAAAACAATGCCTTTAATAATTTCCT
65 TATCACAGTTTGTA-TATAATTACTGAAGGCAATTT-TAGAAAACAACATCTTTAATAATTTCC-
* * ** * * **
34323 TACAAAAATTTTCTCGGATTATTAAAGGTGTCTTTTATTATGACATGCCTTCAATATACCACGAT
127 TAAAAAAATTTTTTCGGATTATTAAAGGCATCTTTTATTATAAAACACCTTCAATATACCACGAT
* * * *
34388 GGTAATGGAAGGCATTTATTAGAAGAA-ACACTTTCAATATACGTTTAAACTTAATAATCCATTA
192 GGTAATGGAAGGCATTTATTAGAA-AAGGCACCTTCAATATACCTTTAAACTTAGTAATCCATTA
* * * * *
34452 CTGAAAGCATTTATTAATAATAGACGCCTTTAAAATTTTTCCACTAAATATTTTGGGAATTATTA
256 CTGAAGGCATTTGTTAATAACAGACGCCTTCAAAATTTTTCCACTAAATATTTTAGGAATTATTA
** * *
34517 AAGGTGTCTTCTACTGTAAAATACCTTCTATATACC
321 AAGGCATCTTCTACTGTAAAATGCTTTCTATATACC
* * ** *
34553 ACCACACAAATTGTAACACTATTATTGAAGGCGTATATTTAAGATAGACACCTTTAATAATTTTT
1 GCCACACAAATTCTAACACTATTATTGAAGGCGTATATTTAAGATAGATGCCTTTAATAATTCTT
* * **
34618 ATCACAGTTTGTATATAATTACTGAATG-AGATTTCA-AATAACAACGCCTTTAATAATTTCCAT
66 ATCACAGTTTGTATATAATTACTGAAGGCA-ATTTTAGAA-AACAACATCTTTAATAATTTCC-T
*
34681 AAAAAAATTTTTTCGGATTATTAAAGGCATCTTTTATTATAAACCACCTTCAATA
128 AAAAAAATTTTTTCGGATTATTAAAGGCATCTTTTATTATAAAACACCTTCAATA
34736 ATTTGTTATA
Statistics
Matches: 1086, Mismatches: 150, Indels: 34
0.86 0.12 0.03
Matches are distributed among these distances:
354 1 0.00
355 195 0.18
356 213 0.20
357 369 0.34
358 306 0.28
359 2 0.00
ACGTcount: A:0.36, C:0.15, G:0.12, T:0.37
Consensus pattern (356 bp):
GCCACACAAATTCTAACACTATTATTGAAGGCGTATATTTAAGATAGATGCCTTTAATAATTCTT
ATCACAGTTTGTATATAATTACTGAAGGCAATTTTAGAAAACAACATCTTTAATAATTTCCTAAA
AAAATTTTTTCGGATTATTAAAGGCATCTTTTATTATAAAACACCTTCAATATACCACGATGGTA
ATGGAAGGCATTTATTAGAAAAGGCACCTTCAATATACCTTTAAACTTAGTAATCCATTACTGAA
GGCATTTGTTAATAACAGACGCCTTCAAAATTTTTCCACTAAATATTTTAGGAATTATTAAAGGC
ATCTTCTACTGTAAAATGCTTTCTATATACC
Found at i:34596 original size:715 final size:709
Alignment explanation
Indices: 33128--34735 Score: 2058
Period size: 715 Copynumber: 2.3 Consensus size: 709
33118 GAAAATATTG
* * * * * ** * *
33128 CCACATAAATTCTAACACTATTATTGAAAGCATTTATCCAAGAAAGACACCTTTAATAATTCCTA
1 CCACACAAATTGTAACACTATTATTGAAGGCGTATATTTAAGATAGACACCTTTAATAATTCTTA
* ** *
33193 TCACAGTTTGTAGT-TAATTACTGAAGGCAGTTGCAGAAACAACGCTTTCAATAATTTCTCTAAA
66 TCACAGTTTGTA-TATAATTACTGAAGGCAATTTTAGAAACAAC-CCTTCAATAATTTC-CTAAA
* * *
33257 AAAATTTTCTCGGATTATTAAAGGCATCTTTTATTATGACACACCTTCAATATACCACGATGGTA
128 AAAATTTTTTCGGATTATTAAAGGCATCTTTTATTATAAAACACCTTCAATATACCACGATGGTA
** * ** *
33322 ATGAAAGGTGTTTATTAGAAAATGTGCCTTTAATATACCTTTAAACTTAGTAATCATTACTAAAG
193 ATGAAAGGCATTTATTAGAAAAGGCACCTTCAATATACCTTTAAACTTAGTAATCATTACTAAAG
*
33387 GCATTTGTTAATAATAGACGCCTTCAAAATTTTCCCACTAAATATTTTAGGAATTATTAAAAGCA
258 GCATTTGTTAATAACAGACGCCTTCAAAATTTTCCCACTAAATATTTTAGGAATTATTAAAAGCA
* * * * * *
33452 TTTTTTATTGTAAAATACTTTCTATATACCGTCACACAAATTTTAATACCATTATTGAAGGCGTA
323 TCTTCTACTGTAAAATACTTTCTATATACCGCCACACAAATTCTAACACCATTATTGAAGGCGTA
** * * *
33517 TATTTAAGATAGATGCCTTTAATAATTCCTATCACAGTTTGTATACAATTATTGAAGGCGATTTT
388 TATCCAAGAAAGATGCCTTTAATAATTCCTATCACAGTTTGTATACAATTACTGAAGGCGATTTC
* * * *
33582 AGAAAACAACATCTTTAATAATTTCCCAAAAAAATTTTTTTGAATTATTAAAGGCGTTTTTTATT
453 AGAAAACAACACCTTTAATAATTTCCCAAAAAAATTTTCTCGAATTATTAAAGGCGTCTTTTATT
* * * ** ***
33647 ATAAAACGTCTTCAATATACCATGATGTTAATGGAAGGTGTTTATTAGAAAAGGTGCCTTCAATA
518 ATAAAACGCCTTCAATATACCACGATGGTAATGGAAGGCATTTATTAGAAAAGACACCTTCAATA
* * * *
33712 TACCTTTAAACTTAGTAATCCATTACTGAAGGCATTTGTTAATAACAAATGCCTTCAAAATTTTC
583 TACCTTTAAACTTAATAATCCATTACTGAAAGCATTTATTAATAACAAACGCCTTCAAAATTTTC
* * ** * *
33777 TCACTAAATAGTTTAAGAATTATTAAAGGCATCTTTTATTGTAAAATGTCTTCTATATATCG
648 TCACTAAATAGTTTAAGAATTATTAAAGGCATCTTCTACTGTAAAATACCTTCTATATACCA
** *
33839 CCACACAAATTGTAACACTATTATTGAAGGCGTATATTTAAGATAGATGCCTTTAACAATTCTTA
1 CCACACAAATTGTAACACTATTATTGAAGGCGTATATTTAAGATAGACACCTTTAATAATTCTTA
* * * *
33904 TCATAGTTTATATATAATTACTGAAGGCAATTTTGGCAAACAACATCTTCAATAATTTTCCTAAA
66 TCACAGTTTGTATATAATTACTGAAGGCAATTTTAG-AAACAAC-CCTTCAATAA-TTTCCTAAA
** * * *
33969 AATTTTTTTTCAGATTATTAAAGGCATATTTTATTATAAAACACCTTCAATATACCATGATGGTA
128 AAAATTTTTTCGGATTATTAAAGGCATCTTTTATTATAAAACACCTTCAATATACCACGATGGTA
* **
34034 ATGGAAGGCATTTATTAGAAAAGGCACCTTCAATATACCTTTAAACTTAGTAATCCATTACTGCA
193 ATGAAAGGCATTTATTAGAAAAGGCACCTTCAATATACCTTTAAACTTAGTAAT-CATTACTAAA
* * * *
34099 GGCATTTGTTAATAACAGACGCTTTCAAAATTTTTCCACTAAATATTTTAGGAATTATTAAAGGT
257 GGCATTTGTTAATAACAGACGCCTTCAAAATTTTCCCACTAAATATTTTAGGAATTATTAAAAGC
* * **
34164 GTCTTCTACTGTAAAATGCTTTCTATATACCGCCACACAAATTCTAACACTGTTATTGAAGGCGT
322 ATCTTCTACTGTAAAATACTTTCTATATACCGCCACACAAATTCTAACACCATTATTGAAGGCGT
* * *
34229 ATATCCAAGAAAGATGCCTTTAATAATTCCTTTCATAGTTTGTAGT-TAATTACTGAAGGC-AGT
387 ATATCCAAGAAAGATGCCTTTAATAATTCCTATCACAGTTTGTA-TACAATTACTGAAGGCGA-T
** * * * *
34292 TTGCAGAAAACAATGCCTTTAATAATTTCCTTACAAAAATTTTCTCGGATTATTAAAGGTGTCTT
450 TT-CAGAAAACAACACCTTTAATAATTTCC-CAAAAAAATTTTCTCGAATTATTAAAGGCGTCTT
* * * *
34357 TTATTATGACATGCCTTCAATATACCACGATGGTAATGGAAGGCATTTATTAGAAGAA-ACACTT
513 TTATTATAAAACGCCTTCAATATACCACGATGGTAATGGAAGGCATTTATTAGAA-AAGACACCT
* * * *
34421 TCAATATACGTTTAAACTTAATAATCCATTACTGAAAGCATTTATTAATAATAGACGCCTTTAAA
577 TCAATATACCTTTAAACTTAATAATCCATTACTGAAAGCATTTATTAATAACAAACGCCTTCAAA
* ** **
34486 ATTTT-TCCACTAAATATTTTGGGAATTATTAAAGGTGTCTTCTACTGTAAAATACCTTCTATAT
642 ATTTTCT-CACTAAATAGTTTAAGAATTATTAAAGGCATCTTCTACTGTAAAATACCTTCTATAT
34550 ACCA
706 ACCA
*
34554 CCACACAAATTGTAACACTATTATTGAAGGCGTATATTTAAGATAGACACCTTTAATAATTTTTA
1 CCACACAAATTGTAACACTATTATTGAAGGCGTATATTTAAGATAGACACCTTTAATAATTCTTA
* * * *
34619 TCACAGTTTGTATATAATTACTGAATG-AGATTTCAAATAACAACGCCTTTAATAATTTCCATAA
66 TCACAGTTTGTATATAATTACTGAAGGCA-ATTTTAGA-AACAAC-CCTTCAATAATTTCC-TAA
*
34683 AAAAATTTTTTCGGATTATTAAAGGCATCTTTTATTATAAACCACCTTCAATA
127 AAAAATTTTTTCGGATTATTAAAGGCATCTTTTATTATAAAACACCTTCAATA
34736 ATTTGTTATA
Statistics
Matches: 764, Mismatches: 120, Indels: 22
0.84 0.13 0.02
Matches are distributed among these distances:
710 1 0.00
711 81 0.11
712 125 0.16
713 181 0.24
714 32 0.04
715 342 0.45
716 2 0.00
ACGTcount: A:0.36, C:0.15, G:0.12, T:0.37
Consensus pattern (709 bp):
CCACACAAATTGTAACACTATTATTGAAGGCGTATATTTAAGATAGACACCTTTAATAATTCTTA
TCACAGTTTGTATATAATTACTGAAGGCAATTTTAGAAACAACCCTTCAATAATTTCCTAAAAAA
ATTTTTTCGGATTATTAAAGGCATCTTTTATTATAAAACACCTTCAATATACCACGATGGTAATG
AAAGGCATTTATTAGAAAAGGCACCTTCAATATACCTTTAAACTTAGTAATCATTACTAAAGGCA
TTTGTTAATAACAGACGCCTTCAAAATTTTCCCACTAAATATTTTAGGAATTATTAAAAGCATCT
TCTACTGTAAAATACTTTCTATATACCGCCACACAAATTCTAACACCATTATTGAAGGCGTATAT
CCAAGAAAGATGCCTTTAATAATTCCTATCACAGTTTGTATACAATTACTGAAGGCGATTTCAGA
AAACAACACCTTTAATAATTTCCCAAAAAAATTTTCTCGAATTATTAAAGGCGTCTTTTATTATA
AAACGCCTTCAATATACCACGATGGTAATGGAAGGCATTTATTAGAAAAGACACCTTCAATATAC
CTTTAAACTTAATAATCCATTACTGAAAGCATTTATTAATAACAAACGCCTTCAAAATTTTCTCA
CTAAATAGTTTAAGAATTATTAAAGGCATCTTCTACTGTAAAATACCTTCTATATACCA
Found at i:40335 original size:19 final size:20
Alignment explanation
Indices: 40308--40349 Score: 59
Period size: 19 Copynumber: 2.1 Consensus size: 20
40298 TTATTTAATT
40308 TTTATAAAATTAATAAATAA
1 TTTATAAAATTAATAAATAA
* *
40328 TTTA-AAAATTCATAAATTA
1 TTTATAAAATTAATAAATAA
40347 TTT
1 TTT
40350 TATGTCAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 16 0.80
20 4 0.20
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (20 bp):
TTTATAAAATTAATAAATAA
Found at i:40388 original size:11 final size:11
Alignment explanation
Indices: 40374--40404 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
40364 ATTTTTTGAT
*
40374 AAATAATTAAA
1 AAATAATAAAA
40385 AAATAATAAAA
1 AAATAATAAAA
40396 AAATAATAA
1 AAATAATAA
40405 CTCAAATGTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (11 bp):
AAATAATAAAA
Done.