Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009188.1 Hibiscus syriacus cultivar Beakdansim tig00112761_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: 189620
ACGTcount: A:0.33, C:0.17, G:0.18, T:0.32
File 1 of 2
Found at i:3200 original size:60 final size:61
Alignment explanation
Indices: 3082--3202 Score: 147
Period size: 60 Copynumber: 2.0 Consensus size: 61
3072 CGTAAATCAG
* * ** *
3082 TTCCAGAATCGCAACGCGATTATGAAGAATCGCAATGCGATGTACAAATCGCATTGCGATT
1 TTCCAGAATCGCAACGCGAATATGAAGAATCGCAACGCGACATACAAATCGCAATGCGATT
* * *
3143 TTCC-GAATCGGAACGCGAATATGAA-AATCGCAACGCGAACATATAAATTGCAATGCGATT
1 TTCCAGAATCGCAACGCGAATATGAAGAATCGCAACGCG-ACATACAAATCGCAATGCGATT
3203 CTGACTATCG
Statistics
Matches: 51, Mismatches: 8, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
59 11 0.22
60 36 0.71
61 4 0.08
ACGTcount: A:0.36, C:0.21, G:0.21, T:0.23
Consensus pattern (61 bp):
TTCCAGAATCGCAACGCGAATATGAAGAATCGCAACGCGACATACAAATCGCAATGCGATT
Found at i:3256 original size:39 final size:41
Alignment explanation
Indices: 3209--3337 Score: 192
Period size: 39 Copynumber: 3.2 Consensus size: 41
3199 GATTCTGACT
*
3209 ATCGCAACGAGTAT-CGTAAAATCGCAACGCGTATCCGT-A
1 ATCGCAACGAGAATACGTAAAATCGCAACGCGTATCCGTAA
* *
3248 ATCGCAACGAGAATACGT-AAATCGCAATGCGTATCTGTAA
1 ATCGCAACGAGAATACGTAAAATCGCAACGCGTATCCGTAA
* *
3288 ATCGCAACGACAATACGTAAAATCGTAACGCGTATCCGTAA
1 ATCGCAACGAGAATACGTAAAATCGCAACGCGTATCCGTAA
3329 ATCGCAACG
1 ATCGCAACG
3338 CGATCGATAA
Statistics
Matches: 80, Mismatches: 7, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
39 31 0.39
40 21 0.26
41 28 0.35
ACGTcount: A:0.36, C:0.24, G:0.19, T:0.20
Consensus pattern (41 bp):
ATCGCAACGAGAATACGTAAAATCGCAACGCGTATCCGTAA
Found at i:3269 original size:79 final size:81
Alignment explanation
Indices: 3167--3337 Score: 215
Period size: 79 Copynumber: 2.1 Consensus size: 81
3157 GCGAATATGA
* * * * **
3167 AAATCGCAACGCGAACATATAAATTGCAATGCG-ATTCTG-ACTATCGCAACGAGTAT-CGTAAA
1 AAATCGCAACGAGAACACATAAATCGCAATGCGTA-TCTGTA-AATCGCAACGACAATACGTAAA
3229 ATCGCAACGCGTATCCGT
64 ATCGCAACGCGTATCCGT
* *
3247 -AATCGCAACGAGAATACGTAAATCGCAATGCGTATCTGTAAATCGCAACGACAATACGTAAAAT
1 AAATCGCAACGAGAACACATAAATCGCAATGCGTATCTGTAAATCGCAACGACAATACGTAAAAT
*
3311 CGTAACGCGTATCCGT
66 CGCAACGCGTATCCGT
3327 AAATCGCAACG
1 AAATCGCAACG
3338 CGATCGATAA
Statistics
Matches: 78, Mismatches: 9, Indels: 7
0.83 0.10 0.07
Matches are distributed among these distances:
79 43 0.55
80 25 0.32
81 10 0.13
ACGTcount: A:0.37, C:0.23, G:0.19, T:0.21
Consensus pattern (81 bp):
AAATCGCAACGAGAACACATAAATCGCAATGCGTATCTGTAAATCGCAACGACAATACGTAAAAT
CGCAACGCGTATCCGT
Found at i:3307 original size:59 final size:60
Alignment explanation
Indices: 3209--3337 Score: 138
Period size: 59 Copynumber: 2.1 Consensus size: 60
3199 GATTCTGACT
* *
3209 ATCGCAACGAGTATCGTAAAATCGCAACGCGTATCCGT-AATCGCAACGAGAATACGTAA
1 ATCGCAACGAGTATCGTAAAATCGCAACGCGAATACGTAAATCGCAACGAGAATACGTAA
* * * * * *
3268 ATCGCAATGCGTATCTGT-AAATCGCAACGAC-AATACGTAAAATCGTAACGCGTATCCGTAA
1 ATCGCAACGAGTATC-GTAAAATCGCAACG-CGAATACGT-AAATCGCAACGAGAATACGTAA
3329 ATCGCAACG
1 ATCGCAACG
3338 CGATCGATAA
Statistics
Matches: 57, Mismatches: 9, Indels: 6
0.79 0.12 0.08
Matches are distributed among these distances:
59 29 0.51
60 3 0.05
61 25 0.44
ACGTcount: A:0.36, C:0.24, G:0.19, T:0.20
Consensus pattern (60 bp):
ATCGCAACGAGTATCGTAAAATCGCAACGCGAATACGTAAATCGCAACGAGAATACGTAA
Found at i:3338 original size:20 final size:20
Alignment explanation
Indices: 3209--3339 Score: 133
Period size: 20 Copynumber: 6.5 Consensus size: 20
3199 GATTCTGACT
*
3209 ATCGCAACGAGTAT-CGTAAA
1 ATCGCAACGCGTATCCGT-AA
3229 ATCGCAACGCGTATCCGT-A
1 ATCGCAACGCGTATCCGTAA
* * *
3248 ATCGCAACGAGAATACGTAA
1 ATCGCAACGCGTATCCGTAA
* *
3268 ATCGCAATGCGTATCTGTAA
1 ATCGCAACGCGTATCCGTAA
* *
3288 ATCGCAACGAC-AATACGTAAA
1 ATCGCAACG-CGTATCCGT-AA
*
3309 ATCGTAACGCGTATCCGTAA
1 ATCGCAACGCGTATCCGTAA
3329 ATCGCAACGCG
1 ATCGCAACGCG
3340 ATCGATAATT
Statistics
Matches: 89, Mismatches: 17, Indels: 10
0.77 0.15 0.09
Matches are distributed among these distances:
19 16 0.18
20 54 0.61
21 19 0.21
ACGTcount: A:0.36, C:0.24, G:0.20, T:0.20
Consensus pattern (20 bp):
ATCGCAACGCGTATCCGTAA
Found at i:3374 original size:80 final size:77
Alignment explanation
Indices: 3208--3362 Score: 181
Period size: 80 Copynumber: 2.0 Consensus size: 77
3198 CGATTCTGAC
**
3208 TATCGCAACGAGTATCGTAAAATCGCAACGCGTATCCGTAATCGCAACGAGAATACGTAAATCGC
1 TATCGCAACGACAATCGTAAAATCGCAACGCGTATCCGTAATCGCAACGAGAATACGTAAATCGC
**
3273 AATGCGTATCTG
66 AACACGTATCTG
* *
3285 TAAATCGCAACGACAATACGTAAAATCGTAACGCGTATCCGTAAATCGCAACGCG-AT-CGATAA
1 T--ATCGCAACGACAAT-CGTAAAATCGCAACGCGTATCCGT-AATCGCAACGAGAATACG-TAA
*
3348 TTCGCAACACG-ATCT
61 ATCGCAACACGTATCT
3363 TCGGTATCGC
Statistics
Matches: 66, Mismatches: 7, Indels: 8
0.81 0.09 0.10
Matches are distributed among these distances:
77 1 0.02
79 18 0.27
80 36 0.55
81 11 0.17
ACGTcount: A:0.35, C:0.25, G:0.19, T:0.21
Consensus pattern (77 bp):
TATCGCAACGACAATCGTAAAATCGCAACGCGTATCCGTAATCGCAACGAGAATACGTAAATCGC
AACACGTATCTG
Found at i:3475 original size:20 final size:20
Alignment explanation
Indices: 3450--3575 Score: 175
Period size: 20 Copynumber: 6.3 Consensus size: 20
3440 TTTTCCTAAT
* *
3450 TCGCAATGCGAATACATATA
1 TCGCAATGCGAATACGTAAA
*
3470 TCGCAACGCGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
3490 TCGCAATGCGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
3510 TCGCAATGCGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
*
3530 TCGCAATGCAAAT-CTGTAAA
1 TCGCAATGCGAATAC-GTAAA
*
3550 TCACAATGCGAAT-CTGTAAA
1 TCGCAATGCGAATAC-GTAAA
3570 TCGCAA
1 TCGCAA
3576 CGAGATTCTG
Statistics
Matches: 97, Mismatches: 8, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
19 1 0.01
20 96 0.99
ACGTcount: A:0.40, C:0.21, G:0.17, T:0.21
Consensus pattern (20 bp):
TCGCAATGCGAATACGTAAA
Found at i:3585 original size:20 final size:20
Alignment explanation
Indices: 3540--3585 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 20
3530 TCGCAATGCA
* *
3540 AATCTGTAAATCACAATGCG
1 AATCTGTAAATCACAACGAG
*
3560 AATCTGTAAATCGCAACGAG
1 AATCTGTAAATCACAACGAG
*
3580 ATTCTG
1 AATCTG
3586 ACTATCGCAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.37, C:0.20, G:0.17, T:0.26
Consensus pattern (20 bp):
AATCTGTAAATCACAACGAG
Found at i:4447 original size:24 final size:24
Alignment explanation
Indices: 4420--4473 Score: 90
Period size: 24 Copynumber: 2.2 Consensus size: 24
4410 GTATTCGAAA
4420 TTTGATCTTGGTCAATACCCGGAC
1 TTTGATCTTGGTCAATACCCGGAC
* *
4444 TTTGATCTTGGTCAATACTCGGAT
1 TTTGATCTTGGTCAATACCCGGAC
4468 TTTGAT
1 TTTGAT
4474 GATTTTTCAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.20, C:0.19, G:0.20, T:0.41
Consensus pattern (24 bp):
TTTGATCTTGGTCAATACCCGGAC
Found at i:6928 original size:20 final size:20
Alignment explanation
Indices: 6891--6978 Score: 117
Period size: 20 Copynumber: 4.5 Consensus size: 20
6881 CAACGCGGAA
*
6891 ATCGTAACGC-GAATATGACT
1 ATCGCAACGCGGAA-ATGACT
*
6911 ATCGCAACACGGAAATGACT
1 ATCGCAACGCGGAAATGACT
* *
6931 ATCGCAATGCGGAATTGACT
1 ATCGCAACGCGGAAATGACT
6951 ATCGCAACGCGGAAA-GACT
1 ATCGCAACGCGGAAATGACT
6970 ATCGCAACG
1 ATCGCAACG
6979 AGAGAATCGC
Statistics
Matches: 60, Mismatches: 7, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
19 13 0.22
20 44 0.73
21 3 0.05
ACGTcount: A:0.35, C:0.24, G:0.23, T:0.18
Consensus pattern (20 bp):
ATCGCAACGCGGAAATGACT
Found at i:7007 original size:33 final size:34
Alignment explanation
Indices: 6970--7045 Score: 127
Period size: 33 Copynumber: 2.3 Consensus size: 34
6960 CGGAAAGACT
6970 ATCGCAACGAGAGAATCGCAATGCG-AAATGAAA
1 ATCGCAACGAGAGAATCGCAATGCGAAAATGAAA
*
7003 ATCGCAACGAGTGAATCGCAATGCGAAAATGAAA
1 ATCGCAACGAGAGAATCGCAATGCGAAAATGAAA
*
7037 ATCGTAACG
1 ATCGCAACG
7046 CGAAAGCATT
Statistics
Matches: 40, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
33 24 0.60
34 16 0.40
ACGTcount: A:0.43, C:0.18, G:0.24, T:0.14
Consensus pattern (34 bp):
ATCGCAACGAGAGAATCGCAATGCGAAAATGAAA
Found at i:7167 original size:31 final size:31
Alignment explanation
Indices: 7132--7204 Score: 73
Period size: 31 Copynumber: 2.4 Consensus size: 31
7122 GATTGAAATC
*
7132 AACAAATCAACTATTACAT-TTCA-ATCAATTA
1 AACAAATCAACTATT--ATGTACATATCAATTA
7163 AACAAGCA-CAA-TATTATGTACATATCAATTA
1 AACAA--ATCAACTATTATGTACATATCAATTA
7194 AACAAATCAAC
1 AACAAATCAAC
7205 ATTTACAAAT
Statistics
Matches: 35, Mismatches: 1, Indels: 12
0.73 0.02 0.25
Matches are distributed among these distances:
29 3 0.09
30 6 0.17
31 22 0.63
32 3 0.09
33 1 0.03
ACGTcount: A:0.51, C:0.19, G:0.03, T:0.27
Consensus pattern (31 bp):
AACAAATCAACTATTATGTACATATCAATTA
Found at i:7214 original size:14 final size:14
Alignment explanation
Indices: 7195--7231 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
7185 TATCAATTAA
7195 ACAAATCAACATTT
1 ACAAATCAACATTT
* *
7209 ACAAATCATCTTTT
1 ACAAATCAACATTT
7223 ACAAATCAA
1 ACAAATCAA
7232 TTAAACAATG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.49, C:0.22, G:0.00, T:0.30
Consensus pattern (14 bp):
ACAAATCAACATTT
Found at i:7295 original size:19 final size:19
Alignment explanation
Indices: 7271--7366 Score: 130
Period size: 19 Copynumber: 5.3 Consensus size: 19
7261 GCAACGAGAG
7271 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
7290 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
7309 AATCACAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
7328 AATCGCAA--CG-AGTG--
1 AATCGCAATGCGAAATGAA
7342 AATCGCAATGCGAAAATGAA
1 AATCGCAATGCG-AAATGAA
7362 AATCG
1 AATCG
7367 TAACACGAAA
Statistics
Matches: 67, Mismatches: 4, Indels: 11
0.82 0.05 0.13
Matches are distributed among these distances:
14 8 0.12
16 5 0.07
17 2 0.03
18 3 0.04
19 44 0.66
20 5 0.07
ACGTcount: A:0.47, C:0.17, G:0.21, T:0.16
Consensus pattern (19 bp):
AATCGCAATGCGAAATGAA
Found at i:7295 original size:33 final size:33
Alignment explanation
Indices: 7249--7366 Score: 137
Period size: 38 Copynumber: 3.4 Consensus size: 33
7239 ATGCAACGCG
**
7249 GAAATGACTATCGCAACGAGAGAATCGCAATGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAATGC
* *
7282 GAAATGAAAATCGCAATGCGAAATGAAAATCACAATGC
1 GAAATGAAAATCGCAA--CG--A-GAGAATCGCAATGC
*
7320 GAAATGAAAATCGCAACGAGTGAATCGCAATGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAATGC
7353 GAAAATGAAAATCG
1 G-AAATGAAAATCG
7367 TAACACGAAA
Statistics
Matches: 72, Mismatches: 7, Indels: 11
0.80 0.08 0.12
Matches are distributed among these distances:
33 26 0.36
34 13 0.18
35 2 0.03
36 2 0.03
37 1 0.01
38 28 0.39
ACGTcount: A:0.46, C:0.17, G:0.22, T:0.15
Consensus pattern (33 bp):
GAAATGAAAATCGCAACGAGAGAATCGCAATGC
Found at i:7448 original size:33 final size:33
Alignment explanation
Indices: 7386--7481 Score: 120
Period size: 33 Copynumber: 2.8 Consensus size: 33
7376 ATTAGTTTCG
* *
7386 CGTTGCGATTTCCATTTTCGCATTACGATTCACT
1 CGTTGCGATTTTCA-TTTCGCATTGCGATTCACT
*
7420 CGTTGCGATTTTCATTTCGCATTGCGATTCTCT
1 CGTTGCGATTTTCATTTCGCATTGCGATTCACT
** *
7453 CGTTGCGATAGTCATTTCCGCGTTGCGAT
1 CGTTGCGATTTTCATTT-CGCATTGCGAT
7482 AGTCTGTTTT
Statistics
Matches: 55, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
33 32 0.58
34 23 0.42
ACGTcount: A:0.15, C:0.25, G:0.20, T:0.41
Consensus pattern (33 bp):
CGTTGCGATTTTCATTTCGCATTGCGATTCACT
Found at i:7601 original size:14 final size:14
Alignment explanation
Indices: 7582--7618 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
7572 CATCAATTAA
7582 ACAAATCAACATTT
1 ACAAATCAACATTT
* *
7596 ACAAATCATCTTTT
1 ACAAATCAACATTT
7610 ACAAATCAA
1 ACAAATCAA
7619 TTAAACAGTC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.49, C:0.22, G:0.00, T:0.30
Consensus pattern (14 bp):
ACAAATCAACATTT
Found at i:9006 original size:42 final size:42
Alignment explanation
Indices: 8899--9010 Score: 111
Period size: 42 Copynumber: 2.7 Consensus size: 42
8889 ATCCATCAGT
* * *
8899 TGGGAG-GGACCTCTTCAACGATGACAGTGGCCTCTTGAACGG
1 TGGGAGAGG-CCTCTTGAACGATGACAGGGGCCTCTTGAACGA
* * ** *
8941 TGGGAGGGGACTCTTGAGGGATGATAGGGGCCTCTTGAACGA
1 TGGGAGAGGCCTCTTGAACGATGACAGGGGCCTCTTGAACGA
*
8983 TAGGG-GATGCCTCTTGAACGATGACAGG
1 T-GGGAGAGGCCTCTTGAACGATGACAGG
9011 TGAGTCGGGC
Statistics
Matches: 55, Mismatches: 13, Indels: 4
0.76 0.18 0.06
Matches are distributed among these distances:
42 50 0.91
43 5 0.09
ACGTcount: A:0.22, C:0.19, G:0.38, T:0.21
Consensus pattern (42 bp):
TGGGAGAGGCCTCTTGAACGATGACAGGGGCCTCTTGAACGA
Found at i:9513 original size:20 final size:20
Alignment explanation
Indices: 9490--9576 Score: 120
Period size: 20 Copynumber: 4.3 Consensus size: 20
9480 GAAACTTAAA
* *
9490 ATCGCAACGCGAAAATGATT
1 ATCGCAATGCGAAAATGACT
*
9510 ATCGTAATGCGAAAATGACT
1 ATCGCAATGCGAAAATGACT
*
9530 ATCGCAATACGAAAATGACT
1 ATCGCAATGCGAAAATGACT
**
9550 ATCGCAATGCGAATTTGACT
1 ATCGCAATGCGAAAATGACT
9570 ATCGCAA
1 ATCGCAA
9577 CGAGAGAATC
Statistics
Matches: 59, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 59 1.00
ACGTcount: A:0.39, C:0.20, G:0.18, T:0.23
Consensus pattern (20 bp):
ATCGCAATGCGAAAATGACT
Found at i:9633 original size:19 final size:19
Alignment explanation
Indices: 9611--9687 Score: 65
Period size: 19 Copynumber: 4.3 Consensus size: 19
9601 AAATCGCAAC
*
9611 GCGATTATAGTTTCGTGTT
1 GCGATTATAGTTTCGCGTT
* *
9630 GCGATTTTGGTTTCGCGTT
1 GCGATTATAGTTTCGCGTT
*
9649 GCGATT-T--TGT--CGTT
1 GCGATTATAGTTTCGCGTT
* *
9663 GCGATTTTGGTTTCGCGTT
1 GCGATTATAGTTTCGCGTT
9682 GCGATT
1 GCGATT
9688 TTCATTTCTC
Statistics
Matches: 48, Mismatches: 5, Indels: 10
0.76 0.08 0.16
Matches are distributed among these distances:
14 10 0.21
15 1 0.02
16 2 0.04
17 2 0.04
18 1 0.02
19 32 0.67
ACGTcount: A:0.09, C:0.14, G:0.30, T:0.47
Consensus pattern (19 bp):
GCGATTATAGTTTCGCGTT
Found at i:9669 original size:33 final size:33
Alignment explanation
Indices: 9627--9689 Score: 126
Period size: 33 Copynumber: 1.9 Consensus size: 33
9617 ATAGTTTCGT
9627 GTTGCGATTTTGGTTTCGCGTTGCGATTTTGTC
1 GTTGCGATTTTGGTTTCGCGTTGCGATTTTGTC
9660 GTTGCGATTTTGGTTTCGCGTTGCGATTTT
1 GTTGCGATTTTGGTTTCGCGTTGCGATTTT
9690 CATTTCTCGT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.06, C:0.14, G:0.30, T:0.49
Consensus pattern (33 bp):
GTTGCGATTTTGGTTTCGCGTTGCGATTTTGTC
Found at i:9676 original size:52 final size:52
Alignment explanation
Indices: 9611--9739 Score: 134
Period size: 52 Copynumber: 2.5 Consensus size: 52
9601 AAATCGCAAC
* * ** * * *
9611 GCGATTATAGTTTCGTGTTGCGATTTTGGTTTCGCGTTGCGATTTTGTCGTT
1 GCGATTTTAGTTTCGCGTTGCGATTTTCATTTCGCGTTGCGATTCTCTCATT
* * *
9663 GCGATTTTGGTTTCGCGTTGCGATTTTCATTTCTCGTTGTGATTCTCTCATT
1 GCGATTTTAGTTTCGCGTTGCGATTTTCATTTCGCGTTGCGATTCTCTCATT
* *
9715 GCGATTTTCA-TTTCTCGTTGTGATT
1 GCGATTTT-AGTTTCGCGTTGCGATT
9740 CTCTCGTTGC
Statistics
Matches: 63, Mismatches: 13, Indels: 2
0.81 0.17 0.03
Matches are distributed among these distances:
52 63 1.00
ACGTcount: A:0.10, C:0.16, G:0.24, T:0.50
Consensus pattern (52 bp):
GCGATTTTAGTTTCGCGTTGCGATTTTCATTTCGCGTTGCGATTCTCTCATT
Found at i:9690 original size:14 final size:14
Alignment explanation
Indices: 9645--9671 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
9635 TTTGGTTTCG
9645 CGTTGCGATTTTGT
1 CGTTGCGATTTTGT
9659 CGTTGCGATTTTG
1 CGTTGCGATTTTG
9672 GTTTCGCGTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.07, C:0.15, G:0.30, T:0.48
Consensus pattern (14 bp):
CGTTGCGATTTTGT
Found at i:9695 original size:19 final size:19
Alignment explanation
Indices: 9620--9689 Score: 96
Period size: 19 Copynumber: 3.9 Consensus size: 19
9610 CGCGATTATA
*
9620 GTTTCGTGTTGCGATTTTG
1 GTTTCGCGTTGCGATTTTG
9639 GTTTCGCGTTGCGATTTT-
1 GTTTCGCGTTGCGATTTTG
9657 G--T--CGTTGCGATTTTG
1 GTTTCGCGTTGCGATTTTG
9672 GTTTCGCGTTGCGATTTT
1 GTTTCGCGTTGCGATTTT
9690 CATTTCTCGT
Statistics
Matches: 45, Mismatches: 1, Indels: 10
0.80 0.02 0.18
Matches are distributed among these distances:
14 12 0.27
15 1 0.02
16 1 0.02
17 1 0.02
18 1 0.02
19 29 0.64
ACGTcount: A:0.06, C:0.14, G:0.30, T:0.50
Consensus pattern (19 bp):
GTTTCGCGTTGCGATTTTG
Found at i:9700 original size:19 final size:19
Alignment explanation
Indices: 9658--9739 Score: 75
Period size: 19 Copynumber: 4.6 Consensus size: 19
9648 TGCGATTTTG
**
9658 TCGTTGCGATTTTGGTTTC
1 TCGTTGCGATTTTCATTTC
*
9677 GCGTTGCGATTTTCATTTC
1 TCGTTGCGATTTTCATTTC
*
9696 TCGTTGTGA--TTC---TC
1 TCGTTGCGATTTTCATTTC
*
9710 TCATTGCGATTTTCATTTC
1 TCGTTGCGATTTTCATTTC
*
9729 TCGTTGTGATT
1 TCGTTGCGATT
9740 CTCTCGTTGC
Statistics
Matches: 49, Mismatches: 9, Indels: 10
0.72 0.13 0.15
Matches are distributed among these distances:
14 9 0.18
16 3 0.06
17 3 0.06
19 34 0.69
ACGTcount: A:0.10, C:0.18, G:0.21, T:0.51
Consensus pattern (19 bp):
TCGTTGCGATTTTCATTTC
Found at i:9717 original size:33 final size:33
Alignment explanation
Indices: 9680--9753 Score: 139
Period size: 33 Copynumber: 2.2 Consensus size: 33
9670 TGGTTTCGCG
9680 TTGCGATTTTCATTTCTCGTTGTGATTCTCTCA
1 TTGCGATTTTCATTTCTCGTTGTGATTCTCTCA
*
9713 TTGCGATTTTCATTTCTCGTTGTGATTCTCTCG
1 TTGCGATTTTCATTTCTCGTTGTGATTCTCTCA
9746 TTGCGATT
1 TTGCGATT
9754 CATTTCGTTG
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
33 40 1.00
ACGTcount: A:0.11, C:0.20, G:0.18, T:0.51
Consensus pattern (33 bp):
TTGCGATTTTCATTTCTCGTTGTGATTCTCTCA
Found at i:9763 original size:15 final size:14
Alignment explanation
Indices: 9694--9767 Score: 58
Period size: 14 Copynumber: 4.9 Consensus size: 14
9684 GATTTTCATT
*
9694 TCTCGTTGTGATTC
1 TCTCGTTGCGATTC
*
9708 TCTCATTGCGATTTTC
1 TCTCGTTGCGA--TTC
*
9724 ATTTCTCGTTGTGATTC
1 ---TCTCGTTGCGATTC
9741 TCTCGTTGCGATTC
1 TCTCGTTGCGATTC
*
9755 ATTTCGTTGCGAT
1 -TCTCGTTGCGAT
9768 AGTCATTTTT
Statistics
Matches: 48, Mismatches: 6, Indels: 11
0.74 0.09 0.17
Matches are distributed among these distances:
14 22 0.46
15 11 0.23
16 3 0.06
17 3 0.06
19 9 0.19
ACGTcount: A:0.11, C:0.22, G:0.19, T:0.49
Consensus pattern (14 bp):
TCTCGTTGCGATTC
Found at i:10020 original size:94 final size:94
Alignment explanation
Indices: 9855--10233 Score: 629
Period size: 94 Copynumber: 4.1 Consensus size: 94
9845 ATGGATTGCA
* * * *
9855 TTAC-TTCAACCAAAAGACAAAACAAAGACAAATGCTAACTTCAGAGTATTAAATAATACACAGT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGT
*
9919 TTAGCAGAATTGACAGCAACCGAACAAAT
66 TTAGCAGAATTGGCAGCAACCGAACAAAT
* *
9948 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCAAATTGTTAAAGAATACACAGT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGT
10013 TTAGCAGAATTGGCAGCAACCGAACAAAT
66 TTAGCAGAATTGGCAGCAACCGAACAAAT
10042 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGT
*
10107 TTAGCAGAATTGGCAGCAACCGAATAAAT
66 TTAGCAGAATTGGCAGCAACCGAACAAAT
*
10136 TTAC-TTCAACCAAAAGACAAAACAAAAGACAAATACTAACTTCACAGTGTTAAAGAATAAACAG
1 TTACTTTCAACCAAAAGACAAAAC-AAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAG
* *
10200 TTTAGCAGTATTGGCAGC-ACCGAATAAAT
65 TTTAGCAGAATTGGCAGCAACCGAACAAAT
10229 TTACT
1 TTACT
10234 AAGCAATCTA
Statistics
Matches: 272, Mismatches: 11, Indels: 5
0.94 0.04 0.02
Matches are distributed among these distances:
93 38 0.14
94 234 0.86
ACGTcount: A:0.47, C:0.19, G:0.12, T:0.22
Consensus pattern (94 bp):
TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGT
TTAGCAGAATTGGCAGCAACCGAACAAAT
Found at i:12011 original size:19 final size:19
Alignment explanation
Indices: 11987--12070 Score: 106
Period size: 19 Copynumber: 4.7 Consensus size: 19
11977 GCAACGAGAG
11987 AATCGCAACGCGAAATGAA
1 AATCGCAACGCGAAATGAA
*
12006 AATCGCAACGCGAAATTAA
1 AATCGCAACGCGAAATGAA
*
12025 AATCGCAA--CG--A-GAG
1 AATCGCAACGCGAAATGAA
12039 AATCGCAACGCGAAATGAA
1 AATCGCAACGCGAAATGAA
*
12058 AATCGCAATGCGA
1 AATCGCAACGCGA
12071 TTTTGGTTTC
Statistics
Matches: 55, Mismatches: 5, Indels: 10
0.79 0.07 0.14
Matches are distributed among these distances:
14 9 0.16
15 1 0.02
16 2 0.04
17 2 0.04
18 1 0.02
19 40 0.73
ACGTcount: A:0.45, C:0.21, G:0.21, T:0.12
Consensus pattern (19 bp):
AATCGCAACGCGAAATGAA
Found at i:12173 original size:41 final size:41
Alignment explanation
Indices: 12116--12225 Score: 188
Period size: 41 Copynumber: 2.7 Consensus size: 41
12106 CGATTCTCTC
12116 GTTGCGATTTTCATTTCTCTCGTTGCGATAGTCATTTTCGT
1 GTTGCGATTTTCATTTCTCTCGTTGCGATAGTCATTTTCGT
12157 GTTGCGATTTTCATTTCTCTCGTTGCGATAGTCATTTTCGT
1 GTTGCGATTTTCATTTCTCTCGTTGCGATAGTCATTTTCGT
*
12198 GTTGCAATTTTCATTT-TCAT-GTTGCGAT
1 GTTGCGATTTTCATTTCTC-TCGTTGCGAT
12226 TTTAAGTTTA
Statistics
Matches: 67, Mismatches: 1, Indels: 3
0.94 0.01 0.04
Matches are distributed among these distances:
40 10 0.15
41 57 0.85
ACGTcount: A:0.14, C:0.18, G:0.19, T:0.49
Consensus pattern (41 bp):
GTTGCGATTTTCATTTCTCTCGTTGCGATAGTCATTTTCGT
Found at i:12227 original size:20 final size:19
Alignment explanation
Indices: 12083--12228 Score: 124
Period size: 20 Copynumber: 7.6 Consensus size: 19
12073 TTGGTTTCGC
12083 GTTGCGATTTTCA-TTTCGT
1 GTTGCGATTTTCATTTTC-T
*
12102 GTTGCGA--TTC--TCTC-
1 GTTGCGATTTTCATTTTCT
12116 GTTGCGATTTTCATTTCTCT
1 GTTGCGATTTTCATTT-TCT
**
12136 CGTTGCGATAGTCATTTTCGT
1 -GTTGCGATTTTCATTTTC-T
12157 GTTGCGATTTTCATTTCTCT
1 GTTGCGATTTTCATTT-TCT
**
12177 CGTTGCGATAGTCATTTTCGT
1 -GTTGCGATTTTCATTTTC-T
*
12198 GTTGCAATTTTCATTTTCAT
1 GTTGCGATTTTCATTTTC-T
12218 GTTGCGATTTT
1 GTTGCGATTTT
12229 AAGTTTAGAA
Statistics
Matches: 103, Mismatches: 13, Indels: 21
0.75 0.09 0.15
Matches are distributed among these distances:
14 7 0.07
16 6 0.06
17 3 0.03
18 1 0.01
19 9 0.09
20 45 0.44
21 32 0.31
ACGTcount: A:0.12, C:0.18, G:0.19, T:0.50
Consensus pattern (19 bp):
GTTGCGATTTTCATTTTCT
Found at i:12582 original size:25 final size:26
Alignment explanation
Indices: 12524--12575 Score: 79
Period size: 27 Copynumber: 2.0 Consensus size: 26
12514 TTTCCATTTC
*
12524 TGAATGATTGTGAGGGATTTCTGACCG
1 TGAATGGTTGTGAGGGATTTC-GACCG
12551 TGAATGGTTGTGAGGGATTTC-ACCG
1 TGAATGGTTGTGAGGGATTTCGACCG
12576 GAGATGGGGA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
25 4 0.17
27 20 0.83
ACGTcount: A:0.21, C:0.12, G:0.35, T:0.33
Consensus pattern (26 bp):
TGAATGGTTGTGAGGGATTTCGACCG
Found at i:12809 original size:20 final size:20
Alignment explanation
Indices: 12784--12997 Score: 234
Period size: 20 Copynumber: 10.6 Consensus size: 20
12774 CTTTAAAAAT
12784 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
12804 CGCGTTGCGATTTTACGTAT-
1 CGCGTTGCGA-TTTACGGATA
*
12824 TGTCGTTGCGATTTACGGATA
1 CG-CGTTGCGATTTACGGATA
* * *
12845 CGCATTGCGATTTACGTATT
1 CGCGTTGCGATTTACGGATA
* *
12865 CTCGTTGCGATTTACAGATA
1 CGCGTTGCGATTTACGGATA
* *
12885 CGCGTTGCGATTTACGTATT
1 CGCGTTGCGATTTACGGATA
* *
12905 CTCGTTGCAATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
12925 CGCGTTGCGATTTTACGTAT-
1 CGCGTTGCGA-TTTACGGATA
*
12945 TGTCGTTGCGATTTACGGATA
1 CG-CGTTGCGATTTACGGATA
*
12966 CACGTTGCGATTTTACGGATA
1 CGCGTTGCGA-TTTACGGATA
*
12987 CTCGTTGCGAT
1 CGCGTTGCGAT
12998 AGTCAGAATC
Statistics
Matches: 159, Mismatches: 28, Indels: 14
0.79 0.14 0.07
Matches are distributed among these distances:
20 107 0.67
21 52 0.33
ACGTcount: A:0.19, C:0.19, G:0.25, T:0.37
Consensus pattern (20 bp):
CGCGTTGCGATTTACGGATA
Found at i:13019 original size:41 final size:41
Alignment explanation
Indices: 12786--12997 Score: 338
Period size: 41 Copynumber: 5.2 Consensus size: 41
12776 TTAAAAATCG
*
12786 CGTTGCGATTTACGGATACGCGTTGCGATTTTACGTATTGT
1 CGTTGCGATTTACGGATACGCGTTGCGATTTTACGTATTCT
*
12827 CGTTGCGATTTACGGATACGCATTGCGA-TTTACGTATTCT
1 CGTTGCGATTTACGGATACGCGTTGCGATTTTACGTATTCT
*
12867 CGTTGCGATTTACAGATACGCGTTGCGA-TTTACGTATTCT
1 CGTTGCGATTTACGGATACGCGTTGCGATTTTACGTATTCT
* *
12907 CGTTGCAATTTACGGATACGCGTTGCGATTTTACGTATTGT
1 CGTTGCGATTTACGGATACGCGTTGCGATTTTACGTATTCT
* * *
12948 CGTTGCGATTTACGGATACACGTTGCGATTTTACGGATACT
1 CGTTGCGATTTACGGATACGCGTTGCGATTTTACGTATTCT
12989 CGTTGCGAT
1 CGTTGCGAT
12998 AGTCAGAATC
Statistics
Matches: 158, Mismatches: 12, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
40 75 0.47
41 83 0.53
ACGTcount: A:0.19, C:0.19, G:0.25, T:0.37
Consensus pattern (41 bp):
CGTTGCGATTTACGGATACGCGTTGCGATTTTACGTATTCT
Found at i:13045 original size:22 final size:20
Alignment explanation
Indices: 13006--13058 Score: 88
Period size: 20 Copynumber: 2.6 Consensus size: 20
12996 ATAGTCAGAA
* *
13006 TCGCGTTGCGATTTATATGT
1 TCGCGTTGCGATTTTTATAT
13026 TCGCGTTGCGATTTTTATAT
1 TCGCGTTGCGATTTTTATAT
13046 TCGCGTTGCGATT
1 TCGCGTTGCGATT
13059 CTGGAAAATC
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.13, C:0.17, G:0.25, T:0.45
Consensus pattern (20 bp):
TCGCGTTGCGATTTTTATAT
Found at i:13119 original size:42 final size:42
Alignment explanation
Indices: 13026--13180 Score: 103
Period size: 42 Copynumber: 3.8 Consensus size: 42
13016 ATTTATATGT
* * *
13026 TCGCGTTGCG-ATTTTTATATTCGCGTTGCGATTCTGGAAAA
1 TCGCGTTGCGAATTTGTATATTCGCATTGCGATTCTGCAAAA
** * *
13067 TCGCAATGCGAATTTGTACTA-TCGCATTGCGATTCTTCATAA
1 TCGCGTTGCGAATTTGTA-TATTCGCATTGCGATTCTGCAAAA
* * * *
13109 TCGCGTTGCG-ATTCTGGGA-ACT-G-ATTTGCGATTCTG-GAGA
1 TCGCGTTGCGAATT-T-GTATATTCGCA-TTGCGATTCTGCAAAA
*
13149 TCGCGTTGCG-ATTTTTAT-TTCGCATTGCGATT
1 TCGCGTTGCGAATTTGTATATTCGCATTGCGATT
13181 TTGTTGGTCA
Statistics
Matches: 88, Mismatches: 17, Indels: 20
0.70 0.14 0.16
Matches are distributed among these distances:
38 2 0.02
39 10 0.11
40 16 0.18
41 23 0.26
42 33 0.38
43 4 0.05
ACGTcount: A:0.19, C:0.19, G:0.24, T:0.38
Consensus pattern (42 bp):
TCGCGTTGCGAATTTGTATATTCGCATTGCGATTCTGCAAAA
Found at i:13157 original size:20 final size:19
Alignment explanation
Indices: 13108--13161 Score: 63
Period size: 20 Copynumber: 2.7 Consensus size: 19
13098 ATTCTTCATA
13108 ATCGCGTTGCGATTCTGGG
1 ATCGCGTTGCGATTCTGGG
* **
13127 AACTGATTTGCGATTCTGGAG
1 ATC-GCGTTGCGATTCTGG-G
13148 ATCGCGTTGCGATT
1 ATCGCGTTGCGATT
13162 TTTATTTCGC
Statistics
Matches: 27, Mismatches: 6, Indels: 3
0.75 0.17 0.08
Matches are distributed among these distances:
19 2 0.07
20 22 0.81
21 3 0.11
ACGTcount: A:0.17, C:0.19, G:0.31, T:0.33
Consensus pattern (19 bp):
ATCGCGTTGCGATTCTGGG
Found at i:22221 original size:92 final size:93
Alignment explanation
Indices: 22110--22289 Score: 326
Period size: 92 Copynumber: 1.9 Consensus size: 93
22100 CCTATGATCA
* *
22110 TTCGCGATTAAATTAATATTAAATTGTTTAAATTTTATTCATATATATTTTTATTGGATTGATTT
1 TTCGCGATTAAATTAATATTAAATTGTTTAAATTTTATTCATATATATTTTCATTAGATTGATTT
22175 TTT-ATGAAATATACTCAAAATCCACCC
66 TTTCATGAAATATACTCAAAATCCACCC
*
22202 TTCGCGATTAAATTAATATTAAATTGTTTAAATTTTATTCATATATCTTTTCATTAGATTGATTT
1 TTCGCGATTAAATTAATATTAAATTGTTTAAATTTTATTCATATATATTTTCATTAGATTGATTT
22267 TTTCATGAAATATACTCAAAATC
66 TTTCATGAAATATACTCAAAATC
22290 TACGAAAAGA
Statistics
Matches: 84, Mismatches: 3, Indels: 1
0.95 0.03 0.01
Matches are distributed among these distances:
92 65 0.77
93 19 0.23
ACGTcount: A:0.35, C:0.11, G:0.07, T:0.47
Consensus pattern (93 bp):
TTCGCGATTAAATTAATATTAAATTGTTTAAATTTTATTCATATATATTTTCATTAGATTGATTT
TTTCATGAAATATACTCAAAATCCACCC
Found at i:23177 original size:36 final size:36
Alignment explanation
Indices: 23103--23177 Score: 98
Period size: 36 Copynumber: 2.1 Consensus size: 36
23093 TTTTTATATT
*
23103 TTTAATTTTGAAAAAAAATTATATAAATATTATGAA
1 TTTAATTTTGAAAAAAAATTATATAAATATTATCAA
* * *
23139 TTTAATTTTTAAAGAAAA-TATATAAATATTTTACAA
1 TTTAATTTTGAAAAAAAATTATATAAATATTAT-CAA
23175 TTT
1 TTT
23178 GTAATATTAT
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
35 13 0.38
36 21 0.62
ACGTcount: A:0.49, C:0.01, G:0.04, T:0.45
Consensus pattern (36 bp):
TTTAATTTTGAAAAAAAATTATATAAATATTATCAA
Found at i:29571 original size:194 final size:193
Alignment explanation
Indices: 29233--29674 Score: 530
Period size: 194 Copynumber: 2.3 Consensus size: 193
29223 AGTAACGTAG
* * ** * ** *
29233 TATATCGTCACCTAATAGTAACATGGATGACATTTATATATAACGTCACTATATAATTAATATTC
1 TATATCGTTACCTAATAATATTATGAATGATGTTTATGTATAACGTCACTATATAATTAATATTC
* ** * **
29298 AATGACGACTAATTATGTCACTAAATTATGTAAAATTTCGTTATTGATTATTTATATCGTCACGG
66 AATGACGACTAATTACGTCACTAAATTAAATAAAATTTCGTTATTGATTATTTATATCATCACAA
* *
29363 ATAATACATTAAAATCAACCTATATGTGACGAAAGAGATATTGTCAAATTTTTACTGACATAA
131 ATAATACATTAAAATCAACCTATATGTGACGAAAAAGATATTGTCAAATTTTTACTGACAGAA
* * *
29426 TATAAAT-GTTACCTAATAATATTATGAATGATGTTTATGTATAACCTCACTTTATAATTTATAT
1 TAT--ATCGTTACCTAATAATATTATGAATGATGTTTATGTATAACGTCACTATATAATTAATAT
* * ** * *
29490 TCTATGAC-AGTTGTTTACGTCACTAAATTAAATAAGATTTCGTTATTGA-TAGTTTATATTATC
64 TCAATGACGA-CTAATTACGTCACTAAATTAAATAAAATTTCGTTATTGATTA-TTTATATCATC
* * * *
29553 ACAAATAATGCATTAAAATCAACTTATATGTGACGAAAAAGATATTGTCACATTTTTAGTGACAG
127 ACAAATAATACATTAAAATCAACCTATATGTGACGAAAAAGATATTGTCAAATTTTTACTGACAG
29618 AA
192 AA
* * * *
29620 TATATCGTTACTTAATAATATTATGAATGATGATTATGCATAACGTCACCATATA
1 TATATCGTTACCTAATAATATTATGAATGATGTTTATGTATAACGTCACTATATA
29675 TAATGTCACT
Statistics
Matches: 209, Mismatches: 35, Indels: 10
0.82 0.14 0.04
Matches are distributed among these distances:
192 2 0.01
193 49 0.23
194 156 0.75
195 2 0.01
ACGTcount: A:0.38, C:0.12, G:0.11, T:0.38
Consensus pattern (193 bp):
TATATCGTTACCTAATAATATTATGAATGATGTTTATGTATAACGTCACTATATAATTAATATTC
AATGACGACTAATTACGTCACTAAATTAAATAAAATTTCGTTATTGATTATTTATATCATCACAA
ATAATACATTAAAATCAACCTATATGTGACGAAAAAGATATTGTCAAATTTTTACTGACAGAA
Found at i:29845 original size:25 final size:20
Alignment explanation
Indices: 29790--29835 Score: 92
Period size: 20 Copynumber: 2.3 Consensus size: 20
29780 TTAAACAAAT
29790 ATTTCAATAAAAGCATAATA
1 ATTTCAATAAAAGCATAATA
29810 ATTTCAATAAAAGCATAATA
1 ATTTCAATAAAAGCATAATA
29830 ATTTCA
1 ATTTCA
29836 TTTATATAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.52, C:0.11, G:0.04, T:0.33
Consensus pattern (20 bp):
ATTTCAATAAAAGCATAATA
Found at i:30243 original size:18 final size:19
Alignment explanation
Indices: 30208--30252 Score: 74
Period size: 18 Copynumber: 2.4 Consensus size: 19
30198 ATGATTTAAA
*
30208 AAAATAAAAATTAGACTTT
1 AAAATAAAAATTAAACTTT
30227 AAAATAAAAA-TAAACTTT
1 AAAATAAAAATTAAACTTT
30245 AAAATAAA
1 AAAATAAA
30253 TATCAAAAGT
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
18 15 0.60
19 10 0.40
ACGTcount: A:0.67, C:0.04, G:0.02, T:0.27
Consensus pattern (19 bp):
AAAATAAAAATTAAACTTT
Found at i:49059 original size:11 final size:12
Alignment explanation
Indices: 49036--49069 Score: 52
Period size: 11 Copynumber: 2.9 Consensus size: 12
49026 AAATGATGCA
*
49036 GAAAATGAAAAT
1 GAAAATAAAAAT
49048 GAAAA-AAAAAT
1 GAAAATAAAAAT
49059 GAAAATAAAAA
1 GAAAATAAAAA
49070 AAAGGAGAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
11 10 0.50
12 10 0.50
ACGTcount: A:0.76, C:0.00, G:0.12, T:0.12
Consensus pattern (12 bp):
GAAAATAAAAAT
Found at i:49059 original size:17 final size:17
Alignment explanation
Indices: 49037--49087 Score: 70
Period size: 17 Copynumber: 3.0 Consensus size: 17
49027 AATGATGCAG
49037 AAAATGAAAATGAAAAA
1 AAAATGAAAATGAAAAA
49054 AAAATGAAAAT-AAAAA
1 AAAATGAAAATGAAAAA
49070 AAAGGA-GAAAATGAAAAA
1 AAA--ATGAAAATGAAAAA
49088 TGATGAAGAA
Statistics
Matches: 31, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
16 8 0.26
17 17 0.55
18 6 0.19
ACGTcount: A:0.76, C:0.00, G:0.14, T:0.10
Consensus pattern (17 bp):
AAAATGAAAATGAAAAA
Found at i:49088 original size:41 final size:40
Alignment explanation
Indices: 49035--49127 Score: 109
Period size: 41 Copynumber: 2.3 Consensus size: 40
49025 AAAATGATGC
*
49035 AGAAAATG-AAAATGA-AAAAAAAATGAAAATAAAAAAAAGG
1 AGAAAATGAAAAATGATAAAAAAAACGAAAA-AAAAAAAA-G
* * *
49075 AGAAAATGAAAAATGATGAAGAAAACGAAAAAGAAAAAAG
1 AGAAAATGAAAAATGATAAAAAAAACGAAAAAAAAAAAAG
49115 AGCAAAATGAAAA
1 AG-AAAATGAAAA
49128 GAAAAAGAAA
Statistics
Matches: 46, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
40 11 0.24
41 24 0.52
42 11 0.24
ACGTcount: A:0.72, C:0.02, G:0.17, T:0.09
Consensus pattern (40 bp):
AGAAAATGAAAAATGATAAAAAAAACGAAAAAAAAAAAAG
Found at i:50100 original size:16 final size:17
Alignment explanation
Indices: 50065--50097 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
50055 GTTTCCCTGG
50065 GATAGTTGAAGATTGAA
1 GATAGTTGAAGATTGAA
50082 GATA-TTGAAGCATTGA
1 GATAGTTGAAG-ATTGA
50098 GATGAACATA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.39, C:0.03, G:0.27, T:0.30
Consensus pattern (17 bp):
GATAGTTGAAGATTGAA
Found at i:50527 original size:55 final size:55
Alignment explanation
Indices: 50406--50606 Score: 243
Period size: 55 Copynumber: 3.7 Consensus size: 55
50396 TATGAAGATT
* * * ** * *
50406 GAGTCCTATACTCTCTGAAGAAATAGGGAGCATACACATTTTATG-A-A--GATC
1 GAGTTCTATACTCTCTGAAGGAATAGAGAGCGGACCCGTTTTATGAAGATTGATC
*
50457 GAGTCCTATACTCTCTGAAGGAATAGAGA-CTGGACCCGTTTGT-TGAAGATTGATC
1 GAGTTCTATACTCTCTGAAGGAATAGAGAGC-GGACCCGTTT-TATGAAGATTGATC
* *
50512 GAGTTCTATACTCTCTGAAGGAATAGAGAGCGAACCCGTTTTATGAAGATTGTTC
1 GAGTTCTATACTCTCTGAAGGAATAGAGAGCGGACCCGTTTTATGAAGATTGATC
*
50567 GAGTTCTATACTCTCTGAAGAAATAGAGAGCGGACCCGTT
1 GAGTTCTATACTCTCTGAAGGAATAGAGAGCGGACCCGTT
50607 CGTTAAAAAT
Statistics
Matches: 131, Mismatches: 11, Indels: 12
0.85 0.07 0.08
Matches are distributed among these distances:
50 1 0.01
51 35 0.27
52 2 0.02
53 1 0.01
54 1 0.01
55 90 0.69
56 1 0.01
ACGTcount: A:0.30, C:0.18, G:0.23, T:0.28
Consensus pattern (55 bp):
GAGTTCTATACTCTCTGAAGGAATAGAGAGCGGACCCGTTTTATGAAGATTGATC
Found at i:50556 original size:106 final size:107
Alignment explanation
Indices: 50406--50606 Score: 273
Period size: 106 Copynumber: 1.9 Consensus size: 107
50396 TATGAAGATT
*
50406 GAGTCCTATACTCTCTGAAGAAATAGGGAGCATACACATTTTATGAAGA-TCGAGTCCTATACTC
1 GAGTCCTATACTCTCTGAAGAAATAGAGAGCATACACATTTTATGAAGATTCGAGTCCTATACTC
*
50470 TCTGAAGGAATAGAGA-CTGGACCCGTTTGTTGAAGATTGATC
66 TCTGAAGAAATAGAGAGC-GGACCCGTTTGTTGAAGATTGATC
* * * * *
50512 GAGTTCTATACTCTCTGAAGGAATAGAGAGCGA-ACCCGTTTTATGAAGATTGTTCGAGTTCTAT
1 GAGTCCTATACTCTCTGAAGAAATAGAGAGC-ATACACATTTTATGAAGA---TTCGAGTCCTAT
50576 ACTCTCTGAAGAAATAGAGAGCGGACCCGTT
62 ACTCTCTGAAGAAATAGAGAGCGGACCCGTT
50607 CGTTAAAAAT
Statistics
Matches: 82, Mismatches: 7, Indels: 8
0.85 0.07 0.08
Matches are distributed among these distances:
106 42 0.51
107 1 0.01
110 38 0.46
111 1 0.01
ACGTcount: A:0.30, C:0.18, G:0.23, T:0.28
Consensus pattern (107 bp):
GAGTCCTATACTCTCTGAAGAAATAGAGAGCATACACATTTTATGAAGATTCGAGTCCTATACTC
TCTGAAGAAATAGAGAGCGGACCCGTTTGTTGAAGATTGATC
Found at i:51268 original size:19 final size:21
Alignment explanation
Indices: 51225--51276 Score: 72
Period size: 19 Copynumber: 2.6 Consensus size: 21
51215 GAAACCCCTT
*
51225 TGAAAATACATGTTTTTTAAA
1 TGAAAATACATGTATTTTAAA
51246 TGAAAATACATG-ATTTT-AA
1 TGAAAATACATGTATTTTAAA
*
51265 TGAAGATACATG
1 TGAAAATACATG
51277 CTCTTGGCCG
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
19 13 0.45
20 4 0.14
21 12 0.41
ACGTcount: A:0.44, C:0.06, G:0.13, T:0.37
Consensus pattern (21 bp):
TGAAAATACATGTATTTTAAA
Found at i:52103 original size:16 final size:17
Alignment explanation
Indices: 52082--52115 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
52072 AACTATATAA
52082 TGCATATAAT-AATATG
1 TGCATATAATAAATATG
*
52098 TGCATATGATAAATATG
1 TGCATATAATAAATATG
52115 T
1 T
52116 AACTCATATA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 9 0.56
17 7 0.44
ACGTcount: A:0.41, C:0.06, G:0.15, T:0.38
Consensus pattern (17 bp):
TGCATATAATAAATATG
Found at i:54729 original size:20 final size:21
Alignment explanation
Indices: 54692--54730 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 21
54682 GATGGTCTTG
*
54692 ATGAAGGATGTTGATGATGAA
1 ATGAAGGATGGTGATGATGAA
*
54713 ATGAA-GATGGTGGTGATG
1 ATGAAGGATGGTGATGATG
54731 TTGTATCTCA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 11 0.69
21 5 0.31
ACGTcount: A:0.33, C:0.00, G:0.38, T:0.28
Consensus pattern (21 bp):
ATGAAGGATGGTGATGATGAA
Found at i:55112 original size:19 final size:21
Alignment explanation
Indices: 55069--55120 Score: 81
Period size: 19 Copynumber: 2.6 Consensus size: 21
55059 GAAACCCCTT
55069 TGAAAATACATGATTTTTAAA
1 TGAAAATACATGATTTTTAAA
55090 TGAAAATACATGA-TTTT-AA
1 TGAAAATACATGATTTTTAAA
*
55109 TGAAGATACATG
1 TGAAAATACATG
55121 CTCTTGGCCG
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
19 13 0.43
20 4 0.13
21 13 0.43
ACGTcount: A:0.46, C:0.06, G:0.13, T:0.35
Consensus pattern (21 bp):
TGAAAATACATGATTTTTAAA
Found at i:58055 original size:17 final size:18
Alignment explanation
Indices: 58023--58057 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
58013 AGGTTAGGGT
58023 TGAAAAGAAAAGAAGAAA
1 TGAAAAGAAAAGAAGAAA
*
58041 TGAAAAG-ATAGAAGAAA
1 TGAAAAGAAAAGAAGAAA
58058 GGATTTAAAG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.69, C:0.00, G:0.23, T:0.09
Consensus pattern (18 bp):
TGAAAAGAAAAGAAGAAA
Found at i:58316 original size:29 final size:29
Alignment explanation
Indices: 58249--58317 Score: 70
Period size: 29 Copynumber: 2.3 Consensus size: 29
58239 TCTTGGCTTG
*
58249 CTTTCTCTTTTTCTTTTCTTTTCTTCTTTT
1 CTTTCT-TTTTTCTCTTCTTTTCTTCTTTT
* *
58279 CTGAT-TTTTTTCTCTTCTTTT-GTCTTTTT
1 CT-TTCTTTTTTCTCTTCTTTTCTTC-TTTT
58308 CTTTCTTTTT
1 CTTTCTTTTT
58318 GCACTCCAAT
Statistics
Matches: 32, Mismatches: 4, Indels: 7
0.74 0.09 0.16
Matches are distributed among these distances:
28 3 0.09
29 25 0.78
30 3 0.09
31 1 0.03
ACGTcount: A:0.01, C:0.20, G:0.03, T:0.75
Consensus pattern (29 bp):
CTTTCTTTTTTCTCTTCTTTTCTTCTTTT
Found at i:58317 original size:18 final size:19
Alignment explanation
Indices: 58267--58318 Score: 56
Period size: 18 Copynumber: 2.8 Consensus size: 19
58257 TTTTCTTTTC
*
58267 TTTTC-TTCTTTTCTGATTT
1 TTTTCTTTCTTTT-TGATCT
58286 TTTTCTCTTC-TTTTG-TCT
1 TTTTCT-TTCTTTTTGATCT
58304 TTTTCTTTCTTTTTG
1 TTTTCTTTCTTTTTG
58319 CACTCCAATT
Statistics
Matches: 29, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
17 3 0.10
18 13 0.45
19 7 0.24
20 3 0.10
21 3 0.10
ACGTcount: A:0.02, C:0.17, G:0.06, T:0.75
Consensus pattern (19 bp):
TTTTCTTTCTTTTTGATCT
Found at i:58367 original size:10 final size:11
Alignment explanation
Indices: 58343--58367 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
58333 TGTAGGAGTC
58343 TTTTCTTCTAT
1 TTTTCTTCTAT
58354 TTTTCTTCTAT
1 TTTTCTTCTAT
58365 TTT
1 TTT
58368 GCACGCCAAT
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:0.08, C:0.16, G:0.00, T:0.76
Consensus pattern (11 bp):
TTTTCTTCTAT
Found at i:59007 original size:23 final size:22
Alignment explanation
Indices: 58975--59023 Score: 73
Period size: 21 Copynumber: 2.2 Consensus size: 22
58965 CTAGTTATAG
58975 TTTTTCAAATTTGAAAATACATGA
1 TTTTTCAAA--TGAAAATACATGA
58999 TTTTT-AAATGAAAATACATGA
1 TTTTTCAAATGAAAATACATGA
59020 TTTT
1 TTTT
59024 AATGAAGATA
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
21 17 0.68
23 3 0.12
24 5 0.20
ACGTcount: A:0.41, C:0.06, G:0.08, T:0.45
Consensus pattern (22 bp):
TTTTTCAAATGAAAATACATGA
Found at i:59029 original size:19 final size:21
Alignment explanation
Indices: 58986--59037 Score: 81
Period size: 19 Copynumber: 2.6 Consensus size: 21
58976 TTTTCAAATT
58986 TGAAAATACATGATTTTTAAA
1 TGAAAATACATGATTTTTAAA
59007 TGAAAATACATGA-TTTT-AA
1 TGAAAATACATGATTTTTAAA
*
59026 TGAAGATACATG
1 TGAAAATACATG
59038 CTCTTGGCCG
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
19 13 0.43
20 4 0.13
21 13 0.43
ACGTcount: A:0.46, C:0.06, G:0.13, T:0.35
Consensus pattern (21 bp):
TGAAAATACATGATTTTTAAA
Found at i:60293 original size:55 final size:55
Alignment explanation
Indices: 60193--60391 Score: 234
Period size: 55 Copynumber: 3.7 Consensus size: 55
60183 ATCAAAATTA
* *
60193 TTCGAGTCCTATACTCTCTCATGGAAT--AG-G--GACCCGTTTGTTGAAGATTG
1 TTCGAGTTCTATACTCTCTAATGGAATAGAGAGCAGACCCGTTTGTTGAAGATTG
* * * *
60243 ATCGAGTTCTATACTCTCTGATGGTATAGAGAGCGGACCCGTTTGTTGAAGATTG
1 TTCGAGTTCTATACTCTCTAATGGAATAGAGAGCAGACCCGTTTGTTGAAGATTG
**
60298 TTCGAGTTCTATACTCTCTTAAT-GAATAGAGAGCAGACTTGTTT-TCTGAAGATTG
1 TTCGAGTTCTATACTCTC-TAATGGAATAGAGAGCAGACCCGTTTGT-TGAAGATTG
*
60353 TTCGAG-TCTTATACTCTCTAAAGGAATAGAGAGCAGACC
1 TTCGAGTTC-TATACTCTCTAATGGAATAGAGAGCAGACC
60392 TGTCTTTTGA
Statistics
Matches: 128, Mismatches: 12, Indels: 13
0.84 0.08 0.08
Matches are distributed among these distances:
50 23 0.18
52 2 0.02
53 1 0.01
54 6 0.05
55 93 0.73
56 3 0.02
ACGTcount: A:0.26, C:0.18, G:0.23, T:0.33
Consensus pattern (55 bp):
TTCGAGTTCTATACTCTCTAATGGAATAGAGAGCAGACCCGTTTGTTGAAGATTG
Found at i:60416 original size:55 final size:55
Alignment explanation
Indices: 60193--60417 Score: 216
Period size: 55 Copynumber: 4.2 Consensus size: 55
60183 ATCAAAATTA
* * *
60193 TTCGAGTC-CTATACTCTCTCATGGAAT--AG-G--GACCCGTTTGTTGAAGATTG
1 TTCGAGTCTCTATACTCTCTAAAGGAATAGAGAGCAGACCTGTTT-TTGAAGATTG
* * * * * *
60243 ATCGAGT-TCTATACTCTCTGATGGTATAGAGAGCGGACCCGTTTGTTGAAGATTG
1 TTCGAGTCTCTATACTCTCTAAAGGAATAGAGAGCAGACCTGTTT-TTGAAGATTG
* * *
60298 TTCGAGT-TCTATACTCTCTTAATGAATAGAGAGCAGACTTGTTTTCTGAAGATTG
1 TTCGAGTCTCTATACTCTCTAAAGGAATAGAGAGCAGACCTGTTTT-TGAAGATTG
* *
60353 TTCGAGTCT-TATACTCTCTAAAGGAATAGAGAGCAGACCTGTCTTTTGAAAATTT
1 TTCGAGTCTCTATACTCTCTAAAGGAATAGAGAGCAGACCTGT-TTTTGAAGATTG
*
60408 TTCAAGTCTC
1 TTCGAGTCTC
60418 GTTTATCCTG
Statistics
Matches: 148, Mismatches: 17, Indels: 14
0.83 0.09 0.08
Matches are distributed among these distances:
50 23 0.16
52 2 0.01
53 1 0.01
54 1 0.01
55 117 0.79
56 4 0.03
ACGTcount: A:0.26, C:0.17, G:0.22, T:0.35
Consensus pattern (55 bp):
TTCGAGTCTCTATACTCTCTAAAGGAATAGAGAGCAGACCTGTTTTTGAAGATTG
Found at i:60630 original size:28 final size:27
Alignment explanation
Indices: 60594--60646 Score: 72
Period size: 28 Copynumber: 1.9 Consensus size: 27
60584 GTTTTTATAT
60594 TTTAGTAATT-ATATTTATGTTAGTTAGA
1 TTTAGTAATTAATA-TTAT-TTAGTTAGA
*
60622 TTTATTAATTAATATTATTTAGTTA
1 TTTAGTAATTAATATTATTTAGTTA
60647 AATAAATTGT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
27 7 0.30
28 13 0.57
29 3 0.13
ACGTcount: A:0.34, C:0.00, G:0.09, T:0.57
Consensus pattern (27 bp):
TTTAGTAATTAATATTATTTAGTTAGA
Found at i:66611 original size:19 final size:19
Alignment explanation
Indices: 66568--66604 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
66558 GGACCGGTTT
66568 TTGACCGGTCTGAACCGGG
1 TTGACCGGTCTGAACCGGG
66587 TTGACCGGT-TCGAACCGG
1 TTGACCGGTCT-GAACCGG
66605 TTCGACCTGA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 1 0.06
19 16 0.94
ACGTcount: A:0.16, C:0.27, G:0.35, T:0.22
Consensus pattern (19 bp):
TTGACCGGTCTGAACCGGG
Found at i:73742 original size:13 final size:13
Alignment explanation
Indices: 73724--73753 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
73714 GACCCGACCC
73724 GACCCGACACGTT
1 GACCCGACACGTT
*
73737 GACCCGACCCGTT
1 GACCCGACACGTT
73750 GACC
1 GACC
73754 GTTGACCTTC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.20, C:0.43, G:0.23, T:0.13
Consensus pattern (13 bp):
GACCCGACACGTT
Found at i:78148 original size:13 final size:15
Alignment explanation
Indices: 78121--78152 Score: 50
Period size: 13 Copynumber: 2.3 Consensus size: 15
78111 CTTTTTTATT
78121 TTTTACTTTTACTTA
1 TTTTACTTTTACTTA
78136 TTTTA-TTTT-CTTA
1 TTTTACTTTTACTTA
78149 TTTT
1 TTTT
78153 TTTCTCATTC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
13 8 0.47
14 4 0.24
15 5 0.29
ACGTcount: A:0.16, C:0.09, G:0.00, T:0.75
Consensus pattern (15 bp):
TTTTACTTTTACTTA
Found at i:83016 original size:13 final size:13
Alignment explanation
Indices: 82998--83023 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
82988 ACATTCATCA
82998 TATACCGATGCAT
1 TATACCGATGCAT
83011 TATACCGATGCAT
1 TATACCGATGCAT
83024 CAAGGGTAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.23, G:0.15, T:0.31
Consensus pattern (13 bp):
TATACCGATGCAT
Found at i:83158 original size:24 final size:22
Alignment explanation
Indices: 83116--83192 Score: 67
Period size: 24 Copynumber: 3.6 Consensus size: 22
83106 GAATGCAATT
83116 AGTGCATCGATGCA---TAAGG
1 AGTGCATCGATGCATTGTAAGG
83135 AGTGCATCGATGCATATGTTAAGG
1 AGTGCATCGATGCAT-TG-TAAGG
*
83159 -GATGCATCGATACATTGT-A-G
1 AG-TGCATCGATGCATTGTAAGG
*
83179 AATGCATCGATGCA
1 AGTGCATCGATGCA
83193 CTTCAAGGGG
Statistics
Matches: 48, Mismatches: 3, Indels: 13
0.75 0.05 0.20
Matches are distributed among these distances:
19 14 0.29
20 12 0.25
21 1 0.02
22 1 0.02
23 3 0.06
24 17 0.35
ACGTcount: A:0.31, C:0.16, G:0.27, T:0.26
Consensus pattern (22 bp):
AGTGCATCGATGCATTGTAAGG
Found at i:89605 original size:18 final size:18
Alignment explanation
Indices: 89579--89613 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
89569 TATTCAAACT
*
89579 ATCCCTATTTGCCTATAC
1 ATCCATATTTGCCTATAC
89597 ATCCATATTTGCCTATA
1 ATCCATATTTGCCTATA
89614 TCCGGGGAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.26, C:0.29, G:0.06, T:0.40
Consensus pattern (18 bp):
ATCCATATTTGCCTATAC
Found at i:93315 original size:6 final size:6
Alignment explanation
Indices: 93304--93343 Score: 57
Period size: 6 Copynumber: 6.8 Consensus size: 6
93294 TAAGTTGAAA
93304 AAAAAC AAAAAC AAAAAC -AAAA- AAAAAC AAAAAAC AAAAA
1 AAAAAC AAAAAC AAAAAC AAAAAC AAAAAC -AAAAAC AAAAA
93344 GAGAAAAACG
Statistics
Matches: 31, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
5 8 0.26
6 17 0.55
7 6 0.19
ACGTcount: A:0.88, C:0.12, G:0.00, T:0.00
Consensus pattern (6 bp):
AAAAAC
Found at i:93326 original size:22 final size:23
Alignment explanation
Indices: 93301--93343 Score: 79
Period size: 23 Copynumber: 1.9 Consensus size: 23
93291 TCCTAAGTTG
93301 AAAAAAAAC-AAAAACAAAAACA
1 AAAAAAAACAAAAAACAAAAACA
93323 AAAAAAAACAAAAAACAAAAA
1 AAAAAAAACAAAAAACAAAAA
93344 GAGAAAAACG
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
22 9 0.45
23 11 0.55
ACGTcount: A:0.88, C:0.12, G:0.00, T:0.00
Consensus pattern (23 bp):
AAAAAAAACAAAAAACAAAAACA
Found at i:93427 original size:21 final size:21
Alignment explanation
Indices: 93383--93426 Score: 63
Period size: 20 Copynumber: 2.1 Consensus size: 21
93373 AAGGTGTCCT
93383 AAATTGAAAACAGAAAAAGAA
1 AAATTGAAAACAGAAAAAGAA
* *
93404 AAATT-AAAAGAGGAAAAGAA
1 AAATTGAAAACAGAAAAAGAA
93424 AAA
1 AAA
93427 AAGAAAAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 16 0.76
21 5 0.24
ACGTcount: A:0.73, C:0.02, G:0.16, T:0.09
Consensus pattern (21 bp):
AAATTGAAAACAGAAAAAGAA
Found at i:93451 original size:9 final size:8
Alignment explanation
Indices: 93417--93458 Score: 50
Period size: 8 Copynumber: 5.4 Consensus size: 8
93407 TTAAAAGAGG
93417 AAAAGAAA
1 AAAAGAAA
93425 AAAAGAAA
1 AAAAGAAA
*
93433 AAAAGAAG
1 AAAAGAAA
*
93441 AAAA-AAG
1 AAAAGAAA
*
93448 AGAAGAAA
1 AAAAGAAA
93456 AAA
1 AAA
93459 TAAGGTGGGT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
7 6 0.21
8 23 0.79
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (8 bp):
AAAAGAAA
Found at i:93451 original size:12 final size:11
Alignment explanation
Indices: 93422--93458 Score: 58
Period size: 12 Copynumber: 3.4 Consensus size: 11
93412 AGAGGAAAAG
93422 AAAAA-AAGAA
1 AAAAAGAAGAA
93432 AAAAAGAAGAA
1 AAAAAGAAGAA
93443 AAAAGAGAAGAA
1 AAAA-AGAAGAA
93455 AAAA
1 AAAA
93459 TAAGGTGGGT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
10 5 0.20
11 9 0.36
12 11 0.44
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (11 bp):
AAAAAGAAGAA
Found at i:94787 original size:110 final size:110
Alignment explanation
Indices: 94594--94799 Score: 360
Period size: 110 Copynumber: 1.9 Consensus size: 110
94584 GCTTCCCAAT
* *
94594 TTCAGAGTCAATTTCAACTTCACAGCGAAGGATATTGGACCCAAGACAACACAAGCTCAACTTCA
1 TTCAGAGTCAATTTCAACTTCACAACGAAGGATATTGAACCCAAGACAACACAAGCTCAACTTCA
94659 CAGCGAAGGGGCGGCTGATTGTCAACAAATAGCCTTTCAATTTTA
66 CAGCGAAGGGGCGGCTGATTGTCAACAAATAGCCTTTCAATTTTA
*
94704 TTCAGAGTCAATTTCAACTTCACAACGAAGGATATTGAACTCAAGACAACACAAGCTCAACTTCA
1 TTCAGAGTCAATTTCAACTTCACAACGAAGGATATTGAACCCAAGACAACACAAGCTCAACTTCA
*
94769 C-GATGAAGGGGCGGCTGATTGTCAACAAATA
66 CAG-CGAAGGGGCGGCTGATTGTCAACAAATA
94800 ATTTCCCAAT
Statistics
Matches: 91, Mismatches: 4, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
109 1 0.01
110 90 0.99
ACGTcount: A:0.35, C:0.23, G:0.19, T:0.23
Consensus pattern (110 bp):
TTCAGAGTCAATTTCAACTTCACAACGAAGGATATTGAACCCAAGACAACACAAGCTCAACTTCA
CAGCGAAGGGGCGGCTGATTGTCAACAAATAGCCTTTCAATTTTA
Found at i:96996 original size:21 final size:21
Alignment explanation
Indices: 96957--96997 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
96947 ATTTTATATT
* *
96957 TTTATTTTTTCTTTGTCTTTA
1 TTTATTTTCTATTTGTCTTTA
*
96978 TTTATTTTCTATTTTTCTTT
1 TTTATTTTCTATTTGTCTTT
96998 GTATTTTTCC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.10, C:0.10, G:0.02, T:0.78
Consensus pattern (21 bp):
TTTATTTTCTATTTGTCTTTA
Found at i:104250 original size:26 final size:26
Alignment explanation
Indices: 104216--104269 Score: 74
Period size: 27 Copynumber: 2.1 Consensus size: 26
104206 GATCCGACTT
*
104216 AATTCGATT-AGGTTAGATTTTTTTA
1 AATTCGATTCAGGTTAGAATTTTTTA
*
104241 AATTCGGATTCAGGTTGGAATTTTTTA
1 AATTC-GATTCAGGTTAGAATTTTTTA
104268 AA
1 AA
104270 GTTGAAGTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 5 0.20
26 4 0.16
27 16 0.64
ACGTcount: A:0.30, C:0.06, G:0.19, T:0.46
Consensus pattern (26 bp):
AATTCGATTCAGGTTAGAATTTTTTA
Found at i:104651 original size:2 final size:2
Alignment explanation
Indices: 104646--104670 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
104636 TTTTTAATTT
104646 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
104671 TAAAAAAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:104651 original size:18 final size:19
Alignment explanation
Indices: 104619--104656 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
104609 GTTCTGAAAA
104619 TTTAAATTTATTATATATT
1 TTTAAATTTATTATATATT
*
104638 TTTAATTTTATATATATAT
1 TTTAAATTTAT-TATATAT
104657 ATATATATAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 10 0.59
20 7 0.41
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (19 bp):
TTTAAATTTATTATATATT
Found at i:108172 original size:3 final size:3
Alignment explanation
Indices: 108166--108226 Score: 56
Period size: 3 Copynumber: 20.7 Consensus size: 3
108156 AAATTATTAT
* * *
108166 TAA TAA TAA TAC TAA TAA TAT TAT TAA TAA TAA -ATA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA-A TAA TAA TAA
108211 -ATA TAA TAA T-A TAA TA
1 TA-A TAA TAA TAA TAA TA
108227 TTTTTAAGCC
Statistics
Matches: 49, Mismatches: 4, Indels: 10
0.78 0.06 0.16
Matches are distributed among these distances:
2 4 0.08
3 43 0.88
4 2 0.04
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.38
Consensus pattern (3 bp):
TAA
Found at i:108181 original size:12 final size:11
Alignment explanation
Indices: 108166--108226 Score: 72
Period size: 12 Copynumber: 5.5 Consensus size: 11
108156 AAATTATTAT
108166 TAATAATAATA
1 TAATAATAATA
*
108177 CTAATAATATTA
1 -TAATAATAATA
108189 TTAATAATAAATA
1 -TAATAAT-AATA
108202 TAATAATAA-A
1 TAATAATAATA
108212 T-ATAATAATA
1 TAATAATAATA
108222 TAATA
1 TAATA
108227 TTTTTAAGCC
Statistics
Matches: 43, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
9 7 0.16
10 4 0.09
11 5 0.12
12 24 0.56
13 3 0.07
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.38
Consensus pattern (11 bp):
TAATAATAATA
Found at i:108187 original size:24 final size:24
Alignment explanation
Indices: 108160--108227 Score: 86
Period size: 24 Copynumber: 2.8 Consensus size: 24
108150 TAACCAAAAT
108160 TATTATTAATAAT-AATACTAATAA
1 TATTATTAATAATAAATA-TAATAA
108184 TATTATTAATAATAAATATAATAA
1 TATTATTAATAATAAATATAATAA
*
108208 TA-AATATAATAATATAATAT
1 TATTAT-TAATAATA-AATAT
108228 TTTTAAGCCC
Statistics
Matches: 40, Mismatches: 1, Indels: 5
0.87 0.02 0.11
Matches are distributed among these distances:
23 2 0.05
24 29 0.73
25 9 0.22
ACGTcount: A:0.57, C:0.01, G:0.00, T:0.41
Consensus pattern (24 bp):
TATTATTAATAATAAATATAATAA
Found at i:108567 original size:136 final size:136
Alignment explanation
Indices: 108397--109263 Score: 1387
Period size: 136 Copynumber: 6.4 Consensus size: 136
108387 ACAATTTTTT
* * * * *
108397 TCATTATGAACTTCTTCTCTCT-TGTTGGATGAGTTCTTCTCATTATGAACTCTTCACTGGAAAT
1 TCATTATGAACTTCTTCTCCCTCTATCGGATGAGTTCTTCTCATTATGAACTCTCCATTGGAAAT
* * * *
108461 GTTAATCCCTCAAGCGAGATGTCACTGATTTGAAATGTCGTGAATCGAGTGATAGGTCGAACAAG
66 GTCAATCCCTCAAGCGAGGTGTCACTGATTCGAAATGCCGTGAATCGAGTGATAGGTCGAACAAG
108526 CTCTTC
131 CTCTTC
* * *
108532 TCATTATGAACTTCTTCTTCCTCTGTCGGATGAGTTCTTCTCATTATGAACTCTCCATTAGAAAT
1 TCATTATGAACTTCTTCTCCCTCTATCGGATGAGTTCTTCTCATTATGAACTCTCCATTGGAAAT
* * * *
108597 ATCAAAT-TCTCAAGCGAGGCGTCACTGATTCGAAGTGCCGTGAATCGAGTGATAGGTCGAACAA
66 GTC-AATCCCTCAAGCGAGGTGTCACTGATTCGAAATGCCGTGAATCGAGTGATAGGTCGAACAA
108661 GCTCTTC
130 GCTCTTC
*
108668 TCATTATGAACTTCTTCTCCCTCTATCGGATGAGTTCTTCTCATTATAAACTCTCCATTGGAAAT
1 TCATTATGAACTTCTTCTCCCTCTATCGGATGAGTTCTTCTCATTATGAACTCTCCATTGGAAAT
* * * * * *
108733 ATCAATTCCTCAAGTGAGGCGTCACTGATTCGAAATACCATGAATCGAGTGATAGGTCGAACAAG
66 GTCAATCCCTCAAGCGAGGTGTCACTGATTCGAAATGCCGTGAATCGAGTGATAGGTCGAACAAG
108798 CTCTTC
131 CTCTTC
108804 TCATTATGAACTTCTTCTCCCTCTATCGGATGAGTTCTTCTCATTATGAACTCTCCATTGGAAAT
1 TCATTATGAACTTCTTCTCCCTCTATCGGATGAGTTCTTCTCATTATGAACTCTCCATTGGAAAT
* ** * *
108869 GTCAATCCCTCAAGCGAGGTGTCACTGATTCAAAATATCGTGAATCGAGTGATAGGTTGAACAAA
66 GTCAATCCCTCAAGCGAGGTGTCACTGATTCGAAATGCCGTGAATCGAGTGATAGGTCGAACAAG
108934 CTCTTC
131 CTCTTC
108940 TCATTATGAACTTCTTCTCCCTCTATCGGATGAGTTCTTCTCATTATGAACTCTCCATTGGAAAT
1 TCATTATGAACTTCTTCTCCCTCTATCGGATGAGTTCTTCTCATTATGAACTCTCCATTGGAAAT
* *
109005 GTCAATCCCTCAAGCGAGGTGTCACTGATTCGAAATGCTGTGAATCGAGTGATAAGTCGAACAAG
66 GTCAATCCCTCAAGCGAGGTGTCACTGATTCGAAATGCCGTGAATCGAGTGATAGGTCGAACAAG
109070 CTCTTC
131 CTCTTC
109076 TCATTATGAACTTCTTCTCCCTCTATCGGATGAGTTCTTCTCATTATGAACTCTCCATTGGAAAT
1 TCATTATGAACTTCTTCTCCCTCTATCGGATGAGTTCTTCTCATTATGAACTCTCCATTGGAAAT
* * *
109141 GTCAATCCCTCAAGCGAGGTGTCACTGATTCGAAATACTGTGAATCGAGTGATAAGTCGAACAAG
66 GTCAATCCCTCAAGCGAGGTGTCACTGATTCGAAATGCCGTGAATCGAGTGATAGGTCGAACAAG
109206 CTCTTC
131 CTCTTC
* * *
109212 TCATTATGAACTTTTTCTCCTTCTATCGGATGGGTTCTTCTCATTATGAACT
1 TCATTATGAACTTCTTCTCCCTCTATCGGATGAGTTCTTCTCATTATGAACT
109264 TTGTACTGGA
Statistics
Matches: 685, Mismatches: 44, Indels: 5
0.93 0.06 0.01
Matches are distributed among these distances:
135 23 0.03
136 659 0.96
137 3 0.00
ACGTcount: A:0.26, C:0.23, G:0.18, T:0.34
Consensus pattern (136 bp):
TCATTATGAACTTCTTCTCCCTCTATCGGATGAGTTCTTCTCATTATGAACTCTCCATTGGAAAT
GTCAATCCCTCAAGCGAGGTGTCACTGATTCGAAATGCCGTGAATCGAGTGATAGGTCGAACAAG
CTCTTC
Found at i:109738 original size:37 final size:36
Alignment explanation
Indices: 109634--109785 Score: 108
Period size: 37 Copynumber: 4.0 Consensus size: 36
109624 ATTCAAGTTC
* * ** *
109634 TTGTTTCAAGGGAAAGCTGTCTCAAGCAAGAC-GAAT
1 TTGTTTCAAGAGAAA-CTATCTCAAGGGAGACAAAAT
* * * *
109670 TTGGTTTTAAGAAAAACCATCTTAAGGGAGACAAAACT
1 TT-GTTTCAAGAGAAACTATCTCAAGGGAGACAAAA-T
*
109708 TTGTTTCAAGAGAAACTATCTCAAGTGAGACGTTCTTAAAAT
1 TTGTTTCAAGAGAAACTATCTCAAG-G-GA-G-AC--AAAAT
*
109750 TGTGTTTCAAGAGAAACTATCTCAAGGGACACAAAA
1 T-TGTTTCAAGAGAAACTATCTCAAGGGAGACAAAA
109786 AAAATTTCAA
Statistics
Matches: 90, Mismatches: 16, Indels: 19
0.72 0.13 0.15
Matches are distributed among these distances:
36 13 0.14
37 35 0.39
38 4 0.04
39 3 0.03
40 1 0.01
41 3 0.03
42 3 0.03
43 28 0.31
ACGTcount: A:0.38, C:0.15, G:0.20, T:0.27
Consensus pattern (36 bp):
TTGTTTCAAGAGAAACTATCTCAAGGGAGACAAAAT
Found at i:109838 original size:66 final size:64
Alignment explanation
Indices: 109728--109914 Score: 281
Period size: 64 Copynumber: 2.9 Consensus size: 64
109718 AGAAACTATC
* * *
109728 TCAAGTGAGACGTTCTTAAAA-TTGTGTTTCAAGAGAAACTATCTCAAGGGACACAAAAAAAATT
1 TCAAGGGAAACGTTCTTAAAATTTGTGTTTCAAGAGAAACTATCTCAAGGGAGACAAAAAAAA-T
*
109792 TCAAGGGAAACGTTCTTAAAATTGTGTGTTTCAAGAGAAACTATCTCAAGGGAGAC-AAAAATAT
1 TCAAGGGAAACGTTCTTAAAATT-TGTGTTTCAAGAGAAACTATCTCAAGGGAGACAAAAAAAAT
*
109856 TCAAGGGAAACGTTCTTAAAATTTTGTGTTTCAAGAAAAACTATCTC-AGGGAGACAAAA
1 TCAAGGGAAACGTTCTTAAAA-TTTGTGTTTCAAGAGAAACTATCTCAAGGGAGACAAAA
109915 TTTGTTTCAA
Statistics
Matches: 114, Mismatches: 5, Indels: 8
0.90 0.04 0.06
Matches are distributed among these distances:
63 8 0.07
64 66 0.58
65 9 0.08
66 31 0.27
ACGTcount: A:0.41, C:0.13, G:0.19, T:0.27
Consensus pattern (64 bp):
TCAAGGGAAACGTTCTTAAAATTTGTGTTTCAAGAGAAACTATCTCAAGGGAGACAAAAAAAAT
Found at i:109923 original size:35 final size:36
Alignment explanation
Indices: 109882--110134 Score: 94
Period size: 39 Copynumber: 6.6 Consensus size: 36
109872 TAAAATTTTG
*
109882 TGTTTCAAGAAAAACTATCTC-AGGGAGACAAAATT
1 TGTTTCAAGAAAAACTATCTCAAGAGAGACAAAATT
** * *
109917 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAATTTTTT
1 TGTTTCAAGAAAAACTATCTCAAGAGAGACAAA---ATT
* ** * * *
109956 TGTTTCGAGGCAAATTGTCTCAAGAGAGACAAAAAAAAAAT
1 TGTTTCAAGAAAAACTATCTCAAGAGAGAC-----AAAATT
* ** * *
109997 TGTTTCGAGGGAAACTATCTCAAGCGAGATAAAATCTTT
1 TGTTTCAAGAAAAACTATCTCAAGAGAGACAAAA---TT
* ** * *
110036 TGTTTCGAGGGAAACTATCTCAAGCGAGATAAAATCTTT
1 TGTTTCAAGAAAAACTATCTCAAGAGAGACAAAA---TT
* * * * *
110075 TGTTTCGAGGAAAACAATCTCAAGCGAGATAAAATATTT
1 TGTTTCAAGAAAAACTATCTCAAGAGAGA-CAAA-A-TT
*
110114 TGTTTCAAGGAAAAACAATCT
1 TGTTTCAA-GAAAAACTATCT
110135 TGAACGAGAT
Statistics
Matches: 182, Mismatches: 21, Indels: 25
0.80 0.09 0.11
Matches are distributed among these distances:
35 18 0.10
36 14 0.08
39 106 0.58
40 14 0.08
41 27 0.15
44 3 0.02
ACGTcount: A:0.39, C:0.14, G:0.19, T:0.28
Consensus pattern (36 bp):
TGTTTCAAGAAAAACTATCTCAAGAGAGACAAAATT
Found at i:109975 original size:39 final size:39
Alignment explanation
Indices: 109893--110119 Score: 219
Period size: 39 Copynumber: 5.9 Consensus size: 39
109883 GTTTCAAGAA
* *
109893 AAACTATCTC-AGGGAGACAAAA---TTTGTTTCAAGGG
1 AAACTATCTCAAGAGAGACAAAATCTTTTGTTTCGAGGG
* * * *
109928 AAACTGTCTCAAGAGAGACAAATTTTTTTGTTTCGAGGC
1 AAACTATCTCAAGAGAGACAAAATCTTTTGTTTCGAGGG
* * ****
109967 AAATTGTCTCAAGAGAGACAAAAAAAAAATTGTTTCGAGGG
1 AAACTATCTCAAGAGAGAC--AAAATCTTTTGTTTCGAGGG
* *
110008 AAACTATCTCAAGCGAGATAAAATCTTTTGTTTCGAGGG
1 AAACTATCTCAAGAGAGACAAAATCTTTTGTTTCGAGGG
* * *
110047 AAACTATCTCAAGCGAGATAAAATCTTTTGTTTCGAGGA
1 AAACTATCTCAAGAGAGACAAAATCTTTTGTTTCGAGGG
* * * *
110086 AAACAATCTCAAGCGAGATAAAATATTTTGTTTC
1 AAACTATCTCAAGAGAGACAAAATCTTTTGTTTC
110120 AAGGAAAAAC
Statistics
Matches: 163, Mismatches: 23, Indels: 8
0.84 0.12 0.04
Matches are distributed among these distances:
35 9 0.06
36 10 0.06
39 115 0.71
41 29 0.18
ACGTcount: A:0.37, C:0.14, G:0.19, T:0.29
Consensus pattern (39 bp):
AAACTATCTCAAGAGAGACAAAATCTTTTGTTTCGAGGG
Found at i:110001 original size:80 final size:80
Alignment explanation
Indices: 109911--110069 Score: 210
Period size: 80 Copynumber: 2.0 Consensus size: 80
109901 TCAGGGAGAC
* * * * * *
109911 AAAATTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAATTTTTTTGTTTCGAGGCAAATTGTCT
1 AAAAATTGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATCTTTTGTTTCGAGGCAAACTATCT
109976 CAAGAGAGACAAAAA
66 CAAGAGAGACAAAAA
* * * *
109991 AAAAATTGTTTCGAGGGAAACTATCTCAAGCGAGATAAAATCTTTTGTTTCGAGGGAAACTATCT
1 AAAAATTGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATCTTTTGTTTCGAGGCAAACTATCT
* *
110056 CAAGCGAGATAAAA
66 CAAGAGAGACAAAA
110070 TCTTTTGTTT
Statistics
Matches: 67, Mismatches: 12, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
80 67 1.00
ACGTcount: A:0.39, C:0.13, G:0.20, T:0.28
Consensus pattern (80 bp):
AAAAATTGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATCTTTTGTTTCGAGGCAAACTATCT
CAAGAGAGACAAAAA
Found at i:110143 original size:40 final size:40
Alignment explanation
Indices: 110022--110367 Score: 484
Period size: 40 Copynumber: 8.7 Consensus size: 40
110012 TATCTCAAGC
* * * * * *
110022 GAGATAAAATCTTTTGTTTCGAGG-GAAACTATC-TCAAGC
1 GAGATAAAATCTTCTGTTTCAAGGAAAAACAATCTTGAA-T
* * * *
110061 GAGATAAAATCTTTTGTTTCGAGG-AAAACAATC-TCAAGC
1 GAGATAAAATCTTCTGTTTCAAGGAAAAACAATCTTGAA-T
* * *
110100 GAGATAAAATATTTTGTTTCAAGGAAAAACAATCTTGAAC
1 GAGATAAAATCTTCTGTTTCAAGGAAAAACAATCTTGAAT
*
110140 GAGATAAAATCTTCTGTTTCAAGGAAAAACAATCTTGAGT
1 GAGATAAAATCTTCTGTTTCAAGGAAAAACAATCTTGAAT
110180 GAGATAAAATCTTCTGTTTCAAGGAAAAACAATCTTGAAT
1 GAGATAAAATCTTCTGTTTCAAGGAAAAACAATCTTGAAT
110220 GAGATAAAATCTTCTGTTTCAAGGAAAAACAATCTTGAAT
1 GAGATAAAATCTTCTGTTTCAAGGAAAAACAATCTTGAAT
* *
110260 GAAATAAAATCTTCTATTTCAAGGAAAAACAATCTTGAAT
1 GAGATAAAATCTTCTGTTTCAAGGAAAAACAATCTTGAAT
*
110300 GAGATAAAATCTTCTGTTTCAGGGAAAAACAATCTTGAAT
1 GAGATAAAATCTTCTGTTTCAAGGAAAAACAATCTTGAAT
110340 GAGATAAAATCTTCTGTTTCAAGTGAAA
1 GAGATAAAATCTTCTGTTTCAAG-GAAA
110368 CAGTCTCAAG
Statistics
Matches: 288, Mismatches: 16, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
39 59 0.20
40 222 0.77
41 7 0.02
ACGTcount: A:0.41, C:0.13, G:0.16, T:0.30
Consensus pattern (40 bp):
GAGATAAAATCTTCTGTTTCAAGGAAAAACAATCTTGAAT
Found at i:111809 original size:14 final size:14
Alignment explanation
Indices: 111790--111826 Score: 58
Period size: 13 Copynumber: 2.7 Consensus size: 14
111780 TTCTCGTCCA
111790 TTTTTCTTTACTTT
1 TTTTTCTTTACTTT
*
111804 TTTTTCTTT-GTTT
1 TTTTTCTTTACTTT
111817 TTTTTCTTTA
1 TTTTTCTTTA
111827 TATTTTCTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 12 0.57
14 9 0.43
ACGTcount: A:0.05, C:0.11, G:0.03, T:0.81
Consensus pattern (14 bp):
TTTTTCTTTACTTT
Found at i:111832 original size:14 final size:13
Alignment explanation
Indices: 111790--111860 Score: 65
Period size: 14 Copynumber: 5.5 Consensus size: 13
111780 TTCTCGTCCA
111790 TTTTTCTTTACTTT
1 TTTTTCTTTA-TTT
*
111804 TTTTTCTTTGTTT
1 TTTTTCTTTATTT
111817 TTTTTCTTTA--T
1 TTTTTCTTTATTT
*
111828 ATTTTCTTTATTAT
1 TTTTTCTTTATT-T
** *
111842 CCTTGCTTTATTT
1 TTTTTCTTTATTT
111855 TTTTTC
1 TTTTTC
111861 ATTTTTTCCT
Statistics
Matches: 45, Mismatches: 9, Indels: 7
0.74 0.15 0.11
Matches are distributed among these distances:
11 10 0.22
13 16 0.36
14 19 0.42
ACGTcount: A:0.08, C:0.13, G:0.03, T:0.76
Consensus pattern (13 bp):
TTTTTCTTTATTT
Found at i:112058 original size:2 final size:2
Alignment explanation
Indices: 112051--112106 Score: 112
Period size: 2 Copynumber: 28.0 Consensus size: 2
112041 ACAACAAGGG
112051 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
112093 AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT
112107 GGATAAATGA
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 54 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:113087 original size:6 final size:6
Alignment explanation
Indices: 113071--113144 Score: 60
Period size: 6 Copynumber: 11.5 Consensus size: 6
113061 AAATGTTTAA
* *
113071 AAATG- AAATGC AAATGC AAAATGC AAAGATGT AAATGC ATATGC AAAATGC
1 AAATGC AAATGC AAATGC -AAATGC -AA-ATGC AAATGC AAATGC -AAATGC
*
113122 AAAGATGC AAATGC AGATGC AAA
1 -AA-ATGC AAATGC AAATGC AAA
113145 AATGTTGATC
Statistics
Matches: 58, Mismatches: 6, Indels: 9
0.79 0.08 0.12
Matches are distributed among these distances:
5 5 0.09
6 25 0.43
7 21 0.36
8 7 0.12
ACGTcount: A:0.51, C:0.12, G:0.19, T:0.18
Consensus pattern (6 bp):
AAATGC
Found at i:113108 original size:27 final size:27
Alignment explanation
Indices: 113076--113145 Score: 113
Period size: 27 Copynumber: 2.6 Consensus size: 27
113066 TTTAAAAATG
*
113076 AAATGCAAATGCAAAATGCAAAGATGT
1 AAATGCAAATGCAAAATGCAAAGATGC
*
113103 AAATGCATATGCAAAATGCAAAGATGC
1 AAATGCAAATGCAAAATGCAAAGATGC
*
113130 AAATGCAGATGCAAAA
1 AAATGCAAATGCAAAA
113146 ATGTTGATCC
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 40 1.00
ACGTcount: A:0.51, C:0.13, G:0.19, T:0.17
Consensus pattern (27 bp):
AAATGCAAATGCAAAATGCAAAGATGC
Found at i:113129 original size:21 final size:20
Alignment explanation
Indices: 113078--113144 Score: 68
Period size: 21 Copynumber: 3.4 Consensus size: 20
113068 TAAAAATGAA
113078 ATGCAAATGCAAAATGCAAAG
1 ATGCAAATGC-AAATGCAAAG
* *
113099 ATGTAAATGCATATGCAAA-
1 ATGCAAATGCAAATGCAAAG
113118 ATGCAAAGATGCAAATGC--AG
1 ATGC-AA-ATGCAAATGCAAAG
113138 ATGCAAA
1 ATGCAAA
113145 AATGTTGATC
Statistics
Matches: 39, Mismatches: 4, Indels: 9
0.75 0.08 0.17
Matches are distributed among these distances:
18 1 0.03
19 6 0.15
20 14 0.36
21 18 0.46
ACGTcount: A:0.49, C:0.13, G:0.19, T:0.18
Consensus pattern (20 bp):
ATGCAAATGCAAATGCAAAG
Found at i:113148 original size:14 final size:13
Alignment explanation
Indices: 113076--113145 Score: 63
Period size: 13 Copynumber: 5.2 Consensus size: 13
113066 TTTAAAAATG
*
113076 AAATGCAAATGCA
1 AAATGCAGATGCA
*
113089 AAATGCAAAGATG-T
1 AAATGC--AGATGCA
*
113103 AAATGCATATGCA
1 AAATGCAGATGCA
113116 AAATGCAAAGATGC-
1 AAATGC--AGATGCA
113130 AAATGCAGATGCA
1 AAATGCAGATGCA
113143 AAA
1 AAA
113146 ATGTTGATCC
Statistics
Matches: 46, Mismatches: 5, Indels: 12
0.73 0.08 0.19
Matches are distributed among these distances:
12 10 0.22
13 15 0.33
14 12 0.26
15 9 0.20
ACGTcount: A:0.51, C:0.13, G:0.19, T:0.17
Consensus pattern (13 bp):
AAATGCAGATGCA
Found at i:115284 original size:17 final size:19
Alignment explanation
Indices: 115262--115300 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 19
115252 AACGTCTTTT
115262 AAAAAT-AATTTTAAGA-A
1 AAAAATCAATTTTAAGACA
*
115279 AAAAATCATTTTTAAGACA
1 AAAAATCAATTTTAAGACA
115298 AAA
1 AAA
115301 GTTGGTCTGC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 6 0.32
18 9 0.47
19 4 0.21
ACGTcount: A:0.62, C:0.05, G:0.05, T:0.28
Consensus pattern (19 bp):
AAAAATCAATTTTAAGACA
Found at i:117316 original size:3 final size:3
Alignment explanation
Indices: 117310--117370 Score: 65
Period size: 3 Copynumber: 20.7 Consensus size: 3
117300 AAATTATTAT
* *
117310 TAA TAA TAA TAC TAA TAA TAT TAA TAA TAA TAA -ATA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA-A TAA TAA TAA
117355 -ATA TAA TAA T-A TAA TA
1 TA-A TAA TAA TAA TAA TA
117371 TTTTTAAGCC
Statistics
Matches: 49, Mismatches: 4, Indels: 10
0.78 0.06 0.16
Matches are distributed among these distances:
2 4 0.08
3 43 0.88
4 2 0.04
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:117327 original size:12 final size:11
Alignment explanation
Indices: 117310--117370 Score: 72
Period size: 12 Copynumber: 5.5 Consensus size: 11
117300 AAATTATTAT
117310 TAATAATAATA
1 TAATAATAATA
*
117321 CTAATAATATTAA
1 -TAATAATAAT-A
117334 TAATAATAAATA
1 TAATAAT-AATA
117346 TAATAATAA-A
1 TAATAATAATA
117356 T-ATAATAATA
1 TAATAATAATA
117366 TAATA
1 TAATA
117371 TTTTTAAGCC
Statistics
Matches: 43, Mismatches: 2, Indels: 9
0.80 0.04 0.17
Matches are distributed among these distances:
9 7 0.16
10 4 0.09
11 5 0.12
12 24 0.56
13 3 0.07
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (11 bp):
TAATAATAATA
Found at i:117337 original size:24 final size:23
Alignment explanation
Indices: 117304--117370 Score: 86
Period size: 24 Copynumber: 3.0 Consensus size: 23
117294 TAACCAAAAT
*
117304 TATTATTAATAATAATACTAATAA
1 TATTAATAATAATAATA-TAATAA
117328 TATTAATAATAATAAATATAATAA
1 TATTAATAATAAT-AATATAATAA
117352 TA--AAT-ATAATAATATAATA
1 TATTAATAATAATAATATAATA
117371 TTTTTAAGCC
Statistics
Matches: 41, Mismatches: 1, Indels: 6
0.85 0.02 0.12
Matches are distributed among these distances:
20 9 0.22
21 5 0.12
22 3 0.07
24 20 0.49
25 4 0.10
ACGTcount: A:0.60, C:0.01, G:0.00, T:0.39
Consensus pattern (23 bp):
TATTAATAATAATAATATAATAA
Found at i:118040 original size:18 final size:20
Alignment explanation
Indices: 118013--118052 Score: 66
Period size: 19 Copynumber: 2.1 Consensus size: 20
118003 TCCAGTTAAT
118013 GTTTACTTTCCAAAC-AAAA
1 GTTTACTTTCCAAACTAAAA
118032 GTTTA-TTTCCAAACTAAAA
1 GTTTACTTTCCAAACTAAAA
118051 GT
1 GT
118053 AGTGTTACCG
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
18 9 0.45
19 11 0.55
ACGTcount: A:0.40, C:0.17, G:0.07, T:0.35
Consensus pattern (20 bp):
GTTTACTTTCCAAACTAAAA
Found at i:119440 original size:42 final size:44
Alignment explanation
Indices: 119387--119480 Score: 138
Period size: 45 Copynumber: 2.2 Consensus size: 44
119377 AAACAACAAA
* *
119387 AAAATATCAAAAGAGTG-T-AAACAAATTCAAAGTCTAAACTTC
1 AAAATAACAAAAGAGTGATGAAACAAATTCAAAGTCTAAACTCC
*
119429 AAAATAACAAAAGAGTGTATGAAATAAATTCAAAGTCTAAACTCC
1 AAAATAACAAAAGAGTG-ATGAAACAAATTCAAAGTCTAAACTCC
119474 AAAATAA
1 AAAATAA
119481 AAATTCACAA
Statistics
Matches: 46, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
42 16 0.35
44 1 0.02
45 29 0.63
ACGTcount: A:0.55, C:0.13, G:0.10, T:0.22
Consensus pattern (44 bp):
AAAATAACAAAAGAGTGATGAAACAAATTCAAAGTCTAAACTCC
Found at i:122712 original size:31 final size:31
Alignment explanation
Indices: 122677--122735 Score: 84
Period size: 31 Copynumber: 1.9 Consensus size: 31
122667 AAATGATTCC
122677 CGATTATAGGGTGTTATTTT-TATGAATCCAT
1 CGATTATAGGGTGTTATTTTGT-TGAATCCAT
* *
122708 CGATTATAGGTTGTTGTTTTGTTGAATC
1 CGATTATAGGGTGTTATTTTGTTGAATC
122736 TTCTGACTAC
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
31 24 0.96
32 1 0.04
ACGTcount: A:0.22, C:0.08, G:0.22, T:0.47
Consensus pattern (31 bp):
CGATTATAGGGTGTTATTTTGTTGAATCCAT
Found at i:122951 original size:28 final size:28
Alignment explanation
Indices: 122898--122953 Score: 76
Period size: 28 Copynumber: 2.0 Consensus size: 28
122888 CGTCGTTGCG
* *
122898 TTCAAACACTGGCTCGACGACGTAATGT
1 TTCAAACACTAGCTCGACGACATAATGT
**
122926 TTCAAACACTAGCTCGACTTCATAATGT
1 TTCAAACACTAGCTCGACGACATAATGT
122954 AAATAAAGAG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.30, C:0.25, G:0.16, T:0.29
Consensus pattern (28 bp):
TTCAAACACTAGCTCGACGACATAATGT
Found at i:127292 original size:6 final size:6
Alignment explanation
Indices: 127276--127317 Score: 50
Period size: 6 Copynumber: 7.0 Consensus size: 6
127266 TAGATTTAAT
* *
127276 TTTTATA TTTTTA TTTTTA -TTTTA TTTTTG TATTTA TTTTTA
1 TTTT-TA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA
127318 ATTTAATTTG
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
5 5 0.17
6 21 0.70
7 4 0.13
ACGTcount: A:0.19, C:0.00, G:0.02, T:0.79
Consensus pattern (6 bp):
TTTTTA
Found at i:127300 original size:11 final size:11
Alignment explanation
Indices: 127284--127322 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
127274 ATTTTTATAT
127284 TTTTATTTTTA
1 TTTTATTTTTA
*
127295 TTTTATTTTTG
1 TTTTATTTTTA
127306 TATTTATTTTTA
1 T-TTTATTTTTA
*
127318 ATTTA
1 TTTTA
127323 ATTTGATAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
11 15 0.62
12 9 0.38
ACGTcount: A:0.21, C:0.00, G:0.03, T:0.77
Consensus pattern (11 bp):
TTTTATTTTTA
Found at i:127321 original size:19 final size:19
Alignment explanation
Indices: 127269--127321 Score: 56
Period size: 17 Copynumber: 2.8 Consensus size: 19
127259 AAAATGATAG
127269 ATTTAATTTTTATATTTTTAT
1 ATTT-ATTTTTA-ATTTTTAT
* *
127290 TTTTA-TTTT-ATTTTTGT
1 ATTTATTTTTAATTTTTAT
127307 ATTTATTTTTAATTT
1 ATTTATTTTTAATTT
127322 AATTTGATAA
Statistics
Matches: 27, Mismatches: 3, Indels: 6
0.75 0.08 0.17
Matches are distributed among these distances:
17 11 0.41
18 4 0.15
19 8 0.30
20 1 0.04
21 3 0.11
ACGTcount: A:0.23, C:0.00, G:0.02, T:0.75
Consensus pattern (19 bp):
ATTTATTTTTAATTTTTAT
Found at i:128221 original size:34 final size:33
Alignment explanation
Indices: 128169--128233 Score: 103
Period size: 34 Copynumber: 1.9 Consensus size: 33
128159 CTTTTACAAC
*
128169 TCCCTAGTTTTTCACGGGCTAAACTAGAACCTT
1 TCCCTAGTTTTACACGGGCTAAACTAGAACCTT
*
128202 TCCCTAGCTTTTACACGGGCTAAGCTAGAACC
1 TCCCTAG-TTTTACACGGGCTAAACTAGAACC
128234 AAAACCCCTT
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
33 7 0.24
34 22 0.76
ACGTcount: A:0.25, C:0.29, G:0.17, T:0.29
Consensus pattern (33 bp):
TCCCTAGTTTTACACGGGCTAAACTAGAACCTT
Found at i:128724 original size:20 final size:19
Alignment explanation
Indices: 128681--128746 Score: 69
Period size: 20 Copynumber: 3.4 Consensus size: 19
128671 TACCGTTCAT
* * *
128681 TACTGTTTACACAGTATCGG
1 TACTATTTATACAGTA-CGA
128701 TACTATTTATACAGTACCGA
1 TACTATTTATACAGTA-CGA
* *
128721 TACTATTCATACAGTACAA
1 TACTATTTATACAGTACGA
128740 TACTATT
1 TACTATT
128747 CATAAAATAT
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
19 9 0.22
20 31 0.77
ACGTcount: A:0.33, C:0.20, G:0.11, T:0.36
Consensus pattern (19 bp):
TACTATTTATACAGTACGA
Found at i:128744 original size:19 final size:20
Alignment explanation
Indices: 128701--128750 Score: 75
Period size: 20 Copynumber: 2.5 Consensus size: 20
128691 ACAGTATCGG
* *
128701 TACTATTTATACAGTACCGA
1 TACTATTCATACAGTACCAA
128721 TACTATTCATACAGTA-CAA
1 TACTATTCATACAGTACCAA
128740 TACTATTCATA
1 TACTATTCATA
128751 AAATATTTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
19 13 0.46
20 15 0.54
ACGTcount: A:0.38, C:0.20, G:0.06, T:0.36
Consensus pattern (20 bp):
TACTATTCATACAGTACCAA
Found at i:131011 original size:3 final size:3
Alignment explanation
Indices: 131003--131062 Score: 104
Period size: 3 Copynumber: 20.0 Consensus size: 3
130993 AAATTTAAAT
131003 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
131051 -TA TTA TTTA TTA
1 TTA TTA -TTA TTA
131063 ATAATACAAA
Statistics
Matches: 55, Mismatches: 0, Indels: 4
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.04
3 50 0.91
4 3 0.05
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:132273 original size:27 final size:28
Alignment explanation
Indices: 132243--132305 Score: 83
Period size: 27 Copynumber: 2.3 Consensus size: 28
132233 TTACTAGTTT
132243 TTTTTATTTATAGTTTTA-ATTTCATTA
1 TTTTTATTTATAGTTTTATATTTCATTA
* * *
132270 TTTTTAATTATTGTTTTATATTTTATTA
1 TTTTTATTTATAGTTTTATATTTCATTA
*
132298 TTATTATT
1 TTTTTATT
132306 ATTATTATTA
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
27 16 0.53
28 14 0.47
ACGTcount: A:0.25, C:0.02, G:0.03, T:0.70
Consensus pattern (28 bp):
TTTTTATTTATAGTTTTATATTTCATTA
Found at i:132300 original size:3 final size:3
Alignment explanation
Indices: 132266--132322 Score: 66
Period size: 3 Copynumber: 19.7 Consensus size: 3
132256 TTTTAATTTC
* *
132266 ATT ATT TTT AATT ATT GTT -TT A-T ATT -TT ATT ATT ATT ATT ATT
1 ATT ATT ATT -ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
132309 ATT ATT ATT ATT AT
1 ATT ATT ATT ATT AT
132323 GTATAAATAT
Statistics
Matches: 47, Mismatches: 3, Indels: 8
0.81 0.05 0.14
Matches are distributed among these distances:
2 6 0.13
3 39 0.83
4 2 0.04
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.68
Consensus pattern (3 bp):
ATT
Found at i:134608 original size:19 final size:19
Alignment explanation
Indices: 134562--134608 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
134552 AAAATGATAG
134562 ATTTAATTTTTATATTTTT
1 ATTTAATTTTTATATTTTT
* *
134581 ATTTTATTTTTGTATTTATT
1 ATTTAATTTTTATATTT-TT
134601 -TTTAATTT
1 ATTTAATTT
134609 AATTTGATAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
19 22 0.92
20 2 0.08
ACGTcount: A:0.23, C:0.00, G:0.02, T:0.74
Consensus pattern (19 bp):
ATTTAATTTTTATATTTTT
Found at i:134890 original size:37 final size:37
Alignment explanation
Indices: 134834--135205 Score: 346
Period size: 37 Copynumber: 10.3 Consensus size: 37
134824 TGAAAACACG
* *
134834 TATATTATATATAGTTTTTAAAAATATTTTGAAAATG
1 TATATAATATATAGTTTTTAAAAATATTTTGAAAATA
* *
134871 TACATAATATATAGTTTTT-AAAATATTTTTGAAAA-C
1 TATATAATATATAGTTTTTAAAAATA-TTTTGAAAATA
*
134907 TATATAATATATAGTTTTT-AAAACATTTT-AGAAA-A
1 TATATAATATATAGTTTTTAAAAATATTTTGA-AAATA
*
134942 TATAT-ATATATA-TTTTTAAAATTATTTTGAAAAT-
1 TATATAATATATAGTTTTTAAAAATATTTTGAAAATA
* * * *
134976 T-TAT-ATATATAGTTTTGAAAACGT-TTATGAAAACATT
1 TATATAATATATAGTTTTTAAAA-ATATTTTG-AAA-ATA
*
135013 TATATATTATATAGTTTTTAAAAATATTTTGAAAATA
1 TATATAATATATAGTTTTTAAAAATATTTTGAAAATA
* *
135050 TATATAATATATAGTTTTTAAAACAT-TTTTTAAAAAA
1 TATATAATATATAGTTTTTAAAA-ATATTTTGAAAATA
* *
135087 TATATATTATATAGTTTTTAAAACGT-TTTTGAAAATA
1 TATATAATATATAGTTTTTAAAA-ATATTTTGAAAATA
* * * *
135124 TGTATAATATATAGTTTTTAAAAAACATTTTGGAAATT
1 TATATAATATATAGTTTTT-AAAAATATTTTGAAAATA
* * * *
135162 TATATATTACATA-TTTTTGAAAATATTTT---TATA
1 TATATAATATATAGTTTTTAAAAATATTTTGAAAATA
135195 TATATAATATA
1 TATATAATATA
135206 GTATTATTAT
Statistics
Matches: 281, Mismatches: 38, Indels: 36
0.79 0.11 0.10
Matches are distributed among these distances:
33 26 0.09
34 32 0.11
35 17 0.06
36 40 0.14
37 115 0.41
38 32 0.11
39 19 0.07
ACGTcount: A:0.44, C:0.02, G:0.06, T:0.47
Consensus pattern (37 bp):
TATATAATATATAGTTTTTAAAAATATTTTGAAAATA
Found at i:135242 original size:17 final size:17
Alignment explanation
Indices: 135207--135249 Score: 52
Period size: 17 Copynumber: 2.5 Consensus size: 17
135197 TATAATATAG
135207 TATTATTATTATTATTTA
1 TATTATT-TTATTATTTA
*
135225 TTTTATTTTATT-TCTTA
1 TATTATTTTATTAT-TTA
135242 TATTATTT
1 TATTATTT
135250 ATGTTTTTTG
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
16 1 0.05
17 15 0.68
18 6 0.27
ACGTcount: A:0.26, C:0.02, G:0.00, T:0.72
Consensus pattern (17 bp):
TATTATTTTATTATTTA
Found at i:135245 original size:14 final size:15
Alignment explanation
Indices: 135207--135248 Score: 50
Period size: 14 Copynumber: 2.8 Consensus size: 15
135197 TATAATATAG
135207 TATTATTATTATTATT
1 TATTA-TATTATTATT
*
135223 TATTTTATT-TTATT
1 TATTATATTATTATT
*
135237 TCTTATATTATT
1 TATTATATTATT
135249 TATGTTTTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
14 12 0.55
15 6 0.27
16 4 0.18
ACGTcount: A:0.26, C:0.02, G:0.00, T:0.71
Consensus pattern (15 bp):
TATTATATTATTATT
Found at i:137775 original size:18 final size:18
Alignment explanation
Indices: 137752--137786 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
137742 GTGTCCGAAG
137752 CGTGAGATTCGTCTGAAA
1 CGTGAGATTCGTCTGAAA
137770 CGTGAGATTCGTCTGAA
1 CGTGAGATTCGTCTGAA
137787 GCAAGTTGGA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.26, C:0.17, G:0.29, T:0.29
Consensus pattern (18 bp):
CGTGAGATTCGTCTGAAA
Found at i:138734 original size:172 final size:173
Alignment explanation
Indices: 138439--138797 Score: 569
Period size: 172 Copynumber: 2.1 Consensus size: 173
138429 CATCAAATAT
*
138439 AAAATGATCCCTAATTACTATTTGCTTCTCAACATTTTCAAACTTTGCAATTTAATCACTAAATT
1 AAAATGATCCCTAATTACTATTTGCTTCTCAACATTTTCAAACTTAGCAATTTAATCACTAAATT
*
138504 TATAAATTCTTTCAAATTTAACCAATTAAGCATATTAATACTAAATTCAAGCATAGTATACCAAC
66 TATAAATTCTTTCAAATTTAACCAATTAAGCATACTAATACTAAATTCAAGCATAGTATACCAAC
* * *
138569 TTTTTATAATTTACTCTAATTTCTTAAATTCCTCAAATTTTGC
131 TTTTAATAATTTACTCTAATTCCTTAAATTCCTCAAATTTTAC
* * *
138612 AAAACGATCCCTAATTACTATTTGGTTCTCAACATTTTCAAAGTTAGCAATTTAATC-CATAAAT
1 AAAATGATCCCTAATTACTATTTGCTTCTCAACATTTTCAAACTTAGCAATTTAATCAC-TAAAT
* * *
138676 TT-TAAATTCTTTCTAATTTAACCAATTAAGCATACTAATACTAAATTCCAGCATAGTATAGCAA
65 TTATAAATTCTTTCAAATTTAACCAATTAAGCATACTAATACTAAATTCAAGCATAGTATACCAA
* *
138740 CTTTTAATAATTTACTCTTATTCCTTAAATTCCTTAAATTTTAC
130 CTTTTAATAATTTACTCTAATTCCTTAAATTCCTCAAATTTTAC
*
138784 AAAATGGTCCCTAA
1 AAAATGATCCCTAA
138798 AACTTTACAA
Statistics
Matches: 170, Mismatches: 15, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
172 110 0.65
173 60 0.35
ACGTcount: A:0.37, C:0.18, G:0.05, T:0.40
Consensus pattern (173 bp):
AAAATGATCCCTAATTACTATTTGCTTCTCAACATTTTCAAACTTAGCAATTTAATCACTAAATT
TATAAATTCTTTCAAATTTAACCAATTAAGCATACTAATACTAAATTCAAGCATAGTATACCAAC
TTTTAATAATTTACTCTAATTCCTTAAATTCCTCAAATTTTAC
Found at i:139036 original size:30 final size:30
Alignment explanation
Indices: 139002--139062 Score: 122
Period size: 30 Copynumber: 2.0 Consensus size: 30
138992 CTATGCTTTG
139002 TGATCAATCTCCCTCTCAAGCTCTCACTGC
1 TGATCAATCTCCCTCTCAAGCTCTCACTGC
139032 TGATCAATCTCCCTCTCAAGCTCTCACTGC
1 TGATCAATCTCCCTCTCAAGCTCTCACTGC
139062 T
1 T
139063 TCTGTAATTG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.20, C:0.39, G:0.10, T:0.31
Consensus pattern (30 bp):
TGATCAATCTCCCTCTCAAGCTCTCACTGC
Found at i:139260 original size:22 final size:22
Alignment explanation
Indices: 139235--139276 Score: 84
Period size: 22 Copynumber: 1.9 Consensus size: 22
139225 AGTTGCAGCC
139235 CCCCACATGCAGACGTGCAGGA
1 CCCCACATGCAGACGTGCAGGA
139257 CCCCACATGCAGACGTGCAG
1 CCCCACATGCAGACGTGCAG
139277 CCTTGCAGGA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.26, C:0.38, G:0.26, T:0.10
Consensus pattern (22 bp):
CCCCACATGCAGACGTGCAGGA
Found at i:139321 original size:22 final size:22
Alignment explanation
Indices: 139293--139346 Score: 90
Period size: 22 Copynumber: 2.5 Consensus size: 22
139283 AGGACCCAGG
139293 ACCCGTGATTTCTCCTTGCAGA
1 ACCCGTGATTTCTCCTTGCAGA
* *
139315 ACCCGTGCTCTCTCCTTGCAGA
1 ACCCGTGATTTCTCCTTGCAGA
139337 ACCCGTGATT
1 ACCCGTGATT
139347 CTCACGTCCA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.17, C:0.35, G:0.19, T:0.30
Consensus pattern (22 bp):
ACCCGTGATTTCTCCTTGCAGA
Done.