Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01006449.1 Hibiscus syriacus cultivar Beakdansim tig00015622_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: 60754
ACGTcount: A:0.33, C:0.18, G:0.16, T:0.32
Found at i:5181 original size:40 final size:40
Alignment explanation
Indices: 5137--5329 Score: 207
Period size: 40 Copynumber: 4.8 Consensus size: 40
5127 ACGCGAACTC
* **
5137 CAAATTCGCAACGCGAATCTGT-AAA-TCGCAACACATGAGT
1 CAAATTCGCAACGCG-AT-AGTCAAATTCGCAACACAAAAGT
* * *
5177 CAAATTCGTAACGCGATAGTCAAATTCACAACAAAAAAGT
1 CAAATTCGCAACGCGATAGTCAAATTCGCAACACAAAAGT
* *
5217 CAAATTCGCAACGCGAATTTGT-AAA-TCGCAACACATAAGT
1 CAAATTCGCAACGCG-A-TAGTCAAATTCGCAACACAAAAGT
5257 CAAATTCGCAACGCGATAGTCAAATTCGCAACACAAAAGT
1 CAAATTCGCAACGCGATAGTCAAATTCGCAACACAAAAGT
* *
5297 CAAATTCGCAATGCGGA-ATTTCAAATTCGCAAC
1 CAAATTCGCAACGC-GATA-GTCAAATTCGCAAC
5330 TGAATTTCAA
Statistics
Matches: 130, Mismatches: 15, Indels: 15
0.81 0.09 0.09
Matches are distributed among these distances:
38 5 0.04
39 9 0.07
40 94 0.72
41 19 0.15
42 3 0.02
ACGTcount: A:0.41, C:0.23, G:0.15, T:0.21
Consensus pattern (40 bp):
CAAATTCGCAACGCGATAGTCAAATTCGCAACACAAAAGT
Found at i:5199 original size:20 final size:20
Alignment explanation
Indices: 5117--5307 Score: 135
Period size: 20 Copynumber: 9.6 Consensus size: 20
5107 AAATGACCAA
* *
5117 CAAATTCGCAACGCGA-ACT
1 CAAATTCGCAACACGATAGT
* *
5136 CCAAATTCGCAACGCGAATCTGT
1 -CAAATTCGCAACACG-AT-AGT
5159 -AAA-TCGCAACAC-ATGAGT
1 CAAATTCGCAACACGAT-AGT
* *
5177 CAAATTCGTAACGCGATAGT
1 CAAATTCGCAACACGATAGT
* ** *
5197 CAAATTCACAACAAAAAAGT
1 CAAATTCGCAACACGATAGT
* *
5217 CAAATTCGCAACGCGAATTTGT
1 CAAATTCGCAACACG-A-TAGT
5239 -AAA-TCGCAACAC-ATAAGT
1 CAAATTCGCAACACGAT-AGT
*
5257 CAAATTCGCAACGCGATAGT
1 CAAATTCGCAACACGATAGT
* *
5277 CAAATTCGCAACACAAAAGT
1 CAAATTCGCAACACGATAGT
5297 CAAATTCGCAA
1 CAAATTCGCAA
5308 TGCGGAATTT
Statistics
Matches: 134, Mismatches: 25, Indels: 24
0.73 0.14 0.13
Matches are distributed among these distances:
17 1 0.01
18 7 0.05
19 6 0.04
20 105 0.78
21 12 0.09
22 2 0.01
23 1 0.01
ACGTcount: A:0.41, C:0.25, G:0.15, T:0.19
Consensus pattern (20 bp):
CAAATTCGCAACACGATAGT
Found at i:5250 original size:80 final size:80
Alignment explanation
Indices: 5137--5317 Score: 299
Period size: 80 Copynumber: 2.2 Consensus size: 80
5127 ACGCGAACTC
* * *
5137 CAAATTCGCAACGCGAATCTGTAAATCGCAACACATGAGTCAAATTCGTAACGCGATAGTCAAAT
1 CAAATTCGCAACGCGAATTTGTAAATCGCAACACATAAGTCAAATTCGCAACGCGATAGTCAAAT
5202 TCACAACAAAAAAGT
66 TCACAACAAAAAAGT
5217 CAAATTCGCAACGCGAATTTGTAAATCGCAACACATAAGTCAAATTCGCAACGCGATAGTCAAAT
1 CAAATTCGCAACGCGAATTTGTAAATCGCAACACATAAGTCAAATTCGCAACGCGATAGTCAAAT
* *
5282 TCGCAACACAAAAGT
66 TCACAACAAAAAAGT
*
5297 CAAATTCGCAATGCGGAATTT
1 CAAATTCGCAACGC-GAATTT
5318 CAAATTCGCA
Statistics
Matches: 94, Mismatches: 6, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
80 88 0.94
81 6 0.06
ACGTcount: A:0.41, C:0.23, G:0.15, T:0.21
Consensus pattern (80 bp):
CAAATTCGCAACGCGAATTTGTAAATCGCAACACATAAGTCAAATTCGCAACGCGATAGTCAAAT
TCACAACAAAAAAGT
Found at i:5362 original size:20 final size:19
Alignment explanation
Indices: 5296--5387 Score: 96
Period size: 19 Copynumber: 4.7 Consensus size: 19
5286 AACACAAAAG
*
5296 TCAAATTCGCAATGCGGAATT
1 TCAAATTCGCAA--CTGAATT
5317 TCAAATTCGCAACTGAATT
1 TCAAATTCGCAACTGAATT
*
5336 TCAAATTCGCAACTAGATTT
1 TCAAATTCGCAACT-GAATT
* *
5356 TCGAATTCGCAACACGAATT
1 TCAAATTCGCAAC-TGAATT
*
5376 T-AATTTCGCAAC
1 TCAAATTCGCAAC
5388 AGGTTTTAGT
Statistics
Matches: 62, Mismatches: 7, Indels: 6
0.83 0.09 0.08
Matches are distributed among these distances:
19 29 0.47
20 21 0.34
21 12 0.19
ACGTcount: A:0.35, C:0.22, G:0.13, T:0.30
Consensus pattern (19 bp):
TCAAATTCGCAACTGAATT
Found at i:5363 original size:80 final size:80
Alignment explanation
Indices: 5137--5370 Score: 274
Period size: 80 Copynumber: 2.9 Consensus size: 80
5127 ACGCGAACTC
* * * * *
5137 CAAATTCGCAACGCGAATCTGTAAATCGCAACACATGAGTCAAATTCGTAACGCGATAGTCAAAT
1 CAAATTCGCAACGCGAATTTGCAAATCGCAACACATAAGTCAAATTCGCAACGAGATAGTCAAAT
* *
5202 TCACAACAAAAAAGT
66 TCGCAACACAAAAGT
* *
5217 CAAATTCGCAACGCGAATTTGTAAATCGCAACACATAAGTCAAATTCGCAACGCGATAGTCAAAT
1 CAAATTCGCAACGCGAATTTGCAAATCGCAACACATAAGTCAAATTCGCAACGAGATAGTCAAAT
5282 TCGCAACACAAAAGT
66 TCGCAACACAAAAGT
* ** ** * ** *
5297 CAAATTCGCAATGCGGAATTT-CAAATTCGCAACTGA-ATTTCAAATTCGCAACTAGATTTTCGA
1 CAAATTCGCAACGC-GAATTTGCAAA-TCGCAACACATAAGTCAAATTCGCAACGAGATAGTCAA
5360 ATTCGCAACAC
64 ATTCGCAACAC
5371 GAATTTAATT
Statistics
Matches: 136, Mismatches: 16, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
80 122 0.90
81 14 0.10
ACGTcount: A:0.40, C:0.23, G:0.15, T:0.23
Consensus pattern (80 bp):
CAAATTCGCAACGCGAATTTGCAAATCGCAACACATAAGTCAAATTCGCAACGAGATAGTCAAAT
TCGCAACACAAAAGT
Found at i:5375 original size:40 final size:40
Alignment explanation
Indices: 5256--5387 Score: 117
Period size: 40 Copynumber: 3.3 Consensus size: 40
5246 AACACATAAG
** ** * **
5256 TCAAATTCGCAACGCGATAGTCAAATTCGCAACACAAAAG
1 TCAAATTCGCAACTAGATTTTCAAATTCGCAACACGAATT
* * *
5296 TCAAATTCGCAA-TGCGGAATTTCAAATTCGCAAC-TGAATT
1 TCAAATTCGCAACT--AGATTTTCAAATTCGCAACACGAATT
*
5336 TCAAATTCGCAACTAGATTTTCGAATTCGCAACACGAATT
1 TCAAATTCGCAACTAGATTTTCAAATTCGCAACACGAATT
*
5376 T-AATTTCGCAAC
1 TCAAATTCGCAAC
5388 AGGTTTTAGT
Statistics
Matches: 74, Mismatches: 14, Indels: 9
0.76 0.14 0.09
Matches are distributed among these distances:
39 26 0.35
40 32 0.43
41 16 0.22
ACGTcount: A:0.37, C:0.23, G:0.14, T:0.27
Consensus pattern (40 bp):
TCAAATTCGCAACTAGATTTTCAAATTCGCAACACGAATT
Found at i:5388 original size:19 final size:18
Alignment explanation
Indices: 5312--5406 Score: 66
Period size: 19 Copynumber: 5.0 Consensus size: 18
5302 TCGCAATGCG
* *
5312 GAATTTCAAATTCGCAACT
1 GAATTT-AATTTCGCAACA
*
5331 GAATTTCAAATTCGCAACTA
1 GAATTT-AATTTCGCAAC-A
*
5351 GATTTTCGAA-TTCGCAACA
1 GAATTT--AATTTCGCAACA
5370 CGAATTTAATTTCGCAACA
1 -GAATTTAATTTCGCAACA
** *
5389 GGTTTTAGTTTCGCAACA
1 GAATTTAATTTCGCAACA
5407 TATGTTTTGG
Statistics
Matches: 65, Mismatches: 7, Indels: 9
0.80 0.09 0.11
Matches are distributed among these distances:
18 17 0.26
19 28 0.43
20 18 0.28
21 2 0.03
ACGTcount: A:0.34, C:0.20, G:0.14, T:0.33
Consensus pattern (18 bp):
GAATTTAATTTCGCAACA
Found at i:5563 original size:16 final size:16
Alignment explanation
Indices: 5542--5581 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 16
5532 TCCCCATCTC
*
5542 TAATTTTTTTTTTACA
1 TAATTTTTTTTCTACA
* *
5558 TAATTTTATTTCTATA
1 TAATTTTTTTTCTACA
5574 TAATTTTT
1 TAATTTTT
5582 CAATGATTTC
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.28, C:0.05, G:0.00, T:0.68
Consensus pattern (16 bp):
TAATTTTTTTTCTACA
Found at i:6360 original size:24 final size:24
Alignment explanation
Indices: 6333--6386 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
6323 GTATTCGAAA
6333 TTTGATCTTAGTCAATACCCGGAC
1 TTTGATCTTAGTCAATACCCGGAC
* * *
6357 TTTGATCTTGGTCAATACTCGGAT
1 TTTGATCTTAGTCAATACCCGGAC
6381 TTTGAT
1 TTTGAT
6387 GATGTGATGG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.22, C:0.19, G:0.19, T:0.41
Consensus pattern (24 bp):
TTTGATCTTAGTCAATACCCGGAC
Found at i:8675 original size:18 final size:18
Alignment explanation
Indices: 8649--8684 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
8639 AAGCAAAAGG
*
8649 AAATCAAAATCGCAATCA
1 AAATCAAAATCCCAATCA
*
8667 AAATTAAAATCCCAATCA
1 AAATCAAAATCCCAATCA
8685 CAACCGGCTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.56, C:0.22, G:0.03, T:0.19
Consensus pattern (18 bp):
AAATCAAAATCCCAATCA
Found at i:9030 original size:20 final size:20
Alignment explanation
Indices: 9006--9052 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
8996 GAAATCGAAA
9006 ATCGCAACGCGAATTTGACT
1 ATCGCAACGCGAATTTGACT
* ***
9026 TTCGCGTTGCGAATTTGACT
1 ATCGCAACGCGAATTTGACT
9046 ATCGCAA
1 ATCGCAA
9053 TGCTTATTTC
Statistics
Matches: 20, Mismatches: 7, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.26, C:0.23, G:0.21, T:0.30
Consensus pattern (20 bp):
ATCGCAACGCGAATTTGACT
Found at i:9094 original size:20 final size:21
Alignment explanation
Indices: 9063--9122 Score: 63
Period size: 20 Copynumber: 2.9 Consensus size: 21
9053 TGCTTATTTC
*
9063 GCGTTGTG-AATTTACCTTTA
1 GCGTTGCGAAATTTACCTTTA
*
9083 GCGTTGC-AAATTTGA-CTTTT
1 GCGTTGCGAAATTT-ACCTTTA
9103 GCGTTGCGAAAGTTTACCTT
1 GCGTTGCGAAA-TTTACCTT
9123 CAACAGGTCT
Statistics
Matches: 33, Mismatches: 2, Indels: 8
0.77 0.05 0.19
Matches are distributed among these distances:
20 22 0.67
21 5 0.15
22 6 0.18
ACGTcount: A:0.20, C:0.17, G:0.22, T:0.42
Consensus pattern (21 bp):
GCGTTGCGAAATTTACCTTTA
Found at i:9614 original size:18 final size:18
Alignment explanation
Indices: 9593--9629 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
9583 GTAATTGGAG
9593 TTTGAATTTAAATTTCAA
1 TTTGAATTTAAATTTCAA
* *
9611 TTTGAGTTTGAATTTCAA
1 TTTGAATTTAAATTTCAA
9629 T
1 T
9630 ATAAATTTCG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.32, C:0.05, G:0.11, T:0.51
Consensus pattern (18 bp):
TTTGAATTTAAATTTCAA
Found at i:9636 original size:24 final size:24
Alignment explanation
Indices: 9585--9637 Score: 70
Period size: 24 Copynumber: 2.2 Consensus size: 24
9575 TTTCATATGT
* * *
9585 AATTGGAGTTTGAATTTAAATTTC
1 AATTTGAGTTTGAATTTAAATATA
*
9609 AATTTGAGTTTGAATTTCAATATA
1 AATTTGAGTTTGAATTTAAATATA
9633 AATTT
1 AATTT
9638 CGGCTCCACT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.36, C:0.04, G:0.13, T:0.47
Consensus pattern (24 bp):
AATTTGAGTTTGAATTTAAATATA
Found at i:11122 original size:66 final size:64
Alignment explanation
Indices: 11043--11186 Score: 234
Period size: 66 Copynumber: 2.2 Consensus size: 64
11033 GATTTAAAAC
* *
11043 AACAAATCAACTTTTACAAATCAATTAGACAAGCAAAAAAATATTTCTTATTTACACATCAAATT
1 AACAAATCAACTTTTACAAATCAATTAAACAAGC-AAAAAATAATTCTTATTTACACATC-AATT
11108 A
64 A
* *
11109 AACAAATCAACTTTTACAAATCAATTAAACAAGCAAAAAATAATTCTTATTTCCTCATCAATTA
1 AACAAATCAACTTTTACAAATCAATTAAACAAGCAAAAAATAATTCTTATTTACACATCAATTA
11173 AACAAATCAACTTT
1 AACAAATCAACTTT
11187 CAATGTAAAA
Statistics
Matches: 74, Mismatches: 4, Indels: 2
0.93 0.05 0.03
Matches are distributed among these distances:
64 19 0.26
65 22 0.30
66 33 0.45
ACGTcount: A:0.49, C:0.18, G:0.02, T:0.31
Consensus pattern (64 bp):
AACAAATCAACTTTTACAAATCAATTAAACAAGCAAAAAATAATTCTTATTTACACATCAATTA
Found at i:12587 original size:21 final size:21
Alignment explanation
Indices: 12563--12619 Score: 60
Period size: 21 Copynumber: 2.7 Consensus size: 21
12553 ACGGGCGAGA
*
12563 CCTCTTGAACGATGACAGGGG
1 CCTCTTGAACGATGACAGGCG
* * **
12584 CCTCTTAAACGGTGGGAGGCG
1 CCTCTTGAACGATGACAGGCG
*
12605 CCTCTTGAATGATGA
1 CCTCTTGAACGATGA
12620 TAGGTGCATC
Statistics
Matches: 27, Mismatches: 9, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.23, C:0.23, G:0.32, T:0.23
Consensus pattern (21 bp):
CCTCTTGAACGATGACAGGCG
Found at i:13363 original size:15 final size:15
Alignment explanation
Indices: 13343--13372 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
13333 CACCAATCAG
13343 TGGCAAGATCAACCT
1 TGGCAAGATCAACCT
*
13358 TGGCAAGCTCAACCT
1 TGGCAAGATCAACCT
13373 CTGTGGGTGT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.30, C:0.30, G:0.20, T:0.20
Consensus pattern (15 bp):
TGGCAAGATCAACCT
Found at i:14825 original size:20 final size:20
Alignment explanation
Indices: 14802--14878 Score: 96
Period size: 20 Copynumber: 4.2 Consensus size: 20
14792 AAACTTAAAT
14802 TCGCAACGCGAAAATGAAAA
1 TCGCAACGCGAAAATGAAAA
14822 TCGCAA--CG---A-GAAAA
1 TCGCAACGCGAAAATGAAAA
14836 TCGCAACGCGAAAATGAAAA
1 TCGCAACGCGAAAATGAAAA
*
14856 TCGCAACGCGAAACT-AAAA
1 TCGCAACGCGAAAATGAAAA
14875 TCGC
1 TCGC
14879 GTTGCGATTT
Statistics
Matches: 50, Mismatches: 1, Indels: 13
0.78 0.02 0.20
Matches are distributed among these distances:
14 11 0.22
15 1 0.02
16 2 0.04
18 2 0.04
19 9 0.18
20 25 0.50
ACGTcount: A:0.47, C:0.23, G:0.19, T:0.10
Consensus pattern (20 bp):
TCGCAACGCGAAAATGAAAA
Found at i:14845 original size:34 final size:34
Alignment explanation
Indices: 14802--14868 Score: 125
Period size: 34 Copynumber: 2.0 Consensus size: 34
14792 AAACTTAAAT
14802 TCGCAACGCGAAAATGAAAATCGCAACGAGAAAA
1 TCGCAACGCGAAAATGAAAATCGCAACGAGAAAA
*
14836 TCGCAACGCGAAAATGAAAATCGCAACGCGAAA
1 TCGCAACGCGAAAATGAAAATCGCAACGAGAAA
14869 CTAAAATCGC
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 32 1.00
ACGTcount: A:0.48, C:0.22, G:0.21, T:0.09
Consensus pattern (34 bp):
TCGCAACGCGAAAATGAAAATCGCAACGAGAAAA
Found at i:14868 original size:14 final size:14
Alignment explanation
Indices: 14817--14850 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
14807 ACGCGAAAAT
14817 GAAAATCGCAACGA
1 GAAAATCGCAACGA
*
14831 GAAAATCGCAACGC
1 GAAAATCGCAACGA
14845 GAAAAT
1 GAAAAT
14851 GAAAATCGCA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.50, C:0.21, G:0.21, T:0.09
Consensus pattern (14 bp):
GAAAATCGCAACGA
Found at i:14930 original size:20 final size:20
Alignment explanation
Indices: 14891--14930 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
14881 TGCGATTTTG
* * *
14891 GTGTTGCGATTTTCATTTTC
1 GTGTTGCGAATTTAAGTTTC
14911 GTGTTGCGAATTTAAGTTTC
1 GTGTTGCGAATTTAAGTTTC
14931 AAAAACTATT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.15, C:0.12, G:0.23, T:0.50
Consensus pattern (20 bp):
GTGTTGCGAATTTAAGTTTC
Found at i:15124 original size:17 final size:17
Alignment explanation
Indices: 15102--15137 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
15092 AATCTTTATA
15102 TATATTGAAATTACCAG
1 TATATTGAAATTACCAG
15119 TATATTGAAATTACCAG
1 TATATTGAAATTACCAG
15136 TA
1 TA
15138 AATTTATCAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.42, C:0.11, G:0.11, T:0.36
Consensus pattern (17 bp):
TATATTGAAATTACCAG
Found at i:15444 original size:20 final size:20
Alignment explanation
Indices: 15419--15540 Score: 83
Period size: 20 Copynumber: 6.1 Consensus size: 20
15409 ATTAATAGTG
*
15419 TTTCGCGTTGTGAATTTGAC
1 TTTCGCGTTGCGAATTTGAC
*
15439 TTTCGCGTTGCGAATTTGAT
1 TTTCGCGTTGCGAATTTGAC
* *
15459 TTTTGTGTTGCGAATTTTG-C
1 TTTCGCGTTGCGAA-TTTGAC
** **
15479 CATCGAATTGCGAATTTGAC
1 TTTCGCGTTGCGAATTTGAC
*
15499 TTAT-GTGTTGCG-ATTT-AC
1 TT-TCGCGTTGCGAATTTGAC
15517 AAATTT-GCGTTGCGAATTTGAC
1 ---TTTCGCGTTGCGAATTTGAC
15539 TT
1 TT
15541 CTAAGTTGTG
Statistics
Matches: 79, Mismatches: 15, Indels: 17
0.71 0.14 0.15
Matches are distributed among these distances:
18 2 0.03
19 10 0.13
20 54 0.68
21 11 0.14
22 2 0.03
ACGTcount: A:0.19, C:0.14, G:0.23, T:0.44
Consensus pattern (20 bp):
TTTCGCGTTGCGAATTTGAC
Found at i:15530 original size:40 final size:40
Alignment explanation
Indices: 15486--15571 Score: 127
Period size: 40 Copynumber: 2.1 Consensus size: 40
15476 TGCCATCGAA
** *
15486 TTGCGAATTTGACTTATGTGTTGCGATTTACAAATTTGCG
1 TTGCGAATTTGACTTATAAGTTGCGATTTACAAATTCGCG
* *
15526 TTGCGAATTTGACTTCTAAGTTGTGATTTACAAATTCGCG
1 TTGCGAATTTGACTTATAAGTTGCGATTTACAAATTCGCG
15566 TTGCGA
1 TTGCGA
15572 TTTACAGATT
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 41 1.00
ACGTcount: A:0.23, C:0.14, G:0.22, T:0.41
Consensus pattern (40 bp):
TTGCGAATTTGACTTATAAGTTGCGATTTACAAATTCGCG
Found at i:15573 original size:20 final size:20
Alignment explanation
Indices: 15505--15591 Score: 81
Period size: 20 Copynumber: 4.3 Consensus size: 20
15495 TGACTTATGT
*
15505 GTTGCGATTTACAAATTTGC
1 GTTGCGATTTACAAATTCGC
**
15525 GTTGCGAATTTGAC---TTCTAA
1 GTTGCG-ATTT-ACAAATTC-GC
*
15545 GTTGTGATTTACAAATTCGC
1 GTTGCGATTTACAAATTCGC
*
15565 GTTGCGATTTACAGATTCGC
1 GTTGCGATTTACAAATTCGC
15585 GTTGCGA
1 GTTGCGA
15592 ATTTGGAAAC
Statistics
Matches: 53, Mismatches: 8, Indels: 12
0.73 0.11 0.16
Matches are distributed among these distances:
18 2 0.04
19 6 0.11
20 36 0.68
21 7 0.13
22 2 0.04
ACGTcount: A:0.23, C:0.16, G:0.23, T:0.38
Consensus pattern (20 bp):
GTTGCGATTTACAAATTCGC
Found at i:17088 original size:20 final size:20
Alignment explanation
Indices: 17065--17121 Score: 96
Period size: 20 Copynumber: 2.9 Consensus size: 20
17055 CTAATTGAGA
*
17065 TATAGATACCCTACCTATGG
1 TATAGATACCCTGCCTATGG
17085 TATAGATACCCTGCCTATGG
1 TATAGATACCCTGCCTATGG
*
17105 TATAGACACCCTGCCTA
1 TATAGATACCCTGCCTA
17122 CATTATGGAA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 35 1.00
ACGTcount: A:0.28, C:0.28, G:0.16, T:0.28
Consensus pattern (20 bp):
TATAGATACCCTGCCTATGG
Found at i:20219 original size:23 final size:23
Alignment explanation
Indices: 20193--20237 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
20183 CACCACAGCT
*
20193 CGTATAATTGCACCGAAGTGCCG
1 CGTAGAATTGCACCGAAGTGCCG
*
20216 CGTAGAATTGCACCGTAGTGCC
1 CGTAGAATTGCACCGAAGTGCC
20238 ATATAAAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.24, C:0.27, G:0.27, T:0.22
Consensus pattern (23 bp):
CGTAGAATTGCACCGAAGTGCCG
Found at i:20455 original size:149 final size:149
Alignment explanation
Indices: 20213--20519 Score: 551
Period size: 149 Copynumber: 2.1 Consensus size: 149
20203 CACCGAAGTG
20213 CCGCGTAGAATTGCACCGTAGTGCCATATAAAAATGTCCATAAGGACCACATATTATTCCTTAAG
1 CCGCGTAGAATTGCACCGTAGTGCCATATAAAAATGTCCATAAGGACCACATATTATTCCTTAAG
*
20278 AATCATATACATATACTAGGGATCAAGTATGTGTCTTTCAAGACTTCACACATGTTCCACAGAAT
66 AATCATATACATATACTAGGGATCAAGTATGTGTCTTTCAAGACTTCACACATGTTCCAAAGAAT
* *
20343 ATATATATATCCCAAAGGA
131 ATACATATATCCCAAAGAA
**
20362 CCGCGTAGAATTGCACCGTAGTGCCATATAATGATGTCCATAAGGACCACATATTATTCCTTAAG
1 CCGCGTAGAATTGCACCGTAGTGCCATATAAAAATGTCCATAAGGACCACATATTATTCCTTAAG
20427 AATCATATACATATACTAGGGATCAAGTATGTGTCTTTCAAGACTTCACACATGTTCCAAAGAAT
66 AATCATATACATATACTAGGGATCAAGTATGTGTCTTTCAAGACTTCACACATGTTCCAAAGAAT
* *
20492 ATACATATGTCCCGAAGAA
131 ATACATATATCCCAAAGAA
20511 CCGCGTAGA
1 CCGCGTAGA
20520 CCCTCGACTC
Statistics
Matches: 151, Mismatches: 7, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
149 151 1.00
ACGTcount: A:0.35, C:0.21, G:0.16, T:0.28
Consensus pattern (149 bp):
CCGCGTAGAATTGCACCGTAGTGCCATATAAAAATGTCCATAAGGACCACATATTATTCCTTAAG
AATCATATACATATACTAGGGATCAAGTATGTGTCTTTCAAGACTTCACACATGTTCCAAAGAAT
ATACATATATCCCAAAGAA
Found at i:20639 original size:14 final size:14
Alignment explanation
Indices: 20620--20647 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
20610 AACTTGTAAT
20620 TCACGTATCACATA
1 TCACGTATCACATA
20634 TCACGTATCACATA
1 TCACGTATCACATA
20648 GCTTCTTTTC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.36, C:0.29, G:0.07, T:0.29
Consensus pattern (14 bp):
TCACGTATCACATA
Found at i:21945 original size:21 final size:21
Alignment explanation
Indices: 21921--21965 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
21911 TGTTGTTCGT
* *
21921 TTGAAGGGGTATCGGTTCCCC
1 TTGAAGGGGTACCGATTCCCC
*
21942 TTGAATGGGTACCGATTCCCC
1 TTGAAGGGGTACCGATTCCCC
21963 TTG
1 TTG
21966 CCCAGAAATC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.16, C:0.24, G:0.29, T:0.31
Consensus pattern (21 bp):
TTGAAGGGGTACCGATTCCCC
Found at i:26437 original size:22 final size:22
Alignment explanation
Indices: 26409--26471 Score: 99
Period size: 22 Copynumber: 2.9 Consensus size: 22
26399 GAAGGACCAC
26409 TACGTCCCGAAGGACCGCTGGA
1 TACGTCCCGAAGGACCGCTGGA
* *
26431 TACGTCCCGAAGAACCACTGGA
1 TACGTCCCGAAGGACCGCTGGA
*
26453 TATGTCCCGAAGGACCGCT
1 TACGTCCCGAAGGACCGCT
26472 ATAAACCCTT
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 36 1.00
ACGTcount: A:0.25, C:0.32, G:0.27, T:0.16
Consensus pattern (22 bp):
TACGTCCCGAAGGACCGCTGGA
Found at i:27025 original size:20 final size:20
Alignment explanation
Indices: 27002--27079 Score: 111
Period size: 20 Copynumber: 3.9 Consensus size: 20
26992 CTAATTGAGA
27002 TATAGATACCCTACCTATGG
1 TATAGATACCCTACCTATGG
* * *
27022 TATAGATACCTTGCCTATAG
1 TATAGATACCCTACCTATGG
*
27042 TATAGATACCATACCTATGG
1 TATAGATACCCTACCTATGG
*
27062 TATAGATACCCTGCCTAT
1 TATAGATACCCTACCTAT
27080 ATTCTGGAAA
Statistics
Matches: 50, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 50 1.00
ACGTcount: A:0.31, C:0.23, G:0.14, T:0.32
Consensus pattern (20 bp):
TATAGATACCCTACCTATGG
Found at i:27051 original size:40 final size:40
Alignment explanation
Indices: 27002--27080 Score: 140
Period size: 40 Copynumber: 2.0 Consensus size: 40
26992 CTAATTGAGA
* *
27002 TATAGATACCCTACCTATGGTATAGATACCTTGCCTATAG
1 TATAGATACCATACCTATGGTATAGATACCCTGCCTATAG
27042 TATAGATACCATACCTATGGTATAGATACCCTGCCTATA
1 TATAGATACCATACCTATGGTATAGATACCCTGCCTATA
27081 TTCTGGAAAT
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 37 1.00
ACGTcount: A:0.32, C:0.23, G:0.14, T:0.32
Consensus pattern (40 bp):
TATAGATACCATACCTATGGTATAGATACCCTGCCTATAG
Found at i:28666 original size:14 final size:15
Alignment explanation
Indices: 28642--28670 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
28632 ACCATTTATT
28642 AACCAATAAACCATA
1 AACCAATAAACCATA
28657 AACC-ATAAACCATA
1 AACCAATAAACCATA
28671 GACAATAGCC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.59, C:0.28, G:0.00, T:0.14
Consensus pattern (15 bp):
AACCAATAAACCATA
Found at i:28771 original size:17 final size:17
Alignment explanation
Indices: 28751--28837 Score: 51
Period size: 17 Copynumber: 5.2 Consensus size: 17
28741 TCGTATGACA
28751 CATAAGGTCGTGTCCAC
1 CATAAGGTCGTGTCCAC
**
28768 CATAA--TC-TGTATGAC
1 CATAAGGTCGTGT-CCAC
*
28783 ACATAAGGCCGTGTCCAC
1 -CATAAGGTCGTGTCCAC
* *
28801 CATAA--TCCGTAT-GAC
1 CATAAGGT-CGTGTCCAC
28816 ACATAAGGTCGTGTCCAC
1 -CATAAGGTCGTGTCCAC
28834 CATA
1 CATA
28838 TACACTAGGT
Statistics
Matches: 50, Mismatches: 10, Indels: 20
0.62 0.12 0.25
Matches are distributed among these distances:
14 3 0.06
15 6 0.12
16 14 0.28
17 18 0.36
18 6 0.12
19 3 0.06
ACGTcount: A:0.30, C:0.28, G:0.18, T:0.24
Consensus pattern (17 bp):
CATAAGGTCGTGTCCAC
Found at i:28780 original size:33 final size:33
Alignment explanation
Indices: 28737--28837 Score: 175
Period size: 33 Copynumber: 3.1 Consensus size: 33
28727 ATCGTAATGC
*
28737 TAATTCGTATGACACATAAGGTCGTGTCCACCA
1 TAATCCGTATGACACATAAGGTCGTGTCCACCA
* *
28770 TAATCTGTATGACACATAAGGCCGTGTCCACCA
1 TAATCCGTATGACACATAAGGTCGTGTCCACCA
28803 TAATCCGTATGACACATAAGGTCGTGTCCACCA
1 TAATCCGTATGACACATAAGGTCGTGTCCACCA
28836 TA
1 TA
28838 TACACTAGGT
Statistics
Matches: 63, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
33 63 1.00
ACGTcount: A:0.31, C:0.26, G:0.18, T:0.26
Consensus pattern (33 bp):
TAATCCGTATGACACATAAGGTCGTGTCCACCA
Found at i:31755 original size:23 final size:21
Alignment explanation
Indices: 31729--31773 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 21
31719 TCAATATGTT
*
31729 CTCTTTCTTCTTCTCTCTCTCTC
1 CTCTCTCTTCTTC-CTCT-TCTC
31752 CTCTCTCTTCTTCCTCTTCTC
1 CTCTCTCTTCTTCCTCTTCTC
31773 C
1 C
31774 ACCTTGTTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 5 0.24
22 4 0.19
23 12 0.57
ACGTcount: A:0.00, C:0.47, G:0.00, T:0.53
Consensus pattern (21 bp):
CTCTCTCTTCTTCCTCTTCTC
Found at i:31758 original size:13 final size:14
Alignment explanation
Indices: 31728--31772 Score: 51
Period size: 13 Copynumber: 3.4 Consensus size: 14
31718 CTCAATATGT
* *
31728 TCTCTTTCTTCTTC
1 TCTCTCTCTTCCTC
31742 TCTCTCTC-TCCTC
1 TCTCTCTCTTCCTC
31755 TCTCT-TCTTCCTC
1 TCTCTCTCTTCCTC
31768 T-TCTC
1 TCTCTC
31773 CACCTTGTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
12 5 0.19
13 15 0.56
14 7 0.26
ACGTcount: A:0.00, C:0.44, G:0.00, T:0.56
Consensus pattern (14 bp):
TCTCTCTCTTCCTC
Found at i:32831 original size:21 final size:21
Alignment explanation
Indices: 32792--32832 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
32782 TTTAAGTAAC
* *
32792 AAAATTAACATTTCCGATAGA
1 AAAAATAACATTTCAGATAGA
*
32813 AAAAATAACATTTTAGATAG
1 AAAAATAACATTTCAGATAG
32833 CACTTTACCG
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:0.51, C:0.10, G:0.10, T:0.29
Consensus pattern (21 bp):
AAAAATAACATTTCAGATAGA
Found at i:37849 original size:19 final size:19
Alignment explanation
Indices: 37809--37848 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
37799 GCACATTTGG
* *
37809 TTTATAAAATATAATATTT
1 TTTAAAAAAAATAATATTT
37828 TTTAAAAAAAATAAT-TTT
1 TTTAAAAAAAATAATATTT
37846 TTT
1 TTT
37849 TGATATATTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 6 0.32
19 13 0.68
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (19 bp):
TTTAAAAAAAATAATATTT
Found at i:45699 original size:3 final size:3
Alignment explanation
Indices: 45693--45718 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
45683 GAGTAAAAGT
45693 TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TT
45719 GAGTTAAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:46167 original size:15 final size:16
Alignment explanation
Indices: 46141--46170 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
46131 TTTAGGTCGG
46141 GTTTAGATTTTATTCA
1 GTTTAGATTTTATTCA
46157 GTTTA-ATTTTATTC
1 GTTTAGATTTTATTC
46171 GGGCGGTCCG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.23, C:0.07, G:0.10, T:0.60
Consensus pattern (16 bp):
GTTTAGATTTTATTCA
Found at i:46368 original size:15 final size:16
Alignment explanation
Indices: 46341--46370 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
46331 TTATATTTCC
46341 GTTCAGATCAATATCA
1 GTTCAGATCAATATCA
46357 GTTCAG-TCAATATC
1 GTTCAGATCAATATC
46371 GAATCGGGTG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.33, C:0.20, G:0.13, T:0.33
Consensus pattern (16 bp):
GTTCAGATCAATATCA
Found at i:46921 original size:32 final size:33
Alignment explanation
Indices: 46885--46963 Score: 97
Period size: 33 Copynumber: 2.4 Consensus size: 33
46875 TTGGATTGCT
46885 TTCGGTTCGGGTTACTTTTGGA-TCGGGTTAAA
1 TTCGGTTCGGGTTACTTTTGGATTCGGGTTAAA
* * * * *
46917 TTCGGTTCGGTTTATTTTTTGATTTGGGTTAAT
1 TTCGGTTCGGGTTACTTTTGGATTCGGGTTAAA
*
46950 TTCGGTTCGAGTTA
1 TTCGGTTCGGGTTA
46964 TTCTCAGTTC
Statistics
Matches: 39, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
32 19 0.49
33 20 0.51
ACGTcount: A:0.14, C:0.10, G:0.28, T:0.48
Consensus pattern (33 bp):
TTCGGTTCGGGTTACTTTTGGATTCGGGTTAAA
Found at i:47129 original size:14 final size:14
Alignment explanation
Indices: 47089--47131 Score: 54
Period size: 14 Copynumber: 3.2 Consensus size: 14
47079 CGGGTTAATA
47089 TCGGGT-ATTGGG-
1 TCGGGTAATTGGGT
* *
47101 TCGGGTAAGTCGGT
1 TCGGGTAATTGGGT
47115 TCGGGTAATTGGGT
1 TCGGGTAATTGGGT
47129 TCG
1 TCG
47132 AGTCAAGTTT
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
12 6 0.24
13 4 0.16
14 15 0.60
ACGTcount: A:0.12, C:0.12, G:0.44, T:0.33
Consensus pattern (14 bp):
TCGGGTAATTGGGT
Found at i:51612 original size:225 final size:227
Alignment explanation
Indices: 51159--51640 Score: 846
Period size: 225 Copynumber: 2.1 Consensus size: 227
51149 GTAAATTATC
* *
51159 TATCCTTTTTATAAAA-TGTCCATACTTATTTCACTGTGAAAATATATTTATTATTATCTTTAGT
1 TATCATTTTTATAAAAGTGTCCATACTTATTTCACTGTGAAAACATATTTATTATTA-CTTTAGT
*
51223 TAATATTGTTAAATTTAAAATCTAAATAATATTTTATAAAATATCAAAACAATCAAATAATTTTT
65 TAATATTGTTAAATTTAAAATCTAAATAATATTTTATAAAATATCAAAACAATCAAATAATATTT
51288 TGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTG
130 TGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTG
*
51353 AAACATAAATTACATAACTTTCAAAAAAGTATA
195 AAACATAAATTACATAACTTTAAAAAAAGTATA
* *
51386 TATCATTTTTATAAAAGTGTACATACTTATTTCACTGTTGAAAACATATTTA-TA-TA-TTTGGT
1 TATCATTTTTATAAAAGTGTCCATACTTATTTCACTG-TGAAAACATATTTATTATTACTTTAGT
*
51448 TAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAAATAATATTT
65 TAATATTGTTAAATTTAAAATCTAAATAATATTTTATAAAATATCAAAACAATCAAATAATATTT
*
51513 TGTGTAAATTAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTG
130 TGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTG
51578 AAACATAAATTACATAACTTTAAAAAAAGTATA
195 AAACATAAATTACATAACTTTAAAAAAAGTATA
51611 TATCATTTTTATAAAAGTGTCCATACTTAT
1 TATCATTTTTATAAAAGTGTCCATACTTAT
51641 AAAAGTAGGT
Statistics
Matches: 244, Mismatches: 9, Indels: 6
0.94 0.03 0.02
Matches are distributed among these distances:
225 193 0.79
227 17 0.07
228 21 0.09
229 13 0.05
ACGTcount: A:0.45, C:0.08, G:0.07, T:0.39
Consensus pattern (227 bp):
TATCATTTTTATAAAAGTGTCCATACTTATTTCACTGTGAAAACATATTTATTATTACTTTAGTT
AATATTGTTAAATTTAAAATCTAAATAATATTTTATAAAATATCAAAACAATCAAATAATATTTT
GTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTGA
AACATAAATTACATAACTTTAAAAAAAGTATA
Found at i:51942 original size:20 final size:19
Alignment explanation
Indices: 51919--51965 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 19
51909 CGATATACCA
*
51919 GGTAAAAATATGATAAAATC
1 GGTAAAAA-ATGATAAAACC
51939 GGTAACAAAATGATAAAACC
1 GGTAA-AAAATGATAAAACC
51959 GGTAAAA
1 GGTAAAA
51966 CGTTACCGGA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
19 2 0.08
20 20 0.80
21 3 0.12
ACGTcount: A:0.55, C:0.09, G:0.17, T:0.19
Consensus pattern (19 bp):
GGTAAAAAATGATAAAACC
Found at i:51999 original size:181 final size:181
Alignment explanation
Indices: 51708--52179 Score: 669
Period size: 181 Copynumber: 2.6 Consensus size: 181
51698 GATCCAAATT
* * * * *
51708 AAAAATGTGTCGATCCAAAACGATATAACATGTAAAACTATGACAAAACCGGTATA-GAAATGAT
1 AAAAATGTATCGATCCAAAACGATATAACAGGTAAAAATATGATAAAACCGGTA-ACAAAATGAT
* * * * * *
51772 AAAACCGGTCAAGCGCTACCGGATACATTTAAAGTGTCGGTACTTTA-ATATAGGATCGACACTT
65 AAAACCGGTAAAACGATACCGGATATATTAAAAGTGTCGATACTTTATATA-AGGATCGACACTT
* * * *
51836 CGTGAATTTAAAAGAGAAGCAGTTTTAAATCCTATAAAGTGTCGATACTTTTA
129 CGTGAATTTAAAAGAGAAGCAGCTATAAAGCCTATAAAGTGTCGATACTTTAA
* *
51889 AAAAATGTATCGATCCAAAACGATATACCAGGTAAAAATATGATAAAATCGGTAACAAAATGATA
1 AAAAATGTATCGATCCAAAACGATATAACAGGTAAAAATATGATAAAACCGGTAACAAAATGATA
* *
51954 AAACCGGTAAAACGTTACCGGATATATTAAAAGTGTCGATACTTTATATAAGGATCGACACTTTG
66 AAACCGGTAAAACGATACCGGATATATTAAAAGTGTCGATACTTTATATAAGGATCGACACTTCG
** *
52019 TGAATTTAAAAGAGAAGCAGCTATAGCGCCTATAATGTGTCGATACTTTAA
131 TGAATTTAAAAGAGAAGCAGCTATAAAGCCTATAAAGTGTCGATACTTTAA
* * *
52070 AAAAATATATCGATCCACAACGATATAACAGGTAAAAATATGATAAAACCGGTATCAAAATGATA
1 AAAAATGTATCGATCCAAAACGATATAACAGGTAAAAATATGATAAAACCGGTAACAAAATGATA
* *
52135 AAACCGGTAAAATGATACCGGATATATTGAAAGTGTCGATACTTT
66 AAACCGGTAAAACGATACCGGATATATTAAAAGTGTCGATACTTT
52180 TGTAAGTACG
Statistics
Matches: 260, Mismatches: 29, Indels: 4
0.89 0.10 0.01
Matches are distributed among these distances:
180 1 0.00
181 256 0.98
182 3 0.01
ACGTcount: A:0.42, C:0.14, G:0.17, T:0.26
Consensus pattern (181 bp):
AAAAATGTATCGATCCAAAACGATATAACAGGTAAAAATATGATAAAACCGGTAACAAAATGATA
AAACCGGTAAAACGATACCGGATATATTAAAAGTGTCGATACTTTATATAAGGATCGACACTTCG
TGAATTTAAAAGAGAAGCAGCTATAAAGCCTATAAAGTGTCGATACTTTAA
Found at i:52123 original size:20 final size:19
Alignment explanation
Indices: 52100--52146 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 19
52090 CGATATAACA
52100 GGTAAAAATATGATAAAACC
1 GGTAAAAA-ATGATAAAACC
*
52120 GGTATCAAAATGATAAAACC
1 GGTA-AAAAATGATAAAACC
52140 GGTAAAA
1 GGTAAAA
52147 TGATACCGGA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 2 0.08
20 19 0.79
21 3 0.12
ACGTcount: A:0.53, C:0.11, G:0.17, T:0.19
Consensus pattern (19 bp):
GGTAAAAAATGATAAAACC
Found at i:52148 original size:17 final size:19
Alignment explanation
Indices: 52109--52151 Score: 63
Period size: 20 Copynumber: 2.3 Consensus size: 19
52099 AGGTAAAAAT
52109 ATGATAAAACCGGTATCAAA
1 ATGATAAAACCGG-ATCAAA
52129 ATGATAAAACCGG-T-AAA
1 ATGATAAAACCGGATCAAA
52146 ATGATA
1 ATGATA
52152 CCGGATATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 9 0.39
18 1 0.04
20 13 0.57
ACGTcount: A:0.51, C:0.12, G:0.16, T:0.21
Consensus pattern (19 bp):
ATGATAAAACCGGATCAAA
Found at i:54409 original size:21 final size:21
Alignment explanation
Indices: 54371--54411 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
54361 CAAGAGTTGA
* **
54371 AGAGAAACTTGATCGAGTCGT
1 AGAGAAACTCGAGAGAGTCGT
54392 AGAGAAACTCGAGAGAGTCG
1 AGAGAAACTCGAGAGAGTCG
54412 AAGATACACT
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:0.37, C:0.15, G:0.32, T:0.17
Consensus pattern (21 bp):
AGAGAAACTCGAGAGAGTCGT
Found at i:54503 original size:33 final size:33
Alignment explanation
Indices: 54461--54526 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 33
54451 AAATAGATGG
*
54461 AGTGGTGAAAGAAGTAGAGGTGTTGAGGGGTGA
1 AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
* * *
54494 AGTGGTGAAATAAGTTGGGGTGTTAAGGGGTGA
1 AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
54527 TATTAAGATG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.29, C:0.00, G:0.47, T:0.24
Consensus pattern (33 bp):
AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
Found at i:55990 original size:193 final size:197
Alignment explanation
Indices: 55561--56506 Score: 1478
Period size: 195 Copynumber: 4.9 Consensus size: 197
55551 CAATATGGCC
* * *
55561 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCAATCCCAAAAACATCGAAAA
1 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCG-AAC
* * *
55626 CTAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTCTACCGGTTTTATGAGA
65 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGG-TTTATGAGA
*
55691 GAATATGTCTAAATAA--TGTCGTCACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAA
129 GAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATA-TTTTTTTCCAGAATGAA
55754 TGGAA
193 TGGAA
55759 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
1 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
*
55824 CAAAAGTAT-ATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGG-TTATGAGA-T
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTATGAGAGA
*
55886 ATATGTATAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCC-GAATGAATGG
131 ATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCAGAATGAATGG
55950 AA
196 AA
55952 AACAGGGTGCACCCATAAAGTGTCGATCCATATAT-AAAAGTGTCGATCCCAAAATCATCGAACC
1 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
* *
56016 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCAGTTTTATGAGAT
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACC-GGTTTATGAGAG
* *
56081 AATATGTAT-AATAATGTGTCGACACTAATATAG-TTGTGTCGATTTTTTTTTCCAGAATGAATG
130 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCAGAATGAATG
56144 GAA
195 GAA
56147 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCCAAAATCATCGAAC
1 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGAT-CCCAAAATCATCGAAC
*
56212 CCAAAAGTATAATGTAATATGTAA-TCTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGA
65 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGG-TTTATGAGA
56276 GAATATGTCTAAATAATGTGTCG------ATATAGTTTGTGTCGATA-TTTTTTCCAGAATGAAT
129 GAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCAGAATGAAT
56334 GG-A
194 GGAA
56337 AA-AGGGTGCACCCATAAAGTGTCGAT-C--ATA-AAAAAGTGTCGATCCCAAAAAAT-ATCGAA
1 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCC--AAAATCATCGAA
*
56396 CCCAAAAGTATAATGTAATATGTAA-TTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAG
64 CCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGG-TTTATGAG
56460 AGAATATGTCTAAATAATGTGTCGACACGT--TATAGTTTGTGTCGATA
128 AGAATATGTCTAAATAATGTGTCGACAC-TAATATAGTTTGTGTCGATA
56507 CTAATTTAAA
Statistics
Matches: 709, Mismatches: 19, Indels: 48
0.91 0.02 0.06
Matches are distributed among these distances:
184 3 0.00
185 105 0.15
186 8 0.01
188 1 0.00
189 24 0.03
190 20 0.03
191 25 0.04
192 48 0.07
193 102 0.14
194 37 0.05
195 108 0.15
196 106 0.15
197 63 0.09
198 59 0.08
ACGTcount: A:0.37, C:0.16, G:0.17, T:0.31
Consensus pattern (197 bp):
AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTATGAGAGA
ATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCAGAATGAATGG
AA
Found at i:56105 original size:195 final size:198
Alignment explanation
Indices: 55561--56506 Score: 1507
Period size: 196 Copynumber: 4.9 Consensus size: 198
55551 CAATATGGCC
* * *
55561 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCAATCCCAAAAACATCGAAAA
1 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCG-AAC
* * *
55626 CTAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTCTACCGGTTTTATGAGA
65 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGA
*
55691 GAATATGTCTAAATAA--TGTCGTCACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAA
130 GAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATA-TTTTTTTCCAGAATGAA
55754 TGGAA
194 TGGAA
55759 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
1 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
55824 CAAAAGTAT-ATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGG--TTATGAGA-
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
* *
55885 TATATGTATAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCC-GAATGAATG
131 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCAGAATGAATG
55949 GAA
196 GAA
55952 AACAGGGTGCACCCATAAAGTGTCGATCCATATAT-AAAAGTGTCGATCCCAAAATCATCGAACC
1 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
* *
56016 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCAGTTTTATGAGAT
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
* *
56081 AATATGTAT-AATAATGTGTCGACACTAATATAG-TTGTGTCGATTTTTTTTTCCAGAATGAATG
131 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCAGAATGAATG
56144 GAA
196 GAA
56147 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCCAAAATCATCGAAC
1 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGAT-CCCAAAATCATCGAAC
*
56212 CCAAAAGTATAATGTAATATGTAA-TCTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGA
65 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGA
56276 GAATATGTCTAAATAATGTGTCG------ATATAGTTTGTGTCGATA-TTTTTTCCAGAATGAAT
130 GAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCAGAATGAAT
56334 GG-A
195 GGAA
56337 AA-AGGGTGCACCCATAAAGTGTCGAT-C--ATA-AAAAAGTGTCGATCCCAAAAAAT-ATCGAA
1 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCC--AAAATCATCGAA
*
56396 CCCAAAAGTATAATGTAATATGTAA-TTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAG
64 CCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAG
56460 AGAATATGTCTAAATAATGTGTCGACACGT--TATAGTTTGTGTCGATA
129 AGAATATGTCTAAATAATGTGTCGACAC-TAATATAGTTTGTGTCGATA
56507 CTAATTTAAA
Statistics
Matches: 710, Mismatches: 19, Indels: 46
0.92 0.02 0.06
Matches are distributed among these distances:
184 3 0.00
185 105 0.15
186 8 0.01
188 1 0.00
189 24 0.03
190 20 0.03
191 25 0.04
192 48 0.07
193 103 0.15
194 36 0.05
195 107 0.15
196 108 0.15
197 63 0.09
198 59 0.08
ACGTcount: A:0.37, C:0.16, G:0.17, T:0.31
Consensus pattern (198 bp):
AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCAGAATGAATG
GAA
Found at i:56386 original size:17 final size:17
Alignment explanation
Indices: 56352--56402 Score: 59
Period size: 17 Copynumber: 3.1 Consensus size: 17
56342 GTGCACCCAT
**
56352 AAAGTGTCGATCATAAA
1 AAAGTGTCGATCCCAAA
56369 AAAGTGTCGATCCCAAA
1 AAAGTGTCGATCCCAAA
* *
56386 AAA-TATCGAACCCAAA
1 AAAGTGTCGATCCCAAA
56402 A
1 A
56403 GTATAATGTA
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
16 12 0.40
17 18 0.60
ACGTcount: A:0.49, C:0.20, G:0.14, T:0.18
Consensus pattern (17 bp):
AAAGTGTCGATCCCAAA
Found at i:56421 original size:389 final size:385
Alignment explanation
Indices: 55561--56506 Score: 1501
Period size: 389 Copynumber: 2.5 Consensus size: 385
55551 CAATATGGCC
* * *
55561 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCAATCCCAAAAACATCGAAAA
1 AACAGGGTGCACCCATAAAGTGTCGATCC--ATATAAAAAGTGTCGATCCCAAAAATATCG-AAC
* *
55626 CTAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTCTACCGGTTTTATGAGA
63 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGA
*
55691 GAATATGTCTAAATAA--TGTCGTCACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAA
128 GAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAA
55754 TGGAAAACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATC
193 TGGAAAACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATC
*
55819 GAACCCAAAAGTATATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTATGAG
258 GAACCCAAAAGTATATGTAATATGTAATTCTTCAATCTAACCGGTACAATTATACCGGTTATGAG
*
55884 ATATATGTATAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCGAATGAATG
323 AAATATGTATAAATAATGTGTCG-----AATATAGTTTGTGTCGATATTTTTTTCCGAATGAATG
55949 GAA
383 GAA
55952 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAGTGTCGATCCC-AAAATCATCGAACC
1 AACAGGGTGCACCCATAAAGTGTCGATCCATATA-AAAAGTGTCGATCCCAAAAAT-ATCGAACC
* * *
56016 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCAGTTTTATGAGAT
64 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGAG
*
56081 AATATGTAT-AATAATGTGTCGACACTAATATAG-TTGTGTCGAT-TTTTTTTTCCAGAATGAAT
129 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAAT
56143 GGAAAACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCCAAAATCATC
194 GGAAAACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGAT-CCCAAAATCATC
56208 GAACCCAAAAGTATAATGTAATATGTAA-TCTTCAATCTAACCGGTACAATTATACCGGTTTTAT
258 GAACCCAAAAGTAT-ATGTAATATGTAATTCTTCAATCTAACCGGTACAATTATACCGG--TTAT
*
56272 GAGAGAATATGTCTAAATAATGTGTCG-ATATAGTTTGTGTCGATA-TTTTTTCCAGAATGAATG
320 GAGA-AATATGTATAAATAATGTGTCGAATATAGTTTGTGTCGATATTTTTTTCC-GAATGAATG
56335 G-A
383 GAA
56337 AA-AGGGTGCACCCATAAAGTGTCGAT-CATA-AAAAAGTGTCGATCCCAAAAAATATCGAACCC
1 AACAGGGTGCACCCATAAAGTGTCGATCCATATAAAAAGTGTCGATCCC-AAAAATATCGAACCC
56399 AAAAGTATAATGTAATATGTAA-TTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGAGA
65 AAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGAGA
56463 ATATGTCTAAATAATGTGTCGACACGT--TATAGTTTGTGTCGATA
130 ATATGTCTAAATAATGTGTCGACAC-TAATATAGTTTGTGTCGATA
56507 CTAATTTAAA
Statistics
Matches: 522, Mismatches: 17, Indels: 40
0.90 0.03 0.07
Matches are distributed among these distances:
381 66 0.13
382 58 0.11
383 10 0.02
384 24 0.05
385 11 0.02
386 28 0.05
388 76 0.15
389 145 0.28
390 47 0.09
391 37 0.07
392 20 0.04
ACGTcount: A:0.37, C:0.16, G:0.17, T:0.31
Consensus pattern (385 bp):
AACAGGGTGCACCCATAAAGTGTCGATCCATATAAAAAGTGTCGATCCCAAAAATATCGAACCCA
AAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGAGAA
TATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATGG
AAAACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAA
CCCAAAAGTATATGTAATATGTAATTCTTCAATCTAACCGGTACAATTATACCGGTTATGAGAAA
TATGTATAAATAATGTGTCGAATATAGTTTGTGTCGATATTTTTTTCCGAATGAATGGAA
Found at i:57966 original size:18 final size:18
Alignment explanation
Indices: 57945--58039 Score: 88
Period size: 18 Copynumber: 5.4 Consensus size: 18
57935 AGCGGTCGCA
*
57945 GAAGATGAAGCTGACGAT
1 GAAGATGAAGATGACGAT
* *
57963 GAAGATGACGATGATGAT
1 GAAGATGAAGATGACGAT
* * *
57981 GACGATGAAGCTGGCGAT
1 GAAGATGAAGATGACGAT
57999 GAAGAT---GATGACGAT
1 GAAGATGAAGATGACGAT
* * *
58014 GATGATGATGATGATGAT
1 GAAGATGAAGATGACGAT
58032 GAAGATGA
1 GAAGATGA
58040 TGATCCAACA
Statistics
Matches: 60, Mismatches: 14, Indels: 6
0.75 0.17 0.08
Matches are distributed among these distances:
15 12 0.20
18 48 0.80
ACGTcount: A:0.37, C:0.07, G:0.35, T:0.21
Consensus pattern (18 bp):
GAAGATGAAGATGACGAT
Found at i:57969 original size:6 final size:6
Alignment explanation
Indices: 57945--58039 Score: 64
Period size: 6 Copynumber: 15.3 Consensus size: 6
57935 AGCGGTCGCA
* * * * * *
57945 GAAGAT GAAGCT GACGAT GAAGAT GACGAT GATGAT GACGAT GAAGCT
1 GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT
** * * *
57993 GGCGAT GAAGAT GATGACGAT GATGAT GATGAT GATGAT GAAGAT GA
1 GAAGAT GAAGAT GA--A-GAT GAAGAT GAAGAT GAAGAT GAAGAT GA
58040 TGATCCAACA
Statistics
Matches: 70, Mismatches: 16, Indels: 6
0.76 0.17 0.07
Matches are distributed among these distances:
6 64 0.91
8 1 0.01
9 5 0.07
ACGTcount: A:0.37, C:0.07, G:0.35, T:0.21
Consensus pattern (6 bp):
GAAGAT
Found at i:57980 original size:3 final size:3
Alignment explanation
Indices: 57960--58043 Score: 78
Period size: 3 Copynumber: 28.0 Consensus size: 3
57950 TGAAGCTGAC
* * * * * ** *
57960 GAT GAA GAT GAC GAT GAT GAT GAC GAT GAA GCT GGC GAT GAA GAT GAT
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT
* *
58008 GAC GAT GAT GAT GAT GAT GAT GAT GAA GAT GAT GAT
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT
58044 CCAACAAGTA
Statistics
Matches: 62, Mismatches: 19, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
3 62 1.00
ACGTcount: A:0.36, C:0.06, G:0.35, T:0.24
Consensus pattern (3 bp):
GAT
Found at i:57999 original size:36 final size:36
Alignment explanation
Indices: 57948--58039 Score: 118
Period size: 36 Copynumber: 2.6 Consensus size: 36
57938 GGTCGCAGAA
*
57948 GATGAAGCTGACGATGAAGATGACGATGATGATGAC
1 GATGAAGCTGACGATGAAGATGACGACGATGATGAC
* * *
57984 GATGAAGCTGGCGATGAAGATGATGACGATGATGAT
1 GATGAAGCTGACGATGAAGATGACGACGATGATGAC
*
58020 GATG-A--TGATGATGAAGATGA
1 GATGAAGCTGACGATGAAGATGA
58040 TGATCCAACA
Statistics
Matches: 50, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
33 13 0.26
35 1 0.02
36 36 0.72
ACGTcount: A:0.36, C:0.08, G:0.35, T:0.22
Consensus pattern (36 bp):
GATGAAGCTGACGATGAAGATGACGACGATGATGAC
Found at i:58043 original size:12 final size:12
Alignment explanation
Indices: 57948--58039 Score: 91
Period size: 12 Copynumber: 7.9 Consensus size: 12
57938 GGTCGCAGAA
*
57948 GATGAAGCTGAC
1 GATGAAGATGAC
57960 GATGAAGATGAC
1 GATGAAGATGAC
*
57972 GATGATGATGAC
1 GATGAAGATGAC
* *
57984 GATGAAGCTGGC
1 GATGAAGATGAC
57996 GATGAAGAT---
1 GATGAAGATGAC
* *
58005 GATGACGATGAT
1 GATGAAGATGAC
* *
58017 GATGATGATGAT
1 GATGAAGATGAC
58029 GATGAAGATGA
1 GATGAAGATGA
58040 TGATCCAACA
Statistics
Matches: 68, Mismatches: 9, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
9 8 0.12
12 60 0.88
ACGTcount: A:0.36, C:0.08, G:0.35, T:0.22
Consensus pattern (12 bp):
GATGAAGATGAC
Found at i:59731 original size:177 final size:175
Alignment explanation
Indices: 59504--59976 Score: 717
Period size: 176 Copynumber: 2.7 Consensus size: 175
59494 ATGCTATCGG
59504 TAAATATACCGGTTTTTATGCGCGAATAGGTCTA-AACCTATATCGACACTTTTTAATCT-TGTC
1 TAAATATACCGG-TTTTATGCGCGAATAGGTCTACAACCTATATCGACACTTTTTAAT-TGTGTC
*
59567 GGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACATTGTTAAAAAGTGTCGACA-TTAC
64 GGTAC-TTATGTCCAGATTGGAAGAAAAATGTGTCGATACATT-TAAAAAAGTGTCGACATTTAC
*
59631 ACATCGGAA-CCATAATT-TAATGTAATAGATAATTTTATAATATAACCGGTA
127 ACATCGGAACCCAGAATTATAATGTAATAGATAATTTTAT-A-ATAA-C-GTA
59682 TAAATATA-CGGTTTTATGCGCGAATAGGTCTACAACCTATATCGACACTTTTTAATTGTGTCGG
1 TAAATATACCGGTTTTATGCGCGAATAGGTCTACAACCTATATCGACACTTTTTAATTGTGTCGG
* *
59746 TACTTATGTCCATATTGGAAGAAAAATGTGTCGATACGATTTAAAAAAGTATCGACATTTACACA
66 TACTTATGTCCAGATTGGAAGAAAAATGTGTCGATAC-ATTTAAAAAAGTGTCGACATTTACACA
* *
59811 TCGGAACCCAGATTTATAATGTAATAGATAATTTTGTAATAACGTA
130 TCGGAACCCAGAATTATAATGTAATAGATAATTTTATAATAACGTA
* *
59857 TAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCGACACTTTATAATATTGTGTC
1 TAAATATACCGGTTTTATGCGCGAATAGGTCTACAACCTATATCGACACTTT-TTA-ATTGTGTC
59922 GGTACTT-TGTCCAGATTGGAAGAAAAATGTGTCGATACCATTTAAAAAAGTGTCG
64 GGTACTTATGTCCAGATTGGAAGAAAAATGTGTCGATA-CATTTAAAAAAGTGTCG
59977 GTAATTTTAA
Statistics
Matches: 275, Mismatches: 10, Indels: 21
0.90 0.03 0.07
Matches are distributed among these distances:
175 11 0.04
176 112 0.41
177 101 0.37
178 31 0.11
179 20 0.07
ACGTcount: A:0.35, C:0.15, G:0.17, T:0.34
Consensus pattern (175 bp):
TAAATATACCGGTTTTATGCGCGAATAGGTCTACAACCTATATCGACACTTTTTAATTGTGTCGG
TACTTATGTCCAGATTGGAAGAAAAATGTGTCGATACATTTAAAAAAGTGTCGACATTTACACAT
CGGAACCCAGAATTATAATGTAATAGATAATTTTATAATAACGTA
Done.