Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01004986.1 Hibiscus syriacus cultivar Beakdansim tig00011186_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: 428355
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 2
Found at i:4921 original size:21 final size:21
Alignment explanation
Indices: 4888--4929 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
4878 TCAAGAATGT
4888 CCAAAGGGAACCGATTCCCCC
1 CCAAAGGGAACCGATTCCCCC
* *
4909 CCAAGGGGTACCGATTCCCCC
1 CCAAAGGGAACCGATTCCCCC
4930 TGAATGGTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.24, C:0.43, G:0.21, T:0.12
Consensus pattern (21 bp):
CCAAAGGGAACCGATTCCCCC
Found at i:6953 original size:45 final size:45
Alignment explanation
Indices: 6902--7403 Score: 472
Period size: 45 Copynumber: 11.2 Consensus size: 45
6892 AGAACCTCAA
* ** * *
6902 CTTGACTTTCTCGTAAAGAAAAGTCAATATTTTAGTGATGTTATT
1 CTTGACTTTCTCATAAAGAGGAGTCAATCTTTTAGTGATGTCATT
* * *
6947 CTTGACTTTCTCATAAAGAGGAGTCAATCTTTTAATGTTGTCATC
1 CTTGACTTTCTCATAAAGAGGAGTCAATCTTTTAGTGATGTCATT
* * * * * * **
6992 CTTGACTTTCTCGTGAAGGGGAATCAATCTTTCAATTTTGTCATT
1 CTTGACTTTCTCATAAAGAGGAGTCAATCTTTTAGTGATGTCATT
* *
7037 CTTGACTTTCTCATGAAGAGGAGTCAATCTTTCAGT-ATTGTCATT
1 CTTGACTTTCTCATAAAGAGGAGTCAATCTTTTAGTGA-TGTCATT
* * * * * *
7082 CTTGACTTCCTCATAAAGGGGAGTCAATCGTTTAGTGTTTTCCTT
1 CTTGACTTTCTCATAAAGAGGAGTCAATCTTTTAGTGATGTCATT
* * *
7127 CTTGACTTTCTCATAAAGATGAGTCAACCTTTTAGTGATGTTATT
1 CTTGACTTTCTCATAAAGAGGAGTCAATCTTTTAGTGATGTCATT
* ** * * * *
7172 ATTGACTTTCTCGCAAAGAGGAGCCGATCTTCTAGTGTTGTCATT
1 CTTGACTTTCTCATAAAGAGGAGTCAATCTTTTAGTGATGTCATT
** * *
7217 CTT-ACTTTCTC-TCAAAGATTAGTCAACCTTTTAGTGATGTGATT
1 CTTGACTTTCTCAT-AAAGAGGAGTCAATCTTTTAGTGATGTCATT
* * ** * * *
7261 TTTGAGTTTCTTGTGAAA-TGGAGTTAACCTTTTAGTGATGTCATT
1 CTTGACTTTCTCAT-AAAGAGGAGTCAATCTTTTAGTGATGTCATT
** * *
7306 CTTGACTTTCTCACGAAGAGGATTCAACCTTTTAGTGATGTCATT
1 CTTGACTTTCTCATAAAGAGGAGTCAATCTTTTAGTGATGTCATT
** *
7351 CTTGACTTTCTCGCAAAGAGGAGTCAATCTTTTAGTGATTTCATT
1 CTTGACTTTCTCATAAAGAGGAGTCAATCTTTTAGTGATGTCATT
*
7396 CTTAACTT
1 CTTGACTT
7404 GACTTTCTCG
Statistics
Matches: 370, Mismatches: 81, Indels: 12
0.80 0.17 0.03
Matches are distributed among these distances:
44 35 0.09
45 331 0.89
46 4 0.01
ACGTcount: A:0.25, C:0.17, G:0.18, T:0.41
Consensus pattern (45 bp):
CTTGACTTTCTCATAAAGAGGAGTCAATCTTTTAGTGATGTCATT
Found at i:8627 original size:129 final size:130
Alignment explanation
Indices: 8490--8733 Score: 329
Period size: 129 Copynumber: 1.9 Consensus size: 130
8480 TTTCCTCCAT
* *
8490 ATTTGATCTTCCCTGAAGAGCAGTGGAACAAATCTTC-CTCAATTCAATCTT-CCTTGAAA-AGT
1 ATTTGATCTTCCCTGAAGAACAGTGGAACAAATCTTCAC-CAATTCAATCTTACC-T-AAAGAAT
* *
8552 AGT-AAAGTGAATCAA-ACTTTCCAGATTTGATCTACCCTAGAA-CGCAGCAGAGATGATCCCTT
63 AGTAAAAGTGAATCAACA-TTTCCAGATCTGATCTACCCT-GAAGAGCAGCAGAGATGATCCCTT
8614 TTTAG
126 TTTAG
* * *
8619 ATTTGATCTTCCCTGAATAACAGTGGAGCAAATCTTCACCGATTCAATCTTACCTAAAGAATAGT
1 ATTTGATCTTCCCTGAAGAACAGTGGAACAAATCTTCACCAATTCAATCTTACCTAAAGAATAGT
*
8684 AAAATTGAATCAACATTTCCAGATCTGATCTACCCTGAAGAGCAGCAGAG
66 AAAAGTGAATCAACATTTCCAGATCTGATCTACCCTGAAGAGCAGCAGAG
8734 CAATTCCTTT
Statistics
Matches: 101, Mismatches: 8, Indels: 11
0.84 0.07 0.09
Matches are distributed among these distances:
128 3 0.03
129 54 0.53
130 43 0.43
131 1 0.01
ACGTcount: A:0.34, C:0.22, G:0.16, T:0.29
Consensus pattern (130 bp):
ATTTGATCTTCCCTGAAGAACAGTGGAACAAATCTTCACCAATTCAATCTTACCTAAAGAATAGT
AAAAGTGAATCAACATTTCCAGATCTGATCTACCCTGAAGAGCAGCAGAGATGATCCCTTTTTAG
Found at i:8743 original size:129 final size:130
Alignment explanation
Indices: 8490--8761 Score: 326
Period size: 129 Copynumber: 2.1 Consensus size: 130
8480 TTTCCTCCAT
* *
8490 ATTTGATCTTCCCTGAAGAGCAGTGGAACAAATCTTCCTCAATTCAATCTTCCTTGAAAAGTAGT
1 ATTTGATCTTCCCTGAAGAACAGTGGAACAAATCTTCCTCAATTCAATCTTCCTTGAAAAATAGT
* *
8555 AAAGTGAATCAAACTTTCCAGATTTGATCTACCCTAGAACGCAGCAGAGATGATCCCTTTT-T-A
66 AAAGTGAATCAAACTTTCCAGATCTGATCTACCCTAGAAAGCAGCAGAGA-GATCCCTTTTCTAA
8618 G
130 G
* * *
8619 ATTTGATCTTCCCTGAATAACAGTGGAGCAAATCTTCAC-CGATTCAATCTTACC-T-AAAGAAT
1 ATTTGATCTTCCCTGAAGAACAGTGGAACAAATCTTC-CTCAATTCAATCTT-CCTTGAAA-AAT
* *
8681 AGTAAAATTGAATC-AACATTTCCAGATCTGATCTACCCT-GAAGAGCAGCAGAGCA-ATTCCTT
63 AGT-AAAGTGAATCAAAC-TTTCCAGATCTGATCTACCCTAGAA-AGCAGCAGAG-AGATCCCTT
8743 TTCCTAAG
124 TT-CTAAG
8751 ATTTGATCTTC
1 ATTTGATCTTC
8762 AAAAATATCT
Statistics
Matches: 124, Mismatches: 9, Indels: 17
0.83 0.06 0.11
Matches are distributed among these distances:
128 3 0.02
129 65 0.52
130 41 0.33
131 2 0.02
132 13 0.10
ACGTcount: A:0.32, C:0.22, G:0.15, T:0.31
Consensus pattern (130 bp):
ATTTGATCTTCCCTGAAGAACAGTGGAACAAATCTTCCTCAATTCAATCTTCCTTGAAAAATAGT
AAAGTGAATCAAACTTTCCAGATCTGATCTACCCTAGAAAGCAGCAGAGAGATCCCTTTTCTAAG
Found at i:18338 original size:21 final size:21
Alignment explanation
Indices: 18309--18358 Score: 73
Period size: 21 Copynumber: 2.4 Consensus size: 21
18299 TGATTTATTA
*
18309 TTATAGATTTCAAATTGGTTG
1 TTATGGATTTCAAATTGGTTG
* *
18330 TTATGGATTTCAAGTTTGTTG
1 TTATGGATTTCAAATTGGTTG
18351 TTATGGAT
1 TTATGGAT
18359 GTCATGTTTA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.24, C:0.04, G:0.22, T:0.50
Consensus pattern (21 bp):
TTATGGATTTCAAATTGGTTG
Found at i:18367 original size:21 final size:21
Alignment explanation
Indices: 18326--18367 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
18316 TTTCAAATTG
*
18326 GTTGTTATGGATTTCAAGTTT
1 GTTGTTATGGATGTCAAGTTT
*
18347 GTTGTTATGGATGTCATGTTT
1 GTTGTTATGGATGTCAAGTTT
18368 ATTGGATAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.17, C:0.05, G:0.26, T:0.52
Consensus pattern (21 bp):
GTTGTTATGGATGTCAAGTTT
Found at i:21598 original size:3 final size:3
Alignment explanation
Indices: 21514--21580 Score: 75
Period size: 3 Copynumber: 22.0 Consensus size: 3
21504 CATTTGTGTT
*
21514 TTA TTA TTTA TTTA TTTA TTA TAA TTA TT- TTA TTA -TA TTA TTA TTA
1 TTA TTA -TTA -TTA -TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
*
21560 TTA TTA TTA TTA TTT TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA
21581 AATAATAAAT
Statistics
Matches: 57, Mismatches: 4, Indels: 6
0.85 0.06 0.09
Matches are distributed among these distances:
2 4 0.07
3 42 0.74
4 11 0.19
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:23173 original size:17 final size:19
Alignment explanation
Indices: 23153--23189 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
23143 TTTTAAATAA
23153 ATAAA-TAT-ATTACTTTT
1 ATAAATTATAATTACTTTT
*
23170 ATAAATTATAATTATTTTT
1 ATAAATTATAATTACTTTT
23189 A
1 A
23190 GATAAATGTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
17 5 0.29
18 3 0.18
19 9 0.53
ACGTcount: A:0.43, C:0.03, G:0.00, T:0.54
Consensus pattern (19 bp):
ATAAATTATAATTACTTTT
Found at i:23882 original size:30 final size:30
Alignment explanation
Indices: 23818--23882 Score: 75
Period size: 28 Copynumber: 2.2 Consensus size: 30
23808 CTTTTCAATT
*
23818 TTTTTATATATACTTATTATTTTTATCATA
1 TTTTTATATATACTTATTATTTTTATAATA
23848 --TTTATATATA-TTATT-TTTTTATTAATGA
1 TTTTTATATATACTTATTATTTTTA-TAAT-A
23876 TTTTTAT
1 TTTTTAT
23883 TTTATTTTCA
Statistics
Matches: 30, Mismatches: 1, Indels: 8
0.77 0.03 0.21
Matches are distributed among these distances:
26 6 0.20
27 8 0.27
28 11 0.37
30 5 0.17
ACGTcount: A:0.29, C:0.03, G:0.02, T:0.66
Consensus pattern (30 bp):
TTTTTATATATACTTATTATTTTTATAATA
Found at i:34515 original size:7 final size:7
Alignment explanation
Indices: 34503--34528 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
34493 GTGGTTTTGC
34503 TATGAAT
1 TATGAAT
34510 TATGAAT
1 TATGAAT
34517 TATGAAT
1 TATGAAT
34524 TATGA
1 TATGA
34529 TATGTGAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.42, C:0.00, G:0.15, T:0.42
Consensus pattern (7 bp):
TATGAAT
Found at i:34605 original size:16 final size:15
Alignment explanation
Indices: 34579--34609 Score: 53
Period size: 16 Copynumber: 2.0 Consensus size: 15
34569 TTCTAAAGTG
34579 TATTTTGAAAGTGTA
1 TATTTTGAAAGTGTA
34594 TATTTATGAAAGTGTA
1 TATTT-TGAAAGTGTA
34610 AATGGGATGA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 5 0.33
16 10 0.67
ACGTcount: A:0.35, C:0.00, G:0.19, T:0.45
Consensus pattern (15 bp):
TATTTTGAAAGTGTA
Found at i:43133 original size:26 final size:26
Alignment explanation
Indices: 43101--43156 Score: 112
Period size: 26 Copynumber: 2.2 Consensus size: 26
43091 CATGAGAAAA
43101 ATTGTCATAAGAGGATTTTGATAAAT
1 ATTGTCATAAGAGGATTTTGATAAAT
43127 ATTGTCATAAGAGGATTTTGATAAAT
1 ATTGTCATAAGAGGATTTTGATAAAT
43153 ATTG
1 ATTG
43157 CCTCCGCAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.38, C:0.04, G:0.20, T:0.39
Consensus pattern (26 bp):
ATTGTCATAAGAGGATTTTGATAAAT
Found at i:46112 original size:17 final size:17
Alignment explanation
Indices: 46087--46139 Score: 70
Period size: 17 Copynumber: 3.1 Consensus size: 17
46077 AATTAAGACT
46087 TAATTTAATAAATGAAC
1 TAATTTAATAAATGAAC
* * *
46104 TAGTTTAATGAATGAAA
1 TAATTTAATAAATGAAC
*
46121 TAATTTAATTAATGAAC
1 TAATTTAATAAATGAAC
46138 TA
1 TA
46140 CTTCCCTAAA
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
17 30 1.00
ACGTcount: A:0.49, C:0.04, G:0.09, T:0.38
Consensus pattern (17 bp):
TAATTTAATAAATGAAC
Found at i:46152 original size:38 final size:34
Alignment explanation
Indices: 46087--46166 Score: 81
Period size: 34 Copynumber: 2.2 Consensus size: 34
46077 AATTAAGACT
* *
46087 TAATTTAATAAATGAACTAGTTTAATGAATGAA-A
1 TAATTTAATAAATGAACTACTTTAATGAA-CAAGA
*
46121 TAATTTAATTAATGAACTACTTCCCTAAATGAACAAGA
1 TAATTTAATAAATGAACTACTT---T-AATGAACAAGA
46159 TAATTTAA
1 TAATTTAA
46167 ATGCAATGCA
Statistics
Matches: 38, Mismatches: 3, Indels: 6
0.81 0.06 0.13
Matches are distributed among these distances:
34 20 0.53
37 3 0.08
38 15 0.39
ACGTcount: A:0.47, C:0.09, G:0.09, T:0.35
Consensus pattern (34 bp):
TAATTTAATAAATGAACTACTTTAATGAACAAGA
Found at i:50699 original size:17 final size:17
Alignment explanation
Indices: 50669--50718 Score: 64
Period size: 17 Copynumber: 2.9 Consensus size: 17
50659 TAAGAGTTAA
* *
50669 TTTAATAAAAGAACTAG
1 TTTAATGAATGAACTAG
*
50686 TTTGATGAATGAACTAG
1 TTTAATGAATGAACTAG
*
50703 TTTAATTAATGAACTA
1 TTTAATGAATGAACTA
50719 CTTCCCTAAA
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
17 28 1.00
ACGTcount: A:0.44, C:0.06, G:0.14, T:0.36
Consensus pattern (17 bp):
TTTAATGAATGAACTAG
Found at i:59229 original size:23 final size:24
Alignment explanation
Indices: 59173--59229 Score: 64
Period size: 23 Copynumber: 2.4 Consensus size: 24
59163 AAATAAATTC
*
59173 TTTATATATTTTATAAAATTAATA
1 TTTATATATTCTATAAAATTAATA
* *
59197 TTAATTTATTCTA-AAAATTAA-A
1 TTTATATATTCTATAAAATTAATA
59219 TTTATGATATT
1 TTTAT-ATATT
59230 TATTTATGAT
Statistics
Matches: 27, Mismatches: 5, Indels: 3
0.77 0.14 0.09
Matches are distributed among these distances:
22 5 0.19
23 12 0.44
24 10 0.37
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.53
Consensus pattern (24 bp):
TTTATATATTCTATAAAATTAATA
Found at i:60189 original size:13 final size:13
Alignment explanation
Indices: 60171--60195 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
60161 TTCCATCGCT
60171 GTTACCTAGAAGC
1 GTTACCTAGAAGC
60184 GTTACCTAGAAG
1 GTTACCTAGAAG
60196 TATGCGTATA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.20, G:0.24, T:0.24
Consensus pattern (13 bp):
GTTACCTAGAAGC
Found at i:60304 original size:27 final size:27
Alignment explanation
Indices: 60274--60331 Score: 75
Period size: 27 Copynumber: 2.1 Consensus size: 27
60264 AAGATGAATA
60274 AGACAACAA-CGAAAGAGAAA-ATGAGCG
1 AGACAACAACCG-AAGAGAAAGATG-GCG
*
60301 AGACAACAACCGCAGAGAAAGATGGCG
1 AGACAACAACCGAAGAGAAAGATGGCG
60328 AGAC
1 AGAC
60332 GACGGAGAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
27 23 0.82
28 5 0.18
ACGTcount: A:0.50, C:0.19, G:0.28, T:0.03
Consensus pattern (27 bp):
AGACAACAACCGAAGAGAAAGATGGCG
Found at i:60341 original size:21 final size:22
Alignment explanation
Indices: 60315--60355 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
60305 AACAACCGCA
*
60315 GAGAAAGATG-GCGAGACGACG
1 GAGAAAGATGAGCGAAACGACG
60336 GAGAAAGATGAGCGAAACGA
1 GAGAAAGATGAGCGAAACGA
60356 AAGCGACAGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 10 0.56
22 8 0.44
ACGTcount: A:0.44, C:0.12, G:0.39, T:0.05
Consensus pattern (22 bp):
GAGAAAGATGAGCGAAACGACG
Found at i:60347 original size:49 final size:49
Alignment explanation
Indices: 60288--60383 Score: 124
Period size: 49 Copynumber: 2.0 Consensus size: 49
60278 AACAACGAAA
* *
60288 GAGAAAATGAGCGAGACAACAACCG-CAGAGAAAGATG-GCGAGACGACG
1 GAGAAAATGAGCGAAACAA-AACCGACAGAGAAAGATGAGCAAGACGACG
* *
60336 GAGAAAGATGAGCGAAACGAAAGCGACAGAGAAAGATGAGCAAGACGA
1 GAGAAA-ATGAGCGAAACAAAACCGACAGAGAAAGATGAGCAAGACGA
60384 TATTGTAGAC
Statistics
Matches: 41, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
48 10 0.24
49 23 0.56
50 8 0.20
ACGTcount: A:0.47, C:0.16, G:0.33, T:0.04
Consensus pattern (49 bp):
GAGAAAATGAGCGAAACAAAACCGACAGAGAAAGATGAGCAAGACGACG
Found at i:63390 original size:42 final size:42
Alignment explanation
Indices: 63331--63416 Score: 172
Period size: 42 Copynumber: 2.0 Consensus size: 42
63321 TAGCAATACC
63331 GATTTATGGGAAAAAGGGGCTTGGCGTTGGAGTCTCGGAAGT
1 GATTTATGGGAAAAAGGGGCTTGGCGTTGGAGTCTCGGAAGT
63373 GATTTATGGGAAAAAGGGGCTTGGCGTTGGAGTCTCGGAAGT
1 GATTTATGGGAAAAAGGGGCTTGGCGTTGGAGTCTCGGAAGT
63415 GA
1 GA
63417 GAAGATAAAG
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 44 1.00
ACGTcount: A:0.24, C:0.09, G:0.41, T:0.26
Consensus pattern (42 bp):
GATTTATGGGAAAAAGGGGCTTGGCGTTGGAGTCTCGGAAGT
Found at i:63734 original size:29 final size:30
Alignment explanation
Indices: 63700--63772 Score: 80
Period size: 29 Copynumber: 2.5 Consensus size: 30
63690 TGTAATTACT
* *
63700 TTTTAGTCATTTTAGTTT-TGTTTATTT-CA
1 TTTTAGTCATTTAAATTTCTGTTT-TTTCCA
*
63729 TTTTAGTCCTTTAAATTTCTGTTTTTTCCA
1 TTTTAGTCATTTAAATTTCTGTTTTTTCCA
63759 TTTTAGGTC-TTTAA
1 TTTTA-GTCATTTAA
63773 CCTTTTGCTT
Statistics
Matches: 38, Mismatches: 3, Indels: 5
0.83 0.07 0.11
Matches are distributed among these distances:
29 18 0.47
30 17 0.45
31 3 0.08
ACGTcount: A:0.18, C:0.11, G:0.10, T:0.62
Consensus pattern (30 bp):
TTTTAGTCATTTAAATTTCTGTTTTTTCCA
Found at i:63813 original size:4 final size:4
Alignment explanation
Indices: 63804--63841 Score: 76
Period size: 4 Copynumber: 9.5 Consensus size: 4
63794 ATCTTTTACA
63804 TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TT
1 TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TT
63842 TATATATTTT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 34 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (4 bp):
TTAT
Found at i:67661 original size:95 final size:95
Alignment explanation
Indices: 67550--67906 Score: 428
Period size: 95 Copynumber: 3.7 Consensus size: 95
67540 AGATTATAAT
* * * * *
67550 ATTATATATATACAATAAAGCTTGAGCTATCCCTATAAAGCAATTGGTTAAACGCCCCGAATTTA
1 ATTATA-ATATACAATAAAGCTTGAGTTGTCCCTCTAGAGCAATTGGTTAAACGCCCCGACTTTA
*
67615 TGGATAAGATTTAGCTAGCCTGATAAAGGTG
65 TGGATAAGATTCAGCTAGCCTGATAAAGGTG
* *
67646 ATTATAATATACAATAAAGCTTGAGTTGTCCCTCTAGAGAAATTGGTTAAACGCCCCGGCTTTAT
1 ATTATAATATACAATAAAGCTTGAGTTGTCCCTCTAGAGCAATTGGTTAAACGCCCCGACTTTAT
*
67711 GGATAAGATTCAGCTAGCCTGATAAAAGTG
66 GGATAAGATTCAGCTAGCCTGATAAAGGTG
* * ** * *
67741 ATTATAATATACAATAAAGCTCGAGTTGTCCCTCTAGAGCAATTGGTTAAATGCCTTGTCTATAT
1 ATTATAATATACAATAAAGCTTGAGTTGTCCCTCTAGAGCAATTGGTTAAACGCCCCGACTTTAT
* ** *
67806 GGATAATATTCAAATAGCCTGATAAAGATG
66 GGATAAGATTCAGCTAGCCTGATAAAGGTG
* * * * * * *
67836 ATTATAATAT-CTATACAACGATATTGAGATGTCCCTCTAGAGCAGTTGGTTAAACTCCCTGGCT
1 ATTATAATATACAATA-AA-G--CTTGAGTTGTCCCTCTAGAGCAATTGGTTAAACGCCCCGACT
67900 TTATGGA
62 TTATGGA
67907 CTCAATTTGC
Statistics
Matches: 226, Mismatches: 31, Indels: 6
0.86 0.12 0.02
Matches are distributed among these distances:
94 4 0.02
95 175 0.77
96 7 0.03
98 40 0.18
ACGTcount: A:0.34, C:0.16, G:0.18, T:0.31
Consensus pattern (95 bp):
ATTATAATATACAATAAAGCTTGAGTTGTCCCTCTAGAGCAATTGGTTAAACGCCCCGACTTTAT
GGATAAGATTCAGCTAGCCTGATAAAGGTG
Found at i:69110 original size:84 final size:84
Alignment explanation
Indices: 69010--69627 Score: 702
Period size: 84 Copynumber: 7.4 Consensus size: 84
69000 GCTAACACCG
* * * * *
69010 AGACCTTCGAGTTCGATTACAGTCAGCTTAAAGGCACATCATTTACAGTATAGCTAAAGGCAAAA
1 AGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTACAGTATAACTCAAGGCAAGA
69075 AGGGTTATCTGCCAACAAA
66 AGGGTTATCTGCCAACAAA
* * * * * ** *
69094 AGACATTCAAGTTCGATTACACTCAGCTCAAAGTCACATCATTTGCAGCATAACTCAATACTAGA
1 AGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTACAGTATAACTCAAGGCAAGA
*
69159 AGGGTTATCTACCAACAAA
66 AGGGTTATCTGCCAACAAA
* * * * *
69178 AGACCTTCGAGTTCGATTACACTCAGCTCAAAGGAACATCATTTGCAATATAACTCAA-GTATAT
1 AGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTACAGTATAACTCAAGGCA-AG
*
69242 AAGGGTTATCTGCCAACACA
65 AAGGGTTATCTGCCAACAAA
* * * *
69262 AGACCTTCGAGTTCGATTACACTCAGCTCAAATGCGCATCATTTACAATATAAATCAAGGCAAGA
1 AGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTACAGTATAACTCAAGGCAAGA
* * **
69327 AGGGCTATCTACCAGTAAA
66 AGGGTTATCTGCCAACAAA
* * * *
69346 AGACCTTCAAGTTCGATTACACTCAGCTCTAAGGCACATCATTTACA-TCATAACTCAAGGCGAT
1 AGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTACAGT-ATAACTCAAGGCAAG
* *
69410 AAGGGTTATCTGTCAATAAA
65 AAGGGTTATCTGCCAACAAA
* * * ** * * *
69430 AAACCTTCGAGTTCAATTACACTCAGCTCAAAGGCATATCATTTGTAGCATAGCTCAAGGCGAGA
1 AGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTACAGTATAACTCAAGGCAAGA
* * * **
69495 ATGGCTATATATCAACAAA
66 AGGGTTATCTGCCAACAAA
* * * * *
69514 AGACCTTCGAGTTCGAATACACTCAGCTCCAAGGCACATCATTTACAGCATAGCTCAAGGCGAGA
1 AGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTACAGTATAACTCAAGGCAAGA
*
69579 AGGGTTATCTGCCAATAAA
66 AGGGTTATCTGCCAACAAA
* *
69598 A-ACCTTCGAGTTCGATTCCATTCAGCTCAA
1 AGACCTTCGAGTTCGATTACACTCAGCTCAA
69628 GGGTATATTA
Statistics
Matches: 449, Mismatches: 81, Indels: 9
0.83 0.15 0.02
Matches are distributed among these distances:
83 26 0.06
84 421 0.94
85 2 0.00
ACGTcount: A:0.36, C:0.23, G:0.17, T:0.25
Consensus pattern (84 bp):
AGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTACAGTATAACTCAAGGCAAGA
AGGGTTATCTGCCAACAAA
Found at i:69416 original size:252 final size:251
Alignment explanation
Indices: 68986--69629 Score: 786
Period size: 252 Copynumber: 2.6 Consensus size: 251
68976 TTTATCCGAC
* * * * *
68986 TATAAGAGTTATCTGCTAACACCGAGACCTTCGAGTTCGATTACAGTCAGCTTAAAGGCACATCA
1 TATAAGGGTTATCTGCCAACA-CAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCA
* * * *
69051 TTTACAGTATAGCTAAAGGCAAAAAGGGTTATCTGCCAACAAAAGACATTCAAGTTCGATTACAC
65 TTTACAGTATAGCTCAAGGCAAGAAGGGTTATCTGCCAATAAAAGACCTTCAAGTTCGATTACAC
* * * * *
69116 TCAGCTCAAAGTCACATCATTTGCAGCATAACTCAATACTAGAAGGGTTATCTACCAACAAAAGA
130 TCAGCTC-AAGGCACATCATTTACAGCATAACTCAAGACGAGAAGGGTTATCTACCAACAAAAAA
* * *
69181 CCTTCGAGTTCGATTACACTCAGCTCAAAGGAACATCATTTGCAATATAACTCAAGTA
194 CCTTCGAGTTCAATTACACTCAGCTCAAAGGAACATCATTTGCAACATAACTCAAGGA
* *
69239 TATAAGGGTTATCTGCCAACACAAGACCTTCGAGTTCGATTACACTCAGCTCAAATGCGCATCAT
1 TATAAGGGTTATCTGCCAACACAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCAT
* ** * * *
69304 TTACAATATAAATCAAGGCAAGAAGGGCTATCTACCAGTAAAAGACCTTCAAGTTCGATTACACT
66 TTACAGTATAGCTCAAGGCAAGAAGGGTTATCTGCCAATAAAAGACCTTCAAGTTCGATTACACT
* * * ** *
69369 CAGCTCTAAGGCACATCATTTACATCATAACTCAAGGCGATAAGGGTTATCTGTCAATAAAAAAC
131 CAGCTC-AAGGCACATCATTTACAGCATAACTCAAGACGAGAAGGGTTATCTACCAACAAAAAAC
* * * * * *
69434 CTTCGAGTTCAATTACACTCAGCTCAAAGGCATATCATTTGTAGCATAGCTCAAGGC
195 CTTCGAGTTCAATTACACTCAGCTCAAAGGAACATCATTTGCAACATAACTCAAGGA
* * * * * ** * * *
69491 GAGAATGGCTATATATCAACAAAAGACCTTCGAGTTCGAATACACTCAGCTCCAAGGCACATCAT
1 TATAAGGGTTATCTGCCAACACAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCAT
* * * * *
69556 TTACAGCATAGCTCAAGGCGAGAAGGGTTATCTGCCAATAAAA-ACCTTCGAGTTCGATTCCATT
66 TTACAGTATAGCTCAAGGCAAGAAGGGTTATCTGCCAATAAAAGACCTTCAAGTTCGATTACACT
69620 CAGCTCAAGG
131 CAGCTCAAGG
69630 GTATATTAAA
Statistics
Matches: 330, Mismatches: 61, Indels: 3
0.84 0.15 0.01
Matches are distributed among these distances:
250 4 0.01
251 24 0.07
252 283 0.86
253 19 0.06
ACGTcount: A:0.35, C:0.23, G:0.17, T:0.25
Consensus pattern (251 bp):
TATAAGGGTTATCTGCCAACACAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCAT
TTACAGTATAGCTCAAGGCAAGAAGGGTTATCTGCCAATAAAAGACCTTCAAGTTCGATTACACT
CAGCTCAAGGCACATCATTTACAGCATAACTCAAGACGAGAAGGGTTATCTACCAACAAAAAACC
TTCGAGTTCAATTACACTCAGCTCAAAGGAACATCATTTGCAACATAACTCAAGGA
Found at i:69680 original size:85 final size:82
Alignment explanation
Indices: 69012--69699 Score: 444
Period size: 84 Copynumber: 8.2 Consensus size: 82
69002 TAACACCGAG
* * * * * *
69012 ACCTTCGAGTTCGATTACAGTCAGCTTAAAGGCACATCATTTACAGTATAGCTAAAGGC-AAAAA
1 ACCTTCGAGTTCGATTACACTCAGC-TCAAGGCATATCATTTACAGCATAGCTCAAGGCGAGAAA
* * * *
69076 GGGTTATCTGCCAACAAAA
65 -GGCTATATGTCAATAAAA
* * * * * * ** *
69095 GACATTCAAGTTCGATTACACTCAGCTCAAAGTCACATCATTTGCAGCATAACTCAATACTAGAA
1 -ACCTTCGAGTTCGATTACACTCAGCTC-AAGGCATATCATTTACAGCATAGCTCAAGGCGAGAA
* * * ** *
69160 GGGTTATCTACCAACAAAA
64 AGGCTATATGTCAATAAAA
* * * ** * *** *
69179 GACCTTCGAGTTCGATTACACTCAGCTCAAAGGAACATCATTTGCAATATAACTCAAGTATATAA
1 -ACCTTCGAGTTCGATTACACTCAGCTC-AAGGCATATCATTTACAGCATAGCTCAAGGCGAGAA
* * * * * *
69244 GGGTTATCTGCCAACACAAG
64 AGGCTATATGTCAATA-AAA
* ** ** ** * *
69264 ACCTTCGAGTTCGATTACACTCAGCTCAAATGCGCATCATTTACAATATAAATCAAGGCAAGAAG
1 ACCTTCGAGTTCGATTACACTCAGCTC-AAGGCATATCATTTACAGCATAGCTCAAGGCGAGAAA
* ** *
69329 GGCTATCTACCAGTAAAA
65 GGCTATATGTCAATAAAA
* * * * *
69347 GACCTTCAAGTTCGATTACACTCAGCTCTAAGGCACATCATTTACATCATAACTCAAGGCGATAA
1 -ACCTTCGAGTTCGATTACACTCAGCTC-AAGGCATATCATTTACAGCATAGCTCAAGGCGAGAA
* * *
69412 GGGTTATCTGTCAATAAAAA
64 AGGCTATATGTCAAT-AAAA
* ** *
69432 ACCTTCGAGTTCAATTACACTCAGCTCAAAGGCATATCATTTGTAGCATAGCTCAAGGCGAGAAT
1 ACCTTCGAGTTCGATTACACTCAGCTC-AAGGCATATCATTTACAGCATAGCTCAAGGCGAGAAA
* *
69497 GGCTATATATCAACAAAA
65 GGCTATATGTCAATAAAA
* *
69515 GACCTTCGAGTTCGAATACACTCAGCTCCAAGGCACATCATTTACAGCATAGCTCAAGGCGAGAA
1 -ACCTTCGAGTTCGATTACACTCAGCT-CAAGGCATATCATTTACAGCATAGCTCAAGGCGAGAA
* * * *
69580 GGGTTATCTGCCAATAAAA
64 AGGCTATATGTCAATAAAA
* * * * * * *
69599 ACCTTCGAGTTCGATTCCATTCAGCTCAAGGGTATATTAAATTTACAGTATAGCTTAAGTCGAGA
1 ACCTTCGAGTTCGATTACACTCAGCTCAA-GGCATA-T-CATTTACAGCATAGCTCAAGGCGAGA
* *
69664 AAAGCTATTTGTCAATAAAA
63 AAGGCTATATGTCAATAAAA
*
69684 A-TTGTCGAGTTCGATT
1 ACCT-TCGAGTTCGATT
69700 CCATTCAACT
Statistics
Matches: 500, Mismatches: 93, Indels: 21
0.81 0.15 0.03
Matches are distributed among these distances:
82 3 0.01
83 34 0.07
84 403 0.81
85 60 0.12
ACGTcount: A:0.36, C:0.22, G:0.17, T:0.26
Consensus pattern (82 bp):
ACCTTCGAGTTCGATTACACTCAGCTCAAGGCATATCATTTACAGCATAGCTCAAGGCGAGAAAG
GCTATATGTCAATAAAA
Found at i:71530 original size:30 final size:29
Alignment explanation
Indices: 71496--71559 Score: 74
Period size: 30 Copynumber: 2.2 Consensus size: 29
71486 TGTAATTACT
* * *
71496 TTTTACTCATTTTAGTTTCTGTTTATTTCA
1 TTTTACTCATTTAAATTTCTGTTT-TTCCA
* *
71526 TTTTAGTCCTTTAAATTTCTGTTTTTCCA
1 TTTTACTCATTTAAATTTCTGTTTTTCCA
71555 TTTTA
1 TTTTA
71560 GGTCTTTAAC
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
29 9 0.31
30 20 0.69
ACGTcount: A:0.17, C:0.14, G:0.06, T:0.62
Consensus pattern (29 bp):
TTTTACTCATTTAAATTTCTGTTTTTCCA
Found at i:71557 original size:29 final size:30
Alignment explanation
Indices: 71511--71568 Score: 84
Period size: 29 Copynumber: 2.0 Consensus size: 30
71501 CTCATTTTAG
*
71511 TTTCTGTTTATTTCATTTTA-GTCCTTTAAA
1 TTTCTGTTTATTCCATTTTAGGT-CTTTAAA
71541 TTTCTGTTT-TTCCATTTTAGGTCTTTAA
1 TTTCTGTTTATTCCATTTTAGGTCTTTAA
71569 CCTTTTGTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
29 15 0.58
30 11 0.42
ACGTcount: A:0.17, C:0.14, G:0.09, T:0.60
Consensus pattern (30 bp):
TTTCTGTTTATTCCATTTTAGGTCTTTAAA
Found at i:71622 original size:26 final size:25
Alignment explanation
Indices: 71593--71647 Score: 67
Period size: 26 Copynumber: 2.2 Consensus size: 25
71583 TATTTTGATC
71593 TTTTACATTATT-TATTTATTTATTT
1 TTTTACATT-TTATATTTATTTATTT
* *
71618 ATTTTATATTTTATATTTTTTTATTT
1 -TTTTACATTTTATATTTATTTATTT
71644 TTTT
1 TTTT
71648 CTTTTAATTT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
25 6 0.23
26 20 0.77
ACGTcount: A:0.22, C:0.02, G:0.00, T:0.76
Consensus pattern (25 bp):
TTTTACATTTTATATTTATTTATTT
Found at i:71635 original size:30 final size:28
Alignment explanation
Indices: 71601--71671 Score: 81
Period size: 30 Copynumber: 2.4 Consensus size: 28
71591 TCTTTTACAT
71601 TATTTATTTATTTATTTATTTTATATTTTA
1 TATTT-TTTATTTATTTATTTTA-ATTTTA
* *
71631 TATTTTTTTATTTTTTTCTTTTAATTTTA
1 TA-TTTTTTATTTATTTATTTTAATTTTA
71660 -ATGTTTTTATTT
1 TAT-TTTTTATTT
71672 CCTTTAACAT
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
27 1 0.03
28 10 0.27
29 6 0.16
30 17 0.46
31 3 0.08
ACGTcount: A:0.21, C:0.01, G:0.01, T:0.76
Consensus pattern (28 bp):
TATTTTTTATTTATTTATTTTAATTTTA
Found at i:71644 original size:7 final size:7
Alignment explanation
Indices: 71600--71671 Score: 56
Period size: 8 Copynumber: 9.9 Consensus size: 7
71590 ATCTTTTACA
71600 TTATTTAT
1 TTATTT-T
71608 TTATTTAT
1 TTATTT-T
71616 TTATTTT
1 TTATTTT
*
71623 ATATTTT
1 TTATTTT
*
71630 ATATTTTT
1 TTA-TTTT
71638 TTATTTT
1 TTATTTT
*
71645 TT-TCTT
1 TTATTTT
*
71651 TTAATTT
1 TTATTTT
*
71658 TAATGTTT
1 TTAT-TTT
71666 TTATTT
1 TTATTT
71672 CCTTTAACAT
Statistics
Matches: 53, Mismatches: 8, Indels: 7
0.78 0.12 0.10
Matches are distributed among these distances:
6 5 0.09
7 22 0.42
8 26 0.49
ACGTcount: A:0.21, C:0.01, G:0.01, T:0.76
Consensus pattern (7 bp):
TTATTTT
Found at i:73247 original size:14 final size:14
Alignment explanation
Indices: 73208--73250 Score: 77
Period size: 14 Copynumber: 3.1 Consensus size: 14
73198 GAATTTGTAT
*
73208 TTTGTATCAACAAA
1 TTTGTATCAACGAA
73222 TTTGTATCAACGAA
1 TTTGTATCAACGAA
73236 TTTGTATCAACGAA
1 TTTGTATCAACGAA
73250 T
1 T
73251 GGATATGGGT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
14 28 1.00
ACGTcount: A:0.37, C:0.14, G:0.12, T:0.37
Consensus pattern (14 bp):
TTTGTATCAACGAA
Found at i:79735 original size:20 final size:21
Alignment explanation
Indices: 79699--79737 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
79689 AAGACATGTG
79699 TGAGCTAAGATAATCATAATA
1 TGAGCTAAGATAATCATAATA
79720 TGAGCTAAGA-AATCATAA
1 TGAGCTAAGATAATCATAA
79738 AATACATGCT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 8 0.44
21 10 0.56
ACGTcount: A:0.49, C:0.10, G:0.15, T:0.26
Consensus pattern (21 bp):
TGAGCTAAGATAATCATAATA
Found at i:79748 original size:22 final size:21
Alignment explanation
Indices: 79701--79740 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
79691 GACATGTGTG
* *
79701 AGCTAAGATAATCATAATATG
1 AGCTAAGATAATCATAAAATC
79722 AGCTAAGA-AATCATAAAAT
1 AGCTAAGATAATCATAAAAT
79741 ACATGCTACC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 10 0.56
21 8 0.44
ACGTcount: A:0.53, C:0.10, G:0.12, T:0.25
Consensus pattern (21 bp):
AGCTAAGATAATCATAAAATC
Found at i:84376 original size:59 final size:59
Alignment explanation
Indices: 84284--84400 Score: 225
Period size: 59 Copynumber: 2.0 Consensus size: 59
84274 TGAGAACGTT
*
84284 TCGATATTTGCGTGACAAAGTTAAAACAAGAGTAACGGGCTGGACGAAGAGGCTTTTTG
1 TCGATATTTGCGTGACAAAGTTAAAACAAGAGTAACGGGCTGAACGAAGAGGCTTTTTG
84343 TCGATATTTGCGTGACAAAGTTAAAACAAGAGTAACGGGCTGAACGAAGAGGCTTTTT
1 TCGATATTTGCGTGACAAAGTTAAAACAAGAGTAACGGGCTGAACGAAGAGGCTTTTT
84401 TCTTATGGTT
Statistics
Matches: 57, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
59 57 1.00
ACGTcount: A:0.33, C:0.14, G:0.27, T:0.26
Consensus pattern (59 bp):
TCGATATTTGCGTGACAAAGTTAAAACAAGAGTAACGGGCTGAACGAAGAGGCTTTTTG
Found at i:89551 original size:2 final size:2
Alignment explanation
Indices: 89544--89582 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
89534 ATTTTAATCA
89544 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
89583 ATTTTTCTAA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:91662 original size:17 final size:16
Alignment explanation
Indices: 91640--91676 Score: 58
Period size: 17 Copynumber: 2.3 Consensus size: 16
91630 ATATGTTGTT
91640 TATTATTTATGTTATAA
1 TATTATTTAT-TTATAA
91657 TATTATTTATTTATAA
1 TATTATTTATTTATAA
91673 -ATTA
1 TATTA
91677 AATATACGTG
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
15 4 0.20
16 6 0.30
17 10 0.50
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (16 bp):
TATTATTTATTTATAA
Found at i:93340 original size:29 final size:29
Alignment explanation
Indices: 93298--93356 Score: 100
Period size: 29 Copynumber: 2.0 Consensus size: 29
93288 ATTTTACACA
93298 AATCTCAACTCCACAGCGGAGGATACTCG
1 AATCTCAACTCCACAGCGGAGGATACTCG
* *
93327 AATCTCAACTCCACAGTGGAGGATAGTCG
1 AATCTCAACTCCACAGCGGAGGATACTCG
93356 A
1 A
93357 TAAAAGATTC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.32, C:0.27, G:0.22, T:0.19
Consensus pattern (29 bp):
AATCTCAACTCCACAGCGGAGGATACTCG
Found at i:93600 original size:36 final size:36
Alignment explanation
Indices: 93553--93798 Score: 112
Period size: 38 Copynumber: 6.7 Consensus size: 36
93543 CTTATTTAGT
* ** *
93553 ATATATAGTTTTTAAAAATATTTTTTAAATTATATA
1 ATATATAGTTTTTAAAAATATTTTTGAAAGCAAATA
**
93589 ATATATAGTTTTTAGAAAACGGTTTTTGAAAGCAAATA
1 ATATATAGTTTTTA-AAAA-TATTTTTGAAAGCAAATA
* * *
93627 ATATATAATTTTTAAAAATCGGTTTTTGAAA--ATAT-
1 ATATATAGTTTTTAAAAAT--ATTTTTGAAAGCAAATA
* * * * *
93662 A-ATATGGTTTTGCAAAAACACGTTTTTGAAAACATATA
1 ATATATAGTTTT-TAAAAATA--TTTTTGAAAGCAAATA
* * * *
93700 TTATATAGTTTTGAAAACACATTTTTAAAAGCGTATAAT-
1 ATATATAGTTTTTAAAA-ATATTTTTGAAAGC--A-AATA
* **
93739 ATATATAG-TTTT-AAAATAGTTTTTGAAAACGTAT-
1 ATATATAGTTTTTAAAAATA-TTTTTGAAAGCAAATA
*
93773 ATAATATAGTTTTGAAAACATATTTT
1 AT-ATATAGTTTTTAAAA-ATATTTT
93799 GAATATATAT
Statistics
Matches: 162, Mismatches: 28, Indels: 39
0.71 0.12 0.17
Matches are distributed among these distances:
34 12 0.07
35 21 0.13
36 22 0.14
37 40 0.25
38 45 0.28
39 20 0.12
40 2 0.01
ACGTcount: A:0.42, C:0.05, G:0.10, T:0.43
Consensus pattern (36 bp):
ATATATAGTTTTTAAAAATATTTTTGAAAGCAAATA
Found at i:93615 original size:38 final size:35
Alignment explanation
Indices: 93553--93716 Score: 127
Period size: 38 Copynumber: 4.5 Consensus size: 35
93543 CTTATTTAGT
** *
93553 ATATATAGTTTTTAAAAA-TATTTTTTAAATTATATA
1 ATATATAGTTTTTAAAAACGGTTTTTGAAA--ATATA
*
93589 ATATATAGTTTTTAGAAAACGGTTTTTGAAAGCAAATA
1 ATATATAGTTTTTA-AAAACGGTTTTTGAAA--ATATA
*
93627 ATATATAATTTTTAAAAATCGGTTTTTGAAAATAT-
1 ATATATAGTTTTTAAAAA-CGGTTTTTGAAAATATA
* * *
93662 A-ATATGGTTTTGCAAAAACACGTTTTTGAAAACATATA
1 ATATATAGTTTT-TAAAAAC-GGTTTTTG-AAA-ATATA
* *
93700 TTATATAGTTTTGAAAA
1 ATATATAGTTTTTAAAA
93717 CACATTTTTA
Statistics
Matches: 104, Mismatches: 15, Indels: 16
0.77 0.11 0.12
Matches are distributed among these distances:
34 9 0.09
35 13 0.12
36 20 0.19
37 12 0.12
38 41 0.39
39 9 0.09
ACGTcount: A:0.43, C:0.04, G:0.10, T:0.43
Consensus pattern (35 bp):
ATATATAGTTTTTAAAAACGGTTTTTGAAAATATA
Found at i:93717 original size:37 final size:37
Alignment explanation
Indices: 93584--93792 Score: 157
Period size: 37 Copynumber: 5.6 Consensus size: 37
93574 TTTTTAAATT
* * *
93584 ATATAATATATAGTTTTTAGAAAAC-GGTTTTTGAAAGC
1 ATATATTATATAG-TTTT-GAAAACACGTTTTTGAAAAC
* * * *
93622 AAATAATATATAATTTTTAAAA-ATCGGTTTTTG-AAA-
1 ATATATTATATAGTTTTGAAAACA-C-GTTTTTGAAAAC
*
93658 ATATA--ATATGGTTTTGCAAAAACACGTTTTTGAAAAC
1 ATATATTATATAGTTTTG--AAAACACGTTTTTGAAAAC
*
93695 ATATATTATATAGTTTTGAAAACACATTTTT-AAAAGC
1 ATATATTATATAGTTTTGAAAACACGTTTTTGAAAA-C
* *
93732 GTATAATATATATAGTTTT-AAAATA-GTTTTTGAAAAC
1 ATAT-AT-TATATAGTTTTGAAAACACGTTTTTGAAAAC
* *
93769 GTATATAATATAGTTTTGAAAACA
1 ATATATTATATAGTTTTGAAAACA
93793 TATTTTGAAT
Statistics
Matches: 140, Mismatches: 16, Indels: 32
0.74 0.09 0.17
Matches are distributed among these distances:
34 8 0.06
35 17 0.12
36 27 0.19
37 38 0.27
38 29 0.21
39 21 0.15
ACGTcount: A:0.43, C:0.06, G:0.11, T:0.40
Consensus pattern (37 bp):
ATATATTATATAGTTTTGAAAACACGTTTTTGAAAAC
Found at i:93864 original size:17 final size:17
Alignment explanation
Indices: 93842--93883 Score: 68
Period size: 17 Copynumber: 2.5 Consensus size: 17
93832 AAACATATAT
93842 AAAATATA-TAGTTTTTG
1 AAAATATATTA-TTTTTG
93859 AAAATATATTATTTTTG
1 AAAATATATTATTTTTG
93876 AAAATATA
1 AAAATATA
93884 ATATATGTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
17 22 0.92
18 2 0.08
ACGTcount: A:0.48, C:0.00, G:0.07, T:0.45
Consensus pattern (17 bp):
AAAATATATTATTTTTG
Found at i:93911 original size:45 final size:44
Alignment explanation
Indices: 93782--93917 Score: 132
Period size: 45 Copynumber: 3.0 Consensus size: 44
93772 TATAATATAG
* * * *
93782 TTTTGAAAACATATTTTGAATATATATAGTTTTT-TTA-AAATGAT
1 TTTTGAAAACATA-TAT-AAAATATATAGTTTTTATTATATATTAT
**
93826 TTTTGAAAACATATATAAAATATATAGTTTTTGAAAATATATTAT
1 TTTTGAAAACATATATAAAATATATAGTTTTT-ATTATATATTAT
* ***
93871 TTTTGAAAATATAATATATGTTATATAGTTTTTATTATATATTAT
1 TTTTGAAAACAT-ATATAAAATATATAGTTTTTATTATATATTAT
93916 TT
1 TT
93918 ATATTGTTAT
Statistics
Matches: 76, Mismatches: 12, Indels: 7
0.80 0.13 0.07
Matches are distributed among these distances:
42 15 0.20
43 2 0.03
44 14 0.18
45 28 0.37
46 17 0.22
ACGTcount: A:0.40, C:0.01, G:0.07, T:0.51
Consensus pattern (44 bp):
TTTTGAAAACATATATAAAATATATAGTTTTTATTATATATTAT
Found at i:93919 original size:25 final size:25
Alignment explanation
Indices: 93891--93944 Score: 83
Period size: 25 Copynumber: 2.2 Consensus size: 25
93881 ATAATATATG
93891 TTATATAGTT-TTTATTATATATTAT
1 TTATATAGTTATTTATTAT-TATTAT
*
93916 TTATATTGTTATTTATTATTATTAT
1 TTATATAGTTATTTATTATTATTAT
93941 TTAT
1 TTAT
93945 TTAATTTTAT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
25 19 0.70
26 8 0.30
ACGTcount: A:0.30, C:0.00, G:0.04, T:0.67
Consensus pattern (25 bp):
TTATATAGTTATTTATTATTATTAT
Found at i:93940 original size:13 final size:13
Alignment explanation
Indices: 93901--93945 Score: 65
Period size: 13 Copynumber: 3.5 Consensus size: 13
93891 TTATATAGTT
93901 TTTATTATATATTA
1 TTTATTAT-TATTA
*
93915 TTTA-TATTGTTA
1 TTTATTATTATTA
93927 TTTATTATTATTA
1 TTTATTATTATTA
93940 TTTATT
1 TTTATT
93946 TAATTTTATT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
12 8 0.29
13 16 0.57
14 4 0.14
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.69
Consensus pattern (13 bp):
TTTATTATTATTA
Found at i:95220 original size:13 final size:14
Alignment explanation
Indices: 95197--95226 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
95187 TTAATCCAAG
95197 TTTCATTTTAATTC
1 TTTCATTTTAATTC
95211 TTTC-TTTTAATTC
1 TTTCATTTTAATTC
95224 TTT
1 TTT
95227 TTTATTATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 12 0.75
14 4 0.25
ACGTcount: A:0.17, C:0.13, G:0.00, T:0.70
Consensus pattern (14 bp):
TTTCATTTTAATTC
Found at i:98940 original size:24 final size:24
Alignment explanation
Indices: 98903--98968 Score: 64
Period size: 24 Copynumber: 2.8 Consensus size: 24
98893 TCAAGGAGAC
* *
98903 TCATTCGCTACAAAAGCAC-ACACT
1 TCATTGGCTGCAAAAGCACAAC-CT
*
98927 TCATCT-GCTGCAAAATCACAACCT
1 TCAT-TGGCTGCAAAAGCACAACCT
*
98951 TCATTGGTTGCAAAAGCA
1 TCATTGGCTGCAAAAGCA
98969 TAAGCTTCTG
Statistics
Matches: 35, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
23 1 0.03
24 31 0.89
25 3 0.09
ACGTcount: A:0.35, C:0.29, G:0.12, T:0.24
Consensus pattern (24 bp):
TCATTGGCTGCAAAAGCACAACCT
Found at i:99805 original size:55 final size:55
Alignment explanation
Indices: 99720--100574 Score: 882
Period size: 55 Copynumber: 15.8 Consensus size: 55
99710 TAAAATATAA
* * *
99720 GTGTGCAACCCCACAAAATTCATAATGAGTTTATGAATTTCTGTATTGGCACTAT
1 GTGTGCAACCCCACGAAATTCATAATGAGTTTGTGAATTTCCGTATTGGCACTAT
* * * * *
99775 ATGTGCAGCCCCACGAAATTCATAATGAGTTTATGAATTTTCGTATTGGCAATAT
1 GTGTGCAACCCCACGAAATTCATAATGAGTTTGTGAATTTCCGTATTGGCACTAT
*
99830 GTGTGCAACCCCACGAAATTCATAATGAGTTTATGAATTTCCGTATTGGCAC--T
1 GTGTGCAACCCCACGAAATTCATAATGAGTTTGTGAATTTCCGTATTGGCACTAT
* *
99883 GTGTACAACCCCACGAAATTCATAATGAGTTTATGAATTTCCGTATTGGCACTAT
1 GTGTGCAACCCCACGAAATTCATAATGAGTTTGTGAATTTCCGTATTGGCACTAT
* **
99938 GTGTGCAACCCCACGAAATTCATAATGAGTTTATGAATTTTTGTATTGGCACTAT
1 GTGTGCAACCCCACGAAATTCATAATGAGTTTGTGAATTTCCGTATTGGCACTAT
* * * * * * *
99993 GTGTGCAACCCTACGAAATTCATAATGAGTATATTAGTTTCCATATTGGCAATAT
1 GTGTGCAACCCCACGAAATTCATAATGAGTTTGTGAATTTCCGTATTGGCACTAT
* * *
100048 GTGTGTAACCCCACGAAATTCATAATAAGTTTATGAATTTCCGTATTGGCACTAT
1 GTGTGCAACCCCACGAAATTCATAATGAGTTTGTGAATTTCCGTATTGGCACTAT
* * * * * *
100103 GTGTGCAACCTCACTAAATCCATAATGAGTTTGTGAATTTTCGTATTGCCACTTT
1 GTGTGCAACCCCACGAAATTCATAATGAGTTTGTGAATTTCCGTATTGGCACTAT
* * * * * *
100158 GTGCGTAACCTCACGAAATT-ATTAATGAGTTTTTGAA--ACCGTATTGGGACTAT
1 GTGTGCAACCCCACGAAATTCA-TAATGAGTTTGTGAATTTCCGTATTGGCACTAT
* *
100211 GTGTGCAACCTCACGAAATTCATAATGAGTTTGTGAATTACCGTATT-GCGACTAT
1 GTGTGCAACCCCACGAAATTCATAATGAGTTTGTGAATTTCCGTATTGGC-ACTAT
* * * * * * * **
100266 GTGTGCAA-CCCACGTAGTTCATAATAAGTTTGTTAATTACTGTATTAGCAAAAT
1 GTGTGCAACCCCACGAAATTCATAATGAGTTTGTGAATTTCCGTATTGGCACTAT
* * * * *
100320 GTGTGCAA-CCTACGTAATTCACAATGAGTTTGTGAATTACCATATTGGCACTAT
1 GTGTGCAACCCCACGAAATTCATAATGAGTTTGTGAATTTCCGTATTGGCACTAT
* * * *
100374 GTGTGCAA-CCCAC-ATAACTT-ATAATTAGCTTGTGAATTACCATATTGGCACTAT
1 GTGTGCAACCCCACGA-AA-TTCATAATGAGTTTGTGAATTTCCGTATTGGCACTAT
* * * *
100428 GTGTGCAA-CCCAC-ATAATTCATAATGAG--TGTGAATTACCATATTGACATTAT
1 GTGTGCAACCCCACGA-AATTCATAATGAGTTTGTGAATTTCCGTATTGGCACTAT
* * * * * *
100480 GTGTGCAA-CCTACGTAATCCACAATGAGTTTGTGAATGAT-AGTATTGGCACTAT
1 GTGTGCAACCCCACGAAATTCATAATGAGTTTGTGAAT-TTCCGTATTGGCACTAT
* * * * * *
100534 ATGTG-TACCCCAAGGATTTCAAAATGAGTTTGTGAATTTCC
1 GTGTGCAACCCCACGAAATTCATAATGAGTTTGTGAATTTCC
100575 ATATGTGTAC
Statistics
Matches: 684, Mismatches: 99, Indels: 35
0.84 0.12 0.04
Matches are distributed among these distances:
52 45 0.07
53 99 0.14
54 195 0.29
55 345 0.50
ACGTcount: A:0.30, C:0.18, G:0.18, T:0.34
Consensus pattern (55 bp):
GTGTGCAACCCCACGAAATTCATAATGAGTTTGTGAATTTCCGTATTGGCACTAT
Found at i:99943 original size:108 final size:109
Alignment explanation
Indices: 99720--100574 Score: 844
Period size: 108 Copynumber: 7.9 Consensus size: 109
99710 TAAAATATAA
* * * *
99720 GTGTGCAACCCCACAAAATTCATAATGAGTTTATGAATTTCTGTATTGGCACTATATGTGCAGCC
1 GTGTGCAACCCCACGAAATTCATAATGAGTTTATGAATTTCCGTATTGGCAC-ATGTGTGCAACC
* * *
99785 CCACGAAATTCATAATGAGTTTATGAATTTTCGTATTGGCAATAT
65 CCACGAAATTCATAATGAGTTTGTGAATTTCCGTATTGGCACTAT
*
99830 GTGTGCAACCCCACGAAATTCATAATGAGTTTATGAATTTCCGTATTGGCAC-TGTGTACAACCC
1 GTGTGCAACCCCACGAAATTCATAATGAGTTTATGAATTTCCGTATTGGCACATGTGTGCAACCC
*
99894 CACGAAATTCATAATGAGTTTATGAATTTCCGTATTGGCACTAT
66 CACGAAATTCATAATGAGTTTGTGAATTTCCGTATTGGCACTAT
**
99938 GTGTGCAACCCCACGAAATTCATAATGAGTTTATGAATTTTTGTATTGGCACTATGTGTGCAACC
1 GTGTGCAACCCCACGAAATTCATAATGAGTTTATGAATTTCCGTATTGGCAC-ATGTGTGCAACC
* * * * * * *
100003 CTACGAAATTCATAATGAGTATATTAGTTTCCATATTGGCAATAT
65 CCACGAAATTCATAATGAGTTTGTGAATTTCCGTATTGGCACTAT
* *
100048 GTGTGTAACCCCACGAAATTCATAATAAGTTTATGAATTTCCGTATTGGCACTATGTGTGCAACC
1 GTGTGCAACCCCACGAAATTCATAATGAGTTTATGAATTTCCGTATTGGCAC-ATGTGTGCAACC
* * * * * *
100113 TCACTAAATCCATAATGAGTTTGTGAATTTTCGTATTGCCACTTT
65 CCACGAAATTCATAATGAGTTTGTGAATTTCCGTATTGGCACTAT
* * * * * *
100158 GTGCGTAACCTCACGAAATT-ATTAATGAGTTTTTGAA--ACCGTATTGGGACTATGTGTGCAAC
1 GTGTGCAACCCCACGAAATTCA-TAATGAGTTTATGAATTTCCGTATTGGCAC-ATGTGTGCAAC
* *
100220 CTCACGAAATTCATAATGAGTTTGTGAATTACCGTATT-GCGACTAT
64 CCCACGAAATTCATAATGAGTTTGTGAATTTCCGTATTGGC-ACTAT
* * * * * * * * *
100266 GTGTGCAA-CCCACGTAGTTCATAATAAGTTTGTTAATTACTGTATTAGCAAAATGTGTGCAA-C
1 GTGTGCAACCCCACGAAATTCATAATGAGTTTATGAATTTCCGTATTGGC-ACATGTGTGCAACC
* * * * *
100329 CTACGTAATTCACAATGAGTTTGTGAATTACCATATTGGCACTAT
65 CCACGAAATTCATAATGAGTTTGTGAATTTCCGTATTGGCACTAT
* * * * *
100374 GTGTGCAA-CCCAC-ATAACTT-ATAATTAGCTTGTGAATTACCATATTGGCACTATGTGTGCAA
1 GTGTGCAACCCCACGA-AA-TTCATAATGAGTTTATGAATTTCCGTATTGGCAC-ATGTGTGCAA
* * * *
100436 -CCCAC-ATAATTCATAATGAG--TGTGAATTACCATATTGACATTAT
63 CCCCACGA-AATTCATAATGAGTTTGTGAATTTCCGTATTGGCACTAT
* * * * * * * * *
100480 GTGTGCAA-CCTACGTAATCCACAATGAGTTTGTGAATGAT-AGTATTGGCACTATATGTG-TAC
1 GTGTGCAACCCCACGAAATTCATAATGAGTTTATGAAT-TTCCGTATTGGCAC-ATGTGTGCAAC
* * * *
100542 CCCAAGGATTTCAAAATGAGTTTGTGAATTTCC
64 CCCACGAAATTCATAATGAGTTTGTGAATTTCC
100575 ATATGTGTAC
Statistics
Matches: 632, Mismatches: 93, Indels: 42
0.82 0.12 0.05
Matches are distributed among these distances:
105 2 0.00
106 81 0.13
107 22 0.03
108 280 0.44
109 23 0.04
110 224 0.35
ACGTcount: A:0.30, C:0.18, G:0.18, T:0.34
Consensus pattern (109 bp):
GTGTGCAACCCCACGAAATTCATAATGAGTTTATGAATTTCCGTATTGGCACATGTGTGCAACCC
CACGAAATTCATAATGAGTTTGTGAATTTCCGTATTGGCACTAT
Found at i:99996 original size:163 final size:164
Alignment explanation
Indices: 99720--100574 Score: 855
Period size: 163 Copynumber: 5.3 Consensus size: 164
99710 TAAAATATAA
* * * *
99720 GTGTGCAACCCCACAAAATTCATAATGAGTTTATGAATTTCTGTATTGGCACTATATGTGCAGCC
1 GTGTGCAACCCCACGAAATTCATAATGAGTTTATGAATTTCCGTATTGGCACTATGTGTGCAACC
99785 CCACGAAATTCATAATGAGTTTATGAATTTTCGTATTGGCAATATGTGTGCAACCCCACGAAATT
66 CCACGAAATTCATAATGAGTTTATGAATTTTCGTATTGGCAATATGTGTGCAACCCCACGAAATT
* *
99850 CATAATGAGTTTATGAATTTCCGTATTGGCAC-T
131 CATAATGAGTTTATGAATTACCATATTGGCACAT
*
99883 GTGTACAACCCCACGAAATTCATAATGAGTTTATGAATTTCCGTATTGGCACTATGTGTGCAACC
1 GTGTGCAACCCCACGAAATTCATAATGAGTTTATGAATTTCCGTATTGGCACTATGTGTGCAACC
* * *
99948 CCACGAAATTCATAATGAGTTTATGAATTTTTGTATTGGCACTATGTGTGCAACCCTACGAAATT
66 CCACGAAATTCATAATGAGTTTATGAATTTTCGTATTGGCAATATGTGTGCAACCCCACGAAATT
* * * * *
100013 CATAATGAGTATATTAGTTTCCATATTGGCAATAT
131 CATAATGAGTTTATGAATTACCATATTGGC-ACAT
* *
100048 GTGTGTAACCCCACGAAATTCATAATAAGTTTATGAATTTCCGTATTGGCACTATGTGTGCAACC
1 GTGTGCAACCCCACGAAATTCATAATGAGTTTATGAATTTCCGTATTGGCACTATGTGTGCAACC
* * * * * * * * * *
100113 TCACTAAATCCATAATGAGTTTGTGAATTTTCGTATTGCCACTTTGTGCGTAACCTCACGAAATT
66 CCACGAAATTCATAATGAGTTTATGAATTTTCGTATTGGCAATATGTGTGCAACCCCACGAAATT
* * *
100178 -ATTAATGAGTTTTTGAA--ACCGTATTGGGACTAT
131 CA-TAATGAGTTTATGAATTACCATATTGGCAC-AT
* * *
100211 GTGTGCAACCTCACGAAATTCATAATGAGTTTGTGAATTACCGTATT-GCGACTATGTGTGCAA-
1 GTGTGCAACCCCACGAAATTCATAATGAGTTTATGAATTTCCGTATTGGC-ACTATGTGTGCAAC
* * * * * * * * * *
100274 CCCACGTAGTTCATAATAAGTTTGTTAA-TTACTGTATTAGCAAAATGTGTGCAA-CCTACGTAA
65 CCCACGAAATTCATAATGAGTTTATGAATTTTC-GTATTGGCAATATGTGTGCAACCCCACGAAA
* *
100337 TTCACAATGAGTTTGTGAATTACCATATTGGCACTAT
129 TTCATAATGAGTTTATGAATTACCATATTGGCAC-AT
* * * * *
100374 GTGTGCAA-CCCAC-ATAACTT-ATAATTAGCTTGTGAATTACCATATTGGCACTATGTGTGCAA
1 GTGTGCAACCCCACGA-AA-TTCATAATGAGTTTATGAATTTCCGTATTGGCACTATGTGTGCAA
* ** * * * * *
100436 -CCCAC-ATAATTCATAATGAG--TGTGAATTACCATATTGACATTATGTGTGCAA-CCTACGTA
64 CCCCACGA-AATTCATAATGAGTTTATGAATTTTCGTATTGGCAATATGTGTGCAACCCCACGAA
* * * * *
100496 ATCCACAATGAGTTTGTGAATGA-TAGTATTGGCACTAT
128 ATTCATAATGAGTTTATGAATTACCA-TATTGGCAC-AT
* * * * * * *
100534 ATGTG-TACCCCAAGGATTTCAAAATGAGTTTGTGAATTTCC
1 GTGTGCAACCCCACGAAATTCATAATGAGTTTATGAATTTCC
100575 ATATGTGTAC
Statistics
Matches: 585, Mismatches: 89, Indels: 39
0.82 0.12 0.05
Matches are distributed among these distances:
159 4 0.01
160 88 0.15
161 27 0.05
162 97 0.17
163 239 0.41
164 2 0.00
165 128 0.22
ACGTcount: A:0.30, C:0.18, G:0.18, T:0.34
Consensus pattern (164 bp):
GTGTGCAACCCCACGAAATTCATAATGAGTTTATGAATTTCCGTATTGGCACTATGTGTGCAACC
CCACGAAATTCATAATGAGTTTATGAATTTTCGTATTGGCAATATGTGTGCAACCCCACGAAATT
CATAATGAGTTTATGAATTACCATATTGGCACAT
Found at i:101810 original size:17 final size:17
Alignment explanation
Indices: 101788--101829 Score: 84
Period size: 17 Copynumber: 2.5 Consensus size: 17
101778 TATTGAAGTT
101788 AAGCATTAAATTATTTA
1 AAGCATTAAATTATTTA
101805 AAGCATTAAATTATTTA
1 AAGCATTAAATTATTTA
101822 AAGCATTA
1 AAGCATTA
101830 TTGAGTTGAG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 25 1.00
ACGTcount: A:0.48, C:0.07, G:0.07, T:0.38
Consensus pattern (17 bp):
AAGCATTAAATTATTTA
Found at i:105929 original size:55 final size:55
Alignment explanation
Indices: 105845--106603 Score: 840
Period size: 55 Copynumber: 13.9 Consensus size: 55
105835 GTTTAATGTA
105845 TATGTGTGCAACCCCACGAAATTCATAATGAGTTTATGAATTTCCGTATTGGCAC
1 TATGTGTGCAACCCCACGAAATTCATAATGAGTTTATGAATTTCCGTATTGGCAC
* * ** *
105900 TATGTGTGCAACCCCATGAAATTCATAATGAATTTATGAATTTTTGTATTGGCAA
1 TATGTGTGCAACCCCACGAAATTCATAATGAGTTTATGAATTTCCGTATTGGCAC
*
105955 TATGTGTGCAACCCCACGAAATTCATAATGAGTTTATGAATTTCCGTATTGGCTC
1 TATGTGTGCAACCCCACGAAATTCATAATGAGTTTATGAATTTCCGTATTGGCAC
* * *
106010 TATGTGTGCAACCCAACAAAATTCATAATGAGTTTATGAATTACCGTATTGGCAC
1 TATGTGTGCAACCCCACGAAATTCATAATGAGTTTATGAATTTCCGTATTGGCAC
** *** *
106065 TATGCATGCAACCCCACGAAATTCATAATGAGTTTATGAATTTTTTTATTGGTAC
1 TATGTGTGCAACCCCACGAAATTCATAATGAGTTTATGAATTTCCGTATTGGCAC
* **
106120 TATGTGTGCAACCCCACGAAATTTATAATGAGTTTATGAATTTTTGTATTGGCAC
1 TATGTGTGCAACCCCACGAAATTCATAATGAGTTTATGAATTTCCGTATTGGCAC
* *
106175 TATGTGTGCAACCCCATGAAATTCATAATGAGTTTATGAATTTTCGTATTGGCAC
1 TATGTGTGCAACCCCACGAAATTCATAATGAGTTTATGAATTTCCGTATTGGCAC
* ** * * * * *
106230 TATGTGTGCAACCTCTTGAAATTCACAATGAGTTTGTGAATTAT-GGTATTGGAAT
1 TATGTGTGCAACCCCACGAAATTCATAATGAGTTTATGAATT-TCCGTATTGGCAC
* * * * * * *
106285 TATGTAT-AAAACCCATGTAATTCATAATGAGTTTGTGAATTAT-CGTATTGGTAC
1 TATGTGTGCAACCCCACGAAATTCATAATGAGTTTATGAATT-TCCGTATTGGCAC
* * * * * *
106339 TATGTGTGTAA-CCTACGTAATTCACAATGAG--TGTGAATTACCGTATTGGCAC
1 TATGTGTGCAACCCCACGAAATTCATAATGAGTTTATGAATTTCCGTATTGGCAC
* *
106391 TATGTGTGCAA-CCCACGAAATTCATAATGAGTTTGTGAATTACCGTATTGGCAC
1 TATGTGTGCAACCCCACGAAATTCATAATGAGTTTATGAATTTCCGTATTGGCAC
* * * * *
106445 TATGTGTGCAA-CCCACGTAATTCATAATGAGTTTTTGAATTACCATATTGGAAC
1 TATGTGTGCAACCCCACGAAATTCATAATGAGTTTATGAATTTCCGTATTGGCAC
** * * * * * **
106499 TATGCATGCAA-CCTACGTAATTCACAATGAGTTTGTGAATGAT-CGTATCAGCAC
1 TATGTGTGCAACCCCACGAAATTCATAATGAGTTTATGAAT-TTCCGTATTGGCAC
* * * * *
106553 TATATGTGC-ACCCCAAG-AATATCAAAATGAGTTTGTGAATTTCCATATTGG
1 TATGTGTGCAACCCCACGAAAT-TCATAATGAGTTTATGAATTTCCGTATTGG
106604 TACTTAGGTG
Statistics
Matches: 610, Mismatches: 85, Indels: 19
0.85 0.12 0.03
Matches are distributed among these distances:
52 45 0.07
53 5 0.01
54 207 0.34
55 352 0.58
56 1 0.00
ACGTcount: A:0.31, C:0.16, G:0.18, T:0.35
Consensus pattern (55 bp):
TATGTGTGCAACCCCACGAAATTCATAATGAGTTTATGAATTTCCGTATTGGCAC
Found at i:106398 original size:25 final size:24
Alignment explanation
Indices: 106318--106398 Score: 58
Period size: 25 Copynumber: 3.2 Consensus size: 24
106308 ATAATGAGTT
*
106318 TGTGAATTATCGTATTGGTACTATG
1 TGTGAATTA-CGTATTGGCACTATG
* *
106343 TGTGTAACCTACGTAATT--CACAATGAG
1 TGTG-AA-TTACGT-ATTGGCACTAT--G
106370 TGTGAATTACCGTATTGGCACTATG
1 TGTGAATTA-CGTATTGGCACTATG
106395 TGTG
1 TGTG
106399 CAACCCACGA
Statistics
Matches: 43, Mismatches: 5, Indels: 16
0.67 0.08 0.25
Matches are distributed among these distances:
25 18 0.42
26 10 0.23
27 15 0.35
ACGTcount: A:0.26, C:0.14, G:0.23, T:0.37
Consensus pattern (24 bp):
TGTGAATTACGTATTGGCACTATG
Found at i:107147 original size:2 final size:2
Alignment explanation
Indices: 107140--107191 Score: 104
Period size: 2 Copynumber: 26.0 Consensus size: 2
107130 GACGTGTTTA
107140 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
107182 AT AT AT AT AT
1 AT AT AT AT AT
107192 TTGAAGAATG
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 50 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:116610 original size:2 final size:2
Alignment explanation
Indices: 116603--116633 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
116593 GACACCTTCA
116603 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
116634 ATTACTAAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:119684 original size:29 final size:29
Alignment explanation
Indices: 119641--119699 Score: 91
Period size: 29 Copynumber: 2.0 Consensus size: 29
119631 TGATTTTACA
**
119641 CAAATCTCAACTCCACAGCGGTGGATAGT
1 CAAATCTCAACTCCACAGCGAAGGATAGT
*
119670 CAAATCTCAATTCCACAGCGAAGGATAGT
1 CAAATCTCAACTCCACAGCGAAGGATAGT
119699 C
1 C
119700 GATAAAAGAT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.34, C:0.27, G:0.19, T:0.20
Consensus pattern (29 bp):
CAAATCTCAACTCCACAGCGAAGGATAGT
Found at i:119948 original size:37 final size:36
Alignment explanation
Indices: 119898--120011 Score: 122
Period size: 37 Copynumber: 3.1 Consensus size: 36
119888 CTTATTTAGT
* * * *
119898 ATATATAGTTTTTAAAAATATTTTTTTAAATTATATA
1 ATATATAGTTTTTAAAAATAGTTTTTGAAA-GAAATA
**
119935 ATATATAGTTTTTAGAAAACGGTTTTTGAAAGAAATA
1 ATATATAGTTTTTA-AAAATAGTTTTTGAAAGAAATA
* *
119972 ATATATAGTTTTTAAAAATCGGTTTTTGAAA-ATATA
1 ATATATAGTTTTTAAAAAT-AGTTTTTGAAAGAAATA
120008 ATAT
1 ATAT
120012 GGTTTTGCAA
Statistics
Matches: 67, Mismatches: 8, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
36 12 0.18
37 43 0.64
38 12 0.18
ACGTcount: A:0.43, C:0.02, G:0.10, T:0.46
Consensus pattern (36 bp):
ATATATAGTTTTTAAAAATAGTTTTTGAAAGAAATA
Found at i:120062 original size:37 final size:36
Alignment explanation
Indices: 119930--120076 Score: 135
Period size: 37 Copynumber: 4.0 Consensus size: 36
119920 TTTTTAAATT
*
119930 ATATAATATATAGTTTTTAGAAAAC-GGTTTTTGAAAGA
1 ATATAATATATAG-TTTT-GAAAACACGTTTTTGAAA-A
*
119968 A-ATAATATATAGTTTTTAAAA-ATCGGTTTTTG-AAA
1 ATATAATATATAGTTTTGAAAACA-C-GTTTTTGAAAA
*
120003 ATAT-A-ATATGGTTTTGCAAAAACACGTTTTTGAAAA
1 ATATAATATATAGTTTTG--AAAACACGTTTTTGAAAA
* *
120039 CATATATTATATAGTTTTGAAAACACATTTTTGAAAA
1 -ATATAATATATAGTTTTGAAAACACGTTTTTGAAAA
120076 A
1 A
120077 ACATTTTTGA
Statistics
Matches: 91, Mismatches: 7, Indels: 24
0.75 0.06 0.20
Matches are distributed among these distances:
34 9 0.10
35 14 0.15
36 17 0.19
37 40 0.44
38 1 0.01
39 10 0.11
ACGTcount: A:0.43, C:0.05, G:0.12, T:0.39
Consensus pattern (36 bp):
ATATAATATATAGTTTTGAAAACACGTTTTTGAAAA
Found at i:120072 original size:14 final size:14
Alignment explanation
Indices: 120053--120090 Score: 67
Period size: 14 Copynumber: 2.7 Consensus size: 14
120043 TATTATATAG
120053 TTTTGAAAACACAT
1 TTTTGAAAACACAT
*
120067 TTTTGAAAAAACAT
1 TTTTGAAAACACAT
120081 TTTTGAAAAC
1 TTTTGAAAAC
120091 GTATAATATA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.45, C:0.11, G:0.08, T:0.37
Consensus pattern (14 bp):
TTTTGAAAACACAT
Found at i:120121 original size:51 final size:52
Alignment explanation
Indices: 120014--120126 Score: 142
Period size: 51 Copynumber: 2.2 Consensus size: 52
120004 TATAATATGG
*
120014 TTTTGCAAAAACACGTTTTTGAAAACATATATTATATAGTTTTGAAAACACAT
1 TTTTG-AAAAACACATTTTTGAAAACATATATTATATAGTTTTGAAAACACAT
* * *
120067 TTTTGAAAAA-ACATTTTTGAAAACGTATAATATATATAGTTTT-AAAATA-GT
1 TTTTGAAAAACACATTTTTGAAAACATAT-AT-TATATAGTTTTGAAAACACAT
120118 TTTTGAAAA
1 TTTTGAAAA
120127 CGTATATAAT
Statistics
Matches: 54, Mismatches: 4, Indels: 6
0.84 0.06 0.09
Matches are distributed among these distances:
51 26 0.48
52 12 0.22
53 16 0.30
ACGTcount: A:0.43, C:0.07, G:0.10, T:0.40
Consensus pattern (52 bp):
TTTTGAAAAACACATTTTTGAAAACATATATTATATAGTTTTGAAAACACAT
Found at i:120130 original size:37 final size:36
Alignment explanation
Indices: 120080--120149 Score: 115
Period size: 37 Copynumber: 1.9 Consensus size: 36
120070 TGAAAAAACA
120080 TTTTTGAAAACGTATAATATATATAGTTTT-AAAATAG
1 TTTTTGAAAACGTAT-ATA-ATATAGTTTTGAAAATAG
120117 TTTTTGAAAACGTATATAATATAGTTTTGAAAA
1 TTTTTGAAAACGTATATAATATAGTTTTGAAAA
120150 CATATATAAT
Statistics
Matches: 32, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
35 10 0.31
36 7 0.22
37 15 0.47
ACGTcount: A:0.43, C:0.03, G:0.11, T:0.43
Consensus pattern (36 bp):
TTTTTGAAAACGTATATAATATAGTTTTGAAAATAG
Found at i:120148 original size:23 final size:24
Alignment explanation
Indices: 120113--120162 Score: 84
Period size: 23 Copynumber: 2.1 Consensus size: 24
120103 TAGTTTTAAA
*
120113 ATAGTTTTTGAAAACGTATATAAT
1 ATAGTTTTTGAAAACATATATAAT
120137 ATAG-TTTTGAAAACATATATAAT
1 ATAGTTTTTGAAAACATATATAAT
120160 ATA
1 ATA
120163 TATAGTTTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
23 21 0.84
24 4 0.16
ACGTcount: A:0.46, C:0.04, G:0.10, T:0.40
Consensus pattern (24 bp):
ATAGTTTTTGAAAACATATATAAT
Found at i:120181 original size:19 final size:18
Alignment explanation
Indices: 120157--120204 Score: 71
Period size: 17 Copynumber: 2.6 Consensus size: 18
120147 AAACATATAT
120157 AATATATATAGTTTTTGAA
1 AATATATATA-TTTTTGAA
120176 AATATAT-TATTTTTGAA
1 AATATATATATTTTTGAA
120193 AATATAATATAT
1 AATAT-ATATAT
120205 GTTATATAGT
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
17 13 0.48
18 4 0.15
19 10 0.37
ACGTcount: A:0.46, C:0.00, G:0.06, T:0.48
Consensus pattern (18 bp):
AATATATATATTTTTGAA
Found at i:120234 original size:25 final size:25
Alignment explanation
Indices: 120206--120276 Score: 78
Period size: 25 Copynumber: 2.9 Consensus size: 25
120196 ATAATATATG
120206 TTATATAGTT-TTTATTATATATTAT
1 TTATATAGTTATTTATTAT-TATTAT
*
120231 TTATATTGTTATTTATTATTATTA-
1 TTATATAGTTATTTATTATTATTAT
*
120255 TTAT-TATTTATTTAATT-TTATT
1 TTATATAGTTATTT-ATTATTATT
120277 TTTTGTTAAC
Statistics
Matches: 41, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
23 12 0.29
24 7 0.17
25 14 0.34
26 8 0.20
ACGTcount: A:0.30, C:0.00, G:0.03, T:0.68
Consensus pattern (25 bp):
TTATATAGTTATTTATTATTATTAT
Found at i:120237 original size:16 final size:16
Alignment explanation
Indices: 120206--120277 Score: 50
Period size: 14 Copynumber: 4.8 Consensus size: 16
120196 ATAATATATG
*
120206 TTATATAGT-TTT-TA
1 TTATATATTATTTATA
120220 TTATATATTATTTATA
1 TTATATATTATTTATA
*
120236 TTGT-TATT-TATTATTA
1 TTATATATTAT-TTA-TA
120252 TTAT-TATTATTTAT-
1 TTATATATTATTTATA
*
120266 TTA-ATTTTATTT
1 TTATATATTATTT
120278 TTTGTTAACA
Statistics
Matches: 48, Mismatches: 4, Indels: 12
0.75 0.06 0.19
Matches are distributed among these distances:
14 19 0.40
15 11 0.23
16 17 0.35
17 1 0.02
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.68
Consensus pattern (16 bp):
TTATATATTATTTATA
Found at i:120247 original size:19 final size:19
Alignment explanation
Indices: 120217--120266 Score: 66
Period size: 19 Copynumber: 2.6 Consensus size: 19
120207 TATATAGTTT
*
120217 TTATTATATATTATT-TATA
1 TTATTATTTATTATTAT-TA
*
120236 TTGTTATTTATTATTATTA
1 TTATTATTTATTATTATTA
120255 TTATTATTTATT
1 TTATTATTTATT
120267 TAATTTTATT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
19 26 0.96
20 1 0.04
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.68
Consensus pattern (19 bp):
TTATTATTTATTATTATTA
Found at i:121582 original size:13 final size:14
Alignment explanation
Indices: 121559--121588 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
121549 TTAATCCAAG
121559 TTTCATTTTAATTC
1 TTTCATTTTAATTC
121573 TTTC-TTTTAATTC
1 TTTCATTTTAATTC
121586 TTT
1 TTT
121589 TTTATTATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 12 0.75
14 4 0.25
ACGTcount: A:0.17, C:0.13, G:0.00, T:0.70
Consensus pattern (14 bp):
TTTCATTTTAATTC
Found at i:126987 original size:55 final size:55
Alignment explanation
Indices: 126903--127766 Score: 879
Period size: 55 Copynumber: 15.8 Consensus size: 55
126893 GTTTAATATA
* *
126903 TATGTGTGAAACCCCACGAAATTCATAATGAGTTTATGAATTTCTGTATTGGCAC
1 TATGTGTGCAACCCCACGAAATTCATAATGAGTTTATGAATTTCCGTATTGGCAC
* * *
126958 TATGTGTGCAGCCCCACAAAATTCATAATGAGTTTATGAATTTTCGTATTGGCAC
1 TATGTGTGCAACCCCACGAAATTCATAATGAGTTTATGAATTTCCGTATTGGCAC
*
127013 TATGTATGCAACCCCACGAAATTCATAATGAGTTTATGAATTTCCGTATTGGCAC
1 TATGTGTGCAACCCCACGAAATTCATAATGAGTTTATGAATTTCCGTATTGGCAC
* * *
127068 TGTGTGTGCAACCCCATGAAATTCATAATGAGTTTATCAATTTCCGTATTGGCAC
1 TATGTGTGCAACCCCACGAAATTCATAATGAGTTTATGAATTTCCGTATTGGCAC
* **
127123 TATGTGTGCAACCCCACAAAATTCATAATGAGTTTATGAATTTTTGTATTGGCAC
1 TATGTGTGCAACCCCACGAAATTCATAATGAGTTTATGAATTTCCGTATTGGCAC
* * * * *
127178 TATGTGTGCAACCCCACGAAATTCATAATGAATATATTAGTTTCCGTATTGGCAT
1 TATGTGTGCAACCCCACGAAATTCATAATGAGTTTATGAATTTCCGTATTGGCAC
* *
127233 TATGTGTGCAACCCCACGAAATTCATAATAATTTTATGAATTTCCGTATTGGCAC
1 TATGTGTGCAACCCCACGAAATTCATAATGAGTTTATGAATTTCCGTATTGGCAC
* * * * *
127288 TATGTGTGCAACCTCACTAAATTCATAATGAGTTTGTGAATTTCAGTATTGGAAC
1 TATGTGTGCAACCCCACGAAATTCATAATGAGTTTATGAATTTCCGTATTGGCAC
* * * * * * * *
127343 TTTGTGTGTAACCTCATGAAATTAATAATGAGGTTT-TGAAATACCGTATTGGGAC
1 TATGTGTGCAACCCCACGAAATTCATAATGA-GTTTATGAATTTCCGTATTGGCAC
* * * *
127398 TATGTGTGCAACCTCATGAAATTCATAATGAGTTTGTGAATTACCGTATT-GCGAC
1 TATGTGTGCAACCCCACGAAATTCATAATGAGTTTATGAATTTCCGTATTGGC-AC
* * * * * * *
127453 TATGTGTGCAA-CCCACGTAGTTCATAATAAGTTTGTGAATTACTGTATTGGCAA
1 TATGTGTGCAACCCCACGAAATTCATAATGAGTTTATGAATTTCCGTATTGGCAC
* * * * * * * * *
127507 AATGTGTGCAA-CCTACGTAATTCACAATGAGATTGTGAATTACCATTTTGGCAC
1 TATGTGTGCAACCCCACGAAATTCATAATGAGTTTATGAATTTCCGTATTGGCAC
* * * * * * *
127561 TATTTGTTCAA-CCCAC-ATAACTT-ATAATGAGCTTGTAAATTACCATATTGGCAC
1 TATGTGTGCAACCCCACGA-AA-TTCATAATGAGTTTATGAATTTCCGTATTGGCAC
* * * * * *
127615 TATGTGTGCAA-CCCAC-ATAATTCATAATGAGTATGTGAATTGCCATATTGACAT
1 TATGTGTGCAACCCCACGA-AATTCATAATGAGTTTATGAATTTCCGTATTGGCAC
* * * * * * *
127669 TATGTGTGCAA-CCTACGTAATCCACAATGAGTTTGTGAATGAT-AGTATTGGCAC
1 TATGTGTGCAACCCCACGAAATTCATAATGAGTTTATGAAT-TTCCGTATTGGCAC
* * * * * * *
127723 TATATGTG-TACCCCAAGGATTTCAAAATGAGTTTGTGAATTTCC
1 TATGTGTGCAACCCCACGAAATTCATAATGAGTTTATGAATTTCC
127767 ATATGTGTAC
Statistics
Matches: 689, Mismatches: 109, Indels: 23
0.84 0.13 0.03
Matches are distributed among these distances:
53 4 0.01
54 237 0.34
55 444 0.64
56 4 0.01
ACGTcount: A:0.31, C:0.17, G:0.18, T:0.34
Consensus pattern (55 bp):
TATGTGTGCAACCCCACGAAATTCATAATGAGTTTATGAATTTCCGTATTGGCAC
Found at i:128317 original size:2 final size:2
Alignment explanation
Indices: 128310--128388 Score: 149
Period size: 2 Copynumber: 39.5 Consensus size: 2
128300 GACATGTTTA
128310 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
*
128352 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AA AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
128389 ATTGAAGAAT
Statistics
Matches: 75, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
2 75 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:129056 original size:17 final size:17
Alignment explanation
Indices: 129034--129075 Score: 84
Period size: 17 Copynumber: 2.5 Consensus size: 17
129024 TATTGAAGTT
129034 AAGCATTAAATTATTTA
1 AAGCATTAAATTATTTA
129051 AAGCATTAAATTATTTA
1 AAGCATTAAATTATTTA
129068 AAGCATTA
1 AAGCATTA
129076 TTGAGTTGAG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 25 1.00
ACGTcount: A:0.48, C:0.07, G:0.07, T:0.38
Consensus pattern (17 bp):
AAGCATTAAATTATTTA
Found at i:133149 original size:55 final size:55
Alignment explanation
Indices: 133088--133838 Score: 808
Period size: 55 Copynumber: 13.8 Consensus size: 55
133078 GTTTAATGTA
* *
133088 TATGTGTGCAACCCCACGAAATTCATAATGATTTTATGAATTTCTGTATTGGCAC
1 TATGTGTGCAACCCCACGAAATTCATAATGAGTTTATGAATTTCCGTATTGGCAC
* *
133143 TATGTGTGCAACCCCACGAAATTGATAATGAGTTTATGAATTTTCGTATTGGCAC
1 TATGTGTGCAACCCCACGAAATTCATAATGAGTTTATGAATTTCCGTATTGGCAC
*
133198 TATGTGTGCAACCCCACGAAATTCATAATGAGTTTATGAATTTCCGTATTGGCTC
1 TATGTGTGCAACCCCACGAAATTCATAATGAGTTTATGAATTTCCGTATTGGCAC
* *
133253 TATGTGTGCAACCCAACGAAATTCATAATGAGTTTATGAATTACCGTATTGGCAC
1 TATGTGTGCAACCCCACGAAATTCATAATGAGTTTATGAATTTCCGTATTGGCAC
* * * ** *
133308 TATGCGTGCAACCCCATGAAATTCATAATGAGTTTATAAATTTTTGTATTGGTAC
1 TATGTGTGCAACCCCACGAAATTCATAATGAGTTTATGAATTTCCGTATTGGCAC
* **
133363 TATGTGTGCAACCCCACGAAATTCGTAATGAGTTTATGAATTTTTGTATTGGCAC
1 TATGTGTGCAACCCCACGAAATTCATAATGAGTTTATGAATTTCCGTATTGGCAC
* *
133418 TATGTGTGCAA-CCCATGAAATTCATAATGATTTTATGAATTTCCGTATTGGCAC
1 TATGTGTGCAACCCCACGAAATTCATAATGAGTTTATGAATTTCCGTATTGGCAC
* * ** * * * * *
133472 TATATGTGCAACCTCTTGAAATTCACAATGAGTTTGTGAATTAT-GGTATTGGAAT
1 TATGTGTGCAACCCCACGAAATTCATAATGAGTTTATGAATT-TCCGTATTGGCAC
* * * * * *
133527 TATGTATG-AAACCCATGTAATTCATAATGAGTTTGTGAATTACCGTATTGGCAC
1 TATGTGTGCAACCCCACGAAATTCATAATGAGTTTATGAATTTCCGTATTGGCAC
* ** * * * *
133581 TATGTGTGTAA-CTTACGTAATTCACAATGAG--TGTGAATTACCGTATTGGCAC
1 TATGTGTGCAACCCCACGAAATTCATAATGAGTTTATGAATTTCCGTATTGGCAC
* * *
133633 TATGTGTGTAA-CCCAC-AGAATTCATAATGAGTTTGTGAATTACCGTATTGGCAC
1 TATGTGTGCAACCCCACGA-AATTCATAATGAGTTTATGAATTTCCGTATTGGCAC
* * * * * * *
133687 TATGTGTGCAA-CCCACGTAATTCATAATGAGTATGTGAATTACCATATTGACAT
1 TATGTGTGCAACCCCACGAAATTCATAATGAGTTTATGAATTTCCGTATTGGCAC
* * * * * *
133741 TATGTGTGCAA-CCTAC-ATAATCCACAATGAGTTTGTGAATGAT-AGTATTGGCAC
1 TATGTGTGCAACCCCACGA-AATTCATAATGAGTTTATGAAT-TTCCGTATTGGCAC
* * * * * * *
133795 TATATGTG-TACCCCAAGGATTTCAAAATGAGTTTGTGAATTTCC
1 TATGTGTGCAACCCCACGAAATTCATAATGAGTTTATGAATTTCC
133839 ATATGTGTAC
Statistics
Matches: 599, Mismatches: 84, Indels: 27
0.84 0.12 0.04
Matches are distributed among these distances:
52 47 0.08
53 2 0.00
54 245 0.41
55 304 0.51
56 1 0.00
ACGTcount: A:0.30, C:0.16, G:0.19, T:0.35
Consensus pattern (55 bp):
TATGTGTGCAACCCCACGAAATTCATAATGAGTTTATGAATTTCCGTATTGGCAC
Found at i:133596 original size:27 final size:27
Alignment explanation
Indices: 133566--133644 Score: 94
Period size: 25 Copynumber: 3.0 Consensus size: 27
133556 AGTTTGTGAA
133566 TTACCGTATTGGCACTATGTGTGTAAC
1 TTACCGTATTGGCACTATGTGTGTAAC
* *
133593 TTA-CGTAATT--CACAATGAGTGTGAA-
1 TTACCGT-ATTGGCACTATGTGTGT-AAC
133618 TTACCGTATTGGCACTATGTGTGTAAC
1 TTACCGTATTGGCACTATGTGTGTAAC
133645 CCACAGAATT
Statistics
Matches: 42, Mismatches: 4, Indels: 12
0.72 0.07 0.21
Matches are distributed among these distances:
25 16 0.38
26 10 0.24
27 16 0.38
ACGTcount: A:0.27, C:0.16, G:0.22, T:0.35
Consensus pattern (27 bp):
TTACCGTATTGGCACTATGTGTGTAAC
Found at i:133621 original size:25 final size:25
Alignment explanation
Indices: 133543--133621 Score: 63
Period size: 25 Copynumber: 3.0 Consensus size: 25
133533 TGAAACCCAT
*
133543 GTAATTCATAATGAGTTTGTGAATTACC
1 GTAATTCACAATGAG--TGTGAATTA-C
* *
133571 GT-ATTGGCACTATGTGTGT-AACTTAC
1 GTAATT--CACAATGAGTGTGAA-TTAC
133597 GTAATTCACAATGAGTGTGAATTAC
1 GTAATTCACAATGAGTGTGAATTAC
133622 CGTATTGGCA
Statistics
Matches: 41, Mismatches: 5, Indels: 13
0.69 0.08 0.22
Matches are distributed among these distances:
25 14 0.34
26 7 0.17
27 12 0.29
28 2 0.05
29 6 0.15
ACGTcount: A:0.30, C:0.13, G:0.20, T:0.37
Consensus pattern (25 bp):
GTAATTCACAATGAGTGTGAATTAC
Found at i:141633 original size:21 final size:21
Alignment explanation
Indices: 141609--141653 Score: 90
Period size: 21 Copynumber: 2.1 Consensus size: 21
141599 TTCAAGAACA
141609 ATTATTGTGCTCAATTGTATT
1 ATTATTGTGCTCAATTGTATT
141630 ATTATTGTGCTCAATTGTATT
1 ATTATTGTGCTCAATTGTATT
141651 ATT
1 ATT
141654 CTCGAGTGTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.24, C:0.09, G:0.13, T:0.53
Consensus pattern (21 bp):
ATTATTGTGCTCAATTGTATT
Found at i:144143 original size:15 final size:15
Alignment explanation
Indices: 144123--144151 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
144113 AATTTCTTTT
144123 TTGTTATCTAAACCC
1 TTGTTATCTAAACCC
144138 TTGTTATCTAAACC
1 TTGTTATCTAAACC
144152 AAAGGTGTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.28, C:0.24, G:0.07, T:0.41
Consensus pattern (15 bp):
TTGTTATCTAAACCC
Found at i:144386 original size:16 final size:16
Alignment explanation
Indices: 144365--144395 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
144355 ATTTCATATC
144365 GACCATAGCTTGGATG
1 GACCATAGCTTGGATG
144381 GACCATAGCTTGGAT
1 GACCATAGCTTGGAT
144396 TGAGTGAGAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.26, C:0.19, G:0.29, T:0.26
Consensus pattern (16 bp):
GACCATAGCTTGGATG
Found at i:144649 original size:23 final size:21
Alignment explanation
Indices: 144622--144676 Score: 58
Period size: 23 Copynumber: 2.5 Consensus size: 21
144612 CACTTGCGAG
144622 TGTATCGATACACATTCAAGGAA
1 TGTATCGATACACATT-AA-GAA
* *
144645 TGTATC-AGTACACATTAATAG
1 TGTATCGA-TACACATTAAGAA
144666 TGTATCGATAC
1 TGTATCGATAC
144677 CTAGGTATCG
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
21 10 0.36
22 4 0.14
23 14 0.50
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.31
Consensus pattern (21 bp):
TGTATCGATACACATTAAGAA
Found at i:148757 original size:117 final size:117
Alignment explanation
Indices: 148547--148758 Score: 259
Period size: 117 Copynumber: 1.8 Consensus size: 117
148537 GAATTTTTAT
** * *
148547 TTTTCAAAGCTTTTAAATTCCATTTTTGGGAGCTCTACATCCTTCTTCAATATTTCATTTTGATT
1 TTTTCAAAGCTTTTAAATTCCATTTTTGAAAGCTCTACATCATTCTTCAAAATTTCATTTTGATT
* *
148612 TTCAAAATCCATTTTAGTTTCTAGAAGAAGTTTGTTTAATTTGAAAATTTCA
66 TTCAAAATCCATTTTAGTTTCGAAAAGAAGTTTGTTTAATTTGAAAATTTCA
* * *
148664 TTTTCAAAG-TTTTCAGATTTCATTTTTGAAAGCTCTA-ACTCATTTTTCAAAATTTCATTTTGA
1 TTTTCAAAGCTTTT-AAATTCCATTTTTGAAAGCTCTACA-TCATTCTTCAAAATTTCATTTTGA
* * **
148727 TTTTCCAAGTTTATTTTAGCTTT-GAAAAGAAG
64 TTTTCAAAATCCATTTTAG-TTTCGAAAAGAAG
148759 AACATTTTTA
Statistics
Matches: 79, Mismatches: 13, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
116 5 0.06
117 71 0.90
118 3 0.04
ACGTcount: A:0.29, C:0.14, G:0.10, T:0.47
Consensus pattern (117 bp):
TTTTCAAAGCTTTTAAATTCCATTTTTGAAAGCTCTACATCATTCTTCAAAATTTCATTTTGATT
TTCAAAATCCATTTTAGTTTCGAAAAGAAGTTTGTTTAATTTGAAAATTTCA
Found at i:152497 original size:53 final size:53
Alignment explanation
Indices: 152419--152846 Score: 499
Period size: 53 Copynumber: 8.1 Consensus size: 53
152409 TAAGGTAACG
* * * *
152419 AAATGGAAATTCACAAACTCATTATGAATACCATGGATGCACACATAGTATCG
1 AAATGGTAATTAACAAACTCATTATGAATACCATGGATGCACACATAGTGTCA
* * *
152472 AAATGGTAATTAACAAACTAATTATGAATACCATTGATGCACATATAGTG-CAA
1 AAATGGTAATTAACAAACTCATTATGAATACCATGGATGCACACATAGTGTC-A
* *
152525 AAATGGTAATTCAA-AAACTCATTCTGAATACCATGGATGCACACATTGTG-CAA
1 AAATGGTAATT-AACAAACTCATTATGAATACCATGGATGCACACATAGTGTC-A
* * *
152578 AAATGGTAATTCACAAACTCATTATGAATACCATGGATGCACATATAGTGTAA
1 AAATGGTAATTAACAAACTCATTATGAATACCATGGATGCACACATAGTGTCA
* * * * * * *
152631 AAATGGTAATTCAA-AAACTCATTCTAAATACCATGGATACAAACATTGTGACG
1 AAATGGTAATT-AACAAACTCATTATGAATACCATGGATGCACACATAGTGTCA
* * *
152684 AAATGGTAATTCACAAACTCATTAT-AAGTACCATGGATGCACACATAGCGCCA
1 AAATGGTAATTAACAAACTCATTATGAA-TACCATGGATGCACACATAGTGTCA
* * * *
152737 AATTGGTAATTCACAAGCTCATTATGAATACCATGAATGCACACATAGTGTCA
1 AAATGGTAATTAACAAACTCATTATGAATACCATGGATGCACACATAGTGTCA
* * *
152790 AAATGGTAATTCAA-AAAATCATTATGATTACCATGGATGCACACATAGTGTCG
1 AAATGGTAATT-AACAAACTCATTATGAATACCATGGATGCACACATAGTGTCA
152843 AAAT
1 AAAT
152847 TACACATAGT
Statistics
Matches: 319, Mismatches: 47, Indels: 18
0.83 0.12 0.05
Matches are distributed among these distances:
52 5 0.02
53 308 0.97
54 6 0.02
ACGTcount: A:0.41, C:0.17, G:0.15, T:0.27
Consensus pattern (53 bp):
AAATGGTAATTAACAAACTCATTATGAATACCATGGATGCACACATAGTGTCA
Found at i:152716 original size:159 final size:158
Alignment explanation
Indices: 152419--152846 Score: 581
Period size: 159 Copynumber: 2.7 Consensus size: 158
152409 TAAGGTAACG
* * *
152419 AAATGGAAATTCACAAACTCATTATGAATACCATGGATGCACACATAGTATCGAAATGGTAATT-
1 AAATGGTAATTCACAAACTCATTATGAATACCATGGATGCACACATAGTGTCAAAATGGTAATTC
* * * *
152483 AACAAACTAATTATGAATACCATTGATGCACATATAGTGCAAAAATGGTAATTCAAAAACTCATT
66 AA-AAACTCATTATGAATACCATGGATGCACACATAGTGC-GAAATGGTAATTCAAAAACTCATT
* * *
152548 CTGAATACCATGGATGCACACATTGTGCAA
129 ATGAATACCATGGATGCACACATAGCGCAA
* *
152578 AAATGGTAATTCACAAACTCATTATGAATACCATGGATGCACATATAGTGTAAAAATGGTAATTC
1 AAATGGTAATTCACAAACTCATTATGAATACCATGGATGCACACATAGTGTCAAAATGGTAATTC
* * * * * *
152643 AAAAACTCATTCTAAATACCATGGATACAAACATTGTGACGAAATGGTAATTCACAAACTCATTA
66 AAAAACTCATTATGAATACCATGGATGCACACATAGTG-CGAAATGGTAATTCAAAAACTCATTA
*
152708 T-AAGTACCATGGATGCACACATAGCGCCA
130 TGAA-TACCATGGATGCACACATAGCGCAA
* * *
152737 AATTGGTAATTCACAAGCTCATTATGAATACCATGAATGCACACATAGTGTCAAAATGGTAATTC
1 AAATGGTAATTCACAAACTCATTATGAATACCATGGATGCACACATAGTGTCAAAATGGTAATTC
* *
152802 AAAAAATCATTATGATTACCATGGATGCACACATAGTGTCGAAAT
66 AAAAACTCATTATGAATACCATGGATGCACACATAGTG-CGAAAT
152847 TACACATAGT
Statistics
Matches: 234, Mismatches: 32, Indels: 6
0.86 0.12 0.02
Matches are distributed among these distances:
158 2 0.01
159 229 0.98
160 3 0.01
ACGTcount: A:0.41, C:0.17, G:0.15, T:0.27
Consensus pattern (158 bp):
AAATGGTAATTCACAAACTCATTATGAATACCATGGATGCACACATAGTGTCAAAATGGTAATTC
AAAAACTCATTATGAATACCATGGATGCACACATAGTGCGAAATGGTAATTCAAAAACTCATTAT
GAATACCATGGATGCACACATAGCGCAA
Found at i:159577 original size:53 final size:52
Alignment explanation
Indices: 159492--159809 Score: 449
Period size: 53 Copynumber: 6.0 Consensus size: 52
159482 ACTAAGGTAA
* * * * *
159492 CGAAATAGAAATTCACTAACACATTATGAATACCATAGATGCACACATAGTG
1 CGAAATGGTAATTCACAAACTCATTATGAATACCATGGATGCACACATAGTG
* *
159544 TCGAAATGGTAATTCACAAACTCGTTATTAATACCATGGATGCACACATAGTG
1 -CGAAATGGTAATTCACAAACTCATTATGAATACCATGGATGCACACATAGTG
*
159597 CCGAAATGGTAATTCACAAACTCATTATGAATATCATGGATTG-ACACATAGTG
1 -CGAAATGGTAATTCACAAACTCATTATGAATACCATGGA-TGCACACATAGTG
* *
159650 CCAAAATGGTAATTCACAAACTTATTATGAATACCATGGATGCACACATAGTG
1 -CGAAATGGTAATTCACAAACTCATTATGAATACCATGGATGCACACATAGTG
* *
159703 CGGAAATAGTAATTCACAAACTCATTTTGAATACCATGGATGCACACATAGTG
1 C-GAAATGGTAATTCACAAACTCATTATGAATACCATGGATGCACACATAGTG
* *
159756 CTGAAATGGTAATTCACAAACTCATTATGAATACAATGGATGCACACATTGTG
1 C-GAAATGGTAATTCACAAACTCATTATGAATACCATGGATGCACACATAGTG
159809 C
1 C
159810 CAAAATTACA
Statistics
Matches: 239, Mismatches: 23, Indels: 6
0.89 0.09 0.02
Matches are distributed among these distances:
52 3 0.01
53 234 0.98
54 2 0.01
ACGTcount: A:0.39, C:0.19, G:0.16, T:0.27
Consensus pattern (52 bp):
CGAAATGGTAATTCACAAACTCATTATGAATACCATGGATGCACACATAGTG
Found at i:159795 original size:159 final size:159
Alignment explanation
Indices: 159514--159815 Score: 495
Period size: 159 Copynumber: 1.9 Consensus size: 159
159504 TCACTAACAC
* *
159514 ATTATGAATACCATAGATGCACACATAGTGTCGAAATGGTAATTCACAAACTCGTTATTAATACC
1 ATTATGAATACCATAGATGCACACATAGTGTCGAAATAGTAATTCACAAACTCATTATTAATACC
159579 ATGGATGCACACATAGTGCCGAAATGGTAATTCACAAACTCATTATGAATATCATGGATTG-ACA
66 ATGGATGCACACATAGTGCCGAAATGGTAATTCACAAACTCATTATGAATATCATGGA-TGCACA
159643 CATAGTGCCAAAATGGTAATTCACAAACTT
130 CATAGTGCCAAAATGGTAATTCACAAACTT
*
159673 ATTATGAATACCATGGATGCACACATAGTG-CGGAAATAGTAATTCACAAACTCATT-TTGAATA
1 ATTATGAATACCATAGATGCACACATAGTGTC-GAAATAGTAATTCACAAACTCATTATT-AATA
*
159736 CCATGGATGCACACATAGTGCTGAAATGGTAATTCACAAACTCATTATGAATA-CAATGGATGCA
64 CCATGGATGCACACATAGTGCCGAAATGGTAATTCACAAACTCATTATGAATATC-ATGGATGCA
*
159800 CACATTGTGCCAAAAT
128 CACATAGTGCCAAAAT
159816 TACACATAGT
Statistics
Matches: 134, Mismatches: 5, Indels: 8
0.91 0.03 0.05
Matches are distributed among these distances:
158 6 0.04
159 128 0.96
ACGTcount: A:0.38, C:0.18, G:0.16, T:0.27
Consensus pattern (159 bp):
ATTATGAATACCATAGATGCACACATAGTGTCGAAATAGTAATTCACAAACTCATTATTAATACC
ATGGATGCACACATAGTGCCGAAATGGTAATTCACAAACTCATTATGAATATCATGGATGCACAC
ATAGTGCCAAAATGGTAATTCACAAACTT
Found at i:160868 original size:36 final size:35
Alignment explanation
Indices: 160761--160868 Score: 105
Period size: 38 Copynumber: 3.0 Consensus size: 35
160751 TATTTAGCAT
160761 ATATATAG-TTTTT-AAAT-ATTTTTTAAAATATATA
1 ATATATAGTTTTTTAAAATGA-TTTTTAAAA-ATATA
* * * *
160795 ATATATAGTTTTTAGAAAACGGATTTTGAAACCATATA
1 ATATATAGTTTTT-TAAAA-TGATTTTTAAA-AATATA
160833 ATATATAGTTTTTTAAAATTGATTTTTAAAAATATA
1 ATATATAGTTTTTTAAAA-TGATTTTTAAAAATATA
160869 TAATGTAACA
Statistics
Matches: 59, Mismatches: 9, Indels: 10
0.76 0.12 0.13
Matches are distributed among these distances:
34 8 0.14
35 4 0.07
36 5 0.08
37 16 0.27
38 25 0.42
39 1 0.02
ACGTcount: A:0.44, C:0.03, G:0.07, T:0.46
Consensus pattern (35 bp):
ATATATAGTTTTTTAAAATGATTTTTAAAAATATA
Found at i:162003 original size:55 final size:55
Alignment explanation
Indices: 161944--162366 Score: 695
Period size: 55 Copynumber: 7.7 Consensus size: 55
161934 CTACCAATAT
161944 GGAAATTCATAAACTTATTATGAATTTCTTAGTTTTGCACACAAAGTGCCCATAC
1 GGAAATTCATAAACTTATTATGAATTTCTTAGTTTTGCACACAAAGTGCCCATAC
*
161999 GGAAATTCATAAACTTATTATGAATTTCTTAGTTTTGCACACAAAGTGCCTATAC
1 GGAAATTCATAAACTTATTATGAATTTCTTAGTTTTGCACACAAAGTGCCCATAC
* * *
162054 GAAAATTCATAAACTTATTATGAATTTTTTAG-TTTGCACACAAAGTGTCCATAC
1 GGAAATTCATAAACTTATTATGAATTTCTTAGTTTTGCACACAAAGTGCCCATAC
*
162108 TGAAATTCATAAACTTATTATGAATTTCTTAGTTTTGCACACAAAGTGCCCATAC
1 GGAAATTCATAAACTTATTATGAATTTCTTAGTTTTGCACACAAAGTGCCCATAC
* ***
162163 GGAAATTCATAAACTTATCATGAATTTCTTAGTTTTGTGTACAAAGTGCCCATAC
1 GGAAATTCATAAACTTATTATGAATTTCTTAGTTTTGCACACAAAGTGCCCATAC
* * *
162218 GGAAATTCATAAACTTGTTATGAATTTCTTATTTTTGCACACAAAGTGCTCATAC
1 GGAAATTCATAAACTTATTATGAATTTCTTAGTTTTGCACACAAAGTGCCCATAC
* * *
162273 GGAAATTCATAAACTTGTTATAAATTTCTTAGTTTTGCACACAAAGTGCCTATAC
1 GGAAATTCATAAACTTATTATGAATTTCTTAGTTTTGCACACAAAGTGCCCATAC
*
162328 GGAAATTCGTAAACTTATTATGAATTTCTTAGTTTTGCA
1 GGAAATTCATAAACTTATTATGAATTTCTTAGTTTTGCA
162367 TATATAGTGT
Statistics
Matches: 339, Mismatches: 28, Indels: 2
0.92 0.08 0.01
Matches are distributed among these distances:
54 49 0.14
55 290 0.86
ACGTcount: A:0.34, C:0.16, G:0.13, T:0.37
Consensus pattern (55 bp):
GGAAATTCATAAACTTATTATGAATTTCTTAGTTTTGCACACAAAGTGCCCATAC
Found at i:162139 original size:164 final size:165
Alignment explanation
Indices: 161944--162366 Score: 697
Period size: 164 Copynumber: 2.6 Consensus size: 165
161934 CTACCAATAT
161944 GGAAATTCATAAACTTATTATGAATTTCTTAGTTTTGCACACAAAGTGCCCATACGGAAATTCAT
1 GGAAATTCATAAACTTATTATGAATTTCTTAGTTTTGCACACAAAGTGCCCATACGGAAATTCAT
*
162009 AAACTTATTATGAATTTCTTAGTTTTGCACACAAAGTGCCTATACGAAAATTCATAAACTTATTA
66 AAACTTATTATGAATTTCTTAGTTTTGCACACAAAGTGCCCATACGAAAATTCATAAACTTATTA
*
162074 TGAATTTTTTA-GTTTGCACACAAAGTG-TCCATAC
131 TGAATTTCTTATGTTTGCACACAAAGTGCT-CATAC
*
162108 TGAAATTCATAAACTTATTATGAATTTCTTAGTTTTGCACACAAAGTGCCCATACGGAAATTCAT
1 GGAAATTCATAAACTTATTATGAATTTCTTAGTTTTGCACACAAAGTGCCCATACGGAAATTCAT
* *** * *
162173 AAACTTATCATGAATTTCTTAGTTTTGTGTACAAAGTGCCCATACGGAAATTCATAAACTTGTTA
66 AAACTTATTATGAATTTCTTAGTTTTGCACACAAAGTGCCCATACGAAAATTCATAAACTTATTA
*
162238 TGAATTTCTTATTTTTGCACACAAAGTGCTCATAC
131 TGAATTTCTTATGTTTGCACACAAAGTGCTCATAC
* * * *
162273 GGAAATTCATAAACTTGTTATAAATTTCTTAGTTTTGCACACAAAGTGCCTATACGGAAATTCGT
1 GGAAATTCATAAACTTATTATGAATTTCTTAGTTTTGCACACAAAGTGCCCATACGGAAATTCAT
162338 AAACTTATTATGAATTTCTTAGTTTTGCA
66 AAACTTATTATGAATTTCTTAGTTTTGCA
162367 TATATAGTGT
Statistics
Matches: 239, Mismatches: 18, Indels: 3
0.92 0.07 0.01
Matches are distributed among these distances:
164 132 0.55
165 106 0.44
166 1 0.00
ACGTcount: A:0.34, C:0.16, G:0.13, T:0.37
Consensus pattern (165 bp):
GGAAATTCATAAACTTATTATGAATTTCTTAGTTTTGCACACAAAGTGCCCATACGGAAATTCAT
AAACTTATTATGAATTTCTTAGTTTTGCACACAAAGTGCCCATACGAAAATTCATAAACTTATTA
TGAATTTCTTATGTTTGCACACAAAGTGCTCATAC
Found at i:167441 original size:85 final size:85
Alignment explanation
Indices: 167298--167458 Score: 234
Period size: 85 Copynumber: 1.9 Consensus size: 85
167288 TGTAAGTCAT
* *
167298 ACAAATGTGTGTCATCTTCATTTATGACGGGGGCTTTAATGACACGCAATGTAAGTCATACATGC
1 ACAAATGTGTGTCATCTTCATTTATGACGGGGGCTTCAATGACACGCAATGTAAGTCATAAATGC
* *
167363 GTGTTATAAATTTATGACAC
66 GCGTCATAAATTTATGACAC
** * *
167383 ACAAATGTGTGTCATCTTCATTTATGACGGGGGCTTCAATGATGCGCAGTG-AGCGTCATAAATG
1 ACAAATGTGTGTCATCTTCATTTATGACGGGGGCTTCAATGACACGCAATGTA-AGTCATAAATG
167447 CGCGTCATAAAT
65 CGCGTCATAAAT
167459 GCGCGTCATA
Statistics
Matches: 67, Mismatches: 8, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
84 1 0.01
85 66 0.99
ACGTcount: A:0.29, C:0.17, G:0.22, T:0.31
Consensus pattern (85 bp):
ACAAATGTGTGTCATCTTCATTTATGACGGGGGCTTCAATGACACGCAATGTAAGTCATAAATGC
GCGTCATAAATTTATGACAC
Found at i:167453 original size:13 final size:13
Alignment explanation
Indices: 167435--167481 Score: 85
Period size: 13 Copynumber: 3.6 Consensus size: 13
167425 TGCGCAGTGA
167435 GCGTCATAAATGC
1 GCGTCATAAATGC
167448 GCGTCATAAATGC
1 GCGTCATAAATGC
167461 GCGTCATAAATGC
1 GCGTCATAAATGC
*
167474 GTGTCATA
1 GCGTCATA
167482 GATTTATGAC
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
13 33 1.00
ACGTcount: A:0.30, C:0.21, G:0.23, T:0.26
Consensus pattern (13 bp):
GCGTCATAAATGC
Found at i:168034 original size:37 final size:37
Alignment explanation
Indices: 167981--168153 Score: 190
Period size: 37 Copynumber: 4.6 Consensus size: 37
167971 GGGGTATTAC
* * *
167981 ATATAATATGGTTTTGAAAACACGTTTTTGAAAACAT
1 ATATTATATAGTTTTGAAAACACATTTTTGAAAACAT
**
168018 ATATTATATAGTTTTGAAAACACATTTTTGAAAATGT
1 ATATTATATAGTTTTGAAAACACATTTTTGAAAACAT
*
168055 ATAATATATATAGTATT-AAAA-ACATTTTTGAAAACAT
1 AT-AT-TATATAGTTTTGAAAACACATTTTTGAAAACAT
* * *
168092 ATATAATATAATTTTGAAAACATA-TTTTGAAAACAT
1 ATATTATATAGTTTTGAAAACACATTTTTGAAAACAT
168128 ATATAAATATATAGTTTTTGAAAACA
1 ATAT---TATATAG-TTTTGAAAACA
168154 TATTATTTTT
Statistics
Matches: 114, Mismatches: 14, Indels: 13
0.81 0.10 0.09
Matches are distributed among these distances:
35 8 0.07
36 22 0.19
37 52 0.46
38 6 0.05
39 15 0.13
40 11 0.10
ACGTcount: A:0.46, C:0.06, G:0.09, T:0.39
Consensus pattern (37 bp):
ATATTATATAGTTTTGAAAACACATTTTTGAAAACAT
Found at i:168120 original size:13 final size:13
Alignment explanation
Indices: 168073--168129 Score: 59
Period size: 13 Copynumber: 4.7 Consensus size: 13
168063 TATAGTATTA
168073 AAAACAT-TTTTG
1 AAAACATATTTTG
*
168085 AAAACATA-TAT-
1 AAAACATATTTTG
* *
168096 AATATA-ATTTTG
1 AAAACATATTTTG
168108 AAAACATATTTTG
1 AAAACATATTTTG
168121 AAAACATAT
1 AAAACATAT
168130 ATAAATATAT
Statistics
Matches: 35, Mismatches: 6, Indels: 7
0.73 0.12 0.15
Matches are distributed among these distances:
10 1 0.03
11 6 0.17
12 13 0.37
13 15 0.43
ACGTcount: A:0.51, C:0.07, G:0.05, T:0.37
Consensus pattern (13 bp):
AAAACATATTTTG
Found at i:168234 original size:16 final size:16
Alignment explanation
Indices: 168192--168224 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
168182 ATATAGTTTT
168192 TATTATAAATTATTTA
1 TATTATAAATTATTTA
168208 TATTATAAATTATTTA
1 TATTATAAATTATTTA
168224 T
1 T
168225 TTTTTTAATT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (16 bp):
TATTATAAATTATTTA
Found at i:170651 original size:20 final size:22
Alignment explanation
Indices: 170598--170656 Score: 70
Period size: 20 Copynumber: 2.8 Consensus size: 22
170588 CTTTTATTTT
170598 TTAAAATATTTATAGTATTTTAA
1 TTAAAATATTTA-AGTATTTTAA
* *
170621 TT-TAATCTTTAAGT-TTTTAA
1 TTAAAATATTTAAGTATTTTAA
170641 TTAAAAT-TTTAAGTAT
1 TTAAAATATTTAAGTAT
170657 AAATAAATTA
Statistics
Matches: 31, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
20 15 0.48
21 7 0.23
22 7 0.23
23 2 0.06
ACGTcount: A:0.39, C:0.02, G:0.05, T:0.54
Consensus pattern (22 bp):
TTAAAATATTTAAGTATTTTAA
Found at i:171866 original size:21 final size:21
Alignment explanation
Indices: 171842--171883 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
171832 GTGGGATGAT
171842 GTACTAGATCCCTTAAGCAAA
1 GTACTAGATCCCTTAAGCAAA
171863 GTACTAGATCCCTTAAGCAAA
1 GTACTAGATCCCTTAAGCAAA
171884 TGTCAGGGGT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.38, C:0.24, G:0.14, T:0.24
Consensus pattern (21 bp):
GTACTAGATCCCTTAAGCAAA
Found at i:174396 original size:53 final size:52
Alignment explanation
Indices: 174316--174634 Score: 458
Period size: 53 Copynumber: 6.0 Consensus size: 52
174306 ACTAAGGTAA
*
174316 CGAAATGGAAATTCACAAACTCATTATGAATACCATGGATGCACACATAGTG
1 CGAAATGGTAATTCACAAACTCATTATGAATACCATGGATGCACACATAGTG
* * *
174368 TCGAAATGGTAATTCAAAAACTCGTTATGAATACCATGGATGCACACATAGTAC
1 -CGAAATGGTAATTCACAAACTCATTATGAATACCATGGATGCACACATAGT-G
* *
174422 CAAAATGGTAATTCACAAACTCATTATGAATATCATGGATGCACACATAGTG
1 CGAAATGGTAATTCACAAACTCATTATGAATACCATGGATGCACACATAGTG
* * *
174474 CCGAAATGGTAATTCAAAAAACTCCTTATGAATACCATGGATGCATACATAGTG
1 -CGAAATGGTAATTC-ACAAACTCATTATGAATACCATGGATGCACACATAGTG
* *
174528 CGGAAATAGTAATTCACAAACTCATTATGAATACCATTGATGCACACATAGTG
1 C-GAAATGGTAATTCACAAACTCATTATGAATACCATGGATGCACACATAGTG
* * *
174581 CTGAAATGGTAATTCACAAACTCGTTATGAATATCATGGATGCACACATTGTG
1 C-GAAATGGTAATTCACAAACTCATTATGAATACCATGGATGCACACATAGTG
174634 C
1 C
174635 CAAAATTACA
Statistics
Matches: 237, Mismatches: 25, Indels: 8
0.88 0.09 0.03
Matches are distributed among these distances:
53 191 0.81
54 46 0.19
ACGTcount: A:0.39, C:0.18, G:0.17, T:0.26
Consensus pattern (52 bp):
CGAAATGGTAATTCACAAACTCATTATGAATACCATGGATGCACACATAGTG
Found at i:174512 original size:160 final size:159
Alignment explanation
Indices: 174316--174640 Score: 499
Period size: 160 Copynumber: 2.0 Consensus size: 159
174306 ACTAAGGTAA
* *
174316 CGAAATGGAAATTCACAAACTCATTATGAATACCATGGATGCACACATAGTGTC-GAAATGGTAA
1 CGAAATGGAAATTCAAAAACTCATTATGAATACCATGGATGCACACATAGTG-CGGAAATAGTAA
*
174380 TTCAAAAACTCGTTATGAATACCATGGATGCACACATAGTACCAAAATGGTAATTCACAAACTCA
65 TTCAAAAACTCATTATGAATACCATGGATGCACACATAGTACCAAAATGGTAATTCACAAACTCA
174445 TTATGAATATCATGGATGCACACATAGTGC
130 TTATGAATATCATGGATGCACACATAGTGC
* * *
174475 CGAAATGGTAATTCAAAAAACTCCTTATGAATACCATGGATGCATACATAGTGCGGAAATAGTAA
1 CGAAATGGAAATTC-AAAAACTCATTATGAATACCATGGATGCACACATAGTGCGGAAATAGTAA
* * * ** *
174540 TTCACAAACTCATTATGAATACCATTGATGCACACATAGTGCTGAAATGGTAATTCACAAACTCG
65 TTCAAAAACTCATTATGAATACCATGGATGCACACATAGTACCAAAATGGTAATTCACAAACTCA
*
174605 TTATGAATATCATGGATGCACACATTGTGC
130 TTATGAATATCATGGATGCACACATAGTGC
*
174635 CAAAAT
1 CGAAAT
174641 TACACATAGT
Statistics
Matches: 150, Mismatches: 14, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
159 14 0.09
160 136 0.91
ACGTcount: A:0.39, C:0.18, G:0.16, T:0.26
Consensus pattern (159 bp):
CGAAATGGAAATTCAAAAACTCATTATGAATACCATGGATGCACACATAGTGCGGAAATAGTAAT
TCAAAAACTCATTATGAATACCATGGATGCACACATAGTACCAAAATGGTAATTCACAAACTCAT
TATGAATATCATGGATGCACACATAGTGC
Found at i:174559 original size:107 final size:106
Alignment explanation
Indices: 174325--174640 Score: 506
Period size: 107 Copynumber: 3.0 Consensus size: 106
174315 ACGAAATGGA
*
174325 AATTCACAAACTCATTATGAATACCATGGATGCACACATAGTGTCGAAATGGTAATTCAAAAACT
1 AATTCACAAACTCATTATGAATACCATGGATGCACACATAGTGCCGAAATGGTAATTCAAAAACT
* *
174390 CGTTATGAATACCATGGATGCACACATAGTACCAAAATGGT
66 CGTTATGAATACCATGGATGCACACATAGTGCCAAAATAGT
*
174431 AATTCACAAACTCATTATGAATATCATGGATGCACACATAGTGCCGAAATGGTAATTCAAAAAAC
1 AATTCACAAACTCATTATGAATACCATGGATGCACACATAGTGCCGAAATGGTAATTC-AAAAAC
* * **
174496 TCCTTATGAATACCATGGATGCATACATAGTGCGGAAATAGT
65 TCGTTATGAATACCATGGATGCACACATAGTGCCAAAATAGT
* * *
174538 AATTCACAAACTCATTATGAATACCATTGATGCACACATAGTGCTGAAATGGTAATTCACAAACT
1 AATTCACAAACTCATTATGAATACCATGGATGCACACATAGTGCCGAAATGGTAATTCAAAAACT
* *
174603 CGTTATGAATATCATGGATGCACACATTGTGCCAAAAT
66 CGTTATGAATACCATGGATGCACACATAGTGCCAAAAT
174641 TACACATAGT
Statistics
Matches: 191, Mismatches: 18, Indels: 2
0.91 0.09 0.01
Matches are distributed among these distances:
106 94 0.49
107 97 0.51
ACGTcount: A:0.39, C:0.19, G:0.16, T:0.27
Consensus pattern (106 bp):
AATTCACAAACTCATTATGAATACCATGGATGCACACATAGTGCCGAAATGGTAATTCAAAAACT
CGTTATGAATACCATGGATGCACACATAGTGCCAAAATAGT
Found at i:176636 original size:36 final size:34
Alignment explanation
Indices: 176529--176636 Score: 103
Period size: 38 Copynumber: 3.0 Consensus size: 34
176519 TATTTAGCAT
176529 ATATATAGTTTTT-AAAT-ATTTTTTAAAATATATA
1 ATATATAGTTTTTAAAATGA-TTTTTAAAA-ATATA
* * *
176563 ATATATAGTTTTTAGATAACGGTTTTTGAAACCATATA
1 ATATATAGTTTTTA-A-AATGATTTTT-AAA-AATATA
176601 ATATATAGTTTTTTAAAATTGATTTTTAAAAATATA
1 ATATATAG-TTTTTAAAA-TGATTTTTAAAAATATA
176637 TAATGTAACA
Statistics
Matches: 60, Mismatches: 6, Indels: 14
0.75 0.08 0.17
Matches are distributed among these distances:
34 13 0.22
36 6 0.10
37 12 0.20
38 23 0.38
39 6 0.10
ACGTcount: A:0.42, C:0.03, G:0.07, T:0.48
Consensus pattern (34 bp):
ATATATAGTTTTTAAAATGATTTTTAAAAATATA
Found at i:177336 original size:55 final size:55
Alignment explanation
Indices: 177274--177699 Score: 681
Period size: 55 Copynumber: 7.7 Consensus size: 55
177264 CTACCAATAT
*
177274 GGAAATTCATAAACTTATTATGAACTTCTTAGTTTTGCACACAAAGTGCCCATAC
1 GGAAATTCATAAACTTATTATGAATTTCTTAGTTTTGCACACAAAGTGCCCATAC
* * *
177329 GAAAATTCATAAACTTATTATGAATTTCTTAGTTTTGCACACAAAGTGCCTATAA
1 GGAAATTCATAAACTTATTATGAATTTCTTAGTTTTGCACACAAAGTGCCCATAC
* * **
177384 GAAAATTCATAAACTTATTATGAATTTTTTAGTTTTGCACACAAAGTTTCCATAC
1 GGAAATTCATAAACTTATTATGAATTTCTTAGTTTTGCACACAAAGTGCCCATAC
* *
177439 TGAAATTCATAAACTTATTATGAATTTTTTAGTTTTGCACACAAAGTGCCCATAC
1 GGAAATTCATAAACTTATTATGAATTTCTTAGTTTTGCACACAAAGTGCCCATAC
* * ***
177494 GGAAATTCATAAACTTATCATGAATTTCTTAGTTCTGTGTACAAAGTGCCCATAC
1 GGAAATTCATAAACTTATTATGAATTTCTTAGTTTTGCACACAAAGTGCCCATAC
* *
177549 GGAAATTCATAAACTTGTTATGAATTTCTTAGTTTTGCACACAAAGTGCTCATAC
1 GGAAATTCATAAACTTATTATGAATTTCTTAGTTTTGCACACAAAGTGCCCATAC
* *
177604 GGAAATTCATAAACTTGTTATAAATTTCTTAGTTTTGCACACAAAGTGCCCATAC
1 GGAAATTCATAAACTTATTATGAATTTCTTAGTTTTGCACACAAAGTGCCCATAC
177659 GGAAATTCATAAACTTATTATGAATTTCTTAGTTTTGCACA
1 GGAAATTCATAAACTTATTATGAATTTCTTAGTTTTGCACA
177700 TATAGTGTCA
Statistics
Matches: 340, Mismatches: 31, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
55 340 1.00
ACGTcount: A:0.35, C:0.16, G:0.12, T:0.37
Consensus pattern (55 bp):
GGAAATTCATAAACTTATTATGAATTTCTTAGTTTTGCACACAAAGTGCCCATAC
Found at i:179535 original size:2 final size:2
Alignment explanation
Indices: 179528--179557 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
179518 GATATTAGAC
179528 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
179558 TGATTTCATT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:179643 original size:16 final size:16
Alignment explanation
Indices: 179622--179660 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
179612 ATGATGGTAC
179622 ACTGCAAAGGTTTCTA
1 ACTGCAAAGGTTTCTA
*
179638 ACTGCAATGGTTTCTA
1 ACTGCAAAGGTTTCTA
*
179654 GCTGCAA
1 ACTGCAA
179661 GTTGATGAAC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.28, C:0.21, G:0.21, T:0.31
Consensus pattern (16 bp):
ACTGCAAAGGTTTCTA
Found at i:182778 original size:85 final size:85
Alignment explanation
Indices: 182628--182788 Score: 234
Period size: 85 Copynumber: 1.9 Consensus size: 85
182618 TGTAAGTCAT
* * * *
182628 ACAAATATGTGTCATCTTCATTTATGATGGGGGCTTCAATGACACGCAATGTAAGTCATACATGC
1 ACAAATATGTGTCATCTTCATTTATGACGAGGGCTTCAATGACACGCAATGTAAGTAATAAATGC
*
182693 GTGTCATAAATTTATGACAC
66 GCGTCATAAATTTATGACAC
* * *
182713 ACAAATGTGTGTCATCTTCATTTATGACGAGGGCTTCAATGACGCGCAATG-AGCGTAATAAATG
1 ACAAATATGTGTCATCTTCATTTATGACGAGGGCTTCAATGACACGCAATGTA-AGTAATAAATG
182777 CGCGTCATAAAT
65 CGCGTCATAAAT
182789 GCATGTCATA
Statistics
Matches: 67, Mismatches: 8, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
84 1 0.01
85 66 0.99
ACGTcount: A:0.32, C:0.18, G:0.20, T:0.30
Consensus pattern (85 bp):
ACAAATATGTGTCATCTTCATTTATGACGAGGGCTTCAATGACACGCAATGTAAGTAATAAATGC
GCGTCATAAATTTATGACAC
Found at i:182781 original size:13 final size:13
Alignment explanation
Indices: 182760--182824 Score: 76
Period size: 13 Copynumber: 5.0 Consensus size: 13
182750 AATGACGCGC
* *
182760 AATGAGCGTAATA
1 AATGCGCGTCATA
182773 AATGCGCGTCATA
1 AATGCGCGTCATA
**
182786 AATGCATGTCATA
1 AATGCGCGTCATA
*
182799 AATGCGTGTCATA
1 AATGCGCGTCATA
*
182812 AATGCGTGTCATA
1 AATGCGCGTCATA
182825 GATTTATGAC
Statistics
Matches: 47, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 47 1.00
ACGTcount: A:0.35, C:0.15, G:0.22, T:0.28
Consensus pattern (13 bp):
AATGCGCGTCATA
Found at i:182821 original size:26 final size:26
Alignment explanation
Indices: 182770--182824 Score: 92
Period size: 26 Copynumber: 2.1 Consensus size: 26
182760 AATGAGCGTA
182770 ATAAATGCGCGTCATAAATGCATGTC
1 ATAAATGCGCGTCATAAATGCATGTC
* *
182796 ATAAATGCGTGTCATAAATGCGTGTC
1 ATAAATGCGCGTCATAAATGCATGTC
182822 ATA
1 ATA
182825 GATTTATGAC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.35, C:0.16, G:0.20, T:0.29
Consensus pattern (26 bp):
ATAAATGCGCGTCATAAATGCATGTC
Found at i:183389 original size:37 final size:37
Alignment explanation
Indices: 183331--183488 Score: 162
Period size: 37 Copynumber: 4.3 Consensus size: 37
183321 GGGGTATTAC
* * * *
183331 ATATAATATGGTTTTGAAAACACGTTTTTGAAAACAT
1 ATATTATATAGTTTTGTAAACACATTTTTGAAAACAT
*
183368 ATATTATATAGTTTTGTAAACACATTTTTGAAAACGT
1 ATATTATATAGTTTTGTAAACACATTTTTGAAAACAT
* * *
183405 ATAATATATATAG-TAT-TAAAAACGTTTTTGAAAACAT
1 AT-AT-TATATAGTTTTGTAAACACATTTTTGAAAACAT
* *
183442 ATATAATATAGTTTTG-AAA-ATATATTTTGAAAACAT
1 ATATTATATAGTTTTGTAAACACAT-TTTTGAAAACAT
183478 ATATATATATA
1 ATAT-TATATA
183489 TAACGATTTT
Statistics
Matches: 101, Mismatches: 14, Indels: 12
0.80 0.11 0.09
Matches are distributed among these distances:
35 8 0.08
36 23 0.23
37 59 0.58
38 4 0.04
39 7 0.07
ACGTcount: A:0.44, C:0.06, G:0.09, T:0.41
Consensus pattern (37 bp):
ATATTATATAGTTTTGTAAACACATTTTTGAAAACAT
Found at i:183451 original size:74 final size:75
Alignment explanation
Indices: 183347--183490 Score: 222
Period size: 74 Copynumber: 1.9 Consensus size: 75
183337 TATGGTTTTG
* *
183347 AAAACACGTTTTTGAAAACATATATTATATAGTTTTGTAAACACAT-TTTTGAAAACGTATA-AT
1 AAAACACGTTTTTGAAAACATATATAATATAGTTTTG-AAA-ACATATTTTGAAAACATATATAT
183410 ATATATAGTATT
64 ATATATAGTATT
*
183422 AAAA-ACGTTTTTGAAAACATATATAATATAGTTTTGAAAATATATTTTGAAAACATATATATAT
1 AAAACACGTTTTTGAAAACATATATAATATAGTTTTGAAAACATATTTTGAAAACATATATATAT
183486 ATATA
66 ATATA
183491 ACGATTTTTA
Statistics
Matches: 64, Mismatches: 3, Indels: 5
0.89 0.04 0.07
Matches are distributed among these distances:
72 3 0.05
73 17 0.27
74 40 0.62
75 4 0.06
ACGTcount: A:0.46, C:0.06, G:0.08, T:0.40
Consensus pattern (75 bp):
AAAACACGTTTTTGAAAACATATATAATATAGTTTTGAAAACATATTTTGAAAACATATATATAT
ATATAGTATT
Found at i:183471 original size:13 final size:13
Alignment explanation
Indices: 183446--183479 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
183436 AAACATATAT
183446 AATATAGTTTTGAA
1 AATATA-TTTTGAA
183460 AATATATTTTGAA
1 AATATATTTTGAA
*
183473 AACATAT
1 AATATAT
183480 ATATATATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 13 0.68
14 6 0.32
ACGTcount: A:0.47, C:0.03, G:0.09, T:0.41
Consensus pattern (13 bp):
AATATATTTTGAA
Found at i:183518 original size:28 final size:29
Alignment explanation
Indices: 183466--183534 Score: 90
Period size: 30 Copynumber: 2.4 Consensus size: 29
183456 TGAAAATATA
183466 TTTTGAAAACATATATATATATATA-ACGAT
1 TTTTGAAAACATATATATATATATATA-G-T
*
183496 TTTTAAAAACATATATA-A-ATATATAGT
1 TTTTGAAAACATATATATATATATATAGT
183523 TTTTGAAAACAT
1 TTTTGAAAACAT
183535 GTTGTTTTTG
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
27 12 0.33
28 6 0.17
29 2 0.06
30 16 0.44
ACGTcount: A:0.48, C:0.06, G:0.06, T:0.41
Consensus pattern (29 bp):
TTTTGAAAACATATATATATATATATAGT
Found at i:183578 original size:21 final size:21
Alignment explanation
Indices: 183554--183596 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
183544 GAAAATATAA
*
183554 TATATGTTATATAATT-TTTAT
1 TATATATTAT-TAATTATTTAT
183575 TATATATTATTAATTATTTAT
1 TATATATTATTAATTATTTAT
183596 T
1 T
183597 TTTTTAATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 5 0.25
21 15 0.75
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (21 bp):
TATATATTATTAATTATTTAT
Found at i:185984 original size:22 final size:21
Alignment explanation
Indices: 185959--186025 Score: 68
Period size: 22 Copynumber: 3.1 Consensus size: 21
185949 TTCATACTTT
185959 TATTTTTTTAAAATATTTATAG
1 TATTTTTTTAAAATATTTA-AG
185981 TATTTTAATTT--AATATTTAAG
1 TATTTT--TTTAAAATATTTAAG
*
186002 TTTTTTTATTAAAAT-TTTAAG
1 TATTTTT-TTAAAATATTTAAG
186023 TAT
1 TAT
186026 AAATAATTTA
Statistics
Matches: 38, Mismatches: 2, Indels: 11
0.75 0.04 0.22
Matches are distributed among these distances:
19 1 0.03
20 2 0.05
21 15 0.39
22 17 0.45
24 3 0.08
ACGTcount: A:0.36, C:0.00, G:0.04, T:0.60
Consensus pattern (21 bp):
TATTTTTTTAAAATATTTAAG
Found at i:186020 original size:21 final size:22
Alignment explanation
Indices: 185959--186025 Score: 77
Period size: 21 Copynumber: 3.1 Consensus size: 22
185949 TTCATACTTT
185959 TATTTTT-TTAAAATATTTATAG
1 TATTTTTATTAAAATATTTA-AG
* *
185981 TATTTTAATT-TAATATTTAAG
1 TATTTTTATTAAAATATTTAAG
*
186002 TTTTTTTATTAAAAT-TTTAAG
1 TATTTTTATTAAAATATTTAAG
186023 TAT
1 TAT
186026 AAATAATTTA
Statistics
Matches: 37, Mismatches: 6, Indels: 5
0.77 0.12 0.10
Matches are distributed among these distances:
21 18 0.49
22 17 0.46
23 2 0.05
ACGTcount: A:0.36, C:0.00, G:0.04, T:0.60
Consensus pattern (22 bp):
TATTTTTATTAAAATATTTAAG
Found at i:187241 original size:21 final size:21
Alignment explanation
Indices: 187215--187257 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
187205 GTGGGATGAT
187215 GTACTAGATCCCTTAAACAAA
1 GTACTAGATCCCTTAAACAAA
*
187236 GTACTAGATCCCTTAAGCAAA
1 GTACTAGATCCCTTAAACAAA
187257 G
1 G
187258 GTCAGGGGTT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.40, C:0.23, G:0.14, T:0.23
Consensus pattern (21 bp):
GTACTAGATCCCTTAAACAAA
Found at i:188936 original size:38 final size:35
Alignment explanation
Indices: 188829--188938 Score: 116
Period size: 38 Copynumber: 3.0 Consensus size: 35
188819 TTTAGCATAC
188829 ATATAGTTTTT-AAAT-ATTTTTTAAAATATATAAT
1 ATATAGTTTTTAAAATGA-TTTTTAAAATATATAAT
* * *
188863 ATATAGTTTTTAGAAAACGGTTTTTGAAATCATATAAT
1 ATATAGTTTTT--AAAATGATTTTTAAAAT-ATATAAT
188901 ATATAGTTTTTAAAATTTGATTTTTAAAAATATATAAT
1 ATATAGTTTTTAAAA--TGATTTTT-AAAATATATAAT
188939 GTAACACCCA
Statistics
Matches: 62, Mismatches: 6, Indels: 12
0.77 0.08 0.15
Matches are distributed among these distances:
34 11 0.18
36 4 0.06
37 12 0.19
38 31 0.50
39 4 0.06
ACGTcount: A:0.43, C:0.02, G:0.07, T:0.48
Consensus pattern (35 bp):
ATATAGTTTTTAAAATGATTTTTAAAATATATAAT
Found at i:190072 original size:55 final size:55
Alignment explanation
Indices: 190010--190339 Score: 473
Period size: 55 Copynumber: 6.0 Consensus size: 55
190000 CTACCAATAT
* * *
190010 GGAAATTCATAAACTTATTATGGATTTCTTAGTTTTACACACAAAGTGCCTATAA
1 GGAAATTCATAAACTTATTATGAATTTCTTAGTTTTGCACACAAAGTGCCCATAA
190065 GGAAATTCATAAACTTATTATGAATTTCTTAGTTTTGCACACAAAGTGCCCATACA
1 GGAAATTCATAAACTTATTATGAATTTCTTAGTTTTGCACACAAAGTGCCCATA-A
* * * * *
190121 -TAAATTCATAAATTTATTATGACTTTCTTAGTTTTGCAAACAAAGTGCCCATAT
1 GGAAATTCATAAACTTATTATGAATTTCTTAGTTTTGCACACAAAGTGCCCATAA
* * * *
190175 GAAAAATCATAAACTTATTATAAATTTCTTAGTTTTGCACACAAAGTGCCCATAC
1 GGAAATTCATAAACTTATTATGAATTTCTTAGTTTTGCACACAAAGTGCCCATAA
* * * *
190230 GAAAATTCATAAACTTATTATGAATTTTTTTAGTTTTGCACACAAAGTGTCCATAC
1 GGAAATTCATAAACTTATTATGAA-TTTCTTAGTTTTGCACACAAAGTGCCCATAA
* *
190286 TGAAATTCATAAACATATTATGAATTTCTTAGTTTTGCACACAAAGTGCCCATA
1 GGAAATTCATAAACTTATTATGAATTTCTTAGTTTTGCACACAAAGTGCCCATA
190340 CGTGCTATTA
Statistics
Matches: 248, Mismatches: 24, Indels: 6
0.89 0.09 0.02
Matches are distributed among these distances:
55 197 0.79
56 51 0.21
ACGTcount: A:0.37, C:0.16, G:0.11, T:0.36
Consensus pattern (55 bp):
GGAAATTCATAAACTTATTATGAATTTCTTAGTTTTGCACACAAAGTGCCCATAA
Found at i:192657 original size:35 final size:35
Alignment explanation
Indices: 192615--192706 Score: 148
Period size: 35 Copynumber: 2.6 Consensus size: 35
192605 TCAGTACCCA
192615 TGAAGGTTGAAATGATGAACTTCACTACTCTTTCG
1 TGAAGGTTGAAATGATGAACTTCACTACTCTTTCG
* *
192650 TGAAGGTTGAAATGATGATCTTCACTACTCTTTTG
1 TGAAGGTTGAAATGATGAACTTCACTACTCTTTCG
* *
192685 TAAAGGTTGAAATTATGAACTT
1 TGAAGGTTGAAATGATGAACTT
192707 GAGAAGAATC
Statistics
Matches: 52, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
35 52 1.00
ACGTcount: A:0.30, C:0.13, G:0.20, T:0.37
Consensus pattern (35 bp):
TGAAGGTTGAAATGATGAACTTCACTACTCTTTCG
Found at i:192888 original size:20 final size:20
Alignment explanation
Indices: 192865--192931 Score: 89
Period size: 20 Copynumber: 3.4 Consensus size: 20
192855 TTACCCTAAT
*
192865 GTTTTACAAATTACTTGGAA
1 GTTTTACAAATTACCTGGAA
*
192885 GTTTTACAAATTACCTGGAG
1 GTTTTACAAATTACCTGGAA
* * *
192905 GTTTTACAAATGACCAGGAG
1 GTTTTACAAATTACCTGGAA
192925 GTTTTAC
1 GTTTTAC
192932 TTTTCTTGAT
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 43 1.00
ACGTcount: A:0.31, C:0.13, G:0.19, T:0.36
Consensus pattern (20 bp):
GTTTTACAAATTACCTGGAA
Found at i:200432 original size:14 final size:15
Alignment explanation
Indices: 200405--200434 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
200395 TCTTCTCTCT
200405 TTTCTTTCGTTGTTG
1 TTTCTTTCGTTGTTG
200420 TTTCTTT-GTTGTTG
1 TTTCTTTCGTTGTTG
200434 T
1 T
200435 GCTTCCCTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 8 0.53
15 7 0.47
ACGTcount: A:0.00, C:0.10, G:0.20, T:0.70
Consensus pattern (15 bp):
TTTCTTTCGTTGTTG
Found at i:202787 original size:22 final size:23
Alignment explanation
Indices: 202750--202802 Score: 76
Period size: 22 Copynumber: 2.4 Consensus size: 23
202740 TCATTTTATT
202750 TGCATATT-A-TATATTATATGA
1 TGCATATTCATTATATTATATGA
*
202771 TGCAT-TTCATTATATTATATGT
1 TGCATATTCATTATATTATATGA
202793 TGCATATTCA
1 TGCATATTCA
202803 CATAAATTGC
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
20 2 0.07
21 6 0.21
22 16 0.57
23 4 0.14
ACGTcount: A:0.32, C:0.09, G:0.09, T:0.49
Consensus pattern (23 bp):
TGCATATTCATTATATTATATGA
Found at i:203367 original size:35 final size:35
Alignment explanation
Indices: 203255--203387 Score: 130
Period size: 35 Copynumber: 3.8 Consensus size: 35
203245 ACAAAGTTGC
* *
203255 CTTTCCAAGAG--ACAATGCTTCATCAAAAGGCGT
1 CTTTCCAAGAGACACAATGCTTCATCAAAGGGTGT
* * * * **
203288 CTTTCCAA-AGAAAAGTAACGCTTCACCAAAACGTGT
1 CTTTCCAAGAG-ACA-CAATGCTTCATCAAAGGGTGT
*
203324 CTTTCCAAGGGACACAATGCTTCATCAAAGGGTGT
1 CTTTCCAAGAGACACAATGCTTCATCAAAGGGTGT
203359 -TTTCCCAAGAGACACAATGCTTCATCAAA
1 CTTT-CCAAGAGACACAATGCTTCATCAAA
203388 AGTCATGATG
Statistics
Matches: 81, Mismatches: 13, Indels: 10
0.78 0.12 0.10
Matches are distributed among these distances:
32 2 0.02
33 8 0.10
34 3 0.04
35 41 0.51
36 26 0.32
37 1 0.01
ACGTcount: A:0.35, C:0.25, G:0.17, T:0.24
Consensus pattern (35 bp):
CTTTCCAAGAGACACAATGCTTCATCAAAGGGTGT
Found at i:204500 original size:30 final size:29
Alignment explanation
Indices: 204463--204562 Score: 121
Period size: 30 Copynumber: 3.3 Consensus size: 29
204453 AATCATATTC
*
204463 AATTTAAAGGAAC-AAAATAGCAAAAATATA
1 AATTTAAAGG-ACTAAAA-AGCAAAAATAGA
* * *
204493 AAGTTAAAGGGCTAAAACAGCAAAAATAGC
1 AATTTAAAGGACTAAAA-AGCAAAAATAGA
204523 AATTTAAAGGACTAAAAAGACAAAAATAGA
1 AATTTAAAGGACTAAAAAG-CAAAAATAGA
204553 AATTTAAAGG
1 AATTTAAAGG
204563 TCTGAACCAT
Statistics
Matches: 60, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
29 3 0.05
30 57 0.95
ACGTcount: A:0.59, C:0.08, G:0.15, T:0.18
Consensus pattern (29 bp):
AATTTAAAGGACTAAAAAGCAAAAATAGA
Found at i:205242 original size:20 final size:20
Alignment explanation
Indices: 205219--205257 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
205209 AATATCAAAC
205219 TTTTTTTAATTTAATTTCAT
1 TTTTTTTAATTTAATTTCAT
*
205239 TTTTTTTAATTTCATTTCA
1 TTTTTTTAATTTAATTTCA
205258 ACGGTCAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.23, C:0.08, G:0.00, T:0.69
Consensus pattern (20 bp):
TTTTTTTAATTTAATTTCAT
Done.