Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold202
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: 2706578
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Warning! 499 characters in sequence are not A, C, G, or T
File 1 of 16
Found at i:403 original size:14 final size:14
Alignment explanation
Indices: 384--410 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
374 CACACCAAGT
384 ATGTATCGATACAA
1 ATGTATCGATACAA
398 ATGTATCGATACA
1 ATGTATCGATACA
411 CAAAAATTTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (14 bp):
ATGTATCGATACAA
Found at i:1756 original size:19 final size:21
Alignment explanation
Indices: 1708--1763 Score: 71
Period size: 19 Copynumber: 2.8 Consensus size: 21
1698 CTGCCAATCA
**
1708 CATGTATCGATACAATCTTTG
1 CATGTATCGATACAATCAGTG
*
1729 CAAGTATCGATACAAT-AGT-
1 CATGTATCGATACAATCAGTG
1748 CATGTATCGATACAAT
1 CATGTATCGATACAAT
1764 GTATCGATAT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
19 15 0.48
20 1 0.03
21 15 0.48
ACGTcount: A:0.36, C:0.18, G:0.14, T:0.32
Consensus pattern (21 bp):
CATGTATCGATACAATCAGTG
Found at i:4394 original size:12 final size:12
Alignment explanation
Indices: 4377--4401 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
4367 GCCCATGGTG
4377 TTGGTAGCATAT
1 TTGGTAGCATAT
4389 TTGGTAGCATAT
1 TTGGTAGCATAT
4401 T
1 T
4402 CTTAAAATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.24, C:0.08, G:0.24, T:0.44
Consensus pattern (12 bp):
TTGGTAGCATAT
Found at i:7042 original size:2 final size:2
Alignment explanation
Indices: 7031--7066 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
7021 TAAGCTTGAC
7031 AT AT -T 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 A
7067 AATGCCCTAT
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 32 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:9764 original size:94 final size:94
Alignment explanation
Indices: 9591--9784 Score: 345
Period size: 94 Copynumber: 2.1 Consensus size: 94
9581 TCAGTTTTTG
*
9591 TTTCTTTCCAGTCAGCTTGGCACATAATGAAATACTCTTGAATGGAATTTATTCTGATTAATTGA
1 TTTCTTCCCAGTCAGCTTGGCACATAATGAAATACTCTTGAATGGAATTTATTCTGATTAATTGA
9656 ATCTTAGAAGGTTTTTTCTTTTTATTCTT
66 ATCTTAGAAGGTTTTTTCTTTTTATTCTT
* *
9685 TTTCTTCCCAGTGAGCTTGGCACATAATGAAATATTCTTTGAATGGAATTTATTCTGATTAATTG
1 TTTCTTCCCAGTCAGCTTGGCACATAATGAAATACTC-TTGAATGGAATTTATTCTGATTAATTG
9750 AATCTTAGAA-GTTTTTTCTTTTTATTCTT
65 AATCTTAGAAGGTTTTTTCTTTTTATTCTT
9779 TTTCTT
1 TTTCTT
9785 TCTTAAATTT
Statistics
Matches: 96, Mismatches: 3, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
94 59 0.61
95 37 0.39
ACGTcount: A:0.25, C:0.13, G:0.13, T:0.48
Consensus pattern (94 bp):
TTTCTTCCCAGTCAGCTTGGCACATAATGAAATACTCTTGAATGGAATTTATTCTGATTAATTGA
ATCTTAGAAGGTTTTTTCTTTTTATTCTT
Found at i:12080 original size:24 final size:24
Alignment explanation
Indices: 12043--12092 Score: 75
Period size: 24 Copynumber: 2.1 Consensus size: 24
12033 TTAGTCAATG
*
12043 TGCTATTTTCACATTAATTTGTTA
1 TGCTATTTTCACATTAATTTATTA
12067 TGCTAGTTTT-ACATTAATTTATTA
1 TGCTA-TTTTCACATTAATTTATTA
12091 TG
1 TG
12093 TTGCTTGAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
24 20 0.83
25 4 0.17
ACGTcount: A:0.26, C:0.10, G:0.10, T:0.54
Consensus pattern (24 bp):
TGCTATTTTCACATTAATTTATTA
Found at i:14227 original size:14 final size:14
Alignment explanation
Indices: 14208--14240 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
14198 TTTAATTATC
14208 AAAAATAATAA-AAT
1 AAAAATAA-AAGAAT
14222 AAAAATAAAAGAAT
1 AAAAATAAAAGAAT
14236 AAAAA
1 AAAAA
14241 AGATAATTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 2 0.11
14 16 0.89
ACGTcount: A:0.82, C:0.00, G:0.03, T:0.15
Consensus pattern (14 bp):
AAAAATAAAAGAAT
Found at i:14875 original size:162 final size:162
Alignment explanation
Indices: 14608--14931 Score: 632
Period size: 162 Copynumber: 2.0 Consensus size: 162
14598 TTTTTGTATG
14608 GTTGGAAAGTTAAAAAATTTAAGACAAATTACCTAATAACTTTTCTTCATATTTAAAAATTGAAA
1 GTTGGAAAGTTAAAAAATTTAAGACAAATTACCTAATAACTTTTCTTCATATTTAAAAATTGAAA
14673 GTTAAATTTTTTTACCTAATATTTACTAATCACAAAATTATGAGAATTTAATAATTTTAAAATTA
66 GTTAAATTTTTTTACCTAATATTTACTAATCACAAAATTATGAGAATTTAATAATTTTAAAATTA
14738 TTTTAATTACTATTAAATTAAATTATATTCTA
131 TTTTAATTACTATTAAATTAAATTATATTCTA
14770 GTTGGAAAGTTAAAAAATTTAAGACAAATTACCTAATAACTTTTCTTCATATTTAAAAATTGAAA
1 GTTGGAAAGTTAAAAAATTTAAGACAAATTACCTAATAACTTTTCTTCATATTTAAAAATTGAAA
14835 GTT-AATTTGTTTTACCTAATATTTACTAATCACAAAATTATGAGAATTTAATAATTTTAAAATT
66 GTTAAATTT-TTTTACCTAATATTTACTAATCACAAAATTATGAGAATTTAATAATTTTAAAATT
14899 ATTTTAATTACTATTAAATTAAATTATATTCTA
130 ATTTTAATTACTATTAAATTAAATTATATTCTA
14932 ATTTAGATAC
Statistics
Matches: 161, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
161 5 0.03
162 156 0.97
ACGTcount: A:0.44, C:0.08, G:0.06, T:0.43
Consensus pattern (162 bp):
GTTGGAAAGTTAAAAAATTTAAGACAAATTACCTAATAACTTTTCTTCATATTTAAAAATTGAAA
GTTAAATTTTTTTACCTAATATTTACTAATCACAAAATTATGAGAATTTAATAATTTTAAAATTA
TTTTAATTACTATTAAATTAAATTATATTCTA
Found at i:16275 original size:19 final size:20
Alignment explanation
Indices: 16251--16304 Score: 92
Period size: 19 Copynumber: 2.8 Consensus size: 20
16241 CATTTATGCT
16251 TTGTATCGATACATGCTC-A
1 TTGTATCGATACATGCTCAA
*
16270 TTGTATCGATACATACTCAA
1 TTGTATCGATACATGCTCAA
16290 TTGTATCGATACATG
1 TTGTATCGATACATG
16305 AAACTGGCAG
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
19 17 0.53
20 15 0.47
ACGTcount: A:0.30, C:0.19, G:0.15, T:0.37
Consensus pattern (20 bp):
TTGTATCGATACATGCTCAA
Found at i:26267 original size:19 final size:20
Alignment explanation
Indices: 26239--26291 Score: 81
Period size: 19 Copynumber: 2.7 Consensus size: 20
26229 ATCAATACGA
*
26239 TGTATTGATACATGCTC-AT
1 TGTATCGATACATGCTCAAT
*
26258 TGTATCGATACATACTCAAT
1 TGTATCGATACATGCTCAAT
26278 TGTATCGATACATG
1 TGTATCGATACATG
26292 AAACTGGTAG
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
19 15 0.50
20 15 0.50
ACGTcount: A:0.30, C:0.17, G:0.15, T:0.38
Consensus pattern (20 bp):
TGTATCGATACATGCTCAAT
Found at i:30093 original size:58 final size:58
Alignment explanation
Indices: 30031--30159 Score: 136
Period size: 58 Copynumber: 2.2 Consensus size: 58
30021 TTAAAGTTAC
* * * **
30031 TTTAGTCATTTTTTATGT-TTTAAAGATTATTATGT-GATTGTGTGCATTTTAAGACCAT
1 TTTAGTCATTTTCTAT-TATTTAAAGACTATTATGTAAATT-CATGCATTTTAAGACCAT
* * * * *
30089 TTTAGCCATTTTCTATTATTTAAGGGCTATTATGTAAATTCATGCATTTTCATACCAT
1 TTTAGTCATTTTCTATTATTTAAAGACTATTATGTAAATTCATGCATTTTAAGACCAT
30147 TTTAGTCATTTTC
1 TTTAGTCATTTTC
30160 CATGACTTGG
Statistics
Matches: 58, Mismatches: 11, Indels: 4
0.79 0.15 0.05
Matches are distributed among these distances:
57 1 0.02
58 54 0.93
59 3 0.05
ACGTcount: A:0.26, C:0.12, G:0.12, T:0.50
Consensus pattern (58 bp):
TTTAGTCATTTTCTATTATTTAAAGACTATTATGTAAATTCATGCATTTTAAGACCAT
Found at i:30180 original size:58 final size:58
Alignment explanation
Indices: 30073--30313 Score: 207
Period size: 58 Copynumber: 4.2 Consensus size: 58
30063 TGTGATTGTG
* ** * * * * ** * *
30073 TGCATTTTAAGACCATTTTAGCCATTTTCTATTATTTAAGGGCTATTATGTAAATTCA
1 TGCATTTTAATACCATTTTAGTAATTTTCCATGACTTGAGGATTTTTATGTAATTTCA
* * * *
30131 TGCATTTTCATACCATTTTAGTCATTTTCCATGACTTG-GAGATTTTTATGTTATTTCG
1 TGCATTTTAATACCATTTTAGTAATTTTCCATGACTTGAG-GATTTTTATGTAATTTCA
** *
30189 TGCATTTTAATAGTATTTTAGTAATTTTTCATGACTTGAGGATTTTTATGTAATTTCA
1 TGCATTTTAATACCATTTTAGTAATTTTCCATGACTTGAGGATTTTTATGTAATTTCA
* *** * * * *
30247 TGCACTTTAATATTTTTTTAGTAAGTTCCCATGAC-TAAGGATAATTTATGTAATTTCA
1 TGCATTTTAATACCATTTTAGTAATTTTCCATGACTTGAGGAT-TTTTATGTAATTTCA
*
30305 TGTATTTTA
1 TGCATTTTA
30314 GTGTTATTTT
Statistics
Matches: 150, Mismatches: 30, Indels: 6
0.81 0.16 0.03
Matches are distributed among these distances:
57 7 0.05
58 142 0.95
59 1 0.01
ACGTcount: A:0.27, C:0.12, G:0.13, T:0.49
Consensus pattern (58 bp):
TGCATTTTAATACCATTTTAGTAATTTTCCATGACTTGAGGATTTTTATGTAATTTCA
Found at i:30263 original size:29 final size:29
Alignment explanation
Indices: 30173--30264 Score: 73
Period size: 29 Copynumber: 3.2 Consensus size: 29
30163 GACTTGGAGA
* * *
30173 TTTTTATGTTATTTCGTGCATTTTAATAGT
1 TTTTTATGTAATTTCATGCACTTTAATA-T
* * **
30203 ATTTTA-GTAATTTTTCATG-ACTTGAGGA-
1 TTTTTATGTAA--TTTCATGCACTTTAATAT
30231 TTTTTATGTAATTTCATGCACTTTAATAT
1 TTTTTATGTAATTTCATGCACTTTAATAT
30260 TTTTT
1 TTTTT
30265 TAGTAAGTTC
Statistics
Matches: 46, Mismatches: 11, Indels: 11
0.68 0.16 0.16
Matches are distributed among these distances:
27 7 0.15
28 11 0.24
29 12 0.26
30 10 0.22
31 6 0.13
ACGTcount: A:0.24, C:0.08, G:0.12, T:0.57
Consensus pattern (29 bp):
TTTTTATGTAATTTCATGCACTTTAATAT
Found at i:30270 original size:29 final size:29
Alignment explanation
Indices: 30173--30270 Score: 74
Period size: 30 Copynumber: 3.3 Consensus size: 29
30163 GACTTGGAGA
* * * *
30173 TTTTTATGTTATTTCGTGCATTTTAATAGT
1 TTTTTA-GTAATTTCATGCACTTTAATATT
* * **
30203 ATTTTAGTAATTTTTCATG-ACTTGAGGATT
1 TTTTTAGTAA--TTTCATGCACTTTAATATT
*
30233 TTTAT-GTAATTTCATGCACTTTAATATT
1 TTTTTAGTAATTTCATGCACTTTAATATT
30261 TTTTTAGTAA
1 TTTTTAGTAA
30271 GTTCCCATGA
Statistics
Matches: 50, Mismatches: 14, Indels: 9
0.68 0.19 0.12
Matches are distributed among these distances:
27 7 0.14
28 12 0.24
29 11 0.22
30 14 0.28
31 6 0.12
ACGTcount: A:0.26, C:0.07, G:0.12, T:0.55
Consensus pattern (29 bp):
TTTTTAGTAATTTCATGCACTTTAATATT
Found at i:30324 original size:58 final size:58
Alignment explanation
Indices: 30118--30369 Score: 168
Period size: 58 Copynumber: 4.3 Consensus size: 58
30108 TTAAGGGCTA
* * *** * * * * *
30118 TTATGTAAATTCATGCATTTTCATACCATTTTAGTCATTTTCCATGACTT-GGAGATTT
1 TTATGTAATTTCATGCATTTTAATGTTATTTTAGTAAGTTCCCATGACTTAAG-GATAT
* * * ** * *
30176 TTATGTTATTTCGTGCATTTTAATAG-TATTTTAGTAATTTTTCATGACTTGAGGATTT
1 TTATGTAATTTCATGCATTTTAAT-GTTATTTTAGTAAGTTCCCATGACTTAAGGATAT
* * *
30234 TTATGTAATTTCATGCACTTTAATATTTTTTTAGTAAGTTCCCATGAC-TAAGGATAAT
1 TTATGTAATTTCATGCATTTTAATGTTATTTTAGTAAGTTCCCATGACTTAAGGAT-AT
* * * * * ** * *
30292 TTATGTAATTTCATGTATTTTAGTGTTATTTTAATAATTTGCCATGTTTTAGGGCTAAT
1 TTATGTAATTTCATGCATTTTAATGTTATTTTAGTAAGTTCCCATGACTTAAGGAT-AT
* *
30351 TTATGCAATTTCGTGCATT
1 TTATGTAATTTCATGCATT
30370 GTACAATCAT
Statistics
Matches: 155, Mismatches: 34, Indels: 9
0.78 0.17 0.05
Matches are distributed among these distances:
57 6 0.04
58 124 0.80
59 25 0.16
ACGTcount: A:0.26, C:0.11, G:0.14, T:0.49
Consensus pattern (58 bp):
TTATGTAATTTCATGCATTTTAATGTTATTTTAGTAAGTTCCCATGACTTAAGGATAT
Found at i:33949 original size:13 final size:13
Alignment explanation
Indices: 33930--33968 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
33920 ACTATTTATG
33930 ATGTATCGATACA
1 ATGTATCGATACA
*
33943 CTGTATCGATACA
1 ATGTATCGATACA
33956 ATGTATCGATACA
1 ATGTATCGATACA
33969 TGAATAGTGA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.36, C:0.18, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:34068 original size:21 final size:22
Alignment explanation
Indices: 34038--34114 Score: 140
Period size: 21 Copynumber: 3.6 Consensus size: 22
34028 ACAGTGACAT
34038 ATGAACAGTGATGTATCGATAC
1 ATGAACAGTGATGTATCGATAC
34060 ATGAA-AGTGATGTATCGATAC
1 ATGAACAGTGATGTATCGATAC
34081 ATGAA-AGTGATGTATCGATAC
1 ATGAACAGTGATGTATCGATAC
34102 ATGAACAGTGATG
1 ATGAACAGTGATG
34115 AATAGTGATG
Statistics
Matches: 54, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
21 42 0.78
22 12 0.22
ACGTcount: A:0.38, C:0.10, G:0.25, T:0.27
Consensus pattern (22 bp):
ATGAACAGTGATGTATCGATAC
Found at i:34121 original size:10 final size:10
Alignment explanation
Indices: 34102--34132 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
34092 GTATCGATAC
34102 ATGAACAGTG
1 ATGAACAGTG
*
34112 ATGAATAGTG
1 ATGAACAGTG
34122 ATGAACAGTG
1 ATGAACAGTG
34132 A
1 A
34133 AAATGAGATT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.42, C:0.06, G:0.29, T:0.23
Consensus pattern (10 bp):
ATGAACAGTG
Found at i:34132 original size:42 final size:43
Alignment explanation
Indices: 34038--34132 Score: 133
Period size: 42 Copynumber: 2.3 Consensus size: 43
34028 ACAGTGACAT
* *
34038 ATGAACAGTGATGTATCGATACATGAAAGTGATGTATCGATAC
1 ATGAACAGTGATGTATCGATACATGAAAGTGATGAATAGATAC
*
34081 ATGAA-AGTGATGTATCGATACATGAACAGTGATGAATAG-T-G
1 ATGAACAGTGATGTATCGATACATGAA-AGTGATGAATAGATAC
34122 ATGAACAGTGA
1 ATGAACAGTGA
34133 AAATGAGATT
Statistics
Matches: 47, Mismatches: 3, Indels: 5
0.85 0.05 0.09
Matches are distributed among these distances:
41 5 0.11
42 27 0.57
43 15 0.32
ACGTcount: A:0.39, C:0.09, G:0.25, T:0.26
Consensus pattern (43 bp):
ATGAACAGTGATGTATCGATACATGAAAGTGATGAATAGATAC
Found at i:34220 original size:53 final size:53
Alignment explanation
Indices: 34156--34292 Score: 238
Period size: 53 Copynumber: 2.6 Consensus size: 53
34146 CTACTACCAA
34156 TGTATCGATACATATTTTGTGTATCGATACAAATTTGGCTACTGCCAATGACC
1 TGTATCGATACATATTTTGTGTATCGATACAAATTTGGCTACTGCCAATGACC
* *
34209 TGTATCGATACATATTGTGTGTATCGATACAAATTTGGCTACTGCCAATGTCC
1 TGTATCGATACATATTTTGTGTATCGATACAAATTTGGCTACTGCCAATGACC
*
34262 TATATCGATACATATTTGTGTGTATCGATAC
1 TGTATCGATACATATTT-TGTGTATCGATAC
34293 TATGCAATCT
Statistics
Matches: 79, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
53 66 0.84
54 13 0.16
ACGTcount: A:0.28, C:0.18, G:0.18, T:0.37
Consensus pattern (53 bp):
TGTATCGATACATATTTTGTGTATCGATACAAATTTGGCTACTGCCAATGACC
Found at i:34325 original size:20 final size:20
Alignment explanation
Indices: 34280--34333 Score: 65
Period size: 20 Copynumber: 2.7 Consensus size: 20
34270 TACATATTTG
*
34280 TGTGTATCGATACTATGCAA
1 TGTGTATCGATACTATGAAA
* *
34300 TCTGTATCGATAC-ATTTAAA
1 TGTGTATCGATACTA-TGAAA
34320 TGTGTATCGATACT
1 TGTGTATCGATACT
34334 TTTCAAGGTT
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
19 1 0.04
20 27 0.96
ACGTcount: A:0.30, C:0.15, G:0.17, T:0.39
Consensus pattern (20 bp):
TGTGTATCGATACTATGAAA
Found at i:34396 original size:21 final size:21
Alignment explanation
Indices: 34372--34412 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
34362 GTCAACCTTG
34372 TGTATTAATACCAATA-GTATA
1 TGTATTAATA-CAATACGTATA
*
34393 TGTATTGATACAATACGTAT
1 TGTATTAATACAATACGTAT
34413 TTTTACTTAG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.39, C:0.10, G:0.12, T:0.39
Consensus pattern (21 bp):
TGTATTAATACAATACGTATA
Found at i:41775 original size:13 final size:13
Alignment explanation
Indices: 41734--41783 Score: 56
Period size: 13 Copynumber: 4.2 Consensus size: 13
41724 TGTTACAAGC
41734 CAATGTATCGATA
1 CAATGTATCGATA
*
41747 CAA-GT-T-GGT-
1 CAATGTATCGATA
41756 C-ATGTATCGATA
1 CAATGTATCGATA
41768 CAATGTATCGATA
1 CAATGTATCGATA
41781 CAA
1 CAA
41784 ACAGTTAAGG
Statistics
Matches: 30, Mismatches: 2, Indels: 10
0.71 0.05 0.24
Matches are distributed among these distances:
8 1 0.03
9 3 0.10
10 3 0.10
11 3 0.10
12 3 0.10
13 17 0.57
ACGTcount: A:0.36, C:0.16, G:0.18, T:0.30
Consensus pattern (13 bp):
CAATGTATCGATA
Found at i:49143 original size:52 final size:51
Alignment explanation
Indices: 49070--49186 Score: 198
Period size: 52 Copynumber: 2.3 Consensus size: 51
49060 TGAAATTTTG
*
49070 CCTGCATGTATCGATACTTTCATAATGTATCGATACATCTGGGCAAATTTA
1 CCTGCATGTATCGAGACTTTCATAATGTATCGATACATCTGGGCAAATTTA
*
49121 CCTGTATGTATCGAGACATTTCATAATGTATCGATACATCTGGGCAAATTTA
1 CCTGCATGTATCGAGAC-TTTCATAATGTATCGATACATCTGGGCAAATTTA
*
49173 CCAGCATGTATCGA
1 CCTGCATGTATCGA
49187 TACAAAGATC
Statistics
Matches: 61, Mismatches: 4, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
51 15 0.25
52 46 0.75
ACGTcount: A:0.30, C:0.20, G:0.17, T:0.33
Consensus pattern (51 bp):
CCTGCATGTATCGAGACTTTCATAATGTATCGATACATCTGGGCAAATTTA
Found at i:49203 original size:52 final size:52
Alignment explanation
Indices: 49073--49210 Score: 163
Period size: 52 Copynumber: 2.7 Consensus size: 52
49063 AATTTTGCCT
* ** *
49073 GCATGTATCGATAC-TTTCATAATGTATCGATACATCTGGGCAAATTTACCT
1 GCATGTATCGAGACATAACATAATGTATCGATACATCTGGGCAAATTTACCA
* **
49124 GTATGTATCGAGACATTTCATAATGTATCGATACATCTGGGCAAATTTACCA
1 GCATGTATCGAGACATAACATAATGTATCGATACATCTGGGCAAATTTACCA
* * *
49176 GCATGTATCGATACA-AAGATCAGTGTATCGATACA
1 GCATGTATCGAGACATAACAT-AATGTATCGATACA
49211 ATGTATCGAT
Statistics
Matches: 76, Mismatches: 9, Indels: 3
0.86 0.10 0.03
Matches are distributed among these distances:
51 14 0.18
52 62 0.82
ACGTcount: A:0.33, C:0.18, G:0.17, T:0.32
Consensus pattern (52 bp):
GCATGTATCGAGACATAACATAATGTATCGATACATCTGGGCAAATTTACCA
Found at i:49217 original size:13 final size:13
Alignment explanation
Indices: 49199--49223 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
49189 CAAAGATCAG
49199 TGTATCGATACAA
1 TGTATCGATACAA
49212 TGTATCGATACA
1 TGTATCGATACA
49224 TTTGAGTAAT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:49303 original size:13 final size:13
Alignment explanation
Indices: 49285--49309 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
49275 ACAACACTTA
49285 TGTATCGATACAT
1 TGTATCGATACAT
49298 TGTATCGATACA
1 TGTATCGATACA
49310 AGTTGTTGAC
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:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:52490 original size:28 final size:28
Alignment explanation
Indices: 52458--52527 Score: 88
Period size: 28 Copynumber: 2.5 Consensus size: 28
52448 AACAAAATCA
*
52458 GGGTTGGAGTATCCCCTA-AAAAATAATG
1 GGGTTGGAGTATCCCC-ACAAAAATAACG
* *
52486 GGGTTGGAGTGTCCCCACGAAAATAACG
1 GGGTTGGAGTATCCCCACAAAAATAACG
*
52514 GGGTTGAAGTATCC
1 GGGTTGGAGTATCC
52528 TCGATTATGA
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
27 1 0.03
28 35 0.97
ACGTcount: A:0.30, C:0.17, G:0.30, T:0.23
Consensus pattern (28 bp):
GGGTTGGAGTATCCCCACAAAAATAACG
Found at i:52495 original size:79 final size:79
Alignment explanation
Indices: 52334--52483 Score: 210
Period size: 79 Copynumber: 1.9 Consensus size: 79
52324 GACGAGGCTA
* * * * * ***
52334 GAGTACCCCTGATTATGGAAAATCGGTGTTCTGAAAATAAAATCGGGGTTGGAGTATCCCCTTGG
1 GAGTATCCCTAATTATAGAAAATCGGTGTTCTGAAAACAAAATCAGGGTTGGAGTATCCCCTAAA
52399 AAATAACAAGGTTG
66 AAATAACAAGGTTG
* *
52413 GAGTATCCCTAATTATAGAAAATTGGTGTTTTGAAAACAAAATCAGGGTTGGAGTATCCCCTAAA
1 GAGTATCCCTAATTATAGAAAATCGGTGTTCTGAAAACAAAATCAGGGTTGGAGTATCCCCTAAA
52478 AAATAA
66 AAATAA
52484 TGGGGTTGGA
Statistics
Matches: 61, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
79 61 1.00
ACGTcount: A:0.36, C:0.14, G:0.23, T:0.27
Consensus pattern (79 bp):
GAGTATCCCTAATTATAGAAAATCGGTGTTCTGAAAACAAAATCAGGGTTGGAGTATCCCCTAAA
AAATAACAAGGTTG
Found at i:52570 original size:79 final size:79
Alignment explanation
Indices: 52487--52638 Score: 259
Period size: 79 Copynumber: 1.9 Consensus size: 79
52477 AAAATAATGG
* *
52487 GGTTGGAGTGTCCCCACGAAAATAACGGGGTTGAAGTATCCTCGATTATGAGAAATCAATATTTT
1 GGTTGGAGTATCCCCACGAAAATAACGGGGTTGAAGTATCCCCGATTATGAGAAATCAATATTTT
*
52552 AGGAATAAAACCGA
66 AAGAATAAAACCGA
* *
52566 GGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATTATGAGAAATCAATATTTT
1 GGTTGGAGTATCCCCACGAAAATAACGGGGTTGAAGTATCCCCGATTATGAGAAATCAATATTTT
52631 AAGAATAA
66 AAGAATAA
52639 TGTATCGATA
Statistics
Matches: 68, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
79 68 1.00
ACGTcount: A:0.35, C:0.15, G:0.24, T:0.26
Consensus pattern (79 bp):
GGTTGGAGTATCCCCACGAAAATAACGGGGTTGAAGTATCCCCGATTATGAGAAATCAATATTTT
AAGAATAAAACCGA
Found at i:55873 original size:13 final size:13
Alignment explanation
Indices: 55855--55880 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
55845 TAATTTGGTC
55855 ATGTATCGATACA
1 ATGTATCGATACA
55868 ATGTATCGATACA
1 ATGTATCGATACA
55881 TCTTGTATGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:55987 original size:13 final size:13
Alignment explanation
Indices: 55969--55993 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
55959 TATAGTGGTC
55969 ATGTATCGATACA
1 ATGTATCGATACA
55982 ATGTATCGATAC
1 ATGTATCGATAC
55994 TGTGCATTAT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:59204 original size:13 final size:13
Alignment explanation
Indices: 59186--59211 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
59176 AATTTTTTGG
59186 TGTATCGATACAT
1 TGTATCGATACAT
59199 TGTATCGATACAT
1 TGTATCGATACAT
59212 ACTTGGTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:61323 original size:21 final size:20
Alignment explanation
Indices: 61294--61334 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
61284 GGCTAGTGTG
*
61294 GGGACTGCCCGGTTGTGACCT
1 GGGACTG-CCGGTCGTGACCT
*
61315 GGGAGTGCCGGTCGTGACCT
1 GGGACTGCCGGTCGTGACCT
61335 AGTGGGTGCT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 12 0.67
21 6 0.33
ACGTcount: A:0.10, C:0.27, G:0.41, T:0.22
Consensus pattern (20 bp):
GGGACTGCCGGTCGTGACCT
Found at i:61635 original size:21 final size:21
Alignment explanation
Indices: 61611--61657 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
61601 TTTGAAGCTG
61611 ATTTTG-A-TGAAAAACGAAGT
1 ATTTTGAAGTGAAAAAC-AAGT
*
61631 AATTTGAAGTGAAAAACAAGT
1 ATTTTGAAGTGAAAAACAAGT
61652 ATTTTG
1 ATTTTG
61658 CAAAAGATTT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
20 5 0.22
21 10 0.43
22 8 0.35
ACGTcount: A:0.45, C:0.04, G:0.19, T:0.32
Consensus pattern (21 bp):
ATTTTGAAGTGAAAAACAAGT
Found at i:61797 original size:13 final size:13
Alignment explanation
Indices: 61779--61817 Score: 60
Period size: 13 Copynumber: 3.0 Consensus size: 13
61769 ATAATCCCCC
*
61779 TGTATCGATACAG
1 TGTATCGATACAA
61792 TGTATCGATACAA
1 TGTATCGATACAA
*
61805 TGTATTGATACAA
1 TGTATCGATACAA
61818 AGAAAAATGT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.36, C:0.13, G:0.18, T:0.33
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:61996 original size:13 final size:14
Alignment explanation
Indices: 61978--62017 Score: 55
Period size: 13 Copynumber: 2.9 Consensus size: 14
61968 AATAAAAACA
61978 CAAAATCATTCA-T
1 CAAAATCATTCATT
61991 CAAAATCATTCATTT
1 CAAAATCATTCA-TT
*
62006 CAACATCATTCA
1 CAAAATCATTCA
62018 ACATAAAATC
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
13 12 0.50
15 12 0.50
ACGTcount: A:0.42, C:0.25, G:0.00, T:0.33
Consensus pattern (14 bp):
CAAAATCATTCATT
Found at i:63917 original size:15 final size:15
Alignment explanation
Indices: 63897--63927 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
63887 ATTTCGTTTG
*
63897 GAGCTTCTTCATTTT
1 GAGCTTCCTCATTTT
63912 GAGCTTCCTCATTTT
1 GAGCTTCCTCATTTT
63927 G
1 G
63928 GACATTTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.23, G:0.16, T:0.48
Consensus pattern (15 bp):
GAGCTTCCTCATTTT
Found at i:65771 original size:22 final size:20
Alignment explanation
Indices: 65722--65773 Score: 59
Period size: 22 Copynumber: 2.5 Consensus size: 20
65712 ATTATGCAAG
*
65722 TTTTTATTTTTCTTAGCTAAT
1 TTTTTA-TTTTCTTAGCAAAT
*
65743 TTATTATTTTCATTAGCCAAAT
1 TTTTTATTTTC-TTAG-CAAAT
65765 TTTTTATTT
1 TTTTTATTT
65774 CAACTTACAA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
20 5 0.19
21 9 0.35
22 12 0.46
ACGTcount: A:0.23, C:0.10, G:0.04, T:0.63
Consensus pattern (20 bp):
TTTTTATTTTCTTAGCAAAT
Found at i:68018 original size:13 final size:13
Alignment explanation
Indices: 68000--68025 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
67990 AATTTTTTGG
68000 TGTATCGATACAT
1 TGTATCGATACAT
68013 TGTATCGATACAT
1 TGTATCGATACAT
68026 ACTTGGTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:70224 original size:166 final size:167
Alignment explanation
Indices: 70042--70383 Score: 379
Period size: 166 Copynumber: 2.0 Consensus size: 167
70032 TAATTTTCTT
* * ** * **
70042 TTGAAATTCTTTTTATTTTCAAAATACGGAGTTTTTTA-T-GTTATAAATTTTTTTTGAGAGGA-
1 TTGAAA-TCTTTTTATTTTCAAAATACGAAGTTTTCTACTCCATA-AAATCTTTTCGGAG-GGAT
*
70104 TATTCATTGATCCCAAATTTTTAAAATTCATCAAATATTATCATTT-GATTCACATTAAATCATT
63 TATTC-TTGATCCCAAATTTTTAAAATTCATAAAATATTATCATTTAG-TTCACATTAAATCATT
* *
70168 GTTGAAAAATTCATTCATTTTCATGAGTTTTGAATTTTTTCC
126 GTTGAAAAATTAATTCATTGTCATGAGTTTTGAATTTTTTCC
* *
70210 TTGAAATC-TTTTATTTTCGAAATACGAAGTTTTCTACTCCATAAAATCTTTTCGGAGGGATTTT
1 TTGAAATCTTTTTATTTTCAAAATACGAAGTTTTCTACTCCATAAAATCTTTTCGGAGGGATTAT
**** * * * * *
70274 TCTTGATTTTTAATTTTTAATATTCATAAAATATTATTATTTAGTTCATATTAAATTATTTTTGA
66 TCTTGATCCCAAATTTTTAAAATTCATAAAATATTATCATTTAGTTCACATTAAATCATTGTTGA
* * *
70339 AGAATTAATTTATTGTCATGAGTTTTGAATTTTTTTC
131 AAAATTAATTCATTGTCATGAGTTTTGAATTTTTTCC
70376 TTCGAAAT
1 TT-GAAAT
70384 TCTCTTGTTT
Statistics
Matches: 145, Mismatches: 24, Indels: 11
0.81 0.13 0.06
Matches are distributed among these distances:
166 113 0.78
167 24 0.17
168 8 0.06
ACGTcount: A:0.31, C:0.10, G:0.10, T:0.49
Consensus pattern (167 bp):
TTGAAATCTTTTTATTTTCAAAATACGAAGTTTTCTACTCCATAAAATCTTTTCGGAGGGATTAT
TCTTGATCCCAAATTTTTAAAATTCATAAAATATTATCATTTAGTTCACATTAAATCATTGTTGA
AAAATTAATTCATTGTCATGAGTTTTGAATTTTTTCC
Found at i:70505 original size:168 final size:166
Alignment explanation
Indices: 70118--70505 Score: 394
Period size: 166 Copynumber: 2.3 Consensus size: 166
70108 CATTGATCCC
* * * * * * *
70118 AAATTTTTAAAATTCATCAAATATTATCATTTGATTCACATTAAATCATTGTTGAAAAATTCATT
1 AAATTTTTAATATTCATAAAATATTATTATTTAACTCACATTAAATCATTTTTGAAAAATTAATT
* * * *
70183 CATTTTCATGAGTTTTGAATTTTTTCCTTGAAATCTTTTATTTTCGAAATACGAAGTTTTCTACT
66 CATTGTCATGAGTTTTGAATTTTTTCCTTGAAATCTTTTATTTTAGAAAAACGAAGTTTTCAACT
* *
70248 CCATAAAATCTTTTCGGAGGGATTTTTCTTGATTTT
131 CCATAAAATATTTTCGGAGGGATTTTTCTTGATTTA
* ** * * *
70284 TAATTTTTAATATTCATAAAATATTATTATTTAGTTCATATTAAATTATTTTTGAAGAATTAATT
1 AAATTTTTAATATTCATAAAATATTATTATTTAACTCACATTAAATCATTTTTGAAAAATTAATT
* *
70349 TATTGTCATGAGTTTTGAATTTTTTTCTTCGAAATTCTCTTGT-TTTTAGAAAAACTG-AGTTTT
66 CATTGTCATGAGTTTTGAATTTTTTCCTT-GAAA-TCT-TT-TATTTTAGAAAAAC-GAAGTTTT
* *
70412 CAATTCCAT-AAATATTTTCAGG-GGGA-TTTTCTTCGGTTTA
126 CAACTCCATAAAATATTTTC-GGAGGGATTTTTCTT-GATTTA
** * * *
70452 AAATTTTTGAA-ATTCATCTAATATTGTT-TTTAAACTCCCATTGAATCATTTTTG
1 AAATTTTT-AATATTCATAAAATATTATTATTT-AACTCACATTAAATCATTTTTG
70506 CGAAACTCAT
Statistics
Matches: 182, Mismatches: 31, Indels: 16
0.79 0.14 0.07
Matches are distributed among these distances:
166 80 0.44
167 14 0.08
168 57 0.31
169 29 0.16
170 2 0.01
ACGTcount: A:0.31, C:0.11, G:0.10, T:0.48
Consensus pattern (166 bp):
AAATTTTTAATATTCATAAAATATTATTATTTAACTCACATTAAATCATTTTTGAAAAATTAATT
CATTGTCATGAGTTTTGAATTTTTTCCTTGAAATCTTTTATTTTAGAAAAACGAAGTTTTCAACT
CCATAAAATATTTTCGGAGGGATTTTTCTTGATTTA
Found at i:70684 original size:14 final size:14
Alignment explanation
Indices: 70667--70713 Score: 51
Period size: 14 Copynumber: 3.2 Consensus size: 14
70657 TCATATAAAA
70667 TTTAAATTTAATTT
1 TTTAAATTTAATTT
*
70681 TTTAATCTTTAA-TT
1 TTTAA-ATTTAATTT
70695 TTTACAATTTAATCTT
1 TTTA-AATTTAAT-TT
70711 TTT
1 TTT
70714 TATTAATTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
14 16 0.59
15 6 0.22
16 5 0.19
ACGTcount: A:0.30, C:0.06, G:0.00, T:0.64
Consensus pattern (14 bp):
TTTAAATTTAATTT
Found at i:70686 original size:29 final size:30
Alignment explanation
Indices: 70653--70713 Score: 72
Period size: 29 Copynumber: 2.1 Consensus size: 30
70643 GAGTTGAAAA
70653 TTAATCATATAAAATTTA-AATTTAAT-TTT
1 TTAATC-TATAAAATTTACAATTTAATCTTT
* **
70682 TTAATCTTTAATTTTTACAATTTAATCTTT
1 TTAATCTATAAAATTTACAATTTAATCTTT
70712 TT
1 TT
70714 TATTAATTTT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
28 8 0.30
29 14 0.52
30 5 0.19
ACGTcount: A:0.36, C:0.07, G:0.00, T:0.57
Consensus pattern (30 bp):
TTAATCTATAAAATTTACAATTTAATCTTT
Found at i:72715 original size:153 final size:153
Alignment explanation
Indices: 72185--72840 Score: 552
Period size: 156 Copynumber: 4.2 Consensus size: 153
72175 CTTTAAGAGT
* * * ** * * * * *
72185 ATTTTGATAAATTTTTAAAATCAAGTCTTAGACTGTCACCGGGTTTGTTTTTATGCCGCAGGTGG
1 ATTTTG-TAATTTTTTAGAATCGAGTCTTAGGTTGTTACCGAG-TTGCTTTTATGTCGAAGGTGG
* * * **
72250 ATATTTAGGATAGAG-TCATCCCATTTTATATCCTTTTTAACTCCTTTA-AGGGTATTGAGATAC
64 GTATTTAGGATAG-GTTCATCCCATTATATAT-CTTTTTAAGTCCTTTAGA-GGTATCAAGATAC
* *
72313 TTTCACGTCGAAGGTATCCCCTATGGGT
126 TTTCACGTCGAAGGTATCCCCTAAGGGC
* * * *
72341 ATTTTGGTGATTTTTTAGAATCGAGTCCTAGGTTGTTATCGAGTTCCCTTTTATGTCGACA-GTG
1 ATTTT-GTAATTTTTTAGAATCGAGTCTTAGGTTGTTACCGAGTT-GCTTTTATGTCGA-AGGTG
** * * * * ** *
72405 GGCCTTTAGGCTAGGTTCATCCCATTTTATATCATTTTTAAGTTCTTTAGAGGTACCGGGATATT
63 GGTATTTAGGATAGGTTCATCCCATTATATATC-TTTTTAAGTCCTTTAGAGGTATCAAGATACT
* *
72470 TTCACGTCGAAGGTATCCCTTAGGGGC
127 TTCACGTCGAAGGTATCCCCTAAGGGC
* * * * * * * * * *
72497 ATCTTGGTAATATTTTAAAATCGAGTCTTAGGTTATCACTGGGTTTGATTTTATGACGAAAGTGG
1 AT-TTTGTAATTTTTTAGAATCGAGTCTTAGGTTGTTACCGAG-TTGCTTTTATGTCGAAGGTGG
* *
72562 GTATTTAGGATAGTTTCATCCCATCTATA-ATCTTTTTAAGTCCTTTAGGGGTATCAAGATA-TT
64 GTATTTAGGATAGGTTCATCCCAT-TATATATCTTTTTAAGTCCTTTAGAGGTATCAAGATACTT
* *
72625 TCACGTCAAAGGTATCCCCTAATGGC
128 TCACGTCGAAGGTATCCCCTAAGGGC
* * *
72651 ATTTTTTAATTTTTTAGAATTGAGTCTTAGGTTGTTACCAAGTCTGCTTTTATGTCGAAGGTGGG
1 ATTTTGTAATTTTTTAGAATCGAGTCTTAGGTTGTTACCGAGT-TGCTTTTATGTCGAAGGTGGG
* * * * *
72716 TATTTAGGATAGGTTCATCTCAACTATA-ACCTTTTTAAGTCTTTTAGAGTTA-CAAGGATACTT
65 TATTTAGGATAGGTTCATC-CCATTATATATCTTTTTAAGTCCTTTAGAGGTATCAA-GATACTT
** ** * *
72779 TCAAATCGAAGGTATCCTGTAGGGGT
128 TCACGTCGAAGGTATCCCCTAAGGGC
* * *
72805 ATTTTTGTAATTTTTTAGAATCAATTCCTAGGTTGT
1 A-TTTTGTAATTTTTTAGAATCGAGTCTTAGGTTGT
72841 CGAAAGATTT
Statistics
Matches: 398, Mismatches: 87, Indels: 31
0.77 0.17 0.06
Matches are distributed among these distances:
152 4 0.01
153 94 0.24
154 49 0.12
155 58 0.15
156 183 0.46
157 10 0.03
ACGTcount: A:0.25, C:0.15, G:0.20, T:0.40
Consensus pattern (153 bp):
ATTTTGTAATTTTTTAGAATCGAGTCTTAGGTTGTTACCGAGTTGCTTTTATGTCGAAGGTGGGT
ATTTAGGATAGGTTCATCCCATTATATATCTTTTTAAGTCCTTTAGAGGTATCAAGATACTTTCA
CGTCGAAGGTATCCCCTAAGGGC
Found at i:81489 original size:57 final size:57
Alignment explanation
Indices: 81395--81539 Score: 154
Period size: 57 Copynumber: 2.5 Consensus size: 57
81385 AATTACTAAA
* * **
81395 ATGCCATAAAATGCATGAAATGACA-AA-AAGTTTCTAAATTATAGAGAATAACTTCAAT
1 ATGCC-TAAAATGCATGAAATGACATAATAA--TTCTAAATCATAGAAAATAACTAAAAT
* *
81453 AT-CTCTAAAATGCATGAAATGATATAATAATTCTAAATCATAGAAAATGACTAAAAT
1 ATGC-CTAAAATGCATGAAATGACATAATAATTCTAAATCATAGAAAATAACTAAAAT
* *
81510 ATGCCT-AAATGTATGAAATGACATAGTAAT
1 ATGCCTAAAATGCATGAAATGACATAATAAT
81540 CTTTAATATG
Statistics
Matches: 74, Mismatches: 9, Indels: 10
0.80 0.10 0.11
Matches are distributed among these distances:
56 21 0.28
57 45 0.61
58 6 0.08
59 2 0.03
ACGTcount: A:0.48, C:0.11, G:0.12, T:0.29
Consensus pattern (57 bp):
ATGCCTAAAATGCATGAAATGACATAATAATTCTAAATCATAGAAAATAACTAAAAT
Found at i:83264 original size:111 final size:111
Alignment explanation
Indices: 83123--83346 Score: 448
Period size: 111 Copynumber: 2.0 Consensus size: 111
83113 TCACCATATA
83123 TCCCAAAATGAGCATGAGTGTGGTTCACTATCTACTTATGCTTTAATCCATATTGGATCTTTTAA
1 TCCCAAAATGAGCATGAGTGTGGTTCACTATCTACTTATGCTTTAATCCATATTGGATCTTTTAA
83188 TTTATGATTAATGATTATGAACCTATGAGGAATGTTTCCTCATAAT
66 TTTATGATTAATGATTATGAACCTATGAGGAATGTTTCCTCATAAT
83234 TCCCAAAATGAGCATGAGTGTGGTTCACTATCTACTTATGCTTTAATCCATATTGGATCTTTTAA
1 TCCCAAAATGAGCATGAGTGTGGTTCACTATCTACTTATGCTTTAATCCATATTGGATCTTTTAA
83299 TTTATGATTAATGATTATGAACCTATGAGGAATGTTTCCTCATAAT
66 TTTATGATTAATGATTATGAACCTATGAGGAATGTTTCCTCATAAT
83345 TC
1 TC
83347 GCTATGCCCA
Statistics
Matches: 113, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
111 113 1.00
ACGTcount: A:0.29, C:0.16, G:0.15, T:0.40
Consensus pattern (111 bp):
TCCCAAAATGAGCATGAGTGTGGTTCACTATCTACTTATGCTTTAATCCATATTGGATCTTTTAA
TTTATGATTAATGATTATGAACCTATGAGGAATGTTTCCTCATAAT
Found at i:85087 original size:154 final size:152
Alignment explanation
Indices: 84909--85306 Score: 395
Period size: 154 Copynumber: 2.6 Consensus size: 152
84899 TAGGCCATAC
* * *
84909 CTTCAACATGAAAGTATCTCGGTAACATTAAAAAAATGAAAATTATCATAAAAGGATGAACCTAT
1 CTTCAATATGAAAGTATCTCGGTAACATTAAAAACATGAAAATAATCATAAAAGGATGAACCTAT
* * **
84974 CCTAAATGCACACTTTTGGCATAGAAGTGACCCAATGACTACCTAAGACTCAGTTCTAAAGAAAT
66 CCTAAATGCATAC-TTTGGCATAAAAGCAACCCAATGACTACCTAAGACTCA-TTCTAAAGAAAT
*
85039 TATCAAAATGCCCTTAAAGTATAA
129 TATCAAAATGCCCTTAAAGTACAA
* * * * *
85063 CTTCAATATGAAAGTATCTTGGTAACTTTAAAAAGCATGAAAA-AATAATAAAAAGATGAAGCTA
1 CTTCAATATGAAAGTATCTCGGTAACATTAAAAA-CATGAAAATAATCATAAAAGGATGAACCTA
* ** * * * * * * *
85127 TACTAAATGCATACCTAGGGCAGAAAAGCAACCTAGTGACTACCTAGGACTTATTTTAGAGAAAT
65 TCCTAAATGCATA-CTTTGGCATAAAAGCAACCCAATGACTACCTAAGACTCATTCTAAAGAAAT
* ** *** *
85192 TATTAAAATGCTTTTGGGGTACAT
129 TATCAAAATGCCCTTAAAGTACAA
* * * * * * *
85216 CTTCAATGTGAAAGTATCTCGATAACCTTAAAGGACTTGAAAATGATCTTAAAAAGG-TGAACCT
1 CTTCAATATGAAAGTATCTCGGTAACATTAAA-AACATGAAAATAATCAT-AAAAGGATGAACCT
85280 ATCCTAAATGCATACTTTGGCATAAAA
64 ATCCTAAATGCATACTTTGGCATAAAA
85307 TCAATCGATG
Statistics
Matches: 194, Mismatches: 45, Indels: 11
0.78 0.18 0.04
Matches are distributed among these distances:
153 71 0.37
154 110 0.57
155 13 0.07
ACGTcount: A:0.42, C:0.16, G:0.15, T:0.27
Consensus pattern (152 bp):
CTTCAATATGAAAGTATCTCGGTAACATTAAAAACATGAAAATAATCATAAAAGGATGAACCTAT
CCTAAATGCATACTTTGGCATAAAAGCAACCCAATGACTACCTAAGACTCATTCTAAAGAAATTA
TCAAAATGCCCTTAAAGTACAA
Found at i:86538 original size:20 final size:19
Alignment explanation
Indices: 86504--86554 Score: 57
Period size: 20 Copynumber: 2.6 Consensus size: 19
86494 GAAAATTGTA
*
86504 TATATGACAAAATCAAAAT
1 TATATCACAAAATCAAAAT
*
86523 TATATCACATAAATCAATAT
1 TATATCACA-AAATCAAAAT
*
86543 CATATCAACAAA
1 TATATC-ACAAA
86555 CAACATATTT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
19 8 0.30
20 16 0.59
21 3 0.11
ACGTcount: A:0.55, C:0.16, G:0.02, T:0.27
Consensus pattern (19 bp):
TATATCACAAAATCAAAAT
Found at i:93044 original size:34 final size:35
Alignment explanation
Indices: 93006--93072 Score: 102
Period size: 37 Copynumber: 1.9 Consensus size: 35
92996 CCTTACAACA
93006 CTATC-TTTC-AAGGCTAAGATAGAAACCTCTCTCT
1 CTATCTTTTCAAAGGCTAAGATAG-AACCTCTCTCT
93040 CTATCTTTTTCAAAGGCTAAGATAGAACCTCTC
1 CTATC-TTTTCAAAGGCTAAGATAGAACCTCTC
93073 AATCACTTAG
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
34 5 0.17
36 12 0.40
37 13 0.43
ACGTcount: A:0.30, C:0.25, G:0.12, T:0.33
Consensus pattern (35 bp):
CTATCTTTTCAAAGGCTAAGATAGAACCTCTCTCT
Found at i:93548 original size:13 final size:13
Alignment explanation
Indices: 93530--93555 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
93520 CAATTTTTTG
93530 TGTATCGATACAT
1 TGTATCGATACAT
93543 TGTATCGATACAT
1 TGTATCGATACAT
93556 ACTTGGTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:93570 original size:32 final size:33
Alignment explanation
Indices: 93510--93573 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 33
93500 TACAAGCCAA
** *
93510 TGTATCGATACAATTTTTTGTGTATCGATACAT
1 TGTATCGATACAATACTTGGTGTATCGATACAT
93543 TGTATCGATAC-ATACTTGGTGTATCGATACA
1 TGTATCGATACAATACTTGGTGTATCGATACA
93574 AGTTTGGCTA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 17 0.61
33 11 0.39
ACGTcount: A:0.28, C:0.14, G:0.17, T:0.41
Consensus pattern (33 bp):
TGTATCGATACAATACTTGGTGTATCGATACAT
Found at i:96190 original size:33 final size:33
Alignment explanation
Indices: 96133--96238 Score: 140
Period size: 37 Copynumber: 3.1 Consensus size: 33
96123 AATTAAAAGA
* * * *
96133 TAAATTATTGAGTTATAAGGTAAATTAATTAAT
1 TAAAATATTAAGTTAAAAGATAAATTAATTAAT
96166 TAAAATATTAAGTTAAAAGATAAATTAATTAATTAAT
1 TAAAATATTAAGTTAAAAGAT--A--AATTAATTAAT
96203 TAAAATATTAAGTTAAAAGATAAATTAATTAAT
1 TAAAATATTAAGTTAAAAGATAAATTAATTAAT
96236 TAA
1 TAA
96239 TAATTTTACA
Statistics
Matches: 65, Mismatches: 4, Indels: 8
0.84 0.05 0.10
Matches are distributed among these distances:
33 31 0.48
35 2 0.03
37 32 0.49
ACGTcount: A:0.54, C:0.00, G:0.08, T:0.39
Consensus pattern (33 bp):
TAAAATATTAAGTTAAAAGATAAATTAATTAAT
Found at i:96258 original size:45 final size:37
Alignment explanation
Indices: 96155--96239 Score: 170
Period size: 37 Copynumber: 2.3 Consensus size: 37
96145 TTATAAGGTA
96155 AATTAATTAATTAAAATATTAAGTTAAAAGATAAATT
1 AATTAATTAATTAAAATATTAAGTTAAAAGATAAATT
96192 AATTAATTAATTAAAATATTAAGTTAAAAGATAAATT
1 AATTAATTAATTAAAATATTAAGTTAAAAGATAAATT
96229 AATTAATTAAT
1 AATTAATTAAT
96240 AATTTTACAC
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 48 1.00
ACGTcount: A:0.56, C:0.00, G:0.05, T:0.39
Consensus pattern (37 bp):
AATTAATTAATTAAAATATTAAGTTAAAAGATAAATT
Found at i:100717 original size:446 final size:446
Alignment explanation
Indices: 99892--100737 Score: 1152
Period size: 446 Copynumber: 1.9 Consensus size: 446
99882 CAAGGATTAA
* *
99892 ATGAACCAAGAGGGGGGTGAATTAGTTCTTATTGAAATTTAAAGGTTTTGAAAGAATTGATTTGA
1 ATGAACCAAGAGGGGGGTGAATTAGTTCTTATTGAAATTTAAA-GTATTGAAAGAATTGATTTAA
* * *
99957 AAACAATTCGAAAATAAAAAGAGTAGGGAAAAGAGAAAACTTGACATAAGTGTTTATAGAGGTTC
65 AAACAATTCGAAAACAAAAAGAGTAGGGAAAAGAGAAAACTTGACACAAGTGTTTATAGAAGTTC
* * * * *
100022 AATCTAAACACGGCACCTATGTCCTCTCCCTTTGACACTTTCTTGTAGAGTGTATACCATAATTC
130 AATCCAAACACGGCACCTACGTCCTCTCCCTGTGACACTTCCTTGTAGAGTGTATACCACAATTC
* * * *
100087 ACTACTCGAATTTTTTACCTTTCAGGCAAAGGTATAACCTTACAACATTTATCTTTTTAAGGCTA
195 ACTACTCGAATTATTTACCTTTCAGGAAAAGGTATAACCTTACAACACTTATCTTTTCAAGGCTA
* *
100152 AGATAAGAACCTCTCAATCTCTTCAGGAATTATACCCCAAATTCTTAAGAGATTGTAACCCAAGG
260 AGATAAGAACCTCTCAATCTCCTCAAGAATTATACCCCAAATTCTTAAGAGATTGTAACCCAAGG
* * * *
100217 TTAAATATAACCTTTTACAACACAAAGAAATCAGAAAAACGAGAATTGCCTCTAAGTAGGCTGGT
325 TTAAATACAACCTTTTACAACACAAAGAAATCAGAAAAACGAAAATTACCTCTAAGTAGACTGGT
100282 GTTTGTGAAAGTATAAGCACAAAGGAATACAAAATAAGCTATAAGCTCTAGAAATAG
390 GTTTGTGAAAGTATAAGCACAAAGGAATACAAAATAAGCTATAAGCTCTAGAAATAG
* * *
100339 ATGAACCAAGA-GGGGGTGAATTGGTTCTTTTTTGAAATTTGAA-TATTGTATAAGAATTG-TTT
1 ATGAACCAAGAGGGGGGTGAATTAGTTC-TTATTGAAATTTAAAGTATTG-A-AAGAATTGATTT
* *
100401 CAAAAACAACTT-GAAGACAAAGAGAGTAGGGAAAAGAGAAAACTTGACACAAGTGTTTATAGAA
63 -AAAAACAA-TTCGAAAACAAAAAGAGTAGGGAAAAGAGAAAACTTGACACAAGTGTTTATAGAA
** * * * *
100465 GTTCGGTCCAAACATGGTACCTACGTTCTCTCTCC-GTGACACTTCCTTGTCGAGTG-ATACCAC
126 GTTCAATCCAAACACGGCACCTACGTCCTCTC-CCTGTGACACTTCCTTGTAGAGTGTATACCAC
*
100528 AA-TCTACTACAT-GAATTATTTACCTTTTAGGAAAAGGTATAACCTTACAACACTTATCTTTTC
190 AATTC-ACTAC-TCGAATTATTTACCTTTCAGGAAAAGGTATAACCTTACAACACTTATCTTTTC
* * *
100591 AAGGCTAAGATAATAACCTCTCAATCTCCTCAAGAATTATACCCTAAATTCTTAAGATATTGTAA
253 AAGGCTAAGATAAGAACCTCTCAATCTCCTCAAGAATTATACCCCAAATTCTTAAGAGATTGTAA
* * * *** *
100656 CCCAAGGTTGAATGCAA-CTTTATACAACTCAAAGAAATTTTACAAACGAAAATTACCTCTAAGT
318 CCCAAGGTTAAATACAACCTTT-TACAACACAAAGAAATCAGAAAAACGAAAATTACCTCTAAGT
*
100720 AGATTGGTGTTTGTGAAA
382 AGACTGGTGTTTGTGAAA
100738 CAAGAAGTAC
Statistics
Matches: 347, Mismatches: 43, Indels: 19
0.85 0.11 0.05
Matches are distributed among these distances:
445 10 0.03
446 203 0.59
447 130 0.37
448 4 0.01
ACGTcount: A:0.37, C:0.16, G:0.17, T:0.30
Consensus pattern (446 bp):
ATGAACCAAGAGGGGGGTGAATTAGTTCTTATTGAAATTTAAAGTATTGAAAGAATTGATTTAAA
AACAATTCGAAAACAAAAAGAGTAGGGAAAAGAGAAAACTTGACACAAGTGTTTATAGAAGTTCA
ATCCAAACACGGCACCTACGTCCTCTCCCTGTGACACTTCCTTGTAGAGTGTATACCACAATTCA
CTACTCGAATTATTTACCTTTCAGGAAAAGGTATAACCTTACAACACTTATCTTTTCAAGGCTAA
GATAAGAACCTCTCAATCTCCTCAAGAATTATACCCCAAATTCTTAAGAGATTGTAACCCAAGGT
TAAATACAACCTTTTACAACACAAAGAAATCAGAAAAACGAAAATTACCTCTAAGTAGACTGGTG
TTTGTGAAAGTATAAGCACAAAGGAATACAAAATAAGCTATAAGCTCTAGAAATAG
Found at i:101159 original size:43 final size:43
Alignment explanation
Indices: 101111--101249 Score: 123
Period size: 43 Copynumber: 3.3 Consensus size: 43
101101 ACAATATCTG
*
101111 ATGTATCAATACAAATAGTGATAGGGTAGCTACTGCCAATTTC
1 ATGTATCGATACAAATAGTGATAGGGTAGCTACTGCCAATTTC
* * **
101154 ATGTATCGATAC-AATGAGCATG-TATCGATAG--AAAG-CAA--T-
1 ATGTATCGATACAAAT-AG--TGATA-GGGTAGCTACTGCCAATTTC
*
101193 ATGTATCGATACAAATAGTGATAGGGTAGCTACTGCCAGTTTC
1 ATGTATCGATACAAATAGTGATAGGGTAGCTACTGCCAATTTC
*
101236 ATGTATCTATACAA
1 ATGTATCGATACAA
101250 TGAGCATGTA
Statistics
Matches: 73, Mismatches: 11, Indels: 24
0.68 0.10 0.22
Matches are distributed among these distances:
37 6 0.08
38 2 0.03
39 16 0.22
40 6 0.08
42 7 0.10
43 28 0.38
44 2 0.03
45 6 0.08
ACGTcount: A:0.36, C:0.15, G:0.19, T:0.29
Consensus pattern (43 bp):
ATGTATCGATACAAATAGTGATAGGGTAGCTACTGCCAATTTC
Found at i:101177 original size:19 final size:20
Alignment explanation
Indices: 101153--101207 Score: 67
Period size: 19 Copynumber: 2.8 Consensus size: 20
101143 CTGCCAATTT
* *
101153 CATGTATCGATACAATG-AG
1 CATGTATCGATACAAAGCAA
*
101172 CATGTATCGATAGAAAGCAA
1 CATGTATCGATACAAAGCAA
*
101192 TATGTATCGATACAAA
1 CATGTATCGATACAAA
101208 TAGTGATAGG
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
19 15 0.50
20 15 0.50
ACGTcount: A:0.42, C:0.15, G:0.18, T:0.25
Consensus pattern (20 bp):
CATGTATCGATACAAAGCAA
Found at i:101203 original size:39 final size:39
Alignment explanation
Indices: 101154--101286 Score: 112
Period size: 39 Copynumber: 3.3 Consensus size: 39
101144 TGCCAATTTC
101154 ATGTATCGATACAATGAGCATGTATCGATAGAAAGCAAT
1 ATGTATCGATACAATGAGCATGTATCGATAGAAAGCAAT
* * ** *
101193 ATGTATCGATACAAAT-AG--TG-ATAGGGTAGCTACTGCCAGTTT
1 ATGTATCGATAC-AATGAGCATGTAT-CGATAG--AAAG-CA--AT
*
101235 CATGTATCTATACAATGAGCATGTATCGATAGAAAGCAAT
1 -ATGTATCGATACAATGAGCATGTATCGATAGAAAGCAAT
101275 ATGTATCGATAC
1 ATGTATCGATAC
101287 TTTTGGGCTT
Statistics
Matches: 70, Mismatches: 12, Indels: 24
0.66 0.11 0.23
Matches are distributed among these distances:
36 2 0.03
37 6 0.09
39 27 0.39
40 6 0.09
42 6 0.09
43 15 0.21
45 6 0.09
46 2 0.03
ACGTcount: A:0.37, C:0.14, G:0.20, T:0.29
Consensus pattern (39 bp):
ATGTATCGATACAATGAGCATGTATCGATAGAAAGCAAT
Found at i:101211 original size:82 final size:82
Alignment explanation
Indices: 101111--101286 Score: 325
Period size: 82 Copynumber: 2.1 Consensus size: 82
101101 ACAATATCTG
*
101111 ATGTATCAATACAAATAGTGATAGGGTAGCTACTGCCAATTTCATGTATCGATACAATGAGCATG
1 ATGTATCGATACAAATAGTGATAGGGTAGCTACTGCCAATTTCATGTATCGATACAATGAGCATG
101176 TATCGATAGAAAGCAAT
66 TATCGATAGAAAGCAAT
* *
101193 ATGTATCGATACAAATAGTGATAGGGTAGCTACTGCCAGTTTCATGTATCTATACAATGAGCATG
1 ATGTATCGATACAAATAGTGATAGGGTAGCTACTGCCAATTTCATGTATCGATACAATGAGCATG
101258 TATCGATAGAAAGCAAT
66 TATCGATAGAAAGCAAT
101275 ATGTATCGATAC
1 ATGTATCGATAC
101287 TTTTGGGCTT
Statistics
Matches: 91, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
82 91 1.00
ACGTcount: A:0.36, C:0.15, G:0.20, T:0.29
Consensus pattern (82 bp):
ATGTATCGATACAAATAGTGATAGGGTAGCTACTGCCAATTTCATGTATCGATACAATGAGCATG
TATCGATAGAAAGCAAT
Found at i:102140 original size:20 final size:22
Alignment explanation
Indices: 102115--102159 Score: 67
Period size: 20 Copynumber: 2.1 Consensus size: 22
102105 GATACTTTGG
102115 ATTATTTTTA-ACTTG-AAAAC
1 ATTATTTTTATACTTGAAAAAC
*
102135 ATTATTTTTATGCTTGAAAAAC
1 ATTATTTTTATACTTGAAAAAC
102157 ATT
1 ATT
102160 TATACTTAAC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 10 0.45
21 4 0.18
22 8 0.36
ACGTcount: A:0.38, C:0.09, G:0.07, T:0.47
Consensus pattern (22 bp):
ATTATTTTTATACTTGAAAAAC
Found at i:106245 original size:20 final size:22
Alignment explanation
Indices: 106205--106249 Score: 67
Period size: 20 Copynumber: 2.1 Consensus size: 22
106195 GTTAAGTATA
106205 AATGTCTTTCAAGCATAAAAAT
1 AATGTCTTTCAAGCATAAAAAT
*
106227 AATGT-TTTCAAG-TTAAAAAT
1 AATGTCTTTCAAGCATAAAAAT
106247 AAT
1 AAT
106250 CCAAAGTATT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 10 0.45
21 7 0.32
22 5 0.23
ACGTcount: A:0.47, C:0.09, G:0.09, T:0.36
Consensus pattern (22 bp):
AATGTCTTTCAAGCATAAAAAT
Found at i:106401 original size:32 final size:32
Alignment explanation
Indices: 106347--106408 Score: 90
Period size: 32 Copynumber: 1.9 Consensus size: 32
106337 CACCGAGATG
106347 TATCATACATATTGCTTAGTATCGATACATTA
1 TATCATACATATTGCTTAGTATCGATACATTA
* *
106379 TATCAATACATGTT-CTTGGTATCGATACAT
1 TATC-ATACATATTGCTTAGTATCGATACAT
106409 AGTGAATGGT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
32 19 0.70
33 8 0.30
ACGTcount: A:0.32, C:0.16, G:0.11, T:0.40
Consensus pattern (32 bp):
TATCATACATATTGCTTAGTATCGATACATTA
Found at i:106493 original size:13 final size:13
Alignment explanation
Indices: 106456--106493 Score: 58
Period size: 13 Copynumber: 2.9 Consensus size: 13
106446 AACTTACTCA
* *
106456 ATATTGATACAGT
1 ATATCGATACATT
106469 ATATCGATACATT
1 ATATCGATACATT
106482 ATATCGATACAT
1 ATATCGATACAT
106494 GGTTAAATGT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.39, C:0.13, G:0.11, T:0.37
Consensus pattern (13 bp):
ATATCGATACATT
Found at i:108112 original size:3 final size:3
Alignment explanation
Indices: 108104--108133 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
108094 ATCCATTAAA
*
108104 GAT GAT GAT GAA GAT GAT GAT GAT GAT GAT
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT
108134 AAAGTTGACT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.37, C:0.00, G:0.33, T:0.30
Consensus pattern (3 bp):
GAT
Found at i:110850 original size:13 final size:13
Alignment explanation
Indices: 110832--110861 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
110822 AATATCATCA
110832 TGTATCGATACAT
1 TGTATCGATACAT
110845 TGTATCGATACAT
1 TGTATCGATACAT
110858 TGTA
1 TGTA
110862 CCATGTATCG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.30, C:0.13, G:0.17, T:0.40
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:110872 original size:33 final size:34
Alignment explanation
Indices: 110811--110876 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 34
110801 TTACAAGCAA
*
110811 TGTATCGATACAATATCATCATGTATCGATACAT
1 TGTATCGATACAATATCACCATGTATCGATACAT
* *
110845 TGTATCGATACATTGT-ACCATGTATCGATACA
1 TGTATCGATACAATATCACCATGTATCGATACA
110877 AATAGCGCTA
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
33 15 0.52
34 14 0.48
ACGTcount: A:0.33, C:0.18, G:0.14, T:0.35
Consensus pattern (34 bp):
TGTATCGATACAATATCACCATGTATCGATACAT
Found at i:110931 original size:20 final size:20
Alignment explanation
Indices: 110906--110963 Score: 84
Period size: 19 Copynumber: 3.0 Consensus size: 20
110896 CTGCCAATCT
*
110906 CATGTATCGATACAATTGTC
1 CATGTATCGATACAATTGTA
*
110926 CATGTATCGATACAA-TGAA
1 CATGTATCGATACAATTGTA
110945 CATGTATCGATAC-ATTGTA
1 CATGTATCGATACAATTGTA
110964 TCGATACAAA
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
18 1 0.03
19 18 0.53
20 15 0.44
ACGTcount: A:0.34, C:0.17, G:0.16, T:0.33
Consensus pattern (20 bp):
CATGTATCGATACAATTGTA
Found at i:110965 original size:13 final size:13
Alignment explanation
Indices: 110947--110971 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
110937 ACAATGAACA
110947 TGTATCGATACAT
1 TGTATCGATACAT
110960 TGTATCGATACA
1 TGTATCGATACA
110972 AAGCATAATG
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:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:110988 original size:33 final size:32
Alignment explanation
Indices: 110928--110992 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 32
110918 CAATTGTCCA
*
110928 TGTATCGATACAATGAACATGTATCGATACAT
1 TGTATCGATACAAAGAACATGTATCGATACAT
110960 TGTATCGATACAAAGCATA-ATGTATCGATACAT
1 TGTATCGATACAAAG-A-ACATGTATCGATACAT
110993 CTGGGTATGT
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
32 14 0.47
33 15 0.50
34 1 0.03
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (32 bp):
TGTATCGATACAAAGAACATGTATCGATACAT
Found at i:111907 original size:20 final size:19
Alignment explanation
Indices: 111878--111916 Score: 69
Period size: 20 Copynumber: 2.0 Consensus size: 19
111868 AGGTTAAAAC
111878 CCTTAAATGTATCGATACA
1 CCTTAAATGTATCGATACA
111897 CCTTCAAATGTATCGATACA
1 CCTT-AAATGTATCGATACA
111917 TAATGCACAG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 4 0.21
20 15 0.79
ACGTcount: A:0.36, C:0.23, G:0.10, T:0.31
Consensus pattern (19 bp):
CCTTAAATGTATCGATACA
Found at i:111944 original size:13 final size:13
Alignment explanation
Indices: 111926--111950 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
111916 ATAATGCACA
111926 GTATCGATACATT
1 GTATCGATACATT
111939 GTATCGATACAT
1 GTATCGATACAT
111951 GACCAAATGT
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:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
GTATCGATACATT
Found at i:111963 original size:20 final size:21
Alignment explanation
Indices: 111938--111990 Score: 65
Period size: 20 Copynumber: 2.6 Consensus size: 21
111928 ATCGATACAT
*
111938 TGTATCGATACATG-ACCA-AA
1 TGTATCGATACATGCA-AAGAA
*
111958 TGTATCGATACTTGCAAAGAA
1 TGTATCGATACATGCAAAGAA
111979 TGTATCGATACA
1 TGTATCGATACA
111991 ATGTATCGAT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
20 14 0.50
21 14 0.50
ACGTcount: A:0.38, C:0.17, G:0.17, T:0.28
Consensus pattern (21 bp):
TGTATCGATACATGCAAAGAA
Found at i:111995 original size:13 final size:13
Alignment explanation
Indices: 111977--112003 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
111967 ACTTGCAAAG
111977 AATGTATCGATAC
1 AATGTATCGATAC
111990 AATGTATCGATAC
1 AATGTATCGATAC
112003 A
1 A
112004 TCCCAAAATG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
AATGTATCGATAC
Found at i:111999 original size:34 final size:33
Alignment explanation
Indices: 111956--112023 Score: 100
Period size: 34 Copynumber: 2.0 Consensus size: 33
111946 TACATGACCA
* *
111956 AATGTATCGATACTTGCAAAGAATGTATCGATAC
1 AATGTATCGATACATCCAAA-AATGTATCGATAC
*
111990 AATGTATCGATACATCCCAAAATGTATCGATAC
1 AATGTATCGATACATCCAAAAATGTATCGATAC
112023 A
1 A
112024 TTGGCTTGTA
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
33 14 0.45
34 17 0.55
ACGTcount: A:0.40, C:0.18, G:0.15, T:0.28
Consensus pattern (33 bp):
AATGTATCGATACATCCAAAAATGTATCGATAC
Found at i:118186 original size:13 final size:13
Alignment explanation
Indices: 118167--118205 Score: 60
Period size: 13 Copynumber: 3.0 Consensus size: 13
118157 ACAGCATTCT
118167 CTGTATCGATACA
1 CTGTATCGATACA
*
118180 TTGTATCGATACA
1 CTGTATCGATACA
*
118193 CTGTATCAATACA
1 CTGTATCGATACA
118206 AAGGGCTTAT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.33, C:0.21, G:0.13, T:0.33
Consensus pattern (13 bp):
CTGTATCGATACA
Found at i:119544 original size:22 final size:22
Alignment explanation
Indices: 119516--119558 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
119506 CCAAATCCAT
119516 GACAAGATTGGCTATGAGGTGG
1 GACAAGATTGGCTATGAGGTGG
119538 GACAAGATTGGCTATGAGGTG
1 GACAAGATTGGCTATGAGGTG
119559 AGAAACTAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.28, C:0.09, G:0.40, T:0.23
Consensus pattern (22 bp):
GACAAGATTGGCTATGAGGTGG
Found at i:120675 original size:20 final size:19
Alignment explanation
Indices: 120646--120684 Score: 69
Period size: 20 Copynumber: 2.0 Consensus size: 19
120636 AGGTCAAAAC
120646 CCTTAAATGTATCGATACA
1 CCTTAAATGTATCGATACA
120665 CCTTCAAATGTATCGATACA
1 CCTT-AAATGTATCGATACA
120685 TAATGCACAG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 4 0.21
20 15 0.79
ACGTcount: A:0.36, C:0.23, G:0.10, T:0.31
Consensus pattern (19 bp):
CCTTAAATGTATCGATACA
Found at i:120712 original size:13 final size:13
Alignment explanation
Indices: 120694--120718 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
120684 ATAATGCACA
120694 GTATCGATACATT
1 GTATCGATACATT
120707 GTATCGATACAT
1 GTATCGATACAT
120719 GACCAAATGT
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:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
GTATCGATACATT
Found at i:120731 original size:20 final size:21
Alignment explanation
Indices: 120706--120758 Score: 65
Period size: 20 Copynumber: 2.6 Consensus size: 21
120696 ATCGATACAT
*
120706 TGTATCGATACATG-ACCA-AA
1 TGTATCGATACATGCA-AAGAA
*
120726 TGTATCGATACTTGCAAAGAA
1 TGTATCGATACATGCAAAGAA
120747 TGTATCGATACA
1 TGTATCGATACA
120759 GATGATTGGT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
20 14 0.50
21 14 0.50
ACGTcount: A:0.38, C:0.17, G:0.17, T:0.28
Consensus pattern (21 bp):
TGTATCGATACATGCAAAGAA
Found at i:120843 original size:20 final size:20
Alignment explanation
Indices: 120800--120851 Score: 70
Period size: 20 Copynumber: 2.6 Consensus size: 20
120790 CTTAACTGTT
*
120800 TGTATCGATACA-CACAAGA
1 TGTATCGATACATCACAAAA
*
120819 TGTATCGATACATCCCAAAA
1 TGTATCGATACATCACAAAA
*
120839 TGTATTGATACAT
1 TGTATCGATACAT
120852 TGGCTTGTAA
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
19 12 0.41
20 17 0.59
ACGTcount: A:0.38, C:0.19, G:0.13, T:0.29
Consensus pattern (20 bp):
TGTATCGATACATCACAAAA
Found at i:123480 original size:13 final size:13
Alignment explanation
Indices: 123462--123486 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
123452 AATAGTACCG
123462 AATGTATCGATAC
1 AATGTATCGATAC
123475 AATGTATCGATA
1 AATGTATCGATA
123487 TAAGGAATAT
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:0.40, C:0.12, G:0.16, T:0.32
Consensus pattern (13 bp):
AATGTATCGATAC
Found at i:126435 original size:21 final size:21
Alignment explanation
Indices: 126406--126447 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
126396 TGATTAGTAC
126406 CCTCATGTGTTGTTGCGAGCT
1 CCTCATGTGTTGTTGCGAGCT
*
126427 CCTCGTGTGTTGTTGCGAGCT
1 CCTCATGTGTTGTTGCGAGCT
126448 TGTCCCATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.07, C:0.24, G:0.31, T:0.38
Consensus pattern (21 bp):
CCTCATGTGTTGTTGCGAGCT
Found at i:127775 original size:19 final size:20
Alignment explanation
Indices: 127731--127785 Score: 76
Period size: 20 Copynumber: 2.8 Consensus size: 20
127721 CTGCCAATCT
**
127731 CATGTATCGATACAATTGTC
1 CATGTATCGATACAATTGAA
*
127751 CATGTATCGATACTATT-AA
1 CATGTATCGATACAATTGAA
127770 CATGTATCGATACAAT
1 CATGTATCGATACAAT
127786 GTATCGATAC
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
19 15 0.48
20 16 0.52
ACGTcount: A:0.35, C:0.18, G:0.13, T:0.35
Consensus pattern (20 bp):
CATGTATCGATACAATTGAA
Found at i:127789 original size:13 final size:13
Alignment explanation
Indices: 127771--127797 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
127761 TACTATTAAC
127771 ATGTATCGATACA
1 ATGTATCGATACA
127784 ATGTATCGATACA
1 ATGTATCGATACA
127797 A
1 A
127798 AGCATAATGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:131018 original size:28 final size:28
Alignment explanation
Indices: 130944--131671 Score: 484
Period size: 28 Copynumber: 25.3 Consensus size: 28
130934 CAACCGAATT
*
130944 CAAAGCCCACAAGTCAGTGGCA-CCTTTTT
1 CAAAGCCCACAAGTCAGTGGCATCC--TTC
* *
130973 TAAAGCCCACAAGTCAGTAGCATCCTTC
1 CAAAGCCCACAAGTCAGTGGCATCCTTC
* *
131001 CAAATCCCACGAGTCAGTGGCATCCTTTC
1 CAAAGCCCACAAGTCAGTGGCATCC-TTC
* * * * * ** *
131030 AAAAACCCACCAGTCAGTAGCCTTTTTT
1 CAAAGCCCACAAGTCAGTGGCATCCTTC
* * ** * *
131058 CAAAGCTCACAAGTTAGTGTTACCCTTT
1 CAAAGCCCACAAGTCAGTGGCATCCTTC
*
131086 CAAAGCCCACAAGTCAATGGCATCCTTTC
1 CAAAGCCCACAAGTCAGTGGCATCC-TTC
* * *
131115 AAAAGCCCACAAGTCAGTGGCACCCTTT
1 CAAAGCCCACAAGTCAGTGGCATCCTTC
* *
131143 CAAAGCCCACGAGTCAGTGACA-CCTTC
1 CAAAGCCCACAAGTCAGTGGCATCCTTC
* *
131170 TCAAAGCCCACAAGTTAGTGGCACCCTTC
1 -CAAAGCCCACAAGTCAGTGGCATCCTTC
*
131199 CAAAGCCCA-AGAGTCAGTGGCA-CCTTTT
1 CAAAGCCCACA-AGTCAGTGGCATCC-TTC
* * *
131227 AAAAGCCCACAAGTCAGTGGCACCCTTT
1 CAAAGCCCACAAGTCAGTGGCATCCTTC
* * *
131255 CGAAGCCCACACAAGTCGGTGGCAACCTCTC
1 CAAAG-CC-CACAAGTCAGTGGCATCCT-TC
* * * *
131286 TTAAAGCCCATAAGTCGGTGGCAACC--C
1 -CAAAGCCCACAAGTCAGTGGCATCCTTC
* * *
131313 CTTAAAGCCCACACAAGTCGGTGACAACCTCTC
1 C--AAAG-CC-CACAAGTCAGTGGCATCCT-TC
* * *
131346 TCAAAGCCCACAAGTTAGTGGCACCCTTT
1 -CAAAGCCCACAAGTCAGTGGCATCCTTC
* * *
131375 CAAAGCCCACAAGTTAGTGGCACCCTTT
1 CAAAGCCCACAAGTCAGTGGCATCCTTC
* * *
131403 CAAAGCCCACAAGTTAGTGGCACCCTTT
1 CAAAGCCCACAAGTCAGTGGCATCCTTC
* * *
131431 CGAAGCCCACAAATCAGTGGCATCCTTT
1 CAAAGCCCACAAGTCAGTGGCATCCTTC
* * *
131459 TAAAGCCTACAAGTCAGTGGCAACCCTTC
1 CAAAGCCCACAAGTCAGTGGC-ATCCTTC
* ** *
131488 TAAAGCCCACATAAGTTGGTGGCAACCTTC
1 CAAAGCCCAC--AAGTCAGTGGCATCCTTC
* *
131518 TCTAAAGCCCACACAAGTC-GATGGCAACCTCTTT
1 -C-AAAG-CC-CACAAGTCAG-TGGC-ATC-CTTC
*
131552 CAAAGCCCACAAGTCAGTGGCATCCTTT
1 CAAAGCCCACAAGTCAGTGGCATCCTTC
* * *
131580 CAAAGCCCACAAGTTAGTGGCACCCTTT
1 CAAAGCCCACAAGTCAGTGGCATCCTTC
* * *
131608 CGAAGCCCACAAATCAGTGGCAT-CTTT
1 CAAAGCCCACAAGTCAGTGGCATCCTTC
* * *
131635 TAAAGCCCACAAGT-AGAGGCAACCCTTC
1 CAAAGCCCACAAGTCAGTGGC-ATCCTTC
*
131663 TAAAGCCCA
1 CAAAGCCCA
131672 AACAAGTTGG
Statistics
Matches: 570, Mismatches: 95, Indels: 69
0.78 0.13 0.09
Matches are distributed among these distances:
26 5 0.01
27 24 0.04
28 308 0.54
29 94 0.16
30 85 0.15
31 18 0.03
32 23 0.04
33 6 0.01
34 7 0.01
ACGTcount: A:0.30, C:0.32, G:0.17, T:0.21
Consensus pattern (28 bp):
CAAAGCCCACAAGTCAGTGGCATCCTTC
Found at i:131063 original size:85 final size:85
Alignment explanation
Indices: 130945--131648 Score: 581
Period size: 85 Copynumber: 8.2 Consensus size: 85
130935 AACCGAATTC
* * *
130945 AAAGCCCACAAGTCAGTGGCACCTTTTTTAAAGCCCACAAGTCAGT-AGCATCCTTCCAAATCCC
1 AAAGCCCACAAGTCAGTGGCACC-TTTTCAAAGCCCACAAGTCAGTGA-CACCCTTCCAAAGCCC
*
131009 ACGAGTCAGTGGCATCCTTTCA
64 ACAAGTCAGTGGCATCCTTTCA
* * * * * * ** *
131031 AAAACCCACCAGTCAGTAGC-CTTTTTTCAAAGCTCACAAGTTAGTGTTACCCTTTCAAAGCCCA
1 AAAGCCCACAAGTCAGTGGCAC-CTTTTCAAAGCCCACAAGTCAGTGACACCCTTCCAAAGCCCA
*
131095 CAAGTCAATGGCATCCTTTCA
65 CAAGTCAGTGGCATCCTTTCA
* *
131116 AAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACGAGTCAGTGACA-CCTTCTCAAAGCCCA
1 AAAGCCCACAAGTCAGTGGCACCTTTTCAAAGCCCACAAGTCAGTGACACCCTTC-CAAAGCCCA
* * *
131180 CAAGTTAGTGGCA-CCCTTCC
65 CAAGTCAGTGGCATCCTTTCA
* * * *
131200 AAAGCCCA-AGAGTCAGTGGCACCTTTTAAAAGCCCACAAGTCAGTGGCACCCTTTCGAAGCCCA
1 AAAGCCCACA-AGTCAGTGGCACCTTTTCAAAGCCCACAAGTCAGTGACACCCTTCCAAAG-CC-
* * * *
131264 CACAAGTCGGTGGCAACCTCTCTT
63 CACAAGTCAGTGGCATCCTTTC-A
* * ** * *
131288 AAAGCCCATAAGTCGGTGGCAACCCCTT-AAAGCCCACACAAGTCGGTGACAACCTCTCTCAAAG
1 AAAGCCCACAAGTCAGTGGC-ACCTTTTCAAAG-CC-CACAAGTCAGTGACACCCT-TC-CAAAG
* *
131352 CCCACAAGTTAGTGGCACCCTTTC-
61 CCCACAAGTCAGTGGCATCCTTTCA
* * * * * *
131376 AAAGCCCACAAGTTAGTGGCACCCTTTCAAAGCCCACAAGTTAGTGGCACCCTTTCGAAGCCCAC
1 AAAGCCCACAAGTCAGTGGCACCTTTTCAAAGCCCACAAGTCAGTGACACCCTTCCAAAGCCCAC
* *
131441 AAATCAGTGGCATCCTTT-T
66 AAGTCAGTGGCATCCTTTCA
* * ** * *
131460 AAAGCCTACAAGTCAGTGGCAACC-CTTCTAAAGCCCACATAAGTTGGTGGCAACCTTCTCTAAA
1 AAAGCCCACAAGTCAGTGGC-ACCTTTTC-AAAGCCCAC--AAGTCAGTGACACCCTTC-C-AAA
*
131524 GCCCACACAAGTC-GATGGCAACCTCTTTC-
60 G-CC-CACAAGTCAG-TGGC-ATC-CTTTCA
* * * *
131553 AAAGCCCACAAGTCAGTGGCATCC-TTTCAAAGCCCACAAGTTAGTGGCACCCTTTCGAAGCCCA
1 AAAGCCCACAAGTCAGTGGCA-CCTTTTCAAAGCCCACAAGTCAGTGACACCCTTCCAAAGCCCA
* *
131617 CAAATCAGTGGCAT-CTTT-T
65 CAAGTCAGTGGCATCCTTTCA
131636 AAAGCCCACAAGT
1 AAAGCCCACAAGT
131649 AGAGGCAACC
Statistics
Matches: 503, Mismatches: 82, Indels: 69
0.77 0.13 0.11
Matches are distributed among these distances:
83 18 0.04
84 101 0.20
85 129 0.26
86 57 0.11
87 30 0.06
88 46 0.09
89 12 0.02
90 52 0.10
91 14 0.03
92 16 0.03
93 28 0.06
ACGTcount: A:0.30, C:0.32, G:0.17, T:0.21
Consensus pattern (85 bp):
AAAGCCCACAAGTCAGTGGCACCTTTTCAAAGCCCACAAGTCAGTGACACCCTTCCAAAGCCCAC
AAGTCAGTGGCATCCTTTCA
Found at i:131115 original size:56 final size:56
Alignment explanation
Indices: 130942--131671 Score: 704
Period size: 56 Copynumber: 12.7 Consensus size: 56
130932 TACAACCGAA
* * *
130942 TTCAAAGCCCACAAGTCAGTGGCACCTTTTTTAAAGCCCACAAGTCAGTAGCATCCT
1 TTCAAAGCCCACAAGTCAGTGGCACC-CTTTCAAAGCCCACAAGTCAGTGGCATCCT
* * * * * * * * **
130999 TCCAAATCCCACGAGTCAGTGGCATCCTTTCAAAAACCCACCAGTCAGTAGCCTTTT
1 TTCAAAGCCCACAAGTCAGTGGCACCCTTTC-AAAGCCCACAAGTCAGTGGCATCCT
* * ** *
131056 TTCAAAGCTCACAAGTTAGTGTTACCCTTTCAAAGCCCACAAGTCAATGGCATCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCATCCT
* *
131112 TTCAAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACGAGTCAGTGACA-CCT
1 TTC-AAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCATCCT
* *
131168 TCTCAAAGCCCACAAGTTAGTGGCACCCTTCCAAAGCCCA-AGAGTCAGTGGCA-CCTT
1 T-TCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACA-AGTCAGTGGCATCC-T
* * * *
131225 TTAAAAGCCCACAAGTCAGTGGCACCCTTTCGAAGCCCACACAAGTCGGTGGCAACCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAG-CC-CACAAGTCAGTGGCATCCT
* * * * * * *
131283 CTCTTAAAGCCCATAAGTCGGTGGCAACCCCTT-AAAGCCCACACAAGTCGGTGACAACCT
1 -T-TCAAAGCCCACAAGTCAGTGGC-ACCCTTTCAAAG-CC-CACAAGTCAGTGGCATCCT
* * *
131343 CTCTCAAAGCCCACAAGTTAGTGGCACCCTTTCAAAGCCCACAAGTTAGTGGCACCCT
1 -T-TCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCATCCT
* * *
131401 TTCAAAGCCCACAAGTTAGTGGCACCCTTTCGAAGCCCACAAATCAGTGGCATCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCATCCT
* * ** *
131457 TTTAAAGCCTACAAGTCAGTGGCAACCC-TTCTAAAGCCCACATAAGTTGGTGGCAACCT
1 TTCAAAGCCCACAAGTCAGTGGC-ACCCTTTC-AAAGCCCAC--AAGTCAGTGGCATCCT
131516 TCTCTAAAGCCCACACAAGTC-GATGGCAACCTCTTTCAAAGCCCACAAGTCAGTGGCATCCT
1 T-TC-AAAG-CC-CACAAGTCAG-TGGC-ACC-CTTTCAAAGCCCACAAGTCAGTGGCATCCT
* * *
131578 TTCAAAGCCCACAAGTTAGTGGCACCCTTTCGAAGCCCACAAATCAGTGGCAT-CT
1 TTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCATCCT
* *
131633 TTTAAAGCCCACAAGT-AGAGGCAACCC-TTCTAAAGCCCA
1 TTCAAAGCCCACAAGTCAGTGGC-ACCCTTTC-AAAGCCCA
131672 AACAAGTTGG
Statistics
Matches: 566, Mismatches: 80, Indels: 56
0.81 0.11 0.08
Matches are distributed among these distances:
54 8 0.01
55 28 0.05
56 203 0.36
57 129 0.23
58 39 0.07
59 28 0.05
60 74 0.13
61 12 0.02
62 17 0.03
63 15 0.03
64 10 0.02
65 3 0.01
ACGTcount: A:0.30, C:0.32, G:0.17, T:0.21
Consensus pattern (56 bp):
TTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCATCCT
Found at i:131374 original size:232 final size:231
Alignment explanation
Indices: 131084--131673 Score: 766
Period size: 232 Copynumber: 2.5 Consensus size: 231
131074 GTGTTACCCT
* * * *
131084 TTCAAAGCCCACAAGTCAATGGCATCCTTTCAAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGC
1 TTCAAAGCCCACAAGTCAGTGACAACCTTTC-AAAGCCCACAAGTTAGTGGCACCCTTTCAAAGC
* * *
131149 CCACGAGTCAGTGACACCTTCTCAAAGCCCACAAGTTAGTGGCACCCTTCCAAAGCCCAAGAGTC
65 CCACAAGTCAGTGGCACCTT-TCAAAGCCCACAAGTTAGTGGCACCCTTCCAAAGCCCAA-AATC
*
131214 AGTGGCA-CCTTTTAAAAGCCCACAAGTCAGTGGC-ACCCTT-TCGAAGCCCACACAAGTCGGTG
128 AGTGGCATCCTTTT-AAAGCCCACAAGTCAGTGGCAACCCTTCT-AAAGCCCACACAAGTCGGTG
* *
131276 GCAACC-TCTCTTAAAG-CC-CATAAGTCGGTGGCAACC-CC
191 GCAACCTTCTC-TAAAGCCCACACAAGTCGATGGCAACCTCC
*
131314 TT-AAAGCCCACACAAGTCGGTGACAACCTCTCTCAAAGCCCACAAGTTAGTGGCACCCTTTCAA
1 TTCAAAG-CC-CACAAGTCAGTGACAACCT-T-TCAAAGCCCACAAGTTAGTGGCACCCTTTCAA
* * *
131378 AGCCCACAAGTTAGTGGCACCCTTTCAAAGCCCACAAGTTAGTGGCACCCTTTCGAAGCCCACAA
62 AGCCCACAAGTCAGTGGCA-CCTTTCAAAGCCCACAAGTTAGTGGCACCCTTCCAAAGCCCA-AA
* * *
131443 ATCAGTGGCATCCTTTTAAAGCCTACAAGTCAGTGGCAACCCTTCTAAAGCCCACATAAGTTGGT
125 ATCAGTGGCATCCTTTTAAAGCCCACAAGTCAGTGGCAACCCTTCTAAAGCCCACACAAGTCGGT
*
131508 GGCAACCTTCTCTAAAGCCCACACAAGTCGATGGCAACCTCT
190 GGCAACCTTCTCTAAAGCCCACACAAGTCGATGGCAACCTCC
* * *
131550 TTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTTAGTGGCACCCTTTCGAAGCC
1 TTCAAAGCCCACAAGTCAGTGACAACCTTTCAAAGCCCACAAGTTAGTGGCACCCTTTCAAAGCC
* * * * *
131615 CACAAATCAGTGGCATCTTTTAAAGCCCACAAG-TAGAGGCAACCCTTCTAAAGCCCAAA
66 CACAAGTCAGTGGCACCTTTCAAAGCCCACAAGTTAGTGGC-ACCCTTCCAAAGCCCAAA
131674 CAAGTTGGTG
Statistics
Matches: 315, Mismatches: 30, Indels: 29
0.84 0.08 0.08
Matches are distributed among these distances:
229 4 0.01
230 4 0.01
231 23 0.07
232 140 0.44
233 95 0.30
234 8 0.03
235 32 0.10
236 5 0.02
237 4 0.01
ACGTcount: A:0.30, C:0.32, G:0.18, T:0.20
Consensus pattern (231 bp):
TTCAAAGCCCACAAGTCAGTGACAACCTTTCAAAGCCCACAAGTTAGTGGCACCCTTTCAAAGCC
CACAAGTCAGTGGCACCTTTCAAAGCCCACAAGTTAGTGGCACCCTTCCAAAGCCCAAAATCAGT
GGCATCCTTTTAAAGCCCACAAGTCAGTGGCAACCCTTCTAAAGCCCACACAAGTCGGTGGCAAC
CTTCTCTAAAGCCCACACAAGTCGATGGCAACCTCC
Found at i:139067 original size:16 final size:15
Alignment explanation
Indices: 139046--139084 Score: 60
Period size: 16 Copynumber: 2.5 Consensus size: 15
139036 ATGCATGAAA
139046 AAAGTTTATTTTATAG
1 AAAGTTTATTTTAT-G
139062 AAAGTTTATTTTATG
1 AAAGTTTATTTTATG
*
139077 AAAATTTA
1 AAAGTTTA
139085 AATAAAAACC
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
15 8 0.36
16 14 0.64
ACGTcount: A:0.41, C:0.00, G:0.10, T:0.49
Consensus pattern (15 bp):
AAAGTTTATTTTATG
Found at i:139298 original size:16 final size:16
Alignment explanation
Indices: 139277--139331 Score: 67
Period size: 16 Copynumber: 3.4 Consensus size: 16
139267 CTTAGAAGAG
*
139277 CTTTTTCTTCCTTTTT
1 CTTTTTCTTTCTTTTT
139293 CTTTTTCTTTCTTTTT
1 CTTTTTCTTTCTTTTT
* *
139309 -TATTTCTTTATCTTTT
1 CTTTTTCTTTCT-TTTT
139325 CTTTTTC
1 CTTTTTC
139332 GGTTGTTTAA
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
15 9 0.27
16 19 0.58
17 5 0.15
ACGTcount: A:0.04, C:0.20, G:0.00, T:0.76
Consensus pattern (16 bp):
CTTTTTCTTTCTTTTT
Found at i:139316 original size:21 final size:22
Alignment explanation
Indices: 139290--139330 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
139280 TTTCTTCCTT
*
139290 TTTCTTTTTC-TTTCTTTTTTA
1 TTTCTTTATCTTTTCTTTTTTA
139311 TTTCTTTATCTTTTCTTTTT
1 TTTCTTTATCTTTTCTTTTT
139331 CGGTTGTTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 9 0.50
22 9 0.50
ACGTcount: A:0.05, C:0.15, G:0.00, T:0.80
Consensus pattern (22 bp):
TTTCTTTATCTTTTCTTTTTTA
Found at i:140831 original size:19 final size:21
Alignment explanation
Indices: 140806--140859 Score: 76
Period size: 19 Copynumber: 2.7 Consensus size: 21
140796 ACATGCTGCT
**
140806 TTGTATCGATACATATTC-AA
1 TTGTATCGATACATAGACAAA
140826 -TGTATCGATACATAGACAAA
1 TTGTATCGATACATAGACAAA
140846 TTGTATCGATACAT
1 TTGTATCGATACAT
140860 GAAACTGGCA
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
19 15 0.50
20 2 0.07
21 13 0.43
ACGTcount: A:0.37, C:0.15, G:0.13, T:0.35
Consensus pattern (21 bp):
TTGTATCGATACATAGACAAA
Found at i:140926 original size:13 final size:13
Alignment explanation
Indices: 140905--140971 Score: 74
Period size: 13 Copynumber: 5.6 Consensus size: 13
140895 CGATACATGG
*
140905 TACAATGTATCGA
1 TACATTGTATCGA
140918 TACATTGTATCGA
1 TACATTGTATCGA
140931 TACATTG--T-GA
1 TACATTGTATCGA
140941 -A-A-TGTATCGA
1 TACATTGTATCGA
140951 TACATTGTATCGA
1 TACATTGTATCGA
*
140964 TGCATTGT
1 TACATTGT
140972 GAAATGTATC
Statistics
Matches: 46, Mismatches: 2, Indels: 12
0.77 0.03 0.20
Matches are distributed among these distances:
7 2 0.04
8 1 0.02
9 2 0.04
10 4 0.09
11 2 0.04
12 1 0.02
13 34 0.74
ACGTcount: A:0.31, C:0.13, G:0.18, T:0.37
Consensus pattern (13 bp):
TACATTGTATCGA
Found at i:140934 original size:33 final size:33
Alignment explanation
Indices: 140892--140988 Score: 160
Period size: 33 Copynumber: 2.9 Consensus size: 33
140882 TCACTATTTA
*
140892 TATCGATACATGGT-ACAATGTATCGATACATTG
1 TATCGATACATTGTGA-AATGTATCGATACATTG
140925 TATCGATACATTGTGAAATGTATCGATACATTG
1 TATCGATACATTGTGAAATGTATCGATACATTG
*
140958 TATCGATGCATTGTGAAATGTATCGATACAT
1 TATCGATACATTGTGAAATGTATCGATACAT
140989 AGCTTGTAAC
Statistics
Matches: 61, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
33 60 0.98
34 1 0.02
ACGTcount: A:0.33, C:0.13, G:0.19, T:0.35
Consensus pattern (33 bp):
TATCGATACATTGTGAAATGTATCGATACATTG
Found at i:140948 original size:20 final size:20
Alignment explanation
Indices: 140923--140988 Score: 74
Period size: 20 Copynumber: 3.6 Consensus size: 20
140913 ATCGATACAT
140923 TGTATCGATACATTGTGAAA
1 TGTATCGATACATTGTGAAA
140943 TGTATCGATACA---T----
1 TGTATCGATACATTGTGAAA
*
140956 TGTATCGATGCATTGTGAAA
1 TGTATCGATACATTGTGAAA
140976 TGTATCGATACAT
1 TGTATCGATACAT
140989 AGCTTGTAAC
Statistics
Matches: 37, Mismatches: 2, Indels: 14
0.70 0.04 0.26
Matches are distributed among these distances:
13 11 0.30
16 1 0.03
17 1 0.03
20 24 0.65
ACGTcount: A:0.32, C:0.12, G:0.20, T:0.36
Consensus pattern (20 bp):
TGTATCGATACATTGTGAAA
Found at i:144387 original size:19 final size:20
Alignment explanation
Indices: 144362--144417 Score: 71
Period size: 19 Copynumber: 2.8 Consensus size: 20
144352 ACATGCTGCT
*
144362 TTGTATCGATACATGTTC-AA
1 TTGTATCGATACATG-ACAAA
144382 -TGTATCGATACATAGACAAA
1 TTGTATCGATACAT-GACAAA
144402 TTGTATCGATACATGA
1 TTGTATCGATACATGA
144418 AACTAGAAGT
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
19 14 0.44
20 5 0.16
21 13 0.41
ACGTcount: A:0.36, C:0.14, G:0.16, T:0.34
Consensus pattern (20 bp):
TTGTATCGATACATGACAAA
Found at i:146063 original size:21 final size:20
Alignment explanation
Indices: 146038--146090 Score: 81
Period size: 19 Copynumber: 2.6 Consensus size: 20
146028 TACAAGCCAA
*
146038 TGTATCGATACAATTTTTTTG
1 TGTATCGATACAA-TATTTTG
146059 TGTATCGATAC-ATATTTTG
1 TGTATCGATACAATATTTTG
146078 TGTATCGATACAA
1 TGTATCGATACAA
146091 GTTTGGCTAC
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
19 17 0.57
20 2 0.07
21 11 0.37
ACGTcount: A:0.28, C:0.11, G:0.15, T:0.45
Consensus pattern (20 bp):
TGTATCGATACAATATTTTG
Found at i:148649 original size:13 final size:13
Alignment explanation
Indices: 148631--148668 Score: 58
Period size: 13 Copynumber: 2.9 Consensus size: 13
148621 ATAATCCCCC
148631 TGTATCGATACAG
1 TGTATCGATACAG
* *
148644 TGTATCAATACAT
1 TGTATCGATACAG
148657 TGTATCGATACA
1 TGTATCGATACA
148669 AAGAAAAATG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Consensus pattern (13 bp):
TGTATCGATACAG
Found at i:154537 original size:32 final size:30
Alignment explanation
Indices: 154501--154559 Score: 75
Period size: 32 Copynumber: 1.9 Consensus size: 30
154491 GAAATCAAAT
154501 ACAAAGAGCT-TAGAAAAATAATAATAATATGA
1 ACAAA-AGCTCTAGAAAAAT-ATAA-AATATGA
*
154533 ACAAAAGCTCTTGAAAAATATAAAATA
1 ACAAAAGCTCTAGAAAAATATAAAATA
154560 CTTTGATCTA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
30 4 0.16
31 8 0.32
32 13 0.52
ACGTcount: A:0.59, C:0.08, G:0.10, T:0.22
Consensus pattern (30 bp):
ACAAAAGCTCTAGAAAAATATAAAATATGA
Found at i:154860 original size:13 final size:13
Alignment explanation
Indices: 154842--154867 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
154832 AATTTTTTTG
154842 TGTATCGATACAT
1 TGTATCGATACAT
154855 TGTATCGATACAT
1 TGTATCGATACAT
154868 ATTTTGTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:154878 original size:32 final size:34
Alignment explanation
Indices: 154821--154885 Score: 107
Period size: 32 Copynumber: 2.0 Consensus size: 34
154811 TACAAGCCAA
*
154821 TGTATCGATACAATTTTTTTGTGTATCGATACAT
1 TGTATCGATACAATTATTTTGTGTATCGATACAT
154855 TGTATCGATAC-A-TATTTTGTGTATCGATACA
1 TGTATCGATACAATTATTTTGTGTATCGATACA
154886 AGTTTGGCTA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
32 18 0.60
33 1 0.03
34 11 0.37
ACGTcount: A:0.28, C:0.12, G:0.15, T:0.45
Consensus pattern (34 bp):
TGTATCGATACAATTATTTTGTGTATCGATACAT
Found at i:156145 original size:7 final size:7
Alignment explanation
Indices: 156135--156166 Score: 64
Period size: 7 Copynumber: 4.6 Consensus size: 7
156125 TTCTAAAATT
156135 TAAACCC
1 TAAACCC
156142 TAAACCC
1 TAAACCC
156149 TAAACCC
1 TAAACCC
156156 TAAACCC
1 TAAACCC
156163 TAAA
1 TAAA
156167 AACTAAATAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 25 1.00
ACGTcount: A:0.47, C:0.38, G:0.00, T:0.16
Consensus pattern (7 bp):
TAAACCC
Found at i:164260 original size:13 final size:13
Alignment explanation
Indices: 164242--164284 Score: 79
Period size: 13 Copynumber: 3.4 Consensus size: 13
164232 GCAACTTTAT
164242 GAAAAAAAGAAAA
1 GAAAAAAAGAAAA
164255 GAAAAAAA-AAAA
1 GAAAAAAAGAAAA
164267 GAAAAAAAGAAAA
1 GAAAAAAAGAAAA
164280 GAAAA
1 GAAAA
164285 TAACAACACT
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
12 12 0.41
13 17 0.59
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (13 bp):
GAAAAAAAGAAAA
Found at i:164261 original size:12 final size:12
Alignment explanation
Indices: 164244--164284 Score: 64
Period size: 12 Copynumber: 3.3 Consensus size: 12
164234 AACTTTATGA
164244 AAAAAAGAAAAG
1 AAAAAAGAAAAG
*
164256 AAAAAAAAAAAG
1 AAAAAAGAAAAG
164268 AAAAAAAGAAAAG
1 -AAAAAAGAAAAG
164281 AAAA
1 AAAA
164285 TAACAACACT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
12 15 0.58
13 11 0.42
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (12 bp):
AAAAAAGAAAAG
Found at i:164262 original size:8 final size:8
Alignment explanation
Indices: 164242--164279 Score: 58
Period size: 8 Copynumber: 4.6 Consensus size: 8
164232 GCAACTTTAT
164242 GAAAAAAA
1 GAAAAAAA
164250 GAAAAGAAA
1 GAAAA-AAA
*
164259 AAAAAAAA
1 GAAAAAAA
164267 GAAAAAAA
1 GAAAAAAA
164275 GAAAA
1 GAAAA
164280 GAAAATAACA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
8 20 0.74
9 7 0.26
ACGTcount: A:0.87, C:0.00, G:0.13, T:0.00
Consensus pattern (8 bp):
GAAAAAAA
Found at i:165620 original size:13 final size:13
Alignment explanation
Indices: 165602--165627 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
165592 TACACCAAGT
165602 ATGTATCGATACA
1 ATGTATCGATACA
165615 ATGTATCGATACA
1 ATGTATCGATACA
165628 CCAAAAAATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:165646 original size:34 final size:32
Alignment explanation
Indices: 165586--165648 Score: 90
Period size: 32 Copynumber: 1.9 Consensus size: 32
165576 GCCAAACTTA
**
165586 TATCGATACACCAAGTATGTATCGATACAATG
1 TATCGATACACCAAAAATGTATCGATACAATG
165618 TATCGATACACCAAAAAATTGTATCGATACA
1 TATCGATACACC-AAAAA-TGTATCGATACA
165649 TTGGCTTGTA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
32 12 0.44
33 3 0.11
34 12 0.44
ACGTcount: A:0.41, C:0.19, G:0.13, T:0.27
Consensus pattern (32 bp):
TATCGATACACCAAAAATGTATCGATACAATG
Found at i:171824 original size:13 final size:13
Alignment explanation
Indices: 171806--171844 Score: 60
Period size: 13 Copynumber: 3.0 Consensus size: 13
171796 ACATTTTTCT
171806 TTGTATCGATACA
1 TTGTATCGATACA
*
171819 TTGTATCGATGCA
1 TTGTATCGATACA
*
171832 CTGTATCGATACA
1 TTGTATCGATACA
171845 GGAGGATTAA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.28, C:0.18, G:0.18, T:0.36
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:171998 original size:20 final size:20
Alignment explanation
Indices: 171955--172001 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 20
171945 AAATCTTTTG
171955 CAAAATACTTGTTTTTCACTT
1 CAAAATACTTGTTTTTCAC-T
*
171976 CAAATTACTTCGTTTTTCA-T
1 CAAAATACTT-GTTTTTCACT
171996 CAAAAT
1 CAAAAT
172002 CAGCTTCAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
20 6 0.26
21 9 0.39
22 8 0.35
ACGTcount: A:0.32, C:0.19, G:0.04, T:0.45
Consensus pattern (20 bp):
CAAAATACTTGTTTTTCACT
Found at i:174350 original size:13 final size:13
Alignment explanation
Indices: 174332--174357 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
174322 TACACCAAGT
174332 ATGTATCGATACA
1 ATGTATCGATACA
174345 ATGTATCGATACA
1 ATGTATCGATACA
174358 CCAAAAAATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:174376 original size:34 final size:32
Alignment explanation
Indices: 174314--174378 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 32
174304 TAGCCAAACT
**
174314 TGTATCGATACACCAAGTATGTATCGATACAA
1 TGTATCGATACACCAAAAATGTATCGATACAA
174346 TGTATCGATACACCAAAAAATTGTATCGATACA
1 TGTATCGATACACC-AAAAA-TGTATCGATACA
174379 TTGGCTTGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
32 14 0.48
33 3 0.10
34 12 0.41
ACGTcount: A:0.40, C:0.18, G:0.14, T:0.28
Consensus pattern (32 bp):
TGTATCGATACACCAAAAATGTATCGATACAA
Found at i:176589 original size:13 final size:13
Alignment explanation
Indices: 176548--176596 Score: 63
Period size: 13 Copynumber: 4.2 Consensus size: 13
176538 CCATTACAAG
176548 CAATGTATCGATA
1 CAATGTATCGATA
176561 CAAT-T-TC-AT-
1 CAATGTATCGATA
176570 C-ATGTATCGATA
1 CAATGTATCGATA
176582 CAATGTATCGATA
1 CAATGTATCGATA
176595 CA
1 CA
176597 TTGTCCTATA
Statistics
Matches: 31, Mismatches: 0, Indels: 10
0.76 0.00 0.24
Matches are distributed among these distances:
8 2 0.06
9 2 0.06
10 4 0.13
11 4 0.13
12 2 0.06
13 17 0.55
ACGTcount: A:0.37, C:0.18, G:0.12, T:0.33
Consensus pattern (13 bp):
CAATGTATCGATA
Found at i:179184 original size:13 final size:13
Alignment explanation
Indices: 179166--179194 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
179156 AAATAGTACC
179166 CAATGTATCGATA
1 CAATGTATCGATA
179179 CAATGTATCGATA
1 CAATGTATCGATA
179192 CAA
1 CAA
179195 GGAATGTTGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.41, C:0.17, G:0.14, T:0.28
Consensus pattern (13 bp):
CAATGTATCGATA
Found at i:182821 original size:543 final size:540
Alignment explanation
Indices: 181617--183213 Score: 3056
Period size: 538 Copynumber: 3.0 Consensus size: 540
181607 AAGGCAAAGG
181617 TATAACCTTACAATCCTTATCTTTTAAGGCTAAAATAACAACCTATTAATCTCTTCAAGAACTAT
1 TATAACCTTACAATCCTTATCTTTTAAGGCTAAAATAACAACCTATTAATCTCTTCAAGAACTAT
181682 ACCCCAAGTTCCTAAGAGATTAACACTTTTCGGTTGAACACAACTTCAACAAAACAAAAAAAGTT
66 ACCCCAAGTTCCTAAGAGATTAACACTTTTCGGTTGAACACAACTTCAACAAAACAAAAAAAGTT
* *
181747 TACAAACGAGAATTGTCTCTAATTAGGCTGGTGTTTGTGGGAATATAAGCTCAAAATCAAATAGA
131 TACAAACGAGAATTGCCTCTAATTAGGCTGGTGTTTGTGGGAATATAAGCTCAAAATCAAATACA
181812 AAAGAGCTTTGAAAATAATAACAATGAAAAACAAAAGCTCTTGGAAATGTGAAATCTCTTTGAAC
196 AAAGAGCTTTGAAAATAATAACAATG-AAAACAAAAGCTCTTGGAAATGTGAAATCTCTTTGAAC
181877 TTTGAAAGCTTTGATCTCTTGATGTTTCTTGCTTAGTTCTCTTGATGTTCAGGTGCTGGAAGCTT
260 TTTGAAAGCTTTGATCTCTTGATGTTTCTTGCTTAGTTCTCTTGATGTTCAGGTGCTGGAAGCTT
181942 ATATTTATAGGCTTGGATGCTGATGTAGCCGTTGGAGGTTGAATGATTGAGTTACTAGCCATTAC
325 ATATTTATAGGCTTGGATGCTGATGTAGCCGTTGGAGGTTGAATGATT--GTTACTAGCCATTAC
182007 AAGCATGTTTGGTGCTTGTTTTCATGCTTCCCCATAGCCATGGATCGATACAATTCATAATGTAT
388 AAGCATGTTTGGTGCTTGTTTTCATGCTTCCCCATAGCCATGGATCGATACAATTCATAATGTAT
182072 CGATACATTGATTTGAAATTATAGCTGTTTATAGCCGTTACAAGCTATGTATCGATACATTTCGG
453 CGATACATTGATTTGAAATTATAGCTGTTTATAGCCGTTACAAGCTATGTATCGATACATTTCGG
182137 TTGAACAACCTATTATAGCTGTT
518 TTGAACAACCTATTATAGCTGTT
182160 TATAACCTTACAATCCTTATCTTTTAAGGCTAAAATAACAACCTATTAATCTCTTCAAGAACTAT
1 TATAACCTTACAATCCTTATCTTTTAAGGCTAAAATAACAACCTATTAATCTCTTCAAGAACTAT
182225 ACCCCAAGTTCCTAAGAGATTAACACTTTTCGGTTGAACACAACTTCAACAAAACAAAAAAAGTT
66 ACCCCAAGTTCCTAAGAGATTAACACTTTTCGGTTGAACACAACTTCAACAAAACAAAAAAAGTT
*
182290 TACAAACGAGAATTGCCTCTAATTAGGCTAGTGTTTGTGGGAATATAAGCTCAAAATCAAATACA
131 TACAAACGAGAATTGCCTCTAATTAGGCTGGTGTTTGTGGGAATATAAGCTCAAAATCAAATACA
182355 AAAGAGCTTTGAAAATAATAACAATGAAAACAAAAGCTCTTGGAAATGTGAAATCTCTTTGAACT
196 AAAGAGCTTTGAAAATAATAACAATGAAAACAAAAGCTCTTGGAAATGTGAAATCTCTTTGAACT
182420 TTGAAAGCTTTGATCTCTTGATGTTTCTTGCTTAGTTCTCTTGATGTTCAGGTGCTGGAAGCTTA
261 TTGAAAGCTTTGATCTCTTGATGTTTCTTGCTTAGTTCTCTTGATGTTCAGGTGCTGGAAGCTTA
* **
182485 TATTTATAGGCTTGGATGCTGATGCAGCCGTTGGATTTTGAATGA-T-TTACTAGCCATTACAAG
326 TATTTATAGGCTTGGATGCTGATGTAGCCGTTGGAGGTTGAATGATTGTTACTAGCCATTACAAG
182548 CATGTTTGGTGCTTGTTTTCATGCTTCCCCATAGCCATGGATCGATACAATTCATAATGTATCGA
391 CATGTTTGGTGCTTGTTTTCATGCTTCCCCATAGCCATGGATCGATACAATTCATAATGTATCGA
182613 TACATTGATTTGAAATTATAGCTGTTTATAGCCGTTACAAGCTATGTATCGATACATTTCGGTTG
456 TACATTGATTTGAAATTATAGCTGTTTATAGCCGTTACAAGCTATGTATCGATACATTTCGGTTG
182678 AACAACCTATTATAGCTGTT
521 AACAACCTATTATAGCTGTT
182698 TATAACCTTACAATCCTTATCTTTTAAGGCTAAAATAACAACCTATTAATCTCTTCAAGAACTAT
1 TATAACCTTACAATCCTTATCTTTTAAGGCTAAAATAACAACCTATTAATCTCTTCAAGAACTAT
182763 ACCCCAAGTTCCTAAGAGATTAACACTTTTCGGTTGAACACAACTTCAACAAAACAAAAAAAGTT
66 ACCCCAAGTTCCTAAGAGATTAACACTTTTCGGTTGAACACAACTTCAACAAAACAAAAAAAGTT
*
182828 TACAAACGAGAATTGCCTTTAATTA-GCTGGTGTTTGTGGGAATATAAGCTCAAAATCAAATACA
131 TACAAACGAGAATTGCCTCTAATTAGGCTGGTGTTTGTGGGAATATAAGCTCAAAATCAAATACA
182892 AAAGAGCTTTGAAAATAATAACAATGAAAACAAAAGCTCTTGGAAATGTGAAATCTCTTTGAACT
196 AAAGAGCTTTGAAAATAATAACAATGAAAACAAAAGCTCTTGGAAATGTGAAATCTCTTTGAACT
182957 TTGAAAGCTTTGATCTCTTGATGTTTCTTGCTTAGTTCTCTTGATGTTCAGGTGCTGGAAGCTTA
261 TTGAAAGCTTTGATCTCTTGATGTTTCTTGCTTAGTTCTCTTGATGTTCAGGTGCTGGAAGCTTA
183022 TATTTATAGGCTTGGATGCTGATGTAGCCGTTGGAGGTTGAATGATTGAGTTACTAGCCATTACA
326 TATTTATAGGCTTGGATGCTGATGTAGCCGTTGGAGGTTGAATGATT--GTTACTAGCCATTACA
*
183087 AGCATGTTTGGTGCTTGTTTTCATGCTTTCCCATAGCCATGGATCGATACAATTCATAATGTATC
389 AGCATGTTTGGTGCTTGTTTTCATGCTTCCCCATAGCCATGGATCGATACAATTCATAATGTATC
183152 GATACATTGATTTGAAATTATAGCTGTTTATAGCCGTTACAAGCTATGTATCGATACATTTC
454 GATACATTGATTTGAAATTATAGCTGTTTATAGCCGTTACAAGCTATGTATCGATACATTTC
183214 TTCATGTATC
Statistics
Matches: 1038, Mismatches: 12, Indels: 10
0.98 0.01 0.01
Matches are distributed among these distances:
537 210 0.20
538 322 0.31
541 142 0.14
542 146 0.14
543 218 0.21
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.34
Consensus pattern (540 bp):
TATAACCTTACAATCCTTATCTTTTAAGGCTAAAATAACAACCTATTAATCTCTTCAAGAACTAT
ACCCCAAGTTCCTAAGAGATTAACACTTTTCGGTTGAACACAACTTCAACAAAACAAAAAAAGTT
TACAAACGAGAATTGCCTCTAATTAGGCTGGTGTTTGTGGGAATATAAGCTCAAAATCAAATACA
AAAGAGCTTTGAAAATAATAACAATGAAAACAAAAGCTCTTGGAAATGTGAAATCTCTTTGAACT
TTGAAAGCTTTGATCTCTTGATGTTTCTTGCTTAGTTCTCTTGATGTTCAGGTGCTGGAAGCTTA
TATTTATAGGCTTGGATGCTGATGTAGCCGTTGGAGGTTGAATGATTGTTACTAGCCATTACAAG
CATGTTTGGTGCTTGTTTTCATGCTTCCCCATAGCCATGGATCGATACAATTCATAATGTATCGA
TACATTGATTTGAAATTATAGCTGTTTATAGCCGTTACAAGCTATGTATCGATACATTTCGGTTG
AACAACCTATTATAGCTGTT
Found at i:183235 original size:13 final size:13
Alignment explanation
Indices: 183217--183247 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
183207 ACATTTCTTC
183217 ATGTATCGATACA
1 ATGTATCGATACA
183230 ATGTATCGATACA
1 ATGTATCGATACA
*
183243 TTGTA
1 ATGTA
183248 CCATGTATCG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.35
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:183235 original size:33 final size:33
Alignment explanation
Indices: 183197--183263 Score: 102
Period size: 33 Copynumber: 2.0 Consensus size: 33
183187 GTTACAAGCT
183197 ATGTATCGATACATT-T-CTTCATGTATCGATACA
1 ATGTATCGATACATTGTAC--CATGTATCGATACA
183230 ATGTATCGATACATTGTACCATGTATCGATACA
1 ATGTATCGATACATTGTACCATGTATCGATACA
183263 A
1 A
183264 ATAGTGATAG
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
33 30 0.94
34 1 0.03
35 1 0.03
ACGTcount: A:0.33, C:0.18, G:0.13, T:0.36
Consensus pattern (33 bp):
ATGTATCGATACATTGTACCATGTATCGATACA
Found at i:183353 original size:13 final size:13
Alignment explanation
Indices: 183335--183359 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
183325 CATTGAAGAT
183335 GTATCGATACAAC
1 GTATCGATACAAC
183348 GTATCGATACAA
1 GTATCGATACAA
183360 AGCAATATGT
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:0.40, C:0.20, G:0.16, T:0.24
Consensus pattern (13 bp):
GTATCGATACAAC
Found at i:183378 original size:33 final size:32
Alignment explanation
Indices: 183316--183378 Score: 81
Period size: 33 Copynumber: 1.9 Consensus size: 32
183306 ATTTGTCTAT
** *
183316 GTATCGATACATTGAAGATGTATCGATACAAC
1 GTATCGATACAAAGAAGATGTATCAATACAAC
*
183348 GTATCGATACAAAGCAATATGTATCAATACA
1 GTATCGATACAAAG-AAGATGTATCAATACA
183379 TCTGGGTGTG
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
32 12 0.46
33 14 0.54
ACGTcount: A:0.41, C:0.16, G:0.16, T:0.27
Consensus pattern (32 bp):
GTATCGATACAAAGAAGATGTATCAATACAAC
Found at i:188752 original size:13 final size:13
Alignment explanation
Indices: 188734--188763 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
188724 CATTTCTTCT
188734 TGTATCGATACAA
1 TGTATCGATACAA
*
188747 TGTATCGATACAT
1 TGTATCGATACAA
188760 TGTA
1 TGTA
188764 CCATGTATCG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.33, C:0.13, G:0.17, T:0.37
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:188771 original size:33 final size:32
Alignment explanation
Indices: 188713--188779 Score: 91
Period size: 33 Copynumber: 2.0 Consensus size: 32
188703 GTTACAAGCT
*
188713 ATGTATCGATACATTTCTTCTTGTATCGATACA
1 ATGTATCGATACATTTC-TCATGTATCGATACA
188746 ATGTATCGATACATTGTAC-CATGTATCGATACA
1 ATGTATCGATACATT-T-CTCATGTATCGATACA
188779 A
1 A
188780 ATAATGGTAG
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
33 29 0.94
34 1 0.03
35 1 0.03
ACGTcount: A:0.31, C:0.18, G:0.13, T:0.37
Consensus pattern (32 bp):
ATGTATCGATACATTTCTCATGTATCGATACA
Done.