Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A05
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: 100714657
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 3970000 characters in sequence are not A, C, G, or T
File 33 of 318
Found at i:12286456 original size:34 final size:34
Alignment explanation
Indices: 12286413--12286480 Score: 136
Period size: 34 Copynumber: 2.0 Consensus size: 34
12286403 CATTTGATAA
12286413 AACTTAAATGGTGAACAGTCAAATTCATCATAGT
1 AACTTAAATGGTGAACAGTCAAATTCATCATAGT
12286447 AACTTAAATGGTGAACAGTCAAATTCATCATAGT
1 AACTTAAATGGTGAACAGTCAAATTCATCATAGT
12286481 CAGCTTCTAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.29
Consensus pattern (34 bp):
AACTTAAATGGTGAACAGTCAAATTCATCATAGT
Found at i:12306251 original size:37 final size:37
Alignment explanation
Indices: 12306210--12306285 Score: 134
Period size: 37 Copynumber: 2.1 Consensus size: 37
12306200 AATGGTTACC
12306210 ATAAGTTGATTCATTAAGCAACAATGTTTGACTTTTA
1 ATAAGTTGATTCATTAAGCAACAATGTTTGACTTTTA
* *
12306247 ATAAGTTGATTCATTAAGCAGCAATGTTTTACTTTTA
1 ATAAGTTGATTCATTAAGCAACAATGTTTGACTTTTA
12306284 AT
1 AT
12306286 CATTCTTCTT
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.34, C:0.11, G:0.13, T:0.42
Consensus pattern (37 bp):
ATAAGTTGATTCATTAAGCAACAATGTTTGACTTTTA
Found at i:12316137 original size:12 final size:12
Alignment explanation
Indices: 12316120--12316173 Score: 56
Period size: 12 Copynumber: 4.4 Consensus size: 12
12316110 ATAGTCAAAT
12316120 AAAAATATATAA
1 AAAAATATATAA
*
12316132 AAAAATGT-TATA
1 AAAAATATATA-A
*
12316144 TAAAATCATATAA
1 AAAAAT-ATATAA
*
12316157 ACAAATATATAA
1 AAAAATATATAA
12316169 AAAAA
1 AAAAA
12316174 CTAAAAAAAA
Statistics
Matches: 33, Mismatches: 6, Indels: 6
0.73 0.13 0.13
Matches are distributed among these distances:
11 2 0.06
12 23 0.70
13 6 0.18
14 2 0.06
ACGTcount: A:0.69, C:0.04, G:0.02, T:0.26
Consensus pattern (12 bp):
AAAAATATATAA
Found at i:12316857 original size:2 final size:2
Alignment explanation
Indices: 12316850--12316908 Score: 118
Period size: 2 Copynumber: 29.5 Consensus size: 2
12316840 CTAATTTCCC
12316850 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
12316892 CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT C
12316909 AAACCACAAA
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 57 1.00
ACGTcount: A:0.00, C:0.51, G:0.00, T:0.49
Consensus pattern (2 bp):
CT
Found at i:12320800 original size:17 final size:16
Alignment explanation
Indices: 12320769--12320803 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 16
12320759 ACTGGATTGA
*
12320769 TTTTAATTTAATTTAT
1 TTTTAATTAAATTTAT
12320785 TTTTATATTAAATTTAT
1 TTTTA-ATTAAATTTAT
12320802 TT
1 TT
12320804 GTTTTTTTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 5 0.29
17 12 0.71
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (16 bp):
TTTTAATTAAATTTAT
Found at i:12320803 original size:21 final size:21
Alignment explanation
Indices: 12320773--12320824 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 21
12320763 GATTGATTTT
12320773 AATTTAATTTATTTTTATATTA
1 AATTT-ATTTATTTTTATATTA
* * *
12320795 AATTTATTTGTTTTTTTATTG
1 AATTTATTTATTTTTATATTA
*
12320816 AATTGATTT
1 AATTTATTT
12320825 TATATATTTG
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
21 21 0.81
22 5 0.19
ACGTcount: A:0.29, C:0.00, G:0.06, T:0.65
Consensus pattern (21 bp):
AATTTATTTATTTTTATATTA
Found at i:12325439 original size:24 final size:24
Alignment explanation
Indices: 12325407--12325466 Score: 66
Period size: 25 Copynumber: 2.4 Consensus size: 24
12325397 TGATGAGAAA
*
12325407 ATTTATTAAATTAAAATAAAATAAT
1 ATTT-TTAAATTAAAACAAAATAAT
*
12325432 ATTTTTAAAAGTAAAACAAAATAAT
1 ATTTTT-AAATTAAAACAAAATAAT
* *
12325457 GTTTTCAAAT
1 ATTTTTAAAT
12325467 CAAGTGGAAA
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
24 5 0.17
25 24 0.83
ACGTcount: A:0.55, C:0.03, G:0.03, T:0.38
Consensus pattern (24 bp):
ATTTTTAAATTAAAACAAAATAAT
Found at i:12327972 original size:26 final size:27
Alignment explanation
Indices: 12327932--12327993 Score: 117
Period size: 26 Copynumber: 2.3 Consensus size: 27
12327922 TAAAATAAAA
12327932 AATAAAAAAGGGGAAAGTTGGTAATGG
1 AATAAAAAAGGGGAAAGTTGGTAATGG
12327959 AATAAAAAA-GGGAAAGTTGGTAATGG
1 AATAAAAAAGGGGAAAGTTGGTAATGG
12327985 AATAAAAAA
1 AATAAAAAA
12327994 AAGGAAATTT
Statistics
Matches: 35, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
26 26 0.74
27 9 0.26
ACGTcount: A:0.55, C:0.00, G:0.27, T:0.18
Consensus pattern (27 bp):
AATAAAAAAGGGGAAAGTTGGTAATGG
Found at i:12327994 original size:27 final size:27
Alignment explanation
Indices: 12327932--12328000 Score: 113
Period size: 26 Copynumber: 2.6 Consensus size: 27
12327922 TAAAATAAAA
*
12327932 AATAAAAAAGGGGAAAGTTGGTAATGG
1 AATAAAAAAAGGGAAAGTTGGTAATGG
12327959 AAT-AAAAAAGGGAAAGTTGGTAATGG
1 AATAAAAAAAGGGAAAGTTGGTAATGG
*
12327985 AATAAAAAAAAGGAAA
1 AATAAAAAAAGGGAAA
12328001 TTTTTTTGGT
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
26 25 0.64
27 14 0.36
ACGTcount: A:0.57, C:0.00, G:0.28, T:0.16
Consensus pattern (27 bp):
AATAAAAAAAGGGAAAGTTGGTAATGG
Found at i:12328881 original size:3 final size:3
Alignment explanation
Indices: 12328873--12328911 Score: 55
Period size: 3 Copynumber: 13.7 Consensus size: 3
12328863 TCGATTTTAC
*
12328873 TAT TAT TAT TAT CAT TAT TAT TAT TAT TAT T-T T-T TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
12328912 GTTTATGCTT
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
2 4 0.12
3 29 0.88
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:12345708 original size:47 final size:47
Alignment explanation
Indices: 12345599--12345709 Score: 136
Period size: 47 Copynumber: 2.4 Consensus size: 47
12345589 CCGGGATAAG
* * *
12345599 CACATAGTGCTTCATCGGAATAAATCCGGAACTTTAACATTATAGTA
1 CACATAGTGCTTCATCGGAACAAATCCGAAACTTTAACAGTATAGTA
* * *
12345646 CACAAAGTACTTCATCGGAACAAATCCGAAACTTTAACAGTAGTCG-A
1 CACATAGTGCTTCATCGGAACAAATCCGAAACTTTAACAGTA-TAGTA
12345693 CACATAGTG-TCTCATCG
1 CACATAGTGCT-TCATCG
12345710 ACTCAATGTC
Statistics
Matches: 54, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
46 1 0.02
47 51 0.94
48 2 0.04
ACGTcount: A:0.36, C:0.23, G:0.15, T:0.26
Consensus pattern (47 bp):
CACATAGTGCTTCATCGGAACAAATCCGAAACTTTAACAGTATAGTA
Found at i:12346471 original size:4 final size:4
Alignment explanation
Indices: 12346453--12346490 Score: 51
Period size: 4 Copynumber: 9.8 Consensus size: 4
12346443 CCTAAATTTC
* *
12346453 TCTT T-TT TATT TCTT TCTT TCTT TCCT TCTT TCTT TCT
1 TCTT TCTT TCTT TCTT TCTT TCTT TCTT TCTT TCTT TCT
12346491 CACGTTTGCT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
3 3 0.10
4 27 0.90
ACGTcount: A:0.03, C:0.24, G:0.00, T:0.74
Consensus pattern (4 bp):
TCTT
Found at i:12346564 original size:42 final size:43
Alignment explanation
Indices: 12346468--12346564 Score: 146
Period size: 42 Copynumber: 2.3 Consensus size: 43
12346458 TTTATTTCTT
* * *
12346468 TCTTTCT-TTCCTTCTTTCTTTCTCACGTTTGCTCTCTGTTAG
1 TCTTTCTATTCTTTCTTTCTTTCTCACGTTTGCTCTCTGTAAC
12346510 TCTTTCTA-TCTTTCTTTCTTTCTCACGTTTGCTCTCTGTAAC
1 TCTTTCTATTCTTTCTTTCTTTCTCACGTTTGCTCTCTGTAAC
12346552 T-TTTCTATTCTTT
1 TCTTTCTATTCTTT
12346565 ACTTATTATT
Statistics
Matches: 50, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
41 6 0.12
42 44 0.88
ACGTcount: A:0.07, C:0.27, G:0.07, T:0.59
Consensus pattern (43 bp):
TCTTTCTATTCTTTCTTTCTTTCTCACGTTTGCTCTCTGTAAC
Found at i:12347429 original size:31 final size:30
Alignment explanation
Indices: 12347376--12347449 Score: 78
Period size: 31 Copynumber: 2.5 Consensus size: 30
12347366 TTTGGACAGG
* *
12347376 ATTAAATCTTTTAATGTGTTTAGGAGGTTTA
1 ATTAAATATTTCAATGTGTTTAGG-GGTTTA
* * * *
12347407 ATTAAATGTTTCAATTTTTTTAGGGTTTTA
1 ATTAAATATTTCAATGTGTTTAGGGGTTTA
12347437 A-TAAATATTTCAA
1 ATTAAATATTTCAA
12347450 AAATCCTAAC
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
29 11 0.30
30 6 0.16
31 20 0.54
ACGTcount: A:0.32, C:0.04, G:0.14, T:0.50
Consensus pattern (30 bp):
ATTAAATATTTCAATGTGTTTAGGGGTTTA
Found at i:12347868 original size:31 final size:30
Alignment explanation
Indices: 12347826--12347887 Score: 88
Period size: 31 Copynumber: 2.0 Consensus size: 30
12347816 AACTTTTCCC
*
12347826 ATTTTCTCAAATGGGTACCTGAACTCTTTA
1 ATTTTCTCAAATAGGTACCTGAACTCTTTA
* *
12347856 ATTTATCTCAAATAGGTAGCTGAACTTTTTA
1 ATTT-TCTCAAATAGGTACCTGAACTCTTTA
12347887 A
1 A
12347888 CTCCATTAAC
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
30 4 0.14
31 24 0.86
ACGTcount: A:0.31, C:0.16, G:0.13, T:0.40
Consensus pattern (30 bp):
ATTTTCTCAAATAGGTACCTGAACTCTTTA
Found at i:12360095 original size:14 final size:15
Alignment explanation
Indices: 12360065--12360098 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
12360055 ATTGTAATGT
*
12360065 ATATTTATTATTAAA
1 ATATTTATTAATAAA
12360080 ATATTT-TTAATAAA
1 ATATTTATTAATAAA
12360094 ATATT
1 ATATT
12360099 AAGAAAATGC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 12 0.67
15 6 0.33
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (15 bp):
ATATTTATTAATAAA
Found at i:12362976 original size:46 final size:46
Alignment explanation
Indices: 12362911--12363180 Score: 310
Period size: 46 Copynumber: 5.9 Consensus size: 46
12362901 TTATCTTCGA
* * * *
12362911 CATGATGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTCTGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTTCTGT
* * ** * *
12362957 CATGTTGCCATGGTATCTTTCGACCATGATCTTTTTCATTTCCCGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTTCTGT
* * *
12363003 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCA-TTCCCGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTTCTGT
* *
12363048 CATGTTGCCACGGTATCTTTCAACCATGGTCTTATTC-TTTTCATGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTTC-TGT
** * * * *
12363094 CACATTGCCATGGTATCTTTCAACTATGGTCTTACACATTTTATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTTCTGT
* *
12363140 CATGTTGTCATGGTATCTTTCAACCATGGTCTTACACATTT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTT
12363181 CATTTCAGAA
Statistics
Matches: 193, Mismatches: 28, Indels: 6
0.85 0.12 0.03
Matches are distributed among these distances:
45 46 0.24
46 143 0.74
47 4 0.02
ACGTcount: A:0.20, C:0.24, G:0.14, T:0.42
Consensus pattern (46 bp):
CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTTCTGT
Found at i:12363102 original size:91 final size:92
Alignment explanation
Indices: 12362916--12363182 Score: 338
Period size: 91 Copynumber: 2.9 Consensus size: 92
12362906 TTCGACATGA
* * *
12362916 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTCTGTCATGTTGCCATGGTATCTTTCGAC
1 TGCCATGGTATCTTTCAACTATGGTCTTACTCATTTTCTGTCATGTTGCCATGGTATCTTTCAAC
* * * **
12362981 CATGATCTTTTTCATTTCCCGTCATGT
66 CATGGTCTTATTCATTTCACGTCACAT
* * * * *
12363008 TGCCATGGTATCTTTCAACCATGGTCTTATTCA-TTCCCGTCATGTTGCCACGGTATCTTTCAAC
1 TGCCATGGTATCTTTCAACTATGGTCTTACTCATTTTCTGTCATGTTGCCATGGTATCTTTCAAC
* *
12363072 CATGGTCTTATTCTTTTCATGTCACAT
66 CATGGTCTTATTCATTTCACGTCACAT
* * * *
12363099 TGCCATGGTATCTTTCAACTATGGTCTTACACATTTTATATCATGTTGTCATGGTATCTTTCAAC
1 TGCCATGGTATCTTTCAACTATGGTCTTACTCATTTTCTGTCATGTTGCCATGGTATCTTTCAAC
**
12363164 CATGGTCTTACACATTTCA
66 CATGGTCTTATTCATTTCA
12363183 TTTCAGAAAG
Statistics
Matches: 147, Mismatches: 27, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
91 77 0.52
92 70 0.48
ACGTcount: A:0.19, C:0.24, G:0.14, T:0.42
Consensus pattern (92 bp):
TGCCATGGTATCTTTCAACTATGGTCTTACTCATTTTCTGTCATGTTGCCATGGTATCTTTCAAC
CATGGTCTTATTCATTTCACGTCACAT
Found at i:12363143 original size:137 final size:137
Alignment explanation
Indices: 12362926--12363173 Score: 345
Period size: 137 Copynumber: 1.8 Consensus size: 137
12362916 TGCCATAGTG
* ** * *
12362926 TCTTTCAACTATGGTCTTACTCATTTTCTGTCATGTTGCCATGGTATCTTTCGACCATGATCTTT
1 TCTTTCAACCATGGTCTTACTCATTTTCTGTCACATTGCCATGGTATCTTTCAACCATGATCTTA
** * *
12362991 TTCATTTCCCGTCATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTCCCGTCATGTTGC
66 CACATTTCACATCATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTCCCGTCATGTTGC
12363056 CACGGTA
131 CACGGTA
* * *
12363063 TCTTTCAACCATGGTCTTATTC-TTTTCATGTCACATTGCCATGGTATCTTTCAACTATGGTCTT
1 TCTTTCAACCATGGTCTTACTCATTTTC-TGTCACATTGCCATGGTATCTTTCAACCATGATCTT
* * *
12363127 ACACATTTTATATCATGTTGTCATGGTATCTTTCAACCATGGTCTTA
65 ACACATTTCACATCATGTTGCCATGGTATCTTTCAACCATGGTCTTA
12363174 CACATTTCAT
Statistics
Matches: 95, Mismatches: 15, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
136 5 0.05
137 90 0.95
ACGTcount: A:0.19, C:0.24, G:0.14, T:0.43
Consensus pattern (137 bp):
TCTTTCAACCATGGTCTTACTCATTTTCTGTCACATTGCCATGGTATCTTTCAACCATGATCTTA
CACATTTCACATCATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTCCCGTCATGTTGC
CACGGTA
Found at i:12365182 original size:11 final size:11
Alignment explanation
Indices: 12365166--12365213 Score: 51
Period size: 11 Copynumber: 4.2 Consensus size: 11
12365156 CTTTATATAC
12365166 TAATAAAATAA
1 TAATAAAATAA
*
12365177 TAATAAAATATCT
1 TAATAAAATA--A
* *
12365190 TATTAAAATAT
1 TAATAAAATAA
12365201 TAATAAAATAA
1 TAATAAAATAA
12365212 TA
1 TA
12365214 TTTATCTAAT
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
11 22 0.71
13 9 0.29
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.35
Consensus pattern (11 bp):
TAATAAAATAA
Found at i:12366113 original size:18 final size:18
Alignment explanation
Indices: 12366090--12366131 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 18
12366080 TATTACAAAA
*
12366090 AAAATT-AAAATAATTTTT
1 AAAATTAAAAAT-ATTTAT
12366108 AAAATTAAAAATATTTAT
1 AAAATTAAAAATATTTAT
12366126 AAAATT
1 AAAATT
12366132 TTAAAAAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 17 0.77
19 5 0.23
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (18 bp):
AAAATTAAAAATATTTAT
Found at i:12366137 original size:19 final size:19
Alignment explanation
Indices: 12366089--12366137 Score: 55
Period size: 19 Copynumber: 2.6 Consensus size: 19
12366079 ATATTACAAA
* *
12366089 AAAAATTAAAATAATTTTT
1 AAAATTTAAAATAATTTAT
*
12366108 AAAATTAAAAAT-ATTTAT
1 AAAATTTAAAATAATTTAT
12366126 AAAATTTTAAAA
1 AAAA-TTTAAAA
12366138 AAAATCTAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
18 9 0.36
19 16 0.64
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (19 bp):
AAAATTTAAAATAATTTAT
Found at i:12367469 original size:26 final size:27
Alignment explanation
Indices: 12367439--12367493 Score: 85
Period size: 27 Copynumber: 2.1 Consensus size: 27
12367429 CATTATAAAG
*
12367439 ATGTAATTATA-ATGTACTAATAAAAC
1 ATGTAATTAAATATGTACTAATAAAAC
*
12367465 ATGTAATTAAATATGTATTAATAAAAC
1 ATGTAATTAAATATGTACTAATAAAAC
12367492 AT
1 AT
12367494 AAAATAAAAC
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
26 10 0.38
27 16 0.62
ACGTcount: A:0.51, C:0.05, G:0.07, T:0.36
Consensus pattern (27 bp):
ATGTAATTAAATATGTACTAATAAAAC
Found at i:12369065 original size:78 final size:78
Alignment explanation
Indices: 12368948--12369162 Score: 317
Period size: 78 Copynumber: 2.8 Consensus size: 78
12368938 TAATTGTAGT
* * *
12368948 GAATCAGGATTACCTTTTCAAGTCAAATCCTACCCACCTTAAGTTATCATAAGGAATCATATATC
1 GAATCAGGATTACCTTTTCAGGTCAAATCCTATCCACCTTAAGTTACCATAAGGAATCATATATC
*
12369013 GTGT-AATCTAGC
66 ATGTAAATCTAGC
* *
12369025 GAATCAGGATTACCCTTTTCAGGTCAAATCCTATCCACCTTAGGTTACCATAATGAATCATATAT
1 GAATCAGGATTA-CCTTTTCAGGTCAAATCCTATCCACCTTAAGTTACCATAAGGAATCATATAT
* *
12369090 CATTTAAATGTAGC
65 CATGTAAATCTAGC
*
12369104 GAATCAGGATTACCTTTTCAGGTCAAATCCTATCCGCCTTAAGTTACCAT-AGTGAATCA
1 GAATCAGGATTACCTTTTCAGGTCAAATCCTATCCACCTTAAGTTACCATAAG-GAATCA
12369163 GGAATAAATC
Statistics
Matches: 124, Mismatches: 11, Indels: 5
0.89 0.08 0.04
Matches are distributed among these distances:
77 13 0.10
78 92 0.74
79 19 0.15
ACGTcount: A:0.33, C:0.22, G:0.13, T:0.32
Consensus pattern (78 bp):
GAATCAGGATTACCTTTTCAGGTCAAATCCTATCCACCTTAAGTTACCATAAGGAATCATATATC
ATGTAAATCTAGC
Found at i:12369184 original size:39 final size:39
Alignment explanation
Indices: 12369127--12369261 Score: 171
Period size: 40 Copynumber: 3.4 Consensus size: 39
12369117 CTTTTCAGGT
*
12369127 CAAATCCTATCCGCCTTAAGTTACCATAGTGAATCAGGAA
1 CAAATCCTATCC-ACTTAAGTTACCATAGTGAATCAGGAA
* * *
12369167 TAAATCCTATTCACTTAAATTACCATAGTGAATCAGGAA
1 CAAATCCTATCCACTTAAGTTACCATAGTGAATCAGGAA
* * **
12369206 CAAATCCTATCCACTTTGAGGTATTATAGTGAATCAGGAA
1 CAAATCCTATCCAC-TTAAGTTACCATAGTGAATCAGGAA
*
12369246 CGAATCCTATCCACTT
1 CAAATCCTATCCACTT
12369262 TATATTCTCA
Statistics
Matches: 82, Mismatches: 12, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
39 39 0.48
40 43 0.52
ACGTcount: A:0.36, C:0.22, G:0.13, T:0.29
Consensus pattern (39 bp):
CAAATCCTATCCACTTAAGTTACCATAGTGAATCAGGAA
Found at i:12374173 original size:46 final size:46
Alignment explanation
Indices: 12374123--12374295 Score: 199
Period size: 46 Copynumber: 3.7 Consensus size: 46
12374113 TGGTTGAGCA
*
12374123 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * * *
12374169 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A--CG
* *
12374216 TCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * *
12374262 CCCGAGCTTGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
12374296 GGGGCGGGTT
Statistics
Matches: 106, Mismatches: 14, Indels: 14
0.79 0.10 0.10
Matches are distributed among these distances:
43 6 0.06
45 3 0.03
46 60 0.57
47 29 0.27
48 3 0.03
50 5 0.05
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:12374279 original size:93 final size:93
Alignment explanation
Indices: 12374120--12374290 Score: 288
Period size: 93 Copynumber: 1.8 Consensus size: 93
12374110 GGATGGTTGA
* *
12374120 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
12374185 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * * *
12374213 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACGCCCGAGCTTGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
12374278 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
12374291 ACTTAGGGGC
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:12376870 original size:48 final size:48
Alignment explanation
Indices: 12376799--12376891 Score: 186
Period size: 48 Copynumber: 1.9 Consensus size: 48
12376789 GAATTAAATG
12376799 AACAAATATTTTAATTTTTCAACAAATTAATAGCATCCATTTAACTTT
1 AACAAATATTTTAATTTTTCAACAAATTAATAGCATCCATTTAACTTT
12376847 AACAAATATTTTAATTTTTCAACAAATTAATAGCATCCATTTAAC
1 AACAAATATTTTAATTTTTCAACAAATTAATAGCATCCATTTAAC
12376892 ACTGTATGCT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 45 1.00
ACGTcount: A:0.43, C:0.15, G:0.02, T:0.40
Consensus pattern (48 bp):
AACAAATATTTTAATTTTTCAACAAATTAATAGCATCCATTTAACTTT
Found at i:12381445 original size:6 final size:6
Alignment explanation
Indices: 12381434--12381459 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
12381424 GTGCCTGTCT
12381434 TGCACA TGCACA TGCACA TGCACA TG
1 TGCACA TGCACA TGCACA TGCACA TG
12381460 GTTAATGTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.31, C:0.31, G:0.19, T:0.19
Consensus pattern (6 bp):
TGCACA
Found at i:12382946 original size:20 final size:20
Alignment explanation
Indices: 12382921--12382959 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
12382911 TTTGTTACAT
12382921 ATATTAATAAATTTATATAC
1 ATATTAATAAATTTATATAC
*
12382941 ATATTAATAAATTTTTATA
1 ATATTAATAAATTTATATA
12382960 TTTTAAATTG
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:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (20 bp):
ATATTAATAAATTTATATAC
Found at i:12387122 original size:31 final size:31
Alignment explanation
Indices: 12387084--12387152 Score: 86
Period size: 31 Copynumber: 2.2 Consensus size: 31
12387074 ATTTAAATTA
*
12387084 AAAAAAT-ATTAAAATTATAAATCAATAATAT
1 AAAAAATAATTAAAA-TATAAATAAATAATAT
* * *
12387115 AAAAAATAATTAAAATATCATTAAATAATTT
1 AAAAAATAATTAAAATATAAATAAATAATAT
12387146 AAAAAAT
1 AAAAAAT
12387153 TGAGACATAA
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
31 26 0.79
32 7 0.21
ACGTcount: A:0.65, C:0.03, G:0.00, T:0.32
Consensus pattern (31 bp):
AAAAAATAATTAAAATATAAATAAATAATAT
Found at i:12389411 original size:17 final size:17
Alignment explanation
Indices: 12389389--12389422 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
12389379 TATAATGTAA
12389389 TATATAAACTTATATTT
1 TATATAAACTTATATTT
**
12389406 TATATAATTTTATATTT
1 TATATAAACTTATATTT
12389423 AAAATTTTGA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (17 bp):
TATATAAACTTATATTT
Found at i:12391255 original size:12 final size:12
Alignment explanation
Indices: 12391238--12391271 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
12391228 CTAGACCAAC
12391238 AATAATTAAATA
1 AATAATTAAATA
*
12391250 AATAATTAAAAA
1 AATAATTAAATA
12391262 AAT-ATTAAAT
1 AATAATTAAAT
12391272 TGGTTGAACC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
11 6 0.30
12 14 0.70
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (12 bp):
AATAATTAAATA
Found at i:12393177 original size:19 final size:20
Alignment explanation
Indices: 12393150--12393194 Score: 65
Period size: 19 Copynumber: 2.2 Consensus size: 20
12393140 AAAAGAGAAT
*
12393150 AGAATGAAAGAAAAG-AGGG
1 AGAAAGAAAGAAAAGAAGGG
12393169 AGAAAGAAAGAAAAGAAAGGG
1 AGAAAGAAAGAAAAG-AAGGG
12393190 AGAAA
1 AGAAA
12393195 AGGGAAAATT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 14 0.61
21 9 0.39
ACGTcount: A:0.64, C:0.00, G:0.33, T:0.02
Consensus pattern (20 bp):
AGAAAGAAAGAAAAGAAGGG
Found at i:12393609 original size:16 final size:15
Alignment explanation
Indices: 12393580--12393664 Score: 80
Period size: 19 Copynumber: 5.0 Consensus size: 15
12393570 TAATATAAAA
12393580 TGAATTGAAATATAT
1 TGAATTGAAATATAT
12393595 TGAATTGAGAATATAT
1 TGAATTGA-AATATAT
12393611 CTGATTAATTGAAATATAT
1 -TG---AATTGAAATATAT
12393630 TGAATTGAGAATATAT
1 TGAATTGA-AATATAT
12393646 CTGATTAGTTGAAATATAT
1 -TGA--A-TTGAAATATAT
12393665 ACTGATTGAA
Statistics
Matches: 60, Mismatches: 0, Indels: 16
0.79 0.00 0.21
Matches are distributed among these distances:
15 14 0.23
16 14 0.23
17 5 0.08
18 2 0.03
19 15 0.25
20 10 0.17
ACGTcount: A:0.42, C:0.02, G:0.15, T:0.40
Consensus pattern (15 bp):
TGAATTGAAATATAT
Found at i:12393622 original size:20 final size:19
Alignment explanation
Indices: 12393582--12393671 Score: 88
Period size: 20 Copynumber: 5.0 Consensus size: 19
12393572 ATATAAAATG
12393582 AATTGAAATATAT-TG---
1 AATTGAAATATATCTGATT
12393597 AATTGAGAATATATCTGATT
1 AATTGA-AATATATCTGATT
12393617 AATTGAAATATAT-TG---
1 AATTGAAATATATCTGATT
12393632 AATTGAGAATATATCTGATT
1 AATTGA-AATATATCTGATT
*
12393652 AGTTGAAATATATACTGATT
1 AATTGAAATATAT-CTGATT
12393672 GAAAACTAAA
Statistics
Matches: 63, Mismatches: 1, Indels: 17
0.78 0.01 0.21
Matches are distributed among these distances:
15 12 0.19
16 14 0.22
17 4 0.06
18 2 0.03
19 14 0.22
20 17 0.27
ACGTcount: A:0.42, C:0.03, G:0.14, T:0.40
Consensus pattern (19 bp):
AATTGAAATATATCTGATT
Found at i:12393623 original size:35 final size:35
Alignment explanation
Indices: 12393582--12393664 Score: 157
Period size: 35 Copynumber: 2.4 Consensus size: 35
12393572 ATATAAAATG
12393582 AATTGAAATATATTGAATTGAGAATATATCTGATT
1 AATTGAAATATATTGAATTGAGAATATATCTGATT
12393617 AATTGAAATATATTGAATTGAGAATATATCTGATT
1 AATTGAAATATATTGAATTGAGAATATATCTGATT
*
12393652 AGTTGAAATATAT
1 AATTGAAATATAT
12393665 ACTGATTGAA
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
35 47 1.00
ACGTcount: A:0.43, C:0.02, G:0.14, T:0.40
Consensus pattern (35 bp):
AATTGAAATATATTGAATTGAGAATATATCTGATT
Found at i:12394039 original size:18 final size:18
Alignment explanation
Indices: 12394006--12394101 Score: 77
Period size: 18 Copynumber: 5.4 Consensus size: 18
12393996 TAAATAAAGG
*
12394006 TACTGAATAATTGACTAC
1 TACTGAATAAATGACTAC
* * **
12394024 CACTGAATAAACGACTGT
1 TACTGAATAAATGACTAC
*
12394042 TACTGAATAAATGATTAC
1 TACTGAATAAATGACTAC
* * *
12394060 TACTGAATAACTGATTAA
1 TACTGAATAAATGACTAC
* * *
12394078 TACTG-ATGACTGACTAA
1 TACTGAATAAATGACTAC
12394095 TACTGAA
1 TACTGAA
12394102 CAATAAAGAT
Statistics
Matches: 63, Mismatches: 14, Indels: 2
0.80 0.18 0.03
Matches are distributed among these distances:
17 15 0.24
18 48 0.76
ACGTcount: A:0.41, C:0.16, G:0.14, T:0.30
Consensus pattern (18 bp):
TACTGAATAAATGACTAC
Found at i:12394082 original size:36 final size:36
Alignment explanation
Indices: 12394006--12394083 Score: 86
Period size: 36 Copynumber: 2.2 Consensus size: 36
12393996 TAAATAAAGG
* **
12394006 TACTGAATAATTGACTACCACTGAATAAACGACTGT
1 TACTGAATAAATGACTACCACTGAATAAACGACTAA
* * *
12394042 TACTGAATAAATGATTACTACTGAAT-AACTGATTAA
1 TACTGAATAAATGACTACCACTGAATAAAC-GACTAA
12394078 TACTGA
1 TACTGA
12394084 TGACTGACTA
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
35 3 0.09
36 32 0.91
ACGTcount: A:0.41, C:0.15, G:0.13, T:0.31
Consensus pattern (36 bp):
TACTGAATAAATGACTACCACTGAATAAACGACTAA
Found at i:12401319 original size:27 final size:27
Alignment explanation
Indices: 12401287--12401352 Score: 123
Period size: 27 Copynumber: 2.4 Consensus size: 27
12401277 TAGTTGAACT
12401287 ATGGCAAAGTGATAAAGTGTGCCAAAC
1 ATGGCAAAGTGATAAAGTGTGCCAAAC
*
12401314 ATGGCAAAGTGATAAAGTGTGCCAAAT
1 ATGGCAAAGTGATAAAGTGTGCCAAAC
12401341 ATGGCAAAGTGA
1 ATGGCAAAGTGA
12401353 AATGTGACAA
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 38 1.00
ACGTcount: A:0.41, C:0.12, G:0.27, T:0.20
Consensus pattern (27 bp):
ATGGCAAAGTGATAAAGTGTGCCAAAC
Found at i:12401781 original size:16 final size:16
Alignment explanation
Indices: 12401752--12401785 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
12401742 CACACCTGCA
12401752 AACAGACAAGGAAAAC
1 AACAGACAAGGAAAAC
12401768 AACAG-CAAGTGAAAAC
1 AACAGACAAG-GAAAAC
12401784 AA
1 AA
12401786 TAGAAAAACA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 4 0.24
16 13 0.76
ACGTcount: A:0.62, C:0.18, G:0.18, T:0.03
Consensus pattern (16 bp):
AACAGACAAGGAAAAC
Found at i:12403315 original size:15 final size:15
Alignment explanation
Indices: 12403295--12403402 Score: 78
Period size: 15 Copynumber: 7.2 Consensus size: 15
12403285 TTTATTGAAA
12403295 ATCAAAGATATGGGT
1 ATCAAAGATATGGGT
* * **
12403310 ATCAAATA-ATAGAA
1 ATCAAAGATATGGGT
12403324 AGTCAAAGATATGGGT
1 A-TCAAAGATATGGGT
* **
12403340 ATCAAATAT-TGGAA
1 ATCAAAGATATGGGT
12403354 AGTCAAAGATATGGGT
1 A-TCAAAGATATGGGT
* **
12403370 ATCAAATAT-TGGAA
1 ATCAAAGATATGGGT
12403384 AGTCAAAGATATGGGT
1 A-TCAAAGATATGGGT
12403400 ATC
1 ATC
12403403 GAGATATTGG
Statistics
Matches: 67, Mismatches: 20, Indels: 12
0.68 0.20 0.12
Matches are distributed among these distances:
14 12 0.18
15 43 0.64
16 12 0.18
ACGTcount: A:0.44, C:0.07, G:0.22, T:0.26
Consensus pattern (15 bp):
ATCAAAGATATGGGT
Found at i:12403332 original size:30 final size:30
Alignment explanation
Indices: 12403287--12403412 Score: 200
Period size: 30 Copynumber: 4.2 Consensus size: 30
12403277 TATCCATATT
*
12403287 TATT-GAAAATCAAAGATATGGGTATCAAA
1 TATTGGAAAGTCAAAGATATGGGTATCAAA
* *
12403316 TAATAGAAAGTCAAAGATATGGGTATCAAA
1 TATTGGAAAGTCAAAGATATGGGTATCAAA
12403346 TATTGGAAAGTCAAAGATATGGGTATCAAA
1 TATTGGAAAGTCAAAGATATGGGTATCAAA
*
12403376 TATTGGAAAGTCAAAGATATGGGTATCGAGA
1 TATTGGAAAGTCAAAGATATGGGTATC-AAA
12403407 TATTGG
1 TATTGG
12403413 CATAATAAAA
Statistics
Matches: 90, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
29 3 0.03
30 79 0.88
31 8 0.09
ACGTcount: A:0.44, C:0.06, G:0.23, T:0.27
Consensus pattern (30 bp):
TATTGGAAAGTCAAAGATATGGGTATCAAA
Found at i:12408007 original size:15 final size:15
Alignment explanation
Indices: 12407987--12408037 Score: 50
Period size: 15 Copynumber: 3.4 Consensus size: 15
12407977 TTTATTGAAA
12407987 ATCAAAGATATAGGT
1 ATCAAAGATATAGGT
* **
12408002 ATCAAATA-ATAGAA
1 ATCAAAGATATAGGT
*
12408016 AGTCAAAGATATGGGT
1 A-TCAAAGATATAGGT
12408032 ATCAAA
1 ATCAAA
12408038 TATTGGAAAG
Statistics
Matches: 27, Mismatches: 7, Indels: 4
0.71 0.18 0.11
Matches are distributed among these distances:
14 5 0.19
15 18 0.67
16 4 0.15
ACGTcount: A:0.51, C:0.08, G:0.18, T:0.24
Consensus pattern (15 bp):
ATCAAAGATATAGGT
Found at i:12408024 original size:30 final size:30
Alignment explanation
Indices: 12407983--12408064 Score: 128
Period size: 30 Copynumber: 2.7 Consensus size: 30
12407973 TATATTTATT
* *
12407983 GAAAATCAAAGATATAGGTATCAAATAATA
1 GAAAGTCAAAGATATGGGTATCAAATAATA
* *
12408013 GAAAGTCAAAGATATGGGTATCAAATATTG
1 GAAAGTCAAAGATATGGGTATCAAATAATA
12408043 GAAAGTCAAAGATATGGGTATC
1 GAAAGTCAAAGATATGGGTATC
12408065 GAGATATTGG
Statistics
Matches: 48, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
30 48 1.00
ACGTcount: A:0.48, C:0.07, G:0.21, T:0.24
Consensus pattern (30 bp):
GAAAGTCAAAGATATGGGTATCAAATAATA
Found at i:12408768 original size:22 final size:22
Alignment explanation
Indices: 12408721--12408771 Score: 59
Period size: 22 Copynumber: 2.3 Consensus size: 22
12408711 TATTTAGCGC
* *
12408721 ATTATATCTTGTCATATATCTTT
1 ATTAT-TCTTGTCATATATATAT
12408744 ATTATTCTT-TCATATTATATAT
1 ATTATTCTTGTCATA-TATATAT
12408766 ATTATT
1 ATTATT
12408772 TAAATTATTA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
21 5 0.20
22 15 0.60
23 5 0.20
ACGTcount: A:0.29, C:0.10, G:0.02, T:0.59
Consensus pattern (22 bp):
ATTATTCTTGTCATATATATAT
Found at i:12409583 original size:131 final size:132
Alignment explanation
Indices: 12409333--12409580 Score: 367
Period size: 131 Copynumber: 1.9 Consensus size: 132
12409323 TCATTCATTC
** * *
12409333 AAAAGTTCTTCAAAACGAAGACGAGATTCGATGTTTGGCAATTTGCGGAATCGTGCCCTAACGTG
1 AAAAGTTCTTCAAAACGAAGACGAGATTCGATACTTAGCAATTCGCGGAATCGTGCCCTAACGTG
*
12409398 TTGGGTTGCAATTTCGCGTTTGCTCAAAATAATCGAATATCACTTCGAAATTTCACTCGCGTCTT
66 TTGGGTTGCAATTTCGCGTTTGCTCAAAATAATCGAACATCACTTCGAAATTTCACTCGCGTCTT
12409463 TT
131 TT
*
12409465 AAAA-TTCTTCAAAACGAATACGAGATTCGATACTTAGCAATTCGCGGAATCGTGCCCTAACGTG
1 AAAAGTTCTTCAAAACGAAGACGAGATTCGATACTTAGCAATTCGCGGAATCGTGCCCTAACGTG
* * * * *
12409529 TTGGGTTGCAATTTTGTGTTTG-TCCAAAGTAATCGAGCATCCCTTC-AAATTT
66 TTGGGTTGCAATTTCGCGTTTGCT-CAAAATAATCGAACATCACTTCGAAATTT
12409581 TCATTCATAT
Statistics
Matches: 104, Mismatches: 11, Indels: 4
0.87 0.09 0.03
Matches are distributed among these distances:
130 7 0.07
131 93 0.89
132 4 0.04
ACGTcount: A:0.28, C:0.20, G:0.20, T:0.32
Consensus pattern (132 bp):
AAAAGTTCTTCAAAACGAAGACGAGATTCGATACTTAGCAATTCGCGGAATCGTGCCCTAACGTG
TTGGGTTGCAATTTCGCGTTTGCTCAAAATAATCGAACATCACTTCGAAATTTCACTCGCGTCTT
TT
Found at i:12409599 original size:131 final size:132
Alignment explanation
Indices: 12409333--12409614 Score: 354
Period size: 131 Copynumber: 2.1 Consensus size: 132
12409323 TCATTCATTC
* ** * *
12409333 AAAAGTTCTTCAAAACGAAGACGAGATTCGATGTTTGGCAATTTGCGGAATCGTGCCCTAACGTG
1 AAAAATTCTTCAAAACGAAGACGAGATTCGATACTTAGCAATTCGCGGAATCGTGCCCTAACGTG
* * *
12409398 TTGGGTTGCAATTTCGCGTTTGCTCAAAATAATCGAATATCACTTCGAAATTTCACTCGCGTCTT
66 TTGGGTTGCAATTTCGCGTTTGCTCAAAATAATCGAACATCACTTCGAAATTTCACTCACATCTT
12409463 -T
131 CT
* *
12409464 TAAAATTCTTCAAAACGAATACGAGATTCGATACTTAGCAATTCGCGGAATCGTGCCCTAACGTG
1 AAAAATTCTTCAAAACGAAGACGAGATTCGATACTTAGCAATTCGCGGAATCGTGCCCTAACGTG
* * * * * * *
12409529 TTGGGTTGCAATTTTGTGTTTG-TCCAAAGTAATCGAGCATCCCTTC-AAATTTTCATTCATATC
66 TTGGGTTGCAATTTCGCGTTTGCT-CAAAATAATCGAACATCACTTCGAAA-TTTCACTCACATC
12409592 TTCT
129 TTCT
* *
12409596 AAAAATTATTTAAAACGAA
1 AAAAATTCTTCAAAACGAA
12409615 AGCTATATTC
Statistics
Matches: 128, Mismatches: 20, Indels: 5
0.84 0.13 0.03
Matches are distributed among these distances:
130 4 0.03
131 107 0.84
132 17 0.13
ACGTcount: A:0.30, C:0.19, G:0.18, T:0.33
Consensus pattern (132 bp):
AAAAATTCTTCAAAACGAAGACGAGATTCGATACTTAGCAATTCGCGGAATCGTGCCCTAACGTG
TTGGGTTGCAATTTCGCGTTTGCTCAAAATAATCGAACATCACTTCGAAATTTCACTCACATCTT
CT
Found at i:12412362 original size:18 final size:17
Alignment explanation
Indices: 12412339--12412372 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
12412329 TCTTAAAAAT
*
12412339 TATAAAGATATAAATTAA
1 TATAAAAATA-AAATTAA
12412357 TATAAAAATAAAATTA
1 TATAAAAATAAAATTA
12412373 CATTGTATAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.32
Consensus pattern (17 bp):
TATAAAAATAAAATTAA
Found at i:12419961 original size:17 final size:17
Alignment explanation
Indices: 12419930--12419963 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
12419920 AAAATCTCAA
*
12419930 CTTTTAAACCCTAAATC
1 CTTTTAAACCATAAATC
*
12419947 CTTTTAAATCATAAATC
1 CTTTTAAACCATAAATC
12419964 TTAATCTAAC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.38, C:0.24, G:0.00, T:0.38
Consensus pattern (17 bp):
CTTTTAAACCATAAATC
Found at i:12420486 original size:3 final size:3
Alignment explanation
Indices: 12420478--12420504 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
12420468 AATAGTGGTT
12420478 TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA
12420505 AAGTTAATTG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:12421641 original size:9 final size:9
Alignment explanation
Indices: 12421622--12421675 Score: 51
Period size: 9 Copynumber: 6.2 Consensus size: 9
12421612 TTATTTTTTT
12421622 AAATTTT-A
1 AAATTTTAA
12421630 AAATTTTAA
1 AAATTTTAA
12421639 AAA--TTAA
1 AAATTTTAA
*
12421646 AAATTATTTA
1 AAATT-TTAA
*
12421656 AAATATTAA
1 AAATTTTAA
*
12421665 AAATTATAA
1 AAATTTTAA
12421674 AA
1 AA
12421676 TATATTTTTA
Statistics
Matches: 37, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
7 7 0.19
8 7 0.19
9 16 0.43
10 7 0.19
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (9 bp):
AAATTTTAA
Found at i:12421659 original size:26 final size:28
Alignment explanation
Indices: 12421626--12421682 Score: 91
Period size: 26 Copynumber: 2.1 Consensus size: 28
12421616 TTTTTTAAAT
*
12421626 TTTAAAATTTTAAAAATTA-AAAAT-TA
1 TTTAAAATATTAAAAATTATAAAATATA
12421652 TTTAAAATATTAAAAATTATAAAATATA
1 TTTAAAATATTAAAAATTATAAAATATA
12421680 TTT
1 TTT
12421683 TTATACTTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
26 18 0.64
27 5 0.18
28 5 0.18
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (28 bp):
TTTAAAATATTAAAAATTATAAAATATA
Found at i:12421663 original size:19 final size:18
Alignment explanation
Indices: 12421634--12421671 Score: 67
Period size: 19 Copynumber: 2.1 Consensus size: 18
12421624 ATTTTAAAAT
12421634 TTTAAAAATTAAAAATTA
1 TTTAAAAATTAAAAATTA
12421652 TTTAAAATATTAAAAATTA
1 TTTAAAA-ATTAAAAATTA
12421671 T
1 T
12421672 AAAATATATT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 7 0.37
19 12 0.63
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (18 bp):
TTTAAAAATTAAAAATTA
Found at i:12421680 original size:19 final size:19
Alignment explanation
Indices: 12421629--12421681 Score: 60
Period size: 19 Copynumber: 2.9 Consensus size: 19
12421619 TTTAAATTTT
12421629 AAAATT-TT-AAAA-ATTA
1 AAAATTATTAAAAATATTA
*
12421645 AAAATTATTTAAAATATTA
1 AAAATTATTAAAAATATTA
12421664 AAAATTA-TAAAATATATT
1 AAAATTATTAAAA-ATATT
12421682 TTTATACTTT
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
16 6 0.19
17 2 0.06
18 8 0.25
19 16 0.50
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (19 bp):
AAAATTATTAAAAATATTA
Found at i:12422909 original size:31 final size:31
Alignment explanation
Indices: 12422869--12422943 Score: 82
Period size: 30 Copynumber: 2.5 Consensus size: 31
12422859 TAAAATTCTG
* * * *
12422869 AAAATTTTTATTATACCTTTTTAACTTTT-TT
1 AAAAATTTTATTA-ACCTCTCTAAATTTTATT
*
12422900 AAAAATTTTA-TAAGCTCTCTAAATTTTATT
1 AAAAATTTTATTAACCTCTCTAAATTTTATT
12422930 AAAAATTTTATTAA
1 AAAAATTTTATTAA
12422944 ACAACTTCAA
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
29 11 0.30
30 14 0.38
31 12 0.32
ACGTcount: A:0.39, C:0.08, G:0.01, T:0.52
Consensus pattern (31 bp):
AAAAATTTTATTAACCTCTCTAAATTTTATT
Found at i:12422937 original size:12 final size:12
Alignment explanation
Indices: 12422920--12422944 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
12422910 TAAGCTCTCT
12422920 AAATTTTATTAA
1 AAATTTTATTAA
12422932 AAATTTTATTAA
1 AAATTTTATTAA
12422944 A
1 A
12422945 CAACTTCAAA
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (12 bp):
AAATTTTATTAA
Found at i:12424201 original size:32 final size:32
Alignment explanation
Indices: 12424163--12424229 Score: 134
Period size: 32 Copynumber: 2.1 Consensus size: 32
12424153 CAAAAGAGAA
12424163 AGGAAAGAAATAAAAAAGTGTTATCTTTGAGG
1 AGGAAAGAAATAAAAAAGTGTTATCTTTGAGG
12424195 AGGAAAGAAATAAAAAAGTGTTATCTTTGAGG
1 AGGAAAGAAATAAAAAAGTGTTATCTTTGAGG
12424227 AGG
1 AGG
12424230 TCAGCAACAG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 35 1.00
ACGTcount: A:0.46, C:0.03, G:0.27, T:0.24
Consensus pattern (32 bp):
AGGAAAGAAATAAAAAAGTGTTATCTTTGAGG
Found at i:12431266 original size:12 final size:13
Alignment explanation
Indices: 12431243--12431309 Score: 55
Period size: 13 Copynumber: 5.1 Consensus size: 13
12431233 AGTTTGGCAA
12431243 TACTTTTGAAAAG
1 TACTTTTGAAAAG
*
12431256 TACTTTTAAAAAG
1 TACTTTTGAAAAG
* *
12431269 TGC-TGTGAAAAAG
1 TACTTTTG-AAAAG
* *
12431282 TATTTTTGAGGAAG
1 TACTTTTGA-AAAG
*
12431296 TGCTTTTGAAAAG
1 TACTTTTGAAAAG
12431309 T
1 T
12431310 TTAATTTAAA
Statistics
Matches: 40, Mismatches: 11, Indels: 6
0.70 0.19 0.11
Matches are distributed among these distances:
12 2 0.05
13 25 0.62
14 13 0.32
ACGTcount: A:0.36, C:0.06, G:0.21, T:0.37
Consensus pattern (13 bp):
TACTTTTGAAAAG
Found at i:12431602 original size:33 final size:30
Alignment explanation
Indices: 12431526--12431606 Score: 78
Period size: 33 Copynumber: 2.7 Consensus size: 30
12431516 ATTTTTAAGC
12431526 AATA-AATATT-AATTATTTATAAAATTTA
1 AATATAATATTAAATTATTTATAAAATTTA
* * *
12431554 ATTAGAATATATAAATTATATTTTAAATATTTA
1 AATATAATAT-TAAATTAT-TTATAAA-ATTTA
12431587 AATATAACTATTAAA-TATTT
1 AATATAA-TATTAAATTATTT
12431607 GTAATTAGTA
Statistics
Matches: 43, Mismatches: 4, Indels: 9
0.77 0.07 0.16
Matches are distributed among these distances:
28 3 0.07
29 5 0.12
30 1 0.02
31 8 0.19
32 9 0.21
33 14 0.33
34 3 0.07
ACGTcount: A:0.51, C:0.01, G:0.01, T:0.47
Consensus pattern (30 bp):
AATATAATATTAAATTATTTATAAAATTTA
Found at i:12441959 original size:27 final size:27
Alignment explanation
Indices: 12441920--12441980 Score: 115
Period size: 27 Copynumber: 2.3 Consensus size: 27
12441910 ACACCATTGA
12441920 AATT-AAAGTATATAAGGTCCTATAAC
1 AATTGAAAGTATATAAGGTCCTATAAC
12441946 AATTGAAAGTATATAAGGTCCTATAAC
1 AATTGAAAGTATATAAGGTCCTATAAC
12441973 AATTGAAA
1 AATTGAAA
12441981 AAAAAAAGTA
Statistics
Matches: 34, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
26 4 0.12
27 30 0.88
ACGTcount: A:0.48, C:0.10, G:0.13, T:0.30
Consensus pattern (27 bp):
AATTGAAAGTATATAAGGTCCTATAAC
Found at i:12453080 original size:7 final size:7
Alignment explanation
Indices: 12453068--12453104 Score: 51
Period size: 7 Copynumber: 5.6 Consensus size: 7
12453058 TTTTTATAAG
12453068 ATTATTT
1 ATTATTT
12453075 ATTATTT
1 ATTATTT
12453082 ATTATTT
1 ATTATTT
12453089 ATT-TTT
1 ATTATTT
*
12453095 AAT-TTT
1 ATTATTT
12453101 ATTA
1 ATTA
12453105 ATATAATATT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
6 10 0.37
7 17 0.63
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (7 bp):
ATTATTT
Found at i:12453223 original size:27 final size:27
Alignment explanation
Indices: 12453166--12453223 Score: 66
Period size: 27 Copynumber: 2.1 Consensus size: 27
12453156 TAATTTGAAT
**
12453166 ATTTTATTTTTTATAAAAAGATAATTT
1 ATTTTATTTTTTATAAAAAGATAATAA
12453193 ATTTTATTTTTTAATAAAATA-A-AATAA
1 ATTTTATTTTTT-ATAAAA-AGATAATAA
12453220 ATTT
1 ATTT
12453224 AATATTTTCT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
27 19 0.70
28 7 0.26
29 1 0.04
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (27 bp):
ATTTTATTTTTTATAAAAAGATAATAA
Found at i:12455937 original size:18 final size:17
Alignment explanation
Indices: 12455904--12455942 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
12455894 TTGTATAAAT
12455904 TGTGAATTATATTTGATA
1 TGTGAATTATATTTGA-A
12455922 TGTGAATTA-ATATTGAA
1 TGTGAATTATAT-TTGAA
12455939 TGTG
1 TGTG
12455943 GAAGGAAAGT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 7 0.35
18 13 0.65
ACGTcount: A:0.33, C:0.00, G:0.21, T:0.46
Consensus pattern (17 bp):
TGTGAATTATATTTGAA
Found at i:12456039 original size:76 final size:75
Alignment explanation
Indices: 12455947--12456095 Score: 280
Period size: 76 Copynumber: 2.0 Consensus size: 75
12455937 AATGTGGAAG
12455947 GAAAGTTGTTCATGAATTATTCAAGTGATAAAGTGTTGAAAATAAAGTGTTAAGTGTAAATTCCC
1 GAAAGTTGTTCATGAATTATTCAAGTGATAAAGTGTTGAAAATAAAGTGTTAAGTGTAAATTCCC
*
12456012 TTGTTGAACAT
66 -GGTTGAACAT
12456023 GAAAGTTGTTCATGAATTATTCAAGTGATAAAGTGTTGAAAATAAAGTGTTAAGTGTAAATTCCC
1 GAAAGTTGTTCATGAATTATTCAAGTGATAAAGTGTTGAAAATAAAGTGTTAAGTGTAAATTCCC
12456088 GGTTGAAC
66 GGTTGAAC
12456096 TTAGGAATAG
Statistics
Matches: 72, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
75 7 0.10
76 65 0.90
ACGTcount: A:0.37, C:0.08, G:0.21, T:0.34
Consensus pattern (75 bp):
GAAAGTTGTTCATGAATTATTCAAGTGATAAAGTGTTGAAAATAAAGTGTTAAGTGTAAATTCCC
GGTTGAACAT
Found at i:12456271 original size:23 final size:23
Alignment explanation
Indices: 12456244--12456341 Score: 162
Period size: 23 Copynumber: 4.3 Consensus size: 23
12456234 AGTGTTATTG
12456244 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
* *
12456267 TTCAGTGGTAGCTTTGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
*
12456290 -CCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
12456312 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
12456335 ATCAGTG
1 ATCAGTG
12456342 TGGCACTTAT
Statistics
Matches: 69, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
22 20 0.29
23 49 0.71
ACGTcount: A:0.20, C:0.21, G:0.27, T:0.32
Consensus pattern (23 bp):
ATCAGTGGTAGCTTCGGCTACAT
Found at i:12456310 original size:45 final size:45
Alignment explanation
Indices: 12456246--12456334 Score: 160
Period size: 45 Copynumber: 2.0 Consensus size: 45
12456236 TGTTATTGAT
* *
12456246 CAGTGGTAGCTTCGGCTACATTTCAGTGGTAGCTTTGGCTACATC
1 CAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTTCGGCTACATC
12456291 CAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTTCGGCTACAT
1 CAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTTCGGCTACAT
12456335 ATCAGTGTGG
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
45 42 1.00
ACGTcount: A:0.19, C:0.22, G:0.27, T:0.31
Consensus pattern (45 bp):
CAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTTCGGCTACATC
Found at i:12463745 original size:23 final size:25
Alignment explanation
Indices: 12463719--12463765 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
12463709 TATCATTCAT
*
12463719 TTCATTATAT-CA-ATATTTTATGC
1 TTCATCATATCCATATATTTTATGC
*
12463742 TTCATCATTTCCATATATTTTATG
1 TTCATCATATCCATATATTTTATG
12463766 TATATTTATT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 8 0.40
24 2 0.10
25 10 0.50
ACGTcount: A:0.28, C:0.15, G:0.04, T:0.53
Consensus pattern (25 bp):
TTCATCATATCCATATATTTTATGC
Found at i:12464086 original size:46 final size:47
Alignment explanation
Indices: 12464026--12464292 Score: 335
Period size: 46 Copynumber: 6.0 Consensus size: 47
12464016 TTTGACGTGA
* * * * * *
12464026 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCATATCAGGT
** * *
12464072 TGCCATGGTATCTTTCAACCATGGTCTTATTC-TTTTCATGTCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCATATCAGGT
* *
12464118 TGCCATGGTATCTTTCAACCATGGTCTTACACAATCTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCATATCAGGT
12464165 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCATATCAGGT
12464211 TGCCATGGTATCTTTCAACCATGGTCTT--ACA----C--A-CAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCATATCAGGT
12464249 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCATATCAG
12464293 AGAGCACACT
Statistics
Matches: 199, Mismatches: 12, Indels: 20
0.86 0.05 0.09
Matches are distributed among these distances:
38 33 0.17
39 1 0.01
40 3 0.02
41 1 0.01
43 1 0.01
44 3 0.02
45 6 0.03
46 108 0.54
47 43 0.22
ACGTcount: A:0.22, C:0.24, G:0.15, T:0.38
Consensus pattern (47 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCATATCAGGT
Found at i:12464187 original size:93 final size:91
Alignment explanation
Indices: 12464026--12464291 Score: 348
Period size: 93 Copynumber: 3.0 Consensus size: 91
12464016 TTTGACGTGA
* * * * * * *
12464026 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTCTGTCATGTTGCCATGGTATCTTTCAAC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-ATTCTATCAGGTTGCCATGGTATCTTTCAAC
** * *
12464091 CATGGTCTTATTCTTTTCATGTCACGT
65 CATGGTCTTACACATTTCATATCACGT
12464118 TGCCATGGTATCTTTCAACCATGGTCTTACACAATCTCATATCAGGTTGCCATGGTATCTTTCAA
1 TGCCATGGTATCTTTCAACCATGGTCTTACACAAT-TC-TATCAGGTTGCCATGGTATCTTTCAA
*
12464183 CCATGGTCTTACACATTTCATATCAGGT
64 CCATGGTCTTACACATTTCATATCACGT
12464211 TGCCATGGTATCTTTCAACCATGGTCTT--AC-A--C-A-CAGGTTGCCATGGTATCTTTCAACC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACAATTCTATCAGGTTGCCATGGTATCTTTCAACC
12464269 ATGGTCTTACACATTTCATATCA
66 ATGGTCTTACACATTTCATATCA
12464292 GAGAGCACAC
Statistics
Matches: 160, Mismatches: 12, Indels: 12
0.87 0.07 0.07
Matches are distributed among these distances:
84 48 0.30
85 1 0.01
87 1 0.01
90 1 0.01
91 3 0.02
92 31 0.19
93 75 0.47
ACGTcount: A:0.22, C:0.24, G:0.15, T:0.38
Consensus pattern (91 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACAATTCTATCAGGTTGCCATGGTATCTTTCAACC
ATGGTCTTACACATTTCATATCACGT
Found at i:12464257 original size:38 final size:38
Alignment explanation
Indices: 12464206--12464281 Score: 152
Period size: 38 Copynumber: 2.0 Consensus size: 38
12464196 CATTTCATAT
12464206 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
1 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
12464244 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
1 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
12464282 TTTCATATCA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.24, C:0.26, G:0.18, T:0.32
Consensus pattern (38 bp):
CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
Found at i:12466346 original size:41 final size:41
Alignment explanation
Indices: 12466291--12466529 Score: 299
Period size: 41 Copynumber: 5.8 Consensus size: 41
12466281 GAATGTAATA
* *
12466291 CAGACGTTACGTCTAGCAGGCTTAATGCCGGTGAAGTA-A-TT
1 CAGACTTTAAGTCTAGCAGGCTTAATGCCGGTG-A-TACATTT
12466332 CAGACTTTAAGTCTAGCAGGCTTAATGCCGGTGATACATTT
1 CAGACTTTAAGTCTAGCAGGCTTAATGCCGGTGATACATTT
12466373 CAGACTTTAAGTCTAGCAGGCTTAATGCCGGTGATACATTT
1 CAGACTTTAAGTCTAGCAGGCTTAATGCCGGTGATACATTT
* *
12466414 CAGACTATATGTCTAGCAGGCTTAATGCCGGTGATACATTT
1 CAGACTTTAAGTCTAGCAGGCTTAATGCCGGTGATACATTT
* * *
12466455 CAGACTATATGTCTAGCAGGC-TAAGTGCCGGTG-TAC-TGAAT
1 CAGACTTTAAGTCTAGCAGGCTTAA-TGCCGGTGATACAT--TT
* * **
12466496 CAGGCTTTAAGCCTAGCAGGCAAAATGCCGGTGA
1 CAGACTTTAAGTCTAGCAGGCTTAATGCCGGTGA
12466530 ATCTGTTTAA
Statistics
Matches: 181, Mismatches: 10, Indels: 13
0.89 0.05 0.06
Matches are distributed among these distances:
39 3 0.02
40 8 0.04
41 168 0.93
42 2 0.01
ACGTcount: A:0.27, C:0.20, G:0.25, T:0.28
Consensus pattern (41 bp):
CAGACTTTAAGTCTAGCAGGCTTAATGCCGGTGATACATTT
Found at i:12480444 original size:3 final size:3
Alignment explanation
Indices: 12480436--12480462 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
12480426 AACGGATTGC
12480436 GAA GAA GAA GAA GAA GAA GAA GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA
12480463 AACAGTAGCT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:12482553 original size:13 final size:13
Alignment explanation
Indices: 12482535--12482560 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
12482525 TATAGTTGGT
12482535 TCTGAGATTGAGA
1 TCTGAGATTGAGA
12482548 TCTGAGATTGAGA
1 TCTGAGATTGAGA
12482561 CACCAATGAT
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:0.08, G:0.31, T:0.31
Consensus pattern (13 bp):
TCTGAGATTGAGA
Found at i:12488945 original size:84 final size:84
Alignment explanation
Indices: 12488855--12489073 Score: 218
Period size: 80 Copynumber: 2.6 Consensus size: 84
12488845 TAATCATGTA
* * *
12488855 AAAAAAATCTCAAACTTTTTCAAAAAAAGTAATTAAGTCTTTGTTTTTTTTTACTTAATT-AGAT
1 AAAAAAACCTCAAACTTTTTCAAAAAAAGCAATTAAGTC-TTGTTTTTTTTTACTCAATTGAG-T
* * *
12488919 ATTTAAACTTTTAAAATGCAT
64 ACTTAAACTTTCAAAATACAT
* * * *
12488940 AAAAAACACCCTC-AAC---TTAAAAAAAAACAATTAAGTC--CTTTTTTTTCACTCAATTGAGT
1 AAAAAA-A-CCTCAAACTTTTTCAAAAAAAGCAATTAAGTCTTGTTTTTTTTTACTCAATTGAGT
12488999 ACTTAAACTTTCAAAATACAT
64 ACTTAAACTTTCAAAATACAT
* *
12489020 AAAAAAACCTTCAAACTTTTTCAAAAAAAAGCAAGTAAGCCCTTGTTTTTTTTT
1 AAAAAAACC-TCAAACTTTTTC-AAAAAAAGCAATTAAG-TCTTGTTTTTTTTT
12489074 TCACACTCAT
Statistics
Matches: 106, Mismatches: 16, Indels: 22
0.74 0.11 0.15
Matches are distributed among these distances:
78 2 0.02
79 3 0.03
80 43 0.41
81 2 0.02
83 20 0.19
84 14 0.13
85 7 0.07
86 4 0.04
87 11 0.10
ACGTcount: A:0.42, C:0.15, G:0.05, T:0.37
Consensus pattern (84 bp):
AAAAAAACCTCAAACTTTTTCAAAAAAAGCAATTAAGTCTTGTTTTTTTTTACTCAATTGAGTAC
TTAAACTTTCAAAATACAT
Found at i:12489170 original size:15 final size:16
Alignment explanation
Indices: 12489150--12489183 Score: 61
Period size: 15 Copynumber: 2.2 Consensus size: 16
12489140 AGTTGAACAT
12489150 TAAAGTTAATTGC-CC
1 TAAAGTTAATTGCACC
12489165 TAAAGTTAATTGCACC
1 TAAAGTTAATTGCACC
12489181 TAA
1 TAA
12489184 TTTTTTTAGT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 13 0.72
16 5 0.28
ACGTcount: A:0.38, C:0.18, G:0.12, T:0.32
Consensus pattern (16 bp):
TAAAGTTAATTGCACC
Found at i:12489313 original size:18 final size:19
Alignment explanation
Indices: 12489292--12489363 Score: 69
Period size: 20 Copynumber: 3.8 Consensus size: 19
12489282 AATAAAAAAG
*
12489292 TAAAATATAT-AAAAATCA
1 TAAAATATATAAAAAATTA
*
12489310 TAAAA-ATGTAAAAAATTA
1 TAAAATATATAAAAAATTA
12489328 TAAAA-ATCATAAAAAAATTA
1 TAAAATAT-AT-AAAAAATTA
*
12489348 TAAAATTTATCAAAAA
1 TAAAATATAT-AAAAA
12489364 GGTCCTTTAG
Statistics
Matches: 45, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
17 3 0.07
18 19 0.42
19 1 0.02
20 21 0.47
21 1 0.02
ACGTcount: A:0.67, C:0.04, G:0.01, T:0.28
Consensus pattern (19 bp):
TAAAATATATAAAAAATTA
Found at i:12489315 original size:27 final size:27
Alignment explanation
Indices: 12489283--12489343 Score: 97
Period size: 27 Copynumber: 2.3 Consensus size: 27
12489273 TTAAATTTTA
*
12489283 ATAAAAAAGTAAAATA-TATAAAAATC
1 ATAAAAAAGTAAAAAATTATAAAAATC
*
12489309 ATAAAAATGTAAAAAATTATAAAAATC
1 ATAAAAAAGTAAAAAATTATAAAAATC
12489336 ATAAAAAA
1 ATAAAAAA
12489344 ATTATAAAAT
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
26 14 0.45
27 17 0.55
ACGTcount: A:0.70, C:0.03, G:0.03, T:0.23
Consensus pattern (27 bp):
ATAAAAAAGTAAAAAATTATAAAAATC
Found at i:12489321 original size:8 final size:8
Alignment explanation
Indices: 12489283--12489342 Score: 50
Period size: 9 Copynumber: 6.9 Consensus size: 8
12489273 TTAAATTTTA
12489283 ATAAAAA-
1 ATAAAAAT
12489290 AGTAAAATAT
1 A-TAAAA-AT
12489300 ATAAAAAT
1 ATAAAAAT
12489308 CATAAAAAT
1 -ATAAAAAT
*
12489317 GTAAAAAATT
1 AT-AAAAA-T
12489327 ATAAAAAT
1 ATAAAAAT
12489335 CATAAAAA
1 -ATAAAAA
12489343 AATTATAAAA
Statistics
Matches: 44, Mismatches: 2, Indels: 12
0.76 0.03 0.21
Matches are distributed among these distances:
7 1 0.02
8 9 0.20
9 31 0.70
10 3 0.07
ACGTcount: A:0.70, C:0.03, G:0.03, T:0.23
Consensus pattern (8 bp):
ATAAAAAT
Found at i:12489352 original size:9 final size:9
Alignment explanation
Indices: 12489293--12489363 Score: 63
Period size: 9 Copynumber: 7.4 Consensus size: 9
12489283 ATAAAAAAGT
12489293 AAAATATATA
1 AAAAT-TATA
*
12489303 AAAATCATA
1 AAAATTATA
12489312 AAAATGTA-A
1 AAAAT-TATA
12489321 AAAATTATA
1 AAAATTATA
*
12489330 AAAATCATAAA
1 AAAAT--TATA
12489341 AAAATTATA
1 AAAATTATA
*
12489350 AAATTTATCA
1 AAAATTAT-A
12489360 AAAA
1 AAAA
12489364 GGTCCTTTAG
Statistics
Matches: 50, Mismatches: 6, Indels: 10
0.76 0.09 0.15
Matches are distributed among these distances:
8 2 0.04
9 30 0.60
10 10 0.20
11 8 0.16
ACGTcount: A:0.68, C:0.04, G:0.01, T:0.27
Consensus pattern (9 bp):
AAAATTATA
Found at i:12489363 original size:20 final size:20
Alignment explanation
Indices: 12489293--12489352 Score: 72
Period size: 18 Copynumber: 3.1 Consensus size: 20
12489283 ATAAAAAAGT
* *
12489293 AAAAT-ATATAAAAATCATA
1 AAAATCATAAAAAAATTATA
*
12489312 AAAAT-GT-AAAAAATTATA
1 AAAATCATAAAAAAATTATA
12489330 AAAATCATAAAAAAATTATA
1 AAAATCATAAAAAAATTATA
12489350 AAA
1 AAA
12489353 TTTATCAAAA
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
18 14 0.40
19 7 0.20
20 14 0.40
ACGTcount: A:0.70, C:0.03, G:0.02, T:0.25
Consensus pattern (20 bp):
AAAATCATAAAAAAATTATA
Found at i:12489568 original size:20 final size:20
Alignment explanation
Indices: 12489543--12489582 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
12489533 TTGGTACAAT
* *
12489543 AAATTTTATATTTTTTTTAC
1 AAATTTTACAATTTTTTTAC
12489563 AAATTTTACAATTTTTTTAC
1 AAATTTTACAATTTTTTTAC
12489583 TTTTTTTATA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.33, C:0.07, G:0.00, T:0.60
Consensus pattern (20 bp):
AAATTTTACAATTTTTTTAC
Found at i:12489746 original size:28 final size:28
Alignment explanation
Indices: 12489699--12489769 Score: 90
Period size: 29 Copynumber: 2.5 Consensus size: 28
12489689 CTTTATTGTA
* * *
12489699 TTTATAATTTTTAATAAAAATTAAATATT
1 TTTATATTTTTTATTAAAAATT-AATAAT
*
12489728 TTTATATTTTTTATTAAAAATTATTAAT
1 TTTATATTTTTTATTAAAAATTAATAAT
12489756 TTTAT-TTTTTTATT
1 TTTATATTTTTTATT
12489770 TTTTATCTTT
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
27 9 0.24
28 9 0.24
29 20 0.53
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (28 bp):
TTTATATTTTTTATTAAAAATTAATAAT
Found at i:12490631 original size:5 final size:5
Alignment explanation
Indices: 12490621--12490645 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
12490611 ATTCAAAATT
12490621 TAAAA TAAAA TAAAA TAAAA TAAAA
1 TAAAA TAAAA TAAAA TAAAA TAAAA
12490646 ACTAATCTTC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (5 bp):
TAAAA
Found at i:12493009 original size:14 final size:14
Alignment explanation
Indices: 12492990--12493016 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
12492980 AAACAGGAAC
12492990 GGACTCAAAGGGTA
1 GGACTCAAAGGGTA
12493004 GGACTCAAAGGGT
1 GGACTCAAAGGGT
12493017 CACCCTGTCT
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:0.33, C:0.15, G:0.37, T:0.15
Consensus pattern (14 bp):
GGACTCAAAGGGTA
Found at i:12505465 original size:18 final size:19
Alignment explanation
Indices: 12505442--12505480 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
12505432 TTTAAAAATC
*
12505442 TATAAAGA-TAATTTTTTT
1 TATAAAGAGCAATTTTTTT
*
12505460 TATAAATAGCAATTTTTTT
1 TATAAAGAGCAATTTTTTT
12505479 TA
1 TA
12505481 ATATTTAATA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 7 0.39
19 11 0.61
ACGTcount: A:0.38, C:0.03, G:0.05, T:0.54
Consensus pattern (19 bp):
TATAAAGAGCAATTTTTTT
Found at i:12508505 original size:30 final size:31
Alignment explanation
Indices: 12508442--12508511 Score: 99
Period size: 30 Copynumber: 2.3 Consensus size: 31
12508432 AAGAAATAAT
* *
12508442 AATTTAATTCTTTTTAAAAGGTTTAAGACCA
1 AATTTAATTCTTTTTAAAAGGTTGAAGAACA
12508473 AATTTAATT-TTTTTGAAAA-GTTGAAGAACA
1 AATTTAATTCTTTTT-AAAAGGTTGAAGAACA
12508503 AATTTAATT
1 AATTTAATT
12508512 AGAAAAGAAT
Statistics
Matches: 36, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
30 23 0.64
31 13 0.36
ACGTcount: A:0.41, C:0.06, G:0.10, T:0.43
Consensus pattern (31 bp):
AATTTAATTCTTTTTAAAAGGTTGAAGAACA
Found at i:12511060 original size:57 final size:57
Alignment explanation
Indices: 12510991--12511104 Score: 228
Period size: 57 Copynumber: 2.0 Consensus size: 57
12510981 AAAAAAGAAA
12510991 ACCAAAATTTCAGCTTAATTTGATTTACAATATTTGATCCTGAAATTATGCTGCATG
1 ACCAAAATTTCAGCTTAATTTGATTTACAATATTTGATCCTGAAATTATGCTGCATG
12511048 ACCAAAATTTCAGCTTAATTTGATTTACAATATTTGATCCTGAAATTATGCTGCATG
1 ACCAAAATTTCAGCTTAATTTGATTTACAATATTTGATCCTGAAATTATGCTGCATG
12511105 TGATGGTGAG
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
57 57 1.00
ACGTcount: A:0.33, C:0.16, G:0.12, T:0.39
Consensus pattern (57 bp):
ACCAAAATTTCAGCTTAATTTGATTTACAATATTTGATCCTGAAATTATGCTGCATG
Found at i:12514548 original size:21 final size:21
Alignment explanation
Indices: 12514522--12514561 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
12514512 GTCTTAACTG
12514522 CTGATGTGGCAAGTTAACTAA
1 CTGATGTGGCAAGTTAACTAA
*
12514543 CTGATGTGGCCAGTTAACT
1 CTGATGTGGCAAGTTAACT
12514562 TGCCACATTG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.28, C:0.17, G:0.25, T:0.30
Consensus pattern (21 bp):
CTGATGTGGCAAGTTAACTAA
Found at i:12515005 original size:13 final size:13
Alignment explanation
Indices: 12514989--12515049 Score: 86
Period size: 13 Copynumber: 4.7 Consensus size: 13
12514979 TGCTGTGGAA
12514989 AAGTACTTTTGAG
1 AAGTACTTTTGAG
*
12515002 AAGTACTTTTGAT
1 AAGTACTTTTGAG
*
12515015 AAGTGCTTTTGAG
1 AAGTACTTTTGAG
*
12515028 AAGTACTTTTGAT
1 AAGTACTTTTGAG
*
12515041 AAGTGCTTT
1 AAGTACTTT
12515050 GGAAAAATTT
Statistics
Matches: 42, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
13 42 1.00
ACGTcount: A:0.28, C:0.08, G:0.21, T:0.43
Consensus pattern (13 bp):
AAGTACTTTTGAG
Found at i:12515011 original size:39 final size:39
Alignment explanation
Indices: 12514968--12515055 Score: 113
Period size: 39 Copynumber: 2.3 Consensus size: 39
12514958 TTTGGCAATG
12514968 CTTTTGAAAAGTGCTGTGGAAAAGTACTTTTGAGAAGTA
1 CTTTTGAAAAGTGCTGTGGAAAAGTACTTTTGAGAAGTA
* * * * * *
12515007 CTTTTGATAAGTGCTTTTGAGAAGTACTTTTGATAAGTG
1 CTTTTGAAAAGTGCTGTGGAAAAGTACTTTTGAGAAGTA
*
12515046 CTTTGGAAAA
1 CTTTTGAAAA
12515056 ATTTAAGTGT
Statistics
Matches: 41, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
39 41 1.00
ACGTcount: A:0.31, C:0.08, G:0.24, T:0.38
Consensus pattern (39 bp):
CTTTTGAAAAGTGCTGTGGAAAAGTACTTTTGAGAAGTA
Found at i:12515035 original size:26 final size:26
Alignment explanation
Indices: 12514966--12515049 Score: 114
Period size: 26 Copynumber: 3.2 Consensus size: 26
12514956 AGTTTGGCAA
* * * * *
12514966 TGCTTTTGAAAAGTGCTGTGGAAAAG
1 TGCTTTTGAGAAGTACTTTTGATAAG
*
12514992 TACTTTTGAGAAGTACTTTTGATAAG
1 TGCTTTTGAGAAGTACTTTTGATAAG
12515018 TGCTTTTGAGAAGTACTTTTGATAAG
1 TGCTTTTGAGAAGTACTTTTGATAAG
12515044 TGCTTT
1 TGCTTT
12515050 GGAAAAATTT
Statistics
Matches: 51, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 51 1.00
ACGTcount: A:0.27, C:0.08, G:0.24, T:0.40
Consensus pattern (26 bp):
TGCTTTTGAGAAGTACTTTTGATAAG
Found at i:12515202 original size:10 final size:10
Alignment explanation
Indices: 12515187--12515213 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
12515177 ATATTTTAGC
12515187 AAAAATATAA
1 AAAAATATAA
12515197 AAAAATATAA
1 AAAAATATAA
12515207 AAAAATA
1 AAAAATA
12515214 ATTTATTATA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (10 bp):
AAAAATATAA
Found at i:12538864 original size:46 final size:44
Alignment explanation
Indices: 12538760--12538867 Score: 144
Period size: 44 Copynumber: 2.4 Consensus size: 44
12538750 TGTCTTTGAC
** * * *
12538760 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
*
12538804 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATTTCTAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATA--TATAAT
12538850 ATGGACTTACATGGCTCA
1 ATGGACTTACATGGCTCA
12538868 TTTCTGTTCT
Statistics
Matches: 56, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
44 33 0.59
46 23 0.41
ACGTcount: A:0.30, C:0.23, G:0.14, T:0.33
Consensus pattern (44 bp):
ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
Found at i:12545300 original size:28 final size:28
Alignment explanation
Indices: 12545247--12545330 Score: 132
Period size: 28 Copynumber: 3.0 Consensus size: 28
12545237 CACTTTGTGC
12545247 TATTCTGGTGTGTTTTGGATGGATTATAT
1 TATTCTGGTGTGTTTTGGA-GGATTATAT
*
12545276 TATTCTGGTGTGTTTGGGAGGATTATAT
1 TATTCTGGTGTGTTTTGGAGGATTATAT
* *
12545304 GATACTGGTGTGTTTTGGAGGATTATA
1 TATTCTGGTGTGTTTTGGAGGATTATA
12545331 CTGGTGTGTT
Statistics
Matches: 51, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
28 33 0.65
29 18 0.35
ACGTcount: A:0.19, C:0.04, G:0.31, T:0.46
Consensus pattern (28 bp):
TATTCTGGTGTGTTTTGGAGGATTATAT
Found at i:12545342 original size:23 final size:24
Alignment explanation
Indices: 12545251--12545344 Score: 91
Period size: 28 Copynumber: 3.6 Consensus size: 24
12545241 TTGTGCTATT
12545251 CTGGTGTGTTTTGGATGGATTATATTA
1 CTGGTGTGTTTTGGA-GGA-TATA-TA
*
12545278 TTCTGGTGTGTTTGGGAGGATTATATGATA
1 --CTGGTGTGTTTTGGAGG---ATAT-ATA
12545308 CTGGTGTGTTTTGGAGGAT-TATA
1 CTGGTGTGTTTTGGAGGATATATA
12545331 CTGGTGTGTTTTGG
1 CTGGTGTGTTTTGG
12545345 TTGGACATTT
Statistics
Matches: 59, Mismatches: 2, Indels: 14
0.79 0.03 0.19
Matches are distributed among these distances:
23 17 0.29
24 1 0.02
25 2 0.03
28 18 0.31
29 14 0.24
30 5 0.08
31 2 0.03
ACGTcount: A:0.16, C:0.04, G:0.34, T:0.46
Consensus pattern (24 bp):
CTGGTGTGTTTTGGAGGATATATA
Found at i:12545575 original size:23 final size:22
Alignment explanation
Indices: 12545535--12545621 Score: 74
Period size: 21 Copynumber: 4.0 Consensus size: 22
12545525 GCTTTACTGA
*
12545535 TCAGGCACTTTATCTGTCGTATT
1 TCAGGCAC-TTATGTGTCGTATT
* *
12545558 TCAGGCACCTTGTGTGTCGCA--
1 TCAGGCA-CTTATGTGTCGTATT
* *
12545579 GCAGGCACTTCGTGTGTCG--TT
1 TCAGGCACTT-ATGTGTCGTATT
12545600 TCAGGCACTTATGTGTCGTATT
1 TCAGGCACTTATGTGTCGTATT
12545622 CTGATCAGGT
Statistics
Matches: 52, Mismatches: 6, Indels: 13
0.73 0.08 0.18
Matches are distributed among these distances:
20 10 0.19
21 23 0.44
22 2 0.04
23 16 0.31
24 1 0.02
ACGTcount: A:0.15, C:0.23, G:0.25, T:0.37
Consensus pattern (22 bp):
TCAGGCACTTATGTGTCGTATT
Found at i:12548215 original size:30 final size:32
Alignment explanation
Indices: 12548155--12548218 Score: 101
Period size: 33 Copynumber: 2.0 Consensus size: 32
12548145 CACTTATTTT
12548155 CACCTATGCCGAATGCATACACATAAATATATC
1 CACCTATGCCGAATGCA-ACACATAAATATATC
* *
12548188 CACCTATGCCGAATGCAACATATATATATAT
1 CACCTATGCCGAATGCAACACATAAATATAT
12548219 ACATATCTAT
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 12 0.41
33 17 0.59
ACGTcount: A:0.39, C:0.25, G:0.09, T:0.27
Consensus pattern (32 bp):
CACCTATGCCGAATGCAACACATAAATATATC
Found at i:12548536 original size:41 final size:41
Alignment explanation
Indices: 12548433--12548546 Score: 194
Period size: 40 Copynumber: 2.8 Consensus size: 41
12548423 ACCGGCTCTT
*
12548433 AGCCTGCTAGACTTATAGTCCGAAATGTGTCACCGGCATTA
1 AGCCTGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTA
12548474 AGCCT-CTAGACTTATAGTCTGAAATGTGTCACCGGCATTA
1 AGCCTGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTA
* *
12548514 AGCCTGCTAGACTTATAGTCTGAATTATGTCAC
1 AGCCTGCTAGACTTATAGTCTGAAATGTGTCAC
12548547 TAACGATAAA
Statistics
Matches: 69, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
40 39 0.57
41 30 0.43
ACGTcount: A:0.27, C:0.23, G:0.20, T:0.30
Consensus pattern (41 bp):
AGCCTGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTA
Found at i:12555616 original size:5 final size:5
Alignment explanation
Indices: 12555608--12555634 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
12555598 TCTTTAGTTT
12555608 ATATA ATATA ATATA ATATA ATATA AT
1 ATATA ATATA ATATA ATATA ATATA AT
12555635 TAAAACATAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (5 bp):
ATATA
Found at i:12555873 original size:11 final size:11
Alignment explanation
Indices: 12555857--12555898 Score: 59
Period size: 11 Copynumber: 3.7 Consensus size: 11
12555847 TAAATTCACT
12555857 TAATTAAACTC
1 TAATTAAACTC
12555868 TAATTAACCACT-
1 TAATTAA--ACTC
12555880 TAATTAAACTC
1 TAATTAAACTC
12555891 TAATTAAA
1 TAATTAAA
12555899 AATATTTACG
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
10 3 0.11
11 15 0.54
12 7 0.25
13 3 0.11
ACGTcount: A:0.48, C:0.17, G:0.00, T:0.36
Consensus pattern (11 bp):
TAATTAAACTC
Found at i:12555879 original size:23 final size:23
Alignment explanation
Indices: 12555853--12555897 Score: 90
Period size: 23 Copynumber: 2.0 Consensus size: 23
12555843 AAATTAAATT
12555853 CACTTAATTAAACTCTAATTAAC
1 CACTTAATTAAACTCTAATTAAC
12555876 CACTTAATTAAACTCTAATTAA
1 CACTTAATTAAACTCTAATTAA
12555898 AAATATTTAC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.44, C:0.20, G:0.00, T:0.36
Consensus pattern (23 bp):
CACTTAATTAAACTCTAATTAAC
Found at i:12555885 original size:12 final size:11
Alignment explanation
Indices: 12555826--12555897 Score: 50
Period size: 10 Copynumber: 6.8 Consensus size: 11
12555816 AGTCCTTTTT
*
12555826 CTTAATT-ACT
1 CTTAATTAACA
12555836 CTTAATTAA-A
1 CTTAATTAACA
12555846 -TTAAATT--CA
1 CTT-AATTAACA
12555855 CTTAATTAA-A
1 CTTAATTAACA
12555865 CTCTAATTAACCA
1 CT-TAATTAA-CA
12555878 CTTAATTAA-A
1 CTTAATTAACA
12555888 CTCTAATTAA
1 CT-TAATTAA
12555898 AAATATTTAC
Statistics
Matches: 51, Mismatches: 1, Indels: 19
0.72 0.01 0.27
Matches are distributed among these distances:
9 7 0.14
10 19 0.37
11 15 0.29
12 7 0.14
13 3 0.06
ACGTcount: A:0.43, C:0.17, G:0.00, T:0.40
Consensus pattern (11 bp):
CTTAATTAACA
Found at i:12557811 original size:19 final size:19
Alignment explanation
Indices: 12557787--12557827 Score: 82
Period size: 19 Copynumber: 2.2 Consensus size: 19
12557777 TTTGAAAAAC
12557787 TTAGCACGCATCGTTTCCA
1 TTAGCACGCATCGTTTCCA
12557806 TTAGCACGCATCGTTTCCA
1 TTAGCACGCATCGTTTCCA
12557825 TTA
1 TTA
12557828 AAAAACATAG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.22, C:0.29, G:0.15, T:0.34
Consensus pattern (19 bp):
TTAGCACGCATCGTTTCCA
Found at i:12559735 original size:23 final size:23
Alignment explanation
Indices: 12559704--12559754 Score: 68
Period size: 23 Copynumber: 2.2 Consensus size: 23
12559694 ATTAATAATG
12559704 ATATAATTTTCTT-AATAAAAAAT
1 ATATAATTTTCTTCAA-AAAAAAT
* *
12559727 ATATTATTTTTTTCAAAAAAAAT
1 ATATAATTTTCTTCAAAAAAAAT
12559750 ATATA
1 ATATA
12559755 TTAGTTTAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
23 22 0.92
24 2 0.08
ACGTcount: A:0.51, C:0.04, G:0.00, T:0.45
Consensus pattern (23 bp):
ATATAATTTTCTTCAAAAAAAAT
Found at i:12560364 original size:18 final size:18
Alignment explanation
Indices: 12560343--12560381 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
12560333 GTGAATAGTA
* *
12560343 AAATTAAACTTAAATATT
1 AAATTAAACATAAAAATT
12560361 AAATTAAACATAAAAATT
1 AAATTAAACATAAAAATT
12560379 AAA
1 AAA
12560382 CTCACACATA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.64, C:0.05, G:0.00, T:0.31
Consensus pattern (18 bp):
AAATTAAACATAAAAATT
Found at i:12565226 original size:12 final size:11
Alignment explanation
Indices: 12565209--12565250 Score: 50
Period size: 12 Copynumber: 3.7 Consensus size: 11
12565199 AAGTCATATT
12565209 TAATTTTTATA
1 TAATTTTTATA
*
12565220 TATATTTTAATA
1 TA-ATTTTTATA
12565232 -AATTTATTATA
1 TAATTT-TTATA
12565243 TAATTTTT
1 TAATTTTT
12565251 TCACCTACAT
Statistics
Matches: 26, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
10 4 0.15
11 9 0.35
12 13 0.50
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (11 bp):
TAATTTTTATA
Found at i:12572091 original size:32 final size:31
Alignment explanation
Indices: 12572040--12572099 Score: 84
Period size: 32 Copynumber: 1.9 Consensus size: 31
12572030 TTCTCTTAAT
*
12572040 TTAAGTTTAAGGATTAAAATAAGTTTAAGTG
1 TTAAGTTTAAGGATCAAAATAAGTTTAAGTG
* *
12572071 TTAAGTTTTAAGTATCAAAATGAGTTTAA
1 TTAAG-TTTAAGGATCAAAATAAGTTTAA
12572100 AAAAAATAGA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
31 5 0.20
32 20 0.80
ACGTcount: A:0.42, C:0.02, G:0.17, T:0.40
Consensus pattern (31 bp):
TTAAGTTTAAGGATCAAAATAAGTTTAAGTG
Found at i:12577929 original size:30 final size:30
Alignment explanation
Indices: 12577861--12577931 Score: 83
Period size: 31 Copynumber: 2.3 Consensus size: 30
12577851 TTGATTGAAT
* *
12577861 TAAAATTAAAGTTTCGTGTATATATTTAAAC
1 TAAAATTAAAGTTTCGTGTATAAATGT-AAC
12577892 TAAAATTAAAGTTTCATGTGTATAAATGT-AC
1 TAAAATTAAAGTTTC--GTGTATAAATGTAAC
12577923 -AAAATTAAA
1 TAAAATTAAA
12577932 ATTCATATAT
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
30 9 0.25
31 17 0.47
33 10 0.28
ACGTcount: A:0.46, C:0.06, G:0.10, T:0.38
Consensus pattern (30 bp):
TAAAATTAAAGTTTCGTGTATAAATGTAAC
Found at i:12599821 original size:17 final size:18
Alignment explanation
Indices: 12599781--12599824 Score: 54
Period size: 17 Copynumber: 2.5 Consensus size: 18
12599771 ATTTCTAGTG
* *
12599781 TTTAGATTTTTGTATTTA
1 TTTAAATTTTTGTATATA
*
12599799 TATAAATTTTT-TATATA
1 TTTAAATTTTTGTATATA
12599816 TTTAAATTT
1 TTTAAATTT
12599825 ATGTTATGTT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
17 13 0.59
18 9 0.41
ACGTcount: A:0.32, C:0.00, G:0.05, T:0.64
Consensus pattern (18 bp):
TTTAAATTTTTGTATATA
Found at i:12604247 original size:3 final size:3
Alignment explanation
Indices: 12604239--12604271 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
12604229 AAGCATAAAC
12604239 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
12604272 CATTGGAATA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:12606216 original size:132 final size:132
Alignment explanation
Indices: 12605977--12607648 Score: 3170
Period size: 132 Copynumber: 12.7 Consensus size: 132
12605967 CGATCGGCTT
*
12605977 TCTTCGATCCACTTCCTACCAATATA-GGAGGATAGGATCTGCTA-CATTCGATCTACTTCACGC
1 TCTTCGATCCACTTCCTACCAATATAGGGA-GATAGGATCTGATATC-TTCGATCTACTTCACGC
* * *
12606040 CAATACATGAAGACAAGATCTGTTTTCTGCGATCTACTTTGCCACCAATATGGGAAGACAAGATC
64 CAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATC
12606105 TGCA
129 TGCA
*
12606109 TCTTCGATCCACTTCCTACCAATATAGGAAGATAGGATCTGATATCTTCGATCTACTTCACGCCA
1 TCTTCGATCCACTTCCTACCAATATAGGGAGATAGGATCTGATATCTTCGATCTACTTCACGCCA
*
12606174 ATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTA
66 ATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTG
12606239 CA
131 CA
* *
12606241 TCTTCGATCCACTTCCTACCAATATAGGAAGATAGGATATGATATCTTCGATCTACTTCACGCCA
1 TCTTCGATCCACTTCCTACCAATATAGGGAGATAGGATCTGATATCTTCGATCTACTTCACGCCA
12606306 ATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTG
66 ATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTG
12606371 CA
131 CA
*
12606373 TCTTCGATCCACTTCCTACCAATATAGGGAGATAGGATATGATATCTTCGATCTACTTCACGCCA
1 TCTTCGATCCACTTCCTACCAATATAGGGAGATAGGATCTGATATCTTCGATCTACTTCACGCCA
12606438 ATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAATAT-GGAAGACAAGATCTG
66 ATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTG
12606502 CA
131 CA
12606504 TCTTCGATCCACTTCCTACCAATATAGGGAGATAGGATCTGATATCTTCGATCTACTTCACGCCA
1 TCTTCGATCCACTTCCTACCAATATAGGGAGATAGGATCTGATATCTTCGATCTACTTCACGCCA
12606569 ATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTG
66 ATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTG
12606634 CA
131 CA
12606636 TCTTCGATCCACTTCCTACCAATATAGGGAGATAGGATCTGATATCTTCGATCTACTTCACGCCA
1 TCTTCGATCCACTTCCTACCAATATAGGGAGATAGGATCTGATATCTTCGATCTACTTCACGCCA
*
12606701 ATACATGAAGACAAGATCTACTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTG
66 ATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTG
12606766 CA
131 CA
12606768 TCTTCGATCCACTTCCTACCAATATAGGGAGATAGGATCTGATATCTTCGATCTACTTCACGCCA
1 TCTTCGATCCACTTCCTACCAATATAGGGAGATAGGATCTGATATCTTCGATCTACTTCACGCCA
* *
12606833 ATACATGAAGATAAGATCTACTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTG
66 ATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTG
12606898 CA
131 CA
12606900 TCTTCGATCCACTTCCTACCAATATAGGGAGATAGGATCTGATATCTTCGATCTACTTCACGCCA
1 TCTTCGATCCACTTCCTACCAATATAGGGAGATAGGATCTGATATCTTCGATCTACTTCACGCCA
12606965 ATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTG
66 ATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTG
12607030 CA
131 CA
*
12607032 TCTTCGATCCACTTCCTACCAATATAGGGAGATAGGATCTGATATCTTCGATCTACTTCACGCTA
1 TCTTCGATCCACTTCCTACCAATATAGGGAGATAGGATCTGATATCTTCGATCTACTTCACGCCA
12607097 ATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTG
66 ATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTG
12607162 CA
131 CA
12607164 TCTTCGATCCACTTCCTACCAATATAGGGAGATAGGATCTGATATCTTCGATCTACTTCACGCCA
1 TCTTCGATCCACTTCCTACCAATATAGGGAGATAGGATCTGATATCTTCGATCTACTTCACGCCA
*
12607229 ATACATGAAGACAAGATCTACTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTG
66 ATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTG
12607294 CA
131 CA
12607296 TCTTCGATCCACTTCCTACCAATATAGGGAGATAGGATCTGATATCTTCGATCTACTTCACGCCA
1 TCTTCGATCCACTTCCTACCAATATAGGGAGATAGGATCTGATATCTTCGATCTACTTCACGCCA
12607361 ATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTG
66 ATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTG
12607426 CA
131 CA
12607428 TCTTCGATCCACTTCCTACCAATATAGGGAGATAGGATCTGATATCTTCGATCTACTTCACGCCA
1 TCTTCGATCCACTTCCTACCAATATAGGGAGATAGGATCTGATATCTTCGATCTACTTCACGCCA
12607493 ATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTG
66 ATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTG
12607558 CA
131 CA
12607560 TCTTCGATCCACTTCCTACCAATATAGGGAGATAGGATCTGATATCTTCGATCTACTTCACGCCA
1 TCTTCGATCCACTTCCTACCAATATAGGGAGATAGGATCTGATATCTTCGATCTACTTCACGCCA
*
12607625 ATACATGAAGACAAGATCTACTTT
66 ATACATGAAGACAAGATCTGCTTT
12607649 AATGACTTCA
Statistics
Matches: 1518, Mismatches: 19, Indels: 6
0.98 0.01 0.00
Matches are distributed among these distances:
131 130 0.09
132 1385 0.91
133 3 0.00
ACGTcount: A:0.30, C:0.25, G:0.16, T:0.28
Consensus pattern (132 bp):
TCTTCGATCCACTTCCTACCAATATAGGGAGATAGGATCTGATATCTTCGATCTACTTCACGCCA
ATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTG
CA
Found at i:12623658 original size:14 final size:15
Alignment explanation
Indices: 12623634--12623664 Score: 55
Period size: 14 Copynumber: 2.1 Consensus size: 15
12623624 ATAACACTTG
12623634 TAATGAAAATATTAT
1 TAATGAAAATATTAT
12623649 TAAT-AAAATATTAT
1 TAATGAAAATATTAT
12623663 TA
1 TA
12623665 TTTATTTATT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 12 0.75
15 4 0.25
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.42
Consensus pattern (15 bp):
TAATGAAAATATTAT
Found at i:12624388 original size:13 final size:13
Alignment explanation
Indices: 12624367--12624396 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
12624357 TAATTATTAT
*
12624367 AAATGTGTTTTAA
1 AAATATGTTTTAA
12624380 AAATATGTTTTAA
1 AAATATGTTTTAA
12624393 AAAT
1 AAAT
12624397 TATTTCTATG
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:0.47, C:0.00, G:0.10, T:0.43
Consensus pattern (13 bp):
AAATATGTTTTAA
Found at i:12637364 original size:14 final size:14
Alignment explanation
Indices: 12637347--12637373 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
12637337 TAATATTAGA
12637347 TTTTTATTTTTATT
1 TTTTTATTTTTATT
12637361 TTTTTATTTTTAT
1 TTTTTATTTTTAT
12637374 AAATTATAAG
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:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (14 bp):
TTTTTATTTTTATT
Found at i:12650700 original size:71 final size:70
Alignment explanation
Indices: 12650585--12650720 Score: 236
Period size: 71 Copynumber: 1.9 Consensus size: 70
12650575 CACAAACGTT
*
12650585 AGAATTTGAAAGGCTTTCTTTTTCAACAGTGAAGCATTTTATCGAACACTTCGCTCGACGAAAAG
1 AGAATTTGAAAGGCTTTCCTTTTCAACAGTGAAGCATTTTATCGAACACTTCGCTCGACGAAAAG
12650650 ATGAA
66 ATGAA
* *
12650655 AGAATTTGAAAGGCCTTTCCTTTTCATCAGTGAAGCATTTTATCGAACACTTCGCTTGACGAAAA
1 AGAATTTGAAAGG-CTTTCCTTTTCAACAGTGAAGCATTTTATCGAACACTTCGCTCGACGAAAA
12650720 G
65 G
12650721 TTGGAGGAAG
Statistics
Matches: 62, Mismatches: 3, Indels: 1
0.94 0.05 0.02
Matches are distributed among these distances:
70 13 0.21
71 49 0.79
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.31
Consensus pattern (70 bp):
AGAATTTGAAAGGCTTTCCTTTTCAACAGTGAAGCATTTTATCGAACACTTCGCTCGACGAAAAG
ATGAA
Found at i:12654253 original size:29 final size:32
Alignment explanation
Indices: 12654193--12654252 Score: 90
Period size: 31 Copynumber: 1.9 Consensus size: 32
12654183 CTCAGAATCA
12654193 AAAAGTATGTACCATAACATCATAAGATTTTG
1 AAAAGTATGTACCATAACATCATAAGATTTTG
12654225 AAAA-TATGTACCATAATCATC-TAA-ATTT
1 AAAAGTATGTACCATAA-CATCATAAGATTT
12654253 GCCAAAAAAG
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
30 4 0.15
31 15 0.56
32 8 0.30
ACGTcount: A:0.45, C:0.13, G:0.08, T:0.33
Consensus pattern (32 bp):
AAAAGTATGTACCATAACATCATAAGATTTTG
Found at i:12668226 original size:28 final size:28
Alignment explanation
Indices: 12668190--12668245 Score: 103
Period size: 28 Copynumber: 2.0 Consensus size: 28
12668180 TCTAGTGAGA
12668190 TGATCGTTCTCATTCAAGAGATTAATGT
1 TGATCGTTCTCATTCAAGAGATTAATGT
*
12668218 TGATTGTTCTCATTCAAGAGATTAATGT
1 TGATCGTTCTCATTCAAGAGATTAATGT
12668246 GTGCTCAAAG
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.29, C:0.12, G:0.18, T:0.41
Consensus pattern (28 bp):
TGATCGTTCTCATTCAAGAGATTAATGT
Found at i:12672826 original size:8 final size:8
Alignment explanation
Indices: 12672813--12672841 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
12672803 TTATGTTTAA
12672813 TATATTAT
1 TATATTAT
12672821 TATATTAT
1 TATATTAT
12672829 TATATTAT
1 TATATTAT
12672837 TATAT
1 TATAT
12672842 AATAAAGATA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (8 bp):
TATATTAT
Found at i:12672874 original size:5 final size:5
Alignment explanation
Indices: 12672864--12672915 Score: 104
Period size: 5 Copynumber: 10.4 Consensus size: 5
12672854 TTATGTTTTA
12672864 ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT
1 ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT
12672914 AT
1 AT
12672916 AAACTAAAGA
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 47 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (5 bp):
ATTAT
Done.