Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold538
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: 158065
ACGTcount: A:0.34, C:0.15, G:0.16, T:0.35
Found at i:1273 original size:13 final size:13
Alignment explanation
Indices: 1255--1280 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1245 CACACAAATA
1255 TGTATCGATACAT
1 TGTATCGATACAT
1268 TGTATCGATACAT
1 TGTATCGATACAT
1281 CCCAAAATGT
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:1276 original size:33 final size:33
Alignment explanation
Indices: 1234--1302 Score: 104
Period size: 33 Copynumber: 2.1 Consensus size: 33
1224 CTTAACTGTT
1234 TTGTATCGATACA-CACAAATATGTATCGATACA
1 TTGTATCGATACATCACAAA-ATGTATCGATACA
* *
1267 TTGTATCGATACATCCCAAAATGTGTCGATACA
1 TTGTATCGATACATCACAAAATGTATCGATACA
1300 TTG
1 TTG
1303 GCTTGTAACG
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
33 28 0.85
34 5 0.15
ACGTcount: A:0.35, C:0.19, G:0.14, T:0.32
Consensus pattern (33 bp):
TTGTATCGATACATCACAAAATGTATCGATACA
Found at i:5020 original size:13 final size:13
Alignment explanation
Indices: 5002--5033 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
4992 TACAATTCAT
5002 AATGTATCGATAC
1 AATGTATCGATAC
5015 AATGTATCGATAC
1 AATGTATCGATAC
*
5028 ATTGTA
1 AATGTA
5034 CCATGTATCG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.38, C:0.12, G:0.16, T:0.34
Consensus pattern (13 bp):
AATGTATCGATAC
Found at i:5021 original size:33 final size:32
Alignment explanation
Indices: 4981--5049 Score: 95
Period size: 33 Copynumber: 2.1 Consensus size: 32
4971 CCGTTACAAG
4981 CAATGTATCGATACAATTCATA-ATGTATCGATA
1 CAATGTATCGATAC-ATT-ATACATGTATCGATA
*
5014 CAATGTATCGATACATTGTACCATGTATCGATA
1 CAATGTATCGATACATTATA-CATGTATCGATA
5047 CAA
1 CAA
5050 ACAATGGTAG
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
31 2 0.06
32 3 0.09
33 28 0.85
ACGTcount: A:0.38, C:0.17, G:0.13, T:0.32
Consensus pattern (32 bp):
CAATGTATCGATACATTATACATGTATCGATA
Found at i:5122 original size:19 final size:20
Alignment explanation
Indices: 5082--5124 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
5072 TAATCTCATC
**
5082 TATCGATACAATTGTCCATG
1 TATCGATACAATTGAACATG
5102 TATCGATACAA-TGAACATG
1 TATCGATACAATTGAACATG
5121 TATC
1 TATC
5125 TTTACAATGT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 10 0.48
20 11 0.52
ACGTcount: A:0.35, C:0.19, G:0.14, T:0.33
Consensus pattern (20 bp):
TATCGATACAATTGAACATG
Found at i:5321 original size:22 final size:21
Alignment explanation
Indices: 5294--5344 Score: 93
Period size: 21 Copynumber: 2.4 Consensus size: 21
5284 AAATTAAGGT
5294 TCAAAAACATTTGTTTATAAC
1 TCAAAAACATTTGTTTATAAC
5315 TCAAAAACATTTGTTTATAAC
1 TCAAAAACATTTGTTTATAAC
5336 TCTAAAAAC
1 TC-AAAAAC
5345 TTCCATTGAT
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
21 23 0.79
22 6 0.21
ACGTcount: A:0.45, C:0.16, G:0.04, T:0.35
Consensus pattern (21 bp):
TCAAAAACATTTGTTTATAAC
Found at i:5778 original size:22 final size:20
Alignment explanation
Indices: 5710--5782 Score: 62
Period size: 22 Copynumber: 3.6 Consensus size: 20
5700 AGTTTTTGTT
5710 TTTCTCCCCCTTAATTAAAGAA
1 TTTCTCCCCCTTAA-TAAAG-A
* * *
5732 TTTCTTCTCTTTAA-AAA-A
1 TTTCTCCCCCTTAATAAAGA
5750 -TTCTCCCCCTTAATCAAAGCA
1 TTTCTCCCCCTTAAT-AAAG-A
5771 TTTCTCCCCCTT
1 TTTCTCCCCCTT
5783 TGTCAAATAA
Statistics
Matches: 40, Mismatches: 6, Indels: 10
0.71 0.11 0.18
Matches are distributed among these distances:
17 10 0.25
18 1 0.03
19 3 0.08
20 3 0.08
21 1 0.03
22 22 0.55
ACGTcount: A:0.26, C:0.32, G:0.03, T:0.40
Consensus pattern (20 bp):
TTTCTCCCCCTTAATAAAGA
Found at i:7636 original size:13 final size:13
Alignment explanation
Indices: 7618--7643 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
7608 AAATAGTACC
7618 CAATGTATCGATA
1 CAATGTATCGATA
7631 CAATGTATCGATA
1 CAATGTATCGATA
7644 TAATAAATGT
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):
CAATGTATCGATA
Found at i:13830 original size:33 final size:32
Alignment explanation
Indices: 13790--13858 Score: 95
Period size: 33 Copynumber: 2.1 Consensus size: 32
13780 CCGTTACAAG
13790 CAATGTATCAATACAATTCAT-CATGTATCGATA
1 CAATGTATCAATAC-ATT-ATACATGTATCGATA
*
13823 CAATGTATCGATACATTATACCATGTATCGATA
1 CAATGTATCAATACATTATA-CATGTATCGATA
13856 CAA
1 CAA
13859 ACAGTGGTAG
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
31 2 0.06
32 3 0.09
33 28 0.85
ACGTcount: A:0.39, C:0.19, G:0.10, T:0.32
Consensus pattern (32 bp):
CAATGTATCAATACATTATACATGTATCGATA
Found at i:13843 original size:20 final size:20
Alignment explanation
Indices: 13820--13857 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
13810 TCATGTATCG
13820 ATACAATGTATCGATACATT
1 ATACAATGTATCGATACATT
*
13840 ATACCATGTATCGATACA
1 ATACAATGTATCGATACA
13858 AACAGTGGTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.39, C:0.18, G:0.11, T:0.32
Consensus pattern (20 bp):
ATACAATGTATCGATACATT
Found at i:13856 original size:13 final size:13
Alignment explanation
Indices: 13812--13837 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
13802 ACAATTCATC
13812 ATGTATCGATACA
1 ATGTATCGATACA
13825 ATGTATCGATACA
1 ATGTATCGATACA
13838 TTATACCATG
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:14286 original size:20 final size:20
Alignment explanation
Indices: 14257--14294 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
14247 GTAAAAAAAC
* *
14257 AAAATGTATCGATACATTGA
1 AAAATATATCAATACATTGA
14277 AAAATATATCAATACATT
1 AAAATATATCAATACATT
14295 TGGGTAAAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.50, C:0.11, G:0.08, T:0.32
Consensus pattern (20 bp):
AAAATATATCAATACATTGA
Found at i:14738 original size:10 final size:10
Alignment explanation
Indices: 14723--14748 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
14713 CTTCTCTTTT
14723 TTTTTTTGTA
1 TTTTTTTGTA
14733 TTTTTTTGTA
1 TTTTTTTGTA
14743 TTTTTT
1 TTTTTT
14749 CGAATAAGTC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.08, C:0.00, G:0.08, T:0.85
Consensus pattern (10 bp):
TTTTTTTGTA
Found at i:19118 original size:21 final size:21
Alignment explanation
Indices: 19094--19139 Score: 74
Period size: 21 Copynumber: 2.2 Consensus size: 21
19084 AGACTTTATT
19094 AAATGAATTTATTGGATAATA
1 AAATGAATTTATTGGATAATA
**
19115 AAATTTATTTATTGGATAATA
1 AAATGAATTTATTGGATAATA
19136 AAAT
1 AAAT
19140 CTATCACATT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.11, T:0.41
Consensus pattern (21 bp):
AAATGAATTTATTGGATAATA
Found at i:22548 original size:79 final size:77
Alignment explanation
Indices: 22460--23293 Score: 560
Period size: 79 Copynumber: 10.6 Consensus size: 77
22450 CACAAATGGG
*
22460 GGTTTTATTTTCAAAACACTGATTTTTCATAATCGGGGATACTCCAACCTCATTATTTTCGAAGG
1 GGTTTTATTTTCAAAACACTGATTTTTCATAATCGGGGATACTCCAACCTCGTTATTTTCG-AGG
*
22525 GATACTCTAACCTC
65 GATACTCCAACC-C
* * * * * * **
22539 AGTTTTATTTGT-AAAATACCGATTTTTTATAATTGGGGATACTCCAACCCCGTTATTTTTTAGG
1 GGTTTTATTT-TCAAAACACTGATTTTTCATAATCGGGGATACTCCAACCTCGTTATTTTCGAGG
*
22603 AGATACTCCAACGCT
65 -GATACTCCAAC-CC
* * * * * * *
22618 GGCTTT-GTTTCTAAAATA-TCAATTTTCTAGAATCGGAGATACTCCAACC-CTGTTATTTTCGA
1 GGTTTTATTTTC-AAAACACTGATTTTTC-ATAATCGGGGATACTCCAACCTC-GTTATTTTCGA
*
22680 GGAGATACTCTAACCC
63 GG-GATACTCCAACCC
* ** * ** * ** * *
22696 AGTTTTATTTTTGAAATACCAATTTTCCACCATCAGGGATACTCTAACC-CTGTTATTTTCGAGA
1 GGTTTTATTTTCAAAACACTGATTTTTCATAATCGGGGATACTCCAACCTC-GTTATTTTCGAG-
** *
22760 AAATACTCCAACTTC
64 GGATACTCCAAC-CC
* * * *
22775 GGTTTTATTTTTAAAACA-TCAATTTTTTCACAATC-GGGATACTCCAACCTCGTTATTTTTGAG
1 GGTTTTATTTTCAAAACACT-GA-TTTTTCATAATCGGGGATACTCCAACCTCGTTATTTTCGA-
*
22838 GGGATATTCCAACCC
63 GGGATACTCCAACCC
* *
22853 GGTTTTA-TTTCTAAAACACTGA-TTTTC-TACCATTGAGGATACTCCAACCTCGTTA-TTTCTG
1 GGTTTTATTTTC-AAAACACTGATTTTTCATA--ATCGGGGATACTCCAACCTCGTTATTTTC-G
22914 AGGAGATACTCCAACCCC
62 AGG-GATACTCCAA-CCC
* * * * * *
22932 GATTCTATTTTCAAAACA-TCAATTTTTTCACAATCGGGGATACTCCAACCCCATTA-TTTCAGA
1 GGTTTTATTTTCAAAACACT-GA-TTTTTCATAATCGGGGATACTCCAACCTCGTTATTTTC-GA
*
22995 GGGGATACTCTAACCCC
63 -GGGATACTCCAA-CCC
* * *
23012 GATTTTA-TTTCTAAAACACTGATTTTTCATCATCGGGGATACTCCAACCCCGTTATTTTCGAGA
1 GGTTTTATTTTC-AAAACACTGATTTTTCATAATCGGGGATACTCCAACCTCGTTATTTTCGAG-
*
23076 GAATACTCCAACCTC
64 GGATACTCCAACC-C
* * *
23091 GATTTTA-TTTCTAAAACA-TCGA-TTTTC-TACCTCGGGGATACTCCGACC-CTGTTA-TTTCT
1 GGTTTTATTTTC-AAAACACT-GATTTTTCATA-ATCGGGGATACTCCAACCTC-GTTATTTTC-
23150 GAGCGGATACTCCAACCC
61 GAG-GGATACTCCAACCC
* * * *
23168 TGGTTTTCA-TTTCTAAAACA-TCGATTTTCCATAATCGGTGATAATCCAACCTCATTATTTTCG
1 -GGTTTT-ATTTTC-AAAACACT-GATTTTTCATAATCGGGGATACTCCAACCTCGTTATTTTCG
* *
23231 AGAAGATACTCTAACCCC
62 AG-GGATACTCCAA-CCC
* * * * *
23249 AGTTTTATTTCCAAAACACTGATTTTTCACAATCAGAGATACTCC
1 GGTTTTATTTTCAAAACACTGATTTTTCATAATCGGGGATACTCC
23294 GACCCTTTTT
Statistics
Matches: 607, Mismatches: 101, Indels: 94
0.76 0.13 0.12
Matches are distributed among these distances:
75 1 0.00
76 5 0.01
77 18 0.03
78 155 0.26
79 293 0.48
80 116 0.19
81 18 0.03
82 1 0.00
ACGTcount: A:0.28, C:0.23, G:0.13, T:0.35
Consensus pattern (77 bp):
GGTTTTATTTTCAAAACACTGATTTTTCATAATCGGGGATACTCCAACCTCGTTATTTTCGAGGG
ATACTCCAACCC
Found at i:22768 original size:157 final size:158
Alignment explanation
Indices: 22460--23299 Score: 758
Period size: 157 Copynumber: 5.3 Consensus size: 158
22450 CACAAATGGG
* * *
22460 GGTTTTATTT-TCAAAACA-CTGATTTT-TCATAATCGGGGATACTCCAA-CCTCATTATTTTCG
1 GGTTTTATTTCT-AAAACATC-AATTTTCTCACAATCGGGGATACTCCAACCCT-GTTATTTTCG
* * * ** ** *
22521 AAGGGATACTCTAACCTCAGTTTTATTTGTAAAATACCGATTTTTTATAATTGGGGATACTCCAA
63 AGGGGATACTCTAACC-CAGTTTTATTTCTAAAACACCGATTTTCCACCATCGGGGATACTCCAA
** * *
22586 CCCCGTTATTTTTTAGGAGATACTCCAACGCT-
127 CCCCGTTATTTTCGAGAAAATACTCCAAC-CTC
* * * * *
22618 GGCTTTGTTTCTAAAATATCAATTTTCT-AGAATCGGAGATACTCCAACCCTGTTATTTTCGAGG
1 GGTTTTATTTCTAAAACATCAATTTTCTCACAATCGGGGATACTCCAACCCTGTTATTTTCGAGG
* * * * * * * *
22682 AGATACTCTAACCCAGTTTTATTTTTGAAATACCAATTTTCCACCATCAGGGATACTCTAACCCT
66 GGATACTCTAACCCAGTTTTATTTCTAAAACACCGATTTTCCACCATCGGGGATACTCCAACCCC
*
22747 GTTATTTTCGAGAAAATACTCCAACTTC
131 GTTATTTTCGAGAAAATACTCCAACCTC
* * *
22775 GGTTTTATTTTTAAAACATCAATTTTTTCACAATC-GGGATACTCCAA-CCTCGTTATTTTTGAG
1 GGTTTTATTTCTAAAACATCAATTTTCTCACAATCGGGGATACTCCAACCCT-GTTATTTTCGAG
* * * * * * * *
22838 GGGATATTCCAACCCGGTTTTATTTCTAAAACACTGATTTTCTACCATTGAGGATACTCCAACCT
65 GGGATACTCTAACCCAGTTTTATTTCTAAAACACCGATTTTCCACCATCGGGGATACTCCAACCC
* * *
22903 CGTTA-TTTCTGAGGAGATACTCCAACCCC
130 CGTTATTTTC-GAGAAAATACTCCAACCTC
* * * **
22932 GATTCTATTT-TCAAAACATCAATTTTTTCACAATCGGGGATACTCCAACCCCATTA-TTTCAGA
1 GGTTTTATTTCT-AAAACATCAATTTTCTCACAATCGGGGATACTCCAACCCTGTTATTTTC-GA
* * * *
22995 GGGGATACTCTAACCCCGATTTTATTTCTAAAACACTGATTTTTCATCATCGGGGATACTCCAAC
64 GGGGATACTCTAACCCAG-TTTTATTTCTAAAACACCGATTTTCCACCATCGGGGATACTCCAAC
*
23060 CCCGTTATTTTCGAGAGAATACTCCAACCTC
128 CCCGTTATTTTCGAGAAAATACTCCAACCTC
* * * *
23091 GATTTTATTTCTAAAACATCGATTTTCT-AC-CTCGGGGATACTCCGACCCTGTTA-TTTCTGAG
1 GGTTTTATTTCTAAAACATCAATTTTCTCACAATCGGGGATACTCCAACCCTGTTATTTTC-GAG
* * * * ** * *
23153 CGGATACTCCAACCCTGGTTTTCATTTCTAAAACATCGATTTTCCATAATCGGTGATAATCCAAC
65 GGGATACTCTAACCC-AGTTTT-ATTTCTAAAACACCGATTTTCCACCATCGGGGATACTCCAAC
* * * * *
23218 CTCATTATTTTCGAGAAGATACTCTAACCCC
128 CCCGTTATTTTCGAGAAAATACTCCAACCTC
* * * * * *
23249 AGTTTTATTTCCAAAACA-CTGATTTT-TCACAATCAGAGATACTCCGACCCT
1 GGTTTTATTTCTAAAACATC-AATTTTCTCACAATCGGGGATACTCCAACCCT
23300 TTTTTGTCAC
Statistics
Matches: 562, Mismatches: 100, Indels: 39
0.80 0.14 0.06
Matches are distributed among these distances:
156 9 0.02
157 256 0.46
158 182 0.32
159 110 0.20
160 5 0.01
ACGTcount: A:0.28, C:0.23, G:0.13, T:0.35
Consensus pattern (158 bp):
GGTTTTATTTCTAAAACATCAATTTTCTCACAATCGGGGATACTCCAACCCTGTTATTTTCGAGG
GGATACTCTAACCCAGTTTTATTTCTAAAACACCGATTTTCCACCATCGGGGATACTCCAACCCC
GTTATTTTCGAGAAAATACTCCAACCTC
Found at i:23292 original size:237 final size:233
Alignment explanation
Indices: 22460--23298 Score: 833
Period size: 237 Copynumber: 3.6 Consensus size: 233
22450 CACAAATGGG
* * *
22460 GGTTTTATTTTCAAAACA-CTGATTTTTCATAATCGGGGATACTCCAACCTCATTATTTTCGA-A
1 GGTTTTATTTTCAAAACATC-AATTTTCCACAATCGGGGATACTCCAACCTCATTATTTTCGAGA
* * * * * * * *
22523 GGGATACTCTAACCTCAGTTTTATTTGTAAAATACCGATTTTTTATAATTGGGGATACTCCAACC
65 -AGATACTCTAACCCCAGTTTTATTTCTAAAACACTGATTTTTCACAATCGGGGATACTCCAACC
* * * * * **
22588 CCGTTATTTTTTAGGAGATACTCCAACGCT-GGCTTTGTTTCTAAAATATCAATTTTCTAGAATC
129 CCGTTATTTTTGAGGA-ATACTCCAAC-CTCGGTTTTATTTCTAAAACATCGATTTTCTA-CCTC
* *
22652 GGAGATACTCCAACCCTGTTATTT-TCGAGGAGATACTCTAACCC
191 GGGGATACTCC-ACCCTGTTATTTCT-GAGGAGATACTCCAACCC
* ** * * * * * *
22696 AGTTTTATTTTTGAAATACCAATTTTCCACCATCAGGGATACTCTAACC-CTGTTATTTTCGAGA
1 GGTTTTATTTTCAAAACATCAATTTTCCACAATCGGGGATACTCCAACCTC-ATTATTTTCGAGA
* * ** * * *
22760 AAATACTCCAACTTCGGTTTTATTTTTAAAACA-TCAATTTTTTCACAATC-GGGATACTCCAAC
65 AGATACTCTAACCCCAGTTTTATTTCTAAAACACT-GA-TTTTTCACAATCGGGGATACTCCAAC
* * *
22823 CTCGTTATTTTTGAGGGGATATTCCAACC-CGGTTTTATTTCTAAAACA-CTGATTTTCTACCAT
128 CCCGTTATTTTTGA-GGAATACTCCAACCTCGGTTTTATTTCTAAAACATC-GATTTTCTACC-T
* * *
22886 TGAGGATACTCCAACCTCGTTATTTCTGAGGAGATACTCCAACCCC
190 CGGGGATACTCCACCCT-GTTATTTCTGAGGAGATACTCCAA-CCC
* * * *
22932 GATTCTATTTTCAAAACATCAATTTTTTCACAATCGGGGATACTCCAACCCCATTA-TTTCAGAG
1 GGTTTTATTTTCAAAACATCAA-TTTTCCACAATCGGGGATACTCCAACCTCATTATTTTC-GAG
**
22996 GGGATACTCTAACCCC-GATTTTATTTCTAAAACACTGATTTTTCATC-ATCGGGGATACTCCAA
64 AAGATACTCTAACCCCAG-TTTTATTTCTAAAACACTGATTTTTCA-CAATCGGGGATACTCCAA
* *
23059 CCCCGTTATTTTCGAGAGAATACTCCAACCTCGATTTTATTTCTAAAACATCGATTTTCTACCTC
127 CCCCGTTATTTTTGAG-GAATACTCCAACCTCGGTTTTATTTCTAAAACATCGATTTTCTACCTC
23124 GGGGATACTCCGACCCTGTTATTTCTGAGCG-GATACTCCAACCC
191 GGGGATACTCC-ACCCTGTTATTTCTGAG-GAGATACTCCAACCC
* * * *
23168 TGGTTTTCA-TTTCTAAAACATCGATTTTCCATAATCGGTGATAATCCAACCTCATTATTTTCGA
1 -GGTTTT-ATTTTC-AAAACATCAATTTTCCACAATCGGGGATACTCCAACCTCATTATTTTCGA
* * * *
23232 GAAGATACTCTAACCCCAGTTTTATTTCCAAAACACTGATTTTTCACAATCAGAGATACTCCGAC
63 GAAGATACTCTAACCCCAGTTTTATTTCTAAAACACTGATTTTTCACAATCGGGGATACTCCAAC
23297 CC
128 CC
23299 TTTTTTGTCA
Statistics
Matches: 493, Mismatches: 80, Indels: 59
0.78 0.13 0.09
Matches are distributed among these distances:
234 5 0.01
235 56 0.11
236 147 0.30
237 233 0.47
238 51 0.10
239 1 0.00
ACGTcount: A:0.28, C:0.23, G:0.13, T:0.35
Consensus pattern (233 bp):
GGTTTTATTTTCAAAACATCAATTTTCCACAATCGGGGATACTCCAACCTCATTATTTTCGAGAA
GATACTCTAACCCCAGTTTTATTTCTAAAACACTGATTTTTCACAATCGGGGATACTCCAACCCC
GTTATTTTTGAGGAATACTCCAACCTCGGTTTTATTTCTAAAACATCGATTTTCTACCTCGGGGA
TACTCCACCCTGTTATTTCTGAGGAGATACTCCAACCC
Found at i:24604 original size:2 final size:2
Alignment explanation
Indices: 24597--24624 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
24587 ATGACTAGTT
24597 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
24625 GAGAGAGAGA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:24629 original size:2 final size:2
Alignment explanation
Indices: 24624--24745 Score: 244
Period size: 2 Copynumber: 61.0 Consensus size: 2
24614 ATATATATAT
24624 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
24666 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
24708 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
24746 GGCTAGGTAA
Statistics
Matches: 120, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 120 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:24988 original size:13 final size:12
Alignment explanation
Indices: 24961--25003 Score: 50
Period size: 13 Copynumber: 3.3 Consensus size: 12
24951 CTTCAAAACT
*
24961 TTTTATAAATAAA
1 TTTTAAAAAT-AA
24974 TTTTACAAAATAA
1 TTTTA-AAAATAA
24987 TTATTAAAAATAA
1 TT-TTAAAAATAA
25000 TTTT
1 TTTT
25004 TTATTTTTTA
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
12 2 0.07
13 18 0.67
14 7 0.26
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (12 bp):
TTTTAAAAATAA
Found at i:25024 original size:22 final size:23
Alignment explanation
Indices: 24992--25035 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 23
24982 AATAATTATT
24992 AAAAATAATTTTTT-ATTTTTTA
1 AAAAATAATTTTTTAATTTTTTA
*
25014 AAAAATTATTTTTTAATTTTTT
1 AAAAATAATTTTTTAATTTTTT
25036 TAAATTTAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
22 13 0.65
23 7 0.35
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (23 bp):
AAAAATAATTTTTTAATTTTTTA
Found at i:29268 original size:21 final size:19
Alignment explanation
Indices: 29239--29286 Score: 53
Period size: 19 Copynumber: 2.5 Consensus size: 19
29229 CTTAACAATT
29239 TATTT-TATATAAATTTAATA
1 TATTTATATATAAATTT--TA
**
29259 TATTTATATATTCATTTTA
1 TATTTATATATAAATTTTA
29278 TATTTATAT
1 TATTTATAT
29287 TTTTTTTATT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 11 0.44
20 5 0.20
21 9 0.36
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (19 bp):
TATTTATATATAAATTTTA
Found at i:30318 original size:15 final size:16
Alignment explanation
Indices: 30300--30337 Score: 53
Period size: 15 Copynumber: 2.5 Consensus size: 16
30290 TAAAAATTTT
30300 TAAAATA-AAAAAATA
1 TAAAATATAAAAAATA
*
30315 TAAAA-ATAAAAAATT
1 TAAAATATAAAAAATA
30330 TAAAATAT
1 TAAAATAT
30338 TAATGTATCA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
14 1 0.05
15 17 0.85
16 2 0.10
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (16 bp):
TAAAATATAAAAAATA
Found at i:30994 original size:16 final size:15
Alignment explanation
Indices: 30973--31015 Score: 59
Period size: 16 Copynumber: 2.7 Consensus size: 15
30963 TATGTTAAAA
30973 TTTTAATAAATATAAT
1 TTTTAA-AAATATAAT
*
30989 TTTTAAGAATATAATT
1 TTTTAAAAATATAA-T
31005 TTTTAAAAATA
1 TTTTAAAAATA
31016 AATATATATA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
15 7 0.29
16 17 0.71
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (15 bp):
TTTTAAAAATATAAT
Found at i:31229 original size:21 final size:22
Alignment explanation
Indices: 31191--31233 Score: 70
Period size: 21 Copynumber: 2.0 Consensus size: 22
31181 ATATGTCATT
*
31191 TAATTTATTTATTTTTAAATAA
1 TAATTAATTTATTTTTAAATAA
31213 TAATTAATTTA-TTTTAAATAA
1 TAATTAATTTATTTTTAAATAA
31234 AAATAATATA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
21 10 0.50
22 10 0.50
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (22 bp):
TAATTAATTTATTTTTAAATAA
Found at i:32288 original size:45 final size:44
Alignment explanation
Indices: 32208--32327 Score: 142
Period size: 44 Copynumber: 2.8 Consensus size: 44
32198 CATAGGTTAC
*
32208 TTTATTATTATTTTATGA--TT-TTATTTTTAAAAAAATTCAA-AT
1 TTTATT-TTATTTTATAATTTTATTATTTTTAAAAAAA-TCAATAT
* *
32250 ATTTATTTTATTTTGT-ATTTTATTATTTTCTCAAAAAATCAATAT
1 -TTTATTTTATTTTATAATTTTATTATTTT-TAAAAAAATCAATAT
32295 TTTATTTTATTTTATAATTTTATTATTTTTAAA
1 TTTATTTTATTTTATAATTTTATTATTTTTAAA
32328 TTTTATATTT
Statistics
Matches: 67, Mismatches: 4, Indels: 11
0.82 0.05 0.13
Matches are distributed among these distances:
41 1 0.01
42 8 0.12
43 8 0.12
44 28 0.42
45 22 0.33
ACGTcount: A:0.34, C:0.03, G:0.02, T:0.61
Consensus pattern (44 bp):
TTTATTTTATTTTATAATTTTATTATTTTTAAAAAAATCAATAT
Found at i:32342 original size:18 final size:17
Alignment explanation
Indices: 32293--32333 Score: 57
Period size: 18 Copynumber: 2.4 Consensus size: 17
32283 AAAAATCAAT
32293 ATTTTATTTTATTTTATA
1 ATTTTATTTT-TTTTATA
*
32311 ATTTTATTATTTTTA-A
1 ATTTTATTTTTTTTATA
32327 ATTTTAT
1 ATTTTAT
32334 ATTTGTTTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 8 0.36
17 5 0.23
18 9 0.41
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (17 bp):
ATTTTATTTTTTTTATA
Found at i:33003 original size:21 final size:21
Alignment explanation
Indices: 32979--33019 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
32969 TGTAATTGTA
32979 TTGATACAATTGCATAATGTG
1 TTGATACAATTGCATAATGTG
33000 TTGATACAATTGCATAATGT
1 TTGATACAATTGCATAATGT
33020 ATCAATACAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.34, C:0.10, G:0.17, T:0.39
Consensus pattern (21 bp):
TTGATACAATTGCATAATGTG
Found at i:33027 original size:21 final size:21
Alignment explanation
Indices: 32982--33048 Score: 75
Period size: 21 Copynumber: 3.2 Consensus size: 21
32972 AATTGTATTG
* **
32982 ATACAATTGCATAATGTGTTG
1 ATACAATTGCATAATGTATCA
33003 ATACAATTGCATAATGTATCA
1 ATACAATTGCATAATGTATCA
*
33024 ATACATTATGCAT--TGTATCA
1 ATACAAT-TGCATAATGTATCA
33044 ATACA
1 ATACA
33049 TCTTTGAGTT
Statistics
Matches: 41, Mismatches: 4, Indels: 3
0.85 0.08 0.06
Matches are distributed among these distances:
20 12 0.29
21 24 0.59
22 5 0.12
ACGTcount: A:0.39, C:0.13, G:0.12, T:0.36
Consensus pattern (21 bp):
ATACAATTGCATAATGTATCA
Found at i:36053 original size:52 final size:51
Alignment explanation
Indices: 35955--36105 Score: 149
Period size: 52 Copynumber: 2.9 Consensus size: 51
35945 ATGGTAAAGG
* * * * * * * * * *
35955 TGAGAAGAGTGCCAATGTGTTAACTCATGGTCAGTGGCATTAGACTTGAAGA
1 TGAGAAAAATGCCAATGTGCTAATTCAAGG-CAGCGACATTGGACTTAAAAA
36007 TGAGAAAAATGCCAATGTGCTAATTCAAGGCTAGCGACATTGGACTTAAAAA
1 TGAGAAAAATGCCAATGTGCTAATTCAAGGC-AGCGACATTGGACTTAAAAA
* * * * *
36059 TTAGAAGAATGCCAATGTGTTGATTCAAGGCAGCGACATTGGGCTTA
1 TGAGAAAAATGCCAATGTGCTAATTCAAGGCAGCGACATTGGACTTA
36106 GGAATATTAG
Statistics
Matches: 83, Mismatches: 15, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
51 16 0.19
52 67 0.81
ACGTcount: A:0.34, C:0.15, G:0.26, T:0.26
Consensus pattern (51 bp):
TGAGAAAAATGCCAATGTGCTAATTCAAGGCAGCGACATTGGACTTAAAAA
Found at i:36769 original size:57 final size:58
Alignment explanation
Indices: 36695--37136 Score: 270
Period size: 58 Copynumber: 7.7 Consensus size: 58
36685 AATACTAAAC
*
36695 AGTCC-CTCAATCATGGAAAATGACTT-AATGACCTTAAAATGCATGAAATTACATAAT
1 AGTCCTCTAAATCATGGAAAATGACTTAAATGACC-TAAAATGCATGAAATTACATAAT
* * *
36752 AG-CCTCTAAATCATGGAAAATGA--TAGAATGGCACTAAAATGCATGGAGTTACATAAT
1 AGTCCTCTAAATCATGGAAAATGACTTA-AATGAC-CTAAAATGCATGAAATTACATAAT
* * * ** * *
36809 GGTCC-CCAAATCATGGAAAAT-ACCTTAAATGAACTAAAAAACATGAAATTGCCTAAT
1 AGTCCTCTAAATCATGGAAAATGA-CTTAAATGACCTAAAATGCATGAAATTACATAAT
* * *
36866 AGTCCT-TGAATGCATGGAAAATGACTTAAATGACTTAAATGAACTAAAATGCATGAATTTGCAT
1 AGTCCTCTAAAT-CATGGAAAATGACTTAAATGAC---------CTAAAATGCATGAAATTACAT
36930 AAT
56 AAT
* *
36933 AGTCC-CTAAATAAATGGAAAA-GACTTTAAATGACCT--AAT---TG----CA-AT-AT
1 AGTCCTCTAAAT-CATGGAAAATGAC-TTAAATGACCTAAAATGCATGAAATTACATAAT
* * * *
36980 GGT-CTTTAAATCATGGAAAAT-ACCTTAAAT-TCACTAGAAATGCATGAAATTGCATAAT
1 AGTCCTCTAAATCATGGAAAATGA-CTTAAATGAC-CTA-AAATGCATGAAATTACATAAT
* * * * *
37038 AATCCT-TAAATGCATGGAAAATGACTTAAATAACCTAAACTGCATGAAGTTGCATAAT
1 AGTCCTCTAAAT-CATGGAAAATGACTTAAATGACCTAAAATGCATGAAATTACATAAT
* *
37096 AATCC-CTAAATGCATGGAAAATGCCTTAAATGACCTAAAAT
1 AGTCCTCTAAAT-CATGGAAAATGACTTAAATGACCTAAAAT
37137 TGCAATATGG
Statistics
Matches: 301, Mismatches: 41, Indels: 85
0.70 0.10 0.20
Matches are distributed among these distances:
45 1 0.00
46 18 0.06
47 10 0.03
48 2 0.01
49 3 0.01
52 2 0.01
53 2 0.01
55 1 0.00
56 6 0.02
57 88 0.29
58 92 0.31
59 25 0.08
60 2 0.01
66 3 0.01
67 46 0.15
ACGTcount: A:0.43, C:0.16, G:0.14, T:0.27
Consensus pattern (58 bp):
AGTCCTCTAAATCATGGAAAATGACTTAAATGACCTAAAATGCATGAAATTACATAAT
Found at i:36950 original size:67 final size:67
Alignment explanation
Indices: 36832--36966 Score: 182
Period size: 67 Copynumber: 2.0 Consensus size: 67
36822 TGGAAAATAC
* * * **
36832 CTTAAATGAACTAAAAAACATGAAATTGCCTAATAGTCCTTGAATGCATGGAAAATGAC-TTAAA
1 CTTAAATGAACTAAAAAACATGAAATTGCATAATAGTCCCTAAATAAATGGAAAA-GACTTTAAA
36896 TGA
65 TGA
** *
36899 CTTAAATGAACTAAAATGCATGAATTTGCATAATAGTCCCTAAATAAATGGAAAAGACTTTAAAT
1 CTTAAATGAACTAAAAAACATGAAATTGCATAATAGTCCCTAAATAAATGGAAAAGACTTTAAAT
36964 GA
66 GA
36966 C
1 C
36967 CTAATTGCAA
Statistics
Matches: 59, Mismatches: 8, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
66 3 0.05
67 56 0.95
ACGTcount: A:0.45, C:0.13, G:0.14, T:0.27
Consensus pattern (67 bp):
CTTAAATGAACTAAAAAACATGAAATTGCATAATAGTCCCTAAATAAATGGAAAAGACTTTAAAT
GA
Found at i:37049 original size:28 final size:27
Alignment explanation
Indices: 37017--37111 Score: 102
Period size: 29 Copynumber: 3.3 Consensus size: 27
37007 AATTCACTAG
37017 AAATGCATGAAATTGCATAATAATCCTT
1 AAATGCATGAAATTGCATAATAATCC-T
* *
37045 AAATGCATGGAAAATGACTTAAATAA-CCT
1 AAATGCAT-GAAATTG-CAT-AATAATCCT
*
37074 AAACTGCATGAAGTTGCATAATAATCCCT
1 AAA-TGCATGAAATTGCATAATAAT-CCT
37103 AAATGCATG
1 AAATGCATG
37112 GAAAATGCCT
Statistics
Matches: 56, Mismatches: 5, Indels: 12
0.77 0.07 0.16
Matches are distributed among these distances:
27 5 0.09
28 16 0.29
29 21 0.38
30 9 0.16
31 5 0.09
ACGTcount: A:0.43, C:0.16, G:0.14, T:0.27
Consensus pattern (27 bp):
AAATGCATGAAATTGCATAATAATCCT
Found at i:37104 original size:163 final size:168
Alignment explanation
Indices: 36807--37165 Score: 453
Period size: 163 Copynumber: 2.1 Consensus size: 168
36797 GAGTTACATA
* * *
36807 ATGGTCCCCAAATCATGGAAAATACCTTAAATGAACTAAAAAACATGAAATTGCCTAATAGTCCT
1 ATGGTCCCTAAATCATGGAAAATACCTTAAATGAACTAAAAAACATGAAATTGCATAATAATCCT
* * *
36872 TGAATGCATGGAAAATGACTTAAATGACTTAAATGAACTAAAATGCATGAATTTGCATAATAGTC
66 TAAATGCATGGAAAATGACTTAAA-GAC-T-AA-GAACTAAAATGCATGAAGTTGCATAATAATC
*
36937 CCTAAATAAATGGAAAA-GACTTTAAATGACCT-AATTGCAAT
127 CCTAAATAAATGGAAAATG-CCTTAAATGACCTAAATTGCAAT
** ** **
36978 ATGGTCTTTAAATCATGGAAAATACCTTAAATTCACTAGAAATGCATGAAATTGCATAATAATCC
1 ATGGTCCCTAAATCATGGAAAATACCTTAAATGAACTA-AAAAACATGAAATTGCATAATAATCC
* *
37043 TTAAATGCATGGAAAATGACTT-AA-A-T-A-ACCTAAACTGCATGAAGTTGCATAATAATCCCT
65 TTAAATGCATGGAAAATGACTTAAAGACTAAGAACTAAAATGCATGAAGTTGCATAATAATCCCT
**
37103 AAATGCATGGAAAATGCCTTAAATGACCTAAAATTGCAAT
130 AAATAAATGGAAAATGCCTTAAATGACCT-AAATTGCAAT
37143 ATGGTCCCTAAATCATGGAAAAT
1 ATGGTCCCTAAATCATGGAAAAT
37166 GGCTAATATG
Statistics
Matches: 165, Mismatches: 19, Indels: 14
0.83 0.10 0.07
Matches are distributed among these distances:
163 53 0.32
164 1 0.01
165 31 0.19
167 1 0.01
169 1 0.01
171 35 0.21
172 43 0.26
ACGTcount: A:0.43, C:0.16, G:0.14, T:0.28
Consensus pattern (168 bp):
ATGGTCCCTAAATCATGGAAAATACCTTAAATGAACTAAAAAACATGAAATTGCATAATAATCCT
TAAATGCATGGAAAATGACTTAAAGACTAAGAACTAAAATGCATGAAGTTGCATAATAATCCCTA
AATAAATGGAAAATGCCTTAAATGACCTAAATTGCAAT
Found at i:37132 original size:29 final size:28
Alignment explanation
Indices: 36986--37134 Score: 90
Period size: 29 Copynumber: 5.1 Consensus size: 28
36976 ATATGGTCTT
* *
36986 TAAAT-CATGGAAAATACCTTAAATTCAC
1 TAAATGCATGGAAAATGCCTTAAATAC-C
* * *
37014 TAGAAATGCAT-GAAATTGCATAATAAT-CC
1 T--AAATGCATGGAAAATGCCTTA-AATACC
*
37043 TTAAATGCATGGAAAATGACTTAAATAACC
1 -TAAATGCATGGAAAATGCCTTAAAT-ACC
** * * *
37073 TAAACTGCAT-GAAGTTGCATAATAATCCC
1 TAAA-TGCATGGAAAATGCCTTA-AATACC
37102 TAAATGCATGGAAAATGCCTTAAATGACC
1 TAAATGCATGGAAAATGCCTTAAAT-ACC
37131 TAAA
1 TAAA
37135 ATTGCAATAT
Statistics
Matches: 90, Mismatches: 19, Indels: 23
0.68 0.14 0.17
Matches are distributed among these distances:
28 20 0.22
29 40 0.44
30 24 0.27
31 6 0.07
ACGTcount: A:0.44, C:0.16, G:0.13, T:0.27
Consensus pattern (28 bp):
TAAATGCATGGAAAATGCCTTAAATACC
Found at i:38012 original size:15 final size:15
Alignment explanation
Indices: 37994--38024 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
37984 TTCTTTTTAC
*
37994 TCTTTTGTCTTGCTT
1 TCTTTTATCTTGCTT
38009 TCTTTTATCTTGCTT
1 TCTTTTATCTTGCTT
38024 T
1 T
38025 TGGTTTTTTA
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:0.03, C:0.19, G:0.10, T:0.68
Consensus pattern (15 bp):
TCTTTTATCTTGCTT
Found at i:39909 original size:58 final size:57
Alignment explanation
Indices: 39847--39958 Score: 136
Period size: 58 Copynumber: 1.9 Consensus size: 57
39837 ATTTCTTGCA
* *
39847 TTTTAAAGACATTTTAG-TCATTTTCAATTATTTAGGGTTTTTTATGCAATTTCATATT
1 TTTTAAAGACATTTTAGTTCATTTTC-ATGATTTAGGG-ATTTTATGCAATTTCATATT
* * ** *
39905 TTTTAAGGATATTTTAGTTTTTTTTCATGATTTAGGGATTTTATGTAATTTCAT
1 TTTTAAAGACATTTTAGTTCATTTTCATGATTTAGGGATTTTATGCAATTTCAT
39959 GTACTTTGAG
Statistics
Matches: 46, Mismatches: 7, Indels: 3
0.82 0.12 0.05
Matches are distributed among these distances:
57 15 0.33
58 25 0.54
59 6 0.13
ACGTcount: A:0.26, C:0.06, G:0.12, T:0.55
Consensus pattern (57 bp):
TTTTAAAGACATTTTAGTTCATTTTCATGATTTAGGGATTTTATGCAATTTCATATT
Found at i:39943 original size:29 final size:29
Alignment explanation
Indices: 39906--40007 Score: 77
Period size: 30 Copynumber: 3.5 Consensus size: 29
39896 TTTCATATTT
*
39906 TTTAAGGATATTTTAGTTTTTTTTCATGA
1 TTTAGGGATATTTTAGTTTTTTTTCATGA
* **
39935 TTTAGGG--ATTTTA-TGTAATTTCATGTA
1 TTTAGGGATATTTTAGTTTTTTTTCATG-A
* * *
39962 CTTT-GAGGTTATTTAAGTTATTTTTCATGA
1 -TTTAG-GGATATTTTAGTTTTTTTTCATGA
39992 TTTAGGGACTATTTTA
1 TTTAGGGA-TATTTTA
40008 TAATTTCATA
Statistics
Matches: 54, Mismatches: 11, Indels: 15
0.68 0.14 0.19
Matches are distributed among these distances:
26 9 0.17
27 8 0.15
28 5 0.09
29 11 0.20
30 13 0.24
31 8 0.15
ACGTcount: A:0.25, C:0.05, G:0.17, T:0.54
Consensus pattern (29 bp):
TTTAGGGATATTTTAGTTTTTTTTCATGA
Found at i:39975 original size:57 final size:57
Alignment explanation
Indices: 39867--40057 Score: 213
Period size: 58 Copynumber: 3.3 Consensus size: 57
39857 ATTTTAGTCA
* * * * * * *
39867 TTTTCAATTATTTAGGGTTTTTTATGCAATTTCATATTTTTTAAGGATATTTTAGTTTT
1 TTTTC-ATGATTTAGGG-ATTTTATGTAATTTCATATATTTTAAGGTTATTTAAGTTAT
* * *
39926 TTTTCATGATTTAGGGATTTTATGTAATTTCATGTACTTTGAGGTTATTTAAGTTAT
1 TTTTCATGATTTAGGGATTTTATGTAATTTCATATATTTTAAGGTTATTTAAGTTAT
* *
39983 TTTTCATGATTTAGGGACTATTT-TATAATTTCATACATTTTAAGGTTATTTAAGTTAT
1 TTTTCATGATTTAGGGA-T-TTTATGTAATTTCATATATTTTAAGGTTATTTAAGTTAT
* *
40041 TTTCCTTGATTTAGGGA
1 TTTTCATGATTTAGGGA
40058 CCATTTTATA
Statistics
Matches: 113, Mismatches: 17, Indels: 5
0.84 0.13 0.04
Matches are distributed among these distances:
57 49 0.43
58 56 0.50
59 8 0.07
ACGTcount: A:0.25, C:0.06, G:0.15, T:0.54
Consensus pattern (57 bp):
TTTTCATGATTTAGGGATTTTATGTAATTTCATATATTTTAAGGTTATTTAAGTTAT
Found at i:40029 original size:58 final size:58
Alignment explanation
Indices: 39894--40070 Score: 223
Period size: 58 Copynumber: 3.1 Consensus size: 58
39884 TTTTTTATGC
* * * * *
39894 AATTTCATATTTTTTAAGGATATTTTAGTTTTTTTTCATGATTTAGGGA-T-TTTATGT
1 AATTTCATATATTTTAAGGTTATTTAAGTTATTTTTCATGATTTAGGGACTATTT-TAT
* * *
39951 AATTTCATGTACTTTGAGGTTATTTAAGTTATTTTTCATGATTTAGGGACTATTTTAT
1 AATTTCATATATTTTAAGGTTATTTAAGTTATTTTTCATGATTTAGGGACTATTTTAT
* * * *
40009 AATTTCATACATTTTAAGGTTATTTAAGTTATTTTCCTTGATTTAGGGACCATTTTAT
1 AATTTCATATATTTTAAGGTTATTTAAGTTATTTTTCATGATTTAGGGACTATTTTAT
40067 AATT
1 AATT
40071 CCTTTGCATT
Statistics
Matches: 103, Mismatches: 15, Indels: 3
0.85 0.12 0.02
Matches are distributed among these distances:
57 42 0.41
58 58 0.56
59 3 0.03
ACGTcount: A:0.27, C:0.07, G:0.14, T:0.53
Consensus pattern (58 bp):
AATTTCATATATTTTAAGGTTATTTAAGTTATTTTTCATGATTTAGGGACTATTTTAT
Found at i:46666 original size:28 final size:29
Alignment explanation
Indices: 46635--46697 Score: 74
Period size: 29 Copynumber: 2.2 Consensus size: 29
46625 TGCCACAGAT
*
46635 TTGTGGGCCT-GAAAAGGGTGCCACTAAC
1 TTGTGGGCCTAGAAAAGGATGCCACTAAC
* * * *
46663 TTGTGGGCTTAGGAGAGGATGCCATTAAC
1 TTGTGGGCCTAGAAAAGGATGCCACTAAC
46692 TTGTGG
1 TTGTGG
46698 ACTTTTGAAA
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
28 9 0.31
29 20 0.69
ACGTcount: A:0.22, C:0.16, G:0.35, T:0.27
Consensus pattern (29 bp):
TTGTGGGCCTAGAAAAGGATGCCACTAAC
Found at i:46897 original size:29 final size:28
Alignment explanation
Indices: 46829--46915 Score: 122
Period size: 29 Copynumber: 3.0 Consensus size: 28
46819 GCTTTCAAGA
46829 GGTGCCACTAACTCATGGGCTTT-AAAAG
1 GGTGCCACTAACT-ATGGGCTTTGAAAAG
*
46857 GGTGCCATTAACGTATGGGCTTTGAAAAG
1 GGTGCCACTAAC-TATGGGCTTTGAAAAG
*
46886 GGTGCCACTAACTTGTGGGCTTTGAAAAG
1 GGTGCCACTAAC-TATGGGCTTTGAAAAG
46915 G
1 G
46916 TTACCGCCAA
Statistics
Matches: 53, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
28 20 0.38
29 33 0.62
ACGTcount: A:0.26, C:0.17, G:0.30, T:0.26
Consensus pattern (28 bp):
GGTGCCACTAACTATGGGCTTTGAAAAG
Found at i:46927 original size:29 final size:29
Alignment explanation
Indices: 46844--47053 Score: 93
Period size: 31 Copynumber: 6.8 Consensus size: 29
46834 CACTAACTCA
* ** * *
46844 TGGGCTTT-AAAAGGGTGCCATTAACGTA
1 TGGGCTTTGAAAAGGGTACCACCAACTTG
* *
46872 TGGGCTTTGAAAAGGGTGCCACTAACTTG
1 TGGGCTTTGAAAAGGGTACCACCAACTTG
* *
46901 TGGGCTTTGAAAAGGTTACCGCCAACTCATG
1 TGGGCTTTGAAAAGGGTACCACCAACT--TG
* *
46932 TGGACTTT-AACTAA-GGTGCCACCAACTTATG
1 TGGGCTTTGAA--AAGGGTACCACCAAC-T-TG
* ** *
46963 TGGACTTTGACTAGGGTGCCACCAACTTG
1 TGGGCTTTGAAAAGGGTACCACCAACTTG
* *
46992 TGTAGACTTTGAAAAGGTTTGATTGCCACCAACTTG
1 TG--GGCTTTGAAAAGG---G--TACCACCAACTTG
* *
47028 TGTGGACTTTGAATAGGGTGCCACCA
1 TG-GG-CTTTGAAAAGGGTACCACCA
47054 GCTCATATGG
Statistics
Matches: 148, Mismatches: 18, Indels: 29
0.76 0.09 0.15
Matches are distributed among these distances:
28 8 0.05
29 44 0.30
30 4 0.03
31 60 0.41
32 4 0.03
33 1 0.01
34 1 0.01
35 1 0.01
36 25 0.17
ACGTcount: A:0.26, C:0.20, G:0.26, T:0.29
Consensus pattern (29 bp):
TGGGCTTTGAAAAGGGTACCACCAACTTG
Found at i:46957 original size:31 final size:31
Alignment explanation
Indices: 46922--47098 Score: 128
Period size: 31 Copynumber: 5.5 Consensus size: 31
46912 AAGGTTACCG
46922 CCAACTCATGTGGACTTTAACTAAGGTGCCA
1 CCAACTCATGTGGACTTTAACTAAGGTGCCA
* * *
46953 CCAACTTATGTGGACTTTGACTAGGGTGCCA
1 CCAACTCATGTGGACTTTAACTAAGGTGCCA
** *
46984 CCAACTTGTGTAGACTTTGAA--AAGGTTTGATTGCCA
1 CCAACTCATGTGGACTTT-AACTAA-G---G--TGCCA
** *
47020 CCAACTTGTGTGGACTTTGAA-TAGGGTGCCA
1 CCAACTCATGTGGACTTT-AACTAAGGTGCCA
* *
47051 CCAGCTCATATGGACTTTAACTATA-GTGCCA
1 CCAACTCATGTGGACTTTAACTA-AGGTGCCA
**
47082 TTAACTCATGTGGACTT
1 CCAACTCATGTGGACTT
47099 CAAAAAGGTT
Statistics
Matches: 118, Mismatches: 18, Indels: 20
0.76 0.12 0.13
Matches are distributed among these distances:
30 3 0.03
31 85 0.72
32 1 0.01
33 1 0.01
34 1 0.01
36 26 0.22
37 1 0.01
ACGTcount: A:0.26, C:0.21, G:0.22, T:0.31
Consensus pattern (31 bp):
CCAACTCATGTGGACTTTAACTAAGGTGCCA
Found at i:47098 original size:98 final size:98
Alignment explanation
Indices: 46930--47108 Score: 216
Period size: 98 Copynumber: 1.8 Consensus size: 98
46920 CGCCAACTCA
* * * * **
46930 TGTGGACTTTAACTAAGGTGCCACCAACTTATGTGGACTTTGACTAGGGTGCCACCAACTTGTGT
1 TGTGGACTTTAACTAAGGTGCCACCAACTCATATGGACTTTAACTAGAGTGCCACCAACTCATGT
**
46995 AGACTTTGAAAAGGTTTGATTGCCACCAACTTG
66 AGACTTCAAAAAGGTTTGATTGCCACCAACTTG
* * * **
47028 TGTGGACTTTGAA-TAGGGTGCCACCAGCTCATATGGACTTTAACTATAGTGCCATTAACTCATG
1 TGTGGACTTT-AACTAAGGTGCCACCAACTCATATGGACTTTAACTAGAGTGCCACCAACTCATG
*
47092 TGGACTTCAAAAAGGTT
65 TAGACTTCAAAAAGGTT
47109 GCTACCAGCT
Statistics
Matches: 66, Mismatches: 14, Indels: 2
0.80 0.17 0.02
Matches are distributed among these distances:
98 64 0.97
99 2 0.03
ACGTcount: A:0.27, C:0.20, G:0.23, T:0.31
Consensus pattern (98 bp):
TGTGGACTTTAACTAAGGTGCCACCAACTCATATGGACTTTAACTAGAGTGCCACCAACTCATGT
AGACTTCAAAAAGGTTTGATTGCCACCAACTTG
Found at i:47131 original size:129 final size:127
Alignment explanation
Indices: 46888--47131 Score: 276
Period size: 129 Copynumber: 1.9 Consensus size: 127
46878 TTGAAAAGGG
* * * *
46888 TGCCACTAACTTGTGGGCTTTGAAAAGGTTACCGCCAACTCATGTGGACTTTAACTAAGGTGCCA
1 TGCCACCAACTTGTGGGCTTTGAAAAGGGTACCACCAACTCATATGGACTTTAACTAAGGTGCCA
* ** ** *
46953 CCAACTTATGTGGACTTTGACTAGGGTGCCACCAACTTGTGTAGACTTTGAAAAGGTTTGAT
66 CCAACTCATGTGGACTTCAAAAAGGGTGCCACCAACTCGTGTAGACTTTGAAAAGGTTTGAT
* * *
47015 TGCCACCAACTTGTGTGGACTTTGAATAGGGTGCCACCAGCTCATATGGACTTTAACTATA-GTG
1 TGCCACCAACTTGTG-GG-CTTTGAAAAGGGTACCACCAACTCATATGGACTTTAACTA-AGGTG
** * * *
47079 CCATTAACTCATGTGGACTTCAAAAAGGTTGCTACCAGCTCGTGT-GAGCTTTG
63 CCACCAACTCATGTGGACTTCAAAAAGGGTGCCACCAACTCGTGTAGA-CTTTG
47132 GTATCCAACT
Statistics
Matches: 95, Mismatches: 18, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
127 14 0.15
128 4 0.04
129 76 0.80
130 1 0.01
ACGTcount: A:0.25, C:0.21, G:0.23, T:0.30
Consensus pattern (127 bp):
TGCCACCAACTTGTGGGCTTTGAAAAGGGTACCACCAACTCATATGGACTTTAACTAAGGTGCCA
CCAACTCATGTGGACTTCAAAAAGGGTGCCACCAACTCGTGTAGACTTTGAAAAGGTTTGAT
Found at i:47474 original size:29 final size:29
Alignment explanation
Indices: 47432--47496 Score: 94
Period size: 29 Copynumber: 2.2 Consensus size: 29
47422 CTCATGGATT
* *
47432 GACTTGTGGGCTTTGAAAAGGGTGCCACC
1 GACTTGTAGGCTTTAAAAAGGGTGCCACC
*
47461 GACTTGTAGGCTTTAAAAAGGTTGCCACC
1 GACTTGTAGGCTTTAAAAAGGGTGCCACC
*
47490 AACTTGT
1 GACTTGT
47497 GTGGACTTCG
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 32 1.00
ACGTcount: A:0.25, C:0.20, G:0.28, T:0.28
Consensus pattern (29 bp):
GACTTGTAGGCTTTAAAAAGGGTGCCACC
Found at i:47521 original size:31 final size:31
Alignment explanation
Indices: 47433--48123 Score: 331
Period size: 31 Copynumber: 21.6 Consensus size: 31
47423 TCATGGATTG
* * *
47433 ACTTGTG-GG-CTTTGAAAAGGGTGCCACCG
1 ACTTGTGTGGACTTTGAAATGGTTGCCACCA
* * *
47462 ACTTGT-AGG-CTTTAAAAAGGTTGCCACCA
1 ACTTGTGTGGACTTTGAAATGGTTGCCACCA
* *
47491 ACTTGTGTGGACTTCGAAATGGTTGTCACCA
1 ACTTGTGTGGACTTTGAAATGGTTGCCACCA
* *
47522 ACTTGTGT-GACTTT-AACTAGGGTGCCACCA
1 ACTTGTGTGGACTTTGAAAT-GGTTGCCACCA
*
47552 A-TTCGTGTGGACTTTGAAAAGGATTGGTTGCCATCA
1 ACTT-GTGTGGACTTTG--AA--A-TGGTTGCCACCA
* *
47588 ACTTGTGTGGACTTTG-ACTGGTGTGCCATCA
1 ACTTGTGTGGACTTTGAAATGGT-TGCCACCA
* * * *
47619 ACTCGTGTGGACTTTAAAAAGGTTTGGCTAAGACCA
1 ACTTGTGTGGACTTTGAAATGG-TT-GC---CACCA
* *
47655 ACTTATGTGGACTTTG-AATGGGGTGCCACCA
1 ACTTGTGTGGACTTTGAAAT-GGTTGCCACCA
*
47686 ACTCGTGTGGACTTT-AACTATGG-TGCCACCA
1 ACTTGTGTGGACTTTGAA--ATGGTTGCCACCA
** *
47717 ACTCATGTGGACTTTGCAAA-GGTTACCACCA
1 ACTTGTGTGGACTTTG-AAATGGTTGCCACCA
** * *
47748 ACTTGTGTGGACTTTGATTTGGGTGCCATCA
1 ACTTGTGTGGACTTTGAAATGGTTGCCACCA
* * *
47779 ACTCGTGTGGACTTTGAAAAGGATTGTGCCATCA
1 ACTTGTGTGGACTTTGAAATGG--T-TGCCACCA
* ** *
47813 ACTCGTGTGGACTTTG-GCTGGGATGCCACCA
1 ACTTGTGTGGACTTTGAAAT-GGTTGCCACCA
* ***
47844 ACTTGTGTAGACTTTGAAAAGGTTTGGTTGCCATTG
1 ACTTGTGTGGACTTTG-AAA----TGGTTGCCACCA
* * **
47880 ACTTGTGTGGACTTTG-ACTAGGGTGCCAATA
1 ACTTGTGTGGACTTTGAAAT-GGTTGCCACCA
* * *
47911 ACTTGTGTGGACTTTGAAAAGGTTTGGTTTCTATCA
1 ACTTGTGTGGACTTTG-AAA----TGGTTGCCACCA
* * * *
47947 ACTTGTGTGGACTTT-AAAGGGGGTGTCACTA
1 ACTTGTGTGGACTTTGAAA-TGGTTGCCACCA
* * *
47978 A-TTCATGTGGACTTT-AACTATGG-TGCCATCG
1 ACTT-GTGTGGACTTTGAA--ATGGTTGCCACCA
* *
48009 ACTTGTGTGGACTTTGAAAAGGTAGCCACCA
1 ACTTGTGTGGACTTTGAAATGGTTGCCACCA
* *
48040 ACTTGTGTGGACTTTG-ACTAGGGTGCCACCA
1 ACTTGTGTGGACTTTGAAAT-GGTTGCCACCA
* * * * *
48071 ACTTATGTAGACTTTGAAAAGGATTGTGCAACCG
1 ACTTGTGTGGACTTTGAAATGG--T-TGCCACCA
*
48105 ACTTGTGTGAACTTTGAAA
1 ACTTGTGTGGACTTTGAAA
48124 AAGGTTTGGT
Statistics
Matches: 505, Mismatches: 101, Indels: 107
0.71 0.14 0.15
Matches are distributed among these distances:
29 36 0.07
30 35 0.07
31 264 0.52
32 13 0.03
33 10 0.02
34 56 0.11
35 3 0.01
36 83 0.16
37 5 0.01
ACGTcount: A:0.24, C:0.18, G:0.26, T:0.31
Consensus pattern (31 bp):
ACTTGTGTGGACTTTGAAATGGTTGCCACCA
Found at i:47625 original size:67 final size:65
Alignment explanation
Indices: 47483--47861 Score: 268
Period size: 67 Copynumber: 5.9 Consensus size: 65
47473 TTAAAAAGGT
* * *
47483 TGCCACCAACTTGTGTGGACTTCGAA--A-TGGTTGTCACCAACTTGTGT-GACTTT-AACTAGG
1 TGCCACCAACTCGTGTGGACTTTGAAGGATTGGTTGCCACCAACTTGTGTGGACTTTGAA-T-GG
47543 -G
64 TG
* * *
47544 TGCCACCAATTCGTGTGGACTTTGAAAAGGATTGGTTGCCATCAACTTGTGTGGACTTTGACTGG
1 TGCCACCAACTCGTGTGGACTTTG--AAGGATTGGTTGCCACCAACTTGTGTGGACTTTGAATGG
47609 TG
64 TG
* * * * *** *
47611 TGCCATCAACTCGTGTGGACTTTAAAAAGGTTTGGCTAAGACCAACTTATGTGGACTTTGAATGG
1 TGCCACCAACTCGTGTGGACTTT--GAAGGATTGGTTGCCACCAACTTGTGTGGACTTTGAATGG
*
47676 GG
64 TG
** ** *
47678 TGCCACCAACTCGTGTGGACTTT-AACTA-TGG-TGCCACCAACTCATGTGGACTTTGCAAAGGT
1 TGCCACCAACTCGTGTGGACTTTGAAGGATTGGTTGCCACCAACTTGTGTGGACTTTG-AATGGT
47740 -
65 G
* * * * * * *
47740 TACCACCAACTTGTGTGGACTTTG-A--TTTGGGTGCCATCAACTCGTGTGGACTTTGAAAAGGA
1 TGCCACCAACTCGTGTGGACTTTGAAGGATTGGTTGCCACCAACTTGTGTGGACTTTG-AATGG-
47802 TTG
64 -TG
* * * * *
47805 TGCCATCAACTCGTGTGGACTTT---GGCTGGGATGCCACCAACTTGTGTAGACTTTGAA
1 TGCCACCAACTCGTGTGGACTTTGAAGGATTGGTTGCCACCAACTTGTGTGGACTTTGAA
47862 AAGGTTTGGT
Statistics
Matches: 256, Mismatches: 43, Indels: 35
0.77 0.13 0.10
Matches are distributed among these distances:
61 24 0.09
62 69 0.27
63 9 0.04
64 5 0.02
65 45 0.18
66 20 0.08
67 83 0.32
68 1 0.00
ACGTcount: A:0.23, C:0.20, G:0.26, T:0.31
Consensus pattern (65 bp):
TGCCACCAACTCGTGTGGACTTTGAAGGATTGGTTGCCACCAACTTGTGTGGACTTTGAATGGTG
Found at i:47844 original size:127 final size:129
Alignment explanation
Indices: 47676--48056 Score: 317
Period size: 132 Copynumber: 2.9 Consensus size: 129
47666 CTTTGAATGG
* * * *
47676 GGTGCCACCAACTCGTGTGGACTTTAACTATGGTGCCACCAACTCATGTGGACTTTGCAAA-GGT
1 GGTGCCATCAACTCGTGTGGACTTTAACTAGGGTGCCACCAACTCATGTAGACTTTGAAAATGGT
* *
47740 TACCACCAACTTGTGTGGACTTTGATTTGGGTGCC-ATCAACTCGTGTGGACTTTGAAAAGGATT
66 TACCACCAACTTGTGTGGACTTTGACTAGGGTGCCAAT-AACTCGTGTGGACTTTGAAAAGGATT
** **
47804 -GTGCCATCAACTCGTGTGGACTTTGGCT-GGGATGCCACCAACTTGTGTAGACTTTGAAAAGGT
1 GGTGCCATCAACTCGTGTGGACTTTAACTAGGG-TGCCACCAACTCATGTAGACTTTGAAAA---
* *** *
47867 TTGGTTGCCATTGACTTGTGTGGACTTTGACTAGGGTGCCAATAACTTGTGTGGACTTTGAAAAG
62 -TGGTTACCACCAACTTGTGTGGACTTTGACTAGGGTGCCAATAACTCGTGTGGACTTTGAAAAG
*
47932 GTTT
126 GATT
* * * *** * * * * *
47936 GGTTTCTATCAACTTGTGTGGACTTTAAAGGGGGTGTCACTAATTCATGTGGACTTT-AACTATG
1 GG-TGCCATCAACTCGTGTGGACTTTAACTAGGGTGCCACCAACTCATGTAGACTTTGAA-AATG
* * * * * ** *
48000 G-TGCCATCGACTTGTGTGGACTTTGA-AAAGGTAGCCACCAACTTGTGTGGACTTTGA
64 GTTACCACCAACTTGTGTGGACTTTGACTAGGGT-GCCAATAACTCGTGTGGACTTTGA
48057 CTAGGGTGCC
Statistics
Matches: 206, Mismatches: 35, Indels: 23
0.78 0.13 0.09
Matches are distributed among these distances:
126 2 0.01
127 49 0.24
128 4 0.02
129 46 0.22
130 3 0.01
132 56 0.27
133 5 0.02
134 38 0.18
135 3 0.01
ACGTcount: A:0.23, C:0.18, G:0.27, T:0.32
Consensus pattern (129 bp):
GGTGCCATCAACTCGTGTGGACTTTAACTAGGGTGCCACCAACTCATGTAGACTTTGAAAATGGT
TACCACCAACTTGTGTGGACTTTGACTAGGGTGCCAATAACTCGTGTGGACTTTGAAAAGGATT
Found at i:47907 original size:67 final size:66
Alignment explanation
Indices: 47678--47961 Score: 276
Period size: 67 Copynumber: 4.3 Consensus size: 66
47668 TTGAATGGGG
* * * * * ** *
47678 TGCCACCAACTCGTGTGGACTTTAACTATGGTGCCACCAACTCATGTGGACTTTGCAAA-----G
1 TGCCATCAACTTGTGTGGACTTTGACT-GGGTGCCAACAACTTGTGTGGACTTTGAAAAGGTTTG
47738 GT
65 GT
* * * * * *
47740 TACCACCAACTTGTGTGGACTTTGATTTGGGTGCCATCAACTCGTGTGGACTTTGAAAAGGATT-
1 TGCCATCAACTTGTGTGGACTTTGA-CTGGGTGCCAACAACTTGTGTGGACTTTGAAAAGGTTTG
47804 G-
65 GT
* * * *
47805 TGCCATCAACTCGTGTGGACTTTGGCTGGGATGCCACCAACTTGTGTAGACTTTGAAAAGGTTTG
1 TGCCATCAACTTGTGTGGACTTTGACTGGG-TGCCAACAACTTGTGTGGACTTTGAAAAGGTTTG
47870 GT
65 GT
** *
47872 TGCCATTGACTTGTGTGGACTTTGACTAGGGTGCCAATAACTTGTGTGGACTTTGAAAAGGTTTG
1 TGCCATCAACTTGTGTGGACTTTGACT-GGGTGCCAACAACTTGTGTGGACTTTGAAAAGGTTTG
47937 GT
65 GT
* *
47939 TTCTATCAACTTGTGTGGACTTT
1 TGCCATCAACTTGTGTGGACTTT
47962 AAAGGGGGTG
Statistics
Matches: 184, Mismatches: 28, Indels: 15
0.81 0.12 0.07
Matches are distributed among these distances:
62 49 0.27
63 1 0.01
64 4 0.02
65 50 0.27
66 2 0.01
67 75 0.41
68 3 0.02
ACGTcount: A:0.22, C:0.19, G:0.26, T:0.33
Consensus pattern (66 bp):
TGCCATCAACTTGTGTGGACTTTGACTGGGTGCCAACAACTTGTGTGGACTTTGAAAAGGTTTGG
T
Found at i:48086 original size:292 final size:291
Alignment explanation
Indices: 47432--48119 Score: 817
Period size: 292 Copynumber: 2.4 Consensus size: 291
47422 CTCATGGATT
* * * * *
47432 GACTTGTG-GG-CTTTGAAAAGGGT-GCCACCGACTTGT-AGG-CTTTAAAAAGGTTGCCACCAA
1 GACTTGTGTGGACTTTGAAAA-GGTAGCCACCAACTTGTGTGGACTTTGAATAGGGTGCCACCAA
* * *
47492 CTTGTGTGGACTTCGAAATGG-TTGT--CACCAACTTGTGTGACTTTAACTAGGGTGCCACCAAT
65 CTTGTGTGGACTTTGAAAAGGATTGTGCCACCAACTCGTGTGACTTTAACTAGGGTGCCACCAAT
*
47554 TCGTGTGGACTTTGAAAAGGATTGGTTGCCATCAACTTGTGTGGACTTTGACTGGTGTGCCATCA
130 TCGTGTAGACTTTGAAAAGGATTGGTTGCCATCAACTTGTGTGGACTTTGACTGGTGTGCCATCA
* *
47619 ACTCGTGTGGACTTTAAAAAGGTTTGGCTAAGACCAACTTATGTGGACTTTGAATGGGGTGCCAC
195 ACTCGTGTGGACTTTAAAAAGGTTTGGCTAAGACCAACTTATGTGGACTTTAAAGGGGGTGCCAC
*
47684 CAACTCGTGTGGACTTTAACTATGGTGCCACC
260 CAACTCATGTGGACTTTAACTATGGTGCCACC
* ** * * * *
47716 AACTCATGTGGACTTTGCAAAGGTTA-CCACCAACTTGTGTGGACTTTGATTTGGGTGCCATCAA
1 GACTTGTGTGGACTTTGAAAAGG-TAGCCACCAACTTGTGTGGACTTTGAATAGGGTGCCACCAA
* * **
47780 CTCGTGTGGACTTTGAAAAGGATTGTGCCATCAACTCGTGTGGACTTTGGCT-GGGATGCCACCA
65 CTTGTGTGGACTTTGAAAAGGATTGTGCCACCAACTCGTGT-GACTTTAACTAGGG-TGCCACCA
* **
47844 ACTT-GTGTAGACTTTGAAAAGGTTTGGTTGCCATTGACTTGTGTGGACTTTGACTAGG-GTGCC
128 A-TTCGTGTAGACTTTGAAAAGGATTGGTTGCCATCAACTTGTGTGGACTTTGACT-GGTGTGCC
* * * *** * *
47907 AAT-AACTTGTGTGGACTTTGAAAAGGTTTGGTTTCTATCAACTTGTGTGGACTTTAAAGGGGGT
191 -ATCAACTCGTGTGGACTTTAAAAAGGTTTGGCTAAGACCAACTTATGTGGACTTTAAAGGGGGT
* * * *
47971 GTCACTAATTCATGTGGACTTTAACTATGGTGCCATC
255 GCCACCAACTCATGTGGACTTTAACTATGGTGCCACC
*
48008 GACTTGTGTGGACTTTGAAAAGGTAGCCACCAACTTGTGTGGACTTTGACTAGGGTGCCACCAAC
1 GACTTGTGTGGACTTTGAAAAGGTAGCCACCAACTTGTGTGGACTTTGAATAGGGTGCCACCAAC
* * * * *
48073 TTATGTAGACTTTGAAAAGGATTGTGCAACCGACTTGTGTGAACTTT
66 TTGTGTGGACTTTGAAAAGGATTGTGCCACCAACTCGTGTG-ACTTT
48120 GAAAAAGGTT
Statistics
Matches: 336, Mismatches: 52, Indels: 24
0.82 0.13 0.06
Matches are distributed among these distances:
284 5 0.01
285 4 0.01
286 20 0.06
287 2 0.01
288 33 0.10
289 4 0.01
291 17 0.05
292 245 0.73
293 6 0.02
ACGTcount: A:0.24, C:0.18, G:0.27, T:0.32
Consensus pattern (291 bp):
GACTTGTGTGGACTTTGAAAAGGTAGCCACCAACTTGTGTGGACTTTGAATAGGGTGCCACCAAC
TTGTGTGGACTTTGAAAAGGATTGTGCCACCAACTCGTGTGACTTTAACTAGGGTGCCACCAATT
CGTGTAGACTTTGAAAAGGATTGGTTGCCATCAACTTGTGTGGACTTTGACTGGTGTGCCATCAA
CTCGTGTGGACTTTAAAAAGGTTTGGCTAAGACCAACTTATGTGGACTTTAAAGGGGGTGCCACC
AACTCATGTGGACTTTAACTATGGTGCCACC
Found at i:52841 original size:30 final size:31
Alignment explanation
Indices: 52793--52851 Score: 79
Period size: 30 Copynumber: 1.9 Consensus size: 31
52783 TGAGTTTATA
52793 ATGAGATGACAGTGGATATGGGAT-CATGACG
1 ATGAGATGACAGTGGATAT-GGATGCATGACG
52824 ATGA-ATGACTAGT-GATATGGATGCATGA
1 ATGAGATGAC-AGTGGATATGGATGCATGA
52852 TCAAGACAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
29 4 0.15
30 15 0.58
31 7 0.27
ACGTcount: A:0.34, C:0.08, G:0.32, T:0.25
Consensus pattern (31 bp):
ATGAGATGACAGTGGATATGGATGCATGACG
Found at i:55886 original size:21 final size:22
Alignment explanation
Indices: 55860--55901 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
55850 AAGTTCATTA
55860 AAATTTTAGGAAAAAT-ATTTG
1 AAATTTTAGGAAAAATCATTTG
**
55881 AAATTTTTTGAAAAATCATTT
1 AAATTTTAGGAAAAATCATTT
55902 AGTGGGCCTA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 14 0.78
22 4 0.22
ACGTcount: A:0.45, C:0.02, G:0.10, T:0.43
Consensus pattern (22 bp):
AAATTTTAGGAAAAATCATTTG
Found at i:57495 original size:21 final size:23
Alignment explanation
Indices: 57452--57495 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
57442 AAGTTAAGTA
* *
57452 CAAATGTGTTTTAAGCTATAAAT
1 CAAATGTGTTTCAAGCTAAAAAT
57475 CAAATGT-TTTCAAG-TAAAAAT
1 CAAATGTGTTTCAAGCTAAAAAT
57496 AATCCAAAGT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 6 0.32
22 6 0.32
23 7 0.37
ACGTcount: A:0.43, C:0.09, G:0.11, T:0.36
Consensus pattern (23 bp):
CAAATGTGTTTCAAGCTAAAAAT
Found at i:57618 original size:20 final size:18
Alignment explanation
Indices: 57594--57679 Score: 74
Period size: 20 Copynumber: 4.8 Consensus size: 18
57584 CACACCCAGA
57594 TGTATCGATACATATTGCT
1 TGTATCGATACATATT-CT
57613 TAGTATCGAT--ATA---T
1 T-GTATCGATACATATTCT
*
57627 TGTATCGATACATGTTCT
1 TGTATCGATACATATTCT
*
57645 TAGTATCGATACATACTTAAT
1 T-GTATCGATACATA-TT-CT
57666 TGTATCGATACATA
1 TGTATCGATACATA
57680 AAGCTGGCAG
Statistics
Matches: 55, Mismatches: 3, Indels: 17
0.73 0.04 0.23
Matches are distributed among these distances:
13 8 0.15
14 2 0.04
15 2 0.04
18 5 0.09
19 13 0.24
20 23 0.42
21 2 0.04
ACGTcount: A:0.31, C:0.14, G:0.14, T:0.41
Consensus pattern (18 bp):
TGTATCGATACATATTCT
Found at i:57652 original size:32 final size:33
Alignment explanation
Indices: 57594--57655 Score: 108
Period size: 33 Copynumber: 1.9 Consensus size: 33
57584 CACACCCAGA
57594 TGTATCGATACATATTGCTTAGTATCGATATAT
1 TGTATCGATACATATTGCTTAGTATCGATATAT
*
57627 TGTATCGATACATGTT-CTTAGTATCGATA
1 TGTATCGATACATATTGCTTAGTATCGATA
57656 CATACTTAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
32 13 0.46
33 15 0.54
ACGTcount: A:0.29, C:0.13, G:0.16, T:0.42
Consensus pattern (33 bp):
TGTATCGATACATATTGCTTAGTATCGATATAT
Found at i:57798 original size:20 final size:20
Alignment explanation
Indices: 57769--57825 Score: 98
Period size: 20 Copynumber: 2.9 Consensus size: 20
57759 TTCAAATGCA
57769 TGTATCGATACATTATGAAT
1 TGTATCGATACATTATGAAT
*
57789 TGTATTGATACATTATGAAT
1 TGTATCGATACATTATGAAT
57809 TGTATCGATACA-TATGA
1 TGTATCGATACATTATGA
57826 GTGTGTTGGT
Statistics
Matches: 35, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
19 5 0.14
20 30 0.86
ACGTcount: A:0.35, C:0.09, G:0.16, T:0.40
Consensus pattern (20 bp):
TGTATCGATACATTATGAAT
Found at i:58778 original size:12 final size:13
Alignment explanation
Indices: 58747--58779 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
58737 GAGAAAATGA
58747 AGCAAGAAACAAT
1 AGCAAGAAACAAT
*
58760 GGCAAGAAA-AAT
1 AGCAAGAAACAAT
58772 AGCAAGAA
1 AGCAAGAA
58780 GGAAGCAAAC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
12 10 0.56
13 8 0.44
ACGTcount: A:0.61, C:0.12, G:0.21, T:0.06
Consensus pattern (13 bp):
AGCAAGAAACAAT
Found at i:59170 original size:26 final size:23
Alignment explanation
Indices: 59140--59192 Score: 79
Period size: 26 Copynumber: 2.2 Consensus size: 23
59130 AATAAGCATG
59140 AGAAAAGAAAAAAAGAGATGGGAGAA
1 AGAAAAGAAAAAAA-AGAT-GGA-AA
59166 AGAAAAGAAAAAAAAGATGGAAA
1 AGAAAAGAAAAAAAAGATGGAAA
59189 AGAA
1 AGAA
59193 GCAATATTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
23 6 0.22
24 3 0.11
25 4 0.15
26 14 0.52
ACGTcount: A:0.70, C:0.00, G:0.26, T:0.04
Consensus pattern (23 bp):
AGAAAAGAAAAAAAAGATGGAAA
Found at i:59354 original size:16 final size:18
Alignment explanation
Indices: 59317--59352 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
59307 TGACAAGAAG
59317 AAGAGAAAATAGAAAAAA
1 AAGAGAAAATAGAAAAAA
59335 AAGAGAAAA-AGTAAAAAA
1 AAGAGAAAATAG-AAAAAA
59353 GATGAAAGTA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 2 0.12
18 15 0.88
ACGTcount: A:0.78, C:0.00, G:0.17, T:0.06
Consensus pattern (18 bp):
AAGAGAAAATAGAAAAAA
Found at i:59418 original size:173 final size:174
Alignment explanation
Indices: 59208--59602 Score: 569
Period size: 173 Copynumber: 2.3 Consensus size: 174
59198 ATTTTGTAGC
* * * * *
59208 TTCAGCTACTATTTTTAGAACTCTAGTAGCAGCAACTACTAGTTTTGGTTATGGTGCTGGAAATC
1 TTCAGCTGCTATTTTTGGAACTCCAGCAGCAGCAACTACTGGTTTTGGTTATGGTGCTGGAAATC
* * * *
59273 AGTAAAGAAAGCTCCCCAAATCAGCAAAGAAGCATGACAAGAAGAAGAGAAAATAGAAAAAAAAG
66 AGTAAAGAAAGCTCCCCAAATCAGCAAAAAAGCATGACAAGAAAAAGAAAAAAGAGAAAAAAAAG
* *
59338 AGAAAAAGTAAAAAAGATGAAAGTATAAGCAATATTCGACAG-T
131 AGAAAAAGTAAAAAAGATGAAAGTAAAAACAATATTCGACAGCT
* * * *
59381 TTCAGCTGCTGTTTTTGGAACTCCAGCAGTAGCAACTACTGGTTTTGGTTATGGTGTTGGAAATT
1 TTCAGCTGCTATTTTTGGAACTCCAGCAGCAGCAACTACTGGTTTTGGTTATGGTGCTGGAAATC
* ** * *
59446 AGTAAAGAATGCTCCCCAAATCAGCAAAAAAGCATGATGAGAAAAAGAAAAAAGAGGAAGAAAAG
66 AGTAAAGAAAGCTCCCCAAATCAGCAAAAAAGCATGACAAGAAAAAGAAAAAAGAGAAAAAAAAG
* *
59511 AGAAAAAGTAAAAAGGATGAAAGTAAAAACAATATTCGGCAGCT
131 AGAAAAAGTAAAAAAGATGAAAGTAAAAACAATATTCGACAGCT
*
59555 TT-AGCTGCTATTTTTGGAACTCCAACAGCAGCAACTACTGGTTTTGGT
1 TTCAGCTGCTATTTTTGGAACTCCAGCAGCAGCAACTACTGGTTTTGGT
59603 GCTGGAAACC
Statistics
Matches: 196, Mismatches: 25, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
173 193 0.98
174 3 0.02
ACGTcount: A:0.42, C:0.14, G:0.21, T:0.23
Consensus pattern (174 bp):
TTCAGCTGCTATTTTTGGAACTCCAGCAGCAGCAACTACTGGTTTTGGTTATGGTGCTGGAAATC
AGTAAAGAAAGCTCCCCAAATCAGCAAAAAAGCATGACAAGAAAAAGAAAAAAGAGAAAAAAAAG
AGAAAAAGTAAAAAAGATGAAAGTAAAAACAATATTCGACAGCT
Found at i:61838 original size:151 final size:151
Alignment explanation
Indices: 61320--62034 Score: 588
Period size: 155 Copynumber: 4.7 Consensus size: 151
61310 TATGTTGAAG
* * * * * * **
61320 GTATCCCCTATGGGCATTTTCATAATTTTTCAAAATCGAGTCCTAGGTTACCACTAGGTCCGCTT
1 GTATCCTCTAAGGGCATTTTCATAATTTTTCAAAACCGAGTCTTAGGTTATCTC-AGGTCTACTT
* * * * *
61385 TTATGGC-AGAGGTAGGTATTTAGGATAGGTTCATCCCTTTTA-CCTTGTTAAGTCTTTTAAAGG
65 TTATGCCGA-AGGTAGATATTTAGGATAGGTTCATCCCTTTTATCCTT-TTAAGTCCTCTAAGGG
61448 TACCGAGATACTTTCACGTC-AAA
128 TACCGAGATACTTTCACGTCGAAA
* *
61471 TGTATCCTCTAAGGGCATTTTCATGATTTTTCATAACCGAGTCTTAGGTTATAAC-CAGGTCTAC
1 -GTATCCTCTAAGGGCATTTTCATAATTTTTCAAAACCGAGTCTTAGGTTAT--CTCAGGTCTAC
* *
61535 TTTTATCCCGAAGGTAGGTATTTAGGATAGGTTCATCCCTTTTATAATCCTTTTTAAGTCCTCTA
63 TTTTATGCCGAAGGTAGATATTTAGGATAGGTTCATCCC-TTT-T-ATCC-TTTTAAGTCCTCTA
* * *
61600 AGGATACCGAGATACTTTCACATTGAAA
124 AGGGTACCGAGATACTTTCACGTCGAAA
* * *
61628 GTATCC-CTATGGGCATTTTCATAATTTTTCAAAATCGAGTCCTAGGTTATCATCAGGTCTACTT
1 GTATCCTCTAAGGGCATTTTCATAATTTTTCAAAACCGAGTCTTAGGTTATC-TCAGGTCTACTT
* * *
61692 TTATGCCGAAGGTCGATATTTAGGATAGGTTCAT-CCTTTTATCATTTCTAAGTCGTCTAAGGGT
65 TTATGCCGAAGGTAGATATTTAGGATAGGTTCATCCCTTTTATCCTTT-TAAGTCCTCTAAGGGT
* * *
61756 ATCG-GGTAC-TTCTACGTCGAAG
129 ACCGAGATACTTTC-ACGTCGAAA
* * * * * * * *
61778 GTATCCTCTAAAGGCATTTTCGTAATTTTCCAAAACCAACTCTTAAGTTATCTCTGGGTCTGCTT
1 GTATCCTCTAAGGGCATTTTCATAATTTTTCAAAACCGAGTCTTAGGTTATCTC-AGGTCTACTT
** * ** * * *
61843 TTATGCAAAAGGTAGATATTTAGGATAGGTTCATCATCTCCTAGCCCTTTTTAAGT-CTTTCAGG
65 TTATGCCGAAGGTAGATATTTAGGATAGGTTCATC-CCTTTTA-TCC-TTTTAAGTCCTCT-AAG
* * *
61907 GGTATC-AGATACTTTTACGTCGAAG
126 GGTACCGAGATACTTTCACGTCGAAA
* * ** * * * * * * * **
61932 GTATCCCCTAGGGGCATTTTGGTAA-TATTCTAGAACCGAGTCCTAGGTTGTCACCGAGTTTTTT
1 GTATCCTCTAAGGGCATTTTCATAATTTTTC-AAAACCGAGTCTTAGGTTATC-TC-AGGTCTAC
* * *
61996 TTTTATGCCTAAGGTGGGTATTTAGGATAGGTTCATCCC
63 TTTTATGCCGAAGGTAGATATTTAGGATAGGTTCATCCC
62035 ATCTAAATCC
Statistics
Matches: 458, Mismatches: 81, Indels: 46
0.78 0.14 0.08
Matches are distributed among these distances:
149 3 0.01
150 21 0.05
151 95 0.21
152 86 0.19
153 18 0.04
154 68 0.15
155 124 0.27
156 38 0.08
157 5 0.01
ACGTcount: A:0.25, C:0.19, G:0.19, T:0.37
Consensus pattern (151 bp):
GTATCCTCTAAGGGCATTTTCATAATTTTTCAAAACCGAGTCTTAGGTTATCTCAGGTCTACTTT
TATGCCGAAGGTAGATATTTAGGATAGGTTCATCCCTTTTATCCTTTTAAGTCCTCTAAGGGTAC
CGAGATACTTTCACGTCGAAA
Found at i:62903 original size:21 final size:21
Alignment explanation
Indices: 62874--62932 Score: 66
Period size: 21 Copynumber: 2.8 Consensus size: 21
62864 TTTCAATATC
* *
62874 AATAA-TGTTTTAAAGTTTTA
1 AATAAGTGTTTTCAAGTCTTA
* *
62894 TATAAGTGTTTTCAAGCCTTA
1 AATAAGTGTTTTCAAGTCTTA
62915 AATCAAGTGTTTTCAAGT
1 AAT-AAGTGTTTTCAAGT
62933 AAAAATAATC
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
20 4 0.13
21 14 0.45
22 13 0.42
ACGTcount: A:0.34, C:0.08, G:0.14, T:0.44
Consensus pattern (21 bp):
AATAAGTGTTTTCAAGTCTTA
Found at i:75132 original size:27 final size:27
Alignment explanation
Indices: 75094--75145 Score: 104
Period size: 27 Copynumber: 1.9 Consensus size: 27
75084 TAATCTAGCT
75094 AGGTACACATAGGGGAACACTTCTTAC
1 AGGTACACATAGGGGAACACTTCTTAC
75121 AGGTACACATAGGGGAACACTTCTT
1 AGGTACACATAGGGGAACACTTCTT
75146 TCTCTTTTTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.33, C:0.21, G:0.23, T:0.23
Consensus pattern (27 bp):
AGGTACACATAGGGGAACACTTCTTAC
Found at i:76902 original size:7 final size:7
Alignment explanation
Indices: 76890--76933 Score: 52
Period size: 7 Copynumber: 6.0 Consensus size: 7
76880 AAAAGTGTAG
76890 AAAAAGA
1 AAAAAGA
76897 AAAAAGAA
1 AAAAAG-A
76905 AAAAAGAA
1 AAAAAG-A
76913 AAAAAGA
1 AAAAAGA
*
76920 AAAATGA
1 AAAAAGA
*
76927 AAGAAGA
1 AAAAAGA
76934 TAAGAAAATA
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
7 18 0.55
8 15 0.45
ACGTcount: A:0.82, C:0.00, G:0.16, T:0.02
Consensus pattern (7 bp):
AAAAAGA
Found at i:76907 original size:8 final size:8
Alignment explanation
Indices: 76890--76923 Score: 61
Period size: 8 Copynumber: 4.4 Consensus size: 8
76880 AAAAGTGTAG
76890 AAAAAG-A
1 AAAAAGAA
76897 AAAAAGAA
1 AAAAAGAA
76905 AAAAAGAA
1 AAAAAGAA
76913 AAAAAGAA
1 AAAAAGAA
76921 AAA
1 AAA
76924 TGAAAGAAGA
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
7 6 0.23
8 20 0.77
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (8 bp):
AAAAAGAA
Found at i:76928 original size:15 final size:15
Alignment explanation
Indices: 76830--76915 Score: 52
Period size: 15 Copynumber: 5.5 Consensus size: 15
76820 TCCTCTAAAT
76830 AAGAAAAAT-AAAAA
1 AAGAAAAATGAAAAA
76844 AATGAAAAATG--AAA
1 AA-GAAAAATGAAAAA
* **
76858 ATGAAAAAGCGTGAAATG
1 AAGAAAAA---TGAAAAA
*
76876 AAGAAAAAGTGTAGAAA
1 AAGAAAAA-TG-AAAAA
*
76893 AAGAAAAAAGAAAAA
1 AAGAAAAATGAAAAA
76908 AAGAAAAA
1 AAGAAAAA
76916 AAGAAAAATG
Statistics
Matches: 55, Mismatches: 9, Indels: 15
0.70 0.11 0.19
Matches are distributed among these distances:
13 6 0.11
14 6 0.11
15 19 0.35
16 6 0.11
17 10 0.18
18 8 0.15
ACGTcount: A:0.72, C:0.01, G:0.17, T:0.09
Consensus pattern (15 bp):
AAGAAAAATGAAAAA
Found at i:78920 original size:89 final size:88
Alignment explanation
Indices: 78581--78916 Score: 440
Period size: 89 Copynumber: 3.8 Consensus size: 88
78571 CTTCAAGAAA
* * * *
78581 ACACATTGCCTAATCATATCCCTTTCATCCAACCACTGGATGGTATTGATGCATCACTAAGCCTA
1 ACACATT-CCCAATCATATCCC-TTCATCCAACCACTAGATGGTATTGATGCATCACAAAACCTA
78646 ATTTCCTTGGGGCAAGGTGCAGCCC
64 ATTTCCTTGGGGCAAGGTGCAGCCC
* * * * * *
78671 ACACATTCCCAATCATATCCTTTTTATCCAACCACTAGCTGGTATTGATACATCACCAAGCCTAA
1 ACACATTCCCAATCATATCC-CTTCATCCAACCACTAGATGGTATTGATGCATCACAAAACCTAA
*
78736 TTTCCTTAGGGCAAGGTGCAGCCC
65 TTTCCTTGGGGCAAGGTGCAGCCC
* * * * *
78760 ACACATTCCCAATCATATATCCTACATCTAACCACTAAATAGTATTGATGCATCACAAAACCTAA
1 ACACATTCCCAATCATAT-CCCTTCATCCAACCACTAGATGGTATTGATGCATCACAAAACCTAA
* *
78825 TTTTCC-TGGGGCAAGATGCAACCC
65 -TTTCCTTGGGGCAAGGTGCAGCCC
*
78849 ACACATTCCCAATCATATCTCCTTCATCCAACCACTAGATGGTATTAATGCATCACAAAACCTAA
1 ACACATTCCCAATCATATC-CCTTCATCCAACCACTAGATGGTATTGATGCATCACAAAACCTAA
78914 TTT
65 TTT
78917 TCCTAGGGTA
Statistics
Matches: 214, Mismatches: 28, Indels: 10
0.85 0.11 0.04
Matches are distributed among these distances:
88 3 0.01
89 198 0.93
90 13 0.06
ACGTcount: A:0.31, C:0.29, G:0.12, T:0.28
Consensus pattern (88 bp):
ACACATTCCCAATCATATCCCTTCATCCAACCACTAGATGGTATTGATGCATCACAAAACCTAAT
TTCCTTGGGGCAAGGTGCAGCCC
Found at i:79233 original size:25 final size:25
Alignment explanation
Indices: 79204--79255 Score: 104
Period size: 25 Copynumber: 2.1 Consensus size: 25
79194 ATATGACAGA
79204 CTGCCACATCTTCATAAGAATCCAC
1 CTGCCACATCTTCATAAGAATCCAC
79229 CTGCCACATCTTCATAAGAATCCAC
1 CTGCCACATCTTCATAAGAATCCAC
79254 CT
1 CT
79256 TCTATTAACC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.31, C:0.37, G:0.08, T:0.25
Consensus pattern (25 bp):
CTGCCACATCTTCATAAGAATCCAC
Found at i:79365 original size:43 final size:43
Alignment explanation
Indices: 79317--79412 Score: 108
Period size: 42 Copynumber: 2.3 Consensus size: 43
79307 GTCTCACTCC
* * * *
79317 AAACTTTCTTTGCCCTTCGTCTGCCCATCGGCTTTGA-CTCGAG
1 AAACTTTCTTTACCCTTCATCTACACATCGGCTTTGATC-CGAG
*
79360 AAACTTT-TTTACCCTTCATCTACACGTCGGCTTTGATCCGAG
1 AAACTTTCTTTACCCTTCATCTACACATCGGCTTTGATCCGAG
*
79402 AGAC-TTCTTTA
1 AAACTTTCTTTA
79413 TTCTTTGTCT
Statistics
Matches: 45, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
41 2 0.04
42 35 0.78
43 8 0.18
ACGTcount: A:0.19, C:0.29, G:0.16, T:0.36
Consensus pattern (43 bp):
AAACTTTCTTTACCCTTCATCTACACATCGGCTTTGATCCGAG
Found at i:79424 original size:42 final size:42
Alignment explanation
Indices: 79378--79507 Score: 111
Period size: 42 Copynumber: 3.1 Consensus size: 42
79368 TTACCCTTCA
* * *
79378 TCTACACGTCGGCTTTGATCCGAGAGACTTCTTTATTCTTTG
1 TCTACCCGTAGGCTTTGAACCGAGAGACTTCTTTATTCTTTG
* ** * * **
79420 TCTACCCGTTGATTTTGACCCGACAGACTTCTCCATCTCTTTG
1 TCTACCCGTAGGCTTTGAACCGAGAGACTTCTTTAT-TCTTTG
* *
79463 TCTGCCCGTAGGCTTT-AACTCGAGAGACTCCTTTA-TCTTTCG
1 TCTACCCGTAGGCTTTGAAC-CGAGAGACTTCTTTATTCTTT-G
79505 TCT
1 TCT
79508 GCCCATCGAC
Statistics
Matches: 68, Mismatches: 17, Indels: 6
0.75 0.19 0.07
Matches are distributed among these distances:
41 5 0.07
42 34 0.50
43 29 0.43
ACGTcount: A:0.16, C:0.28, G:0.17, T:0.38
Consensus pattern (42 bp):
TCTACCCGTAGGCTTTGAACCGAGAGACTTCTTTATTCTTTG
Found at i:79491 original size:43 final size:42
Alignment explanation
Indices: 79397--79491 Score: 100
Period size: 43 Copynumber: 2.2 Consensus size: 42
79387 CGGCTTTGAT
** * * *
79397 CCGAGAGACTTCTTTATTCTTTGTCTACCCGTTGATTTTGAC
1 CCGAGAGACTTCTCCATTCTTTGTCTACCCGTAGACTTTAAC
* * *
79439 CCGACAGACTTCTCCATCTCTTTGTCTGCCCGTAGGCTTTAAC
1 CCGAGAGACTTCTCCAT-TCTTTGTCTACCCGTAGACTTTAAC
*
79482 TCGAGAGACT
1 CCGAGAGACT
79492 CCTTTATCTT
Statistics
Matches: 42, Mismatches: 10, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
42 14 0.33
43 28 0.67
ACGTcount: A:0.18, C:0.28, G:0.18, T:0.36
Consensus pattern (42 bp):
CCGAGAGACTTCTCCATTCTTTGTCTACCCGTAGACTTTAAC
Found at i:79540 original size:41 final size:40
Alignment explanation
Indices: 79485--79603 Score: 132
Period size: 41 Copynumber: 2.9 Consensus size: 40
79475 CTTTAACTCG
* *
79485 AGAGACTCCTTTATCTTTCGTCTGCCCATCGACTTAGACCTA
1 AGAGACTTC-TTATCTTT-GTCTGCCCATCGACTTAGACCCA
* *
79527 AGAGACTTCTTATCTTTTTTCTGCCCATCGATTTAGACCCA
1 AGAGACTTCTTATC-TTTGTCTGCCCATCGACTTAGACCCA
* * *
79568 AGAGACTTCCTT-TCATTGTCTGCCCGTTGACTTAGA
1 AGAGACTT-CTTATCTTTGTCTGCCCATCGACTTAGA
79604 TCTGGGAATC
Statistics
Matches: 66, Mismatches: 9, Indels: 6
0.81 0.11 0.07
Matches are distributed among these distances:
40 17 0.26
41 35 0.53
42 14 0.21
ACGTcount: A:0.21, C:0.28, G:0.15, T:0.36
Consensus pattern (40 bp):
AGAGACTTCTTATCTTTGTCTGCCCATCGACTTAGACCCA
Found at i:79769 original size:42 final size:42
Alignment explanation
Indices: 79668--80083 Score: 329
Period size: 42 Copynumber: 9.9 Consensus size: 42
79658 TTTATCATTC
* * *
79668 GTCTGCCTGTCGGCTTAGA-CCTGGGAGACTTTTTTCCCTTTA
1 GTCTGCCTGTCGGCTTTGACCCT-GGAGACTTCTTTACCTTTA
* * ** * * *
79710 GTCTACTTGTCAACTTTGACCTTGGAGACTTCTTTACATTTT
1 GTCTGCCTGTCGGCTTTGACCCTGGAGACTTCTTTACCTTTA
* * * * *
79752 GTCTACCTATCGGCTTTGACCCTAGAGACTTGTTCACCTTTA
1 GTCTGCCTGTCGGCTTTGACCCTGGAGACTTCTTTACCTTTA
* * * * *
79794 GTCTGTCTGTCGGCTTAGACTCGGGAGACTTTTTTACCTTTA
1 GTCTGCCTGTCGGCTTTGACCCTGGAGACTTCTTTACCTTTA
* * * * **
79836 ATCTGCCCGTCGACTTT-ATCCCAT-GAGACTTCTTCATATTTA
1 GTCTGCCTGTCGGCTTTGA-CCC-TGGAGACTTCTTTACCTTTA
* *** * *
79878 GTCTGCCCGTTAACTTTGA-CCTAGGAGACTTCTTCATCTTTA
1 GTCTGCCTGTCGGCTTTGACCCT-GGAGACTTCTTTACCTTTA
* * * *
79920 GTTTGCCTGTCAGCTTTGACCCTAGAGACTTCTTCACCTTTA
1 GTCTGCCTGTCGGCTTTGACCCTGGAGACTTCTTTACCTTTA
* * *
79962 GTCTGCCTGTCGGCTTTGACCCTAGAGACTTTTTTACTTTTA
1 GTCTGCCTGTCGGCTTTGACCCTGGAGACTTCTTTACCTTTA
* * * *
80004 GTCTGCCTATCGGTTTTGACCCGGGAGACTTTTTTACCTTTA
1 GTCTGCCTGTCGGCTTTGACCCTGGAGACTTCTTTACCTTTA
* ** *
80046 GTCTACCCATCGGCTTTGACCC-GAGAGACTTTTTTACC
1 GTCTGCCTGTCGGCTTTGACCCTG-GAGACTTCTTTACC
80084 CTTCGTTTTC
Statistics
Matches: 303, Mismatches: 63, Indels: 16
0.79 0.16 0.04
Matches are distributed among these distances:
40 1 0.00
41 4 0.01
42 292 0.96
43 6 0.02
ACGTcount: A:0.17, C:0.26, G:0.18, T:0.39
Consensus pattern (42 bp):
GTCTGCCTGTCGGCTTTGACCCTGGAGACTTCTTTACCTTTA
Found at i:79804 original size:126 final size:125
Alignment explanation
Indices: 79668--80086 Score: 364
Period size: 126 Copynumber: 3.3 Consensus size: 125
79658 TTTATCATTC
* * * * *
79668 GTCTGCCTGTCGGCTTAGACCTGGGAGACTTTTTTCCCTTTAGTCTACTTGTCAACTTTGACCTT
1 GTCTGCCTGTCGGCTTAGACCTGAGAGACTTTTTTCCCTTTAGTCTGCCTGTCGACTTTGACCAT
* *
79733 GGAGACTTCTTTACATTTTGTCTACCTATCGGCTTTGACCCTAGAGACTTGTTCACCTTTA
66 -GAGACTTCTTTACATTTTGTCTGCCTATCGGCTTTGACCCTAGAGACTTCTTCACCTTTA
* * * * *
79794 GTCTGTCTGTCGGCTTAGA-CTCGGGAGACTTTTTTACCTTTAATCTGCCCGTCGACTTT-ATCC
1 GTCTGCCTGTCGGCTTAGACCT-GAGAGACTTTTTTCCCTTTAGTCTGCCTGTCGACTTTGA--C
* * * ** *** *
79857 CATGAGACTTCTTCATATTTAGTCTGCCCGTTAACTTTGA-CCTAGGAGACTTCTTCATCTTTA
63 CATGAGACTTCTTTACATTTTGTCTGCCTATCGGCTTTGACCCTA-GAGACTTCTTCACCTTTA
* * * * *
79920 GTTTGCCTGTCAGCTTTGACCCT-AGAGAC-TTCTTCACCTTTAGTCTGCCTGTCGGCTTTGACC
1 GTCTGCCTGTCGGCTTAGA-CCTGAGAGACTTTTTTC-CCTTTAGTCTGCCTGTCGACTTTGACC
* * * ** * *
79983 CTAGAGACTTTTTTAC-TTTTAGTCTGCCTATCGGTTTTGACCCGGGAGACTTTTTTACCTTTA
64 AT-GAGACTTCTTTACATTTT-GTCTGCCTATCGGCTTTGACCCTAGAGACTTCTTCACCTTTA
* ** * *
80046 GTCTACCCATCGGCTTTGACCCGAGAGACTTTTTTACCCTT
1 GTCTGCCTGTCGGCTTAGACCTGAGAGACTTTTTT-CCCTT
80087 CGTTTTCCAG
Statistics
Matches: 227, Mismatches: 52, Indels: 27
0.74 0.17 0.09
Matches are distributed among these distances:
125 19 0.08
126 191 0.84
127 14 0.06
128 3 0.01
ACGTcount: A:0.17, C:0.26, G:0.18, T:0.39
Consensus pattern (125 bp):
GTCTGCCTGTCGGCTTAGACCTGAGAGACTTTTTTCCCTTTAGTCTGCCTGTCGACTTTGACCAT
GAGACTTCTTTACATTTTGTCTGCCTATCGGCTTTGACCCTAGAGACTTCTTCACCTTTA
Found at i:80105 original size:42 final size:42
Alignment explanation
Indices: 79933--80179 Score: 138
Period size: 42 Copynumber: 5.9 Consensus size: 42
79923 TGCCTGTCAG
* * * * * ** **
79933 CTTTGACCCTAGAGACTTCTTCACCTTTAGTCTGCCTGTCGG
1 CTTTGACCCGAGAGACTTTTTTACCCTTAGTCTACCCATCAA
* ** * * **
79975 CTTTGACCCTAGAGACTTTTTTACTTTTAGTCTGCCTATCGG
1 CTTTGACCCGAGAGACTTTTTTACCCTTAGTCTACCCATCAA
* * * **
80017 TTTTGACCCGGGAGACTTTTTTACCTTTAGTCTACCCATCGG
1 CTTTGACCCGAGAGACTTTTTTACCCTTAGTCTACCCATCAA
* **
80059 CTTTGACCCGAGAGACTTTTTTACCCTTCGT-TTTCCAGTCAA
1 CTTTGACCCGAGAGACTTTTTTACCCTTAGTCTACCCA-TCAA
* * ** * * **
80101 CTTTGCCCCGAGAGACGTTTCCATCTCTTTGTCTACCCATCGG
1 CTTTGACCCGAGAGACTTTTTTA-CCCTTAGTCTACCCATCAA
* * *
80144 CTTTGACCC-AGGAGACTTCTTTGCCCTTCGTCTACC
1 CTTTGACCCGA-GAGACTTTTTTACCCTTAGTCTACC
80180 AGTTGGCTTT
Statistics
Matches: 165, Mismatches: 36, Indels: 8
0.79 0.17 0.04
Matches are distributed among these distances:
41 4 0.02
42 134 0.81
43 23 0.14
44 4 0.02
ACGTcount: A:0.16, C:0.30, G:0.17, T:0.37
Consensus pattern (42 bp):
CTTTGACCCGAGAGACTTTTTTACCCTTAGTCTACCCATCAA
Found at i:80116 original size:84 final size:84
Alignment explanation
Indices: 79653--80176 Score: 260
Period size: 84 Copynumber: 6.2 Consensus size: 84
79643 GACTCGGGAA
* * * * * *
79653 ACTTTTTTATCATTCGTCTGCCT-GTCGGCTTAGACCTGGGAGACTTTTTTC-CCTTTAGTCTAC
1 ACTTTTTTACCCTTCGTCTGCCTAGTCAGCTTTGACCCGAGAGAC-TTTTTCACCTTTAGTCTAC
*** ** **
79716 TTGTCAACTTTGACCTTGGAG
65 CCATCGGCTTTGACC-CAGAG
* ** * * * * * **
79737 ACTTCTTTACATTTTGTCTACCTA-TCGGCTTTGACCCTAGAGACTTGTTCACCTTTAGTCTGTC
1 ACTTTTTTACCCTTCGTCTGCCTAGTCAGCTTTGACCCGAGAGACTTTTTCACCTTTAGTCTACC
** * **
79801 TGTCGGCTTAGACTCGGGAG
66 CATCGGCTTTGAC-CCAGAG
* ** * * **
79821 ACTTTTTTACCTTTAATCTGCC-CGTC-GACTTT-ATCCC-ATGAGACTTCTTCATATTTAGTCT
1 ACTTTTTTACCCTTCGTCTGCCTAGTCAG-CTTTGA-CCCGA-GAGACTTTTTCACCTTTAGTCT
* * *** *
79882 GCCCGTTAACTTTGACCTAGGAG
63 ACCCATCGGCTTTGACCCA-GAG
* * * * * * * * *
79905 ACTTCTTCATCTTTAGTTTGCCT-GTCAGCTTTGACCCTAGAGACTTCTTCACCTTTAGTCTGCC
1 ACTTTTTTACCCTTCGTCTGCCTAGTCAGCTTTGACCCGAGAGACTTTTTCACCTTTAGTCTACC
**
79969 TGTCGGCTTTGACCCTAGAG
66 CATCGGCTTTGACCC-AGAG
** * * * * *
79989 ACTTTTTTACTTTTAGTCTGCCTA-TCGGTTTTGACCCGGGAGACTTTTTTACCTTTAGTCTACC
1 ACTTTTTTACCCTTCGTCTGCCTAGTCAGCTTTGACCCGAGAGACTTTTTCACCTTTAGTCTACC
80053 CATCGGCTTTGACCCGAGAG
66 CATCGGCTTTGACCC-AGAG
* * * * * *
80073 ACTTTTTTACCCTTCGTTTTCC-AGTCAACTTTGCCCCGAGAGACGTTTCCATCTCTTT-GTCTA
1 ACTTTTTTACCCTTCGTCTGCCTAGTCAGCTTTGACCCGAGAGACTTTTTCA-C-CTTTAGTCTA
80136 CCCATCGGCTTTGACCCAGGAG
64 CCCATCGGCTTTGACCCA-GAG
* *
80158 ACTTCTTTGCCCTTCGTCT
1 ACTTTTTTACCCTTCGTCT
80177 ACCAGTTGGC
Statistics
Matches: 344, Mismatches: 78, Indels: 35
0.75 0.17 0.08
Matches are distributed among these distances:
83 10 0.03
84 283 0.82
85 47 0.14
86 4 0.01
ACGTcount: A:0.16, C:0.27, G:0.18, T:0.39
Consensus pattern (84 bp):
ACTTTTTTACCCTTCGTCTGCCTAGTCAGCTTTGACCCGAGAGACTTTTTCACCTTTAGTCTACC
CATCGGCTTTGACCCAGAG
Found at i:82253 original size:173 final size:173
Alignment explanation
Indices: 81966--82370 Score: 537
Period size: 173 Copynumber: 2.4 Consensus size: 173
81956 GATGGAAAAG
* * * * * * * * * *
81966 AAGCAATGTTTGGCAACTTCAACTGCTATTTTTGGAACTCTAGCAGC-A-A-CTACTAGTTTCGA
1 AAGCAATATTCGGCAGCTTCAGCTGCTATTTTCGGAACTCCAGCAACAACAGCTACTGGTTTTGG
** * * *
82028 TTTTGGTGTTGAAAATCAGCAAAGAAAGCTCCCAAAATCAACAAAGAAGCATGACGAGAAGAAGA
66 TCATGGTGTTGAAAATCAGAAAAGAAAGCTCCCAAAATCAACAAAGAAGCATGACAAGAAAAAGA
*
82093 GAAAAGAGGAAGAAAAGAGAAAAAGTTAAAAGGATGAAAGTAA
131 GAAAAGAGGAAGAAAAGAGAAAAAGTAAAAAGGATGAAAGTAA
* * * * * * *
82136 AAGTAATATTCGGTAGCTTCAGCTGCTGTTTTTGGAATTCCAGCAACAGCAGCTATTGGTTTTGG
1 AAGCAATATTCGGCAGCTTCAGCTGCTATTTTCGGAACTCCAGCAACAACAGCTACTGGTTTTGG
* * * * *
82201 TCATGGTGTTGGAAATCAGAAAAGAATGCTCCCTAAATCAGCAAATAAGCATGACAAGAAAAAGA
66 TCATGGTGTTGAAAATCAGAAAAGAAAGCTCCCAAAATCAACAAAGAAGCATGACAAGAAAAAGA
82266 GAAAAGAGGAAGAAAAGAGAAAAAGTAAAAAGGATGAAAGTAA
131 GAAAAGAGGAAGAAAAGAGAAAAAGTAAAAAGGATGAAAGTAA
82309 AAGCAATATTCGGCAGCTTCAGCTGCTATTTTCGGAACTCCAGCAACAACAGCTACTGGTTT
1 AAGCAATATTCGGCAGCTTCAGCTGCTATTTTCGGAACTCCAGCAACAACAGCTACTGGTTT
82371 CAGTTCTGGT
Statistics
Matches: 199, Mismatches: 33, Indels: 3
0.85 0.14 0.01
Matches are distributed among these distances:
170 37 0.19
172 1 0.01
173 161 0.81
ACGTcount: A:0.41, C:0.15, G:0.22, T:0.22
Consensus pattern (173 bp):
AAGCAATATTCGGCAGCTTCAGCTGCTATTTTCGGAACTCCAGCAACAACAGCTACTGGTTTTGG
TCATGGTGTTGAAAATCAGAAAAGAAAGCTCCCAAAATCAACAAAGAAGCATGACAAGAAAAAGA
GAAAAGAGGAAGAAAAGAGAAAAAGTAAAAAGGATGAAAGTAA
Found at i:84610 original size:151 final size:152
Alignment explanation
Indices: 84287--84887 Score: 532
Period size: 153 Copynumber: 3.9 Consensus size: 152
84277 GGCATATTTG
* * * * * * *
84287 TAGGTTATCACTGGGT-CTGCTTTTATGTCGAATGTGGGTATTTAGGATATGTTCATCCTTTTAT
1 TAGGTTATCACCGGGTCCT-CTTTTATGCCAAAAGTGGATATTTAGGATAGGTTCATCCATTT-T
* * * * * * * *
84351 AATCCTTTTTAAGTCTTTTAGGGGTACCGAGATACTTTCACG-CTAAAGGTAT-CCCTTAGGGAC
64 -ATCCTTTTTAAGTCCTTTAAGGGTATCG-GGTACTTTTACGTC-GAAGGTATCCCCTAAGAG-C
* * * **
84414 ATTTTCATAATTTTTCAAAATCGAGGCC
125 ATTTTCATAATTTTTCAGAACCAACTCC
** * **
84442 TAGGTTATCACTAGGTCCTCTTTTATGCTAAAAGAAGATATTTAGGATAGGTTCATCC-TTTTAT
1 TAGGTTATCACCGGGTCCTCTTTTATGCCAAAAGTGGATATTTAGGATAGGTTCATCCATTTTAT
* * *
84506 CCTTTTTAAATCCTATAAGGGTATCGGGTACTTCTACGTCGAAGGTATCCCCTAAGAGCATTTTC
66 CCTTTTTAAGTCCTTTAAGGGTATCGGGTACTTTTACGTCGAAGGTATCCCCTAAGAGCATTTTC
*
84571 GTAATTTTTCAGAACCAACTCC
131 ATAATTTTTCAGAACCAACTCC
* * * *
84593 TAGGTTATCTCCGGGTCCGCTTTTATGCCAAAGGTGGATATTTAGGATAGGTTCAT-CATCTCCT
1 TAGGTTATCACCGGGTCCTCTTTTATGCCAAAAGTGGATATTTAGGATAGGTTCATCCAT-T-TT
* * * *
84657 AACCTTTTTTAAGTCCTTTAAGGGTATC-GGTACTTTTACATCGAAAGTATCCCCTAAAAGCATT
64 ATCC-TTTTTAAGTCCTTTAAGGGTATCGGGTACTTTTACGTCGAAGGTATCCCCTAAGAGCATT
** * *
84721 TTGGTAATTTTTTAGAACCAATTCC
128 TTCATAATTTTTCAGAACCAACTCC
* * * * * ** *
84746 TAGGCTGTCACCGAGTCCGT-TTTTATGCCGAAAGTGGGTATTTAGGATAGGTTTGTCCCATCTA
1 TAGGTTATCACCGGGTCC-TCTTTTATGCCAAAAGTGGATATTTAGGATAGGTTCAT-CCAT-TT
* * * * ** * *
84810 AATCCTTTTCAAGTTCTTTAGGGGTATCAAGTACTTTTACGTCGAAGGTATCCCCTAGGGGCATT
63 TATCCTTTTTAAGTCCTTTAAGGGTATCGGGTACTTTTACGTCGAAGGTATCCCCTAAGAGCATT
84875 TTCATAATTTTTC
128 TTCATAATTTTTC
84888 TTGAACTTAA
Statistics
Matches: 365, Mismatches: 70, Indels: 23
0.80 0.15 0.05
Matches are distributed among these distances:
150 1 0.00
151 88 0.24
152 32 0.09
153 124 0.34
154 67 0.18
155 51 0.14
156 2 0.01
ACGTcount: A:0.25, C:0.19, G:0.19, T:0.38
Consensus pattern (152 bp):
TAGGTTATCACCGGGTCCTCTTTTATGCCAAAAGTGGATATTTAGGATAGGTTCATCCATTTTAT
CCTTTTTAAGTCCTTTAAGGGTATCGGGTACTTTTACGTCGAAGGTATCCCCTAAGAGCATTTTC
ATAATTTTTCAGAACCAACTCC
Found at i:87519 original size:317 final size:317
Alignment explanation
Indices: 86942--87555 Score: 1115
Period size: 317 Copynumber: 1.9 Consensus size: 317
86932 AAAAGGTTTC
* *
86942 AGTTCCAATATGGGTGAGGATGATTTTTCAGAATGTAGAATGGTTGAGAGTGATTGTTTTGATGC
1 AGTTCCAATATGGGTGAGGATGATTTTTCAAAATGTAGAATGGTTGAAAGTGATTGTTTTGATGC
87007 ACCTTTTGGATGCTAAGTGAAAGGCTACAAGATTTCGGTTCTTTGATGTATAAATGAGTAGGGAG
66 ACCTTTTGGATGCTAAGTGAAAGGCTACAAGATTTCGGTTCTTTGATGTATAAATGAGTAGGGAG
*
87072 GGTTGAAACAAGCTGGAATCTAAAAAAATCTTAGCTAAAATATTAATGGTCTATTTATATCAGCA
131 GGTTGAAACAAGCTAGAATCTAAAAAAATCTTAGCTAAAATATTAATGGTCTATTTATATCAGCA
87137 TTTTATAGCCAAATTAGAGGTGTTTTTGGTCATTTCTCAAGGAAACAAAGTGCTGACAACTGATG
196 TTTTATAGCCAAATTAGAGGTGTTTTTGGTCATTTCTCAAGGAAACAAAGTGCTGACAACTGATG
87202 GCTATAGGGTGGCTATAGGAAGTAATTAGCTACCAATATGGGTGAGGATGATTTTTT
261 GCTATAGGGTGGCTATAGGAAGTAATTAGCTACCAATATGGGTGAGGATGATTTTTT
*
87259 AGTTCCAGTATGGGTGAGGATGATTTTTCAAAATGTAGAATGGTTGAAAGTGATTG-TTTGAGTG
1 AGTTCCAATATGGGTGAGGATGATTTTTCAAAATGTAGAATGGTTGAAAGTGATTGTTTTGA-TG
*
87323 CTA-CTTTTGGATGCTAAGTGAAAGGCTACAAGATTTTGGTTCTTTGATGTATAAATGAGTAGGG
65 C-ACCTTTTGGATGCTAAGTGAAAGGCTACAAGATTTCGGTTCTTTGATGTATAAATGAGTAGGG
*
87387 AGGGTTGAAACAAGCTAGAATCTAAAAAAATCTTAGCTGAAATATTAATGGTCTATTTATATCAG
129 AGGGTTGAAACAAGCTAGAATCTAAAAAAATCTTAGCTAAAATATTAATGGTCTATTTATATCAG
*
87452 CATTTTATAGCCAAATTAGAGGTGTTTTTGGTCATTTCTCAAGGAAACAAAGTGCTGACAGCTGA
194 CATTTTATAGCCAAATTAGAGGTGTTTTTGGTCATTTCTCAAGGAAACAAAGTGCTGACAACTGA
* *
87517 TGGCTATAGGGTGGTTGTAGGAAGTAATTAGCTACCAAT
259 TGGCTATAGGGTGGCTATAGGAAGTAATTAGCTACCAAT
87556 GTGATGGACA
Statistics
Matches: 286, Mismatches: 9, Indels: 4
0.96 0.03 0.01
Matches are distributed among these distances:
316 5 0.02
317 280 0.98
318 1 0.00
ACGTcount: A:0.31, C:0.10, G:0.25, T:0.33
Consensus pattern (317 bp):
AGTTCCAATATGGGTGAGGATGATTTTTCAAAATGTAGAATGGTTGAAAGTGATTGTTTTGATGC
ACCTTTTGGATGCTAAGTGAAAGGCTACAAGATTTCGGTTCTTTGATGTATAAATGAGTAGGGAG
GGTTGAAACAAGCTAGAATCTAAAAAAATCTTAGCTAAAATATTAATGGTCTATTTATATCAGCA
TTTTATAGCCAAATTAGAGGTGTTTTTGGTCATTTCTCAAGGAAACAAAGTGCTGACAACTGATG
GCTATAGGGTGGCTATAGGAAGTAATTAGCTACCAATATGGGTGAGGATGATTTTTT
Found at i:88674 original size:44 final size:44
Alignment explanation
Indices: 88611--88699 Score: 126
Period size: 44 Copynumber: 2.0 Consensus size: 44
88601 ATTTTGTAAA
* *
88611 AAGTCCTAGTTTAACCTATGT-GAGTGGACATATGCATGAATAGG
1 AAGTCCTAATTTAACCTATGTGGA-TAGACATATGCATGAATAGG
* *
88655 AAGTCCTAATTTAGCCTATGTGGATAGACATGTGCATGAATAGG
1 AAGTCCTAATTTAACCTATGTGGATAGACATATGCATGAATAGG
88699 A
1 A
88700 TATTGATCTT
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
44 38 0.95
45 2 0.05
ACGTcount: A:0.33, C:0.13, G:0.25, T:0.29
Consensus pattern (44 bp):
AAGTCCTAATTTAACCTATGTGGATAGACATATGCATGAATAGG
Found at i:90887 original size:13 final size:13
Alignment explanation
Indices: 90869--90893 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
90859 AATTCATCAC
90869 GTATCGATACAAT
1 GTATCGATACAAT
90882 GTATCGATACAA
1 GTATCGATACAA
90894 ATAGTGGTAG
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:0.16, G:0.16, T:0.28
Consensus pattern (13 bp):
GTATCGATACAAT
Found at i:91553 original size:22 final size:24
Alignment explanation
Indices: 91528--91573 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
91518 GGCTCTCGTT
*
91528 AAAAAATTT-T-CCCTTTGATAAA
1 AAAAAATTTCTCCCCCTTGATAAA
91550 AAAAAATTTCTCCCCCTTGATAAA
1 AAAAAATTTCTCCCCCTTGATAAA
91574 CGGTTAAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 9 0.43
23 1 0.05
24 11 0.52
ACGTcount: A:0.43, C:0.20, G:0.04, T:0.33
Consensus pattern (24 bp):
AAAAAATTTCTCCCCCTTGATAAA
Found at i:99802 original size:19 final size:20
Alignment explanation
Indices: 99758--99810 Score: 72
Period size: 19 Copynumber: 2.7 Consensus size: 20
99748 CTGCCAGTTT
* **
99758 CATGTATCAATACAATTGCC
1 CATGTATCGATACAATTGAA
99778 CATGTATCGATACAA-TGAA
1 CATGTATCGATACAATTGAA
99797 CATGTATCGATACA
1 CATGTATCGATACA
99811 TTGTATCGAT
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
19 16 0.53
20 14 0.47
ACGTcount: A:0.38, C:0.21, G:0.13, T:0.28
Consensus pattern (20 bp):
CATGTATCGATACAATTGAA
Found at i:99817 original size:13 final size:13
Alignment explanation
Indices: 99799--99823 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
99789 ACAATGAACA
99799 TGTATCGATACAT
1 TGTATCGATACAT
99812 TGTATCGATACA
1 TGTATCGATACA
99824 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:99840 original size:33 final size:32
Alignment explanation
Indices: 99780--99844 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 32
99770 CAATTGCCCA
*
99780 TGTATCGATACAATGAACATGTATCGATACAT
1 TGTATCGATACAAAGAACATGTATCGATACAT
99812 TGTATCGATACAAAGCATA-ATGTATCGATACAT
1 TGTATCGATACAAAG-A-ACATGTATCGATACAT
99845 CTGGGTGTGT
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:101737 original size:36 final size:36
Alignment explanation
Indices: 101682--101775 Score: 134
Period size: 36 Copynumber: 2.6 Consensus size: 36
101672 AACTAACTAG
*
101682 ACTTGTAAGCAAAACTGAAACAGTAACTCCAATTAA
1 ACTTGTAAGCAAAACTGAAACAGTAACCCCAATTAA
* * **
101718 ACTTATAAGCAAAATTGAAATGGTAACCCCAATTAA
1 ACTTGTAAGCAAAACTGAAACAGTAACCCCAATTAA
*
101754 ATTTGTAAGCAAAACTGAAACA
1 ACTTGTAAGCAAAACTGAAACA
101776 ATATTTTTTA
Statistics
Matches: 48, Mismatches: 10, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
36 48 1.00
ACGTcount: A:0.48, C:0.17, G:0.12, T:0.23
Consensus pattern (36 bp):
ACTTGTAAGCAAAACTGAAACAGTAACCCCAATTAA
Found at i:103987 original size:19 final size:19
Alignment explanation
Indices: 103963--104002 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
103953 TAAATAAGGT
103963 TAATTATGTAATGGAATGA
1 TAATTATGTAATGGAATGA
103982 TAATTATGTAATGGAATGA
1 TAATTATGTAATGGAATGA
104001 TA
1 TA
104003 GTCTGAGTAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.42, C:0.00, G:0.20, T:0.38
Consensus pattern (19 bp):
TAATTATGTAATGGAATGA
Found at i:104503 original size:13 final size:15
Alignment explanation
Indices: 104485--104520 Score: 51
Period size: 13 Copynumber: 2.6 Consensus size: 15
104475 ATTTCTAATT
104485 TTATTTTTATT-T-A
1 TTATTTTTATTGTAA
104498 TTATTTTT-TTGTAA
1 TTATTTTTATTGTAA
104512 TTATTTTTA
1 TTATTTTTA
104521 AAAATCATTG
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
12 2 0.10
13 9 0.45
14 9 0.45
ACGTcount: A:0.22, C:0.00, G:0.03, T:0.75
Consensus pattern (15 bp):
TTATTTTTATTGTAA
Found at i:104515 original size:27 final size:30
Alignment explanation
Indices: 104458--104520 Score: 78
Period size: 27 Copynumber: 2.2 Consensus size: 30
104448 AAAAAACAAA
104458 TTTTATTTAAATATTTTATTTCTAATTTTAT
1 TTTTATTTAAATATTTTATTTCTAA-TTTAT
* *
104489 TTTTATTT-ATTATTTT-TTTGTAA-TTAT
1 TTTTATTTAAATATTTTATTTCTAATTTAT
104516 TTTTA
1 TTTTA
104521 AAAATCATTG
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
27 9 0.30
29 6 0.20
30 7 0.23
31 8 0.27
ACGTcount: A:0.25, C:0.02, G:0.02, T:0.71
Consensus pattern (30 bp):
TTTTATTTAAATATTTTATTTCTAATTTAT
Found at i:105608 original size:32 final size:33
Alignment explanation
Indices: 105546--105609 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 33
105536 CACACCTAGA
*
105546 TGTATCCATACATATTGCTTAGTATCGATACAT
1 TGTATCAATACATATTGCTTAGTATCGATACAT
* *
105579 TGTATCAATACATGTT-CTTGGTATCGATACA
1 TGTATCAATACATATTGCTTAGTATCGATACA
105610 CAATGAATTG
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 14 0.50
33 14 0.50
ACGTcount: A:0.30, C:0.17, G:0.14, T:0.39
Consensus pattern (33 bp):
TGTATCAATACATATTGCTTAGTATCGATACAT
Found at i:105695 original size:13 final size:13
Alignment explanation
Indices: 105658--105695 Score: 67
Period size: 13 Copynumber: 2.9 Consensus size: 13
105648 AACTCACTCA
*
105658 GTATCGATACAAT
1 GTATCGATACATT
105671 GTATCGATACATT
1 GTATCGATACATT
105684 GTATCGATACAT
1 GTATCGATACAT
105696 GGTCAAATGT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Consensus pattern (13 bp):
GTATCGATACATT
Found at i:109338 original size:145 final size:146
Alignment explanation
Indices: 109066--109371 Score: 402
Period size: 145 Copynumber: 2.1 Consensus size: 146
109056 ACAATCTCTG
* * * * *
109066 AGGGAATACTCCAACTCTATTTTTACACTAAAATTCGATTTATGAAAATATCCAATTGTTATCTT
1 AGGGAATACTCCAACCCTATTTTTACACTAAAATTCAATTAACGAAAATATCAAATTGTTATCTT
* * * *
109131 CAGGGATACTCCAACCCCACCATCTTTGAGAGGATACTCCAATCACTTTTTTACTTTCAAAACAC
66 CAGGGATACTCCAACCCCACCATCTCTGAGAGGATACTCCAACCACATTTTTACTTCCAAAACAC
109196 CGAATTTTTCATCTTT
131 CGAATTTTTCATCTTT
* * *
109212 AGGG-ATATTCCAACCCTATTTTTATACTAAAATTCAATTAACGAAAATATCAAATTTTTATCTT
1 AGGGAATACTCCAACCCTATTTTTACACTAAAATTCAATTAACGAAAATATCAAATTGTTATCTT
* * * *
109276 CGGGGATTCTCCAACCCCACGATCTCTGACG-GGATACTCCAACCCCATTTTTACTTCCAAAACA
66 CAGGGATACTCCAACCCCACCATCTCTGA-GAGGATACTCCAACCACATTTTTACTTCCAAAACA
* **
109340 TCGAATTTTTCATCTCC
130 CCGAATTTTTCATCTTT
*
109357 AAGG-ATACTCCAACC
1 AGGGAATACTCCAACC
109372 TACCATCTTC
Statistics
Matches: 138, Mismatches: 21, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
145 133 0.96
146 5 0.04
ACGTcount: A:0.32, C:0.25, G:0.10, T:0.33
Consensus pattern (146 bp):
AGGGAATACTCCAACCCTATTTTTACACTAAAATTCAATTAACGAAAATATCAAATTGTTATCTT
CAGGGATACTCCAACCCCACCATCTCTGAGAGGATACTCCAACCACATTTTTACTTCCAAAACAC
CGAATTTTTCATCTTT
Found at i:110603 original size:22 final size:22
Alignment explanation
Indices: 110575--110630 Score: 69
Period size: 21 Copynumber: 2.5 Consensus size: 22
110565 AAAATTAAAA
* *
110575 AAATATTTTTATATTAATATTT
1 AAATATTTTTATAATAAAATTT
*
110597 ATATA-TTTTATAATAAAATTT
1 AAATATTTTTATAATAAAATTT
110618 AAATAATTTTTAT
1 AAAT-ATTTTTAT
110631 TGAAATAGTA
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
21 17 0.61
22 5 0.18
23 6 0.21
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (22 bp):
AAATATTTTTATAATAAAATTT
Found at i:114108 original size:44 final size:44
Alignment explanation
Indices: 114059--114145 Score: 147
Period size: 44 Copynumber: 2.0 Consensus size: 44
114049 GGGAAAAAGC
* *
114059 AAGGGGGTAGGATCTTTAGATGCACCTTTAGGATTTGAAAGAGA
1 AAGGGGGTAGGATCATTAGATGCACCATTAGGATTTGAAAGAGA
*
114103 AAGGGGGTAGGATCATTAGATGCACCATTCGGATTTGAAAGAG
1 AAGGGGGTAGGATCATTAGATGCACCATTAGGATTTGAAAGAG
114146 CTTCCTTATA
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
44 40 1.00
ACGTcount: A:0.32, C:0.10, G:0.32, T:0.25
Consensus pattern (44 bp):
AAGGGGGTAGGATCATTAGATGCACCATTAGGATTTGAAAGAGA
Found at i:115138 original size:2 final size:2
Alignment explanation
Indices: 115084--115119 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
115074 ATAATGAAAG
115084 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
115120 GACACACACG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:116419 original size:3 final size:3
Alignment explanation
Indices: 116411--116435 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
116401 AAAGCAAGCA
116411 TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT T
116436 CAGATAAAAG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:118039 original size:16 final size:16
Alignment explanation
Indices: 118000--118039 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 16
117990 TTAAATATTT
118000 TTTTAATATTATTAAA
1 TTTTAATATTATTAAA
* * *
118016 ATTAAATATTTTTAAA
1 TTTTAATATTATTAAA
118032 TTTTAATA
1 TTTTAATA
118040 ATAACTTATT
Statistics
Matches: 19, Mismatches: 5, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (16 bp):
TTTTAATATTATTAAA
Found at i:118960 original size:27 final size:27
Alignment explanation
Indices: 118911--118964 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
118901 AGTTGAGTAA
*
118911 TTTATTGATAAAGTGTTAGATTTTAAT
1 TTTATTGATAAAGTGTTAAATTTTAAT
*
118938 TTTATTTATCAAAGT-TTAAATTTTAAT
1 TTTATTGAT-AAAGTGTTAAATTTTAAT
118965 AACCTTAAGT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
27 19 0.79
28 5 0.21
ACGTcount: A:0.35, C:0.02, G:0.09, T:0.54
Consensus pattern (27 bp):
TTTATTGATAAAGTGTTAAATTTTAAT
Found at i:119737 original size:2 final size:2
Alignment explanation
Indices: 119724--119761 Score: 58
Period size: 2 Copynumber: 19.0 Consensus size: 2
119714 GTTAATGAGA
* *
119724 AT AT AA AT AT AT AT AT AT AT AT AT AT AT AC AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
119762 TTTTTCATCA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.45
Consensus pattern (2 bp):
AT
Found at i:120188 original size:21 final size:21
Alignment explanation
Indices: 120162--120202 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
120152 TTGATAAAAT
* *
120162 ATTAAATTTTTAATTTTAATG
1 ATTAAAATTTAAATTTTAATG
120183 ATTAAAATTTAAATTTTAAT
1 ATTAAAATTTAAATTTTAAT
120203 AACTTCAAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (21 bp):
ATTAAAATTTAAATTTTAATG
Found at i:129829 original size:23 final size:23
Alignment explanation
Indices: 129803--129847 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
129793 GAGATAAAGT
*
129803 TTTTTCTAGTTCAATTTTAACAA
1 TTTTTCTAATTCAATTTTAACAA
*
129826 TTTTTCTAATTCAGTTTTAACA
1 TTTTTCTAATTCAATTTTAACA
129848 TTATGTACAG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.29, C:0.13, G:0.04, T:0.53
Consensus pattern (23 bp):
TTTTTCTAATTCAATTTTAACAA
Found at i:136435 original size:30 final size:32
Alignment explanation
Indices: 136389--136453 Score: 89
Period size: 30 Copynumber: 2.1 Consensus size: 32
136379 AATTTGATTA
* *
136389 TAAGATTATTATAATTGATGT-AACAT-TTAT
1 TAAGATTATCATAATTGATATAAACATCTTAT
*
136419 TAAGGTTATCATAATTGATATAAACATCTTAT
1 TAAGATTATCATAATTGATATAAACATCTTAT
136451 TAA
1 TAA
136454 TTTATTTAAG
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
30 18 0.60
31 5 0.17
32 7 0.23
ACGTcount: A:0.42, C:0.06, G:0.09, T:0.43
Consensus pattern (32 bp):
TAAGATTATCATAATTGATATAAACATCTTAT
Found at i:136837 original size:14 final size:14
Alignment explanation
Indices: 136820--136846 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
136810 ATGTCATTGA
136820 TCATTGTCCATTTG
1 TCATTGTCCATTTG
136834 TCATTGTCCATTT
1 TCATTGTCCATTT
136847 TGTTTAAGTT
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:0.22, G:0.11, T:0.52
Consensus pattern (14 bp):
TCATTGTCCATTTG
Found at i:142407 original size:30 final size:30
Alignment explanation
Indices: 142373--142435 Score: 117
Period size: 30 Copynumber: 2.1 Consensus size: 30
142363 TAAAATAAGA
142373 TTTATTTATTATTATGTTTAATTTTATTCC
1 TTTATTTATTATTATGTTTAATTTTATTCC
*
142403 TTTATTTATTGTTATGTTTAATTTTATTCC
1 TTTATTTATTATTATGTTTAATTTTATTCC
142433 TTT
1 TTT
142436 CTCTAAAATA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.21, C:0.06, G:0.05, T:0.68
Consensus pattern (30 bp):
TTTATTTATTATTATGTTTAATTTTATTCC
Found at i:143784 original size:17 final size:16
Alignment explanation
Indices: 143762--143793 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
143752 AATGGCCCAT
143762 TTATTTTTTCATTTTTA
1 TTATTTTTTC-TTTTTA
143779 TTATTTTTTCTTTTT
1 TTATTTTTTCTTTTT
143794 CCATTTTCCA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.12, C:0.06, G:0.00, T:0.81
Consensus pattern (16 bp):
TTATTTTTTCTTTTTA
Found at i:144533 original size:163 final size:162
Alignment explanation
Indices: 144299--144708 Score: 583
Period size: 163 Copynumber: 2.5 Consensus size: 162
144289 AAAAATAAGA
* * * * *
144299 AAATTTCAAGAAAAAAATGAAAAACTCAAGAAAATGAGTGAATTTTTGAAAAATAATTTAATATG
1 AAATTTCAAGAAAAAAATGAAAAACTCATGAAAATGAATAAATTTTTGAAAACTAATTTAATATA
*
144364 AAATAAATAATAATATTTGATAAATTTTAAAAATTAAAAACCAAAAAAAATCTCCCCGAAAAAAT
66 AAATAAATAATAATATTTGATAAATTTTAAAAATTAAAAACCAAAAAAAATC-CCCC-AAAAAAA
*
144429 TTACGGAGTAAAAAACTCTGTATTTCGAAAG-GG
129 TTACGAAGTAAAAAACTCTGTATTTCGAAAGAGG
*
144462 -AATTTCAAGAAAAAAATGAAAAAACTCATGAAAATGAATTAATTTTTGAAAACTAATTTAATAT
1 AAATTTCAAGAAAAAAATG-AAAAACTCATGAAAATGAATAAATTTTTGAAAACTAATTTAATAT
* *
144526 AAAATAAATAATAATATTTGTTAAATTTTAAAAATTAAAAACCAAGAAAAATCCCCCAAAAAAAT
65 AAAATAAATAATAATATTTGATAAATTTTAAAAATTAAAAACCAAAAAAAATCCCCCAAAAAAAT
*
144591 TACGAAGTAGAAAACTCTGTATTTCGAAAGTAGG
130 TACGAAGTAAAAAACTCTGTATTTCGAAAG-AGG
* * * *
144625 AAAATTTCAAGAAAAAAATGAAAAA-TGAATGAAAATGAATAAATTTTTTAAAACTAATTAAATG
1 -AAATTTCAAGAAAAAAATGAAAAACT-CATGAAAATGAATAAATTTTTGAAAACTAATTTAATA
* * *
144689 GAAATTAAATGATAATATTT
64 TAAAATAAATAATAATATTT
144709 AAAGAATTTT
Statistics
Matches: 223, Mismatches: 18, Indels: 11
0.88 0.07 0.04
Matches are distributed among these distances:
161 35 0.16
162 22 0.10
163 94 0.42
164 54 0.24
165 18 0.08
ACGTcount: A:0.54, C:0.08, G:0.10, T:0.28
Consensus pattern (162 bp):
AAATTTCAAGAAAAAAATGAAAAACTCATGAAAATGAATAAATTTTTGAAAACTAATTTAATATA
AAATAAATAATAATATTTGATAAATTTTAAAAATTAAAAACCAAAAAAAATCCCCCAAAAAAATT
ACGAAGTAAAAAACTCTGTATTTCGAAAGAGG
Found at i:144719 original size:164 final size:163
Alignment explanation
Indices: 144241--144720 Score: 580
Period size: 163 Copynumber: 2.9 Consensus size: 163
144231 TTTTAAATTG
* * ** * ** * *
144241 AGAAAAATCTCCCTGAAAATATTTACGGAGTAGAAAACTCAATTTTTTAAAAATAAGAAAATTTC
1 AGAAAAATCTCCC-CAAAAAATTTACGGAGTAGAAAACTCTGTATTTCGAAAGTAGGAAAATTTC
* * *
144306 AAGAAAAAAATGAAAAACTCAA-GAAAATGAGTGAATTTTTGAAAAATAATTTAATATGAAATAA
65 AAGAAAAAAATGAAAAACT-AATGAAAATGAATAAATTTTTGAAAACTAA-TTAA-ATGAAATAA
*
144370 ATAATAATATTTGATAAATTTTAAAAATTAAAAACCA
127 ATAATAATATTTGAAAAATTTTAAAAATTAAAAACCA
* *
144407 AAAAAAATCTCCCCGAAAAAATTTACGGAGTAAAAAACTCTGTATTTCGAAAG--GG--AATTTC
1 AGAAAAATCTCCCC-AAAAAATTTACGGAGTAGAAAACTCTGTATTTCGAAAGTAGGAAAATTTC
* * *
144468 AAGAAAAAAATGAAAAAACTCATGAAAATGAATTAATTTTTGAAAACTAATTTAATATAAAATAA
65 AAGAAAAAAATG-AAAAACTAATGAAAATGAATAAATTTTTGAAAACTAA-TTAA-ATGAAATAA
**
144533 ATAATAATATTTGTTAAATTTTAAAAATTAAAAACCA
127 ATAATAATATTTGAAAAATTTTAAAAATTAAAAACCA
* *
144570 AGAAAAATC-CCCCAAAAAAATTACGAAGTAGAAAACTCTGTATTTCGAAAGTAGGAAAATTTCA
1 AGAAAAATCTCCCCAAAAAATTTACGGAGTAGAAAACTCTGTATTTCGAAAGTAGGAAAATTTCA
*
144634 AGAAAAAAATGAAAAA-TGAATGAAAATGAATAAATTTTTTAAAACTAATTAAATGGAAATTAAA
66 AGAAAAAAATGAAAAACT-AATGAAAATGAATAAATTTTTGAAAACTAATTAAAT-GAAA-TAAA
*
144698 TGATAATATTT-AAAGAATTTTAA
128 TAATAATATTTGAAA-AATTTTAA
144721 TGTTCGAAAC
Statistics
Matches: 275, Mismatches: 28, Indels: 24
0.84 0.09 0.07
Matches are distributed among these distances:
161 35 0.13
162 25 0.09
163 100 0.36
164 55 0.20
165 18 0.07
166 42 0.15
ACGTcount: A:0.54, C:0.08, G:0.10, T:0.28
Consensus pattern (163 bp):
AGAAAAATCTCCCCAAAAAATTTACGGAGTAGAAAACTCTGTATTTCGAAAGTAGGAAAATTTCA
AGAAAAAAATGAAAAACTAATGAAAATGAATAAATTTTTGAAAACTAATTAAATGAAATAAATAA
TAATATTTGAAAAATTTTAAAAATTAAAAACCA
Found at i:147718 original size:15 final size:16
Alignment explanation
Indices: 147696--147732 Score: 67
Period size: 15 Copynumber: 2.4 Consensus size: 16
147686 TCCTTTTGAC
147696 CTCATTTATGCTACTT
1 CTCATTTATGCTACTT
147712 C-CATTTATGCTACTT
1 CTCATTTATGCTACTT
147727 CTCATT
1 CTCATT
147733 AGACTATCTA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
15 15 0.75
16 5 0.25
ACGTcount: A:0.19, C:0.27, G:0.05, T:0.49
Consensus pattern (16 bp):
CTCATTTATGCTACTT
Found at i:151407 original size:17 final size:18
Alignment explanation
Indices: 151369--151419 Score: 52
Period size: 16 Copynumber: 2.9 Consensus size: 18
151359 TCCAAGTTTT
* *
151369 TTTTCATTTTTTTATTAA
1 TTTTCATTTATTTATAAA
151387 -TTTCA-TTATTTATAAA
1 TTTTCATTTATTTATAAA
* *
151403 TTTTCTTTTAATTATAA
1 TTTTCATTTATTTATAA
151420 GCCAATAAAG
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
16 9 0.33
17 9 0.33
18 9 0.33
ACGTcount: A:0.29, C:0.06, G:0.00, T:0.65
Consensus pattern (18 bp):
TTTTCATTTATTTATAAA
Found at i:151737 original size:26 final size:26
Alignment explanation
Indices: 151707--151759 Score: 88
Period size: 26 Copynumber: 2.0 Consensus size: 26
151697 AAAGAAATGT
*
151707 TAGAATTTGTAATAACAATTAAGAAC
1 TAGAATTTGTAACAACAATTAAGAAC
*
151733 TAGAATTTGTAACAACAGTTAAGAAC
1 TAGAATTTGTAACAACAATTAAGAAC
151759 T
1 T
151760 GGCTATTACC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.47, C:0.09, G:0.13, T:0.30
Consensus pattern (26 bp):
TAGAATTTGTAACAACAATTAAGAAC
Found at i:156858 original size:166 final size:165
Alignment explanation
Indices: 156499--156867 Score: 374
Period size: 166 Copynumber: 2.2 Consensus size: 165
156489 TGAATATGTA
* * * *
156499 ATTTTTATATATTTGATGTTTAATTTCGTGTTTCAATTATGTAAGGACCAATTTTGTAATGTTAG
1 ATTTTAATATATTTGATG-TTAATTTTGTATTTTAATTATGTAAGGACCAATTTTGTAATGTTAG
* ** * * *
156564 AAAGTTTAAGGGTTTATTTGTAATATGTAAAATTTTTGTTCCAAAGCCAAAGGTATTTAGCCGAA
65 AAAGTTTAAGGGTTTATTTGTAATATGTAAAAATTTTACTCCAAAGCCAAAGATATTGAGCCAAA
* **
156629 TCTTTCTTGTAATTTTTGAATCTGATTTTTATGCTG
130 TCTTTCTTGTAATTTTGGAATCAAATTTTTATGCTG
* * * * * *
156665 ATTTAAATGTATTTGTTGCTTAATTTTGTATTTTAATTATGTAAAGG-CCAATTTTTTATTTTTA
1 ATTTTAATATATTTGATG-TTAATTTTGTATTTTAATTATGT-AAGGACCAATTTTGTAATGTTA
* *
156729 G-AAGTTTAGGGGTTTATTTGTAAATAT-TAAAAAATTTTACTCCAAGGCCAAAGATGA-TGAGC
64 GAAAGTTTAAGGGTTTATTTGT-AATATGT-AAAAATTTTACTCCAAAGCCAAAGAT-ATTGAGC
* * *
156791 CAAAAT-TTTCTTGTAGCTTTTGGAA-CAAATTTTTGTG-TT
126 C-AAATCTTTCTTGTA-ATTTTGGAATCAAATTTTTATGCTG
*
156830 AGTTTTGATATATTTGATGTTAAATTTTGTATTTTAAT
1 A-TTTTAATATATTTGATGTT-AATTTTGTATTTTAAT
156868 CATATAGGGA
Statistics
Matches: 166, Mismatches: 29, Indels: 16
0.79 0.14 0.08
Matches are distributed among these distances:
165 24 0.14
166 127 0.77
167 15 0.09
ACGTcount: A:0.30, C:0.07, G:0.16, T:0.47
Consensus pattern (165 bp):
ATTTTAATATATTTGATGTTAATTTTGTATTTTAATTATGTAAGGACCAATTTTGTAATGTTAGA
AAGTTTAAGGGTTTATTTGTAATATGTAAAAATTTTACTCCAAAGCCAAAGATATTGAGCCAAAT
CTTTCTTGTAATTTTGGAATCAAATTTTTATGCTG
Found at i:157647 original size:20 final size:20
Alignment explanation
Indices: 157622--157659 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
157612 TCTTATTTAT
* *
157622 ATTTTTTATAATAAAATTTG
1 ATTTTTTAAAAAAAAATTTG
157642 ATTTTTTAAAAAAAAATT
1 ATTTTTTAAAAAAAAATT
157660 AAGGCAATGT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (20 bp):
ATTTTTTAAAAAAAAATTTG
Done.