Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold259
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: 329074
ACGTcount: A:0.33, C:0.18, G:0.17, T:0.32
File 1 of 2
Found at i:2894 original size:156 final size:154
Alignment explanation
Indices: 2535--3087 Score: 556
Period size: 157 Copynumber: 3.5 Consensus size: 154
2525 GTCGGCAACT
* * * * * * * *
2535 TAGGACTTGATTTTAGAAAATTTATGAAAATGCCTCCATGGGCATACCTTTGAAATGAAAGTTTC
1 TAGGAC-TCATTTTAAAAAAATTATGAAAATGCC-CTATGGGTATACCTTCGACATGAAAGTATC
* * * * * *
2600 TCGGTAAACCTAAAAGACTTAAAAATGATCATAAATGAGATAAAAACTTTCCTAAATACCCACCT
64 TCGGTAACCCTAAAGGACTTAAAAAGGATCATAAATGGGAT-AAACCTATCCTAAATACCCACCT
*
2665 TTGGCATAAAAGTATCCCGGTGTATAACC
128 TTGGCATAAAAGCAT-CCGGTG-ATAACC
* * * * *
2694 TAAGACTCAGTTCTAATAAAATTATG-AAATGCCCT-TGTGAGTATACCTTTGACATAAAAGTAT
1 TAGGACTCA-TTTTAAAAAAATTATGAAAATGCCCTATG-G-GTATACCTTCGACATGAAAGTAT
* * * * **
2757 CTTGTTAACCCTAAAGGACTT-AAAAGGATCATAAATGGGATGAACCTATCCAAAATACTTACCT
63 CTCGGTAACCCTAAAGGACTTAAAAAGGATCATAAATGGGATAAACCTATCCTAAATACCCACCT
*
2821 TTGGCATAAAAGCATCCAGGTGACAACC
128 TTGGCATAAAAGCATCC-GGTGATAACC
** * *
2849 TAGGACTCATTTTTGGAAAAATTATGAAAATGCCACTTTGGGTATACCTTCGACTTGAAAGTATC
1 TAGGACTCA-TTTTAAAAAAATTATGAAAATGCC-CTATGGGTATACCTTCGACATGAAAGTATC
** * * *
2914 -CTAATAACTCTAAAGGACTTAAAAAGGATCATAAATAGGATAAACCTATCCTAAATACCCACAT
64 TC-GGTAACCCTAAAGGACTTAAAAAGGATCATAAATGGGATAAACCTATCCTAAATACCCACCT
* * *
2978 TTGGTATAAAAACATCTCGATGATAACC
128 TTGGCATAAAAGCATC-CGGTGATAACC
* * *
3006 TAGGACTCGATTTTAAAAAAATTATGGAAATGCCCATATGGGTATACCTTCAATATGAAAGTATC
1 TAGGACTC-ATTTTAAAAAAATTATGAAAATGCCC-TATGGGTATACCTTCGACATGAAAGTATC
*
3071 TCGGCAACCCTAAAGGA
64 TCGGTAACCCTAAAGGA
3088 TAGGAAAAAG
Statistics
Matches: 322, Mismatches: 59, Indels: 28
0.79 0.14 0.07
Matches are distributed among these distances:
155 27 0.08
156 81 0.25
157 147 0.46
158 50 0.16
159 17 0.05
ACGTcount: A:0.39, C:0.18, G:0.15, T:0.28
Consensus pattern (154 bp):
TAGGACTCATTTTAAAAAAATTATGAAAATGCCCTATGGGTATACCTTCGACATGAAAGTATCTC
GGTAACCCTAAAGGACTTAAAAAGGATCATAAATGGGATAAACCTATCCTAAATACCCACCTTTG
GCATAAAAGCATCCGGTGATAACC
Found at i:3895 original size:13 final size:13
Alignment explanation
Indices: 3877--3903 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
3867 ACATTATGCT
3877 TTGTATCGATACA
1 TTGTATCGATACA
3890 TTGTATCGATACA
1 TTGTATCGATACA
3903 T
1 T
3904 GCTCATTGTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:3999 original size:21 final size:21
Alignment explanation
Indices: 3952--4006 Score: 78
Period size: 20 Copynumber: 2.7 Consensus size: 21
3942 CTACCACTGT
3952 TTGTATCGATACATGGGACAA
1 TTGTATCGATACATGGGACAA
*
3973 -TGTATCGATACATGATGA-AA
1 TTGTATCGATACATG-GGACAA
3993 TTGTATCGATACAT
1 TTGTATCGATACAT
4007 TGCTTGTAAC
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
20 16 0.52
21 15 0.48
ACGTcount: A:0.35, C:0.13, G:0.20, T:0.33
Consensus pattern (21 bp):
TTGTATCGATACATGGGACAA
Found at i:12693 original size:19 final size:19
Alignment explanation
Indices: 12668--12724 Score: 69
Period size: 19 Copynumber: 2.9 Consensus size: 19
12658 TTGTATCGAT
*
12668 ACATTGTATTGATACATGC
1 ACATTGTATCGATACATGC
* * *
12687 TCATTGTATCAATACATGG
1 ACATTGTATCGATACATGC
12706 ACAATTGTATCGATACATG
1 AC-ATTGTATCGATACATG
12725 AGATTGGCAG
Statistics
Matches: 31, Mismatches: 6, Indels: 1
0.82 0.16 0.03
Matches are distributed among these distances:
19 16 0.52
20 15 0.48
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.35
Consensus pattern (19 bp):
ACATTGTATCGATACATGC
Found at i:12792 original size:13 final size:13
Alignment explanation
Indices: 12774--12822 Score: 63
Period size: 13 Copynumber: 4.2 Consensus size: 13
12764 CATGAGATAA
12774 TGTATCGATACAT
1 TGTATCGATACAT
12787 TGTATCGATACA-
1 TGTATCGATACAT
12799 TG-AT-GA-A-AT
1 TGTATCGATACAT
12808 TGTATCGATACAT
1 TGTATCGATACAT
12821 TG
1 TG
12823 CTTGTAACGA
Statistics
Matches: 31, Mismatches: 0, Indels: 10
0.76 0.00 0.24
Matches are distributed among these distances:
8 1 0.03
9 3 0.10
10 4 0.13
11 4 0.13
12 3 0.10
13 16 0.52
ACGTcount: A:0.33, C:0.12, G:0.18, T:0.37
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:12795 original size:33 final size:34
Alignment explanation
Indices: 12753--12822 Score: 117
Period size: 33 Copynumber: 2.1 Consensus size: 34
12743 CTACCACTGT
12753 TTGTATCGATACATGA-GATAA-TGTATCGATACA
1 TTGTATCGATACATGATGA-AATTGTATCGATACA
12786 TTGTATCGATACATGATGAAATTGTATCGATACA
1 TTGTATCGATACATGATGAAATTGTATCGATACA
12820 TTG
1 TTG
12823 CTTGTAACGA
Statistics
Matches: 35, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
33 18 0.51
34 17 0.49
ACGTcount: A:0.34, C:0.11, G:0.19, T:0.36
Consensus pattern (34 bp):
TTGTATCGATACATGATGAAATTGTATCGATACA
Found at i:15198 original size:153 final size:153
Alignment explanation
Indices: 15038--15582 Score: 722
Period size: 153 Copynumber: 3.6 Consensus size: 153
15028 CAAAACCTAG
* * * * *
15038 AAAATAAACTGAATTTTCTAAAACTAATTTAAGATAAATTAAATAATAATATTTAAAGAATTTTG
1 AAAATAAATTGAATTTT-TAAAACTAATTTAATATAAATTAAACAATAATATTTGAAGAATTTTA
* *
15103 AAAATTATAAACTTAGAAAAATCCTACTAGAGAAATTTATGGAGTAGAAAACTCCATATTTCGGT
65 AAAATTATAAACTTAGAAAAATCCTACTAGAGAAATTTATGGAGTAGAAAACTCCGTATTTTGGT
*
15168 AATAGAAAAAATT-TTGAACTCAT
130 AATAGAAAAAATTCTTAAACTCAT
*
15191 AAAATAAATTGAATTTTCTAAAACTAATTTAATATAAACTAAACAATAATATTTGAAGAATTTTA
1 AAAATAAATTGAATTTT-TAAAACTAATTTAATATAAATTAAACAATAATATTTGAAGAATTTTA
*
15256 AAAATTATAAACTTAGAAAAATCCTAC-AGGAGAAATATATGGAGTAGAAAACTCCGTATTTTGG
65 AAAATTATAAACTTAGAAAAATCCTACTA-GAGAAATTTATGGAGTAGAAAACTCCGTATTTTGG
*
15320 TAATAG-AAAAATTCCTAAACTCAT
129 TAATAGAAAAAATTCTTAAACTCAT
* * * *
15344 ACAATAAATTAAAATTTTTAAAACTAATTTAATATGAATTAAAAAATAATATTTGAAGAATTTTA
1 AAAATAAATT-GAATTTTTAAAACTAATTTAATATAAATTAAACAATAATATTTGAAGAATTTTA
** * * * * * *
15409 AAAATTATACGCTTAGAAAAATCTTACTA-AAAAAATTATAGAGTAGAAAACTCTGTATTTTGAT
65 AAAATTATAAACTTAGAAAAATCCTACTAGAGAAATTTATGGAGTAGAAAACTCCGTATTTTGGT
** * *
15473 AGCA-AAAAAATTCTAAAACTTAT
130 AATAGAAAAAATTCTTAAACTCAT
* * * *
15496 AAAATAAATTGAAAATTTTAAAACTGATTTAATACAAATTAAACAATAACATTTGAAGAATTTTA
1 AAAATAAATTG-AATTTTTAAAACTAATTTAATATAAATTAAACAATAATATTTGAAGAATTTTA
*
15561 AAAATTATAAACTGAGAAAAAT
65 AAAATTATAAACTTAGAAAAAT
15583 ACTAACAAAA
Statistics
Matches: 345, Mismatches: 41, Indels: 13
0.86 0.10 0.03
Matches are distributed among these distances:
152 129 0.37
153 209 0.61
154 7 0.02
ACGTcount: A:0.51, C:0.08, G:0.09, T:0.32
Consensus pattern (153 bp):
AAAATAAATTGAATTTTTAAAACTAATTTAATATAAATTAAACAATAATATTTGAAGAATTTTAA
AAATTATAAACTTAGAAAAATCCTACTAGAGAAATTTATGGAGTAGAAAACTCCGTATTTTGGTA
ATAGAAAAAATTCTTAAACTCAT
Found at i:15623 original size:305 final size:307
Alignment explanation
Indices: 15049--15623 Score: 757
Period size: 305 Copynumber: 1.9 Consensus size: 307
15039 AAATAAACTG
* *
15049 AATTTTCTAAAACTAATTTAAGATAAATTAAATAATAATATTTAAAGAATTTTGAAAATTATAAA
1 AATTTTCTAAAACTAATTTAAGATAAATTAAAAAATAATATTTAAAGAATTTTAAAAATTATAAA
* * * * *
15114 CTTAGAAAAATCCTACTAGAGAAATTTATGGAGTAGAAAACTCCATATTTCGGTAATAGAAAAAA
66 CTTAGAAAAATCCTACTAGAAAAAATTATAGAGTAGAAAACTCCATATTTCGATAACAGAAAAAA
** * * *
15179 TTTTGAACTCATAAAATAAATTGAATTTTCTAAAACTAATTTAATATAAACTAAACAATAATATT
131 TTTAAAACTCATAAAATAAATTGAAATTTCTAAAACTAATTTAATACAAACTAAACAATAACATT
* * * * ***
15244 TGAAGAATTTTAAAAATTATAAACTTAGAAAAATCCTACAGGAGAAATATATGGAGTAGAAAACT
196 TGAAGAATTTTAAAAATTATAAACTGAGAAAAATACTACAGAAAAAATATACAAAGTAGAAAACT
*
15309 CCGTATTTTGGTAATAGAAAAATTCCTAAACTCATACAATAAATTAA
261 CCATATTTTGGTAATAGAAAAATTCCTAAACTCATACAATAAATTAA
* * * **
15356 AATTTT-TAAAACTAATTTAATATGAATTAAAAAATAATATTTGAAGAATTTTAAAAATTATACG
1 AATTTTCTAAAACTAATTTAAGATAAATTAAAAAATAATATTTAAAGAATTTTAAAAATTATAAA
* ** * *
15420 CTTAGAAAAATCTTACTA-AAAAAATTATAGAGTAGAAAACTCTGTATTTTGATAGCA-AAAAAA
66 CTTAGAAAAATCCTACTAGAAAAAATTATAGAGTAGAAAACTCCATATTTCGATAACAGAAAAAA
* * *
15483 TTCTAAAACTTATAAAATAAATTGAAAATTT-TAAAACTGATTTAATACAAATTAAACAATAACA
131 TT-TAAAACTCATAAAATAAATTG-AAATTTCTAAAACTAATTTAATACAAACTAAACAATAACA
*
15547 TTTGAAGAATTTTAAAAATTATAAACTGAGAAAAATACTAACA-AAAAAATTTACAAAGTCA-AA
194 TTTGAAGAATTTTAAAAATTATAAACTGAGAAAAATACT-ACAGAAAAAATATACAAAGT-AGAA
*
15610 AACTTCATATTTTG
257 AACTCCATATTTTG
15624 AAAATAAAAA
Statistics
Matches: 229, Mismatches: 35, Indels: 10
0.84 0.13 0.04
Matches are distributed among these distances:
304 8 0.03
305 138 0.60
306 77 0.34
307 6 0.03
ACGTcount: A:0.51, C:0.09, G:0.08, T:0.33
Consensus pattern (307 bp):
AATTTTCTAAAACTAATTTAAGATAAATTAAAAAATAATATTTAAAGAATTTTAAAAATTATAAA
CTTAGAAAAATCCTACTAGAAAAAATTATAGAGTAGAAAACTCCATATTTCGATAACAGAAAAAA
TTTAAAACTCATAAAATAAATTGAAATTTCTAAAACTAATTTAATACAAACTAAACAATAACATT
TGAAGAATTTTAAAAATTATAAACTGAGAAAAATACTACAGAAAAAATATACAAAGTAGAAAACT
CCATATTTTGGTAATAGAAAAATTCCTAAACTCATACAATAAATTAA
Found at i:16751 original size:67 final size:67
Alignment explanation
Indices: 16559--17236 Score: 325
Period size: 65 Copynumber: 10.4 Consensus size: 67
16549 GGTTAAAATA
* * * * * * *
16559 GTGACTAGAGTGACACCTAAGTCAAAAAGAAGTTGACCAGGGTGAAACCATAACGTTAAC-TAAA
1 GTGACTAGGGTGAAACCTAAGTTAAAAAGAGGTTGACCAAGGCGAAACCATAACGTCAACTTAAA
*
16623 AA
66 AG
* ** ** ** * *
16625 GTG---A--GTAAAACCTAAGTTTGAAAGAAATTGACCAAGGCGAAACCATAATATAAATTTAAA
1 GTGACTAGGGTGAAACCTAAGTTAAAAAGAGGTTGACCAAGGCGAAACCATAACGTCAACTTAAA
16685 AG
66 AG
* * *
16687 GTGACTAGGGTGAAATCTAAGTTAAAAAGAGGTTGACCAAGGCAAAATCATAACGTCAACTTAAA
1 GTGACTAGGGTGAAACCTAAGTTAAAAAGAGGTTGACCAAGGCGAAACCATAACGTCAACTTAAA
16752 AG
66 AG
** * ** *
16754 GTGACTAGGGCAAAACCTAAGTTAAAAAGAGGTTGATCAAGATGAAACCATCACGTCAAC--AAA
1 GTGACTAGGGTGAAACCTAAGTTAAAAAGAGGTTGACCAAGGCGAAACCATAACGTCAACTTAAA
*
16817 TG
66 AG
* * * * * * * *
16819 ATGACTACGGTGAAACCTAAG-TCAAAA-AGGTTGACTAGGGTGAAACCATCATGTCAAC--AAA
1 GTGACTAGGGTGAAACCTAAGTTAAAAAGAGGTTGACCAAGGCGAAACCATAACGTCAACTTAAA
*
16880 TG
66 AG
* * * * * * * * *
16882 ATGACTATGATGAAACCTAAGTCAAAAAGAGGTTGACTAGGGCGAAACCATTACATTAAC---AA
1 GTGACTAGGGTGAAACCTAAGTTAAAAAGAGGTTGACCAAGGCGAAACCATAACGTCAACTTAAA
16944 AG
66 AG
* * * * * ** * * *
16946 GATGACCAAGGT-AAATCCTAAGGTGAAAAGAAGTTGA-CTTGAGCAAAACCATCACATCAA--T
1 G-TGACTAGGGTGAAA-CCTAAGTTAAAAAGAGGTTGACCAAG-GCGAAACCATAACGTCAACTT
17007 -AAAG
63 AAAAG
* * * * * * *
17011 GATGACCAAGATAAAACCTAAGTCGAAAAA-AGGTTGACCAAGGCAAAACCATCACGTCAAC---
1 G-TGACTAGGGTGAAACCTAAGT-TAAAAAGAGGTTGACCAAGGCGAAACCATAACGTCAACTTA
17072 AAAG
64 AAAG
* * * * * * * * **
17076 GATGACTAAGGTGAAACCTAAG-TCAAAAGAAGTTGACTAGGGTGAAATCATCACGTTGAC---A
1 G-TGACTAGGGTGAAACCTAAGTTAAAAAGAGGTTGACCAAGGCGAAACCATAACGTCAACTTAA
17137 AAG
65 AAG
* * * * * ** * * * *
17140 GATGACCAAGATGGAACCTAAGTCAAAAAGAGGTTGATTAGGGCAAAACCATCACGTCAAC-AAA
1 G-TGACTAGGGTGAAACCTAAGTTAAAAAGAGGTTGACCAAGGCGAAACCATAACGTCAACTTAA
17204 AAG
65 AAG
* *
17207 GTGACTAGGGTAAAACCTAAGTTGAAAAGA
1 GTGACTAGGGTGAAACCTAAGTTAAAAAGA
17237 AGTCGAATAA
Statistics
Matches: 483, Mismatches: 109, Indels: 40
0.76 0.17 0.06
Matches are distributed among these distances:
61 39 0.08
62 8 0.02
63 55 0.11
64 62 0.13
65 183 0.38
66 34 0.07
67 102 0.21
ACGTcount: A:0.44, C:0.16, G:0.21, T:0.19
Consensus pattern (67 bp):
GTGACTAGGGTGAAACCTAAGTTAAAAAGAGGTTGACCAAGGCGAAACCATAACGTCAACTTAAA
AG
Found at i:16833 original size:33 final size:33
Alignment explanation
Indices: 16796--16906 Score: 124
Period size: 33 Copynumber: 3.5 Consensus size: 33
16786 TTGATCAAGA
*
16796 TGAAACCATCACGTCAACAAATGATGACTACGG
1 TGAAACCATCAAGTCAACAAATGATGACTACGG
* * *
16829 TGAAACC-T-AAGTCAA-AAAGGTTGACTAGGG
1 TGAAACCATCAAGTCAACAAATGATGACTACGG
* * *
16859 TGAAACCATCATGTCAACAAATGATGACTATGA
1 TGAAACCATCAAGTCAACAAATGATGACTACGG
16892 TGAAACC-T-AAGTCAA
1 TGAAACCATCAAGTCAA
16907 AAAGAGGTTG
Statistics
Matches: 65, Mismatches: 10, Indels: 8
0.78 0.12 0.10
Matches are distributed among these distances:
30 19 0.29
31 13 0.20
32 8 0.12
33 25 0.38
ACGTcount: A:0.41, C:0.19, G:0.19, T:0.21
Consensus pattern (33 bp):
TGAAACCATCAAGTCAACAAATGATGACTACGG
Found at i:16911 original size:195 final size:193
Alignment explanation
Indices: 16683--17112 Score: 447
Period size: 195 Copynumber: 2.2 Consensus size: 193
16673 TATAAATTTA
* * * * *
16683 AAAGG-TGACTAGGGTGAAATCTAAGTTAAAAAGAGGTTGACCAAGGCAAAATCATAACGTCAAC
1 AAAGGATGACTAAGGTGAAACCTAAGTCAAAAAGAGGTTGACCAAGGCAAAACCATAACATCAAC
* * * * *
16747 TTAAAAGG-TGACTAGGGCAAAACCTAAGTTAAAAAGAGGTTGATCAAGATG-AAACCATCACGT
66 ---AAAGGATGACCAAGGCAAAACCTAAGGTAAAAAGAAGTTGA-CAAGA-GAAAACCATCACAT
* * * * * * * ** *
16810 CAACAAATGATGACTACGGTGAAACCTAAGTC-AAAAAGGTTGACTAGGGTGAAACCATCATGTC
126 CAACAAAGGATGACCAAGATAAAACCTAAGTCAAAAAAGGTTGACCAAGGCAAAACCATCACGTC
16874 AAC
191 AAC
* * * * * * * *
16877 AAATGATGACTATGATGAAACCTAAGTCAAAAAGAGGTTGACTAGGGCGAAACCATTACATTAAC
1 AAAGGATGACTAAGGTGAAACCTAAGTCAAAAAGAGGTTGACCAAGGCAAAACCATAACATCAAC
* * * ** *
16942 AAAGGATGACCAAGGTAAATCCTAAGGTGAAAAGAAGTTGACTTGAGCAAAACCATCACATCAAT
66 AAAGGATGACCAAGGCAAAACCTAAGGTAAAAAGAAGTTGACAAGAG-AAAACCATCACATCAAC
17007 AAAGGATGACCAAGATAAAACCTAAGTCGAAAAAAGGTTGACCAAGGCAAAACCATCACGTCAAC
130 AAAGGATGACCAAGATAAAACCTAAGTC-AAAAAAGGTTGACCAAGGCAAAACCATCACGTCAAC
*
17072 AAAGGATGACTAAGGTGAAACCTAAGTC-AAAAGAAGTTGAC
1 AAAGGATGACTAAGGTGAAACCTAAGTCAAAAAGAGGTTGAC
17113 TAGGGTGAAA
Statistics
Matches: 193, Mismatches: 37, Indels: 12
0.80 0.15 0.05
Matches are distributed among these distances:
191 1 0.01
192 8 0.04
193 65 0.34
194 16 0.08
195 103 0.53
ACGTcount: A:0.44, C:0.17, G:0.21, T:0.18
Consensus pattern (193 bp):
AAAGGATGACTAAGGTGAAACCTAAGTCAAAAAGAGGTTGACCAAGGCAAAACCATAACATCAAC
AAAGGATGACCAAGGCAAAACCTAAGGTAAAAAGAAGTTGACAAGAGAAAACCATCACATCAACA
AAGGATGACCAAGATAAAACCTAAGTCAAAAAAGGTTGACCAAGGCAAAACCATCACGTCAAC
Found at i:16950 original size:65 final size:65
Alignment explanation
Indices: 16766--17203 Score: 422
Period size: 65 Copynumber: 6.8 Consensus size: 65
16756 GACTAGGGCA
* * ** * * * * *
16766 AAACCTAAGTTAAAAAGAGGTTGA-TCAAGATGAAACCATCACGTCAACAAATGATGACTACGGT
1 AAACCTAAGTCAAAAAGAGGTTGACT-AGGGCGAAACCATCACATCAACAAAGGATGACCAAGAT
16830 G
65 G
* ** * * *
16831 AAACCTAAGTC-AAAA-AGGTTGACTAGGGTGAAACCATCATGTCAACAAATGATGACTATGATG
1 AAACCTAAGTCAAAAAGAGGTTGACTAGGGCGAAACCATCACATCAACAAAGGATGACCAAGATG
* * *
16894 AAACCTAAGTCAAAAAGAGGTTGACTAGGGCGAAACCATTACATTAACAAAGGATGACCAAGGT-
1 AAACCTAAGTCAAAAAGAGGTTGACTAGGGCGAAACCATCACATCAACAAAGGATGACCAAGATG
* * * * * *
16958 AAATCCTAAGGT-GAAAAGAAGTTGACTTGAGCAAAACCATCACATCAATAAAGGATGACCAAGA
1 AAA-CCTAA-GTCAAAAAGAGGTTGACTAGGGCGAAACCATCACATCAACAAAGGATGACCAAGA
*
17022 TA
64 TG
* * * * * *
17024 AAACCTAAGTCGAAAAA-AGGTTGACCAAGGCAAAACCATCACGTCAACAAAGGATGACTAAGGT
1 AAACCTAAGTC-AAAAAGAGGTTGACTAGGGCGAAACCATCACATCAACAAAGGATGACCAAGAT
17088 G
65 G
* * * * **
17089 AAACCTAAGTC-AAAAGAAGTTGACTAGGGTGAAATCATCACGTTGACAAAGGATGACCAAGATG
1 AAACCTAAGTCAAAAAGAGGTTGACTAGGGCGAAACCATCACATCAACAAAGGATGACCAAGATG
* * * *
17153 GAACCTAAGTCAAAAAGAGGTTGATTAGGGCAAAACCATCACGTCAACAAA
1 AAACCTAAGTCAAAAAGAGGTTGACTAGGGCGAAACCATCACATCAACAAA
17204 AAGGTGACTA
Statistics
Matches: 310, Mismatches: 53, Indels: 20
0.81 0.14 0.05
Matches are distributed among these distances:
63 56 0.18
64 62 0.20
65 183 0.59
66 9 0.03
ACGTcount: A:0.44, C:0.17, G:0.21, T:0.18
Consensus pattern (65 bp):
AAACCTAAGTCAAAAAGAGGTTGACTAGGGCGAAACCATCACATCAACAAAGGATGACCAAGATG
Found at i:17049 original size:32 final size:31
Alignment explanation
Indices: 17002--17103 Score: 105
Period size: 32 Copynumber: 3.2 Consensus size: 31
16992 AACCATCACA
* *
17002 TCAATAAAGGATGACCAAGATAAAACCTAAG
1 TCAAAAAAGGATGACCAAGGTAAAACCTAAG
* * *
17033 TCGAAAAAAGGTTGACCAAGGCAAAACCATCACG
1 TC-AAAAAAGGATGACCAAGGTAAAACC-T-AAG
* * *
17067 TCAACAAAGGATGACTAAGGTGAAACCTAAG
1 TCAAAAAAGGATGACCAAGGTAAAACCTAAG
17098 TCAAAA
1 TCAAAA
17104 GAAGTTGACT
Statistics
Matches: 56, Mismatches: 12, Indels: 6
0.76 0.16 0.08
Matches are distributed among these distances:
31 9 0.16
32 22 0.39
33 21 0.38
34 4 0.07
ACGTcount: A:0.48, C:0.19, G:0.19, T:0.15
Consensus pattern (31 bp):
TCAAAAAAGGATGACCAAGGTAAAACCTAAG
Found at i:17174 original size:129 final size:129
Alignment explanation
Indices: 16766--17239 Score: 533
Period size: 130 Copynumber: 3.7 Consensus size: 129
16756 GACTAGGGCA
* * *** * *
16766 AAACCTAAGTTAAAAAGAGGTTGATCAAGATGAAACCATCACGTCAACAAATGATGACTACGGTG
1 AAACCTAAGTCAAAAAGAGGTTGACCAAGGCAAAACCATCACGTCAACAAAGGATGACTAAGGTG
* * * * *
16831 AAACCTAAGTCAAAA-AGGTTGACTAGGGTGAAACCATCATGTCAACAAATGATGACTATGATG
66 AAACCTAAGTCAAAAGAAGTTGACTAGGGTGAAACCATCACGTCAACAAAGGATGACCAAGATG
* * * * * * *
16894 AAACCTAAGTCAAAAAGAGGTTGACTAGGGCGAAACCATTACATTAACAAAGGATGACCAAGGT-
1 AAACCTAAGTCAAAAAGAGGTTGACCAAGGCAAAACCATCACGTCAACAAAGGATGACTAAGGTG
* * * ** * *
16958 AAATCCTAAGGTGAAAAGAAGTTGACTTGAGCAAAACCATCACATCAATAAAGGATGACCAAGAT
66 AAA-CCTAA-GTCAAAAGAAGTTGACTAGGGTGAAACCATCACGTCAACAAAGGATGACCAAGAT
*
17023 A
129 G
17024 AAACCTAAGTCGAAAAA-AGGTTGACCAAGGCAAAACCATCACGTCAACAAAGGATGACTAAGGT
1 AAACCTAAGTC-AAAAAGAGGTTGACCAAGGCAAAACCATCACGTCAACAAAGGATGACTAAGGT
* **
17088 GAAACCTAAGTCAAAAGAAGTTGACTAGGGTGAAATCATCACGTTGACAAAGGATGACCAAGATG
65 GAAACCTAAGTCAAAAGAAGTTGACTAGGGTGAAACCATCACGTCAACAAAGGATGACCAAGATG
* ** * *
17153 GAACCTAAGTCAAAAAGAGGTTGATTAGGGCAAAACCATCACGTCAACAAAAAGG-TGACTAGGG
1 AAACCTAAGTCAAAAAGAGGTTGACCAAGGCAAAACCATCACGTCAAC--AAAGGATGACTAAGG
* *
17217 TAAAACCTAAGTTGAAAAGAAGT
64 TGAAACCTAAG-TCAAAAGAAGT
17240 CGAATAACAT
Statistics
Matches: 287, Mismatches: 50, Indels: 15
0.82 0.14 0.04
Matches are distributed among these distances:
127 3 0.01
128 62 0.22
129 89 0.31
130 110 0.38
131 23 0.08
ACGTcount: A:0.44, C:0.17, G:0.21, T:0.18
Consensus pattern (129 bp):
AAACCTAAGTCAAAAAGAGGTTGACCAAGGCAAAACCATCACGTCAACAAAGGATGACTAAGGTG
AAACCTAAGTCAAAAGAAGTTGACTAGGGTGAAACCATCACGTCAACAAAGGATGACCAAGATG
Found at i:17838 original size:76 final size:74
Alignment explanation
Indices: 17673--17853 Score: 186
Period size: 76 Copynumber: 2.4 Consensus size: 74
17663 TGGTTTTCAC
* * *
17673 AATTTCCTATCAATAGCCAAAACGAATTAATGACAAGTTGGAAAAAAAAACACAATGGGGAATAT
1 AATTTCC-ATCAATAGCCAAAACAAATTGATGACAAGTTGGAAAAAAAAACACAATGGAGAATAT
*
17738 ATGTTTCTAA
65 ATGCTTCTAA
** * * * * *
17748 AATTTTTATTAATAGTCGAAACAAATTGATGACAAGCTGTAGGAAAAGAACA-AC-ATGGAGAAT
1 AATTTCCATCAATAGCCAAAACAAATTGATGACAAG-T-T-GGAAAAAAAAACACAATGGAGAAT
*
17811 ATGTGACTTCTAA
63 ATATG-CTTCTAA
*
17824 AATTTCCATCAATAGCCAAAACAAGTTGAT
1 AATTTCCATCAATAGCCAAAACAAATTGAT
17854 AATGGCCTAA
Statistics
Matches: 84, Mismatches: 18, Indels: 7
0.77 0.17 0.06
Matches are distributed among these distances:
74 24 0.29
75 18 0.21
76 33 0.39
77 9 0.11
ACGTcount: A:0.45, C:0.13, G:0.15, T:0.27
Consensus pattern (74 bp):
AATTTCCATCAATAGCCAAAACAAATTGATGACAAGTTGGAAAAAAAAACACAATGGAGAATATA
TGCTTCTAA
Found at i:17901 original size:76 final size:76
Alignment explanation
Indices: 17821--18063 Score: 288
Period size: 76 Copynumber: 3.2 Consensus size: 76
17811 ATGTGACTTC
* * ** ** *
17821 TAAAATTTCCATCAATAGCCAAAACAAGTTGATAATGGCCTAAAGAAGAAGAACATGATGGGGAA
1 TAAAATTTCCATCAACAACCAAAACAAACTGATAAAAGCTTAAAGAAGAAGAACATGATGGGGAA
17886 TATGTTGTTTT
66 TATGTTGTTTT
** * * * *
17897 TAAAATTTTTATCAACAACCAAAACAAACTGATAACAGCTTGAAGAAGAAGAACATAATGGGAAA
1 TAAAATTTCCATCAACAACCAAAACAAACTGATAAAAGCTTAAAGAAGAAGAACATGATGGGGAA
*
17962 TATGTTGTTTC
66 TATGTTGTTTT
** * * * * *
17973 TAAAATTTTTATCAACAACTAAAACAAAACTGATAAAAACTTAAAAAAGAAAAACATGATAGGGA
1 TAAAATTTCCATCAACAACCAAAAC-AAACTGATAAAAGCTTAAAGAAGAAGAACATGATGGGGA
18038 ATATGTTGTTTT
65 ATATGTTGTTTT
18050 TAAAATTTCCATCA
1 TAAAATTTCCATCA
18064 GCTTAAAAAA
Statistics
Matches: 141, Mismatches: 25, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
76 87 0.62
77 54 0.38
ACGTcount: A:0.46, C:0.12, G:0.14, T:0.28
Consensus pattern (76 bp):
TAAAATTTCCATCAACAACCAAAACAAACTGATAAAAGCTTAAAGAAGAAGAACATGATGGGGAA
TATGTTGTTTT
Found at i:17950 original size:152 final size:153
Alignment explanation
Indices: 17714--18057 Score: 344
Period size: 152 Copynumber: 2.3 Consensus size: 153
17704 GACAAGTTGG
** * * * * ** * *
17714 AAAA-AAAAACACAATGGGGAATAT-ATGTTTCTAAAATTTTTATTAATAGTCGAAACAAATTGA
1 AAAAGAAAAACATGATGGGGAATATGTTGTTTTTAAAATTTTTATCAACAACCAAAACAAACTGA
* * * *
17777 TGACAAGCTGTAGGAAAAGAACA-ACAT-GGAGAATATG-TGACTTCTAAAATTTCCATCAATAG
66 TAACAAGCTGTAAGAAAAGAACATA-ATGGGA-AATATGTTG-CTTCTAAAATTTCCATCAACAA
** ***
17839 CCAAAAC-AAGTTGATAATGGCCTAA
128 CCAAAACAAAACTGATAAAAACCTAA
* *
17864 AGAAGAAGAACATGATGGGGAATATGTTGTTTTTAAAATTTTTATCAACAACCAAAACAAACTGA
1 AAAAGAAAAACATGATGGGGAATATGTTGTTTTTAAAATTTTTATCAACAACCAAAACAAACTGA
* **
17929 TAAC-AGCT-TGAAGAAGAAGAACATAATGGGAAATATGTTGTTTCTAAAATTTTTATCAACAAC
66 TAACAAGCTGT-AAGAA-AAGAACATAATGGGAAATATGTTGCTTCTAAAATTTCCATCAACAAC
* *
17992 TAAAACAAAACTGATAAAAACTTAA
129 CAAAACAAAACTGATAAAAACCTAA
*
18017 AAAAGAAAAACATGATAGGGAATATGTTGTTTTTAAAATTT
1 AAAAGAAAAACATGATGGGGAATATGTTGTTTTTAAAATTT
18058 CCATCAGCTT
Statistics
Matches: 157, Mismatches: 29, Indels: 13
0.79 0.15 0.07
Matches are distributed among these distances:
150 4 0.03
151 25 0.16
152 72 0.46
153 56 0.36
ACGTcount: A:0.46, C:0.11, G:0.15, T:0.28
Consensus pattern (153 bp):
AAAAGAAAAACATGATGGGGAATATGTTGTTTTTAAAATTTTTATCAACAACCAAAACAAACTGA
TAACAAGCTGTAAGAAAAGAACATAATGGGAAATATGTTGCTTCTAAAATTTCCATCAACAACCA
AAACAAAACTGATAAAAACCTAA
Found at i:19615 original size:110 final size:109
Alignment explanation
Indices: 19407--19731 Score: 404
Period size: 110 Copynumber: 2.9 Consensus size: 109
19397 CTCTGGCTAG
* * * *
19407 CTCAAAAATTTCAGAACTAATAGGATGCATCCC-ATTTTCCTAGG-TACGAATAGATCTGGTCGT
1 CTCAAAAATTTCAAAACTAATAGGATGCATCCCTATTTTCCTAGGCT-CGAATGGATCAGGTTGT
* * *
19470 ATAAAATATGAATTTTTTTAAAATTAGACAAATTTGATGTCGTTGT
65 ATAAAATATGAATTTTTTGAAAATCAGA-AAATTTGATGTCATTGT
* * * * *
19516 CTCAAAAATTTCAAAACTAATAAGATACATCCCTATTTTCTTAGGCTCAAATGGATCAGGTTGCA
1 CTCAAAAATTTCAAAACTAATAGGATGCATCCCTATTTTCCTAGGCTCGAATGGATCAGGTTGTA
** *
19581 TAAAATATGAATTTGATGAAAATCAGAAAGATTTGATGTCATTTT
66 TAAAATATGAATTTTTTGAAAATCAGAAA-ATTTGATGTCATTGT
* *
19626 CTCAAAAATTTCAAAACTAATAGGATGCATGCCTTATTTTCCTAGGCAT-GAATGGATCAAGTTG
1 CTCAAAAATTTCAAAACTAATAGGATGCAT-CCCTATTTTCCTAGGC-TCGAATGGATCAGGTTG
*
19690 TATAAAATATGAATTTCTTTGAAAATCAAACAAATTTGATGT
64 TATAAAATATGAATTT-TTTGAAAATCAGA-AAATTTGATGT
19732 TCTTTCAAGT
Statistics
Matches: 184, Mismatches: 25, Indels: 11
0.84 0.11 0.05
Matches are distributed among these distances:
109 32 0.17
110 87 0.47
111 43 0.23
112 20 0.11
113 2 0.01
ACGTcount: A:0.38, C:0.14, G:0.14, T:0.34
Consensus pattern (109 bp):
CTCAAAAATTTCAAAACTAATAGGATGCATCCCTATTTTCCTAGGCTCGAATGGATCAGGTTGTA
TAAAATATGAATTTTTTGAAAATCAGAAAATTTGATGTCATTGT
Found at i:21692 original size:120 final size:121
Alignment explanation
Indices: 21475--21702 Score: 257
Period size: 120 Copynumber: 1.9 Consensus size: 121
21465 TACAAACAAG
* * * * *
21475 TATATACAAAAGGTCTGGAAACAAGGGCTTTAAAAACTTATGTCATGAATAAATGCATGTATGTA
1 TATATACAAAAAGTCTAGAAACAAGGACTTTAAAAAATTATGTCATGAATAAATGCATATATGTA
* * **
21540 TCCATATATGCAAATGAGTGCAAAGACGAAATTAATATAATATGAAAGAAAAGTTA
66 TCCATATAAGCAAATGAGTACAAAGAAAAAATTAATATAATATGAAAGAAAAGTTA
* * *
21596 TATATA-AAAAAGTCTAGAGACAAGGAC-TTAAAAAATGTGTGTCATGAATAAA-GATATATATG
1 TATATACAAAAAGTCTAGAAACAAGGACTTTAAAAAAT-TATGTCATGAATAAATG-CATATATG
* * * *
21658 TATTCATATAAGCAAAT-AGGTACAAGGAAAAAATTGATGTAATAT
64 TATCCATATAAGCAAATGA-GTACAAAGAAAAAATTAATATAATAT
21703 CAAATAAATA
Statistics
Matches: 88, Mismatches: 16, Indels: 7
0.79 0.14 0.06
Matches are distributed among these distances:
119 10 0.11
120 72 0.82
121 6 0.07
ACGTcount: A:0.47, C:0.08, G:0.17, T:0.28
Consensus pattern (121 bp):
TATATACAAAAAGTCTAGAAACAAGGACTTTAAAAAATTATGTCATGAATAAATGCATATATGTA
TCCATATAAGCAAATGAGTACAAAGAAAAAATTAATATAATATGAAAGAAAAGTTA
Found at i:22910 original size:19 final size:20
Alignment explanation
Indices: 22882--22931 Score: 66
Period size: 19 Copynumber: 2.5 Consensus size: 20
22872 CAATTTAGTG
22882 TGTATCGATACCAAG-AACA
1 TGTATCGATACCAAGCAACA
* * *
22901 TGTGTCGATACTAAGCAATA
1 TGTATCGATACCAAGCAACA
22921 TGTATCGATAC
1 TGTATCGATAC
22932 ATCTGGGTGT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
19 13 0.50
20 13 0.50
ACGTcount: A:0.36, C:0.18, G:0.18, T:0.28
Consensus pattern (20 bp):
TGTATCGATACCAAGCAACA
Found at i:30027 original size:3 final size:3
Alignment explanation
Indices: 30019--30043 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
30009 CGAGTCAACT
30019 TCA TCA TCA TCA TCA TCA TCA TCA T
1 TCA TCA TCA TCA TCA TCA TCA TCA T
30044 TGATGGTTGA
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:0.32, G:0.00, T:0.36
Consensus pattern (3 bp):
TCA
Found at i:31661 original size:13 final size:13
Alignment explanation
Indices: 31643--31680 Score: 58
Period size: 13 Copynumber: 2.9 Consensus size: 13
31633 ACATTTCACC
31643 ATGTATCGATACA
1 ATGTATCGATACA
*
31656 ATGTATCGATATA
1 ATGTATCGATACA
*
31669 CTGTATCGATAC
1 ATGTATCGATAC
31681 TGAGTGAGTT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:34501 original size:156 final size:156
Alignment explanation
Indices: 33983--34568 Score: 748
Period size: 157 Copynumber: 3.7 Consensus size: 156
33973 AAATAGGACA
* * * ** *
33983 AACCTATCCTAAATACACATCTTTGGCATAAAAGCTTCTTGATGGCAACCTAGGACTCGATTTT-
1 AACCTATCCTAAATACCCACCTTTGGCATAAAAGCATCCCGATGACAACCTAGGACTCGATTTTG
** * * * * * *
34047 AGAAAAATTACAAAAATACCTTTATGGGTATACCTTCGATA-AGAAAATATCTCAGTAACCCTAA
66 A-AAAAATTATGAAAATGCCTTTATAGGTACACCTTCGACATA-AAAGTATC-CAGTAACCATAA
34111 AGGACTTAAAAAAGATCATAAATGGGATG
128 AGGACTTAAAAAAGATCATAAATGGGATG
* *
34140 AACTTATCCTAAATACCTACCTTTGGCATAAAAGCATCCCGATGACAACCTAGGACTCGATTTTG
1 AACCTATCCTAAATACCCACCTTTGGCATAAAAGCATCCCGATGACAACCTAGGACTCGATTTTG
* *
34205 AAAAAATTATGAAAATGCTTTTATAGGTACACCTTCGACATAAAAGTATCCTGGTAACCATAAAG
66 AAAAAATTATGAAAATGCCTTTATAGGTACACCTTCGACATAAAAGTATCC-AGTAACCATAAAG
* *
34270 GACTTAAAAAGGATCATAAATGAGATG
130 GACTTAAAAAAGATCATAAATGGGATG
* * * *
34297 AACCTATCCTAAATACTCACCTTTGACATAAAAGGATCCCGATAACAACCTAGGACTCGATTTTG
1 AACCTATCCTAAATACCCACCTTTGGCATAAAAGCATCCCGATGACAACCTAGGACTCGATTTTG
** * *
34362 AAAAAATTATGAAAATGCCCCTATAGATACACCTTCGACATAAAAGTATCCAGTAACTATAAAGG
66 AAAAAATTATGAAAATGCCTTTATAGGTACACCTTCGACATAAAAGTATCCAGTAACCATAAAGG
* *
34427 ACTTTAAAATGATCATAAATGGGATG
131 ACTTAAAAAAGATCATAAATGGGATG
* *
34453 AACCTATCCTAAATACCCACCTTTGGCATAAAAGCATCTC-AGTGACAACCTAGGACTCGATATT
1 AACCTATCCTAAATACCCACCTTTGGCATAAAAGCATCCCGA-TGACAACCTAGGACTCGATTTT
* * * * * *
34517 GGAAAAATTATGAAAATAACC-TTATGGGTATACCTTCAACATGAAAGTATCC
65 GAAAAAATTATGAAAAT-GCCTTTATAGGTACACCTTCGACATAAAAGTATCC
34569 CAATAACCCT
Statistics
Matches: 375, Mismatches: 49, Indels: 11
0.86 0.11 0.03
Matches are distributed among these distances:
155 1 0.00
156 133 0.35
157 239 0.64
158 2 0.01
ACGTcount: A:0.40, C:0.19, G:0.14, T:0.26
Consensus pattern (156 bp):
AACCTATCCTAAATACCCACCTTTGGCATAAAAGCATCCCGATGACAACCTAGGACTCGATTTTG
AAAAAATTATGAAAATGCCTTTATAGGTACACCTTCGACATAAAAGTATCCAGTAACCATAAAGG
ACTTAAAAAAGATCATAAATGGGATG
Found at i:34503 original size:313 final size:314
Alignment explanation
Indices: 33983--34568 Score: 795
Period size: 313 Copynumber: 1.9 Consensus size: 314
33973 AAATAGGACA
* * * ** **
33983 AACCTATCCTAAATACACATCTTTGGCATAAAAGCTTCTTGATGGCAACCTAGGACTCGATTTTA
1 AACCTATCCTAAATACACACCTTTGACATAAAAGCATCCCGATAACAACCTAGGACTCGATTTTA
** * * * * *
34048 GAAAAATTACAAAAATACCTTTATGGGTATACCTTCGATAAGAAAATATCTCAGTAACCCTAAAG
66 GAAAAATTACAAAAATACCCCTATAGATACACCTTCGACAAGAAAATATCTCAGTAACCATAAAG
* *
34113 GACTTAAAAAAGATCATAAATGGGATGAACTTATCCTAAATACCTACCTTTGGCATAAAAGCATC
131 GACTTAAAAAAGATCATAAATGGGATGAACCTATCCTAAATACCCACCTTTGGCATAAAAGCATC
* * * * *
34178 CCGATGACAACCTAGGACTCGATTTTGAAAAAATTATGAAAAT-GCTTTTATAGGTACACCTTCG
196 CAGATGACAACCTAGGACTCGATATTGAAAAAATTATGAAAATAAC-CTTATAGGTACACCTTCA
34242 ACATAAAAGTATCCTGGTAACCATAAAGGACTTAAAAAGGATCATAAATGAGATG
260 ACATAAAAGTATCCTGGTAACCATAAAGGACTTAAAAAGGATCATAAATGAGATG
* *
34297 AACCTATCCTAAATACTCACCTTTGACATAAAAGGATCCCGATAACAACCTAGGACTCGATTTT-
1 AACCTATCCTAAATACACACCTTTGACATAAAAGCATCCCGATAACAACCTAGGACTCGATTTTA
** * * *
34361 GAAAAAATTATGAAAATGCCCCTATAGATACACCTTCGACATA-AAAGTATC-CAGTAACTATAA
66 G-AAAAATTACAAAAATACCCCTATAGATACACCTTCGACA-AGAAAATATCTCAGTAACCATAA
* *
34424 AGGACTTTAAAATGATCATAAATGGGATGAACCTATCCTAAATACCCACCTTTGGCATAAAAGCA
129 AGGACTTAAAAAAGATCATAAATGGGATGAACCTATCCTAAATACCCACCTTTGGCATAAAAGCA
* * *
34489 TCTCAG-TGACAACCTAGGACTCGATATTGGAAAAATTATGAAAATAACCTTATGGGTATACCTT
194 TC-CAGATGACAACCTAGGACTCGATATTGAAAAAATTATGAAAATAACCTTATAGGTACACCTT
*
34553 CAACATGAAAGTATCC
258 CAACATAAAAGTATCC
34569 CAATAACCCT
Statistics
Matches: 234, Mismatches: 34, Indels: 9
0.84 0.12 0.03
Matches are distributed among these distances:
313 138 0.59
314 95 0.41
315 1 0.00
ACGTcount: A:0.40, C:0.19, G:0.14, T:0.26
Consensus pattern (314 bp):
AACCTATCCTAAATACACACCTTTGACATAAAAGCATCCCGATAACAACCTAGGACTCGATTTTA
GAAAAATTACAAAAATACCCCTATAGATACACCTTCGACAAGAAAATATCTCAGTAACCATAAAG
GACTTAAAAAAGATCATAAATGGGATGAACCTATCCTAAATACCCACCTTTGGCATAAAAGCATC
CAGATGACAACCTAGGACTCGATATTGAAAAAATTATGAAAATAACCTTATAGGTACACCTTCAA
CATAAAAGTATCCTGGTAACCATAAAGGACTTAAAAAGGATCATAAATGAGATG
Found at i:35111 original size:164 final size:162
Alignment explanation
Indices: 34727--35194 Score: 607
Period size: 163 Copynumber: 2.9 Consensus size: 162
34717 AAAGGATACA
* * *
34727 AAAAGTTTTAAAATTTTCTATATTCC-TATGGAAGGCCATAGGAATAATAGAAATCTAAAGAAAA
1 AAAAGTTTTAAAATTTTCTATA--CCTTATGGAAGACCATAGGAATAATAGAAATTTAAATAAAA
* * *
34791 TGACTAAGATGATGATTTTTCTTCT----ATTCCAAATTTGGTATTTAGTCCTTAAACTTTTAAA
64 TGACTAAGATGCT-ATTTTTCTTCTAAAAATT--AAATTTGCTATTTAGTCCCTAAACTTTT-AA
*
34852 AATTTCATTTCATACCCGACGAAAAACTGAAAGAATTG
125 AATTTCATTTCATACCCAACGAAAAACTGAAAGAATTG
*
34890 AAAAGTTTTAAAATTTTCTATACTCTTATGAAAGACCATAGGAATAATAGAAATTTAAATAAAAT
1 AAAAGTTTTAAAATTTTCTATAC-CTTATGGAAGACCATAGGAATAATAGAAATTTAAATAAAAT
34955 GACTAAGATAGCTATTTTTCTTCTAAAAATTAAATTTGCTATTTAGTCCCTAAAC-TTTAATAAT
65 GACTAAGAT-GCTATTTTTCTTCTAAAAATTAAATTTGCTATTTAGTCCCTAAACTTTTAA-AAT
*
35019 TTCATTTCATGCCCAAC-ATAAAA-T-AAAGAGGATATG
128 TTCATTTCATACCCAACGA-AAAACTGAAAGA--AT-TG
*
35055 AAAAGTTTTAAAAATTTT-TATACCTTATGGAAGACCATAGGAATAATAGAAATTTAAAT-AATT
1 AAAAGTTTT-AAAATTTTCTATACCTTATGGAAGACCATAGGAATAATAGAAATTTAAATAAAAT
* *
35118 GACTAAGATGGCTATTTTTCTTCTAAAAACTAAATTTGCTATTTAGTCCCTAAGCTTTTGAAAAT
65 GACTAAGAT-GCTATTTTTCTTCTAAAAATTAAATTTGCTATTTAGTCCCTAAACTTTT-AAAAT
35183 TTCATTTCATAC
128 TTCATTTCATAC
35195 TTGAAGGAAA
Statistics
Matches: 275, Mismatches: 15, Indels: 29
0.86 0.05 0.09
Matches are distributed among these distances:
161 1 0.00
162 6 0.02
163 136 0.49
164 81 0.29
165 40 0.15
166 8 0.03
167 3 0.01
ACGTcount: A:0.40, C:0.12, G:0.11, T:0.36
Consensus pattern (162 bp):
AAAAGTTTTAAAATTTTCTATACCTTATGGAAGACCATAGGAATAATAGAAATTTAAATAAAATG
ACTAAGATGCTATTTTTCTTCTAAAAATTAAATTTGCTATTTAGTCCCTAAACTTTTAAAATTTC
ATTTCATACCCAACGAAAAACTGAAAGAATTG
Found at i:35259 original size:164 final size:161
Alignment explanation
Indices: 34727--35271 Score: 543
Period size: 163 Copynumber: 3.3 Consensus size: 161
34717 AAAGGATACA
* * * *
34727 AAAAGTTTTAAAATTTTCTATATTCC-TATGGAAGG-CCATAGGAATAATAGAAATCTAAAGAAA
1 AAAAG-TTTAAAAATTTCTATA-CCCTTAT-GAAGGACCATAGGAATAATAGAAATTTAAA-TAA
* ** * * *
34790 ATGACTAAGATGATGATTTTTCTTCT--ATTCCAAATTTGGTATTTAGTCCTTAAACTTTTAAAA
62 ATGACTAAGATGCT-ATTTTTCTTCTAAAAACTAAATTTGCTATTTAGTCCCTAAACTTTT-AAA
* * * *
34853 ATTTCATTTCATACCCG-ACGAAAAACTGAAAGAAT-TG
125 ATTTCATTTCATA-CCGAAAGAAAATC-GAGAGGATATG
* * *
34890 AAAAGTTTTAAAATTTTCTATACTCTTATGAAAGACCATAGGAATAATAGAAATTTAAATAAAAT
1 AAAAG-TTTAAAAATTTCTATACCCTTATGAAGGACCATAGGAATAATAGAAATTTAAAT-AAAT
*
34955 GACTAAGATAGCTATTTTTCTTCTAAAAATTAAATTTGCTATTTAGTCCCTAAAC-TTTAATAAT
64 GACTAAGAT-GCTATTTTTCTTCTAAAAACTAAATTTGCTATTTAGTCCCTAAACTTTTAA-AAT
* * * **
35019 TTCATTTCATGCCCAACATAAAATAAAGAGGATATG
127 TTCATTTCATACCGAA-AGAAAATCGAGAGGATATG
* *
35055 AAAAGTTTTAAAAATTTTTATA-CCTTATGGAA-GACCATAGGAATAATAGAAATTTAAATAATT
1 AAAAG-TTTAAAAATTTCTATACCCTTAT-GAAGGACCATAGGAATAATAGAAATTTAAATAAAT
*
35118 GACTAAGATGGCTATTTTTCTTCTAAAAACTAAATTTGCTATTTAGTCCCTAAGCTTTTGAAAAT
64 GACTAAGAT-GCTATTTTTCTTCTAAAAACTAAATTTGCTATTTAGTCCCTAAACTTTT-AAAAT
* * *
35183 TTCATTTCATACTTGAAGGAAAGTCGAGAGGATATG
127 TTCATTTCATAC-CGAAAGAAAATCGAGAGGATATG
* * * * *
35219 AAAAGTTTGGAAAATTTCTAAACCCCTA-CAAGGTCCATAGGAATAATAGAAAT
1 AAAAGTTT-AAAAATTTCTATACCCTTATGAAGGACCATAGGAATAATAGAAAT
35272 CTTTAAAAAT
Statistics
Matches: 323, Mismatches: 42, Indels: 33
0.81 0.11 0.08
Matches are distributed among these distances:
162 5 0.02
163 136 0.42
164 122 0.38
165 60 0.19
ACGTcount: A:0.41, C:0.12, G:0.13, T:0.34
Consensus pattern (161 bp):
AAAAGTTTAAAAATTTCTATACCCTTATGAAGGACCATAGGAATAATAGAAATTTAAATAAATGA
CTAAGATGCTATTTTTCTTCTAAAAACTAAATTTGCTATTTAGTCCCTAAACTTTTAAAATTTCA
TTTCATACCGAAAGAAAATCGAGAGGATATG
Found at i:35335 original size:328 final size:327
Alignment explanation
Indices: 34727--35335 Score: 698
Period size: 328 Copynumber: 1.9 Consensus size: 327
34717 AAAGGATACA
*
34727 AAAAGTTTTAAAATTTTCTATATTCCTATGGAAGGCCATAGGAATAATAGAAATCTAAAGAAAAT
1 AAAAGTTTTAAAATTTTCTATA-TCCTATGGAAGACCATAGGAATAATAGAAATCTAAAGAAAAT
** * *
34792 GACTAAGATGATGATTTTTCTTCTATTCCAAATTTGGTATTTAGTCCTTAAACTTTTAAAAATTT
65 GACTAAGATGATGATTTTTCTTCTAAACCAAATTTGCTATTTAGTCCCTAAACTTTTAAAAATTT
* * * * *
34857 CATTTCATACCCGACGAAAAACTGAAAGAATTGAAAAGTTTTAAAATTTTCTATACTCTTATGAA
130 CATTTCATACCCGACGAAAAACTGAAAGAATTGAAAAGTTTGAAAATTTTCTAAACCCCTATCAA
* * ** *
34922 AGACCATAGGAATAATAGAAATTTAAATAAAATGACTAAGATAGCTATTTTTCTTCTAAAAATTA
195 AGACCATAGGAATAATAGAAATTTAAATAAAATGACTAAAATAGATATTTCACCTCTAAAAATTA
** * *
34987 AATTTGCTATTTAGTCCCTAAACTTTAATAATTTCATTTCATGCCCAACATAAAATAAAGAGGAT
260 AACATGCTACTTAATCCCTAAACTTTAATAATTTCATTTCATGCCCAACATAAAATAAAGAGGAT
35052 ATG
325 ATG
* * *
35055 AAAAGTTTTAAAAATTTT-TATA-CCTTATGGAAGACCATAGGAATAATAGAAATTTAAA-TAAT
1 AAAAGTTTT-AAAATTTTCTATATCC-TATGGAAGACCATAGGAATAATAGAAATCTAAAGAAAA
* * * *
35117 TGACTAAGATGGCT-ATTTTTCTTCTAAAAACTAAATTTGCTATTTAGTCCCTAAGCTTTTGAAA
64 TGACTAAGAT-GATGATTTTTCTTCT--AAACCAAATTTGCTATTTAGTCCCTAAACTTTTAAAA
** * * * * *
35181 ATTTCATTTCATACTTGAAG-GAAAGTCGAGAGGATATGAAAAGTTTGGAAAA-TTTCTAAACCC
126 ATTTCATTTCATACCCGACGAAAAACT-GAAAGAAT-TGAAAAGTTT-GAAAATTTTCTAAACCC
* * * *
35244 CTA-CAAGGTCCATAGGAATAATAGAAATCTT-TA-AAAATGCCTAAAAT-GATGATTTCACCTC
188 CTATCAAAGACCATAGGAATAATAGAAAT-TTAAATAAAATGACTAAAATAGAT-ATTTCACCTC
*
35305 TAAAAATTAAAACATGTTACTTAATCCCTAA
251 TAAAAATT-AAACATGCTACTTAATCCCTAA
35336 GTTTTAAACA
Statistics
Matches: 232, Mismatches: 38, Indels: 22
0.79 0.13 0.08
Matches are distributed among these distances:
326 27 0.12
327 64 0.28
328 106 0.46
329 31 0.13
330 4 0.02
ACGTcount: A:0.41, C:0.13, G:0.12, T:0.34
Consensus pattern (327 bp):
AAAAGTTTTAAAATTTTCTATATCCTATGGAAGACCATAGGAATAATAGAAATCTAAAGAAAATG
ACTAAGATGATGATTTTTCTTCTAAACCAAATTTGCTATTTAGTCCCTAAACTTTTAAAAATTTC
ATTTCATACCCGACGAAAAACTGAAAGAATTGAAAAGTTTGAAAATTTTCTAAACCCCTATCAAA
GACCATAGGAATAATAGAAATTTAAATAAAATGACTAAAATAGATATTTCACCTCTAAAAATTAA
ACATGCTACTTAATCCCTAAACTTTAATAATTTCATTTCATGCCCAACATAAAATAAAGAGGATA
TG
Found at i:36226 original size:3 final size:3
Alignment explanation
Indices: 36218--36283 Score: 123
Period size: 3 Copynumber: 22.0 Consensus size: 3
36208 ACTCGAAAGG
36218 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
*
36266 TTA TTA TTA TTG TTA TTA
1 TTA TTA TTA TTA TTA TTA
36284 AAATCGTAGA
Statistics
Matches: 61, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
3 61 1.00
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:37074 original size:155 final size:155
Alignment explanation
Indices: 36789--37076 Score: 427
Period size: 155 Copynumber: 1.9 Consensus size: 155
36779 TGATACCCCT
** *
36789 AAAGGACTTTAAAAGGGATGAAACTATCCTAAATATCTACCTTTGGCATAAAAGCGGACCTGATG
1 AAAGGACTTTAAAAGGGATGAAACTATCCTAAATATCTACCTTCAGCATAAAAGCGGACCAGATG
* * * * * **
36854 ACGACCTAGGAGTTGATTGTGAAAAATTACAAAAATGCCCTTAGGGGATATCTTTGACGTAAAAG
66 ACGACCTAAGAGTTGATTCTGAAAAATTACAAAAATACCCCTAGGGGATACCTTCAACGTAAAAG
36919 TACTCGATATCACTAAAGGACTTAA
131 TACTCGATATCACTAAAGGACTTAA
* *
36944 AAAGGATTTTAAAAGGGATGAACCTATCCTAAATATCTACCTTCAGCATAAAAGCGGACCCAG-T
1 AAAGGACTTTAAAAGGGATGAAACTATCCTAAATATCTACCTTCAGCATAAAAGCGGA-CCAGAT
*
37008 GACGACCTAAGAGTT-AGTTCTGAAAAATTACAAAAATACCCCTAGGGGATACCTTCAACGTGAA
65 GACGACCTAAGAGTTGA-TTCTGAAAAATTACAAAAATACCCCTAGGGGATACCTTCAACGTAAA
37072 AGTAC
129 AGTAC
37077 ATGATACCTT
Statistics
Matches: 118, Mismatches: 13, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
154 1 0.01
155 114 0.97
156 3 0.03
ACGTcount: A:0.39, C:0.18, G:0.19, T:0.24
Consensus pattern (155 bp):
AAAGGACTTTAAAAGGGATGAAACTATCCTAAATATCTACCTTCAGCATAAAAGCGGACCAGATG
ACGACCTAAGAGTTGATTCTGAAAAATTACAAAAATACCCCTAGGGGATACCTTCAACGTAAAAG
TACTCGATATCACTAAAGGACTTAA
Found at i:37481 original size:190 final size:190
Alignment explanation
Indices: 37158--37512 Score: 647
Period size: 190 Copynumber: 1.9 Consensus size: 190
37148 CATTTCATAC
*
37158 CCAACGAAGAATCAAGAGGATATGAAAAGTTTTCACGAATTTTTGTACCCTTACGGATAACCATA
1 CCAACGAAGAATCAAGAGGATATGAAAAGTTTTCACGAATTTCTGTACCCTTACGGATAACCATA
37223 AGAATATAAGAAATCGTTAAAAATTATTAGACACTATTGTGACAATAATTTTAATGAAATAATTT
66 AGAATATAAGAAATCGTTAAAAATTATTAGACACTATTGTGACAATAATTTTAATGAAATAATTT
* *
37288 TGATATTGACTTAGATGAAAATAGATAAATAAAAAAATGATGACCGCGCCCGACGAAGTT
131 TGATATTGACTTAAATGAAAACAGATAAATAAAAAAATGATGACCGCGCCCGACGAAGTT
* *
37348 CCAACGAAGAATCGAGAGGATATGAAAAGTTTTCACGAATTTCTGTATCCTTACGGATAACCATA
1 CCAACGAAGAATCAAGAGGATATGAAAAGTTTTCACGAATTTCTGTACCCTTACGGATAACCATA
**
37413 AGAATATAAGAAATCGTTAAAAATTATTAGACACTATTGTGATGATAATTTTAATGAAATAATTT
66 AGAATATAAGAAATCGTTAAAAATTATTAGACACTATTGTGACAATAATTTTAATGAAATAATTT
37478 TGATATTGACTTAAATGAAAACAGATAAATAAAAA
131 TGATATTGACTTAAATGAAAACAGATAAATAAAAA
37513 GAACTATGAT
Statistics
Matches: 158, Mismatches: 7, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
190 158 1.00
ACGTcount: A:0.44, C:0.12, G:0.15, T:0.29
Consensus pattern (190 bp):
CCAACGAAGAATCAAGAGGATATGAAAAGTTTTCACGAATTTCTGTACCCTTACGGATAACCATA
AGAATATAAGAAATCGTTAAAAATTATTAGACACTATTGTGACAATAATTTTAATGAAATAATTT
TGATATTGACTTAAATGAAAACAGATAAATAAAAAAATGATGACCGCGCCCGACGAAGTT
Found at i:38634 original size:11 final size:11
Alignment explanation
Indices: 38615--38646 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
38605 TGATTTTCCT
38615 TTTTTTCTCTC
1 TTTTTTCTCTC
*
38626 TTTTCTCTCTC
1 TTTTTTCTCTC
38637 TTTTTTCTCT
1 TTTTTTCTCT
38647 TTGTTCCCAC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (11 bp):
TTTTTTCTCTC
Found at i:39505 original size:166 final size:165
Alignment explanation
Indices: 39293--39730 Score: 610
Period size: 166 Copynumber: 2.6 Consensus size: 165
39283 AAACTTGATT
* *
39293 TTTGAAAAAAGAG-AATTTGAAGGAAAAAATTCAAAAACTCATGAAGATGAATTAATTTTTCAAA
1 TTTGAAAAAAAAGAAATTTTAAGG-AAAAATTCAAAAACTCATGAAGATGAATTAATTTTTCAAA
** *
39357 AATGATTTAATAAAAAATAAATTATAATATTTGATGAATTTTAAAAATTAAAAACCAAGAAAAAT
65 AATGATTTAATATGAATTAAATTATAATATTTGATGAATTTTAAAAATTAAAAACCAAGAAAAAT
* * *
39422 CCCTTCGAAAATATTTA-CGAAGTAGAAAACTCCGTA
130 CCCTTCAAAAACATTTATCGAA-TAGAAAACTACGTA
* *
39458 TTTCGAAAAAAAAGAAATTTTAAGGAAAAATTCAAAAACTAATGAAGATGAATTAATTTTTTAAA
1 TTT-GAAAAAAAAGAAATTTTAAGGAAAAATTCAAAAACTCATGAAGATGAATTAATTTTTCAAA
* * * *
39523 AGTAATTTAATATGAATTAAATTATAATATTTAATGAATTTTAAAAATTAAAAACTAAGAAAAAT
65 AATGATTTAATATGAATTAAATTATAATATTTGATGAATTTTAAAAATTAAAAACCAAGAAAAAT
*
39588 CCCTTCAAAAACATTTATGGAATAGAAAACTACGTA
130 CCCTTCAAAAACATTTATCGAATAGAAAACTACGTA
* * * *
39624 TTTTAGAAAAAAGAAATTTTAAGGAAAAATTTCATAAACTCATGAAGATAAATTAATTTTTCAAA
1 TTTGAAAAAAAAGAAATTTTAAGGAAAAA-TTCAAAAACTCATGAAGATGAATTAATTTTTCAAA
* ** * *
39689 ATTGATTTACGATGAATTAAATAATAATATTTGAAGAATTTT
65 AATGATTTAATATGAATTAAATTATAATATTTGATGAATTTT
39731 GATGTTTGAA
Statistics
Matches: 241, Mismatches: 28, Indels: 7
0.87 0.10 0.03
Matches are distributed among these distances:
165 27 0.11
166 202 0.84
167 12 0.05
ACGTcount: A:0.51, C:0.07, G:0.10, T:0.32
Consensus pattern (165 bp):
TTTGAAAAAAAAGAAATTTTAAGGAAAAATTCAAAAACTCATGAAGATGAATTAATTTTTCAAAA
ATGATTTAATATGAATTAAATTATAATATTTGATGAATTTTAAAAATTAAAAACCAAGAAAAATC
CCTTCAAAAACATTTATCGAATAGAAAACTACGTA
Found at i:41426 original size:6 final size:6
Alignment explanation
Indices: 41379--41435 Score: 50
Period size: 6 Copynumber: 9.8 Consensus size: 6
41369 AGTTAAAAAT
* *
41379 AATTAA AA-TAA AA-TAA AA-TAA AATTTTAA AATT-A AGTGAA AATTAA
1 AATTAA AATTAA AATTAA AATTAA AA--TTAA AATTAA AATTAA AATTAA
41425 AATTAA AATTA
1 AATTAA AATTA
41436 TTAATCATGA
Statistics
Matches: 43, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
5 18 0.42
6 20 0.47
8 5 0.12
ACGTcount: A:0.65, C:0.00, G:0.04, T:0.32
Consensus pattern (6 bp):
AATTAA
Found at i:41430 original size:23 final size:21
Alignment explanation
Indices: 41379--41435 Score: 60
Period size: 23 Copynumber: 2.5 Consensus size: 21
41369 AGTTAAAAAT
*
41379 AATTAAAATAAAATAAAATAA
1 AATTAAAATTAAATAAAATAA
*
41400 AATTTTAAAATTAAGTGAAAATTAA
1 AA--TTAAAATTAAAT-AAAA-TAA
41425 AATTAAAATTA
1 AATTAAAATTA
41436 TTAATCATGA
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
21 2 0.07
23 19 0.63
24 4 0.13
25 5 0.17
ACGTcount: A:0.65, C:0.00, G:0.04, T:0.32
Consensus pattern (21 bp):
AATTAAAATTAAATAAAATAA
Found at i:41883 original size:135 final size:135
Alignment explanation
Indices: 41606--41872 Score: 308
Period size: 135 Copynumber: 2.0 Consensus size: 135
41596 TAAATTAAAT
* *
41606 AATAATATTTGAAGAATTTTGAAAATTATAAACTTAGAGAAAACCTACCGGAGAAATTATAGAGT
1 AATAATATTTGAAGAATTTTGAAAATTATAAACTTAGAGAAAACCTACCGCAAAAATTATAGAGT
* ** * *
41671 AGAAAACTTCGTATTCGGTAATAGAAAAATTTCTAAACTCATAAAATGAATTAAAATTTTCAAAA
66 AGAAAACTTCATATTCAATAATAAAAAAATTTCTAAACTCATAAAATAAATTAAAATTTTCAAAA
41736 CAAAC
131 CAAAC
* * * * *
41741 AATAATATTTGTAGAATTTTGAACATTATAAGCTTAGA-AAAATCTTACC-CAAAAATTTATGGA
1 AATAATATTTGAAGAATTTTGAAAATTATAAACTTAGAGAAAA-CCTACCGCAAAAA-TTATAGA
* * * *
41804 GTAGAAAAC-TCTATATTTTAATAATAAAAAAATTT-TAAAGTTCATAAAATAAATTGAATTTTT
64 GTAGAAAACTTC-ATA-TTCAATAATAAAAAAATTTCTAAA-CTCATAAAATAAATTAAAATTTT
*
41867 TAAAAC
126 CAAAAC
41873 TAATTTAATA
Statistics
Matches: 110, Mismatches: 17, Indels: 9
0.81 0.12 0.07
Matches are distributed among these distances:
134 10 0.09
135 61 0.55
136 39 0.35
ACGTcount: A:0.48, C:0.09, G:0.10, T:0.33
Consensus pattern (135 bp):
AATAATATTTGAAGAATTTTGAAAATTATAAACTTAGAGAAAACCTACCGCAAAAATTATAGAGT
AGAAAACTTCATATTCAATAATAAAAAAATTTCTAAACTCATAAAATAAATTAAAATTTTCAAAA
CAAAC
Found at i:51662 original size:23 final size:21
Alignment explanation
Indices: 51628--51676 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 21
51618 TGCTAGCAAA
51628 TTTCTTTATTTTTTTTTTCTCTT
1 TTTCTTTA-TTTTTTTTTCT-TT
*
51651 TTTCTTTCTTTTTTTTTCTTT
1 TTTCTTTATTTTTTTTTCTTT
51672 TTTCT
1 TTTCT
51677 CTCTACTTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
21 7 0.28
22 11 0.44
23 7 0.28
ACGTcount: A:0.02, C:0.14, G:0.00, T:0.84
Consensus pattern (21 bp):
TTTCTTTATTTTTTTTTCTTT
Found at i:51674 original size:10 final size:10
Alignment explanation
Indices: 51637--51674 Score: 58
Period size: 10 Copynumber: 3.6 Consensus size: 10
51627 ATTTCTTTAT
51637 TTTTTTTTTC
1 TTTTTTTTTC
51647 TCTTTTTCTTTC
1 T-TTTTT-TTTC
51659 TTTTTTTTTC
1 TTTTTTTTTC
51669 TTTTTT
1 TTTTTT
51675 CTCTCTACTT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
10 11 0.42
11 10 0.38
12 5 0.19
ACGTcount: A:0.00, C:0.13, G:0.00, T:0.87
Consensus pattern (10 bp):
TTTTTTTTTC
Found at i:51686 original size:21 final size:22
Alignment explanation
Indices: 51640--51689 Score: 66
Period size: 21 Copynumber: 2.3 Consensus size: 22
51630 TCTTTATTTT
* **
51640 TTTTTTCTCTTTTTCTTTCTTT
1 TTTTTTCTCTTTTTCTCTCTAC
51662 TTTTTTCT-TTTTTCTCTCTAC
1 TTTTTTCTCTTTTTCTCTCTAC
51683 TTTTTTC
1 TTTTTTC
51690 CTATCAGCTA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
21 17 0.68
22 8 0.32
ACGTcount: A:0.02, C:0.20, G:0.00, T:0.78
Consensus pattern (22 bp):
TTTTTTCTCTTTTTCTCTCTAC
Found at i:51686 original size:22 final size:22
Alignment explanation
Indices: 51639--51688 Score: 66
Period size: 22 Copynumber: 2.3 Consensus size: 22
51629 TTCTTTATTT
* *
51639 TTTTTTTCTCTTTTTCTTTCTT
1 TTTTTTTCTCTTTTTCTCTCTC
51661 TTTTTTTCT-TTTTTCTCTCTAC
1 TTTTTTTCTCTTTTTCTCTCT-C
51683 TTTTTT
1 TTTTTT
51689 CCTATCAGCT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 10 0.40
22 15 0.60
ACGTcount: A:0.02, C:0.18, G:0.00, T:0.80
Consensus pattern (22 bp):
TTTTTTTCTCTTTTTCTCTCTC
Found at i:52321 original size:161 final size:165
Alignment explanation
Indices: 52057--52432 Score: 412
Period size: 161 Copynumber: 2.3 Consensus size: 165
52047 ATGGGAGTTT
* * ** * * * *
52057 AATAAAAATATTAGATGAATTTT-AAAATTTTAAACCAAGAAAAATCCCTCCGAAAATATTTATA
1 AATAATAATATTTGATGAATTTTAAAAATTAAAAACTAAGAAAAATCCCTCCCAAAATAATTACA
* * **
52121 GAGTAGCAAACTTAGTTTTTCGGAAACATGAAAATTTC-A-AAAAAATTCAAAACTCATGAAAAT
66 GAGTAGAAAACTTAGTTTTTCGGAAACAGGAAAATTTCAAGAAAAAATGAAAAACTCAT-AAAAT
* * * * * *
52184 -TAATCAA-TTTT-AAATATTGATTTAATATGGATTA
130 AAAAGCAATTTTTCAAA-ACTAATTTAATATGAAGTA
*
52218 AATAATAATATTTGATAAATTTTAAAAATTAAAAACTAAGAAAAAT-CCTCCCAAAA-ACATTAC
1 AATAATAATATTTGATGAATTTTAAAAATTAAAAACTAAGAAAAATCCCTCCCAAAATA-ATTAC
*
52281 GGAGTAGAAAACTTCA-TATTTT-GGAAACAGGAAAATTTCAAAGAAAAAATGAAAAACTCATAA
65 AGAGTAGAAAACTT-AGT-TTTTCGGAAACAGGAAAATTTC-AAGAAAAAATGAAAAACTCATAA
*
52344 AATAAAAGGAATTTTTCAAAACTAATTTAATATGAAGTA
127 AATAAAAGCAATTTTTCAAAACTAATTTAATATGAAGTA
* * *
52383 AATGATAATATTTGATGAATTTTAAAAATTAAAAACTAATAAAATTCCCT
1 AATAATAATATTTGATGAATTTTAAAAATTAAAAACTAAGAAAAATCCCT
52433 GAAAACATTT
Statistics
Matches: 179, Mismatches: 25, Indels: 17
0.81 0.11 0.08
Matches are distributed among these distances:
160 1 0.01
161 61 0.34
162 24 0.13
163 6 0.03
164 20 0.11
165 61 0.34
166 6 0.03
ACGTcount: A:0.51, C:0.10, G:0.09, T:0.31
Consensus pattern (165 bp):
AATAATAATATTTGATGAATTTTAAAAATTAAAAACTAAGAAAAATCCCTCCCAAAATAATTACA
GAGTAGAAAACTTAGTTTTTCGGAAACAGGAAAATTTCAAGAAAAAATGAAAAACTCATAAAATA
AAAGCAATTTTTCAAAACTAATTTAATATGAAGTA
Found at i:56758 original size:52 final size:52
Alignment explanation
Indices: 56680--56829 Score: 232
Period size: 52 Copynumber: 2.9 Consensus size: 52
56670 CGAAATATGA
*
56680 AAATTTACCTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGC
* *
56732 AAATTTGCCTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGC
*
56784 AAATTTGCCTGCATGTATCGATACA--AAGATCAGTGTATCGATACAT
1 AAATTTGCCTGCATGTATCGATACATTTA-AT-AGTGTATCGATACAT
56830 TTGAGTAAGG
Statistics
Matches: 90, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
51 2 0.02
52 88 0.98
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.34
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGC
Found at i:56896 original size:20 final size:20
Alignment explanation
Indices: 56867--56924 Score: 73
Period size: 20 Copynumber: 3.0 Consensus size: 20
56857 GCAGTAGTTT
56867 AAAT-TGTATCGATACAAAA
1 AAATATGTATCGATACAAAA
*
56886 AAATATGTATCGATACAACA
1 AAATATGTATCGATACAAAA
***
56906 CTTTATGTATCGATACAAA
1 AAATATGTATCGATACAAA
56925 TTGTTGAAAT
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
19 4 0.12
20 29 0.88
ACGTcount: A:0.47, C:0.14, G:0.10, T:0.29
Consensus pattern (20 bp):
AAATATGTATCGATACAAAA
Found at i:57377 original size:22 final size:24
Alignment explanation
Indices: 57349--57392 Score: 65
Period size: 22 Copynumber: 1.9 Consensus size: 24
57339 GTATAGATGT
57349 TTTTCAAGCAATA-AA-TCAAATG
1 TTTTCAAGCAATATAATTCAAATG
*
57371 TTTTCAAGTAATATAATTCAAA
1 TTTTCAAGCAATATAATTCAAA
57393 GTATCGATAC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 12 0.63
23 2 0.11
24 5 0.26
ACGTcount: A:0.45, C:0.11, G:0.07, T:0.36
Consensus pattern (24 bp):
TTTTCAAGCAATATAATTCAAATG
Found at i:57481 original size:21 final size:20
Alignment explanation
Indices: 57455--57493 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
57445 AGGTCAAAAC
57455 CCTAGAAAGTATCGATACACA
1 CCTAG-AAGTATCGATACACA
*
57476 CCTAGATGTATCGATACA
1 CCTAGAAGTATCGATACA
57494 TATTGCTTAG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.38, C:0.23, G:0.15, T:0.23
Consensus pattern (20 bp):
CCTAGAAGTATCGATACACA
Found at i:59734 original size:13 final size:13
Alignment explanation
Indices: 59716--59740 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
59706 TACAGTGAAC
59716 ATGTATCGATACA
1 ATGTATCGATACA
59729 ATGTATCGATAC
1 ATGTATCGATAC
59741 TAAGCAATAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:60421 original size:64 final size:64
Alignment explanation
Indices: 60319--60466 Score: 251
Period size: 64 Copynumber: 2.3 Consensus size: 64
60309 TTAATTTGTA
**
60319 ACTCCCCTTTTAATAACTACAAAGCAAAGTTTTATTAAGAGGTTGAAGAAAATTTTTGTTTTAGT
1 ACTCCCC-TTTAATAACTACAAAGCAAAGTTTTATTAAGAGGTTGAAGAAAATTTTCATTTTAGT
*
60384 ACTCCCCCTTAATAACTACAAAGCAAAGTTTTATTAAGAGGTTGAAGAAAATTTTCATTTTAGT
1 ACTCCCCTTTAATAACTACAAAGCAAAGTTTTATTAAGAGGTTGAAGAAAATTTTCATTTTAGT
*
60448 ACTCCCTTTTAATAACTAC
1 ACTCCCCTTTAATAACTAC
60467 TCCCTTTTTT
Statistics
Matches: 78, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
64 71 0.91
65 7 0.09
ACGTcount: A:0.36, C:0.16, G:0.11, T:0.36
Consensus pattern (64 bp):
ACTCCCCTTTAATAACTACAAAGCAAAGTTTTATTAAGAGGTTGAAGAAAATTTTCATTTTAGT
Found at i:68600 original size:19 final size:20
Alignment explanation
Indices: 68555--68606 Score: 61
Period size: 19 Copynumber: 2.6 Consensus size: 20
68545 TTGCCAATTT
* *
68555 CATGTATCGATACAATTGAG
1 CATGTATCGATACAAGTGAA
*
68575 TATGTATCGATAC-AGTGAA
1 CATGTATCGATACAAGTGAA
*
68594 CATGTATCAATAC
1 CATGTATCGATAC
68607 CATGTATCAT
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
19 15 0.56
20 12 0.44
ACGTcount: A:0.37, C:0.15, G:0.17, T:0.31
Consensus pattern (20 bp):
CATGTATCGATACAAGTGAA
Found at i:68631 original size:32 final size:32
Alignment explanation
Indices: 68576--68638 Score: 83
Period size: 32 Copynumber: 2.0 Consensus size: 32
68566 ACAATTGAGT
*
68576 ATGTATCGATACAGTGAACATGTATCAATACC
1 ATGTATCGATACAGAGAACATGTATCAATACC
* *
68608 ATGTATC-ATACAGAGTAATATGTATCGATAC
1 ATGTATCGATACAGAG-AACATGTATCAATAC
68639 ATTTGGGTGT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
31 7 0.26
32 20 0.74
ACGTcount: A:0.38, C:0.16, G:0.16, T:0.30
Consensus pattern (32 bp):
ATGTATCGATACAGAGAACATGTATCAATACC
Found at i:69750 original size:180 final size:180
Alignment explanation
Indices: 69448--69810 Score: 690
Period size: 180 Copynumber: 2.0 Consensus size: 180
69438 CTTAGTTATG
* *
69448 GCATCGTAGACTAGGACATGCAAGTATGAGTATTCTTTCAAAATTATCTAGGAAAAACCTTGTTA
1 GCATCGTAGACTAGGACATGCAAGTATGAGCATTCTTTCAAAATTATCTAGGAAAAACCTTATTA
69513 TTGGATTGCCTAAGGTTAAGTTTCAATGCGATAAGGTGTGTGATGCATGCATTAAAGGCAAGCAT
66 TTGGATTGCCTAAGGTTAAGTTTCAATGCGATAAGGTGTGTGATGCATGCATTAAAGGCAAGCAT
*
69578 AGAAGAACTTCTTTTAAGCCTTTAAATATTATCACAACCACTAGAACTTT
131 AGAAGAACTTCTTTTAAGCCTTAAAATATTATCACAACCACTAGAACTTT
*
69628 GCATCGTAGACTAGGACATGCAAGTATGAGCATTCTTTCAAAATTATCTAGGAAAAACCTTATTG
1 GCATCGTAGACTAGGACATGCAAGTATGAGCATTCTTTCAAAATTATCTAGGAAAAACCTTATTA
69693 TTGGATTGCCTAAGGTTAAGTTTCAATGCGATAAGGTGTGTGATGCATGCATTAAAGGCAAGCAT
66 TTGGATTGCCTAAGGTTAAGTTTCAATGCGATAAGGTGTGTGATGCATGCATTAAAGGCAAGCAT
69758 AGAAGAACTTCTTTTAAGCCTTAAAATATTATCACAACCACTAGAACTTT
131 AGAAGAACTTCTTTTAAGCCTTAAAATATTATCACAACCACTAGAACTTT
69808 GCA
1 GCA
69811 ATTAGTTCAT
Statistics
Matches: 179, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
180 179 1.00
ACGTcount: A:0.34, C:0.16, G:0.19, T:0.31
Consensus pattern (180 bp):
GCATCGTAGACTAGGACATGCAAGTATGAGCATTCTTTCAAAATTATCTAGGAAAAACCTTATTA
TTGGATTGCCTAAGGTTAAGTTTCAATGCGATAAGGTGTGTGATGCATGCATTAAAGGCAAGCAT
AGAAGAACTTCTTTTAAGCCTTAAAATATTATCACAACCACTAGAACTTT
Found at i:72857 original size:79 final size:79
Alignment explanation
Indices: 72687--72999 Score: 312
Period size: 79 Copynumber: 3.9 Consensus size: 79
72677 TTTTGGAGAT
* ** * * * *
72687 AATAACGGGGCTAAAGTATCCCCGATTATGGAAAATCGGTGTTCT-AGAAATAAAAATCGGGGTT
1 AATAACGGGGTTGGAGTATCCCCGATTATAGAAAATCGATGTTTTGA-AAAT-AAAATCGGGATT
* *
72751 GGAGTATCTCCTCGAA
64 GGAGTATCCCCGCGAA
* *
72767 AATAACAGGGTTGGAGTATCCCCGATTATAGAAAATCGATGTTTTGAAAATAAGATCGGGATTGG
1 AATAACGGGGTTGGAGTATCCCCGATTATAGAAAATCGATGTTTTGAAAATAAAATCGGGATTGG
72832 AGTATCCCCGCGAA
66 AGTATCCCCGCGAA
* * * * * *
72846 AATAATGGGGTTGAAGTATCCCCGATTGTTAG-AAATCAATATTTTTG-AAATAAAGTCGAGG-T
1 AATAACGGGGTTGGAGTATCCCCGATT-ATAGAAAATCGAT-GTTTTGAAAATAAAATCG-GGAT
**
72908 TGGAGTATCCCCGATAA
63 TGGAGTATCCCCGCGAA
* * * * * *
72925 AATAACGGGGTTGGAGTATCCTCAATTGTAAAAAATTGATGTTTTGAAAATAAAATC-GGAGTTA
1 AATAACGGGGTTGGAGTATCCCCGATTATAGAAAATCGATGTTTTGAAAATAAAATCGGGA-TTG
72989 GAGTATCCCCG
65 GAGTATCCCCG
73000 ATTGTGAAAA
Statistics
Matches: 193, Mismatches: 32, Indels: 17
0.80 0.13 0.07
Matches are distributed among these distances:
77 2 0.01
78 7 0.04
79 131 0.68
80 52 0.27
81 1 0.01
ACGTcount: A:0.35, C:0.14, G:0.24, T:0.27
Consensus pattern (79 bp):
AATAACGGGGTTGGAGTATCCCCGATTATAGAAAATCGATGTTTTGAAAATAAAATCGGGATTGG
AGTATCCCCGCGAA
Found at i:73001 original size:130 final size:127
Alignment explanation
Indices: 72853--73238 Score: 429
Period size: 130 Copynumber: 3.0 Consensus size: 127
72843 GAAAATAATG
* * ** * *
72853 GGGTTGAAGTATCCCCGATTGTTAGAAATCAATATTTTTGAAATAAAGTCGAGGTTGGAGTATCC
1 GGGTTGAAGTATCCCCGATTGTGAAAAATTGATGTTTTTGAAATAAA-ACGAGGTTGGAGTATCC
* * *
72918 CCGATAAAATAACGGGGTTGGAGTATCCTCAATTGTAAAAAATTGATGTTTTGAAAATAAAATC-
65 CCG-TAAAATAACGGGGTTGGAGTATCC-CAATTGTAAAAAATTGGTGTTTTGGAAATAAAACCA
* *
72982 GGAGTT-AGAGTATCCCCGATTGTGAAAAATTGATGTTTTTAGAAATAAAACTGGGGTTAGAGTA
1 GG-GTTGA-AGTATCCCCGATTGTGAAAAATTGATGTTTTT-GAAATAAAAC-GAGGTTGGAGTA
* * * * * ** *
73046 TCCTCTTAGAAATAACGAGATTAGAGTATCCCAA-TGTTGGAAAATCGGTGTTTTGGAAATAAAA
62 TCCCCGTA-AAATAACGGGGTTGGAGTATCCCAATTG-TAAAAAATTGGTGTTTTGGAAATAAAA
73110 CCA
125 CCA
* *
73113 GGGTTGAAGTATCCCCGATTGTGAAAAATTGATGTTTTAGAAATAAAACCGAGATTGGAGTATCT
1 GGGTTGAAGTATCCCCGATTGTGAAAAATTGATGTTTTTGAAATAAAA-CGAGGTTGGAGTATC-
* *
73178 CCTCG-GAAATAACGGGGTTGGAGTATCCCGATTGTAAAAAATTGGTGTTTTGGAAATAAAA
64 CC-CGTAAAATAACGGGGTTGGAGTATCCCAATTGTAAAAAATTGGTGTTTTGGAAATAAAA
73239 ACATGAATGA
Statistics
Matches: 212, Mismatches: 33, Indels: 24
0.79 0.12 0.09
Matches are distributed among these distances:
129 70 0.33
130 97 0.46
131 45 0.21
ACGTcount: A:0.35, C:0.11, G:0.23, T:0.30
Consensus pattern (127 bp):
GGGTTGAAGTATCCCCGATTGTGAAAAATTGATGTTTTTGAAATAAAACGAGGTTGGAGTATCCC
CGTAAAATAACGGGGTTGGAGTATCCCAATTGTAAAAAATTGGTGTTTTGGAAATAAAACCA
Found at i:73041 original size:52 final size:51
Alignment explanation
Indices: 72921--73048 Score: 159
Period size: 51 Copynumber: 2.5 Consensus size: 51
72911 AGTATCCCCG
* *
72921 ATAAAATAACGGGGTTGGAGTATCCTCAATTGTAAAAAATTGATGTTTTGAAA
1 ATAAAAT--CGGGGTTAGAGTATCCCCAATTGTAAAAAATTGATGTTTTGAAA
* * * *
72974 ATAAAATCGGAGTTAGAGTATCCCCGATTGTGAAAAATTGATGTTTTTAGAA
1 ATAAAATCGGGGTTAGAGTATCCCCAATTGTAAAAAATTGATGTTTTGA-AA
73026 ATAAAA-CTGGGGTTAGAGTATCC
1 ATAAAATC-GGGGTTAGAGTATCC
73049 TCTTAGAAAT
Statistics
Matches: 66, Mismatches: 7, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
51 37 0.56
52 22 0.33
53 7 0.11
ACGTcount: A:0.38, C:0.09, G:0.22, T:0.31
Consensus pattern (51 bp):
ATAAAATCGGGGTTAGAGTATCCCCAATTGTAAAAAATTGATGTTTTGAAA
Found at i:78231 original size:20 final size:20
Alignment explanation
Indices: 78179--78426 Score: 90
Period size: 20 Copynumber: 11.3 Consensus size: 20
78169 GGTAGAGGAT
*
78179 CATTCTTTAATGTATCGATA
1 CATTCTTCAATGTATCGATA
* **
78199 CATGT-ATGGATGTATCGATA
1 CAT-TCTTCAATGTATCGATA
*
78219 CATTCTTCAATGTATTGATA
1 CATTCTTCAATGTATCGATA
78239 CATTCTATCTTTTTATCCAGATGTATCGATA
1 CATTCT-TC-----A---A--TGTATCGATA
*
78270 CATTTTTCAATGTATCGATA
1 CATTCTTCAATGTATCGATA
* * * *
78290 CATGT-ATGACTGTATCAATA
1 CAT-TCTTCAATGTATCGATA
*
78310 CATTCTTCAATGTATTGATA
1 CATTCTTCAATGTATCGATA
78330 CATTCTATCTTTTTACCCAGATGTATCGATA
1 CA---T-TC---TT---CA-ATGTATCGATA
*
78361 CACTT-TTCAATGTATTGATA
1 CA-TTCTTCAATGTATCGATA
* * *
78381 CATGT-ATGACTGTATCGATA
1 CAT-TCTTCAATGTATCGATA
*
78401 CATTCTTCAATGTATTGATA
1 CATTCTTCAATGTATCGATA
78421 CATTCT
1 CATTCT
78427 ATCTTTTTTC
Statistics
Matches: 172, Mismatches: 28, Indels: 56
0.67 0.11 0.22
Matches are distributed among these distances:
19 4 0.02
20 118 0.69
21 6 0.03
22 1 0.01
23 1 0.01
24 4 0.02
25 1 0.01
26 1 0.01
27 2 0.01
28 1 0.01
29 3 0.02
30 4 0.02
31 26 0.15
ACGTcount: A:0.29, C:0.17, G:0.12, T:0.42
Consensus pattern (20 bp):
CATTCTTCAATGTATCGATA
Found at i:78342 original size:91 final size:91
Alignment explanation
Indices: 78179--78474 Score: 481
Period size: 91 Copynumber: 3.3 Consensus size: 91
78169 GGTAGAGGAT
78179 CATTCTTT-AATGTATCGATACATGTATGGA-TGTATCGATACATTCTTCAATGTATTGATACAT
1 CATT-TTTCAATGTATCGATACATGTAT-GACTGTATCGATACATTCTTCAATGTATTGATACAT
78242 TCTATCTTTTTATCCAGATGTATCGATA
64 TCTATCTTTTTATCCAGATGTATCGATA
*
78270 CATTTTTCAATGTATCGATACATGTATGACTGTATCAATACATTCTTCAATGTATTGATACATTC
1 CATTTTTCAATGTATCGATACATGTATGACTGTATCGATACATTCTTCAATGTATTGATACATTC
*
78335 TATCTTTTTACCCAGATGTATCGATA
66 TATCTTTTTATCCAGATGTATCGATA
* *
78361 CACTTTTCAATGTATTGATACATGTATGACTGTATCGATACATTCTTCAATGTATTGATACATTC
1 CATTTTTCAATGTATCGATACATGTATGACTGTATCGATACATTCTTCAATGTATTGATACATTC
*
78426 TATCTTTTT-TCCTAGATCTATCGATA
66 TATCTTTTTATCC-AGATGTATCGATA
* *
78452 TATTATTCAATGTATCGATACAT
1 CATTTTTCAATGTATCGATACAT
78475 CTAGTTAAAA
Statistics
Matches: 191, Mismatches: 11, Indels: 6
0.92 0.05 0.03
Matches are distributed among these distances:
90 7 0.04
91 184 0.96
ACGTcount: A:0.29, C:0.17, G:0.11, T:0.43
Consensus pattern (91 bp):
CATTTTTCAATGTATCGATACATGTATGACTGTATCGATACATTCTTCAATGTATTGATACATTC
TATCTTTTTATCCAGATGTATCGATA
Found at i:81218 original size:61 final size:61
Alignment explanation
Indices: 81123--81270 Score: 251
Period size: 61 Copynumber: 2.4 Consensus size: 61
81113 ATTTGCCTTT
81123 GTGAGTAACCCTCCGCATTGGCATAGCAATAACTTCCAGGATGTAAATTACCTATGTTCTC
1 GTGAGTAACCCTCCGCATTGGCATAGCAATAACTTCCAGGATGTAAATTACCTATGTTCTC
* * *
81184 GTGAGTAACCCTACGTATTGGCATAGCAATAACTTCTAGGATGTAAATTACCTATGTTCTC
1 GTGAGTAACCCTCCGCATTGGCATAGCAATAACTTCCAGGATGTAAATTACCTATGTTCTC
* *
81245 ATGAGTAACCCTCCGCATTTGCATAG
1 GTGAGTAACCCTCCGCATTGGCATAG
81271 GGAAATACAT
Statistics
Matches: 80, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
61 80 1.00
ACGTcount: A:0.28, C:0.23, G:0.18, T:0.30
Consensus pattern (61 bp):
GTGAGTAACCCTCCGCATTGGCATAGCAATAACTTCCAGGATGTAAATTACCTATGTTCTC
Found at i:90976 original size:34 final size:35
Alignment explanation
Indices: 90938--91004 Score: 102
Period size: 37 Copynumber: 1.9 Consensus size: 35
90928 CCTTACAACA
90938 CTATC-TTTC-AAGGCTAAGATAGAAACCTCTCTCT
1 CTATCTTTTCAAAGGCTAAGATAG-AACCTCTCTCT
90972 CTATCTTTTTCAAAGGCTAAGATAGAACCTCTC
1 CTATC-TTTTCAAAGGCTAAGATAGAACCTCTC
91005 AATCACTTAG
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
34 5 0.17
36 12 0.40
37 13 0.43
ACGTcount: A:0.30, C:0.25, G:0.12, T:0.33
Consensus pattern (35 bp):
CTATCTTTTCAAAGGCTAAGATAGAACCTCTCTCT
Found at i:91493 original size:13 final size:13
Alignment explanation
Indices: 91474--91512 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
91464 ACTATTTATG
91474 ATGTATCGATACA
1 ATGTATCGATACA
*
91487 CTGTATCGATACA
1 ATGTATCGATACA
91500 ATGTATCGATACA
1 ATGTATCGATACA
91513 TTAATAGTGA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.36, C:0.18, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:92740 original size:11 final size:11
Alignment explanation
Indices: 92724--92793 Score: 50
Period size: 11 Copynumber: 5.6 Consensus size: 11
92714 TTAGACCCCA
92724 AAAAAAAAAAC
1 AAAAAAAAAAC
*
92735 AAAAAAATAGAAA
1 AAAAAAA-A-AAC
92748 AAACCATAAAAAAC
1 AAA--A-AAAAAAC
*
92762 AAAAAAAAACC
1 AAAAAAAAAAC
92773 AAGGAAAAAATAAC
1 AA--AAAAAA-AAC
92787 AAAAAAA
1 AAAAAAA
92794 TAGAATGGGG
Statistics
Matches: 47, Mismatches: 4, Indels: 15
0.71 0.06 0.23
Matches are distributed among these distances:
11 15 0.32
12 7 0.15
13 11 0.23
14 9 0.19
15 2 0.04
16 3 0.06
ACGTcount: A:0.81, C:0.10, G:0.04, T:0.04
Consensus pattern (11 bp):
AAAAAAAAAAC
Found at i:92758 original size:20 final size:20
Alignment explanation
Indices: 92724--92773 Score: 59
Period size: 20 Copynumber: 2.6 Consensus size: 20
92714 TTAGACCCCA
*
92724 AAAAAAAAAACA-AAAAAA-
1 AAAAAAAAACCATAAAAAAC
* *
92742 TAGAAAAAACCATAAAAAAC
1 AAAAAAAAACCATAAAAAAC
92762 AAAAAAAAACCA
1 AAAAAAAAACCA
92774 AGGAAAAAAT
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
18 9 0.36
19 6 0.24
20 10 0.40
ACGTcount: A:0.82, C:0.12, G:0.02, T:0.04
Consensus pattern (20 bp):
AAAAAAAAACCATAAAAAAC
Found at i:94115 original size:64 final size:64
Alignment explanation
Indices: 94018--94209 Score: 291
Period size: 64 Copynumber: 3.0 Consensus size: 64
94008 TTTCAAAGCC
* * * *
94018 CACAAGTTAGTGGC-A-TCATTTCAAAGCCCACACAAGTCGGTGGCAACTCATTTGAAAGCCCA
1 CACAAGTTGGTGGCAACCCATTTCAAAGCCTACACAAGTCGGTGGCAACCCATTTGAAAGCCCA
*
94080 CACAAGTTGGTGGCAACCCATTTCAAAGCCTACACAAGTTGGTGGCAACCCATTTGAAAGCCCA
1 CACAAGTTGGTGGCAACCCATTTCAAAGCCTACACAAGTCGGTGGCAACCCATTTGAAAGCCCA
* *
94144 CACAAGTTGGTGGCAACCCATTTCAAAG-CTCACACAAGTCGTTGGCAACCCATTTCAAAGCCCA
1 CACAAGTTGGTGGCAACCCATTTCAAAGCCT-ACACAAGTCGGTGGCAACCCATTTGAAAGCCCA
94208 CA
1 CA
94210 AGTCGATGGC
Statistics
Matches: 119, Mismatches: 8, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
62 13 0.11
63 3 0.03
64 103 0.87
ACGTcount: A:0.32, C:0.29, G:0.19, T:0.20
Consensus pattern (64 bp):
CACAAGTTGGTGGCAACCCATTTCAAAGCCTACACAAGTCGGTGGCAACCCATTTGAAAGCCCA
Found at i:94148 original size:96 final size:92
Alignment explanation
Indices: 94008--94550 Score: 346
Period size: 84 Copynumber: 6.1 Consensus size: 92
93998 AGTAGCACAT
* * *
94008 TTTCAAAGCCCACAAGTTAGTGGCATCATTTCAAAGCCCACACAAGTCGGTGGCAACTCATTTGA
1 TTTCAAAGCCCACAAGTTAGTGGCACCATTTCAAAGCCCACACAAGTCGGTGGCAACCCATTTCA
*
94073 AAGCCCACACAAGTTGGTGGCAACCCA
66 AAGCCCACACAAGTCGGTGGCAACCCA
* * *
94100 TTTCAAAGCCTACACAAGTTGGTGGCAACCCATTTGAAAGCCCACACAAGTTGGTGGCAACCCAT
1 TTTCAAAGCC--CACAAGTTAGTGGC-A-CCATTTCAAAGCCCACACAAGTCGGTGGCAACCCAT
* *
94165 TTCAAAGCTCACACAAGTCGTTGGCAACCCA
62 TTCAAAGCCCACACAAGTCGGTGGCAACCCA
* * * * *** *
94196 TTTCAAAGCCCACAAG-TCGATGGCATCTTTTAAAAG-CC-CACAAGTCAACGGC--CCCCTTTC
1 TTTCAAAGCCCACAAGTTAG-TGGCACCATTTCAAAGCCCACACAAGTCGGTGGCAACCCATTTC
** *
94256 AAAG-CC-CACAAGTCAATGGC-ATCC-
65 AAAGCCCACACAAGTCGGTGGCAACCCA
* ** * * * * *
94280 TTTCAAAGTCCACAAGTCGGTGGCATCTTTTCAAAG--CTCACAAGTCGGTGGC-A-TCTTTTCA
1 TTTCAAAGCCCACAAGTTAGTGGCACCATTTCAAAGCCCACACAAGTCGGTGGCAACCCATTTCA
* * *
94341 AAG-CC-CATAAGTCGGTGGC-A-TCT
66 AAGCCCACACAAGTCGGTGGCAACCCA
* * * * *
94364 TTTTAAAGCCCACAAGTCAGTGGCA-CACTTTCAAAG-CC-CACAAGTCAGTGAC-ACCCTTTTC
1 TTTCAAAGCCCACAAGTTAGTGGCACCA-TTTCAAAGCCCACACAAGTCGGTGGCAACCCATTTC
* * * *
94425 AAAG-CC-CATAAGTCAGTGGC-ACTCT
65 AAAGCCCACACAAGTCGGTGGCAACCCA
** * * **
94450 TTTCAAAGCTCACACAAGTCGGTGGCAACTCTTTTTAAAGCCCACACAAGTTAGTGGC-ACCC-T
1 TTTCAAAGC-C-CACAAGTTAGTGGC-AC-CATTTCAAAGCCCACACAAGTCGGTGGCAACCCAT
* ** * * *
94513 TTAAAAGCCCACGTAAGTCGATGGTAACCCT
62 TTCAAAGCCCACACAAGTCGGTGGCAACCCA
94544 TTTCAAA
1 TTTCAAA
94551 TCACCATTGT
Statistics
Matches: 373, Mismatches: 55, Indels: 44
0.79 0.12 0.09
Matches are distributed among these distances:
83 3 0.01
84 107 0.29
85 31 0.08
86 23 0.06
87 2 0.01
88 24 0.06
89 1 0.00
90 17 0.05
91 12 0.03
92 36 0.10
93 13 0.03
94 34 0.09
95 1 0.00
96 69 0.18
ACGTcount: A:0.30, C:0.29, G:0.18, T:0.23
Consensus pattern (92 bp):
TTTCAAAGCCCACAAGTTAGTGGCACCATTTCAAAGCCCACACAAGTCGGTGGCAACCCATTTCA
AAGCCCACACAAGTCGGTGGCAACCCA
Found at i:94500 original size:32 final size:29
Alignment explanation
Indices: 93981--94495 Score: 409
Period size: 28 Copynumber: 17.4 Consensus size: 29
93971 CATTCATCTC
** * *
93981 TTCAAAGCCCACAAGTTAGTAGCAC-ATT
1 TTCAAAGCCCACAAGTCGGTGGCACTCTT
** *
94009 TTCAAAGCCCACAAGTTAGTGGCA-TCAT
1 TTCAAAGCCCACAAGTCGGTGGCACTCTT
*
94037 TTCAAAGCCCACACAAGTCGGTGGCAACTCAT
1 TTCAAAG-CC-CACAAGTCGGTGGC-ACTCTT
* * * *
94069 TTGAAAGCCCACACAAGTTGGTGGCAACCCAT
1 TTCAAAG-CC-CACAAGTCGGTGGC-ACTCTT
* * *
94101 TTCAAAGCCTACACAAGTTGGTGGCAACCCAT
1 TTCAAAGCC--CACAAGTCGGTGGC-ACTCTT
* * * *
94133 TTGAAAGCCCACACAAGTTGGTGGCAACCCAT
1 TTCAAAG-CC-CACAAGTCGGTGGC-ACTCTT
* * *
94165 TTCAAAGCTCACACAAGTCGTTGGCAACCCAT
1 TTCAAAGC-C-CACAAGTCGGTGGC-ACTCTT
*
94197 TTCAAAGCCCACAAGTCGATGGCA-TCTT
1 TTCAAAGCCCACAAGTCGGTGGCACTCTT
* *** * *
94225 TTAAAAGCCCACAAGTCAACGGC-CCCCT
1 TTCAAAGCCCACAAGTCGGTGGCACTCTT
** *
94253 TTCAAAGCCCACAAGTCAATGGCA-TCCT
1 TTCAAAGCCCACAAGTCGGTGGCACTCTT
*
94281 TTCAAAGTCCACAAGTCGGTGGCA-TCTT
1 TTCAAAGCCCACAAGTCGGTGGCACTCTT
*
94309 TTCAAAGCTCACAAGTCGGTGGCA-TCTT
1 TTCAAAGCCCACAAGTCGGTGGCACTCTT
*
94337 TTCAAAGCCCATAAGTCGGTGGCA-TCTT
1 TTCAAAGCCCACAAGTCGGTGGCACTCTT
* * *
94365 TTTAAAGCCCACAAGTCAGTGGCACAC-T
1 TTCAAAGCCCACAAGTCGGTGGCACTCTT
* * *
94393 TTCAAAGCCCACAAGTCAGTGACACCCTT
1 TTCAAAGCCCACAAGTCGGTGGCACTCTT
* *
94422 TTCAAAGCCCATAAGTCAGTGGCACTCTT
1 TTCAAAGCCCACAAGTCGGTGGCACTCTT
94451 TTCAAAGCTCACACAAGTCGGTGGCAACTCTT
1 TTCAAAGC-C-CACAAGTCGGTGGC-ACTCTT
*
94483 TTTAAAGCCCACA
1 TTCAAAGCCCACA
94496 CAAGTTAGTG
Statistics
Matches: 427, Mismatches: 45, Indels: 28
0.85 0.09 0.06
Matches are distributed among these distances:
28 201 0.47
29 39 0.09
30 30 0.07
31 18 0.04
32 137 0.32
33 2 0.00
ACGTcount: A:0.30, C:0.29, G:0.18, T:0.23
Consensus pattern (29 bp):
TTCAAAGCCCACAAGTCGGTGGCACTCTT
Found at i:94671 original size:49 final size:49
Alignment explanation
Indices: 94576--94735 Score: 204
Period size: 49 Copynumber: 3.3 Consensus size: 49
94566 ATCTCTAGCA
* *
94576 TTGAATCAGCATATTGG--CACCTTT--ATTAGCCCAATGTCGCTGGCC
1 TTGAATCAGCACATTGGTCCACCTTTCCATTAGCCTAATGTCGCTGGCC
* * *
94621 TTGAATCAGCATATTGGTCCACCTTTCCCTTAGCCTAATGTCG-TCAGCC
1 TTGAATCAGCACATTGGTCCACCTTTCCATTAGCCTAATGTCGCT-GGCC
* *
94670 TTGAATCAGCACATTGGTCCACTTTTCCTTTAGCCTAATGTCGCTGGCC
1 TTGAATCAGCACATTGGTCCACCTTTCCATTAGCCTAATGTCGCTGGCC
*
94719 TTGAATTAGCACATTGG
1 TTGAATCAGCACATTGG
94736 CACTCCTCTC
Statistics
Matches: 101, Mismatches: 8, Indels: 8
0.86 0.07 0.07
Matches are distributed among these distances:
45 17 0.17
47 7 0.07
48 1 0.01
49 75 0.74
50 1 0.01
ACGTcount: A:0.21, C:0.27, G:0.19, T:0.33
Consensus pattern (49 bp):
TTGAATCAGCACATTGGTCCACCTTTCCATTAGCCTAATGTCGCTGGCC
Found at i:95341 original size:40 final size:40
Alignment explanation
Indices: 95281--95383 Score: 188
Period size: 40 Copynumber: 2.6 Consensus size: 40
95271 GGTAGAGGAT
*
95281 CATTGTTCAATGTATCGATACATGTATGGATGTATCGATA
1 CATTCTTCAATGTATCGATACATGTATGGATGTATCGATA
95321 CATTCTTCAATGTATCGATACATGTATGGATGTATCGATA
1 CATTCTTCAATGTATCGATACATGTATGGATGTATCGATA
*
95361 CATTCTTCAATGTATTGATACAT
1 CATTCTTCAATGTATCGATACAT
95384 TCTATTTTTT
Statistics
Matches: 61, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
40 61 1.00
ACGTcount: A:0.30, C:0.15, G:0.17, T:0.39
Consensus pattern (40 bp):
CATTCTTCAATGTATCGATACATGTATGGATGTATCGATA
Found at i:95373 original size:20 final size:20
Alignment explanation
Indices: 95281--95386 Score: 108
Period size: 20 Copynumber: 5.3 Consensus size: 20
95271 GGTAGAGGAT
*
95281 CATTGTTCAATGTATCGATA
1 CATTCTTCAATGTATCGATA
* **
95301 CATGT-ATGGATGTATCGATA
1 CAT-TCTTCAATGTATCGATA
95321 CATTCTTCAATGTATCGATA
1 CATTCTTCAATGTATCGATA
* **
95341 CATGT-ATGGATGTATCGATA
1 CAT-TCTTCAATGTATCGATA
*
95361 CATTCTTCAATGTATTGATA
1 CATTCTTCAATGTATCGATA
95381 CATTCT
1 CATTCT
95387 ATTTTTTACC
Statistics
Matches: 69, Mismatches: 13, Indels: 8
0.77 0.14 0.09
Matches are distributed among these distances:
19 2 0.03
20 65 0.94
21 2 0.03
ACGTcount: A:0.29, C:0.15, G:0.16, T:0.40
Consensus pattern (20 bp):
CATTCTTCAATGTATCGATA
Found at i:95425 original size:20 final size:20
Alignment explanation
Indices: 95400--95565 Score: 107
Period size: 20 Copynumber: 7.8 Consensus size: 20
95390 TTTTACCTAG
*
95400 ATGTATCGATAAATTTTTCA
1 ATGTATCGATACATTTTTCA
* * *
95420 ATGTATCGATACATGTATGA
1 ATGTATCGATACATTTTTCA
* * * *
95440 CTGTATCAATATATTATTCA
1 ATGTATCGATACATTTTTCA
*
95460 ATGTATTGATATATTCTATCTTTTTACCCA
1 ATGTATCG--ATA--C-A--TTTTT---CA
95490 GATGTATCGATACATTTTTCA
1 -ATGTATCGATACATTTTTCA
* * * *
95511 ATGTATCAATACATGTATGA
1 ATGTATCGATACATTTTTCA
*
95531 CTGTATCGATACATTTTTCA
1 ATGTATCGATACATTTTTCA
95551 ATGTATCGATACATT
1 ATGTATCGATACATT
95566 CTGTCTTTTT
Statistics
Matches: 108, Mismatches: 27, Indels: 22
0.69 0.17 0.14
Matches are distributed among these distances:
20 79 0.73
21 2 0.02
22 3 0.03
24 5 0.05
25 1 0.01
26 1 0.01
27 5 0.05
29 3 0.03
30 2 0.02
31 7 0.06
ACGTcount: A:0.32, C:0.14, G:0.11, T:0.43
Consensus pattern (20 bp):
ATGTATCGATACATTTTTCA
Found at i:95528 original size:91 final size:91
Alignment explanation
Indices: 95309--95616 Score: 467
Period size: 91 Copynumber: 3.4 Consensus size: 91
95299 TACATGTATG
* *
95309 GATGTATCGATACATTCTTCAATGTATCGATACATGTATGGA-TGTATCGATACATTCTTCAATG
1 GATGTATCGATACATTTTTCAATGTATCGATACATGTAT-GACTGTATCGATACATTATTCAATG
*
95373 TATTGATACATTCTAT-TTTTTACCTA
65 TATTGATACATTCTATCTTTTTACCCA
* * *
95399 GATGTATCGATAAATTTTTCAATGTATCGATACATGTATGACTGTATCAATATATTATTCAATGT
1 GATGTATCGATACATTTTTCAATGTATCGATACATGTATGACTGTATCGATACATTATTCAATGT
*
95464 ATTGATATATTCTATCTTTTTACCCA
66 ATTGATACATTCTATCTTTTTACCCA
* *
95490 GATGTATCGATACATTTTTCAATGTATCAATACATGTATGACTGTATCGATACATTTTTCAATGT
1 GATGTATCGATACATTTTTCAATGTATCGATACATGTATGACTGTATCGATACATTATTCAATGT
* * *
95555 ATCGATACATTCTGTCTTTTTTTCCCA
66 ATTGATACATTCTATC-TTTTTACCCA
*
95582 GATGTATCGATATATTTTTCAATGTATCGATACAT
1 GATGTATCGATACATTTTTCAATGTATCGATACAT
95617 CTAATTAAAA
Statistics
Matches: 197, Mismatches: 18, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
89 2 0.01
90 71 0.36
91 82 0.42
92 42 0.21
ACGTcount: A:0.30, C:0.15, G:0.12, T:0.43
Consensus pattern (91 bp):
GATGTATCGATACATTTTTCAATGTATCGATACATGTATGACTGTATCGATACATTATTCAATGT
ATTGATACATTCTATCTTTTTACCCA
Found at i:102349 original size:20 final size:22
Alignment explanation
Indices: 102314--102354 Score: 68
Period size: 20 Copynumber: 2.0 Consensus size: 22
102304 AAAAGTCAAA
102314 ACCCTAGAAGGTATTGATACAG
1 ACCCTAGAAGGTATTGATACAG
102336 ACCC-AGAA-GTATTGATACA
1 ACCCTAGAAGGTATTGATACA
102355 TATTGCTTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 11 0.58
21 4 0.21
22 4 0.21
ACGTcount: A:0.39, C:0.20, G:0.20, T:0.22
Consensus pattern (22 bp):
ACCCTAGAAGGTATTGATACAG
Found at i:102492 original size:13 final size:13
Alignment explanation
Indices: 102471--102500 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
102461 ATTGATAGAT
*
102471 GATATATTGTATC
1 GATACATTGTATC
102484 GATACATTGTATC
1 GATACATTGTATC
102497 GATA
1 GATA
102501 GATAGTAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.33, C:0.10, G:0.17, T:0.40
Consensus pattern (13 bp):
GATACATTGTATC
Found at i:107186 original size:20 final size:21
Alignment explanation
Indices: 107161--107200 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 21
107151 AAATTTTTAG
107161 AATGTATCGATACAT-TGAAT
1 AATGTATCGATACATCTGAAT
107181 AATGTATCGATACATCTGAA
1 AATGTATCGATACATCTGAA
107201 AAACCCAGAT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 15 0.79
21 4 0.21
ACGTcount: A:0.40, C:0.12, G:0.15, T:0.33
Consensus pattern (21 bp):
AATGTATCGATACATCTGAAT
Found at i:108784 original size:33 final size:33
Alignment explanation
Indices: 108742--108811 Score: 122
Period size: 33 Copynumber: 2.1 Consensus size: 33
108732 ATACATTTTG
*
108742 CATTGTATCGATACATTGCTCGTTGTATCAATA
1 CATTGTATCGATACATTGCTCATTGTATCAATA
*
108775 CATTGTATCGCTACATTGCTCATTGTATCAATA
1 CATTGTATCGATACATTGCTCATTGTATCAATA
108808 CATT
1 CATT
108812 TTACAATGTA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.27, C:0.20, G:0.13, T:0.40
Consensus pattern (33 bp):
CATTGTATCGATACATTGCTCATTGTATCAATA
Found at i:108809 original size:20 final size:20
Alignment explanation
Indices: 108742--108811 Score: 64
Period size: 20 Copynumber: 3.9 Consensus size: 20
108732 ATACATTTTG
*
108742 CATTGTATCGATACATTGCT
1 CATTGTATCAATACATTGCT
*
108762 CGTTGTATCAATACATTG-T
1 CATTGTATCAATACATTGCT
*
108781 -ATCG---C--TACATTGCT
1 CATTGTATCAATACATTGCT
108795 CATTGTATCAATACATT
1 CATTGTATCAATACATT
108812 TTACAATGTA
Statistics
Matches: 38, Mismatches: 5, Indels: 14
0.67 0.09 0.25
Matches are distributed among these distances:
13 7 0.18
14 1 0.03
15 4 0.11
18 3 0.08
19 1 0.03
20 22 0.58
ACGTcount: A:0.27, C:0.20, G:0.13, T:0.40
Consensus pattern (20 bp):
CATTGTATCAATACATTGCT
Found at i:111119 original size:51 final size:51
Alignment explanation
Indices: 111054--111375 Score: 294
Period size: 51 Copynumber: 6.3 Consensus size: 51
111044 ATTTTTCATC
*
111054 TCGGGGATACTCCAA-TCCCGATTTCATTTCCAAAACATCAATTTTTCTTAA
1 TCGGGGATACTCCAACT-CCGATTTCATTTCCAAAACATCAATTTTTCTCAA
* * * * *
111105 TCGGGGATACTCCAACTCCGATTTTATTTCTAAAGCATCGA-TTTACTGCAA
1 TCGGGGATACTCCAACTCCGATTTCATTTCCAAAACATCAATTTTTCT-CAA
* * * *
111156 CCGGGGATACT-CAAATCCCGGTTTCATTTCCAAAACATCAATTTTTCTTAA
1 TCGGGGATACTCCAACT-CCGATTTCATTTCCAAAACATCAATTTTTCTCAA
** * * * * *
111207 TCAAGGATACTCCAACTCCGATTTTATTTCTAAAGCATCGA-TTTACTGCAA
1 TCGGGGATACTCCAACTCCGATTTCATTTCCAAAACATCAATTTTTCT-CAA
* * * * *
111258 CCAGGGATACTCCAA-TCCCGGTTTCATCTCCAAAACATCAATTTTTCTTAA
1 TCGGGGATACTCCAACT-CCGATTTCATTTCCAAAACATCAATTTTTCTCAA
** * * * * *
111309 TCGGGGATACTCCAACTCTAATTTTATTTCGAAAATACCAATTTTTCACAA
1 TCGGGGATACTCCAACTCCGATTTCATTTCCAAAACATCAATTTTTCTCAA
*
111360 TTGGGGATACTCCAAC
1 TCGGGGATACTCCAAC
111376 CAGGTCATTT
Statistics
Matches: 213, Mismatches: 49, Indels: 18
0.76 0.17 0.06
Matches are distributed among these distances:
50 15 0.07
51 182 0.85
52 16 0.08
ACGTcount: A:0.30, C:0.25, G:0.12, T:0.33
Consensus pattern (51 bp):
TCGGGGATACTCCAACTCCGATTTCATTTCCAAAACATCAATTTTTCTCAA
Found at i:111374 original size:102 final size:102
Alignment explanation
Indices: 111055--111338 Score: 496
Period size: 102 Copynumber: 2.8 Consensus size: 102
111045 TTTTTCATCT
*
111055 CGGGGATACTCCAATCCCGATTTCATTTCCAAAACATCAATTTTTCTTAATCGGGGATACTCCAA
1 CGGGGATACTCCAATCCCGGTTTCATTTCCAAAACATCAATTTTTCTTAATCGGGGATACTCCAA
111120 CTCCGATTTTATTTCTAAAGCATCGATTTACTGCAAC
66 CTCCGATTTTATTTCTAAAGCATCGATTTACTGCAAC
* **
111157 CGGGGATACTCAAATCCCGGTTTCATTTCCAAAACATCAATTTTTCTTAATCAAGGATACTCCAA
1 CGGGGATACTCCAATCCCGGTTTCATTTCCAAAACATCAATTTTTCTTAATCGGGGATACTCCAA
111222 CTCCGATTTTATTTCTAAAGCATCGATTTACTGCAAC
66 CTCCGATTTTATTTCTAAAGCATCGATTTACTGCAAC
* *
111259 CAGGGATACTCCAATCCCGGTTTCATCTCCAAAACATCAATTTTTCTTAATCGGGGATACTCCAA
1 CGGGGATACTCCAATCCCGGTTTCATTTCCAAAACATCAATTTTTCTTAATCGGGGATACTCCAA
**
111324 CTCTAATTTTATTTC
66 CTCCGATTTTATTTC
111339 GAAAATACCA
Statistics
Matches: 171, Mismatches: 11, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
102 171 1.00
ACGTcount: A:0.29, C:0.25, G:0.12, T:0.34
Consensus pattern (102 bp):
CGGGGATACTCCAATCCCGGTTTCATTTCCAAAACATCAATTTTTCTTAATCGGGGATACTCCAA
CTCCGATTTTATTTCTAAAGCATCGATTTACTGCAAC
Found at i:111589 original size:51 final size:51
Alignment explanation
Indices: 111527--111645 Score: 157
Period size: 51 Copynumber: 2.3 Consensus size: 51
111517 TTATTTTCGA
* * * *
111527 GGGGATACTCCAACCCCAATTTTATTTCTAAAATACCAATTTTTCACAATC
1 GGGGATACTCCAACCCCAATTTTAGTTCCAAAACACCAATTTCTCACAATC
* ** * *
111578 GGGGATACTCCAACTCTGATTTTAGTTCCAAAACAGCAATTTCTCATAATC
1 GGGGATACTCCAACCCCAATTTTAGTTCCAAAACACCAATTTCTCACAATC
111629 GGGGATACTCCAACCCC
1 GGGGATACTCCAACCCC
111646 GTTATTTTCA
Statistics
Matches: 57, Mismatches: 11, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
51 57 1.00
ACGTcount: A:0.31, C:0.27, G:0.13, T:0.29
Consensus pattern (51 bp):
GGGGATACTCCAACCCCAATTTTAGTTCCAAAACACCAATTTCTCACAATC
Found at i:111748 original size:130 final size:130
Alignment explanation
Indices: 111496--111774 Score: 312
Period size: 130 Copynumber: 2.1 Consensus size: 130
111486 CCATTATGTC
* * ** *
111496 ATCGGGGATACTCCCATCCCGTTATTTTCGAGGGGATACTCCAACCCCAATTTTATTTCTAAAAT
1 ATCGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCAACCTTATTTCAAAAAT
* * ** *
111561 ACCAATTTTTCACAATCGGGGATACTCCAACTCTGATTTTAGTTCCAAAACAGCAATTTCTCATA
66 ACCAATTTTTCACAATCGGAGATACTCCAACCCCAATTTTAGTTCCAAAACACCAATTTCTCATA
* **
111626 ATCGGGGATACTCCAACCCCGTTATTTTC-ACGGGGATACTCCAACCTCGGCCTTATTTCAAAAG
1 ATCGGGGATACTCCAACCCCGTTATTTTCGA-GGGGATACTCCAACCCCAACCTTATTTCAAAA-
* * * * ** * *
111690 CAT-CGATTTTTTCACAATCGGAGATACTCTAACCCCAATTTT-TTTTTAGAACACCAATTTTTC
64 -ATACCAATTTTTCACAATCGGAGATACTCCAACCCCAATTTTAGTTCCAAAACACCAATTTCTC
111753 ATA
128 ATA
*
111756 ATCGGGGATACTTCAACCC
1 ATCGGGGATACTCCAACCC
111775 TGTTGTTATC
Statistics
Matches: 124, Mismatches: 22, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
129 1 0.01
130 89 0.72
131 32 0.26
132 2 0.02
ACGTcount: A:0.28, C:0.26, G:0.14, T:0.32
Consensus pattern (130 bp):
ATCGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCAACCTTATTTCAAAAAT
ACCAATTTTTCACAATCGGAGATACTCCAACCCCAATTTTAGTTCCAAAACACCAATTTCTCATA
Found at i:113298 original size:16 final size:16
Alignment explanation
Indices: 113277--113312 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
113267 ACTTTTATTT
**
113277 CTTTGCTTGTTTTTAA
1 CTTTGCTTGTACTTAA
113293 CTTTGCTTGTACTTAA
1 CTTTGCTTGTACTTAA
113309 CTTT
1 CTTT
113313 TTTTAATGAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.14, C:0.17, G:0.11, T:0.58
Consensus pattern (16 bp):
CTTTGCTTGTACTTAA
Found at i:114199 original size:20 final size:22
Alignment explanation
Indices: 114162--114204 Score: 72
Period size: 20 Copynumber: 2.0 Consensus size: 22
114152 ACAAAGGTCA
114162 AAACCCTAGAAGGTATCGATAC
1 AAACCCTAGAAGGTATCGATAC
114184 AAACCC-AGAA-GTATCGATAC
1 AAACCCTAGAAGGTATCGATAC
114204 A
1 A
114205 TATTGCTTTG
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
20 11 0.52
21 4 0.19
22 6 0.29
ACGTcount: A:0.44, C:0.23, G:0.16, T:0.16
Consensus pattern (22 bp):
AAACCCTAGAAGGTATCGATAC
Found at i:115765 original size:61 final size:61
Alignment explanation
Indices: 115700--115901 Score: 178
Period size: 61 Copynumber: 3.3 Consensus size: 61
115690 CGGATGGAGC
*
115700 TATTTTAAAATCAAAATTCGATTTTAAAAAATTCAGGTAAAAATTAGATTAGGATAACGAA
1 TATTTTAAAATCAAAATTCGATTTTAAAAAATTCAGGTAAAAATTAGAATAGGATAACGAA
* * * * * ** * * * *
115761 TATTTTAAAATCAAAA-CCGA--ATCAAAATTTAAATTTAAAAATTTGAACAATCGGATAAAG-C
1 TATTTTAAAATCAAAATTCGATTTTAAAAAATT-CAGGTAAAAA-TT--AGAATAGGATAACGAA
* *
115822 TATTTTAAAAACTCAAAATTCGATTTTAAAAAATTCAGGTAAAAATTAGACTGGGATAACGAA
1 TATTTT-AAAA-TCAAAATTCGATTTTAAAAAATTCAGGTAAAAATTAGAATAGGATAACGAA
* *
115885 TTTTTTAAAAACAAAAT
1 TATTTTAAAATCAAAAT
115902 GGAATATCTT
Statistics
Matches: 105, Mismatches: 26, Indels: 20
0.70 0.17 0.13
Matches are distributed among these distances:
58 7 0.07
59 7 0.07
60 5 0.05
61 28 0.27
62 28 0.27
63 11 0.10
64 5 0.05
65 7 0.07
66 7 0.07
ACGTcount: A:0.50, C:0.09, G:0.10, T:0.32
Consensus pattern (61 bp):
TATTTTAAAATCAAAATTCGATTTTAAAAAATTCAGGTAAAAATTAGAATAGGATAACGAA
Found at i:115823 original size:122 final size:123
Alignment explanation
Indices: 115658--115900 Score: 382
Period size: 124 Copynumber: 2.0 Consensus size: 123
115648 CGGTTAAAAA
* **
115658 GAATCCAAATTTAAATTTAAAATCTAAACAATCGGATGGAGCTATTTT-AAAA-TCAAAATTCGA
1 GAATCAAAATTTAAATTTAAAATCTAAACAATCGGATAAAGCTATTTTAAAAACTCAAAATTCGA
* *
115721 TTTTAAAAAATTCAGGTAAAAATTAGATTAGGATAACGAATATTTTAAAATCAAAACC
66 TTTTAAAAAATTCAGGTAAAAATTAGACTAGGATAACGAATATTTTAAAAACAAAACC
* *
115779 GAATCAAAATTTAAATTTAAAAATTTGAACAATCGGATAAAGCTATTTTAAAAACTCAAAATTCG
1 GAATCAAAATTTAAATTT-AAAATCTAAACAATCGGATAAAGCTATTTTAAAAACTCAAAATTCG
* *
115844 ATTTTAAAAAATTCAGGTAAAAATTAGACTGGGATAACGAATTTTTTAAAAACAAAA
65 ATTTTAAAAAATTCAGGTAAAAATTAGACTAGGATAACGAATATTTTAAAAACAAAA
115901 TGGAATATCT
Statistics
Matches: 110, Mismatches: 9, Indels: 3
0.90 0.07 0.02
Matches are distributed among these distances:
121 17 0.15
122 26 0.24
123 4 0.04
124 63 0.57
ACGTcount: A:0.49, C:0.10, G:0.11, T:0.30
Consensus pattern (123 bp):
GAATCAAAATTTAAATTTAAAATCTAAACAATCGGATAAAGCTATTTTAAAAACTCAAAATTCGA
TTTTAAAAAATTCAGGTAAAAATTAGACTAGGATAACGAATATTTTAAAAACAAAACC
Found at i:116658 original size:16 final size:16
Alignment explanation
Indices: 116637--116689 Score: 54
Period size: 16 Copynumber: 3.2 Consensus size: 16
116627 TGATTTTATC
116637 ATTTTTATATATTTAA
1 ATTTTTATATATTTAA
116653 ATTTTTAT-TATTCTAA
1 ATTTTTATATATT-TAA
* * *
116669 ATATATTCTATATTTAC
1 AT-TTTTATATATTTAA
116686 ATTT
1 ATTT
116690 CGATTTTTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 6
0.75 0.10 0.15
Matches are distributed among these distances:
15 4 0.13
16 14 0.47
17 8 0.27
18 4 0.13
ACGTcount: A:0.34, C:0.06, G:0.00, T:0.60
Consensus pattern (16 bp):
ATTTTTATATATTTAA
Found at i:117107 original size:21 final size:21
Alignment explanation
Indices: 117078--117117 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
117068 TTATTTTTAA
117078 TTAAAAATAT-ATACTTATATT
1 TTAAAAATATAATA-TTATATT
*
117099 TTAATAATATAATATTATA
1 TTAAAAATATAATATTATA
117118 CTCTAGGCAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 14 0.82
22 3 0.18
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (21 bp):
TTAAAAATATAATATTATATT
Found at i:117629 original size:19 final size:20
Alignment explanation
Indices: 117600--117640 Score: 66
Period size: 19 Copynumber: 2.1 Consensus size: 20
117590 TTGAATTAAA
*
117600 TTAAAAGTTTAAAATTTTAT
1 TTAAAAGTTTAAAATATTAT
117620 TTAAAA-TTTAAAATATTAT
1 TTAAAAGTTTAAAATATTAT
117639 TT
1 TT
117641 TTATATTAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
19 14 0.70
20 6 0.30
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.51
Consensus pattern (20 bp):
TTAAAAGTTTAAAATATTAT
Found at i:117642 original size:25 final size:25
Alignment explanation
Indices: 117614--117680 Score: 72
Period size: 25 Copynumber: 2.8 Consensus size: 25
117604 AAGTTTAAAA
117614 TTTTAT-TTAAAATTTAAAATATTAT
1 TTTTATATTAAAATTT-AAATATTAT
*
117639 TTTTATATTAATATTTAAATA-T-T
1 TTTTATATTAAAATTTAAATATTAT
*
117662 TTATA-ATT-AAATTTAAATA
1 TTTTATATTAAAATTTAAATA
117681 AAAATAATTT
Statistics
Matches: 38, Mismatches: 3, Indels: 6
0.81 0.06 0.13
Matches are distributed among these distances:
21 10 0.26
22 3 0.08
23 5 0.13
24 1 0.03
25 11 0.29
26 8 0.21
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (25 bp):
TTTTATATTAAAATTTAAATATTAT
Found at i:117663 original size:21 final size:21
Alignment explanation
Indices: 117639--117680 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
117629 AAAATATTAT
117639 TTTTAT-ATTAATATTTAAATA
1 TTTTATAATTAA-ATTTAAATA
117660 TTTTATAATTAAATTTAAATA
1 TTTTATAATTAAATTTAAATA
117681 AAAATAATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
21 15 0.75
22 5 0.25
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (21 bp):
TTTTATAATTAAATTTAAATA
Found at i:117713 original size:28 final size:27
Alignment explanation
Indices: 117646--117713 Score: 68
Period size: 28 Copynumber: 2.4 Consensus size: 27
117636 TATTTTTATA
117646 TTAATATTTAAATATTTTATAATTAAAT
1 TTAA-ATTTAAATATTTTATAATTAAAT
**
117674 TTAAATAAAAATAATTTTATTAA-TAAAT
1 TTAAATTTAAAT-ATTTTA-TAATTAAAT
117702 ATT-AATTTAAAT
1 -TTAAATTTAAAT
117714 TAAGTTATAT
Statistics
Matches: 33, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
27 6 0.18
28 22 0.67
29 5 0.15
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (27 bp):
TTAAATTTAAATATTTTATAATTAAAT
Found at i:117743 original size:20 final size:20
Alignment explanation
Indices: 117692--117744 Score: 61
Period size: 20 Copynumber: 2.6 Consensus size: 20
117682 AAATAATTTT
*
117692 ATTAATAAATATTAATTTAA
1 ATTAAAAAATATTAATTTAA
*** *
117712 ATTAAGTTATATTGATTTAA
1 ATTAAAAAATATTAATTTAA
117732 ATTAAAAAATATT
1 ATTAAAAAATATT
117745 TAATCAAACA
Statistics
Matches: 26, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.51, C:0.00, G:0.04, T:0.45
Consensus pattern (20 bp):
ATTAAAAAATATTAATTTAA
Found at i:117955 original size:17 final size:18
Alignment explanation
Indices: 117919--117955 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
117909 ATCTTATTTA
*
117919 AAATTTTTATATTTATAT
1 AAATTTTAATATTTATAT
117937 AAATTTTAATATTTA-AT
1 AAATTTTAATATTTATAT
117954 AA
1 AA
117956 TTTATATTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 4 0.22
18 14 0.78
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (18 bp):
AAATTTTAATATTTATAT
Found at i:119600 original size:27 final size:27
Alignment explanation
Indices: 119562--119620 Score: 66
Period size: 27 Copynumber: 2.1 Consensus size: 27
119552 GAAATGCTCC
**
119562 TTAAATAATTTAATTTTTTTAT-AAAA
1 TTAAATAATTTAACATTTTTATAAAAA
*
119588 TTAACTAATTTTAACATTTTTATCAAAAA
1 TTAAATAA-TTTAACATTTTTAT-AAAAA
119617 TTAA
1 TTAA
119621 TTTAAATTTA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
26 7 0.26
27 12 0.44
29 8 0.30
ACGTcount: A:0.46, C:0.05, G:0.00, T:0.49
Consensus pattern (27 bp):
TTAAATAATTTAACATTTTTATAAAAA
Found at i:124752 original size:33 final size:33
Alignment explanation
Indices: 124733--124812 Score: 160
Period size: 33 Copynumber: 2.4 Consensus size: 33
124723 CACAATTTAT
124733 CATGTATCGATACATTGTATCAATACAATGTGC
1 CATGTATCGATACATTGTATCAATACAATGTGC
124766 CATGTATCGATACATTGTATCAATACAATGTGC
1 CATGTATCGATACATTGTATCAATACAATGTGC
124799 CATGTATCGATACA
1 CATGTATCGATACA
124813 AACAGTGGTA
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 47 1.00
ACGTcount: A:0.34, C:0.19, G:0.15, T:0.33
Consensus pattern (33 bp):
CATGTATCGATACATTGTATCAATACAATGTGC
Found at i:124771 original size:20 final size:20
Alignment explanation
Indices: 124748--124813 Score: 65
Period size: 20 Copynumber: 3.6 Consensus size: 20
124738 ATCGATACAT
124748 TGTATCAATACAATGTGCCA
1 TGTATCAATACAATGTGCCA
*
124768 TGTATCGATAC-A--T----
1 TGTATCAATACAATGTGCCA
124781 TGTATCAATACAATGTGCCA
1 TGTATCAATACAATGTGCCA
*
124801 TGTATCGATACAA
1 TGTATCAATACAA
124814 ACAGTGGTAG
Statistics
Matches: 36, Mismatches: 3, Indels: 14
0.68 0.06 0.26
Matches are distributed among these distances:
13 10 0.28
14 1 0.03
16 1 0.03
17 1 0.03
19 1 0.03
20 22 0.61
ACGTcount: A:0.35, C:0.18, G:0.15, T:0.32
Consensus pattern (20 bp):
TGTATCAATACAATGTGCCA
Found at i:128778 original size:13 final size:13
Alignment explanation
Indices: 128760--128797 Score: 67
Period size: 13 Copynumber: 2.9 Consensus size: 13
128750 ATAATCCCCC
128760 TGTATCGATACAG
1 TGTATCGATACAG
*
128773 TGTATCGATACAT
1 TGTATCGATACAG
128786 TGTATCGATACA
1 TGTATCGATACA
128798 AAGAAAAATG
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:0.32, C:0.16, G:0.18, T:0.34
Consensus pattern (13 bp):
TGTATCGATACAG
Found at i:134681 original size:32 final size:30
Alignment explanation
Indices: 134645--134703 Score: 75
Period size: 32 Copynumber: 1.9 Consensus size: 30
134635 GAAATCAAAT
134645 ACAAAGAGCT-TAGAAAAATAATAACAATATGA
1 ACAAA-AGCTCTAGAAAAAT-ATAA-AATATGA
*
134677 ACAAAAGCTCTTGAAAAATATAAAATA
1 ACAAAAGCTCTAGAAAAATATAAAATA
134704 CTTTGATCTA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
30 4 0.16
31 8 0.32
32 13 0.52
ACGTcount: A:0.59, C:0.10, G:0.10, T:0.20
Consensus pattern (30 bp):
ACAAAAGCTCTAGAAAAATATAAAATATGA
Found at i:139789 original size:3 final size:3
Alignment explanation
Indices: 139781--139805 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
139771 TCCGAGTCAA
139781 CAT CAT CAT CAT CAT CAT CAT CAT C
1 CAT CAT CAT CAT CAT CAT CAT CAT C
139806 TTTATCGTCT
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:0.36, G:0.00, T:0.32
Consensus pattern (3 bp):
CAT
Found at i:141440 original size:33 final size:33
Alignment explanation
Indices: 141398--141462 Score: 94
Period size: 33 Copynumber: 2.0 Consensus size: 33
141388 TTTGAAGCAA
* * *
141398 TGTATCGATACAATTTATCATTTATCGATACAT
1 TGTATCGATACAATGTACCATGTATCGATACAT
*
141431 TGTATCGATACAATGTGCCATGTATCGATACA
1 TGTATCGATACAATGTACCATGTATCGATACA
141463 AACAGTGGTA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 28 1.00
ACGTcount: A:0.32, C:0.17, G:0.14, T:0.37
Consensus pattern (33 bp):
TGTATCGATACAATGTACCATGTATCGATACAT
Found at i:141517 original size:20 final size:19
Alignment explanation
Indices: 141492--141564 Score: 76
Period size: 20 Copynumber: 3.7 Consensus size: 19
141482 CTACCAGTTT
**
141492 CATGTATCGATACAATTGTG
1 CATGTATCGATACAA-TGAA
141512 CATGTATCGATACAATGAA
1 CATGTATCGATACAATGAA
* *
141531 CATGCATCGATACAAAGCATA
1 CATGTATCGATACAATG-A-A
141552 -ATGTATCGATACA
1 CATGTATCGATACA
141565 TCTAGATGTG
Statistics
Matches: 46, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
19 17 0.37
20 28 0.61
21 1 0.02
ACGTcount: A:0.38, C:0.18, G:0.16, T:0.27
Consensus pattern (19 bp):
CATGTATCGATACAATGAA
Found at i:141539 original size:19 final size:20
Alignment explanation
Indices: 141492--141545 Score: 74
Period size: 19 Copynumber: 2.8 Consensus size: 20
141482 CTACCAGTTT
**
141492 CATGTATCGATACAATTGTG
1 CATGTATCGATACAATTGAA
141512 CATGTATCGATACAA-TGAA
1 CATGTATCGATACAATTGAA
*
141531 CATGCATCGATACAA
1 CATGTATCGATACAA
141546 AGCATAATGT
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
19 16 0.52
20 15 0.48
ACGTcount: A:0.37, C:0.19, G:0.17, T:0.28
Consensus pattern (20 bp):
CATGTATCGATACAATTGAA
Found at i:144745 original size:39 final size:39
Alignment explanation
Indices: 144687--144783 Score: 142
Period size: 39 Copynumber: 2.5 Consensus size: 39
144677 ATAATACGTA
* * *
144687 ATTT-AAGTTCAGATCATTTCGGGTTAATTGTTTGGATC
1 ATTTCAAGTTCGGATCATTTCGGATTAATTGTTTGGACC
*
144725 ATTTCAAGTTCGGATCATTTCGGATTAATTGTTTGGGCC
1 ATTTCAAGTTCGGATCATTTCGGATTAATTGTTTGGACC
*
144764 ATTTCAAGTTTGGATCATTT
1 ATTTCAAGTTCGGATCATTT
144784 TGAGTTCGAG
Statistics
Matches: 53, Mismatches: 5, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
38 4 0.08
39 49 0.92
ACGTcount: A:0.23, C:0.12, G:0.21, T:0.44
Consensus pattern (39 bp):
ATTTCAAGTTCGGATCATTTCGGATTAATTGTTTGGACC
Found at i:147198 original size:3 final size:3
Alignment explanation
Indices: 147190--147218 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
147180 AGTAAATCCA
147190 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
147219 CATAGAATTG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:150672 original size:39 final size:39
Alignment explanation
Indices: 150587--150672 Score: 91
Period size: 39 Copynumber: 2.2 Consensus size: 39
150577 ATGATAAGAC
* * *
150587 ATGATTACAATACAATTAAAATTGATCTGTTAACGTTTAT
1 ATGA-TACAACACAATTAAAATTGATCTGTTAACATTAAT
* * * * *
150627 ACGATACAACACGATTAAACTTGATCTGTTTATATTAAT
1 ATGATACAACACAATTAAAATTGATCTGTTAACATTAAT
150666 ATGATAC
1 ATGATAC
150673 GACATGACAC
Statistics
Matches: 37, Mismatches: 9, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
39 34 0.92
40 3 0.08
ACGTcount: A:0.40, C:0.13, G:0.10, T:0.37
Consensus pattern (39 bp):
ATGATACAACACAATTAAAATTGATCTGTTAACATTAAT
Found at i:154946 original size:13 final size:13
Alignment explanation
Indices: 154928--154956 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
154918 TGAAAAATTG
154928 TATTCCCTTTAGT
1 TATTCCCTTTAGT
154941 TATTCCCTTTAGT
1 TATTCCCTTTAGT
154954 TAT
1 TAT
154957 AGCAATACTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.17, C:0.21, G:0.07, T:0.55
Consensus pattern (13 bp):
TATTCCCTTTAGT
Found at i:167103 original size:49 final size:49
Alignment explanation
Indices: 166912--167615 Score: 664
Period size: 49 Copynumber: 14.4 Consensus size: 49
166902 ATATGCGGCT
* * * * * *
166912 AGCGATATTGGGCTTGAAGATGTAAAGAATGACAACGTGCTGATTCATGGCC
1 AGCGATATTGGACTTAAAGATG--AAG-GTGCCAATGTGCTGATTCAAGGCC
* * * * * **
166964 AGCGACATTAGACTTGAAGAAGAA--TGCCAATGTGCTAAGACAAGGCC
1 AGCGATATTGGACTTAAAGATGAAGGTGCCAATGTGCTGATTCAAGGCC
* * * * * *
167011 AGCGACATTGGGCTTAGGAATGTTAAAGATGCCAATATGCTGATTCAAGGCC
1 AGCGATATTGGACTTA--AA-GATGAAGGTGCCAATGTGCTGATTCAAGGCC
* * *
167063 AACGATATCGGACTTAAAGATGAAGGTGCCAATGTACTGATTCAAGGCC
1 AGCGATATTGGACTTAAAGATGAAGGTGCCAATGTGCTGATTCAAGGCC
** * *
167112 AGCGATATCAGACTTAAAGATGAACGTGCCAATGTGCTGATTAAAGGCC
1 AGCGATATTGGACTTAAAGATGAAGGTGCCAATGTGCTGATTCAAGGCC
* **
167161 AGCAATATTGGACTTAAAGATGAAGGTGCCAATGTATTGATTCAAGGCC
1 AGCGATATTGGACTTAAAGATGAAGGTGCCAATGTGCTGATTCAAGGCC
* *** * *
167210 AGTGATATCAAACTTAAAGATCAACGTGCCAATGTGCTGATTCAAGGCC
1 AGCGATATTGGACTTAAAGATGAAGGTGCCAATGTGCTGATTCAAGGCC
*
167259 AGCGATATTGGACTTAAAGATGGTTAAGGTGCCAATGTGCTTATTCAAGGCC
1 AGCGATATTGGACTTAAAGAT-G--AAGGTGCCAATGTGCTGATTCAAGGCC
* * *
167311 AACGATATTGGGCTTAAAGATGAAGGTGCCAATGTGCTGATTTAAGGCC
1 AGCGATATTGGACTTAAAGATGAAGGTGCCAATGTGCTGATTCAAGGCC
* * * * * * *
167360 AGCAACATTGGACTTAAAGGTAAAGGTGCTAATATGCTGATTTAAGGCC
1 AGCGATATTGGACTTAAAGATGAAGGTGCCAATGTGCTGATTCAAGGCC
* * * *
167409 AGCAACATTGGACTT----A--AAGGTGCCAATATGTTGATTCAAGG-C
1 AGCGATATTGGACTTAAAGATGAAGGTGCCAATGTGCTGATTCAAGGCC
** *
167451 AGCGATATTGGACTTAAAGATGACAAAGGTGCCAACATGTTGATTCAAGGCC
1 AGCGATATTGGACTTAAAGATG---AAGGTGCCAATGTGCTGATTCAAGGCC
* *
167503 AGCGATATTGGACTTAAAGGTGAAGGTGCTAATGTGCTGATTCAAGGCC
1 AGCGATATTGGACTTAAAGATGAAGGTGCCAATGTGCTGATTCAAGGCC
* * *
167552 AGCGACATTGGACTT----A--AAGGTGCCAATATGCTGATTCAAGGCT
1 AGCGATATTGGACTTAAAGATGAAGGTGCCAATGTGCTGATTCAAGGCC
167595 AGCGATATTGGACTTAGAAGA
1 AGCGATATTGGACTTA-AAGA
167616 AGATGCCACC
Statistics
Matches: 542, Mismatches: 87, Indels: 50
0.80 0.13 0.07
Matches are distributed among these distances:
42 14 0.03
43 60 0.11
46 1 0.00
47 30 0.06
48 1 0.00
49 289 0.53
50 7 0.01
51 25 0.05
52 115 0.21
ACGTcount: A:0.33, C:0.16, G:0.26, T:0.25
Consensus pattern (49 bp):
AGCGATATTGGACTTAAAGATGAAGGTGCCAATGTGCTGATTCAAGGCC
Found at i:167315 original size:248 final size:242
Alignment explanation
Indices: 166988--167570 Score: 690
Period size: 248 Copynumber: 2.4 Consensus size: 242
166978 TGAAGAAGAA
* ** * * * * *
166988 TGCCAATGTGCTAAGACAAGGCCAGCGACATTGGGCTTAGGAAT-GTTAAAGATGCCAATATGCT
1 TGCCAATGTGCTGATTCAAGGCCAGCGATATTGGACTTAAG-ATGGTT-AAGGTGCCAATGTGCT
* *
167052 GATTCAAGGCCAACGATATCGGACTTAAAGATGAAGGTGCCAATGTACTGATTCAAGGCCAGCGA
64 GATTCAAGGCCAACGATATTGGACTTAAAGATGAAGGTGCCAATGTACTGATTCAAGGCCAGCAA
* * * *
167117 TATCAGACTTAAAGATGAACGTGCCAATGTGCTGATTAAAGGCCAGCAATATTGGACTTAAAGAT
129 CATCAGACTTAAAGATAAACGTGCCAATATGCTGATTAAAGGCCAGCAACATTGGACTT----A-
* *
167182 GAAGGTGCCAATGTATTGATTCAAGGCCAGTGATATCAAACTTAAAGAT-C-AACG
189 -AAGGTGCCAATATATTGATTCAAGG-CAGCGATATCAAACTTAAAGATACAAACG
*
167236 TGCCAATGTGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGGTTAAGGTGCCAATGTGCTT
1 TGCCAATGTGCTGATTCAAGGCCAGCGATATTGGACTT-AAGATGGTTAAGGTGCCAATGTGCTG
* * *
167301 ATTCAAGGCCAACGATATTGGGCTTAAAGATGAAGGTGCCAATGTGCTGATTTAAGGCCAGCAAC
65 ATTCAAGGCCAACGATATTGGACTTAAAGATGAAGGTGCCAATGTACTGATTCAAGGCCAGCAAC
** * * * *
167366 ATTGGACTTAAAGGTAAAGGTGCTAATATGCTGATTTAAGGCCAGCAACATTGGACTTAAAGGTG
130 ATCAGACTTAAAGATAAACGTGCCAATATGCTGATTAAAGGCCAGCAACATTGGACTTAAAGGTG
* *** *
167431 CCAATATGTTGATTCAAGGCAGCGATATTGGACTTAAAGATGACAAAGG
195 CCAATATATTGATTCAAGGCAGCGATATCAAACTTAAAGAT-ACAAACG
** * * *
167480 TGCCAACATGTTGATTCAAGGCCAGCGATATTGGACTTAA-A-GGTGAAGGTGCTAATGTGCTGA
1 TGCCAATGTGCTGATTCAAGGCCAGCGATATTGGACTTAAGATGGTTAAGGTGCCAATGTGCTGA
* *
167543 TTCAAGGCCAGCGACATTGGACTTAAAG
66 TTCAAGGCCAACGATATTGGACTTAAAG
167571 GTGCCAATAT
Statistics
Matches: 290, Mismatches: 40, Indels: 17
0.84 0.12 0.05
Matches are distributed among these distances:
241 62 0.21
242 24 0.08
243 3 0.01
244 39 0.13
248 157 0.54
249 5 0.02
ACGTcount: A:0.33, C:0.17, G:0.26, T:0.25
Consensus pattern (242 bp):
TGCCAATGTGCTGATTCAAGGCCAGCGATATTGGACTTAAGATGGTTAAGGTGCCAATGTGCTGA
TTCAAGGCCAACGATATTGGACTTAAAGATGAAGGTGCCAATGTACTGATTCAAGGCCAGCAACA
TCAGACTTAAAGATAAACGTGCCAATATGCTGATTAAAGGCCAGCAACATTGGACTTAAAGGTGC
CAATATATTGATTCAAGGCAGCGATATCAAACTTAAAGATACAAACG
Found at i:167500 original size:51 final size:50
Alignment explanation
Indices: 167424--167615 Score: 222
Period size: 43 Copynumber: 4.0 Consensus size: 50
167414 CATTGGACTT
167424 AAAGGTGCCAATATGTTGATTCAAGG-CAGCGATATTGGACTTAAAGATG
1 AAAGGTGCCAATATGTTGATTCAAGGCCAGCGATATTGGACTTAAAGATG
* *
167473 ACAAAGGTGCCAACATGTTGATTCAAGGCCAGCGATATTGGACTTAAAGGTG
1 --AAAGGTGCCAATATGTTGATTCAAGGCCAGCGATATTGGACTTAAAGATG
* * * *
167525 -AAGGTGCTAATGTGCTGATTCAAGGCCAGCGACATTGGAC-T-----T-
1 AAAGGTGCCAATATGTTGATTCAAGGCCAGCGATATTGGACTTAAAGATG
* *
167567 AAAGGTGCCAATATGCTGATTCAAGGCTAGCGATATTGGACTTAGAAGA
1 AAAGGTGCCAATATGTTGATTCAAGGCCAGCGATATTGGACTTA-AAGA
167616 AGATGCCACC
Statistics
Matches: 121, Mismatches: 11, Indels: 19
0.80 0.07 0.13
Matches are distributed among these distances:
43 37 0.31
44 1 0.01
48 1 0.01
49 35 0.29
51 25 0.21
52 22 0.18
ACGTcount: A:0.32, C:0.16, G:0.27, T:0.25
Consensus pattern (50 bp):
AAAGGTGCCAATATGTTGATTCAAGGCCAGCGATATTGGACTTAAAGATG
Found at i:167522 original size:143 final size:140
Alignment explanation
Indices: 167284--167615 Score: 468
Period size: 143 Copynumber: 2.3 Consensus size: 140
167274 AAAGATGGTT
* * * **
167284 AAGGTGCCAATGTGCTT-ATTCAAGGCCAACGATATTGGGCTTAAAGATGAAGGTGCCAATGTGC
1 AAGGTGCCAATATG-TTGATTCAAGG-CAGCGATATTGGACTTAAAGATGAAGGTGCCAACATGC
* *
167348 TGATTTAAGGCCAGCAACATTGGACTTAAAGGTAAAGGTGCTAATATGCTGATTTAAGGCCAGCA
64 TGATTCAAGGCCAGCAACATTGGACTTAAAGGTAAAGGTGCTAATATGCTGATTCAAGGCCAGCA
167413 ACATTGGACTTA
129 ACATTGGACTTA
167425 AAGGTGCCAATATGTTGATTCAAGGCAGCGATATTGGACTTAAAGATGACAAAGGTGCCAACATG
1 AAGGTGCCAATATGTTGATTCAAGGCAGCGATATTGGACTTAAAGATG---AAGGTGCCAACATG
* * * * *
167490 TTGATTCAAGGCCAGCGATATTGGACTTAAAGGTGAAGGTGCTAATGTGCTGATTCAAGGCCAGC
63 CTGATTCAAGGCCAGCAACATTGGACTTAAAGGTAAAGGTGCTAATATGCTGATTCAAGGCCAGC
*
167555 GACATTGGACTTA
128 AACATTGGACTTA
*
167568 AAGGTGCCAATATGCTGATTCAAGGCTAGCGATATTGGACTTAGAAGA
1 AAGGTGCCAATATGTTGATTCAAGGC-AGCGATATTGGACTTA-AAGA
167616 AGATGCCACC
Statistics
Matches: 171, Mismatches: 14, Indels: 8
0.89 0.07 0.04
Matches are distributed among these distances:
140 23 0.13
141 21 0.12
143 107 0.63
144 16 0.09
145 4 0.02
ACGTcount: A:0.32, C:0.16, G:0.27, T:0.26
Consensus pattern (140 bp):
AAGGTGCCAATATGTTGATTCAAGGCAGCGATATTGGACTTAAAGATGAAGGTGCCAACATGCTG
ATTCAAGGCCAGCAACATTGGACTTAAAGGTAAAGGTGCTAATATGCTGATTCAAGGCCAGCAAC
ATTGGACTTA
Found at i:167747 original size:83 final size:83
Alignment explanation
Indices: 167660--167983 Score: 406
Period size: 83 Copynumber: 3.9 Consensus size: 83
167650 TTTCACCAAA
* * *
167660 TTGTGTGCTTTTGAAGGTTGCCACTGCCTTGTGGACTTTGAAGGTTGCCATTGACTTGTGGACTT
1 TTGTGGGCTTTTGAAGGTTGCCACTGACTTGTGGACTTTGAAGGTTGCCACTGACTTGTGGACTT
167725 TGAAAAGGTGCCACTAAC
66 TGAAAAGGTGCCACTAAC
* *
167743 TTGTGGGCTTTTGAAGGTTGCCACCGATTTGTGGACTTTGAAGGTTGCCACTGACTTGTGGACTT
1 TTGTGGGCTTTTGAAGGTTGCCACTGACTTGTGGACTTTGAAGGTTGCCACTGACTTGTGGACTT
167808 TGAAAAGGTGCCACTAAC
66 TGAAAAGGTGCCACTAAC
* *
167826 TTGTGGGCTTTTGAAGGTTGCCACTGACTTGTGGACTTTGAAAAGG-TGCCACTAACTTGTGGGC
1 TTGTGGGCTTTTGAAGGTTGCCACTGACTTGTGGACTTTG--AAGGTTGCCACTGACTTGTGGAC
* *
167890 TTTTG--AAGGTTGCCAGC-GAT
64 -TTTGAAAAGG-TGCCA-CTAAC
* * * * *
167910 TTATGGGCTTTTGAAGGTTGCCACTGACTTAT-GAGCTTTTGAAAAGATGCCACTGACTTGTGGG
1 TTGTGGGCTTTTGAAGGTTGCCACTGACTTGTGGA-C-TTTG-AAGGTTGCCACTGACTTGTGGA
*
167974 CTTTGGAAAG
63 CTTTGAAAAG
167984 TAAGGAATGC
Statistics
Matches: 216, Mismatches: 15, Indels: 17
0.87 0.06 0.07
Matches are distributed among these distances:
83 122 0.56
84 61 0.28
85 30 0.14
86 3 0.01
ACGTcount: A:0.20, C:0.17, G:0.29, T:0.34
Consensus pattern (83 bp):
TTGTGGGCTTTTGAAGGTTGCCACTGACTTGTGGACTTTGAAGGTTGCCACTGACTTGTGGACTT
TGAAAAGGTGCCACTAAC
Found at i:167978 original size:28 final size:27
Alignment explanation
Indices: 167660--167978 Score: 313
Period size: 28 Copynumber: 11.4 Consensus size: 27
167650 TTTCACCAAA
* *
167660 TTGTGTGCTTTTGAAGGTTGCCACTGCC
1 TTGTGGGC-TTTGAAGGTTGCCACTGAC
* *
167688 TTGTGGACTTTGAAGGTTGCCATTGAC
1 TTGTGGGCTTTGAAGGTTGCCACTGAC
* *
167715 TTGTGGACTTTGAAAAGG-TGCCACTAAC
1 TTGTGGGCTTTG--AAGGTTGCCACTGAC
* *
167743 TTGTGGGCTTTTGAAGGTTGCCACCGAT
1 TTGTGGGC-TTTGAAGGTTGCCACTGAC
*
167771 TTGTGGACTTTGAAGGTTGCCACTGAC
1 TTGTGGGCTTTGAAGGTTGCCACTGAC
* *
167798 TTGTGGACTTTGAAAAGG-TGCCACTAAC
1 TTGTGGGCTTTG--AAGGTTGCCACTGAC
167826 TTGTGGGCTTTTGAAGGTTGCCACTGAC
1 TTGTGGGC-TTTGAAGGTTGCCACTGAC
* *
167854 TTGTGGACTTTGAAAAGG-TGCCACTAAC
1 TTGTGGGCTTTG--AAGGTTGCCACTGAC
*
167882 TTGTGGGCTTTTGAAGGTTGCCAGC-GAT
1 TTGTGGGC-TTTGAAGGTTGCCA-CTGAC
*
167910 TTATGGGCTTTTGAAGGTTGCCACTGAC
1 TTGTGGGC-TTTGAAGGTTGCCACTGAC
* * * *
167938 TTATGAGCTTTTGAAAAGATGCCACTGAC
1 TTGTGGGC-TTTG-AAGGTTGCCACTGAC
167967 TTGTGGGCTTTG
1 TTGTGGGCTTTG
167979 GAAAGTAAGG
Statistics
Matches: 248, Mismatches: 28, Indels: 30
0.81 0.09 0.10
Matches are distributed among these distances:
27 75 0.30
28 129 0.52
29 44 0.18
ACGTcount: A:0.20, C:0.17, G:0.29, T:0.34
Consensus pattern (27 bp):
TTGTGGGCTTTGAAGGTTGCCACTGAC
Found at i:168445 original size:18 final size:18
Alignment explanation
Indices: 168422--168457 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
168412 ACGGGAAATG
168422 ACCAAAGCCATTGCAAGT
1 ACCAAAGCCATTGCAAGT
168440 ACCAAAGCCATTGCAAGT
1 ACCAAAGCCATTGCAAGT
168458 TTCTTGAATC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.39, C:0.28, G:0.17, T:0.17
Consensus pattern (18 bp):
ACCAAAGCCATTGCAAGT
Found at i:169456 original size:24 final size:23
Alignment explanation
Indices: 169429--169493 Score: 78
Period size: 24 Copynumber: 2.7 Consensus size: 23
169419 ATCCAGACCC
169429 TTTTTGTTGTTTTTTTTTTGGTTT
1 TTTTTGTTGTTTTTTTTTT-GTTT
169453 TTTTTGTT-TTTGTTTTGTTTGTTT
1 TTTTTGTTGTTT-TTTT-TTTGTTT
* *
169477 TTGTTGTTGTCTTTTTT
1 TTTTTGTTGTTTTTTTT
169494 ACGGAGGATG
Statistics
Matches: 36, Mismatches: 2, Indels: 7
0.80 0.04 0.16
Matches are distributed among these distances:
23 4 0.11
24 27 0.75
25 5 0.14
ACGTcount: A:0.00, C:0.02, G:0.17, T:0.82
Consensus pattern (23 bp):
TTTTTGTTGTTTTTTTTTTGTTT
Found at i:169493 original size:15 final size:15
Alignment explanation
Indices: 169429--169486 Score: 66
Period size: 15 Copynumber: 3.8 Consensus size: 15
169419 ATCCAGACCC
169429 TTTTTGTTGTT-TTT-
1 TTTTTGTT-TTGTTTG
*
169443 TTTTTGGTTTTTTTTG
1 TTTTT-GTTTTGTTTG
169459 TTTTTGTTTTGTTTG
1 TTTTTGTTTTGTTTG
169474 TTTTTGTTGTTGT
1 TTTTTGTT-TTGT
169487 CTTTTTTACG
Statistics
Matches: 39, Mismatches: 1, Indels: 6
0.85 0.02 0.13
Matches are distributed among these distances:
14 7 0.18
15 23 0.59
16 9 0.23
ACGTcount: A:0.00, C:0.00, G:0.19, T:0.81
Consensus pattern (15 bp):
TTTTTGTTTTGTTTG
Found at i:174290 original size:13 final size:13
Alignment explanation
Indices: 174272--174296 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
174262 ATTACTCAAA
174272 TGTATCGATACAT
1 TGTATCGATACAT
174285 TGTATCGATACA
1 TGTATCGATACA
174297 CTGATCTTTG
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:174348 original size:52 final size:52
Alignment explanation
Indices: 174305--174433 Score: 222
Period size: 52 Copynumber: 2.5 Consensus size: 52
174295 CACTGATCTT
* *
174305 TGTATCGATACGTGCAGGCAAATTTGCCCAAATGTATCAATACACTATGAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAAATGTATCGATACACTATGAAA
* *
174357 TGTATCGATACATACAGGCAAATTTGCCCAGATGTATCGATACACTATGAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAAATGTATCGATACACTATGAAA
174409 TGTATCGATACATGCAGGCAAATTT
1 TGTATCGATACATGCAGGCAAATTT
174434 TCATATTTCG
Statistics
Matches: 72, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
52 72 1.00
ACGTcount: A:0.36, C:0.19, G:0.18, T:0.28
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAAATGTATCGATACACTATGAAA
Found at i:185376 original size:15 final size:15
Alignment explanation
Indices: 185356--185386 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
185346 CAGCTTGGGT
185356 TCAAAAAATCATAAC
1 TCAAAAAATCATAAC
185371 TCAAAAAATCATAAC
1 TCAAAAAATCATAAC
185386 T
1 T
185387 TCCTCATCCG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.58, C:0.19, G:0.00, T:0.23
Consensus pattern (15 bp):
TCAAAAAATCATAAC
Found at i:187242 original size:18 final size:18
Alignment explanation
Indices: 187219--187257 Score: 78
Period size: 18 Copynumber: 2.2 Consensus size: 18
187209 GTCCTAAAAT
187219 AATGGATGAGATGACATG
1 AATGGATGAGATGACATG
187237 AATGGATGAGATGACATG
1 AATGGATGAGATGACATG
187255 AAT
1 AAT
187258 AGATATGATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.41, C:0.05, G:0.31, T:0.23
Consensus pattern (18 bp):
AATGGATGAGATGACATG
Found at i:195288 original size:19 final size:20
Alignment explanation
Indices: 195264--195314 Score: 86
Period size: 20 Copynumber: 2.6 Consensus size: 20
195254 TTATGCTTTC
195264 TATCGATACATGTTC-ATTG
1 TATCGATACATGTTCAATTG
*
195283 TATCGATACATATTCAATTG
1 TATCGATACATGTTCAATTG
195303 TATCGATACATG
1 TATCGATACATG
195315 AAACTGGCAG
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
19 14 0.48
20 15 0.52
ACGTcount: A:0.31, C:0.16, G:0.14, T:0.39
Consensus pattern (20 bp):
TATCGATACATGTTCAATTG
Found at i:195304 original size:20 final size:19
Alignment explanation
Indices: 195223--195313 Score: 83
Period size: 20 Copynumber: 4.6 Consensus size: 19
195213 ACCCTAGAAA
* **
195223 GTATCGATACATATCCAGAA
1 GTATCGATACATATTCA-TT
* * *
195243 GTATCGATGCATTATGCTTT
1 GTATCGATACA-TATTCATT
* *
195263 CTATCGATACATGTTCATT
1 GTATCGATACATATTCATT
195282 GTATCGATACATATTCAATT
1 GTATCGATACATATTC-ATT
195302 GTATCGATACAT
1 GTATCGATACAT
195314 GAAACTGGCA
Statistics
Matches: 57, Mismatches: 12, Indels: 4
0.78 0.16 0.05
Matches are distributed among these distances:
19 19 0.33
20 34 0.60
21 4 0.07
ACGTcount: A:0.31, C:0.18, G:0.14, T:0.37
Consensus pattern (19 bp):
GTATCGATACATATTCATT
Found at i:195377 original size:13 final size:13
Alignment explanation
Indices: 195359--195384 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
195349 GATACATGGG
195359 ACATTGTATCGAT
1 ACATTGTATCGAT
195372 ACATTGTATCGAT
1 ACATTGTATCGAT
195385 GCATGAAGAA
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):
ACATTGTATCGAT
Found at i:195398 original size:33 final size:33
Alignment explanation
Indices: 195343--195409 Score: 91
Period size: 33 Copynumber: 2.0 Consensus size: 33
195333 CTAAGTGAAA
* *
195343 TGTATCGATACATGGGACATTGTATCGATACAT
1 TGTATCGATACATGAGACATTGTATCAATACAT
*
195376 TGTATCGATGCATGAAGA-ATTGTATCAATACAT
1 TGTATCGATACATG-AGACATTGTATCAATACAT
195409 T
1 T
195410 ATGCCCAACG
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
33 28 0.93
34 2 0.07
ACGTcount: A:0.33, C:0.13, G:0.19, T:0.34
Consensus pattern (33 bp):
TGTATCGATACATGAGACATTGTATCAATACAT
Found at i:197011 original size:3 final size:3
Alignment explanation
Indices: 197003--197034 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
196993 AACCATCAAA
*
197003 GAT GAT GAT GAT GAT GAT GAT GAT GAT AAT GA
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GA
197035 AGTTGACTCG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.38, C:0.00, G:0.31, T:0.31
Consensus pattern (3 bp):
GAT
Found at i:197818 original size:13 final size:13
Alignment explanation
Indices: 197800--197825 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
197790 TACACAAAGT
197800 ATGTATCGATACA
1 ATGTATCGATACA
197813 ATGTATCGATACA
1 ATGTATCGATACA
197826 CAAAAAATTG
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
Done.