Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01004231.1 Hibiscus syriacus cultivar Beakdansim tig00009268_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 171387
ACGTcount: A:0.34, C:0.17, G:0.16, T:0.33
Found at i:1782 original size:110 final size:104
Alignment explanation
Indices: 1535--1819 Score: 360
Period size: 110 Copynumber: 2.7 Consensus size: 104
1525 AATGTTAGTT
* * *
1535 GTTAATGGTTAGCAGAGTCC-TACCATAATAATGTGGATCGTACCCCAGATCGGGTCACCACAAA
1 GTTAGTGGTTAGCAGAGTCCGAACCATAATAATGTGGATCGTA-CCCAGATCGGGTCACCACAAG
*
1599 GTCGAATAATAATTCAAAATTAATGAAAAAAATAAAAAAA
65 GTCGAATAATAAATCAAAATTAATGAAAAAAATAAAAAAA
* * * *
1639 GTTAGTGGTTAGCAGAGTTCGAACCATAATAATGTGGATCGTACCCATATTGAGTCACCACAAGG
1 GTTAGTGGTTAGCAGAGTCCGAACCATAATAATGTGGATCGTACCCAGATCGGGTCACCACAAGG
1704 TCGAATAATAAATCAATCAAATTAAT-AAAAATAATAAAAAAAA
66 TCGAATAATAAATC-A--AAATTAATGAAAAA-AAT-AAAAAAA
* * * *
1747 TGGTTAG-GAGTTAGTAGAGTCCGAACAATAATAATGTGGATTGTACCCGGATCGGGTCACCACA
1 --GTTAGTG-GTTAGCAGAGTCCGAACCATAATAATGTGGATCGTACCCAGATCGGGTCACCACA
1811 AGGTCGAAT
63 AGGTCGAAT
1820 CAAATATGAG
Statistics
Matches: 156, Mismatches: 16, Indels: 12
0.85 0.09 0.07
Matches are distributed among these distances:
104 49 0.31
105 22 0.14
106 5 0.03
107 11 0.07
108 7 0.04
109 1 0.01
110 61 0.39
ACGTcount: A:0.41, C:0.15, G:0.19, T:0.24
Consensus pattern (104 bp):
GTTAGTGGTTAGCAGAGTCCGAACCATAATAATGTGGATCGTACCCAGATCGGGTCACCACAAGG
TCGAATAATAAATCAAAATTAATGAAAAAAATAAAAAAA
Found at i:22817 original size:21 final size:23
Alignment explanation
Indices: 22788--22835 Score: 57
Period size: 22 Copynumber: 2.2 Consensus size: 23
22778 TTCATAACGT
*
22788 AAATGACAA-TCTTAA-CACTTCA
1 AAATGACAACTCTAAATC-CTTCA
22810 AAAT-ACAACTCTAAATCCTTCA
1 AAATGACAACTCTAAATCCTTCA
22832 AAAT
1 AAAT
22836 CCAAATCAAC
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
21 4 0.17
22 18 0.78
23 1 0.04
ACGTcount: A:0.48, C:0.23, G:0.02, T:0.27
Consensus pattern (23 bp):
AAATGACAACTCTAAATCCTTCA
Found at i:23797 original size:2 final size:2
Alignment explanation
Indices: 23790--23865 Score: 152
Period size: 2 Copynumber: 38.0 Consensus size: 2
23780 TCTAACCATA
23790 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
23832 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
23866 TCTTTCATAT
Statistics
Matches: 74, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 74 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:24466 original size:158 final size:158
Alignment explanation
Indices: 24144--24517 Score: 472
Period size: 158 Copynumber: 2.4 Consensus size: 158
24134 ATGGTAGATG
** * * *
24144 AGCATGTGGTTCAAATTT-GTTAAAAAGGGACTTAAAATAAATCAAAAATTGAAGGAATAAAGAG
1 AGCATGTGGTTCAAATTTGGTTAAAAACAGACTTAAAATAAATGAAGAATTGAAGAAAT-AAGAG
* * *
24208 ATTATGAAAAATTGAAGGACTAAATTGAAAAATAAAAAAAATTGTTATCAAAAAGAGGAATTGAA
65 ATTATGAAAAACTAAAGGACTAAATTGAAAAATAAAAAAAATTGTTATCAAAAAGAGAAATTGAA
* * *
24273 AGTACACATGTATTCTCCTATCTTTAAGG
130 AGTACACATGTATTCTACTATCTGTAAGA
* * *
24302 AGCATGTGGCTCAAATTTGGTTAAAATACAAACTTAAAATAAATGATGAATTGAAGAAATAAGTA
1 AGCATGTGGTTCAAATTTGGTTAAAA-ACAGACTTAAAATAAATGAAGAATTGAAGAAATAAG-A
*
24367 GATTATGAAAAACTAAAGGACTAAATTGAAAAAT-AAAAAAA-TGTTATCAAAAATAGAAATTGA
64 GATTATGAAAAACTAAAGGACTAAATTGAAAAATAAAAAAAATTGTTATCAAAAAGAGAAATTGA
*
24430 AAGTACACATGTATTCTACTATAGTGT-AGA
129 AAGTACACATGTATTCTACTAT-CTGTAAGA
* * * * * *
24460 ATCATGTGGTTCAAATTTGG-AAAAAATAGACTTAAAATGAAGGAGGAATTGAA-AAATA
1 AGCATGTGGTTCAAATTTGGTTAAAAACAGACTTAAAATAAATGAAGAATTGAAGAAATA
24518 TAATGAAATC
Statistics
Matches: 188, Mismatches: 24, Indels: 11
0.84 0.11 0.05
Matches are distributed among these distances:
155 5 0.03
156 23 0.12
157 4 0.02
158 78 0.41
159 19 0.10
160 59 0.31
ACGTcount: A:0.49, C:0.07, G:0.17, T:0.27
Consensus pattern (158 bp):
AGCATGTGGTTCAAATTTGGTTAAAAACAGACTTAAAATAAATGAAGAATTGAAGAAATAAGAGA
TTATGAAAAACTAAAGGACTAAATTGAAAAATAAAAAAAATTGTTATCAAAAAGAGAAATTGAAA
GTACACATGTATTCTACTATCTGTAAGA
Found at i:49607 original size:29 final size:29
Alignment explanation
Indices: 49542--49608 Score: 75
Period size: 29 Copynumber: 2.3 Consensus size: 29
49532 TTAATTTTTT
* *
49542 ATATAAATTAATTAATATAAATTTTTGAA
1 ATATAAAATAATAAATATAAATTTTTGAA
*
49571 AAATAAAATAATAAATAATAAA-TTTT-AA
1 ATATAAAATAATAAAT-ATAAATTTTTGAA
49599 ATATCAAAAT
1 ATAT-AAAAT
49609 TACGAAGATA
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
28 5 0.16
29 22 0.69
30 5 0.16
ACGTcount: A:0.60, C:0.01, G:0.01, T:0.37
Consensus pattern (29 bp):
ATATAAAATAATAAATATAAATTTTTGAA
Found at i:52491 original size:18 final size:18
Alignment explanation
Indices: 52468--52502 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
52458 GCGCAGAATT
52468 TGTCCCAAATGACCACTA
1 TGTCCCAAATGACCACTA
*
52486 TGTCCCGAATGACCACT
1 TGTCCCAAATGACCACT
52503 CTTTAAGAAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.29, C:0.34, G:0.14, T:0.23
Consensus pattern (18 bp):
TGTCCCAAATGACCACTA
Found at i:52582 original size:21 final size:21
Alignment explanation
Indices: 52556--52595 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
52546 CCGAAATACC
*
52556 ACATATATGTTCCAAAGGATT
1 ACATATATGTCCCAAAGGATT
*
52577 ACATATATGTCCCGAAGGA
1 ACATATATGTCCCAAAGGA
52596 CCACGTAGAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.38, C:0.17, G:0.17, T:0.28
Consensus pattern (21 bp):
ACATATATGTCCCAAAGGATT
Found at i:52752 original size:30 final size:31
Alignment explanation
Indices: 52712--52775 Score: 85
Period size: 30 Copynumber: 2.1 Consensus size: 31
52702 ACATATGCAT
* * *
52712 ATAATCTCATGTCACGTTCTTATATGATCAC
1 ATAATCTCATGTCACATTATCATATGATCAC
*
52743 ATAA-CTCATGTCACATTATCATATGGTCAC
1 ATAATCTCATGTCACATTATCATATGATCAC
52773 ATA
1 ATA
52776 GATCATATCA
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
30 25 0.86
31 4 0.14
ACGTcount: A:0.33, C:0.22, G:0.09, T:0.36
Consensus pattern (31 bp):
ATAATCTCATGTCACATTATCATATGATCAC
Found at i:56389 original size:2 final size:2
Alignment explanation
Indices: 56382--56548 Score: 325
Period size: 2 Copynumber: 83.0 Consensus size: 2
56372 CATGTAACAA
56382 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
56424 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
56466 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
56508 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT ACT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A-T AT AT
56549 TATCATCATT
Statistics
Matches: 164, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
2 162 0.99
3 2 0.01
ACGTcount: A:0.50, C:0.01, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:57118 original size:30 final size:30
Alignment explanation
Indices: 57083--57142 Score: 102
Period size: 30 Copynumber: 2.0 Consensus size: 30
57073 TGCATATAAT
*
57083 CTCATGTCACGTTCTCATATGATCACATAG
1 CTCATGTCACATTCTCATATGATCACATAG
*
57113 CTCATGTCACATTCTCATATGGTCACATAG
1 CTCATGTCACATTCTCATATGATCACATAG
57143 ATTATATCGC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.27, C:0.27, G:0.13, T:0.33
Consensus pattern (30 bp):
CTCATGTCACATTCTCATATGATCACATAG
Found at i:57779 original size:20 final size:21
Alignment explanation
Indices: 57754--57808 Score: 69
Period size: 22 Copynumber: 2.6 Consensus size: 21
57744 CTATGTTGTC
57754 TGGTATCGATACCCT-TAAC-A
1 TGGTATCGATACCCTAT-ACTA
*
57774 TGGTATCGATACTACTATACTA
1 TGGTATCGATAC-CCTATACTA
57796 TGGTATCGATACC
1 TGGTATCGATACC
57809 TCCTCATTGA
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
20 12 0.40
21 4 0.13
22 14 0.47
ACGTcount: A:0.29, C:0.22, G:0.16, T:0.33
Consensus pattern (21 bp):
TGGTATCGATACCCTATACTA
Found at i:60637 original size:2 final size:2
Alignment explanation
Indices: 60630--60656 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
60620 TGTAACAAAT
60630 AC AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC A
60657 TATATATACA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.48, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:61249 original size:14 final size:14
Alignment explanation
Indices: 61230--61278 Score: 53
Period size: 14 Copynumber: 3.5 Consensus size: 14
61220 TTCTCATATG
61230 ATCACATAGATCAT
1 ATCACATAGATCAT
* **
61244 ATCACATAGCTGTT
1 ATCACATAGATCAT
*
61258 ATCACATAGTTCAT
1 ATCACATAGATCAT
*
61272 ATAACAT
1 ATCACAT
61279 TTTTGTATGA
Statistics
Matches: 28, Mismatches: 7, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
14 28 1.00
ACGTcount: A:0.39, C:0.20, G:0.08, T:0.33
Consensus pattern (14 bp):
ATCACATAGATCAT
Found at i:64583 original size:23 final size:23
Alignment explanation
Indices: 64553--64605 Score: 70
Period size: 23 Copynumber: 2.3 Consensus size: 23
64543 GCAGCAACTG
64553 GCAAGCATCACCATATCAATTCA
1 GCAAGCATCACCATATCAATTCA
*** *
64576 GCAAGCATCATTGTATCAATTTA
1 GCAAGCATCACCATATCAATTCA
64599 GCAAGCA
1 GCAAGCA
64606 ACATGCATTC
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.38, C:0.25, G:0.13, T:0.25
Consensus pattern (23 bp):
GCAAGCATCACCATATCAATTCA
Found at i:64617 original size:23 final size:23
Alignment explanation
Indices: 64567--64613 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 23
64557 GCATCACCAT
* *
64567 ATCAATTCAGCAAGCATCATTGT
1 ATCAATTCAGCAAGCAACATTGC
*
64590 ATCAATTTAGCAAGCAACA-TGC
1 ATCAATTCAGCAAGCAACATTGC
64612 AT
1 AT
64614 TCAAAAAGCA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
22 4 0.19
23 17 0.81
ACGTcount: A:0.38, C:0.21, G:0.13, T:0.28
Consensus pattern (23 bp):
ATCAATTCAGCAAGCAACATTGC
Found at i:64988 original size:20 final size:18
Alignment explanation
Indices: 64963--65013 Score: 50
Period size: 20 Copynumber: 2.7 Consensus size: 18
64953 AATTAAAAGG
64963 AAAATTAAAATAATTAATT
1 AAAATTAAAATAATTAA-T
*
64982 AACAATTTGAAAT-ATTAAT
1 AA-AA-TTAAAATAATTAAT
*
65001 AAAATTAACATAA
1 AAAATTAAAATAA
65014 AAAATAATTT
Statistics
Matches: 26, Mismatches: 3, Indels: 7
0.72 0.08 0.19
Matches are distributed among these distances:
17 5 0.19
18 3 0.12
19 5 0.19
20 7 0.27
21 6 0.23
ACGTcount: A:0.61, C:0.04, G:0.02, T:0.33
Consensus pattern (18 bp):
AAAATTAAAATAATTAAT
Found at i:68001 original size:3 final size:3
Alignment explanation
Indices: 67993--68083 Score: 77
Period size: 3 Copynumber: 32.0 Consensus size: 3
67983 TAATATAAAT
* *
67993 ATA ATA AT- ATA ATA AT- ATA ATA ATA TTA ATA TATA ATG ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA -ATA ATA ATA ATA
* * * *
68037 AT- ATA GTA AT- ATA GTA ATA AT- ATA ATA ATA GTA AT- ATT ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
68081 ATA
1 ATA
68084 TCAACTCATA
Statistics
Matches: 70, Mismatches: 11, Indels: 14
0.74 0.12 0.15
Matches are distributed among these distances:
2 12 0.17
3 55 0.79
4 3 0.04
ACGTcount: A:0.57, C:0.00, G:0.04, T:0.38
Consensus pattern (3 bp):
ATA
Found at i:68003 original size:8 final size:8
Alignment explanation
Indices: 67982--68084 Score: 108
Period size: 8 Copynumber: 12.9 Consensus size: 8
67972 TGTAATATTT
67982 ATAATAT-
1 ATAATATA
67989 A-AATATA
1 ATAATATA
67996 ATAATATA
1 ATAATATA
68004 ATAATATA
1 ATAATATA
68012 ATAATAT-
1 ATAATATA
68019 -TAATAT-
1 ATAATATA
68025 ATAATGATA
1 ATAAT-ATA
68034 ATAATATA
1 ATAATATA
*
68042 GTAATATAGTA
1 AT-A-ATA-TA
68053 ATAATATA
1 ATAATATA
68061 ATAATAGTA
1 ATAATA-TA
*
68070 ATATTATA
1 ATAATATA
68078 ATAATAT
1 ATAATAT
68085 CAACTCATAC
Statistics
Matches: 83, Mismatches: 4, Indels: 17
0.80 0.04 0.16
Matches are distributed among these distances:
6 11 0.13
7 6 0.07
8 43 0.52
9 16 0.19
10 4 0.05
11 3 0.04
ACGTcount: A:0.57, C:0.00, G:0.04, T:0.39
Consensus pattern (8 bp):
ATAATATA
Found at i:68010 original size:22 final size:21
Alignment explanation
Indices: 67982--68080 Score: 95
Period size: 19 Copynumber: 4.9 Consensus size: 21
67972 TGTAATATTT
67982 ATAATATAAATATAATAATATA
1 ATAATAT-AATATAATAATATA
68004 ATAATAT-A-ATAAT-AT-TA
1 ATAATATAATATAATAATATA
68021 AT-ATATAATGATAATAATATA
1 ATAATATAAT-ATAATAATATA
* *
68042 GTAATAT-A-GTAATAATATA
1 ATAATATAATATAATAATATA
*
68061 ATAATAGTAATATTATAATA
1 ATAATA-TAATATAATAATA
68081 ATATCAACTC
Statistics
Matches: 63, Mismatches: 5, Indels: 18
0.73 0.06 0.21
Matches are distributed among these distances:
16 4 0.06
17 5 0.08
18 2 0.03
19 25 0.40
20 4 0.06
21 5 0.08
22 18 0.29
ACGTcount: A:0.58, C:0.00, G:0.04, T:0.38
Consensus pattern (21 bp):
ATAATATAATATAATAATATA
Found at i:68018 original size:30 final size:30
Alignment explanation
Indices: 67982--68078 Score: 112
Period size: 30 Copynumber: 3.3 Consensus size: 30
67972 TGTAATATTT
67982 ATAATATAAATATAATAATATAATAATATA
1 ATAATATAAATATAATAATATAATAATATA
*
68012 ATAATATTAATAT-ATAATGATAATAATATA
1 ATAATATAAATATAATAAT-ATAATAATATA
* *
68042 GTAATAT--A-GTAATAATATAATAATAGTA
1 ATAATATAAATATAATAATATAATAATA-TA
*
68070 ATATTATAA
1 ATAATATAA
68079 TAATATCAAC
Statistics
Matches: 57, Mismatches: 5, Indels: 10
0.79 0.07 0.14
Matches are distributed among these distances:
27 10 0.18
28 13 0.23
29 5 0.09
30 29 0.51
ACGTcount: A:0.58, C:0.00, G:0.04, T:0.38
Consensus pattern (30 bp):
ATAATATAAATATAATAATATAATAATATA
Found at i:68082 original size:11 final size:11
Alignment explanation
Indices: 68001--68084 Score: 50
Period size: 11 Copynumber: 7.6 Consensus size: 11
67991 ATATAATAAT
*
68001 ATAATAATATA
1 ATAATATTATA
68012 ATAATA-T-TA
1 ATAATATTATA
* *
68021 AT-ATATAATG
1 ATAATATTATA
*
68031 ATAATAATATA
1 ATAATATTATA
*
68042 GTAATA-TAGTA
1 ATAATATTA-TA
68053 ATAATATAATAATA
1 ATAATAT--T-ATA
*
68067 GTAATATTATA
1 ATAATATTATA
68078 ATAATAT
1 ATAATAT
68085 CAACTCATAC
Statistics
Matches: 56, Mismatches: 9, Indels: 16
0.69 0.11 0.20
Matches are distributed among these distances:
8 3 0.05
9 4 0.07
10 6 0.11
11 32 0.57
12 1 0.02
14 9 0.16
15 1 0.02
ACGTcount: A:0.56, C:0.00, G:0.05, T:0.39
Consensus pattern (11 bp):
ATAATATTATA
Found at i:68279 original size:20 final size:20
Alignment explanation
Indices: 68231--68279 Score: 53
Period size: 20 Copynumber: 2.5 Consensus size: 20
68221 ATCGTACCTT
* * *
68231 GAGGTTTTACAGATGACCCG
1 GAGGATTTACAAATCACCCG
* *
68251 GGGGCTTTACAAATCACCCG
1 GAGGATTTACAAATCACCCG
68271 GAGGATTTA
1 GAGGATTTA
68280 ATTTTCTAGA
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.27, C:0.20, G:0.29, T:0.24
Consensus pattern (20 bp):
GAGGATTTACAAATCACCCG
Found at i:68455 original size:116 final size:116
Alignment explanation
Indices: 68214--68520 Score: 420
Period size: 116 Copynumber: 2.6 Consensus size: 116
68204 AAATCAAAAA
* * * **
68214 TAAAAACATCGTACCTTGAGGTTTTACAGATGACCCGGGGGCTTTACAAATCACCCG-GAGGATT
1 TAAAAACATCCTACCTTGAGGTTTTACAGATGACCCGGAGGCTTTACAAAT---TCGTG-GGAAA
* *
68278 TAATTTTCTAGAACATTAAATGAGAAACTTTGAAAATCGCTTCATCATTTTCATG
62 TAATTTACTAGGACATTAAATGAGAAACTTTGAAAATCGCTTCATCATTTTCATG
** * *
68333 CGAAAACATCCTACCTTTAGGTTTTACAAATGACCCGGAGGCTTTACAAATTCGTGGGAAATAAT
1 TAAAAACATCCTACCTTGAGGTTTTACAGATGACCCGGAGGCTTTACAAATTCGTGGGAAATAAT
* *
68398 TTACTAGGACATTAAATGAGAAACTTTGAAAATTGCTTCTTCATTTTCATG
66 TTACTAGGACATTAAATGAGAAACTTTGAAAATCGCTTCATCATTTTCATG
* * *
68449 TAAAAACATCCTACCCTGAGG-TTTACAGATGACCCAGAGGTTTTACAAATTCGTGGGAAATAAT
1 TAAAAACATCCTACCTTGAGGTTTTACAGATGACCCGGAGGCTTTACAAATTCGTGGGAAATAAT
68513 TTACTAGG
66 TTACTAGG
68521 TAAGAAACCT
Statistics
Matches: 167, Mismatches: 20, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
115 48 0.29
116 73 0.44
117 1 0.01
119 45 0.27
ACGTcount: A:0.34, C:0.18, G:0.18, T:0.31
Consensus pattern (116 bp):
TAAAAACATCCTACCTTGAGGTTTTACAGATGACCCGGAGGCTTTACAAATTCGTGGGAAATAAT
TTACTAGGACATTAAATGAGAAACTTTGAAAATCGCTTCATCATTTTCATG
Found at i:69893 original size:41 final size:41
Alignment explanation
Indices: 69848--69939 Score: 103
Period size: 42 Copynumber: 2.2 Consensus size: 41
69838 AATGTAATTG
*** *
69848 TTCAAAATACCCTGTTGGATCATTTTTGTCTGAAATAGACC
1 TTCAAAATACCCACATGGATCATTTTTGTCTGAAATAGACA
* * * *
69889 TTCAAAATGTCCCACATGTATCATTTTTGTCTGAAATGGGCA
1 TTCAAAAT-ACCCACATGGATCATTTTTGTCTGAAATAGACA
69931 TTCAAAATA
1 TTCAAAATA
69940 TCTCGATGTT
Statistics
Matches: 41, Mismatches: 9, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
41 8 0.20
42 33 0.80
ACGTcount: A:0.32, C:0.18, G:0.14, T:0.36
Consensus pattern (41 bp):
TTCAAAATACCCACATGGATCATTTTTGTCTGAAATAGACA
Found at i:77219 original size:8 final size:8
Alignment explanation
Indices: 77208--77274 Score: 71
Period size: 8 Copynumber: 7.8 Consensus size: 8
77198 TGTAATATTG
77208 TAATATAA
1 TAATATAA
77216 TAATAATAA
1 TAAT-ATAA
77225 TAATATAA
1 TAATATAA
77233 TAATATAGTAA
1 T-A-ATA-TAA
77244 TAATATAA
1 TAATATAA
*
77252 TAATATTAT
1 TAATA-TAA
*
77261 TATTATAA
1 TAATATAA
77269 TAATAT
1 TAATAT
77275 CAACTCGGAC
Statistics
Matches: 50, Mismatches: 4, Indels: 10
0.78 0.06 0.16
Matches are distributed among these distances:
8 24 0.48
9 18 0.36
10 4 0.08
11 4 0.08
ACGTcount: A:0.57, C:0.00, G:0.01, T:0.42
Consensus pattern (8 bp):
TAATATAA
Found at i:77232 original size:11 final size:11
Alignment explanation
Indices: 77208--77270 Score: 63
Period size: 11 Copynumber: 5.5 Consensus size: 11
77198 TGTAATATTG
77208 TAATATAATAA
1 TAATATAATAA
77219 TAATAATAATATAA
1 TAAT-AT-A-ATAA
*
77233 TAATATAGTAA
1 TAATATAATAA
77244 TAATATAATAA
1 TAATATAATAA
* * *
77255 TATTATTATTA
1 TAATATAATAA
77266 TAATA
1 TAATA
77271 ATATCAACTC
Statistics
Matches: 43, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
11 29 0.67
12 3 0.07
13 3 0.07
14 8 0.19
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (11 bp):
TAATATAATAA
Found at i:77273 original size:3 final size:3
Alignment explanation
Indices: 77208--77256 Score: 61
Period size: 3 Copynumber: 17.7 Consensus size: 3
77198 TGTAATATTG
*
77208 TAA T-A TAA TAA TAA TAA TAA T-A TAA TAA T-A TAG TAA TAA T-A TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
77252 TAA TA
1 TAA TA
77257 TTATTATTAT
Statistics
Matches: 40, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
2 8 0.20
3 32 0.80
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.37
Consensus pattern (3 bp):
TAA
Found at i:78206 original size:2 final size:2
Alignment explanation
Indices: 78199--78231 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
78189 AAACTTTTAA
78199 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
78232 AAGTAATGGG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:78511 original size:24 final size:24
Alignment explanation
Indices: 78484--78614 Score: 111
Period size: 24 Copynumber: 5.5 Consensus size: 24
78474 GTTCAAGTTC
* *
78484 GGGTTCGGGTTTGGACTCGGGTTT
1 GGGTTTGGGTTTGGATTCGGGTTT
* *
78508 GGGTTTGGGTTCGGGA-TCGAGTTT
1 GGGTTTGGGTT-TGGATTCGGGTTT
* * **
78532 GGGTTTAGGTTTGGTTTCATGTTT
1 GGGTTTGGGTTTGGATTCGGGTTT
* *
78556 GGGTTTGAGTTTGGGTTCGGGTTT
1 GGGTTTGGGTTTGGATTCGGGTTT
* * ** *
78580 GGTTTTGGGTTTGGGTTTTGGTTA
1 GGGTTTGGGTTTGGATTCGGGTTT
78604 GGGTTTGGGTT
1 GGGTTTGGGTT
78615 ATAGAAGATG
Statistics
Matches: 86, Mismatches: 19, Indels: 4
0.79 0.17 0.04
Matches are distributed among these distances:
23 2 0.02
24 81 0.94
25 3 0.03
ACGTcount: A:0.05, C:0.05, G:0.44, T:0.46
Consensus pattern (24 bp):
GGGTTTGGGTTTGGATTCGGGTTT
Found at i:78521 original size:18 final size:18
Alignment explanation
Indices: 78480--78614 Score: 101
Period size: 18 Copynumber: 7.5 Consensus size: 18
78470 TTGGGTTCAA
*
78480 GTTCGGGTTCGGGTTTGG
1 GTTCGGGTTTGGGTTTGG
**
78498 ACTCGGGTTTGGGTTTGG
1 GTTCGGGTTTGGGTTTGG
* * *
78516 GTTCGGGATCGAGTTTGG
1 GTTCGGGTTTGGGTTTGG
** **
78534 GTTTAGGTTT-GGTTTCAT
1 GTTCGGGTTTGGGTTT-GG
* *
78552 GTTTGGGTTTGAGTTTGG
1 GTTCGGGTTTGGGTTTGG
*
78570 GTTCGGGTTTGGTTTTGG
1 GTTCGGGTTTGGGTTTGG
* * *
78588 GTTTGGGTTTTGGTTAGG
1 GTTCGGGTTTGGGTTTGG
*
78606 GTTTGGGTT
1 GTTCGGGTT
78615 ATAGAAGATG
Statistics
Matches: 89, Mismatches: 26, Indels: 4
0.75 0.22 0.03
Matches are distributed among these distances:
17 4 0.04
18 81 0.91
19 4 0.04
ACGTcount: A:0.05, C:0.06, G:0.43, T:0.46
Consensus pattern (18 bp):
GTTCGGGTTTGGGTTTGG
Found at i:78537 original size:6 final size:6
Alignment explanation
Indices: 78502--78614 Score: 102
Period size: 6 Copynumber: 18.8 Consensus size: 6
78492 GTTTGGACTC
* * * * *
78502 GGGTTT GGGTTT GGGTTC GGGATC GAGTTT GGGTTT AGGTTT -GGTTT
1 GGGTTT GGGTTT GGGTTT GGGTTT GGGTTT GGGTTT GGGTTT GGGTTT
** * * *
78549 CATGTTT GGGTTT GAGTTT GGGTTC GGGTTT GGTTTT GGGTTT GGGTTT
1 -GGGTTT GGGTTT GGGTTT GGGTTT GGGTTT GGGTTT GGGTTT GGGTTT
* *
78598 TGGTTA GGGTTT GGGTT
1 GGGTTT GGGTTT GGGTT
78615 ATAGAAGATG
Statistics
Matches: 85, Mismatches: 20, Indels: 4
0.78 0.18 0.04
Matches are distributed among these distances:
5 5 0.06
6 76 0.89
7 4 0.05
ACGTcount: A:0.05, C:0.04, G:0.43, T:0.48
Consensus pattern (6 bp):
GGGTTT
Found at i:79119 original size:102 final size:103
Alignment explanation
Indices: 78808--79119 Score: 352
Period size: 102 Copynumber: 3.0 Consensus size: 103
78798 AAGAACACGA
* * * ** *
78808 ATGAATAAGGGTTTAACT-TTTTGGTGTTTGATCGAAAAAA-A-GGAATGAGTTTAGGTTTTGGT
1 ATGAACAAGGGTTGAA-TATTTTGGTGTTTGATCAAAAAAACACAAAATG-GTTTGGGTTTTGGT
** * *
78870 GTTTGTGAAGATCAAAT-AATGG-TTTGGGAAAGAACACAG
64 GTTTGTGAAGATCAAATGAGGGGTTTTGGG-ATGAACATAG
* *
78909 ATGAACAAGGGTTGAATATTTTGGTGTTTGATCGAAAAAAACACGAAATGGTTTGGGTTTTGGTC
1 ATGAACAAGGGTTGAATATTTTGGTGTTTGATC-AAAAAAACACAAAATGGTTTGGGTTTTGGTG
* **
78974 TTTGTGAAGATCAAAGGAGGATTTTTGGGATGAACAT-G
65 TTTGTGAAGATCAAATGAGGGGTTTTGGGATGAACATAG
* *
79012 AATGAACAAGGGTTGAA-ATTTTGGGTGTTTGAT-AAACAAACACAAAATGGTTTGGGTTTTAGT
1 -ATGAACAAGGGTTGAATATTTT-GGTGTTTGATCAAAAAAACACAAAATGGTTTGGGTTTTGGT
*
79075 GTTTGTGAAGATCAAATGAGGGGTTTTGGGATGAACGTAG
64 GTTTGTGAAGATCAAATGAGGGGTTTTGGGATGAACATAG
79115 ATGAA
1 ATGAA
79120 AAAATATGAA
Statistics
Matches: 181, Mismatches: 21, Indels: 17
0.83 0.10 0.08
Matches are distributed among these distances:
100 1 0.01
101 29 0.16
102 71 0.39
103 36 0.20
104 38 0.21
105 6 0.03
ACGTcount: A:0.33, C:0.06, G:0.29, T:0.33
Consensus pattern (103 bp):
ATGAACAAGGGTTGAATATTTTGGTGTTTGATCAAAAAAACACAAAATGGTTTGGGTTTTGGTGT
TTGTGAAGATCAAATGAGGGGTTTTGGGATGAACATAG
Found at i:79277 original size:9 final size:9
Alignment explanation
Indices: 79263--79322 Score: 50
Period size: 9 Copynumber: 6.2 Consensus size: 9
79253 ATATGTAAAC
79263 TATATAGTA
1 TATATAGTA
79272 TATATAGTTCA
1 TATATAG-T-A
*
79283 TATGTA-TA
1 TATATAGTA
79291 CTATATAGTA
1 -TATATAGTA
79301 TATATAGTTTA
1 TATATAG--TA
*
79312 CATATAGTA
1 TATATAGTA
79321 TA
1 TA
79323 AGTTATTATA
Statistics
Matches: 41, Mismatches: 4, Indels: 12
0.72 0.07 0.21
Matches are distributed among these distances:
8 1 0.02
9 23 0.56
10 3 0.07
11 14 0.34
ACGTcount: A:0.40, C:0.05, G:0.10, T:0.45
Consensus pattern (9 bp):
TATATAGTA
Found at i:79286 original size:29 final size:29
Alignment explanation
Indices: 79253--79309 Score: 105
Period size: 29 Copynumber: 2.0 Consensus size: 29
79243 TTTGCCTTTT
79253 ATATGTAAACTATATAGTATATATAGTTC
1 ATATGTAAACTATATAGTATATATAGTTC
*
79282 ATATGTATACTATATAGTATATATAGTT
1 ATATGTAAACTATATAGTATATATAGTT
79310 TACATATAGT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.40, C:0.05, G:0.11, T:0.44
Consensus pattern (29 bp):
ATATGTAAACTATATAGTATATATAGTTC
Found at i:79305 original size:20 final size:21
Alignment explanation
Indices: 79272--79322 Score: 63
Period size: 20 Copynumber: 2.5 Consensus size: 21
79262 CTATATAGTA
79272 TATATAGT-TCATAT-GTATAC
1 TATATAGTAT-ATATAGTATAC
*
79292 TATATAGTATATATAGTTTAC
1 TATATAGTATATATAGTATAC
79313 -ATATAGTATA
1 TATATAGTATA
79323 AGTTATTATA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
20 22 0.79
21 6 0.21
ACGTcount: A:0.39, C:0.06, G:0.10, T:0.45
Consensus pattern (21 bp):
TATATAGTATATATAGTATAC
Found at i:79439 original size:2 final size:2
Alignment explanation
Indices: 79426--79626 Score: 50
Period size: 2 Copynumber: 101.5 Consensus size: 2
79416 ACCCTAAACA
* *
79426 AT AT AT ACT AT AT AT AT AGT TT AT AT AT AGT TT AT AT -T A- AT
1 AT AT AT A-T AT AT AT AT A-T AT AT AT AT A-T AT AT AT AT AT AT
* * * *
79467 AA ACT AT AT A- AT TT AT AC AT AT -T AT AT AT -T AT TT AT A- AT
1 AT A-T AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* * * * *
79506 -T AT AC AT A- AT AT AT AA AT AT AA AT -T GT AT AGT TT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A-T AT AT AT AT
* * * *
79546 AGT -T CAT AT AT A- AT TT TT AT AT AT AT AT A- AT TT TT AT AT AT
1 A-T AT -AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* * *
79587 AT GA- ACT AT AT AT AA ACT AT AT AGT TT CT AT AT AT AT AT A
1 AT -AT A-T AT AT AT AT A-T AT AT A-T AT AT AT AT AT AT AT A
79627 GTTGTTTTAA
Statistics
Matches: 145, Mismatches: 30, Indels: 48
0.65 0.13 0.22
Matches are distributed among these distances:
1 13 0.09
2 120 0.83
3 12 0.08
ACGTcount: A:0.44, C:0.04, G:0.03, T:0.49
Consensus pattern (2 bp):
AT
Found at i:79455 original size:11 final size:11
Alignment explanation
Indices: 79426--79462 Score: 56
Period size: 11 Copynumber: 3.4 Consensus size: 11
79416 ACCCTAAACA
* *
79426 ATATATACTAT
1 ATATATAGTTT
79437 ATATATAGTTT
1 ATATATAGTTT
79448 ATATATAGTTT
1 ATATATAGTTT
79459 ATAT
1 ATAT
79463 TAATAAACTA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
11 24 1.00
ACGTcount: A:0.41, C:0.03, G:0.05, T:0.51
Consensus pattern (11 bp):
ATATATAGTTT
Found at i:79629 original size:17 final size:17
Alignment explanation
Indices: 79551--79588 Score: 76
Period size: 17 Copynumber: 2.2 Consensus size: 17
79541 TATATAGTTC
79551 ATATATAATTTTTATAT
1 ATATATAATTTTTATAT
79568 ATATATAATTTTTATAT
1 ATATATAATTTTTATAT
79585 ATAT
1 ATAT
79589 GAACTATATA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (17 bp):
ATATATAATTTTTATAT
Found at i:85290 original size:2 final size:2
Alignment explanation
Indices: 85283--85315 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
85273 GTTCGGGAAA
*
85283 AG AG AG AG AG AG AG AT AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
85316 ATTTGCTGTC
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.45, T:0.03
Consensus pattern (2 bp):
AG
Found at i:85740 original size:14 final size:14
Alignment explanation
Indices: 85718--85751 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
85708 TGTCAGAAAT
*
85718 ATATATACTTACAA
1 ATATTTACTTACAA
*
85732 ATATTTACTTATAA
1 ATATTTACTTACAA
85746 ATATTT
1 ATATTT
85752 TATGTATTAC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.44, C:0.09, G:0.00, T:0.47
Consensus pattern (14 bp):
ATATTTACTTACAA
Found at i:90894 original size:41 final size:41
Alignment explanation
Indices: 90813--90897 Score: 107
Period size: 41 Copynumber: 2.1 Consensus size: 41
90803 AGATTCTGGT
* * * *
90813 GTGGCTTTGTTGGTGTGGTTCCATATAGAATATTTAGAAGA
1 GTGGCTTTGTTGGTGTGATCCCATAGAGAAGATTTAGAAGA
* * *
90854 GTGGTTTTGTTGGTGTGATCCCGTAGAGAAGATTTGGAAGA
1 GTGGCTTTGTTGGTGTGATCCCATAGAGAAGATTTAGAAGA
90895 GTG
1 GTG
90898 CTGGTAGAAT
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
41 37 1.00
ACGTcount: A:0.22, C:0.07, G:0.34, T:0.36
Consensus pattern (41 bp):
GTGGCTTTGTTGGTGTGATCCCATAGAGAAGATTTAGAAGA
Found at i:91385 original size:12 final size:13
Alignment explanation
Indices: 91365--91393 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
91355 TTCGTGCGAT
91365 TTTTCGTTATAAA
1 TTTTCGTTATAAA
91378 TTTT-GTTATAAA
1 TTTTCGTTATAAA
91390 TTTT
1 TTTT
91394 TTTTATTATA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 12 0.75
13 4 0.25
ACGTcount: A:0.28, C:0.03, G:0.07, T:0.62
Consensus pattern (13 bp):
TTTTCGTTATAAA
Found at i:91402 original size:16 final size:16
Alignment explanation
Indices: 91378--91427 Score: 57
Period size: 16 Copynumber: 3.1 Consensus size: 16
91368 TCGTTATAAA
*
91378 TTTTGTTATAAATT-TT
1 TTTTATTAT-AATTATT
*
91394 TTTTATTATACTTATT
1 TTTTATTATAATTATT
*
91410 TTTTATTATGATTATT
1 TTTTATTATAATTATT
91426 TT
1 TT
91428 AAAAAATATT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
15 3 0.10
16 26 0.90
ACGTcount: A:0.24, C:0.02, G:0.04, T:0.70
Consensus pattern (16 bp):
TTTTATTATAATTATT
Found at i:95975 original size:29 final size:29
Alignment explanation
Indices: 95933--96011 Score: 140
Period size: 29 Copynumber: 2.7 Consensus size: 29
95923 TACTGCTACG
95933 GGTGTTAGATCGGGAAATATAATCTGACT
1 GGTGTTAGATCGGGAAATATAATCTGACT
95962 GGTGTTAGATCGGGAAATATAATCTGACT
1 GGTGTTAGATCGGGAAATATAATCTGACT
**
95991 GGTGTTAGATCGATAAATATA
1 GGTGTTAGATCGGGAAATATA
96012 CCAGTCACCG
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 48 1.00
ACGTcount: A:0.33, C:0.09, G:0.27, T:0.32
Consensus pattern (29 bp):
GGTGTTAGATCGGGAAATATAATCTGACT
Found at i:99087 original size:19 final size:20
Alignment explanation
Indices: 99063--99157 Score: 88
Period size: 22 Copynumber: 4.6 Consensus size: 20
99053 ATCTAATTTT
*
99063 GGTATCGATA-CTGGTAAGG
1 GGTATCGATACCTAGTAAGG
99082 GGTATCGATACCCTAGTAAGG
1 GGTATCGATA-CCTAGTAAGG
*
99103 TAGTATCGATACCCTAGT-AGG
1 -GGTATCGATA-CCTAGTAAGG
*
99124 GTAGTATCGATACCATGGTAA-G
1 G--GTATCGATACC-TAGTAAGG
99146 GGTATCGATACC
1 GGTATCGATACC
99158 AGGCAATATC
Statistics
Matches: 65, Mismatches: 4, Indels: 13
0.79 0.05 0.16
Matches are distributed among these distances:
19 10 0.15
20 11 0.17
21 13 0.20
22 30 0.46
23 1 0.02
ACGTcount: A:0.28, C:0.17, G:0.28, T:0.26
Consensus pattern (20 bp):
GGTATCGATACCTAGTAAGG
Found at i:99111 original size:22 final size:22
Alignment explanation
Indices: 99083--99157 Score: 109
Period size: 22 Copynumber: 3.5 Consensus size: 22
99073 CTGGTAAGGG
99083 GTATCGATACCCTAGTAAGGTA
1 GTATCGATACCCTAGTAAGGTA
*
99105 GTATCGATACCCTAGTAGGGTA
1 GTATCGATACCCTAGTAAGGTA
* *
99127 GTATCGATACCATGGTAAGG--
1 GTATCGATACCCTAGTAAGGTA
99147 GTATCGATACC
1 GTATCGATACC
99158 AGGCAATATC
Statistics
Matches: 49, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
20 11 0.22
22 38 0.78
ACGTcount: A:0.29, C:0.19, G:0.25, T:0.27
Consensus pattern (22 bp):
GTATCGATACCCTAGTAAGGTA
Found at i:99216 original size:117 final size:118
Alignment explanation
Indices: 99005--99216 Score: 302
Period size: 117 Copynumber: 1.8 Consensus size: 118
98995 ATACCGATGA
* *
99005 GGTAGTATCGATACCATGGTAAGGGGTATCGATACCAATAAACATCGAATCTAATTTTGGTATCG
1 GGTAGTATCGATACCATGGTAAGGGGTATCGATACCAAGAAACATCGAAGCTAATTTTGGTATCG
** *
99070 ATACTGGTAAGGGGTATCGATACCCTAGTAAGGTAGTATCGATACCCTAGTAG
66 ATACCCGTAAGGGGTATCGATACCATAGTAAGGTAGTATCGATACCCTAGTAG
* * * *
99123 GGTAGTATCGATACCATGGTAA-GGGTATCGATACCAGGCAATATCGAAGCTATTTTTGGTATCG
1 GGTAGTATCGATACCATGGTAAGGGGTATCGATACCAAGAAACATCGAAGCTAATTTTGGTATCG
* *
99187 ATACCCG-AAGGGGGTATTGGTACCATAGTA
66 ATACCCGTAA-GGGGTATCGATACCATAGTA
99217 TAGAAGTATC
Statistics
Matches: 82, Mismatches: 11, Indels: 3
0.85 0.11 0.03
Matches are distributed among these distances:
116 2 0.02
117 58 0.71
118 22 0.27
ACGTcount: A:0.30, C:0.16, G:0.26, T:0.28
Consensus pattern (118 bp):
GGTAGTATCGATACCATGGTAAGGGGTATCGATACCAAGAAACATCGAAGCTAATTTTGGTATCG
ATACCCGTAAGGGGTATCGATACCATAGTAAGGTAGTATCGATACCCTAGTAG
Found at i:99673 original size:59 final size:59
Alignment explanation
Indices: 99571--99918 Score: 510
Period size: 58 Copynumber: 6.0 Consensus size: 59
99561 ATTACCAAAT
* * * * *
99571 GGCACTTCGAGTGC-AAAATGTTAAGAAATTAATACTAAGTGTATGAATTTCCGTATAG
1 GGCACTTCGTGTGCTAACATGATAAGAAATTCATATTAAGTGTATGAATTTCCGTATAG
99629 GGCACTTCGTGTGCTAACATGATAAGAAATTCATATTATA-TGTATGAATTTCCGTATAG
1 GGCACTTCGTGTGCTAACATGATAAGAAATTCATATTA-AGTGTATGAATTTCCGTATAG
*
99688 GGAACTTCGTGTGCTAACATGATAAGAAATTCATATTAAGTGTATGAATTTCCGTATAG
1 GGCACTTCGTGTGCTAACATGATAAGAAATTCATATTAAGTGTATGAATTTCCGTATAG
* *
99747 GGCACTTCGTGT-TTAACATGATAAGAAATTCATATTAAGTGTATGAATTTTCGTATAG
1 GGCACTTCGTGTGCTAACATGATAAGAAATTCATATTAAGTGTATGAATTTCCGTATAG
* * ** *
99805 GGCACTTCGTGTGC-AACATGATAAGAAATTTATACTAAGTGTATGAATTTATGTATTG
1 GGCACTTCGTGTGCTAACATGATAAGAAATTCATATTAAGTGTATGAATTTCCGTATAG
*
99863 GGCACCTT-GTGTGCTAA-AGGATAAGAAATTCATATTAAGTGTATGAATTTCCGTAT
1 GGCA-CTTCGTGTGCTAACATGATAAGAAATTCATATTAAGTGTATGAATTTCCGTAT
99919 GGTACATATA
Statistics
Matches: 264, Mismatches: 20, Indels: 12
0.89 0.07 0.04
Matches are distributed among these distances:
58 153 0.58
59 110 0.42
60 1 0.00
ACGTcount: A:0.33, C:0.12, G:0.20, T:0.35
Consensus pattern (59 bp):
GGCACTTCGTGTGCTAACATGATAAGAAATTCATATTAAGTGTATGAATTTCCGTATAG
Found at i:100402 original size:68 final size:68
Alignment explanation
Indices: 100289--100892 Score: 895
Period size: 68 Copynumber: 8.9 Consensus size: 68
100279 AAAGATCAAA
* **
100289 AGGCCTAACTGTGCATATGACATAAAGGTGTCATTTATGATAGTTAGATGAAAGACTAAGTGTCT
1 AGGCCTAACTGTGCATATGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGACTAAGTGTCT
100354 TTG
66 TTG
*
100357 AGGCCTAACTGTGCATATGACAGAAAGGTGTCATTTATGCCAGTTAAATGAAAGACTAAGTGTCT
1 AGGCCTAACTGTGCATATGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGACTAAGTGTCT
100422 TTG
66 TTG
* **
100425 AGGCATAACTGTGCATATGACAGAAAGGTGTCATTTATTACAGTTAGATGAAAGACTAAGTGTCT
1 AGGCCTAACTGTGCATATGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGACTAAGTGTCT
100490 TTG
66 TTG
* * * * * *
100493 AGGCCTAATTTTGCATATGACAAAAAAGTGTCATTTATGCTAGTTAGATGAAAGACTAAATGTCT
1 AGGCCTAACTGTGCATATGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGACTAAGTGTCT
100558 TTG
66 TTG
* * * * *
100561 AGGCCTAACTGTGCATATGCCATAAATGTTTCATTTATGCCAGTTAG-TTAAAGACTAAGTGTCT
1 AGGCCTAACTGTGCATATGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGACTAAGTGTCT
100625 TTG
66 TTG
* * * * * *
100628 AGGCCTAATTGTGAATATGACATAAAGGTGTTATTTATGTCAGTTAAATGAAAGACTAAGTGTCT
1 AGGCCTAACTGTGCATATGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGACTAAGTGTCT
100693 TTG
66 TTG
* *
100696 AGGCCTAACTGTGCATATGATAGAAATGTGTCATTTATGCCAGTTAGATGAAAGACTAAGTGTCT
1 AGGCCTAACTGTGCATATGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGACTAAGTGTCT
100761 TTG
66 TTG
* * *
100764 TGGCCTAACTGTGCATATGACAGAAAGGTGTCATTTATGTCAGTTAGATGAAAGGCTAAGTGTCT
1 AGGCCTAACTGTGCATATGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGACTAAGTGTCT
100829 TTG
66 TTG
* * * * *
100832 AGGCCTAACTGTGCATATGATAGAAAGGTGTCAATTATGACAGTTAGATGAACGATTAAGT
1 AGGCCTAACTGTGCATATGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGACTAAGT
100893 ACTGTTGAGT
Statistics
Matches: 480, Mismatches: 55, Indels: 2
0.89 0.10 0.00
Matches are distributed among these distances:
67 57 0.12
68 423 0.88
ACGTcount: A:0.32, C:0.13, G:0.23, T:0.32
Consensus pattern (68 bp):
AGGCCTAACTGTGCATATGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGACTAAGTGTCT
TTG
Found at i:100830 original size:271 final size:272
Alignment explanation
Indices: 100289--100892 Score: 933
Period size: 271 Copynumber: 2.2 Consensus size: 272
100279 AAAGATCAAA
*
100289 AGGCCTAACTGTGCATATGACATAAAGGTGTCATTTATGATAGTTAGATGAAAGACTAAGTGTCT
1 AGGCCTAACTGTGCATATGACATAAAGGTGTCATTTATGACAGTTAGATGAAAGACTAAGTGTCT
*
100354 TTGAGGCCTAACTGTGCATATGACAGAAAGGTGTCATTTATGCCAGTTAAATGAAAGACTAAGTG
66 TTGAGGCCTAACTGTGAATATGACAGAAAGGTGTCATTTATGCCAGTTAAATGAAAGACTAAGTG
*
100419 TCTTTGAGGCATAACTGTGCATATGACAGAAAGGTGTCATTTATTACAGTTAGATGAAAGACTAA
131 TCTTTGAGGCATAACTGTGCATATGACAGAAAGGTGTCATTTATGACAGTTAGATGAAAGACTAA
* *
100484 GTGTCTTTGAGGCCTAATTTTGCATATGACAAAAAAGTGTCATTTATGCTAGTTAGATGAAAGAC
196 GTGTCTTTGAGGCCTAACTGTGCATATGACAAAAAAGTGTCATTTATGCTAGTTAGATGAAAGAC
100549 TAAATGTCTTTG
261 TAAATGTCTTTG
* * * * *
100561 AGGCCTAACTGTGCATATGCCATAAATGTTTCATTTATGCCAGTTAG-TTAAAGACTAAGTGTCT
1 AGGCCTAACTGTGCATATGACATAAAGGTGTCATTTATGACAGTTAGATGAAAGACTAAGTGTCT
* * * *
100625 TTGAGGCCTAATTGTGAATATGACATAAAGGTGTTATTTATGTCAGTTAAATGAAAGACTAAGTG
66 TTGAGGCCTAACTGTGAATATGACAGAAAGGTGTCATTTATGCCAGTTAAATGAAAGACTAAGTG
* * * *
100690 TCTTTGAGGCCTAACTGTGCATATGATAGAAATGTGTCATTTATGCCAGTTAGATGAAAGACTAA
131 TCTTTGAGGCATAACTGTGCATATGACAGAAAGGTGTCATTTATGACAGTTAGATGAAAGACTAA
* * * *
100755 GTGTCTTTGTGGCCTAACTGTGCATATGACAGAAAGGTGTCATTTATG-TCAGTTAGATGAAAGG
196 GTGTCTTTGAGGCCTAACTGTGCATATGACAAAAAAGTGTCATTTATGCT-AGTTAGATGAAAGA
*
100819 CTAAGTGTCTTTG
260 CTAAATGTCTTTG
* * * * *
100832 AGGCCTAACTGTGCATATGATAGAAAGGTGTCAATTATGACAGTTAGATGAACGATTAAGT
1 AGGCCTAACTGTGCATATGACATAAAGGTGTCATTTATGACAGTTAGATGAAAGACTAAGT
100893 ACTGTTGAGT
Statistics
Matches: 297, Mismatches: 33, Indels: 4
0.89 0.10 0.01
Matches are distributed among these distances:
270 1 0.00
271 244 0.82
272 52 0.18
ACGTcount: A:0.32, C:0.13, G:0.23, T:0.32
Consensus pattern (272 bp):
AGGCCTAACTGTGCATATGACATAAAGGTGTCATTTATGACAGTTAGATGAAAGACTAAGTGTCT
TTGAGGCCTAACTGTGAATATGACAGAAAGGTGTCATTTATGCCAGTTAAATGAAAGACTAAGTG
TCTTTGAGGCATAACTGTGCATATGACAGAAAGGTGTCATTTATGACAGTTAGATGAAAGACTAA
GTGTCTTTGAGGCCTAACTGTGCATATGACAAAAAAGTGTCATTTATGCTAGTTAGATGAAAGAC
TAAATGTCTTTG
Found at i:100972 original size:81 final size:81
Alignment explanation
Indices: 100853--101070 Score: 300
Period size: 81 Copynumber: 2.7 Consensus size: 81
100843 TGCATATGAT
*
100853 AGAAAGGTGTCAATTATGACAGTTAGATGAACGATTAAGTACTGTTGAGTAAAAGAAAAATAGCC
1 AGAAAGGTGTCAATTATGACAGTTAGATGAACGGTTAAGTACTGTTGAGTAAAAGAAAAATAGCC
100918 TAG-TTGTGCAATTGGC
66 TAGCTT-TGCAATTGGC
* * *
100934 AGAAAGTTGTCAATTATGACAGTTAGATGAACGGTTAAGTA-TCGTTGAGTAAAAGAAAAATGGT
1 AGAAAGGTGTCAATTATGACAGTTAGATGAACGGTTAAGTACT-GTTGAGTAAAAGAAAAATAGC
100998 CTAGCTTTGCAATTGGC
65 CTAGCTTTGCAATTGGC
* * * * *
101015 A-AATAGGTGTCAATTATGCCAGTTAGACGAAC-GTTAAGCACTATTGAGTAAGAGAA
1 AGAA-AGGTGTCAATTATGACAGTTAGATGAACGGTTAAGTACTGTTGAGTAAAAGAA
101071 TAAAGAAATT
Statistics
Matches: 123, Mismatches: 10, Indels: 9
0.87 0.07 0.06
Matches are distributed among these distances:
80 22 0.18
81 99 0.80
82 2 0.02
ACGTcount: A:0.38, C:0.11, G:0.24, T:0.28
Consensus pattern (81 bp):
AGAAAGGTGTCAATTATGACAGTTAGATGAACGGTTAAGTACTGTTGAGTAAAAGAAAAATAGCC
TAGCTTTGCAATTGGC
Found at i:104328 original size:39 final size:39
Alignment explanation
Indices: 104264--105065 Score: 1070
Period size: 39 Copynumber: 20.6 Consensus size: 39
104254 AAGAAAAATA
* *
104264 ATCTCAAGTGAGAT-AAATCTTCTGTTTCGAGTGAAACT
1 ATCTCAAGCGAGATAAAATCTTCTGTTTCGAGGGAAACT
* * *
104302 ATCTTAAGCGAGATAAAATCTTCTGTTTTGAGTGAAACT
1 ATCTCAAGCGAGATAAAATCTTCTGTTTCGAGGGAAACT
*
104341 ATCTCAAGCGAGATAAAATCTTCTGTTTCGAGTGAAACT
1 ATCTCAAGCGAGATAAAATCTTCTGTTTCGAGGGAAACT
* * * * * *
104380 CTCTCAAGCGAGAAAAAATATTTTGTTTCGAGCGAAACA
1 ATCTCAAGCGAGATAAAATCTTCTGTTTCGAGGGAAACT
*
104419 ATCTCAAGCGAGAT-AAATCTTCTGTTTCGAGTGAAACT
1 ATCTCAAGCGAGATAAAATCTTCTGTTTCGAGGGAAACT
* * * *
104457 ATCTCAAGTGAGATAAAATCTTCTGTTTAGA-GTAAACA
1 ATCTCAAGCGAGATAAAATCTTCTGTTTCGAGGGAAACT
* * **
104495 ATCTCAAGTGAGATAAAAATCTTTTGTTTCGAGTAAAACT
1 ATCTCAAGCGAGAT-AAAATCTTCTGTTTCGAGGGAAACT
* * *
104535 ATTTCAAGCGAGATAAAATATTTTGTTTCGAGGGAAACT
1 ATCTCAAGCGAGATAAAATCTTCTGTTTCGAGGGAAACT
* *
104574 ATCTCAAGCAAAATAAAATCTTCTGTTTCGAGGGAAACT
1 ATCTCAAGCGAGATAAAATCTTCTGTTTCGAGGGAAACT
** *
104613 ATCTCAAGCGAGGCAAAATCTTCTGCTTCGAGGGAAACT
1 ATCTCAAGCGAGATAAAATCTTCTGTTTCGAGGGAAACT
* *
104652 ATCTCAAGCGAGATAAAATCTTCTATTTCGAGAGAAACT
1 ATCTCAAGCGAGATAAAATCTTCTGTTTCGAGGGAAACT
** * *
104691 ATCTCAAGTTAGATAAAATATTCTGTTTCAAGGGAAACT
1 ATCTCAAGCGAGATAAAATCTTCTGTTTCGAGGGAAACT
* *
104730 ATCTCAAGCGAGATAAAATCTTATGTTTCAAGGGAAACT
1 ATCTCAAGCGAGATAAAATCTTCTGTTTCGAGGGAAACT
*
104769 ATCTCAAGCGAGATAAAATCTTCTGTTTCAAGGGAAACT
1 ATCTCAAGCGAGATAAAATCTTCTGTTTCGAGGGAAACT
* * * **
104808 ATCTCAAGCGAGACAAAATCTTATGTTTCAAGTAAAACT
1 ATCTCAAGCGAGATAAAATCTTCTGTTTCGAGGGAAACT
*
104847 ATCTCAAGCGAGATAAAATCTTCTGTTTCAAGGGAAACT
1 ATCTCAAGCGAGATAAAATCTTCTGTTTCGAGGGAAACT
*
104886 ATCTCAAGCGAGATAAAATCTTTTGTTTCGAGGGAAACT
1 ATCTCAAGCGAGATAAAATCTTCTGTTTCGAGGGAAACT
* * *
104925 ATCTCAAGAGAGACAAAATCTTCTATTTCGAGGGAAACT
1 ATCTCAAGCGAGATAAAATCTTCTGTTTCGAGGGAAACT
* * * *
104964 ATCTCAAGCGACATAAAATCTTATTTTTCAAGGGAAACT
1 ATCTCAAGCGAGATAAAATCTTCTGTTTCGAGGGAAACT
* * *
105003 GTCTCAAGCGAGATAAAATCTTTTGTTTCGAGGGAAATT
1 ATCTCAAGCGAGATAAAATCTTCTGTTTCGAGGGAAACT
*
105042 ATCTCAAGAGAGATAAAATCTTCT
1 ATCTCAAGCGAGATAAAATCTTCT
105066 TTAAAAACAA
Statistics
Matches: 673, Mismatches: 87, Indels: 7
0.88 0.11 0.01
Matches are distributed among these distances:
38 63 0.09
39 594 0.88
40 16 0.02
ACGTcount: A:0.36, C:0.16, G:0.17, T:0.30
Consensus pattern (39 bp):
ATCTCAAGCGAGATAAAATCTTCTGTTTCGAGGGAAACT
Found at i:105157 original size:76 final size:75
Alignment explanation
Indices: 105068--105465 Score: 456
Period size: 76 Copynumber: 5.3 Consensus size: 75
105058 AATCTTCTTT
* *
105068 AAAAACAATCTTGAGTGAAATGAAATGTCTTCTTTCGAGTAAAAATCGTCTCAAGCGAGACAAAT
1 AAAAACAATCTTGAGTGAAAT-AAATGTCTTGTTTCGAGTAAAAATCATCTCAAGCGAGACAAAT
105133 CTTGTTTTAAG
65 CTTGTTTTAAG
*
105144 AAAAACAATCTTGAGTGAAATAAATCTTCTTGTTTCGAGTAAAAA-CTATCTCAAGCGAGACAAA
1 AAAAACAATCTTGAGTGAAATAAAT-GTCTTGTTTCGAGTAAAAATC-ATCTCAAGCGAGACAAA
105208 TCTTGTTTTAAG
64 TCTTGTTTTAAG
*
105220 AAAAACAATCTTGAGTGAAATAAATCTTCTTGTTTCGAGTAAAAA-CTATCTCAAGCGAGACAAA
1 AAAAACAATCTTGAGTGAAATAAAT-GTCTTGTTTCGAGTAAAAATC-ATCTCAAGCGAGACAAA
105284 TCTTGTTTTAAG
64 TCTTGTTTTAAG
* * * ** * * *
105296 AAAAACAAT-ATGTAGTG----AAATGACTTGTTTTGAGTAAAAATTGTCTTAAGCAACACAAAT
1 AAAAACAATCTTG-AGTGAAATAAATGTCTTGTTTCGAGTAAAAATCATCTCAAGCGAGACAAAT
105356 CTTGTTTTAAG
65 CTTGTTTTAAG
* * * * *
105367 AAAAA-AATCTTGAGTAAAATAAAACGTCTTCTTTCGAGTAAAACT-ATCTCAAGCGAGATAAAG
1 AAAAACAATCTTGAGTGAAAT-AAATGTCTTGTTTCGAGTAAAAATCATCTCAAGCGAGACAAA-
*
105430 T-GTGTTTTAAG
64 TCTTGTTTTAAG
* ** *
105441 AAAAATAATCTCAAGTGAGATAAAT
1 AAAAACAATCTTGAGTGAAATAAAT
105466 CCTCTATATT
Statistics
Matches: 280, Mismatches: 30, Indels: 26
0.83 0.09 0.08
Matches are distributed among these distances:
70 6 0.02
71 48 0.17
72 4 0.01
74 29 0.10
75 38 0.14
76 155 0.55
ACGTcount: A:0.41, C:0.13, G:0.15, T:0.31
Consensus pattern (75 bp):
AAAAACAATCTTGAGTGAAATAAATGTCTTGTTTCGAGTAAAAATCATCTCAAGCGAGACAAATC
TTGTTTTAAG
Found at i:105360 original size:21 final size:19
Alignment explanation
Indices: 105336--105378 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
105326 TGAGTAAAAA
*
105336 TTGTCTTAAGCAACACAAATC
1 TTGTCTTAAG-AA-AAAAATC
*
105357 TTGTTTTAAGAAAAAAATC
1 TTGTCTTAAGAAAAAAATC
105376 TTG
1 TTG
105379 AGTAAAATAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 9 0.45
20 2 0.10
21 9 0.45
ACGTcount: A:0.40, C:0.14, G:0.12, T:0.35
Consensus pattern (19 bp):
TTGTCTTAAGAAAAAAATC
Found at i:106747 original size:26 final size:26
Alignment explanation
Indices: 106715--106780 Score: 75
Period size: 26 Copynumber: 2.6 Consensus size: 26
106705 CATATGCTTG
*
106715 TTGTCTTTTTTCTTTGTTTTTTAT-T
1 TTGTCTTTTTTCTTTCTTTTTTATCT
*
106740 TTGCTCTTTTTAT-TTTCTTTTTTTTCT
1 TTG-TCTTTTT-TCTTTCTTTTTTATCT
106767 TTG-CTTTTTTCTTT
1 TTGTCTTTTTTCTTT
106781 ACTGTTTATT
Statistics
Matches: 35, Mismatches: 2, Indels: 8
0.78 0.04 0.18
Matches are distributed among these distances:
24 1 0.03
25 12 0.34
26 17 0.49
27 5 0.14
ACGTcount: A:0.03, C:0.12, G:0.06, T:0.79
Consensus pattern (26 bp):
TTGTCTTTTTTCTTTCTTTTTTATCT
Found at i:106775 original size:40 final size:40
Alignment explanation
Indices: 106720--106813 Score: 113
Period size: 40 Copynumber: 2.4 Consensus size: 40
106710 GCTTGTTGTC
* *
106720 TTTTTTCTTTG-TTTTTTATTTTGCTCTTT-TTATTTT-CTT
1 TTTTTTCTTTGCTTTTTT-CTTTACTCTTTATT-TTTTGCTT
*
106759 TTTTTTCTTTGCTTTTTTCTTTACTGTTTATTTTTTGCTT
1 TTTTTTCTTTGCTTTTTTCTTTACTCTTTATTTTTTGCTT
*
106799 TTTATTCTTTGCTTT
1 TTTTTTCTTTGCTTT
106814 GATTTGATTT
Statistics
Matches: 48, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
39 23 0.48
40 25 0.52
ACGTcount: A:0.05, C:0.12, G:0.06, T:0.77
Consensus pattern (40 bp):
TTTTTTCTTTGCTTTTTTCTTTACTCTTTATTTTTTGCTT
Found at i:106795 original size:26 final size:26
Alignment explanation
Indices: 106729--106801 Score: 85
Period size: 26 Copynumber: 2.7 Consensus size: 26
106719 CTTTTTTCTT
*
106729 TGTTTTTTATTTTGCTCTTTTTATTTTC
1 TGTTTTTT-TTTTGCT-TTTTTATTTAC
*
106757 T-TTTTTTTCTTTGCTTTTTTCTTTAC
1 TGTTTTTTT-TTTGCTTTTTTATTTAC
*
106783 TGTTTATTTTTTGCTTTTT
1 TGTTTTTTTTTTGCTTTTT
106802 ATTCTTTGCT
Statistics
Matches: 40, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
26 21 0.52
27 18 0.45
28 1 0.03
ACGTcount: A:0.05, C:0.11, G:0.07, T:0.77
Consensus pattern (26 bp):
TGTTTTTTTTTTGCTTTTTTATTTAC
Found at i:106804 original size:14 final size:13
Alignment explanation
Indices: 106720--106813 Score: 68
Period size: 14 Copynumber: 7.2 Consensus size: 13
106710 GCTTGTTGTC
*
106720 TTTTTTCTTTG-T
1 TTTTTTTTTTGCT
*
106732 TTTTTATTTTGCT
1 TTTTTTTTTTGCT
*
106745 CTTTTTATTTT-CT
1 -TTTTTTTTTTGCT
106758 TTTTTTTCTTTGC-
1 TTTTTTT-TTTGCT
* *
106771 TTTTTTCTTTACT
1 TTTTTTTTTTGCT
*
106784 GTTTATTTTTTGCT
1 -TTTTTTTTTTGCT
*
106798 TTTTATTCTTTGCT
1 TTTT-TTTTTTGCT
106812 TT
1 TT
106814 GATTTGATTT
Statistics
Matches: 65, Mismatches: 10, Indels: 12
0.75 0.11 0.14
Matches are distributed among these distances:
12 19 0.29
13 15 0.23
14 31 0.48
ACGTcount: A:0.05, C:0.12, G:0.06, T:0.77
Consensus pattern (13 bp):
TTTTTTTTTTGCT
Found at i:116965 original size:2 final size:2
Alignment explanation
Indices: 116958--116986 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
116948 CTCATTTTTG
116958 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
116987 TCGAAACTAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:117518 original size:2 final size:2
Alignment explanation
Indices: 117511--117545 Score: 56
Period size: 2 Copynumber: 18.5 Consensus size: 2
117501 ATTTGTAATA
117511 AT AT AT AT AT AT AT AT AT AT AT A- AT AT A- AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
117546 ATAGTTGAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
1 2 0.06
2 29 0.94
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (2 bp):
AT
Found at i:117546 original size:12 final size:12
Alignment explanation
Indices: 117508--117548 Score: 59
Period size: 12 Copynumber: 3.5 Consensus size: 12
117498 TTTATTTGTA
117508 ATAATAT-ATAT
1 ATAATATAATAT
117519 AT-ATATATATAT
1 ATAATATA-ATAT
117531 ATAATATAATAT
1 ATAATATAATAT
117543 ATAATA
1 ATAATA
117549 GTTGAAAAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
10 4 0.15
11 2 0.07
12 16 0.59
13 5 0.19
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (12 bp):
ATAATATAATAT
Found at i:121720 original size:6 final size:6
Alignment explanation
Indices: 121710--121766 Score: 96
Period size: 6 Copynumber: 9.5 Consensus size: 6
121700 TCATACATGC
*
121710 ATTTAC ATTTAT ATTTAT ATTTAT ATTTAT ATTTAT ATTTAT ATTTAT
1 ATTTAT ATTTAT ATTTAT ATTTAT ATTTAT ATTTAT ATTTAT ATTTAT
*
121758 ATTTGT ATT
1 ATTTAT ATT
121767 CATGCTTTGC
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 49 1.00
ACGTcount: A:0.32, C:0.02, G:0.02, T:0.65
Consensus pattern (6 bp):
ATTTAT
Found at i:125779 original size:23 final size:23
Alignment explanation
Indices: 125749--125832 Score: 132
Period size: 23 Copynumber: 3.7 Consensus size: 23
125739 CTCATATACA
*
125749 TGCACCGAAGTGCCACCTAGAAT
1 TGCACCGAAGTGCCACGTAGAAT
125772 TGCACCGAAGTGCCACGTAGAAT
1 TGCACCGAAGTGCCACGTAGAAT
* *
125795 TGCACCAAAGTGCCGCGTAGAAT
1 TGCACCGAAGTGCCACGTAGAAT
*
125818 TGTACCGAAGTGCCA
1 TGCACCGAAGTGCCA
125833 TATAAAATGT
Statistics
Matches: 55, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 55 1.00
ACGTcount: A:0.30, C:0.27, G:0.25, T:0.18
Consensus pattern (23 bp):
TGCACCGAAGTGCCACGTAGAAT
Found at i:127166 original size:64 final size:63
Alignment explanation
Indices: 127031--127173 Score: 153
Period size: 64 Copynumber: 2.2 Consensus size: 63
127021 TCTTTAACAT
* * *
127031 GTGCATCGATGCACTACCCATGCATCGATACACAAATCACCTTCGATGTTTTCATTTTAAGGG
1 GTGCATCGATGCACTACCCATGAATCGATACACAAATCACATTCGATGTTTCCATTTTAAGGG
* * * * ** *
127094 GATACATCGATGCACT-CCTTATGAATCGATGCACTAATTGCATTCGATGTTTCCATTTTTAATG
1 G-TGCATCGATGCACTACC-CATGAATCGATACACAAATCACATTCGATGTTTCCA-TTTTAAGG
127158 G
63 G
*
127159 GTGCATCGATACACT
1 GTGCATCGATGCACT
127174 TCCTGTTCAT
Statistics
Matches: 65, Mismatches: 12, Indels: 5
0.79 0.15 0.06
Matches are distributed among these distances:
63 3 0.05
64 53 0.82
65 9 0.14
ACGTcount: A:0.27, C:0.23, G:0.17, T:0.33
Consensus pattern (63 bp):
GTGCATCGATGCACTACCCATGAATCGATACACAAATCACATTCGATGTTTCCATTTTAAGGG
Found at i:130316 original size:23 final size:23
Alignment explanation
Indices: 130283--130343 Score: 104
Period size: 23 Copynumber: 2.7 Consensus size: 23
130273 CTCATATACA
*
130283 TGCACCAAAGTGCCACGTAGAAT
1 TGCACCGAAGTGCCACGTAGAAT
*
130306 TGCACCGAAGTGCCGCGTAGAAT
1 TGCACCGAAGTGCCACGTAGAAT
130329 TGCACCGAAGTGCCA
1 TGCACCGAAGTGCCA
130344 TATAAAATGT
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 35 1.00
ACGTcount: A:0.30, C:0.28, G:0.26, T:0.16
Consensus pattern (23 bp):
TGCACCGAAGTGCCACGTAGAAT
Found at i:132639 original size:42 final size:42
Alignment explanation
Indices: 132558--132639 Score: 119
Period size: 42 Copynumber: 2.0 Consensus size: 42
132548 CTTGGAATGT
* *
132558 TGGGGCATGTTGAAGGCCCATTTCAGTCAGAAATAATCCATG
1 TGGGGCATGTTGAAGGCCCATTTCAGACAAAAATAATCCATG
* * *
132600 TGGGGCATGTTGAAGGCCTATTTTAGACAAAAATGATCCA
1 TGGGGCATGTTGAAGGCCCATTTCAGACAAAAATAATCCA
132640 ATAGGGTATT
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 35 1.00
ACGTcount: A:0.30, C:0.17, G:0.26, T:0.27
Consensus pattern (42 bp):
TGGGGCATGTTGAAGGCCCATTTCAGACAAAAATAATCCATG
Found at i:133405 original size:22 final size:22
Alignment explanation
Indices: 133377--133420 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
133367 ATTCTGCATG
133377 GATGATAGATTCTCTTTTCAAA
1 GATGATAGATTCTCTTTTCAAA
133399 GATGATAGATTCTCTTTTCAAA
1 GATGATAGATTCTCTTTTCAAA
133421 AACGAAAGCT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.32, C:0.14, G:0.14, T:0.41
Consensus pattern (22 bp):
GATGATAGATTCTCTTTTCAAA
Found at i:135968 original size:24 final size:25
Alignment explanation
Indices: 135923--135992 Score: 69
Period size: 22 Copynumber: 2.9 Consensus size: 25
135913 TAATATACTT
*
135923 TTATCATATATAAT-TTAT-ATAGT-
1 TTATAATAT-TAATATTATAATAGTG
135946 TT-TAATATTAAATATTATAATAGTG
1 TTATAATATT-AATATTATAATAGTG
135971 TTAATAATATTAATATTA-AATA
1 TT-ATAATATTAATATTATAATA
135993 CTTAGTATTT
Statistics
Matches: 40, Mismatches: 1, Indels: 10
0.78 0.02 0.20
Matches are distributed among these distances:
21 1 0.03
22 8 0.20
23 6 0.15
24 5 0.12
25 6 0.15
26 7 0.17
27 7 0.17
ACGTcount: A:0.46, C:0.01, G:0.04, T:0.49
Consensus pattern (25 bp):
TTATAATATTAATATTATAATAGTG
Found at i:141111 original size:14 final size:14
Alignment explanation
Indices: 141092--141125 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
141082 TTAAATGATA
*
141092 AACGAACACAAATG
1 AACGAACACAAACG
*
141106 AACGAACATAAACG
1 AACGAACACAAACG
141120 AACGAA
1 AACGAA
141126 TGTAAATAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.59, C:0.21, G:0.15, T:0.06
Consensus pattern (14 bp):
AACGAACACAAACG
Found at i:141119 original size:10 final size:10
Alignment explanation
Indices: 141106--141211 Score: 52
Period size: 10 Copynumber: 10.0 Consensus size: 10
141096 AACACAAATG
141106 AACGAACATA
1 AACGAACATA
141116 AACGAACGAATGTA
1 AACGAAC--A--TA
**
141130 AATAAACATA
1 AACGAACATA
*
141140 AACGAACACA
1 AACGAACATA
*
141150 AACGAACGTA
1 AACGAACATA
* *
141160 AACAAACACAACA
1 AAC-GA-AC-ATA
**
141173 AATAAACATA
1 AACGAACATA
141183 AACGAACATA
1 AACGAACATA
*
141193 AATGAACA-A
1 AACGAACATA
*
141202 AACAAACATA
1 AACGAACATA
141212 TAACATTAAT
Statistics
Matches: 71, Mismatches: 17, Indels: 16
0.68 0.16 0.15
Matches are distributed among these distances:
9 7 0.10
10 45 0.63
11 3 0.04
12 6 0.08
13 3 0.04
14 7 0.10
ACGTcount: A:0.62, C:0.19, G:0.08, T:0.10
Consensus pattern (10 bp):
AACGAACATA
Found at i:141121 original size:24 final size:24
Alignment explanation
Indices: 141089--141157 Score: 70
Period size: 24 Copynumber: 2.9 Consensus size: 24
141079 CATTTAAATG
141089 ATAAACGAACACAAATGAACGAAC
1 ATAAACGAACACAAATGAACGAAC
* **
141113 ATAAACG-A-ACGAATGTAAATAAAC
1 ATAAACGAACACAAATG--AACGAAC
*
141137 ATAAACGAACACAAACGAACG
1 ATAAACGAACACAAATGAACG
141158 TAAACAAACA
Statistics
Matches: 34, Mismatches: 7, Indels: 8
0.69 0.14 0.16
Matches are distributed among these distances:
22 6 0.18
23 1 0.03
24 21 0.62
25 1 0.03
26 5 0.15
ACGTcount: A:0.58, C:0.19, G:0.13, T:0.10
Consensus pattern (24 bp):
ATAAACGAACACAAATGAACGAAC
Found at i:141183 original size:43 final size:42
Alignment explanation
Indices: 141129--141209 Score: 126
Period size: 43 Copynumber: 1.9 Consensus size: 42
141119 GAACGAATGT
*
141129 AAATAAACATAAACGAACACAAACGAACGTAAACAAACACAAC
1 AAATAAACATAAACGAACACAAACGAAC-AAAACAAACACAAC
* *
141172 AAATAAACATAAACGAACATAAATGAACAAAACAAACA
1 AAATAAACATAAACGAACACAAACGAACAAAACAAACA
141210 TATAACATTA
Statistics
Matches: 35, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
42 9 0.26
43 26 0.74
ACGTcount: A:0.65, C:0.20, G:0.06, T:0.09
Consensus pattern (42 bp):
AAATAAACATAAACGAACACAAACGAACAAAACAAACACAAC
Found at i:141200 original size:20 final size:20
Alignment explanation
Indices: 141109--141211 Score: 64
Period size: 20 Copynumber: 4.8 Consensus size: 20
141099 ACAAATGAAC
141109 GAACATAAACGAACGAATGTAAAT
1 GAACATAAACGAAC--A--TAAAT
* * *
141133 AAACATAAACGAACACAAAC
1 GAACATAAACGAACATAAAT
* * *
141153 GAACGTAAACAAACACAACAAAT
1 GAACATAAAC-GA-AC-ATAAAT
*
141176 AAACATAAACGAACATAAAT
1 GAACATAAACGAACATAAAT
*
141196 GAACA-AAACAAACATA
1 GAACATAAACGAACATA
141212 TAACATTAAT
Statistics
Matches: 63, Mismatches: 13, Indels: 11
0.72 0.15 0.13
Matches are distributed among these distances:
19 10 0.16
20 20 0.32
21 3 0.05
22 4 0.06
23 13 0.21
24 13 0.21
ACGTcount: A:0.62, C:0.18, G:0.09, T:0.11
Consensus pattern (20 bp):
GAACATAAACGAACATAAAT
Found at i:141206 original size:33 final size:33
Alignment explanation
Indices: 141144--141207 Score: 83
Period size: 33 Copynumber: 1.9 Consensus size: 33
141134 AACATAAACG
* *
141144 AACACAAACGAACGTAAACAAACACAACAAATA
1 AACACAAACGAACATAAACAAACAAAACAAATA
* **
141177 AACATAAACGAACATAAATGAACAAAACAAA
1 AACACAAACGAACATAAACAAACAAAACAAA
141208 CATATAACAT
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
33 26 1.00
ACGTcount: A:0.66, C:0.20, G:0.06, T:0.08
Consensus pattern (33 bp):
AACACAAACGAACATAAACAAACAAAACAAATA
Found at i:141337 original size:24 final size:24
Alignment explanation
Indices: 141310--141360 Score: 75
Period size: 24 Copynumber: 2.1 Consensus size: 24
141300 CTAAAAGTAA
*
141310 ATAAACGAACAAAAGTAAATGAAC
1 ATAAACGAACAAAAGTAAACGAAC
**
141334 ATAAACGAATGAAAGTAAACGAAC
1 ATAAACGAACAAAAGTAAACGAAC
141358 ATA
1 ATA
141361 TTATCGAACG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.61, C:0.12, G:0.14, T:0.14
Consensus pattern (24 bp):
ATAAACGAACAAAAGTAAACGAAC
Found at i:144848 original size:20 final size:20
Alignment explanation
Indices: 144802--144858 Score: 51
Period size: 20 Copynumber: 2.9 Consensus size: 20
144792 AATAGGTAAG
* * *
144802 AATTTGACAAAACCGATTGG
1 AATTTGACAAAACTGGTTGC
* *
144822 AAATTGACAAAACTGGTTTC
1 AATTTGACAAAACTGGTTGC
* *
144842 AATTTGAGAAAATTGGT
1 AATTTGACAAAACTGGT
144859 AAAGAGCTAC
Statistics
Matches: 29, Mismatches: 8, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.40, C:0.11, G:0.19, T:0.30
Consensus pattern (20 bp):
AATTTGACAAAACTGGTTGC
Found at i:145925 original size:19 final size:19
Alignment explanation
Indices: 145901--145947 Score: 76
Period size: 19 Copynumber: 2.5 Consensus size: 19
145891 CCGATTACAT
* *
145901 GTAGAAAGTGATATTCTAG
1 GTAGAAAATGATATTATAG
145920 GTAGAAAATGATATTATAG
1 GTAGAAAATGATATTATAG
145939 GTAGAAAAT
1 GTAGAAAAT
145948 AAATATCGAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 26 1.00
ACGTcount: A:0.45, C:0.02, G:0.23, T:0.30
Consensus pattern (19 bp):
GTAGAAAATGATATTATAG
Found at i:146833 original size:2 final size:2
Alignment explanation
Indices: 146826--146851 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
146816 TAATTAAAGA
146826 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
146852 TAGTTTCACG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:154652 original size:20 final size:21
Alignment explanation
Indices: 154627--154668 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
154617 AAACAATTTG
154627 CACGTA-AAAAAGTATCGATA
1 CACGTATAAAAAGTATCGATA
*
154647 CACGTATAATAAGTATCGATA
1 CACGTATAAAAAGTATCGATA
154668 C
1 C
154669 TTATAATTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
20 6 0.30
21 14 0.70
ACGTcount: A:0.45, C:0.17, G:0.14, T:0.24
Consensus pattern (21 bp):
CACGTATAAAAAGTATCGATA
Found at i:157351 original size:198 final size:200
Alignment explanation
Indices: 156961--157386 Score: 538
Period size: 198 Copynumber: 2.1 Consensus size: 200
156951 AATCTATCAG
* * *** * *
156961 TTTAATAATAATAGGCATAAACATAAA-GTAACCATATTTTTTGTATAGGTATCAATATTTTTAG
1 TTTAATGATAATAGGCGTAAACATAAAGGT-TTGATACTTTTTGTATAGGTATCAATACTTTTAG
* * * * * * * * *
157025 TCTAGTATACTTCTCAAACTACATGCACGTAGAAAATATTGATACACTTATCATAAGTATCGATA
65 TCCAATATACTTCTAAAACAACATGCACATAGAAAATATCGATACACGTATCACAAGTATCAATA
* *
157090 CTTATAATTTCGAAACCTGTTACTTCAAAGTAATAGCTAAATTTATAATGTAAAGCGTAAAAATC
130 CTTATAATTTCGAAACCTATTACTTCAAAGTAATAGCTAAATTTACAATGTAAAGCGTAAAAATC
* *
157155 TACTGG
195 TACCGA
* * *
157161 TTTAATGATAATAGGTGTAAACATAAAGGTTTGATACTTTTTGTATATGTATCGATACTTTTAGT
1 TTTAATGATAATAGGCGTAAACATAAAGGTTTGATACTTTTTGTATAGGTATCAATACTTTTAGT
* *
157226 CCAATATGCTTCTAAAACAACATGCACATA-AAAA-GTCGATACACGTATCACAAGTATCAATAC
66 CCAATATACTTCTAAAACAACATGCACATAGAAAATATCGATACACGTATCACAAGTATCAATAC
* * *
157289 TTATAATTTTGAAATCTATTACTTTAAAGTAATATG-TAAATTTACAATGTAAA-CGGTAAAAAT
131 TTATAATTTCGAAACCTATTACTTCAAAGTAATA-GCTAAATTTACAATGTAAAGC-GTAAAAAT
157352 CTACCGA
194 CTACCGA
157359 TTTAATGATAATAGGCGTAAACATAAAG
1 TTTAATGATAATAGGCGTAAACATAAAG
157387 CTTCGATGAA
Statistics
Matches: 194, Mismatches: 29, Indels: 8
0.84 0.13 0.03
Matches are distributed among these distances:
197 1 0.01
198 110 0.57
199 5 0.03
200 76 0.39
201 2 0.01
ACGTcount: A:0.40, C:0.13, G:0.12, T:0.35
Consensus pattern (200 bp):
TTTAATGATAATAGGCGTAAACATAAAGGTTTGATACTTTTTGTATAGGTATCAATACTTTTAGT
CCAATATACTTCTAAAACAACATGCACATAGAAAATATCGATACACGTATCACAAGTATCAATAC
TTATAATTTCGAAACCTATTACTTCAAAGTAATAGCTAAATTTACAATGTAAAGCGTAAAAATCT
ACCGA
Found at i:157644 original size:18 final size:18
Alignment explanation
Indices: 157594--157644 Score: 75
Period size: 18 Copynumber: 2.8 Consensus size: 18
157584 CGAGACACAA
*
157594 TTCTTCTCAACCAAGGTC
1 TTCTTCTCAACTAAGGTC
*
157612 ATCTTCTCAACTAAGGTC
1 TTCTTCTCAACTAAGGTC
*
157630 TTCTTCTCAAATAAG
1 TTCTTCTCAACTAAG
157645 AAATTCTGAC
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 29 1.00
ACGTcount: A:0.27, C:0.27, G:0.10, T:0.35
Consensus pattern (18 bp):
TTCTTCTCAACTAAGGTC
Found at i:160071 original size:6 final size:6
Alignment explanation
Indices: 160060--160105 Score: 56
Period size: 6 Copynumber: 7.5 Consensus size: 6
160050 ATTATACAAT
* * *
160060 TTTCAA TTTCAA TTTTAA TTTTAAA TTTGAA TTTCAA TTTCAA TTT
1 TTTCAA TTTCAA TTTCAA -TTTCAA TTTCAA TTTCAA TTTCAA TTT
160106 GAGCTCCACT
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
6 30 0.86
7 5 0.14
ACGTcount: A:0.33, C:0.09, G:0.02, T:0.57
Consensus pattern (6 bp):
TTTCAA
Found at i:160081 original size:19 final size:19
Alignment explanation
Indices: 160056--160105 Score: 66
Period size: 19 Copynumber: 2.7 Consensus size: 19
160046 AACAATTATA
160056 CAATTTTCAATTTCAATTT
1 CAATTTTCAATTTCAATTT
* * *
160075 TAATTTTAAATTTGAATTT
1 CAATTTTCAATTTCAATTT
160094 CAA-TTTCAATTT
1 CAATTTTCAATTT
160106 GAGCTCCACT
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
18 8 0.31
19 18 0.69
ACGTcount: A:0.34, C:0.10, G:0.02, T:0.54
Consensus pattern (19 bp):
CAATTTTCAATTTCAATTT
Found at i:161865 original size:180 final size:179
Alignment explanation
Indices: 161519--161992 Score: 548
Period size: 180 Copynumber: 2.6 Consensus size: 179
161509 TTTCAACAAC
* * * *
161519 AAAGTTTCGATATTTAGAATTTTGAAACGTATTACTTTAAATTAATATGTAAATTTACAATGTAA
1 AAAGTATCGATACTTAGAATTTTGAAACGTATTACTTTAAAGTAATAGGTAAATTTACAATGTAA
* * * ** * *
161584 ACAGTAACAAATCTATTGGTTTAATGATAATAGGCGTAAACATAACTTATTGATATTTATTATTC
66 ACGGTAA-AAATCTAATCGTTTAATGATAATAGGCGTAAACATAAAGTATCGATACTTATTATTC
*
161649 CAATATGCTTATCAAACAATTTGAACGCACAAAGTATC-A-ATACAT-TCAT
130 CAATATGC-TATCAAACAATTTGAACGCAAAAAGTATCGATATACATGT-AT
* * *
161698 AACACGTATCGATACTTATAATTTTGAAACCTATTTCTTTAAAGTAATAGGTAAATTTACAATGT
1 AA-A-GTATCGATACTTAGAATTTTGAAACGTATTACTTTAAAGTAATAGGTAAATTTACAATGT
161763 AAACGGTAAAAATCTACAT-GTTTAATGATAATAGGCGTAAACATAAAGTATCGATACTT-TTAT
64 AAACGGTAAAAATCTA-ATCGTTTAATGATAATAGGCGTAAACATAAAGTATCGATACTTATTAT
* * ** *
161826 TTCAGTATG-TACCTCAAACAATTTTCACGCAAAAAAGTATCGATATAGATGTAT
128 TCCAATATGCTA--TCAAACAATTTGAACGC-AAAAAGTATCGATATACATGTAT
** * * * * *
161880 AAAGTATCGATACGCAGAATTTCGAAACGGATTACTTTAAAGTTATAGATAAATTTACAATATAA
1 AAAGTATCGATACTTAGAATTTTGAAACGTATTACTTTAAAGTAATAGGTAAATTTACAATGTAA
* *
161945 ACGGTAAAAGTCT-ATCGCTTTAATGATAATAGGCGTAAACATCAAGTA
66 ACGGTAAAAATCTAATCG-TTTAATGATAATAGGCGTAAACATAAAGTA
161993 GCAATATGTT
Statistics
Matches: 253, Mismatches: 31, Indels: 21
0.83 0.10 0.07
Matches are distributed among these distances:
177 2 0.01
178 2 0.01
179 29 0.11
180 146 0.58
181 64 0.25
182 9 0.04
183 1 0.00
ACGTcount: A:0.41, C:0.12, G:0.13, T:0.34
Consensus pattern (179 bp):
AAAGTATCGATACTTAGAATTTTGAAACGTATTACTTTAAAGTAATAGGTAAATTTACAATGTAA
ACGGTAAAAATCTAATCGTTTAATGATAATAGGCGTAAACATAAAGTATCGATACTTATTATTCC
AATATGCTATCAAACAATTTGAACGCAAAAAGTATCGATATACATGTAT
Found at i:162230 original size:20 final size:21
Alignment explanation
Indices: 162188--162231 Score: 56
Period size: 20 Copynumber: 2.1 Consensus size: 21
162178 GTAAATGCAA
*
162188 GTATTGATATTGTCTATATAG
1 GTATTGATATTGTCTATACAG
162209 GTATTGATAATT-T-TATACAG
1 GTATTGAT-ATTGTCTATACAG
162229 GTA
1 GTA
162232 ACGAATTTGA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
20 9 0.43
21 9 0.43
22 3 0.14
ACGTcount: A:0.32, C:0.05, G:0.18, T:0.45
Consensus pattern (21 bp):
GTATTGATATTGTCTATACAG
Found at i:162266 original size:20 final size:20
Alignment explanation
Indices: 162235--162325 Score: 87
Period size: 20 Copynumber: 4.5 Consensus size: 20
162225 ACAGGTAACG
162235 AATTTGACAAAACCGATTGGA
1 AATTTGACAAAACCGATT-GA
* * *
162256 AA-TTGATAAAACCGGTTAA
1 AATTTGACAAAACCGATTGA
* *
162275 AATTTGACAAAATCAATTGA
1 AATTTGACAAAACCGATTGA
* *
162295 AATTTGATAAAACC-AGTTAA
1 AATTTGACAAAACCGA-TTGA
162315 AATTTGACAAA
1 AATTTGACAAA
162326 GTATCGATAT
Statistics
Matches: 56, Mismatches: 12, Indels: 5
0.77 0.16 0.07
Matches are distributed among these distances:
19 4 0.07
20 50 0.89
21 2 0.04
ACGTcount: A:0.48, C:0.11, G:0.13, T:0.27
Consensus pattern (20 bp):
AATTTGACAAAACCGATTGA
Found at i:162302 original size:40 final size:40
Alignment explanation
Indices: 162235--162325 Score: 139
Period size: 40 Copynumber: 2.3 Consensus size: 40
162225 ACAGGTAACG
* *
162235 AATTTGACAAAACCGATTGGAAATTGATAAAACCGGTTAA
1 AATTTGACAAAACCAATTGGAAATTGATAAAACCAGTTAA
*
162275 AATTTGACAAAATCAATT-GAAATTTGATAAAACCAGTTAA
1 AATTTGACAAAACCAATTGGAAA-TTGATAAAACCAGTTAA
162315 AATTTGACAAA
1 AATTTGACAAA
162326 GTATCGATAT
Statistics
Matches: 47, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
39 4 0.09
40 43 0.91
ACGTcount: A:0.48, C:0.11, G:0.13, T:0.27
Consensus pattern (40 bp):
AATTTGACAAAACCAATTGGAAATTGATAAAACCAGTTAA
Found at i:164486 original size:15 final size:15
Alignment explanation
Indices: 164466--164495 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
164456 GTAATAGGTT
*
164466 TCGAAATTCCAAGTA
1 TCGAAACTCCAAGTA
164481 TCGAAACTCCAAGTA
1 TCGAAACTCCAAGTA
164496 GCGGTATGAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.40, C:0.23, G:0.13, T:0.23
Consensus pattern (15 bp):
TCGAAACTCCAAGTA
Found at i:166462 original size:15 final size:15
Alignment explanation
Indices: 166442--166471 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
166432 AGTAATAGTT
*
166442 TCGAAATTCCAAGTA
1 TCGAAACTCCAAGTA
166457 TCGAAACTCCAAGTA
1 TCGAAACTCCAAGTA
166472 GCGGTATGAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.40, C:0.23, G:0.13, T:0.23
Consensus pattern (15 bp):
TCGAAACTCCAAGTA
Found at i:168425 original size:15 final size:15
Alignment explanation
Indices: 168405--168434 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
168395 GTAATAGGTT
*
168405 TCGAAATTCCAAGTA
1 TCGAAACTCCAAGTA
168420 TCGAAACTCCAAGTA
1 TCGAAACTCCAAGTA
168435 GCGGTATGAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.40, C:0.23, G:0.13, T:0.23
Consensus pattern (15 bp):
TCGAAACTCCAAGTA
Found at i:171228 original size:197 final size:193
Alignment explanation
Indices: 170912--171353 Score: 584
Period size: 197 Copynumber: 2.3 Consensus size: 193
170902 TGGTACTAAC
170912 AATAGGCATAAACAT-AAGTATCGATACTC-TTGTATAGGTATCGATACTTTTAGTCCAATATGT
1 AATAGGCATAAACATAAAGTATCGATACTCTTTGTATA-GTATCGATACTTTTAGTCCAATATGT
** * * * *
170975 TCTCAACAATTTATACGCAAAAAGTATTGATACATGTATAACAAGTATCGATACTTATAATTCGA
65 TCTCAACAACATACACACAAAAAGTATCGATACATGTATAACAAGTATCAATACTTATAATTCGA
* * * * *
171040 AACCAATTACTTTAAAGT-TAGGTAAATTTACAATGTAAATGATAAAAATCTATCGATTTAATGA
130 AACCAA-TACATTAAAGTATAGGTAAATATACAATATAAATGATAAAAATCGA-CCATTTAATGA
171104 T
193 T
* * *
171105 AATAGGCGTAAACATAAAATATCGATACTCTTTGTATATATATCGATACTTTTAGTCCAATATGC
1 AATAGGCATAAACATAAAGTATCGATACTCTTTGTATA-GTATCGATACTTTTAGTCCAATATG-
* * * *
171170 TTCTCAAATAACATGCACACAAAAAGTATCGATACATGTATCACAAGTATCAATACTTATAATTT
64 TTCTC-AACAACATACACACAAAAAGTATCGATACATGTATAACAAGTATCAATACTTATAATTC
* *
171235 GAAACCTATACATTAAAGTAATAGGTAAATATACAATATAAATGGTAAAAATCGACCATTTAATG
128 GAAACCAATACATTAAAGT-ATAGGTAAATATACAATATAAATGATAAAAATCGACCATTTAATG
171300 AT
192 AT
* * * *
171302 AATAGGCTTGAACATAAAGTTTCGATACTTTTTGTATAGTATCGATACTTTT
1 AATAGGCATAAACATAAAGTATCGATACTCTTTGTATAGTATCGATACTTTT
171354 GATCTAAACA
Statistics
Matches: 216, Mismatches: 27, Indels: 9
0.86 0.11 0.04
Matches are distributed among these distances:
193 14 0.06
194 13 0.06
195 31 0.14
196 28 0.13
197 100 0.46
198 30 0.14
ACGTcount: A:0.40, C:0.14, G:0.12, T:0.34
Consensus pattern (193 bp):
AATAGGCATAAACATAAAGTATCGATACTCTTTGTATAGTATCGATACTTTTAGTCCAATATGTT
CTCAACAACATACACACAAAAAGTATCGATACATGTATAACAAGTATCAATACTTATAATTCGAA
ACCAATACATTAAAGTATAGGTAAATATACAATATAAATGATAAAAATCGACCATTTAATGAT
Done.