Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D06
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: 62964862
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 132689 characters in sequence are not A, C, G, or T
File 55 of 207
Found at i:16096735 original size:18 final size:17
Alignment explanation
Indices: 16096714--16096748 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
16096704 TTATTATTAA
16096714 ATATAATATAATTAAAAT
1 ATATAATATAA-TAAAAT
*
16096732 ATATAATTTAATAAAAT
1 ATATAATATAATAAAAT
16096749 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (17 bp):
ATATAATATAATAAAAT
Found at i:16096863 original size:18 final size:17
Alignment explanation
Indices: 16096824--16096855 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
16096814 TTTTAAATAA
16096824 TTAATATTAAATATATT
1 TTAATATTAAATATATT
16096841 TTAAT-TTAAATATAT
1 TTAATATTAAATATAT
16096856 GATTTAATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (17 bp):
TTAATATTAAATATATT
Found at i:16096880 original size:120 final size:120
Alignment explanation
Indices: 16096577--16096869 Score: 482
Period size: 120 Copynumber: 2.4 Consensus size: 120
16096567 ATCATATTTA
16096577 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
*
16096642 TATTCTTATATGAATTTACTCAAACCATAATATATGATACTGTAAAATATAAAAT
66 TATTCTTATATGAATTTACTCAAACCATAATATATGATACTATAAAATATAAAAT
* *
16096697 AACATAATTATTATTAAATATAATATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
* *
16096762 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATA-AAATTTT
66 TATTCTTATATGAATTTACTCAAACCATAATATATGATACTATAAAATATAAA--AT
* * *
16096818 AA-ATAATTAATATTAAATATATTTTAATTTAAATATATGATTTAATAAAATT
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATT
16096870 TAAAATAATT
Statistics
Matches: 161, Mismatches: 10, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
119 3 0.02
120 155 0.96
121 3 0.02
ACGTcount: A:0.50, C:0.05, G:0.02, T:0.43
Consensus pattern (120 bp):
AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
TATTCTTATATGAATTTACTCAAACCATAATATATGATACTATAAAATATAAAAT
Found at i:16099557 original size:14 final size:14
Alignment explanation
Indices: 16099532--16099566 Score: 61
Period size: 14 Copynumber: 2.4 Consensus size: 14
16099522 AAGAAGAAGC
16099532 AGAAATATGGAGAAA
1 AGAAA-ATGGAGAAA
16099547 AGAAAATGGAGAAA
1 AGAAAATGGAGAAA
16099561 AGAAAA
1 AGAAAA
16099567 GAAATGTGAG
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 15 0.75
15 5 0.25
ACGTcount: A:0.66, C:0.00, G:0.26, T:0.09
Consensus pattern (14 bp):
AGAAAATGGAGAAA
Found at i:16099564 original size:19 final size:18
Alignment explanation
Indices: 16099542--16099586 Score: 58
Period size: 19 Copynumber: 2.5 Consensus size: 18
16099532 AGAAATATGG
16099542 AGAAAAGAAAATG-GAGAAA
1 AGAAAAGAAAATGTGAG--A
16099561 AGAAAAG-AAATGTGAGA
1 AGAAAAGAAAATGTGAGA
16099578 AGAAAAGAA
1 AGAAAAGAA
16099587 GCGTACCGTA
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
17 8 0.33
18 6 0.25
19 10 0.42
ACGTcount: A:0.67, C:0.00, G:0.27, T:0.07
Consensus pattern (18 bp):
AGAAAAGAAAATGTGAGA
Found at i:16100472 original size:107 final size:107
Alignment explanation
Indices: 16100254--16100524 Score: 285
Period size: 107 Copynumber: 2.5 Consensus size: 107
16100244 ATCACGATGG
* *
16100254 CTGACATCCTACATATGTCT-CGGATTCTCGACAGCTTGTATGAGCAGCATCGTGAACTGGTGAA
1 CTGAGATCCTACATATGT-TGCGGATTCTCGACAGCTTGTGTGAGCAGCATCGTGAACTGGTGAA
** * * ** * * *
16100318 TAGAATGGCTACTCTATTCTGATGACATAGATTGTTCCGATGG
65 TAGAATGAATACTCTATACTGATGAAATAGATCATTACAATGA
* * * *
16100361 CTGAGATCCTACACATGTTGCAGATTCTCAACAGCTTGTGTGAGCAGCATCGTGAATTGGTGAA-
1 CTGAGATCCTACATATGTTGCGGATTCTCGACAGCTTGTGTGAGCAGCATCGTGAACTGGTGAAT
* * * *
16100425 ATGAATTAATACTCTGTACTGATGAAATGGATCATTATAATGA
66 A-GAATGAATACTCTATACTGATGAAATAGATCATTACAATGA
* * ** * *
16100468 CTGAGATCCTGCATACGTTGCGGATTCTCGTTAGCTTTTGTGAGCAGCTTCGTGAAC
1 CTGAGATCCTACATATGTTGCGGATTCTCGACAGCTTGTGTGAGCAGCATCGTGAAC
16100525 CGGTCAAGAC
Statistics
Matches: 133, Mismatches: 29, Indels: 4
0.80 0.17 0.02
Matches are distributed among these distances:
106 2 0.02
107 131 0.98
ACGTcount: A:0.26, C:0.19, G:0.23, T:0.31
Consensus pattern (107 bp):
CTGAGATCCTACATATGTTGCGGATTCTCGACAGCTTGTGTGAGCAGCATCGTGAACTGGTGAAT
AGAATGAATACTCTATACTGATGAAATAGATCATTACAATGA
Found at i:16113063 original size:9 final size:9
Alignment explanation
Indices: 16113045--16113086 Score: 66
Period size: 9 Copynumber: 4.7 Consensus size: 9
16113035 GAGTTAAACA
16113045 AATCGAGTT
1 AATCGAGTT
*
16113054 AATTGAGTT
1 AATCGAGTT
16113063 AATCGAGTT
1 AATCGAGTT
16113072 AATCGAGTT
1 AATCGAGTT
*
16113081 ATTCGA
1 AATCGA
16113087 ATCAACTCGA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 30 1.00
ACGTcount: A:0.33, C:0.10, G:0.21, T:0.36
Consensus pattern (9 bp):
AATCGAGTT
Found at i:16113157 original size:9 final size:9
Alignment explanation
Indices: 16113140--16113176 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
16113130 TGAGTTTTCG
16113140 AATTCGAAT
1 AATTCGAAT
*
16113149 AACTCGAAT
1 AATTCGAAT
16113158 AATTCGAAT
1 AATTCGAAT
16113167 AATTCGAAT
1 AATTCGAAT
16113176 A
1 A
16113177 TCAAACTATA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.46, C:0.14, G:0.11, T:0.30
Consensus pattern (9 bp):
AATTCGAAT
Found at i:16113422 original size:27 final size:27
Alignment explanation
Indices: 16113389--16113440 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 27
16113379 AAACTTTTTA
*
16113389 TTTTTCCCCAAAATTTTTACTCCCTAC
1 TTTTTCCCCAAAACTTTTACTCCCTAC
* *
16113416 TTTTTCCCTAAAACTTTTATTCCCT
1 TTTTTCCCCAAAACTTTTACTCCCT
16113441 TCTCACCCCA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.21, C:0.31, G:0.00, T:0.48
Consensus pattern (27 bp):
TTTTTCCCCAAAACTTTTACTCCCTAC
Found at i:16114214 original size:10 final size:10
Alignment explanation
Indices: 16114199--16114230 Score: 55
Period size: 10 Copynumber: 3.2 Consensus size: 10
16114189 CTCGAAATTT
16114199 TTTGATTCGA
1 TTTGATTCGA
16114209 TTTGATTCGA
1 TTTGATTCGA
*
16114219 TTAGATTCGA
1 TTTGATTCGA
16114229 TT
1 TT
16114231 CGATCGAATG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 21 1.00
ACGTcount: A:0.22, C:0.09, G:0.19, T:0.50
Consensus pattern (10 bp):
TTTGATTCGA
Found at i:16115980 original size:17 final size:17
Alignment explanation
Indices: 16115960--16115992 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
16115950 TAAAATTAGG
16115960 TTGAAAAAATTATTTAA
1 TTGAAAAAATTATTTAA
*
16115977 TTGAAAAATTTATTTA
1 TTGAAAAAATTATTTA
16115993 TTTAAATTAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.48, C:0.00, G:0.06, T:0.45
Consensus pattern (17 bp):
TTGAAAAAATTATTTAA
Found at i:16119180 original size:6 final size:6
Alignment explanation
Indices: 16119169--16119222 Score: 67
Period size: 6 Copynumber: 9.0 Consensus size: 6
16119159 AGTTAACATC
*
16119169 TAAATA TAAATA TAAATA TAAATA TAAATA TTATAA-A TAAATT TAAA-A
1 TAAATA TAAATA TAAATA TAAATA TAAATA -TA-AATA TAAATA TAAATA
16119217 TAAATA
1 TAAATA
16119223 AATAATATTT
Statistics
Matches: 42, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
5 6 0.14
6 31 0.74
7 3 0.07
8 2 0.05
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (6 bp):
TAAATA
Found at i:16119210 original size:19 final size:19
Alignment explanation
Indices: 16119169--16119237 Score: 63
Period size: 19 Copynumber: 3.6 Consensus size: 19
16119159 AGTTAACATC
16119169 TAAATATAAATA-TA-AATA
1 TAAATATAAATATTATAA-A
16119187 TAAATATAAATATTATAAA
1 TAAATATAAATATTATAAA
* *
16119206 TAAATTTAAA-ATAAATAAA
1 TAAATATAAATAT-TATAAA
*
16119225 TAATATTTAAATA
1 TAA-ATATAAATA
16119238 ATAAAAAACT
Statistics
Matches: 44, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
18 14 0.32
19 20 0.45
20 9 0.20
21 1 0.02
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (19 bp):
TAAATATAAATATTATAAA
Found at i:16123120 original size:27 final size:27
Alignment explanation
Indices: 16123065--16123120 Score: 67
Period size: 27 Copynumber: 2.1 Consensus size: 27
16123055 ACATAAGGCC
* * * *
16123065 ATAACAGTCATTTCATCTTCTAGGGGT
1 ATAACAGTCATTTCACCTTATAAGAGT
*
16123092 ATAACAGTCATTTTACCTTATAAGAGT
1 ATAACAGTCATTTCACCTTATAAGAGT
16123119 AT
1 AT
16123121 TTTGGTCATT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.32, C:0.16, G:0.14, T:0.38
Consensus pattern (27 bp):
ATAACAGTCATTTCACCTTATAAGAGT
Found at i:16123459 original size:27 final size:27
Alignment explanation
Indices: 16123098--16123458 Score: 454
Period size: 27 Copynumber: 13.4 Consensus size: 27
16123088 GGGTATAACA
* ** *
16123098 GTCATTTTACCTTATAAGAGTATTTTG
1 GTCATTTTACCCTATGGGGGTATTTTG
*
16123125 GTCATTTTACCCTATGAGGGTATTTTG
1 GTCATTTTACCCTATGGGGGTATTTTG
* * **
16123152 GTCATTTTATCTTATGGGGGTATTTCA
1 GTCATTTTACCCTATGGGGGTATTTTG
* *
16123179 GTTATTTTACCCTATGGGGGTATTTTA
1 GTCATTTTACCCTATGGGGGTATTTTG
*
16123206 ATCATTTTACCCTATGGGGGTATTTTG
1 GTCATTTTACCCTATGGGGGTATTTTG
* *
16123233 GTCATTCTACCCTATGAGGGTATTTTG
1 GTCATTTTACCCTATGGGGGTATTTTG
* * **
16123260 GTTATTTTACCCTATCGGGGTATTTCA
1 GTCATTTTACCCTATGGGGGTATTTTG
*
16123287 GTCATTTTACCCTAT-GGGGTATTTTA
1 GTCATTTTACCCTATGGGGGTATTTTG
**
16123313 GTCATTTTACCCTATGGGGGTATTTCA
1 GTCATTTTACCCTATGGGGGTATTTTG
* *
16123340 GTCATTTTATCCTATGGGGGTATTTTA
1 GTCATTTTACCCTATGGGGGTATTTTG
* *
16123367 GTTATTTTACCCTATGGGGTTATTTTG
1 GTCATTTTACCCTATGGGGGTATTTTG
* *
16123394 GTCATTTTACCCTATGAGGGTATTTCG
1 GTCATTTTACCCTATGGGGGTATTTTG
* *
16123421 ATCATTTTACCTTATGGGGGTATTTTG
1 GTCATTTTACCCTATGGGGGTATTTTG
16123448 GTCATTTTACC
1 GTCATTTTACC
16123459 TATTTTAGGG
Statistics
Matches: 291, Mismatches: 42, Indels: 2
0.87 0.13 0.01
Matches are distributed among these distances:
26 25 0.09
27 266 0.91
ACGTcount: A:0.19, C:0.15, G:0.21, T:0.46
Consensus pattern (27 bp):
GTCATTTTACCCTATGGGGGTATTTTG
Found at i:16126197 original size:18 final size:17
Alignment explanation
Indices: 16126163--16126269 Score: 97
Period size: 17 Copynumber: 6.2 Consensus size: 17
16126153 TTATCACAAC
16126163 TCACACAAAATAACAGT
1 TCACACAAAATAACAGT
*
16126180 TCACACAAATTAAACAGT
1 TCACACAAAAT-AACAGT
* * *
16126198 TCACATAGAATAGACAAT
1 TCACACAAAATA-ACAGT
*
16126216 TCACATAAAATAACAGT
1 TCACACAAAATAACAGT
** * *
16126233 TCATGCATAATAATAGT
1 TCACACAAAATAACAGT
* *
16126250 TCATACAATATAACAGT
1 TCACACAAAATAACAGT
16126267 TCA
1 TCA
16126270 TCTATACCAT
Statistics
Matches: 72, Mismatches: 16, Indels: 4
0.78 0.17 0.04
Matches are distributed among these distances:
17 43 0.60
18 29 0.40
ACGTcount: A:0.49, C:0.19, G:0.07, T:0.25
Consensus pattern (17 bp):
TCACACAAAATAACAGT
Found at i:16126692 original size:7 final size:7
Alignment explanation
Indices: 16126680--16126711 Score: 55
Period size: 7 Copynumber: 4.6 Consensus size: 7
16126670 ACATAGTTCG
16126680 CAATTCA
1 CAATTCA
16126687 CAATTCA
1 CAATTCA
*
16126694 CAATTAA
1 CAATTCA
16126701 CAATTCA
1 CAATTCA
16126708 CAAT
1 CAAT
16126712 AGAGCATGGT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.47, C:0.25, G:0.00, T:0.28
Consensus pattern (7 bp):
CAATTCA
Found at i:16126876 original size:31 final size:31
Alignment explanation
Indices: 16126799--16126878 Score: 79
Period size: 31 Copynumber: 2.5 Consensus size: 31
16126789 TCATCCACAC
* **
16126799 ATATATATGTTATATATATAACAAGACCCTTTT
1 ATATATAT-TT-TATATATAACAAGACCCATAA
* * * *
16126832 ACACATATATTATATATAACAAGACTCATAA
1 ATATATATTTTATATATAACAAGACCCATAA
16126863 ATATATATTTTATATA
1 ATATATATTTTATATA
16126879 CATATCTATT
Statistics
Matches: 37, Mismatches: 10, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
31 30 0.81
32 1 0.03
33 6 0.16
ACGTcount: A:0.45, C:0.11, G:0.04, T:0.40
Consensus pattern (31 bp):
ATATATATTTTATATATAACAAGACCCATAA
Found at i:16127062 original size:31 final size:31
Alignment explanation
Indices: 16127024--16127095 Score: 103
Period size: 29 Copynumber: 2.4 Consensus size: 31
16127014 TAAGACCCTA
* *
16127024 CACGCATATATATTGTATATATAACAAAATC
1 CACGCATATATATTATATATATAACAAAACC
16127055 CACGC--ATATATTATATATATAACAAAACC
1 CACGCATATATATTATATATATAACAAAACC
*
16127084 CACACATATATA
1 CACGCATATATA
16127096 GGTTTAATGT
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
29 26 0.72
31 10 0.28
ACGTcount: A:0.47, C:0.19, G:0.04, T:0.29
Consensus pattern (31 bp):
CACGCATATATATTATATATATAACAAAACC
Found at i:16128612 original size:32 final size:31
Alignment explanation
Indices: 16128569--16128635 Score: 91
Period size: 32 Copynumber: 2.1 Consensus size: 31
16128559 ACCTAAAATT
* *
16128569 ATTAATTCTAATTATTTTAA-TATTTTATTTA
1 ATTAATTCTAATTA-TTTAATTATTTAATCTA
16128600 ATTAATTTCTAATTATTTAATTATTTAATCTA
1 ATTAA-TTCTAATTATTTAATTATTTAATCTA
16128632 ATTA
1 ATTA
16128636 CGGTTTCTAG
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
31 10 0.31
32 22 0.69
ACGTcount: A:0.37, C:0.04, G:0.00, T:0.58
Consensus pattern (31 bp):
ATTAATTCTAATTATTTAATTATTTAATCTA
Found at i:16130785 original size:16 final size:17
Alignment explanation
Indices: 16130754--16130839 Score: 57
Period size: 17 Copynumber: 4.7 Consensus size: 17
16130744 CCGATATAAT
* * *
16130754 AAATATATTTATTTTTT
1 AAATATTTTTAATTTTA
16130771 AAAT-TTTTTAATTTTA
1 AAATATTTTTAATTTTA
16130787 AAATATTTTTAAAATACTTTTTA
1 AAATATTTTT---A-A--TTTTA
* *
16130810 AATTTTTTTTTAATTTTA
1 AA-ATATTTTTAATTTTA
16130828 AAATATTTTTAA
1 AAATATTTTTAA
16130840 AATATTTTAA
Statistics
Matches: 54, Mismatches: 7, Indels: 16
0.70 0.09 0.21
Matches are distributed among these distances:
16 13 0.24
17 17 0.31
18 7 0.13
20 2 0.04
21 2 0.04
23 7 0.13
24 6 0.11
ACGTcount: A:0.38, C:0.01, G:0.00, T:0.60
Consensus pattern (17 bp):
AAATATTTTTAATTTTA
Found at i:16130796 original size:11 final size:11
Alignment explanation
Indices: 16130782--16130860 Score: 76
Period size: 11 Copynumber: 7.4 Consensus size: 11
16130772 AATTTTTTAA
16130782 TTTTAAAATAT
1 TTTTAAAATAT
16130793 TTTTAAAATACT
1 TTTTAAAATA-T
16130805 TTTT-AAAT-T
1 TTTTAAAATAT
** *
16130814 TTTT--TTTAA
1 TTTTAAAATAT
16130823 TTTTAAAATAT
1 TTTTAAAATAT
16130834 TTTTAAAATAT
1 TTTTAAAATAT
*
16130845 TTTAAAAATACT
1 TTTTAAAATA-T
16130857 TTTT
1 TTTT
16130861 TTAATTTTTA
Statistics
Matches: 55, Mismatches: 8, Indels: 9
0.76 0.11 0.12
Matches are distributed among these distances:
8 1 0.02
9 9 0.16
11 36 0.65
12 9 0.16
ACGTcount: A:0.39, C:0.03, G:0.00, T:0.58
Consensus pattern (11 bp):
TTTTAAAATAT
Found at i:16130828 original size:41 final size:42
Alignment explanation
Indices: 16130774--16130875 Score: 154
Period size: 41 Copynumber: 2.4 Consensus size: 42
16130764 ATTTTTTAAA
* *
16130774 TTTTTTAATTTTAAAATATTTTTAAAATACTTTT-TAAAT-TT
1 TTTTTTAATTTTAAAATATTTTTAAAATA-TTTTAAAAATACT
16130815 TTTTTTAATTTTAAAATATTTTTAAAATATTTTAAAAATACT
1 TTTTTTAATTTTAAAATATTTTTAAAATATTTTAAAAATACT
16130857 TTTTTTAATTTTTAAAATA
1 TTTTTTAA-TTTTAAAATA
16130876 AATTTTTGGT
Statistics
Matches: 56, Mismatches: 2, Indels: 4
0.90 0.03 0.06
Matches are distributed among these distances:
40 4 0.07
41 33 0.59
42 9 0.16
43 10 0.18
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (42 bp):
TTTTTTAATTTTAAAATATTTTTAAAATATTTTAAAAATACT
Found at i:16130869 original size:22 final size:21
Alignment explanation
Indices: 16130774--16130882 Score: 75
Period size: 22 Copynumber: 5.2 Consensus size: 21
16130764 ATTTTTTAAA
16130774 TTTTTTAA-TTTT-AAAATAT
1 TTTTTTAATTTTTAAAAATAT
** * *
16130793 TTTTAAAATACTTTT-TAAATTT
1 TTTTTTAAT--TTTTAAAAATAT
16130815 TTTTTTAA-TTTT-AAAATAT
1 TTTTTTAATTTTTAAAAATAT
**
16130834 TTTTAAAATATTTTAAAAATACT
1 TTTTTTAAT-TTTTAAAAATA-T
*
16130857 TTTTTTAATTTTTAAAATAAAT
1 TTTTTTAATTTTTAAAA-ATAT
16130879 TTTT
1 TTTT
16130883 GGTATTTATT
Statistics
Matches: 69, Mismatches: 13, Indels: 13
0.73 0.14 0.14
Matches are distributed among these distances:
19 21 0.30
21 4 0.06
22 34 0.49
23 10 0.14
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.60
Consensus pattern (21 bp):
TTTTTTAATTTTTAAAAATAT
Found at i:16131322 original size:55 final size:55
Alignment explanation
Indices: 16131250--16131359 Score: 184
Period size: 55 Copynumber: 2.0 Consensus size: 55
16131240 TGCATTTAAA
16131250 ATTTGATTCATAAATTTTGAATATGTTTTATATCATACTCAATGTAACATTCAAT
1 ATTTGATTCATAAATTTTGAATATGTTTTATATCATACTCAATGTAACATTCAAT
** * *
16131305 ATTTGATTCATGCATTTTGAATATGTTTTATATCATATTCAATGTAGCATTCAAT
1 ATTTGATTCATAAATTTTGAATATGTTTTATATCATACTCAATGTAACATTCAAT
16131360 GTTTCCGCTA
Statistics
Matches: 51, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
55 51 1.00
ACGTcount: A:0.34, C:0.11, G:0.09, T:0.46
Consensus pattern (55 bp):
ATTTGATTCATAAATTTTGAATATGTTTTATATCATACTCAATGTAACATTCAAT
Found at i:16135574 original size:21 final size:21
Alignment explanation
Indices: 16135543--16135597 Score: 67
Period size: 21 Copynumber: 2.6 Consensus size: 21
16135533 TTAAAATTAT
16135543 AAATTATAAATTTACTTTTTAA
1 AAATTA-AAATTTACTTTTTAA
* *
16135565 AAATTAAAATTAATTTTTTAA
1 AAATTAAAATTTACTTTTTAA
16135586 AAA-TAAAGATTT
1 AAATTAAA-ATTT
16135598 TGAAGAAAAT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
20 4 0.14
21 19 0.66
22 6 0.21
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.45
Consensus pattern (21 bp):
AAATTAAAATTTACTTTTTAA
Found at i:16140051 original size:16 final size:16
Alignment explanation
Indices: 16140030--16140064 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
16140020 TCTCTATCTC
16140030 TTGCAATTTTAATTCT
1 TTGCAATTTTAATTCT
16140046 TTGCAATTTTAATTCT
1 TTGCAATTTTAATTCT
16140062 TTG
1 TTG
16140065 TTTTTTCATT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.23, C:0.11, G:0.09, T:0.57
Consensus pattern (16 bp):
TTGCAATTTTAATTCT
Found at i:16147319 original size:22 final size:22
Alignment explanation
Indices: 16147294--16147349 Score: 112
Period size: 22 Copynumber: 2.5 Consensus size: 22
16147284 ACTGAACGCT
16147294 ATGTCGCAACATGGGGGATCCA
1 ATGTCGCAACATGGGGGATCCA
16147316 ATGTCGCAACATGGGGGATCCA
1 ATGTCGCAACATGGGGGATCCA
16147338 ATGTCGCAACAT
1 ATGTCGCAACAT
16147350 AGAAAGTAGA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 34 1.00
ACGTcount: A:0.29, C:0.23, G:0.29, T:0.20
Consensus pattern (22 bp):
ATGTCGCAACATGGGGGATCCA
Found at i:16155955 original size:6 final size:6
Alignment explanation
Indices: 16155944--16156068 Score: 250
Period size: 6 Copynumber: 20.8 Consensus size: 6
16155934 AATATAATAT
16155944 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC
1 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC
16155992 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC
1 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC
16156040 ATATAC ATATAC ATATAC ATATAC ATATA
1 ATATAC ATATAC ATATAC ATATAC ATATA
16156069 TATGTTTACT
Statistics
Matches: 119, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 119 1.00
ACGTcount: A:0.50, C:0.16, G:0.00, T:0.34
Consensus pattern (6 bp):
ATATAC
Found at i:16157746 original size:27 final size:28
Alignment explanation
Indices: 16157694--16157868 Score: 160
Period size: 28 Copynumber: 6.3 Consensus size: 28
16157684 GATAACATTG
** * *
16157694 TAAAATTCGAAAAATAGGGGCAAAAATA
1 TAAAATTTTAAAAATAAGGGCAAAACTA
* * *
16157722 TAAAATTTTAAAAATAAGAGCAAAATTT
1 TAAAATTTTAAAAATAAGGGCAAAACTA
* * * *
16157750 TAAAA-TCTAAAAAT-AGGGTCGATACGA
1 TAAAATTTTAAAAATAAGGG-CAAAACTA
* **
16157777 TAAAATTTGAAAAATAAGGGCAAAAGGA
1 TAAAATTTTAAAAATAAGGGCAAAACTA
*
16157805 T-AAATTTTGAAAAATAGGGGCAAAACTA
1 TAAAATTTT-AAAAATAAGGGCAAAACTA
*
16157833 TAAAATTTAAAAAATAAGGGCAAAACTA
1 TAAAATTTTAAAAATAAGGGCAAAACTA
16157861 T-AAATTTT
1 TAAAATTTT
16157869 GAGTTACAAG
Statistics
Matches: 117, Mismatches: 25, Indels: 11
0.76 0.16 0.07
Matches are distributed among these distances:
26 3 0.03
27 28 0.24
28 76 0.65
29 10 0.09
ACGTcount: A:0.54, C:0.06, G:0.15, T:0.25
Consensus pattern (28 bp):
TAAAATTTTAAAAATAAGGGCAAAACTA
Found at i:16157839 original size:56 final size:56
Alignment explanation
Indices: 16157702--16157870 Score: 205
Period size: 56 Copynumber: 3.0 Consensus size: 56
16157692 TGTAAAATTC
* * * * * * *
16157702 GAAAAATAGGGGCAAAAATATAAAATTTTAAAAATAAGAGCAAAATTTTAAAATCT
1 GAAAAATAGGGGCAAAACTATAAAATTTAAAAAATAAGGGCAAAACTATAAATTTT
* * * * * **
16157758 -AAAAATAGGGTCGATACGATAAAATTTGAAAAATAAGGGCAAAAGGATAAATTTT
1 GAAAAATAGGGGCAAAACTATAAAATTTAAAAAATAAGGGCAAAACTATAAATTTT
16157813 GAAAAATAGGGGCAAAACTATAAAATTTAAAAAATAAGGGCAAAACTATAAATTTT
1 GAAAAATAGGGGCAAAACTATAAAATTTAAAAAATAAGGGCAAAACTATAAATTTT
16157869 GA
1 GA
16157871 GTTACAAGGG
Statistics
Matches: 93, Mismatches: 19, Indels: 2
0.82 0.17 0.02
Matches are distributed among these distances:
55 43 0.46
56 50 0.54
ACGTcount: A:0.54, C:0.06, G:0.16, T:0.24
Consensus pattern (56 bp):
GAAAAATAGGGGCAAAACTATAAAATTTAAAAAATAAGGGCAAAACTATAAATTTT
Found at i:16157866 original size:83 final size:83
Alignment explanation
Indices: 16157694--16157870 Score: 196
Period size: 83 Copynumber: 2.1 Consensus size: 83
16157684 GATAACATTG
* * * * *
16157694 TAAAATTCGAAAAATAGGGGCAAAAATATAAAATTTTAAAAATAAGAGCAAAATTTTAAAATCTA
1 TAAAATTTGAAAAATAAGGGCAAAAAGATAAAATTTTAAAAATAAGAGCAAAACTATAAAATCTA
* *
16157759 AAAATAGGGTCGATACGA
66 AAAATAGGGTCAAAACGA
* * * *
16157777 TAAAATTTGAAAAATAAGGGCAAAAGGAT-AAATTTTGAAAAATAGGGGCAAAACTATAAAATTT
1 TAAAATTTGAAAAATAAGGGCAAAAAGATAAAATTTT-AAAAATAAGAGCAAAACTATAAAATCT
*
16157841 AAAAAATAAGGG-CAAAACTA
65 -AAAAAT-AGGGTCAAAACGA
*
16157861 TAAATTTTGA
1 TAAAATTTGA
16157871 GTTACAAGGG
Statistics
Matches: 78, Mismatches: 13, Indels: 5
0.81 0.14 0.05
Matches are distributed among these distances:
82 7 0.09
83 47 0.60
84 20 0.26
85 4 0.05
ACGTcount: A:0.54, C:0.06, G:0.15, T:0.24
Consensus pattern (83 bp):
TAAAATTTGAAAAATAAGGGCAAAAAGATAAAATTTTAAAAATAAGAGCAAAACTATAAAATCTA
AAAATAGGGTCAAAACGA
Found at i:16159870 original size:24 final size:25
Alignment explanation
Indices: 16159835--16159924 Score: 155
Period size: 25 Copynumber: 3.6 Consensus size: 25
16159825 TCGATTTCAT
*
16159835 TTTTTTGAAAAAAATTTAAATTTTA
1 TTTTTTGAAAAAAATTTATATTTTA
*
16159860 TTTTTTG-AAAAATTTTATATTTTA
1 TTTTTTGAAAAAAATTTATATTTTA
16159884 TTTTTTGAAAAAAATTTATATTTTA
1 TTTTTTGAAAAAAATTTATATTTTA
16159909 TTTTTTGAAAAAAATT
1 TTTTTTGAAAAAAATT
16159925 GTCAAAATAG
Statistics
Matches: 61, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
24 22 0.36
25 39 0.64
ACGTcount: A:0.40, C:0.00, G:0.04, T:0.56
Consensus pattern (25 bp):
TTTTTTGAAAAAAATTTATATTTTA
Found at i:16165509 original size:85 final size:84
Alignment explanation
Indices: 16165410--16165569 Score: 203
Period size: 85 Copynumber: 1.9 Consensus size: 84
16165400 GGATAAAATT
* * * * * *
16165410 GTAAAATTTAAAAAATAACGGCAAAACTATATAATCTTAAAAGTAGGGGCAAAATTGTAAAATTT
1 GTAAAATTTAAAAAATAACGGCAAAACGATAAAATATGAAAAATAGGGGCAAAATTGTAAAATCT
16165475 AGAAAAATAGGTTCAAATCA
66 A-AAAAATAGGTTCAAATCA
* ** * * *
16165495 GTAAAATTTGAAAAATAATTGCAAAAGGGTAAAATATGAAAAATAGGGGTAAAATTGTAAAATCT
1 GTAAAATTTAAAAAATAACGGCAAAACGATAAAATATGAAAAATAGGGGCAAAATTGTAAAATCT
16165560 AAAAAATAGG
66 AAAAAATAGG
16165570 GGAAAAATTG
Statistics
Matches: 63, Mismatches: 12, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
84 9 0.14
85 54 0.86
ACGTcount: A:0.53, C:0.06, G:0.16, T:0.25
Consensus pattern (84 bp):
GTAAAATTTAAAAAATAACGGCAAAACGATAAAATATGAAAAATAGGGGCAAAATTGTAAAATCT
AAAAAATAGGTTCAAATCA
Found at i:16165577 original size:28 final size:28
Alignment explanation
Indices: 16165381--16165583 Score: 149
Period size: 28 Copynumber: 7.2 Consensus size: 28
16165371 GGTCAAGACA
** *
16165381 GTAAAATTTGTAAAATAGGGGATAAAATT
1 GTAAAATTTAAAAAATAGGGG-CAAAATT
** *
16165410 GTAAAATTTAAAAAATAACGGCAAAACT
1 GTAAAATTTAAAAAATAGGGGCAAAATT
* * *
16165438 ATATAATCTT-AAAAGTAGGGGCAAAATT
1 GTAAAAT-TTAAAAAATAGGGGCAAAATT
** *
16165466 GTAAAATTTAGAAAAATAGGTTC-AAATCA
1 GTAAAATTTA-AAAAATAGGGGCAAAAT-T
* *** **
16165495 GTAAAATTTGAAAAATAATTGCAAAAGG
1 GTAAAATTTAAAAAATAGGGGCAAAATT
* * *
16165523 GTAAAATATGAAAAATAGGGGTAAAATT
1 GTAAAATTTAAAAAATAGGGGCAAAATT
* *
16165551 GTAAAATCTAAAAAATAGGGGAAAAATT
1 GTAAAATTTAAAAAATAGGGGCAAAATT
16165579 GTAAA
1 GTAAA
16165584 TTCTGAGTTA
Statistics
Matches: 135, Mismatches: 34, Indels: 11
0.75 0.19 0.06
Matches are distributed among these distances:
27 2 0.01
28 93 0.69
29 40 0.30
ACGTcount: A:0.53, C:0.04, G:0.17, T:0.26
Consensus pattern (28 bp):
GTAAAATTTAAAAAATAGGGGCAAAATT
Found at i:16180400 original size:50 final size:50
Alignment explanation
Indices: 16180293--16180530 Score: 230
Period size: 50 Copynumber: 4.7 Consensus size: 50
16180283 ATTTGGGTAA
* *
16180293 AGAGATCCCATGTAAGACCATGTCTGGGACATAGCATTGGCATCATTGAGGTTATG
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA-C--CGA-G--ATG
*
16180349 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
* ** ** *
16180399 AGAGGTCCCCCGTAAGACCATGTCTGGGACATGGCACGGGCACCGATATG
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
* * * * *
16180449 AGA-ACTCCCATGTAAGACCATATTTGGGATATGGCATTGGCA--GTACAAG
1 AGAGA-TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCG-AGATG
* * *
16180498 AAACATCTCATGTAAGACCATGTCTGGGACATG
1 AGAGATCCCATGTAAGACCATGTCTGGGACATG
16180531 ACTTTCGCAT
Statistics
Matches: 156, Mismatches: 23, Indels: 13
0.81 0.12 0.07
Matches are distributed among these distances:
48 1 0.01
49 29 0.19
50 82 0.53
52 1 0.01
53 2 0.01
55 1 0.01
56 40 0.26
ACGTcount: A:0.29, C:0.21, G:0.28, T:0.22
Consensus pattern (50 bp):
AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
Found at i:16189987 original size:28 final size:27
Alignment explanation
Indices: 16189956--16190048 Score: 91
Period size: 28 Copynumber: 3.4 Consensus size: 27
16189946 ATTTTGGGTC
*
16189956 AAAATAGTAAAATTTGAAAAATAAGGGA
1 AAAATAGTAAAATCTGAAAAAT-AGGGA
16189984 AAAACTA-TAAAATCTGAAAAATAGGG-
1 AAAA-TAGTAAAATCTGAAAAATAGGGA
* * * *
16190010 GAAATTGTAAAATGTAAAAAATAGGGA
1 AAAATAGTAAAATCTGAAAAATAGGGA
*
16190037 CAAAATTGTAAA
1 -AAAATAGTAAA
16190049 TTTTTAGTTA
Statistics
Matches: 55, Mismatches: 6, Indels: 8
0.80 0.09 0.12
Matches are distributed among these distances:
25 1 0.02
26 20 0.36
27 4 0.07
28 28 0.51
29 2 0.04
ACGTcount: A:0.58, C:0.03, G:0.17, T:0.22
Consensus pattern (27 bp):
AAAATAGTAAAATCTGAAAAATAGGGA
Found at i:16193294 original size:132 final size:132
Alignment explanation
Indices: 16192990--16193279 Score: 438
Period size: 132 Copynumber: 2.2 Consensus size: 132
16192980 GGTGAAACTA
* *
16192990 TAAGTCCTAGCTCCCTGAACAGCAGTGGAATAGGTGGAAGATTATAAATCCTAACTCCCTGACCA
1 TAAGTCCTAGCTCCCTGAACAGCAGTGGAATAGGTGGAAGACTATAAATCCTAACTCCCTGAACA
* *
16193055 GCATTGGAATAGGTGGAAGACTGAAAGTCCTAGCTCCCTGAACAGCAATAGAATAGGCAGAAGAT
66 GCAGTGGAATAGGAGGAAGACTGAAAGTCCTAGCTCCCTGAACAGCAATAGAATAGGCAGAAGAT
16193120 TG
131 TG
* * *
16193122 TAAATCCTAGCTCCCTGAACAGCAGTGGAATAGGTGGAAGACTATAAGTCCTAGCTCCCTGAACA
1 TAAGTCCTAGCTCCCTGAACAGCAGTGGAATAGGTGGAAGACTATAAATCCTAACTCCCTGAACA
* * * * *
16193187 GCAGTGGAATAGGAGGAAGATTGTAAA-TCCTAGCTCCTTGACCAGCAGTGGAATAGGCAGAAGA
66 GCAGTGGAATAGGAGGAAGACTG-AAAGTCCTAGCTCCCTGAACAGCAATAGAATAGGCAGAAGA
16193251 TTG
130 TTG
* *
16193254 TAAGTCCCAGCTCCCTGACCAGCAGT
1 TAAGTCCTAGCTCCCTGAACAGCAGT
16193280 AGAGCAGGTT
Statistics
Matches: 142, Mismatches: 15, Indels: 2
0.89 0.09 0.01
Matches are distributed among these distances:
132 139 0.98
133 3 0.02
ACGTcount: A:0.32, C:0.22, G:0.25, T:0.21
Consensus pattern (132 bp):
TAAGTCCTAGCTCCCTGAACAGCAGTGGAATAGGTGGAAGACTATAAATCCTAACTCCCTGAACA
GCAGTGGAATAGGAGGAAGACTGAAAGTCCTAGCTCCCTGAACAGCAATAGAATAGGCAGAAGAT
TG
Found at i:16193295 original size:44 final size:44
Alignment explanation
Indices: 16192990--16193279 Score: 382
Period size: 44 Copynumber: 6.6 Consensus size: 44
16192980 GGTGAAACTA
*
16192990 TAAGTCCTAGCTCCCTGAACAGCAGTGGAATAGGTGGAAGATTA
1 TAAGTCCTAGCTCCCTGAACAGCAGTGGAATAGGTGGAAGATTG
* * * * *
16193034 TAAATCCTAACTCCCTGACCAGCATTGGAATAGGTGGAAGACTG
1 TAAGTCCTAGCTCCCTGAACAGCAGTGGAATAGGTGGAAGATTG
* * * **
16193078 AAAGTCCTAGCTCCCTGAACAGCAATAGAATAGGCAGAAGATTG
1 TAAGTCCTAGCTCCCTGAACAGCAGTGGAATAGGTGGAAGATTG
* * *
16193122 TAAATCCTAGCTCCCTGAACAGCAGTGGAATAGGTGGAAGACTA
1 TAAGTCCTAGCTCCCTGAACAGCAGTGGAATAGGTGGAAGATTG
*
16193166 TAAGTCCTAGCTCCCTGAACAGCAGTGGAATAGGAGGAAGATTG
1 TAAGTCCTAGCTCCCTGAACAGCAGTGGAATAGGTGGAAGATTG
* * * **
16193210 TAAATCCTAGCTCCTTGACCAGCAGTGGAATAGGCAGAAGATTG
1 TAAGTCCTAGCTCCCTGAACAGCAGTGGAATAGGTGGAAGATTG
* *
16193254 TAAGTCCCAGCTCCCTGACCAGCAGT
1 TAAGTCCTAGCTCCCTGAACAGCAGT
16193280 AGAGCAGGTT
Statistics
Matches: 211, Mismatches: 35, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
44 211 1.00
ACGTcount: A:0.32, C:0.22, G:0.25, T:0.21
Consensus pattern (44 bp):
TAAGTCCTAGCTCCCTGAACAGCAGTGGAATAGGTGGAAGATTG
Found at i:16193295 original size:88 final size:88
Alignment explanation
Indices: 16192990--16193282 Score: 424
Period size: 88 Copynumber: 3.3 Consensus size: 88
16192980 GGTGAAACTA
* * *
16192990 TAAGTCCTAGCTCCCTGAACAGCAGTGGAATAGGTGGAAGATTATAAATCCTAACTCCCTGACCA
1 TAAGTCCTAGCTCCCTGAACAGCAGTAGAATAGGTGGAAGATTGTAAATCCTAGCTCCCTGACCA
*
16193055 GCATTGGAATAGGTGGAAGACTG
66 GCAGTGGAATAGGTGGAAGACTG
* * ** *
16193078 AAAGTCCTAGCTCCCTGAACAGCAATAGAATAGGCAGAAGATTGTAAATCCTAGCTCCCTGAACA
1 TAAGTCCTAGCTCCCTGAACAGCAGTAGAATAGGTGGAAGATTGTAAATCCTAGCTCCCTGACCA
*
16193143 GCAGTGGAATAGGTGGAAGACTA
66 GCAGTGGAATAGGTGGAAGACTG
* * *
16193166 TAAGTCCTAGCTCCCTGAACAGCAGTGGAATAGGAGGAAGATTGTAAATCCTAGCTCCTTGACCA
1 TAAGTCCTAGCTCCCTGAACAGCAGTAGAATAGGTGGAAGATTGTAAATCCTAGCTCCCTGACCA
** *
16193231 GCAGTGGAATAGGCAGAAGATTG
66 GCAGTGGAATAGGTGGAAGACTG
* *
16193254 TAAGTCCCAGCTCCCTGACCAGCAGTAGA
1 TAAGTCCTAGCTCCCTGAACAGCAGTAGA
16193283 GCAGGTTGAA
Statistics
Matches: 181, Mismatches: 24, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
88 181 1.00
ACGTcount: A:0.33, C:0.22, G:0.25, T:0.21
Consensus pattern (88 bp):
TAAGTCCTAGCTCCCTGAACAGCAGTAGAATAGGTGGAAGATTGTAAATCCTAGCTCCCTGACCA
GCAGTGGAATAGGTGGAAGACTG
Found at i:16194030 original size:13 final size:13
Alignment explanation
Indices: 16194014--16194039 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
16194004 AACAACAGAG
16194014 AATAACAAGAAAA
1 AATAACAAGAAAA
16194027 AATAACAAGAAAA
1 AATAACAAGAAAA
16194040 TATAGGAAAT
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:0.77, C:0.08, G:0.08, T:0.08
Consensus pattern (13 bp):
AATAACAAGAAAA
Found at i:16197956 original size:21 final size:21
Alignment explanation
Indices: 16197932--16197979 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 21
16197922 GGTTTCAAAT
* *
16197932 CGTGTGACAAAGGTACACGGC
1 CGTGTGACAAAGATACACGAC
* *
16197953 CGTGTGGCTAAGATACACGAC
1 CGTGTGACAAAGATACACGAC
16197974 CGTGTG
1 CGTGTG
16197980 GGTAGCCCAT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.25, C:0.23, G:0.33, T:0.19
Consensus pattern (21 bp):
CGTGTGACAAAGATACACGAC
Found at i:16202312 original size:152 final size:152
Alignment explanation
Indices: 16202036--16202345 Score: 557
Period size: 152 Copynumber: 2.0 Consensus size: 152
16202026 ATATGTGTGA
*
16202036 GATTGATTGATTTTTCTATGAATGATGTTATGATTTAAATGTTTTGAATAGTTGATAGTTTTGAG
1 GATTGGTTGATTTTTCTATGAATGATGTTATGATTTAAATGTTTTGAATAGTTGATAGTTTTGAG
* * *
16202101 TTGTAAACTTTTGATAATGCTCCGTAACCCTATTCCAACAATAGATACGGGATAAGGGTGTTACA
66 GTGTAAACTTTCGATAATACTCCGTAACCCTATTCCAACAATAGATACGGGATAAGGGTGTTACA
16202166 CATGGCCGGTCATGGGAAAGGG
131 CATGGCCGGTCATGGGAAAGGG
*
16202188 GATTGGTTGATTTTTCTATGAATGATGTTATGATTTAAATGTTTTGAATATTTGATAGTTTTGAG
1 GATTGGTTGATTTTTCTATGAATGATGTTATGATTTAAATGTTTTGAATAGTTGATAGTTTTGAG
*
16202253 GTGTAAACTTTCGATAATACTCCGTAACCCTATTCCAACAATGGATACGGGATAAGGGTGTTACA
66 GTGTAAACTTTCGATAATACTCCGTAACCCTATTCCAACAATAGATACGGGATAAGGGTGTTACA
*
16202318 CATGGCCGGTCATGGGAAGGGG
131 CATGGCCGGTCATGGGAAAGGG
16202340 GATTGG
1 GATTGG
16202346 ATGCTATTTT
Statistics
Matches: 151, Mismatches: 7, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
152 151 1.00
ACGTcount: A:0.28, C:0.11, G:0.25, T:0.36
Consensus pattern (152 bp):
GATTGGTTGATTTTTCTATGAATGATGTTATGATTTAAATGTTTTGAATAGTTGATAGTTTTGAG
GTGTAAACTTTCGATAATACTCCGTAACCCTATTCCAACAATAGATACGGGATAAGGGTGTTACA
CATGGCCGGTCATGGGAAAGGG
Found at i:16205517 original size:81 final size:80
Alignment explanation
Indices: 16205364--16205565 Score: 278
Period size: 81 Copynumber: 2.5 Consensus size: 80
16205354 GTCACCTTTT
* * * *
16205364 GGGGCTTTAGCGGCGTTTTTAGAAAAGCGCCGCTAATGCTAGGGGTTTTAGCACGGTTTTGCAAA
1 GGGGTTTTAGCGGCGTTTTT-GAAAAGCGCCGCTAATGCTAGGAGCTTTAACACGGTTTTGCAAA
*
16205429 TGCGCCGCTAATGCTA
65 AGCGCCGCTAATGCTA
* * *
16205445 GGGGTTTTAGCGGCGTTTTTGGAAAGCGCCGCTAATGCTAGGAGCTTTAACAGCGTTTTTGGAAA
1 GGGGTTTTAGCGGCGTTTTTGAAAAGCGCCGCTAATGCTAGGAGCTTTAACA-CGGTTTTGCAAA
* *
16205510 AGTGCCGCTAATGCTC
65 AGCGCCGCTAATGCTA
*
16205526 GGGGTTTTAGCGGCGTTTGTGAAAAAGCGCCGCTAATGCT
1 GGGGTTTTAGCGGCGTTTTTG-AAAAGCGCCGCTAATGCT
16205566 CGGTCTTTAG
Statistics
Matches: 107, Mismatches: 12, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
80 28 0.26
81 62 0.58
82 17 0.16
ACGTcount: A:0.21, C:0.19, G:0.32, T:0.29
Consensus pattern (80 bp):
GGGGTTTTAGCGGCGTTTTTGAAAAGCGCCGCTAATGCTAGGAGCTTTAACACGGTTTTGCAAAA
GCGCCGCTAATGCTA
Found at i:16205542 original size:41 final size:41
Alignment explanation
Indices: 16205364--16205593 Score: 270
Period size: 40 Copynumber: 5.7 Consensus size: 41
16205354 GTCACCTTTT
* *
16205364 GGGGCTTTAGCGGCGTTTTTAGAAAAGCGCCGCTAATGCTA
1 GGGGTTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGCTA
* * * *
16205405 GGGGTTTTAGC-ACGGTTTTGCAAATGCGCCGCTAATGCTA
1 GGGGTTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGCTA
16205445 GGGGTTTTAGCGGCGTTTTTGG-AAAGCGCCGCTAATGCTA
1 GGGGTTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGCTA
* * * * * *
16205485 GGAGCTTTAACAGCGTTTTTGGAAAAGTGCCGCTAATGCTC
1 GGGGTTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGCTA
* *
16205526 GGGGTTTTAGCGGCGTTTGTGAAAAAGCGCCGCTAATGCT-
1 GGGGTTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGCTA
* * *
16205566 -CGGTCTTTAGCGGCATTTTTGAAAAAGC
1 GGGGT-TTTAGCGGCGTTTTTGGAAAAGC
16205594 ACCGTAAAAA
Statistics
Matches: 160, Mismatches: 26, Indels: 7
0.83 0.13 0.04
Matches are distributed among these distances:
39 3 0.02
40 91 0.57
41 66 0.41
ACGTcount: A:0.21, C:0.19, G:0.31, T:0.29
Consensus pattern (41 bp):
GGGGTTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGCTA
Found at i:16205574 original size:81 final size:80
Alignment explanation
Indices: 16205364--16205593 Score: 259
Period size: 81 Copynumber: 2.8 Consensus size: 80
16205354 GTCACCTTTT
* * * *
16205364 GGGGCTTTAGCGGCGTTTTTAGAAAAGCGCCGCTAATGCTAGGGGT-TTTAGCA-CGGTTTTGCA
1 GGGGTTTTAGCGGCGTTTTGA-AAAAGCGCCGCTAATGCTA--GGTCTTTAGCAGCGTTTTTGAA
*
16205427 AATGCGCCGCTAATGCTA
63 AAAGCGCCGCTAATGCTA
* * * *
16205445 GGGGTTTTAGCGGCGTTTTTG-GAAAGCGCCGCTAATGCTAGGAGCTTTAACAGCGTTTTTGGAA
1 GGGGTTTTAGCGGCG-TTTTGAAAAAGCGCCGCTAATGCTAGG-TCTTTAGCAGCGTTTTTGAAA
* *
16205509 AAGTGCCGCTAATGCTC
64 AAGCGCCGCTAATGCTA
* * *
16205526 GGGGTTTTAGCGGCGTTTGTGAAAAAGCGCCGCTAATGCTCGGTCTTTAGCGGCATTTTTGAAAA
1 GGGGTTTTAGCGGCGTTT-TGAAAAAGCGCCGCTAATGCTAGGTCTTTAGCAGCGTTTTTGAAAA
16205591 AGC
65 AGC
16205594 ACCGTAAAAA
Statistics
Matches: 125, Mismatches: 18, Indels: 12
0.81 0.12 0.08
Matches are distributed among these distances:
78 2 0.02
80 27 0.22
81 73 0.58
82 23 0.18
ACGTcount: A:0.21, C:0.19, G:0.31, T:0.29
Consensus pattern (80 bp):
GGGGTTTTAGCGGCGTTTTGAAAAAGCGCCGCTAATGCTAGGTCTTTAGCAGCGTTTTTGAAAAA
GCGCCGCTAATGCTA
Found at i:16206420 original size:291 final size:286
Alignment explanation
Indices: 16205874--16206428 Score: 753
Period size: 291 Copynumber: 1.9 Consensus size: 286
16205864 TATCACTATA
16205874 GTTTAGGGTTTTTGGTTTAGGGTATATGATTAATTTAAGATTTAAGGCCGGTTTAGGAGTTACTA
1 GTTTAGGGTTTTTGGTTTAGGGTATATGATTAATTTAAGATTTAAGGCCGGTTTAGGAGTTACTA
* * * **
16205939 TTTTAAGGTTAATTTAGGGATTAGTATGGATTTAGGGATTATGGTTTAAGGGCTGAGATTTAAAG
66 TTTTAAGG---ATTTAGGGA-GAGTATAGATTTAGGGATTATGGATTAAGGAATGAGATTTAAAG
* ** *
16206004 TTTAGGGGTTTAAGAGTTAAATGTTAGGGTTAAGAGTTATGGATTTAGGGTTTAGGGATTCTAGG
127 TTTAGGGGTTTAAGAGTTAAATGTTAGGGTTAAGAGTTAGGGATTTAAAGTTTAGGGATTCAAGG
16206069 GTCGGGTTAAGGTTTTGGGTTTAGATTAATTAGTTTTTTGAATTTATATATTAAATATGTTCTTA
192 GTCGGGTTAAGGTTTTGGGTTTAGATTAATTAGTTTTTTGAATTTATATATTAAATATGTTCTTA
16206134 TATAATTGTAAAAGAGATAATAATAAATTT
257 TATAATTGTAAAAGAGATAATAATAAATTT
* *
16206164 GTTTAGGGTTTTTTGTTTAGGGTATATGATTAATTTAAGATTTAAGGCTGGTTTAGGAGTTACTA
1 GTTTAGGGTTTTTGGTTTAGGGTATATGATTAATTTAAGATTTAAGGCCGGTTTAGGAGTTACTA
* *
16206229 TTTTAAGG-TTTAGGG-GAGTATAGATTTAGGGATTATGGATT-AGGAATTATGGTTTAAAGGTT
66 TTTTAAGGATTTAGGGAGAGTATAGATTTAGGGATTATGGATTAAGGAATGA-GATTTAAA----
* * *
16206291 GGGATTTA-GGGTTTAAGGGTTAGACAT-TATA-GGTTCAGGGTTAGGGATTTAAAGTTTAGGGA
126 --G-TTTAGGGGTTTAAGAGTTA-A-ATGT-TAGGGTTAAGAGTTAGGGATTTAAAGTTTAGGGA
* * * *
16206353 TTCAAGGGTCGGGTTAGGGTTTTGGGTTTAGATTAATTAGTTTTTTTAATTTATATTTTATATAT
185 TTCAAGGGTCGGGTTAAGGTTTTGGGTTTAGATTAATTAGTTTTTTGAATTTATATATTAAATAT
16206418 GTTCTTATATA
250 GTTCTTATATA
16206429 TTAATTAAAA
Statistics
Matches: 234, Mismatches: 20, Indels: 21
0.85 0.07 0.08
Matches are distributed among these distances:
283 5 0.02
284 30 0.13
286 7 0.03
290 85 0.36
291 103 0.44
292 4 0.02
ACGTcount: A:0.28, C:0.03, G:0.27, T:0.43
Consensus pattern (286 bp):
GTTTAGGGTTTTTGGTTTAGGGTATATGATTAATTTAAGATTTAAGGCCGGTTTAGGAGTTACTA
TTTTAAGGATTTAGGGAGAGTATAGATTTAGGGATTATGGATTAAGGAATGAGATTTAAAGTTTA
GGGGTTTAAGAGTTAAATGTTAGGGTTAAGAGTTAGGGATTTAAAGTTTAGGGATTCAAGGGTCG
GGTTAAGGTTTTGGGTTTAGATTAATTAGTTTTTTGAATTTATATATTAAATATGTTCTTATATA
ATTGTAAAAGAGATAATAATAAATTT
Found at i:16207266 original size:16 final size:16
Alignment explanation
Indices: 16207245--16207276 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
16207235 AGTTGTTGAT
16207245 GTGATTGAAGGTGTTC
1 GTGATTGAAGGTGTTC
16207261 GTGATTGAAGGTGTTC
1 GTGATTGAAGGTGTTC
16207277 AATCGACAGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.19, C:0.06, G:0.38, T:0.38
Consensus pattern (16 bp):
GTGATTGAAGGTGTTC
Found at i:16208532 original size:13 final size:14
Alignment explanation
Indices: 16208472--16208531 Score: 54
Period size: 13 Copynumber: 4.5 Consensus size: 14
16208462 AATAAATATA
16208472 TATTTTTT-ATTTT
1 TATTTTTTAATTTT
16208485 TATTTTTTAATTTT
1 TATTTTTTAATTTT
* ** *
16208499 TA-ATTTTAAAATA
1 TATTTTTTAATTTT
*
16208512 T-TTTTTTATTTTT
1 TATTTTTTAATTTT
16208525 TATTTTT
1 TATTTTT
16208532 AAAATAATTT
Statistics
Matches: 35, Mismatches: 9, Indels: 5
0.71 0.18 0.10
Matches are distributed among these distances:
13 23 0.66
14 12 0.34
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (14 bp):
TATTTTTTAATTTT
Found at i:16208547 original size:8 final size:7
Alignment explanation
Indices: 16208472--16208531 Score: 50
Period size: 7 Copynumber: 8.0 Consensus size: 7
16208462 AATAAATATA
16208472 TATTTTT
1 TATTTTT
16208479 TA-TTTT
1 TATTTTT
16208485 TATTTTT
1 TATTTTT
16208492 TAATTTTT
1 T-ATTTTT
* *
16208500 AATTTTAAAA
1 TATTTT---T
16208510 TATTTTTT
1 TA-TTTTT
16208518 TATTTTT
1 TATTTTT
16208525 TATTTTT
1 TATTTTT
16208532 AAAATAATTT
Statistics
Matches: 43, Mismatches: 4, Indels: 12
0.73 0.07 0.20
Matches are distributed among these distances:
6 6 0.14
7 24 0.56
8 8 0.19
10 1 0.02
11 4 0.09
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (7 bp):
TATTTTT
Found at i:16208553 original size:26 final size:26
Alignment explanation
Indices: 16208486--16208554 Score: 102
Period size: 26 Copynumber: 2.7 Consensus size: 26
16208476 TTTTATTTTT
*
16208486 ATTTTTTAATTTTTAATTTTAAAATA
1 ATTTTTTAATTTTTATTTTTAAAATA
* *
16208512 TTTTTTTATTTTTTATTTTTAAAATA
1 ATTTTTTAATTTTTATTTTTAAAATA
*
16208538 ATTTTTTAATGTTTATT
1 ATTTTTTAATTTTTATT
16208555 AAAAATAGGC
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
26 37 1.00
ACGTcount: A:0.30, C:0.00, G:0.01, T:0.68
Consensus pattern (26 bp):
ATTTTTTAATTTTTATTTTTAAAATA
Found at i:16210048 original size:38 final size:38
Alignment explanation
Indices: 16209963--16210035 Score: 103
Period size: 38 Copynumber: 1.9 Consensus size: 38
16209953 ATCTAATTAC
*
16209963 ATATACAAATATCACGTGTTGAAATTTACTTTGATCAT
1 ATATATAAATATCACGTGTTGAAATTTACTTTGATCAT
* *
16210001 ATATATAAATATCATGTGTCT-AAATTTATTTTGAT
1 ATATATAAATATCACGTGT-TGAAATTTACTTTGAT
16210036 TTTCTATGTA
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
38 30 0.97
39 1 0.03
ACGTcount: A:0.37, C:0.10, G:0.10, T:0.44
Consensus pattern (38 bp):
ATATATAAATATCACGTGTTGAAATTTACTTTGATCAT
Found at i:16211958 original size:26 final size:27
Alignment explanation
Indices: 16211906--16211969 Score: 87
Period size: 26 Copynumber: 2.4 Consensus size: 27
16211896 AACTCAATTA
*
16211906 ATTTTCATATCATTTTTTTTCAAATAT
1 ATTTTCATATCATTTTTTTTAAAATAT
16211933 ATTTTC-TATCA-TTTTTTTAAAGATAT
1 ATTTTCATATCATTTTTTTTAAA-ATAT
16211959 ATTTGTCATAT
1 ATTT-TCATAT
16211970 TATTCTGTTT
Statistics
Matches: 33, Mismatches: 1, Indels: 5
0.85 0.03 0.13
Matches are distributed among these distances:
25 9 0.27
26 13 0.39
27 8 0.24
28 3 0.09
ACGTcount: A:0.30, C:0.09, G:0.03, T:0.58
Consensus pattern (27 bp):
ATTTTCATATCATTTTTTTTAAAATAT
Found at i:16223351 original size:26 final size:26
Alignment explanation
Indices: 16223287--16223351 Score: 62
Period size: 26 Copynumber: 2.5 Consensus size: 26
16223277 AATTAGAAAA
*
16223287 AAAATATAGAAAATATTATAAAAATAT
1 AAAAGATA-AAAATATTATAAAAATAT
* *
16223314 ATATAG-GAAAAATATTAT-AAAATAT
1 A-AAAGATAAAAATATTATAAAAATAT
16223339 AAAAGATATAAAA
1 AAAAGATA-AAAA
16223352 AATAAAGTTA
Statistics
Matches: 30, Mismatches: 5, Indels: 7
0.71 0.12 0.17
Matches are distributed among these distances:
24 3 0.10
25 9 0.30
26 14 0.47
27 2 0.07
28 2 0.07
ACGTcount: A:0.66, C:0.00, G:0.06, T:0.28
Consensus pattern (26 bp):
AAAAGATAAAAATATTATAAAAATAT
Found at i:16224098 original size:17 final size:20
Alignment explanation
Indices: 16224065--16224115 Score: 65
Period size: 18 Copynumber: 2.8 Consensus size: 20
16224055 TGATAATTAT
16224065 ATTT-TATATTTTATAAT-A
1 ATTTATATATTTTATAATAA
*
16224083 GTTTA-ATATTTT-TAATAA
1 ATTTATATATTTTATAATAA
16224101 ATTTATATATTTTAT
1 ATTTATATATTTTAT
16224116 TGTTATTTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
17 4 0.15
18 15 0.56
19 7 0.26
20 1 0.04
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (20 bp):
ATTTATATATTTTATAATAA
Found at i:16226343 original size:18 final size:18
Alignment explanation
Indices: 16226316--16226351 Score: 56
Period size: 19 Copynumber: 2.0 Consensus size: 18
16226306 ACAACATAAT
16226316 TTATTAAATT-TTTTTTA
1 TTATTAAATTATTTTTTA
16226333 TTATATAAATTATTTTTTA
1 TTAT-TAAATTATTTTTTA
16226352 ATTTAATGTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 4 0.24
18 6 0.35
19 7 0.41
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (18 bp):
TTATTAAATTATTTTTTA
Found at i:16226702 original size:22 final size:22
Alignment explanation
Indices: 16226677--16226746 Score: 90
Period size: 22 Copynumber: 3.2 Consensus size: 22
16226667 AAATTCAATA
16226677 TCAATTTCCTTCAAAAATTCTC
1 TCAATTTCCTTCAAAAATTCTC
16226699 TCAA-TTCCGTTCAAAAATTCTC
1 TCAATTTCC-TTCAAAAATTCTC
* *
16226721 TCAAATTACTTTC-AAAATTCTC
1 TC-AATTTCCTTCAAAAATTCTC
16226743 TCAA
1 TCAA
16226747 ACTCTCAAAT
Statistics
Matches: 43, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
21 6 0.14
22 30 0.70
23 5 0.12
24 2 0.05
ACGTcount: A:0.34, C:0.26, G:0.01, T:0.39
Consensus pattern (22 bp):
TCAATTTCCTTCAAAAATTCTC
Found at i:16226746 original size:11 final size:11
Alignment explanation
Indices: 16226712--16226776 Score: 59
Period size: 11 Copynumber: 6.2 Consensus size: 11
16226702 ATTCCGTTCA
16226712 AAAATTCTCTC
1 AAAATTCTCTC
*
16226723 -AAATTACTTTC
1 AAAATT-CTCTC
16226734 AAAATTCTCTC
1 AAAATTCTCTC
16226745 -AAA--CTCTC
1 AAAATTCTCTC
*
16226753 AAATTTCT-TCC
1 AAAATTCTCT-C
16226764 AAAATTCTCTC
1 AAAATTCTCTC
16226775 AA
1 AA
16226777 TTTCCTTCAA
Statistics
Matches: 43, Mismatches: 4, Indels: 14
0.70 0.07 0.23
Matches are distributed among these distances:
8 5 0.12
9 2 0.05
10 9 0.21
11 21 0.49
12 6 0.14
ACGTcount: A:0.37, C:0.26, G:0.00, T:0.37
Consensus pattern (11 bp):
AAAATTCTCTC
Found at i:16226747 original size:22 final size:23
Alignment explanation
Indices: 16226686--16226747 Score: 92
Period size: 22 Copynumber: 2.8 Consensus size: 23
16226676 ATCAATTTCC
*
16226686 TTCAAAAATTCTCTC-AATTCCG
1 TTCAAAAATTCTCTCAAATTACG
*
16226708 TTCAAAAATTCTCTCAAATTACT
1 TTCAAAAATTCTCTCAAATTACG
16226731 TTC-AAAATTCTCTCAAA
1 TTCAAAAATTCTCTCAAA
16226748 CTCTCAAATT
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
22 29 0.78
23 8 0.22
ACGTcount: A:0.37, C:0.24, G:0.02, T:0.37
Consensus pattern (23 bp):
TTCAAAAATTCTCTCAAATTACG
Found at i:16226752 original size:30 final size:30
Alignment explanation
Indices: 16226718--16226776 Score: 100
Period size: 30 Copynumber: 2.0 Consensus size: 30
16226708 TTCAAAAATT
*
16226718 CTCTCAAATTACTTTCAAAATTCTCTCAAA
1 CTCTCAAATTACTTCCAAAATTCTCTCAAA
*
16226748 CTCTCAAATTTCTTCCAAAATTCTCTCAA
1 CTCTCAAATTACTTCCAAAATTCTCTCAA
16226777 TTTCCTTCAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.34, C:0.29, G:0.00, T:0.37
Consensus pattern (30 bp):
CTCTCAAATTACTTCCAAAATTCTCTCAAA
Found at i:16226780 original size:21 final size:23
Alignment explanation
Indices: 16226748--16226799 Score: 65
Period size: 22 Copynumber: 2.4 Consensus size: 23
16226738 TTCTCTCAAA
* *
16226748 CTCTCAAATTT-CTTCCAAAATT
1 CTCTCAAATTTCCTTCAAAAAAT
16226770 CTCTC-AATTTCCTTCAAAAAAT
1 CTCTCAAATTTCCTTCAAAAAAT
16226792 CTC-CAAAT
1 CTCTCAAAT
16226800 CCATATTAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
21 6 0.23
22 20 0.77
ACGTcount: A:0.35, C:0.29, G:0.00, T:0.37
Consensus pattern (23 bp):
CTCTCAAATTTCCTTCAAAAAAT
Found at i:16227016 original size:14 final size:15
Alignment explanation
Indices: 16226987--16227020 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
16226977 AAATTTTAAA
16226987 TTTTATTTAAGATAT
1 TTTTATTTAAGATAT
*
16227002 TTTTATTTATG-TAT
1 TTTTATTTAAGATAT
16227016 TTTTA
1 TTTTA
16227021 GATATTTATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 8 0.44
15 10 0.56
ACGTcount: A:0.26, C:0.00, G:0.06, T:0.68
Consensus pattern (15 bp):
TTTTATTTAAGATAT
Found at i:16229191 original size:28 final size:28
Alignment explanation
Indices: 16229151--16229995 Score: 926
Period size: 28 Copynumber: 30.4 Consensus size: 28
16229141 TTTTGACATT
*
16229151 ATTTGATTAAAAACCCTAACCTAACTTA
1 ATTTAATTAAAAACCCTAACCTAACTTA
* *
16229179 ATTTAATTAAAAACCCTTACCCTAACCTA
1 ATTTAATTAAAAACCC-TAACCTAACTTA
16229208 ATTTAATTAAAAA--C---CCTAACTTA
1 ATTTAATTAAAAACCCTAACCTAACTTA
* *
16229231 ACTTAATTAAAAACCCTAACCTAATTTA
1 ATTTAATTAAAAACCCTAACCTAACTTA
*
16229259 ATTTAATTAAAAACCCTAACCTAACCTA
1 ATTTAATTAAAAACCCTAACCTAACTTA
* *
16229287 AATTAATTAAAAACCCTAACCTAATTTA
1 ATTTAATTAAAAACCCTAACCTAACTTA
16229315 ATTTAATTAAAAACCCTAA-C--A--TA
1 ATTTAATTAAAAACCCTAACCTAACTTA
* *
16229338 ATTTAGTTAAAAACCCTAACCCTAACCTA
1 ATTTAATTAAAAACCCTAA-CCTAACTTA
* * *
16229367 TTTTACA-TGAAAACCCTAACCCTAACCTA
1 ATTTA-ATTAAAAACCCTAA-CCTAACTTA
* * *
16229396 ATTTAATTAAAAACCCTCACATAATTTA
1 ATTTAATTAAAAACCCTAACCTAACTTA
* * *
16229424 ATTTAATTAAAAACACTAACATAATTTA
1 ATTTAATTAAAAACCCTAACCTAACTTA
*
16229452 ATTTAATTAAAAACCCTAACCCTAACCTA
1 ATTTAATTAAAAACCCTAA-CCTAACTTA
* * * *
16229481 TTTTAAATGAAAACCCTAACCCTAACCTA
1 ATTTAATTAAAAACCCTAA-CCTAACTTA
*
16229510 ATTTAATTAAAAACCCTAACCTAATTTA
1 ATTTAATTAAAAACCCTAACCTAACTTA
* *
16229538 ATTTAATTAAAAACCCTAACATAATTTA
1 ATTTAATTAAAAACCCTAACCTAACTTA
* *
16229566 ATTTAATTAAAAACCCTAACATAATTTA
1 ATTTAATTAAAAACCCTAACCTAACTTA
* *
16229594 ATTTAATTAAAAATCCTAACCTAATTTA
1 ATTTAATTAAAAACCCTAACCTAACTTA
* *
16229622 ATTTAATTAAAAACCCTAACATAATTTA
1 ATTTAATTAAAAACCCTAACCTAACTTA
*
16229650 ATTTAATTAAAAACCCTAACCCTAACCTA
1 ATTTAATTAAAAACCCTAA-CCTAACTTA
* * *
16229679 TTTTACA-TGAAAACCCTAACCCTAACCTA
1 ATTTA-ATTAAAAACCCTAA-CCTAACTTA
*
16229708 ATTTAATTAAAAACCCTAACCTAATTTA
1 ATTTAATTAAAAACCCTAACCTAACTTA
*
16229736 ATTTAATTAAAAACCCTAACCTAATTTA
1 ATTTAATTAAAAACCCTAACCTAACTTA
16229764 A-TTAATTAAAAACCCTAA-C--A--TA
1 ATTTAATTAAAAACCCTAACCTAACTTA
* *
16229786 ATTTAGTTAAAAACCCTAACCCTAACCTA
1 ATTTAATTAAAAACCCTAA-CCTAACTTA
*
16229815 ATTTAATTAAAAACCCTAACCCTAACCTA
1 ATTTAATTAAAAACCCTAA-CCTAACTTA
*
16229844 ATTTAATTAAAAACCCTAACCTAATTTA
1 ATTTAATTAAAAACCCTAACCTAACTTA
* * *
16229872 ATTTAATTTAATACCCTAACCTAACATA
1 ATTTAATTAAAAACCCTAACCTAACTTA
*
16229900 ATTTAGTTAAAAACCCTAACCCTAACCTAATTTA
1 ATTTAATTAAAAACCCTAA-CCTAA-C----TTA
16229934 ATTTAATTAAAAACCCTAA-C--A--TA
1 ATTTAATTAAAAACCCTAACCTAACTTA
* *
16229957 ATTTAGTTAAAAACCCTAACCCTAACCTA
1 ATTTAATTAAAAACCCTAA-CCTAACTTA
16229986 ATTTAATTAA
1 ATTTAATTAA
16229996 TGTAAAAAAA
Statistics
Matches: 714, Mismatches: 66, Indels: 73
0.84 0.08 0.09
Matches are distributed among these distances:
22 3 0.00
23 76 0.11
24 1 0.00
25 5 0.01
26 1 0.00
27 22 0.03
28 359 0.50
29 223 0.31
30 3 0.00
32 1 0.00
34 20 0.03
ACGTcount: A:0.46, C:0.21, G:0.01, T:0.32
Consensus pattern (28 bp):
ATTTAATTAAAAACCCTAACCTAACTTA
Found at i:16229473 original size:114 final size:112
Alignment explanation
Indices: 16229151--16229995 Score: 1030
Period size: 114 Copynumber: 7.6 Consensus size: 112
16229141 TTTTGACATT
* * * **
16229151 ATTTGATTAAAAACCCTAACCTAACTTAATTTAATTAAAAACCCTTACCCTAACCTAATTTAATT
1 ATTTAATTAAAAACCCTAACCTAACCTAATTTAATTAAAAACCC-TAACCTAATTTAATTTAATT
* **
16229216 AAAAA-CC---CTAACTTAACTTAATTAAAAACCCTAA-CCTAATTTA
65 AAAAACCCTAACTAACTTAATTTAATTAAAAACCCTAACCCTAACCTA
*
16229259 ATTTAATTAAAAACCCTAACCTAACCTAAATTAATTAAAAACCCTAACCTAATTTAATTTAATTA
1 ATTTAATTAAAAACCCTAACCTAACCTAATTTAATTAAAAACCCTAACCTAATTTAATTTAATTA
*
16229324 AAAACCCTAAC--A--TAATTTAGTTAAAAACCCTAACCCTAACCTA
66 AAAACCCTAACTAACTTAATTTAATTAAAAACCCTAACCCTAACCTA
* * * *
16229367 TTTTACA-TGAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTCACATAATTTAATTTAAT
1 ATTTA-ATTAAAAACCCTAA-CCTAACCTAATTTAATTAAAAACCCTAACCTAATTTAATTTAAT
* *
16229431 TAAAAACACTAACATAATTTAATTTAATTAAAAACCCTAACCCTAACCTA
64 TAAAAACCCTAAC-TAACTTAATTTAATTAAAAACCCTAACCCTAACCTA
* * *
16229481 TTTTAAATGAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACCTAATTTAATTTAATT
1 ATTTAATTAAAAACCCTAA-CCTAACCTAATTTAATTAAAAACCCTAACCTAATTTAATTTAATT
* * **
16229546 AAAAACCCTAACATAATTTAATTTAATTAAAAACCCTAA-CATAATTTA
65 AAAAACCCTAAC-TAACTTAATTTAATTAAAAACCCTAACCCTAACCTA
* ** *
16229594 ATTTAATTAAAAATCCTAACCTAATTTAATTTAATTAAAAACCCTAACATAATTTAATTTAATTA
1 ATTTAATTAAAAACCCTAACCTAACCTAATTTAATTAAAAACCCTAACCTAATTTAATTTAATTA
* * *
16229659 AAAACCCTAACCCTAACCTATTTTACA-TGAAAACCCTAACCCTAACCTA
66 AAAACCCTAA--CTAACTTAATTTA-ATTAAAAACCCTAACCCTAACCTA
**
16229708 ATTTAATTAAAAACCCTAACCTAATTTAATTTAATTAAAAACCCTAACCTAATTTAA-TTAATTA
1 ATTTAATTAAAAACCCTAACCTAACCTAATTTAATTAAAAACCCTAACCTAATTTAATTTAATTA
*
16229772 AAAACCCTAAC--A--TAATTTAGTTAAAAACCCTAACCCTAACCTA
66 AAAACCCTAACTAACTTAATTTAATTAAAAACCCTAACCCTAACCTA
16229815 ATTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACCTAATTTAATTTAATT
1 ATTTAATTAAAAACCCTAA-CCTAACCTAATTTAATTAAAAACCCTAACCTAATTTAATTTAATT
* * * *
16229880 TAATACCCTAACCTAACATAATTTAGTTAAAAACCCTAACCCTAACCTA
65 AAAAACCCTAA-CTAACTTAATTTAATTAAAAACCCTAACCCTAACCTA
* * **
16229929 ATTTAATTTAATTAAA----AACCCTAACATAATTTAGTTAAAAACCCTAACCCTAACCTAATTT
1 ATTTAA-TTAA--AAACCCTAA-CCTAACCTAATTTAATTAAAAACCCTAA-CCTAATTTAATTT
16229990 AATTAA
61 AATTAA
16229996 TGTAAAAAAA
Statistics
Matches: 657, Mismatches: 51, Indels: 52
0.86 0.07 0.07
Matches are distributed among these distances:
107 87 0.13
108 101 0.15
109 71 0.11
110 1 0.00
111 2 0.00
112 55 0.08
113 88 0.13
114 245 0.37
115 4 0.01
117 3 0.00
ACGTcount: A:0.46, C:0.21, G:0.01, T:0.32
Consensus pattern (112 bp):
ATTTAATTAAAAACCCTAACCTAACCTAATTTAATTAAAAACCCTAACCTAATTTAATTTAATTA
AAAACCCTAACTAACTTAATTTAATTAAAAACCCTAACCCTAACCTA
Found at i:16229951 original size:23 final size:23
Alignment explanation
Indices: 16229932--16229976 Score: 81
Period size: 23 Copynumber: 2.0 Consensus size: 23
16229922 TAACCTAATT
16229932 TAATTTAATTAAAAACCCTAACA
1 TAATTTAATTAAAAACCCTAACA
*
16229955 TAATTTAGTTAAAAACCCTAAC
1 TAATTTAATTAAAAACCCTAAC
16229977 CCTAACCTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.49, C:0.18, G:0.02, T:0.31
Consensus pattern (23 bp):
TAATTTAATTAAAAACCCTAACA
Found at i:16233322 original size:124 final size:124
Alignment explanation
Indices: 16233102--16233366 Score: 379
Period size: 124 Copynumber: 2.1 Consensus size: 124
16233092 CCACGAGGGC
* * *
16233102 GCGATTTGACACTATTTGCTTAGAAACGTCAAAAAAATTTATTTCCTACATGACCAACTGTAGCG
1 GCGATTTGACACTATTTACTCAGAAACGTCAAAAAAAATTATTTCCTACATGACCAACTGTAGCG
* * * * * **
16233167 AAATTGCGTCCACGAGGGCGCGATTTCACAATTTCTTCTCATATAGCATCCTGGTATTA
66 AAATCGCATCCACGAGGCCACGATTTCACAATTTCTTCTCAAATAGCATCCTGGTAGAA
* * *
16233226 GCGATTTTATACTATTTACTCAGAAAACGTCAAAAAAAATTATTTCTTACATGACC-ACTGTAGC
1 GCGATTTGACACTATTTACTCAG-AAACGTCAAAAAAAATTATTTCCTACATGACCAACTGTAGC
16233290 GAAATCGCATCCACGAGGCCACGATTTCACAATTTCTTCTCAAATAGCATCCTGGTAGAA
65 GAAATCGCATCCACGAGGCCACGATTTCACAATTTCTTCTCAAATAGCATCCTGGTAGAA
**
16233350 GCGATTTCCCACTATTT
1 GCGATTTGACACTATTT
16233367 GACCAGATAC
Statistics
Matches: 124, Mismatches: 16, Indels: 2
0.87 0.11 0.01
Matches are distributed among these distances:
124 94 0.76
125 30 0.24
ACGTcount: A:0.31, C:0.23, G:0.15, T:0.31
Consensus pattern (124 bp):
GCGATTTGACACTATTTACTCAGAAACGTCAAAAAAAATTATTTCCTACATGACCAACTGTAGCG
AAATCGCATCCACGAGGCCACGATTTCACAATTTCTTCTCAAATAGCATCCTGGTAGAA
Found at i:16239322 original size:114 final size:112
Alignment explanation
Indices: 16239191--16239585 Score: 472
Period size: 114 Copynumber: 3.5 Consensus size: 112
16239181 GTTGAAGTGT
* *
16239191 CGCAAATAAACCGAAGCCCAACGATGCCGTTTTCTGAGCATTCAGGGATTTAGTGGCTTTTTCAG
1 CGCAAATAAACCGAAGCCCAACGATGCCATTTTCTGAGCATTCGGGGATTTAGTGGCTTTTTCAG
* *
16239256 CGAAGCGCAGCTAATGCTCAGAACTTTAGCGGCATTTTTGAGTAAGCGT
66 -GAAGCGC-GCTAATGCTCAGGACTTTAGCGGCATTTTTGAGTAAGCGC
* * ** *
16239305 CGCAAATAAACTGAAGCCCAACGACGCTGTTTTCTGAGCATTCGGGGATTTAGTGGCATTTTC-G
1 CGCAAATAAACCGAAGCCCAACGATGCCATTTTCTGAGCATTCGGGGATTTAGTGGCTTTTTCAG
* * **
16239369 GTAAAGCGTCGCTAATGTTCAGGACTTTAGTGGTGTTTTTGAGTAAGCGC
66 G--AAGCG-CGCTAATGCTCAGGACTTTAGCGGCATTTTTGAGTAAGCGC
* * *
16239419 CGCAAATAAACCGAAGCCCAACGATGCTATTTTTTGAGCATTCGGGGATTTAGCGGCTTTTT-AG
1 CGCAAATAAACCGAAGCCCAACGATGCCATTTTCTGAGCATTCGGGGATTTAGTGGCTTTTTCAG
* * * *
16239483 GTAAAGCGCTGCTAATGCTCAGGACTCTAGCGGCTTTTTTTGTGGAAGCGC
66 G--AAGCGC-GCTAATGCTCAGGACTTTAGCGGC-ATTTTTGAGTAAGCGC
* * * *
16239534 CGCGAA-AAGCCTAAGCCCAACGATGCCATTTTCTGAGCATTCGGGAATTTAG
1 CGCAAATAAACCGAAGCCCAACGATGCCATTTTCTGAGCATTCGGGGATTTAG
16239586 CGACGTTTTT
Statistics
Matches: 245, Mismatches: 30, Indels: 12
0.85 0.10 0.04
Matches are distributed among these distances:
112 1 0.00
113 2 0.01
114 223 0.91
115 19 0.08
ACGTcount: A:0.25, C:0.21, G:0.26, T:0.28
Consensus pattern (112 bp):
CGCAAATAAACCGAAGCCCAACGATGCCATTTTCTGAGCATTCGGGGATTTAGTGGCTTTTTCAG
GAAGCGCGCTAATGCTCAGGACTTTAGCGGCATTTTTGAGTAAGCGC
Found at i:16241675 original size:22 final size:21
Alignment explanation
Indices: 16241649--16241696 Score: 78
Period size: 22 Copynumber: 2.2 Consensus size: 21
16241639 TATCGTATAT
*
16241649 AGTTTGGGGTTTAGGGTTTAGG
1 AGTTTGGGGTTTAAGGTTT-GG
16241671 AGTTTGGGGTTTAAGGTTTGG
1 AGTTTGGGGTTTAAGGTTTGG
16241692 AGTTT
1 AGTTT
16241697 AGTCTGCTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
21 7 0.28
22 18 0.72
ACGTcount: A:0.15, C:0.00, G:0.42, T:0.44
Consensus pattern (21 bp):
AGTTTGGGGTTTAAGGTTTGG
Found at i:16241680 original size:15 final size:14
Alignment explanation
Indices: 16241650--16241698 Score: 53
Period size: 14 Copynumber: 3.4 Consensus size: 14
16241640 ATCGTATATA
* *
16241650 GTTTGGGGTTTAGG
1 GTTTAGGGTTTGGG
16241664 GTTTAGGAGTTTGGG
1 GTTTAGG-GTTTGGG
* *
16241679 GTTTAAGGTTTGGA
1 GTTTAGGGTTTGGG
16241693 GTTTAG
1 GTTTAG
16241699 TCTGCTTTAG
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
14 17 0.59
15 12 0.41
ACGTcount: A:0.14, C:0.00, G:0.43, T:0.43
Consensus pattern (14 bp):
GTTTAGGGTTTGGG
Found at i:16244367 original size:13 final size:13
Alignment explanation
Indices: 16244349--16244376 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
16244339 AACTCAAATT
16244349 TATCAATAATATA
1 TATCAATAATATA
16244362 TATCAATAATATA
1 TATCAATAATATA
16244375 TA
1 TA
16244377 ATAACATACA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.54, C:0.07, G:0.00, T:0.39
Consensus pattern (13 bp):
TATCAATAATATA
Found at i:16244444 original size:33 final size:35
Alignment explanation
Indices: 16244376--16244448 Score: 107
Period size: 35 Copynumber: 2.1 Consensus size: 35
16244366 AATAATATAT
16244376 AATAACATACAATATAATAACTTATACATAACTTA
1 AATAACATACAATATAATAACTTATACATAACTTA
*
16244411 AATAACATACAATAT-ATAAAC-T-TGCATAACTTA
1 AATAACATACAATATAAT-AACTTATACATAACTTA
16244444 AATAA
1 AATAA
16244449 TTATAAATAA
Statistics
Matches: 36, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
33 15 0.42
34 3 0.08
35 18 0.50
ACGTcount: A:0.55, C:0.14, G:0.01, T:0.30
Consensus pattern (35 bp):
AATAACATACAATATAATAACTTATACATAACTTA
Found at i:16244613 original size:23 final size:23
Alignment explanation
Indices: 16244585--16244628 Score: 88
Period size: 23 Copynumber: 1.9 Consensus size: 23
16244575 CTTATATGTA
16244585 AACTTACATAATACATAACTTTT
1 AACTTACATAATACATAACTTTT
16244608 AACTTACATAATACATAACTT
1 AACTTACATAATACATAACTT
16244629 ATAAATTTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.45, C:0.18, G:0.00, T:0.36
Consensus pattern (23 bp):
AACTTACATAATACATAACTTTT
Found at i:16244643 original size:23 final size:23
Alignment explanation
Indices: 16244583--16244635 Score: 79
Period size: 23 Copynumber: 2.3 Consensus size: 23
16244573 AACTTATATG
*
16244583 TAAACTTACATAATACATAACTTT
1 TAAA-TTACATAATACATAACTTA
*
16244607 TAACTTACATAATACATAACTTA
1 TAAATTACATAATACATAACTTA
16244630 TAAATT
1 TAAATT
16244636 TTTTAATATA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
23 23 0.88
24 3 0.12
ACGTcount: A:0.47, C:0.15, G:0.00, T:0.38
Consensus pattern (23 bp):
TAAATTACATAATACATAACTTA
Found at i:16244768 original size:9 final size:9
Alignment explanation
Indices: 16244736--16245035 Score: 233
Period size: 9 Copynumber: 34.8 Consensus size: 9
16244726 ATAACATAAC
16244736 AACTTACAT
1 AACTTACAT
16244745 AA--TACAT
1 AACTTACAT
* *
16244752 AGCATACAT
1 AACTTACAT
16244761 AACTTACAT
1 AACTTACAT
*
16244770 AA--TACAA
1 AACTTACAT
16244777 AACTTACAT
1 AACTTACAT
*
16244786 AACTTAAAAT
1 AACTT-ACAT
* *
16244796 ATCTTACAC
1 AACTTACAT
16244805 AACTTACAT
1 AACTTACAT
*
16244814 AACCTACAT
1 AACTTACAT
16244823 AA--TACATTT
1 AACTTACA--T
16244832 AACTTACAT
1 AACTTACAT
16244841 AACTTACAT
1 AACTTACAT
16244850 AACTTACAT
1 AACTTACAT
*
16244859 AATACATA-AT
1 -A-ACTTACAT
16244869 AACTTAC--
1 AACTTACAT
16244876 AACTTACAT
1 AACTTACAT
*
16244885 AACATACAT
1 AACTTACAT
* **
16244894 TACTTTGAT
1 AACTTACAT
16244903 AACTTACAT
1 AACTTACAT
16244912 AACTTACAT
1 AACTTACAT
*
16244921 AA-TT-CAC
1 AACTTACAT
16244928 AACTTACAT
1 AACTTACAT
* *
16244937 AGCTTACTT
1 AACTTACAT
16244946 AA--TACAT
1 AACTTACAT
16244953 AACTTACAT
1 AACTTACAT
*
16244962 AA--TACAC
1 AACTTACAT
16244969 AACTTACAT
1 AACTTACAT
* *
16244978 AGCTTACTT
1 AACTTACAT
16244987 AA--TACAT
1 AACTTACAT
16244994 AACTTACAT
1 AACTTACAT
16245003 AA--TACAT
1 AACTTACAT
*
16245010 ACACGTACAT
1 A-ACTTACAT
16245020 AACTTACAT
1 AACTTACAT
*
16245029 AATTTAC
1 AACTTAC
16245036 TTAATACATA
Statistics
Matches: 230, Mismatches: 36, Indels: 50
0.73 0.11 0.16
Matches are distributed among these distances:
7 51 0.22
8 9 0.04
9 146 0.63
10 16 0.07
11 8 0.03
ACGTcount: A:0.45, C:0.21, G:0.02, T:0.32
Consensus pattern (9 bp):
AACTTACAT
Found at i:16244774 original size:16 final size:16
Alignment explanation
Indices: 16244755--16245046 Score: 145
Period size: 16 Copynumber: 17.5 Consensus size: 16
16244745 AATACATAGC
16244755 ATACATAACTTACATA
1 ATACATAACTTACATA
*
16244771 ATACAAAACTTACATA
1 ATACATAACTTACATA
* * *
16244787 ACTTAAAATATCTTACACA
1 A--T-ACATAACTTACATA
*
16244806 ACTTACATAACCTACATA
1 A--TACATAACTTACATA
16244824 ATACATTTAACTTACATA
1 ATACA--TAACTTACATA
16244842 ACTTACATAACTTACATA
1 A--TACATAACTTACATA
*
16244860 ATACATAA-TAAC-T-
1 ATACATAACTTACATA
16244873 -TAC--AACTTACATAA
1 ATACATAACTTACAT-A
* **
16244887 CATACATTACTTTGATA
1 -ATACATAACTTACATA
16244904 ACTTACATAACTTACATA
1 A--TACATAACTTACATA
* *
16244922 ATTCACAACTTACATA
1 ATACATAACTTACATA
* *
16244938 GCTTACTTAA--TACATA
1 --ATACATAACTTACATA
*
16244954 ACTTACATAA--TACACA
1 A--TACATAACTTACATA
* *
16244970 ACTTACATAGCTTACTTA
1 A--TACATAACTTACATA
16244988 ATACATAACTTACATA
1 ATACATAACTTACATA
*
16245004 ATACATACACGTACATA
1 ATACATA-ACTTACATA
* *
16245021 ACTTACATAATTTACTTA
1 A--TACATAACTTACATA
16245039 ATACATAA
1 ATACATAA
16245047 ATATATATCA
Statistics
Matches: 214, Mismatches: 36, Indels: 52
0.71 0.12 0.17
Matches are distributed among these distances:
10 2 0.01
11 3 0.01
12 4 0.02
14 1 0.00
15 3 0.01
16 97 0.45
17 10 0.05
18 70 0.33
19 20 0.09
20 4 0.02
ACGTcount: A:0.46, C:0.21, G:0.01, T:0.33
Consensus pattern (16 bp):
ATACATAACTTACATA
Found at i:16244878 original size:71 final size:70
Alignment explanation
Indices: 16244724--16245031 Score: 208
Period size: 71 Copynumber: 4.4 Consensus size: 70
16244714 ATAACTTACG
* *
16244724 TAATAACATAACAACTTACATAA-TACATAGCATACA--TAACTTACATAA--TACAAAACTTAC
1 TAATAAC-TTACAACTTACATAACTACATA--ATACATTTAACTTACATAACTTACATAACTTAC
16244784 ATAACTTAA
63 ATAAC-TAA
*
16244793 -AATATCTTACACAACTTACATAACCTACATAATACATTTAACTTACATAACTTACATAACTTAC
1 TAATAACTT--ACAACTTACATAA-CTACATAATACATTTAACTTACATAACTTACATAACTTAC
16244857 ATAA-TACA
63 ATAACTA-A
*
16244865 TAATAACTTACAACTTACATAACATACAT--TACTTTGATAACTTACATAACTTACATAA-TT-C
1 TAATAACTTACAACTTACATAAC-TACATAATACATT--TAACTTACATAACTTACATAACTTAC
*
16244926 ACAACT--
63 ATAACTAA
* * * *
16244932 TACATAGCTTACTTAA--TACATAACTTACATAATACA--CAACTTACATAGCTTACTTAA--TA
1 TA-ATAACTTAC--AACTTACATAAC-TACATAATACATTTAACTTACATAACTTACATAACTTA
16244991 CATAACTTACA
62 CATAAC-TA-A
* *
16245002 TAAT-ACATAC-ACGTACATAACTTACATAAT
1 TAATAACTTACAACTTACATAAC-TACATAAT
16245032 TTACTTAATA
Statistics
Matches: 198, Mismatches: 15, Indels: 54
0.74 0.06 0.20
Matches are distributed among these distances:
65 2 0.01
66 23 0.12
67 21 0.11
68 30 0.15
69 29 0.15
70 11 0.06
71 59 0.30
72 1 0.01
73 22 0.11
ACGTcount: A:0.46, C:0.21, G:0.02, T:0.31
Consensus pattern (70 bp):
TAATAACTTACAACTTACATAACTACATAATACATTTAACTTACATAACTTACATAACTTACATA
ACTAA
Found at i:16244886 original size:19 final size:19
Alignment explanation
Indices: 16244714--16244876 Score: 85
Period size: 18 Copynumber: 8.5 Consensus size: 19
16244704 ATAAACTGGC
*
16244714 ATAACTTACGTAATAACATA
1 ATAACTTACATAAT-ACATA
*
16244734 ACAACTTACATAATACATAGCATA
1 ATAACTTAC---ATA-ATA-CATA
16244758 CATAACTTACATAATAC--A
1 -ATAACTTACATAATACATA
16244776 A-AACTTACATAACTTA-A-A
1 ATAACTTACATAA--TACATA
* * *
16244794 ATATCTTACA-CA-ACTTA
1 ATAACTTACATAATACATA
*
16244811 CATAACCTACATAATACAT-
1 -ATAACTTACATAATACATA
* *
16244830 TTAACTTACAT-A-ACTTA
1 ATAACTTACATAATACATA
16244847 CATAACTTACATAATACATA
1 -ATAACTTACATAATACATA
16244867 ATAACTTACA
1 ATAACTTACA
16244877 ACTTACATAA
Statistics
Matches: 109, Mismatches: 15, Indels: 39
0.67 0.09 0.24
Matches are distributed among these distances:
15 1 0.01
16 14 0.13
17 3 0.03
18 33 0.30
19 19 0.17
20 16 0.15
21 3 0.03
22 3 0.03
23 3 0.03
24 6 0.06
25 8 0.07
ACGTcount: A:0.48, C:0.20, G:0.01, T:0.30
Consensus pattern (19 bp):
ATAACTTACATAATACATA
Found at i:16244956 original size:25 final size:25
Alignment explanation
Indices: 16244736--16244963 Score: 170
Period size: 25 Copynumber: 9.1 Consensus size: 25
16244726 ATAACATAAC
* *
16244736 AACTTACATAATACATAGCATACAT
1 AACTTACATAATACATAACTTACAT
*
16244761 AACTTACATAATACAAAACTTACAT
1 AACTTACATAATACATAACTTACAT
*
16244786 AACTTA-A-AAT--AT--CTTACAC
1 AACTTACATAATACATAACTTACAT
16244805 AACTTACATAACCTACATAA--TACATTT
1 AACTTACATAA--TACATAACTTACA--T
16244832 AACTTACATAACTTACATAACTTACAT
1 AACTTACATAA--TACATAACTTACAT
*
16244859 AA--TACATAATAACTTACAACTTACAT
1 AACTTACATAAT-AC--ATAACTTACAT
* * **
16244885 AACATACATTACTTTGATAACTTACAT
1 AACTTACA-TA-ATACATAACTTACAT
* *
16244912 AACTTACATAATTCACAACTTACAT
1 AACTTACATAATACATAACTTACAT
* *
16244937 AGCTTACTTAATACATAACTTACAT
1 AACTTACATAATACATAACTTACAT
16244962 AA
1 AA
16244964 TACACAACTT
Statistics
Matches: 163, Mismatches: 21, Indels: 38
0.73 0.09 0.17
Matches are distributed among these distances:
19 12 0.07
20 1 0.01
21 3 0.02
23 5 0.03
24 3 0.02
25 75 0.46
26 14 0.09
27 39 0.24
28 4 0.02
29 6 0.04
30 1 0.01
ACGTcount: A:0.46, C:0.21, G:0.01, T:0.32
Consensus pattern (25 bp):
AACTTACATAATACATAACTTACAT
Found at i:16244976 original size:25 final size:25
Alignment explanation
Indices: 16244713--16245031 Score: 95
Period size: 25 Copynumber: 12.6 Consensus size: 25
16244703 TATAAACTGG
*
16244713 CATAACTTACGTAATAACATAACAACTTA
1 CATAACTTACATAAT-ACAT---AACTTA
16244742 CATAA--TACATAGCATACATAACTTA
1 CATAACTTACATA--ATACATAACTTA
*
16244767 CATAA--TACAAAACTTACATAACTTAA
1 CATAACTTACATAA--TACATAACTT-A
* * * *
16244793 AATATCTTACACAACTTACATAACCTA
1 CATAACTTACATAA--TACATAACTTA
16244820 CATAA--TACAT--T---TAACTTA
1 CATAACTTACATAATACATAACTTA
*
16244838 CATAACTTACATAACTTACATAATACATA
1 CATAACTTACATAA--TACAT-A-ACTTA
* *
16244867 -ATAACTTACA-ACTTACATAACATA
1 CATAACTTACATA-ATACATAACTTA
* **
16244891 CATTACTTTGATAACTTACATAACTTA
1 CATAACTTACATAA--TACATAACTTA
* *
16244918 CATAA-TTCACA-ACTTACATAGCTTA
1 CATAACTT-ACATA-ATACATAACTTA
*
16244943 CTTAA--TACATAACTTACATAA--TA
1 CATAACTTACATAA--TACATAACTTA
* * *
16244966 CACAACTTACATAGCTTACTTAA--TA
1 CATAACTTACATA--ATACATAACTTA
*
16244991 CATAACTTACATAATACATACACGTA
1 CATAACTTACATAATACATA-ACTTA
16245017 CATAACTTACATAAT
1 CATAACTTACATAAT
16245032 TTACTTAATA
Statistics
Matches: 223, Mismatches: 32, Indels: 73
0.68 0.10 0.22
Matches are distributed among these distances:
18 11 0.05
20 5 0.02
21 1 0.00
23 14 0.06
24 9 0.04
25 84 0.38
26 30 0.13
27 26 0.12
28 32 0.14
29 11 0.05
ACGTcount: A:0.46, C:0.21, G:0.02, T:0.31
Consensus pattern (25 bp):
CATAACTTACATAATACATAACTTA
Found at i:16250523 original size:21 final size:21
Alignment explanation
Indices: 16250499--16250547 Score: 73
Period size: 21 Copynumber: 2.3 Consensus size: 21
16250489 GGCAATGAGG
*
16250499 GAAGCGGAGGCTGCAGCGA-GA
1 GAAGCAGAGGCTGCAGC-ACGA
16250520 GAAGCAGAGGCTGCAGCACGA
1 GAAGCAGAGGCTGCAGCACGA
16250541 GAAGCAG
1 GAAGCAG
16250548 CAAGAGTAGC
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
20 1 0.04
21 25 0.96
ACGTcount: A:0.33, C:0.20, G:0.43, T:0.04
Consensus pattern (21 bp):
GAAGCAGAGGCTGCAGCACGA
Found at i:16251089 original size:42 final size:42
Alignment explanation
Indices: 16250941--16251117 Score: 187
Period size: 43 Copynumber: 4.1 Consensus size: 42
16250931 TTAATGGCGT
* * * *
16250941 TTTTTTATAAAAGCGCCGCTAAAGAACATTA-CTTTTCGCGGCG
1 TTTTTT-TGAAAGCGCCGCTAAAGAACATGATC-TTTAGCAGCG
* ** *
16250984 TTCGTGATGAAAGCGCCGCTAAAGAACATGATCTATAGCAGCG
1 TT-TTTTTGAAAGCGCCGCTAAAGAACATGATCTTTAGCAGCG
* * *
16251027 TTTTTTT-ACCAAGCGTCGCTAAAGAACATGATCTTTAGCGGCA
1 TTTTTTTGA--AAGCGCCGCTAAAGAACATGATCTTTAGCAGCG
*
16251070 TTTTTTTGAAAGCGCCGCTAAAGAACATGATATTTAGCAGCG
1 TTTTTTTGAAAGCGCCGCTAAAGAACATGATCTTTAGCAGCG
16251112 TTTTTT
1 TTTTTT
16251118 CTGTAAACGC
Statistics
Matches: 110, Mismatches: 19, Indels: 11
0.79 0.14 0.08
Matches are distributed among these distances:
41 1 0.01
42 37 0.34
43 69 0.63
44 3 0.03
ACGTcount: A:0.29, C:0.19, G:0.20, T:0.32
Consensus pattern (42 bp):
TTTTTTTGAAAGCGCCGCTAAAGAACATGATCTTTAGCAGCG
Found at i:16251469 original size:31 final size:31
Alignment explanation
Indices: 16251411--16251470 Score: 75
Period size: 31 Copynumber: 1.9 Consensus size: 31
16251401 CAAGTTAGTT
* * * *
16251411 GCAATTGTTCCCACATTGGGGCTTGAACTAG
1 GCAATTGCTCCCACATTAGGACCTGAACTAG
*
16251442 GCAATTGCTCCCCCATTAGGACCTGAACT
1 GCAATTGCTCCCACATTAGGACCTGAACT
16251471 TTTTTTTATC
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
31 24 1.00
ACGTcount: A:0.23, C:0.28, G:0.22, T:0.27
Consensus pattern (31 bp):
GCAATTGCTCCCACATTAGGACCTGAACTAG
Found at i:16253255 original size:61 final size:61
Alignment explanation
Indices: 16253161--16253287 Score: 146
Period size: 61 Copynumber: 2.1 Consensus size: 61
16253151 AATTTTTTAA
* * * * * * **
16253161 TTTTTAGAGTTAGGACTAAATTGGCAGATTTTGTAAATGTTGAGGGCCAAATTTATTGAAT
1 TTTTTAGAATTAGAACTAAAATGACAAAATTTGTAAACATTGAGGGCCAAATTTATTGAAT
* * * *
16253222 TTTTTAGAATTAGAACTAAAATGACAAAATTTGTAAACATTTAGGGCTAAATTTGTTGATT
1 TTTTTAGAATTAGAACTAAAATGACAAAATTTGTAAACATTGAGGGCCAAATTTATTGAAT
16253283 TTTTT
1 TTTTT
16253288 TATATTTAGG
Statistics
Matches: 54, Mismatches: 12, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
61 54 1.00
ACGTcount: A:0.34, C:0.06, G:0.18, T:0.42
Consensus pattern (61 bp):
TTTTTAGAATTAGAACTAAAATGACAAAATTTGTAAACATTGAGGGCCAAATTTATTGAAT
Found at i:16257204 original size:9 final size:9
Alignment explanation
Indices: 16257190--16257292 Score: 102
Period size: 9 Copynumber: 11.4 Consensus size: 9
16257180 GTAGTGATTC
16257190 AATTCGGTT
1 AATTCGGTT
16257199 AATTCGGTT
1 AATTCGGTT
*
16257208 AATTCGGGT
1 AATTCGGTT
*
16257217 AATTCGGGT
1 AATTCGGTT
*
16257226 AATTAGGTT
1 AATTCGGTT
*
16257235 AATTCGGGT
1 AATTCGGTT
16257244 AATTCGAG-T
1 AATTCG-GTT
16257253 AATTCGGTT
1 AATTCGGTT
* *
16257262 AATCCAAG-T
1 AATTC-GGTT
*
16257271 AATTAGGTT
1 AATTCGGTT
*
16257280 AATTCAGTT
1 AATTCGGTT
16257289 AATT
1 AATT
16257293 TTTAACCAAA
Statistics
Matches: 78, Mismatches: 12, Indels: 8
0.80 0.12 0.08
Matches are distributed among these distances:
8 2 0.03
9 74 0.95
10 2 0.03
ACGTcount: A:0.29, C:0.10, G:0.22, T:0.39
Consensus pattern (9 bp):
AATTCGGTT
Found at i:16257222 original size:27 final size:27
Alignment explanation
Indices: 16257190--16257292 Score: 127
Period size: 27 Copynumber: 3.8 Consensus size: 27
16257180 GTAGTGATTC
16257190 AATTCGGTTAATTCGGTTAATTCGGGT
1 AATTCGGTTAATTCGGTTAATTCGGGT
* *
16257217 AATTCGGGTAATTAGGTTAATTCGGGT
1 AATTCGGTTAATTCGGTTAATTCGGGT
* **
16257244 AATTCGAG-TAATTCGGTTAATCCAAGT
1 AATTCG-GTTAATTCGGTTAATTCGGGT
* *
16257271 AATTAGGTTAATTCAGTTAATT
1 AATTCGGTTAATTCGGTTAATT
16257293 TTTAACCAAA
Statistics
Matches: 65, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
26 1 0.02
27 63 0.97
28 1 0.02
ACGTcount: A:0.29, C:0.10, G:0.22, T:0.39
Consensus pattern (27 bp):
AATTCGGTTAATTCGGTTAATTCGGGT
Found at i:16260265 original size:24 final size:24
Alignment explanation
Indices: 16260222--16260267 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
16260212 TAATCATAGT
**
16260222 TAAATATATTATGTTAATAAATGC
1 TAAATATATTATACTAATAAATGC
*
16260246 TAAATATATTATACTCATAAAT
1 TAAATATATTATACTAATAAAT
16260268 AATAAATCTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.48, C:0.07, G:0.04, T:0.41
Consensus pattern (24 bp):
TAAATATATTATACTAATAAATGC
Found at i:16260273 original size:24 final size:24
Alignment explanation
Indices: 16260222--16260274 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 24
16260212 TAATCATAGT
** **
16260222 TAAATATATTATGTTAATAAATGC
1 TAAATATATTATACTAATAAATAA
*
16260246 TAAATATATTATACTCATAAATAA
1 TAAATATATTATACTAATAAATAA
16260270 TAAAT
1 TAAAT
16260275 CTTCTAGAAA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.51, C:0.06, G:0.04, T:0.40
Consensus pattern (24 bp):
TAAATATATTATACTAATAAATAA
Found at i:16267140 original size:21 final size:21
Alignment explanation
Indices: 16267116--16267155 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
16267106 CACCTAAAGT
* *
16267116 GGTATTGCAATATCCACTTTA
1 GGTATCGCAATACCCACTTTA
16267137 GGTATCGCAATACCCACTT
1 GGTATCGCAATACCCACTT
16267156 GCCAAGGATC
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:0.28, C:0.25, G:0.15, T:0.33
Consensus pattern (21 bp):
GGTATCGCAATACCCACTTTA
Found at i:16268658 original size:22 final size:22
Alignment explanation
Indices: 16268626--16268687 Score: 70
Period size: 22 Copynumber: 2.8 Consensus size: 22
16268616 TGCATTATGA
16268626 TGCCTACTGATTTACACTACAG
1 TGCCTACTGATTTACACTACAG
* * * *
16268648 TGCGTACTGATTCACATTTCAG
1 TGCCTACTGATTTACACTACAG
* *
16268670 TGCCTACTGCTCTACACT
1 TGCCTACTGATTTACACT
16268688 TTGGTGCCTA
Statistics
Matches: 31, Mismatches: 9, Indels: 0
0.77 0.22 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.23, C:0.29, G:0.15, T:0.34
Consensus pattern (22 bp):
TGCCTACTGATTTACACTACAG
Found at i:16268694 original size:22 final size:22
Alignment explanation
Indices: 16268669--16268721 Score: 70
Period size: 22 Copynumber: 2.4 Consensus size: 22
16268659 TCACATTTCA
* *
16268669 GTGCCTACTGCTCTACACTTTG
1 GTGCCTACTGATCAACACTTTG
*
16268691 GTGCCTATTGATCAACACTTTG
1 GTGCCTACTGATCAACACTTTG
*
16268713 GTGACTACT
1 GTGCCTACT
16268722 ATTTAAAGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.19, C:0.26, G:0.19, T:0.36
Consensus pattern (22 bp):
GTGCCTACTGATCAACACTTTG
Found at i:16285837 original size:33 final size:33
Alignment explanation
Indices: 16285789--16285851 Score: 90
Period size: 33 Copynumber: 1.9 Consensus size: 33
16285779 TGAGAGTGTC
* *
16285789 AGCTGACCTAAGGTTGAGGACGACGACAAACCT
1 AGCTAACCTAAGGTTGAGCACGACGACAAACCT
* *
16285822 AGCTAACCTAGGGTTGAGCACGGCGACAAA
1 AGCTAACCTAAGGTTGAGCACGACGACAAA
16285852 TCTAACTCTA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
33 26 1.00
ACGTcount: A:0.33, C:0.24, G:0.29, T:0.14
Consensus pattern (33 bp):
AGCTAACCTAAGGTTGAGCACGACGACAAACCT
Found at i:16294473 original size:6 final size:6
Alignment explanation
Indices: 16294462--16294498 Score: 56
Period size: 6 Copynumber: 6.0 Consensus size: 6
16294452 ACGACCTGAA
*
16294462 AAAAAT AAAAAT AAAAGT AAAAAAT AAAAAT AAAAAT
1 AAAAAT AAAAAT AAAAAT -AAAAAT AAAAAT AAAAAT
16294499 CGTATCTATA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
6 23 0.82
7 5 0.18
ACGTcount: A:0.81, C:0.00, G:0.03, T:0.16
Consensus pattern (6 bp):
AAAAAT
Found at i:16294484 original size:13 final size:13
Alignment explanation
Indices: 16294462--16294497 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
16294452 ACGACCTGAA
16294462 AAAAAT-AAAAAT
1 AAAAATAAAAAAT
*
16294474 AAAAGTAAAAAAT
1 AAAAATAAAAAAT
16294487 AAAAATAAAAA
1 AAAAATAAAAA
16294498 TCGTATCTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
12 5 0.24
13 16 0.76
ACGTcount: A:0.83, C:0.00, G:0.03, T:0.14
Consensus pattern (13 bp):
AAAAATAAAAAAT
Found at i:16300626 original size:20 final size:19
Alignment explanation
Indices: 16300599--16300643 Score: 63
Period size: 20 Copynumber: 2.3 Consensus size: 19
16300589 TTTAGAATGT
*
16300599 AAAAATTAAATTAAAAAGA
1 AAAAATTAAAATAAAAAGA
*
16300618 AAAATATTAAAATAAAAATA
1 AAAA-ATTAAAATAAAAAGA
16300638 AAAAAT
1 AAAAAT
16300644 GGCTAAATTA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
19 6 0.26
20 17 0.74
ACGTcount: A:0.76, C:0.00, G:0.02, T:0.22
Consensus pattern (19 bp):
AAAAATTAAAATAAAAAGA
Found at i:16305929 original size:17 final size:17
Alignment explanation
Indices: 16305879--16305941 Score: 54
Period size: 17 Copynumber: 3.6 Consensus size: 17
16305869 CTTATCTTTG
*
16305879 GCGAATAAGAATTGCCTA
1 GCGAAT-AGTATTGCCTA
** * *
16305897 GTAAATAGAATAGCCTA
1 GCGAATAGTATTGCCTA
* *
16305914 GCGGATAGTATTGCCTG
1 GCGAATAGTATTGCCTA
16305931 GCGAATAGTAT
1 GCGAATAGTAT
16305942 CACTCGACGG
Statistics
Matches: 35, Mismatches: 10, Indels: 1
0.76 0.22 0.02
Matches are distributed among these distances:
17 31 0.89
18 4 0.11
ACGTcount: A:0.35, C:0.14, G:0.25, T:0.25
Consensus pattern (17 bp):
GCGAATAGTATTGCCTA
Found at i:16315962 original size:20 final size:20
Alignment explanation
Indices: 16315937--16316003 Score: 64
Period size: 20 Copynumber: 3.4 Consensus size: 20
16315927 ATATGGAATC
*
16315937 GCACTTCGGTGCCTCTGTTT
1 GCACTTCGGTGCCTCTGTTA
* * *
16315957 GCACTTCTGTGCCTTTATTCA
1 GCACTTCGGTGCCTCTGTT-A
* *
16315978 -CACTTTGGTGTCTCTGTTA
1 GCACTTCGGTGCCTCTGTTA
16315997 GCACTTC
1 GCACTTC
16316004 TATGCCTCTA
Statistics
Matches: 35, Mismatches: 10, Indels: 4
0.71 0.20 0.08
Matches are distributed among these distances:
19 1 0.03
20 34 0.97
ACGTcount: A:0.10, C:0.28, G:0.19, T:0.42
Consensus pattern (20 bp):
GCACTTCGGTGCCTCTGTTA
Found at i:16318729 original size:16 final size:17
Alignment explanation
Indices: 16318708--16318742 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
16318698 AGATGTGTAA
*
16318708 GTAATGAA-TTAATCAT
1 GTAATGAACTTAAACAT
16318724 GTAATGAACTTAAACAT
1 GTAATGAACTTAAACAT
16318741 GT
1 GT
16318743 TAAGTAGAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 8 0.47
17 9 0.53
ACGTcount: A:0.43, C:0.09, G:0.14, T:0.34
Consensus pattern (17 bp):
GTAATGAACTTAAACAT
Found at i:16328551 original size:82 final size:82
Alignment explanation
Indices: 16328255--16328606 Score: 415
Period size: 81 Copynumber: 4.3 Consensus size: 82
16328245 TAAAAACTAA
** * * *
16328255 AATTGAATAA-TCTGTTCGGGGATTTATTCTCGCTGTTCAACAGATTTTATTCGATTTTGATTTT
1 AATTGAATAATTCTGTTTTGGGATTTATTCCCACTGTTTAACAGATTTTATTCGATTTTGATTTT
* ** *
16328319 GTTTCAAAATGAGAAAT
66 GTTTCCAAACAAGAATT
* * ** *
16328336 AATTGAATAA-ACTGTTTTGGGATTTATTCCCACAGTTTAACAGATTTTATTTTAGTTTGATTTT
1 AATTGAATAATTCTGTTTTGGGATTTATTCCCACTGTTTAACAGATTTTATTCGATTTTGATTTT
*
16328400 GTTTCCAAACGAGAATT
66 GTTTCCAAACAAGAATT
* * * * *
16328417 AATTGAATAATT-TGTTTTGGAATTTATTACCAATGTTTAATAGATTTTATTCGATTGTGATTTT
1 AATTGAATAATTCTGTTTTGGGATTTATTCCCACTGTTTAACAGATTTTATTCGATTTTGATTTT
*
16328481 GTTTCCAAACAAGATTT
66 GTTTCCAAACAAGAATT
* * * *
16328498 AATTAAATAATTCTGTTTCGGGATTTATTCCCTCCGTTTAACAGATTTTATTCGATTTTGATTTT
1 AATTGAATAATTCTGTTTTGGGATTTATTCCCACTGTTTAACAGATTTTATTCGATTTTGATTTT
*
16328563 GTTTCCAAACAAGATTT
66 GTTTCCAAACAAGAATT
* *
16328580 AATT-ATACAATTCTATTTTGGGATTTA
1 AATTGA-ATAATTCTGTTTTGGGATTTA
16328607 ATCCTATCGG
Statistics
Matches: 231, Mismatches: 37, Indels: 5
0.85 0.14 0.02
Matches are distributed among these distances:
81 148 0.64
82 83 0.36
ACGTcount: A:0.29, C:0.11, G:0.14, T:0.46
Consensus pattern (82 bp):
AATTGAATAATTCTGTTTTGGGATTTATTCCCACTGTTTAACAGATTTTATTCGATTTTGATTTT
GTTTCCAAACAAGAATT
Found at i:16332642 original size:51 final size:52
Alignment explanation
Indices: 16332547--16332646 Score: 141
Period size: 51 Copynumber: 1.9 Consensus size: 52
16332537 TCTAAAATCT
16332547 TATTTATTTAATTATTTTCAAATCTGATGTTTTAAATAAATATAAATATAAA
1 TATTTATTTAATTATTTTCAAATCTGATGTTTTAAATAAATATAAATATAAA
** * *
16332599 TATTTATTTTTTTA-TTT-AAATCTGGTGTTTTTACATAAATATAAATAT
1 TATTTATTTAATTATTTTCAAATCTGATG-TTTTAAATAAATATAAATAT
16332647 TTTTTATATT
Statistics
Matches: 43, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
50 9 0.21
51 22 0.51
52 12 0.28
ACGTcount: A:0.39, C:0.04, G:0.05, T:0.52
Consensus pattern (52 bp):
TATTTATTTAATTATTTTCAAATCTGATGTTTTAAATAAATATAAATATAAA
Found at i:16332669 original size:22 final size:22
Alignment explanation
Indices: 16332643--16332692 Score: 68
Period size: 22 Copynumber: 2.3 Consensus size: 22
16332633 ATAAATATAA
16332643 ATATTT-TTTATATTAACTTATTT
1 ATATTTGTTTATA-TAA-TTATTT
16332666 -TATTTGTTTATATAATTATTT
1 ATATTTGTTTATATAATTATTT
16332687 ATATTT
1 ATATTT
16332693 ATATTTGTTC
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
21 6 0.24
22 13 0.52
23 6 0.24
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.66
Consensus pattern (22 bp):
ATATTTGTTTATATAATTATTT
Found at i:16345810 original size:15 final size:16
Alignment explanation
Indices: 16345790--16345819 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
16345780 TGTTCACTGT
16345790 TATTAAATAT-ATATA
1 TATTAAATATGATATA
16345805 TATTAAATATGATAT
1 TATTAAATATGATAT
16345820 TGGTAAGTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (16 bp):
TATTAAATATGATATA
Found at i:16347052 original size:16 final size:18
Alignment explanation
Indices: 16347020--16347052 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
16347010 GCAAAATATG
16347020 TGTGACTTTGTAATTGGT
1 TGTGACTTTGTAATTGGT
16347038 TGTGA-TTTG-AATTGG
1 TGTGACTTTGTAATTGG
16347053 AATTTGATGT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
17 4 0.27
18 5 0.33
ACGTcount: A:0.18, C:0.03, G:0.30, T:0.48
Consensus pattern (18 bp):
TGTGACTTTGTAATTGGT
Found at i:16352777 original size:19 final size:18
Alignment explanation
Indices: 16352747--16352794 Score: 69
Period size: 18 Copynumber: 2.6 Consensus size: 18
16352737 GATTTACATC
*
16352747 TCATTTCATCATTTCGTATT
1 TCATTTC-TCATCTCGTA-T
16352767 TCATTTCTCATCTCGTAT
1 TCATTTCTCATCTCGTAT
16352785 TCATTTCTCA
1 TCATTTCTCA
16352795 ACTTTTCCAT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
18 11 0.41
19 9 0.33
20 7 0.26
ACGTcount: A:0.19, C:0.25, G:0.04, T:0.52
Consensus pattern (18 bp):
TCATTTCTCATCTCGTAT
Found at i:16368029 original size:16 final size:16
Alignment explanation
Indices: 16368008--16368056 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 16
16367998 ATATTTAGTC
16368008 ATATAATAAATTATTA
1 ATATAATAAATTATTA
16368024 ATATAAT---TTATTA
1 ATATAATAAATTATTA
* *
16368037 TTTTAATAAATTATTTA
1 ATATAATAAATTA-TTA
16368054 ATA
1 ATA
16368057 ATTGAATTTT
Statistics
Matches: 25, Mismatches: 4, Indels: 7
0.69 0.11 0.19
Matches are distributed among these distances:
13 11 0.44
16 10 0.40
17 4 0.16
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (16 bp):
ATATAATAAATTATTA
Found at i:16368033 original size:29 final size:30
Alignment explanation
Indices: 16368000--16368056 Score: 73
Period size: 29 Copynumber: 1.9 Consensus size: 30
16367990 AATTATTTAT
16368000 ATTTAGTCA-TATAATAAATTA-TTAATATA
1 ATTTA-TCATTATAATAAATTATTTAATATA
* *
16368029 ATTTATTATTTTAATAAATTATTTAATA
1 ATTTATCATTATAATAAATTATTTAATA
16368057 ATTGAATTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
28 2 0.08
29 16 0.67
30 6 0.25
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.51
Consensus pattern (30 bp):
ATTTATCATTATAATAAATTATTTAATATA
Found at i:16370306 original size:20 final size:20
Alignment explanation
Indices: 16370281--16370326 Score: 74
Period size: 20 Copynumber: 2.3 Consensus size: 20
16370271 TAGTAAAGCT
*
16370281 TAACAACCTATTTAAATAAG
1 TAACAACCTATTTAAATAAA
*
16370301 TAACAACCTATTTGAATAAA
1 TAACAACCTATTTAAATAAA
16370321 TAACAA
1 TAACAA
16370327 AATATTAATA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.52, C:0.15, G:0.04, T:0.28
Consensus pattern (20 bp):
TAACAACCTATTTAAATAAA
Found at i:16370332 original size:20 final size:20
Alignment explanation
Indices: 16370289--16370332 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 20
16370279 CTTAACAACC
* **
16370289 TATTTAAATAAGTAACAACC
1 TATTTAAATAAATAACAAAA
*
16370309 TATTTGAATAAATAACAAAA
1 TATTTAAATAAATAACAAAA
16370329 TATT
1 TATT
16370333 AATAGATTTA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.52, C:0.09, G:0.05, T:0.34
Consensus pattern (20 bp):
TATTTAAATAAATAACAAAA
Found at i:16374758 original size:20 final size:20
Alignment explanation
Indices: 16374733--16374771 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
16374723 TAGTAAAGCT
16374733 TAACAACCTATTTAAATAAG
1 TAACAACCTATTTAAATAAG
*
16374753 TAACAACCTATTTGAATAA
1 TAACAACCTATTTAAATAA
16374772 AAAAACAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.49, C:0.15, G:0.05, T:0.31
Consensus pattern (20 bp):
TAACAACCTATTTAAATAAG
Found at i:16381903 original size:37 final size:38
Alignment explanation
Indices: 16381862--16381938 Score: 95
Period size: 39 Copynumber: 2.0 Consensus size: 38
16381852 ATATTCAATC
16381862 ATTTCATTTTT-TTATTTTT-TTCTAATATAAATATTTT
1 ATTTCATTTTTATTATTTTTATTCTAA-ATAAATATTTT
* * *
16381899 ATTTCCTTTTTCATTATTTTTATTTTAAATATATATTTT
1 ATTTCATTTTT-ATTATTTTTATTCTAAATAAATATTTT
16381938 A
1 A
16381939 CTAGCATATC
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
37 10 0.29
39 19 0.56
40 5 0.15
ACGTcount: A:0.27, C:0.06, G:0.00, T:0.66
Consensus pattern (38 bp):
ATTTCATTTTTATTATTTTTATTCTAAATAAATATTTT
Found at i:16386283 original size:16 final size:15
Alignment explanation
Indices: 16386263--16386309 Score: 58
Period size: 16 Copynumber: 3.0 Consensus size: 15
16386253 TATAATAATT
*
16386263 TTAAATTATATAAAA
1 TTAAAATATATAAAA
*
16386278 TATAAAATATATATAA
1 T-TAAAATATATAAAA
16386294 TTAAAAATATATAAAA
1 TT-AAAATATATAAAA
16386310 AGGCTATAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
15 2 0.07
16 25 0.93
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (15 bp):
TTAAAATATATAAAA
Found at i:16391141 original size:28 final size:28
Alignment explanation
Indices: 16391110--16391169 Score: 111
Period size: 28 Copynumber: 2.1 Consensus size: 28
16391100 TCAATGGACT
*
16391110 TTCCGTTAAAGGTAGTCCTAGGCATAAC
1 TTCCGTTAAAGGTAGTCCTAGGCAGAAC
16391138 TTCCGTTAAAGGTAGTCCTAGGCAGAAC
1 TTCCGTTAAAGGTAGTCCTAGGCAGAAC
16391166 TTCC
1 TTCC
16391170 TCTTCTAATA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.27, C:0.23, G:0.22, T:0.28
Consensus pattern (28 bp):
TTCCGTTAAAGGTAGTCCTAGGCAGAAC
Found at i:16410910 original size:21 final size:21
Alignment explanation
Indices: 16410886--16410928 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
16410876 TCATTCACAA
*
16410886 CTTCAAC-ACGAACGTCTTCCT
1 CTTCAACAAC-AACGTCCTCCT
*
16410907 CTTCCACAACAACGTCCTCCT
1 CTTCAACAACAACGTCCTCCT
16410928 C
1 C
16410929 AACAGCAGAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 17 0.89
22 2 0.11
ACGTcount: A:0.23, C:0.44, G:0.07, T:0.26
Consensus pattern (21 bp):
CTTCAACAACAACGTCCTCCT
Found at i:16412691 original size:5 final size:5
Alignment explanation
Indices: 16412667--16412728 Score: 54
Period size: 5 Copynumber: 12.0 Consensus size: 5
16412657 TTATTCTACA
* * * *
16412667 AAAAT AAAA- ATAAAT AAAAAT AAAAC AAACTT GAAAC AAAAT AAAAT
1 AAAAT AAAAT A-AAAT -AAAAT AAAAT AAA-AT AAAAT AAAAT AAAAT
16412714 AAAAT AAAAT AAAAT
1 AAAAT AAAAT AAAAT
16412729 TACATAATAA
Statistics
Matches: 45, Mismatches: 8, Indels: 8
0.74 0.13 0.13
Matches are distributed among these distances:
4 1 0.02
5 37 0.82
6 6 0.13
7 1 0.02
ACGTcount: A:0.76, C:0.05, G:0.02, T:0.18
Consensus pattern (5 bp):
AAAAT
Found at i:16412735 original size:15 final size:15
Alignment explanation
Indices: 16412667--16412728 Score: 54
Period size: 16 Copynumber: 4.0 Consensus size: 15
16412657 TTATTCTACA
16412667 AAAATAAAA-ATAAAT
1 AAAATAAAATA-AAAT
* *
16412682 AAAAATAAAACAAACTT
1 -AAAATAAAATAAA-AT
* *
16412699 GAAACAAAATAAAAT
1 AAAATAAAATAAAAT
16412714 AAAATAAAATAAAAT
1 AAAATAAAATAAAAT
16412729 TACATAATAA
Statistics
Matches: 37, Mismatches: 7, Indels: 5
0.76 0.14 0.10
Matches are distributed among these distances:
15 14 0.38
16 21 0.57
17 2 0.05
ACGTcount: A:0.76, C:0.05, G:0.02, T:0.18
Consensus pattern (15 bp):
AAAATAAAATAAAAT
Found at i:16422662 original size:12 final size:12
Alignment explanation
Indices: 16422645--16422675 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
16422635 ACATTGAGGG
16422645 TAATGTGTAATT
1 TAATGTGTAATT
16422657 TAATGTGTAATT
1 TAATGTGTAATT
16422669 TAA-GTGT
1 TAATGTGT
16422676 GGGAAGGATG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 4 0.21
12 15 0.79
ACGTcount: A:0.32, C:0.00, G:0.19, T:0.48
Consensus pattern (12 bp):
TAATGTGTAATT
Found at i:16425921 original size:16 final size:15
Alignment explanation
Indices: 16425902--16425931 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
16425892 CTAAAATGTA
16425902 TAAATAAAATTAAATG
1 TAAATAAAA-TAAATG
16425918 TAAATAAAATAAAT
1 TAAATAAAATAAAT
16425932 TTTAAGTTCT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.67, C:0.00, G:0.03, T:0.30
Consensus pattern (15 bp):
TAAATAAAATAAATG
Found at i:16427884 original size:187 final size:189
Alignment explanation
Indices: 16427577--16427924 Score: 447
Period size: 187 Copynumber: 1.9 Consensus size: 189
16427567 GCTCCATTGC
* ** *
16427577 AACTTCAAGGTGATAAGATTTGTTGTTGTAGCTTCATTGTAACCCACTACAACCTTAGGGGGTAT
1 AACTTCAAGGTGATAAGATTTGTAGTTGTAGCTTCATTCCAACCCACTACAACCTTAGAGGGTAT
* * * *
16427642 AAGAATTGTAGTTTCAATCCAATCCACTGCAACTTCAGATATATAGGAGTTGTAGCTTC-ATCT-
66 AAGAATTGTAGCTTCAATCCAATCCACTGCAACTTCAGAGAGATAAGAGTTGTAGCTTCAATCTA
* *
16427705 TGCTCCACTGCAACTTTAGGGAGATAAGATTTGGTATAATAAATTCAATCCAACCCACTAG
131 T--TCCACTGCAACTTCAAGGAGATAAGATTTGGTATAATAAATTCAATCCAACCCACTAG
* * *
16427766 AACTTCAAGG-GTATATGATTTGTAGTTGTAGCTTCATTCCAACTCACTGCAA-CTTA-AGGGTA
1 AACTTCAAGGTG-ATAAGATTTGTAGTTGTAGCTTCATTCCAACCCACTACAACCTTAGAGGGTA
* *** * *
16427828 TAGGAATTGTAGCTTC-ATCTTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTAGCTTCAATC
65 TAAGAATTGTAGCTTCAATC-CAATCCACTGCAACTTCAGAGAGATAAGAGTTGTAGCTTCAATC
16427892 TATTCCACTGCAACTTCAAGGAGATAAGATTTG
129 TATTCCACTGCAACTTCAAGGAGATAAGATTTG
16427925 CTATGGTAGA
Statistics
Matches: 136, Mismatches: 19, Indels: 10
0.82 0.12 0.06
Matches are distributed among these distances:
186 3 0.02
187 79 0.58
188 9 0.07
189 45 0.33
ACGTcount: A:0.30, C:0.19, G:0.19, T:0.32
Consensus pattern (189 bp):
AACTTCAAGGTGATAAGATTTGTAGTTGTAGCTTCATTCCAACCCACTACAACCTTAGAGGGTAT
AAGAATTGTAGCTTCAATCCAATCCACTGCAACTTCAGAGAGATAAGAGTTGTAGCTTCAATCTA
TTCCACTGCAACTTCAAGGAGATAAGATTTGGTATAATAAATTCAATCCAACCCACTAG
Found at i:16427888 original size:44 final size:44
Alignment explanation
Indices: 16427810--16428518 Score: 296
Period size: 44 Copynumber: 15.6 Consensus size: 44
16427800 CATTCCAACT
* * * *
16427810 CACTGCAACTTAAGGG-TATAGGAATTGTAGCTTCATCTTGCTC
1 CACTGCAACTTCAGGGAGATAAGATTTGTAGCTTCATCTTGCTC
16427853 CACTGCAACTTCAGGGAGATAAGATTTGTAGCTTCAATCTAT--TC
1 CACTGCAACTTCAGGGAGATAAGATTTGTAGCTTC-ATCT-TGCTC
* * * *
16427897 CACTGCAACTTCAAGGAGATAAGATTTGCTATGGTAGATTCAAT-TTGATT
1 CACTGCAACTTCAGGGAGATAAGA--T--T-T-GTAGCTTC-ATCTTGCTC
* * * * *
16427947 TACTGCAACTTTATGGG-TATAGGATTTGTAGCTTCAAT-TTGTTC
1 CACTGCAACTTCA-GGGAGATAAGATTTGTAGCTTC-ATCTTGCTC
*
16427991 CACTGCAACTTCAGGGAGATAAGATCTGTAGCTTCAATC-TGCTC
1 CACTGCAACTTCAGGGAGATAAGATTTGTAGCTTC-ATCTTGCTC
* * ***
16428035 CACTGCAACTTCAGAGAGATAAGATTCGCCATAGTAGTTTCATTCCAAC-C
1 CACTGCAACTTCAGGGAGATAAGATT-----T-GTAGCTTCA-TCTTGCTC
* * *
16428085 CACTACAACTTCAAGGG-TATAGAGA-TTGTAGCTTCAATC-TGATC
1 CACTGCAACTTC-AGGGAGATA-AGATTTGTAGCTTC-ATCTTGCTC
* * * * * *
16428129 CACTGCAACTTCATGGATATAGGATTCGTCA-CTTCATCTTTCCC
1 CACTGCAACTTCAGGGAGATAAGATTTGT-AGCTTCATCTTGCTC
* * * * * *
16428173 CACTGTAACTTTAGGGAGACAAGATTTTCCATCGTAGTTTCA--TTCCAAC
1 CACTGCAACTTCAGGGAGATAAGA--TT---T-GTAGCTTCATCTTGC-TC
** *
16428222 CTACTGCAACTTCAGGG-G-TATAGAAAGTGTAGCTTCAATC-TGATC
1 C-ACTGCAACTTCAGGGAGATA-AG-ATTTGTAGCTTC-ATCTTGCTC
* * * *
16428267 CACTGCAACTTCAGGGATATAGGATTTGAAGCTTCATTTTGCTC
1 CACTGCAACTTCAGGGAGATAAGATTTGTAGCTTCATCTTGCTC
* * * * * *
16428311 TACTGTAACTTTAGAGG-GATAAAATTTGCAGTTTCATCTTGCTC
1 CACTGCAACTTCAG-GGAGATAAGATTTGTAGCTTCATCTTGCTC
* * ***
16428355 CACTGCAACTTCAGGGGGATAAGATTTGCCACCGTAGTTTCATTCCAAC-C
1 CACTGCAACTTCAGGGAGATAAGATTT------GTAGCTTCA-TCTTGCTC
* * *
16428405 CACTGTAACTTCAAGGGTATG-GAA-ATTAT-T-GCTTCAATC-TGATC
1 CACTGCAACTTC-AGGG-A-GATAAGATT-TGTAGCTTC-ATCTTGCTC
* *
16428449 CACTGCAACTTCAGGGATATAGGATTTGTAGCTTCATCTTGCTC
1 CACTGCAACTTCAGGGAGATAAGATTTGTAGCTTCATCTTGCTC
**
16428493 CACTGCAACTTCAGAAAGATAAGATT
1 CACTGCAACTTCAGGGAGATAAGATT
16428519 CATTATGGTA
Statistics
Matches: 500, Mismatches: 99, Indels: 133
0.68 0.14 0.18
Matches are distributed among these distances:
42 3 0.01
43 41 0.08
44 299 0.60
45 17 0.03
46 8 0.02
48 7 0.01
49 10 0.02
50 92 0.18
51 19 0.04
52 3 0.01
53 1 0.00
ACGTcount: A:0.28, C:0.21, G:0.19, T:0.32
Consensus pattern (44 bp):
CACTGCAACTTCAGGGAGATAAGATTTGTAGCTTCATCTTGCTC
Found at i:16428006 original size:138 final size:137
Alignment explanation
Indices: 16427649--16428302 Score: 562
Period size: 138 Copynumber: 4.7 Consensus size: 137
16427639 TATAAGAATT
* ** * *
16427649 GTAGTTTCAATCCAATCC-ACTGCAACTTC-AGATATATAGGAGTTGTAGCTTC-ATCTTGCTCC
1 GTAGTTTCATTCCAA-CCTACTGCAACTTCAAG-GGTATAGGAATTGTAGCTTCAATC-TGATCC
* ** ***
16427711 ACTGCAACTTTAGGGAGATAAGATTTGGTATAATAAATTCAATCCAACCCACTAG-AACTTCAAG
63 ACTGCAACTTCAGGGAGATAAGATTT-G-----TAGCTTCAAT-CTTTCCACT-GCAACTTCAAG
* * *
16427775 G-GTATATGATTTG-TAGTT
120 GAG-ATAAGATTTGCCA-TA
* *
16427793 GTAGCTTCATTCCAA-CTCACTGCAACTT-AAGGGTATAGGAATTGTAGCTTC-ATCTTGCTCCA
1 GTAGTTTCATTCCAACCT-ACTGCAACTTCAAGGGTATAGGAATTGTAGCTTCAATC-TGATCCA
16427855 CTGCAACTTCAGGGAGATAAGATTTGTAGCTTCAATCTATTCCACTGCAACTTCAAGGAGATAAG
64 CTGCAACTTCAGGGAGATAAGATTTGTAGCTTCAATCT-TTCCACTGCAACTTCAAGGAGATAAG
* *
16427920 ATTTGCTATG
128 ATTTGCCATA
* ** ** * * * * *
16427930 GTAGATTCAATT-TGATTTACTGCAACTTTATGGGTATAGGATTTGTAGCTTCAATTTGTTCCAC
1 GTAGTTTC-ATTCCAACCTACTGCAACTTCAAGGGTATAGGAATTGTAGCTTCAATCTGATCCAC
* *
16427994 TGCAACTTCAGGGAGATAAGATCTGTAGCTTCAATCTGCTCCACTGCAACTTC-AGAGAGATAAG
65 TGCAACTTCAGGGAGATAAGATTTGTAGCTTCAATCT-TTCCACTGCAACTTCAAG-GAGATAAG
*
16428058 ATTCGCCATA
128 ATTTGCCATA
* *
16428068 GTAGTTTCATTCCAACCCACTACAACTTCAAGGGTATA-GAGATTGTAGCTTCAATCTGATCCAC
1 GTAGTTTCATTCCAACCTACTGCAACTTCAAGGGTATAGGA-ATTGTAGCTTCAATCTGATCCAC
* * * * * * * *
16428132 TGCAACTTCATGGATATAGGATTCGTCA-CTTC-ATCTTTCCCCACTGTAACTTTAGGGAGACAA
65 TGCAACTTCAGGGAGATAAGATTTGT-AGCTTCAATCTTT--CCACTGCAACTTCAAGGAGATAA
* *
16428195 GATTTTCCATC
127 GATTTGCCATA
* * *
16428206 GTAGTTTCATTCCAACCTACTGCAACTTCAGGGGTATAGAAAGTGTAGCTTCAATCTGATCCACT
1 GTAGTTTCATTCCAACCTACTGCAACTTCAAGGGTATAGGAATTGTAGCTTCAATCTGATCCACT
* * *
16428271 GCAACTTCAGGGATATAGGATTTGAAGCTTCA
66 GCAACTTCAGGGAGATAAGATTTGTAGCTTCA
16428303 TTTTGCTCTA
Statistics
Matches: 429, Mismatches: 60, Indels: 47
0.80 0.11 0.09
Matches are distributed among these distances:
136 3 0.01
137 63 0.15
138 279 0.65
139 5 0.01
142 2 0.00
143 52 0.12
144 25 0.06
ACGTcount: A:0.29, C:0.21, G:0.18, T:0.32
Consensus pattern (137 bp):
GTAGTTTCATTCCAACCTACTGCAACTTCAAGGGTATAGGAATTGTAGCTTCAATCTGATCCACT
GCAACTTCAGGGAGATAAGATTTGTAGCTTCAATCTTTCCACTGCAACTTCAAGGAGATAAGATT
TGCCATA
Found at i:16428278 original size:182 final size:180
Alignment explanation
Indices: 16428084--16428506 Score: 503
Period size: 182 Copynumber: 2.3 Consensus size: 180
16428074 TCATTCCAAC
* * *
16428084 CCACTACAACTTCAAGGG-TATAGAGA-TTGTAGCTTCAATCTGATCCACTGCAACTTCATGGAT
1 CCACTGCAACTTC-AGGGATATAG-GATTTGTAGCTTCAATCTGCTCCACTGCAACTTCAGGGAT
* * * * * *
16428147 ATAGGATTCGTCA-CTTCATCTTTCCCCACTGTAACTTTAGGGAGACAAGATTTTCCATCGTAGT
64 A-A-AATTCG-CAGCTTCATCTTGCCCCACTGCAACTTCAGGGAGACAAGATTTGCCACCGTAGT
* * *
16428211 TTCATTCCAACCTACTGCAACTTCAGGGGTATAGAAAGTGTAGCTTCAATCTGAT
126 TTCATTCCAACCCACTGCAACTTCAAGGGTATAGAAAGTATAGCTTCAATCTGAT
* * * * * *
16428266 CCACTGCAACTTCAGGGATATAGGATTTGAAGCTTCATTTTGCTCTACTGTAACTTTAGAGGGAT
1 CCACTGCAACTTCAGGGATATAGGATTTGTAGCTTCAATCTGCTCCACTGCAAC-TT-CAGGGAT
* * * * *
16428331 AAAATTTGCAGTTTCATCTTGCTCCACTGCAACTTCAGGGGGATAAGATTTGCCACCGTAGTTTC
64 AAAATTCGCAGCTTCATCTTGCCCCACTGCAACTTCAGGGAGACAAGATTTGCCACCGTAGTTTC
* * * *
16428396 ATTCCAACCCACTGTAACTTCAAGGGTATGGAAATTATTGCTTCAATCTGAT
129 ATTCCAACCCACTGCAACTTCAAGGGTATAGAAAGTATAGCTTCAATCTGAT
16428448 CCACTGCAACTTCAGGGATATAGGATTTGTAGCTTC-ATCTTGCTCCACTGCAACTTCAG
1 CCACTGCAACTTCAGGGATATAGGATTTGTAGCTTCAATC-TGCTCCACTGCAACTTCAG
16428507 AAAGATAAGA
Statistics
Matches: 202, Mismatches: 33, Indels: 14
0.81 0.13 0.06
Matches are distributed among these distances:
180 2 0.01
181 11 0.05
182 180 0.89
183 3 0.01
184 6 0.03
ACGTcount: A:0.27, C:0.23, G:0.18, T:0.32
Consensus pattern (180 bp):
CCACTGCAACTTCAGGGATATAGGATTTGTAGCTTCAATCTGCTCCACTGCAACTTCAGGGATAA
AATTCGCAGCTTCATCTTGCCCCACTGCAACTTCAGGGAGACAAGATTTGCCACCGTAGTTTCAT
TCCAACCCACTGCAACTTCAAGGGTATAGAAAGTATAGCTTCAATCTGAT
Done.