Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009581.1 Hibiscus syriacus cultivar Beakdansim tig00116958_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 2551150
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 9 of 13
Found at i:1697092 original size:15 final size:15
Alignment explanation
Indices: 1697055--1697093 Score: 60
Period size: 15 Copynumber: 2.6 Consensus size: 15
1697045 ACAAAATCAA
1697055 ATAATTATAGGTCCC
1 ATAATTATAGGTCCC
* *
1697070 TTATTTATAGGTCCC
1 ATAATTATAGGTCCC
1697085 ATAATTATA
1 ATAATTATA
1697094 TAATGGCATA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.33, C:0.15, G:0.10, T:0.41
Consensus pattern (15 bp):
ATAATTATAGGTCCC
Found at i:1707667 original size:27 final size:27
Alignment explanation
Indices: 1707625--1707705 Score: 153
Period size: 27 Copynumber: 3.0 Consensus size: 27
1707615 ACAAATGTCT
1707625 GTTCGGTTTGCTTATGTTCACGAACAA
1 GTTCGGTTTGCTTATGTTCACGAACAA
*
1707652 GTTTGGTTTGCTTATGTTCACGAACAA
1 GTTCGGTTTGCTTATGTTCACGAACAA
1707679 GTTCGGTTTGCTTATGTTCACGAACAA
1 GTTCGGTTTGCTTATGTTCACGAACAA
1707706 ACTCGTTAAT
Statistics
Matches: 52, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 52 1.00
ACGTcount: A:0.22, C:0.17, G:0.22, T:0.38
Consensus pattern (27 bp):
GTTCGGTTTGCTTATGTTCACGAACAA
Found at i:1716528 original size:229 final size:228
Alignment explanation
Indices: 1716128--1716618 Score: 910
Period size: 229 Copynumber: 2.1 Consensus size: 228
1716118 GTTATATTGT
* * *
1716128 AAAGTATCTATCCTTTTTATAAAAGTGTCCATACTTATTTCACTGTGAAAATATATTTATTATTA
1 AAAGTATATATCATTTTTATAAAAGTGTCCATACTTATTTCACTGTGAAAACATATTTATTATTA
* *
1716193 TCTTTTGTTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAATAATCAAAT
66 TCTTTGGTTAATATTGTTAAATTTAAATTATAAATAATATTTTATAAAATATCAAATAATCAAAT
*
1716258 AATTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAA
131 AATTTTTTGTGTAAATGAAAATATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAA
1716323 AAAAATTGAAACATAAATTACATAACTTTAAAA
196 AAAAATTGAAACATAAATTACATAACTTTAAAA
*
1716356 AAAGTATATATCATTTTTATAAAAGTGTACATACTTATTTCACTGTGGAAAACATATTTATTATT
1 AAAGTATATATCATTTTTATAAAAGTGTCCATACTTATTTCACTGT-GAAAACATATTTATTATT
1716421 ATCTTTGGTTAATATTGTTAAATTTAAATTATAAATAATATTTTATAAAATATCAAATAATCAAA
65 ATCTTTGGTTAATATTGTTAAATTTAAATTATAAATAATATTTTATAAAATATCAAATAATCAAA
1716486 TAATTTTTTGTGTAAATGAAAATATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAA
130 TAATTTTTTGTGTAAATGAAAATATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAA
1716551 AAAAAATTGAAACATAAATTACATAACTTTAAAA
195 AAAAAATTGAAACATAAATTACATAACTTTAAAA
1716585 AAAGTATATATCATTTTTATAAAAGTGTCCATAC
1 AAAGTATATATCATTTTTATAAAAGTGTCCATAC
1716619 GTATAAAAGT
Statistics
Matches: 254, Mismatches: 8, Indels: 1
0.97 0.03 0.00
Matches are distributed among these distances:
228 43 0.17
229 211 0.83
ACGTcount: A:0.45, C:0.08, G:0.08, T:0.40
Consensus pattern (228 bp):
AAAGTATATATCATTTTTATAAAAGTGTCCATACTTATTTCACTGTGAAAACATATTTATTATTA
TCTTTGGTTAATATTGTTAAATTTAAATTATAAATAATATTTTATAAAATATCAAATAATCAAAT
AATTTTTTGTGTAAATGAAAATATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAA
AAAAATTGAAACATAAATTACATAACTTTAAAA
Found at i:1716690 original size:20 final size:19
Alignment explanation
Indices: 1716667--1716713 Score: 76
Period size: 20 Copynumber: 2.4 Consensus size: 19
1716657 CGATATACCA
1716667 GGTAAAAATATGATAAAACC
1 GGTAAAAA-ATGATAAAACC
1716687 GGTAACAAAATGATAAAACC
1 GGTAA-AAAATGATAAAACC
1716707 GGTAAAA
1 GGTAAAA
1716714 CGTTACCGGA
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
19 2 0.08
20 21 0.81
21 3 0.12
ACGTcount: A:0.55, C:0.11, G:0.17, T:0.17
Consensus pattern (19 bp):
GGTAAAAAATGATAAAACC
Found at i:1716871 original size:20 final size:19
Alignment explanation
Indices: 1716848--1716894 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 19
1716838 CGATATAACA
1716848 GGTAAAAATATGATAAAACC
1 GGTAAAAA-ATGATAAAACC
* *
1716868 GGTATCAAAATGATAAAACT
1 GGTA-AAAAATGATAAAACC
1716888 GGTAAAA
1 GGTAAAA
1716895 TGATACCGGA
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
19 2 0.09
20 18 0.78
21 3 0.13
ACGTcount: A:0.53, C:0.09, G:0.17, T:0.21
Consensus pattern (19 bp):
GGTAAAAAATGATAAAACC
Found at i:1719130 original size:21 final size:21
Alignment explanation
Indices: 1719106--1719149 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
1719096 AAGACAATCA
1719106 AGAGTCGAAGAGAAACTTGAG
1 AGAGTCGAAGAGAAACTTGAG
* *
1719127 AGAGTCGAAGATACACTTGAG
1 AGAGTCGAAGAGAAACTTGAG
1719148 AG
1 AG
1719150 GCATAAGGGG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.41, C:0.11, G:0.32, T:0.16
Consensus pattern (21 bp):
AGAGTCGAAGAGAAACTTGAG
Found at i:1719225 original size:33 final size:33
Alignment explanation
Indices: 1719183--1719248 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 33
1719173 AAATAGATGG
* *
1719183 AGTGGTGAAAGAAGTAGAGGTGTTGAGGGGTGA
1 AGTGGTGAAACAAGTAGAGGTGTTAAGGGGTGA
* *
1719216 AGTGGTGAAACAAGTTGGGGTGTTAAGGGGTGA
1 AGTGGTGAAACAAGTAGAGGTGTTAAGGGGTGA
1719249 TATTAAGATG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.29, C:0.02, G:0.47, T:0.23
Consensus pattern (33 bp):
AGTGGTGAAACAAGTAGAGGTGTTAAGGGGTGA
Found at i:1720453 original size:4 final size:4
Alignment explanation
Indices: 1720444--1720468 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
1720434 TAAGAGATTG
1720444 GTAT GTAT GTAT GTAT GTAT GTAT G
1 GTAT GTAT GTAT GTAT GTAT GTAT G
1720469 AAAGGACATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.24, C:0.00, G:0.28, T:0.48
Consensus pattern (4 bp):
GTAT
Found at i:1721072 original size:19 final size:19
Alignment explanation
Indices: 1721048--1721096 Score: 80
Period size: 19 Copynumber: 2.6 Consensus size: 19
1721038 AATGTAGGGT
1721048 TAATTTTGTATAAGATTTA
1 TAATTTTGTATAAGATTTA
*
1721067 TAATTTTGTATACGATTTA
1 TAATTTTGTATAAGATTTA
*
1721086 TATTTTTGTAT
1 TAATTTTGTAT
1721097 GTGAATATAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.31, C:0.02, G:0.10, T:0.57
Consensus pattern (19 bp):
TAATTTTGTATAAGATTTA
Found at i:1722088 original size:183 final size:182
Alignment explanation
Indices: 1721780--1722326 Score: 959
Period size: 183 Copynumber: 3.0 Consensus size: 182
1721770 TAAATCCAAC
1721780 ATTTACACATCGGAACCCAGATTTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATA
1 ATTTACACATCGGAACCCAGATTTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATA
1721845 TACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCGACACTTTATAATATTGTGTCGGTACT
66 TACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCGACACTTTATAATATTGTGTCGGTACT
*
1721910 TTATGTCCAGATTGGAAGAAAAATGTGTCGATACATTGTTAAAAAGTGTCGAA
131 TTATGTCCAGATTGGAAGAAAAATGTGTCGATACATT-TAAAAAAGTGTCGAA
* * * * * *
1721963 ATTTACACATCGGAACCCATAATTATAATATAATAGATAAATTTATAATATAACCGATATAAATA
1 ATTTACACATCGGAACCCAGATTTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATA
* *
1722028 TACCGGTTTTATGCGCGAATAGGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACT
66 TACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCGACACTTTATAATATTGTGTCGGTACT
* * *
1722093 TTATGTCCATATTGGAAGAAAAATGTGTCGATACGATTTAAAAAAGTATCGAC
131 TTATGTCCAGATTGGAAGAAAAATGTGTCGATAC-ATTTAAAAAAGTGTCGAA
1722146 ATTTACACATCGGAACCCAGATTTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATA
1 ATTTACACATCGGAACCCAGATTTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATA
1722211 TACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCGACACTTTATAATATTGTGTCGGTACT
66 TACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCGACACTTTATAATATTGTGTCGGTACT
1722276 TTATGTCCAGATTGGAAGAAAAATGTGTCGATACCATTTAAAAAAGTGTCG
131 TTATGTCCAGATTGGAAGAAAAATGTGTCGATA-CATTTAAAAAAGTGTCG
1722327 GTAATTTTAA
Statistics
Matches: 340, Mismatches: 22, Indels: 4
0.93 0.06 0.01
Matches are distributed among these distances:
183 336 0.99
184 4 0.01
ACGTcount: A:0.36, C:0.14, G:0.16, T:0.33
Consensus pattern (182 bp):
ATTTACACATCGGAACCCAGATTTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATA
TACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCGACACTTTATAATATTGTGTCGGTACT
TTATGTCCAGATTGGAAGAAAAATGTGTCGATACATTTAAAAAAGTGTCGAA
Found at i:1724824 original size:25 final size:25
Alignment explanation
Indices: 1724796--1724860 Score: 85
Period size: 25 Copynumber: 2.6 Consensus size: 25
1724786 TTATCATTAA
1724796 ATTTAGGTATGTACAATAACTACAT
1 ATTTAGGTATGTACAATAACTACAT
****
1724821 ATTTAGGTATGTTTGTTAACTACAT
1 ATTTAGGTATGTACAATAACTACAT
*
1724846 ATTTAGGTATATACA
1 ATTTAGGTATGTACA
1724861 TCTTTTGAGT
Statistics
Matches: 32, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
25 32 1.00
ACGTcount: A:0.35, C:0.09, G:0.14, T:0.42
Consensus pattern (25 bp):
ATTTAGGTATGTACAATAACTACAT
Found at i:1725238 original size:23 final size:23
Alignment explanation
Indices: 1725207--1725279 Score: 101
Period size: 23 Copynumber: 3.2 Consensus size: 23
1725197 ATAGGTAAAC
*
1725207 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
* *
1725230 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTAGCGCTT
* *
1725253 ATATAATGTAATAGGTAGTGGTT
1 ATATAATGTAATAGGTAGCGCTT
1725276 ATAT
1 ATAT
1725280 TGTAAAGTAT
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 44 1.00
ACGTcount: A:0.34, C:0.04, G:0.22, T:0.40
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:1725728 original size:18 final size:18
Alignment explanation
Indices: 1725707--1725743 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
1725697 GTAATTGAAG
1725707 TTTGAATTTAAATTTCAA
1 TTTGAATTTAAATTTCAA
* *
1725725 TTTGAGTTTGAATTTCAA
1 TTTGAATTTAAATTTCAA
1725743 T
1 T
1725744 ATATATTTCG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.32, C:0.05, G:0.11, T:0.51
Consensus pattern (18 bp):
TTTGAATTTAAATTTCAA
Found at i:1725751 original size:24 final size:25
Alignment explanation
Indices: 1725688--1725751 Score: 62
Period size: 24 Copynumber: 2.6 Consensus size: 25
1725678 TTTCAAATTC
* *
1725688 ATTTC-ATATGTAATTGAAGTTTGA
1 ATTTCAATATATATTTGAAGTTTGA
* *
1725712 ATTTAAATTTCA-ATTTG-AGTTTGA
1 ATTTCAATAT-ATATTTGAAGTTTGA
1725736 ATTTCAATATATATTT
1 ATTTCAATATATATTT
1725752 CGGCTCCACT
Statistics
Matches: 31, Mismatches: 6, Indels: 6
0.72 0.14 0.14
Matches are distributed among these distances:
23 1 0.03
24 23 0.74
25 7 0.23
ACGTcount: A:0.34, C:0.05, G:0.11, T:0.50
Consensus pattern (25 bp):
ATTTCAATATATATTTGAAGTTTGA
Found at i:1726045 original size:39 final size:39
Alignment explanation
Indices: 1726002--1726088 Score: 129
Period size: 39 Copynumber: 2.2 Consensus size: 39
1725992 TCCGATGCTC
* * *
1726002 ATCAAAATCCAAAGCTCATATGGTGCCAAGCAAAAGGAA
1 ATCAAAATCCAAAGATCATATGATGCCAAACAAAAGGAA
* *
1726041 ATCAAAATTCAAATATCATATGATGCCAAACAAAAGGAA
1 ATCAAAATCCAAAGATCATATGATGCCAAACAAAAGGAA
1726080 ATCAAAATC
1 ATCAAAATC
1726089 TACAACTTGA
Statistics
Matches: 42, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
39 42 1.00
ACGTcount: A:0.51, C:0.18, G:0.13, T:0.18
Consensus pattern (39 bp):
ATCAAAATCCAAAGATCATATGATGCCAAACAAAAGGAA
Found at i:1726541 original size:23 final size:23
Alignment explanation
Indices: 1726510--1726582 Score: 101
Period size: 23 Copynumber: 3.2 Consensus size: 23
1726500 ATAGGTAAAA
*
1726510 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
* *
1726533 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTAGCGCTT
* *
1726556 ATATAATGTAATAGGTAGTGGTT
1 ATATAATGTAATAGGTAGCGCTT
1726579 ATAT
1 ATAT
1726583 TGTAAAGTGT
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 44 1.00
ACGTcount: A:0.34, C:0.04, G:0.22, T:0.40
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:1726787 original size:30 final size:29
Alignment explanation
Indices: 1726723--1726794 Score: 74
Period size: 30 Copynumber: 2.4 Consensus size: 29
1726713 TTTACGTTAC
* *
1726723 AATATATATTATTATTAAATTAAAAATTCTA
1 AATA-ATATT-TTATAAAATTAAAAAATCTA
1726754 AATAATATTTTATAAAATATCAAAAAATC-A
1 AATAATATTTTATAAAAT-T-AAAAAATCTA
*
1726784 AATAATTTTTT
1 AATAATATTTT
1726795 GTGCAAATGA
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
29 8 0.22
30 17 0.47
31 11 0.31
ACGTcount: A:0.53, C:0.04, G:0.00, T:0.43
Consensus pattern (29 bp):
AATAATATTTTATAAAATTAAAAAATCTA
Found at i:1726966 original size:23 final size:23
Alignment explanation
Indices: 1726940--1727012 Score: 92
Period size: 23 Copynumber: 3.2 Consensus size: 23
1726930 ATAGGTAAAA
* *
1726940 ATATGATGTAATAAGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
* *
1726963 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTAGCGCTT
* *
1726986 ATATAATGTAATAGGTAGTGGTT
1 ATATAATGTAATAGGTAGCGCTT
1727009 ATAT
1 ATAT
1727013 TGTAAAGTGT
Statistics
Matches: 43, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 43 1.00
ACGTcount: A:0.36, C:0.04, G:0.21, T:0.40
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:1727107 original size:430 final size:430
Alignment explanation
Indices: 1726307--1727362 Score: 2013
Period size: 430 Copynumber: 2.5 Consensus size: 430
1726297 GTTAATGTTG
*
1726307 TTAAATTAAAAATTCTAAATAATATTTTATAAAATATCAAATAATCAAATAATTTTTTGTGCAAA
1 TTAAATTAAAAATTCTAAATAATATTTTATAAAATATCAAAAAATCAAATAATTTTTTGTGCAAA
*
1726372 TGAAATTATTAAATTAATATTGTAGGTAGAAAACATGAAACACTATTAAAAAAAATTGAAACATA
66 TGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAATTGAAACATA
1726437 AATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAAT
131 AATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAAT
*
1726502 AGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATAATGTAA
196 AGGTAAAAATATGATGTAATAAGTAGCGCTTATATAATGTAATAGGTATCGTTTATATAATGTAA
*
1726567 TAGGTAGTGGTTATATTGTAAAGTGTCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTGT
261 TAGGTAGTGGTTATATTGTAAAGTGTCTATCCTTTTTATAAAAGTGCCCATACTTTTTTCACTGT
*
1726632 GGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGC
326 GAAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGC
*
1726697 GTCTAGTGATTTATTTTTTACGTTACAATATATATTATTA
391 GTCTAATGATTTATTTTTTACGTTACAATATATATTATTA
1726737 TTAAATTAAAAATTCTAAATAATATTTTATAAAATATCAAAAAATCAAATAATTTTTTGTGCAAA
1 TTAAATTAAAAATTCTAAATAATATTTTATAAAATATCAAAAAATCAAATAATTTTTTGTGCAAA
1726802 TGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAATTGAAACATA
66 TGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAATTGAAACATA
1726867 AATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAAT
131 AATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAAT
1726932 AGGTAAAAATATGATGTAATAAGTAGCGCTTATATAATGTAATAGGTATCGTTTATATAATGTAA
196 AGGTAAAAATATGATGTAATAAGTAGCGCTTATATAATGTAATAGGTATCGTTTATATAATGTAA
1726997 TAGGTAGTGGTTATATTGTAAAGTGTCTATCCTTTTTATAAAAGTGCCCATACTTTTTTCACTGT
261 TAGGTAGTGGTTATATTGTAAAGTGTCTATCCTTTTTATAAAAGTGCCCATACTTTTTTCACTGT
1727062 GAAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGC
326 GAAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGC
*
1727127 GTCTAATGATTTATTTTTTACGTTACGATATATATTATTA
391 GTCTAATGATTTATTTTTTACGTTACAATATATATTATTA
*
1727167 TTAAATAAAAAATTCTAAATAATATTTTATAAAATATCAAAAAATCAAATAATTTTTTGTGCAAA
1 TTAAATTAAAAATTCTAAATAATATTTTATAAAATATCAAAAAATCAAATAATTTTTTGTGCAAA
* *
1727232 TGAAATTATTAAATTAATATTGTAGGTGGAAAACATAAAAAACTATTAAAAAAAATTGAAACATA
66 TGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAATTGAAACATA
*
1727297 AATTACATAACTTTAAAAGAAGTATCGATCATTTTTATAAAAAGTATGGACACTTTCAATATAAT
131 AATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAAT
1727362 A
196 A
1727363 TAATGTAATA
Statistics
Matches: 615, Mismatches: 11, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
430 615 1.00
ACGTcount: A:0.43, C:0.08, G:0.12, T:0.38
Consensus pattern (430 bp):
TTAAATTAAAAATTCTAAATAATATTTTATAAAATATCAAAAAATCAAATAATTTTTTGTGCAAA
TGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAATTGAAACATA
AATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAAT
AGGTAAAAATATGATGTAATAAGTAGCGCTTATATAATGTAATAGGTATCGTTTATATAATGTAA
TAGGTAGTGGTTATATTGTAAAGTGTCTATCCTTTTTATAAAAGTGCCCATACTTTTTTCACTGT
GAAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGC
GTCTAATGATTTATTTTTTACGTTACAATATATATTATTA
Found at i:1727201 original size:29 final size:29
Alignment explanation
Indices: 1727158--1727224 Score: 73
Period size: 30 Copynumber: 2.2 Consensus size: 29
1727148 GTTACGATAT
* *
1727158 ATATTATTATTAAATA-AAAAATTCTAAATA
1 ATATT-TTATAAAATACAAAAAATC-AAATA
1727188 ATATTTTATAAAATATCAAAAAATCAAATA
1 ATATTTTATAAAATA-CAAAAAATCAAATA
*
1727218 ATTTTTT
1 ATATTTT
1727225 GTGCAAATGA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
29 9 0.28
30 16 0.50
31 7 0.22
ACGTcount: A:0.54, C:0.04, G:0.00, T:0.42
Consensus pattern (29 bp):
ATATTTTATAAAATACAAAAAATCAAATA
Found at i:1729164 original size:17 final size:18
Alignment explanation
Indices: 1729142--1729190 Score: 91
Period size: 17 Copynumber: 2.8 Consensus size: 18
1729132 CAAAAGTGTC
1729142 ATCATCACCATCTTTG-T
1 ATCATCACCATCTTTGTT
1729159 ATCATCACCATCTTTGTT
1 ATCATCACCATCTTTGTT
1729177 ATCATCACCATCTT
1 ATCATCACCATCTT
1729191 GGGTGTAAAT
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
17 16 0.52
18 15 0.48
ACGTcount: A:0.24, C:0.31, G:0.04, T:0.41
Consensus pattern (18 bp):
ATCATCACCATCTTTGTT
Found at i:1730227 original size:25 final size:23
Alignment explanation
Indices: 1730168--1730228 Score: 61
Period size: 25 Copynumber: 2.5 Consensus size: 23
1730158 TTTTATGATA
*
1730168 AAAG-GTAAATTTATAGAATTTT
1 AAAGAGTAAATTTATAAAATTTT
*
1730190 AGAGAGATCAAATTTATAAAATTTT
1 AAAGAG-T-AAATTTATAAAATTTT
1730215 AAAGAACGTAAATT
1 AAAG-A-GTAAATT
1730229 CAAATTATCA
Statistics
Matches: 31, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
22 3 0.10
23 1 0.03
24 1 0.03
25 23 0.74
26 2 0.06
27 1 0.03
ACGTcount: A:0.49, C:0.03, G:0.13, T:0.34
Consensus pattern (23 bp):
AAAGAGTAAATTTATAAAATTTT
Found at i:1730688 original size:2 final size:2
Alignment explanation
Indices: 1730681--1730778 Score: 59
Period size: 2 Copynumber: 53.0 Consensus size: 2
1730671 AAATAATTAT
* *
1730681 TA TA TA TA TA TA TA TA TA TA TA TA -A TA T- TA -A TA AA TT TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* * * *
1730720 -A TT TA AA T- TA -A TA TA TA TA TA TA TA TA TA -A TT TT TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* * *
1730758 TA TT TA T- TT TA AA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA
1730779 CCCGGCCCGA
Statistics
Matches: 73, Mismatches: 15, Indels: 16
0.70 0.14 0.15
Matches are distributed among these distances:
1 8 0.11
2 65 0.89
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:1730734 original size:44 final size:42
Alignment explanation
Indices: 1730684--1730778 Score: 136
Period size: 44 Copynumber: 2.2 Consensus size: 42
1730674 TAATTATTAT
1730684 ATATATATATATATATATATAATATTAATAAATTTAATTTAA
1 ATATATATATATATATATATAATATTAATAAATTTAATTTAA
* * * *
1730726 ATTAATATATATATATATATATAATTTTTATATATTTATTTTAA
1 A-T-ATATATATATATATATATAATATTAATAAATTTAATTTAA
1730770 ATATATATA
1 ATATATATA
1730779 CCCGGCCCGA
Statistics
Matches: 47, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
42 8 0.17
43 2 0.04
44 37 0.79
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (42 bp):
ATATATATATATATATATATAATATTAATAAATTTAATTTAA
Found at i:1730796 original size:12 final size:12
Alignment explanation
Indices: 1730776--1730806 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
1730766 TTAAATATAT
1730776 ATACCCGGCCCG
1 ATACCCGGCCCG
*
1730788 ATACTCGGCCCG
1 ATACCCGGCCCG
1730800 ATACCCG
1 ATACCCG
1730807 TTTAAATAAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.19, C:0.45, G:0.23, T:0.13
Consensus pattern (12 bp):
ATACCCGGCCCG
Found at i:1732351 original size:21 final size:22
Alignment explanation
Indices: 1732312--1732354 Score: 61
Period size: 23 Copynumber: 2.0 Consensus size: 22
1732302 TCTAAATGAG
1732312 TTGATTTTTTACTTGATAAAAAT
1 TTGATTTTTTA-TTGATAAAAAT
*
1732335 TTGATTTTTT-TTTATAAAAA
1 TTGATTTTTTATTGATAAAAA
1732355 AAAATGACAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 9 0.47
23 10 0.53
ACGTcount: A:0.35, C:0.02, G:0.07, T:0.56
Consensus pattern (22 bp):
TTGATTTTTTATTGATAAAAAT
Found at i:1733087 original size:20 final size:21
Alignment explanation
Indices: 1733062--1733111 Score: 59
Period size: 20 Copynumber: 2.5 Consensus size: 21
1733052 GACCAACAAA
*
1733062 TTCGCAACGCGA-ATTCTAAT
1 TTCGCAACGCCAGATTCTAAT
*
1733082 TTCGCAAC-CCAGCTTCTAAT
1 TTCGCAACGCCAGATTCTAAT
*
1733102 TTCACAACGC
1 TTCGCAACGC
1733112 AATAGTCAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
19 2 0.08
20 22 0.88
21 1 0.04
ACGTcount: A:0.28, C:0.32, G:0.12, T:0.28
Consensus pattern (21 bp):
TTCGCAACGCCAGATTCTAAT
Found at i:1733207 original size:20 final size:19
Alignment explanation
Indices: 1733139--1733243 Score: 72
Period size: 20 Copynumber: 5.3 Consensus size: 19
1733129 TGCGATTTTC
1733139 CAAATTCGCAA-ATCGATAGT
1 CAAATTCGCAACA-CGA-AGT
1733159 CAAATTCGCAACACGAATTTGT
1 CAAATTCGCAACACGAA---GT
1733181 -AAA-TCGCAACACAGAAGT
1 CAAATTCGCAACAC-GAAGT
**
1733199 CAAATTCGCAACGTGATAGT
1 CAAATTCGCAACACGA-AGT
** *
1733219 CAAATTTTCAACGCGAAAGT
1 CAAATTCGCAACACG-AAGT
1733239 CAAAT
1 CAAAT
1733244 GTTTTTACAC
Statistics
Matches: 71, Mismatches: 5, Indels: 18
0.76 0.05 0.19
Matches are distributed among these distances:
18 2 0.03
19 6 0.08
20 53 0.75
21 8 0.11
22 2 0.03
ACGTcount: A:0.41, C:0.21, G:0.15, T:0.23
Consensus pattern (19 bp):
CAAATTCGCAACACGAAGT
Found at i:1733396 original size:22 final size:22
Alignment explanation
Indices: 1733362--1733421 Score: 75
Period size: 22 Copynumber: 2.7 Consensus size: 22
1733352 TCTCACTCTC
* * *
1733362 TCCGGCGACATCCGTCCCCATT
1 TCCGACGAAATCCATCCCCATT
1733384 TCCGACGAAATCCATCCCCATT
1 TCCGACGAAATCCATCCCCATT
**
1733406 TATGACGAAATCCATC
1 TCCGACGAAATCCATC
1733422 TATCTCCATC
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 33 1.00
ACGTcount: A:0.25, C:0.38, G:0.13, T:0.23
Consensus pattern (22 bp):
TCCGACGAAATCCATCCCCATT
Found at i:1735460 original size:21 final size:21
Alignment explanation
Indices: 1735436--1735485 Score: 73
Period size: 21 Copynumber: 2.4 Consensus size: 21
1735426 GTTAGGGGAG
* *
1735436 TTACGTGATGAGGTCGGTGCT
1 TTACGTGATGAGGTCGATACT
*
1735457 TTACGTCATGAGGTCGATACT
1 TTACGTGATGAGGTCGATACT
1735478 TTACGTGA
1 TTACGTGA
1735486 AGACGATAGT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.20, C:0.16, G:0.30, T:0.34
Consensus pattern (21 bp):
TTACGTGATGAGGTCGATACT
Found at i:1735707 original size:4 final size:4
Alignment explanation
Indices: 1735698--1735747 Score: 64
Period size: 4 Copynumber: 12.5 Consensus size: 4
1735688 TTTTTCGGCA
* * * *
1735698 TTAT TTAT TTAT TTAT TTAT TTAT TTAC TGAT TTAT GTAT TAAT TTAT
1 TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT
1735746 TT
1 TT
1735748 TCAGTGGCCC
Statistics
Matches: 38, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
4 38 1.00
ACGTcount: A:0.26, C:0.02, G:0.04, T:0.68
Consensus pattern (4 bp):
TTAT
Found at i:1735945 original size:21 final size:21
Alignment explanation
Indices: 1735900--1735978 Score: 72
Period size: 21 Copynumber: 3.8 Consensus size: 21
1735890 ATCATCATTT
* *
1735900 AAGAGGCGCCTC-CTATCGTTC
1 AAGAGGCCCCTCTC-ATCGATC
1735921 AAGAGGCCCCTCTCATC-ATC
1 AAGAGGCCCCTCTCATCGATC
* * *
1735941 GAAGAAGCCCCTCTCACCGTTC
1 -AAGAGGCCCCTCTCATCGATC
*
1735963 AAGAGGCCCCTATCAT
1 AAGAGGCCCCTCTCAT
1735979 TTAGGGATTT
Statistics
Matches: 47, Mismatches: 8, Indels: 6
0.77 0.13 0.10
Matches are distributed among these distances:
20 2 0.04
21 42 0.89
22 3 0.06
ACGTcount: A:0.24, C:0.37, G:0.19, T:0.20
Consensus pattern (21 bp):
AAGAGGCCCCTCTCATCGATC
Found at i:1736078 original size:19 final size:19
Alignment explanation
Indices: 1736053--1736124 Score: 76
Period size: 19 Copynumber: 3.8 Consensus size: 19
1736043 AAACTAAAAC
1736053 CTGTTGCGAAATT-AAATT
1 CTGTTGCGAAATTGAAATT
1736071 CGTGTTGC-AAATTTGAAATT
1 C-TGTTGCGAAA-TTGAAATT
* *
1736091 CAGTTGCGAATTTGAAATT
1 CTGTTGCGAAATTGAAATT
* *
1736110 CAGTTGCGAATTTGA
1 CTGTTGCGAAATTGA
1736125 CTATCGCATT
Statistics
Matches: 48, Mismatches: 2, Indels: 7
0.84 0.04 0.12
Matches are distributed among these distances:
18 4 0.08
19 36 0.75
20 8 0.17
ACGTcount: A:0.31, C:0.11, G:0.21, T:0.38
Consensus pattern (19 bp):
CTGTTGCGAAATTGAAATT
Found at i:1738129 original size:2 final size:2
Alignment explanation
Indices: 1738122--1738172 Score: 102
Period size: 2 Copynumber: 25.5 Consensus size: 2
1738112 CATTTAAAAC
1738122 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1738164 AT AT AT AT A
1 AT AT AT AT A
1738173 ACTAAGCTAA
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 49 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:1740054 original size:30 final size:30
Alignment explanation
Indices: 1740018--1740098 Score: 85
Period size: 30 Copynumber: 2.7 Consensus size: 30
1740008 CGAAATATAT
1740018 AACTTTTAAAAATTATATTTTTGATCC-CTA
1 AACTTTTAAAAATTATATTTTTGA-CCACTA
* * *
1740048 AACTTTTCAAAATT-TATACTTTGACCATTA
1 AACTTTTAAAAATTATAT-TTTTGACCACTA
* *
1740078 AACTTTCAAAACTTATATTTT
1 AACTTTTAAAAATTATATTTT
1740099 GGTCACTACT
Statistics
Matches: 41, Mismatches: 7, Indels: 6
0.76 0.13 0.11
Matches are distributed among these distances:
29 5 0.12
30 33 0.80
31 3 0.07
ACGTcount: A:0.37, C:0.15, G:0.02, T:0.46
Consensus pattern (30 bp):
AACTTTTAAAAATTATATTTTTGACCACTA
Found at i:1748748 original size:28 final size:29
Alignment explanation
Indices: 1748714--1748780 Score: 84
Period size: 28 Copynumber: 2.3 Consensus size: 29
1748704 TTTCAACATT
*
1748714 TCATTTATTTAA-AGAATAAATATAGTTTA
1 TCATTTATTTAAGAG-ATAAATATAATTTA
*
1748743 T-ATTTATTTAAGAGATAAATCTAATTTA
1 TCATTTATTTAAGAGATAAATATAATTTA
1748771 TCACTTTATT
1 TCA-TTTATT
1748781 ATTTATTATC
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
28 23 0.70
29 4 0.12
30 6 0.18
ACGTcount: A:0.40, C:0.06, G:0.06, T:0.48
Consensus pattern (29 bp):
TCATTTATTTAAGAGATAAATATAATTTA
Found at i:1749389 original size:40 final size:39
Alignment explanation
Indices: 1749302--1749402 Score: 125
Period size: 41 Copynumber: 2.5 Consensus size: 39
1749292 TCTTAATCAT
* *
1749302 TAATTTTATAAATATTTACATTTTTTAGATAATTCTAGATA
1 TAATATTATAAATATTTA-TTTTTTTAGATAATTCTA-ATA
1749343 TAATATTATAAATATTTATTTTTTATAGATAATTCT-ATA
1 TAATATTATAAATATTTATTTTTT-TAGATAATTCTAATA
*
1749382 TACATATTATTAATA-TTATTT
1 TA-ATATTATAAATATTTATTT
1749403 CAATAAAAAA
Statistics
Matches: 55, Mismatches: 3, Indels: 6
0.86 0.05 0.09
Matches are distributed among these distances:
39 11 0.20
40 16 0.29
41 28 0.51
ACGTcount: A:0.40, C:0.04, G:0.03, T:0.53
Consensus pattern (39 bp):
TAATATTATAAATATTTATTTTTTTAGATAATTCTAATA
Found at i:1750826 original size:218 final size:220
Alignment explanation
Indices: 1750415--1750852 Score: 846
Period size: 217 Copynumber: 2.0 Consensus size: 220
1750405 ACTTGTAACT
1750415 AGTTTATTACTAAATCCTCTTATGATAAAATTATTTTTTTTAAAAGTGAAATGATCAAAATAGAA
1 AGTTTATTACTAAATCCTCTTATGATAAAATTATTTTTTTTAAAAGTGAAATGATCAAAATAGAA
1750480 ATGAAAAGAAAGTTGAACCATTAATACAATTTACTCATAATGATAATAATTATCCATGTCATGTT
66 ATGAAAAGAAAGTTGAACCATTAATACAATTTACTCATAATGATAATAATTATCCATGTCATGTT
1750545 ATGCATTGAGTTTTGAGTGCACTAAAGAAAAAATAGTTTAGCGGACTTGTTTTTTTACCTATAGC
131 ATGCATTGAGTTTTGAGTGCACTAAAGAAAAAATAGTTTAGCGGACTTGTTTTTTTACCTATAGC
1750610 -GCG-TATG-AAAAGGTCGCAAGAA
196 GGCGATATGAAAAAGGTCGCAAGAA
1750632 AGTTTATTACTAAATCCTCTTATGATAAAATTATTTTTTTTAAAAGTGAAATGATCAAAATAGAA
1 AGTTTATTACTAAATCCTCTTATGATAAAATTATTTTTTTTAAAAGTGAAATGATCAAAATAGAA
1750697 ATGAAAAGAAAGTTGAACCATTAATACAATTTACTCATAATGATAATAATTTATCCATGTCATGT
66 ATGAAAAGAAAGTTGAACCATTAATACAATTTACTCATAATGATAATAA-TTATCCATGTCATGT
1750762 TATGCATTGAGTTTTGAGTGCACTAAAGAAAAAATAGTTTAGCGGACTTGTTTTTTTACCTATAG
130 TATGCATTGAGTTTTGAGTGCACTAAAGAAAAAATAGTTTAGCGGACTTGTTTTTTTACCTATAG
1750827 CGGCGATATGAAAAAGGTCGCAAGAA
195 CGGCGATATGAAAAAGGTCGCAAGAA
1750853 GTACCGGGCA
Statistics
Matches: 217, Mismatches: 0, Indels: 4
0.98 0.00 0.02
Matches are distributed among these distances:
217 114 0.53
218 81 0.37
219 3 0.01
220 4 0.02
221 15 0.07
ACGTcount: A:0.39, C:0.11, G:0.15, T:0.34
Consensus pattern (220 bp):
AGTTTATTACTAAATCCTCTTATGATAAAATTATTTTTTTTAAAAGTGAAATGATCAAAATAGAA
ATGAAAAGAAAGTTGAACCATTAATACAATTTACTCATAATGATAATAATTATCCATGTCATGTT
ATGCATTGAGTTTTGAGTGCACTAAAGAAAAAATAGTTTAGCGGACTTGTTTTTTTACCTATAGC
GGCGATATGAAAAAGGTCGCAAGAA
Found at i:1751064 original size:41 final size:41
Alignment explanation
Indices: 1751008--1751165 Score: 135
Period size: 40 Copynumber: 3.8 Consensus size: 41
1750998 TTTTTTGGAT
* * *
1751008 ACAAACGTCGCAAAAGGTCTATATCTATAGCGGCGTTTTTA
1 ACAAACGCCGCAAAAAGTCTATATATATAGCGGCGTTTTTA
* * **
1751049 A-AAACACCGCAAAAAGT-TGAGATATATAGTAGCGGTTTTTGA
1 ACAAACGCCGCAAAAAGTCT-ATATATATAGCGGC-GTTTTT-A
* * * *
1751091 TACAAACGTCTCAAAAACTCTATATTTATAGCGGCGTTTTTA
1 -ACAAACGCCGCAAAAAGTCTATATATATAGCGGCGTTTTTA
*
1751133 ACAAACGCCGCAAAAGGT-T-TGATATATAGCGGC
1 ACAAACGCCGCAAAAAGTCTAT-ATATATAGCGGC
1751166 TTAAGACAAC
Statistics
Matches: 90, Mismatches: 20, Indels: 15
0.72 0.16 0.12
Matches are distributed among these distances:
39 2 0.02
40 35 0.39
41 21 0.23
42 2 0.02
43 7 0.08
44 22 0.24
45 1 0.01
ACGTcount: A:0.35, C:0.18, G:0.19, T:0.28
Consensus pattern (41 bp):
ACAAACGCCGCAAAAAGTCTATATATATAGCGGCGTTTTTA
Found at i:1751114 original size:84 final size:85
Alignment explanation
Indices: 1750999--1751161 Score: 240
Period size: 84 Copynumber: 1.9 Consensus size: 85
1750989 ATAACGACTT
**
1750999 TTTTTGGATACAAACGTCGCAAAAGGTCTATATCTATAGCGGCGTTTTTAA-AAACACCGCAAAA
1 TTTTTGGATACAAACGTCGCAAAAACTCTATATCTATAGCGGCGTTTTTAACAAACACCGCAAAA
1751063 AGTTGAGATATATAGTAGCGG
66 AGTT-AGATATATAGTAGCGG
* * *
1751084 TTTTT-GATACAAACGTCTCAAAAACTCTATATTTATAGCGGCGTTTTTAACAAACGCCGCAAAA
1 TTTTTGGATACAAACGTCGCAAAAACTCTATATCTATAGCGGCGTTTTTAACAAACACCGCAAAA
* *
1751148 GGTTTGATATATAG
66 AGTTAGATATATAG
1751162 CGGCTTAAGA
Statistics
Matches: 70, Mismatches: 7, Indels: 3
0.88 0.09 0.04
Matches are distributed among these distances:
84 50 0.71
85 20 0.29
ACGTcount: A:0.35, C:0.16, G:0.18, T:0.31
Consensus pattern (85 bp):
TTTTTGGATACAAACGTCGCAAAAACTCTATATCTATAGCGGCGTTTTTAACAAACACCGCAAAA
AGTTAGATATATAGTAGCGG
Found at i:1752298 original size:18 final size:17
Alignment explanation
Indices: 1752271--1752323 Score: 62
Period size: 17 Copynumber: 3.4 Consensus size: 17
1752261 TTACTTTTTT
1752271 AAAAAGAATATTAATCC
1 AAAAAGAATATTAATCC
1752288 AAAAAGTAATA--AA---
1 AAAAAG-AATATTAATCC
1752301 AAAAAGAATATTAATCC
1 AAAAAGAATATTAATCC
1752318 AAAAAG
1 AAAAAG
1752324 TAATCTAAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 12
0.71 0.00 0.29
Matches are distributed among these distances:
12 4 0.13
13 6 0.20
14 2 0.07
16 2 0.07
17 12 0.40
18 4 0.13
ACGTcount: A:0.66, C:0.08, G:0.08, T:0.19
Consensus pattern (17 bp):
AAAAAGAATATTAATCC
Found at i:1752306 original size:30 final size:30
Alignment explanation
Indices: 1752271--1752327 Score: 114
Period size: 30 Copynumber: 1.9 Consensus size: 30
1752261 TTACTTTTTT
1752271 AAAAAGAATATTAATCCAAAAAGTAATAAA
1 AAAAAGAATATTAATCCAAAAAGTAATAAA
1752301 AAAAAGAATATTAATCCAAAAAGTAAT
1 AAAAAGAATATTAATCCAAAAAGTAAT
1752328 CTAAATCAAG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.65, C:0.07, G:0.07, T:0.21
Consensus pattern (30 bp):
AAAAAGAATATTAATCCAAAAAGTAATAAA
Found at i:1752752 original size:18 final size:19
Alignment explanation
Indices: 1752717--1752754 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 19
1752707 GATGTATGAT
* *
1752717 TTTTTAAATTATATTTAAA
1 TTTTTAAATTAAAGTTAAA
1752736 TTTTTAAA-TAAAGTTAAA
1 TTTTTAAATTAAAGTTAAA
1752754 T
1 T
1752755 GCTTAAATCA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 9 0.53
19 8 0.47
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.53
Consensus pattern (19 bp):
TTTTTAAATTAAAGTTAAA
Found at i:1752981 original size:21 final size:20
Alignment explanation
Indices: 1752933--1752979 Score: 58
Period size: 23 Copynumber: 2.1 Consensus size: 20
1752923 AATTTTTTTG
1752933 AAAATATTTTTTAATTTTAAA
1 AAAAT-TTTTTTAATTTTAAA
1752954 AATAATTTTTTTCATATTTTAAA
1 AA-AATTTTTTT-A-ATTTTAAA
1752977 AAA
1 AAA
1752980 TTCTAAAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
21 8 0.35
22 5 0.22
23 10 0.43
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (20 bp):
AAAATTTTTTTAATTTTAAA
Found at i:1761097 original size:16 final size:17
Alignment explanation
Indices: 1761060--1761104 Score: 56
Period size: 16 Copynumber: 2.6 Consensus size: 17
1761050 GTTTATGAGA
1761060 GAATTGGAATCTGGGAAG
1 GAATTGGAATCT-GGAAG
*
1761078 GAATTGGAATCT-GTAG
1 GAATTGGAATCTGGAAG
*
1761094 GAATTAGAATC
1 GAATTGGAATC
1761105 CAATTCCATA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
16 13 0.52
18 12 0.48
ACGTcount: A:0.36, C:0.07, G:0.31, T:0.27
Consensus pattern (17 bp):
GAATTGGAATCTGGAAG
Found at i:1761937 original size:33 final size:32
Alignment explanation
Indices: 1761882--1761963 Score: 110
Period size: 33 Copynumber: 2.5 Consensus size: 32
1761872 TTTTCACCCT
1761882 AAACCCGAACCCGACCCAAATATCACACTTAAAA
1 AAACCCG-ACCCGACCCAAATATCACACTT-AAA
* * *
1761916 AAACCCGACTCGACCCTAATATCACACTTTAA
1 AAACCCGACCCGACCCAAATATCACACTTAAA
*
1761948 AAACCCGACCTGACCC
1 AAACCCGACCCGACCC
1761964 GAACAAAATA
Statistics
Matches: 43, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
32 16 0.37
33 20 0.47
34 7 0.16
ACGTcount: A:0.40, C:0.38, G:0.07, T:0.15
Consensus pattern (32 bp):
AAACCCGACCCGACCCAAATATCACACTTAAA
Found at i:1761954 original size:249 final size:242
Alignment explanation
Indices: 1761685--1762135 Score: 724
Period size: 249 Copynumber: 1.8 Consensus size: 242
1761675 ACCTGAACCG
* *
1761685 AATATCACACTTAAAAACCCGA-CTCGACCCGAACAAAATAAAGTTTCATCCGACCCGACCCGAA
1 AATATCACACTTAAAAACCCGACCT-GACCCGAACAAAATAAAGTTTCATCCAACCCGACCCAAA
* * *
1761749 TATATGAATTAGAAATCCGACCCGACCCGACCCGAAATAATAAAAAATAATTTTTATTTAATAAA
65 TATATGAATTAGAAATCCAACCCGACCCGACCCGAAATAAT-AAAAA-AA-TATT-TCTAATAAA
*
1761814 AACAGTGACTTAATCCGACCCGACCCGAATTATATATATTTTTGGGTCGGTCCGGATTTTTTCAC
126 AACAGTGACTTAATCCGACCCGACCCGAATTATATATATTTTCGGGTCGGTCC-GATTTTTTCA-
1761879 CCTAAACCCGAACCCGACCCAAATATCACACTTAAAAAAACCCGACTCGACCCT
189 CCTAAACCCGAACCCGACCCAAATATCACACTTAAAAAAACCCGACTCGACCCT
1761933 AATATCACACTTTAAAAACCCGACCTGACCCGAACAAAATAAAGTTTCATCCAACCCGACCCAAA
1 AATATCACAC-TTAAAAACCCGACCTGACCCGAACAAAATAAAGTTTCATCCAACCCGACCCAAA
*
1761998 TATATGAATTAGAAATCCAACCCGACCCTACCCGAAATAATAAAAAAATATTTCTAATAAAAACA
65 TATATGAATTAGAAATCCAACCCGACCCGACCCGAAATAATAAAAAAATATTTCTAATAAAAACA
* * * *
1762063 GTGATTTAATCCGACCCGACCTGAATTATATATATTTTCGGGTCGGTCCGTTTTTTTTACCTAAA
130 GTGACTTAATCCGACCCGACCCGAATTATATATATTTTCGGGTCGGTCCGATTTTTTCACCTAAA
1762128 CCCGAACC
195 CCCGAACC
1762136 GAGCGAACCT
Statistics
Matches: 190, Mismatches: 11, Indels: 9
0.90 0.05 0.04
Matches are distributed among these distances:
243 14 0.07
244 8 0.04
245 58 0.31
246 3 0.02
247 2 0.01
248 15 0.08
249 88 0.46
250 2 0.01
ACGTcount: A:0.38, C:0.27, G:0.11, T:0.24
Consensus pattern (242 bp):
AATATCACACTTAAAAACCCGACCTGACCCGAACAAAATAAAGTTTCATCCAACCCGACCCAAAT
ATATGAATTAGAAATCCAACCCGACCCGACCCGAAATAATAAAAAAATATTTCTAATAAAAACAG
TGACTTAATCCGACCCGACCCGAATTATATATATTTTCGGGTCGGTCCGATTTTTTCACCTAAAC
CCGAACCCGACCCAAATATCACACTTAAAAAAACCCGACTCGACCCT
Found at i:1762176 original size:57 final size:59
Alignment explanation
Indices: 1762088--1762198 Score: 208
Period size: 57 Copynumber: 1.9 Consensus size: 59
1762078 CCGACCTGAA
1762088 TTATATATATTTTCGGGTCGGTCCGTTTTTTTTA-CCTAAACCCGAA-CCGAGCGAACC
1 TTATATATATTTTCGGGTCGGTCCGTTTTTTTTACCCTAAACCCGAACCCGAGCGAACC
1762145 TTATATATATTTTCGGGTCGGTCCGTTTTTTTTACCCTAAACCCGAACCCGAGC
1 TTATATATATTTTCGGGTCGGTCCGTTTTTTTTACCCTAAACCCGAACCCGAGC
1762199 CGACCCGAAT
Statistics
Matches: 52, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
57 34 0.65
58 12 0.23
59 6 0.12
ACGTcount: A:0.22, C:0.25, G:0.17, T:0.36
Consensus pattern (59 bp):
TTATATATATTTTCGGGTCGGTCCGTTTTTTTTACCCTAAACCCGAACCCGAGCGAACC
Found at i:1763247 original size:13 final size:13
Alignment explanation
Indices: 1763210--1763249 Score: 55
Period size: 14 Copynumber: 3.1 Consensus size: 13
1763200 TTTATATTGA
1763210 AAAATAAATA-TT
1 AAAATAAATATTT
*
1763222 AAAATAATTTATTT
1 AAAATAA-ATATTT
1763236 AAAATAAATATTT
1 AAAATAAATATTT
1763249 A
1 A
1763250 TTTATTATAT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
12 7 0.29
13 8 0.33
14 9 0.38
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (13 bp):
AAAATAAATATTT
Found at i:1764675 original size:3 final size:3
Alignment explanation
Indices: 1764667--1764735 Score: 84
Period size: 3 Copynumber: 23.0 Consensus size: 3
1764657 TATATTTATT
* * * *
1764667 TAA TAA TAA TAA TCA TAA TAA TAT TTA TAA TAA TAA TAA TAA TAA TTA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* *
1764715 TAG TAA TAA TAA TTA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA
1764736 ATTAATATGG
Statistics
Matches: 54, Mismatches: 12, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
3 54 1.00
ACGTcount: A:0.58, C:0.01, G:0.01, T:0.39
Consensus pattern (3 bp):
TAA
Found at i:1765196 original size:116 final size:113
Alignment explanation
Indices: 1765059--1765697 Score: 926
Period size: 116 Copynumber: 5.6 Consensus size: 113
1765049 GATAGAATTA
* *
1765059 TTGAACAAGTTCTTCTTATTATGAACTTCTTCTTCCTTCTTCAGATGACGAGTTCTTCTTATTAT
1 TTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGAT---GAGTTCTTCTCATTAT
1765124 GAACTCTACCTGGCAATGTTGATCCATCAAATGATGAATTCAAGCAAAAGG
63 GAACTCTACCTGGCAATGTTGATCCATCAAATGATGAATTCAAGCAAAAGG
1765175 TTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGACGAGTTCTTCTCATTAT
1 TTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGAT---GAGTTCTTCTCATTAT
1765240 GAACTCTACCTGGCAATGTTGATCCATCAAATGATGAATTCAAGCAAAAGG
63 GAACTCTACCTGGCAATGTTGATCCATCAAATGATGAATTCAAGCAAAAGG
1765291 TTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGACGAGTTCTTCTCATTAT
1 TTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGAT---GAGTTCTTCTCATTAT
1765356 GAACTCTACCTGGCAATGTTGATCCATCAAATGATGAATTCAAGCAAAAGG
63 GAACTCTACCTGGCAATGTTGATCCATCAAATGATGAATTCAAGCAAAAGG
1765407 TTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAA
1 TTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAA
* * * * * *** * **
1765472 CT-T-CTTTGGAAAAGCTGCTCCATCTGGTGATGGATTTGAGCAAAAGG
66 CTCTAC-CTGGCAATGTTGATCCATCAAATGATGAATTCAAGCAAAAGG
1765519 TTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAA
1 TTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAA
* * * * *** * **
1765584 CT-T-CTCTGGAAAAGCTGCTCCATCTGGTGATGGATTTGAGCAAAAGG
66 CTCTAC-CTGGCAATGTTGATCCATCAAATGATGAATTCAAGCAAAAGG
* *
1765631 TTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAA
1 TTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAA
1765696 CT
66 CT
1765698 TTTTCTGGAA
Statistics
Matches: 506, Mismatches: 16, Indels: 6
0.96 0.03 0.01
Matches are distributed among these distances:
111 1 0.00
112 208 0.41
113 21 0.04
116 276 0.55
ACGTcount: A:0.26, C:0.21, G:0.15, T:0.38
Consensus pattern (113 bp):
TTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAA
CTCTACCTGGCAATGTTGATCCATCAAATGATGAATTCAAGCAAAAGG
Found at i:1766667 original size:82 final size:82
Alignment explanation
Indices: 1766529--1766855 Score: 575
Period size: 82 Copynumber: 4.0 Consensus size: 82
1766519 TTTACTATGA
*
1766529 GCAAATTCATCTTCCAAATTCAATGATTGGTTCTGTCCAACCAGATCAGATAACTCAAAGAACAC
1 GCAAATTCATCTTCTAAATTCAATGATT-GTTCTGTCCAACCAGATCAGATAACTCAAAGAACAC
*
1766594 TTCCAGAAGATGATATTG
65 TTCCAGAAGATGCTATTG
1766612 GCAAATTCATCTTCTAAATTCAATGATTGTTCTGTCCAACCAGATCAGATAACTCAAAGAACACT
1 GCAAATTCATCTTCTAAATTCAATGATTGTTCTGTCCAACCAGATCAGATAACTCAAAGAACACT
* *
1766677 TTCAGAAAATGCTA-TG
66 TCCAGAAGATGCTATTG
*
1766693 AGCACATTCATCTTCTAAATTCAATGATTGTTCTGTCCAACCAGATCAGATAACTCAAAGAACAC
1 -GCAAATTCATCTTCTAAATTCAATGATTGTTCTGTCCAACCAGATCAGATAACTCAAAGAACAC
1766758 TTCCAGAAGATGCTATTG
65 TTCCAGAAGATGCTATTG
*
1766776 GCAAATTCATCTTCTAAATTCAATGATTGGTCTGTCCAACCAGATCAGATAACTCAAAGAACACT
1 GCAAATTCATCTTCTAAATTCAATGATTGTTCTGTCCAACCAGATCAGATAACTCAAAGAACACT
1766841 TCCAGAAGATGCTAT
66 TCCAGAAGATGCTAT
1766856 GAGCACATTC
Statistics
Matches: 233, Mismatches: 9, Indels: 5
0.94 0.04 0.02
Matches are distributed among these distances:
81 2 0.01
82 202 0.87
83 29 0.12
ACGTcount: A:0.36, C:0.22, G:0.13, T:0.28
Consensus pattern (82 bp):
GCAAATTCATCTTCTAAATTCAATGATTGTTCTGTCCAACCAGATCAGATAACTCAAAGAACACT
TCCAGAAGATGCTATTG
Found at i:1768024 original size:11 final size:10
Alignment explanation
Indices: 1768008--1768076 Score: 74
Period size: 10 Copynumber: 7.1 Consensus size: 10
1767998 CTTGACCCCC
1768008 CTTTTTTC-T
1 CTTTTTTCTT
1768017 CTCTTTTT-TT
1 CT-TTTTTCTT
*
1768027 CTTTTTTTTT
1 CTTTTTTCTT
1768037 CTTTTTTCTT
1 CTTTTTTCTT
*
1768047 -TTTTCT-TT
1 CTTTTTTCTT
1768055 CTTTTTTCTTT
1 CTTTTTTC-TT
1768066 CTTTTTTCTT
1 CTTTTTTCTT
1768076 C
1 C
1768077 AAGCATAATA
Statistics
Matches: 51, Mismatches: 3, Indels: 11
0.78 0.05 0.17
Matches are distributed among these distances:
8 2 0.04
9 17 0.33
10 22 0.43
11 10 0.20
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (10 bp):
CTTTTTTCTT
Found at i:1768031 original size:18 final size:17
Alignment explanation
Indices: 1768021--1768075 Score: 65
Period size: 18 Copynumber: 3.1 Consensus size: 17
1768011 TTTTCTCTCT
*
1768021 TTTTTTCTTTTTTTTTC
1 TTTTTTCTCTTTTTTTC
*
1768038 TTTTTTCTTTTTTCTTTC
1 TTTTTTCTCTTTT-TTTC
*
1768056 TTTTTTCTTTCTTTTTTC
1 TTTTTTCTCT-TTTTTTC
1768074 TT
1 TT
1768076 CAAGCATAAT
Statistics
Matches: 36, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
17 13 0.36
18 20 0.56
19 3 0.08
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (17 bp):
TTTTTTCTCTTTTTTTC
Found at i:1768033 original size:7 final size:7
Alignment explanation
Indices: 1768031--1768075 Score: 65
Period size: 7 Copynumber: 6.3 Consensus size: 7
1768021 TTTTTTCTTT
1768031 TTTTTTC
1 TTTTTTC
1768038 TTTTTTC
1 TTTTTTC
1768045 TTTTTTC
1 TTTTTTC
1768052 TTTCTTT-
1 TTT-TTTC
1768059 TTTCTTTC
1 TTT-TTTC
1768067 TTTTTTC
1 TTTTTTC
1768074 TT
1 TT
1768076 CAAGCATAAT
Statistics
Matches: 36, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
7 30 0.83
8 6 0.17
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (7 bp):
TTTTTTC
Found at i:1778729 original size:19 final size:18
Alignment explanation
Indices: 1778679--1778729 Score: 50
Period size: 19 Copynumber: 2.7 Consensus size: 18
1778669 CTCTGACAGA
1778679 AAAATAAATAATAAAAT-
1 AAAATAAATAATAAAATG
**
1778696 AAAATACTTGCAATAAAATG
1 AAAATAAAT--AATAAAATG
1778716 AAATATAAATAATA
1 AAA-ATAAATAATA
1778730 TATATAAATA
Statistics
Matches: 26, Mismatches: 4, Indels: 6
0.72 0.11 0.17
Matches are distributed among these distances:
17 7 0.27
19 12 0.46
20 3 0.12
21 4 0.15
ACGTcount: A:0.67, C:0.04, G:0.04, T:0.25
Consensus pattern (18 bp):
AAAATAAATAATAAAATG
Found at i:1778751 original size:22 final size:24
Alignment explanation
Indices: 1778722--1778774 Score: 70
Period size: 25 Copynumber: 2.1 Consensus size: 24
1778712 AATGAAATAT
* *
1778722 AAATAATATATATAAATACTATAAA
1 AAATAGTATATATATATA-TATAAA
1778747 AAATATGTATATATATATATATAAA
1 AAATA-GTATATATATATATATAAA
1778772 AAA
1 AAA
1778775 AAGAATTATA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 14 0.56
26 11 0.44
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.34
Consensus pattern (24 bp):
AAATAGTATATATATATATATAAA
Found at i:1779460 original size:13 final size:13
Alignment explanation
Indices: 1779423--1779462 Score: 55
Period size: 14 Copynumber: 3.1 Consensus size: 13
1779413 TTGATATTGA
1779423 AAAATAAATA-TT
1 AAAATAAATATTT
*
1779435 AAAATAATTTATTT
1 AAAATAA-ATATTT
1779449 AAAATAAATATTT
1 AAAATAAATATTT
1779462 A
1 A
1779463 TTTATTATAT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
12 7 0.29
13 8 0.33
14 9 0.38
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (13 bp):
AAAATAAATATTT
Found at i:1780910 original size:3 final size:3
Alignment explanation
Indices: 1780902--1780977 Score: 98
Period size: 3 Copynumber: 25.0 Consensus size: 3
1780892 TATATTTATT
*
1780902 TAA TAA TAA TAA TAA TAA TATA TTA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA
* * * *
1780948 TAA TTA TTA TAG TAA TAA TAA TTA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1780978 ATTAATATGG
Statistics
Matches: 64, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
3 62 0.97
4 2 0.03
ACGTcount: A:0.59, C:0.00, G:0.01, T:0.39
Consensus pattern (3 bp):
TAA
Found at i:1783757 original size:4 final size:4
Alignment explanation
Indices: 1783735--1783778 Score: 52
Period size: 4 Copynumber: 11.0 Consensus size: 4
1783725 AATAACATGA
* * * *
1783735 TATG CATG TATG TAGG TATG TATG TATG TAGG TATG TATA TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1783779 GTTAGTATCC
Statistics
Matches: 32, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
4 32 1.00
ACGTcount: A:0.27, C:0.02, G:0.27, T:0.43
Consensus pattern (4 bp):
TATG
Found at i:1783759 original size:16 final size:16
Alignment explanation
Indices: 1783735--1783778 Score: 70
Period size: 16 Copynumber: 2.8 Consensus size: 16
1783725 AATAACATGA
*
1783735 TATGCATGTATGTAGG
1 TATGTATGTATGTAGG
1783751 TATGTATGTATGTAGG
1 TATGTATGTATGTAGG
*
1783767 TATGTATATATG
1 TATGTATGTATG
1783779 GTTAGTATCC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 26 1.00
ACGTcount: A:0.27, C:0.02, G:0.27, T:0.43
Consensus pattern (16 bp):
TATGTATGTATGTAGG
Found at i:1784001 original size:2 final size:2
Alignment explanation
Indices: 1783994--1784043 Score: 100
Period size: 2 Copynumber: 25.0 Consensus size: 2
1783984 ATTGTAGTCC
1783994 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1784036 AT AT AT AT
1 AT AT AT AT
1784044 CAATTTTAAA
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 48 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1790286 original size:28 final size:28
Alignment explanation
Indices: 1790250--1790306 Score: 96
Period size: 28 Copynumber: 2.0 Consensus size: 28
1790240 TTTCAACCCT
*
1790250 CCTACAATTTTATAAGTTCAAGTTTGCC
1 CCTAAAATTTTATAAGTTCAAGTTTGCC
*
1790278 CCTAAAATTTTATAATTTCAAGTTTGCC
1 CCTAAAATTTTATAAGTTCAAGTTTGCC
1790306 C
1 C
1790307 TTAACATAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.30, C:0.21, G:0.09, T:0.40
Consensus pattern (28 bp):
CCTAAAATTTTATAAGTTCAAGTTTGCC
Found at i:1791411 original size:15 final size:17
Alignment explanation
Indices: 1791391--1791428 Score: 53
Period size: 18 Copynumber: 2.3 Consensus size: 17
1791381 CGATACTCAT
1791391 GATACT-CATG-GTATC
1 GATACTCCATGAGTATC
1791406 GATACTCCCATGAGTATC
1 GATACT-CCATGAGTATC
1791424 GATAC
1 GATAC
1791429 CAAAATTGTA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
15 6 0.30
17 4 0.20
18 10 0.50
ACGTcount: A:0.29, C:0.24, G:0.18, T:0.29
Consensus pattern (17 bp):
GATACTCCATGAGTATC
Found at i:1798427 original size:42 final size:42
Alignment explanation
Indices: 1798380--1798460 Score: 135
Period size: 42 Copynumber: 1.9 Consensus size: 42
1798370 GTCATTGTTA
* *
1798380 CAACAAGAAAATGAGGCTTTGACGAAGACAAAGAAGAAAAAT
1 CAACAAGAAAATGAGGATTTGAAGAAGACAAAGAAGAAAAAT
*
1798422 CAACAAGAAAATGAGGATTTGAAGAAGACAAGGAAGAAA
1 CAACAAGAAAATGAGGATTTGAAGAAGACAAAGAAGAAA
1798461 GATCCACCAA
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 36 1.00
ACGTcount: A:0.56, C:0.10, G:0.23, T:0.11
Consensus pattern (42 bp):
CAACAAGAAAATGAGGATTTGAAGAAGACAAAGAAGAAAAAT
Found at i:1801262 original size:18 final size:18
Alignment explanation
Indices: 1801228--1801263 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
1801218 TTGAAGAAGA
**
1801228 GCAAGATGTGATTCCTCC
1 GCAAGATGTGAACCCTCC
1801246 GCAAGATGTGAACCCTCC
1 GCAAGATGTGAACCCTCC
1801264 ACAGGATATG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.25, C:0.31, G:0.22, T:0.22
Consensus pattern (18 bp):
GCAAGATGTGAACCCTCC
Found at i:1807359 original size:19 final size:20
Alignment explanation
Indices: 1807317--1807378 Score: 63
Period size: 20 Copynumber: 3.1 Consensus size: 20
1807307 AAAACCAGAA
*
1807317 CCCTATGGGGGTATCGATTC
1 CCCTATGGGGGAATCGATTC
* *
1807337 CCCTGTGGGGGAATCGGTT-
1 CCCTATGGGGGAATCGATTC
* *
1807356 CCCTCAAGGGGGGATCGATTC
1 CCCT-ATGGGGGAATCGATTC
1807377 CC
1 CC
1807379 TCTGCACCAA
Statistics
Matches: 33, Mismatches: 7, Indels: 3
0.77 0.16 0.07
Matches are distributed among these distances:
19 4 0.12
20 27 0.82
21 2 0.06
ACGTcount: A:0.15, C:0.27, G:0.34, T:0.24
Consensus pattern (20 bp):
CCCTATGGGGGAATCGATTC
Found at i:1814438 original size:22 final size:21
Alignment explanation
Indices: 1814413--1814494 Score: 103
Period size: 22 Copynumber: 3.9 Consensus size: 21
1814403 GGAATCGGTA
*
1814413 CCCCCTGAGGGGGAATCTATT
1 CCCCCTGGGGGGGAATCTATT
** *
1814434 CCCCCT-GGGGGGAATCGGTA
1 CCCCCTGGGGGGGAATCTATT
*
1814454 CCCCCTGGGAGGGGAATCTGTT
1 CCCCCTGGG-GGGGAATCTATT
1814476 CCCCCTGGGGGGGAATCTA
1 CCCCCTGGGGGGGAATCTA
1814495 ATTTTTCTTG
Statistics
Matches: 52, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
20 16 0.31
21 17 0.33
22 19 0.37
ACGTcount: A:0.16, C:0.29, G:0.35, T:0.20
Consensus pattern (21 bp):
CCCCCTGGGGGGGAATCTATT
Found at i:1814456 original size:41 final size:43
Alignment explanation
Indices: 1814400--1814492 Score: 154
Period size: 41 Copynumber: 2.2 Consensus size: 43
1814390 CCGTTAGACA
1814400 GGGGGAATCGGTACCCCCTGAG-GGGGAATCTATTCCCCCT-G
1 GGGGGAATCGGTACCCCCTGAGAGGGGAATCTATTCCCCCTGG
* *
1814441 GGGGGAATCGGTACCCCCTGGGAGGGGAATCTGTTCCCCCTGG
1 GGGGGAATCGGTACCCCCTGAGAGGGGAATCTATTCCCCCTGG
1814484 GGGGGAATC
1 GGGGGAATC
1814493 TAATTTTTCT
Statistics
Matches: 48, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
41 21 0.44
42 17 0.35
43 10 0.21
ACGTcount: A:0.16, C:0.27, G:0.39, T:0.18
Consensus pattern (43 bp):
GGGGGAATCGGTACCCCCTGAGAGGGGAATCTATTCCCCCTGG
Found at i:1814493 original size:21 final size:21
Alignment explanation
Indices: 1814400--1814493 Score: 118
Period size: 21 Copynumber: 4.5 Consensus size: 21
1814390 CCGTTAGACA
* *
1814400 GGGGGAATCGGTACCCCCTGA
1 GGGGGAATCTGTACCCCCTGG
* *
1814421 GGGGGAATCTATTCCCCCT-G
1 GGGGGAATCTGTACCCCCTGG
*
1814441 GGGGGAATCGGTACCCCCTGG
1 GGGGGAATCTGTACCCCCTGG
*
1814462 GAGGGGAATCTGTTCCCCCTGG
1 G-GGGGAATCTGTACCCCCTGG
1814484 GGGGGAATCT
1 GGGGGAATCT
1814494 AATTTTTCTT
Statistics
Matches: 62, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
20 16 0.26
21 27 0.44
22 19 0.31
ACGTcount: A:0.16, C:0.27, G:0.38, T:0.19
Consensus pattern (21 bp):
GGGGGAATCTGTACCCCCTGG
Found at i:1814863 original size:24 final size:24
Alignment explanation
Indices: 1814834--1814896 Score: 126
Period size: 24 Copynumber: 2.6 Consensus size: 24
1814824 CCCCCTTACT
1814834 TTAACACTTCTCCCCTTTAACACC
1 TTAACACTTCTCCCCTTTAACACC
1814858 TTAACACTTCTCCCCTTTAACACC
1 TTAACACTTCTCCCCTTTAACACC
1814882 TTAACACTTCTCCCC
1 TTAACACTTCTCCCC
1814897 CTTTTTGTTA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 39 1.00
ACGTcount: A:0.24, C:0.43, G:0.00, T:0.33
Consensus pattern (24 bp):
TTAACACTTCTCCCCTTTAACACC
Found at i:1816015 original size:21 final size:20
Alignment explanation
Indices: 1815978--1816060 Score: 130
Period size: 20 Copynumber: 4.1 Consensus size: 20
1815968 CCGTTAGACA
*
1815978 GGGGGAATCGGTACCCCCTG
1 GGGGGAATCTGTACCCCCTG
* *
1815998 GGGGGAATCTGTTCCCCCTA
1 GGGGGAATCTGTACCCCCTG
1816018 GGGGGAATCTGTACCCCCTG
1 GGGGGAATCTGTACCCCCTG
1816038 GGGGGAAATCTGTACCCCCTG
1 GGGGG-AATCTGTACCCCCTG
1816059 GG
1 GG
1816061 CAATCTGATT
Statistics
Matches: 57, Mismatches: 5, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
20 40 0.70
21 17 0.30
ACGTcount: A:0.16, C:0.29, G:0.36, T:0.19
Consensus pattern (20 bp):
GGGGGAATCTGTACCCCCTG
Found at i:1823228 original size:18 final size:18
Alignment explanation
Indices: 1823189--1823228 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
1823179 AATATTTTTT
* *
1823189 AAAATTTTTAAAAGAAAT
1 AAAATTTATAAAAGAAAA
*
1823207 AAAATTTATAAAATAAAA
1 AAAATTTATAAAAGAAAA
1823225 AAAA
1 AAAA
1823229 ATAGATGGAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.70, C:0.00, G:0.03, T:0.28
Consensus pattern (18 bp):
AAAATTTATAAAAGAAAA
Found at i:1825507 original size:16 final size:16
Alignment explanation
Indices: 1825483--1825513 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
1825473 CAACAACTAT
1825483 AAACAAATAGTTTTTC
1 AAACAAATAGTTTTTC
*
1825499 AAACGAATAGTTTTT
1 AAACAAATAGTTTTT
1825514 TAAGGTAACG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.10, G:0.10, T:0.39
Consensus pattern (16 bp):
AAACAAATAGTTTTTC
Found at i:1831911 original size:14 final size:14
Alignment explanation
Indices: 1831892--1831926 Score: 61
Period size: 14 Copynumber: 2.5 Consensus size: 14
1831882 ATCGATTACC
*
1831892 GATGCCAAGAATAG
1 GATGCCAAAAATAG
1831906 GATGCCAAAAATAG
1 GATGCCAAAAATAG
1831920 GATGCCA
1 GATGCCA
1831927 CATTAGTAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.43, C:0.17, G:0.26, T:0.14
Consensus pattern (14 bp):
GATGCCAAAAATAG
Found at i:1833120 original size:21 final size:20
Alignment explanation
Indices: 1833093--1833190 Score: 88
Period size: 20 Copynumber: 4.8 Consensus size: 20
1833083 AATCAGTGTC
1833093 CAAAATCGCAACGCGATTCTT
1 CAAAATCGCAACGCGATT-TT
* * **
1833114 GAAAATCGCAATGCGATAGT
1 CAAAATCGCAACGCGATTTT
* **
1833134 CAAATTCGCATTGCGATTTT
1 CAAAATCGCAACGCGATTTT
* *
1833154 CCAAAATCGCAACGCGAATAT
1 -CAAAATCGCAACGCGATTTT
*
1833175 GAAAATCGCAACGCGA
1 CAAAATCGCAACGCGA
1833191 ACACATAAAT
Statistics
Matches: 61, Mismatches: 15, Indels: 3
0.77 0.19 0.04
Matches are distributed among these distances:
20 31 0.51
21 30 0.49
ACGTcount: A:0.37, C:0.23, G:0.18, T:0.21
Consensus pattern (20 bp):
CAAAATCGCAACGCGATTTT
Found at i:1833143 original size:41 final size:41
Alignment explanation
Indices: 1833034--1833190 Score: 126
Period size: 41 Copynumber: 3.9 Consensus size: 41
1833024 AAATGACCAA
* **
1833034 CAAAATCGCAACGCGAA-ATAAAAATCGCAACGCGA-TCCC
1 CAAAATCGCAACGCGAATATCAAAATCGCAACGCGATTTTC
* ** * *
1833073 CAGAATCGCAAATC-AGTGTCCAAAATCGCAACGCGATTCTT-
1 CAAAATCGCAACGCGAATAT-CAAAATCGCAACGCGATT-TTC
* * * **
1833114 GAAAATCGCAATGCG-ATAGTCAAATTCGCATTGCGATTTTC
1 CAAAATCGCAACGCGAATA-TCAAAATCGCAACGCGATTTTC
*
1833155 CAAAATCGCAACGCGAATATGAAAATCGCAACGCGA
1 CAAAATCGCAACGCGAATATCAAAATCGCAACGCGA
1833191 ACACATAAAT
Statistics
Matches: 87, Mismatches: 23, Indels: 14
0.70 0.19 0.11
Matches are distributed among these distances:
38 1 0.01
39 12 0.14
40 17 0.20
41 53 0.61
42 4 0.05
ACGTcount: A:0.38, C:0.25, G:0.18, T:0.18
Consensus pattern (41 bp):
CAAAATCGCAACGCGAATATCAAAATCGCAACGCGATTTTC
Found at i:1833200 original size:20 final size:20
Alignment explanation
Indices: 1833177--1833347 Score: 107
Period size: 20 Copynumber: 8.6 Consensus size: 20
1833167 GCGAATATGA
1833177 AAATCGCAACGCG-AACACAT
1 AAATCGCAACGCGTAAC-CAT
* * *
1833197 AAATCGCAATGCGTATCCGT
1 AAATCGCAACGCGTAACCAT
* * *
1833217 AAATCGCAACGTGTATCCGT
1 AAATCGCAACGCGTAACCAT
** *
1833237 AAATCGCAACGCGTTTCCGT
1 AAATCGCAACGCGTAACCAT
* * *
1833257 ATATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTAACCAT
* *
1833277 AAATCGCAACG-ATAATCCGT
1 AAATCGCAACGCGTAA-CCAT
* **
1833297 AAATCGCAACGAG-AATCTGT
1 AAATCGCAACGCGTAA-CCAT
* *
1833317 AAATCGCAACG-ATAATCCGT
1 AAATCGCAACGCGTAA-CCAT
1833337 AAATCGCAACG
1 AAATCGCAACG
1833348 AGAATCTGTA
Statistics
Matches: 131, Mismatches: 16, Indels: 8
0.85 0.10 0.05
Matches are distributed among these distances:
19 2 0.02
20 127 0.97
21 2 0.02
ACGTcount: A:0.35, C:0.26, G:0.18, T:0.20
Consensus pattern (20 bp):
AAATCGCAACGCGTAACCAT
Found at i:1833242 original size:60 final size:58
Alignment explanation
Indices: 1833157--1833366 Score: 208
Period size: 60 Copynumber: 3.5 Consensus size: 58
1833147 CGATTTTCCA
* ** * *
1833157 AAATCGCAACGCGAATATGAAAATCGCAACGCGAACACATAAATCGCAATGCGTATCCGT
1 AAATCGCAACGTGAATCCGTAAATCGCAACGCGAAC-CGTAAATCGCAA-GCGTATCCGT
* ** *
1833217 AAATCGCAACGTGTATCCGTAAATCGCAACGCGTTTCCGTATATCGCAACGCGTATCCGT
1 AAATCGCAACGTGAATCCGTAAATCGCAACGCG-AACCGTAAATCGCAA-GCGTATCCGT
* *
1833277 AAATCGCAACGAT-AATCCGTAAATCGCAACGAGAATCTGTAAATCGCAA-CGATAATCCGT
1 AAATCGCAACG-TGAATCCGTAAATCGCAACGCGAA-CCGTAAATCGCAAGCG-T-ATCCGT
* * *
1833337 AAATCGCAACGAGAATCTGTAAATCACAAC
1 AAATCGCAACGTGAATCCGTAAATCGCAAC
1833367 ACTGAAATTT
Statistics
Matches: 125, Mismatches: 19, Indels: 12
0.80 0.12 0.08
Matches are distributed among these distances:
58 2 0.02
59 1 0.01
60 120 0.96
61 2 0.02
ACGTcount: A:0.37, C:0.25, G:0.18, T:0.20
Consensus pattern (58 bp):
AAATCGCAACGTGAATCCGTAAATCGCAACGCGAACCGTAAATCGCAAGCGTATCCGT
Found at i:1833348 original size:20 final size:20
Alignment explanation
Indices: 1833211--1833366 Score: 174
Period size: 20 Copynumber: 7.8 Consensus size: 20
1833201 CGCAATGCGT
*
1833211 ATCCGTAAATCGCAACG-TGT
1 ATCCGTAAATCGCAACGAT-A
*
1833231 ATCCGTAAATCGCAACGCGT-
1 ATCCGTAAATCGCAACG-ATA
* * *
1833251 TTCCGTATATCGCAACGCGT-
1 ATCCGTAAATCGCAACG-ATA
1833271 ATCCGTAAATCGCAACGATA
1 ATCCGTAAATCGCAACGATA
*
1833291 ATCCGTAAATCGCAACGAGA
1 ATCCGTAAATCGCAACGATA
*
1833311 ATCTGTAAATCGCAACGATA
1 ATCCGTAAATCGCAACGATA
*
1833331 ATCCGTAAATCGCAACGAGA
1 ATCCGTAAATCGCAACGATA
* *
1833351 ATCTGTAAATCACAAC
1 ATCCGTAAATCGCAAC
1833367 ACTGAAATTT
Statistics
Matches: 121, Mismatches: 12, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
19 1 0.01
20 119 0.98
22 1 0.01
ACGTcount: A:0.35, C:0.26, G:0.17, T:0.22
Consensus pattern (20 bp):
ATCCGTAAATCGCAACGATA
Found at i:1833348 original size:40 final size:40
Alignment explanation
Indices: 1833177--1833366 Score: 208
Period size: 40 Copynumber: 4.8 Consensus size: 40
1833167 GCGAATATGA
* *
1833177 AAATCGCAACGCGAA-CACATAAATCGCAATGCG-T-ATCCGT
1 AAATCGCAACGAGAATC-CGTAAATCGCAA--CGATAATCCGT
* * * *
1833217 AAATCGCAACGTGTATCCGTAAATCGCAACGCGT-TTCCGT
1 AAATCGCAACGAGAATCCGTAAATCGCAACG-ATAATCCGT
* * *
1833257 ATATCGCAACGCGTATCCGTAAATCGCAACGATAATCCGT
1 AAATCGCAACGAGAATCCGTAAATCGCAACGATAATCCGT
*
1833297 AAATCGCAACGAGAATCTGTAAATCGCAACGATAATCCGT
1 AAATCGCAACGAGAATCCGTAAATCGCAACGATAATCCGT
* *
1833337 AAATCGCAACGAGAATCTGTAAATCACAAC
1 AAATCGCAACGAGAATCCGTAAATCGCAAC
1833367 ACTGAAATTT
Statistics
Matches: 133, Mismatches: 13, Indels: 8
0.86 0.08 0.05
Matches are distributed among these distances:
38 2 0.02
39 1 0.01
40 129 0.97
41 1 0.01
ACGTcount: A:0.36, C:0.26, G:0.17, T:0.21
Consensus pattern (40 bp):
AAATCGCAACGAGAATCCGTAAATCGCAACGATAATCCGT
Found at i:1834072 original size:24 final size:24
Alignment explanation
Indices: 1834045--1834091 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
1834035 AAATTTGGTC
1834045 TTGGTCAATATC-CGGACTTTGATA
1 TTGGTCAATA-CACGGACTTTGATA
*
1834069 TTGGTCAATACACGGATTTTGAT
1 TTGGTCAATACACGGACTTTGAT
1834092 GATGTTTCAG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 1 0.05
24 20 0.95
ACGTcount: A:0.26, C:0.15, G:0.21, T:0.38
Consensus pattern (24 bp):
TTGGTCAATACACGGACTTTGATA
Found at i:1834282 original size:12 final size:12
Alignment explanation
Indices: 1834265--1834289 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
1834255 ATATAATCCT
1834265 GAAGAAGAAAAA
1 GAAGAAGAAAAA
1834277 GAAGAAGAAAAA
1 GAAGAAGAAAAA
1834289 G
1 G
1834290 TCCCCGAAGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (12 bp):
GAAGAAGAAAAA
Found at i:1836577 original size:19 final size:19
Alignment explanation
Indices: 1836555--1836771 Score: 249
Period size: 19 Copynumber: 12.4 Consensus size: 19
1836545 CGGAAATTAC
*
1836555 AATCGCAACGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
1836574 AATCCCAA--C---ATGAA
1 AATCGCAATGCGAAATGAA
1836588 AATCGCAATGCGGAAATGAA
1 AATCGCAATGC-GAAATGAA
*
1836608 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
1836622 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
1836641 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
1836660 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
1836674 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
1836693 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
1836712 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
1836731 AATCGCAA--CGAAA-G--
1 AATCGCAATGCGAAATGAA
1836745 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
1836764 AATCGCAA
1 AATCGCAA
1836772 CGAGAGAATC
Statistics
Matches: 171, Mismatches: 6, Indels: 42
0.78 0.03 0.19
Matches are distributed among these distances:
14 40 0.23
15 2 0.01
16 11 0.06
17 10 0.06
18 3 0.02
19 92 0.54
20 13 0.08
ACGTcount: A:0.47, C:0.18, G:0.21, T:0.13
Consensus pattern (19 bp):
AATCGCAATGCGAAATGAA
Found at i:1836607 original size:34 final size:33
Alignment explanation
Indices: 1836555--1836644 Score: 128
Period size: 34 Copynumber: 2.7 Consensus size: 33
1836545 CGGAAATTAC
*
1836555 AATCGCAACGCGAAATGAAAATCCCAAC-ATGAA
1 AATCGCAATGCGAAATGAAAATCCCAACGA-GAA
* *
1836588 AATCGCAATGCGGAAATGAAAATCGCAACGAGAG
1 AATCGCAATGC-GAAATGAAAATCCCAACGAGAA
1836622 AATCGCAATGCGAAATGAAAATC
1 AATCGCAATGCGAAATGAAAATC
1836645 GCAATGCGAA
Statistics
Matches: 52, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
33 22 0.42
34 29 0.56
35 1 0.02
ACGTcount: A:0.47, C:0.20, G:0.20, T:0.13
Consensus pattern (33 bp):
AATCGCAATGCGAAATGAAAATCCCAACGAGAA
Found at i:1836642 original size:33 final size:33
Alignment explanation
Indices: 1836555--1836719 Score: 158
Period size: 33 Copynumber: 4.8 Consensus size: 33
1836545 CGGAAATTAC
* *
1836555 AATCGCAACGCGAAATGAAAATCCCAACATGAA
1 AATCGCAATGCGAAATGAAAATCGCAACATGAA
*
1836588 AATCGCAATGCGGAAATGAAAATCGCAACGA-GAG
1 AATCGCAATGC-GAAATGAAAATCGCAAC-ATGAA
1836622 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAAAATCGCAA--C---ATGAA
* * *
1836660 AATCGCAACGAGAGAATCG-CAAT-GCGAA-ATGAA
1 AATCGCAATGCGA-AAT-GAAAATCGC-AACATGAA
1836693 AATCGCAATGCGAAATGAAAATCGCAA
1 AATCGCAATGCGAAATGAAAATCGCAA
1836720 TGCGAAATGA
Statistics
Matches: 109, Mismatches: 11, Indels: 25
0.75 0.08 0.17
Matches are distributed among these distances:
31 1 0.01
32 8 0.07
33 44 0.40
34 29 0.27
35 2 0.02
37 1 0.01
38 15 0.14
39 8 0.07
40 1 0.01
ACGTcount: A:0.47, C:0.19, G:0.21, T:0.13
Consensus pattern (33 bp):
AATCGCAATGCGAAATGAAAATCGCAACATGAA
Found at i:1836706 original size:71 final size:71
Alignment explanation
Indices: 1836622--1836771 Score: 291
Period size: 71 Copynumber: 2.1 Consensus size: 71
1836612 GCAACGAGAG
*
1836622 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGA
1 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAACGAAAGAATCGCAATGCGA
1836687 AATGAA
66 AATGAA
1836693 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAACGAAAGAATCGCAATGCGA
1 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAACGAAAGAATCGCAATGCGA
1836758 AATGAA
66 AATGAA
1836764 AATCGCAA
1 AATCGCAA
1836772 CGAGAGAATC
Statistics
Matches: 78, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
71 78 1.00
ACGTcount: A:0.47, C:0.17, G:0.21, T:0.14
Consensus pattern (71 bp):
AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAACGAAAGAATCGCAATGCGA
AATGAA
Found at i:1836749 original size:33 final size:33
Alignment explanation
Indices: 1836641--1836793 Score: 234
Period size: 33 Copynumber: 4.5 Consensus size: 33
1836631 GCGAAATGAA
*
1836641 AATCGCAATGCGAAATGAAAATCGCAACGAGAG
1 AATCGCAATGCGAAATGAAAATCGCAACGAAAG
1836674 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATG
1 AATCGCAATGCGAAATGAAAATCGCAA--CGAAA-G
1836710 AAAATCGCAATGCGAAATGAAAATCGCAACGAAAG
1 --AATCGCAATGCGAAATGAAAATCGCAACGAAAG
*
1836745 AATCGCAATGCGAAATGAAAATCGCAACGAGAG
1 AATCGCAATGCGAAATGAAAATCGCAACGAAAG
*
1836778 AATCGCAATGTGAAAT
1 AATCGCAATGCGAAAT
1836794 TATAAACGCA
Statistics
Matches: 112, Mismatches: 3, Indels: 10
0.90 0.02 0.08
Matches are distributed among these distances:
33 74 0.66
35 5 0.04
36 6 0.05
38 27 0.24
ACGTcount: A:0.46, C:0.17, G:0.22, T:0.14
Consensus pattern (33 bp):
AATCGCAATGCGAAATGAAAATCGCAACGAAAG
Found at i:1836809 original size:52 final size:52
Alignment explanation
Indices: 1836583--1836793 Score: 315
Period size: 52 Copynumber: 4.0 Consensus size: 52
1836573 AAATCCCAAC
1836583 ATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
1 ATGAAAATCGCAATGC-GAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
1836636 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
*
1836688 ATGAAAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAA--CGAA
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAA--CG--A-GAGAATCGCAATGCGAA
*
1836743 A-G--AATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGTGAA
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
1836792 AT
1 AT
1836794 TATAAACGCA
Statistics
Matches: 147, Mismatches: 3, Indels: 19
0.87 0.02 0.11
Matches are distributed among these distances:
47 10 0.07
48 1 0.01
49 4 0.03
50 2 0.01
52 95 0.65
53 16 0.11
54 3 0.02
55 5 0.03
56 1 0.01
57 10 0.07
ACGTcount: A:0.46, C:0.17, G:0.23, T:0.14
Consensus pattern (52 bp):
ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
Found at i:1836889 original size:19 final size:19
Alignment explanation
Indices: 1836800--1836881 Score: 104
Period size: 19 Copynumber: 4.6 Consensus size: 19
1836790 AAATTATAAA
1836800 CGCATTGCGATTTTC-TTT
1 CGCATTGCGATTTTCATTT
1836818 CCGCATTGCGATTTTCATTT
1 -CGCATTGCGATTTTCATTT
*
1836838 CGCATTGCGA--TTC-TCT
1 CGCATTGCGATTTTCATTT
1836854 CG--TTGCGATTTTCATTT
1 CGCATTGCGATTTTCATTT
1836871 CGCATTGCGAT
1 CGCATTGCGAT
1836882 AGTCATTTTT
Statistics
Matches: 55, Mismatches: 2, Indels: 12
0.80 0.03 0.17
Matches are distributed among these distances:
14 6 0.11
16 7 0.13
17 7 0.13
19 32 0.58
20 3 0.05
ACGTcount: A:0.13, C:0.24, G:0.18, T:0.44
Consensus pattern (19 bp):
CGCATTGCGATTTTCATTT
Found at i:1837007 original size:14 final size:14
Alignment explanation
Indices: 1836988--1837024 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
1836978 CATCAATTAC
1836988 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
1837002 ACAAATCATCTTTT
1 ACAAATCAACTTTT
1837016 ACAAATCAA
1 ACAAATCAA
1837025 TTAAATAAGC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.46, C:0.22, G:0.00, T:0.32
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:1839005 original size:14 final size:14
Alignment explanation
Indices: 1838986--1839042 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
1838976 GCGAAATGAA
*
1838986 AATCGCAACGACAG
1 AATCGCAACGAAAG
1839000 AATCGCAATGCGAAATG
1 AATCGCAA--CGAAA-G
1839017 AAAATCGCAACGAAAG
1 --AATCGCAACGAAAG
1839033 AATCGCAACG
1 AATCGCAACG
1839043 CGAAATGAAA
Statistics
Matches: 37, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
14 18 0.49
16 5 0.14
17 6 0.16
19 8 0.22
ACGTcount: A:0.46, C:0.23, G:0.21, T:0.11
Consensus pattern (14 bp):
AATCGCAACGAAAG
Found at i:1839013 original size:33 final size:33
Alignment explanation
Indices: 1838967--1839059 Score: 168
Period size: 33 Copynumber: 2.8 Consensus size: 33
1838957 GCGAAACCAA
*
1838967 AATCGCAACGCGAAATGAAAATCGCAACGACAG
1 AATCGCAACGCGAAATGAAAATCGCAACGAAAG
*
1839000 AATCGCAATGCGAAATGAAAATCGCAACGAAAG
1 AATCGCAACGCGAAATGAAAATCGCAACGAAAG
1839033 AATCGCAACGCGAAATGAAAATCGCAA
1 AATCGCAACGCGAAATGAAAATCGCAA
1839060 TGCGATTTTG
Statistics
Matches: 57, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 57 1.00
ACGTcount: A:0.47, C:0.22, G:0.20, T:0.11
Consensus pattern (33 bp):
AATCGCAACGCGAAATGAAAATCGCAACGAAAG
Found at i:1839024 original size:19 final size:19
Alignment explanation
Indices: 1838930--1839064 Score: 128
Period size: 19 Copynumber: 7.6 Consensus size: 19
1838920 TAGTTTACTT
* *
1838930 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAA-TGAAAA
**
1838950 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAATGAAAA
1838969 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
1838988 TCGCAA--CGACA-G--AA
1 TCGCAACGCGAAATGAAAA
*
1839002 TCGCAATGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
1839021 TCGCAA--CGAAA-G--AA
1 TCGCAACGCGAAATGAAAA
1839035 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
1839054 TCGCAATGCGA
1 TCGCAACGCGA
1839065 TTTTGGTTTC
Statistics
Matches: 97, Mismatches: 8, Indels: 21
0.77 0.06 0.17
Matches are distributed among these distances:
14 16 0.16
16 11 0.11
17 11 0.11
19 47 0.48
20 12 0.12
ACGTcount: A:0.46, C:0.24, G:0.19, T:0.11
Consensus pattern (19 bp):
TCGCAACGCGAAATGAAAA
Found at i:1839082 original size:19 final size:19
Alignment explanation
Indices: 1839060--1839205 Score: 142
Period size: 19 Copynumber: 8.5 Consensus size: 19
1839050 AAAATCGCAA
1839060 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
*
1839079 TGCGATCTT-G--T--CGT
1 TGCGATTTTGGTTTCGCGT
1839093 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
*
1839112 TGCGATCTT-G--T--CGT
1 TGCGATTTTGGTTTCGCGT
1839126 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
*
1839145 TGCGATTCT-G--T--CGT
1 TGCGATTTTGGTTTCGCGT
**
1839159 TGCGATTTTCATTTCGCGT
1 TGCGATTTTGGTTTCGCGT
1839178 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
1839197 TGCGATTTT
1 TGCGATTTT
1839206 AACTTTCGTG
Statistics
Matches: 103, Mismatches: 9, Indels: 30
0.73 0.06 0.21
Matches are distributed among these distances:
14 33 0.32
15 2 0.02
16 3 0.03
17 3 0.03
18 3 0.03
19 59 0.57
ACGTcount: A:0.07, C:0.18, G:0.29, T:0.47
Consensus pattern (19 bp):
TGCGATTTTGGTTTCGCGT
Found at i:1839095 original size:14 final size:14
Alignment explanation
Indices: 1839076--1839131 Score: 58
Period size: 14 Copynumber: 3.6 Consensus size: 14
1839066 TTTGGTTTCG
1839076 CGTTGCGATCTTGT
1 CGTTGCGATCTTGT
*
1839090 CGTTGCGATTTTGGTTT
1 CGTTGCGATCTT-G--T
1839107 CGCGTTGCGATCTTGT
1 --CGTTGCGATCTTGT
1839123 CGTTGCGAT
1 CGTTGCGAT
1839132 TTTGGTTTCG
Statistics
Matches: 35, Mismatches: 2, Indels: 10
0.74 0.04 0.21
Matches are distributed among these distances:
14 20 0.57
15 1 0.03
16 1 0.03
17 1 0.03
18 1 0.03
19 11 0.31
ACGTcount: A:0.07, C:0.20, G:0.30, T:0.43
Consensus pattern (14 bp):
CGTTGCGATCTTGT
Found at i:1839146 original size:52 final size:50
Alignment explanation
Indices: 1839090--1839205 Score: 135
Period size: 52 Copynumber: 2.2 Consensus size: 50
1839080 GCGATCTTGT
* * *
1839090 CGTTGCGATTTTGGTTTCGCGTTGCGATCTT-GTCGTTGCGATTTTGGTTTCG
1 CGTTGCGATTTTCGTTGCGAGTTGC-AT-TTCG-CGTTGCGATTTTGGTTTCG
* *
1839142 CGTTGCGATTCTGTCGTTGCGATTTTCATTTCGCGTTGCGATTTTGGTTTCG
1 CGTTGCGATT-T-TCGTTGCGAGTTGCATTTCGCGTTGCGATTTTGGTTTCG
1839194 CGTTGCGATTTT
1 CGTTGCGATTTT
1839206 AACTTTCGTG
Statistics
Matches: 56, Mismatches: 5, Indels: 8
0.81 0.07 0.12
Matches are distributed among these distances:
50 1 0.02
51 1 0.02
52 41 0.73
53 4 0.07
54 9 0.16
ACGTcount: A:0.07, C:0.18, G:0.28, T:0.47
Consensus pattern (50 bp):
CGTTGCGATTTTCGTTGCGAGTTGCATTTCGCGTTGCGATTTTGGTTTCG
Found at i:1839184 original size:33 final size:33
Alignment explanation
Indices: 1839060--1839183 Score: 214
Period size: 33 Copynumber: 3.8 Consensus size: 33
1839050 AAAATCGCAA
1839060 TGCGATTTTGGTTTCGCGTTGCGATCTTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATCTTGTCGT
1839093 TGCGATTTTGGTTTCGCGTTGCGATCTTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATCTTGTCGT
1839126 TGCGATTTTGGTTTCGCGTTGCGAT-TCTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATCT-TGTCGT
**
1839159 TGCGATTTTCATTTCGCGTTGCGAT
1 TGCGATTTTGGTTTCGCGTTGCGAT
1839184 TTTGGTTTCG
Statistics
Matches: 88, Mismatches: 2, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
32 1 0.01
33 87 0.99
ACGTcount: A:0.07, C:0.19, G:0.29, T:0.45
Consensus pattern (33 bp):
TGCGATTTTGGTTTCGCGTTGCGATCTTGTCGT
Found at i:1839218 original size:20 final size:18
Alignment explanation
Indices: 1839090--1839221 Score: 82
Period size: 19 Copynumber: 7.4 Consensus size: 18
1839080 GCGATCTTGT
*
1839090 CGTTGCGATTTTGGTTTCG
1 CGTTGCGATTTT-ATTTCG
* *
1839109 CGTTGCGA-TCT-TGT--
1 CGTTGCGATTTTATTTCG
*
1839123 CGTTGCGATTTTGGTTTCG
1 CGTTGCGATTTT-ATTTCG
* *
1839142 CGTTGCGA--TTCTGT--
1 CGTTGCGATTTTATTTCG
1839156 CGTTGCGATTTTCATTTCG
1 CGTTGCGATTTT-ATTTCG
*
1839175 CGTTGCGATTTTGGTTTCG
1 CGTTGCGATTTT-ATTTCG
1839194 CGTTGCGATTTTAACTTTCG
1 CGTTGCGATTTT-A-TTTCG
*
1839214 TGTTGCGA
1 CGTTGCGA
1839222 AAGTAAACTA
Statistics
Matches: 89, Mismatches: 13, Indels: 21
0.72 0.11 0.17
Matches are distributed among these distances:
14 16 0.18
15 2 0.02
16 6 0.07
17 6 0.07
18 2 0.02
19 45 0.51
20 12 0.13
ACGTcount: A:0.08, C:0.18, G:0.28, T:0.45
Consensus pattern (18 bp):
CGTTGCGATTTTATTTCG
Found at i:1839385 original size:93 final size:93
Alignment explanation
Indices: 1839269--1839828 Score: 1072
Period size: 93 Copynumber: 6.1 Consensus size: 93
1839259 ATGGATTGCA
*
1839269 TTAC-TTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAAAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1839333 TAGCAGAATTGGCAGCAACCGAACAAAT
66 TAGCAGAATTGGCAGCAACCGAACAAAT
1839361 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1839426 TAGCAGAATTGGCAGCAACCGAACAAAT
66 TAGCAGAATTGGCAGCAACCGAACAAAT
1839454 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAAT--ACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1839517 TAGCAGAATTGGCAGCAACCGAACAAAT
66 TAGCAGAATTGGCAGCAACCGAACAAAT
1839545 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1839610 TAGCAGAATTGGCAGCAACCGAACAAAT
66 TAGCAGAATTGGCAGCAACCGAACAAAT
*
1839638 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACATAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1839703 TAGCAGAATTGGCAGCAACCGAACAAAT
66 TAGCAGAATTGGCAGCAACCGAACAAAT
1839731 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
*
1839796 TAGCAGAATTGGCAGCAACCGAATAAAT
66 TAGCAGAATTGGCAGCAACCGAACAAAT
1839824 TTACT
1 TTACT
1839829 AAGCAATCTA
Statistics
Matches: 461, Mismatches: 4, Indels: 5
0.98 0.01 0.01
Matches are distributed among these distances:
91 91 0.20
92 4 0.01
93 366 0.79
ACGTcount: A:0.46, C:0.19, G:0.13, T:0.22
Consensus pattern (93 bp):
TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
TAGCAGAATTGGCAGCAACCGAACAAAT
Found at i:1839767 original size:277 final size:278
Alignment explanation
Indices: 1839269--1839828 Score: 1070
Period size: 277 Copynumber: 2.0 Consensus size: 278
1839259 ATGGATTGCA
1839269 TTAC-TTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAAAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAAAGTT
1839333 TAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACT
66 TAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACT
1839398 ATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCA
131 ATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCA
1839463 ACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAAT-ACAGTTTAGCAGAATT
196 ACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATAACAGTTTAGCAGAATT
1839527 GGCAGCAACCGAACAAAT
261 GGCAGCAACCGAACAAAT
*
1839545 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAAAGTT
1839610 TAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACT
66 TAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACT
*
1839675 ATTTCACAGTGTTAAAGAATACATAGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCA
131 ATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCA
1839740 ACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAAT
196 ACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATA-ACAGTTTAGCAGAAT
*
1839805 TGGCAGCAACCGAATAAAT
260 TGGCAGCAACCGAACAAAT
1839824 TTACT
1 TTACT
1839829 AAGCAATCTA
Statistics
Matches: 278, Mismatches: 3, Indels: 3
0.98 0.01 0.01
Matches are distributed among these distances:
276 4 0.01
277 236 0.85
279 38 0.14
ACGTcount: A:0.46, C:0.19, G:0.13, T:0.22
Consensus pattern (278 bp):
TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAAAGTT
TAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACT
ATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCA
ACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATAACAGTTTAGCAGAATT
GGCAGCAACCGAACAAAT
Found at i:1841547 original size:14 final size:14
Alignment explanation
Indices: 1841528--1841617 Score: 72
Period size: 14 Copynumber: 5.7 Consensus size: 14
1841518 TTGAAATGAA
1841528 AATCGCAACGAGAG
1 AATCGCAACGAGAG
*
1841542 AATCGCAACGCGAAATGAC
1 AATCGCAA--CG--A-GAG
1841561 AATCGCAACGAGAG
1 AATCGCAACGAGAG
*
1841575 AATCGCAACGCGAAATGAA
1 AATCGCAA--CG--A-GAG
1841594 AATCGCAACGAGAG
1 AATCGCAACGAGAG
1841608 AATCGCAACG
1 AATCGCAACG
1841618 CGAAATAAAA
Statistics
Matches: 62, Mismatches: 4, Indels: 20
0.72 0.05 0.23
Matches are distributed among these distances:
14 30 0.48
15 2 0.03
16 4 0.06
17 4 0.06
18 2 0.03
19 20 0.32
ACGTcount: A:0.43, C:0.23, G:0.24, T:0.09
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:1841565 original size:33 final size:33
Alignment explanation
Indices: 1841520--1841634 Score: 212
Period size: 33 Copynumber: 3.5 Consensus size: 33
1841510 TCTTTTGGTT
1841520 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
*
1841553 GAAATGACAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1841586 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
*
1841619 GAAATAAAAATCGCAA
1 GAAATGAAAATCGCAA
1841635 TGCGATTTTG
Statistics
Matches: 79, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
33 79 1.00
ACGTcount: A:0.47, C:0.21, G:0.23, T:0.10
Consensus pattern (33 bp):
GAAATGAAAATCGCAACGAGAGAATCGCAACGC
Found at i:1841566 original size:19 final size:19
Alignment explanation
Indices: 1841542--1841639 Score: 81
Period size: 19 Copynumber: 5.7 Consensus size: 19
1841532 GCAACGAGAG
*
1841542 AATCGCAACGCGAAATGAC
1 AATCGCAACGCGAAATGAA
*
1841561 AATCGCAA--CG--A-GAG
1 AATCGCAACGCGAAATGAA
1841575 AATCGCAACGCGAAATGAA
1 AATCGCAACGCGAAATGAA
*
1841594 AATCGCAA--CG--A-GAG
1 AATCGCAACGCGAAATGAA
*
1841608 AATCGCAACGCGAAATAAA
1 AATCGCAACGCGAAATGAA
*
1841627 AATCGCAATGCGA
1 AATCGCAACGCGA
1841640 TTTTGGTTTC
Statistics
Matches: 63, Mismatches: 6, Indels: 20
0.71 0.07 0.22
Matches are distributed among these distances:
14 20 0.32
15 2 0.03
16 4 0.06
17 4 0.06
18 2 0.03
19 31 0.49
ACGTcount: A:0.45, C:0.22, G:0.22, T:0.10
Consensus pattern (19 bp):
AATCGCAACGCGAAATGAA
Found at i:1841670 original size:14 final size:14
Alignment explanation
Indices: 1841651--1841707 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
1841641 TTTGGTTTCG
1841651 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
1841665 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
1841684 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
1841698 CGTTGCGATT
1 CGTTGCGATT
1841708 GTCATTTCGC
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
14 20 0.56
16 3 0.08
17 3 0.08
19 10 0.28
ACGTcount: A:0.09, C:0.25, G:0.23, T:0.44
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:1841683 original size:33 final size:33
Alignment explanation
Indices: 1841635--1841764 Score: 161
Period size: 33 Copynumber: 3.7 Consensus size: 33
1841625 AAAATCGCAA
**
1841635 TGCGATTTTGGTTTCGCGTTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
1841668 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
*
1841701 TGCGATTGTCATTTCGCGTTGCGACAGTCATTCTCTCGT
1 TGCGATTTTCATTTCGCGTT--G-C-G--ATTCTCTCGT
*
1841740 TGCGATTTTCATTATCTCGTTGCGA
1 TGCGATTTTCATT-TCGCGTTGCGA
1841765 CTCTTCTGCA
Statistics
Matches: 85, Mismatches: 5, Indels: 13
0.83 0.05 0.13
Matches are distributed among these distances:
33 50 0.59
34 1 0.01
35 1 0.01
36 2 0.02
37 2 0.02
38 1 0.01
39 22 0.26
40 6 0.07
ACGTcount: A:0.11, C:0.23, G:0.23, T:0.43
Consensus pattern (33 bp):
TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
Found at i:1841742 original size:20 final size:20
Alignment explanation
Indices: 1841691--1841766 Score: 91
Period size: 20 Copynumber: 3.9 Consensus size: 20
1841681 TCGCGTTGCG
*
1841691 ATTCTCTCGTTGCGATTGTC
1 ATTCTCTCGTTGCGACTGTC
* *
1841711 ATT-TCGCGTTGCGACAGTC
1 ATTCTCTCGTTGCGACTGTC
* *
1841730 ATTCTCTCGTTGCGATTTTC
1 ATTCTCTCGTTGCGACTGTC
*
1841750 ATTATCTCGTTGCGACT
1 ATTCTCTCGTTGCGACT
1841767 CTTCTGCAAA
Statistics
Matches: 46, Mismatches: 9, Indels: 2
0.81 0.16 0.04
Matches are distributed among these distances:
19 16 0.35
20 30 0.65
ACGTcount: A:0.13, C:0.25, G:0.20, T:0.42
Consensus pattern (20 bp):
ATTCTCTCGTTGCGACTGTC
Found at i:1841907 original size:30 final size:31
Alignment explanation
Indices: 1841847--1841913 Score: 91
Period size: 30 Copynumber: 2.2 Consensus size: 31
1841837 ACTAACTTGA
*
1841847 AAATCGCAACGAGAGAATAGCAACGTGAAATG
1 AAATCGCAAC-AGAGAATAGCAACGCGAAATG
* *
1841879 AAATCGCAAC-GAGAATCGTAACGCGAAATG
1 AAATCGCAACAGAGAATAGCAACGCGAAATG
1841909 AAATC
1 AAATC
1841914 TAAGTGAAAT
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
30 22 0.69
32 10 0.31
ACGTcount: A:0.46, C:0.18, G:0.22, T:0.13
Consensus pattern (31 bp):
AAATCGCAACAGAGAATAGCAACGCGAAATG
Found at i:1842145 original size:22 final size:22
Alignment explanation
Indices: 1842093--1842147 Score: 74
Period size: 22 Copynumber: 2.5 Consensus size: 22
1842083 TGGTTGTGAG
**
1842093 GGATTTCGCCGGAGATGGGGAC
1 GGATTTCTTCGGAGATGGGGAC
**
1842115 GGAAATCTTCGGAGATGGGGAC
1 GGATTTCTTCGGAGATGGGGAC
1842137 GGATTTCTTCG
1 GGATTTCTTCG
1842148 CCGTAGAGAG
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.20, C:0.16, G:0.40, T:0.24
Consensus pattern (22 bp):
GGATTTCTTCGGAGATGGGGAC
Found at i:1842317 original size:20 final size:20
Alignment explanation
Indices: 1842292--1842485 Score: 203
Period size: 20 Copynumber: 9.7 Consensus size: 20
1842282 CTTTAAATAT
1842292 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
1842312 CGCGTTGCGATTTTATGTATTA
1 CGCGTTGCGA-TTTACGGA-TA
* *
1842334 -TCGTTGCGATTTACCGATA
1 CGCGTTGCGATTTACGGATA
*
1842353 CGCGTTGCGATATACGGATA
1 CGCGTTGCGATTTACGGATA
* **
1842373 CGCATTGCGATTTACCCATA
1 CGCGTTGCGATTTACGGATA
1842393 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
1842413 CACGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* * *
1842433 CGCATTGCGATTTATGTG-TT
1 CGCGTTGCGATTTACG-GATA
* ** *
1842453 CGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTTACGGATA
1842473 CGCGTTGCGATTT
1 CGCGTTGCGATTT
1842486 TGGAAAATCG
Statistics
Matches: 143, Mismatches: 26, Indels: 10
0.80 0.15 0.06
Matches are distributed among these distances:
19 2 0.01
20 124 0.87
21 15 0.10
22 2 0.01
ACGTcount: A:0.20, C:0.20, G:0.25, T:0.36
Consensus pattern (20 bp):
CGCGTTGCGATTTACGGATA
Found at i:1842457 original size:60 final size:60
Alignment explanation
Indices: 1842294--1842465 Score: 236
Period size: 60 Copynumber: 2.9 Consensus size: 60
1842284 TTAAATATCG
* ** *
1842294 CGTTGCGATTTACGGATACGCGTTGCGATTTTATGTATTATCGTTGCGATTTACCGATACG
1 CGTTGCGATTTACGGATACGCATTGCGA-TTTATGTATTCGCGTTGCGATTTACCGATACA
* *** * *
1842355 CGTTGCGATATACGGATACGCATTGCGATTTACCCATACGCGTTGCGATTTACGGATACA
1 CGTTGCGATTTACGGATACGCATTGCGATTTATGTATTCGCGTTGCGATTTACCGATACA
*
1842415 CGTTGCGATTTACGGATACGCATTGCGATTTATGTGTTCGCGTTGCGATTT
1 CGTTGCGATTTACGGATACGCATTGCGATTTATGTATTCGCGTTGCGATTT
1842466 TCATATTCGC
Statistics
Matches: 95, Mismatches: 16, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
60 69 0.73
61 26 0.27
ACGTcount: A:0.20, C:0.20, G:0.25, T:0.35
Consensus pattern (60 bp):
CGTTGCGATTTACGGATACGCATTGCGATTTATGTATTCGCGTTGCGATTTACCGATACA
Found at i:1842479 original size:60 final size:60
Alignment explanation
Indices: 1842291--1842606 Score: 232
Period size: 60 Copynumber: 5.2 Consensus size: 60
1842281 GCTTTAAATA
* ** * *
1842291 TCGCGTTGCGATTTACGGATACGCGTTGCGATTTTATGTATTATCGTTGCGATTTACCGAT
1 TCGCGTTGCGATTTACGGATACGCATTGCGA-TTTATGTATTCGCGTTGCGATTTTCAGAT
* * *** * * *
1842352 ACGCGTTGCGATATACGGATACGCATTGCGATTTACCCATACGCGTTGCGATTTACGGAT
1 TCGCGTTGCGATTTACGGATACGCATTGCGATTTATGTATTCGCGTTGCGATTTTCAGAT
* * * *
1842412 ACACGTTGCGATTTACGGATACGCATTGCGATTTATGTGTTCGCGTTGCGATTTTCATAT
1 TCGCGTTGCGATTTACGGATACGCATTGCGATTTATGTATTCGCGTTGCGATTTTCAGAT
* * * * * *
1842472 TCGCGTTGCGATTT-TGGAAAATCGCAATGCGAATT-TG-ACTATCGCATTGCGATTTTCAAGAA
1 TCGCGTTGCGATTTACGG-ATA-CGCATTGCGATTTATGTA-T-TCGCGTTGCGATTTTC-AGAT
* * ** * * *
1842534 TCGCGTTGCGATTT-TGGAAACTG-ATTTGCGATTCTGGGGA-TCGCGTTGCGATTTTTA-TT
1 TCGCGTTGCGATTTACGGATAC-GCA-TTGCGATT-TATGTATTCGCGTTGCGATTTTCAGAT
1842593 TCGCGTTGCGATTT
1 TCGCGTTGCGATTT
1842607 TGTTGGTCAT
Statistics
Matches: 208, Mismatches: 37, Indels: 22
0.78 0.14 0.08
Matches are distributed among these distances:
59 16 0.08
60 92 0.44
61 78 0.38
62 20 0.10
63 1 0.00
64 1 0.00
ACGTcount: A:0.20, C:0.19, G:0.25, T:0.36
Consensus pattern (60 bp):
TCGCGTTGCGATTTACGGATACGCATTGCGATTTATGTATTCGCGTTGCGATTTTCAGAT
Found at i:1842502 original size:21 final size:20
Alignment explanation
Indices: 1842452--1842549 Score: 79
Period size: 20 Copynumber: 4.8 Consensus size: 20
1842442 ATTTATGTGT
* * * *
1842452 TCGCGTTGCGATTTTCATAT
1 TCGCATTGCGATTTTGAAAA
*
1842472 TCGCGTTGCGATTTTGGAAAA
1 TCGCATTGCGATTTT-GAAAA
* * **
1842493 TCGCAATGCGAATTTGACTA
1 TCGCATTGCGATTTTGAAAA
*
1842513 TCGCATTGCGATTTTCAAGAA
1 TCGCATTGCGATTTTGAA-AA
*
1842534 TCGCGTTGCGATTTTG
1 TCGCATTGCGATTTTG
1842550 GAAACTGATT
Statistics
Matches: 61, Mismatches: 15, Indels: 3
0.77 0.19 0.04
Matches are distributed among these distances:
20 32 0.52
21 29 0.48
ACGTcount: A:0.21, C:0.18, G:0.23, T:0.37
Consensus pattern (20 bp):
TCGCATTGCGATTTTGAAAA
Found at i:1842525 original size:61 final size:60
Alignment explanation
Indices: 1842452--1842608 Score: 176
Period size: 61 Copynumber: 2.6 Consensus size: 60
1842442 ATTTATGTGT
*
1842452 TCGCGTTGCGATTTTCATATTCGCGTTGCGATTTTGGAAAATCGCA-ATGCGAATT-TGACTA
1 TCGCGTTGCGATTTTCATATTCGCGTTGCGATTTTGGAAAAT-G-ATATGCG-ATTCTGACGA
* * * * * **
1842513 TCGCATTGCGATTTTCAAGAATCGCGTTGCGATTTTGGAAACTGATTTGCGATTCTGGGGA
1 TCGCGTTGCGATTTTC-ATATTCGCGTTGCGATTTTGGAAAATGATATGCGATTCTGACGA
*
1842574 TCGCGTTGCGATTTTTAT-TTCGCGTTGCGATTTTG
1 TCGCGTTGCGATTTTCATATTCGCGTTGCGATTTTG
1842609 TTGGTCATTT
Statistics
Matches: 81, Mismatches: 12, Indels: 8
0.80 0.12 0.08
Matches are distributed among these distances:
59 16 0.20
60 5 0.06
61 37 0.46
62 23 0.28
ACGTcount: A:0.19, C:0.17, G:0.25, T:0.38
Consensus pattern (60 bp):
TCGCGTTGCGATTTTCATATTCGCGTTGCGATTTTGGAAAATGATATGCGATTCTGACGA
Found at i:1842544 original size:41 final size:41
Alignment explanation
Indices: 1842452--1842608 Score: 110
Period size: 41 Copynumber: 3.9 Consensus size: 41
1842442 ATTTATGTGT
* * *
1842452 TCGCGTTGCGATTTTCATATTCGCGTTGCGATTTTGGAAAA
1 TCGCGTTGCGATTTTGATATTCGCATTGCGATTTTGCAAAA
** *
1842493 TCGCAATGCGAATTTGACTA-TCGCATTGCGATTTT-CAAGAA
1 TCGCGTTGCGATTTTGA-TATTCGCATTGCGATTTTGCAA-AA
* * * ***
1842534 TCGCGTTGCGATTTTGGAAACT-G-ATTTGCGATTCTG-GGGA
1 TCGCGTTGCGATTTT-GATATTCGCA-TTGCGATTTTGCAAAA
* *
1842574 TCGCGTTGCGATTTTTAT-TTCGCGTTGCGATTTTG
1 TCGCGTTGCGATTTTGATATTCGCATTGCGATTTTG
1842609 TTGGTCATTT
Statistics
Matches: 89, Mismatches: 19, Indels: 18
0.71 0.15 0.14
Matches are distributed among these distances:
38 1 0.01
39 12 0.13
40 19 0.21
41 52 0.58
42 5 0.06
ACGTcount: A:0.19, C:0.17, G:0.25, T:0.38
Consensus pattern (41 bp):
TCGCGTTGCGATTTTGATATTCGCATTGCGATTTTGCAAAA
Found at i:1842737 original size:14 final size:14
Alignment explanation
Indices: 1842714--1842747 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
1842704 TGAAAATAAC
1842714 AAAC-AAAAATTGA
1 AAACTAAAAATTGA
1842727 AAACTAAAAATTGA
1 AAACTAAAAATTGA
1842741 AAA-TAAA
1 AAACTAAA
1842748 TTAAAAAGAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
13 8 0.40
14 12 0.60
ACGTcount: A:0.71, C:0.06, G:0.06, T:0.18
Consensus pattern (14 bp):
AAACTAAAAATTGA
Found at i:1851222 original size:4 final size:4
Alignment explanation
Indices: 1851215--1851276 Score: 63
Period size: 4 Copynumber: 15.2 Consensus size: 4
1851205 AAAACAAACG
* * * *
1851215 AATA AATA AATA ATTA AATA AATA AAGTA AA-A AATG TATGT AATA AATA
1 AATA AATA AATA AATA AATA AATA AA-TA AATA AATA AAT-A AATA AATA
1851264 AATA AATA AATA A
1 AATA AATA AATA A
1851277 CAACTAGACA
Statistics
Matches: 48, Mismatches: 7, Indels: 6
0.79 0.11 0.10
Matches are distributed among these distances:
3 3 0.06
4 39 0.81
5 6 0.12
ACGTcount: A:0.68, C:0.00, G:0.05, T:0.27
Consensus pattern (4 bp):
AATA
Found at i:1853033 original size:105 final size:103
Alignment explanation
Indices: 1852878--1853363 Score: 511
Period size: 105 Copynumber: 4.7 Consensus size: 103
1852868 AGATTGGTTT
* * ** * * * * *
1852878 TGGAACCGGGAAATTGTTTATTGACAGTCAGCCGCCCCTTCGCTGCGAAGTTGAGCTTGTGCTGT
1 TGGAACTGGGAAATTG-TTGTTGACAACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGT
* *
1852943 CTTGGGTCCAATATCCTTCGCTATGAAGTTGAAACTGGCCC
65 CTTGGGTCCAATATCCTCCGCTGTGAAGTTGAAA-TGG-CC
*
1852984 TGGAACTGGGAAATTGTTGTTGACAACCAACCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTC
1 TGGAACTGGGAAATTGTTGTTGACAACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTC
* * * * *
1853049 TCGAGTCCAATATCCTTCGTTGTGAAGTTGAGAT----
66 TTGGGTCCAATATCCTCCGCTGTGAAGTTGAAATGGCC
** ** * *
1853083 TGG--CTCCGAAATTGTTTGTTGACAGTCAGCCG-CCCTTTCGTTGTGAAGTTGAGCTTGTGCTG
1 TGGAACTGGGAAATTG-TTGTTGACAACCAGCCGTCCC-TTCGTTGTGAAGTTGAACTTGTGTTG
1853145 TCTTGGGTCCAATATCCTCCGCTGTGAAGTTGAAATTGGTCC
64 TCTTGGGTCCAATATCCTCCGCTGTGAAGTTGAAA-TGG-CC
1853187 T-GAAGCTGGGAAATTGTTGTTGACAACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGT
1 TGGAA-CTGGGAAATTGTTGTTGACAACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGT
* * * * *
1853251 CTTGGGTAGCACGATATCCTCCGTTGTGGAGTTGAAATCAGCT
65 CTTGGGT--C-CAATATCCTCCGCTGTGAAGTTGAAAT-GGCC
* * *
1853294 TTGAAATTGGAAAGTTGTTCGTTGACAACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTG
1 TGGAACTGGGAAA-TTGTT-GTTGACAACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTG
1853359 TCTTG
64 TCTTG
1853364 AGTGGCACGA
Statistics
Matches: 321, Mismatches: 40, Indels: 35
0.81 0.10 0.09
Matches are distributed among these distances:
97 12 0.04
98 68 0.21
99 4 0.01
103 1 0.00
104 2 0.01
105 115 0.36
106 27 0.08
107 10 0.03
108 32 0.10
109 50 0.16
ACGTcount: A:0.20, C:0.20, G:0.27, T:0.33
Consensus pattern (103 bp):
TGGAACTGGGAAATTGTTGTTGACAACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTC
TTGGGTCCAATATCCTCCGCTGTGAAGTTGAAATGGCC
Found at i:1853147 original size:98 final size:97
Alignment explanation
Indices: 1852993--1853366 Score: 318
Period size: 98 Copynumber: 3.6 Consensus size: 97
1852983 CTGGAACTGG
*
1852993 GAAATTGTTGTTGACAACCAACCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCGAGTCCA
1 GAAATTGTTGTTGACAACCAACCGTCCCTTCGTTGTGAAGTTGAACTTGTGCTGTCTCGAGTCCA
* * *
1853058 ATATCCTTCGTTGTGAAGTTGAGATTGGCTCC
66 ATATCCTCCGCTGTGAAGTTGAAATTGGCTCC
** * * * *
1853090 GAAATTGTTTGTTGACAGTCAGCCG-CCCTTTCGTTGTGAAGTTGAGCTTGTGCTGTCTTGGGTC
1 GAAATTG-TTGTTGACAACCAACCGTCCC-TTCGTTGTGAAGTTGAACTTGTGCTGTCTCGAGTC
*
1853154 CAATATCCTCCGCTGTGAAGTTGAAATTGGTCCTGAAGCTGG
64 CAATATCCTCCGCTGTGAAGTTGAAATTGG--CT----C--C
* * * *
1853196 GAAATTGTTGTTGACAACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTTGGGTAGC
1 GAAATTGTTGTTGACAACCAACCGTCCCTTCGTTGTGAAGTTGAACTTGTGCTGTCTCGAGT--C
* * * ** **
1853261 ACGATATCCTCCGTTGTGGAGTTGAAATCAGCTTTGAAATTG
64 -CAATATCCTCCGCTGTGAAGTTG-AA--A---TTG-GCTCC
* * *
1853303 GAAAGTTGTTCGTTGACAACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTTGAGT
1 GAAA-TTGTT-GTTGACAACCAACCGTCCCTTCGTTGTGAAGTTGAACTTGTGCTGTCTCGAGT
1853367 GGCACGATAT
Statistics
Matches: 232, Mismatches: 22, Indels: 34
0.81 0.08 0.12
Matches are distributed among these distances:
97 10 0.04
98 72 0.31
100 2 0.01
104 1 0.00
105 47 0.20
106 10 0.04
107 6 0.03
108 25 0.11
109 54 0.23
111 1 0.00
113 1 0.00
114 3 0.01
ACGTcount: A:0.20, C:0.19, G:0.26, T:0.35
Consensus pattern (97 bp):
GAAATTGTTGTTGACAACCAACCGTCCCTTCGTTGTGAAGTTGAACTTGTGCTGTCTCGAGTCCA
ATATCCTCCGCTGTGAAGTTGAAATTGGCTCC
Found at i:1853236 original size:203 final size:203
Alignment explanation
Indices: 1852887--1853252 Score: 635
Period size: 203 Copynumber: 1.8 Consensus size: 203
1852877 TTGGAACCGG
1852887 GAAATTGTTTATTGACAGTCAGCCGCCCCTTCGCTGCGAAGTTGAGCTTGTGCTGTCTTGGGTCC
1 GAAATTGTTTATTGACAGTCAGCCGCCCCTTCGCTGCGAAGTTGAGCTTGTGCTGTCTTGGGTCC
*
1852952 AATATCCTTCGCTATGAAGTTGAAACTGGCCCTGGAACTGGGAAATTGTTGTTGACAACCAACCG
66 AATATCCTCCGCTATGAAGTTGAAACTGGCCCTGGAACTGGGAAATTGTTGTTGACAACCAACCG
1853017 TCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCGAGTCCAATATCCTTCGTTGTGAAGTTGAGA
131 TCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCGAGTCCAATATCCTTCGTTGTGAAGTTGAGA
1853082 TTGGCTCC
196 TTGGCTCC
* * * *
1853090 GAAATTGTTTGTTGACAGTCAGCCGCCCTTTCGTTGTGAAGTTGAGCTTGTGCTGTCTTGGGTCC
1 GAAATTGTTTATTGACAGTCAGCCGCCCCTTCGCTGCGAAGTTGAGCTTGTGCTGTCTTGGGTCC
* * * *
1853155 AATATCCTCCGCTGTGAAGTTGAAATTGGTCCT-GAAGCTGGGAAATTGTTGTTGACAACCAGCC
66 AATATCCTCCGCTATGAAGTTGAAACTGGCCCTGGAA-CTGGGAAATTGTTGTTGACAACCAACC
1853219 GTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCT
130 GTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCT
1853253 TGGGTAGCAC
Statistics
Matches: 153, Mismatches: 9, Indels: 2
0.93 0.05 0.01
Matches are distributed among these distances:
202 3 0.02
203 150 0.98
ACGTcount: A:0.19, C:0.21, G:0.26, T:0.34
Consensus pattern (203 bp):
GAAATTGTTTATTGACAGTCAGCCGCCCCTTCGCTGCGAAGTTGAGCTTGTGCTGTCTTGGGTCC
AATATCCTCCGCTATGAAGTTGAAACTGGCCCTGGAACTGGGAAATTGTTGTTGACAACCAACCG
TCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCGAGTCCAATATCCTTCGTTGTGAAGTTGAGA
TTGGCTCC
Done.