Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01002875.1 Hibiscus syriacus cultivar Beakdansim tig00005929_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: 1473696
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 3 of 5
Found at i:757404 original size:18 final size:19
Alignment explanation
Indices: 757361--757404 Score: 65
Period size: 19 Copynumber: 2.4 Consensus size: 19
757351 TAATGGGTGT
757361 ATCGATGCACTCCCTATGC
1 ATCGATGCACTCCCTATGC
757380 ATCGATGCACT-CCT-TGC
1 ATCGATGCACTCCCTATGC
757397 ATTCGATG
1 A-TCGATG
757405 TTTATTTCGT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
17 4 0.17
18 9 0.38
19 11 0.46
ACGTcount: A:0.20, C:0.32, G:0.18, T:0.30
Consensus pattern (19 bp):
ATCGATGCACTCCCTATGC
Found at i:760546 original size:23 final size:22
Alignment explanation
Indices: 760520--760583 Score: 74
Period size: 23 Copynumber: 2.8 Consensus size: 22
760510 CAGCTCATAT
760520 AATTGCACCTAAGTGCCACGTAG
1 AATTGCACCT-AGTGCCACGTAG
* * *
760543 AATTGCACCGGAGTGTCGCGTAG
1 AATTGCACC-TAGTGCCACGTAG
760566 AATTGCACCGTAGTGCCA
1 AATTGCACC-TAGTGCCA
760584 TATAATAATG
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
23 34 1.00
ACGTcount: A:0.27, C:0.25, G:0.27, T:0.22
Consensus pattern (22 bp):
AATTGCACCTAGTGCCACGTAG
Found at i:760724 original size:103 final size:103
Alignment explanation
Indices: 760591--760919 Score: 570
Period size: 103 Copynumber: 3.2 Consensus size: 103
760581 CCATATAATA
* * *
760591 ATGT-CCATAAGGACCACATATCATTCCTTAAAAATTATATACATATGCCAAGGATCAAGTATGT
1 ATGTCCCA-AAGGACCACATATCATTCCTTAAGAATCATATACATATACCAAGGATCAAGTATGT
760655 GTCTCACCAGACCTCACACATGTTCCAAAGAATACATAT
65 GTCTCACCAGACCTCACACATGTTCCAAAGAATACATAT
760694 ATGTCCCAAAGGACCACATATCATTCCTTAAGAATCATATACATATACCAAGGATCAAGTATGTG
1 ATGTCCCAAAGGACCACATATCATTCCTTAAGAATCATATACATATACCAAGGATCAAGTATGTG
*
760759 TCTCACCAGACCTCACACATGTTCCAGAGAATACATAT
66 TCTCACCAGACCTCACACATGTTCCAAAGAATACATAT
* * *
760797 ATGTCCCGAAGGACCACATATCATTCCTTAAGAATCATATATATATACCAAGGATCAAATATGTG
1 ATGTCCCAAAGGACCACATATCATTCCTTAAGAATCATATACATATACCAAGGATCAAGTATGTG
760862 TCTCACCAGACCTCACACATGTTCCAAAGAATACATAT
66 TCTCACCAGACCTCACACATGTTCCAAAGAATACATAT
*
760900 ATGTCCCGAAGGACCACATA
1 ATGTCCCAAAGGACCACATA
760920 GACCCTCTAC
Statistics
Matches: 217, Mismatches: 8, Indels: 2
0.96 0.04 0.01
Matches are distributed among these distances:
103 214 0.99
104 3 0.01
ACGTcount: A:0.37, C:0.25, G:0.12, T:0.26
Consensus pattern (103 bp):
ATGTCCCAAAGGACCACATATCATTCCTTAAGAATCATATACATATACCAAGGATCAAGTATGTG
TCTCACCAGACCTCACACATGTTCCAAAGAATACATAT
Found at i:761235 original size:23 final size:23
Alignment explanation
Indices: 761209--761261 Score: 79
Period size: 23 Copynumber: 2.3 Consensus size: 23
761199 CACTCACCTA
761209 AGTGCCACGTAGAATTGCACCGG
1 AGTGCCACGTAGAATTGCACCGG
* * *
761232 AGTGTCGCGTAGAATTGCACCGT
1 AGTGCCACGTAGAATTGCACCGG
761255 AGTGCCA
1 AGTGCCA
761262 TATAATAATG
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.25, C:0.25, G:0.30, T:0.21
Consensus pattern (23 bp):
AGTGCCACGTAGAATTGCACCGG
Found at i:761403 original size:103 final size:103
Alignment explanation
Indices: 761269--761597 Score: 579
Period size: 103 Copynumber: 3.2 Consensus size: 103
761259 CCATATAATA
* *
761269 ATGT-CCATAAGGACCACATATCATTCCTTAAGAATTATATACATATGCCAAGGATCAAGTATGT
1 ATGTCCCA-AAGGACCACATATCATTCCTTAAGAATCATATACATATACCAAGGATCAAGTATGT
761333 GTCTCACCAGACCTCACACATGTTCCAAAGAATACATAT
65 GTCTCACCAGACCTCACACATGTTCCAAAGAATACATAT
*
761372 ATGTCTCAAAGGACCACATATCATTCCTTAAGAATCATATACATATACCAAGGATCAAGTATGTG
1 ATGTCCCAAAGGACCACATATCATTCCTTAAGAATCATATACATATACCAAGGATCAAGTATGTG
761437 TCTCACCAGACCTCACACATGTTCCAAAGAATACATAT
66 TCTCACCAGACCTCACACATGTTCCAAAGAATACATAT
* * *
761475 ATGTCCCGAAGGACCACATATCATTCCTTAAGAATCATATATATATACCAAGGATCAAATATGTG
1 ATGTCCCAAAGGACCACATATCATTCCTTAAGAATCATATACATATACCAAGGATCAAGTATGTG
761540 TCTCACCAGACCTCACACATGTTCCAAAGAATACATAT
66 TCTCACCAGACCTCACACATGTTCCAAAGAATACATAT
*
761578 ATGTCCCGAAGGACCACATA
1 ATGTCCCAAAGGACCACATA
761598 GACCCTCTAC
Statistics
Matches: 218, Mismatches: 7, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
103 216 0.99
104 2 0.01
ACGTcount: A:0.37, C:0.24, G:0.12, T:0.26
Consensus pattern (103 bp):
ATGTCCCAAAGGACCACATATCATTCCTTAAGAATCATATACATATACCAAGGATCAAGTATGTG
TCTCACCAGACCTCACACATGTTCCAAAGAATACATAT
Found at i:761822 original size:678 final size:678
Alignment explanation
Indices: 760525--761886 Score: 2697
Period size: 678 Copynumber: 2.0 Consensus size: 678
760515 CATATAATTG
760525 CACCTAAGTGCCACGTAGAATTGCACCGGAGTGTCGCGTAGAATTGCACCGTAGTGCCATATAAT
1 CACCTAAGTGCCACGTAGAATTGCACCGGAGTGTCGCGTAGAATTGCACCGTAGTGCCATATAAT
760590 AATGTCCATAAGGACCACATATCATTCCTTAAAAATTATATACATATGCCAAGGATCAAGTATGT
66 AATGTCCATAAGGACCACATATCATTCCTTAAAAATTATATACATATGCCAAGGATCAAGTATGT
760655 GTCTCACCAGACCTCACACATGTTCCAAAGAATACATATATGTCCCAAAGGACCACATATCATTC
131 GTCTCACCAGACCTCACACATGTTCCAAAGAATACATATATGTCCCAAAGGACCACATATCATTC
760720 CTTAAGAATCATATACATATACCAAGGATCAAGTATGTGTCTCACCAGACCTCACACATGTTCCA
196 CTTAAGAATCATATACATATACCAAGGATCAAGTATGTGTCTCACCAGACCTCACACATGTTCCA
*
760785 GAGAATACATATATGTCCCGAAGGACCACATATCATTCCTTAAGAATCATATATATATACCAAGG
261 AAGAATACATATATGTCCCGAAGGACCACATATCATTCCTTAAGAATCATATATATATACCAAGG
760850 ATCAAATATGTGTCTCACCAGACCTCACACATGTTCCAAAGAATACATATATGTCCCGAAGGACC
326 ATCAAATATGTGTCTCACCAGACCTCACACATGTTCCAAAGAATACATATATGTCCCGAAGGACC
760915 ACATAGACCCTCTACCCTTGGCATGCCAACTATACCTATAGTTCTCATTTACATAACATGGGCTT
391 ACATAGACCCTCTACCCTTGGCATGCCAACTATACCTATAGTTCTCATTTACATAACATGGGCTT
760980 TTACAATTTATCTAATTTATATCACGTAGACATATTATTTCCATACCTTTATCATATAACTCATA
456 TTACAATTTATCTAATTTATATCACGTAGACATATTATTTCCATACCTTTATCATATAACTCATA
761045 TAACTTTTTCTTTCATATTCATGTCCCATAATGCATACGGTATGGATTCATGTCATATATCATCA
521 TAACTTTTTCTTTCATATTCATGTCCCATAATGCATACGGTATGGATTCATGTCATATATCATCA
761110 TATGAACTACGATCATGTATCAAAATATTGAATCTAGACTTATCACAAGTCTAGAACTGAATAAA
586 TATGAACTACGATCATGTATCAAAATATTGAATCTAGACTTATCACAAGTCTAGAACTGAATAAA
761175 ATACATATTCATGCTATGCATATGCACT
651 ATACATATTCATGCTATGCATATGCACT
761203 CACCTAAGTGCCACGTAGAATTGCACCGGAGTGTCGCGTAGAATTGCACCGTAGTGCCATATAAT
1 CACCTAAGTGCCACGTAGAATTGCACCGGAGTGTCGCGTAGAATTGCACCGTAGTGCCATATAAT
*
761268 AATGTCCATAAGGACCACATATCATTCCTTAAGAATTATATACATATGCCAAGGATCAAGTATGT
66 AATGTCCATAAGGACCACATATCATTCCTTAAAAATTATATACATATGCCAAGGATCAAGTATGT
*
761333 GTCTCACCAGACCTCACACATGTTCCAAAGAATACATATATGTCTCAAAGGACCACATATCATTC
131 GTCTCACCAGACCTCACACATGTTCCAAAGAATACATATATGTCCCAAAGGACCACATATCATTC
761398 CTTAAGAATCATATACATATACCAAGGATCAAGTATGTGTCTCACCAGACCTCACACATGTTCCA
196 CTTAAGAATCATATACATATACCAAGGATCAAGTATGTGTCTCACCAGACCTCACACATGTTCCA
761463 AAGAATACATATATGTCCCGAAGGACCACATATCATTCCTTAAGAATCATATATATATACCAAGG
261 AAGAATACATATATGTCCCGAAGGACCACATATCATTCCTTAAGAATCATATATATATACCAAGG
761528 ATCAAATATGTGTCTCACCAGACCTCACACATGTTCCAAAGAATACATATATGTCCCGAAGGACC
326 ATCAAATATGTGTCTCACCAGACCTCACACATGTTCCAAAGAATACATATATGTCCCGAAGGACC
761593 ACATAGACCCTCTACCCTTGGCATGCCAACTATACCTATAGTTCTCATTTACATAACATGGGCTT
391 ACATAGACCCTCTACCCTTGGCATGCCAACTATACCTATAGTTCTCATTTACATAACATGGGCTT
761658 TTACAATTTATCTAATTTATATCACGTAGACATATTATTTCCATACCTTTATCATATAACTCATA
456 TTACAATTTATCTAATTTATATCACGTAGACATATTATTTCCATACCTTTATCATATAACTCATA
761723 TAACTTTTTCTTTCATATTCATGTCCCATAATGCATACGGTATGGATTCATGTCATATATCATCA
521 TAACTTTTTCTTTCATATTCATGTCCCATAATGCATACGGTATGGATTCATGTCATATATCATCA
761788 TATGAACTACGATCATGTATCAAAATATTGAATCTAGACTTATCACAAGTCTAGAACTGAATAAA
586 TATGAACTACGATCATGTATCAAAATATTGAATCTAGACTTATCACAAGTCTAGAACTGAATAAA
761853 ATACATATTCATGCTATGCATATGCACT
651 ATACATATTCATGCTATGCATATGCACT
761881 CACCTA
1 CACCTA
761887 GATTTCTTTG
Statistics
Matches: 681, Mismatches: 3, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
678 681 1.00
ACGTcount: A:0.35, C:0.23, G:0.12, T:0.30
Consensus pattern (678 bp):
CACCTAAGTGCCACGTAGAATTGCACCGGAGTGTCGCGTAGAATTGCACCGTAGTGCCATATAAT
AATGTCCATAAGGACCACATATCATTCCTTAAAAATTATATACATATGCCAAGGATCAAGTATGT
GTCTCACCAGACCTCACACATGTTCCAAAGAATACATATATGTCCCAAAGGACCACATATCATTC
CTTAAGAATCATATACATATACCAAGGATCAAGTATGTGTCTCACCAGACCTCACACATGTTCCA
AAGAATACATATATGTCCCGAAGGACCACATATCATTCCTTAAGAATCATATATATATACCAAGG
ATCAAATATGTGTCTCACCAGACCTCACACATGTTCCAAAGAATACATATATGTCCCGAAGGACC
ACATAGACCCTCTACCCTTGGCATGCCAACTATACCTATAGTTCTCATTTACATAACATGGGCTT
TTACAATTTATCTAATTTATATCACGTAGACATATTATTTCCATACCTTTATCATATAACTCATA
TAACTTTTTCTTTCATATTCATGTCCCATAATGCATACGGTATGGATTCATGTCATATATCATCA
TATGAACTACGATCATGTATCAAAATATTGAATCTAGACTTATCACAAGTCTAGAACTGAATAAA
ATACATATTCATGCTATGCATATGCACT
Found at i:761992 original size:10 final size:10
Alignment explanation
Indices: 761977--762006 Score: 60
Period size: 10 Copynumber: 3.0 Consensus size: 10
761967 CTCACGTATG
761977 AAGAAGAAGA
1 AAGAAGAAGA
761987 AAGAAGAAGA
1 AAGAAGAAGA
761997 AAGAAGAAGA
1 AAGAAGAAGA
762007 GAACTCTGTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (10 bp):
AAGAAGAAGA
Found at i:771167 original size:15 final size:15
Alignment explanation
Indices: 771119--771170 Score: 68
Period size: 15 Copynumber: 3.5 Consensus size: 15
771109 TGAGACCTTA
*
771119 CCCGCCCTGCATCCG
1 CCCGCCCTACATCCG
* *
771134 CCCACCCCACATCCG
1 CCCGCCCTACATCCG
*
771149 CCCGCCCTACATCTG
1 CCCGCCCTACATCCG
771164 CCCGCCC
1 CCCGCCC
771171 ACTAAATACC
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
15 31 1.00
ACGTcount: A:0.12, C:0.63, G:0.13, T:0.12
Consensus pattern (15 bp):
CCCGCCCTACATCCG
Found at i:775245 original size:33 final size:34
Alignment explanation
Indices: 775177--775265 Score: 144
Period size: 33 Copynumber: 2.6 Consensus size: 34
775167 TCTCTGTCCC
*
775177 AATTATATATATATAATATATTATATTTTTTATATT
1 AATTATATATA-A-AATATTTTATATTTTTTATATT
775213 AATTATATATAAAATATTTTATA-TTTTTATATT
1 AATTATATATAAAATATTTTATATTTTTTATATT
775246 AATTATATATAAAATATTTT
1 AATTATATATAAAATATTTT
775266 CGGGTTCGGG
Statistics
Matches: 52, Mismatches: 1, Indels: 3
0.93 0.02 0.05
Matches are distributed among these distances:
33 30 0.58
34 10 0.19
35 1 0.02
36 11 0.21
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (34 bp):
AATTATATATAAAATATTTTATATTTTTTATATT
Found at i:778571 original size:3 final size:3
Alignment explanation
Indices: 778563--778613 Score: 66
Period size: 3 Copynumber: 16.7 Consensus size: 3
778553 TGTAATATAT
* **
778563 TAA TAA TAAA TAA TAA TAA TAA TAA TAA TAA AAA TAA CGA TAA TAA
1 TAA TAA T-AA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
778609 TAA TA
1 TAA TA
778614 TACAAAAAAG
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
3 38 0.93
4 3 0.07
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.29
Consensus pattern (3 bp):
TAA
Found at i:778961 original size:88 final size:88
Alignment explanation
Indices: 778775--779225 Score: 329
Period size: 88 Copynumber: 5.3 Consensus size: 88
778765 GGACGCCACT
* ** * * *
778775 GCTCATACGTGATGAAGAG-TTTGGTTATCTATGGT--TGACACGGCTCCTACGTGATGAAGAGA
1 GCTCATACGTGATGAAGAGATCTGGCCATCTAAGGTGATAACACGGCTCATACGTGATGAAGAGA
* *
778837 TCTGG---TC-GGGGAATGACACG
66 GCTGGTTATCTAGGG-ATGACACG
* * * *
778857 GCTCATACGTGATGAAGAGTTCTGGCCATCTAAAGGTGATAACACGGTTCCTACGTGATGAGGAC
1 GCTCATACGTGATGAAGAGATCTGGCCATCT-AAGGTGATAACACGGCTCATACGTGATGAAGA-
778922 G-GCTGGTTATCTAGGG-TGACACG
64 GAGCTGGTTATCTAGGGATGACACG
* ** * *
778945 GCTCATACGTGATGAAGAGAACTGG---TC-GGGGT-ATGACACGGCTCATACGTGATGAAGAGT
1 GCTCATACGTGATGAAGAGATCTGGCCATCTAAGGTGATAACACGGCTCATACGTGATGAAGAGA
* ** *
779005 TCTGGCCATCTAAAGGTGATAACACG
66 GCTGGTTATCT--AGG-GATGACACG
* * * * ** *
779031 GTTCCTACGTGATGAGGACG-GCTGGTTATCT-AGG-G-TGACACGGCTCATACGTGATGAAGAG
1 GCTCATACGTGATGAAGA-GATCTGGCCATCTAAGGTGATAACACGGCTCATACGTGATGAAGAG
* *
779092 ATCTGG---TC-GGGGTATGACACG
65 AGCTGGTTATCTAGGG-ATGACACG
* * * * *
779113 GCTCATACATGATGAAGAGTTCTGGCCATCTAAAGGTGATAACACGGTTCCTACGTGATGAGGAC
1 GCTCATACGTGATGAAGAGATCTGGCCATCT-AAGGTGATAACACGGCTCATACGTGATGAAGA-
779178 G-GCTGGTTATCTAGGG-TGACACG
64 GAGCTGGTTATCTAGGGATGACACG
779201 GCTCATACGTGATGAAGAGATCTGG
1 GCTCATACGTGATGAAGAGATCTGG
779226 TCGGGGAATG
Statistics
Matches: 294, Mismatches: 44, Indels: 56
0.75 0.11 0.14
Matches are distributed among these distances:
81 3 0.01
82 80 0.27
83 11 0.04
84 10 0.03
85 6 0.02
86 76 0.26
87 3 0.01
88 91 0.31
89 8 0.03
90 6 0.02
ACGTcount: A:0.25, C:0.18, G:0.31, T:0.25
Consensus pattern (88 bp):
GCTCATACGTGATGAAGAGATCTGGCCATCTAAGGTGATAACACGGCTCATACGTGATGAAGAGA
GCTGGTTATCTAGGGATGACACG
Found at i:779318 original size:128 final size:128
Alignment explanation
Indices: 778796--779311 Score: 969
Period size: 128 Copynumber: 4.0 Consensus size: 128
778786 ATGAAGAGTT
* *
778796 TGGTTATCTATGGTTGACACGGCTCCTACGTGATGAAGAGATCTGGTCGGGGAATGACACGGCTC
1 TGGTTATCTA-GGGTGACACGGCTCATACGTGATGAAGAGATCTGGTCGGGGAATGACACGGCTC
778861 ATACGTGATGAAGAGTTCTGGCCATCTAAAGGTGATAACACGGTTCCTACGTGATGAGGACGGC
65 ATACGTGATGAAGAGTTCTGGCCATCTAAAGGTGATAACACGGTTCCTACGTGATGAGGACGGC
* *
778925 TGGTTATCTAGGGTGACACGGCTCATACGTGATGAAGAGAACTGGTCGGGGTATGACACGGCTCA
1 TGGTTATCTAGGGTGACACGGCTCATACGTGATGAAGAGATCTGGTCGGGGAATGACACGGCTCA
778990 TACGTGATGAAGAGTTCTGGCCATCTAAAGGTGATAACACGGTTCCTACGTGATGAGGACGGC
66 TACGTGATGAAGAGTTCTGGCCATCTAAAGGTGATAACACGGTTCCTACGTGATGAGGACGGC
*
779053 TGGTTATCTAGGGTGACACGGCTCATACGTGATGAAGAGATCTGGTCGGGGTATGACACGGCTCA
1 TGGTTATCTAGGGTGACACGGCTCATACGTGATGAAGAGATCTGGTCGGGGAATGACACGGCTCA
*
779118 TACATGATGAAGAGTTCTGGCCATCTAAAGGTGATAACACGGTTCCTACGTGATGAGGACGGC
66 TACGTGATGAAGAGTTCTGGCCATCTAAAGGTGATAACACGGTTCCTACGTGATGAGGACGGC
779181 TGGTTATCTAGGGTGACACGGCTCATACGTGATGAAGAGATCTGGTCGGGGAATGACACGGCTCA
1 TGGTTATCTAGGGTGACACGGCTCATACGTGATGAAGAGATCTGGTCGGGGAATGACACGGCTCA
779246 TACGTGATGAAGAGTTCTGGCCATCTAAAGGTGATAACACGGTTCCTACGTGATGAGGACGGC
66 TACGTGATGAAGAGTTCTGGCCATCTAAAGGTGATAACACGGTTCCTACGTGATGAGGACGGC
779309 TGG
1 TGG
779312 CCATCTAAAA
Statistics
Matches: 379, Mismatches: 8, Indels: 1
0.98 0.02 0.00
Matches are distributed among these distances:
128 369 0.97
129 10 0.03
ACGTcount: A:0.25, C:0.19, G:0.32, T:0.24
Consensus pattern (128 bp):
TGGTTATCTAGGGTGACACGGCTCATACGTGATGAAGAGATCTGGTCGGGGAATGACACGGCTCA
TACGTGATGAAGAGTTCTGGCCATCTAAAGGTGATAACACGGTTCCTACGTGATGAGGACGGC
Found at i:779320 original size:46 final size:45
Alignment explanation
Indices: 778775--779319 Score: 356
Period size: 40 Copynumber: 12.7 Consensus size: 45
778765 GGACGCCACT
** *
778775 GCTCATACGTGATGAAGAGTT-TGGTTATCTATGGT--TGACACG
1 GCTCATACGTGATGAAGAGTTCTGGCCATCTAAGGTGATGACACG
* * *
778817 GCTCCTACGTGATGAAGAGATCTGG---TC---GGGGAATGACACG
1 GCTCATACGTGATGAAGAGTTCTGGCCATCTAAGGTG-ATGACACG
*
778857 GCTCATACGTGATGAAGAGTTCTGGCCATCTAAAGGTGATAACACG
1 GCTCATACGTGATGAAGAGTTCTGGCCATCT-AAGGTGATGACACG
* * * * **
778903 GTTCCTACGTGATGAGGACG-GCTGGTTATCT-AGG-G-TGACACG
1 GCTCATACGTGATGAAGA-GTTCTGGCCATCTAAGGTGATGACACG
** **
778945 GCTCATACGTGATGAAGAGAACTGG---TC-GGGGT-ATGACACG
1 GCTCATACGTGATGAAGAGTTCTGGCCATCTAAGGTGATGACACG
*
778985 GCTCATACGTGATGAAGAGTTCTGGCCATCTAAAGGTGATAACACG
1 GCTCATACGTGATGAAGAGTTCTGGCCATCT-AAGGTGATGACACG
* * * * **
779031 GTTCCTACGTGATGAGGACG-GCTGGTTATCT-AGG-G-TGACACG
1 GCTCATACGTGATGAAGA-GTTCTGGCCATCTAAGGTGATGACACG
* **
779073 GCTCATACGTGATGAAGAGATCTGG---TC-GGGGT-ATGACACG
1 GCTCATACGTGATGAAGAGTTCTGGCCATCTAAGGTGATGACACG
* *
779113 GCTCATACATGATGAAGAGTTCTGGCCATCTAAAGGTGATAACACG
1 GCTCATACGTGATGAAGAGTTCTGGCCATCT-AAGGTGATGACACG
* * * * **
779159 GTTCCTACGTGATGAGGACG-GCTGGTTATCT-AGG-G-TGACACG
1 GCTCATACGTGATGAAGA-GTTCTGGCCATCTAAGGTGATGACACG
* *
779201 GCTCATACGTGATGAAGAGATCTGG---TC---GGGGAATGACACG
1 GCTCATACGTGATGAAGAGTTCTGGCCATCTAAGGTG-ATGACACG
*
779241 GCTCATACGTGATGAAGAGTTCTGGCCATCTAAAGGTGATAACACG
1 GCTCATACGTGATGAAGAGTTCTGGCCATCT-AAGGTGATGACACG
* * * *
779287 GTTCCTACGTGATGAGGACG-GCTGGCCATCTAA
1 GCTCATACGTGATGAAGA-GTTCTGGCCATCTAA
779320 AAGTTATGGT
Statistics
Matches: 397, Mismatches: 60, Indels: 89
0.73 0.11 0.16
Matches are distributed among these distances:
37 4 0.01
38 1 0.00
39 10 0.03
40 123 0.31
41 3 0.01
42 94 0.24
43 14 0.04
44 9 0.02
45 8 0.02
46 121 0.30
47 10 0.03
ACGTcount: A:0.26, C:0.19, G:0.31, T:0.24
Consensus pattern (45 bp):
GCTCATACGTGATGAAGAGTTCTGGCCATCTAAGGTGATGACACG
Found at i:779477 original size:36 final size:36
Alignment explanation
Indices: 779437--779511 Score: 91
Period size: 36 Copynumber: 2.1 Consensus size: 36
779427 GTTTCAAAGG
*
779437 AAATGACTCAAAGATT-GTTTAAAGGAAAACTG-TCTC
1 AAATGACACAAA-ATTCGTTTAAAGGAAAA-TGATCTC
* *
779473 AAATGAGACAAAATTCGTTTAAAGGGAAATGATCTC
1 AAATGACACAAAATTCGTTTAAAGGAAAATGATCTC
779509 AAA
1 AAA
779512 GATGTTTGTT
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
35 5 0.15
36 29 0.85
ACGTcount: A:0.45, C:0.12, G:0.17, T:0.25
Consensus pattern (36 bp):
AAATGACACAAAATTCGTTTAAAGGAAAATGATCTC
Found at i:779510 original size:63 final size:63
Alignment explanation
Indices: 779399--779518 Score: 165
Period size: 63 Copynumber: 1.9 Consensus size: 63
779389 TTTCAAAAGC
*
779399 AACTGTCTCTTAAAAGAGACAAAATTTTGTTTCAAAGGAAATGACTCAAAGATTGTTTAAAGGAA
1 AACTGTCTC-TAAAAGAGACAAAATTTCGTTTCAAAGGAAATGACTCAAAGA-TGTTTAAAGGAA
*
779464 AACTGTCTC-AAATGAGACAAAA-TTCGTTT-AAAGGGAAATGATCTCAAAGATGTTT
1 AACTGTCTCTAAAAGAGACAAAATTTCGTTTCAAA-GGAAATGA-CTCAAAGATGTTT
779519 GTTTTGTTTC
Statistics
Matches: 51, Mismatches: 2, Indels: 7
0.85 0.03 0.12
Matches are distributed among these distances:
61 3 0.06
62 19 0.37
63 20 0.39
65 9 0.18
ACGTcount: A:0.42, C:0.12, G:0.17, T:0.29
Consensus pattern (63 bp):
AACTGTCTCTAAAAGAGACAAAATTTCGTTTCAAAGGAAATGACTCAAAGATGTTTAAAGGAA
Found at i:779545 original size:35 final size:35
Alignment explanation
Indices: 779506--779585 Score: 92
Period size: 36 Copynumber: 2.3 Consensus size: 35
779496 GGGAAATGAT
* * *
779506 CTCAAAGATGTTTG-TTTTGTT-TCAAAGGAAACAGA
1 CTCAAAGATG-GTGATTTTGTTCCCAAA-GAAACAAA
779541 CTCAAAGATGGTGAATTTTGTTCCCAAAGAAACAAA
1 CTCAAAGATGGTG-ATTTTGTTCCCAAAGAAACAAA
779577 CTCAAAGAT
1 CTCAAAGAT
779586 TTTATATTTA
Statistics
Matches: 39, Mismatches: 3, Indels: 5
0.83 0.06 0.11
Matches are distributed among these distances:
34 2 0.05
35 10 0.26
36 23 0.59
37 4 0.10
ACGTcount: A:0.39, C:0.15, G:0.17, T:0.29
Consensus pattern (35 bp):
CTCAAAGATGGTGATTTTGTTCCCAAAGAAACAAA
Found at i:779737 original size:63 final size:64
Alignment explanation
Indices: 779658--779781 Score: 178
Period size: 64 Copynumber: 2.0 Consensus size: 64
779648 ATGTGGGTGG
* * *
779658 TTTCAAAAGAAGTTGTC-TCGAGAGACAAAATTTTGTTTCCAAAGAAACAGACTCAAAGATTTT
1 TTTCAAAAGAAATTGTCGTCAAGAGACAAAATTTTGTTTCAAAAGAAACAGACTCAAAGATTTT
* * * *
779721 TTTCAAAAGAAATTGTCGTTAAGAGATAAAATTTTGTTTTAAAAGAAACATACTCAAAGAT
1 TTTCAAAAGAAATTGTCGTCAAGAGACAAAATTTTGTTTCAAAAGAAACAGACTCAAAGAT
779782 GGATTACATC
Statistics
Matches: 53, Mismatches: 7, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
63 16 0.30
64 37 0.70
ACGTcount: A:0.43, C:0.11, G:0.15, T:0.31
Consensus pattern (64 bp):
TTTCAAAAGAAATTGTCGTCAAGAGACAAAATTTTGTTTCAAAAGAAACAGACTCAAAGATTTT
Found at i:780042 original size:75 final size:75
Alignment explanation
Indices: 779957--780098 Score: 169
Period size: 75 Copynumber: 1.9 Consensus size: 75
779947 AAAGATTTAC
* * * * *
779957 TTCAAGAGAAACTGTCTCAAGAGACACAAAATTCATTT-TAAGAGAAACAGATTCAAAGATTTTT
1 TTCAAAAGAAACTATCTCAAGAGACACAAAATTCATTTCCAA-AGAAACAAACTCAAAGATTTTT
780021 TTTTTTTTTTT
65 TTTTTTTTTTT
* * * * **
780032 TTCAAAAGAAATTATCTTAAGAGAGACAAATTTTGTTTCCAAAGAAACAAACTCAAAGATTTTTT
1 TTCAAAAGAAACTATCTCAAGAGACACAAAATTCATTTCCAAAGAAACAAACTCAAAGATTTTTT
780097 TT
66 TT
780099 CAAAGAATTA
Statistics
Matches: 55, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
75 53 0.96
76 2 0.04
ACGTcount: A:0.40, C:0.12, G:0.11, T:0.37
Consensus pattern (75 bp):
TTCAAAAGAAACTATCTCAAGAGACACAAAATTCATTTCCAAAGAAACAAACTCAAAGATTTTTT
TTTTTTTTTT
Found at i:780076 original size:36 final size:35
Alignment explanation
Indices: 780027--780142 Score: 95
Period size: 36 Copynumber: 3.5 Consensus size: 35
780017 TTTTTTTTTT
*
780027 TTTTTTTCAAAAGAAATTATCTTAAGAGAGACAAA
1 TTTTTTTCCAAAGAAATTATCTTAAGAGAGACAAA
** * *
780062 TTTTGTTTCCAAAGAAACAAAC-TCA-A-AG----A
1 TTTT-TTTCCAAAGAAATTATCTTAAGAGAGACAAA
*
780091 TTTTTTTTCAAAG-AATTATCTTAAGAGAGACAAAA
1 TTTTTTTCCAAAGAAATTATCTTAAGAGAGAC-AAA
780126 TTTTATTTCCAAAGAAA
1 TTTT-TTTCCAAAGAAA
780143 CCAACTCAAA
Statistics
Matches: 59, Mismatches: 11, Indels: 20
0.66 0.12 0.22
Matches are distributed among these distances:
27 4 0.07
28 10 0.17
29 6 0.10
30 2 0.03
33 2 0.03
34 1 0.02
35 11 0.19
36 21 0.36
37 2 0.03
ACGTcount: A:0.44, C:0.11, G:0.10, T:0.34
Consensus pattern (35 bp):
TTTTTTTCCAAAGAAATTATCTTAAGAGAGACAAA
Found at i:780110 original size:63 final size:66
Alignment explanation
Indices: 780026--780169 Score: 235
Period size: 64 Copynumber: 2.3 Consensus size: 66
780016 TTTTTTTTTT
*
780026 TTTTTTTTCAAAAGAAATTATCTTAAGAGAGAC-AAATTTTGTTTCCAAAGAAACAAACTCAAAG
1 TTTTTTTTCAAAAGAAATTATCTTAAGAGAGACAAAATTTTATTTCCAAAGAAACAAACTCAAAG
780090 A
66 A
*
780091 TTTTTTTTC-AAAG-AATTATCTTAAGAGAGACAAAATTTTATTTCCAAAGAAACCAACTCAAAG
1 TTTTTTTTCAAAAGAAATTATCTTAAGAGAGACAAAATTTTATTTCCAAAGAAACAAACTCAAAG
780154 A
66 A
780155 --TTTTTTCAAAAGAAA
1 TTTTTTTTCAAAAGAAA
780170 CAATCTCAAA
Statistics
Matches: 74, Mismatches: 2, Indels: 7
0.89 0.02 0.08
Matches are distributed among these distances:
62 7 0.09
63 22 0.30
64 36 0.49
65 9 0.12
ACGTcount: A:0.44, C:0.12, G:0.10, T:0.33
Consensus pattern (66 bp):
TTTTTTTTCAAAAGAAATTATCTTAAGAGAGACAAAATTTTATTTCCAAAGAAACAAACTCAAAG
A
Found at i:780166 original size:27 final size:27
Alignment explanation
Indices: 780131--780187 Score: 89
Period size: 27 Copynumber: 2.1 Consensus size: 27
780121 CAAAATTTTA
*
780131 TTTCCAAAGAAACCAA-CTCAAAGATTT
1 TTTCAAAAGAAA-CAATCTCAAAGATTT
780158 TTTCAAAAGAAACAATCTCAAAGATTT
1 TTTCAAAAGAAACAATCTCAAAGATTT
780185 TTT
1 TTT
780188 TTCACAAAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
26 3 0.11
27 25 0.89
ACGTcount: A:0.44, C:0.18, G:0.07, T:0.32
Consensus pattern (27 bp):
TTTCAAAAGAAACAATCTCAAAGATTT
Found at i:780345 original size:28 final size:27
Alignment explanation
Indices: 780289--780449 Score: 166
Period size: 28 Copynumber: 5.7 Consensus size: 27
780279 AAATAAATAG
* *
780289 ACTCAAAGA-TATTTTCAAAAGAA-ACA
1 ACTCAAAGATTTTTTTCAAAGGAACA-A
780315 ACTCAAAGATTTTTATTCAAAGGAACAA
1 ACTCAAAGATTTTT-TTCAAAGGAACAA
* *
780343 ACTCCAAGATTTTTATTCAAAAGGAGCAA
1 ACTCAAAGATTTTT-TTC-AAAGGAACAA
780372 ACTCAAAGA-TTTTTTCAAGAGGAACAA
1 ACTCAAAGATTTTTTTCAA-AGGAACAA
*
780399 ACTCAAAGATTTTTTTTTCAAGAGAAACAA
1 ACTCAAAGA--TTTTTTTCAA-AGGAACAA
*
780429 ACCCAAAGATTTTTTTTCAAA
1 ACTCAAAGA-TTTTTTTCAAA
780450 AGAAATTGTC
Statistics
Matches: 119, Mismatches: 8, Indels: 14
0.84 0.06 0.10
Matches are distributed among these distances:
26 11 0.09
27 22 0.18
28 32 0.27
29 29 0.24
30 25 0.21
ACGTcount: A:0.45, C:0.16, G:0.11, T:0.29
Consensus pattern (27 bp):
ACTCAAAGATTTTTTTCAAAGGAACAA
Found at i:780366 original size:29 final size:29
Alignment explanation
Indices: 780289--780451 Score: 185
Period size: 29 Copynumber: 5.8 Consensus size: 29
780279 AAATAAATAG
* *
780289 ACTCAAAGA-TATT-TTCAAAAGAAAC-A
1 ACTCAAAGATTTTTATTCAAAAGGAACAA
780315 ACTCAAAGATTTTTATTC-AAAGGAACAA
1 ACTCAAAGATTTTTATTCAAAAGGAACAA
* *
780343 ACTCCAAGATTTTTATTCAAAAGGAGCAA
1 ACTCAAAGATTTTTATTCAAAAGGAACAA
*
780372 ACTCAAAGA-TTTT-TTCAAGAGGAACAA
1 ACTCAAAGATTTTTATTCAAAAGGAACAA
* * *
780399 ACTCAAAGATTTTTTTTTCAAGAGAAACAA
1 ACTCAAAGA-TTTTTATTCAAAAGGAACAA
* *
780429 ACCCAAAGATTTTTTTTCAAAAG
1 ACTCAAAGATTTTTATTCAAAAG
780452 AAATTGTCTT
Statistics
Matches: 120, Mismatches: 10, Indels: 11
0.85 0.07 0.08
Matches are distributed among these distances:
26 9 0.08
27 31 0.26
28 25 0.21
29 34 0.28
30 21 0.17
ACGTcount: A:0.45, C:0.15, G:0.11, T:0.29
Consensus pattern (29 bp):
ACTCAAAGATTTTTATTCAAAAGGAACAA
Found at i:780378 original size:57 final size:57
Alignment explanation
Indices: 780302--780449 Score: 194
Period size: 57 Copynumber: 2.6 Consensus size: 57
780292 CAAAGATATT
*
780302 TTCAAAAGAAAC-AACTCAAAGATTTTTATTCAAAGGAACAAACTCCAAGA-TTTTTA
1 TTCAAAAGAAACAAACTCAAAGATTTTT-TTCAAAGGAACAAACTCAAAGATTTTTTA
* * *
780358 TTCAAAAGGAGCAAACTCAAAGA-TTTTTTCAAGAGGAACAAACTCAAAGATTTTTTT
1 TTCAAAAGAAACAAACTCAAAGATTTTTTTCAA-AGGAACAAACTCAAAGATTTTTTA
* *
780415 TTCAAGAGAAACAAACCCAAAGATTTTTTTTCAAA
1 TTCAAAAGAAACAAACTCAAAGA-TTTTTTTCAAA
780450 AGAAATTGTC
Statistics
Matches: 79, Mismatches: 8, Indels: 8
0.83 0.08 0.08
Matches are distributed among these distances:
55 5 0.06
56 30 0.38
57 34 0.43
58 1 0.01
59 9 0.11
ACGTcount: A:0.45, C:0.16, G:0.11, T:0.29
Consensus pattern (57 bp):
TTCAAAAGAAACAAACTCAAAGATTTTTTTCAAAGGAACAAACTCAAAGATTTTTTA
Found at i:780453 original size:29 final size:29
Alignment explanation
Indices: 780274--780454 Score: 185
Period size: 27 Copynumber: 6.4 Consensus size: 29
780264 CAAAACTTTG
* * * *
780274 TTTCAAAATAAATAGACTCAAAGA--TAT
1 TTTCAAAAGAAACAAACTCAAAGATTTTT
780301 TTTCAAAAGAAAC-AACTCAAAGATTTTT
1 TTTCAAAAGAAACAAACTCAAAGATTTTT
* * *
780329 ATTC-AAAGGAACAAACTCCAAGATTTTT
1 TTTCAAAAGAAACAAACTCAAAGATTTTT
* * *
780357 ATTCAAAAGGAGCAAACTCAAAGA--TTT
1 TTTCAAAAGAAACAAACTCAAAGATTTTT
* *
780384 TTTCAAGAGGAACAAACTCAAAGATTTTTT
1 TTTCAAAAGAAACAAACTCAAAGA-TTTTT
* *
780414 TTTCAAGAGAAACAAACCCAAAGATTTTT
1 TTTCAAAAGAAACAAACTCAAAGATTTTT
780443 TTTCAAAAGAAA
1 TTTCAAAAGAAA
780455 TTGTCTTTAA
Statistics
Matches: 132, Mismatches: 15, Indels: 12
0.83 0.09 0.08
Matches are distributed among these distances:
26 9 0.07
27 42 0.32
28 23 0.17
29 33 0.25
30 25 0.19
ACGTcount: A:0.46, C:0.14, G:0.10, T:0.29
Consensus pattern (29 bp):
TTTCAAAAGAAACAAACTCAAAGATTTTT
Found at i:780771 original size:36 final size:36
Alignment explanation
Indices: 780687--780790 Score: 124
Period size: 36 Copynumber: 3.0 Consensus size: 36
780677 GAGAAAATGA
* * *
780687 TGTCTCAAGCGAGACGAAATTTG-CTTTA-AGATAT
1 TGTCTCAAGCGAGACAAAATTTGTTTTTAGAGAAAT
* **
780721 AGTCTCAAATGAGACAAAATTTGTTTTTAGAGAAAT
1 TGTCTCAAGCGAGACAAAATTTGTTTTTAGAGAAAT
*
780757 TGTCTCAAGCGAGACAAAGTTTGTTTTT-GAGAAA
1 TGTCTCAAGCGAGACAAAATTTGTTTTTAGAGAAA
780791 CGATTTCAAG
Statistics
Matches: 58, Mismatches: 10, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
34 19 0.33
35 10 0.17
36 29 0.50
ACGTcount: A:0.36, C:0.12, G:0.20, T:0.33
Consensus pattern (36 bp):
TGTCTCAAGCGAGACAAAATTTGTTTTTAGAGAAAT
Found at i:780943 original size:104 final size:100
Alignment explanation
Indices: 780758--780987 Score: 241
Period size: 104 Copynumber: 2.3 Consensus size: 100
780748 TAGAGAAATT
* * **
780758 GTCTCAAGCGAGACAAAGTTTGTTTTTGAGAAACGATTTCAAGTGAGATCAACTTTGTTTAATGT
1 GTCTCAAGCGAGACAAAATTTG-TTTTGAGAAACAAAATCAAGTGAGATCAACTTTGTTTAATGT
* *
780823 GAAACAAATCCGAAATTTGGATCTCAAAGG-GAAAG
65 GAAACAAATCCAAAATTTGGATCTCAAAGGAAAAAG
* *
780858 GTCTCAAGCGAGACAAAATTTGTTTTGAAAGAAACAACAATCTAAGGTGAGATTAATTTTGTTT-
1 GTCTCAAGCGAGACAAAATTTGTTTTG--AGAAACAA-AATC-AA-GTGAGATCAACTTTGTTTA
* * * * *
780922 TTAGTGAATCAAATTCAAAATTTGTATCTCAAAGGAAAAAT
61 AT-GTGAAACAAATCCAAAATTTGGATCTCAAAGGAAAAAG
* *
780963 GTCTCAAGCGAAACACAA-TTGTTTT
1 GTCTCAAGCGAGACAAAATTTGTTTT
780988 AAAATTCTCA
Statistics
Matches: 108, Mismatches: 15, Indels: 10
0.81 0.11 0.08
Matches are distributed among these distances:
99 5 0.05
100 21 0.19
101 7 0.06
102 2 0.02
103 3 0.03
104 51 0.47
105 19 0.18
ACGTcount: A:0.38, C:0.13, G:0.19, T:0.31
Consensus pattern (100 bp):
GTCTCAAGCGAGACAAAATTTGTTTTGAGAAACAAAATCAAGTGAGATCAACTTTGTTTAATGTG
AAACAAATCCAAAATTTGGATCTCAAAGGAAAAAG
Found at i:781461 original size:4 final size:4
Alignment explanation
Indices: 781452--781491 Score: 66
Period size: 4 Copynumber: 10.5 Consensus size: 4
781442 TGTATCATGG
781452 ATGT ATGT ATGT ATGT ATGT ATGT ATG- -TGT ATGT ATGT AT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT AT
781492 ATACTTTTCT
Statistics
Matches: 34, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
2 2 0.06
4 32 0.94
ACGTcount: A:0.25, C:0.00, G:0.25, T:0.50
Consensus pattern (4 bp):
ATGT
Found at i:789575 original size:3 final size:3
Alignment explanation
Indices: 789567--789617 Score: 66
Period size: 3 Copynumber: 16.7 Consensus size: 3
789557 TGTAATATAT
* **
789567 TAA TAA TAAA TAA TAA TAA TAA TAA TAA TAA AAA TAA CGA TAA TAA
1 TAA TAA T-AA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
789613 TAA TA
1 TAA TA
789618 TACAAAAAAG
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
3 38 0.93
4 3 0.07
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.29
Consensus pattern (3 bp):
TAA
Found at i:794124 original size:83 final size:83
Alignment explanation
Indices: 793985--794162 Score: 338
Period size: 83 Copynumber: 2.1 Consensus size: 83
793975 CTAAAGGGAA
793985 TATCGATACTACCTTTGTTATTTTTAAATCAACTAGTCGTTACTAGCTGTTGGGGCCTGGTGGTA
1 TATCGATACTACCTTTGTTATTTTTAAATCAACTAGTCGTTACTAGCTGTTGGGGCCTGGTGGTA
* *
794050 TCAATACTATGTCTATGG
66 TAAATACTATGTCAATGG
794068 TATCGATACTACCTTTGTTATTTTTAAATCAACTAGTCGTTACTAGCTGTTGGGGCCTGGTGGTA
1 TATCGATACTACCTTTGTTATTTTTAAATCAACTAGTCGTTACTAGCTGTTGGGGCCTGGTGGTA
794133 TAAATACTATGTCAATGG
66 TAAATACTATGTCAATGG
794151 TATCGATACTAC
1 TATCGATACTAC
794163 TATACAAAGT
Statistics
Matches: 93, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
83 93 1.00
ACGTcount: A:0.25, C:0.17, G:0.20, T:0.39
Consensus pattern (83 bp):
TATCGATACTACCTTTGTTATTTTTAAATCAACTAGTCGTTACTAGCTGTTGGGGCCTGGTGGTA
TAAATACTATGTCAATGG
Found at i:796039 original size:21 final size:22
Alignment explanation
Indices: 796013--796058 Score: 60
Period size: 21 Copynumber: 2.1 Consensus size: 22
796003 AAATTACACG
796013 TTTAATA-CTTAAATTATTA-AT
1 TTTAATATC-TAAATTATTATAT
*
796034 TTTAATATCTAAATTTTTATAT
1 TTTAATATCTAAATTATTATAT
796056 TTT
1 TTT
796059 TTTTAATTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
21 16 0.73
22 6 0.27
ACGTcount: A:0.37, C:0.04, G:0.00, T:0.59
Consensus pattern (22 bp):
TTTAATATCTAAATTATTATAT
Found at i:800354 original size:10 final size:10
Alignment explanation
Indices: 800333--800361 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
800323 TTTATACTGC
800333 ATAAAA-TTA
1 ATAAAATTTA
800342 ATAAAATTTA
1 ATAAAATTTA
800352 ATAAAATTTA
1 ATAAAATTTA
800362 TAACACATAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 6 0.32
10 13 0.68
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (10 bp):
ATAAAATTTA
Found at i:803857 original size:11 final size:11
Alignment explanation
Indices: 803841--803867 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
803831 ATGTATATTT
803841 TGTATTCGATC
1 TGTATTCGATC
803852 TGTATTCGATC
1 TGTATTCGATC
803863 TGTAT
1 TGTAT
803868 ATATGATGCT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.19, C:0.15, G:0.19, T:0.48
Consensus pattern (11 bp):
TGTATTCGATC
Found at i:804103 original size:2 final size:2
Alignment explanation
Indices: 804098--804133 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
804088 AATGTTTTTA
804098 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
804134 TTGGTCACAC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:805052 original size:2 final size:2
Alignment explanation
Indices: 805045--805072 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
805035 GATTGATTTG
805045 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
805073 ATGTGAATTC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:805356 original size:59 final size:60
Alignment explanation
Indices: 805284--805416 Score: 135
Period size: 60 Copynumber: 2.2 Consensus size: 60
805274 ATTTATGGGT
* * * * *
805284 AAAG-TACACAAATGATCC-CTGATTACAGGGTAGTATTTTATTAAGCCCCTCGATTATCA
1 AAAGTTACA-AAATGATCCTCCGACTACAGAGTAGTACTTTATTAAGCCACTCGATTATCA
* * * * * * *
805343 AAAGTTACAAAATGGTCCTCCGACTATAGAGTATTACTTTATTAAGTCACTCGTTTGTTA
1 AAAGTTACAAAATGATCCTCCGACTACAGAGTAGTACTTTATTAAGCCACTCGATTATCA
805403 AAAGTTACAAAATG
1 AAAGTTACAAAATG
805417 GTCATTTGAC
Statistics
Matches: 60, Mismatches: 12, Indels: 3
0.80 0.16 0.04
Matches are distributed among these distances:
59 12 0.20
60 48 0.80
ACGTcount: A:0.35, C:0.17, G:0.15, T:0.32
Consensus pattern (60 bp):
AAAGTTACAAAATGATCCTCCGACTACAGAGTAGTACTTTATTAAGCCACTCGATTATCA
Found at i:807134 original size:14 final size:15
Alignment explanation
Indices: 807115--807149 Score: 54
Period size: 14 Copynumber: 2.4 Consensus size: 15
807105 TAGAGTTTAA
807115 GATTTAAGATTTAGG
1 GATTTAAGATTTAGG
*
807130 G-TTTATGATTTAGG
1 GATTTAAGATTTAGG
807144 GATTTA
1 GATTTA
807150 CATTTAGAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
14 13 0.72
15 5 0.28
ACGTcount: A:0.29, C:0.00, G:0.26, T:0.46
Consensus pattern (15 bp):
GATTTAAGATTTAGG
Found at i:810217 original size:23 final size:23
Alignment explanation
Indices: 810188--810266 Score: 122
Period size: 23 Copynumber: 3.4 Consensus size: 23
810178 TTTTCATTTA
* *
810188 TGTTCGTTTACGTTCATTTTTTG
1 TGTTCGTTTACGTTCGTTTATTG
810211 TGTTCGTTTACGTTCGTTTATTG
1 TGTTCGTTTACGTTCGTTTATTG
*
810234 TGTTTGTTTACGTTCGTTTATTG
1 TGTTCGTTTACGTTCGTTTATTG
*
810257 TGTTTGTTTA
1 TGTTCGTTTA
810267 TCATTTAAAT
Statistics
Matches: 53, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 53 1.00
ACGTcount: A:0.09, C:0.10, G:0.20, T:0.61
Consensus pattern (23 bp):
TGTTCGTTTACGTTCGTTTATTG
Found at i:811400 original size:2 final size:2
Alignment explanation
Indices: 811393--811420 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
811383 ATTATTTTAT
811393 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
811421 ATGGATTATT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:815426 original size:6 final size:6
Alignment explanation
Indices: 815410--815446 Score: 56
Period size: 6 Copynumber: 6.2 Consensus size: 6
815400 AAAATATCTT
* *
815410 CAAATC TAAATT CAAATC CAAATC CAAATC CAAATC C
1 CAAATC CAAATC CAAATC CAAATC CAAATC CAAATC C
815447 GCAATTATTA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.49, C:0.30, G:0.00, T:0.22
Consensus pattern (6 bp):
CAAATC
Found at i:817668 original size:3 final size:3
Alignment explanation
Indices: 817660--817716 Score: 114
Period size: 3 Copynumber: 19.0 Consensus size: 3
817650 TTTATTTCAT
817660 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
817708 ATA ATA ATA
1 ATA ATA ATA
817717 TTTGGTAAAG
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 54 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:822779 original size:3 final size:3
Alignment explanation
Indices: 822771--822825 Score: 110
Period size: 3 Copynumber: 18.3 Consensus size: 3
822761 AAACGAAGAC
822771 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
822819 TAT TAT T
1 TAT TAT T
822826 GTACAGTTTG
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 52 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:822928 original size:31 final size:30
Alignment explanation
Indices: 822884--822991 Score: 83
Period size: 31 Copynumber: 3.5 Consensus size: 30
822874 ATTTAATAGA
* *
822884 TTTAATTTGATTTGATTTTAAATTTTTGAT
1 TTTATTTTAATTTGATTTTAAATTTTTGAT
* ** * *
822914 TTTACTTTTAATTTGA-GTCGAATTTAATAGGT
1 TTTA-TTTTAATTTGATTTTAAATTT--TTGAT
* * *
822946 TTTAATTTGATTTGATTTTAAAATTTTGAT
1 TTTATTTTAATTTGATTTTAAATTTTTGAT
822976 TTTATTTCTAATTTGA
1 TTTATTT-TAATTTGA
822992 GTCTGAGTTT
Statistics
Matches: 56, Mismatches: 17, Indels: 9
0.68 0.21 0.11
Matches are distributed among these distances:
30 19 0.34
31 25 0.45
32 12 0.21
ACGTcount: A:0.28, C:0.03, G:0.11, T:0.58
Consensus pattern (30 bp):
TTTATTTTAATTTGATTTTAAATTTTTGAT
Found at i:822935 original size:61 final size:62
Alignment explanation
Indices: 822870--822994 Score: 209
Period size: 62 Copynumber: 2.0 Consensus size: 62
822860 AATACTCGAT
*
822870 TCGAATTTAATA-GATTTAATTTGATTTGATTTTAAATTTTTGATTTTACTTT-TAATTTGAG
1 TCGAATTTAATAGGATTTAATTTGATTTGATTTTAAAATTTTGATTTTA-TTTCTAATTTGAG
*
822931 TCGAATTTAATAGGTTTTAATTTGATTTGATTTTAAAATTTTGATTTTATTTCTAATTTGAG
1 TCGAATTTAATAGGATTTAATTTGATTTGATTTTAAAATTTTGATTTTATTTCTAATTTGAG
822993 TC
1 TC
822995 TGAGTTTAGT
Statistics
Matches: 60, Mismatches: 2, Indels: 3
0.92 0.03 0.05
Matches are distributed among these distances:
61 15 0.25
62 45 0.75
ACGTcount: A:0.29, C:0.04, G:0.12, T:0.55
Consensus pattern (62 bp):
TCGAATTTAATAGGATTTAATTTGATTTGATTTTAAAATTTTGATTTTATTTCTAATTTGAG
Found at i:829274 original size:25 final size:25
Alignment explanation
Indices: 829228--829306 Score: 70
Period size: 25 Copynumber: 3.2 Consensus size: 25
829218 TGTGCACAAT
* * * *
829228 ATGCAATCGTAACCGCTTAAACTGA
1 ATGCAGTCATAACTGCTAAAACTGA
* *
829253 ATGTAGTTATAACTGCTAAAACTGA
1 ATGCAGTCATAACTGCTAAAACTGA
* * *
829278 ACGCAGTCGTAACTAC-AAAACTGA
1 ATGCAGTCATAACTGCTAAAACTGA
829302 ATGCA
1 ATGCA
829307 CAATATCCTT
Statistics
Matches: 42, Mismatches: 12, Indels: 1
0.76 0.22 0.02
Matches are distributed among these distances:
24 12 0.29
25 30 0.71
ACGTcount: A:0.39, C:0.20, G:0.16, T:0.24
Consensus pattern (25 bp):
ATGCAGTCATAACTGCTAAAACTGA
Found at i:831065 original size:29 final size:30
Alignment explanation
Indices: 831031--831103 Score: 96
Period size: 30 Copynumber: 2.5 Consensus size: 30
831021 AAAAACATAT
*
831031 AACTTTTAAAAATT-ACATTTTGGTC-CTTA
1 AACTTTTAAAAATTCACATTTTGGACAC-TA
* *
831060 AACTTTTATAAATTCATATTTTGGACACTA
1 AACTTTTAAAAATTCACATTTTGGACACTA
831090 AACTTTTAAAAATT
1 AACTTTTAAAAATT
831104 GTAATTTGGT
Statistics
Matches: 38, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
29 13 0.34
30 24 0.63
31 1 0.03
ACGTcount: A:0.38, C:0.12, G:0.05, T:0.44
Consensus pattern (30 bp):
AACTTTTAAAAATTCACATTTTGGACACTA
Found at i:836049 original size:27 final size:27
Alignment explanation
Indices: 836001--836052 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 27
835991 AGATATAAAA
* * *
836001 TAAATTAAATGATTAAATTAAGAATTT
1 TAAATTAAATAATCAAAATAAGAATTT
*
836028 TAAATTTAATAATCAAAATAAGAAT
1 TAAATTAAATAATCAAAATAAGAAT
836053 ATATTCATAC
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 21 1.00
ACGTcount: A:0.56, C:0.02, G:0.06, T:0.37
Consensus pattern (27 bp):
TAAATTAAATAATCAAAATAAGAATTT
Found at i:840367 original size:16 final size:16
Alignment explanation
Indices: 840348--840381 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
840338 CAATATACGA
840348 ATAAAAATATATTTAT
1 ATAAAAATATATTTAT
**
840364 ATAAATGTATATTTAT
1 ATAAAAATATATTTAT
840380 AT
1 AT
840382 TTAGATGTAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (16 bp):
ATAAAAATATATTTAT
Found at i:841131 original size:130 final size:130
Alignment explanation
Indices: 840927--841174 Score: 415
Period size: 130 Copynumber: 1.9 Consensus size: 130
840917 AATTTTCTTC
* *
840927 TAATTAGGTGGTGACATGTGTCACCAATAACATATATCATGATCATGTGTTAACACATGTCAGAT
1 TAATTAGGTGGTGACATGTGTCACCAATAACACATATCATGATCATGTGCTAACACATGTCAGAT
** *
840992 CCTGGTTAAATGATTAATTTATTAAATTTTATTTAATTTAGGACCAAATTGATAGCATATATAAA
66 CCTAATTAAATGATTAATTTATTAAATTCTATTTAATTTAGGACCAAATTGATAGCATATATAAA
* * * *
841057 TAATTAGGTGGTGACATGTGTCACCAATGACACGTGTCATGATCATGTGCTAACACATGTTAGAT
1 TAATTAGGTGGTGACATGTGTCACCAATAACACATATCATGATCATGTGCTAACACATGTCAGAT
841122 CCTAATTAAATGATTAATTTATTAAATTCTATTTAATTTAGGACCAAATTGAT
66 CCTAATTAAATGATTAATTTATTAAATTCTATTTAATTTAGGACCAAATTGAT
841175 TATATAAATA
Statistics
Matches: 109, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
130 109 1.00
ACGTcount: A:0.35, C:0.12, G:0.15, T:0.37
Consensus pattern (130 bp):
TAATTAGGTGGTGACATGTGTCACCAATAACACATATCATGATCATGTGCTAACACATGTCAGAT
CCTAATTAAATGATTAATTTATTAAATTCTATTTAATTTAGGACCAAATTGATAGCATATATAAA
Found at i:841612 original size:35 final size:35
Alignment explanation
Indices: 841562--841637 Score: 125
Period size: 35 Copynumber: 2.2 Consensus size: 35
841552 AATCTGACAT
* *
841562 AATTGAATTATTTTGGAATTTAGGGTTTAGAATGA
1 AATTGAATTACTTTGGAAATTAGGGTTTAGAATGA
*
841597 AATTGAATTACTTTGGAAATTGGGGTTTAGAATGA
1 AATTGAATTACTTTGGAAATTAGGGTTTAGAATGA
841632 AATTGA
1 AATTGA
841638 GGACTGTTTT
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
35 38 1.00
ACGTcount: A:0.36, C:0.01, G:0.24, T:0.39
Consensus pattern (35 bp):
AATTGAATTACTTTGGAAATTAGGGTTTAGAATGA
Found at i:843388 original size:12 final size:12
Alignment explanation
Indices: 843371--843421 Score: 54
Period size: 12 Copynumber: 4.3 Consensus size: 12
843361 TTCAAAGATG
843371 TTTTATATTTAA
1 TTTTATATTTAA
843383 TTTTATA-TTATA
1 TTTTATATTTA-A
*
843395 TTTGAT-TTTAA
1 TTTTATATTTAA
843406 TTTTA-ATATTAA
1 TTTTATAT-TTAA
843418 TTTT
1 TTTT
843422 TTAAATAAAT
Statistics
Matches: 33, Mismatches: 2, Indels: 8
0.77 0.05 0.19
Matches are distributed among these distances:
11 9 0.27
12 24 0.73
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (12 bp):
TTTTATATTTAA
Found at i:843437 original size:24 final size:27
Alignment explanation
Indices: 843404--843471 Score: 74
Period size: 24 Copynumber: 2.7 Consensus size: 27
843394 ATTTGATTTT
*
843404 AATTTTAATATTAATTTTTTAA-A-TA
1 AATTATAATATTAATTTTTTAATATTA
843429 AATTA-AATATT-A-TTTTTAATATTA
1 AATTATAATATTAATTTTTTAATATTA
*
843453 TATTATAGATATTAATTTT
1 AATTATA-ATATTAATTTT
843472 AATATATATT
Statistics
Matches: 35, Mismatches: 2, Indels: 9
0.76 0.04 0.20
Matches are distributed among these distances:
22 7 0.20
23 2 0.06
24 12 0.34
25 5 0.14
26 5 0.14
27 1 0.03
28 3 0.09
ACGTcount: A:0.43, C:0.00, G:0.01, T:0.56
Consensus pattern (27 bp):
AATTATAATATTAATTTTTTAATATTA
Found at i:843451 original size:12 final size:12
Alignment explanation
Indices: 843434--843484 Score: 57
Period size: 13 Copynumber: 4.0 Consensus size: 12
843424 AAATAAATTA
843434 AATATTATTTTT
1 AATATTATTTTT
*
843446 AATATTATATTAT
1 AATATTAT-TTTT
*
843459 AGATATTAATTTT
1 A-ATATTATTTTT
843472 AATATATATTTTT
1 AATAT-TATTTTT
843485 TAAATAAATT
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
12 12 0.38
13 14 0.44
14 6 0.19
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (12 bp):
AATATTATTTTT
Found at i:843483 original size:62 final size:64
Alignment explanation
Indices: 843383--843546 Score: 232
Period size: 62 Copynumber: 2.6 Consensus size: 64
843373 TTATATTTAA
*
843383 TTTT-ATATTATATT-T-GATTTTAATTTTAATAT-TAATTTTTTAAATAAATTAAATATT-A-T
1 TTTTAATATTATATTATAGATATTAATTTTAATATAT-ATTTTTTAAATAAATTAAATATTAATT
843442 TTTTAATATTATATTATAGATATTAATTTTAATATATATTTTTTAAATAAATTAAATATTAATT
1 TTTTAATATTATATTATAGATATTAATTTTAATATATATTTTTTAAATAAATTAAATATTAATT
*
843506 TTTTAATGTTATATTATAGATATTTAATTTTATATCATATA
1 TTTTAATATTATATTATAGATA-TTAATTTTA-AT-ATATA
843547 AATTATTTTA
Statistics
Matches: 94, Mismatches: 2, Indels: 10
0.89 0.02 0.09
Matches are distributed among these distances:
59 4 0.04
60 10 0.11
61 1 0.01
62 39 0.41
63 2 0.02
64 22 0.23
65 9 0.10
66 2 0.02
67 5 0.05
ACGTcount: A:0.40, C:0.01, G:0.02, T:0.57
Consensus pattern (64 bp):
TTTTAATATTATATTATAGATATTAATTTTAATATATATTTTTTAAATAAATTAAATATTAATT
Found at i:843592 original size:20 final size:19
Alignment explanation
Indices: 843532--843593 Score: 58
Period size: 19 Copynumber: 3.3 Consensus size: 19
843522 TAGATATTTA
*
843532 ATTTTATATCA-TATAAATT
1 ATTTTATAT-ATTATTAATT
*
843551 ATTTTATATATTATTAA-A
1 ATTTTATATATTATTAATT
843569 ATTTTATAT-TTATTTTAATT
1 ATTTTATATATTA--TTAATT
843589 ATTTT
1 ATTTT
843594 GATTTAAGTA
Statistics
Matches: 36, Mismatches: 3, Indels: 7
0.78 0.07 0.15
Matches are distributed among these distances:
17 3 0.08
18 10 0.28
19 18 0.50
20 5 0.14
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (19 bp):
ATTTTATATATTATTAATT
Found at i:844094 original size:31 final size:31
Alignment explanation
Indices: 844057--844116 Score: 102
Period size: 31 Copynumber: 1.9 Consensus size: 31
844047 TAGTTGTATG
* *
844057 AATTATTTAAATTTCAGTATTGTAAAACTAA
1 AATTATTTAAATCTCAGTATTGCAAAACTAA
844088 AATTATTTAAATCTCAGTATTGCAAAACT
1 AATTATTTAAATCTCAGTATTGCAAAACT
844117 CTTTTAAGTT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.43, C:0.10, G:0.07, T:0.40
Consensus pattern (31 bp):
AATTATTTAAATCTCAGTATTGCAAAACTAA
Found at i:855737 original size:2 final size:2
Alignment explanation
Indices: 855730--855761 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
855720 TTGGATATTT
*
855730 TC TC TC TC TC TC TC TC TT TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
855762 GGTTATTTCA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.00, C:0.47, G:0.00, T:0.53
Consensus pattern (2 bp):
TC
Found at i:856210 original size:59 final size:60
Alignment explanation
Indices: 856147--856271 Score: 130
Period size: 59 Copynumber: 2.1 Consensus size: 60
856137 AATATAATGA
* ** * **
856147 ATAGTCGA-GTAACCATTTTGTAATTTTTAATAGTTGAAGGACTCAAAAAATAACTA-TTT
1 ATAGTCGATGTAACCATTTTATAACCTTTAATAATCAAAGGACTCAAAAAAT-ACTACTTT
* * * *
856206 ATAGT-AATGTGACCATTTTATAACCTTTAATAATCAAATGACTCAAAAAATAGTACTTT
1 ATAGTCGATGTAACCATTTTATAACCTTTAATAATCAAAGGACTCAAAAAATACTACTTT
856265 ATAGTCG
1 ATAGTCG
856272 GAGACCATTT
Statistics
Matches: 52, Mismatches: 11, Indels: 5
0.76 0.16 0.07
Matches are distributed among these distances:
58 4 0.08
59 48 0.92
ACGTcount: A:0.40, C:0.12, G:0.12, T:0.36
Consensus pattern (60 bp):
ATAGTCGATGTAACCATTTTATAACCTTTAATAATCAAAGGACTCAAAAAATACTACTTT
Found at i:856681 original size:35 final size:35
Alignment explanation
Indices: 856635--856709 Score: 107
Period size: 35 Copynumber: 2.1 Consensus size: 35
856625 CACATTCATC
856635 AATTACATTCTAAACATCAAGAT-CCAAAATACTTA
1 AATTACATTCTAAACATCAA-ATCCCAAAATACTTA
* * *
856670 AATTACATTCTAAACCTCAAATCCCAAAATATTTT
1 AATTACATTCTAAACATCAAATCCCAAAATACTTA
856705 AATTA
1 AATTA
856710 TATAACCAAC
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
34 2 0.06
35 34 0.94
ACGTcount: A:0.47, C:0.20, G:0.01, T:0.32
Consensus pattern (35 bp):
AATTACATTCTAAACATCAAATCCCAAAATACTTA
Found at i:856997 original size:16 final size:17
Alignment explanation
Indices: 856967--857008 Score: 50
Period size: 16 Copynumber: 2.5 Consensus size: 17
856957 TTTAAATTTA
856967 ATTATAAATATTTATAAT
1 ATTAT-AATATTTATAAT
**
856985 ATTATAATA-TTATTTT
1 ATTATAATATTTATAAT
857001 ATTATAAT
1 ATTATAAT
857009 TCAGTTCAGT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
16 13 0.59
17 4 0.18
18 5 0.23
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (17 bp):
ATTATAATATTTATAAT
Found at i:857063 original size:146 final size:147
Alignment explanation
Indices: 856866--857155 Score: 501
Period size: 146 Copynumber: 2.0 Consensus size: 147
856856 AAATACTCAA
*
856866 TTCAGTTTATAAAATAGTTGACTCAAAATTTTTCGATTTGAGTTTATAAAATTTAAATCAAATCT
1 TTCAGTTTATAAAATAGTTGACTCAAAATTTTTCGATTTGAGTTTATAAAATTTAAATCAAATCG
856931 AATTGAATTGAATTTTCGAGTTTCTGTTTAAATTTAATTATAAATATTTATAATATTATAATATT
66 AATTGAATTGAATTTTCGAGTTTCTGTTTAAATTTAATTATAAATATTTATAATATTATAATATT
*
856996 ATTTTATTATAATTCAG
131 ATTTGATTATAATTCAG
* ** *
857013 TTCAGTTTATAAAATAGTTGACTC-GAATTTTTTTATTTGAGTTTATAAAATTTAAATCAAGTCG
1 TTCAGTTTATAAAATAGTTGACTCAAAATTTTTCGATTTGAGTTTATAAAATTTAAATCAAATCG
*
857077 AATTGAATTGAATTTTTGAGTTTCTGTTTAAATTTAATTATAAATATTTATAATATTATAATATT
66 AATTGAATTGAATTTTCGAGTTTCTGTTTAAATTTAATTATAAATATTTATAATATTATAATATT
*
857142 ATTTGATTCTAATT
131 ATTTGATTATAATT
857156 TAAATAGTTT
Statistics
Matches: 135, Mismatches: 8, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
146 111 0.82
147 24 0.18
ACGTcount: A:0.37, C:0.06, G:0.09, T:0.49
Consensus pattern (147 bp):
TTCAGTTTATAAAATAGTTGACTCAAAATTTTTCGATTTGAGTTTATAAAATTTAAATCAAATCG
AATTGAATTGAATTTTCGAGTTTCTGTTTAAATTTAATTATAAATATTTATAATATTATAATATT
ATTTGATTATAATTCAG
Found at i:857720 original size:35 final size:36
Alignment explanation
Indices: 857659--857737 Score: 124
Period size: 35 Copynumber: 2.2 Consensus size: 36
857649 GGGGTTGGGC
* *
857659 ATGTAATTGAAGTATTTTTGGAATTTGAGGTTTAGA
1 ATGTAATTAAAGCATTTTTGGAATTTGAGGTTTAGA
857695 ATGTAATTAAAGCA-TTTTGGAATTTGAGGTTTAGA
1 ATGTAATTAAAGCATTTTTGGAATTTGAGGTTTAGA
*
857730 ATATAATT
1 ATGTAATT
857738 GATGATTGTG
Statistics
Matches: 40, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
35 28 0.70
36 12 0.30
ACGTcount: A:0.34, C:0.01, G:0.22, T:0.43
Consensus pattern (36 bp):
ATGTAATTAAAGCATTTTTGGAATTTGAGGTTTAGA
Found at i:858898 original size:2 final size:2
Alignment explanation
Indices: 858891--858920 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
858881 TTAAATAAAA
*
858891 AT AT AT AT AT AT AT AT AT AT AT TT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
858921 TTTAGGTCGG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
AT
Found at i:860262 original size:19 final size:19
Alignment explanation
Indices: 860238--860277 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
860228 TTGAATTGGC
860238 ATCGTTATAACTAATCAAG
1 ATCGTTATAACTAATCAAG
860257 ATCGTTATAACTAATCAAG
1 ATCGTTATAACTAATCAAG
860276 AT
1 AT
860278 GAAGCTTTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.42, C:0.15, G:0.10, T:0.33
Consensus pattern (19 bp):
ATCGTTATAACTAATCAAG
Found at i:861110 original size:18 final size:18
Alignment explanation
Indices: 861083--861133 Score: 59
Period size: 19 Copynumber: 2.8 Consensus size: 18
861073 AATGTGTCAG
861083 TAAATAATAAAATAT-TC
1 TAAATAATAAAATATCTC
* *
861100 TAAAATCATAAATTAATCTC
1 T-AAATAATAAAAT-ATCTC
861120 TAAATAATAAAATA
1 TAAATAATAAAATA
861134 AAATAATAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 5
0.75 0.11 0.14
Matches are distributed among these distances:
17 1 0.04
18 11 0.41
19 12 0.44
20 3 0.11
ACGTcount: A:0.59, C:0.08, G:0.00, T:0.33
Consensus pattern (18 bp):
TAAATAATAAAATATCTC
Found at i:862099 original size:96 final size:96
Alignment explanation
Indices: 861935--862126 Score: 384
Period size: 96 Copynumber: 2.0 Consensus size: 96
861925 CTCTACAATA
861935 TTTGATTTAAATTAGTCAATTAATTAATTAGATATTAATAGTTATATGAAAAACAGTTTCATTCA
1 TTTGATTTAAATTAGTCAATTAATTAATTAGATATTAATAGTTATATGAAAAACAGTTTCATTCA
862000 GAGTAAACACAATTTACCGGTCGGTCAACTT
66 GAGTAAACACAATTTACCGGTCGGTCAACTT
862031 TTTGATTTAAATTAGTCAATTAATTAATTAGATATTAATAGTTATATGAAAAACAGTTTCATTCA
1 TTTGATTTAAATTAGTCAATTAATTAATTAGATATTAATAGTTATATGAAAAACAGTTTCATTCA
862096 GAGTAAACACAATTTACCGGTCGGTCAACTT
66 GAGTAAACACAATTTACCGGTCGGTCAACTT
862127 GCTCGTCGTC
Statistics
Matches: 96, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
96 96 1.00
ACGTcount: A:0.39, C:0.11, G:0.12, T:0.38
Consensus pattern (96 bp):
TTTGATTTAAATTAGTCAATTAATTAATTAGATATTAATAGTTATATGAAAAACAGTTTCATTCA
GAGTAAACACAATTTACCGGTCGGTCAACTT
Found at i:863444 original size:6 final size:6
Alignment explanation
Indices: 863426--863473 Score: 87
Period size: 6 Copynumber: 7.8 Consensus size: 6
863416 CAATTTAATT
863426 TTTATA CTTTATA TTTATA TTTATA TTTATA TTTATA TTTATA TTTAT
1 TTTATA -TTTATA TTTATA TTTATA TTTATA TTTATA TTTATA TTTAT
863474 TTAAAACTTT
Statistics
Matches: 41, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
6 35 0.85
7 6 0.15
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (6 bp):
TTTATA
Found at i:863484 original size:18 final size:18
Alignment explanation
Indices: 863426--863490 Score: 60
Period size: 18 Copynumber: 3.5 Consensus size: 18
863416 CAATTTAATT
* *
863426 TTTATACTTTATATTTATA
1 TTTATA-TTTATATTAAAA
* *
863445 TTTATATTTATATTTATA
1 TTTATATTTATATTAAAA
863463 TTTATATTTAT-TTAAAA
1 TTTATATTTATATTAAAA
863480 CTTTAATATTT
1 -TTT-ATATTT
863491 GGATTTAATT
Statistics
Matches: 42, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
17 4 0.10
18 26 0.62
19 12 0.29
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.63
Consensus pattern (18 bp):
TTTATATTTATATTAAAA
Found at i:863779 original size:17 final size:18
Alignment explanation
Indices: 863751--863784 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
863741 TCACTCTCAA
*
863751 AAAATGTAACTTTCAAAG
1 AAAATGTAACTTACAAAG
863769 AAAAT-TAACTTACAAA
1 AAAATGTAACTTACAAA
863785 TTAAATATTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.56, C:0.12, G:0.06, T:0.26
Consensus pattern (18 bp):
AAAATGTAACTTACAAAG
Found at i:876216 original size:20 final size:20
Alignment explanation
Indices: 876191--876234 Score: 88
Period size: 20 Copynumber: 2.2 Consensus size: 20
876181 TCATCCACTG
876191 ATCCTCCATTGTTCTCCATC
1 ATCCTCCATTGTTCTCCATC
876211 ATCCTCCATTGTTCTCCATC
1 ATCCTCCATTGTTCTCCATC
876231 ATCC
1 ATCC
876235 CCAAGCAATA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.16, C:0.41, G:0.05, T:0.39
Consensus pattern (20 bp):
ATCCTCCATTGTTCTCCATC
Found at i:877786 original size:40 final size:40
Alignment explanation
Indices: 877724--877803 Score: 124
Period size: 40 Copynumber: 2.0 Consensus size: 40
877714 CAATATATGG
*
877724 GATATGATATTGTTACGCAATATAAAACACTTTAGTTTTA
1 GATATGATATTGTTACACAATATAAAACACTTTAGTTTTA
* * *
877764 GATATGATATTGTTATATAATATAAAACTCTTTAGTTTTA
1 GATATGATATTGTTACACAATATAAAACACTTTAGTTTTA
877804 TATAAATTTA
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
40 36 1.00
ACGTcount: A:0.38, C:0.07, G:0.11, T:0.44
Consensus pattern (40 bp):
GATATGATATTGTTACACAATATAAAACACTTTAGTTTTA
Found at i:880550 original size:9 final size:9
Alignment explanation
Indices: 880532--880563 Score: 55
Period size: 9 Copynumber: 3.6 Consensus size: 9
880522 TGGGTCGTCA
*
880532 AGGGTTTGT
1 AGGGTATGT
880541 AGGGTATGT
1 AGGGTATGT
880550 AGGGTATGT
1 AGGGTATGT
880559 AGGGT
1 AGGGT
880564 TTTGTTTTCG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.19, C:0.00, G:0.47, T:0.34
Consensus pattern (9 bp):
AGGGTATGT
Found at i:881501 original size:25 final size:24
Alignment explanation
Indices: 881464--881511 Score: 69
Period size: 25 Copynumber: 2.0 Consensus size: 24
881454 ATTACTATTT
*
881464 TATGTATGGTATGTACATTTTTATG
1 TATGTATGGTATGCA-ATTTTTATG
*
881489 TATGTATGTTATGCAATTTTTAT
1 TATGTATGGTATGCAATTTTTAT
881512 TTTATTTTCA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 8 0.38
25 13 0.62
ACGTcount: A:0.25, C:0.04, G:0.17, T:0.54
Consensus pattern (24 bp):
TATGTATGGTATGCAATTTTTATG
Found at i:892499 original size:19 final size:20
Alignment explanation
Indices: 892477--892516 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
892467 AATGAGTGAA
892477 AATG-AAAAAATAAAAAATG
1 AATGAAAAAAATAAAAAATG
*
892496 AATGAAAAAAATGAAAAATG
1 AATGAAAAAAATAAAAAATG
892516 A
1 A
892517 GGGTTCAATA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 4 0.21
20 15 0.79
ACGTcount: A:0.72, C:0.00, G:0.12, T:0.15
Consensus pattern (20 bp):
AATGAAAAAAATAAAAAATG
Found at i:893022 original size:13 final size:13
Alignment explanation
Indices: 893004--893037 Score: 68
Period size: 13 Copynumber: 2.6 Consensus size: 13
892994 AAAGAGATAT
893004 TTTCCCTTCTTAA
1 TTTCCCTTCTTAA
893017 TTTCCCTTCTTAA
1 TTTCCCTTCTTAA
893030 TTTCCCTT
1 TTTCCCTT
893038 TTACAAGCAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.12, C:0.32, G:0.00, T:0.56
Consensus pattern (13 bp):
TTTCCCTTCTTAA
Found at i:893728 original size:55 final size:55
Alignment explanation
Indices: 893516--893709 Score: 333
Period size: 53 Copynumber: 3.6 Consensus size: 55
893506 AGATTTCCCA
*
893516 ACGATTATTGAAGATTGTTCGAGTC-C-TACTCTCTGAAGAAATAGGGAGCAGAC
1 ACGATTGTTGAAGATTGTTCGAGTCTCATACTCTCTGAAGAAATAGGGAGCAGAC
893569 ACGATTGTTGAAGATTGTTCGAGTCTCATA--CTCTGAAGAAATAGGGAGCAGAC
1 ACGATTGTTGAAGATTGTTCGAGTCTCATACTCTCTGAAGAAATAGGGAGCAGAC
*
893622 ATGATTGTTGAAGATTGTTCGAGTCTCATACTCTCTGAAGAAATAGGGAGCAGAC
1 ACGATTGTTGAAGATTGTTCGAGTCTCATACTCTCTGAAGAAATAGGGAGCAGAC
*
893677 ACGATTGTTGAAGATTGTTCGAGTTTCATACTC
1 ACGATTGTTGAAGATTGTTCGAGTCTCATACTC
893710 CCTAGTGAAA
Statistics
Matches: 133, Mismatches: 4, Indels: 6
0.93 0.03 0.04
Matches are distributed among these distances:
53 76 0.57
54 1 0.01
55 56 0.42
ACGTcount: A:0.30, C:0.15, G:0.25, T:0.29
Consensus pattern (55 bp):
ACGATTGTTGAAGATTGTTCGAGTCTCATACTCTCTGAAGAAATAGGGAGCAGAC
Found at i:893745 original size:55 final size:55
Alignment explanation
Indices: 893525--893999 Score: 314
Period size: 55 Copynumber: 8.9 Consensus size: 55
893515 AACGATTATT
* * * * * **
893525 GAAGATTGTTCGAG--TCCTACTCTCTGAAGAAATAGGGAGC-AGACACGATTGTT
1 GAAGATTGTTCGAGTTTCATACTCCCTGAAGAAAGAGGGAGCGA-ACCCGTTTGCA
* * ** * **
893578 GAAGATTGTTCGAGTCTCATACT--CTGAAGAAATAGGGAGC-AGACATGATTGTT
1 GAAGATTGTTCGAGTTTCATACTCCCTGAAGAAAGAGGGAGCGA-ACCCGTTTGCA
* * * * * **
893631 GAAGATTGTTCGAGTCTCATACTCTCTGAAGAAATAGGGAGC-AGACACGATTGTT
1 GAAGATTGTTCGAGTTTCATACTCCCTGAAGAAAGAGGGAGCGA-ACCCGTTTGCA
* * *
893686 GAAGATTGTTCGAGTTTCATACTCCCT-AGTGAAAGAGGGAGCAAACCCGTTTGAA
1 GAAGATTGTTCGAGTTTCATACTCCCTGA-AGAAAGAGGGAGCGAACCCGTTTGCA
* * *
893741 GAAGA-TATTCGAG-TTCTATTCTCCCTGAAGAAAGAGGGAGTGAACCCGTTT--A
1 GAAGATTGTTCGAGTTTC-ATACTCCCTGAAGAAAGAGGGAGCGAACCCGTTTGCA
* * * * ** *
893793 -AAGA-CGTTCGAGTTCCACACTCCCT-AGATAAAGAGGGAATGAACCCGCTTGCA
1 GAAGATTGTTCGAGTTTCATACTCCCTGA-AGAAAGAGGGAGCGAACCCGTTTGCA
* * *
893846 GAAGATTGTTCGAGTTCCATACTCCCTGAAGAAAGAGGGAGCGAACCAGTTAGCA
1 GAAGATTGTTCGAGTTTCATACTCCCTGAAGAAAGAGGGAGCGAACCCGTTTGCA
* * *
893901 GAAGATTCTT---G-TTCTATACT-CCTGAA-ACAATAGGGAGCGAACCCGTTAGCA
1 GAAGATTGTTCGAGTTTC-ATACTCCCTGAAGA-AAGAGGGAGCGAACCCGTTTGCA
* * *
893952 GAA-ATTATTCGAG-TTCTATACTCCCTGAA-CAATAGGGAGCGAACCCGT
1 GAAGATTGTTCGAGTTTC-ATACTCCCTGAAGAAAGAGGGAGCGAACCCGT
894000 CCCCAGAAGA
Statistics
Matches: 363, Mismatches: 38, Indels: 42
0.82 0.09 0.09
Matches are distributed among these distances:
50 7 0.02
51 69 0.19
52 9 0.02
53 98 0.27
54 46 0.13
55 132 0.36
56 2 0.01
ACGTcount: A:0.31, C:0.19, G:0.25, T:0.25
Consensus pattern (55 bp):
GAAGATTGTTCGAGTTTCATACTCCCTGAAGAAAGAGGGAGCGAACCCGTTTGCA
Found at i:893826 original size:105 final size:106
Alignment explanation
Indices: 893631--893892 Score: 280
Period size: 105 Copynumber: 2.4 Consensus size: 106
893621 CATGATTGTT
* * * * * *
893631 GAAGATTGTTCGAG-TCTCATACTCTCTGAAGAAATAGGGAGC-AGACACGATTGTTGAAGATTG
1 GAAGATTATTCGAGTTC-CATACTCCCTGAAGAAAGAGGGAGCGA-ACCCG--T-TTAAAGA-CG
* * * *
893694 TTCGAGTTTCATACTCCCTAGTGAAAGAGGGAGCAAACCCGTTTGAA
60 TTCGAGTTCCACACTCCCTAGTGAAAGAGGGAACAAACCCGCTTGAA
* * *
893741 GAAGA-TATTCGAGTTCTATTCTCCCTGAAGAAAGAGGGAGTGAACCCGTTTAAAGACGTTCGAG
1 GAAGATTATTCGAGTTCCATACTCCCTGAAGAAAGAGGGAGCGAACCCGTTTAAAGACGTTCGAG
** *
893805 TTCCACACTCCCTAGAT-AAAGAGGGAATGAACCCGCTTGCA
66 TTCCACACTCCCTAG-TGAAAGAGGGAACAAACCCGCTTGAA
*
893846 GAAGATTGTTCGAGTTCCATACTCCCTGAAGAAAGAGGGAGCGAACC
1 GAAGATTATTCGAGTTCCATACTCCCTGAAGAAAGAGGGAGCGAACC
893893 AGTTAGCAGA
Statistics
Matches: 128, Mismatches: 20, Indels: 12
0.80 0.12 0.08
Matches are distributed among these distances:
105 44 0.34
106 44 0.34
107 1 0.01
109 31 0.24
110 8 0.06
ACGTcount: A:0.31, C:0.20, G:0.25, T:0.24
Consensus pattern (106 bp):
GAAGATTATTCGAGTTCCATACTCCCTGAAGAAAGAGGGAGCGAACCCGTTTAAAGACGTTCGAG
TTCCACACTCCCTAGTGAAAGAGGGAACAAACCCGCTTGAA
Found at i:893936 original size:106 final size:105
Alignment explanation
Indices: 893706--894014 Score: 297
Period size: 105 Copynumber: 2.9 Consensus size: 105
893696 CGAGTTTCAT
** * * * *
893706 ACTCCCTAGTGAAAGAGGGAGCAAACCCGTTTGAAGAAGA-TATTCGAGTTCTATTCTCCCTGAA
1 ACTCCCTAGAAAAAGAGGGAACGAACCCG-TTGCAGAAGATTATTCGAGTTCTATACTCCCTGAA
* * * **
893770 GAAAGAGGGAGTGAACCCGTTTAAAGACG-TTCGAGTTCCAC
65 GAAAGAGGGAGCGAACCCG-TTACAGAAGATTCTTGTTCCAC
* * * *
893811 ACTCCCTAGATAAAGAGGGAATGAACCCGCTTGCAGAAGATTGTTCGAGTTCCATACTCCCTGAA
1 ACTCCCTAGAAAAAGAGGGAACGAACCCG-TTGCAGAAGATTATTCGAGTTCTATACTCCCTGAA
* * *
893876 GAAAGAGGGAGCGAACCAGTTAGCAGAAGATTCTTGTTCTAT
65 GAAAGAGGGAGCGAACCCGTTA-CAGAAGATTCTTGTTCCAC
* *
893918 ACT-CCT-GAAACAATAGGGAGCGAACCCGTTAGCAGAA-ATTATTCGAGTTCTATACTCCCTGA
1 ACTCCCTAGAAA-AAGAGGGAACGAACCCGTT-GCAGAAGATTATTCGAGTTCTATACTCCCTGA
* * **
893980 A-CAATAGGGAGCGAACCCGTCCCCAGAAGATTCTT
64 AGAAAGAGGGAGCGAACCCGT-TACAGAAGATTCTT
894015 CAAGTTCTAT
Statistics
Matches: 169, Mismatches: 29, Indels: 13
0.80 0.14 0.06
Matches are distributed among these distances:
104 28 0.17
105 65 0.38
106 65 0.38
107 11 0.07
ACGTcount: A:0.32, C:0.22, G:0.23, T:0.23
Consensus pattern (105 bp):
ACTCCCTAGAAAAAGAGGGAACGAACCCGTTGCAGAAGATTATTCGAGTTCTATACTCCCTGAAG
AAAGAGGGAGCGAACCCGTTACAGAAGATTCTTGTTCCAC
Found at i:893972 original size:53 final size:55
Alignment explanation
Indices: 893631--894053 Score: 278
Period size: 55 Copynumber: 7.9 Consensus size: 55
893621 CATGATTGTT
* * * **
893631 GAAGATTGTTCGAG-TCTCATACTCTCTGAAGA-AATAGGGAGC-AGACACGATT-GTT
1 GAAGATTCTTCGAGTTCT-ATACTCCCTGAA-ACAATAGGGAGCGA-ACCCG-TTAGCA
* ** * * * *
893686 GAAGATTGTTCGAGTT-TCATACTCCCTAGTGA-AAGAGGGAGCAAACCCGTTTGAA
1 GAAGATTCTTCGAGTTCT-ATACTCCCT-GAAACAATAGGGAGCGAACCCGTTAGCA
* * * * *
893741 GAAGA-TATTCGAGTTCTATTCTCCCTGAAGA-AAGAGGGAGTGAACCCGTT--TA
1 GAAGATTCTTCGAGTTCTATACTCCCTGAA-ACAATAGGGAGCGAACCCGTTAGCA
* * * * **
893793 -AAGA--CGTTCGAGTTCCACACTCCCTAGATA-AAGAGGGAATGAACCCGCTT-GCA
1 GAAGATTC-TTCGAGTTCTATACTCCCT-GAAACAATAGGGAGCGAACCCG-TTAGCA
* * * *
893846 GAAGATTGTTCGAGTTCCATACTCCCTGAAGA-AAGAGGGAGCGAACCAGTTAGCA
1 GAAGATTCTTCGAGTTCTATACTCCCTGAA-ACAATAGGGAGCGAACCCGTTAGCA
893901 GAAGATTCTT---GTTCTATACT-CCTGAAACAATAGGGAGCGAACCCGTTAGCA
1 GAAGATTCTTCGAGTTCTATACTCCCTGAAACAATAGGGAGCGAACCCGTTAGCA
* ***
893952 GAA-ATTATTCGAGTTCTATACTCCCTG-AACAATAGGGAGCGAACCCGTCCCCA
1 GAAGATTCTTCGAGTTCTATACTCCCTGAAACAATAGGGAGCGAACCCGTTAGCA
* ** *
894005 GAAGATTCTTCAAGTTCTATGTTCCCTGAAACGATAGGGAGCGAACCCG
1 GAAGATTCTTCGAGTTCTATACTCCCTGAAACAATAGGGAGCGAACCCG
894054 GTTTTGAAGA
Statistics
Matches: 306, Mismatches: 40, Indels: 44
0.78 0.10 0.11
Matches are distributed among these distances:
50 6 0.02
51 67 0.22
52 14 0.05
53 38 0.12
54 69 0.23
55 109 0.36
56 3 0.01
ACGTcount: A:0.31, C:0.21, G:0.24, T:0.24
Consensus pattern (55 bp):
GAAGATTCTTCGAGTTCTATACTCCCTGAAACAATAGGGAGCGAACCCGTTAGCA
Found at i:896115 original size:23 final size:23
Alignment explanation
Indices: 896088--896132 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
896078 ATTACTATTT
*
896088 TATGTATGGTATGTATTTTTATG
1 TATGTATGGTATGCATTTTTATG
*
896111 TATGTATGTTATGCATTTTTAT
1 TATGTATGGTATGCATTTTTAT
896133 TTTATTTTTC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.22, C:0.02, G:0.18, T:0.58
Consensus pattern (23 bp):
TATGTATGGTATGCATTTTTATG
Found at i:898806 original size:2 final size:2
Alignment explanation
Indices: 898799--898828 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
898789 ATCCTAACTC
898799 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
898829 TAGATAAAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:900606 original size:26 final size:26
Alignment explanation
Indices: 900577--900629 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
900567 TCCAACACTT
900577 ACACCCTAATCTAAGTAACATAGATG
1 ACACCCTAATCTAAGTAACATAGATG
900603 ACACCCTAATCTAAGTAACATAGATG
1 ACACCCTAATCTAAGTAACATAGATG
900629 A
1 A
900630 TAGACCCCAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.43, C:0.23, G:0.11, T:0.23
Consensus pattern (26 bp):
ACACCCTAATCTAAGTAACATAGATG
Found at i:902679 original size:44 final size:44
Alignment explanation
Indices: 902613--902700 Score: 158
Period size: 44 Copynumber: 2.0 Consensus size: 44
902603 CTGTGAACAA
*
902613 AGATATGTATTTGTGCACAAGTTTTGGTAATCTGTCTTTTTTGT
1 AGATATGTATTTGTACACAAGTTTTGGTAATCTGTCTTTTTTGT
*
902657 AGATATGTATTTGTACATAAGTTTTGGTAATCTGTCTTTTTTGT
1 AGATATGTATTTGTACACAAGTTTTGGTAATCTGTCTTTTTTGT
902701 TTTTTCTTAC
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
44 42 1.00
ACGTcount: A:0.22, C:0.08, G:0.19, T:0.51
Consensus pattern (44 bp):
AGATATGTATTTGTACACAAGTTTTGGTAATCTGTCTTTTTTGT
Found at i:909902 original size:192 final size:198
Alignment explanation
Indices: 909629--910180 Score: 602
Period size: 192 Copynumber: 2.8 Consensus size: 198
909619 ATGCCACTGG
* *
909629 GCAGCG-GCATTGAAATTCCCACCATCGTACTTGTTTGGACCAGATTGATCAGAACTGCTTCCGT
1 GCAGCGAGCATTG-AATTCCCACCATCATACTTGTTTGGACCAGATTGATCAGAATTGCTTCCGT
* * * *
909693 AGCTGCCACCGGTGCCATACTTGTTACCACCACCATAACTTCCTAGGCCTCCATAGCCACTACCA
65 AGCTACCACCAGTGCCATACTTGTTACCACCACCATAACTTCCTTGGCCTCCATAACCACTACCA
* * * * *
909758 CCTCCACCAGTTTTACCATATCCAACATTACC-GCCAGATCCACTGGTGGGAAAACTGT-CA-CA
130 ACTCCACCAGTATTACCATATCCAACATTACCAG-CAGAACCACTGGTGGAAAAACTATCCACCA
909820 A-G-C
194 ATGTC
*
909823 G-A-C-AGCATTGAGATTCCCACCATCATACTTGTTTGAACCAGATTGATCAGAATTGCTTCCGT
1 GCAGCGAGCATTGA-ATTCCCACCATCATACTTGTTTGGACCAGATTGATCAGAATTGCTTCCGT
* *
909885 AGCTACCACCAGTGCCATACTTGTTACCACCACCATAACTTCCTTGG---CCATAACCACCAGTC
65 AGCTACCACCAGTGCCATACTTGTTACCACCACCATAACTTCCTTGGCCTCCATAACCACTA-CC
** * ** * *
909947 TTCTCATATCCAACATTACTGC-TA-CCGA-A-T-CCAGCTGAACCACTGGTGGAAAAACTATCA
129 AACTC-CA-CCAGTATTAC--CATATCCAACATTACCAGCAGAACCACTGGTGGAAAAACTAT--
910007 CCACCAATGTC
188 CCACCAATGTC
* *
910018 GCTAGCGGGAGCATTGAA--CCCACCATCATACTTGTTTGGACCAGATTGATCAGAGTTGCTTCT
1 GC-AGC--GAGCATTGAATTCCCACCATCATACTTGTTTGGACCAGATTGATCAGAATTGCTTCC
** *
910081 GTAGCTACCACCAGCACCATACTTGTTGCCACCACCATAACTTCCTTGGCCTCCATAACCACTAC
63 GTAGCTACCACCAGTGCCATACTTGTTACCACCACCATAACTTCCTTGGCCTCCATAACCACTAC
* *
910146 CAACGCCACCAGTGTTACCATATCCAACATTACCA
128 CAACTCCACCAGTATTACCATATCCAACATTACCA
910181 CCACCAAATC
Statistics
Matches: 294, Mismatches: 36, Indels: 49
0.78 0.09 0.13
Matches are distributed among these distances:
189 32 0.11
190 6 0.02
191 3 0.01
192 110 0.37
193 6 0.02
194 3 0.01
195 2 0.01
196 1 0.00
197 3 0.01
198 99 0.34
199 2 0.01
200 5 0.02
201 22 0.07
ACGTcount: A:0.27, C:0.33, G:0.15, T:0.25
Consensus pattern (198 bp):
GCAGCGAGCATTGAATTCCCACCATCATACTTGTTTGGACCAGATTGATCAGAATTGCTTCCGTA
GCTACCACCAGTGCCATACTTGTTACCACCACCATAACTTCCTTGGCCTCCATAACCACTACCAA
CTCCACCAGTATTACCATATCCAACATTACCAGCAGAACCACTGGTGGAAAAACTATCCACCAAT
GTC
Found at i:915481 original size:21 final size:21
Alignment explanation
Indices: 915455--915499 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
915445 GATTTCTGGG
* *
915455 CAAGGGGAATCGGTACCCATT
1 CAAGGGGAACCGATACCCATT
*
915476 CAAGGGGAACCGATACCCCTT
1 CAAGGGGAACCGATACCCATT
915497 CAA
1 CAA
915500 ACGACAGAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.31, C:0.29, G:0.24, T:0.16
Consensus pattern (21 bp):
CAAGGGGAACCGATACCCATT
Found at i:916336 original size:31 final size:31
Alignment explanation
Indices: 916298--916451 Score: 238
Period size: 31 Copynumber: 5.0 Consensus size: 31
916288 GGGTCGAGGG
*
916298 TTACCTATGTTCTTCGGGACATATGGACTGT
1 TTACCTATGTTCTTCGGAACATATGGACTGT
916329 TTACCTATGTTCTTCGGAACATATGGACTGT
1 TTACCTATGTTCTTCGGAACATATGGACTGT
916360 TTACCTATGTTCTTCGGAACATATGGACTGT
1 TTACCTATGTTCTTCGGAACATATGGACTGT
* * *
916391 TTACCTATGTCCTTCGGGACATATGGACTGA
1 TTACCTATGTTCTTCGGAACATATGGACTGT
* *
916422 TTACCTAGGTTCTTCAGAATC-TATGGACTG
1 TTACCTATGTTCTTCGGAA-CATATGGACTG
916452 GTCCTTCGGG
Statistics
Matches: 114, Mismatches: 8, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
31 113 0.99
32 1 0.01
ACGTcount: A:0.22, C:0.20, G:0.21, T:0.37
Consensus pattern (31 bp):
TTACCTATGTTCTTCGGAACATATGGACTGT
Found at i:918715 original size:31 final size:31
Alignment explanation
Indices: 918680--918750 Score: 90
Period size: 31 Copynumber: 2.3 Consensus size: 31
918670 AAAACATAAA
918680 ATATGATCAC-TTCTGTCTTCATTTAATTAAG
1 ATATGATCACTTTC-GTCTTCATTTAATTAAG
* * *
918711 ATATGATCAGTTTCGTTTTTATTTAATTAAG
1 ATATGATCACTTTCGTCTTCATTTAATTAAG
*
918742 ATGTGATCA
1 ATATGATCA
918751 TCACGGGTTA
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
31 32 0.91
32 3 0.09
ACGTcount: A:0.30, C:0.11, G:0.13, T:0.46
Consensus pattern (31 bp):
ATATGATCACTTTCGTCTTCATTTAATTAAG
Found at i:918939 original size:25 final size:24
Alignment explanation
Indices: 918911--918960 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 24
918901 AAAAAAAAAT
918911 ATTT-TTAAATTAAGTTAATAATAAA
1 ATTTATTAAA-TAAGTTAAT-ATAAA
*
918936 ATTTATTTAATAAGTTAATATAAA
1 ATTTATTAAATAAGTTAATATAAA
918960 A
1 A
918961 AATATTTTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
24 6 0.26
25 13 0.57
26 4 0.17
ACGTcount: A:0.52, C:0.00, G:0.04, T:0.44
Consensus pattern (24 bp):
ATTTATTAAATAAGTTAATATAAA
Found at i:918961 original size:25 final size:25
Alignment explanation
Indices: 918921--918992 Score: 76
Period size: 24 Copynumber: 2.9 Consensus size: 25
918911 ATTTTTAAAT
*
918921 TAAGTTAATA-ATAAAATTTATTTAA
1 TAAGTTAATATATAAAA-ATATTTAA
**
918946 TAAGTTAATATA-AAAAATATTTTT
1 TAAGTTAATATATAAAAATATTTAA
*
918970 TAAGTTAATATATATACAATATT
1 TAAGTTAATATATA-AAAATATT
918993 ATGAATTTAA
Statistics
Matches: 40, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
24 17 0.43
25 15 0.38
26 8 0.20
ACGTcount: A:0.50, C:0.01, G:0.04, T:0.44
Consensus pattern (25 bp):
TAAGTTAATATATAAAAATATTTAA
Found at i:918966 original size:24 final size:24
Alignment explanation
Indices: 918921--918981 Score: 77
Period size: 24 Copynumber: 2.5 Consensus size: 24
918911 ATTTTTAAAT
**
918921 TAAGTTAATAATAAAATTTATTTAA
1 TAAGTTAAT-ATAAAAAATATTTAA
**
918946 TAAGTTAATATAAAAAATATTTTT
1 TAAGTTAATATAAAAAATATTTAA
918970 TAAGTTAATATA
1 TAAGTTAATATA
918982 TATACAATAT
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
24 23 0.72
25 9 0.28
ACGTcount: A:0.51, C:0.00, G:0.05, T:0.44
Consensus pattern (24 bp):
TAAGTTAATATAAAAAATATTTAA
Found at i:918971 original size:27 final size:27
Alignment explanation
Indices: 918903--918977 Score: 91
Period size: 27 Copynumber: 2.8 Consensus size: 27
918893 ATGAAAATAA
*
918903 AAAAAAATATTTTTAAATTAAGTTAAT
1 AAAAAAATATTTTTTAATTAAGTTAAT
* *
918930 AATAAAAT-TTATTTAA-TAAGTTAAT
1 AAAAAAATATTTTTTAATTAAGTTAAT
918955 ATAAAAAATATTTTTTAAGTTAA
1 A-AAAAAATATTTTTTAA-TTAA
918978 TATATATACA
Statistics
Matches: 39, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
25 10 0.26
26 12 0.31
27 14 0.36
29 3 0.08
ACGTcount: A:0.53, C:0.00, G:0.04, T:0.43
Consensus pattern (27 bp):
AAAAAAATATTTTTTAATTAAGTTAAT
Found at i:925081 original size:31 final size:31
Alignment explanation
Indices: 925043--925119 Score: 118
Period size: 31 Copynumber: 2.5 Consensus size: 31
925033 AAAAAATGAA
925043 AGTTTAGGTATTAAAACGAATCAAAACTAAT
1 AGTTTAGGTATTAAAACGAATCAAAACTAAT
* * * *
925074 AGTTTAGGTACTAAAATGAATCAAAATTGAT
1 AGTTTAGGTATTAAAACGAATCAAAACTAAT
925105 AGTTTAGGTATTAAA
1 AGTTTAGGTATTAAA
925120 CACGTTAATT
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 41 1.00
ACGTcount: A:0.45, C:0.06, G:0.16, T:0.32
Consensus pattern (31 bp):
AGTTTAGGTATTAAAACGAATCAAAACTAAT
Found at i:925776 original size:32 final size:32
Alignment explanation
Indices: 925727--925837 Score: 132
Period size: 32 Copynumber: 3.5 Consensus size: 32
925717 GTTCAATGAC
* * * *
925727 GCGACACTAACACTGTTGCGTATTATCTGAAT
1 GCGACACTGACATTGTTGTGTATTATCTAAAT
* * *
925759 GCGACAATGACATTGTTGTGCATTATCTAAAA
1 GCGACACTGACATTGTTGTGTATTATCTAAAT
* *
925791 GCGACACTGACACTGTTATGTATTATCTAAAT
1 GCGACACTGACATTGTTGTGTATTATCTAAAT
*
925823 GCAACACTGACATTG
1 GCGACACTGACATTG
925838 ATATGCATTA
Statistics
Matches: 65, Mismatches: 14, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
32 65 1.00
ACGTcount: A:0.32, C:0.20, G:0.18, T:0.31
Consensus pattern (32 bp):
GCGACACTGACATTGTTGTGTATTATCTAAAT
Found at i:925834 original size:64 final size:64
Alignment explanation
Indices: 925727--925848 Score: 172
Period size: 64 Copynumber: 1.9 Consensus size: 64
925717 GTTCAATGAC
* * * * *
925727 GCGACACTAACACTGTTGCGTATTATCTGAATGCGACAATGACATTGTTGTGCATTATCTAAAA
1 GCGACACTAACACTGTTACGTATTATCTAAATGCAACAATGACATTGATATGCATTATCTAAAA
* * *
925791 GCGACACTGACACTGTTATGTATTATCTAAATGCAACACTGACATTGATATGCATTAT
1 GCGACACTAACACTGTTACGTATTATCTAAATGCAACAATGACATTGATATGCATTAT
925849 TTGAATGTAA
Statistics
Matches: 50, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
64 50 1.00
ACGTcount: A:0.32, C:0.19, G:0.17, T:0.32
Consensus pattern (64 bp):
GCGACACTAACACTGTTACGTATTATCTAAATGCAACAATGACATTGATATGCATTATCTAAAA
Found at i:925848 original size:32 final size:32
Alignment explanation
Indices: 925748--925862 Score: 122
Period size: 32 Copynumber: 3.6 Consensus size: 32
925738 ACTGTTGCGT
* * * *
925748 ATTATCTGAATGCGACAATGACATTGTTGTGC
1 ATTATCTAAATGCAACACTGACATTGTTATGC
* * * *
925780 ATTATCTAAAAGCGACACTGACACTGTTATGT
1 ATTATCTAAATGCAACACTGACATTGTTATGC
*
925812 ATTATCTAAATGCAACACTGACATTGATATGC
1 ATTATCTAAATGCAACACTGACATTGTTATGC
* * *
925844 ATTATTTGAATGTAACACT
1 ATTATCTAAATGCAACACT
925863 ACTAATATTT
Statistics
Matches: 69, Mismatches: 14, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
32 69 1.00
ACGTcount: A:0.34, C:0.17, G:0.16, T:0.34
Consensus pattern (32 bp):
ATTATCTAAATGCAACACTGACATTGTTATGC
Found at i:927687 original size:55 final size:55
Alignment explanation
Indices: 927603--927706 Score: 163
Period size: 55 Copynumber: 1.9 Consensus size: 55
927593 ATAAAAGCTC
* ***
927603 TCATCTTTTAAAAATAGTATAATCGCACTATTGGTACCTCCTCATCTATTTGCTA
1 TCATCTTTTAAAAATAGGATAATCGCACTATCAATACCTCCTCATCTATTTGCTA
*
927658 TCATCTTTTAAAAATAGGATAATCGCACTATCAATCCCTCCTCATCTAT
1 TCATCTTTTAAAAATAGGATAATCGCACTATCAATACCTCCTCATCTAT
927707 CTACTATGCA
Statistics
Matches: 44, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
55 44 1.00
ACGTcount: A:0.31, C:0.24, G:0.08, T:0.38
Consensus pattern (55 bp):
TCATCTTTTAAAAATAGGATAATCGCACTATCAATACCTCCTCATCTATTTGCTA
Found at i:928679 original size:38 final size:38
Alignment explanation
Indices: 928636--928730 Score: 172
Period size: 38 Copynumber: 2.5 Consensus size: 38
928626 TTATATAAAT
*
928636 TGAAAACAATACTAATACTTTCTATTAAAAAGAAAGAA
1 TGAAAACAATAGTAATACTTTCTATTAAAAAGAAAGAA
*
928674 TGAAAACAATAGTAATAATTTCTATTAAAAAGAAAGAA
1 TGAAAACAATAGTAATACTTTCTATTAAAAAGAAAGAA
928712 TGAAAACAATAGTAATACT
1 TGAAAACAATAGTAATACT
928731 AATTAAATCA
Statistics
Matches: 54, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
38 54 1.00
ACGTcount: A:0.56, C:0.08, G:0.09, T:0.26
Consensus pattern (38 bp):
TGAAAACAATAGTAATACTTTCTATTAAAAAGAAAGAA
Found at i:932373 original size:38 final size:39
Alignment explanation
Indices: 932286--932377 Score: 107
Period size: 38 Copynumber: 2.4 Consensus size: 39
932276 AATATTTTAT
* *
932286 AATTTTAAATTTATTTTTTAACAGTAATTCTAAACAATTA
1 AATTTTAAAATTA-TTTTTAACAGTAATTCTAAACAATCA
*
932326 AATTTTAAAATTATTTTT-ACAGTAATTTTAAA-AATCA
1 AATTTTAAAATTATTTTTAACAGTAATTCTAAACAATCA
**
932363 CTTTTGTAAAATTAT
1 AATTT-TAAAATTAT
932378 ACCAAACTAA
Statistics
Matches: 46, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
37 7 0.15
38 22 0.48
39 5 0.11
40 12 0.26
ACGTcount: A:0.42, C:0.07, G:0.03, T:0.48
Consensus pattern (39 bp):
AATTTTAAAATTATTTTTAACAGTAATTCTAAACAATCA
Found at i:950643 original size:11 final size:11
Alignment explanation
Indices: 950627--950651 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
950617 AGTTTAATTC
950627 TTTCATATTAA
1 TTTCATATTAA
950638 TTTCATATTAA
1 TTTCATATTAA
950649 TTT
1 TTT
950652 GTGCCATTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.32, C:0.08, G:0.00, T:0.60
Consensus pattern (11 bp):
TTTCATATTAA
Found at i:951780 original size:48 final size:48
Alignment explanation
Indices: 951709--951811 Score: 199
Period size: 48 Copynumber: 2.2 Consensus size: 48
951699 AATTGAAACT
951709 ATCCATATTTTACTCTCACCAGTCCAGGTACCATAGATATAATAAGAA
1 ATCCATATTTTACTCTCACCAGTCCAGGTACCATAGATATAATAAGAA
951757 ATCCATATTTTACTCTCACCAGTCCAGGTACCATAGATATAATAAGAA
1 ATCCATATTTTACTCTCACCAGTCCAGGTACCATAGATATAATAAGAA
951805 AT-CATAT
1 ATCCATAT
951812 CCTTATTTAA
Statistics
Matches: 55, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
47 5 0.09
48 50 0.91
ACGTcount: A:0.38, C:0.22, G:0.10, T:0.30
Consensus pattern (48 bp):
ATCCATATTTTACTCTCACCAGTCCAGGTACCATAGATATAATAAGAA
Found at i:952548 original size:82 final size:82
Alignment explanation
Indices: 952411--952575 Score: 330
Period size: 82 Copynumber: 2.0 Consensus size: 82
952401 ACTTTTTTGC
952411 GGATTCAGGAGTTTCAAGAGCTGGCAAGGAAGTGCCATTACAGGGTTCTTAGCAGAACAGAACAT
1 GGATTCAGGAGTTTCAAGAGCTGGCAAGGAAGTGCCATTACAGGGTTCTTAGCAGAACAGAACAT
952476 AAAGATCGGCAAACCGA
66 AAAGATCGGCAAACCGA
952493 GGATTCAGGAGTTTCAAGAGCTGGCAAGGAAGTGCCATTACAGGGTTCTTAGCAGAACAGAACAT
1 GGATTCAGGAGTTTCAAGAGCTGGCAAGGAAGTGCCATTACAGGGTTCTTAGCAGAACAGAACAT
952558 AAAGATCGGCAAACCGA
66 AAAGATCGGCAAACCGA
952575 G
1 G
952576 TGACTTCTGT
Statistics
Matches: 83, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
82 83 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.18
Consensus pattern (82 bp):
GGATTCAGGAGTTTCAAGAGCTGGCAAGGAAGTGCCATTACAGGGTTCTTAGCAGAACAGAACAT
AAAGATCGGCAAACCGA
Found at i:954366 original size:73 final size:72
Alignment explanation
Indices: 954244--954383 Score: 210
Period size: 73 Copynumber: 1.9 Consensus size: 72
954234 AAATGGGGCT
* * * *
954244 CCACTAAATTACTATATTTTCGAGTTTTTTAAATAAAAAATAATATTTAAAAATATTTTTTAATT
1 CCACTAAATTACCATATTTTCAAGTATTTAAAATAAAAAATAATATTT-AAAATATTTTTTAATT
954309 ATTGGGAC
65 ATTGGGAC
*
954317 CCACTAAATTACCATATTTTCAAGTATTTAAAATAAAAAA-ATATGTTTAAAATATTTTTTAATT
1 CCACTAAATTACCATATTTTCAAGTATTTAAAATAAAAAATA-ATATTTAAAATATTTTTTAATT
954381 ATT
65 ATT
954384 AAACTTAAAA
Statistics
Matches: 61, Mismatches: 5, Indels: 3
0.88 0.07 0.04
Matches are distributed among these distances:
72 20 0.33
73 41 0.67
ACGTcount: A:0.43, C:0.09, G:0.05, T:0.44
Consensus pattern (72 bp):
CCACTAAATTACCATATTTTCAAGTATTTAAAATAAAAAATAATATTTAAAATATTTTTTAATTA
TTGGGAC
Found at i:955087 original size:2 final size:2
Alignment explanation
Indices: 955082--955119 Score: 69
Period size: 2 Copynumber: 19.5 Consensus size: 2
955072 ATAAAAAAGA
955082 AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
955120 ACATTCATTT
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 34 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:956624 original size:19 final size:19
Alignment explanation
Indices: 956600--956650 Score: 102
Period size: 19 Copynumber: 2.7 Consensus size: 19
956590 GAAACTCTTG
956600 AATAAATCATTATTTTTTT
1 AATAAATCATTATTTTTTT
956619 AATAAATCATTATTTTTTT
1 AATAAATCATTATTTTTTT
956638 AATAAATCATTAT
1 AATAAATCATTAT
956651 ATTTATGGTT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 32 1.00
ACGTcount: A:0.41, C:0.06, G:0.00, T:0.53
Consensus pattern (19 bp):
AATAAATCATTATTTTTTT
Found at i:962925 original size:246 final size:245
Alignment explanation
Indices: 962492--962982 Score: 946
Period size: 246 Copynumber: 2.0 Consensus size: 245
962482 GTGATCTCGC
* *
962492 GTCTGATTTTCGGATTCTCTTTTTTTCACTTCCCATGTCTCTTCTCACAAGTTATATATCTCTTC
1 GTCTGATTTTCGGATTCTATTTTTTTCACTTCCCATGTCTATTCTCACAAGTTATATATCTCTTC
*
962557 TTCATCATTCTCTTAATCAAAGGTGGAAGCTTTAGTTTAGTTTCAGTTTATTTCTTCAAAACAAG
66 TTCATCATTCTCTTAATCAAAGGTGGAAGATTTAGTTTAGTTTCAGTTTATTTCTTCAAAACAAG
962622 GTAAGGAGTGAACTCAACATCTTTAAAGCTTTATGTTGAATCCTCAACTTCACCATTTCACCATG
131 GTAAGGAGTGAACTCAACATCTTTAAAGCTTTATGTTGAATCCTCAACTTCACCATTTCACCATG
962687 AGAGCCAAGAAAGGGTTTTGTGGGGTTTAAGAGTTTTGAAGATTTTAGCT
196 AGAGCCAAGAAAGGGTTTTGTGGGGTTTAAGAGTTTTGAAGATTTTAGCT
962737 GTCTGATTTTCGGATTCTATTTTTTTCACTTCCCATGTCTTATTCTCACAAGTTATATATCTCTT
1 GTCTGATTTTCGGATTCTATTTTTTTCACTTCCCATGTC-TATTCTCACAAGTTATATATCTCTT
962802 CTTCATCATTCTCTTAATCAAAGGTGGAAGATTTAGTTTAGTTTCAGTTTATTTCTTCAAAACAA
65 CTTCATCATTCTCTTAATCAAAGGTGGAAGATTTAGTTTAGTTTCAGTTTATTTCTTCAAAACAA
962867 GGTAAGGAGTGAACTCAACATCTTTAAAGCTTTATGTTGAATCCTCAACTTCACCATTTCACCAT
130 GGTAAGGAGTGAACTCAACATCTTTAAAGCTTTATGTTGAATCCTCAACTTCACCATTTCACCAT
962932 GAGAGCCAAGAAAGGGTTTTGTGGGGTTTAAGAGTTTTGAAGATTTTAGCT
195 GAGAGCCAAGAAAGGGTTTTGTGGGGTTTAAGAGTTTTGAAGATTTTAGCT
962983 CGTTTTAAAT
Statistics
Matches: 242, Mismatches: 3, Indels: 1
0.98 0.01 0.00
Matches are distributed among these distances:
245 38 0.16
246 204 0.84
ACGTcount: A:0.26, C:0.18, G:0.16, T:0.40
Consensus pattern (245 bp):
GTCTGATTTTCGGATTCTATTTTTTTCACTTCCCATGTCTATTCTCACAAGTTATATATCTCTTC
TTCATCATTCTCTTAATCAAAGGTGGAAGATTTAGTTTAGTTTCAGTTTATTTCTTCAAAACAAG
GTAAGGAGTGAACTCAACATCTTTAAAGCTTTATGTTGAATCCTCAACTTCACCATTTCACCATG
AGAGCCAAGAAAGGGTTTTGTGGGGTTTAAGAGTTTTGAAGATTTTAGCT
Found at i:963594 original size:20 final size:20
Alignment explanation
Indices: 963569--963643 Score: 100
Period size: 20 Copynumber: 3.8 Consensus size: 20
963559 ACTTATATGA
*
963569 AGTATCGAAACTTTTGCAGG
1 AGTATCGATACTTTTGCAGG
*
963589 AGTATCGATACTCTTG--GG
1 AGTATCGATACTTTTGCAGG
963607 ATAGTATCGATACTTTTGCAGG
1 --AGTATCGATACTTTTGCAGG
963629 AGTATCGATACTTTT
1 AGTATCGATACTTTT
963644 AATCTATTTT
Statistics
Matches: 48, Mismatches: 3, Indels: 8
0.81 0.05 0.14
Matches are distributed among these distances:
18 2 0.04
20 44 0.92
22 2 0.04
ACGTcount: A:0.27, C:0.15, G:0.23, T:0.36
Consensus pattern (20 bp):
AGTATCGATACTTTTGCAGG
Found at i:964137 original size:5 final size:5
Alignment explanation
Indices: 964127--964183 Score: 114
Period size: 5 Copynumber: 11.4 Consensus size: 5
964117 TAGTGAATGC
964127 ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA
1 ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA
964177 ATATA AT
1 ATATA AT
964184 TTTCAGCGAG
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 52 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (5 bp):
ATATA
Found at i:965952 original size:198 final size:199
Alignment explanation
Indices: 965573--965952 Score: 507
Period size: 198 Copynumber: 1.9 Consensus size: 199
965563 CGTTAAAATA
*
965573 GATAAATTTTTAAAATTGTATCGATCCCAAAAACATCAAAACCGATAATTATAATGTAATTGGTA
1 GATAAATTTTTAAAA-TGTATCGATCCCAAAAACATCAAAACCGATAATTATAATGTAATAGGTA
* * * * * *
965638 AATTTATAATGTAACCGGTAGAAATATGTTGGTTAATTAGAAAATAGATCAACATAATGTATCAA
65 AATTTACAATGTAACCAGTAGAAATATATCGATTAATTAAAAAATAGATCAACATAATGTATCAA
* * * *
965703 TACATTTTTAAGTTGTATCGATACTTTTTGTCCAAAATGAATGTCAAACGAGATGCACGTATAAA
130 CACATTTTTAAATTATATCGATACTTTTTGTCCAAAATAAATGTCAAACGAGATGCACGTATAAA
965768 GTGTC
195 GTGTC
* *
965773 GATACATTTATTAAAA-GTATCGA-CCCAAAAACATCGAAACCGATAATTATAATGTAATAGGTA
1 GATAAATTT-TTAAAATGTATCGATCCCAAAAACATCAAAACCGATAATTATAATGTAATAGGTA
* * **
965836 AATTTACAATGTAACCAGTAGAAATATATCGATTAATTAAAAAATATATTAACATAATGTATTGA
65 AATTTACAATGTAACCAGTAGAAATATATCGATTAATTAAAAAATAGATCAACATAATGTATCAA
* * * *
965901 CAC-TTTTTAAATTATGTCGATATTTTTTTTTCCATAATAAATG-CTAAACGAG
130 CACATTTTTAAATTATATCGATA-CTTTTTGTCCAAAATAAATGTC-AAACGAG
965953 GTACATGGTC
Statistics
Matches: 156, Mismatches: 21, Indels: 8
0.84 0.11 0.04
Matches are distributed among these distances:
197 17 0.11
198 118 0.76
199 7 0.04
200 8 0.05
201 6 0.04
ACGTcount: A:0.42, C:0.12, G:0.13, T:0.34
Consensus pattern (199 bp):
GATAAATTTTTAAAATGTATCGATCCCAAAAACATCAAAACCGATAATTATAATGTAATAGGTAA
ATTTACAATGTAACCAGTAGAAATATATCGATTAATTAAAAAATAGATCAACATAATGTATCAAC
ACATTTTTAAATTATATCGATACTTTTTGTCCAAAATAAATGTCAAACGAGATGCACGTATAAAG
TGTC
Found at i:966342 original size:19 final size:17
Alignment explanation
Indices: 966308--966346 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
966298 ATGTGAATTG
*
966308 TAAAACATAAAATAAAT
1 TAAAAAATAAAATAAAT
966325 TAAAAAATAATAATTAAAT
1 TAAAAAATAA-AA-TAAAT
966344 TAA
1 TAA
966347 GCTAACTACC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 9 0.47
18 2 0.11
19 8 0.42
ACGTcount: A:0.69, C:0.03, G:0.00, T:0.28
Consensus pattern (17 bp):
TAAAAAATAAAATAAAT
Found at i:980864 original size:15 final size:15
Alignment explanation
Indices: 980841--980871 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
980831 GTTATTATTT
*
980841 ATTATATAATATGTA
1 ATTAAATAATATGTA
980856 ATTAAATAATATGTA
1 ATTAAATAATATGTA
980871 A
1 A
980872 ATATTTAATA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.52, C:0.00, G:0.06, T:0.42
Consensus pattern (15 bp):
ATTAAATAATATGTA
Found at i:982394 original size:22 final size:21
Alignment explanation
Indices: 982369--982409 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 21
982359 AAATAAATAA
982369 ATAACAATAG-TTTTGTATTTGT
1 ATAACAA-AGCTTTTG-ATTTGT
982391 ATAACAAAGCTTTTGATTT
1 ATAACAAAGCTTTTGATTT
982410 TATGAAAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 6 0.33
22 12 0.67
ACGTcount: A:0.34, C:0.07, G:0.12, T:0.46
Consensus pattern (21 bp):
ATAACAAAGCTTTTGATTTGT
Found at i:982666 original size:24 final size:23
Alignment explanation
Indices: 982615--982663 Score: 66
Period size: 25 Copynumber: 2.1 Consensus size: 23
982605 GGAGGGCAAC
982615 TAAAAAAATAAAAATGAGTAAATTA
1 TAAAAAAATAAAAAT--GTAAATTA
982640 TAAAAAAATAAAAAT-TAAA-TA
1 TAAAAAAATAAAAATGTAAATTA
982661 TAA
1 TAA
982664 TAATATATAA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
21 5 0.21
22 4 0.17
25 15 0.62
ACGTcount: A:0.71, C:0.00, G:0.04, T:0.24
Consensus pattern (23 bp):
TAAAAAAATAAAAATGTAAATTA
Found at i:985526 original size:13 final size:13
Alignment explanation
Indices: 985508--985566 Score: 66
Period size: 13 Copynumber: 4.5 Consensus size: 13
985498 TATATGACTT
985508 TTTAAATTAATAA
1 TTTAAATTAATAA
*
985521 TTTAAA-TAAAAA
1 TTTAAATTAATAA
* * *
985533 ATTATAATTTATTA
1 TTTA-AATTAATAA
985547 TTTAAATTAATAA
1 TTTAAATTAATAA
985560 TTTAAAT
1 TTTAAAT
985567 ATATTTATAT
Statistics
Matches: 36, Mismatches: 8, Indels: 4
0.75 0.17 0.08
Matches are distributed among these distances:
12 8 0.22
13 22 0.61
14 6 0.17
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (13 bp):
TTTAAATTAATAA
Found at i:985571 original size:26 final size:26
Alignment explanation
Indices: 985520--985578 Score: 61
Period size: 26 Copynumber: 2.4 Consensus size: 26
985510 TAAATTAATA
*
985520 ATTTAAATAAAAAATTATAATTTATT
1 ATTTAAATAAAAAATTATAATATATT
* *
985546 ATTTAAATTAATAATT-TAA-ATA-T
1 ATTTAAATAAAAAATTATAATATATT
*
985569 ATTTATATAA
1 ATTTAAATAA
985579 TTATTTTTAA
Statistics
Matches: 28, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
23 9 0.32
24 2 0.07
25 3 0.11
26 14 0.50
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (26 bp):
ATTTAAATAAAAAATTATAATATATT
Found at i:985578 original size:39 final size:37
Alignment explanation
Indices: 985506--985592 Score: 106
Period size: 39 Copynumber: 2.3 Consensus size: 37
985496 TATATATGAC
985506 TTTTTAAATTAATAATTTAAATAAAAAATTATAATTTA
1 TTTTTAAATTAATAATTTAAATAAAAAATTATAA-TTA
* **
985544 TTATTTAAATTAATAATTTAAAT-ATATTTATATAATTA
1 TT-TTTAAATTAATAATTTAAATAAAAAAT-TATAATTA
985582 TTTTT-AATTAA
1 TTTTTAAATTAA
985593 AATATCAATT
Statistics
Matches: 44, Mismatches: 3, Indels: 6
0.83 0.06 0.11
Matches are distributed among these distances:
36 6 0.14
37 3 0.07
38 10 0.23
39 25 0.57
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (37 bp):
TTTTTAAATTAATAATTTAAATAAAAAATTATAATTA
Found at i:986382 original size:19 final size:19
Alignment explanation
Indices: 986350--986395 Score: 85
Period size: 19 Copynumber: 2.5 Consensus size: 19
986340 CGACCCGATC
986350 AAATAAAA-AATTTATTTT
1 AAATAAAATAATTTATTTT
986368 AAATAAAATAATTTATTTT
1 AAATAAAATAATTTATTTT
986387 AAATAAAAT
1 AAATAAAAT
986396 CAAAGTTTTG
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
18 8 0.30
19 19 0.70
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (19 bp):
AAATAAAATAATTTATTTT
Found at i:987088 original size:3 final size:3
Alignment explanation
Indices: 987080--987134 Score: 110
Period size: 3 Copynumber: 18.3 Consensus size: 3
987070 GTTTCCATGC
987080 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
987128 ATA ATA A
1 ATA ATA A
987135 AATTGAGAAA
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 52 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:987635 original size:23 final size:22
Alignment explanation
Indices: 987609--987680 Score: 66
Period size: 23 Copynumber: 3.4 Consensus size: 22
987599 TACTTGCTCT
987609 AAATTTCAATAATTTATGAATTC
1 AAATTT-AATAATTTATGAATTC
987632 AAATGTT-A-AATTT-T-AA--C
1 AAAT-TTAATAATTTATGAATTC
987649 AAATTTAAATAATTTATGAATTC
1 AAATTT-AATAATTTATGAATTC
987672 AAATGTTAA
1 AAAT-TTAA
987681 ATTTTAACAA
Statistics
Matches: 40, Mismatches: 0, Indels: 18
0.69 0.00 0.31
Matches are distributed among these distances:
16 2 0.05
17 5 0.12
18 1 0.03
19 7 0.17
20 2 0.05
21 7 0.17
22 1 0.03
23 11 0.28
24 4 0.10
ACGTcount: A:0.47, C:0.06, G:0.06, T:0.42
Consensus pattern (22 bp):
AAATTTAATAATTTATGAATTC
Found at i:987664 original size:40 final size:40
Alignment explanation
Indices: 987609--987699 Score: 173
Period size: 40 Copynumber: 2.3 Consensus size: 40
987599 TACTTGCTCT
*
987609 AAATTTCAATAATTTATGAATTCAAATGTTAAATTTTAAC
1 AAATTTAAATAATTTATGAATTCAAATGTTAAATTTTAAC
987649 AAATTTAAATAATTTATGAATTCAAATGTTAAATTTTAAC
1 AAATTTAAATAATTTATGAATTCAAATGTTAAATTTTAAC
987689 AAATTTAAATA
1 AAATTTAAATA
987700 TAAAAGGAGA
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 50 1.00
ACGTcount: A:0.48, C:0.05, G:0.04, T:0.42
Consensus pattern (40 bp):
AAATTTAAATAATTTATGAATTCAAATGTTAAATTTTAAC
Done.