Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01000073.1 Hibiscus syriacus cultivar Beakdansim tig00000132_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: 1402814
ACGTcount: A:0.33, C:0.18, G:0.17, T:0.32
File 5 of 7
Found at i:754393 original size:23 final size:24
Alignment explanation
Indices: 754348--754393 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 24
754338 ATCAGCTTTA
*
754348 ATAATGTGCTACCTATTACGTTAC
1 ATAATGTGCTACCTAATACGTTAC
* *
754372 ATAA-GTGCTACTTAATATGTTA
1 ATAATGTGCTACCTAATACGTTA
754394 TTATGCTTAA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
23 15 0.79
24 4 0.21
ACGTcount: A:0.33, C:0.15, G:0.13, T:0.39
Consensus pattern (24 bp):
ATAATGTGCTACCTAATACGTTAC
Found at i:754569 original size:108 final size:108
Alignment explanation
Indices: 754430--754797 Score: 296
Period size: 108 Copynumber: 3.3 Consensus size: 108
754420 TAACCGGTTA
* * * *
754430 TGTTATCGTTGGATTTCTAAGGCTCTATCAGCTTAAACTTTGGTAACATTTTAGACGTTACTTAA
1 TGTTATCGTCGGATTTCTAAGGCCCCATCAGCTTAAACTTTGGTAACATTTTAGACGTTACCTAA
754495 TATGTTGATAATACTAATAACAAATTAAGAAATTAACATATTT
66 TATGTTGATAATACTAATAACAAATTAAGAAATTAACATATTT
* * * * *
754538 TGTTATCGTAGGATTTCTAAGGCCCCATCAGCTTTAA-TAATGCGCTACTTATTATATTACATAA
1 TGTTATCGTCGGATTTCTAAGGCCCCATCAGCTTAAACT-TTG-G-TA---A-CAT-TT---TAG
* * *** * * * *
754602 ATGTTACCTAATATGTT-ATTAA-GCTTAATAA-TGTTTCTAGTAATTAACATGTTA
55 ACGTTACCTAATATGTTGA-TAATAC-TAATAACAAATT-AAGAAATTAACATATTT
* ** ** *
754656 TGTTATCGTCGGATTTCTAAGACTTCATCAGCTTAAACTTAAGTAACATTTTAGGCGTTACCTAA
1 TGTTATCGTCGGATTTCTAAGGCCCCATCAGCTTAAACTTTGGTAACATTTTAGACGTTACCTAA
* *
754721 TATGTTGATAATACTAATGACAAATTAA-ATAATTAACCTATTT
66 TATGTTGATAATACTAATAACAAATTAAGA-AATTAACATATTT
* * * *
754764 TGTTGTTGTCGGATTTCTAAGGTCCCATTAGCTT
1 TGTTATCGTCGGATTTCTAAGGCCCCATCAGCTT
754798 TAAAAAACGC
Statistics
Matches: 195, Mismatches: 46, Indels: 38
0.70 0.16 0.14
Matches are distributed among these distances:
107 1 0.01
108 98 0.50
109 5 0.03
110 2 0.01
111 2 0.01
112 2 0.01
113 2 0.01
114 2 0.01
115 2 0.01
116 2 0.01
117 5 0.03
118 71 0.36
119 1 0.01
ACGTcount: A:0.32, C:0.14, G:0.14, T:0.40
Consensus pattern (108 bp):
TGTTATCGTCGGATTTCTAAGGCCCCATCAGCTTAAACTTTGGTAACATTTTAGACGTTACCTAA
TATGTTGATAATACTAATAACAAATTAAGAAATTAACATATTT
Found at i:754630 original size:226 final size:226
Alignment explanation
Indices: 754236--754890 Score: 863
Period size: 226 Copynumber: 2.9 Consensus size: 226
754226 TTGATAAAGA
* * * * * *
754236 TTAAACTTTGATAATATTTTAGGTGTTACTTAATATGTTGATAATACTTATAATAAATTAAGTAA
1 TTAAACTTTGGTAACATTTTAGGCGTTACTTAATATGTTGATAATACTAATAACAAATTAAGAAA
** * * *
754301 TTAACATATTTTGTTATCGTAAAATTTCTAAGACCCTATCAGCTTTAATAATGTGCTACCTATTA
66 TTAACATATTTTGTTATCGTAGGATTTCTAAGGCCCCATCAGCTTTAATAATGCGCTACCTATTA
* * * * *
754366 CGTTACATAAGTGCTACTTAATATGTTATTATGCTTAATAATGTTTCCAGTAATTAACCGGTTAT
131 CGTTACATAAATGTTACCTAATATGTTATTATGCTTAATAATGTTTCTAGTAATTAACCAGTTAT
* *
754431 GTTATCGTTGGATTTCTAAGGC-TCTATCAGC
196 GTTATCGTCGGATTTCTAAGACTTC-ATCAGC
*
754462 TTAAACTTTGGTAACATTTTAGACGTTACTTAATATGTTGATAATACTAATAACAAATTAAGAAA
1 TTAAACTTTGGTAACATTTTAGGCGTTACTTAATATGTTGATAATACTAATAACAAATTAAGAAA
*
754527 TTAACATATTTTGTTATCGTAGGATTTCTAAGGCCCCATCAGCTTTAATAATGCGCTACTTATTA
66 TTAACATATTTTGTTATCGTAGGATTTCTAAGGCCCCATCAGCTTTAATAATGCGCTACCTATTA
** *
754592 TATTACATAAATGTTACCTAATATGTTATTAAGCTTAATAATGTTTCTAGTAATTAA-CATGTTA
131 CGTTACATAAATGTTACCTAATATGTTATTATGCTTAATAATGTTTCTAGTAATTAACCA-GTTA
754656 TGTTATCGTCGGATTTCTAAGACTTCATCAGC
195 TGTTATCGTCGGATTTCTAAGACTTCATCAGC
** * *
754688 TTAAACTTAAGTAACATTTTAGGCGTTACCTAATATGTTGATAATACTAATGACAAATTAA-ATA
1 TTAAACTTTGGTAACATTTTAGGCGTTACTTAATATGTTGATAATACTAATAACAAATTAAGA-A
* * * * * * **
754752 ATTAACCTATTTTGTTGTTGTCGGATTTCTAAGGTCCCATTAGCTTTAA-AAAACGCTACCTATT
65 ATTAACATATTTTGTTATCGTAGGATTTCTAAGGCCCCATCAGCTTTAATAATGCGCTACCTATT
* * * *
754816 GCGTTACAT-AA-GCTCTACGTAATATGTTATTATGCTTGATAATATTTCTAGTAATTAACCAGT
130 ACGTTACATAAATG-T-TACCTAATATGTTATTATGCTTAATAATGTTTCTAGTAATTAACCAGT
*
754879 TATGTTAACGTC
193 TATGTTATCGTC
754891 AATATTTTTT
Statistics
Matches: 378, Mismatches: 45, Indels: 13
0.87 0.10 0.03
Matches are distributed among these distances:
223 1 0.00
224 3 0.01
225 72 0.19
226 300 0.79
227 2 0.01
ACGTcount: A:0.33, C:0.14, G:0.13, T:0.40
Consensus pattern (226 bp):
TTAAACTTTGGTAACATTTTAGGCGTTACTTAATATGTTGATAATACTAATAACAAATTAAGAAA
TTAACATATTTTGTTATCGTAGGATTTCTAAGGCCCCATCAGCTTTAATAATGCGCTACCTATTA
CGTTACATAAATGTTACCTAATATGTTATTATGCTTAATAATGTTTCTAGTAATTAACCAGTTAT
GTTATCGTCGGATTTCTAAGACTTCATCAGC
Found at i:766181 original size:20 final size:20
Alignment explanation
Indices: 766158--766202 Score: 81
Period size: 20 Copynumber: 2.2 Consensus size: 20
766148 ACAAAACTTA
*
766158 TAGTTAAGATACTAAACGTG
1 TAGTTAAGATACTAAACATG
766178 TAGTTAAGATACTAAACATG
1 TAGTTAAGATACTAAACATG
766198 TAGTT
1 TAGTT
766203 TATGCATAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.40, C:0.09, G:0.18, T:0.33
Consensus pattern (20 bp):
TAGTTAAGATACTAAACATG
Found at i:766302 original size:29 final size:27
Alignment explanation
Indices: 766258--766345 Score: 86
Period size: 29 Copynumber: 3.1 Consensus size: 27
766248 ATTTATTTTA
*
766258 AAATATTTTATATTAATCTTTAAATTAT
1 AAATATTTTAAATTAAT-TTTAAATTAT
* * *
766286 ATATCTTTTAAAATTAATTCTTAAATTTT
1 AAATATTTT-AAATTAATT-TTAAATTAT
*
766315 AAAATATTTTATATTAATATTTAAATTAT
1 -AAATATTTTAAATTAAT-TTTAAATTAT
766344 AA
1 AA
766346 GTAGTATTTT
Statistics
Matches: 48, Mismatches: 8, Indels: 8
0.75 0.12 0.12
Matches are distributed among these distances:
28 10 0.21
29 30 0.62
30 8 0.17
ACGTcount: A:0.44, C:0.03, G:0.00, T:0.52
Consensus pattern (27 bp):
AAATATTTTAAATTAATTTTAAATTAT
Found at i:766746 original size:19 final size:19
Alignment explanation
Indices: 766722--766758 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
766712 TTTTCATAAG
*
766722 CTGATCATATGTATGTAGT
1 CTGATCATATGCATGTAGT
766741 CTGATCATATGCATGTAG
1 CTGATCATATGCATGTAG
766759 CTTATTAACT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.27, C:0.14, G:0.22, T:0.38
Consensus pattern (19 bp):
CTGATCATATGCATGTAGT
Found at i:767277 original size:3 final size:3
Alignment explanation
Indices: 767269--767303 Score: 61
Period size: 3 Copynumber: 11.7 Consensus size: 3
767259 ATTTACATAT
*
767269 TAA TAA TAA TAA TAA TGA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
767304 TTATTATTAT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:769084 original size:59 final size:58
Alignment explanation
Indices: 769021--769482 Score: 631
Period size: 59 Copynumber: 7.8 Consensus size: 58
769011 CATATTTCCC
* * *
769021 ATACGAAAATTCATACACTTAGTATGATTTTATTATCATTTTAGCACACAAGGTGCCCA
1 ATACGAAAATTCATACACTTAGTATGAATTTCTTATCATTTTAGCACACAA-GTGCCCT
* *
769080 ATACGGAAATTCATACACTTAGTATGAATTTATTATCATTTTAGCACACGAAGTGCCCT
1 ATACGAAAATTCATACACTTAGTATGAATTTCTTATCATTTTAGCACAC-AAGTGCCCT
* *
769139 ATACGAAAATTCATACACTTAGTATGAATTTCTTATCATTTTAGCCCACGAAGCGCCCT
1 ATACGAAAATTCATACACTTAGTATGAATTTCTTATCATTTTAGCACAC-AAGTGCCCT
* * *
769198 ATACGGAAATTCATACACTTAGTA-GTAATTTCTTATCATTTTATCACACGAAGTGTCCT
1 ATACGAAAATTCATACACTTAGTATG-AATTTCTTATCATTTTAGCACAC-AAGTGCCCT
* * * * *
769257 ATAAGGAAATTCATATACTTAATATGAATTTCTTATCATTTTAGCACACAA-AGCACTCT
1 ATACGAAAATTCATACACTTAGTATGAATTTCTTATCATTTTAGCACACAAGTGC-C-CT
* *
769316 ATACGGAAATTCATACACTTAGTATGAATTTCTTATCATTTTAGCACCCAAAGTGCCCT
1 ATACGAAAATTCATACACTTAGTATGAATTTCTTATCATTTTAGCACAC-AAGTGCCCT
* * *
769375 ATATGAAAATTCATACATTTAGTATGAATTTCTTATCATTTTAGCACACAAAGTACCCT
1 ATACGAAAATTCATACACTTAGTATGAATTTCTTATCATTTTAGCACAC-AAGTGCCCT
* *
769434 ATACAAAAATTCATACACTCAGTATGAATTTCTTATCATTTTAGCACAC
1 ATACGAAAATTCATACACTTAGTATGAATTTCTTATCATTTTAGCACAC
769483 TTAGTGCCAT
Statistics
Matches: 364, Mismatches: 32, Indels: 14
0.89 0.08 0.03
Matches are distributed among these distances:
57 1 0.00
58 4 0.01
59 351 0.96
60 6 0.02
61 2 0.01
ACGTcount: A:0.35, C:0.19, G:0.11, T:0.35
Consensus pattern (58 bp):
ATACGAAAATTCATACACTTAGTATGAATTTCTTATCATTTTAGCACACAAGTGCCCT
Found at i:770012 original size:94 final size:95
Alignment explanation
Indices: 769814--770036 Score: 299
Period size: 94 Copynumber: 2.4 Consensus size: 95
769804 TGGTTCTTCA
* * *
769814 GTATCGATA-CCTCTACCATGGTATTGATACTACCCTACTGTGGTATCGATACCCCCTTCCGGTA
1 GTATCGATACCCTC-ACCATGGTATCGATACTACCATACTATGGTATCGATACCCCCTTCCGGTA
* * *
769878 TTAATACCAAAATTAGATTCGATGTGGCTTG
65 TCAATACCAAAATTAGATTCGATGTGACATG
* *
769909 GTATCGATACCCTCACAATGGTATCGATACTACTATACTATGGTA-CTGATACCCCC-TCCGGTA
1 GTATCGATACCCTCACCATGGTATCGATACTACCATACTATGGTATC-GATACCCCCTTCCGGTA
* * *
769972 TCGATACCAAAATTAGGTTCGATGTTACATG
65 TCAATACCAAAATTAGATTCGATGTGACATG
*
770003 GTATCGATACCCTTACCATGGTATCGATACTACC
1 GTATCGATACCCTCACCATGGTATCGATACTACC
770037 TCGTCGGTAC
Statistics
Matches: 112, Mismatches: 14, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
94 64 0.57
95 44 0.39
96 4 0.04
ACGTcount: A:0.27, C:0.25, G:0.17, T:0.31
Consensus pattern (95 bp):
GTATCGATACCCTCACCATGGTATCGATACTACCATACTATGGTATCGATACCCCCTTCCGGTAT
CAATACCAAAATTAGATTCGATGTGACATG
Found at i:776713 original size:2 final size:2
Alignment explanation
Indices: 776706--776734 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
776696 TTTTATGTCT
776706 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
776735 TCACATGTTC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:777980 original size:24 final size:20
Alignment explanation
Indices: 777927--777984 Score: 71
Period size: 20 Copynumber: 2.7 Consensus size: 20
777917 TTCCCCTTGA
*
777927 AGTGCATCGATACATTCTAC
1 AGTGCATCGATGCATTCTAC
777947 AGTGCATCGATGCATTCTTTAAC
1 AGTGCATCGATGCATTC--T-AC
777970 ATGTGCATCGATGCA
1 A-GTGCATCGATGCA
777985 CTACCCATGC
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
20 16 0.48
22 1 0.03
23 3 0.09
24 13 0.39
ACGTcount: A:0.28, C:0.22, G:0.19, T:0.31
Consensus pattern (20 bp):
AGTGCATCGATGCATTCTAC
Found at i:778063 original size:19 final size:19
Alignment explanation
Indices: 778039--778088 Score: 100
Period size: 19 Copynumber: 2.6 Consensus size: 19
778029 TAAGGGGGTG
778039 CATCGATGCACTCCTTATA
1 CATCGATGCACTCCTTATA
778058 CATCGATGCACTCCTTATA
1 CATCGATGCACTCCTTATA
778077 CATCGATGCACT
1 CATCGATGCACT
778089 AACTACATTC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 31 1.00
ACGTcount: A:0.26, C:0.32, G:0.12, T:0.30
Consensus pattern (19 bp):
CATCGATGCACTCCTTATA
Found at i:779335 original size:17 final size:17
Alignment explanation
Indices: 779295--779335 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
779285 TCATATTTAC
*
779295 CCCTTTAATTTCCTTTT
1 CCCTTTAATTTCCTTAT
* *
779312 TCATTTAATTTCCTTAT
1 CCCTTTAATTTCCTTAT
779329 CCCTTTA
1 CCCTTTA
779336 CTCATTCACA
Statistics
Matches: 19, Mismatches: 5, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.17, C:0.27, G:0.00, T:0.56
Consensus pattern (17 bp):
CCCTTTAATTTCCTTAT
Found at i:781436 original size:23 final size:23
Alignment explanation
Indices: 781382--781439 Score: 80
Period size: 23 Copynumber: 2.5 Consensus size: 23
781372 CAGCTCATAT
781382 AAATGCACCAAAGTGCCACGTAG
1 AAATGCACCAAAGTGCCACGTAG
* * **
781405 AATTACACCGTAGTGCCACGTAG
1 AAATGCACCAAAGTGCCACGTAG
781428 AAATGCACCAAA
1 AAATGCACCAAA
781440 TTTCCATATA
Statistics
Matches: 27, Mismatches: 8, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.40, C:0.26, G:0.19, T:0.16
Consensus pattern (23 bp):
AAATGCACCAAAGTGCCACGTAG
Found at i:781769 original size:2 final size:2
Alignment explanation
Indices: 781762--781810 Score: 98
Period size: 2 Copynumber: 24.5 Consensus size: 2
781752 TTATATGTCT
781762 TA TA TA TA TA TA TA 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 TA TA TA TA TA TA TA
781804 TA TA TA T
1 TA TA TA T
781811 TCACATTTTC
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 47 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:783057 original size:24 final size:20
Alignment explanation
Indices: 783004--783061 Score: 71
Period size: 20 Copynumber: 2.7 Consensus size: 20
782994 TTCCCCTTGA
*
783004 AGTGCATCGATACATTCTAC
1 AGTGCATCGATGCATTCTAC
783024 AGTGCATCGATGCATTCTTTAAC
1 AGTGCATCGATGCATTC--T-AC
783047 ATGTGCATCGATGCA
1 A-GTGCATCGATGCA
783062 CTACCCATGC
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
20 16 0.48
22 1 0.03
23 3 0.09
24 13 0.39
ACGTcount: A:0.28, C:0.22, G:0.19, T:0.31
Consensus pattern (20 bp):
AGTGCATCGATGCATTCTAC
Found at i:785134 original size:22 final size:20
Alignment explanation
Indices: 785092--785146 Score: 74
Period size: 22 Copynumber: 2.6 Consensus size: 20
785082 TGGTTCTTCA
785092 GTATCGATACCCCTACCATG
1 GTATCGATACCCCTACCATG
* *
785112 GTATCGATACTACCCTGCTATG
1 GTATCGATAC--CCCTACCATG
785134 GTATCGATACCCC
1 GTATCGATACCCC
785147 CTTCTGGTAT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
20 13 0.42
22 18 0.58
ACGTcount: A:0.24, C:0.33, G:0.16, T:0.27
Consensus pattern (20 bp):
GTATCGATACCCCTACCATG
Found at i:785154 original size:19 final size:20
Alignment explanation
Indices: 785092--785163 Score: 58
Period size: 22 Copynumber: 3.5 Consensus size: 20
785082 TGGTTCTTCA
*
785092 GTATCGATA-CCCCTACCATG
1 GTATCGATACCCCCTATC-TG
* * *
785112 GTATCGATACTACCCTGCTATG
1 GTATCGATAC-CCCCT-ATCTG
785134 GTATCGATACCCCCT-TCTG
1 GTATCGATACCCCCTATCTG
*
785153 GTATCAATACC
1 GTATCGATACC
785164 AAAATTAGAT
Statistics
Matches: 42, Mismatches: 7, Indels: 7
0.75 0.12 0.12
Matches are distributed among these distances:
19 13 0.31
20 9 0.21
21 4 0.10
22 16 0.38
ACGTcount: A:0.24, C:0.32, G:0.15, T:0.29
Consensus pattern (20 bp):
GTATCGATACCCCCTATCTG
Found at i:785299 original size:94 final size:95
Alignment explanation
Indices: 785092--785314 Score: 304
Period size: 94 Copynumber: 2.4 Consensus size: 95
785082 TGGTTCTTCA
* * * * *
785092 GTATCGATACCCCTACCATGGTATCGATACTACCCTGCTATGGTATCGATACCCCCTTCTGGTAT
1 GTATCGATACCCTTACCATGGTATCGATACTACCATACTATGGTACCGATACCCCCTTCCGGTAT
* * *
785157 CAATACCAAAATTAGATTTGATGTGGCTTG
66 CAATACCAAAATTAGATTCGATGTGACCTG
* * * *
785187 GTATCGATGCCCTCACCATAGTATCGATACTACTATACTATGGTACCGATACCCCC-TCCGGTAT
1 GTATCGATACCCTTACCATGGTATCGATACTACCATACTATGGTACCGATACCCCCTTCCGGTAT
* * *
785251 CGATACCAAAATTAGGTTCGATGTTACCTG
66 CAATACCAAAATTAGATTCGATGTGACCTG
785281 GTATCGATACCCTTACCATGGTATCGATACTACC
1 GTATCGATACCCTTACCATGGTATCGATACTACC
785315 TTATCGGTAC
Statistics
Matches: 109, Mismatches: 19, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
94 61 0.56
95 48 0.44
ACGTcount: A:0.26, C:0.27, G:0.17, T:0.30
Consensus pattern (95 bp):
GTATCGATACCCTTACCATGGTATCGATACTACCATACTATGGTACCGATACCCCCTTCCGGTAT
CAATACCAAAATTAGATTCGATGTGACCTG
Found at i:785881 original size:49 final size:49
Alignment explanation
Indices: 785809--785909 Score: 175
Period size: 49 Copynumber: 2.1 Consensus size: 49
785799 AAGGCTTCAA
*
785809 TAACCAATAAAAATTGAAAGAATAAACCATTAAATTGAAAACTTACCTT
1 TAACCAACAAAAATTGAAAGAATAAACCATTAAATTGAAAACTTACCTT
* *
785858 TAACCAACAAAAATTGAAGGAATAAAGCATTAAATTGAAAACTTACCTT
1 TAACCAACAAAAATTGAAAGAATAAACCATTAAATTGAAAACTTACCTT
785907 TAA
1 TAA
785910 GCTAAGGAGG
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
49 49 1.00
ACGTcount: A:0.52, C:0.14, G:0.08, T:0.26
Consensus pattern (49 bp):
TAACCAACAAAAATTGAAAGAATAAACCATTAAATTGAAAACTTACCTT
Found at i:787833 original size:21 final size:22
Alignment explanation
Indices: 787807--787847 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
787797 CAATGACAGG
787807 GAGTATCGATACT-CCTTTAAT
1 GAGTATCGATACTACCTTTAAT
*
787828 GAGTATCGGTACTACCTTTA
1 GAGTATCGATACTACCTTTA
787848 TAATATTTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 12 0.67
22 6 0.33
ACGTcount: A:0.27, C:0.20, G:0.17, T:0.37
Consensus pattern (22 bp):
GAGTATCGATACTACCTTTAAT
Found at i:793577 original size:24 final size:23
Alignment explanation
Indices: 793544--793598 Score: 83
Period size: 24 Copynumber: 2.3 Consensus size: 23
793534 AGTGTCACAT
793544 GTTTGTCCCGAAGGACCACATAG
1 GTTTGTCCCGAAGGACCACATAG
*
793567 GTTTCGTCCCGAAGGACCACATAA
1 GTTT-GTCCCGAAGGACCACATAG
*
793591 GATTGTCC
1 GTTTGTCC
793599 TAATAGACCA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
23 8 0.28
24 21 0.72
ACGTcount: A:0.25, C:0.27, G:0.24, T:0.24
Consensus pattern (23 bp):
GTTTGTCCCGAAGGACCACATAG
Found at i:815805 original size:32 final size:32
Alignment explanation
Indices: 815769--815838 Score: 104
Period size: 32 Copynumber: 2.2 Consensus size: 32
815759 GTTGTGCACA
* * * *
815769 TCATCTTCAATCTTTTACATAACACACTCCTT
1 TCATCTTCAATCTCTTACATAAAAAACTCATT
815801 TCATCTTCAATCTCTTACATAAAAAACTCATT
1 TCATCTTCAATCTCTTACATAAAAAACTCATT
815833 TCATCT
1 TCATCT
815839 AAAACATTTC
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.31, C:0.29, G:0.00, T:0.40
Consensus pattern (32 bp):
TCATCTTCAATCTCTTACATAAAAAACTCATT
Found at i:822512 original size:2 final size:2
Alignment explanation
Indices: 822505--822554 Score: 100
Period size: 2 Copynumber: 25.0 Consensus size: 2
822495 TTATTGTGGC
822505 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
822547 AT AT AT AT
1 AT AT AT AT
822555 GGATATTTAA
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:823501 original size:27 final size:28
Alignment explanation
Indices: 823451--823508 Score: 84
Period size: 27 Copynumber: 2.1 Consensus size: 28
823441 GAGATATCAT
823451 AATTTAGAGATTAAATAAATTAATTTAA
1 AATTTAGAGATTAAATAAATTAATTTAA
*
823479 AATTTATGAG-TT-AATATATTAATTTAA
1 AATTTA-GAGATTAAATAAATTAATTTAA
823506 AAT
1 AAT
823509 AACAATCATA
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
27 17 0.61
28 8 0.29
29 3 0.11
ACGTcount: A:0.50, C:0.00, G:0.07, T:0.43
Consensus pattern (28 bp):
AATTTAGAGATTAAATAAATTAATTTAA
Found at i:828627 original size:31 final size:32
Alignment explanation
Indices: 828568--828629 Score: 99
Period size: 32 Copynumber: 2.0 Consensus size: 32
828558 TAAAACAATC
*
828568 ATTATAAAATAATAATTAATTTTTATCAAATT
1 ATTATAAAATAATAATTAATATTTATCAAATT
*
828600 ATTATAAAATAATCATTAA-ATTTATCAAAT
1 ATTATAAAATAATAATTAATATTTATCAAAT
828630 GTCTATATTT
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
31 10 0.36
32 18 0.64
ACGTcount: A:0.52, C:0.05, G:0.00, T:0.44
Consensus pattern (32 bp):
ATTATAAAATAATAATTAATATTTATCAAATT
Found at i:829200 original size:14 final size:14
Alignment explanation
Indices: 829178--829219 Score: 50
Period size: 14 Copynumber: 3.1 Consensus size: 14
829168 ATGATAAACG
*
829178 AACACAAACGAACA
1 AACATAAACGAACA
829192 AACATAAACGAACA
1 AACATAAACGAACA
* *
829206 TA-ATAAATGAACA
1 AACATAAACGAACA
829219 A
1 A
829220 CACAAACACA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
13 10 0.42
14 14 0.58
ACGTcount: A:0.64, C:0.19, G:0.07, T:0.10
Consensus pattern (14 bp):
AACATAAACGAACA
Found at i:829915 original size:18 final size:17
Alignment explanation
Indices: 829873--829916 Score: 52
Period size: 18 Copynumber: 2.5 Consensus size: 17
829863 CTCAAAATTA
829873 AATATTATTTTAAATAAT
1 AATATT-TTTTAAATAAT
* *
829891 TACATTTTTTACAATAAT
1 AATATTTTTTA-AATAAT
829909 AATATTTT
1 AATATTTT
829917 ACCTCTTAAA
Statistics
Matches: 21, Mismatches: 4, Indels: 2
0.78 0.15 0.07
Matches are distributed among these distances:
17 5 0.24
18 16 0.76
ACGTcount: A:0.43, C:0.05, G:0.00, T:0.52
Consensus pattern (17 bp):
AATATTTTTTAAATAAT
Found at i:829960 original size:16 final size:16
Alignment explanation
Indices: 829922--829969 Score: 55
Period size: 16 Copynumber: 3.0 Consensus size: 16
829912 ATTTTACCTC
829922 TTAAAAATA-TAAATTGA
1 TTAAAAATACTAAA-T-A
829939 TT-AAAATACTAAATA
1 TTAAAAATACTAAATA
*
829954 TTAAAAATACAAAATA
1 TTAAAAATACTAAATA
829970 CAAAATAATT
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
15 3 0.11
16 19 0.68
17 6 0.21
ACGTcount: A:0.62, C:0.04, G:0.02, T:0.31
Consensus pattern (16 bp):
TTAAAAATACTAAATA
Found at i:833211 original size:26 final size:26
Alignment explanation
Indices: 833181--833233 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
833171 AAAGTAAACA
*
833181 CCTAGCATGACTCTTA-TGTTGTAAAT
1 CCTAGCAAGACT-TTATTGTTGTAAAT
*
833207 CCTAGTAAGACTTTATTGTTGTAAAT
1 CCTAGCAAGACTTTATTGTTGTAAAT
833233 C
1 C
833234 GGTCTATTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 3 0.12
26 21 0.88
ACGTcount: A:0.28, C:0.17, G:0.15, T:0.40
Consensus pattern (26 bp):
CCTAGCAAGACTTTATTGTTGTAAAT
Found at i:835517 original size:2 final size:2
Alignment explanation
Indices: 835510--835548 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
835500 TTATAACTTT
835510 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
835549 GTATGTATGT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:835671 original size:3 final size:3
Alignment explanation
Indices: 835665--835726 Score: 70
Period size: 3 Copynumber: 20.0 Consensus size: 3
835655 TTACCCATTT
* * *
835665 TTA TTA TTA TTA TAA TTA TAA TTA TTA TTA TTA TTA TTA ATA TATA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA
*
835711 TTA TTTA TTA ATA TTA
1 TTA -TTA TTA TTA TTA
835727 CAAAACCCAA
Statistics
Matches: 49, Mismatches: 8, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
3 43 0.88
4 6 0.12
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (3 bp):
TTA
Found at i:841092 original size:15 final size:15
Alignment explanation
Indices: 841072--841103 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
841062 ATCAATACCT
841072 TTTTGCATACATGCA
1 TTTTGCATACATGCA
*
841087 TTTTGCATACATTCA
1 TTTTGCATACATGCA
841102 TT
1 TT
841104 ATTCATTTCA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.25, C:0.19, G:0.09, T:0.47
Consensus pattern (15 bp):
TTTTGCATACATGCA
Found at i:848407 original size:1 final size:1
Alignment explanation
Indices: 848401--848497 Score: 59
Period size: 1 Copynumber: 97.0 Consensus size: 1
848391 ATGCTTGAAG
* * * * * * * * * *
848401 AAAAAAAAAGAAAAAAAAAGAAAAGAAAAAAGAAAAAAGAAAAAGAAAAAGAGAAAAAAGAAAGA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
* * * * *
848466 AAAAAAGAGAAAAGAAAAAAGAAAAAGAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
848498 GGGGGGTCAA
Statistics
Matches: 66, Mismatches: 30, Indels: 0
0.69 0.31 0.00
Matches are distributed among these distances:
1 66 1.00
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (1 bp):
A
Found at i:848416 original size:7 final size:7
Alignment explanation
Indices: 848404--848497 Score: 115
Period size: 7 Copynumber: 13.7 Consensus size: 7
848394 CTTGAAGAAA
848404 AAAAAAG
1 AAAAAAG
*
848411 AAAAAAA
1 AAAAAAG
848418 AAGAAAAG
1 AA-AAAAG
848426 AAAAAAG
1 AAAAAAG
848433 AAAAAAG
1 AAAAAAG
848440 -AAAAAG
1 AAAAAAG
848446 AAAAAGAG
1 AAAAA-AG
848454 AAAAAAG
1 AAAAAAG
*
848461 -AAAGA-
1 AAAAAAG
848466 AAAAAAG
1 AAAAAAG
*
848473 AGAAAAG
1 AAAAAAG
848480 AAAAAAG
1 AAAAAAG
848487 -AAAAAG
1 AAAAAAG
848493 AAAAA
1 AAAAA
848498 GGGGGGTCAA
Statistics
Matches: 75, Mismatches: 6, Indels: 12
0.81 0.06 0.13
Matches are distributed among these distances:
6 20 0.27
7 42 0.56
8 13 0.17
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (7 bp):
AAAAAAG
Found at i:848436 original size:19 final size:19
Alignment explanation
Indices: 848398--848497 Score: 112
Period size: 20 Copynumber: 5.1 Consensus size: 19
848388 ATTATGCTTG
* *
848398 AAGAAAAAAAAAGAAAAAAA
1 AAGAAAAGAAAA-AAGAAAA
848418 AAGAAAAGAAAAAAGAAAA
1 AAGAAAAGAAAAAAGAAAA
848437 AAGAAAAAGAAAAAGAGAAAA
1 AAG-AAAAGAAAAA-AGAAAA
*
848458 AAG-AAAGAAAAAAAGAGAA
1 AAGAAAAG-AAAAAAGAAAA
*
848477 AAGAAAAAAGAAAAAGAAAA
1 AAGAAAAGA-AAAAAGAAAA
848497 A
1 A
848498 GGGGGGTCAA
Statistics
Matches: 70, Mismatches: 5, Indels: 10
0.82 0.06 0.12
Matches are distributed among these distances:
19 22 0.31
20 39 0.56
21 9 0.13
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (19 bp):
AAGAAAAGAAAAAAGAAAA
Found at i:848515 original size:47 final size:47
Alignment explanation
Indices: 848398--848498 Score: 147
Period size: 47 Copynumber: 2.2 Consensus size: 47
848388 ATTATGCTTG
848398 AAGAAAAA-A-AAAGAAA-AAA-AAAGAAAAGAAAAAAGAAAAAAGAAA
1 AAGAAAAAGAGAAA-AAAGAAAGAAA-AAAAGAAAAAAGAAAAAAGAAA
*
848443 AAGAAAAAGAGAAAAAAGAAAGAAAAAAAGAGAAAAGAAAAAAGAAA
1 AAGAAAAAGAGAAAAAAGAAAGAAAAAAAGAAAAAAGAAAAAAGAAA
848490 AAGAAAAAG
1 AAGAAAAAG
848499 GGGGGTCAAG
Statistics
Matches: 51, Mismatches: 1, Indels: 6
0.88 0.02 0.10
Matches are distributed among these distances:
45 8 0.16
46 4 0.08
47 36 0.71
48 3 0.06
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (47 bp):
AAGAAAAAGAGAAAAAAGAAAGAAAAAAAGAAAAAAGAAAAAAGAAA
Found at i:848841 original size:15 final size:16
Alignment explanation
Indices: 848821--848854 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
848811 TTCTATCTAT
848821 TTTAAG-TTCAATTTA
1 TTTAAGATTCAATTTA
848836 TTTAAGATTCAATTTA
1 TTTAAGATTCAATTTA
848852 TTT
1 TTT
848855 TCGAAAATTC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 6 0.33
16 12 0.67
ACGTcount: A:0.32, C:0.06, G:0.06, T:0.56
Consensus pattern (16 bp):
TTTAAGATTCAATTTA
Found at i:850428 original size:95 final size:95
Alignment explanation
Indices: 850265--850464 Score: 400
Period size: 95 Copynumber: 2.1 Consensus size: 95
850255 TATTCTCCTC
850265 ATCAGAATCAGAATTCAAGATTTCTCGGTATTAAAAGAACTATCGATATCTGTGAAATCATCTTG
1 ATCAGAATCAGAATTCAAGATTTCTCGGTATTAAAAGAACTATCGATATCTGTGAAATCATCTTG
850330 AAAGGTCACTTCATAATCAGATGAGTTGTT
66 AAAGGTCACTTCATAATCAGATGAGTTGTT
850360 ATCAGAATCAGAATTCAAGATTTCTCGGTATTAAAAGAACTATCGATATCTGTGAAATCATCTTG
1 ATCAGAATCAGAATTCAAGATTTCTCGGTATTAAAAGAACTATCGATATCTGTGAAATCATCTTG
850425 AAAGGTCACTTCATAATCAGATGAGTTGTT
66 AAAGGTCACTTCATAATCAGATGAGTTGTT
850455 ATCAGAATCA
1 ATCAGAATCA
850465 ACATGTTGCA
Statistics
Matches: 105, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
95 105 1.00
ACGTcount: A:0.36, C:0.15, G:0.17, T:0.32
Consensus pattern (95 bp):
ATCAGAATCAGAATTCAAGATTTCTCGGTATTAAAAGAACTATCGATATCTGTGAAATCATCTTG
AAAGGTCACTTCATAATCAGATGAGTTGTT
Found at i:850855 original size:24 final size:23
Alignment explanation
Indices: 850812--850856 Score: 56
Period size: 24 Copynumber: 1.9 Consensus size: 23
850802 GTTTGTAATG
*
850812 AGAAGAATTCATCTGAAGAAGGA
1 AGAAGAATTCATATGAAGAAGGA
850835 AGAAGAAATTCATAATG-AGAAG
1 AGAAG-AATTCAT-ATGAAGAAG
850857 AATTTGTTCA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
23 5 0.26
24 12 0.63
25 2 0.11
ACGTcount: A:0.51, C:0.07, G:0.24, T:0.18
Consensus pattern (23 bp):
AGAAGAATTCATATGAAGAAGGA
Found at i:851084 original size:24 final size:23
Alignment explanation
Indices: 851041--851085 Score: 56
Period size: 24 Copynumber: 1.9 Consensus size: 23
851031 GTTCATAATG
*
851041 AGAAGAATTCATCTGAAGAAGGA
1 AGAAGAATTCATATGAAGAAGGA
851064 AGAAGAAATTCATAATG-AGAAG
1 AGAAG-AATTCAT-ATGAAGAAG
851086 AATTTGTTCA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
23 5 0.26
24 12 0.63
25 2 0.11
ACGTcount: A:0.51, C:0.07, G:0.24, T:0.18
Consensus pattern (23 bp):
AGAAGAATTCATATGAAGAAGGA
Found at i:851119 original size:113 final size:114
Alignment explanation
Indices: 850765--851339 Score: 662
Period size: 113 Copynumber: 5.0 Consensus size: 114
850755 GCAAAGATTT
* * * * **
850765 AAATCCATCA-TTCAATGGATCAACTTTTCTAGAGAAAGTTTGTAATGAGAAGAA-TTCATCTGA
1 AAATCCATCACTT-GATGGATCAGCTTTTCCAGAGAGAGTTCATAATGAGAAGAACTTCATCTGA
850828 AGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGCTC
65 AGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGCTC
* *
850878 AAATCCATCATTTGATGGATCAGCTTTTCCAGAGAGAGTTCATAATGAGAAGAACTCATCATTTG
1 AAATCCATCACTTGATGGATCAGCTTTTCCAGAGAGAGTTCATAATGAGAAGAACT--TCATCTG
*
850943 AAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTCTGCTC
64 AAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGCTC
***
850994 AAATCCATCACTTGATGGATCAGCTTTTCCAGTTCGAGTTCATAATGAGAAGAA-TTCATCTGAA
1 AAATCCATCACTTGATGGATCAGCTTTTCCAGAGAGAGTTCATAATGAGAAGAACTTCATCTGAA
851058 GAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGCTC
66 GAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGCTC
* * * * *
851107 AAATTCATCACTTGATGGATCAACATTTCCAGAGAAAGTTCATAATAAGAAGAACTT-ATCTGAA
1 AAATCCATCACTTGATGGATCAGCTTTTCCAGAGAGAGTTCATAATGAGAAGAACTTCATCTGAA
* * **
851171 G-AGGAAGAAGAAGTTCACAATGAGAAGAGCTTGTTCAACCTTTTGCAT-
66 GAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGC-TC
* * ** * * * *
851219 AATTCTATCACAGAAGCAGATAGATTAGCATAAACCTTTCCAGAGAAAGTTCATAATAAGAAGAA
1 AAATCCATCAC-----TTGATGGATCAGC-T-----TTTCCAGAGAGAGTTCATAATGAGAAGAA
* * **
851284 CTT-ATCTGAAG-AGGAAGAAGAAGTTCACAATGAGAAGAGCTTGTTCAACCTTTTGC
55 CTTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGC
851340 ATAATTCTAA
Statistics
Matches: 410, Mismatches: 35, Indels: 24
0.87 0.07 0.05
Matches are distributed among these distances:
112 49 0.12
113 156 0.38
114 5 0.01
115 1 0.00
116 106 0.26
117 8 0.02
123 85 0.21
ACGTcount: A:0.38, C:0.15, G:0.19, T:0.28
Consensus pattern (114 bp):
AAATCCATCACTTGATGGATCAGCTTTTCCAGAGAGAGTTCATAATGAGAAGAACTTCATCTGAA
GAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGCTC
Found at i:851284 original size:123 final size:123
Alignment explanation
Indices: 851132--851481 Score: 601
Period size: 123 Copynumber: 2.8 Consensus size: 123
851122 TGGATCAACA
851132 TTTCCAGAGAAAGTTCATAATAAGAAGAACTTATCTGAAGAGGAAGAAGAAGTTCACAATGAGAA
1 TTTCCAGAGAAAGTTCATAATAAGAAGAACTTATCTGAAGAGGAAGAAGAAGTTCACAATGAGAA
851197 GAGCTTGTTCAACCTTTTGCATAATTCTATCACAGAAGCAGATAGATTAGCATAAACC
66 GAGCTTGTTCAACCTTTTGCATAATTCTATCACAGAAGCAGATAGATTAGCATAAACC
851255 TTTCCAGAGAAAGTTCATAATAAGAAGAACTTATCTGAAGAGGAAGAAGAAGTTCACAATGAGAA
1 TTTCCAGAGAAAGTTCATAATAAGAAGAACTTATCTGAAGAGGAAGAAGAAGTTCACAATGAGAA
*
851320 GAGCTTGTTCAACCTTTTGCATAATTCTAACACAGAAGCAGATAGATTAGCATAAACC
66 GAGCTTGTTCAACCTTTTGCATAATTCTATCACAGAAGCAGATAGATTAGCATAAACC
* * * * *
851378 TTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGAAAGAAGAAGTTCAAAATAAGA
1 TTTCCAGAGAAAGTTCATAATAAGAAGAACTTATCTGAAG-AGGAAGAAGAAGTTCACAATGAGA
* * * *
851443 AGAGCTTATTCAACCTTTTGAATGACTCTATCACAGAAG
65 AGAGCTTGTTCAACCTTTTGCATAATTCTATCACAGAAG
851482 GAAATAGGTC
Statistics
Matches: 215, Mismatches: 11, Indels: 1
0.95 0.05 0.00
Matches are distributed among these distances:
123 160 0.74
124 55 0.26
ACGTcount: A:0.42, C:0.15, G:0.19, T:0.25
Consensus pattern (123 bp):
TTTCCAGAGAAAGTTCATAATAAGAAGAACTTATCTGAAGAGGAAGAAGAAGTTCACAATGAGAA
GAGCTTGTTCAACCTTTTGCATAATTCTATCACAGAAGCAGATAGATTAGCATAAACC
Found at i:851697 original size:3 final size:3
Alignment explanation
Indices: 851689--851753 Score: 94
Period size: 3 Copynumber: 21.0 Consensus size: 3
851679 TTACCCATTT
*
851689 TTA TTA TTA TTA TAA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TATA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA
*
851738 TTA TTTA TTA ATA TTA
1 TTA -TTA TTA TTA TTA
851754 CAAAACCCAA
Statistics
Matches: 56, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
3 50 0.89
4 6 0.11
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (3 bp):
TTA
Found at i:855869 original size:55 final size:55
Alignment explanation
Indices: 855802--856162 Score: 421
Period size: 55 Copynumber: 6.6 Consensus size: 55
855792 TCTTCAAATG
* **
855802 ACGGGTCCGCTCCCTATTCTTTCAGGGAGTATA-AGACTCGAACAATCTTCGGTAA
1 ACGGGTCCGCTCCCTATTCCTTCAGGGAGTATAGA-ACTCGAACAATCTTCAATAA
* * * *
855857 ACGTGTCTGCTCCCTATTCATTCAGGGAGTATA-AGACTCGAACAAACTTCAATAA
1 ACGGGTCCGCTCCCTATTCCTTCAGGGAGTATAGA-ACTCGAACAATCTTCAATAA
* *
855912 ACGGGTCCGCTCTCTA-TCTGTTCAGGGAGTATAGAACTCGAACAATCTTC-ATAAA
1 ACGGGTCCGCTCCCTATTC-CTTCAGGGAGTATAGAACTCGAACAATCTTCAAT-AA
* ** *
855967 ACGGGTCCGCTCTCTATTCCTTCATAGAGTATAGAACTCGAACAATCTTCAACAA
1 ACGGGTCCGCTCCCTATTCCTTCAGGGAGTATAGAACTCGAACAATCTTCAATAA
* * *
856022 ACGGGTCTGCTCCCTA-TCCGTTCAAGGAGTATAGAACTCGAACAATCTTCAACAA
1 ACGGGTCCGCTCCCTATTCC-TTCAGGGAGTATAGAACTCGAACAATCTTCAATAA
* * *
856077 ATGGGTCTGCTCCCTA-TCCGTTCAGGGAGTATAGAACTCGAATAATCTTC-ATAAA
1 ACGGGTCCGCTCCCTATTCC-TTCAGGGAGTATAGAACTCGAACAATCTTCAAT-AA
* *
856132 ACGGGTCCGCTCTCTATTCCTTCAGAGAGTA
1 ACGGGTCCGCTCCCTATTCCTTCAGGGAGTA
856163 CAGGACTAAA
Statistics
Matches: 271, Mismatches: 27, Indels: 16
0.86 0.09 0.05
Matches are distributed among these distances:
54 8 0.03
55 256 0.94
56 7 0.03
ACGTcount: A:0.29, C:0.25, G:0.19, T:0.27
Consensus pattern (55 bp):
ACGGGTCCGCTCCCTATTCCTTCAGGGAGTATAGAACTCGAACAATCTTCAATAA
Found at i:856008 original size:165 final size:165
Alignment explanation
Indices: 855802--856185 Score: 528
Period size: 165 Copynumber: 2.4 Consensus size: 165
855792 TCTTCAAATG
* * * *** *
855802 ACGGGTCCGCTCCCTATTCTTTCAGGGAGTATAAGACTCGAACAATCTTCGGTAAACGTGTCTGC
1 ACGGGTCCGCTCTCTATTCCTTCAGAGAGTATAAGACTCGAACAATCTTCAACAAACGGGTCTGC
* * * * *
855867 TCCCTATTCATTCAGGGAGTATA-AGACTCGAACAAACTTCAATAAACGGGTCCGCTCTCTATCT
66 TCCCTATCCATTCAAGGAGTATAGA-ACTCGAACAAACTTCAACAAACGGGTCCGCTCCCTATCC
855931 GTTCAGGGAGTATAGAACTCGAACAATCTTCATAAA
130 GTTCAGGGAGTATAGAACTCGAACAATCTTCATAAA
*
855967 ACGGGTCCGCTCTCTATTCCTTCATAGAGTAT-AGAACTCGAACAATCTTCAACAAACGGGTCTG
1 ACGGGTCCGCTCTCTATTCCTTCAGAGAGTATAAG-ACTCGAACAATCTTCAACAAACGGGTCTG
* * * *
856031 CTCCCTATCCGTTCAAGGAGTATAGAACTCGAACAATCTTCAACAAATGGGTCTGCTCCCTATCC
65 CTCCCTATCCATTCAAGGAGTATAGAACTCGAACAAACTTCAACAAACGGGTCCGCTCCCTATCC
*
856096 GTTCAGGGAGTATAGAACTCGAATAATCTTCATAAA
130 GTTCAGGGAGTATAGAACTCGAACAATCTTCATAAA
* *
856132 ACGGGTCCGCTCTCTATTCCTTCAGAGAGTACAGGACT---A-AATCTTCAACAAACG
1 ACGGGTCCGCTCTCTATTCCTTCAGAGAGTATAAGACTCGAACAATCTTCAACAAACG
856186 AGTTTGCTTC
Statistics
Matches: 195, Mismatches: 21, Indels: 10
0.86 0.09 0.04
Matches are distributed among these distances:
161 15 0.08
162 1 0.01
164 2 0.01
165 175 0.90
166 2 0.01
ACGTcount: A:0.30, C:0.25, G:0.18, T:0.27
Consensus pattern (165 bp):
ACGGGTCCGCTCTCTATTCCTTCAGAGAGTATAAGACTCGAACAATCTTCAACAAACGGGTCTGC
TCCCTATCCATTCAAGGAGTATAGAACTCGAACAAACTTCAACAAACGGGTCCGCTCCCTATCCG
TTCAGGGAGTATAGAACTCGAACAATCTTCATAAA
Found at i:856295 original size:37 final size:37
Alignment explanation
Indices: 856189--856298 Score: 132
Period size: 37 Copynumber: 3.0 Consensus size: 37
856179 ACAAACGAGT
* * * * * *
856189 TTGCTTCACTATTCTTCCATGAAAGCTTATAG-ATGAT
1 TTGCTTCACAACTCTTCCGTGAAGGCTTA-AGTTTGAA
*
856226 TTGCTTCACTACTCTTCCGTGAAGGCTTAAGTTTGAA
1 TTGCTTCACAACTCTTCCGTGAAGGCTTAAGTTTGAA
*
856263 TTGCTTCACAACTCTTTCGTGAAGGCTTAAGTTTGA
1 TTGCTTCACAACTCTTCCGTGAAGGCTTAAGTTTGA
856299 CTTGTTTCGA
Statistics
Matches: 65, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
36 2 0.03
37 63 0.97
ACGTcount: A:0.24, C:0.20, G:0.17, T:0.39
Consensus pattern (37 bp):
TTGCTTCACAACTCTTCCGTGAAGGCTTAAGTTTGAA
Found at i:856886 original size:13 final size:14
Alignment explanation
Indices: 856848--856886 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
856838 CTTTTTCTTT
856848 TTTCATCATTTTTTC
1 TTTC-TCATTTTTTC
856863 TTTCTCATTTTTTC
1 TTTCTCATTTTTTC
856877 -TTC-CATTTTT
1 TTTCTCATTTTT
856887 CATTTTTTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
12 7 0.29
13 3 0.12
14 10 0.42
15 4 0.17
ACGTcount: A:0.10, C:0.21, G:0.00, T:0.69
Consensus pattern (14 bp):
TTTCTCATTTTTTC
Found at i:856887 original size:25 final size:24
Alignment explanation
Indices: 856835--856886 Score: 68
Period size: 24 Copynumber: 2.1 Consensus size: 24
856825 CCCCCTTTTA
*
856835 TTTCTTTTTCTTTTTTCATCATTT
1 TTTCTTTCTCTTTTTTCATCATTT
*
856859 TTTCTTTCTCATTTTTTCTTCCATTT
1 TTTCTTTCTC-TTTTTTCAT-CATTT
856885 TT
1 TT
856887 CATTTTTTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
24 9 0.38
25 8 0.33
26 7 0.29
ACGTcount: A:0.08, C:0.19, G:0.00, T:0.73
Consensus pattern (24 bp):
TTTCTTTCTCTTTTTTCATCATTT
Found at i:856988 original size:27 final size:28
Alignment explanation
Indices: 856941--856993 Score: 65
Period size: 27 Copynumber: 1.9 Consensus size: 28
856931 CATTTCTCAT
*
856941 TTTTTCCATTTTTCTTTTCTTCTTTTCA
1 TTTTTCCATTTTTCTTCTCTTCTTTTCA
*
856969 TTTTT-CATTATTT-TTCTCTTTTTTT
1 TTTTTCCATT-TTTCTTCTCTTCTTTT
856994 TTCTTTTGAC
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
27 14 0.64
28 8 0.36
ACGTcount: A:0.08, C:0.17, G:0.00, T:0.75
Consensus pattern (28 bp):
TTTTTCCATTTTTCTTCTCTTCTTTTCA
Found at i:865968 original size:46 final size:46
Alignment explanation
Indices: 865892--866019 Score: 168
Period size: 46 Copynumber: 2.8 Consensus size: 46
865882 CCATGCTTTG
* *
865892 TTATTCACAAAAAGAAATCCTAACCGCATGATATCTAATCCGCATGC
1 TTATTCAAAAAAATAAA-CCTAACCGCATGATATCTAATCCGCATGC
* * * *
865939 TTATTCAAAAAAATAAACATAACCACATGATATCTAGTTCGCATGC
1 TTATTCAAAAAAATAAACCTAACCGCATGATATCTAATCCGCATGC
* *
865985 TTGTTC-GAAAAATAAACCTAACCGCATGATATCTA
1 TTATTCAAAAAAATAAACCTAACCGCATGATATCTA
866020 GTTCTCAAGC
Statistics
Matches: 71, Mismatches: 10, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
45 26 0.37
46 30 0.42
47 15 0.21
ACGTcount: A:0.41, C:0.22, G:0.10, T:0.27
Consensus pattern (46 bp):
TTATTCAAAAAAATAAACCTAACCGCATGATATCTAATCCGCATGC
Found at i:866013 original size:45 final size:46
Alignment explanation
Indices: 865892--866023 Score: 176
Period size: 45 Copynumber: 2.9 Consensus size: 46
865882 CCATGCTTTG
* * * *
865892 TTATTCACAAAAAGAAATCCTAACCGCATGATATCTAATCCGCATGC
1 TTATTCAAAAAAATAAA-CCTAACCGCATGATATCTAGTTCGCATGC
* *
865939 TTATTCAAAAAAATAAACATAACCACATGATATCTAGTTCGCATGC
1 TTATTCAAAAAAATAAACCTAACCGCATGATATCTAGTTCGCATGC
* *
865985 TTGTTC-GAAAAATAAACCTAACCGCATGATATCTAGTTC
1 TTATTCAAAAAAATAAACCTAACCGCATGATATCTAGTTC
866024 TCAAGCATTT
Statistics
Matches: 75, Mismatches: 10, Indels: 2
0.86 0.11 0.02
Matches are distributed among these distances:
45 30 0.40
46 30 0.40
47 15 0.20
ACGTcount: A:0.39, C:0.22, G:0.11, T:0.28
Consensus pattern (46 bp):
TTATTCAAAAAAATAAACCTAACCGCATGATATCTAGTTCGCATGC
Found at i:873117 original size:100 final size:100
Alignment explanation
Indices: 872971--873397 Score: 468
Period size: 100 Copynumber: 4.3 Consensus size: 100
872961 ATAGTGTGAT
* * *** *
872971 AATAATTACAACTTAACCGGTTAAAATAAAATATGTGTAATCTATTACGTTAAACTTA-CTACTT
1 AATATTTACAACTTAACCGGTTAAAATAAAATAAGCACAACCTATTACGTTAAAC-TAGCTACTT
* *
873035 ATTTGTTTAAAGGTATAATAATAATGTAAACTGTAA
65 ATTTATTTAAAGGTATAATAATAATGTAAACGGTAA
* * ** * *
873071 AACATTTACAACTTAACCGGTTAAAATAAAATAAGCGCAATTTATTACGTTAAACTAGCTACCTG
1 AATATTTACAACTTAACCGGTTAAAATAAAATAAGCACAACCTATTACGTTAAACTAGCTACTTA
*
873136 TTTGTTTAAAGGTATAATAATAATGTAAACGGTAA
66 TTTATTTAAAGGTATAATAATAATGTAAACGGTAA
* * * *
873171 AATATTTACAACTTAACCGATT-AAATAAAAT-AGACACAACATGTTATGTTAAACTAGCTA-TT
1 AATATTTACAACTTAACCGGTTAAAATAAAATAAG-CACAACCTATTACGTTAAACTAGCTACTT
**
873233 AGTTTATTTAAAGGTATAATAATAATGTAAACAATAA
65 A-TTTATTTAAAGGTATAATAATAATGTAAACGGTAA
* * ** * ** * **
873270 AATATTTACAACTTAACTGGTTAAAA-AAATTGGGCACCACCTATTACGTTAAACTTTCTAGTGG
1 AATATTTACAACTTAACCGGTTAAAATAAAATAAGCACAACCTATTACGTTAAACTAGCTACTTA
* *
873334 TTTATTTATAGATATAATAATAATGTAAACGGTAAA
66 TTTATTTAAAGGTATAATAATAATGTAAACGGT-AA
* *
873370 AATATTTACAACTTAACCGTTTGAAATA
1 AATATTTACAACTTAACCGGTTAAAATA
873398 TTTTTTTAAA
Statistics
Matches: 279, Mismatches: 40, Indels: 15
0.84 0.12 0.04
Matches are distributed among these distances:
98 3 0.01
99 137 0.49
100 138 0.49
101 1 0.00
ACGTcount: A:0.43, C:0.11, G:0.11, T:0.34
Consensus pattern (100 bp):
AATATTTACAACTTAACCGGTTAAAATAAAATAAGCACAACCTATTACGTTAAACTAGCTACTTA
TTTATTTAAAGGTATAATAATAATGTAAACGGTAA
Found at i:873271 original size:99 final size:101
Alignment explanation
Indices: 872971--873397 Score: 460
Period size: 99 Copynumber: 4.3 Consensus size: 101
872961 ATAGTGTGAT
* ** *
872971 AATAATTACAACTTAACCGGTTAAAATAAAATATGTGTA-ATC-TATTACGTTAAACTTA-CTAC
1 AATATTTACAACTTAACCGGTTAAAATAAAATA-G-ACACAACATATTACGTTAAAC-TAGCTAC
* *
873033 TTA-TTTGTTTAAAGGTATAATAATAATGTAAACTGTAA
63 TTAGTTTATTTAAAGGTATAATAATAATGTAAACGGTAA
* * ** *
873071 AACATTTACAACTTAACCGGTTAAAATAAAATA-AGCGCAATTTATTACGTTAAACTAGCTACCT
1 AATATTTACAACTTAACCGGTTAAAATAAAATAGA-CACAACATATTACGTTAAACTAGCTACTT
*
873135 -GTTTGTTTAAAGGTATAATAATAATGTAAACGGTAA
65 AGTTTATTTAAAGGTATAATAATAATGTAAACGGTAA
* * *
873171 AATATTTACAACTTAACCGATT-AAATAAAATAGACACAACATGTTATGTTAAACTAGCTA-TTA
1 AATATTTACAACTTAACCGGTTAAAATAAAATAGACACAACATATTACGTTAAACTAGCTACTTA
**
873234 GTTTATTTAAAGGTATAATAATAATGTAAACAATAA
66 GTTTATTTAAAGGTATAATAATAATGTAAACGGTAA
* * * * * * ** * *
873270 AATATTTACAACTTAACTGGTTAAAA-AAATTGGGCACCACCTATTACGTTAAACTTTCTA-GTG
1 AATATTTACAACTTAACCGGTTAAAATAAAATAGACACAACATATTACGTTAAACTAGCTACTTA
* *
873333 GTTTATTTATAGATATAATAATAATGTAAACGGTAAA
66 GTTTATTTAAAGGTATAATAATAATGTAAACGGT-AA
* *
873370 AATATTTACAACTTAACCGTTTGAAATA
1 AATATTTACAACTTAACCGGTTAAAATA
873398 TTTTTTTAAA
Statistics
Matches: 277, Mismatches: 40, Indels: 19
0.82 0.12 0.06
Matches are distributed among these distances:
98 1 0.00
99 143 0.52
100 132 0.48
101 1 0.00
ACGTcount: A:0.43, C:0.11, G:0.11, T:0.34
Consensus pattern (101 bp):
AATATTTACAACTTAACCGGTTAAAATAAAATAGACACAACATATTACGTTAAACTAGCTACTTA
GTTTATTTAAAGGTATAATAATAATGTAAACGGTAA
Found at i:873374 original size:199 final size:200
Alignment explanation
Indices: 873019--873397 Score: 516
Period size: 199 Copynumber: 1.9 Consensus size: 200
873009 AATCTATTAC
* **
873019 GTTAAACTTACTACTTATTTGTTTAAAGGTATAATAATAATGTAAACTGTAAAACATTTACAACT
1 GTTAAACTTACTACTTATTTATTTAAAGGTATAATAATAATGTAAACAATAAAACATTTACAACT
* ** * *
873084 TAACCGGTTAAAATAAAATAAGCGCAATTTATTACGTTAAACTAGCTACCTGTTTGTTTAAAGGT
66 TAACCGGTTAAAATAAAATAAGCACAACCTATTACGTTAAACTAGCTACCTGTTTATTTAAAGAT
873149 ATAATAATAATGTAAACGGTAAAATATTTACAACTTAACCGATT-AAATAAAATAGACACAACAT
131 ATAATAATAATGTAAACGGTAAAATATTTACAACTTAACCGATTGAAATAAAATAGACACAACAT
873213 GTTAT
196 GTTAT
*
873218 GTTAAAC-TAGCTA-TTAGTTTATTTAAAGGTATAATAATAATGTAAACAATAAAATATTTACAA
1 GTTAAACTTA-CTACTTA-TTTATTTAAAGGTATAATAATAATGTAAACAATAAAACATTTACAA
* * ** * ** * *
873281 CTTAACTGGTTAAAA-AAATTGGGCACCACCTATTACGTTAAACTTTCTA-GTGGTTTATTTATA
64 CTTAACCGGTTAAAATAAAATAAGCACAACCTATTACGTTAAACTAGCTACCT-GTTTATTTAAA
*
873344 GATATAATAATAATGTAAACGGTAAAAATATTTACAACTTAACCGTTTGAAATA
128 GATATAATAATAATGTAAACGGT-AAAATATTTACAACTTAACCGATTGAAATA
873398 TTTTTTTAAA
Statistics
Matches: 156, Mismatches: 19, Indels: 9
0.85 0.10 0.05
Matches are distributed among these distances:
197 1 0.01
198 61 0.39
199 89 0.57
200 5 0.03
ACGTcount: A:0.43, C:0.11, G:0.11, T:0.35
Consensus pattern (200 bp):
GTTAAACTTACTACTTATTTATTTAAAGGTATAATAATAATGTAAACAATAAAACATTTACAACT
TAACCGGTTAAAATAAAATAAGCACAACCTATTACGTTAAACTAGCTACCTGTTTATTTAAAGAT
ATAATAATAATGTAAACGGTAAAATATTTACAACTTAACCGATTGAAATAAAATAGACACAACAT
GTTAT
Found at i:873517 original size:72 final size:72
Alignment explanation
Indices: 873394--873590 Score: 263
Period size: 72 Copynumber: 2.8 Consensus size: 72
873384 AACCGTTTGA
* **
873394 AATAT-TTTTTTAAATTCAAAAGTATCGATACTTGTGGAAAAATATTAATACTTTGCAGACTTCT
1 AATATATTTTTTAAATTCAAAAGTATCGATACTTGTGGAAAAGTATCGATACTTTGCAGACTTCT
873458 CATTTTTC
66 CA-TTTTC
* * *
873466 AAT-TCTTTTTTAAATTCAAAAGTATCAATACTTGTGGAAAAGTATCGATACTTTGCAGCCTTCT
1 AATATATTTTTTAAATTCAAAAGTATCGATACTTGTGGAAAAGTATCGATACTTTGCAGACTTCT
*
873530 TATTTTC
66 CATTTTC
* * * * *
873537 CATATATTTTTTAGATTCGAAAGTATCGATATTTGTAGAAAAGTATCGATACTT
1 AATATATTTTTTAAATTCAAAAGTATCGATACTTGTGGAAAAGTATCGATACTT
873591 ATTCGCATAC
Statistics
Matches: 110, Mismatches: 13, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
71 8 0.07
72 102 0.93
ACGTcount: A:0.34, C:0.13, G:0.12, T:0.42
Consensus pattern (72 bp):
AATATATTTTTTAAATTCAAAAGTATCGATACTTGTGGAAAAGTATCGATACTTTGCAGACTTCT
CATTTTC
Found at i:874192 original size:108 final size:108
Alignment explanation
Indices: 874017--874358 Score: 381
Period size: 108 Copynumber: 3.2 Consensus size: 108
874007 TCATAGCATT
* * * *
874017 ATAAGTAATTAATTTATTTTGTTATCGTGAGATTTCTAAGG-TCCTGTCAA-CTTAAATTTTAGT
1 ATAAATAATTAACTTATTTTGTTATCGTGAGATTTCTAAGGCTCCTAT-AAGCTTAAACTTTAGT
874080 AACATTTTAGGCGCAACCTAATATGTTAGTAATATTTATAACAAA
65 AACATTTTAGGCGCAACCTAATATGTTAGTAATATTTATAA-AAA
* *
874125 ATAAATAATTAACTTATTTTGTTATGGTGAGATTTCTAAGGCTCC-ATAAGCTTAAACTTTATTA
1 ATAAATAATTAACTTATTTTGTTATCGTGAGATTTCTAAGGCTCCTATAAGCTTAAACTTTAGTA
* * *
874189 ACATTTTAGTCGCAGCCTAATATGTCAGTAATATTTATAATAAA
66 ACATTTTAGGCGCAACCTAATATGTTAGTAATATTTATAA-AAA
* * * * * * * * * *
874233 ATAACTAATCAACATATTTTATTATCGTGAAATTTATAAGAC-CCTATCAGCTTAAACTCTCGTA
1 ATAAATAATTAACTTATTTTGTTATCGTGAGATTTCTAAGGCTCCTATAAGCTTAAACTTTAGTA
* * * * * *
874297 ATATATTAGGCG-AACCTCATATATT-GATAATAATAATAAAAA
66 ACATTTTAGGCGCAACCTAATATGTTAG-TAATATTTATAAAAA
874339 ATAAATAATTAACTTATTTT
1 ATAAATAATTAACTTATTTT
874359 ATTACCGTTA
Statistics
Matches: 196, Mismatches: 34, Indels: 10
0.82 0.14 0.04
Matches are distributed among these distances:
106 21 0.11
107 23 0.12
108 149 0.76
109 3 0.02
ACGTcount: A:0.38, C:0.12, G:0.11, T:0.39
Consensus pattern (108 bp):
ATAAATAATTAACTTATTTTGTTATCGTGAGATTTCTAAGGCTCCTATAAGCTTAAACTTTAGTA
ACATTTTAGGCGCAACCTAATATGTTAGTAATATTTATAAAAA
Found at i:876252 original size:87 final size:86
Alignment explanation
Indices: 876096--876270 Score: 314
Period size: 87 Copynumber: 2.0 Consensus size: 86
876086 CTCTAGAAGA
* *
876096 AATCTTAATTTTGGATGCAGTGATGAAGGAAACAGTCTGGTTTTCCAACTTTCTTCGCCCTATAG
1 AATCTTAATTTTGGATGCAGTGATGAAGGAAACAATCTGGTTTTCCAACTTCCTTCGCCCTATAG
*
876161 CACTAGGAGGAGAAGTAAAAT
66 CACTAGGAGAAGAAGTAAAAT
876182 AATCTTAATTATTGGATGCAGTGATGAAGGAAACAATCTGGTTTTCCAACTTCCTTCGCCCTATA
1 AATCTTAATT-TTGGATGCAGTGATGAAGGAAACAATCTGGTTTTCCAACTTCCTTCGCCCTATA
876247 GCACTAGGAGAAGAAGTAAAAT
65 GCACTAGGAGAAGAAGTAAAAT
876269 AA
1 AA
876271 AGGAGTACAG
Statistics
Matches: 85, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
86 10 0.12
87 75 0.88
ACGTcount: A:0.34, C:0.17, G:0.21, T:0.29
Consensus pattern (86 bp):
AATCTTAATTTTGGATGCAGTGATGAAGGAAACAATCTGGTTTTCCAACTTCCTTCGCCCTATAG
CACTAGGAGAAGAAGTAAAAT
Found at i:879683 original size:23 final size:23
Alignment explanation
Indices: 879611--879691 Score: 90
Period size: 23 Copynumber: 3.5 Consensus size: 23
879601 TTTTCATTTA
879611 TGTTCGTTTACGTTCATTTATTG
1 TGTTCGTTTACGTTCATTTATTG
* * * ** *
879634 TATTTGCTTACGTTTGTTCATTTG
1 TGTTCGTTTACGTTCATTTA-TTG
*
879658 TGTTCGTTTACGGTCATTTATTG
1 TGTTCGTTTACGTTCATTTATTG
879681 TGTTCGTTTAC
1 TGTTCGTTTAC
879692 ATTCGTTCGT
Statistics
Matches: 44, Mismatches: 13, Indels: 2
0.75 0.22 0.03
Matches are distributed among these distances:
23 28 0.64
24 16 0.36
ACGTcount: A:0.12, C:0.14, G:0.19, T:0.56
Consensus pattern (23 bp):
TGTTCGTTTACGTTCATTTATTG
Found at i:879709 original size:47 final size:47
Alignment explanation
Indices: 879603--879712 Score: 148
Period size: 47 Copynumber: 2.3 Consensus size: 47
879593 AAAATATATT
* * * *
879603 TTCATTTATGTTCGTTTACGTTCATTTATTGTATTTGCTTACGTTTG
1 TTCATTTATGTTCGTTTACGGTCATTTATTGTATTCGCTTACATTCG
* * *
879650 TTCATTTGTGTTCGTTTACGGTCATTTATTGTGTTCGTTTACATTCG
1 TTCATTTATGTTCGTTTACGGTCATTTATTGTATTCGCTTACATTCG
*
879697 TTCGTTTATGTTCGTT
1 TTCATTTATGTTCGTT
879713 CATTTGTATT
Statistics
Matches: 54, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
47 54 1.00
ACGTcount: A:0.13, C:0.14, G:0.17, T:0.56
Consensus pattern (47 bp):
TTCATTTATGTTCGTTTACGGTCATTTATTGTATTCGCTTACATTCG
Found at i:883501 original size:56 final size:56
Alignment explanation
Indices: 883433--883546 Score: 165
Period size: 56 Copynumber: 2.0 Consensus size: 56
883423 GAAGCACAGG
* * * * *
883433 TACTAGGTACCTACTAGTAACATCTGTACATTTCTAGGGGCATTGCTTCATGTATT
1 TACTAGCTACCTAATAGTAAAATCTGCACATTTCTAGGGGCATCGCTTCATGTATT
* *
883489 TACTAGCTACCTAATAGTAAAATCTGCACATTTCTAGGGGCATCGTTTTATGTATT
1 TACTAGCTACCTAATAGTAAAATCTGCACATTTCTAGGGGCATCGCTTCATGTATT
883545 TA
1 TA
883547 ACATACAAGT
Statistics
Matches: 51, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
56 51 1.00
ACGTcount: A:0.27, C:0.18, G:0.17, T:0.38
Consensus pattern (56 bp):
TACTAGCTACCTAATAGTAAAATCTGCACATTTCTAGGGGCATCGCTTCATGTATT
Found at i:896543 original size:5 final size:5
Alignment explanation
Indices: 896535--896612 Score: 52
Period size: 5 Copynumber: 15.4 Consensus size: 5
896525 AAAACAAAAT
* * * *
896535 AATAA AATAA AACAA ACTAA AATAA AGTGA AATAAA AACTAA AAT-A AAT-A
1 AATAA AATAA AATAA AATAA AATAA AATAA AAT-AA AA-TAA AATAA AATAA
* * *
896585 AATAA AACAT AACAA AATAA ATATAA AA
1 AATAA AATAA AATAA AATAA A-ATAA AA
896613 ATAAGGAAGA
Statistics
Matches: 57, Mismatches: 12, Indels: 8
0.74 0.16 0.10
Matches are distributed among these distances:
4 8 0.14
5 36 0.63
6 12 0.21
7 1 0.02
ACGTcount: A:0.73, C:0.06, G:0.03, T:0.18
Consensus pattern (5 bp):
AATAA
Found at i:896576 original size:22 final size:20
Alignment explanation
Indices: 896475--896612 Score: 76
Period size: 21 Copynumber: 6.8 Consensus size: 20
896465 TTAAAACAAT
*
896475 AAATAAATAACATAAAACCTA
1 AAATAAATAA-ATAAAAACTA
*
896496 AAA-AATAGTTAATAAAAACTA
1 AAATAA-A-TAAATAAAAACTA
**
896517 ATCTTAAA-AAA-ACAAAA-TA
1 A-AATAAATAAATA-AAAACTA
* *
896536 ATA-AAATAAA-ACAAACTA
1 AAATAAATAAATAAAAACTA
896554 AAATAAAGTGAAATAAAAACTA
1 AAATAAA-T-AAATAAAAACTA
896576 AAATAAATAAAT-AAAACATA
1 AAATAAATAAATAAAAAC-TA
*
896596 ACA-AAATAAATATAAAA
1 AAATAAATAAATA-AAAA
896613 ATAAGGAAGA
Statistics
Matches: 92, Mismatches: 11, Indels: 28
0.70 0.08 0.21
Matches are distributed among these distances:
17 6 0.07
18 8 0.09
19 20 0.22
20 17 0.18
21 22 0.24
22 17 0.18
23 2 0.02
ACGTcount: A:0.70, C:0.08, G:0.02, T:0.20
Consensus pattern (20 bp):
AAATAAATAAATAAAAACTA
Found at i:896583 original size:16 final size:16
Alignment explanation
Indices: 896506--896586 Score: 50
Period size: 15 Copynumber: 5.4 Consensus size: 16
896496 AAAAATAGTT
** *
896506 AATAAAAACTAATCTT
1 AATAAAAACTAAAATA
896522 AA-AAAAAC-AAAAT-
1 AATAAAAACTAAAATA
*
896535 AAT-AAAA-TAAAACA
1 AATAAAAACTAAAATA
*
896549 AACT-AAAA-TAAAGTGA
1 AA-TAAAAACTAAAAT-A
896565 AATAAAAACTAAAATA
1 AATAAAAACTAAAATA
896581 AATAAA
1 AATAAA
896587 TAAAACATAA
Statistics
Matches: 52, Mismatches: 6, Indels: 14
0.72 0.08 0.19
Matches are distributed among these distances:
13 10 0.19
14 5 0.10
15 16 0.31
16 16 0.31
17 5 0.10
ACGTcount: A:0.72, C:0.07, G:0.02, T:0.19
Consensus pattern (16 bp):
AATAAAAACTAAAATA
Found at i:896898 original size:3 final size:3
Alignment explanation
Indices: 896892--896991 Score: 59
Period size: 3 Copynumber: 34.3 Consensus size: 3
896882 CAACAACAAA
** * * *
896892 AAT AAT AAT AAT AAT AAT AAT AA- ACC AA- AAA AAC AGT AA- AA- AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * *
896936 AAT AAA AAT AAT AAA AAT AAT AAAT AAT AAA AAT -AT AAT -AT ATAT
1 AAT AAT AAT AAT AAT AAT AAT -AAT AAT AAT AAT AAT AAT AAT A-AT
896981 ATAT AAT AAT A
1 A-AT AAT AAT A
896992 CTAAAGTGGC
Statistics
Matches: 78, Mismatches: 12, Indels: 14
0.75 0.12 0.13
Matches are distributed among these distances:
2 11 0.14
3 57 0.73
4 10 0.13
ACGTcount: A:0.70, C:0.03, G:0.01, T:0.26
Consensus pattern (3 bp):
AAT
Found at i:896967 original size:35 final size:34
Alignment explanation
Indices: 896898--896975 Score: 86
Period size: 35 Copynumber: 2.2 Consensus size: 34
896888 CAAAAATAAT
* *
896898 AATAATAATAATAATAAACCAAAAAAACAGTAAAA
1 AATAATAAAAATAATAAA-CAAAAAAACAATAAAA
*
896933 AATAATAAAAATAATAAA-AATAATAAATAATAAAA
1 AATAATAAAAATAATAAACAA-AA-AAACAATAAAA
896968 ATATAATA
1 A-ATAATA
896976 TATATATATA
Statistics
Matches: 37, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
33 2 0.05
34 2 0.05
35 27 0.73
36 6 0.16
ACGTcount: A:0.73, C:0.04, G:0.01, T:0.22
Consensus pattern (34 bp):
AATAATAAAAATAATAAACAAAAAAACAATAAAA
Found at i:896975 original size:18 final size:16
Alignment explanation
Indices: 896889--896970 Score: 62
Period size: 16 Copynumber: 5.0 Consensus size: 16
896879 CAACAACAAC
*
896889 AAAAATAATAATAAT-
1 AAAAATAATAAAAATA
*
896904 AATAATAATAAACCAA-A
1 AAAAATAATAAA--AATA
*
896921 AAAACAGTAAAAAATAAT-
1 AAAA-A-TAATAAA-AATA
896939 AAAAATAATAAAAATA
1 AAAAATAATAAAAATA
*
896955 ATAAATAATAAAAATA
1 AAAAATAATAAAAATA
896971 TAATATATAT
Statistics
Matches: 53, Mismatches: 7, Indels: 13
0.73 0.10 0.18
Matches are distributed among these distances:
15 13 0.25
16 21 0.40
17 6 0.11
18 7 0.13
19 6 0.11
ACGTcount: A:0.74, C:0.04, G:0.01, T:0.21
Consensus pattern (16 bp):
AAAAATAATAAAAATA
Found at i:898066 original size:15 final size:17
Alignment explanation
Indices: 898028--898068 Score: 57
Period size: 17 Copynumber: 2.4 Consensus size: 17
898018 AGAAAAAAAG
898028 ATATATAATATAAATAT
1 ATATATAATATAAATAT
*
898045 ATGTATAATA-AAATAAT
1 ATATATAATATAAAT-AT
898062 ATATATA
1 ATATATA
898069 GTAAGACTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
16 4 0.19
17 17 0.81
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (17 bp):
ATATATAATATAAATAT
Found at i:898878 original size:21 final size:20
Alignment explanation
Indices: 898846--898885 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 20
898836 TGGATTGGAT
898846 ATCCTTCATTGTGAAGTTGAA
1 ATCCTTCATTGTGAA-TTGAA
898867 ATCCTATC-TTGTGAATTGA
1 ATCCT-TCATTGTGAATTGA
898886 TCACTTCGAG
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 4 0.22
21 12 0.67
22 2 0.11
ACGTcount: A:0.28, C:0.15, G:0.17, T:0.40
Consensus pattern (20 bp):
ATCCTTCATTGTGAATTGAA
Found at i:899837 original size:56 final size:59
Alignment explanation
Indices: 899741--899906 Score: 142
Period size: 56 Copynumber: 2.8 Consensus size: 59
899731 CTTTTCTTTT
* * * * * *
899741 TCTTTTTTCTTTTCTATTTTTTCAATTTAAGACGCTCTTTCGGGTTTTCACCCTAAACG-T-
1 TCTTTTTTC-TTT-T-TCTTTTCAATTTAGGGCACCCTTTCGGGTTTTCACCCCAAACGTTC
* * *
899801 T-TTTTTTCTTTTTCTTTTCAATTTAGGGCACCCTTTCAGGTTTTTACCCCAAATGTTTTC
1 TCTTTTTTCTTTTTCTTTTCAATTTAGGGCACCCTTTCGGGTTTTCACCCCAAACG--TTC
* *
899861 TCTTTTTTCTTTTTCTCCTTC-ATCTTAGGGCACCCTCTCGGGTTTT
1 TCTTTTTTCTTTTTCT-TTTCAAT-TTAGGGCACCCTTTCGGGTTTT
899907 TATTCTAAGC
Statistics
Matches: 87, Mismatches: 12, Indels: 12
0.78 0.11 0.11
Matches are distributed among these distances:
56 34 0.39
57 1 0.01
58 3 0.03
59 8 0.09
60 2 0.02
61 16 0.18
62 23 0.26
ACGTcount: A:0.13, C:0.23, G:0.11, T:0.52
Consensus pattern (59 bp):
TCTTTTTTCTTTTTCTTTTCAATTTAGGGCACCCTTTCGGGTTTTCACCCCAAACGTTC
Found at i:903711 original size:13 final size:14
Alignment explanation
Indices: 903688--903730 Score: 52
Period size: 14 Copynumber: 2.9 Consensus size: 14
903678 AAAGTTCCAG
903688 ACTTCTCTTCTTCA
1 ACTTCTCTTCTTCA
903702 ACTTTCTTCTTCTTTCA
1 AC-TTC-TCTTC-TTCA
903719 ACTT-TCTTCTTC
1 ACTTCTCTTCTTC
903731 TCCACCGTGA
Statistics
Matches: 26, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
13 3 0.12
14 7 0.27
15 3 0.12
16 7 0.27
17 6 0.23
ACGTcount: A:0.12, C:0.33, G:0.00, T:0.56
Consensus pattern (14 bp):
ACTTCTCTTCTTCA
Found at i:903720 original size:17 final size:17
Alignment explanation
Indices: 903693--903731 Score: 71
Period size: 17 Copynumber: 2.4 Consensus size: 17
903683 TCCAGACTTC
903693 TCTTC-TTCAACTTTCT
1 TCTTCTTTCAACTTTCT
903709 TCTTCTTTCAACTTTCT
1 TCTTCTTTCAACTTTCT
903726 TCTTCT
1 TCTTCT
903732 CCACCGTGAA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
16 5 0.23
17 17 0.77
ACGTcount: A:0.10, C:0.31, G:0.00, T:0.59
Consensus pattern (17 bp):
TCTTCTTTCAACTTTCT
Found at i:905616 original size:23 final size:23
Alignment explanation
Indices: 905586--905635 Score: 100
Period size: 23 Copynumber: 2.2 Consensus size: 23
905576 GGTCGGGTAC
905586 GAGTTAGGAGTGTTATAGAAATT
1 GAGTTAGGAGTGTTATAGAAATT
905609 GAGTTAGGAGTGTTATAGAAATT
1 GAGTTAGGAGTGTTATAGAAATT
905632 GAGT
1 GAGT
905636 ATTGAAATGA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.34, C:0.00, G:0.32, T:0.34
Consensus pattern (23 bp):
GAGTTAGGAGTGTTATAGAAATT
Found at i:909596 original size:24 final size:24
Alignment explanation
Indices: 909569--909690 Score: 115
Period size: 24 Copynumber: 5.1 Consensus size: 24
909559 ACTTGAATTC
*
909569 TGATCTGATACTTGACATGGATTA
1 TGATATGATACTTGACATGGATTA
* *
909593 TGATATGATA-TCTGACATAGATTC
1 TGATATGATACT-TGACATGGATTA
* * *
909617 TGA-ACTGATAATTGACTTGGATTC
1 TGATA-TGATACTTGACATGGATTA
*
909641 TGATATGATACTTGACCTGGATT-
1 TGATATGATACTTGACATGGATTA
* *
909664 TAGATATGATATTTGACATGAATTA
1 T-GATATGATACTTGACATGGATTA
909689 TG
1 TG
909691 CTTTGATTTT
Statistics
Matches: 82, Mismatches: 10, Indels: 12
0.79 0.10 0.12
Matches are distributed among these distances:
23 3 0.04
24 76 0.93
25 3 0.04
ACGTcount: A:0.31, C:0.11, G:0.20, T:0.39
Consensus pattern (24 bp):
TGATATGATACTTGACATGGATTA
Found at i:911817 original size:23 final size:23
Alignment explanation
Indices: 911791--911834 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
911781 CGACCCGTTT
911791 ACCCAACCCGTTGACCCGACCAG
1 ACCCAACCCGTTGACCCGACCAG
* * *
911814 ACCCGACCTGTTGACCTGACC
1 ACCCAACCCGTTGACCCGACC
911835 CGTTGATCGT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.23, C:0.45, G:0.18, T:0.14
Consensus pattern (23 bp):
ACCCAACCCGTTGACCCGACCAG
Found at i:911834 original size:13 final size:13
Alignment explanation
Indices: 911777--911840 Score: 62
Period size: 13 Copynumber: 5.2 Consensus size: 13
911767 GTTATAACCC
911777 GACCCGACCCGTT
1 GACCCGACCCGTT
* *
911790 TACCCAACCCGTT
1 GACCCGACCCGTT
*
911803 GACCCGA-CC--A
1 GACCCGACCCGTT
*
911813 GACCCGACCTGTT
1 GACCCGACCCGTT
*
911826 GACCTGACCCGTT
1 GACCCGACCCGTT
911839 GA
1 GA
911841 TCGTTGATCG
Statistics
Matches: 39, Mismatches: 9, Indels: 6
0.72 0.17 0.11
Matches are distributed among these distances:
10 7 0.18
11 1 0.03
12 2 0.05
13 29 0.74
ACGTcount: A:0.20, C:0.42, G:0.20, T:0.17
Consensus pattern (13 bp):
GACCCGACCCGTT
Found at i:913973 original size:24 final size:24
Alignment explanation
Indices: 913937--914077 Score: 124
Period size: 24 Copynumber: 5.9 Consensus size: 24
913927 TGAATATTTT
** * *
913937 ATATGATTTTTGACTTGAATTCTA
1 ATATGATACTTGACATGAATTCTG
* * *
913961 ATCTGATACTTGACATGGATTATG
1 ATATGATACTTGACATGAATTCTG
913985 ATATGATA-TCTGACAT-AGATTCTG
1 ATATGATACT-TGACATGA-ATTCTG
* * *
914009 ATCTGATACTTGACTTGGATTCTG
1 ATATGATACTTGACATGAATTCTG
* * *
914033 ATATGATACTTGACCTGGATTTTG
1 ATATGATACTTGACATGAATTCTG
*
914057 ATATGATATTTGACATGAATT
1 ATATGATACTTGACATGAATT
914078 ATGCTTTGAT
Statistics
Matches: 94, Mismatches: 19, Indels: 8
0.78 0.16 0.07
Matches are distributed among these distances:
23 1 0.01
24 92 0.98
25 1 0.01
ACGTcount: A:0.29, C:0.11, G:0.18, T:0.42
Consensus pattern (24 bp):
ATATGATACTTGACATGAATTCTG
Found at i:913989 original size:48 final size:48
Alignment explanation
Indices: 913937--914080 Score: 155
Period size: 48 Copynumber: 3.0 Consensus size: 48
913927 TGAATATTTT
* * *
913937 ATATGATTTTTGACTTGAATTCTAATCTGATACTTGACATGGATTATG
1 ATATGATATTTGACATGAATTCTGATCTGATACTTGACATGGATTATG
* * *
913985 ATATGATATCTGACAT-AGATTCTGATCTGATACTTGACTTGGATTCTG
1 ATATGATATTTGACATGA-ATTCTGATCTGATACTTGACATGGATTATG
* * * * * * *
914033 ATATGATACTTGACCTGGATTTTGATATGATATTTGACATGAATTATG
1 ATATGATATTTGACATGAATTCTGATCTGATACTTGACATGGATTATG
914081 CTTTGATTTT
Statistics
Matches: 78, Mismatches: 16, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
47 1 0.01
48 77 0.99
ACGTcount: A:0.29, C:0.11, G:0.18, T:0.42
Consensus pattern (48 bp):
ATATGATATTTGACATGAATTCTGATCTGATACTTGACATGGATTATG
Found at i:918334 original size:454 final size:454
Alignment explanation
Indices: 917487--918849 Score: 2654
Period size: 454 Copynumber: 3.0 Consensus size: 454
917477 AAACTCGAGA
917487 GGATACATTCCCTTATGTCTGTGCGGTGAATAAATTCACACGAAGACATAAGGTATATGAATCCT
1 GGATACATTCCCTTATGTCTGTGCGGTGAATAAATTCACACGAAGACATAAGGTATATGAATCCT
917552 GAAGGCTACTTGCTAGGCCTGTGCGGAGAATAAATTCTCACGAAGGCCTCACTTTCACCCCCACT
66 GAAGGCTACTTGCTAGGCCTGTGCGGAGAATAAATTCTCACGAAGGCCTCACTTTCACCCCCACT
917617 TAAAAACGGGTTTGGAGCTCGGGTATAGAGCCTTAGATGAAAAAGCTTAAAAGGCTAAAATCATT
131 TAAAAACGGGTTTGGAGCTCGGGTATAGAGCCTTAGATGAAAAAGCTTAAAAGGCTAAAATCATT
917682 TAAAGAAATCGTTAGTACAACTATTTATTTGAAAAGATAATCAAAAGTAAGTAATAAGGATCGAA
196 TAAAGAAATCGTTAGTACAACTATTTATTTGAAAAGATAATCAAAAGTAAGTAATAAGGATCGAA
917747 AAAGTTACCTTAAAATTTAAAACTTACCATTTTCGTTGAAAAGACAACTGGAAATTAACCTTAGC
261 AAAGTTACCTTAAAATTTAAAACTTACCATTTTCGTTGAAAAGACAACTGGAAATTAACCTTAGC
917812 CTGACTCACTTACCCGTCCCCAACAGAGTCGCCAAGTTGTCGCAGTCGTCTTTTGGTTGGGCCCG
326 CTGACTCACTTACCCGTCCCCAACAGAGTCGCCAAGTTGTCGCAGTCGTCTTTTGGTTGGGCCCG
917877 GAATTGGGCTTCGGCTTGAATGAAATGCTTAGAGTCGCCACCAATCATTTTAAAACATTTAGGT
391 GAATTGGGCTTCGGCTTGAATGAAATGCTTAGAGTCGCCACCAATCATTTTAAAACATTTAGGT
917941 GGATACATTCCCTTATGTCTGTGCGGTGAATAAATTCACACGAAGACATAAGGTATATGAATCCT
1 GGATACATTCCCTTATGTCTGTGCGGTGAATAAATTCACACGAAGACATAAGGTATATGAATCCT
918006 GAAGGCTACTTGCTAGGCCTGTGCGGAGAATAAATTCTCACGAAGGCCTCACTTTCACCCCCACT
66 GAAGGCTACTTGCTAGGCCTGTGCGGAGAATAAATTCTCACGAAGGCCTCACTTTCACCCCCACT
918071 TAAAAACGGGTTTGGAGCTCGGGTATAGAGCCTTAGATGAAAAAGCTTAAAAGGCTAAAATCATT
131 TAAAAACGGGTTTGGAGCTCGGGTATAGAGCCTTAGATGAAAAAGCTTAAAAGGCTAAAATCATT
918136 TAAAGAAATCGTTAGTACAACTATTTATTTGAAAAGATAATCAAAAGTAAGTAATAAGGATCGAA
196 TAAAGAAATCGTTAGTACAACTATTTATTTGAAAAGATAATCAAAAGTAAGTAATAAGGATCGAA
918201 AAAGTTACCTTAAAATTTAAAACTTACCATTTTCGTTGAAAAGACAACTGGAAATTAACCTTAGC
261 AAAGTTACCTTAAAATTTAAAACTTACCATTTTCGTTGAAAAGACAACTGGAAATTAACCTTAGC
*
918266 CTGACTCAGTTACCCGTCCCCAACAGAGTCGCCAAGTTGTCGCAGTCGTCTTTTGGTTGGGCCCG
326 CTGACTCACTTACCCGTCCCCAACAGAGTCGCCAAGTTGTCGCAGTCGTCTTTTGGTTGGGCCCG
*
918331 GAATTGGGCTTCGGCTTGAATGAAATGCTTAGAGTCGCCACAAATCATTTTAAAACATTTAGGT
391 GAATTGGGCTTCGGCTTGAATGAAATGCTTAGAGTCGCCACCAATCATTTTAAAACATTTAGGT
918395 GGATACATTCCCTTATGTCTGTGCGGTGAATAAATTCACACGAAGACATAAGGTATATGAATCCT
1 GGATACATTCCCTTATGTCTGTGCGGTGAATAAATTCACACGAAGACATAAGGTATATGAATCCT
918460 GAAGGCTACTTGCTAGGCCTGTGCGGAGAATAAATTCTCACGAAGGCCTCACTTTCACCCCCACT
66 GAAGGCTACTTGCTAGGCCTGTGCGGAGAATAAATTCTCACGAAGGCCTCACTTTCACCCCCACT
918525 TAAAAACGGGTTTGGAGCTCGGGTATAGAGCCTTAGATGAAAAAGCTTAAAAGGCTAAAATCATT
131 TAAAAACGGGTTTGGAGCTCGGGTATAGAGCCTTAGATGAAAAAGCTTAAAAGGCTAAAATCATT
918590 TAAAGAAATCGTTAGTACAACTATTTATTTGAAAAGATAATCAAAAGTAAGTAATAAGGATCGAA
196 TAAAGAAATCGTTAGTACAACTATTTATTTGAAAAGATAATCAAAAGTAAGTAATAAGGATCGAA
*
918655 AAAGTTACCTTAAAATTTAAAACTTACCATTTTCGTTGAAAAGACAACTGGAAATTAACCTTAGT
261 AAAGTTACCTTAAAATTTAAAACTTACCATTTTCGTTGAAAAGACAACTGGAAATTAACCTTAGC
* * * *
918720 CTGACTCACTTACCCGTCCCCAACAGAGTCGCCAAGTTATCACAATCGTCTTTCGGTTGGGCCCG
326 CTGACTCACTTACCCGTCCCCAACAGAGTCGCCAAGTTGTCGCAGTCGTCTTTTGGTTGGGCCCG
*
918785 GAATTGGGCTTCGACTTGAATGAAATGCTTAGAGTCGCCACCAATCATTTTAAAACATTTAGGT
391 GAATTGGGCTTCGGCTTGAATGAAATGCTTAGAGTCGCCACCAATCATTTTAAAACATTTAGGT
918849 G
1 G
918850 AATCAGACAC
Statistics
Matches: 899, Mismatches: 10, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
454 899 1.00
ACGTcount: A:0.33, C:0.19, G:0.20, T:0.28
Consensus pattern (454 bp):
GGATACATTCCCTTATGTCTGTGCGGTGAATAAATTCACACGAAGACATAAGGTATATGAATCCT
GAAGGCTACTTGCTAGGCCTGTGCGGAGAATAAATTCTCACGAAGGCCTCACTTTCACCCCCACT
TAAAAACGGGTTTGGAGCTCGGGTATAGAGCCTTAGATGAAAAAGCTTAAAAGGCTAAAATCATT
TAAAGAAATCGTTAGTACAACTATTTATTTGAAAAGATAATCAAAAGTAAGTAATAAGGATCGAA
AAAGTTACCTTAAAATTTAAAACTTACCATTTTCGTTGAAAAGACAACTGGAAATTAACCTTAGC
CTGACTCACTTACCCGTCCCCAACAGAGTCGCCAAGTTGTCGCAGTCGTCTTTTGGTTGGGCCCG
GAATTGGGCTTCGGCTTGAATGAAATGCTTAGAGTCGCCACCAATCATTTTAAAACATTTAGGT
Found at i:919201 original size:15 final size:16
Alignment explanation
Indices: 919181--919218 Score: 53
Period size: 15 Copynumber: 2.4 Consensus size: 16
919171 AAAACACACA
919181 ACAAATATA-TATAAT
1 ACAAATATAGTATAAT
919196 ACAAATATATGTATAAT
1 ACAAATATA-GTATAAT
919213 A-AAATA
1 ACAAATA
919219 ATTTATACAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 9 0.43
16 5 0.24
17 7 0.33
ACGTcount: A:0.61, C:0.05, G:0.03, T:0.32
Consensus pattern (16 bp):
ACAAATATAGTATAAT
Found at i:920001 original size:15 final size:16
Alignment explanation
Indices: 919966--920002 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
919956 TATACAAACT
919966 TTTTGTCTTAAAATCTA
1 TTTT-TCTTAAAATCTA
919983 TTTTTCTTAAAAT-TA
1 TTTTTCTTAAAATCTA
919998 TTTTT
1 TTTTT
920003 AAAAGACGTT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
15 7 0.35
16 9 0.45
17 4 0.20
ACGTcount: A:0.27, C:0.08, G:0.03, T:0.62
Consensus pattern (16 bp):
TTTTTCTTAAAATCTA
Found at i:924242 original size:27 final size:28
Alignment explanation
Indices: 924198--924267 Score: 74
Period size: 29 Copynumber: 2.5 Consensus size: 28
924188 TATAAAAAGT
*
924198 AAAATAATATAAAAT-AAA-GGGGAAGA-A
1 AAAAAAATA-AAAATAAAAGGGGGAA-ATA
924225 AAAAAAATAAAAAGTAAAAGGGGGAAATA
1 AAAAAAATAAAAA-TAAAAGGGGGAAATA
*
924254 AATAAAATAAAAAT
1 AAAAAAATAAAAAT
924268 GGAATAAATA
Statistics
Matches: 37, Mismatches: 2, Indels: 7
0.80 0.04 0.15
Matches are distributed among these distances:
26 4 0.11
27 9 0.24
28 5 0.14
29 19 0.51
ACGTcount: A:0.70, C:0.00, G:0.16, T:0.14
Consensus pattern (28 bp):
AAAAAAATAAAAATAAAAGGGGGAAATA
Found at i:925752 original size:2 final size:2
Alignment explanation
Indices: 925745--925825 Score: 146
Period size: 2 Copynumber: 41.0 Consensus size: 2
925735 GAAAATAATT
*
925745 TA TA TA TA TG TA -A 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 TA TA TA TA TA TA TA
925786 TA TA TA TA TA TA 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 TA TA TA TA TA TA
925826 GTGTGTCTAC
Statistics
Matches: 76, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
1 1 0.01
2 75 0.99
ACGTcount: A:0.49, C:0.00, G:0.01, T:0.49
Consensus pattern (2 bp):
TA
Found at i:930984 original size:31 final size:31
Alignment explanation
Indices: 930941--931000 Score: 95
Period size: 31 Copynumber: 1.9 Consensus size: 31
930931 AACTTAAAAG
*
930941 AGTTTTGAAATACTGAGATTTAAATAATTTT
1 AGTTTTGAAATACTGAAATTTAAATAATTTT
930972 AGTTTT-ACAATACTGAAATTTAAATAATT
1 AGTTTTGA-AATACTGAAATTTAAATAATT
931001 CATACAACTA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
30 1 0.04
31 26 0.96
ACGTcount: A:0.42, C:0.05, G:0.10, T:0.43
Consensus pattern (31 bp):
AGTTTTGAAATACTGAAATTTAAATAATTTT
Found at i:931048 original size:21 final size:21
Alignment explanation
Indices: 931022--931065 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
931012 AATAATAAAT
*
931022 TATTTAAAATAAATCAATCCA
1 TATTTAAAAAAAATCAATCCA
*
931043 TATTTAAAAAAAATCAATTCA
1 TATTTAAAAAAAATCAATCCA
931064 TA
1 TA
931066 CTAATAATTT
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:0.55, C:0.11, G:0.00, T:0.34
Consensus pattern (21 bp):
TATTTAAAAAAAATCAATCCA
Found at i:931115 original size:26 final size:25
Alignment explanation
Indices: 931082--931199 Score: 103
Period size: 26 Copynumber: 4.5 Consensus size: 25
931072 ATTTATTTAA
931082 AATAAATCAATCTATACAACTACAAT
1 AATAAATCAATCTATA-AACTACAAT
*** *
931108 AATAAATCAATCTATATTTTAAAAT
1 AATAAATCAATCTATAAACTACAAT
* * *
931133 AAATCAATCAATACTAATAAATTATTTAA-
1 -AATAAATCAAT-CT-ATAAACTA--CAAT
931162 AATAAATCAATCTATACAACTACAAT
1 AATAAATCAATCTATA-AACTACAAT
931188 AATAAATCAATC
1 AATAAATCAATC
931200 CATATTTTAA
Statistics
Matches: 74, Mismatches: 11, Indels: 14
0.75 0.11 0.14
Matches are distributed among these distances:
25 7 0.09
26 41 0.55
27 8 0.11
28 16 0.22
30 2 0.03
ACGTcount: A:0.54, C:0.14, G:0.00, T:0.31
Consensus pattern (25 bp):
AATAAATCAATCTATAAACTACAAT
Found at i:931154 original size:22 final size:22
Alignment explanation
Indices: 931082--931154 Score: 53
Period size: 22 Copynumber: 3.3 Consensus size: 22
931072 ATTTATTTAA
* *
931082 AATAAATCAATCTATACAACTAC-
1 AATAAATAAATCAAT-CAA-TACT
*
931105 AAT-AATAAATCAATCTATA-T
1 AATAAATAAATCAATCAATACT
**
931125 TTTAAAATAAATCAATCAATACT
1 AAT-AAATAAATCAATCAATACT
931148 AATAAAT
1 AATAAAT
931155 TATTTAAAAT
Statistics
Matches: 38, Mismatches: 8, Indels: 9
0.69 0.15 0.16
Matches are distributed among these distances:
20 3 0.08
21 2 0.05
22 28 0.74
23 5 0.13
ACGTcount: A:0.55, C:0.14, G:0.00, T:0.32
Consensus pattern (22 bp):
AATAAATAAATCAATCAATACT
Found at i:931169 original size:54 final size:55
Alignment explanation
Indices: 931108--931554 Score: 350
Period size: 54 Copynumber: 8.2 Consensus size: 55
931098 CAACTACAAT
*
931108 AATAAATCAATCTATA-TTTTAAAATAAATCAATCAATACTAATAAATTATTTAA
1 AATAAATCAATCTATATTTTTAAAATAAATCAATCCATACTAATAAATTATTTAA
** ** ** * ** *
931162 AATAAATCAATCTATACAACTACAATAATAAATCAATCCATA-TTTTAAAATAAAT-C
1 AATAAATCAATCTAT--ATTTTTAA-AATAAATCAATCCATACTAATAAATTATTTAA
** * * *
931218 AATCTATACAA-ATAAATTATTTAAAATAAATCAATCTATACTAATAAATTATTTAA
1 AATAAAT-CAATCTATATT-TTTAAAATAAATCAATCCATACTAATAAATTATTTAA
* * **
931274 AATAAATCAATCCATA-TTTTAAAATAAATCAATTCATA-TTTTAAA--A--T-A
1 AATAAATCAATCTATATTTTTAAAATAAATCAATCCATACTAATAAATTATTTAA
* * ** * ** *
931322 AATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATA-TTTTAAAATAAAT-C
1 AATAAATCAAT-CT-AT--ATT-TTTAAAATAAATCAATCCATACTAATAAATTATTTAA
** * * *
931380 AATCCATACAA-ATAAATTATTTAAAATAAACCAATCCATACTAATAAATTATTTAA
1 AATAAAT-CAATCTATATT-TTTAAAATAAATCAATCCATACTAATAAATTATTTAA
* *
931436 AATAAATCAATCCATA-TTTTAAAATAAATCAATCCATATTAATAAATTATTTAA
1 AATAAATCAATCTATATTTTTAAAATAAATCAATCCATACTAATAAATTATTTAA
*
931490 AATAAATCAATCTATA-TTTTAAAATAAATCAATTCATACTAATAAATTATTTAA
1 AATAAATCAATCTATATTTTTAAAATAAATCAATCCATACTAATAAATTATTTAA
931544 AATAAATCAAT
1 AATAAATCAAT
931555 TGATACAACT
Statistics
Matches: 310, Mismatches: 60, Indels: 46
0.75 0.14 0.11
Matches are distributed among these distances:
48 10 0.03
49 2 0.01
50 2 0.01
51 1 0.00
52 1 0.00
53 6 0.02
54 198 0.64
55 27 0.09
56 24 0.08
57 15 0.05
58 22 0.07
59 2 0.01
ACGTcount: A:0.53, C:0.12, G:0.00, T:0.35
Consensus pattern (55 bp):
AATAAATCAATCTATATTTTTAAAATAAATCAATCCATACTAATAAATTATTTAA
Found at i:931244 original size:14 final size:14
Alignment explanation
Indices: 931227--931280 Score: 54
Period size: 14 Copynumber: 3.6 Consensus size: 14
931217 CAATCTATAC
931227 AAATAAATTATTTA
1 AAATAAATTATTTA
*
931241 AAATAAATCAATCTATA
1 AAATAAAT-TAT-T-TA
*
931258 CTAATAAATTATTTA
1 -AAATAAATTATTTA
931273 AAATAAAT
1 AAATAAAT
931281 CAATCCATAT
Statistics
Matches: 32, Mismatches: 4, Indels: 8
0.73 0.09 0.18
Matches are distributed among these distances:
14 15 0.47
15 4 0.12
16 2 0.06
17 4 0.12
18 7 0.22
ACGTcount: A:0.57, C:0.06, G:0.00, T:0.37
Consensus pattern (14 bp):
AAATAAATTATTTA
Found at i:931244 original size:32 final size:32
Alignment explanation
Indices: 931205--931361 Score: 163
Period size: 32 Copynumber: 4.5 Consensus size: 32
931195 CAATCCATAT
931205 TTTAAAATAAATCAATCTATACAAATAAATTA
1 TTTAAAATAAATCAATCTATACAAATAAATTA
*
931237 TTTAAAATAAATCAATCTATACTAATAAATTA
1 TTTAAAATAAATCAATCTATACAAATAAATTA
931269 TTTAAAATAAATCAATCCATATTTTA-AAATAAATCAATTCATA
1 TTTAAAATAAATCAAT-C-TA---TACAAAT--A--AA-T--TA
* *
931312 TTTTAAAATAAATCAATCCATACTAATAAATTA
1 -TTTAAAATAAATCAATCTATACAAATAAATTA
931345 TTTAAAATAAATCAATC
1 TTTAAAATAAATCAATC
931362 CATATTTTAA
Statistics
Matches: 107, Mismatches: 4, Indels: 28
0.77 0.03 0.20
Matches are distributed among these distances:
32 64 0.60
33 3 0.03
34 2 0.02
35 1 0.01
36 5 0.05
37 2 0.02
38 2 0.02
39 2 0.02
40 5 0.05
41 1 0.01
42 1 0.01
43 3 0.03
44 16 0.15
ACGTcount: A:0.53, C:0.11, G:0.00, T:0.36
Consensus pattern (32 bp):
TTTAAAATAAATCAATCTATACAAATAAATTA
Found at i:931342 original size:22 final size:22
Alignment explanation
Indices: 931269--931333 Score: 121
Period size: 22 Copynumber: 3.0 Consensus size: 22
931259 TAATAAATTA
931269 TTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATAT
*
931291 TTTAAAATAAATCAATTCATAT
1 TTTAAAATAAATCAATCCATAT
931313 TTTAAAATAAATCAATCCATA
1 TTTAAAATAAATCAATCCATA
931334 CTAATAAATT
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 41 1.00
ACGTcount: A:0.51, C:0.12, G:0.00, T:0.37
Consensus pattern (22 bp):
TTTAAAATAAATCAATCCATAT
Found at i:931362 original size:32 final size:32
Alignment explanation
Indices: 931313--931701 Score: 271
Period size: 32 Copynumber: 13.9 Consensus size: 32
931303 CAATTCATAT
931313 TTTAAAATAAATCAATCCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
931345 TTTAAAATAAATCAAT-C---C--AT--A-T-
1 TTTAAAATAAATCAATCCATACTAATAAATTA
*
931367 TTTAAAATAAATCAATCCATACAAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
*
931399 TTTAAAATAAACCAATCCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
931431 TTTAAAATAAATCAAT-C---C--AT--A-T-
1 TTTAAAATAAATCAATCCATACTAATAAATTA
*
931453 TTTAAAATAAATCAATCCATATTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
931485 TTTAAAATAAATC-A---AT-CT-AT--A-T-
1 TTTAAAATAAATCAATCCATACTAATAAATTA
*
931507 TTTAAAATAAATCAATTCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
** *
931539 TTTAAAATAAATCAATTGATAC-AACTACA--A
1 TTTAAAATAAATCAATCCATACTAA-TAAATTA
931569 --T--AATAAATCAATCC--A-T-AT------
1 TTTAAAATAAATCAATCCATACTAATAAATTA
*
931587 TTTAAAATAAATCAATCTATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
931619 TTTAAAATAAATCAAT-C---C--AT--A-T-
1 TTTAAAATAAATCAATCCATACTAATAAATTA
*
931641 TTTAAAATAAATCAATTCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
* *
931673 TTTAAAATAAATTAATTCATACTAATAAA
1 TTTAAAATAAATCAATCCATACTAATAAA
931702 ATTAAGTATG
Statistics
Matches: 289, Mismatches: 12, Indels: 112
0.70 0.03 0.27
Matches are distributed among these distances:
20 1 0.00
22 74 0.26
23 9 0.03
24 6 0.02
25 1 0.00
26 25 0.09
27 3 0.01
28 14 0.05
30 5 0.02
31 9 0.03
32 142 0.49
ACGTcount: A:0.53, C:0.12, G:0.00, T:0.35
Consensus pattern (32 bp):
TTTAAAATAAATCAATCCATACTAATAAATTA
Found at i:931458 original size:86 final size:86
Alignment explanation
Indices: 931313--931501 Score: 351
Period size: 86 Copynumber: 2.2 Consensus size: 86
931303 CAATTCATAT
931313 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAA
1 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAA
931378 TCAATCCATACAAATAAATTA
66 TCAATCCATACAAATAAATTA
*
931399 TTTAAAATAAACCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAA
1 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAA
**
931464 TCAATCCATATTAATAAATTA
66 TCAATCCATACAAATAAATTA
931485 TTTAAAATAAATCAATC
1 TTTAAAATAAATCAATC
931502 TATATTTTAA
Statistics
Matches: 99, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
86 99 1.00
ACGTcount: A:0.53, C:0.13, G:0.00, T:0.34
Consensus pattern (86 bp):
TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAA
TCAATCCATACAAATAAATTA
Found at i:931479 original size:18 final size:20
Alignment explanation
Indices: 931267--931527 Score: 100
Period size: 22 Copynumber: 14.1 Consensus size: 20
931257 ACTAATAAAT
931267 TATTTAAAATAAATCAATCCA
1 TATTT-AAATAAATCAATCCA
*
931288 TATTTTAAAATAAATCAATTCA
1 TA-TTT-AAATAAATCAATCCA
931310 TATTTTAAAATAAATCAATCCA
1 TA-TTT-AAATAAATCAATCCA
*
931332 TA-CT-AATAAAT---T--A
1 TATTTAAATAAATCAATCCA
*
931345 T-TTAAAATAAATCAATCCA
1 TATTTAAATAAATCAATCCA
931364 TATTTTAAAATAAATCAATCCA
1 TA-TTT-AAATAAATCAATCCA
*
931386 TA--CAAATAAAT---T--A
1 TATTTAAATAAATCAATCCA
* *
931399 T-TTAAAATAAACCAATCCA
1 TATTTAAATAAATCAATCCA
*
931418 TA-CT-AATAAAT---T--A
1 TATTTAAATAAATCAATCCA
*
931431 T-TTAAAATAAATCAATCCA
1 TATTTAAATAAATCAATCCA
931450 TATTTTAAAATAAATCAATCCA
1 TA-TTT-AAATAAATCAATCCA
931472 TA-TT-AATAAAT---T--A
1 TATTTAAATAAATCAATCCA
* *
931485 T-TTAAAATAAATCAATCTA
1 TATTTAAATAAATCAATCCA
*
931504 TATTTTAAAATAAATCAATTCA
1 TA-TTT-AAATAAATCAATCCA
931526 TA
1 TA
931528 CTAATAAATT
Statistics
Matches: 182, Mismatches: 19, Indels: 77
0.65 0.07 0.28
Matches are distributed among these distances:
13 9 0.05
14 28 0.15
15 4 0.02
17 4 0.02
18 28 0.15
19 8 0.04
20 3 0.02
21 8 0.04
22 90 0.49
ACGTcount: A:0.52, C:0.12, G:0.00, T:0.36
Consensus pattern (20 bp):
TATTTAAATAAATCAATCCA
Found at i:931634 original size:54 final size:54
Alignment explanation
Indices: 931570--931693 Score: 214
Period size: 54 Copynumber: 2.3 Consensus size: 54
931560 CAACTACAAT
931570 AATAAATCAATCCATATTTTAAAATAAATCAA-TCTATACTAATAAATTATTTAA
1 AATAAATCAATCCATATTTTAAAATAAATCAATTC-ATACTAATAAATTATTTAA
931624 AATAAATCAATCCATATTTTAAAATAAATCAATTCATACTAATAAATTATTTAA
1 AATAAATCAATCCATATTTTAAAATAAATCAATTCATACTAATAAATTATTTAA
* *
931678 AATAAATTAATTCATA
1 AATAAATCAATCCATA
931694 CTAATAAAAT
Statistics
Matches: 67, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
54 65 0.97
55 2 0.03
ACGTcount: A:0.52, C:0.10, G:0.00, T:0.37
Consensus pattern (54 bp):
AATAAATCAATCCATATTTTAAAATAAATCAATTCATACTAATAAATTATTTAA
Found at i:931645 original size:22 final size:22
Alignment explanation
Indices: 931619--931661 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
931609 TAATAAATTA
931619 TTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATAT
*
931641 TTTAAAATAAATCAATTCATA
1 TTTAAAATAAATCAATCCATA
931662 CTAATAAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.51, C:0.12, G:0.00, T:0.37
Consensus pattern (22 bp):
TTTAAAATAAATCAATCCATAT
Found at i:931667 original size:18 final size:17
Alignment explanation
Indices: 931646--931701 Score: 55
Period size: 18 Copynumber: 3.4 Consensus size: 17
931636 CATATTTTAA
931646 AATAAATCAATTCATACT
1 AATAAAT-AATTCATACT
* *
931664 AATAAATTATT--TA-A
1 AATAAATAATTCATACT
931678 AATAAATTAATTCATACT
1 AATAAA-TAATTCATACT
931696 AATAAA
1 AATAAA
931702 ATTAAGTATG
Statistics
Matches: 30, Mismatches: 4, Indels: 8
0.71 0.10 0.19
Matches are distributed among these distances:
14 6 0.20
15 6 0.20
17 5 0.17
18 13 0.43
ACGTcount: A:0.55, C:0.09, G:0.00, T:0.36
Consensus pattern (17 bp):
AATAAATAATTCATACT
Found at i:931670 original size:22 final size:22
Alignment explanation
Indices: 931621--931669 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
931611 ATAAATTATT
**
931621 TAAAATAAATCAATCCATATTT
1 TAAAATAAATCAATCCATATAA
*
931643 TAAAATAAATCAATTCATACTAA
1 TAAAATAAATCAATCCATA-TAA
931666 TAAA
1 TAAA
931670 TTATTTAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
22 18 0.78
23 5 0.22
ACGTcount: A:0.55, C:0.12, G:0.00, T:0.33
Consensus pattern (22 bp):
TAAAATAAATCAATCCATATAA
Found at i:937253 original size:36 final size:37
Alignment explanation
Indices: 937207--937276 Score: 124
Period size: 36 Copynumber: 1.9 Consensus size: 37
937197 TTTCCCTAAT
*
937207 ATATAGTATAATGGACGGCTTAGAGTTTTCCCACTTG
1 ATATAGTATAATGAACGGCTTAGAGTTTTCCCACTTG
937244 ATATA-TATAATGAACGGCTTAGAGTTTTCCCAC
1 ATATAGTATAATGAACGGCTTAGAGTTTTCCCAC
937277 GTGAAATTAT
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
36 27 0.84
37 5 0.16
ACGTcount: A:0.30, C:0.17, G:0.19, T:0.34
Consensus pattern (37 bp):
ATATAGTATAATGAACGGCTTAGAGTTTTCCCACTTG
Found at i:940247 original size:15 final size:15
Alignment explanation
Indices: 940227--940259 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
940217 AAAAATGTCT
940227 ATAAATTATAAACAA
1 ATAAATTATAAACAA
*
940242 ATAAATTATAAATAA
1 ATAAATTATAAACAA
940257 ATA
1 ATA
940260 TAAGAAAACA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.30
Consensus pattern (15 bp):
ATAAATTATAAACAA
Found at i:940896 original size:20 final size:20
Alignment explanation
Indices: 940844--940897 Score: 56
Period size: 20 Copynumber: 2.6 Consensus size: 20
940834 AACTTAATAT
*
940844 TATTATTTTTAAAATATTAAAA
1 TATTATTTTT--ATTATTAAAA
*
940866 TAATT-TATTTATTATTAAAA
1 T-ATTATTTTTATTATTAAAA
940886 TATTATTTTTAT
1 TATTATTTTTAT
940898 AATTTTGTTA
Statistics
Matches: 27, Mismatches: 3, Indels: 6
0.75 0.08 0.17
Matches are distributed among these distances:
19 3 0.11
20 16 0.59
22 5 0.19
23 3 0.11
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (20 bp):
TATTATTTTTATTATTAAAA
Found at i:941207 original size:23 final size:23
Alignment explanation
Indices: 941177--941246 Score: 86
Period size: 23 Copynumber: 3.0 Consensus size: 23
941167 TTAAAATAAA
*
941177 AATATAATATCTTATATTATTAT
1 AATATAATATATTATATTATTAT
* *
941200 AATATAATTTATTATTTTATTAT
1 AATATAATATATTATATTATTAT
*
941223 AATATTAAACATATTATATTATTA
1 AATA-T-AATATATTATATTATTA
941247 GAAATATTAA
Statistics
Matches: 39, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
23 24 0.62
24 1 0.03
25 14 0.36
ACGTcount: A:0.44, C:0.03, G:0.00, T:0.53
Consensus pattern (23 bp):
AATATAATATATTATATTATTAT
Found at i:941212 original size:18 final size:18
Alignment explanation
Indices: 941191--941225 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
941181 TAATATCTTA
941191 TATTATTATAATATAATT
1 TATTATTATAATATAATT
* *
941209 TATTATTTTATTATAAT
1 TATTATTATAATATAAT
941226 ATTAAACATA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (18 bp):
TATTATTATAATATAATT
Found at i:941239 original size:17 final size:17
Alignment explanation
Indices: 941217--941255 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
941207 TTTATTATTT
941217 TATTATAATATTA-AACA
1 TATTATAATATTAGAA-A
*
941234 TATTATATTATTAGAAA
1 TATTATAATATTAGAAA
941251 TATTA
1 TATTA
941256 ATAAATATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 18 0.90
18 2 0.10
ACGTcount: A:0.49, C:0.03, G:0.03, T:0.46
Consensus pattern (17 bp):
TATTATAATATTAGAAA
Found at i:942024 original size:27 final size:27
Alignment explanation
Indices: 941967--942031 Score: 69
Period size: 27 Copynumber: 2.4 Consensus size: 27
941957 GTATAAAAAC
* * * *
941967 TAAAAATTAAATATTTGATTATGCTTA
1 TAAAAATTAAATATCTAATGATGATTA
941994 TAAAAATTAAATATCTAATGAT-ATTA
1 TAAAAATTAAATATCTAATGATGATTA
942020 TTAAAAAATTAA
1 -T-AAAAATTAA
942032 TTATACTATT
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
26 3 0.09
27 20 0.62
28 9 0.28
ACGTcount: A:0.52, C:0.03, G:0.05, T:0.40
Consensus pattern (27 bp):
TAAAAATTAAATATCTAATGATGATTA
Found at i:945093 original size:29 final size:29
Alignment explanation
Indices: 945051--945108 Score: 89
Period size: 29 Copynumber: 2.0 Consensus size: 29
945041 GTGTTAGCCG
*
945051 TAGGTCGCCATGTCTTCCGGGCGACCTAC
1 TAGGTCGCCATGTCTTCCCGGCGACCTAC
* *
945080 TAGGTTGCCATGTCTTCCCGGCGAGCTAC
1 TAGGTCGCCATGTCTTCCCGGCGACCTAC
945109 AAGAGATAGC
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.14, C:0.33, G:0.28, T:0.26
Consensus pattern (29 bp):
TAGGTCGCCATGTCTTCCCGGCGACCTAC
Found at i:945178 original size:10 final size:10
Alignment explanation
Indices: 945173--945219 Score: 51
Period size: 10 Copynumber: 4.7 Consensus size: 10
945163 AACCGAGACT
945173 ATCCGAGAGC
1 ATCCGAGAGC
945183 ATCCGAG-GCC
1 ATCCGAGAG-C
*
945193 ATCCAAGAGC
1 ATCCGAGAGC
*
945203 ATCCGAGGGC
1 ATCCGAGAGC
*
945213 AGCCGAG
1 ATCCGAG
945220 CGAGCTATGC
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
9 1 0.03
10 29 0.94
11 1 0.03
ACGTcount: A:0.28, C:0.32, G:0.32, T:0.09
Consensus pattern (10 bp):
ATCCGAGAGC
Found at i:945196 original size:20 final size:20
Alignment explanation
Indices: 945173--945210 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
945163 AACCGAGACT
*
945173 ATCCGAGAGCATCCGAGGCC
1 ATCCAAGAGCATCCGAGGCC
945193 ATCCAAGAGCATCCGAGG
1 ATCCAAGAGCATCCGAGG
945211 GCAGCCGAGC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.29, C:0.32, G:0.29, T:0.11
Consensus pattern (20 bp):
ATCCAAGAGCATCCGAGGCC
Found at i:945209 original size:30 final size:33
Alignment explanation
Indices: 945148--945219 Score: 96
Period size: 34 Copynumber: 2.2 Consensus size: 33
945138 ACACGTTGGA
945148 CATCCGAGGCCATCCAACCGAGACTATCCGAGAG
1 CATCCGAGGCCATCCAA-CGAGACTATCCGAGAG
*
945182 CATCCGAGGCCATCCAA-GAG-C-ATCCGAGGG
1 CATCCGAGGCCATCCAACGAGACTATCCGAGAG
*
945212 CAGCCGAG
1 CATCCGAG
945220 CGAGCTATGC
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
30 15 0.42
31 1 0.03
32 3 0.08
34 17 0.47
ACGTcount: A:0.28, C:0.35, G:0.28, T:0.10
Consensus pattern (33 bp):
CATCCGAGGCCATCCAACGAGACTATCCGAGAG
Found at i:947179 original size:5 final size:5
Alignment explanation
Indices: 947164--947193 Score: 51
Period size: 5 Copynumber: 5.8 Consensus size: 5
947154 TTTCATGACA
947164 ATTATT ATTAT ATTAT ATTAT ATTAT ATTA
1 ATTA-T ATTAT ATTAT ATTAT ATTAT ATTA
947194 GAACGAACAA
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 20 0.83
6 4 0.17
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (5 bp):
ATTAT
Found at i:954602 original size:21 final size:22
Alignment explanation
Indices: 954576--954618 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
954566 CAAGGACAGG
*
954576 GAGTATTGATAC-TCCTTTAAT
1 GAGTATCGATACTTCCTTTAAT
*
954597 GAGTATCGGTACTTCCTTTAAT
1 GAGTATCGATACTTCCTTTAAT
954619 ATTTTTAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 10 0.53
22 9 0.47
ACGTcount: A:0.26, C:0.16, G:0.16, T:0.42
Consensus pattern (22 bp):
GAGTATCGATACTTCCTTTAAT
Found at i:956695 original size:6 final size:6
Alignment explanation
Indices: 956684--956724 Score: 64
Period size: 6 Copynumber: 6.8 Consensus size: 6
956674 AAAGTAAAGA
* *
956684 GGAAGC GGAAGC GGAAGC GGAAGC GGAAGA GGAAGA GGAAG
1 GGAAGC GGAAGC GGAAGC GGAAGC GGAAGC GGAAGC GGAAG
956725 AGGATTAAAG
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 34 1.00
ACGTcount: A:0.39, C:0.10, G:0.51, T:0.00
Consensus pattern (6 bp):
GGAAGC
Found at i:956707 original size:18 final size:18
Alignment explanation
Indices: 956680--956724 Score: 72
Period size: 18 Copynumber: 2.5 Consensus size: 18
956670 AATTAAAGTA
*
956680 AAGAGGAAGCGGAAGCGG
1 AAGAGGAAGCGGAAGAGG
*
956698 AAGCGGAAGCGGAAGAGG
1 AAGAGGAAGCGGAAGAGG
956716 AAGAGGAAG
1 AAGAGGAAG
956725 AGGATTAAAG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.42, C:0.09, G:0.49, T:0.00
Consensus pattern (18 bp):
AAGAGGAAGCGGAAGAGG
Found at i:956725 original size:6 final size:6
Alignment explanation
Indices: 956680--956728 Score: 62
Period size: 6 Copynumber: 8.2 Consensus size: 6
956670 AATTAAAGTA
* * * *
956680 AAGAGG AAGCGG AAGCGG AAGCGG AAGCGG AAGAGG AAGAGG AAGAGG
1 AAGAGG AAGAGG AAGAGG AAGAGG AAGAGG AAGAGG AAGAGG AAGAGG
956728 A
1 A
956729 TTAAAGTAAA
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
6 41 1.00
ACGTcount: A:0.43, C:0.08, G:0.49, T:0.00
Consensus pattern (6 bp):
AAGAGG
Found at i:960461 original size:11 final size:12
Alignment explanation
Indices: 960435--960459 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
960425 ATAGATATCT
960435 AATAGAAAAAAA
1 AATAGAAAAAAA
960447 AATAGAAAAAAA
1 AATAGAAAAAAA
960459 A
1 A
960460 TATTTTGAAA
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:0.84, C:0.00, G:0.08, T:0.08
Consensus pattern (12 bp):
AATAGAAAAAAA
Found at i:963490 original size:18 final size:18
Alignment explanation
Indices: 963450--963492 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
963440 TAATAAAAGA
963450 TGAGAGAGAATGGTCAAG
1 TGAGAGAGAATGGTCAAG
* *
963468 AGAGAGAGAGA-GGTCGAG
1 TGAGAGAGA-ATGGTCAAG
963486 TGAGAGA
1 TGAGAGA
963493 AAAAAGAGAT
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
18 20 0.95
19 1 0.05
ACGTcount: A:0.40, C:0.05, G:0.44, T:0.12
Consensus pattern (18 bp):
TGAGAGAGAATGGTCAAG
Found at i:974005 original size:6 final size:6
Alignment explanation
Indices: 973994--974031 Score: 76
Period size: 6 Copynumber: 6.3 Consensus size: 6
973984 TGCTCTGCCG
973994 CTTTCT CTTTCT CTTTCT CTTTCT CTTTCT CTTTCT CT
1 CTTTCT CTTTCT CTTTCT CTTTCT CTTTCT CTTTCT CT
974032 GTTCGTGTTT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 32 1.00
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (6 bp):
CTTTCT
Found at i:974488 original size:2 final size:2
Alignment explanation
Indices: 974475--974509 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
974465 GTTGCAAATA
*
974475 AT AT AA AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
974510 CGTGTATCTG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (2 bp):
AT
Found at i:975627 original size:9 final size:9
Alignment explanation
Indices: 975615--975671 Score: 66
Period size: 9 Copynumber: 6.7 Consensus size: 9
975605 TAATATTTTG
975615 TATTTAATT
1 TATTTAATT
975624 TATTTAA-T
1 TATTTAATT
975632 TATTTAATT
1 TATTTAATT
975641 TATTTAA--
1 TATTTAATT
*
975648 TATTTTATT
1 TATTTAATT
*
975657 TAATTAATT
1 TATTTAATT
*
975666 TTTTTA
1 TATTTA
975672 CAGATATAAA
Statistics
Matches: 40, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
7 6 0.15
8 8 0.20
9 26 0.65
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (9 bp):
TATTTAATT
Found at i:975637 original size:17 final size:17
Alignment explanation
Indices: 975615--975665 Score: 77
Period size: 17 Copynumber: 3.1 Consensus size: 17
975605 TAATATTTTG
975615 TATTTAATTTATTTAAT
1 TATTTAATTTATTTAAT
975632 TATTTAATTTATTTAA-
1 TATTTAATTTATTTAAT
* *
975648 TATTTTATTTAATTAAT
1 TATTTAATTTATTTAAT
975665 T
1 T
975666 TTTTTACAGA
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
16 14 0.45
17 17 0.55
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (17 bp):
TATTTAATTTATTTAAT
Done.