Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D10
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: 65706892
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 869813 characters in sequence are not A, C, G, or T
File 44 of 218
Found at i:13688132 original size:13 final size:13
Alignment explanation
Indices: 13688114--13688138 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
13688104 TTTAGATTAA
13688114 ATTTTAAAAATAT
1 ATTTTAAAAATAT
13688127 ATTTTAAAAATA
1 ATTTTAAAAATA
13688139 CTAATTACTC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (13 bp):
ATTTTAAAAATAT
Found at i:13688207 original size:14 final size:15
Alignment explanation
Indices: 13688176--13688210 Score: 54
Period size: 14 Copynumber: 2.4 Consensus size: 15
13688166 TCTGATCCCA
*
13688176 AAATCCCTAAACCTT
1 AAATCCCTAAACCCT
13688191 AAATCCC-AAACCCT
1 AAATCCCTAAACCCT
13688205 AAATCC
1 AAATCC
13688211 ATACAAGTGT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 12 0.63
15 7 0.37
ACGTcount: A:0.43, C:0.37, G:0.00, T:0.20
Consensus pattern (15 bp):
AAATCCCTAAACCCT
Found at i:13689041 original size:21 final size:21
Alignment explanation
Indices: 13689026--13689066 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
13689016 CTTAACACAT
*
13689026 AACCTTTAAACCTTAAACCCC
1 AACCTTTAAACCTTAAACCAC
*
13689047 AACCTTTAAACCATAAACCA
1 AACCTTTAAACCTTAAACCA
13689067 TAGACCAAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.44, C:0.34, G:0.00, T:0.22
Consensus pattern (21 bp):
AACCTTTAAACCTTAAACCAC
Found at i:13689428 original size:114 final size:113
Alignment explanation
Indices: 13689125--13689741 Score: 496
Period size: 115 Copynumber: 5.4 Consensus size: 113
13689115 ATGCATGGTT
* * * * * **
13689125 AAGACCAAAACTCTGCATTTTGGTTAAGATATTTTCCGGCGCTTCTCAAAAAGCGCCGCTAATAC
1 AAGACAAAAACTCTGCGTTTTGGTTAACATATTTTGCGGCGCTTTTTGAAAAGCGCCGCTAATAC
* * *
13689190 TATGCTTTAGCGGCGATTTCTCGT-GGACGCCACTAATTCCAGTATACATC
66 TATGCTTTAGCGGCG-TTTC-CCTAAG-CGCCACTAATTCTAGTATACATC
** * * * * * *
13689240 AAGACTTAAACGCTGCGTTTTTGTTAATATATTTTGCGGCGCTTTTTGAAAAGCGCCGTTAGTAG
1 AAGACAAAAACTCTGCGTTTTGGTTAACATATTTTGCGGCGCTTTTTGAAAAGCGCCGCTAATAC
* * * *
13689305 TATGCTTTAGCGGCGTTCTCCCAGAAGCGCCACTAATTCTAATATACCTG
66 TATGCTTTAGCGGCGTT-TCCC-TAAGCGCCACTAATTCTAGTATACATC
* **
13689355 AAGA-AAAAACTCTGCGTTTTGGTGAACATATTTTGCGGCGCTTTTTGCCAAGCGCCGCTAATAC
1 AAGACAAAAACTCTGCGTTTTGGTTAACATATTTTGCGGCGCTTTTTGAAAAGCGCCGCTAATAC
* * * ** * *
13689419 TATGATTTAGTGGCATTT-TTTAATATTCGCCACTAATAACT-GTATACATC
66 TATGCTTTAGCGGCGTTTCCCT-A-A-GCGCCACTAAT-TCTAGTATACATC
* * *
13689469 AAGACAAAAACGT-TGCGTTTTGGTTACCAAATTTTGCGGCGCTTCTCTG-AAAGCGCCGCTAAT
1 AAGACAAAAAC-TCTGCGTTTTGGTTAACATATTTTGCGGCGCTT-TTTGAAAAGCGCCGCTAAT
* * ** *
13689532 ATTATGCCTTAGCGGCGTGTTCCCTTTGCGCCACTAATTCTAGTATACCTC
64 ACTATGCTTTAGCGGCGT-TTCCCTAAGCGCCACTAATTCTAGTATACATC
* * *** *
13689583 AAGAC-CAAACTCTGCGTTTTGGTTAAGATATTTTGCGGCGC-TTCACACAAAACGCCGCTAATA
1 AAGACAAAAACTCTGCGTTTTGGTTAACATATTTTGCGGCGCTTTTTGA-AAAGCGCCGCTAATA
* * * * ** *
13689646 TTATGCTTTAGCGGCGTTTTCCCTTAAACGCCACTAACTGTAACATACACC
65 CTATGCTTTAGCGGCG-TTTCCC-TAAGCGCCACTAATTCTAGTATACATC
* ** ** **
13689697 AAGACCAAAACGGTGCACTTTGGTTAGGATATTTTGCGGCG-TTTT
1 AAGACAAAAACTCTGCGTTTTGGTTAACATATTTTGCGGCGCTTTT
13689742 CCCATAAGCA
Statistics
Matches: 399, Mismatches: 83, Indels: 40
0.76 0.16 0.08
Matches are distributed among these distances:
111 2 0.01
112 3 0.01
113 68 0.17
114 133 0.33
115 185 0.46
116 7 0.02
117 1 0.00
ACGTcount: A:0.26, C:0.23, G:0.19, T:0.32
Consensus pattern (113 bp):
AAGACAAAAACTCTGCGTTTTGGTTAACATATTTTGCGGCGCTTTTTGAAAAGCGCCGCTAATAC
TATGCTTTAGCGGCGTTTCCCTAAGCGCCACTAATTCTAGTATACATC
Found at i:13689721 original size:228 final size:226
Alignment explanation
Indices: 13689125--13689742 Score: 620
Period size: 229 Copynumber: 2.7 Consensus size: 226
13689115 ATGCATGGTT
* *
13689125 AAGACCAAAACTCTGCATTTTGGTTAAGATATTTTCCGGCGCTTCTCA-AAAAGCGCCGCTAATA
1 AAGACC-AAACTCTGCGTTTTGGTTAAGATATTTTGCGGCGCTTCTCACAAAA-CGCCGCTAATA
* * ** ** **
13689189 CTATGCTTTAGCGGCGATTTCTCGTGGACGCCACTAATTCCAGTATACATCAAGACTTAAACGCT
64 CTATGCTTTAGCGGCGTTTTC-CTTAAACGCCACTAATT--AACATACATCAAGACAAAAACGCT
* * * * * *
13689254 GCGTTTTTGTTAATATATTTTGCGGCGCTTTTTGAAAAGCGCCGTTAGTAGTATGCTTTAGCGGC
126 GCGTTTTGGTTAACATATTTTGCGGCGCTTTCTGAAAAGCGCCGCTAATAGTATGCCTTAGCGGC
*
13689319 GTTCTCCCAGAAGCGCCACTAATTCTAATATACCTG
191 GTTCTCCCAGAAGCGCCACTAATTCTAATATACCTC
** * * * ** * *
13689355 AAGAAAAAACTCTGCGTTTTGGTGAACATATTTTGCGGCGCTTTTTGCCAAGCGCCGCTAATACT
1 AAGACCAAACTCTGCGTTTTGGTTAAGATATTTTGCGGCGCTTCTCACAAAACGCCGCTAATACT
* * * *
13689420 ATGATTTAGTGGCATTTT--TTAATATTCGCCACTAA-TAACTGTATACATCAAGACAAAAACGT
66 ATGCTTTAGCGGCGTTTTCCTTAA-A--CGCCACTAATTAAC---ATACATCAAGACAAAAACGC
* * *
13689482 TGCGTTTTGGTTACCAAATTTTGCGGCGCTTCTCTG-AAAGCGCCGCTAATATTATGCCTTAGCG
125 TGCGTTTTGGTTAACATATTTTGCGGCGCTT-TCTGAAAAGCGCCGCTAATAGTATGCCTTAGCG
*** *
13689546 GCGTGT-TCCC-TTTGCGCCACTAATTCTAGTATACCTC
189 GCGT-TCTCCCAGAAGCGCCACTAATTCTAATATACCTC
* *
13689583 AAGACCAAACTCTGCGTTTTGGTTAAGATATTTTGCGGCGCTTCACACAAAACGCCGCTAATATT
1 AAGACCAAACTCTGCGTTTTGGTTAAGATATTTTGCGGCGCTTCTCACAAAACGCCGCTAATACT
* * *
13689648 ATGCTTTAGCGGCGTTTTCCCTTAAACGCCACTAACTGTAACATACACCAAGACCAAAACGGTGC
66 ATGCTTTAGCGGCGTTTT-CCTTAAACGCCACTAA-T-TAACATACATCAAGACAAAAACGCTGC
** ** *
13689713 ACTTTGGTTAGGATATTTTGCGGCGTTTTC
128 GTTTTGGTTAACATATTTTGCGGCGCTTTC
13689743 CCATAAGCAC
Statistics
Matches: 313, Mismatches: 60, Indels: 33
0.77 0.15 0.08
Matches are distributed among these distances:
226 2 0.01
227 3 0.01
228 143 0.46
229 146 0.47
230 11 0.04
231 8 0.03
ACGTcount: A:0.26, C:0.23, G:0.19, T:0.32
Consensus pattern (226 bp):
AAGACCAAACTCTGCGTTTTGGTTAAGATATTTTGCGGCGCTTCTCACAAAACGCCGCTAATACT
ATGCTTTAGCGGCGTTTTCCTTAAACGCCACTAATTAACATACATCAAGACAAAAACGCTGCGTT
TTGGTTAACATATTTTGCGGCGCTTTCTGAAAAGCGCCGCTAATAGTATGCCTTAGCGGCGTTCT
CCCAGAAGCGCCACTAATTCTAATATACCTC
Found at i:13690602 original size:16 final size:16
Alignment explanation
Indices: 13690550--13690602 Score: 79
Period size: 16 Copynumber: 3.3 Consensus size: 16
13690540 TTGGTTCGCT
*
13690550 GTAATGGAATAGAGGT
1 GTAATGGAATAGAGGC
*
13690566 GTAATGGAATAGATGC
1 GTAATGGAATAGAGGC
13690582 GTAATGGAATAGAGGC
1 GTAATGGAATAGAGGC
*
13690598 ATAAT
1 GTAAT
13690603 AGGTAATTCT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 33 1.00
ACGTcount: A:0.40, C:0.04, G:0.32, T:0.25
Consensus pattern (16 bp):
GTAATGGAATAGAGGC
Found at i:13690663 original size:44 final size:46
Alignment explanation
Indices: 13690588--13690679 Score: 152
Period size: 44 Copynumber: 2.0 Consensus size: 46
13690578 ATGCGTAATG
*
13690588 GAATAGAGGCATAATAGGTAATTCTTTTGTTTGGTTGAATGGAATA
1 GAATAGAGGCATAATAGGTAATTCTTGTGTTTGGTTGAATGGAATA
*
13690634 GAATAGAGGCGTAAT-GGT-ATTCTTGTGTTTGGTTGAATGGAATA
1 GAATAGAGGCATAATAGGTAATTCTTGTGTTTGGTTGAATGGAATA
13690678 GA
1 GA
13690680 GGTGTAATAG
Statistics
Matches: 44, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
44 27 0.61
45 3 0.07
46 14 0.32
ACGTcount: A:0.30, C:0.04, G:0.29, T:0.36
Consensus pattern (46 bp):
GAATAGAGGCATAATAGGTAATTCTTGTGTTTGGTTGAATGGAATA
Found at i:13690677 original size:39 final size:41
Alignment explanation
Indices: 13690584--13690689 Score: 126
Period size: 44 Copynumber: 2.5 Consensus size: 41
13690574 ATAGATGCGT
* *
13690584 AATGGAATAGAGGCATAATAGGTAATTCTTTTGTTTGGTTG
1 AATGGAATAGAGGCGTAATAGGTAATTCTTGTGTTTGGTTG
13690625 AATGGAATAGAATAGAGGCGTAAT-GGT-ATTCTTGTGTTTGGTTG
1 AAT-G----GAATAGAGGCGTAATAGGTAATTCTTGTGTTTGGTTG
*
13690669 AATGGAATAGAGGTGTAATAG
1 AATGGAATAGAGGCGTAATAG
13690690 CATAAGGAAA
Statistics
Matches: 56, Mismatches: 3, Indels: 13
0.78 0.04 0.18
Matches are distributed among these distances:
39 14 0.25
40 1 0.02
41 3 0.05
42 1 0.02
43 1 0.02
44 19 0.34
45 3 0.05
46 14 0.25
ACGTcount: A:0.31, C:0.04, G:0.30, T:0.35
Consensus pattern (41 bp):
AATGGAATAGAGGCGTAATAGGTAATTCTTGTGTTTGGTTG
Found at i:13690888 original size:18 final size:17
Alignment explanation
Indices: 13690836--13690888 Score: 79
Period size: 18 Copynumber: 3.0 Consensus size: 17
13690826 TTATTATTAA
13690836 ATATAATTTAATAAAAAT
1 ATATAATTTAAT-AAAAT
13690854 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
*
13690871 ATATGAATTTACTAAAAT
1 ATAT-AATTTAATAAAAT
13690889 CATAATATAT
Statistics
Matches: 33, Mismatches: 1, Indels: 2
0.92 0.03 0.06
Matches are distributed among these distances:
17 9 0.27
18 24 0.73
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.40
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:13691010 original size:120 final size:120
Alignment explanation
Indices: 13690870--13691184 Score: 587
Period size: 119 Copynumber: 2.6 Consensus size: 120
13690860 TTTAATAAAA
* *
13690870 TATATGAATTTACTAAAATCATAATATATAATACTATAAAAAATAAGTTAAAATAATTATTATTA
1 TATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAATTTAAAATAATTATTATTA
13690935 AATATAATTTAATAAAAATATATAATTTGATAAAATTCTTAGTATTAAATATTCT
66 AATATAATTTAATAAAAATATATAATTTGATAAAATTCTTAGTATTAAATATTCT
13690990 TATATGAATTTACTAAAATCATAATATATAATACTAT-AAATATAATTTAAAATAATTATTATTA
1 TATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAATTTAAAATAATTATTATTA
*
13691054 AATATAATATAATAAAAATATATAATTTGATAAAATTCTTAGTATTAAATATTCT
66 AATATAATTTAATAAAAATATATAATTTGATAAAATTCTTAGTATTAAATATTCT
*
13691109 TATATGAATTTACTAAAATCATAATATATATTACTATAAAATATAATTTAAAATAATTATTATTA
1 TATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAATTTAAAATAATTATTATTA
13691174 AATATAATTTA
66 AATATAATTTA
13691185 TAATCTGCTT
Statistics
Matches: 189, Mismatches: 5, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
119 115 0.61
120 74 0.39
ACGTcount: A:0.51, C:0.04, G:0.03, T:0.42
Consensus pattern (120 bp):
TATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAATTTAAAATAATTATTATTA
AATATAATTTAATAAAAATATATAATTTGATAAAATTCTTAGTATTAAATATTCT
Found at i:13691043 original size:21 final size:21
Alignment explanation
Indices: 13691000--13691043 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
13690990 TATATGAATT
*
13691000 TACTAAAATCATAATATATAA
1 TACTAAAATCATAATATAAAA
*
13691021 TACTATAAAT-ATAATTTAAAA
1 TACTA-AAATCATAATATAAAA
13691042 TA
1 TA
13691044 ATTATTATTA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 16 0.80
22 4 0.20
ACGTcount: A:0.57, C:0.07, G:0.00, T:0.36
Consensus pattern (21 bp):
TACTAAAATCATAATATAAAA
Found at i:13693249 original size:41 final size:41
Alignment explanation
Indices: 13693203--13693310 Score: 173
Period size: 41 Copynumber: 2.6 Consensus size: 41
13693193 TATATATATA
* *
13693203 TCAGATCACCGACACTTAGCCTGCTAGGTTTATAACCTGAT
1 TCAGATCACCGGCACTTAGCCTGCTAGGCTTATAACCTGAT
*
13693244 TCAGATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGAT
1 TCAGATCACCGGCACTTAGCCTGCTAGGCTTATAACCTGAT
13693285 TCCA-ATCACCGGCACTTAGCCTGCTA
1 T-CAGATCACCGGCACTTAGCCTGCTA
13693311 CACTTAAAGT
Statistics
Matches: 63, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
41 61 0.97
42 2 0.03
ACGTcount: A:0.24, C:0.31, G:0.19, T:0.27
Consensus pattern (41 bp):
TCAGATCACCGGCACTTAGCCTGCTAGGCTTATAACCTGAT
Found at i:13693335 original size:41 final size:40
Alignment explanation
Indices: 13693207--13693324 Score: 130
Period size: 41 Copynumber: 2.9 Consensus size: 40
13693197 TATATATCAG
* ***
13693207 ATCACCGACACTTAGCCTGCTAGGTTTATAA-CCTGATTCA
1 ATCACCGGCACTTAGCCTGCTACACTTA-AAGCCTGATTCA
** *
13693247 GATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCCA
1 -ATCACCGGCACTTAGCCTGCTACACTTAAAGCCTGATT-CA
*
13693289 ATCACCGGCACTTAGCCTGCTACACTTAAAGTCTGA
1 ATCACCGGCACTTAGCCTGCTACACTTAAAGCCTGA
13693325 ATTATTTCAC
Statistics
Matches: 68, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
40 1 0.01
41 65 0.96
42 2 0.03
ACGTcount: A:0.25, C:0.30, G:0.18, T:0.27
Consensus pattern (40 bp):
ATCACCGGCACTTAGCCTGCTACACTTAAAGCCTGATTCA
Found at i:13700762 original size:41 final size:41
Alignment explanation
Indices: 13700716--13700823 Score: 164
Period size: 41 Copynumber: 2.6 Consensus size: 41
13700706 TATATATATA
* * *
13700716 TCAGATCACCGACACTTAACCTGCTAGGTTTATAACCTGAT
1 TCAGATCACCGGCACTTAGCCTGCTAGGCTTATAACCTGAT
*
13700757 TCAGATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGAT
1 TCAGATCACCGGCACTTAGCCTGCTAGGCTTATAACCTGAT
13700798 TCCA-ATCACCGGCACTTAGCCTGCTA
1 T-CAGATCACCGGCACTTAGCCTGCTA
13700824 CACTTAAAGT
Statistics
Matches: 62, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
41 60 0.97
42 2 0.03
ACGTcount: A:0.25, C:0.31, G:0.18, T:0.27
Consensus pattern (41 bp):
TCAGATCACCGGCACTTAGCCTGCTAGGCTTATAACCTGAT
Found at i:13700848 original size:41 final size:40
Alignment explanation
Indices: 13700720--13700864 Score: 125
Period size: 41 Copynumber: 3.5 Consensus size: 40
13700710 TATATATCAG
* * ***
13700720 ATCACCGACACTTAACCTGCTAGGTTTATAA-CCTGATTCA
1 ATCACCGGCACTTAGCCTGCTACACTTA-AAGCCTGATTCA
** *
13700760 GATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCCA
1 -ATCACCGGCACTTAGCCTGCTACACTTAAAGCCTGATT-CA
*
13700802 ATCACCGGCACTTAGCCTGCTACACTTAAAGTCTGAATT-A
1 ATCACCGGCACTTAGCCTGCTACACTTAAAGCCTG-ATTCA
*
13700842 TTTCACCGGC-CTTAAGCCTGCTA
1 -ATCACCGGCACTT-AGCCTGCTA
13700865 GGTTTTAAAC
Statistics
Matches: 90, Mismatches: 9, Indels: 10
0.83 0.08 0.09
Matches are distributed among these distances:
40 5 0.06
41 80 0.89
42 5 0.06
ACGTcount: A:0.26, C:0.30, G:0.17, T:0.28
Consensus pattern (40 bp):
ATCACCGGCACTTAGCCTGCTACACTTAAAGCCTGATTCA
Found at i:13709660 original size:50 final size:50
Alignment explanation
Indices: 13709581--13709679 Score: 128
Period size: 50 Copynumber: 2.0 Consensus size: 50
13709571 ACCTTATTCT
* ** *
13709581 AATCAATGTCAAATAGAAGGAGAGAAGTTCTTTACGA-ATTCTACTTGTAC
1 AATCAATATCAAATAGAAAAAGAGAAGTTCTATAC-ATATTCTACTTGTAC
* *
13709631 AATCAATATCAAATAGAAAAAGAGTAGTTCTATACATATTTTACTTGTA
1 AATCAATATCAAATAGAAAAAGAGAAGTTCTATACATATTCTACTTGTA
13709680 TTTTATTTTA
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
49 1 0.02
50 41 0.98
ACGTcount: A:0.41, C:0.12, G:0.14, T:0.32
Consensus pattern (50 bp):
AATCAATATCAAATAGAAAAAGAGAAGTTCTATACATATTCTACTTGTAC
Found at i:13709688 original size:5 final size:5
Alignment explanation
Indices: 13709667--13709701 Score: 52
Period size: 5 Copynumber: 6.8 Consensus size: 5
13709657 GTTCTATACA
*
13709667 TATTT TACTTG TATTT TATTT TATTT TATTT TATT
1 TATTT TA-TTT TATTT TATTT TATTT TATTT TATT
13709702 AACATGAATT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
5 23 0.85
6 4 0.15
ACGTcount: A:0.20, C:0.03, G:0.03, T:0.74
Consensus pattern (5 bp):
TATTT
Found at i:13712623 original size:27 final size:27
Alignment explanation
Indices: 13712574--13712871 Score: 266
Period size: 27 Copynumber: 11.1 Consensus size: 27
13712564 AATATCTGAG
* *
13712574 CCGAAATACCC-CAAAGGGTAAAATGA
1 CCGAAATACCCTCGATGGGTAAAATGA
*
13712600 CCAAAATACCCTCGATGGGTAAAATGA
1 CCGAAATACCCTCGATGGGTAAAATGA
* *
13712627 TCGAAATACCCTCGATGGGTAGAATGA
1 CCGAAATACCCTCGATGGGTAAAATGA
* ** * *
13712654 TCGAAATACCCTTAAAGGGTAAAATAA
1 CCGAAATACCCTCGATGGGTAAAATGA
*
13712681 CCGAAATACCCTCGATGGGTAGAATGA
1 CCGAAATACCCTCGATGGGTAAAATGA
* ** * *
13712708 CCAAAATACCCTTAAAGGGTAAAATAA
1 CCGAAATACCCTCGATGGGTAAAATGA
* * *
13712735 CTGAAATACCCTCGATGGATAGAATGA
1 CCGAAATACCCTCGATGGGTAAAATGA
*
13712762 CCAAAATACCCTCGATGGGTAAAATGA
1 CCGAAATACCCTCGATGGGTAAAATGA
* * *
13712789 CTGAAATACCC-CCATAAGGTAAAATGA
1 CCGAAATACCCTCGAT-GGGTAAAATGA
* *
13712816 CC-ATAATGCCC-CTG-TAGGGTAAAATAA
1 CCGA-AATACCCTC-GAT-GGGTAAAATGA
* *
13712843 CCGTAATACCCCTCTA-GGGTAAAATGA
1 CCGAAATA-CCCTCGATGGGTAAAATGA
13712870 CC
1 CC
13712872 ATAATGCCCT
Statistics
Matches: 216, Mismatches: 48, Indels: 15
0.77 0.17 0.05
Matches are distributed among these distances:
26 14 0.06
27 198 0.92
28 3 0.01
29 1 0.00
ACGTcount: A:0.40, C:0.21, G:0.19, T:0.19
Consensus pattern (27 bp):
CCGAAATACCCTCGATGGGTAAAATGA
Found at i:13712888 original size:26 final size:27
Alignment explanation
Indices: 13712806--13712891 Score: 120
Period size: 27 Copynumber: 3.2 Consensus size: 27
13712796 ACCCCCATAA
13712806 GGTAAAATGACCATAATGCCCCTGTAG
1 GGTAAAATGACCATAATGCCCCTGTAG
* * * *
13712833 GGTAAAATAACCGTAATACCCCTCTAG
1 GGTAAAATGACCATAATGCCCCTGTAG
*
13712860 GGTAAAATGACCATAATGCCCTTGT-G
1 GGTAAAATGACCATAATGCCCCTGTAG
13712886 GGTAAA
1 GGTAAA
13712892 TAACTATTTT
Statistics
Matches: 50, Mismatches: 9, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
26 7 0.14
27 43 0.86
ACGTcount: A:0.35, C:0.21, G:0.21, T:0.23
Consensus pattern (27 bp):
GGTAAAATGACCATAATGCCCCTGTAG
Found at i:13712968 original size:24 final size:24
Alignment explanation
Indices: 13712926--13712998 Score: 87
Period size: 24 Copynumber: 3.1 Consensus size: 24
13712916 AAATGATTAT
* *
13712926 TTTGTCTGTG-GTTAAATGACTGA
1 TTTGTCTGTGATTTGAATGACTGA
* *
13712949 TTTGTCTGTG-TTTGGTATGAATGA
1 TTTGTCTGTGATTT-GAATGACTGA
13712973 TTTGTCTGTGATTTGAATGACTGA
1 TTTGTCTGTGATTTGAATGACTGA
13712997 TT
1 TT
13712999 CTGAGCATGA
Statistics
Matches: 42, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
23 12 0.29
24 27 0.64
25 3 0.07
ACGTcount: A:0.19, C:0.07, G:0.26, T:0.48
Consensus pattern (24 bp):
TTTGTCTGTGATTTGAATGACTGA
Found at i:13713101 original size:27 final size:27
Alignment explanation
Indices: 13713070--13713126 Score: 71
Period size: 27 Copynumber: 2.1 Consensus size: 27
13713060 AGTATTGTAT
* *
13713070 TGGTGGCTCTGCCGCA-ATCACTGTTAC
1 TGGTGGCTCTGCCACATAT-ACTATTAC
*
13713097 TGGTGGCTTTGCCACATATACTATTAC
1 TGGTGGCTCTGCCACATATACTATTAC
13713124 TGG
1 TGG
13713127 CAACTTTACT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
27 24 0.92
28 2 0.08
ACGTcount: A:0.18, C:0.25, G:0.25, T:0.33
Consensus pattern (27 bp):
TGGTGGCTCTGCCACATATACTATTAC
Found at i:13713215 original size:32 final size:32
Alignment explanation
Indices: 13713170--13713237 Score: 91
Period size: 32 Copynumber: 2.1 Consensus size: 32
13713160 GCTGCGATGC
* **
13713170 TACTGATGGCTTTGTGCCGGTCATAGTACCGT
1 TACTGATGACTTTGTGCCAATCATAGTACCGT
* *
13713202 TACTGATGACTTTGTGCCAATCATATTATCGT
1 TACTGATGACTTTGTGCCAATCATAGTACCGT
13713234 TACT
1 TACT
13713238 AATGGCTGTG
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.21, C:0.21, G:0.21, T:0.38
Consensus pattern (32 bp):
TACTGATGACTTTGTGCCAATCATAGTACCGT
Found at i:13713408 original size:26 final size:26
Alignment explanation
Indices: 13713379--13713432 Score: 63
Period size: 26 Copynumber: 2.1 Consensus size: 26
13713369 GGCTCTTAGC
* * *
13713379 CATTCTGACTATTGGCAGCTCTGCTG
1 CATTATGACTACTGGCAGCTATGCTG
* *
13713405 CATTATTACTACTGGTAGCTATGCTG
1 CATTATGACTACTGGCAGCTATGCTG
13713431 CA
1 CA
13713433 ATATTGGTGT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.20, C:0.24, G:0.20, T:0.35
Consensus pattern (26 bp):
CATTATGACTACTGGCAGCTATGCTG
Found at i:13713437 original size:26 final size:26
Alignment explanation
Indices: 13713386--13713437 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
13713376 AGCCATTCTG
* * *
13713386 ACTATTGGCAGCTCTGCTGCATTATT
1 ACTACTGGCAGCTATGCTGCAATATT
*
13713412 ACTACTGGTAGCTATGCTGCAATATT
1 ACTACTGGCAGCTATGCTGCAATATT
13713438 GGTGTGAGGG
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.23, C:0.21, G:0.19, T:0.37
Consensus pattern (26 bp):
ACTACTGGCAGCTATGCTGCAATATT
Found at i:13729086 original size:25 final size:25
Alignment explanation
Indices: 13729055--13729121 Score: 98
Period size: 25 Copynumber: 2.7 Consensus size: 25
13729045 GCTGTAAACA
*
13729055 GTAAGCTCCTCCGAGCTAAATTATG
1 GTAAGCTCCTCCGAGCTAAATAATG
*
13729080 GTAAGCTCCTCTGAGCTAAATAATG
1 GTAAGCTCCTCCGAGCTAAATAATG
* *
13729105 GTAAGCTCATACGAGCT
1 GTAAGCTCCTCCGAGCT
13729122 GAGTATCAAT
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 37 1.00
ACGTcount: A:0.30, C:0.22, G:0.21, T:0.27
Consensus pattern (25 bp):
GTAAGCTCCTCCGAGCTAAATAATG
Found at i:13731142 original size:27 final size:27
Alignment explanation
Indices: 13731112--13731379 Score: 274
Period size: 27 Copynumber: 10.0 Consensus size: 27
13731102 TCATCTCCTA
** *
13731112 GGGGTATAACAGTTATTTTACCCTATG
1 GGGGTATTTCAGTCATTTTACCCTATG
* *
13731139 GGGGTATTTCGGTCATTTTACCTTATG
1 GGGGTATTTCAGTCATTTTACCCTATG
* * *
13731166 AGGGTATTT-TGATCATTTTACCTTATG
1 GGGGTATTTCAG-TCATTTTACCCTATG
* ** *
13731193 GAGGTATTTTGGTCATTTTACTCTATG
1 GGGGTATTTCAGTCATTTTACCCTATG
13731220 GGGGTATTTCAGTCATTTTACCCTAT-
1 GGGGTATTTCAGTCATTTTACCCTATG
**
13731246 GGGGTATTTTGGTCATTTTACCCTATG
1 GGGGTATTTCAGTCATTTTACCCTATG
* *
13731273 AGGGTGT-TTTGA-TCATTTTACCTTATG
1 -GGG-GTATTTCAGTCATTTTACCCTATG
* *
13731300 GGGGTATTTCGGCCATTTTACCCTATG
1 GGGGTATTTCAGTCATTTTACCCTATG
* * *
13731327 AGGGTATTTCAGTCATTTTTCCTTATG
1 GGGGTATTTCAGTCATTTTACCCTATG
* *
13731354 AGGGTATTTCGGTCATTTTACCCTAT
1 GGGGTATTTCAGTCATTTTACCCTAT
13731380 TTTAGGGTCT
Statistics
Matches: 201, Mismatches: 33, Indels: 14
0.81 0.13 0.06
Matches are distributed among these distances:
25 2 0.01
26 31 0.15
27 159 0.79
28 7 0.03
29 2 0.01
ACGTcount: A:0.19, C:0.15, G:0.22, T:0.44
Consensus pattern (27 bp):
GGGGTATTTCAGTCATTTTACCCTATG
Found at i:13731184 original size:54 final size:54
Alignment explanation
Indices: 13731121--13731379 Score: 344
Period size: 54 Copynumber: 4.8 Consensus size: 54
13731111 AGGGGTATAA
* * *
13731121 CAGTTATTTTACCCTATGGGGGTATTTCGGTCATTTTACCTTATGAGGGTATTT
1 CAGTCATTTTACCTTATGGGGGTATTTCGGTCATTTTACCCTATGAGGGTATTT
* * * * *
13731175 -TGATCATTTTACCTTATGGAGGTATTTTGGTCATTTTACTCTATGGGGGTATTT
1 CAG-TCATTTTACCTTATGGGGGTATTTCGGTCATTTTACCCTATGAGGGTATTT
* * *
13731229 CAGTCATTTTACCCTAT-GGGGTATTTTGGTCATTTTACCCTATGAGGGTGTTT
1 CAGTCATTTTACCTTATGGGGGTATTTCGGTCATTTTACCCTATGAGGGTATTT
* *
13731282 -TGATCATTTTACCTTATGGGGGTATTTCGGCCATTTTACCCTATGAGGGTATTT
1 CAG-TCATTTTACCTTATGGGGGTATTTCGGTCATTTTACCCTATGAGGGTATTT
* *
13731336 CAGTCATTTTTCCTTATGAGGGTATTTCGGTCATTTTACCCTAT
1 CAGTCATTTTACCTTATGGGGGTATTTCGGTCATTTTACCCTAT
13731380 TTTAGGGTCT
Statistics
Matches: 177, Mismatches: 23, Indels: 10
0.84 0.11 0.05
Matches are distributed among these distances:
52 1 0.01
53 46 0.26
54 128 0.72
55 2 0.01
ACGTcount: A:0.18, C:0.16, G:0.21, T:0.45
Consensus pattern (54 bp):
CAGTCATTTTACCTTATGGGGGTATTTCGGTCATTTTACCCTATGAGGGTATTT
Found at i:13731283 original size:107 final size:107
Alignment explanation
Indices: 13731112--13731379 Score: 401
Period size: 107 Copynumber: 2.5 Consensus size: 107
13731102 TCATCTCCTA
** * *
13731112 GGGGTATAACAGTTATTTTACCCTATGGGGGTATTTCGGTCATTTTACCTTATGAGGGTATTTTG
1 GGGGTATTTCAGTCATTTTACCCTAT-GGGGTATTTCGGTCATTTTACCCTATGAGGGTATTTTG
* * *
13731177 ATCATTTTACCTTATGGAGGTATTTTGGTCATTTTACTCTATG
65 ATCATTTTACCTTATGGAGGTATTTCGGCCATTTTACCCTATG
* *
13731220 GGGGTATTTCAGTCATTTTACCCTATGGGGTATTTTGGTCATTTTACCCTATGAGGGTGTTTTGA
1 GGGGTATTTCAGTCATTTTACCCTATGGGGTATTTCGGTCATTTTACCCTATGAGGGTATTTTGA
*
13731285 TCATTTTACCTTATGGGGGTATTTCGGCCATTTTACCCTATG
66 TCATTTTACCTTATGGAGGTATTTCGGCCATTTTACCCTATG
* * *
13731327 AGGGTATTTCAGTCATTTTTCCTTATGAGGGTATTTCGGTCATTTTACCCTAT
1 GGGGTATTTCAGTCATTTTACCCTATG-GGGTATTTCGGTCATTTTACCCTAT
13731380 TTTAGGGTCT
Statistics
Matches: 145, Mismatches: 14, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
107 98 0.68
108 47 0.32
ACGTcount: A:0.19, C:0.15, G:0.22, T:0.44
Consensus pattern (107 bp):
GGGGTATTTCAGTCATTTTACCCTATGGGGTATTTCGGTCATTTTACCCTATGAGGGTATTTTGA
TCATTTTACCTTATGGAGGTATTTCGGCCATTTTACCCTATG
Found at i:13733313 original size:13 final size:13
Alignment explanation
Indices: 13733295--13733327 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
13733285 TAAACAAATT
13733295 AGAAAGAA-AAGAA
1 AGAAAGAAGAA-AA
13733308 AGAAAGAAGAAAA
1 AGAAAGAAGAAAA
13733321 AGAAAGA
1 AGAAAGA
13733328 GACTCACGGC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 17 0.89
14 2 0.11
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (13 bp):
AGAAAGAAGAAAA
Found at i:13734092 original size:13 final size:14
Alignment explanation
Indices: 13734067--13734096 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
13734057 GCCGTGAGTC
13734067 TCTTTCTTTTTCTT
1 TCTTTCTTTTTCTT
13734081 TCTTTC-TTTTCTT
1 TCTTTCTTTTTCTT
13734094 TCT
1 TCT
13734097 AATTTGTTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 10 0.62
14 6 0.38
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (14 bp):
TCTTTCTTTTTCTT
Found at i:13737919 original size:16 final size:16
Alignment explanation
Indices: 13737898--13737928 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
13737888 TTCACTATTA
*
13737898 TGTCTTTTGTATTTTC
1 TGTCTTTTATATTTTC
13737914 TGTCTTTTATATTTT
1 TGTCTTTTATATTTT
13737929 GCATGCATAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.10, C:0.10, G:0.10, T:0.71
Consensus pattern (16 bp):
TGTCTTTTATATTTTC
Found at i:13739424 original size:22 final size:22
Alignment explanation
Indices: 13739399--13739456 Score: 71
Period size: 22 Copynumber: 2.6 Consensus size: 22
13739389 GGTGGTGCTA
13739399 GTGGCTGCGACGGCGATGTCTG
1 GTGGCTGCGACGGCGATGTCTG
* * *
13739421 GTGGCTCCGATGGCTATGTCTG
1 GTGGCTGCGACGGCGATGTCTG
*
13739443 GTGGCCGACGACGG
1 GTGGCTG-CGACGG
13739457 TTGGTCATCG
Statistics
Matches: 29, Mismatches: 6, Indels: 1
0.81 0.17 0.03
Matches are distributed among these distances:
22 24 0.83
23 5 0.17
ACGTcount: A:0.10, C:0.24, G:0.43, T:0.22
Consensus pattern (22 bp):
GTGGCTGCGACGGCGATGTCTG
Found at i:13741711 original size:18 final size:19
Alignment explanation
Indices: 13741688--13741734 Score: 62
Period size: 18 Copynumber: 2.6 Consensus size: 19
13741678 CTTTAGAAAT
* *
13741688 TTGAGAGAATTA-AGAGAG
1 TTGAGAGAATTAGAAAGAA
13741706 TTGAGAG-ATTAGAAAGAA
1 TTGAGAGAATTAGAAAGAA
13741724 TTGAGAGAATT
1 TTGAGAGAATT
13741735 GGATTTGAGT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
17 4 0.16
18 18 0.72
19 3 0.12
ACGTcount: A:0.45, C:0.00, G:0.30, T:0.26
Consensus pattern (19 bp):
TTGAGAGAATTAGAAAGAA
Found at i:13741712 original size:9 final size:9
Alignment explanation
Indices: 13741688--13741735 Score: 53
Period size: 9 Copynumber: 5.3 Consensus size: 9
13741678 CTTTAGAAAT
13741688 TTGAGAGAA
1 TTGAGAGAA
* *
13741697 TTAAGAGAG
1 TTGAGAGAA
13741706 TTGAGAG-A
1 TTGAGAGAA
*
13741714 TTAGAAAGAA
1 TT-GAGAGAA
13741724 TTGAGAGAA
1 TTGAGAGAA
13741733 TTG
1 TTG
13741736 GATTTGAGTG
Statistics
Matches: 31, Mismatches: 6, Indels: 4
0.76 0.15 0.10
Matches are distributed among these distances:
8 2 0.06
9 26 0.84
10 3 0.10
ACGTcount: A:0.44, C:0.00, G:0.31, T:0.25
Consensus pattern (9 bp):
TTGAGAGAA
Found at i:13743734 original size:22 final size:22
Alignment explanation
Indices: 13743709--13743750 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
13743699 TGAATAAACC
* *
13743709 AAATAAACTTTATTTCTGTAGA
1 AAATAAACTTAATATCTGTAGA
13743731 AAATAAACTTAATATCTGTA
1 AAATAAACTTAATATCTGTA
13743751 AACTAAAATA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.45, C:0.10, G:0.07, T:0.38
Consensus pattern (22 bp):
AAATAAACTTAATATCTGTAGA
Found at i:13749435 original size:110 final size:110
Alignment explanation
Indices: 13749237--13749537 Score: 255
Period size: 110 Copynumber: 2.7 Consensus size: 110
13749227 GGTTTACGTG
* * * * *
13749237 ATATGAGATGTTTGTGGAAGGTGCAGCCGTTGACCTTACAACCCAGGTTTATGCAATATGAGATG
1 ATATGAGATGTTTGTGGAAGGTGCAACCATTGACCTAACAACCCAGGTTTACGCAACATGAGATG
*** * *
13749302 CTTGTGGAAGATTCAATCATTGACCTTATGGCCCAAATTTATGCA
66 CTCACGGAAGATGCAACCATTGACCTTATGGCCCAAATTTATGCA
* ***
13749347 ATATGAGATGTTTGTGGAGGGTGCAACCATTGACCTAAC-AGTTAGGATTTACGCAACATGAGAT
1 ATATGAGATGTTTGTGGAAGGTGCAACCATTGACCTAACAACCCAGG-TTTACGCAACATGAGAT
* * * * * * ** *
13749411 GCTCACGGAAGGTGCAACCGTTGACCCTAAGGCCTAAGTTTACACG
65 GCTCACGGAAGATGCAACCATTGACCTTATGGCCCAAATTTATGCA
* * ** * ** * * * *
13749457 ATATTATATGCATG-GAAAAGGTGCAACTGTTGACCTTACGACCCAGGTTTACGCAATATGAAAT
1 ATATGAGATGTTTGTG-GAAGGTGCAACCATTGACCTAACAACCCAGGTTTACGCAACATGAGAT
*
13749521 GCTCATGGAAGATGCAA
65 GCTCACGGAAGATGCAA
13749538 TTGTTGACTT
Statistics
Matches: 149, Mismatches: 39, Indels: 6
0.77 0.20 0.03
Matches are distributed among these distances:
109 5 0.03
110 140 0.94
111 4 0.03
ACGTcount: A:0.30, C:0.18, G:0.24, T:0.27
Consensus pattern (110 bp):
ATATGAGATGTTTGTGGAAGGTGCAACCATTGACCTAACAACCCAGGTTTACGCAACATGAGATG
CTCACGGAAGATGCAACCATTGACCTTATGGCCCAAATTTATGCA
Found at i:13749537 original size:55 final size:55
Alignment explanation
Indices: 13749145--13749545 Score: 227
Period size: 55 Copynumber: 7.3 Consensus size: 55
13749135 AATGTAGCAG
** * * * * **
13749145 AGGTGCAACCATTGACCTTATGACTCGGGTTTATGCAATATGAGATGCTCGCAGA
1 AGGTGCAACTGTTGACCTTACGACCCAGGTTTACGCAATATGAGATGCTCGTGGA
* * * ** * *
13749200 GGGTGTAACTTTTGACCTTATC-ACCCAGGTTTACGTGATATGAGATGTTTGTGGA
1 AGGTGCAACTGTTGACCTTA-CGACCCAGGTTTACGCAATATGAGATGCTCGTGGA
* * * * *
13749255 AGGTGCAGCCGTTGACCTTACAACCCAGGTTTATGCAATATGAGATGCTTGTGGA
1 AGGTGCAACTGTTGACCTTACGACCCAGGTTTACGCAATATGAGATGCTCGTGGA
* * * * * ** * * *
13749310 AGATTCAA-TCATTGACCTTATGGCCCAAATTTATGCAATATGAGATGTTTGTGGA
1 AGGTGCAACT-GTTGACCTTACGACCCAGGTTTACGCAATATGAGATGCTCGTGGA
* ** * *** * **
13749365 GGGTGCAACCATTGACCTAAC-AGTTAGGATTTACGCAACATGAGATGCTCACGGA
1 AGGTGCAACTGTTGACCTTACGACCCAGG-TTTACGCAATATGAGATGCTCGTGGA
* * * * * * * * * * *
13749420 AGGTGCAACCGTTGACCCTAAGGCCTAAGTTTACACGATATTATATGCAT-G-GAAA
1 AGGTGCAACTGTTGACCTTACGACCCAGGTTTACGCAATATGAGATGC-TCGTG-GA
* *
13749475 AGGTGCAACTGTTGACCTTACGACCCAGGTTTACGCAATATGAAATGCTCATGGA
1 AGGTGCAACTGTTGACCTTACGACCCAGGTTTACGCAATATGAGATGCTCGTGGA
* *
13749530 AGATGCAATTGTTGAC
1 AGGTGCAACTGTTGAC
13749546 TTTATAGCCT
Statistics
Matches: 254, Mismatches: 82, Indels: 20
0.71 0.23 0.06
Matches are distributed among these distances:
54 4 0.02
55 245 0.96
56 5 0.02
ACGTcount: A:0.28, C:0.19, G:0.24, T:0.28
Consensus pattern (55 bp):
AGGTGCAACTGTTGACCTTACGACCCAGGTTTACGCAATATGAGATGCTCGTGGA
Found at i:13750447 original size:18 final size:19
Alignment explanation
Indices: 13750410--13750446 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
13750400 TTTTAAAAAA
13750410 TATAAA-ATTTGGAATTTT
1 TATAAATATTTGGAATTTT
13750428 TATAAATATTTGGAATTTT
1 TATAAATATTTGGAATTTT
13750447 AAAAATTATT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 6 0.33
19 12 0.67
ACGTcount: A:0.38, C:0.00, G:0.11, T:0.51
Consensus pattern (19 bp):
TATAAATATTTGGAATTTT
Found at i:13750452 original size:18 final size:20
Alignment explanation
Indices: 13750416--13750467 Score: 63
Period size: 19 Copynumber: 2.6 Consensus size: 20
13750406 AAAATATAAA
*
13750416 ATTTGGAATTTTTATAAA-T
1 ATTTGGAATTTTTAAAAATT
13750435 ATTTGGAA-TTTTAAAAATT
1 ATTTGGAATTTTTAAAAATT
*
13750454 ATTTTGTAATTTTT
1 A-TTTGGAATTTTT
13750468 TTAGAGAGAT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
18 8 0.29
19 10 0.36
20 6 0.21
21 4 0.14
ACGTcount: A:0.35, C:0.00, G:0.10, T:0.56
Consensus pattern (20 bp):
ATTTGGAATTTTTAAAAATT
Found at i:13758614 original size:18 final size:19
Alignment explanation
Indices: 13758573--13758616 Score: 56
Period size: 18 Copynumber: 2.4 Consensus size: 19
13758563 ATTTGAGTAC
13758573 TCCATTTCTCATTACATTT
1 TCCATTTCTCATTACATTT
* *
13758592 T-CATTTCTCGTT-TATTT
1 TCCATTTCTCATTACATTT
13758609 TCCATTTC
1 TCCATTTC
13758617 AATATCAAGT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
17 5 0.23
18 16 0.73
19 1 0.05
ACGTcount: A:0.16, C:0.25, G:0.02, T:0.57
Consensus pattern (19 bp):
TCCATTTCTCATTACATTT
Found at i:13764235 original size:216 final size:216
Alignment explanation
Indices: 13763861--13764285 Score: 575
Period size: 216 Copynumber: 2.0 Consensus size: 216
13763851 AGTCACTCGA
* ** * * *
13763861 ACACATGTCCAGCAGGTATAGAGCCCACTCAAATTGTCAGCCCCAGGAACAGAAAGGACCGCGTA
1 ACACATGTCCAACAGGTATAGAGCCCACTCAAATCATCAACCCCAAGAACAGAAAGGACCACGTA
* * ** *
13763926 CTCCGTAGACATGTGTCCAACAGGCCTGAAGTCTACTGAGAATGTCCGTATTAGAGACAGAGAAT
66 CTCCATAGACATGTGTCCAACAGGCCTGAAGTCCACTGAGAATGTCAATATTAGAGACAAAGAAT
* *
13763991 GTCAAAGCTAGAGGTAGTAGAGTCAAGACAAAATAGT-GAGGTCCTAGTAGTGGGGTCCTATCAT
131 GTCAAAGCTAGAGGTAGTAGAGTCAAGACAAAATAATGGA-GTCCTAGTAGTGGGATCCTATCAT
13764055 GAGCTATAATAATATTTGTGAC
195 GAGCTATAATAATATTTGTGAC
* * * *
13764077 ACACATGTCCAACAGGTATGGA-CCTCGCTCAAATCATTAACCCCAAGAATAGAAAGGACCACGT
1 ACACATGTCCAACAGGTATAGAGCC-CACTCAAATCATCAACCCCAAGAACAGAAAGGACCACGT
* * * * * *
13764141 GCTCCATAGACATGTGTCCAATAGGCTTGGAGTCCGCTGAGAATGTCAATATTAGGGACAAAGAA
65 ACTCCATAGACATGTGTCCAACAGGCCTGAAGTCCACTGAGAATGTCAATATTAGAGACAAAGAA
* *
13764206 TGTCAAGGCTAGAGGTAGTGGAGTCAAGACAAAATAATGGAGTCCTAGTAGTGGGATCCTATCAT
130 TGTCAAAGCTAGAGGTAGTAGAGTCAAGACAAAATAATGGAGTCCTAGTAGTGGGATCCTATCAT
* *
13764271 GAGTTGTAATAATAT
195 GAGCTATAATAATAT
13764286 CTGTAAGAAC
Statistics
Matches: 180, Mismatches: 27, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
215 2 0.01
216 176 0.98
217 2 0.01
ACGTcount: A:0.34, C:0.20, G:0.24, T:0.22
Consensus pattern (216 bp):
ACACATGTCCAACAGGTATAGAGCCCACTCAAATCATCAACCCCAAGAACAGAAAGGACCACGTA
CTCCATAGACATGTGTCCAACAGGCCTGAAGTCCACTGAGAATGTCAATATTAGAGACAAAGAAT
GTCAAAGCTAGAGGTAGTAGAGTCAAGACAAAATAATGGAGTCCTAGTAGTGGGATCCTATCATG
AGCTATAATAATATTTGTGAC
Found at i:13764904 original size:22 final size:23
Alignment explanation
Indices: 13764877--13764921 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
13764867 AGGTATCTAC
*
13764877 AAATCAAATC-TCTAATATTACA
1 AAATCAAATCTTCTAAGATTACA
*
13764899 AAATCATATCTTCTAAGATTACA
1 AAATCAAATCTTCTAAGATTACA
13764922 TATCATATCT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 9 0.45
23 11 0.55
ACGTcount: A:0.47, C:0.18, G:0.02, T:0.33
Consensus pattern (23 bp):
AAATCAAATCTTCTAAGATTACA
Found at i:13764925 original size:17 final size:17
Alignment explanation
Indices: 13764903--13764955 Score: 61
Period size: 19 Copynumber: 3.0 Consensus size: 17
13764893 ATTACAAAAT
13764903 CATATCTTCTAAGATTA
1 CATATCTTCTAAGATTA
* *
13764920 CATATCATATCTACGATTG
1 CATATC-T-TCTAAGATTA
*
13764939 CATATCTTCGAAGATTA
1 CATATCTTCTAAGATTA
13764956 TATTTTCATA
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
17 13 0.45
18 2 0.07
19 14 0.48
ACGTcount: A:0.34, C:0.19, G:0.09, T:0.38
Consensus pattern (17 bp):
CATATCTTCTAAGATTA
Found at i:13764926 original size:22 final size:22
Alignment explanation
Indices: 13764874--13764931 Score: 73
Period size: 22 Copynumber: 2.6 Consensus size: 22
13764864 AAAAGGTATC
* *
13764874 TACAAATCAAATC-TCTAATAT
1 TACAAATCATATCTTCTAAGAT
13764895 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATCTTCTAAGAT
*
13764918 TACATATCATATCT
1 TACAAATCATATCT
13764932 ACGATTGCAT
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
21 3 0.09
22 19 0.59
23 10 0.31
ACGTcount: A:0.43, C:0.19, G:0.02, T:0.36
Consensus pattern (22 bp):
TACAAATCATATCTTCTAAGAT
Found at i:13769919 original size:22 final size:23
Alignment explanation
Indices: 13769892--13769936 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
13769882 AGGTATCTAC
13769892 AAATCAAAT-TTCTAAGATTACA
1 AAATCAAATCTTCTAAGATTACA
*
13769914 AAATCATATCTTCTAAGATTACA
1 AAATCAAATCTTCTAAGATTACA
13769937 TATCATATCT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
22 8 0.38
23 13 0.62
ACGTcount: A:0.47, C:0.16, G:0.04, T:0.33
Consensus pattern (23 bp):
AAATCAAATCTTCTAAGATTACA
Found at i:13769929 original size:23 final size:22
Alignment explanation
Indices: 13769889--13769946 Score: 82
Period size: 22 Copynumber: 2.6 Consensus size: 22
13769879 AAAAGGTATC
*
13769889 TACAAATCAAAT-TTCTAAGAT
1 TACAAATCATATCTTCTAAGAT
13769910 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATCTTCTAAGAT
*
13769933 TACATATCATATCT
1 TACAAATCATATCT
13769947 ACGATTACAT
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
21 3 0.09
22 18 0.55
23 12 0.36
ACGTcount: A:0.43, C:0.17, G:0.03, T:0.36
Consensus pattern (22 bp):
TACAAATCATATCTTCTAAGAT
Found at i:13769940 original size:17 final size:17
Alignment explanation
Indices: 13769918--13769970 Score: 70
Period size: 19 Copynumber: 3.0 Consensus size: 17
13769908 ATTACAAAAT
13769918 CATATCTTCTAAGATTA
1 CATATCTTCTAAGATTA
*
13769935 CATATCATATCTACGATTA
1 CATATC-T-TCTAAGATTA
*
13769954 CATATCTTCAAAGATTA
1 CATATCTTCTAAGATTA
13769971 TGTTTTCATA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
17 14 0.45
18 2 0.06
19 15 0.48
ACGTcount: A:0.38, C:0.19, G:0.06, T:0.38
Consensus pattern (17 bp):
CATATCTTCTAAGATTA
Found at i:13782330 original size:5 final size:5
Alignment explanation
Indices: 13782320--13782345 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
13782310 TCTTTTCCCC
13782320 TTTAT TTTAT TTTAT TTTAT TTTAT T
1 TTTAT TTTAT TTTAT TTTAT TTTAT T
13782346 ACTACAATCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTAT
Found at i:13785016 original size:14 final size:13
Alignment explanation
Indices: 13784988--13785012 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
13784978 ATTTACTGTT
13784988 TTTTTAATATTTA
1 TTTTTAATATTTA
13785001 TTTTTAATATTT
1 TTTTTAATATTT
13785013 TATTATATTC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (13 bp):
TTTTTAATATTTA
Found at i:13804056 original size:37 final size:37
Alignment explanation
Indices: 13804006--13804084 Score: 104
Period size: 37 Copynumber: 2.1 Consensus size: 37
13803996 TTATTACGAA
* * * *
13804006 GTCTTACCCGGACATAATCTCCATACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
* *
13804043 GTCTTACCCGGACAAAATCCCCACGCGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
13804080 GTCTT
1 GTCTT
13804085 TAGAGCTCGG
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.24, C:0.30, G:0.20, T:0.25
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:13804274 original size:47 final size:47
Alignment explanation
Indices: 13804203--13804898 Score: 1095
Period size: 47 Copynumber: 14.5 Consensus size: 47
13804193 CCCTTCGGGA
* * * * * *
13804203 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
13804250 CCTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
13804297 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
13804344 CTTATCACATATATACACTTTCACATTCATCACATCGGTCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
13804391 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
13804438 CTTATCACATATATACACTTTCGCATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
13804485 CTTACCACATATATACACCTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * **
13804532 CTTATCACATATATATACACTTTCGCATTCATCATATCGGCTGTTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
13804581 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCGTTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
13804630 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
13804679 CTTATCCCATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
13804726 CTTATCGCATATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTAT--C--ACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
13804777 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
13804826 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
13804873 CTTATCACATATATATACACTTTCAC
1 CTTATCAC--ATATATACACTTTCAC
13804899 GTATACACAC
Statistics
Matches: 609, Mismatches: 30, Indels: 18
0.93 0.05 0.03
Matches are distributed among these distances:
47 365 0.60
49 200 0.33
51 44 0.07
ACGTcount: A:0.29, C:0.29, G:0.09, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:13808226 original size:43 final size:43
Alignment explanation
Indices: 13808125--13808278 Score: 124
Period size: 42 Copynumber: 3.7 Consensus size: 43
13808115 AATGTCATAT
* *
13808125 CCCAGATATGGTCTTACA-TATAATCTCATATCGTGCCAATAG
1 CCCAGACATGGTCTTACACCATAATCTCATATCGTGCCAATAG
* *
13808167 CCCAGCCATGGTCTTACACCA-AATCAT-ATATCGATGCTAAT-G
1 CCCAGACATGGTCTTACACCATAATC-TCATATCG-TGCCAATAG
* * * *
13808209 CCTCAGACATGGTCTTACACGA-AGTCTCATATTGATGCC-ATAT
1 CC-CAGACATGGTCTTACACCATAATCTCATATCG-TGCCAATAG
** *
13808252 CTTAGATATGGTCTTACA-CATAATCTC
1 CCCAGACATGGTCTTACACCATAATCTC
13808279 GGTAACCCTA
Statistics
Matches: 90, Mismatches: 15, Indels: 14
0.76 0.13 0.12
Matches are distributed among these distances:
41 1 0.01
42 51 0.57
43 38 0.42
ACGTcount: A:0.30, C:0.25, G:0.14, T:0.31
Consensus pattern (43 bp):
CCCAGACATGGTCTTACACCATAATCTCATATCGTGCCAATAG
Found at i:13814773 original size:43 final size:43
Alignment explanation
Indices: 13814671--13814827 Score: 165
Period size: 43 Copynumber: 3.7 Consensus size: 43
13814661 ACAATGTCCA
* *
13814671 ATCCCAGATATGGTCTTAGAT-ATAATCTCGTATCGATGCCAAT
1 ATCCCAGATATGGTCTTACATGA-AATCTCATATCGATGCCAAT
* ** * *
13814714 AACCCAGCCATTGTCTTACATGAAATCACATATCGATGCCAAT
1 ATCCCAGATATGGTCTTACATGAAATCTCATATCGATGCCAAT
* * *
13814757 ATCCCAGATATGGTCTTACACGAAGTCTCATATTGATG-CAAT
1 ATCCCAGATATGGTCTTACATGAAATCTCATATCGATGCCAAT
* * * *
13814799 ATCCTAGATATAGTCTTACACGTAATCTC
1 ATCCCAGATATGGTCTTACATGAAATCTC
13814828 GGTAACCCTA
Statistics
Matches: 94, Mismatches: 19, Indels: 3
0.81 0.16 0.03
Matches are distributed among these distances:
42 29 0.31
43 64 0.68
44 1 0.01
ACGTcount: A:0.32, C:0.24, G:0.14, T:0.31
Consensus pattern (43 bp):
ATCCCAGATATGGTCTTACATGAAATCTCATATCGATGCCAAT
Found at i:13822947 original size:17 final size:18
Alignment explanation
Indices: 13822890--13822947 Score: 50
Period size: 17 Copynumber: 3.4 Consensus size: 18
13822880 TCACCATTAA
*
13822890 AAATAATAGAAA-ATAA-
1 AAATAATAAAAATATAAT
**
13822906 AAATTTTAAAAATATAAT
1 AAATAATAAAAATATAAT
* *
13822924 ATATAATAAAATTAT-AT
1 AAATAATAAAAATATAAT
13822941 AAATAAT
1 AAATAAT
13822948 TTAATATTTT
Statistics
Matches: 32, Mismatches: 8, Indels: 3
0.74 0.19 0.07
Matches are distributed among these distances:
16 9 0.28
17 12 0.38
18 11 0.34
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.33
Consensus pattern (18 bp):
AAATAATAAAAATATAAT
Found at i:13824941 original size:31 final size:31
Alignment explanation
Indices: 13824882--13824941 Score: 77
Period size: 31 Copynumber: 1.9 Consensus size: 31
13824872 CAATTATACA
* *
13824882 CATGAAACTTAATTTGTGGTTTATATGTATG
1 CATGAAACTTAATTTGTGATTTAAATGTATG
*
13824913 CATGAAACTTTGATTT-TGATTTAAATGTA
1 CATGAAAC-TTAATTTGTGATTTAAATGTA
13824942 CACATTTAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
31 19 0.76
32 6 0.24
ACGTcount: A:0.32, C:0.07, G:0.17, T:0.45
Consensus pattern (31 bp):
CATGAAACTTAATTTGTGATTTAAATGTATG
Found at i:13825812 original size:12 final size:12
Alignment explanation
Indices: 13825795--13825824 Score: 60
Period size: 12 Copynumber: 2.5 Consensus size: 12
13825785 ACTTAGTCTT
13825795 TTTCTCATTTAC
1 TTTCTCATTTAC
13825807 TTTCTCATTTAC
1 TTTCTCATTTAC
13825819 TTTCTC
1 TTTCTC
13825825 CTATCAATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.13, C:0.27, G:0.00, T:0.60
Consensus pattern (12 bp):
TTTCTCATTTAC
Found at i:13826586 original size:12 final size:12
Alignment explanation
Indices: 13826569--13826593 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
13826559 GGTGTTCAGT
13826569 CGGTTAACCGAC
1 CGGTTAACCGAC
13826581 CGGTTAACCGAC
1 CGGTTAACCGAC
13826593 C
1 C
13826594 CGAAATAGTA
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:0.24, C:0.36, G:0.24, T:0.16
Consensus pattern (12 bp):
CGGTTAACCGAC
Found at i:13826739 original size:9 final size:9
Alignment explanation
Indices: 13826725--13826799 Score: 64
Period size: 9 Copynumber: 8.4 Consensus size: 9
13826715 TTTAGTTAAA
*
13826725 AATTAACTG
1 AATTAACCG
*
13826734 AATTAACCA
1 AATTAACCG
*
13826743 AATTAACTG
1 AATTAACCG
*
13826752 AATTACCCG
1 AATTAACCG
*
13826761 AATTAA-CA
1 AATTAACCG
*
13826769 AATT-TCTCG
1 AATTAAC-CG
*
13826778 AATTACCCG
1 AATTAACCG
13826787 AATTAACCG
1 AATTAACCG
13826796 AATT
1 AATT
13826800 GAATCACTAC
Statistics
Matches: 51, Mismatches: 12, Indels: 6
0.74 0.17 0.09
Matches are distributed among these distances:
8 5 0.10
9 45 0.88
10 1 0.02
ACGTcount: A:0.43, C:0.20, G:0.08, T:0.29
Consensus pattern (9 bp):
AATTAACCG
Found at i:13826780 original size:26 final size:26
Alignment explanation
Indices: 13826733--13826793 Score: 88
Period size: 26 Copynumber: 2.3 Consensus size: 26
13826723 AAAATTAACT
13826733 GAATTAACCAAATTAACTGAATTACCC
1 GAATTAA-CAAATTAACTGAATTACCC
*
13826760 GAATTAACAAATT-TCTCGAATTACCC
1 GAATTAACAAATTAACT-GAATTACCC
13826786 GAATTAAC
1 GAATTAAC
13826794 CGAATTGAAT
Statistics
Matches: 32, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
25 2 0.06
26 23 0.72
27 7 0.22
ACGTcount: A:0.43, C:0.21, G:0.08, T:0.28
Consensus pattern (26 bp):
GAATTAACAAATTAACTGAATTACCC
Found at i:13829964 original size:30 final size:30
Alignment explanation
Indices: 13829930--13829987 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
13829920 CCTCGACTCT
*
13829930 AACTTTGAAAAAATTACATTTTTTCCCCTA
1 AACTTTGAAAAAATTACACTTTTTCCCCTA
* * *
13829960 AACTTTTATAGAATTACACTTTTTCCCC
1 AACTTTGAAAAAATTACACTTTTTCCCC
13829988 AAAGCTCAGA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.33, C:0.22, G:0.03, T:0.41
Consensus pattern (30 bp):
AACTTTGAAAAAATTACACTTTTTCCCCTA
Found at i:13837041 original size:50 final size:50
Alignment explanation
Indices: 13836974--13837223 Score: 252
Period size: 50 Copynumber: 4.9 Consensus size: 50
13836964 TTTATTGTAC
* * * ** *
13836974 TGCCAATGCCATATCCCAGATATGGTCTTGCATGGGAGTTCTCATATAGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTAGG
* ** *
13837024 TGCCCATGCCATGTCCCAGACATGGTCTTACGGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTAGG
* * * *
13837074 TGCCAACGCCATGTCCCAAACATGGTCTAACATGGGACCTCTCATCTTGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTAGG
* * * **
13837124 TGCCAATGCCATGTCCCAAACATGGTATTATATGGGACCTCTCATAATCTCAATAA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTC---ATCT--A-GG
*
13837180 TGCCAATGCCTTGTCCCAGACATGGTCTTACATGGGA--TCTCATC
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATC
13837224 CTCTTAATGT
Statistics
Matches: 166, Mismatches: 28, Indels: 11
0.81 0.14 0.05
Matches are distributed among these distances:
50 122 0.73
51 3 0.02
53 4 0.02
54 4 0.02
56 33 0.20
ACGTcount: A:0.24, C:0.28, G:0.21, T:0.27
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTAGG
Found at i:13845751 original size:20 final size:18
Alignment explanation
Indices: 13845712--13845749 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
13845702 ATAAATTTTA
13845712 ATTATGGCTCAAATATAT
1 ATTATGGCTCAAATATAT
*
13845730 ATTATGGTTCAAATATAT
1 ATTATGGCTCAAATATAT
13845748 AT
1 AT
13845750 ATGAAACTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.39, C:0.08, G:0.11, T:0.42
Consensus pattern (18 bp):
ATTATGGCTCAAATATAT
Found at i:13847034 original size:6 final size:6
Alignment explanation
Indices: 13847025--13847102 Score: 90
Period size: 6 Copynumber: 13.5 Consensus size: 6
13847015 GTGAAGACCC
* * *
13847025 TGAGGA TGAGGA TGAGGA TGAGGA TGAGGA CGAGGA CGAGGA TGATGA
1 TGAGGA TGAGGA TGAGGA TGAGGA TGAGGA TGAGGA TGAGGA TGAGGA
* *
13847073 TGACGA TGACGA T--GGA -GAGGA TGAGGA TGA
1 TGAGGA TGAGGA TGAGGA TGAGGA TGAGGA TGA
13847103 AGAGGATGTT
Statistics
Matches: 64, Mismatches: 5, Indels: 6
0.85 0.07 0.08
Matches are distributed among these distances:
4 2 0.03
5 3 0.05
6 59 0.92
ACGTcount: A:0.33, C:0.05, G:0.46, T:0.15
Consensus pattern (6 bp):
TGAGGA
Found at i:13847095 original size:15 final size:15
Alignment explanation
Indices: 13847077--13847110 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
13847067 TGATGATGAC
*
13847077 GATGACGATGGAGAG
1 GATGACGATGAAGAG
*
13847092 GATGAGGATGAAGAG
1 GATGACGATGAAGAG
13847107 GATG
1 GATG
13847111 TTGAAGAAGA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.35, C:0.03, G:0.47, T:0.15
Consensus pattern (15 bp):
GATGACGATGAAGAG
Found at i:13847142 original size:21 final size:21
Alignment explanation
Indices: 13847116--13847161 Score: 83
Period size: 21 Copynumber: 2.2 Consensus size: 21
13847106 GGATGTTGAA
13847116 GAAGAAGAAAATGAAGATGAG
1 GAAGAAGAAAATGAAGATGAG
*
13847137 GAAGAAGAAGATGAAGATGAG
1 GAAGAAGAAAATGAAGATGAG
13847158 GAAG
1 GAAG
13847162 CCCTGCAGCC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.54, C:0.00, G:0.37, T:0.09
Consensus pattern (21 bp):
GAAGAAGAAAATGAAGATGAG
Found at i:13847161 original size:15 final size:15
Alignment explanation
Indices: 13847112--13847153 Score: 50
Period size: 15 Copynumber: 2.8 Consensus size: 15
13847102 AAGAGGATGT
*
13847112 TGAAGAAGAAGAAAA
1 TGAAGATGAAGAAAA
*
13847127 TGAAGATGAGGAAGAA
1 TGAAGATGAAGAA-AA
13847143 -GAAGATGAAGA
1 TGAAGATGAAGA
13847154 TGAGGAAGCC
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
15 21 0.91
16 2 0.09
ACGTcount: A:0.57, C:0.00, G:0.33, T:0.10
Consensus pattern (15 bp):
TGAAGATGAAGAAAA
Found at i:13858092 original size:31 final size:31
Alignment explanation
Indices: 13858056--13858147 Score: 81
Period size: 31 Copynumber: 3.2 Consensus size: 31
13858046 AACAACCAAT
13858056 ATACATACCAAAACACATTTTTCAGCCAAAC
1 ATACATACCAAAACACATTTTTCAGCCAAAC
* *** * *
13858087 ATACAT-CC----C-CAATGAGCAACC-AAT
1 ATACATACCAAAACACATTTTTCAGCCAAAC
13858111 ATACATACCAAAACACATTTTTCAGCCAAAC
1 ATACATACCAAAACACATTTTTCAGCCAAAC
13858142 ATACAT
1 ATACAT
13858148 CCCCAATGAG
Statistics
Matches: 42, Mismatches: 12, Indels: 14
0.62 0.18 0.21
Matches are distributed among these distances:
24 8 0.19
25 9 0.21
26 1 0.02
29 1 0.02
30 9 0.21
31 14 0.33
ACGTcount: A:0.45, C:0.29, G:0.04, T:0.22
Consensus pattern (31 bp):
ATACATACCAAAACACATTTTTCAGCCAAAC
Found at i:13858132 original size:55 final size:55
Alignment explanation
Indices: 13858048--13858157 Score: 220
Period size: 55 Copynumber: 2.0 Consensus size: 55
13858038 AAGCTCCAAA
13858048 CAACCAATATACATACCAAAACACATTTTTCAGCCAAACATACATCCCCAATGAG
1 CAACCAATATACATACCAAAACACATTTTTCAGCCAAACATACATCCCCAATGAG
13858103 CAACCAATATACATACCAAAACACATTTTTCAGCCAAACATACATCCCCAATGAG
1 CAACCAATATACATACCAAAACACATTTTTCAGCCAAACATACATCCCCAATGAG
13858158 TTCATATTTG
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
55 55 1.00
ACGTcount: A:0.44, C:0.31, G:0.05, T:0.20
Consensus pattern (55 bp):
CAACCAATATACATACCAAAACACATTTTTCAGCCAAACATACATCCCCAATGAG
Found at i:13864804 original size:16 final size:16
Alignment explanation
Indices: 13864783--13864813 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
13864773 GTTCGGTTAA
*
13864783 GAAAATTATTTAATTG
1 GAAAATTAATTAATTG
13864799 GAAAATTAATTAATT
1 GAAAATTAATTAATT
13864814 TAAATGAATT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.48, C:0.00, G:0.10, T:0.42
Consensus pattern (16 bp):
GAAAATTAATTAATTG
Found at i:13869105 original size:3 final size:3
Alignment explanation
Indices: 13869099--13869137 Score: 53
Period size: 3 Copynumber: 13.0 Consensus size: 3
13869089 TTTTTTCATT
*
13869099 TTA TTA TGT- TTA TTA TTA TTA TTA TTA TCA TTA TTA TTA
1 TTA TTA T-TA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
13869138 AAGTTACTTT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
2 1 0.03
3 30 0.94
4 1 0.03
ACGTcount: A:0.31, C:0.03, G:0.03, T:0.64
Consensus pattern (3 bp):
TTA
Found at i:13873818 original size:21 final size:22
Alignment explanation
Indices: 13873789--13873835 Score: 78
Period size: 21 Copynumber: 2.2 Consensus size: 22
13873779 CAGAAGGAGT
*
13873789 GAGTAGTACTTCGCAGCAGGTG
1 GAGTAGTACTCCGCAGCAGGTG
13873811 GAGT-GTACTCCGCAGCAGGTG
1 GAGTAGTACTCCGCAGCAGGTG
13873832 GAGT
1 GAGT
13873836 TTGAGCAGAG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.21, C:0.19, G:0.38, T:0.21
Consensus pattern (22 bp):
GAGTAGTACTCCGCAGCAGGTG
Found at i:13890659 original size:22 final size:21
Alignment explanation
Indices: 13890606--13890660 Score: 58
Period size: 21 Copynumber: 2.6 Consensus size: 21
13890596 CCCTTGGCCT
13890606 ACACGGGCGTGTGCCTCATCC
1 ACACGGGCGTGTGCCTCATCC
* * *
13890627 ACATGGTCGTGTGCGT-ACTCCC
1 ACACGGGCGTGTGCCTCA-T-CC
13890649 ACACGGGCGTGT
1 ACACGGGCGTGT
13890661 TGACCCCCTA
Statistics
Matches: 27, Mismatches: 5, Indels: 3
0.77 0.14 0.09
Matches are distributed among these distances:
20 1 0.04
21 14 0.52
22 12 0.44
ACGTcount: A:0.15, C:0.33, G:0.31, T:0.22
Consensus pattern (21 bp):
ACACGGGCGTGTGCCTCATCC
Found at i:13892509 original size:42 final size:42
Alignment explanation
Indices: 13892304--13892499 Score: 320
Period size: 42 Copynumber: 4.7 Consensus size: 42
13892294 CACACAGCCG
* * *
13892304 TGTCCCAGCCCGTGTAACTCACTGACTTGGGACACACGACCA
1 TGTCCCAGCCCGTGTAACTCACTGACTTGAGACACACGGCTA
13892346 TGTCCCAGCCCGTGTAACTCACTGACTTGAGACACACGGCTA
1 TGTCCCAGCCCGTGTAACTCACTGACTTGAGACACACGGCTA
*
13892388 TGTCCCAGCCCGTGTAGCTCACTGACTTGAGACACACGGCTA
1 TGTCCCAGCCCGTGTAACTCACTGACTTGAGACACACGGCTA
* * *
13892430 TGTCTCAGCTCGTGTAGCTCACTGACTTGAGACACACGGCTA
1 TGTCCCAGCCCGTGTAACTCACTGACTTGAGACACACGGCTA
*
13892472 TGTCCCAGCCCGTATAACTCACTGACTT
1 TGTCCCAGCCCGTGTAACTCACTGACTT
13892500 AGGTTACACG
Statistics
Matches: 144, Mismatches: 10, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
42 144 1.00
ACGTcount: A:0.22, C:0.33, G:0.21, T:0.23
Consensus pattern (42 bp):
TGTCCCAGCCCGTGTAACTCACTGACTTGAGACACACGGCTA
Found at i:13893330 original size:19 final size:19
Alignment explanation
Indices: 13893287--13893337 Score: 54
Period size: 19 Copynumber: 2.7 Consensus size: 19
13893277 CAATACTTGA
13893287 ATTCATTTCA--AGTTTCAC
1 ATTCATTTCATCA-TTTCAC
*
13893305 ATCTCATTTCATCATTTCAT
1 AT-TCATTTCATCATTTCAC
13893325 ATTCATTT-ATCAT
1 ATTCATTTCATCAT
13893338 CTTTGTAAAT
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
18 7 0.24
19 14 0.48
20 7 0.24
21 1 0.03
ACGTcount: A:0.27, C:0.22, G:0.02, T:0.49
Consensus pattern (19 bp):
ATTCATTTCATCATTTCAC
Found at i:13899941 original size:25 final size:26
Alignment explanation
Indices: 13899913--13899965 Score: 74
Period size: 25 Copynumber: 2.1 Consensus size: 26
13899903 TTATTGTGTT
13899913 TTTTACAACA-AATTG-TTAACTATAA
1 TTTTACAA-AGAATTGATTAACTATAA
*
13899938 TTTTGCAAAGAATTGATTAACTATAA
1 TTTTACAAAGAATTGATTAACTATAA
13899964 TT
1 TT
13899966 ATTGTGTTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
24 1 0.04
25 12 0.48
26 12 0.48
ACGTcount: A:0.42, C:0.09, G:0.08, T:0.42
Consensus pattern (26 bp):
TTTTACAAAGAATTGATTAACTATAA
Found at i:13900208 original size:39 final size:39
Alignment explanation
Indices: 13900158--13900242 Score: 143
Period size: 39 Copynumber: 2.2 Consensus size: 39
13900148 AGTTACAGGG
* * *
13900158 ACTAAAAATGCAAATAAATCTAAGTTACAGTGTTAACTA
1 ACTACAAATGCAAATAAACCTAAGCTACAGTGTTAACTA
13900197 ACTACAAATGCAAATAAACCTAAGCTACAGTGTTAACTA
1 ACTACAAATGCAAATAAACCTAAGCTACAGTGTTAACTA
13900236 ACTACAA
1 ACTACAA
13900243 GAACACTAAG
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
39 43 1.00
ACGTcount: A:0.48, C:0.18, G:0.09, T:0.25
Consensus pattern (39 bp):
ACTACAAATGCAAATAAACCTAAGCTACAGTGTTAACTA
Found at i:13900343 original size:21 final size:21
Alignment explanation
Indices: 13900306--13900345 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
13900296 AGATGGTACT
*
13900306 AAGAAAACCTAGAAGAAAAGG
1 AAGAAAAACTAGAAGAAAAGG
13900327 AAGAAAAACTA-AGAGAAAA
1 AAGAAAAACTAGA-AGAAAA
13900346 ACTAAAGAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 1 0.06
21 16 0.94
ACGTcount: A:0.68, C:0.07, G:0.20, T:0.05
Consensus pattern (21 bp):
AAGAAAAACTAGAAGAAAAGG
Found at i:13902154 original size:24 final size:24
Alignment explanation
Indices: 13902114--13902161 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 24
13902104 TGTGGCTTAG
*
13902114 GTTGGTTCGAAAGTGAAGAACTAA
1 GTTGGTTCGAAACTGAAGAACTAA
13902138 GTTGGTTC-AGAACTGAAGAACTAA
1 GTTGGTTCGA-AACTGAAGAACTAA
13902162 CTCTACAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 1 0.05
24 21 0.95
ACGTcount: A:0.38, C:0.10, G:0.27, T:0.25
Consensus pattern (24 bp):
GTTGGTTCGAAACTGAAGAACTAA
Found at i:13905874 original size:22 final size:22
Alignment explanation
Indices: 13905849--13905891 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
13905839 TTAGAAATCA
* *
13905849 TAAAGCAACCAGACCAAAAAAT
1 TAAACCAAACAGACCAAAAAAT
*
13905871 TAAACCAAACAGTCCAAAAAA
1 TAAACCAAACAGACCAAAAAA
13905892 AATTTTGGAG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.60, C:0.23, G:0.07, T:0.09
Consensus pattern (22 bp):
TAAACCAAACAGACCAAAAAAT
Found at i:13906747 original size:32 final size:32
Alignment explanation
Indices: 13906708--13906785 Score: 120
Period size: 32 Copynumber: 2.4 Consensus size: 32
13906698 AAACCTACAC
13906708 GCCCGTGTGGCCCACACACCCAACCTGGCCTA
1 GCCCGTGTGGCCCACACACCCAACCTGGCCTA
* ***
13906740 GCTCGTGTGGCCCACGTGCCCAACCTGGCCTA
1 GCCCGTGTGGCCCACACACCCAACCTGGCCTA
13906772 GCCCGTGTGGCCCA
1 GCCCGTGTGGCCCA
13906786 TACGGCCATA
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
32 41 1.00
ACGTcount: A:0.14, C:0.44, G:0.27, T:0.15
Consensus pattern (32 bp):
GCCCGTGTGGCCCACACACCCAACCTGGCCTA
Found at i:13915598 original size:15 final size:16
Alignment explanation
Indices: 13915566--13915598 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
13915556 TCAAGATGGA
*
13915566 ATTTTGAATTCATTTG
1 ATTTTGAATTCATATG
13915582 ATTTTGAA-TCATATG
1 ATTTTGAATTCATATG
13915597 AT
1 AT
13915599 ACTTTTGAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 8 0.50
16 8 0.50
ACGTcount: A:0.30, C:0.06, G:0.12, T:0.52
Consensus pattern (16 bp):
ATTTTGAATTCATATG
Found at i:13921928 original size:49 final size:48
Alignment explanation
Indices: 13921866--13921996 Score: 181
Period size: 49 Copynumber: 2.7 Consensus size: 48
13921856 ATAAGGAAAT
*
13921866 AGAATTTAATTATTATTTAAAAGAGTTTTAGATAAATAATAATTAAAAC
1 AGAATTTAATTATTATTTAAAAGAGTTTTAAATAAATAATAATT-AAAC
* * * *
13921915 ATAATTTAATTATTATTTACAAGAGTTTTAAATAAATGATAATTAAAT
1 AGAATTTAATTATTATTTAAAAGAGTTTTAAATAAATAATAATTAAAC
*
13921963 AGAATTTAAATTATTATTTAAAAAAGCTTTTAAA
1 AGAATTT-AATTATTATTTAAAAGAG-TTTTAAA
13921997 ATTCAAGATA
Statistics
Matches: 72, Mismatches: 8, Indels: 3
0.87 0.10 0.04
Matches are distributed among these distances:
48 9 0.12
49 56 0.78
50 7 0.10
ACGTcount: A:0.50, C:0.02, G:0.07, T:0.41
Consensus pattern (48 bp):
AGAATTTAATTATTATTTAAAAGAGTTTTAAATAAATAATAATTAAAC
Found at i:13925110 original size:23 final size:25
Alignment explanation
Indices: 13925079--13925125 Score: 64
Period size: 26 Copynumber: 2.0 Consensus size: 25
13925069 TAAATTAGAA
13925079 AAATATCTC-T-AGA-AATTTTCTT
1 AAATATCTCTTCAGAGAATTTTCTT
13925101 AAATAATCTCTTCAGAGAATTTTCT
1 AAAT-ATCTCTTCAGAGAATTTTCT
13925126 CTCTACAACT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
22 4 0.19
23 5 0.24
24 1 0.05
25 3 0.14
26 8 0.38
ACGTcount: A:0.36, C:0.15, G:0.06, T:0.43
Consensus pattern (25 bp):
AAATATCTCTTCAGAGAATTTTCTT
Found at i:13925337 original size:62 final size:59
Alignment explanation
Indices: 13925235--13925351 Score: 180
Period size: 62 Copynumber: 1.9 Consensus size: 59
13925225 TCACTTTAAT
* *
13925235 ATTAAAATAATATAATATTTATCAAGATAAATATTAAATTAAATTTAATATTAAGTCTG
1 ATTAAAATAATAGAATATTTATCAAGATAAACATTAAATTAAATTTAATATTAAGTCTG
*
13925294 ATTAAAATAATAGAATGTTTATCTACAAGATAAACATTAAATTAAATTTAATATTAAG
1 ATTAAAATAATAGAATATTTA--T-CAAGATAAACATTAAATTAAATTTAATATTAAG
13925352 ATAATCACTT
Statistics
Matches: 52, Mismatches: 3, Indels: 3
0.90 0.05 0.05
Matches are distributed among these distances:
59 19 0.37
61 1 0.02
62 32 0.62
ACGTcount: A:0.51, C:0.04, G:0.06, T:0.38
Consensus pattern (59 bp):
ATTAAAATAATAGAATATTTATCAAGATAAACATTAAATTAAATTTAATATTAAGTCTG
Found at i:13930075 original size:39 final size:39
Alignment explanation
Indices: 13930032--13930133 Score: 177
Period size: 39 Copynumber: 2.6 Consensus size: 39
13930022 AACATGTTTT
13930032 TGAGTATTGTGATATATGCTTAAATGTTATGTGATTATA
1 TGAGTATTGTGATATATGCTTAAATGTTATGTGATTATA
*
13930071 TGAGTATTGTGATATATGCTTAAATTTTATGTGATTATA
1 TGAGTATTGTGATATATGCTTAAATGTTATGTGATTATA
* *
13930110 TGTGTAATGTGATATATGCTTAAA
1 TGAGTATTGTGATATATGCTTAAA
13930134 AGTGAATATG
Statistics
Matches: 60, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 60 1.00
ACGTcount: A:0.31, C:0.03, G:0.20, T:0.46
Consensus pattern (39 bp):
TGAGTATTGTGATATATGCTTAAATGTTATGTGATTATA
Found at i:13933022 original size:15 final size:16
Alignment explanation
Indices: 13932985--13933022 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
13932975 TTTTTACTAT
13932985 TATTTCAATTTTAATTA
1 TATTT-AATTTTAATTA
*
13933002 TTTTTAATTTT-ATTA
1 TATTTAATTTTAATTA
13933017 TATTTA
1 TATTTA
13933023 GATTCCCCTT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
15 9 0.47
16 6 0.32
17 4 0.21
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.66
Consensus pattern (16 bp):
TATTTAATTTTAATTA
Found at i:13933236 original size:2 final size:2
Alignment explanation
Indices: 13933229--13933253 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
13933219 CGACAAACAT
13933229 AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC A
13933254 TATGATAATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.48, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:13934881 original size:31 final size:31
Alignment explanation
Indices: 13934824--13934983 Score: 270
Period size: 31 Copynumber: 5.2 Consensus size: 31
13934814 CATTGTATTT
*
13934824 GTGTATTTTAAAAAT-AAAGAAATATATGTA
1 GTGTATTTTAAAAATAAAAAAAATATATGTA
13934854 GTGTATTTTAAAAATAAAAAAAATATATGTA
1 GTGTATTTTAAAAATAAAAAAAATATATGTA
*
13934885 GTTTATTTTAAAAAT-AAAAAAATATATGTA
1 GTGTATTTTAAAAATAAAAAAAATATATGTA
*
13934915 GTGTATTTTAAAAATAAAAAATATATATGTA
1 GTGTATTTTAAAAATAAAAAAAATATATGTA
13934946 GTGTATTTTAAAAATAAAAAAAATATATGTA
1 GTGTATTTTAAAAATAAAAAAAATATATGTA
*
13934977 CTGTATT
1 GTGTATT
13934984 CGGTTTATTC
Statistics
Matches: 122, Mismatches: 6, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
30 44 0.36
31 78 0.64
ACGTcount: A:0.51, C:0.01, G:0.10, T:0.38
Consensus pattern (31 bp):
GTGTATTTTAAAAATAAAAAAAATATATGTA
Found at i:13934902 original size:61 final size:61
Alignment explanation
Indices: 13934824--13934983 Score: 275
Period size: 61 Copynumber: 2.6 Consensus size: 61
13934814 CATTGTATTT
*
13934824 GTGTATTTTAAAAATAAAGAAATATATGTAGTGTATTTTAAAAATAAAAAAAATATATGTA
1 GTGTATTTTAAAAATAAAAAAATATATGTAGTGTATTTTAAAAATAAAAAAAATATATGTA
* *
13934885 GTTTATTTTAAAAATAAAAAAATATATGTAGTGTATTTTAAAAATAAAAAATATATATGTA
1 GTGTATTTTAAAAATAAAAAAATATATGTAGTGTATTTTAAAAATAAAAAAAATATATGTA
*
13934946 GTGTATTTTAAAAATAAAAAAAATATATGTACTGTATT
1 GTGTATTTTAAAAAT-AAAAAAATATATGTAGTGTATT
13934984 CGGTTTATTC
Statistics
Matches: 93, Mismatches: 5, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
61 72 0.77
62 21 0.23
ACGTcount: A:0.51, C:0.01, G:0.10, T:0.38
Consensus pattern (61 bp):
GTGTATTTTAAAAATAAAAAAATATATGTAGTGTATTTTAAAAATAAAAAAAATATATGTA
Found at i:13935656 original size:21 final size:23
Alignment explanation
Indices: 13935614--13935656 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 23
13935604 TTATCATTGT
**
13935614 TATAAAAAATATTTAATTATAAC
1 TATAAAAAATATTTAAAAATAAC
13935637 TATAAAAAA-A-TTAAAAATAA
1 TATAAAAAATATTTAAAAATAA
13935657 TTATCATTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 8 0.44
22 1 0.06
23 9 0.50
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (23 bp):
TATAAAAAATATTTAAAAATAAC
Found at i:13935922 original size:21 final size:21
Alignment explanation
Indices: 13935898--13935950 Score: 88
Period size: 21 Copynumber: 2.5 Consensus size: 21
13935888 CATTGTTTCT
*
13935898 AATCTCACCGCTACAGTACCC
1 AATCTCACCGCTACAGTAACC
*
13935919 AATCTCACCGCTACAGTAACT
1 AATCTCACCGCTACAGTAACC
13935940 AATCTCACCGC
1 AATCTCACCGC
13935951 CACCGCTATT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.30, C:0.40, G:0.09, T:0.21
Consensus pattern (21 bp):
AATCTCACCGCTACAGTAACC
Found at i:13942226 original size:46 final size:47
Alignment explanation
Indices: 13942148--13942236 Score: 135
Period size: 46 Copynumber: 1.9 Consensus size: 47
13942138 TTCTCCAAGT
* *
13942148 CCAAGATCTTTAATATTGTCGTATCTAAATCCATAC-CTTCAGTATA
1 CCAACATCTTTAATATTGTCATATCTAAATCCATACTCTTCAGTATA
* *
13942194 CCAACATCTTTAATATTGTCATGTCTAGATCCATACTCTTCAG
1 CCAACATCTTTAATATTGTCATATCTAAATCCATACTCTTCAG
13942237 CTTTGACAGC
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
46 32 0.84
47 6 0.16
ACGTcount: A:0.30, C:0.24, G:0.09, T:0.37
Consensus pattern (47 bp):
CCAACATCTTTAATATTGTCATATCTAAATCCATACTCTTCAGTATA
Found at i:13944974 original size:15 final size:17
Alignment explanation
Indices: 13944956--13944996 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
13944946 AATCTAAATT
13944956 TAATAAAATT-AAA-AA
1 TAATAAAATTGAAATAA
13944971 TAATTAAAATTGAAATAA
1 TAA-TAAAATTGAAATAA
*
13944989 TAGTAAAA
1 TAATAAAA
13944997 CTAGACAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
15 3 0.14
16 7 0.32
17 8 0.36
18 4 0.18
ACGTcount: A:0.66, C:0.00, G:0.05, T:0.29
Consensus pattern (17 bp):
TAATAAAATTGAAATAA
Found at i:13960307 original size:13 final size:13
Alignment explanation
Indices: 13960289--13960315 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
13960279 AACTCATCAT
13960289 TTATATATATATA
1 TTATATATATATA
13960302 TTATATATATATA
1 TTATATATATATA
13960315 T
1 T
13960316 CATTACTTCA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (13 bp):
TTATATATATATA
Found at i:13961002 original size:42 final size:42
Alignment explanation
Indices: 13960902--13961011 Score: 125
Period size: 42 Copynumber: 2.6 Consensus size: 42
13960892 AATGCCAACA
* *
13960902 TCCCAGACGTGGTCTTACATGTAATCAAACAACCATGCCACTG
1 TCCCAGACATGGTCTTACATGTAATCAAACAACCA-GCCAATG
* *
13960945 TCCTAGACAGGGTCTTACATGTAATCATATACAA-C-GCCAATG
1 TCCCAGACATGGTCTTACATGTAATCA-A-ACAACCAGCCAATG
* *
13960987 TCCCATACATGGTCTTACACGTAAT
1 TCCCAGACATGGTCTTACATGTAAT
13961012 TCTCAAATCG
Statistics
Matches: 57, Mismatches: 8, Indels: 5
0.81 0.11 0.07
Matches are distributed among these distances:
42 27 0.47
43 24 0.42
44 2 0.04
45 4 0.07
ACGTcount: A:0.31, C:0.27, G:0.15, T:0.26
Consensus pattern (42 bp):
TCCCAGACATGGTCTTACATGTAATCAAACAACCAGCCAATG
Found at i:13963600 original size:49 final size:48
Alignment explanation
Indices: 13963515--13963798 Score: 300
Period size: 49 Copynumber: 5.7 Consensus size: 48
13963505 GCATACTTGT
* * * *
13963515 ATTCATAAATAAAGTTGCTTTATTTATGCTTTATTGATTATTTTGCTGC
1 ATTCAT-AATTAAGTTGTTTTATTTATGCTTCATTGATTATTTTGTTGC
* * *
13963564 ATTCCTATATTAAGTTGTTTTATTTATGCTTCATTGATTGTTTTGCTGC
1 ATTCATA-ATTAAGTTGTTTTATTTATGCTTCATTGATTATTTTGTTGC
* * * * *
13963613 ATTCATAAATAGAGTTGCTTTATTTATGCTTCATTCATTATTCTATTGC
1 ATTCATAATTA-AGTTGTTTTATTTATGCTTCATTGATTATTTTGTTGC
* *
13963662 ATTCATAAATAAAGTGGTGTTTTAATTATGCTTCATTGATTATTTTGTTGC
1 ATTCAT-AATTAAGT--TGTTTTATTTATGCTTCATTGATTATTTTGTTGC
*
13963713 ATTCATACA-TAGAGTTGTTTTATTTATGCTTCATTCATTATTTTGTTGC
1 ATTCATA-ATTA-AGTTGTTTTATTTATGCTTCATTGATTATTTTGTTGC
* * *
13963762 ATTCATAACTAAAGTTGTGTTTTAATTATACTTCATT
1 ATTCATAA-TTAAG-T-TGTTTTATTTATGCTTCATT
13963799 CTTTGTTTGT
Statistics
Matches: 198, Mismatches: 26, Indels: 20
0.81 0.11 0.08
Matches are distributed among these distances:
48 5 0.03
49 129 0.65
50 7 0.04
51 57 0.29
ACGTcount: A:0.25, C:0.11, G:0.12, T:0.51
Consensus pattern (48 bp):
ATTCATAATTAAGTTGTTTTATTTATGCTTCATTGATTATTTTGTTGC
Found at i:13963725 original size:100 final size:99
Alignment explanation
Indices: 13963515--13963798 Score: 399
Period size: 100 Copynumber: 2.9 Consensus size: 99
13963505 GCATACTTGT
* * * * * * *
13963515 ATTCATAAATAAAGTTGCTTTATTTATGCTTTATTGATTATTTTGCTGCATTCCTATATTAAGT-
1 ATTCATAAATAGAGTTGCTTTATTTATGCTTCATTCATTATTTTGTTGCATTCATAAATAAAGTG
* *
13963579 TGTTTTATTTATGCTTCATTGATTGTTTTGCTGC
66 TGTTTTAATTATGCTTCATTGATTATTTTGCTGC
* *
13963613 ATTCATAAATAGAGTTGCTTTATTTATGCTTCATTCATTATTCTATTGCATTCATAAATAAAGTG
1 ATTCATAAATAGAGTTGCTTTATTTATGCTTCATTCATTATTTTGTTGCATTCATAAATAAAGT-
*
13963678 GTGTTTTAATTATGCTTCATTGATTATTTTGTTGC
65 GTGTTTTAATTATGCTTCATTGATTATTTTGCTGC
* * *
13963713 ATTCATACATAGAGTTGTTTTATTTATGCTTCATTCATTATTTTGTTGCATTCATAACTAAAGTT
1 ATTCATAAATAGAGTTGCTTTATTTATGCTTCATTCATTATTTTGTTGCATTCATAAATAAAG-T
*
13963778 GTGTTTTAATTATACTTCATT
65 GTGTTTTAATTATGCTTCATT
13963799 CTTTGTTTGT
Statistics
Matches: 165, Mismatches: 18, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
98 55 0.33
100 109 0.66
101 1 0.01
ACGTcount: A:0.25, C:0.11, G:0.12, T:0.51
Consensus pattern (99 bp):
ATTCATAAATAGAGTTGCTTTATTTATGCTTCATTCATTATTTTGTTGCATTCATAAATAAAGTG
TGTTTTAATTATGCTTCATTGATTATTTTGCTGC
Found at i:13969676 original size:49 final size:49
Alignment explanation
Indices: 13969601--13969903 Score: 387
Period size: 49 Copynumber: 6.1 Consensus size: 49
13969591 TAAAGCATAC
*
13969601 TTGCATTCATAAATAAAGTT-TCTTTATTTATGCTTCATTGATTGTTTCG
1 TTGCATTCATAAATAAAGTTGT-TTTATTTATGCTTCATTGATTGTTTTG
* *
13969650 CTGCATTCATAAATAAAGTTGTTTTATTTATGCTTCATTGATTATTTTG
1 TTGCATTCATAAATAAAGTTGTTTTATTTATGCTTCATTGATTGTTTTG
* * * * * *
13969699 ATGCATTCATAAACAGAGTTGCTTTATTTATGCTTCATTCATTGTTCTG
1 TTGCATTCATAAATAAAGTTGTTTTATTTATGCTTCATTGATTGTTTTG
* * *
13969748 TTGCATTCATAAATAAAGTGATGTTTTAATTATGCTTCATTGACTATTTTG
1 TTGCATTCATAAATAAAGT--TGTTTTATTTATGCTTCATTGATTGTTTTG
* * *
13969799 TTGCATTCATACATAGAGTTGTTTTATTTATGCTTCATTCATTGTTTTG
1 TTGCATTCATAAATAAAGTTGTTTTATTTATGCTTCATTGATTGTTTTG
* *
13969848 TTGCATTCATAAATAAAGTGGTGTTTTAATTATGCTTCATT--TTTTTTTG
1 TTGCATTCATAAATAAAGT--TGTTTTATTTATGCTTCATTGATTGTTTTG
13969897 TTGCATT
1 TTGCATT
13969904 TATTTCAGTT
Statistics
Matches: 220, Mismatches: 29, Indels: 10
0.85 0.11 0.04
Matches are distributed among these distances:
49 159 0.72
50 1 0.00
51 60 0.27
ACGTcount: A:0.25, C:0.12, G:0.14, T:0.50
Consensus pattern (49 bp):
TTGCATTCATAAATAAAGTTGTTTTATTTATGCTTCATTGATTGTTTTG
Found at i:13969817 original size:100 final size:98
Alignment explanation
Indices: 13969601--13969888 Score: 434
Period size: 100 Copynumber: 2.9 Consensus size: 98
13969591 TAAAGCATAC
* * * *
13969601 TTGCATTCATAAATAAAGTTTCTTTATTTATGCTTCATTGATTGTTTCGCTGCATTCATAAATAA
1 TTGCATTCATAAATAGAGTTGCTTTATTTATGCTTCATTCATTGTTT-GTTGCATTCATAAATAA
* *
13969666 AGT-TGTTTTATTTATGCTTCATTGATTATTTTG
65 AGTGTGTTTTAATTATGCTTCATTGACTATTTTG
* *
13969699 ATGCATTCATAAACAGAGTTGCTTTATTTATGCTTCATTCATTGTTCTGTTGCATTCATAAATAA
1 TTGCATTCATAAATAGAGTTGCTTTATTTATGCTTCATTCATTGTT-TGTTGCATTCATAAATAA
13969764 AGTGATGTTTTAATTATGCTTCATTGACTATTTTG
65 AGTG-TGTTTTAATTATGCTTCATTGACTATTTTG
* *
13969799 TTGCATTCATACATAGAGTTGTTTTATTTATGCTTCATTCATTGTTTTGTTGCATTCATAAATAA
1 TTGCATTCATAAATAGAGTTGCTTTATTTATGCTTCATTCATTG-TTTGTTGCATTCATAAATAA
13969864 AGTGGTGTTTTAATTATGCTTCATT
65 AGT-GTGTTTTAATTATGCTTCATT
13969889 TTTTTTTGTT
Statistics
Matches: 173, Mismatches: 12, Indels: 8
0.90 0.06 0.04
Matches are distributed among these distances:
98 60 0.35
99 1 0.01
100 109 0.63
101 3 0.02
ACGTcount: A:0.26, C:0.12, G:0.14, T:0.49
Consensus pattern (98 bp):
TTGCATTCATAAATAGAGTTGCTTTATTTATGCTTCATTCATTGTTTGTTGCATTCATAAATAAA
GTGTGTTTTAATTATGCTTCATTGACTATTTTG
Found at i:13969899 original size:149 final size:146
Alignment explanation
Indices: 13969601--13969903 Score: 394
Period size: 149 Copynumber: 2.0 Consensus size: 146
13969591 TAAAGCATAC
* * *
13969601 TTGCATTCATAAATAAAGTTTCTTTATTTATGCTTCATTGATTGTTTCGCTGCATTCATAAATAA
1 TTGCATTCATAAATAAAGTTTCTTTAATTATGCTTCATTGACTATTTCGCTGCATTCATAAATAA
* * *
13969666 AGTTGTTTTATTTATGCTTCATTGATTATTTTGATGCATTCATAAACAGAGTTGCTTTATTTATG
66 AGTTGTTTTATTTATGCTTCATTCATTATTTTGATGCATTCATAAACAAAGTTGCTTTAATTATG
13969731 CTTCATTCATTGTTCTG
131 CTTCATT-ATTGTTCTG
* * *
13969748 TTGCATTCATAAATAAAGTGATGT-TTTAATTATGCTTCATTGACTATTTTGTTGCATTCATACA
1 TTGCATTCATAAATAAAGT--T-TCTTTAATTATGCTTCATTGACTATTTCGCTGCATTCATAAA
* * * * *
13969812 TAGAGTTGTTTTATTTATGCTTCATTCATTGTTTTGTTGCATTCATAAATAAAGTGGTGTTTTAA
63 TAAAGTTGTTTTATTTATGCTTCATTCATTATTTTGATGCATTCATAAACAAAGT--TGCTTTAA
* *
13969877 TTATGCTTCATT-TTTTTTTG
126 TTATGCTTCATTATTGTTCTG
13969897 TTGCATT
1 TTGCATT
13969904 TATTTCAGTT
Statistics
Matches: 135, Mismatches: 16, Indels: 8
0.85 0.10 0.05
Matches are distributed among these distances:
147 19 0.14
149 97 0.72
150 1 0.01
151 18 0.13
ACGTcount: A:0.25, C:0.12, G:0.14, T:0.50
Consensus pattern (146 bp):
TTGCATTCATAAATAAAGTTTCTTTAATTATGCTTCATTGACTATTTCGCTGCATTCATAAATAA
AGTTGTTTTATTTATGCTTCATTCATTATTTTGATGCATTCATAAACAAAGTTGCTTTAATTATG
CTTCATTATTGTTCTG
Found at i:13971790 original size:81 final size:82
Alignment explanation
Indices: 13971655--13971820 Score: 316
Period size: 81 Copynumber: 2.0 Consensus size: 82
13971645 TAAATACAAT
13971655 TTTAATTATTACTTAAGATAAATATAACTTTATTATATTCATTATATATACCTTCACGCTAATTT
1 TTTAATTATTACTTAAGATAAATATAACTTTATTATATTCATTATATATACCTTCACGCTAATTT
13971720 AATGTTTTTAATA-TAA
66 AATGTTTTTAATAGTAA
*
13971736 TTTAATTATTACTTAAGATAAATATAATTTTATTATATTCATTATATATACCTTCACGCTAATTT
1 TTTAATTATTACTTAAGATAAATATAACTTTATTATATTCATTATATATACCTTCACGCTAATTT
13971801 AATGTTTTTAATAGTAA
66 AATGTTTTTAATAGTAA
13971818 TTT
1 TTT
13971821 TCCATTTTAA
Statistics
Matches: 83, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
81 77 0.93
82 6 0.07
ACGTcount: A:0.37, C:0.09, G:0.04, T:0.49
Consensus pattern (82 bp):
TTTAATTATTACTTAAGATAAATATAACTTTATTATATTCATTATATATACCTTCACGCTAATTT
AATGTTTTTAATAGTAA
Found at i:13974194 original size:41 final size:41
Alignment explanation
Indices: 13974137--13974219 Score: 166
Period size: 41 Copynumber: 2.0 Consensus size: 41
13974127 CAGTAGGATA
13974137 AGGTGGGAACCCTGAAACAAATAAACAAATCCAGCTTTAAG
1 AGGTGGGAACCCTGAAACAAATAAACAAATCCAGCTTTAAG
13974178 AGGTGGGAACCCTGAAACAAATAAACAAATCCAGCTTTAAG
1 AGGTGGGAACCCTGAAACAAATAAACAAATCCAGCTTTAAG
13974219 A
1 A
13974220 TAATAATTGG
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 42 1.00
ACGTcount: A:0.45, C:0.19, G:0.19, T:0.17
Consensus pattern (41 bp):
AGGTGGGAACCCTGAAACAAATAAACAAATCCAGCTTTAAG
Found at i:13978846 original size:16 final size:16
Alignment explanation
Indices: 13978825--13978864 Score: 62
Period size: 16 Copynumber: 2.5 Consensus size: 16
13978815 CCTTCCCTAC
*
13978825 GAACTTTTATTCTTCT
1 GAACTTCTATTCTTCT
13978841 GAACTTCTATTCTTCT
1 GAACTTCTATTCTTCT
*
13978857 AAACTTCT
1 GAACTTCT
13978865 TCAATTTCTA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.23, C:0.23, G:0.05, T:0.50
Consensus pattern (16 bp):
GAACTTCTATTCTTCT
Found at i:13986219 original size:27 final size:28
Alignment explanation
Indices: 13986161--13986213 Score: 72
Period size: 27 Copynumber: 1.9 Consensus size: 28
13986151 ACTTTAGCCA
* *
13986161 TTTTTTATTTTAATTTTAATATTTTTTG
1 TTTTTTATTTTAATTTTAACATTTTATG
*
13986189 TTTTTTA-TTTAATTTTTACATTTTA
1 TTTTTTATTTTAATTTTAACATTTTA
13986214 ATTTTTCGTT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
27 15 0.68
28 7 0.32
ACGTcount: A:0.23, C:0.02, G:0.02, T:0.74
Consensus pattern (28 bp):
TTTTTTATTTTAATTTTAACATTTTATG
Found at i:13988958 original size:5 final size:5
Alignment explanation
Indices: 13988948--13988975 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
13988938 CTGAGTGTGT
13988948 TTTTA TTTTA TTTTA TTTTA TTTTA TTT
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTT
13988976 ATGTTGCATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (5 bp):
TTTTA
Found at i:14006011 original size:20 final size:20
Alignment explanation
Indices: 14005982--14006020 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
14005972 TTATATAGCC
* *
14005982 AAAAATACAAAATATAAAAG
1 AAAAAGACAAAATACAAAAG
14006002 AAAAAGACAAAATACAAAA
1 AAAAAGACAAAATACAAAA
14006021 TCCTCTCTAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.77, C:0.08, G:0.05, T:0.10
Consensus pattern (20 bp):
AAAAAGACAAAATACAAAAG
Found at i:14006871 original size:44 final size:47
Alignment explanation
Indices: 14006774--14006874 Score: 113
Period size: 44 Copynumber: 2.3 Consensus size: 47
14006764 TAGACCGCCT
* *
14006774 GGGAGATAAG-GTTCGCTGTTCTCAGTCTGCCCCACTGCAACTTTAA
1 GGGAGATAAGACTTCGCTGTTCTCAGTCTGCCCCACTGCAACTCTAA
* * * *
14006820 GGG-GATAAGACTT-GCT-TTCTCCGTCTGCTCCGCTGCAAC-CTCA
1 GGGAGATAAGACTTCGCTGTTCTCAGTCTGCCCCACTGCAACTCTAA
14006863 GGGAGATAAGAC
1 GGGAGATAAGAC
14006875 CTGATGTGAT
Statistics
Matches: 47, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
43 5 0.11
44 28 0.60
45 9 0.19
46 5 0.11
ACGTcount: A:0.22, C:0.27, G:0.26, T:0.26
Consensus pattern (47 bp):
GGGAGATAAGACTTCGCTGTTCTCAGTCTGCCCCACTGCAACTCTAA
Found at i:14006970 original size:44 final size:43
Alignment explanation
Indices: 14006906--14007004 Score: 117
Period size: 44 Copynumber: 2.3 Consensus size: 43
14006896 CAACTTCAGA
* **
14006906 GAGATAAGATCTATTACTTTAATCCGCTCCACTAAAATTTTAGG
1 GAGATAAGAT-TATCACTTTAATCCGCTCCACTAAAACCTTAGG
* * **
14006950 GAGATAAGATTATCAGCTTTAATCTGCTTCACTTCAACCTTAGG
1 GAGATAAGATTATCA-CTTTAATCCGCTCCACTAAAACCTTAGG
14006994 GAGATAAGATT
1 GAGATAAGATT
14007005 TGCCATCTTC
Statistics
Matches: 47, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
43 4 0.09
44 43 0.91
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.33
Consensus pattern (43 bp):
GAGATAAGATTATCACTTTAATCCGCTCCACTAAAACCTTAGG
Found at i:14007129 original size:218 final size:218
Alignment explanation
Indices: 14006799--14008561 Score: 2566
Period size: 218 Copynumber: 8.1 Consensus size: 218
14006789 CTGTTCTCAG
* * * * *
14006799 TCTGCCCCACTGCAACTTTAAGGGGATAAGACTTGCTTTCTCCGTCTGCTCCGCTGCAACCTCAG
1 TCTGCCCCACTGCAACTTCAAGGGGATAAGACCTGCTTACTCAGTCTGCTCCACTGCAACCTCAG
* * * *
14006864 GGAGATAAGACCTGATGTGATCTACTCTGCTGCAACTTCAGAGAGATAAGATCTATTACTTTAAT
66 GGAGATAAGACCTGATGCGATCCACTCTACTGCAACTTCAGAGAGATAAGATCCATTACTTTAAT
* * * * * * * * *
14006929 CCGCTCCACTAAAATTTTAGGGAGATAAGATTATCAGCTTTAATCTGCTTCACTTCAACCTTAGG
131 CCGCTCCACTACAACTTCAGGGAGATAGGATTATCGGCTTCAATCTGCTCCACTGCAACCTCAGG
14006994 GAGATAAGATTTGCCATCTTCGA
196 GAGATAAGATTTGCCATCTTCGA
* * * *
14007017 TCTGCCCCACTTCAACTTCAAGGGGATAAGACCTGCTTACTCAGCCTGTTCCACTACAACCTCAG
1 TCTGCCCCACTGCAACTTCAAGGGGATAAGACCTGCTTACTCAGTCTGCTCCACTGCAACCTCAG
* *
14007082 GGAGATAAGACCTGATGCGATCCACTCTA-TGGCAATTTCAAAGAGATAAGATCCATTACTTTAA
66 GGAGATAAGACCTGATGCGATCCACTCTACT-GCAACTTCAGAGAGATAAGATCCATTACTTTAA
* * *
14007146 TCCACTCCACTACAAATTCAGGGAGATAGGATTATCGGCTTCAATCTGCTCCACTGCAACCGCAG
130 TCCGCTCCACTACAACTTCAGGGAGATAGGATTATCGGCTTCAATCTGCTCCACTGCAACCTCAG
*
14007211 GGAGATAAGATTTTCCATCTTCGA
195 GGAGATAAGATTTGCCATCTTCGA
* * * * *
14007235 TCTGTCCCATTACAACTTCAGGGGGATAAGACTTGCTTACTCAGTCTGCTCCACTGCAACCTCAG
1 TCTGCCCCACTGCAACTTCAAGGGGATAAGACCTGCTTACTCAGTCTGCTCCACTGCAACCTCAG
* * *
14007300 GGAGATAAAACCTGATGCGATCCACACTACTGCAACTTCAGAGAGATAATATCCATTACTTTAAT
66 GGAGATAAGACCTGATGCGATCCACTCTACTGCAACTTCAGAGAGATAAGATCCATTACTTTAAT
* * * * *
14007365 CCGCTCCGCTACAACTTCAGAGAGATAGGATTATCGGCTTTAATCTGCTCCACTGTAAACTCAGG
131 CCGCTCCACTACAACTTCAGGGAGATAGGATTATCGGCTTCAATCTGCTCCACTGCAACCTCAGG
*
14007430 GAGATAAGATTTGTCATCTTCGA
196 GAGATAAGATTTGCCATCTTCGA
* * * *
14007453 TCTGTCCCACTGCAAC-TCATGAGGATAAGTCCTGCTTACTCAGTCTGCTCCACTGCAACCTCAG
1 TCTGCCCCACTGCAACTTCAAGGGGATAAGACCTGCTTACTCAGTCTGCTCCACTGCAACCTCAG
* * * *
14007517 AGAGATAAAACCTGATGCGATCCACTCTACTGCAACTTCAGAGAGAAAAGATCTATTACTTTAAT
66 GGAGATAAGACCTGATGCGATCCACTCTACTGCAACTTCAGAGAGATAAGATCCATTACTTTAAT
* * * * *
14007582 CTGCTCC-GTGACAACTTCAAGGAGATAGGATTATCGGCCTCAATCTGCTCTACTGCAACCTCAG
131 CCGCTCCACT-ACAACTTCAGGGAGATAGGATTATCGGCTTCAATCTGCTCCACTGCAACCTCAG
* * *
14007646 GGAGATAATATGTGCCATCTTTGA
195 GGAGATAAGATTTGCCATCTTCGA
* *
14007670 TCTGCCCCACTGCAACTT-TAGAGGGATAAGACCTGCTTACTCAGTTTGCTCCACTGCAACCTCA
1 TCTGCCCCACTGCAACTTCAAG-GGGATAAGACCTGCTTACTCAGTCTGCTCCACTGCAACCTCA
*
14007734 GGGAGATAAGACATGATGCGATCCACTCTA-TGGCAACTTCAGAGAGATAAGATCCATTACTTTA
65 GGGAGATAAGACCTGATGCGATCCACTCTACT-GCAACTTCAGAGAGATAAGATCCATTACTTTA
* *
14007798 ATCCGCTCAACTACAATTTCAGGGAGATAGGATTATCGGCTTCAATCTGCTCCACTGCAACCTCA
129 ATCCGCTCCACTACAACTTCAGGGAGATAGGATTATCGGCTTCAATCTGCTCCACTGCAACCTCA
*
14007863 AGGAGATAAGATTTGCCATCTTCGA
194 GGGAGATAAGATTTGCCATCTTCGA
* * *
14007888 TCTGCCCCACTGCAACTTCAGGGGGATAAGACCTGCTTACTCAGTCTACTCCGCTGCAACCTCAG
1 TCTGCCCCACTGCAACTTCAAGGGGATAAGACCTGCTTACTCAGTCTGCTCCACTGCAACCTCAG
*
14007953 GGAGATAAGACCTGATACGATCCACTCTACTGCAACTTCAGAGAGATAAGATCCATTACTTTAAT
66 GGAGATAAGACCTGATGCGATCCACTCTACTGCAACTTCAGAGAGATAAGATCCATTACTTTAAT
* * * * *
14008018 TCGCTCCACTACAATTTCAAGGAGATAGGATTATCAGCTTCAATCTGCTCCACTGCAACCTCAGA
131 CCGCTCCACTACAACTTCAGGGAGATAGGATTATCGGCTTCAATCTGCTCCACTGCAACCTCAGG
* *
14008083 GAGATAAGATTTGTCATCTTTGA
196 GAGATAAGATTTGCCATCTTCGA
* * *
14008106 TCTGCCCCACTGCAACTTCAGGGGGATAATACCTGCTTACTCAGTCTGCTCCGCTGCAACCTCAG
1 TCTGCCCCACTGCAACTTCAAGGGGATAAGACCTGCTTACTCAGTCTGCTCCACTGCAACCTCAG
* *
14008171 GGAGATAAGACCTAATGCGATCCACTCTACTGCAACTTCAGAGAGATAAGATCTATTACTTTAAT
66 GGAGATAAGACCTGATGCGATCCACTCTACTGCAACTTCAGAGAGATAAGATCCATTACTTTAAT
* * * *
14008236 CCGTTCCGCTACAACTTCAGGGAGATAGGATTATCGGCTTCAATCTGCCCCACTGCAACCTCAAG
131 CCGCTCCACTACAACTTCAGGGAGATAGGATTATCGGCTTCAATCTGCTCCACTGCAACCTCAGG
*
14008301 GAGATAAGATTTGCCATCTTCAA
196 GAGATAAGATTTGCCATCTTCGA
* * ***
14008324 TCTGCCCCACTGCAACTTC-AGGAGGATGAGACCTGCTTACTTAGTCTGCTGTGCTGCAACCTCA
1 TCTGCCCCACTGCAACTTCAAGG-GGATAAGACCTGCTTACTCAGTCTGCTCCACTGCAACCTCA
*
14008388 GGGAGATAAGACCTGATGCGATCCACTCTACTGCAACTTCAGAGAGATAAGATCTATTACTTTAA
65 GGGAGATAAGACCTGATGCGATCCACTCTACTGCAACTTCAGAGAGATAAGATCCATTACTTTAA
* * *
14008453 TCCGCTCCGCTACAACTTCAGGGAGATAGGATTATCGACTTCAATCTGCCCCACTGCAACCTCAG
130 TCCGCTCCACTACAACTTCAGGGAGATAGGATTATCGGCTTCAATCTGCTCCACTGCAACCTCAG
* *
14008518 AGAGATAAGATTTTCCATCTTCGA
195 GGAGATAAGATTTGCCATCTTCGA
*
14008542 TCTGCCCCACTACAACTTCA
1 TCTGCCCCACTGCAACTTCA
14008562 GTAGGATAAG
Statistics
Matches: 1392, Mismatches: 142, Indels: 21
0.90 0.09 0.01
Matches are distributed among these distances:
216 1 0.00
217 197 0.14
218 1190 0.85
219 4 0.00
ACGTcount: A:0.28, C:0.26, G:0.18, T:0.27
Consensus pattern (218 bp):
TCTGCCCCACTGCAACTTCAAGGGGATAAGACCTGCTTACTCAGTCTGCTCCACTGCAACCTCAG
GGAGATAAGACCTGATGCGATCCACTCTACTGCAACTTCAGAGAGATAAGATCCATTACTTTAAT
CCGCTCCACTACAACTTCAGGGAGATAGGATTATCGGCTTCAATCTGCTCCACTGCAACCTCAGG
GAGATAAGATTTGCCATCTTCGA
Found at i:14007307 original size:44 final size:45
Alignment explanation
Indices: 14007184--14008562 Score: 210
Period size: 44 Copynumber: 31.6 Consensus size: 45
14007174 GGATTATCGG
* * * *
14007184 CTTCAATCTGCTCCACTGCAACCGCAGGGAGATAAGATTTTCCAT
1 CTTCGATCTGCTCCACTGCAACCTCAGGGAGATAAGACTTGCCAT
* * * * *
14007229 CTTCGATCTG-TCCCATTACAACTTCAGGGGGATAAGACTTG-CTT
1 CTTCGATCTGCT-CCACTGCAACCTCAGGGAGATAAGACTTGCCAT
* *
14007273 AC-TC-AGTCTGCTCCACTGCAACCTCAGGGAGATAAAACCTG--A-
1 -CTTCGA-TCTGCTCCACTGCAACCTCAGGGAGATAAGACTTGCCAT
* ** * * * * *
14007315 -TGCGATCCACACTACTGCAACTTCAGAGAGATAATA--T-CCATT
1 CTTCGATCTGCTCCACTGCAACCTCAGGGAGATAAGACTTGCCA-T
** * * * * * * ** **
14007357 ACTTTAATCCGCTCCGCTACAACTTCAGAGAGATAGGA-TTATCGG
1 -CTTCGATCTGCTCCACTGCAACCTCAGGGAGATAAGACTTGCCAT
** * * * *
14007402 CTTTAATCTGCTCCACTGTAAACTCAGGGAGATAAGATTTGTCAT
1 CTTCGATCTGCTCCACTGCAACCTCAGGGAGATAAGACTTGCCAT
* * * *
14007447 CTTCGATCTG-TCCCACTGCAA-CTCA-TGAGGATAAGTCCTG-CTT
1 CTTCGATCTGCT-CCACTGCAACCTCAGGGA-GATAAGACTTGCCAT
* * *
14007490 AC-TC-AGTCTGCTCCACTGCAACCTCAGAGAGATAAAACCTG--A-
1 -CTTCGA-TCTGCTCCACTGCAACCTCAGGGAGATAAGACTTGCCAT
* ** * * * * *
14007532 -TGCGATCCACTCTACTGCAACTTCAGAGAGAAAAGA--T-CTATT
1 CTTCGATCTGCTCCACTGCAACCTCAGGGAGATAAGACTTGCCA-T
** * * * * ** **
14007574 ACTTTAATCTGCTCC-GTGACAACTTCAAGGAGATAGGA-TTATCGG
1 -CTTCGATCTGCTCCACTG-CAACCTCAGGGAGATAAGACTTGCCAT
* * * *
14007619 CCTCAATCTGCTCTACTGCAACCTCAGGGAGATAATA-TGTGCCAT
1 CTTCGATCTGCTCCACTGCAACCTCAGGGAGATAAGACT-TGCCAT
* * * * * *
14007664 CTTTGATCTGCCCCACTGCAACTTTAGAGG-GATAAGACCTG-CTT
1 CTTCGATCTGCTCCACTGCAACCTCAG-GGAGATAAGACTTGCCAT
* *
14007708 AC-TC-AGTTTGCTCCACTGCAACCTCAGGGAGATAAGACATG--A-
1 -CTTCGA-TCTGCTCCACTGCAACCTCAGGGAGATAAGACTTGCCAT
* ** * * *
14007750 -TGCGATCCACTCTA-TGGCAACTTCAGAGAGATAAGA--T-CCATT
1 CTTCGATCTGCTCCACT-GCAACCTCAGGGAGATAAGACTTGCCA-T
** * * * ** * ** **
14007792 ACTTTAATCCGCTCAACTACAATTTCAGGGAGATAGGA-TTATCGG
1 -CTTCGATCTGCTCCACTGCAACCTCAGGGAGATAAGACTTGCCAT
* * *
14007837 CTTCAATCTGCTCCACTGCAACCTCAAGGAGATAAGATTTGCCAT
1 CTTCGATCTGCTCCACTGCAACCTCAGGGAGATAAGACTTGCCAT
* * * * *
14007882 CTTCGATCTGCCCCACTGCAACTTCAGGGGGATAAGACCTG-CTT
1 CTTCGATCTGCTCCACTGCAACCTCAGGGAGATAAGACTTGCCAT
* * *
14007926 AC-TC-AGTCTACTCCGCTGCAACCTCAGGGAGATAAGACCTG--A-
1 -CTTCGA-TCTGCTCCACTGCAACCTCAGGGAGATAAGACTTGCCAT
* ** * * *
14007968 -TACGATCCACTCTACTGCAACTTCAGAGAGATAAGA--T-CCATT
1 CTTCGATCTGCTCCACTGCAACCTCAGGGAGATAAGACTTGCCA-T
** * ** * * ** *
14008010 ACTTTAAT-TCGCTCCACTACAATTTCAAGGAGATAGGA-TTATCAG
1 -CTTCGATCT-GCTCCACTGCAACCTCAGGGAGATAAGACTTGCCAT
* * * *
14008055 CTTCAATCTGCTCCACTGCAACCTCAGAGAGATAAGATTTGTCAT
1 CTTCGATCTGCTCCACTGCAACCTCAGGGAGATAAGACTTGCCAT
* * * * * * *
14008100 CTTTGATCTGCCCCACTGCAACTTCAGGGGGATAATACCTG-CTT
1 CTTCGATCTGCTCCACTGCAACCTCAGGGAGATAAGACTTGCCAT
* *
14008144 AC-TC-AGTCTGCTCCGCTGCAACCTCAGGGAGATAAGAC---CTA-
1 -CTTCGA-TCTGCTCCACTGCAACCTCAGGGAGATAAGACTTGCCAT
* * ** * * * *
14008185 ATGCGATCCACTCTACTGCAACTTCAGAGAGATAAGA--T-CTATT
1 CTTCGATCTGCTCCACTGCAACCTCAGGGAGATAAGACTTGCCA-T
** * * * * * * ** **
14008228 ACTTTAATCCGTTCCGCTACAACTTCAGGGAGATAGGA-TTATCGG
1 -CTTCGATCTGCTCCACTGCAACCTCAGGGAGATAAGACTTGCCAT
* * * *
14008273 CTTCAATCTGCCCCACTGCAACCTCAAGGAGATAAGATTTGCCAT
1 CTTCGATCTGCTCCACTGCAACCTCAGGGAGATAAGACTTGCCAT
* * * * * *
14008318 CTTCAATCTGCCCCACTGCAACTTCA-GGAGGATGAGACCTG-CTT
1 CTTCGATCTGCTCCACTGCAACCTCAGGGA-GATAAGACTTGCCAT
* *** *
14008362 ACTTAG-TCTGCTGTGCTGCAACCTCAGGGAGATAAGACCTG--A-
1 -CTTCGATCTGCTCCACTGCAACCTCAGGGAGATAAGACTTGCCAT
* ** * * * *
14008404 -TGCGATCCACTCTACTGCAACTTCAGAGAGATAAGA--T-CTATT
1 CTTCGATCTGCTCCACTGCAACCTCAGGGAGATAAGACTTGCCA-T
** * * * * * * *
14008446 ACTTTAATCCGCTCCGCTACAACTTCAGGGAGATAGGA-TTATCGA-
1 -CTTCGATCTGCTCCACTGCAACCTCAGGGAGATAAGACTT-GCCAT
* * * * *
14008491 CTTCAATCTGCCCCACTGCAACCTCAGAGAGATAAGATTTTCCAT
1 CTTCGATCTGCTCCACTGCAACCTCAGGGAGATAAGACTTGCCAT
* * *
14008536 CTTCGATCTGCCCCACTACAACTTCAG
1 CTTCGATCTGCTCCACTGCAACCTCAG
14008563 TAGGATAAGA
Statistics
Matches: 957, Mismatches: 282, Indels: 190
0.67 0.20 0.13
Matches are distributed among these distances:
39 5 0.01
40 8 0.01
41 156 0.16
42 6 0.01
43 27 0.03
44 507 0.53
45 240 0.25
46 6 0.01
47 2 0.00
ACGTcount: A:0.28, C:0.27, G:0.19, T:0.26
Consensus pattern (45 bp):
CTTCGATCTGCTCCACTGCAACCTCAGGGAGATAAGACTTGCCAT
Found at i:14010690 original size:18 final size:18
Alignment explanation
Indices: 14010681--14010727 Score: 76
Period size: 18 Copynumber: 2.6 Consensus size: 18
14010671 TTTCTTTTAT
*
14010681 TTTTTATTTTGATTTTGA
1 TTTTTATTTTTATTTTGA
14010699 TTTTTATTTTTATTTTGA
1 TTTTTATTTTTATTTTGA
*
14010717 TTTTGATTTTT
1 TTTTTATTTTT
14010728 CTCCTTTTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.15, C:0.00, G:0.09, T:0.77
Consensus pattern (18 bp):
TTTTTATTTTTATTTTGA
Found at i:14010721 original size:24 final size:25
Alignment explanation
Indices: 14010675--14010755 Score: 103
Period size: 24 Copynumber: 3.2 Consensus size: 25
14010665 TTCTTTTTTC
14010675 TTTTATTTTTTATTTTGATTTTGAT
1 TTTTATTTTTTATTTTGATTTTGAT
14010700 TTTTA-TTTTTATTTTGATTTTGATT
1 TTTTATTTTTTATTTTGATTTTGA-T
*
14010725 TTTCTCCTTTTTTATTTTTGA-TTTGAT
1 TTT-T-ATTTTTTA-TTTTGATTTTGAT
14010752 TTTT
1 TTTT
14010756 TTAATTGGAT
Statistics
Matches: 50, Mismatches: 1, Indels: 9
0.83 0.02 0.15
Matches are distributed among these distances:
24 18 0.36
25 9 0.18
26 2 0.04
27 4 0.08
28 11 0.22
29 6 0.12
ACGTcount: A:0.14, C:0.04, G:0.07, T:0.75
Consensus pattern (25 bp):
TTTTATTTTTTATTTTGATTTTGAT
Found at i:14010743 original size:6 final size:6
Alignment explanation
Indices: 14010675--14010727 Score: 61
Period size: 6 Copynumber: 8.7 Consensus size: 6
14010665 TTCTTTTTTC
* * * *
14010675 TTTTATT TTTTAT TTTGAT TTTGAT TTTTAT TTTTAT TTTGAT TTTGAT
1 TTTTA-T TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT
14010724 TTTT
1 TTTT
14010728 CTCCTTTTTT
Statistics
Matches: 42, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
6 37 0.88
7 5 0.12
ACGTcount: A:0.15, C:0.00, G:0.08, T:0.77
Consensus pattern (6 bp):
TTTTAT
Found at i:14017403 original size:25 final size:24
Alignment explanation
Indices: 14017375--14017427 Score: 63
Period size: 25 Copynumber: 2.1 Consensus size: 24
14017365 TTATAAATTG
*
14017375 TAATATATATTTATT-ATTAAAATAT
1 TAATATA-ATTT-TTAAATAAAATAT
14017400 TAATATAATTTTTAAAATAAAATAT
1 TAATATAATTTTT-AAATAAAATAT
14017425 TAA
1 TAA
14017428 GAATATTACT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
23 2 0.08
24 4 0.16
25 19 0.76
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (24 bp):
TAATATAATTTTTAAATAAAATAT
Found at i:14019192 original size:123 final size:120
Alignment explanation
Indices: 14018997--14019344 Score: 482
Period size: 123 Copynumber: 2.8 Consensus size: 120
14018987 TAATCTCGAG
* **
14018997 TTGAAGTTTCTGATAAAATAGTATAAAATCGCTTCTAGCAGGATGCTATTTGAGAAGAATTTGTG
1 TTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTA--A-GATGCTATTTGAGAAGAATTTGTG
14019062 AAATCGCGCCCTCGTGGACGTGCTTTTGCTACAGTAGGTCACGGAAGAAATAATCATTTTT
63 AAATCGCGCCCTCGTGGACGTGCTTTTGCTACAGTAGGTCACGGAAGAAAT-AT--TTTTT
14019123 TTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTAAGATGCTATTTGAGAAGAATTTGTGAAA
1 TTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTAAGATGCTATTTGAGAAGAATTTGTGAAA
* * * * * * *
14019188 TCGCGGCATCGT-CAGCGCGCTTTTGCTATAGTAGGTCATGTAAGAAATATTTTTT
66 TCGCGCCCTCGTGGA-CGTGCTTTTGCTACAGTAGGTCACGGAAGAAATATTTTTT
* * *
14019243 TTGACGTTTCTGAGCAAATAATATAAAATCACTTTTAGCAAGATGCTATTTGAGAAGAATTTGTG
1 TTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCT---AAGATGCTATTTGAGAAGAATTTGTG
14019308 AAATCGCGCCCTCGTGGACGTGCTTTTGCTACAGTAG
63 AAATCGCGCCCTCGTGGACGTGCTTTTGCTACAGTAG
14019345 CATGTTTGGG
Statistics
Matches: 199, Mismatches: 18, Indels: 13
0.87 0.08 0.06
Matches are distributed among these distances:
120 38 0.19
122 3 0.02
123 122 0.61
124 2 0.01
126 34 0.17
ACGTcount: A:0.30, C:0.15, G:0.22, T:0.33
Consensus pattern (120 bp):
TTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTAAGATGCTATTTGAGAAGAATTTGTGAAA
TCGCGCCCTCGTGGACGTGCTTTTGCTACAGTAGGTCACGGAAGAAATATTTTTT
Found at i:14022492 original size:61 final size:61
Alignment explanation
Indices: 14022423--14022611 Score: 146
Period size: 61 Copynumber: 3.2 Consensus size: 61
14022413 TCAAATTATA
14022423 TAAAATTATTAATTGTTAGTACCAGTCAAAACATTTTTCTAAATCTAACATTATGTGAATG
1 TAAAATTATTAATTGTTAGTACCAGTCAAAACATTTTTCTAAATCTAACATTATGTGAATG
* * ** ** * ** * *
14022484 TAAAATTATTAA--GTCA-AAAAATTGT-ATTA-ATGGTTAGTAAAAT-TATCA-AAT-T--ATG
1 TAAAATTATTAATTGTTAGTACCA--GTCAAAACAT-TTTTCT-AAATCTAACATTATGTGAATG
* * *
14022539 TAAAATTATTATTTGTTAGTACCAGTCAAAACATTTTTCCAGATCTAACATTATGTGAATG
1 TAAAATTATTAATTGTTAGTACCAGTCAAAACATTTTTCTAAATCTAACATTATGTGAATG
14022600 TAAAATTATTAA
1 TAAAATTATTAA
14022612 GTCAAAAAAT
Statistics
Matches: 88, Mismatches: 26, Indels: 28
0.62 0.18 0.20
Matches are distributed among these distances:
55 14 0.16
56 5 0.06
57 12 0.14
58 12 0.14
59 13 0.15
60 6 0.07
61 26 0.30
ACGTcount: A:0.42, C:0.09, G:0.10, T:0.39
Consensus pattern (61 bp):
TAAAATTATTAATTGTTAGTACCAGTCAAAACATTTTTCTAAATCTAACATTATGTGAATG
Found at i:14022585 original size:116 final size:116
Alignment explanation
Indices: 14022374--14022727 Score: 636
Period size: 116 Copynumber: 3.1 Consensus size: 116
14022364 TGATAAATTG
* * *
14022374 TATTAAGTCAATAAATTGTATTAATGGTTAGTAAAATTATCAAATTATATAAAATTATTAATTGT
1 TATTAAGTCAAAAAATTGTATTAATGGTTAGTAAAATTATCAAATTATGTAAAATTATTATTTGT
*
14022439 TAGTACCAGTCAAAACATTTTTCTAAATCTAACATTATGTGAATGTAAAAT
66 TAGTACCAGTCAAAACATTTTTCCAAATCTAACATTATGTGAATGTAAAAT
14022490 TATTAAGTCAAAAAATTGTATTAATGGTTAGTAAAATTATCAAATTATGTAAAATTATTATTTGT
1 TATTAAGTCAAAAAATTGTATTAATGGTTAGTAAAATTATCAAATTATGTAAAATTATTATTTGT
*
14022555 TAGTACCAGTCAAAACATTTTTCCAGATCTAACATTATGTGAATGTAAAAT
66 TAGTACCAGTCAAAACATTTTTCCAAATCTAACATTATGTGAATGTAAAAT
14022606 TATTAAGTCAAAAAATTGTATTAATGGTTAGTAAAATTATCAAATTATGTAAAATTATTATTTGT
1 TATTAAGTCAAAAAATTGTATTAATGGTTAGTAAAATTATCAAATTATGTAAAATTATTATTTGT
* * *
14022671 TAGTACCAGTCAAAACATTTTTCCAAATCTAACATAACGTGAATGTAACAT
66 TAGTACCAGTCAAAACATTTTTCCAAATCTAACATTATGTGAATGTAAAAT
14022722 TATTAA
1 TATTAA
14022728 CTTAGTTTAG
Statistics
Matches: 229, Mismatches: 9, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
116 229 1.00
ACGTcount: A:0.42, C:0.09, G:0.10, T:0.39
Consensus pattern (116 bp):
TATTAAGTCAAAAAATTGTATTAATGGTTAGTAAAATTATCAAATTATGTAAAATTATTATTTGT
TAGTACCAGTCAAAACATTTTTCCAAATCTAACATTATGTGAATGTAAAAT
Found at i:14022881 original size:18 final size:21
Alignment explanation
Indices: 14022814--14022890 Score: 100
Period size: 23 Copynumber: 3.4 Consensus size: 21
14022804 AGTTAAGGGT
14022814 TTAGGGTTTTTAATTAAATTAGG
1 TTAGGGTTTTTAATTAAA-TA-G
14022837 TTAGGGTTTTTAATTAAATTATG
1 TTAGGGTTTTTAATTAAA-TA-G
14022860 TTAGGGTTTTTAATTAAATTAGG
1 TTAGGGTTTTTAATTAAA-TA-G
14022883 TTAGGGTT
1 TTAGGGTT
14022891 GGGGTTTTTA
Statistics
Matches: 52, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 52 1.00
ACGTcount: A:0.29, C:0.00, G:0.22, T:0.49
Consensus pattern (21 bp):
TTAGGGTTTTTAATTAAATAG
Found at i:14022895 original size:29 final size:29
Alignment explanation
Indices: 14022809--14023058 Score: 320
Period size: 29 Copynumber: 9.2 Consensus size: 29
14022799 TTTCAAGTTA
14022809 AGGGTTTAGGGTTTTTAATT-AA--A--TT
1 AGGG-TTAGGGTTTTTAATTAAATTAGGTT
14022834 A-GGTTAGGGTTTTTAATTAAATTA---T
1 AGGGTTAGGGTTTTTAATTAAATTAGGTT
14022859 ---GTTAGGGTTTTTAATTAAATTAGGTT
1 AGGGTTAGGGTTTTTAATTAAATTAGGTT
*
14022885 AGGGTTGGGGTTTTTAATTAAATTAGGTT
1 AGGGTTAGGGTTTTTAATTAAATTAGGTT
*
14022914 A--G--A--TTTTTTAATTAAATTAGGTT
1 AGGGTTAGGGTTTTTAATTAAATTAGGTT
*
14022937 AAGGTTAGGGTTTTTAATTAAATTAGGTT
1 AGGGTTAGGGTTTTTAATTAAATTAGGTT
*
14022966 AAGGTTAGGGTTTTTAATTAAATTAGGTT
1 AGGGTTAGGGTTTTTAATTAAATTAGGTT
14022995 AGGGTTAGGGTTTTTAATTAAATTAGGTT
1 AGGGTTAGGGTTTTTAATTAAATTAGGTT
*
14023024 AGGGTTAGGGTTTTTAATTAATTTAGGTT
1 AGGGTTAGGGTTTTTAATTAAATTAGGTT
14023053 AGGGTT
1 AGGGTT
14023059 TAGTGTTAAA
Statistics
Matches: 204, Mismatches: 6, Indels: 26
0.86 0.03 0.11
Matches are distributed among these distances:
23 57 0.28
24 4 0.02
25 3 0.01
26 2 0.01
27 2 0.01
29 136 0.67
ACGTcount: A:0.28, C:0.00, G:0.25, T:0.47
Consensus pattern (29 bp):
AGGGTTAGGGTTTTTAATTAAATTAGGTT
Found at i:14022901 original size:52 final size:52
Alignment explanation
Indices: 14022734--14023058 Score: 324
Period size: 58 Copynumber: 6.0 Consensus size: 52
14022724 TTAACTTAGT
*
14022734 TTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGGTTAAGG
1 TTAGGGTTTTTAATTAAATTA---T---GTTAGGGTTTTTAATTAAATTAGGTTAGGG
* ***
14022792 TTAGGGTTTTCAAGTT-AAGGGT-TTAGGGTTTTTAATT-AA--A--TTA-GG
1 TTAGGGTTTTTAA-TTAAATTATGTTAGGGTTTTTAATTAAATTAGGTTAGGG
14022837 TTAGGGTTTTTAATTAAATTATGTTAGGGTTTTTAATTAAATTAGGTTAGGG
1 TTAGGGTTTTTAATTAAATTATGTTAGGGTTTTTAATTAAATTAGGTTAGGG
* * ** *
14022889 TTGGGGTTTTTAATTAAATTAGGTTAGATTTTTTAATTAAATTAGGTTAAGG
1 TTAGGGTTTTTAATTAAATTATGTTAGGGTTTTTAATTAAATTAGGTTAGGG
14022941 TTAGGGTTTTTAATTAAATTAGGTTAAGGTTAGGGTTTTTAATTAAATTAGGTTAGGG
1 TTAGGGTTTTTAATTAAATTA---T---GTTAGGGTTTTTAATTAAATTAGGTTAGGG
*
14022999 TTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAATTTAGGTTAGGG
1 TTAGGGTTTTTAATTAAATTA---T---GTTAGGGTTTTTAATTAAATTAGGTTAGGG
14023057 TT
1 TT
14023059 TAGTGTTAAA
Statistics
Matches: 232, Mismatches: 20, Indels: 30
0.82 0.07 0.11
Matches are distributed among these distances:
44 2 0.01
45 17 0.07
46 18 0.08
47 2 0.01
48 1 0.00
49 1 0.00
50 2 0.01
51 18 0.08
52 69 0.30
55 1 0.00
58 99 0.43
59 2 0.01
ACGTcount: A:0.28, C:0.00, G:0.25, T:0.46
Consensus pattern (52 bp):
TTAGGGTTTTTAATTAAATTATGTTAGGGTTTTTAATTAAATTAGGTTAGGG
Done.