Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: 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: 67973905
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.32
Warning! 1760000 characters in sequence are not A, C, G, or T
File 50 of 228
Found at i:15085583 original size:21 final size:21
Alignment explanation
Indices: 15085568--15085608 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
15085558 CTTAACACAT
*
15085568 AACCTTTAAACCTTAAACCCC
1 AACCTTTAAACCTTAAACCAC
*
15085589 AACCTTTAAACCATAAACCA
1 AACCTTTAAACCTTAAACCA
15085609 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:15085878 original size:115 final size:113
Alignment explanation
Indices: 15085667--15086206 Score: 462
Period size: 115 Copynumber: 4.7 Consensus size: 113
15085657 ATGCATGGTT
* * * * * **
15085667 AAGACCAAAACTCTGCATTTTGGTTAAGATATTTTCCGGCGCTTCTCAAAAAGCGCCGCTAATAC
1 AAGACAAAAACTCTGCGTTTTGGTTAACATATTTTGCGGCGCTTTTTGAAAAGCGCCGCTAATAC
*
15085732 TATGCTTTAGCGGCGATTTCTCG-TGGACGCCACTAATTCCAGTATACATC
66 TATGCTTTAGCGGCG-TTTCCCGAT-G-CGCCACTAATTCCAGTATACATC
** * * * * *
15085782 AAGACTTAAACGCTGCGTTTTTGTTAATATATTTTGCGGCGCTTTTTGAAAAGCGCCGTTAATAG
1 AAGACAAAAACTCTGCGTTTTGGTTAACATATTTTGCGGCGCTTTTTGAAAAGCGCCGCTAATAC
* * * * *
15085847 TATGCTTTAGCGGCGTTCTCCCAGAAGCGCCACTAATTCTAATATACCTG
66 TATGCTTTAGCGGCGTT-TCCC-GATGCGCCACTAATTCCAGTATACATC
* * * **
15085897 ATGA-AAAAACTCTGCGTTTTGGTGAGCATATTTTGCGGCGCTTTTTGCCAAGCGCCGCTAATAC
1 AAGACAAAAACTCTGCGTTTTGGTTAACATATTTTGCGGCGCTTTTTGAAAAGCGCCGCTAATAC
* * **** * ** *
15085961 TATGATTTAGCGGCATTTTTTAATATTCGCCACTAATAGCTGTATACATC
66 TATGCTTTAGCGGC--GTTTCCCGATGCGCCACTAATTCCAGTATACATC
* * *
15086011 AAGACAAAAACGT-TGCGTTTTGGTTACCAAATTTTGCGGCGCTTCTCTG-AAAGCGCCGCTAAT
1 AAGACAAAAAC-TCTGCGTTTTGGTTAACATATTTTGCGGCGCTT-TTTGAAAAGCGCCGCTAAT
* * ** * *
15086074 AGTATGCCTTAGCGGCGTGTTCCCTTTGCGCCACTAATTCTAGTATACCTC
64 ACTATGCTTTAGCGGCGT-TTCCCGATGCGCCACTAATTCCAGTATACATC
* * ** *** *
15086125 AAGAC-CAAACTCTGCGTTTTGGTTAAGATATTTACCGGCGC-TTCACACAAAACGCCGCTAATA
1 AAGACAAAAACTCTGCGTTTTGGTTAACATATTTTGCGGCGCTTTTTGA-AAAGCGCCGCTAATA
*
15086188 TTATGCTTTAGCGGCGTTT
65 CTATGCTTTAGCGGCGTTT
15086207 TCCCTTAAAC
Statistics
Matches: 337, Mismatches: 76, Indels: 27
0.77 0.17 0.06
Matches are distributed among these distances:
111 2 0.01
112 4 0.01
113 58 0.17
114 111 0.33
115 154 0.46
116 8 0.02
ACGTcount: A:0.25, C:0.23, G:0.20, T:0.32
Consensus pattern (113 bp):
AAGACAAAAACTCTGCGTTTTGGTTAACATATTTTGCGGCGCTTTTTGAAAAGCGCCGCTAATAC
TATGCTTTAGCGGCGTTTCCCGATGCGCCACTAATTCCAGTATACATC
Found at i:15086076 original size:229 final size:227
Alignment explanation
Indices: 15085673--15086208 Score: 603
Period size: 229 Copynumber: 2.3 Consensus size: 227
15085663 GGTTAAGACC
* *
15085673 AAAACTCTGCATTTTGGTTAAGATATTTTCCGGCGCTTCTCAAAAAGCGCCGCTAATACTATGCT
1 AAAACTCTGCGTTTTGG-TAAGATATTTTCCGGCGCTTCTCAAAAAGCGCCGCTAATACTATGAT
** * * **
15085738 TTAGCGGCGATTTCTCGTGGACGCCACTAATTCCAGTATACATCAAGACTTAAACGCTGCGTTTT
65 TTAGCGGCGATTTCTAATAGACGCCACTAATACCAGTATACATCAAGACAAAAACGCTGCGTTTT
* * * * * *
15085803 TGTTAATATATTTTGCGGCGCTTTTTGAAAAGCGCCGTTAATAGTATGCTTTAGCGGCGT-TCTC
130 GGTTAACAAATTTTGCGGCGCTTTCTGAAAAGCGCCGCTAATAGTATGCCTTAGCGGCGTGT-TC
* *
15085867 CCAGAAGCGCCACTAATTCTAATATACCTGATGAA
194 CC-GAAGCGCCACTAATTCTAATATACCTCAAGAA
* * * ****
15085902 AAAACTCTGCGTTTTGGTGAGCATATTTTGCGGCGCTTTTTGCCAAGCGCCGCTAATACTATGAT
1 AAAACTCTGCGTTTTGGTAAG-ATATTTTCCGGCGCTTCTCAAAAAGCGCCGCTAATACTATGAT
* ** * * *
15085967 TTAGCGGC-ATTTTTTAATATTCGCCACTAATAGCTGTATACATCAAGACAAAAACGTTGCGTTT
65 TTAGCGGCGA-TTTCTAATAGACGCCACTAATACCAGTATACATCAAGACAAAAACGCTGCGTTT
*
15086031 TGGTTACCAAATTTTGCGGCGCTTCTCTG-AAAGCGCCGCTAATAGTATGCCTTAGCGGCGTGTT
129 TGGTTAACAAATTTTGCGGCGCTT-TCTGAAAAGCGCCGCTAATAGTATGCCTTAGCGGCGTGTT
*** * *
15086095 CCCTTTGCGCCACTAATTCTAGTATACCTCAAGAC
193 CCCGAAGCGCCACTAATTCTAATATACCTCAAGAA
* * * * *
15086130 CAAACTCTGCGTTTTGGTTAAGATATTTACCGGCGCTTCACACAAAA-CGCCGCTAATATTATGC
1 AAAACTCTGCGTTTTGG-TAAGATATTTTCCGGCGCTTCTCA-AAAAGCGCCGCTAATACTATGA
*
15086194 TTTAGCGGCGTTTTC
64 TTTAGCGGCGATTTC
15086209 CCTTAAACAC
Statistics
Matches: 251, Mismatches: 49, Indels: 15
0.80 0.16 0.05
Matches are distributed among these distances:
228 86 0.34
229 161 0.64
230 4 0.02
ACGTcount: A:0.25, C:0.23, G:0.20, T:0.32
Consensus pattern (227 bp):
AAAACTCTGCGTTTTGGTAAGATATTTTCCGGCGCTTCTCAAAAAGCGCCGCTAATACTATGATT
TAGCGGCGATTTCTAATAGACGCCACTAATACCAGTATACATCAAGACAAAAACGCTGCGTTTTG
GTTAACAAATTTTGCGGCGCTTTCTGAAAAGCGCCGCTAATAGTATGCCTTAGCGGCGTGTTCCC
GAAGCGCCACTAATTCTAATATACCTCAAGAA
Found at i:15086263 original size:228 final size:226
Alignment explanation
Indices: 15085667--15086284 Score: 597
Period size: 229 Copynumber: 2.7 Consensus size: 226
15085657 ATGCATGGTT
*
15085667 AAGACCAAAACTCTGCATTTTGGTTAAGATATTTTCCGGCGCTTCTCA-AAAAGCGCCGCTAATA
1 AAGACC-AAACTCTGCGTTTTGGTTAAGATATTTTCCGGCGCTTCTCACAAAA-CGCCGCTAATA
* * ** * **
15085731 CTATGCTTTAGCGGCGATTTCTCGTGGACGCCACTAATTCCAGT-ATACATCAAGACTTAAACGC
64 CTATGCTTTAGCGGCGTTTTC-CTTAAACGCCACTAA---CTGTAATACATCAAGACAAAAACGC
* * * * *
15085795 TGCGTTTTTGTTAATATATTTTGCGGCGCTTTTTGAAAAGCGCCGTTAATAGTATGCTTTAGCGG
125 TGCGTTTTGGTTAACATATTTTGCGGCGCTTTCTGAAAAGCGCCGCTAATAGTATGCCTTAGCGG
*
15085860 CGTTCTCCCAGAAGCGCCACTAATTCTAATATACCTG
190 CGTTCTCCCAGAAGCGCCACTAATTCTAATATACCTC
* ** * * * ** * *
15085897 ATGAAAAAACTCTGCGTTTTGG-TGAGCATATTTTGCGGCGCTTTTTGCCAAGCGCCGCTAATAC
1 AAGACCAAACTCTGCGTTTTGGTTAAG-ATATTTTCCGGCGCTTCTCACAAAACGCCGCTAATAC
* *
15085961 TATGATTTAGCGGCATTTT--TTAATATTCGCCACTAATAGCTGT-ATACATCAAGACAAAAACG
65 TATGCTTTAGCGGCGTTTTCCTTAA-A--CGCCACT-A-A-CTGTAATACATCAAGACAAAAACG
* * *
15086023 TTGCGTTTTGGTTACCAAATTTTGCGGCGCTTCTCTG-AAAGCGCCGCTAATAGTATGCCTTAGC
124 CTGCGTTTTGGTTAACATATTTTGCGGCGCTT-TCTGAAAAGCGCCGCTAATAGTATGCCTTAGC
*** *
15086087 GGCGTGT-TCCC-TTTGCGCCACTAATTCTAGTATACCTC
188 GGCGT-TCTCCCAGAAGCGCCACTAATTCTAATATACCTC
* * *
15086125 AAGACCAAACTCTGCGTTTTGGTTAAGATATTTACCGGCGCTTCACACAAAACGCCGCTAATATT
1 AAGACCAAACTCTGCGTTTTGGTTAAGATATTTTCCGGCGCTTCTCACAAAACGCCGCTAATACT
* * * * *
15086190 ATGCTTTAGCGGCGTTTTCCCTTAAACACCACTAACTGTAACATACACCAAAACCAAAACGGTGC
66 ATGCTTTAGCGGCGTTTT-CCTTAAACGCCACTAACTGT-A-ATACATCAAGACAAAAACGCTGC
** ** *
15086255 ACTTTGGTTAGGATATTTTGCGGCGTTTTC
128 GTTTTGGTTAACATATTTTGCGGCGCTTTC
15086285 CCATAAGCAC
Statistics
Matches: 312, Mismatches: 60, Indels: 35
0.77 0.15 0.09
Matches are distributed among these distances:
225 4 0.01
226 2 0.01
227 4 0.01
228 136 0.44
229 150 0.48
230 11 0.04
231 5 0.02
ACGTcount: A:0.26, C:0.23, G:0.19, T:0.32
Consensus pattern (226 bp):
AAGACCAAACTCTGCGTTTTGGTTAAGATATTTTCCGGCGCTTCTCACAAAACGCCGCTAATACT
ATGCTTTAGCGGCGTTTTCCTTAAACGCCACTAACTGTAATACATCAAGACAAAAACGCTGCGTT
TTGGTTAACATATTTTGCGGCGCTTTCTGAAAAGCGCCGCTAATAGTATGCCTTAGCGGCGTTCT
CCCAGAAGCGCCACTAATTCTAATATACCTC
Found at i:15087145 original size:16 final size:16
Alignment explanation
Indices: 15087093--15087145 Score: 79
Period size: 16 Copynumber: 3.3 Consensus size: 16
15087083 TTGGTTCGCT
*
15087093 GTAATGGAATAGAGGT
1 GTAATGGAATAGAGGC
*
15087109 GTAATGGAATAGATGC
1 GTAATGGAATAGAGGC
15087125 GTAATGGAATAGAGGC
1 GTAATGGAATAGAGGC
*
15087141 ATAAT
1 GTAAT
15087146 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:15087206 original size:44 final size:46
Alignment explanation
Indices: 15087131--15087222 Score: 152
Period size: 44 Copynumber: 2.0 Consensus size: 46
15087121 ATGCGTAATG
*
15087131 GAATAGAGGCATAATAGGTAATTCTTTTGTTTGGTTGAATGGAATA
1 GAATAGAGGCATAATAGGTAATTCTTGTGTTTGGTTGAATGGAATA
*
15087177 GAATAGAGGCGTAAT-GGT-ATTCTTGTGTTTGGTTGAATGGAATA
1 GAATAGAGGCATAATAGGTAATTCTTGTGTTTGGTTGAATGGAATA
15087221 GA
1 GA
15087223 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:15087220 original size:39 final size:41
Alignment explanation
Indices: 15087127--15087232 Score: 126
Period size: 44 Copynumber: 2.5 Consensus size: 41
15087117 ATAGATGCGT
* *
15087127 AATGGAATAGAGGCATAATAGGTAATTCTTTTGTTTGGTTG
1 AATGGAATAGAGGCGTAATAGGTAATTCTTGTGTTTGGTTG
15087168 AATGGAATAGAATAGAGGCGTAAT-GGT-ATTCTTGTGTTTGGTTG
1 AAT-G----GAATAGAGGCGTAATAGGTAATTCTTGTGTTTGGTTG
*
15087212 AATGGAATAGAGGTGTAATAG
1 AATGGAATAGAGGCGTAATAG
15087233 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:15087431 original size:18 final size:17
Alignment explanation
Indices: 15087379--15087431 Score: 79
Period size: 18 Copynumber: 3.0 Consensus size: 17
15087369 TTATTATTAA
15087379 ATATAATTTAATAAAAAT
1 ATATAATTTAAT-AAAAT
15087397 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
*
15087414 ATATGAATTTACTAAAAT
1 ATAT-AATTTAATAAAAT
15087432 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:15087553 original size:120 final size:120
Alignment explanation
Indices: 15087413--15087728 Score: 587
Period size: 120 Copynumber: 2.6 Consensus size: 120
15087403 TTTAATAAAA
* *
15087413 TATATGAATTTACTAAAATCATAATATATAATACTATAAAAAATAAGTTAAAATAATTATTATTA
1 TATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAATTTAAAATAATTATTATTA
15087478 AATATAATTTAATAAAAATATATAATTTGATAAAATTCTTAGTATTAAATATTCT
66 AATATAATTTAATAAAAATATATAATTTGATAAAATTCTTAGTATTAAATATTCT
*
15087533 TATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAATTTAAAATAATAATTATTA
1 TATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAATTTAAAATAATTATTATTA
* *
15087598 AATATAGTATAATAAAAATATATAATTTGATAAAATTCTTAGTATTAAATATTCT
66 AATATAATTTAATAAAAATATATAATTTGATAAAATTCTTAGTATTAAATATTCT
15087653 TATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAATTTAAAATAATTATTATTA
1 TATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAATTTAAAATAATTATTATTA
15087718 AATATAATTTA
66 AATATAATTTA
15087729 TAATCTGCTT
Statistics
Matches: 188, Mismatches: 8, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
120 188 1.00
ACGTcount: A:0.52, C:0.04, G:0.03, T:0.41
Consensus pattern (120 bp):
TATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAATTTAAAATAATTATTATTA
AATATAATTTAATAAAAATATATAATTTGATAAAATTCTTAGTATTAAATATTCT
Found at i:15087562 original size:61 final size:61
Alignment explanation
Indices: 15087494--15087684 Score: 221
Period size: 61 Copynumber: 3.2 Consensus size: 61
15087484 ATTTAATAAA
15087494 AATATATAATTTGATAAAATTCTTAGTATTAAATATTCTTATATGAATTTACTAAAATCAT
1 AATATATAATTTGATAAAATTCTTAGTATTAAATATTCTTATATGAATTTACTAAAATCAT
* * * ** * * * * * *
15087555 AATATATAATACT-ATAAAA-T-ATAAT-TTAAAATAATAATTAT-TAAATATAGTATAATAAA
1 AATATATAAT-TTGATAAAATTCTTAGTATT-AAAT-ATTCTTATATGAATTTACTAAAATCAT
15087614 AATATATAATTTGATAAAATTCTTAGTATTAAATATTCTTATATGAATTTACTAAAATCAT
1 AATATATAATTTGATAAAATTCTTAGTATTAAATATTCTTATATGAATTTACTAAAATCAT
15087675 AATATATAAT
1 AATATATAAT
15087685 ACTATAAAAT
Statistics
Matches: 100, Mismatches: 22, Indels: 16
0.72 0.16 0.12
Matches are distributed among these distances:
58 3 0.03
59 35 0.35
60 14 0.14
61 45 0.45
62 3 0.03
ACGTcount: A:0.50, C:0.05, G:0.04, T:0.42
Consensus pattern (61 bp):
AATATATAATTTGATAAAATTCTTAGTATTAAATATTCTTATATGAATTTACTAAAATCAT
Found at i:15089793 original size:41 final size:41
Alignment explanation
Indices: 15089747--15089860 Score: 176
Period size: 41 Copynumber: 2.8 Consensus size: 41
15089737 TATATATATA
* *
15089747 TCAGATCACCGACACTTAGCCTGCTAGGTTTATAACCTGAT
1 TCAGATCACCGGCACTTAGCCTGCTAGGCTTATAACCTGAT
*
15089788 TCAGATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGAT
1 TCAGATCACCGGCACTTAGCCTGCTAGGCTTATAACCTGAT
*
15089829 TCCA-ATCACCGGCACTTAGCCTGCTAGACTTA
1 T-CAGATCACCGGCACTTAGCCTGCTAGGCTTA
15089861 AAGTCTGAAT
Statistics
Matches: 68, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
41 66 0.97
42 2 0.03
ACGTcount: A:0.25, C:0.30, G:0.18, T:0.27
Consensus pattern (41 bp):
TCAGATCACCGGCACTTAGCCTGCTAGGCTTATAACCTGAT
Found at i:15089879 original size:41 final size:40
Alignment explanation
Indices: 15089751--15089896 Score: 154
Period size: 41 Copynumber: 3.6 Consensus size: 40
15089741 TATATATCAG
* **
15089751 ATCACCGACACTTAGCCTGCTAGGTTTATAA-CCTGATTCA
1 ATCACCGGCACTTAGCCTGCTAGACTTA-AAGCCTGATTCA
* *
15089791 GATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCCA
1 -ATCACCGGCACTTAGCCTGCTAGACTTAAAGCCTGATT-CA
*
15089833 ATCACCGGCACTTAGCCTGCTAGACTTAAAGTCTGAATT-A
1 ATCACCGGCACTTAGCCTGCTAGACTTAAAGCCTG-ATTCA
*
15089873 TTTCACCGGC-CTTAAGCCTGCTAG
1 -ATCACCGGCACTT-AGCCTGCTAG
15089897 GTTTTAAACC
Statistics
Matches: 93, Mismatches: 7, Indels: 10
0.85 0.06 0.09
Matches are distributed among these distances:
40 5 0.05
41 83 0.89
42 5 0.05
ACGTcount: A:0.25, C:0.29, G:0.18, T:0.28
Consensus pattern (40 bp):
ATCACCGGCACTTAGCCTGCTAGACTTAAAGCCTGATTCA
Found at i:15098678 original size:50 final size:50
Alignment explanation
Indices: 15098599--15098697 Score: 126
Period size: 50 Copynumber: 2.0 Consensus size: 50
15098589 ACCTTATTCT
* ** * *
15098599 AATCAATGTCAAATAGAAGGAGAGAAGTTCTTTACGGATTCTACTTGTAC
1 AATCAATATCAAATAGAAAAAGAGAAGTTCTATACAGATTCTACTTGTAC
* * *
15098649 AATCAATATCAAATAGAAAAAGAGTAGTTCTATACATATTTTACTTGTA
1 AATCAATATCAAATAGAAAAAGAGAAGTTCTATACAGATTCTACTTGTA
15098698 TTTTATTTTA
Statistics
Matches: 41, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
50 41 1.00
ACGTcount: A:0.40, C:0.12, G:0.15, T:0.32
Consensus pattern (50 bp):
AATCAATATCAAATAGAAAAAGAGAAGTTCTATACAGATTCTACTTGTAC
Found at i:15098706 original size:5 final size:5
Alignment explanation
Indices: 15098685--15098719 Score: 52
Period size: 5 Copynumber: 6.8 Consensus size: 5
15098675 GTTCTATACA
*
15098685 TATTT TACTTG TATTT TATTT TATTT TATTT TATT
1 TATTT TA-TTT TATTT TATTT TATTT TATTT TATT
15098720 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:15099767 original size:22 final size:22
Alignment explanation
Indices: 15099741--15099785 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
15099731 TCTCTCTCCT
15099741 TCATCTTTGGCTACTATTAACA
1 TCATCTTTGGCTACTATTAACA
15099763 TCATCTTTGGCTACTATTAACA
1 TCATCTTTGGCTACTATTAACA
15099785 T
1 T
15099786 GTCATCAACA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.27, C:0.22, G:0.09, T:0.42
Consensus pattern (22 bp):
TCATCTTTGGCTACTATTAACA
Found at i:15101665 original size:27 final size:27
Alignment explanation
Indices: 15101631--15101933 Score: 247
Period size: 27 Copynumber: 11.3 Consensus size: 27
15101621 ATACCCCAAA
15101631 GGGTAAAATGACCAAAATACCCTCGAT
1 GGGTAAAATGACCAAAATACCCTCGAT
* *
15101658 GGGTAAAATGATCGAAATACCCTCGAT
1 GGGTAAAATGACCAAAATACCCTCGAT
* * * ** *
15101685 GGGTAGAATGATCGAAATACCCTTAAA
1 GGGTAAAATGACCAAAATACCCTCGAT
*
15101712 GGGTAAAATGACCGAAATACCCTCGAT
1 GGGTAAAATGACCAAAATACCCTCGAT
* ** *
15101739 GGGTAGAATGACCAAAATACCCTTAAA
1 GGGTAAAATGACCAAAATACCCTCGAT
* **
15101766 GGGTAAAATAACTGAAATACCCTCGAT
1 GGGTAAAATGACCAAAATACCCTCGAT
* *
15101793 GGATAGAATGACCAAAATACCCTCGAT
1 GGGTAAAATGACCAAAATACCCTCGAT
* * *
15101820 GGGTAAAATAACTAAAATACCC-CCAT
1 GGGTAAAATGACCAAAATACCCTCGAT
* ** *
15101846 AAGGTAAAATGACCTTAATGCCC-CTG-T
1 -GGGTAAAATGACCAAAATACCCTC-GAT
* ** *
15101873 AGGGTAAAATAACCGTAATACCCCTCTA-
1 -GGGTAAAATGACCAAAATA-CCCTCGAT
* * *
15101901 GGGTAAAATGACCATAATGCCCTTG-T
1 GGGTAAAATGACCAAAATACCCTCGAT
15101927 GGGTAAA
1 GGGTAAA
15101934 TAACTATTTT
Statistics
Matches: 220, Mismatches: 50, Indels: 13
0.78 0.18 0.05
Matches are distributed among these distances:
26 14 0.06
27 202 0.92
28 3 0.01
29 1 0.00
ACGTcount: A:0.39, C:0.20, G:0.19, T:0.21
Consensus pattern (27 bp):
GGGTAAAATGACCAAAATACCCTCGAT
Found at i:15101703 original size:54 final size:54
Alignment explanation
Indices: 15101617--15101841 Score: 276
Period size: 54 Copynumber: 4.2 Consensus size: 54
15101607 ATAACTGAGC
* * * * * *
15101617 CGAAATACCC-CAAAGGGTAAAATGACCAAAATACCCTCGATGGGTAAAATGAT
1 CGAAATACCCTCGATGGGTAGAATGACCAAAATACCCTCAAAGGGTAAAATGAA
* * * *
15101670 CGAAATACCCTCGATGGGTAGAATGATCGAAATACCCTTAAAGGGTAAAATGAC
1 CGAAATACCCTCGATGGGTAGAATGACCAAAATACCCTCAAAGGGTAAAATGAA
*
15101724 CGAAATACCCTCGATGGGTAGAATGACCAAAATACCCTTAAAGGGTAAAAT-AA
1 CGAAATACCCTCGATGGGTAGAATGACCAAAATACCCTCAAAGGGTAAAATGAA
* * *
15101777 CTGAAATACCCTCGATGGATAGAATGACCAAAATACCCTCGATGGGTAAAAT-AA
1 C-GAAATACCCTCGATGGGTAGAATGACCAAAATACCCTCAAAGGGTAAAATGAA
*
15101831 CTAAAATACCC
1 C-GAAATACCC
15101842 CCATAAGGTA
Statistics
Matches: 153, Mismatches: 17, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
53 12 0.08
54 141 0.92
ACGTcount: A:0.42, C:0.20, G:0.19, T:0.19
Consensus pattern (54 bp):
CGAAATACCCTCGATGGGTAGAATGACCAAAATACCCTCAAAGGGTAAAATGAA
Found at i:15101757 original size:81 final size:80
Alignment explanation
Indices: 15101617--15101855 Score: 284
Period size: 81 Copynumber: 3.0 Consensus size: 80
15101607 ATAACTGAGC
* *
15101617 CGAAATACCC-CAAAGGGTAAAATGACCAAAATACCCTCGATGGGTAAAATGATCGAAATACCCT
1 CGAAATACCCTCAAAGGGTAAAATGACCAAAATACCCTCGATGGGTAAAATGACCAAAATACCCT
* * * *
15101681 CGATGGGTAGAATGAT
66 CAAAGGGTAAAAT-AA
* * *
15101697 CGAAATACCCTTAAAGGGTAAAATGACCGAAATACCCTCGATGGGTAGAATGACCAAAATACCCT
1 CGAAATACCCTCAAAGGGTAAAATGACCAAAATACCCTCGATGGGTAAAATGACCAAAATACCCT
*
15101762 TAAAGGGTAAAATAA
66 CAAAGGGTAAAATAA
* * * * * *
15101777 CTGAAATACCCTCGATGGATAGAATGACCAAAATACCCTCGATGGGTAAAATAACTAAAATACCC
1 C-GAAATACCCTCAAAGGGTAAAATGACCAAAATACCCTCGATGGGTAAAATGACCAAAATACCC
*
15101842 CCATAA-GGTAAAAT
65 TCA-AAGGGTAAAAT
15101856 GACCTTAATG
Statistics
Matches: 135, Mismatches: 21, Indels: 5
0.84 0.13 0.03
Matches are distributed among these distances:
80 12 0.09
81 121 0.90
82 2 0.01
ACGTcount: A:0.42, C:0.20, G:0.18, T:0.19
Consensus pattern (80 bp):
CGAAATACCCTCAAAGGGTAAAATGACCAAAATACCCTCGATGGGTAAAATGACCAAAATACCCT
CAAAGGGTAAAATAA
Found at i:15102010 original size:24 final size:24
Alignment explanation
Indices: 15101968--15102040 Score: 96
Period size: 24 Copynumber: 3.1 Consensus size: 24
15101958 AAATGATTAT
* *
15101968 TTTGTCTGTG-GTTAAATGACTGA
1 TTTGTCTGTGATTTGAATGACTGA
*
15101991 TTTGTCTGTG-TTTGGTATGACTGA
1 TTTGTCTGTGATTT-GAATGACTGA
15102015 TTTGTCTGTGATTTGAATGACTGA
1 TTTGTCTGTGATTTGAATGACTGA
15102039 TT
1 TT
15102041 CTGAGCATGG
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
23 12 0.27
24 29 0.66
25 3 0.07
ACGTcount: A:0.18, C:0.08, G:0.26, T:0.48
Consensus pattern (24 bp):
TTTGTCTGTGATTTGAATGACTGA
Found at i:15102143 original size:27 final size:27
Alignment explanation
Indices: 15102112--15102168 Score: 80
Period size: 27 Copynumber: 2.1 Consensus size: 27
15102102 AGTATTGTAT
*
15102112 TGGTGGCTCTGCCACA-ATCACTGTTAC
1 TGGTGGCTCTGCCACATAT-ACTATTAC
*
15102139 TGGTGGCTTTGCCACATATACTATTAC
1 TGGTGGCTCTGCCACATATACTATTAC
15102166 TGG
1 TGG
15102169 CAACTTTACT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
27 25 0.93
28 2 0.07
ACGTcount: A:0.19, C:0.25, G:0.23, T:0.33
Consensus pattern (27 bp):
TGGTGGCTCTGCCACATATACTATTAC
Found at i:15102194 original size:26 final size:26
Alignment explanation
Indices: 15102156--15102209 Score: 81
Period size: 26 Copynumber: 2.1 Consensus size: 26
15102146 TTTGCCACAT
15102156 ATACTATTACTGGCAACTTTACTGCG
1 ATACTATTACTGGCAACTTTACTGCG
* * *
15102182 ATACTGTTGCTGGCAGCTTTACTGCG
1 ATACTATTACTGGCAACTTTACTGCG
15102208 AT
1 AT
15102210 GCTACTGATG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.22, C:0.22, G:0.20, T:0.35
Consensus pattern (26 bp):
ATACTATTACTGGCAACTTTACTGCG
Found at i:15102221 original size:26 final size:26
Alignment explanation
Indices: 15102166--15102221 Score: 67
Period size: 26 Copynumber: 2.2 Consensus size: 26
15102156 ATACTATTAC
** *
15102166 TGGCAACTTTACTGCGATACTGTTGC
1 TGGCAACTTTACTGCGATACTACTGA
* *
15102192 TGGCAGCTTTACTGCGATGCTACTGA
1 TGGCAACTTTACTGCGATACTACTGA
15102218 TGGC
1 TGGC
15102222 TTTGTGCCGG
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.18, C:0.23, G:0.27, T:0.32
Consensus pattern (26 bp):
TGGCAACTTTACTGCGATACTACTGA
Found at i:15102257 original size:32 final size:32
Alignment explanation
Indices: 15102212--15102299 Score: 95
Period size: 32 Copynumber: 2.8 Consensus size: 32
15102202 ACTGCGATGC
* **
15102212 TACTGATGGCTTTGTGCCGGTCATAGTACCGT
1 TACTGATGACTTTGTGCCAATCATAGTACCGT
* *
15102244 TACTGATGACTTTGTGCCAATCATATTATCGT
1 TACTGATGACTTTGTGCCAATCATAGTACCGT
* * * *
15102276 TACTAATGGCTGTGTGCTAATCAT
1 TACTGATGACTTTGTGCCAATCAT
15102300 TTCACTGTTG
Statistics
Matches: 47, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
32 47 1.00
ACGTcount: A:0.22, C:0.19, G:0.22, T:0.38
Consensus pattern (32 bp):
TACTGATGACTTTGTGCCAATCATAGTACCGT
Found at i:15102450 original size:26 final size:26
Alignment explanation
Indices: 15102421--15102474 Score: 72
Period size: 26 Copynumber: 2.1 Consensus size: 26
15102411 GGCTTTTAGC
* * *
15102421 CATTCTGACTATTGGCAGCTCTGCTG
1 CATTATGACTACTGGCAGCTATGCTG
*
15102447 CATTATTACTACTGGCAGCTATGCTG
1 CATTATGACTACTGGCAGCTATGCTG
15102473 CA
1 CA
15102475 ATATTGGTGT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.20, C:0.26, G:0.20, T:0.33
Consensus pattern (26 bp):
CATTATGACTACTGGCAGCTATGCTG
Found at i:15102479 original size:26 final size:26
Alignment explanation
Indices: 15102428--15102479 Score: 77
Period size: 26 Copynumber: 2.0 Consensus size: 26
15102418 AGCCATTCTG
* * *
15102428 ACTATTGGCAGCTCTGCTGCATTATT
1 ACTACTGGCAGCTATGCTGCAATATT
15102454 ACTACTGGCAGCTATGCTGCAATATT
1 ACTACTGGCAGCTATGCTGCAATATT
15102480 GGTGTGAGGG
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.23, C:0.23, G:0.19, T:0.35
Consensus pattern (26 bp):
ACTACTGGCAGCTATGCTGCAATATT
Found at i:15112954 original size:26 final size:26
Alignment explanation
Indices: 15112918--15112969 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
15112908 TAGACACATG
15112918 AAAGACATTATGAATCCTCTCAAGCT
1 AAAGACATTATGAATCCTCTCAAGCT
15112944 AAAGACATTATGAATCCTCTCAAGCT
1 AAAGACATTATGAATCCTCTCAAGCT
15112970 CTAACGGTAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.38, C:0.23, G:0.12, T:0.27
Consensus pattern (26 bp):
AAAGACATTATGAATCCTCTCAAGCT
Found at i:15119188 original size:25 final size:25
Alignment explanation
Indices: 15119154--15119220 Score: 89
Period size: 25 Copynumber: 2.7 Consensus size: 25
15119144 GCTGTAAACA
* *
15119154 GTAAGATCCTCCGAGCTAAATTATG
1 GTAAGCTCCTCCGAGCTAAATAATG
*
15119179 GTAAGCTCCTCTGAGCTAAATAATG
1 GTAAGCTCCTCCGAGCTAAATAATG
* *
15119204 GTAAGCTCATACGAGCT
1 GTAAGCTCCTCCGAGCT
15119221 GAGTATCAAT
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
25 36 1.00
ACGTcount: A:0.31, C:0.21, G:0.21, T:0.27
Consensus pattern (25 bp):
GTAAGCTCCTCCGAGCTAAATAATG
Found at i:15121290 original size:27 final size:27
Alignment explanation
Indices: 15121260--15121334 Score: 114
Period size: 27 Copynumber: 2.8 Consensus size: 27
15121250 TATAACAGTT
* *
15121260 ATTTTACCCTATGGGGGTATTTTGGTC
1 ATTTTACCTTATGGGGGTATTTTGATC
*
15121287 ATTTTACCTTATGAGGGTATTTTGATC
1 ATTTTACCTTATGGGGGTATTTTGATC
*
15121314 ATTTTACCTTATGGAGGTATT
1 ATTTTACCTTATGGGGGTATT
15121335 GCCACACTTG
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 43 1.00
ACGTcount: A:0.20, C:0.12, G:0.21, T:0.47
Consensus pattern (27 bp):
ATTTTACCTTATGGGGGTATTTTGATC
Found at i:15123926 original size:13 final size:12
Alignment explanation
Indices: 15123908--15123952 Score: 63
Period size: 13 Copynumber: 3.6 Consensus size: 12
15123898 GCCGTGAGTC
15123908 TCTTTCTTTTTCT
1 TCTTTCTTTTT-T
*
15123921 TCTTTCTCTTTT
1 TCTTTCTTTTTT
15123933 TCTTTCTTTCTTT
1 TCTTTCTTT-TTT
15123946 TCTTTCT
1 TCTTTCT
15123953 AATTTGTTTA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
12 9 0.31
13 20 0.69
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (12 bp):
TCTTTCTTTTTT
Found at i:15123932 original size:15 final size:16
Alignment explanation
Indices: 15123912--15123943 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 16
15123902 TGAGTCTCTT
15123912 TCTTTTTC-TTCTTTC
1 TCTTTTTCTTTCTTTC
15123927 TCTTTTTCTTTCTTTC
1 TCTTTTTCTTTCTTTC
15123943 T
1 T
15123944 TTTCTTTCTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 8 0.50
16 8 0.50
ACGTcount: A:0.00, C:0.25, G:0.00, T:0.75
Consensus pattern (16 bp):
TCTTTTTCTTTCTTTC
Found at i:15129300 original size:22 final size:22
Alignment explanation
Indices: 15129275--15129330 Score: 67
Period size: 22 Copynumber: 2.5 Consensus size: 22
15129265 GGTGGTGCTA
15129275 GTGGCTGCGACGGCGACGTCTG
1 GTGGCTGCGACGGCGACGTCTG
* * * *
15129297 GTGGCTCCGATGGCTATGTCTG
1 GTGGCTGCGACGGCGACGTCTG
15129319 GTGGCTGACGAC
1 GTGGCTG-CGAC
15129331 AGTTGGTCAT
Statistics
Matches: 27, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
22 24 0.89
23 3 0.11
ACGTcount: A:0.11, C:0.25, G:0.41, T:0.23
Consensus pattern (22 bp):
GTGGCTGCGACGGCGACGTCTG
Found at i:15131357 original size:31 final size:30
Alignment explanation
Indices: 15131315--15131388 Score: 87
Period size: 31 Copynumber: 2.4 Consensus size: 30
15131305 TATTTATATA
*
15131315 AAAAAAATTTAATTCAAAC-TATTTTAAAAAT
1 AAAAAAATTTAATT-AAACTTA-ATTAAAAAT
* *
15131346 AAAAAACTTTAAATTTAACTTAATTAAAAAT
1 AAAAAAATTT-AATTAAACTTAATTAAAAAT
15131377 AAAAAAATTTAA
1 AAAAAAATTTAA
15131389 AATTTCGTCT
Statistics
Matches: 37, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
30 2 0.05
31 29 0.78
32 6 0.16
ACGTcount: A:0.61, C:0.05, G:0.00, T:0.34
Consensus pattern (30 bp):
AAAAAAATTTAATTAAACTTAATTAAAAAT
Found at i:15131586 original size:18 final size:19
Alignment explanation
Indices: 15131563--15131609 Score: 62
Period size: 18 Copynumber: 2.6 Consensus size: 19
15131553 CTTTAGAAAT
* *
15131563 TTGAGAGAATTA-AGAGAG
1 TTGAGAGAATTAGAAAGAA
15131581 TTGAGAG-ATTAGAAAGAA
1 TTGAGAGAATTAGAAAGAA
15131599 TTGAGAGAATT
1 TTGAGAGAATT
15131610 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:15131587 original size:9 final size:9
Alignment explanation
Indices: 15131563--15131610 Score: 53
Period size: 9 Copynumber: 5.3 Consensus size: 9
15131553 CTTTAGAAAT
15131563 TTGAGAGAA
1 TTGAGAGAA
* *
15131572 TTAAGAGAG
1 TTGAGAGAA
15131581 TTGAGAG-A
1 TTGAGAGAA
*
15131589 TTAGAAAGAA
1 TT-GAGAGAA
15131599 TTGAGAGAA
1 TTGAGAGAA
15131608 TTG
1 TTG
15131611 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:15139419 original size:55 final size:55
Alignment explanation
Indices: 15139019--15139411 Score: 261
Period size: 55 Copynumber: 7.1 Consensus size: 55
15139009 AATGTAGCAG
* * * * * *
15139019 AGGTGCAACCATTGACCTTATGACTCGGGTTTATGCAATATGAGATGCTCGCGGA
1 AGGTGCAACCGTTGACCTTACGACCCAGGTTTACGCAATATGAGATGCTCGTGGA
* * ** ** * *
15139074 GGGTGTAACTTTTGACCTTATC-ACCCAGGTTTACGTGATATGAGATGTTTGTGGA
1 AGGTGCAACCGTTGACCTTA-CGACCCAGGTTTACGCAATATGAGATGCTCGTGGA
* * * *
15139129 AGGTGCAGCCGTTGACCTTACAACCCAGGTTTATGCAATATGAGATGCTTGTGGA
1 AGGTGCAACCGTTGACCTTACGACCCAGGTTTACGCAATATGAGATGCTCGTGGA
* * * * * * ** * * *
15139184 AGATTCAATCATTGACCTTATGGCCCAAATTTATGCAATATGAGATGTTTGTGGA
1 AGGTGCAACCGTTGACCTTACGACCCAGGTTTACGCAATATGAGATGCTCGTGGA
* * ** *** * *
15139239 GGGTGCAACCATTGACC-TAATAGTTAGGATTTACGCAACATGAGATGCTCATGGA
1 AGGTGCAACCGTTGACCTTACGACCCAGG-TTTACGCAATATGAGATGCTCGTGGA
* * * * * * * * ***
15139294 AGGTGCAACCGTTGACCCTAAGGCCTAAGTTTACACAATATTATATGCAT-GCAAA
1 AGGTGCAACCGTTGACCTTACGACCCAGGTTTACGCAATATGAGATGC-TCGTGGA
* * *
15139349 AGGTGCAACTGTTGACCTTACGACCCAGGTTTACGCAATATGAAATGCTCATGGA
1 AGGTGCAACCGTTGACCTTACGACCCAGGTTTACGCAATATGAGATGCTCGTGGA
*
15139404 AGATGCAA
1 AGGTGCAA
15139412 TTGTTGACTT
Statistics
Matches: 253, Mismatches: 79, Indels: 12
0.74 0.23 0.03
Matches are distributed among these distances:
54 5 0.02
55 241 0.95
56 7 0.03
ACGTcount: A:0.29, C:0.19, G:0.24, T:0.28
Consensus pattern (55 bp):
AGGTGCAACCGTTGACCTTACGACCCAGGTTTACGCAATATGAGATGCTCGTGGA
Found at i:15140320 original size:18 final size:19
Alignment explanation
Indices: 15140283--15140319 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
15140273 TTTTAAAAAA
15140283 TATAAA-ATTTGGAATTTT
1 TATAAATATTTGGAATTTT
15140301 TATAAATATTTGGAATTTT
1 TATAAATATTTGGAATTTT
15140320 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:15140325 original size:18 final size:20
Alignment explanation
Indices: 15140289--15140340 Score: 63
Period size: 19 Copynumber: 2.6 Consensus size: 20
15140279 AAAATATAAA
*
15140289 ATTTGGAATTTTTATAAA-T
1 ATTTGGAATTTTTAAAAATT
15140308 ATTTGGAA-TTTTAAAAATT
1 ATTTGGAATTTTTAAAAATT
*
15140327 ATTTTGTAATTTTT
1 A-TTTGGAATTTTT
15140341 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:15148553 original size:18 final size:19
Alignment explanation
Indices: 15148512--15148555 Score: 56
Period size: 18 Copynumber: 2.4 Consensus size: 19
15148502 ATTTGAGTAC
15148512 TCCATTTCTCATTCCATTT
1 TCCATTTCTCATTCCATTT
* *
15148531 T-CATTTCTCGTT-TATTT
1 TCCATTTCTCATTCCATTT
15148548 TCCATTTC
1 TCCATTTC
15148556 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:0.14, C:0.27, G:0.02, T:0.57
Consensus pattern (19 bp):
TCCATTTCTCATTCCATTT
Found at i:15154845 original size:22 final size:23
Alignment explanation
Indices: 15154818--15154862 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
15154808 AGGTATCTAC
*
15154818 AAATCAAATC-TCTAATATTACA
1 AAATCAAATCTTCTAAGATTACA
*
15154840 AAATCATATCTTCTAAGATTACA
1 AAATCAAATCTTCTAAGATTACA
15154863 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:15154866 original size:17 final size:17
Alignment explanation
Indices: 15154844--15154896 Score: 61
Period size: 19 Copynumber: 3.0 Consensus size: 17
15154834 ATTACAAAAT
15154844 CATATCTTCTAAGATTA
1 CATATCTTCTAAGATTA
* *
15154861 CATATCATATCTACGATTG
1 CATATC-T-TCTAAGATTA
*
15154880 CATATCTTCGAAGATTA
1 CATATCTTCTAAGATTA
15154897 TATTTCCATA
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:15154867 original size:22 final size:22
Alignment explanation
Indices: 15154815--15154872 Score: 73
Period size: 22 Copynumber: 2.6 Consensus size: 22
15154805 AAAAGGTATC
* *
15154815 TACAAATCAAATC-TCTAATAT
1 TACAAATCATATCTTCTAAGAT
15154836 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATCTTCTAAGAT
*
15154859 TACATATCATATCT
1 TACAAATCATATCT
15154873 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:15159980 original size:22 final size:23
Alignment explanation
Indices: 15159953--15159997 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
15159943 AGGTATCTAC
15159953 AAATCAAAT-TTCTAAGATTACA
1 AAATCAAATCTTCTAAGATTACA
*
15159975 AAATCATATCTTCTAAGATTACA
1 AAATCAAATCTTCTAAGATTACA
15159998 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:15159990 original size:23 final size:22
Alignment explanation
Indices: 15159950--15160007 Score: 82
Period size: 22 Copynumber: 2.6 Consensus size: 22
15159940 AAAAGGTATC
*
15159950 TACAAATCAAAT-TTCTAAGAT
1 TACAAATCATATCTTCTAAGAT
15159971 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATCTTCTAAGAT
*
15159994 TACATATCATATCT
1 TACAAATCATATCT
15160008 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:15160001 original size:17 final size:17
Alignment explanation
Indices: 15159979--15160031 Score: 70
Period size: 19 Copynumber: 3.0 Consensus size: 17
15159969 ATTACAAAAT
15159979 CATATCTTCTAAGATTA
1 CATATCTTCTAAGATTA
*
15159996 CATATCATATCTACGATTA
1 CATATC-T-TCTAAGATTA
*
15160015 CATATCTTCAAAGATTA
1 CATATCTTCTAAGATTA
15160032 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:15172390 original size:5 final size:5
Alignment explanation
Indices: 15172380--15172405 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
15172370 TCTTTTCCCC
15172380 TTTAT TTTAT TTTAT TTTAT TTTAT T
1 TTTAT TTTAT TTTAT TTTAT TTTAT T
15172406 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:15175078 original size:14 final size:13
Alignment explanation
Indices: 15175050--15175074 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
15175040 AATTTACTGT
15175050 TTTTTAATATTTA
1 TTTTTAATATTTA
15175063 TTTTTAATATTT
1 TTTTTAATATTT
15175075 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:15194126 original size:37 final size:37
Alignment explanation
Indices: 15194076--15194154 Score: 113
Period size: 37 Copynumber: 2.1 Consensus size: 37
15194066 TTATTACGAA
* * *
15194076 GTCTTACCCGGACATAATCTCCACATGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACATGAAGTCATCGG
* *
15194113 GTCTTACCCGGACAAAATCCCCACGTGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACATGAAGTCATCGG
15194150 GTCTT
1 GTCTT
15194155 TAGAGCTCGG
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.24, C:0.29, G:0.20, T:0.27
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACATGAAGTCATCGG
Found at i:15194344 original size:47 final size:47
Alignment explanation
Indices: 15194273--15194919 Score: 1001
Period size: 49 Copynumber: 13.5 Consensus size: 47
15194263 CCCTTCGGGA
* * * * * *
15194273 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
15194320 CCTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
15194367 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
15194414 CTTATCACATATATACACTTTCGCATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
15194461 CTTATCACATATATACACTTTCGCATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
15194508 CTTACCACATATATACAC-TTCACATTCATCACATCGGCCATTA-GC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
15194553 CTTATCGCATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTAT--CACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
15194602 CTTATCGCATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTAT--CACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
15194651 CTTATCGCATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTAT--CACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
15194700 CTTATCGCATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTAT--CACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
15194749 CTTATCGCATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTAT--CACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
15194798 CTTATCACATATATATTCACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATA--CACTTTCACATTCATCACATCGGCCATTAGGC
*
15194847 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
15194894 CTTATCACATATATATACACTTTCAC
1 CTTATCAC--ATATATACACTTTCAC
15194920 GTATACACAC
Statistics
Matches: 575, Mismatches: 17, Indels: 14
0.95 0.03 0.02
Matches are distributed among these distances:
45 6 0.01
46 24 0.04
47 254 0.44
48 25 0.04
49 266 0.46
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:15198198 original size:43 final size:43
Alignment explanation
Indices: 15198146--15198290 Score: 136
Period size: 43 Copynumber: 3.4 Consensus size: 43
15198136 TGTCATATCC
* * *
15198146 CAGATATGGTCTTACA-TATAATCTCATATCGATGCCAATAGCC-
1 CAGACATGGTCTTACACCA-AATCACATATCGATGCCAAT-GCCT
* *
15198189 CAGCCATGGTCTTACACCAAATCACATATCGATGCTAATGCCT
1 CAGACATGGTCTTACACCAAATCACATATCGATGCCAATGCCT
* * * *
15198232 CAGACATGGTCTTACACGAAGTCTCATATTGATGCCATAT--CT
1 CAGACATGGTCTTACACCAAATCACATATCGATGCCA-ATGCCT
* *
15198274 TAGATATGGTCTTACAC
1 CAGACATGGTCTTACAC
15198291 ATTATCTCGG
Statistics
Matches: 86, Mismatches: 13, Indels: 7
0.81 0.12 0.07
Matches are distributed among these distances:
42 20 0.23
43 63 0.73
44 3 0.03
ACGTcount: A:0.30, C:0.25, G:0.15, T:0.30
Consensus pattern (43 bp):
CAGACATGGTCTTACACCAAATCACATATCGATGCCAATGCCT
Found at i:15204786 original size:43 final size:43
Alignment explanation
Indices: 15204684--15204840 Score: 174
Period size: 43 Copynumber: 3.7 Consensus size: 43
15204674 ACAATGTCCA
* *
15204684 ATCCCAGATATGGTCTTAGAT-ATAATCTCGTATCGATGCCAAT
1 ATCCCAGATATGGTCTTACATGA-AATCTCATATCGATGCCAAT
* ** * *
15204727 AACCCAGCCATTGTCTTACATGAAATCACATATCGATGCCAAT
1 ATCCCAGATATGGTCTTACATGAAATCTCATATCGATGCCAAT
* *
15204770 ATCCCAGATATGGTCTTACACGAAGTCTCATATCGATG-CAAT
1 ATCCCAGATATGGTCTTACATGAAATCTCATATCGATGCCAAT
* * * *
15204812 ATCCTAGATATAGTCTTACACGTAATCTC
1 ATCCCAGATATGGTCTTACATGAAATCTC
15204841 GGTAACCCTA
Statistics
Matches: 95, Mismatches: 18, Indels: 3
0.82 0.16 0.03
Matches are distributed among these distances:
42 29 0.31
43 65 0.68
44 1 0.01
ACGTcount: A:0.32, C:0.24, G:0.14, T:0.30
Consensus pattern (43 bp):
ATCCCAGATATGGTCTTACATGAAATCTCATATCGATGCCAAT
Found at i:15212939 original size:17 final size:18
Alignment explanation
Indices: 15212882--15212939 Score: 50
Period size: 17 Copynumber: 3.4 Consensus size: 18
15212872 TCACCATTAA
*
15212882 AAATAATAGAAA-ATAA-
1 AAATAATAAAAATATAAT
**
15212898 AAATTTTAAAAATATAAT
1 AAATAATAAAAATATAAT
* *
15212916 ATATAATAAAATTAT-AT
1 AAATAATAAAAATATAAT
15212933 AAATAAT
1 AAATAAT
15212940 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:15214928 original size:31 final size:31
Alignment explanation
Indices: 15214869--15214928 Score: 77
Period size: 31 Copynumber: 1.9 Consensus size: 31
15214859 CAATTATACA
* *
15214869 CATGAAACTTAATTTGTGGTTTATATGTATG
1 CATGAAACTTAATTTGTGATTTAAATGTATG
*
15214900 CATGAAACTTTGATTT-TGATTTAAATGTA
1 CATGAAAC-TTAATTTGTGATTTAAATGTA
15214929 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:15215799 original size:12 final size:12
Alignment explanation
Indices: 15215782--15215811 Score: 60
Period size: 12 Copynumber: 2.5 Consensus size: 12
15215772 ACTTAGTCTT
15215782 TTTCTCATTTAC
1 TTTCTCATTTAC
15215794 TTTCTCATTTAC
1 TTTCTCATTTAC
15215806 TTTCTC
1 TTTCTC
15215812 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:15216715 original size:9 final size:9
Alignment explanation
Indices: 15216701--15216776 Score: 73
Period size: 9 Copynumber: 8.4 Consensus size: 9
15216691 TTTAGTTAAA
*
15216701 AATTAACTG
1 AATTAACCG
*
15216710 AATTAACCA
1 AATTAACCG
*
15216719 AATTAACTG
1 AATTAACCG
*
15216728 AATTACCCG
1 AATTAACCG
*
15216737 AATTAACCA
1 AATTAACCG
*
15216746 AATT-TCTCG
1 AATTAAC-CG
*
15216755 AATTACCCG
1 AATTAACCG
15216764 AATTAACCG
1 AATTAACCG
15216773 AATT
1 AATT
15216777 GAATCACTAC
Statistics
Matches: 53, Mismatches: 12, Indels: 4
0.77 0.17 0.06
Matches are distributed among these distances:
8 1 0.02
9 51 0.96
10 1 0.02
ACGTcount: A:0.42, C:0.21, G:0.08, T:0.29
Consensus pattern (9 bp):
AATTAACCG
Found at i:15216739 original size:27 final size:27
Alignment explanation
Indices: 15216709--15216776 Score: 102
Period size: 27 Copynumber: 2.5 Consensus size: 27
15216699 AAAATTAACT
15216709 GAATTAACCAAATTAACT-GAATTACCC
1 GAATTAACCAAATT-ACTCGAATTACCC
*
15216736 GAATTAACCAAATTTCTCGAATTACCC
1 GAATTAACCAAATTACTCGAATTACCC
*
15216763 GAATTAACCGAATT
1 GAATTAACCAAATT
15216777 GAATCACTAC
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
26 2 0.05
27 36 0.95
ACGTcount: A:0.41, C:0.22, G:0.09, T:0.28
Consensus pattern (27 bp):
GAATTAACCAAATTACTCGAATTACCC
Found at i:15216921 original size:13 final size:13
Alignment explanation
Indices: 15216903--15216927 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
15216893 TTATGATTGG
15216903 ATTGGGTTGGGTA
1 ATTGGGTTGGGTA
15216916 ATTGGGTTGGGT
1 ATTGGGTTGGGT
15216928 TGGATACTTG
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:0.12, C:0.00, G:0.48, T:0.40
Consensus pattern (13 bp):
ATTGGGTTGGGTA
Found at i:15216925 original size:18 final size:18
Alignment explanation
Indices: 15216898--15216941 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
15216888 AATTTTTATG
* *
15216898 ATTGGATTGGGTTGGGTA
1 ATTGGGTTGGGTTGGATA
15216916 ATTGGGTTGGGTTGGATA
1 ATTGGGTTGGGTTGGATA
*
15216934 CTTGGGTT
1 ATTGGGTT
15216942 TGGATTAGTT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.14, C:0.02, G:0.43, T:0.41
Consensus pattern (18 bp):
ATTGGGTTGGGTTGGATA
Found at i:15227038 original size:50 final size:50
Alignment explanation
Indices: 15226963--15227205 Score: 252
Period size: 50 Copynumber: 4.7 Consensus size: 50
15226953 TTTATTGTAC
* * * * **
15226963 TGCCAATGCCATATCCCTGATATGGTCTTGCATGGGAGTTCTCATATAGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATAGG
* ** * *
15227013 TGCCCATGCCATGTCCCAGACATGGTCTTACGGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATAGG
* * * *
15227063 TGCCAACGCCATGTCCCAGACATGGTCTAACATGGGACCTCTCATCTTGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATAGG
* * * * *
15227113 TGCCAATGCCATGTCCCAAACATGGTATTATATGGGACCTTTCATAATCTCAATGA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCAT-A--T--A-GG
15227169 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA
15227206 TCTCATCCTC
Statistics
Matches: 158, Mismatches: 29, Indels: 6
0.82 0.15 0.03
Matches are distributed among these distances:
50 122 0.77
53 1 0.01
56 35 0.22
ACGTcount: A:0.23, C:0.28, G:0.22, T:0.27
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATAGG
Found at i:15228669 original size:104 final size:105
Alignment explanation
Indices: 15228489--15228756 Score: 450
Period size: 104 Copynumber: 2.6 Consensus size: 105
15228479 TAACCGTTAT
* **
15228489 TGGTGGATCTCGCACTTAGCACCACCGCTGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
1 TGGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
15228554 AATCAGCACATAGCAACCCCC-TTTCACATTTCAAAGATA
66 AATCAGCACATAGCAACCCCCTTTTCACATTTCAAAGATA
*
15228593 TGGTGGATATCGCACTTAGCACCACCAATGAACCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
1 TGGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
15228658 AATCAGCACATAGCAACCCCCTTTTCACATTTCAAAGATA
66 AATCAGCACATAGCAACCCCCTTTTCACATTTCAAAGATA
* **
15228698 TGGTGGATCA-CGCACATAGCACCACCAATGAATCGGGGAATCAGCACACAGCAACCCCT
1 TGGTGGAT-ATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCT
15228757 TTATATACAA
Statistics
Matches: 154, Mismatches: 8, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
104 82 0.53
105 71 0.46
106 1 0.01
ACGTcount: A:0.30, C:0.31, G:0.21, T:0.19
Consensus pattern (105 bp):
TGGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
AATCAGCACATAGCAACCCCCTTTTCACATTTCAAAGATA
Found at i:15229125 original size:30 final size:30
Alignment explanation
Indices: 15229091--15229148 Score: 71
Period size: 30 Copynumber: 1.9 Consensus size: 30
15229081 CCACCCAACT
15229091 TTTTGAAAAATTACAATTTTGCCCCCAAAC
1 TTTTGAAAAATTACAATTTTGCCCCCAAAC
*** * *
15229121 TTTTGCGTAATTACACTTTTGTCCCCAA
1 TTTTGAAAAATTACAATTTTGCCCCCAA
15229149 GCTCGGAAAT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
30 23 1.00
ACGTcount: A:0.29, C:0.24, G:0.09, T:0.38
Consensus pattern (30 bp):
TTTTGAAAAATTACAATTTTGCCCCCAAAC
Found at i:15236157 original size:104 final size:105
Alignment explanation
Indices: 15235977--15236244 Score: 450
Period size: 104 Copynumber: 2.6 Consensus size: 105
15235967 TAACCGTTAT
* **
15235977 TGGTGGATCTCGCACTTAGCACCACCGCTGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
1 TGGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
15236042 AATCAGCACATAGCAACCCCC-TTTCACATTTCAAAGATA
66 AATCAGCACATAGCAACCCCCTTTTCACATTTCAAAGATA
*
15236081 TGGTGGATATCGCACTTAGCACCACCAATGAACCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
1 TGGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
15236146 AATCAGCACATAGCAACCCCCTTTTCACATTTCAAAGATA
66 AATCAGCACATAGCAACCCCCTTTTCACATTTCAAAGATA
* **
15236186 TGGTGGATCA-CGCACATAGCACCACCAATGAATCGGGGAATCAGCACACAGCAACCCCT
1 TGGTGGAT-ATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCT
15236245 TTATATACAA
Statistics
Matches: 154, Mismatches: 8, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
104 82 0.53
105 71 0.46
106 1 0.01
ACGTcount: A:0.30, C:0.31, G:0.21, T:0.19
Consensus pattern (105 bp):
TGGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
AATCAGCACATAGCAACCCCCTTTTCACATTTCAAAGATA
Found at i:15236613 original size:30 final size:30
Alignment explanation
Indices: 15236579--15236636 Score: 71
Period size: 30 Copynumber: 1.9 Consensus size: 30
15236569 CCACCCAACT
15236579 TTTTGAAAAATTACAATTTTGCCCCCAAAC
1 TTTTGAAAAATTACAATTTTGCCCCCAAAC
*** * *
15236609 TTTTGCGTAATTACACTTTTGTCCCCAA
1 TTTTGAAAAATTACAATTTTGCCCCCAA
15236637 GCTCGGAAAT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
30 23 1.00
ACGTcount: A:0.29, C:0.24, G:0.09, T:0.38
Consensus pattern (30 bp):
TTTTGAAAAATTACAATTTTGCCCCCAAAC
Found at i:15245903 original size:20 final size:18
Alignment explanation
Indices: 15245864--15245901 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
15245854 ATAAATTTTA
15245864 ATTATGGCTCAAATATAT
1 ATTATGGCTCAAATATAT
*
15245882 ATTATGGTTCAAATATAT
1 ATTATGGCTCAAATATAT
15245900 AT
1 AT
15245902 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:15247188 original size:6 final size:6
Alignment explanation
Indices: 15247179--15247256 Score: 81
Period size: 6 Copynumber: 13.5 Consensus size: 6
15247169 GTGAAGACCC
* * *
15247179 TGAGGA TGAGGA TGAGGA TGAGGA TGAGGA CGAGGA CGAGGA TGATGA
1 TGAGGA TGAGGA TGAGGA TGAGGA TGAGGA TGAGGA TGAGGA TGAGGA
* * *
15247227 CGACGA TGACGA T--GGA -GAGGA TGAGGA TGA
1 TGAGGA TGAGGA TGAGGA TGAGGA TGAGGA TGA
15247257 AGAGGATGTT
Statistics
Matches: 62, Mismatches: 7, Indels: 6
0.83 0.09 0.08
Matches are distributed among these distances:
4 2 0.03
5 3 0.05
6 57 0.92
ACGTcount: A:0.33, C:0.06, G:0.46, T:0.14
Consensus pattern (6 bp):
TGAGGA
Found at i:15247200 original size:18 final size:18
Alignment explanation
Indices: 15247179--15247256 Score: 90
Period size: 18 Copynumber: 4.5 Consensus size: 18
15247169 GTGAAGACCC
*
15247179 TGAGGATGAGGATGAGGA
1 TGAGGATGAGGACGAGGA
15247197 TGAGGATGAGGACGAGGA
1 TGAGGATGAGGACGAGGA
* * *
15247215 CGAGGATGATGACGACGA
1 TGAGGATGAGGACGAGGA
*
15247233 TGACGAT--GGA-GAGGA
1 TGAGGATGAGGACGAGGA
15247248 TGAGGATGA
1 TGAGGATGA
15247257 AGAGGATGTT
Statistics
Matches: 49, Mismatches: 9, Indels: 5
0.78 0.14 0.08
Matches are distributed among these distances:
15 10 0.20
16 2 0.04
18 37 0.76
ACGTcount: A:0.33, C:0.06, G:0.46, T:0.14
Consensus pattern (18 bp):
TGAGGATGAGGACGAGGA
Found at i:15247249 original size:15 final size:15
Alignment explanation
Indices: 15247231--15247264 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
15247221 TGATGACGAC
*
15247231 GATGACGATGGAGAG
1 GATGACGATGAAGAG
*
15247246 GATGAGGATGAAGAG
1 GATGACGATGAAGAG
15247261 GATG
1 GATG
15247265 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:15247296 original size:21 final size:21
Alignment explanation
Indices: 15247270--15247315 Score: 83
Period size: 21 Copynumber: 2.2 Consensus size: 21
15247260 GGATGTTGAA
15247270 GAAGAAGAAAATGAAGATGAG
1 GAAGAAGAAAATGAAGATGAG
*
15247291 GAAGAAGAAGATGAAGATGAG
1 GAAGAAGAAAATGAAGATGAG
15247312 GAAG
1 GAAG
15247316 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:15247315 original size:15 final size:15
Alignment explanation
Indices: 15247266--15247307 Score: 50
Period size: 15 Copynumber: 2.8 Consensus size: 15
15247256 AAGAGGATGT
*
15247266 TGAAGAAGAAGAAAA
1 TGAAGATGAAGAAAA
*
15247281 TGAAGATGAGGAAGAA
1 TGAAGATGAAGAA-AA
15247297 -GAAGATGAAGA
1 TGAAGATGAAGA
15247308 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:15277638 original size:42 final size:42
Alignment explanation
Indices: 15277433--15277628 Score: 329
Period size: 42 Copynumber: 4.7 Consensus size: 42
15277423 CACACAGCCG
* * *
15277433 TGTCCCAGCCCGTGTAACTCACTGACTTGGGACACACGACCA
1 TGTCCCAGCCCGTGTAACTCACTGACTTGAGACACACGGCTA
15277475 TGTCCCAGCCCGTGTAACTCACTGACTTGAGACACACGGCTA
1 TGTCCCAGCCCGTGTAACTCACTGACTTGAGACACACGGCTA
*
15277517 TGTCCCAGCCCGTGTAGCTCACTGACTTGAGACACACGGCTA
1 TGTCCCAGCCCGTGTAACTCACTGACTTGAGACACACGGCTA
*
15277559 TGTCCCAGCCCGTGTAGCTCACTGACTTGAGACACACGGCTA
1 TGTCCCAGCCCGTGTAACTCACTGACTTGAGACACACGGCTA
* *
15277601 TGTCCCAGCTCGTATAACTCACTGACTT
1 TGTCCCAGCCCGTGTAACTCACTGACTT
15277629 AGGTTACACG
Statistics
Matches: 147, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 147 1.00
ACGTcount: A:0.22, C:0.34, G:0.21, T:0.22
Consensus pattern (42 bp):
TGTCCCAGCCCGTGTAACTCACTGACTTGAGACACACGGCTA
Found at i:15278455 original size:19 final size:19
Alignment explanation
Indices: 15278412--15278462 Score: 54
Period size: 19 Copynumber: 2.7 Consensus size: 19
15278402 CAATACTTGA
15278412 ATTCATTTCA--AGTTTCAC
1 ATTCATTTCATCA-TTTCAC
*
15278430 ATCTCATTTCATCATTTCAT
1 AT-TCATTTCATCATTTCAC
15278450 ATTCATTT-ATCAT
1 ATTCATTTCATCAT
15278463 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:15279694 original size:15 final size:15
Alignment explanation
Indices: 15279674--15279705 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
15279664 TGTTTTCATT
*
15279674 TTATTATCTTTATTA
1 TTATTATCATTATTA
15279689 TTATTATCATTATTA
1 TTATTATCATTATTA
15279704 TT
1 TT
15279706 GAAGGTACTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.28, C:0.06, G:0.00, T:0.66
Consensus pattern (15 bp):
TTATTATCATTATTA
Found at i:15285328 original size:25 final size:26
Alignment explanation
Indices: 15285300--15285352 Score: 74
Period size: 25 Copynumber: 2.1 Consensus size: 26
15285290 TTATTGTGTT
15285300 TTTTACAACA-AATTG-TTAACTATAA
1 TTTTACAA-AGAATTGATTAACTATAA
*
15285325 TTTTGCAAAGAATTGATTAACTATAA
1 TTTTACAAAGAATTGATTAACTATAA
15285351 TT
1 TT
15285353 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:15285595 original size:39 final size:39
Alignment explanation
Indices: 15285545--15285629 Score: 143
Period size: 39 Copynumber: 2.2 Consensus size: 39
15285535 AGTTACAGGG
* * *
15285545 ACTAAAAATGCAAATAAATCTAAGTTACAGTGTTAACTA
1 ACTACAAATGCAAATAAACCTAAGCTACAGTGTTAACTA
15285584 ACTACAAATGCAAATAAACCTAAGCTACAGTGTTAACTA
1 ACTACAAATGCAAATAAACCTAAGCTACAGTGTTAACTA
15285623 ACTACAA
1 ACTACAA
15285630 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:15285730 original size:21 final size:21
Alignment explanation
Indices: 15285693--15285732 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
15285683 AGATGGTACT
*
15285693 AAGAAAACCTAGAAGAAAAGG
1 AAGAAAAACTAGAAGAAAAGG
15285714 AAGAAAAACTA-AGAGAAAA
1 AAGAAAAACTAGA-AGAAAA
15285733 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:15287533 original size:24 final size:24
Alignment explanation
Indices: 15287501--15287548 Score: 78
Period size: 24 Copynumber: 2.0 Consensus size: 24
15287491 TGTGGCTTAG
* *
15287501 GTTGGTTCAGAAGTGAAGAACTAA
1 GTTGGTTCAAAACTGAAGAACTAA
15287525 GTTGGTTCAAAACTGAAGAACTAA
1 GTTGGTTCAAAACTGAAGAACTAA
15287549 CTCTACAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.40, C:0.10, G:0.25, T:0.25
Consensus pattern (24 bp):
GTTGGTTCAAAACTGAAGAACTAA
Found at i:15291244 original size:22 final size:22
Alignment explanation
Indices: 15291219--15291261 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
15291209 TTAGAAATCA
* *
15291219 TAAAGCAACCAGACCAAAAAAT
1 TAAACCAAACAGACCAAAAAAT
*
15291241 TAAACCAAACAGTCCAAAAAA
1 TAAACCAAACAGACCAAAAAA
15291262 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:15292122 original size:32 final size:32
Alignment explanation
Indices: 15292078--15292155 Score: 111
Period size: 32 Copynumber: 2.4 Consensus size: 32
15292068 AAACCTACAC
*
15292078 GCCCGTGCGGCCCACACACCCAACCTGGCCTA
1 GCCCGTGTGGCCCACACACCCAACCTGGCCTA
* ***
15292110 GCTCGTGTGGCCCACGTGCCCAACCTGGCCTA
1 GCCCGTGTGGCCCACACACCCAACCTGGCCTA
15292142 GCCCGTGTGGCCCA
1 GCCCGTGTGGCCCA
15292156 TACGGCCATA
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
32 40 1.00
ACGTcount: A:0.14, C:0.45, G:0.27, T:0.14
Consensus pattern (32 bp):
GCCCGTGTGGCCCACACACCCAACCTGGCCTA
Found at i:15300967 original size:15 final size:16
Alignment explanation
Indices: 15300935--15300967 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
15300925 TCAAGATGGA
*
15300935 ATTTTGAATTCATTTG
1 ATTTTGAATTCATATG
15300951 ATTTTGAA-TCATATG
1 ATTTTGAATTCATATG
15300966 AT
1 AT
15300968 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:15307286 original size:49 final size:48
Alignment explanation
Indices: 15307224--15307354 Score: 181
Period size: 49 Copynumber: 2.7 Consensus size: 48
15307214 ATAAGGAAAT
*
15307224 AGAATTTAATTATTATTTAAAAGAGTTTTAGATAAATAATAATTAAAAC
1 AGAATTTAATTATTATTTAAAAGAGTTTTAAATAAATAATAATT-AAAC
* * * *
15307273 ATAATTTAATTATTATTTACAAGAGTTTTAAATAAATGATAATTAAAT
1 AGAATTTAATTATTATTTAAAAGAGTTTTAAATAAATAATAATTAAAC
*
15307321 AGAATTTAAATTATTATTTAAAAAAGCTTTTAAA
1 AGAATTT-AATTATTATTTAAAAGAG-TTTTAAA
15307355 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:15310652 original size:23 final size:25
Alignment explanation
Indices: 15310621--15310667 Score: 64
Period size: 26 Copynumber: 2.0 Consensus size: 25
15310611 TAAATTAGAA
15310621 AAATATCTC-T-AGA-AATTTTCTT
1 AAATATCTCTTCAGAGAATTTTCTT
15310643 AAATAATCTCTTCAGAGAATTTTCT
1 AAAT-ATCTCTTCAGAGAATTTTCT
15310668 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:15310879 original size:62 final size:59
Alignment explanation
Indices: 15310777--15310893 Score: 180
Period size: 62 Copynumber: 1.9 Consensus size: 59
15310767 TCACTTTAAT
* *
15310777 ATTAAAATAATATAATATTTATCAAGATAAATATTAAATTAAATTTAATATTAAGTCTG
1 ATTAAAATAATAGAATATTTATCAAGATAAACATTAAATTAAATTTAATATTAAGTCTG
*
15310836 ATTAAAATAATAGAATGTTTATCTACAAGATAAACATTAAATTAAATTTAATATTAAG
1 ATTAAAATAATAGAATATTTA--T-CAAGATAAACATTAAATTAAATTTAATATTAAG
15310894 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:15315616 original size:39 final size:39
Alignment explanation
Indices: 15315573--15315674 Score: 168
Period size: 39 Copynumber: 2.6 Consensus size: 39
15315563 AACATGTTTT
15315573 TGAGTATTGTGATATATGCTTAAATGTTATGTGATTATA
1 TGAGTATTGTGATATATGCTTAAATGTTATGTGATTATA
*
15315612 TGAGTATTGTGATATATGCTTAAATTTTATGTGATTATA
1 TGAGTATTGTGATATATGCTTAAATGTTATGTGATTATA
* * *
15315651 TGTGTAATGTGATATGTGCTTAAA
1 TGAGTATTGTGATATATGCTTAAA
15315675 AGTGAATATG
Statistics
Matches: 59, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
39 59 1.00
ACGTcount: A:0.30, C:0.03, G:0.21, T:0.46
Consensus pattern (39 bp):
TGAGTATTGTGATATATGCTTAAATGTTATGTGATTATA
Found at i:15318562 original size:15 final size:16
Alignment explanation
Indices: 15318525--15318562 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
15318515 TTTTTACTAT
15318525 TATTTCAATTTTAATTA
1 TATTT-AATTTTAATTA
*
15318542 TTTTTAATTTT-ATTA
1 TATTTAATTTTAATTA
15318557 TATTTA
1 TATTTA
15318563 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:15320270 original size:30 final size:32
Alignment explanation
Indices: 15320209--15320281 Score: 105
Period size: 30 Copynumber: 2.3 Consensus size: 32
15320199 AAATGGGAAT
15320209 GGGAAATGGGAGGAGGGGAATCGACGGAAGAG
1 GGGAAATGGGAGGAGGGGAATCGACGGAAGAG
* **
15320241 GGGAAATGGGAGGA-GGGCA-CGGTGGAAGAG
1 GGGAAATGGGAGGAGGGGAATCGACGGAAGAG
15320271 GGGAAATGGGA
1 GGGAAATGGGA
15320282 ATGGGAATGG
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
30 20 0.53
31 4 0.11
32 14 0.37
ACGTcount: A:0.33, C:0.05, G:0.55, T:0.07
Consensus pattern (32 bp):
GGGAAATGGGAGGAGGGGAATCGACGGAAGAG
Found at i:15320282 original size:15 final size:15
Alignment explanation
Indices: 15320209--15320331 Score: 54
Period size: 15 Copynumber: 7.8 Consensus size: 15
15320199 AAATGGGAAT
*
15320209 GGGAAATGGGAGGAG
1 GGGAAATGGGAAGAG
15320224 GGG-AATCGACGGAAGAG
1 GGGAAAT-G--GGAAGAG
*
15320241 GGGAAATGGGAGGA-
1 GGGAAATGGGAAGAG
* **
15320255 GGGCACGGTGGAAGAG
1 GGGAAATG-GGAAGAG
*
15320271 GGGAAATGGGAATGGGAAT
1 GGGAAATGGGAA---G-AG
*
15320290 GGGAAATGGGAGGA-
1 GGGAAATGGGAAGAG
* **
15320304 GGGCACGGTGGAAGAG
1 GGGAAATG-GGAAGAG
15320320 GGGAAATGGGAA
1 GGGAAATGGGAA
15320332 TGTGAAGATG
Statistics
Matches: 78, Mismatches: 18, Indels: 24
0.65 0.15 0.20
Matches are distributed among these distances:
14 13 0.17
15 28 0.36
16 11 0.14
17 10 0.13
18 4 0.05
19 12 0.15
ACGTcount: A:0.33, C:0.05, G:0.54, T:0.08
Consensus pattern (15 bp):
GGGAAATGGGAAGAG
Found at i:15320445 original size:29 final size:30
Alignment explanation
Indices: 15320367--15320583 Score: 357
Period size: 30 Copynumber: 7.2 Consensus size: 30
15320357 CATTGTATTT
*
15320367 GTGTATTTTAAAAATAAAGAAATATATGTA
1 GTGTATTTTAAAAATAAAAAAATATATGTA
*
15320397 GTGTATTTTTAAAATAAAAAAATATATGTA
1 GTGTATTTTAAAAATAAAAAAATATATGTA
*
15320427 GTTTATTTTAAAAATAAAAAATATATATGTA
1 GTGTATTTTAAAAATAAAAAA-ATATATGTA
15320458 GTGTATTTTAAAAATAAAAAATATATATGTA
1 GTGTATTTTAAAAATAAAAAA-ATATATGTA
*
15320489 GTGTATTTTAAAAAT-AAAATATATATGTA
1 GTGTATTTTAAAAATAAAAAAATATATGTA
15320518 GTGTATTTTAAAAAT-AAAAAATATATGTA
1 GTGTATTTTAAAAATAAAAAAATATATGTA
15320547 GTGTATTTTAAAAATAAAAAAATATATGTA
1 GTGTATTTTAAAAATAAAAAAATATATGTA
*
15320577 CTGTATT
1 GTGTATT
15320584 CGGTTTATTC
Statistics
Matches: 177, Mismatches: 8, Indels: 4
0.94 0.04 0.02
Matches are distributed among these distances:
29 52 0.29
30 71 0.40
31 54 0.31
ACGTcount: A:0.50, C:0.00, G:0.10, T:0.40
Consensus pattern (30 bp):
GTGTATTTTAAAAATAAAAAAATATATGTA
Found at i:15321255 original size:21 final size:23
Alignment explanation
Indices: 15321213--15321255 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 23
15321203 TTATCATTGT
**
15321213 TATAAAAAATATTTAATTATAAC
1 TATAAAAAATATTTAAAAATAAC
15321236 TATAAAAAA-A-TTAAAAATAA
1 TATAAAAAATATTTAAAAATAA
15321256 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:15321521 original size:21 final size:21
Alignment explanation
Indices: 15321495--15321547 Score: 79
Period size: 21 Copynumber: 2.5 Consensus size: 21
15321485 CATTGTTTCT
* *
15321495 AATCTCACTGCTACAGTACCC
1 AATCTCACCGCTACAGTAACC
*
15321516 AATCTCACCGCTACAGTAACT
1 AATCTCACCGCTACAGTAACC
15321537 AATCTCACCGC
1 AATCTCACCGC
15321548 CACCGCTATT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.30, C:0.38, G:0.09, T:0.23
Consensus pattern (21 bp):
AATCTCACCGCTACAGTAACC
Found at i:15323461 original size:20 final size:20
Alignment explanation
Indices: 15323417--15323478 Score: 88
Period size: 20 Copynumber: 3.0 Consensus size: 20
15323407 ATGTTACATT
* *
15323417 AAATGTAATAATAAATACAATA
1 AAATGTAAT-TTAAATTC-ATA
15323439 AAATGTAATTTAAATTCATA
1 AAATGTAATTTAAATTCATA
15323459 AAATGTAATTTAAATTCATA
1 AAATGTAATTTAAATTCATA
15323479 TATCACATCT
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
20 23 0.61
21 6 0.16
22 9 0.24
ACGTcount: A:0.55, C:0.05, G:0.05, T:0.35
Consensus pattern (20 bp):
AAATGTAATTTAAATTCATA
Found at i:15327851 original size:46 final size:47
Alignment explanation
Indices: 15327773--15327861 Score: 135
Period size: 46 Copynumber: 1.9 Consensus size: 47
15327763 TTCTCCAAGT
* *
15327773 CCAAGATCTTTAATATTGTCGTATCTAAATCCATAC-CTTCAGTATA
1 CCAACATCTTTAATATTGTCATATCTAAATCCATACTCTTCAGTATA
* *
15327819 CCAACATCTTTAATATTGTCATGTCTAGATCCATACTCTTCAG
1 CCAACATCTTTAATATTGTCATATCTAAATCCATACTCTTCAG
15327862 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:15328998 original size:27 final size:28
Alignment explanation
Indices: 15328968--15329022 Score: 69
Period size: 28 Copynumber: 2.0 Consensus size: 28
15328958 ATAGGCTTAT
*
15328968 ATATACAATT-TT-AATAAATAAATAAAA
1 ATATAAAATTATTAAAT-AATAAATAAAA
*
15328995 ATATAAAATTATTAAATATTAAATAAAA
1 ATATAAAATTATTAAATAATAAATAAAA
15329023 TTAATATAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
27 9 0.38
28 12 0.50
29 3 0.12
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.35
Consensus pattern (28 bp):
ATATAAAATTATTAAATAATAAATAAAA
Found at i:15330616 original size:15 final size:17
Alignment explanation
Indices: 15330598--15330638 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
15330588 AATCTAAATT
15330598 TAATAAAATT-AAA-AA
1 TAATAAAATTGAAATAA
15330613 TAATTAAAATTGAAATAA
1 TAA-TAAAATTGAAATAA
*
15330631 TAGTAAAA
1 TAATAAAA
15330639 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:15331312 original size:16 final size:17
Alignment explanation
Indices: 15331291--15331332 Score: 52
Period size: 16 Copynumber: 2.5 Consensus size: 17
15331281 AAATAAGAAA
15331291 AAAAGAAAAGAT-AAAG
1 AAAAGAAAAGATCAAAG
*
15331307 AAAAG-AAGGATCAAAG
1 AAAAGAAAAGATCAAAG
15331323 AAAGAGAAAA
1 AAA-AGAAAA
15331333 AGAGAGAATA
Statistics
Matches: 21, Mismatches: 2, Indels: 4
0.78 0.07 0.15
Matches are distributed among these distances:
15 5 0.24
16 12 0.57
17 2 0.10
18 2 0.10
ACGTcount: A:0.71, C:0.02, G:0.21, T:0.05
Consensus pattern (17 bp):
AAAAGAAAAGATCAAAG
Found at i:15332404 original size:25 final size:27
Alignment explanation
Indices: 15332345--15332407 Score: 78
Period size: 26 Copynumber: 2.4 Consensus size: 27
15332335 GCACATTTGC
15332345 ATTACATTAATAAAATTTTTCGAACAG
1 ATTACATTAATAAAATTTTTCGAACAG
* **
15332372 ATT-GATTAATAAAATTTTTC-ATGA-
1 ATTACATTAATAAAATTTTTCGAACAG
15332396 ATTACATTAATA
1 ATTACATTAATA
15332408 CTTTAAATAT
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
24 3 0.10
25 9 0.29
26 16 0.52
27 3 0.10
ACGTcount: A:0.44, C:0.08, G:0.06, T:0.41
Consensus pattern (27 bp):
ATTACATTAATAAAATTTTTCGAACAG
Found at i:15346634 original size:42 final size:42
Alignment explanation
Indices: 15346534--15346643 Score: 125
Period size: 42 Copynumber: 2.6 Consensus size: 42
15346524 AATGCCAACA
* *
15346534 TCCCAGACGTGGTCTTACATGTAATCAAACAACCATGCCACTG
1 TCCCAGACATGGTCTTACATGTAATCAAACAACCA-GCCAATG
* *
15346577 TCCTAGACAGGGTCTTACATGTAATCATATACAA-C-GCCAATG
1 TCCCAGACATGGTCTTACATGTAATCA-A-ACAACCAGCCAATG
* *
15346619 TCCCATACATGGTCTTACACGTAAT
1 TCCCAGACATGGTCTTACATGTAAT
15346644 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:15349232 original size:49 final size:48
Alignment explanation
Indices: 15349147--15349430 Score: 291
Period size: 49 Copynumber: 5.7 Consensus size: 48
15349137 GCGTACTTGT
* * * * *
15349147 ATTCATAAATAAAGTTGCTTTATTTATGCTTTATTGATTGTTTTGCTGC
1 ATTCAT-AATTAAGTTGTTTTATTTATGCTTCATTGATTATTTTGTTGC
* * *
15349196 ATTCCTATATTAAGTTGTTTTATTTATGCTTCATTGATTGTTTTGCTGC
1 ATTCATA-ATTAAGTTGTTTTATTTATGCTTCATTGATTATTTTGTTGC
* * * * *
15349245 ATTCATAAATAGAGTTGCTTTATTTATGCTTCATTCATTATTCTATTGC
1 ATTCATAATTA-AGTTGTTTTATTTATGCTTCATTGATTATTTTGTTGC
* *
15349294 ATTCATAAATAAAGTGGTGTTTTAATTATGCTTCATTGATTATTTTGTTGC
1 ATTCAT-AATTAAGT--TGTTTTATTTATGCTTCATTGATTATTTTGTTGC
*
15349345 ATTCATACA-TAGAGTTGTTTTATTTATGCTTCATTCATTATTTTGTTGC
1 ATTCATA-ATTA-AGTTGTTTTATTTATGCTTCATTGATTATTTTGTTGC
* * *
15349394 ATTCATAACTAAAGTTGTGTTTTAATTATACTTCATT
1 ATTCATAA-TTAAG-T-TGTTTTATTTATGCTTCATT
15349431 CTTTGTTTGT
Statistics
Matches: 199, Mismatches: 25, Indels: 20
0.82 0.10 0.08
Matches are distributed among these distances:
48 5 0.03
49 130 0.65
50 7 0.04
51 57 0.29
ACGTcount: A:0.25, C:0.11, G:0.13, T:0.51
Consensus pattern (48 bp):
ATTCATAATTAAGTTGTTTTATTTATGCTTCATTGATTATTTTGTTGC
Found at i:15349350 original size:100 final size:99
Alignment explanation
Indices: 15349147--15349430 Score: 390
Period size: 100 Copynumber: 2.9 Consensus size: 99
15349137 GCGTACTTGT
* * * * * * * *
15349147 ATTCATAAATAAAGTTGCTTTATTTATGCTTTATTGATTGTTTTGCTGCATTCCTATATTAAGT-
1 ATTCATAAATAGAGTTGCTTTATTTATGCTTCATTCATTATTTTGTTGCATTCATAAATAAAGTG
* *
15349211 TGTTTTATTTATGCTTCATTGATTGTTTTGCTGC
66 TGTTTTAATTATGCTTCATTGATTATTTTGCTGC
* *
15349245 ATTCATAAATAGAGTTGCTTTATTTATGCTTCATTCATTATTCTATTGCATTCATAAATAAAGTG
1 ATTCATAAATAGAGTTGCTTTATTTATGCTTCATTCATTATTTTGTTGCATTCATAAATAAAGT-
*
15349310 GTGTTTTAATTATGCTTCATTGATTATTTTGTTGC
65 GTGTTTTAATTATGCTTCATTGATTATTTTGCTGC
* * *
15349345 ATTCATACATAGAGTTGTTTTATTTATGCTTCATTCATTATTTTGTTGCATTCATAACTAAAGTT
1 ATTCATAAATAGAGTTGCTTTATTTATGCTTCATTCATTATTTTGTTGCATTCATAAATAAAG-T
*
15349410 GTGTTTTAATTATACTTCATT
65 GTGTTTTAATTATGCTTCATT
15349431 CTTTGTTTGT
Statistics
Matches: 164, Mismatches: 19, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
98 54 0.33
100 109 0.66
101 1 0.01
ACGTcount: A:0.25, C:0.11, G:0.13, T:0.51
Consensus pattern (99 bp):
ATTCATAAATAGAGTTGCTTTATTTATGCTTCATTCATTATTTTGTTGCATTCATAAATAAAGTG
TGTTTTAATTATGCTTCATTGATTATTTTGCTGC
Found at i:15349692 original size:21 final size:21
Alignment explanation
Indices: 15349666--15349710 Score: 90
Period size: 21 Copynumber: 2.1 Consensus size: 21
15349656 AAACAAGTGA
15349666 ATTTTCATCAACTTCATGACT
1 ATTTTCATCAACTTCATGACT
15349687 ATTTTCATCAACTTCATGACT
1 ATTTTCATCAACTTCATGACT
15349708 ATT
1 ATT
15349711 AGAATTCCAG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.29, C:0.22, G:0.04, T:0.44
Consensus pattern (21 bp):
ATTTTCATCAACTTCATGACT
Found at i:15355335 original size:49 final size:49
Alignment explanation
Indices: 15355260--15355564 Score: 384
Period size: 49 Copynumber: 6.2 Consensus size: 49
15355250 TAAAGCATAC
*
15355260 TTGCATTCATAAATAAAGTT-TCTTTATTTATGCTTCATTGATTGTTTCG
1 TTGCATTCATAAATAAAGTTGT-TTTATTTATGCTTCATTGATTGTTTTG
* *
15355309 CTGCATTCATAAATAAAGTTGTTTTATTTATGCTTCATTGATTATTTTG
1 TTGCATTCATAAATAAAGTTGTTTTATTTATGCTTCATTGATTGTTTTG
* * * * * * *
15355358 CTGCATTCATAAACAGAGTTGCTTTATTTATGCTTTATTCATTGTTCTG
1 TTGCATTCATAAATAAAGTTGTTTTATTTATGCTTCATTGATTGTTTTG
* * *
15355407 TTGCATTCATAAATAAAGTGATGTTTTAATTATGCTTCATTGACTATTTTG
1 TTGCATTCATAAATAAAGT--TGTTTTATTTATGCTTCATTGATTGTTTTG
* * *
15355458 TTGCATTCATACATAGAGTTGTTTTATTTATGCTTCATTTATTGTTTTG
1 TTGCATTCATAAATAAAGTTGTTTTATTTATGCTTCATTGATTGTTTTG
*
15355507 TTGCATTCATAAATAAAGTGGTGTTTTAATTATGCTTCATT--TT-TTTTG
1 TTGCATTCATAAATAAAGT--TGTTTTATTTATGCTTCATTGATTGTTTTG
15355555 TTGCATTCAT
1 TTGCATTCAT
15355565 TTCAGTTATG
Statistics
Matches: 222, Mismatches: 29, Indels: 11
0.85 0.11 0.04
Matches are distributed among these distances:
48 15 0.07
49 147 0.66
50 1 0.00
51 59 0.27
ACGTcount: A:0.25, C:0.11, G:0.13, T:0.50
Consensus pattern (49 bp):
TTGCATTCATAAATAAAGTTGTTTTATTTATGCTTCATTGATTGTTTTG
Found at i:15355468 original size:100 final size:97
Alignment explanation
Indices: 15355260--15355564 Score: 418
Period size: 100 Copynumber: 3.1 Consensus size: 97
15355250 TAAAGCATAC
* * * *
15355260 TTGCATTCATAAATAAAGTTTCTTTATTTATGCTTCATTGATTGTTTCGCTGCATTCATAAATAA
1 TTGCATTCATAAATAGAGTTGCTTTATTTATGCTTCATTCATTGTTT-GTTGCATTCATAAATAA
*
15355325 AGT-TGTTTTATTTATGCTTCATTGATTATTTTG
65 AGTGTGTTTTAATTATGCTTCATTGA-TATTTTG
* * *
15355358 CTGCATTCATAAACAGAGTTGCTTTATTTATGCTTTATTCATTGTTCTGTTGCATTCATAAATAA
1 TTGCATTCATAAATAGAGTTGCTTTATTTATGCTTCATTCATTGTT-TGTTGCATTCATAAATAA
15355423 AGTGATGTTTTAATTATGCTTCATTGACTATTTTG
65 AGTG-TGTTTTAATTATGCTTCATTGA-TATTTTG
* * *
15355458 TTGCATTCATACATAGAGTTGTTTTATTTATGCTTCATTTATTGTTTTGTTGCATTCATAAATAA
1 TTGCATTCATAAATAGAGTTGCTTTATTTATGCTTCATTCATTG-TTTGTTGCATTCATAAATAA
*
15355523 AGTGGTGTTTTAATTATGCTTCATT--TTTTTTG
65 AGT-GTGTTTTAATTATGCTTCATTGATATTTTG
15355555 TTGCATTCAT
1 TTGCATTCAT
15355565 TTCAGTTATG
Statistics
Matches: 186, Mismatches: 16, Indels: 11
0.87 0.08 0.05
Matches are distributed among these distances:
97 16 0.09
98 59 0.32
99 1 0.01
100 107 0.58
101 3 0.02
ACGTcount: A:0.25, C:0.11, G:0.13, T:0.50
Consensus pattern (97 bp):
TTGCATTCATAAATAGAGTTGCTTTATTTATGCTTCATTCATTGTTTGTTGCATTCATAAATAAA
GTGTGTTTTAATTATGCTTCATTGATATTTTG
Found at i:15357410 original size:81 final size:82
Alignment explanation
Indices: 15357319--15357484 Score: 316
Period size: 81 Copynumber: 2.0 Consensus size: 82
15357309 TAAATACAAT
*
15357319 TTTAATTATTACTTAAGATAACTATAATTTTATTATATTCATTATATATACCTTCACGCTAATTT
1 TTTAATTATTACTTAAGATAAATATAATTTTATTATATTCATTATATATACCTTCACGCTAATTT
15357384 AATGTTTTTAATA-TAA
66 AATGTTTTTAATAGTAA
15357400 TTTAATTATTACTTAAGATAAATATAATTTTATTATATTCATTATATATACCTTCACGCTAATTT
1 TTTAATTATTACTTAAGATAAATATAATTTTATTATATTCATTATATATACCTTCACGCTAATTT
15357465 AATGTTTTTAATAGTAA
66 AATGTTTTTAATAGTAA
15357482 TTT
1 TTT
15357485 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:0.50
Consensus pattern (82 bp):
TTTAATTATTACTTAAGATAAATATAATTTTATTATATTCATTATATATACCTTCACGCTAATTT
AATGTTTTTAATAGTAA
Found at i:15364471 original size:16 final size:16
Alignment explanation
Indices: 15364450--15364489 Score: 62
Period size: 16 Copynumber: 2.5 Consensus size: 16
15364440 CCTTCCCTAA
*
15364450 GAACTTTTATTCTTCT
1 GAACTTCTATTCTTCT
15364466 GAACTTCTATTCTTCT
1 GAACTTCTATTCTTCT
*
15364482 AAACTTCT
1 GAACTTCT
15364490 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:15368454 original size:16 final size:17
Alignment explanation
Indices: 15368428--15368464 Score: 58
Period size: 16 Copynumber: 2.2 Consensus size: 17
15368418 ATTTAATTGG
*
15368428 TTTAGTTGTTTTTTTAT
1 TTTAGTTGTTTATTTAT
15368445 TTTA-TTGTTTATTTAT
1 TTTAGTTGTTTATTTAT
15368461 TTTA
1 TTTA
15368465 ATTATCTAGT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 15 0.79
17 4 0.21
ACGTcount: A:0.16, C:0.00, G:0.08, T:0.76
Consensus pattern (17 bp):
TTTAGTTGTTTATTTAT
Found at i:15371812 original size:27 final size:28
Alignment explanation
Indices: 15371754--15371806 Score: 72
Period size: 27 Copynumber: 1.9 Consensus size: 28
15371744 ACTTTAGCCA
* *
15371754 TTTTTTATTTTAATTTTAATATTTTTTG
1 TTTTTTATTTTAATTTTAACATTTTATG
*
15371782 TTTTTTA-TTTAATTTTTACATTTTA
1 TTTTTTATTTTAATTTTAACATTTTA
15371807 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:15375092 original size:8 final size:9
Alignment explanation
Indices: 15375074--15375101 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
15375064 CCAAGCCCTA
15375074 TTTTTATTT
1 TTTTTATTT
15375083 TTTTTATTT
1 TTTTTATTT
15375092 TTTTTATTT
1 TTTTTATTT
15375101 T
1 T
15375102 CTAGATTTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.11, C:0.00, G:0.00, T:0.89
Consensus pattern (9 bp):
TTTTTATTT
Found at i:15392467 original size:44 final size:47
Alignment explanation
Indices: 15392370--15392470 Score: 113
Period size: 44 Copynumber: 2.3 Consensus size: 47
15392360 TAGACCGCCT
* *
15392370 GGGAGATAAG-GTTCGCTGTTCTCAGTCTGCCCCACTGCAACTTTAA
1 GGGAGATAAGACTTCGCTGTTCTCAGTCTGCCCCACTGCAACTCTAA
* * * *
15392416 GGG-GATAAGACTT-GCT-TTCTCCGTCTGCTCCGCTGCAAC-CTCA
1 GGGAGATAAGACTTCGCTGTTCTCAGTCTGCCCCACTGCAACTCTAA
15392459 GGGAGATAAGAC
1 GGGAGATAAGAC
15392471 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:15392725 original size:218 final size:218
Alignment explanation
Indices: 15392395--15394169 Score: 2563
Period size: 218 Copynumber: 8.1 Consensus size: 218
15392385 CTGTTCTCAG
* * * * *
15392395 TCTGCCCCACTGCAACTTTAAGGGGATAAGACTTGCTTTCTCCGTCTGCTCCGCTGCAACCTCAG
1 TCTGCCCCACTGCAACTTCAAGGGGATAAGACCTGCTTACTCAGTCTGCTCCACTGCAACCTCAG
* * * *
15392460 GGAGATAAGACCTGATGTGATCTACTCTGCTGCAACTTCAGAGAGATAAGATCTATTACTTTAAT
66 GGAGATAAGACCTGATGCGATCCACTCTACTGCAACTTCAGAGAGATAAGATCCATTACTTTAAT
* * * * * * * *
15392525 CCGCTCCACTAAAATTTTAGGGAGATAAGATTATCAGCTTTAATCTGCTTCACTTCAACCTCAGG
131 CCGCTCCACTACAACTTCAGGGAGATAGGATTATCGGCTTCAATCTGCTCCACTGCAACCTCAGG
15392590 GAGATAAGATTTGCCATCTTCGA
196 GAGATAAGATTTGCCATCTTCGA
* * * * *
15392613 TCTGCCCCACTTCAACTTCAAGGGGATAAGACCTACTTACTCAGCCTGTTCCACTACAACCTCAG
1 TCTGCCCCACTGCAACTTCAAGGGGATAAGACCTGCTTACTCAGTCTGCTCCACTGCAACCTCAG
* * *
15392678 GGAGATAAGACTTGATGCGATCCACTCTA-TGGCAATTTCAAAGAGATAAGATCCATTACTTTAA
66 GGAGATAAGACCTGATGCGATCCACTCTACT-GCAACTTCAGAGAGATAAGATCCATTACTTTAA
* *
15392742 TCCGCTCCACTACAAATTCAGGGAGATAGGATTATCGGCTTCAATCTGCTCCACTGCAACCGCAG
130 TCCGCTCCACTACAACTTCAGGGAGATAGGATTATCGGCTTCAATCTGCTCCACTGCAACCTCAG
* *
15392807 GGAGATAAGATTTTCCATCTTCGG
195 GGAGATAAGATTTGCCATCTTCGA
* * * *
15392831 TCTGTCCCACTACAACTTCAGGGGGATAAGACTTGCTTACTCAGTCTGCTCCACTGCAACCTCAG
1 TCTGCCCCACTGCAACTTCAAGGGGATAAGACCTGCTTACTCAGTCTGCTCCACTGCAACCTCAG
* * *
15392896 AGAGATAAAACCTGATGCGATCCACTCTACTACAACTTCAGAGAGATAAGATCCATTACTTTAAT
66 GGAGATAAGACCTGATGCGATCCACTCTACTGCAACTTCAGAGAGATAAGATCCATTACTTTAAT
* * * *
15392961 CCGCTCCGCTACAACTTCAGAGAGATAGGATTATCGGCTTTAATCTGCTCCACTGCAAACTCAGG
131 CCGCTCCACTACAACTTCAGGGAGATAGGATTATCGGCTTCAATCTGCTCCACTGCAACCTCAGG
*
15393026 GAGATAAGATTTGTCATCTTCGA
196 GAGATAAGATTTGCCATCTTCGA
* * * *
15393049 TCTGTCCCACTACAAC-TCATA-AGGATAAGTCCTGCTTACTCAGTCTGCTCCACTGCAACCTCA
1 TCTGCCCCACTGCAACTTCA-AGGGGATAAGACCTGCTTACTCAGTCTGCTCCACTGCAACCTCA
* * *
15393112 GGGAGATAAAACCTGATGCGATCCACTCTACTGCAACTTCAGAGAGAAAAGATCTATTACTTTAA
65 GGGAGATAAGACCTGATGCGATCCACTCTACTGCAACTTCAGAGAGATAAGATCCATTACTTTAA
* * * * *
15393177 TCTGCTCCGCGACAACTTCAAGGAGATAGGATTATCGGCTTCAATCTGCTCTACTGCAACCTCAG
130 TCCGCTCCACTACAACTTCAGGGAGATAGGATTATCGGCTTCAATCTGCTCCACTGCAACCTCAG
* * *
15393242 GGAGATAATATGTGCCATCTTTGA
195 GGAGATAAGATTTGCCATCTTCGA
* *
15393266 TCTGCCCCACTGCAACTT-TAGAGGGATAAGACCTGCTTACTCAGTTTGCTCCACTGCAACCTCA
1 TCTGCCCCACTGCAACTTCAAG-GGGATAAGACCTGCTTACTCAGTCTGCTCCACTGCAACCTCA
15393330 GGGAGATAAGACCTGATGCGATCCACTCTA-TGGCAACTTCAGAGAGATAAGATCCATTACTTTA
65 GGGAGATAAGACCTGATGCGATCCACTCTACT-GCAACTTCAGAGAGATAAGATCCATTACTTTA
* *
15393394 ATCCGCTCAACTACAATTTCAGGGAGATAGGATTATCGGCTTCAATCTGCTCCACTGCAACCTCA
129 ATCCGCTCCACTACAACTTCAGGGAGATAGGATTATCGGCTTCAATCTGCTCCACTGCAACCTCA
*
15393459 AGGAGATAAGATTTGCCATCTTCGA
194 GGGAGATAAGATTTGCCATCTTCGA
* * *
15393484 TCTGCCCCACTGCAACTTCAGGGGGATAAGACCTGCTTACTCAGTCTACTCCGCTGCAACCTCAG
1 TCTGCCCCACTGCAACTTCAAGGGGATAAGACCTGCTTACTCAGTCTGCTCCACTGCAACCTCAG
15393549 GGAGATAAGACCTGATGCGATCCACTCTACTGCAACTTCAGAGAGATAAGATCCATTACTTTAAT
66 GGAGATAAGACCTGATGCGATCCACTCTACTGCAACTTCAGAGAGATAAGATCCATTACTTTAAT
* * * * *
15393614 TCGCTCTACTACAATTTCAAGGAGATAGGATTATCGGCTTCAATCTGCTCCACTGCAACCTCAGA
131 CCGCTCCACTACAACTTCAGGGAGATAGGATTATCGGCTTCAATCTGCTCCACTGCAACCTCAGG
* *
15393679 GAGATAAGATTTGTCATCTTTGA
196 GAGATAAGATTTGCCATCTTCGA
* * **
15393702 TCTGCCCCACTGCAACTTCAGGGGGATAATACCTGCTTACTCAGTCTGCTCTGCTGCAACCTCAG
1 TCTGCCCCACTGCAACTTCAAGGGGATAAGACCTGCTTACTCAGTCTGCTCCACTGCAACCTCAG
* *
15393767 GGAGATAAGACCTGATGCGATCCATTCTACTGCAACTTCAGAGAGATAAGATCTATTACTTTAAT
66 GGAGATAAGACCTGATGCGATCCACTCTACTGCAACTTCAGAGAGATAAGATCCATTACTTTAAT
* * *
15393832 CTGTTCCGCTACAACTTCAGGGAGATAGGATTATCGGCTTCAATCTGCTCCACTGCAACCTCAGG
131 CCGCTCCACTACAACTTCAGGGAGATAGGATTATCGGCTTCAATCTGCTCCACTGCAACCTCAGG
*
15393897 GAGATAAGATTTGCCATCTTCAA
196 GAGATAAGATTTGCCATCTTCGA
* * * * *** *
15393920 TCTGCCCCACTGCAACTT-TAGGAGGATGAGACCTACTTACTTAGTCTGCTGTGCTACAACCTCA
1 TCTGCCCCACTGCAACTTCAAGG-GGATAAGACCTGCTTACTCAGTCTGCTCCACTGCAACCTCA
* * *
15393984 GGGAGATAAGACCTGATGCGATCCACTCTACTGTAACTTTAGAGAGATAAGATCTATTACTTTAA
65 GGGAGATAAGACCTGATGCGATCCACTCTACTGCAACTTCAGAGAGATAAGATCCATTACTTTAA
* * *
15394049 TCCGCTCCGCTACAACTTCAGGGAGATAGGATTATCGACTTCAATCTGCCCCACTGCAACCTCAG
130 TCCGCTCCACTACAACTTCAGGGAGATAGGATTATCGGCTTCAATCTGCTCCACTGCAACCTCAG
* *
15394114 AGAGATAAGATTTTCCATCTTCGA
195 GGAGATAAGATTTGCCATCTTCGA
* **
15394138 TCTGCCCCACTACAACTTCAATAGGATAAGAC
1 TCTGCCCCACTGCAACTTCAAGGGGATAAGAC
15394170 ATGTATAATG
Statistics
Matches: 1405, Mismatches: 141, Indels: 22
0.90 0.09 0.01
Matches are distributed among these distances:
216 1 0.00
217 199 0.14
218 1201 0.85
219 4 0.00
ACGTcount: A:0.28, C:0.26, G:0.19, T:0.27
Consensus pattern (218 bp):
TCTGCCCCACTGCAACTTCAAGGGGATAAGACCTGCTTACTCAGTCTGCTCCACTGCAACCTCAG
GGAGATAAGACCTGATGCGATCCACTCTACTGCAACTTCAGAGAGATAAGATCCATTACTTTAAT
CCGCTCCACTACAACTTCAGGGAGATAGGATTATCGGCTTCAATCTGCTCCACTGCAACCTCAGG
GAGATAAGATTTGCCATCTTCGA
Found at i:15394075 original size:44 final size:44
Alignment explanation
Indices: 15392492--15394124 Score: 331
Period size: 44 Copynumber: 37.5 Consensus size: 44
15392482 TACTCTGCTG
* *
15392492 CAACTTCAGAGAGATAAGATCTATTACTTTAATCCGCTCCACTA
1 CAACTTCAGGGAGATAAGATCTATTACTTTAATCTGCTCCACTA
* * * * * *
15392536 AAATTTTAGGGAGATAAGAT-TATCAGCTTTAATCTGCTTCACTT
1 CAACTTCAGGGAGATAAGATCTATTA-CTTTAATCTGCTCCACTA
* * *** ** * *
15392580 CAACCTCAGGGAGATAAGATTTGCCATCTTCGATCTGCCCCACTT
1 CAACTTCAGGGAGATAAGATCTATTA-CTTTAATCTGCTCCACTA
* * ** *
15392625 CAACTTCAAGGG-GATAAGACCTACTTAC-TCAGCCTGTTCCACTA
1 CAACTTC-AGGGAGATAAGATCTA-TTACTTTAATCTGCTCCACTA
* * *** ** * *
15392669 CAACCTCAGGGAGATAAGA-CT-TGA-TGCGATCCACTCTA-TGG
1 CAACTTCAGGGAGATAAGATCTATTACTTTAATCTGCTCCACT-A
* ** * *
15392710 CAATTTCAAAGAGATAAGATCCATTACTTTAATCCGCTCCACTA
1 CAACTTCAGGGAGATAAGATCTATTACTTTAATCTGCTCCACTA
* * ** * *
15392754 CAAATTCAGGGAGATAGGAT-TATCGGCTTCAATCTGCTCCACTG
1 CAACTTCAGGGAGATAAGATCTAT-TACTTTAATCTGCTCCACTA
** ***
15392798 CAACCGCAGGGAGATAAGAT-T-TTCCATCTTCGGTCTG-TCCCACTA
1 CAACTTCAGGGAGATAAGATCTATT--A-CTTTAATCTGCT-CCACTA
* * * * *
15392843 CAACTTCAGGGGGATAAGA-CTTGCTTAC-TCAGTCTGCTCCACTG
1 CAACTTCAGGGAGATAAGATC-T-ATTACTTTAATCTGCTCCACTA
* * * * * * ** *
15392887 CAACCTCAGAGAGATAAAACCTGA-TGC---GATCCACTCTACTA
1 CAACTTCAGGGAGATAAGATCT-ATTACTTTAATCTGCTCCACTA
* * * *
15392928 CAACTTCAGAGAGATAAGATCCATTACTTTAATCCGCTCCGCTA
1 CAACTTCAGGGAGATAAGATCTATTACTTTAATCTGCTCCACTA
* * ** *
15392972 CAACTTCAGAGAGATAGGAT-TATCGGCTTTAATCTGCTCCACTG
1 CAACTTCAGGGAGATAAGATCTAT-TACTTTAATCTGCTCCACTA
* * * **
15393016 CAAAC-TCAGGGAGATAAGATTTGTCATCTTCGATCTG-TCCCACTA
1 C-AACTTCAGGGAGATAAGATCTATTA-CTTTAATCTGCT-CCACTA
** * * * *
15393061 CAAC-TCA-TAAGGATAAG-TCCTGCTTAC-TCAGTCTGCTCCACTG
1 CAACTTCAGGGA-GATAAGAT-CT-ATTACTTTAATCTGCTCCACTA
* * * * * ** * *
15393104 CAACCTCAGGGAGATAAAACCTGA-TGC---GATCCACTCTACTG
1 CAACTTCAGGGAGATAAGATCT-ATTACTTTAATCTGCTCCACTA
* * * *
15393145 CAACTTCAGAGAGAAAAGATCTATTACTTTAATCTGCTCCGCGA
1 CAACTTCAGGGAGATAAGATCTATTACTTTAATCTGCTCCACTA
* * ** * * *
15393189 CAACTTCAAGGAGATAGGAT-TATCGGCTTCAATCTGCTCTACTG
1 CAACTTCAGGGAGATAAGATCTAT-TACTTTAATCTGCTCCACTA
* * * *** * * *
15393233 CAACCTCAGGGAGATAATATGTGCCATCTTTGATCTGCCCCACTG
1 CAACTTCAGGGAGATAAGATCTATTA-CTTTAATCTGCTCCACTA
* * * * * * *
15393278 CAACTTTAGAGG-GATAAGACCTGCTTAC-TCAGTTTGCTCCACTG
1 CAACTTCAG-GGAGATAAGATCT-ATTACTTTAATCTGCTCCACTA
* * * * ** * *
15393322 CAACCTCAGGGAGATAAGACCTGA-TGC---GATCCACTCTA-TGG
1 CAACTTCAGGGAGATAAGATCT-ATTACTTTAATCTGCTCCACT-A
* * * *
15393363 CAACTTCAGAGAGATAAGATCCATTACTTTAATCCGCTCAACTA
1 CAACTTCAGGGAGATAAGATCTATTACTTTAATCTGCTCCACTA
* * ** * *
15393407 CAATTTCAGGGAGATAGGAT-TATCGGCTTCAATCTGCTCCACTG
1 CAACTTCAGGGAGATAAGATCTAT-TACTTTAATCTGCTCCACTA
* * * *** ** * *
15393451 CAACCTCAAGGAGATAAGATTTGCCATCTTCGATCTGCCCCACTG
1 CAACTTCAGGGAGATAAGATCTATTA-CTTTAATCTGCTCCACTA
* * * * * * * *
15393496 CAACTTCAGGGGGATAAGACCTGCTTAC-TCAGTCTACTCCGCTG
1 CAACTTCAGGGAGATAAGATCT-ATTACTTTAATCTGCTCCACTA
* * * * ** * *
15393540 CAACCTCAGGGAGATAAGACCTGA-TGC---GATCCACTCTACTG
1 CAACTTCAGGGAGATAAGATCT-ATTACTTTAATCTGCTCCACTA
* * *
15393581 CAACTTCAGAGAGATAAGATCCATTACTTTAAT-TCGCTCTACTA
1 CAACTTCAGGGAGATAAGATCTATTACTTTAATCT-GCTCCACTA
* * * ** * *
15393625 CAATTTCAAGGAGATAGGAT-TATCGGCTTCAATCTGCTCCACTG
1 CAACTTCAGGGAGATAAGATCTAT-TACTTTAATCTGCTCCACTA
* * * * * * * *
15393669 CAACCTCAGAGAGATAAGATTTGTCATCTTTGATCTGCCCCACTG
1 CAACTTCAGGGAGATAAGATCTATTA-CTTTAATCTGCTCCACTA
* * * * * * ** *
15393714 CAACTTCAGGGGGATAATACCTGCTTAC-TCAGTCTGCTCTGCTG
1 CAACTTCAGGGAGATAAGATCT-ATTACTTTAATCTGCTCCACTA
* * * * ** *
15393758 CAACCTCAGGGAGATAAGACCTGA-TGCGATCCAT-T-CT--ACTG
1 CAACTTCAGGGAGATAAGATCT-ATTAC-TTTAATCTGCTCCACTA
* * *
15393799 CAACTTCAGAGAGATAAGATCTATTACTTTAATCTGTTCCGCTA
1 CAACTTCAGGGAGATAAGATCTATTACTTTAATCTGCTCCACTA
* ** * *
15393843 CAACTTCAGGGAGATAGGAT-TATCGGCTTCAATCTGCTCCACTG
1 CAACTTCAGGGAGATAAGATCTAT-TACTTTAATCTGCTCCACTA
* * *** * * *
15393887 CAACCTCAGGGAGATAAGATTTGCCATCTTCAATCTGCCCCACTG
1 CAACTTCAGGGAGATAAGATCTATTA-CTTTAATCTGCTCCACTA
* * * * ***
15393932 CAACTTTA-GGAGGATGAGACCTACTTAC-TTAGTCTGCTGTGCTA
1 CAACTTCAGGGA-GATAAGATCTA-TTACTTTAATCTGCTCCACTA
* * * * ** * *
15393976 CAACCTCAGGGAGATAAGACCTGA-TGC---GATCCACTCTACTG
1 CAACTTCAGGGAGATAAGATCT-ATTACTTTAATCTGCTCCACTA
* * * * *
15394017 TAACTTTAGAGAGATAAGATCTATTACTTTAATCCGCTCCGCTA
1 CAACTTCAGGGAGATAAGATCTATTACTTTAATCTGCTCCACTA
* * * * *
15394061 CAACTTCAGGGAGATAGGAT-TATCGACTTCAATCTGCCCCACTG
1 CAACTTCAGGGAGATAAGATCTAT-TACTTTAATCTGCTCCACTA
* *
15394105 CAACCTCAGAGAGATAAGAT
1 CAACTTCAGGGAGATAAGAT
15394125 TTTCCATCTT
Statistics
Matches: 1132, Mismatches: 370, Indels: 174
0.68 0.22 0.10
Matches are distributed among these distances:
40 11 0.01
41 184 0.16
42 2 0.00
43 63 0.06
44 629 0.56
45 227 0.20
46 14 0.01
48 2 0.00
ACGTcount: A:0.29, C:0.26, G:0.19, T:0.27
Consensus pattern (44 bp):
CAACTTCAGGGAGATAAGATCTATTACTTTAATCTGCTCCACTA
Found at i:15394142 original size:45 final size:44
Alignment explanation
Indices: 15394024--15394153 Score: 127
Period size: 44 Copynumber: 2.9 Consensus size: 44
15394014 CTGTAACTTT
* * * * * *
15394024 AGAGAGATAAGATCTAT-TACTTTAATCCGCTCCGCTACAACTTC
1 AGAGAGATAAGAT-TATCCACTTCAATCTGCCCCACTACAACCTC
* * * *
15394068 AGGGAGATAGGATTATCGACTTCAATCTGCCCCACTGCAACCTC
1 AGAGAGATAAGATTATCCACTTCAATCTGCCCCACTACAACCTC
* *
15394112 AGAGAGATAAGATTTTCCATCTTCGATCTGCCCCACTACAAC
1 AGAGAGATAAGATTATCCA-CTTCAATCTGCCCCACTACAAC
15394154 TTCAATAGGA
Statistics
Matches: 69, Mismatches: 15, Indels: 3
0.79 0.17 0.03
Matches are distributed among these distances:
43 3 0.04
44 46 0.67
45 20 0.29
ACGTcount: A:0.30, C:0.28, G:0.16, T:0.26
Consensus pattern (44 bp):
AGAGAGATAAGATTATCCACTTCAATCTGCCCCACTACAACCTC
Found at i:15396278 original size:6 final size:6
Alignment explanation
Indices: 15396275--15396320 Score: 74
Period size: 6 Copynumber: 7.7 Consensus size: 6
15396265 TTTCTTTTAT
* *
15396275 TTTTTA TTTTGA TTTTGA TTTTGA TTTTTA TTTTGA TTTTGA TTTT
1 TTTTGA TTTTGA TTTTGA TTTTGA TTTTGA TTTTGA TTTTGA TTTT
15396321 TCTCCTTTTT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
6 37 1.00
ACGTcount: A:0.15, C:0.00, G:0.11, T:0.74
Consensus pattern (6 bp):
TTTTGA
Found at i:15396278 original size:22 final size:22
Alignment explanation
Indices: 15396235--15396279 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 22
15396225 CGCCTTGGCC
*
15396235 TCTTCTTTTTCTTTTTTCTTTT
1 TCTTCTTTTTCTTTTATCTTTT
15396257 TCTTCTTCTTTCTTTTAT-TTTT
1 TCTTCTT-TTTCTTTTATCTTTT
15396279 T
1 T
15396280 ATTTTGATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 12 0.57
23 9 0.43
ACGTcount: A:0.02, C:0.18, G:0.00, T:0.80
Consensus pattern (22 bp):
TCTTCTTTTTCTTTTATCTTTT
Found at i:15403058 original size:25 final size:24
Alignment explanation
Indices: 15403030--15403082 Score: 63
Period size: 25 Copynumber: 2.1 Consensus size: 24
15403020 TTATAAATTG
*
15403030 TAATATATATTTATT-ATTAAAATAT
1 TAATATA-ATTT-TTAAATAAAATAT
15403055 TAATATAATTTTTAAAATAAAATAT
1 TAATATAATTTTT-AAATAAAATAT
15403080 TAA
1 TAA
15403083 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:15404850 original size:123 final size:120
Alignment explanation
Indices: 15404655--15405002 Score: 500
Period size: 123 Copynumber: 2.8 Consensus size: 120
15404645 TAATCTCGAG
* ** *
15404655 TTGAAGTTTCTGATAAAATAGTATAAAATCACTTCTAGCATGATGCTATTTGAGAAGAATTTGTG
1 TTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTA--A-GATGCTATTTGAGAAGAATTTGTG
15404720 AAATCGCGCCCTCGTGGACGTGCTTTTGCTACAGTAGGTCACGGAAGAAATAATCATTTTT
63 AAATCGCGCCCTCGTGGACGTGCTTTTGCTACAGTAGGTCACGGAAGAAAT-AT--TTTTT
15404781 TTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTAAGATGCTATTTGAGAAGAATTTGTGAAA
1 TTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTAAGATGCTATTTGAGAAGAATTTGTGAAA
* * * * * *
15404846 TCGCGGCATCGT-CAGCGCGCTTTTGCTACAGTAGGTCATGTAAGAAATATTTTTT
66 TCGCGCCCTCGTGGA-CGTGCTTTTGCTACAGTAGGTCACGGAAGAAATATTTTTT
*
15404901 TTGACGTTTCTGAGCAAATAATATAAAATCGCTTCTAGCAAGATGCTATTTGAGAAGAATTTGTG
1 TTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCT---AAGATGCTATTTGAGAAGAATTTGTG
15404966 AAATCGCGCCCTCGTGGACGTGCTTTTGCTACAGTAG
63 AAATCGCGCCCTCGTGGACGTGCTTTTGCTACAGTAG
15405003 CATGTTTGGG
Statistics
Matches: 202, Mismatches: 15, Indels: 13
0.88 0.07 0.06
Matches are distributed among these distances:
120 40 0.20
122 3 0.01
123 124 0.61
124 2 0.01
126 33 0.16
ACGTcount: A:0.30, C:0.16, G:0.22, T:0.33
Consensus pattern (120 bp):
TTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTAAGATGCTATTTGAGAAGAATTTGTGAAA
TCGCGCCCTCGTGGACGTGCTTTTGCTACAGTAGGTCACGGAAGAAATATTTTTT
Found at i:15408151 original size:61 final size:61
Alignment explanation
Indices: 15408082--15408270 Score: 155
Period size: 61 Copynumber: 3.2 Consensus size: 61
15408072 TTAAATTATA
15408082 TAAAATTATTAATTGTTAGTACCAGTCAAAACATTTTTCTAAATCTAACATTATGTGAATG
1 TAAAATTATTAATTGTTAGTACCAGTCAAAACATTTTTCTAAATCTAACATTATGTGAATG
* * ** ** * ** * *
15408143 TAAAATTATTAA--GTCA-AAAAATTGT-ATTA-ATGGTTAGTAAAAT-TATCA-AAT-T--ATG
1 TAAAATTATTAATTGTTAGTACCA--GTCAAAACAT-TTTTCT-AAATCTAACATTATGTGAATG
* *
15408198 TAAAATTATTATTTGTTAGTACCAGTCAAAACATTTTTCCAAATCTAACATTATGTGAATG
1 TAAAATTATTAATTGTTAGTACCAGTCAAAACATTTTTCTAAATCTAACATTATGTGAATG
15408259 TAAAATTATTAA
1 TAAAATTATTAA
15408271 GTCAAAAAAT
Statistics
Matches: 89, Mismatches: 25, Indels: 28
0.63 0.18 0.20
Matches are distributed among these distances:
55 14 0.16
56 6 0.07
57 12 0.13
58 12 0.13
59 13 0.15
60 6 0.07
61 26 0.29
ACGTcount: A:0.42, C:0.09, G:0.10, T:0.39
Consensus pattern (61 bp):
TAAAATTATTAATTGTTAGTACCAGTCAAAACATTTTTCTAAATCTAACATTATGTGAATG
Found at i:15408242 original size:116 final size:116
Alignment explanation
Indices: 15408033--15408386 Score: 645
Period size: 116 Copynumber: 3.1 Consensus size: 116
15408023 TGATAAATTG
* * *
15408033 TATTAAGTCAAAAAATTGTATTAATGGTTAGTAAAATTATTAAATTATATAAAATTATTAATTGT
1 TATTAAGTCAAAAAATTGTATTAATGGTTAGTAAAATTATCAAATTATGTAAAATTATTATTTGT
*
15408098 TAGTACCAGTCAAAACATTTTTCTAAATCTAACATTATGTGAATGTAAAAT
66 TAGTACCAGTCAAAACATTTTTCCAAATCTAACATTATGTGAATGTAAAAT
15408149 TATTAAGTCAAAAAATTGTATTAATGGTTAGTAAAATTATCAAATTATGTAAAATTATTATTTGT
1 TATTAAGTCAAAAAATTGTATTAATGGTTAGTAAAATTATCAAATTATGTAAAATTATTATTTGT
15408214 TAGTACCAGTCAAAACATTTTTCCAAATCTAACATTATGTGAATGTAAAAT
66 TAGTACCAGTCAAAACATTTTTCCAAATCTAACATTATGTGAATGTAAAAT
15408265 TATTAAGTCAAAAAATTGTATTAATGGTTAGTAAAATTATCAAATTATGTAAAATTATTATTTGT
1 TATTAAGTCAAAAAATTGTATTAATGGTTAGTAAAATTATCAAATTATGTAAAATTATTATTTGT
* * *
15408330 TAGTACCAGTCAAAACATTTTTCCAAATCTAACATAACGTGAATGTAACAT
66 TAGTACCAGTCAAAACATTTTTCCAAATCTAACATTATGTGAATGTAAAAT
15408381 TATTAA
1 TATTAA
15408387 CTTAGTTTAG
Statistics
Matches: 231, Mismatches: 7, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
116 231 1.00
ACGTcount: A:0.43, C:0.08, G:0.10, T:0.39
Consensus pattern (116 bp):
TATTAAGTCAAAAAATTGTATTAATGGTTAGTAAAATTATCAAATTATGTAAAATTATTATTTGT
TAGTACCAGTCAAAACATTTTTCCAAATCTAACATTATGTGAATGTAAAAT
Found at i:15408420 original size:29 final size:29
Alignment explanation
Indices: 15408393--15408461 Score: 111
Period size: 29 Copynumber: 2.3 Consensus size: 29
15408383 TTAACTTAGT
15408393 TTAGGGTTTTTTAATTAAATTAGGTTAGGG
1 TTAGGG-TTTTTAATTAAATTAGGTTAGGG
*
15408423 TTAGGGTTTTTAATTAAATTAGGTTAAGG
1 TTAGGGTTTTTAATTAAATTAGGTTAGGG
*
15408452 TTATGGTTTT
1 TTAGGGTTTT
15408462 CAAGTTAAGG
Statistics
Matches: 37, Mismatches: 2, Indels: 1
0.93 0.05 0.03
Matches are distributed among these distances:
29 31 0.84
30 6 0.16
ACGTcount: A:0.26, C:0.00, G:0.25, T:0.49
Consensus pattern (29 bp):
TTAGGGTTTTTAATTAAATTAGGTTAGGG
Found at i:15408453 original size:23 final size:23
Alignment explanation
Indices: 15408421--15408681 Score: 197
Period size: 23 Copynumber: 10.4 Consensus size: 23
15408411 ATTAGGTTAG
15408421 GGTTAGGGTTTTTAATTAAATTA
1 GGTTAGGGTTTTTAATTAAATTA
* *
15408444 GGTTAAGGTTATGGTT--TTCAAGTTAA
1 GGTTAGGGTT-T--TTAATT-AAATT-A
15408470 GGGTTTAGGGTTTTTAATTAAATTA
1 -GG-TTAGGGTTTTTAATTAAATTA
15408495 GGTTAGGGTTTTTAATTAAATTA
1 GGTTAGGGTTTTTAATTAAATTA
*
15408518 TGTTAGGGTTTTTAATTAAATTA
1 GGTTAGGGTTTTTAATTAAATTA
15408541 GGTTAGGGTTGGGGTTTTTAATTAAATTA
1 GGTTA------GGGTTTTTAATTAAATTA
**
15408570 GGTTAGATTTTTTAATTAAATTA
1 GGTTAGGGTTTTTAATTAAATTA
*
15408593 GGTTAAGGTTAGGGTTTTAATTAAATTA
1 GGTT-A-G---GGTTTTTAATTAAATTA
* *
15408621 GGTTAAGGTTAGGGTTT--TTAAGTTAA
1 GGTTAGGGTT----TTTAATTAAATT-A
15408647 GGGTTTAGGGTTTTTAATTAAATTA
1 -GG-TTAGGGTTTTTAATTAAATTA
15408672 GGTTAGGGTT
1 GGTTAGGGTT
15408682 AGGGTTAGGG
Statistics
Matches: 193, Mismatches: 16, Indels: 58
0.72 0.06 0.22
Matches are distributed among these distances:
23 87 0.45
24 11 0.06
25 15 0.08
26 14 0.07
27 11 0.06
28 32 0.17
29 23 0.12
ACGTcount: A:0.28, C:0.00, G:0.25, T:0.46
Consensus pattern (23 bp):
GGTTAGGGTTTTTAATTAAATTA
Found at i:15408555 original size:29 final size:29
Alignment explanation
Indices: 15408469--15408752 Score: 242
Period size: 29 Copynumber: 10.4 Consensus size: 29
15408459 TTTCAAGTTA
15408469 AGGGTTTAGGGTTTTTAATT-AA--A--TT
1 AGGG-TTAGGGTTTTTAATTAAATTAGGTT
15408494 A-GGTTAGGGTTTTTAATTAAATTA---T
1 AGGGTTAGGGTTTTTAATTAAATTAGGTT
15408519 ---GTTAGGGTTTTTAATTAAATTAGGTT
1 AGGGTTAGGGTTTTTAATTAAATTAGGTT
*
15408545 AGGGTTGGGGTTTTTAATTAAATTAGGTT
1 AGGGTTAGGGTTTTTAATTAAATTAGGTT
*
15408574 A--G--A--TTTTTTAATTAAATTAGGTT
1 AGGGTTAGGGTTTTTAATTAAATTAGGTT
*
15408597 AAGGTTAGGG-TTTTAATTAAATTAGGTT
1 AGGGTTAGGGTTTTTAATTAAATTAGGTT
* *
15408625 AAGGTTAGGGTTTTTAAGTT-AA--GGGTTT
1 AGGGTTAGGGTTTTTAA-TTAAATTAGG-TT
**
15408653 AGGGTT----TTTAATTAAATTAGGTTAGGGTT
1 AGGGTTAGGGTTT--TT-AATTAAATTA-GGTT
15408682 AGGGTTAGGGTTTTTAATTAAATTAGGTT
1 AGGGTTAGGGTTTTTAATTAAATTAGGTT
*
15408711 AGGGTTAGGGTTTTTAATTAATTTAGGTT
1 AGGGTTAGGGTTTTTAATTAAATTAGGTT
15408740 AGGGTTTAGGGTT
1 AGGG-TTAGGGTT
15408753 AAATTAGGTT
Statistics
Matches: 217, Mismatches: 12, Indels: 55
0.76 0.04 0.19
Matches are distributed among these distances:
23 57 0.26
24 7 0.03
25 3 0.01
26 6 0.03
27 6 0.03
28 35 0.16
29 78 0.36
30 20 0.09
31 2 0.01
33 3 0.01
ACGTcount: A:0.27, C:0.00, G:0.26, T:0.46
Consensus pattern (29 bp):
AGGGTTAGGGTTTTTAATTAAATTAGGTT
Found at i:15408711 original size:23 final size:23
Alignment explanation
Indices: 15408684--15408772 Score: 70
Period size: 23 Copynumber: 3.6 Consensus size: 23
15408674 TTAGGGTTAG
15408684 GGTTAGGGTTTTTAATTAAATTAGGTTA
1 GGTTAGGGTTTTTAATT-AA--A--TTA
*
15408712 GGGTTAGGGTTTTTAATTAATTTA
1 -GGTTAGGGTTTTTAATTAAATTA
****
15408736 GGTTAGGGTTTAGGGTTAAATTA
1 GGTTAGGGTTTTTAATTAAATTA
*
15408759 GGTTAGGATTTTTA
1 GGTTAGGGTTTTTA
15408773 TTACATCAAA
Statistics
Matches: 50, Mismatches: 10, Indels: 6
0.76 0.15 0.09
Matches are distributed among these distances:
23 28 0.56
24 3 0.06
28 2 0.04
29 17 0.34
ACGTcount: A:0.26, C:0.00, G:0.28, T:0.46
Consensus pattern (23 bp):
GGTTAGGGTTTTTAATTAAATTA
Found at i:15408845 original size:70 final size:69
Alignment explanation
Indices: 15408768--15408899 Score: 219
Period size: 70 Copynumber: 1.9 Consensus size: 69
15408758 AGGTTAGGAT
* * *
15408768 TTTTATTACATCAAATAATATCAAAATAACTCGAAAAATTTTTTATTTTATTACATCAAATAAAC
1 TTTTATTACATCAAATAATATCAAAATAACTC-AAAAAATTTCTATTTTATTACATAAAATAAAC
15408833 TTCTA
65 TTCTA
*
15408838 TTTTATTACATCAAATAATATCAAAATAACTCAAAAAATTTCTATTTTTTTACATAAAATAA
1 TTTTATTACATCAAATAATATCAAAATAACTCAAAAAATTTCTATTTTATTACATAAAATAA
15408900 TATCAAAATA
Statistics
Matches: 58, Mismatches: 4, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
69 26 0.45
70 32 0.55
ACGTcount: A:0.46, C:0.12, G:0.01, T:0.41
Consensus pattern (69 bp):
TTTTATTACATCAAATAATATCAAAATAACTCAAAAAATTTCTATTTTATTACATAAAATAAACT
TCTA
Done.