Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A12
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: 102106374
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 3186644 characters in sequence are not A, C, G, or T
File 48 of 311
Found at i:13712268 original size:16 final size:16
Alignment explanation
Indices: 13712247--13712279 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
13712237 GTCGAGCGTG
13712247 TTAAAGTAAGTAGAAA
1 TTAAAGTAAGTAGAAA
13712263 TTAAAGTAAGTAGAAA
1 TTAAAGTAAGTAGAAA
13712279 T
1 T
13712280 ACTCATGGTC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.55, C:0.00, G:0.18, T:0.27
Consensus pattern (16 bp):
TTAAAGTAAGTAGAAA
Found at i:13713134 original size:46 final size:46
Alignment explanation
Indices: 13713067--13713161 Score: 172
Period size: 46 Copynumber: 2.1 Consensus size: 46
13713057 ACTTAATAAT
*
13713067 ATTTGATTTATTCTAAATATTTATAATCTTTAATGATAATTTTTTA
1 ATTTGATTTATTCTAAATATTTATAATCTTTAATGATAATTGTTTA
*
13713113 ATTTGATTTATTCTAAATATTTATAATCTTTAATTATAATTGTTTA
1 ATTTGATTTATTCTAAATATTTATAATCTTTAATGATAATTGTTTA
13713159 ATT
1 ATT
13713162 CAATTCATCA
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
46 47 1.00
ACGTcount: A:0.35, C:0.04, G:0.04, T:0.57
Consensus pattern (46 bp):
ATTTGATTTATTCTAAATATTTATAATCTTTAATGATAATTGTTTA
Found at i:13713601 original size:21 final size:21
Alignment explanation
Indices: 13713576--13713623 Score: 69
Period size: 21 Copynumber: 2.3 Consensus size: 21
13713566 ACTTAGAGCG
*
13713576 GAGGCAGCAGAGAGGGAGGCA
1 GAGGCAGCAGAGAGAGAGGCA
* *
13713597 GAGGCTGCAGCGAGAGAGGCA
1 GAGGCAGCAGAGAGAGAGGCA
13713618 GAGGCA
1 GAGGCA
13713624 CGAGCGATGG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.31, C:0.17, G:0.50, T:0.02
Consensus pattern (21 bp):
GAGGCAGCAGAGAGAGAGGCA
Found at i:13713629 original size:21 final size:21
Alignment explanation
Indices: 13713576--13713630 Score: 58
Period size: 21 Copynumber: 2.6 Consensus size: 21
13713566 ACTTAGAGCG
* * *
13713576 GAGGCAGCAGAGAGGGAGGCA
1 GAGGCCGCAGCGAGAGAGGCA
*
13713597 GAGGCTGCAGCGAGAGAGGCA
1 GAGGCCGCAGCGAGAGAGGCA
13713618 GAGGCACG-AGCGA
1 GAGGC-CGCAGCGA
13713631 TGGTAGCAGA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
21 28 0.97
22 1 0.03
ACGTcount: A:0.31, C:0.18, G:0.49, T:0.02
Consensus pattern (21 bp):
GAGGCCGCAGCGAGAGAGGCA
Found at i:13713911 original size:32 final size:30
Alignment explanation
Indices: 13713863--13713933 Score: 81
Period size: 31 Copynumber: 2.3 Consensus size: 30
13713853 TTAGAATTAA
* *
13713863 TTTTTTT-GCTGTATTTTTATGCTAAATTTG
1 TTTTTTTGGCTGCA-TTTTATACTAAATTTG
*
13713893 TTGTTTTTGGCTGCATTTTATACTATATTTG
1 TT-TTTTTGGCTGCATTTTATACTAAATTTG
13713924 TTTTATTTGG
1 TTTT-TTTGG
13713934 TTGGAATTTA
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
30 4 0.11
31 26 0.74
32 5 0.14
ACGTcount: A:0.15, C:0.07, G:0.15, T:0.62
Consensus pattern (30 bp):
TTTTTTTGGCTGCATTTTATACTAAATTTG
Found at i:13718435 original size:11 final size:11
Alignment explanation
Indices: 13718421--13718453 Score: 57
Period size: 11 Copynumber: 3.0 Consensus size: 11
13718411 CGTTATTATA
*
13718421 TTGTTACTATT
1 TTGTTGCTATT
13718432 TTGTTGCTATT
1 TTGTTGCTATT
13718443 TTGTTGCTATT
1 TTGTTGCTATT
13718454 GCTTGGATAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.12, C:0.09, G:0.15, T:0.64
Consensus pattern (11 bp):
TTGTTGCTATT
Found at i:13721865 original size:17 final size:17
Alignment explanation
Indices: 13721843--13721876 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
13721833 TAAATGTCTT
*
13721843 AGTTTTTAATAACTTAC
1 AGTTTTCAATAACTTAC
13721860 AGTTTTCAATAACTTAC
1 AGTTTTCAATAACTTAC
13721877 TGGTTTAGTG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.35, C:0.15, G:0.06, T:0.44
Consensus pattern (17 bp):
AGTTTTCAATAACTTAC
Found at i:13725196 original size:26 final size:24
Alignment explanation
Indices: 13725142--13725208 Score: 68
Period size: 24 Copynumber: 2.8 Consensus size: 24
13725132 ACATATTTTC
* *
13725142 CTTTTTCTTTTTATTTCTTTTTTA
1 CTTTTTCTTTTTAATTCTTTCTTA
13725166 CTTTTTCTTTCCTTAATTCTTTCTT-
1 CTTTTTCTTT--TTAATTCTTTCTTA
*
13725191 CATTTT-TTTTT-ATTCTTT
1 CTTTTTCTTTTTAATTCTTT
13725209 TTCCTCATCC
Statistics
Matches: 38, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
21 7 0.18
22 2 0.05
24 13 0.34
25 5 0.13
26 11 0.29
ACGTcount: A:0.09, C:0.16, G:0.00, T:0.75
Consensus pattern (24 bp):
CTTTTTCTTTTTAATTCTTTCTTA
Found at i:13725212 original size:35 final size:34
Alignment explanation
Indices: 13725137--13725213 Score: 86
Period size: 35 Copynumber: 2.2 Consensus size: 34
13725127 TTTTCACATA
* *
13725137 TTTTCCTTTTTCTTTTTATTTCTTTTTTACTTTT
1 TTTTCCTTATTCTTTTTATTTCTTTTTTACTTCT
13725171 TCTTTCCTTAATTCTTTCTTCATTT-TTTTTTA-TTCT
1 T-TTTCCTT-ATTCTTT-TT-ATTTCTTTTTTACTTCT
13725207 TTTTCCT
1 TTTTCCT
13725214 CATCCTCTTC
Statistics
Matches: 37, Mismatches: 2, Indels: 7
0.80 0.04 0.15
Matches are distributed among these distances:
34 1 0.03
35 13 0.35
36 10 0.27
37 9 0.24
38 4 0.11
ACGTcount: A:0.08, C:0.18, G:0.00, T:0.74
Consensus pattern (34 bp):
TTTTCCTTATTCTTTTTATTTCTTTTTTACTTCT
Found at i:13730424 original size:32 final size:32
Alignment explanation
Indices: 13730388--13730452 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
13730378 AGCACATGTT
13730388 TGAATTATCTAAAAATGTTCTGAAAGTTCTTA
1 TGAATTATCTAAAAATGTTCTGAAAGTTCTTA
13730420 TGAATTATCTAAAAATGTTCTGAAAGTTCTTA
1 TGAATTATCTAAAAATGTTCTGAAAGTTCTTA
13730452 T
1 T
13730453 AATGCTCTAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.37, C:0.09, G:0.12, T:0.42
Consensus pattern (32 bp):
TGAATTATCTAAAAATGTTCTGAAAGTTCTTA
Found at i:13738023 original size:181 final size:185
Alignment explanation
Indices: 13737667--13738038 Score: 680
Period size: 181 Copynumber: 2.0 Consensus size: 185
13737657 GATGGATGGT
13737667 TTGGTGAAGAAGGAATGAGATGAGGTGAGGAAATCTTAAAAGTATATGGTTTTGTGCTCTATTTC
1 TTGGTGAAGAAGGAATGAGATGAGGTGAGGAAATCTTAAAAGTATATGGTTTTGTGC-C---TTC
13737732 ATTGGGTTTGGATGATGAATTGGGTGGAGGAGATTTGAAGGGCAATGCAGTGGCCTCTATAAGGA
62 ATTGGGTTTGGATGATGAATTGGGTGGAGGAGATTTGAAGGGCAATGCAGTGGCCTCTATAAGGA
13737797 TAAGTCCATGTGTAAATGCATTACTCTTACACCACCATATATCCATAATCACCATTGAA
127 TAAGTCCATGTGTAAATGCATTACTCTTACACCACCATATATCCATAATCACCATTGAA
13737856 TTGGTGAAGAAGGAATGAGATGAGGTGAGGAAATCTTAAAAGTATATGGTTTTGTG-C-TCA-TG
1 TTGGTGAAGAAGGAATGAGATGAGGTGAGGAAATCTTAAAAGTATATGGTTTTGTGCCTTCATTG
13737918 GGTTTGGATGATGAATTGGGTGGAGGAGATTTGAAGGGCAATGCAGT-GCCTCTATAAGGATAAG
66 GGTTTGGATGATGAATTGGGTGGAGGAGATTTGAAGGGCAATGCAGTGGCCTCTATAAGGATAAG
13737982 TCCATGTGTAAATGCATTACTCTTACACCACCATATATCCATAATCACCATTGAA
131 TCCATGTGTAAATGCATTACTCTTACACCACCATATATCCATAATCACCATTGAA
13738037 TT
1 TT
13738039 TTTTTTAGAG
Statistics
Matches: 183, Mismatches: 0, Indels: 8
0.96 0.00 0.04
Matches are distributed among these distances:
181 74 0.40
182 49 0.27
183 3 0.02
187 1 0.01
189 56 0.31
ACGTcount: A:0.31, C:0.13, G:0.26, T:0.30
Consensus pattern (185 bp):
TTGGTGAAGAAGGAATGAGATGAGGTGAGGAAATCTTAAAAGTATATGGTTTTGTGCCTTCATTG
GGTTTGGATGATGAATTGGGTGGAGGAGATTTGAAGGGCAATGCAGTGGCCTCTATAAGGATAAG
TCCATGTGTAAATGCATTACTCTTACACCACCATATATCCATAATCACCATTGAA
Found at i:13743474 original size:29 final size:29
Alignment explanation
Indices: 13743381--13743482 Score: 107
Period size: 29 Copynumber: 3.5 Consensus size: 29
13743371 TCTAATCTGT
* *
13743381 TAATGCACTTCGATGCCACTCTATTTTGA
1 TAATGCACTTCGATGCCACTCTATTCTAA
* ****
13743410 TAAAGCACTTCGATGTTGTTCTATTCTAA
1 TAATGCACTTCGATGCCACTCTATTCTAA
*
13743439 TATTGCACTTCGATGCCACTCTATTCT-A
1 TAATGCACTTCGATGCCACTCTATTCTAA
*
13743467 TGAATGCACCTCGATG
1 T-AATGCACTTCGATG
13743483 AAACTTTGTA
Statistics
Matches: 57, Mismatches: 15, Indels: 2
0.77 0.20 0.03
Matches are distributed among these distances:
28 2 0.04
29 55 0.96
ACGTcount: A:0.25, C:0.24, G:0.15, T:0.37
Consensus pattern (29 bp):
TAATGCACTTCGATGCCACTCTATTCTAA
Found at i:13749691 original size:24 final size:24
Alignment explanation
Indices: 13749663--13749714 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 24
13749653 TTAGCAAGTC
* *
13749663 AAATAAACTATGCTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
***
13749687 AAATATGTTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
13749711 AAAT
1 AAAT
13749715 CTTCTAGAAA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.52, C:0.10, G:0.06, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:13757191 original size:14 final size:14
Alignment explanation
Indices: 13757172--13757198 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
13757162 AAATTCTTGC
13757172 GGTCGAATATGGAA
1 GGTCGAATATGGAA
13757186 GGTCGAATATGGA
1 GGTCGAATATGGA
13757199 TCCTTCTGAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.33, C:0.07, G:0.37, T:0.22
Consensus pattern (14 bp):
GGTCGAATATGGAA
Found at i:13766720 original size:3 final size:3
Alignment explanation
Indices: 13766712--13766822 Score: 79
Period size: 3 Copynumber: 37.7 Consensus size: 3
13766702 ATAGTTTAAA
* * * * *
13766712 AAT AAT AAT AAC AAT GAT AAT AAT ATT AA- CAT AA- AAT AAAG AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT AAT
* * *
13766756 AAT AAT AAT AAT AGT AA- AAC AAT AAT AAT AAT AAT AGT AAT AAT AA-
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
*
13766802 AATT AATT AAT -TT AAT AAT AA
1 AA-T AA-T AAT AAT AAT AAT AA
13766823 AGTAGCCAAA
Statistics
Matches: 84, Mismatches: 17, Indels: 14
0.73 0.15 0.12
Matches are distributed among these distances:
2 8 0.10
3 68 0.81
4 8 0.10
ACGTcount: A:0.63, C:0.03, G:0.04, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:13766757 original size:26 final size:26
Alignment explanation
Indices: 13766728--13766791 Score: 76
Period size: 26 Copynumber: 2.5 Consensus size: 26
13766718 AATAACAATG
*
13766728 ATAATAATATTAACA-TAAAATAAAGA
1 ATAATAATAATAACAGTAAAA-AAAGA
* * *
13766754 ATAATAATAATAATAGTAAAACAATA
1 ATAATAATAATAACAGTAAAAAAAGA
13766780 ATAATAATAATA
1 ATAATAATAATA
13766792 GTAATAATAA
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
26 28 0.85
27 5 0.15
ACGTcount: A:0.66, C:0.03, G:0.03, T:0.28
Consensus pattern (26 bp):
ATAATAATAATAACAGTAAAAAAAGA
Found at i:13766785 original size:29 final size:29
Alignment explanation
Indices: 13766708--13766803 Score: 93
Period size: 29 Copynumber: 3.2 Consensus size: 29
13766698 TAAAATAGTT
* * *
13766708 TAAAAATAATAATAACAATGATAATAATAT
1 TAAAAA-AATAATAATAATAATAATAATAA
* *
13766738 TAACATAAAATAAAGAATAATAATAATAATAG
1 TAA-A-AAAAT-AATAATAATAATAATAATAA
* *
13766770 TAAAACAATAATAATAATAATAGTAATAA
1 TAAAAAAATAATAATAATAATAATAATAA
13766799 TAAAA
1 TAAAA
13766804 TTAATTAATT
Statistics
Matches: 55, Mismatches: 8, Indels: 7
0.79 0.11 0.10
Matches are distributed among these distances:
29 22 0.40
30 7 0.13
31 5 0.09
32 21 0.38
ACGTcount: A:0.66, C:0.03, G:0.04, T:0.27
Consensus pattern (29 bp):
TAAAAAAATAATAATAATAATAATAATAA
Found at i:13768445 original size:143 final size:143
Alignment explanation
Indices: 13768186--13768605 Score: 491
Period size: 143 Copynumber: 2.9 Consensus size: 143
13768176 GAGTTGTAAC
* * * * * * * * *
13768186 TTGTAGCTTCAATCTACTCCACTACAACTTCAGGGAGATAAGATCCACTATATTCAGGCTGCTCC
1 TTGTAACTTTAATCTATTCCACTACAACATCAGGGAAATAAGATTCACTATCTCCAGTCTGCTCC
* * * *
13768251 TATTGCAACTTTAGGGAGATAAGGCTGGTGGCTTCAATCTGCTCCACTGCAACTTCAGAAAAATA
66 -ACTGCAACTTCAAGGAGATAAGGCTGGTGGCTTCAATCTGCTCCACTGCAACTTCAGAAAGATA
* *
13768316 AGATTAGCTATAAT
130 AGATTAGCCAAAAT
* ** ** * *
13768330 TTGTAACTTTAATCTATTCTACTACAATGTCAGGGAAATAAGATTTGCTATCTTCAGTCTGTTCC
1 TTGTAACTTTAATCTATTCCACTACAACATCAGGGAAATAAGATTCACTATCTCCAGTCTGCTCC
* *
13768395 GCTGTAACTTCAAGGAGATAAGGCTGGTGGCTTCAATCTGCTCCACTGCAACTTCA-AGAAGATA
66 ACTGCAACTTCAAGGAGATAAGGCTGGTGGCTTCAATCTGCTCCACTGCAACTTCAGA-AAGATA
*
13768459 AGATTTGCCAAAAT
130 AGATTAGCCAAAAT
* * * ** * *
13768473 TTGTAGCTTTAATTTGTTCCACTGTAACATCATGGAAATAAGATTCACTGTCTCCAGTCTGCTCC
1 TTGTAACTTTAATCTATTCCACTACAACATCAGGGAAATAAGATTCACTATCTCCAGTCTGCTCC
* * * *
13768538 ACTGCAACTTCAGGGAGATAAGGCTGGTGGCTTCAATCTGCTCTACTACAACTTCAGGAAGATAA
66 ACTGCAACTTCAAGGAGATAAGGCTGGTGGCTTCAATCTGCTCCACTGCAACTTCAGAAAGATAA
13768603 GAT
131 GAT
13768606 CCGCCATCTT
Statistics
Matches: 232, Mismatches: 42, Indels: 5
0.83 0.15 0.02
Matches are distributed among these distances:
142 1 0.00
143 179 0.77
144 52 0.22
ACGTcount: A:0.30, C:0.21, G:0.19, T:0.31
Consensus pattern (143 bp):
TTGTAACTTTAATCTATTCCACTACAACATCAGGGAAATAAGATTCACTATCTCCAGTCTGCTCC
ACTGCAACTTCAAGGAGATAAGGCTGGTGGCTTCAATCTGCTCCACTGCAACTTCAGAAAGATAA
GATTAGCCAAAAT
Found at i:13768448 original size:44 final size:44
Alignment explanation
Indices: 13768381--13768603 Score: 115
Period size: 44 Copynumber: 4.8 Consensus size: 44
13768371 GATTTGCTAT
* * * *
13768381 CTTCAGTCTGTTCCGCTGTAACTTCAAGGAGATAAGGCTGGTGG
1 CTTCAATCTGCTCCACTGCAACTTCAAGGAGATAAGGCTGGTGG
* * *
13768425 CTTCAATCTGCTCCACTGCAACTTCAAGAAGATAAGATTTGCCAAAATTTGTAG
1 CTTCAATCTGCTCCACTGCAACTTCAAGGAGATAAG----G-C-----TGGTGG
* * * * * * * ** ** *
13768479 CTTTAATTTGTTCCACTGTAACATCATGGAAATAAGATTCACTGT
1 CTTCAATCTGCTCCACTGCAACTTCAAGGAGATAAGGCT-GGTGG
* * *
13768524 CTCCAGTCTGCTCCACTGCAACTTCAGGGAGATAAGGCTGGTGG
1 CTTCAATCTGCTCCACTGCAACTTCAAGGAGATAAGGCTGGTGG
* *
13768568 CTTCAATCTGCTCTACTACAACTTC-AGGAAGATAAG
1 CTTCAATCTGCTCCACTGCAACTTCAAGG-AGATAAG
13768604 ATCCGCCATC
Statistics
Matches: 127, Mismatches: 40, Indels: 24
0.66 0.21 0.13
Matches are distributed among these distances:
43 2 0.02
44 62 0.49
45 29 0.23
48 1 0.01
49 1 0.01
54 32 0.25
ACGTcount: A:0.28, C:0.22, G:0.20, T:0.30
Consensus pattern (44 bp):
CTTCAATCTGCTCCACTGCAACTTCAAGGAGATAAGGCTGGTGG
Found at i:13779763 original size:3 final size:3
Alignment explanation
Indices: 13779755--13779935 Score: 122
Period size: 3 Copynumber: 60.0 Consensus size: 3
13779745 TAAAATAGTT
* * * * *
13779755 TAA TAA TAA TAA CAA TGA TAA TAA TAT TAA -CA TAA -AA TAAA GAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T-AA TAA
* *
13779799 TAA TAA TACA TTAA TAA TAA TAA TAA TAG TAA -AGA CAA TAA TAA TAA
1 TAA TAA TA-A -TAA TAA TAA TAA TAA TAA TAA TA-A TAA TAA TAA TAA
* * * * *
13779846 GAA TGA TAG TAA TAA TACA -AA TAA TAA TAA TAA TAA TAG TAA TAG
1 TAA TAA TAA TAA TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * *
13779891 TAA TAG TAA TAG TAA TAA TAA TAA -AA TTAA TTAA T-T TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA -TAA -TAA TAA TAA TAA TAA
13779936 AGTAGCCAAA
Statistics
Matches: 137, Mismatches: 29, Indels: 24
0.72 0.15 0.13
Matches are distributed among these distances:
2 8 0.06
3 115 0.84
4 12 0.09
5 2 0.01
ACGTcount: A:0.60, C:0.03, G:0.06, T:0.31
Consensus pattern (3 bp):
TAA
Found at i:13780607 original size:11 final size:12
Alignment explanation
Indices: 13780579--13780612 Score: 52
Period size: 11 Copynumber: 2.9 Consensus size: 12
13780569 TTCGAACAAG
13780579 GAAAATAAAAGA
1 GAAAATAAAAGA
*
13780591 GAAAATAAAA-T
1 GAAAATAAAAGA
13780602 GAAAATAAAAG
1 GAAAATAAAAG
13780613 GACCTTGGCA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
11 10 0.50
12 10 0.50
ACGTcount: A:0.74, C:0.00, G:0.15, T:0.12
Consensus pattern (12 bp):
GAAAATAAAAGA
Found at i:13782730 original size:100 final size:100
Alignment explanation
Indices: 13782557--13782758 Score: 377
Period size: 100 Copynumber: 2.0 Consensus size: 100
13782547 TTAGAAGAGT
*
13782557 TTTAACAATTTTTTTAGATTGTAGGAATCATCTTCAAACTTTTTCTTGCCAATGTTTCTATCTTG
1 TTTAACAATTTTTTTAAATTGTAGGAATCATCTTCAAACTTTTTCTTGCCAATGTTTCTATCTTG
*
13782622 GAAGGGAAATTAGAGCCGCTTGAAGGGGTTGTGGA
66 GAAAGGAAATTAGAGCCGCTTGAAGGGGTTGTGGA
*
13782657 TTTAACAATTTTTTTAAATTGTAGGGATCATCTTCAAACTTTTTCTTGCCAATGTTTCTATCTTG
1 TTTAACAATTTTTTTAAATTGTAGGAATCATCTTCAAACTTTTTCTTGCCAATGTTTCTATCTTG
13782722 GAAAGGAAATTAGAGCCGCTTGAAGGGGTTGTGGA
66 GAAAGGAAATTAGAGCCGCTTGAAGGGGTTGTGGA
13782757 TT
1 TT
13782759 CTTCGTGTCT
Statistics
Matches: 99, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
100 99 1.00
ACGTcount: A:0.26, C:0.13, G:0.21, T:0.40
Consensus pattern (100 bp):
TTTAACAATTTTTTTAAATTGTAGGAATCATCTTCAAACTTTTTCTTGCCAATGTTTCTATCTTG
GAAAGGAAATTAGAGCCGCTTGAAGGGGTTGTGGA
Found at i:13782870 original size:13 final size:13
Alignment explanation
Indices: 13782849--13782882 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
13782839 TATTTGATTT
13782849 ATTATTTTATTTTA
1 ATTA-TTTATTTTA
*
13782863 GTTATTTATTTTA
1 ATTATTTATTTTA
13782876 ATTATTT
1 ATTATTT
13782883 TATCTGACTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
13 15 0.83
14 3 0.17
ACGTcount: A:0.26, C:0.00, G:0.03, T:0.71
Consensus pattern (13 bp):
ATTATTTATTTTA
Found at i:13783083 original size:16 final size:16
Alignment explanation
Indices: 13783064--13783111 Score: 60
Period size: 18 Copynumber: 2.9 Consensus size: 16
13783054 GACTTGAACC
13783064 TAAAAAAATCTAAACT
1 TAAAAAAATCTAAACT
13783080 TAAAAAAAAATCTAAACT
1 T--AAAAAAATCTAAACT
* *
13783098 CAAAATAATCTAAA
1 TAAAAAAATCTAAA
13783112 TACAAAGAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
16 13 0.46
18 15 0.54
ACGTcount: A:0.65, C:0.12, G:0.00, T:0.23
Consensus pattern (16 bp):
TAAAAAAATCTAAACT
Found at i:13783086 original size:18 final size:18
Alignment explanation
Indices: 13783065--13783102 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
13783055 ACTTGAACCT
*
13783065 AAAAAAATCTAAACTTAA
1 AAAAAAATCTAAACTCAA
13783083 AAAAAAATCTAAACTCAA
1 AAAAAAATCTAAACTCAA
13783101 AA
1 AA
13783103 TAATCTAAAT
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:0.68, C:0.13, G:0.00, T:0.18
Consensus pattern (18 bp):
AAAAAAATCTAAACTCAA
Found at i:13789355 original size:46 final size:44
Alignment explanation
Indices: 13789286--13789382 Score: 124
Period size: 46 Copynumber: 2.2 Consensus size: 44
13789276 GGAGCTAAAA
* *
13789286 AAGAGAAACAAATCCGTAAAAACTAGCCTAAGGAAATGTTGCTGGCT
1 AAGA-AAACAAATCCCTAAAAACTAGCCTAA--AAATGTTGATGGCT
* *
13789333 AAGAAAACAAATCCCTAAAAACTAGCTTAAATATGTTGATGGCT
1 AAGAAAACAAATCCCTAAAAACTAGCCTAAAAATGTTGATGGCT
13789377 AA-AAAA
1 AAGAAAA
13789383 GGTAACTCTT
Statistics
Matches: 46, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
43 4 0.09
44 14 0.30
46 24 0.52
47 4 0.09
ACGTcount: A:0.47, C:0.15, G:0.16, T:0.21
Consensus pattern (44 bp):
AAGAAAACAAATCCCTAAAAACTAGCCTAAAAATGTTGATGGCT
Found at i:13793131 original size:27 final size:27
Alignment explanation
Indices: 13793100--13793169 Score: 95
Period size: 27 Copynumber: 2.6 Consensus size: 27
13793090 AGGAAGCGTC
* *
13793100 CTGGTGGGTATGCCACAAATATCTGAT
1 CTGGTGGCTCTGCCACAAATATCTGAT
* * *
13793127 CTGGTGGCTCTGCCACATATATTTGTT
1 CTGGTGGCTCTGCCACAAATATCTGAT
13793154 CTGGTGGCTCTGCCAC
1 CTGGTGGCTCTGCCAC
13793170 GATTATCTAT
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 38 1.00
ACGTcount: A:0.17, C:0.24, G:0.26, T:0.33
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACAAATATCTGAT
Found at i:13796166 original size:21 final size:21
Alignment explanation
Indices: 13796141--13796186 Score: 92
Period size: 21 Copynumber: 2.2 Consensus size: 21
13796131 GAAGCTTAGC
13796141 AAGTTCATTGGCTTTAAAAGT
1 AAGTTCATTGGCTTTAAAAGT
13796162 AAGTTCATTGGCTTTAAAAGT
1 AAGTTCATTGGCTTTAAAAGT
13796183 AAGT
1 AAGT
13796187 CTTGTCGAAC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.35, C:0.09, G:0.20, T:0.37
Consensus pattern (21 bp):
AAGTTCATTGGCTTTAAAAGT
Found at i:13803516 original size:23 final size:23
Alignment explanation
Indices: 13803490--13803538 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
13803480 TCAGATAAAT
*
13803490 AAAAAAATACAAATATTAAATTA
1 AAAAAAATACAAATATCAAATTA
** *
13803513 AAAAATGTTCAAATATCAAATTA
1 AAAAAAATACAAATATCAAATTA
13803536 AAA
1 AAA
13803539 TAACAAAAAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.65, C:0.06, G:0.02, T:0.27
Consensus pattern (23 bp):
AAAAAAATACAAATATCAAATTA
Found at i:13804464 original size:79 final size:84
Alignment explanation
Indices: 13804322--13804484 Score: 264
Period size: 80 Copynumber: 2.0 Consensus size: 84
13804312 TAGTGCTTAG
** *
13804322 TTGATTTTTTTAAATTTGTTACTAAGGTTTTTTTGACTCTTTAACCTCTATTAGTTTAAAATA-T
1 TTGATTTTTTTAAATTTGTTACTAAGGCCTTTTTGACCCTTTAACCTCTATTAGTTTAAAATATT
13804386 TTTAATTTACTTCCAATAA
66 TTTAATTTACTTCCAATAA
13804405 TTGA-TTTTTT-AATTTGTTACTAA-GCCTTTTTGACCCTTTAACCT-TATTAGTTTAAAATATT
1 TTGATTTTTTTAAATTTGTTACTAAGGCCTTTTTGACCCTTTAACCTCTATTAGTTTAAAATATT
13804466 TTTAATTTACTTCCAATAA
66 TTTAATTTACTTCCAATAA
13804485 AAGTGTAGGG
Statistics
Matches: 76, Mismatches: 3, Indels: 5
0.90 0.04 0.06
Matches are distributed among these distances:
79 15 0.20
80 38 0.50
81 13 0.17
82 6 0.08
83 4 0.05
ACGTcount: A:0.29, C:0.12, G:0.07, T:0.52
Consensus pattern (84 bp):
TTGATTTTTTTAAATTTGTTACTAAGGCCTTTTTGACCCTTTAACCTCTATTAGTTTAAAATATT
TTTAATTTACTTCCAATAA
Found at i:13806983 original size:30 final size:30
Alignment explanation
Indices: 13806949--13807042 Score: 75
Period size: 30 Copynumber: 3.1 Consensus size: 30
13806939 TATCTATAAT
13806949 TAAATTTGAGGATCAAATTGATTGAATTTG
1 TAAATTTGAGGATCAAATTGATTGAATTTG
* * * * *
13806979 TAAATGTGAAGGGTTAAATTTATTGAATTATT
1 TAAATTTG-AGGATCAAATTGATTGAATT-TG
* * *
13807011 TAGAA-TT-AAGATCAAATTGATAGAATATG
1 TA-AATTTGAGGATCAAATTGATTGAATTTG
13807040 TAA
1 TAA
13807043 GTATTGAAGA
Statistics
Matches: 48, Mismatches: 13, Indels: 8
0.70 0.19 0.12
Matches are distributed among these distances:
28 1 0.02
29 3 0.06
30 21 0.44
31 17 0.35
32 4 0.08
33 2 0.04
ACGTcount: A:0.41, C:0.02, G:0.18, T:0.38
Consensus pattern (30 bp):
TAAATTTGAGGATCAAATTGATTGAATTTG
Found at i:13808555 original size:40 final size:40
Alignment explanation
Indices: 13808489--13808569 Score: 119
Period size: 40 Copynumber: 2.0 Consensus size: 40
13808479 TTGTACACCA
* *
13808489 AATGGGAGATTTGCACGTATAGTCCTCCCTGTTTGCACATT
1 AATGGGAGATTCGCAC-TATAGTCCTCCCCGTTTGCACATT
13808530 AATGGGAGATGTCGCA-TATAGTCCTCCCCGTTTGCACATT
1 AATGGGAGAT-TCGCACTATAGTCCTCCCCGTTTGCACATT
13808570 CTTTTTAATT
Statistics
Matches: 37, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
40 23 0.62
41 10 0.27
42 4 0.11
ACGTcount: A:0.22, C:0.23, G:0.22, T:0.32
Consensus pattern (40 bp):
AATGGGAGATTCGCACTATAGTCCTCCCCGTTTGCACATT
Found at i:13812163 original size:9 final size:9
Alignment explanation
Indices: 13812141--13812182 Score: 52
Period size: 8 Copynumber: 4.8 Consensus size: 9
13812131 TTAATTTGTA
*
13812141 AAAAATAACA
1 AAAAA-AACT
13812151 AAAAAAACT
1 AAAAAAACT
13812160 -AAAAAACT
1 AAAAAAACT
13812168 AAAAAAA-T
1 AAAAAAACT
13812176 AAAAAAA
1 AAAAAAA
13812183 AATTATATTT
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
8 16 0.53
9 9 0.30
10 5 0.17
ACGTcount: A:0.83, C:0.07, G:0.00, T:0.10
Consensus pattern (9 bp):
AAAAAAACT
Found at i:13813982 original size:3 final size:3
Alignment explanation
Indices: 13813976--13814014 Score: 78
Period size: 3 Copynumber: 13.0 Consensus size: 3
13813966 ACTATGAGGG
13813976 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
13814015 TGATGATGAT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:13815327 original size:16 final size:16
Alignment explanation
Indices: 13815275--13815329 Score: 74
Period size: 16 Copynumber: 3.4 Consensus size: 16
13815265 GTTTGGTTCA
*
13815275 TTGTAATGGAATAGAG
1 TTGTAATTGAATAGAG
* *
13815291 TTATAATTGAATAGGG
1 TTGTAATTGAATAGAG
13815307 TTGTAATTGAATAGAG
1 TTGTAATTGAATAGAG
*
13815323 CTGTAAT
1 TTGTAAT
13815330 CAGTAATTCA
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
16 33 1.00
ACGTcount: A:0.36, C:0.02, G:0.25, T:0.36
Consensus pattern (16 bp):
TTGTAATTGAATAGAG
Found at i:13815530 original size:14 final size:15
Alignment explanation
Indices: 13815500--13815535 Score: 56
Period size: 14 Copynumber: 2.5 Consensus size: 15
13815490 ATTAAATTTT
*
13815500 AATAATATTATTAAA
1 AATAATATTAATAAA
13815515 AATAAT-TTAATAAA
1 AATAATATTAATAAA
13815529 AATAATA
1 AATAATA
13815536 AATATTTTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
14 13 0.68
15 6 0.32
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (15 bp):
AATAATATTAATAAA
Found at i:13815569 original size:55 final size:55
Alignment explanation
Indices: 13815495--13815600 Score: 142
Period size: 55 Copynumber: 1.9 Consensus size: 55
13815485 TTGTTATTAA
* *
13815495 ATTTTAATAATATTATTAAAAATAATTT-AATAAAAATAATAAATATTTTAAACAT
1 ATTTTAACAATATTATTAAAAATAATTTAAAT-AAAATAATAAATACTTTAAACAT
* * * *
13815550 ATTTTAACATTATTGTTAAATATAATTTAAATAAAATAATATATACTTTAA
1 ATTTTAACAATATTATTAAAAATAATTTAAATAAAATAATAAATACTTTAA
13815601 TAAAATTCTT
Statistics
Matches: 44, Mismatches: 6, Indels: 2
0.85 0.12 0.04
Matches are distributed among these distances:
55 41 0.93
56 3 0.07
ACGTcount: A:0.53, C:0.03, G:0.01, T:0.43
Consensus pattern (55 bp):
ATTTTAACAATATTATTAAAAATAATTTAAATAAAATAATAAATACTTTAAACAT
Found at i:13816782 original size:13 final size:13
Alignment explanation
Indices: 13816764--13816799 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
13816754 ATACTTAAGT
13816764 ATATAATATAATA
1 ATATAATATAATA
13816777 ATATAATATAATA
1 ATATAATATAATA
*
13816790 AAATAA-ATAA
1 ATATAATATAA
13816800 ACAAAGAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
12 4 0.18
13 18 0.82
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (13 bp):
ATATAATATAATA
Found at i:13816841 original size:23 final size:22
Alignment explanation
Indices: 13816805--13816847 Score: 68
Period size: 23 Copynumber: 1.9 Consensus size: 22
13816795 AATAAACAAA
13816805 GAAAAAGAACAAAGAAAGAAAC
1 GAAAAAGAACAAAGAAAGAAAC
*
13816827 GAAAAAGAGAGAAAGAAAGAA
1 GAAAAAGA-ACAAAGAAAGAA
13816848 GGAAAGAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 8 0.42
23 11 0.58
ACGTcount: A:0.72, C:0.05, G:0.23, T:0.00
Consensus pattern (22 bp):
GAAAAAGAACAAAGAAAGAAAC
Found at i:13816869 original size:5 final size:6
Alignment explanation
Indices: 13816802--13816870 Score: 59
Period size: 6 Copynumber: 10.5 Consensus size: 6
13816792 ATAAATAAAC
*
13816802 AAAGAA AAAGAA CAAAGAAA GAAACGAA AAAGAGA GAAAGAA AGAAG-G
1 AAAGAA AAAGAA -AAAG-AA -AAA-GAA AAAGA-A -AAAGAA A-AAGAA
13816850 AAAGAA AAAGAA AAAGAA AAA
1 AAAGAA AAAGAA AAAGAA AAA
13816871 TTAGGGTTTT
Statistics
Matches: 53, Mismatches: 3, Indels: 14
0.76 0.04 0.20
Matches are distributed among these distances:
5 3 0.06
6 25 0.47
7 12 0.23
8 12 0.23
9 1 0.02
ACGTcount: A:0.75, C:0.03, G:0.22, T:0.00
Consensus pattern (6 bp):
AAAGAA
Found at i:13818977 original size:3 final size:3
Alignment explanation
Indices: 13818969--13818994 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
13818959 AATTTGGATG
13818969 TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TT
13818995 TTGTATGTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:13829439 original size:45 final size:45
Alignment explanation
Indices: 13829336--13829510 Score: 212
Period size: 45 Copynumber: 4.0 Consensus size: 45
13829326 CCGAATTCAT
* * * *
13829336 TCACCAGTATT-TCGCCTGCTAGGCTCGAA-GCCCAAATAGTATC
1 TCACCAGAATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATC
* * * * * * *
13829379 T-ATCGGCATTATAGCCTGTTAGGCTCAAAGGCCCGAGTGGTATT
1 TCACCAGAATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATC
*
13829423 TCACCGGAATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATC
1 TCACCAGAATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATC
*
13829468 TCACCAGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTA
1 TCACCAGAATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTA
13829511 CTGTGCGATA
Statistics
Matches: 111, Mismatches: 18, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
42 6 0.05
43 16 0.14
44 11 0.10
45 78 0.70
ACGTcount: A:0.27, C:0.26, G:0.22, T:0.25
Consensus pattern (45 bp):
TCACCAGAATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATC
Found at i:13837237 original size:45 final size:45
Alignment explanation
Indices: 13837139--13837314 Score: 248
Period size: 45 Copynumber: 4.0 Consensus size: 45
13837129 CCAAATTCAT
* * * *
13837139 TCACCGGCATT-TCGCCTGCTAGGCTCGAA-GCCCAAATAGTATC
1 TCACCGGCATTATAGCCTACTAGGCTCAAAGGCCCGAATAGTATC
* * * *
13837182 TCACCAGCATTATAGCCTACTAGGCTCAAAGGCCCGAGTGGTATT
1 TCACCGGCATTATAGCCTACTAGGCTCAAAGGCCCGAATAGTATC
*
13837227 TCACCGGCATTATAGCCTACTAGGCTTAAAGGCCCGAATAGTATC
1 TCACCGGCATTATAGCCTACTAGGCTCAAAGGCCCGAATAGTATC
*
13837272 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTA
1 TCACCGGCATTATAGCCTACTAGGCTCAAAGGCCCGAATAGTA
13837315 CTATACGATA
Statistics
Matches: 116, Mismatches: 15, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
43 10 0.09
44 15 0.13
45 91 0.78
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (45 bp):
TCACCGGCATTATAGCCTACTAGGCTCAAAGGCCCGAATAGTATC
Found at i:13842899 original size:15 final size:15
Alignment explanation
Indices: 13842879--13842912 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
13842869 TAATTCGAAT
*
13842879 ATACGATTGGTGTAA
1 ATACGATTGGTATAA
*
13842894 ATACGATTGTTATAA
1 ATACGATTGGTATAA
13842909 ATAC
1 ATAC
13842913 CCTTTTATAC
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:0.38, C:0.09, G:0.18, T:0.35
Consensus pattern (15 bp):
ATACGATTGGTATAA
Found at i:13844708 original size:26 final size:26
Alignment explanation
Indices: 13844672--13844755 Score: 134
Period size: 26 Copynumber: 3.2 Consensus size: 26
13844662 TGATACAAAT
13844672 TGATAATAGGTTAGGTAAATG-TTCAA
1 TGATAATAGGTTAGGTAAATGTTTC-A
13844698 TGATAATAGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
**
13844724 TGATAACGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
13844750 TGATAA
1 TGATAA
13844756 GAATTTCATG
Statistics
Matches: 55, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
26 52 0.95
27 3 0.05
ACGTcount: A:0.36, C:0.05, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTTCA
Found at i:13846229 original size:28 final size:26
Alignment explanation
Indices: 13846198--13846272 Score: 78
Period size: 26 Copynumber: 2.8 Consensus size: 26
13846188 AAAAGTAGCT
* *
13846198 AAATTACTATAATACCCCTATGTATGGA
1 AAATTACTATTATACCCCTA-G-ATGCA
* * *
13846226 AAATTGCTGTTATACCCCTAGGTGCA
1 AAATTACTATTATACCCCTAGATGCA
*
13846252 AAATTACCATTATACCCCTAG
1 AAATTACTATTATACCCCTAG
13846273 GGTTAATTTT
Statistics
Matches: 39, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
26 21 0.54
27 1 0.03
28 17 0.44
ACGTcount: A:0.35, C:0.23, G:0.12, T:0.31
Consensus pattern (26 bp):
AAATTACTATTATACCCCTAGATGCA
Found at i:13846417 original size:27 final size:27
Alignment explanation
Indices: 13846376--13846488 Score: 120
Period size: 27 Copynumber: 4.2 Consensus size: 27
13846366 GAAGAAGCGT
*
13846376 TCTGGTGGCTATGCCACAAATATCTGA
1 TCTGGTGGCTCTGCCACAAATATCTGA
* * *
13846403 TCTGGTGGCTCTGCCATATATATCTGT
1 TCTGGTGGCTCTGCCACAAATATCTGA
* *
13846430 TCTGGTGGCTCTGCCACGATTATCTGTA
1 TCTGGTGGCTCTGCCACAAATATCTG-A
* * * *
13846458 TCTGGTGACTCTGTCAC-ATTATCTGT
1 TCTGGTGGCTCTGCCACAAATATCTGA
13846484 TCTGG
1 TCTGG
13846489 CAGCCATGCT
Statistics
Matches: 73, Mismatches: 12, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
26 5 0.07
27 53 0.73
28 15 0.21
ACGTcount: A:0.17, C:0.23, G:0.23, T:0.37
Consensus pattern (27 bp):
TCTGGTGGCTCTGCCACAAATATCTGA
Found at i:13846481 original size:54 final size:54
Alignment explanation
Indices: 13846374--13846488 Score: 160
Period size: 54 Copynumber: 2.1 Consensus size: 54
13846364 TGGAAGAAGC
* *
13846374 GTTCTGGTGGCTATGCCACAAATATCTGATCTGGTGGCTCTGCCATATATATCT
1 GTTCTGGTGGCTATGCCACAAATATCTGATCTGGTGACTCTGCCACATATATCT
* * * *
13846428 GTTCTGGTGGCTCTGCCACGATTATCTGTATCTGGTGACTCTGTCACAT-TATCT
1 GTTCTGGTGGCTATGCCACAAATATCTG-ATCTGGTGACTCTGCCACATATATCT
13846482 GTTCTGG
1 GTTCTGG
13846489 CAGCCATGCT
Statistics
Matches: 54, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
54 37 0.69
55 17 0.31
ACGTcount: A:0.17, C:0.23, G:0.23, T:0.37
Consensus pattern (54 bp):
GTTCTGGTGGCTATGCCACAAATATCTGATCTGGTGACTCTGCCACATATATCT
Found at i:13846574 original size:19 final size:22
Alignment explanation
Indices: 13846550--13846589 Score: 59
Period size: 19 Copynumber: 2.0 Consensus size: 22
13846540 CTCCCCACAC
13846550 GGTGTA-A-GGTTGG-TATGGG
1 GGTGTATACGGTTGGATATGGG
13846569 GGTGTATACGGTTGGATATGG
1 GGTGTATACGGTTGGATATGG
13846590 TTGGGTTTCT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 6 0.33
20 1 0.06
21 6 0.33
22 5 0.28
ACGTcount: A:0.17, C:0.03, G:0.47, T:0.33
Consensus pattern (22 bp):
GGTGTATACGGTTGGATATGGG
Found at i:13848449 original size:21 final size:23
Alignment explanation
Indices: 13848409--13848450 Score: 61
Period size: 21 Copynumber: 1.9 Consensus size: 23
13848399 TCGTTTGTGT
13848409 TAAACATTTAGAACAAATAAATA
1 TAAACATTTAGAACAAATAAATA
*
13848432 TAAAC-TTTA-AACACATAAA
1 TAAACATTTAGAACAAATAAA
13848451 GATTTTCAGA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 9 0.50
22 4 0.22
23 5 0.28
ACGTcount: A:0.60, C:0.12, G:0.02, T:0.26
Consensus pattern (23 bp):
TAAACATTTAGAACAAATAAATA
Found at i:13858211 original size:18 final size:18
Alignment explanation
Indices: 13858188--13858239 Score: 70
Period size: 18 Copynumber: 2.9 Consensus size: 18
13858178 TCCTAGACCA
13858188 TTTTTAAGGGTTTAGGGT
1 TTTTTAAGGGTTTAGGGT
* *
13858206 TTTTTAAGAGTTTAAGGT
1 TTTTTAAGGGTTTAGGGT
13858224 TTTTGT-AGGGTTTAGG
1 TTTT-TAAGGGTTTAGG
13858240 AATTTTGTTT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
18 28 0.97
19 1 0.03
ACGTcount: A:0.19, C:0.00, G:0.31, T:0.50
Consensus pattern (18 bp):
TTTTTAAGGGTTTAGGGT
Found at i:13858237 original size:26 final size:26
Alignment explanation
Indices: 13858208--13858263 Score: 60
Period size: 26 Copynumber: 2.2 Consensus size: 26
13858198 TTTAGGGTTT
*
13858208 TTTAAGAGTTTAAG-GTTTTTGTAGGG
1 TTTAAGAATTT-AGTGTTTTTGTAGGG
* * *
13858234 TTTAGGAATTTTGTTTTTTTGTAGGG
1 TTTAAGAATTTAGTGTTTTTGTAGGG
13858260 TTTA
1 TTTA
13858264 GGTTTGGAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
25 1 0.04
26 24 0.96
ACGTcount: A:0.20, C:0.00, G:0.27, T:0.54
Consensus pattern (26 bp):
TTTAAGAATTTAGTGTTTTTGTAGGG
Found at i:13869907 original size:16 final size:16
Alignment explanation
Indices: 13869886--13869927 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
13869876 TTATTAAATT
*
13869886 ATATATTTTAATTATA
1 ATATATTTTAATAATA
13869902 ATATA-TTTAATAATA
1 ATATATTTTAATAATA
13869917 A-ATATGTTTAA
1 ATATAT-TTTAA
13869928 ATATGATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 3 0.13
15 10 0.43
16 10 0.43
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (16 bp):
ATATATTTTAATAATA
Found at i:13870064 original size:16 final size:16
Alignment explanation
Indices: 13870043--13870084 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
13870033 TTATTAAATT
*
13870043 ATATATTTTAATTATA
1 ATATATTTTAATAATA
13870059 ATATA-TTTAATAATA
1 ATATATTTTAATAATA
13870074 AT-TATGTTTAA
1 ATATAT-TTTAA
13870085 ATATGATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 2 0.09
15 11 0.48
16 10 0.43
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (16 bp):
ATATATTTTAATAATA
Found at i:13870069 original size:15 final size:15
Alignment explanation
Indices: 13870034--13870075 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
13870024 TTAAGAATTT
*
13870034 TATTAAATTAT-ATA
1 TATTTAATTATAATA
13870048 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
13870062 TATTTAATAATAAT
1 TATTTAATTATAAT
13870076 TATGTTTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 8 0.33
14 5 0.21
15 11 0.46
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:13870149 original size:157 final size:157
Alignment explanation
Indices: 13869863--13870331 Score: 793
Period size: 157 Copynumber: 3.0 Consensus size: 157
13869853 AAGAATATTG
*
13869863 ATTATTAAGAATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAAATATGTTTAA
1 ATTATTAAGAATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTTAA
13869928 ATATGATTAAATTATTTATTATTGATATTAATAATCTTATTAAAATTTAAATAACAATAACAATA
66 ATATGATTAAATTATTTATTATTGATATTAATAATCTTATTAAAATTTAAATAACAATAACAATA
13869993 ATAATTTACCAAAACAAATTTCTGCTA
131 ATAATTTACCAAAACAAATTTCTGCTA
13870020 ATTATTAAGAATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTTAA
1 ATTATTAAGAATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTTAA
13870085 ATATGATTAAATTATTTATTATTGATATTAATAATCTTATTAAAATTTAAATAACAATAACAATA
66 ATATGATTAAATTATTTATTATTGATATTAATAATCTTATTAAAATTTAAATAACAATAACAATA
*
13870150 ATAATTTACCAAAACAAATTTCTACTA
131 ATAATTTACCAAAACAAATTTCTGCTA
*
13870177 ATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTTAA
1 ATTATTAAGAATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTTAA
* * * * * *
13870242 ATATGATTAAAATATTTATTATTGATCTTATTAA---AATTTAAA-TAACAATAACAATAACAAT
66 ATATGATTAAATTATTTATTATTGATATTAATAATCTTATTAAAATTTA-AATAACAATAACAAT
* * *
13870303 AATCATTTACTAAAACAAATTTATGCTA
130 AATAATTTACCAAAACAAATTTCTGCTA
13870331 A
1 A
13870332 GGGTATTCTA
Statistics
Matches: 298, Mismatches: 13, Indels: 5
0.94 0.04 0.02
Matches are distributed among these distances:
153 2 0.01
154 46 0.15
157 250 0.84
ACGTcount: A:0.48, C:0.05, G:0.03, T:0.44
Consensus pattern (157 bp):
ATTATTAAGAATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTTAA
ATATGATTAAATTATTTATTATTGATATTAATAATCTTATTAAAATTTAAATAACAATAACAATA
ATAATTTACCAAAACAAATTTCTGCTA
Found at i:13870215 original size:18 final size:17
Alignment explanation
Indices: 13870187--13870221 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
13870177 ATTATTAAGA
*
13870187 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
13870204 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
13870222 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:13870475 original size:16 final size:16
Alignment explanation
Indices: 13870454--13870489 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
13870444 GATTTGCTAT
13870454 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
*
13870470 TACACCTCTAATCTAA
1 TACACCTCTAATCCAA
13870486 TACA
1 TACA
13870490 GCGAACCAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.39, C:0.33, G:0.00, T:0.28
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:13871170 original size:22 final size:24
Alignment explanation
Indices: 13871114--13871170 Score: 64
Period size: 24 Copynumber: 2.5 Consensus size: 24
13871104 ACCCAAATTC
* *
13871114 AGTTTAAGTATTTGAAAACATTTT
1 AGTTTAAATATTTGAAAACATTAT
13871138 AGTTTAAATATTTG-AAACA-TAT
1 AGTTTAAATATTTGAAAACATTAT
* *
13871160 ATTTTATATAT
1 AGTTTAAATAT
13871171 ATTAAAAAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
22 11 0.38
23 5 0.17
24 13 0.45
ACGTcount: A:0.40, C:0.04, G:0.09, T:0.47
Consensus pattern (24 bp):
AGTTTAAATATTTGAAAACATTAT
Found at i:13873132 original size:66 final size:66
Alignment explanation
Indices: 13873026--13873156 Score: 253
Period size: 66 Copynumber: 2.0 Consensus size: 66
13873016 CAAAACTTAG
13873026 TAAGAATGGATGATAATACACTGAAGTTTGATAAGAAACAATGCTTTAATTATATATACCAGTTA
1 TAAGAATGGATGATAATACACTGAAGTTTGATAAGAAACAATGCTTTAATTATATATACCAGTTA
13873091 C
66 C
*
13873092 TAAGAATGGATGATAATACACTGAAGTTTGATAAGAAACAATGTTTTAATTATATATACCAGTTA
1 TAAGAATGGATGATAATACACTGAAGTTTGATAAGAAACAATGCTTTAATTATATATACCAGTTA
13873157 GGTTTCTTTT
Statistics
Matches: 64, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
66 64 1.00
ACGTcount: A:0.43, C:0.09, G:0.15, T:0.33
Consensus pattern (66 bp):
TAAGAATGGATGATAATACACTGAAGTTTGATAAGAAACAATGCTTTAATTATATATACCAGTTA
C
Found at i:13880216 original size:15 final size:15
Alignment explanation
Indices: 13880176--13880216 Score: 57
Period size: 15 Copynumber: 2.7 Consensus size: 15
13880166 AATAATAACT
*
13880176 ATAAATAAAAATATA
1 ATAAATAAAAGTATA
13880191 A-AAATATAAAGTATA
1 ATAAATA-AAAGTATA
13880206 ATAAATAAAAG
1 ATAAATAAAAG
13880217 ACAAGTGTAT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 5 0.22
15 13 0.57
16 5 0.22
ACGTcount: A:0.71, C:0.00, G:0.05, T:0.24
Consensus pattern (15 bp):
ATAAATAAAAGTATA
Found at i:13880267 original size:19 final size:19
Alignment explanation
Indices: 13880239--13880277 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
13880229 TGATATATGG
*
13880239 ATACATATGTACT-AATAAT
1 ATACACATGTA-TAAATAAT
13880258 ATACACATGTATAAATAAT
1 ATACACATGTATAAATAAT
13880277 A
1 A
13880278 AATAAGTATT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 1 0.06
19 17 0.94
ACGTcount: A:0.51, C:0.10, G:0.05, T:0.33
Consensus pattern (19 bp):
ATACACATGTATAAATAAT
Found at i:13893105 original size:42 final size:42
Alignment explanation
Indices: 13893058--13893145 Score: 104
Period size: 42 Copynumber: 2.1 Consensus size: 42
13893048 GAAGCCTAAA
* * * *
13893058 GGTTGAACAGAAGCTCATGAGAGCTAAATAGAAACCCATAAG
1 GGTTGAACAGAAACTCATAAGAGCTAAAAAAAAACCCATAAG
** * *
13893100 GGTTGAATGGAAACTCGTAAGATCTAAAAAAAAACCCATAAG
1 GGTTGAACAGAAACTCATAAGAGCTAAAAAAAAACCCATAAG
13893142 GGTT
1 GGTT
13893146 ACTAGAACTC
Statistics
Matches: 38, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
42 38 1.00
ACGTcount: A:0.43, C:0.15, G:0.23, T:0.19
Consensus pattern (42 bp):
GGTTGAACAGAAACTCATAAGAGCTAAAAAAAAACCCATAAG
Found at i:13894312 original size:46 final size:46
Alignment explanation
Indices: 13894254--13894480 Score: 348
Period size: 46 Copynumber: 4.9 Consensus size: 46
13894244 TTTCTGTCAT
* * *
13894254 GTTGCCATGGTATCTTTCAACCATGGTCTTATTCTTTTCATGTCAC
1 GTTGCCATGGTATCTTTCAACCATGGTCTTATACTTTTCATATCAG
* *
13894300 GTTGCCATGGTATCTTTCAACCATGGTCTTACA-TATTTCATATCAT
1 GTTGCCATGGTATCTTTCAACCATGGTCTTATACT-TTTCATATCAG
* *
13894346 GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 GTTGCCATGGTATCTTTCAACCATGGTCTTATACTTTTCATATCAG
*
13894392 GTTGCCATGGTATCTTTCAACCATGGTCTTATACATTTCATATCAG
1 GTTGCCATGGTATCTTTCAACCATGGTCTTATACTTTTCATATCAG
* *
13894438 GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
1 GTTGCCATGGTATCTTTCAACCATGGTCTTATACTTTTCATAT
13894481 TAGAGAGCAC
Statistics
Matches: 171, Mismatches: 8, Indels: 4
0.93 0.04 0.02
Matches are distributed among these distances:
45 1 0.01
46 170 0.99
ACGTcount: A:0.22, C:0.23, G:0.15, T:0.40
Consensus pattern (46 bp):
GTTGCCATGGTATCTTTCAACCATGGTCTTATACTTTTCATATCAG
Found at i:13894361 original size:92 final size:92
Alignment explanation
Indices: 13894206--13894480 Score: 390
Period size: 92 Copynumber: 2.9 Consensus size: 92
13894196 TTTGACATGA
* * * *
13894206 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTCATTTTC-TGTCATGTTGCCATGGTATCTT
1 TGCCATGGTATCTTTCAACCATGGTCTTA--CA-T-A-TTTCATATCATGTTGCCATGGTATCTT
** * *
13894270 TCAACCATGGTCTTATTCTTTTCATGTCACGT
61 TCAACCATGGTCTTACACATTTCATATCACGT
13894302 TGCCATGGTATCTTTCAACCATGGTCTTACATATTTCATATCATGTTGCCATGGTATCTTTCAAC
1 TGCCATGGTATCTTTCAACCATGGTCTTACATATTTCATATCATGTTGCCATGGTATCTTTCAAC
*
13894367 CATGGTCTTACACATTTCATATCAGGT
66 CATGGTCTTACACATTTCATATCACGT
* * *
13894394 TGCCATGGTATCTTTCAACCATGGTCTTATACATTTCATATCAGGTTGCCATGGTATCTTTCAAC
1 TGCCATGGTATCTTTCAACCATGGTCTTACATATTTCATATCATGTTGCCATGGTATCTTTCAAC
13894459 CATGGTCTTACACATTTCATAT
66 CATGGTCTTACACATTTCATAT
13894481 TAGAGAGCAC
Statistics
Matches: 166, Mismatches: 12, Indels: 6
0.90 0.07 0.03
Matches are distributed among these distances:
91 4 0.02
92 133 0.80
93 1 0.01
94 2 0.01
96 26 0.16
ACGTcount: A:0.22, C:0.23, G:0.14, T:0.41
Consensus pattern (92 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACATATTTCATATCATGTTGCCATGGTATCTTTCAAC
CATGGTCTTACACATTTCATATCACGT
Found at i:13894458 original size:138 final size:140
Alignment explanation
Indices: 13894201--13894480 Score: 413
Period size: 138 Copynumber: 2.0 Consensus size: 140
13894191 TTATCTTTGA
* * * *
13894201 CATGATGCCATAGTGTCTTTCAACTATGGTCTTACTCATTCATTTTCTGTCATGTTGCCATGGTA
1 CATGATGCCATAGTATCTTTCAACCATGGTCTTAC-CA-TCATTTTCTATCAGGTTGCCATGGTA
* * *
13894266 TCTTTCAACCATGGTCTTATTCTTTTCATGTCACGTTGCCATGGTATCTTTCAACCATGGTCTTA
64 TCTTTCAACCATGGTCTTATACATTTCATATCACGTTGCCATGGTATCTTTCAACCATGGTCTTA
*
13894331 CATATTTCATAT
129 CACATTTCATAT
* *
13894343 CATGTTGCCATGGTATCTTTCAACCATGGTCTTA-CA-CA-TTTCATATCAGGTTGCCATGGTAT
1 CATGATGCCATAGTATCTTTCAACCATGGTCTTACCATCATTTTC-TATCAGGTTGCCATGGTAT
*
13894405 CTTTCAACCATGGTCTTATACATTTCATATCAGGTTGCCATGGTATCTTTCAACCATGGTCTTAC
65 CTTTCAACCATGGTCTTATACATTTCATATCACGTTGCCATGGTATCTTTCAACCATGGTCTTAC
13894470 ACATTTCATAT
130 ACATTTCATAT
13894481 TAGAGAGCAC
Statistics
Matches: 126, Mismatches: 11, Indels: 6
0.88 0.08 0.04
Matches are distributed among these distances:
137 4 0.03
138 90 0.71
140 2 0.02
142 30 0.24
ACGTcount: A:0.22, C:0.23, G:0.14, T:0.41
Consensus pattern (140 bp):
CATGATGCCATAGTATCTTTCAACCATGGTCTTACCATCATTTTCTATCAGGTTGCCATGGTATC
TTTCAACCATGGTCTTATACATTTCATATCACGTTGCCATGGTATCTTTCAACCATGGTCTTACA
CATTTCATAT
Found at i:13896643 original size:16 final size:17
Alignment explanation
Indices: 13896612--13896657 Score: 58
Period size: 16 Copynumber: 2.8 Consensus size: 17
13896602 TCATCCTTTC
*
13896612 TTTCTTTTTCTATTCTT
1 TTTCTTTTTATATTCTT
13896629 TTTCTTTTTAT-TTCTT
1 TTTCTTTTTATATTCTT
* *
13896645 TTACTTTATATAT
1 TTTCTTTTTATAT
13896658 ATATATATAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
16 14 0.56
17 11 0.44
ACGTcount: A:0.13, C:0.13, G:0.00, T:0.74
Consensus pattern (17 bp):
TTTCTTTTTATATTCTT
Found at i:13896646 original size:10 final size:10
Alignment explanation
Indices: 13896608--13896645 Score: 51
Period size: 10 Copynumber: 3.7 Consensus size: 10
13896598 CGTTTCATCC
13896608 TTTCTTTCTT
1 TTTCTTTCTT
13896618 TTTCTATTCTT
1 TTTCT-TTCTT
13896629 TTTCTTT-TT
1 TTTCTTTCTT
13896638 ATTTCTTT
1 -TTTCTTT
13896646 TACTTTATAT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
9 2 0.08
10 14 0.54
11 10 0.38
ACGTcount: A:0.05, C:0.16, G:0.00, T:0.79
Consensus pattern (10 bp):
TTTCTTTCTT
Found at i:13900213 original size:21 final size:20
Alignment explanation
Indices: 13900187--13900226 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
13900177 TTATTTTTAT
13900187 TTATATATAAGAAACATAAAA
1 TTATAT-TAAGAAACATAAAA
* *
13900208 TTATATTTAGAAATATAAA
1 TTATATTAAGAAACATAAA
13900227 CAACTCATTA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.57, C:0.03, G:0.05, T:0.35
Consensus pattern (20 bp):
TTATATTAAGAAACATAAAA
Found at i:13900689 original size:15 final size:15
Alignment explanation
Indices: 13900669--13900699 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
13900659 AAAATATTTT
13900669 ATATTGTTGATCTAG
1 ATATTGTTGATCTAG
13900684 ATATTGTTGATCTAG
1 ATATTGTTGATCTAG
13900699 A
1 A
13900700 AAAAAACTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.29, C:0.06, G:0.19, T:0.45
Consensus pattern (15 bp):
ATATTGTTGATCTAG
Found at i:13901514 original size:32 final size:32
Alignment explanation
Indices: 13901429--13901493 Score: 121
Period size: 32 Copynumber: 2.0 Consensus size: 32
13901419 AATGCTTACC
*
13901429 ATGCCCATCATCCATTAACTATTAAAATGCTA
1 ATGCTCATCATCCATTAACTATTAAAATGCTA
13901461 ATGCTCATCATCCATTAACTATTAAAATGCTA
1 ATGCTCATCATCCATTAACTATTAAAATGCTA
13901493 A
1 A
13901494 AATGCATACA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.38, C:0.23, G:0.06, T:0.32
Consensus pattern (32 bp):
ATGCTCATCATCCATTAACTATTAAAATGCTA
Found at i:13909898 original size:20 final size:20
Alignment explanation
Indices: 13909837--13909887 Score: 86
Period size: 20 Copynumber: 2.6 Consensus size: 20
13909827 CTGCTTTCAC
*
13909837 TTGCTGACAAATCAAACATT
1 TTGCTAACAAATCAAACATT
13909857 TTGCTAACAAATCAAACATT
1 TTGCTAACAAATCAAACATT
13909877 TTGCT-ACAAAT
1 TTGCTAACAAAT
13909888 TCACAAATTT
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
19 6 0.20
20 24 0.80
ACGTcount: A:0.41, C:0.20, G:0.08, T:0.31
Consensus pattern (20 bp):
TTGCTAACAAATCAAACATT
Found at i:13914711 original size:21 final size:21
Alignment explanation
Indices: 13914631--13914739 Score: 74
Period size: 21 Copynumber: 5.2 Consensus size: 21
13914621 GCCCGAAGGC
* * *
13914631 TGAACAGAAGCTCATGAGAGC
1 TGAACAGAAACTCATAAGAGT
* * * *
13914652 TAAAAAGAAACCCATAAGGGT
1 TGAACAGAAACTCATAAGAGT
** *
13914673 TGAACAGATGCTCTTAAGAGT
1 TGAACAGAAACTCATAAGAGT
* *
13914694 TGAACAAAAACTCATAAGGGT
1 TGAACAGAAACTCATAAGAGT
* * * *
13914715 TAAACAGAAGCTCAAAAGAGC
1 TGAACAGAAACTCATAAGAGT
13914736 TGAA
1 TGAA
13914740 TGGAAACTTA
Statistics
Matches: 62, Mismatches: 26, Indels: 0
0.70 0.30 0.00
Matches are distributed among these distances:
21 62 1.00
ACGTcount: A:0.45, C:0.16, G:0.22, T:0.17
Consensus pattern (21 bp):
TGAACAGAAACTCATAAGAGT
Found at i:13914734 original size:42 final size:43
Alignment explanation
Indices: 13914633--13914739 Score: 128
Period size: 42 Copynumber: 2.5 Consensus size: 43
13914623 CCGAAGGCTG
* *
13914633 AACAGAAGCTCATGAGAGCT-AAAAAGAAACCCATAAGGGTTG
1 AACAGAAGCTCATAAGAGCTGAAAAAGAAACCCATAAGGGTTA
* * * * *
13914675 AACAGATGCTCTTAAGAGTTGAACAA-AAACTCATAAGGGTTA
1 AACAGAAGCTCATAAGAGCTGAAAAAGAAACCCATAAGGGTTA
*
13914717 AACAGAAGCTCAAAAGAGCTGAA
1 AACAGAAGCTCATAAGAGCTGAA
13914740 TGGAAACTTA
Statistics
Matches: 53, Mismatches: 11, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
42 49 0.92
43 4 0.08
ACGTcount: A:0.46, C:0.16, G:0.21, T:0.17
Consensus pattern (43 bp):
AACAGAAGCTCATAAGAGCTGAAAAAGAAACCCATAAGGGTTA
Found at i:13924728 original size:46 final size:45
Alignment explanation
Indices: 13924598--13924862 Score: 207
Period size: 46 Copynumber: 5.7 Consensus size: 45
13924588 TGTGTGGGCT
* * * * *
13924598 AGTGTAAGACATGTCTGGGACATGTATCAGCCAT-ATTATGGGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCTTGA-GATGAGAG-C
* * * *
13924644 AGTGTAAGACCGTGTATGGGACATGGCATCGGCATTGAGATGAGAGGT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTTGAGATGAGA-GC
* * *
13924692 AGGGTAAGACATGTTTGGGACATGCATCGGCCTTGAGACGTA-AGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCTTGAGATG-AGAG-C
* * *
13924738 AGTGTAAGACATGTCTAGGACATGCGTCGG-CTATGAGATGATAGTC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCT-TGAGATGAGAG-C
*
13924784 AGTGTAAGACCATGTCTGGGACATGGCATC-GACTTGAGAT-ATGAGC
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTTGAGATGA-GAGC
* *
13924830 AGTGTAAGACAATGTGTGGGATATGACATCGGC
1 AGTGTAAGAC-ATGTCTGGGACATG-CATCGGC
13924863 ACCTTACCCA
Statistics
Matches: 177, Mismatches: 27, Indels: 29
0.76 0.12 0.12
Matches are distributed among these distances:
45 6 0.03
46 95 0.54
47 48 0.27
48 26 0.15
49 2 0.01
ACGTcount: A:0.28, C:0.16, G:0.32, T:0.24
Consensus pattern (45 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCCTTGAGATGAGAGC
Found at i:13924836 original size:92 final size:93
Alignment explanation
Indices: 13924640--13924863 Score: 224
Period size: 93 Copynumber: 2.4 Consensus size: 93
13924630 ATATTATGGG
* *
13924640 AGCCAGTGTAAGACCGTGTATGGGACATGGCATCGGCATTGAGATGAGAGGTAGGGTAAGACATG
1 AGCCAGTGTAAGA-CATGTATAGGACATGGCATCGGCATTGAGATGAGAGGTAGGGTAAGACATG
* * *
13924705 TTTGGGACATGCATCGGCCTTGAGACGTA
65 TCTGGGACATGCATCGGACTTGAGACATA
* * * *
13924734 AGCCAGTGTAAGACATGTCTAGGACAT-GCGTCGGC-TATGAGATGATA-GTCAGTGTAAGACCA
1 AGCCAGTGTAAGACATGTATAGGACATGGCATCGGCAT-TGAGATGAGAGGT-AGGGTAAGA-CA
* *
13924796 TGTCTGGGACATGGCATC-GACTTGAGATATG
63 TGTCTGGGACAT-GCATCGGACTTGAGACATA
* * * *
13924827 AG-CAGTGTAAGACAATGTGTGGGATATGACATCGGCA
1 AGCCAGTGTAAGAC-ATGTATAGGACATGGCATCGGCA
13924864 CCTTACCCAC
Statistics
Matches: 107, Mismatches: 16, Indels: 13
0.79 0.12 0.10
Matches are distributed among these distances:
91 3 0.03
92 35 0.33
93 45 0.42
94 24 0.22
ACGTcount: A:0.28, C:0.16, G:0.33, T:0.23
Consensus pattern (93 bp):
AGCCAGTGTAAGACATGTATAGGACATGGCATCGGCATTGAGATGAGAGGTAGGGTAAGACATGT
CTGGGACATGCATCGGACTTGAGACATA
Found at i:13926184 original size:132 final size:131
Alignment explanation
Indices: 13925656--13926303 Score: 520
Period size: 132 Copynumber: 4.9 Consensus size: 131
13925646 AAAATACAAA
* * * ** * * *
13925656 TGAAATTCTGAAGAGATATTCGATTATTTTGACCAAACGGGAAATTGCTACCTAGCACGATAGGG
1 TGAAATTTTGAAGGGATATTCGATTATTTTGAGCAAACAAGAAATTGCAACCCAACACGATAGGG
* * * * * * * *** *
13925721 TACTATTCCCCGAACTGCCAAACATCGAACA-CTTCTTTCATTTTAAAGGGCTTTTAAAA-AAAG
66 CACGATT-CTCGAATTGCCAAACATCGAACATC-GCCTTCGTTTTAAAGAATTTTTAAAAGACA-
*
13925784 TGAA
128 TGAG
*** * * * * * * *
13925788 TGAAATTCCCAAGGGATCTTCGATTGTTTAGACCAAATGAAAAAAGTGCAACCCAACACGATAGG
1 TGAAATTTTGAAGGGATATTCGATTATTTTGAGCAAA-CAAGAAATTGCAACCCAACACGATAGG
* * * * *
13925853 GCACGATTCTCAAATCGCCAAACATTGAACAT--CCTTTGTTTTGAAA-AGTTTTTAATAA-ACA
65 GCACGATTCTCGAATTGCCAAACATCGAACATCGCCTTCGTTTT-AAAGAATTTTTAA-AAGACA
13925914 TGAG
128 TGAG
*** * * * * ** *
13925918 TGAAAACCTAAAGGAATATTCGATTGTTTTGAGCAAACGAGAAATCACAACCCAGCACGATAGGG
1 TGAAATTTTGAAGGGATATTCGATTATTTTGAGCAAACAAGAAATTGCAACCCAACACGATAGGG
* * * * * *
13925983 CATGATTCTCGAATTGTCAAACGTCGAATATTGCCTTCGTTTTAAATG-ATTTTTAGAAGACATG
66 CACGATTCTCGAATTGCCAAACATCGAACATCGCCTTCGTTTTAAA-GAATTTTTAAAAGACATG
13926047 AG
130 AG
* * * * *
13926049 TGAAATTTTGAAGGGATATTTGATTATTTTAAGCAAACAAGAGATTGCAACCCAGCACGTTAGGG
1 TGAAATTTTGAAGGGATATTCGATTATTTTGAGCAAACAAGAAATTGCAACCCAACACGATAGGG
* * * *
13926114 CACGATTCTGTGAATTGCCAAATATCGCACATCGCCTTCGTTTTAAAGAATTTTTAAAAGGCATG
66 CACGATTCT-CGAATTGCCAAACATCGAACATCGCCTTCGTTTTAAAGAATTTTTAAAAGACATG
13926179 AG
130 AG
* * *
13926181 TGAAATTTTGAAGGGATATTCGATTATTTTGAGAAAACACGAAATTGCAACCCAACACGTTAGGG
1 TGAAATTTTGAAGGGATATTCGATTATTTTGAGCAAACAAGAAATTGCAACCCAACACGATAGGG
* * * * * * *
13926246 CACTATTCCGCGAATTGTCAAATATCAAATC-TCGTCTTCGTTTTAAAGGATTTTTAAA
66 CACGATT-CTCGAATTGCCAAACATCGAA-CATCGCCTTCGTTTTAAAGAATTTTTAAA
13926304 CGAATACTTA
Statistics
Matches: 413, Mismatches: 90, Indels: 26
0.78 0.17 0.05
Matches are distributed among these distances:
129 45 0.11
130 51 0.12
131 90 0.22
132 200 0.48
133 27 0.07
ACGTcount: A:0.35, C:0.17, G:0.18, T:0.29
Consensus pattern (131 bp):
TGAAATTTTGAAGGGATATTCGATTATTTTGAGCAAACAAGAAATTGCAACCCAACACGATAGGG
CACGATTCTCGAATTGCCAAACATCGAACATCGCCTTCGTTTTAAAGAATTTTTAAAAGACATGA
G
Found at i:13926874 original size:20 final size:20
Alignment explanation
Indices: 13926838--13926876 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
13926828 ATGATGATTT
*
13926838 AAATAATATATATGATATAA
1 AAATAATATATAAGATATAA
13926858 AAATAATA-ATGAAGATATA
1 AAATAATATAT-AAGATATA
13926877 TGACAAGACA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 2 0.12
20 15 0.88
ACGTcount: A:0.62, C:0.00, G:0.08, T:0.31
Consensus pattern (20 bp):
AAATAATATATAAGATATAA
Found at i:13927231 original size:12 final size:12
Alignment explanation
Indices: 13927214--13927239 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
13927204 AGCGTATTAG
13927214 TATATATGTATA
1 TATATATGTATA
13927226 TATATATGTATA
1 TATATATGTATA
13927238 TA
1 TA
13927240 AATTCAAAAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.42, C:0.00, G:0.08, T:0.50
Consensus pattern (12 bp):
TATATATGTATA
Found at i:13929663 original size:132 final size:132
Alignment explanation
Indices: 13929408--13929655 Score: 340
Period size: 132 Copynumber: 1.9 Consensus size: 132
13929398 TGCAATCTTC
* * **
13929408 AGCCTACTCCGCTGCAACTTTAGGGAGCTAGGTTGGTGGTGTAAATCTGCTTCACTACAACTTCA
1 AGCCTACTCCACTACAACTTTAAAGAGCTAGGTTGGTGGTGTAAATCTGCTTCACTACAACTTCA
* * **
13929473 GGAAGACTAGATTCATCGTCTTTGATCTGTTACACTACAACTTTCGGGAAAAAAGATCTAAAATT
66 GGAAGACAAGATTCACCGTCTTCAATCTGTTACACTACAACTTTCGGGAAAAAAGATCTAAAATT
13929538 TT
131 TT
* *
13929540 AGCCTACTCCACTACAACTTTAAAGAGCTGGGTTGGTGGCT-TAAATCTGCTTCACTGCAACTTC
1 AGCCTACTCCACTACAACTTTAAAGAGCTAGGTTGGTGG-TGTAAATCTGCTTCACTACAACTTC
* *
13929604 AGGAAGCCAAGATTCACCGTCTTCAATCTGCTT-CACTGCAAC-TTCAGGGAAA
65 AGGAAGACAAGATTCACCGTCTTCAATCTG-TTACACTACAACTTTC-GGGAAA
13929656 CAGGATCTGT
Statistics
Matches: 101, Mismatches: 12, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
131 3 0.03
132 95 0.94
133 3 0.03
ACGTcount: A:0.28, C:0.23, G:0.19, T:0.29
Consensus pattern (132 bp):
AGCCTACTCCACTACAACTTTAAAGAGCTAGGTTGGTGGTGTAAATCTGCTTCACTACAACTTCA
GGAAGACAAGATTCACCGTCTTCAATCTGTTACACTACAACTTTCGGGAAAAAAGATCTAAAATT
TT
Found at i:13941708 original size:132 final size:131
Alignment explanation
Indices: 13941186--13941830 Score: 442
Period size: 132 Copynumber: 5.0 Consensus size: 131
13941176 TAGAAAATAC
* * * * * * *
13941186 GAGTGAAATTCTGAAGAGATATTCGATTATTTTGACCAAACGAGAAATTGCTACCCAGCACGATA
1 GAGTGAAATTTTGAAGGGATATTCGATTATTTTAAGCAAACGAGAAATTGCAACCCAACACGTTA
* * * * * * * * * * ** *
13941251 GGGTACTATTCCCCGAACTGCCAAACATCGAA-CACTTCTTTCGTTTTAAAGGGCTTTTAAAAAA
66 GGGCACGATTCCGCAAATTGTCAAATATCGAATCTC-GCCTTCGTTTTAAA-GATTTTTAAAAGA
*
13941315 CGT
129 CAT
* *** * * * * * ** * *
13941318 GAATGAAATTCCCAAGGGATCTTCGATT-GTTTAGACCAAATGAAAAAAGCGCAATCCAACACGA
1 GAGTGAAATTTTGAAGGGATATTCGATTATTTTA-AGCAAACG-AGAAATTGCAACCCAACACGT
* * * * *
13941382 TAGGGCACGATT-CTCAAATCGCCAAACATCGAA-CAT--CCTTTGTTTTGAAA-AGTTTTTAAT
64 TAGGGCACGATTCCGCAAATTGTCAAATATCGAATC-TCGCCTTCGTTTT-AAAGA-TTTTTAA-
13941442 AA-ACAT
125 AAGACAT
*** * * * * **
13941448 GAGTGAAAGCCTAAAGGAATATTCGATTGTTTTGAGCAAACGAGAAA-T-C-A--CAAC-CCATA
1 GAGTGAAATTTTGAAGGGATATTCGATTATTTTAAGCAAACGAGAAATTGCAACCCAACACGTTA
* * *** * * *
13941507 GGGCATGATTCC-CGAATTGTCAAACGCCGAATATTGCCTTCGTTTTAAATGATTTTTAGAAGAC
66 GGGCACGATTCCGCAAATTGTCAAATATCGAATCTCGCCTTCGTTTTAAA-GATTTTTAAAAGAC
13941571 AT
130 AT
* * * *
13941573 GAGTGCAATTTTGAAGGGATATTTGATTATTTTAAGCAAACGAGAGATTGCAACCCAGCACGTTA
1 GAGTGAAATTTTGAAGGGATATTCGATTATTTTAAGCAAACGAGAAATTGCAACCCAACACGTTA
*
13941638 GGGCACGATTCCGCAAATT-TCCAAATATCGCA-CATCGCCTTCGTTTTAAAGAATTTTTAAAAG
66 GGGCACGATTCCGCAAATTGT-CAAATATCGAATC-TCGCCTTCGTTTTAAAG-ATTTTTAAAAG
*
13941701 GCAT
128 ACAT
* * *
13941705 GAGTGAAATTTTGAAGGGATATTCGATTATTTTGAGCAAACGCGAAATTGCAGCCCAACACGTTA
1 GAGTGAAATTTTGAAGGGATATTCGATTATTTTAAGCAAACGAGAAATTGCAACCCAACACGTTA
* * *
13941770 GGGCACTATTCCGCGAATTGTCAAATATCGAATCTCGTCTTCGTTTTAAAGGATTTTTAAA
66 GGGCACGATTCCGCAAATTGTCAAATATCGAATCTCGCCTTCGTTTTAAA-GATTTTTAAA
13941831 TGAATACTTA
Statistics
Matches: 403, Mismatches: 83, Indels: 54
0.75 0.15 0.10
Matches are distributed among these distances:
123 28 0.07
124 10 0.02
125 56 0.14
126 3 0.01
127 2 0.00
128 1 0.00
129 4 0.01
130 47 0.12
131 27 0.07
132 197 0.49
133 28 0.07
ACGTcount: A:0.34, C:0.19, G:0.19, T:0.29
Consensus pattern (131 bp):
GAGTGAAATTTTGAAGGGATATTCGATTATTTTAAGCAAACGAGAAATTGCAACCCAACACGTTA
GGGCACGATTCCGCAAATTGTCAAATATCGAATCTCGCCTTCGTTTTAAAGATTTTTAAAAGACA
T
Found at i:13942396 original size:20 final size:20
Alignment explanation
Indices: 13942360--13942398 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
13942350 ATGATGATTT
*
13942360 AAATAATATATATGATATAA
1 AAATAATATATAAGATATAA
13942380 AAATAATA-ATGAAGATATA
1 AAATAATATAT-AAGATATA
13942399 TGACAAGACA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 2 0.12
20 15 0.88
ACGTcount: A:0.62, C:0.00, G:0.08, T:0.31
Consensus pattern (20 bp):
AAATAATATATAAGATATAA
Found at i:13942756 original size:12 final size:12
Alignment explanation
Indices: 13942739--13942764 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
13942729 AGCGTATTAG
13942739 TATATATGTATA
1 TATATATGTATA
13942751 TATATATGTATA
1 TATATATGTATA
13942763 TA
1 TA
13942765 AATTCAAAAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.42, C:0.00, G:0.08, T:0.50
Consensus pattern (12 bp):
TATATATGTATA
Found at i:13948468 original size:21 final size:21
Alignment explanation
Indices: 13948442--13948484 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
13948432 AAGGTAAATA
13948442 TATAATCTAATGAATTTTACT
1 TATAATCTAATGAATTTTACT
13948463 TATAATCTAATGAATTTTACT
1 TATAATCTAATGAATTTTACT
13948484 T
1 T
13948485 TGTTACGAGT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.37, C:0.09, G:0.05, T:0.49
Consensus pattern (21 bp):
TATAATCTAATGAATTTTACT
Found at i:13949707 original size:42 final size:42
Alignment explanation
Indices: 13949648--13949730 Score: 121
Period size: 42 Copynumber: 2.0 Consensus size: 42
13949638 CAGCGCTTTC
* * * *
13949648 TTGCAACGTATGCTGAAAACATATCTAGCTTAATGCGTTTTT
1 TTGCAAAGTACGCTGAAAACACATCCAGCTTAATGCGTTTTT
*
13949690 TTGCAAAGTACGCTGAAAACACATCCAGCTTAGTGCGTTTT
1 TTGCAAAGTACGCTGAAAACACATCCAGCTTAATGCGTTTT
13949731 AAAAATTGAC
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 36 1.00
ACGTcount: A:0.29, C:0.19, G:0.18, T:0.34
Consensus pattern (42 bp):
TTGCAAAGTACGCTGAAAACACATCCAGCTTAATGCGTTTTT
Found at i:13955587 original size:22 final size:22
Alignment explanation
Indices: 13955539--13955588 Score: 55
Period size: 22 Copynumber: 2.3 Consensus size: 22
13955529 TCCAAGTTTG
* **
13955539 ATATTTTTTAAATATAGTATTT
1 ATATTTTTTAAATATAATACAT
* *
13955561 GTATTTTTTCAATATAATACAT
1 ATATTTTTTAAATATAATACAT
13955583 ATATTT
1 ATATTT
13955589 GATAAATGTT
Statistics
Matches: 22, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.36, C:0.04, G:0.04, T:0.56
Consensus pattern (22 bp):
ATATTTTTTAAATATAATACAT
Found at i:13963111 original size:44 final size:44
Alignment explanation
Indices: 13963030--13963119 Score: 101
Period size: 44 Copynumber: 2.0 Consensus size: 44
13963020 AACTGATGTA
* *
13963030 AAGTAGCAGTATGACACACATGGTGCCTCATCGACTCATA-GTCG
1 AAGTAACAGTATGACACACATAGTGCCTCATCGACTCA-AGGTCG
** * **
13963074 AAGTAACAGTATGACACTTATAGTGCCTTATTTACTCAAGGTCG
1 AAGTAACAGTATGACACACATAGTGCCTCATCGACTCAAGGTCG
13963118 AA
1 AA
13963120 ATATCCTTGA
Statistics
Matches: 38, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
43 1 0.03
44 37 0.97
ACGTcount: A:0.32, C:0.21, G:0.20, T:0.27
Consensus pattern (44 bp):
AAGTAACAGTATGACACACATAGTGCCTCATCGACTCAAGGTCG
Found at i:13964311 original size:22 final size:22
Alignment explanation
Indices: 13964274--13964320 Score: 53
Period size: 21 Copynumber: 2.1 Consensus size: 22
13964264 TCTGTTTCTT
*
13964274 TTTTATGCTTTATTTTGTTT-G
1 TTTTATGCTTTATTTTATTTAG
13964295 TTTTAT-CTTTTATTTTTATTTAG
1 TTTTATGC-TTTA-TTTTATTTAG
13964318 TTT
1 TTT
13964321 ATTATATTAC
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
20 1 0.05
21 10 0.45
22 7 0.32
23 4 0.18
ACGTcount: A:0.13, C:0.04, G:0.09, T:0.74
Consensus pattern (22 bp):
TTTTATGCTTTATTTTATTTAG
Found at i:13964518 original size:18 final size:19
Alignment explanation
Indices: 13964495--13964544 Score: 77
Period size: 18 Copynumber: 2.7 Consensus size: 19
13964485 CAATTAAATA
13964495 ATAATAATAAATAT-TATT
1 ATAATAATAAATATCTATT
13964513 ATAATAATAAATATCTATT
1 ATAATAATAAATATCTATT
*
13964532 -TAATAACAAATAT
1 ATAATAATAAATAT
13964545 AAATATTACA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
18 26 0.87
19 4 0.13
ACGTcount: A:0.56, C:0.04, G:0.00, T:0.40
Consensus pattern (19 bp):
ATAATAATAAATATCTATT
Found at i:13964537 original size:42 final size:43
Alignment explanation
Indices: 13964471--13964552 Score: 114
Period size: 42 Copynumber: 1.9 Consensus size: 43
13964461 TTCGTTGATC
*
13964471 TAATAATATAATATCAATTAAATAA-TAATAATAAATATTATTA
1 TAATAATATAATATCAATTAAATAACAAAT-ATAAATATTATTA
* *
13964514 TAATAATA-AATATCTATTTAATAACAAATATAAATATTA
1 TAATAATATAATATCAATTAAATAACAAATATAAATATTA
13964553 CAAATGTACA
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
42 24 0.69
43 11 0.31
ACGTcount: A:0.57, C:0.04, G:0.00, T:0.39
Consensus pattern (43 bp):
TAATAATATAATATCAATTAAATAACAAATATAAATATTATTA
Found at i:13964682 original size:33 final size:32
Alignment explanation
Indices: 13964630--13964701 Score: 94
Period size: 33 Copynumber: 2.2 Consensus size: 32
13964620 TATTTATCAT
13964630 ATAAAA-ATCTTTTACTAATTA-ATAATAAATA
1 ATAAAATATCTTTTACTAATTATAT-ATAAATA
*
13964661 ATAAAATATCTTTTTATTAATTATATATAAATA
1 ATAAAATATC-TTTTACTAATTATATATAAATA
13964694 ATACAAAT
1 ATA-AAAT
13964702 GTACTCATTT
Statistics
Matches: 36, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
31 6 0.17
32 3 0.08
33 21 0.58
34 6 0.17
ACGTcount: A:0.53, C:0.06, G:0.00, T:0.42
Consensus pattern (32 bp):
ATAAAATATCTTTTACTAATTATATATAAATA
Found at i:13970616 original size:21 final size:21
Alignment explanation
Indices: 13970557--13970621 Score: 69
Period size: 21 Copynumber: 3.1 Consensus size: 21
13970547 CAGAAGCAGT
*
13970557 ATACGACACATAAAGTGCCTGA
1 ATACGACACATATAGTGCCT-A
** *
13970579 AT-CGACACACGTGGTGCCTA
1 ATACGACACATATAGTGCCTA
*
13970599 ATACAACACATATAGTGCCTA
1 ATACGACACATATAGTGCCTA
13970620 AT
1 AT
13970622 CAGCAAAGCT
Statistics
Matches: 34, Mismatches: 8, Indels: 3
0.76 0.18 0.07
Matches are distributed among these distances:
20 3 0.09
21 29 0.85
22 2 0.06
ACGTcount: A:0.37, C:0.25, G:0.17, T:0.22
Consensus pattern (21 bp):
ATACGACACATATAGTGCCTA
Found at i:13980248 original size:52 final size:52
Alignment explanation
Indices: 13980187--13980290 Score: 181
Period size: 52 Copynumber: 2.0 Consensus size: 52
13980177 CTGATAAGTT
* * *
13980187 AGCTTCACAATGTGTGCAAGATAAGTTTTGTAATTTTCTATGTAATTAGTGG
1 AGCTTCACAATGTGTGCAAGATAAATTATGTAATTTTCAATGTAATTAGTGG
13980239 AGCTTCACAATGTGTGCAAGATAAATTATGTAATTTTCAATGTAATTAGTGG
1 AGCTTCACAATGTGTGCAAGATAAATTATGTAATTTTCAATGTAATTAGTGG
13980291 GAGTAGTTAT
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
52 49 1.00
ACGTcount: A:0.32, C:0.10, G:0.20, T:0.38
Consensus pattern (52 bp):
AGCTTCACAATGTGTGCAAGATAAATTATGTAATTTTCAATGTAATTAGTGG
Found at i:13981006 original size:48 final size:48
Alignment explanation
Indices: 13980935--13981030 Score: 183
Period size: 48 Copynumber: 2.0 Consensus size: 48
13980925 ATGGGAGAAG
*
13980935 GGGTTTCAATTTGGTTACTACCTATTTCTATGTGGGTCAAACTCAATA
1 GGGTTTCAATTTGGTTACTACCTATTTCTATATGGGTCAAACTCAATA
13980983 GGGTTTCAATTTGGTTACTACCTATTTCTATATGGGTCAAACTCAATA
1 GGGTTTCAATTTGGTTACTACCTATTTCTATATGGGTCAAACTCAATA
13981031 CAAATGGTAT
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 47 1.00
ACGTcount: A:0.26, C:0.17, G:0.18, T:0.40
Consensus pattern (48 bp):
GGGTTTCAATTTGGTTACTACCTATTTCTATATGGGTCAAACTCAATA
Found at i:13981608 original size:3 final size:3
Alignment explanation
Indices: 13981600--13981659 Score: 113
Period size: 3 Copynumber: 20.3 Consensus size: 3
13981590 AACCAAAGCC
13981600 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
13981648 TTA TTA TT- TTA T
1 TTA TTA TTA TTA T
13981660 ATGACAAATT
Statistics
Matches: 56, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
2 2 0.04
3 54 0.96
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:13983439 original size:3 final size:3
Alignment explanation
Indices: 13983433--13983476 Score: 79
Period size: 3 Copynumber: 14.7 Consensus size: 3
13983423 TTATAGCCAT
*
13983433 TAA TAA TAA TAA TAA TAA TAA TAA CAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
13983477 GGCATATAGT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (3 bp):
TAA
Found at i:13986079 original size:131 final size:131
Alignment explanation
Indices: 13985795--13986299 Score: 362
Period size: 131 Copynumber: 3.8 Consensus size: 131
13985785 TAGAAAATAC
* * * * *
13985795 GAGTGAAATTCCGAAGGGATCTTCGATTGTTTTGAACAAATGAAAAAGCGCAACCCAGCACGATA
1 GAGTGAAATTCTGAAGGGATATTCGATTGTTTTGAACAAACGAGAAATCGCAACCCAGCACGATA
* *
13985860 GGGCACGATTCTCAAATTTCCAAACATCGAACATCGCCTTCGTTTTGAAAGGTTTTTAATAAACA
66 GGGCACGATTCTCAAATTTCCAAACACCGAACATCGCCTTCGTTTTGAAAGGTCTTTAATAAACA
13985925 T
131 T
** * * *
13985926 GAGTGAAAACCTAAAGGAATATTCGATTGTTTTGAACAAACGAGAAATCACAACCCAGCACGATA
1 GAGTGAAATTCTGAAGGGATATTCGATTGTTTTGAACAAACGAGAAATCGCAACCCAGCACGATA
* * * ** *
13985991 GGGCATGATTC-CTGAATTGT-CAAACCCCGAGTATTGCCTTCGTTTT-AAAGGATCTTTAA-AA
66 GGGCACGATTCTC-AAATT-TCCAAACACCGAACATCGCCTTCGTTTTGAAAGG-TCTTTAATAA
*
13986052 GATAT
128 -ACAT
* * * * * * *
13986057 GAGTGAAATTTTGAAGGGATATTTGATTATTTT-AAGCAGACGAGAAATTGCAACCTAGCACGTT
1 GAGTGAAATTCTGAAGGGATATTCGATTGTTTTGAA-CAAACGAGAAATCGCAACCCAGCACGAT
* * * * * ** * * * *
13986121 AGGGTACGATTTCGCGAATTGCCAAATATAGCATATCGCCTTCG-TTT-AAGGGATTTTTAA-AG
65 AGGGCACGA-TTCTCAAATTTCCAAACACCGAACATCGCCTTCGTTTTGAAAGG-TCTTTAATA-
*
13986183 GACAT
127 AACAT
* * * ** ** ** * * *
13986188 AAGTAAAATTCTAAAGGGACCTTCGATTACTTTGAGTAAACGAGAAATTGCAACCCAACACGTTA
1 GAGTGAAATTCTGAAGGGATATTCGATTGTTTTGAACAAACGAGAAATCGCAACCCAGCACGATA
* ** * *
13986253 GGGCACGATTC-CACGAATTACCAAGGATCGAATATCGCCTTCGTTTT
66 GGGCACGATTCTCA--AATTTCCAAACACCGAACATCGCCTTCGTTTT
13986300 AAGGAATTCC
Statistics
Matches: 296, Mismatches: 65, Indels: 25
0.77 0.17 0.06
Matches are distributed among these distances:
129 1 0.00
130 13 0.04
131 253 0.85
132 28 0.09
133 1 0.00
ACGTcount: A:0.34, C:0.18, G:0.20, T:0.28
Consensus pattern (131 bp):
GAGTGAAATTCTGAAGGGATATTCGATTGTTTTGAACAAACGAGAAATCGCAACCCAGCACGATA
GGGCACGATTCTCAAATTTCCAAACACCGAACATCGCCTTCGTTTTGAAAGGTCTTTAATAAACA
T
Found at i:13988043 original size:23 final size:25
Alignment explanation
Indices: 13987998--13988043 Score: 60
Period size: 23 Copynumber: 1.9 Consensus size: 25
13987988 AGTATATAAG
*
13987998 AATGTTTAACTAAAATACCATATAT
1 AATGTTTAACTAAAATACAATATAT
*
13988023 AATG-TTAAC-AAAATATAATAT
1 AATGTTTAACTAAAATACAATAT
13988044 GAAGATAACA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 10 0.53
24 5 0.26
25 4 0.21
ACGTcount: A:0.52, C:0.09, G:0.04, T:0.35
Consensus pattern (25 bp):
AATGTTTAACTAAAATACAATATAT
Found at i:13990521 original size:32 final size:34
Alignment explanation
Indices: 13990475--13990539 Score: 80
Period size: 34 Copynumber: 2.0 Consensus size: 34
13990465 TAACAGTGGT
*
13990475 ACTGGGCCAGAG-CCCTT-TTCAAATTACAATAA
1 ACTGGGCCAGAGCCCCTTATTCAAATAACAATAA
** *
13990507 ACTGGGCCTTAGCCCCTTATTCAGATAACAATA
1 ACTGGGCCAGAGCCCCTTATTCAAATAACAATA
13990540 TGGCCCATAG
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
32 10 0.37
33 5 0.19
34 12 0.44
ACGTcount: A:0.32, C:0.26, G:0.15, T:0.26
Consensus pattern (34 bp):
ACTGGGCCAGAGCCCCTTATTCAAATAACAATAA
Found at i:13992420 original size:26 final size:26
Alignment explanation
Indices: 13992384--13992467 Score: 150
Period size: 26 Copynumber: 3.2 Consensus size: 26
13992374 CATGAAATTC
13992384 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
13992410 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
13992436 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
13992462 TTATCA
1 TTATCA
13992468 ATTTGTATCA
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 56 1.00
ACGTcount: A:0.37, C:0.25, G:0.05, T:0.33
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:13996045 original size:20 final size:20
Alignment explanation
Indices: 13996020--13996066 Score: 94
Period size: 20 Copynumber: 2.4 Consensus size: 20
13996010 AGGATGACAT
13996020 AAATCTACTGAATTAGAGTC
1 AAATCTACTGAATTAGAGTC
13996040 AAATCTACTGAATTAGAGTC
1 AAATCTACTGAATTAGAGTC
13996060 AAATCTA
1 AAATCTA
13996067 ATAAGGGAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.43, C:0.15, G:0.13, T:0.30
Consensus pattern (20 bp):
AAATCTACTGAATTAGAGTC
Found at i:14000014 original size:17 final size:16
Alignment explanation
Indices: 13999989--14000062 Score: 55
Period size: 17 Copynumber: 4.6 Consensus size: 16
13999979 ATTCTTATAC
13999989 TTATATTTTTTTATATT
1 TTAT-TTTTTTTATATT
*
14000006 TTAATTTTTTATATACTT
1 TT-ATTTTTTTTATA-TT
* *
14000024 TTGTTATTTTTAT-TT
1 TTATTTTTTTTATATT
**
14000039 TTA-TTTTGCTAT-TT
1 TTATTTTTTTTATATT
14000053 TTATTTTTTT
1 TTATTTTTTT
14000063 CTTCTTTTTT
Statistics
Matches: 44, Mismatches: 10, Indels: 8
0.71 0.16 0.13
Matches are distributed among these distances:
14 11 0.25
15 8 0.18
17 19 0.43
18 6 0.14
ACGTcount: A:0.19, C:0.03, G:0.03, T:0.76
Consensus pattern (16 bp):
TTATTTTTTTTATATT
Found at i:14000017 original size:25 final size:25
Alignment explanation
Indices: 13999990--14000040 Score: 66
Period size: 27 Copynumber: 1.9 Consensus size: 25
13999980 TTCTTATACT
*
13999990 TATATTTTTTTATATTTTAATTTTTTA
1 TATATTTTGTTAT-TTTT-ATTTTTTA
14000017 TATACTTTTGTTATTTTTATTTTT
1 TATA-TTTTGTTATTTTTATTTTT
14000041 ATTTTGCTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
26 6 0.27
27 8 0.36
28 8 0.36
ACGTcount: A:0.22, C:0.02, G:0.02, T:0.75
Consensus pattern (25 bp):
TATATTTTGTTATTTTTATTTTTTA
Found at i:14000023 original size:33 final size:32
Alignment explanation
Indices: 13999984--14000045 Score: 81
Period size: 33 Copynumber: 1.9 Consensus size: 32
13999974 TTATTATTCT
13999984 TATACTTATATT-TTTTTATATTTTAATTTTTTA
1 TATACTTATATTATTTTTAT-TTTT-ATTTTTTA
* *
14000017 TATACTTTTGTTATTTTTATTTTTATTTT
1 TATACTTATATTATTTTTATTTTTATTTT
14000046 GCTATTTTTA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
32 5 0.19
33 14 0.54
34 7 0.27
ACGTcount: A:0.23, C:0.03, G:0.02, T:0.73
Consensus pattern (32 bp):
TATACTTATATTATTTTTATTTTTATTTTTTA
Found at i:14000045 original size:5 final size:6
Alignment explanation
Indices: 14000027--14000060 Score: 50
Period size: 6 Copynumber: 5.3 Consensus size: 6
14000017 TATACTTTTG
14000027 TTATTT TTATTT TTATTT TGCTATTT TTATTT TT
1 TTATTT TTATTT TTATTT T--TATTT TTATTT TT
14000061 TTCTTCTTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
6 20 0.77
8 6 0.23
ACGTcount: A:0.15, C:0.03, G:0.03, T:0.79
Consensus pattern (6 bp):
TTATTT
Found at i:14000045 original size:20 final size:20
Alignment explanation
Indices: 14000022--14000060 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
14000012 TTTTATATAC
*
14000022 TTTTGTTATTTTTATTTTTA
1 TTTTGCTATTTTTATTTTTA
14000042 TTTTGCTATTTTTATTTTT
1 TTTTGCTATTTTTATTTTT
14000061 TTCTTCTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.13, C:0.03, G:0.05, T:0.79
Consensus pattern (20 bp):
TTTTGCTATTTTTATTTTTA
Found at i:14000174 original size:20 final size:20
Alignment explanation
Indices: 14000143--14000191 Score: 62
Period size: 20 Copynumber: 2.4 Consensus size: 20
14000133 ATTGAGTTTA
*
14000143 TTATTGTTTTTATTTTTATTT
1 TTATT-TTTTTATCTTTATTT
*
14000164 TTATTTTTTTATCTTTCTTT
1 TTATTTTTTTATCTTTATTT
14000184 TTAATTTT
1 TT-ATTTT
14000192 GTTTTAGTTG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
20 15 0.60
21 10 0.40
ACGTcount: A:0.14, C:0.04, G:0.02, T:0.80
Consensus pattern (20 bp):
TTATTTTTTTATCTTTATTT
Found at i:14004032 original size:30 final size:30
Alignment explanation
Indices: 14003974--14004032 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
14003964 TAAGCACCAA
*
14003974 TTTAGTTGGGAAAAGATTAATATATTATTC
1 TTTACTTGGGAAAAGATTAATATATTATTC
* *
14004004 TTTACTTGGTAAAATATTAATCAT-TTATT
1 TTTACTTGGGAAAAGATTAAT-ATATTATT
14004033 ATAATTTTCT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 23 0.92
31 2 0.08
ACGTcount: A:0.36, C:0.05, G:0.12, T:0.47
Consensus pattern (30 bp):
TTTACTTGGGAAAAGATTAATATATTATTC
Found at i:14006291 original size:35 final size:35
Alignment explanation
Indices: 14006234--14006305 Score: 81
Period size: 35 Copynumber: 2.1 Consensus size: 35
14006224 TCTACCAGTA
* * **
14006234 TGGCTATTGACATCATTTGTGATGCTAGTGTCAAG
1 TGGCTATCGACATCATTGGTGATGCTAGCATCAAG
** *
14006269 TGGCTATCGACATTGTTGGTGATTCTAGCATCAAG
1 TGGCTATCGACATCATTGGTGATGCTAGCATCAAG
14006304 TG
1 TG
14006306 TTCTTTTGTA
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
35 30 1.00
ACGTcount: A:0.22, C:0.15, G:0.26, T:0.36
Consensus pattern (35 bp):
TGGCTATCGACATCATTGGTGATGCTAGCATCAAG
Found at i:14015336 original size:25 final size:25
Alignment explanation
Indices: 14015302--14015350 Score: 80
Period size: 25 Copynumber: 2.0 Consensus size: 25
14015292 TTTAATTAAT
*
14015302 ACAAGACTTTGGACTGTTCTAAGAC
1 ACAAGACTTTGGACTGTTCCAAGAC
*
14015327 ACAAGACTTTGGATTGTTCCAAGA
1 ACAAGACTTTGGACTGTTCCAAGA
14015351 TGGTCTCTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.33, C:0.18, G:0.20, T:0.29
Consensus pattern (25 bp):
ACAAGACTTTGGACTGTTCCAAGAC
Found at i:14027028 original size:47 final size:47
Alignment explanation
Indices: 14026918--14027029 Score: 138
Period size: 47 Copynumber: 2.4 Consensus size: 47
14026908 TCCGGGATAA
* * *
14026918 ACACATAGTGCTTCATCGGAATAAATCCGGAACTTTAACATTATAGT
1 ACACATAGTGCTTCATCGGAACAAATCCGAAACTTTAACAGTATAGT
* * *
14026965 ACACAAAGTACTTCATCGGAACAAATCCGAAACTTTAACAGTAGTCG-
1 ACACATAGTGCTTCATCGGAACAAATCCGAAACTTTAACAGTA-TAGT
14027012 ACACATAGTG-TCTCATCG
1 ACACATAGTGCT-TCATCG
14027030 ACTCAATGTC
Statistics
Matches: 55, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
46 1 0.02
47 52 0.95
48 2 0.04
ACGTcount: A:0.37, C:0.22, G:0.15, T:0.26
Consensus pattern (47 bp):
ACACATAGTGCTTCATCGGAACAAATCCGAAACTTTAACAGTATAGT
Found at i:14027806 original size:15 final size:16
Alignment explanation
Indices: 14027783--14027813 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
14027773 CCCTTTTTTA
14027783 TTTATTTCTTTCTTTC
1 TTTATTTCTTTCTTTC
14027799 TTTA-TTCTTTCTTTC
1 TTTATTTCTTTCTTTC
14027814 ACGTTTGCTC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 11 0.73
16 4 0.27
ACGTcount: A:0.06, C:0.19, G:0.00, T:0.74
Consensus pattern (16 bp):
TTTATTTCTTTCTTTC
Found at i:14030368 original size:42 final size:43
Alignment explanation
Indices: 14030280--14030414 Score: 125
Period size: 42 Copynumber: 3.2 Consensus size: 43
14030270 AGGCTGTATA
* * * * * *
14030280 GAAGCACATA-AGTGCTAAAAGGAAACCCATGAGGGTTGAACA
1 GAAGCTCATAGAGAGCTAAACGGAAACCCATAAGGGTTAAACT
* * *
14030322 GAAGCTCATAG-GAGTTAAACGGAAACCCAAAAGGGTTAAATT
1 GAAGCTCATAGAGAGCTAAACGGAAACCCATAAGGGTTAAACT
* * *
14030364 GAAGCT--TAGAGAGCTGAACGTAAACCCATTAGGGTTAAACT
1 GAAGCTCATAGAGAGCTAAACGGAAACCCATAAGGGTTAAACT
*
14030405 GAAACTCATA
1 GAAGCTCATA
14030415 TAGGTTAACT
Statistics
Matches: 73, Mismatches: 16, Indels: 7
0.76 0.17 0.07
Matches are distributed among these distances:
40 3 0.04
41 30 0.41
42 38 0.52
43 2 0.03
ACGTcount: A:0.41, C:0.16, G:0.24, T:0.19
Consensus pattern (43 bp):
GAAGCTCATAGAGAGCTAAACGGAAACCCATAAGGGTTAAACT
Found at i:14030409 original size:21 final size:20
Alignment explanation
Indices: 14030385--14030427 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 20
14030375 AGCTGAACGT
14030385 AAACCCAT-TAGGGTTAAACTG
1 AAACCCATATA-GGTT-AACTG
*
14030406 AAACTCATATAGGTTAACTG
1 AAACCCATATAGGTTAACTG
14030426 AA
1 AA
14030428 GCTCATGAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
20 7 0.35
21 11 0.55
22 2 0.10
ACGTcount: A:0.42, C:0.16, G:0.16, T:0.26
Consensus pattern (20 bp):
AAACCCATATAGGTTAACTG
Found at i:14033087 original size:18 final size:18
Alignment explanation
Indices: 14033047--14033102 Score: 53
Period size: 19 Copynumber: 3.1 Consensus size: 18
14033037 TTACAAAAAA
*
14033047 AAAAATCAAAATAATTT-T
1 AAAATTCAAAAT-ATTTAT
14033065 CAAAATTCAAAATATTTAT
1 -AAAATTCAAAATATTTAT
*
14033084 AAAATATCCAAA-ATTTAT
1 AAAAT-TCAAAATATTTAT
14033102 A
1 A
14033103 CTTTTTAAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
18 16 0.48
19 17 0.52
ACGTcount: A:0.57, C:0.09, G:0.00, T:0.34
Consensus pattern (18 bp):
AAAATTCAAAATATTTAT
Found at i:14033854 original size:20 final size:22
Alignment explanation
Indices: 14033829--14033877 Score: 68
Period size: 20 Copynumber: 2.4 Consensus size: 22
14033819 TTAAAAAATC
14033829 TTAAAAATAAATA-TAAAT-TA
1 TTAAAAATAAATATTAAATATA
*
14033849 TTAAAAA-ATATATTAAATATA
1 TTAAAAATAAATATTAAATATA
14033870 TTAAAAAT
1 TTAAAAAT
14033878 TATGTTGAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
19 4 0.16
20 12 0.48
21 9 0.36
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (22 bp):
TTAAAAATAAATATTAAATATA
Found at i:14033855 original size:21 final size:21
Alignment explanation
Indices: 14033831--14033876 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
14033821 AAAAAATCTT
14033831 AAAAATAAATATAAAT-TATTA
1 AAAAATAAAT-TAAATATATTA
*
14033852 AAAAATATATTAAATATATTA
1 AAAAATAAATTAAATATATTA
14033873 AAAA
1 AAAA
14033877 TTATGTTGAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 5 0.22
21 18 0.78
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (21 bp):
AAAAATAAATTAAATATATTA
Found at i:14037620 original size:40 final size:40
Alignment explanation
Indices: 14037565--14037642 Score: 138
Period size: 40 Copynumber: 1.9 Consensus size: 40
14037555 TGGAAAAAAA
*
14037565 TATAACCGGGTTAAGTCCCGAAGGTATTTGTGCGGGTTAT
1 TATAACCGGGTTAAGTCCCGAAGGCATTTGTGCGGGTTAT
*
14037605 TATAACCGGGTTAAGTCCCGAAGGCATTTGTGCTGGTT
1 TATAACCGGGTTAAGTCCCGAAGGCATTTGTGCGGGTT
14037643 GTTACATCCG
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 36 1.00
ACGTcount: A:0.22, C:0.17, G:0.29, T:0.32
Consensus pattern (40 bp):
TATAACCGGGTTAAGTCCCGAAGGCATTTGTGCGGGTTAT
Found at i:14042915 original size:15 final size:15
Alignment explanation
Indices: 14042895--14042928 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
14042885 ATTGAAAATT
14042895 AAATATAGAGTTAAA
1 AAATATAGAGTTAAA
**
14042910 AAATATAGTTTTAAA
1 AAATATAGAGTTAAA
14042925 AAAT
1 AAAT
14042929 TTAATTGTTT
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:0.59, C:0.00, G:0.09, T:0.32
Consensus pattern (15 bp):
AAATATAGAGTTAAA
Found at i:14043066 original size:3 final size:3
Alignment explanation
Indices: 14043058--14043092 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
14043048 AGATTAAGAG
14043058 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
14043093 GTTTTCTATT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Done.