Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008747.1 Hibiscus syriacus cultivar Beakdansim tig00111837_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 12616935
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 38 of 51
Found at i:9595612 original size:38 final size:36
Alignment explanation
Indices: 9595560--9595643 Score: 123
Period size: 38 Copynumber: 2.2 Consensus size: 36
9595550 CATTTTTATC
9595560 ATTTTCATTTATTTCATTTGCTATTTTTATTTTATTTT
1 ATTTT-ATTTATTTCATTTGCTATTTTTATTTTA-TTT
*
9595598 ATTTTATTTCATTTCATTTTCTATTTTTATTTTATTT
1 ATTTTATTT-ATTTCATTTGCTATTTTTATTTTATTT
*
9595635 AATTTATTT
1 ATTTTATTT
9595644 TTAGGTTCGC
Statistics
Matches: 43, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
37 15 0.35
38 28 0.65
ACGTcount: A:0.20, C:0.07, G:0.01, T:0.71
Consensus pattern (36 bp):
ATTTTATTTATTTCATTTGCTATTTTTATTTTATTT
Found at i:9595711 original size:47 final size:49
Alignment explanation
Indices: 9595610--9595711 Score: 127
Period size: 50 Copynumber: 2.1 Consensus size: 49
9595600 TTTATTTCAT
* * * ** *
9595610 TTCATTTTCTATTTTTATTTTATTTAATTTATTTTTAGGTTCGCAATTAT
1 TTCATTTGCTATTTTTATTTTATTT-ATATATTTTTAGGTTCCCAAGAAA
9595660 TTCATTTGCTATTTTTATTTTATTT-TAT-TTTTTAGGTTCCCAAGAAA
1 TTCATTTGCTATTTTTATTTTATTTATATATTTTTAGGTTCCCAAGAAA
9595707 TTCAT
1 TTCAT
9595712 AAACTCGATC
Statistics
Matches: 46, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
47 20 0.43
48 2 0.04
50 24 0.52
ACGTcount: A:0.23, C:0.10, G:0.07, T:0.61
Consensus pattern (49 bp):
TTCATTTGCTATTTTTATTTTATTTATATATTTTTAGGTTCCCAAGAAA
Found at i:9597209 original size:24 final size:24
Alignment explanation
Indices: 9597177--9597226 Score: 100
Period size: 24 Copynumber: 2.1 Consensus size: 24
9597167 ATAGAAAAAC
9597177 TTAATTACAATGAAACAAATAAAT
1 TTAATTACAATGAAACAAATAAAT
9597201 TTAATTACAATGAAACAAATAAAT
1 TTAATTACAATGAAACAAATAAAT
9597225 TT
1 TT
9597227 TATAACATCG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.56, C:0.08, G:0.04, T:0.32
Consensus pattern (24 bp):
TTAATTACAATGAAACAAATAAAT
Found at i:9597239 original size:24 final size:24
Alignment explanation
Indices: 9597177--9597233 Score: 87
Period size: 24 Copynumber: 2.4 Consensus size: 24
9597167 ATAGAAAAAC
*
9597177 TTAATTACAATGAAACAAATAAAT
1 TTAATAACAATGAAACAAATAAAT
*
9597201 TTAATTACAATGAAACAAATAAAT
1 TTAATAACAATGAAACAAATAAAT
*
9597225 TTTATAACA
1 TTAATAACA
9597234 TCGAAAGTCA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 31 1.00
ACGTcount: A:0.56, C:0.09, G:0.04, T:0.32
Consensus pattern (24 bp):
TTAATAACAATGAAACAAATAAAT
Found at i:9600088 original size:18 final size:18
Alignment explanation
Indices: 9600065--9600099 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
9600055 TTCCATCCGG
*
9600065 TCTTATTATTTAATTCAA
1 TCTTATCATTTAATTCAA
*
9600083 TCTTATCATTTACTTCA
1 TCTTATCATTTAATTCA
9600100 GTCCTTTCGA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.29, C:0.17, G:0.00, T:0.54
Consensus pattern (18 bp):
TCTTATCATTTAATTCAA
Found at i:9622713 original size:2 final size:2
Alignment explanation
Indices: 9622706--9622737 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
9622696 GTAATTTTTA
9622706 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
9622738 GCATTAAGTA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:9626027 original size:29 final size:29
Alignment explanation
Indices: 9625920--9626025 Score: 160
Period size: 29 Copynumber: 3.6 Consensus size: 29
9625910 TCTTACCTAA
9625920 TTAAATTGATGTAAGCAATAACATCATTAC
1 TTAAA-TGATGTAAGCAATAACATCATTAC
*
9625950 TTAAATGATGTAAGTAATAACATCATTAC
1 TTAAATGATGTAAGCAATAACATCATTAC
*
9625979 TTAAATGATGTAAGCAATGACAT-ATTTAC
1 TTAAATGATGTAAGCAATAACATCA-TTAC
*
9626008 TTAAATGTTGTAAGCAAT
1 TTAAATGATGTAAGCAAT
9626026 GATATCAATT
Statistics
Matches: 71, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
28 1 0.01
29 65 0.92
30 5 0.07
ACGTcount: A:0.42, C:0.10, G:0.12, T:0.35
Consensus pattern (29 bp):
TTAAATGATGTAAGCAATAACATCATTAC
Found at i:9647108 original size:122 final size:122
Alignment explanation
Indices: 9646876--9647305 Score: 477
Period size: 122 Copynumber: 3.5 Consensus size: 122
9646866 ACATTCTTCT
* * * * * * * *
9646876 TGGAGGTAATTTTGATGTTGAAAATGACATTGCTCATTCACGTTGAAGAGATCTGGCCACTTTCA
1 TGGAGATAA-TTTGGTGTTGAAGATGACACTGCTCATCCATGTTGAAGAGTTTTGGCCACTTTCA
* ** * ** *
9646941 GGTTAATTATTTATTGAATATGACGATGTTCCATCTCGTTGAGGAAGTCAGACTAATC
65 GGTAAATTATTTGCTGAAGATGACCTTGTTCCTTCTCGTTGAGGAAGTCAGACTAATC
* * * * *
9646999 TGGAGATAATTTGGTGTTGAATATGACATTGCTCATCCATGTTAAAGAGTTTTGGTCACTTTTAG
1 TGGAGATAATTTGGTGTTGAAGATGACACTGCTCATCCATGTTGAAGAGTTTTGGCCACTTTCAG
* * * * *
9647064 GTAAATTGTTTGCTGAAGACGACCTTGTTCCTTCTCATTGAGGAAGTCATATTAATC
66 GTAAATTATTTGCTGAAGATGACCTTGTTCCTTCTCGTTGAGGAAGTCAGACTAATC
* *
9647121 TGGAGATAATTTGGTGTTGAAGATGACACTGCTCATCCATGTTGAAGA-TTTCTTGCCTCTTTCA
1 TGGAGATAATTTGGTGTTGAAGATGACACTGCTCATCCATGTTGAAGAGTTT-TGGCCACTTTCA
* * * * **
9647185 GATAAATTATTTGCTGAAGATGACTTTGTTCCTTCTCGTTGATGAAGT-TGGGTCAATC
65 GGTAAATTATTTGCTGAAGATGACCTTGTTCCTTCTCGTTGAGGAAGTCAGACT-AATC
* * * * *
9647243 TGAAGATAATTTGGTGTTGAAGATGACACTGCTCATCAATATTGAAGAGTTCTGGCCTCTTTC
1 TGGAGATAATTTGGTGTTGAAGATGACACTGCTCATCCATGTTGAAGAGTTTTGGCCACTTTC
9647306 GTATCACAAT
Statistics
Matches: 260, Mismatches: 44, Indels: 7
0.84 0.14 0.02
Matches are distributed among these distances:
121 4 0.02
122 246 0.95
123 10 0.04
ACGTcount: A:0.26, C:0.15, G:0.22, T:0.37
Consensus pattern (122 bp):
TGGAGATAATTTGGTGTTGAAGATGACACTGCTCATCCATGTTGAAGAGTTTTGGCCACTTTCAG
GTAAATTATTTGCTGAAGATGACCTTGTTCCTTCTCGTTGAGGAAGTCAGACTAATC
Found at i:9647839 original size:36 final size:37
Alignment explanation
Indices: 9647773--9647859 Score: 104
Period size: 36 Copynumber: 2.3 Consensus size: 37
9647763 GAAACAATTT
* *
9647773 CAAAATTTGCGTTTTAGGGGAAAACTATCTCAAGAGAGA
1 CAAAATTTG-TTTTTA-GGGAAAACAATCTCAAGAGAGA
*
9647812 CAAAATTTGTTTTTA-GGAAAACAATCTCAAGTGAGA
1 CAAAATTTGTTTTTAGGGAAAACAATCTCAAGAGAGA
* *
9647848 TAAATTTTGTTT
1 CAAAATTTGTTT
9647860 CAAGTGAAAC
Statistics
Matches: 43, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
36 29 0.67
38 5 0.12
39 9 0.21
ACGTcount: A:0.38, C:0.10, G:0.18, T:0.33
Consensus pattern (37 bp):
CAAAATTTGTTTTTAGGGAAAACAATCTCAAGAGAGA
Found at i:9647871 original size:36 final size:36
Alignment explanation
Indices: 9647791--9647868 Score: 93
Period size: 36 Copynumber: 2.1 Consensus size: 36
9647781 GCGTTTTAGG
* **
9647791 GGAAAACTATCTCAAGAGAGACAAAATTTGTTTTTA
1 GGAAAACAATCTCAAGAGAGACAAAATTTGTTTCAA
* * *
9647827 GGAAAACAATCTCAAGTGAGATAAATTTTGTTTCAA
1 GGAAAACAATCTCAAGAGAGACAAAATTTGTTTCAA
9647863 GTGAAA
1 G-GAAA
9647869 CAACTTCGAA
Statistics
Matches: 35, Mismatches: 6, Indels: 1
0.83 0.14 0.02
Matches are distributed among these distances:
36 31 0.89
37 4 0.11
ACGTcount: A:0.42, C:0.10, G:0.18, T:0.29
Consensus pattern (36 bp):
GGAAAACAATCTCAAGAGAGACAAAATTTGTTTCAA
Found at i:9647896 original size:102 final size:103
Alignment explanation
Indices: 9647732--9647925 Score: 232
Period size: 102 Copynumber: 1.9 Consensus size: 103
9647722 CAAAGAAGCT
* * * * * *
9647732 ATCTCAGGAGAGATAAAATTTTATTTCGAGTGAAACAATTTCAAAATTTGCGTTTTAGGGGAAAA
1 ATCTCAAGAGAGATAAAATTTTATTTCAAGTGAAACAACTTCAAAATTTGCGCTTCAAGGG-AAA
*
9647797 CTATCTCAAGAGAGAC-AAAATTTGTTTTTAGGAAAACA
65 CTACCTCAAGAGAGACGAAAATTTGTTTTTAGGAAAACA
* * *
9647835 ATCTCAAGTGAGAT-AAATTTTGTTTCAAGTGAAACAACTTCGAAATTTAG-GCTTCAAGGGAAA
1 ATCTCAAGAGAGATAAAATTTTATTTCAAGTGAAACAACTTCAAAATTT-GCGCTTCAAGGGAAA
* * *
9647898 CTGCCTCAAGCGAGACGAAACTTTGTTT
65 CTACCTCAAGAGAGACGAAAATTTGTTT
9647926 GGAGAGAAAT
Statistics
Matches: 76, Mismatches: 13, Indels: 5
0.81 0.14 0.05
Matches are distributed among these distances:
101 16 0.21
102 47 0.62
103 13 0.17
ACGTcount: A:0.37, C:0.13, G:0.19, T:0.30
Consensus pattern (103 bp):
ATCTCAAGAGAGATAAAATTTTATTTCAAGTGAAACAACTTCAAAATTTGCGCTTCAAGGGAAAC
TACCTCAAGAGAGACGAAAATTTGTTTTTAGGAAAACA
Found at i:9648080 original size:168 final size:168
Alignment explanation
Indices: 9647794--9648109 Score: 465
Period size: 168 Copynumber: 1.9 Consensus size: 168
9647784 TTTTAGGGGA
* * *
9647794 AAACTATCTCAAGAGAGACAAAATTTGTTTTTAGGAAAACAATCTCAAGTGAGATAAATTTTGTT
1 AAACTATCTCAAGAGAGACAAAAATTGTTTCTAGGAAAACAATCTCAAGTAAGATAAATTTTGTT
* * *
9647859 TCAAGTGAAACAACTTCGAAATTTAGGCTTCAAGGGAAACTGCCTCAAGCGAGACGAAACTTTGT
66 TCAAGTGAAACAACTCCAAAATTTAGGCTTCAAGGGAAACTGCCTCAAGCGAGACAAAACTTTGT
** *
9647924 TTGGAGAGAAATAATCTCAAAAGTTTATGTTTCAAGAG
131 TTCAAGAGAAACAATCTCAAAAGTTTATGTTTCAAGAG
* *
9647962 AAACTGTCTCAAGAGAGA-AAACAATTGTTTCTAGGAAAACAATCTCAAGTAAGATCAATTTTGT
1 AAACTATCTCAAGAGAGACAAA-AATTGTTTCTAGGAAAACAATCTCAAGTAAGATAAATTTTGT
* ** *
9648026 TTCAAGTGAAACAACTCCAAAATTTGGGCTTCAAGGGAAACTTTCT-AGAGCGAGATAAAACTTT
65 TTCAAGTGAAACAACTCCAAAATTTAGGCTTCAAGGGAAACTGCCTCA-AGCGAGACAAAACTTT
9648090 GTTTCAAGAGAAACAATCTC
129 GTTTCAAGAGAAACAATCTC
9648110 TAAGGTGACA
Statistics
Matches: 131, Mismatches: 15, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
167 4 0.03
168 127 0.97
ACGTcount: A:0.39, C:0.15, G:0.18, T:0.28
Consensus pattern (168 bp):
AAACTATCTCAAGAGAGACAAAAATTGTTTCTAGGAAAACAATCTCAAGTAAGATAAATTTTGTT
TCAAGTGAAACAACTCCAAAATTTAGGCTTCAAGGGAAACTGCCTCAAGCGAGACAAAACTTTGT
TTCAAGAGAAACAATCTCAAAAGTTTATGTTTCAAGAG
Found at i:9660616 original size:9 final size:8
Alignment explanation
Indices: 9660604--9660656 Score: 56
Period size: 8 Copynumber: 6.5 Consensus size: 8
9660594 ACTTGATATG
9660604 TTTTCTTT
1 TTTTCTTT
9660612 CTTTTCCTTT
1 -TTTT-CTTT
9660622 TTTTCTTT
1 TTTTCTTT
9660630 TTTT-TTCT
1 TTTTCTT-T
*
9660638 TTTT-TTC
1 TTTTCTTT
9660645 TTTTCTTT
1 TTTTCTTT
9660653 TTTT
1 TTTT
9660657 ATCCTCACCT
Statistics
Matches: 39, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
7 6 0.15
8 21 0.54
9 8 0.21
10 4 0.10
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (8 bp):
TTTTCTTT
Found at i:9660627 original size:18 final size:18
Alignment explanation
Indices: 9660604--9660653 Score: 73
Period size: 18 Copynumber: 2.7 Consensus size: 18
9660594 ACTTGATATG
9660604 TTTTCTTTCTTTTCCTTT
1 TTTTCTTTCTTTTCCTTT
* *
9660622 TTTTCTTTTTTTTTCTTT
1 TTTTCTTTCTTTTCCTTT
9660640 TTTTCTTTTCTTTT
1 TTTTC-TTTCTTTT
9660654 TTTATCCTCA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
18 21 0.75
19 7 0.25
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (18 bp):
TTTTCTTTCTTTTCCTTT
Found at i:9666232 original size:161 final size:166
Alignment explanation
Indices: 9666052--9666385 Score: 534
Period size: 169 Copynumber: 2.0 Consensus size: 166
9666042 ATGGGTAGCA
9666052 TGGTGCAACAACAGCAGTATGGGATGGTGTAGCA-G-A-A-CATG-AGCAGGTATGACTGTCGTG
1 TGGTGCAACAACAGCAGTATGGGATGGTGTAGCAGGCAGAGCATGTAGCAGGTATGACTGTCGTG
9666112 GCAGAGCACATAAAAAATGGTGACTACAAAATATTGTAATGACAATACCTTTAATCAATAAAACT
66 GCAGAGCACATAAAAAATGGTGACTACAAAATATTGTAATGACAATACCTTTAATCAATAAAACT
9666177 GGTAAAGAAAACATATCATTACAATAATCTTATGAT
131 GGTAAAGAAAACATATCATTACAATAATCTTATGAT
* ** *
9666213 TGGTGCAACAGCAGCAGTATGGGATGGTGTAGCAGGGCATGAGTGTTGTAGCAGGTATGGCTGTC
1 TGGTGCAACAACAGCAGTATGGGATGGTGTAGCA-GGCA-GAG-CATGTAGCAGGTATGACTGTC
* * *
9666278 GTGGTAGAGCACATAAACAATGGTGACTACAAAATATTGTAATGACAATACCTTTATTCAATAAA
63 GTGGCAGAGCACATAAAAAATGGTGACTACAAAATATTGTAATGACAATACCTTTAATCAATAAA
*
9666343 ACTGGTAAAGAAAATATATCATTACAATAATCTTATGAT
128 ACTGGTAAAGAAAACATATCATTACAATAATCTTATGAT
9666382 TGGT
1 TGGT
9666386 CTTTAGATAT
Statistics
Matches: 157, Mismatches: 8, Indels: 8
0.91 0.05 0.05
Matches are distributed among these distances:
161 33 0.21
163 1 0.01
164 1 0.01
166 1 0.01
168 2 0.01
169 119 0.76
ACGTcount: A:0.37, C:0.13, G:0.22, T:0.27
Consensus pattern (166 bp):
TGGTGCAACAACAGCAGTATGGGATGGTGTAGCAGGCAGAGCATGTAGCAGGTATGACTGTCGTG
GCAGAGCACATAAAAAATGGTGACTACAAAATATTGTAATGACAATACCTTTAATCAATAAAACT
GGTAAAGAAAACATATCATTACAATAATCTTATGAT
Found at i:9672071 original size:43 final size:43
Alignment explanation
Indices: 9672023--9672109 Score: 156
Period size: 43 Copynumber: 2.0 Consensus size: 43
9672013 AGTTTCATCG
9672023 TTGTTGAAAGTTCTTTCAAAGCAACCAATGATCAATTTTTCAT
1 TTGTTGAAAGTTCTTTCAAAGCAACCAATGATCAATTTTTCAT
* *
9672066 TTGTTGAAAGTTCTTTCAAAGCAACCAATGGTTAATTTTTCAT
1 TTGTTGAAAGTTCTTTCAAAGCAACCAATGATCAATTTTTCAT
9672109 T
1 T
9672110 CTCTTTAGCC
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 42 1.00
ACGTcount: A:0.31, C:0.15, G:0.13, T:0.41
Consensus pattern (43 bp):
TTGTTGAAAGTTCTTTCAAAGCAACCAATGATCAATTTTTCAT
Found at i:9683089 original size:21 final size:19
Alignment explanation
Indices: 9683046--9683097 Score: 68
Period size: 21 Copynumber: 2.6 Consensus size: 19
9683036 GAACCGGAAA
*
9683046 GAACCGTTGAACCGGCTGT
1 GAACCGTTGAACCGGCCGT
9683065 GAACCGTTCGAACCGGACCGT
1 GAACCGTT-GAACCGG-CCGT
9683086 GAACCGGTTGAA
1 GAACC-GTTGAA
9683098 AATCGGTTCT
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
19 8 0.28
20 7 0.24
21 11 0.38
22 3 0.10
ACGTcount: A:0.25, C:0.27, G:0.31, T:0.17
Consensus pattern (19 bp):
GAACCGTTGAACCGGCCGT
Found at i:9690279 original size:198 final size:197
Alignment explanation
Indices: 9689918--9690284 Score: 546
Period size: 198 Copynumber: 1.9 Consensus size: 197
9689908 CCAGGTTTAT
* *
9689918 CGTGTGAGGATTATCAAGTTATTCACTTATTTGTTATTTTTACTATTTTACTTTGCCTCGACATT
1 CGTGTGAGGATTATCAAGTTATTCACTTATTTGTTATTTTTACCATTTTACTTTACCTCGACATT
9689983 TTCAACATTATAAAATGTTCTTTTGCCACACCATTATTCAGCCAATCACATTCCATCACCATCAT
66 TTCAACATTATAAAATGTTCTTTTGCCACACCATTATTCAGCCAATCACATTCCATCACCA-CAT
*
9690048 TCCATTCACTCTCACATTTCCATTGTCGAATCATCATCTGTGCATATATCATTTCCAGAGTAGTT
130 TCCATTCAATCTCACATTTCCATTGTCGAATCATCATCTGTGCATATATCATTTCCAGAGTAGTT
9690113 TCC
195 TCC
* * *
9690116 CGTGTGAGGATTGTCAAGTTATTCATTTATTTTTTATTTATT-CCATTTTACTTTACCTCGACAT
1 CGTGTGAGGATTATCAAGTTATTCACTTATTTGTTATTT-TTACCATTTTACTTTACCTCGACAT
* * *
9690180 TTTCATCATTATAAATTGTTCTTTTGCCACGA-CATTATTCA-CTCAATCACATTTCATCA-C-C
65 TTTCAACATTATAAAATGTTCTTTTGCCAC-ACCATTATTCAGC-CAATCACATTCCATCACCAC
* * **
9690241 ATTCCATTCAATCTCATATTTCCATTTTCGAAGAATCATCTGTG
128 ATTCCATTCAATCTCACATTTCCATTGTCGAATCATCATCTGTG
9690285 TAGTGCTATG
Statistics
Matches: 153, Mismatches: 13, Indels: 9
0.87 0.07 0.05
Matches are distributed among these distances:
195 40 0.26
197 2 0.01
198 108 0.71
199 3 0.02
ACGTcount: A:0.26, C:0.23, G:0.09, T:0.42
Consensus pattern (197 bp):
CGTGTGAGGATTATCAAGTTATTCACTTATTTGTTATTTTTACCATTTTACTTTACCTCGACATT
TTCAACATTATAAAATGTTCTTTTGCCACACCATTATTCAGCCAATCACATTCCATCACCACATT
CCATTCAATCTCACATTTCCATTGTCGAATCATCATCTGTGCATATATCATTTCCAGAGTAGTTT
CC
Found at i:9690715 original size:20 final size:20
Alignment explanation
Indices: 9690692--9690730 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
9690682 CTATTTTGGT
*
9690692 TATTTTCTTTTAATTTCAAC
1 TATTTGCTTTTAATTTCAAC
*
9690712 TATTTGGTTTTAATTTCAA
1 TATTTGCTTTTAATTTCAA
9690731 ATTTATGGTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.26, C:0.10, G:0.05, T:0.59
Consensus pattern (20 bp):
TATTTGCTTTTAATTTCAAC
Found at i:9691182 original size:10 final size:10
Alignment explanation
Indices: 9691165--9691198 Score: 59
Period size: 10 Copynumber: 3.4 Consensus size: 10
9691155 TTATTTTTTT
9691165 GATTCGGTTC
1 GATTCGGTTC
*
9691175 GGTTCGGTTC
1 GATTCGGTTC
9691185 GATTCGGTTC
1 GATTCGGTTC
9691195 GATT
1 GATT
9691199 TGGAACCCAT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
10 22 1.00
ACGTcount: A:0.09, C:0.18, G:0.32, T:0.41
Consensus pattern (10 bp):
GATTCGGTTC
Found at i:9691190 original size:15 final size:15
Alignment explanation
Indices: 9691165--9691198 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
9691155 TTATTTTTTT
*
9691165 GATTCGGTTCGGTTC
1 GATTCGATTCGGTTC
*
9691180 GGTTCGATTCGGTTC
1 GATTCGATTCGGTTC
9691195 GATT
1 GATT
9691199 TGGAACCCAT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.09, C:0.18, G:0.32, T:0.41
Consensus pattern (15 bp):
GATTCGATTCGGTTC
Found at i:9692938 original size:33 final size:35
Alignment explanation
Indices: 9692904--9692973 Score: 95
Period size: 38 Copynumber: 1.9 Consensus size: 35
9692894 GAACCCAACC
**
9692904 CGACCCGAATATCATGCTTAAAAAAACCCGACCCGACT
1 CGACCCGAATATCAAACTTAAAAAAACCCGA--C-ACT
9692942 CGACCCGAATATCAAACTTAAAAAAACCCGAC
1 CGACCCGAATATCAAACTTAAAAAAACCCGAC
9692974 TTGAACCCGA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
36 1 0.03
38 29 0.97
ACGTcount: A:0.41, C:0.33, G:0.11, T:0.14
Consensus pattern (35 bp):
CGACCCGAATATCAAACTTAAAAAAACCCGACACT
Found at i:9693024 original size:30 final size:31
Alignment explanation
Indices: 9692990--9693065 Score: 100
Period size: 30 Copynumber: 2.4 Consensus size: 31
9692980 CCGAAATTAA
* *
9692990 AAAAAATCCGACTCGAT-CCTAAATTTTTTT
1 AAAAAATCCGACCCGATCCCGAAATTTTTTT
*
9693020 AAAAAATCCGACCCGATCCCGAATTTTTTTT
1 AAAAAATCCGACCCGATCCCGAAATTTTTTT
9693051 AAAAAAAATCCGACC
1 --AAAAAATCCGACC
9693066 TGAATACCAA
Statistics
Matches: 40, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
30 16 0.40
31 11 0.28
33 13 0.32
ACGTcount: A:0.39, C:0.24, G:0.08, T:0.29
Consensus pattern (31 bp):
AAAAAATCCGACCCGATCCCGAAATTTTTTT
Found at i:9695396 original size:2 final size:2
Alignment explanation
Indices: 9695389--9695413 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
9695379 TTTATACGAT
9695389 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
9695414 TTGTTAATCG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:9703174 original size:21 final size:21
Alignment explanation
Indices: 9703141--9703199 Score: 64
Period size: 21 Copynumber: 2.8 Consensus size: 21
9703131 ATTATCCAAT
* *
9703141 AAACATGACATCCATAAGAAC
1 AAACATGAAATCCATAACAAC
*
9703162 AAACCTGAAATCCATAACAAC
1 AAACATGAAATCCATAACAAC
* * *
9703183 CAACTTGAAATTCATAA
1 AAACATGAAATCCATAA
9703200 TAATAAATCA
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.51, C:0.24, G:0.07, T:0.19
Consensus pattern (21 bp):
AAACATGAAATCCATAACAAC
Found at i:9711715 original size:42 final size:41
Alignment explanation
Indices: 9711669--9711809 Score: 112
Period size: 42 Copynumber: 3.5 Consensus size: 41
9711659 CATTTATAAT
* * * *
9711669 AAAAACGCCATTAAA-TAACATGATTATTACGGCGTTTATTAC
1 AAAAACACCACTAAAGT-ACATGACTATTACGGCGTTTA-AAC
*
9711711 AAAAACACCACTAAAGTACATGACTATTGCGGCGTTTAAAC
1 AAAAACACCACTAAAGTACATGACTATTACGGCGTTTAAAC
* * ** *
9711752 -AAAA-ACCACTAAAG-A-ATAAGTATATAGCGGCGTTTGTAT
1 AAAAACACCACTAAAGTACATGACTAT-TA-CGGCGTTTAAAC
*
9711791 AAAAACGCCACTAAAGTAC
1 AAAAACACCACTAAAGTAC
9711810 GAGTCTATAG
Statistics
Matches: 80, Mismatches: 12, Indels: 13
0.76 0.11 0.12
Matches are distributed among these distances:
37 6 0.08
38 2 0.03
39 19 0.24
40 8 0.10
41 11 0.14
42 33 0.41
43 1 0.01
ACGTcount: A:0.43, C:0.18, G:0.14, T:0.24
Consensus pattern (41 bp):
AAAAACACCACTAAAGTACATGACTATTACGGCGTTTAAAC
Found at i:9711847 original size:40 final size:41
Alignment explanation
Indices: 9711711--9711896 Score: 157
Period size: 41 Copynumber: 4.6 Consensus size: 41
9711701 CGTTTATTAC
* * * ** *
9711711 AAAAACACCACTAAAGTAC-ATGACTATTGCGGCGTTTAAAC
1 AAAAACGCCACTAAAGTACGA-GTCTATAGCGGCGTTTGTAT
* ** *
9711752 AAAAA--CCACTAAAGAATAAGTATATAGCGGCGTTTGTAT
1 AAAAACGCCACTAAAGTACGAGTCTATAGCGGCGTTTGTAT
9711791 AAAAACGCCACTAAAGTACGAGTCTATAGCGGCGTTTGTA-
1 AAAAACGCCACTAAAGTACGAGTCTATAGCGGCGTTTGTAT
* * * * *
9711831 AAAAACGCCACGAAAGT-CTTAGTCTTTAGCAGCATTTGTAT
1 AAAAACGCCACTAAAGTAC-GAGTCTATAGCGGCGTTTGTAT
* * *
9711872 ACAAACGCCACTAACGTAAGAGTCT
1 AAAAACGCCACTAAAGTACGAGTCT
9711897 TTTGAAGCGT
Statistics
Matches: 117, Mismatches: 22, Indels: 12
0.77 0.15 0.08
Matches are distributed among these distances:
39 30 0.26
40 34 0.29
41 53 0.45
ACGTcount: A:0.39, C:0.20, G:0.18, T:0.24
Consensus pattern (41 bp):
AAAAACGCCACTAAAGTACGAGTCTATAGCGGCGTTTGTAT
Found at i:9711897 original size:41 final size:41
Alignment explanation
Indices: 9711784--9711898 Score: 133
Period size: 40 Copynumber: 2.8 Consensus size: 41
9711774 TATAGCGGCG
* * * *
9711784 TTTGTATAAAAACGCCACTAAAGTACGAGTCTATAGCGGCG
1 TTTGTATAAAAACGCCACTAAAGTAAGAGTCTTTAGCAGCA
* ***
9711825 TTTGTA-AAAAACGCCACGAAAGTCTTAGTCTTTAGCAGCA
1 TTTGTATAAAAACGCCACTAAAGTAAGAGTCTTTAGCAGCA
* *
9711865 TTTGTATACAAACGCCACTAACGTAAGAGTCTTT
1 TTTGTATAAAAACGCCACTAAAGTAAGAGTCTTT
9711899 TGAAGCGTTT
Statistics
Matches: 60, Mismatches: 13, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
40 33 0.55
41 27 0.45
ACGTcount: A:0.34, C:0.20, G:0.18, T:0.28
Consensus pattern (41 bp):
TTTGTATAAAAACGCCACTAAAGTAAGAGTCTTTAGCAGCA
Found at i:9712155 original size:41 final size:41
Alignment explanation
Indices: 9712047--9712156 Score: 114
Period size: 42 Copynumber: 2.6 Consensus size: 41
9712037 TGGCATTTTA
** *
9712047 ATAAAAACGCCGCTAAATTACTACTCTATTGCGGCGTTTGTT
1 ATAAAAACGCCGCTAAA-TACTACTCTATTGCAACATTTGTT
* * * * *
9712089 GTAAAAACGTCACTATATGCGTACTCTATTGCAACATTTG-T
1 ATAAAAACGCCGCTAAATAC-TACTCTATTGCAACATTTGTT
9712130 ATAAAAACGCCGCTAAAGTACTACTCT
1 ATAAAAACGCCGCTAAA-TACTACTCT
9712157 GGTACAACGT
Statistics
Matches: 53, Mismatches: 13, Indels: 5
0.75 0.18 0.07
Matches are distributed among these distances:
41 22 0.42
42 31 0.58
ACGTcount: A:0.33, C:0.22, G:0.15, T:0.31
Consensus pattern (41 bp):
ATAAAAACGCCGCTAAATACTACTCTATTGCAACATTTGTT
Found at i:9712202 original size:83 final size:82
Alignment explanation
Indices: 9712047--9712230 Score: 199
Period size: 83 Copynumber: 2.2 Consensus size: 82
9712037 TGGCATTTTA
* * * ** * * * *
9712047 ATAAAAACGCCGCTAAATTACTACTCTATTGCGGCGTTTGTTGTAAAAACGTCACTATATGCGTA
1 ATAAAAACGCCGCTAAAGTACTACTCTAGTACAACGTTTGTAGAAAAAACGCCACTATATGAGTA
*
9712112 CTCTATTGCAACATTTGT
66 ATCTATTGC-ACATTTGT
* *
9712130 ATAAAAACGCCGCTAAAGTACTACTCTGGTACAACGTTTGTAGAAAAAACGCCACTATA-GATTA
1 ATAAAAACGCCGCTAAAGTACTACTCTAGTACAACGTTTGTAGAAAAAACGCCACTATATGAGTA
* *
9712194 ATCATATTGCGCGTTTGT
66 ATC-TATTGCACATTTGT
* *
9712212 ATAAAAACGCTGCGAAAGT
1 ATAAAAACGCCGCTAAAGT
9712231 TATCATTTTG
Statistics
Matches: 84, Mismatches: 16, Indels: 3
0.82 0.16 0.03
Matches are distributed among these distances:
82 28 0.33
83 56 0.67
ACGTcount: A:0.34, C:0.20, G:0.17, T:0.29
Consensus pattern (82 bp):
ATAAAAACGCCGCTAAAGTACTACTCTAGTACAACGTTTGTAGAAAAAACGCCACTATATGAGTA
ATCTATTGCACATTTGT
Found at i:9712456 original size:17 final size:17
Alignment explanation
Indices: 9712433--9712471 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
9712423 AATAAAGTAA
9712433 AAAAAAAATCTACTTT-AT
1 AAAAAAAA--TACTTTAAT
9712451 AAAAAAAATACTTTAAT
1 AAAAAAAATACTTTAAT
9712468 AAAA
1 AAAA
9712472 TTATCTATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
16 6 0.30
17 6 0.30
18 8 0.40
ACGTcount: A:0.64, C:0.08, G:0.00, T:0.28
Consensus pattern (17 bp):
AAAAAAAATACTTTAAT
Found at i:9712689 original size:49 final size:49
Alignment explanation
Indices: 9712612--9712706 Score: 154
Period size: 49 Copynumber: 1.9 Consensus size: 49
9712602 TGGTCAGATT
** *
9712612 TAACGGTTGTTACAGTGTAGTCACCTAGAAGTGTAAACACCCAAAACTG
1 TAACGGTCATTACAGCGTAGTCACCTAGAAGTGTAAACACCCAAAACTG
*
9712661 TAACGGTCATTACAGCGTAGTCATCTAGAAGTGTAAACACCCAAAA
1 TAACGGTCATTACAGCGTAGTCACCTAGAAGTGTAAACACCCAAAA
9712707 GTTTTACACT
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
49 42 1.00
ACGTcount: A:0.37, C:0.21, G:0.19, T:0.23
Consensus pattern (49 bp):
TAACGGTCATTACAGCGTAGTCACCTAGAAGTGTAAACACCCAAAACTG
Found at i:9722339 original size:16 final size:17
Alignment explanation
Indices: 9722318--9722356 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 17
9722308 TCTGAAAGTT
* *
9722318 ATGAAAAGTATCTGA-A
1 ATGAAAAGAATATGATA
9722334 ATGAAAAGAATATGATA
1 ATGAAAAGAATATGATA
9722351 ATGAAA
1 ATGAAA
9722357 TATGAAAGTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
16 13 0.65
17 7 0.35
ACGTcount: A:0.56, C:0.03, G:0.18, T:0.23
Consensus pattern (17 bp):
ATGAAAAGAATATGATA
Found at i:9725543 original size:22 final size:22
Alignment explanation
Indices: 9725516--9725563 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 22
9725506 CTATACGGTA
* * *
9725516 TGAACATTACTATGAACAGTAG
1 TGAACAATACCATGAACAGTAC
*
9725538 TGAACAATACCGTGAACAGTAC
1 TGAACAATACCATGAACAGTAC
9725560 TGAA
1 TGAA
9725564 TGCTAAAATT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.42, C:0.17, G:0.19, T:0.23
Consensus pattern (22 bp):
TGAACAATACCATGAACAGTAC
Found at i:9725610 original size:22 final size:23
Alignment explanation
Indices: 9725582--9725633 Score: 65
Period size: 22 Copynumber: 2.3 Consensus size: 23
9725572 TTTTCTAGAA
9725582 TGCTACAGGGGTA-TCGATACCC-
1 TGCTACAGGGGTACT-GATACCCT
*
9725604 TGCTACA-GTGTACTGATACCCT
1 TGCTACAGGGGTACTGATACCCT
9725626 TGCTACAG
1 TGCTACAG
9725634 TAAATTTCAG
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
21 11 0.42
22 15 0.58
ACGTcount: A:0.23, C:0.27, G:0.23, T:0.27
Consensus pattern (23 bp):
TGCTACAGGGGTACTGATACCCT
Found at i:9728104 original size:49 final size:48
Alignment explanation
Indices: 9728011--9728117 Score: 112
Period size: 49 Copynumber: 2.2 Consensus size: 48
9728001 TACATTGGGT
*
9728011 TATGAAAAT-AAATGTGAAAGTTCTGAAAAAGTTCTAAAAAGAAAA-TAA
1 TATG-AAATGAAATATGAAAGTTCTGAAAAAGTTCTAAAAAGAAAAGT-A
* * **
9728059 TATGATAATGAAATATGAAAGTTCTG-AAATGTGTCTGAATGGAAAAGTA
1 TATGA-AATGAAATATGAAAGTTCTGAAAAAGT-TCTAAAAAGAAAAGTA
9728108 TATGAAATGA
1 TATGAAATGA
9728118 TTATTTTGTT
Statistics
Matches: 50, Mismatches: 5, Indels: 8
0.79 0.08 0.13
Matches are distributed among these distances:
47 1 0.02
48 17 0.34
49 31 0.62
50 1 0.02
ACGTcount: A:0.50, C:0.04, G:0.19, T:0.28
Consensus pattern (48 bp):
TATGAAATGAAATATGAAAGTTCTGAAAAAGTTCTAAAAAGAAAAGTA
Found at i:9728301 original size:29 final size:28
Alignment explanation
Indices: 9728235--9728302 Score: 68
Period size: 29 Copynumber: 2.4 Consensus size: 28
9728225 GAGATTTTAT
* *
9728235 TTGAGTTAGTTTTAATGTTTTATCGTAAT
1 TTGAGTTA-TTTTAATGTTTTATCATAAC
9728264 TATGA-TTATTTTAATTGTTTTAT-ATCAAC
1 T-TGAGTTATTTTAA-TGTTTTATCAT-AAC
9728293 TTGAGTTATT
1 TTGAGTTATT
9728303 ACTACCTCAC
Statistics
Matches: 33, Mismatches: 2, Indels: 8
0.77 0.05 0.19
Matches are distributed among these distances:
28 10 0.30
29 20 0.61
30 3 0.09
ACGTcount: A:0.26, C:0.04, G:0.13, T:0.56
Consensus pattern (28 bp):
TTGAGTTATTTTAATGTTTTATCATAAC
Found at i:9729667 original size:19 final size:19
Alignment explanation
Indices: 9729643--9729693 Score: 70
Period size: 19 Copynumber: 2.7 Consensus size: 19
9729633 TGAAATATTC
9729643 AGAGTGCATCGATGCATGG
1 AGAGTGCATCGATGCATGG
*
9729662 AGAGTGCATCGGTGCATGG
1 AGAGTGCATCGATGCATGG
9729681 A-A-TGCATTCGATG
1 AGAGTGCA-TCGATG
9729694 TTCAATTAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
17 4 0.14
18 6 0.21
19 19 0.66
ACGTcount: A:0.25, C:0.16, G:0.35, T:0.24
Consensus pattern (19 bp):
AGAGTGCATCGATGCATGG
Found at i:9729670 original size:61 final size:60
Alignment explanation
Indices: 9729555--9729695 Score: 167
Period size: 61 Copynumber: 2.3 Consensus size: 60
9729545 TCGATGCATG
* ***
9729555 AAATGCATTCGATGTTTGAAAAATAGCCTGATGCATCGATGCATGGCTTGTGCATCGGATGC
1 AAATGCATTCGATGTTTG-AAAATAGCCAGATGCATCGATGCATGGAGAGTGCATCGG-TGC
**
9729617 AAATGCATTCGATGTTTG-AAATATTCAGAGTGCATCGATGCATGGAGAGTGCATCGGTGC
1 AAATGCATTCGATGTTTGAAAATAGCCAGA-TGCATCGATGCATGGAGAGTGCATCGGTGC
9729677 ATGGAATGCATTCGATGTT
1 A---AATGCATTCGATGTT
9729696 CAATTAATTC
Statistics
Matches: 69, Mismatches: 6, Indels: 7
0.84 0.07 0.09
Matches are distributed among these distances:
60 12 0.17
61 24 0.35
62 18 0.26
63 15 0.22
ACGTcount: A:0.28, C:0.16, G:0.27, T:0.30
Consensus pattern (60 bp):
AAATGCATTCGATGTTTGAAAATAGCCAGATGCATCGATGCATGGAGAGTGCATCGGTGC
Found at i:9733672 original size:69 final size:69
Alignment explanation
Indices: 9733578--9733718 Score: 282
Period size: 69 Copynumber: 2.0 Consensus size: 69
9733568 ACTTTACTTC
9733578 TCTCAAATTGATTTAATTCTTCTTGCATAGCCATAATCCAATGTTCATCTTTTAATGCTTCTTTG
1 TCTCAAATTGATTTAATTCTTCTTGCATAGCCATAATCCAATGTTCATCTTTTAATGCTTCTTTG
9733643 ATGT
66 ATGT
9733647 TCTCAAATTGATTTAATTCTTCTTGCATAGCCATAATCCAATGTTCATCTTTTAATGCTTCTTTG
1 TCTCAAATTGATTTAATTCTTCTTGCATAGCCATAATCCAATGTTCATCTTTTAATGCTTCTTTG
9733712 ATGT
66 ATGT
9733716 TCT
1 TCT
9733719 TAGGCTCTAT
Statistics
Matches: 72, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
69 72 1.00
ACGTcount: A:0.24, C:0.19, G:0.10, T:0.47
Consensus pattern (69 bp):
TCTCAAATTGATTTAATTCTTCTTGCATAGCCATAATCCAATGTTCATCTTTTAATGCTTCTTTG
ATGT
Found at i:9735741 original size:22 final size:21
Alignment explanation
Indices: 9735699--9735738 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
9735689 GAGTTTGTTT
*
9735699 TCATTTTTCAATTTTGAAACA
1 TCATTTTTCAATTTTAAAACA
9735720 TCATTTTT-ATATTTTAAAA
1 TCATTTTTCA-ATTTTAAAA
9735739 ACAATTTCTC
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:0.35, C:0.10, G:0.03, T:0.53
Consensus pattern (21 bp):
TCATTTTTCAATTTTAAAACA
Found at i:9737724 original size:64 final size:63
Alignment explanation
Indices: 9737656--9737836 Score: 200
Period size: 64 Copynumber: 2.8 Consensus size: 63
9737646 TTGGAACACT
* *** *
9737656 TGATGCATCGGTGCACCAAGTGTGCATCGATGCATGAAATGCATTCGATGTTTGAAAAATAGCC
1 TGATGCATCGATGCATGGAGTGTGCATCGGTGCATGAAATGCATTCGATGTTTG-AAAATAGCC
** ** **
9737720 TGATGCATCGATGCATGGCTTGTGCATCGGTGCACCAAATGCATTCGATGTTTTGAAAATATTC
1 TGATGCATCGATGCATGGAGTGTGCATCGGTGCATGAAATGCATTCGATG-TTTGAAAATAGCC
** * *
9737784 AAAGTGCATCGATGCATGGAGAGTGCATCGGTGCATGGAATGCATTCGATGTT
1 TGA-TGCATCGATGCATGGAGTGTGCATCGGTGCATGAAATGCATTCGATGTT
9737837 CAATTAATTC
Statistics
Matches: 96, Mismatches: 19, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
64 51 0.53
65 45 0.47
ACGTcount: A:0.27, C:0.18, G:0.27, T:0.29
Consensus pattern (63 bp):
TGATGCATCGATGCATGGAGTGTGCATCGGTGCATGAAATGCATTCGATGTTTGAAAATAGCC
Found at i:9737810 original size:19 final size:18
Alignment explanation
Indices: 9737785--9737834 Score: 66
Period size: 19 Copynumber: 2.7 Consensus size: 18
9737775 AAAATATTCA
9737785 AAGTGCATCGATGCATGG
1 AAGTGCATCGATGCATGG
*
9737803 AGAGTGCATCGGTGCATGG
1 A-AGTGCATCGATGCATGG
9737822 AA-TGCATTCGATG
1 AAGTGCA-TCGATG
9737835 TTCAATTAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
17 4 0.14
18 7 0.25
19 17 0.61
ACGTcount: A:0.26, C:0.16, G:0.34, T:0.24
Consensus pattern (18 bp):
AAGTGCATCGATGCATGG
Found at i:9737810 original size:65 final size:65
Alignment explanation
Indices: 9737677--9737836 Score: 198
Period size: 65 Copynumber: 2.5 Consensus size: 65
9737667 TGCACCAAGT
* ** ***
9737677 GTGCATCGATGCATGAAATGCATTCGATG-TTTGAAAAATAGCCTGATGCATCGATGCATGGCTT
1 GTGCATCGGTGCATGAAATGCATTCGATGTTTTGAAAAATAGCCAAATGCATCGATGCATGGAGA
** **
9737741 GTGCATCGGTGCACCAAATGCATTCGATGTTTTG-AAAATATTCAAAGTGCATCGATGCATGGAG
1 GTGCATCGGTGCATGAAATGCATTCGATGTTTTGAAAAATAGCCAAA-TGCATCGATGCATGGAG
9737805 A
65 A
*
9737806 GTGCATCGGTGCATGGAATGCATTCGATGTT
1 GTGCATCGGTGCATGAAATGCATTCGATGTT
9737837 CAATTAATTC
Statistics
Matches: 81, Mismatches: 13, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
64 34 0.42
65 47 0.58
ACGTcount: A:0.28, C:0.17, G:0.26, T:0.29
Consensus pattern (65 bp):
GTGCATCGGTGCATGAAATGCATTCGATGTTTTGAAAAATAGCCAAATGCATCGATGCATGGAGA
Found at i:9737876 original size:65 final size:65
Alignment explanation
Indices: 9737678--9737885 Score: 180
Period size: 65 Copynumber: 3.2 Consensus size: 65
9737668 GCACCAAGTG
* * * * *
9737678 TGCATCGATGCATGAAATGCATTCGATGTTTGAAAA-ATAGC-CTGATGCATCGATGCATGGCTT
1 TGCATCGGTGCATGAAATGCATTCGATGTTTCAAAATAT-TCAATGATGCATCGATGCATGAC-T
9737741 G-
64 GA
** * *
9737742 TGCATCGGTGCACCAAATGCATTCGATGTTTTGAAAATATTCAAAG-TGCATCGATGCATGGA--
1 TGCATCGGTGCATGAAATGCATTCGATG-TTTCAAAATATTCAATGATGCATCGATGCAT-GACT
9737804 GA
64 GA
* * *
9737806 GTGCATCGGTGCATGGAATGCATTCGATG-TTC-AATTAATTCATTGATGCATCGATGCATGTAC
1 -TGCATCGGTGCATGAAATGCATTCGATGTTTCAAAAT-ATTCAATGATGCATCGATGCATG-AC
9737869 TGA
63 TGA
*
9737872 TGCATCAGTGCATG
1 TGCATCGGTGCATG
9737886 CCTTTGAATA
Statistics
Matches: 118, Mismatches: 15, Indels: 21
0.77 0.10 0.14
Matches are distributed among these distances:
62 3 0.03
63 10 0.08
64 39 0.33
65 60 0.51
66 6 0.05
ACGTcount: A:0.28, C:0.17, G:0.25, T:0.30
Consensus pattern (65 bp):
TGCATCGGTGCATGAAATGCATTCGATGTTTCAAAATATTCAATGATGCATCGATGCATGACTGA
Found at i:9738076 original size:20 final size:21
Alignment explanation
Indices: 9738053--9738092 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
9738043 GAATCGAATA
9738053 TAAAAT-TGTAAAA-TCATTTG
1 TAAAATCT-TAAAATTCATTTG
9738073 TAAAATCTTAAAATTCATTT
1 TAAAATCTTAAAATTCATTT
9738093 AACTTAATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 11 0.61
21 7 0.39
ACGTcount: A:0.45, C:0.07, G:0.05, T:0.42
Consensus pattern (21 bp):
TAAAATCTTAAAATTCATTTG
Found at i:9738468 original size:16 final size:16
Alignment explanation
Indices: 9738447--9738478 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
9738437 TATGAAAGTT
*
9738447 TGGAAATGTGTATGAA
1 TGGAAAAGTGTATGAA
9738463 TGGAAAAGTGTATGAA
1 TGGAAAAGTGTATGAA
9738479 ATGATTATTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.41, C:0.00, G:0.31, T:0.28
Consensus pattern (16 bp):
TGGAAAAGTGTATGAA
Found at i:9739727 original size:31 final size:27
Alignment explanation
Indices: 9739667--9739718 Score: 95
Period size: 27 Copynumber: 1.9 Consensus size: 27
9739657 TAATCTTCAA
9739667 TGACCACATCTTAATTAAAAAAAAAAG
1 TGACCACATCTTAATTAAAAAAAAAAG
*
9739694 TGACCACATCTTAATTAAATAAAAA
1 TGACCACATCTTAATTAAAAAAAAA
9739719 CAGAAGTGAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.54, C:0.15, G:0.06, T:0.25
Consensus pattern (27 bp):
TGACCACATCTTAATTAAAAAAAAAAG
Found at i:9743166 original size:18 final size:18
Alignment explanation
Indices: 9743143--9743177 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
9743133 AAAGCTATAT
* *
9743143 TTCTTTATTTAATGAGCA
1 TTCTTTACTTAAGGAGCA
9743161 TTCTTTACTTAAGGAGC
1 TTCTTTACTTAAGGAGC
9743178 TAGCAATATG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.26, C:0.14, G:0.14, T:0.46
Consensus pattern (18 bp):
TTCTTTACTTAAGGAGCA
Found at i:9745021 original size:72 final size:72
Alignment explanation
Indices: 9744935--9745153 Score: 393
Period size: 72 Copynumber: 3.0 Consensus size: 72
9744925 ATGGATGCGA
* *
9744935 AGATCCAAACTCACATCAAATGGACTTAATATCGTAAGATGGACAATCCTGAAGGACCAAGACAC
1 AGATCCAAACTCACATCAAATGGACTTAATAGCGTAAGGTGGACAATCCTGAAGGACCAAGACAC
*
9745000 ATCTGCT
66 AACTGCT
9745007 AGATCCAAACTCACATCAAATGGACTTAATAGCGTAAGGTGGACAATCCTGAAGGACCAAGACAC
1 AGATCCAAACTCACATCAAATGGACTTAATAGCGTAAGGTGGACAATCCTGAAGGACCAAGACAC
9745072 AACTGCT
66 AACTGCT
* *
9745079 AGACCCAAACTCACATCAAATTGACTTAATAGCGTAAGGTGGACAATCCTGAAGGACCAAGACAC
1 AGATCCAAACTCACATCAAATGGACTTAATAGCGTAAGGTGGACAATCCTGAAGGACCAAGACAC
9745144 AACTGCT
66 AACTGCT
9745151 AGA
1 AGA
9745154 CCCTAGACAT
Statistics
Matches: 142, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
72 142 1.00
ACGTcount: A:0.39, C:0.24, G:0.18, T:0.19
Consensus pattern (72 bp):
AGATCCAAACTCACATCAAATGGACTTAATAGCGTAAGGTGGACAATCCTGAAGGACCAAGACAC
AACTGCT
Found at i:9746893 original size:22 final size:22
Alignment explanation
Indices: 9746865--9746914 Score: 68
Period size: 22 Copynumber: 2.3 Consensus size: 22
9746855 AAAAATAAAG
9746865 TAAAAATA-TCAAAATATAAAT-C
1 TAAAAATATTC-AAATA-AAATCC
9746887 TAAAAATATTCAAATAAAATCC
1 TAAAAATATTCAAATAAAATCC
9746909 TAAAAA
1 TAAAAA
9746915 CAAGTGATAA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
21 4 0.15
22 20 0.77
23 2 0.08
ACGTcount: A:0.64, C:0.10, G:0.00, T:0.26
Consensus pattern (22 bp):
TAAAAATATTCAAATAAAATCC
Found at i:9759009 original size:31 final size:31
Alignment explanation
Indices: 9758935--9759002 Score: 111
Period size: 31 Copynumber: 2.2 Consensus size: 31
9758925 TCAAATGGTC
* *
9758935 GGGGG-CCATATTGCAAACATACTAAATGTT
1 GGGGGACCATATTACAAACAGACTAAATGTT
9758965 GGGGGACCATATTACAAACAGACTAAATGTT
1 GGGGGACCATATTACAAACAGACTAAATGTT
9758996 GGGGGAC
1 GGGGGAC
9759003 TGTATTATAG
Statistics
Matches: 35, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
30 5 0.14
31 30 0.86
ACGTcount: A:0.34, C:0.16, G:0.28, T:0.22
Consensus pattern (31 bp):
GGGGGACCATATTACAAACAGACTAAATGTT
Found at i:9759475 original size:16 final size:17
Alignment explanation
Indices: 9759449--9759482 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
9759439 AAAGAATGTA
9759449 TGTTATTATAAATTATT
1 TGTTATTATAAATTATT
*
9759466 TGTT-TTATAACTTATT
1 TGTTATTATAAATTATT
9759482 T
1 T
9759483 CCAAATGCCC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 12 0.75
17 4 0.25
ACGTcount: A:0.29, C:0.03, G:0.06, T:0.62
Consensus pattern (17 bp):
TGTTATTATAAATTATT
Found at i:9759633 original size:23 final size:23
Alignment explanation
Indices: 9759603--9759724 Score: 199
Period size: 23 Copynumber: 5.3 Consensus size: 23
9759593 TCCCGAAAAA
* * *
9759603 CCACATAGATTTACACCAAAGTG
1 CCACATAGGTTTGCACCGAAGTG
* *
9759626 CCACATAGGTTTGTACCGAAATG
1 CCACATAGGTTTGCACCGAAGTG
9759649 CCACATAGGTTTGCACCGAAGTG
1 CCACATAGGTTTGCACCGAAGTG
9759672 CCACATAGGTTTGCACCGAAGTG
1 CCACATAGGTTTGCACCGAAGTG
9759695 CCACATAGGTTTGCACCGAAGTG
1 CCACATAGGTTTGCACCGAAGTG
9759718 CCACATA
1 CCACATA
9759725 ATTGTCCCGA
Statistics
Matches: 92, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 92 1.00
ACGTcount: A:0.30, C:0.26, G:0.21, T:0.22
Consensus pattern (23 bp):
CCACATAGGTTTGCACCGAAGTG
Found at i:9759671 original size:46 final size:46
Alignment explanation
Indices: 9759568--9759724 Score: 210
Period size: 46 Copynumber: 3.5 Consensus size: 46
9759558 CAGCTCGTAA
* * ** *
9759568 TTTGCACCAAAGTGCCACATA--ATTGTCCCGAAAAACCACATAGA
1 TTTGCACCAAAGTGCCACATAGGTTTGTACCGAAATGCCACATAGG
*
9759612 TTTACACCAAAGTGCCACATAGGTTTGTACCGAAATGCCACATAGG
1 TTTGCACCAAAGTGCCACATAGGTTTGTACCGAAATGCCACATAGG
* * *
9759658 TTTGCACCGAAGTGCCACATAGGTTTGCACCGAAGTGCCACATAGG
1 TTTGCACCAAAGTGCCACATAGGTTTGTACCGAAATGCCACATAGG
*
9759704 TTTGCACCGAAGTGCCACATA
1 TTTGCACCAAAGTGCCACATA
9759725 ATTGTCCCGA
Statistics
Matches: 101, Mismatches: 10, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
44 20 0.20
46 81 0.80
ACGTcount: A:0.32, C:0.26, G:0.20, T:0.22
Consensus pattern (46 bp):
TTTGCACCAAAGTGCCACATAGGTTTGTACCGAAATGCCACATAGG
Found at i:9760410 original size:20 final size:20
Alignment explanation
Indices: 9760382--9760434 Score: 88
Period size: 20 Copynumber: 2.6 Consensus size: 20
9760372 ATCTTGAAAA
9760382 TGGTATCGATACTATACCCT
1 TGGTATCGATACTATACCCT
*
9760402 TGGTCTCGATACTATACCCT
1 TGGTATCGATACTATACCCT
*
9760422 TGGTATCAATACT
1 TGGTATCGATACT
9760435 TTCCAGTCGG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.25, C:0.25, G:0.15, T:0.36
Consensus pattern (20 bp):
TGGTATCGATACTATACCCT
Found at i:9764474 original size:13 final size:13
Alignment explanation
Indices: 9764456--9764483 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
9764446 AGGACCACAT
9764456 AGGTTTGCACCGA
1 AGGTTTGCACCGA
9764469 AGGTTTGCACCGA
1 AGGTTTGCACCGA
9764482 AG
1 AG
9764484 TGCTACATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.25, C:0.21, G:0.32, T:0.21
Consensus pattern (13 bp):
AGGTTTGCACCGA
Found at i:9765090 original size:22 final size:21
Alignment explanation
Indices: 9765060--9765102 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 21
9765050 GGTACTACCA
*
9765060 CTATAGTATCGATACCTCCCTT
1 CTATAGTATCAATACC-CCCTT
*
9765082 CTATGGTATCAATACCCCCTT
1 CTATAGTATCAATACCCCCTT
9765103 AGGTACCGAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 5 0.26
22 14 0.74
ACGTcount: A:0.23, C:0.33, G:0.09, T:0.35
Consensus pattern (21 bp):
CTATAGTATCAATACCCCCTT
Found at i:9765172 original size:20 final size:20
Alignment explanation
Indices: 9765147--9765199 Score: 106
Period size: 20 Copynumber: 2.6 Consensus size: 20
9765137 ATCTTGAAAA
9765147 TGGTATCAATACTATACCCT
1 TGGTATCAATACTATACCCT
9765167 TGGTATCAATACTATACCCT
1 TGGTATCAATACTATACCCT
9765187 TGGTATCAATACT
1 TGGTATCAATACT
9765200 CTTCAGTCGG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.30, C:0.23, G:0.11, T:0.36
Consensus pattern (20 bp):
TGGTATCAATACTATACCCT
Found at i:9774088 original size:18 final size:19
Alignment explanation
Indices: 9774062--9774109 Score: 55
Period size: 18 Copynumber: 2.6 Consensus size: 19
9774052 GACGACTCCG
* *
9774062 ACGATGAACCAGAAC-AGC
1 ACGAGGAACAAGAACGAGC
*
9774080 ACGAGGAACAAGCACGAGC
1 ACGAGGAACAAGAACGAGC
9774099 A-GAGGAACAAG
1 ACGAGGAACAAG
9774110 CACATCTAGA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
18 22 0.85
19 4 0.15
ACGTcount: A:0.46, C:0.23, G:0.29, T:0.02
Consensus pattern (19 bp):
ACGAGGAACAAGAACGAGC
Found at i:9774110 original size:18 final size:19
Alignment explanation
Indices: 9774077--9774112 Score: 65
Period size: 18 Copynumber: 1.9 Consensus size: 19
9774067 GAACCAGAAC
9774077 AGCACGAGGAACAAGCACG
1 AGCACGAGGAACAAGCACG
9774096 AGCA-GAGGAACAAGCAC
1 AGCACGAGGAACAAGCAC
9774113 ATCTAGAGGA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 13 0.76
19 4 0.24
ACGTcount: A:0.44, C:0.25, G:0.31, T:0.00
Consensus pattern (19 bp):
AGCACGAGGAACAAGCACG
Found at i:9776580 original size:21 final size:22
Alignment explanation
Indices: 9776540--9776581 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
9776530 GCCAATTTGA
* *
9776540 AAATTATCGTGTATTGTCAAAT
1 AAATTATCGTGTAATCTCAAAT
9776562 AAATTATC-TGTAATCTCAAA
1 AAATTATCGTGTAATCTCAAA
9776582 AAGAATAAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 10 0.56
22 8 0.44
ACGTcount: A:0.40, C:0.12, G:0.10, T:0.38
Consensus pattern (22 bp):
AAATTATCGTGTAATCTCAAAT
Found at i:9781694 original size:23 final size:23
Alignment explanation
Indices: 9781655--9781699 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
9781645 CAATAACAAT
*
9781655 AAATGTCATGAAAATAATAAATG
1 AAATGTCATGAAAATAAAAAATG
*
9781678 AAATGTCAAT-AATATAAAAAAT
1 AAATGTC-ATGAAAATAAAAAAT
9781700 AAACAATTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 17 0.89
24 2 0.11
ACGTcount: A:0.60, C:0.04, G:0.09, T:0.27
Consensus pattern (23 bp):
AAATGTCATGAAAATAAAAAATG
Found at i:9782154 original size:2 final size:2
Alignment explanation
Indices: 9782147--9782183 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
9782137 ACATACGTGA
9782147 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
9782184 AAAGGGCAAC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:9783495 original size:2 final size:2
Alignment explanation
Indices: 9783488--9783516 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
9783478 CATGCACATA
9783488 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
9783517 ACATAAGGAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:9784254 original size:15 final size:14
Alignment explanation
Indices: 9784218--9784269 Score: 61
Period size: 14 Copynumber: 3.6 Consensus size: 14
9784208 TTTTTTAATA
9784218 TTGAAATATATTTATT
1 TTGAAATA-ATTT-TT
9784234 TT-AAATAATTGTTT
1 TTGAAATAATT-TTT
9784248 TTGAAATAATTTTT
1 TTGAAATAATTTTT
*
9784262 TTGGAATA
1 TTGAAATA
9784270 TTGAAATAAT
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
14 17 0.52
15 14 0.42
16 2 0.06
ACGTcount: A:0.37, C:0.00, G:0.10, T:0.54
Consensus pattern (14 bp):
TTGAAATAATTTTT
Found at i:9784292 original size:23 final size:22
Alignment explanation
Indices: 9784248--9784292 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
9784238 ATAATTGTTT
* *
9784248 TTGAAATAATTTTTTTGGAATA
1 TTGAAATAATTTTTTCGAAATA
9784270 TTGAAATAATTGTTTTCGAAATA
1 TTGAAATAATT-TTTTCGAAATA
9784293 ATTATTGTTG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 11 0.55
23 9 0.45
ACGTcount: A:0.38, C:0.02, G:0.13, T:0.47
Consensus pattern (22 bp):
TTGAAATAATTTTTTCGAAATA
Found at i:9787054 original size:21 final size:24
Alignment explanation
Indices: 9787003--9787054 Score: 56
Period size: 21 Copynumber: 2.3 Consensus size: 24
9786993 TTCATATGCC
* *
9787003 TTATTTTCGACTTTATCCATTTTT
1 TTATTTTCGACTTTATCCATCTCT
*
9787027 TTCTTTTC-A-TTT-TCCATCTCT
1 TTATTTTCGACTTTATCCATCTCT
9787048 TTATTTT
1 TTATTTT
9787055 TTTACACTTC
Statistics
Matches: 24, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
21 13 0.54
22 3 0.12
23 1 0.04
24 7 0.29
ACGTcount: A:0.13, C:0.19, G:0.02, T:0.65
Consensus pattern (24 bp):
TTATTTTCGACTTTATCCATCTCT
Found at i:9788451 original size:6 final size:6
Alignment explanation
Indices: 9788414--9788470 Score: 57
Period size: 6 Copynumber: 9.5 Consensus size: 6
9788404 ATGCTTAAAT
*
9788414 AAATGC -AATGC AAATAC AAAATGC AGAGATGC AAATGC AAATGC -AATGC
1 AAATGC AAATGC AAATGC -AAATGC A-A-ATGC AAATGC AAATGC AAATGC
9788463 -AATGC AAA
1 AAATGC AAA
9788471 AGGTGTTGAT
Statistics
Matches: 44, Mismatches: 2, Indels: 10
0.79 0.04 0.18
Matches are distributed among these distances:
5 15 0.34
6 17 0.39
7 7 0.16
8 5 0.11
ACGTcount: A:0.51, C:0.16, G:0.18, T:0.16
Consensus pattern (6 bp):
AAATGC
Found at i:9798163 original size:24 final size:23
Alignment explanation
Indices: 9798118--9798163 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
9798108 AAACGCCACT
* **
9798118 ATATTTTATTTTTGGGAAAATTC
1 ATATTTTAATTTTGAAAAAATTC
9798141 ATATTTTAATTTTGAAAACAATT
1 ATATTTTAATTTTGAAAA-AATT
9798164 TTTGGAGTCT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
23 15 0.79
24 4 0.21
ACGTcount: A:0.37, C:0.04, G:0.09, T:0.50
Consensus pattern (23 bp):
ATATTTTAATTTTGAAAAAATTC
Found at i:9800838 original size:2 final size:2
Alignment explanation
Indices: 9800798--9800822 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
9800788 ATATGTACTC
9800798 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
9800823 CACACACATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:9804914 original size:18 final size:18
Alignment explanation
Indices: 9804891--9804928 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
9804881 CTGAACCTCT
9804891 TTGACCCAACCTGTTAAC
1 TTGACCCAACCTGTTAAC
* *
9804909 TTGACCCGACCTGTTGAC
1 TTGACCCAACCTGTTAAC
9804927 TT
1 TT
9804929 TGGTCAGAGT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.21, C:0.32, G:0.16, T:0.32
Consensus pattern (18 bp):
TTGACCCAACCTGTTAAC
Found at i:9809164 original size:22 final size:22
Alignment explanation
Indices: 9809139--9809187 Score: 80
Period size: 22 Copynumber: 2.2 Consensus size: 22
9809129 GATCATACCA
9809139 TTGACTTTGACCGGTCAGACCG
1 TTGACTTTGACCGGTCAGACCG
* *
9809161 TTGAATTTGACCGGTCTGACCG
1 TTGACTTTGACCGGTCAGACCG
9809183 TTGAC
1 TTGAC
9809188 AGTTCACTTT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.18, C:0.24, G:0.27, T:0.31
Consensus pattern (22 bp):
TTGACTTTGACCGGTCAGACCG
Found at i:9809590 original size:12 final size:12
Alignment explanation
Indices: 9809573--9809597 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
9809563 GTACTGAAAA
9809573 AATGACCCAAAT
1 AATGACCCAAAT
9809585 AATGACCCAAAT
1 AATGACCCAAAT
9809597 A
1 A
9809598 TCCCCTAATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.52, C:0.24, G:0.08, T:0.16
Consensus pattern (12 bp):
AATGACCCAAAT
Found at i:9810893 original size:66 final size:66
Alignment explanation
Indices: 9810776--9810902 Score: 173
Period size: 66 Copynumber: 1.9 Consensus size: 66
9810766 TGTATGAAGG
* * ****
9810776 CTCTAGCAGGTTCAGTCGCTGTTGGTAATTCCTTGTATAGGTTTTGCATCGACTCGTAATTTCTA
1 CTCTAGCAGGTTCAGTCGCTGCTGGTAATCCCTTGTATAGGTTCAAAATCGACTCGTAATTTCTA
9810841 T
66 T
* * *
9810842 CTCTGGCAGGTTCAGTCGCTGCTGGTAATCCCTTTTATAGGTTCAAAATCGACTGGTAATT
1 CTCTAGCAGGTTCAGTCGCTGCTGGTAATCCCTTGTATAGGTTCAAAATCGACTCGTAATT
9810903 CCTTATGAAC
Statistics
Matches: 52, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
66 52 1.00
ACGTcount: A:0.20, C:0.20, G:0.22, T:0.38
Consensus pattern (66 bp):
CTCTAGCAGGTTCAGTCGCTGCTGGTAATCCCTTGTATAGGTTCAAAATCGACTCGTAATTTCTA
T
Found at i:9816228 original size:20 final size:20
Alignment explanation
Indices: 9816203--9816253 Score: 59
Period size: 20 Copynumber: 2.5 Consensus size: 20
9816193 CCCCTAACTA
9816203 GTTTCTAAACCATTATACCTG
1 GTTTCTAAACCA-TATACCTG
* **
9816224 G-TTCTAAGCCATATGTCTG
1 GTTTCTAAACCATATACCTG
9816243 GTTTCTAAACC
1 GTTTCTAAACC
9816254 CAATATTCCA
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
19 7 0.28
20 17 0.68
21 1 0.04
ACGTcount: A:0.25, C:0.24, G:0.14, T:0.37
Consensus pattern (20 bp):
GTTTCTAAACCATATACCTG
Found at i:9818080 original size:20 final size:20
Alignment explanation
Indices: 9818057--9818106 Score: 75
Period size: 20 Copynumber: 2.5 Consensus size: 20
9818047 TGAAAATGAT
*
9818057 TTTTTAAAAACAAAATTAAA-
1 TTTTGAAAAACAAAA-TAAAG
9818077 TTTTGAAAAACAAAATAAAG
1 TTTTGAAAAACAAAATAAAG
9818097 TTTTGAAAAA
1 TTTTGAAAAA
9818107 TTATTTTGAG
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
19 4 0.14
20 24 0.86
ACGTcount: A:0.58, C:0.04, G:0.06, T:0.32
Consensus pattern (20 bp):
TTTTGAAAAACAAAATAAAG
Found at i:9818154 original size:22 final size:21
Alignment explanation
Indices: 9818112--9818156 Score: 54
Period size: 22 Copynumber: 2.1 Consensus size: 21
9818102 AAAAATTATT
*
9818112 TTGAGATTTCAAAAATCAAAA
1 TTGAGATTTCAAAAAACAAAA
* *
9818133 TTGATGATTTTAAAAAAGAAAA
1 TTGA-GATTTCAAAAAACAAAA
9818155 TT
1 TT
9818157 TTGACTTAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
21 4 0.20
22 16 0.80
ACGTcount: A:0.51, C:0.04, G:0.11, T:0.33
Consensus pattern (21 bp):
TTGAGATTTCAAAAAACAAAA
Found at i:9820323 original size:56 final size:56
Alignment explanation
Indices: 9820237--9820496 Score: 391
Period size: 56 Copynumber: 4.6 Consensus size: 56
9820227 CCCATTACCA
** * * * *
9820237 ATACAGAAATGAATACACTTAGTATGAATTTCCT-AGTTTTTGCACATATAATGCCC
1 ATACAGAAATTCATCCACTTAGTATGAATTTCTTAAG-TTTTACACATATAGTGCCC
*
9820293 ATACAGAAATTCGTCCACTTAGTATGAATTTCTTAAGTTTTACACATATAGTGCCC
1 ATACAGAAATTCATCCACTTAGTATGAATTTCTTAAGTTTTACACATATAGTGCCC
*
9820349 ATACGGAAATTCATCCACTTAGTATGAATTTCTTAAGTTTTACACATATAGTGCCC
1 ATACAGAAATTCATCCACTTAGTATGAATTTCTTAAGTTTTACACATATAGTGCCC
9820405 ATAC-GAAAATTCATCCACTTAGTATGAATTTCTTAAGTTTTACACATATAGTGCCC
1 ATACAG-AAATTCATCCACTTAGTATGAATTTCTTAAGTTTTACACATATAGTGCCC
*
9820461 ATACAAAAATT-ATTCCACTTAGTATGAATTTCTTAA
1 ATACAGAAATTCA-TCCACTTAGTATGAATTTCTTAA
9820497 ATCTTTGCAC
Statistics
Matches: 190, Mismatches: 10, Indels: 8
0.91 0.05 0.04
Matches are distributed among these distances:
55 2 0.01
56 186 0.98
57 2 0.01
ACGTcount: A:0.35, C:0.18, G:0.11, T:0.36
Consensus pattern (56 bp):
ATACAGAAATTCATCCACTTAGTATGAATTTCTTAAGTTTTACACATATAGTGCCC
Found at i:9827021 original size:56 final size:55
Alignment explanation
Indices: 9826853--9827001 Score: 235
Period size: 56 Copynumber: 2.7 Consensus size: 55
9826843 CTTATATTTT
* * *
9826853 CCATACAGAAATTCGTCCACTTAGTACGAATTTCTTAAGTTTTACACATATAGTGC
1 CCATACGGAAATTCATCCACTTAGTA-TAATTTCTTAAGTTTTACACATATAGTGC
9826909 CCATACGGAAATTCATCCACTTAGTATGAATTTCTTAAGTTTTACACATATAGTGC
1 CCATACGGAAATTCATCCACTTAGTAT-AATTTCTTAAGTTTTACACATATAGTGC
* *
9826965 CTATACGGAAATTCATCCACTTGGTATAATTTCTTAA
1 CCATACGGAAATTCATCCACTTAGTATAATTTCTTAA
9827002 ATCTTTGCAC
Statistics
Matches: 87, Mismatches: 5, Indels: 3
0.92 0.05 0.03
Matches are distributed among these distances:
55 10 0.11
56 77 0.89
ACGTcount: A:0.32, C:0.20, G:0.12, T:0.36
Consensus pattern (55 bp):
CCATACGGAAATTCATCCACTTAGTATAATTTCTTAAGTTTTACACATATAGTGC
Found at i:9827368 original size:20 final size:21
Alignment explanation
Indices: 9827343--9827394 Score: 70
Period size: 22 Copynumber: 2.5 Consensus size: 21
9827333 TGGCTCCTCA
*
9827343 GTATCGATACT-CTTACCATG
1 GTATCGATACTACATACCATG
*
9827363 GTATCGATACTACCATACTATG
1 GTATCGATACTA-CATACCATG
9827385 GTATCGATAC
1 GTATCGATAC
9827395 CATTTTTGCA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
20 11 0.39
22 17 0.61
ACGTcount: A:0.29, C:0.23, G:0.15, T:0.33
Consensus pattern (21 bp):
GTATCGATACTACATACCATG
Found at i:9833433 original size:12 final size:13
Alignment explanation
Indices: 9833411--9833439 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
9833401 CGAATCAAAT
9833411 TTTTAAATTTTAA
1 TTTTAAATTTTAA
9833424 TTTT-AATTTTAA
1 TTTTAAATTTTAA
9833436 TTTT
1 TTTT
9833440 CGCAATTAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 12 0.75
13 4 0.25
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (13 bp):
TTTTAAATTTTAA
Found at i:9834984 original size:3 final size:3
Alignment explanation
Indices: 9834976--9835068 Score: 136
Period size: 3 Copynumber: 31.7 Consensus size: 3
9834966 CGAGACTACA
* *
9834976 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA- TAT TAC AAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* *
9835023 TAT TA- TCT TAT TAT TGT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
9835069 CTACAAATAA
Statistics
Matches: 80, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
2 3 0.04
3 77 0.96
ACGTcount: A:0.33, C:0.02, G:0.01, T:0.63
Consensus pattern (3 bp):
TAT
Found at i:9837464 original size:47 final size:48
Alignment explanation
Indices: 9837368--9837464 Score: 117
Period size: 46 Copynumber: 2.0 Consensus size: 48
9837358 TATTGTTTTA
* * * * *
9837368 TTTTCCTAATAAATGCATGCGAACTAGAAATCACGCGGTTATGTTTAT
1 TTTTCCAAATAAATGCATGCGAACTAGAAAGCACGAGGATATGTATAT
*
9837416 TTTTCCAAATAAA-GCATG-GAACTAGAAAGCATGAGGATATGATATAT
1 TTTTCCAAATAAATGCATGCGAACTAGAAAGCACGAGGATATG-TATAT
9837463 TT
1 TT
9837465 ATAGATAGGA
Statistics
Matches: 42, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
46 19 0.45
47 11 0.26
48 12 0.29
ACGTcount: A:0.36, C:0.13, G:0.18, T:0.33
Consensus pattern (48 bp):
TTTTCCAAATAAATGCATGCGAACTAGAAAGCACGAGGATATGTATAT
Found at i:9841051 original size:34 final size:34
Alignment explanation
Indices: 9840988--9841098 Score: 152
Period size: 35 Copynumber: 3.2 Consensus size: 34
9840978 AAAACAATTC
*
9840988 TCAATTTCATTCTAAACCACAAATTCCAAAGTAAT
1 TCAATTTCATTCTAAACC-CAAATTCCAAAATAAT
9841023 TCAATTTCATTCT-AACCCTAAATTCCAAAATAAT
1 TCAATTTCATTCTAAACCC-AAATTCCAAAATAAT
* * *
9841057 TCAATTACATTCTAAAACCCAAATTCTAAAATACT
1 TCAATTTCATTCT-AAACCCAAATTCCAAAATAAT
9841092 TCAATTT
1 TCAATTT
9841099 TTGTCTTTTT
Statistics
Matches: 68, Mismatches: 5, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
33 1 0.01
34 30 0.44
35 32 0.47
36 5 0.07
ACGTcount: A:0.42, C:0.23, G:0.01, T:0.34
Consensus pattern (34 bp):
TCAATTTCATTCTAAACCCAAATTCCAAAATAAT
Found at i:9842068 original size:35 final size:34
Alignment explanation
Indices: 9842020--9842131 Score: 143
Period size: 35 Copynumber: 3.2 Consensus size: 34
9842010 ATTTCTCCTT
*
9842020 AAATTGAAGTATTTTAGAATTTGGGGTTTAGAATG
1 AAATTGAATTATTTT-GAATTTGGGGTTTAGAATG
* *
9842055 TAATTGAATTATTTTGGAATTTAGGGTTTAGAATG
1 AAATTGAATTATTTT-GAATTTGGGGTTTAGAATG
* * *
9842090 AAATTGAATTACTTTGAAATTTGGGATTTATAATG
1 AAATTGAATTATTTTG-AATTTGGGGTTTAGAATG
9842125 AAATTGA
1 AAATTGA
9842132 GGAATGTTTT
Statistics
Matches: 67, Mismatches: 9, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
34 1 0.01
35 66 0.99
ACGTcount: A:0.36, C:0.01, G:0.21, T:0.42
Consensus pattern (34 bp):
AAATTGAATTATTTTGAATTTGGGGTTTAGAATG
Found at i:9845571 original size:99 final size:99
Alignment explanation
Indices: 9845395--9845620 Score: 380
Period size: 99 Copynumber: 2.3 Consensus size: 99
9845385 CACAGATTTG
* * * * *
9845395 TAAAACCTCCAGGTCATCTGTAAAACCTCGGGGTAGGATGTTTTTGCATGAAAATGAGAAAGTGA
1 TAAATCCTCCGGGTCATCTGTAAAACCTCAGGGTAGGATGTTTTCGCATGAAAATGAGAAAGCGA
9845460 TTTTCAAAGTTTCTCATTTAATGTTCTAGAAAAT
66 TTTTCAAAGTTTCTCATTTAATGTTCTAGAAAAT
*
9845494 TAAATCCTCCGGGTCATCTGTAAAACCTCAGGGTAGGATGTTTTCGTATGAAAATGAGAAAGCGA
1 TAAATCCTCCGGGTCATCTGTAAAACCTCAGGGTAGGATGTTTTCGCATGAAAATGAGAAAGCGA
9845559 TTTTCAAAGTTTCTCATTTAATGTTCTAGAAAAT
66 TTTTCAAAGTTTCTCATTTAATGTTCTAGAAAAT
* *
9845593 TAAATCCTCCGGGTGATTTGTAAAACCT
1 TAAATCCTCCGGGTCATCTGTAAAACCT
9845621 TCGGGTTATC
Statistics
Matches: 119, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
99 119 1.00
ACGTcount: A:0.32, C:0.15, G:0.19, T:0.33
Consensus pattern (99 bp):
TAAATCCTCCGGGTCATCTGTAAAACCTCAGGGTAGGATGTTTTCGCATGAAAATGAGAAAGCGA
TTTTCAAAGTTTCTCATTTAATGTTCTAGAAAAT
Found at i:9845625 original size:20 final size:20
Alignment explanation
Indices: 9845602--9845640 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
9845592 TTAAATCCTC
*
9845602 CGGGTGATTTGTAAAACCTT
1 CGGGTGATCTGTAAAACCTT
*
9845622 CGGGTTATCTGTAAAACCT
1 CGGGTGATCTGTAAAACCT
9845641 CAAGGTAAGA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.26, C:0.18, G:0.23, T:0.33
Consensus pattern (20 bp):
CGGGTGATCTGTAAAACCTT
Found at i:9845799 original size:3 final size:3
Alignment explanation
Indices: 9845791--9845875 Score: 111
Period size: 3 Copynumber: 28.7 Consensus size: 3
9845781 CGAGACTATA
*
9845791 TAT TAT TAT TAT TAT TAT TAT TAT TAT TATT TAT TAG TAT TAT TA-
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TA-T TAT TAT TAT TAT TAT
* * *
9845836 TAT TAC AAT TAT TAT TAT CA- TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
9845876 CAAATAAATT
Statistics
Matches: 71, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
2 3 0.04
3 65 0.92
4 3 0.04
ACGTcount: A:0.35, C:0.02, G:0.01, T:0.61
Consensus pattern (3 bp):
TAT
Found at i:9851424 original size:20 final size:20
Alignment explanation
Indices: 9851401--9851448 Score: 96
Period size: 20 Copynumber: 2.4 Consensus size: 20
9851391 GAACTGAGTT
9851401 AACTCAAATCGGTCTAAGTC
1 AACTCAAATCGGTCTAAGTC
9851421 AACTCAAATCGGTCTAAGTC
1 AACTCAAATCGGTCTAAGTC
9851441 AACTCAAA
1 AACTCAAA
9851449 CCAATATGAC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.40, C:0.25, G:0.12, T:0.23
Consensus pattern (20 bp):
AACTCAAATCGGTCTAAGTC
Found at i:9856805 original size:14 final size:15
Alignment explanation
Indices: 9856779--9856807 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
9856769 ATAAGAATAT
9856779 TGAAAATTCATATAC
1 TGAAAATTCATATAC
9856794 TGAAAA-TCATATAC
1 TGAAAATTCATATAC
9856808 GGGATTAATA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 8 0.57
15 6 0.43
ACGTcount: A:0.48, C:0.14, G:0.07, T:0.31
Consensus pattern (15 bp):
TGAAAATTCATATAC
Found at i:9858695 original size:24 final size:23
Alignment explanation
Indices: 9858662--9858706 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 23
9858652 AAGATAGTAC
9858662 CTAAATATACT-TTTTTGTCATAT
1 CTAAATATACTCTTTTT-TCATAT
9858685 CTAAAGTATACTCTTTTTTCAT
1 CTAAA-TATACTCTTTTTTCAT
9858707 CTAATTACCT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
23 5 0.25
24 10 0.50
25 5 0.25
ACGTcount: A:0.29, C:0.16, G:0.04, T:0.51
Consensus pattern (23 bp):
CTAAATATACTCTTTTTTCATAT
Found at i:9858914 original size:22 final size:22
Alignment explanation
Indices: 9858889--9858930 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
9858879 TATGAAAAAA
9858889 TTGAATACTTTAGACACCTACT
1 TTGAATACTTTAGACACCTACT
* *
9858911 TTGACTACTTTAGATACCTA
1 TTGAATACTTTAGACACCTA
9858931 TTTTAACCAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.31, C:0.21, G:0.10, T:0.38
Consensus pattern (22 bp):
TTGAATACTTTAGACACCTACT
Found at i:9865961 original size:31 final size:31
Alignment explanation
Indices: 9865901--9865961 Score: 77
Period size: 31 Copynumber: 2.0 Consensus size: 31
9865891 CTAAGAACAC
* * * *
9865901 ATCTTAGGGCCGTAGGGCCTACCCGAGAGTG
1 ATCTCAGGGCCGCAGAGCCTACCCAAGAGTG
*
9865932 ATCTCAGGGCCGCAGAGCCTACCTAAGAGT
1 ATCTCAGGGCCGCAGAGCCTACCCAAGAGT
9865962 CACATTAGGT
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.23, C:0.28, G:0.31, T:0.18
Consensus pattern (31 bp):
ATCTCAGGGCCGCAGAGCCTACCCAAGAGTG
Found at i:9871707 original size:195 final size:194
Alignment explanation
Indices: 9871331--9871724 Score: 754
Period size: 195 Copynumber: 2.0 Consensus size: 194
9871321 AAAAAAAATC
9871331 CATAAATGGATAGTTTACTCTTGAGAATAGATTTTATTGAAATCAGATTCTTGATATGGAAATTG
1 CATAAATGGATAGTTTACTCTTGAGAATAGATTTTATTGAAATCAGATTCTTGATATGGAAATTG
9871396 TGTTAAAAACTAGAAAGAGTTAAATTGCGGTATAAATTCGTAAATCGGATCGAATAGAAATTTCA
66 TGTTAAAAACTAGAAAGAGTTAAATTGCGGTATAAATTCGTAAATCGGATCGAATAGAAATTTCA
9871461 GGAAAATTTGAAGGATGATAAATTAAGCTTAGAAATATTATTTCCACATTTTT-AATGATAAAA
131 GGAAAATTTGAAGGATGATAAATTAAGCTTAGAAATATTATTTCCACATTTTTAAATGATAAAA
9871524 CATAAATGGATAGTTTACTCTTGAGAATTAGATTTTATTGAAATCAGATTCTTGATATGGAAATT
1 CATAAATGGATAGTTTACTCTTGAGAA-TAGATTTTATTGAAATCAGATTCTTGATATGGAAATT
9871589 GTGTTAAAAACTAGAAAGAGTTAAATTGCGGTATAAATTCGGTAAATCGGATCGAATAGAAATTT
65 GTGTTAAAAACTAGAAAGAGTTAAATTGCGGTATAAATTC-GTAAATCGGATCGAATAGAAATTT
9871654 CAGGAAAATTTGAAGGATGATAAATTAAGCTTAGAAATATTATTTCCACATTTTTAAATGATAAA
129 CAGGAAAATTTGAAGGATGATAAATTAAGCTTAGAAATATTATTTCCACATTTTTAAATGATAAA
9871719 A
194 A
*
9871720 AATAA
1 CATAA
9871725 TATGAAGTAT
Statistics
Matches: 197, Mismatches: 1, Indels: 3
0.98 0.00 0.01
Matches are distributed among these distances:
193 27 0.14
194 77 0.39
195 79 0.40
196 14 0.07
ACGTcount: A:0.41, C:0.08, G:0.17, T:0.34
Consensus pattern (194 bp):
CATAAATGGATAGTTTACTCTTGAGAATAGATTTTATTGAAATCAGATTCTTGATATGGAAATTG
TGTTAAAAACTAGAAAGAGTTAAATTGCGGTATAAATTCGTAAATCGGATCGAATAGAAATTTCA
GGAAAATTTGAAGGATGATAAATTAAGCTTAGAAATATTATTTCCACATTTTTAAATGATAAAA
Found at i:9874242 original size:26 final size:26
Alignment explanation
Indices: 9874204--9874255 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
9874194 ACTAAGTGCA
* * *
9874204 TATGGTGGGCACGACCTTATGTGTAT
1 TATGGTAGACACGACATTATGTGTAT
*
9874230 TATGGTAGACACGACATTTTGTGTAT
1 TATGGTAGACACGACATTATGTGTAT
9874256 AAGCACTTTG
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.23, C:0.13, G:0.27, T:0.37
Consensus pattern (26 bp):
TATGGTAGACACGACATTATGTGTAT
Found at i:9880581 original size:7 final size:7
Alignment explanation
Indices: 9880555--9880811 Score: 162
Period size: 7 Copynumber: 37.9 Consensus size: 7
9880545 TATTGATAAA
9880555 AATA-AT
1 AATATAT
9880561 AA-ATAT
1 AATATAT
*
9880567 AATAAAT
1 AATATAT
9880574 ATATAATAT
1 A-AT-ATAT
9880583 AATATAT
1 AATATAT
*
9880590 -A-ATAC
1 AATATAT
9880595 AATATAT
1 AATATAT
9880602 AATATAT
1 AATATAT
9880609 -A-ATAT
1 AATATAT
9880614 AATACTAT
1 AATA-TAT
9880622 AATATAT
1 AATATAT
9880629 -ATA-AT
1 AATATAT
9880634 AATATACT
1 AATATA-T
9880642 ATATAATAT
1 A-AT-ATAT
9880651 AATATAT
1 AATATAT
*
9880658 ACTATAT
1 AATATAT
**
9880665 ACCATAT
1 AATATAT
9880672 AA-ATAT
1 AATATAT
9880678 --TATAT
1 AATATAT
9880683 AATATAT
1 AATATAT
9880690 -A-ATAT
1 AATATAT
9880695 AATATA-
1 AATATAT
9880701 AACTATAT
1 AA-TATAT
9880709 AATATACT
1 AATATA-T
9880717 -ATAATTAT
1 AAT-A-TAT
9880725 AATATAT
1 AATATAT
9880732 AATATA-
1 AATATAT
9880738 ACATA-AT
1 A-ATATAT
*
9880745 ATTATAT
1 AATATAT
9880752 -A-ATAT
1 AATATAT
9880757 AATATAT
1 AATATAT
9880764 AAATATTAT
1 -AATA-TAT
9880773 AATATAT
1 AATATAT
*
9880780 GCA-ATAT
1 -AATATAT
9880787 AA-A-AT
1 AATATAT
9880792 AATATAT
1 AATATAT
*
9880799 AATATGT
1 AATATAT
9880806 AATATA
1 AATATA
9880812 GTATAATACT
Statistics
Matches: 203, Mismatches: 13, Indels: 69
0.71 0.05 0.24
Matches are distributed among these distances:
5 26 0.13
6 32 0.16
7 97 0.48
8 30 0.15
9 15 0.07
10 3 0.01
ACGTcount: A:0.56, C:0.04, G:0.01, T:0.39
Consensus pattern (7 bp):
AATATAT
Found at i:9880582 original size:5 final size:5
Alignment explanation
Indices: 9880556--9880829 Score: 140
Period size: 5 Copynumber: 52.8 Consensus size: 5
9880546 ATTGATAAAA
* *
9880556 ATAAT A-AAT ATAAT AAATAT ATAAT ATAATAT ATAAT ACAAT AT-AT
1 ATAAT ATAAT ATAAT ATA-AT ATAAT AT-A-AT ATAAT ATAAT ATAAT
*
9880602 A-ATAT ATAAT AT-A- ATACT ATAAT ATATAT AATAAT ATACTAT ATAAT
1 ATA-AT ATAAT ATAAT ATAAT ATAAT ATA-AT -ATAAT ATA--AT ATAAT
*
9880649 ATAAT AT-AT ACT-AT ATACCAT ATAAAT ATTAT ATAATAT ATAAT ATAAT
1 ATAAT ATAAT A-TAAT ATA--AT AT-AAT ATAAT AT-A-AT ATAAT ATAAT
* *
9880698 ATAA- ACT-AT ATAAT ATACT ATAATT ATAATAT ATAAT ATAAC ATAAT
1 ATAAT A-TAAT ATAAT ATAAT ATAA-T AT-A-AT ATAAT ATAAT ATAAT
* * * ** *
9880745 ATTAT ATAAT ATAAT ATATAA ATATT ATAAT AT-AT GCAAT ATAAA ATAAT
1 ATAAT ATAAT ATAAT ATA-AT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT
* *
9880795 AT-AT A-ATAT GTAAT ATAGT ATAAT ACTATAT ATAA
1 ATAAT ATA-AT ATAAT ATAAT ATAAT A-TA-AT ATAA
9880830 ACAGAAACTC
Statistics
Matches: 208, Mismatches: 28, Indels: 66
0.69 0.09 0.22
Matches are distributed among these distances:
3 2 0.01
4 20 0.10
5 128 0.62
6 29 0.14
7 27 0.13
8 2 0.01
ACGTcount: A:0.55, C:0.04, G:0.01, T:0.39
Consensus pattern (5 bp):
ATAAT
Found at i:9880586 original size:12 final size:12
Alignment explanation
Indices: 9880559--9880829 Score: 188
Period size: 12 Copynumber: 23.3 Consensus size: 12
9880549 GATAAAAATA
9880559 ATAA-ATATAAT
1 ATAATATATAAT
9880570 A-AATATATAAT
1 ATAATATATAAT
9880581 ATAATATAT-A-
1 ATAATATATAAT
*
9880591 AT-ACA-AT-AT
1 ATAATATATAAT
9880600 ATAATATATAAT
1 ATAATATATAAT
9880612 ATAATACTATAAT
1 ATAATA-TATAAT
9880625 AT-ATATAATAAT
1 ATAATAT-ATAAT
*
9880637 ATACTATATAAT
1 ATAATATATAAT
9880649 ATAATATATACTAT
1 ATAATATATA--AT
**
9880663 ATACCATATAA-
1 ATAATATATAAT
*
9880674 ATATTATATAAT
1 ATAATATATAAT
9880686 AT-ATAATATAAT
1 ATAAT-ATATAAT
9880698 ATAAACTATATAAT
1 AT-AA-TATATAAT
* *
9880712 ATACTATA-ATT
1 ATAATATATAAT
9880723 ATAATATATAAT
1 ATAATATATAAT
*
9880735 AT-A-ACATAAT
1 ATAATATATAAT
9880745 AT--TATATAAT
1 ATAATATATAAT
9880755 ATAATATATAA-
1 ATAATATATAAT
9880766 AT-AT-TATAAT
1 ATAATATATAAT
*
9880776 AT-ATGCAATATAAA
1 ATAAT---ATATAAT
9880790 ATAATATATAAT
1 ATAATATATAAT
* *
9880802 AT-GTAATATAGT
1 ATAAT-ATATAAT
9880814 ATAATACTAT-AT
1 ATAATA-TATAAT
9880826 ATAA
1 ATAA
9880830 ACAGAAACTC
Statistics
Matches: 210, Mismatches: 21, Indels: 57
0.73 0.07 0.20
Matches are distributed among these distances:
8 3 0.01
9 9 0.04
10 28 0.13
11 36 0.17
12 88 0.42
13 16 0.08
14 27 0.13
15 3 0.01
ACGTcount: A:0.55, C:0.04, G:0.01, T:0.39
Consensus pattern (12 bp):
ATAATATATAAT
Found at i:9881577 original size:44 final size:44
Alignment explanation
Indices: 9881518--9881601 Score: 134
Period size: 44 Copynumber: 1.9 Consensus size: 44
9881508 TCAATCTAGA
9881518 ATGATTTGAGCATGATATCCTTCATCGTGAAGCTGAAATCATGG
1 ATGATTTGAGCATGATATCCTTCATCGTGAAGCTGAAATCATGG
* *
9881562 ATGACTTT-AGCATGATATCCTTCGTCGTGAAGTTGAAATC
1 ATGA-TTTGAGCATGATATCCTTCATCGTGAAGCTGAAATC
9881602 TAGCTCAAAA
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
44 34 0.92
45 3 0.08
ACGTcount: A:0.29, C:0.17, G:0.21, T:0.33
Consensus pattern (44 bp):
ATGATTTGAGCATGATATCCTTCATCGTGAAGCTGAAATCATGG
Found at i:9883237 original size:24 final size:24
Alignment explanation
Indices: 9883207--9883254 Score: 78
Period size: 24 Copynumber: 2.0 Consensus size: 24
9883197 TAGATCTTTA
9883207 AATCGGCTTCACTTAATCAAAATT
1 AATCGGCTTCACTTAATCAAAATT
* *
9883231 AATCGGCTTCAGTTGATCAAAATT
1 AATCGGCTTCACTTAATCAAAATT
9883255 GTGGTTCGAG
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:0.35, C:0.19, G:0.12, T:0.33
Consensus pattern (24 bp):
AATCGGCTTCACTTAATCAAAATT
Found at i:9890497 original size:12 final size:11
Alignment explanation
Indices: 9890482--9890638 Score: 102
Period size: 12 Copynumber: 14.3 Consensus size: 11
9890472 AAATATAAAC
9890482 TAATATATGATA
1 TAATATAT-ATA
9890494 TAATATA-ATA
1 TAATATATATA
9890504 TAATATATA-A
1 TAATATATATA
9890514 T-ATATA-ATA
1 TAATATATATA
*
9890523 TAATACTAT-CA
1 TAATA-TATATA
9890534 T-ATATATA-A
1 TAATATATATA
9890543 TAATATACTATA
1 TAATATA-TATA
*
9890555 TAATATA-CTA
1 TAATATATATA
9890565 TAAT-TATAT-
1 TAATATATATA
9890574 T-ATATACTATA
1 TAATATA-TATA
* *
9890585 AAATATAACATAA
1 TAATAT-ATAT-A
9890598 TAATTAATACTATA
1 TAA-T-ATA-TATA
9890612 TAATATATAATA
1 TAATATAT-ATA
9890624 TAATATAATATA
1 TAATAT-ATATA
9890636 TAA
1 TAA
9890639 ACAGAAATCG
Statistics
Matches: 117, Mismatches: 7, Indels: 42
0.70 0.04 0.25
Matches are distributed among these distances:
8 3 0.03
9 17 0.15
10 33 0.28
11 8 0.07
12 39 0.33
13 7 0.06
14 6 0.05
15 4 0.03
ACGTcount: A:0.54, C:0.04, G:0.01, T:0.41
Consensus pattern (11 bp):
TAATATATATA
Found at i:9890499 original size:5 final size:5
Alignment explanation
Indices: 9890467--9890635 Score: 91
Period size: 5 Copynumber: 31.6 Consensus size: 5
9890457 ATTAATAAAA
9890467 ATAAT A-AAT ATAA- ACTAAT ATATGAT ATAAT ATAAT ATAAT AT-AT
1 ATAAT ATAAT ATAAT A-TAAT ATA--AT ATAAT ATAAT ATAAT ATAAT
*
9890512 A-ATAT ATAAT ATAAT ACTATCAT ATATAT AATAAT ATACTAT ATAAT ATACT
1 ATA-AT ATAAT ATAAT A-TA--AT ATA-AT -ATAAT ATA--AT ATAAT ATAAT
* * *
9890564 ATAAT -T-AT ATTAT ATACTAT AAAAT ATAAC ATAAT AATTAAT ACT-AT
1 ATAAT ATAAT ATAAT ATA--AT ATAAT ATAAT ATAAT -A-TAAT A-TAAT
9890611 ATAATAT ATAAT ATAAT ATAAT ATA
1 AT-A-AT ATAAT ATAAT ATAAT ATA
9890636 TAAACAGAAA
Statistics
Matches: 132, Mismatches: 9, Indels: 46
0.71 0.05 0.25
Matches are distributed among these distances:
3 2 0.02
4 11 0.08
5 77 0.58
6 12 0.09
7 27 0.20
8 3 0.02
ACGTcount: A:0.55, C:0.05, G:0.01, T:0.40
Consensus pattern (5 bp):
ATAAT
Found at i:9890511 original size:17 final size:17
Alignment explanation
Indices: 9890470--9890638 Score: 134
Period size: 17 Copynumber: 9.6 Consensus size: 17
9890460 AATAAAAATA
9890470 ATAA-ATATAA-ACTAAT
1 ATAATATATAATA-TAAT
9890486 AT-ATGATATAATATAAT
1 ATAAT-ATATAATATAAT
9890503 ATAATATATAATATATAAT
1 ATAATATAT-A-ATATAAT
*
9890522 ATAATACTATCATAT-AT
1 ATAATA-TATAATATAAT
9890539 ATAATAATATACTATATAAT
1 ATAAT-ATATA--ATATAAT
* * *
9890559 ATACTATAATTATATTAT
1 ATAATAT-ATAATATAAT
* * *
9890577 ATACTATAAAATATAAC
1 ATAATATATAATATAAT
9890594 ATAATA-ATTAATACT-AT
1 ATAATATA-TAATA-TAAT
9890611 ATAATATATAATATAAT
1 ATAATATATAATATAAT
9890628 ATAATATATAA
1 ATAATATATAA
9890639 ACAGAAATCG
Statistics
Matches: 125, Mismatches: 12, Indels: 31
0.74 0.07 0.18
Matches are distributed among these distances:
15 1 0.01
16 4 0.03
17 66 0.53
18 24 0.19
19 19 0.15
20 11 0.09
ACGTcount: A:0.55, C:0.05, G:0.01, T:0.40
Consensus pattern (17 bp):
ATAATATATAATATAAT
Found at i:9890638 original size:7 final size:7
Alignment explanation
Indices: 9890482--9890625 Score: 93
Period size: 7 Copynumber: 20.0 Consensus size: 7
9890472 AAATATAAAC
9890482 TAATATA
1 TAATATA
*
9890489 TGATATA
1 TAATATA
9890496 -ATATAATA
1 TA-AT-ATA
9890504 TAATATA
1 TAATATA
9890511 TAATATA
1 TAATATA
9890518 TAATATAA
1 TAATAT-A
*
9890526 TACTATCA
1 TAATAT-A
9890534 T-ATATA
1 TAATATA
9890540 TAATAATA
1 TAAT-ATA
*
9890548 TACTATA
1 TAATATA
9890555 TAATATA
1 TAATATA
9890562 CT-ATA-A
1 -TAATATA
*
9890568 TTATAT-
1 TAATATA
9890574 TATATACTA
1 TA-ATA-TA
*
9890583 TAAAATA
1 TAATATA
*
9890590 TAACATAA
1 TAATAT-A
9890598 TAAT-TAA
1 TAATAT-A
*
9890605 TACTATA
1 TAATATA
9890612 TAATATA
1 TAATATA
9890619 TAATATA
1 TAATATA
9890626 ATATAATATA
Statistics
Matches: 110, Mismatches: 13, Indels: 28
0.73 0.09 0.19
Matches are distributed among these distances:
5 1 0.01
6 7 0.06
7 71 0.65
8 28 0.25
9 3 0.03
ACGTcount: A:0.53, C:0.05, G:0.01, T:0.41
Consensus pattern (7 bp):
TAATATA
Found at i:9893056 original size:16 final size:16
Alignment explanation
Indices: 9893035--9893065 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
9893025 TAATATTGAA
9893035 ACTTGAACTCAAAAAG
1 ACTTGAACTCAAAAAG
*
9893051 ACTTGAATTCAAAAA
1 ACTTGAACTCAAAAA
9893066 AAAATTAGAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.52, C:0.16, G:0.10, T:0.23
Consensus pattern (16 bp):
ACTTGAACTCAAAAAG
Found at i:9893138 original size:14 final size:14
Alignment explanation
Indices: 9893119--9893146 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
9893109 AAGTGAAAGA
9893119 ATAGTTATATAATT
1 ATAGTTATATAATT
9893133 ATAGTTATATAATT
1 ATAGTTATATAATT
9893147 TTGTTATGAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.43, C:0.00, G:0.07, T:0.50
Consensus pattern (14 bp):
ATAGTTATATAATT
Found at i:9893354 original size:20 final size:20
Alignment explanation
Indices: 9893329--9893366 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
9893319 TATAAAAAAT
9893329 TATTTTA-TTAATATTTTTGG
1 TATTTTATTTAAT-TTTTTGG
9893349 TATTTTATTTAATTTTTT
1 TATTTTATTTAATTTTTT
9893367 ATATAATTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.24, C:0.00, G:0.05, T:0.71
Consensus pattern (20 bp):
TATTTTATTTAATTTTTTGG
Found at i:9894186 original size:39 final size:39
Alignment explanation
Indices: 9894128--9894212 Score: 154
Period size: 39 Copynumber: 2.2 Consensus size: 39
9894118 AGCACCTTCT
9894128 TTCA-GCACTCAAGGGTGCAATCCATGAAAATAAAGTGG
1 TTCATGCACTCAAGGGTGCAATCCATGAAAATAAAGTGG
*
9894166 TTCATGCACTCAAGTGTGCAATCCATGAAAATAAAGTGG
1 TTCATGCACTCAAGGGTGCAATCCATGAAAATAAAGTGG
9894205 TTCATGCA
1 TTCATGCA
9894213 TCTTGCTTGA
Statistics
Matches: 45, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
38 4 0.09
39 41 0.91
ACGTcount: A:0.35, C:0.19, G:0.21, T:0.25
Consensus pattern (39 bp):
TTCATGCACTCAAGGGTGCAATCCATGAAAATAAAGTGG
Found at i:9903589 original size:17 final size:16
Alignment explanation
Indices: 9903567--9903609 Score: 50
Period size: 17 Copynumber: 2.6 Consensus size: 16
9903557 TAATTTTGAA
*
9903567 TTATTATTATTTAAAAT
1 TTATTATTA-TAAAAAT
9903584 TTATTATTGATAAAAAT
1 TTATTATT-ATAAAAAT
*
9903601 ATATTATTA
1 TTATTATTA
9903610 ATATATTTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
16 1 0.04
17 21 0.91
18 1 0.04
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.53
Consensus pattern (16 bp):
TTATTATTATAAAAAT
Found at i:9905300 original size:20 final size:20
Alignment explanation
Indices: 9905256--9905303 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
9905246 TACTATATGA
* *
9905256 ACAATATCAATATTGTTATT
1 ACAATATCAATAATATTATT
* *
9905276 GCAATATCAATAATATTCTT
1 ACAATATCAATAATATTATT
9905296 ACAATATC
1 ACAATATC
9905304 GGTATTGCTA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.42, C:0.15, G:0.04, T:0.40
Consensus pattern (20 bp):
ACAATATCAATAATATTATT
Found at i:9909889 original size:12 final size:12
Alignment explanation
Indices: 9909872--9909898 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
9909862 AAGTTCTTTC
9909872 ATCATTTCATTT
1 ATCATTTCATTT
9909884 ATCATTTCATTT
1 ATCATTTCATTT
9909896 ATC
1 ATC
9909899 TTTTTATAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.26, C:0.19, G:0.00, T:0.56
Consensus pattern (12 bp):
ATCATTTCATTT
Found at i:9915701 original size:42 final size:43
Alignment explanation
Indices: 9915637--9915745 Score: 139
Period size: 42 Copynumber: 2.6 Consensus size: 43
9915627 AATGTTTTCC
* *
9915637 TCATTTTCCTGTATTTGATAGTTGCAAAATATTTTCCAAAAAA
1 TCATTTTCTTGTGTTTGATAGTTGCAAAATATTTTCCAAAAAA
* * * *
9915680 T-GTTTTCTTGTGTTTAATAGTTGGAAAATATTTTCTAAAAAA
1 TCATTTTCTTGTGTTTGATAGTTGCAAAATATTTTCCAAAAAA
* *
9915722 TCATTTCCTAGTGTTTGATAGTTG
1 TCATTTTCTTGTGTTTGATAGTTG
9915746 TAATTTGTTT
Statistics
Matches: 55, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
42 36 0.65
43 19 0.35
ACGTcount: A:0.30, C:0.10, G:0.14, T:0.46
Consensus pattern (43 bp):
TCATTTTCTTGTGTTTGATAGTTGCAAAATATTTTCCAAAAAA
Found at i:9916174 original size:19 final size:19
Alignment explanation
Indices: 9916102--9916165 Score: 92
Period size: 19 Copynumber: 3.3 Consensus size: 19
9916092 ATTATCAAAT
* *
9916102 TATTAATAATGATACATTTAA
1 TATTAAT-ATAATA-ATTTAG
9916123 TATTAATATAATAATTTAG
1 TATTAATATAATAATTTAG
9916142 TATTAATATAATAATTTAG
1 TATTAATATAATAATTTAG
9916161 TATTA
1 TATTA
9916166 TGTTAATAAA
Statistics
Matches: 41, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
19 29 0.71
20 5 0.12
21 7 0.17
ACGTcount: A:0.47, C:0.02, G:0.05, T:0.47
Consensus pattern (19 bp):
TATTAATATAATAATTTAG
Found at i:9917791 original size:11 final size:12
Alignment explanation
Indices: 9917776--9917808 Score: 50
Period size: 11 Copynumber: 2.8 Consensus size: 12
9917766 CCACGTCAAT
9917776 TACCACATCATA
1 TACCACATCATA
*
9917788 -ACCACGTCATA
1 TACCACATCATA
9917799 TACCACATCA
1 TACCACATCA
9917809 GCCGCTAATT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
11 10 0.56
12 8 0.44
ACGTcount: A:0.39, C:0.36, G:0.03, T:0.21
Consensus pattern (12 bp):
TACCACATCATA
Found at i:9921839 original size:14 final size:13
Alignment explanation
Indices: 9921801--9921842 Score: 57
Period size: 13 Copynumber: 3.2 Consensus size: 13
9921791 AAAATAAACG
* *
9921801 AACAAAAATAGCA
1 AACAAAAATTGAA
9921814 AACAAAAATTGAA
1 AACAAAAATTGAA
9921827 AACAAAAATTTGAA
1 AACAAAAA-TTGAA
9921841 AA
1 AA
9921843 TAAATTAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
13 19 0.73
14 7 0.27
ACGTcount: A:0.69, C:0.10, G:0.07, T:0.14
Consensus pattern (13 bp):
AACAAAAATTGAA
Found at i:9928302 original size:13 final size:13
Alignment explanation
Indices: 9928284--9928313 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
9928274 TAGAAAATAC
*
9928284 ATAATTCCTAAAG
1 ATAATTCCTAAAA
9928297 ATAATTCCTAAAA
1 ATAATTCCTAAAA
9928310 ATAA
1 ATAA
9928314 AAATAAAAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.53, C:0.13, G:0.03, T:0.30
Consensus pattern (13 bp):
ATAATTCCTAAAA
Found at i:9936734 original size:30 final size:31
Alignment explanation
Indices: 9936698--9936758 Score: 79
Period size: 30 Copynumber: 2.0 Consensus size: 31
9936688 ATAAAAATTT
** *
9936698 GGGGACCATTTTATAAATTTT-GAAAAGTTG
1 GGGGACCAGATTAGAAATTTTGGAAAAGTTG
*
9936728 GGGGACCAGATTGGAAATTTTGGAAAAGTTG
1 GGGGACCAGATTAGAAATTTTGGAAAAGTTG
9936759 TTGTTGGTCG
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
30 17 0.65
31 9 0.35
ACGTcount: A:0.33, C:0.07, G:0.30, T:0.31
Consensus pattern (31 bp):
GGGGACCAGATTAGAAATTTTGGAAAAGTTG
Found at i:9947076 original size:107 final size:107
Alignment explanation
Indices: 9946876--9947076 Score: 226
Period size: 107 Copynumber: 1.9 Consensus size: 107
9946866 AATAAATAAG
*
9946876 CCAAAAAATACATAACATGCAAGGAAAAGGAAAAATAATAGTTTCAATCCTCACAGATGATCAAA
1 CCAAAAAATACATAACATGCAAGGAAAAGGAAAAATAATAGTTTCAATCCTCACAGATGACCAAA
* * **
9946941 ATGAAAAAACACGCTAAAGTTAGAGGGACTAAACAGAATAGA
66 AGGAAAAAACACACTAAACCTAGAGGGACTAAACAGAATAGA
* * * ** *
9946983 CCAAAAATTATATAACATGCAAGGAAAAGGGAAAATAATAGATTT-GGTCCTTACA-AGTGACCA
1 CCAAAAAATACATAACATGCAAGGAAAAGGAAAAATAATAG-TTTCAATCCTCACAGA-TGACCA
* ** * *
9947046 AAAGGTAAAAACGTATTAAACCTAGGGGGAC
64 AAAGGAAAAAACACACTAAACCTAGAGGGAC
9947077 CTAAGCGTGA
Statistics
Matches: 76, Mismatches: 16, Indels: 4
0.79 0.17 0.04
Matches are distributed among these distances:
106 1 0.01
107 72 0.95
108 3 0.04
ACGTcount: A:0.49, C:0.14, G:0.18, T:0.18
Consensus pattern (107 bp):
CCAAAAAATACATAACATGCAAGGAAAAGGAAAAATAATAGTTTCAATCCTCACAGATGACCAAA
AGGAAAAAACACACTAAACCTAGAGGGACTAAACAGAATAGA
Found at i:9947913 original size:24 final size:25
Alignment explanation
Indices: 9947886--9947934 Score: 82
Period size: 25 Copynumber: 2.0 Consensus size: 25
9947876 CGGGTTTGTT
9947886 CTAGTTTGGG-TTTAAATTTGGGGC
1 CTAGTTTGGGTTTTAAATTTGGGGC
*
9947910 CTAGTTTGGGTTTTATATTTGGGGC
1 CTAGTTTGGGTTTTAAATTTGGGGC
9947935 TGTTTTAGGT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
24 10 0.43
25 13 0.57
ACGTcount: A:0.14, C:0.08, G:0.33, T:0.45
Consensus pattern (25 bp):
CTAGTTTGGGTTTTAAATTTGGGGC
Done.