Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008620.1 Hibiscus syriacus cultivar Beakdansim tig00111582_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: 13158977
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 49 of 64
Found at i:9882194 original size:21 final size:21
Alignment explanation
Indices: 9882167--9882217 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
9882157 AGCTGAAGTT
* *
9882167 ACTGTAGCAGTGCATCGGTAC
1 ACTGTAGCAGTACATCAGTAC
* *
9882188 GCTGTAGTAGTACATCAGTAC
1 ACTGTAGCAGTACATCAGTAC
9882209 ACTGTAGCA
1 ACTGTAGCA
9882218 CTGTTCACGG
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.27, C:0.22, G:0.25, T:0.25
Consensus pattern (21 bp):
ACTGTAGCAGTACATCAGTAC
Found at i:9887500 original size:11 final size:11
Alignment explanation
Indices: 9887469--9887510 Score: 66
Period size: 11 Copynumber: 3.6 Consensus size: 11
9887459 CTTGTAATTA
9887469 TTATTATATTTT
1 TTATT-TATTTT
9887481 TTATATTATTTT
1 TTAT-TTATTTT
9887493 TTATTTATTTT
1 TTATTTATTTT
9887504 TTATTTA
1 TTATTTA
9887511 ATAATAATAA
Statistics
Matches: 29, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
11 14 0.48
12 14 0.48
13 1 0.03
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (11 bp):
TTATTTATTTT
Found at i:9887517 original size:3 final size:3
Alignment explanation
Indices: 9887509--9887574 Score: 82
Period size: 3 Copynumber: 22.0 Consensus size: 3
9887499 ATTTTTTATT
*
9887509 TAA TAA TAA TAA TAA T-A TATA TAA TAA T-A TATA TAA TAA TTA TAA
1 TAA TAA TAA TAA TAA TAA TA-A TAA TAA TAA TA-A TAA TAA TAA TAA
*
9887554 TAA TAA TTA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA
9887575 AAATGGGTAA
Statistics
Matches: 55, Mismatches: 4, Indels: 8
0.82 0.06 0.12
Matches are distributed among these distances:
2 4 0.07
3 45 0.82
4 6 0.11
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (3 bp):
TAA
Found at i:9887941 original size:124 final size:117
Alignment explanation
Indices: 9887721--9887995 Score: 345
Period size: 124 Copynumber: 2.3 Consensus size: 117
9887711 ATTCTTCTCT
* * *
9887721 TTCTTCAGATGAGTTCTTCTCATTATGAACTTTTCGCTGGGGATGATGTTGACCTATTTTCTTCT
1 TTCTTCAGATGAGTTCTTCTCATTATGAAC-TTTCGCTGGGGATGATGCTAACCTATTCTCTTCT
* * * * *
9887786 GTGATAGAGTCATTCAAAAGGTTGAATAAGCTCTTCTCATTATGAACTTCTTC
65 ATAATAGAATCATGCAAAAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTC
* * *
9887839 TTTCTCCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAGGTTGATGCTAATCTA-TC
1 --T-T-CTTCAGATGAGTTCTTCTCATTATGAACTTTCGCTGG---GGATGATGCTAACCTATTC
* *
9887903 TCTTTCTATAATAGAATTATGCAAAAGGTTGAACAAGCTCTTCTCATTGTGAACTTCTTC
59 TC-TTCTATAATAGAATCATGCAAAAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTC
9887963 TTCTTCAGATGAGTTCTTCTCATTATGAACTTT
1 TTCTTCAGATGAGTTCTTCTCATTATGAACTTT
9887996 TTCTTCTTCA
Statistics
Matches: 136, Mismatches: 13, Indels: 12
0.84 0.08 0.07
Matches are distributed among these distances:
120 32 0.24
121 10 0.07
122 29 0.21
123 3 0.02
124 62 0.46
ACGTcount: A:0.24, C:0.19, G:0.16, T:0.42
Consensus pattern (117 bp):
TTCTTCAGATGAGTTCTTCTCATTATGAACTTTCGCTGGGGATGATGCTAACCTATTCTCTTCTA
TAATAGAATCATGCAAAAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTC
Found at i:9887981 original size:36 final size:36
Alignment explanation
Indices: 9887941--9888032 Score: 166
Period size: 36 Copynumber: 2.6 Consensus size: 36
9887931 TTGAACAAGC
*
9887941 TCTTCTCATTGTGAACTTCTTCTTCTTCAGATGAGT
1 TCTTCTCATTATGAACTTCTTCTTCTTCAGATGAGT
*
9887977 TCTTCTCATTATGAACTTTTTCTTCTTCAGATGAGT
1 TCTTCTCATTATGAACTTCTTCTTCTTCAGATGAGT
9888013 TCTTCTCATTATGAACTTCT
1 TCTTCTCATTATGAACTTCT
9888033 CTGGAAAAGC
Statistics
Matches: 53, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
36 53 1.00
ACGTcount: A:0.18, C:0.22, G:0.11, T:0.49
Consensus pattern (36 bp):
TCTTCTCATTATGAACTTCTTCTTCTTCAGATGAGT
Found at i:9888423 original size:113 final size:114
Alignment explanation
Indices: 9887976--9888447 Score: 577
Period size: 116 Copynumber: 4.2 Consensus size: 114
9887966 TTCAGATGAG
9887976 TTCTTCTCATTATGAAC-T-TT-TT-CTTCTTCAGAT-GAGTTCTTCTCATTATGAACT-T-CTC
1 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATAGAGTTCTTCTCATTATGAACTCTAC-C
* * * * * * ** *
9888034 TGGAAAAGCTGATCCATCAAGTGATGGATTTGAGTAAAAAGTTGAACAAA
65 TGGCAATGCTAATCCATCAAATGATGAATTTAAACAAAAGGTTGAACAAA
* *
9888084 TTCTTCTCATTATGAATTTCTTCTTTCTTCTTCAGATGACGAGTTCTTCTCATTATGAACTCTAC
1 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGAT-A-GAGTTCTTCTCATTATGAACTCTAC
*
9888149 CTGGCAATGTTAATCCATCAAATGATGAATTTAAACAAAAGGTAT-AACAAA
64 CTGGCAATGCTAATCCATCAAATGATGAATTTAAACAAAAGGT-TGAACAAA
*
9888200 TTCTTCTCATTATGAACTTCTTCTTCCCTCTTCAGATGACGAGTTCTTCTCATTATGAACTCTAC
1 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGAT-A-GAGTTCTTCTCATTATGAACTCTAC
* *
9888265 CTGGCAATGTTAATCCATCAAATAATGAATTTAAACAAAAGGTTGAACAAA
64 CTGGCAATGCTAATCCATCAAATGATGAATTTAAACAAAAGGTTGAACAAA
* * *
9888316 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGAT-GAGTTCTTCTTATTATGAACTCGAACT
1 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATAGAGTTCTTCTCATTATGAACTCTACCT
* * ** * * *
9888380 GGTAATGCTGATCCATTGAATGATGAATTCAAGCCAAAA-GTTGAACAAG
66 GGCAATGCTAATCCATCAAATGATGAATTTAA-ACAAAAGGTTGAACAAA
*
9888429 TTCTTCTTATTATGAACTT
1 TTCTTCTCATTATGAACTT
9888448 TTTTCTGGAA
Statistics
Matches: 323, Mismatches: 29, Indels: 19
0.87 0.08 0.05
Matches are distributed among these distances:
108 16 0.05
109 1 0.00
110 2 0.01
111 2 0.01
112 11 0.03
113 76 0.24
114 5 0.02
115 22 0.07
116 186 0.58
117 2 0.01
ACGTcount: A:0.30, C:0.19, G:0.13, T:0.38
Consensus pattern (114 bp):
TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATAGAGTTCTTCTCATTATGAACTCTACCT
GGCAATGCTAATCCATCAAATGATGAATTTAAACAAAAGGTTGAACAAA
Found at i:9889497 original size:115 final size:113
Alignment explanation
Indices: 9889168--9889481 Score: 479
Period size: 115 Copynumber: 2.7 Consensus size: 113
9889158 GATCATGCAG
* *
9889168 TTCATCTTT-TAATTCCAATGATTGGTTATGTGGTTCCTACCAAACCAGATCAGATAACTCAAAG
1 TTCATCTTTCAAATT-CAATGATTGGTT-TGTGGTTTCTACCAAACCAGATCAGATAACTCAAAG
9889232 AACACTTCCAGAAGATGCTATTGGGTCTTCTTATTTCTACTATGAGCACA
64 AACACTTCCAGAAGATGCTATTGGGTCTTCTTATTTCTACTATGAGCACA
* *
9889282 TTCATCTTTCAAA-TCTAATGATTGGTTTTTGGGGTTCATACCAAACCAGATCAGATAACTCAAA
1 TTCATCTTTCAAATTC-AATGATTGGTTTGT-GGTTTC-TACCAAACCAGATCAGATAACTCAAA
* *
9889346 GAACACTTCCAGAAGATGCTATTGGGTCTTCTTATTTCTACTATGATCATA
63 GAACACTTCCAGAAGATGCTATTGGGTCTTCTTATTTCTACTATGAGCACA
* *
9889397 TTTATCTTTCAAATTCAATGATTGGTTCTGTGGTTTCTACCGAACCAGATCAGATAACTCAAAGA
1 TTCATCTTTCAAATTCAATGATTGGTT-TGTGGTTTCTACCAAACCAGATCAGATAACTCAAAGA
*
9889462 ACAGTTCCAGAAGATGCTAT
65 ACACTTCCAGAAGATGCTAT
9889482 GAGCACATTC
Statistics
Matches: 183, Mismatches: 11, Indels: 12
0.89 0.05 0.06
Matches are distributed among these distances:
113 3 0.02
114 71 0.39
115 105 0.57
116 4 0.02
ACGTcount: A:0.31, C:0.20, G:0.15, T:0.34
Consensus pattern (113 bp):
TTCATCTTTCAAATTCAATGATTGGTTTGTGGTTTCTACCAAACCAGATCAGATAACTCAAAGAA
CACTTCCAGAAGATGCTATTGGGTCTTCTTATTTCTACTATGAGCACA
Found at i:9889549 original size:93 final size:93
Alignment explanation
Indices: 9889439--9889675 Score: 429
Period size: 93 Copynumber: 2.5 Consensus size: 93
9889429 GTTTCTACCG
*
9889439 AACCAGATCAGATAACTCAAAGAACAGTTCCAGAAGATGCTATGAGCACATTCATATTTAAAATC
1 AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATATTTAAAATC
**
9889504 CAATGATTGGTTTTTGGGGTTCATATCA
66 CAATGATTGGTTTTCAGGGTTCATATCA
* *
9889532 AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTTCAAATC
1 AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATATTTAAAATC
9889597 CAATGATTGGTTTTCAGGGTTCATATCA
66 CAATGATTGGTTTTCAGGGTTCATATCA
9889625 AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACAT
1 AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACAT
9889676 GGCACTTGTT
Statistics
Matches: 139, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
93 139 1.00
ACGTcount: A:0.38, C:0.20, G:0.16, T:0.26
Consensus pattern (93 bp):
AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATATTTAAAATC
CAATGATTGGTTTTCAGGGTTCATATCA
Found at i:9892741 original size:29 final size:29
Alignment explanation
Indices: 9892703--9892761 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
9892693 TCTTCCTGTC
9892703 AAAGCTGGTGATTCCATTAAGAATTTCAA
1 AAAGCTGGTGATTCCATTAAGAATTTCAA
9892732 AAAGCTGGTGATTCCATTAAGAATTTCAA
1 AAAGCTGGTGATTCCATTAAGAATTTCAA
9892761 A
1 A
9892762 GGATCAAGTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.39, C:0.14, G:0.17, T:0.31
Consensus pattern (29 bp):
AAAGCTGGTGATTCCATTAAGAATTTCAA
Found at i:9895894 original size:54 final size:55
Alignment explanation
Indices: 9895790--9895898 Score: 211
Period size: 54 Copynumber: 2.0 Consensus size: 55
9895780 GAAGCATTGG
9895790 ATGTTTCGGGAGAGTAACATCTCCCACTTCTTGTAAAGAATCCGACTTCACTCAC
1 ATGTTTCGGGAGAGTAACATCTCCCACTTCTTGTAAAGAATCCGACTTCACTCAC
9895845 ATGTTTCGGGAGAGTAACATCTCCC-CTTCTTGTAAAGAATCCGACTTCACTCAC
1 ATGTTTCGGGAGAGTAACATCTCCCACTTCTTGTAAAGAATCCGACTTCACTCAC
9895899 TGCTTCAGAC
Statistics
Matches: 54, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
54 29 0.54
55 25 0.46
ACGTcount: A:0.27, C:0.28, G:0.17, T:0.29
Consensus pattern (55 bp):
ATGTTTCGGGAGAGTAACATCTCCCACTTCTTGTAAAGAATCCGACTTCACTCAC
Found at i:9898006 original size:15 final size:15
Alignment explanation
Indices: 9897983--9898014 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
9897973 TGAAATGAAT
9897983 AATGAATGTATGCAA
1 AATGAATGTATGCAA
*
9897998 AATGTATGTATGCAA
1 AATGAATGTATGCAA
9898013 AA
1 AA
9898015 AGGTATTGAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.47, C:0.06, G:0.19, T:0.28
Consensus pattern (15 bp):
AATGAATGTATGCAA
Found at i:9901850 original size:22 final size:20
Alignment explanation
Indices: 9901804--9901851 Score: 53
Period size: 22 Copynumber: 2.4 Consensus size: 20
9901794 ATGAGAAAAA
9901804 AGAAA-AAAAATTATATATT
1 AGAAATAAAAATTATATATT
* *
9901823 ATAAATAAAATATTATTTAGTT
1 AGAAATAAAA-ATTATATA-TT
9901845 AGAAATA
1 AGAAATA
9901852 TCATAAATAA
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
19 4 0.17
20 4 0.17
21 7 0.30
22 8 0.35
ACGTcount: A:0.58, C:0.00, G:0.06, T:0.35
Consensus pattern (20 bp):
AGAAATAAAAATTATATATT
Found at i:9901878 original size:91 final size:95
Alignment explanation
Indices: 9901768--9901954 Score: 321
Period size: 91 Copynumber: 2.0 Consensus size: 95
9901758 TATTTTAATT
9901768 ATAATCCTTATTTCAAAATTATAATTATGAGAAAAAAG-AAAAAAAA-T-TATATA-TTATAAAT
1 ATAATCCTTATTTCAAAATTATAATTATGAGAAAAAAGAAAAAAAAATTATATATATTTATAAAT
9901829 AAAATA-TTATTTAGTTAGAAATATCATAA
66 AAAATATTTATTTAGTTAGAAATATCATAA
*
9901858 ATAATCCTATTTTTCAAAATTATAATTATGAGAAAAAAGAAAAAAAAATTATATATATTTATAAA
1 ATAATCCT-TATTTCAAAATTATAATTATGAGAAAAAAGAAAAAAAAATTATATATATTTATAAA
9901923 TAAAATATTTATTTAGTTAGAAATATCATAA
65 TAAAATATTTATTTAGTTAGAAATATCATAA
9901954 A
1 A
9901955 AGGACTTCTA
Statistics
Matches: 90, Mismatches: 1, Indels: 6
0.93 0.01 0.06
Matches are distributed among these distances:
90 8 0.09
91 29 0.32
92 8 0.09
93 1 0.01
94 6 0.07
95 14 0.16
96 24 0.27
ACGTcount: A:0.54, C:0.04, G:0.05, T:0.36
Consensus pattern (95 bp):
ATAATCCTTATTTCAAAATTATAATTATGAGAAAAAAGAAAAAAAAATTATATATATTTATAAAT
AAAATATTTATTTAGTTAGAAATATCATAA
Found at i:9903321 original size:11 final size:11
Alignment explanation
Indices: 9903290--9903327 Score: 58
Period size: 12 Copynumber: 3.3 Consensus size: 11
9903280 CTTGTAATTA
9903290 TTATTATATTTT
1 TTATT-TATTTT
9903302 TTATGTTATTTT
1 TTAT-TTATTTT
9903314 TTATTTATTTT
1 TTATTTATTTT
9903325 TTA
1 TTA
9903328 ATTAATAATA
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
11 10 0.40
12 14 0.56
13 1 0.04
ACGTcount: A:0.21, C:0.00, G:0.03, T:0.76
Consensus pattern (11 bp):
TTATTTATTTT
Found at i:9903338 original size:3 final size:3
Alignment explanation
Indices: 9903330--9903383 Score: 74
Period size: 3 Copynumber: 18.0 Consensus size: 3
9903320 ATTTTTTAAT
* *
9903330 TAA TAA TAA TAA TAA T-A TATA TAA TAA TTA TAA TAA TAA TTA TAA
1 TAA TAA TAA TAA TAA TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA
9903375 TAA TAA TAA
1 TAA TAA TAA
9903384 AATTGGGTAA
Statistics
Matches: 45, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
2 2 0.04
3 40 0.89
4 3 0.07
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (3 bp):
TAA
Found at i:9909095 original size:2 final size:2
Alignment explanation
Indices: 9909088--9909132 Score: 90
Period size: 2 Copynumber: 22.5 Consensus size: 2
9909078 ATATCTTTAA
9909088 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
9909130 AT A
1 AT A
9909133 ACAAGCACAT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:9910743 original size:15 final size:16
Alignment explanation
Indices: 9910723--9910752 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
9910713 AATTAGGCCC
9910723 AATTTGGG-CTTGTAT
1 AATTTGGGCCTTGTAT
9910738 AATTTGGGCCTTGTA
1 AATTTGGGCCTTGTA
9910753 ACCTGAAAAC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.20, C:0.10, G:0.27, T:0.43
Consensus pattern (16 bp):
AATTTGGGCCTTGTAT
Found at i:9910772 original size:3 final size:3
Alignment explanation
Indices: 9910764--9910829 Score: 116
Period size: 3 Copynumber: 22.3 Consensus size: 3
9910754 CCTGAAAACA
9910764 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA-
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
*
9910811 ATT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT A
9910830 TAAAGCGTTT
Statistics
Matches: 60, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
2 1 0.02
3 59 0.98
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:9911364 original size:174 final size:174
Alignment explanation
Indices: 9911025--9911365 Score: 524
Period size: 174 Copynumber: 2.0 Consensus size: 174
9911015 AAGACTTACC
9911025 AATTTTGGAAATAGTTTACTAGGTAAGAAACTTTGAAAATTGCTTTCTTACTTTTCAAAAATTTC
1 AATTTTGGAAATAGTTTACTAGGTAAGAAACTTTGAAAATTGCTTTCTTACTTTTCAAAAATTTC
** **
9911090 ATTTTCTGAAAATACTAAATGAGAAACTTTGAAAATTGCTTTCTCATTTTTCGAAAATCATGTGA
66 ATTTTCTGAAAATACTAAATGAGAAACTTTGAAAACCGCTTTCTCATTTTTAAAAAATCATGTGA
*** *
9911155 AACATCCTACTGGAAGGTCTTATAGATAACCCAAAGGACGTATA
131 AACATCCTACCCAAAGGTCATATAGATAACCCAAAGGACGTATA
* * *
9911199 AATTTTGGAAATAGTTTACTAGGTTAA-AAACTTTGGAAATTGTTTTCTTACTTTTCAAAATTTT
1 AATTTTGGAAATAGTTTACTAGG-TAAGAAACTTTGAAAATTGCTTTCTTACTTTTCAAAAATTT
9911263 CATTTTCTGAAAATACTAAATGAGAAACTTTGAAAACCGCTTTCTCA-TTTTAAAAAATCATGTG
65 CATTTTCTGAAAATACTAAATGAGAAACTTTGAAAACCGCTTTCTCATTTTTAAAAAATCATGTG
* * *
9911327 AAAACATCCTGCCCAAAGGTCATATGGATAGCCCAAAGG
130 -AAACATCCTACCCAAAGGTCATATAGATAACCCAAAGG
9911366 CTTACAGATG
Statistics
Matches: 151, Mismatches: 14, Indels: 4
0.89 0.08 0.02
Matches are distributed among these distances:
173 15 0.10
174 133 0.88
175 3 0.02
ACGTcount: A:0.37, C:0.14, G:0.14, T:0.35
Consensus pattern (174 bp):
AATTTTGGAAATAGTTTACTAGGTAAGAAACTTTGAAAATTGCTTTCTTACTTTTCAAAAATTTC
ATTTTCTGAAAATACTAAATGAGAAACTTTGAAAACCGCTTTCTCATTTTTAAAAAATCATGTGA
AACATCCTACCCAAAGGTCATATAGATAACCCAAAGGACGTATA
Found at i:9912395 original size:2 final size:2
Alignment explanation
Indices: 9912388--9912426 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
9912378 CACATTACAT
9912388 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
9912427 TACAAACCCA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:9912890 original size:2 final size:2
Alignment explanation
Indices: 9912885--9912924 Score: 53
Period size: 2 Copynumber: 20.0 Consensus size: 2
9912875 TTGTTTCAAA
* * *
9912885 AT AT AT AT AT AT AT AT AT AT AT AT AT TT AT TT AT TT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
9912925 TTAGAAAAAA
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.57
Consensus pattern (2 bp):
AT
Found at i:9915889 original size:31 final size:31
Alignment explanation
Indices: 9915851--9915958 Score: 180
Period size: 31 Copynumber: 3.5 Consensus size: 31
9915841 AAGAAATGAA
* *
9915851 AGTTTAGGTACTAAAATGAACTAAAATTGAT
1 AGTTTAGGTACTAAAACGAACTAAAACTGAT
*
9915882 AGTTTAGGTATTAAAACGAACTAAAACTGAT
1 AGTTTAGGTACTAAAACGAACTAAAACTGAT
*
9915913 AGTTTAGGTACTAAAACAAACTAAAACTGAT
1 AGTTTAGGTACTAAAACGAACTAAAACTGAT
9915944 AGTTTAGGTACTAAA
1 AGTTTAGGTACTAAA
9915959 CGTATAGTTT
Statistics
Matches: 72, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 72 1.00
ACGTcount: A:0.45, C:0.09, G:0.16, T:0.30
Consensus pattern (31 bp):
AGTTTAGGTACTAAAACGAACTAAAACTGAT
Found at i:9918647 original size:12 final size:12
Alignment explanation
Indices: 9918629--9918664 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
9918619 CTTTTTTGAT
9918629 CTCTGATTTCTG
1 CTCTGATTTCTG
* *
9918641 TTCTGATCTCTG
1 CTCTGATTTCTG
9918653 CTCTGATTTCTG
1 CTCTGATTTCTG
9918665 ATATCTCTAT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.08, C:0.25, G:0.17, T:0.50
Consensus pattern (12 bp):
CTCTGATTTCTG
Found at i:9918649 original size:19 final size:19
Alignment explanation
Indices: 9918586--9918652 Score: 62
Period size: 19 Copynumber: 3.5 Consensus size: 19
9918576 AAAATACAGA
* *
9918586 CTGACCTCTGATTTCTGCT
1 CTGATCTCTGATTTCTGTT
* * * * *
9918605 CTGAACTTTAATATCTTTT
1 CTGATCTCTGATTTCTGTT
*
9918624 TTGATCTCTGATTTCTGTT
1 CTGATCTCTGATTTCTGTT
9918643 CTGATCTCTG
1 CTGATCTCTG
9918653 CTCTGATTTC
Statistics
Matches: 35, Mismatches: 13, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
19 35 1.00
ACGTcount: A:0.15, C:0.22, G:0.13, T:0.49
Consensus pattern (19 bp):
CTGATCTCTGATTTCTGTT
Found at i:9923198 original size:20 final size:21
Alignment explanation
Indices: 9923164--9923209 Score: 76
Period size: 20 Copynumber: 2.2 Consensus size: 21
9923154 CACTCTGGAT
*
9923164 TTTAGGTTATAAAATTTATAG
1 TTTAGGTTATAAAATTTAGAG
9923185 TTTAGGTT-TAAAATTTAGAG
1 TTTAGGTTATAAAATTTAGAG
9923205 TTTAG
1 TTTAG
9923210 AGTGTAGAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
20 16 0.67
21 8 0.33
ACGTcount: A:0.35, C:0.00, G:0.17, T:0.48
Consensus pattern (21 bp):
TTTAGGTTATAAAATTTAGAG
Found at i:9927213 original size:17 final size:17
Alignment explanation
Indices: 9927191--9927230 Score: 57
Period size: 17 Copynumber: 2.4 Consensus size: 17
9927181 AAAAAAATTA
9927191 TATATTTTA-GCTTGATT
1 TATATTTTAGGC-TGATT
9927208 TATATTTTAGGCTGATT
1 TATATTTTAGGCTGATT
9927225 TA-ATTT
1 TATATTT
9927231 GTGTTTATTT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
16 4 0.18
17 16 0.73
18 2 0.09
ACGTcount: A:0.25, C:0.05, G:0.12, T:0.57
Consensus pattern (17 bp):
TATATTTTAGGCTGATT
Found at i:9930825 original size:2 final size:2
Alignment explanation
Indices: 9930818--9930902 Score: 170
Period size: 2 Copynumber: 42.5 Consensus size: 2
9930808 CATACCGAAA
9930818 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
9930860 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
9930902 A
1 A
9930903 ACATCATATG
Statistics
Matches: 83, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 83 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:9933640 original size:19 final size:21
Alignment explanation
Indices: 9933606--9933646 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
9933596 TTGAAGCTGA
9933606 AGCGAGAGAAACATAGAGAGC
1 AGCGAGAGAAACATAGAGAGC
* *
9933627 AGCGAGAGAAATAGAGAGAG
1 AGCGAGAGAAACATAGAGAG
9933647 AAGCAACATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.49, C:0.10, G:0.37, T:0.05
Consensus pattern (21 bp):
AGCGAGAGAAACATAGAGAGC
Found at i:9947387 original size:19 final size:19
Alignment explanation
Indices: 9947365--9947406 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
9947355 CTTTGAAATT
* *
9947365 TGATATATGTTTTGATCTC
1 TGATATATGTTATGAGCTC
*
9947384 TGATTTATGTTATGAGCTC
1 TGATATATGTTATGAGCTC
9947403 TGAT
1 TGAT
9947407 CTCTACTCTG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.21, C:0.10, G:0.19, T:0.50
Consensus pattern (19 bp):
TGATATATGTTATGAGCTC
Found at i:9949427 original size:20 final size:21
Alignment explanation
Indices: 9949391--9949438 Score: 80
Period size: 20 Copynumber: 2.3 Consensus size: 21
9949381 GACACTCTGG
9949391 AGTTTAGGTTATAAAATTTAC
1 AGTTTAGGTTATAAAATTTAC
*
9949412 AGTTTAGGTT-TAAAATTTAG
1 AGTTTAGGTTATAAAATTTAC
9949432 AGTTTAG
1 AGTTTAG
9949439 AGTGTAGAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
20 16 0.62
21 10 0.38
ACGTcount: A:0.35, C:0.02, G:0.19, T:0.44
Consensus pattern (21 bp):
AGTTTAGGTTATAAAATTTAC
Found at i:9950152 original size:3 final size:3
Alignment explanation
Indices: 9950144--9950211 Score: 100
Period size: 3 Copynumber: 22.0 Consensus size: 3
9950134 TCATTTAATT
**
9950144 TTA TTA TTA TTA TTA AAA 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
9950192 TTA TTA TATA TTA TTTA TTA
1 TTA TTA T-TA TTA -TTA TTA
9950212 AATATTACAA
Statistics
Matches: 59, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
3 53 0.90
4 6 0.10
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (3 bp):
TTA
Found at i:9954554 original size:7 final size:7
Alignment explanation
Indices: 9954519--9954559 Score: 57
Period size: 7 Copynumber: 5.9 Consensus size: 7
9954509 TTTTCATATA
9954519 TGCATTT
1 TGCATTT
9954526 T-CATTT
1 TGCATTT
9954532 TGCATCTT
1 TGCAT-TT
9954540 TGCATTT
1 TGCATTT
*
9954547 TTCATTT
1 TGCATTT
9954554 TGCATT
1 TGCATT
9954560 CATACTTTTA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
6 6 0.20
7 17 0.57
8 7 0.23
ACGTcount: A:0.15, C:0.17, G:0.10, T:0.59
Consensus pattern (7 bp):
TGCATTT
Found at i:9959766 original size:114 final size:114
Alignment explanation
Indices: 9959613--9959832 Score: 354
Period size: 114 Copynumber: 1.9 Consensus size: 114
9959603 CATGTTCTCG
* *
9959613 TAGTAGAAATAAGGAGCCCTAATAACATCTTCTTGAAGTGTTCTTTGAGTTATCTGATCTGGTTT
1 TAGTAGAAATAAGGAGCCCTAATAACATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTC
* *
9959678 GGTATG-AACCCCAAAACCAATCATTGGATTTGAAATATGAATTTGCTTA
66 GGTA-GAAACCCCAAAACCAATCATTGGAATTGAAAGATGAATTTGCTTA
*
9959727 TAGTAGAAATAAGGAGACCCT-ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTT
1 TAGTAGAAATAAGGAG-CCCTAATAACATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTT
*
9959791 CGGTAGAAACCCCAGAACCAATCATTGGAATTGAAAGATGAA
65 CGGTAGAAACCCCAAAACCAATCATTGGAATTGAAAGATGAA
9959833 CTGCATGATC
Statistics
Matches: 98, Mismatches: 6, Indels: 4
0.91 0.06 0.04
Matches are distributed among these distances:
113 1 0.01
114 93 0.95
115 4 0.04
ACGTcount: A:0.32, C:0.15, G:0.20, T:0.32
Consensus pattern (114 bp):
TAGTAGAAATAAGGAGCCCTAATAACATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTC
GGTAGAAACCCCAAAACCAATCATTGGAATTGAAAGATGAATTTGCTTA
Found at i:9961768 original size:40 final size:40
Alignment explanation
Indices: 9961713--9961792 Score: 160
Period size: 40 Copynumber: 2.0 Consensus size: 40
9961703 TGAGCAGAAG
9961713 CCACAGAAAAGGATGAATGTGTTGTCAAGTGTTTTACATC
1 CCACAGAAAAGGATGAATGTGTTGTCAAGTGTTTTACATC
9961753 CCACAGAAAAGGATGAATGTGTTGTCAAGTGTTTTACATC
1 CCACAGAAAAGGATGAATGTGTTGTCAAGTGTTTTACATC
9961793 AGAGCTAAAA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.33, C:0.15, G:0.23, T:0.30
Consensus pattern (40 bp):
CCACAGAAAAGGATGAATGTGTTGTCAAGTGTTTTACATC
Found at i:9963202 original size:45 final size:45
Alignment explanation
Indices: 9963153--9963266 Score: 210
Period size: 45 Copynumber: 2.5 Consensus size: 45
9963143 GGGAGCTTTT
9963153 TGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGCCCTTCAGTGCA
1 TGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGCCCTTCAGTGCA
9963198 TGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGCCCTTCAGTGCA
1 TGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGCCCTTCAGTGCA
9963243 TGATGTTTTCAAAAAGCCTTCGGG
1 TGATGTTTTC--AAAGCCTTCGGG
9963267 AGCTTTTTGA
Statistics
Matches: 67, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
45 55 0.82
47 12 0.18
ACGTcount: A:0.21, C:0.23, G:0.23, T:0.33
Consensus pattern (45 bp):
TGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGCCCTTCAGTGCA
Found at i:9963283 original size:76 final size:76
Alignment explanation
Indices: 9963198--9963408 Score: 386
Period size: 76 Copynumber: 2.8 Consensus size: 76
9963188 CTTCAGTGCA
9963198 TGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAAAGCCTT
1 TGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAAAGCCTT
*
9963263 CGGGAGCTTTT
66 CGAGAGCTTTT
* *
9963274 TGATATTTTCAAAGCCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAAATCCTT
1 TGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAAAGCCTT
9963339 CGAGAGCTTTT
66 CGAGAGCTTTT
*
9963350 TGATGTTTTCAAAGCCTTTGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAA
1 TGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAA
9963409 CCTTAGGGTC
Statistics
Matches: 130, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
76 130 1.00
ACGTcount: A:0.23, C:0.20, G:0.20, T:0.36
Consensus pattern (76 bp):
TGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAAAGCCTT
CGAGAGCTTTT
Found at i:9963318 original size:121 final size:121
Alignment explanation
Indices: 9963104--9963331 Score: 429
Period size: 121 Copynumber: 1.9 Consensus size: 121
9963094 TTCCCACATT
* * *
9963104 TGTAAGTCCTTTAGTGCATGATGTTTTCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCC
1 TGTAAGCCCTTCAGTGCATGATGTTTTCAAAAAGCCTTCGGGAGCTTTTTGATATTTTCAAAGCC
9963169 TTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAGCCTTCGGGTCATC
66 TTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAGCCTTCGGGTCATC
9963225 TGTAAGCCCTTCAGTGCATGATGTTTTCAAAAAGCCTTCGGGAGCTTTTTGATATTTTCAAAGCC
1 TGTAAGCCCTTCAGTGCATGATGTTTTCAAAAAGCCTTCGGGAGCTTTTTGATATTTTCAAAGCC
9963290 TTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAA
66 TTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAA
9963332 AATCCTTCGA
Statistics
Matches: 104, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
121 104 1.00
ACGTcount: A:0.22, C:0.21, G:0.21, T:0.36
Consensus pattern (121 bp):
TGTAAGCCCTTCAGTGCATGATGTTTTCAAAAAGCCTTCGGGAGCTTTTTGATATTTTCAAAGCC
TTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAGCCTTCGGGTCATC
Found at i:9963403 original size:45 final size:45
Alignment explanation
Indices: 9963350--9963453 Score: 165
Period size: 45 Copynumber: 2.3 Consensus size: 45
9963340 GAGAGCTTTT
* *
9963350 TGATGTTTTCAAAGCCTTTGGGTCATCTGTAAGCCCT-TCAGTGCA
1 TGATGTTTTCAAAACCTTAGGGTCATCTGTAAGCCCTGT-AGTGCA
*
9963395 TGATGTTTTCAAAACCTTAGGGTCATCTGTAAGTCCTGTAGTGCA
1 TGATGTTTTCAAAACCTTAGGGTCATCTGTAAGCCCTGTAGTGCA
9963440 TGATGTTTTCAAAA
1 TGATGTTTTCAAAA
9963454 AGCCTTCGGG
Statistics
Matches: 55, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
45 54 0.98
46 1 0.02
ACGTcount: A:0.24, C:0.18, G:0.21, T:0.37
Consensus pattern (45 bp):
TGATGTTTTCAAAACCTTAGGGTCATCTGTAAGCCCTGTAGTGCA
Found at i:9963404 original size:121 final size:121
Alignment explanation
Indices: 9963274--9963529 Score: 388
Period size: 121 Copynumber: 2.1 Consensus size: 121
9963264 GGGAGCTTTT
* * * *
9963274 TGATATTTTCAAAGCCTTCGGGTCATCTGTAAGCCCT-TCAGTGCATGATGTTTTCAAAAATCCT
1 TGATGTTTTCAAAACCTTAGGGTCATCTGTAAGCCCTGT-AGTGCATGATGTTTTCAAAAAGCCT
* * * * *
9963338 TCGAGAGCTTTTTGATGTTTTCAAAGCCTTTGGGTCATCTGTAAGCCCTTCAGTGCA
65 TCGAGAGCTTTTTGATATTTTCAAAACCTTCGGGTCATCCGTAAGCCCTACAGTGCA
*
9963395 TGATGTTTTCAAAACCTTAGGGTCATCTGTAAGTCCTGTAGTGCATGATGTTTTCAAAAAGCCTT
1 TGATGTTTTCAAAACCTTAGGGTCATCTGTAAGCCCTGTAGTGCATGATGTTTTCAAAAAGCCTT
*
9963460 CGGGAGCTTTTTGATATTTTCAAAACCTTCGGGTCATCCGTAAGCCCTACAGTGCA
66 CGAGAGCTTTTTGATATTTTCAAAACCTTCGGGTCATCCGTAAGCCCTACAGTGCA
*
9963516 GGATGTTTTCAAAA
1 TGATGTTTTCAAAA
9963530 AGTCTTCAAG
Statistics
Matches: 122, Mismatches: 12, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
121 121 0.99
122 1 0.01
ACGTcount: A:0.24, C:0.20, G:0.20, T:0.35
Consensus pattern (121 bp):
TGATGTTTTCAAAACCTTAGGGTCATCTGTAAGCCCTGTAGTGCATGATGTTTTCAAAAAGCCTT
CGAGAGCTTTTTGATATTTTCAAAACCTTCGGGTCATCCGTAAGCCCTACAGTGCA
Found at i:9963451 original size:197 final size:197
Alignment explanation
Indices: 9963104--9963605 Score: 819
Period size: 197 Copynumber: 2.5 Consensus size: 197
9963094 TTCCCACATT
* * * *
9963104 TGTAAGTCCTTTAGTGCATGATGTTTTCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCC
1 TGTAAGCCCTTCAGTGCATGATGTTTTCAAAAATCCTTCGAGAGCTTTTTGATGTTTTCAAAGCC
* * *
9963169 TTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGCCC
66 TTAGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTAGGGTCATCTGTAAGCCC
*
9963234 TTCAGTGCATGATGTTTTCAAAAAGCCTTCGGGAGCTTTTTGATATTTTCAAAGCCTTCGGGTCA
131 TTCAGTGCATGATGTTTTCAAAAAGCCTTCGGGAGCTTTTTGATATTTTCAAAACCTTCGGGTCA
9963299 TC
196 TC
9963301 TGTAAGCCCTTCAGTGCATGATGTTTTCAAAAATCCTTCGAGAGCTTTTTGATGTTTTCAAAGCC
1 TGTAAGCCCTTCAGTGCATGATGTTTTCAAAAATCCTTCGAGAGCTTTTTGATGTTTTCAAAGCC
* *
9963366 TTTGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTAGGGTCATCTGTAAGTCC
66 TTAGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTAGGGTCATCTGTAAGCCC
9963431 TGT-AGTGCATGATGTTTTCAAAAAGCCTTCGGGAGCTTTTTGATATTTTCAAAACCTTCGGGTC
131 T-TCAGTGCATGATGTTTTCAAAAAGCCTTCGGGAGCTTTTTGATATTTTCAAAACCTTCGGGTC
9963495 ATC
195 ATC
* * * *
9963498 CGTAAGCCCTACAGTGCAGGATGTTTTCAAAAAGT-CTTCAAGAGCTTTTTGATGTTTTCAAAGC
1 TGTAAGCCCTTCAGTGCATGATGTTTTCAAAAA-TCCTTCGAGAGCTTTTTGATGTTTTCAAAGC
* * *
9963562 CTTAGGGTCATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAA
65 CTTAGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAA
9963606 AGCCTTCGGG
Statistics
Matches: 286, Mismatches: 17, Indels: 4
0.93 0.06 0.01
Matches are distributed among these distances:
197 284 0.99
198 2 0.01
ACGTcount: A:0.24, C:0.20, G:0.21, T:0.35
Consensus pattern (197 bp):
TGTAAGCCCTTCAGTGCATGATGTTTTCAAAAATCCTTCGAGAGCTTTTTGATGTTTTCAAAGCC
TTAGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTAGGGTCATCTGTAAGCCC
TTCAGTGCATGATGTTTTCAAAAAGCCTTCGGGAGCTTTTTGATATTTTCAAAACCTTCGGGTCA
TC
Found at i:9963480 original size:76 final size:76
Alignment explanation
Indices: 9963395--9963690 Score: 450
Period size: 76 Copynumber: 3.9 Consensus size: 76
9963385 CTTCAGTGCA
**
9963395 TGATGTTTTCAAAACCTTAGGGTCATCTGTAAGTCCTGTAGTGCATGATGTTTTCAAAAAGCCTT
1 TGATGTTTTCAAAACCTTAGGGTCATCTGTAAGTCCTACAGTGCATGATGTTTTCAAAAAGCCTT
9963460 CGGGAGCTTTT
66 CGGGAGCTTTT
* * * * * *
9963471 TGATATTTTCAAAACCTTCGGGTCATCCGTAAGCCCTACAGTGCAGGATGTTTTCAAAAAGTCTT
1 TGATGTTTTCAAAACCTTAGGGTCATCTGTAAGTCCTACAGTGCATGATGTTTTCAAAAAGCCTT
**
9963536 CAAGAGCTTTT
66 CGGGAGCTTTT
* *
9963547 TGATGTTTTCAAAGCCTTAGGGTCATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTT
1 TGATGTTTTCAAAACCTTAGGGTCATCTGTAAGTCCTACAGTGCATGATGTTTTCAAAAAGCCTT
9963612 CGGGAGCTTTT
66 CGGGAGCTTTT
* **
9963623 TGATGTTTTCAAAGCCTTAGGGTCATCTGTAAGTCCTTTAGTGCATGATGTTTTCAAAAA-CCTT
1 TGATGTTTTCAAAACCTTAGGGTCATCTGTAAGTCCTACAGTGCATGATGTTTTCAAAAAGCCTT
9963687 CGGG
66 CGGG
9963691 TCATCTGTAA
Statistics
Matches: 197, Mismatches: 23, Indels: 1
0.89 0.10 0.00
Matches are distributed among these distances:
75 8 0.04
76 189 0.96
ACGTcount: A:0.25, C:0.19, G:0.21, T:0.35
Consensus pattern (76 bp):
TGATGTTTTCAAAACCTTAGGGTCATCTGTAAGTCCTACAGTGCATGATGTTTTCAAAAAGCCTT
CGGGAGCTTTT
Found at i:9963621 original size:273 final size:272
Alignment explanation
Indices: 9963198--9963734 Score: 862
Period size: 273 Copynumber: 2.0 Consensus size: 272
9963188 CTTCAGTGCA
* * * * *
9963198 TGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAAAGCCTT
1 TGATATTTTCAAAACCTTCGGGTCATCCGTAAGCCCTACAGTGCAGGATGTTTTCAAAAAGCCTT
** * * *
9963263 CGGGAGCTTTTTGATATTTTCAAAGCCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTT
66 CAAGAGCTTTTTGATATTTTCAAAGCCTTAGGGTCATCTGTAAGCCCTACAGTGCATGATGTTTC
* *
9963328 CAAAAATCCTTCGAGAGCTTTTTGATGTTTTCAAAGCCTTTGGGTCATCTGTAAGCCCTTCAGTG
131 CAAAAAGCCTTCGAGAGCTTTTTGATGTTTTCAAAGCCTTAGGGTCATCTGTAAGCCCTTCAGTG
9963393 CATGATGTTTTC-AAAACCTTAGGGTCATCTGTAAGTCCTGT-AGTGCATGATGTTTTCAAAAAG
196 CATGATGTTTTCAAAAACCTTAGGGTCATCTGTAAGTCCT-TCAGTGCATGATGTTTTC-AAAA-
9963456 CCTTCGGGAGCTTTT
258 CCTTCGGGAGCTTTT
*
9963471 TGATATTTTCAAAACCTTCGGGTCATCCGTAAGCCCTACAGTGCAGGATGTTTTCAAAAAGTCTT
1 TGATATTTTCAAAACCTTCGGGTCATCCGTAAGCCCTACAGTGCAGGATGTTTTCAAAAAGCCTT
* *
9963536 CAAGAGCTTTTTGATGTTTTCAAAGCCTTAGGGTCATCTGTAAGTCCTACAGTGCATGATGTTTC
66 CAAGAGCTTTTTGATATTTTCAAAGCCTTAGGGTCATCTGTAAGCCCTACAGTGCATGATGTTTC
* * *
9963601 CAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCCTTAGGGTCATCTGTAAGTCCTTTAGTG
131 CAAAAAGCCTTCGAGAGCTTTTTGATGTTTTCAAAGCCTTAGGGTCATCTGTAAGCCCTTCAGTG
*
9963666 CATGATGTTTTCAAAAACCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTTCAAAACCT
196 CATGATGTTTTCAAAAACCTTAGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTTCAAAACCT
9963731 TCGG
261 TCGG
9963735 ATCTTTTGTA
Statistics
Matches: 243, Mismatches: 19, Indels: 5
0.91 0.07 0.02
Matches are distributed among these distances:
272 7 0.03
273 194 0.80
274 42 0.17
ACGTcount: A:0.23, C:0.20, G:0.21, T:0.36
Consensus pattern (272 bp):
TGATATTTTCAAAACCTTCGGGTCATCCGTAAGCCCTACAGTGCAGGATGTTTTCAAAAAGCCTT
CAAGAGCTTTTTGATATTTTCAAAGCCTTAGGGTCATCTGTAAGCCCTACAGTGCATGATGTTTC
CAAAAAGCCTTCGAGAGCTTTTTGATGTTTTCAAAGCCTTAGGGTCATCTGTAAGCCCTTCAGTG
CATGATGTTTTCAAAAACCTTAGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTTCAAAACCT
TCGGGAGCTTTT
Found at i:9963745 original size:45 final size:45
Alignment explanation
Indices: 9963623--9963771 Score: 226
Period size: 45 Copynumber: 3.3 Consensus size: 45
9963613 GGGAGCTTTT
* *
9963623 TGATGTTTTCAAAGCCTTAGGGTCATCTGTAAGTCCTTTAGTGCA
1 TGATGTTTTCAAAACCTTCGGGTCATCTGTAAGTCCTTTAGTGCA
*
9963668 TGATGTTTTCAAAAACCTTCGGGTCATCTGTAAGTCCTTCAGTGCA
1 TGATGTTTTC-AAAACCTTCGGGTCATCTGTAAGTCCTTTAGTGCA
* * * *
9963714 TGATGTTTTCAAAACCTTCGGATCTTTTGTAAGCCCTTTAGTGCA
1 TGATGTTTTCAAAACCTTCGGGTCATCTGTAAGTCCTTTAGTGCA
9963759 TGATGTTTTCAAA
1 TGATGTTTTCAAA
9963772 CATTTCCATC
Statistics
Matches: 95, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
45 53 0.56
46 42 0.44
ACGTcount: A:0.23, C:0.19, G:0.19, T:0.38
Consensus pattern (45 bp):
TGATGTTTTCAAAACCTTCGGGTCATCTGTAAGTCCTTTAGTGCA
Found at i:9963905 original size:3 final size:3
Alignment explanation
Indices: 9963897--9963961 Score: 94
Period size: 3 Copynumber: 21.0 Consensus size: 3
9963887 TCATTTAAGT
**
9963897 TTA TTA TTA TTA TTA AAA 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
9963945 TTA TATA TTA TTTA TTA
1 TTA T-TA TTA -TTA TTA
9963962 AATATTACAA
Statistics
Matches: 56, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
3 50 0.89
4 6 0.11
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (3 bp):
TTA
Found at i:9963919 original size:12 final size:12
Alignment explanation
Indices: 9963901--9963968 Score: 82
Period size: 12 Copynumber: 5.4 Consensus size: 12
9963891 TTAAGTTTAT
9963901 TATTATTATTAA
1 TATTATTATTAA
* *
9963913 AATTATTATTAT
1 TATTATTATTAA
*
9963925 TATTATTATTAT
1 TATTATTATTAA
9963937 TATTATTATTATA
1 TATTATTATTA-A
9963950 TATTATTTATTAAA
1 TATTA-TTATT-AA
9963964 TATTA
1 TATTA
9963969 CAAAGCCCAT
Statistics
Matches: 49, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
12 32 0.65
13 5 0.10
14 11 0.22
15 1 0.02
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (12 bp):
TATTATTATTAA
Found at i:9965496 original size:22 final size:22
Alignment explanation
Indices: 9965462--9965505 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
9965452 GATATTTTAA
9965462 AATTAAATATTATAAAAATTAT
1 AATTAAATATTATAAAAATTAT
* * **
9965484 AATTTAATTTTATTTAAATTAT
1 AATTAAATATTATAAAAATTAT
9965506 TATAATATTT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (22 bp):
AATTAAATATTATAAAAATTAT
Found at i:9968763 original size:17 final size:17
Alignment explanation
Indices: 9968741--9968785 Score: 74
Period size: 17 Copynumber: 2.6 Consensus size: 17
9968731 GGTCCTACTA
9968741 TTGACCCGACCCGA-TCG
1 TTGACCCGACCCGACT-G
9968758 TTGACCCGACCCGACTG
1 TTGACCCGACCCGACTG
9968775 TTGACCCGACC
1 TTGACCCGACC
9968786 GACCCGTAGA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
17 26 0.96
18 1 0.04
ACGTcount: A:0.18, C:0.42, G:0.22, T:0.18
Consensus pattern (17 bp):
TTGACCCGACCCGACTG
Found at i:9972044 original size:44 final size:44
Alignment explanation
Indices: 9971996--9972092 Score: 101
Period size: 44 Copynumber: 2.2 Consensus size: 44
9971986 CAAACATATT
* *
9971996 GCGGCG-TTT-GTATACTAAAATGACGCTATATAACCTT-ACCTTTA
1 GCGGCGTTTTAGTATAC--AAACGACGCTACATAA-CTTGACCTTTA
* * *
9972040 GCGGCATTTTAGTATACAAACGCCGCTACATAACTTGACTTTTA
1 GCGGCGTTTTAGTATACAAACGACGCTACATAACTTGACCTTTA
9972084 GCGGCGTTT
1 GCGGCGTTT
9972093 ATTAGTAGAA
Statistics
Matches: 44, Mismatches: 6, Indels: 6
0.79 0.11 0.11
Matches are distributed among these distances:
43 3 0.07
44 32 0.73
45 3 0.07
46 6 0.14
ACGTcount: A:0.27, C:0.22, G:0.19, T:0.33
Consensus pattern (44 bp):
GCGGCGTTTTAGTATACAAACGACGCTACATAACTTGACCTTTA
Found at i:9972809 original size:16 final size:16
Alignment explanation
Indices: 9972788--9972842 Score: 110
Period size: 16 Copynumber: 3.4 Consensus size: 16
9972778 TGAGTTTCAT
9972788 CAATCGACGGATGCGA
1 CAATCGACGGATGCGA
9972804 CAATCGACGGATGCGA
1 CAATCGACGGATGCGA
9972820 CAATCGACGGATGCGA
1 CAATCGACGGATGCGA
9972836 CAATCGA
1 CAATCGA
9972843 TGACTACAAA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 39 1.00
ACGTcount: A:0.33, C:0.25, G:0.29, T:0.13
Consensus pattern (16 bp):
CAATCGACGGATGCGA
Found at i:9973889 original size:59 final size:59
Alignment explanation
Indices: 9973767--9973901 Score: 152
Period size: 59 Copynumber: 2.3 Consensus size: 59
9973757 ATAGTTGGGT
* *
9973767 GACCATTTTATAACTTTAATAGTCGGAGGACTCAAAAAAGCAACAACATATAGTCAGGA
1 GACCATTTTATAACTTTAATAGTCAGAGGACTCAAAAAAGCAACAACATATACTCAGGA
* * * * *
9973826 -ACCATTTTGTAACTTTCAATAGTCA-AGGGAGTCAACAAAGCAACACCTTATACTC-GGA
1 GACCATTTTATAACTTT-AATAGTCAGA-GGACTCAAAAAAGCAACAACATATACTCAGGA
9973884 GACCA-TTTATATACTTTA
1 GACCATTTTATA-ACTTTA
9973902 CCCTATCATT
Statistics
Matches: 64, Mismatches: 8, Indels: 9
0.79 0.10 0.11
Matches are distributed among these distances:
58 25 0.39
59 39 0.61
ACGTcount: A:0.39, C:0.19, G:0.15, T:0.27
Consensus pattern (59 bp):
GACCATTTTATAACTTTAATAGTCAGAGGACTCAAAAAAGCAACAACATATACTCAGGA
Found at i:9985936 original size:13 final size:16
Alignment explanation
Indices: 9985900--9985941 Score: 56
Period size: 13 Copynumber: 2.9 Consensus size: 16
9985890 TTATCTAAAA
9985900 ATAA-TTAAAATATAT
1 ATAATTTAAAATATAT
9985915 ATAATTTAAAATAT-T
1 ATAATTTAAAATATAT
9985930 -T-ATTTAAAATAT
1 ATAATTTAAAATAT
9985942 CAGAAAATGG
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
13 11 0.42
14 1 0.04
15 5 0.19
16 9 0.35
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (16 bp):
ATAATTTAAAATATAT
Found at i:9987538 original size:3 final size:3
Alignment explanation
Indices: 9987532--9987571 Score: 80
Period size: 3 Copynumber: 13.3 Consensus size: 3
9987522 ATTTATTATT
9987532 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
9987572 GAAATGAAAA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:9989231 original size:2 final size:2
Alignment explanation
Indices: 9989224--9989249 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
9989214 ACTAAACATG
9989224 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
9989250 ATAAAACATA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:9989247 original size:42 final size:42
Alignment explanation
Indices: 9989183--9989300 Score: 109
Period size: 40 Copynumber: 2.8 Consensus size: 42
9989173 AATAATTAAA
*
9989183 ATATATATAGTGATAAACATATA-AATAAAATACTAA-ACATGTAT
1 ATATATATA-T-ATAAATATATAGAATAAAATACTAATA-ATG-AT
* * *
9989227 ATATATATATATATATATATATAATAAAACA-TAATAATGAT
1 ATATATATATATAAATATATAGAATAAAATACTAATAATGAT
* * *
9989268 ATA-AAATATATACATATATAGATTAAAATACTA
1 ATATATATATATAAATATATAGAATAAAATACTA
9989301 TAAATAATAA
Statistics
Matches: 63, Mismatches: 8, Indels: 9
0.79 0.10 0.11
Matches are distributed among these distances:
40 22 0.35
41 7 0.11
42 15 0.24
43 10 0.16
44 9 0.14
ACGTcount: A:0.56, C:0.05, G:0.04, T:0.35
Consensus pattern (42 bp):
ATATATATATATAAATATATAGAATAAAATACTAATAATGAT
Found at i:9989320 original size:15 final size:15
Alignment explanation
Indices: 9989302--9989340 Score: 55
Period size: 14 Copynumber: 2.7 Consensus size: 15
9989292 AAAATACTAT
9989302 AAATAATAAATAGAA
1 AAATAATAAATAGAA
*
9989317 AAATAA-AAAGAGAA
1 AAATAATAAATAGAA
9989331 AAA-AATAAAT
1 AAATAATAAAT
9989341 TAATATATGA
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
13 2 0.10
14 13 0.62
15 6 0.29
ACGTcount: A:0.77, C:0.00, G:0.08, T:0.15
Consensus pattern (15 bp):
AAATAATAAATAGAA
Found at i:10001726 original size:21 final size:21
Alignment explanation
Indices: 10001685--10001731 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 21
10001675 ACTTCAATTA
* *
10001685 ATAATCAAGGAGCTTTGCTTC
1 ATAATCAAGGAGCCTTACTTC
*
10001706 ATAATCAAGGTGCCTTACTTC
1 ATAATCAAGGAGCCTTACTTC
10001727 A-AATC
1 ATAATC
10001732 CATAGCACGT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
20 4 0.17
21 19 0.83
ACGTcount: A:0.32, C:0.21, G:0.15, T:0.32
Consensus pattern (21 bp):
ATAATCAAGGAGCCTTACTTC
Found at i:10002871 original size:18 final size:15
Alignment explanation
Indices: 10002834--10002867 Score: 68
Period size: 15 Copynumber: 2.3 Consensus size: 15
10002824 CTAGCGGACT
10002834 ACGAATGGCCTATTG
1 ACGAATGGCCTATTG
10002849 ACGAATGGCCTATTG
1 ACGAATGGCCTATTG
10002864 ACGA
1 ACGA
10002868 CGAAAACATA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.29, C:0.21, G:0.26, T:0.24
Consensus pattern (15 bp):
ACGAATGGCCTATTG
Found at i:10005250 original size:11 final size:11
Alignment explanation
Indices: 10005234--10005271 Score: 51
Period size: 11 Copynumber: 3.4 Consensus size: 11
10005224 ATTTGAATTA
10005234 TAATATTTATT
1 TAATATTTATT
10005245 TAATATTTATT
1 TAATATTTATT
10005256 TAA-ACTCTTATT
1 TAATA-T-TTATT
10005268 TAAT
1 TAAT
10005272 TATTACGAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
10 1 0.04
11 15 0.62
12 8 0.33
ACGTcount: A:0.37, C:0.05, G:0.00, T:0.58
Consensus pattern (11 bp):
TAATATTTATT
Found at i:10007480 original size:21 final size:20
Alignment explanation
Indices: 10007456--10007514 Score: 66
Period size: 21 Copynumber: 2.9 Consensus size: 20
10007446 ATAAAGAGGT
*
10007456 TATTTTTATTTATTATTATTA
1 TATTTTTATTTATT-TTATGA
*
10007477 TATTATTA-TTATTTTATGA
1 TATTTTTATTTATTTTATGA
*
10007496 TATTTATACTTTATTTTAT
1 TATTTTTA-TTTATTTTAT
10007515 ACTGTAGGGG
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
19 11 0.34
20 5 0.16
21 16 0.50
ACGTcount: A:0.29, C:0.02, G:0.02, T:0.68
Consensus pattern (20 bp):
TATTTTTATTTATTTTATGA
Found at i:10007482 original size:11 final size:11
Alignment explanation
Indices: 10007456--10007493 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
10007446 ATAAAGAGGT
*
10007456 TATTTTTATT-
1 TATTATTATTA
10007466 TATTATTATTA
1 TATTATTATTA
10007477 TATTATTATTA
1 TATTATTATTA
*
10007488 TTTTAT
1 TATTAT
10007494 GATATTTATA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
10 9 0.36
11 16 0.64
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (11 bp):
TATTATTATTA
Found at i:10007734 original size:22 final size:21
Alignment explanation
Indices: 10007700--10007766 Score: 80
Period size: 22 Copynumber: 3.0 Consensus size: 21
10007690 TTCACCTACC
*
10007700 CATTTCACTCCATCCACTCACT
1 CATTTCA-ACCATCCACTCACT
*
10007722 CATTTTCAACCATCTACTCACT
1 CA-TTTCAACCATCCACTCACT
*
10007744 CCATTTCAACCGTCCACTCACT
1 -CATTTCAACCATCCACTCACT
10007766 C
1 C
10007767 GCTCTCTTTC
Statistics
Matches: 39, Mismatches: 4, Indels: 5
0.81 0.08 0.10
Matches are distributed among these distances:
21 1 0.03
22 31 0.79
23 7 0.18
ACGTcount: A:0.24, C:0.43, G:0.01, T:0.31
Consensus pattern (21 bp):
CATTTCAACCATCCACTCACT
Found at i:10009033 original size:3 final size:3
Alignment explanation
Indices: 10009025--10009051 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
10009015 CCTTCCTAGC
10009025 ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA
10009052 GTGTGTATTC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:10012053 original size:19 final size:18
Alignment explanation
Indices: 10012003--10012073 Score: 54
Period size: 19 Copynumber: 3.8 Consensus size: 18
10011993 TTTTTGGTCG
*
10012003 AAGTCAACGGTCAACTATCA
1 AAGTCAACGGTCAA-TA-AA
*
10012023 AAGTCAA-AGTCAATAAA
1 AAGTCAACGGTCAATAAA
* *
10012040 AATGTCAACGGTCAACAAGC
1 AA-GTCAACGGTCAATAA-A
*
10012060 AGGTCAACGGTCAA
1 AAGTCAACGGTCAA
10012074 GTCAAGGTCA
Statistics
Matches: 42, Mismatches: 6, Indels: 7
0.76 0.11 0.13
Matches are distributed among these distances:
17 3 0.07
18 7 0.17
19 24 0.57
20 8 0.19
ACGTcount: A:0.44, C:0.21, G:0.18, T:0.17
Consensus pattern (18 bp):
AAGTCAACGGTCAATAAA
Found at i:10023542 original size:32 final size:32
Alignment explanation
Indices: 10023506--10023636 Score: 147
Period size: 32 Copynumber: 4.1 Consensus size: 32
10023496 GTACTAAACT
* * *
10023506 AAGGGAATATCTTGGGGCCTGAGAGACTACCC
1 AAGGGAATACCTTGGGGCCTAAGAGCCTACCC
* *
10023538 AAGGGAGTACCTTAGGGCCTAAGAGCCTACCC
1 AAGGGAATACCTTGGGGCCTAAGAGCCTACCC
* *
10023570 AA-TGAAGTACCTTGGGGCCTTAGAGCCTACCC
1 AAGGGAA-TACCTTGGGGCCTAAGAGCCTACCC
* * **
10023602 AAGGAAATGCCTTGGGGCCTCTGAGCCTACCC
1 AAGGGAATACCTTGGGGCCTAAGAGCCTACCC
10023634 AAG
1 AAG
10023637 ATCACCTTAG
Statistics
Matches: 83, Mismatches: 14, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
31 2 0.02
32 79 0.95
33 2 0.02
ACGTcount: A:0.27, C:0.27, G:0.28, T:0.18
Consensus pattern (32 bp):
AAGGGAATACCTTGGGGCCTAAGAGCCTACCC
Found at i:10023620 original size:64 final size:64
Alignment explanation
Indices: 10023516--10023635 Score: 168
Period size: 64 Copynumber: 1.9 Consensus size: 64
10023506 AAGGGAATAT
* *
10023516 CTTGGGGCCTGAGAGACTACCCAAGGGAGTACCTTAGGGCCTAAGAGCCTACCCAATGAAGTAC
1 CTTGGGGCCTGAGAGACTACCCAAGGAAATACCTTAGGGCCTAAGAGCCTACCCAATGAAGTAC
* * * * **
10023580 CTTGGGGCCTTAGAGCCTACCCAAGGAAATGCCTTGGGGCCTCTGAGCCTACCCAA
1 CTTGGGGCCTGAGAGACTACCCAAGGAAATACCTTAGGGCCTAAGAGCCTACCCAA
10023636 GATCACCTTA
Statistics
Matches: 48, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
64 48 1.00
ACGTcount: A:0.25, C:0.29, G:0.28, T:0.18
Consensus pattern (64 bp):
CTTGGGGCCTGAGAGACTACCCAAGGAAATACCTTAGGGCCTAAGAGCCTACCCAATGAAGTAC
Found at i:10027520 original size:62 final size:63
Alignment explanation
Indices: 10027452--10027573 Score: 169
Period size: 63 Copynumber: 2.0 Consensus size: 63
10027442 TAATAATGTC
*
10027452 TTTTAATTTGAAATATTCAAAA-GATATAGA-TA-CCTTTACTATTCAAAATTAAATAGATATTA
1 TTTTAA-TTGAAATATTCAAAATGATATA-ATTATCCTTTAATATTCAAAATTAAATAGATATTA
* * *
10027514 TTTTAATTGAAATATTCAAAATGATATAATTATCTTTTAATATTGAAAGTTAAATAGATA
1 TTTTAATTGAAATATTCAAAATGATATAATTATCCTTTAATATTCAAAATTAAATAGATA
10027574 ATAAACACCT
Statistics
Matches: 53, Mismatches: 4, Indels: 5
0.85 0.06 0.08
Matches are distributed among these distances:
61 16 0.30
62 14 0.26
63 23 0.43
ACGTcount: A:0.45, C:0.06, G:0.07, T:0.42
Consensus pattern (63 bp):
TTTTAATTGAAATATTCAAAATGATATAATTATCCTTTAATATTCAAAATTAAATAGATATTA
Found at i:10027637 original size:68 final size:69
Alignment explanation
Indices: 10027514--10027642 Score: 156
Period size: 68 Copynumber: 1.9 Consensus size: 69
10027504 ATAGATATTA
** * *
10027514 TTTTAATTGAAATATTCAAAATGATATAATTATCTTTTAATATTGAAAGTTAAATAGATAATAAA
1 TTTTAATTGAAATATTCAAAATGATATAATTATCTAATAATATTCAAAGTCAAATAGATAATAAA
10027579 CACC
66 CACC
* * *
10027583 TTTTAATTTGAGATATTCAAAA-GA-ATAATTATCGTAATATTATTCAAA-TCAAATATATAA
1 TTTTAA-TTGAAATATTCAAAATGATATAATTATC-TAATAATATTCAAAGTCAAATAGATAA
10027643 ATATCATTTA
Statistics
Matches: 51, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
68 19 0.37
69 18 0.35
70 14 0.27
ACGTcount: A:0.47, C:0.07, G:0.07, T:0.40
Consensus pattern (69 bp):
TTTTAATTGAAATATTCAAAATGATATAATTATCTAATAATATTCAAAGTCAAATAGATAATAAA
CACC
Found at i:10030946 original size:37 final size:37
Alignment explanation
Indices: 10030896--10030978 Score: 166
Period size: 37 Copynumber: 2.2 Consensus size: 37
10030886 ATTCAATTGA
10030896 GCTTCAGTCAATTTAAGATTCCACTGTCGTGAGGTCT
1 GCTTCAGTCAATTTAAGATTCCACTGTCGTGAGGTCT
10030933 GCTTCAGTCAATTTAAGATTCCACTGTCGTGAGGTCT
1 GCTTCAGTCAATTTAAGATTCCACTGTCGTGAGGTCT
10030970 GCTTCAGTC
1 GCTTCAGTC
10030979 TATAAAGCAA
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 46 1.00
ACGTcount: A:0.20, C:0.23, G:0.22, T:0.35
Consensus pattern (37 bp):
GCTTCAGTCAATTTAAGATTCCACTGTCGTGAGGTCT
Found at i:10035920 original size:22 final size:22
Alignment explanation
Indices: 10035902--10035965 Score: 85
Period size: 22 Copynumber: 2.9 Consensus size: 22
10035892 TCAGAATATG
10035902 TGTAATTATTCATATGAATAGA
1 TGTAATTATTCATATGAATAGA
* *
10035924 TGTAATTACTCATATGGATAGA
1 TGTAATTATTCATATGAATAGA
*
10035946 TGTAA-CATTTCATATGAATA
1 TGTAATTA-TTCATATGAATA
10035966 AAAGTAATAA
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
21 1 0.03
22 35 0.97
ACGTcount: A:0.39, C:0.08, G:0.14, T:0.39
Consensus pattern (22 bp):
TGTAATTATTCATATGAATAGA
Found at i:10037730 original size:91 final size:91
Alignment explanation
Indices: 10037570--10037744 Score: 246
Period size: 91 Copynumber: 1.9 Consensus size: 91
10037560 CAAGAAACTC
* *
10037570 ATGTAACATTCTCGGTTGTAACCGAAATTATTACCAATTATGTAACTTTTTAGAGTAAACATGGT
1 ATGTAACATTCTCCGTTGTAACCGAAATTAGTACCAATTATGTAACTTTTTAGAGTAAACATGGT
*
10037635 AACATTTTAGGTTAAAATCGGTCGCA
66 AACATTTTAGGATAAAATCGGTCGCA
* * * * *
10037661 ATGTAACATTCTCCGTTGTAACC-AAGATTAGTGCTAATTGTTTAACTTTTTAGAGTAAACA-GT
1 ATGTAACATTCTCCGTTGTAACCGAA-ATTAGTACCAATTATGTAACTTTTTAGAGTAAACATGG
10037724 TAAACATTTTAGGATAAAATC
65 T-AACATTTTAGGATAAAATC
10037745 CAACGCAAGT
Statistics
Matches: 74, Mismatches: 8, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
90 4 0.05
91 70 0.95
ACGTcount: A:0.35, C:0.14, G:0.15, T:0.36
Consensus pattern (91 bp):
ATGTAACATTCTCCGTTGTAACCGAAATTAGTACCAATTATGTAACTTTTTAGAGTAAACATGGT
AACATTTTAGGATAAAATCGGTCGCA
Found at i:10040832 original size:16 final size:16
Alignment explanation
Indices: 10040811--10040851 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
10040801 ACTAATCGTT
10040811 TATTGTAAACTAT-TTG
1 TATTGTAAA-TATATTG
*
10040827 TATTGTGAATATATTG
1 TATTGTAAATATATTG
10040843 TA-TGTAAAT
1 TATTGTAAAT
10040852 GGATTGCTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
15 9 0.41
16 13 0.59
ACGTcount: A:0.34, C:0.02, G:0.15, T:0.49
Consensus pattern (16 bp):
TATTGTAAATATATTG
Found at i:10040949 original size:2 final size:2
Alignment explanation
Indices: 10040936--10041019 Score: 159
Period size: 2 Copynumber: 42.0 Consensus size: 2
10040926 TCAATATACA
*
10040936 AT AT AC AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
10040978 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
10041020 TTACGAAATG
Statistics
Matches: 80, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
2 80 1.00
ACGTcount: A:0.50, C:0.01, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:10041552 original size:21 final size:21
Alignment explanation
Indices: 10041499--10041555 Score: 87
Period size: 21 Copynumber: 2.7 Consensus size: 21
10041489 TTTTACACTT
10041499 AGGGAACCGATTCCCTATGAG
1 AGGGAACCGATTCCCTATGAG
* *
10041520 AGGAAACTGATTCCCTATGAG
1 AGGGAACCGATTCCCTATGAG
*
10041541 AGGGTACCGATTCCC
1 AGGGAACCGATTCCC
10041556 CCACGCTCCA
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.28, C:0.25, G:0.26, T:0.21
Consensus pattern (21 bp):
AGGGAACCGATTCCCTATGAG
Found at i:10041885 original size:32 final size:32
Alignment explanation
Indices: 10041791--10041889 Score: 153
Period size: 33 Copynumber: 3.0 Consensus size: 32
10041781 AACTCAACAT
* * *
10041791 AATTGAAATACTTAAATACTTCCAAGTTTGATA
1 AATTCAAATACTTAAAAACTT-CAAGTTCGATA
10041824 AATTCAAATACTTAAAAACTTTCAAGTTCGATA
1 AATTCAAATACTTAAAAAC-TTCAAGTTCGATA
10041857 AATTCAAATACTTAAAAACTTCAAGTTCGATA
1 AATTCAAATACTTAAAAACTTCAAGTTCGATA
10041889 A
1 A
10041890 TTGAAACAAA
Statistics
Matches: 62, Mismatches: 3, Indels: 3
0.91 0.04 0.04
Matches are distributed among these distances:
32 14 0.23
33 46 0.74
34 2 0.03
ACGTcount: A:0.45, C:0.14, G:0.07, T:0.33
Consensus pattern (32 bp):
AATTCAAATACTTAAAAACTTCAAGTTCGATA
Found at i:10041908 original size:21 final size:21
Alignment explanation
Indices: 10041884--10041923 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
10041874 ACTTCAAGTT
10041884 CGATAATTGAAACAAAGTTTA
1 CGATAATTGAAACAAAGTTTA
*
10041905 CGATAATTGAAATAAAGTT
1 CGATAATTGAAACAAAGTT
10041924 ATAAAATAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.47, C:0.07, G:0.15, T:0.30
Consensus pattern (21 bp):
CGATAATTGAAACAAAGTTTA
Found at i:10044230 original size:22 final size:24
Alignment explanation
Indices: 10044205--10044256 Score: 72
Period size: 22 Copynumber: 2.2 Consensus size: 24
10044195 TTAAACCCAG
* *
10044205 ACCGGTTTTTT-TTCGG-ATAAAA
1 ACCGGTTTTTTATCCGGTAAAAAA
10044227 ACCGGTTTTTTATCCGGTAAAAAA
1 ACCGGTTTTTTATCCGGTAAAAAA
10044251 ACCGGT
1 ACCGGT
10044257 CTAGGTTTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
22 11 0.42
23 4 0.15
24 11 0.42
ACGTcount: A:0.29, C:0.17, G:0.19, T:0.35
Consensus pattern (24 bp):
ACCGGTTTTTTATCCGGTAAAAAA
Found at i:10044490 original size:13 final size:13
Alignment explanation
Indices: 10044467--10044544 Score: 111
Period size: 13 Copynumber: 6.0 Consensus size: 13
10044457 AATGACGTTC
*
10044467 AATGCGTGTCATA
1 AATGCGCGTCATA
*
10044480 AATGCACGTCATA
1 AATGCGCGTCATA
10044493 AATGCGCGTCATA
1 AATGCGCGTCATA
* *
10044506 AATGTGAGTCATA
1 AATGCGCGTCATA
*
10044519 AATGCGTGTCATA
1 AATGCGCGTCATA
10044532 AATGCGCGTCATA
1 AATGCGCGTCATA
10044545 GATTTATGAC
Statistics
Matches: 57, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
13 57 1.00
ACGTcount: A:0.33, C:0.18, G:0.22, T:0.27
Consensus pattern (13 bp):
AATGCGCGTCATA
Found at i:10045767 original size:2 final size:2
Alignment explanation
Indices: 10045760--10045794 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
10045750 ATCCTAACCT
10045760 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
10045795 TCATAACAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:10048196 original size:23 final size:23
Alignment explanation
Indices: 10048153--10048197 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
10048143 GTTATAATAT
* *
10048153 TAATTATTTGTAATTATTTTATA
1 TAATTATATGTAATTAATTTATA
10048176 TAATTATATGT-ATTAAATTTAT
1 TAATTATATGTAATT-AATTTAT
10048198 TAGTCGACTA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 3 0.16
23 16 0.84
ACGTcount: A:0.38, C:0.00, G:0.04, T:0.58
Consensus pattern (23 bp):
TAATTATATGTAATTAATTTATA
Found at i:10055595 original size:16 final size:16
Alignment explanation
Indices: 10055571--10055603 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
10055561 TATCACCGAC
*
10055571 CAAATTTTACTATTCA
1 CAAAATTTACTATTCA
10055587 CAAAATTTACTATTCA
1 CAAAATTTACTATTCA
10055603 C
1 C
10055604 GTAGATAGTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.39, C:0.21, G:0.00, T:0.39
Consensus pattern (16 bp):
CAAAATTTACTATTCA
Found at i:10058604 original size:23 final size:23
Alignment explanation
Indices: 10058547--10058609 Score: 72
Period size: 23 Copynumber: 2.7 Consensus size: 23
10058537 CGAACACTAA
10058547 ACGAACGTTAAATGAACATGTTC
1 ACGAACGTTAAATGAACATGTTC
* * *
10058570 GCGAATGTTAAATGAATATGTTC
1 ACGAACGTTAAATGAACATGTTC
* * *
10058593 ATGAACGCTAAACGAAC
1 ACGAACGTTAAATGAAC
10058610 GAGCACGAAC
Statistics
Matches: 31, Mismatches: 9, Indels: 0
0.77 0.22 0.00
Matches are distributed among these distances:
23 31 1.00
ACGTcount: A:0.40, C:0.16, G:0.19, T:0.25
Consensus pattern (23 bp):
ACGAACGTTAAATGAACATGTTC
Found at i:10058751 original size:13 final size:13
Alignment explanation
Indices: 10058733--10058757 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
10058723 CATTTACCCG
10058733 CTATGTTCACACC
1 CTATGTTCACACC
10058746 CTATGTTCACAC
1 CTATGTTCACAC
10058758 TTCAACAAGA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.24, C:0.36, G:0.08, T:0.32
Consensus pattern (13 bp):
CTATGTTCACACC
Found at i:10064349 original size:18 final size:18
Alignment explanation
Indices: 10064326--10064362 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
10064316 CAGCATCTTG
10064326 AATATTTAATTGAAATTT
1 AATATTTAATTGAAATTT
*
10064344 AATATTTAATTGGAATTT
1 AATATTTAATTGAAATTT
10064362 A
1 A
10064363 TCTGGCATGA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.43, C:0.00, G:0.08, T:0.49
Consensus pattern (18 bp):
AATATTTAATTGAAATTT
Found at i:10064490 original size:60 final size:60
Alignment explanation
Indices: 10064421--10064549 Score: 231
Period size: 60 Copynumber: 2.1 Consensus size: 60
10064411 CATGACTTAA
10064421 ATATTTATTTTTATCTTTTGTAATAAACCTCTAAGATTTAAGATTTTTAGTTTGATTATT
1 ATATTTATTTTTATCTTTTGTAATAAACCTCTAAGATTTAAGATTTTTAGTTTGATTATT
* *
10064481 ATATTTATTTTTATCTTTTGTAATAAACCTTTTAGATTTAAGATTTTTAGTTTGATTATT
1 ATATTTATTTTTATCTTTTGTAATAAACCTCTAAGATTTAAGATTTTTAGTTTGATTATT
*
10064541 TTATTTATT
1 ATATTTATT
10064550 ACTTTATTTA
Statistics
Matches: 66, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
60 66 1.00
ACGTcount: A:0.29, C:0.05, G:0.08, T:0.58
Consensus pattern (60 bp):
ATATTTATTTTTATCTTTTGTAATAAACCTCTAAGATTTAAGATTTTTAGTTTGATTATT
Found at i:10064747 original size:19 final size:19
Alignment explanation
Indices: 10064708--10064754 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
10064698 TATTGAAGTC
*
10064708 TTACTTTTGTTTCATCTTT
1 TTACTTTTCTTTCATCTTT
10064727 TTACTTTTCTTTCAT-TATT
1 TTACTTTTCTTTCATCT-TT
*
10064746 TTGCTTTTC
1 TTACTTTTC
10064755 ACAATGCTAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
18 1 0.04
19 24 0.96
ACGTcount: A:0.11, C:0.17, G:0.04, T:0.68
Consensus pattern (19 bp):
TTACTTTTCTTTCATCTTT
Found at i:10066634 original size:19 final size:19
Alignment explanation
Indices: 10066598--10066634 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
10066588 TGTAAATGAT
*
10066598 TTGATTTTGAAAGCCAAAG
1 TTGATTTTGAAAACCAAAG
*
10066617 TTGATTTTGAAAATCAAA
1 TTGATTTTGAAAACCAAA
10066635 AAGAAATTTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.41, C:0.08, G:0.16, T:0.35
Consensus pattern (19 bp):
TTGATTTTGAAAACCAAAG
Found at i:10069530 original size:14 final size:14
Alignment explanation
Indices: 10069511--10069543 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
10069501 CCTATTTTTC
10069511 TATTTTATTCTATT
1 TATTTTATTCTATT
*
10069525 TATTTTATTTTATT
1 TATTTTATTCTATT
10069539 TATTT
1 TATTT
10069544 AAATTAAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.21, C:0.03, G:0.00, T:0.76
Consensus pattern (14 bp):
TATTTTATTCTATT
Found at i:10071880 original size:117 final size:117
Alignment explanation
Indices: 10071674--10072363 Score: 1076
Period size: 117 Copynumber: 5.9 Consensus size: 117
10071664 TCACGTAAAG
* * *
10071674 GCGCGTTTCCAGGGGCACGCCTTCCATTATTTTGTCAGATAATATGTTATCATTGCCCTATTATG
1 GCGCGTTTCCGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTATTATG
*
10071739 TCACTCATGTCCCTTGGGGGCACTATTCATGTCAGTACCTAAAGTGGTGAAA
66 TCACTCATGTCCCTCGGGGGCACTATTCATGTCAGTACCTAAAGTGGTGAAA
*
10071791 GCGCGTTTCCGGGGGCGCGCCTTTCATTATTTTGTCAGAGAATATGTTATCATTGCCCTATTATG
1 GCGCGTTTCCGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTATTATG
10071856 TCACTCATGTCCCTCGGGGGCACTATTCATGTCAGTACCTAAAGTGGTGAAA
66 TCACTCATGTCCCTCGGGGGCACTATTCATGTCAGTACCTAAAGTGGTGAAA
* * *
10071908 GAGCGTTTCCGGGGGCGTGCCTTCCAGTATTTTGTCAGAGAATATGTTATCATTGCCCTATTATG
1 GCGCGTTTCCGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTATTATG
* * * * *
10071973 TCACTCATGTCTCTCGAGGGCACTATACATGTCAGTATCTAAAGTGGTAAAA
66 TCACTCATGTCCCTCGGGGGCACTATTCATGTCAGTACCTAAAGTGGTGAAA
** * *
10072025 GCGCGTTTCTAGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGGTATCATTGCCCTATTATT
1 GCGCGTTTCCGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTATTATG
* * *
10072090 TCACTCATGTCCCTCAGGAGCACTATTCATGTCACTACCTAAAGTGGTGAAA
66 TCACTCATGTCCCTCGGGGGCACTATTCATGTCAGTACCTAAAGTGGTGAAA
* * * *
10072142 GCGCGTTTCCGGGGGCGTGCCTTCCATTATTTTTTCAGATAATATGTTATCATTGCCCTATTATA
1 GCGCGTTTCCGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTATTATG
** * *
10072207 TCACTCATGTCCCTC-GGGAAACTATTTATGTCAGTACCTAAAGTTGTGAAA
66 TCACTCATGTCCCTCGGGGGCACTATTCATGTCAGTACCTAAAGTGGTGAAA
* * * *
10072258 GCGCGTTTCCGGGGACGCGCCTTCGATTATTATGTCAGAGAATATGTTATAATTGCCCTATTATG
1 GCGCGTTTCCGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTATTATG
*
10072323 TCACTCATGTCCCCCGGGGGCACTATTCATGTCAGTACCTA
66 TCACTCATGTCCCTCGGGGGCACTATTCATGTCAGTACCTA
10072364 TTATGTTTGA
Statistics
Matches: 518, Mismatches: 54, Indels: 2
0.90 0.09 0.00
Matches are distributed among these distances:
116 101 0.19
117 417 0.81
ACGTcount: A:0.22, C:0.23, G:0.22, T:0.33
Consensus pattern (117 bp):
GCGCGTTTCCGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTATTATG
TCACTCATGTCCCTCGGGGGCACTATTCATGTCAGTACCTAAAGTGGTGAAA
Found at i:10072717 original size:138 final size:138
Alignment explanation
Indices: 10072246--10072748 Score: 677
Period size: 138 Copynumber: 3.6 Consensus size: 138
10072236 GTCAGTACCT
* * *
10072246 AAAGTTGTGAAAGCGCGTTTCCGGGGACGCGCCTTCGATTATTATGTCAGAGAATATGTTATAAT
1 AAAGTGGTGAAAGCGCGTTTCCGGGGGCGCGCCTTCCATTATTATGTCAGAGAATATGTTATAAT
**
10072311 TGCCCTATTATGTCACTCATGTCCCCCGGGGGCACTATTCATGTCAGTACCTATTATGTTTGAGG
66 TGCCCTATTATGTCACTCATGT-CCCTTGGGGCACTATTCATGTCAGTACCTATTATGTTTGAGG
*
10072376 GGATGCAAC
130 GGACGCAAC
* * ** * ** * * * *
10072385 AAAGTTGTGAAAACGTATTTCTGGGGGCGCATCTTCCATTATTTTATCAGATAATATGTTATCAT
1 AAAGTGGTGAAAGCGCGTTTCCGGGGGCGCGCCTTCCATTATTATGTCAGAGAATATGTTATAAT
* * * *
10072450 TGCCCTATTATGTCACTCATATCCCTTGGTGCACTATTCATGCCAGTACATATTATG-TTGAGGG
66 TGCCCTATTATGTCACTCATGTCCCTTGGGGCACTATTCATGTCAGTACCTATTATGTTTGAGGG
10072514 GACGCAGA-
131 GACGCA-AC
* * * * *
10072522 AAAGTGGTGAAAGCTCGTTTCCAGGGGCACGCCTTCGATTATTATGTCAGAGGATATGTTATAAT
1 AAAGTGGTGAAAGCGCGTTTCCGGGGGCGCGCCTTCCATTATTATGTCAGAGAATATGTTATAAT
* * *
10072587 TGCCATATTATGTCACTTATGTCCCTTGGGGCACTATTTATGTCAGTACCTATTATGTTTGAGGG
66 TGCCCTATTATGTCACTCATGTCCCTTGGGGCACTATTCATGTCAGTACCTATTATGTTTGAGGG
10072652 GACGCAAC
131 GACGCAAC
* * *
10072660 AAAGTGGTGAAAGCGCGTATCCGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCAT
1 AAAGTGGTGAAAGCGCGTTTCCGGGGGCGCGCCTTCCATTATTATGTCAGAGAATATGTTATAAT
*
10072725 TGCCTTATTATGTCACTCATGTCC
66 TGCCCTATTATGTCACTCATGTCC
10072749 ACGGAGATGC
Statistics
Matches: 309, Mismatches: 52, Indels: 7
0.84 0.14 0.02
Matches are distributed among these distances:
137 112 0.36
138 123 0.40
139 74 0.24
ACGTcount: A:0.24, C:0.20, G:0.23, T:0.33
Consensus pattern (138 bp):
AAAGTGGTGAAAGCGCGTTTCCGGGGGCGCGCCTTCCATTATTATGTCAGAGAATATGTTATAAT
TGCCCTATTATGTCACTCATGTCCCTTGGGGCACTATTCATGTCAGTACCTATTATGTTTGAGGG
GACGCAAC
Found at i:10072744 original size:275 final size:276
Alignment explanation
Indices: 10072246--10072744 Score: 786
Period size: 275 Copynumber: 1.8 Consensus size: 276
10072236 GTCAGTACCT
* *
10072246 AAAGTTGTGAAAGCGCGTTTCCGGGGACGCGCCTTCGATTATTATGTCAGAGAATATGTTATAAT
1 AAAGTGGTGAAAGCGCGTTTCCGGGGACACGCCTTCGATTATTATGTCAGAGAATATGTTATAAT
*
10072311 TGCCCTATTATGTCACTCATGTCCCCCGGGGGCACTATTCATGTCAGTACCTATTATGTTTGAGG
66 TGCCATATTATGTCACTCATGTCCCCCGGGGGCACTATTCATGTCAGTACCTATTATGTTTGAGG
* * * * * * *
10072376 GGATGCAACAAAGTTGTGAAAACGTATTTCTGGGGGCGCATCTTCCATTATTTTATCAGATAATA
131 GGACGCAACAAAGTGGTGAAAACGCATATCCGGGGGCGCACCTTCCATTATTTTATCAGAGAATA
10072441 TGTTATCATTGCCCTATTATGTCACTCATATCCCTTGGTGCACTATTCATGCCAGTACATATTAT
196 TGTTATCATTGCCCTATTATGTCACTCATATCCCTTGGTGCACTATTCATGCCAGTACATATTAT
10072506 GTTGAGGGGACGCAGA
261 GTTGAGGGGACGCAGA
* *
10072522 AAAGTGGTGAAAGCTCGTTTCCAGGGG-CACGCCTTCGATTATTATGTCAGAGGATATGTTATAA
1 AAAGTGGTGAAAGCGCGTTTCC-GGGGACACGCCTTCGATTATTATGTCAGAGAATATGTTATAA
* ** *
10072586 TTGCCATATTATGTCACTTATGT-CCCTTGGGGCACTATTTATGTCAGTACCTATTATGTTTGAG
65 TTGCCATATTATGTCACTCATGTCCCCCGGGGGCACTATTCATGTCAGTACCTATTATGTTTGAG
* * * *
10072650 GGGACGCAACAAAGTGGTGAAAGCGCGTATCCGGGGGCGCGCCTTCCATTATTTTGTCAGAGAAT
130 GGGACGCAACAAAGTGGTGAAAACGCATATCCGGGGGCGCACCTTCCATTATTTTATCAGAGAAT
*
10072715 ATGTTATCATTGCCTTATTATGTCACTCAT
195 ATGTTATCATTGCCCTATTATGTCACTCAT
10072745 GTCCACGGAG
Statistics
Matches: 201, Mismatches: 21, Indels: 3
0.89 0.09 0.01
Matches are distributed among these distances:
275 121 0.60
276 76 0.38
277 4 0.02
ACGTcount: A:0.25, C:0.19, G:0.23, T:0.33
Consensus pattern (276 bp):
AAAGTGGTGAAAGCGCGTTTCCGGGGACACGCCTTCGATTATTATGTCAGAGAATATGTTATAAT
TGCCATATTATGTCACTCATGTCCCCCGGGGGCACTATTCATGTCAGTACCTATTATGTTTGAGG
GGACGCAACAAAGTGGTGAAAACGCATATCCGGGGGCGCACCTTCCATTATTTTATCAGAGAATA
TGTTATCATTGCCCTATTATGTCACTCATATCCCTTGGTGCACTATTCATGCCAGTACATATTAT
GTTGAGGGGACGCAGA
Found at i:10074019 original size:11 final size:12
Alignment explanation
Indices: 10074000--10074034 Score: 54
Period size: 11 Copynumber: 3.0 Consensus size: 12
10073990 TTTTCTCTTT
10074000 TTACTTTTCAAG
1 TTACTTTTCAAG
10074012 TT-CTTTTCAAG
1 TTACTTTTCAAG
*
10074023 TTATTTTTCAAG
1 TTACTTTTCAAG
10074035 CTTTGTTTTC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
11 11 0.52
12 10 0.48
ACGTcount: A:0.23, C:0.14, G:0.09, T:0.54
Consensus pattern (12 bp):
TTACTTTTCAAG
Found at i:10081441 original size:21 final size:21
Alignment explanation
Indices: 10081390--10081441 Score: 52
Period size: 21 Copynumber: 2.5 Consensus size: 21
10081380 GGTGTCATAA
* * *
10081390 AACCCTACGGGCTAGGCATGT
1 AACCCTGCGGGCTAGGAATAT
*
10081411 AA-TCTGGCGGGCTAGGAATAT
1 AACCCT-GCGGGCTAGGAATAT
10081432 AACCCTGCGG
1 AACCCTGCGG
10081442 ATATAGCATA
Statistics
Matches: 24, Mismatches: 5, Indels: 4
0.73 0.15 0.12
Matches are distributed among these distances:
20 2 0.08
21 20 0.83
22 2 0.08
ACGTcount: A:0.25, C:0.25, G:0.31, T:0.19
Consensus pattern (21 bp):
AACCCTGCGGGCTAGGAATAT
Found at i:10081513 original size:42 final size:41
Alignment explanation
Indices: 10081414--10081519 Score: 115
Period size: 42 Copynumber: 2.5 Consensus size: 41
10081404 GGCATGTAAT
* *
10081414 CTGGCGGGCTAGGAATATAACCCTGCGGATATAGCATATGAA
1 CTGGAGGGCTAGGCATAT-ACCCTGCGGATATAGCATATGAA
* * *
10081456 CTGGTA-GGCTTGGCATATACCCTTGCGGATATGGCATCTGAA
1 CTGG-AGGGCTAGGCATATACCC-TGCGGATATAGCATATGAA
* *
10081498 CTGGAGGGCTGGGCATGTACCC
1 CTGGAGGGCTAGGCATATACCC
10081520 CTGTGGCATC
Statistics
Matches: 54, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
41 5 0.09
42 49 0.91
ACGTcount: A:0.24, C:0.22, G:0.31, T:0.24
Consensus pattern (41 bp):
CTGGAGGGCTAGGCATATACCCTGCGGATATAGCATATGAA
Found at i:10083068 original size:17 final size:17
Alignment explanation
Indices: 10083046--10083105 Score: 50
Period size: 17 Copynumber: 3.5 Consensus size: 17
10083036 AAGCATTAAA
10083046 AAATTTAAAATTAATAT
1 AAATTTAAAATTAATAT
** *
10083063 AAATTTATGATAAAT-T
1 AAATTTAAAATTAATAT
* *
10083079 AAAATTAAAAATAATAAT
1 AAATTTAAAATTAAT-AT
10083097 AAATATTAA
1 AAAT-TTAA
10083106 CATAAATTAA
Statistics
Matches: 31, Mismatches: 9, Indels: 4
0.70 0.20 0.09
Matches are distributed among these distances:
16 11 0.35
17 12 0.39
18 4 0.13
19 4 0.13
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.37
Consensus pattern (17 bp):
AAATTTAAAATTAATAT
Found at i:10083267 original size:25 final size:24
Alignment explanation
Indices: 10083223--10083269 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 24
10083213 TAATTAGCAC
10083223 AAATAATAATTAATTAATAAATTT
1 AAATAATAATTAATTAATAAATTT
10083247 AAATAAATAA-TAATTATATAAAT
1 AAAT-AATAATTAATTA-ATAAAT
10083270 ATTATTTTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
24 10 0.48
25 11 0.52
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (24 bp):
AAATAATAATTAATTAATAAATTT
Found at i:10083306 original size:17 final size:17
Alignment explanation
Indices: 10083253--10083308 Score: 62
Period size: 17 Copynumber: 3.4 Consensus size: 17
10083243 ATTTAAATAA
*
10083253 ATAATAATTATATAAAT
1 ATAATATTTATATAAAT
* *
10083270 ATTAT-TTTA-ATAAAAA
1 ATAATATTTATAT-AAAT
10083286 ATAATATTTATATAAAT
1 ATAATATTTATATAAAT
10083303 ATAATA
1 ATAATA
10083309 ATAAAAAATA
Statistics
Matches: 31, Mismatches: 5, Indels: 6
0.74 0.12 0.14
Matches are distributed among these distances:
15 2 0.06
16 10 0.32
17 17 0.55
18 2 0.06
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (17 bp):
ATAATATTTATATAAAT
Found at i:10083311 original size:30 final size:32
Alignment explanation
Indices: 10083246--10083318 Score: 96
Period size: 33 Copynumber: 2.3 Consensus size: 32
10083236 TTAATAAATT
*
10083246 TAAATAAATAATAATTATATAAATATTATTTTAA
1 TAAA-AAATAATAATTATATAAATATTA-TATAA
*
10083280 TAAAAAATAATATTTATATAAATA-TA-ATAA
1 TAAAAAATAATAATTATATAAATATTATATAA
10083310 TAAAAAATA
1 TAAAAAATA
10083319 TAACAACTAT
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
30 12 0.32
32 2 0.05
33 19 0.51
34 4 0.11
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (32 bp):
TAAAAAATAATAATTATATAAATATTATATAA
Found at i:10102547 original size:19 final size:20
Alignment explanation
Indices: 10102509--10102547 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 20
10102499 TTAATATAGA
*
10102509 AAAAATATTAAATTTAATTT
1 AAAAATATTAAAATTAATTT
*
10102529 AAAAATA-TAAAATTCATTT
1 AAAAATATTAAAATTAATTT
10102548 TTATTTTTAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 10 0.59
20 7 0.41
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.41
Consensus pattern (20 bp):
AAAAATATTAAAATTAATTT
Found at i:10103623 original size:22 final size:22
Alignment explanation
Indices: 10103598--10103647 Score: 91
Period size: 22 Copynumber: 2.3 Consensus size: 22
10103588 TTTATGTTAT
*
10103598 GTTTTCTTCTACCTTTTGACAC
1 GTTTTCTTCTACCATTTGACAC
10103620 GTTTTCTTCTACCATTTGACAC
1 GTTTTCTTCTACCATTTGACAC
10103642 GTTTTC
1 GTTTTC
10103648 AGTTATTTGA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.14, C:0.26, G:0.10, T:0.50
Consensus pattern (22 bp):
GTTTTCTTCTACCATTTGACAC
Found at i:10104600 original size:17 final size:16
Alignment explanation
Indices: 10104578--10104611 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
10104568 TAAAAATAGT
10104578 AAATAAAAAGATAAATA
1 AAATAAAAAGA-AAATA
*
10104595 AAATAAGAAGAAAATA
1 AAATAAAAAGAAAATA
10104611 A
1 A
10104612 TCCTCACGTG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.76, C:0.00, G:0.09, T:0.15
Consensus pattern (16 bp):
AAATAAAAAGAAAATA
Found at i:10108434 original size:19 final size:20
Alignment explanation
Indices: 10108412--10108455 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
10108402 GAGAAAAGGT
10108412 AAAAGTT-ATAATGAAAGAG
1 AAAAGTTAATAATGAAAGAG
* *
10108431 AAAAATTAATAATGAAAGAT
1 AAAAGTTAATAATGAAAGAG
10108451 AAAAG
1 AAAAG
10108456 AAAAAGTTAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
19 6 0.29
20 15 0.71
ACGTcount: A:0.64, C:0.00, G:0.16, T:0.20
Consensus pattern (20 bp):
AAAAGTTAATAATGAAAGAG
Found at i:10126259 original size:20 final size:21
Alignment explanation
Indices: 10126221--10126259 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
10126211 CATTAAGGTC
10126221 TTTGTTGAAGCCATGAAATCT
1 TTTGTTGAAGCCATGAAATCT
*
10126242 TTTGTTGAGGCCAT-AAAT
1 TTTGTTGAAGCCATGAAAT
10126260 TCCTATAATG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.28, C:0.13, G:0.21, T:0.38
Consensus pattern (21 bp):
TTTGTTGAAGCCATGAAATCT
Found at i:10130371 original size:17 final size:18
Alignment explanation
Indices: 10130343--10130376 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
10130333 CGAAAAACAT
10130343 AAATTATGACTTTTTGGA
1 AAATTATGACTTTTTGGA
10130361 AAATT-TGACTTTTTGG
1 AAATTATGACTTTTTGG
10130377 TCAAAGTCAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 11 0.69
18 5 0.31
ACGTcount: A:0.29, C:0.06, G:0.18, T:0.47
Consensus pattern (18 bp):
AAATTATGACTTTTTGGA
Found at i:10130412 original size:26 final size:24
Alignment explanation
Indices: 10130376--10130430 Score: 83
Period size: 26 Copynumber: 2.2 Consensus size: 24
10130366 TGACTTTTTG
*
10130376 GTCAAAGTCAACGGTCTATGGTCAAA
1 GTCAAAGTCAACGGGC-A-GGTCAAA
10130402 GTCAAAGTCAACGGGCAGGTCAAA
1 GTCAAAGTCAACGGGCAGGTCAAA
10130426 GTCAA
1 GTCAA
10130431 CGATTCGAGT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
24 12 0.43
25 1 0.04
26 15 0.54
ACGTcount: A:0.36, C:0.20, G:0.25, T:0.18
Consensus pattern (24 bp):
GTCAAAGTCAACGGGCAGGTCAAA
Found at i:10135385 original size:13 final size:13
Alignment explanation
Indices: 10135367--10135391 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
10135357 GTCAACGGTC
10135367 CACATTCAAAGTT
1 CACATTCAAAGTT
10135380 CACATTCAAAGT
1 CACATTCAAAGT
10135392 CAACGGGCAG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.24, G:0.08, T:0.28
Consensus pattern (13 bp):
CACATTCAAAGTT
Found at i:10136303 original size:80 final size:80
Alignment explanation
Indices: 10136150--10136421 Score: 404
Period size: 81 Copynumber: 3.4 Consensus size: 80
10136140 AAGCATTTAG
* * *
10136150 TCTTTTACCCAAAGGCATTTAGCCTTTCATCTAACTTGCA-AGATTGACACCTTTCT-TCCAAAT
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAAC-TGCATA-ATTGACACCTTTCTGT-CAAAT
*
10136213 GCACAACTAGGCAATTAA
63 GCACAGCTAGGCAATTAA
* *
10136231 TCTTTTACTCAAAGGTGTTTAACCTTTCATCTAACTGCATAATTGACACTTTTCTGTCAAATGCA
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGCATAATTGACACCTTTCTGTCAAATGCA
10136296 CAGCTAGGCAATTAA
66 CAGCTAGGCAATTAA
* * *
10136311 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAATTGGAATAATTGACACCTTTATGTCAAATGC
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACT-GCATAATTGACACCTTTCTGTCAAATGC
*
10136376 ATAGCTAGGCAATTAA
65 ACAGCTAGGCAATTAA
10136392 TCTTTTACTCAAAGGTATTTAACCTTTCAT
1 TCTTTTACTCAAAGGTATTTAACCTTTCAT
10136422 TTAGCTTCTT
Statistics
Matches: 176, Mismatches: 12, Indels: 6
0.91 0.06 0.03
Matches are distributed among these distances:
80 73 0.41
81 103 0.59
ACGTcount: A:0.31, C:0.21, G:0.11, T:0.36
Consensus pattern (80 bp):
TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGCATAATTGACACCTTTCTGTCAAATGCA
CAGCTAGGCAATTAA
Found at i:10142399 original size:9 final size:9
Alignment explanation
Indices: 10142385--10142409 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
10142375 TAGGTTCCTA
10142385 AATTTTCCC
1 AATTTTCCC
10142394 AATTTTCCC
1 AATTTTCCC
10142403 AATTTTC
1 AATTTTC
10142410 TAGTCATGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.24, C:0.28, G:0.00, T:0.48
Consensus pattern (9 bp):
AATTTTCCC
Found at i:10147037 original size:54 final size:54
Alignment explanation
Indices: 10146870--10147508 Score: 888
Period size: 54 Copynumber: 11.9 Consensus size: 54
10146860 CTGATACAAT
* * * **
10146870 AATTCACAAACTCATTATGAATTACCTGGGGTTGCACACATAGTGCCAATACGGA
1 AATTCATAAACTTATTATGAATT-TCTTAGGTTGCACACATAGTGCCAATACGGA
* * * *
10146925 AATTCATAAACTCATTATGAATTTCGTGAAGTTGCACACATAGTGCCAATACGAA
1 AATTCATAAACTTATTATGAATTTC-TTAGGTTGCACACATAGTGCCAATACGGA
* * * *
10146980 AATTCATAAACTTATTATGAATTTCTTAGGTTGCAGATATAGTGCAAATACAGA
1 AATTCATAAACTTATTATGAATTTCTTAGGTTGCACACATAGTGCCAATACGGA
* * * *
10147034 AATTCATAAACTTATTATGAACTTCTTAAGCTGCACACACAGTGCCAATACGGA
1 AATTCATAAACTTATTATGAATTTCTTAGGTTGCACACATAGTGCCAATACGGA
* * *
10147088 AATTCATAAACTTATTATGAA---CTTAAGTTGCACACACAGTGGCAATACGGA
1 AATTCATAAACTTATTATGAATTTCTTAGGTTGCACACATAGTGCCAATACGGA
*
10147139 AATTCATAAACTTATTATGAATTTCTTAGGTTGCAAACATAGTGCCAATACGGA
1 AATTCATAAACTTATTATGAATTTCTTAGGTTGCACACATAGTGCCAATACGGA
* *
10147193 AATTAATAAACTTATTATGAATTTCTTAGGTTGCACACATAGTGTCAATACGGA
1 AATTCATAAACTTATTATGAATTTCTTAGGTTGCACACATAGTGCCAATACGGA
* * * *
10147247 AATTCATAAACTTATTATGAATTTCTTAGGTTGCACTCACAGTGCCAAAACGAA
1 AATTCATAAACTTATTATGAATTTCTTAGGTTGCACACATAGTGCCAATACGGA
** *
10147301 AATTCATAAACTTATTATGAATTTCTTAGGTTGCACACGCAGTGCCAACACGGA
1 AATTCATAAACTTATTATGAATTTCTTAGGTTGCACACATAGTGCCAATACGGA
* * * *
10147355 AATTCTTAAACTTATTATGAATTTCTTAGTTTGCACACATAATGTCAATACGGA
1 AATTCATAAACTTATTATGAATTTCTTAGGTTGCACACATAGTGCCAATACGGA
* * **
10147409 AACTCATAAACATATTATGAATTTCTTAGGTTGCACACATAGTGCCAATATAGA
1 AATTCATAAACTTATTATGAATTTCTTAGGTTGCACACATAGTGCCAATACGGA
*
10147463 AATTCATAAACTTATTTTGAATTTCTTAGGTTGCACACATAGTGCC
1 AATTCATAAACTTATTATGAATTTCTTAGGTTGCACACATAGTGCC
10147509 CATTAGGTAA
Statistics
Matches: 522, Mismatches: 58, Indels: 9
0.89 0.10 0.02
Matches are distributed among these distances:
51 49 0.09
54 401 0.77
55 72 0.14
ACGTcount: A:0.36, C:0.17, G:0.14, T:0.32
Consensus pattern (54 bp):
AATTCATAAACTTATTATGAATTTCTTAGGTTGCACACATAGTGCCAATACGGA
Found at i:10149549 original size:53 final size:52
Alignment explanation
Indices: 10149488--10149596 Score: 141
Period size: 53 Copynumber: 2.1 Consensus size: 52
10149478 AAGAAAATTT
* * *
10149488 AAATAAAATAAGTAA-TT-AATAAAATAAAATTTACTAAAAATGAAATGAAATG
1 AAATAAAATAA--AATTTCAATAAAATAAAATTTACTAAAAATAAAATAAAATA
*
10149540 AAATAAAAATAAAATTTCAATGAAATAAAATTTACTAAAAATAAAATAAAATA
1 AAAT-AAAATAAAATTTCAATAAAATAAAATTTACTAAAAATAAAATAAAATA
10149593 AAAT
1 AAAT
10149597 GGGTTGCCTC
Statistics
Matches: 50, Mismatches: 4, Indels: 5
0.85 0.07 0.08
Matches are distributed among these distances:
51 2 0.04
52 6 0.12
53 42 0.84
ACGTcount: A:0.66, C:0.03, G:0.05, T:0.27
Consensus pattern (52 bp):
AAATAAAATAAAATTTCAATAAAATAAAATTTACTAAAAATAAAATAAAATA
Found at i:10149562 original size:32 final size:32
Alignment explanation
Indices: 10149526--10149586 Score: 86
Period size: 32 Copynumber: 1.9 Consensus size: 32
10149516 ATTTACTAAA
*
10149526 AATGAAATGAAATGAAATAAAAATAAAATTTC
1 AATGAAATAAAATGAAATAAAAATAAAATTTC
** *
10149558 AATGAAATAAAATTTACTAAAAATAAAAT
1 AATGAAATAAAATGAAATAAAAATAAAAT
10149587 AAAATAAAAT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
32 25 1.00
ACGTcount: A:0.64, C:0.03, G:0.07, T:0.26
Consensus pattern (32 bp):
AATGAAATAAAATGAAATAAAAATAAAATTTC
Found at i:10149581 original size:16 final size:15
Alignment explanation
Indices: 10149543--10149586 Score: 54
Period size: 16 Copynumber: 2.8 Consensus size: 15
10149533 TGAAATGAAA
10149543 TAAAAATAAAATTTC
1 TAAAAATAAAATTTC
10149558 -AATGAAATAAAATTTAC
1 TAA--AAATAAAATTT-C
10149575 TAAAAATAAAAT
1 TAAAAATAAAAT
10149587 AAAATAAAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 7
0.78 0.00 0.22
Matches are distributed among these distances:
14 2 0.08
16 20 0.80
17 1 0.04
18 2 0.08
ACGTcount: A:0.64, C:0.05, G:0.02, T:0.30
Consensus pattern (15 bp):
TAAAAATAAAATTTC
Found at i:10149594 original size:16 final size:16
Alignment explanation
Indices: 10149530--10149595 Score: 53
Period size: 16 Copynumber: 4.1 Consensus size: 16
10149520 ACTAAAAATG
* *
10149530 AAATGAAATGAAATAA
1 AAATAAAATTAAATAA
* *
10149546 AAATAAAATTTCAAT-G
1 AAATAAAA-TTAAATAA
* *
10149562 AAATAAAATTTACTAA
1 AAATAAAATTAAATAA
*
10149578 AAATAAAATAAAATAA
1 AAATAAAATTAAATAA
10149594 AA
1 AA
10149596 TGGGTTGCCT
Statistics
Matches: 38, Mismatches: 10, Indels: 4
0.73 0.19 0.08
Matches are distributed among these distances:
15 4 0.11
16 30 0.79
17 4 0.11
ACGTcount: A:0.68, C:0.03, G:0.05, T:0.24
Consensus pattern (16 bp):
AAATAAAATTAAATAA
Found at i:10150229 original size:37 final size:37
Alignment explanation
Indices: 10150188--10150270 Score: 157
Period size: 37 Copynumber: 2.2 Consensus size: 37
10150178 TTTACGGTAT
*
10150188 GGTTTGACAATTTTATCAAGAATTGCTTTAATTTCAC
1 GGTTTGACAATTTTATCAAAAATTGCTTTAATTTCAC
10150225 GGTTTGACAATTTTATCAAAAATTGCTTTAATTTCAC
1 GGTTTGACAATTTTATCAAAAATTGCTTTAATTTCAC
10150262 GGTTTGACA
1 GGTTTGACA
10150271 TTTCTGTTTG
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
37 45 1.00
ACGTcount: A:0.30, C:0.13, G:0.14, T:0.42
Consensus pattern (37 bp):
GGTTTGACAATTTTATCAAAAATTGCTTTAATTTCAC
Found at i:10151701 original size:20 final size:20
Alignment explanation
Indices: 10151672--10151710 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
10151662 AGAGCTCATA
*
10151672 TAGGATCATATAGATGCATT
1 TAGGAGCATATAGATGCATT
*
10151692 TAGGAGCATATAGTTGCAT
1 TAGGAGCATATAGATGCAT
10151711 GTAGTGGAAA
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:0.33, C:0.10, G:0.23, T:0.33
Consensus pattern (20 bp):
TAGGAGCATATAGATGCATT
Found at i:10168387 original size:18 final size:18
Alignment explanation
Indices: 10168341--10168388 Score: 62
Period size: 18 Copynumber: 2.7 Consensus size: 18
10168331 AATATTAAGG
*
10168341 AATTTAAAATAAAAATAT
1 AATTTAAAATTAAAATAT
*
10168359 AATTTAAAATTAATATAT
1 AATTTAAAATTAAAATAT
10168377 -ATATTAAAATTA
1 AAT-TTAAAATTA
10168389 TCGGGTTGGG
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
17 2 0.07
18 25 0.93
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (18 bp):
AATTTAAAATTAAAATAT
Found at i:10170410 original size:43 final size:43
Alignment explanation
Indices: 10170351--10170481 Score: 246
Period size: 43 Copynumber: 3.1 Consensus size: 43
10170341 CTCATTATCC
10170351 TTTT-TAACAGGCATCAGGATATTTAGCTATGTAACTATATAT
1 TTTTATAACAGGCATCAGGATATTTAGCTATGTAACTATATAT
10170393 TTTTATAACAGGCATCAGGATATTTAGCTATGTAACTATATAT
1 TTTTATAACAGGCATCAGGATATTTAGCTATGTAACTATATAT
*
10170436 TTTTATAACAGGCATCAGGATATTTAGCAATGTAACTATATAT
1 TTTTATAACAGGCATCAGGATATTTAGCTATGTAACTATATAT
10170479 TTT
1 TTT
10170482 CTCATGCATG
Statistics
Matches: 87, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
42 4 0.05
43 83 0.95
ACGTcount: A:0.34, C:0.11, G:0.14, T:0.40
Consensus pattern (43 bp):
TTTTATAACAGGCATCAGGATATTTAGCTATGTAACTATATAT
Found at i:10173281 original size:21 final size:21
Alignment explanation
Indices: 10173256--10173338 Score: 157
Period size: 21 Copynumber: 4.0 Consensus size: 21
10173246 CCCTGAACAG
10173256 TGCTACAGTGCATCGATGCAT
1 TGCTACAGTGCATCGATGCAT
10173277 TGCTACAGTGCATCGATGCAT
1 TGCTACAGTGCATCGATGCAT
10173298 TGCTACAGTGCATCGATGCAT
1 TGCTACAGTGCATCGATGCAT
*
10173319 TGCTACAGTGCATTGATGCA
1 TGCTACAGTGCATCGATGCA
10173339 CAAAAATATC
Statistics
Matches: 61, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
21 61 1.00
ACGTcount: A:0.24, C:0.23, G:0.24, T:0.29
Consensus pattern (21 bp):
TGCTACAGTGCATCGATGCAT
Found at i:10173390 original size:21 final size:21
Alignment explanation
Indices: 10173364--10173403 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
10173354 AAAATTTTGT
10173364 ATCGATGCACTGCTACAGTGC
1 ATCGATGCACTGCTACAGTGC
10173385 ATCGATGCACTGCTACAGT
1 ATCGATGCACTGCTACAGT
10173404 AACTTTCGTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (21 bp):
ATCGATGCACTGCTACAGTGC
Found at i:10173986 original size:18 final size:18
Alignment explanation
Indices: 10173963--10174037 Score: 96
Period size: 18 Copynumber: 3.9 Consensus size: 18
10173953 ACTGAATATT
10173963 TGTCCCGAAGGACCACTA
1 TGTCCCGAAGGACCACTA
10173981 TGTCCCGAAGGACCACTGTATA
1 TGTCCCGAAGGACCAC----TA
*
10174003 TATCCCGAAGGACCACTA
1 TGTCCCGAAGGACCACTA
*
10174021 TGTCCCGAATGACCACT
1 TGTCCCGAAGGACCACT
10174038 GTATATCCCT
Statistics
Matches: 50, Mismatches: 3, Indels: 8
0.82 0.05 0.13
Matches are distributed among these distances:
18 33 0.66
22 17 0.34
ACGTcount: A:0.28, C:0.32, G:0.20, T:0.20
Consensus pattern (18 bp):
TGTCCCGAAGGACCACTA
Found at i:10174009 original size:40 final size:40
Alignment explanation
Indices: 10173965--10174043 Score: 149
Period size: 40 Copynumber: 2.0 Consensus size: 40
10173955 TGAATATTTG
10173965 TCCCGAAGGACCACTATGTCCCGAAGGACCACTGTATATA
1 TCCCGAAGGACCACTATGTCCCGAAGGACCACTGTATATA
*
10174005 TCCCGAAGGACCACTATGTCCCGAATGACCACTGTATAT
1 TCCCGAAGGACCACTATGTCCCGAAGGACCACTGTATAT
10174044 CCCTCGACTC
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
40 38 1.00
ACGTcount: A:0.29, C:0.30, G:0.19, T:0.22
Consensus pattern (40 bp):
TCCCGAAGGACCACTATGTCCCGAAGGACCACTGTATATA
Done.