Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032253.1 Gossypioides kirkii chromosome KI_11
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: 55708359
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 2600 characters in sequence are not A, C, G, or T
File 76 of 182
Found at i:24068623 original size:23 final size:23
Alignment explanation
Indices: 24068593--24068645 Score: 72
Period size: 23 Copynumber: 2.3 Consensus size: 23
24068583 ACACAATAGG
24068593 AAAGAATGAACTCTT-TGGCAAAC
1 AAAGAATG-ACTCTTGTGGCAAAC
* *
24068616 AAAGAATGGCTTTTGTGGCAAAC
1 AAAGAATGACTCTTGTGGCAAAC
24068639 AAAGAAT
1 AAAGAAT
24068646 AGCCTTCATG
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
22 4 0.15
23 23 0.85
ACGTcount: A:0.43, C:0.13, G:0.21, T:0.23
Consensus pattern (23 bp):
AAAGAATGACTCTTGTGGCAAAC
Found at i:24070431 original size:15 final size:16
Alignment explanation
Indices: 24070413--24070444 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
24070403 GTTGTTGGAT
24070413 TACT-GGCATAAAGCC
1 TACTAGGCATAAAGCC
24070428 TACTAGGCATAAAGCC
1 TACTAGGCATAAAGCC
24070444 T
1 T
24070445 GATAACACCG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 4 0.25
16 12 0.75
ACGTcount: A:0.34, C:0.25, G:0.19, T:0.22
Consensus pattern (16 bp):
TACTAGGCATAAAGCC
Found at i:24070462 original size:21 final size:21
Alignment explanation
Indices: 24070433--24070539 Score: 76
Period size: 21 Copynumber: 5.6 Consensus size: 21
24070423 AAGCCTACTA
*
24070433 GGCATAAAGCCTGATAACACC
1 GGCACAAAGCCTGATAACACC
24070454 GGCACAAAGCC---T-ACTA--
1 GGCACAAAGCCTGATAAC-ACC
*
24070470 GGCACAAAGCTTGATAACACC
1 GGCACAAAGCCTGATAACACC
24070491 GGCACAAAGCCT-ACT-A-A--
1 GGCACAAAGCCTGA-TAACACC
*
24070508 -GCACAAAGCCTGATAAAACC
1 GGCACAAAGCCTGATAACACC
*
24070528 GTCACAAAGCCT
1 GGCACAAAGCCT
24070540 ACTAGGCACA
Statistics
Matches: 68, Mismatches: 4, Indels: 28
0.68 0.04 0.28
Matches are distributed among these distances:
16 22 0.32
17 4 0.06
18 3 0.04
19 3 0.04
20 4 0.06
21 32 0.47
ACGTcount: A:0.39, C:0.30, G:0.18, T:0.13
Consensus pattern (21 bp):
GGCACAAAGCCTGATAACACC
Found at i:24070472 original size:37 final size:37
Alignment explanation
Indices: 24070417--24070557 Score: 228
Period size: 37 Copynumber: 3.8 Consensus size: 37
24070407 TTGGATTACT
* *
24070417 GGCATAAAGCCTACTAGGCATAAAGCCTGATAACACC
1 GGCACAAAGCCTACTAGGCACAAAGCCTGATAACACC
*
24070454 GGCACAAAGCCTACTAGGCACAAAGCTTGATAACACC
1 GGCACAAAGCCTACTAGGCACAAAGCCTGATAACACC
* *
24070491 GGCACAAAGCCTACTAAGCACAAAGCCTGATAAAACC
1 GGCACAAAGCCTACTAGGCACAAAGCCTGATAACACC
*
24070528 GTCACAAAGCCTACTAGGCACAAAGCCTGA
1 GGCACAAAGCCTACTAGGCACAAAGCCTGA
24070558 ATTTGTATAA
Statistics
Matches: 96, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 96 1.00
ACGTcount: A:0.39, C:0.29, G:0.18, T:0.13
Consensus pattern (37 bp):
GGCACAAAGCCTACTAGGCACAAAGCCTGATAACACC
Found at i:24070475 original size:16 final size:16
Alignment explanation
Indices: 24070454--24070555 Score: 55
Period size: 16 Copynumber: 5.8 Consensus size: 16
24070444 TGATAACACC
24070454 GGCACAAAGCCTACTA
1 GGCACAAAGCCTACTA
*
24070470 GGCACAAAGCTTGA-TAACA
1 GGCACAAAGCCT-ACT---A
24070489 CCGGCACAAAGCCTACTA
1 --GGCACAAAGCCTACTA
*
24070507 AGCACAAAGCCTGA-TAAAA
1 GGCACAAAGCCT-ACT---A
*
24070526 CCGTCACAAAGCCTACTA
1 --GGCACAAAGCCTACTA
24070544 GGCACAAAGCCT
1 GGCACAAAGCCT
24070556 GAATTTGTAT
Statistics
Matches: 66, Mismatches: 6, Indels: 28
0.66 0.06 0.28
Matches are distributed among these distances:
16 35 0.53
17 2 0.03
18 2 0.03
19 2 0.03
20 2 0.03
21 23 0.35
ACGTcount: A:0.39, C:0.30, G:0.18, T:0.13
Consensus pattern (16 bp):
GGCACAAAGCCTACTA
Found at i:24071309 original size:2 final size:2
Alignment explanation
Indices: 24071297--24071329 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
24071287 TCCACTAACT
*
24071297 TA TA AA 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 T
24071330 TTAATAATAA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:24072727 original size:3 final size:3
Alignment explanation
Indices: 24072719--24072750 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
24072709 AAACCCATGA
24072719 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
24072751 CACTCAAATC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:24075054 original size:18 final size:18
Alignment explanation
Indices: 24075031--24075082 Score: 52
Period size: 18 Copynumber: 2.9 Consensus size: 18
24075021 GAAACTCTAT
24075031 ATCCTTCAAG-GATTTTAA
1 ATCCTT-AAGAGATTTTAA
**
24075049 ATCCTTTTGAGATTTTAA
1 ATCCTTAAGAGATTTTAA
* *
24075067 ATCCTTTAGCGATTTT
1 ATCCTTAAGAGATTTT
24075083 CATATAAATT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
17 1 0.03
18 28 0.97
ACGTcount: A:0.27, C:0.15, G:0.12, T:0.46
Consensus pattern (18 bp):
ATCCTTAAGAGATTTTAA
Found at i:24076943 original size:14 final size:16
Alignment explanation
Indices: 24076914--24076945 Score: 50
Period size: 14 Copynumber: 2.1 Consensus size: 16
24076904 TAACTCAATA
24076914 AAACAATATAATTTGC
1 AAACAATATAATTTGC
24076930 AAACAAT-T-ATTTGC
1 AAACAATATAATTTGC
24076944 AA
1 AA
24076946 TATTCACTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 8 0.50
15 1 0.06
16 7 0.44
ACGTcount: A:0.50, C:0.12, G:0.06, T:0.31
Consensus pattern (16 bp):
AAACAATATAATTTGC
Found at i:24083164 original size:3 final size:3
Alignment explanation
Indices: 24083149--24083179 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
24083139 TTAATCCCGA
*
24083149 AAT AAT GAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
24083180 GTCGTAACTA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:24086773 original size:13 final size:13
Alignment explanation
Indices: 24086755--24086779 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
24086745 TCAAATTGCA
24086755 TTAAATGATTTAT
1 TTAAATGATTTAT
24086768 TTAAATGATTTA
1 TTAAATGATTTA
24086780 ATGAGAAATT
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:0.00, G:0.08, T:0.52
Consensus pattern (13 bp):
TTAAATGATTTAT
Found at i:24108155 original size:12 final size:12
Alignment explanation
Indices: 24108138--24108164 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
24108128 GGGTCACACG
24108138 ACCGTGCCTCAA
1 ACCGTGCCTCAA
24108150 ACCGTGCCTCAA
1 ACCGTGCCTCAA
24108162 ACC
1 ACC
24108165 TTCTGTATAC
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:0.44, G:0.15, T:0.15
Consensus pattern (12 bp):
ACCGTGCCTCAA
Found at i:24109074 original size:78 final size:78
Alignment explanation
Indices: 24108983--24109190 Score: 201
Period size: 78 Copynumber: 2.7 Consensus size: 78
24108973 TCAGAAAATT
* * ** *
24108983 GCTCTTACAAGCCAGTACAGT-ATATCGCTCTTCTA-G-GCCAGTGTAGT-ATATCGCTCTTACA
1 GCTCTTACGAGCCAATACAGTAAT-TCGCTC-TC-ACGAGCCAGTACAGTAAT-TCGCTCTCACA
* *
24109044 AGCTAGTTCAGTATATA
62 AGCCAGTTCAATATATA
* *
24109061 GCTCTTACGAGCCATTACAGTAATTCGCTCTCACGAGCCAGTACAGTAATTCGCTCTCACGAGCC
1 GCTCTTACGAGCCAATACAGTAATTCGCTCTCACGAGCCAGTACAGTAATTCGCTCTCACAAGCC
*
24109126 AGTTCAATATATC
66 AGTTCAATATATA
* * * * *
24109139 GCTCTTACGAGCCAATACAATAATTTC-ATCTCACAAGCCAATACTGTAATTC
1 GCTCTTACGAGCCAATACAGTAA-TTCGCTCTCACGAGCCAGTACAGTAATTC
24109191 TTCAGAATCT
Statistics
Matches: 110, Mismatches: 15, Indels: 10
0.81 0.11 0.07
Matches are distributed among these distances:
76 1 0.01
77 3 0.03
78 99 0.90
79 7 0.06
ACGTcount: A:0.29, C:0.26, G:0.15, T:0.29
Consensus pattern (78 bp):
GCTCTTACGAGCCAATACAGTAATTCGCTCTCACGAGCCAGTACAGTAATTCGCTCTCACAAGCC
AGTTCAATATATA
Found at i:24109160 original size:26 final size:26
Alignment explanation
Indices: 24108983--24109157 Score: 176
Period size: 26 Copynumber: 6.7 Consensus size: 26
24108973 TCAGAAAATT
*
24108983 GCTCTTACAAGCCAGTACAGTATATC
1 GCTCTTACGAGCCAGTACAGTATATC
* **
24109009 GCTCTT-CTAGGCCAGTGTAGTATATC
1 GCTCTTACGA-GCCAGTACAGTATATC
* * * *
24109035 GCTCTTACAAGCTAGTTCAGTATATA
1 GCTCTTACGAGCCAGTACAGTATATC
*
24109061 GCTCTTACGAGCCATTACAGTA-ATTC
1 GCTCTTACGAGCCAGTACAGTATA-TC
*
24109087 GCTCTCACGAGCCAGTACAGTA-ATTC
1 GCTCTTACGAGCCAGTACAGTATA-TC
* * *
24109113 GCTCTCACGAGCCAGTTCAATATATC
1 GCTCTTACGAGCCAGTACAGTATATC
*
24109139 GCTCTTACGAGCCAATACA
1 GCTCTTACGAGCCAGTACA
24109158 ATAATTTCAT
Statistics
Matches: 125, Mismatches: 20, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
25 3 0.02
26 119 0.95
27 3 0.02
ACGTcount: A:0.27, C:0.27, G:0.17, T:0.29
Consensus pattern (26 bp):
GCTCTTACGAGCCAGTACAGTATATC
Found at i:24115080 original size:13 final size:11
Alignment explanation
Indices: 24115048--24115095 Score: 53
Period size: 11 Copynumber: 4.3 Consensus size: 11
24115038 CCATTTTCTA
*
24115048 AATAAAATAAT
1 AATAAAATATT
24115059 AAT-AAATATTT
1 AATAAAATA-TT
24115070 AAGTAAAATATT
1 AA-TAAAATATT
*
24115082 AATAAAATAAT
1 AATAAAATATT
24115093 AAT
1 AAT
24115096 TAATTAATTA
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
10 5 0.16
11 17 0.53
12 5 0.16
13 5 0.16
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (11 bp):
AATAAAATATT
Found at i:24116369 original size:17 final size:16
Alignment explanation
Indices: 24116309--24116389 Score: 72
Period size: 16 Copynumber: 4.8 Consensus size: 16
24116299 AAATAACCCT
24116309 AAATCCCCCAAATCATCTC
1 AAAT-CCCCAAATCA--TC
* *
24116328 AAATCCCCAAATTATA
1 AAATCCCCAAATCATC
*
24116344 AAATCCCCAACTCATC
1 AAATCCCCAAATCATC
* *
24116360 AAATTCCCCAAATCGTG
1 AAA-TCCCCAAATCATC
*
24116377 AATTCCCCAAATC
1 AAATCCCCAAATC
24116390 CATAACATCC
Statistics
Matches: 52, Mismatches: 9, Indels: 5
0.79 0.14 0.08
Matches are distributed among these distances:
16 27 0.52
17 12 0.23
18 9 0.17
19 4 0.08
ACGTcount: A:0.40, C:0.36, G:0.02, T:0.22
Consensus pattern (16 bp):
AAATCCCCAAATCATC
Found at i:24118820 original size:21 final size:21
Alignment explanation
Indices: 24118794--24118840 Score: 69
Period size: 21 Copynumber: 2.2 Consensus size: 21
24118784 GGTTGATTCA
*
24118794 AAAGATAAGAAG-AGAAAGCAT
1 AAAGATAAGAAGAAGAAA-CAC
24118815 AAAGATAAGAAGAAGAAACAC
1 AAAGATAAGAAGAAGAAACAC
24118836 AAAGA
1 AAAGA
24118841 AGAAGGCGAG
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
21 19 0.79
22 5 0.21
ACGTcount: A:0.66, C:0.06, G:0.21, T:0.06
Consensus pattern (21 bp):
AAAGATAAGAAGAAGAAACAC
Found at i:24119593 original size:10 final size:10
Alignment explanation
Indices: 24119580--24119626 Score: 55
Period size: 10 Copynumber: 4.9 Consensus size: 10
24119570 AAAAATTCAC
24119580 AAAAAGAAAG
1 AAAAAGAAAG
24119590 AAAAAGAAAG
1 AAAAAGAAAG
*
24119600 AAGAAAAAAAG
1 AA-AAAGAAAG
24119611 -AAAA-AAAG
1 AAAAAGAAAG
24119619 -AAAAGAAA
1 AAAAAGAAA
24119627 TATATTGTCA
Statistics
Matches: 34, Mismatches: 1, Indels: 5
0.85 0.03 0.12
Matches are distributed among these distances:
8 8 0.24
9 6 0.18
10 13 0.38
11 7 0.21
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (10 bp):
AAAAAGAAAG
Found at i:24119613 original size:8 final size:8
Alignment explanation
Indices: 24119580--24119622 Score: 52
Period size: 8 Copynumber: 5.2 Consensus size: 8
24119570 AAAAATTCAC
24119580 AAAAAGAA
1 AAAAAGAA
24119588 AGAAAA-AGA
1 A-AAAAGA-A
*
24119597 AAGAAGAA
1 AAAAAGAA
24119605 AAAAAGAA
1 AAAAAGAA
24119613 AAAAAGAA
1 AAAAAGAA
24119621 AA
1 AA
24119623 GAAATATATT
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
8 23 0.77
9 7 0.23
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (8 bp):
AAAAAGAA
Found at i:24126056 original size:22 final size:21
Alignment explanation
Indices: 24126020--24126123 Score: 93
Period size: 22 Copynumber: 4.8 Consensus size: 21
24126010 ATTATATTGT
*
24126020 TGTTTTGGTGCTATTTTTTGC
1 TGTTTTGGTGCTATTTTTTAC
*
24126041 TGTTTTGGTTGCTA-TTTTTGC
1 TGTTTTGG-TGCTATTTTTTAC
* * *
24126062 TGTTTTGGTGTTGTGTTTTTAT
1 TGTTTTGGTGCTAT-TTTTTAC
* *
24126084 TGTTTTGATGCTTTTTTTTTAC
1 TGTTTTGGTGC-TATTTTTTAC
*
24126106 TATTTTGGTTGCTATTTT
1 TGTTTTGG-TGCTATTTT
24126124 GGTGCTATTT
Statistics
Matches: 67, Mismatches: 11, Indels: 9
0.77 0.13 0.10
Matches are distributed among these distances:
20 3 0.04
21 23 0.34
22 36 0.54
23 5 0.07
ACGTcount: A:0.07, C:0.07, G:0.21, T:0.65
Consensus pattern (21 bp):
TGTTTTGGTGCTATTTTTTAC
Found at i:24126120 original size:12 final size:12
Alignment explanation
Indices: 24126105--24126179 Score: 59
Period size: 12 Copynumber: 6.6 Consensus size: 12
24126095 TTTTTTTTTA
24126105 CTATTTTGGTTG
1 CTATTTTGGTTG
24126117 CTATTTTGG-TG
1 CTATTTTGGTTG
*
24126128 CTATTTT--TTA
1 CTATTTTGGTTG
24126138 CTATTTTGG-TG
1 CTATTTTGGTTG
* * **
24126149 TTGTTTTTATTG
1 CTATTTTGGTTG
* *
24126161 TTATTTTTGTTG
1 CTATTTTGGTTG
24126173 CTATTTT
1 CTATTTT
24126180 TTCTATTATT
Statistics
Matches: 50, Mismatches: 9, Indels: 8
0.75 0.13 0.12
Matches are distributed among these distances:
10 8 0.16
11 15 0.30
12 27 0.54
ACGTcount: A:0.11, C:0.07, G:0.17, T:0.65
Consensus pattern (12 bp):
CTATTTTGGTTG
Found at i:24126127 original size:56 final size:56
Alignment explanation
Indices: 24126058--24126179 Score: 131
Period size: 56 Copynumber: 2.2 Consensus size: 56
24126048 GTTGCTATTT
* * * * *
24126058 TTGCTGTTTTGGTGTTGTGTTTTTATTGTTTTGATGCTT-TTTTT-TTACTATTTTGG
1 TTGCTATTTTGGTGCTAT-TTTTTACTATTTTGATG-TTGTTTTTATTACTATTTTGG
* ** *
24126114 TTGCTATTTTGGTGCTATTTTTTACTATTTTGGTGTTGTTTTTATTGTTATTTTTG
1 TTGCTATTTTGGTGCTATTTTTTACTATTTTGATGTTGTTTTTATTACTATTTTGG
24126170 TTGCTATTTT
1 TTGCTATTTT
24126180 TTCTATTATT
Statistics
Matches: 55, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
54 2 0.04
55 19 0.35
56 34 0.62
ACGTcount: A:0.09, C:0.06, G:0.19, T:0.66
Consensus pattern (56 bp):
TTGCTATTTTGGTGCTATTTTTTACTATTTTGATGTTGTTTTTATTACTATTTTGG
Found at i:24126171 original size:21 final size:21
Alignment explanation
Indices: 24126147--24126236 Score: 56
Period size: 24 Copynumber: 4.0 Consensus size: 21
24126137 ACTATTTTGG
*
24126147 TGTTGTTTTTATTGTTATTTT
1 TGTTGTTTTGATTGTTATTTT
** *
24126168 TGTTGCTATTTTTTCTATTATTTT
1 TGTTG-T-TTTGAT-TGTTATTTT
*
24126192 TGCTACTGTTTTGGTTGTTATTTT
1 TG-T--TGTTTTGATTGTTATTTT
* *
24126216 GGTTGTTTGGA-TGTTATTTT
1 TGTTGTTTTGATTGTTATTTT
24126236 T
1 T
24126237 ATGCGTTTCT
Statistics
Matches: 54, Mismatches: 9, Indels: 13
0.71 0.12 0.17
Matches are distributed among these distances:
20 9 0.17
21 11 0.20
22 1 0.02
23 6 0.11
24 19 0.35
25 5 0.09
26 1 0.02
27 2 0.04
ACGTcount: A:0.10, C:0.04, G:0.18, T:0.68
Consensus pattern (21 bp):
TGTTGTTTTGATTGTTATTTT
Found at i:24126179 original size:24 final size:23
Alignment explanation
Indices: 24126152--24126220 Score: 57
Period size: 24 Copynumber: 2.9 Consensus size: 23
24126142 TTTGGTGTTG
24126152 TTTTTATTGTTATTTTTGTTGCTA
1 TTTTT-TTGTTATTTTTGTTGCTA
* * * *
24126176 TTTTTTCTATTATTTTTGCTACTG
1 TTTTTT-TGTTATTTTTGTTGCTA
* *
24126200 TTTTGGTTGTTATTTTGGTTG
1 TTTT-TTTGTTATTTTTGTTG
24126221 TTTGGATGTT
Statistics
Matches: 34, Mismatches: 9, Indels: 4
0.72 0.19 0.09
Matches are distributed among these distances:
23 1 0.03
24 32 0.94
25 1 0.03
ACGTcount: A:0.10, C:0.06, G:0.16, T:0.68
Consensus pattern (23 bp):
TTTTTTTGTTATTTTTGTTGCTA
Found at i:24126180 original size:12 final size:12
Alignment explanation
Indices: 24126086--24126180 Score: 56
Period size: 12 Copynumber: 8.3 Consensus size: 12
24126076 GTTTTTATTG
*
24126086 TTTTGATGCT-T
1 TTTTGTTGCTAT
* *
24126097 TTTTTTTACTAT
1 TTTTGTTGCTAT
*
24126109 TTTGGTTGCTA-
1 TTTTGTTGCTAT
*
24126120 TTTTGGTGCTA-
1 TTTTGTTGCTAT
*
24126131 TTTT-TTACTA-
1 TTTTGTTGCTAT
* * *
24126141 TTTTGGTGTTGT
1 TTTTGTTGCTAT
* *
24126153 TTTTATTGTTAT
1 TTTTGTTGCTAT
24126165 TTTTGTTGCTAT
1 TTTTGTTGCTAT
24126177 TTTT
1 TTTT
24126181 TCTATTATTT
Statistics
Matches: 62, Mismatches: 19, Indels: 5
0.72 0.22 0.06
Matches are distributed among these distances:
10 8 0.13
11 22 0.35
12 32 0.52
ACGTcount: A:0.11, C:0.06, G:0.16, T:0.67
Consensus pattern (12 bp):
TTTTGTTGCTAT
Found at i:24126195 original size:77 final size:76
Alignment explanation
Indices: 24126033--24126215 Score: 183
Period size: 77 Copynumber: 2.3 Consensus size: 76
24126023 TTTGGTGCTA
* * * *
24126033 TTTTTTGCTGTTTTGGTTGCTATTTTTGCTGTTTTGGTGTTGTGTTTTTATTGTTTTGATGCTTT
1 TTTTTTGCTATTTTGGTTGCTATTTTTACTATTTTGGTGTTGTGTTTTTATTGTTTTGATGCTTA
24126098 TTTTTTACTAT
66 TTTTTTACTAT
* * * * *
24126109 TTTGGTTGCTATTTTGG-TGCTATTTTTTACTATTTTGGTGTTGTTTTTATTGTTATTTTTGTTG
1 TTT-TTTGCTATTTTGGTTGCTA-TTTTTACTATTTTGGTGTTGTGTTT-TTATT-GTTTTGATG
24126173 C-TATTTTTT-CTAT
62 CTTATTTTTTACTAT
*
24126186 TATTTTTGCTACTGTTTTGGTTGTTATTTT
1 T-TTTTTGCTA---TTTTGGTTGCTATTTT
24126216 GGTTGTTTGG
Statistics
Matches: 87, Mismatches: 11, Indels: 14
0.78 0.10 0.12
Matches are distributed among these distances:
76 8 0.09
77 44 0.51
78 13 0.15
79 8 0.09
80 10 0.11
81 4 0.05
ACGTcount: A:0.09, C:0.07, G:0.18, T:0.67
Consensus pattern (76 bp):
TTTTTTGCTATTTTGGTTGCTATTTTTACTATTTTGGTGTTGTGTTTTTATTGTTTTGATGCTTA
TTTTTTACTAT
Found at i:24128038 original size:33 final size:33
Alignment explanation
Indices: 24127929--24128040 Score: 131
Period size: 33 Copynumber: 3.4 Consensus size: 33
24127919 TACACCTCCT
* *
24127929 ACATCACCCT-CCCAACAACTTCTACCCATTCC
1 ACATCACCCTCCCCATCAACTTCTACCCATTCA
* * * *
24127961 AGATCACCTTCACCATCAGA-TTCTACCCCTTCA
1 ACATCACCCTCCCCATCA-ACTTCTACCCATTCA
24127994 TA-ATCACCCTCCCCATCAACTTCTACCCATTCA
1 -ACATCACCCTCCCCATCAACTTCTACCCATTCA
24128027 ACATCACCCTCCCC
1 ACATCACCCTCCCC
24128041 TACAGTCAAC
Statistics
Matches: 66, Mismatches: 9, Indels: 9
0.79 0.11 0.11
Matches are distributed among these distances:
32 10 0.15
33 54 0.82
34 2 0.03
ACGTcount: A:0.27, C:0.47, G:0.02, T:0.24
Consensus pattern (33 bp):
ACATCACCCTCCCCATCAACTTCTACCCATTCA
Found at i:24130188 original size:24 final size:24
Alignment explanation
Indices: 24130125--24130301 Score: 183
Period size: 24 Copynumber: 7.4 Consensus size: 24
24130115 CAAGTTTCAA
* *
24130125 TTACATTTATGCTCATCATCCACT
1 TTACGTTTATGCTCATCAGCCACT
* * * * *
24130149 ATACGTTTCTACTCGTCAACCACT
1 TTACGTTTATGCTCATCAGCCACT
* * *
24130173 TTACATTTATGATCGTCAGCCACT
1 TTACGTTTATGCTCATCAGCCACT
*
24130197 TTACGTTTATGCTCTTCAGCCACT
1 TTACGTTTATGCTCATCAGCCACT
* *
24130221 TTACGTTTATGCTTATCGGCCACT
1 TTACGTTTATGCTCATCAGCCACT
* * *
24130245 TTACATTTATGCTCGTCGGCCACT
1 TTACGTTTATGCTCATCAGCCACT
* *
24130269 TTACGTTTTTGCTCATCAACCACT
1 TTACGTTTATGCTCATCAGCCACT
*
24130293 TTGCGTTTA
1 TTACGTTTA
24130302 CTCTCGCCAG
Statistics
Matches: 125, Mismatches: 28, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 125 1.00
ACGTcount: A:0.20, C:0.28, G:0.12, T:0.40
Consensus pattern (24 bp):
TTACGTTTATGCTCATCAGCCACT
Found at i:24130247 original size:72 final size:72
Alignment explanation
Indices: 24130125--24130301 Score: 219
Period size: 72 Copynumber: 2.5 Consensus size: 72
24130115 CAAGTTTCAA
* * * * * ** **
24130125 TTACATTTATGCTCATCATCCACTATACGTTTCTACTCGTCAACCACTTTACATTTATGATCGTC
1 TTACGTTTATGCTCATCAACCACTTTACGTTTATGCTTATCGGCCACTTTACATTTATGATCGTC
24130190 AGCCACT
66 AGCCACT
* * *
24130197 TTACGTTTATGCTCTTCAGCCACTTTACGTTTATGCTTATCGGCCACTTTACATTTATGCTCGTC
1 TTACGTTTATGCTCATCAACCACTTTACGTTTATGCTTATCGGCCACTTTACATTTATGATCGTC
*
24130262 GGCCACT
66 AGCCACT
* *
24130269 TTACGTTTTTGCTCATCAACCACTTTGCGTTTA
1 TTACGTTTATGCTCATCAACCACTTTACGTTTA
24130302 CTCTCGCCAG
Statistics
Matches: 89, Mismatches: 16, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
72 89 1.00
ACGTcount: A:0.20, C:0.28, G:0.12, T:0.40
Consensus pattern (72 bp):
TTACGTTTATGCTCATCAACCACTTTACGTTTATGCTTATCGGCCACTTTACATTTATGATCGTC
AGCCACT
Found at i:24131957 original size:14 final size:14
Alignment explanation
Indices: 24131940--24131966 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
24131930 ACTAATTCGT
24131940 TTAATTTTCTTTTG
1 TTAATTTTCTTTTG
24131954 TTAATTTTCTTTT
1 TTAATTTTCTTTT
24131967 ATTTCTTTAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.15, C:0.07, G:0.04, T:0.74
Consensus pattern (14 bp):
TTAATTTTCTTTTG
Found at i:24145205 original size:41 final size:41
Alignment explanation
Indices: 24145114--24145300 Score: 241
Period size: 41 Copynumber: 4.5 Consensus size: 41
24145104 CCTTATGCTC
* * * * *
24145114 TTTCGAGTCATAAGTCTTCCTTTAACCATATTCTCATTCTCAA
1 TTTCGAGACATGAGTCTTCC-TTAATCAAAATCTCATTCTC-A
* *
24145157 CTT-GAGACATGAGTCTTCCTTAATCAAAATCTCATTCTTA
1 TTTCGAGACATGAGTCTTCCTTAATCAAAATCTCATTCTCA
* *
24145197 TTTCGAGACATGAGTCTTCCTTATTCATAATCTCATTCTCA
1 TTTCGAGACATGAGTCTTCCTTAATCAAAATCTCATTCTCA
*
24145238 TTTCGAGACATGAGTCTTCTTTAATCAAAATCTCATTCTCA
1 TTTCGAGACATGAGTCTTCCTTAATCAAAATCTCATTCTCA
* *
24145279 TTTCGAAACATAAGTCTTCCTT
1 TTTCGAGACATGAGTCTTCCTT
24145301 TTATACAATT
Statistics
Matches: 126, Mismatches: 17, Indels: 4
0.86 0.12 0.03
Matches are distributed among these distances:
40 3 0.02
41 107 0.85
42 14 0.11
43 2 0.02
ACGTcount: A:0.27, C:0.24, G:0.09, T:0.40
Consensus pattern (41 bp):
TTTCGAGACATGAGTCTTCCTTAATCAAAATCTCATTCTCA
Found at i:24145247 original size:82 final size:82
Alignment explanation
Indices: 24145114--24145344 Score: 277
Period size: 82 Copynumber: 2.8 Consensus size: 82
24145104 CCTTATGCTC
* *
24145114 TTTCGAGTCATAAGTCTTCCTTTAACCATATTCTCATTCTCAACTTGAGACATGAGTCTTCCTTA
1 TTTCGAGACATAAGTCTTCC-TTAACCATAATCTCATTCTCAACTTGAGACATGAGTCTTCCTTA
*
24145179 ATCAAAATCTCATTCTTA
65 ATCAAAATCTCATTCTCA
* ** * *
24145197 TTTCGAGACATGAGTCTTCCTTATTCATAATCTCATTCTC-ATTTCGAGACATGAGTCTTCTTTA
1 TTTCGAGACATAAGTCTTCCTTAACCATAATCTCATTCTCAACTT-GAGACATGAGTCTTCCTTA
24145261 ATCAAAATCTCATTCTCA
65 ATCAAAATCTCATTCTCA
* * * * *
24145279 TTTCGAAACATAAGTCTTCCTTTTATACAAT-TTCTCATGCTCAACCCTGAGACATGAGTCTTCC
1 TTTCGAGACATAAGTCTTCC--TTA-ACCATAATCTCATTCTCAA-CTTGAGACATGAGTCTTCC
24145343 TT
62 TT
24145345 TTTATACACC
Statistics
Matches: 124, Mismatches: 18, Indels: 10
0.82 0.12 0.07
Matches are distributed among these distances:
81 3 0.02
82 70 0.56
83 18 0.15
84 12 0.10
85 20 0.16
86 1 0.01
ACGTcount: A:0.27, C:0.24, G:0.10, T:0.39
Consensus pattern (82 bp):
TTTCGAGACATAAGTCTTCCTTAACCATAATCTCATTCTCAACTTGAGACATGAGTCTTCCTTAA
TCAAAATCTCATTCTCA
Found at i:24147615 original size:10 final size:10
Alignment explanation
Indices: 24147593--24147641 Score: 62
Period size: 11 Copynumber: 4.5 Consensus size: 10
24147583 TAGTCACTTG
24147593 AAAAAGAAAA
1 AAAAAGAAAA
24147603 AAATAAGAAAA
1 AAA-AAGAAAA
24147614 AAAAAGAGAAA
1 AAAAAGA-AAA
24147625 AGAAAAGAAGAA
1 A-AAAAGAA-AA
24147637 AAAAA
1 AAAAA
24147642 ATTTATTGCT
Statistics
Matches: 35, Mismatches: 0, Indels: 7
0.83 0.00 0.17
Matches are distributed among these distances:
10 7 0.20
11 19 0.54
12 9 0.26
ACGTcount: A:0.84, C:0.00, G:0.14, T:0.02
Consensus pattern (10 bp):
AAAAAGAAAA
Found at i:24147617 original size:13 final size:12
Alignment explanation
Indices: 24147593--24147642 Score: 57
Period size: 12 Copynumber: 4.2 Consensus size: 12
24147583 TAGTCACTTG
24147593 AAAAAG-AAAAA
1 AAAAAGAAAAAA
*
24147604 AATAAGAAAAAA
1 AAAAAGAAAAAA
*
24147616 AAAGAGAAAAGAA
1 AAAAAGAAAA-AA
*
24147629 AAGAAGAAAAAA
1 AAAAAGAAAAAA
24147641 AA
1 AA
24147643 TTTATTGCTA
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
11 5 0.16
12 17 0.53
13 10 0.31
ACGTcount: A:0.84, C:0.00, G:0.14, T:0.02
Consensus pattern (12 bp):
AAAAAGAAAAAA
Found at i:24149720 original size:24 final size:27
Alignment explanation
Indices: 24149665--24149725 Score: 74
Period size: 24 Copynumber: 2.4 Consensus size: 27
24149655 AAAACATAAG
*
24149665 ATCAATTTAGCTAATAATGTAATTTAA
1 ATCAATTTAGCTAATAATCTAATTTAA
* *
24149692 TTCAATTTA-CTAATTATCT-A-TTAA
1 ATCAATTTAGCTAATAATCTAATTTAA
24149716 ATCAATTTAG
1 ATCAATTTAG
24149726 TTCATTCATA
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
24 12 0.41
25 1 0.03
26 8 0.28
27 8 0.28
ACGTcount: A:0.41, C:0.10, G:0.05, T:0.44
Consensus pattern (27 bp):
ATCAATTTAGCTAATAATCTAATTTAA
Found at i:24151601 original size:13 final size:13
Alignment explanation
Indices: 24151583--24151618 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 13
24151573 TTCTACAAAT
24151583 ACTTCATATAAAC
1 ACTTCATATAAAC
*
24151596 ACTTCATATAATC
1 ACTTCATATAAAC
*
24151609 ATTTCATATA
1 ACTTCATATA
24151619 TCTATTTCCA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.42, C:0.19, G:0.00, T:0.39
Consensus pattern (13 bp):
ACTTCATATAAAC
Found at i:24152249 original size:16 final size:16
Alignment explanation
Indices: 24152230--24152286 Score: 62
Period size: 16 Copynumber: 3.5 Consensus size: 16
24152220 GGATGTTATG
*
24152230 GATTTGGGGGTTTTAC
1 GATTTGGGGATTTTAC
*
24152246 GATTTGGGGAATTTAAC
1 GATTTGGGG-ATTTTAC
*
24152263 GAGTTGGGGATTTTA-
1 GATTTGGGGATTTTAC
24152278 GAATTTGGG
1 G-ATTTGGG
24152287 AAAAGTTTTA
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
15 1 0.03
16 20 0.59
17 13 0.38
ACGTcount: A:0.21, C:0.04, G:0.37, T:0.39
Consensus pattern (16 bp):
GATTTGGGGATTTTAC
Found at i:24152269 original size:17 final size:17
Alignment explanation
Indices: 24152244--24152277 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
24152234 TGGGGGTTTT
*
24152244 ACGATTTGGGGAATTTA
1 ACGAGTTGGGGAATTTA
*
24152261 ACGAGTTGGGGATTTTA
1 ACGAGTTGGGGAATTTA
24152278 GAATTTGGGA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.26, C:0.06, G:0.32, T:0.35
Consensus pattern (17 bp):
ACGAGTTGGGGAATTTA
Found at i:24152944 original size:21 final size:21
Alignment explanation
Indices: 24152896--24152951 Score: 60
Period size: 21 Copynumber: 2.7 Consensus size: 21
24152886 CCAGTTTCAA
* *
24152896 CCAATTTTTGTG-TCTCAATC
1 CCAATTTTTGAGTTCTCAAGC
* *
24152916 TCAGTTTTTGAGTTCTCAAGC
1 CCAATTTTTGAGTTCTCAAGC
*
24152937 CCAATTTTTAAGTTC
1 CCAATTTTTGAGTTC
24152952 AAATACCCAT
Statistics
Matches: 28, Mismatches: 7, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
20 9 0.32
21 19 0.68
ACGTcount: A:0.21, C:0.21, G:0.12, T:0.45
Consensus pattern (21 bp):
CCAATTTTTGAGTTCTCAAGC
Found at i:24158876 original size:20 final size:20
Alignment explanation
Indices: 24158851--24158888 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
24158841 TTTTCTGTGT
24158851 ATTGAACTTGGCAATTGTAC
1 ATTGAACTTGGCAATTGTAC
*
24158871 ATTGAACTTGGTAATTGT
1 ATTGAACTTGGCAATTGT
24158889 TTTTTTTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.29, C:0.11, G:0.21, T:0.39
Consensus pattern (20 bp):
ATTGAACTTGGCAATTGTAC
Found at i:24158937 original size:43 final size:44
Alignment explanation
Indices: 24158876--24158962 Score: 149
Period size: 44 Copynumber: 2.0 Consensus size: 44
24158866 TGTACATTGA
*
24158876 ACTTGGTAATTG-TTTTTTTTTTTCAAGTTAGATTTTGAACTTG
1 ACTTGGTAATTGTTTTTTTTTTTTCAAGTTAGATCTTGAACTTG
*
24158919 ACTTGGTAATTGTTTTTTTTTTTTCAAGTTAGGTCTTGAACTTG
1 ACTTGGTAATTGTTTTTTTTTTTTCAAGTTAGATCTTGAACTTG
24158963 TTCTTACATT
Statistics
Matches: 41, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
43 12 0.29
44 29 0.71
ACGTcount: A:0.20, C:0.08, G:0.17, T:0.55
Consensus pattern (44 bp):
ACTTGGTAATTGTTTTTTTTTTTTCAAGTTAGATCTTGAACTTG
Found at i:24161648 original size:18 final size:19
Alignment explanation
Indices: 24161620--24161655 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
24161610 ATAGTAAAAT
*
24161620 TTTTATTTAAATTTTTAAA
1 TTTTATTTAAAATTTTAAA
24161639 TTTT-TTTAAAATTTTAA
1 TTTTATTTAAAATTTTAA
24161656 GTTAATAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 12 0.75
19 4 0.25
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (19 bp):
TTTTATTTAAAATTTTAAA
Found at i:24161650 original size:19 final size:20
Alignment explanation
Indices: 24161616--24161653 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
24161606 TAAAATAGTA
*
24161616 AAATTTTTATTTAAATTTTT
1 AAATTTTTATTAAAATTTTT
24161636 AAATTTTT-TTAAAATTTT
1 AAATTTTTATTAAAATTTT
24161654 AAGTTAATAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (20 bp):
AAATTTTTATTAAAATTTTT
Found at i:24163195 original size:30 final size:30
Alignment explanation
Indices: 24163159--24163215 Score: 114
Period size: 30 Copynumber: 1.9 Consensus size: 30
24163149 CTTCTGATTT
24163159 AATTCGTCGTCTCGTCGTTCTAAATTATCC
1 AATTCGTCGTCTCGTCGTTCTAAATTATCC
24163189 AATTCGTCGTCTCGTCGTTCTAAATTA
1 AATTCGTCGTCTCGTCGTTCTAAATTA
24163216 CCCTTCTGTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.21, C:0.25, G:0.14, T:0.40
Consensus pattern (30 bp):
AATTCGTCGTCTCGTCGTTCTAAATTATCC
Found at i:24173333 original size:52 final size:52
Alignment explanation
Indices: 24173277--24173479 Score: 121
Period size: 52 Copynumber: 4.1 Consensus size: 52
24173267 TATATTTTTA
24173277 AAAATAAAAATTTGTTTTTAGTCATTT-TAAAAAAAAGTTTAAATTTTTAAAC
1 AAAAT-AAAATTTGTTTTTAGTCATTTATAAAAAAAAGTTTAAATTTTTAAAC
*** * * ** * * *
24173329 AAAATTTTGATTT-TTTTTAATTATTTCGAAATAAAAGTTTAGATTTTTAAAT
1 AAAA-TAAAATTTGTTTTTAGTCATTTATAAAAAAAAGTTTAAATTTTTAAAC
** * *
24173381 AAAAT---A-TTG-AATT--TC-TTTAAAAAAGATAAAGTTTAGA-TTTT--A-
1 AAAATAAAATTTGTTTTTAGTCATTTATAAAA-A-AAAGTTTAAATTTTTAAAC
*
24173423 AAAATAAAATATGTTTTTAGTCATTT-TAAAGAAAAAGTTTAAATTTTTAAAC
1 AAAATAAAATTTGTTTTTAGTCATTTATAAA-AAAAAGTTTAAATTTTTAAAC
24173475 AAAAT
1 AAAAT
24173480 TTTGATTTTT
Statistics
Matches: 113, Mismatches: 20, Indels: 36
0.67 0.12 0.21
Matches are distributed among these distances:
42 5 0.04
43 1 0.01
44 6 0.05
45 7 0.06
46 12 0.11
47 6 0.05
48 10 0.09
49 10 0.09
50 4 0.04
51 13 0.12
52 38 0.34
53 1 0.01
ACGTcount: A:0.46, C:0.03, G:0.07, T:0.43
Consensus pattern (52 bp):
AAAATAAAATTTGTTTTTAGTCATTTATAAAAAAAAGTTTAAATTTTTAAAC
Found at i:24173421 original size:147 final size:146
Alignment explanation
Indices: 24173187--24174002 Score: 1018
Period size: 149 Copynumber: 5.6 Consensus size: 146
24173177 AGGGGGAAAG
* * * *
24173187 TTTGATTTTTTAAACAATTTCGAAATAAAAGTTTTGATTTTTTAAG-AATAATAGTGATTTTCTT
1 TTTGATTTTTT-AACTATTTCGAAATAAAAGTTTAGA-TTTTTAAGTAA-AGTAGTGAATTTCTT
* *
24173251 TAAAAAAGAGAAA-TTCTATATTTTTAAAAATAAAAATTTGTTTTTAGTCATTTTAAA-AAAAAG
63 TAAAAAAAAGAAAGTT-TAGATTTTTAAAAATAAAAATTTGTTTTTAGTCATTTTAAAGAAAAAG
24173314 TTTAAATTTTTAAACAAAAT
127 TTTAAATTTTTAAACAAAAT
* * * *
24173334 TTTGATTTTTTTTAATTATTTCGAAATAAAAGTTTAGATTTTTAAATAAAATATTGAATTTCTTT
1 TTTGA--TTTTTTAACTATTTCGAAATAAAAGTTTAGATTTTTAAGTAAAGTAGTGAATTTCTTT
* * *
24173399 AAAAAAGATAAAGTTTAGA-TTTTAAAAAT-AAAATATGTTTTTAGTCATTTTAAAGAAAAAGTT
64 AAAAAAAAGAAAGTTTAGATTTTTAAAAATAAAAATTTGTTTTTAGTCATTTTAAAGAAAAAGTT
24173462 TAAATTTTTAAACAAAAT
129 TAAATTTTTAAACAAAAT
* *
24173480 TTTGATTTTTTAACTATTTCGAAATAAAAGTTT-GAATTTTTAAGTAAAGTAGTGATTTTCATTA
1 TTTGATTTTTTAACTATTTCGAAATAAAAGTTTAG-ATTTTTAAGTAAAGTAGTGAATTTCTTTA
* *
24173544 AAAAAAAGAAAGTTTAGATTTTTAAAAAATAAAAAATCTGTTTTTTAGTTATTTTAAAGAAAAAG
65 AAAAAAAGAAAGTTTAGATTTTT-AAAAAT-AAAAATTTG-TTTTTAGTCATTTTAAAGAAAAAG
24173609 TTTAAATTTTTAAACAAAAT
127 TTTAAATTTTTAAACAAAAT
* * * *
24173629 TTTGATTTTTTAACTATTTCGAAATAAAAATTTGGATTTTTAAGTAAAGTAATG-ATTTTTATTA
1 TTTGATTTTTTAACTATTTCGAAATAAAAGTTTAGATTTTTAAGTAAAGTAGTGAATTTCT-TTA
** * *
24173693 AAAAAAAGAAAGTTTAGATTTAAAAAAAATAAAAATTTGTTTTTTGTCATTTTAAAG-AAAATTT
65 AAAAAAAGAAAGTTTAGATTT-TTAAAAATAAAAATTTGTTTTTAGTCATTTTAAAGAAAAAGTT
24173757 TAAATTTTTAAACAAAAT
129 TAAATTTTTAAACAAAAT
*
24173775 TTTGATTTTTTTAACTATTTCGAAATAAAAATTTAGATTTTTAAGTAAAGTAGT-AA-TT-TTTA
1 TTTGA-TTTTTTAACTATTTCGAAATAAAAGTTTAGATTTTTAAGTAAAGTAGTGAATTTCTTTA
** * * *
24173837 TTAAAAA-AAAGTTTAGA--TTT-AAAACAAAAATTATGTTTTTTTAGTGATTTTAAAGAGAAAG
65 AAAAAAAGAAAGTTTAGATTTTTAAAAATAAAAATT-TG--TTTTTAGTCATTTTAAAGAAAAAG
*
24173898 TTTAAATTTTTAAACAAAGT
127 TTTAAATTTTTAAACAAAAT
* * * *
24173918 TTTGATTTTTTAACTATTTCGAAATAAAAGTTTTGATTTTGAAGTAAAGTAGTGATTTTGTTTTA
1 TTTGATTTTTTAACTATTTCGAAATAAAAGTTTAGATTTTTAAGTAAAGTAGTGAATTT-CTTTA
*
24173983 ATAAAAAA-AAA-TTTTGATTT
65 A-AAAAAAGAAAGTTTAGATTT
24174003 CAAAAAAAAA
Statistics
Matches: 593, Mismatches: 49, Indels: 53
0.85 0.07 0.08
Matches are distributed among these distances:
139 11 0.02
140 2 0.00
141 1 0.00
142 61 0.10
143 39 0.07
144 77 0.13
145 29 0.05
146 87 0.15
147 111 0.19
148 45 0.08
149 129 0.22
150 1 0.00
ACGTcount: A:0.43, C:0.03, G:0.10, T:0.44
Consensus pattern (146 bp):
TTTGATTTTTTAACTATTTCGAAATAAAAGTTTAGATTTTTAAGTAAAGTAGTGAATTTCTTTAA
AAAAAAGAAAGTTTAGATTTTTAAAAATAAAAATTTGTTTTTAGTCATTTTAAAGAAAAAGTTTA
AATTTTTAAACAAAAT
Found at i:24173997 original size:21 final size:22
Alignment explanation
Indices: 24173972--24174019 Score: 64
Period size: 21 Copynumber: 2.2 Consensus size: 22
24173962 TAAAGTAGTG
*
24173972 ATTTTG-TTTTAATAAAAAAA-A
1 ATTTTGATTTCAA-AAAAAAATA
24173993 ATTTTGATTTCAAAAAAAAATA
1 ATTTTGATTTCAAAAAAAAATA
24174015 ATTTT
1 ATTTT
24174020 CAGCCACTGT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
21 13 0.54
22 11 0.46
ACGTcount: A:0.50, C:0.02, G:0.04, T:0.44
Consensus pattern (22 bp):
ATTTTGATTTCAAAAAAAAATA
Found at i:24177996 original size:17 final size:17
Alignment explanation
Indices: 24177954--24177987 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
24177944 GGATACTCGG
24177954 GGGTAAAATGGTAATTT
1 GGGTAAAATGGTAATTT
24177971 GGGTAAAATGGTAATTT
1 GGGTAAAATGGTAATTT
24177988 TTGTGAAATC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.35, C:0.00, G:0.29, T:0.35
Consensus pattern (17 bp):
GGGTAAAATGGTAATTT
Found at i:24178133 original size:30 final size:30
Alignment explanation
Indices: 24178041--24178434 Score: 444
Period size: 30 Copynumber: 13.2 Consensus size: 30
24178031 GTAAAAATGG
* * * *
24178041 TAATTTTTG-AAAGTCTCGGGGTCAAAGTA
1 TAATTTTGGAAAAGTTTTGGGGTCAAAATA
* *
24178070 TAATTTTGGAAAAG-TTCGGAGTCAAAATA
1 TAATTTTGGAAAAGTTTTGGGGTCAAAATA
* * * *
24178099 TAATTTTGGAAAAATTTTAGGGTTAAAATG
1 TAATTTTGGAAAAGTTTTGGGGTCAAAATA
*
24178129 TAATTTTGGAAAAGTTTTGGGGTCAAAATG
1 TAATTTTGGAAAAGTTTTGGGGTCAAAATA
* *
24178159 TAATTTT-TAGAAAGTTTTGGGGTCGAAATA
1 TAATTTTGGA-AAAGTTTTGGGGTCAAAATA
24178189 TAATTTTGGAAAAGTTTTGGGGTCAAAATA
1 TAATTTTGGAAAAGTTTTGGGGTCAAAATA
24178219 TAATTTTGGAAAAGTTTTGGGGTCAAAATA
1 TAATTTTGGAAAAGTTTTGGGGTCAAAATA
*
24178249 TAATTTT-TAGAAAGTTTTGGGGTCAAAATA
1 TAATTTTGGA-AAAGTTTTGGGGTCAAAATA
* * * *
24178279 TAATTTT-CAGAAAGTTTTGAGGTCGAAATG
1 TAATTTTGGA-AAAGTTTTGGGGTCAAAATA
***
24178309 TAATTTCAAAAAAGTTTTGGGG-CAAAATA
1 TAATTTTGGAAAAGTTTTGGGGTCAAAATA
* *
24178338 TAATTTTAGAAAAGTTTAGGGGTCAAAATA
1 TAATTTTGGAAAAGTTTTGGGGTCAAAATA
*
24178368 TAATTTT-CAGAAAGTTTTGGGGTCAAAATA
1 TAATTTTGGA-AAAGTTTTGGGGTCAAAATA
* * *
24178398 TAATTTT-CAGAAAGTTTTGGGGTCGAAATG
1 TAATTTTGGA-AAAGTTTTGGGGTCAAAATA
24178428 TAATTTT
1 TAATTTT
24178435 TGGACAATTT
Statistics
Matches: 322, Mismatches: 35, Indels: 15
0.87 0.09 0.04
Matches are distributed among these distances:
29 60 0.19
30 260 0.81
31 2 0.01
ACGTcount: A:0.37, C:0.05, G:0.22, T:0.37
Consensus pattern (30 bp):
TAATTTTGGAAAAGTTTTGGGGTCAAAATA
Found at i:24180375 original size:29 final size:29
Alignment explanation
Indices: 24180338--24180407 Score: 70
Period size: 29 Copynumber: 2.4 Consensus size: 29
24180328 AAATTTATAA
*
24180338 TAATGTT-AAATTCAAGTTAAATTCAAATT
1 TAATGTTAAAATTCAAGTTAAAAT-AAATT
* * *
24180367 TAATTTTAAAATTGAATTTAAAATAAATT
1 TAATGTTAAAATTCAAGTTAAAATAAATT
**
24180396 TAAAATTAAAAT
1 TAATGTTAAAAT
24180408 AAATTTAATT
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
29 21 0.62
30 13 0.38
ACGTcount: A:0.51, C:0.03, G:0.04, T:0.41
Consensus pattern (29 bp):
TAATGTTAAAATTCAAGTTAAAATAAATT
Found at i:24180386 original size:12 final size:12
Alignment explanation
Indices: 24180354--24180405 Score: 61
Period size: 12 Copynumber: 4.4 Consensus size: 12
24180344 TAAATTCAAG
* *
24180354 TTAAATTCAAAT
1 TTAAATTTAAAA
*
24180366 TTAATTTTAAAA
1 TTAAATTTAAAA
*
24180378 TTGAATTTAAAA
1 TTAAATTTAAAA
24180390 -TAAATTTAAAA
1 TTAAATTTAAAA
24180401 TTAAA
1 TTAAA
24180406 ATAAATTTAA
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
11 10 0.30
12 23 0.70
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.42
Consensus pattern (12 bp):
TTAAATTTAAAA
Found at i:24180427 original size:17 final size:16
Alignment explanation
Indices: 24180375--24180418 Score: 61
Period size: 17 Copynumber: 2.7 Consensus size: 16
24180365 TTTAATTTTA
*
24180375 AAATTGAATTTAAAAT
1 AAATTTAATTTAAAAT
*
24180391 AAATTTAAAATTAAAAT
1 AAATTT-AATTTAAAAT
24180408 AAATTTAATTT
1 AAATTTAATTT
24180419 CAAAGTAAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
16 9 0.38
17 15 0.62
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (16 bp):
AAATTTAATTTAAAAT
Found at i:24184090 original size:29 final size:33
Alignment explanation
Indices: 24184033--24184096 Score: 82
Period size: 30 Copynumber: 2.1 Consensus size: 33
24184023 ATAATAAACC
**
24184033 TTATTATTTTCTAAAATAATATATGAA-TTAAA
1 TTATTATTTTCTAAAATAATATACAAATTTAAA
24184065 TTATTATTTT-T-AAATAA-ATACAAATTTAAA
1 TTATTATTTTCTAAAATAATATACAAATTTAAA
24184095 TT
1 TT
24184097 TCTAAACAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
29 5 0.17
30 13 0.45
31 1 0.03
32 10 0.34
ACGTcount: A:0.47, C:0.03, G:0.02, T:0.48
Consensus pattern (33 bp):
TTATTATTTTCTAAAATAATATACAAATTTAAA
Found at i:24184235 original size:14 final size:14
Alignment explanation
Indices: 24184203--24184236 Score: 52
Period size: 13 Copynumber: 2.5 Consensus size: 14
24184193 GTTTAACATT
24184203 ATTTTTATTTTAAA
1 ATTTTTATTTTAAA
*
24184217 A-TTTTCTTTTAAA
1 ATTTTTATTTTAAA
24184230 ATTTTTA
1 ATTTTTA
24184237 AAAAAAAAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 2
0.81 0.10 0.10
Matches are distributed among these distances:
13 12 0.71
14 5 0.29
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.65
Consensus pattern (14 bp):
ATTTTTATTTTAAA
Found at i:24184507 original size:21 final size:21
Alignment explanation
Indices: 24184453--24184509 Score: 57
Period size: 21 Copynumber: 2.8 Consensus size: 21
24184443 AAATAATTTA
24184453 AATA-TATCTTTATAAATATTAT
1 AATATTAT-TTTA-AAATATTAT
* *
24184475 --TTTTATTATAAAATATTAT
1 AATATTATTTTAAAATATTAT
24184494 AATATTATTTTAAAAT
1 AATATTATTTTAAAAT
24184510 TTTAACATAA
Statistics
Matches: 28, Mismatches: 4, Indels: 7
0.72 0.10 0.18
Matches are distributed among these distances:
19 9 0.32
20 4 0.14
21 15 0.54
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.53
Consensus pattern (21 bp):
AATATTATTTTAAAATATTAT
Found at i:24184681 original size:18 final size:17
Alignment explanation
Indices: 24184651--24184698 Score: 55
Period size: 18 Copynumber: 2.8 Consensus size: 17
24184641 AACATATATG
24184651 AAAATAT-AA-AATAAT
1 AAAATATAAATAATAAT
24184666 ATAAATATAAATAATAAT
1 A-AAATATAAATAATAAT
*
24184684 AATAATATATATAAT
1 AA-AATATAAATAAT
24184699 TAATTAAAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
15 1 0.04
16 6 0.21
17 3 0.11
18 18 0.64
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (17 bp):
AAAATATAAATAATAAT
Found at i:24184687 original size:15 final size:16
Alignment explanation
Indices: 24184652--24184681 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
24184642 ACATATATGA
24184652 AAATATAAAATAATAT
1 AAATATAAAATAATAT
24184668 AAATAT-AAATAATA
1 AAATATAAAATAATA
24184682 ATAATAATAT
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:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (16 bp):
AAATATAAAATAATAT
Found at i:24184938 original size:22 final size:21
Alignment explanation
Indices: 24184897--24184938 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
24184887 ATTTATTAAA
**
24184897 TTTTTTATAATTCTTAATATT
1 TTTTTTATAATTCAAAATATT
24184918 TTTTTTATAATTCAAACATAT
1 TTTTTTATAATTCAAA-ATAT
24184939 ATATATATAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 14 0.78
22 4 0.22
ACGTcount: A:0.33, C:0.07, G:0.00, T:0.60
Consensus pattern (21 bp):
TTTTTTATAATTCAAAATATT
Found at i:24184940 original size:2 final size:2
Alignment explanation
Indices: 24184935--24184959 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
24184925 TAATTCAAAC
24184935 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
24184960 ACAATAACCT
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:24186327 original size:19 final size:19
Alignment explanation
Indices: 24186277--24186328 Score: 95
Period size: 19 Copynumber: 2.7 Consensus size: 19
24186267 GAAACCTTAA
*
24186277 TTTAAAGAAAAGAAGAAGT
1 TTTAAAGAAAAGCAGAAGT
24186296 TTTAAAGAAAAGCAGAAGT
1 TTTAAAGAAAAGCAGAAGT
24186315 TTTAAAGAAAAGCA
1 TTTAAAGAAAAGCA
24186329 AAACAAAGAG
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 32 1.00
ACGTcount: A:0.56, C:0.04, G:0.19, T:0.21
Consensus pattern (19 bp):
TTTAAAGAAAAGCAGAAGT
Found at i:24188959 original size:10 final size:10
Alignment explanation
Indices: 24188946--24188996 Score: 52
Period size: 10 Copynumber: 5.0 Consensus size: 10
24188936 TATAATATTT
24188946 TAATATAAAA
1 TAATATAAAA
24188956 TAATATATAAA
1 TAATATA-AAA
24188967 T--TAGTGAAAA
1 TAATA-T-AAAA
*
24188977 TAATTTAAAA
1 TAATATAAAA
24188987 TAATATAAAA
1 TAATATAAAA
24188997 ATATTTTTAA
Statistics
Matches: 34, Mismatches: 2, Indels: 10
0.74 0.04 0.22
Matches are distributed among these distances:
9 2 0.06
10 25 0.74
11 6 0.18
12 1 0.03
ACGTcount: A:0.63, C:0.00, G:0.04, T:0.33
Consensus pattern (10 bp):
TAATATAAAA
Found at i:24192413 original size:28 final size:29
Alignment explanation
Indices: 24192379--24192446 Score: 88
Period size: 28 Copynumber: 2.4 Consensus size: 29
24192369 AGTAAAAAAT
*
24192379 GTAATTTTTGGATG-TCGGGGGCAAAAC-
1 GTAATTTTTGGATGTTCGAGGGCAAAACA
*
24192406 GATAA-TTTTGGATGTTCGAGGGTAAAACA
1 G-TAATTTTTGGATGTTCGAGGGCAAAACA
24192435 GTAATTTTTGGA
1 GTAATTTTTGGA
24192447 CACCTGGGGA
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
27 10 0.29
28 17 0.49
29 8 0.23
ACGTcount: A:0.29, C:0.07, G:0.29, T:0.34
Consensus pattern (29 bp):
GTAATTTTTGGATGTTCGAGGGCAAAACA
Found at i:24192489 original size:29 final size:29
Alignment explanation
Indices: 24192421--24192621 Score: 113
Period size: 29 Copynumber: 6.9 Consensus size: 29
24192411 TTTTGGATGT
*
24192421 TCGAGGGTAAAACAGTAATTTTTGGACAC
1 TCGAGGGTAAAACGGTAATTTTTGGACAC
*
24192450 -CTG-GGGATAAAACGGTAAATTTTGGACAC
1 TC-GAGGG-TAAAACGGTAATTTTTGGACAC
* * ***
24192479 TCGAGGGTAAAATGATAATTTTTGGATGT
1 TCGAGGGTAAAACGGTAATTTTTGGACAC
* * * *
24192508 TCGTGGGTAAAATGGTAATTTGTT-GAAAGT
1 TCGAGGGTAAAACGGTAATTT-TTGGACA-C
** *
24192538 TCG-GGGCTAAAAATGTAATTTTTGGACAT
1 TCGAGGG-TAAAACGGTAATTTTTGGACAC
* * * * ***
24192567 TAGAGGGTAAAATGGAAATATTTGGATGT
1 TCGAGGGTAAAACGGTAATTTTTGGACAC
* * *
24192596 TAGGGGGTAAAATGGTAATTTTTGGA
1 TCGAGGGTAAAACGGTAATTTTTGGA
24192622 AAGTTTGGGG
Statistics
Matches: 138, Mismatches: 25, Indels: 18
0.76 0.14 0.10
Matches are distributed among these distances:
28 4 0.03
29 106 0.77
30 28 0.20
ACGTcount: A:0.33, C:0.06, G:0.28, T:0.32
Consensus pattern (29 bp):
TCGAGGGTAAAACGGTAATTTTTGGACAC
Found at i:24192519 original size:58 final size:57
Alignment explanation
Indices: 24192374--24192525 Score: 141
Period size: 58 Copynumber: 2.7 Consensus size: 57
24192364 AATAAAGTAA
* * * ***
24192374 AAAATG-TAATTTTTGGATGTCGGGGGCAAAACGAT-AATTTTGGATGTTCGAGGGT
1 AAAATGATAATTTTTGGATGTCGTGGGTAAAACGGTAAATTTTGGACACTCGAGGGT
* ** *
24192429 AAAA-CAGTAATTTTTGGA-CACCTGGGGATAAAACGGTAAATTTTGGACACTCGAGGGT
1 AAAATGA-TAATTTTTGGATGTCGT-GGG-TAAAACGGTAAATTTTGGACACTCGAGGGT
*
24192487 AAAATGATAATTTTTGGATGTTCGTGGGTAAAATGGTAA
1 AAAATGATAATTTTTGGATG-TCGTGGGTAAAACGGTAA
24192526 TTTGTTGAAA
Statistics
Matches: 74, Mismatches: 15, Indels: 13
0.73 0.15 0.13
Matches are distributed among these distances:
55 5 0.07
56 14 0.19
57 7 0.09
58 42 0.57
59 4 0.05
60 2 0.03
ACGTcount: A:0.33, C:0.09, G:0.28, T:0.31
Consensus pattern (57 bp):
AAAATGATAATTTTTGGATGTCGTGGGTAAAACGGTAAATTTTGGACACTCGAGGGT
Found at i:24192562 original size:59 final size:57
Alignment explanation
Indices: 24192486--24192621 Score: 146
Period size: 59 Copynumber: 2.3 Consensus size: 57
24192476 CACTCGAGGG
** * * * * *
24192486 TAAAATGATAATTTTTGGATGTTCGTGGGTAAAATGGTAATTTGTTGAAAGTTCGGGGC
1 TAAAATG-TAATTTTTGGACATTAGAGGGTAAAATGGAAATAT-TTGAAAGTTAGGGGC
* * *
24192545 TAAAAATGTAATTTTTGGACATTAGAGGGTAAAATGGAAATATTTGGATGTTAGGGGG
1 T-AAAATGTAATTTTTGGACATTAGAGGGTAAAATGGAAATATTTGAAAGTTAGGGGC
24192603 TAAAATGGTAATTTTTGGA
1 TAAAAT-GTAATTTTTGGA
24192622 AAGTTTGGGG
Statistics
Matches: 65, Mismatches: 10, Indels: 5
0.81 0.12 0.06
Matches are distributed among these distances:
57 5 0.08
58 24 0.37
59 30 0.46
60 6 0.09
ACGTcount: A:0.33, C:0.03, G:0.28, T:0.36
Consensus pattern (57 bp):
TAAAATGTAATTTTTGGACATTAGAGGGTAAAATGGAAATATTTGAAAGTTAGGGGC
Found at i:24192594 original size:88 final size:86
Alignment explanation
Indices: 24192373--24192679 Score: 295
Period size: 88 Copynumber: 3.5 Consensus size: 86
24192363 AAATAAAGTA
* * * * **
24192373 AAAAATGTAATTTTTGG--ATGTCGGGGGCAAAACGATAAT-TTTGGATGTTCGAGGGTAAAACA
1 AAAAATGTAATTTTTGGACAT-TAGAGGGTAAAATGATAATATTTGGATGTTCGAGGGTAAAATG
* **
24192435 GTAATTTTTGGACACCTGGGGAT
65 GTAATTTTTGGAAAGTTGGGG-T
** * * * * *
24192458 AAAACGGTAAATTTTGGACACTCGAGGGTAAAATGATAATTTTTGGATGTTCGTGGGTAAAATGG
1 AAAAATGTAATTTTTGGACATTAGAGGGTAAAATGATAATATTTGGATGTTCGAGGGTAAAATGG
24192523 TAATTTGTT-GAAAGTTCGGGGCT
66 TAATTT-TTGGAAAGTT-GGGG-T
* *
24192546 AAAAATGTAATTTTTGGACATTAGAGGGTAAAATGGA-AATATTTGGATGTTAGGGGGTAAAATG
1 AAAAATGTAATTTTTGGACATTAGAGGGTAAAAT-GATAATATTTGGATGTTCGAGGGTAAAATG
24192610 GTAATTTTTGGAAAGTTTGGGGT
65 GTAATTTTTGGAAAG-TTGGGGT
* * *
24192633 CAAAAATGTAATTTTAGGAAATTTGAGGGTAAAAATG-TAAT-TTTGGA
1 -AAAAATGTAATTTTTGGACATTAGAGGGT-AAAATGATAATATTTGGA
24192680 AAGTTTTAGG
Statistics
Matches: 186, Mismatches: 25, Indels: 20
0.81 0.11 0.09
Matches are distributed among these distances:
85 14 0.08
86 16 0.09
87 41 0.22
88 106 0.57
89 9 0.05
ACGTcount: A:0.34, C:0.06, G:0.28, T:0.33
Consensus pattern (86 bp):
AAAAATGTAATTTTTGGACATTAGAGGGTAAAATGATAATATTTGGATGTTCGAGGGTAAAATGG
TAATTTTTGGAAAGTTGGGGT
Found at i:24192631 original size:29 final size:30
Alignment explanation
Indices: 24192481--24192728 Score: 198
Period size: 29 Copynumber: 8.4 Consensus size: 30
24192471 TTGGACACTC
* *
24192481 GAGGGT-AAAATGATAATTTTTGG-ATGTTC
1 GAGGGTAAAAATG-TAATTTTTGGAAAGTTT
* *
24192510 GTGGGT-AAAATGGTAATTTGTT-GAAAGTTC
1 GAGGGTAAAAAT-GTAATTT-TTGGAAAGTTT
* *
24192540 G-GGGCTAAAAATGTAATTTTTGGACA-TTA
1 GAGGG-TAAAAATGTAATTTTTGGAAAGTTT
* * * *
24192569 GAGGGT-AAAATGGAAATATTTGG-ATGTTA
1 GAGGGTAAAAAT-GTAATTTTTGGAAAGTTT
*
24192598 GGGGGT-AAAATGGTAATTTTTGGAAAGTTT
1 GAGGGTAAAAAT-GTAATTTTTGGAAAGTTT
*
24192628 G-GGGTCAAAAATGTAATTTTAGGAAA-TTT
1 GAGGGT-AAAAATGTAATTTTTGGAAAGTTT
24192657 GAGGGTAAAAATGTAA-TTTTGGAAAGTTT
1 GAGGGTAAAAATGTAATTTTTGGAAAGTTT
*
24192686 TAGGGGTAAAAATGTAA-TTTTGGAAAAGTTT
1 GA-GGGTAAAAATGTAATTTTTGG-AAAGTTT
*
24192717 GAGGGTCAAAAT
1 GAGGGTAAAAAT
24192729 ATGATTTCTG
Statistics
Matches: 185, Mismatches: 18, Indels: 31
0.79 0.08 0.13
Matches are distributed among these distances:
28 13 0.07
29 80 0.43
30 74 0.40
31 18 0.10
ACGTcount: A:0.35, C:0.02, G:0.28, T:0.34
Consensus pattern (30 bp):
GAGGGTAAAAATGTAATTTTTGGAAAGTTT
Found at i:24192673 original size:59 final size:60
Alignment explanation
Indices: 24192600--24192728 Score: 178
Period size: 59 Copynumber: 2.1 Consensus size: 60
24192590 GGATGTTAGG
24192600 GGGTAAAATGGTAATTTTTGGAAAG-TTT-GGGGTCAAAAATGTAATTTTAGG-AAA-TTTGA
1 GGGTAAAATGGTAA-TTTTGGAAAGTTTTAGGGGT-AAAAATGTAATTTT-GGAAAAGTTTGA
24192659 GGGTAAAAAT-GTAATTTTGGAAAGTTTTAGGGGTAAAAATGTAATTTTGGAAAAGTTTGA
1 GGGT-AAAATGGTAATTTTGGAAAGTTTTAGGGGTAAAAATGTAATTTTGGAAAAGTTTGA
24192719 GGGTCAAAAT
1 GGGT-AAAAT
24192729 ATGATTTCTG
Statistics
Matches: 64, Mismatches: 1, Indels: 9
0.86 0.01 0.12
Matches are distributed among these distances:
58 12 0.19
59 28 0.44
60 24 0.38
ACGTcount: A:0.37, C:0.02, G:0.27, T:0.34
Consensus pattern (60 bp):
GGGTAAAATGGTAATTTTGGAAAGTTTTAGGGGTAAAAATGTAATTTTGGAAAAGTTTGA
Found at i:24192707 original size:88 final size:87
Alignment explanation
Indices: 24192481--24192727 Score: 263
Period size: 88 Copynumber: 2.8 Consensus size: 87
24192471 TTGGACACTC
* * * * *
24192481 GAGGGTAAAAT-GATAATTTTTGGATGTTCGTGGGTAAAATGGTAATTTGTTGAAAGTTCGGGG-
1 GAGGGTAAAATGGA-AATATTTGGATGTTAGGGGGTAAAATGGTAATTT-TGGAAAGTTTGGGGT
* *
24192544 CTAAAAATGTAATTTTTGGACATTA
64 C-AAAAATGTAATTTTAGGAAATTA
24192569 GAGGGTAAAATGGAAATATTTGGATGTTAGGGGGTAAAATGGTAATTTTTGGAAAGTTTGGGGTC
1 GAGGGTAAAATGGAAATATTTGGATGTTAGGGGGTAAAATGGTAA-TTTTGGAAAGTTTGGGGTC
*
24192634 AAAAATGTAATTTTAGGAAATTT
65 AAAAATGTAATTTTAGGAAATTA
* *
24192657 GAGGGTAAAAAT-GTAAT-TTTGGAAAGTTTTA-GGGGTAAAAAT-GTAATTTTGGAAAAGTTTG
1 GAGGGT-AAAATGGAAATATTTGG--A-TGTTAGGGGGT-AAAATGGTAATTTTGG-AAAGTTTG
24192718 AGGGTCAAAA
60 -GGGTCAAAA
24192728 TATGATTTCT
Statistics
Matches: 139, Mismatches: 10, Indels: 18
0.83 0.06 0.11
Matches are distributed among these distances:
87 5 0.04
88 87 0.63
89 29 0.21
90 18 0.13
ACGTcount: A:0.35, C:0.02, G:0.28, T:0.34
Consensus pattern (87 bp):
GAGGGTAAAATGGAAATATTTGGATGTTAGGGGGTAAAATGGTAATTTTGGAAAGTTTGGGGTCA
AAAATGTAATTTTAGGAAATTA
Found at i:24193335 original size:14 final size:14
Alignment explanation
Indices: 24193316--24193352 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
24193306 CCAGCTGCCA
24193316 GCCACCGTCCGCTG
1 GCCACCGTCCGCTG
*
24193330 GCCACCGTCTGCTG
1 GCCACCGTCCGCTG
24193344 GCCACCGTC
1 GCCACCGTC
24193353 GGCCACCGCC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.08, C:0.49, G:0.27, T:0.16
Consensus pattern (14 bp):
GCCACCGTCCGCTG
Found at i:24194924 original size:48 final size:48
Alignment explanation
Indices: 24194848--24195052 Score: 173
Period size: 48 Copynumber: 4.5 Consensus size: 48
24194838 ATTTGGTCCA
*
24194848 CTTCTCAGTATCTCATCAGGAAGCTGACCATTTTATTGCTTCGACTTG
1 CTTCTCAGTATCTCATCAGGAAGATGACCATTTTATTGCTTCGACTTG
* ** * * *
24194896 CTTCTCAATATCTCATCAGGAAGATGACCACATCACTTGTTTC-AATCTG
1 CTTCTCAGTATCTCATCAGGAAGATGACCATTTTA-TTGCTTCGACT-TG
* * * *
24194945 CTTCTCTGTATCTCATTAGGAAGATGA--A----ATTG-GTCCACTT-
1 CTTCTCAGTATCTCATCAGGAAGATGACCATTTTATTGCTTCGACTTG
* * * *
24194985 C-TCT--GTATCTCATCAAGAAGCTGCCCATTTTATTGCTTCGACCTG
1 CTTCTCAGTATCTCATCAGGAAGATGACCATTTTATTGCTTCGACTTG
24195030 CTTCTCAGTATCTCATCAGGAAG
1 CTTCTCAGTATCTCATCAGGAAG
24195053 CTGGGGTTCG
Statistics
Matches: 123, Mismatches: 20, Indels: 28
0.72 0.12 0.16
Matches are distributed among these distances:
37 16 0.13
39 4 0.03
40 1 0.01
41 3 0.02
42 5 0.04
43 5 0.04
44 5 0.04
45 1 0.01
46 3 0.02
47 1 0.01
48 47 0.38
49 32 0.26
ACGTcount: A:0.24, C:0.25, G:0.16, T:0.35
Consensus pattern (48 bp):
CTTCTCAGTATCTCATCAGGAAGATGACCATTTTATTGCTTCGACTTG
Found at i:24194935 original size:134 final size:134
Alignment explanation
Indices: 24194696--24195052 Score: 471
Period size: 134 Copynumber: 2.7 Consensus size: 134
24194686 GTCTTACTAA
* * * * * * *
24194696 GAAGACGGATTTGGTTCACTTCTCTGCATCTCGTCAGGATGATGACCACTTTATTGCTTCGACCT
1 GAAGACGAATTTGGTCCACTTCTCTGTATCTCATCAGGAAGCTGACCATTTTATTGCTTCGACCT
* ** * *** * * * * *
24194761 ACTTCTTTGTATCTCATCAAGAAGATGATTGCCTCGCTTGTTTCAATTTGCTTCTTTGTATCTTA
66 GCTTCTCAGTATCTCATCAGGAAGATGACCACATCACTTGTTTCAATCTGCTTCTCTGTATCTCA
24194826 TCAG
131 TCAG
* *
24194830 GAAGACGAATTTGGTCCACTTCTCAGTATCTCATCAGGAAGCTGACCATTTTATTGCTTCGACTT
1 GAAGACGAATTTGGTCCACTTCTCTGTATCTCATCAGGAAGCTGACCATTTTATTGCTTCGACCT
*
24194895 GCTTCTCAATATCTCATCAGGAAGATGACCACATCACTTGTTTCAATCTGCTTCTCTGTATCTCA
66 GCTTCTCAGTATCTCATCAGGAAGATGACCACATCACTTGTTTCAATCTGCTTCTCTGTATCTCA
*
24194960 TTAG
131 TCAG
* * * *
24194964 GAAGATGAAATTGGTCCACTTCTCTGTATCTCATCAAGAAGCTGCCCATTTTATTGCTTCGACCT
1 GAAGACGAATTTGGTCCACTTCTCTGTATCTCATCAGGAAGCTGACCATTTTATTGCTTCGACCT
24195029 GCTTCTCAGTATCTCATCAGGAAG
66 GCTTCTCAGTATCTCATCAGGAAG
24195053 CTGGGGTTCG
Statistics
Matches: 193, Mismatches: 30, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
134 193 1.00
ACGTcount: A:0.23, C:0.24, G:0.17, T:0.36
Consensus pattern (134 bp):
GAAGACGAATTTGGTCCACTTCTCTGTATCTCATCAGGAAGCTGACCATTTTATTGCTTCGACCT
GCTTCTCAGTATCTCATCAGGAAGATGACCACATCACTTGTTTCAATCTGCTTCTCTGTATCTCA
TCAG
Found at i:24195262 original size:208 final size:209
Alignment explanation
Indices: 24194896--24195855 Score: 1081
Period size: 208 Copynumber: 4.6 Consensus size: 209
24194886 CTTCGACTTG
* * * *
24194896 CTTCTCAATATCTCATCAGGAAGATGACCACATCACTTGTTTCAATCTGCTTCTCTGTATCTCAT
1 CTTCTCAGTATCTCATCAGGAAGATGACCGCCTCACTTGTTTCAATCCGCTTCTCTGTATCTCAT
* * * * * **
24194961 TAGGAAGATGAAATTGGTCCACTTCTCTGTATCTCATCAAGAAGCTGCCCATTTTATTGCTTCGA
66 CAGGAAGACGGATTTGGTCCACTTCTCTGTATCTCATCAGGAAGCTAACCATTTTATTGCTTCGA
* *
24195026 CCTGCTTCTCAGTATCTCATCAGGAAGCTGGGGTTCGAAGTTTCGCTCACATTAAGCTTTGTTTC
131 CCTGCTTCTCAGTATCTCATCAGGAAGCTGGGGTTCGAAGTTTCACTCACATTAAGCTTGGTTTC
24195091 ATTGATTTGGTAT-
196 ATTGATTTGGTATA
** * *
24195104 CTTCTTTGTATCTCATTAGGAAGATGATCGCCTCACTTGTTTCAATCCGCTTCTCTGTATCTCAT
1 CTTCTCAGTATCTCATCAGGAAGATGACCGCCTCACTTGTTTCAATCCGCTTCTCTGTATCTCAT
* * * *
24195169 CAGGAAGACGAATTTTGTCCACTTCTCAGTATCTCATCAGGAAGCTAACCATTTTATTGCTTCGG
66 CAGGAAGACGGATTTGGTCCACTTCTCTGTATCTCATCAGGAAGCTAACCATTTTATTGCTTCGA
* * * ** * *
24195234 TCTGCTTCTCCGTACCTCATCAGGAAGCTGGGGTTCGAAGTTTCACTCACATCGATCTTGATTTC
131 CCTGCTTCTCAGTATCTCATCAGGAAGCTGGGGTTCGAAGTTTCACTCACATTAAGCTTGGTTTC
*
24195299 ATTGATTTGATCA-A
196 ATTGATTTGGT-ATA
* * * ** *
24195313 CTTCTCAGTGTCTCATCAGGAAGATGACCGCCTC-GTTATTTTGATCCACTTCTCTGTATCTCAT
1 CTTCTCAGTATCTCATCAGGAAGATGACCGCCTCACTTGTTTCAATCCGCTTCTCTGTATCTCAT
* ** * * * * * * **
24195377 CAGGAAGACGGATCTGGTTTAGTTTTTTGTATCTCATCAGTAAGGTAATCGCTTTATTGCTTCGA
66 CAGGAAGACGGATTTGGTCCACTTCTCTGTATCTCATCAGGAAGCTAACCATTTTATTGCTTCGA
* * * * * *
24195442 CCTGCTTCTTAGTATCTCATCAAGAAGCTGGGGTTCGAAGATTCACTCACTTTGAGCCTGGTTTC
131 CCTGCTTCTCAGTATCTCATCAGGAAGCTGGGGTTCGAAGTTTCACTCACATTAAGCTTGGTTTC
*
24195507 ATTGATTTGGTCTA
196 ATTGATTTGGTATA
* * * * ** * *
24195521 CTTCTTAGTATCTCATTAGGAAGTTGACCGTCTCA-TTGTTTTGATCCACTTCTCTATATCTCAT
1 CTTCTCAGTATCTCATCAGGAAGATGACCGCCTCACTTGTTTCAATCCGCTTCTCTGTATCTCAT
* * * **
24195585 CAGGAAGACGGATCTGGTTCACTTCTTTGTATCTCATCAGGAAAG-TAACCGCTTTATTGCTTCG
66 CAGGAAGACGGATTTGGTCCACTTCTCTGTATCTCATCAGG-AAGCTAACCATTTTATTGCTTCG
* * *
24195649 ACCTGCTTCTCAGTATTTCATCAGGAAGCTGGGGTGGGGTTCGAAGATTT-GCTCACTTTGAA-C
130 ACCTGCTTCTCAGTATCTCATCAGGAAGC-----TGGGGTTCGAAG-TTTCACTCACATT-AAGC
*
24195712 TTGGTTTCATTGATTTGGTCTA
188 TTGGTTTCATTGATTTGGTATA
* * *
24195734 CTTCTCAGTACCTCATCAGGAAGATGACCGCATCAC-TGTTTCAATCCGCTTCTTTGTATCTCAT
1 CTTCTCAGTATCTCATCAGGAAGATGACCGCCTCACTTGTTTCAATCCGCTTCTCTGTATCTCAT
* * * * *
24195798 CAGAAAGACGGATTTGGTCTACTTCTCTGTATCTTATCAGGAAGGTGACCATTTTATT
66 CAGGAAGACGGATTTGGTCCACTTCTCTGTATCTCATCAGGAAGCTAACCATTTTATT
24195856 ATTTTGAATA
Statistics
Matches: 634, Mismatches: 104, Indels: 23
0.83 0.14 0.03
Matches are distributed among these distances:
208 456 0.72
209 33 0.05
212 3 0.00
213 139 0.22
214 3 0.00
ACGTcount: A:0.22, C:0.23, G:0.19, T:0.37
Consensus pattern (209 bp):
CTTCTCAGTATCTCATCAGGAAGATGACCGCCTCACTTGTTTCAATCCGCTTCTCTGTATCTCAT
CAGGAAGACGGATTTGGTCCACTTCTCTGTATCTCATCAGGAAGCTAACCATTTTATTGCTTCGA
CCTGCTTCTCAGTATCTCATCAGGAAGCTGGGGTTCGAAGTTTCACTCACATTAAGCTTGGTTTC
ATTGATTTGGTATA
Found at i:24196406 original size:49 final size:49
Alignment explanation
Indices: 24196353--24196606 Score: 201
Period size: 49 Copynumber: 5.1 Consensus size: 49
24196343 AACTTCAATT
* * * *
24196353 TTTCCCTTCATCTTTTCATGGTACCGGGTTCACCGTTGAGGCCTCAACC
1 TTTCCCTTCATCTTTTCATGGTACCAGGTTTACCGTTGCGACCTCAACC
* * * *
24196402 TTTCCCATCACATCTTCTT-A-GGTACCAGGTTTGCTGTTGCGATCTCAACC
1 TTTCCC-T-TCATCTT-TTCATGGTACCAGGTTTACCGTTGCGACCTCAACC
* ** * * * * *
24196452 TTTCCTTTTGTATCTTCGTGGTACCAGGTTTACCATTGCGGCCTCAACC
1 TTTCCCTTCATCTTTTCATGGTACCAGGTTTACCGTTGCGACCTCAACC
*
24196501 TTTCCCATCACATCTTCTT-A-GGTACCAGGTTTACCGTTGCGACCTCAACC
1 TTTCCC-T-TCATCTT-TTCATGGTACCAGGTTTACCGTTGCGACCTCAACC
* * * * * * **
24196551 TTTCCTTTCGTATCTTCGTGGTACCGGGTTCCCCGTTGCGACCTCAACC
1 TTTCCCTTCATCTTTTCATGGTACCAGGTTTACCGTTGCGACCTCAACC
24196600 TTTCCCT
1 TTTCCCT
24196607 GTCAAACCTG
Statistics
Matches: 156, Mismatches: 39, Indels: 20
0.73 0.18 0.09
Matches are distributed among these distances:
47 4 0.03
48 5 0.03
49 71 0.46
50 63 0.40
51 9 0.06
52 4 0.03
ACGTcount: A:0.15, C:0.32, G:0.17, T:0.36
Consensus pattern (49 bp):
TTTCCCTTCATCTTTTCATGGTACCAGGTTTACCGTTGCGACCTCAACC
Found at i:24196427 original size:50 final size:49
Alignment explanation
Indices: 24196371--24196605 Score: 245
Period size: 50 Copynumber: 4.8 Consensus size: 49
24196361 CATCTTTTCA
* * * * *
24196371 TGGTACCGGGTTCACCGTTGAGGCCTCAACCTTTCCCATCACATCTTCT
1 TGGTACCAGGTTTACCGTTGCGACCTCAACCTTTCCCATCACATCTTCG
* * * ** ***
24196420 TAGGTACCAGGTTTGCTGTTGCGATCTCAACCTTTCCTTTTGTATCTTCG
1 T-GGTACCAGGTTTACCGTTGCGACCTCAACCTTTCCCATCACATCTTCG
* * *
24196470 TGGTACCAGGTTTACCATTGCGGCCTCAACCTTTCCCATCACATCTTCT
1 TGGTACCAGGTTTACCGTTGCGACCTCAACCTTTCCCATCACATCTTCG
** **
24196519 TAGGTACCAGGTTTACCGTTGCGACCTCAACCTTTCCTTTCGTATCTTCG
1 T-GGTACCAGGTTTACCGTTGCGACCTCAACCTTTCCCATCACATCTTCG
* **
24196569 TGGTACCGGGTTCCCCGTTGCGACCTCAACCTTTCCC
1 TGGTACCAGGTTTACCGTTGCGACCTCAACCTTTCCC
24196606 TGTCAAACCT
Statistics
Matches: 149, Mismatches: 35, Indels: 4
0.79 0.19 0.02
Matches are distributed among these distances:
49 71 0.48
50 78 0.52
ACGTcount: A:0.15, C:0.32, G:0.18, T:0.34
Consensus pattern (49 bp):
TGGTACCAGGTTTACCGTTGCGACCTCAACCTTTCCCATCACATCTTCG
Found at i:24196456 original size:99 final size:99
Alignment explanation
Indices: 24196273--24196605 Score: 380
Period size: 99 Copynumber: 3.4 Consensus size: 99
24196263 TATTTCCTAA
* * * * ** * * **
24196273 GGTATCGGGTTCGCTGTTGCGGCCTTAACCTTTCCTGTCACATCTT-TTAAGGTACCTGATTCGC
1 GGTACCGGGTTCACCGTTGCGGCCTCAACCTTTCCCATCACATCTTCTT-AGGTACCAGGTTTAC
* * * ** * * * * *
24196337 CGTCGCAACTTCAATTTTTCCCTTCATCTTTTCAT
65 CGTTGCGACCTCAACCTTTCCTTTCGTATCTTCGT
* * *
24196372 GGTACCGGGTTCACCGTTGAGGCCTCAACCTTTCCCATCACATCTTCTTAGGTACCAGGTTTGCT
1 GGTACCGGGTTCACCGTTGCGGCCTCAACCTTTCCCATCACATCTTCTTAGGTACCAGGTTTACC
* *
24196437 GTTGCGATCTCAACCTTTCCTTTTGTATCTTCGT
66 GTTGCGACCTCAACCTTTCCTTTCGTATCTTCGT
* * *
24196471 GGTACCAGGTTTACCATTGCGGCCTCAACCTTTCCCATCACATCTTCTTAGGTACCAGGTTTACC
1 GGTACCGGGTTCACCGTTGCGGCCTCAACCTTTCCCATCACATCTTCTTAGGTACCAGGTTTACC
24196536 GTTGCGACCTCAACCTTTCCTTTCGTATCTTCGT
66 GTTGCGACCTCAACCTTTCCTTTCGTATCTTCGT
* *
24196570 GGTACCGGGTTCCCCGTTGCGACCTCAACCTTTCCC
1 GGTACCGGGTTCACCGTTGCGGCCTCAACCTTTCCC
24196606 TGTCAAACCT
Statistics
Matches: 197, Mismatches: 36, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
99 195 0.99
100 2 0.01
ACGTcount: A:0.15, C:0.31, G:0.18, T:0.35
Consensus pattern (99 bp):
GGTACCGGGTTCACCGTTGCGGCCTCAACCTTTCCCATCACATCTTCTTAGGTACCAGGTTTACC
GTTGCGACCTCAACCTTTCCTTTCGTATCTTCGT
Found at i:24197447 original size:23 final size:21
Alignment explanation
Indices: 24197419--24197486 Score: 81
Period size: 19 Copynumber: 3.3 Consensus size: 21
24197409 CCTTGACCTC
24197419 TCATTTTCTTTTTCCCGTTTTT
1 TCATTTTCTTTTTCCC-TTTTT
24197441 TCTATTTTCTTTTT-CCTTTTT
1 TC-ATTTTCTTTTTCCCTTTTT
24197462 TC-TTTTCTTTTT--CTTTTT
1 TCATTTTCTTTTTCCCTTTTT
*
24197480 TTATTTT
1 TCATTTT
24197487 TCTTCATTGA
Statistics
Matches: 43, Mismatches: 1, Indels: 7
0.84 0.02 0.14
Matches are distributed among these distances:
18 7 0.16
19 14 0.33
21 7 0.16
22 4 0.09
23 11 0.26
ACGTcount: A:0.04, C:0.18, G:0.01, T:0.76
Consensus pattern (21 bp):
TCATTTTCTTTTTCCCTTTTT
Found at i:24197450 original size:7 final size:6
Alignment explanation
Indices: 24197437--24197479 Score: 52
Period size: 6 Copynumber: 6.8 Consensus size: 6
24197427 TTTTTCCCGT
24197437 TTTTTC TATTTTC TTTTTCC TTTTT- TCTTTTC TTTTTC TTTTT
1 TTTTTC T-TTTTC TTTTT-C TTTTTC T-TTTTC TTTTTC TTTTT
24197480 TTATTTTTCT
Statistics
Matches: 33, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
5 1 0.03
6 19 0.58
7 13 0.39
ACGTcount: A:0.02, C:0.16, G:0.00, T:0.81
Consensus pattern (6 bp):
TTTTTC
Found at i:24197480 original size:7 final size:7
Alignment explanation
Indices: 24197422--24197490 Score: 56
Period size: 7 Copynumber: 10.0 Consensus size: 7
24197412 TGACCTCTCA
24197422 TTTTCTT
1 TTTTCTT
*
24197429 TTTCCCGTT
1 TTT-TC-TT
*
24197438 TTTTCTA
1 TTTTCTT
24197445 TTTTCTT
1 TTTTCTT
*
24197452 TTTCCTT
1 TTTTCTT
24197459 TTTTC--
1 TTTTCTT
24197464 TTTTC-T
1 TTTTCTT
24197470 TTTTCTT
1 TTTTCTT
24197477 TTTT-TAT
1 TTTTCT-T
24197484 TTTTCTT
1 TTTTCTT
24197491 CATTGAATCC
Statistics
Matches: 50, Mismatches: 6, Indels: 12
0.74 0.09 0.18
Matches are distributed among these distances:
5 5 0.10
6 6 0.12
7 31 0.62
8 3 0.06
9 5 0.10
ACGTcount: A:0.03, C:0.17, G:0.01, T:0.78
Consensus pattern (7 bp):
TTTTCTT
Found at i:24202658 original size:28 final size:29
Alignment explanation
Indices: 24202626--24202750 Score: 119
Period size: 29 Copynumber: 4.4 Consensus size: 29
24202616 GTCAAAAATT
* * *
24202626 TAATTTTTGGATAC-CGAGGGCAAAACGG
1 TAATTTTTGGACACTCAAGGGTAAAACGG
*** *
24202654 TAA-TTTTGGATGTTCAAGGGTAAAACGA
1 TAATTTTTGGACACTCAAGGGTAAAACGG
* * *
24202682 TAATTTTTAGACACTCAAGGATAAAATGG
1 TAATTTTTGGACACTCAAGGGTAAAACGG
* * *
24202711 TAAATTTTGGACACTCGAGGGTAAAATGG
1 TAATTTTTGGACACTCAAGGGTAAAACGG
24202740 TAATTTTTGGA
1 TAATTTTTGGA
24202751 AAGTTTGAGG
Statistics
Matches: 78, Mismatches: 17, Indels: 3
0.80 0.17 0.03
Matches are distributed among these distances:
27 8 0.10
28 17 0.22
29 53 0.68
ACGTcount: A:0.35, C:0.10, G:0.24, T:0.31
Consensus pattern (29 bp):
TAATTTTTGGACACTCAAGGGTAAAACGG
Found at i:24202700 original size:29 final size:29
Alignment explanation
Indices: 24202667--24202809 Score: 112
Period size: 29 Copynumber: 4.9 Consensus size: 29
24202657 TTTTGGATGT
* *
24202667 TCAAGGGTAAAACGATAATTTTTAGACAC
1 TCAAGGGTAAAATGGTAATTTTTAGACAC
* * *
24202696 TCAAGGATAAAATGGTAAATTTTGGACAC
1 TCAAGGGTAAAATGGTAATTTTTAGACAC
* * * *
24202725 TCGAGGGTAAAATGGTAATTTTTGGAAAG
1 TCAAGGGTAAAATGGTAATTTTTAGACAC
** *
24202754 T-TTGAGGTCAAAAAT-GTAAATTTTT-GACAT
1 TCAAG-GGT--AAAATGGT-AATTTTTAGACAC
*
24202784 TCGAGGGTAAAATGGTAATTTTTAGA
1 TCAAGGGTAAAATGGTAATTTTTAGA
24202810 TTTTTGGGGG
Statistics
Matches: 91, Mismatches: 16, Indels: 14
0.75 0.13 0.12
Matches are distributed among these distances:
28 13 0.14
29 56 0.62
30 9 0.10
31 13 0.14
ACGTcount: A:0.38, C:0.08, G:0.22, T:0.32
Consensus pattern (29 bp):
TCAAGGGTAAAATGGTAATTTTTAGACAC
Found at i:24202861 original size:59 final size:59
Alignment explanation
Indices: 24202786--24202963 Score: 175
Period size: 59 Copynumber: 3.0 Consensus size: 59
24202776 TTTGACATTC
* *
24202786 GAGGGT-AAAATGGTAATTTTTAGAT-TTTTGGGGGTAAAATTGTAATTTTTGGAAAG-TTT
1 GAGGGTAAAAAT-GTAA-TTTTAGATAATTTGGGGGTAAAAATGTAA-TTTTGGAAAGTTTT
* *
24202845 -AGGGTCAAAAATGTAATTTTAGGTAATTTGGGTGTAAAAATGTAATTTTGGAAAGTTTT
1 GAGGGT-AAAAATGTAATTTTAGATAATTTGGGGGTAAAAATGTAATTTTGGAAAGTTTT
* * * * * * *
24202904 GAGGGTAAAAATGTAAATTTAGAAAAGTTTTGAGGTCAAAATATAATTTTTGGAGAGTTT
1 GAGGGTAAAAATGTAATTTTAGATAA-TTTGGGGGTAAAAATGTAA-TTTTGGAAAGTTT
24202964 AGGGACCTTT
Statistics
Matches: 99, Mismatches: 13, Indels: 12
0.80 0.10 0.10
Matches are distributed among these distances:
58 22 0.22
59 41 0.41
60 24 0.24
61 12 0.12
ACGTcount: A:0.35, C:0.01, G:0.25, T:0.39
Consensus pattern (59 bp):
GAGGGTAAAAATGTAATTTTAGATAATTTGGGGGTAAAAATGTAATTTTGGAAAGTTTT
Found at i:24202862 original size:30 final size:29
Alignment explanation
Indices: 24202728--24202967 Score: 163
Period size: 30 Copynumber: 8.1 Consensus size: 29
24202718 TGGACACTCG
24202728 AGGGT-AAAATGGTAATTTTTGGAAAGTTT
1 AGGGTAAAAAT-GTAATTTTTGGAAAGTTT
* *
24202757 -GAGGTCAAAAATGTAAATTTTT-GACA-TTCG
1 AG-GGT-AAAAATGT-AATTTTTGGAAAGTT-T
* **
24202787 AGGGT-AAAATGGTAATTTTTAG-ATTTTT
1 AGGGTAAAAAT-GTAATTTTTGGAAAGTTT
* *
24202815 GGGGGTAAAATTGTAATTTTTGGAAAGTTT
1 -AGGGTAAAAATGTAATTTTTGGAAAGTTT
* *
24202845 AGGGTCAAAAATGTAATTTTAGGTAA-TTT
1 AGGGT-AAAAATGTAATTTTTGGAAAGTTT
*
24202874 GGGTGTAAAAATGTAA-TTTTGGAAAGTTTT
1 AGG-GTAAAAATGTAATTTTTGGAAAG-TTT
* * *
24202904 GAGGGTAAAAATGTAAATTTAGAAAAGTTT
1 -AGGGTAAAAATGTAATTTTTGGAAAGTTT
* * * *
24202934 TGAGGTCAAAATATAATTTTTGGAGAGTTT
1 AG-GGTAAAAATGTAATTTTTGGAAAGTTT
24202964 AGGG
1 AGGG
24202968 ACCTTTTGGC
Statistics
Matches: 164, Mismatches: 28, Indels: 38
0.71 0.12 0.17
Matches are distributed among these distances:
28 20 0.12
29 46 0.28
30 75 0.46
31 23 0.14
ACGTcount: A:0.35, C:0.02, G:0.25, T:0.38
Consensus pattern (29 bp):
AGGGTAAAAATGTAATTTTTGGAAAGTTT
Found at i:24208725 original size:19 final size:20
Alignment explanation
Indices: 24208701--24208743 Score: 54
Period size: 19 Copynumber: 2.2 Consensus size: 20
24208691 TATCGGCAGA
24208701 AGTTTTTC-GAAGTATCAGT
1 AGTTTTTCTGAAGTATCAGT
* *
24208720 AG-TTTTCTTAAGTATCGGT
1 AGTTTTTCTGAAGTATCAGT
24208739 AGTTT
1 AGTTT
24208744 GTTCAATTGT
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
18 5 0.25
19 13 0.65
20 2 0.10
ACGTcount: A:0.23, C:0.09, G:0.21, T:0.47
Consensus pattern (20 bp):
AGTTTTTCTGAAGTATCAGT
Found at i:24219250 original size:15 final size:16
Alignment explanation
Indices: 24219226--24219255 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
24219216 TTACGACGAT
24219226 GATATCTATGAAGATG
1 GATATCTATGAAGATG
24219242 GATAT-TATGAAGAT
1 GATATCTATGAAGAT
24219256 TGGGAGATAC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.40, C:0.03, G:0.23, T:0.33
Consensus pattern (16 bp):
GATATCTATGAAGATG
Found at i:24222804 original size:25 final size:26
Alignment explanation
Indices: 24222750--24222804 Score: 67
Period size: 25 Copynumber: 2.2 Consensus size: 26
24222740 TGAAAAATCC
* * *
24222750 AAAAGAAAGAATAGATGAGTAATAAC
1 AAAAGAAAGAATACATGAGTAAGAAA
*
24222776 AAAAGAAA-AATTCATGAGTAAGAAA
1 AAAAGAAAGAATACATGAGTAAGAAA
24222801 AAAA
1 AAAA
24222805 TTTGAAAAGT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
25 17 0.68
26 8 0.32
ACGTcount: A:0.65, C:0.04, G:0.16, T:0.15
Consensus pattern (26 bp):
AAAAGAAAGAATACATGAGTAAGAAA
Found at i:24223359 original size:64 final size:64
Alignment explanation
Indices: 24223258--24223387 Score: 260
Period size: 64 Copynumber: 2.0 Consensus size: 64
24223248 GTAACTTACT
24223258 GAACTTAGATGTTTTTAATCAAAGATGGTAAAGTGACTTGCTCATCATGTTGAAATTATTGAAA
1 GAACTTAGATGTTTTTAATCAAAGATGGTAAAGTGACTTGCTCATCATGTTGAAATTATTGAAA
24223322 GAACTTAGATGTTTTTAATCAAAGATGGTAAAGTGACTTGCTCATCATGTTGAAATTATTGAAA
1 GAACTTAGATGTTTTTAATCAAAGATGGTAAAGTGACTTGCTCATCATGTTGAAATTATTGAAA
24223386 GA
1 GA
24223388 TATATAATGC
Statistics
Matches: 66, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
64 66 1.00
ACGTcount: A:0.36, C:0.09, G:0.19, T:0.35
Consensus pattern (64 bp):
GAACTTAGATGTTTTTAATCAAAGATGGTAAAGTGACTTGCTCATCATGTTGAAATTATTGAAA
Found at i:24225197 original size:9 final size:9
Alignment explanation
Indices: 24225183--24225208 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
24225173 TCGTGTTTGT
24225183 ATTTAATTA
1 ATTTAATTA
24225192 ATTTAATTA
1 ATTTAATTA
24225201 ATTTAATT
1 ATTTAATT
24225209 TTTAACTAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (9 bp):
ATTTAATTA
Found at i:24228926 original size:31 final size:31
Alignment explanation
Indices: 24228891--24228974 Score: 123
Period size: 31 Copynumber: 2.7 Consensus size: 31
24228881 GGCAATTTAT
* *
24228891 TAATGTGTAGAATATTTATAATGCGTACAAA
1 TAATGTGTACAATATTTATAATGCATACAAA
*
24228922 TAATGTGTACAATATTTATAATGCATATAAA
1 TAATGTGTACAATATTTATAATGCATACAAA
* *
24228953 TAATGTGTATAATATTAATAAT
1 TAATGTGTACAATATTTATAAT
24228975 AACTGTAAAT
Statistics
Matches: 48, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 48 1.00
ACGTcount: A:0.44, C:0.05, G:0.12, T:0.39
Consensus pattern (31 bp):
TAATGTGTACAATATTTATAATGCATACAAA
Found at i:24228944 original size:18 final size:18
Alignment explanation
Indices: 24228885--24228944 Score: 58
Period size: 18 Copynumber: 3.6 Consensus size: 18
24228875 ATTTAAGGCA
*
24228885 ATTTATTAATGTGTAGAAT
1 ATTTA-TAATGTGTACAAT
*
24228904 ATTTATAATGCGTAC-A-
1 ATTTATAATGTGTACAAT
24228920 A---ATAATGTGTACAAT
1 ATTTATAATGTGTACAAT
24228935 ATTTATAATG
1 ATTTATAATG
24228945 CATATAAATA
Statistics
Matches: 33, Mismatches: 3, Indels: 11
0.70 0.06 0.23
Matches are distributed among these distances:
13 10 0.30
14 1 0.03
15 1 0.03
16 1 0.03
17 1 0.03
18 14 0.42
19 5 0.15
ACGTcount: A:0.40, C:0.05, G:0.13, T:0.42
Consensus pattern (18 bp):
ATTTATAATGTGTACAAT
Found at i:24229490 original size:40 final size:41
Alignment explanation
Indices: 24229428--24229524 Score: 110
Period size: 40 Copynumber: 2.4 Consensus size: 41
24229418 TTTGAGTCTT
* * * *
24229428 TGCATTTACAACAAGT-TGATATAT-TTTCTTATTCAATCTC
1 TGCATTTACAATAGGTATGATATATATATATT-TTCAATCTC
*
24229468 TGCATTTACAATAGGTAT-ATATATATATATTTTCAGTCTC
1 TGCATTTACAATAGGTATGATATATATATATTTTCAATCTC
*
24229508 TGCATTTACGATAGGTA
1 TGCATTTACAATAGGTA
24229525 GATGGGTTGA
Statistics
Matches: 49, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
40 44 0.90
41 5 0.10
ACGTcount: A:0.31, C:0.14, G:0.11, T:0.43
Consensus pattern (41 bp):
TGCATTTACAATAGGTATGATATATATATATTTTCAATCTC
Found at i:24257334 original size:21 final size:21
Alignment explanation
Indices: 24257308--24257355 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
24257298 ATGACCAGCT
*
24257308 GAAGGAAAAGGA-AGAAGAAGA
1 GAAGGAAAAAGACAGAA-AAGA
*
24257329 GAAGGAAAAAGACAGTAAAGA
1 GAAGGAAAAAGACAGAAAAGA
24257350 GAAGGA
1 GAAGGA
24257356 CCCTGCCGAG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 21 0.88
22 3 0.12
ACGTcount: A:0.60, C:0.02, G:0.35, T:0.02
Consensus pattern (21 bp):
GAAGGAAAAAGACAGAAAAGA
Found at i:24259971 original size:13 final size:14
Alignment explanation
Indices: 24259942--24259971 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
24259932 TTCAGTACAT
24259942 TGACATTTAACCTC
1 TGACATTTAACCTC
24259956 TGACATTTAA-CTC
1 TGACATTTAACCTC
24259969 TGA
1 TGA
24259972 TTGTGTTGAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 6 0.38
14 10 0.62
ACGTcount: A:0.30, C:0.23, G:0.10, T:0.37
Consensus pattern (14 bp):
TGACATTTAACCTC
Found at i:24263780 original size:21 final size:23
Alignment explanation
Indices: 24263756--24263806 Score: 61
Period size: 24 Copynumber: 2.3 Consensus size: 23
24263746 CAACTTCTGT
*
24263756 CGATACAAGTAT-TT-GAACTAC
1 CGATACAACTATATTAGAACTAC
*
24263777 CGATACTACTATGATTAGAACTAC
1 CGATACAACTAT-ATTAGAACTAC
24263801 CGATAC
1 CGATAC
24263807 TTCAGTATTT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
21 10 0.40
23 2 0.08
24 13 0.52
ACGTcount: A:0.37, C:0.22, G:0.14, T:0.27
Consensus pattern (23 bp):
CGATACAACTATATTAGAACTAC
Found at i:24287088 original size:31 final size:31
Alignment explanation
Indices: 24287053--24287112 Score: 86
Period size: 31 Copynumber: 1.9 Consensus size: 31
24287043 GTAAGAATTA
**
24287053 ATTTCAATTTTT-TAATTTTTTTAAATTTTTT
1 ATTTC-ATTTTTATAATTTAATTAAATTTTTT
24287084 ATTTCATTTTTATAATTTAATTAAATTTT
1 ATTTCATTTTTATAATTTAATTAAATTTT
24287113 GCTATAATTT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
30 6 0.23
31 20 0.77
ACGTcount: A:0.30, C:0.03, G:0.00, T:0.67
Consensus pattern (31 bp):
ATTTCATTTTTATAATTTAATTAAATTTTTT
Found at i:24288985 original size:18 final size:18
Alignment explanation
Indices: 24288964--24289004 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
24288954 TTTATGCCAT
24288964 TTATTATTACTAAT-ATAA
1 TTATTATTACTAATGA-AA
*
24288982 TTATTATTATTAATGAAA
1 TTATTATTACTAATGAAA
24289000 TTATT
1 TTATT
24289005 TAATACTTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 20 0.95
19 1 0.05
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.54
Consensus pattern (18 bp):
TTATTATTACTAATGAAA
Found at i:24289881 original size:6 final size:6
Alignment explanation
Indices: 24289870--24289941 Score: 62
Period size: 6 Copynumber: 12.7 Consensus size: 6
24289860 TATAATAATA
* * *
24289870 TTAAAT TTAAA- TTAAAT TCAAAT TTAAA- TTAAAA TTGAAT TTAAA-
1 TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT
* * *
24289915 ATAAAT TTAAAA TTAAA- ATAAAT TTAA
1 TTAAAT TTAAAT TTAAAT TTAAAT TTAA
24289942 TTTCAAAGTA
Statistics
Matches: 52, Mismatches: 10, Indels: 8
0.74 0.14 0.11
Matches are distributed among these distances:
5 18 0.35
6 34 0.65
ACGTcount: A:0.57, C:0.01, G:0.01, T:0.40
Consensus pattern (6 bp):
TTAAAT
Found at i:24289885 original size:11 final size:11
Alignment explanation
Indices: 24289869--24289944 Score: 73
Period size: 11 Copynumber: 6.8 Consensus size: 11
24289859 TTATAATAAT
24289869 ATTAAATTTAA
1 ATTAAATTTAA
*
24289880 ATTAAATTCAA
1 ATTAAATTTAA
*
24289891 ATTTAAATTAAA
1 A-TTAAATTTAA
*
24289903 ATTGAATTTAA
1 ATTAAATTTAA
*
24289914 AATAAATTTAAA
1 ATTAAATTT-AA
*
24289926 ATTAAA-ATAA
1 ATTAAATTTAA
*
24289936 ATTTAATTT
1 ATTAAATTT
24289945 CAAAGTAAAA
Statistics
Matches: 52, Mismatches: 10, Indels: 6
0.76 0.15 0.09
Matches are distributed among these distances:
10 7 0.13
11 28 0.54
12 17 0.33
ACGTcount: A:0.55, C:0.01, G:0.01, T:0.42
Consensus pattern (11 bp):
ATTAAATTTAA
Found at i:24289911 original size:34 final size:33
Alignment explanation
Indices: 24289855--24289941 Score: 93
Period size: 34 Copynumber: 2.5 Consensus size: 33
24289845 ACATTTTATT
* *
24289855 AAATTTATAATAATATTAAATTTAAATTAAATTC
1 AAATTTA-AATAAAATTAAATTTAAAATAAATTC
* *
24289889 AAATTTAAATTAAAATTGAATTTAAAATAAATTTA
1 AAATTTAAA-TAAAATTAAATTTAAAATAAA-TTC
* *
24289924 AAATTAAAATAAATTTAA
1 AAATTTAAATAAAATTAA
24289942 TTTCAAAGTA
Statistics
Matches: 44, Mismatches: 7, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
33 2 0.05
34 32 0.73
35 10 0.23
ACGTcount: A:0.57, C:0.01, G:0.01, T:0.40
Consensus pattern (33 bp):
AAATTTAAATAAAATTAAATTTAAAATAAATTC
Found at i:24289953 original size:17 final size:16
Alignment explanation
Indices: 24289856--24289944 Score: 79
Period size: 17 Copynumber: 5.3 Consensus size: 16
24289846 CATTTTATTA
* *
24289856 AATTTATAATAATATTA
1 AATTTAAAATAA-ATTT
* *
24289873 AATTTAAATTAAATTCA
1 AATTTAAAATAAATT-T
* *
24289890 AATTTAAATTAAAATTG
1 AATTTAAAAT-AAATTT
24289907 AATTTAAAATAAATTT
1 AATTTAAAATAAATTT
*
24289923 AAAATTAAAATAAATTT
1 -AATTTAAAATAAATTT
24289940 AATTT
1 AATTT
24289945 CAAAGTAAAA
Statistics
Matches: 62, Mismatches: 7, Indels: 7
0.82 0.09 0.09
Matches are distributed among these distances:
16 12 0.19
17 45 0.73
18 5 0.08
ACGTcount: A:0.55, C:0.01, G:0.01, T:0.43
Consensus pattern (16 bp):
AATTTAAAATAAATTT
Found at i:24290314 original size:92 final size:92
Alignment explanation
Indices: 24290210--24290710 Score: 896
Period size: 92 Copynumber: 5.4 Consensus size: 92
24290200 TGTCAAGGCC
*
24290210 TCATCTTGCTCTTACTACAACTTCAGAGAGATGAAGACTTGCTATCCAACTTTACTACAACTTCA
1 TCATCTTGCTCTTACTACAACTTCAGAGAGATAAAGACTTGCTATCCAACTTTACTACAACTTCA
**
24290275 AGAGGATAGGAATTGATGTTTGATGCT
66 AGAGGATAGGAATTGATGTTTGAAACT
24290302 TCATCTTGCTCTTACTACAACTTCAGAGAGATAAAGACTTGCTATCCAACTTTACTACAACTTCA
1 TCATCTTGCTCTTACTACAACTTCAGAGAGATAAAGACTTGCTATCCAACTTTACTACAACTTCA
24290367 AGAGGATAGGAATTGATGTTTGAAACT
66 AGAGGATAGGAATTGATGTTTGAAACT
*
24290394 TCATCTTGCTCTTACTACAACTTGAGAGAGATAAAGACTTGCTATCCAACTTTACTACAACTTCA
1 TCATCTTGCTCTTACTACAACTTCAGAGAGATAAAGACTTGCTATCCAACTTTACTACAACTTCA
**
24290459 AGAGGATAGGAATTGATGTTTGATGCT
66 AGAGGATAGGAATTGATGTTTGAAACT
*
24290486 TCACCTTGCTCTTACTACAACTTCAGAGAGATAAAGACTTGCTATCCAACTTTACTACAACTTCA
1 TCATCTTGCTCTTACTACAACTTCAGAGAGATAAAGACTTGCTATCCAACTTTACTACAACTTCA
24290551 AGAGGATAGGAATTGATGTTTGAAACT
66 AGAGGATAGGAATTGATGTTTGAAACT
* *
24290578 TTAT-TTGGCTCTTACTACAACTTCAGAGAGATAAAGACTTGCTATCCAAATTTACTACAACTTC
1 TCATCTT-GCTCTTACTACAACTTCAGAGAGATAAAGACTTGCTATCCAACTTTACTACAACTTC
*
24290642 AAGAGGATAGGAATTGATGTTCGAAACT
65 AAGAGGATAGGAATTGATGTTTGAAACT
24290670 TCATCTTGCTCTTACTACAACTTCAGAGAGATAAAGACTTG
1 TCATCTTGCTCTTACTACAACTTCAGAGAGATAAAGACTTG
24290711 GTATTTTGAT
Statistics
Matches: 392, Mismatches: 15, Indels: 4
0.95 0.04 0.01
Matches are distributed among these distances:
91 2 0.01
92 388 0.99
93 2 0.01
ACGTcount: A:0.33, C:0.19, G:0.16, T:0.32
Consensus pattern (92 bp):
TCATCTTGCTCTTACTACAACTTCAGAGAGATAAAGACTTGCTATCCAACTTTACTACAACTTCA
AGAGGATAGGAATTGATGTTTGAAACT
Found at i:24290966 original size:51 final size:51
Alignment explanation
Indices: 24290904--24291066 Score: 154
Period size: 51 Copynumber: 3.2 Consensus size: 51
24290894 GCCGTTGCGA
* * * *
24290904 CTTAGACCTTTCCCTTTTGTATCTTTGCGGTACTGGATCCACCGTTGTAGT
1 CTTAGATCTTTCCCTTTTGTATCTTTGAGGTACTGGATCCGCCGTTGTGGT
* ** * * *
24290955 CTTAGATCTTTCTCGTCGTGT-T-TTTGTGGTATTGGATCCGTCGTTGTGGT
1 CTTAGATCTTTC-CCTTTTGTATCTTTGAGGTACTGGATCCGCCGTTGTGGT
* * *
24291005 CTTAGATCTTTCCC-TTTGCATCTTTTGAGGTACACGG-TCCGCCGTTGCGGT
1 CTTAGATCTTTCCCTTTTGTATC-TTTGAGGTAC-TGGATCCGCCGTTGTGGT
24291056 CTTAGATCTTT
1 CTTAGATCTTT
24291067 GTCTTTACGG
Statistics
Matches: 89, Mismatches: 18, Indels: 10
0.76 0.15 0.09
Matches are distributed among these distances:
48 2 0.02
49 2 0.02
50 35 0.39
51 43 0.48
52 7 0.08
ACGTcount: A:0.12, C:0.23, G:0.23, T:0.43
Consensus pattern (51 bp):
CTTAGATCTTTCCCTTTTGTATCTTTGAGGTACTGGATCCGCCGTTGTGGT
Found at i:24291000 original size:100 final size:99
Alignment explanation
Indices: 24290776--24291066 Score: 234
Period size: 100 Copynumber: 2.9 Consensus size: 99
24290766 CGACCTTTCT
* * * * * * *
24290776 TGCTTCTAAGGTAC-CGGGTTCGTCATTGCGACTTAAACCTTTCCCTTCGAATCTTCGTGGTACT
1 TGCTTCTGAGGTACAC-GGTCCGTCGTTGCGACTTAGACCTTTCCCTTTGAATCTTTGAGGTACT
* *
24290840 GGATGTCA---TTGTAGTCTTAGATCTTTCTCTTCA
65 GGAT-CCACCGTTGTAGTCTTAGATCTTTCTCGTCA
* * * *
24290873 TGCTTCTGAGGTACACGGTCTGCCGTTGCGACTTAGACCTTTCCCTTTTGTATCTTTGCGGTACT
1 TGCTTCTGAGGTACACGGTCCGTCGTTGCGACTTAGACCTTTCCC-TTTGAATCTTTGAGGTACT
*
24290938 GGATCCACCGTTGTAGTCTTAGATCTTTCTCGTCG
65 GGATCCACCGTTGTAGTCTTAGATCTTTCTCGTCA
* * * ** * * * *
24290973 TGTTTTTGTGGTA-TTGGATCCGTCGTTGTGGTCTTAGATCTTTCCCTTTGCATCTTTTGAGGTA
1 TGCTTCTGAGGTACACGG-TCCGTCGTTG-CGACTTAGACCTTTCCCTTTGAATC-TTTGAGGTA
* * **
24291037 CACGG-TCCGCCGTTGCGGTCTTAGATCTTT
63 C-TGGATCCACCGTTGTAGTCTTAGATCTTT
24291067 GTCTTTACGG
Statistics
Matches: 156, Mismatches: 29, Indels: 14
0.78 0.15 0.07
Matches are distributed among these distances:
97 39 0.25
98 20 0.13
99 2 0.01
100 48 0.31
101 45 0.29
102 2 0.01
ACGTcount: A:0.14, C:0.23, G:0.23, T:0.40
Consensus pattern (99 bp):
TGCTTCTGAGGTACACGGTCCGTCGTTGCGACTTAGACCTTTCCCTTTGAATCTTTGAGGTACTG
GATCCACCGTTGTAGTCTTAGATCTTTCTCGTCA
Found at i:24299234 original size:59 final size:57
Alignment explanation
Indices: 24299145--24299461 Score: 171
Period size: 59 Copynumber: 5.4 Consensus size: 57
24299135 TTTTGGACTC
* **
24299145 TCGAGGGGCAAAATGGTAATTTAAGGAAAATTAGGGGTTAAAAATGAAATTTTGGATA-T
1 TCGA-GGGTAAAAT-GTAATTTTTGGAAAATTAGGGGTTAAAAATGAAATTTTGGA-AGT
* * * * **
24299204 TCGAGGGTAAAATGGTAATTTTTGGAAAAATCGGGATCAAAAAT-AGAATATTCAGACA-T
1 TCGAGGGTAAAAT-GTAATTTTTGGAAAATTAGGGGTTAAAAATGA-AAT-TTTGGA-AGT
** * ** * * **
24299263 TCG-GGGATAAAATGGTAA-TTTTAAAAAAATAATGGTCAAAAATGGAATTTTTAAAAGT
1 TCGAGGG-TAAAAT-GTAATTTTTGGAAAATTAGGGGTTAAAAAT-GAAATTTTGGAAGT
* * *** *
24299321 TTGAGGGTAAAAATGTAATTTTTAGAGGTTTTGGGG-TAGAAAATGAAATTTTTGGAAGT
1 TCGAGGGT-AAAATGTAATTTTTGGAAAATTAGGGGTTA-AAAATGAAA-TTTTGGAAGT
* ** *
24299380 TTGAGGGTAAAAATGTAATTTTTGGAAGTTTTGGGG-TAGAAAATGAAATTTTTGGAAGT
1 TCGAGGGT-AAAATGTAATTTTTGGAAAATTAGGGGTTA-AAAATGAAA-TTTTGGAAGT
*
24299439 TCGAGGGTTAAAATGCAATTTTT
1 TCGAGGG-TAAAATGTAATTTTT
24299462 AGAAGTTTTA
Statistics
Matches: 210, Mismatches: 36, Indels: 24
0.78 0.13 0.09
Matches are distributed among these distances:
57 2 0.01
58 74 0.35
59 132 0.63
60 2 0.01
ACGTcount: A:0.39, C:0.03, G:0.25, T:0.33
Consensus pattern (57 bp):
TCGAGGGTAAAATGTAATTTTTGGAAAATTAGGGGTTAAAAATGAAATTTTGGAAGT
Found at i:24299467 original size:59 final size:59
Alignment explanation
Indices: 24299301--24299475 Score: 269
Period size: 59 Copynumber: 3.0 Consensus size: 59
24299291 ATAATGGTCA
* ** *
24299301 AAAATGGAATTTTTAAAAGTTTGAGGGTAAAAATGTAATTTTTAGAGGTTTTGGGGTAG
1 AAAATGAAATTTTTGGAAGTTTGAGGGTAAAAATGTAATTTTTAGAAGTTTTGGGGTAG
*
24299360 AAAATGAAATTTTTGGAAGTTTGAGGGTAAAAATGTAATTTTTGGAAGTTTTGGGGTAG
1 AAAATGAAATTTTTGGAAGTTTGAGGGTAAAAATGTAATTTTTAGAAGTTTTGGGGTAG
* * * *
24299419 AAAATGAAATTTTTGGAAGTTCGAGGGTTAAAATGCAATTTTTAGAAGTTTTAGGGT
1 AAAATGAAATTTTTGGAAGTTTGAGGGTAAAAATGTAATTTTTAGAAGTTTTGGGGT
24299476 TAAGGTAAAA
Statistics
Matches: 106, Mismatches: 10, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
59 106 1.00
ACGTcount: A:0.35, C:0.01, G:0.27, T:0.37
Consensus pattern (59 bp):
AAAATGAAATTTTTGGAAGTTTGAGGGTAAAAATGTAATTTTTAGAAGTTTTGGGGTAG
Found at i:24299478 original size:29 final size:29
Alignment explanation
Indices: 24299300--24299475 Score: 194
Period size: 29 Copynumber: 6.0 Consensus size: 29
24299290 AATAATGGTC
* *
24299300 AAAAATGGAATTTTTAAAAGTTTGAGGGT
1 AAAAATGAAATTTTTAGAAGTTTGAGGGT
* *
24299329 AAAAATGTAATTTTTAGAGGTTTTG-GGGT
1 AAAAATGAAATTTTTAGAAG-TTTGAGGGT
*
24299358 AGAAAATGAAATTTTTGGAAGTTTGAGGGT
1 A-AAAATGAAATTTTTAGAAGTTTGAGGGT
* *
24299388 AAAAATGTAATTTTTGGAAGTTTTG-GGGT
1 AAAAATGAAATTTTTAGAAG-TTTGAGGGT
* *
24299417 AGAAAATGAAATTTTTGGAAGTTCGAGGGT
1 A-AAAATGAAATTTTTAGAAGTTTGAGGGT
* * *
24299447 TAAAATGCAATTTTTAGAAGTTTTAGGGT
1 AAAAATGAAATTTTTAGAAGTTTGAGGGT
24299476 TAAGGTAAAA
Statistics
Matches: 127, Mismatches: 14, Indels: 12
0.83 0.09 0.08
Matches are distributed among these distances:
29 76 0.60
30 51 0.40
ACGTcount: A:0.35, C:0.01, G:0.27, T:0.37
Consensus pattern (29 bp):
AAAAATGAAATTTTTAGAAGTTTGAGGGT
Found at i:24299518 original size:30 final size:30
Alignment explanation
Indices: 24299300--24299528 Score: 153
Period size: 30 Copynumber: 7.5 Consensus size: 30
24299290 AATAATGGTC
* * * *
24299300 AAAAATGGAATTTTT-AAAAGTTTGAGGGT
1 AAAAATGTAATTTTTGGAAATTTTGGGGGT
* **
24299329 AAAAATGTAATTTTTAGAGGTTTT-GGGGT
1 AAAAATGTAATTTTTGGAAATTTTGGGGGT
* * *
24299358 AGAAAATGAAATTTTTGG-AAGTTTGAGGGT
1 A-AAAATGTAATTTTTGGAAATTTTGGGGGT
*
24299388 AAAAATGTAATTTTTGGAAGTTTT-GGGGT
1 AAAAATGTAATTTTTGGAAATTTTGGGGGT
* * * *
24299417 AGAAAATGAAATTTTTGG-AAGTTCGAGGGT
1 A-AAAATGTAATTTTTGGAAATTTTGGGGGT
* * * *
24299447 TAAAATGCAATTTTTAGAAGTTTTAGGGTTAAGGT
1 AAAAATGTAATTTTTGGAAATTTT-GGG----GGT
24299482 AAAAAATGTAATTTTTGGAAATTTTGGGGGT
1 -AAAAATGTAATTTTTGGAAATTTTGGGGGT
* **
24299513 CAAAATACAATTTTTG
1 AAAAATGTAATTTTTG
24299529 AACAGTTTAA
Statistics
Matches: 152, Mismatches: 35, Indels: 25
0.72 0.17 0.12
Matches are distributed among these distances:
29 59 0.39
30 62 0.41
31 5 0.03
35 6 0.04
36 20 0.13
ACGTcount: A:0.36, C:0.02, G:0.25, T:0.37
Consensus pattern (30 bp):
AAAAATGTAATTTTTGGAAATTTTGGGGGT
Found at i:24301594 original size:17 final size:16
Alignment explanation
Indices: 24301548--24301612 Score: 58
Period size: 17 Copynumber: 3.9 Consensus size: 16
24301538 CATTTTATTA
* *
24301548 AATTTATAATAATATT
1 AATTTAAAATAAAATT
*
24301564 AAATTAAAATTAAAATT
1 AATTTAAAA-TAAAATT
*
24301581 GAATTTAAAATAAATTT
1 -AATTTAAAATAAAATT
*
24301598 AATTTCAAAGTAAAA
1 AATTT-AAAATAAAA
24301613 ATGGTTTGGG
Statistics
Matches: 39, Mismatches: 7, Indels: 5
0.76 0.14 0.10
Matches are distributed among these distances:
16 12 0.31
17 19 0.49
18 8 0.21
ACGTcount: A:0.57, C:0.02, G:0.03, T:0.38
Consensus pattern (16 bp):
AATTTAAAATAAAATT
Found at i:24301612 original size:34 final size:34
Alignment explanation
Indices: 24301548--24301612 Score: 78
Period size: 34 Copynumber: 1.9 Consensus size: 34
24301538 CATTTTATTA
* *
24301548 AATTTATAATAATATTAAATTAAAATTAAAATTG
1 AATTTAAAATAATATTAAATTAAAAGTAAAATTG
* *
24301582 AATTTAAAATAA-ATTTAATTTCAAAGTAAAA
1 AATTTAAAATAATA-TTAAATTAAAAGTAAAA
24301613 ATGGTTTGGG
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
33 1 0.04
34 25 0.96
ACGTcount: A:0.57, C:0.02, G:0.03, T:0.38
Consensus pattern (34 bp):
AATTTAAAATAATATTAAATTAAAAGTAAAATTG
Found at i:24304283 original size:12 final size:13
Alignment explanation
Indices: 24304268--24304300 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
24304258 TAAAAGAAGG
*
24304268 TTTAATATA-ATA
1 TTTAATATATAAA
24304280 TTTAATATATAAA
1 TTTAATATATAAA
24304293 TTTAATAT
1 TTTAATAT
24304301 TTTTTCTTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 9 0.47
13 10 0.53
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (13 bp):
TTTAATATATAAA
Found at i:24304340 original size:56 final size:57
Alignment explanation
Indices: 24304279--24304386 Score: 157
Period size: 56 Copynumber: 1.9 Consensus size: 57
24304269 TTAATATAAT
* *
24304279 ATTTAAT-ATATAAATTTAATATTTTTTCT-TAATTTGGTATTTAAATTTTTTATTCA
1 ATTTAATAAT-TAAATTTAATATTTTTTCTCTAATTTAGTATCTAAATTTTTTATTCA
* *
24304335 ATTTAATAATTAAATTTGATATTTTTTTTCTAATTTAGTATCTAAATTTTTT
1 ATTTAATAATTAAATTTAATATTTTTTCTCTAATTTAGTATCTAAATTTTTT
24304387 TTGAAACAAT
Statistics
Matches: 46, Mismatches: 4, Indels: 3
0.87 0.08 0.06
Matches are distributed among these distances:
56 24 0.52
57 22 0.48
ACGTcount: A:0.33, C:0.04, G:0.04, T:0.59
Consensus pattern (57 bp):
ATTTAATAATTAAATTTAATATTTTTTCTCTAATTTAGTATCTAAATTTTTTATTCA
Found at i:24304417 original size:60 final size:61
Alignment explanation
Indices: 24304350--24304463 Score: 153
Period size: 59 Copynumber: 1.9 Consensus size: 61
24304340 ATAATTAAAT
* *
24304350 TTGATATTTTTTTTCTAATTT-AGTATCTAAATTTTT-TTT-GAAACAATTTGGTACCTGAAC
1 TTGATA-TTTTTTCCTAATTTGA-TACCTAAATTTTTCTTTAGAAACAATTTGGTACCTGAAC
**
24304410 TTGATATTTTTTCCTAATTTGATACCTAAATTTTTCTTTAGATTCAATTTGGTA
1 TTGATATTTTTTCCTAATTTGATACCTAAATTTTTCTTTAGAAACAATTTGGTA
24304464 TTTAAATTTA
Statistics
Matches: 47, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
59 25 0.53
60 10 0.21
61 12 0.26
ACGTcount: A:0.27, C:0.11, G:0.10, T:0.53
Consensus pattern (61 bp):
TTGATATTTTTTCCTAATTTGATACCTAAATTTTTCTTTAGAAACAATTTGGTACCTGAAC
Found at i:24304710 original size:31 final size:31
Alignment explanation
Indices: 24304674--24304809 Score: 115
Period size: 31 Copynumber: 4.5 Consensus size: 31
24304664 GGACCCCAAA
*
24304674 AAATTTAAGTACCAACTTAAAAAAAATTGTC
1 AAATTTAAGTACCAAATTAAAAAAAATTGTC
* * *
24304705 AAATTTAGGTACCACATTAAAAAAAAGTGTC
1 AAATTTAAGTACCAAATTAAAAAAAATTGTC
* * * * *
24304736 AAGTTTGATTATCAAATTGAACAAAAA-----
1 AAATTTAAGTACCAAATT-AAAAAAAATTGTC
*
24304763 AAATTTAAGT-CTCAAATT-AAAAAAATTATC
1 AAATTTAAGTAC-CAAATTAAAAAAAATTGTC
24304793 AAATTTAAGTACCAAAT
1 AAATTTAAGTACCAAAT
24304810 ATTATATTGA
Statistics
Matches: 81, Mismatches: 16, Indels: 17
0.71 0.14 0.15
Matches are distributed among these distances:
25 6 0.07
27 13 0.16
30 15 0.19
31 40 0.49
32 7 0.09
ACGTcount: A:0.51, C:0.11, G:0.08, T:0.29
Consensus pattern (31 bp):
AAATTTAAGTACCAAATTAAAAAAAATTGTC
Found at i:24307218 original size:15 final size:15
Alignment explanation
Indices: 24307162--24307220 Score: 57
Period size: 15 Copynumber: 3.8 Consensus size: 15
24307152 TTTAATATAA
*
24307162 TTTAATATATAATAT
1 TTTAATATAAAATAT
*
24307177 TTT-ATTTCAAAATAT
1 TTTAATAT-AAAATAT
*
24307192 AATTTAAAATAAAATAT
1 --TTTAATATAAAATAT
24307209 TTTAATATAAAA
1 TTTAATATAAAA
24307221 ATAATTATAT
Statistics
Matches: 35, Mismatches: 5, Indels: 8
0.73 0.10 0.17
Matches are distributed among these distances:
14 3 0.09
15 20 0.57
17 10 0.29
18 2 0.06
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.46
Consensus pattern (15 bp):
TTTAATATAAAATAT
Found at i:24312854 original size:27 final size:26
Alignment explanation
Indices: 24312808--24312859 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
24312798 TTAAATAATT
24312808 ATTTTTTTTTAAAAAAAA-TTGTAAA
1 ATTTTTTTTTAAAAAAAATTTGTAAA
*
24312833 ATTTTCTTTTTAAAAGATAATTTGTAA
1 ATTTT-TTTTTAAAA-AAAATTTGTAA
24312860 GTGCTGATTA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
25 5 0.22
26 9 0.39
27 3 0.13
28 6 0.26
ACGTcount: A:0.42, C:0.02, G:0.06, T:0.50
Consensus pattern (26 bp):
ATTTTTTTTTAAAAAAAATTTGTAAA
Found at i:24324923 original size:26 final size:26
Alignment explanation
Indices: 24324894--24324949 Score: 76
Period size: 26 Copynumber: 2.2 Consensus size: 26
24324884 AATTCATTAC
*
24324894 GAGCAAAGATAATATTTAGCCCATAA
1 GAGCAAAGACAATATTTAGCCCATAA
* * *
24324920 GAGCACAGACAATATTTAGCCTATAC
1 GAGCAAAGACAATATTTAGCCCATAA
24324946 GAGC
1 GAGC
24324950 CCAGAATGGT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.41, C:0.20, G:0.18, T:0.21
Consensus pattern (26 bp):
GAGCAAAGACAATATTTAGCCCATAA
Found at i:24324954 original size:26 final size:24
Alignment explanation
Indices: 24324904--24325004 Score: 89
Period size: 24 Copynumber: 4.1 Consensus size: 24
24324894 GAGCAAAGAT
* * *
24324904 AATATTTAGCCCATAAGAGCACAG
1 AATATTTAGCCTATACGAGCCCAG
24324928 ACAATATTTAGCCTATACGAGCCCAG
1 --AATATTTAGCCTATACGAGCCCAG
**
24324954 AATGGTTAGCTCT-TACGAGCCCAG
1 AATATTTAGC-CTATACGAGCCCAG
* *
24324978 AATGA-TTAGCTTTTACGAGCCCAG
1 AAT-ATTTAGCCTATACGAGCCCAG
24325002 AAT
1 AAT
24325005 CAGAATAACG
Statistics
Matches: 65, Mismatches: 7, Indels: 8
0.81 0.09 0.10
Matches are distributed among these distances:
23 1 0.02
24 41 0.63
25 2 0.03
26 21 0.32
ACGTcount: A:0.34, C:0.23, G:0.19, T:0.25
Consensus pattern (24 bp):
AATATTTAGCCTATACGAGCCCAG
Found at i:24324970 original size:24 final size:24
Alignment explanation
Indices: 24324935--24325004 Score: 106
Period size: 24 Copynumber: 2.9 Consensus size: 24
24324925 CAGACAATAT
*
24324935 TTAGC-CTATACGAGCCCAGAATGG
1 TTAGCTCT-TACGAGCCCAGAATGA
24324959 TTAGCTCTTACGAGCCCAGAATGA
1 TTAGCTCTTACGAGCCCAGAATGA
*
24324983 TTAGCTTTTACGAGCCCAGAAT
1 TTAGCTCTTACGAGCCCAGAAT
24325005 CAGAATAACG
Statistics
Matches: 43, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
24 41 0.95
25 2 0.05
ACGTcount: A:0.29, C:0.24, G:0.21, T:0.26
Consensus pattern (24 bp):
TTAGCTCTTACGAGCCCAGAATGA
Found at i:24325036 original size:27 final size:27
Alignment explanation
Indices: 24324998--24325065 Score: 127
Period size: 27 Copynumber: 2.5 Consensus size: 27
24324988 TTTTACGAGC
24324998 CCAGAATCAGAATAACGCTCTTTTAAG
1 CCAGAATCAGAATAACGCTCTTTTAAG
*
24325025 CCAGAATCAGAATAACGCTCTTTTGAG
1 CCAGAATCAGAATAACGCTCTTTTAAG
24325052 CCAGAATCAGAATA
1 CCAGAATCAGAATA
24325066 CTCCTCAAGC
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
27 40 1.00
ACGTcount: A:0.38, C:0.22, G:0.16, T:0.24
Consensus pattern (27 bp):
CCAGAATCAGAATAACGCTCTTTTAAG
Found at i:24328414 original size:21 final size:21
Alignment explanation
Indices: 24328367--24328415 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 21
24328357 CTCGAGATGA
24328367 TTCTACCGAAACATGTAATAC
1 TTCTACCGAAACATGTAATAC
** *
24328388 AACTACCGAAACAAT-TCATAC
1 TTCTACCGAAAC-ATGTAATAC
24328409 TTCTACC
1 TTCTACC
24328416 AATACTAAAA
Statistics
Matches: 22, Mismatches: 5, Indels: 2
0.76 0.17 0.07
Matches are distributed among these distances:
21 20 0.91
22 2 0.09
ACGTcount: A:0.39, C:0.29, G:0.06, T:0.27
Consensus pattern (21 bp):
TTCTACCGAAACATGTAATAC
Done.