Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032255.1 Gossypioides kirkii chromosome KI_13
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: 42971368
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 74 of 143
Found at i:24126590 original size:33 final size:31
Alignment explanation
Indices: 24126513--24126591 Score: 81
Period size: 33 Copynumber: 2.4 Consensus size: 31
24126503 CTCTCAACAA
*
24126513 AAAATACAAAAAAATATTCAAAATCATTTTC
1 AAAATTCAAAAAAATATTCAAAATCATTTTC
24126544 GAAAATTCAAAAAAAATAAATTCAAAAT-ATTTAT-
1 -AAAATTC-AAAAAAAT--ATTCAAAATCATTT-TC
24126578 AAATATTCAAAAAA
1 AAA-ATTCAAAAAA
24126592 TTATAGTTTT
Statistics
Matches: 41, Mismatches: 1, Indels: 9
0.80 0.02 0.18
Matches are distributed among these distances:
32 6 0.15
33 17 0.41
34 8 0.20
35 10 0.24
ACGTcount: A:0.62, C:0.09, G:0.01, T:0.28
Consensus pattern (31 bp):
AAAATTCAAAAAAATATTCAAAATCATTTTC
Found at i:24131842 original size:37 final size:37
Alignment explanation
Indices: 24131714--24131981 Score: 311
Period size: 37 Copynumber: 7.1 Consensus size: 37
24131704 GCTTGATAGT
* * * *
24131714 ATACACCGGCATGAAGCCTGCTATGCACTAAGCCCGATAA
1 ATACACCGGCACGAAGCCTACTAGGCACAAAGCCCG---A
** * ** *
24131754 ATACATTGGCACGAAGCCTGCTAGGCATTAAGCCCAATAA
1 ATACACCGGCACGAAGCCTACTAGGCACAAAGCCC---GA
* *
24131794 ATACACCGGCATGAAGCCTACTAGGCACAAAGCCCAA
1 ATACACCGGCACGAAGCCTACTAGGCACAAAGCCCGA
* *
24131831 ATACATCGGCATGAAGCCTACTAGGCACAAAGCCCGA
1 ATACACCGGCACGAAGCCTACTAGGCACAAAGCCCGA
*
24131868 ATACACCGGCACGAAGCCTACTAGGCATAAAGCCCGA
1 ATACACCGGCACGAAGCCTACTAGGCACAAAGCCCGA
* * *
24131905 ATGCACCAGCACGAAGCCTACCAGGCACAAAGCCCGA
1 ATACACCGGCACGAAGCCTACTAGGCACAAAGCCCGA
*
24131942 ATACACCGGCACAAAGCCTACTAGGCACAAAGCCCGA
1 ATACACCGGCACGAAGCCTACTAGGCACAAAGCCCGA
24131979 ATA
1 ATA
24131982 TTTAGATGTA
Statistics
Matches: 200, Mismatches: 25, Indels: 9
0.85 0.11 0.04
Matches are distributed among these distances:
37 140 0.70
40 60 0.30
ACGTcount: A:0.36, C:0.31, G:0.20, T:0.13
Consensus pattern (37 bp):
ATACACCGGCACGAAGCCTACTAGGCACAAAGCCCGA
Found at i:24131937 original size:16 final size:16
Alignment explanation
Indices: 24131909--24131975 Score: 55
Period size: 16 Copynumber: 3.9 Consensus size: 16
24131899 GCCCGAATGC
*
24131909 ACCA-GCACGAAGCCT
1 ACCAGGCACAAAGCCT
24131924 ACCAGGCACAAAGCCCGAAT
1 ACCAGGCACAAAG-CC---T
*
24131944 ACACCGGCACAAAGCCT
1 AC-CAGGCACAAAGCCT
*
24131961 ACTAGGCACAAAGCC
1 ACCAGGCACAAAGCC
24131976 CGAATATTTA
Statistics
Matches: 42, Mismatches: 4, Indels: 11
0.74 0.07 0.19
Matches are distributed among these distances:
15 4 0.10
16 18 0.43
17 5 0.12
20 5 0.12
21 10 0.24
ACGTcount: A:0.37, C:0.37, G:0.19, T:0.06
Consensus pattern (16 bp):
ACCAGGCACAAAGCCT
Found at i:24131952 original size:21 final size:21
Alignment explanation
Indices: 24131854--24131959 Score: 72
Period size: 21 Copynumber: 5.5 Consensus size: 21
24131844 AAGCCTACTA
24131854 GGCACAAAGCCCGAATACACC
1 GGCACAAAGCCCGAATACACC
*
24131875 GGCACGAAG-CC---TACTA--
1 GGCACAAAGCCCGAATAC-ACC
* *
24131891 GGCATAAAGCCCGAATGCACC
1 GGCACAAAGCCCGAATACACC
* * *
24131912 AGCACGAAG-CC---TAC-CA
1 GGCACAAAGCCCGAATACACC
24131928 GGCACAAAGCCCGAATACACC
1 GGCACAAAGCCCGAATACACC
24131949 GGCACAAAGCC
1 GGCACAAAGCC
24131960 TACTAGGCAC
Statistics
Matches: 61, Mismatches: 12, Indels: 24
0.63 0.12 0.25
Matches are distributed among these distances:
16 15 0.25
17 9 0.15
18 1 0.02
19 1 0.02
20 9 0.15
21 26 0.43
ACGTcount: A:0.36, C:0.36, G:0.22, T:0.07
Consensus pattern (21 bp):
GGCACAAAGCCCGAATACACC
Found at i:24135084 original size:89 final size:89
Alignment explanation
Indices: 24134955--24135157 Score: 262
Period size: 89 Copynumber: 2.2 Consensus size: 89
24134945 TATGCAATAC
* * * *
24134955 CTCAACCATCGATACGGTATCTATACATATAACAGTTCCCTAACAATGTTGCTCACACTAAGCTG
1 CTCAACCATCG-TA-GG-GTCTGTACATATAACAGCTCCCTAACAATGCTGCTCACACTAAGCTG
** *
24135020 ACGAGAATATGGATATCAAGCATAAAT
63 ACGAGAATATACAAATCAAGCATAAAT
** * *
24135047 CTCAACCATCGTAGGGTCTGTACATATAATTGCTCCCTAACGATGCTGCTCATACTAAGCTGACG
1 CTCAACCATCGTAGGGTCTGTACATATAACAGCTCCCTAACAATGCTGCTCACACTAAGCTGACG
24135112 AGAATATACAAATCAAGCATAAAT
66 AGAATATACAAATCAAGCATAAAT
* *
24135136 CTCAGCCATCGTAGGGCCTGTA
1 CTCAACCATCGTAGGGTCTGTA
24135158 ATCCGTTCTT
Statistics
Matches: 98, Mismatches: 13, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
89 83 0.85
90 2 0.02
91 2 0.02
92 11 0.11
ACGTcount: A:0.34, C:0.24, G:0.16, T:0.26
Consensus pattern (89 bp):
CTCAACCATCGTAGGGTCTGTACATATAACAGCTCCCTAACAATGCTGCTCACACTAAGCTGACG
AGAATATACAAATCAAGCATAAAT
Found at i:24138039 original size:27 final size:27
Alignment explanation
Indices: 24138001--24138054 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
24137991 GTGGCCTAGT
24138001 GAAACACTCTAGTAAAACTTGAGTTAC
1 GAAACACTCTAGTAAAACTTGAGTTAC
24138028 GAAACACTCTAGTAAAACTTGAGTTAC
1 GAAACACTCTAGTAAAACTTGAGTTAC
24138055 CATGGTTAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.41, C:0.19, G:0.15, T:0.26
Consensus pattern (27 bp):
GAAACACTCTAGTAAAACTTGAGTTAC
Found at i:24146601 original size:15 final size:15
Alignment explanation
Indices: 24146581--24146612 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
24146571 TCCTATTGCT
*
24146581 TGTGATGTTTTATGA
1 TGTGATATTTTATGA
24146596 TGTGATATTTTATGA
1 TGTGATATTTTATGA
24146611 TG
1 TG
24146613 ATACTAAGAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.22, C:0.00, G:0.25, T:0.53
Consensus pattern (15 bp):
TGTGATATTTTATGA
Found at i:24148150 original size:9 final size:9
Alignment explanation
Indices: 24148138--24148184 Score: 53
Period size: 9 Copynumber: 5.2 Consensus size: 9
24148128 TGAATTCTAT
24148138 TAATTAAAA
1 TAATTAAAA
24148147 TAATAATAAAA
1 TAAT--TAAAA
*
24148158 TTATT-AAA
1 TAATTAAAA
24148166 -AATTAAAA
1 TAATTAAAA
24148174 TAATTAAAA
1 TAATTAAAA
24148183 TA
1 TA
24148185 TAAATTAAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 8
0.76 0.05 0.19
Matches are distributed among these distances:
7 3 0.09
8 6 0.19
9 15 0.47
11 8 0.25
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (9 bp):
TAATTAAAA
Found at i:24148169 original size:27 final size:26
Alignment explanation
Indices: 24148139--24148213 Score: 83
Period size: 21 Copynumber: 3.1 Consensus size: 26
24148129 GAATTCTATT
24148139 AATTAAAATAATAATAAAATTATTAAA
1 AATTAAAATAATAATAAAATTA-TAAA
24148166 AATTAAAATAAT--TAAAA-TAT--A
1 AATTAAAATAATAATAAAATTATAAA
*
24148187 AATTAAAAT-A-AAGAAAATTATAAA
1 AATTAAAATAATAATAAAATTATAAA
24148211 AAT
1 AAT
24148214 ATGAAAAATA
Statistics
Matches: 42, Mismatches: 1, Indels: 13
0.75 0.02 0.23
Matches are distributed among these distances:
20 1 0.02
21 14 0.33
22 3 0.07
23 1 0.02
24 6 0.14
25 5 0.12
27 12 0.29
ACGTcount: A:0.68, C:0.00, G:0.01, T:0.31
Consensus pattern (26 bp):
AATTAAAATAATAATAAAATTATAAA
Found at i:24148434 original size:23 final size:23
Alignment explanation
Indices: 24148389--24148439 Score: 59
Period size: 23 Copynumber: 2.2 Consensus size: 23
24148379 ATTTTTCATA
24148389 ATTTTTACAATTTTTTTCGTAAT
1 ATTTTTACAATTTTTTTCGTAAT
* * *
24148412 TTTTTTATAATTTTATTT-TTAAT
1 ATTTTTACAATTTT-TTTCGTAAT
24148435 ATTTT
1 ATTTT
24148440 AGTAAATTTT
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
23 20 0.87
24 3 0.13
ACGTcount: A:0.25, C:0.04, G:0.02, T:0.69
Consensus pattern (23 bp):
ATTTTTACAATTTTTTTCGTAAT
Found at i:24149764 original size:24 final size:24
Alignment explanation
Indices: 24149737--24149782 Score: 83
Period size: 24 Copynumber: 1.9 Consensus size: 24
24149727 TGTGGAACTA
24149737 GTAGAAAATGAAGATCCAACTCAG
1 GTAGAAAATGAAGATCCAACTCAG
*
24149761 GTAGAAAATGAATATCCAACTC
1 GTAGAAAATGAAGATCCAACTC
24149783 TGTATATGGT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.46, C:0.17, G:0.17, T:0.20
Consensus pattern (24 bp):
GTAGAAAATGAAGATCCAACTCAG
Found at i:24152110 original size:15 final size:15
Alignment explanation
Indices: 24152092--24152141 Score: 66
Period size: 15 Copynumber: 3.4 Consensus size: 15
24152082 TAGTGCTTTG
24152092 AATTTTAGGGTTTCA
1 AATTTTAGGGTTTCA
* *
24152107 AATTTAAGGGTTTCG
1 AATTTTAGGGTTTCA
*
24152122 AA-TTTAAGGTTTCA
1 AATTTTAGGGTTTCA
24152136 AATTTT
1 AATTTT
24152142 TAAGGTTTAG
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
14 11 0.38
15 18 0.62
ACGTcount: A:0.30, C:0.06, G:0.18, T:0.46
Consensus pattern (15 bp):
AATTTTAGGGTTTCA
Found at i:24152134 original size:14 final size:14
Alignment explanation
Indices: 24152095--24152204 Score: 87
Period size: 14 Copynumber: 7.7 Consensus size: 14
24152085 TGCTTTGAAT
* *
24152095 TTTAGGGTTTCAAA
1 TTTAAGGTTTCGAA
24152109 TTTAAGGGTTTCGAA
1 TTTAA-GGTTTCGAA
*
24152124 TTTAAGGTTTCAAA
1 TTTAAGGTTTCGAA
* **
24152138 TTTTTAAGGTTTAGTG
1 --TTTAAGGTTTCGAA
*
24152154 TTTAAGGTTTTGAA
1 TTTAAGGTTTCGAA
* *
24152168 TATAAAGTTT-GAA
1 TTTAAGGTTTCGAA
* *
24152181 TTTAAGGTTTAGAG
1 TTTAAGGTTTCGAA
24152195 TTTAAGGTTT
1 TTTAAGGTTT
24152205 AAGATTTAGG
Statistics
Matches: 77, Mismatches: 15, Indels: 8
0.77 0.15 0.08
Matches are distributed among these distances:
13 11 0.14
14 43 0.56
15 13 0.17
16 10 0.13
ACGTcount: A:0.29, C:0.03, G:0.22, T:0.46
Consensus pattern (14 bp):
TTTAAGGTTTCGAA
Found at i:24152149 original size:30 final size:29
Alignment explanation
Indices: 24152095--24152190 Score: 81
Period size: 30 Copynumber: 3.3 Consensus size: 29
24152085 TGCTTTGAAT
* *
24152095 TTTAGGGTTTCAAATTTAAGGGTTTCGAA
1 TTTAAGGTTTCAAATTTAAGGGTTTAGAA
**
24152124 TTTAAGGTTTCAAATTTTTAA-GGTTTAGTG
1 TTTAAGGTTTCAAA--TTTAAGGGTTTAGAA
** * *
24152154 TTTAAGGTTTTGAATATAA-AGTTT-GAA
1 TTTAAGGTTTCAAATTTAAGGGTTTAGAA
24152181 TTTAAGGTTT
1 TTTAAGGTTT
24152191 AGAGTTTAAG
Statistics
Matches: 55, Mismatches: 10, Indels: 6
0.77 0.14 0.08
Matches are distributed among these distances:
27 11 0.20
28 8 0.15
29 13 0.24
30 18 0.33
31 5 0.09
ACGTcount: A:0.29, C:0.03, G:0.21, T:0.47
Consensus pattern (29 bp):
TTTAAGGTTTCAAATTTAAGGGTTTAGAA
Found at i:24152212 original size:14 final size:14
Alignment explanation
Indices: 24152180--24152234 Score: 51
Period size: 14 Copynumber: 3.9 Consensus size: 14
24152170 TAAAGTTTGA
24152180 ATTTAAGGTTT-AG
1 ATTTAAGGTTTAAG
24152193 AGTTTAAGGTTTAAG
1 A-TTTAAGGTTTAAG
24152208 ATTT-AGGATTTATAG
1 ATTTAAGG-TTTA-AG
* *
24152223 GTTTAGGGTTTA
1 ATTTAAGGTTTA
24152235 TAAGTATGAA
Statistics
Matches: 35, Mismatches: 2, Indels: 8
0.78 0.04 0.18
Matches are distributed among these distances:
13 4 0.11
14 17 0.49
15 12 0.34
16 2 0.06
ACGTcount: A:0.29, C:0.00, G:0.25, T:0.45
Consensus pattern (14 bp):
ATTTAAGGTTTAAG
Found at i:24154579 original size:16 final size:16
Alignment explanation
Indices: 24154555--24154589 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
24154545 ACTAACAAAA
24154555 TAAAATTAATTTAAAT
1 TAAAATTAATTTAAAT
* *
24154571 TAAATTTAATTTAATT
1 TAAAATTAATTTAAAT
24154587 TAA
1 TAA
24154590 TCAAAGTTTC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (16 bp):
TAAAATTAATTTAAAT
Found at i:24154840 original size:17 final size:16
Alignment explanation
Indices: 24154813--24154845 Score: 57
Period size: 17 Copynumber: 2.0 Consensus size: 16
24154803 CAAATTACTA
24154813 TCTTTCTCTCCTTCTT
1 TCTTTCTCTCCTTCTT
24154829 TCTTTACTCTCCTTCTT
1 TCTTT-CTCTCCTTCTT
24154846 CCTTCATTCT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 5 0.31
17 11 0.69
ACGTcount: A:0.03, C:0.36, G:0.00, T:0.61
Consensus pattern (16 bp):
TCTTTCTCTCCTTCTT
Found at i:24154855 original size:24 final size:25
Alignment explanation
Indices: 24154807--24154857 Score: 68
Period size: 24 Copynumber: 2.1 Consensus size: 25
24154797 CAAAATCAAA
* *
24154807 TTACTATCTTTCTCTCCTTCTTTCT
1 TTACTATCCTTCTCTCCTTCATTCT
*
24154832 TTACTCTCCTTCT-TCCTTCATTCT
1 TTACTATCCTTCTCTCCTTCATTCT
24154856 TT
1 TT
24154858 TCTTTTTTTC
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
24 12 0.52
25 11 0.48
ACGTcount: A:0.08, C:0.33, G:0.00, T:0.59
Consensus pattern (25 bp):
TTACTATCCTTCTCTCCTTCATTCT
Found at i:24155839 original size:14 final size:13
Alignment explanation
Indices: 24155797--24155859 Score: 67
Period size: 13 Copynumber: 4.8 Consensus size: 13
24155787 TTAATATTGC
* *
24155797 TTTTGAGAAGTGC
1 TTTTGAAAAGTGA
*
24155810 TTTTAAAAAGTG-
1 TTTTGAAAAGTGA
24155822 TTTTGGAAAAGTGA
1 TTTT-GAAAAGTGA
24155836 TTTTGAAAAGT-A
1 TTTTGAAAAGTGA
24155848 TTCTTGAAAAGT
1 TT-TTGAAAAGT
24155860 TTGGTTTAAG
Statistics
Matches: 44, Mismatches: 3, Indels: 6
0.83 0.06 0.11
Matches are distributed among these distances:
12 7 0.16
13 33 0.75
14 4 0.09
ACGTcount: A:0.35, C:0.03, G:0.22, T:0.40
Consensus pattern (13 bp):
TTTTGAAAAGTGA
Found at i:24156991 original size:58 final size:59
Alignment explanation
Indices: 24156799--24156989 Score: 282
Period size: 58 Copynumber: 3.3 Consensus size: 59
24156789 TTTGGGTTAT
* * **
24156799 GTTTA-TGACTGTTTTTTAAAAATAAAATTATATTTGGGTTTAAAAATATTTGAGTTTA
1 GTTTATTGAGTGTTTTTTAAGAACGAAATTATATTTGGGTTTAAAAATATTTGAGTTTA
*
24156857 GTTTA-TGAGTGTTTTTTAAGAACTAAATTATATTTGGGTTTAAAAATATTTGAGTTTA
1 GTTTATTGAGTGTTTTTTAAGAACGAAATTATATTTGGGTTTAAAAATATTTGAGTTTA
24156915 GTTTATT-AGTGTTTTTTAAGAACGAAATTATATTTGGGTTTAAAAATATTTTG-GTTTA
1 GTTTATTGAGTGTTTTTTAAGAACGAAATTATATTTGGGTTTAAAAATA-TTTGAGTTTA
*
24156973 ATTTATTGATGTGTTTT
1 GTTTATTGA-GTGTTTT
24156990 AAATATTAGG
Statistics
Matches: 123, Mismatches: 6, Indels: 6
0.91 0.04 0.04
Matches are distributed among these distances:
58 110 0.89
59 6 0.05
60 7 0.06
ACGTcount: A:0.32, C:0.02, G:0.16, T:0.50
Consensus pattern (59 bp):
GTTTATTGAGTGTTTTTTAAGAACGAAATTATATTTGGGTTTAAAAATATTTGAGTTTA
Found at i:24164593 original size:30 final size:32
Alignment explanation
Indices: 24164543--24164630 Score: 116
Period size: 30 Copynumber: 2.9 Consensus size: 32
24164533 ATTATTACGT
24164543 TCAAATAAG-GTTTAATCTTTAATTTGCAT-C
1 TCAAATAAGCGTTTAATCTTTAATTTGCATAC
24164573 T-AAATAAGCGTTT-ATCCTTTAATTT-C-TAC
1 TCAAATAAGCGTTTAAT-CTTTAATTTGCATAC
*
24164602 TCAAATAAGCATTTAATCTTTAATTTGCA
1 TCAAATAAGCGTTTAATCTTTAATTTGCA
24164631 GTTCTTTTTT
Statistics
Matches: 50, Mismatches: 1, Indels: 12
0.79 0.02 0.19
Matches are distributed among these distances:
28 1 0.02
29 12 0.24
30 34 0.68
31 3 0.06
ACGTcount: A:0.34, C:0.15, G:0.08, T:0.43
Consensus pattern (32 bp):
TCAAATAAGCGTTTAATCTTTAATTTGCATAC
Found at i:24167173 original size:2 final size:2
Alignment explanation
Indices: 24167166--24167196 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
24167156 AGTGACATTA
24167166 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
24167197 AAATTTTCTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 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):
AT
Found at i:24167289 original size:22 final size:21
Alignment explanation
Indices: 24167264--24167307 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
24167254 AAGTAACTTT
* *
24167264 AAAAAATTATTGTCTTTTTTTA
1 AAAAAAATATT-TATTTTTTTA
24167286 AAAAAAATATTTATTTTTTTA
1 AAAAAAATATTTATTTTTTTA
24167307 A
1 A
24167308 TATTTTACTA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 10 0.50
22 10 0.50
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.52
Consensus pattern (21 bp):
AAAAAAATATTTATTTTTTTA
Found at i:24167520 original size:15 final size:13
Alignment explanation
Indices: 24167488--24167522 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
24167478 CTTTGACAAC
*
24167488 GCACATACACCTT
1 GCACACACACCTT
24167501 GCACACACACCTT
1 GCACACACACCTT
*
24167514 GTACACACA
1 GCACACACA
24167523 GACACTCGAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.34, C:0.40, G:0.09, T:0.17
Consensus pattern (13 bp):
GCACACACACCTT
Found at i:24168263 original size:2 final size:2
Alignment explanation
Indices: 24168258--24168283 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
24168248 CAAAAAAATG
24168258 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
24168284 TGAATTATAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:24176379 original size:20 final size:20
Alignment explanation
Indices: 24176336--24176379 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 20
24176326 TTTTCCATAC
* *
24176336 AAAAAGATTTAAAAAATCAT
1 AAAAAGATTTAAAAAATAAA
* *
24176356 AAAAATATTTACAAAATAAA
1 AAAAAGATTTAAAAAATAAA
24176376 AAAA
1 AAAA
24176380 TCTGAATTTT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.70, C:0.05, G:0.02, T:0.23
Consensus pattern (20 bp):
AAAAAGATTTAAAAAATAAA
Found at i:24180003 original size:7 final size:7
Alignment explanation
Indices: 24179991--24180035 Score: 72
Period size: 7 Copynumber: 6.4 Consensus size: 7
24179981 ATATCAACTC
24179991 TGGACCA
1 TGGACCA
24179998 TGGACCA
1 TGGACCA
24180005 TGGACCA
1 TGGACCA
24180012 TGGACCA
1 TGGACCA
*
24180019 TGGACTA
1 TGGACCA
*
24180026 TGGACTA
1 TGGACCA
24180033 TGG
1 TGG
24180036 TTTGTATTTC
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
7 37 1.00
ACGTcount: A:0.27, C:0.22, G:0.31, T:0.20
Consensus pattern (7 bp):
TGGACCA
Found at i:24181747 original size:17 final size:17
Alignment explanation
Indices: 24181722--24181798 Score: 57
Period size: 17 Copynumber: 4.2 Consensus size: 17
24181712 AAAGTTATTG
*
24181722 TTTTGAATTTTTTAAAA
1 TTTTAAATTTTTTAAAA
*
24181739 TTTTAAATTATTTTATATAT
1 TTTTAAATT-TTTTA-A-AA
*
24181759 TATTTAGATTTTTTCAAAA
1 T-TTTAAATTTTTT-AAAA
*
24181778 -TTTAATTTTTTTTAAAA
1 TTTTAA-ATTTTTTAAAA
24181795 TTTT
1 TTTT
24181799 GAAGAATTTT
Statistics
Matches: 47, Mismatches: 6, Indels: 13
0.71 0.09 0.20
Matches are distributed among these distances:
17 16 0.34
18 14 0.30
19 2 0.04
20 7 0.15
21 8 0.17
ACGTcount: A:0.34, C:0.01, G:0.03, T:0.62
Consensus pattern (17 bp):
TTTTAAATTTTTTAAAA
Found at i:24190133 original size:13 final size:13
Alignment explanation
Indices: 24190115--24190140 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
24190105 AGACTTTACT
24190115 TTTTCTTTTTCTG
1 TTTTCTTTTTCTG
24190128 TTTTCTTTTTCTG
1 TTTTCTTTTTCTG
24190141 ATTCATAATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.00, C:0.15, G:0.08, T:0.77
Consensus pattern (13 bp):
TTTTCTTTTTCTG
Found at i:24193424 original size:21 final size:20
Alignment explanation
Indices: 24193398--24193444 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 20
24193388 AGAATTGTTG
*
24193398 CATATAATTC-ATTCACATCAT
1 CATATAACTCAATT-ACA-CAT
24193419 CATATAACTCAATTACACAT
1 CATATAACTCAATTACACAT
24193439 CATATA
1 CATATA
24193445 CAAGCTCATT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
20 9 0.38
21 12 0.50
22 3 0.12
ACGTcount: A:0.43, C:0.23, G:0.00, T:0.34
Consensus pattern (20 bp):
CATATAACTCAATTACACAT
Found at i:24193441 original size:20 final size:21
Alignment explanation
Indices: 24193398--24193454 Score: 62
Period size: 22 Copynumber: 2.6 Consensus size: 21
24193388 AGAATTGTTG
*
24193398 CATATAATTCATTCACATCAT
1 CATATAACTCATTCACATCAT
24193419 CATATAACTCAATTACACATCAT
1 CATATAACTC-ATT-CACATCAT
*
24193442 -ATACAAGCTCATT
1 CATATAA-CTCATT
24193455 ATATATATAT
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
21 9 0.29
22 11 0.35
23 11 0.35
ACGTcount: A:0.40, C:0.25, G:0.02, T:0.33
Consensus pattern (21 bp):
CATATAACTCATTCACATCAT
Found at i:24198302 original size:14 final size:14
Alignment explanation
Indices: 24198283--24198311 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
24198273 TTAATAGAAG
24198283 AATGTTTATGTTTA
1 AATGTTTATGTTTA
24198297 AATGTTTATGTTTA
1 AATGTTTATGTTTA
24198311 A
1 A
24198312 GGATTCAGAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.31, C:0.00, G:0.14, T:0.55
Consensus pattern (14 bp):
AATGTTTATGTTTA
Found at i:24205973 original size:14 final size:14
Alignment explanation
Indices: 24205954--24205982 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
24205944 GTCTGAATCC
24205954 TTAAACATAAACAT
1 TTAAACATAAACAT
24205968 TTAAACATAAACAT
1 TTAAACATAAACAT
24205982 T
1 T
24205983 CTTCTATTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.55, C:0.14, G:0.00, T:0.31
Consensus pattern (14 bp):
TTAAACATAAACAT
Found at i:24214770 original size:25 final size:25
Alignment explanation
Indices: 24214688--24214773 Score: 100
Period size: 25 Copynumber: 3.4 Consensus size: 25
24214678 TGTTCCCGAA
* * *
24214688 TATCAGACTTTGTGCCGGTGATATC
1 TATCAGGCTTTGTGTCGGTGTTATC
* *
24214713 TATCAAGCTTTTTGTCGGTGTTATC
1 TATCAGGCTTTGTGTCGGTGTTATC
* *
24214738 AATCAGGCTTTGTGTCAGTGTTATC
1 TATCAGGCTTTGTGTCGGTGTTATC
*
24214763 TATTAGGCTTT
1 TATCAGGCTTT
24214774 AAGCTAATGA
Statistics
Matches: 50, Mismatches: 11, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
25 50 1.00
ACGTcount: A:0.19, C:0.16, G:0.22, T:0.43
Consensus pattern (25 bp):
TATCAGGCTTTGTGTCGGTGTTATC
Found at i:24217560 original size:17 final size:17
Alignment explanation
Indices: 24217538--24217570 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
24217528 TTAGGGTGTG
*
24217538 AAGAAATAAAAGAAAGA
1 AAGAAATAAAAAAAAGA
24217555 AAGAAATAAAAAAAAG
1 AAGAAATAAAAAAAAG
24217571 TTAACAACGA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.79, C:0.00, G:0.15, T:0.06
Consensus pattern (17 bp):
AAGAAATAAAAAAAAGA
Found at i:24217916 original size:22 final size:22
Alignment explanation
Indices: 24217891--24217937 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
24217881 TTTAGGTACC
*
24217891 AATTTTATAT-TTAAGCCATTTT
1 AATTTGATATATT-AGCCATTTT
*
24217913 AATTTGATCTATTAGCCATTTT
1 AATTTGATATATTAGCCATTTT
24217935 AAT
1 AAT
24217938 ACTTAAAATG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
22 20 0.91
23 2 0.09
ACGTcount: A:0.32, C:0.11, G:0.06, T:0.51
Consensus pattern (22 bp):
AATTTGATATATTAGCCATTTT
Found at i:24219392 original size:80 final size:80
Alignment explanation
Indices: 24219250--24219400 Score: 230
Period size: 80 Copynumber: 1.9 Consensus size: 80
24219240 TTGTTTCCCG
* * * * * *
24219250 TCAATTCATGGCACCTGGTGCCTAGTGGATATACCGCGATATGTGAGCCCAGCACTAGTTGGATT
1 TCAAATCATGGCACCTAGTGCCTAGCGGATAAACCGCGATATGTGAGCCCAACACTAATTGGATT
24219315 AACCAACGAAGTCTA
66 AACCAACGAAGTCTA
* *
24219330 TCAAATCATGGCACCTAGTGCCTAGCGGATAAACCGTGATATGTGAGCCCAACTCTAATTGGATT
1 TCAAATCATGGCACCTAGTGCCTAGCGGATAAACCGCGATATGTGAGCCCAACACTAATTGGATT
24219395 AACCAA
66 AACCAA
24219401 TGGTTTGTGC
Statistics
Matches: 63, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
80 63 1.00
ACGTcount: A:0.30, C:0.24, G:0.22, T:0.25
Consensus pattern (80 bp):
TCAAATCATGGCACCTAGTGCCTAGCGGATAAACCGCGATATGTGAGCCCAACACTAATTGGATT
AACCAACGAAGTCTA
Found at i:24225305 original size:3 final size:3
Alignment explanation
Indices: 24225297--24225322 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
24225287 ATGTAGGAAT
24225297 TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TT
24225323 TATTCTATTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:24231037 original size:14 final size:15
Alignment explanation
Indices: 24231012--24231042 Score: 55
Period size: 14 Copynumber: 2.1 Consensus size: 15
24231002 TAATTTTGAA
24231012 CATCACAAATTTAAG
1 CATCACAAATTTAAG
24231027 CATCA-AAATTTAAG
1 CATCACAAATTTAAG
24231041 CA
1 CA
24231043 ATTTTCTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 11 0.69
15 5 0.31
ACGTcount: A:0.48, C:0.19, G:0.06, T:0.26
Consensus pattern (15 bp):
CATCACAAATTTAAG
Found at i:24232121 original size:141 final size:141
Alignment explanation
Indices: 24231893--24232173 Score: 519
Period size: 141 Copynumber: 2.0 Consensus size: 141
24231883 ATTTAAACCC
*
24231893 TAAACCTTAGACCTTAAACTCAAATCTAAACTTTGAGATTTGGGATTCAAAGTAAAATAATTGCC
1 TAAACCTTAAACCTTAAACTCAAATCTAAACTTTGAGATTTGGGATTCAAAGTAAAATAATTGCC
*
24231958 AAAGTTGTGTAAATAACATGAAAAAAATTACACAAAATTACTATTTTTTTAAAATTGGTTACATA
66 AAAGTTGTGTAAATAACATGAAAAAAATTACACAAAATTACTATTTTTTTAAAATTGATTACATA
24232023 AAAATAAAAAA
131 AAAATAAAAAA
24232034 TAAACCTTAAACCTTAAACTCAAATCTAAACTTTGAGATTTGGGATTCAGAA-TAAAATAATTGC
1 TAAACCTTAAACCTTAAACTCAAATCTAAACTTTGAGATTTGGGATTCA-AAGTAAAATAATTGC
*
24232098 CAAAGTTGTGTAAATAACCTGAAAAAAATTACACAAAATTACTATTTTTTTAAAATTGATTACAT
65 CAAAGTTGTGTAAATAACATGAAAAAAATTACACAAAATTACTATTTTTTTAAAATTGATTACAT
24232163 AAAAATAAAAA
130 AAAAATAAAAA
24232174 TATTAACTAT
Statistics
Matches: 136, Mismatches: 3, Indels: 2
0.96 0.02 0.01
Matches are distributed among these distances:
141 134 0.99
142 2 0.01
ACGTcount: A:0.48, C:0.12, G:0.09, T:0.31
Consensus pattern (141 bp):
TAAACCTTAAACCTTAAACTCAAATCTAAACTTTGAGATTTGGGATTCAAAGTAAAATAATTGCC
AAAGTTGTGTAAATAACATGAAAAAAATTACACAAAATTACTATTTTTTTAAAATTGATTACATA
AAAATAAAAAA
Found at i:24232551 original size:6 final size:6
Alignment explanation
Indices: 24232540--24232564 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
24232530 ACACCTCTCT
24232540 TCTTCA TCTTCA TCTTCA TCTTCA T
1 TCTTCA TCTTCA TCTTCA TCTTCA T
24232565 TTTCTTCCTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.16, C:0.32, G:0.00, T:0.52
Consensus pattern (6 bp):
TCTTCA
Found at i:24232860 original size:18 final size:16
Alignment explanation
Indices: 24232829--24232871 Score: 54
Period size: 14 Copynumber: 2.8 Consensus size: 16
24232819 AGTTTAAGAT
*
24232829 TTAAAAATTTTAATTAA
1 TTAAAAA-TTTATTTAA
24232846 TT--AAATTTATTTAA
1 TTAAAAATTTATTTAA
24232860 TTAAAAATTTAT
1 TTAAAAATTTAT
24232872 CTTCATTCCA
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
14 10 0.43
15 3 0.13
16 8 0.35
17 2 0.09
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (16 bp):
TTAAAAATTTATTTAA
Found at i:24233011 original size:15 final size:15
Alignment explanation
Indices: 24232991--24233036 Score: 51
Period size: 15 Copynumber: 3.1 Consensus size: 15
24232981 ACAAAATGCT
24232991 AACATAAATGACTAA
1 AACATAAATGACTAA
* *
24233006 AACAT-AAT-ATTTCA
1 AACATAAATGA-CTAA
24233020 AACATAAATGACTAA
1 AACATAAATGACTAA
24233035 AA
1 AA
24233037 TGTAACCTGA
Statistics
Matches: 24, Mismatches: 4, Indels: 6
0.71 0.12 0.18
Matches are distributed among these distances:
13 1 0.04
14 10 0.42
15 12 0.50
16 1 0.04
ACGTcount: A:0.59, C:0.13, G:0.04, T:0.24
Consensus pattern (15 bp):
AACATAAATGACTAA
Found at i:24237311 original size:18 final size:17
Alignment explanation
Indices: 24237290--24237337 Score: 60
Period size: 18 Copynumber: 2.7 Consensus size: 17
24237280 AAAATTATAT
24237290 AAATATTTAAAAGAATAA
1 AAATA-TTAAAAGAATAA
* *
24237308 AAATATTAAAATTAAAAA
1 AAATATTAAAA-GAATAA
24237326 AAATATTAAAAG
1 AAATATTAAAAG
24237338 TTTATAAAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
17 6 0.23
18 20 0.77
ACGTcount: A:0.69, C:0.00, G:0.04, T:0.27
Consensus pattern (17 bp):
AAATATTAAAAGAATAA
Found at i:24237317 original size:9 final size:9
Alignment explanation
Indices: 24237276--24237358 Score: 51
Period size: 9 Copynumber: 9.0 Consensus size: 9
24237266 AACAAATAAT
24237276 TTAAAAA-A
1 TTAAAAATA
24237284 TTATATAAATA
1 TTA-A-AAATA
* *
24237295 TTTAAAAGA
1 TTAAAAATA
*
24237304 ATAAAAATA
1 TTAAAAATA
*
24237313 TTAAAATTA
1 TTAAAAATA
**
24237322 AAAAAAATA
1 TTAAAAATA
* *
24237331 TTAAAAGTT
1 TTAAAAATA
*
24237340 TATAAAAATT
1 T-TAAAAATA
24237350 TTAAAAATA
1 TTAAAAATA
24237359 ACATGAATAT
Statistics
Matches: 55, Mismatches: 16, Indels: 7
0.71 0.21 0.09
Matches are distributed among these distances:
8 3 0.05
9 37 0.67
10 12 0.22
11 3 0.05
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (9 bp):
TTAAAAATA
Found at i:24237325 original size:24 final size:27
Alignment explanation
Indices: 24237279--24237330 Score: 65
Period size: 24 Copynumber: 2.0 Consensus size: 27
24237269 AAATAATTTA
* *
24237279 AAAAATTATATAAATATTTAAAAGAAT
1 AAAAATTATATAAATATTAAAAAAAAT
24237306 AAAAA-TAT-TAAA-ATTAAAAAAAAT
1 AAAAATTATATAAATATTAAAAAAAAT
24237330 A
1 A
24237331 TTAAAAGTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
24 11 0.48
25 4 0.17
26 3 0.13
27 5 0.22
ACGTcount: A:0.69, C:0.00, G:0.02, T:0.29
Consensus pattern (27 bp):
AAAAATTATATAAATATTAAAAAAAAT
Found at i:24242641 original size:12 final size:12
Alignment explanation
Indices: 24242624--24242648 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
24242614 ATAGTATAAA
24242624 AGTTTGGGTCAG
1 AGTTTGGGTCAG
24242636 AGTTTGGGTCAG
1 AGTTTGGGTCAG
24242648 A
1 A
24242649 AGTTAGAGGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.20, C:0.08, G:0.40, T:0.32
Consensus pattern (12 bp):
AGTTTGGGTCAG
Found at i:24252905 original size:4 final size:4
Alignment explanation
Indices: 24252896--24252943 Score: 96
Period size: 4 Copynumber: 12.0 Consensus size: 4
24252886 CGTATACTTT
24252896 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
24252944 TCATTTTAGA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 44 1.00
ACGTcount: A:0.50, C:0.25, G:0.00, T:0.25
Consensus pattern (4 bp):
ATAC
Found at i:24258627 original size:16 final size:18
Alignment explanation
Indices: 24258596--24258630 Score: 56
Period size: 16 Copynumber: 2.1 Consensus size: 18
24258586 TCCCACATCG
24258596 ATTTATCAACTATAAAAC
1 ATTTATCAACTATAAAAC
24258614 ATTTATC-A-TATAAAAC
1 ATTTATCAACTATAAAAC
24258630 A
1 A
24258631 AATCTCAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 9 0.53
17 1 0.06
18 7 0.41
ACGTcount: A:0.51, C:0.14, G:0.00, T:0.34
Consensus pattern (18 bp):
ATTTATCAACTATAAAAC
Found at i:24259622 original size:23 final size:23
Alignment explanation
Indices: 24259587--24260077 Score: 590
Period size: 23 Copynumber: 21.3 Consensus size: 23
24259577 ATATTACTTC
24259587 TTTAAGCACAAATCACATTAATA
1 TTTAAGCACAAATCACATTAATA
* * *
24259610 TTTAATCATAAATCATATTAATA
1 TTTAAGCACAAATCACATTAATA
24259633 TTTAAGCACAAATCA-AGTTAATA
1 TTTAAGCACAAATCACA-TTAATA
* *
24259656 TTTGAGCACAAATCATATTAATA
1 TTTAAGCACAAATCACATTAATA
* *
24259679 TTTGAGCACAAATCACTTTAATA
1 TTTAAGCACAAATCACATTAATA
* * *
24259702 TTTGAGCACAAAACATATTAATA
1 TTTAAGCACAAATCACATTAATA
24259725 -TTAGAGCACAAATCACATTAATA
1 TTTA-AGCACAAATCACATTAATA
* *
24259748 TTTAAGCATAAATCGCATTAATA
1 TTTAAGCACAAATCACATTAATA
* * *
24259771 TTTAAGCATAAATCATATTAATT
1 TTTAAGCACAAATCACATTAATA
*
24259794 TTTAAGCATAAATCACATTAATA
1 TTTAAGCACAAATCACATTAATA
* * *
24259817 TTTGAGCCCAAATCATATTAATA
1 TTTAAGCACAAATCACATTAATA
*
24259840 TTTAAGCACAAATCAGATTAATA
1 TTTAAGCACAAATCACATTAATA
*
24259863 TTTGAGCACAAATCACATTAATA
1 TTTAAGCACAAATCACATTAATA
**
24259886 TTTAAGCGTAAATCACATTAATA
1 TTTAAGCACAAATCACATTAATA
* *
24259909 TTTGAGCACAAATCATATTAATA
1 TTTAAGCACAAATCACATTAATA
* *
24259932 TTTAAGTATAAATCACATTAATA
1 TTTAAGCACAAATCACATTAATA
* * *
24259955 TTTGAGCATAAATCACACTAATA
1 TTTAAGCACAAATCACATTAATA
* * *
24259978 TTTGAGCACAAATCATATTATTA
1 TTTAAGCACAAATCACATTAATA
24260001 TTTAAGCACAAATCACATTAATA
1 TTTAAGCACAAATCACATTAATA
* * *
24260024 TTTAAGCATAACTCATATTAATA
1 TTTAAGCACAAATCACATTAATA
* * * *
24260047 ATTGAGCACAAACCATATTAATA
1 TTTAAGCACAAATCACATTAATA
24260070 TTTAAGCA
1 TTTAAGCA
24260078 TAGATATAAG
Statistics
Matches: 403, Mismatches: 61, Indels: 8
0.85 0.13 0.02
Matches are distributed among these distances:
22 3 0.01
23 396 0.98
24 4 0.01
ACGTcount: A:0.45, C:0.14, G:0.07, T:0.34
Consensus pattern (23 bp):
TTTAAGCACAAATCACATTAATA
Found at i:24260454 original size:22 final size:22
Alignment explanation
Indices: 24260426--24260467 Score: 84
Period size: 22 Copynumber: 1.9 Consensus size: 22
24260416 TGAAACAAAT
24260426 ACTGTTCATCTACATATTTAAC
1 ACTGTTCATCTACATATTTAAC
24260448 ACTGTTCATCTACATATTTA
1 ACTGTTCATCTACATATTTA
24260468 CCCACGAATG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.31, C:0.21, G:0.05, T:0.43
Consensus pattern (22 bp):
ACTGTTCATCTACATATTTAAC
Found at i:24265889 original size:18 final size:18
Alignment explanation
Indices: 24265842--24265878 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
24265832 ACTTTTTGTC
24265842 CAAG-TATCGATACCATT
1 CAAGATATCGATACCATT
24265859 CAAGATATCGATACCCATT
1 CAAGATATCGATA-CCATT
24265878 C
1 C
24265879 TAAAATCGAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 4 0.22
18 8 0.44
19 6 0.33
ACGTcount: A:0.35, C:0.27, G:0.11, T:0.27
Consensus pattern (18 bp):
CAAGATATCGATACCATT
Found at i:24266002 original size:20 final size:21
Alignment explanation
Indices: 24265925--24265987 Score: 83
Period size: 21 Copynumber: 3.0 Consensus size: 21
24265915 AAACAATGAC
* *
24265925 AAAAAGTAT-ATATACATTTTC
1 AAAAAGTATCA-ATACCTTTTA
24265946 AAAAAGTATCAATACCTTTTA
1 AAAAAGTATCAATACCTTTTA
*
24265967 AAAAAGTATCGATACCTTTTA
1 AAAAAGTATCAATACCTTTTA
24265988 TCAAGTATCT
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
21 37 0.97
22 1 0.03
ACGTcount: A:0.46, C:0.13, G:0.06, T:0.35
Consensus pattern (21 bp):
AAAAAGTATCAATACCTTTTA
Found at i:24268050 original size:3 final size:3
Alignment explanation
Indices: 24268042--24268080 Score: 78
Period size: 3 Copynumber: 13.0 Consensus size: 3
24268032 GAAAGAATTC
24268042 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
24268081 GTGATATCTT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:24268636 original size:116 final size:116
Alignment explanation
Indices: 24268511--24268760 Score: 347
Period size: 116 Copynumber: 2.2 Consensus size: 116
24268501 TTTTGTCATG
* * *
24268511 TTTCTAGCTTTGTCCTCTGCTTCCCGTGCTTTGCCTTTCTTTGTCCAAGTCGAGTCATCATTCTC
1 TTTCTAGCTTTGTCCTCTGCTTCCCATGCTTTGCCTTTCTTTGTCCAAGACGAGTCATCATACTC
* * * * * **
24268576 AATCCATTCTGATTCGTTGATTACTCTATTGACCAAACTTTTTTTTTCTTA
66 AATCCATTATGAGTCATTGACTACTCTATTGACCAAACTCTTTTGGTCTTA
* * * *
24268627 TTTCTAGCTTTTTCCTCTGTTTCCCATGCTTTGCCTTTTTTTGTCTAAGACGAGTCATCATACTC
1 TTTCTAGCTTTGTCCTCTGCTTCCCATGCTTTGCCTTTCTTTGTCCAAGACGAGTCATCATACTC
* *
24268692 AATCCATTATGAGTCATTGACTACTCTTTTGACCAAACTCTTTTGGTCTTG
66 AATCCATTATGAGTCATTGACTACTCTATTGACCAAACTCTTTTGGTCTTA
*
24268743 TTTCTATCTTTGTCCTCT
1 TTTCTAGCTTTGTCCTCT
24268761 ATTTCTCGTG
Statistics
Matches: 116, Mismatches: 18, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
116 116 1.00
ACGTcount: A:0.16, C:0.25, G:0.12, T:0.47
Consensus pattern (116 bp):
TTTCTAGCTTTGTCCTCTGCTTCCCATGCTTTGCCTTTCTTTGTCCAAGACGAGTCATCATACTC
AATCCATTATGAGTCATTGACTACTCTATTGACCAAACTCTTTTGGTCTTA
Found at i:24268959 original size:62 final size:62
Alignment explanation
Indices: 24268834--24268959 Score: 148
Period size: 62 Copynumber: 2.0 Consensus size: 62
24268824 CTCCTTATCC
* * ***
24268834 TGCTCTGTTTTCTTATGTCCTTTCAGTTTAATAACCCCTTTTGGGGCCTTGTCTCATTGTTT
1 TGCTCTGTTTTCTGATGTCCTTTCAGTTTAATAACCCCTTTTGGGGACTTGTCTCAAACTTT
* * *
24268896 TGCTTTGTTTTCTGATGTCCTCTT-GGTTTAATAACCCCTTTTGGGGGATTTGTCT-AAACTTT
1 TGCTCTGTTTTCTGATGTCCT-TTCAGTTTAATAACCCCTTTT-GGGGACTTGTCTCAAACTTT
24268958 TG
1 TG
24268960 TGGATTTTTT
Statistics
Matches: 54, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
62 42 0.78
63 12 0.22
ACGTcount: A:0.13, C:0.20, G:0.18, T:0.49
Consensus pattern (62 bp):
TGCTCTGTTTTCTGATGTCCTTTCAGTTTAATAACCCCTTTTGGGGACTTGTCTCAAACTTT
Found at i:24269109 original size:96 final size:97
Alignment explanation
Indices: 24268944--24269130 Score: 322
Period size: 96 Copynumber: 1.9 Consensus size: 97
24268934 TTTTGGGGGA
*
24268944 TTTGTCTAAACTTTTGTGGATTTTTTATTTTTTTTCTTTTCACAAGCAAACCTTTATTGAGGAGA
1 TTTGTCTAAACTTTTGTGGATTTTTTATTTTTTTTCTTCTCACAAGCAAACCTTTATTGAGGAGA
*
24269009 GACTGATGTGGTGTTCTGATTCCAATAGGAGG
66 GACTGATGTGGTGTTCTGATCCCAATAGGAGG
* * *
24269041 TTTGTTTAAACTTTTGTGGATTTTTTA-TTTTTTTCTTCTCACAAGCGAACCTTTGTTGAGGAGA
1 TTTGTCTAAACTTTTGTGGATTTTTTATTTTTTTTCTTCTCACAAGCAAACCTTTATTGAGGAGA
24269105 GACTGATGTGGTGTTCTGATCCCAAT
66 GACTGATGTGGTGTTCTGATCCCAAT
24269131 GTTCCATTTT
Statistics
Matches: 85, Mismatches: 5, Indels: 1
0.93 0.05 0.01
Matches are distributed among these distances:
96 59 0.69
97 26 0.31
ACGTcount: A:0.21, C:0.13, G:0.20, T:0.45
Consensus pattern (97 bp):
TTTGTCTAAACTTTTGTGGATTTTTTATTTTTTTTCTTCTCACAAGCAAACCTTTATTGAGGAGA
GACTGATGTGGTGTTCTGATCCCAATAGGAGG
Found at i:24275329 original size:90 final size:89
Alignment explanation
Indices: 24275196--24275374 Score: 349
Period size: 90 Copynumber: 2.0 Consensus size: 89
24275186 AAAGGAGAAG
24275196 AATAGTAAAGAGTAATAGCCCGTAGAGGAGAAGAAGGAAAGGAAGGGAAAGAAGAAAGAAGGAAA
1 AATAGTAAAGAGTAATAGCCCGTAGAGGAGAAGAAGGAAAGGAAGGGAAAGAAGAAAGAAGG-AA
24275261 AAAAAGAGGTATTTATTTTGTTAAT
65 AAAAAGAGGTATTTATTTTGTTAAT
24275286 AATAGTAAAGAGTAATAGCCCGTAGAGGAGAAGAAGGAAAGGAAGGGAAAGAAGAAAGAAGGAAA
1 AATAGTAAAGAGTAATAGCCCGTAGAGGAGAAGAAGGAAAGGAAGGGAAAGAAGAAAGAAGGAAA
24275351 AAAAGAGGTATTTATTTTGTTAAT
66 AAAAGAGGTATTTATTTTGTTAAT
24275375 TTATTTTATT
Statistics
Matches: 89, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
89 27 0.30
90 62 0.70
ACGTcount: A:0.50, C:0.03, G:0.29, T:0.18
Consensus pattern (89 bp):
AATAGTAAAGAGTAATAGCCCGTAGAGGAGAAGAAGGAAAGGAAGGGAAAGAAGAAAGAAGGAAA
AAAAGAGGTATTTATTTTGTTAAT
Found at i:24275705 original size:5 final size:5
Alignment explanation
Indices: 24275695--24275722 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
24275685 TGTTGTTGTT
24275695 TTTAA TTTAA TTTAA TTTAA TTTAA TTT
1 TTTAA TTTAA TTTAA TTTAA TTTAA TTT
24275723 TGTTAGTAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (5 bp):
TTTAA
Found at i:24275746 original size:149 final size:144
Alignment explanation
Indices: 24275423--24275808 Score: 387
Period size: 145 Copynumber: 2.6 Consensus size: 144
24275413 TTGTTAGTAG
* *
24275423 TAGTAATTATTATAAAATATTTTTTTATTTTAATGTTTAATGTGATTTGTTATAATT-TTAT-TT
1 TAGTAATTATTATAAAATATTTTTTTAGTTTAAT-TTTTATGTGATTTGTTATAATTGTT-TGTT
* **
24275486 -GTTAGTAGGTAGATT-AAGGGAAGAAAAAAGCTAAAAGAAATATAAATGTTTTGTTGTTTGTTT
64 ATTTAGTAGGTAGATTAAAGGG-AG-----AG---AAAGAAAGGT-AA-GTTTTGTTGTTTGTTT
24275549 TTTTTAATTTAATTTAAAGTTATTTTT
118 TTTTTAATTTAATTTAAAGTTATTTTT
* * *
24275576 TAGTAATTATTATAAATTATTTGTTTTGTTTTGTTTAA-TTTTGTGTGATTTGTTATTAA-T-TT
1 TAGTAATTATTATAAA--A--TATTTT-TTTAGTTTAATTTTTATGTGATTTGTTA-TAATTGTT
24275638 TGTTATTTAGTAGAGTAGATTAAAGGGAGAGAAAGAAAGGTAAGTTTTGTTG-TTGTTTTTAATT
60 TGTTATTTAGTAG-GTAGATTAAAGGGAGAGAAAGAAAGGTAAGTTTTGTTGTTTGTTTTT--TT
*
24275702 TAATTTAATTT-AATTTAATTTTGT
122 TAATTTAATTTAAAGTT-ATTTT-T
* *
24275726 TAGTAA-TATTATAAAATATTTTTTTAGTTTAATTTTTATGTGATTTGTTATAATTGTTTTTTGT
1 TAGTAATTATTATAAAATATTTTTTTAGTTTAATTTTTATGTGATTTGTTATAATTGTTTGTTAT
24275790 TTAGTAGGTAGATTAAAGG
66 TTAGTAGGTAGATTAAAGG
24275809 AAGAAAAAAG
Statistics
Matches: 202, Mismatches: 14, Indels: 42
0.78 0.05 0.16
Matches are distributed among these distances:
144 12 0.06
145 34 0.17
146 13 0.06
147 9 0.04
148 13 0.06
149 29 0.14
150 15 0.07
153 18 0.09
155 2 0.01
156 20 0.10
157 15 0.07
158 17 0.08
159 5 0.02
ACGTcount: A:0.32, C:0.00, G:0.16, T:0.53
Consensus pattern (144 bp):
TAGTAATTATTATAAAATATTTTTTTAGTTTAATTTTTATGTGATTTGTTATAATTGTTTGTTAT
TTAGTAGGTAGATTAAAGGGAGAGAAAGAAAGGTAAGTTTTGTTGTTTGTTTTTTTTAATTTAAT
TTAAAGTTATTTTT
Found at i:24276401 original size:109 final size:109
Alignment explanation
Indices: 24276273--24276470 Score: 315
Period size: 109 Copynumber: 1.8 Consensus size: 109
24276263 ATTTATCGAT
** * *
24276273 TTTTAAATAGGATGTTCAATTACTTAGGTTCAAAGAAAAACCATACCCAATACGTTAGGGCAAAA
1 TTTTAAATAGGATACTCAATTACTTAAGTTCAAAGAAAAAACATACCCAATACGTTAGGGCAAAA
* *
24276338 TTTCTTGAGTTCTCTAAAATAAAATATCGTTGAATATTTGACGA
66 TTTCTCGAATTCTCTAAAATAAAATATCGTTGAATATTTGACGA
* * *
24276382 TTTTAAATAGGATACTCAATTATTTAAGTTCAAAGAAAAAACATACCCAATACTTTAGGGCACAA
1 TTTTAAATAGGATACTCAATTACTTAAGTTCAAAGAAAAAACATACCCAATACGTTAGGGCAAAA
24276447 TTTCTCGAATTCTCTAAAATAAAA
66 TTTCTCGAATTCTCTAAAATAAAA
24276471 GAACTTTACC
Statistics
Matches: 80, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
109 80 1.00
ACGTcount: A:0.41, C:0.15, G:0.12, T:0.32
Consensus pattern (109 bp):
TTTTAAATAGGATACTCAATTACTTAAGTTCAAAGAAAAAACATACCCAATACGTTAGGGCAAAA
TTTCTCGAATTCTCTAAAATAAAATATCGTTGAATATTTGACGA
Found at i:24277218 original size:68 final size:72
Alignment explanation
Indices: 24277145--24277275 Score: 171
Period size: 70 Copynumber: 1.9 Consensus size: 72
24277135 AACAAGGGAT
* * *
24277145 GAAATCGTAACAAAA-AC-AAAAGCAGAAGGACCAAGGGC-TAAAATTCCCC-TGGTTGAAAACA
1 GAAATCGCAACAAAACACAAAAAGCAGAAGGAACAAGGGCGTAAAATTCCCCTTGGTCGAAAACA
24277206 CGCGGAC
66 CGCGGAC
** * *
24277213 GAAATCGCAACAAAACACAAAAAGTGGAAGGAACAGGGGCGTAAATTTCCCCTTGGTCGAAAA
1 GAAATCGCAACAAAACACAAAAAGCAGAAGGAACAAGGGCGTAAAATTCCCCTTGGTCGAAAA
24277276 TGCATGGATC
Statistics
Matches: 52, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
68 14 0.27
69 2 0.04
70 17 0.33
71 10 0.19
72 9 0.17
ACGTcount: A:0.44, C:0.21, G:0.23, T:0.13
Consensus pattern (72 bp):
GAAATCGCAACAAAACACAAAAAGCAGAAGGAACAAGGGCGTAAAATTCCCCTTGGTCGAAAACA
CGCGGAC
Found at i:24279718 original size:20 final size:20
Alignment explanation
Indices: 24279693--24279938 Score: 207
Period size: 20 Copynumber: 12.4 Consensus size: 20
24279683 CATCTAAATA
24279693 TTCAGGCTTTGTGCCGGTGT
1 TTCAGGCTTTGTGCCGGTGT
* *
24279713 TTCAGGCTTCGTGCCAGTGT
1 TTCAGGCTTTGTGCCGGTGT
**
24279733 ATT-AGGCTTACTGCCGGTGT
1 -TTCAGGCTTTGTGCCGGTGT
* *
24279753 ATCAGGCTTTGTGTCGGTGT
1 TTCAGGCTTTGTGCCGGTGT
* **
24279773 TTCAAGCTTTGTGCCAATGT
1 TTCAGGCTTTGTGCCGGTGT
* * *
24279793 ATCAAGCTTTGTGCCAGTGT
1 TTCAGGCTTTGTGCCGGTGT
*
24279813 TTCAGGCTTCGTGCCGGTGT
1 TTCAGGCTTTGTGCCGGTGT
* * *
24279833 ATCAGGCTTCGTGTCGGTGT
1 TTCAGGCTTTGTGCCGGTGT
* * *
24279853 ATCAGGCTTAGTGCCAGTGT
1 TTCAGGCTTTGTGCCGGTGT
* *
24279873 GTCAGGCTTTGTGCCGATGT
1 TTCAGGCTTTGTGCCGGTGT
24279893 ATTCAGG-TTGTGTG-C--T-T
1 -TTCAGGCTT-TGTGCCGGTGT
**
24279910 AGCAGGCTTTGTGCCGGTGT
1 TTCAGGCTTTGTGCCGGTGT
24279930 ATTCAGGCT
1 -TTCAGGCT
24279939 ATGTCCCTAG
Statistics
Matches: 182, Mismatches: 34, Indels: 19
0.77 0.14 0.08
Matches are distributed among these distances:
16 8 0.04
17 4 0.02
18 1 0.01
19 2 0.01
20 150 0.82
21 17 0.09
ACGTcount: A:0.13, C:0.20, G:0.31, T:0.36
Consensus pattern (20 bp):
TTCAGGCTTTGTGCCGGTGT
Found at i:24279787 original size:60 final size:60
Alignment explanation
Indices: 24279694--24279899 Score: 259
Period size: 60 Copynumber: 3.4 Consensus size: 60
24279684 ATCTAAATAT
* * *
24279694 TCAGGCTTTGTGCCGGTGTTTCAGGCTTCGTGCCAGTGTATTAGGCTTACTGCCGGTGTA
1 TCAGGCTTTGTGCCGGTGTTTCAGGCTTCGTGCCAGTGTATCAGGCTTAGTGCCAGTGTA
* * * * * * *
24279754 TCAGGCTTTGTGTCGGTGTTTCAAGCTTTGTGCCAATGTATCAAGCTTTGTGCCAGTGTT
1 TCAGGCTTTGTGCCGGTGTTTCAGGCTTCGTGCCAGTGTATCAGGCTTAGTGCCAGTGTA
* * * * *
24279814 TCAGGCTTCGTGCCGGTGTATCAGGCTTCGTGTCGGTGTATCAGGCTTAGTGCCAGTGTG
1 TCAGGCTTTGTGCCGGTGTTTCAGGCTTCGTGCCAGTGTATCAGGCTTAGTGCCAGTGTA
*
24279874 TCAGGCTTTGTGCCGATGTATTCAGG
1 TCAGGCTTTGTGCCGGTGT-TTCAGG
24279900 TTGTGTGCTT
Statistics
Matches: 121, Mismatches: 24, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
60 116 0.96
61 5 0.04
ACGTcount: A:0.13, C:0.20, G:0.31, T:0.35
Consensus pattern (60 bp):
TCAGGCTTTGTGCCGGTGTTTCAGGCTTCGTGCCAGTGTATCAGGCTTAGTGCCAGTGTA
Found at i:24279921 original size:37 final size:37
Alignment explanation
Indices: 24279875--24279960 Score: 118
Period size: 37 Copynumber: 2.3 Consensus size: 37
24279865 GCCAGTGTGT
* * * *
24279875 CAGGCTTTGTGCCGATGTATTCAGGTTGTGTGCTTAG
1 CAGGCTTTGTGCCGATGTATTCAGGCTATGTCCCTAG
*
24279912 CAGGCTTTGTGCCGGTGTATTCAGGCTATGTCCCTAG
1 CAGGCTTTGTGCCGATGTATTCAGGCTATGTCCCTAG
*
24279949 CAAGCTTTGTGC
1 CAGGCTTTGTGC
24279961 TGGTGGTCCA
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 43 1.00
ACGTcount: A:0.14, C:0.21, G:0.30, T:0.35
Consensus pattern (37 bp):
CAGGCTTTGTGCCGATGTATTCAGGCTATGTCCCTAG
Found at i:24281954 original size:5 final size:5
Alignment explanation
Indices: 24281944--24281976 Score: 66
Period size: 5 Copynumber: 6.6 Consensus size: 5
24281934 CTTTGTTATT
24281944 TTTAA TTTAA TTTAA TTTAA TTTAA TTTAA TTT
1 TTTAA TTTAA TTTAA TTTAA TTTAA TTTAA TTT
24281977 TGTTAGTAAG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 28 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (5 bp):
TTTAA
Found at i:24283280 original size:43 final size:43
Alignment explanation
Indices: 24283219--24283318 Score: 182
Period size: 43 Copynumber: 2.3 Consensus size: 43
24283209 TATTATTCCT
*
24283219 TGACATGTTATTAAATTATATTACTTGACCCGTGTTAATATCG
1 TGACATGTTATTAAATTATATTACTTGACCCGTGTTAATATCA
*
24283262 TGACATGTTATTAAATTATATTACTTGACCCTTGTTAATATCA
1 TGACATGTTATTAAATTATATTACTTGACCCGTGTTAATATCA
24283305 TGACATGTTATTAA
1 TGACATGTTATTAA
24283319 TTGTGTAGTT
Statistics
Matches: 55, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
43 55 1.00
ACGTcount: A:0.32, C:0.13, G:0.12, T:0.43
Consensus pattern (43 bp):
TGACATGTTATTAAATTATATTACTTGACCCGTGTTAATATCA
Found at i:24289218 original size:87 final size:86
Alignment explanation
Indices: 24289065--24289224 Score: 214
Period size: 87 Copynumber: 1.8 Consensus size: 86
24289055 TGCATAAGGA
* * * *
24289065 TGAGTTTTTACTCTTAATGAATTCATAGCCCAGAATTTGAGTGGTCTTATCGTGACAAACTTGAT
1 TGAGTTTTTACTCTTAATGAATTCATAGCCCAAAATTGGAGTGGTCCTATCGAGACAAACTTGAT
24289130 GAATTCATTGACTTGAGTGGT
66 GAATTCATTGACTTGAGTGGT
* * * * *
24289151 TGAGTTTATTACTCTTAATGAGTTCATATCCTAAAATTCGGA-TGGTCCTATTGAGACGAACTTG
1 TGAGTTT-TTACTCTTAATGAATTCATAGCCCAAAATT-GGAGTGGTCCTATCGAGACAAACTTG
24289215 ATGAATTCAT
64 ATGAATTCAT
24289225 CGAACTTAAA
Statistics
Matches: 63, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
86 7 0.11
87 54 0.86
88 2 0.03
ACGTcount: A:0.28, C:0.14, G:0.19, T:0.38
Consensus pattern (86 bp):
TGAGTTTTTACTCTTAATGAATTCATAGCCCAAAATTGGAGTGGTCCTATCGAGACAAACTTGAT
GAATTCATTGACTTGAGTGGT
Found at i:24292238 original size:9 final size:8
Alignment explanation
Indices: 24292215--24292239 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
24292205 AAAGGAAAAG
24292215 AAATTTTT
1 AAATTTTT
24292223 AAATTTTT
1 AAATTTTT
24292231 AAATTTTT
1 AAATTTTT
24292239 A
1 A
24292240 TTCGATCATC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (8 bp):
AAATTTTT
Found at i:24296941 original size:11 final size:11
Alignment explanation
Indices: 24296925--24296949 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
24296915 AGTCTCAATT
24296925 TGTATCAATCA
1 TGTATCAATCA
24296936 TGTATCAATCA
1 TGTATCAATCA
24296947 TGT
1 TGT
24296950 TAAATTTGTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.32, C:0.16, G:0.12, T:0.40
Consensus pattern (11 bp):
TGTATCAATCA
Found at i:24299274 original size:23 final size:25
Alignment explanation
Indices: 24299246--24299308 Score: 69
Period size: 22 Copynumber: 2.6 Consensus size: 25
24299236 TTTTTTAAAA
*
24299246 AATAAAAATTCAAAA-ATA-ATTTT
1 AATAAAAATTAAAAATATATATTTT
*
24299269 AAT-AAATTTAAAAATATATATTTT
1 AATAAAAATTAAAAATATATATTTT
*
24299293 AATAAATATATAAAAA
1 AATAAAAAT-TAAAAA
24299309 ATACAAAAAC
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
22 9 0.28
23 6 0.19
24 8 0.25
25 3 0.09
26 6 0.19
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.37
Consensus pattern (25 bp):
AATAAAAATTAAAAATATATATTTT
Found at i:24299296 original size:24 final size:24
Alignment explanation
Indices: 24299257--24299311 Score: 78
Period size: 24 Copynumber: 2.3 Consensus size: 24
24299247 ATAAAAATTC
24299257 AAAAATAATTTTAATAAAT-T-TA
1 AAAAATAATTTTAATAAATATATA
24299279 AAAATATATATTTTAATAAATATATA
1 AAAA-ATA-ATTTTAATAAATATATA
24299305 AAAAATA
1 AAAAATA
24299312 CAAAAACTAT
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
22 4 0.14
23 3 0.10
24 12 0.41
25 4 0.14
26 6 0.21
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (24 bp):
AAAAATAATTTTAATAAATATATA
Found at i:24299301 original size:16 final size:15
Alignment explanation
Indices: 24299275--24299304 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
24299265 TTTTAATAAA
24299275 TTTAAAAATATATAT
1 TTTAAAAATATATAT
24299290 TTTAATAAATATATA
1 TTTAA-AAATATATA
24299305 AAAAATACAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (15 bp):
TTTAAAAATATATAT
Found at i:24299393 original size:17 final size:17
Alignment explanation
Indices: 24299373--24299407 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
24299363 AAATGAAATT
24299373 TTAAAAAATTCATAAAA
1 TTAAAAAATTCATAAAA
* *
24299390 TTAAAATATTCTTAAAA
1 TTAAAAAATTCATAAAA
24299407 T
1 T
24299408 ACATCAAACG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.57, C:0.06, G:0.00, T:0.37
Consensus pattern (17 bp):
TTAAAAAATTCATAAAA
Found at i:24306309 original size:14 final size:15
Alignment explanation
Indices: 24306290--24306327 Score: 60
Period size: 14 Copynumber: 2.6 Consensus size: 15
24306280 GATTTAACCC
24306290 AAAAATAATAAATT-
1 AAAAATAATAAATTA
*
24306304 AAAAATAATATATTA
1 AAAAATAATAAATTA
24306319 AAAAATAAT
1 AAAAATAAT
24306328 TAAAGTAATT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
14 13 0.59
15 9 0.41
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (15 bp):
AAAAATAATAAATTA
Found at i:24306962 original size:17 final size:17
Alignment explanation
Indices: 24306940--24306996 Score: 57
Period size: 17 Copynumber: 3.4 Consensus size: 17
24306930 GAATATGAAT
24306940 GGTTAAGGAAGATGGAA
1 GGTTAAGGAAGATGGAA
24306957 GGTTAAAGGTCAAG--GGAA
1 GGTT-AAGG--AAGATGGAA
*
24306975 -GTTAAGGAAAATGGAA
1 GGTTAAGGAAGATGGAA
24306991 GGTTAA
1 GGTTAA
24306997 AAGTCAAGAG
Statistics
Matches: 33, Mismatches: 1, Indels: 12
0.72 0.02 0.26
Matches are distributed among these distances:
14 2 0.06
16 8 0.24
17 12 0.36
18 8 0.24
20 3 0.09
ACGTcount: A:0.42, C:0.02, G:0.37, T:0.19
Consensus pattern (17 bp):
GGTTAAGGAAGATGGAA
Found at i:24310783 original size:11 final size:9
Alignment explanation
Indices: 24310746--24310786 Score: 55
Period size: 9 Copynumber: 4.3 Consensus size: 9
24310736 AATGTCACAT
*
24310746 AAATTTTTA
1 AAATATTTA
24310755 AAATATTTA
1 AAATATTTA
24310764 AAATATTTA
1 AAATATTTA
24310773 TAAATAGTTTA
1 -AAATA-TTTA
24310784 AAA
1 AAA
24310787 CATAATATAA
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
9 17 0.59
10 8 0.28
11 4 0.14
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (9 bp):
AAATATTTA
Found at i:24311952 original size:33 final size:34
Alignment explanation
Indices: 24311903--24311966 Score: 85
Period size: 33 Copynumber: 1.9 Consensus size: 34
24311893 TAATATAAAT
* * * *
24311903 ATAAGTAGTCCTTTAAC-CAACTTTCAAGCAAAC
1 ATAAGTAATCCCTTAACAAAACTTGCAAGCAAAC
24311936 ATAAGTAATCCCTTAACAAAACTTGCAAGCA
1 ATAAGTAATCCCTTAACAAAACTTGCAAGCA
24311967 TAATATAATA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
33 15 0.58
34 11 0.42
ACGTcount: A:0.42, C:0.23, G:0.09, T:0.25
Consensus pattern (34 bp):
ATAAGTAATCCCTTAACAAAACTTGCAAGCAAAC
Found at i:24312452 original size:17 final size:17
Alignment explanation
Indices: 24312432--24312488 Score: 60
Period size: 17 Copynumber: 3.4 Consensus size: 17
24312422 AATATGAATA
24312432 GTTAAAGAAGATGGAAG
1 GTTAAAGAAGATGGAAG
*** * *
24312449 GTTAAAGGTCAAGGGAG
1 GTTAAAGAAGATGGAAG
*
24312466 GTTAAGGAAGATGGAAG
1 GTTAAAGAAGATGGAAG
24312483 GTTAAA
1 GTTAAA
24312489 AAGTCAAGAG
Statistics
Matches: 28, Mismatches: 12, Indels: 0
0.70 0.30 0.00
Matches are distributed among these distances:
17 28 1.00
ACGTcount: A:0.42, C:0.02, G:0.37, T:0.19
Consensus pattern (17 bp):
GTTAAAGAAGATGGAAG
Found at i:24313482 original size:72 final size:72
Alignment explanation
Indices: 24313397--24313554 Score: 226
Period size: 72 Copynumber: 2.2 Consensus size: 72
24313387 TTTCAAAATT
* * * *
24313397 TTTGAATCAATCATTTTCAATTCCAATTTGTATCAATCATATATGTTTTTACTTTTATGGATATA
1 TTTGTATCAATCATGTTCAATTCCAATTTGTATCAATCATATAAGTTTTCACTTTTATGGATATA
24313462 GTCTCAA
66 GTCTCAA
* * * *
24313469 TTTGTATCAATCATGTTCAATTTCAGTTTGTGTTAATCATATAAGTTTTCACTTTTATGGATATA
1 TTTGTATCAATCATGTTCAATTCCAATTTGTATCAATCATATAAGTTTTCACTTTTATGGATATA
* *
24313534 TTTTCAA
66 GTCTCAA
24313541 TTTGTATCAATCAT
1 TTTGTATCAATCAT
24313555 CTTTTTTCTT
Statistics
Matches: 76, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
72 76 1.00
ACGTcount: A:0.29, C:0.13, G:0.09, T:0.49
Consensus pattern (72 bp):
TTTGTATCAATCATGTTCAATTCCAATTTGTATCAATCATATAAGTTTTCACTTTTATGGATATA
GTCTCAA
Found at i:24314642 original size:54 final size:54
Alignment explanation
Indices: 24314575--24314690 Score: 155
Period size: 54 Copynumber: 2.2 Consensus size: 54
24314565 TCAGCCCAAG
** *
24314575 TAAACAATGACAACACAACAAGATTA-TAATAAAAGACATAAGCAAAAGTCTAAA
1 TAAACAACAACAACACAACAAGATTATTAA-AAAAAACATAAGCAAAAGTCTAAA
* *
24314629 TAAACAACAACAACACAGCAAGATTATTAAAAAAAACATAAGCAAAAGTTTAAA
1 TAAACAACAACAACACAACAAGATTATTAAAAAAAACATAAGCAAAAGTCTAAA
*
24314683 -ATACAACA
1 TAAACAACA
24314691 GAAACCTATA
Statistics
Matches: 55, Mismatches: 6, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
53 7 0.13
54 45 0.82
55 3 0.05
ACGTcount: A:0.60, C:0.16, G:0.08, T:0.16
Consensus pattern (54 bp):
TAAACAACAACAACACAACAAGATTATTAAAAAAAACATAAGCAAAAGTCTAAA
Found at i:24335875 original size:17 final size:17
Alignment explanation
Indices: 24335855--24335893 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
24335845 ACTACAATGC
24335855 AAATGCACCGACAAATA
1 AAATGCACCGACAAATA
** *
24335872 AAATGCAGGGACAATTA
1 AAATGCACCGACAAATA
24335889 AAATG
1 AAATG
24335894 TGACGACAAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.51, C:0.15, G:0.18, T:0.15
Consensus pattern (17 bp):
AAATGCACCGACAAATA
Found at i:24336331 original size:8 final size:7
Alignment explanation
Indices: 24336314--24336381 Score: 54
Period size: 7 Copynumber: 9.7 Consensus size: 7
24336304 TGACAAAAAA
24336314 TTCTTCC
1 TTCTTCC
24336321 TTCTCTCC
1 TTCT-TCC
24336329 TTCTTTCC
1 TTC-TTCC
24336337 TTCTTTTCC
1 TTC--TTCC
24336346 TTCTTCC
1 TTCTTCC
24336353 TT-TTCC
1 TTCTTCC
*
24336359 -TCGTCC
1 TTCTTCC
24336365 TTC-T-C
1 TTCTTCC
*
24336370 TTCTTCT
1 TTCTTCC
24336377 TTCTT
1 TTCTT
24336382 TTCCTCAATA
Statistics
Matches: 52, Mismatches: 2, Indels: 14
0.76 0.03 0.21
Matches are distributed among these distances:
5 5 0.10
6 9 0.17
7 17 0.33
8 12 0.23
9 9 0.17
ACGTcount: A:0.00, C:0.38, G:0.01, T:0.60
Consensus pattern (7 bp):
TTCTTCC
Found at i:24336382 original size:27 final size:28
Alignment explanation
Indices: 24336334--24336387 Score: 83
Period size: 27 Copynumber: 2.0 Consensus size: 28
24336324 TCTCCTTCTT
*
24336334 TCCTTCTTTTCCTTCTTCCTTTTCCTCG
1 TCCTTCTCTTCCTTCTTCCTTTTCCTCG
*
24336362 TCCTTCTCTT-CTTCTTTCTTTTCCTC
1 TCCTTCTCTTCCTTCTTCCTTTTCCTC
24336388 AATACCCACA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
27 15 0.62
28 9 0.38
ACGTcount: A:0.00, C:0.39, G:0.02, T:0.59
Consensus pattern (28 bp):
TCCTTCTCTTCCTTCTTCCTTTTCCTCG
Found at i:24356127 original size:26 final size:28
Alignment explanation
Indices: 24356098--24356149 Score: 72
Period size: 26 Copynumber: 1.9 Consensus size: 28
24356088 TGACAACCTT
*
24356098 GGACACCTTCTTGCATT-A-ATCTTTTG
1 GGACACATTCTTGCATTGACATCTTTTG
*
24356124 GGACAGATTCTTGCATTGACATCTTT
1 GGACACATTCTTGCATTGACATCTTT
24356150 AGATGCAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 15 0.68
27 1 0.05
28 6 0.27
ACGTcount: A:0.21, C:0.21, G:0.17, T:0.40
Consensus pattern (28 bp):
GGACACATTCTTGCATTGACATCTTTTG
Found at i:24358361 original size:98 final size:98
Alignment explanation
Indices: 24358181--24359063 Score: 636
Period size: 98 Copynumber: 8.8 Consensus size: 98
24358171 GAATCCATAT
* * *
24358181 CCTGAAAATATGAAGGGAAAGGTTGAAGCCGCAACGACGAACCTTATACCTTAAAGATGTGATAG
1 CCTGGAAATATGAAGGGAAAGGTTGAAGCCGCAACGACGAACCTTATACCTTAAAGATGTAATGG
* *
24358246 GAAAGATTAAAGTCGCAACAGCAAATCTTATAC
66 GAAAGATTGAAGCCGCAACAGCAAATCTTATAC
* * * * * *
24358279 CCTGGAGATATGGAGGGAAATGTTGAAGCCGCAACGGCGAACCTTATACCATATAGATGTAATGG
1 CCTGGAAATATGAAGGGAAAGGTTGAAGCCGCAACGACGAACCTTATACCTTAAAGATGTAATGG
** *
24358344 GAAAGATTGAAGCCGCAATGGCGAATCTTATAC
66 GAAAGATTGAAGCCGCAACAGCAAATCTTATAC
* *
24358377 CTTGGAAATATGAAGGGAAAGGTTGAAGCCGCAACGACGAACCTTATACCTTAGAGATGTAATGG
1 CCTGGAAATATGAAGGGAAAGGTTGAAGCCGCAACGACGAACCTTATACCTTAAAGATGTAATGG
** * *
24358442 GAAAGATTGAAGATGCAAC-GACGAGCAT-TTGACTCAT
66 GAAAGATTGAAGCCGCAACAG-C-A-AATCTT-A-T-AC
* * ** **** ** * ** * *
24358479 TCT-GATCATAACATCCTAATAATTTG--GCCTACATA-GA-GGTCCATAGAAGTATA-TTCTAC
1 CCTGGA-AATATGAAGGGAA-AGGTTGAAGCC-GCA-ACGACGAACC-T-----TATACCT-TAA
* * * *** ** * *
24358538 AGGTTTCATTCCCCACGAA-ATTGCAAGATG-AACCATGGAAATATTGAATCCATAC
55 AGATGT-AAT-GGGA--AAGATTG-AAGCCGCAA-CA-GCAAAT-CT---T--ATAC
* * * *
24358593 CCTGAAAATATGAAGGGAAAGATTGAAGCCGCAATGACGAACCTTATACCTTAAAGATGTGATGG
1 CCTGGAAATATGAAGGGAAAGGTTGAAGCCGCAACGACGAACCTTATACCTTAAAGATGTAATGG
* * *
24358658 GAAAGATTGAAGCCGCAATAGCGAATCTCATAC
66 GAAAGATTGAAGCCGCAACAGCAAATCTTATAC
* * * *
24358691 CCTGGAGATATGAAGGGAAAGATTGAAGCCGCAATGACGAACCTTATACCTTAAAGATGTGATGG
1 CCTGGAAATATGAAGGGAAAGGTTGAAGCCGCAACGACGAACCTTATACCTTAAAGATGTAATGG
* * *
24358756 GAAAGATTGAAGCCGCAATAGCGAATCTCATAC
66 GAAAGATTGAAGCCGCAACAGCAAATCTTATAC
* * ** * * * *
24358789 CCTGGAGATATGAAGGGAAATGTTGAAGCCGCAACGGTGAACCTTATACCATATAGATTTAATAG
1 CCTGGAAATATGAAGGGAAAGGTTGAAGCCGCAACGACGAACCTTATACCTTAAAGATGTAATGG
* * *
24358854 GAAAGATTGAAGCCACAACGGCGAATCTTATAC
66 GAAAGATTGAAGCCGCAACAGCAAATCTTATAC
* * * *
24358887 CTTGGAAATATGAAGGGAAAGGTTGAAGTCGCAAAGACGAACCTTATACCTTAGAGATGTAATGG
1 CCTGGAAATATGAAGGGAAAGGTTGAAGCCGCAACGACGAACCTTATACCTTAAAGATGTAATGG
* * *
24358952 GAAAGATTGAAGCCGCAACGGTACATCTTATAC
66 GAAAGATTGAAGCCGCAACAGCAAATCTTATAC
* * * ** * * * *
24358985 CTTGGAAATATGAAAGGAAAGGTTGAAGTCGCAACGATAAACTTTGTACCTTAGAGATATGAA-G
1 CCTGGAAATATGAAGGGAAAGGTTGAAGCCGCAACGACGAACCTTATACCTTAAAGATGT-AATG
24359049 GGAAAGATTGAAGCC
65 GGAAAGATTGAAGCC
24359064 ACAATAATGA
Statistics
Matches: 624, Mismatches: 121, Indels: 80
0.76 0.15 0.10
Matches are distributed among these distances:
97 1 0.00
98 495 0.79
99 4 0.01
100 3 0.00
101 9 0.01
102 13 0.02
103 6 0.01
104 4 0.01
105 7 0.01
106 7 0.01
107 11 0.02
108 3 0.00
109 11 0.02
110 9 0.01
111 10 0.02
112 1 0.00
113 6 0.01
114 14 0.02
115 9 0.01
116 1 0.00
ACGTcount: A:0.37, C:0.17, G:0.24, T:0.22
Consensus pattern (98 bp):
CCTGGAAATATGAAGGGAAAGGTTGAAGCCGCAACGACGAACCTTATACCTTAAAGATGTAATGG
GAAAGATTGAAGCCGCAACAGCAAATCTTATAC
Found at i:24358460 original size:49 final size:49
Alignment explanation
Indices: 24358195--24358465 Score: 262
Period size: 49 Copynumber: 5.5 Consensus size: 49
24358185 AAAATATGAA
* * *
24358195 GGGAAAGGTTGAAGCCGCAACGACGAACCTTATACCTTAAAGATGTGAT
1 GGGAAAGATTGAAGCCGCAACGACGAACCTTATACCTTAGAGATGTAAT
* * * * * * * * *
24358244 AGGAAAGATTAAAGTCGCAAC-AGCAAATCTTATACCCTGGAGATATGGA-
1 GGGAAAGATTGAAGCCGCAACGA-CGAACCTTATACCTTAGAGATGT-AAT
* * *
24358293 GGGAAATG-TTGAAGCCGCAACGGCGAACCTTATACCATATAGATGTAAT
1 GGGAAA-GATTGAAGCCGCAACGACGAACCTTATACCTTAGAGATGTAAT
* * * * * *
24358342 GGGAAAGATTGAAGCCGCAATGGCGAATCTTATACCTTGGAAATATGAA-
1 GGGAAAGATTGAAGCCGCAACGACGAACCTTATACCTTAGAGATGT-AAT
*
24358391 GGGAAAGGTTGAAGCCGCAACGACGAACCTTATACCTTAGAGATGTAAT
1 GGGAAAGATTGAAGCCGCAACGACGAACCTTATACCTTAGAGATGTAAT
**
24358440 GGGAAAGATTGAAGATGCAACGACGA
1 GGGAAAGATTGAAGCCGCAACGACGA
24358466 GCATTTGACT
Statistics
Matches: 176, Mismatches: 38, Indels: 16
0.77 0.17 0.07
Matches are distributed among these distances:
48 5 0.03
49 166 0.94
50 5 0.03
ACGTcount: A:0.37, C:0.17, G:0.26, T:0.20
Consensus pattern (49 bp):
GGGAAAGATTGAAGCCGCAACGACGAACCTTATACCTTAGAGATGTAAT
Found at i:24358660 original size:49 final size:49
Alignment explanation
Indices: 24358600--24359089 Score: 404
Period size: 49 Copynumber: 10.0 Consensus size: 49
24358590 TACCCTGAAA
24358600 ATATGAAGGGAAAGATTGAAGCCGCAATGACGAACCTTATACCTTAAAG
1 ATATGAAGGGAAAGATTGAAGCCGCAATGACGAACCTTATACCTTAAAG
* * * * * **
24358649 ATGTGATGGGAAAGATTGAAGCCGCAAT-AGCGAATCTCATACCCTGGAG
1 ATATGAAGGGAAAGATTGAAGCCGCAATGA-CGAACCTTATACCTTAAAG
24358698 ATATGAAGGGAAAGATTGAAGCCGCAATGACGAACCTTATACCTTAAAG
1 ATATGAAGGGAAAGATTGAAGCCGCAATGACGAACCTTATACCTTAAAG
* * * * * **
24358747 ATGTGATGGGAAAGATTGAAGCCGCAAT-AGCGAATCTCATACCCTGGAG
1 ATATGAAGGGAAAGATTGAAGCCGCAATGA-CGAACCTTATACCTTAAAG
* ** * *
24358796 ATATGAAGGGAAATG-TTGAAGCCGCAACGGTGAACCTTATACCATATAG
1 ATATGAAGGGAAA-GATTGAAGCCGCAATGACGAACCTTATACCTTAAAG
* * * * * * *
24358845 AT-TTAATAGGAAAGATTGAAGCCACAACGGCGAATCTTATACCTTGGAA-
1 ATATGAA-GGGAAAGATTGAAGCCGCAATGACGAACCTTATACCTT-AAAG
* * * *
24358894 ATATGAAGGGAAAGGTTGAAGTCGCAAAGACGAACCTTATACCTTAGAG
1 ATATGAAGGGAAAGATTGAAGCCGCAATGACGAACCTTATACCTTAAAG
* * * *
24358943 ATGT-AATGGGAAAGATTGAAGCCGCAACG--GTACATCTTATACCTTGGAA-
1 ATATGAA-GGGAAAGATTGAAGCCGCAATGACG-A-ACCTTATACCTT-AAAG
* * * * ** * * *
24358992 ATATGAAAGGAAAGGTTGAAGTCGCAACGATAAACTTTGTACCTTAGAG
1 ATATGAAGGGAAAGATTGAAGCCGCAATGACGAACCTTATACCTTAAAG
* * * * *
24359041 ATATGAAGGGAAAGATTGAAGCCACAATAATGAATCTTATACCCTAAAG
1 ATATGAAGGGAAAGATTGAAGCCGCAATGACGAACCTTATACCTTAAAG
24359090 TTGAAGAGGA
Statistics
Matches: 345, Mismatches: 78, Indels: 36
0.75 0.17 0.08
Matches are distributed among these distances:
47 1 0.00
48 11 0.03
49 323 0.94
50 10 0.03
ACGTcount: A:0.38, C:0.16, G:0.24, T:0.22
Consensus pattern (49 bp):
ATATGAAGGGAAAGATTGAAGCCGCAATGACGAACCTTATACCTTAAAG
Found at i:24358816 original size:412 final size:412
Alignment explanation
Indices: 24358052--24358865 Score: 1288
Period size: 412 Copynumber: 2.0 Consensus size: 412
24358042 ATTTAGTTAG
* * *
24358052 GAGCATTTGACTCATTCTGATCATAGCATCCTAATAATTTGGCTTGCATAGAGGTCCATAGAAGC
1 GAGCATTTGACTCATTCTGATCATAACATCCTAATAATTTGGCCTACATAGAGGTCCATAGAAGC
* * * * *
24358117 ATATTTTACAGTTTTCATTCCCCACGAAATGGCGAGATGAACCGTGGAAACATTGAATCCATATC
66 ATATTCTACAGGTTTCATTCCCCACGAAATGGCAAGATGAACCATGGAAACATTGAATCCATACC
*
24358182 CTGAAAATATGAAGGGAAAGGTTGAAGCCGCAACGACGAACCTTATACCTTAAAGATGTGATAGG
131 CTGAAAATATGAAGGGAAAGATTGAAGCCGCAACGACGAACCTTATACCTTAAAGATGTGATAGG
* * *
24358247 AAAGATTAAAGTCGCAACAGCAAATCTTATACCCTGGAGATATGGAGGGAAATGTTGAAGCCGCA
196 AAAGATTAAAGCCGCAACAGCAAATCTCATACCCTGGAGATATGAAGGGAAATGTTGAAGCCGCA
* * * *
24358312 ACGGCGAACCTTATACCATATAGATGTAATGGGAAAGATTGAAGCCGCAATGGCGAATCTTATAC
261 ACGACGAACCTTATACCATAAAGATGTAATGGGAAAGATTGAAGCCGCAATAGCGAATCTCATAC
* * *
24358377 CTTGGAAATATGAAGGGAAAGGTTGAAGCCGCAACGACGAACCTTATACCTTAGAGATGTAATGG
326 CCTGGAAATATGAAGGGAAAGGTTGAAGCCGCAACGACGAACCTTATACCATAGAGATGTAATAG
24358442 GAAAGATTGAAGATGCAACGAC
391 GAAAGATTGAAGATGCAACGAC
*
24358464 GAGCATTTGACTCATTCTGATCATAACATCCTAATAATTTGGCCTACATAGAGGTCCATAGAAGT
1 GAGCATTTGACTCATTCTGATCATAACATCCTAATAATTTGGCCTACATAGAGGTCCATAGAAGC
* *
24358529 ATATTCTACAGGTTTCATTCCCCACGAAATTGCAAGATGAACCATGGAAATATTGAATCCATACC
66 ATATTCTACAGGTTTCATTCCCCACGAAATGGCAAGATGAACCATGGAAACATTGAATCCATACC
* *
24358594 CTGAAAATATGAAGGGAAAGATTGAAGCCGCAATGACGAACCTTATACCTTAAAGATGTGATGGG
131 CTGAAAATATGAAGGGAAAGATTGAAGCCGCAACGACGAACCTTATACCTTAAAGATGTGATAGG
* * *
24358659 AAAGATTGAAGCCGCAATAGCGAATCTCATACCCTGGAGATATGAAGGGAAA-GATTGAAGCCGC
196 AAAGATTAAAGCCGCAACAGCAAATCTCATACCCTGGAGATATGAAGGGAAATG-TTGAAGCCGC
* * *
24358723 AATGACGAACCTTATACCTTAAAGATGTGATGGGAAAGATTGAAGCCGCAATAGCGAATCTCATA
260 AACGACGAACCTTATACCATAAAGATGTAATGGGAAAGATTGAAGCCGCAATAGCGAATCTCATA
* * ** * *
24358788 CCCTGGAGATATGAAGGGAAATGTTGAAGCCGCAACGGTGAACCTTATACCATATAGATTTAATA
325 CCCTGGAAATATGAAGGGAAAGGTTGAAGCCGCAACGACGAACCTTATACCATAGAGATGTAATA
24358853 GGAAAGATTGAAG
390 GGAAAGATTGAAG
24358866 CCACAACGGC
Statistics
Matches: 365, Mismatches: 36, Indels: 2
0.91 0.09 0.00
Matches are distributed among these distances:
411 1 0.00
412 364 1.00
ACGTcount: A:0.36, C:0.18, G:0.23, T:0.24
Consensus pattern (412 bp):
GAGCATTTGACTCATTCTGATCATAACATCCTAATAATTTGGCCTACATAGAGGTCCATAGAAGC
ATATTCTACAGGTTTCATTCCCCACGAAATGGCAAGATGAACCATGGAAACATTGAATCCATACC
CTGAAAATATGAAGGGAAAGATTGAAGCCGCAACGACGAACCTTATACCTTAAAGATGTGATAGG
AAAGATTAAAGCCGCAACAGCAAATCTCATACCCTGGAGATATGAAGGGAAATGTTGAAGCCGCA
ACGACGAACCTTATACCATAAAGATGTAATGGGAAAGATTGAAGCCGCAATAGCGAATCTCATAC
CCTGGAAATATGAAGGGAAAGGTTGAAGCCGCAACGACGAACCTTATACCATAGAGATGTAATAG
GAAAGATTGAAGATGCAACGAC
Found at i:24358857 original size:147 final size:147
Alignment explanation
Indices: 24358600--24359086 Score: 452
Period size: 147 Copynumber: 3.3 Consensus size: 147
24358590 TACCCTGAAA
* * * * *
24358600 ATATGAAGGGAAAGATTGAAGCCGCAAT-GACGAACCTTATACCTTAAAGATGTGATGGGAAAGA
1 ATATGAAGGGAAAGATTGAAGCCGCAATAG-CGAATCTTATACCCTAGAGATATAATGGGAAAGA
* * * * * * * *
24358664 TTGAAGCCGCAATAGCG-A-ATCTCATACCCTGGAGATATGAAGGGAAAGATTGAAGCCGCAATG
65 TTGAAGCCGCAA-CG-GTACACCTTATACCATAGAAATATGAAAGGAAAGATTGAAGCCGCAACG
24358727 ACGAACCTTATACCTTAAAG
128 ACGAACCTTATACCTTAAAG
* * * *
24358747 ATGTGATGGGAAAGATTGAAGCCGCAATAGCGAATCTCATACCCTGGAGATATGAA-GGGAAATG
1 ATATGAAGGGAAAGATTGAAGCCGCAATAGCGAATCTTATACCCTAGAGATAT-AATGGGAAA-G
* * * *
24358811 -TTGAAGCCGCAACGGTGA-ACCTTATACCATATAGAT-TTAATAGGAAAGATTGAAGCCACAAC
64 ATTGAAGCCGCAACGGT-ACACCTTATACCATAGAAATATGAA-AGGAAAGATTGAAGCCGCAAC
* * *
24358873 GGCGAATCTTATACCTTGGAA-
127 GACGAACCTTATACCTT-AAAG
* * * * *
24358894 ATATGAAGGGAAAGGTTGAAGTCGCAA-AGACGAACCTTATACCTTAGAGATGTAATGGGAAAGA
1 ATATGAAGGGAAAGATTGAAGCCGCAATAG-CGAATCTTATACCCTAGAGATATAATGGGAAAGA
* * * * * *
24358958 TTGAAGCCGCAACGGTACATCTTATACCTTGGAAATATGAAAGGAAAGGTTGAAGTCGCAACGAT
65 TTGAAGCCGCAACGGTACACCTTATACCATAGAAATATGAAAGGAAAGATTGAAGCCGCAACGAC
* * * *
24359023 AAACTTTGTACCTTAGAG
130 GAACCTTATACCTTAAAG
* **
24359041 ATATGAAGGGAAAGATTGAAGCCACAATAATGAATCTTATACCCTA
1 ATATGAAGGGAAAGATTGAAGCCGCAATAGCGAATCTTATACCCTA
24359087 AAGTTGAAGA
Statistics
Matches: 271, Mismatches: 55, Indels: 28
0.77 0.16 0.08
Matches are distributed among these distances:
145 1 0.00
146 11 0.04
147 250 0.92
148 9 0.03
ACGTcount: A:0.38, C:0.16, G:0.24, T:0.22
Consensus pattern (147 bp):
ATATGAAGGGAAAGATTGAAGCCGCAATAGCGAATCTTATACCCTAGAGATATAATGGGAAAGAT
TGAAGCCGCAACGGTACACCTTATACCATAGAAATATGAAAGGAAAGATTGAAGCCGCAACGACG
AACCTTATACCTTAAAG
Found at i:24359106 original size:98 final size:97
Alignment explanation
Indices: 24358589--24359117 Score: 514
Period size: 98 Copynumber: 5.4 Consensus size: 97
24358579 TATTGAATCC
* * *
24358589 ATACCCTGAAAATATGAAGGGAAAGATTGAAGCCGCAATGACGAACCTTATACCTTAAAGATGTG
1 ATACCCT-AAAGTATGAAGGGAAAGGTTGAAGCCGCAACGACGAACCTTATACCTTAAAGATGTG
* *
24358654 ATGGGAAAGATTGAAGCCGCAATAGCGAATCTC
65 AAGGGAAAGATTGAAGCCGCAATAGCGAATCTT
** * *
24358687 ATACCCTGGAGATATGAAGGGAAAGATTGAAGCCGCAATGACGAACCTTATACCTTAAAGATGTG
1 ATACCCTAAAG-TATGAAGGGAAAGGTTGAAGCCGCAACGACGAACCTTATACCTTAAAGATGTG
* *
24358752 ATGGGAAAGATTGAAGCCGCAATAGCGAATCTC
65 AAGGGAAAGATTGAAGCCGCAATAGCGAATCTT
** * ** * * *
24358785 ATACCCTGGAGATATGAAGGGAAATGTTGAAGCCGCAACGGTGAACCTTATACCATATAGAT-TT
1 ATACCCTAAAG-TATGAAGGGAAAGGTTGAAGCCGCAACGACGAACCTTATACCTTAAAGATGTG
* * **
24358849 AATAGGAAAGATTGAAGCCACAACGGCGAATCTT
65 AA-GGGAAAGATTGAAGCCGCAATAGCGAATCTT
* * * *
24358883 ATACCTTGGAAA-TATGAAGGGAAAGGTTGAAGTCGCAAAGACGAACCTTATACCTTAGAGATGT
1 ATACCCT--AAAGTATGAAGGGAAAGGTTGAAGCCGCAACGACGAACCTTATACCTTAAAGATGT
*
24358947 -AATGGGAAAGATTGAAGCCGCAA-CG-GTACATCTT
64 GAA-GGGAAAGATTGAAGCCGCAATAGCG-A-ATCTT
* * * ** * * * *
24358981 ATACCTTGGAAA-TATGAAAGGAAAGGTTGAAGTCGCAACGATAAACTTTGTACCTTAGAGATAT
1 ATACCCT--AAAGTATGAAGGGAAAGGTTGAAGCCGCAACGACGAACCTTATACCTTAAAGATGT
* **
24359045 GAAGGGAAAGATTGAAGCCACAATAATGAATCTT
64 GAAGGGAAAGATTGAAGCCGCAATAGCGAATCTT
* *
24359079 ATACCCTAAAGT-TGAAGAGGAGCAGGTTGAAGCCACAAC
1 ATACCCTAAAGTATGAAG-GGA-AAGGTTGAAGCCGCAAC
24359118 AGTAAATCTT
Statistics
Matches: 373, Mismatches: 45, Indels: 26
0.84 0.10 0.06
Matches are distributed among these distances:
96 8 0.02
97 9 0.02
98 350 0.94
99 4 0.01
100 2 0.01
ACGTcount: A:0.38, C:0.16, G:0.24, T:0.22
Consensus pattern (97 bp):
ATACCCTAAAGTATGAAGGGAAAGGTTGAAGCCGCAACGACGAACCTTATACCTTAAAGATGTGA
AGGGAAAGATTGAAGCCGCAATAGCGAATCTT
Found at i:24359131 original size:196 final size:193
Alignment explanation
Indices: 24358583--24359143 Score: 594
Period size: 196 Copynumber: 2.9 Consensus size: 193
24358573 TGGAAATATT
* * * *
24358583 GAATC-CATACCCTGAAAATATGAAGGGAAAGATTGAAGCCGCAATGACGAACCTTATACCTTAA
1 GAATCTCATACCCTGGAAATATGAAGGGAAAGGTTGAAGCCGCAACGATGAACCTTATACCTTAA
* * * **
24358647 AGATGTGATGGGAAAGATTGAAGCCGCAATAGCGAATCTCATACCCTGGAGATATGAAGGGAAAG
66 AGAT-TGAAGGGAAAGATTGAAGCCACAATAGCGAATCTTATACCCTAAAG-TATGAAGGGAAAG
* * *
24358712 ATTGAAGCCGCAATGACGAACCTTATACCTTAAAGATGTGATGGGAAAGATTGAAGCCGCAATAG
129 GTTGAAGCCGCAAAGAC-AACCTTATACCTTAAAGATGTAATGGGAAAGATTGAAGCCGCAATAG
24358777 C
193 C
* * * * *
24358778 GAATCTCATACCCTGGAGATATGAAGGGAAATGTTGAAGCCGCAACGGTGAACCTTATACCATAT
1 GAATCTCATACCCTGGAAATATGAAGGGAAAGGTTGAAGCCGCAACGATGAACCTTATACCTTAA
* * ** *
24358843 AGATTTAATAGGAAAGATTGAAGCCACAACGGCGAATCTTATACCTTGGAAA-TATGAAGGGAAA
66 AGATTGAA-GGGAAAGATTGAAGCCACAATAGCGAATCTTATACCCT--AAAGTATGAAGGGAAA
* * *
24358907 GGTTGAAGTCGCAAAGACGAACCTTATACCTTAGAGATGTAATGGGAAAGATTGAAGCCGCAA-C
128 GGTTGAAGCCGCAAAGAC-AACCTTATACCTTAAAGATGTAATGGGAAAGATTGAAGCCGCAATA
24358971 G-
192 GC
* * * * * * *
24358972 GTACATCTTATACCTTGGAAATATGAAAGGAAAGGTTGAAGTCGCAACGATAAACTTTGTACCTT
1 G-A-ATCTCATACCCTGGAAATATGAAGGGAAAGGTTGAAGCCGCAACGATGAACCTTATACCTT
* **
24359037 AGAGATATGAAGGGAAAGATTGAAGCCACAATAATGAATCTTATACCCTAAAGT-TGAAGAGGAG
64 AAAGAT-TGAAGGGAAAGATTGAAGCCACAATAGCGAATCTTATACCCTAAAGTATGAAG-GGA-
* * * * *
24359101 CAGGTTGAAGCCACAACAGTA-AATCTTATACCTCAAAGTTGTA
126 AAGGTTGAAGCCGCAA-AG-ACAACCTTATACCTTAAAGATGTA
24359144 GTAAAGCGAA
Statistics
Matches: 303, Mismatches: 51, Indels: 23
0.80 0.14 0.06
Matches are distributed among these distances:
194 9 0.03
195 13 0.04
196 274 0.90
197 5 0.02
198 2 0.01
ACGTcount: A:0.38, C:0.16, G:0.24, T:0.22
Consensus pattern (193 bp):
GAATCTCATACCCTGGAAATATGAAGGGAAAGGTTGAAGCCGCAACGATGAACCTTATACCTTAA
AGATTGAAGGGAAAGATTGAAGCCACAATAGCGAATCTTATACCCTAAAGTATGAAGGGAAAGGT
TGAAGCCGCAAAGACAACCTTATACCTTAAAGATGTAATGGGAAAGATTGAAGCCGCAATAGC
Found at i:24359617 original size:12 final size:12
Alignment explanation
Indices: 24359602--24359632 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
24359592 CAAACCAAAC
24359602 CCTAAAGCCCAA
1 CCTAAAGCCCAA
*
24359614 CCTAAAGCCTAA
1 CCTAAAGCCCAA
24359626 CCTAAAG
1 CCTAAAG
24359633 AAGCCCAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.42, C:0.35, G:0.10, T:0.13
Consensus pattern (12 bp):
CCTAAAGCCCAA
Found at i:24359995 original size:21 final size:20
Alignment explanation
Indices: 24359969--24360009 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 20
24359959 ATATTATATA
24359969 TATTTATTTTATATCTTATTT
1 TATTTATTTT-TATCTTATTT
*
24359990 TATTTATTTTTTTCTTATTT
1 TATTTATTTTTATCTTATTT
24360010 CGAATAAATA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 9 0.47
21 10 0.53
ACGTcount: A:0.20, C:0.05, G:0.00, T:0.76
Consensus pattern (20 bp):
TATTTATTTTTATCTTATTT
Found at i:24361163 original size:21 final size:20
Alignment explanation
Indices: 24361126--24361164 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
24361116 TATTTATGCC
*
24361126 ATGTCATATTTTATTATTAT
1 ATGTCATATTGTATTATTAT
*
24361146 ATGTGCATATTGTGTTATT
1 ATGT-CATATTGTATTATT
24361165 TCATTCATCC
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 4 0.25
21 12 0.75
ACGTcount: A:0.26, C:0.05, G:0.13, T:0.56
Consensus pattern (20 bp):
ATGTCATATTGTATTATTAT
Found at i:24362501 original size:7 final size:7
Alignment explanation
Indices: 24362489--24362520 Score: 64
Period size: 7 Copynumber: 4.6 Consensus size: 7
24362479 GGTGGTGGTA
24362489 TAGGGTT
1 TAGGGTT
24362496 TAGGGTT
1 TAGGGTT
24362503 TAGGGTT
1 TAGGGTT
24362510 TAGGGTT
1 TAGGGTT
24362517 TAGG
1 TAGG
24362521 CAATCACAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 25 1.00
ACGTcount: A:0.16, C:0.00, G:0.44, T:0.41
Consensus pattern (7 bp):
TAGGGTT
Found at i:24362731 original size:32 final size:32
Alignment explanation
Indices: 24362690--24362763 Score: 139
Period size: 32 Copynumber: 2.3 Consensus size: 32
24362680 CGAAGTGCAC
*
24362690 ACTAACACTCTTGTCAGACAATTCTGACAAGT
1 ACTAACACTCTTGTCAGACAATTCTAACAAGT
24362722 ACTAACACTCTTGTCAGACAATTCTAACAAGT
1 ACTAACACTCTTGTCAGACAATTCTAACAAGT
24362754 ACTAACACTC
1 ACTAACACTC
24362764 AATTTTAATT
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
32 41 1.00
ACGTcount: A:0.36, C:0.27, G:0.09, T:0.27
Consensus pattern (32 bp):
ACTAACACTCTTGTCAGACAATTCTAACAAGT
Found at i:24371934 original size:20 final size:21
Alignment explanation
Indices: 24371898--24371947 Score: 52
Period size: 20 Copynumber: 2.4 Consensus size: 21
24371888 TCATTAAGCT
*
24371898 TTAATT-AATCATTTTTA-ATC
1 TTAATTAAATCATATTTACA-C
24371918 TTAATTAAATC-TATTTACAC
1 TTAATTAAATCATATTTACAC
24371938 TTAATATAAA
1 TTAAT-TAAA
24371948 CCATGCCAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
20 17 0.65
21 9 0.35
ACGTcount: A:0.42, C:0.10, G:0.00, T:0.48
Consensus pattern (21 bp):
TTAATTAAATCATATTTACAC
Found at i:24374758 original size:24 final size:26
Alignment explanation
Indices: 24374718--24374768 Score: 70
Period size: 25 Copynumber: 2.0 Consensus size: 26
24374708 GGTAGTTGTA
*
24374718 TAGAAGATATCGGTAGT-TCTGTACT
1 TAGAAGATATCGATAGTCTCTGTACT
*
24374743 TAGAAG-TATCGATAGTCTTTGTACT
1 TAGAAGATATCGATAGTCTCTGTACT
24374768 T
1 T
24374769 GTATCAGTAG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
24 9 0.39
25 14 0.61
ACGTcount: A:0.27, C:0.12, G:0.22, T:0.39
Consensus pattern (26 bp):
TAGAAGATATCGATAGTCTCTGTACT
Found at i:24374844 original size:21 final size:21
Alignment explanation
Indices: 24374818--24374871 Score: 63
Period size: 21 Copynumber: 2.6 Consensus size: 21
24374808 TGGATTTTTA
*
24374818 GTATCGGTAGAAGCCTGACTT
1 GTATCGGTAGAAGCCTCACTT
** *
24374839 GTATCGGTAGTTGCTTCACTT
1 GTATCGGTAGAAGCCTCACTT
*
24374860 GTATCTGTAGAA
1 GTATCGGTAGAA
24374872 CCATCAAGGA
Statistics
Matches: 26, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.22, C:0.17, G:0.26, T:0.35
Consensus pattern (21 bp):
GTATCGGTAGAAGCCTCACTT
Found at i:24377262 original size:18 final size:18
Alignment explanation
Indices: 24377224--24377264 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
24377214 CAGAAGAAAT
* **
24377224 AGCATACTGGCTCGTTTG
1 AGCATACTGGCTCATAAG
24377242 AGCATACTGGCTCATAAG
1 AGCATACTGGCTCATAAG
24377260 AGCAT
1 AGCAT
24377265 TACTAGATTG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.27, C:0.22, G:0.24, T:0.27
Consensus pattern (18 bp):
AGCATACTGGCTCATAAG
Found at i:24382251 original size:28 final size:28
Alignment explanation
Indices: 24382198--24382274 Score: 77
Period size: 28 Copynumber: 2.8 Consensus size: 28
24382188 ACCAAATCAC
* *
24382198 AATAATGCAA-AAAG-TCTGTCAAATAACG
1 AATAATGCAATAAAGATC-GTC-GATAACA
** *
24382226 AATAATGTGATAGAGATCGTCGATAACA
1 AATAATGCAATAAAGATCGTCGATAACA
24382254 AATAATGCAATAAAGATCGTC
1 AATAATGCAATAAAGATCGTC
24382275 AATCCCCTCG
Statistics
Matches: 39, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
28 31 0.79
29 6 0.15
30 2 0.05
ACGTcount: A:0.47, C:0.13, G:0.17, T:0.23
Consensus pattern (28 bp):
AATAATGCAATAAAGATCGTCGATAACA
Found at i:24384045 original size:18 final size:16
Alignment explanation
Indices: 24384024--24384059 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 16
24384014 AGTTATGTTA
24384024 AAATTTAAGCTTAAAAAT
1 AAATTTAA--TTAAAAAT
24384042 AAATTTAATTAAAAAT
1 AAATTTAATTAAAAAT
24384058 AA
1 AA
24384060 GGGATTTTAC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 10 0.56
18 8 0.44
ACGTcount: A:0.61, C:0.03, G:0.03, T:0.33
Consensus pattern (16 bp):
AAATTTAATTAAAAAT
Found at i:24384601 original size:36 final size:38
Alignment explanation
Indices: 24384540--24384617 Score: 97
Period size: 37 Copynumber: 2.1 Consensus size: 38
24384530 AATTGGCAGA
* *
24384540 TGGGTTTTAAGGGGAAAATAAGGTAAGGT-AAAAGGTT
1 TGGGTTTTAAGGGGAAAATAAGGTAAAGTAAAAAGATT
* * *
24384577 TGGGTTTT-AGGGGGAACTAGGGTAAAGTAAAAAGATT
1 TGGGTTTTAAGGGGAAAATAAGGTAAAGTAAAAAGATT
24384614 TGGG
1 TGGG
24384618 CTTGCGAAAT
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
36 16 0.46
37 19 0.54
ACGTcount: A:0.35, C:0.01, G:0.37, T:0.27
Consensus pattern (38 bp):
TGGGTTTTAAGGGGAAAATAAGGTAAAGTAAAAAGATT
Found at i:24388264 original size:17 final size:17
Alignment explanation
Indices: 24388224--24388264 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
24388214 GGGCCCAATA
*
24388224 AAATTTAAATTTATTTT
1 AAATTTAAATTTATTTG
**
24388241 AGGTTTAAATTTATTTG
1 AAATTTAAATTTATTTG
24388258 AAATTTA
1 AAATTTA
24388265 TAATATATAA
Statistics
Matches: 19, Mismatches: 5, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.39, C:0.00, G:0.07, T:0.54
Consensus pattern (17 bp):
AAATTTAAATTTATTTG
Found at i:24388943 original size:22 final size:22
Alignment explanation
Indices: 24388918--24388998 Score: 65
Period size: 22 Copynumber: 3.4 Consensus size: 22
24388908 TTTAAAAACG
*
24388918 ATTAATTAATAA-ATATAATAAT
1 ATTAAATAATAATA-ATAATAAT
24388940 ATTAAATAATAATAATAATAAAT
1 ATTAAATAATAATAATAAT-AAT
*
24388963 AGGTTTAATAATAATGATATTAATAAAT
1 A--TTAAATAATAAT-A-A-TAAT-AAT
24388991 ATTAAATA
1 ATTAAATA
24388999 TTAAAAAGTT
Statistics
Matches: 49, Mismatches: 3, Indels: 10
0.79 0.05 0.16
Matches are distributed among these distances:
22 16 0.33
23 5 0.10
25 11 0.22
26 7 0.14
27 1 0.02
28 9 0.18
ACGTcount: A:0.58, C:0.00, G:0.04, T:0.38
Consensus pattern (22 bp):
ATTAAATAATAATAATAATAAT
Found at i:24388951 original size:16 final size:16
Alignment explanation
Indices: 24388924--24388963 Score: 64
Period size: 16 Copynumber: 2.6 Consensus size: 16
24388914 AACGATTAAT
24388924 TAATAAAT-ATAATAA
1 TAATAAATAATAATAA
*
24388939 TATTAAATAATAATAA
1 TAATAAATAATAATAA
24388955 TAATAAATA
1 TAATAAATA
24388964 GGTTTAATAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 7 0.32
16 15 0.68
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (16 bp):
TAATAAATAATAATAA
Found at i:24388991 original size:16 final size:16
Alignment explanation
Indices: 24388922--24389002 Score: 55
Period size: 16 Copynumber: 5.3 Consensus size: 16
24388912 AAAACGATTA
24388922 ATTAATAAAT-ATAAT
1 ATTAATAAATAATAAT
* *
24388937 AATATTAAATAATAAT
1 ATTAATAAATAATAAT
* **
24388953 AATAATAAAT-A-GGT
1 ATTAATAAATAATAAT
*
24388967 -TTAAT-AATAATGAT
1 ATTAATAAATAATAAT
*
24388981 ATTAATAAATATTAAAT
1 ATTAATAAATAAT-AAT
24388998 ATTAA
1 ATTAA
24389003 AAAGTTGAAA
Statistics
Matches: 51, Mismatches: 9, Indels: 10
0.73 0.13 0.14
Matches are distributed among these distances:
12 3 0.06
13 5 0.10
14 3 0.06
15 14 0.27
16 19 0.37
17 7 0.14
ACGTcount: A:0.58, C:0.00, G:0.04, T:0.38
Consensus pattern (16 bp):
ATTAATAAATAATAAT
Found at i:24390102 original size:30 final size:29
Alignment explanation
Indices: 24390060--24390349 Score: 227
Period size: 30 Copynumber: 9.8 Consensus size: 29
24390050 AAAGGTCCCT
*
24390060 AAACTGTT-CAAAAATTACATTTTTGCCTTC
1 AAACT-TTCCAAAAATTACATTTTTACC-TC
24390090 AAACTTTCCAAAAATTACATTTTTAACCTC
1 AAACTTTCCAAAAATTACATTTTT-ACCTC
* *
24390120 GAACTTTCCAAAAATAACATTTTTATCC-C
1 AAACTTTCCAAAAATTACATTTTTA-CCTC
* * *
24390149 TTAACTTT-TAAAAATTACATTTTTAACTC
1 -AAACTTTCCAAAAATTACATTTTTACCTC
* * * *
24390178 TAAATTTTCTAAAAAAATACATTTTTACCCC
1 -AAACTTTC-CAAAAATTACATTTTTACCTC
*
24390209 TAAAC-TTCCAAAACTTACATTTTTAACCTC
1 -AAACTTTCCAAAAATTACATTTTT-ACCTC
* * *
24390239 AAATTTTCCAAAAATCACATTTTTACCCCC
1 AAACTTTCCAAAAATTACATTTTTA-CCTC
*
24390269 GAAC-TTCCAAAAATTACATTTTTGATCC-C
1 AAACTTTCCAAAAATTACATTTTT-A-CCTC
* **
24390298 AAATTTTCCAAAAATCCCATTTTTACCCTC
1 AAACTTTCCAAAAATTACATTTTTA-CCTC
* *
24390328 GAA-TAT-CAAAAATTACATTTTT
1 AAACTTTCCAAAAATTACATTTTT
24390350 GCCCTGAATG
Statistics
Matches: 212, Mismatches: 35, Indels: 28
0.77 0.13 0.10
Matches are distributed among these distances:
28 15 0.07
29 69 0.33
30 105 0.50
31 23 0.11
ACGTcount: A:0.38, C:0.22, G:0.02, T:0.38
Consensus pattern (29 bp):
AAACTTTCCAAAAATTACATTTTTACCTC
Found at i:24390192 original size:59 final size:59
Alignment explanation
Indices: 24390095--24390349 Score: 295
Period size: 59 Copynumber: 4.3 Consensus size: 59
24390085 CCTTCAAACT
* * * *
24390095 TTCCAAAAATTACATTTTTAACCTCGAACTTTCCAAAAATAACATTTTTATCCCTTAAC
1 TTCCAAAAATTACATTTTTAACCTCAAATTTTCCAAAAATAACATTTTTACCCCTGAAC
** * * *
24390154 TTTTAAAAATTACATTTTTAA-CTCTAAATTTTCTAAAAAAATACATTTTTACCCCTAAAC
1 TTCCAAAAATTACATTTTTAACCTC-AAATTTTCCAAAAATA-ACATTTTTACCCCTGAAC
* * *
24390214 TTCCAAAACTTACATTTTTAACCTCAAATTTTCCAAAAATCACATTTTTACCCCCGAAC
1 TTCCAAAAATTACATTTTTAACCTCAAATTTTCCAAAAATAACATTTTTACCCCTGAAC
* **
24390273 TTCCAAAAATTACATTTTTGATCC-CAAATTTTCCAAAAATCCCATTTTTA-CCCTCGAA-
1 TTCCAAAAATTACATTTTT-AACCTCAAATTTTCCAAAAATAACATTTTTACCCCT-GAAC
24390331 TAT-CAAAAATTACATTTTT
1 T-TCCAAAAATTACATTTTT
24390350 GCCCTGAATG
Statistics
Matches: 170, Mismatches: 20, Indels: 13
0.84 0.10 0.06
Matches are distributed among these distances:
58 23 0.14
59 94 0.55
60 50 0.29
61 3 0.02
ACGTcount: A:0.38, C:0.23, G:0.02, T:0.38
Consensus pattern (59 bp):
TTCCAAAAATTACATTTTTAACCTCAAATTTTCCAAAAATAACATTTTTACCCCTGAAC
Found at i:24390218 original size:89 final size:90
Alignment explanation
Indices: 24390055--24390349 Score: 216
Period size: 89 Copynumber: 3.3 Consensus size: 90
24390045 GCTTAAAAGG
** * *
24390055 TCCCTAAACTGTTCAAAAATTACATTTTTGCCTTCAAACTTTCCAAAAATTACATTTTTAACCTC
1 TCCCTAAACTGTTCAAAAATTACATTTTTAACTTCAAACTTTCAAAAAAATACATTTTTAACCTC
*
24390120 GAACTTTCCAAAAATAACATTTTTA
66 AAACTTTCCAAAAATAACATTTTTA
* * *
24390145 TCCCTTAACT-TTTAAAAATTACATTTTTAAC-TCTAAATTTTCTAAAAAAATACATTTTT-ACC
1 TCCCTAAACTGTTCAAAAATTACATTTTTAACTTC-AAACTTTC-AAAAAAATACATTTTTAACC
* * *
24390207 CCTAAAC-TTCCAAAACTTACATTTTTA
64 TC-AAACTTTCCAAAAATAACATTTTTA
* * * * ** * * * *
24390234 -ACCTCAAA-TTTTCCAAAAATCACATTTTTACCCCCGAAC-TTCCAAAAATTACATTTTTGATC
1 TCCCT-AAACTGTT-CAAAAATTACATTTTTAACTTCAAACTTTCAAAAAAATACATTTTT-AAC
* **
24390296 C-CAAATTTTCCAAAAATCCCATTTTTA
63 CTCAAACTTTCCAAAAATAACATTTTTA
* *
24390323 -CCCTCGAA-T-ATCAAAAATTACATTTTT
1 TCCCT-AAACTGTTCAAAAATTACATTTTT
24390350 GCCCTGAATG
Statistics
Matches: 165, Mismatches: 30, Indels: 23
0.76 0.14 0.11
Matches are distributed among these distances:
87 15 0.09
88 24 0.15
89 79 0.48
90 46 0.28
91 1 0.01
ACGTcount: A:0.37, C:0.23, G:0.02, T:0.38
Consensus pattern (90 bp):
TCCCTAAACTGTTCAAAAATTACATTTTTAACTTCAAACTTTCAAAAAAATACATTTTTAACCTC
AAACTTTCCAAAAATAACATTTTTA
Found at i:24390302 original size:119 final size:120
Alignment explanation
Indices: 24390090--24390311 Score: 313
Period size: 119 Copynumber: 1.9 Consensus size: 120
24390080 TTTTGCCTTC
* * **
24390090 AAACTTTCCAAAAATTACATTTTTAACCTCGAACTTTCCAAAAATAACATTTTTATCCCTTAACT
1 AAACTTTCCAAAAATTACATTTTTAACCTCAAACTTTCCAAAAATAACATTTTTACCCCCGAACT
** * *
24390155 TTTAAAAATTACATTTTTAACTCTAAATTTTCTAAAAAAATACATTTTTACCCCT
66 TCCAAAAATTACATTTTTAACTCCAAATTTTCCAAAAAAATACATTTTTACCCCT
* * *
24390210 AAAC-TTCCAAAACTTACATTTTTAACCTCAAATTTTCCAAAAATCACATTTTTACCCCCGAACT
1 AAACTTTCCAAAAATTACATTTTTAACCTCAAACTTTCCAAAAATAACATTTTTACCCCCGAACT
*
24390274 TCCAAAAATTACATTTTTGA-TCCCAAATTTTCCAAAAA
66 TCCAAAAATTACATTTTTAACT-CCAAATTTTCCAAAAA
24390312 TCCCATTTTT
Statistics
Matches: 89, Mismatches: 12, Indels: 3
0.86 0.12 0.03
Matches are distributed among these distances:
118 1 0.01
119 84 0.94
120 4 0.04
ACGTcount: A:0.39, C:0.23, G:0.01, T:0.37
Consensus pattern (120 bp):
AAACTTTCCAAAAATTACATTTTTAACCTCAAACTTTCCAAAAATAACATTTTTACCCCCGAACT
TCCAAAAATTACATTTTTAACTCCAAATTTTCCAAAAAAATACATTTTTACCCCT
Found at i:24390348 original size:27 final size:29
Alignment explanation
Indices: 24390314--24390381 Score: 88
Period size: 28 Copynumber: 2.4 Consensus size: 29
24390304 TCCAAAAATC
24390314 CCATTTTTACCCTCGAATATC-AAAAATTA
1 CCATTTTTACCCT-GAATATCTAAAAATTA
* *
24390343 -CATTTTTGCCCTGAATGTCTAAAAATTA
1 CCATTTTTACCCTGAATATCTAAAAATTA
24390371 CCA-TTTTACCC
1 CCATTTTTACCC
24390382 CCGATCATCC
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
27 6 0.18
28 26 0.76
29 2 0.06
ACGTcount: A:0.32, C:0.25, G:0.06, T:0.37
Consensus pattern (29 bp):
CCATTTTTACCCTGAATATCTAAAAATTA
Found at i:24390396 original size:29 final size:29
Alignment explanation
Indices: 24390363--24390427 Score: 78
Period size: 29 Copynumber: 2.2 Consensus size: 29
24390353 CTGAATGTCT
*
24390363 AAAAATTACCATTTTACCCCCGATCATCCC
1 AAAAATTACCATTTTACCCCCGAGCAT-CC
* * *
24390393 AAAAA-TACCGTTTTACTCCCGGGCATCC
1 AAAAATTACCATTTTACCCCCGAGCATCC
24390421 AAAAATT
1 AAAAATT
24390428 GCATTTTTGA
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
28 7 0.23
29 18 0.60
30 5 0.17
ACGTcount: A:0.35, C:0.31, G:0.08, T:0.26
Consensus pattern (29 bp):
AAAAATTACCATTTTACCCCCGAGCATCC
Found at i:24390396 original size:58 final size:58
Alignment explanation
Indices: 24390096--24390398 Score: 190
Period size: 59 Copynumber: 5.2 Consensus size: 58
24390086 CTTCAAACTT
* * * * ** * *
24390096 TCCAAAAATTACATTTTTAACCTCGAACTT-TCCAAAAATAACATTTTTATCCCTTAACT
1 TCCAAAAATTACATTTTTGACC-C-AAATTGTCCAAAAATACCATTTTTACCCCCGATCA
** * * * * ** * *
24390155 TTTAAAAATTACATTTTTAACTCTAAATTTTCTAAAAAAATA-CATTTTTACCCCTAAACT
1 TCCAAAAATTACATTTTTGAC-CCAAATTGTC--CAAAAATACCATTTTTACCCCCGATCA
* * * * *
24390215 TCCAAAACTTACATTTTTAACCTCAAATTTTCCAAAAAT-CACATTTTTACCCCCGAACT
1 TCCAAAAATTACATTTTTGACC-CAAATTGTCCAAAAATAC-CATTTTTACCCCCGATCA
* * *
24390274 TCCAAAAATTACATTTTTGATCCCAAATTTTCCAAAAATCCCATTTTTACCCTCGAAT-A
1 TCCAAAAATTACATTTTTGA-CCCAAATTGTCCAAAAATACCATTTTTACCCCCG-ATCA
* *
24390333 T-CAAAAATTACATTTTTG-CCCTGAA-TGTCTAAAAATTACCA-TTTTACCCCCGATCA
1 TCCAAAAATTACATTTTTGACCC-AAATTGTCCAAAAA-TACCATTTTTACCCCCGATCA
24390389 TCCCAAAAAT
1 T-CCAAAAAT
24390399 ACCGTTTTAC
Statistics
Matches: 205, Mismatches: 24, Indels: 31
0.79 0.09 0.12
Matches are distributed among these distances:
55 2 0.01
56 23 0.11
57 6 0.03
58 34 0.17
59 86 0.42
60 47 0.23
61 7 0.03
ACGTcount: A:0.37, C:0.24, G:0.03, T:0.36
Consensus pattern (58 bp):
TCCAAAAATTACATTTTTGACCCAAATTGTCCAAAAATACCATTTTTACCCCCGATCA
Found at i:24397979 original size:32 final size:32
Alignment explanation
Indices: 24397916--24397979 Score: 78
Period size: 32 Copynumber: 2.0 Consensus size: 32
24397906 TTTGTTTTTT
* *
24397916 AATTAAATGCTTTTATTTTTTTATTTTTTTAA
1 AATTAAATCCTTTTATTTTTTTATTTATTTAA
24397948 AATT-AATCCTTTTATTCTGTTTTA-TTATTTAA
1 AATTAAATCCTTTTATT-T-TTTTATTTATTTAA
24397980 TCCTTTTAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
31 11 0.39
32 12 0.43
33 5 0.18
ACGTcount: A:0.28, C:0.06, G:0.03, T:0.62
Consensus pattern (32 bp):
AATTAAATCCTTTTATTTTTTTATTTATTTAA
Found at i:24400712 original size:19 final size:18
Alignment explanation
Indices: 24400677--24400734 Score: 59
Period size: 19 Copynumber: 3.3 Consensus size: 18
24400667 ACATGTGACA
24400677 AAAAATAATAAAA---AT
1 AAAAATAATAAAATTTAT
24400692 AAAAATCAATAAAATTTAT
1 AAAAAT-AATAAAATTTAT
* *
24400711 AAAAATTATTAAATTTAT
1 AAAAATAATAAAATTTAT
24400729 ATAAAA
1 A-AAAA
24400735 AATTGTAAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
15 6 0.17
16 7 0.19
18 11 0.31
19 12 0.33
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (18 bp):
AAAAATAATAAAATTTAT
Found at i:24400750 original size:19 final size:18
Alignment explanation
Indices: 24400728--24400813 Score: 56
Period size: 19 Copynumber: 4.8 Consensus size: 18
24400718 ATTAAATTTA
24400728 TATAAAAAATTGTAAAAAT
1 TATAAAAAATT-TAAAAAT
* * *
24400747 TATAAAATATCTAGAAA-
1 TATAAAAAATTTAAAAAT
*
24400764 TATAAAAAA--TACAAAT
1 TATAAAAAATTTAAAAAT
*
24400780 TAT--AAAATCGTAGGAAAAT
1 TATAAAAAAT-TTA--AAAAT
24400799 TATAAAAAATTTAAA
1 TATAAAAAATTTAAA
24400814 GGAATTTATA
Statistics
Matches: 52, Mismatches: 7, Indels: 17
0.68 0.09 0.22
Matches are distributed among these distances:
14 4 0.08
15 5 0.10
16 3 0.06
17 10 0.19
18 7 0.13
19 16 0.31
20 2 0.04
21 5 0.10
ACGTcount: A:0.62, C:0.03, G:0.06, T:0.29
Consensus pattern (18 bp):
TATAAAAAATTTAAAAAT
Found at i:24401005 original size:9 final size:9
Alignment explanation
Indices: 24400991--24401113 Score: 76
Period size: 9 Copynumber: 13.4 Consensus size: 9
24400981 TTTTGTATTC
*
24400991 TTTTATGAT
1 TTTTATAAT
*
24401000 TTTTATAAAA
1 TTTTAT-AAT
*
24401010 TTTTACAATTT
1 TTTTATAA--T
*
24401021 TTTTATATT
1 TTTTATAAT
*
24401030 TTTTATGAT
1 TTTTATAAT
24401039 TTTTAT-AT
1 TTTTATAAT
24401047 TTTTATAATT
1 TTTTATAA-T
24401057 TTTTATTAAT
1 TTTTA-TAAT
*
24401067 ATTTA-ATAT
1 TTTTATA-AT
*
24401076 TTTTATAAC
1 TTTTATAAT
24401085 TTTTAT--T
1 TTTTATAAT
*
24401092 TATTT-TATT
1 T-TTTATAAT
24401101 TTTTATAAT
1 TTTTATAAT
24401110 TTTT
1 TTTT
24401114 TGCAACATGT
Statistics
Matches: 89, Mismatches: 13, Indels: 24
0.71 0.10 0.19
Matches are distributed among these distances:
7 2 0.02
8 15 0.17
9 45 0.51
10 18 0.20
11 9 0.10
ACGTcount: A:0.28, C:0.02, G:0.02, T:0.68
Consensus pattern (9 bp):
TTTTATAAT
Found at i:24401041 original size:18 final size:18
Alignment explanation
Indices: 24401020--24401113 Score: 74
Period size: 17 Copynumber: 5.3 Consensus size: 18
24401010 TTTTACAATT
*
24401020 TTTTTATATTTTTTATGA
1 TTTTTATATTTTTTATAA
24401038 TTTTTATA-TTTTTATAA
1 TTTTTATATTTTTTATAA
24401055 TTTTT-TATTAATATTTA-ATA
1 TTTTTATATT--T-TTTATA-A
**
24401075 TTTTTATAACTTTTAT--
1 TTTTTATATTTTTTATAA
24401091 TTATTT-TATTTTTTATAA
1 TT-TTTATATTTTTTATAA
24401109 TTTTT
1 TTTTT
24401114 TGCAACATGT
Statistics
Matches: 61, Mismatches: 5, Indels: 21
0.70 0.06 0.24
Matches are distributed among these distances:
16 12 0.20
17 20 0.33
18 14 0.23
19 3 0.05
20 10 0.16
21 2 0.03
ACGTcount: A:0.27, C:0.01, G:0.01, T:0.71
Consensus pattern (18 bp):
TTTTTATATTTTTTATAA
Done.