Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: chr9
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: 38630433
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 2298367 characters in sequence are not A, C, G, or T
File 60 of 97
Found at i:24163198 original size:50 final size:50
Alignment explanation
Indices: 24163123--24163272 Score: 264
Period size: 50 Copynumber: 3.0 Consensus size: 50
24163113 TTTGCCAATG
* *
24163123 TTGCAACCTCTCCTCCACAGGATCTCAAGGGTTGTGAGGAATTGAAGCCA
1 TTGCAACCTCTCCTCCACAGGATCTCAAGGGTTATGAGGAATTGAAGCAA
24163173 TTGCAACCTCTCCTCCACAGGATCTCAAGGGTTATGAGGAATTGAAGCAA
1 TTGCAACCTCTCCTCCACAGGATCTCAAGGGTTATGAGGAATTGAAGCAA
* *
24163223 TTGCAACCTCTCCTCCACAGGATCTCAAGCGTTATGAGGAACTGAAGCAA
1 TTGCAACCTCTCCTCCACAGGATCTCAAGGGTTATGAGGAATTGAAGCAA
24163273 GATGTCTCCA
Statistics
Matches: 96, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
50 96 1.00
ACGTcount: A:0.29, C:0.26, G:0.22, T:0.23
Consensus pattern (50 bp):
TTGCAACCTCTCCTCCACAGGATCTCAAGGGTTATGAGGAATTGAAGCAA
Found at i:24173022 original size:19 final size:20
Alignment explanation
Indices: 24172978--24173024 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 20
24172968 AGGTAATTGG
*
24172978 TTTAAAAATTAATCAAAAAA
1 TTTAAAAAATAATCAAAAAA
*
24172998 -TAAAAAAATAAT-AAAAAA
1 TTTAAAAAATAATCAAAAAA
24173016 TTTAAAAAA
1 TTTAAAAAA
24173025 AAGGTAAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
18 6 0.26
19 17 0.74
ACGTcount: A:0.72, C:0.02, G:0.00, T:0.26
Consensus pattern (20 bp):
TTTAAAAAATAATCAAAAAA
Found at i:24182581 original size:73 final size:73
Alignment explanation
Indices: 24182324--24182587 Score: 289
Period size: 73 Copynumber: 3.6 Consensus size: 73
24182314 TCATAAACAA
* * * * * * *
24182324 AGAACACTTAGTCGACCAAGAA-ACATGGTTAGTCGACTAAGAGCTTATTGCCAGAAATCTGGAT
1 AGAAGACTTAATCGACTAAGAAGA-ATTGTTAGTCAACTAAGAGCTTACTGCCAGAAA-CTGGGT
* *
24182388 TACGAGACAG
64 TAAGAGATAG
* * * * *
24182398 A-AAGAACTTAATCGACTAAAAAGCATTGTTAGTCAACCAAAAGCTTACTGCCAAAAACTGGGTT
1 AGAAG-ACTTAATCGACTAAGAAGAATTGTTAGTCAACTAAGAGCTTACTGCCAGAAACTGGGTT
*
24182462 CAGAGATAG
65 AAGAGATAG
* * *
24182471 AGATGACTTAATCGACTAAGAAGAATTGTTAGTCAACTAAGAGCTCACTACCAGAAACTGGGTTA
1 AGAAGACTTAATCGACTAAGAAGAATTGTTAGTCAACTAAGAGCTTACTGCCAGAAACTGGGTTA
24182536 AGAGATAG
66 AGAGATAG
* * * *
24182544 AGACGACTTAATCGACTTAGAAGTATAGTTAGTCAACTAAGAGC
1 AGAAGACTTAATCGACTAAGAAGAATTGTTAGTCAACTAAGAGC
24182588 ATTCTATCTG
Statistics
Matches: 159, Mismatches: 28, Indels: 7
0.82 0.14 0.04
Matches are distributed among these distances:
73 115 0.72
74 44 0.28
ACGTcount: A:0.39, C:0.17, G:0.21, T:0.23
Consensus pattern (73 bp):
AGAAGACTTAATCGACTAAGAAGAATTGTTAGTCAACTAAGAGCTTACTGCCAGAAACTGGGTTA
AGAGATAG
Found at i:24183019 original size:35 final size:35
Alignment explanation
Indices: 24182975--24183147 Score: 151
Period size: 35 Copynumber: 5.1 Consensus size: 35
24182965 GTTAGTTTTG
24182975 GGTTTTGGTTGATCCCGTGAAAAACCATTGTTAAA
1 GGTTTTGGTTGATCCCGTGAAAAACCATTGTTAAA
* * * * ** *
24183010 GGTTGTGGTTAAGCCCTTGAAAGGCCATT-TT--G
1 GGTTTTGGTTGATCCCGTGAAAAACCATTGTTAAA
* **
24183042 GGTTTTAGTTGATCTTGTGAAAAACCATTGTTAAA
1 GGTTTTGGTTGATCCCGTGAAAAACCATTGTTAAA
* * ** * *
24183077 GGTTGTGGTTGAGCCTTTGAAAAGCCATT-TT--G
1 GGTTTTGGTTGATCCCGTGAAAAACCATTGTTAAA
*
24183109 GGTTTTGGTTGATCCCGTGAAAAATCATTGTTAAA
1 GGTTTTGGTTGATCCCGTGAAAAACCATTGTTAAA
24183144 GGTT
1 GGTT
24183148 ACGGCTAAGC
Statistics
Matches: 101, Mismatches: 31, Indels: 12
0.70 0.22 0.08
Matches are distributed among these distances:
32 43 0.43
33 4 0.04
34 4 0.04
35 50 0.50
ACGTcount: A:0.25, C:0.12, G:0.26, T:0.37
Consensus pattern (35 bp):
GGTTTTGGTTGATCCCGTGAAAAACCATTGTTAAA
Found at i:24183070 original size:32 final size:32
Alignment explanation
Indices: 24182970--24183137 Score: 97
Period size: 32 Copynumber: 5.1 Consensus size: 32
24182960 GAAAAGTTAG
**
24182970 TTTTGGGTTTTGGTTGATCCCGTGAAAAACCA
1 TTTTGGGTTTTGGTTGATCTTGTGAAAAACCA
* * * * * **
24183002 TTGTTAAAGGTTGTGGTTAAGCCCT-TGAAAGGCCA
1 TT-TT--GGGTTTTGGTTGA-TCTTGTGAAAAACCA
*
24183037 TTTTGGGTTTTAGTTGATCTTGTGAAAAACCA
1 TTTTGGGTTTTGGTTGATCTTGTGAAAAACCA
* * * *
24183069 TTGTTAAAGGTTGTGGTTGAGCCTT-TGAAAAGCCA
1 TT-TT--GGGTTTTGGTTGA-TCTTGTGAAAAACCA
** *
24183104 TTTTGGGTTTTGGTTGATCCCGTGAAAAATCA
1 TTTTGGGTTTTGGTTGATCTTGTGAAAAACCA
24183136 TT
1 TT
24183138 GTTAAAGGTT
Statistics
Matches: 99, Mismatches: 27, Indels: 20
0.68 0.18 0.14
Matches are distributed among these distances:
31 3 0.03
32 42 0.42
33 4 0.04
34 4 0.04
35 41 0.41
36 5 0.05
ACGTcount: A:0.24, C:0.12, G:0.26, T:0.38
Consensus pattern (32 bp):
TTTTGGGTTTTGGTTGATCTTGTGAAAAACCA
Found at i:24183159 original size:67 final size:67
Alignment explanation
Indices: 24182970--24183172 Score: 298
Period size: 67 Copynumber: 3.0 Consensus size: 67
24182960 GAAAAGTTAG
* *
24182970 TTTTGGGTTTTGGTTGATCCCGTGAAAAACCATTGTTAAAGGTTGTGGTTAAGCCCTTGAAAGGC
1 TTTTGGGTTTTGGTTGATCCCGTGAAAAACCATTGTTAAAGGTTGTGGTTAAGCCTTTGAAAAGC
24183035 CA
66 CA
* ** *
24183037 TTTTGGGTTTTAGTTGATCTTGTGAAAAACCATTGTTAAAGGTTGTGGTTGAGCCTTTGAAAAGC
1 TTTTGGGTTTTGGTTGATCCCGTGAAAAACCATTGTTAAAGGTTGTGGTTAAGCCTTTGAAAAGC
24183102 CA
66 CA
* ** * **
24183104 TTTTGGGTTTTGGTTGATCCCGTGAAAAATCATTGTTAAAGGTTACGGCTAAGCCTGCGAAAAGC
1 TTTTGGGTTTTGGTTGATCCCGTGAAAAACCATTGTTAAAGGTTGTGGTTAAGCCTTTGAAAAGC
24183169 CA
66 CA
24183171 TT
1 TT
24183173 GTAAAAGCTT
Statistics
Matches: 120, Mismatches: 16, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
67 120 1.00
ACGTcount: A:0.25, C:0.14, G:0.26, T:0.35
Consensus pattern (67 bp):
TTTTGGGTTTTGGTTGATCCCGTGAAAAACCATTGTTAAAGGTTGTGGTTAAGCCTTTGAAAAGC
CA
Found at i:24186999 original size:34 final size:34
Alignment explanation
Indices: 24186953--24187035 Score: 112
Period size: 34 Copynumber: 2.4 Consensus size: 34
24186943 CCATTTAAGG
***
24186953 GCTGATTTTGGAGGCTGGAAAGAGTTGTTTTTCT
1 GCTGATTTTGGAGGCTGGAAAGAGCCATTTTTCT
* * *
24186987 GCTGGTTTTGGAGGTTGGAAAGTGCCATTTTTCT
1 GCTGATTTTGGAGGCTGGAAAGAGCCATTTTTCT
24187021 GCTGATTTTGGAGGC
1 GCTGATTTTGGAGGC
24187036 CAAAAAGTGC
Statistics
Matches: 41, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
34 41 1.00
ACGTcount: A:0.16, C:0.11, G:0.34, T:0.40
Consensus pattern (34 bp):
GCTGATTTTGGAGGCTGGAAAGAGCCATTTTTCT
Found at i:24187043 original size:34 final size:34
Alignment explanation
Indices: 24186980--24187045 Score: 87
Period size: 34 Copynumber: 1.9 Consensus size: 34
24186970 GAAAGAGTTG
* ****
24186980 TTTTTCTGCTGGTTTTGGAGGTTGGAAAGTGCCA
1 TTTTTCTGCTGATTTTGGAGGCCAAAAAGTGCCA
24187014 TTTTTCTGCTGATTTTGGAGGCCAAAAAGTGC
1 TTTTTCTGCTGATTTTGGAGGCCAAAAAGTGC
24187046 AGAATTTTGC
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
34 27 1.00
ACGTcount: A:0.18, C:0.14, G:0.29, T:0.39
Consensus pattern (34 bp):
TTTTTCTGCTGATTTTGGAGGCCAAAAAGTGCCA
Found at i:24187368 original size:5 final size:5
Alignment explanation
Indices: 24187345--24187385 Score: 59
Period size: 5 Copynumber: 8.4 Consensus size: 5
24187335 TGGACGGTGG
24187345 AAGAGA AAG-A AAG-A AAGAA AAGAA AAGAA AAGAA AAGAA AA
1 AAGA-A AAGAA AAGAA AAGAA AAGAA AAGAA AAGAA AAGAA AA
24187386 TAATAAGGAA
Statistics
Matches: 34, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
4 8 0.24
5 23 0.68
6 3 0.09
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (5 bp):
AAGAA
Found at i:24187458 original size:25 final size:26
Alignment explanation
Indices: 24187390--24187464 Score: 73
Period size: 25 Copynumber: 2.8 Consensus size: 26
24187380 AGAAAATAAT
24187390 AAGGAAAATGGGCATGGCCCAACAAGC
1 AAGGAAAATGGGCATGGCCCAACAA-C
* * *
24187417 AAGGAAAATTGGACATGGTCCAA-TA-
1 AAGGAAAA-TGGGCATGGCCCAACAAC
*
24187442 AAGGAAGAATGGGCATGACCCAA
1 AAGGAA-AATGGGCATGGCCCAA
24187465 TTAAAAAGAA
Statistics
Matches: 40, Mismatches: 6, Indels: 6
0.77 0.12 0.12
Matches are distributed among these distances:
25 17 0.43
26 2 0.05
27 9 0.22
28 12 0.30
ACGTcount: A:0.43, C:0.17, G:0.28, T:0.12
Consensus pattern (26 bp):
AAGGAAAATGGGCATGGCCCAACAAC
Found at i:24193990 original size:21 final size:22
Alignment explanation
Indices: 24193961--24194001 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
24193951 CCTAGGTGAA
* *
24193961 AAAATTCAAGGGAA-AAGTGTG
1 AAAACTCAAGGAAACAAGTGTG
24193982 AAAACTCAAGGAAACAAGTG
1 AAAACTCAAGGAAACAAGTG
24194002 AAAAAAAAGG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 12 0.71
22 5 0.29
ACGTcount: A:0.51, C:0.10, G:0.24, T:0.15
Consensus pattern (22 bp):
AAAACTCAAGGAAACAAGTGTG
Found at i:24194006 original size:21 final size:21
Alignment explanation
Indices: 24193960--24194007 Score: 51
Period size: 21 Copynumber: 2.2 Consensus size: 21
24193950 CCCTAGGTGA
* *
24193960 AAAAATTCAAGGGAAAAGTGT
1 AAAAACTCAAGGAAAAAGTGT
* *
24193981 GAAAACTCAAGGAAACAAGTGA
1 AAAAACTCAAGGAAA-AAGTGT
24194003 AAAAA
1 AAAAA
24194008 AAGGTAAGAT
Statistics
Matches: 21, Mismatches: 5, Indels: 1
0.78 0.19 0.04
Matches are distributed among these distances:
21 12 0.57
22 9 0.43
ACGTcount: A:0.58, C:0.08, G:0.21, T:0.12
Consensus pattern (21 bp):
AAAAACTCAAGGAAAAAGTGT
Found at i:24225363 original size:44 final size:44
Alignment explanation
Indices: 24225300--24225414 Score: 185
Period size: 44 Copynumber: 2.6 Consensus size: 44
24225290 ATAGCTAGGT
* * *
24225300 CATCATGTGCACTTCCACACCGCACATTACAATATCATCATCAG
1 CATCATGTGCTCTCCCACACCGCACATTACAATATCATCATCAA
* *
24225344 CATCATGTACTCTCCCACACCGTACATTACAATATCATCATCAA
1 CATCATGTGCTCTCCCACACCGCACATTACAATATCATCATCAA
24225388 CATCATGTGCTCTCCCACACCGCACAT
1 CATCATGTGCTCTCCCACACCGCACAT
24225415 GGCATAAATC
Statistics
Matches: 64, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
44 64 1.00
ACGTcount: A:0.30, C:0.37, G:0.08, T:0.25
Consensus pattern (44 bp):
CATCATGTGCTCTCCCACACCGCACATTACAATATCATCATCAA
Found at i:24228131 original size:21 final size:21
Alignment explanation
Indices: 24228098--24228137 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
24228088 TAAAGTAATT
*
24228098 TAAAGTAAAATAACATAAAAA
1 TAAACTAAAATAACATAAAAA
* *
24228119 TAAACTAAGATAACTTAAA
1 TAAACTAAAATAACATAAA
24228138 CTAACTTATC
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.65, C:0.07, G:0.05, T:0.23
Consensus pattern (21 bp):
TAAACTAAAATAACATAAAAA
Found at i:24228187 original size:9 final size:10
Alignment explanation
Indices: 24228155--24228193 Score: 55
Period size: 10 Copynumber: 4.1 Consensus size: 10
24228145 ATCAACCTGT
24228155 ATTAAACTAA
1 ATTAAACTAA
24228165 ATTAAACTAA
1 ATTAAACTAA
*
24228175 ATTAAGC-AA
1 ATTAAACTAA
24228184 ATT-AACTAA
1 ATTAAACTAA
24228193 A
1 A
24228194 ATACTTAAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
8 2 0.08
9 8 0.31
10 16 0.62
ACGTcount: A:0.59, C:0.10, G:0.03, T:0.28
Consensus pattern (10 bp):
ATTAAACTAA
Found at i:24234038 original size:29 final size:27
Alignment explanation
Indices: 24233959--24234061 Score: 82
Period size: 29 Copynumber: 3.5 Consensus size: 27
24233949 TTAGTAAAAT
**
24233959 TTAAATAAATTTTTAATTTT-TTATTATG
1 TTAAAT-AATTTTTAATTTTATT-TTAAA
24233987 TTAAATCAATTTTTTATATTTTTATTTTAAA
1 TTAAAT-AA-TTTTTA-A-TTTTATTTTAAA
*
24234018 TTAAATAAGTCTTTTAATTTTATTTTGAA
1 TTAAATAA-T-TTTTAATTTTATTTTAAA
*
24234047 TCAAATAAATTTTTA
1 TTAAAT-AATTTTTA
24234062 TGATTAATGA
Statistics
Matches: 63, Mismatches: 6, Indels: 12
0.78 0.07 0.15
Matches are distributed among these distances:
28 13 0.21
29 23 0.37
30 7 0.11
31 18 0.29
32 2 0.03
ACGTcount: A:0.37, C:0.03, G:0.03, T:0.57
Consensus pattern (27 bp):
TTAAATAATTTTTAATTTTATTTTAAA
Found at i:24234111 original size:17 final size:17
Alignment explanation
Indices: 24234086--24234125 Score: 62
Period size: 17 Copynumber: 2.4 Consensus size: 17
24234076 TTTAGTTAAA
* *
24234086 ATGTCACTTGCTATTTT
1 ATGTTACTTGATATTTT
24234103 ATGTTACTTGATATTTT
1 ATGTTACTTGATATTTT
24234120 ATGTTA
1 ATGTTA
24234126 TATGACGTTG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.23, C:0.10, G:0.12, T:0.55
Consensus pattern (17 bp):
ATGTTACTTGATATTTT
Found at i:24236002 original size:17 final size:18
Alignment explanation
Indices: 24235980--24236013 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
24235970 AACTATAATT
24235980 TAATTTTTT-ATTTTATA
1 TAATTTTTTAATTTTATA
24235997 TAATTTTTTAATTTTAT
1 TAATTTTTTAATTTTAT
24236014 TATATTAATT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (18 bp):
TAATTTTTTAATTTTATA
Found at i:24236721 original size:11 final size:10
Alignment explanation
Indices: 24236702--24236732 Score: 53
Period size: 10 Copynumber: 3.0 Consensus size: 10
24236692 TATTAGTTTT
24236702 TTTAAAAAAA
1 TTTAAAAAAA
24236712 TTTAAAAAAA
1 TTTAAAAAAA
24236722 TTTAATAAAAA
1 TTTAA-AAAAA
24236733 CATATAATAA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 15 0.75
11 5 0.25
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (10 bp):
TTTAAAAAAA
Found at i:24242297 original size:24 final size:23
Alignment explanation
Indices: 24242252--24242298 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
24242242 TCCATTCGCT
*
24242252 GAAAGAAAAATAGAAGACTGGAA
1 GAAAGAAAAATAGAAAACTGGAA
*
24242275 GAAAGAAAAATCAGAAAATTGGAA
1 GAAAGAAAAAT-AGAAAACTGGAA
24242299 AGGAAATCTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 11 0.52
24 10 0.48
ACGTcount: A:0.62, C:0.04, G:0.23, T:0.11
Consensus pattern (23 bp):
GAAAGAAAAATAGAAAACTGGAA
Found at i:24251035 original size:23 final size:24
Alignment explanation
Indices: 24251015--24251059 Score: 65
Period size: 23 Copynumber: 1.9 Consensus size: 24
24251005 ATGATATTAT
*
24251015 TTTTATTTATATT-TGTTTATTTC
1 TTTTATTTATATTCTATTTATTTC
*
24251038 TTTTATTTTTATTCTATTTATT
1 TTTTATTTATATTCTATTTATT
24251060 CATATGCTAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 12 0.63
24 7 0.37
ACGTcount: A:0.18, C:0.04, G:0.02, T:0.76
Consensus pattern (24 bp):
TTTTATTTATATTCTATTTATTTC
Found at i:24251686 original size:9 final size:9
Alignment explanation
Indices: 24251674--24251716 Score: 52
Period size: 9 Copynumber: 4.9 Consensus size: 9
24251664 AAAAATATAT
24251674 ATAATAAAA
1 ATAATAAAA
24251683 ATAATAAAA
1 ATAATAAAA
** *
24251692 ATTTTTAAA
1 ATAATAAAA
24251701 A-AATAAAA
1 ATAATAAAA
24251709 ATAATAAA
1 ATAATAAA
24251717 TAAAGAAGAA
Statistics
Matches: 27, Mismatches: 6, Indels: 2
0.77 0.17 0.06
Matches are distributed among these distances:
8 5 0.19
9 22 0.81
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (9 bp):
ATAATAAAA
Found at i:24252263 original size:28 final size:28
Alignment explanation
Indices: 24252219--24252280 Score: 106
Period size: 28 Copynumber: 2.2 Consensus size: 28
24252209 TGATTTGGGC
* *
24252219 AGAAGCCGCCGGCAGGTGAGAGAGAAAG
1 AGAAGCCACCGGAAGGTGAGAGAGAAAG
24252247 AGAAGCCACCGGAAGGTGAGAGAGAAAG
1 AGAAGCCACCGGAAGGTGAGAGAGAAAG
24252275 AGAAGC
1 AGAAGC
24252281 TTGATTCGGC
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
28 32 1.00
ACGTcount: A:0.40, C:0.16, G:0.40, T:0.03
Consensus pattern (28 bp):
AGAAGCCACCGGAAGGTGAGAGAGAAAG
Found at i:24252914 original size:4 final size:4
Alignment explanation
Indices: 24252907--24252931 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
24252897 TTTTTTTTTA
24252907 AAAT AAAT AAAT AAAT AAAT AAAT A
1 AAAT AAAT AAAT AAAT AAAT AAAT A
24252932 TTTAAAAATA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (4 bp):
AAAT
Found at i:24253066 original size:15 final size:15
Alignment explanation
Indices: 24253018--24253067 Score: 52
Period size: 15 Copynumber: 3.5 Consensus size: 15
24253008 TTTGTGAGTC
*
24253018 ATAAAAATTATAATA
1 ATAAAAATAATAATA
*
24253033 AT--AAATAATGAATG
1 ATAAAAATAAT-AATA
24253047 A-AAAAATAATAATA
1 ATAAAAATAATAATA
24253061 ATAAAAA
1 ATAAAAA
24253068 ATAGTAATAT
Statistics
Matches: 28, Mismatches: 3, Indels: 8
0.72 0.08 0.21
Matches are distributed among these distances:
13 6 0.21
14 8 0.29
15 14 0.50
ACGTcount: A:0.70, C:0.00, G:0.04, T:0.26
Consensus pattern (15 bp):
ATAAAAATAATAATA
Found at i:24253068 original size:16 final size:17
Alignment explanation
Indices: 24253036--24253076 Score: 57
Period size: 16 Copynumber: 2.4 Consensus size: 17
24253026 TATAATAATA
24253036 AATAATGAATGAAAAAAT
1 AATAAT-AATGAAAAAAT
24253054 AATAATAAT-AAAAAAT
1 AATAATAATGAAAAAAT
*
24253070 AGTAATA
1 AATAATA
24253077 TAGCTTTATA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 13 0.59
17 3 0.14
18 6 0.27
ACGTcount: A:0.68, C:0.00, G:0.07, T:0.24
Consensus pattern (17 bp):
AATAATAATGAAAAAAT
Found at i:24253484 original size:18 final size:17
Alignment explanation
Indices: 24253458--24253505 Score: 53
Period size: 17 Copynumber: 2.8 Consensus size: 17
24253448 TAAATAAAAA
* *
24253458 AAATAAAAATATTAAAT
1 AAATAAAAAAAATAAAT
24253475 AAATAGAAAAAAATAAAT
1 AAATA-AAAAAAATAAAT
24253493 -AATAATAAAAAAT
1 AAATAA-AAAAAAT
24253506 CTAAGATAAC
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
16 1 0.04
17 16 0.59
18 10 0.37
ACGTcount: A:0.75, C:0.00, G:0.02, T:0.23
Consensus pattern (17 bp):
AAATAAAAAAAATAAAT
Found at i:24253673 original size:21 final size:21
Alignment explanation
Indices: 24253633--24253699 Score: 64
Period size: 21 Copynumber: 3.0 Consensus size: 21
24253623 ATAATTAGAC
24253633 ATAAAATAGAAAACATGATAAAAA
1 ATAAAAT--AAAA-ATGATAAAAA
*
24253657 ATAAAATAAAAATGATAATTAA
1 ATAAAATAAAAATGATAA-AAA
* *
24253679 ATAATA-AAAAATGACAAAAA
1 ATAAAATAAAAATGATAAAAA
24253699 A
1 A
24253700 AAATATAGAT
Statistics
Matches: 38, Mismatches: 4, Indels: 6
0.79 0.08 0.12
Matches are distributed among these distances:
20 3 0.08
21 17 0.45
22 11 0.29
24 7 0.18
ACGTcount: A:0.72, C:0.03, G:0.06, T:0.19
Consensus pattern (21 bp):
ATAAAATAAAAATGATAAAAA
Found at i:24253734 original size:2 final size:2
Alignment explanation
Indices: 24253727--24253758 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
24253717 TTAGCCTAGC
24253727 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
24253759 NNNNNNNNNN
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:24265438 original size:37 final size:37
Alignment explanation
Indices: 24265394--24265719 Score: 397
Period size: 37 Copynumber: 8.8 Consensus size: 37
24265384 AAAAAAGGTT
* *
24265394 TCGTTGCCTCAATTTTGAGGAATTCATTTTTAAAGGT-
1 TCGTTGCCTCAGTTTTGAGGAGTTCATTTTTAAA-GTC
* * *
24265431 ACGTTGCCTCAGCTTTGAGGAGCTCATTTTTTAAAGTC
1 TCGTTGCCTCAGTTTTGAGGAGTTCA-TTTTTAAAGTC
*
24265469 TCGTTGCCTCAGTTTTGAGGAGTTCATTTTTGAAGTC
1 TCGTTGCCTCAGTTTTGAGGAGTTCATTTTTAAAGTC
** *
24265506 TTATTGCCTCAGTTTTGAAGAGTTCA-TTTTAAAGTC
1 TCGTTGCCTCAGTTTTGAGGAGTTCATTTTTAAAGTC
*
24265542 TCGGTGCCTCAGTTTTGAGGAGTTCATTTTTAAAGTC
1 TCGTTGCCTCAGTTTTGAGGAGTTCATTTTTAAAGTC
* * *
24265579 TCAG-TACCTCAGATTTGAGGAGTTCATTTTTAAAATC
1 TC-GTTGCCTCAGTTTTGAGGAGTTCATTTTTAAAGTC
24265616 TCGTTGCCTCAGTTTTGAGGAGTTCATTTTTAAAAGTC
1 TCGTTGCCTCAGTTTTGAGGAGTTCATTTTT-AAAGTC
* * * *
24265654 TCGTCGCCTCAATTTTGAGAAATTCATTTTTAAAAGTC
1 TCGTTGCCTCAGTTTTGAGGAGTTCATTTTT-AAAGTC
* * **
24265692 TCATTGCTTCAACTTTGAGGAGTTCATT
1 TCGTTGCCTCAGTTTTGAGGAGTTCATT
24265720 AAAAAAATAA
Statistics
Matches: 250, Mismatches: 33, Indels: 11
0.85 0.11 0.04
Matches are distributed among these distances:
36 32 0.13
37 125 0.50
38 93 0.37
ACGTcount: A:0.23, C:0.17, G:0.19, T:0.41
Consensus pattern (37 bp):
TCGTTGCCTCAGTTTTGAGGAGTTCATTTTTAAAGTC
Found at i:24265517 original size:75 final size:74
Alignment explanation
Indices: 24265394--24265719 Score: 395
Period size: 75 Copynumber: 4.4 Consensus size: 74
24265384 AAAAAAGGTT
* * * * * *
24265394 TCGTTGCCTCAATTTTGAGGAATTCATTTTTAAAGGT-ACGTTGCCTCAGCTTTGAGGAGCTCAT
1 TCGTTGCCTCAGTTTTGAGGAGTTCATTTTTAAA-GTCTCATTGCCTCAGTTTTGAGGAGTTCA-
24265458 TTTTTAAAGTC
64 TTTTTAAAGTC
* * *
24265469 TCGTTGCCTCAGTTTTGAGGAGTTCATTTTTGAAGTCTTATTGCCTCAGTTTTGAAGAGTTCA-T
1 TCGTTGCCTCAGTTTTGAGGAGTTCATTTTTAAAGTCTCATTGCCTCAGTTTTGAGGAGTTCATT
24265533 TTTAAAGTC
66 TTTAAAGTC
* * * *
24265542 TCGGTGCCTCAGTTTTGAGGAGTTCATTTTTAAAGTCTCAGTACCTCAGATTTGAGGAGTTCATT
1 TCGTTGCCTCAGTTTTGAGGAGTTCATTTTTAAAGTCTCATTGCCTCAGTTTTGAGGAGTTCATT
*
24265607 TTTAAAATC
66 TTTAAAGTC
* * * * *
24265616 TCGTTGCCTCAGTTTTGAGGAGTTCATTTTTAAAAGTCTCGTCGCCTCAATTTTGAGAAATTCAT
1 TCGTTGCCTCAGTTTTGAGGAGTTCATTTTT-AAAGTCTCATTGCCTCAGTTTTGAGGAGTTCAT
24265681 TTTTAAAAGTC
65 TTTT-AAAGTC
* * **
24265692 TCATTGCTTCAACTTTGAGGAGTTCATT
1 TCGTTGCCTCAGTTTTGAGGAGTTCATT
24265720 AAAAAAATAA
Statistics
Matches: 216, Mismatches: 31, Indels: 7
0.85 0.12 0.03
Matches are distributed among these distances:
73 66 0.31
74 41 0.19
75 80 0.37
76 29 0.13
ACGTcount: A:0.23, C:0.17, G:0.19, T:0.41
Consensus pattern (74 bp):
TCGTTGCCTCAGTTTTGAGGAGTTCATTTTTAAAGTCTCATTGCCTCAGTTTTGAGGAGTTCATT
TTTAAAGTC
Found at i:24265726 original size:1 final size:1
Alignment explanation
Indices: 24265720--24265767 Score: 51
Period size: 1 Copynumber: 48.0 Consensus size: 1
24265710 GGAGTTCATT
* * * * *
24265720 AAAAAAATAAAAAAAAATAAAAAAAAACAAAAAACAACAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
24265768 GAGCTTTGAT
Statistics
Matches: 37, Mismatches: 10, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
1 37 1.00
ACGTcount: A:0.90, C:0.06, G:0.00, T:0.04
Consensus pattern (1 bp):
A
Found at i:24265735 original size:10 final size:10
Alignment explanation
Indices: 24265720--24265766 Score: 67
Period size: 10 Copynumber: 4.7 Consensus size: 10
24265710 GGAGTTCATT
*
24265720 AAAAAAATAA
1 AAAAAAACAA
*
24265730 AAAAAAATAA
1 AAAAAAACAA
24265740 AAAAAAACAA
1 AAAAAAACAA
*
24265750 AAAACAACAA
1 AAAAAAACAA
24265760 AAAAAAA
1 AAAAAAA
24265767 AGAGCTTTGA
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
10 34 1.00
ACGTcount: A:0.89, C:0.06, G:0.00, T:0.04
Consensus pattern (10 bp):
AAAAAAACAA
Found at i:24267899 original size:7 final size:7
Alignment explanation
Indices: 24267825--24267904 Score: 53
Period size: 7 Copynumber: 11.9 Consensus size: 7
24267815 AAATTACTTG
24267825 ATAAA-A
1 ATAAATA
24267831 ATAACA-A
1 ATAA-ATA
24267838 ATAAATA
1 ATAAATA
*
24267845 ATAAATG
1 ATAAATA
*
24267852 A-AGATA
1 ATAAATA
*
24267858 AAAAGATA
1 ATAA-ATA
24267866 ATAAATA
1 ATAAATA
24267873 A-AAATA
1 ATAAATA
**
24267879 ATTCA-A
1 ATAAATA
*
24267885 ATATATA
1 ATAAATA
24267892 ATAAATA
1 ATAAATA
24267899 ATAAAT
1 ATAAAT
24267905 TTGTGAAAAT
Statistics
Matches: 58, Mismatches: 10, Indels: 11
0.73 0.13 0.14
Matches are distributed among these distances:
6 19 0.33
7 33 0.57
8 6 0.10
ACGTcount: A:0.69, C:0.03, G:0.04, T:0.25
Consensus pattern (7 bp):
ATAAATA
Found at i:24267959 original size:25 final size:25
Alignment explanation
Indices: 24267931--24267984 Score: 67
Period size: 25 Copynumber: 2.2 Consensus size: 25
24267921 TACATGACAT
*
24267931 TAAATA-AAAAAACA-AAAATATTAAA
1 TAAATAGAAAAAA-ATAAAATAAT-AA
24267956 TAAATAGAAAAAAATAAAATAATAA
1 TAAATAGAAAAAAATAAAATAATAA
24267981 TAAA
1 TAAA
24267985 AAATCTAAGA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
25 13 0.50
26 13 0.50
ACGTcount: A:0.76, C:0.02, G:0.02, T:0.20
Consensus pattern (25 bp):
TAAATAGAAAAAAATAAAATAATAA
Found at i:24268168 original size:25 final size:25
Alignment explanation
Indices: 24268099--24268171 Score: 64
Period size: 22 Copynumber: 3.0 Consensus size: 25
24268089 GTAAGGTGTA
* *
24268099 AAAAATAATAATTAGACATAA-AATAG
1 AAAAATGATAATTA-A-ATAATAAAAG
*
24268125 AAAACATGATAA--AAA-AATAAAAT
1 AAAA-ATGATAATTAAATAATAAAAG
24268148 AAAAATGATAATTAAATAATAAAA
1 AAAAATGATAATTAAATAATAAAA
24268172 AATGACAATA
Statistics
Matches: 39, Mismatches: 3, Indels: 11
0.74 0.06 0.21
Matches are distributed among these distances:
22 9 0.23
23 8 0.21
24 4 0.10
25 8 0.21
26 4 0.10
27 6 0.15
ACGTcount: A:0.70, C:0.03, G:0.05, T:0.22
Consensus pattern (25 bp):
AAAAATGATAATTAAATAATAAAAG
Found at i:24269549 original size:2 final size:2
Alignment explanation
Indices: 24269542--24269590 Score: 98
Period size: 2 Copynumber: 24.5 Consensus size: 2
24269532 AATGTAAATT
24269542 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
24269584 TA TA TA T
1 TA TA TA T
24269591 NNNNNNNNNN
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 47 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:24269979 original size:2 final size:2
Alignment explanation
Indices: 24269972--24270018 Score: 71
Period size: 2 Copynumber: 24.5 Consensus size: 2
24269962 TAAAATTTAG
*
24269972 TA TA TA TA TA TA TA TA TA TA TA GA TA TA T- TA TA T- TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
24270012 TA TA TA T
1 TA TA TA T
24270019 TGAAAATTAC
Statistics
Matches: 41, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
1 2 0.05
2 39 0.95
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (2 bp):
TA
Found at i:24270390 original size:68 final size:68
Alignment explanation
Indices: 24270261--24270396 Score: 164
Period size: 68 Copynumber: 2.0 Consensus size: 68
24270251 CCTCACGTAA
* * ** * *
24270261 GAGTCAGCAGCATGCTTAGATCAGAACTCTCCCTAGCTTGGTGTCGTACTCCAGGTACACCGCTT
1 GAGTCAGCAGCATGCTGAGAGCAGAACTCTCCCTAGCTTGGAATCGTACTCCACGTACACCGCCT
24270326 CAT
66 CAT
* * * * * *
24270329 GAGTCAGCTGCATGCTGAGAGCAGAACTCTTCCTATCTTGGAATCTTACTCCACTTTCACCGCCT
1 GAGTCAGCAGCATGCTGAGAGCAGAACTCTCCCTAGCTTGGAATCGTACTCCACGTACACCGCCT
24270394 CAT
66 CAT
24270397 ATATGGAAAT
Statistics
Matches: 56, Mismatches: 12, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
68 56 1.00
ACGTcount: A:0.22, C:0.30, G:0.20, T:0.28
Consensus pattern (68 bp):
GAGTCAGCAGCATGCTGAGAGCAGAACTCTCCCTAGCTTGGAATCGTACTCCACGTACACCGCCT
CAT
Found at i:24270590 original size:32 final size:32
Alignment explanation
Indices: 24270549--24270609 Score: 104
Period size: 32 Copynumber: 1.9 Consensus size: 32
24270539 ATCCATTTGC
*
24270549 ATGCATGCAATTCTACTTTATTTCCAACTTGT
1 ATGCATGCAATTCTACTTTAATTCCAACTTGT
*
24270581 ATGCATGCAATTCTGCTTTAATTCCAACT
1 ATGCATGCAATTCTACTTTAATTCCAACT
24270610 CCACTTCCAC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
32 27 1.00
ACGTcount: A:0.26, C:0.23, G:0.10, T:0.41
Consensus pattern (32 bp):
ATGCATGCAATTCTACTTTAATTCCAACTTGT
Found at i:24278823 original size:43 final size:43
Alignment explanation
Indices: 24278658--24278810 Score: 209
Period size: 43 Copynumber: 3.6 Consensus size: 43
24278648 TTGACTTGGC
**
24278658 TATGTGCGAGTAGGGAGTGCGCATAAGTCGAG-GATGACCCGAT
1 TATGTGCGAGTAGGGAGTGCGCATAACCCG-GTGATGACCCGAT
* *
24278701 TATGTGCGAGTAGGGAGTGCGCATAACCCGGTGGTGACCCGGT
1 TATGTGCGAGTAGGGAGTGCGCATAACCCGGTGATGACCCGAT
* * * *
24278744 TATGTGCGAGTAGGGAGTACGTATAACCCGGTGATGACCCAAC
1 TATGTGCGAGTAGGGAGTGCGCATAACCCGGTGATGACCCGAT
*
24278787 CATGTGCGAGTAGGGAGTGCGCAT
1 TATGTGCGAGTAGGGAGTGCGCAT
24278811 GAGCTGGTGA
Statistics
Matches: 96, Mismatches: 13, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
42 1 0.01
43 95 0.99
ACGTcount: A:0.24, C:0.19, G:0.37, T:0.21
Consensus pattern (43 bp):
TATGTGCGAGTAGGGAGTGCGCATAACCCGGTGATGACCCGAT
Found at i:24278871 original size:2 final size:2
Alignment explanation
Indices: 24278864--24278941 Score: 122
Period size: 2 Copynumber: 38.5 Consensus size: 2
24278854 GGCATATACG
24278864 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TNA TA GTA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T-A TA -TA TA
*
24278908 TA TA T- TA TA TA TA TA TA TA TA TA TA TA TA CA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
24278942 GTAAATGTGT
Statistics
Matches: 71, Mismatches: 2, Indels: 6
0.90 0.03 0.08
Matches are distributed among these distances:
1 1 0.01
2 66 0.93
3 4 0.06
ACGTcount: A:0.47, C:0.01, G:0.01, T:0.49
Consensus pattern (2 bp):
TA
Found at i:24291592 original size:62 final size:60
Alignment explanation
Indices: 24291512--24291639 Score: 175
Period size: 61 Copynumber: 2.1 Consensus size: 60
24291502 GAACTGAGAC
*** * *
24291512 AGAATGCTTATTGACTTAAAAGTATCGATACATTTTTCAAATGTATCGATGCATTTTCAAT
1 AGAATGCTTATTGACTTAAAAGTATCGATACA-TAGACAAATGTATCGATACATTTTAAAT
* *
24291573 AGAAGTGCTTATTGTCTTAAAAGTATCGATACATAGACATATGTATCGATACATTTTAAAT
1 AGAA-TGCTTATTGACTTAAAAGTATCGATACATAGACAAATGTATCGATACATTTTAAAT
24291634 AGAATG
1 AGAATG
24291640 TCTAAACCCT
Statistics
Matches: 59, Mismatches: 7, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
60 2 0.03
61 30 0.51
62 27 0.46
ACGTcount: A:0.37, C:0.12, G:0.15, T:0.37
Consensus pattern (60 bp):
AGAATGCTTATTGACTTAAAAGTATCGATACATAGACAAATGTATCGATACATTTTAAAT
Found at i:24297365 original size:4 final size:4
Alignment explanation
Indices: 24297356--24297404 Score: 98
Period size: 4 Copynumber: 12.2 Consensus size: 4
24297346 TAAACCCAAT
24297356 ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA
1 ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA
24297404 A
1 A
24297405 CTTAGACTAT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 45 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (4 bp):
ATAA
Found at i:24301510 original size:37 final size:36
Alignment explanation
Indices: 24301436--24301510 Score: 96
Period size: 37 Copynumber: 2.1 Consensus size: 36
24301426 ATGACAGGCC
* * *
24301436 CTCTTTCTCTCTCCCTTGTGCCAGCCAATCGGGTTT
1 CTCTCTCTCTCTCCCTTGTGCCAGCCAATCCGATTT
* *
24301472 CTCTCTCTCTCTCCCTTTGTGCCTGCCGATCCGATTT
1 CTCTCTCTCTCTCCC-TTGTGCCAGCCAATCCGATTT
24301509 CT
1 CT
24301511 ATTTCTATCC
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
36 14 0.42
37 19 0.58
ACGTcount: A:0.07, C:0.39, G:0.15, T:0.40
Consensus pattern (36 bp):
CTCTCTCTCTCTCCCTTGTGCCAGCCAATCCGATTT
Found at i:24302146 original size:11 final size:11
Alignment explanation
Indices: 24302114--24302157 Score: 52
Period size: 11 Copynumber: 3.9 Consensus size: 11
24302104 TTTCATTATT
*
24302114 TTATTTTATTA
1 TTATTTTTTTA
24302125 TTATTTATTTTA
1 TTATTT-TTTTA
24302137 TTATTTTTTTA
1 TTATTTTTTTA
**
24302148 AAATTTTTTT
1 TTATTTTTTT
24302158 TAAAGTGGGT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
11 19 0.66
12 10 0.34
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (11 bp):
TTATTTTTTTA
Found at i:24302545 original size:143 final size:143
Alignment explanation
Indices: 24302337--24303315 Score: 1250
Period size: 143 Copynumber: 6.8 Consensus size: 143
24302327 TGAAGCTAAT
* * * * * *
24302337 TACTCGGAGATTTTGAAAAATGTACTCGGAGGTTTTAGAAGAAAAAGTTGTTCCTCATCTCAAAA
1 TACTCGGAGGTTTTG-AAGATATACCCGGAGGTTTTAGAAGAAAAAGTTATGCCTCATCTCAAAA
* * * * * *
24302402 TGAGGCCACGTAATTTTGAAAAAATCTTAAAATTAATTACCCGAAGCTTTTAGGAACGTGCTAGG
65 TGAAGTCGCGTAATTTTGAAGAAATCTTAAAACTAATTACCCGAAGGTTTTAGGAACGTGCTAGG
24302467 AGGTCTTGAAGATG
130 AGGTCTTGAAGATG
* * * * *
24302481 TACTTGGAGGTTTTGAAGATATACCCAGAGGTTTTACAAGAAACAGTTACGCCTCATCTCAAAAT
1 TACTCGGAGGTTTTGAAGATATACCCGGAGGTTTTAGAAGAAAAAGTTATGCCTCATCTCAAAAT
* * * *
24302546 GAAATCGCGTAATTTTGAAGAAATCTTAAAACTAATTACTCGAAGGTTTTAGGAATGTGCTCGGA
66 GAAGTCGCGTAATTTTGAAGAAATCTTAAAACTAATTACCCGAAGGTTTTAGGAACGTGCTAGGA
24302611 GGTCTTGAAGATG
131 GGTCTTGAAGATG
* * *
24302624 TACTCGGAGATTTTGAAGATATACCCGGAGATTTTAGAAGAAAAAGTTACGCCTCATCTCAAAAT
1 TACTCGGAGGTTTTGAAGATATACCCGGAGGTTTTAGAAGAAAAAGTTATGCCTCATCTCAAAAT
* * * *
24302689 GAAGTCTCGTAATTTTGAAAAAATCTAAAAACTAATTA-CCGAAAGGTTTTAGAAACGTGCCTA-
66 GAAGTCGCGTAATTTTGAAGAAATCTTAAAACTAATTACCCG-AAGGTTTTAGGAACGTG-CTAG
*
24302752 AAGGTCTTGAAGATG
129 GAGGTCTTGAAGATG
*
24302767 TACCCGGAGGTTTTGAAGATATACCCGGAGGTTTTAGAAGAAAAAGTTATGCCTCATCTCAAAAT
1 TACTCGGAGGTTTTGAAGATATACCCGGAGGTTTTAGAAGAAAAAGTTATGCCTCATCTCAAAAT
* * * * *
24302832 GAAATTGCATAATTTTGAAGAAATCTTAAAACTAATTACCCGGAGGTTTTAGGAACGTGCCT-TG
66 GAAGTCGCGTAATTTTGAAGAAATCTTAAAACTAATTACCCGAAGGTTTTAGGAACGTG-CTAGG
24302896 AGGTCTTGAAGATG
130 AGGTCTTGAAGATG
* *
24302910 TACTCGAAGGTTTTGAAGATATACCCGGAGGTTTTAGAAGAAAAAGTTACGCCTCATCTCAAAAT
1 TACTCGGAGGTTTTGAAGATATACCCGGAGGTTTTAGAAGAAAAAGTTATGCCTCATCTCAAAAT
* * * * * **
24302975 GAAATTGTGTAATTTTGAAGAAATCATAAAACTAATTACTCGAAGG-TTTAGGAACGTGCCCGGA
66 GAAGTCGCGTAATTTTGAAGAAATCTTAAAACTAATTACCCGAAGGTTTTAGGAACGTGCTAGGA
24303039 GGTCTTGAAGATG
131 GGTCTTGAAGATG
* * *
24303052 TACCCAGAGGTTTTGAAGATATACTCGGAGGTTTTAGAAGAAAAAGTTATGCCTCATCTCAAAAT
1 TACTCGGAGGTTTTGAAGATATACCCGGAGGTTTTAGAAGAAAAAGTTATGCCTCATCTCAAAAT
* * *
24303117 GAAGTCGCGTAATTTTGAAGAAATCTAAAAACTAATTACCTGGAGGTTTTAGGAACGTGCTCA-G
66 GAAGTCGCGTAATTTTGAAGAAATCTTAAAACTAATTACCCGAAGGTTTTAGGAACGTGCT-AGG
*
24303181 AGGTCTTGAAGATA
130 AGGTCTTGAAGATG
* * * * * * * * *
24303195 TACCCGGAGGTTTTGAAGGTGTTCCCGAAAGATTT-GAAAGAAAAAGGTTGTTCCTCATCTCAAA
1 TACTCGGAGGTTTTGAAGATATACCCGGAGGTTTTAG-AAGAAAAA-GTTATGCCTCATCTCAAA
* * * * * * *
24303259 ATGAGGTCACGTAACTTTGAAGAAGTCTTAAAACTAAATACCTGGAGGTTTTAGGAA
64 ATGAAGTCGCGTAATTTTGAAGAAATCTTAAAACTAATTACCCGAAGGTTTTAGGAA
24303316 TGTACTCGAA
Statistics
Matches: 735, Mismatches: 91, Indels: 18
0.87 0.11 0.02
Matches are distributed among these distances:
141 1 0.00
142 128 0.17
143 521 0.71
144 85 0.12
ACGTcount: A:0.35, C:0.14, G:0.22, T:0.29
Consensus pattern (143 bp):
TACTCGGAGGTTTTGAAGATATACCCGGAGGTTTTAGAAGAAAAAGTTATGCCTCATCTCAAAAT
GAAGTCGCGTAATTTTGAAGAAATCTTAAAACTAATTACCCGAAGGTTTTAGGAACGTGCTAGGA
GGTCTTGAAGATG
Found at i:24302624 original size:21 final size:21
Alignment explanation
Indices: 24302600--24302664 Score: 67
Period size: 21 Copynumber: 3.0 Consensus size: 21
24302590 GGTTTTAGGA
* *
24302600 ATGTGCTCGGAGGTCTTGAAG
1 ATGTACTCGGAGATCTTGAAG
*
24302621 ATGTACTCGGAGATTTTGAAG
1 ATGTACTCGGAGATCTTGAAG
* * *
24302642 ATATACCCGGAGATTTTAGAAG
1 ATGTACTCGGAGATCTT-GAAG
24302664 A
1 A
24302665 AAAAGTTACG
Statistics
Matches: 38, Mismatches: 5, Indels: 1
0.86 0.11 0.02
Matches are distributed among these distances:
21 33 0.87
22 5 0.13
ACGTcount: A:0.29, C:0.12, G:0.29, T:0.29
Consensus pattern (21 bp):
ATGTACTCGGAGATCTTGAAG
Found at i:24302782 original size:21 final size:21
Alignment explanation
Indices: 24302753--24302807 Score: 83
Period size: 21 Copynumber: 2.6 Consensus size: 21
24302743 ACGTGCCTAA
* *
24302753 AGGTCTTGAAGATGTACCCGG
1 AGGTTTTGAAGATATACCCGG
24302774 AGGTTTTGAAGATATACCCGG
1 AGGTTTTGAAGATATACCCGG
24302795 AGGTTTTAGAAGA
1 AGGTTTT-GAAGA
24302808 AAAAGTTATG
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
21 26 0.84
22 5 0.16
ACGTcount: A:0.29, C:0.13, G:0.31, T:0.27
Consensus pattern (21 bp):
AGGTTTTGAAGATATACCCGG
Found at i:24302925 original size:21 final size:21
Alignment explanation
Indices: 24302896--24302950 Score: 65
Period size: 21 Copynumber: 2.6 Consensus size: 21
24302886 ACGTGCCTTG
* * *
24302896 AGGTCTTGAAGATGTACTCGA
1 AGGTTTTGAAGATATACCCGA
*
24302917 AGGTTTTGAAGATATACCCGG
1 AGGTTTTGAAGATATACCCGA
24302938 AGGTTTTAGAAGA
1 AGGTTTT-GAAGA
24302951 AAAAGTTACG
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
21 24 0.83
22 5 0.17
ACGTcount: A:0.31, C:0.11, G:0.29, T:0.29
Consensus pattern (21 bp):
AGGTTTTGAAGATATACCCGA
Found at i:24303067 original size:21 final size:21
Alignment explanation
Indices: 24303037--24303092 Score: 67
Period size: 21 Copynumber: 2.6 Consensus size: 21
24303027 AACGTGCCCG
* *
24303037 GAGGTCTTGAAGATGTACCCA
1 GAGGTTTTGAAGATATACCCA
* *
24303058 GAGGTTTTGAAGATATACTCG
1 GAGGTTTTGAAGATATACCCA
24303079 GAGGTTTTAGAAGA
1 GAGGTTTT-GAAGA
24303093 AAAAGTTATG
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
21 25 0.83
22 5 0.17
ACGTcount: A:0.30, C:0.11, G:0.30, T:0.29
Consensus pattern (21 bp):
GAGGTTTTGAAGATATACCCA
Found at i:24303253 original size:429 final size:429
Alignment explanation
Indices: 24302373--24303373 Score: 1413
Period size: 429 Copynumber: 2.3 Consensus size: 429
24302363 CGGAGGTTTT
* * *
24302373 AGAAGAAAAAGTTGTTCCTCATCTCAAAATGAGGCCACGTAATTTTGAAAAAATCTTAAAATTAA
1 AGAAGAAAAAGTTGTTCCTCATCTCAAAATGAGGTCACGTAATTTTGAAGAAATCTTAAAACTAA
* * * *
24302438 TTACCCGAAGCTTTTAGGAACGTGCTAGGAGGTCTTGAAGATGTACTTGGAGGTTTTGAAGATAT
66 TTACCCGGAGGTTTTAGGAACGTGCTAGGAGGTCTTGAAGATGTACTCGAAGGTTTTGAAGATAT
*
24302503 ACCCAGAGGTTTTACAAGAAACAGTTACGCCTCATCTCAAAATGAAATCGCGTAATTTTGAAGAA
131 ACCCAGAGGTTTTACAAGAAAAAGTTACGCCTCATCTCAAAATGAAATCGCGTAATTTTGAAGAA
* * * * *
24302568 ATCTTAAAACTAATTACTCGAAGGTTTTAGGAATGTGCTCGGAGGTCTTGAAGATGTACTCGGAG
196 ATCATAAAACTAATTACTCGAAGGTTTTAGGAACGTGCCCGGAGGTCTTGAAGATGTACCCAGAG
*
24302633 ATTTTGAAGATATACCCGGAGATTTTAGAAGAAAAAGTTACGCCTCATCTCAAAATGAAGTCTCG
261 ATTTTGAAGATATACCCGGAGATTTTAGAAGAAAAAGTTACGCCTCATCTCAAAATGAAGTCGCG
24302698 TAATTTTGAAAAAATCTAAAAACTAATTACCGAAAGGTTTTAGAAACGTGCCTAAAGGTCTTGAA
326 TAATTTTGAAAAAATCTAAAAACTAATTACCGAAAGGTTTTAGAAACGTGCCTAAAGGTCTTGAA
* * * *
24302763 GATGTACCCGGAGGTTTTGAAGATATACCCGGAGGTTTT
391 GATATACCCGGAGGTTTTGAAGATATACCCGAAGATTTG
* * ** ** *
24302802 AGAAGAAAAAGTTATGCCTCATCTCAAAATGAAATTGCATAATTTTGAAGAAATCTTAAAACTAA
1 AGAAGAAAAAGTTGTTCCTCATCTCAAAATGAGGTCACGTAATTTTGAAGAAATCTTAAAACTAA
*
24302867 TTACCCGGAGGTTTTAGGAACGTGCCT-TGAGGTCTTGAAGATGTACTCGAAGGTTTTGAAGATA
66 TTACCCGGAGGTTTTAGGAACGTG-CTAGGAGGTCTTGAAGATGTACTCGAAGGTTTTGAAGATA
* * * *
24302931 TACCCGGAGGTTTTAGAAGAAAAAGTTACGCCTCATCTCAAAATGAAATTGTGTAATTTTGAAGA
130 TACCCAGAGGTTTTACAAGAAAAAGTTACGCCTCATCTCAAAATGAAATCGCGTAATTTTGAAGA
24302996 AATCATAAAACTAATTACTCGAAGG-TTTAGGAACGTGCCCGGAGGTCTTGAAGATGTACCCAGA
195 AATCATAAAACTAATTACTCGAAGGTTTTAGGAACGTGCCCGGAGGTCTTGAAGATGTACCCAGA
* * * *
24303060 GGTTTTGAAGATATACTCGGAGGTTTTAGAAGAAAAAGTTATGCCTCATCTCAAAATGAAGTCGC
260 GATTTTGAAGATATACCCGGAGATTTTAGAAGAAAAAGTTACGCCTCATCTCAAAATGAAGTCGC
* * * *
24303125 GTAATTTTGAAGAAATCTAAAAACTAATTACCTG-GAGGTTTTAGGAACGTG-CTCAGAGGTCTT
325 GTAATTTTGAAAAAATCTAAAAACTAATTACC-GAAAGGTTTTAGAAACGTGCCT-AAAGGTCTT
* * *
24303188 GAAGATATACCCGGAGGTTTTGAAGGTGTTCCCGAAAGATTTG
388 GAAGATATACCCGGAGGTTTTGAAGATATACCCG-AAGATTTG
* *
24303231 A-AAGAAAAAGGTTGTTCCTCATCTCAAAATGAGGTCACGTAACTTTGAAGAAGTCTTAAAACTA
1 AGAAGAAAAA-GTTGTTCCTCATCTCAAAATGAGGTCACGTAATTTTGAAGAAATCTTAAAACTA
* * * * * * * *
24303295 AATACCTGGAGGTTTTAGGAATGTACTCGAAGGTTTTGCAGATGTA-TCTGAAGGTTTT-ATAGA
65 ATTACCCGGAGGTTTTAGGAACGTGCTAGGAGGTCTTGAAGATGTACTC-GAAGGTTTTGA-AGA
* *
24303358 TGTACCCAAAGGTTTT
128 TATACCCAGAGGTTTT
24303374 GAAAAAGCAC
Statistics
Matches: 503, Mismatches: 61, Indels: 16
0.87 0.11 0.03
Matches are distributed among these distances:
427 2 0.00
428 192 0.38
429 307 0.61
430 2 0.00
ACGTcount: A:0.35, C:0.14, G:0.22, T:0.29
Consensus pattern (429 bp):
AGAAGAAAAAGTTGTTCCTCATCTCAAAATGAGGTCACGTAATTTTGAAGAAATCTTAAAACTAA
TTACCCGGAGGTTTTAGGAACGTGCTAGGAGGTCTTGAAGATGTACTCGAAGGTTTTGAAGATAT
ACCCAGAGGTTTTACAAGAAAAAGTTACGCCTCATCTCAAAATGAAATCGCGTAATTTTGAAGAA
ATCATAAAACTAATTACTCGAAGGTTTTAGGAACGTGCCCGGAGGTCTTGAAGATGTACCCAGAG
ATTTTGAAGATATACCCGGAGATTTTAGAAGAAAAAGTTACGCCTCATCTCAAAATGAAGTCGCG
TAATTTTGAAAAAATCTAAAAACTAATTACCGAAAGGTTTTAGAAACGTGCCTAAAGGTCTTGAA
GATATACCCGGAGGTTTTGAAGATATACCCGAAGATTTG
Found at i:24303330 original size:21 final size:22
Alignment explanation
Indices: 24303304--24303361 Score: 61
Period size: 21 Copynumber: 2.8 Consensus size: 22
24303294 AAATACCTGG
*
24303304 AGGTTTTAGGA-ATGTA-CTCGA
1 AGGTTTTAGCAGATGTATCT-GA
24303325 AGGTTTT-GCAGATGTATCTGA
1 AGGTTTTAGCAGATGTATCTGA
*
24303346 AGGTTTTA-TAGATGTA
1 AGGTTTTAGCAGATGTA
24303362 CCCAAAGGTT
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
20 2 0.06
21 28 0.88
22 2 0.06
ACGTcount: A:0.28, C:0.07, G:0.28, T:0.38
Consensus pattern (22 bp):
AGGTTTTAGCAGATGTATCTGA
Found at i:24303496 original size:31 final size:30
Alignment explanation
Indices: 24303460--24303563 Score: 120
Period size: 31 Copynumber: 3.4 Consensus size: 30
24303450 GGGCCAAGAT
*
24303460 AATTGGGCTTAAACGTCTTGGATGCCAGCTA
1 AATTGGGCTTAAACATCTTGGATGCCAG-TA
* *
24303491 AATTGGGCTTAAACATCTTGG-GGCCAATA
1 AATTGGGCTTAAACATCTTGGATGCCAGTA
* * *
24303520 TGACTGGGCTTAAACATTTTGGATGCCAAGTA
1 -AATTGGGCTTAAACATCTTGGATGCC-AGTA
24303552 AATTGGGCTTAA
1 AATTGGGCTTAA
24303564 GACTCAAAAT
Statistics
Matches: 60, Mismatches: 10, Indels: 6
0.79 0.13 0.08
Matches are distributed among these distances:
29 2 0.03
30 22 0.37
31 33 0.55
32 3 0.05
ACGTcount: A:0.29, C:0.16, G:0.25, T:0.30
Consensus pattern (30 bp):
AATTGGGCTTAAACATCTTGGATGCCAGTA
Found at i:24303533 original size:61 final size:60
Alignment explanation
Indices: 24303446--24303563 Score: 166
Period size: 61 Copynumber: 1.9 Consensus size: 60
24303436 ATTTAAATTT
* *
24303446 TCTTGGGCCAAGATAATTGGGCTTAAACGTCTTGGATGCC-AGCTAAATTGGGCTTAAACA
1 TCTTGGGCCAAGATAACTGGGCTTAAACATCTTGGATGCCAAG-TAAATTGGGCTTAAACA
* * *
24303506 TCTTGGGGCCAATATGACTGGGCTTAAACATTTTGGATGCCAAGTAAATTGGGCTTAA
1 TCTT-GGGCCAAGATAACTGGGCTTAAACATCTTGGATGCCAAGTAAATTGGGCTTAA
24303564 GACTCAAAAT
Statistics
Matches: 51, Mismatches: 5, Indels: 3
0.86 0.08 0.05
Matches are distributed among these distances:
60 4 0.08
61 45 0.88
62 2 0.04
ACGTcount: A:0.28, C:0.17, G:0.25, T:0.30
Consensus pattern (60 bp):
TCTTGGGCCAAGATAACTGGGCTTAAACATCTTGGATGCCAAGTAAATTGGGCTTAAACA
Found at i:24310607 original size:17 final size:17
Alignment explanation
Indices: 24310581--24310615 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
24310571 TTGAGCCTCC
24310581 TTTCTACTTTTTCACTT
1 TTTCTACTTTTTCACTT
* *
24310598 TTTCTTCTTTTTCTCTT
1 TTTCTACTTTTTCACTT
24310615 T
1 T
24310616 AATGGCCAGC
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:0.06, C:0.23, G:0.00, T:0.71
Consensus pattern (17 bp):
TTTCTACTTTTTCACTT
Found at i:24311354 original size:15 final size:16
Alignment explanation
Indices: 24311336--24311365 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
24311326 TTCATTATTT
24311336 TATTTTA-TATTTTTA
1 TATTTTATTATTTTTA
24311351 TATTTTATTATTTTT
1 TATTTTATTATTTTT
24311366 TTTAATTTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (16 bp):
TATTTTATTATTTTTA
Found at i:24311373 original size:18 final size:20
Alignment explanation
Indices: 24311331--24311379 Score: 61
Period size: 20 Copynumber: 2.6 Consensus size: 20
24311321 TTTTTTTCAT
24311331 TATTTTATTTTATATTTTTA
1 TATTTTATTTTATATTTTTA
24311351 TATTTTATTATT-T-TTTTTA
1 TATTTTATT-TTATATTTTTA
24311370 -ATTTT-TTTTA
1 TATTTTATTTTA
24311380 AAATGGGTGT
Statistics
Matches: 27, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
16 2 0.07
17 2 0.07
18 5 0.19
19 6 0.22
20 10 0.37
21 2 0.07
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (20 bp):
TATTTTATTTTATATTTTTA
Found at i:24312110 original size:81 final size:81
Alignment explanation
Indices: 24311975--24312157 Score: 348
Period size: 81 Copynumber: 2.3 Consensus size: 81
24311965 AGTCAAACTT
* *
24311975 AATCTATTGATACATTCTCAATTGTATTGATAGAATTAAGATAGAATACTTACTGAATTAAAAGT
1 AATCTATCGATACATTTTCAATTGTATTGATAGAATTAAGATAGAATACTTACTGAATTAAAAGT
24312040 ATCGTTACATTTTTCA
66 ATCGTTACATTTTTCA
24312056 AATCTATCGATACATTTTCAATTGTATTGATAGAATTAAGATAGAATACTTACTGAATTAAAAGT
1 AATCTATCGATACATTTTCAATTGTATTGATAGAATTAAGATAGAATACTTACTGAATTAAAAGT
24312121 ATCGTTACATTTTTCA
66 ATCGTTACATTTTTCA
24312137 AATCTATCGATACATTTTCAA
1 AATCTATCGATACATTTTCAA
24312158 CATAAGTGCT
Statistics
Matches: 100, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
81 100 1.00
ACGTcount: A:0.38, C:0.12, G:0.10, T:0.39
Consensus pattern (81 bp):
AATCTATCGATACATTTTCAATTGTATTGATAGAATTAAGATAGAATACTTACTGAATTAAAAGT
ATCGTTACATTTTTCA
Found at i:24329423 original size:252 final size:253
Alignment explanation
Indices: 24328573--24329883 Score: 1259
Period size: 252 Copynumber: 5.3 Consensus size: 253
24328563 TAATAATAAT
* ** * *
24328573 TCAATTCTTAAAATTTTACATCAAGGCTTTTTAATGGCAACTTTTAACAATAATTATTTTTATCC
1 TCAATTCTTACAGCTTTACGTCAAGGCTTTTCAATGGCAACTTTTAACAATAATTATTTTTATCC
* * * **
24328638 TTATTATTATTTAGTTTT-AAATTAAAAATTGTAAATCGTTAAATACTTTTTGCTTG-AGAGGAT
66 TTATTATTATTTA-TTTTAAAATTAAAATTTGTAAATCGTTAAATACTTTTAGCTCGAAGAATAT
* * *
24328701 AAATTCAAATGTTTATTTTTCATTAAAGTTAGATTTTTATGATTTAATTGACCTGTTACGTTAAC
130 AAATTTAAATGTTTATTTTTCATTAAAATTAGATTTTTATGACTTAATTGACCTGTTACGTTAAC
** * * * * *
24328766 TCTTGCATATTTATGTTAAGATTTTAAATGTGCTTGTTTCACCTTTATAAGTATTTACG
195 TCTCACACATTTATGTTAAGATTTTAAATATACTTGTTTCACCTTTATAAATTTTTACG
** ** * *
24328825 TCAATTCTTACAATTTTACGTCAAGGCTTTTCAATAACAAC-TTTAACAATAATGACTTTTATCC
1 TCAATTCTTACAGCTTTACGTCAAGGCTTTTCAATGGCAACTTTTAACAATAATTATTTTTATCC
* * *
24328889 TTATTATTAATTATTTTAAAATTAAATTTTGTAAATCGTTAAATATTTTTAGCTC-AAGAATATA
66 TTATTATTATTTATTTTAAAATTAAAATTTGTAAATCGTTAAATACTTTTAGCTCGAAGAATATA
* *
24328953 AATTTAAATGTTTGTTTTTCATTAAAATTAGATTTTTATGAC-TAA---ACCTGTTATGTTAACT
131 AATTTAAATGTTTATTTTTCATTAAAATTAGATTTTTATGACTTAATTGACCTGTTACGTTAACT
* * * * * * * *
24329014 CTCATACATTCACGTTAAGA-TTTAAATATGCTTGTTTCACCTTTGTGAGTTTTTACA
196 CTCACACATTTATGTTAAGATTTTAAATATACTTGTTTCACCTTTATAAATTTTTACG
* * * *
24329071 TCAATTTTTACAGCTTTACGTCAAGGCTTTTCAATGTCAACTTTTAACTATAATTTTTTTTATCC
1 TCAATTCTTACAGCTTTACGTCAAGGCTTTTCAATGGCAACTTTTAACAATAATTATTTTTATCC
* * * * *
24329136 TTATCATTATTTATTTTAAAATTAAAATCTGTAAATCATTAAATACTTTTAG-TCGAAAAAAATA
66 TTATTATTATTTATTTTAAAATTAAAATTTGTAAATCGTTAAATACTTTTAGCTCGAAGAATATA
* * *
24329200 AATTTAAATGTTTGTTTTTCATTAAAATTAGATTTTTGTGACTTAATTGACTTGTTACGTTAACT
131 AATTTAAATGTTTATTTTTCATTAAAATTAGATTTTTATGACTTAATTGACCTGTTACGTTAACT
*
24329265 CTCACATATTTACT-TTAAGATTTTAAATATACTTG-TTCTACCCTTT-TAAATTTTTACG
196 CTCACACATTTA-TGTTAAGATTTTAAATATACTTGTTTC-A-CCTTTATAAATTTTTACG
* * * * *
24329323 TCAATTCTTATAGCCTAATGTTAAGGCTTTTCAATGGCAACTTTTAACAATAATTATTTTTATCC
1 TCAATTCTTACAGCTTTACGTCAAGGCTTTTCAATGGCAACTTTTAACAATAATTATTTTTATCC
* * * * * *
24329388 TTGTTATTATTTATTTTTAAATTCAAATTTGTAAATTGCTAAATACTTTTAGC-CCAAGAATATA
66 TTATTATTATTTATTTTAAAATTAAAATTTGTAAATCGTTAAATACTTTTAGCTCGAAGAATATA
* * * * *
24329452 AATTTAAATATTTATTTTTCATTAAAATTAGAGTTTTGTGACTTAATTGACCTATTATGTTAACT
131 AATTTAAATGTTTATTTTTCATTAAAATTAGATTTTTATGACTTAATTGACCTGTTACGTTAACT
* * * * * *
24329517 CTCATACATTTATGTTAAGATTTTAAATATACTTATTCCACCCTTATGAATTTTTATG
196 CTCACACATTTATGTTAAGATTTTAAATATACTTGTTTCACCTTTATAAATTTTTACG
* * * ** **
24329575 TCAAAGTT-TTTCA-----ATGACAA--C-TTT-AA---CAA-TATTT----ATTTTTATCCTTA
1 TC-AA-TTCTTACAGCTTTACGTCAAGGCTTTTCAATGGCAACT-TTTAACAATAATTATTTTTA
** *
24329622 TTATTA-T-TTA--T-TTTT-AAATTAAAATTTGTAAATCGTTAAATACTTTTGGCTC-AAGAAT
63 TCCTTATTATTATTTATTTTAAAATTAAAATTTGTAAATCGTTAAATACTTTTAGCTCGAAG-A-
* * * *
24329680 ATATAAATTTAAATGTTGT-TTTCCTCA--AAAATTAGATTTTTTTTGTATTTAATTGACATGTT
126 ATATAAATTTAAATGTT-TATTT-TTCATTAAAATTAGA-TTTTTATG-ACTTAATTGACCTGTT
* * * ** * * *
24329742 ACGTTAACTCTCACATATTTATGTTAGGATTTTAAATTTACTCATTTTATCTTTATAAATGTTTA
187 ACGTTAACTCTCACACATTTATGTTAAGATTTTAAATATACTTGTTTCACCTTTATAAATTTTTA
*
24329807 TG
252 CG
* * ** * * * *
24329809 TCAATTCCTACAGTTTTACGTCAAGTTTTTTTAATAGTAACTTTTAACAATAATTA-TTTTATCT
1 TCAATTCTTACAGCTTTACGTCAAGGCTTTTCAATGGCAACTTTTAACAATAATTATTTTTATCC
24329873 TTATTATTATT
66 TTATTATTATT
24329884 ACTTATTAGA
Statistics
Matches: 873, Mismatches: 138, Indels: 96
0.79 0.12 0.09
Matches are distributed among these distances:
231 34 0.04
232 17 0.02
233 31 0.04
234 74 0.08
235 3 0.00
236 1 0.00
237 12 0.01
238 5 0.01
240 1 0.00
241 9 0.01
242 2 0.00
244 2 0.00
245 8 0.01
246 72 0.08
247 142 0.16
248 15 0.02
249 6 0.01
250 10 0.01
251 146 0.17
252 269 0.31
253 12 0.01
254 2 0.00
ACGTcount: A:0.33, C:0.12, G:0.08, T:0.47
Consensus pattern (253 bp):
TCAATTCTTACAGCTTTACGTCAAGGCTTTTCAATGGCAACTTTTAACAATAATTATTTTTATCC
TTATTATTATTTATTTTAAAATTAAAATTTGTAAATCGTTAAATACTTTTAGCTCGAAGAATATA
AATTTAAATGTTTATTTTTCATTAAAATTAGATTTTTATGACTTAATTGACCTGTTACGTTAACT
CTCACACATTTATGTTAAGATTTTAAATATACTTGTTTCACCTTTATAAATTTTTACG
Found at i:24335387 original size:20 final size:20
Alignment explanation
Indices: 24335362--24335404 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 20
24335352 ATTAGGTTAC
24335362 TTTTATGTTAGTT-ATTTTAA
1 TTTTATGTTA-TTCATTTTAA
*
24335382 TTTTATGTTATTCCTTTTAA
1 TTTTATGTTATTCATTTTAA
24335402 TTT
1 TTT
24335405 GGTTATTATT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 2 0.10
20 19 0.90
ACGTcount: A:0.21, C:0.05, G:0.07, T:0.67
Consensus pattern (20 bp):
TTTTATGTTATTCATTTTAA
Found at i:24358707 original size:9 final size:9
Alignment explanation
Indices: 24358693--24358727 Score: 52
Period size: 9 Copynumber: 3.8 Consensus size: 9
24358683 ATTGGTTTGA
24358693 AAAAAAATC
1 AAAAAAATC
*
24358702 AAAAAAATA
1 AAAAAAATC
24358711 AAAAAAATTC
1 AAAAAAA-TC
24358721 AAAAAAA
1 AAAAAAA
24358728 AAATCAGCGT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
9 15 0.65
10 8 0.35
ACGTcount: A:0.83, C:0.06, G:0.00, T:0.11
Consensus pattern (9 bp):
AAAAAAATC
Found at i:24359137 original size:27 final size:30
Alignment explanation
Indices: 24359092--24359156 Score: 75
Period size: 27 Copynumber: 2.3 Consensus size: 30
24359082 CAATTTTCAA
*
24359092 TTATAATTTACTTA-TTTTTAGTT-GTT-T
1 TTATAATTTACTTACTTTTAAGTTAGTTAT
**
24359119 TTATAATTTGGTTACTTTTAAGTTAGTTAT
1 TTATAATTTACTTACTTTTAAGTTAGTTAT
24359149 TT-TAATTT
1 TTATAATTT
24359157 TATGTTATTC
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
27 12 0.38
28 8 0.25
29 9 0.28
30 3 0.09
ACGTcount: A:0.25, C:0.03, G:0.09, T:0.63
Consensus pattern (30 bp):
TTATAATTTACTTACTTTTAAGTTAGTTAT
Found at i:24359163 original size:20 final size:20
Alignment explanation
Indices: 24359134--24359176 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
24359124 ATTTGGTTAC
24359134 TTTTAAGTTAGTT-ATTTTAA
1 TTTTAAGTTA-TTCATTTTAA
* *
24359154 TTTTATGTTATTCTTTTTAA
1 TTTTAAGTTATTCATTTTAA
24359174 TTT
1 TTT
24359177 GGTTATTATT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 2 0.10
20 18 0.90
ACGTcount: A:0.23, C:0.02, G:0.07, T:0.67
Consensus pattern (20 bp):
TTTTAAGTTATTCATTTTAA
Found at i:24363491 original size:2 final size:2
Alignment explanation
Indices: 24363484--24363524 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
24363474 NNNNNNNNNN
24363484 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
24363525 CTGAATTTTT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:24363934 original size:4 final size:5
Alignment explanation
Indices: 24363903--24363936 Score: 52
Period size: 5 Copynumber: 6.8 Consensus size: 5
24363893 AGCCCACTTA
24363903 TTTTC TATTTC TTTTC TTTTC TTTTC -TTTC TTTT
1 TTTTC T-TTTC TTTTC TTTTC TTTTC TTTTC TTTT
24363937 TCTCTCTTCC
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
4 4 0.15
5 18 0.67
6 5 0.19
ACGTcount: A:0.03, C:0.18, G:0.00, T:0.79
Consensus pattern (5 bp):
TTTTC
Found at i:24363939 original size:15 final size:16
Alignment explanation
Indices: 24363903--24363936 Score: 54
Period size: 14 Copynumber: 2.2 Consensus size: 16
24363893 AGCCCACTTA
24363903 TTTTCTATTTCTTTTC
1 TTTTCTATTTCTTTTC
24363919 TTTTCT-TTTC-TTTC
1 TTTTCTATTTCTTTTC
24363933 TTTT
1 TTTT
24363937 TCTCTCTTCC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 8 0.44
15 4 0.22
16 6 0.33
ACGTcount: A:0.03, C:0.18, G:0.00, T:0.79
Consensus pattern (16 bp):
TTTTCTATTTCTTTTC
Found at i:24364208 original size:34 final size:34
Alignment explanation
Indices: 24364170--24364248 Score: 86
Period size: 35 Copynumber: 2.3 Consensus size: 34
24364160 CACAAAGCTA
24364170 TCCAATTTTCCTGCACAAACTACCAGCAAATAGC
1 TCCAATTTTCCTGCACAAACTACCAGCAAATAGC
** * ** *
24364204 TCCAATTTTTTTTGCACAAATTGGCATCAAATAGC
1 TCCAA-TTTTCCTGCACAAACTACCAGCAAATAGC
*
24364239 TCAAATTTTC
1 TCCAATTTTC
24364249 AGCAGCCAAA
Statistics
Matches: 36, Mismatches: 8, Indels: 2
0.78 0.17 0.04
Matches are distributed among these distances:
34 9 0.25
35 27 0.75
ACGTcount: A:0.33, C:0.25, G:0.09, T:0.33
Consensus pattern (34 bp):
TCCAATTTTCCTGCACAAACTACCAGCAAATAGC
Found at i:24364350 original size:23 final size:22
Alignment explanation
Indices: 24364277--24364351 Score: 62
Period size: 22 Copynumber: 3.2 Consensus size: 22
24364267 TCAATGGCAG
24364277 CAAAAACCTCCAAAAATTTCTAGCAA
1 CAAAAACCT-C-AAAA-TT-TAGCAA
*
24364303 C-ATAACCTCAAAATTTAGCAA
1 CAAAAACCTCAAAATTTAGCAA
* * *
24364324 CAAAAACCTTAAATTTTCAGCAC
1 CAAAAACCTCAAAATTT-AGCAA
24364347 CAAAA
1 CAAAA
24364352 TCCCTCCAAA
Statistics
Matches: 42, Mismatches: 5, Indels: 7
0.78 0.09 0.13
Matches are distributed among these distances:
21 7 0.17
22 14 0.33
23 13 0.31
24 1 0.02
25 6 0.14
26 1 0.02
ACGTcount: A:0.49, C:0.25, G:0.04, T:0.21
Consensus pattern (22 bp):
CAAAAACCTCAAAATTTAGCAA
Found at i:24364660 original size:21 final size:20
Alignment explanation
Indices: 24364636--24364703 Score: 57
Period size: 21 Copynumber: 3.2 Consensus size: 20
24364626 ATTTTTACAT
24364636 TCTTCTCTTTTGTTTTTTTTG
1 TCTT-TCTTTTGTTTTTTTTG
* *
24364657 TCTTTTTTTTTGTTTTTCTT-
1 TC-TTTCTTTTGTTTTTTTTG
*
24364677 CCTTTCTTTTGCTTTTACTTTTG
1 TCTTTCTTTTG-TTTT--TTTTG
24364700 TCTT
1 TCTT
24364704 GCTTGTTTTT
Statistics
Matches: 36, Mismatches: 6, Indels: 8
0.72 0.12 0.16
Matches are distributed among these distances:
19 8 0.22
20 5 0.14
21 15 0.42
22 5 0.14
23 3 0.08
ACGTcount: A:0.01, C:0.16, G:0.07, T:0.75
Consensus pattern (20 bp):
TCTTTCTTTTGTTTTTTTTG
Found at i:24364686 original size:19 final size:21
Alignment explanation
Indices: 24364641--24364692 Score: 54
Period size: 19 Copynumber: 2.6 Consensus size: 21
24364631 TACATTCTTC
* * *
24364641 TCTTTTGTTTTTTTTGTCTTT
1 TCTTTTGCTTTTTCTGTCCTT
*
24364662 TTTTTTG-TTTTTCT-TCCTT
1 TCTTTTGCTTTTTCTGTCCTT
24364681 TCTTTTGCTTTT
1 TCTTTTGCTTTT
24364693 ACTTTTGTCT
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
19 10 0.38
20 10 0.38
21 6 0.23
ACGTcount: A:0.00, C:0.13, G:0.08, T:0.79
Consensus pattern (21 bp):
TCTTTTGCTTTTTCTGTCCTT
Found at i:24366239 original size:38 final size:39
Alignment explanation
Indices: 24366153--24366255 Score: 147
Period size: 38 Copynumber: 2.6 Consensus size: 39
24366143 ACCCGGCTCA
*
24366153 TGTACATCCCCCCACATCGTGCACATAGCCGGCACCATCG
1 TGTACATCCCCCCACATCGTGCACATAGCAGG-ACCATCG
* *
24366193 TGTGCATCCCCCCACATCGTGCACA-ATCAGTG-CCATCG
1 TGTACATCCCCCCACATCGTGCACATAGCAG-GACCATCG
24366231 TGTACATCCCCCCACATCGTGCACA
1 TGTACATCCCCCCACATCGTGCACA
24366256 CGAGCACTAT
Statistics
Matches: 58, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
38 30 0.52
39 3 0.05
40 25 0.43
ACGTcount: A:0.22, C:0.42, G:0.17, T:0.19
Consensus pattern (39 bp):
TGTACATCCCCCCACATCGTGCACATAGCAGGACCATCG
Found at i:24366248 original size:19 final size:19
Alignment explanation
Indices: 24366153--24366251 Score: 74
Period size: 19 Copynumber: 5.1 Consensus size: 19
24366143 ACCCGGCTCA
24366153 TGTACATCCCCCCACATCG
1 TGTACATCCCCCCACATCG
* * **
24366172 TGCACATAGCCGGCACCATCG
1 TGTACAT-CCCCCCA-CATCG
*
24366193 TGTGCATCCCCCCACATCG
1 TGTACATCCCCCCACATCG
* ****
24366212 TGCACAATCAGTGC-CATCG
1 TGTAC-ATCCCCCCACATCG
24366231 TGTACATCCCCCCACATCG
1 TGTACATCCCCCCACATCG
24366250 TG
1 TG
24366252 CACACGAGCA
Statistics
Matches: 56, Mismatches: 20, Indels: 8
0.67 0.24 0.10
Matches are distributed among these distances:
18 4 0.07
19 30 0.54
20 12 0.21
21 10 0.18
ACGTcount: A:0.21, C:0.41, G:0.17, T:0.20
Consensus pattern (19 bp):
TGTACATCCCCCCACATCG
Found at i:24380136 original size:31 final size:28
Alignment explanation
Indices: 24380101--24380158 Score: 80
Period size: 31 Copynumber: 2.0 Consensus size: 28
24380091 TCTCTTTTCT
*
24380101 TTTCTTTTTCTTTCTTTTTCTCTCTTCCAGG
1 TTTCTTCTTCTTT-TTTTT-TCT-TTCCAGG
24380132 TTTCTTCTTCTTTTTTTTTCTTTCCAG
1 TTTCTTCTTCTTTTTTTTTCTTTCCAG
24380159 CCTGTCACTC
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
28 6 0.23
29 3 0.12
30 5 0.19
31 12 0.46
ACGTcount: A:0.03, C:0.24, G:0.05, T:0.67
Consensus pattern (28 bp):
TTTCTTCTTCTTTTTTTTTCTTTCCAGG
Found at i:24380201 original size:22 final size:22
Alignment explanation
Indices: 24380170--24380217 Score: 78
Period size: 22 Copynumber: 2.2 Consensus size: 22
24380160 CTGTCACTCC
*
24380170 CTTCACCACCGTGGCTTGCTCT
1 CTTCACCACCGTGGCTTCCTCT
*
24380192 CTTCATCACCGTGGCTTCCTCT
1 CTTCACCACCGTGGCTTCCTCT
24380214 CTTC
1 CTTC
24380218 CTTTCCTCTA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.08, C:0.42, G:0.15, T:0.35
Consensus pattern (22 bp):
CTTCACCACCGTGGCTTCCTCT
Found at i:24380413 original size:34 final size:34
Alignment explanation
Indices: 24380352--24380429 Score: 93
Period size: 34 Copynumber: 2.3 Consensus size: 34
24380342 CACAAAACTA
* *
24380352 TCCAATTTTCCTGCACAAACTACCAGCAAATAGC
1 TCCAATTTTTCTGCACAAACTACCAGCAAACAGC
* ** *
24380386 TCCAATTTTTCTGCACAAATTGGCAGCAAACAGG
1 TCCAATTTTTCTGCACAAACTACCAGCAAACAGC
*
24380420 TCAAATTTTT
1 TCCAATTTTT
24380430 GGTAGCCAAA
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
34 37 1.00
ACGTcount: A:0.33, C:0.26, G:0.12, T:0.29
Consensus pattern (34 bp):
TCCAATTTTTCTGCACAAACTACCAGCAAACAGC
Found at i:24388205 original size:12 final size:14
Alignment explanation
Indices: 24388178--24388209 Score: 50
Period size: 12 Copynumber: 2.4 Consensus size: 14
24388168 ATGTTGAAAA
24388178 AAAAATTGTGGTTG
1 AAAAATTGTGGTTG
24388192 AAAAATT-T-GTTG
1 AAAAATTGTGGTTG
24388204 AAAAAT
1 AAAAAT
24388210 CAAAAACAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 10 0.56
13 1 0.06
14 7 0.39
ACGTcount: A:0.47, C:0.00, G:0.19, T:0.34
Consensus pattern (14 bp):
AAAAATTGTGGTTG
Found at i:24389449 original size:11 final size:12
Alignment explanation
Indices: 24389429--24389457 Score: 51
Period size: 11 Copynumber: 2.5 Consensus size: 12
24389419 TTGGAAAATA
24389429 CCAACGAAATTG
1 CCAACGAAATTG
24389441 CCAAC-AAATTG
1 CCAACGAAATTG
24389452 CCAACG
1 CCAACG
24389458 GATCCTGCTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
11 11 0.69
12 5 0.31
ACGTcount: A:0.41, C:0.31, G:0.14, T:0.14
Consensus pattern (12 bp):
CCAACGAAATTG
Found at i:24389843 original size:25 final size:25
Alignment explanation
Indices: 24389785--24389846 Score: 81
Period size: 25 Copynumber: 2.5 Consensus size: 25
24389775 ATTGAAAATG
*
24389785 TAATACAAATGTAAACATATGATAA
1 TAATACAAATGTAAACATATAATAA
* *
24389810 TAATCCAAATGTAAACATCTAAT-A
1 TAATACAAATGTAAACATATAATAA
24389834 TAAATACAAATGT
1 T-AATACAAATGT
24389847 CACTGAGGGG
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
24 2 0.06
25 30 0.94
ACGTcount: A:0.53, C:0.11, G:0.06, T:0.29
Consensus pattern (25 bp):
TAATACAAATGTAAACATATAATAA
Found at i:24395137 original size:390 final size:393
Alignment explanation
Indices: 24394371--24395212 Score: 1216
Period size: 390 Copynumber: 2.1 Consensus size: 393
24394361 TACTAGAATT
*
24394371 ATTTAATTGCTTAACTACTAAAACTTTTTTTGATTTGATTCA-TTAAATTATTTAACTAATTTAA
1 ATTT-ATTGCTTAACTACTAAAAC-TTTTTTCATTTGATT-AGTTAAATTATTTAACTAATTTAA
* * *
24394435 TAAAACCTTAATTAATGTAAATACTTTTAAATTTTACTAAAGTTTACTAATACATTTTGAATTGA
63 TAAAACCTTAATTAATGCAAATACTTTTAAAGTTTACTAAAGTTTACTAATAAATTTTGAATTGA
*
24394500 TTAATTACTATCATTTGATTTGTTAAATTACTAACTTTATTAATTGATTAATTACTAATACATGA
128 TTAATTACTATAATTTGATTTGTTAAATTACTAACTTTATTAATTGATTAATTACT-ATACA--A
24394565 TTTTTTGAAATTAGTTAAATTTTGTAATTAATTCCCTAAACCCCTTAATTAATTTAAATAAAAAT
190 -----TGAAATTAGTTAAATTTTGTAATTAATTCCCTAAACCCCTTAATTAATTTAAATAAAAAT
* *
24394630 TAATATTATATAATATTACTAATTTAATTAATTCTTTAATAACTTACAGCACCTTAACACTTAAT
250 TAATATTATATAATATTACTAATTTAATTAATTCCTTAATAACTTACAACACCTTAACACTTAAT
* * * *
24394695 TAACTAAATTATTTAATTCCCTTACTAAACACCTTTATTTATTTAAATATTTTTAAAATTAAATA
315 TAACTAAATTATTTAATTACCTCAATAAACACCTTAATTTATTTAAATATTTTTAAAATTAAATA
* **
24394760 ATATTATTGGTTTA
380 ATATTACTAATTTA
* * *
24394774 GTTTATTGCTTAACTACTAAAACATTTTTTCAATTGATTAGTTAAATTATTTCACTAATTTAATA
1 ATTTATTGCTTAACTACTAAAAC-TTTTTTCATTTGATTAGTTAAATTATTTAACTAATTTAATA
* * *
24394839 AAGCCTTAATTAATGCAAGTGCTTTTAAAGTTTACTAAA-TTTACTAATAAATTTTGAATTGATT
65 AAACCTTAATTAATGCAAATACTTTTAAAGTTTACTAAAGTTTACTAATAAATTTTGAATTGATT
* *
24394903 AATTATTGTAATTTGATTTGTTAAATTACTAA-TTTAATTAATTGATTAATTACT-T-C-A-G-A
130 AATTACTATAATTTGATTTGTTAAATTACTAACTTT-ATTAATTGATTAATTACTATACAATGAA
*
24394962 ATTAGTTAAATTTTGTAATTAATTCCCTAAACCCCTTAATTAATTTAAATAAAAAAATTACTATT
194 ATTAGTTAAATTTTGTAATTAATTCCCTAAACCCCTTAATTAATTTAAAT--AAAAATTAATATT
* * * *
24395027 ATATAATATTACTAATTTAATTAATTCCTTAATTACTTATAACAACC-TAGCACTTCATTAACTA
257 ATATAATATTACTAATTTAATTAATTCCTTAATAACTTACAAC-ACCTTAACACTTAATTAACTA
*
24395091 AATTATTTAATTACCTCAATAAACACCTTAATTTATTTACATATTTTTAAAATTAAATAATATTA
321 AATTATTTAATTACCTCAATAAACACCTTAATTTATTTAAATATTTTTAAAATTAAATAATATTA
24395156 CTAATTTA
386 CTAATTTA
24395164 ATTTATTGCTTAACTACTAAAACTTTTTATCATTTGATTAGTTAAATTA
1 ATTTATTGCTTAACTACTAAAACTTTTT-TCATTTGATTAGTTAAATTA
24395213 CAAATTTAAT
Statistics
Matches: 402, Mismatches: 31, Indels: 25
0.88 0.07 0.05
Matches are distributed among these distances:
388 51 0.13
389 6 0.01
390 172 0.43
391 3 0.01
395 1 0.00
398 1 0.00
399 1 0.00
400 3 0.01
401 72 0.18
402 89 0.22
403 3 0.01
ACGTcount: A:0.39, C:0.11, G:0.05, T:0.45
Consensus pattern (393 bp):
ATTTATTGCTTAACTACTAAAACTTTTTTCATTTGATTAGTTAAATTATTTAACTAATTTAATAA
AACCTTAATTAATGCAAATACTTTTAAAGTTTACTAAAGTTTACTAATAAATTTTGAATTGATTA
ATTACTATAATTTGATTTGTTAAATTACTAACTTTATTAATTGATTAATTACTATACAATGAAAT
TAGTTAAATTTTGTAATTAATTCCCTAAACCCCTTAATTAATTTAAATAAAAATTAATATTATAT
AATATTACTAATTTAATTAATTCCTTAATAACTTACAACACCTTAACACTTAATTAACTAAATTA
TTTAATTACCTCAATAAACACCTTAATTTATTTAAATATTTTTAAAATTAAATAATATTACTAAT
TTA
Found at i:24395381 original size:92 final size:90
Alignment explanation
Indices: 24395274--24395459 Score: 345
Period size: 92 Copynumber: 2.0 Consensus size: 90
24395264 AAAATTTGTA
*
24395274 ATTATAACTCTAACTCTTAATTAATTTAAACAAAAAATTAATGTTATATAATATTACTCATTTAC
1 ATTAAAACTCTAACTCTTAATTAATTTAAACAAAAAATTAATGTTATATAATATTACTCATTTAC
24395339 CTTATTGCTTAATTACTTACATTAAC
66 CTTATTGCTTAATTACTTACATT-AC
24395365 ATTAAANACTCTAACTCTTAATTAATTTAAACAAAAAATTAATGTTATATAATATTACTCATTTA
1 ATTAAA-ACTCTAACTCTTAATTAATTTAAACAAAAAATTAATGTTATATAATATTACTCATTTA
24395430 CCTTATTGCTTAATTACTTACATTAC
65 CCTTATTGCTTAATTACTTACATTAC
24395456 ATTA
1 ATTA
24395460 CTTAATTAAC
Statistics
Matches: 93, Mismatches: 1, Indels: 2
0.97 0.01 0.02
Matches are distributed among these distances:
91 11 0.12
92 82 0.88
ACGTcount: A:0.41, C:0.14, G:0.02, T:0.42
Consensus pattern (90 bp):
ATTAAAACTCTAACTCTTAATTAATTTAAACAAAAAATTAATGTTATATAATATTACTCATTTAC
CTTATTGCTTAATTACTTACATTAC
Found at i:24400034 original size:20 final size:20
Alignment explanation
Indices: 24400017--24400054 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
24400007 CCTCAAATCT
24400017 TACTCAAATAAGTCAAATTA
1 TACTCAAATAAGTCAAATTA
*
24400037 TACTCCAATAAGTCAAAT
1 TACTCAAATAAGTCAAAT
24400055 GGGGCCAAAA
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:0.47, C:0.18, G:0.05, T:0.29
Consensus pattern (20 bp):
TACTCAAATAAGTCAAATTA
Found at i:24410338 original size:19 final size:20
Alignment explanation
Indices: 24410301--24410338 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
24410291 GAAGAAGACC
24410301 AGCTGCTGGAAATTTCAAGA
1 AGCTGCTGGAAATTTCAAGA
24410321 AGCTGCTGGAAA-TTCAAG
1 AGCTGCTGGAAATTTCAAG
24410339 GTATTTATAG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 6 0.33
20 12 0.67
ACGTcount: A:0.34, C:0.16, G:0.26, T:0.24
Consensus pattern (20 bp):
AGCTGCTGGAAATTTCAAGA
Found at i:24411963 original size:32 final size:34
Alignment explanation
Indices: 24411894--24411965 Score: 87
Period size: 32 Copynumber: 2.1 Consensus size: 34
24411884 ATACCAAAAT
24411894 CAAAATCCAAAATCAACTATATCAATTCCAAAGTC
1 CAAAATCCAAAATCAAC-ATATCAATTCCAAAGTC
* *
24411929 CAAAATTCAAAA-CAA-ATATCAAGTTCC-AATTC
1 CAAAATCCAAAATCAACATATCAA-TTCCAAAGTC
24411961 CAAAA
1 CAAAA
24411966 CGTTAAATAT
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
32 16 0.47
33 4 0.12
34 3 0.09
35 11 0.32
ACGTcount: A:0.51, C:0.24, G:0.03, T:0.22
Consensus pattern (34 bp):
CAAAATCCAAAATCAACATATCAATTCCAAAGTC
Found at i:24416199 original size:2 final size:2
Alignment explanation
Indices: 24416192--24416220 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
24416182 CACTATGTTG
24416192 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
24416221 CGNTGAACTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:24416234 original size:52 final size:51
Alignment explanation
Indices: 24416172--24416272 Score: 193
Period size: 52 Copynumber: 2.0 Consensus size: 51
24416162 TATGGATGGT
24416172 TGAACTACTACACTATGTTGATATATATATATATATATATATATATATACG
1 TGAACTACTACACTATGTTGATATATATATATATATATATATATATATACG
24416223 NTGAACTACTACACTATGTTGATATATATATATATATATATATATATATA
1 -TGAACTACTACACTATGTTGATATATATATATATATATATATATATATA
24416273 TACGAATAAT
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
52 49 1.00
ACGTcount: A:0.42, C:0.09, G:0.07, T:0.42
Consensus pattern (51 bp):
TGAACTACTACACTATGTTGATATATATATATATATATATATATATATACG
Found at i:24416251 original size:2 final size:2
Alignment explanation
Indices: 24416244--24416274 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
24416234 CACTATGTTG
24416244 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
24416275 CGAATAATGT
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:24416365 original size:42 final size:42
Alignment explanation
Indices: 24416303--24416417 Score: 176
Period size: 42 Copynumber: 2.7 Consensus size: 42
24416293 GATATTGACT
*
24416303 TGGCTATGTGCGAGTAGGAGTGCACATAAGCAATTGCTAACC
1 TGGCTATGTGCGAGTGGGAGTGCACATAAGCAATTGCTAACC
* * *
24416345 TGGCTATGTGCGAGTGGGAGTGCACATAAGCCATTGTTGACC
1 TGGCTATGTGCGAGTGGGAGTGCACATAAGCAATTGCTAACC
* *
24416387 TAGCTATGTGCGAGTGGGAGTGCGCATAAGC
1 TGGCTATGTGCGAGTGGGAGTGCACATAAGC
24416418 CGTTGCATAT
Statistics
Matches: 67, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 67 1.00
ACGTcount: A:0.24, C:0.18, G:0.33, T:0.24
Consensus pattern (42 bp):
TGGCTATGTGCGAGTGGGAGTGCACATAAGCAATTGCTAACC
Found at i:24421425 original size:37 final size:37
Alignment explanation
Indices: 24421361--24421434 Score: 112
Period size: 37 Copynumber: 2.0 Consensus size: 37
24421351 GAGTGTGGAT
* *
24421361 GATGATATTACCTGTGCGCGATGTGGGGGATGCACAC
1 GATGATATTACCTGTGCACGATATGGGGGATGCACAC
* *
24421398 GATGGTATTAGCTGTGCACGATATGGGGGATGCACAC
1 GATGATATTACCTGTGCACGATATGGGGGATGCACAC
24421435 TGTGACTCTG
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
37 33 1.00
ACGTcount: A:0.23, C:0.18, G:0.35, T:0.24
Consensus pattern (37 bp):
GATGATATTACCTGTGCACGATATGGGGGATGCACAC
Found at i:24425709 original size:42 final size:43
Alignment explanation
Indices: 24425663--24425751 Score: 126
Period size: 42 Copynumber: 2.1 Consensus size: 43
24425653 TGTGAGTAGT
* * * *
24425663 AGTGTGCATAAGTCGATGATGACTCAGCTATGTGCGAGT-GGG
1 AGTGTGCATAAGCCGATGATGACCCAACCATGTGCGAGTGGGG
*
24425705 AGTGTGCATAAGCCGATGATGACCCAACCATGTGCTAGTGGGG
1 AGTGTGCATAAGCCGATGATGACCCAACCATGTGCGAGTGGGG
24425748 AGTG
1 AGTG
24425752 CACATGAGCT
Statistics
Matches: 41, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
42 34 0.83
43 7 0.17
ACGTcount: A:0.25, C:0.17, G:0.35, T:0.24
Consensus pattern (43 bp):
AGTGTGCATAAGCCGATGATGACCCAACCATGTGCGAGTGGGG
Found at i:24425800 original size:2 final size:2
Alignment explanation
Indices: 24425793--24425817 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
24425783 ATGATGATGA
24425793 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
24425818 CTTGTATAGA
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:24438548 original size:41 final size:39
Alignment explanation
Indices: 24438461--24438645 Score: 153
Period size: 41 Copynumber: 4.6 Consensus size: 39
24438451 ATTCAGCTCA
*** *
24438461 TGTGCATCCCCCCACATCGTGCACATAGCCGGAGTCATC-T-
1 TGTGCATCCCCCCACATCGTGCACA-AG-TATA-TCACCATG
*
24438501 TGTGCATCCCCCCACATCGTGCAGAAGTAATATCACCACTG
1 TGTGCATCCCCCCACATCGTGCACAAGT-ATATCACCA-TG
* * * * *
24438542 TATGCATCCCCCTACATCGTGCACAAGCGATGTCATCATCG
1 TGTGCATCCCCCCACATCGTGCACAAG-TATATCACCAT-G
* *
24438583 TGTGCATCCCCCCACATCGTGCACAACTA-AT-GCCATTG
1 TGTGCATCCCCCCACATCGTGCACAAGTATATCACCA-TG
*
24438621 TGTGCATCCCCCCACATTGTGCACA
1 TGTGCATCCCCCCACATCGTGCACA
24438646 CGGGCAATAT
Statistics
Matches: 119, Mismatches: 19, Indels: 16
0.77 0.12 0.10
Matches are distributed among these distances:
38 31 0.26
39 5 0.04
40 27 0.23
41 56 0.47
ACGTcount: A:0.23, C:0.36, G:0.17, T:0.23
Consensus pattern (39 bp):
TGTGCATCCCCCCACATCGTGCACAAGTATATCACCATG
Found at i:24445732 original size:18 final size:18
Alignment explanation
Indices: 24445711--24445747 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
24445701 GAATTTGGTT
24445711 ATTTTTTAAAAGTTGGGA
1 ATTTTTTAAAAGTTGGGA
*
24445729 ATTTTTTGAAAGTTGGGA
1 ATTTTTTAAAAGTTGGGA
24445747 A
1 A
24445748 ATAAATATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.32, C:0.00, G:0.24, T:0.43
Consensus pattern (18 bp):
ATTTTTTAAAAGTTGGGA
Found at i:24446987 original size:17 final size:17
Alignment explanation
Indices: 24446965--24446999 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
24446955 GGTGGTTTTC
24446965 CTCCCCCTAAGTATGTG
1 CTCCCCCTAAGTATGTG
* *
24446982 CTCCCCCTTAGTGTGTG
1 CTCCCCCTAAGTATGTG
24446999 C
1 C
24447000 ATAGTTTTAT
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:0.11, C:0.37, G:0.20, T:0.31
Consensus pattern (17 bp):
CTCCCCCTAAGTATGTG
Found at i:24455154 original size:25 final size:24
Alignment explanation
Indices: 24455126--24455174 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 24
24455116 TCAAGATTCA
*
24455126 TCATCCCAAGTTTCACATGCATTT
1 TCATCCCAAATTTCACATGCATTT
*
24455150 NTCATGCCAAATTTCACATGCATTT
1 -TCATCCCAAATTTCACATGCATTT
24455175 CAATCATATA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.27, C:0.27, G:0.08, T:0.37
Consensus pattern (24 bp):
TCATCCCAAATTTCACATGCATTT
Found at i:24455316 original size:40 final size:39
Alignment explanation
Indices: 24455272--24455374 Score: 118
Period size: 38 Copynumber: 2.6 Consensus size: 39
24455262 ACCCGACTCA
* *
24455272 TGTGCATCCCCCCACATCGTGCACATAAGCGGTGCCATTG
1 TGTGCATCCCCCCACATCGTGCACA-AAGCAGTGCCATCG
* * * *
24455312 TGTGCAGCCCCCTACATCGTGTAC-AATCAGTGCCATCG
1 TGTGCATCCCCCCACATCGTGCACAAAGCAGTGCCATCG
* *
24455350 TGTACATCCCCCCACATTGTGCACA
1 TGTGCATCCCCCCACATCGTGCACA
24455375 CGGGCATTAT
Statistics
Matches: 51, Mismatches: 11, Indels: 3
0.78 0.17 0.05
Matches are distributed among these distances:
38 30 0.59
40 21 0.41
ACGTcount: A:0.21, C:0.36, G:0.19, T:0.23
Consensus pattern (39 bp):
TGTGCATCCCCCCACATCGTGCACAAAGCAGTGCCATCG
Found at i:24475861 original size:2 final size:2
Alignment explanation
Indices: 24475854--24475884 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
24475844 CACTTTCTTC
*
24475854 CT CT CT CT CT CT CG CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
24475885 ACCATCAGTA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.00, C:0.52, G:0.03, T:0.45
Consensus pattern (2 bp):
CT
Found at i:24484858 original size:47 final size:47
Alignment explanation
Indices: 24484804--24485625 Score: 840
Period size: 47 Copynumber: 17.4 Consensus size: 47
24484794 CGCACCGGTC
*
24484804 AGAGTTGGTGAGACGCCATGGAGGGAATCTGTGAGACGCTAGAGTTA
1 AGAGTTGGTGAGACGCCATGGAGGGAATCTGTGACACGCTAGAGTTA
* * * *
24484851 AGAGTTGGTGACACGCGATGGAGGGAATCTGTGACATGCTAGCA-TTC
1 AGAGTTGGTGAGACGCCATGGAGGGAATCTGTGACACGCTAG-AGTTA
* * *
24484898 AGAGTTAGTGAGACACCATGGAGGGAATTTGTGACACGCTAGAGTTA
1 AGAGTTGGTGAGACGCCATGGAGGGAATCTGTGACACGCTAGAGTTA
* * * * *
24484945 GGAGTTGGTGATACAG-CATTGAGGGAATCTGTGACACGCTAGTGTTC
1 AGAGTTGGTGAGAC-GCCATGGAGGGAATCTGTGACACGCTAGAGTTA
*
24484992 AGAGTTGGTGAGACGCCATGGAGGGAATCTGTGAGACGCTAGAGTTA
1 AGAGTTGGTGAGACGCCATGGAGGGAATCTGTGACACGCTAGAGTTA
* * * *
24485039 AGAGTTGGTGACACGCGATGGAGGGAATCTGTGACATGCTAGCA-TTC
1 AGAGTTGGTGAGACGCCATGGAGGGAATCTGTGACACGCTAG-AGTTA
* * *
24485086 AGAGTTAGTGAGACACCATGGAGGGAATTTGTGACACGCTAGAGTTA
1 AGAGTTGGTGAGACGCCATGGAGGGAATCTGTGACACGCTAGAGTTA
* * *
24485133 GGAGTTGGTGATACAG-CATTGAGGGAATCTGTGACACGCTA-ATGTTCA
1 AGAGTTGGTGAGAC-GCCATGGAGGGAATCTGTGACACGCTAGA-GTT-A
24485181 A-AGTTGGTGAGACGCCATGGAGGGAATCTGTGAGACAC-CT-GAGTTA
1 AGAGTTGGTGAGACGCCATGGAGGGAATCTGT--GACACGCTAGAGTTA
* * * * *
24485227 AGAGTTGGTGACACGGCATGGAGGGAATCTGTGGCATGCCAGCA-TTCA
1 AGAGTTGGTGAGACGCCATGGAGGGAATCTGTGACACGCTAG-AGTT-A
** *
24485275 A-AGTTGGTGAGACAACATGGAGGGAATATGTGACACGCTAAGAGTTA
1 AGAGTTGGTGAGACGCCATGGAGGGAATCTGTGACACGCT-AGAGTTA
* * * * * * *
24485322 AGAGTTGGTGACATGCCATGGAAGAAAGCTGTGACACGCCAGAGTTC
1 AGAGTTGGTGAGACGCCATGGAGGGAATCTGTGACACGCTAGAGTTA
* * * *
24485369 AGAGTTGGCGACACGCCATGGAGGGAATCTTGTGACACGCTAGTGTTC
1 AGAGTTGGTGAGACGCCATGGAGGGAATC-TGTGACACGCTAGAGTTA
* * *
24485417 AGAGTTGGTGAGATGCCATGGAAGGAATCTGTGACACGTTAGAGTT-
1 AGAGTTGGTGAGACGCCATGGAGGGAATCTGTGACACGCTAGAGTTA
* * * * * *
24485463 AGTAGTTGGTGATACGGCATGCAGGGAATCTGTGACAC-ATCAGTGTTC
1 AG-AGTTGGTGAGACGCCATGGAGGGAATCTGTGACACGCT-AGAGTTA
* * * *
24485511 AGAGTTGGTAAGACGCCATGGAGGGAATTTGTGAGACACTAGAGTTA
1 AGAGTTGGTGAGACGCCATGGAGGGAATCTGTGACACGCTAGAGTTA
* * * ** * * *
24485558 AGAATTGGTGACATGCCATGGAATGAAGCTGTTACACGCTAGAGTTC
1 AGAGTTGGTGAGACGCCATGGAGGGAATCTGTGACACGCTAGAGTTA
* *
24485605 AGAGTTGGTGACACGACATGG
1 AGAGTTGGTGAGACGCCATGG
24485626 TCATGGTTTA
Statistics
Matches: 636, Mismatches: 113, Indels: 52
0.79 0.14 0.06
Matches are distributed among these distances:
45 3 0.00
46 11 0.02
47 531 0.83
48 86 0.14
49 5 0.01
ACGTcount: A:0.28, C:0.15, G:0.34, T:0.23
Consensus pattern (47 bp):
AGAGTTGGTGAGACGCCATGGAGGGAATCTGTGACACGCTAGAGTTA
Found at i:24485103 original size:188 final size:190
Alignment explanation
Indices: 24484802--24485619 Score: 1007
Period size: 188 Copynumber: 4.3 Consensus size: 190
24484792 ACCGCACCGG
24484802 TCAGAGTTGGTGAGACGCCATGGAGGGAATCTGTGAGACGCTAGAGTTAAGAGTTGGTGACACGC
1 TCAGAGTTGGTGAGACGCCATGGAGGGAATCTGTGAGACGCTAGAGTTAAGAGTTGGTGACACGC
24484867 GATGGAGGGAATCTGTGACATGCTAGCATTCAGAGTTAGTGAGACACCATGGAGGGAATTTGTGA
66 GATGGAGGGAATCTGTGACATGCTAGCATTCAGAGTTAGTGAGACACCATGGAGGGAATTTGTGA
* *
24484932 CACGCT-AGAGTTAGGAGTTGGTGATACAG-CATTGAGGGAATCTGTGACACGCTAGTGT
131 CACGCTAAGAGTTAGGAGTTGGTGATACAGCCATGGAGGGAATCTGTGACACGCTAGAGT
24484990 TCAGAGTTGGTGAGACGCCATGGAGGGAATCTGTGAGACGCTAGAGTTAAGAGTTGGTGACACGC
1 TCAGAGTTGGTGAGACGCCATGGAGGGAATCTGTGAGACGCTAGAGTTAAGAGTTGGTGACACGC
24485055 GATGGAGGGAATCTGTGACATGCTAGCATTCAGAGTTAGTGAGACACCATGGAGGGAATTTGTGA
66 GATGGAGGGAATCTGTGACATGCTAGCATTCAGAGTTAGTGAGACACCATGGAGGGAATTTGTGA
*
24485120 CACGCT-AGAGTTAGGAGTTGGTGATACAG-CATTGAGGGAATCTGTGACACGCTA-ATGT
131 CACGCTAAGAGTTAGGAGTTGGTGATACAGCCATGGAGGGAATCTGTGACACGCTAGA-GT
* *
24485178 TCAAAGTTGGTGAGACGCCATGGAGGGAATCTGTGAGACACCT-GAGTTAAGAGTTGGTGACACG
1 TCAGAGTTGGTGAGACGCCATGGAGGGAATCTGTGAGAC-GCTAGAGTTAAGAGTTGGTGACACG
* * * * * *
24485242 -GCATGGAGGGAATCTGTGGCATGCCAGCATTCAAAGTTGGTGAGACAACATGGAGGGAATATGT
65 CG-ATGGAGGGAATCTGTGACATGCTAGCATTCAGAGTTAGTGAGACACCATGGAGGGAATTTGT
* * * * *
24485306 GACACGCTAAGAGTTAAGAGTTGGTG--ACATGCCATGGAAGAAAGCTGTGACACGCCAGAGT
129 GACACGCTAAGAGTTAGGAGTTGGTGATACA-GCCATGGAGGGAATCTGTGACACGCTAGAGT
* * * * * * *
24485367 TCAGAGTTGGCGACACGCCATGGAGGGAATCTTGTGACACGCTAGTGTTCAGAGTTGGTGAGATG
1 TCAGAGTTGGTGAGACGCCATGGAGGGAATC-TGTGAGACGCTAGAGTTAAGAGTTGGTGACACG
* * * * * * ** * *
24485432 CCATGGAAGGAATCTGTGACACGTTAG-AGTT-AGTAGTTGGTGATACGGCATGCAGGGAATCTG
65 CGATGGAGGGAATCTGTGACATGCTAGCA-TTCAG-AGTTAGTGAGACACCATGGAGGGAATTTG
* * * * * * * *
24485495 TGACAC-ATCAGTGTTCA-GAGTTGGTAAGAC-GCCATGGAGGGAATTTGTGAGACACTAGAGT
128 TGACACGCTAAGAGTT-AGGAGTTGGTGATACAGCCATGGAGGGAATCTGTGACACGCTAGAGT
* * * * ** * * * *
24485556 TAAGAATTGGTGACATGCCATGGAATGAAGCTGTTACACGCTAGAGTTCAGAGTTGGTGACACG
1 TCAGAGTTGGTGAGACGCCATGGAGGGAATCTGTGAGACGCTAGAGTTAAGAGTTGGTGACACG
24485620 ACATGGTCAT
Statistics
Matches: 557, Mismatches: 58, Indels: 30
0.86 0.09 0.05
Matches are distributed among these distances:
187 4 0.01
188 339 0.61
189 134 0.24
190 78 0.14
191 2 0.00
ACGTcount: A:0.28, C:0.15, G:0.33, T:0.23
Consensus pattern (190 bp):
TCAGAGTTGGTGAGACGCCATGGAGGGAATCTGTGAGACGCTAGAGTTAAGAGTTGGTGACACGC
GATGGAGGGAATCTGTGACATGCTAGCATTCAGAGTTAGTGAGACACCATGGAGGGAATTTGTGA
CACGCTAAGAGTTAGGAGTTGGTGATACAGCCATGGAGGGAATCTGTGACACGCTAGAGT
Found at i:24486285 original size:31 final size:31
Alignment explanation
Indices: 24486247--24486664 Score: 478
Period size: 31 Copynumber: 13.5 Consensus size: 31
24486237 ATGGTTTGAT
* * * *
24486247 TTGATATGCATGGCGTGTGAGAACAGTTGAC
1 TTGATATGCATGGCGTGTCACAACATTTTAC
* * * *
24486278 TTGATATGCATCGTGTGTGACAGCATTTTAC
1 TTGATATGCATGGCGTGTCACAACATTTTAC
24486309 TTGATATGCATGGCGTGTCACAACATTTTAC
1 TTGATATGCATGGCGTGTCACAACATTTTAC
* * * *
24486340 TTGTTTTGCATGGCGTGTGACAGCATTTTAC
1 TTGATATGCATGGCGTGTCACAACATTTTAC
24486371 TTGATATGCATGGCGTGTCACAACATTTTAC
1 TTGATATGCATGGCGTGTCACAACATTTTAC
* * * *
24486402 TTGTTATGCATGGCGTGTGATAGCATTTTAC
1 TTGATATGCATGGCGTGTCACAACATTTTAC
* *
24486433 TTGATATGCATGACGTGTCACAACAATTTAC
1 TTGATATGCATGGCGTGTCACAACATTTTAC
* * * * *
24486464 TTGCTATGCATGGCGTGTGATAGCATTTCAC
1 TTGATATGCATGGCGTGTCACAACATTTTAC
*
24486495 TTGATATGCATGGCGTGTCACAACATTTGAC
1 TTGATATGCATGGCGTGTCACAACATTTTAC
* * * *
24486526 TTGTTATGCATGGCATGTCACAACGTTTAAC
1 TTGATATGCATGGCGTGTCACAACATTTTAC
* * * *
24486557 TTGTTATGCATGGTGTGTCACAACATTTAAG
1 TTGATATGCATGGCGTGTCACAACATTTTAC
* * *
24486588 TTGTTATACATGGCGTGTCACAACATTTAAC
1 TTGATATGCATGGCGTGTCACAACATTTTAC
*
24486619 TT-ATTATGCATGGCGTGTCACAACATTTTGC
1 TTGA-TATGCATGGCGTGTCACAACATTTTAC
* *
24486650 TTGCTATGAATGGCG
1 TTGATATGCATGGCG
24486665 CATTACAACA
Statistics
Matches: 328, Mismatches: 57, Indels: 4
0.84 0.15 0.01
Matches are distributed among these distances:
31 328 1.00
ACGTcount: A:0.24, C:0.17, G:0.22, T:0.36
Consensus pattern (31 bp):
TTGATATGCATGGCGTGTCACAACATTTTAC
Found at i:24486324 original size:62 final size:62
Alignment explanation
Indices: 24486247--24486664 Score: 541
Period size: 62 Copynumber: 6.7 Consensus size: 62
24486237 ATGGTTTGAT
* * * * * * *
24486247 TTGATATGCATGGCGTGTGAGAACAGTTGACTTGATATGCATCGTGTGTGACAGCATTTTAC
1 TTGATATGCATGGCGTGTCACAACATTTTACTTGTTATGCATGGCGTGTGACAGCATTTTAC
*
24486309 TTGATATGCATGGCGTGTCACAACATTTTACTTGTTTTGCATGGCGTGTGACAGCATTTTAC
1 TTGATATGCATGGCGTGTCACAACATTTTACTTGTTATGCATGGCGTGTGACAGCATTTTAC
*
24486371 TTGATATGCATGGCGTGTCACAACATTTTACTTGTTATGCATGGCGTGTGATAGCATTTTAC
1 TTGATATGCATGGCGTGTCACAACATTTTACTTGTTATGCATGGCGTGTGACAGCATTTTAC
* * * * *
24486433 TTGATATGCATGACGTGTCACAACAATTTACTTGCTATGCATGGCGTGTGATAGCATTTCAC
1 TTGATATGCATGGCGTGTCACAACATTTTACTTGTTATGCATGGCGTGTGACAGCATTTTAC
* * * * * *
24486495 TTGATATGCATGGCGTGTCACAACATTTGACTTGTTATGCATGGCATGTCACAACGTTTAAC
1 TTGATATGCATGGCGTGTCACAACATTTTACTTGTTATGCATGGCGTGTGACAGCATTTTAC
* * * * * * * *
24486557 TTGTTATGCATGGTGTGTCACAACATTTAAGTTGTTATACATGGCGTGTCACAACATTTAAC
1 TTGATATGCATGGCGTGTCACAACATTTTACTTGTTATGCATGGCGTGTGACAGCATTTTAC
* * *
24486619 TT-ATTATGCATGGCGTGTCACAACATTTTGCTTGCTATGAATGGCG
1 TTGA-TATGCATGGCGTGTCACAACATTTTACTTGTTATGCATGGCG
24486665 CATTACAACA
Statistics
Matches: 316, Mismatches: 39, Indels: 2
0.89 0.11 0.01
Matches are distributed among these distances:
62 316 1.00
ACGTcount: A:0.24, C:0.17, G:0.22, T:0.36
Consensus pattern (62 bp):
TTGATATGCATGGCGTGTCACAACATTTTACTTGTTATGCATGGCGTGTGACAGCATTTTAC
Found at i:24488584 original size:156 final size:156
Alignment explanation
Indices: 24488368--24488662 Score: 457
Period size: 156 Copynumber: 1.9 Consensus size: 156
24488358 GCGACAACAA
* * *
24488368 GTCCTCAAGGACCGATCGGTCCGACTCAACCACATATAGCTAACGAGCCGGTGGTAAGGATATTA
1 GTCCTCAAGCACCGATCGGTCCAACTCAACCACAAATAGCTAACGAGCCGGTGGTAAGGATATTA
*
24488433 AAGTTGTAACGGTTAATGTTCAATAATTCCATACATGATTATTGAATAACATAGTTATATATGTA
66 AAGTTGTAACGGTTAATGTTCAACAATTCCATACATGATTATTGAATAACATAGTTATATATGTA
*
24488498 ATTGTAGTTTGCGAAAGAGACGACTG
131 ATTGCAGTTTGCGAAAGAGACGACTG
* * * * *
24488524 GTCCTCAAGCACCGATGGGTCCAACTCCACTACAAATTGCTAACGAGCC-GTCGGTTAGGATATT
1 GTCCTCAAGCACCGATCGGTCCAACTCAACCACAAATAGCTAACGAGCCGGT-GGTAAGGATATT
* *
24488588 AAAGTTGTAACGGTTAATGTTCAACAATTCCATATATGATTATTGAATAATATAGTTATATATGT
65 AAAGTTGTAACGGTTAATGTTCAACAATTCCATACATGATTATTGAATAACATAGTTATATATGT
*
24488653 TATTGCAGTT
130 AATTGCAGTT
24488663 GACCTAGTCA
Statistics
Matches: 125, Mismatches: 13, Indels: 2
0.89 0.09 0.01
Matches are distributed among these distances:
155 2 0.02
156 123 0.98
ACGTcount: A:0.33, C:0.17, G:0.20, T:0.31
Consensus pattern (156 bp):
GTCCTCAAGCACCGATCGGTCCAACTCAACCACAAATAGCTAACGAGCCGGTGGTAAGGATATTA
AAGTTGTAACGGTTAATGTTCAACAATTCCATACATGATTATTGAATAACATAGTTATATATGTA
ATTGCAGTTTGCGAAAGAGACGACTG
Found at i:24488996 original size:31 final size:31
Alignment explanation
Indices: 24488961--24489129 Score: 182
Period size: 31 Copynumber: 5.5 Consensus size: 31
24488951 ACTCATAGCA
* **
24488961 TGTCAGAACATTTTGCTTGTTA-GCCTTGGCG
1 TGTCACAACATTTTGCTTGTTATG-GATGGCG
*
24488992 TGTCACAA-GTGTTTGCTTGTTATGGATGGCG
1 TGTCACAACAT-TTTGCTTGTTATGGATGGCG
** *
24489023 TGTCACAATGTTTTGCTTGTTATGGATGGTG
1 TGTCACAACATTTTGCTTGTTATGGATGGCG
* * **
24489054 TGTCACAACATTTTACTTGTTATGCATTACG
1 TGTCACAACATTTTGCTTGTTATGGATGGCG
*
24489085 TGTCACAACAATTTT-TTTGTTATGGATGGCG
1 TGTCACAAC-ATTTTGCTTGTTATGGATGGCG
24489116 TGTCACAACATTTT
1 TGTCACAACATTTT
24489130 AGGGTATGTG
Statistics
Matches: 118, Mismatches: 16, Indels: 9
0.83 0.11 0.06
Matches are distributed among these distances:
30 6 0.05
31 104 0.88
32 8 0.07
ACGTcount: A:0.20, C:0.15, G:0.23, T:0.41
Consensus pattern (31 bp):
TGTCACAACATTTTGCTTGTTATGGATGGCG
Found at i:24489057 original size:62 final size:62
Alignment explanation
Indices: 24488987--24489216 Score: 182
Period size: 62 Copynumber: 3.7 Consensus size: 62
24488977 TTGTTAGCCT
* * * * **
24488987 TGGCGTGTCACAA-GTGTTTGCTTGTTATGGATGGCGTGTCACAA-TGTTTTGCTTGTTATGGA
1 TGGCGTGTCACAACAT-TTTACTTGTTATGCATGACGTGTCACAACAATTTT-CTTGTTATGGA
* * *
24489049 TGGTGTGTCACAACATTTTACTTGTTATGCATTACGTGTCACAACAATTTTTTTGTTATGGA
1 TGGCGTGTCACAACATTTTACTTGTTATGCATGACGTGTCACAACAATTTTCTTGTTATGGA
** * * * * * *
24489111 TGGCGTGTCACAACATTTTA-GGGTATGTGCATGGCATGTCACAACAGTTTACTT-TATATGCA
1 TGGCGTGTCACAACATTTTACTTGT-TATGCATGACGTGTCACAACAATTTTCTTGT-TATGGA
* * * * *
24489173 TGGCGTGTAACAATATTTAACTTGATATGCA-CAGCGTGTCACAA
1 TGGCGTGTCACAACATTTTACTTGTTATGCATGA-CGTGTCACAA
24489217 TTTTTTACTG
Statistics
Matches: 132, Mismatches: 30, Indels: 12
0.76 0.17 0.07
Matches are distributed among these distances:
61 3 0.02
62 123 0.93
63 6 0.05
ACGTcount: A:0.24, C:0.16, G:0.23, T:0.37
Consensus pattern (62 bp):
TGGCGTGTCACAACATTTTACTTGTTATGCATGACGTGTCACAACAATTTTCTTGTTATGGA
Found at i:24489145 original size:31 final size:31
Alignment explanation
Indices: 24489012--24489216 Score: 112
Period size: 31 Copynumber: 6.6 Consensus size: 31
24489002 GTTTGCTTGT
* ** * *
24489012 TATGGATGGCGTGTCACAATGTTTTGCTTGT-
1 TATGCATGGCGTGTCACAACATTTTAC-GGTA
* * *
24489043 TATGGATGGTGTGTCACAACATTTTACTTGT-
1 TATGCATGGCGTGTCACAACATTTTAC-GGTA
** ***
24489074 TATGCATTACGTGTCACAACAATTTTTTTGT-
1 TATGCATGGCGTGTCACAAC-ATTTTACGGTA
* *
24489105 TATGGATGGCGTGTCACAACATTTTAGGGTA
1 TATGCATGGCGTGTCACAACATTTTACGGTA
* * * **
24489136 TGTGCATGGCATGTCACAACAGTTTACTTTA
1 TATGCATGGCGTGTCACAACATTTTACGGTA
* * * *
24489167 TATGCATGGCGTGTAACAATATTTAAC-TTGA
1 TATGCATGGCGTGTCACAACATTTTACGGT-A
**
24489198 TATGCACAGCGTGTCACAA
1 TATGCATGGCGTGTCACAA
24489217 TTTTTTACTG
Statistics
Matches: 139, Mismatches: 32, Indels: 6
0.79 0.18 0.03
Matches are distributed among these distances:
30 9 0.06
31 125 0.90
32 5 0.04
ACGTcount: A:0.25, C:0.16, G:0.22, T:0.37
Consensus pattern (31 bp):
TATGCATGGCGTGTCACAACATTTTACGGTA
Found at i:24489151 original size:93 final size:92
Alignment explanation
Indices: 24488958--24489173 Score: 215
Period size: 93 Copynumber: 2.3 Consensus size: 92
24488948 GTTACTCATA
* * * * ***
24488958 GCATGTCAGAACATTTTGCTTGTTA-GCCTTGGCGTGTCACAAGTGTTTGCTTGTTATGGATGGC
1 GCATGTCACAACATTTTACTTGTTATGCATTGACGTGTCACAACAATTTGCTTGTTATGGATGGC
** *
24489022 GTGTCACAATGTTTTGCTTGTTATGGATG
66 GTGTCACAACATTTTG--TGGTATGGATG
** **
24489051 GTGTGTCACAACATTTTACTTGTTATGCATT-ACGTGTCACAACAATTTTTTTGTTATGGATGGC
1 GCATGTCACAACATTTTACTTGTTATGCATTGACGTGTCACAACAATTTGCTTGTTATGGATGGC
24489115 GTGTCACAACATTTTAG-GGTATGTGCATG
66 GTGTCACAACATTTT-GTGGTATG-G-ATG
*
24489144 GCATGTCACAACAGTTTACTT-TATATGCAT
1 GCATGTCACAACATTTTACTTGT-TATGCAT
24489174 GGCGTGTAAC
Statistics
Matches: 101, Mismatches: 17, Indels: 10
0.79 0.13 0.08
Matches are distributed among these distances:
91 5 0.05
92 2 0.02
93 89 0.88
94 5 0.05
ACGTcount: A:0.22, C:0.16, G:0.23, T:0.39
Consensus pattern (92 bp):
GCATGTCACAACATTTTACTTGTTATGCATTGACGTGTCACAACAATTTGCTTGTTATGGATGGC
GTGTCACAACATTTTGTGGTATGGATG
Found at i:24490870 original size:52 final size:50
Alignment explanation
Indices: 24490802--24490921 Score: 123
Period size: 52 Copynumber: 2.3 Consensus size: 50
24490792 TATACACAAA
* * * * *
24490802 TTTATGGTAAACACAATTTATTTTGTACAATTCATTGTAAACAGAATTAATT
1 TTTAT-GTATACACAATATACTTTATACAATT-ATTGTAAACACAATTAATT
* *
24490854 CTTTATGTATACACAATATACTTTATACAATTATTTTATACACAATTAATT
1 -TTTATGTATACACAATATACTTTATACAATTATTGTAAACACAATTAATT
*
24490905 TTTTTGCCTATACACAA
1 TTTATG--TATACACAA
24490922 ACAATTTGAT
Statistics
Matches: 57, Mismatches: 8, Indels: 5
0.81 0.11 0.07
Matches are distributed among these distances:
50 5 0.09
51 16 0.28
52 31 0.54
53 5 0.09
ACGTcount: A:0.38, C:0.13, G:0.06, T:0.43
Consensus pattern (50 bp):
TTTATGTATACACAATATACTTTATACAATTATTGTAAACACAATTAATT
Found at i:24490900 original size:15 final size:15
Alignment explanation
Indices: 24490861--24490906 Score: 51
Period size: 16 Copynumber: 3.1 Consensus size: 15
24490851 ATTCTTTATG
*
24490861 TATACACAATATACTT
1 TATACACAAT-TATTT
24490877 TAT--ACAATTATTT
1 TATACACAATTATTT
24490890 TATACACAATTAATTT
1 TATACACAATT-ATTT
24490906 T
1 T
24490907 TTTGCCTATA
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
13 7 0.27
14 5 0.19
15 6 0.23
16 8 0.31
ACGTcount: A:0.41, C:0.13, G:0.00, T:0.46
Consensus pattern (15 bp):
TATACACAATTATTT
Found at i:24491079 original size:31 final size:31
Alignment explanation
Indices: 24491022--24491191 Score: 128
Period size: 31 Copynumber: 5.5 Consensus size: 31
24491012 AATATGCTAC
* * * *
24491022 CACTCAACGTGTC-CCCACATACATCTGGTTG
1 CACTCAGCGTGTCAGCC-CATAAATCTGCTTG
**
24491053 CACTCAGCGTGTCAGCCCATAAATCTGCAAG
1 CACTCAGCGTGTCAGCCCATAAATCTGCTTG
* * * * *** **
24491084 AAGTCAGCGTGTGATG-CCGTAAATCCAATAA
1 CACTCAGCGTGTCA-GCCCATAAATCTGCTTG
*
24491115 CACTCAGTGTGTCAGCCCATAAATCTGCTTG
1 CACTCAGCGTGTCAGCCCATAAATCTGCTTG
* * *
24491146 CACTCAGCGTGTCAGTCCATAAATTTGCTTC
1 CACTCAGCGTGTCAGCCCATAAATCTGCTTG
*
24491177 CACTCAGCATGTCAG
1 CACTCAGCGTGTCAG
24491192 AACAATTGGG
Statistics
Matches: 106, Mismatches: 30, Indels: 6
0.75 0.21 0.04
Matches are distributed among these distances:
30 1 0.01
31 102 0.96
32 3 0.03
ACGTcount: A:0.26, C:0.29, G:0.19, T:0.25
Consensus pattern (31 bp):
CACTCAGCGTGTCAGCCCATAAATCTGCTTG
Found at i:24491169 original size:62 final size:62
Alignment explanation
Indices: 24491053--24491169 Score: 155
Period size: 62 Copynumber: 1.9 Consensus size: 62
24491043 CATCTGGTTG
* * *
24491053 CACTCAGCGTGTCAGCCCATAAATCTGCAAGAAGTCAGCGTGTGATGCCGTAAATCCAATAA
1 CACTCAGCGTGTCAGCCCATAAATCTGCAAGAACTCAGCGTGTCATGCCATAAATCCAATAA
* ** *
24491115 CACTCAGTGTGTCAGCCCATAAATCTGCTTGCACTCAGCGTGTCA-GTCCATAAAT
1 CACTCAGCGTGTCAGCCCATAAATCTGCAAGAACTCAGCGTGTCATG-CCATAAAT
24491170 TTGCTTCCAC
Statistics
Matches: 47, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
61 1 0.02
62 46 0.98
ACGTcount: A:0.29, C:0.27, G:0.20, T:0.24
Consensus pattern (62 bp):
CACTCAGCGTGTCAGCCCATAAATCTGCAAGAACTCAGCGTGTCATGCCATAAATCCAATAA
Found at i:24492863 original size:42 final size:42
Alignment explanation
Indices: 24492797--24492915 Score: 157
Period size: 42 Copynumber: 2.8 Consensus size: 42
24492787 TGTTGATGTG
* * * *
24492797 GACCCGACTATGTGCGAGTAGGAGTGCACTTAAGCCGTTGCT
1 GACCCGGCTATGTGCGAGTGGGAGTGCACATAAGCCATTGCT
*
24492839 GACCCGGCTATGTGTGAGTGGGAGTGCACATAAGCCATTGCT
1 GACCCGGCTATGTGCGAGTGGGAGTGCACATAAGCCATTGCT
* * **
24492881 GACCCAGCTATATGCGAGTGGGAGTAAACATAAGC
1 GACCCGGCTATGTGCGAGTGGGAGTGCACATAAGC
24492916 TGTTGCATAT
Statistics
Matches: 67, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
42 67 1.00
ACGTcount: A:0.25, C:0.22, G:0.31, T:0.22
Consensus pattern (42 bp):
GACCCGGCTATGTGCGAGTGGGAGTGCACATAAGCCATTGCT
Found at i:24493246 original size:72 final size:72
Alignment explanation
Indices: 24493129--24493271 Score: 225
Period size: 72 Copynumber: 2.0 Consensus size: 72
24493119 TGACTCTCGC
* *
24493129 TGCAGCAAGAAACTCTCACGTTTGAGGGCCTTCACTAGACCTAGTT-TCCGCTGCAGCGAGAATG
1 TGCAGCAAGAAACTCTCACGTTTGAGGGCCTTCACCAGACCTAGTTCT-CGCTACAGCGAGAATG
24493193 AAGTTCGT
65 AAGTTCGT
* **
24493201 TGCAGCGAGAAACTCTCGGGTTTGAGGGCCTTCACCAGACCTAGTTCTCGCTACAGCGAGAATGA
1 TGCAGCAAGAAACTCTCACGTTTGAGGGCCTTCACCAGACCTAGTTCTCGCTACAGCGAGAATGA
24493266 AGTTCG
66 AGTTCG
24493272 ATAGAGTGAG
Statistics
Matches: 65, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
72 64 0.98
73 1 0.02
ACGTcount: A:0.24, C:0.25, G:0.27, T:0.24
Consensus pattern (72 bp):
TGCAGCAAGAAACTCTCACGTTTGAGGGCCTTCACCAGACCTAGTTCTCGCTACAGCGAGAATGA
AGTTCGT
Found at i:24493954 original size:31 final size:31
Alignment explanation
Indices: 24493915--24494010 Score: 129
Period size: 31 Copynumber: 3.1 Consensus size: 31
24493905 TCGTGACAGC
24493915 TTAACTTGTTATGCATGGCGTGTCATAACCT
1 TTAACTTGTTATGCATGGCGTGTCATAACCT
** * * **
24493946 TTTGCTTGTTATGCATGGTGTGTCACAAAGT
1 TTAACTTGTTATGCATGGCGTGTCATAACCT
*
24493977 TTAACTTGTTATGCATGGCATGTCATAACCT
1 TTAACTTGTTATGCATGGCGTGTCATAACCT
24494008 TTA
1 TTA
24494011 GCAGACAAAT
Statistics
Matches: 52, Mismatches: 13, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
31 52 1.00
ACGTcount: A:0.23, C:0.17, G:0.20, T:0.41
Consensus pattern (31 bp):
TTAACTTGTTATGCATGGCGTGTCATAACCT
Found at i:24497136 original size:31 final size:31
Alignment explanation
Indices: 24497089--24497170 Score: 112
Period size: 31 Copynumber: 2.6 Consensus size: 31
24497079 TTTTCTGTCG
* *
24497089 TGTTGTTACACACCATGCATAT-AACGTCAAA
1 TGTTGTAACACGCCATGCATATCAA-GTCAAA
24497120 TGTTGTAACACGCCATGCATATCAAGTCAAA
1 TGTTGTAACACGCCATGCATATCAAGTCAAA
* *
24497151 TGTCGTCACACGCCATGCAT
1 TGTTGTAACACGCCATGCAT
24497171 CAGTATAGTG
Statistics
Matches: 46, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
31 44 0.96
32 2 0.04
ACGTcount: A:0.32, C:0.26, G:0.16, T:0.27
Consensus pattern (31 bp):
TGTTGTAACACGCCATGCATATCAAGTCAAA
Found at i:24497231 original size:23 final size:23
Alignment explanation
Indices: 24497153--24497229 Score: 100
Period size: 23 Copynumber: 3.3 Consensus size: 23
24497143 AAGTCAAATG
* * *
24497153 TCGTCACACGCCATGCATCAGTA
1 TCGTGACACGCCATGCATCACTC
* *
24497176 TAGTGACACGCCATGCATCATTC
1 TCGTGACACGCCATGCATCACTC
*
24497199 TCGTGACATGCCATGCATCACTC
1 TCGTGACACGCCATGCATCACTC
24497222 TCGTGACA
1 TCGTGACA
24497230 TGTCAATCAC
Statistics
Matches: 47, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 47 1.00
ACGTcount: A:0.25, C:0.32, G:0.18, T:0.25
Consensus pattern (23 bp):
TCGTGACACGCCATGCATCACTC
Found at i:24497240 original size:20 final size:21
Alignment explanation
Indices: 24497191--24497240 Score: 57
Period size: 23 Copynumber: 2.3 Consensus size: 21
24497181 ACACGCCATG
*
24497191 CATCATTCTCGTGACATGCCA
1 CATCACTCTCGTGACATGCCA
*
24497212 TGCATCACTCTCGTGACATGTCA
1 --CATCACTCTCGTGACATGCCA
24497235 -ATCACT
1 CATCACT
24497241 ATAATTACTG
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
20 6 0.24
23 19 0.76
ACGTcount: A:0.24, C:0.32, G:0.14, T:0.30
Consensus pattern (21 bp):
CATCACTCTCGTGACATGCCA
Found at i:24497438 original size:55 final size:55
Alignment explanation
Indices: 24497266--24497448 Score: 206
Period size: 55 Copynumber: 3.3 Consensus size: 55
24497256 TTACACCAAT
* *
24497266 AGTCGTGACACGCTAAAAACTCAAAAAACTAGTTAACCCACAACACACCAGGAAT
1 AGTCGTGACACGCTAAAAACCCAAAAAACTAGTTAACCCACAACACACCAGGAAA
* * * * ** *
24497321 AGTCGTGACACGCCAAAAACCC-ATAAATTCAGTTAACCCACGACATGCCAGGAAC
1 AGTCGTGACACGCTAAAAACCCAAAAAACT-AGTTAACCCACAACACACCAGGAAA
* * * **
24497376 AGCCGTGACACGCTAACAACCCAAAAAACTAGTTAACCCACAACACATCACAAAA
1 AGTCGTGACACGCTAAAAACCCAAAAAACTAGTTAACCCACAACACACCAGGAAA
* *
24497431 AATCGTGACACTCTAAAA
1 AGTCGTGACACGCTAAAA
24497449 TAACTCTAAT
Statistics
Matches: 102, Mismatches: 24, Indels: 4
0.78 0.18 0.03
Matches are distributed among these distances:
54 5 0.05
55 92 0.90
56 5 0.05
ACGTcount: A:0.44, C:0.30, G:0.13, T:0.14
Consensus pattern (55 bp):
AGTCGTGACACGCTAAAAACCCAAAAAACTAGTTAACCCACAACACACCAGGAAA
Found at i:24503569 original size:16 final size:17
Alignment explanation
Indices: 24503534--24503571 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 17
24503524 AGCATAAAAA
*
24503534 AATT-AAAACTAAATTC
1 AATTAAAAACTAAACTC
24503550 AATTAAAAACTAAACT-
1 AATTAAAAACTAAACTC
24503566 AATTAA
1 AATTAA
24503572 CAAAAATTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 10 0.50
17 10 0.50
ACGTcount: A:0.61, C:0.11, G:0.00, T:0.29
Consensus pattern (17 bp):
AATTAAAAACTAAACTC
Found at i:24509463 original size:416 final size:413
Alignment explanation
Indices: 24508692--24509521 Score: 1572
Period size: 416 Copynumber: 2.0 Consensus size: 413
24508682 TCTCTACTAG
24508692 GATTCTCTTAGTGGGCTAAGATCCCATCCATCAAATCAGGACCTTGAGTGTGCTCAACAAACCAT
1 GATTCTCTTAGTGGGCTAAGATCCCATCCATCAAATCAGGACCTTGAGTGTGCTCAACAAACCAT
*
24508757 GACCGGTGGATTAGGTAGGTAACTAAGCTTACCAATTGTATCTCTATACAACTCCTAGATCAGCT
66 GACCGGTGGATTAGGTAGGTAACTAAGCTTACCAATTGAATCTCTATACAACTCCTAGATCAGCT
*
24508822 AGGTGACAACACATTGCCTAAACATATCATATATATTCACCTAGTCTTTGCCTCTAGTTTCATAA
131 AGGGGACAACACATTGCCTAAACATATCATATATATTCACCTAGTCTTTGCCTCTAGTTTCATAA
*
24508887 TAATGAAGTTTCCAAGCATCCGAATTTTATGAAACTAGTTGAGTAAGACCCACCAATAACTCAAA
196 TAATGAAGTTTCCAAGCATCCGAATTTTATGAAACTAGTGGAGTAAGACCCACCAATAACTCAAA
24508952 CATACTCGTGTAAAAGTGTGACCTTGAGTGTGCTCAACAAGTCTCCGATTAAAAGAGCAGCCAAG
261 CATACTCGTGTAAAAGTGTGACCTTGAGTGTGCTCAACAAGTCTCCGATTAAAAGAGCAGCCAAG
24509017 TTATCTTGCTATATGGTGAAAGGCAACTTGCTCATGCGTGGCATGTGACTCAATATATAATGAAG
326 TTATCTTGCTATATGGTGAAAGGCAACTTGCTCATGCGTGGCATGTGACTCAATATATAATGAAG
24509082 GATTTTGTTTTTGCCTTTATTAC
391 GATTTTGTTTTTGCCTTTATTAC
24509105 NGATTCTCTTAGTGGGCTAAGATCCCATCCATCAAATCAGGACCTTGAGTGTGCTCAACAAACCA
1 -GATTCTCTTAGTGGGCTAAGATCCCATCCATCAAATCAGGACCTTGAGTGTGCTCAACAAACCA
24509170 TGACCGGTGGATTAGGTAGGTAACTAAGCTTACCAATTGAATCTCTATACAACTCCTAGATCAGC
65 TGACCGGTGGATTAGGTAGGTAACTAAGCTTACCAATTGAATCTCTATACAACTCCTAGATCAGC
**
24509235 TAGGGGACAACACATTGCCTAAACATATCATATATATTTTGCCTAG-CTTTTGCCTCTAGTTTCC
130 TAGGGGACAACACATTGCCTAAACATATCATATATA-TTCACCTAGTC-TTTGCCTCTAGTTT-C
24509299 ATAATAATGAAGTTTCCAAGCATCCGAATTTTATGAAACTAGTGGAGTAAGACCCACCAATAACT
192 ATAATAATGAAGTTTCCAAGCATCCGAATTTTATGAAACTAGTGGAGTAAGACCCACCAATAACT
24509364 CAAACATACTCGTGTAAAAGTGTGACCTTGAGTGTGCTCAACAAGTCTCCGATTAAAAGAGCAGC
257 CAAACATACTCGTGTAAAAGTGTGACCTTGAGTGTGCTCAACAAGTCTCCGATTAAAAGAGCAGC
24509429 CAAGTTATCTTGCTATATGGTGAAAGGCAACTTGCTCATGCGTGGCATGTGACTCAATATATAAT
322 CAAGTTATCTTGCTATATGGTGAAAGGCAACTTGCTCATGCGTGGCATGTGACTCAATATATAAT
24509494 GAAGGATTTTGTTTTTGCCTTTATTAC
387 GAAGGATTTTGTTTTTGCCTTTATTAC
24509521 G
1 G
24509522 GTCTCATCTT
Statistics
Matches: 408, Mismatches: 5, Indels: 5
0.98 0.01 0.01
Matches are distributed among these distances:
414 164 0.40
415 22 0.05
416 222 0.54
ACGTcount: A:0.31, C:0.21, G:0.18, T:0.30
Consensus pattern (413 bp):
GATTCTCTTAGTGGGCTAAGATCCCATCCATCAAATCAGGACCTTGAGTGTGCTCAACAAACCAT
GACCGGTGGATTAGGTAGGTAACTAAGCTTACCAATTGAATCTCTATACAACTCCTAGATCAGCT
AGGGGACAACACATTGCCTAAACATATCATATATATTCACCTAGTCTTTGCCTCTAGTTTCATAA
TAATGAAGTTTCCAAGCATCCGAATTTTATGAAACTAGTGGAGTAAGACCCACCAATAACTCAAA
CATACTCGTGTAAAAGTGTGACCTTGAGTGTGCTCAACAAGTCTCCGATTAAAAGAGCAGCCAAG
TTATCTTGCTATATGGTGAAAGGCAACTTGCTCATGCGTGGCATGTGACTCAATATATAATGAAG
GATTTTGTTTTTGCCTTTATTAC
Found at i:24509623 original size:58 final size:57
Alignment explanation
Indices: 24509529--24509648 Score: 195
Period size: 58 Copynumber: 2.1 Consensus size: 57
24509519 ACGGTCTCAT
* *
24509529 CTTTGCATGCATGGCATTTATTAAATCGCATAAAATAAATCTATCACATGTATACTA
1 CTTTGCATGCATAGCATTTATTAAATCGCATAAAATAAATCTATCACATGCATACTA
* *
24509586 CTTTGCATTGCATAGCATTTATTAAATTGCATCAAATAAATCTATCACATGCATACTA
1 CTTTGCA-TGCATAGCATTTATTAAATCGCATAAAATAAATCTATCACATGCATACTA
24509644 CTTTG
1 CTTTG
24509649 GATGATTATG
Statistics
Matches: 58, Mismatches: 4, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
57 7 0.12
58 51 0.88
ACGTcount: A:0.35, C:0.18, G:0.10, T:0.37
Consensus pattern (57 bp):
CTTTGCATGCATAGCATTTATTAAATCGCATAAAATAAATCTATCACATGCATACTA
Done.