Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D06
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: 62964862
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 132689 characters in sequence are not A, C, G, or T
File 11 of 207
Found at i:3732931 original size:63 final size:63
Alignment explanation
Indices: 3732864--3733006 Score: 200
Period size: 63 Copynumber: 2.3 Consensus size: 63
3732854 GGTCTGATGC
*
3732864 ATGTTGAAGC-ATGTAA-AACAATATAACCCCATTTCGAAACAGGAAACCTTGTTATTATAAGTA
1 ATGTTGAAGCAAT-TAATAA-AAGATAACCCCATTTCGAAACAGGAAACCTTGTTATTATAAGTA
* * *
3732927 ATGTTTAAGCAATTAATTAGAGATAACCCCATTTCGAAACAGGAAACCTTGTTATTATAAGTA
1 ATGTTGAAGCAATTAATAAAAGATAACCCCATTTCGAAACAGGAAACCTTGTTATTATAAGTA
**
3732990 ATGTTTTAGCAATTAAT
1 ATGTTGAAGCAATTAAT
3733007 TAGAGATACT
Statistics
Matches: 73, Mismatches: 5, Indels: 4
0.89 0.06 0.05
Matches are distributed among these distances:
63 70 0.96
64 3 0.04
ACGTcount: A:0.40, C:0.14, G:0.14, T:0.32
Consensus pattern (63 bp):
ATGTTGAAGCAATTAATAAAAGATAACCCCATTTCGAAACAGGAAACCTTGTTATTATAAGTA
Found at i:3733007 original size:63 final size:63
Alignment explanation
Indices: 3732886--3733014 Score: 249
Period size: 63 Copynumber: 2.0 Consensus size: 63
3732876 GTAAAACAAT
3732886 ATAACCCCATTTCGAAACAGGAAACCTTGTTATTATAAGTAATGTTTAAGCAATTAATTAGAG
1 ATAACCCCATTTCGAAACAGGAAACCTTGTTATTATAAGTAATGTTTAAGCAATTAATTAGAG
*
3732949 ATAACCCCATTTCGAAACAGGAAACCTTGTTATTATAAGTAATGTTTTAGCAATTAATTAGAG
1 ATAACCCCATTTCGAAACAGGAAACCTTGTTATTATAAGTAATGTTTAAGCAATTAATTAGAG
3733012 ATA
1 ATA
3733015 CTTGATAAAT
Statistics
Matches: 65, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
63 65 1.00
ACGTcount: A:0.40, C:0.14, G:0.14, T:0.33
Consensus pattern (63 bp):
ATAACCCCATTTCGAAACAGGAAACCTTGTTATTATAAGTAATGTTTAAGCAATTAATTAGAG
Found at i:3736355 original size:24 final size:23
Alignment explanation
Indices: 3736311--3736355 Score: 65
Period size: 25 Copynumber: 1.9 Consensus size: 23
3736301 TATTTTTAAC
3736311 AAAAACATTTTTTATTATAATAA
1 AAAAACATTTTTTATTATAATAA
3736334 AAAATACACTTTTTTATT-TAAT
1 AAAA-ACA-TTTTTTATTATAAT
3736356 TGATTAAATA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
23 4 0.20
24 7 0.35
25 9 0.45
ACGTcount: A:0.47, C:0.07, G:0.00, T:0.47
Consensus pattern (23 bp):
AAAAACATTTTTTATTATAATAA
Found at i:3738513 original size:13 final size:14
Alignment explanation
Indices: 3738481--3738513 Score: 52
Period size: 13 Copynumber: 2.5 Consensus size: 14
3738471 TTGTTATAAC
3738481 TAAA-TTAATTTAA
1 TAAATTTAATTTAA
3738494 TAAATTTAATTT-A
1 TAAATTTAATTTAA
3738507 TAAATTT
1 TAAATTT
3738514 TGTAATGAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 12 0.63
14 7 0.37
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (14 bp):
TAAATTTAATTTAA
Found at i:3739912 original size:23 final size:23
Alignment explanation
Indices: 3739882--3739927 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
3739872 TGTGAATGGT
3739882 AGTTTAGAAAAGTTTCTAGTGGA
1 AGTTTAGAAAAGTTTCTAGTGGA
3739905 AGTTTAGAAAAGTTTCTAGTGGA
1 AGTTTAGAAAAGTTTCTAGTGGA
3739928 CCATGATTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.35, C:0.04, G:0.26, T:0.35
Consensus pattern (23 bp):
AGTTTAGAAAAGTTTCTAGTGGA
Found at i:3742908 original size:17 final size:18
Alignment explanation
Indices: 3742888--3742928 Score: 50
Period size: 17 Copynumber: 2.3 Consensus size: 18
3742878 ATAAACATAA
3742888 ATCATTCATTTCAT-TAT-
1 ATCATT-ATTTCATGTATC
*
3742905 ATCAATATTTCATGTATC
1 ATCATTATTTCATGTATC
3742923 ATCATT
1 ATCATT
3742929 TTCATGAATT
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
16 7 0.35
17 8 0.40
18 5 0.25
ACGTcount: A:0.32, C:0.17, G:0.02, T:0.49
Consensus pattern (18 bp):
ATCATTATTTCATGTATC
Found at i:3745209 original size:11 final size:11
Alignment explanation
Indices: 3745193--3745247 Score: 51
Period size: 11 Copynumber: 5.1 Consensus size: 11
3745183 TTATATATTA
3745193 AATAAAATAAT
1 AATAAAATAAT
3745204 AATAAAATAAT
1 AATAAAATAAT
* *
3745215 AA-AATAT-CT
1 AATAAAATAAT
* *
3745224 CATTAAAATATT
1 -AATAAAATAAT
3745236 AATAAAATAAT
1 AATAAAATAAT
3745247 A
1 A
3745248 TTTATCTAAT
Statistics
Matches: 34, Mismatches: 7, Indels: 6
0.72 0.15 0.13
Matches are distributed among these distances:
9 1 0.03
10 5 0.15
11 27 0.79
12 1 0.03
ACGTcount: A:0.65, C:0.04, G:0.00, T:0.31
Consensus pattern (11 bp):
AATAAAATAAT
Found at i:3745239 original size:32 final size:32
Alignment explanation
Indices: 3745195--3745289 Score: 97
Period size: 32 Copynumber: 2.9 Consensus size: 32
3745185 ATATATTAAA
*
3745195 TAAAATAATAATAAAATAATAAAATATCTCAT
1 TAAAATATTAATAAAATAATAAAATATCTCAT
** *
3745227 TAAAATATTAATAAAATAAT-ATTTATCTAAT
1 TAAAATATTAATAAAATAATAAAATATCTCAT
3745258 T-AAATAATT-ATAAAATATCATCAAAATATCTC
1 TAAAAT-ATTAATAAAATA--AT-AAAATATCTC
3745290 TAATATCATC
Statistics
Matches: 51, Mismatches: 7, Indels: 8
0.77 0.11 0.12
Matches are distributed among these distances:
30 12 0.24
31 12 0.24
32 21 0.41
34 6 0.12
ACGTcount: A:0.57, C:0.07, G:0.00, T:0.36
Consensus pattern (32 bp):
TAAAATATTAATAAAATAATAAAATATCTCAT
Found at i:3747269 original size:24 final size:24
Alignment explanation
Indices: 3747228--3747273 Score: 85
Period size: 23 Copynumber: 2.0 Consensus size: 24
3747218 GAAAACAAAA
3747228 TTTCTTTTTGGTGATTTTTTTTTG
1 TTTCTTTTTGGTGATTTTTTTTTG
3747252 TTTC-TTTTGGTGATTTTTTTTT
1 TTTCTTTTTGGTGATTTTTTTTT
3747274 CTCTTATGTG
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
23 18 0.82
24 4 0.18
ACGTcount: A:0.04, C:0.04, G:0.15, T:0.76
Consensus pattern (24 bp):
TTTCTTTTTGGTGATTTTTTTTTG
Found at i:3747284 original size:20 final size:22
Alignment explanation
Indices: 3747236--3747285 Score: 59
Period size: 22 Copynumber: 2.3 Consensus size: 22
3747226 AATTTCTTTT
* *
3747236 TGGTGATTTTTTTTTGTTTCTTT
1 TGGTGA-TTTTTTTTGTCTCTTA
3747259 TGGTGATTTTTTTT-TCTCTTA
1 TGGTGATTTTTTTTGTCTCTTA
3747280 T-GTGAT
1 TGGTGAT
3747286 GTTTAAGTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
20 5 0.20
21 6 0.24
22 8 0.32
23 6 0.24
ACGTcount: A:0.08, C:0.06, G:0.18, T:0.68
Consensus pattern (22 bp):
TGGTGATTTTTTTTGTCTCTTA
Found at i:3750137 original size:16 final size:14
Alignment explanation
Indices: 3750100--3750138 Score: 51
Period size: 14 Copynumber: 2.6 Consensus size: 14
3750090 TTCTGCATTT
3750100 TTACAAAAATAATA
1 TTACAAAAATAATA
*
3750114 TTAAAAAAATAATTAA
1 TTACAAAAATAA-T-A
3750130 TTACAAAAA
1 TTACAAAAA
3750139 AAGAGTTAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
14 11 0.52
15 1 0.05
16 9 0.43
ACGTcount: A:0.67, C:0.05, G:0.00, T:0.28
Consensus pattern (14 bp):
TTACAAAAATAATA
Found at i:3757573 original size:26 final size:27
Alignment explanation
Indices: 3757535--3757585 Score: 95
Period size: 26 Copynumber: 1.9 Consensus size: 27
3757525 GAATATATAA
3757535 TAAATATATATTTTATTTTTAAAATTT
1 TAAATATATATTTTATTTTTAAAATTT
3757562 TAAA-ATATATTTTATTTTTAAAAT
1 TAAATATATATTTTATTTTTAAAAT
3757586 AAATTTTTGG
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
26 20 0.83
27 4 0.17
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (27 bp):
TAAATATATATTTTATTTTTAAAATTT
Found at i:3764359 original size:5 final size:5
Alignment explanation
Indices: 3764349--3764373 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
3764339 TGTTTACACC
3764349 TTTAA TTTAA TTTAA TTTAA TTTAA
1 TTTAA TTTAA TTTAA TTTAA TTTAA
3764374 ATCAATGGTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (5 bp):
TTTAA
Found at i:3765264 original size:13 final size:13
Alignment explanation
Indices: 3765246--3765270 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3765236 ATCAATCTAC
3765246 AAAAAAGAAAAAG
1 AAAAAAGAAAAAG
3765259 AAAAAAGAAAAA
1 AAAAAAGAAAAA
3765271 AAGAATATCA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (13 bp):
AAAAAAGAAAAAG
Found at i:3777329 original size:24 final size:24
Alignment explanation
Indices: 3777297--3777346 Score: 100
Period size: 24 Copynumber: 2.1 Consensus size: 24
3777287 AGGGATCCAC
3777297 TTATTATGATATAAACTAATATGG
1 TTATTATGATATAAACTAATATGG
3777321 TTATTATGATATAAACTAATATGG
1 TTATTATGATATAAACTAATATGG
3777345 TT
1 TT
3777347 TTACTTTTTC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.40, C:0.04, G:0.12, T:0.44
Consensus pattern (24 bp):
TTATTATGATATAAACTAATATGG
Found at i:3782151 original size:21 final size:21
Alignment explanation
Indices: 3782127--3782168 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
3782117 AGTAAATTAC
3782127 TAAA-AAAATTAATACATAAAA
1 TAAATAAAA-TAATACATAAAA
* *
3782148 TAAATACAATAATAGATAAAA
1 TAAATAAAATAATACATAAAA
3782169 CGAGATGTGA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 15 0.83
22 3 0.17
ACGTcount: A:0.69, C:0.05, G:0.02, T:0.24
Consensus pattern (21 bp):
TAAATAAAATAATACATAAAA
Found at i:3782663 original size:17 final size:17
Alignment explanation
Indices: 3782641--3782679 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
3782631 AATTTAGATG
*
3782641 TAAAATATACTA-AAAT
1 TAAAATAAACTAGAAAT
3782657 ATAAAATAAACTAGAAAT
1 -TAAAATAAACTAGAAAT
3782675 TAAAA
1 TAAAA
3782680 ATGGAGTCAG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 16 0.80
18 4 0.20
ACGTcount: A:0.67, C:0.05, G:0.03, T:0.26
Consensus pattern (17 bp):
TAAAATAAACTAGAAAT
Found at i:3782783 original size:17 final size:17
Alignment explanation
Indices: 3782761--3782794 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
3782751 AAGATATTAA
3782761 ATATATAAATAAATAAT
1 ATATATAAATAAATAAT
* *
3782778 ATATATATATATATAAT
1 ATATATAAATAAATAAT
3782795 TAAAATTGAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (17 bp):
ATATATAAATAAATAAT
Found at i:3782890 original size:14 final size:14
Alignment explanation
Indices: 3782871--3782912 Score: 50
Period size: 14 Copynumber: 3.0 Consensus size: 14
3782861 TCTACCATTA
3782871 TTATATTAAATATG
1 TTATATTAAATATG
*
3782885 TTATATTTATATAT-
1 TTATA-TTAAATATG
*
3782899 TTATATTAAGTATG
1 TTATATTAAATATG
3782913 GCATTAAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
13 6 0.26
14 10 0.43
15 7 0.30
ACGTcount: A:0.38, C:0.00, G:0.07, T:0.55
Consensus pattern (14 bp):
TTATATTAAATATG
Found at i:3793107 original size:243 final size:243
Alignment explanation
Indices: 3792679--3793119 Score: 731
Period size: 243 Copynumber: 1.8 Consensus size: 243
3792669 GCTTCACCGG
* * *
3792679 ACATGAACGAAATAATGGAAGTTCGTCAAACATATCTATACCAGCTGACTCGAGGGGGAATTGTT
1 ACATGAACGAAATAATGAAAGTTCATCAAACATATCTATACCAGCTGACTCGAGGAGGAATTGTT
*
3792744 AGAACTTAGTCAGCTTCTAAAACAACCCTACCCTGTACTAGATCAGACAGGAAGTCTATTGCTTA
66 AGAACTTAGTCAGCTTCTAAAACAACCCTACCCTGTACTAGATCAGACAGAAAGTCTATTGCTTA
*
3792809 AACTAATGTTATTATTGTCAAGTATTGCTCTACAAACATCAAGGCAATTAGACAATGCTGCCCAA
131 AACTAATGTTATTAATGTCAAGTATTGCTCTACAAACATCAAGGCAATTAGACAATGCTGCCCAA
3792874 ATAAATACACAGATATTGCAAATCTGTCTATTAGAAGGGATTCACAAT
196 ATAAATACACAGATATTGCAAATCTGTCTATTAGAAGGGATTCACAAT
* *
3792922 ACATGAACTAAATAATGAAAGTTCATCAAACATATCTATACCAGCTGACTCGAGGAGTAATTGTT
1 ACATGAACGAAATAATGAAAGTTCATCAAACATATCTATACCAGCTGACTCGAGGAGGAATTGTT
* * * * * * *
3792987 AGAGCTTAG-CTGGTTTGTAAAACAACCCTACCCTGTAGTAGATCAGGCAGAAAGTCTGTTGCTT
66 AGAACTTAGTC-AGCTTCTAAAACAACCCTACCCTGTACTAGATCAGACAGAAAGTCTATTGCTT
*
3793051 AAACTAATGTTATTAATGTCAAGTATTGCTCTACAAATATCAAGGCAATTAGACAATGCTGCCCA
130 AAACTAATGTTATTAATGTCAAGTATTGCTCTACAAACATCAAGGCAATTAGACAATGCTGCCCA
3793116 AATA
195 AATA
3793120 TATATATATT
Statistics
Matches: 182, Mismatches: 15, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
242 1 0.01
243 181 0.99
ACGTcount: A:0.37, C:0.19, G:0.17, T:0.28
Consensus pattern (243 bp):
ACATGAACGAAATAATGAAAGTTCATCAAACATATCTATACCAGCTGACTCGAGGAGGAATTGTT
AGAACTTAGTCAGCTTCTAAAACAACCCTACCCTGTACTAGATCAGACAGAAAGTCTATTGCTTA
AACTAATGTTATTAATGTCAAGTATTGCTCTACAAACATCAAGGCAATTAGACAATGCTGCCCAA
ATAAATACACAGATATTGCAAATCTGTCTATTAGAAGGGATTCACAAT
Found at i:3805111 original size:100 final size:100
Alignment explanation
Indices: 3804938--3805138 Score: 357
Period size: 100 Copynumber: 2.0 Consensus size: 100
3804928 ACACACGTCC
* * *
3804938 GTGTCTGAGGCCGTGTGGGCATTCGATGTAAGGCACACGGTCTTGTCTCAGCCCGTGTAACTCTC
1 GTGTCTGAGGCCGTGTAGGCATTCGATGTAAGGCACACGGTCGTGTCTCAGCCCATGTAACTCTC
*
3805003 TAACTTGGGTTACACGGCTAGCCATACGTTCGTGT
66 TAACTTGGGTTACACGGCCAGCCATACGTTCGTGT
*
3805038 GTGTCTGAGGCCGTGTAGGCATTCGATGTAAGGCACACGGTCGTGTCTCAGGCCATGTAACTCTC
1 GTGTCTGAGGCCGTGTAGGCATTCGATGTAAGGCACACGGTCGTGTCTCAGCCCATGTAACTCTC
3805103 TAACTTGGGTTACACGGCCAGCCATACGTTCGTGT
66 TAACTTGGGTTACACGGCCAGCCATACGTTCGTGT
3805138 G
1 G
3805139 CCAAGTCGTA
Statistics
Matches: 96, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
100 96 1.00
ACGTcount: A:0.18, C:0.25, G:0.29, T:0.28
Consensus pattern (100 bp):
GTGTCTGAGGCCGTGTAGGCATTCGATGTAAGGCACACGGTCGTGTCTCAGCCCATGTAACTCTC
TAACTTGGGTTACACGGCCAGCCATACGTTCGTGT
Found at i:3806402 original size:26 final size:26
Alignment explanation
Indices: 3806373--3806434 Score: 70
Period size: 26 Copynumber: 2.4 Consensus size: 26
3806363 ATAAGAGCTA
* *
3806373 TAATTAGGAGGTTCACAAAGAACTTT
1 TAATTAGGAGGCTCACAAAGAACCTT
* * *
3806399 TAATTAGGAAGCTCACGAAGAGCCTT
1 TAATTAGGAGGCTCACAAAGAACCTT
*
3806425 TAATCAGGAG
1 TAATTAGGAG
3806435 CTCCGGATAG
Statistics
Matches: 29, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.37, C:0.15, G:0.23, T:0.26
Consensus pattern (26 bp):
TAATTAGGAGGCTCACAAAGAACCTT
Found at i:3812315 original size:19 final size:18
Alignment explanation
Indices: 3812293--3812363 Score: 58
Period size: 19 Copynumber: 3.8 Consensus size: 18
3812283 AAATATATAC
*
3812293 ATTTTGGAATTTTATAAA
1 ATTTTTGAATTTTATAAA
3812311 GA-TTTT-AATTTT-TAAAA
1 -ATTTTTGAATTTTAT-AAA
*
3812328 TTATTTTTGAATTTTTTAAA
1 --ATTTTTGAATTTTATAAA
3812348 ATTATTTGAATTTTAT
1 ATT-TTTGAATTTTAT
3812364 TTTTGTAATT
Statistics
Matches: 43, Mismatches: 3, Indels: 12
0.74 0.05 0.21
Matches are distributed among these distances:
16 1 0.02
17 9 0.21
18 7 0.16
19 16 0.37
20 9 0.21
21 1 0.02
ACGTcount: A:0.35, C:0.00, G:0.07, T:0.58
Consensus pattern (18 bp):
ATTTTTGAATTTTATAAA
Found at i:3812342 original size:20 final size:20
Alignment explanation
Indices: 3812313--3812354 Score: 68
Period size: 21 Copynumber: 2.1 Consensus size: 20
3812303 TTTATAAAGA
3812313 TTTTAA-TTTTTAAAATTAT
1 TTTTAATTTTTTAAAATTAT
3812332 TTTTGAATTTTTTAAAATTAT
1 TTTT-AATTTTTTAAAATTAT
3812353 TT
1 TT
3812355 GAATTTTATT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
19 4 0.19
20 2 0.10
21 15 0.71
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.64
Consensus pattern (20 bp):
TTTTAATTTTTTAAAATTAT
Found at i:3812345 original size:21 final size:19
Alignment explanation
Indices: 3812319--3812361 Score: 68
Period size: 21 Copynumber: 2.2 Consensus size: 19
3812309 AAGATTTTAA
3812319 TTTTTAAAATTATTTTTGAAT
1 TTTTTAAAATTA--TTTGAAT
3812340 TTTTTAAAATTATTTGAAT
1 TTTTTAAAATTATTTGAAT
3812359 TTT
1 TTT
3812362 ATTTTTGTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
19 10 0.45
21 12 0.55
ACGTcount: A:0.33, C:0.00, G:0.05, T:0.63
Consensus pattern (19 bp):
TTTTTAAAATTATTTGAAT
Found at i:3812465 original size:9 final size:9
Alignment explanation
Indices: 3812446--3812485 Score: 53
Period size: 9 Copynumber: 4.4 Consensus size: 9
3812436 CACAAATATG
*
3812446 TTATTCAAA
1 TTATTCGAA
*
3812455 TTATTTGAA
1 TTATTCGAA
*
3812464 TTATTCGAG
1 TTATTCGAA
3812473 TTATTCGAA
1 TTATTCGAA
3812482 TTAT
1 TTAT
3812486 AAAATTCAAC
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.33, C:0.07, G:0.10, T:0.50
Consensus pattern (9 bp):
TTATTCGAA
Found at i:3813982 original size:19 final size:20
Alignment explanation
Indices: 3813942--3813984 Score: 63
Period size: 18 Copynumber: 2.2 Consensus size: 20
3813932 TCATTTTCAA
*
3813942 TTTAATTTTTGTTAGTTATT
1 TTTAATATTTGTTAGTTATT
3813962 TTTAATATTT-TTAG-TATT
1 TTTAATATTTGTTAGTTATT
3813980 TTTAA
1 TTTAA
3813985 AGGTAAACAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 9 0.41
19 4 0.18
20 9 0.41
ACGTcount: A:0.26, C:0.00, G:0.07, T:0.67
Consensus pattern (20 bp):
TTTAATATTTGTTAGTTATT
Found at i:3819133 original size:337 final size:336
Alignment explanation
Indices: 3818556--3819802 Score: 1140
Period size: 358 Copynumber: 3.6 Consensus size: 336
3818546 ATGTTATTCC
* * * * * *
3818556 GAAATTTTACATTACTTTTAACAATGTGAGATTATTGAACTAGATTTTTATAAACCTAACAAATT
1 GAAATCTTACATTACCTTTGACAATGTGAGATTATTGAACCATATCTTTATAAACCTAACAAATT
* * * ** *
3818621 TGAACGGCAAGAAAACA-T-GGA---CATAGTTCTTTCTTTTCCATGTTTGCCATTCCTTAAAAC
66 TGAATGGCAAGAGAACATTAGGAGTTCTTTCTTCTTTCTTTTCCATGTATGCCATTCCTTAAAAC
* * * *
3818681 AACAAGCACTTGTCTAGGGCATACAGACTAAATAGACTCACACCACCGTATTTTCATTAAAAAGA
131 AACAAGCACTTGCCTAGGGCATATAGACCAAATAGACTCACACCACC-TATTTCCATTAAAAAGA
* * * *
3818746 AAACAACAAATCTCTCAAAGTTACTAGATCTTAATTTTAGGGTATGATTTGGT-A-AC-A-G-AA
195 AAACGACAAATCTCTTAAAGTTACTAGATCTTAAATTTAGGGTGTGATTTGGTAAGACTATGAAA
* * * * **
3818806 TTATCGAAATGTAAAATTACTTATTACATCATGGGCTCAAAGTAATCTTTGAAATCTAAATGTAA
260 TTATCGAAATATAAAATTACTTATTACATCATGGGCTCAAAGTAATATTTAAAATCCAAACATAA
3818871 AAATATTATTAA
325 AAATATTATTAA
* *
3818883 GAAATCTTACATTACCTTTGACAATGTAAGATTATTGAACCATATCTTTCTAAACCTAACAAATT
1 GAAATCTTACATTACCTTTGACAATGTGAGATTATTGAACCATATCTTTATAAACCTAACAAATT
*
3818948 TGAATGGCAAGAGAACATTACCGGAGTTCTTTCTTTTCTTTTCTTTTCCATGTATGCCATTACTT
66 TGAATGGCAAGAGAACATTA--GGAGTTCTTTC--TTC-TTTCTTTTCCATGTATGCCATTCCTT
* *
3819013 AAAACAACAAGTACTTGCCTAGGGTATATAGACCAAATAGACTCACACCATCCTATTTCCATTAA
126 AAAACAACAAGCACTTGCCTAGGGCATATAGACCAAATAGACTCACACCA-CCTATTTCCATTAA
* * * * *
3819078 GAAGAAAATGACAAATCCCTTAAAGTTACTAAATATTAAATTTAGGGTGTGATTTGGTTAAGGGA
190 AAAGAAAACGACAAATCTCTTAAAGTTACTAGATCTTAAATTTAGGGTGTGA--T--TT---GG-
*
3819143 AAATAAGACTATCTCTGATAACATAATTATCGAAATATAAAATTACTTATTACATTATGGGCTCA
247 ---TAAGACTA----TG-----A-AATTATCGAAATATAAAATTACTTATTACATCATGGGCTCA
* **
3819208 AAGTAATATTTAAAATCCAAACATAAAAATGTTATTCC
299 AAGTAATATTTAAAATCCAAACATAAAAATATTATTAA
* *
3819246 GAAATCTTACATTACCTTTGACAATATGAGATTATTGAACCATATCTTTTTAAACCTAACAAATT
1 GAAATCTTACATTACCTTTGACAATGTGAGATTATTGAACCATATCTTTATAAACCTAACAAATT
* * * *
3819311 TGAATGGCAAGAGAACATTAAAAGAGTTCTTTCTTCTTT-TTTT-CATGTGTGTCAGTCCTTAAA
66 TGAATGGCAAGAGAACATT--AGGAGTTCTTTCTTCTTTCTTTTCCATGTATGCCATTCCTTAAA
* *
3819374 ACAATAAGCACTTGCCTAGGGCATATAGACCAAATCGACTCACACCACTCTATTTCCATTAAAAA
129 ACAACAAGCACTTGCCTAGGGCATATAGACCAAATAGACTCACACCAC-CTATTTCCATTAAAAA
*
3819439 GAAAACGACAAATCTCTTAAAGTTATTAGATCTTAAATTTAGGGTGTGATTTGGTTAAGGTAAAA
193 GAAAACGACAAATCTCTTAAAGTTACTAGATCTTAAATTTAGGGTGTGA--T--TT--GG-----
* * * * *
3819504 TAAAGTTATCTCTGATAACACAATTATTGAAATGTAAAATTACTTATTACATTATAGGCTCAAAG
247 T-AAG--A---CT-AT--GA-AATTATCGAAATATAAAATTACTTATTACATCATGGGCTCAAAG
* * * **
3819569 TAATATTTAAAATCTAAACGTAAAAATGTTATTCT
302 TAATATTTAAAATCCAAACATAAAAATATTATTAA
* * * * *
3819604 GAAATCTTACATTACCTTTGACAATGCGAGATTATTAAAACATATCTTTCTAAACCTTACAAATT
1 GAAATCTTACATTACCTTTGACAATGTGAGATTATTGAACCATATCTTTATAAACCTAACAAATT
* * * * * * *
3819669 TGAATGGAAAGAGAACATCAACGAAATTCTTTCTTTTCTTTTCTTTTCTTTTCCACGTGTGTCAT
66 TGAATGGCAAGAGAACAT-TA-G-GA---GTTC-TTTC--TTC-TTTCTTTTCCATGTATGCCAT
* * * *
3819734 TCCTTAAAACAACAAGCACTTGTCTAGGGC-T-TAAACCAAATAGACTCATCA-C-CCAATTTTC
121 TCCTTAAAACAACAAGCACTTGCCTAGGGCATATAGACCAAATAGACTCA-CACCACCTATTTCC
3819795 ATTAAAAA
185 ATTAAAAA
3819803 ATTGACAAAT
Statistics
Matches: 771, Mismatches: 86, Indels: 89
0.82 0.09 0.09
Matches are distributed among these distances:
327 72 0.09
328 1 0.00
331 3 0.00
334 2 0.00
336 3 0.00
337 123 0.16
338 2 0.00
339 1 0.00
341 2 0.00
344 2 0.00
348 1 0.00
349 1 0.00
350 2 0.00
351 1 0.00
356 1 0.00
357 5 0.01
358 280 0.36
359 8 0.01
360 3 0.00
361 5 0.01
362 3 0.00
363 164 0.21
364 16 0.02
365 6 0.01
366 19 0.02
367 7 0.01
368 38 0.05
ACGTcount: A:0.38, C:0.17, G:0.12, T:0.34
Consensus pattern (336 bp):
GAAATCTTACATTACCTTTGACAATGTGAGATTATTGAACCATATCTTTATAAACCTAACAAATT
TGAATGGCAAGAGAACATTAGGAGTTCTTTCTTCTTTCTTTTCCATGTATGCCATTCCTTAAAAC
AACAAGCACTTGCCTAGGGCATATAGACCAAATAGACTCACACCACCTATTTCCATTAAAAAGAA
AACGACAAATCTCTTAAAGTTACTAGATCTTAAATTTAGGGTGTGATTTGGTAAGACTATGAAAT
TATCGAAATATAAAATTACTTATTACATCATGGGCTCAAAGTAATATTTAAAATCCAAACATAAA
AATATTATTAA
Found at i:3819544 original size:358 final size:363
Alignment explanation
Indices: 3818798--3819943 Score: 1482
Period size: 358 Copynumber: 3.2 Consensus size: 363
3818788 TATGATTTGG
* * *
3818798 TAACAGAATTATCGAAATGTAAAATTACTTATTACATCATGGGCTCAAAGTAATCTTTGAAATCT
1 TAACAGAATTATCGAAATGTAAAATTACTTATTACATTATGGGCTCAAAGTAATATTTAAAATCT
* * * *
3818863 AAATGTAAAAATATTATTAAGAAATCTTACATTACCTTTGACAATGTAAGATTATTGAACCATAT
66 AAACGTAAAAATGTTATTCAGAAATCTTACATTACCTTTGACAATGTGAGATTATTGAACCATAT
***
3818928 CTTTCTAAACCTAACAAATTTGAATGGCAAGAGAACATTACCGGAGTTCTTTCTTTTCTTTTCTT
131 CTTTCTAAACCTAACAAATTTGAATGGCAAGAGAACATTAAAAGAGTTCTTTC-TTTCTTTTCTT
* * * * *
3818993 TTCCATGTATGCCATTACTTAAAACAACAAGTACTTGCCTAGGGTATATAGACCAAATAGACTCA
195 TTCCATGTGTGTCATTCCTTAAAACAACAAGCACTTGCCTAGGGCATATAGACCAAATAGACTCA
* * * * *
3819058 CACCA-TCCTATTTCCATTAAGAAGAAAATGACAAATCCCTTAAAGTTACTAAATATTAAATTTA
260 CACCACT-CTATTTCCATTAAAAAGAAAATGACAAATCTCTTAAAGTTATTAGATCTTAAATTTA
*
3819122 GGGTGTGATTTGGTTAAGGGAAAAT-AAGACTATCTCTGA
324 GGGTGTGATTTGGTTAAGGGAAAATAAAGATTATCTCTGA
* * *
3819161 TAACATAATTATCGAAATATAAAATTACTTATTACATTATGGGCTCAAAGTAATATTTAAAATCC
1 TAACAGAATTATCGAAATGTAAAATTACTTATTACATTATGGGCTCAAAGTAATATTTAAAATCT
* * *
3819226 AAACATAAAAATGTTATTCCGAAATCTTACATTACCTTTGACAATATGAGATTATTGAACCATAT
66 AAACGTAAAAATGTTATTCAGAAATCTTACATTACCTTTGACAATGTGAGATTATTGAACCATAT
*
3819291 CTTTTTAAACCTAACAAATTTGAATGGCAAGAGAACATTAAAAGAGTTCTTTC-TTC-TTT-TTT
131 CTTTCTAAACCTAACAAATTTGAATGGCAAGAGAACATTAAAAGAGTTCTTTCTTTCTTTTCTTT
* * *
3819353 T-CATGTGTGTCAGTCCTTAAAACAATAAGCACTTGCCTAGGGCATATAGACCAAATCGACTCAC
196 TCCATGTGTGTCATTCCTTAAAACAACAAGCACTTGCCTAGGGCATATAGACCAAATAGACTCAC
*
3819417 ACCACTCTATTTCCATTAAAAAGAAAACGACAAATCTCTTAAAGTTATTAGATCTTAAATTTAGG
261 ACCACTCTATTTCCATTAAAAAGAAAATGACAAATCTCTTAAAGTTATTAGATCTTAAATTTAGG
*
3819482 GTGTGATTTGGTTAAGGTAAAATAAAG-TTATCTCTGA
326 GTGTGATTTGGTTAAGGGAAAATAAAGATTATCTCTGA
* * *
3819519 TAACACAATTATTGAAATGTAAAATTACTTATTACATTATAGGCTCAAAGTAATATTTAAAATCT
1 TAACAGAATTATCGAAATGTAAAATTACTTATTACATTATGGGCTCAAAGTAATATTTAAAATCT
* * * *
3819584 AAACGTAAAAATGTTATTCTGAAATCTTACATTACCTTTGACAATGCGAGATTATTAAAACATAT
66 AAACGTAAAAATGTTATTCAGAAATCTTACATTACCTTTGACAATGTGAGATTATTGAACCATAT
* * * *
3819649 CTTTCTAAACCTTACAAATTTGAATGGAAAGAGAACATCAACGAA-ATTCTTTCTTTTCTTTTCT
131 CTTTCTAAACCTAACAAATTTGAATGGCAAGAGAACATTAA--AAGA---GTTC-TTTC-TTTCT
* * *
3819713 TTTCTTTTCCACGTGTGTCATTCCTTAAAACAACAAGCACTTGTCTAGGGC-T-TAAACCAAATA
189 TTTCTTTTCCATGTGTGTCATTCCTTAAAACAACAAGCACTTGCCTAGGGCATATAGACCAAATA
* * * * * * *
3819776 GACTCATCA-C-C-CAATTTTCATT--AAA-AAATTGACAAATCTCTCAAACTTATTGGACCTTA
254 GACTCA-CACCACTCTATTTCCATTAAAAAGAAAATGACAAATCTCTTAAAGTTATTAGATCTTA
* * * *
3819835 AATTTAGAGG-ATAATTTGGTTAAGGGAAAA-ATAAGATGATCTGTGA
318 AATTTAG-GGTGTGATTTGGTTAAGGGAAAATA-AAGATTATCTCTGA
* * * * * *
3819881 TTACAGAATTATCAAAATGTAAAATTACTTATTATATTATGGGCTCAAAATAATTTTTGAAAT
1 TAACAGAATTATCGAAATGTAAAATTACTTATTACATTATGGGCTCAAAGTAATATTTAAAAT
3819944 TCTTATATTA
Statistics
Matches: 689, Mismatches: 77, Indels: 35
0.86 0.10 0.04
Matches are distributed among these distances:
358 299 0.43
359 9 0.01
360 6 0.01
361 58 0.08
362 70 0.10
363 170 0.25
364 9 0.01
365 4 0.01
366 19 0.03
367 7 0.01
368 38 0.06
ACGTcount: A:0.38, C:0.15, G:0.12, T:0.34
Consensus pattern (363 bp):
TAACAGAATTATCGAAATGTAAAATTACTTATTACATTATGGGCTCAAAGTAATATTTAAAATCT
AAACGTAAAAATGTTATTCAGAAATCTTACATTACCTTTGACAATGTGAGATTATTGAACCATAT
CTTTCTAAACCTAACAAATTTGAATGGCAAGAGAACATTAAAAGAGTTCTTTCTTTCTTTTCTTT
TCCATGTGTGTCATTCCTTAAAACAACAAGCACTTGCCTAGGGCATATAGACCAAATAGACTCAC
ACCACTCTATTTCCATTAAAAAGAAAATGACAAATCTCTTAAAGTTATTAGATCTTAAATTTAGG
GTGTGATTTGGTTAAGGGAAAATAAAGATTATCTCTGA
Found at i:3822100 original size:17 final size:17
Alignment explanation
Indices: 3822080--3822115 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 17
3822070 TCTCTCTTCA
*
3822080 TTTTTTCTCTTTTT-CT
1 TTTTTTTTCTTTTTCCT
3822096 TTTTTTTTCTTTTTCCT
1 TTTTTTTTCTTTTTCCT
3822113 TTT
1 TTT
3822116 CATCTTTTTC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 13 0.72
17 5 0.28
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (17 bp):
TTTTTTTTCTTTTTCCT
Found at i:3822101 original size:16 final size:16
Alignment explanation
Indices: 3822080--3822127 Score: 55
Period size: 16 Copynumber: 3.1 Consensus size: 16
3822070 TCTCTCTTCA
3822080 TTTTTTCTCTTTTTCT
1 TTTTTTCTCTTTTTCT
*
3822096 TTTTTTTTCTTTTTC-
1 TTTTTTCTCTTTTTCT
*
3822111 -CTTTTCATCTTTTTCT
1 TTTTTTC-TCTTTTTCT
3822127 T
1 T
3822128 CTTTCACATT
Statistics
Matches: 26, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
14 4 0.15
15 8 0.31
16 14 0.54
ACGTcount: A:0.02, C:0.19, G:0.00, T:0.79
Consensus pattern (16 bp):
TTTTTTCTCTTTTTCT
Found at i:3822132 original size:16 final size:15
Alignment explanation
Indices: 3822081--3822133 Score: 54
Period size: 15 Copynumber: 3.5 Consensus size: 15
3822071 CTCTCTTCAT
3822081 TTTTTC-TCTTTTTC
1 TTTTTCATCTTTTTC
**
3822095 TTTTTTTTTCTTTTTC
1 -TTTTTCATCTTTTTC
*
3822111 CTTTTCATCTTTTTC
1 TTTTTCATCTTTTTC
3822126 TTCTTTCA
1 TT-TTTCA
3822134 CATTTTTTGT
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
15 18 0.58
16 13 0.42
ACGTcount: A:0.04, C:0.21, G:0.00, T:0.75
Consensus pattern (15 bp):
TTTTTCATCTTTTTC
Found at i:3824055 original size:18 final size:18
Alignment explanation
Indices: 3824019--3824060 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 18
3824009 TGCTTTTCAG
*
3824019 AAGTATTTTTGGGACAAA
1 AAGTATTTTTGAGACAAA
* *
3824037 AAGTGTTTTTGAGA-TAA
1 AAGTATTTTTGAGACAAA
3824054 AAGTATT
1 AAGTATT
3824061 CCTAAACAAT
Statistics
Matches: 20, Mismatches: 4, Indels: 1
0.80 0.16 0.04
Matches are distributed among these distances:
17 8 0.40
18 12 0.60
ACGTcount: A:0.38, C:0.02, G:0.21, T:0.38
Consensus pattern (18 bp):
AAGTATTTTTGAGACAAA
Found at i:3828168 original size:21 final size:22
Alignment explanation
Indices: 3828142--3828190 Score: 59
Period size: 21 Copynumber: 2.3 Consensus size: 22
3828132 GATATATGTG
3828142 ATATTTAATATAA-CA-TTTTAA
1 ATATTTAAT-TAATCATTTTTAA
*
3828163 ATATTTTATTAATCATTTTTAA
1 ATATTTAATTAATCATTTTTAA
3828185 A-ATTTA
1 ATATTTA
3828191 TAGTTATTTC
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
20 3 0.12
21 14 0.58
22 7 0.29
ACGTcount: A:0.43, C:0.04, G:0.00, T:0.53
Consensus pattern (22 bp):
ATATTTAATTAATCATTTTTAA
Found at i:3831819 original size:20 final size:20
Alignment explanation
Indices: 3831796--3831860 Score: 60
Period size: 20 Copynumber: 3.1 Consensus size: 20
3831786 ATTGTTACTT
3831796 TATTTATATATTTATAATTA
1 TATTTATATATTTATAATTA
* * *
3831816 TATTTATCTTTTTGTAATTA
1 TATTTATATATTTATAATTA
*
3831836 TATGCTTTTATA-TTATAATTTA
1 TAT--TTATATATTTATAA-TTA
3831858 TAT
1 TAT
3831861 AGAAATTATT
Statistics
Matches: 35, Mismatches: 7, Indels: 4
0.76 0.15 0.09
Matches are distributed among these distances:
20 20 0.57
21 5 0.14
22 10 0.29
ACGTcount: A:0.32, C:0.03, G:0.03, T:0.62
Consensus pattern (20 bp):
TATTTATATATTTATAATTA
Found at i:3841127 original size:127 final size:127
Alignment explanation
Indices: 3840879--3841132 Score: 438
Period size: 127 Copynumber: 2.0 Consensus size: 127
3840869 AATTCATCTC
3840879 CTTCACCAATTTTATCAATGATTGGAAAAAATAAATCGAATAGGATATAAAAAATATGGGTAAAT
1 CTTCACCAATTTTATCAATGATTGGAAAAAATAAATCGAATAGGATAT-AAAAATATGGGTAAAT
* *
3840944 TTAAAAATAGTCACTTTTATTTGTCTCAGATTACATTTTAGTCACTTATGTTTGAAATGTTAT
65 TTAAAAATAGTCACTTTTATTTGTCTCAGATTACATTTTAGTCACATATATTTGAAATGTTAT
*
3841007 CTTCACTAATTTTATCAATGATTGGAAAAAATAAATCGAATAGGATAT-AAAATATGGGTAAATT
1 CTTCACCAATTTTATCAATGATTGGAAAAAATAAATCGAATAGGATATAAAAATATGGGTAAATT
* *
3841071 GTAAAAATAGTCACTTTTATTTGTCTCAGGTTATATTTTAGTCACATATATTTGAAATGTTA
66 -TAAAAATAGTCACTTTTATTTGTCTCAGATTACATTTTAGTCACATATATTTGAAATGTTA
3841133 CGTCATTGTT
Statistics
Matches: 120, Mismatches: 5, Indels: 3
0.94 0.04 0.02
Matches are distributed among these distances:
126 16 0.13
127 57 0.47
128 47 0.39
ACGTcount: A:0.39, C:0.09, G:0.13, T:0.39
Consensus pattern (127 bp):
CTTCACCAATTTTATCAATGATTGGAAAAAATAAATCGAATAGGATATAAAAATATGGGTAAATT
TAAAAATAGTCACTTTTATTTGTCTCAGATTACATTTTAGTCACATATATTTGAAATGTTAT
Found at i:3845909 original size:20 final size:20
Alignment explanation
Indices: 3845867--3845909 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
3845857 ATTTACCCAA
* *
3845867 ATTATTAGTATTATTATTAT
1 ATTAGTAGTATTATAATTAT
3845887 ATTAGTAGTATTTATAATT-T
1 ATTAGTAGTA-TTATAATTAT
3845907 ATT
1 ATT
3845910 TAAATTATAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 13 0.65
21 7 0.35
ACGTcount: A:0.35, C:0.00, G:0.07, T:0.58
Consensus pattern (20 bp):
ATTAGTAGTATTATAATTAT
Found at i:3854523 original size:142 final size:142
Alignment explanation
Indices: 3854267--3854539 Score: 537
Period size: 142 Copynumber: 1.9 Consensus size: 142
3854257 CTTTAAGCCA
3854267 AAATTCTATCAGCTCGCATCTAATCCGTTACCGGTGTTTCCTCCTCGAGTTTGTAGTCTTAAATA
1 AAATTCTATCAGCTCGCATCTAATCCGTTACCGGTGTTTCCTCCTCGAGTTTGTAGTCTTAAATA
3854332 CTGTAAATGTGATTGAAGTTGGCACTTCACTATTATTGATACTGTTACTGTTATACTGTGCCGAT
66 CTGTAAATGTGATTGAAGTTGGCACTTCACTATTATTGATACTGTTACTGTTATACTGTGCCGAT
3854397 ACTGTTACTGTT
131 ACTGTTACTGTT
3854409 AAATTCTATCAGCTCGCATCTAATCCGTTACCGGTGTTTCCTCCTCGAGTTTGTAGTCTTAAATA
1 AAATTCTATCAGCTCGCATCTAATCCGTTACCGGTGTTTCCTCCTCGAGTTTGTAGTCTTAAATA
*
3854474 CTGTAAATGTGATTGAAGTTGGCACTTCACTATTATTGATACTGTTACTGTTATATTGTGCCGAT
66 CTGTAAATGTGATTGAAGTTGGCACTTCACTATTATTGATACTGTTACTGTTATACTGTGCCGAT
3854539 A
131 A
3854540 GTGGGGCTTG
Statistics
Matches: 130, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
142 130 1.00
ACGTcount: A:0.24, C:0.19, G:0.18, T:0.39
Consensus pattern (142 bp):
AAATTCTATCAGCTCGCATCTAATCCGTTACCGGTGTTTCCTCCTCGAGTTTGTAGTCTTAAATA
CTGTAAATGTGATTGAAGTTGGCACTTCACTATTATTGATACTGTTACTGTTATACTGTGCCGAT
ACTGTTACTGTT
Found at i:3857517 original size:31 final size:31
Alignment explanation
Indices: 3857451--3857532 Score: 114
Period size: 31 Copynumber: 2.7 Consensus size: 31
3857441 TGTTGATGTA
*
3857451 GAGGACTTAATTGATTTTTT-ATTAATTTAC
1 GAGGGCTTAATTGATTTTTTAATTAATTTAC
* *
3857481 GAGGGCTTAATTTATTTTTTAATTATTTTA-
1 GAGGGCTTAATTGATTTTTTAATTAATTTAC
3857511 GAAGGGCTTAATTGATTTTTTA
1 G-AGGGCTTAATTGATTTTTTA
3857533 CGTATTATAT
Statistics
Matches: 46, Mismatches: 4, Indels: 3
0.87 0.08 0.06
Matches are distributed among these distances:
30 19 0.41
31 27 0.59
ACGTcount: A:0.28, C:0.05, G:0.16, T:0.51
Consensus pattern (31 bp):
GAGGGCTTAATTGATTTTTTAATTAATTTAC
Found at i:3857991 original size:29 final size:28
Alignment explanation
Indices: 3857908--3858000 Score: 78
Period size: 30 Copynumber: 3.1 Consensus size: 28
3857898 TTTCAAAATT
* * * *
3857908 TTTTTATAATCTTTTATTAATTTTTGTTG
1 TTTTTATAATATTTT-TTAATATTTCTTA
* *
3857937 TTTTTATATAAATTTTTTTATCATTTCTTA
1 TTTTTATA-ATATTTTTTAAT-ATTTCTTA
3857967 TTTTTATAATATTTATTTAATATTTTCATTA
1 TTTTTATAATATTT-TTTAATA-TTTC-TTA
3857998 TTT
1 TTT
3858001 CATAACATAT
Statistics
Matches: 51, Mismatches: 8, Indels: 8
0.76 0.12 0.12
Matches are distributed among these distances:
29 18 0.35
30 27 0.53
31 6 0.12
ACGTcount: A:0.26, C:0.04, G:0.02, T:0.68
Consensus pattern (28 bp):
TTTTTATAATATTTTTTAATATTTCTTA
Found at i:3858049 original size:9 final size:9
Alignment explanation
Indices: 3858013--3858096 Score: 53
Period size: 10 Copynumber: 8.9 Consensus size: 9
3858003 TAACATATTA
3858013 ATAATATTTT
1 ATAAT-TTTT
**
3858023 ATAAAATTT
1 ATAATTTTT
*
3858032 AGTAGTTTTT
1 A-TAATTTTT
3858042 ATAA-TTTT
1 ATAATTTTT
3858050 ATAATTTTT
1 ATAATTTTT
* *
3858059 ATGATATTTG
1 ATAAT-TTTT
*
3858069 ATAATTTTG
1 ATAATTTTT
*
3858078 GTAGATTTTCT
1 ATA-ATTTT-T
3858089 ATAATTTT
1 ATAATTTT
3858097 CAAAAGTTTT
Statistics
Matches: 57, Mismatches: 12, Indels: 10
0.72 0.15 0.13
Matches are distributed among these distances:
8 8 0.14
9 20 0.35
10 27 0.47
11 2 0.04
ACGTcount: A:0.33, C:0.01, G:0.08, T:0.57
Consensus pattern (9 bp):
ATAATTTTT
Found at i:3858057 original size:17 final size:18
Alignment explanation
Indices: 3858013--3858076 Score: 58
Period size: 19 Copynumber: 3.4 Consensus size: 18
3858003 TAACATATTA
*
3858013 ATAATATTTTATAAAATTT
1 ATAAT-TTTTATAAATTTT
*
3858032 AGTAGTTTTTAT-AATTTT
1 A-TAATTTTTATAAATTTT
* *
3858050 ATAATTTTTATGATATTTG
1 ATAATTTTTAT-AAATTTT
3858069 ATAATTTT
1 ATAATTTT
3858077 GGTAGATTTT
Statistics
Matches: 37, Mismatches: 5, Indels: 6
0.77 0.10 0.12
Matches are distributed among these distances:
17 9 0.24
18 6 0.16
19 19 0.51
20 3 0.08
ACGTcount: A:0.36, C:0.00, G:0.06, T:0.58
Consensus pattern (18 bp):
ATAATTTTTATAAATTTT
Found at i:3861401 original size:31 final size:34
Alignment explanation
Indices: 3861345--3861440 Score: 94
Period size: 31 Copynumber: 2.9 Consensus size: 34
3861335 TAAATTTTAA
* *
3861345 AAAAATAAACATATTATCAATTAAATTTAAA-TATT
1 AAAAATAAAAATA-TAT-AACTAAATTTAAATTATT
*
3861380 AAAAATTAAAAA-ATA-AA-TAAA-TTAAATTCTT
1 AAAAA-TAAAAATATATAACTAAATTTAAATTATT
3861411 AAAAATAAAAATATATTAACTAAATTTAAA
1 AAAAATAAAAATATA-TAACTAAATTTAAA
3861441 ATTTGAGGAA
Statistics
Matches: 52, Mismatches: 2, Indels: 14
0.76 0.03 0.21
Matches are distributed among these distances:
30 11 0.21
31 15 0.29
32 2 0.04
33 2 0.04
34 6 0.12
35 11 0.21
36 5 0.10
ACGTcount: A:0.62, C:0.04, G:0.00, T:0.33
Consensus pattern (34 bp):
AAAAATAAAAATATATAACTAAATTTAAATTATT
Found at i:3870364 original size:23 final size:22
Alignment explanation
Indices: 3870338--3870388 Score: 57
Period size: 23 Copynumber: 2.3 Consensus size: 22
3870328 TTTTTAAAAC
*
3870338 TTTAAATCTTGTCTAAAAGATAT
1 TTTAAATCTTGTATAAAA-ATAT
* * *
3870361 TTTAATTGTTTTATAAAAATAT
1 TTTAAATCTTGTATAAAAATAT
3870383 TTTAAA
1 TTTAAA
3870389 CTTTCAATTC
Statistics
Matches: 23, Mismatches: 5, Indels: 1
0.79 0.17 0.03
Matches are distributed among these distances:
22 9 0.39
23 14 0.61
ACGTcount: A:0.41, C:0.04, G:0.06, T:0.49
Consensus pattern (22 bp):
TTTAAATCTTGTATAAAAATAT
Found at i:3876041 original size:17 final size:16
Alignment explanation
Indices: 3876018--3876058 Score: 50
Period size: 17 Copynumber: 2.6 Consensus size: 16
3876008 ATAGTAAAAA
3876018 TATAATTTTAT-TATT
1 TATAATTTTATATATT
3876033 TCAATAA-TTTATATATT
1 T--ATAATTTTATATATT
3876050 TATAATTTT
1 TATAATTTT
3876059 TAAAAGGTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 7
0.76 0.00 0.24
Matches are distributed among these distances:
15 5 0.23
16 8 0.36
17 9 0.41
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (16 bp):
TATAATTTTATATATT
Found at i:3878947 original size:16 final size:16
Alignment explanation
Indices: 3878921--3878974 Score: 90
Period size: 16 Copynumber: 3.4 Consensus size: 16
3878911 TTTGGTTCGC
*
3878921 TGTATTGGAATAGAGG
1 TGTAATGGAATAGAGG
*
3878937 CGTAATGGAATAGAGG
1 TGTAATGGAATAGAGG
3878953 TGTAATGGAATAGAGG
1 TGTAATGGAATAGAGG
3878969 TGTAAT
1 TGTAAT
3878975 AGCAAATCAA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 35 1.00
ACGTcount: A:0.35, C:0.02, G:0.35, T:0.28
Consensus pattern (16 bp):
TGTAATGGAATAGAGG
Found at i:3879225 original size:16 final size:16
Alignment explanation
Indices: 3879188--3879229 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
3879178 TTAATCATAT
*
3879188 TTAAACATA-ATTATTA
1 TTAAA-ATATATTATAA
3879204 TT-AAATATATTATAA
1 TTAAAATATATTATAA
3879219 TTAAAATATAT
1 TTAAAATATAT
3879230 AATTTAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 3 0.13
15 10 0.43
16 10 0.43
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (16 bp):
TTAAAATATATTATAA
Found at i:3879236 original size:14 final size:15
Alignment explanation
Indices: 3879197--3879238 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
3879187 TTTAAACATA
*
3879197 ATTATTATTAAATAT
1 ATTATAATTAAATAT
3879212 ATTATAATTAAA-AT
1 ATTATAATTAAATAT
*
3879226 A-TATAATTTAATA
1 ATTATAATTAAATA
3879239 AAATTCTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 9 0.38
14 4 0.17
15 11 0.46
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATTATAATTAAATAT
Found at i:3879336 original size:120 final size:120
Alignment explanation
Indices: 3879191--3879625 Score: 789
Period size: 120 Copynumber: 3.6 Consensus size: 120
3879181 ATCATATTTA
3879191 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATCAA
1 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATCAA
3879256 TATTCTTATATGAATTTACTGAAATCATAATATATGATACTATAAAATATAAATT
66 TATTCTTATATGAATTTACTGAAATCATAATATATGATACTATAAAATATAAATT
3879311 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATCAA
1 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATCAA
*
3879376 TATTCTTATATGTATTTACTGAAATCATAATATATGATACTATAAAATATAAATT
66 TATTCTTATATGAATTTACTGAAATCATAATATATGATACTATAAAATATAAATT
* * *
3879431 AACATAATTATTATTAAATATTTTTTAATTAAAATATATAATTTAATAAAATTCATAATAATCAA
1 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATCAA
* * *
3879496 TATTCTTATATAAATTTACTAAAATCATAATATATGATACTATAAAATATAATTT
66 TATTCTTATATGAATTTACTGAAATCATAATATATGATACTATAAAATATAAATT
* *
3879551 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAATTTCTTAATAATCAA
1 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATCAA
3879616 TATTCTTATA
66 TATTCTTATA
3879626 ACAAAAATTC
Statistics
Matches: 304, Mismatches: 11, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
120 304 1.00
ACGTcount: A:0.49, C:0.06, G:0.02, T:0.43
Consensus pattern (120 bp):
AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATCAA
TATTCTTATATGAATTTACTGAAATCATAATATATGATACTATAAAATATAAATT
Found at i:3879356 original size:14 final size:15
Alignment explanation
Indices: 3879307--3879358 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
3879297 ATAAAATATA
3879307 AATTAACATA-ATTAT
1 AATTAA-ATATATTAT
*
3879322 TATTAAATATATTAT
1 AATTAAATATATTAT
3879337 AATTAAA-ATA-TAT
1 AATTAAATATATTAT
*
3879350 AATTTAATA
1 AATTAAATA
3879359 AAATTCTTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 9 0.28
14 7 0.22
15 16 0.50
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (15 bp):
AATTAAATATATTAT
Found at i:3887036 original size:34 final size:33
Alignment explanation
Indices: 3886967--3887064 Score: 115
Period size: 34 Copynumber: 2.8 Consensus size: 33
3886957 ATAATTTTTC
*
3886967 AAACACATATGCCAAAAGCATATATTTATACTTAT
1 AAACACATATGCCAAATGCATATA--TATACTTAT
*
3887002 AAACTACATGTGCCAAATGCATATATATACTTAT
1 AAAC-ACATATGCCAAATGCATATATATACTTAT
* * *
3887036 AATCCACATATGCCGAATGCATACATATA
1 AA-ACACATATGCCAAATGCATATATATA
3887065 TATATCCAAC
Statistics
Matches: 55, Mismatches: 6, Indels: 5
0.83 0.09 0.08
Matches are distributed among these distances:
34 32 0.58
35 5 0.09
36 18 0.33
ACGTcount: A:0.43, C:0.19, G:0.08, T:0.30
Consensus pattern (33 bp):
AAACACATATGCCAAATGCATATATATACTTAT
Found at i:3887290 original size:41 final size:41
Alignment explanation
Indices: 3887232--3887322 Score: 137
Period size: 41 Copynumber: 2.2 Consensus size: 41
3887222 CTTAATTTAA
3887232 CAGATTCACCGGCACTTAGCCTACTAGGCTTATAACCTGATT
1 CAGA-TCACCGGCACTTAGCCTACTAGGCTTATAACCTGATT
* * *
3887274 CAGATCACCGGCACTTAGCCTGCTAGGCTTATAGCGTGATT
1 CAGATCACCGGCACTTAGCCTACTAGGCTTATAACCTGATT
*
3887315 CAGTTCAC
1 CAGATCAC
3887323 ATAAGATATA
Statistics
Matches: 45, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
41 41 0.91
42 4 0.09
ACGTcount: A:0.24, C:0.29, G:0.20, T:0.27
Consensus pattern (41 bp):
CAGATCACCGGCACTTAGCCTACTAGGCTTATAACCTGATT
Found at i:3889461 original size:21 final size:21
Alignment explanation
Indices: 3889435--3889499 Score: 60
Period size: 21 Copynumber: 3.1 Consensus size: 21
3889425 GTTTAATTCA
3889435 TATGAGTTTTCATTTAGCTCT
1 TATGAGTTTTCATTTAGCTCT
* * * * *
3889456 TTTGAG-CTTCTGTTTAACCCT
1 TATGAGTTTTC-ATTTAGCTCT
*
3889477 TATGAGTTTCCATTTAGCTCT
1 TATGAGTTTTCATTTAGCTCT
3889498 TA
1 TA
3889500 CGAGCTTCTG
Statistics
Matches: 31, Mismatches: 11, Indels: 4
0.67 0.24 0.09
Matches are distributed among these distances:
20 3 0.10
21 26 0.84
22 2 0.06
ACGTcount: A:0.18, C:0.18, G:0.14, T:0.49
Consensus pattern (21 bp):
TATGAGTTTTCATTTAGCTCT
Found at i:3889467 original size:42 final size:42
Alignment explanation
Indices: 3889399--3889516 Score: 148
Period size: 42 Copynumber: 2.8 Consensus size: 42
3889389 GCTGTTACAC
* **
3889399 TTTTCATTTAGCT-TTCTCGAGTTTCTGTTTAATTCATATGAG
1 TTTTCATTTAGCTCTT-TCGAGCTTCTGTTTAACCCATATGAG
* *
3889441 TTTTCATTTAGCTCTTTTGAGCTTCTGTTTAACCCTTATGAG
1 TTTTCATTTAGCTCTTTCGAGCTTCTGTTTAACCCATATGAG
* * *
3889483 TTTCCATTTAGCTCTTACGAGCTTCTGTTCAACC
1 TTTTCATTTAGCTCTTTCGAGCTTCTGTTTAACC
3889517 TTTATGGGTT
Statistics
Matches: 66, Mismatches: 9, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
42 64 0.97
43 2 0.03
ACGTcount: A:0.18, C:0.20, G:0.14, T:0.48
Consensus pattern (42 bp):
TTTTCATTTAGCTCTTTCGAGCTTCTGTTTAACCCATATGAG
Found at i:3889522 original size:42 final size:42
Alignment explanation
Indices: 3889435--3889556 Score: 154
Period size: 42 Copynumber: 2.9 Consensus size: 42
3889425 GTTTAATTCA
* * *
3889435 TATGAGTTTTCATTTAGCTCTTTTGAGCTTCTGTTTAACCCT
1 TATGAGTTTCCATTTAGCTCTTATGAGCTTCTGTTCAACCCT
* *
3889477 TATGAGTTTCCATTTAGCTCTTACGAGCTTCTGTTCAACCTT
1 TATGAGTTTCCATTTAGCTCTTATGAGCTTCTGTTCAACCCT
* ** * *
3889519 TATGGGTTTCTGTTTAGCTCTTATGAACTTTTGTTCAA
1 TATGAGTTTCCATTTAGCTCTTATGAGCTTCTGTTCAA
3889557 TCTTCAGGCT
Statistics
Matches: 69, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
42 69 1.00
ACGTcount: A:0.18, C:0.19, G:0.16, T:0.48
Consensus pattern (42 bp):
TATGAGTTTCCATTTAGCTCTTATGAGCTTCTGTTCAACCCT
Found at i:3889542 original size:21 final size:21
Alignment explanation
Indices: 3889447--3889553 Score: 81
Period size: 21 Copynumber: 5.1 Consensus size: 21
3889437 TGAGTTTTCA
*
3889447 TTTAGCTCTTTTGAGCTTCTG
1 TTTAGCTCTTATGAGCTTCTG
* * * **
3889468 TTTAACCCTTATGAGTTTCCA
1 TTTAGCTCTTATGAGCTTCTG
*
3889489 TTTAGCTCTTACGAGCTTCTG
1 TTTAGCTCTTATGAGCTTCTG
* * * *
3889510 TTCAAC-CTTTATGGGTTTCTG
1 TTTAGCTC-TTATGAGCTTCTG
* *
3889531 TTTAGCTCTTATGAACTTTTG
1 TTTAGCTCTTATGAGCTTCTG
3889552 TT
1 TT
3889554 CAATCTTCAG
Statistics
Matches: 61, Mismatches: 23, Indels: 4
0.69 0.26 0.05
Matches are distributed among these distances:
20 1 0.02
21 59 0.97
22 1 0.02
ACGTcount: A:0.16, C:0.20, G:0.16, T:0.49
Consensus pattern (21 bp):
TTTAGCTCTTATGAGCTTCTG
Found at i:3890477 original size:21 final size:20
Alignment explanation
Indices: 3890442--3890480 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
3890432 CTGCACATAG
3890442 GAAAAATTTTGAAATTTTGT
1 GAAAAATTTTGAAATTTTGT
*
3890462 GAAAAATTCTTTAAATTTT
1 GAAAAATT-TTGAAATTTT
3890481 CGGTTTAGTC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.41, C:0.03, G:0.10, T:0.46
Consensus pattern (20 bp):
GAAAAATTTTGAAATTTTGT
Found at i:3891175 original size:42 final size:42
Alignment explanation
Indices: 3891099--3891452 Score: 419
Period size: 42 Copynumber: 8.4 Consensus size: 42
3891089 ACGTCGCTAG
* * *
3891099 CTTTTGCGGCGCTTACATAAAAAAACGCCGCTAAAGATTATGTT
1 CTTTAGCGGCGCTT--AGAAAAAAACGCCGCTAAAGATCATGTT
* * *
3891143 CTTTAGCAGCGCTTAGGAAAAAACGCCACTAAAGATCATGTT
1 CTTTAGCGGCGCTTAGAAAAAAACGCCGCTAAAGATCATGTT
* *
3891185 CTTTAGCAGCGCTTAGAAAAAAACGCCGCTAAAAATCATGTT
1 CTTTAGCGGCGCTTAGAAAAAAACGCCGCTAAAGATCATGTT
3891227 CTTTAGCGGCGCTTAGAAAAAAACGCCGCTAAAGATCATGTT
1 CTTTAGCGGCGCTTAGAAAAAAACGCCGCTAAAGATCATGTT
* *
3891269 CTTTAGCGGTGCTTATAAAAAAACGCCGCTAAAGATCATGTT
1 CTTTAGCGGCGCTTAGAAAAAAACGCCGCTAAAGATCATGTT
* * * *
3891311 CTTTAGCGGCGCTTATAAAAAAACGCCACTAAAGAACATGAT
1 CTTTAGCGGCGCTTAGAAAAAAACGCCGCTAAAGATCATGTT
** * *
3891353 CTTTAGCGGCGCTTTAGAGGAAAACGCCTCTAAA-AGTAATGTT
1 CTTTAGCGGCGC-TTAGAAAAAAACGCCGCTAAAGA-TCATGTT
* ** *
3891396 CTATAGCGGCGCTT-GTTCAAAAACGCCGCTAAA-AGT-AGTATT
1 CTTTAGCGGCGCTTAG-AAAAAAACGCCGCTAAAGA-TCA-TGTT
3891438 CTTTAGCGGCGCTTA
1 CTTTAGCGGCGCTTA
3891453 TTTCACAAAC
Statistics
Matches: 274, Mismatches: 31, Indels: 11
0.87 0.10 0.03
Matches are distributed among these distances:
41 2 0.01
42 228 0.83
43 32 0.12
44 12 0.04
ACGTcount: A:0.33, C:0.21, G:0.20, T:0.26
Consensus pattern (42 bp):
CTTTAGCGGCGCTTAGAAAAAAACGCCGCTAAAGATCATGTT
Found at i:3891890 original size:12 final size:12
Alignment explanation
Indices: 3891873--3891912 Score: 53
Period size: 12 Copynumber: 3.3 Consensus size: 12
3891863 TTTTGAACCT
*
3891873 CTGCTTCTATTG
1 CTGCTTCTATCG
*
3891885 CTGCTTCTCTCG
1 CTGCTTCTATCG
*
3891897 CTGCTTCTCTCG
1 CTGCTTCTATCG
3891909 CTGC
1 CTGC
3891913 AGCCTCTGCT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
12 26 1.00
ACGTcount: A:0.03, C:0.38, G:0.17, T:0.42
Consensus pattern (12 bp):
CTGCTTCTATCG
Found at i:3891923 original size:21 final size:21
Alignment explanation
Indices: 3891897--3891959 Score: 90
Period size: 21 Copynumber: 3.0 Consensus size: 21
3891887 GCTTCTCTCG
3891897 CTGCTTCTCTCGCTGCAGCCT
1 CTGCTTCTCTCGCTGCAGCCT
*
3891918 CTGCTTCTCTCGCTGTAGCCT
1 CTGCTTCTCTCGCTGCAGCCT
* * *
3891939 CTGCTTCCCTCACTGCCGCCT
1 CTGCTTCTCTCGCTGCAGCCT
3891960 GTACTTTAAG
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 37 1.00
ACGTcount: A:0.05, C:0.44, G:0.17, T:0.33
Consensus pattern (21 bp):
CTGCTTCTCTCGCTGCAGCCT
Found at i:3894613 original size:40 final size:41
Alignment explanation
Indices: 3894569--3894711 Score: 112
Period size: 40 Copynumber: 3.3 Consensus size: 41
3894559 ATATGTATAA
3894569 TATTAA-AAAATAGTAATACTTATTTAAGTTATAAATTTAT
1 TATTAATAAAATAGTAATACTTATTTAAGTTATAAATTTAT
* ** * *
3894609 TATTAATAAAATTTA-AATATAGCTTACATACGTAAATGAATATATGTAT
1 TATTAATAAAA--TAGTA-ATA-CTTATTTAAGT-TAT-AA-AT-T-TAT
*
3894658 AATATTAAAAAAATAGTAATACTTATTT-AGTTATAAATTTAT
1 --TATTAATAAAATAGTAATACTTATTTAAGTTATAAATTTAT
3894700 TATTAATAAAAT
1 TATTAATAAAAT
3894712 TTAAATATAG
Statistics
Matches: 78, Mismatches: 12, Indels: 26
0.67 0.10 0.22
Matches are distributed among these distances:
40 17 0.22
41 4 0.05
42 4 0.05
43 6 0.08
44 10 0.13
45 4 0.05
46 4 0.05
47 4 0.05
48 6 0.08
49 8 0.10
50 1 0.01
51 10 0.13
ACGTcount: A:0.49, C:0.03, G:0.06, T:0.42
Consensus pattern (41 bp):
TATTAATAAAATAGTAATACTTATTTAAGTTATAAATTTAT
Found at i:3894640 original size:91 final size:92
Alignment explanation
Indices: 3894278--3894740 Score: 885
Period size: 92 Copynumber: 5.0 Consensus size: 92
3894268 CTATTGAATG
3894278 GAATATATGTATAATATTAAAAAGAATAGTAATACTTATTTAAGTTATAAATTTATTATTAATAA
1 GAATATATGTATAATATTAAAAA-AATAGTAATACTTATTTAAGTTATAAATTTATTATTAATAA
3894343 AATTTAAATATAGCTTACATACGTAAAT
65 AATTTAAATATAGCTTACATACGTAAAT
*
3894371 GAATATATATATAATATTAAAAAAATAGTAATACTTATTTAAGTTATAAATTTATTATTAATAAA
1 GAATATATGTATAATATTAAAAAAATAGTAATACTTATTTAAGTTATAAATTTATTATTAATAAA
3894436 ATTTAAATATAGCTTACATACGTAAAT
66 ATTTAAATATAGCTTACATACGTAAAT
*
3894463 GAATATATGTATAATATTAAACAAATAGTAATACTTATTTAAGTTATAAATTTATTATTAATAAA
1 GAATATATGTATAATATTAAAAAAATAGTAATACTTATTTAAGTTATAAATTTATTATTAATAAA
3894528 ATTTAAATATAGCTTACATACGTAAAT
66 ATTTAAATATAGCTTACATACGTAAAT
3894555 GAATATATGTATAATATT-AAAAAATAGTAATACTTATTTAAGTTATAAATTTATTATTAATAAA
1 GAATATATGTATAATATTAAAAAAATAGTAATACTTATTTAAGTTATAAATTTATTATTAATAAA
3894619 ATTTAAATATAGCTTACATACGTAAAT
66 ATTTAAATATAGCTTACATACGTAAAT
3894646 GAATATATGTATAATATTAAAAAAATAGTAATACTTATTT-AGTTATAAATTTATTATTAATAAA
1 GAATATATGTATAATATTAAAAAAATAGTAATACTTATTTAAGTTATAAATTTATTATTAATAAA
3894710 ATTTAAATATAGCTTACATACGTAAAT
66 ATTTAAATATAGCTTACATACGTAAAT
3894737 GAAT
1 GAAT
3894741 GCTTTTAAAC
Statistics
Matches: 365, Mismatches: 4, Indels: 4
0.98 0.01 0.01
Matches are distributed among these distances:
91 145 0.40
92 198 0.54
93 22 0.06
ACGTcount: A:0.49, C:0.05, G:0.07, T:0.40
Consensus pattern (92 bp):
GAATATATGTATAATATTAAAAAAATAGTAATACTTATTTAAGTTATAAATTTATTATTAATAAA
ATTTAAATATAGCTTACATACGTAAAT
Found at i:3895216 original size:14 final size:14
Alignment explanation
Indices: 3895178--3895216 Score: 51
Period size: 15 Copynumber: 2.7 Consensus size: 14
3895168 ACAGTAAGAC
*
3895178 ATTTGCACATCAAA
1 ATTTGCACATAAAA
*
3895192 ATTTCCTACATAAAA
1 ATTTGC-ACATAAAA
3895207 ATTTGCACAT
1 ATTTGCACAT
3895217 CAAATCCTTT
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
14 9 0.43
15 12 0.57
ACGTcount: A:0.41, C:0.21, G:0.05, T:0.33
Consensus pattern (14 bp):
ATTTGCACATAAAA
Found at i:3896756 original size:23 final size:23
Alignment explanation
Indices: 3896726--3896770 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
3896716 CAATATTAAT
*
3896726 ATATATAT-GTTTCATAATATATA
1 ATATATATCGTTGCAT-ATATATA
3896749 ATATATATCGTTGCATATATAT
1 ATATATATCGTTGCATATATAT
3896771 CTTTTTCTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 14 0.70
24 6 0.30
ACGTcount: A:0.40, C:0.07, G:0.07, T:0.47
Consensus pattern (23 bp):
ATATATATCGTTGCATATATATA
Found at i:3897826 original size:23 final size:23
Alignment explanation
Indices: 3897796--3897840 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
3897786 CAATATTAAT
*
3897796 ATATATAT-GTTTCATAATATATA
1 ATATATATCGTTGCAT-ATATATA
3897819 ATATATATCGTTGCATATATAT
1 ATATATATCGTTGCATATATAT
3897841 CTTTTTCTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 14 0.70
24 6 0.30
ACGTcount: A:0.40, C:0.07, G:0.07, T:0.47
Consensus pattern (23 bp):
ATATATATCGTTGCATATATATA
Found at i:3905582 original size:34 final size:35
Alignment explanation
Indices: 3905510--3905583 Score: 89
Period size: 34 Copynumber: 2.1 Consensus size: 35
3905500 ATAAAAAATT
* * *
3905510 TAAAAGAATAATTTATTTATTTTTAATTTAATATA
1 TAAAAGAATAATTTATTTATTTTTAATATAAGAAA
*
3905545 TAAAA-AATTATTTATTTATTTTTAA-ATAGAGAAA
1 TAAAAGAATAATTTATTTATTTTTAATATA-AGAAA
3905579 TAAAA
1 TAAAA
3905584 TGCAATCTAA
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
33 2 0.06
34 27 0.79
35 5 0.15
ACGTcount: A:0.50, C:0.00, G:0.04, T:0.46
Consensus pattern (35 bp):
TAAAAGAATAATTTATTTATTTTTAATATAAGAAA
Found at i:3915145 original size:26 final size:23
Alignment explanation
Indices: 3915102--3915152 Score: 57
Period size: 24 Copynumber: 2.1 Consensus size: 23
3915092 AATTTATTGG
3915102 TACTAGTCTCATTCCACCGCCTCTA
1 TACTAGTCTCATTCCA-C-CCTCTA
* *
3915127 TACTAGTTCTCCTTTCACCCTCTA
1 TACTAG-TCTCATTCCACCCTCTA
3915151 TA
1 TA
3915153 AGGTTATTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
24 8 0.35
25 7 0.30
26 8 0.35
ACGTcount: A:0.20, C:0.37, G:0.06, T:0.37
Consensus pattern (23 bp):
TACTAGTCTCATTCCACCCTCTA
Found at i:3927844 original size:35 final size:35
Alignment explanation
Indices: 3927798--3927871 Score: 103
Period size: 35 Copynumber: 2.1 Consensus size: 35
3927788 GGAAATGAAG
* * * *
3927798 AATATTAAAAAATAAATTTTTTTATTAGTTGTTAA
1 AATATCAAAAAATAAAATTTCTTATTAGTTGTCAA
*
3927833 AATATCAAAAAATAAAATTTCTTATTATTTGTCAA
1 AATATCAAAAAATAAAATTTCTTATTAGTTGTCAA
3927868 AATA
1 AATA
3927872 ATTGCATTTA
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.49, C:0.04, G:0.04, T:0.43
Consensus pattern (35 bp):
AATATCAAAAAATAAAATTTCTTATTAGTTGTCAA
Found at i:3946836 original size:5 final size:5
Alignment explanation
Indices: 3946828--3946880 Score: 63
Period size: 5 Copynumber: 10.4 Consensus size: 5
3946818 TTAAGTTTTC
* *
3946828 TCGAA TCGAA TCGAG T-GAGA TGGAA TTCGAA TCGAA TCGAA TCGAA TCGAA
1 TCGAA TCGAA TCGAA TCGA-A TCGAA -TCGAA TCGAA TCGAA TCGAA TCGAA
3946879 TC
1 TC
3946881 AAATATATTT
Statistics
Matches: 42, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
4 2 0.05
5 34 0.81
6 6 0.14
ACGTcount: A:0.36, C:0.17, G:0.25, T:0.23
Consensus pattern (5 bp):
TCGAA
Found at i:3946879 original size:26 final size:26
Alignment explanation
Indices: 3946828--3946879 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
3946818 TTAAGTTTTC
* *
3946828 TCGAATCGAATCGAGTGAGATGGAAT
1 TCGAATCGAATCGAATGAGATCGAAT
3946854 TCGAATCGAATCGAATCGA-ATCGAAT
1 TCGAATCGAATCGAAT-GAGATCGAAT
3946880 CAAATATATT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
26 21 0.91
27 2 0.09
ACGTcount: A:0.37, C:0.15, G:0.25, T:0.23
Consensus pattern (26 bp):
TCGAATCGAATCGAATGAGATCGAAT
Found at i:3947286 original size:19 final size:19
Alignment explanation
Indices: 3947253--3947300 Score: 57
Period size: 19 Copynumber: 2.6 Consensus size: 19
3947243 TAAACAATTC
3947253 AATAATATAAA--TAATAT
1 AATAATATAAATTTAATAT
*
3947270 AA-AATATGAAATTTAATTT
1 AATAATAT-AAATTTAATAT
3947289 AATAATATAAAT
1 AATAATATAAAT
3947301 AGTATATATA
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
16 5 0.19
17 5 0.19
19 11 0.42
20 5 0.19
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (19 bp):
AATAATATAAATTTAATAT
Found at i:3954668 original size:19 final size:20
Alignment explanation
Indices: 3954631--3954670 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
3954621 TCTTTTCACA
* *
3954631 TTCATTTCATGCATTTGCAT
1 TTCATTACATGCATATGCAT
3954651 TTCATTACAT-CATATGCAT
1 TTCATTACATGCATATGCAT
3954670 T
1 T
3954671 AAACACAGTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 9 0.50
20 9 0.50
ACGTcount: A:0.25, C:0.20, G:0.07, T:0.47
Consensus pattern (20 bp):
TTCATTACATGCATATGCAT
Found at i:3960068 original size:44 final size:44
Alignment explanation
Indices: 3960019--3960933 Score: 295
Period size: 44 Copynumber: 20.8 Consensus size: 44
3960009 CCAGTAATTC
* * *
3960019 TATCTCCCTCGGCAGCAGTGAAATAGATTGAAGATTACAGATCT
1 TATCTCCCTAGGCAGCAGTGGAGTAGATTGAAGATTACAGATCT
* * * * ** *
3960063 TATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCAGATTT
1 TATCTCCCTAGGCAGCAGTGGAGTAGATTGAAGATTACAGATCT
* * * * *
3960107 TACCTCCCTGAGGTTA-CAGTGGAGTACATTGAAGCCAGTA-A-TTC-
1 TATCTCCCT-AGG-CAGCAGTGGAGTAGATTGAAG--ATTACAGATCT
* * * *
3960151 TATCTCCCTGGGTAGCAGTGGAATACATTGAAGATTACAGATCT
1 TATCTCCCTAGGCAGCAGTGGAGTAGATTGAAGATTACAGATCT
* * * * * ** *
3960195 TATCTCCCTAAGTAGTAGTGGAGCAGATCGAAGATGGCAGATTT
1 TATCTCCCTAGGCAGCAGTGGAGTAGATTGAAGATTACAGATCT
* * * * *
3960239 TACCTCCCTGAGGTTA-CAGTGGAGTACATTGAAGCCAGTA-A-TTC-
1 TATCTCCCT-AGG-CAGCAGTGGAGTAGATTGAAG--ATTACAGATCT
* * * * *
3960283 TATCTCCATGGGCAACAGTGGAATAGATTGAAGATTACAGGTCT
1 TATCTCCCTAGGCAGCAGTGGAGTAGATTGAAGATTACAGATCT
* * * *
3960327 TATCTCCCTAGGCAGTAGTGGAGTAGATCGAAGATGACAGATTT
1 TATCTCCCTAGGCAGCAGTGGAGTAGATTGAAGATTACAGATCT
* * * * *
3960371 TACCTCCCTAAGGTTA-CAGTGGAGTACATTGAAGCCAGTA-A-TTC-
1 TATCTCCCT-AGG-CAGCAGTGGAGTAGATTGAAG--ATTACAGATCT
* * * * * *
3960415 TATCTTCATGGGTAACAGTGGAATAGATTGAAGA-TATCAGATCT
1 TATCTCCCTAGGCAGCAGTGGAGTAGATTGAAGATTA-CAGATCT
** * * ** **** *
3960459 TGCCTTCCT--GTATTGACAGTGGA-TCAGATCAAAGATGGTGGATTT
1 TATCTCCCTAGGCA--G-CAGTGGAGT-AGATTGAAGATTACAGATCT
* * * * *
3960504 TACCTCCCTGAGGTTA-CAGTGGAGTACATTGAAGCCAGTA-A-TTC-
1 TATCTCCCT-AGG-CAGCAGTGGAGTAGATTGAAG--ATTACAGATCT
* * * *
3960548 TATCTCCCTGGGCAGCAGTGAAATAGATTTAAGATTACAGATCT
1 TATCTCCCTAGGCAGCAGTGGAGTAGATTGAAGATTACAGATCT
* * * * * ** *
3960592 TATCTCCATAAGCAGTAGTGGAGCAGATCGAAGATGGCAGATTT
1 TATCTCCCTAGGCAGCAGTGGAGTAGATTGAAGATTACAGATCT
* * * * *
3960636 TACCTCCCTGAGGTTA-CAGTGGAGTACATTGAAGCCAGTA-A-TTC-
1 TATCTCCCT-AGG-CAGCAGTGGAGTAGATTGAAG--ATTACAGATCT
* * * *
3960680 TATCTCCCTAGGTAGCAGTGGAATACATTGAATATTACAGATCT
1 TATCTCCCTAGGCAGCAGTGGAGTAGATTGAAGATTACAGATCT
* * * * * ** * *
3960724 TATCTCCCTAAGTAGTAGTGGAGCAGATCGAAGATGGCGGATTT
1 TATCTCCCTAGGCAGCAGTGGAGTAGATTGAAGATTACAGATCT
* * * * *
3960768 TACCTCCCTGAGGTTA-CAGTGGAGTACATTGAAGCCAGTA-A-TTC-
1 TATCTCCCT-AGG-CAGCAGTGGAGTAGATTGAAG--ATTACAGATCT
* * * * *
3960812 TATCTCCATGGGCAACAGTGGAATAGATTGAAGATTACAGGTCT
1 TATCTCCCTAGGCAGCAGTGGAGTAGATTGAAGATTACAGATCT
* * * ** *
3960856 TATCTCCCTAGGAAGTAGTGGAGTAGATCGAAGATGGCAGATTT
1 TATCTCCCTAGGCAGCAGTGGAGTAGATTGAAGATTACAGATCT
* * *
3960900 TACCTCCCTGAGGTTA-CAGTGGAGTATATTGAAG
1 TATCTCCCT-AGG-CAGCAGTGGAGTAGATTGAAG
3960934 CCAGTAATTC
Statistics
Matches: 623, Mismatches: 189, Indels: 117
0.67 0.20 0.13
Matches are distributed among these distances:
40 2 0.00
41 16 0.03
42 18 0.03
43 120 0.19
44 299 0.48
45 145 0.23
46 13 0.02
47 7 0.01
48 1 0.00
49 2 0.00
ACGTcount: A:0.29, C:0.18, G:0.24, T:0.28
Consensus pattern (44 bp):
TATCTCCCTAGGCAGCAGTGGAGTAGATTGAAGATTACAGATCT
Found at i:3960201 original size:529 final size:529
Alignment explanation
Indices: 3958890--3960948 Score: 3369
Period size: 529 Copynumber: 3.9 Consensus size: 529
3958880 CCTAGGTAGT
* *
3958890 AGTGGAGT-AGATCGAAGATGGCGGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCC
1 AGTGGA-TCAGATCAAAGATGGTGGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCC
* * * *
3958954 AGTAATTCTATCTCCTTGGGCAGCAATGGAATAGATT-ACAGATTACAGATTTTATCTCCCTAAG
65 AGTAATTCTATCTCCCTGGGCAGCAGTGAAATAGATTGA-AGATTACAGATCTTATCTCCCTAAG
* *
3959018 CAGTAGTGGAGCAGATCGAAGATGGCGGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTAAA
129 CAGTAGTGGAGCAGATCGAAGATGGCAGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAA
*
3959083 GCCAGTAATTCTATCTCCCTGGGCAGCAGTGGAATAGATTGAAGATTACAGATCTTATCTCCCTA
194 GCCAGTAATTCTATCTCCCTGGGCAGCAGTGGAATACATTGAAGATTACAGATCTTATCTCCCTA
* * * * *
3959148 AGCAGTAGTGGAGCAGATCAAAGATGGTAGATTTTACCTCCCTAAGGTTACAGTAGAGTACATTA
259 AGCAGTAGTGGAGCAGATCGAAGATGGCAGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTG
* *
3959213 AAGCCAGTAATTCTATCTCCCTGGGCAGCAGTGGAATAGATTGAAGATTACAGATCTTATCTCCC
324 AAGCCAGTAATTCTATCTCCATGGGCAACAGTGGAATAGATTGAAGATTACAGATCTTATCTCCC
* * *
3959278 TAAGCAGTAGTGGAGTAGATCGAAGATGGCGGATTTTACCTCCCTGAGGTTATAGTGGAGTACAT
389 TAAGCAGTAGTGGAGTAGATCGAAGATGGCAGATTTTACCTCCCTAAGGTTACAGTGGAGTACAT
* * * * **
3959343 TGAAGCCAGTAATTCTATCTCCCTCGGCAGCAGTGGAATAGATTGAAG--ATTACAGATCTTATC
454 TGAAGCCAGTAATTCTATCTTCATGGGCAACAGTGGAATAGATTGAAGATATTA-A-ATCTTGCC
* * *
3959406 -TCC-CTA-AGCAGT
517 TTCCTGTATTG-A-C
* *
3959418 AGTGGAGCAGATCAAAGATGGTAGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCA
1 AGTGGATCAGATCAAAGATGGTGGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCA
* * *
3959483 GTAATTCTATCTCCCTGGGCAGCAGTGGAATAGATTGAAGATTACAGATCTCATCTCCCTAGGCA
66 GTAATTCTATCTCCCTGGGCAGCAGTGAAATAGATTGAAGATTACAGATCTTATCTCCCTAAGCA
* * * *
3959548 GTAGTGGAGTAGATCGAAGATGGCGGATTTTACCTCACTGAGGTTACTGTGGAGTACATTGAAGC
131 GTAGTGGAGCAGATCGAAGATGGCAGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGC
* *
3959613 CAGTAATTCTATCTCCCTGGGCAGCAGTGGAATAGATAGAAGATTACAGATCTTATCTCCCTAAG
196 CAGTAATTCTATCTCCCTGGGCAGCAGTGGAATACATTGAAGATTACAGATCTTATCTCCCTAAG
* **
3959678 CAGTAGCGGAGCAGATCGAAGATGGTGGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAA
261 CAGTAGTGGAGCAGATCGAAGATGGCAGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAA
* * * *
3959743 GCCAGTAATTCTATCTCCCTGGACAGCAGTGAAATAGATTGAAGATTACAGATCTTATCTCCCTA
326 GCCAGTAATTCTATCTCCATGGGCAACAGTGGAATAGATTGAAGATTACAGATCTTATCTCCCTA
* *
3959808 AGCAGTAGTGGAGCAGATC-AAGGATGGCGGATTTTACCTCCCTAAGGTTACAGTGGAGTACATT
391 AGCAGTAGTGGAGTAGATCGAA-GATGGCAGATTTTACCTCCCTAAGGTTACAGTGGAGTACATT
*
3959872 GAAGCCATTAATTCTATCTTCATGGGCAACAGTGGAATAGATTGAAGATATTAAATCTTGCCTTC
455 GAAGCCAGTAATTCTATCTTCATGGGCAACAGTGGAATAGATTGAAGATATTAAATCTTGCCTTC
3959937 CTGTATTGAC
520 CTGTATTGAC
3959947 AGTGGATCAGATCAAAGATGGTGGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCA
1 AGTGGATCAGATCAAAGATGGTGGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCA
*
3960012 GTAATTCTATCTCCCTCGGCAGCAGTGAAATAGATTGAAGATTACAGATCTTATCTCCCTAAGCA
66 GTAATTCTATCTCCCTGGGCAGCAGTGAAATAGATTGAAGATTACAGATCTTATCTCCCTAAGCA
3960077 GTAGTGGAGCAGATCGAAGATGGCAGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGC
131 GTAGTGGAGCAGATCGAAGATGGCAGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGC
*
3960142 CAGTAATTCTATCTCCCTGGGTAGCAGTGGAATACATTGAAGATTACAGATCTTATCTCCCTAAG
196 CAGTAATTCTATCTCCCTGGGCAGCAGTGGAATACATTGAAGATTACAGATCTTATCTCCCTAAG
*
3960207 TAGTAGTGGAGCAGATCGAAGATGGCAGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAA
261 CAGTAGTGGAGCAGATCGAAGATGGCAGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAA
*
3960272 GCCAGTAATTCTATCTCCATGGGCAACAGTGGAATAGATTGAAGATTACAGGTCTTATCTCCCTA
326 GCCAGTAATTCTATCTCCATGGGCAACAGTGGAATAGATTGAAGATTACAGATCTTATCTCCCTA
* *
3960337 GGCAGTAGTGGAGTAGATCGAAGATGACAGATTTTACCTCCCTAAGGTTACAGTGGAGTACATTG
391 AGCAGTAGTGGAGTAGATCGAAGATGGCAGATTTTACCTCCCTAAGGTTACAGTGGAGTACATTG
* * *
3960402 AAGCCAGTAATTCTATCTTCATGGGTAACAGTGGAATAGATTGAAGATATCAGATCTTGCCTTCC
456 AAGCCAGTAATTCTATCTTCATGGGCAACAGTGGAATAGATTGAAGATATTAAATCTTGCCTTCC
3960467 TGTATTGAC
521 TGTATTGAC
3960476 AGTGGATCAGATCAAAGATGGTGGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCA
1 AGTGGATCAGATCAAAGATGGTGGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCA
* *
3960541 GTAATTCTATCTCCCTGGGCAGCAGTGAAATAGATTTAAGATTACAGATCTTATCTCCATAAGCA
66 GTAATTCTATCTCCCTGGGCAGCAGTGAAATAGATTGAAGATTACAGATCTTATCTCCCTAAGCA
3960606 GTAGTGGAGCAGATCGAAGATGGCAGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGC
131 GTAGTGGAGCAGATCGAAGATGGCAGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGC
* * *
3960671 CAGTAATTCTATCTCCCTAGGTAGCAGTGGAATACATTGAATATTACAGATCTTATCTCCCTAAG
196 CAGTAATTCTATCTCCCTGGGCAGCAGTGGAATACATTGAAGATTACAGATCTTATCTCCCTAAG
* *
3960736 TAGTAGTGGAGCAGATCGAAGATGGCGGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAA
261 CAGTAGTGGAGCAGATCGAAGATGGCAGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAA
*
3960801 GCCAGTAATTCTATCTCCATGGGCAACAGTGGAATAGATTGAAGATTACAGGTCTTATCTCCCTA
326 GCCAGTAATTCTATCTCCATGGGCAACAGTGGAATAGATTGAAGATTACAGATCTTATCTCCCTA
* * * *
3960866 GGAAGTAGTGGAGTAGATCGAAGATGGCAGATTTTACCTCCCTGAGGTTACAGTGGAGTATATTG
391 AGCAGTAGTGGAGTAGATCGAAGATGGCAGATTTTACCTCCCTAAGGTTACAGTGGAGTACATTG
3960931 AAGCCAGTAATTCTATCT
456 AAGCCAGTAATTCTATCT
3960949 CTCTAGTCGG
Statistics
Matches: 1447, Mismatches: 75, Indels: 17
0.94 0.05 0.01
Matches are distributed among these distances:
527 2 0.00
528 471 0.33
529 964 0.67
530 9 0.01
531 1 0.00
ACGTcount: A:0.29, C:0.19, G:0.24, T:0.28
Consensus pattern (529 bp):
AGTGGATCAGATCAAAGATGGTGGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCA
GTAATTCTATCTCCCTGGGCAGCAGTGAAATAGATTGAAGATTACAGATCTTATCTCCCTAAGCA
GTAGTGGAGCAGATCGAAGATGGCAGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGC
CAGTAATTCTATCTCCCTGGGCAGCAGTGGAATACATTGAAGATTACAGATCTTATCTCCCTAAG
CAGTAGTGGAGCAGATCGAAGATGGCAGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAA
GCCAGTAATTCTATCTCCATGGGCAACAGTGGAATAGATTGAAGATTACAGATCTTATCTCCCTA
AGCAGTAGTGGAGTAGATCGAAGATGGCAGATTTTACCTCCCTAAGGTTACAGTGGAGTACATTG
AAGCCAGTAATTCTATCTTCATGGGCAACAGTGGAATAGATTGAAGATATTAAATCTTGCCTTCC
TGTATTGAC
Found at i:3961021 original size:132 final size:132
Alignment explanation
Indices: 3958853--3960977 Score: 3251
Period size: 132 Copynumber: 16.1 Consensus size: 132
3958843 TAGCGTGAAG
* * * *
3958853 TAGATTGAATATTACAGATCTTATCTCCCTAGGTAGTAGTGGAGTAGATCGAAGATGGCGGATTT
1 TAGATTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCGGATTT
* *
3958918 TACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCTTGGGCAGCAATGG
66 TACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCTGGGCAGCAGTGG
3958983 AA
131 AA
*
3958985 TAGATT-ACAGATTACAGATTTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCGGATT
1 TAGATTGA-AGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCGGATT
*
3959049 TTACCTCCCTGAGGTTACAGTGGAGTACATTAAAGCCAGTAATTCTATCTCCCTGGGCAGCAGTG
65 TTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCTGGGCAGCAGTG
3959114 GAA
130 GAA
* **
3959117 TAGATTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGGTAGATTT
1 TAGATTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCGGATTT
* * *
3959182 TACCTCCCTAAGGTTACAGTAGAGTACATTAAAGCCAGTAATTCTATCTCCCTGGGCAGCAGTGG
66 TACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCTGGGCAGCAGTGG
3959247 AA
131 AA
*
3959249 TAGATTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGTAGATCGAAGATGGCGGATTT
1 TAGATTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCGGATTT
* *
3959314 TACCTCCCTGAGGTTATAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCTCGGCAGCAGTGG
66 TACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCTGGGCAGCAGTGG
3959379 AA
131 AA
* **
3959381 TAGATTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGGTAGATTT
1 TAGATTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCGGATTT
3959446 TACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCTGGGCAGCAGTGG
66 TACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCTGGGCAGCAGTGG
3959511 AA
131 AA
* * *
3959513 TAGATTGAAGATTACAGATCTCATCTCCCTAGGCAGTAGTGGAGTAGATCGAAGATGGCGGATTT
1 TAGATTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCGGATTT
* *
3959578 TACCTCACTGAGGTTACTGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCTGGGCAGCAGTGG
66 TACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCTGGGCAGCAGTGG
3959643 AA
131 AA
* * *
3959645 TAGATAGAAGATTACAGATCTTATCTCCCTAAGCAGTAGCGGAGCAGATCGAAGATGGTGGATTT
1 TAGATTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCGGATTT
* *
3959710 TACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCTGGACAGCAGTGA
66 TACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCTGGGCAGCAGTGG
3959775 AA
131 AA
3959777 TAGATTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATC-AAGGATGGCGGATT
1 TAGATTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAA-GATGGCGGATT
* * * * *
3959841 TTACCTCCCTAAGGTTACAGTGGAGTACATTGAAGCCATTAATTCTATCTTCATGGGCAACAGTG
65 TTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCTGGGCAGCAGTG
3959906 GAA
130 GAA
** * * * * * *
3959909 TAGATTGAAGATATTA-A-ATCTTGCCTTCCT--GTATTGACAGTGGATCAGATCAAAGATGGTG
1 TAGATTGAAG--ATTACAGATCTTATCTCCCTAAGCA--G-TAGTGGAGCAGATCGAAGATGGCG
*
3959970 GATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCTCGGCAGC
61 GATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCTGGGCAGC
*
3960035 AGTGAAA
126 AGTGGAA
*
3960042 TAGATTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCAGATTT
1 TAGATTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCGGATTT
*
3960107 TACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCTGGGTAGCAGTGG
66 TACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCTGGGCAGCAGTGG
3960172 AA
131 AA
* * *
3960174 TACATTGAAGATTACAGATCTTATCTCCCTAAGTAGTAGTGGAGCAGATCGAAGATGGCAGATTT
1 TAGATTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCGGATTT
* *
3960239 TACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCATGGGCAACAGTGG
66 TACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCTGGGCAGCAGTGG
3960304 AA
131 AA
* * * * *
3960306 TAGATTGAAGATTACAGGTCTTATCTCCCTAGGCAGTAGTGGAGTAGATCGAAGATGACAGATTT
1 TAGATTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCGGATTT
* * * * *
3960371 TACCTCCCTAAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTTCATGGGTAACAGTGG
66 TACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCTGGGCAGCAGTGG
3960436 AA
131 AA
** * * * * * *
3960438 TAGATTGAAGA-TATCAGATCTTGCCTTCCT--GTATTGACAGTGGATCAGATCAAAGATGGTGG
1 TAGATTGAAGATTA-CAGATCTTATCTCCCTAAGCA--G-TAGTGGAGCAGATCGAAGATGGCGG
3960500 ATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCTGGGCAGCA
62 ATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCTGGGCAGCA
*
3960565 GTGAAA
127 GTGGAA
* * *
3960571 TAGATTTAAGATTACAGATCTTATCTCCATAAGCAGTAGTGGAGCAGATCGAAGATGGCAGATTT
1 TAGATTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCGGATTT
* *
3960636 TACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCTAGGTAGCAGTGG
66 TACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCTGGGCAGCAGTGG
3960701 AA
131 AA
* * *
3960703 TACATTGAATATTACAGATCTTATCTCCCTAAGTAGTAGTGGAGCAGATCGAAGATGGCGGATTT
1 TAGATTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCGGATTT
* *
3960768 TACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCATGGGCAACAGTGG
66 TACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCTGGGCAGCAGTGG
3960833 AA
131 AA
* * * * *
3960835 TAGATTGAAGATTACAGGTCTTATCTCCCTAGGAAGTAGTGGAGTAGATCGAAGATGGCAGATTT
1 TAGATTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCGGATTT
* * * * *
3960900 TACCTCCCTGAGGTTACAGTGGAGTATATTGAAGCCAGTAATTCTATCTCTCTAGTCGGCAGTGG
66 TACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCTGGGCAGCAGTGG
3960965 AA
131 AA
* *
3960967 TCGATCGAAGA
1 TAGATTGAAGA
3960978 AAGTAGATCT
Statistics
Matches: 1818, Mismatches: 155, Indels: 40
0.90 0.08 0.02
Matches are distributed among these distances:
130 4 0.00
131 9 0.00
132 1581 0.87
133 212 0.12
134 8 0.00
135 4 0.00
ACGTcount: A:0.29, C:0.19, G:0.24, T:0.28
Consensus pattern (132 bp):
TAGATTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCGGATTT
TACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCTGGGCAGCAGTGG
AA
Found at i:3961053 original size:43 final size:44
Alignment explanation
Indices: 3960969--3961064 Score: 149
Period size: 43 Copynumber: 2.2 Consensus size: 44
3960959 CAGTGGAATC
* *
3960969 GATCGAAGAAAGTAGATCTTGTCTTCATGTATTAGCGTGAAGTA
1 GATCGAAGAAAGTAGATCTTATCTTCATGTATTAGCATGAAGTA
*
3961013 GATCGAAGAAAGTAGATC-TATCTTCATGTATTGGCATGAAGTA
1 GATCGAAGAAAGTAGATCTTATCTTCATGTATTAGCATGAAGTA
*
3961056 GATCAAAGA
1 GATCGAAGA
3961065 GAGCAAATCT
Statistics
Matches: 48, Mismatches: 4, Indels: 1
0.91 0.08 0.02
Matches are distributed among these distances:
43 30 0.62
44 18 0.38
ACGTcount: A:0.35, C:0.11, G:0.24, T:0.29
Consensus pattern (44 bp):
GATCGAAGAAAGTAGATCTTATCTTCATGTATTAGCATGAAGTA
Found at i:3962608 original size:17 final size:18
Alignment explanation
Indices: 3962581--3962614 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
3962571 ATTTAGTCCC
*
3962581 TTTTTACAATTTGTTTTT
1 TTTTTACAATTTATTTTT
3962599 TTTTTA-AATTTATTTT
1 TTTTTACAATTTATTTT
3962615 CTCTCATTAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.21, C:0.03, G:0.03, T:0.74
Consensus pattern (18 bp):
TTTTTACAATTTATTTTT
Found at i:3962633 original size:3 final size:3
Alignment explanation
Indices: 3962620--3962679 Score: 50
Period size: 3 Copynumber: 19.7 Consensus size: 3
3962610 ATTTTCTCTC
* * *
3962620 ATT ATTT ATT ATT ATT GTT A-T ATT ATTT ATT ATC ATC ATT ATT ATT
1 ATT A-TT ATT ATT ATT ATT ATT ATT A-TT ATT ATT ATT ATT ATT ATT
* *
3962666 TTT ATT ATT TTT AT
1 ATT ATT ATT ATT AT
3962680 ATTTGTACAT
Statistics
Matches: 46, Mismatches: 8, Indels: 6
0.77 0.13 0.10
Matches are distributed among these distances:
2 2 0.04
3 38 0.83
4 6 0.13
ACGTcount: A:0.28, C:0.03, G:0.02, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:3962664 original size:24 final size:21
Alignment explanation
Indices: 3962620--3962682 Score: 69
Period size: 21 Copynumber: 3.1 Consensus size: 21
3962610 ATTTTCTCTC
*
3962620 ATTATTTATTATTATTGTTAT
1 ATTATTTATTATTATTATTAT
* *
3962641 ATTATTTATTATCATCA-T-T
1 ATTATTTATTATTATTATTAT
*
3962660 ATTATTT-TTATTATTTTTAT
1 ATTATTTATTATTATTATTAT
3962680 ATT
1 ATT
3962683 TGTACATACG
Statistics
Matches: 34, Mismatches: 6, Indels: 5
0.76 0.13 0.11
Matches are distributed among these distances:
18 6 0.18
19 9 0.26
20 5 0.15
21 14 0.41
ACGTcount: A:0.29, C:0.03, G:0.02, T:0.67
Consensus pattern (21 bp):
ATTATTTATTATTATTATTAT
Found at i:3962682 original size:8 final size:9
Alignment explanation
Indices: 3962620--3962683 Score: 58
Period size: 9 Copynumber: 6.8 Consensus size: 9
3962610 ATTTTCTCTC
3962620 ATTATTTATT
1 ATTATTT-TT
3962630 ATTATTGTTAT
1 ATTATT-TT-T
3962641 ATTATTTATT
1 ATTATTT-TT
* **
3962651 ATCATCATT
1 ATTATTTTT
3962660 ATTATTTTT
1 ATTATTTTT
3962669 ATTATTTTT
1 ATTATTTTT
3962678 A-TATTT
1 ATTATTT
3962684 GTACATACGC
Statistics
Matches: 45, Mismatches: 6, Indels: 8
0.76 0.10 0.14
Matches are distributed among these distances:
8 5 0.11
9 18 0.40
10 13 0.29
11 9 0.20
ACGTcount: A:0.28, C:0.03, G:0.02, T:0.67
Consensus pattern (9 bp):
ATTATTTTT
Found at i:3975976 original size:29 final size:28
Alignment explanation
Indices: 3975944--3976004 Score: 77
Period size: 29 Copynumber: 2.1 Consensus size: 28
3975934 AAAAGCCCTT
3975944 TTTTTTCAAAATTTACCGAAATGGGCCGA
1 TTTTTTCAAAATTTACCGAAATGGGCC-A
* ** *
3975973 TTTTTTGATTATTTACCGGAATGGGCCA
1 TTTTTTCAAAATTTACCGAAATGGGCCA
3976001 TTTT
1 TTTT
3976005 CCGCAAAATC
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
28 5 0.18
29 23 0.82
ACGTcount: A:0.25, C:0.15, G:0.18, T:0.43
Consensus pattern (28 bp):
TTTTTTCAAAATTTACCGAAATGGGCCA
Found at i:3998974 original size:3 final size:3
Alignment explanation
Indices: 3998959--3998994 Score: 54
Period size: 3 Copynumber: 12.0 Consensus size: 3
3998949 AAGCATAAAC
* *
3998959 TAA TAA AAA TAA TAA TAA TAA TAA TAA TAA TGA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
3998995 CATTGGAATA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.67, C:0.00, G:0.03, T:0.31
Consensus pattern (3 bp):
TAA
Found at i:3999107 original size:23 final size:23
Alignment explanation
Indices: 3999089--3999142 Score: 67
Period size: 23 Copynumber: 2.4 Consensus size: 23
3999079 TGTATACACG
3999089 TACATAATAAAAATATATACTAA
1 TACATAATAAAAATATATACTAA
* **
3999112 TACATAATAATAATA-ATGGTAA
1 TACATAATAAAAATATATACTAA
3999134 TAC-TAATAA
1 TACATAATAA
3999143 TACTAATAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
21 6 0.21
22 8 0.29
23 14 0.50
ACGTcount: A:0.57, C:0.07, G:0.04, T:0.31
Consensus pattern (23 bp):
TACATAATAAAAATATATACTAA
Found at i:3999123 original size:3 final size:3
Alignment explanation
Indices: 3999092--3999153 Score: 52
Period size: 3 Copynumber: 20.0 Consensus size: 3
3999082 ATACACGTAC
* * * * *
3999092 ATA ATA AAA ATA TATA CTA ATA CATA ATA ATA ATA ATG GTA ATA CTA
1 ATA ATA ATA ATA -ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA
*
3999139 ATA ATA CTA ATA ATA
1 ATA ATA ATA ATA ATA
3999154 TAAAAGTAAC
Statistics
Matches: 45, Mismatches: 12, Indels: 4
0.74 0.20 0.07
Matches are distributed among these distances:
3 39 0.87
4 6 0.13
ACGTcount: A:0.58, C:0.06, G:0.03, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:3999735 original size:10 final size:10
Alignment explanation
Indices: 3999720--3999758 Score: 69
Period size: 10 Copynumber: 3.8 Consensus size: 10
3999710 CCAAAAAAAA
3999720 TATTTTTTTT
1 TATTTTTTTT
3999730 TATTTTTTTT
1 TATTTTTTTT
3999740 TATTTTTTTT
1 TATTTTTTTT
3999750 CTATTTTTT
1 -TATTTTTT
3999759 ATGTTTATAT
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
10 20 0.71
11 8 0.29
ACGTcount: A:0.10, C:0.03, G:0.00, T:0.87
Consensus pattern (10 bp):
TATTTTTTTT
Found at i:3999738 original size:11 final size:11
Alignment explanation
Indices: 3999722--3999758 Score: 58
Period size: 11 Copynumber: 3.5 Consensus size: 11
3999712 AAAAAAAATA
3999722 TTTTTTTTTA-
1 TTTTTTTTTAT
3999732 TTTTTTTTTAT
1 TTTTTTTTTAT
*
3999743 TTTTTTTCTAT
1 TTTTTTTTTAT
3999754 TTTTT
1 TTTTT
3999759 ATGTTTATAT
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
10 10 0.40
11 15 0.60
ACGTcount: A:0.08, C:0.03, G:0.00, T:0.89
Consensus pattern (11 bp):
TTTTTTTTTAT
Found at i:4000829 original size:42 final size:42
Alignment explanation
Indices: 4000771--4001002 Score: 179
Period size: 42 Copynumber: 5.6 Consensus size: 42
4000761 ATGTGATTTG
*
4000771 CTCCACTACTGCTTAGGGAGATAAGATCCGTGGTTTTGTCCG
1 CTCCACTACTGCTTAGGGAGATAAGATCCGTGGTTTTGTCCA
* * * * ** *
4000813 CTCCGCTACTACTTAGGGAGATAAGA--C-TTGATGCGATCTA
1 CTCCACTACTGCTTAGGGAGATAAGATCCGTGGTTTTG-TCCA
* *
4000853 CTCCACTACTGCTTAGGGAGATAAGATCTGTGATTTTGTCCA
1 CTCCACTACTGCTTAGGGAGATAAGATCCGTGGTTTTGTCCA
* * * * ** **
4000895 CTCCGCTACTGCTTAAGGAGATAAGA--C-TTGATGCGATCTG
1 CTCCACTACTGCTTAGGGAGATAAGATCCGTGGTTTTG-TCCA
* * * * **
4000935 CTCCATTATTGCTTAGGGAGATAAGATCTGTGGTTCTGTCTG
1 CTCCACTACTGCTTAGGGAGATAAGATCCGTGGTTTTGTCCA
*
4000977 CTCCACTATTGCTTAGGGAGATAAGA
1 CTCCACTACTGCTTAGGGAGATAAGA
4001003 CTTGCAACTT
Statistics
Matches: 145, Mismatches: 37, Indels: 16
0.73 0.19 0.08
Matches are distributed among these distances:
39 7 0.05
40 51 0.35
42 80 0.55
43 7 0.05
ACGTcount: A:0.24, C:0.21, G:0.24, T:0.31
Consensus pattern (42 bp):
CTCCACTACTGCTTAGGGAGATAAGATCCGTGGTTTTGTCCA
Found at i:4000840 original size:82 final size:82
Alignment explanation
Indices: 4000740--4001006 Score: 399
Period size: 82 Copynumber: 3.3 Consensus size: 82
4000730 GCTTCACTGA
* * * *
4000740 TGCTTAGGGAGATAAGACTGGATGTGATTTGCTCCACTACTGCTTAGGGAGATAAGATCCGTGGT
1 TGCTTAGGGAGATAAGACTTGATGCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTGGT
4000805 TTTGTCCGCTCCGCTAC
66 TTTGTCCGCTCCGCTAC
* * *
4000822 TACTTAGGGAGATAAGACTTGATGCGATCTACTCCACTACTGCTTAGGGAGATAAGATCTGTGAT
1 TGCTTAGGGAGATAAGACTTGATGCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTGGT
*
4000887 TTTGTCCACTCCGCTAC
66 TTTGTCCGCTCCGCTAC
* * *
4000904 TGCTTAAGGAGATAAGACTTGATGCGATCTGCTCCATTATTGCTTAGGGAGATAAGATCTGTGGT
1 TGCTTAGGGAGATAAGACTTGATGCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTGGT
* * * *
4000969 TCTGTCTGCTCCACTAT
66 TTTGTCCGCTCCGCTAC
4000986 TGCTTAGGGAGATAAGACTTG
1 TGCTTAGGGAGATAAGACTTG
4001007 CAACTTTTGA
Statistics
Matches: 165, Mismatches: 20, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
82 165 1.00
ACGTcount: A:0.24, C:0.19, G:0.25, T:0.31
Consensus pattern (82 bp):
TGCTTAGGGAGATAAGACTTGATGCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTGGT
TTTGTCCGCTCCGCTAC
Found at i:4001334 original size:72 final size:73
Alignment explanation
Indices: 4001096--4001421 Score: 586
Period size: 72 Copynumber: 4.5 Consensus size: 73
4001086 CGGCATGTGA
*
4001096 TCTTGA-GCCCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAAGCAGAAATTGAAAATACC
1 TCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAAGCAGAAATTGAAAATACC
4001160 TCAACGTG
66 TCAACGTG
*
4001168 TCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAAGTAGAAATTGAAAATACC
1 TCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAAGCAGAAATTGAAAATACC
*
4001233 TCAACATG
66 TCAACGTG
4001241 TCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAA-CAGAAATTGAAAATACC
1 TCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAAGCAGAAATTGAAAATACC
4001305 TCAACGTG
66 TCAACGTG
*
4001313 TCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAA-CAGAAATTGAAATTACC
1 TCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAAGCAGAAATTGAAAATACC
*
4001377 TCAATGTG
66 TCAACGTG
4001385 TCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGA
1 TCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGA
4001422 TTCTTTCAAA
Statistics
Matches: 246, Mismatches: 7, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
72 136 0.55
73 110 0.45
ACGTcount: A:0.33, C:0.18, G:0.17, T:0.32
Consensus pattern (73 bp):
TCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAAGCAGAAATTGAAAATACC
TCAACGTG
Found at i:4001359 original size:145 final size:145
Alignment explanation
Indices: 4001096--4001421 Score: 584
Period size: 145 Copynumber: 2.3 Consensus size: 145
4001086 CGGCATGTGA
*
4001096 TCTTGA-GCCCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAAGCAGAAATTGAAAATACC
1 TCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAAGCAGAAATTGAAAATACC
*
4001160 TCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAAGTAGAAATTG
66 TCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAA-CAGAAATTG
4001225 AAAATACCTCAACATG
130 AAAATACCTCAACATG
4001241 TCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAA-CAGAAATTGAAAATACC
1 TCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAAGCAGAAATTGAAAATACC
4001305 TCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGA
66 TCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGA
* **
4001370 AATTACCTCAATGTG
131 AAATACCTCAACATG
4001385 TCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGA
1 TCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGA
4001422 TTCTTTCAAA
Statistics
Matches: 175, Mismatches: 5, Indels: 3
0.96 0.03 0.02
Matches are distributed among these distances:
144 58 0.33
145 78 0.45
146 39 0.22
ACGTcount: A:0.33, C:0.18, G:0.17, T:0.32
Consensus pattern (145 bp):
TCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAAGCAGAAATTGAAAATACC
TCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGA
AAATACCTCAACATG
Found at i:4001554 original size:160 final size:160
Alignment explanation
Indices: 4001282--4001583 Score: 408
Period size: 160 Copynumber: 1.9 Consensus size: 160
4001272 AGTTGAATTT
* * * **
4001282 TGAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGT
1 TGAAAACAGAAATGGAAAATACCTCAACGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGT
* * * * * * * **
4001347 TGAATTTTGAAAACAGAAATTGAAATTACCTCAATGTGTCTTGAGGCTCAACTCATTTCTCGCAA
66 TGAATATTAAAAACAAAAATTGAAAATACCTCAACGTGCCCTGAGGCTCAACTCACCTCTCGCAA
*
4001412 TATGAGTTGATTCTTTCAAAAACATAATAA
131 TATGAGCTGATTCTTTCAAAAACATAATAA
***
4001442 TGAAAACAGAAATGGAAAATACCTCGGTGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGT
1 TGAAAACAGAAATGGAAAATACCTCAACGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGT
* *
4001507 TG-ATATTAAAACACAAAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTTGCA
66 TGAATATTAAAA-ACAAAAATTGAAAATACCTCAACGTGCCCTGAGGCTCAACTCACCTCTCGCA
4001571 ATATGAGCTGATT
130 ATATGAGCTGATT
4001584 TCGAAAAAGT
Statistics
Matches: 121, Mismatches: 20, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
159 7 0.06
160 114 0.94
ACGTcount: A:0.35, C:0.20, G:0.17, T:0.28
Consensus pattern (160 bp):
TGAAAACAGAAATGGAAAATACCTCAACGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGT
TGAATATTAAAAACAAAAATTGAAAATACCTCAACGTGCCCTGAGGCTCAACTCACCTCTCGCAA
TATGAGCTGATTCTTTCAAAAACATAATAA
Found at i:4001904 original size:57 final size:58
Alignment explanation
Indices: 4001840--4001951 Score: 163
Period size: 59 Copynumber: 1.9 Consensus size: 58
4001830 ACAGAAATGG
* *
4001840 AAAATACCTCAGCATGT-CCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAAATT
1 AAAATACCACAGCATGTACCTGAAGCTCAACTCACCTCTCGCAATATGAGTTGAAATT
** *
4001897 AAAATACCACAGTGTGTAATCTGAAGCTCAACTCACCTCTCGCAATATGAGTTGA
1 AAAATACCACAGCATGT-ACCTGAAGCTCAACTCACCTCTCGCAATATGAGTTGA
4001952 TTTTTTTTAA
Statistics
Matches: 48, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
57 14 0.29
59 34 0.71
ACGTcount: A:0.33, C:0.25, G:0.16, T:0.26
Consensus pattern (58 bp):
AAAATACCACAGCATGTACCTGAAGCTCAACTCACCTCTCGCAATATGAGTTGAAATT
Found at i:4002107 original size:74 final size:74
Alignment explanation
Indices: 4001917--4002181 Score: 338
Period size: 79 Copynumber: 3.5 Consensus size: 74
4001907 AGTGTGTAAT
* * * *
4001917 CTGAAGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTAAAATAGAAATTGAAAATACCT
1 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAACAGAAATTGAAATTACCT
*
4001982 CAGCATGTGAAC
66 CAGC--GTG-TC
*
4001994 C-GAGGCTCAACTCACCTCTCGCAATATAAGTTGA--TTTTTGAAAACAGAAATTGAAATTACCT
1 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAACAGAAATTGAAATTACCT
4002056 CAGCGTGTC
66 CAGCGTGTC
** *
4002065 CTGAGGCTCAACTCATTTTTCGCAATATGAGTTGATTTTTTTGTTTTAACAACAGAAATTGAAAT
1 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTG----AA-AACAGAAATTGAAAT
4002130 TACCTCAGCGTGTC
61 TACCTCAGCGTGTC
* *
4002144 CTGAGACTCAACTCACCTCTAGCAATATGAGTTGATTT
1 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTT
4002182 AGAAAACGTA
Statistics
Matches: 165, Mismatches: 15, Indels: 14
0.85 0.08 0.07
Matches are distributed among these distances:
71 2 0.01
72 32 0.19
74 35 0.21
76 31 0.19
77 1 0.01
78 2 0.01
79 62 0.38
ACGTcount: A:0.31, C:0.20, G:0.16, T:0.32
Consensus pattern (74 bp):
CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAACAGAAATTGAAATTACCT
CAGCGTGTC
Found at i:4002233 original size:54 final size:54
Alignment explanation
Indices: 4002151--4002282 Score: 180
Period size: 53 Copynumber: 2.5 Consensus size: 54
4002141 GTCCTGAGAC
* *
4002151 TCAACTCACCTCTAGCAATATGAGTTGATTTAG-AAAACGTAGAAATTAAAAGG-T
1 TCAACTCACCTCTCGCAATATGAGTTGATTTAGAAAAAC--AAAAATTAAAAGGCT
* *
4002205 TCAACCCACCTCTCGCAATATGAGTTGATTTTGAAAAACAAAAATTAAAAGGCT
1 TCAACTCACCTCTCGCAATATGAGTTGATTTAGAAAAACAAAAATTAAAAGGCT
*
4002259 T-AACTCACTTCTCGCAATATGAGT
1 TCAACTCACCTCTCGCAATATGAGT
4002283 CAATTTAAAA
Statistics
Matches: 70, Mismatches: 6, Indels: 5
0.86 0.07 0.06
Matches are distributed among these distances:
53 33 0.47
54 32 0.46
55 5 0.07
ACGTcount: A:0.39, C:0.19, G:0.14, T:0.28
Consensus pattern (54 bp):
TCAACTCACCTCTCGCAATATGAGTTGATTTAGAAAAACAAAAATTAAAAGGCT
Found at i:4002407 original size:73 final size:73
Alignment explanation
Indices: 4002322--4003165 Score: 979
Period size: 73 Copynumber: 11.6 Consensus size: 73
4002312 GGCGTGCCCC
*** * *
4002322 GAGGCTCAACTCACCCCTCGCAATATGAGCTGATTTTTGAAACAAAAGGAATT-AAAATACCTCA
1 GAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTGAAA-AAAAGAAATTGAAAATACCTCA
* * *
4002386 GCGTGACAT
65 ACGTGTCTT
** ** * * * * * *
4002395 GAGGCTTGACTCACCTCTCGCAATATGAGTTAATTTTTG--AAACATAAACTAAAAATACCTCAG
1 GAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTGAAAAAAAGAAATTGAAAATACCTCAA
*
4002458 CGTGTGACCT
66 CGTGT--CTT
* * *
4002468 GAGGCTCAACTCATTTCTCACAATATGAGTTGAGTTTTTGAAAACATG-AATT-AAAATACCTCA
1 GAGGCTCAACTCATTTCTCGCAATATGAGTTGA-TTTTTGAAAAAAAGAAATTGAAAATACCTCA
* * *
4002531 GCGTGACCT
65 ACGTGTCTT
** ** ** * * * * *
4002540 GAGGCTTGACTCACCTCTCGCAATATGAGTCAATTTTTG--AAACATAAACTAAAAATACCTCAG
1 GAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTGAAAAAAAGAAATTGAAAATACCTCAA
*
4002603 CGTGTGACCT
66 CGTGT--CTT
** * * *
4002613 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTGAAATTACCTCAG
1 GAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTGAAAAAAAGAAATTGAAAATACCTCAA
*
4002678 CGTGTCCT
66 CGTGTCTT
**
4002686 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAGCAAA-AAATTGAAAATACCTC
1 GAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTGAAAA--AAAGAAATTGAAAATACCTC
*
4002750 AATGTGTCTT
64 AACGTGTCTT
* *
4002760 GAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTG-AAAATAGAAATTGAAAATACCTCAA
1 GAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTGAAAAAAAGAAATTGAAAATACCTCAA
4002824 CGTGTCTT
66 CGTGTCTT
* **
4002832 GAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAAGCAGAAATTGAAAATACCTCAA
1 GAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTGAAAAAAAGAAATTGAAAATACCTCAA
4002897 CGTGTCTT
66 CGTGTCTT
* **
4002905 GAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAAGCAGAAATTGAAAATACCTCAA
1 GAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTGAAAAAAAGAAATTGAAAATACCTCAA
4002970 CGTGTCTT
66 CGTGTCTT
* * *
4002978 GAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAA-AAATTGAAATTACCTCAA
1 GAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTGAAAAAAAGAAATTGAAAATACCTCAA
4003042 CGTGTCTT
66 CGTGTCTT
* ** *
4003050 GAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAAGCAGAAATTGAAATTACCTCAA
1 GAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTGAAAAAAAGAAATTGAAAATACCTCAA
4003115 CGTGTCTT
66 CGTGTCTT
*
4003123 GAGGCTCAACTCATTTCTCGCAATATGAGTTAAATTTTTGAAA
1 GAGGCTCAACTCATTTCTCGCAATATGAGTT-GATTTTTGAAA
4003166 CAGAAATAAA
Statistics
Matches: 690, Mismatches: 63, Indels: 35
0.88 0.08 0.04
Matches are distributed among these distances:
69 2 0.00
70 9 0.01
71 41 0.06
72 162 0.23
73 355 0.51
74 89 0.13
75 30 0.04
76 2 0.00
ACGTcount: A:0.34, C:0.20, G:0.17, T:0.30
Consensus pattern (73 bp):
GAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTGAAAAAAAGAAATTGAAAATACCTCAA
CGTGTCTT
Found at i:4002543 original size:145 final size:144
Alignment explanation
Indices: 4002254--4003176 Score: 1051
Period size: 145 Copynumber: 6.4 Consensus size: 144
4002244 AAAAATTAAA
* * * ** *
4002254 AGGCTTAACTCACTTCTCGCAATATGAGTCAA--TTTAAAACATAAACTAAAAATATATCGGCGT
1 AGGCTCAACTCACTTCTCGCAATATGAGTTAATTTTTGAAACATAAACTAAAAATACCTCAGCGT
* * *** * * * *
4002317 G-CCCCGAGGCTCAACTCACCCCTCGCAATATGAGCTGATTTTTGAAACAAAAGGAATT-AAAAT
66 GTGCCTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTG-AA-AACAGAAATTGAAAAT
* * *
4002380 ACCTCAGCGTGACATG
129 ACCTCAACGTGTCTTG
** *
4002396 AGGCTTGACTCACCTCTCGCAATATGAGTTAATTTTTGAAACATAAACTAAAAATACCTCAGCGT
1 AGGCTCAACTCACTTCTCGCAATATGAGTTAATTTTTGAAACATAAACTAAAAATACCTCAGCGT
* *
4002461 GTGACCTGAGGCTCAACTCATTTCTCACAATATGAGTTGAGTTTTTGAAAACATG-AATT-AAAA
66 GTG-CCTGAGGCTCAACTCATTTCTCGCAATATGAGTTGA-ATTTTGAAAACA-GAAATTGAAAA
* * *
4002524 TACCTCAGCGTGACCTG
128 TACCTCAACGTGTCTTG
** * *
4002541 AGGCTTGACTCACCTCTCGCAATATGAGTCAATTTTTGAAACATAAACTAAAAATACCTCAGCGT
1 AGGCTCAACTCACTTCTCGCAATATGAGTTAATTTTTGAAACATAAACTAAAAATACCTCAGCGT
** * *
4002606 GTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTGAAATT
66 GTG-CCTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTG-AAAACAGAAATTGAAAAT
* *
4002671 ACCTCAGCGTGTCCTG
129 ACCTCAACGTGTCTTG
* * * * * *
4002687 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAGCAAAAAATTGAAAATACCTCAA
1 AGGCTCAACTCACTTCTCGCAATATGAGTTAATTTTTG-AAA-C-ATAAACTAAAAATACCTCAG
* * *
4002752 TGTGT-CTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAATAGAAATTGAAAA
63 CGTGTGCCTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAAA
4002816 TACCTCAACGTGTCTTG
128 TACCTCAACGTGTCTTG
* * * * *
4002833 AGGCTCAACTCATTTCTCGCAATATGAGTTGAA-TTTTGAAAAGCAGAAATTGAAAATACCTCAA
1 AGGCTCAACTCACTTCTCGCAATATGAGTT-AATTTTTG-AAA-CATAAACTAAAAATACCTCAG
*
4002897 CGTGT-CTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAAGCAGAAATTGAAA
63 CGTGTGCCTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAA-CAGAAATTGAAA
4002961 ATACCTCAACGTGTCTTG
127 ATACCTCAACGTGTCTTG
* * * * * *
4002979 AGGCTCAACTCATTTCTCGCAATATGAGTTGAA-TTTTGAAAACAAAAATTGAAATTACCTCAAC
1 AGGCTCAACTCACTTCTCGCAATATGAGTT-AATTTTTG-AAACATAAACTAAAAATACCTCAGC
* *
4003043 GTGT-CTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAAGCAGAAATTGAAAT
64 GTGTGCCTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAA-CAGAAATTGAAAA
4003107 TACCTCAACGTGTCTTG
128 TACCTCAACGTGTCTTG
* *
4003124 AGGCTCAACTCATTTCTCGCAATATGAGTTAAATTTTTGAAACAGAAA-TAAAA
1 AGGCTCAACTCACTTCTCGCAATATGAGTT-AATTTTTGAAACATAAACTAAAA
4003177 GCATCAGAAT
Statistics
Matches: 715, Mismatches: 51, Indels: 28
0.90 0.06 0.04
Matches are distributed among these distances:
142 29 0.04
144 39 0.05
145 347 0.49
146 231 0.32
147 48 0.07
148 1 0.00
149 20 0.03
ACGTcount: A:0.34, C:0.20, G:0.17, T:0.29
Consensus pattern (144 bp):
AGGCTCAACTCACTTCTCGCAATATGAGTTAATTTTTGAAACATAAACTAAAAATACCTCAGCGT
GTGCCTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAAATAC
CTCAACGTGTCTTG
Found at i:4002712 original size:218 final size:216
Alignment explanation
Indices: 4002322--4003165 Score: 1029
Period size: 218 Copynumber: 3.9 Consensus size: 216
4002312 GGCGTGCCCC
* * * *
4002322 GAGGCTCAACTCACCCCTCGCAATATGAGCTGATTTTTGAAACAAAAGGAATT-AAAATACCTCA
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTCAATTTTGAAAC-AAA--AATTGAAAATACCTCA
* * * ** * * *
4002386 GCGTGACATGAGGCTTGACTCACCTCTCGCAATATGAGTT-AATTTTTG--AAACATAAACTAAA
63 ACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAA-TTTTGAAAAACAGAAATTGAA
* *
4002448 AATACCTCAGCGTGTGACCTGAGGCTCAACTCATTTCTCACAATATGAGTTGAGTTTTTGAAAA-
127 AATACCTCAACGTGT--CCTGAGGCTCAACTCATTTCTCGCAATATGAGTTGA-TTTTTGAAAAG
* * *
4002512 CATGAATT-AAAATACCTCAGCGTGACCT
189 CA-GAATTGAAAATACCTCAACGTGTCTT
** * * * *
4002540 GAGGCTTGACTCACCTCTCGCAATATGAG-TCAATTTTTGAAACATAAACTAAAAATACCTCAGC
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTCAA-TTTTGAAACAAAAATTGAAAATACCTCAAC
* *
4002604 GTGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTGAAA
65 GTGT--CTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAATTTTGAAAAACAGAAATTGAAA
* * **
4002669 TTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAGCAAA
128 ATACCTCAACGTGTCCTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTGAAAAGC--A
* *
4002734 AAATTGAAAATACCTCAATGTGTCTT
191 GAATTGAAAATACCTCAACGTGTCTT
** *
4002760 GAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAA-ATAGAAATTGAAAATACCTCAA
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTCAATTTTGAAACA-A-AAATTGAAAATACCTCAA
** *
4002824 CGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAAGCAGAAATTGAAAA
64 CGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAATTTTGAAAAACAGAAATTGAAAA
* *
4002889 TACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAAGCAGAA
129 TACCTCAACGTGTCCTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTGAAAAGCAG-A
4002954 ATTGAAAATACCTCAACGTGTCTT
193 ATTGAAAATACCTCAACGTGTCTT
** * *
4002978 GAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAAAAATTGAAATTACCTCAAC
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTCAATTTTG-AAACAAAAATTGAAAATACCTCAAC
** * *
4003043 GTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAAGCAGAAATTGAAATT
65 GTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAATTTTGAAAAACAGAAATTGAAAAT
* *
4003108 ACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTAAATTTTTGAAA
130 ACCTCAACGTGTCCTGAGGCTCAACTCATTTCTCGCAATATGAGTT-GATTTTTGAAA
4003166 CAGAAATAAA
Statistics
Matches: 558, Mismatches: 50, Indels: 35
0.87 0.08 0.05
Matches are distributed among these distances:
215 3 0.01
216 16 0.03
217 15 0.03
218 296 0.53
219 129 0.23
220 76 0.14
221 23 0.04
ACGTcount: A:0.34, C:0.20, G:0.17, T:0.30
Consensus pattern (216 bp):
GAGGCTCAACTCACCTCTCGCAATATGAGTTCAATTTTGAAACAAAAATTGAAAATACCTCAACG
TGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAATTTTGAAAAACAGAAATTGAAAATA
CCTCAACGTGTCCTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTGAAAAGCAGAATT
GAAAATACCTCAACGTGTCTT
Found at i:4005362 original size:10 final size:10
Alignment explanation
Indices: 4005347--4005413 Score: 50
Period size: 10 Copynumber: 6.9 Consensus size: 10
4005337 GGCATTTGAT
4005347 TTTTTTTTTG
1 TTTTTTTTTG
*
4005357 TTTTTTCTTG
1 TTTTTTTTTG
**
4005367 --TCCTTTT-
1 TTTTTTTTTG
*
4005374 TTTCTTTTTG
1 TTTTTTTTTG
4005384 TTTTTTTTTG
1 TTTTTTTTTG
* *
4005394 TTTTCTTTTC
1 TTTTTTTTTG
4005404 TTTTTCTTTT
1 TTTTT-TTTT
4005414 CATGACTGTT
Statistics
Matches: 44, Mismatches: 9, Indels: 7
0.73 0.15 0.12
Matches are distributed among these distances:
8 4 0.09
9 6 0.14
10 30 0.68
11 4 0.09
ACGTcount: A:0.00, C:0.10, G:0.06, T:0.84
Consensus pattern (10 bp):
TTTTTTTTTG
Found at i:4005408 original size:26 final size:26
Alignment explanation
Indices: 4005346--4005413 Score: 86
Period size: 26 Copynumber: 2.6 Consensus size: 26
4005336 TGGCATTTGA
4005346 TTTTT-TTTTTGTTTTTTCTTGTCCTT
1 TTTTTCTTTTTGTTTTTTCTTGT-CTT
*
4005372 TTTTTCTTTTTGTTTTTTTTTGT-TT
1 TTTTTCTTTTTGTTTTTTCTTGTCTT
*
4005397 TCTTTTCTTTTTCTTTT
1 T-TTTTCTTTTTGTTTT
4005414 CATGACTGTT
Statistics
Matches: 38, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
25 3 0.08
26 19 0.50
27 16 0.42
ACGTcount: A:0.00, C:0.10, G:0.06, T:0.84
Consensus pattern (26 bp):
TTTTTCTTTTTGTTTTTTCTTGTCTT
Found at i:4005414 original size:11 final size:11
Alignment explanation
Indices: 4005373--4005413 Score: 59
Period size: 11 Copynumber: 3.8 Consensus size: 11
4005363 CTTGTCCTTT
4005373 TTTTCTTTTTG
1 TTTTCTTTTTG
4005384 TTTT-TTTTTG
1 TTTTCTTTTTG
4005394 TTTTCTTTTCT-
1 TTTTCTTTT-TG
4005405 TTTTCTTTT
1 TTTTCTTTT
4005414 CATGACTGTT
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
10 10 0.36
11 17 0.61
12 1 0.04
ACGTcount: A:0.00, C:0.10, G:0.05, T:0.85
Consensus pattern (11 bp):
TTTTCTTTTTG
Found at i:4006191 original size:15 final size:15
Alignment explanation
Indices: 4006171--4006202 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
4006161 AAGATGCATT
4006171 TCATTGAAATAAAAA
1 TCATTGAAATAAAAA
4006186 TCATTGAAATAAAAA
1 TCATTGAAATAAAAA
4006201 TC
1 TC
4006203 TTGGACCGAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.56, C:0.09, G:0.06, T:0.28
Consensus pattern (15 bp):
TCATTGAAATAAAAA
Found at i:4010060 original size:23 final size:22
Alignment explanation
Indices: 4010034--4010087 Score: 65
Period size: 23 Copynumber: 2.5 Consensus size: 22
4010024 TGTATACACG
4010034 TACATAATAAAAATATATACTAA
1 TACATAATAAAAATA-ATACTAA
* **
4010057 TACATAATAATAATAATGGTAA
1 TACATAATAAAAATAATACTAA
4010079 TAC-TAATAA
1 TACATAATAA
4010088 TACTAATAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
21 6 0.21
22 8 0.29
23 14 0.50
ACGTcount: A:0.57, C:0.07, G:0.04, T:0.31
Consensus pattern (22 bp):
TACATAATAAAAATAATACTAA
Found at i:4010068 original size:3 final size:3
Alignment explanation
Indices: 4010037--4010098 Score: 52
Period size: 3 Copynumber: 20.0 Consensus size: 3
4010027 ATACACGTAC
* * * * *
4010037 ATA ATA AAA ATA TATA CTA ATA CATA ATA ATA ATA ATG GTA ATA CTA
1 ATA ATA ATA ATA -ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA
*
4010084 ATA ATA CTA ATA ATA
1 ATA ATA ATA ATA ATA
4010099 TAAAAGTAAC
Statistics
Matches: 45, Mismatches: 12, Indels: 4
0.74 0.20 0.07
Matches are distributed among these distances:
3 39 0.87
4 6 0.13
ACGTcount: A:0.58, C:0.06, G:0.03, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:4010684 original size:10 final size:10
Alignment explanation
Indices: 4010669--4010704 Score: 63
Period size: 10 Copynumber: 3.6 Consensus size: 10
4010659 AAAAAAATAT
4010669 TTTTTTTTTA
1 TTTTTTTTTA
4010679 TTTTTTTTTA
1 TTTTTTTTTA
*
4010689 TTTTTTTCTA
1 TTTTTTTTTA
4010699 TTTTTT
1 TTTTTT
4010705 ATGTTTATAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
10 25 1.00
ACGTcount: A:0.08, C:0.03, G:0.00, T:0.89
Consensus pattern (10 bp):
TTTTTTTTTA
Found at i:4014718 original size:57 final size:57
Alignment explanation
Indices: 4014649--4014766 Score: 227
Period size: 57 Copynumber: 2.1 Consensus size: 57
4014639 GAGCTTTCGA
*
4014649 TTGGTGCAAATAGTGCAAGCAAAAAAGGTCATACATGATACAACAATTTTAGTAATT
1 TTGGTGCAAATAGTGCAAGCAAAAAAGGTCATACATGATACAACAATTTTAGTAACT
4014706 TTGGTGCAAATAGTGCAAGCAAAAAAGGTCATACATGATACAACAATTTTAGTAACT
1 TTGGTGCAAATAGTGCAAGCAAAAAAGGTCATACATGATACAACAATTTTAGTAACT
4014763 TTGG
1 TTGG
4014767 GTGTAGTTTA
Statistics
Matches: 60, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
57 60 1.00
ACGTcount: A:0.41, C:0.13, G:0.19, T:0.28
Consensus pattern (57 bp):
TTGGTGCAAATAGTGCAAGCAAAAAAGGTCATACATGATACAACAATTTTAGTAACT
Found at i:4015140 original size:27 final size:29
Alignment explanation
Indices: 4015079--4015178 Score: 123
Period size: 29 Copynumber: 3.4 Consensus size: 29
4015069 GGCCCATTTT
*
4015079 TATTTTAAAAATTTTAAAAAATTAAAAAAAG
1 TATTTTAAAAA--TAAAAAAATTAAAAAAAG
* **
4015110 TATTTTAAAAATAAAATAATT-TTAAAA-
1 TATTTTAAAAATAAAAAAATTAAAAAAAG
*
4015137 TATTTTAAAATTAAAAAAATTAAAAAAAG
1 TATTTTAAAAATAAAAAAATTAAAAAAAG
4015166 TATTTTAAAAATA
1 TATTTTAAAAATA
4015179 TTTTAAAATT
Statistics
Matches: 58, Mismatches: 9, Indels: 6
0.79 0.12 0.08
Matches are distributed among these distances:
27 19 0.33
28 8 0.14
29 20 0.34
31 11 0.19
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.37
Consensus pattern (29 bp):
TATTTTAAAAATAAAAAAATTAAAAAAAG
Found at i:4015201 original size:56 final size:56
Alignment explanation
Indices: 4015094--4015202 Score: 148
Period size: 56 Copynumber: 1.9 Consensus size: 56
4015084 TAAAAATTTT
* **
4015094 AAAAAATTAAAAAAAGTATTTTAAAAATAAAATAATTTTAAAATATTTTAAAATTA
1 AAAAAATTAAAAAAAGTATTTTAAAAATAAAATAAATTTAAAATAAATTAAAATTA
***
4015150 AAAAAATTAAAAAAAGTATTTTAAAAATATTTTAAAATTTAAAA-AAATTAAAA
1 AAAAAATTAAAAAAAGTATTTTAAAAATAAAAT-AAATTTAAAATAAATTAAAA
4015203 AAGTATGTAA
Statistics
Matches: 46, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
56 37 0.80
57 9 0.20
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (56 bp):
AAAAAATTAAAAAAAGTATTTTAAAAATAAAATAAATTTAAAATAAATTAAAATTA
Found at i:4015204 original size:41 final size:40
Alignment explanation
Indices: 4015128--4015237 Score: 170
Period size: 40 Copynumber: 2.8 Consensus size: 40
4015118 AAATAAAATA
4015128 ATTTT-AAAATATTTTAAAA-TTAAAAAAATTAAAAAAAGT
1 ATTTTAAAAATATTTTAAAATTTAAAAAAATT-AAAAAAGT
4015167 ATTTTAAAAATATTTTAAAATTTAAAAAAATTAAAAAAGT
1 ATTTTAAAAATATTTTAAAATTTAAAAAAATTAAAAAAGT
* * *
4015207 ATGTAAAAAATATTTTAAAATTTTAAAAAAT
1 ATTTTAAAAATATTTTAAAATTTAAAAAAAT
4015238 AAATATATTT
Statistics
Matches: 66, Mismatches: 3, Indels: 3
0.92 0.04 0.04
Matches are distributed among these distances:
39 5 0.08
40 50 0.76
41 11 0.17
ACGTcount: A:0.60, C:0.00, G:0.03, T:0.37
Consensus pattern (40 bp):
ATTTTAAAAATATTTTAAAATTTAAAAAAATTAAAAAAGT
Found at i:4026544 original size:20 final size:21
Alignment explanation
Indices: 4026507--4026550 Score: 54
Period size: 20 Copynumber: 2.1 Consensus size: 21
4026497 TTTTAACCGC
* * *
4026507 TTTTTAATCGTTTTAATTGAT
1 TTTTTAATAGTTTCAATTAAT
4026528 TTTTTAATAG-TTCAATTAAT
1 TTTTTAATAGTTTCAATTAAT
4026548 TTT
1 TTT
4026551 GTACCGGTTT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
20 11 0.55
21 9 0.45
ACGTcount: A:0.27, C:0.05, G:0.07, T:0.61
Consensus pattern (21 bp):
TTTTTAATAGTTTCAATTAAT
Found at i:4032604 original size:21 final size:21
Alignment explanation
Indices: 4032580--4032623 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
4032570 TGACCAAATG
4032580 AATTATTGGAACAATCCTAAT
1 AATTATTGGAACAATCCTAAT
4032601 AATTATTGGAACAATCCTAAT
1 AATTATTGGAACAATCCTAAT
4032622 AA
1 AA
4032624 CCTAACTATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.45, C:0.14, G:0.09, T:0.32
Consensus pattern (21 bp):
AATTATTGGAACAATCCTAAT
Found at i:4038372 original size:17 final size:17
Alignment explanation
Indices: 4038345--4038390 Score: 56
Period size: 17 Copynumber: 2.7 Consensus size: 17
4038335 CCGATATAAT
* * *
4038345 AAATATATTTATTTTTT
1 AAATATTTTTAATTTTA
*
4038362 AAATTTTTTTAATTTTA
1 AAATATTTTTAATTTTA
4038379 AAATATTTTTAA
1 AAATATTTTTAA
4038391 AATACTTTTT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
17 24 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (17 bp):
AAATATTTTTAATTTTA
Found at i:4041646 original size:43 final size:43
Alignment explanation
Indices: 4041576--4041683 Score: 130
Period size: 43 Copynumber: 2.5 Consensus size: 43
4041566 ACACACCAAC
* * *
4041576 CTGGCAC-CACAGTGCATCATCAGATAAACTAAAGCAGATAAA
1 CTGGCACACAAAGTGCATCATCAAATAAACTAAAGCAAATAAA
* * * *
4041618 CTGGCACACAAAGTGCATAATCAAATAAACTGAAGTAAATATA
1 CTGGCACACAAAGTGCATCATCAAATAAACTAAAGCAAATAAA
4041661 CTGGCACACGAAA-TGCATCATCA
1 CTGGCACAC-AAAGTGCATCATCA
4041684 TACAAGCTGA
Statistics
Matches: 56, Mismatches: 8, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
42 7 0.12
43 46 0.82
44 3 0.05
ACGTcount: A:0.44, C:0.22, G:0.16, T:0.19
Consensus pattern (43 bp):
CTGGCACACAAAGTGCATCATCAAATAAACTAAAGCAAATAAA
Found at i:4041694 original size:43 final size:43
Alignment explanation
Indices: 4041576--4041703 Score: 111
Period size: 43 Copynumber: 3.0 Consensus size: 43
4041566 ACACACCAAC
* * * * * *
4041576 CTGGCAC-CACAGTGCATCATCAGATAAACT-AAAGCAGATAAA
1 CTGGCACACAAAGTGCATAATCAAACAAACTGAAAG-AAATATA
*
4041618 CTGGCACACAAAGTGCATAATCAAATAAACTG-AAGTAAATATA
1 CTGGCACACAAAGTGCATAATCAAACAAACTGAAAG-AAATATA
* * *
4041661 CTGGCACACGAAA-TGCATCATCATACAAGCTGAAAGAAATATA
1 CTGGCACAC-AAAGTGCATAATCAAACAAACTGAAAGAAATATA
4041704 TTGACTCATG
Statistics
Matches: 72, Mismatches: 10, Indels: 7
0.81 0.11 0.08
Matches are distributed among these distances:
42 7 0.10
43 59 0.82
44 6 0.08
ACGTcount: A:0.45, C:0.20, G:0.16, T:0.19
Consensus pattern (43 bp):
CTGGCACACAAAGTGCATAATCAAACAAACTGAAAGAAATATA
Found at i:4041880 original size:49 final size:49
Alignment explanation
Indices: 4041814--4041948 Score: 229
Period size: 49 Copynumber: 2.8 Consensus size: 49
4041804 AAGTACACTT
4041814 TTTCTATTTGA-TATTGATTAGAATAAGGTGTTTCAACCTTACTACATTG
1 TTTCTATTTGACT-TTGATTAGAATAAGGTGTTTCAACCTTACTACATTG
4041863 CTTTC-ATTTGACTTTGATTAGAATAAGGTGTTTCAACCTTACTACATTG
1 -TTTCTATTTGACTTTGATTAGAATAAGGTGTTTCAACCTTACTACATTG
*
4041912 TTTCTATTTGACTTTGATTAGAATAAGGTTTTTCAAC
1 TTTCTATTTGACTTTGATTAGAATAAGGTGTTTCAAC
4041949 ATATAAATAG
Statistics
Matches: 82, Mismatches: 1, Indels: 5
0.93 0.01 0.06
Matches are distributed among these distances:
48 4 0.05
49 73 0.89
50 5 0.06
ACGTcount: A:0.27, C:0.13, G:0.14, T:0.45
Consensus pattern (49 bp):
TTTCTATTTGACTTTGATTAGAATAAGGTGTTTCAACCTTACTACATTG
Found at i:4046599 original size:20 final size:20
Alignment explanation
Indices: 4046557--4046606 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 20
4046547 GCTTGTACGA
* * *
4046557 GTTTGCAGTTTGGTGTCTCT
1 GTTTGCACTTTGATGCCTCT
*
4046577 GTTTGCACTTTGATGCCTTT
1 GTTTGCACTTTGATGCCTCT
*
4046597 GTTAGCACTT
1 GTTTGCACTT
4046607 CGGTGCACTC
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.10, C:0.18, G:0.24, T:0.48
Consensus pattern (20 bp):
GTTTGCACTTTGATGCCTCT
Found at i:4048288 original size:27 final size:25
Alignment explanation
Indices: 4048241--4048311 Score: 74
Period size: 27 Copynumber: 2.8 Consensus size: 25
4048231 TCACATATAT
**
4048241 TTTCAATTCAATCACAATTTCTCACAC
1 TTTCAATTCAATCATTATTTC-CAC-C
*
4048268 TTTCAATTCAATCATTTTTTCCACC
1 TTTCAATTCAATCATTATTTCCACC
*
4048293 -TTCAA-TCAATAATTATTTC
1 TTTCAATTCAATCATTATTTC
4048312 ACAAATTCAC
Statistics
Matches: 39, Mismatches: 5, Indels: 4
0.81 0.10 0.08
Matches are distributed among these distances:
23 12 0.31
24 5 0.13
25 1 0.03
26 3 0.08
27 18 0.46
ACGTcount: A:0.31, C:0.25, G:0.00, T:0.44
Consensus pattern (25 bp):
TTTCAATTCAATCATTATTTCCACC
Found at i:4048296 original size:24 final size:25
Alignment explanation
Indices: 4048242--4048314 Score: 69
Period size: 23 Copynumber: 2.9 Consensus size: 25
4048232 CACATATATT
* * *
4048242 TTCAATTCAATCACAATTTCTCACACT
1 TTCAATTCAAT--CATTTTTTCACACC
4048269 TTCAATTCAATCATTTTTTC-CACC
1 TTCAATTCAATCATTTTTTCACACC
* *
4048293 TTCAA-TCAATAATTATTTCACA
1 TTCAATTCAATCATTTTTTCACA
4048315 AATTCACACA
Statistics
Matches: 40, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
23 12 0.30
24 10 0.25
25 7 0.17
27 11 0.28
ACGTcount: A:0.33, C:0.26, G:0.00, T:0.41
Consensus pattern (25 bp):
TTCAATTCAATCATTTTTTCACACC
Found at i:4048463 original size:3 final size:3
Alignment explanation
Indices: 4048455--4048501 Score: 51
Period size: 3 Copynumber: 16.0 Consensus size: 3
4048445 ATTCCCACTC
* * * *
4048455 ATA ATA ATA ATA ATA ATA CTA ATA ATA A-A TTA ATA CTA ATA TTA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
4048502 CTTACCTCAC
Statistics
Matches: 35, Mismatches: 8, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
2 1 0.03
3 34 0.97
ACGTcount: A:0.60, C:0.04, G:0.00, T:0.36
Consensus pattern (3 bp):
ATA
Found at i:4048503 original size:12 final size:12
Alignment explanation
Indices: 4048455--4048501 Score: 60
Period size: 12 Copynumber: 4.0 Consensus size: 12
4048445 ATTCCCACTC
*
4048455 ATAATAATAATA
1 ATAATATTAATA
*
4048467 ATAATACTAATA
1 ATAATATTAATA
4048479 ATAA-ATTAATA
1 ATAATATTAATA
*
4048490 CTAATATTAATA
1 ATAATATTAATA
4048502 CTTACCTCAC
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
11 9 0.29
12 22 0.71
ACGTcount: A:0.60, C:0.04, G:0.00, T:0.36
Consensus pattern (12 bp):
ATAATATTAATA
Found at i:4049123 original size:21 final size:21
Alignment explanation
Indices: 4049099--4049141 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
4049089 AATAATAACT
4049099 AATAACTAATAATAAATAATA
1 AATAACTAATAATAAATAATA
* * * *
4049120 AATATCTTATACTAATTAATA
1 AATAACTAATAATAAATAATA
4049141 A
1 A
4049142 GCAAATTAAA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.58, C:0.07, G:0.00, T:0.35
Consensus pattern (21 bp):
AATAACTAATAATAAATAATA
Done.