Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D12
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: 63843421
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1690000 characters in sequence are not A, C, G, or T
File 58 of 214
Found at i:16293130 original size:30 final size:30
Alignment explanation
Indices: 16293083--16293141 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
16293073 AACCTTTTAT
* *
16293083 TTTCTCCCAAAATTTTTACTCCC-TCCCAC
1 TTTCCCCCAAAACTTTTACTCCCTTCCCAC
*
16293112 TTTCCCCCTAAAACTTTTATTCCCTTCCCA
1 TTTCCCCC-AAAACTTTTACTCCCTTCCCA
16293142 TCCCACCTCC
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 7 0.28
30 13 0.52
31 5 0.20
ACGTcount: A:0.20, C:0.41, G:0.00, T:0.39
Consensus pattern (30 bp):
TTTCCCCCAAAACTTTTACTCCCTTCCCAC
Found at i:16294402 original size:21 final size:21
Alignment explanation
Indices: 16294382--16294421 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
16294372 TTGTTGTTCA
*
16294382 AAATTT-TGAGATTATAATTC
1 AAATTTGTGAGATTAAAATTC
16294402 AAATTTGTGAGATTAAAATT
1 AAATTTGTGAGATTAAAATT
16294422 TTTTAATTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.42, C:0.03, G:0.12, T:0.42
Consensus pattern (21 bp):
AAATTTGTGAGATTAAAATTC
Found at i:16295916 original size:4 final size:4
Alignment explanation
Indices: 16295899--16295933 Score: 61
Period size: 4 Copynumber: 8.8 Consensus size: 4
16295889 TAATTTTTGT
*
16295899 TTAG TTAA TTAG TTAG TTAG TTAG TTAG TTAG TTA
1 TTAG TTAG TTAG TTAG TTAG TTAG TTAG TTAG TTA
16295934 ACACTGTAGC
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
4 29 1.00
ACGTcount: A:0.29, C:0.00, G:0.20, T:0.51
Consensus pattern (4 bp):
TTAG
Found at i:16297241 original size:40 final size:40
Alignment explanation
Indices: 16297111--16297218 Score: 112
Period size: 40 Copynumber: 2.7 Consensus size: 40
16297101 CGTTTGGACA
* * * **
16297111 AAAAACGCCACTAAAAATCAAGCATTAGCGGCGCTAAACA-
1 AAAAACGCCGCTAAAAATCGAGCATTAGCAGCGCT-TTCAG
* *
16297151 TAAAACGCCGCTAAAGATCGAGCATTAGCAGCGCTTTCAG
1 AAAAACGCCGCTAAAAATCGAGCATTAGCAGCGCTTTCAG
**
16297191 AAAAGTGCCGCTAAAAAT-GAGCATTAGC
1 AAAAACGCCGCTAAAAATCGAGCATTAGC
16297219 GGTGTTTTTT
Statistics
Matches: 56, Mismatches: 11, Indels: 3
0.80 0.16 0.04
Matches are distributed among these distances:
39 12 0.21
40 44 0.79
ACGTcount: A:0.41, C:0.23, G:0.19, T:0.17
Consensus pattern (40 bp):
AAAAACGCCGCTAAAAATCGAGCATTAGCAGCGCTTTCAG
Found at i:16297341 original size:41 final size:39
Alignment explanation
Indices: 16297284--16297516 Score: 252
Period size: 41 Copynumber: 5.7 Consensus size: 39
16297274 ACCTTTCGGG
* * *
16297284 GCTTTAGCGGCATTTTTTCAAAAGCGCTGCTAATGCTCTA
1 GCTTTAGCGGC-GTTTTTAAAAAGCGCCGCTAATGCTCTA
*
16297324 GCTTTTAGCGGCGTTTTTAATAAAGCGCCGCTAATGCTCAGA
1 GC-TTTAGCGGCGTTTTTAA-AAAGCGCCGCTAATGCTC-TA
* *
16297366 GCTTTAGCGGCGTTTTTAGAAATGCGCTGCTAATGCTCTA
1 GCTTTAGCGGCGTTTTTA-AAAAGCGCCGCTAATGCTCTA
*
16297406 GCTTTTAGCGGCGTTCTTAAGAAAGCGCCGCTAATGCT-TA
1 GC-TTTAGCGGCGTTTTTAA-AAAGCGCCGCTAATGCTCTA
* * * *
16297446 GACCTTTAGCGGCATTTTTGAAAAAGCGCAGCTAATGCTAATG
1 G--CTTTAGCGGCGTTTTT-AAAAAGCGCCGCTAATGCT-CTA
16297489 GCTTTAGCGGCGTTTTTCAAAAAGCGCC
1 GCTTTAGCGGCGTTTTT-AAAAAGCGCC
16297517 ACAAAAACAC
Statistics
Matches: 165, Mismatches: 17, Indels: 21
0.81 0.08 0.10
Matches are distributed among these distances:
40 15 0.09
41 141 0.85
42 7 0.04
43 2 0.01
ACGTcount: A:0.24, C:0.21, G:0.24, T:0.31
Consensus pattern (39 bp):
GCTTTAGCGGCGTTTTTAAAAAGCGCCGCTAATGCTCTA
Found at i:16297431 original size:82 final size:80
Alignment explanation
Indices: 16297284--16297516 Score: 315
Period size: 82 Copynumber: 2.8 Consensus size: 80
16297274 ACCTTTCGGG
*
16297284 GCTTTAGCGGCATTTTTTCAAAAGCGCTGCTAATGCTCTAGCTTTTAGCGGCGTTTTTAATAAAG
1 GCTTTAGCGGCA-TTTTTGAAAAGCGCTGCTAATGCTCTAGCTTTTAGCGGCGTTTTTAA-AAAG
16297349 CGCCGCTAATGCTCAGA
64 CGCCGCTAATGCTCAGA
* * *
16297366 GCTTTAGCGGCGTTTTTAGAAATGCGCTGCTAATGCTCTAGCTTTTAGCGGCGTTCTTAAGAAAG
1 GCTTTAGCGGCATTTTT-GAAAAGCGCTGCTAATGCTCTAGCTTTTAGCGGCGTTTTTAA-AAAG
*
16297431 CGCCGCTAATGCTTAGA
64 CGCCGCTAATGCTCAGA
* * * *
16297448 CCTTTAGCGGCATTTTTGAAAAAGCGCAGCTAATGCTAATGGC-TTTAGCGGCGTTTTTCAAAAA
1 GCTTTAGCGGCATTTTTG-AAAAGCGCTGCTAATGCT-CTAGCTTTTAGCGGCGTTTTT-AAAAA
16297512 GCGCC
63 GCGCC
16297517 ACAAAAACAC
Statistics
Matches: 134, Mismatches: 13, Indels: 8
0.86 0.08 0.05
Matches are distributed among these distances:
81 6 0.04
82 123 0.92
83 5 0.04
ACGTcount: A:0.24, C:0.21, G:0.24, T:0.31
Consensus pattern (80 bp):
GCTTTAGCGGCATTTTTGAAAAGCGCTGCTAATGCTCTAGCTTTTAGCGGCGTTTTTAAAAAGCG
CCGCTAATGCTCAGA
Found at i:16298330 original size:7 final size:7
Alignment explanation
Indices: 16298318--16298360 Score: 68
Period size: 7 Copynumber: 6.1 Consensus size: 7
16298308 ATTGTAAAAG
16298318 AGGGGTT
1 AGGGGTT
16298325 AGGGGTT
1 AGGGGTT
*
16298332 AAGGGTT
1 AGGGGTT
*
16298339 AGAGGTT
1 AGGGGTT
16298346 AGGGGTT
1 AGGGGTT
16298353 AGGGGTT
1 AGGGGTT
16298360 A
1 A
16298361 AAGGGTTTAT
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
7 32 1.00
ACGTcount: A:0.21, C:0.00, G:0.51, T:0.28
Consensus pattern (7 bp):
AGGGGTT
Found at i:16298339 original size:14 final size:14
Alignment explanation
Indices: 16298320--16298367 Score: 69
Period size: 14 Copynumber: 3.4 Consensus size: 14
16298310 TGTAAAAGAG
16298320 GGGTTAGGGGTTAA
1 GGGTTAGGGGTTAA
* *
16298334 GGGTTAGAGGTTAG
1 GGGTTAGGGGTTAA
16298348 GGGTTAGGGGTTAAA
1 GGGTTAGGGGTT-AA
16298363 GGGTT
1 GGGTT
16298368 TATGTTTTAT
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
14 23 0.79
15 6 0.21
ACGTcount: A:0.21, C:0.00, G:0.50, T:0.29
Consensus pattern (14 bp):
GGGTTAGGGGTTAA
Found at i:16301590 original size:43 final size:43
Alignment explanation
Indices: 16301469--16301686 Score: 199
Period size: 43 Copynumber: 5.1 Consensus size: 43
16301459 AAATTTTTTT
* * *** *
16301469 TAAAAGTCATG-TTTTTAGTGGCGTTTGTCAAAAAAGCGCCTC
1 TAAAGGTCATGATCTTTAGTGGCGTTTGTGGGAAAAGCGCCGC
* * * * * *
16301511 TAAAAGTCAT-CT-TTATAGTGGCGTTTGTTGTAGAAGCGTCGC
1 TAAAGGTCATGATCTT-TAGTGGCGTTTGTGGGAAAAGCGCCGC
* * * *
16301553 TAAAGGTCATGATCTTTAGTTGCATTTGTGGTAGAAGCGCCGC
1 TAAAGGTCATGATCTTTAGTGGCGTTTGTGGGAAAAGCGCCGC
* * * * *
16301596 TAAAGATCATGACCTTTAGCGGCGCTTGTGGGAAAAGCGCCAC
1 TAAAGGTCATGATCTTTAGTGGCGTTTGTGGGAAAAGCGCCGC
* *
16301639 TAAAGGTCTTGGTCTTTAGTGGCGTTTGTGGGAAAAGCGCCGC
1 TAAAGGTCATGATCTTTAGTGGCGTTTGTGGGAAAAGCGCCGC
16301682 TAAAG
1 TAAAG
16301687 TTAGCGACAC
Statistics
Matches: 144, Mismatches: 28, Indels: 7
0.80 0.16 0.04
Matches are distributed among these distances:
41 2 0.01
42 41 0.28
43 99 0.69
44 2 0.01
ACGTcount: A:0.25, C:0.17, G:0.28, T:0.30
Consensus pattern (43 bp):
TAAAGGTCATGATCTTTAGTGGCGTTTGTGGGAAAAGCGCCGC
Found at i:16302073 original size:43 final size:43
Alignment explanation
Indices: 16302016--16302171 Score: 176
Period size: 43 Copynumber: 3.7 Consensus size: 43
16302006 CAATGCCATA
* * * *
16302016 TCCTAGATATGGTCTTACATGTTATCACATATCGATGCCT-TTG
1 TCCTAGACATGGTCTTACACGTAATCACATATCGATG-CTAATG
* * *
16302059 TCCTAGACAGGGTCTTACACG-AATCATATAT-GGTGCTAATG
1 TCCTAGACATGGTCTTACACGTAATCACATATCGATGCTAATG
* *
16302100 TCCCAGACATGGTCTTACACGTAATCTCATATCGATGCTAATG
1 TCCTAGACATGGTCTTACACGTAATCACATATCGATGCTAATG
*
16302143 T-CTCAGACATGGTCTTACATGTAATCACA
1 TCCT-AGACATGGTCTTACACGTAATCACA
16302172 CCTCGAAAGT
Statistics
Matches: 94, Mismatches: 15, Indels: 8
0.80 0.13 0.07
Matches are distributed among these distances:
40 2 0.02
41 24 0.26
42 17 0.18
43 51 0.54
ACGTcount: A:0.28, C:0.22, G:0.17, T:0.33
Consensus pattern (43 bp):
TCCTAGACATGGTCTTACACGTAATCACATATCGATGCTAATG
Found at i:16306180 original size:15 final size:16
Alignment explanation
Indices: 16306144--16306180 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
16306134 TTTTAACTCG
*
16306144 ATCGGAGCTATTCTAT
1 ATCGGAGCTATTCGAT
16306160 AT-GGAGCTATT-GAT
1 ATCGGAGCTATTCGAT
16306174 ATCGGAG
1 ATCGGAG
16306181 TAGTTCTCGG
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
14 4 0.21
15 13 0.68
16 2 0.11
ACGTcount: A:0.27, C:0.14, G:0.27, T:0.32
Consensus pattern (16 bp):
ATCGGAGCTATTCGAT
Found at i:16314443 original size:23 final size:23
Alignment explanation
Indices: 16314412--16314463 Score: 68
Period size: 23 Copynumber: 2.3 Consensus size: 23
16314402 GTTATTTTTG
*
16314412 TTTTCCTTTTTTTACTTCTTTCC
1 TTTTTCTTTTTTTACTTCTTTCC
**
16314435 TTTTTCTTTTTTTGTTTCTTTCC
1 TTTTTCTTTTTTTACTTCTTTCC
*
16314458 ATTTTC
1 TTTTTC
16314464 CATTTTCTCA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.04, C:0.21, G:0.02, T:0.73
Consensus pattern (23 bp):
TTTTTCTTTTTTTACTTCTTTCC
Found at i:16314445 original size:24 final size:23
Alignment explanation
Indices: 16314412--16314469 Score: 64
Period size: 23 Copynumber: 2.5 Consensus size: 23
16314402 GTTATTTTTG
*
16314412 TTTTCCTTTTTT-TACTTCTTTCCT
1 TTTTCCTTTTTTGT--TTCTTTCCA
*
16314436 TTTTCTTTTTTTGTTTCTTTCCA
1 TTTTCCTTTTTTGTTTCTTTCCA
*
16314459 TTTTCCATTTT
1 TTTTCCTTTTT
16314470 CTCATTTTTC
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
23 17 0.59
24 11 0.38
25 1 0.03
ACGTcount: A:0.05, C:0.21, G:0.02, T:0.72
Consensus pattern (23 bp):
TTTTCCTTTTTTGTTTCTTTCCA
Found at i:16315059 original size:30 final size:27
Alignment explanation
Indices: 16315004--16315092 Score: 92
Period size: 28 Copynumber: 3.1 Consensus size: 27
16314994 TTCTATTATT
*
16315004 AAAAAAAGGGAAAAGA-AAATTGAAAGAA
1 AAAAAAAAGGAAAAGAGAAA--GAAAGAA
16315032 AAAAATTAAAGGAAAGAGAGAAAGAAAGTAA
1 AAAAA--AAAGGAAA-AGAGAAAGAAAG-AA
*
16315063 AAAAAAAAGGAAAAGAGAAA-AGAGAA
1 AAAAAAAAGGAAAAGAGAAAGAAAGAA
16315089 AAAA
1 AAAA
16315093 TATTTTAAAT
Statistics
Matches: 54, Mismatches: 2, Indels: 12
0.79 0.03 0.18
Matches are distributed among these distances:
26 6 0.11
27 3 0.06
28 12 0.22
29 8 0.15
30 12 0.22
31 10 0.19
32 3 0.06
ACGTcount: A:0.73, C:0.00, G:0.21, T:0.06
Consensus pattern (27 bp):
AAAAAAAAGGAAAAGAGAAAGAAAGAA
Found at i:16315140 original size:15 final size:16
Alignment explanation
Indices: 16315122--16315154 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
16315112 TTATTTTTAA
16315122 TATTTTTAT-AATTTC
1 TATTTTTATAAATTTC
*
16315137 TATTTTTTTAAATTTC
1 TATTTTTATAAATTTC
16315153 TA
1 TA
16315155 AAAATTTGAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 8 0.50
16 8 0.50
ACGTcount: A:0.27, C:0.06, G:0.00, T:0.67
Consensus pattern (16 bp):
TATTTTTATAAATTTC
Found at i:16317616 original size:38 final size:38
Alignment explanation
Indices: 16317565--16317642 Score: 147
Period size: 38 Copynumber: 2.1 Consensus size: 38
16317555 CGTTCTATTC
16317565 ATAATCAGAGTTTTAATCAAGAAGACATAACTAACAAT
1 ATAATCAGAGTTTTAATCAAGAAGACATAACTAACAAT
*
16317603 ATAATCAGAGTTTTAATCAAGATGACATAACTAACAAT
1 ATAATCAGAGTTTTAATCAAGAAGACATAACTAACAAT
16317641 AT
1 AT
16317643 TGACATAACT
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
38 39 1.00
ACGTcount: A:0.49, C:0.13, G:0.10, T:0.28
Consensus pattern (38 bp):
ATAATCAGAGTTTTAATCAAGAAGACATAACTAACAAT
Found at i:16317648 original size:18 final size:18
Alignment explanation
Indices: 16317625--16317660 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
16317615 TTAATCAAGA
16317625 TGACATAACTAACAATAT
1 TGACATAACTAACAATAT
16317643 TGACATAACTAACAATAT
1 TGACATAACTAACAATAT
16317661 ACTATGGTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.50, C:0.17, G:0.06, T:0.28
Consensus pattern (18 bp):
TGACATAACTAACAATAT
Found at i:16319413 original size:50 final size:54
Alignment explanation
Indices: 16319317--16319446 Score: 178
Period size: 50 Copynumber: 2.4 Consensus size: 54
16319307 GAGATCTCAT
* * *
16319317 GTAAGACCATGTCTGAGAAATGGCATTGGCATTATTGAAGTTATGAGAGGTCCCAC
1 GTAAGACCATGTCTGGGACATGGCATTGGCATCA-TGAAG-TATGAGAGGTCCCAC
*
16319373 GTAAGACCATGTCTGGGACATGGCATTGGCA-CA-G-AG-ATGAGAGGTCCCCC
1 GTAAGACCATGTCTGGGACATGGCATTGGCATCATGAAGTATGAGAGGTCCCAC
16319423 GTAAGACCATGTCTGGGACATGGC
1 GTAAGACCATGTCTGGGACATGGC
16319447 GTGAGCGCCG
Statistics
Matches: 70, Mismatches: 4, Indels: 6
0.88 0.05 0.08
Matches are distributed among these distances:
50 37 0.53
52 2 0.03
53 1 0.01
55 1 0.01
56 29 0.41
ACGTcount: A:0.28, C:0.20, G:0.30, T:0.22
Consensus pattern (54 bp):
GTAAGACCATGTCTGGGACATGGCATTGGCATCATGAAGTATGAGAGGTCCCAC
Found at i:16319463 original size:50 final size:50
Alignment explanation
Indices: 16319358--16319487 Score: 154
Period size: 50 Copynumber: 2.6 Consensus size: 50
16319348 TTATTGAAGT
*
16319358 TATGAGAGGTCCCACGTAAGACCATGTCTGGGACATGGCATTGGCACAGA
1 TATGAGAGGTCCCACGTAAGACCATGTCTGGGACATGGCAGTGGCACAGA
* * * *
16319408 GATGAGAGGTCCCCCGTAAGACCATGTCTGGGACATGGC-GTGAGCGCCGA
1 TATGAGAGGTCCCACGTAAGACCATGTCTGGGACATGGCAGTG-GCACAGA
** * * *
16319458 TATGAGAACTCTCATGTAAGACCATATCTG
1 TATGAGAGGTCCCACGTAAGACCATGTCTG
16319488 AGATATGACA
Statistics
Matches: 67, Mismatches: 12, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
49 2 0.03
50 65 0.97
ACGTcount: A:0.27, C:0.23, G:0.29, T:0.21
Consensus pattern (50 bp):
TATGAGAGGTCCCACGTAAGACCATGTCTGGGACATGGCAGTGGCACAGA
Found at i:16319781 original size:19 final size:19
Alignment explanation
Indices: 16319757--16319793 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
16319747 TGAGTTATTT
16319757 AAGTAAGCA-AGTAAGTAAC
1 AAGTAAG-AGAGTAAGTAAC
16319776 AAGTAAGAGAGTAAGTAA
1 AAGTAAGAGAGTAAGTAA
16319794 AGAAGAAGCA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 1 0.06
19 16 0.94
ACGTcount: A:0.54, C:0.05, G:0.24, T:0.16
Consensus pattern (19 bp):
AAGTAAGAGAGTAAGTAAC
Found at i:16335144 original size:15 final size:15
Alignment explanation
Indices: 16335124--16335155 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
16335114 TTCGACTTGG
*
16335124 TTTTATTTTTTTATT
1 TTTTATTTTCTTATT
16335139 TTTTATTTTCTTATT
1 TTTTATTTTCTTATT
16335154 TT
1 TT
16335156 CTTGCGTTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.12, C:0.03, G:0.00, T:0.84
Consensus pattern (15 bp):
TTTTATTTTCTTATT
Found at i:16335156 original size:8 final size:8
Alignment explanation
Indices: 16335126--16335158 Score: 50
Period size: 8 Copynumber: 4.2 Consensus size: 8
16335116 CGACTTGGTT
*
16335126 TTATTTTT
1 TTATTTTC
16335134 TTATTTT-
1 TTATTTTC
16335141 TTATTTTC
1 TTATTTTC
16335149 TTATTTTC
1 TTATTTTC
16335157 TT
1 TT
16335159 GCGTTTTCTT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
7 7 0.29
8 17 0.71
ACGTcount: A:0.12, C:0.06, G:0.00, T:0.82
Consensus pattern (8 bp):
TTATTTTC
Found at i:16337273 original size:3 final size:3
Alignment explanation
Indices: 16337261--16337299 Score: 71
Period size: 3 Copynumber: 13.3 Consensus size: 3
16337251 CTTGTATGTT
16337261 ATA A-A ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
16337300 ACAGTTAAAA
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 2 0.06
3 33 0.94
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:16338883 original size:27 final size:26
Alignment explanation
Indices: 16338835--16338885 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 26
16338825 TAGAATTAAT
*
16338835 TTGTTATTCATCATTTGCTTTGTATA
1 TTGTTAATCATCATTTGCTTTGTATA
16338861 TTGTTAATCAATCATATTG-TTTGTA
1 TTGTTAATC-ATCAT-TTGCTTTGTA
16338886 AAAATTTCAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
26 8 0.36
27 11 0.50
28 3 0.14
ACGTcount: A:0.24, C:0.10, G:0.12, T:0.55
Consensus pattern (26 bp):
TTGTTAATCATCATTTGCTTTGTATA
Found at i:16339655 original size:9 final size:9
Alignment explanation
Indices: 16339643--16339672 Score: 60
Period size: 9 Copynumber: 3.3 Consensus size: 9
16339633 AATATATTTA
16339643 TTTTTTAAT
1 TTTTTTAAT
16339652 TTTTTTAAT
1 TTTTTTAAT
16339661 TTTTTTAAT
1 TTTTTTAAT
16339670 TTT
1 TTT
16339673 AAAATATTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (9 bp):
TTTTTTAAT
Found at i:16339706 original size:39 final size:40
Alignment explanation
Indices: 16339651--16339727 Score: 138
Period size: 39 Copynumber: 1.9 Consensus size: 40
16339641 TATTTTTTAA
16339651 TTTTTTTAATTTTTTTAATTTTAAAATATTTTTAAAATGC
1 TTTTTTTAATTTTTTTAATTTTAAAATATTTTTAAAATGC
*
16339691 TTTTTTTTA-TTTTTTAATTTTAAAATATTTTTAAAAT
1 TTTTTTTAATTTTTTTAATTTTAAAATATTTTTAAAAT
16339728 ATTTTTAATT
Statistics
Matches: 36, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
39 28 0.78
40 8 0.22
ACGTcount: A:0.32, C:0.01, G:0.01, T:0.65
Consensus pattern (40 bp):
TTTTTTTAATTTTTTTAATTTTAAAATATTTTTAAAATGC
Found at i:16339712 original size:28 final size:28
Alignment explanation
Indices: 16339701--16339775 Score: 98
Period size: 28 Copynumber: 2.6 Consensus size: 28
16339691 TTTTTTTTAT
*
16339701 TTTTTAATTTTAAAATATTTTTAAAATA
1 TTTTTAATTTTAAAATCTTTTTAAAATA
16339729 TTTTTAATTTTAAAATAC-TTTTAAAATA
1 TTTTTAATTTTAAAAT-CTTTTTAAAATA
16339757 CTTTTTTAATTTTTAAAAT
1 --TTTTTAA-TTTTAAAAT
16339776 AAATTTTTGG
Statistics
Matches: 42, Mismatches: 1, Indels: 5
0.88 0.02 0.10
Matches are distributed among these distances:
28 26 0.62
30 7 0.17
31 9 0.21
ACGTcount: A:0.40, C:0.03, G:0.00, T:0.57
Consensus pattern (28 bp):
TTTTTAATTTTAAAATCTTTTTAAAATA
Found at i:16339721 original size:17 final size:17
Alignment explanation
Indices: 16339719--16339752 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
16339709 TTTAAAATAT
*
16339719 TTTTAAAATATTTTTAA
1 TTTTAAAATACTTTTAA
16339736 TTTTAAAATACTTTTAA
1 TTTTAAAATACTTTTAA
16339753 AATACTTTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.56
Consensus pattern (17 bp):
TTTTAAAATACTTTTAA
Found at i:16339722 original size:11 final size:11
Alignment explanation
Indices: 16339708--16339762 Score: 57
Period size: 11 Copynumber: 5.4 Consensus size: 11
16339698 TATTTTTTAA
16339708 TTTTAAAATAT
1 TTTTAAAATAT
16339719 TTTTAAAATAT
1 TTTTAAAATAT
16339730 TTTT---A-A-
1 TTTTAAAATAT
*
16339736 TTTTAAAATAC
1 TTTTAAAATAT
16339747 TTTTAAAATACT
1 TTTTAAAATA-T
16339759 TTTT
1 TTTT
16339763 TAATTTTTAA
Statistics
Matches: 37, Mismatches: 1, Indels: 11
0.76 0.02 0.22
Matches are distributed among these distances:
6 4 0.11
7 1 0.03
8 1 0.03
9 1 0.03
10 1 0.03
11 25 0.68
12 4 0.11
ACGTcount: A:0.40, C:0.04, G:0.00, T:0.56
Consensus pattern (11 bp):
TTTTAAAATAT
Found at i:16346850 original size:23 final size:23
Alignment explanation
Indices: 16346802--16346852 Score: 59
Period size: 23 Copynumber: 2.2 Consensus size: 23
16346792 ATTTGGAAGC
* *
16346802 ATAAAATAAAATAAAATATATGG
1 ATAAAATAAAATAAAATACATAG
*
16346825 ATAATATAAAAGTAAAATACA-AG
1 ATAAAATAAAA-TAAAATACATAG
16346848 ATAAA
1 ATAAA
16346853 GGATCGAAAG
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
23 15 0.65
24 8 0.35
ACGTcount: A:0.67, C:0.02, G:0.08, T:0.24
Consensus pattern (23 bp):
ATAAAATAAAATAAAATACATAG
Found at i:16350674 original size:8 final size:8
Alignment explanation
Indices: 16350661--16350726 Score: 52
Period size: 8 Copynumber: 8.6 Consensus size: 8
16350651 AGTTATTTTA
16350661 TATATATT
1 TATATATT
16350669 TATATATT
1 TATATATT
16350677 TATCAT-TT
1 TAT-ATATT
*
16350685 TAT-CATT
1 TATATATT
16350692 T-T-TATT
1 TATATATT
16350698 TATATA-T
1 TATATATT
16350705 TATATATT
1 TATATATT
* *
16350713 CTAAATTTT
1 -TATATATT
16350722 TATAT
1 TATAT
16350727 GTTTTTCAAA
Statistics
Matches: 47, Mismatches: 5, Indels: 12
0.73 0.08 0.19
Matches are distributed among these distances:
6 5 0.11
7 11 0.23
8 23 0.49
9 8 0.17
ACGTcount: A:0.33, C:0.05, G:0.00, T:0.62
Consensus pattern (8 bp):
TATATATT
Found at i:16350722 original size:29 final size:29
Alignment explanation
Indices: 16350665--16350724 Score: 79
Period size: 29 Copynumber: 2.1 Consensus size: 29
16350655 ATTTTATATA
* *
16350665 TATTTATATATTTATCATTTTATCATTTT
1 TATTTATATATTTATCATTCTATAATTTT
16350694 TATTTATATATTATAT-ATTCTA-AATTTT
1 TATTTATATATT-TATCATTCTATAATTTT
16350722 TAT
1 TAT
16350725 ATGTTTTTCA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
28 8 0.29
29 17 0.61
30 3 0.11
ACGTcount: A:0.32, C:0.05, G:0.00, T:0.63
Consensus pattern (29 bp):
TATTTATATATTTATCATTCTATAATTTT
Found at i:16360290 original size:25 final size:25
Alignment explanation
Indices: 16360257--16360326 Score: 113
Period size: 25 Copynumber: 2.8 Consensus size: 25
16360247 CAGGCCCATT
16360257 TTCACAGCTCATGTGAGCATTCTGA
1 TTCACAGCTCATGTGAGCATTCTGA
* *
16360282 TTCATAGCTCATGTGAGCATTTTGA
1 TTCACAGCTCATGTGAGCATTCTGA
*
16360307 TTCACAACTCATGTGAGCAT
1 TTCACAGCTCATGTGAGCAT
16360327 ACATGTACAG
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 41 1.00
ACGTcount: A:0.26, C:0.21, G:0.19, T:0.34
Consensus pattern (25 bp):
TTCACAGCTCATGTGAGCATTCTGA
Found at i:16361483 original size:15 final size:16
Alignment explanation
Indices: 16361463--16361492 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
16361453 TGGTGCCTTG
16361463 TTGAT-ATGTGTTAAT
1 TTGATAATGTGTTAAT
16361478 TTGATAATGTGTTAA
1 TTGATAATGTGTTAA
16361493 AGCATGTTTG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.30, C:0.00, G:0.20, T:0.50
Consensus pattern (16 bp):
TTGATAATGTGTTAAT
Found at i:16367275 original size:25 final size:25
Alignment explanation
Indices: 16367247--16367300 Score: 72
Period size: 25 Copynumber: 2.2 Consensus size: 25
16367237 TGTAGTGGCA
16367247 AGGTGGCAACACAGGTGTGGCAAGG
1 AGGTGGCAACACAGGTGTGGCAAGG
*** *
16367272 AGGTGGTGTCACAGGTGTGGTAAGG
1 AGGTGGCAACACAGGTGTGGCAAGG
16367297 AGGT
1 AGGT
16367301 CAGAGGTTCA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.24, C:0.11, G:0.46, T:0.19
Consensus pattern (25 bp):
AGGTGGCAACACAGGTGTGGCAAGG
Found at i:16367449 original size:24 final size:21
Alignment explanation
Indices: 16367416--16367462 Score: 58
Period size: 24 Copynumber: 2.1 Consensus size: 21
16367406 TCAAATGAGT
*
16367416 GATTTAAGGAGTGGATCATGGAG
1 GATTTAAGGAGAGGAT--TGGAG
16367439 GATTTCAAGGAGAGGATTGGAG
1 GATTT-AAGGAGAGGATTGGAG
16367461 GA
1 GA
16367463 GAGATTTTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
22 7 0.32
23 5 0.23
24 10 0.45
ACGTcount: A:0.32, C:0.04, G:0.40, T:0.23
Consensus pattern (21 bp):
GATTTAAGGAGAGGATTGGAG
Found at i:16367476 original size:25 final size:24
Alignment explanation
Indices: 16367435--16367486 Score: 61
Period size: 24 Copynumber: 2.1 Consensus size: 24
16367425 AGTGGATCAT
16367435 GGAGGATTTCAAGGAGAGGATTGGA
1 GGAGGATTTCAAGGAGA-GATTGGA
* *
16367460 GGAGAGATTTTAA-GAGAGATTTGA
1 GGAG-GATTTCAAGGAGAGATTGGA
16367484 GGA
1 GGA
16367487 ATTTGAGTAG
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
24 9 0.38
25 8 0.33
26 7 0.29
ACGTcount: A:0.35, C:0.02, G:0.40, T:0.23
Consensus pattern (24 bp):
GGAGGATTTCAAGGAGAGATTGGA
Found at i:16368581 original size:27 final size:27
Alignment explanation
Indices: 16368547--16368656 Score: 148
Period size: 27 Copynumber: 4.1 Consensus size: 27
16368537 TTAACTTTAT
*
16368547 CGAAATACCCTCGATGGGTAAAATTAT
1 CGAAATACCCTCGATGGGTAAAATTAC
* **
16368574 TGAAATACCCTTAATGGGTAAAATTAC
1 CGAAATACCCTCGATGGGTAAAATTAC
*
16368601 TGAAATACCCTCGATGGGTAAAATTAC
1 CGAAATACCCTCGATGGGTAAAATTAC
* * *
16368628 CAAAATACCCTCGAAGAGTAAAATTAC
1 CGAAATACCCTCGATGGGTAAAATTAC
16368655 CG
1 CG
16368657 TAATGCCCCC
Statistics
Matches: 72, Mismatches: 11, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 72 1.00
ACGTcount: A:0.40, C:0.19, G:0.16, T:0.25
Consensus pattern (27 bp):
CGAAATACCCTCGATGGGTAAAATTAC
Found at i:16368900 original size:26 final size:26
Alignment explanation
Indices: 16368851--16368900 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 26
16368841 ACATATACTG
* **
16368851 TACTGGCAGCTCTGCTGCGTTATTAT
1 TACTGGCAGCTATGCTGCAATATTAT
*
16368877 TACTGGCAGCTATGTTGCAATATT
1 TACTGGCAGCTATGCTGCAATATT
16368901 GGTGTGTGGG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 20 1.00
ACGTcount: A:0.20, C:0.20, G:0.22, T:0.38
Consensus pattern (26 bp):
TACTGGCAGCTATGCTGCAATATTAT
Found at i:16373581 original size:50 final size:49
Alignment explanation
Indices: 16373476--16373582 Score: 126
Period size: 50 Copynumber: 2.1 Consensus size: 49
16373466 TTATTGAGGT
*
16373476 TATGAGAGGTCCCACGCAAGACCATGTCTGGGACATGGCGCTGGTACCAA
1 TATGAGAGGTCCCACGCAAGACCATGTCTGGGACAT-GCGCTGGAACCAA
* * * * *
16373526 GATGAGAGGTCCCTCGTAAGATCATGTCTGGGACAT-CGCATAGGAACCGA
1 TATGAGAGGTCCCACGCAAGACCATGTCTGGGACATGCGC-T-GGAACCAA
16373576 TATGAGA
1 TATGAGA
16373583 ACTCTCATGT
Statistics
Matches: 48, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
48 3 0.06
49 1 0.02
50 44 0.92
ACGTcount: A:0.28, C:0.22, G:0.30, T:0.20
Consensus pattern (49 bp):
TATGAGAGGTCCCACGCAAGACCATGTCTGGGACATGCGCTGGAACCAA
Found at i:16373898 original size:20 final size:20
Alignment explanation
Indices: 16373873--16373911 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
16373863 TGAGTTATTT
16373873 AAGTAAGCA-AGTAAGTAAAC
1 AAGTAA-CAGAGTAAGTAAAC
16373893 AAGTAACAGAGTAAGTAAA
1 AAGTAACAGAGTAAGTAAA
16373912 GAAGAAAGTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 2 0.11
20 16 0.89
ACGTcount: A:0.56, C:0.08, G:0.21, T:0.15
Consensus pattern (20 bp):
AAGTAACAGAGTAAGTAAAC
Found at i:16375382 original size:40 final size:39
Alignment explanation
Indices: 16375253--16375388 Score: 134
Period size: 40 Copynumber: 3.4 Consensus size: 39
16375243 GCGTTTGGAA
* *
16375253 AAAAATGCCGCTAAAAATCGAGCATTAGCGGCACTTTAC
1 AAAAACGCCGCTAAAAATCGAGCATTAGCGGCATTTTAC
* * * * *
16375292 ACAAAACACTGCTAAAGATCGAGCATTAGCAGCACTTT-C
1 A-AAAACGCCGCTAAAAATCGAGCATTAGCGGCATTTTAC
*
16375331 AGGAAATCGCCGCTAAAAAT-GAGCATTAGCGGCATTTTTACC
1 A--AAAACGCCGCTAAAAATCGAGCATTAGCGGCA-TTTTA-C
16375373 AAAAACGCCG-TAAAAA
1 AAAAACGCCGCTAAAAA
16375389 CCTAAGCCCA
Statistics
Matches: 79, Mismatches: 13, Indels: 10
0.77 0.13 0.10
Matches are distributed among these distances:
39 22 0.28
40 55 0.70
42 2 0.03
ACGTcount: A:0.40, C:0.23, G:0.18, T:0.20
Consensus pattern (39 bp):
AAAAACGCCGCTAAAAATCGAGCATTAGCGGCATTTTAC
Found at i:16375499 original size:41 final size:41
Alignment explanation
Indices: 16375423--16375700 Score: 358
Period size: 41 Copynumber: 6.8 Consensus size: 41
16375413 TGACCTTTCG
* * * * *
16375423 GGGCTTTAGTGGTGTTTTTAAAAAAGCACCGCTAATGCTTA
1 GGGCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCA
* * * * * *
16375464 GGGATTTAGTGGCGTTTTTGGAGAAGCGCCACTAATGCTTA
1 GGGCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCA
*
16375505 GGGCTTTAGCGACGTTTTTGAAAAAGCGCCGCTAATGCTCA
1 GGGCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCA
* * *
16375546 GGGCTTGAGCGGCGTTTTTGGAGAAGCGCCGCTAATGCTCA
1 GGGCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCA
* *
16375587 GGGCTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATACTCA
1 GGGCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCA
* * *
16375628 GGACTTTAGTGGCGTTTTTGAAAAAGCGTCGCTAATGCTCA
1 GGGCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCA
* *
16375669 GGGCTTTAGCGGCGTTTTTAAAAAAGTGCCGC
1 GGGCTTTAGCGGCGTTTTTGAAAAAGCGCCGC
16375701 AAAAACATTT
Statistics
Matches: 206, Mismatches: 31, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
41 206 1.00
ACGTcount: A:0.23, C:0.19, G:0.29, T:0.29
Consensus pattern (41 bp):
GGGCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCA
Found at i:16376046 original size:14 final size:14
Alignment explanation
Indices: 16376029--16376062 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
16376019 GGGTTTAATA
16376029 TATATGGTTTAGGG
1 TATATGGTTTAGGG
*
16376043 TATATGGTTTGGGG
1 TATATGGTTTAGGG
16376057 TATATG
1 TATATG
16376063 ATTAATTTAG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.21, C:0.00, G:0.35, T:0.44
Consensus pattern (14 bp):
TATATGGTTTAGGG
Found at i:16376301 original size:68 final size:70
Alignment explanation
Indices: 16376228--16376362 Score: 229
Period size: 68 Copynumber: 2.0 Consensus size: 70
16376218 CAGTGTTAGG
* *
16376228 TTAAGGTTTAGGGTTTAGATTAATTAGTGTATTTTAA-TT-TATATTAAATAAGGTTTATGGGTT
1 TTAAGGTTTACGGTTTAGATTAATTAGTGTATTTTAATTTATATATTAAATAAGGTTTAGGGGTT
16376291 AGGGT
66 AGGGT
*
16376296 TTAAGGTTTACGGTTTAGATTAATTAGTGTTTTTTAATTTATATATTAAATAAGGTTTAGGGGTT
1 TTAAGGTTTACGGTTTAGATTAATTAGTGTATTTTAATTTATATATTAAATAAGGTTTAGGGGTT
16376361 AG
66 AG
16376363 TAGTTAGGGG
Statistics
Matches: 62, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
68 35 0.56
69 2 0.03
70 25 0.40
ACGTcount: A:0.30, C:0.01, G:0.22, T:0.47
Consensus pattern (70 bp):
TTAAGGTTTACGGTTTAGATTAATTAGTGTATTTTAATTTATATATTAAATAAGGTTTAGGGGTT
AGGGT
Found at i:16376530 original size:94 final size:93
Alignment explanation
Indices: 16376418--16376590 Score: 258
Period size: 94 Copynumber: 1.8 Consensus size: 93
16376408 ATTTGAGGTC
* *
16376418 GGGTTAGGGTTGAAGGTTTAAATTAACTAGTATTTTTT-AATTTATATATTAATTAAGTTCTTAT
1 GGGTTAGGGTTGAAGGTTTAAATTAACTAGT-TTTTTTAAATTTATATATTAAATAAGTTATTAT
16376482 ATAATTGTAAAAGAGGGGTTAAGGGTTAG
65 ATAATTGTAAAAGAGGGGTTAAGGGTTAG
* * * * *
16376511 GGGTTAGAGGTTTAAGGTTTAGATTAATTGGTTTTTTTAAATTTATATATTAAATAATTTATTAT
1 GGGTTAG-GGTTGAAGGTTTAAATTAACTAGTTTTTTTAAATTTATATATTAAATAAGTTATTAT
16376576 ATAATTGTAAAAGAG
65 ATAATTGTAAAAGAG
16376591 ATAATATTAA
Statistics
Matches: 71, Mismatches: 7, Indels: 3
0.88 0.09 0.04
Matches are distributed among these distances:
93 13 0.18
94 58 0.82
ACGTcount: A:0.35, C:0.01, G:0.20, T:0.44
Consensus pattern (93 bp):
GGGTTAGGGTTGAAGGTTTAAATTAACTAGTTTTTTTAAATTTATATATTAAATAAGTTATTATA
TAATTGTAAAAGAGGGGTTAAGGGTTAG
Found at i:16380723 original size:22 final size:22
Alignment explanation
Indices: 16380695--16380743 Score: 98
Period size: 22 Copynumber: 2.2 Consensus size: 22
16380685 GGAAAACTGG
16380695 AAATAGGCATGGCAACATGCAA
1 AAATAGGCATGGCAACATGCAA
16380717 AAATAGGCATGGCAACATGCAA
1 AAATAGGCATGGCAACATGCAA
16380739 AAATA
1 AAATA
16380744 AAAAGAGGGA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.49, C:0.16, G:0.20, T:0.14
Consensus pattern (22 bp):
AAATAGGCATGGCAACATGCAA
Found at i:16383480 original size:14 final size:15
Alignment explanation
Indices: 16383461--16383491 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
16383451 TTAATTTTGG
16383461 AAATT-AATAAATAA
1 AAATTAAATAAATAA
16383475 AAATTAAATAAATAA
1 AAATTAAATAAATAA
16383490 AA
1 AA
16383492 CAATTAAAGT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 5 0.31
15 11 0.69
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (15 bp):
AAATTAAATAAATAA
Found at i:16399828 original size:20 final size:20
Alignment explanation
Indices: 16399805--16399843 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
16399795 GGATTCAGAG
16399805 TTAATTCAGAAGATTTTGTT
1 TTAATTCAGAAGATTTTGTT
16399825 TTAATTCAGAAGATTTTGT
1 TTAATTCAGAAGATTTTGT
16399844 ATGAAGCTCA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.31, C:0.05, G:0.15, T:0.49
Consensus pattern (20 bp):
TTAATTCAGAAGATTTTGTT
Found at i:16402687 original size:25 final size:26
Alignment explanation
Indices: 16402645--16402698 Score: 76
Period size: 25 Copynumber: 2.1 Consensus size: 26
16402635 TTCTCCTAAA
*
16402645 TTTCAATTTTATTTAATTATTTAAT-T
1 TTTCAATTTTATTGAATTA-TTAATAT
16402671 TTTCAA-TTTATTGAATTATTAATAT
1 TTTCAATTTTATTGAATTATTAATAT
16402696 TTT
1 TTT
16402699 ATACTAATTA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
24 5 0.19
25 15 0.58
26 6 0.23
ACGTcount: A:0.31, C:0.04, G:0.02, T:0.63
Consensus pattern (26 bp):
TTTCAATTTTATTGAATTATTAATAT
Found at i:16407374 original size:30 final size:30
Alignment explanation
Indices: 16407340--16407399 Score: 102
Period size: 30 Copynumber: 2.0 Consensus size: 30
16407330 TTATTCTTAG
*
16407340 TCCATTTACTAATTAAGGCTATGTTAGCTA
1 TCCATTTACTAATTAAGGCTATATTAGCTA
*
16407370 TCCATTTTCTAATTAAGGCTATATTAGCTA
1 TCCATTTACTAATTAAGGCTATATTAGCTA
16407400 AATTTTATTA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.30, C:0.17, G:0.12, T:0.42
Consensus pattern (30 bp):
TCCATTTACTAATTAAGGCTATATTAGCTA
Found at i:16409336 original size:17 final size:17
Alignment explanation
Indices: 16409304--16409341 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 17
16409294 TTCAATTCTA
16409304 ATTTGACCCAAAATATTT
1 ATTTGACCCAAAATA-TT
*
16409322 ATTTTACCC-AAATATT
1 ATTTGACCCAAAATATT
16409338 ATTT
1 ATTT
16409342 AAAACTATAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 6 0.32
17 5 0.26
18 8 0.42
ACGTcount: A:0.37, C:0.16, G:0.03, T:0.45
Consensus pattern (17 bp):
ATTTGACCCAAAATATT
Found at i:16418177 original size:23 final size:22
Alignment explanation
Indices: 16418145--16418191 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 22
16418135 TTTAACATTA
16418145 TCTTTTATTTCCTTT-TAGGTTT
1 TCTTTTATTTCCTTTCTA-GTTT
*
16418167 TCTTTTCATTTTCTTTCTAGTTT
1 TCTTTT-ATTTCCTTTCTAGTTT
16418190 TC
1 TC
16418192 ACTCAAAGTA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
22 6 0.27
23 14 0.64
24 2 0.09
ACGTcount: A:0.09, C:0.17, G:0.06, T:0.68
Consensus pattern (22 bp):
TCTTTTATTTCCTTTCTAGTTT
Found at i:16418352 original size:15 final size:14
Alignment explanation
Indices: 16418302--16418352 Score: 50
Period size: 13 Copynumber: 3.5 Consensus size: 14
16418292 CTCTTGTCAA
16418302 TTATTATTTTTATG
1 TTATTATTTTTATG
*
16418316 ATTATTTATTTTTGT-
1 -TTA-TTATTTTTATG
*
16418331 TTGTTATTTTTATG
1 TTATTATTTTTATG
16418345 TTCATTAT
1 TT-ATTAT
16418353 GAACTAATTG
Statistics
Matches: 29, Mismatches: 4, Indels: 6
0.74 0.10 0.15
Matches are distributed among these distances:
13 9 0.31
14 4 0.14
15 7 0.24
16 9 0.31
ACGTcount: A:0.20, C:0.02, G:0.08, T:0.71
Consensus pattern (14 bp):
TTATTATTTTTATG
Found at i:16418861 original size:13 final size:12
Alignment explanation
Indices: 16418842--16418871 Score: 51
Period size: 13 Copynumber: 2.4 Consensus size: 12
16418832 AAATTAGTTA
16418842 TTTTATTTTATT
1 TTTTATTTTATT
16418854 TGTTTATTTTATT
1 T-TTTATTTTATT
16418867 TTTTA
1 TTTTA
16418872 AATAATTATT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
12 5 0.29
13 12 0.71
ACGTcount: A:0.17, C:0.00, G:0.03, T:0.80
Consensus pattern (12 bp):
TTTTATTTTATT
Found at i:16420056 original size:14 final size:14
Alignment explanation
Indices: 16420037--16420063 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
16420027 ATTAAATTTG
16420037 AGAAATAATCTCCC
1 AGAAATAATCTCCC
16420051 AGAAATAATCTCC
1 AGAAATAATCTCC
16420064 TAGTTAAACT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.44, C:0.26, G:0.07, T:0.22
Consensus pattern (14 bp):
AGAAATAATCTCCC
Found at i:16421853 original size:29 final size:29
Alignment explanation
Indices: 16421809--16421875 Score: 80
Period size: 29 Copynumber: 2.3 Consensus size: 29
16421799 TGCAGAAATT
* * *
16421809 TTGCCATATAATGAATACATGCCATAAAA
1 TTGCCAAATAACGAATAAATGCCATAAAA
**
16421838 TTGCCAAATAACGAATAAATGTGATAAAA
1 TTGCCAAATAACGAATAAATGCCATAAAA
*
16421867 TCGCCAAAT
1 TTGCCAAAT
16421876 CCCCTCGAAT
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
29 32 1.00
ACGTcount: A:0.46, C:0.16, G:0.12, T:0.25
Consensus pattern (29 bp):
TTGCCAAATAACGAATAAATGCCATAAAA
Found at i:16424335 original size:30 final size:30
Alignment explanation
Indices: 16424301--16424359 Score: 82
Period size: 30 Copynumber: 2.0 Consensus size: 30
16424291 TACAAGCTTT
16424301 GGGGCAAAAGTGTAAATATGCAAAAGTTTA
1 GGGGCAAAAGTGTAAATATGCAAAAGTTTA
* * * *
16424331 GGGGCAAAATTGTAATTTTGCCAAAGTTT
1 GGGGCAAAAGTGTAAATATGCAAAAGTTT
16424360 GAGTCAAGGA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.37, C:0.08, G:0.25, T:0.29
Consensus pattern (30 bp):
GGGGCAAAAGTGTAAATATGCAAAAGTTTA
Found at i:16424844 original size:23 final size:23
Alignment explanation
Indices: 16424811--16424904 Score: 116
Period size: 23 Copynumber: 4.1 Consensus size: 23
16424801 AGTGTTATTG
*
16424811 ATCAGTGGTAGCTACGGCTACAT
1 ATCAATGGTAGCTACGGCTACAT
* * *
16424834 ATCATTTGTAGCTTCGGCTACAT
1 ATCAATGGTAGCTACGGCTACAT
* * *
16424857 TTTAGTGGTAGCTACGGCTACAT
1 ATCAATGGTAGCTACGGCTACAT
*
16424880 ATCAATGGTAGCTTCGGCTACAT
1 ATCAATGGTAGCTACGGCTACAT
16424903 AT
1 AT
16424905 TAGTGTGGCA
Statistics
Matches: 59, Mismatches: 12, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 59 1.00
ACGTcount: A:0.24, C:0.20, G:0.22, T:0.33
Consensus pattern (23 bp):
ATCAATGGTAGCTACGGCTACAT
Found at i:16424867 original size:46 final size:46
Alignment explanation
Indices: 16424814--16424909 Score: 165
Period size: 46 Copynumber: 2.1 Consensus size: 46
16424804 GTTATTGATC
* * *
16424814 AGTGGTAGCTACGGCTACATATCATTTGTAGCTTCGGCTACATTTT
1 AGTGGTAGCTACGGCTACATATCAATGGTAGCTTCGGCTACATATT
16424860 AGTGGTAGCTACGGCTACATATCAATGGTAGCTTCGGCTACATATT
1 AGTGGTAGCTACGGCTACATATCAATGGTAGCTTCGGCTACATATT
16424906 AGTG
1 AGTG
16424910 TGGCACTTAT
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
46 47 1.00
ACGTcount: A:0.24, C:0.19, G:0.24, T:0.33
Consensus pattern (46 bp):
AGTGGTAGCTACGGCTACATATCAATGGTAGCTTCGGCTACATATT
Found at i:16437654 original size:27 final size:27
Alignment explanation
Indices: 16437616--16438091 Score: 459
Period size: 27 Copynumber: 17.7 Consensus size: 27
16437606 GACTTATAGG
*
16437616 AAAATGACTGAAATACCCTCGAAGGGT
1 AAAATGACTGAAATACCCTTGAAGGGT
* * *
16437643 AAAACGACTGAAATACCTTTGAACGGT
1 AAAATGACTGAAATACCCTTGAAGGGT
** **
16437670 AAAATGACCAAAATACCCTCAAAGGGT
1 AAAATGACTGAAATACCCTTGAAGGGT
*
16437697 AAAATGACTGAAATACCCTTGAAGGAT
1 AAAATGACTGAAATACCCTTGAAGGGT
* *
16437724 AAAATGA-TCGAAATGCCCTCGAAGGGT
1 AAAATGACT-GAAATACCCTTGAAGGGT
16437751 AAAATGA-TCGAAATACCCTTGAAGGGT
1 AAAATGACT-GAAATACCCTTGAAGGGT
* * *
16437778 AAAATGA-TCGAAATGCCATCGAAGGGT
1 AAAATGACT-GAAATACCCTTGAAGGGT
*
16437805 AAAATGA-TCGAAATACCCTTAAAGGGT
1 AAAATGACT-GAAATACCCTTGAAGGGT
16437832 AAAATGACTGAAATACCCTTGAAGGGT
1 AAAATGACTGAAATACCCTTGAAGGGT
* *
16437859 AAAATGACCGAAATTCCCTTGAAGGGT
1 AAAATGACTGAAATACCCTTGAAGGGT
* *
16437886 AAAATAACTGAAATACCTTTGAAGGGT
1 AAAATGACTGAAATACCCTTGAAGGGT
** *
16437913 AAAATGACCAAAATACCCTTAAAGGGT
1 AAAATGACTGAAATACCCTTGAAGGGT
* * *
16437940 AAAATGACTGAAATGCCCTTGAAAGAT
1 AAAATGACTGAAATACCCTTGAAGGGT
* * *
16437967 AAAATGA-TCAAAACACCCCTGAAGGGT
1 AAAATGACT-GAAATACCCTTGAAGGGT
* * *
16437994 AAAATGA-TCAAAATACCCCTGAACGGT
1 AAAATGACT-GAAATACCCTTGAAGGGT
*
16438021 AAAATGA-TCGAAATACCC-TCATAGGGT
1 AAAATGACT-GAAATACCCTTGA-AGGGT
* * * *
16438048 AAAAGGAAC-GAAA-ACCCCTAAAGAGT
1 AAAATG-ACTGAAATACCCTTGAAGGGT
* *
16438074 GAAATGACCGAAATACCC
1 AAAATGACTGAAATACCC
16438092 CCATAAGGTA
Statistics
Matches: 378, Mismatches: 62, Indels: 18
0.83 0.14 0.04
Matches are distributed among these distances:
25 2 0.01
26 20 0.05
27 354 0.94
28 2 0.01
ACGTcount: A:0.43, C:0.18, G:0.20, T:0.19
Consensus pattern (27 bp):
AAAATGACTGAAATACCCTTGAAGGGT
Found at i:16438317 original size:26 final size:26
Alignment explanation
Indices: 16438288--16438358 Score: 124
Period size: 26 Copynumber: 2.7 Consensus size: 26
16438278 CATATACTGC
*
16438288 TACTGGCAGCTTTGCTGCGTTACTAT
1 TACTGGCAGCTTTGCTGCGTCACTAT
16438314 TACTGGCAGCTTTGCTGCGTCACTAT
1 TACTGGCAGCTTTGCTGCGTCACTAT
*
16438340 TACTGGCAGCTTGGCTGCG
1 TACTGGCAGCTTTGCTGCG
16438359 ATATTGGTGT
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 43 1.00
ACGTcount: A:0.14, C:0.25, G:0.27, T:0.34
Consensus pattern (26 bp):
TACTGGCAGCTTTGCTGCGTCACTAT
Found at i:16438491 original size:30 final size:28
Alignment explanation
Indices: 16438426--16438518 Score: 114
Period size: 28 Copynumber: 3.2 Consensus size: 28
16438416 TACTGCATTG
*
16438426 CACTGATTACTATATTGGGCTAAGGCCCC
1 CACTG-TTACTATATTGGGCTAAGGCCCA
* *
16438455 CACTGTTACTGTATTGGGTTAAGGCCTACA
1 CACTGTTACTATATTGGGCTAAGGCC--CA
* *
16438485 CACTGTTACTATAATGGGCTAAAGCCCA
1 CACTGTTACTATATTGGGCTAAGGCCCA
16438513 CACTGT
1 CACTGT
16438519 ACTGATACTA
Statistics
Matches: 55, Mismatches: 7, Indels: 5
0.82 0.10 0.07
Matches are distributed among these distances:
28 27 0.49
29 5 0.09
30 23 0.42
ACGTcount: A:0.26, C:0.25, G:0.20, T:0.29
Consensus pattern (28 bp):
CACTGTTACTATATTGGGCTAAGGCCCA
Found at i:16444354 original size:47 final size:47
Alignment explanation
Indices: 16444299--16444839 Score: 888
Period size: 47 Copynumber: 11.6 Consensus size: 47
16444289 TAATTGAATA
* *
16444299 AATGTGATGAAAGTGAACATGTATATGTGTGATAGGGCCGAATGGCC
1 AATGTGATGAAAGTGAACATGTGTATGTGTGATAAGGCCGAATGGCC
*
16444346 AATGTGATGAATGTGAACATGTGTATGTGTGATAAGGCCGAATGGCC
1 AATGTGATGAAAGTGAACATGTGTATGTGTGATAAGGCCGAATGGCC
*
16444393 AATGTGATGAAAGTGAACATGTGTATGTGTGATAGGGCCGAATGGCC
1 AATGTGATGAAAGTGAACATGTGTATGTGTGATAAGGCCGAATGGCC
*
16444440 AATGTGATGAATGTGAACATGTGTATGTGTGATAAGGCCGAATGGCC
1 AATGTGATGAAAGTGAACATGTGTATGTGTGATAAGGCCGAATGGCC
*
16444487 AATGTGATGAAAGTGAACATGTGTATGTGTGATAGGGCCGAATGGCC
1 AATGTGATGAAAGTGAACATGTGTATGTGTGATAAGGCCGAATGGCC
*
16444534 AATGTGATGAATGTGAACATGTGTATGTGTGATAAGGCCGAATGGCC
1 AATGTGATGAAAGTGAACATGTGTATGTGTGATAAGGCCGAATGGCC
* *
16444581 AATGTGATGAAAGTGAACATGTATATGTGTGATAGGGCCGAATGGCC
1 AATGTGATGAAAGTGAACATGTGTATGTGTGATAAGGCCGAATGGCC
16444628 AATGTGATGAAAGTGAACATGTGTATGTGTGATAAGGCCGAATGGCC
1 AATGTGATGAAAGTGAACATGTGTATGTGTGATAAGGCCGAATGGCC
*
16444675 AATGTGATGAAAGTGAACATGTATATGTGTGATAAGGCCGAATGGCC
1 AATGTGATGAAAGTGAACATGTGTATGTGTGATAAGGCCGAATGGCC
* *
16444722 AATGTGATGAAAGTGAACAGGTGTATGTGTGATAAGGCCGAGTGGCC
1 AATGTGATGAAAGTGAACATGTGTATGTGTGATAAGGCCGAATGGCC
* * * * *
16444769 AATGTGATGAATGTGAGCATGTGTATGTGAGGTAAGGCCTAATGGCC
1 AATGTGATGAAAGTGAACATGTGTATGTGTGATAAGGCCGAATGGCC
* * *
16444816 GATGTAATGAATGTGAA-A-GTGTAT
1 AATGTGATGAAAGTGAACATGTGTAT
16444840 AAATGTGATA
Statistics
Matches: 464, Mismatches: 30, Indels: 2
0.94 0.06 0.00
Matches are distributed among these distances:
45 6 0.01
46 1 0.00
47 457 0.98
ACGTcount: A:0.31, C:0.10, G:0.33, T:0.26
Consensus pattern (47 bp):
AATGTGATGAAAGTGAACATGTGTATGTGTGATAAGGCCGAATGGCC
Found at i:16445027 original size:37 final size:37
Alignment explanation
Indices: 16444970--16445049 Score: 106
Period size: 37 Copynumber: 2.2 Consensus size: 37
16444960 CCGGGCTCTA
* * *
16444970 AAGACCCGATGACTACGTGTGGAAATTTTGTCCGGGT
1 AAGACTCGATAACTACGTGTGGAAATTATGTCCGGGT
* * *
16445007 ACGACTCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACTCGATAACTACGTGTGGAAATTATGTCCGGGT
16445044 AAGACT
1 AAGACT
16445050 TCGTAATAAG
Statistics
Matches: 36, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.25, C:0.19, G:0.29, T:0.28
Consensus pattern (37 bp):
AAGACTCGATAACTACGTGTGGAAATTATGTCCGGGT
Found at i:16446933 original size:40 final size:40
Alignment explanation
Indices: 16446926--16447432 Score: 816
Period size: 40 Copynumber: 12.7 Consensus size: 40
16446916 TGTGAGTTAC
16446926 TAAATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGA
1 TAAATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGA
16446966 TAAATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGA
1 TAAATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGA
** *
16447006 TGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGA
1 TAAATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGA
*
16447046 TAAATCTGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGA
1 TAAATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGA
**
16447086 TGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGA
1 TAAATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGA
** *
16447126 TGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGA
1 TAAATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGA
*
16447166 TGAATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGA
1 TAAATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGA
**
16447206 TGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGA
1 TAAATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGA
16447246 TAAATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGA
1 TAAATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGA
** *
16447286 TGTATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGA
1 TAAATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGA
*
16447326 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGA
1 TAAATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGA
** *
16447366 TGTATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGA
1 TAAATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGA
* * *
16447406 TATATCCGTGCTAAATCCCGAAGAGCA
1 TAAATCCGGGCTAAGTCCCGAAGAGCA
16447433 ATCATGCTGG
Statistics
Matches: 440, Mismatches: 27, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 440 1.00
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.24
Consensus pattern (40 bp):
TAAATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGA
Found at i:16446987 original size:80 final size:80
Alignment explanation
Indices: 16446850--16447432 Score: 881
Period size: 80 Copynumber: 7.3 Consensus size: 80
16446840 TCGAATGATG
* ** *
16446850 TCCGGGCTAAGTCCCGAAG-GC-TTTGTGCTAAGTGACCATATCCGGACTAAGAT-CCGAAG-GC
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCT-AGTGA-TGTATCCGGGCTAAG-TCCCGAAGAGC
* * *
16446911 ATTGGTG-TGAGTTACTAAA
63 ATTCGTGCT-AGTGA-TATA
**
16446930 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATAAATCCGGGCTAAGTCCCGAAGAGCATT
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTATCCGGGCTAAGTCCCGAAGAGCATT
*
16446995 CGTGCTAGTGATGTA
66 CGTGCTAGTGATATA
* ** *
16447010 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATAAATCTGGGCTAAGTCCCGAAGAGCATT
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTATCCGGGCTAAGTCCCGAAGAGCATT
*
16447075 CGTGCTAGTGATGTA
66 CGTGCTAGTGATATA
16447090 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTATCCGGGCTAAGTCCCGAAGAGCATT
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTATCCGGGCTAAGTCCCGAAGAGCATT
*
16447155 CATGCTAGTGATGA-A
66 CGTGCTAGTGAT-ATA
16447170 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTATCCGGGCTAAGTCCCGAAGAGCATT
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTATCCGGGCTAAGTCCCGAAGAGCATT
*
16447235 CGTGCTAGTGATAAA
66 CGTGCTAGTGATATA
*
16447250 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTATCCGGGCTAAGTTCCGAAGAGCATT
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTATCCGGGCTAAGTCCCGAAGAGCATT
16447315 CGTGCTAGTGATATA
66 CGTGCTAGTGATATA
*
16447330 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTATCCGGGCTAAGTTCCGAAGAGCATT
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTATCCGGGCTAAGTCCCGAAGAGCATT
16447395 CGTGCTAGTGATATA
66 CGTGCTAGTGATATA
* *
16447410 TCCGTGCTAAATCCCGAAGAGCA
1 TCCGGGCTAAGTCCCGAAGAGCA
16447433 ATCATGCTGG
Statistics
Matches: 475, Mismatches: 21, Indels: 14
0.93 0.04 0.03
Matches are distributed among these distances:
79 2 0.00
80 446 0.94
81 19 0.04
82 8 0.02
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTATCCGGGCTAAGTCCCGAAGAGCATT
CGTGCTAGTGATATA
Found at i:16447063 original size:120 final size:120
Alignment explanation
Indices: 16446850--16447432 Score: 888
Period size: 120 Copynumber: 4.9 Consensus size: 120
16446840 TCGAATGATG
* ** *
16446850 TCCGGGCTAAGTCCCGAAG-GC-TTTGTGCTAAGTGACCATATCCGGACTAAGAT-CCGAAG-GC
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCT-AGTGA-TGTATCCGGGCTAAG-TCCCGAAGAGC
* * *
16446911 ATTGGTG-TGAGTTACTAAATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATAAA
63 ATTCGTGCT-AGTGA-TAAATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATA
16446970 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTATCCGGGCTAAGTCCCGAAGAGCATT
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTATCCGGGCTAAGTCCCGAAGAGCATT
* * *
16447035 CATGCTAGTGATAAATCTGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTA
66 CGTGCTAGTGATAAATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATA
16447090 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTATCCGGGCTAAGTCCCGAAGAGCATT
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTATCCGGGCTAAGTCCCGAAGAGCATT
* * *
16447155 CATGCTAGTGATGAATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTA
66 CGTGCTAGTGATAAATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATA
**
16447210 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATAAATCCGGGCTAAGTCCCGAAGAGCATT
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTATCCGGGCTAAGTCCCGAAGAGCATT
** *
16447275 CGTGCTAGTGATGTATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATATA
66 CGTGCTAGTGATAAATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATA
*
16447330 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTATCCGGGCTAAGTTCCGAAGAGCATT
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTATCCGGGCTAAGTCCCGAAGAGCATT
* * *
16447395 CGTGCTAGTGATATATCCGTGCTAAATCCCGAAGAGCA
66 CGTGCTAGTGATAAATCCGGGCTAAGTCCCGAAGAGCA
16447433 ATCATGCTGG
Statistics
Matches: 433, Mismatches: 25, Indels: 10
0.93 0.05 0.02
Matches are distributed among these distances:
119 1 0.00
120 406 0.94
121 18 0.04
122 8 0.02
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (120 bp):
TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTATCCGGGCTAAGTCCCGAAGAGCATT
CGTGCTAGTGATAAATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATA
Found at i:16451305 original size:47 final size:47
Alignment explanation
Indices: 16451250--16451790 Score: 888
Period size: 47 Copynumber: 11.6 Consensus size: 47
16451240 TAATTGAATA
* *
16451250 AATGTGATGAAAGTGAACATGTATATGTGTGATAGGGCCGAATGGCC
1 AATGTGATGAAAGTGAACATGTGTATGTGTGATAAGGCCGAATGGCC
*
16451297 AATGTGATGAATGTGAACATGTGTATGTGTGATAAGGCCGAATGGCC
1 AATGTGATGAAAGTGAACATGTGTATGTGTGATAAGGCCGAATGGCC
*
16451344 AATGTGATGAAAGTGAACATGTGTATGTGTGATAGGGCCGAATGGCC
1 AATGTGATGAAAGTGAACATGTGTATGTGTGATAAGGCCGAATGGCC
*
16451391 AATGTGATGAATGTGAACATGTGTATGTGTGATAAGGCCGAATGGCC
1 AATGTGATGAAAGTGAACATGTGTATGTGTGATAAGGCCGAATGGCC
*
16451438 AATGTGATGAAAGTGAACATGTGTATGTGTGATAGGGCCGAATGGCC
1 AATGTGATGAAAGTGAACATGTGTATGTGTGATAAGGCCGAATGGCC
*
16451485 AATGTGATGAATGTGAACATGTGTATGTGTGATAAGGCCGAATGGCC
1 AATGTGATGAAAGTGAACATGTGTATGTGTGATAAGGCCGAATGGCC
* *
16451532 AATGTGATGAAAGTGAACATGTATATGTGTGATAGGGCCGAATGGCC
1 AATGTGATGAAAGTGAACATGTGTATGTGTGATAAGGCCGAATGGCC
16451579 AATGTGATGAAAGTGAACATGTGTATGTGTGATAAGGCCGAATGGCC
1 AATGTGATGAAAGTGAACATGTGTATGTGTGATAAGGCCGAATGGCC
*
16451626 AATGTGATGAAAGTGAACATGTATATGTGTGATAAGGCCGAATGGCC
1 AATGTGATGAAAGTGAACATGTGTATGTGTGATAAGGCCGAATGGCC
* *
16451673 AATGTGATGAAAGTGAACAGGTGTATGTGTGATAAGGCCGAGTGGCC
1 AATGTGATGAAAGTGAACATGTGTATGTGTGATAAGGCCGAATGGCC
* * * * *
16451720 AATGTGATGAATGTGAGCATGTGTATGTGAGGTAAGGCCTAATGGCC
1 AATGTGATGAAAGTGAACATGTGTATGTGTGATAAGGCCGAATGGCC
* * *
16451767 GATGTAATGAATGTGAA-A-GTGTAT
1 AATGTGATGAAAGTGAACATGTGTAT
16451791 AAATGTGATA
Statistics
Matches: 464, Mismatches: 30, Indels: 2
0.94 0.06 0.00
Matches are distributed among these distances:
45 6 0.01
46 1 0.00
47 457 0.98
ACGTcount: A:0.31, C:0.10, G:0.33, T:0.26
Consensus pattern (47 bp):
AATGTGATGAAAGTGAACATGTGTATGTGTGATAAGGCCGAATGGCC
Found at i:16451978 original size:37 final size:37
Alignment explanation
Indices: 16451921--16452000 Score: 106
Period size: 37 Copynumber: 2.2 Consensus size: 37
16451911 CCGGGCTCTA
* * *
16451921 AAGACCCGATGACTACGTGTGGAAATTTTGTCCGGGT
1 AAGACTCGATAACTACGTGTGGAAATTATGTCCGGGT
* * *
16451958 ACGACTCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACTCGATAACTACGTGTGGAAATTATGTCCGGGT
16451995 AAGACT
1 AAGACT
16452001 TCGTAATAAG
Statistics
Matches: 36, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.25, C:0.19, G:0.29, T:0.28
Consensus pattern (37 bp):
AAGACTCGATAACTACGTGTGGAAATTATGTCCGGGT
Found at i:16457363 original size:27 final size:27
Alignment explanation
Indices: 16457317--16457708 Score: 339
Period size: 27 Copynumber: 14.6 Consensus size: 27
16457307 CATGGGCAAT
* *
16457317 TGATTGAAATA-CCTTCGAAGGATAAAA
1 TGATCGAAATACCCTT-GAAGGGTAAAA
*
16457344 TGACCGAAATACCCTTGAAGGGTAAAA
1 TGATCGAAATACCCTTGAAGGGTAAAA
16457371 TGATCGAAATACCCTTGAAGGGTAAAA
1 TGATCGAAATACCCTTGAAGGGTAAAA
* * * ** *
16457398 TGA-CCAAAAACTCTCAAAAGGTAAAA
1 TGATCGAAATACCCTTGAAGGGTAAAA
* ** * *
16457424 TTATTAAAATGCCCTCGAAGGGTAAAA
1 TGATCGAAATACCCTTGAAGGGTAAAA
*
16457451 TGA-CAGAAATACCCTTAAAGGGTAAAA
1 TGATC-GAAATACCCTTGAAGGGTAAAA
* * * *
16457478 TGATCGAAATGCCCTCGAAAGCTAAAA
1 TGATCGAAATACCCTTGAAGGGTAAAA
* * * **
16457505 TGATCAAAATTCCCTCGAAGAATAAAA
1 TGATCGAAATACCCTTGAAGGGTAAAA
* *
16457532 TGATCGAAATGCCCCTGAAGGGTAAAA
1 TGATCGAAATACCCTTGAAGGGTAAAA
*
16457559 TGA-CAAAAATACCCTT-AGAGGGTAAAA
1 TGATC-GAAATACCCTTGA-AGGGTAAAA
** *
16457586 TGATTAAAATGA-CCTCGAAGGGTAAAA
1 TGATCGAAAT-ACCCTTGAAGGGTAAAA
* * *
16457613 TGATTGAAATACCCCTGAAAGGTAAAA
1 TGATCGAAATACCCTTGAAGGGTAAAA
* *
16457640 TGACCGAAATACCCTTAAAGGGTAAAA
1 TGATCGAAATACCCTTGAAGGGTAAAA
* * *
16457667 TGATTGAAATGCCCTCGAAGGGTAAAA
1 TGATCGAAATACCCTTGAAGGGTAAAA
16457694 TGAAT-GAAATACCCT
1 TG-ATCGAAATACCCT
16457709 CATAAGATAA
Statistics
Matches: 294, Mismatches: 60, Indels: 22
0.78 0.16 0.06
Matches are distributed among these distances:
26 22 0.07
27 263 0.89
28 9 0.03
ACGTcount: A:0.44, C:0.16, G:0.19, T:0.21
Consensus pattern (27 bp):
TGATCGAAATACCCTTGAAGGGTAAAA
Found at i:16458149 original size:30 final size:30
Alignment explanation
Indices: 16458108--16458164 Score: 96
Period size: 30 Copynumber: 1.9 Consensus size: 30
16458098 AAGGGCCCCA
*
16458108 TGTTGCTGTATTGGGCAAAGGCCCACAGAC
1 TGTTACTGTATTGGGCAAAGGCCCACAGAC
*
16458138 TGTTACTGTATTGGGCTAAGGCCCACA
1 TGTTACTGTATTGGGCAAAGGCCCACA
16458165 CTGTATTGAT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.26
Consensus pattern (30 bp):
TGTTACTGTATTGGGCAAAGGCCCACAGAC
Found at i:16462273 original size:29 final size:29
Alignment explanation
Indices: 16462222--16462337 Score: 155
Period size: 29 Copynumber: 4.0 Consensus size: 29
16462212 CGCAGTTTCC
* *
16462222 ATAAGAAA-TCCTTGTGGCGATCTCTATT
1 ATAAGAAATTCTTTCTGGCGATCTCTATT
16462250 ATAAGAAATTCTTTCTGGCGATCTCTATT
1 ATAAGAAATTCTTTCTGGCGATCTCTATT
* *
16462279 ATGAGAAATTCTTTCTGGCGATCTCTTTT
1 ATAAGAAATTCTTTCTGGCGATCTCTATT
* *
16462308 ATAAGAAAATT-TTTGTGGCTATCTCTATT
1 ATAAG-AAATTCTTTCTGGCGATCTCTATT
16462337 A
1 A
16462338 AAGGAATGTC
Statistics
Matches: 78, Mismatches: 8, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
28 8 0.10
29 65 0.83
30 5 0.06
ACGTcount: A:0.28, C:0.16, G:0.16, T:0.41
Consensus pattern (29 bp):
ATAAGAAATTCTTTCTGGCGATCTCTATT
Found at i:16470229 original size:266 final size:266
Alignment explanation
Indices: 16469755--16470288 Score: 802
Period size: 266 Copynumber: 2.0 Consensus size: 266
16469745 GTGATTCTTA
* * * *
16469755 TCATAAGAGAATGCTAGCTAATCATAATGTTAGACGGAAGTATTGTTGGTCTAGTTGATTCATGA
1 TCATAAGAGAATGCTAGCTAATCATAATGTTAAACAGAAGTATTGTTAGTCTAGTTGATTAATGA
** * * *
16469820 TCAGTTTTAATCTATCTTTCTTTGGCATTCTATTCTATTATGTTCTGTAGAAGAATCGATTATGT
66 TCAGCATTAATCTATCGTTCTTTGGCATTCTATTCCATTATGTTCAGTAGAAGAATCGATTATGT
* * * * **
16469885 TGTCTCTGTCACAATTGGTTCCAGTGTGTATGAGCGATATTCTTCTTCTATGTTTTCTCTGGGTT
131 TATCTCTATCACAACTGGTTCCAGTGCGTATGAGCGATATTCTTCTTCTATGTTTTCTCTAAGTT
* * *
16469950 ATCATCAATCTCTTTATCACTCAATATGGGTTGTATTCTTGGAGATTCAGTAGAGTTCCACATAT
196 ATCATCAATCTCTTTATCACTCAATATGGGTTGTATTCTTAGAGATTCAATAGAGTTCCACAGAT
16470015 TGGATT
261 TGGATT
* *
16470021 TCATAAGAGAATTCTAGCTAATCATAATGTTAAACAGAAGTATTGTTAGTCTGGTTGATTAATGA
1 TCATAAGAGAATGCTAGCTAATCATAATGTTAAACAGAAGTATTGTTAGTCTAGTTGATTAATGA
* * *
16470086 TCAGCATTGATCTATCGTTCTTTGGCATTCTATTCCATTATGTTCAGTAGAAGATTCTATTATGT
66 TCAGCATTAATCTATCGTTCTTTGGCATTCTATTCCATTATGTTCAGTAGAAGAATCGATTATGT
16470151 TATCTCTATCACAACTGGTTCCAGTGCGTATGAGCGATATTCTTCTT-T-TGGATTTTCTCTAAG
131 TATCTCTATCACAACTGGTTCCAGTGCGTATGAGCGATATTCTTCTTCTAT-G-TTTTCTCTAAG
* *
16470214 TTATCATCAATCTCTTTATCATTCAATATGGGTTGTATTCTTAGAGATTCAATAGAGTTCTACAG
194 TTATCATCAATCTCTTTATCACTCAATATGGGTTGTATTCTTAGAGATTCAATAGAGTTCCACAG
*
16470279 CTTGGATT
259 ATTGGATT
16470287 TC
1 TC
16470289 GTTATCTCAG
Statistics
Matches: 240, Mismatches: 26, Indels: 4
0.89 0.10 0.01
Matches are distributed among these distances:
264 1 0.00
265 2 0.01
266 237 0.99
ACGTcount: A:0.25, C:0.15, G:0.18, T:0.42
Consensus pattern (266 bp):
TCATAAGAGAATGCTAGCTAATCATAATGTTAAACAGAAGTATTGTTAGTCTAGTTGATTAATGA
TCAGCATTAATCTATCGTTCTTTGGCATTCTATTCCATTATGTTCAGTAGAAGAATCGATTATGT
TATCTCTATCACAACTGGTTCCAGTGCGTATGAGCGATATTCTTCTTCTATGTTTTCTCTAAGTT
ATCATCAATCTCTTTATCACTCAATATGGGTTGTATTCTTAGAGATTCAATAGAGTTCCACAGAT
TGGATT
Found at i:16472011 original size:5 final size:5
Alignment explanation
Indices: 16472001--16472025 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
16471991 GGTAATTTGG
16472001 TAAAA TAAAA TAAAA TAAAA TAAAA
1 TAAAA TAAAA TAAAA TAAAA TAAAA
16472026 ACAAAAGGTA
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:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (5 bp):
TAAAA
Found at i:16473170 original size:20 final size:20
Alignment explanation
Indices: 16473125--16473172 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
16473115 GTACGGGATT
* * *
16473125 TACACTTCGGTGCCCCTGTT
1 TACACTTCAGTGCCCCAGTA
*
16473145 TGCACTTCAGTGCCCCAGTA
1 TACACTTCAGTGCCCCAGTA
16473165 TACACTTC
1 TACACTTC
16473173 GATGTCTCTA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.17, C:0.35, G:0.17, T:0.31
Consensus pattern (20 bp):
TACACTTCAGTGCCCCAGTA
Found at i:16474810 original size:30 final size:30
Alignment explanation
Indices: 16474776--16474832 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 30
16474766 ACGACCTTAG
* *
16474776 ACACGGGCATGTGTCTCAGCCGTGTGTGAC
1 ACACGGGCATGCGTCACAGCCGTGTGTGAC
**
16474806 ACACGGTTATGCGTCACAGCCGTGTGT
1 ACACGGGCATGCGTCACAGCCGTGTGT
16474833 CCCCTGTAGG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 23 1.00
ACGTcount: A:0.18, C:0.26, G:0.32, T:0.25
Consensus pattern (30 bp):
ACACGGGCATGCGTCACAGCCGTGTGTGAC
Found at i:16478834 original size:20 final size:20
Alignment explanation
Indices: 16478768--16478854 Score: 77
Period size: 20 Copynumber: 4.3 Consensus size: 20
16478758 TTGTACGGGA
16478768 TTTGCACTTCGGTGCCCCTG
1 TTTGCACTTCGGTGCCCCTG
* * * * *
16478788 TATACACTTTGGTGCCTCTA
1 TTTGCACTTCGGTGCCCCTG
* *
16478808 TTCGCACTACGGTGCCCCTG
1 TTTGCACTTCGGTGCCCCTG
*
16478828 TTTGCACATT-TGTGCCCCTG
1 TTTGCAC-TTCGGTGCCCCTG
16478848 TTATGCA
1 TT-TGCA
16478855 TCTATGATGC
Statistics
Matches: 50, Mismatches: 15, Indels: 3
0.74 0.22 0.04
Matches are distributed among these distances:
20 45 0.90
21 5 0.10
ACGTcount: A:0.13, C:0.31, G:0.21, T:0.36
Consensus pattern (20 bp):
TTTGCACTTCGGTGCCCCTG
Found at i:16481704 original size:34 final size:36
Alignment explanation
Indices: 16481666--16481758 Score: 120
Period size: 36 Copynumber: 2.6 Consensus size: 36
16481656 TAGGTACGTG
16481666 TATATATAATATAAATATGTGTGCATGGTTTTATTA
1 TATATATAATATAAATATGTGTGCATGGTTTTATTA
* *
16481702 TATATATAATATAAATATGAGTGCAT--TTTT-TTGT
1 TATATATAATATAAATATGTGTGCATGGTTTTATT-A
* *
16481736 TATATATAATATATATAGGTGTG
1 TATATATAATATAAATATGTGTG
16481759 GCTTTGTCAT
Statistics
Matches: 51, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
33 2 0.04
34 24 0.47
36 25 0.49
ACGTcount: A:0.37, C:0.02, G:0.14, T:0.47
Consensus pattern (36 bp):
TATATATAATATAAATATGTGTGCATGGTTTTATTA
Found at i:16488885 original size:43 final size:43
Alignment explanation
Indices: 16488821--16488922 Score: 123
Period size: 43 Copynumber: 2.4 Consensus size: 43
16488811 ATGCTGCTAT
* * * * *
16488821 AGAACATGACATTTAACGGCGCTTTTTCCACGAACGCCATTAT
1 AGAACATGACATTTAACGGCGCTATTCCCACAAACGCCACTAA
* * *
16488864 CGAACATGACTTTTAATGGCGCTATTCCCACAAACGCCACTAA
1 AGAACATGACATTTAACGGCGCTATTCCCACAAACGCCACTAA
*
16488907 AGAACATGACCTTTAA
1 AGAACATGACATTTAA
16488923 AACAAATTTA
Statistics
Matches: 49, Mismatches: 10, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
43 49 1.00
ACGTcount: A:0.33, C:0.26, G:0.15, T:0.25
Consensus pattern (43 bp):
AGAACATGACATTTAACGGCGCTATTCCCACAAACGCCACTAA
Found at i:16492406 original size:37 final size:37
Alignment explanation
Indices: 16492355--16492426 Score: 110
Period size: 37 Copynumber: 1.9 Consensus size: 37
16492345 GGGCAAGTCA
16492355 ATGTAAAAAAAAAAAA-AAAAATCAGAGGTTACCATAG
1 ATGTAAAAAAAAAAAATAAAAA-CAGAGGTTACCATAG
**
16492392 ATGTAAAATTAAAAAATAAAAACAGAGGTTACCAT
1 ATGTAAAAAAAAAAAATAAAAACAGAGGTTACCAT
16492427 TGCTGAACCA
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
37 27 0.84
38 5 0.16
ACGTcount: A:0.60, C:0.08, G:0.12, T:0.19
Consensus pattern (37 bp):
ATGTAAAAAAAAAAAATAAAAACAGAGGTTACCATAG
Found at i:16493473 original size:13 final size:14
Alignment explanation
Indices: 16493452--16493492 Score: 50
Period size: 13 Copynumber: 3.1 Consensus size: 14
16493442 TTAATAAATT
16493452 ATTTAATTTT-ACA
1 ATTTAATTTTAACA
*
16493465 ATTTTATTTTAACA
1 ATTTAATTTTAACA
*
16493479 A-TAAATTTTAACA
1 ATTTAATTTTAACA
16493492 A
1 A
16493493 CAATAATTTT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
13 20 0.83
14 4 0.17
ACGTcount: A:0.44, C:0.07, G:0.00, T:0.49
Consensus pattern (14 bp):
ATTTAATTTTAACA
Found at i:16493502 original size:15 final size:16
Alignment explanation
Indices: 16493475--16493504 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
16493465 ATTTTATTTT
16493475 AACAATAAATTTTAAC
1 AACAATAAATTTTAAC
16493491 AACAAT-AATTTTAA
1 AACAATAAATTTTAA
16493505 ATTTTAAATA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.57, C:0.10, G:0.00, T:0.33
Consensus pattern (16 bp):
AACAATAAATTTTAAC
Found at i:16493851 original size:14 final size:14
Alignment explanation
Indices: 16493834--16493867 Score: 52
Period size: 14 Copynumber: 2.4 Consensus size: 14
16493824 TTGTTTTATT
16493834 AAAAATAAATTTTA-
1 AAAAAT-AATTTTAG
16493848 AAAAATAATTTTAG
1 AAAAATAATTTTAG
16493862 AAAAAT
1 AAAAAT
16493868 TTACTAAAGA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 7 0.37
14 12 0.63
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.32
Consensus pattern (14 bp):
AAAAATAATTTTAG
Found at i:16504425 original size:21 final size:21
Alignment explanation
Indices: 16504399--16504452 Score: 63
Period size: 21 Copynumber: 2.6 Consensus size: 21
16504389 AATTGATGGA
**
16504399 TGTGTCGTGACTTGGAACCCC
1 TGTGTCGTGACACGGAACCCC
* *
16504420 TGTGTCATGACACGGAACCCT
1 TGTGTCGTGACACGGAACCCC
*
16504441 TGTGTTGTGACA
1 TGTGTCGTGACA
16504453 TTGTTGCAAA
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.19, C:0.24, G:0.28, T:0.30
Consensus pattern (21 bp):
TGTGTCGTGACACGGAACCCC
Found at i:16508151 original size:20 final size:22
Alignment explanation
Indices: 16508125--16508175 Score: 63
Period size: 20 Copynumber: 2.4 Consensus size: 22
16508115 ATGCCATTAG
16508125 CTTAGATTAT-TTCTTTAG-TTT
1 CTTAGATT-TGTTCTTTAGCTTT
*
16508146 -TTAGATTTGTTCTTTTGCTTT
1 CTTAGATTTGTTCTTTAGCTTT
16508167 CTTAGATTT
1 CTTAGATTT
16508176 TTTGTTTATT
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
19 1 0.04
20 14 0.54
21 3 0.12
22 8 0.31
ACGTcount: A:0.16, C:0.10, G:0.12, T:0.63
Consensus pattern (22 bp):
CTTAGATTTGTTCTTTAGCTTT
Found at i:16509775 original size:22 final size:23
Alignment explanation
Indices: 16509750--16509809 Score: 63
Period size: 22 Copynumber: 2.7 Consensus size: 23
16509740 TGGACTGAAT
16509750 ATAAAAATTTAAACTAAAT-AAA
1 ATAAAAATTTAAACTAAATAAAA
*
16509772 ATAAATAA-ATAAA-TAAATAAAA
1 ATAAA-AATTTAAACTAAATAAAA
*
16509794 ATAAAACTTTACAACT
1 ATAAAAATTTA-AACT
16509810 TGGGCCACTT
Statistics
Matches: 30, Mismatches: 3, Indels: 8
0.73 0.07 0.20
Matches are distributed among these distances:
21 6 0.20
22 19 0.63
23 4 0.13
24 1 0.03
ACGTcount: A:0.67, C:0.07, G:0.00, T:0.27
Consensus pattern (23 bp):
ATAAAAATTTAAACTAAATAAAA
Found at i:16509777 original size:4 final size:4
Alignment explanation
Indices: 16509759--16509792 Score: 50
Period size: 4 Copynumber: 8.0 Consensus size: 4
16509749 TATAAAAATT
16509759 TAAA CTAAA TAAAA TAAA TAAA TAAA TAAA TAAA
1 TAAA -TAAA T-AAA TAAA TAAA TAAA TAAA TAAA
16509793 AATAAAACTT
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
4 20 0.71
5 8 0.29
ACGTcount: A:0.74, C:0.03, G:0.00, T:0.24
Consensus pattern (4 bp):
TAAA
Found at i:16511205 original size:18 final size:18
Alignment explanation
Indices: 16511184--16511222 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
16511174 TTTCTTCAAC
* *
16511184 TTCTTTTTCAAATTTCTT
1 TTCTGTTTCAAATTCCTT
*
16511202 TTCTGTTTCACATTCCTT
1 TTCTGTTTCAAATTCCTT
16511220 TTC
1 TTC
16511223 ACTCTCAATC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.13, C:0.23, G:0.03, T:0.62
Consensus pattern (18 bp):
TTCTGTTTCAAATTCCTT
Found at i:16513586 original size:22 final size:23
Alignment explanation
Indices: 16513561--16513620 Score: 63
Period size: 22 Copynumber: 2.7 Consensus size: 23
16513551 TGGACTGAAT
16513561 ATAAAAATTTAAACTAAAT-AAA
1 ATAAAAATTTAAACTAAATAAAA
*
16513583 ATAAATAA-ATAAA-TAAATAAAA
1 ATAAA-AATTTAAACTAAATAAAA
*
16513605 ATAAAACTTTACAACT
1 ATAAAAATTTA-AACT
16513621 TGGGCCACTT
Statistics
Matches: 30, Mismatches: 3, Indels: 8
0.73 0.07 0.20
Matches are distributed among these distances:
21 6 0.20
22 19 0.63
23 4 0.13
24 1 0.03
ACGTcount: A:0.67, C:0.07, G:0.00, T:0.27
Consensus pattern (23 bp):
ATAAAAATTTAAACTAAATAAAA
Found at i:16513588 original size:4 final size:4
Alignment explanation
Indices: 16513570--16513603 Score: 50
Period size: 4 Copynumber: 8.0 Consensus size: 4
16513560 TATAAAAATT
16513570 TAAA CTAAA TAAAA TAAA TAAA TAAA TAAA TAAA
1 TAAA -TAAA T-AAA TAAA TAAA TAAA TAAA TAAA
16513604 AATAAAACTT
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
4 20 0.71
5 8 0.29
ACGTcount: A:0.74, C:0.03, G:0.00, T:0.24
Consensus pattern (4 bp):
TAAA
Found at i:16530278 original size:17 final size:17
Alignment explanation
Indices: 16530256--16530290 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
16530246 TTAGGAGAGC
16530256 TAGACATGCATGAAAGT
1 TAGACATGCATGAAAGT
16530273 TAGACATGCATGAAAGT
1 TAGACATGCATGAAAGT
16530290 T
1 T
16530291 TAAGTCTCTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.40, C:0.11, G:0.23, T:0.26
Consensus pattern (17 bp):
TAGACATGCATGAAAGT
Found at i:16532861 original size:101 final size:102
Alignment explanation
Indices: 16532734--16532925 Score: 307
Period size: 101 Copynumber: 1.9 Consensus size: 102
16532724 AAAGTGATGG
*
16532734 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGAATGAT-A-GGTCGCATGTCTAGT
1 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCGG-ATGATAATGGTCACATGTCTAGT
*
16532797 ACTATGTGCAGGCTACTATGTGTACCGGATAGTTTCGA
65 ACTATGTGCAGGCTACTATGTGAACCGGATAGTTTCGA
* * * *
16532835 TCACGTGTGTAGTACTATGTGTAGGCTACTACGTGTATCGGATGGTAATGGTCACATGTGTAGTA
1 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGATGATAATGGTCACATGTCTAGTA
16532900 CTATGTGCAGGCTACTATGTGAACCG
66 CTATGTGCAGGCTACTATGTGAACCG
16532926 AACATCATTG
Statistics
Matches: 83, Mismatches: 6, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
100 4 0.05
101 40 0.48
102 39 0.47
ACGTcount: A:0.23, C:0.18, G:0.28, T:0.31
Consensus pattern (102 bp):
TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGATGATAATGGTCACATGTCTAGTA
CTATGTGCAGGCTACTATGTGAACCGGATAGTTTCGA
Found at i:16532864 original size:51 final size:51
Alignment explanation
Indices: 16532730--16532925 Score: 236
Period size: 51 Copynumber: 3.9 Consensus size: 51
16532720 AGTGAAAGTG
* *
16532730 ATGGTCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGA-A-TG
1 ATGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGATAGTA
* * *
16532779 ATAGGTCGCATGTCTAGTACTATGTGCAGGCTACTATGTGTACCGGATAGT-
1 AT-GGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGATAGTA
* * * * * *
16532830 TTCGATCACGTGTGTAGTACTATGTGTAGGCTACTACGTGTATCGGATGGTA
1 AT-GGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGATAGTA
* *
16532882 ATGGTCACATGTGTAGTACTATGTGCAGGCTACTATGTGAACCG
1 ATGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCG
16532926 AACATCATTG
Statistics
Matches: 122, Mismatches: 21, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
49 2 0.02
50 40 0.33
51 78 0.64
52 2 0.02
ACGTcount: A:0.23, C:0.17, G:0.29, T:0.31
Consensus pattern (51 bp):
ATGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGATAGTA
Found at i:16532949 original size:102 final size:101
Alignment explanation
Indices: 16532734--16532929 Score: 295
Period size: 102 Copynumber: 1.9 Consensus size: 101
16532724 AAAGTGATGG
*
16532734 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGAATGATAGGTCGCATGTCTAGTAC
1 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGAATGATAGGTCACATGTCTAGTAC
* * *
16532799 TATGTGCAGGCTACTATGTGTACCGGATAGTTTCGA
66 TATGTGCAGGCTACTATGTGAACCGAACAGTTTCGA
* * * *
16532835 TCACGTGTGTAGTACTATGTGTAGGCTACTACGTGTATCGG-ATGGTAATGGTCACATGTGTAGT
1 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGAATGAT-A-GGTCACATGTCTAGT
16532899 ACTATGTGCAGGCTACTATGTGAACCGAACA
64 ACTATGTGCAGGCTACTATGTGAACCGAACA
16532930 TCATTGATTA
Statistics
Matches: 85, Mismatches: 8, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
100 4 0.05
101 40 0.47
102 41 0.48
ACGTcount: A:0.24, C:0.18, G:0.28, T:0.31
Consensus pattern (101 bp):
TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGAATGATAGGTCACATGTCTAGTAC
TATGTGCAGGCTACTATGTGAACCGAACAGTTTCGA
Found at i:16536470 original size:144 final size:144
Alignment explanation
Indices: 16536210--16536501 Score: 557
Period size: 144 Copynumber: 2.0 Consensus size: 144
16536200 TCCCTGTGGG
* *
16536210 TACAATAACTCGACACTTACTTGTCACTTTATTACTTGATATGATTGTGTTCATATTTCCATCTT
1 TACAATAACTCGACACTTACTTGTCACTTTATTACTTGATATGATTGTGTCCATATTTCCATCGT
16536275 TCTACTTGCTTACCTTATTTCTCCAAATTTTAAGAAGTTATTATGCGATATTGGCACTTACAAAA
66 TCTACTTGCTTACCTTATTTCTCCAAATTTTAAGAAGTTATTATGCGATATTGGCACTTACAAAA
16536340 CTAGTACACATGAA
131 CTAGTACACATGAA
*
16536354 TACAATAACTCGACATTTACTTGTCACTTTATTACTTGATATGATTGTGTCCATATTTCCATCGT
1 TACAATAACTCGACACTTACTTGTCACTTTATTACTTGATATGATTGTGTCCATATTTCCATCGT
16536419 TCTACTTGCTTACCTTATTTCTCCAAATTTTAAGAAGTTATTATGCGATATTGGCACTTACAAAA
66 TCTACTTGCTTACCTTATTTCTCCAAATTTTAAGAAGTTATTATGCGATATTGGCACTTACAAAA
16536484 CTAGTACACATGAA
131 CTAGTACACATGAA
16536498 TACA
1 TACA
16536502 TTGTAAATCA
Statistics
Matches: 145, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
144 145 1.00
ACGTcount: A:0.30, C:0.20, G:0.11, T:0.40
Consensus pattern (144 bp):
TACAATAACTCGACACTTACTTGTCACTTTATTACTTGATATGATTGTGTCCATATTTCCATCGT
TCTACTTGCTTACCTTATTTCTCCAAATTTTAAGAAGTTATTATGCGATATTGGCACTTACAAAA
CTAGTACACATGAA
Found at i:16537543 original size:18 final size:18
Alignment explanation
Indices: 16537495--16537543 Score: 50
Period size: 18 Copynumber: 2.8 Consensus size: 18
16537485 AAGAAAACTC
16537495 AAAT-AAAACAATAGCAA
1 AAATAAAAACAATAGCAA
*
16537512 ATAATAACAA-AATATG-AA
1 A-AATAAAAACAATA-GCAA
16537530 AAATAAAAACAATA
1 AAATAAAAACAATA
16537544 AAACAAATAT
Statistics
Matches: 26, Mismatches: 2, Indels: 7
0.74 0.06 0.20
Matches are distributed among these distances:
17 8 0.31
18 14 0.54
19 4 0.15
ACGTcount: A:0.71, C:0.08, G:0.04, T:0.16
Consensus pattern (18 bp):
AAATAAAAACAATAGCAA
Found at i:16549661 original size:50 final size:50
Alignment explanation
Indices: 16549549--16549790 Score: 272
Period size: 50 Copynumber: 4.7 Consensus size: 50
16549539 ATTTGGGTAA
* *
16549549 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTGAGATCATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCA-CC--GAG---ATG
*
16549605 AGAGGTCCCCTGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGATG
* *
16549655 AGAGGTCCCATGTAATG-CCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAA-GACCATGTCTGGGACATGGCATGGGCACCGAGATG
* * *
16549705 AGAGGTCCTC-CGTAAGACCATGTTTGGGACATGGCATGGGCACCGACATG
1 AGAGGTCC-CATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGATG
** * * *
16549755 AGAACATCTCATGTAAGACCATTTTTGGGACATGGC
1 AG-AGGTCCCATGTAAGACCATGTCTGGGACATGGC
16549791 TTTGGCATGT
Statistics
Matches: 165, Mismatches: 16, Indels: 15
0.84 0.08 0.08
Matches are distributed among these distances:
49 1 0.01
50 92 0.56
51 28 0.17
53 3 0.02
55 2 0.01
56 39 0.24
ACGTcount: A:0.25, C:0.22, G:0.30, T:0.22
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGATG
Found at i:16549739 original size:100 final size:103
Alignment explanation
Indices: 16549549--16549798 Score: 330
Period size: 100 Copynumber: 2.4 Consensus size: 103
16549539 ATTTGGGTAA
16549549 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTGAGATCATGAGAGGTCCC
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCC-TGAGA--ATGAGAGGTCCC
*
16549614 CTGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGATG
63 CTGTAAGACCATGTCTGGGACATGGCATGGGCACCGACATG
* *
16549655 AGAGGTCCCATGTAATG-CCATGTCTGGGACATGGCGTTGGCA-CC-GAG-ATGAGAGGTCCTCC
1 AGAGATCCCATGTAA-GACCATGTCTGGGACATGGCATTGGCATCCTGAGAATGAGAGGTCC-CC
*
16549716 -GTAAGACCATGTTTGGGACATGGCATGGGCACCGACATG
64 TGTAAGACCATGTCTGGGACATGGCATGGGCACCGACATG
* * * * *
16549755 AGAACATCTCATGTAAGACCATTTTTGGGACATGGCTTTGGCAT
1 AG-AGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCAT
16549799 GTTTTTACCA
Statistics
Matches: 129, Mismatches: 10, Indels: 14
0.84 0.07 0.09
Matches are distributed among these distances:
100 51 0.40
101 34 0.26
103 3 0.02
105 2 0.02
106 38 0.29
107 1 0.01
ACGTcount: A:0.25, C:0.22, G:0.30, T:0.23
Consensus pattern (103 bp):
AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTGAGAATGAGAGGTCCCCTG
TAAGACCATGTCTGGGACATGGCATGGGCACCGACATG
Found at i:16556471 original size:38 final size:38
Alignment explanation
Indices: 16556355--16556471 Score: 110
Period size: 40 Copynumber: 3.0 Consensus size: 38
16556345 GGCGTTTGAA
* * * * * *
16556355 TAAAAAACGCCACTAAAAATCAAGCATTAGCGGCGCTTTT
1 TAAAAAATGCCGCTAAAAATCGAGCATTAG-AG-ACATTT
* * **
16556395 TAAAAAATGCCGCTAAAGATCGAGCATTAGCGTGATTT
1 TAAAAAATGCCGCTAAAAATCGAGCATTAGAGACATTT
16556433 TAAGAAAATGCCGCTAAAAAT-GAGCATTAGAGACATTT
1 TAA-AAAATGCCGCTAAAAATCGAGCATTAGAGACATTT
16556471 T
1 T
16556472 CCCGAAAATC
Statistics
Matches: 64, Mismatches: 12, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
38 21 0.33
39 17 0.27
40 26 0.41
ACGTcount: A:0.40, C:0.17, G:0.18, T:0.25
Consensus pattern (38 bp):
TAAAAAATGCCGCTAAAAATCGAGCATTAGAGACATTT
Found at i:16556480 original size:39 final size:39
Alignment explanation
Indices: 16556392--16556471 Score: 110
Period size: 38 Copynumber: 2.1 Consensus size: 39
16556382 TAGCGGCGCT
* * **
16556392 TTTTAA-AAAATGCCGCTAAAGATCGAGCATTAGCGTGA
1 TTTTAAGAAAATGCCGCTAAAAATCGAGCATTAGAGACA
16556430 TTTTAAGAAAATGCCGCTAAAAAT-GAGCATTAGAGACA
1 TTTTAAGAAAATGCCGCTAAAAATCGAGCATTAGAGACA
16556468 TTTT
1 TTTT
16556472 CCCGAAAATC
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
38 21 0.57
39 16 0.43
ACGTcount: A:0.39, C:0.14, G:0.19, T:0.29
Consensus pattern (39 bp):
TTTTAAGAAAATGCCGCTAAAAATCGAGCATTAGAGACA
Found at i:16556645 original size:41 final size:41
Alignment explanation
Indices: 16556530--16556687 Score: 156
Period size: 41 Copynumber: 3.9 Consensus size: 41
16556520 TTTTTAGGGC
* ** * *
16556530 TTTAGCGGCGTTTCAAAAAAAGCACCGCTAATGCTTGGGGA
1 TTTAGTGGCGTTTTTAAAAAAGCGCCGCTAATGCTCGGGGA
* * ** *
16556571 TTTAGTGGCGTTTTTGAAAAGGCGTTGCTAATGCTCGGGGG
1 TTTAGTGGCGTTTTTAAAAAAGCGCCGCTAATGCTCGGGGA
* ****
16556612 TTTAGTGGCGTTTTTAAAAAAGCGCCGCGAATGCTC-TATT
1 TTTAGTGGCGTTTTTAAAAAAGCGCCGCTAATGCTCGGGGA
* *
16556652 TTTAGTAGCGTTTTTAAAAAAGCGCCTCTAATGCTC
1 TTTAGTGGCGTTTTTAAAAAAGCGCCGCTAATGCTC
16556688 TATTTTTAGC
Statistics
Matches: 95, Mismatches: 22, Indels: 1
0.81 0.19 0.01
Matches are distributed among these distances:
40 33 0.35
41 62 0.65
ACGTcount: A:0.25, C:0.17, G:0.26, T:0.32
Consensus pattern (41 bp):
TTTAGTGGCGTTTTTAAAAAAGCGCCGCTAATGCTCGGGGA
Found at i:16556667 original size:40 final size:40
Alignment explanation
Indices: 16556612--16556696 Score: 143
Period size: 40 Copynumber: 2.1 Consensus size: 40
16556602 TGCTCGGGGG
*
16556612 TTTAGTGGCGTTTTTAAAAAAGCGCCGCGAATGCTCTATT
1 TTTAGTAGCGTTTTTAAAAAAGCGCCGCGAATGCTCTATT
* *
16556652 TTTAGTAGCGTTTTTAAAAAAGCGCCTCTAATGCTCTATT
1 TTTAGTAGCGTTTTTAAAAAAGCGCCGCGAATGCTCTATT
16556692 TTTAG
1 TTTAG
16556697 CAATTCTTTA
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 42 1.00
ACGTcount: A:0.26, C:0.16, G:0.19, T:0.39
Consensus pattern (40 bp):
TTTAGTAGCGTTTTTAAAAAAGCGCCGCGAATGCTCTATT
Found at i:16556772 original size:7 final size:7
Alignment explanation
Indices: 16556751--16556889 Score: 57
Period size: 7 Copynumber: 19.4 Consensus size: 7
16556741 TTAACTATCA
*
16556751 TTATAGT
1 TTATGGT
*
16556758 TTAGGGT
1 TTATGGT
16556765 TTATGGT
1 TTATGGT
*
16556772 TTAGGGT
1 TTATGGT
* *
16556779 TTAAGAT
1 TTATGGT
*
16556786 TTAAGAGT
1 TTATG-GT
* **
16556794 TTCTATT
1 TTATGGT
*
16556801 TTAAGGT
1 TTATGGT
* *
16556808 TTAGGGA
1 TTATGGT
*
16556815 TTATGTAT
1 TTATG-GT
16556823 TTA-GGT
1 TTATGGT
* *
16556829 ATTATAGA
1 -TTATGGT
16556837 TTATGGT
1 TTATGGT
16556844 TTATGGT
1 TTATGGT
16556851 TTATGGT
1 TTATGGT
* *
16556858 TTAAGGG
1 TTATGGT
16556865 TTATGGGT
1 TTAT-GGT
16556873 TTA-GTGT
1 TTATG-GT
*
16556880 TTAGGGT
1 TTATGGT
16556887 TTA
1 TTA
16556890 GATTAATTGA
Statistics
Matches: 96, Mismatches: 29, Indels: 14
0.69 0.21 0.10
Matches are distributed among these distances:
6 2 0.02
7 81 0.84
8 13 0.14
ACGTcount: A:0.23, C:0.01, G:0.27, T:0.49
Consensus pattern (7 bp):
TTATGGT
Found at i:16558641 original size:18 final size:18
Alignment explanation
Indices: 16558618--16558664 Score: 60
Period size: 18 Copynumber: 2.6 Consensus size: 18
16558608 TGTTTGGTTA
*
16558618 CCCTTCTTC-TCCTCTTTC
1 CCCTTCTCCTTCC-CTTTC
16558636 CCCTTCTCCTTCCCTTTC
1 CCCTTCTCCTTCCCTTTC
*
16558654 CCCTTCCCCTT
1 CCCTTCTCCTT
16558665 GGGTTGCAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
18 23 0.88
19 3 0.12
ACGTcount: A:0.00, C:0.55, G:0.00, T:0.45
Consensus pattern (18 bp):
CCCTTCTCCTTCCCTTTC
Found at i:16566130 original size:43 final size:43
Alignment explanation
Indices: 16566028--16566179 Score: 157
Period size: 43 Copynumber: 3.6 Consensus size: 43
16566018 AATATTTTTT
* *
16566028 AAGTCATG-TTTTTAGCAGCGTTTGT-GAAAAAGCGTCGCTAA
1 AAGTCATGATTTTTAGCGGCGTTTGTGGTAAAAGCGTCGCTAA
* * *
16566069 AAGTCAAT-TTTTTATAGTGGCGTTTGTGGTAGAAGCGTCGCTAA
1 AAGTC-ATGATTTT-TAGCGGCGTTTGTGGTAAAAGCGTCGCTAA
* * * *
16566113 ATGTCATGATTTTTAGTGGCGTTTGTGGTATAAGCGCCGCTAA
1 AAGTCATGATTTTTAGCGGCGTTTGTGGTAAAAGCGTCGCTAA
* * *
16566156 AGGTCATCATCTTTAGCGGCGTTT
1 AAGTCATGATTTTTAGCGGCGTTT
16566180 TTCTCACATA
Statistics
Matches: 94, Mismatches: 12, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
41 5 0.05
42 6 0.06
43 61 0.65
44 22 0.23
ACGTcount: A:0.24, C:0.14, G:0.26, T:0.36
Consensus pattern (43 bp):
AAGTCATGATTTTTAGCGGCGTTTGTGGTAAAAGCGTCGCTAA
Found at i:16579517 original size:20 final size:21
Alignment explanation
Indices: 16579486--16579524 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
16579476 TAATTGAATA
*
16579486 AATAATAATACATGATAAAGG
1 AATAATAATACATAATAAAGG
16579507 AATAA-AATACATAATAAA
1 AATAATAATACATAATAAA
16579525 ATAAAATAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.64, C:0.05, G:0.08, T:0.23
Consensus pattern (21 bp):
AATAATAATACATAATAAAGG
Found at i:16581261 original size:44 final size:43
Alignment explanation
Indices: 16581148--16581271 Score: 131
Period size: 44 Copynumber: 2.8 Consensus size: 43
16581138 AGACTTGATA
* * * *
16581148 CAATCTGCTCTACTGTAACTTCAGAGAGATAAGATCTATTACTT
1 CAATCTGCTCTACTGCAACTTCAGGGAGATAAGAT-TATGAATT
* ** * * *
16581192 TAATCCACTCCACTACAACTTCAGGGAGATAGGATTATCGAATT
1 CAATCTGCTCTACTGCAACTTCAGGGAGATAAGATTAT-GAATT
*
16581236 CAATCTGCTCTACTGCAACGTCAGGGAGATAAGATT
1 CAATCTGCTCTACTGCAACTTCAGGGAGATAAGATT
16581272 TGCTTCTTCA
Statistics
Matches: 62, Mismatches: 17, Indels: 2
0.77 0.21 0.02
Matches are distributed among these distances:
43 3 0.05
44 59 0.95
ACGTcount: A:0.32, C:0.22, G:0.17, T:0.29
Consensus pattern (43 bp):
CAATCTGCTCTACTGCAACTTCAGGGAGATAAGATTATGAATT
Found at i:16581287 original size:44 final size:43
Alignment explanation
Indices: 16581199--16581358 Score: 144
Period size: 44 Copynumber: 3.7 Consensus size: 43
16581189 CTTTAATCCA
* * * *
16581199 CTCCACTACAACTTCAGGGAGATAGGA-TT-ATCGAATTCAATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTTGTTC---TTCAGTCTG
* * *
16581243 CTCTACTGCAACGTCAGGGAGATAAGATTTGCTTCTTCAGTCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTTG-TTCTTCAGTCTG
* ** * *
16581287 CCCCACTGTGACTTCAGGGGGATAAGACTTGTTTTCTCAGTCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTTGTTCT-TCAGTCTG
*
16581331 CTCCGCTGCAACTTCAGGGAGATAAGAC
1 CTCCACTGCAACTTCAGGGAGATAAGAC
16581359 CCGATGCGAT
Statistics
Matches: 93, Mismatches: 19, Indels: 8
0.77 0.16 0.07
Matches are distributed among these distances:
43 3 0.03
44 86 0.92
45 2 0.02
47 2 0.02
ACGTcount: A:0.25, C:0.24, G:0.23, T:0.28
Consensus pattern (43 bp):
CTCCACTGCAACTTCAGGGAGATAAGACTTGTTCTTCAGTCTG
Found at i:16581600 original size:128 final size:128
Alignment explanation
Indices: 16581468--16581712 Score: 312
Period size: 128 Copynumber: 1.9 Consensus size: 128
16581458 GCTCCACTAT
* * ** *
16581468 TGCTTAGGGAGATAAGA-CTTGTAATTTCCAACCTATTCCACTGCTGGTCAGGGACATAAGACTT
1 TGCTTAGGGAGACAAGATC-TGCAATTTCCAACCTATTCCACTGCTGACCAGGGACATAAGACTC
* * * * * *
16581532 ATGGCTTGACTCTATTTCCCTACTCTTGGAGATAATATTTGCCATCTTCGATCTGCTCCGCCAC
65 ATGGCTTGAATCTACTTCCCTACACTTGAAGATAAGATTCGCCATCTTCGATCTGCTCCGCCAC
* * * *
16581596 TGCTTAGGGAGACAAGATCTGCAATTTCCAACCTATTCCACTGTTGACCAGGGATATAGGACTCG
1 TGCTTAGGGAGACAAGATCTGCAATTTCCAACCTATTCCACTGCTGACCAGGGACATAAGACTCA
* * *
16581661 TGGCTTGAATCTGCTTCCTTACACTTGAAGATAAGATTCGCCGTCTTCGATC
66 TGGCTTGAATCTACTTCCCTACACTTGAAGATAAGATTCGCCATCTTCGATC
16581713 CGCTTCACTG
Statistics
Matches: 98, Mismatches: 18, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
128 97 0.99
129 1 0.01
ACGTcount: A:0.24, C:0.24, G:0.20, T:0.31
Consensus pattern (128 bp):
TGCTTAGGGAGACAAGATCTGCAATTTCCAACCTATTCCACTGCTGACCAGGGACATAAGACTCA
TGGCTTGAATCTACTTCCCTACACTTGAAGATAAGATTCGCCATCTTCGATCTGCTCCGCCAC
Found at i:16581984 original size:7 final size:7
Alignment explanation
Indices: 16581972--16582004 Score: 50
Period size: 7 Copynumber: 4.7 Consensus size: 7
16581962 CTCTTTCATT
16581972 TTTTTCA
1 TTTTTCA
16581979 TTTTTCA
1 TTTTTCA
16581986 -TTTTCA
1 TTTTTCA
16581992 TTTTTCA
1 TTTTTCA
16581999 TCTTTT
1 T-TTTT
16582005 TTTTTGAACT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
6 6 0.25
7 14 0.58
8 4 0.17
ACGTcount: A:0.12, C:0.15, G:0.00, T:0.73
Consensus pattern (7 bp):
TTTTTCA
Found at i:16582009 original size:13 final size:13
Alignment explanation
Indices: 16581973--16581999 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
16581963 TCTTTCATTT
16581973 TTTTCATTTTTCA
1 TTTTCATTTTTCA
16581986 TTTTCATTTTTCA
1 TTTTCATTTTTCA
16581999 T
1 T
16582000 CTTTTTTTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.15, C:0.15, G:0.00, T:0.70
Consensus pattern (13 bp):
TTTTCATTTTTCA
Found at i:16582425 original size:30 final size:27
Alignment explanation
Indices: 16582385--16582453 Score: 84
Period size: 30 Copynumber: 2.4 Consensus size: 27
16582375 CTTTTTTATA
*
16582385 TTTTTATTTTGACTTTAATTGATTTCTCT
1 TTTTTGTTTTGACTTTAATT-ATTTCT-T
* *
16582414 TTTTTGCTTTTGACTTTGATTTTTTCTT
1 TTTTTG-TTTTGACTTTAATTATTTCTT
16582442 TTTTTGTTTTGA
1 TTTTTGTTTTGA
16582454 TTTTGATTTT
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
27 6 0.17
28 7 0.19
29 10 0.28
30 13 0.36
ACGTcount: A:0.12, C:0.09, G:0.10, T:0.70
Consensus pattern (27 bp):
TTTTTGTTTTGACTTTAATTATTTCTT
Found at i:16582441 original size:27 final size:28
Alignment explanation
Indices: 16582385--16582463 Score: 90
Period size: 27 Copynumber: 2.8 Consensus size: 28
16582375 CTTTTTTATA
* *
16582385 TTTTTATTTTGACTTTAATTGATTTCTC-T
1 TTTTTGTTTTGACTTTGATT--TTTCTCTT
16582414 TTTTTGCTTTTGACTTTGATTTTT-TCTT
1 TTTTTG-TTTTGACTTTGATTTTTCTCTT
*
16582442 TTTTTGTTTTGATTTTGATTTT
1 TTTTTGTTTTGACTTTGATTTT
16582464 GATTTTTTTC
Statistics
Matches: 45, Mismatches: 3, Indels: 6
0.83 0.06 0.11
Matches are distributed among these distances:
27 17 0.38
28 10 0.22
29 5 0.11
30 13 0.29
ACGTcount: A:0.11, C:0.08, G:0.10, T:0.71
Consensus pattern (28 bp):
TTTTTGTTTTGACTTTGATTTTTCTCTT
Found at i:16582470 original size:27 final size:28
Alignment explanation
Indices: 16582391--16582472 Score: 80
Period size: 27 Copynumber: 2.9 Consensus size: 28
16582381 TATATTTTTA
*
16582391 TTTTGACTTTAATTGATT-TCTCTTTTTTGC
1 TTTTGACTTTGATT--TTATCT-TTTTTTGC
*
16582421 TTTTGACTTTGATTTTTTCTTTTTTTG-
1 TTTTGACTTTGATTTTATCTTTTTTTGC
*
16582448 TTTTGATTTTGATTTTGAT-TTTTTT
1 TTTTGACTTTGATTTT-ATCTTTTTT
16582473 CTCTCTTCTT
Statistics
Matches: 47, Mismatches: 3, Indels: 7
0.82 0.05 0.12
Matches are distributed among these distances:
27 21 0.45
28 10 0.21
29 3 0.06
30 13 0.28
ACGTcount: A:0.11, C:0.07, G:0.11, T:0.71
Consensus pattern (28 bp):
TTTTGACTTTGATTTTATCTTTTTTTGC
Found at i:16586760 original size:20 final size:21
Alignment explanation
Indices: 16586729--16586767 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
16586719 TAATTGAATA
*
16586729 AATAATAATACATGATAAAGG
1 AATAATAATACATAATAAAGG
16586750 AATAA-AATACATAATAAA
1 AATAATAATACATAATAAA
16586768 ATAAAATAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.64, C:0.05, G:0.08, T:0.23
Consensus pattern (21 bp):
AATAATAATACATAATAAAGG
Found at i:16590027 original size:50 final size:50
Alignment explanation
Indices: 16589966--16590602 Score: 321
Period size: 50 Copynumber: 12.7 Consensus size: 50
16589956 CGCAACTTTT
* *
16589966 GGGAAGTAAGATTCACCATTGTAGCTTCAATCTTTTTAACTGCACCGCCA
1 GGGAAGTAAGATTCACCATTGTAGCTTTAATCTTTTTAACTGCAACGCCA
** * * * * * * *
16590016 GGGAAGTAAGATTTGCCTTTATGGCAGCTTTAATCCTTTTAGCTACAATGCCG
1 GGGAAGTAAGATTCACC---ATTGTAGCTTTAATCTTTTTAACTGCAACGCCA
** * * * ** *
16590069 GGGAAGCGAGATTCACCAATGTGGCTTTAATCTGTTCCACTGCACCGCCA
1 GGGAAGTAAGATTCACCATTGTAGCTTTAATCTTTTTAACTGCAACGCCA
** ** * * * *
16590119 GGGAAGTAAGATTTGCTGTTGTAGCTTTAATCTCTTTAACTGCAATGTCG
1 GGGAAGTAAGATTCACCATTGTAGCTTTAATCTTTTTAACTGCAACGCCA
* * * ** * * *
16590169 GGGAAGCAAGATTCACGGA-TGTGGCTTTAAT-TTGTTCCACCGCATCGCCT
1 GGGAAGTAAGATTCAC-CATTGTAGCTTTAATCTT-TTTAACTGCAACGCCA
* * ** * * *
16590219 GTGAGGTAAGATTCACTGTTGTAGCTTTAATCTTTTTGAACTGCAATGTCG
1 GGGAAGTAAGATTCACCATTGTAGCTTTAATCTTTTT-AACTGCAACGCCA
* * ** ** * * *
16590270 GGGAAGCAAGATTCACCGA-TGTGGCTTTAATCTGCTCCACTGCACCACCT
1 GGGAAGTAAGATTCACC-ATTGTAGCTTTAATCTTTTTAACTGCAACGCCA
* * ** * * *
16590320 GGGAGGTAAGATTCGCTGTTGTAGCTTTAATCTCTTTAACTGCAATGTCA
1 GGGAAGTAAGATTCACCATTGTAGCTTTAATCTTTTTAACTGCAACGCCA
* * * ** *
16590370 GGGAAGCAAGATTCACCGA-TGTGGCTTTAATCTGTTCCACTGCATCGCCA
1 GGGAAGTAAGATTCACC-ATTGTAGCTTTAATCTTTTTAACTGCAACGCCA
* * * * * * *
16590420 GGGAAGTAACG-CTCGCCGTTGTGGCTTTAGTCTTTTTAACTGCAATGTCA
1 GGGAAGTAA-GATTCACCATTGTAGCTTTAATCTTTTTAACTGCAACGCCA
* * * * ** * * *
16590470 GGGAAGCAAGATTCACCGTTGTGGCTTTAATCTGTTTCGCTGCATCACCT
1 GGGAAGTAAGATTCACCATTGTAGCTTTAATCTTTTTAACTGCAACGCCA
** * ** * * * *
16590520 GGGGTGTAAGATTCGCTGTTGTAGCTTTAATCTTTCTAACTGCAATGTCG
1 GGGAAGTAAGATTCACCATTGTAGCTTTAATCTTTTTAACTGCAACGCCA
* * * *
16590570 GGGAAGCAAGATTCATCGTTGTGGCTTTAATCT
1 GGGAAGTAAGATTCACCATTGTAGCTTTAATCT
16590603 GTTCCATTAC
Statistics
Matches: 416, Mismatches: 157, Indels: 28
0.69 0.26 0.05
Matches are distributed among these distances:
49 2 0.00
50 340 0.82
51 37 0.09
53 37 0.09
ACGTcount: A:0.23, C:0.21, G:0.24, T:0.32
Consensus pattern (50 bp):
GGGAAGTAAGATTCACCATTGTAGCTTTAATCTTTTTAACTGCAACGCCA
Found at i:16590191 original size:100 final size:100
Alignment explanation
Indices: 16589966--16590608 Score: 772
Period size: 100 Copynumber: 6.4 Consensus size: 100
16589956 CGCAACTTTT
* * * * ** *
16589966 GGGAAGTAAGATTCACC-ATTGTAGCTTCAATCTTTTTAACTGCACCGCCAGGGAAGTAAGATTT
1 GGGAAGCAAGATTCACCGA-TGTGGCTTTAATCTGTTCCACTGCACCGCCAGGGAAGTAAGATTC
* * * * *
16590030 GCCTTTATGGCAGCTTTAATC-CTTTTAGCTACAATGCCG
65 G-CTGT-T-GTAGCTTTAATCTC-TTTAACTGCAATGTCG
* * *
16590069 GGGAAGCGAGATTCACCAATGTGGCTTTAATCTGTTCCACTGCACCGCCAGGGAAGTAAGATTTG
1 GGGAAGCAAGATTCACCGATGTGGCTTTAATCTGTTCCACTGCACCGCCAGGGAAGTAAGATTCG
16590134 CTGTTGTAGCTTTAATCTCTTTAACTGCAATGTCG
66 CTGTTGTAGCTTTAATCTCTTTAACTGCAATGTCG
* * * * * * * *
16590169 GGGAAGCAAGATTCACGGATGTGGCTTTAATTTGTTCCACCGCATCGCCTGTGAGGTAAGATTCA
1 GGGAAGCAAGATTCACCGATGTGGCTTTAATCTGTTCCACTGCACCGCCAGGGAAGTAAGATTCG
*
16590234 CTGTTGTAGCTTTAATCTTTTTGAACTGCAATGTCG
66 CTGTTGTAGCTTTAATCTCTTT-AACTGCAATGTCG
* * * *
16590270 GGGAAGCAAGATTCACCGATGTGGCTTTAATCTGCTCCACTGCACCACCTGGGAGGTAAGATTCG
1 GGGAAGCAAGATTCACCGATGTGGCTTTAATCTGTTCCACTGCACCGCCAGGGAAGTAAGATTCG
*
16590335 CTGTTGTAGCTTTAATCTCTTTAACTGCAATGTCA
66 CTGTTGTAGCTTTAATCTCTTTAACTGCAATGTCG
* *
16590370 GGGAAGCAAGATTCACCGATGTGGCTTTAATCTGTTCCACTGCATCGCCAGGGAAGTAACG-CTC
1 GGGAAGCAAGATTCACCGATGTGGCTTTAATCTGTTCCACTGCACCGCCAGGGAAGTAA-GATTC
* * * * *
16590434 GCCGTTGTGGCTTTAGTCTTTTTAACTGCAATGTCA
65 GCTGTTGTAGCTTTAATCTCTTTAACTGCAATGTCG
* * * * * * **
16590470 GGGAAGCAAGATTCACCGTTGTGGCTTTAATCTGTTTCGCTGCATCACCTGGGGTGTAAGATTCG
1 GGGAAGCAAGATTCACCGATGTGGCTTTAATCTGTTCCACTGCACCGCCAGGGAAGTAAGATTCG
16590535 CTGTTGTAGCTTTAATCT-TTCTAACTGCAATGTCG
66 CTGTTGTAGCTTTAATCTCTT-TAACTGCAATGTCG
* *
16590570 GGGAAGCAAGATTCATCGTTGTGGCTTTAATCTGTTCCA
1 GGGAAGCAAGATTCACCGATGTGGCTTTAATCTGTTCCA
16590609 TTACATCGCT
Statistics
Matches: 475, Mismatches: 59, Indels: 15
0.87 0.11 0.03
Matches are distributed among these distances:
99 3 0.01
100 318 0.67
101 94 0.20
102 3 0.01
103 56 0.12
104 1 0.00
ACGTcount: A:0.23, C:0.21, G:0.24, T:0.32
Consensus pattern (100 bp):
GGGAAGCAAGATTCACCGATGTGGCTTTAATCTGTTCCACTGCACCGCCAGGGAAGTAAGATTCG
CTGTTGTAGCTTTAATCTCTTTAACTGCAATGTCG
Found at i:16590707 original size:44 final size:44
Alignment explanation
Indices: 16590657--16590908 Score: 168
Period size: 44 Copynumber: 5.5 Consensus size: 44
16590647 GTATTCCACC
* * *
16590657 GTAATCTCAGGGAAATAGGATTACTGGCTTCAATCTGCTCCGCT
1 GTAATCTCAGGGAGATAAGATTACTGGCTTTAATCTGCTCCGCT
* *
16590701 GTAATCTCAGAGAGATAAGATTTCTGGCTTTAATCTGATGCGATCTATTCTGCT
1 GTAATCTCAGGGAGATAAGATTACTGGCTTTAATC---TGC--TC----C-GCT
* * *** * *
16590755 GTAA-CTTCAGAGAGATAAGA-TCCTTTATTTTAATCCGCTCCACT
1 GTAATC-TCAGGGAGATAAGATTAC-TGGCTTTAATCTGCTCCGCT
* * * * *
16590799 GTAGTCTTAGGGAGATAGGATTACTAGCTTTAATCTGCTTCGCT
1 GTAATCTCAGGGAGATAAGATTACTGGCTTTAATCTGCTCCGCT
* * *
16590843 GTAATCTCAGGGAGATAAGATTTCTGGCTTCAATCTGCTCCACT
1 GTAATCTCAGGGAGATAAGATTACTGGCTTTAATCTGCTCCGCT
* *
16590887 ATAA-CATCAGGGAAATAAGATT
1 GTAATC-TCAGGGAGATAAGATT
16590909 CACCGTTTCT
Statistics
Matches: 161, Mismatches: 32, Indels: 30
0.72 0.14 0.13
Matches are distributed among these distances:
43 1 0.01
44 114 0.71
45 4 0.02
47 3 0.02
49 4 0.02
51 2 0.01
53 4 0.02
54 29 0.18
ACGTcount: A:0.28, C:0.19, G:0.20, T:0.33
Consensus pattern (44 bp):
GTAATCTCAGGGAGATAAGATTACTGGCTTTAATCTGCTCCGCT
Found at i:16592295 original size:7 final size:7
Alignment explanation
Indices: 16592283--16592328 Score: 76
Period size: 7 Copynumber: 6.6 Consensus size: 7
16592273 CCGTCATTGC
16592283 TTTTCAT
1 TTTTCAT
16592290 TTTTCA-
1 TTTTCAT
16592296 TTTTCAT
1 TTTTCAT
16592303 TTTTCAT
1 TTTTCAT
16592310 TTTTCAT
1 TTTTCAT
16592317 TTTTCAT
1 TTTTCAT
16592324 ATTTT
1 -TTTT
16592329 TTTAGTTTGA
Statistics
Matches: 37, Mismatches: 0, Indels: 3
0.93 0.00 0.08
Matches are distributed among these distances:
6 6 0.16
7 27 0.73
8 4 0.11
ACGTcount: A:0.15, C:0.13, G:0.00, T:0.72
Consensus pattern (7 bp):
TTTTCAT
Done.