Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold23
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: 3125668
ACGTcount: A:0.28, C:0.16, G:0.16, T:0.28
Warning! 362582 characters in sequence are not A, C, G, or T
File 7 of 18
Found at i:905918 original size:74 final size:74
Alignment explanation
Indices: 905813--906358 Score: 258
Period size: 76 Copynumber: 7.1 Consensus size: 74
905803 TTGAAAGAAA
* * * * * *
905813 AAAGAAAAAGGGTGTCACCAACTTGTGTGGGCTTTG-AGAAAGAAAAGAGTGCCGCCAACTTGTA
1 AAAGAAAAAAGGTGCCACCAACTTGTATGGGCTTTGAAGAAAAAAAAGAGTGCCACCAACTTATA
*
905877 -CGGACTTTGG
66 TAGG-CTTT-G
*
905887 AAAGAAAAAAGGTGCCGA-CAACTTGTATGGGCTTTGAAAGAAAAAAAAGGGTGCCACCAACTTA
1 AAAGAAAAAAGGTGCC-ACCAACTTGTATGGGCTTTG-AAGAAAAAAAAGAGTGCCACCAACTTA
905951 TATAGGCTTTG
64 TATAGGCTTTG
* * *
905962 AAAGAAAAAAGAAAAAGGGTGCCACCAACTTGAATGGGCTTT--AGAAGGAAAAA-TGTGCCACC
1 AAAG-----A-AAAAA-GGTGCCACCAACTTGTATGGGCTTTGAAGAA-AAAAAAGAGTGCCACC
* **
906024 AACTTGT-GCGAGCTTT-
58 AACTTATATAG-GCTTTG
* ** * *
906040 -AAGAAGAAAAGAGCGCCATTAACTTGTTTGGGCTTTGAAAGAAAAAAGAAAAAAGGTGCCACCA
1 AAAGAA-AAAAG-GTGCCACCAACTTGTATGGGCTTTG-AAG--AAAA-AAAAGA-GTGCCACCA
* *
906104 ACTTGTGTAGGCTTTG
59 ACTTATATAGGCTTTG
* * * ** * * * * *
906120 AGAAGGAAAAGGGTGCCGCCAACTTGTGCGAGCTTT--AGAAAAAAGATGTGTGCTATCAACTTA
1 A-AAGAAAAAAGGTGCCACCAACTTGTATGGGCTTTGAAGAAAAAA-AAGAGTGCCACCAACTTA
* *
906183 TGTGGGCTTTG
64 TATAGGCTTTG
* *
906194 AAAGAAAAAAAAGAGTGCTACCAACTTGTATGAGCTTTGAAAGGAAAAAAAA-AGGTGCCACCAA
1 AAAG--AAAAAAG-GTGCCACCAACTTGTATGGGCTTTG-AA-GAAAAAAAAGA-GTGCCACCAA
* *
906258 CTTGTGTCA-GCTTT-
60 CTTATAT-AGGCTTTG
* * * * ** * * * *
906272 AGAAGGAAAAAGGTGTCGCCAACTTTTGCGGGCTTTGAA-AAGAAGATGAGTGCCACCAACTTGT
1 A-AAGAAAAAAGGTGCCACCAACTTGTATGGGCTTTGAAGAAAAAAAAGAGTGCCACCAACTTAT
* *
906336 GTGGGCTTTG
65 ATAGGCTTTG
906346 AAAAGGAAAAAAG
1 -AAA-GAAAAAAG
906359 AAAACGACAC
Statistics
Matches: 364, Mismatches: 64, Indels: 87
0.71 0.12 0.17
Matches are distributed among these distances:
71 2 0.01
72 24 0.07
73 30 0.08
74 58 0.16
75 28 0.08
76 67 0.18
77 19 0.05
78 2 0.01
79 67 0.18
80 31 0.09
81 10 0.03
82 26 0.07
ACGTcount: A:0.37, C:0.15, G:0.26, T:0.22
Consensus pattern (74 bp):
AAAGAAAAAAGGTGCCACCAACTTGTATGGGCTTTGAAGAAAAAAAAGAGTGCCACCAACTTATA
TAGGCTTTG
Found at i:906143 original size:271 final size:269
Alignment explanation
Indices: 905784--906362 Score: 729
Period size: 271 Copynumber: 2.1 Consensus size: 269
905774 AAAAAGGGTA
* * * * * *
905784 CCACCAACCTATGTAGGCTTTGAAAGAAAAAAGAAAAAGGGTGTCACCAACTTGTGTGGGCTTTG
1 CCACCAACTTGTGTGGGCTTTGAAAGAAAAAAGAAAAAAGGTGCCACCAACTTGTGTAGGCTTTG
*
905849 AGAAAGAAAAGAGTGCCGCCAACTTGTACG-GACTTTGGAAAGAAAAAAG-GTGCCGA-CAACTT
66 AGAAAGAAAAGAGTGCCGCCAACTTGTACGAG-CTTTAGAAA-AAAAAAGTGTG-CGATCAACTT
* *
905911 GTATGGGCTTTGAAAGAAAAAAAAGGGTGCCACCAACTTATAT-AGGCTTTGAAAGAAAAAAGAA
128 ATATGGGCTTTGAAAGAAAAAAAAGAGTGCCACCAACTTATATGA-GCTTTGAAAG-AAAAA-AA
** *
905975 AAAGGGTGCCACCAACTTGAATGGGCTTTAGAAGGAAAAATGTGCCACCAACTTGTGCGAGCTTT
190 AAA-GGTGCCACCAACTTGAATCAGCTTTAGAAGGAAAAAGGTGCCACCAACTTGTGCGAGCTTT
906040 -AAGAAGAA-AAGAGCG
254 GAA-AAGAAGAAGAGCG
** *
906055 CCATTAACTTGTTTGGGCTTTGAAAGAAAAAAGAAAAAAGGTGCCACCAACTTGTGTAGGCTTTG
1 CCACCAACTTGTGTGGGCTTTGAAAGAAAAAAGAAAAAAGGTGCCACCAACTTGTGTAGGCTTTG
* * * * * * *
906120 AGAAGGAAAAGGGTGCCGCCAACTTGTGCGAGCTTTAGAAAAAAGATGTGTGCTATCAACTTATG
66 AGAAAGAAAAGAGTGCCGCCAACTTGTACGAGCTTTAGAAAAAAAAAGTGTGCGATCAACTTATA
* * *
906185 TGGGCTTTGAAAGAAAAAAAAGAGTGCTACCAACTTGTATGAGCTTTGAAAGGAAAAAAAAAGGT
131 TGGGCTTTGAAAGAAAAAAAAGAGTGCCACCAACTTATATGAGCTTTGAAAGAAAAAAAAAAGGT
** * * * *
906250 GCCACCAACTTGTGTCAGCTTTAGAAGGAAAAAGGTGTCGCCAACTTTTGCGGGCTTTGAAAAGA
196 GCCACCAACTTGAATCAGCTTTAGAAGGAAAAAGGTGCCACCAACTTGTGCGAGCTTTGAAAAGA
* *
906315 AGATGAGTG
261 AGAAGAGCG
906324 CCACCAACTTGTGTGGGCTTTGAAAAGGAAAAAAGAAAA
1 CCACCAACTTGTGTGGGCTTTG-AAA-GAAAAAAGAAAA
906363 CGACACCACC
Statistics
Matches: 264, Mismatches: 36, Indels: 16
0.84 0.11 0.05
Matches are distributed among these distances:
268 57 0.22
269 31 0.12
270 14 0.05
271 160 0.61
272 2 0.01
ACGTcount: A:0.37, C:0.15, G:0.26, T:0.22
Consensus pattern (269 bp):
CCACCAACTTGTGTGGGCTTTGAAAGAAAAAAGAAAAAAGGTGCCACCAACTTGTGTAGGCTTTG
AGAAAGAAAAGAGTGCCGCCAACTTGTACGAGCTTTAGAAAAAAAAAGTGTGCGATCAACTTATA
TGGGCTTTGAAAGAAAAAAAAGAGTGCCACCAACTTATATGAGCTTTGAAAGAAAAAAAAAAGGT
GCCACCAACTTGAATCAGCTTTAGAAGGAAAAAGGTGCCACCAACTTGTGCGAGCTTTGAAAAGA
AGAAGAGCG
Found at i:906155 original size:152 final size:148
Alignment explanation
Indices: 905572--906336 Score: 466
Period size: 153 Copynumber: 5.0 Consensus size: 148
905562 GCCAGCTTAG
* * *
905572 GCGAGCTTT-AA-AAAAAAAAG-GTTGCCACCGACTTGTATGGGCATT-AAAGGGAAAAAGAAAG
1 GCGAGCTTTAAAGAAAAAAAAGAG-CGCCACCAACTTGTATGGGCTTTGAAA--GAAAAA-AAA-
* * * * *
905633 GGGTGCCACCAACTTGTATGGGCTTT-AGAAGGAAAAGGGTGCTGCCAACTTATGCAGGCTTTGA
61 AGGTGCCACCAACTTGTGTAGGCTTTGAGAAGGAAAAGGGTGCCGCCAACTTGTGC-GGCTTT-A
905697 GAAGAAAAAGA-GTGCCACCAACTTGT
124 G-A-AAAAAGATGTGCCACCAACTTGT
** * * * * *** *
905723 ATGGGCTTT-GAGAAAGAAAAG-GTTGTTGCCAACTTGTGCA-GGG-TTTG--AG-AAAAAAAGG
1 GCGAGCTTTAAAGAAAAAAAAGAG-CGCCACCAACTTGT--ATGGGCTTTGAAAGAAAAAAAAAG
* * * * * * *
905781 GTACCACCAACCTATGTAGGCTTTGAAAGAAAAAAGAAAAAGGGTGTCACCAACTTGTGTGGGCT
63 GTGCCACCAACTTGTGTAGGCTTTG--AG----AAGGAAAAGGGTGCCGCCAACTTGTG-CGGCT
*
905846 TTGAGAAAGAAAAGA-GTGCCGCCAACTTGT
121 TT-AG-AA-AAAAGATGTGCCACCAACTTGT
* * *
905876 ACG-GACTTTGGAAAG--AAAAAAG-GTGCCGA-CAACTTGTATGGGCTTTGAAAGAAAAAAAAG
1 GCGAG-CTTT--AAAGAAAAAAAAGAGCGCC-ACCAACTTGTATGGGCTTTGAAAGAAAAAAAAA
* * * *
905936 GGTGCCACCAACTTATATAGGCTTTGAAAGAAAAAAGAAAAAGGGTGCCACCAACTTGAATG-GG
62 GGTGCCACCAACTTGTGTAGGCTTTG--AG----AAGGAAAAGGGTGCCGCCAACTTG--TGCGG
906000 CTTTAGAAGGAAAA-ATGTGCCACCAACTTGT
119 CTTTAGAA--AAAAGATGTGCCACCAACTTGT
* ** *
906031 GCGAGCTTT-AAG-AAGAAAAGAGCGCCATTAACTTGTTTGGGCTTTGAAAGAAAAAAGAAAAAA
1 GCGAGCTTTAAAGAAAAAAAAGAGCGCCACCAACTTGTATGGGCTTTGAAAG---AAA-AAAAAA
906094 GGTGCCACCAACTTGTGTAGGCTTTGAGAAGGAAAAGGGTGCCGCCAACTTGTGCGAGCTTTAGA
62 GGTGCCACCAACTTGTGTAGGCTTTGAGAAGGAAAAGGGTGCCGCCAACTTGTGCG-GCTTTAGA
* * *
906159 AAAAAGATGTGTGCTATCAACTTAT
126 AAAAAGA--TGTGCCACCAACTTGT
* * * * *
906184 GTGGGCTTTGAAAGAAAAAAAAGAGTGCTACCAACTTGTATGAGCTTTGAAAGGAAAAAAAAAGG
1 GCGAGCTTT-AAAGAAAAAAAAGAGCGCCACCAACTTGTATGGGCTTTGAAA-GAAAAAAAAAGG
* * *
906249 TGCCACCAACTTGTGTCA-GCTTT-AGAAGGAAAAAGGTGTCGCCAACTTTTGCGGGCTTT-GAA
64 TGCCACCAACTTGTGT-AGGCTTTGAGAAGGAAAAGGGTGCCGCCAACTTGTGC-GGCTTTAGAA
906311 AAGAAGATGAGTGCCACCAACTTGT
127 AA-AAGAT--GTGCCACCAACTTGT
906336 G
1 G
906337 TGGGCTTTGA
Statistics
Matches: 504, Mismatches: 61, Indels: 97
0.76 0.09 0.15
Matches are distributed among these distances:
146 21 0.04
147 3 0.01
148 4 0.01
149 3 0.01
150 7 0.01
151 16 0.03
152 109 0.22
153 132 0.26
154 39 0.08
155 32 0.06
156 103 0.20
157 4 0.01
158 31 0.06
ACGTcount: A:0.36, C:0.15, G:0.27, T:0.22
Consensus pattern (148 bp):
GCGAGCTTTAAAGAAAAAAAAGAGCGCCACCAACTTGTATGGGCTTTGAAAGAAAAAAAAAGGTG
CCACCAACTTGTGTAGGCTTTGAGAAGGAAAAGGGTGCCGCCAACTTGTGCGGCTTTAGAAAAAA
GATGTGCCACCAACTTGT
Found at i:906482 original size:30 final size:29
Alignment explanation
Indices: 906425--906490 Score: 87
Period size: 30 Copynumber: 2.2 Consensus size: 29
906415 TTTTTTTTAT
* *
906425 AAAAAGGATGCCACTAAGTTGTGGACTTTG
1 AAAAAGGATGCCACTAAGTCGTAGAC-TTG
* *
906455 AGAAAGGATGCCACTGAGTCGTAGACTTG
1 AAAAAGGATGCCACTAAGTCGTAGACTTG
906484 AAAAAGG
1 AAAAAGG
906491 TTACTGTTAG
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
29 9 0.29
30 22 0.71
ACGTcount: A:0.36, C:0.14, G:0.29, T:0.21
Consensus pattern (29 bp):
AAAAAGGATGCCACTAAGTCGTAGACTTG
Found at i:906816 original size:13 final size:13
Alignment explanation
Indices: 906798--906822 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
906788 ACATTATGCT
906798 TTGTATCGATACA
1 TTGTATCGATACA
906811 TTGTATCGATAC
1 TTGTATCGATAC
906823 TTACACAATT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.28, C:0.16, G:0.16, T:0.40
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:906899 original size:19 final size:20
Alignment explanation
Indices: 906875--906926 Score: 70
Period size: 19 Copynumber: 2.6 Consensus size: 20
906865 TACCACTGTT
* *
906875 TGTATCGATACATGGT-ACA
1 TGTATCGATACATAGTGAAA
906894 TGTATCGATACATAGTGAAA
1 TGTATCGATACATAGTGAAA
*
906914 AGTATCGATACAT
1 TGTATCGATACAT
906927 TGTCCTAACT
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
19 15 0.52
20 14 0.48
ACGTcount: A:0.37, C:0.13, G:0.19, T:0.31
Consensus pattern (20 bp):
TGTATCGATACATAGTGAAA
Found at i:907113 original size:39 final size:39
Alignment explanation
Indices: 907068--907144 Score: 136
Period size: 39 Copynumber: 2.0 Consensus size: 39
907058 CCAATGAGTA
907068 TGTCAACATTCCAGCATATAAATTTGAGTTTCCAACATT
1 TGTCAACATTCCAGCATATAAATTTGAGTTTCCAACATT
* *
907107 TGTCAACATTCTAGCCTATAAATTTGAGTTTCCAACAT
1 TGTCAACATTCCAGCATATAAATTTGAGTTTCCAACAT
907145 CTGAACAAGT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 36 1.00
ACGTcount: A:0.32, C:0.21, G:0.10, T:0.36
Consensus pattern (39 bp):
TGTCAACATTCCAGCATATAAATTTGAGTTTCCAACATT
Found at i:910031 original size:21 final size:21
Alignment explanation
Indices: 909998--910042 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
909988 TTGCAAGTTG
*
909998 AAATAAAGAAGTTGGCTAATGA
1 AAATAAAGAAGTTAGCTAA-GA
*
910020 AAATAATG-AGTTAGCTAAGA
1 AAATAAAGAAGTTAGCTAAGA
910040 AAA
1 AAA
910043 ATGAAAACTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 9 0.43
22 7 0.33
ACGTcount: A:0.53, C:0.04, G:0.20, T:0.22
Consensus pattern (21 bp):
AAATAAAGAAGTTAGCTAAGA
Found at i:913974 original size:13 final size:13
Alignment explanation
Indices: 913956--913992 Score: 65
Period size: 13 Copynumber: 2.8 Consensus size: 13
913946 ACATTTTTCT
*
913956 TTGTATTGATACA
1 TTGTATCGATACA
913969 TTGTATCGATACA
1 TTGTATCGATACA
913982 TTGTATCGATA
1 TTGTATCGATA
913993 TAGGGTGATT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.30, C:0.11, G:0.16, T:0.43
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:916559 original size:13 final size:13
Alignment explanation
Indices: 916541--916566 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
916531 TACAGCAAGT
916541 ATGTATCGATACA
1 ATGTATCGATACA
916554 ATGTATCGATACA
1 ATGTATCGATACA
916567 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:918388 original size:20 final size:19
Alignment explanation
Indices: 918359--918397 Score: 69
Period size: 20 Copynumber: 2.0 Consensus size: 19
918349 AGGTCAAAAC
918359 CCTTAAATGTATCGATACA
1 CCTTAAATGTATCGATACA
918378 CCTTCAAATGTATCGATACA
1 CCTT-AAATGTATCGATACA
918398 TAATGCACAG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 4 0.21
20 15 0.79
ACGTcount: A:0.36, C:0.23, G:0.10, T:0.31
Consensus pattern (19 bp):
CCTTAAATGTATCGATACA
Found at i:918425 original size:13 final size:13
Alignment explanation
Indices: 918407--918431 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
918397 ATAATGCACA
918407 GTATCGATACATT
1 GTATCGATACATT
918420 GTATCGATACAT
1 GTATCGATACAT
918432 GACCAAATGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
GTATCGATACATT
Found at i:918537 original size:19 final size:19
Alignment explanation
Indices: 918513--918575 Score: 66
Period size: 19 Copynumber: 3.6 Consensus size: 19
918503 TTTAACTGTT
918513 TGTATCGATACACACAAGA
1 TGTATCGATACACACAAGA
918532 TGTATCGAT----AC-A-A
1 TGTATCGATACACACAAGA
*
918545 TGCATCGATACACACAAGA
1 TGTATCGATACACACAAGA
*
918564 TGTATTGATACA
1 TGTATCGATACA
918576 ATGTATCAAT
Statistics
Matches: 35, Mismatches: 3, Indels: 12
0.70 0.06 0.24
Matches are distributed among these distances:
13 9 0.26
14 1 0.03
15 2 0.06
17 2 0.06
18 1 0.03
19 20 0.57
ACGTcount: A:0.40, C:0.19, G:0.16, T:0.25
Consensus pattern (19 bp):
TGTATCGATACACACAAGA
Found at i:918557 original size:32 final size:32
Alignment explanation
Indices: 918516--918608 Score: 125
Period size: 32 Copynumber: 2.9 Consensus size: 32
918506 AACTGTTTGT
918516 ATCGATACACACAAGATGTATCGATACAATGC
1 ATCGATACACACAAGATGTATCGATACAATGC
* *
918548 ATCGATACACACAAGATGTATTGATACAATGT
1 ATCGATACACACAAGATGTATCGATACAATGC
* *
918580 ATCAATACATCCCAA-ATTGTATCGATACA
1 ATCGATACA-CACAAGA-TGTATCGATACA
918609 TTGGCTTGTA
Statistics
Matches: 54, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
32 39 0.72
33 15 0.28
ACGTcount: A:0.41, C:0.20, G:0.13, T:0.26
Consensus pattern (32 bp):
ATCGATACACACAAGATGTATCGATACAATGC
Found at i:928126 original size:8 final size:8
Alignment explanation
Indices: 928113--928138 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
928103 ATTTGATTAA
928113 ATTTTGTG
1 ATTTTGTG
928121 ATTTTGTG
1 ATTTTGTG
928129 ATTTTGTG
1 ATTTTGTG
928137 AT
1 AT
928139 GTTGAAAATG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.15, C:0.00, G:0.23, T:0.62
Consensus pattern (8 bp):
ATTTTGTG
Found at i:928332 original size:13 final size:13
Alignment explanation
Indices: 928314--928351 Score: 58
Period size: 13 Copynumber: 2.9 Consensus size: 13
928304 AAAAATTAGA
*
928314 TGTATCGATACAT
1 TGTATCGATACAG
*
928327 TGTATCGATATAG
1 TGTATCGATACAG
928340 TGTATCGATACA
1 TGTATCGATACA
928352 AAGGGTTTAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.32, C:0.13, G:0.18, T:0.37
Consensus pattern (13 bp):
TGTATCGATACAG
Found at i:930218 original size:16 final size:16
Alignment explanation
Indices: 930197--930228 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
930187 GTGATTAAAA
930197 GAAATTATTAAATTGC
1 GAAATTATTAAATTGC
*
930213 GAAATTGTTAAATTGC
1 GAAATTATTAAATTGC
930229 TTTATTAAGG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.41, C:0.06, G:0.16, T:0.38
Consensus pattern (16 bp):
GAAATTATTAAATTGC
Found at i:930799 original size:20 final size:20
Alignment explanation
Indices: 930770--930810 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
930760 AAAGGTCAAA
* *
930770 ACCTTTAAATGTATCGATAC
1 ACCTTCAAATGTATCAATAC
930790 ACCTTCAAATGTATCAATAC
1 ACCTTCAAATGTATCAATAC
930810 A
1 A
930811 TAATGCACAG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.39, C:0.22, G:0.07, T:0.32
Consensus pattern (20 bp):
ACCTTCAAATGTATCAATAC
Found at i:932100 original size:12 final size:12
Alignment explanation
Indices: 932083--932107 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
932073 ATTAAGGATG
932083 ATGATGATGATA
1 ATGATGATGATA
932095 ATGATGATGATA
1 ATGATGATGATA
932107 A
1 A
932108 AGAAGTTGAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.44, C:0.00, G:0.24, T:0.32
Consensus pattern (12 bp):
ATGATGATGATA
Found at i:933794 original size:36 final size:36
Alignment explanation
Indices: 933742--933819 Score: 147
Period size: 36 Copynumber: 2.2 Consensus size: 36
933732 AAACCCATAA
*
933742 ACATTGTCACGACCTCTAGAGTTTTGCAACTAGTTC
1 ACATCGTCACGACCTCTAGAGTTTTGCAACTAGTTC
933778 ACATCGTCACGACCTCTAGAGTTTTGCAACTAGTTC
1 ACATCGTCACGACCTCTAGAGTTTTGCAACTAGTTC
933814 ACATCG
1 ACATCG
933820 ACTTATTTGG
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
36 41 1.00
ACGTcount: A:0.26, C:0.27, G:0.17, T:0.31
Consensus pattern (36 bp):
ACATCGTCACGACCTCTAGAGTTTTGCAACTAGTTC
Found at i:938515 original size:24 final size:25
Alignment explanation
Indices: 938488--938536 Score: 73
Period size: 24 Copynumber: 2.0 Consensus size: 25
938478 TTTTATTTGA
938488 AATAAATTTGTTT-AAATAAGAGGG
1 AATAAATTTGTTTAAAATAAGAGGG
* *
938512 AATAACTTTGTTTAAAATGAGAGGG
1 AATAAATTTGTTTAAAATAAGAGGG
938537 CTAACAAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 12 0.55
25 10 0.45
ACGTcount: A:0.43, C:0.02, G:0.22, T:0.33
Consensus pattern (25 bp):
AATAAATTTGTTTAAAATAAGAGGG
Found at i:939255 original size:19 final size:20
Alignment explanation
Indices: 939231--939284 Score: 74
Period size: 19 Copynumber: 2.8 Consensus size: 20
939221 ATATTATGCT
* *
939231 TTGTATTGATACATGTTC-A
1 TTGTATCGATACATGCTCAA
*
939250 TTGTATCGATACATACTCAA
1 TTGTATCGATACATGCTCAA
939270 TTGTATCGATACATG
1 TTGTATCGATACATG
939285 AAACTGGCAG
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
19 15 0.50
20 15 0.50
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (20 bp):
TTGTATCGATACATGCTCAA
Found at i:946720 original size:79 final size:81
Alignment explanation
Indices: 946478--946739 Score: 245
Period size: 79 Copynumber: 3.3 Consensus size: 81
946468 ACTTTTGGTG
* * * * * * *
946478 AAAATCGGGGTTAGAGTAT-CTCCTCAAAAAAGATGGGGTTAGAGTATCTCCGATAG-TGAAAAA
1 AAAAT-GGGGTTAGAGTATCCT-CTCGAAAATGGTGGAGTTTGAGTACCCCCGA-AGATGAAAAA
* **
946541 -TCGATATTTTGGAAA-TA
63 TTTGATATTTTTAAAAGTA
* *
946558 AAAATGGGATTAGAGTATTCC-CTCGAAAATGGTGGAGTTTGAGTACCCCCGAAGATGGAAAATT
1 AAAATGGGGTTAGAGTA-TCCTCTCGAAAATGGTGGAGTTTGAGTACCCCCGAAGATGAAAAATT
*
946622 TGATATTTTTAAGAGTA
65 TGATATTTTTAAAAGTA
* * * *
946639 AAAATGGGGTTGGAGTATCCTTTC-AGAAATGGTGG-G-TTGAAGTATCCCCG-CGATGAAAAAT
1 AAAATGGGGTTAGAGTATCCTCTCGA-AAATGGTGGAGTTTG-AGTACCCCCGAAGATGAAAAAT
946700 TTGATATTTTTAAAAGTA
64 TTGATATTTTTAAAAGTA
*
946718 AAAATAGGGTTAGAGTATCCTC
1 AAAATGGGGTTAGAGTATCCTC
946740 GATAGTGAAA
Statistics
Matches: 151, Mismatches: 23, Indels: 17
0.79 0.12 0.09
Matches are distributed among these distances:
78 2 0.01
79 89 0.59
80 31 0.21
81 29 0.19
ACGTcount: A:0.35, C:0.11, G:0.24, T:0.29
Consensus pattern (81 bp):
AAAATGGGGTTAGAGTATCCTCTCGAAAATGGTGGAGTTTGAGTACCCCCGAAGATGAAAAATTT
GATATTTTTAAAAGTA
Found at i:946735 original size:52 final size:52
Alignment explanation
Indices: 946679--946791 Score: 138
Period size: 52 Copynumber: 2.2 Consensus size: 52
946669 GGTGGGTTGA
* * *
946679 AGTATCCCCGCGA-TGAAAAATTTGATATTTTTAAAAGTAAAAATAGGGTTAG
1 AGTATCCCCGAGAGTGAAAAATTTGATATTTTGAAAA-TAAAAACAGGGTTAG
* * * * *
946731 AGTATCCTCGATAGTGAAAAATTTGATATTTTGGAAATAAAAACGGGGTTGG
1 AGTATCCCCGAGAGTGAAAAATTTGATATTTTGAAAATAAAAACAGGGTTAG
946783 AGTATCCCC
1 AGTATCCCC
946792 TCAAAAATGA
Statistics
Matches: 51, Mismatches: 9, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
52 30 0.59
53 21 0.41
ACGTcount: A:0.37, C:0.12, G:0.21, T:0.30
Consensus pattern (52 bp):
AGTATCCCCGAGAGTGAAAAATTTGATATTTTGAAAATAAAAACAGGGTTAG
Found at i:948665 original size:13 final size:13
Alignment explanation
Indices: 948647--948672 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
948637 CACACCCAAA
948647 TGTATCGATACAT
1 TGTATCGATACAT
948660 TGTATCGATACAT
1 TGTATCGATACAT
948673 GTTCACTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:957431 original size:19 final size:19
Alignment explanation
Indices: 957406--957462 Score: 69
Period size: 19 Copynumber: 2.9 Consensus size: 19
957396 TTGTGTCGAT
* *
957406 ACATTGTATCGATTCATGT
1 ACATTGTATCGATACATGC
* *
957425 TCATTGTATTGATACATGC
1 ACATTGTATCGATACATGC
957444 ACAATTGTATCGATACATG
1 AC-ATTGTATCGATACATG
957463 AAACTGGCAG
Statistics
Matches: 31, Mismatches: 6, Indels: 1
0.82 0.16 0.03
Matches are distributed among these distances:
19 16 0.52
20 15 0.48
ACGTcount: A:0.30, C:0.16, G:0.16, T:0.39
Consensus pattern (19 bp):
ACATTGTATCGATACATGC
Found at i:957516 original size:20 final size:20
Alignment explanation
Indices: 957491--957544 Score: 81
Period size: 20 Copynumber: 2.7 Consensus size: 20
957481 CTACCACTGT
* *
957491 TTGTATCGATACATGGCACA
1 TTGTATCGATACATGACAAA
*
957511 TTGTATCGATACATGATAAA
1 TTGTATCGATACATGACAAA
957531 TTGTATCGATACAT
1 TTGTATCGATACAT
957545 TACTTCTAAC
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.33, C:0.15, G:0.17, T:0.35
Consensus pattern (20 bp):
TTGTATCGATACATGACAAA
Found at i:959241 original size:21 final size:20
Alignment explanation
Indices: 959193--959247 Score: 76
Period size: 20 Copynumber: 2.7 Consensus size: 20
959183 ACATTTTAGA
*
959193 CATGTATTGATACATTCACT
1 CATGTATCGATACATTCACT
959213 CATGTATCGATACATTCACT
1 CATGTATCGATACATTCACT
959233 -ATTTGTATCGATACA
1 CA--TGTATCGATACA
959248 AATCGTAAAA
Statistics
Matches: 32, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
19 1 0.03
20 19 0.59
21 12 0.38
ACGTcount: A:0.31, C:0.20, G:0.11, T:0.38
Consensus pattern (20 bp):
CATGTATCGATACATTCACT
Found at i:960650 original size:157 final size:156
Alignment explanation
Indices: 960358--960782 Score: 480
Period size: 157 Copynumber: 2.7 Consensus size: 156
960348 TGTGGAAATA
* * ** * *
960358 ATTATAAATGGGATGAACCTATCCTAAATACCCACCTTCGGCATAAAAGCGAACTTGGTGACAAC
1 ATTATAGATGAGATGAACCTATCCTAAATACCCACCTTCGGCATAAAAGTAAACCTAGTGACAAC
* * ** * * *
960423 CTAAGACTTAATTTTAATAAAATTACAAAAATACCCCTATGGTATACCTTCAACTTAGATGTGCT
66 CTAGGACTTAATTTTAAAAAAATTATGAAAATGCCCCTATGGTATACCCTCAACTTAGATGTACT
* *
960488 CAATA-CTCTTAAAGGACTTAAAAAAGG
131 CAATACCTC-TAAAAGACCT-AAAAAGG
* * *
960515 ATTATAGATGAGATGAACCTATCCTAAATACCGACCTTCGGCATATAAGTAAACCTAGTGGCAAC
1 ATTATAGATGAGATGAACCTATCCTAAATACCCACCTTCGGCATAAAAGTAAACCTAGTGACAAC
* *
960580 CTAGGACTTAATTTTAAAAAAATTATGAAAATGCCCCTATGGTGTACCCT-AGA-TGTAGATTTA
66 CTAGGACTTAATTTTAAAAAAATTATGAAAATGCCCCTATGGTATACCCTCA-ACT-TAGATGTA
* *
960643 CTTAATACCTCTAAAATACCTAAAAAGG
129 CTCAATACCTCTAAAAGACCTAAAAAGG
** * * *
960671 ATTATAGATGAGATGAACCTATTTTAAATACCCACATTCGGCATAAAAGTAGACCTAATGACAAC
1 ATTATAGATGAGATGAACCTATCCTAAATACCCACCTTCGGCATAAAAGTAAACCTAGTGACAAC
* ** * * * *
960736 CTAGGATTTGGTTCTGAAAGAATTATGAAAATGCCCATA-GGTATACC
66 CTAGGACTTAATTTTAAAAAAATTATGAAAATGCCCCTATGGTATACC
960783 TTTAACATGA
Statistics
Matches: 227, Mismatches: 38, Indels: 8
0.83 0.14 0.03
Matches are distributed among these distances:
155 7 0.03
156 98 0.43
157 119 0.52
158 3 0.01
ACGTcount: A:0.39, C:0.19, G:0.15, T:0.28
Consensus pattern (156 bp):
ATTATAGATGAGATGAACCTATCCTAAATACCCACCTTCGGCATAAAAGTAAACCTAGTGACAAC
CTAGGACTTAATTTTAAAAAAATTATGAAAATGCCCCTATGGTATACCCTCAACTTAGATGTACT
CAATACCTCTAAAAGACCTAAAAAGG
Found at i:962841 original size:2 final size:2
Alignment explanation
Indices: 962834--962859 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
962824 AAACCAAAAC
962834 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
962860 GACATCATGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:965498 original size:73 final size:73
Alignment explanation
Indices: 965407--965555 Score: 226
Period size: 73 Copynumber: 2.0 Consensus size: 73
965397 TCATTGTTCA
* * * *
965407 TCACTATTCAGTATTGTTCATGTATCGATACATCACTGTTCATCACTATACATTGAGCCCAATAG
1 TCACTATTCAGTACTGTTCATGTATCGATACATCACTGTTCATCACTATACATTAAGCCAAACAG
965472 CTATAATT
66 CTATAATT
* * * *
965480 TCACTGTTCAGTACTGTTCATGTATTGATACATCACTGTTCATCATTATACATTAAGCCAAACGG
1 TCACTATTCAGTACTGTTCATGTATCGATACATCACTGTTCATCACTATACATTAAGCCAAACAG
965545 CTATAATT
66 CTATAATT
965553 TCA
1 TCA
965556 AATGCATGTA
Statistics
Matches: 68, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
73 68 1.00
ACGTcount: A:0.30, C:0.21, G:0.11, T:0.37
Consensus pattern (73 bp):
TCACTATTCAGTACTGTTCATGTATCGATACATCACTGTTCATCACTATACATTAAGCCAAACAG
CTATAATT
Found at i:965532 original size:20 final size:22
Alignment explanation
Indices: 965492--965532 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
965482 ACTGTTCAGT
*
965492 ACTGTTCATGTATTGATACATC
1 ACTGTTCATGCATTGATACATC
965514 ACTGTTCAT-CATT-ATACAT
1 ACTGTTCATGCATTGATACAT
965533 TAAGCCAAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 6 0.33
21 3 0.17
22 9 0.50
ACGTcount: A:0.29, C:0.20, G:0.10, T:0.41
Consensus pattern (22 bp):
ACTGTTCATGCATTGATACATC
Found at i:968723 original size:79 final size:79
Alignment explanation
Indices: 968492--968723 Score: 213
Period size: 79 Copynumber: 2.9 Consensus size: 79
968482 TTTTCATCTC
* * * *
968492 GGGGATACTCTAACCTCAGTTTTATTTCCAAAATATCA-ATTTTTCATAATCGGGGATACTCCAA
1 GGGGATACTCCAATCTCAGTTTTATTTTCAAAACA-CAGATTTTT-ATAATCGGGGATACTCCAA
* * *
968556 TCCCTTTATTTTCGTA
64 CCCCATTATTTTCGAA
* ** * * * * * *
968572 -GGGATACTCCAATCCCAGCGTCA-TTTCTAAAGCATAGATTTTTTACAATTGGGGATACTCTAA
1 GGGGATACTCCAATCTCAGTTTTATTTTC-AAAACACAGA-TTTTTATAATCGGGGATACTCCAA
968635 CCCCATTATTTTC-AA
64 CCCCATTATTTTCGAA
*
968650 GGGGATACTCCAATCTC-GATTTTATTTTCAAAACACAGATTTTCTATAATCGGGGATACTCCAG
1 GGGGATACTCCAATCTCAG-TTTTATTTTCAAAACACAGATTTT-TATAATCGGGGATACTCCAA
*
968714 CCCCGTTATT
64 CCCCATTATT
968724 ATCCCCAAAA
Statistics
Matches: 118, Mismatches: 27, Indels: 15
0.74 0.17 0.09
Matches are distributed among these distances:
78 10 0.08
79 99 0.84
80 9 0.08
ACGTcount: A:0.28, C:0.22, G:0.14, T:0.35
Consensus pattern (79 bp):
GGGGATACTCCAATCTCAGTTTTATTTTCAAAACACAGATTTTTATAATCGGGGATACTCCAACC
CCATTATTTTCGAA
Found at i:981144 original size:16 final size:15
Alignment explanation
Indices: 981123--981174 Score: 52
Period size: 16 Copynumber: 3.4 Consensus size: 15
981113 CATTCTTTAA
981123 AAAAAAGCAAAAAAAC
1 AAAAAA-CAAAAAAAC
**
981139 AAAAAA-AAGCAAAC
1 AAAAAACAAAAAAAC
*
981153 AAAAAACAAAACAAAG
1 AAAAAACAAAA-AAAC
981169 AAAAAA
1 AAAAAA
981175 AAGAACCTAC
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
14 12 0.41
15 2 0.07
16 15 0.52
ACGTcount: A:0.83, C:0.12, G:0.06, T:0.00
Consensus pattern (15 bp):
AAAAAACAAAAAAAC
Found at i:981156 original size:21 final size:20
Alignment explanation
Indices: 981121--981176 Score: 73
Period size: 21 Copynumber: 2.9 Consensus size: 20
981111 CACATTCTTT
981121 AAAAAAAAGC--AAAAAAAC
1 AAAAAAAAGCAAAAAAAAAC
981139 AAAAAAAAGCAAACAAAAAAC
1 AAAAAAAAGCAAA-AAAAAAC
*
981160 AAAACAAAG-AAAAAAAA
1 AAAAAAAAGCAAAAAAAA
981177 GAACCTACTT
Statistics
Matches: 34, Mismatches: 1, Indels: 5
0.85 0.03 0.12
Matches are distributed among these distances:
18 10 0.29
19 5 0.15
20 4 0.12
21 15 0.44
ACGTcount: A:0.84, C:0.11, G:0.05, T:0.00
Consensus pattern (20 bp):
AAAAAAAAGCAAAAAAAAAC
Found at i:981176 original size:18 final size:18
Alignment explanation
Indices: 981121--981176 Score: 67
Period size: 18 Copynumber: 2.9 Consensus size: 18
981111 CACATTCTTT
*
981121 AAAAAAAAGCAAAAAAAC
1 AAAAAAAAGAAAAAAAAC
981139 AAAAAAAAGCAAACAAAAAAC
1 AAAAAAAAG--AA-AAAAAAC
*
981160 AAAACAAAGAAAAAAAA
1 AAAAAAAAGAAAAAAAA
981177 GAACCTACTT
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
18 15 0.45
19 2 0.06
20 1 0.03
21 15 0.45
ACGTcount: A:0.84, C:0.11, G:0.05, T:0.00
Consensus pattern (18 bp):
AAAAAAAAGAAAAAAAAC
Found at i:982314 original size:55 final size:55
Alignment explanation
Indices: 982249--982957 Score: 695
Period size: 55 Copynumber: 12.5 Consensus size: 55
982239 TTCACCCTTT
* * **
982249 AGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCGCACAAGTTGGTGGCATTTTCC
1 AGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTCC
* **
982304 AGTCCTCAAAGAGCAAGACGCCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCC
1 AGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTCC
* * *
982359 AGTCCTCAAAGAGCAGGACGCCCTTCAAAGCCCAAACAAGCTGGTGGCACC-TCC
1 AGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTCC
* * * * * * *
982413 AGGCCTCAAAGAGAATGATGCTTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTCT
1 AGTCCTCAAAGAGCA-G--G---ACGCCTTTCAAAGCCCACACAAGTTGGTGGCAC-CTTCC
* * *
982475 AATCCTTAAAGAGCAGGATGCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTCC
1 AGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTCC
* * * * * *
982530 AGTACTCAAAGAGCAGGACACCTTTTAAAGCTCATACAAGTTGGTGGCACCTTCT
1 AGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTCC
* * * *
982585 AGTCCTCAAAGAGTAGGACACCTTTTCCTTTTAAAACCCACACAAGTTGGTGGCACCTTCT
1 AGTCCTCAAAGAGCAGGACGCC-TTT-C----AAAGCCCACACAAGTTGGTGGCACCTTCC
* * **
982646 AGTCCTCAAAGAGTAGGACGCCTTTCAAAGCCTACACAAGTTGGTGGCATTTTCC
1 AGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTCC
* *
982701 AGTCCTCAAAGAGCAGAACGCCTTTCAAAGCCTACACAAGTTGGTGGCACCTTCC
1 AGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTCC
* * * * *
982756 AATCCTCAAAGAGCAGGATGCCTTTTAAAGCCTACA-AAGGTTGGTGGCACTTTCC
1 AGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAA-GTTGGTGGCACCTTCC
* *
982811 GGTCCTCAAAGAGCAGGACGCCTTTTCTTTTTAAAGCCCACACAAGTTAGTGGCACCTT-C
1 AGTCCTCAAAGAGCAGGACGCC-TTTC-----AAAGCCCACACAAGTTGGTGGCACCTTCC
* * * * * *
982871 AGTCCTTAAAGAGCAGGGCACCTTTTCCTTTTAAAGCCCACACAAGTAGGTGGCACTTTGCT
1 AGTCCTCAAAGAGCA-GG-A-C---GCCTTTCAAAGCCCACACAAGTTGGTGGCACCTT-CC
* *
982933 AGTCCTCAAAGAGTAGGACACCTTT
1 AGTCCTCAAAGAGCAGGACGCCTTT
982958 TACTTTTAAA
Statistics
Matches: 547, Mismatches: 77, Indels: 59
0.80 0.11 0.09
Matches are distributed among these distances:
54 18 0.03
55 308 0.56
56 40 0.07
57 1 0.00
59 3 0.01
60 69 0.13
61 73 0.13
62 29 0.05
63 1 0.00
65 3 0.01
66 2 0.00
ACGTcount: A:0.28, C:0.28, G:0.20, T:0.24
Consensus pattern (55 bp):
AGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTCC
Found at i:982577 original size:171 final size:169
Alignment explanation
Indices: 982269--982999 Score: 742
Period size: 171 Copynumber: 4.2 Consensus size: 169
982259 GAGCAGGACA
* * * *
982269 CCTTTCAAAGCCCGCACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAAGACGCCTTTCAAAG
1 CCTTTTAAAGCCCACACAAGTTGGTGGCACTTTCCAGTCCTCAAAGAGCAGGACGCCTTTCAAAG
** * *
982334 CCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACGCCCTTCAAAGCCCAAACAAG
66 CCCACACAAGTTGGTGGCACCTTCCAGTCCTCAAAGAGCAGGACACCTTTCAAAG-CCAAACAAG
* * *
982399 CTGGTGGCACC-TCCAGGCCTCAAAGAGAATGATGCTTTCT
130 TTGGTGGCACCTTCCAGTCCTCAAAGAGAAGGATGCTTT-T
* * * *
982439 CCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTCTAATCCTTAAAGAGCAGGATGCCTTTCAAA
1 CCTTTTAAAGCCCACACAAGTTGGTGGCAC-TTTCCAGTCCTCAAAGAGCAGGACGCCTTTCAAA
* * *
982504 GCCCACACAAGTTGGTGGCACCTTCCAGTACTCAAAGAGCAGGACACCTTTTAAAGCTCATACAA
65 GCCCACACAAGTTGGTGGCACCTTCCAGTCCTCAAAGAGCAGGACACCTTTCAAAGC-CAAACAA
* * **
982569 GTTGGTGGCACCTTCTAGTCCTCAAAGAGTAGGACACCTTTT
129 GTTGGTGGCACCTTCCAGTCCTCAAAGAGAAGGA-TGCTTTT
* * * *
982611 CCTTTTAAAACCCACACAAGTTGGTGGCACCTTCTAGTCCTCAAAGAGTAGGACGCCTTTCAAAG
1 CCTTTTAAAGCCCACACAAGTTGGTGGCACTTTCCAGTCCTCAAAGAGCAGGACGCCTTTCAAAG
* ** * * *
982676 CCTACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGAACGCCTTTCAAAGCCTACACAAG
66 CCCACACAAGTTGGTGGCACCTTCCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCC-AAACAAG
* *
982741 TTGGTGGCACCTTCCAATCCTCAAAGAGCAGGATG-----
130 TTGGTGGCACCTTCCAGTCCTCAAAGAGAAGGATGCTTTT
* *
982776 CCTTTTAAAGCCTACA-AAGGTTGGTGGCACTTTCCGGTCCTCAAAGAGCAGGACGCCTTTTCTT
1 CCTTTTAAAGCCCACACAA-GTTGGTGGCACTTTCCAGTCCTCAAAGAGCAGGACGCC-TTTC--
* * *
982840 TTTAAAGCCCACACAAGTTAGTGGCACCTT-CAGTCCTTAAAGAGCAGGGCACCTTTTCCTTTTA
62 ---AAAGCCCACACAAGTTGGTGGCACCTTCCAGTCCTCAAAGAGCAGGACACC-TTT-C----A
* * * * * **
982904 AAGCCCACACAAGTAGGTGGCACTTTGCTAGTCCTCAAAGAGTAGGACACCTTTT
118 AAG-CCAAACAAGTTGGTGGCACCTT-CCAGTCCTCAAAGAGAAGGA-TGCTTTT
* ** * *
982959 ACTTTTAAAGGTCACACAAGCTGGTGGCACCTT-CAGTCCTC
1 CCTTTTAAAGCCCACACAAGTTGGTGGCACTTTCCAGTCCTC
983000 GAAAAACAAG
Statistics
Matches: 465, Mismatches: 69, Indels: 42
0.81 0.12 0.07
Matches are distributed among these distances:
164 2 0.00
165 48 0.10
166 4 0.01
170 48 0.10
171 237 0.51
172 48 0.10
173 4 0.01
176 22 0.05
177 19 0.04
182 7 0.02
183 24 0.05
184 2 0.00
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.25
Consensus pattern (169 bp):
CCTTTTAAAGCCCACACAAGTTGGTGGCACTTTCCAGTCCTCAAAGAGCAGGACGCCTTTCAAAG
CCCACACAAGTTGGTGGCACCTTCCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCAAACAAGT
TGGTGGCACCTTCCAGTCCTCAAAGAGAAGGATGCTTTT
Found at i:982714 original size:226 final size:228
Alignment explanation
Indices: 982249--982957 Score: 789
Period size: 226 Copynumber: 3.1 Consensus size: 228
982239 TTCACCCTTT
* * **
982249 AGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCGCACAAGTTGGTGGCATTTTCCAGTCCTCAAA
1 AGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTCCAGTCCTCAAA
* * * * *
982314 GAGCAAGACGCCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACG
66 GAGCAGGACGCCTTTTAAAG-CCATACAAGTTGGTGGCACTTTCCAGTCCTCAAAGAGCAGGACC
* * * * * ** *
982379 C----CC-TTCAAAGCCCAAACAAGCTGGTGGCACCTCCAGGCCTCAAAGAGAATGATGCTTTCT
130 CTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAG-ATGATGC-GACG
* *
982439 CCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTCT
193 CCTTTCAAAGCCCACACAAGTTGGTGGCACTTTTCC
* * * *
982475 AATCCTTAAAGAGCAGGATGCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTCCAGTACTCAAA
1 AGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTCCAGTCCTCAAA
* * * *
982540 GAGCAGGACACCTTTTAAAGCTCATACAAGTTGGTGGCACCTTCTAGTCCTCAAAGAGTAGGACA
66 GAGCAGGACGCCTTTTAAAGC-CATACAAGTTGGTGGCACTTTCCAGTCCTCAAAGAGCAGGAC-
*
982605 CCTTTTCCTTTTAAAACCCACACAAGTTGGTGGCACCTTCTAGTCCTCAAAGAG-T-A-G-GACG
129 CCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTC-AGTCCTCAAAGAGATGATGCGACG
*
982666 CCTTTCAAAGCCTACACAAGTTGGTGGCA-TTTTCC
193 CCTTTCAAAGCCCACACAAGTTGGTGGCACTTTTCC
* * *
982701 AGTCCTCAAAGAGCAGAACGCCTTTCAAAGCCTACACAAGTTGGTGGCACCTTCCAATCCTCAAA
1 AGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTCCAGTCCTCAAA
* *
982766 GAGCAGGATGCCTTTTAAAGCC-TACAAAGGTTGGTGGCACTTTCCGGTCCTCAAAGAGCAGGAC
66 GAGCAGGACGCCTTTTAAAGCCATAC-AA-GTTGGTGGCACTTTCCAGTCCTCAAAGAGCAGGAC
* * * *
982830 GCCTTTTCTTTTTAAAGCCCACACAAGTTAGTGGCACCTTCAGTCCTTAAAGAGCA-G-GGC-AC
129 -CCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAG-ATGATGCGA-
* * * * *
982892 CTTTTCCTTTTAAAGCCCACACAAGTAGGTGGCACTTTGCT
191 C---GCCTTTCAAAGCCCACACAAGTTGGTGGCACTTTTCC
* *
982933 AGTCCTCAAAGAGTAGGACACCTTT
1 AGTCCTCAAAGAGCAGGACGCCTTT
982958 TACTTTTAAA
Statistics
Matches: 407, Mismatches: 56, Indels: 34
0.82 0.11 0.07
Matches are distributed among these distances:
224 3 0.01
225 16 0.04
226 261 0.64
227 31 0.08
228 1 0.00
229 1 0.00
230 1 0.00
231 29 0.07
232 52 0.13
233 12 0.03
ACGTcount: A:0.28, C:0.28, G:0.20, T:0.24
Consensus pattern (228 bp):
AGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTCCAGTCCTCAAA
GAGCAGGACGCCTTTTAAAGCCATACAAGTTGGTGGCACTTTCCAGTCCTCAAAGAGCAGGACCC
TTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGATGATGCGACGCCT
TTCAAAGCCCACACAAGTTGGTGGCACTTTTCC
Found at i:983218 original size:42 final size:42
Alignment explanation
Indices: 983089--983414 Score: 212
Period size: 41 Copynumber: 7.6 Consensus size: 42
983079 TCCCCCTCTT
* * **
983089 CTTTGTCCTTAAAGAGCATGACACATTTCATTTCCTTCTTTTCC
1 CTTTGTCCTCAAAGAGCAGGATGCATTTCATTTCCTT-TTTT-C
* * * **
983133 CTTTTTTCTTCAAAGAGCAGGATGTCTTTTTTTTTTTCCTTTTTTC
1 C-TTTGTCCTCAAAGAGCAGGATG-C--ATTTCATTTCCTTTTTTC
* * * *
983179 CTTTGTCCTCAAAAAGCAAGACGCACTTCATTTCCTTTTTTTCC
1 CTTTGTCCTCAAAGAGCAGGATGCATTTCATTTCC-TTTTTT-C
** * *
983223 CTTCTAGTTTTCAAAGAGCAAGATGCGCTTT-ATTAT-CTTTTTTC
1 CTT-T-GTCCTCAAAGAGCAGGATGC-ATTTCATT-TCCTTTTTTC
* * * *
983267 CTTTATCCTCAAAAAGCAGGATACATTTAATTTCC-TTTTTC
1 CTTTGTCCTCAAAGAGCAGGATGCATTTCATTTCCTTTTTTC
* * *
983308 CTTTGTCTTCAAAGTGCAGGATGCATTTTATTTCCTTTTTTC
1 CTTTGTCCTCAAAGAGCAGGATGCATTTCATTTCCTTTTTTC
* * * **
983350 TTTTATCCTCAAGGAGCAGGACCCATTTCATTCTCC--TTTTC
1 CTTTGTCCTCAAAGAGCAGGATGCATTTCATT-TCCTTTTTTC
** *
983391 CTTTGTCCTTTAAGAGTAGGATGC
1 CTTTGTCCTCAAAGAGCAGGATGC
983415 CTCTTTCCTT
Statistics
Matches: 215, Mismatches: 53, Indels: 31
0.72 0.18 0.10
Matches are distributed among these distances:
41 60 0.28
42 55 0.26
43 10 0.05
44 10 0.05
45 40 0.19
46 23 0.11
47 7 0.03
48 10 0.05
ACGTcount: A:0.21, C:0.23, G:0.12, T:0.45
Consensus pattern (42 bp):
CTTTGTCCTCAAAGAGCAGGATGCATTTCATTTCCTTTTTTC
Found at i:983348 original size:83 final size:85
Alignment explanation
Indices: 983089--983389 Score: 293
Period size: 83 Copynumber: 3.5 Consensus size: 85
983079 TCCCCCTCTT
* * * * *
983089 CTTTGTCCTTAAAGAGCATGACACATTTCATTTCCTTCTTTTCCCTTTTTTCTTCAAAGAGCAGG
1 CTTTATCCTCAAAAAGCAGGACACATTTCATTTCCTT-TTTTCCC-TTTGTCTTCAAAGAGCAGG
* *
983154 ATGTCTTTTTTTTTTTCCTTTTTTC
64 ATG-C--ATTTTATTTCCTTTTTTC
* * * * * *
983179 CTTTGTCCTCAAAAAGCAAGACGCACTTCATTTCCTTTTTTTCCCTTCTAGTTTTCAAAGAGCAA
1 CTTTATCCTCAAAAAGCAGGACACATTTCATTTCC-TTTTTTCCCTT-T-GTCTTCAAAGAGCAG
**
983244 GATGCGCTTTATTAT-CTTTTTTC
63 GATGCATTTTATT-TCCTTTTTTC
* * *
983267 CTTTATCCTCAAAAAGCAGGATACATTTAATTTCC-TTTTT-CCTTTGTCTTCAAAGTGCAGGAT
1 CTTTATCCTCAAAAAGCAGGACACATTTCATTTCCTTTTTTCCCTTTGTCTTCAAAGAGCAGGAT
983330 GCATTTTATTTCCTTTTTTC
66 GCATTTTATTTCCTTTTTTC
* ** *
983350 TTTTATCCTCAAGGAGCAGGACCCATTTCATTCTCCTTTT
1 CTTTATCCTCAAAAAGCAGGACACATTTCATT-TCCTTTT
983390 CCTTTGTCCT
Statistics
Matches: 176, Mismatches: 28, Indels: 19
0.79 0.13 0.09
Matches are distributed among these distances:
82 1 0.01
83 57 0.32
84 4 0.02
85 7 0.04
86 5 0.03
88 42 0.24
89 3 0.02
90 39 0.22
91 18 0.10
ACGTcount: A:0.21, C:0.23, G:0.11, T:0.46
Consensus pattern (85 bp):
CTTTATCCTCAAAAAGCAGGACACATTTCATTTCCTTTTTTCCCTTTGTCTTCAAAGAGCAGGAT
GCATTTTATTTCCTTTTTTC
Found at i:989343 original size:21 final size:21
Alignment explanation
Indices: 989284--989357 Score: 69
Period size: 21 Copynumber: 3.5 Consensus size: 21
989274 TAATATTCTT
** * *
989284 GAAAAGAAATTAAATGAATTA
1 GAAAAGAAAAGAAATGAGTTG
*
989305 GAGAAGAAAATG-AATGAGTTG
1 GAAAAGAAAA-GAAATGAGTTG
989326 GAAAAGAAAAGAAATGAGTTG
1 GAAAAGAAAAGAAATGAGTTG
*
989347 CAAAATGAAAA
1 GAAAA-GAAAA
989358 TCATGAGTTG
Statistics
Matches: 43, Mismatches: 7, Indels: 5
0.78 0.13 0.09
Matches are distributed among these distances:
20 1 0.02
21 37 0.86
22 5 0.12
ACGTcount: A:0.58, C:0.01, G:0.23, T:0.18
Consensus pattern (21 bp):
GAAAAGAAAAGAAATGAGTTG
Found at i:992479 original size:22 final size:22
Alignment explanation
Indices: 992453--992501 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
992443 TTCAGTATTG
**
992453 TTCATGTATTGATACATCACTA
1 TTCATGTATCAATACATCACTA
*
992475 TTCATGTATCAATACATCACTG
1 TTCATGTATCAATACATCACTA
992497 TTCAT
1 TTCAT
992502 CACTATACAT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.31, C:0.20, G:0.08, T:0.41
Consensus pattern (22 bp):
TTCATGTATCAATACATCACTA
Found at i:996622 original size:32 final size:32
Alignment explanation
Indices: 996580--996697 Score: 139
Period size: 32 Copynumber: 3.7 Consensus size: 32
996570 CATTAGGTTT
* *
996580 AGAAGGGTTGCCACCAACTCGTGTGGGCTTCAG
1 AGAA-GGTTGCCACCAACTTGTGTGGGCTTTAG
996613 AGAAGGTTGCCACCAACTTGTGTGGGCTTTAG
1 AGAAGGTTGCCACCAACTTGTGTGGGCTTTAG
* **
996645 A-AGGGTTGCCACTGACTTGTGTGGGCTTTAG
1 AGAAGGTTGCCACCAACTTGTGTGGGCTTTAG
* * **
996676 AAAAGGTTACCACTGACTTGTG
1 AGAAGGTTGCCACCAACTTGTG
996698 GGCTTTGAAA
Statistics
Matches: 77, Mismatches: 7, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
31 28 0.36
32 45 0.58
33 4 0.05
ACGTcount: A:0.22, C:0.19, G:0.31, T:0.27
Consensus pattern (32 bp):
AGAAGGTTGCCACCAACTTGTGTGGGCTTTAG
Found at i:996655 original size:31 final size:31
Alignment explanation
Indices: 996577--996677 Score: 148
Period size: 31 Copynumber: 3.2 Consensus size: 31
996567 CGACATTAGG
*
996577 TTTAGAAGGGTTGCCACCAACTCGTGTGGGC
1 TTTAGAAGGGTTGCCACCAACTTGTGTGGGC
* *
996608 TTCAGAGAAGGTTGCCACCAACTTGTGTGGGC
1 TTTAGA-AGGGTTGCCACCAACTTGTGTGGGC
**
996640 TTTAGAAGGGTTGCCACTGACTTGTGTGGGC
1 TTTAGAAGGGTTGCCACCAACTTGTGTGGGC
996671 TTTAGAA
1 TTTAGAA
996678 AAGGTTACCA
Statistics
Matches: 62, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
31 34 0.55
32 28 0.45
ACGTcount: A:0.21, C:0.19, G:0.32, T:0.29
Consensus pattern (31 bp):
TTTAGAAGGGTTGCCACCAACTTGTGTGGGC
Found at i:996779 original size:29 final size:28
Alignment explanation
Indices: 996601--997229 Score: 432
Period size: 28 Copynumber: 21.5 Consensus size: 28
996591 CACCAACTCG
* * *
996601 TGTGGGCTTCAGAGAAGGTTGCCACCAACTT
1 TGTGGGCTT-TGAAAAGG-TGCCACTAAC-T
* *
996632 GTGTGGGCTTT-AGAAGGGTTGCCACTGACTT
1 -TGTGGGCTTTGA-AAAGG-TGCCACTAAC-T
* *
996663 GTGTGGGCTTTAGAAAAGGTTACCACTGACT
1 -TGTGGGCTTT-GAAAAGG-TGCCACTAACT
* *
996694 TGTGGGCTTTGAAAAGATGCCATTGAA-T
1 TGTGGGCTTTGAAAAGGTGCCACT-AACT
* **
996722 TATGGGCTTTGAAAAGGTGCCACCGACT
1 TGTGGGCTTTGAAAAGGTGCCACTAACT
* *
996750 TATGGGCTTTGAAAAATGTGCCACTAACT
1 TGTGGGCTTTG-AAAAGGTGCCACTAACT
* * * *
996779 TTTGGGCTTTGAAAAAGGATGCCATTGATT
1 TGTGGGCTTTG-AAAAGG-TGCCACTAACT
*
996809 TGTGGGCTTTG-AAAGGATGCCACTGACT
1 TGTGGGCTTTGAAAAGG-TGCCACTAACT
* * * * *
996837 CGTGGGCCTTG-AAAGGGGTCACTGACT
1 TGTGGGCTTTGAAAAGGTGCCACTAACT
*
996864 TGTGGGCTTTG-AAAGGATGCCACTGACT
1 TGTGGGCTTTGAAAAGG-TGCCACTAACT
996892 TGTGGGCTTTG-AAAGGATGCCACTAACT
1 TGTGGGCTTTGAAAAGG-TGCCACTAACT
* *
996920 TGTGGGCTTT-AAAAGGGTGCTACTGACT
1 TGTGGGCTTTGAAAA-GGTGCCACTAACT
*
996948 TGTGGGCTTTTGAAAGGGTGCCACTAACT
1 TGTGGGC-TTTGAAAAGGTGCCACTAACT
* *
996977 TGTGGGCTTTTGAAAGGGTGCCCCTAACT
1 TGTGGGC-TTTGAAAAGGTGCCACTAACT
* * *
997006 TGTAGGCTTTTAAAAGGGTGCCACTAGCT
1 TGTGGGCTTTGAAAA-GGTGCCACTAACT
* * *
997035 CGTGGCCTTT-AAAAGGATGCCATTAACT
1 TGTGGGCTTTGAAAAGG-TGCCACTAACT
**
997063 TGTGGGCTTT-AAAAGGGTGCCACCGACT
1 TGTGGGCTTTGAAAA-GGTGCCACTAACT
* * *
997091 TGTGTGCTTTTGAAAAGATTAAAAGGATGCCATTGACT
1 TGTGGGC-TTT-----G---AAAAGG-TGCCACTAACT
*
997129 TATGGGCTTTGAAAAGGGTGCCACTAACT
1 TGTGGGCTTTGAAAA-GGTGCCACTAACT
* * *
997158 TGTGGGTTTTCAAAGGGTGCCACTAACT
1 TGTGGGCTTTGAAAAGGTGCCACTAACT
* *
997186 TATGGGCTTT-AAAAGGGTGCCACTCACT
1 TGTGGGCTTTGAAAA-GGTGCCACTAACT
*
997214 TGTGAGCTTTTGAAAA
1 TGTGGGC-TTTGAAAA
997230 AGGGTCGTAT
Statistics
Matches: 493, Mismatches: 74, Indels: 62
0.78 0.12 0.10
Matches are distributed among these distances:
27 29 0.06
28 215 0.44
29 137 0.28
30 38 0.08
31 26 0.05
32 24 0.05
33 1 0.00
37 5 0.01
38 18 0.04
ACGTcount: A:0.24, C:0.17, G:0.29, T:0.30
Consensus pattern (28 bp):
TGTGGGCTTTGAAAAGGTGCCACTAACT
Found at i:996785 original size:57 final size:57
Alignment explanation
Indices: 996633--997229 Score: 459
Period size: 57 Copynumber: 10.3 Consensus size: 57
996623 CACCAACTTG
* * * *
996633 TGTGGGCTTT-AGAAGGGTTGCCACTGACTTGTGTGGGCTTTAGAAAAGGTTACCACTGACT
1 TGTGGGCTTTGA-AAAGGATGCCACTAAC-T-TGTGGGCTTT-GAAAAGG-TGCCACTGACT
* * *
996694 TGTGGGCTTTGAAAA-GATGCCATTGAA-TTATGGGCTTTGAAAAGGTGCCACCGACT
1 TGTGGGCTTTGAAAAGGATGCCACT-AACTTGTGGGCTTTGAAAAGGTGCCACTGACT
* * * * *
996750 TATGGGCTTTGAAAAATG-TGCCACTAACTTTTGGGCTTTGAAAAAGGATGCCATTGATT
1 TGTGGGCTTTG-AAAAGGATGCCACTAACTTGTGGGCTTTG-AAAAGG-TGCCACTGACT
* * * * *
996809 TGTGGGCTTTG-AAAGGATGCCACTGACTCGTGGGCCTTG-AAAGGGGTCACTGACT
1 TGTGGGCTTTGAAAAGGATGCCACTAACTTGTGGGCTTTGAAAAGGTGCCACTGACT
* *
996864 TGTGGGCTTTG-AAAGGATGCCACTGACTTGTGGGCTTTG-AAAGGATGCCACTAACT
1 TGTGGGCTTTGAAAAGGATGCCACTAACTTGTGGGCTTTGAAAAGG-TGCCACTGACT
* * * * *
996920 TGTGGGCTTT-AAAAGGGTGCTACTGACTTGTGGGCTTTTGAAAGGGTGCCACTAACT
1 TGTGGGCTTTGAAAAGGATGCCACTAACTTGTGGGC-TTTGAAAAGGTGCCACTGACT
* * * *
996977 TGTGGGCTTTTG-AAAGGGTGCCCCTAACTTGTAGGCTTTTAAAAGGGTGCCACT-AGCT
1 TGTGGGC-TTTGAAAAGGATGCCACTAACTTGTGGGCTTTGAAAA-GGTGCCACTGA-CT
* * * *
997035 CGTGGCCTTT-AAAAGGATGCCATTAACTTGTGGGCTTT-AAAAGGGTGCCACCGACT
1 TGTGGGCTTTGAAAAGGATGCCACTAACTTGTGGGCTTTGAAAA-GGTGCCACTGACT
* * * * *
997091 TGTGTGCTTTTGAAAAGATTAAAAGGATGCCATTGACTTATGGGCTTTGAAAAGGGTGCCACTAA
1 TGTGGGC-TTT-----G---AAAAGGATGCCACTAACTTGTGGGCTTTGAAAA-GGTGCCACTGA
997156 CT
56 CT
** * * *
997158 TGTGGG-TTTTCAAAGGGTGCCACTAACTTATGGGCTTT-AAAAGGGTGCCACTCACT
1 TGTGGGCTTTGAAAAGGATGCCACTAACTTGTGGGCTTTGAAAA-GGTGCCACTGACT
*
997214 TGTGAGCTTTTGAAAA
1 TGTGGGC-TTTGAAAA
997230 AGGGTCGTAT
Statistics
Matches: 444, Mismatches: 61, Indels: 65
0.78 0.11 0.11
Matches are distributed among these distances:
55 49 0.11
56 107 0.24
57 115 0.26
58 83 0.19
59 19 0.04
60 7 0.02
61 13 0.03
62 1 0.00
65 3 0.01
66 26 0.06
67 21 0.05
ACGTcount: A:0.24, C:0.17, G:0.29, T:0.30
Consensus pattern (57 bp):
TGTGGGCTTTGAAAAGGATGCCACTAACTTGTGGGCTTTGAAAAGGTGCCACTGACT
Found at i:997122 original size:38 final size:37
Alignment explanation
Indices: 997071--997144 Score: 94
Period size: 38 Copynumber: 2.0 Consensus size: 37
997061 CTTGTGGGCT
* * *
997071 TTAAAAGGGTGCCACCGACTTGTGTGCTTTTGAAAAGA
1 TTAAAAGGATGCCACCGACTTATGGGC-TTTGAAAAGA
**
997109 TTAAAAGGATGCCATTGACTTATGGGCTTTGAAAAG
1 TTAAAAGGATGCCACCGACTTATGGGCTTTGAAAAG
997145 GGTGCCACTA
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
37 9 0.29
38 22 0.71
ACGTcount: A:0.31, C:0.14, G:0.26, T:0.30
Consensus pattern (37 bp):
TTAAAAGGATGCCACCGACTTATGGGCTTTGAAAAGA
Found at i:1002808 original size:42 final size:40
Alignment explanation
Indices: 1002689--1002810 Score: 104
Period size: 41 Copynumber: 3.0 Consensus size: 40
1002679 AAGATAAGAG
* * *
1002689 ATTTACTTGGGACTAAGCCGACAAGTAAACGAGAATAAAA
1 ATTTACCTGGGACTAAGCCGACAAGTAAACAAGGATAAAA
* * * **
1002729 AGTTGACC-GAGACTGAA-CCGACGAGTTGACAAAGGATAAAA
1 A-TTTACCTGGGACT-AAGCCGACAAGTAAAC-AAGGATAAAA
*
1002770 TATTTACCTGGGACTAAGCCGACAAGTAAATAAGGGATAAA
1 -ATTTACCTGGGACTAAGCCGACAAGTAAACAA-GGATAAA
1002811 TAGTTGATCA
Statistics
Matches: 61, Mismatches: 14, Indels: 12
0.70 0.16 0.14
Matches are distributed among these distances:
40 16 0.26
41 23 0.38
42 22 0.36
ACGTcount: A:0.43, C:0.16, G:0.23, T:0.19
Consensus pattern (40 bp):
ATTTACCTGGGACTAAGCCGACAAGTAAACAAGGATAAAA
Found at i:1003260 original size:48 final size:49
Alignment explanation
Indices: 1003173--1003283 Score: 154
Period size: 48 Copynumber: 2.3 Consensus size: 49
1003163 GACTAATGTC
* * *
1003173 AATATAGTCAAAC-AATGGTGAAAAAGAGTTTGACTAGGTCTTAATCCT
1 AATATAGTCAAACAAATGGTGAAAAAGAGTTCGACCAGGTCCTAATCCT
* *
1003221 AATACAGTCAAACAAATGGTGAAAAA-AGTTCGACCAGGTCCTAATGCT
1 AATATAGTCAAACAAATGGTGAAAAAGAGTTCGACCAGGTCCTAATCCT
*
1003269 AATATGGTCAAACAA
1 AATATAGTCAAACAA
1003284 GGATAAAAGA
Statistics
Matches: 55, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
48 43 0.78
49 12 0.22
ACGTcount: A:0.42, C:0.15, G:0.18, T:0.24
Consensus pattern (49 bp):
AATATAGTCAAACAAATGGTGAAAAAGAGTTCGACCAGGTCCTAATCCT
Found at i:1003324 original size:46 final size:45
Alignment explanation
Indices: 1003194--1003563 Score: 153
Period size: 46 Copynumber: 8.0 Consensus size: 45
1003184 ACAATGGTGA
* * *
1003194 AAAAGAGTTTGACTAGGTCTTAAT-CCTAATACAGTCAAACAAATGG-T
1 AAAAGAGTTTGAC-AAGTCCTAATGCC-AATACGGTCAAAC-AA-GGAT
* * * * *
1003241 GAAAAAAGTTCGACCAGGTCCTAATGCTAATATGGTCAAACAAGGAT
1 -AAAAGAGTTTGA-CAAGTCCTAATGCCAATACGGTCAAACAAGGAT
* * * *
1003288 AAAAGAGTTTGACAAAGTCCTAATGCCACTACGGTCAAATAA-AAG
1 AAAAGAGTTTGAC-AAGTCCTAATGCCAATACGGTCAAACAAGGAT
* * ** ** *
1003333 AAAAGATTTTGACCAGGACTAATAACAATACAGTCAAACAAGG-T
1 AAAAGAGTTTGACAAGTCCTAATGCCAATACGGTCAAACAAGGAT
* * ** * ** *
1003377 GAAAAGAGTTTGACCAGGTCCTAATACCAATATTGTGAAATGAGAAT
1 -AAAAGAGTTTGA-CAAGTCCTAATGCCAATACGGTCAAACAAGGAT
* * * * * * * *
1003424 GAAAAAGAAAGTTTGACCAGGTCCTGACGCCAAGACAGTCAAGCAA-AAG
1 --AAAAG--AGTTTGA-CAAGTCCTAATGCCAATACGGTCAAACAAGGAT
* * * *
1003473 AAAAGATTTTGACCAAG-ACTAATGCTAATACAGTCAAACAAGG-T
1 AAAAGAGTTTGA-CAAGTCCTAATGCCAATACGGTCAAACAAGGAT
* * *
1003517 GAAAAGAGTTTGACCAAGTCCTGATGCCGATAC-GTCAAATAAGGAT
1 -AAAAGAGTTTGA-CAAGTCCTAATGCCAATACGGTCAAACAAGGAT
1003563 A
1 A
1003564 TGTACATTCC
Statistics
Matches: 241, Mismatches: 66, Indels: 33
0.71 0.19 0.10
Matches are distributed among these distances:
44 38 0.16
45 62 0.26
46 66 0.27
47 9 0.04
48 35 0.15
49 4 0.02
50 27 0.11
ACGTcount: A:0.42, C:0.16, G:0.20, T:0.21
Consensus pattern (45 bp):
AAAAGAGTTTGACAAGTCCTAATGCCAATACGGTCAAACAAGGAT
Found at i:1003472 original size:140 final size:136
Alignment explanation
Indices: 1003214--1003538 Score: 382
Period size: 140 Copynumber: 2.3 Consensus size: 136
1003204 GACTAGGTCT
* * * * *
1003214 TAATCCTAATACAGTCAAACAAATGGTGAAAAAAGTTCGACCAGGTCCTAATGCTAATATGGTCA
1 TAATACTAATACAGTCAAAC-AA-GGTGAAAAGAGTTTGACCAGGTCCTAATACCAATATGGTCA
* * ** * *
1003279 AACAAGGATAAAAGAGTTTGACAAAGTCCTAATGCCACTACGGTCAAATAAAAGAAAAGATTTTG
64 AACAAGAATAAAAGAGTTTGACAAAGTCCTAACGCCAAGACAGTCAAACAAAAGAAAAGATTTTG
*
1003344 ACCAGGAC
129 ACCAAGAC
* *
1003352 TAATAAC-AATACAGTCAAACAAGGTGAAAAGAGTTTGACCAGGTCCTAATACCAATATTGTGAA
1 TAAT-ACTAATACAGTCAAACAAGGTGAAAAGAGTTTGACCAGGTCCTAATACCAATATGGTCAA
** * * * *
1003416 ATGAGAATGAAAAAGAAAGTTTGACCAGGTCCTGACGCCAAGACAGTCAAGCAAAAGAAAAGATT
65 ACAAGAAT--AAAAG--AGTTTGACAAAGTCCTAACGCCAAGACAGTCAAACAAAAGAAAAGATT
1003481 TTGACCAAGAC
126 TTGACCAAGAC
* *
1003492 TAATGCTAATACAGTCAAACAAGGTGAAAAGAGTTTGACCAAGTCCT
1 TAATACTAATACAGTCAAACAAGGTGAAAAGAGTTTGACCAGGTCCT
1003539 GATGCCGATA
Statistics
Matches: 159, Mismatches: 22, Indels: 10
0.83 0.12 0.05
Matches are distributed among these distances:
136 41 0.26
137 2 0.01
138 22 0.14
139 2 0.01
140 92 0.58
ACGTcount: A:0.43, C:0.17, G:0.19, T:0.21
Consensus pattern (136 bp):
TAATACTAATACAGTCAAACAAGGTGAAAAGAGTTTGACCAGGTCCTAATACCAATATGGTCAAA
CAAGAATAAAAGAGTTTGACAAAGTCCTAACGCCAAGACAGTCAAACAAAAGAAAAGATTTTGAC
CAAGAC
Found at i:1006209 original size:52 final size:51
Alignment explanation
Indices: 1006146--1006591 Score: 342
Period size: 52 Copynumber: 8.5 Consensus size: 51
1006136 AAATAACGAG
* *
1006146 GTTGGAGTATCCTCGATTGTGAAAAATTGGTGTTTTTGGAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTATGAAAAATTGGTG-TTTTGGAAATAAAATCGGA
* * *
1006198 GTTGGAGTATCCCCGATTAAAGAAAAATTGGTGTTTTGAAAATAAAA-CCGA
1 GTTGGAGTATCCCCGATT-ATGAAAAATTGGTGTTTTGGAAATAAAATCGGA
* * * *
1006249 GGTTGGAGTATCCCCGATTGTGAAAAATTAGTGTTTTAGAAATAAAA-CTGGG
1 -GTTGGAGTATCCCCGATTATGAAAAATTGGTGTTTTGGAAATAAAATC-GGA
* * *** * * ** *
1006301 GTTGGAGTATCCCTGATTATGAGAAATCAATATTTTGGGAATAAAGCCGGG
1 GTTGGAGTATCCCCGATTATGAAAAATTGGTGTTTTGGAAATAAAATCGGA
**** * *** * * ***** *
1006352 GTTGGAGTATCCCCTCGGAGGTAACGGGGTTGGAGTATCCCCGATGAAATAAC-GA
1 GTTGGAGTATCCCCGATTATG-AA--AAATTGGTGTTTTGGAAAT-AAA-ATCGGA
*
1006407 GGTTGGAGTATCCTCGATTATGAAAAATTGGTGTTTTTGGAAATAAAATCGGA
1 -GTTGGAGTATCCCCGATTATGAAAAATTGGTG-TTTTGGAAATAAAATCGGA
* * * *
1006460 GTTGGAGTATCCCCGATTAAAGGAAAATTGGTGTTTTGAAAATAAAATCGGG
1 GTTGGAGTATCCCCGATT-ATGAAAAATTGGTGTTTTGGAAATAAAATCGGA
* *
1006512 GTTGGAGTATCCCCGATTAAAGAAAAATTGGTGTTTTGAAAATAAAATCGG-
1 GTTGGAGTATCCCCGATT-ATGAAAAATTGGTGTTTTGGAAATAAAATCGGA
* *
1006563 GATTGGAGTATCCCTGATTATGAACAATT
1 G-TTGGAGTATCCCCGATTATGAAAAATT
1006592 AAGAAACTTA
Statistics
Matches: 309, Mismatches: 71, Indels: 29
0.76 0.17 0.07
Matches are distributed among these distances:
51 91 0.29
52 153 0.50
53 34 0.11
54 9 0.03
55 6 0.02
56 16 0.05
ACGTcount: A:0.33, C:0.11, G:0.26, T:0.30
Consensus pattern (51 bp):
GTTGGAGTATCCCCGATTATGAAAAATTGGTGTTTTGGAAATAAAATCGGA
Found at i:1006404 original size:28 final size:28
Alignment explanation
Indices: 1006348--1006424 Score: 91
Period size: 28 Copynumber: 2.8 Consensus size: 28
1006338 GGAATAAAGC
*** **
1006348 CGGGGTTGGAGTATCCCCTCGGAGGTAA
1 CGGGGTTGGAGTATCCCCGATGAAATAA
1006376 CGGGGTTGGAGTATCCCCGATGAAATAA
1 CGGGGTTGGAGTATCCCCGATGAAATAA
* *
1006404 CGAGGTTGGAGTATCCTCGAT
1 CGGGGTTGGAGTATCCCCGAT
1006425 TATGAAAAAT
Statistics
Matches: 42, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 42 1.00
ACGTcount: A:0.22, C:0.19, G:0.35, T:0.23
Consensus pattern (28 bp):
CGGGGTTGGAGTATCCCCGATGAAATAA
Found at i:1006517 original size:262 final size:263
Alignment explanation
Indices: 1006038--1006585 Score: 940
Period size: 262 Copynumber: 2.1 Consensus size: 263
1006028 GAAATAACGA
* * *
1006038 GGTTGGGGTATCCCTAATTATGAGAAATCAATATTTTTGGAATAAAGCCGGAGTTGGAGTATCCC
1 GGTTGGAGTATCCCTGATTATGAGAAATCAATATTTTGGGAATAAAGCCGGAGTTGGAGTATCCC
* *
1006103 CTCGGAGGTAACGGGGTTGGAGTATCCCTGATGAAATAACGAGGTTGGAGTATCCTCGATTGTGA
66 CTCGGAGGTAACGGGGTTGGAGTATCCCCGATGAAATAACGAGGTTGGAGTATCCTCGATTATGA
1006168 AAAATTGGTGTTTTTGGAAATAAAATCGGAGTTGGAGTATCCCCGATTAAAGAAAAATTGGTGTT
131 AAAATTGGTGTTTTTGGAAATAAAATCGGAGTTGGAGTATCCCCGATTAAAGAAAAATTGGTGTT
**
1006233 TTGAAAATAAAACCGAGGTTGGAGTATCCCCGATT-GTGAAAAATTAGTGTTTT-AGAAATAAAA
196 TTGAAAATAAAACCGAGGTTGGAGTATCCCCGATTAAAGAAAAATTAGTGTTTTGA-AAATAAAA
1006296 -CTGG
260 TC-GG
*
1006300 GGTTGGAGTATCCCTGATTATGAGAAATCAATATTTTGGGAATAAAGCCGGGGTTGGAGTATCCC
1 GGTTGGAGTATCCCTGATTATGAGAAATCAATATTTTGGGAATAAAGCCGGAGTTGGAGTATCCC
1006365 CTCGGAGGTAACGGGGTTGGAGTATCCCCGATGAAATAACGAGGTTGGAGTATCCTCGATTATGA
66 CTCGGAGGTAACGGGGTTGGAGTATCCCCGATGAAATAACGAGGTTGGAGTATCCTCGATTATGA
*
1006430 AAAATTGGTGTTTTTGGAAATAAAATCGGAGTTGGAGTATCCCCGATTAAAGGAAAATTGGTGTT
131 AAAATTGGTGTTTTTGGAAATAAAATCGGAGTTGGAGTATCCCCGATTAAAGAAAAATTGGTGTT
* * *
1006495 TTGAAAATAAAATCGGGGTTGGAGTATCCCCGATTAAAGAAAAATTGGTGTTTTGAAAATAAAAT
196 TTGAAAATAAAACCGAGGTTGGAGTATCCCCGATTAAAGAAAAATTAGTGTTTTGAAAATAAAAT
1006560 CGG
261 CGG
*
1006563 GATTGGAGTATCCCTGATTATGA
1 GGTTGGAGTATCCCTGATTATGA
1006586 ACAATTAAGA
Statistics
Matches: 270, Mismatches: 13, Indels: 5
0.94 0.05 0.02
Matches are distributed among these distances:
262 221 0.82
263 47 0.17
264 2 0.01
ACGTcount: A:0.32, C:0.12, G:0.27, T:0.29
Consensus pattern (263 bp):
GGTTGGAGTATCCCTGATTATGAGAAATCAATATTTTGGGAATAAAGCCGGAGTTGGAGTATCCC
CTCGGAGGTAACGGGGTTGGAGTATCCCCGATGAAATAACGAGGTTGGAGTATCCTCGATTATGA
AAAATTGGTGTTTTTGGAAATAAAATCGGAGTTGGAGTATCCCCGATTAAAGAAAAATTGGTGTT
TTGAAAATAAAACCGAGGTTGGAGTATCCCCGATTAAAGAAAAATTAGTGTTTTGAAAATAAAAT
CGG
Found at i:1009164 original size:13 final size:14
Alignment explanation
Indices: 1009133--1009169 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 14
1009123 GACAAAAATA
1009133 TATT-TTTTTTAAT
1 TATTATTTTTTAAT
*
1009146 TTTTATTTTTT-AT
1 TATTATTTTTTAAT
1009159 TATTATTTTTT
1 TATTATTTTTT
1009170 TTTCCTTTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
13 15 0.71
14 6 0.29
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (14 bp):
TATTATTTTTTAAT
Found at i:1010111 original size:55 final size:55
Alignment explanation
Indices: 1009904--1010435 Score: 527
Period size: 55 Copynumber: 9.3 Consensus size: 55
1009894 AATAAAGTGT
* ***
1009904 GTCCTGCTCTTTGAGGACT-AAAAAGTGCCACCAACTCAAGTGGGCTTTGAAAAGGAAAGGC
1 GTCCTGCTCTTTGAGGACTGGAAAA-TGCCACCAACTTGTGTGGGCTTTG---A--AAA-GC
* ** *
1009965 GTCCTGCTCTTTGAGGACTAGAAGGTGCCACCAACTCGTGTGGGCTTTGCAAAGAGAAAGC
1 GTCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTT-----GA-AAAGC
* * *
1010026 ATCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGCGGGCTTTGAAAAAC
1 GTCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAAGC
*
1010081 GTCCTGCTCTTTGAGGACTGGAAAATGCCACCAA-TTGGTGTGGGCTTT-AAGAGGC
1 GTCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTT-GTGTGGGCTTTGAA-AAGC
* * * * *
1010136 GTTCTGCTTTTTGAGGACTGGAAAATTCCACCAACTCGTGTGGGCTTTGAAAGGC
1 GTCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAAGC
* * * *
1010191 GTCCTGCTCTTTGAGGACTGGGAAGTGCCACCAACTTGTATGGG-TTTTAAAAGGC
1 GTCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAA-GC
* *
1010246 GTCCTGCTCTTTGAGGACT-GAAAGGTGCCTCCAACTTGTGTGGGCTTTGAAAAGC
1 GTCCTGCTCTTTGAGGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTTGAAAAGC
* *
1010301 GCCCTACTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGAAAAAGGC
1 GTCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTT----G-AAAA-GC
* * *
1010362 GTCCCGCTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCCTT-AAAAGGC
1 GTCCTGCTCTTTGAGGACTGGAAAA-TGCCACCAACTTGTGTGGGCTTTGAAAA-GC
* *
1010418 ATCCTGCTTTTTGAGGAC
1 GTCCTGCTCTTTGAGGAC
1010436 AAAAAGGCGA
Statistics
Matches: 405, Mismatches: 45, Indels: 47
0.81 0.09 0.09
Matches are distributed among these distances:
54 13 0.03
55 212 0.52
56 38 0.09
59 1 0.00
60 4 0.01
61 107 0.26
62 28 0.07
63 1 0.00
66 1 0.00
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (55 bp):
GTCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAAGC
Found at i:1010252 original size:165 final size:166
Alignment explanation
Indices: 1009904--1010658 Score: 592
Period size: 165 Copynumber: 4.5 Consensus size: 166
1009894 AATAAAGTGT
* ***
1009904 GTCCTGCTCTTTGAGGACT-AAAAAGTGCCACCAACTCAAGTGGGCTTTGAAAAGGAAAGGCGTC
1 GTCCTGCTCTTTGAGGACTGAAAGA-TGCCACCAACTTGTGTGGGCTTT------GAAAGGCGTC
* ** *
1009968 CTGCTCTTTGAGGACTAGAAGGTGCCACCAACTCGTGTGGGCTTTGCAAAGAGAAAGCATCCTGC
59 CTGCTCTTTGAGGACTGGAAAATGCCACCAACTCGTGTGGGCTTTG-AAA-AG---GCGTCCTGC
* * * *
1010033 TCTTTGAGGACTGGAAAATGCCACCAACTTGTGCGGGCTTTGAAAA-AC
119 TCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGG-TTTTAAAAGGC
*
1010081 GTCCTGCTCTTTGAGGACTGGAAA-ATGCCACCAA-TTGGTGTGGGCTTT-AAGAGGCGTTCTGC
1 GTCCTGCTCTTTGAGGACT-GAAAGATGCCACCAACTT-GTGTGGGCTTTGAA-AGGCGTCCTGC
* *
1010143 TTTTTGAGGACTGGAAAATTCCACCAACTCGTGTGGGCTTTG-AAAGGCGTCCTGCTCTTTGAGG
63 TCTTTGAGGACTGGAAAATGCCACCAACTCGTGTGGGCTTTGAAAAGGCGTCCTGCTCTTTGAGG
* *
1010207 ACTGGGAAGTGCCACCAACTTGTATGGGTTTTAAAAGGC
128 ACTGGAAAGTGCCACCAACTTGTGTGGGTTTTAAAAGGC
* * * * *
1010246 GTCCTGCTCTTTGAGGACTGAAAGGTGCCTCCAACTTGTGTGGGCTTTGAAAAGCGCCCTACTCT
1 GTCCTGCTCTTTGAGGACTGAAAGATGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCT
* *
1010311 TTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGAAAAAGGCGTCCCGCTCTTTGA
66 TTGAGGACTGGAAAATGCCACCAACTCGTGTGGGCTTT----G-AAAAGGCGTCCTGCTCTTTGA
* **
1010376 GGACTAGAAAAGTGCCACCAACTTGTGTGGGCCTTAAAAGGC
126 GGACT-GGAAAGTGCCACCAACTTGTGTGGGTTTTAAAAGGC
* * * * * * * *
1010418 ATCCTGCTTTTTGAGGAC--AAA-AAG--GCGAA------T-GG---AGAGA-GCATCCTGCTCT
1 GTCCTGCTCTTTGAGGACTGAAAGATGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCT
* * *
1010467 TTGAGGACTAGG-AAGTGCCACCAACTTGTGTGGGCTTT-AAAAAGCGTCCTGCTCTTTGAGGAC
66 TTGAGGACT-GGAAAATGCCACCAACTCGTGTGGGCTTTGAAAAGGCGTCCTGCTCTTTGAGGAC
* * *
1010530 TGGAAAATGCCACCAACTTCTGTGGGCTTTAAAAGGAAAAGGC
130 TGGAAAGTGCCACCAACTTGTGTGGG-TTT-----TAAAAGGC
* *
1010573 GT-CTCACTCTTTGAGGACTAGAAA-AGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAATGGCA
1 GTCCT-GCTCTTTGAGGACT-GAAAGA-TGCCACCAACTTGTGTGGGCTTT-----GAAA-GGCG
1010636 TCCTGCTCTTTGAGGACT-GAAAA
57 TCCTGCTCTTTGAGGACTGGAAAA
1010659 GTGGAAGGAG
Statistics
Matches: 471, Mismatches: 60, Indels: 94
0.75 0.10 0.15
Matches are distributed among these distances:
149 22 0.05
150 25 0.05
154 2 0.00
155 19 0.04
156 43 0.09
157 5 0.01
158 4 0.01
159 1 0.00
160 2 0.00
161 4 0.01
164 11 0.02
165 125 0.27
166 4 0.01
167 4 0.01
168 4 0.01
169 4 0.01
170 5 0.01
171 71 0.15
172 47 0.10
176 5 0.01
177 39 0.08
178 22 0.05
179 3 0.01
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (166 bp):
GTCCTGCTCTTTGAGGACTGAAAGATGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCT
TTGAGGACTGGAAAATGCCACCAACTCGTGTGGGCTTTGAAAAGGCGTCCTGCTCTTTGAGGACT
GGAAAGTGCCACCAACTTGTGTGGGTTTTAAAAGGC
Found at i:1010524 original size:211 final size:211
Alignment explanation
Indices: 1010247--1010627 Score: 647
Period size: 211 Copynumber: 1.8 Consensus size: 211
1010237 TTAAAAGGCG
* *
1010247 TCCTGCTCTTTGAGGACTGAAAGGTGCCTCCAACTTGTGTGGGCTTTGAAAAGCGCCCTACTCTT
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGCGCCCTACTCTT
* * *
1010312 TGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGAAAAAGGCGTCCCGCTCTTTGAG
66 TGAGGACTGGAAAATGCCACCAACTTCTGTGGGCTTTAAAAGAAAAAGGCGTCCCACTCTTTGAG
1010377 GACTAGAAAAGTGCCACCAACTTGTGTGGGCCTTAAAAGGCATCCTGCTTTTTGAGGACAAAAAG
131 GACTAGAAAAGTGCCACCAACTTGTGTGGGCCTTAAAAGGCATCCTGCTTTTTGAGGACAAAAAG
1010442 GCGAATGGAGAGAGCA
196 GCGAATGGAGAGAGCA
* * *
1010458 TCCTGCTCTTTGAGGACTAGGAA-GTGCCACCAACTTGTGTGGGCTTTAAAAAGCGTCCTGCTCT
1 TCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGCGCCCTACTCT
* *
1010522 TTGAGGACTGGAAAATGCCACCAACTTCTGTGGGCTTTAAAAGGAAAAGGCGTCTCACTCTTTGA
65 TTGAGGACTGGAAAATGCCACCAACTTCTGTGGGCTTTAAAAGAAAAAGGCGTCCCACTCTTTGA
*
1010587 GGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGG
130 GGACTAGAAAAGTGCCACCAACTTGTGTGGGCCTTAAAAGG
1010628 AAATGGCATC
Statistics
Matches: 158, Mismatches: 11, Indels: 2
0.92 0.06 0.01
Matches are distributed among these distances:
211 155 0.98
212 3 0.02
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (211 bp):
TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGCGCCCTACTCTT
TGAGGACTGGAAAATGCCACCAACTTCTGTGGGCTTTAAAAGAAAAAGGCGTCCCACTCTTTGAG
GACTAGAAAAGTGCCACCAACTTGTGTGGGCCTTAAAAGGCATCCTGCTTTTTGAGGACAAAAAG
GCGAATGGAGAGAGCA
Found at i:1010542 original size:55 final size:56
Alignment explanation
Indices: 1010458--1010658 Score: 212
Period size: 55 Copynumber: 3.4 Consensus size: 56
1010448 GGAGAGAGCA
*
1010458 TCCTGCTCTTTGAGGACTAGG-AAGTGCCACCAACTTGTGTGGGCTTTAAAAA-GCG
1 TCCTGCTCTTTGAGGACT-GGAAAATGCCACCAACTTGTGTGGGCTTTAAAAAGGCG
*
1010513 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTCTGTGGGCTTTAAAAGGAAAAGGCG
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTT---A--AAAAGGCG
* * *
1010574 T-CTCACTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAATGGCA
1 TCCT-GCTCTTTGAGGACTGGAAAA-TGCCACCAACTTGTGTGGGCTTT--AA--AAA-GGCG
1010636 TCCTGCTCTTTGAGGACT-GAAAA
1 TCCTGCTCTTTGAGGACTGGAAAA
1010659 GTGGAAGGAG
Statistics
Matches: 126, Mismatches: 7, Indels: 20
0.82 0.05 0.13
Matches are distributed among these distances:
54 2 0.02
55 42 0.33
58 1 0.01
59 1 0.01
60 6 0.05
61 33 0.26
62 39 0.31
63 2 0.02
ACGTcount: A:0.27, C:0.21, G:0.25, T:0.26
Consensus pattern (56 bp):
TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAAAAGGCG
Found at i:1010622 original size:62 final size:62
Alignment explanation
Indices: 1010458--1010661 Score: 275
Period size: 62 Copynumber: 3.4 Consensus size: 62
1010448 GGAGAGAGCA
*
1010458 TCCTGCTCTTTGAGGACTAG-GAAGTGCCACCAACTTGTGTGGGCTTT---A--AAAA-GCG
1 TCCTGCTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCG
* *
1010513 TCCTGCTCTTTGAGGACTGGAAAA-TGCCACCAACTTCTGTGGGCTTTAAAAGGAAAAGGCG
1 TCCTGCTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCG
* * *
1010574 T-CTCACTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAATGGCA
1 TCCT-GCTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCG
1010636 TCCTGCTCTTTGAGGACT-GAAAAGTG
1 TCCTGCTCTTTGAGGACTAGAAAAGTG
1010662 GAAGGAGAAG
Statistics
Matches: 130, Mismatches: 9, Indels: 14
0.85 0.06 0.09
Matches are distributed among these distances:
55 41 0.32
56 2 0.02
58 1 0.01
60 6 0.05
61 30 0.23
62 48 0.37
63 2 0.02
ACGTcount: A:0.27, C:0.21, G:0.26, T:0.26
Consensus pattern (62 bp):
TCCTGCTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCG
Found at i:1014776 original size:13 final size:13
Alignment explanation
Indices: 1014758--1014782 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1014748 CAAAGATCAG
1014758 TGTATCGATACAA
1 TGTATCGATACAA
1014771 TGTATCGATACA
1 TGTATCGATACA
1014783 TTTGAGTAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1014865 original size:20 final size:19
Alignment explanation
Indices: 1014825--1014877 Score: 88
Period size: 20 Copynumber: 2.7 Consensus size: 19
1014815 TATCTTAAAT
1014825 TGTATCGATACAAAACTTA
1 TGTATCGATACAAAACTTA
*
1014844 TGTATCGATACAACACCTTA
1 TGTATCGATACAA-AACTTA
1014864 TGTATCGATACAAA
1 TGTATCGATACAAA
1014878 TCGTTGAAAT
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
19 14 0.44
20 18 0.56
ACGTcount: A:0.40, C:0.19, G:0.11, T:0.30
Consensus pattern (19 bp):
TGTATCGATACAAAACTTA
Found at i:1015567 original size:48 final size:48
Alignment explanation
Indices: 1015495--1015790 Score: 310
Period size: 48 Copynumber: 6.1 Consensus size: 48
1015485 AGTTAGACTT
* * * * * *
1015495 GAAGGTGACAATGTGCTGATTCAAGGCCGGCGACATTGGTCATAAAGA
1 GAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGA
* * * * *
1015543 CAAGGTGCCAATATACTGATTCAAGGCCAGTGATATTGGGCTTAAAGGT
1 GAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAA-GA
* * * *
1015592 GAA-GTACCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGA
1 GAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGA
* * *
1015639 TGAAGGTGCCAATATGCTGATTCAAGGCTAGCGATATTAGACTTAAAGGT
1 -GAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAA-GA
* *
1015689 GCCAAAGGCGTCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGA
1 G---AAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGA
* *
1015740 TGAA-GTGCCAATATGCTGATTCAAGGCCAGCTATATTGGGCTTAAA-A
1 -GAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGA
1015787 GAAG
1 GAAG
1015791 ACGCCACCAA
Statistics
Matches: 204, Mismatches: 35, Indels: 19
0.79 0.14 0.07
Matches are distributed among these distances:
46 3 0.01
47 2 0.01
48 113 0.55
49 42 0.21
50 1 0.00
51 1 0.00
52 42 0.21
ACGTcount: A:0.32, C:0.17, G:0.26, T:0.24
Consensus pattern (48 bp):
GAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGA
Found at i:1015941 original size:30 final size:29
Alignment explanation
Indices: 1015805--1015956 Score: 188
Period size: 28 Copynumber: 5.3 Consensus size: 29
1015795 CACCAACTTG
1015805 TGTGGGCTTTTGAAAGGTTTG-CA-TCAACT
1 TGTGGGCTTTTGAAAGG-TTGCCACT-AACT
* *
1015834 TGTGTGCTTTTG-AAGGTTGCCACTGACT
1 TGTGGGCTTTTGAAAGGTTGCCACTAACT
* * *
1015862 TGTGGGCTTTT-AGAGGTTGCTACTGACT
1 TGTGGGCTTTTGAAAGGTTGCCACTAACT
1015890 TGTGGGCTTTT-AAAGGTTGCCACTAACT
1 TGTGGGCTTTTGAAAGGTTGCCACTAACT
*
1015918 TGTGGGCTTTTGAAAAGGGTGCCACTAACT
1 TGTGGGCTTTTG-AAAGGTTGCCACTAACT
1015948 TGTGGGCTT
1 TGTGGGCTT
1015957 AAAAGGAAAA
Statistics
Matches: 109, Mismatches: 9, Indels: 9
0.86 0.07 0.07
Matches are distributed among these distances:
27 3 0.03
28 69 0.63
29 12 0.11
30 25 0.23
ACGTcount: A:0.18, C:0.16, G:0.30, T:0.37
Consensus pattern (29 bp):
TGTGGGCTTTTGAAAGGTTGCCACTAACT
Found at i:1015985 original size:34 final size:35
Alignment explanation
Indices: 1015947--1016021 Score: 116
Period size: 35 Copynumber: 2.2 Consensus size: 35
1015937 TGCCACTAAC
* *
1015947 TTGTGGGCTTA-AAAGGAAAAAGAGTGCTACGGAG
1 TTGTGGGCTTACAAAAGAAAAAGAGTGCCACGGAG
*
1015981 TTGTGAGCTTACAAAAGAAAAAGAGTGCCACGGAG
1 TTGTGGGCTTACAAAAGAAAAAGAGTGCCACGGAG
1016016 TTGTGG
1 TTGTGG
1016022 ACTTTGGAAA
Statistics
Matches: 36, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
34 10 0.28
35 26 0.72
ACGTcount: A:0.35, C:0.11, G:0.33, T:0.21
Consensus pattern (35 bp):
TTGTGGGCTTACAAAAGAAAAAGAGTGCCACGGAG
Found at i:1016048 original size:29 final size:29
Alignment explanation
Indices: 1015999--1016170 Score: 150
Period size: 29 Copynumber: 5.9 Consensus size: 29
1015989 TTACAAAAGA
* * *
1015999 AAAAGAGTGCCACGGAGTTGTGGACTTTGG
1 AAAAGA-TGCCACTGACTTGTGGGCTTTGG
* * *
1016029 AAAAGATGCCACCGATTTGTGGGCTTCGG
1 AAAAGATGCCACTGACTTGTGGGCTTTGG
* * * *
1016058 AAAAGGGTGCTACTGATTTGTAGGCTTT-G
1 AAAA-GATGCCACTGACTTGTGGGCTTTGG
* * * * *
1016087 -AAGGTTTCCACTGACTTGTGGACTTTGA
1 AAAAGATGCCACTGACTTGTGGGCTTTGG
* *
1016115 AAAAGATGCCAATGACTTGTGGGCTTTGA
1 AAAAGATGCCACTGACTTGTGGGCTTTGG
*
1016144 AAAAGAGGCCACTGACTTGTGGGCTTT
1 AAAAGATGCCACTGACTTGTGGGCTTT
1016171 TGAAGGGTGA
Statistics
Matches: 115, Mismatches: 24, Indels: 7
0.79 0.16 0.05
Matches are distributed among these distances:
27 17 0.15
28 2 0.02
29 72 0.63
30 24 0.21
ACGTcount: A:0.26, C:0.16, G:0.30, T:0.28
Consensus pattern (29 bp):
AAAAGATGCCACTGACTTGTGGGCTTTGG
Found at i:1016173 original size:86 final size:86
Alignment explanation
Indices: 1016016--1016176 Score: 216
Period size: 86 Copynumber: 1.9 Consensus size: 86
1016006 TGCCACGGAG
* * * * * * *
1016016 TTGTGGACTTTGGAAAAGATGCCACCGATTTGTGGGCTTCGGAAAAGGGTGCTACTGATTTGTAG
1 TTGTGGACTTTGAAAAAGATGCCAACGACTTGTGGGCTTCGAAAAAGAGTGCCACTGACTTGTAG
1016081 GCTTTGAAGGTTTCCACTGAC
66 GCTTTGAAGGTTTCCACTGAC
* * *
1016102 TTGTGGACTTTGAAAAAGATGCCAATGACTTGTGGGCTTTGAAAAAGAG-GCCACTGACTTGTGG
1 TTGTGGACTTTGAAAAAGATGCCAACGACTTGTGGGCTTCGAAAAAGAGTGCCACTGACTTGTAG
1016166 GCTTTTGAAGG
66 GC-TTTGAAGG
1016177 GTGAGGAATG
Statistics
Matches: 64, Mismatches: 10, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
85 14 0.22
86 50 0.78
ACGTcount: A:0.24, C:0.15, G:0.30, T:0.30
Consensus pattern (86 bp):
TTGTGGACTTTGAAAAAGATGCCAACGACTTGTGGGCTTCGAAAAAGAGTGCCACTGACTTGTAG
GCTTTGAAGGTTTCCACTGAC
Found at i:1017616 original size:1 final size:1
Alignment explanation
Indices: 1017612--1017683 Score: 63
Period size: 1 Copynumber: 72.0 Consensus size: 1
1017602 TTTGTTGTTG
* * * * * * * * *
1017612 TTTTTTTTCTATTTTTTTTGTTTTTTTTGTTTTGTTTTTTTTCTGTTTTTTTTATTTTTTATTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1017677 TTTTTTT
1 TTTTTTT
1017684 GCGGAGGATG
Statistics
Matches: 53, Mismatches: 18, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
1 53 1.00
ACGTcount: A:0.04, C:0.03, G:0.06, T:0.88
Consensus pattern (1 bp):
T
Found at i:1017639 original size:35 final size:34
Alignment explanation
Indices: 1017600--1017683 Score: 118
Period size: 34 Copynumber: 2.5 Consensus size: 34
1017590 ATCCGGACCC
*
1017600 TTTTTGTTGTTGTTTTTTTTCTATTTTTTTTGTTT
1 TTTTTGTT-TTGTTTTTTTTCTATTTTTTTTATTT
*
1017635 TTTTTGTTTTGTTTTTTTTCTGTTTTTTTTATTT
1 TTTTTGTTTTGTTTTTTTTCTATTTTTTTTATTT
*
1017669 TTTAT-TTTT-TTTTTT
1 TTTTTGTTTTGTTTTTT
1017684 GCGGAGGATG
Statistics
Matches: 46, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
32 6 0.13
33 4 0.09
34 28 0.61
35 8 0.17
ACGTcount: A:0.04, C:0.02, G:0.08, T:0.86
Consensus pattern (34 bp):
TTTTTGTTTTGTTTTTTTTCTATTTTTTTTATTT
Found at i:1031183 original size:52 final size:52
Alignment explanation
Indices: 1031042--1031163 Score: 217
Period size: 52 Copynumber: 2.3 Consensus size: 52
1031032 TGAAAATTCA
*
1031042 CCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGCAAGTTTG
1 CCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGCAAATTTG
* *
1031094 CTTGCATGTATCGATACATTTTATAGTGTATCGATACATCTGGGCAAATTTG
1 CCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGCAAATTTG
1031146 CCTGCATGTATCGATACA
1 CCTGCATGTATCGATACA
1031164 AAGATCAGTG
Statistics
Matches: 66, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
52 66 1.00
ACGTcount: A:0.26, C:0.19, G:0.20, T:0.35
Consensus pattern (52 bp):
CCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGCAAATTTG
Found at i:1031190 original size:13 final size:13
Alignment explanation
Indices: 1031172--1031196 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1031162 CAAAGATCAG
1031172 TGTATCGATACAA
1 TGTATCGATACAA
1031185 TGTATCGATACA
1 TGTATCGATACA
1031197 TTTGAGTAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1031276 original size:13 final size:13
Alignment explanation
Indices: 1031258--1031282 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1031248 ACAAAACTTA
1031258 TGTATCGATACAT
1 TGTATCGATACAT
1031271 TGTATCGATACA
1 TGTATCGATACA
1031283 ACACCTTATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1031277 original size:32 final size:33
Alignment explanation
Indices: 1031237--1031302 Score: 116
Period size: 33 Copynumber: 2.0 Consensus size: 33
1031227 AGTAGCTTAA
1031237 ATTGTATCGATACAA-AACTTATGTATCGATAC
1 ATTGTATCGATACAACAACTTATGTATCGATAC
*
1031269 ATTGTATCGATACAACACCTTATGTATCGATAC
1 ATTGTATCGATACAACAACTTATGTATCGATAC
1031302 A
1 A
1031303 AATCGTTGAA
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
32 15 0.47
33 17 0.53
ACGTcount: A:0.36, C:0.18, G:0.12, T:0.33
Consensus pattern (33 bp):
ATTGTATCGATACAACAACTTATGTATCGATAC
Found at i:1034326 original size:13 final size:13
Alignment explanation
Indices: 1034308--1034333 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1034298 CAATTTTTTG
1034308 TGTATCGATACAT
1 TGTATCGATACAT
1034321 TGTATCGATACAT
1 TGTATCGATACAT
1034334 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1035073 original size:21 final size:21
Alignment explanation
Indices: 1035032--1035075 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
1035022 CTCTCCTTTA
* *
1035032 TCTCCCCCGTTTATTAATAAT
1 TCTCCCCCGTTAATCAATAAT
1035053 TCTCCCCC-TTAATCAAGTAAT
1 TCTCCCCCGTTAATCAA-TAAT
1035074 TC
1 TC
1035076 ATATCAAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 6 0.30
21 14 0.70
ACGTcount: A:0.25, C:0.32, G:0.05, T:0.39
Consensus pattern (21 bp):
TCTCCCCCGTTAATCAATAAT
Found at i:1036897 original size:13 final size:13
Alignment explanation
Indices: 1036879--1036904 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1036869 ATAATCACCC
1036879 TGTATCGATACAA
1 TGTATCGATACAA
1036892 TGTATCGATACAA
1 TGTATCGATACAA
1036905 AGAAAAAATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1037120 original size:8 final size:8
Alignment explanation
Indices: 1037107--1037138 Score: 64
Period size: 8 Copynumber: 4.0 Consensus size: 8
1037097 CATCATTCAA
1037107 CACAAAAT
1 CACAAAAT
1037115 CACAAAAT
1 CACAAAAT
1037123 CACAAAAT
1 CACAAAAT
1037131 CACAAAAT
1 CACAAAAT
1037139 TTAATCAAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 24 1.00
ACGTcount: A:0.62, C:0.25, G:0.00, T:0.12
Consensus pattern (8 bp):
CACAAAAT
Found at i:1039012 original size:15 final size:15
Alignment explanation
Indices: 1038992--1039022 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
1038982 ATTTCGTTTG
*
1038992 GAGCTTCTTCATTTT
1 GAGCTTCCTCATTTT
1039007 GAGCTTCCTCATTTT
1 GAGCTTCCTCATTTT
1039022 G
1 G
1039023 GACATTTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.23, G:0.16, T:0.48
Consensus pattern (15 bp):
GAGCTTCCTCATTTT
Found at i:1040855 original size:21 final size:21
Alignment explanation
Indices: 1040826--1040870 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
1040816 AAGTTTTCAT
*
1040826 TTTTCTTAGCTAAC-TCATTA
1 TTTTCTTAGCCAACTTCATTA
*
1040846 TTTTCATTAGCCAACTTCTTTA
1 TTTTC-TTAGCCAACTTCATTA
1040868 TTT
1 TTT
1040871 CAACTTGCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 8 0.38
22 8 0.38
ACGTcount: A:0.22, C:0.20, G:0.04, T:0.53
Consensus pattern (21 bp):
TTTTCTTAGCCAACTTCATTA
Found at i:1043111 original size:13 final size:13
Alignment explanation
Indices: 1043093--1043118 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1043083 CAATTTTTTG
1043093 TGTATCGATACAT
1 TGTATCGATACAT
1043106 TGTATCGATACAT
1 TGTATCGATACAT
1043119 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1045477 original size:21 final size:21
Alignment explanation
Indices: 1045453--1045517 Score: 64
Period size: 21 Copynumber: 3.1 Consensus size: 21
1045443 AGCTAGTGTA
1045453 TTCTAATTTTTCTCTCTTTTC-
1 TTCT-ATTTTTCTCTCTTTTCT
1045474 TTCTA-TTTTCTCTTGCTTTTCT
1 TTCTATTTTTCTC-T-CTTTTCT
* *
1045496 TTCTCTTTTT-TCTCTCTTCT
1 TTCTATTTTTCTCTCTTTTCT
1045516 TT
1 TT
1045518 TTCCAGTAGC
Statistics
Matches: 38, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
19 7 0.18
20 10 0.26
21 11 0.29
22 6 0.16
23 4 0.11
ACGTcount: A:0.05, C:0.25, G:0.02, T:0.69
Consensus pattern (21 bp):
TTCTATTTTTCTCTCTTTTCT
Found at i:1045984 original size:20 final size:20
Alignment explanation
Indices: 1045959--1046031 Score: 137
Period size: 20 Copynumber: 3.6 Consensus size: 20
1045949 CTGCCAAGGA
1045959 AATGTATCGATACATTATTC
1 AATGTATCGATACATTATTC
1045979 AATGTATCGATACATTATTC
1 AATGTATCGATACATTATTC
1045999 AATGTATCGATACATTATTC
1 AATGTATCGATACATTATTC
*
1046019 AATGTATTGATAC
1 AATGTATCGATAC
1046032 GTTGTATCAA
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
20 52 1.00
ACGTcount: A:0.36, C:0.14, G:0.11, T:0.40
Consensus pattern (20 bp):
AATGTATCGATACATTATTC
Found at i:1047011 original size:20 final size:20
Alignment explanation
Indices: 1046966--1047011 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 20
1046956 GTTAACAACC
*
1046966 CATGATTCATGCATTTTAAG
1 CATGTTTCATGCATTTTAAG
1046986 CTATGTTTCATGCA-TTTACAG
1 C-ATGTTTCATGCATTTTA-AG
1047007 CATGT
1 CATGT
1047012 CCAGCACCTT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
20 9 0.39
21 14 0.61
ACGTcount: A:0.26, C:0.17, G:0.15, T:0.41
Consensus pattern (20 bp):
CATGTTTCATGCATTTTAAG
Found at i:1051461 original size:165 final size:164
Alignment explanation
Indices: 1051282--1051864 Score: 653
Period size: 162 Copynumber: 3.6 Consensus size: 164
1051272 AAATCCCCTC
* * *
1051282 ATTTTCAAAATACGGAGTTTTCT-CTTCCATAAATGTTTTCATGGGGATTTTCCTTGGTTTAAAA
1 ATTTTCGAAATACGGAGTTTTCTAC-TCCATAAATGTTTTCATGGGGATTTTTCTTGATTTAAAA
* *
1051346 TTTTTAAAATTCATCAAATATTATCATTTAATTCATAGTAAAT-AGTTTTTGAACAATTCATTCA
65 TTTTTAAAATTCATCAAATATTATTATTTAATTCATAGTAAATCAGTTTTT-AAAAATTCATTCA
1051410 TTTTCATGAGTTTTGAATTTTTTTTTGAAATTTCTCT
129 TTTTCATGAGTTTTGAA-TTTTTTTTGAAATTTCTCT
* * * * **
1051447 ATTTTCGAAATACGGGGTTTTCTACACCATAAATATTTTTGA-GGGGATTTTTCTTGATTTTTAA
1 ATTTTCGAAATACGGAGTTTTCTACTCCATAAAT-GTTTTCATGGGGATTTTTCTTGATTTAAAA
*
1051511 TTTTTAAAATTCATAAAATATTATTATTTAATTCATAGTAAATCAGTTTTTAAAAATTCATTCAT
65 TTTTTAAAATTCATCAAATATTATTATTTAATTCATAGTAAATCAGTTTTTAAAAATTCATTCAT
* *
1051576 TTTCA-GTAGTTTTG-ATTTTTTTT-AAATTTTTTT
130 TTTCATG-AGTTTTGAATTTTTTTTGAAATTTCTCT
** * **
1051609 ATTTTCGAAATACATAGTTTTCTACTCTATAAATGTTTT--TGCGGAGATTTTTCTTGATTTTTA
1 ATTTTCGAAATACGGAGTTTTCTACTCCATAAATGTTTTCATG-GG-GATTTTTCTTGATTTAAA
* * * * * * *
1051672 ATTTTTAAAATTTATCAAATATTGTTATTTAATTTATATTAAATCAATTTTCAAAAACTCATTCA
64 ATTTTTAAAATTCATCAAATATTATTATTTAATTCATAGTAAATCAGTTTTTAAAAATTCATTCA
* * * *
1051737 TTTTTATGAGTTTTGAATTTTTTATGAAATTTTTCC
129 TTTTCATGAGTTTTGAATTTTTTTTGAAATTTCTCT
* * * * * * * * *
1051773 ATTTCCTAAAAATC-GAGTTTTCTATTTCATAAATATTTTCAGGGGGATTGTTCTTGGTTTAAAA
1 ATTTTCGAAATA-CGGAGTTTTCTACTCCATAAATGTTTTCATGGGGATTTTTCTTGATTTAAAA
* * *
1051837 TTTTTAAAGTTCATCTAATATTGTTATT
65 TTTTTAAAATTCATCAAATATTATTATT
1051865 AAACTCCCAT
Statistics
Matches: 357, Mismatches: 48, Indels: 27
0.83 0.11 0.06
Matches are distributed among these distances:
160 1 0.00
161 6 0.02
162 124 0.35
163 17 0.05
164 79 0.22
165 116 0.32
166 14 0.04
ACGTcount: A:0.30, C:0.10, G:0.10, T:0.50
Consensus pattern (164 bp):
ATTTTCGAAATACGGAGTTTTCTACTCCATAAATGTTTTCATGGGGATTTTTCTTGATTTAAAAT
TTTTAAAATTCATCAAATATTATTATTTAATTCATAGTAAATCAGTTTTTAAAAATTCATTCATT
TTCATGAGTTTTGAATTTTTTTTGAAATTTCTCT
Found at i:1052242 original size:11 final size:11
Alignment explanation
Indices: 1052226--1052250 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
1052216 AACTTAGAAA
1052226 AAAAAACAGAG
1 AAAAAACAGAG
1052237 AAAAAACAGAG
1 AAAAAACAGAG
1052248 AAA
1 AAA
1052251 CTTATAAACT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.76, C:0.08, G:0.16, T:0.00
Consensus pattern (11 bp):
AAAAAACAGAG
Found at i:1058362 original size:13 final size:13
Alignment explanation
Indices: 1058344--1058368 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1058334 ATATTGCTTA
1058344 GTATCGATACATC
1 GTATCGATACATC
1058357 GTATCGATACAT
1 GTATCGATACAT
1058369 GTTCATAGTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.20, G:0.16, T:0.32
Consensus pattern (13 bp):
GTATCGATACATC
Found at i:1058380 original size:32 final size:33
Alignment explanation
Indices: 1058324--1058386 Score: 92
Period size: 32 Copynumber: 1.9 Consensus size: 33
1058314 ACACCCAGAT
* *
1058324 GTATTGATACATATTGCTTAGTATCGATACATC
1 GTATCGATACATATTGCATAGTATCGATACATC
*
1058357 GTATCGATACATGTT-CATAGTATCGATACA
1 GTATCGATACATATTGCATAGTATCGATACA
1058387 CCCTGAAAAG
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
32 14 0.52
33 13 0.48
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.37
Consensus pattern (33 bp):
GTATCGATACATATTGCATAGTATCGATACATC
Found at i:1058718 original size:29 final size:29
Alignment explanation
Indices: 1058667--1058725 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
1058657 AACAATAATA
1058667 ACCAACAAGAAACATCAAGAAATCCAAGC
1 ACCAACAAGAAACATCAAGAAATCCAAGC
1058696 ACCAACAAGAAACATCAAGAAATCCAAGC
1 ACCAACAAGAAACATCAAGAAATCCAAGC
1058725 A
1 A
1058726 TTCAAAGTTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.56, C:0.27, G:0.10, T:0.07
Consensus pattern (29 bp):
ACCAACAAGAAACATCAAGAAATCCAAGC
Found at i:1060212 original size:155 final size:153
Alignment explanation
Indices: 1059930--1060576 Score: 527
Period size: 155 Copynumber: 4.2 Consensus size: 153
1059920 GAATACCAGA
* * * *
1059930 TACTTTTACGTCAAAGGTATCCCCTAAGAGCATTTTTATAATTTCTCTAGAACTGAG-TCCTAAG
1 TACTTTTATGTCAAAGGTATCCCCTAAGAGCATTTTTGTAATTT-TATAGAACT-AGCTCCTAGG
* * * * *
1059994 TTATCACCGAGTTCGCTTTTATGCCGAAGGTGGGTATATACGG-TAGG-TTATCCCATTTAAAAT
64 TTGTCACAG-GTTCGCTTTTATGCCGAAGGT-GGAATTTA-GGATAGGTTTATCCCTTTTAAAAT
* * * *
1060057 CCTTGTTAAGTCTTTTAAGGGTATCAGG
126 CATTTTTAAGTCCTTTAAGGGTATCTGG
* *
1060085 TACTTTTATGTCAAAGGTATCCCCTAAGAGCATTTTTGTAATTTTATAAAACTAGCTCCCAGGTT
1 TACTTTTATGTCAAAGGTATCCCCTAAGAGCATTTTTGTAATTTTATAGAACTAGCTCCTAGGTT
* *
1060150 GTCATCAGGTCCACTTTTATGCCGAAGGTGAGAATTTAGGATAGGTTTATCCCTTTTAAAATCAT
66 GTCA-CAGGTTCGCTTTTATGCCGAAGGTG-GAATTTAGGATAGGTTTATCCCTTTTAAAATCAT
* *
1060215 TTTTAAGTCCTTTAGGGGCAT-TGAG
129 TTTTAAGTCCTTTAAGGGTATCTG-G
* * * * * *
1060240 TACTTCTATGTCGAAGGTATCCCCT-AG-GGATCTTTTCGTAATTTTTTAGAACCAACTCCTAGG
1 TACTTTTATGTCAAAGGTATCCCCTAAGAGCAT-TTTT-GTAATTTTATAGAACTAGCTCCTAGG
* * * * * *
1060303 TTGTCACCGGGTTTGCTTTTATGCCAAAGGTGGATATTTAGGATAGGTTCATCCATTTTAAAATT
64 TTGTCA-CAGGTTCGCTTTTATGCCGAAGGTGGA-ATTTAGGATAGGTTTATCCCTTTTAAAATC
*
1060368 GTTTTTAAGTCCTTTAAGGGTATCTGG
127 ATTTTTAAGTCCTTTAAGGGTATCTGG
* * ** ** * * * * ** ** * * **
1060395 TACTTCTACGTTGAAGGTATATCTTAGGGGCATCTTCATAATTTTCCAGAACCAACTATTAGGTT
1 TACTTTTATGTCAAAGGTATCCCCTAAGAGCATTTTTGTAATTTTATAGAACTAGCTCCTAGGTT
* * * * * * * *
1060460 GTCACTGGGTCTGTTTTTATGCTGAAAGTGGATATTTAGGATAGGTTCACCCCTTTTAAAATCCT
66 GTCACAGGTTC-GCTTTTATGCCGAAGGTGGA-ATTTAGGATAGGTTTATCCCTTTTAAAATCAT
* * *
1060525 TTTTAAGTCTTTTAAAGGCAT-TGGG
129 TTTTAAGTCCTTTAAGGGTATCT-GG
* * *
1060550 TACTTCTACGTCAGAGGTAT-CCCTAAG
1 TACTTTTATGTCAAAGGTATCCCCTAAG
1060577 GGGCATCTTC
Statistics
Matches: 405, Mismatches: 73, Indels: 29
0.80 0.14 0.06
Matches are distributed among these distances:
153 8 0.02
154 63 0.16
155 326 0.80
156 5 0.01
157 3 0.01
ACGTcount: A:0.26, C:0.17, G:0.20, T:0.38
Consensus pattern (153 bp):
TACTTTTATGTCAAAGGTATCCCCTAAGAGCATTTTTGTAATTTTATAGAACTAGCTCCTAGGTT
GTCACAGGTTCGCTTTTATGCCGAAGGTGGAATTTAGGATAGGTTTATCCCTTTTAAAATCATTT
TTAAGTCCTTTAAGGGTATCTGG
Found at i:1060579 original size:155 final size:154
Alignment explanation
Indices: 1060008--1060692 Score: 555
Period size: 155 Copynumber: 4.4 Consensus size: 154
1059998 CACCGAGTTC
* * * * * * *
1060008 GCTTTTATGCCGAAGGTGGGTATATACGG-TAGGTT-ATCCCATTTAAAATCCTTGTTAAGTCTT
1 GCTTTTATGCTGAAAGTGGATATTTA-GGATAGGTTCATCCCTTTTAAAATCCTTTTTAAGTCCT
* ** * * * * * * ** *
1060071 TTAAGGGTATCAGGTACTTTTATGTCAAAGGTATCCCCTAAGAGCATTTTTGTAATTTTAT-AAA
65 TTAAGGGCATTGGGTACTTCTACGTCGAAGGTAT-CCCTAGGGGCATCTTCATAATTTT-TCAGA
* * *** * *
1060135 ACTAGCTCCCAGGTTGTCA-TCAGGTCC
128 ACCAACTATTAGGTTGTCACT-GGGTCT
* * * * *
1060162 ACTTTTATGCCGAAGGTGAGA-ATTTAGGATAGGTTTATCCCTTTTAAAATCATTTTTAAGTCCT
1 GCTTTTATGCTGAAAGTG-GATATTTAGGATAGGTTCATCCCTTTTAAAATCCTTTTTAAGTCCT
* * * * *
1060226 TTAGGGGCATTGAGTACTTCTATGTCGAAGGTATCCCCTA-GGG-ATCTTTTCGTAATTTTTTAG
65 TTAAGGGCATTGGGTACTTCTACGTCGAAGGTAT-CCCTAGGGGCATC--TTCATAATTTTTCAG
** * *
1060289 AACCAACTCCTAGGTTGTCACCGGGTTT
127 AACCAACTATTAGGTTGTCACTGGGTCT
* * **
1060317 GCTTTTATGC-CAAAGGTGGATATTTAGGATAGGTTCATCCATTTTAAAATTGTTTTTAAGTCCT
1 GCTTTTATGCTGAAA-GTGGATATTTAGGATAGGTTCATCCCTTTTAAAATCCTTTTTAAGTCCT
* * * * *
1060381 TTAAGGGTATCT-GGTACTTCTACGTTGAAGGTATATCTTAGGGGCATCTTCATAATTTTCCAGA
65 TTAAGGGCAT-TGGGTACTTCTACGTCGAAGGTAT-CCCTAGGGGCATCTTCATAATTTTTCAGA
1060445 ACCAACTATTAGGTTGTCACTGGGTCT
128 ACCAACTATTAGGTTGTCACTGGGTCT
* * *
1060472 GTTTTTATGCTGAAAGTGGATATTTAGGATAGGTTCACCCCTTTTAAAATCCTTTTTAAGTCTTT
1 GCTTTTATGCTGAAAGTGGATATTTAGGATAGGTTCATCCCTTTTAAAATCCTTTTTAAGTCCTT
* *
1060537 TAAAGGCATTGGGTACTTCTACGTC-AGAGGTATCCCTAAGGGGCATCTTCATAATTTTTCAAAA
66 TAAGGGCATTGGGTACTTCTACGTCGA-AGGTATCCCT-AGGGGCATCTTCATAATTTTTCAGAA
* * * *
1060601 CCAACTTTTGGGTTGTCACTAGGTCC
129 CCAACTATTAGGTTGTCACTGGGTCT
* * * * * * * * * * *
1060627 ACTTTTATGCTGAAGGTGGGTATCTAGAATAGGTTTATCTCATCTATAAT-CTTTTTAAGTCTTT
1 GCTTTTATGCTGAAAGTGGATATTTAGGATAGGTTCATCCCTTTTAAAATCCTTTTTAAGTCCTT
1060691 TA
66 TA
1060693 GGTTTATCGG
Statistics
Matches: 438, Mismatches: 77, Indels: 32
0.80 0.14 0.06
Matches are distributed among these distances:
153 4 0.01
154 54 0.12
155 370 0.84
156 7 0.02
157 3 0.01
ACGTcount: A:0.25, C:0.17, G:0.20, T:0.38
Consensus pattern (154 bp):
GCTTTTATGCTGAAAGTGGATATTTAGGATAGGTTCATCCCTTTTAAAATCCTTTTTAAGTCCTT
TAAGGGCATTGGGTACTTCTACGTCGAAGGTATCCCTAGGGGCATCTTCATAATTTTTCAGAACC
AACTATTAGGTTGTCACTGGGTCT
Found at i:1060723 original size:310 final size:308
Alignment explanation
Indices: 1060164--1060723 Score: 650
Period size: 310 Copynumber: 1.8 Consensus size: 308
1060154 TCAGGTCCAC
* * *
1060164 TTTTATGCCGAAGGTGAGAATTTAGGATAGGTTTATCCCTTTTAAAATCATTTTTAAGTCCTTTA
1 TTTTATGCCGAAAGTGAGAATTTAGGATAGGTTCACCCCTTTTAAAATCATTTTTAAGTCCTTTA
** * * * *
1060229 GGGGCATTGAGTACTTCTATGTCGAAGGTATCCCCTAGGGATCTTTTCGTAATTTTTTAGAACCA
66 AAGGCATTGAGTACTTCTACGTCGAAGGTATCCCCTAGGGATC-TTTCATAATTTTTCAAAACCA
* *** * *
1060294 ACTCCTAGGTTGTCACCGGGTTTGCTTTTATGCCAAAGGTGGATATTTAGGATAGGTTCATCCAT
130 ACTCCTAGGTTGTCACCAGGTCCACTTTTATGCCAAAGGTGGATATCTAGAATAGGTTCATCCAT
* * * *
1060359 TTTAAAATTGTTTTTAAGTCCTTTAAGGGTATCTGGTACTTCTACGTTGAAGGTATATCTTAGGG
195 TCTAAAATTCTTTTTAAGTCCTTTAAGGGTATCGGGTAC-TCTACGTCGAAGGTATATCTTAGGG
1060424 GCATCTTCATAATTTTCCAGAACCAACTATTAGGTTGTCACTGGGTCTGT
259 GCATCTTCATAATTTTCCAGAACCAACTATTAGGTTGTCACTGGGTCTGT
* * *
1060474 TTTTATGCTGAAAGTG-GATATTTAGGATAGGTTCACCCCTTTTAAAATCCTTTTTAAGTCTTTT
1 TTTTATGCCGAAAGTGAGA-ATTTAGGATAGGTTCACCCCTTTTAAAATCATTTTTAAGTCCTTT
*
1060538 AAAGGCATTGGGTACTTCTACGTC-AGAGGTAT-CCCTAAGGGGCATC-TTCATAATTTTTCAAA
65 AAAGGCATTGAGTACTTCTACGTCGA-AGGTATCCCCT-A-GGG-ATCTTTCATAATTTTTCAAA
** * * ** * *
1060600 ACCAACTTTTGGGTTGTCACTAGGTCCACTTTTATGCTGAAGGTGGGTATCTAGAATAGGTTTAT
126 ACCAACTCCTAGGTTGTCACCAGGTCCACTTTTATGCCAAAGGTGGATATCTAGAATAGGTTCAT
* * *
1060665 CTCA-TCTATAA-TCTTTTTAAGT-CTTTTAGGTTTATCGGGATAC-CTACTTGTCGAAGGTA
191 C-CATTCTAAAATTCTTTTTAAGTCCTTTAAGG-GTATCGGG-TACTCTAC--GTCGAAGGTA
1060724 CACTAGAGAT
Statistics
Matches: 206, Mismatches: 34, Indels: 20
0.79 0.13 0.08
Matches are distributed among these distances:
308 11 0.05
309 23 0.11
310 164 0.80
311 5 0.02
312 3 0.01
ACGTcount: A:0.25, C:0.16, G:0.20, T:0.39
Consensus pattern (308 bp):
TTTTATGCCGAAAGTGAGAATTTAGGATAGGTTCACCCCTTTTAAAATCATTTTTAAGTCCTTTA
AAGGCATTGAGTACTTCTACGTCGAAGGTATCCCCTAGGGATCTTTCATAATTTTTCAAAACCAA
CTCCTAGGTTGTCACCAGGTCCACTTTTATGCCAAAGGTGGATATCTAGAATAGGTTCATCCATT
CTAAAATTCTTTTTAAGTCCTTTAAGGGTATCGGGTACTCTACGTCGAAGGTATATCTTAGGGGC
ATCTTCATAATTTTCCAGAACCAACTATTAGGTTGTCACTGGGTCTGT
Found at i:1061016 original size:164 final size:164
Alignment explanation
Indices: 1060730--1061025 Score: 457
Period size: 164 Copynumber: 1.8 Consensus size: 164
1060720 GGTACACTAG
* * * * *
1060730 AGATGCACATATAGGATAAATTCACTCTTTGCAACCATTTTCTATGTCCCTTAAAATCATTGGGC
1 AGATGCACATATAAGATAAATTCACTCTTTACAACCATTTTCAATGTCCCTTAAAATCACTGGGA
* * * *
1060795 GCTTTTGAGTTGATGGTAAACCTTAAGGATATGTTAGTCTTGTCTTCGAAGCCTAGTCCTAGGTA
66 ACTTCTGAGTTGATGGTAAACCTTAAGGATATGTTAGTCTTGCCTTCGAAGCCTAGTCCTAAGTA
1060860 ACTATCGAGTCCTAGGTCATCACTCTTACACCAA
131 ACTATCGAGTCCTAGGTCATCACTCTTACACCAA
* * *
1060894 AGATGCATATATAAGATATATTCACTCTTTACAACCATTTTCAATGTCCCTTAAGATCACTGGGA
1 AGATGCACATATAAGATAAATTCACTCTTTACAACCATTTTCAATGTCCCTTAAAATCACTGGGA
* * *
1060959 ACTTCTGAGTTGATGGTAAACCTTAGGGATATGTTAGTCTTGCCTTTGAATCCTAGTCCTAAGTA
66 ACTTCTGAGTTGATGGTAAACCTTAAGGATATGTTAGTCTTGCCTTCGAAGCCTAGTCCTAAGTA
1061024 AC
131 AC
1061026 CACAGGGTCC
Statistics
Matches: 117, Mismatches: 15, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
164 117 1.00
ACGTcount: A:0.28, C:0.20, G:0.17, T:0.34
Consensus pattern (164 bp):
AGATGCACATATAAGATAAATTCACTCTTTACAACCATTTTCAATGTCCCTTAAAATCACTGGGA
ACTTCTGAGTTGATGGTAAACCTTAAGGATATGTTAGTCTTGCCTTCGAAGCCTAGTCCTAAGTA
ACTATCGAGTCCTAGGTCATCACTCTTACACCAA
Found at i:1063324 original size:111 final size:112
Alignment explanation
Indices: 1063164--1063378 Score: 263
Period size: 111 Copynumber: 1.9 Consensus size: 112
1063154 ACATGAGGAT
* * * * *
1063164 TTGGTATCAATACCCAGGGTATGGTATTGATACCTAATGTGACTGTATCGATACA-ACCCTTGGC
1 TTGGTATCAACACCCAGGGTATCGTATTGATACCTAATATAACTATATCGATACATACCCTTGGC
**
1063228 A-TAGCTAAAATTTGATTTTTAGACAACAAGTATCAATACATGAAGGC
66 AGTAGCTAAAATTCAATTTTT-GACAACAAGTATCAATACATGAAGGC
* * * * * * **
1063275 TTGGTATCGACACCTAGGGTTTCGTATTGATACCTAGTATAATTATATCGATATATGGCCTTGGC
1 TTGGTATCAACACCCAGGGTATCGTATTGATACCTAATATAACTATATCGATACATACCCTTGGC
*
1063340 AGTAGCTAAAATTCAATTTTTTACAACAAGTATCAATAC
66 AGTAGCTAAAATTCAATTTTTGACAACAAGTATCAATAC
1063379 GTAAGTAATT
Statistics
Matches: 86, Mismatches: 16, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
111 44 0.51
112 25 0.29
113 17 0.20
ACGTcount: A:0.33, C:0.17, G:0.18, T:0.33
Consensus pattern (112 bp):
TTGGTATCAACACCCAGGGTATCGTATTGATACCTAATATAACTATATCGATACATACCCTTGGC
AGTAGCTAAAATTCAATTTTTGACAACAAGTATCAATACATGAAGGC
Found at i:1064116 original size:37 final size:37
Alignment explanation
Indices: 1064073--1064146 Score: 148
Period size: 37 Copynumber: 2.0 Consensus size: 37
1064063 GGGAGAAAGC
1064073 CAAGTTTACAACCATTGCTCCGAGTAAAAAGAGAAGT
1 CAAGTTTACAACCATTGCTCCGAGTAAAAAGAGAAGT
1064110 CAAGTTTACAACCATTGCTCCGAGTAAAAAGAGAAGT
1 CAAGTTTACAACCATTGCTCCGAGTAAAAAGAGAAGT
1064147 TCGAGTCCTT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.41, C:0.19, G:0.19, T:0.22
Consensus pattern (37 bp):
CAAGTTTACAACCATTGCTCCGAGTAAAAAGAGAAGT
Found at i:1067234 original size:20 final size:21
Alignment explanation
Indices: 1067209--1067247 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
1067199 TCTAACAGTT
1067209 CATGTT-CATGCATTTTAAGC
1 CATGTTCCATGCATTTTAAGC
1067229 CATGTTCCATGCATTTTAA
1 CATGTTCCATGCATTTTAA
1067248 CATGTCCAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.26, C:0.21, G:0.13, T:0.41
Consensus pattern (21 bp):
CATGTTCCATGCATTTTAAGC
Found at i:1070528 original size:80 final size:80
Alignment explanation
Indices: 1070311--1070565 Score: 250
Period size: 80 Copynumber: 3.2 Consensus size: 80
1070301 AGTGAAAATT
* * * * * ***
1070311 GGGTTAGAGTATCCCCTTT-GAGATGGTAGGG-TTAGAGTATCCCCAAAGATGTAAAA-TTCAAT
1 GGGTTGGAGTAT-CCCTTTAGAAATGGT-GGGACTAGAGCATCCCCTAAGATG-AAAATTTTGGT
*
1070373 GTTTTGGAAGTAAAAACA
63 GTTTTAGAAGTAAAAACA
** * * * * *
1070391 ACGTTGGAGTATCCCTTTAGAAATGGTGGGATTGGAGTATCTCCTGAGATGAAAATTTTGGTGTT
1 GGGTTGGAGTATCCCTTTAGAAATGGTGGGACTAGAGCATCCCCTAAGATGAAAATTTTGGTGTT
1070456 TTAGAAGTAAAAACA
66 TTAGAAGTAAAAACA
*
1070471 GGGTTGGAGTATCCC-TTCGTAAATGGTGGGACTAGAGCATCCCCTAAGATGAAAATTTTGGTGT
1 GGGTTGGAGTATCCCTTTAG-AAATGGTGGGACTAGAGCATCCCCTAAGATGAAAATTTTGGTGT
*
1070535 TTTCA-AAGTAAAAACG
65 TTT-AGAAGTAAAAACA
* *
1070551 GGGTTAGATTATCCC
1 GGGTTGGAGTATCCC
1070566 CTCAAAGATG
Statistics
Matches: 147, Mismatches: 23, Indels: 10
0.82 0.13 0.06
Matches are distributed among these distances:
79 16 0.11
80 130 0.88
81 1 0.01
ACGTcount: A:0.31, C:0.13, G:0.26, T:0.30
Consensus pattern (80 bp):
GGGTTGGAGTATCCCTTTAGAAATGGTGGGACTAGAGCATCCCCTAAGATGAAAATTTTGGTGTT
TTAGAAGTAAAAACA
Found at i:1070577 original size:80 final size:80
Alignment explanation
Indices: 1070311--1070595 Score: 249
Period size: 80 Copynumber: 3.6 Consensus size: 80
1070301 AGTGAAAATT
* * * * * ***
1070311 GGGTTAGAGTATCCCCTTTG-AGATGGTAGGG-TTAGAGTATCCCCAAAGATGTAAAA-TTCAAT
1 GGGTTAGAGTATCCCC-TCGAAAATGGT-GGGATTGGAGCATCCCCTAAGATG-AAAATTTTGGT
*
1070373 GTTTTGGAAGTAAAAACA
63 GTTTTAGAAGTAAAAACA
** * ** * * *
1070391 ACGTTGGAGTAT-CCCTTTAGAAATGGTGGGATTGGAGTATCTCCTGAGATGAAAATTTTGGTGT
1 GGGTTAGAGTATCCCCTCGA-AAATGGTGGGATTGGAGCATCCCCTAAGATGAAAATTTTGGTGT
1070455 TTTAGAAGTAAAAACA
65 TTTAGAAGTAAAAACA
* * * * *
1070471 GGGTTGGAGTATCCCTTCGTAAATGGTGGGACTAGAGCATCCCCTAAGATGAAAATTTTGGTGTT
1 GGGTTAGAGTATCCCCTCGAAAATGGTGGGATTGGAGCATCCCCTAAGATGAAAATTTTGGTGTT
*
1070536 TTCA-AAGTAAAAACG
66 TT-AGAAGTAAAAACA
* *
1070551 GGGTTAGATTATCCCCTC-AAAGATGGTGGGGTTGGAGCATCCCCT
1 GGGTTAGAGTATCCCCTCGAAA-ATGGTGGGATTGGAGCATCCCCT
1070596 CAAAAATGGT
Statistics
Matches: 166, Mismatches: 32, Indels: 14
0.78 0.15 0.07
Matches are distributed among these distances:
78 2 0.01
79 12 0.07
80 148 0.89
81 4 0.02
ACGTcount: A:0.30, C:0.14, G:0.27, T:0.29
Consensus pattern (80 bp):
GGGTTAGAGTATCCCCTCGAAAATGGTGGGATTGGAGCATCCCCTAAGATGAAAATTTTGGTGTT
TTAGAAGTAAAAACA
Found at i:1070583 original size:28 final size:28
Alignment explanation
Indices: 1070550--1070623 Score: 103
Period size: 28 Copynumber: 2.6 Consensus size: 28
1070540 AAGTAAAAAC
* * *
1070550 GGGGTTAGATTATCCCCTCAAAGATGGT
1 GGGGTTGGAATATCCCCTCAAAAATGGT
**
1070578 GGGGTTGGAGCATCCCCTCAAAAATGGT
1 GGGGTTGGAATATCCCCTCAAAAATGGT
1070606 GGGGTTGGAATATCCCCT
1 GGGGTTGGAATATCCCCT
1070624 TTTTGATGTT
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
28 40 1.00
ACGTcount: A:0.23, C:0.20, G:0.31, T:0.26
Consensus pattern (28 bp):
GGGGTTGGAATATCCCCTCAAAAATGGT
Found at i:1071237 original size:20 final size:21
Alignment explanation
Indices: 1071193--1071246 Score: 74
Period size: 20 Copynumber: 2.6 Consensus size: 21
1071183 TTCTACAATT
*
1071193 TGTATCGATACAAACAGTAAA
1 TGTATCGATACATACAGTAAA
* *
1071214 TGTAACGATACATA-AGTGAA
1 TGTATCGATACATACAGTAAA
1071234 TGTATCGATACAT
1 TGTATCGATACAT
1071247 GTCTGAAATG
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
20 17 0.59
21 12 0.41
ACGTcount: A:0.43, C:0.13, G:0.17, T:0.28
Consensus pattern (21 bp):
TGTATCGATACATACAGTAAA
Found at i:1073955 original size:98 final size:98
Alignment explanation
Indices: 1073753--1073968 Score: 283
Period size: 98 Copynumber: 2.2 Consensus size: 98
1073743 TTTCCTTCAT
* * * * *
1073753 TGGGGATACTCCAACCTCATTTTTTTGAGGGGATACTCCAACCCCGTTTTTATAAATTATCAAGA
1 TGGGGATACTCCAACCCCATTATTCTGAGAGGATACTCCAACCCCATTTTTATAAATTATCAAGA
*
1073818 TTTTAAAGCTTAATTTTGCTTCAATTATCATCA
66 TTTTAAAGCTTAATTTTGCTTAAATTATCATCA
* * *
1073851 TTGGGATACTCTAACCCCATTATTCTGAGAGGATATTCCAACCCCATTTTTA-AAACTTATCAAG
1 TGGGGATACTCCAACCCCATTATTCTGAGAGGATACTCCAACCCCATTTTTATAAA-TTATCAAG
** * *
1073915 A-TTTAATTCTTATTTTTGCTTAAATTGTCATCA
65 ATTTTAAAGCTTAATTTTGCTTAAATTATCATCA
1073948 TCGGGGATACTCCAACCCCAT
1 T-GGGGATACTCCAACCCCAT
1073969 GCCTCCGAAG
Statistics
Matches: 101, Mismatches: 15, Indels: 4
0.84 0.12 0.03
Matches are distributed among these distances:
97 31 0.31
98 70 0.69
ACGTcount: A:0.29, C:0.21, G:0.12, T:0.38
Consensus pattern (98 bp):
TGGGGATACTCCAACCCCATTATTCTGAGAGGATACTCCAACCCCATTTTTATAAATTATCAAGA
TTTTAAAGCTTAATTTTGCTTAAATTATCATCA
Found at i:1079355 original size:19 final size:19
Alignment explanation
Indices: 1079312--1079385 Score: 96
Period size: 20 Copynumber: 3.8 Consensus size: 19
1079302 TACACACAGA
* *
1079312 TGTATCGATACATTATGCTT
1 TGTATCGATACATGAT-CAT
1079332 TGTATCGATACATGATCAT
1 TGTATCGATACATGATCAT
1079351 TGTATCGATACATGGA-CAAT
1 TGTATCGATACAT-GATC-AT
1079371 TGTATCGATACATGA
1 TGTATCGATACATGA
1079386 AACTGGCAGT
Statistics
Matches: 50, Mismatches: 2, Indels: 5
0.88 0.04 0.09
Matches are distributed among these distances:
19 18 0.36
20 32 0.64
ACGTcount: A:0.31, C:0.15, G:0.18, T:0.36
Consensus pattern (19 bp):
TGTATCGATACATGATCAT
Found at i:1079438 original size:20 final size:20
Alignment explanation
Indices: 1079413--1079466 Score: 74
Period size: 20 Copynumber: 2.7 Consensus size: 20
1079403 CTACCACTGT
1079413 TTGTATCGATACAT-AGCACA
1 TTGTATCGATACATGAGCA-A
**
1079433 TTGTATCGATACATGATTAA
1 TTGTATCGATACATGAGCAA
1079453 TTGTATCGATACAT
1 TTGTATCGATACAT
1079467 TGCTTGTAAC
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
20 29 0.94
21 2 0.06
ACGTcount: A:0.33, C:0.15, G:0.15, T:0.37
Consensus pattern (20 bp):
TTGTATCGATACATGAGCAA
Found at i:1083409 original size:79 final size:78
Alignment explanation
Indices: 1083252--1083474 Score: 241
Period size: 79 Copynumber: 2.8 Consensus size: 78
1083242 TGAGAAATTT
* * * * ** *
1083252 AATATTTTGGAGATAATAACGGGGTTGGAGTATCCCCTTGAAAATAATAGGGTTAGAGTATCCCC
1 AATATTTAGGAAATAA-AGCGGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCC
** *
1083317 GGTTGTGAAAAATC
65 AATTATGAAAAATC
* * *
1083331 GATGA-TTAGGAAATAAAATCGGGATTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCC
1 AAT-ATTTAGGAAAT-AAAGCGGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCC
*
1083395 CAATTATGAGAAATC
64 CAATTATGAAAAATC
* * **
1083410 AATATTTTGGAAATAAAGCGGAGGTTGGAGTATCCCCTCGGAGGTAACGGGGTTGGAGTATCCCC
1 AATATTTAGGAAATAAAGCGG-GGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCC
1083475 GATGAAATAA
Statistics
Matches: 120, Mismatches: 20, Indels: 8
0.81 0.14 0.05
Matches are distributed among these distances:
78 7 0.06
79 110 0.92
80 3 0.03
ACGTcount: A:0.32, C:0.15, G:0.27, T:0.26
Consensus pattern (78 bp):
AATATTTAGGAAATAAAGCGGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCA
ATTATGAAAAATC
Found at i:1083484 original size:107 final size:107
Alignment explanation
Indices: 1083350--1083553 Score: 263
Period size: 107 Copynumber: 1.9 Consensus size: 107
1083340 GAAATAAAAT
* *
1083350 CGGGATTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCAATTATGAGAAA-TCAATA
1 CGGGATTGGAGTATCCCCTCGAAAATAACGAGGTTGGAGTATCCCCAATTATGAAAAACT-AATA
*
1083414 TTTTGGAAAT-AAAGCGGAGGTTGGAGTATCCCCTCGGAGGTAA
65 TTTTGGAAATAAAAGCGGA-GTTGGAATATCCCCTCGGAGGTAA
* * * * *
1083457 CGGGGTTGGAGTAT-CCC-CGATGAAATAACGAGGTTGGAGTATCCTCGATTGTGAAAAACTAGT
1 CGGGATTGGAGTATCCCCTCGA--AAATAACGAGGTTGGAGTATCCCCAATTATGAAAAACTAAT
*
1083520 ATTTTGGAAATAAAATCGGAGTTGGAATATCCCC
64 ATTTTGGAAATAAAAGCGGAGTTGGAATATCCCC
1083554 AATTGTGGAG
Statistics
Matches: 84, Mismatches: 9, Indels: 8
0.83 0.09 0.08
Matches are distributed among these distances:
105 3 0.04
106 3 0.04
107 70 0.83
108 8 0.10
ACGTcount: A:0.31, C:0.16, G:0.27, T:0.25
Consensus pattern (107 bp):
CGGGATTGGAGTATCCCCTCGAAAATAACGAGGTTGGAGTATCCCCAATTATGAAAAACTAATAT
TTTGGAAATAAAAGCGGAGTTGGAATATCCCCTCGGAGGTAA
Found at i:1083699 original size:28 final size:27
Alignment explanation
Indices: 1083668--1083739 Score: 81
Period size: 27 Copynumber: 2.6 Consensus size: 27
1083658 AATAAAATCG
1083668 GGGGTTTGAGTATCCCCTCAAAAATAAC
1 GGGGTTTGAGTATCCCC-CAAAAATAAC
* * ** *
1083696 GGGGTTGGAGTATCCCCGATGATTAAC
1 GGGGTTTGAGTATCCCCCAAAAATAAC
*
1083723 GGGGGTTGAGTATCCCC
1 GGGGTTTGAGTATCCCC
1083740 GATTGTGAAA
Statistics
Matches: 37, Mismatches: 7, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
27 21 0.57
28 16 0.43
ACGTcount: A:0.24, C:0.21, G:0.31, T:0.25
Consensus pattern (27 bp):
GGGGTTTGAGTATCCCCCAAAAATAAC
Found at i:1083703 original size:80 final size:79
Alignment explanation
Indices: 1083540--1083715 Score: 235
Period size: 80 Copynumber: 2.2 Consensus size: 79
1083530 TAAAATCGGA
* * * * * *
1083540 GTTGGAATATCCCCAATTGTGGAGAATTGGTGTTTTAGAAATAAAACCAGGGTTCGAGTATCCCC
1 GTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCAGGGTTCGAGTATCCCC
* * *
1083605 TCGAGAATAATGGG
66 TCAAAAATAACGGG
** *
1083619 GTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAATCGGGGGTTTGAGTATCCC
1 GTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAA-CCAGGGTTCGAGTATCCC
1083684 CTCAAAAATAACGGG
65 CTCAAAAATAACGGG
1083699 GTTGGAGTATCCCCGAT
1 GTTGGAGTATCCCCGAT
1083716 GATTAACGGG
Statistics
Matches: 84, Mismatches: 12, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
79 40 0.48
80 44 0.52
ACGTcount: A:0.31, C:0.15, G:0.26, T:0.28
Consensus pattern (79 bp):
GTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCAGGGTTCGAGTATCCCC
TCAAAAATAACGGG
Found at i:1083872 original size:51 final size:50
Alignment explanation
Indices: 1083726--1083909 Score: 178
Period size: 51 Copynumber: 3.6 Consensus size: 50
1083716 GATTAACGGG
** * *
1083726 GGTT-GAGTATCCCCGATTGTGAAAAATTGGTGTTTTTGGAAATAAAATCG-
1 GGTTGGAGTATCCCTAATTATGAAAAATTGGTG-TTTT-GAAATAAAACCGA
* *
1083776 GAGTTGGAGTAT-CCTCAATTAAAGGAAAATTGGTGTTTTGAAAATAAAACCGA
1 G-GTTGGAGTATCCCT-AATT-ATGAAAAATTGGTGTTTTG-AAATAAAACCGA
* * *
1083829 GGTTGGAGTATCCCTAATTGTGGAAAATTAGTGTTTTAGAAATAAAACC-A
1 GGTTGGAGTATCCCTAATTATGAAAAATTGGTGTTTT-GAAATAAAACCGA
*
1083879 GGGTTGGAGTATCCCTGATTATGAAAAATTG
1 -GGTTGGAGTATCCCTAATTATGAAAAATTG
1083910 AGAAACTTAA
Statistics
Matches: 112, Mismatches: 13, Indels: 17
0.79 0.09 0.12
Matches are distributed among these distances:
50 2 0.02
51 57 0.51
52 38 0.34
53 15 0.13
ACGTcount: A:0.34, C:0.10, G:0.24, T:0.32
Consensus pattern (50 bp):
GGTTGGAGTATCCCTAATTATGAAAAATTGGTGTTTTGAAATAAAACCGA
Found at i:1085473 original size:21 final size:21
Alignment explanation
Indices: 1085449--1085490 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
1085439 GTATCGATAC
1085449 AATGTATCGATAAACTTCCTT
1 AATGTATCGATAAACTTCCTT
* *
1085470 AATGTATCGATACATTTCCTT
1 AATGTATCGATAAACTTCCTT
1085491 GGCAGTAGCT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.31, C:0.19, G:0.10, T:0.40
Consensus pattern (21 bp):
AATGTATCGATAAACTTCCTT
Found at i:1085539 original size:19 final size:19
Alignment explanation
Indices: 1085515--1085565 Score: 102
Period size: 19 Copynumber: 2.7 Consensus size: 19
1085505 AGCAATACAT
1085515 TGTATCGATACAACACTTA
1 TGTATCGATACAACACTTA
1085534 TGTATCGATACAACACTTA
1 TGTATCGATACAACACTTA
1085553 TGTATCGATACAA
1 TGTATCGATACAA
1085566 ATCGTTGAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 32 1.00
ACGTcount: A:0.37, C:0.20, G:0.12, T:0.31
Consensus pattern (19 bp):
TGTATCGATACAACACTTA
Found at i:1086536 original size:27 final size:27
Alignment explanation
Indices: 1086452--1086536 Score: 68
Period size: 27 Copynumber: 3.1 Consensus size: 27
1086442 TTGCAAAGAG
*
1086452 AAAGCATCCTGCTCTTTGAGGACTGGA
1 AAAGCATCCTACTCTTTGAGGACTGGA
* * *
1086479 AAATGCCA-CCAACT-TGTGCAGG-CTTTGA
1 AAA-G-CATCCTACTCTTTG-AGGAC-TGGA
*
1086507 AAAGCGTCCTACTCTTTGAGGACTGGA
1 AAAGCATCCTACTCTTTGAGGACTGGA
1086534 AAA
1 AAA
1086537 TGCCACCAAT
Statistics
Matches: 43, Mismatches: 8, Indels: 14
0.66 0.12 0.22
Matches are distributed among these distances:
26 1 0.02
27 22 0.51
28 18 0.42
29 2 0.05
ACGTcount: A:0.29, C:0.22, G:0.24, T:0.25
Consensus pattern (27 bp):
AAAGCATCCTACTCTTTGAGGACTGGA
Found at i:1086536 original size:55 final size:55
Alignment explanation
Indices: 1086336--1086866 Score: 498
Period size: 55 Copynumber: 9.3 Consensus size: 55
1086326 ATAAAGTGTA
* ** *
1086336 TCCTGCTCTTTGAGGACT-AAAAAGTGCCACCAACTCATGTGGGCTTTGAAAAGGAAAGGTG
1 TCCTGCTCTTTGAGGACTGGAAAA-TGCCACCAACTTGTGTGGGCTTTG---A--AAA-GCG
* ** * * *
1086397 TCCTGCTTTTTGAGGACTGGAAGGTGCCACTAACTCGTGTGGGCTTTGCAAAGAGAAAGCA
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTT-----GA-AAAGCG
**
1086458 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGCAGGCTTTGAAAAGCG
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAAGCG
* *
1086513 TCCTACTCTTTGAGGACTGGAAAATGCCACCAA-TTGGTGTGGGCTTT-AAGAGGCG
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTT-GTGTGGGCTTTGAA-AAGCG
* * * * *
1086568 TCCTGCTTTTTGAGGACTGGAAAATGCCACCAACTCGTGTAGGCTTTGAAAGGTG
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAAGCG
* * *
1086623 TCCTACTCTTTGAGGACTGGGAAGTGCCACCAACTTGTGTGGGCTTT-AAAAGGCG
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAA-GCG
* * *
1086678 TCCTGCTCTTTGAGGACT-GAAAAGTGCCCCCAACTTATGTGGGCTTTGAAAAGTG
1 TCCTGCTCTTTGAGGACTGGAAAA-TGCCACCAACTTGTGTGGGCTTTGAAAAGCG
* * *
1086733 CCCTGCTCTTTGAGGACTGGAAAATGTCACCAACTTGTGTGGACTTTGAAAGGAAAAGGCG
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTT-----GAAAA-GCG
** * * *
1086794 TCCCACTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTATGGGCTTT-AAAAGGCA
1 TCCTGCTCTTTGAGGACTGGAAAA-TGCCACCAACTTGTGTGGGCTTTGAAAA-GCG
1086850 TCCTGCTCTTTGAGGAC
1 TCCTGCTCTTTGAGGAC
1086867 AAAAAGGCGA
Statistics
Matches: 394, Mismatches: 55, Indels: 47
0.79 0.11 0.09
Matches are distributed among these distances:
54 10 0.03
55 214 0.54
56 36 0.09
60 5 0.01
61 101 0.26
62 26 0.07
63 1 0.00
66 1 0.00
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.27
Consensus pattern (55 bp):
TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAAGCG
Found at i:1086612 original size:110 final size:111
Alignment explanation
Indices: 1086336--1086866 Score: 563
Period size: 110 Copynumber: 4.6 Consensus size: 111
1086326 ATAAAGTGTA
* **
1086336 TCCTGCTCTTTGAGGACTAAAAAGTGCCACCAACTCATGTGGGCTTTGAAAAGGAAAGGTGTCCT
1 TCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTG---A--AAA-GTGTCCT
* ** * * *
1086401 GCTTTTTGAGGACTGGAAGGTGCCACTAACTCGTGTGGGCTTTGCAAAGAGAAAGCA
60 GCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTT--AAAGAG---GCG
** * *
1086458 TCCTGCTCTTTGAGGACTGGAAAA-TGCCACCAACTTGTGCAGGCTTTGAAAAGCGTCCTACTCT
1 TCCTGCTCTTTGAGGACT-GAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAAGTGTCCTGCTCT
1086522 TTGAGGACTGGAAAATGCCACCAA-TTGGTGTGGGCTTT-AAGAGGCG
65 TTGAGGACTGGAAAATGCCACCAACTT-GTGTGGGCTTTAAAGAGGCG
* * * * *
1086568 TCCTGCTTTTTGAGGACTGGAAAA-TGCCACCAACTCGTGTAGGCTTTGAAAGGTGTCCTACTCT
1 TCCTGCTCTTTGAGGACT-GAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAAGTGTCCTGCTCT
* *
1086632 TTGAGGACTGGGAAGTGCCACCAACTTGTGTGGGCTTTAAA-AGGCG
65 TTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAAGAGGCG
* * *
1086678 TCCTGCTCTTTGAGGACTGAAAAGTGCCCCCAACTTATGTGGGCTTTGAAAAGTGCCCTGCTCTT
1 TCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAAGTGTCCTGCTCTT
* *
1086743 TGAGGACTGGAAAATGTCACCAACTTGTGTGGACTTTGAAAGGAAAAGGCG
66 TGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTT-AAA-G---AGGCG
** *
1086794 TCCCACTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTATGGGCTTT-AAAAG-GCATCCTGCT
1 TCCTGCTCTTTGAGGACT-GAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAAGTG--TCCTGCT
1086857 CTTTGAGGAC
63 CTTTGAGGAC
1086867 AAAAAGGCGA
Statistics
Matches: 357, Mismatches: 38, Indels: 33
0.83 0.09 0.08
Matches are distributed among these distances:
109 5 0.01
110 183 0.51
111 7 0.02
113 5 0.01
115 2 0.01
116 67 0.19
117 45 0.13
119 1 0.00
122 38 0.11
123 4 0.01
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.27
Consensus pattern (111 bp):
TCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAAGTGTCCTGCTCTT
TGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAAGAGGCG
Found at i:1086689 original size:165 final size:165
Alignment explanation
Indices: 1086336--1087055 Score: 565
Period size: 165 Copynumber: 4.3 Consensus size: 165
1086326 ATAAAGTGTA
* * *
1086336 TCCTGCTCTTTGAGGACTAAAAAGTGCCACCAACTCATGTGGGCTTTGAAAAGGAAAGGTGTCCT
1 TCCTGCTCTTTGAGGACTGAAAAGTGCCACCAA-TTATGTGGGCTTT--AAA-G--AGGCGTCCT
** * * *
1086401 GCTTTTTGAGGACTGGAAGGTGCCACTAACTCGTGTGGGCTTTGCAAAGAGAAAGCATCCTGCTC
60 GCTTTTTGAGGACTGGAAAATGCCACCAACTCGTGT-GGCTTTG-AAA-AG-GAG--TCCTACTC
* **
1086466 TTTGAGGACTGGAAAATGCCACCAACTTGTGCAGGCTTTGAAAA-GCG
119 TTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTT-AAAAGGCG
* *
1086513 TCCTACTCTTTGAGGACTGGAAAA-TGCCACCAATTGGTGTGGGCTTT-AAGAGGCGTCCTGCTT
1 TCCTGCTCTTTGAGGACT-GAAAAGTGCCACCAATT-ATGTGGGCTTTAAAGAGGCGTCCTGCTT
*
1086576 TTTGAGGACTGGAAAATGCCACCAACTCGTGTAGGCTTTG-AAAGGTGTCCTACTCTTTGAGGAC
64 TTTGAGGACTGGAAAATGCCACCAACTCGTGT-GGCTTTGAAAAGGAGTCCTACTCTTTGAGGAC
*
1086640 TGGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCG
128 TGGAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCG
*
1086678 TCCTGCTCTTTGAGGACTGAAAAGTGCCCCCAACTTATGTGGGCTTTGAAA-AGTGC--CCTGCT
1 TCCTGCTCTTTGAGGACTGAAAAGTGCCACCAA-TTATGTGGGCTTT-AAAGAG-GCGTCCTGCT
* * * * *
1086740 CTTTGAGGACTGGAAAATGTCACCAACTTGTGTGGACTTTGAAAGGAAAAGGCGTCCCACTCTTT
63 TTTTGAGGACTGGAAAATGCCACCAACTCGTGTGG-CTTT-----GAAAAGGAGTCCTACTCTTT
* * *
1086805 GAGGACTAGAAAAGTGCCACCAACTTGTATGGGCTTTAAAAGGCA
122 GAGGACT-GGAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCG
* * * *
1086850 TCCTGCTCTTTGAGGAC-AAAAAG-G---CGAA--A----GG----AGAGA-GCGTCCTGCTCTT
1 TCCTGCTCTTTGAGGACTGAAAAGTGCCACCAATTATGTGGGCTTTAAAGAGGCGTCCTGCTTTT
* * * * * *
1086899 TGAGGACTAGG-AAGTGCCACCAACTTGTGTGGGCTTT-AAAAAGCGTCGTGCTCTTTGAGGACT
66 TGAGGACT-GGAAAATGCCACCAACTCGTGT-GGCTTTGAAAAGGAGTCCTACTCTTTGAGGACT
* * *
1086962 GAAAAATGCCACCAACTTGTGTAGGCTTTGAAAGGAAAAGGCG
129 GGAAAGTGCCACCAACTTGTGTGGGCTTT------AAAAGGCG
* * *
1087005 T-CTCGCTCTTTAAGGACTAGAAAAGTGCCACCAACTTGTGTAGGCTTTAAA
1 TCCT-GCTCTTTGAGGACT-GAAAAGTGCCACCAA-TTATGTGGGCTTTAAA
1087056 AGGAAAAGGC
Statistics
Matches: 452, Mismatches: 46, Indels: 95
0.76 0.08 0.16
Matches are distributed among these distances:
149 26 0.06
150 22 0.05
154 4 0.01
155 22 0.05
156 39 0.09
157 9 0.02
158 1 0.00
160 2 0.00
161 3 0.01
164 12 0.03
165 120 0.27
166 4 0.01
167 8 0.02
168 4 0.01
169 2 0.00
170 2 0.00
171 76 0.17
172 52 0.12
173 1 0.00
174 2 0.00
176 1 0.00
177 36 0.08
178 4 0.01
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.26
Consensus pattern (165 bp):
TCCTGCTCTTTGAGGACTGAAAAGTGCCACCAATTATGTGGGCTTTAAAGAGGCGTCCTGCTTTT
TGAGGACTGGAAAATGCCACCAACTCGTGTGGCTTTGAAAAGGAGTCCTACTCTTTGAGGACTGG
AAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCG
Found at i:1086932 original size:211 final size:211
Alignment explanation
Indices: 1086675--1087058 Score: 610
Period size: 211 Copynumber: 1.8 Consensus size: 211
1086665 GCTTTAAAAG
* * *
1086675 GCGTCCTGCTCTTTGAGGACTGAAAAGTGCCCCCAACTTATGTGGGCTTTGAAAAGTGCCCTGCT
1 GCGTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTATGTGGGCTTTAAAAAGCGCCCTGCT
* *
1086740 CTTTGAGGACTGGAAAATGTCACCAACTTGTGT-GGACTTTGAAAGGAAAAGGCGTCCCACTCTT
66 CTTTGAGGACTGAAAAATGCCACCAACTTGTGTAGG-CTTTGAAAGGAAAAGGCGTCCCACTCTT
* *
1086804 TGAGGACTAGAAAAGTGCCACCAACTTGTATGGGCTTTAAAAGGCATCCTGCTCTTTGAGGACAA
130 TAAGGACTAGAAAAGTGCCACCAACTTGTATAGGCTTTAAAAGGCATCCTGCTCTTTGAGGACAA
1086869 AAAGGCGAAAGGAGAGA
195 AAAGGCGAAAGGAGAGA
* * * *
1086886 GCGTCCTGCTCTTTGAGGACT-AGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAAGCGTCGTGC
1 GCGTCCTGCTCTTTGAGGACTGA-AAAGTGCCACCAACTTATGTGGGCTTTAAAAAGCGCCCTGC
* *
1086950 TCTTTGAGGACTGAAAAATGCCACCAACTTGTGTAGGCTTTGAAAGGAAAAGGCGTCTCGCTCTT
65 TCTTTGAGGACTGAAAAATGCCACCAACTTGTGTAGGCTTTGAAAGGAAAAGGCGTCCCACTCTT
*
1087015 TAAGGACTAGAAAAGTGCCACCAACTTGTGTAGGCTTTAAAAGG
130 TAAGGACTAGAAAAGTGCCACCAACTTGTATAGGCTTTAAAAGG
1087059 AAAAGGCATC
Statistics
Matches: 157, Mismatches: 14, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
210 1 0.01
211 154 0.98
212 2 0.01
ACGTcount: A:0.28, C:0.21, G:0.27, T:0.25
Consensus pattern (211 bp):
GCGTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTATGTGGGCTTTAAAAAGCGCCCTGCT
CTTTGAGGACTGAAAAATGCCACCAACTTGTGTAGGCTTTGAAAGGAAAAGGCGTCCCACTCTTT
AAGGACTAGAAAAGTGCCACCAACTTGTATAGGCTTTAAAAGGCATCCTGCTCTTTGAGGACAAA
AAGGCGAAAGGAGAGA
Found at i:1087042 original size:62 final size:60
Alignment explanation
Indices: 1086893--1087092 Score: 245
Period size: 62 Copynumber: 3.4 Consensus size: 60
1086883 AGAGCGTCCT
* *
1086893 GCTCTTTGAGGACT-AGGAAGTGCCACCAACTTGTGTGGGCTTT--A--AAAA-GCGTCGT-
1 GCTCTTTGAGGACTGA-AAAGTGCCACCAACTTGTGTAGGCTTTAAAGGAAAAGGCGTC-TC
*
1086948 GCTCTTTGAGGACTGAAAAATGCCACCAACTTGTGTAGGCTTTGAAAGGAAAAGGCGTCTC
1 GCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTAGGCTTT-AAAGGAAAAGGCGTCTC
* *
1087009 GCTCTTTAAGGACTAGAAAAGTGCCACCAACTTGTGTAGGCTTTAAAAGGAAAAGGCATC-C
1 GCTCTTTGAGGACT-GAAAAGTGCCACCAACTTGTGTAGGCTTT-AAAGGAAAAGGCGTCTC
1087070 TGCTCTTTGAGGACTGAAAAGTG
1 -GCTCTTTGAGGACTGAAAAGTG
1087093 GAAGGAGAAG
Statistics
Matches: 127, Mismatches: 8, Indels: 14
0.85 0.05 0.09
Matches are distributed among these distances:
55 38 0.30
56 1 0.01
58 1 0.01
60 5 0.04
61 27 0.21
62 55 0.43
ACGTcount: A:0.29, C:0.19, G:0.27, T:0.26
Consensus pattern (60 bp):
GCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTAGGCTTTAAAGGAAAAGGCGTCTC
Found at i:1088049 original size:1 final size:1
Alignment explanation
Indices: 1088043--1088131 Score: 79
Period size: 1 Copynumber: 89.0 Consensus size: 1
1088033 CAAATTCTTC
* * * * * * * * *
1088043 TTTTTTTTTTCTCTTTTTTCTGTTCTTTTTGTTTTTTTTTTGTTTTTTTGTTTTTTTTTGTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
* *
1088108 TTTTTTGTTTTTTGTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTT
1088132 GAAAAAAGAA
Statistics
Matches: 66, Mismatches: 22, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
1 66 1.00
ACGTcount: A:0.00, C:0.04, G:0.08, T:0.88
Consensus pattern (1 bp):
T
Found at i:1088111 original size:29 final size:29
Alignment explanation
Indices: 1088043--1088130 Score: 115
Period size: 29 Copynumber: 3.0 Consensus size: 29
1088033 CAAATTCTTC
* *
1088043 TTTTTTTTTTCTCTTTTTTCTGTTCTTTTTG
1 TTTTTTTTTT-TCTTTTTTGT-TTTTTTTTG
1088074 TTTTTTTTTTGT-TTTTTTGTTTTTTTTTG
1 TTTTTTTTTT-TCTTTTTTGTTTTTTTTTG
*
1088103 TTTTTTTTTTTGTTTTTTGTTTTTTTTT
1 TTTTTTTTTTTCTTTTTTGTTTTTTTTT
1088131 TGAAAAAAGA
Statistics
Matches: 53, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
28 1 0.02
29 34 0.64
30 7 0.13
31 11 0.21
ACGTcount: A:0.00, C:0.05, G:0.08, T:0.88
Consensus pattern (29 bp):
TTTTTTTTTTTCTTTTTTGTTTTTTTTTG
Found at i:1088129 original size:19 final size:18
Alignment explanation
Indices: 1088044--1088131 Score: 113
Period size: 19 Copynumber: 4.6 Consensus size: 18
1088034 AAATTCTTCT
1088044 TTTTTTTTTCTCTTTTTTCTG
1 TTTTTTTTT-T-TTTTTT-TG
1088065 TTCTTTTTGTTTTTTTTTTG
1 TT-TTTTT-TTTTTTTTTTG
*
1088085 TTTTTTTGTTTTTTTTTG
1 TTTTTTTTTTTTTTTTTG
1088103 TTTTTTTTTTTGTTTTTTG
1 TTTTTTTTTTT-TTTTTTG
1088122 TTTTTTTTTT
1 TTTTTTTTTT
1088132 GAAAAAAGAA
Statistics
Matches: 62, Mismatches: 2, Indels: 8
0.86 0.03 0.11
Matches are distributed among these distances:
18 20 0.32
19 22 0.35
20 4 0.06
21 8 0.13
22 6 0.10
23 2 0.03
ACGTcount: A:0.00, C:0.05, G:0.08, T:0.88
Consensus pattern (18 bp):
TTTTTTTTTTTTTTTTTG
Found at i:1100654 original size:79 final size:79
Alignment explanation
Indices: 1100554--1100755 Score: 221
Period size: 79 Copynumber: 2.6 Consensus size: 79
1100544 AATAATGGGG
* * * * **
1100554 TTGGGGTATCCCCTT-GAAAATAACGGGGTTGGAGTATCCCCGGTTGTGAAAAATCGATGA-TTA
1 TTGGAGTAT-CCCTTCGGAAATAACGGGGTTGGAGTATCCCCGATTATGAAAAATAAAT-ATTTA
*
1100617 GGAAATAAAATCGGGA
64 GGAAATAAAACCGGGA
* * *
1100633 TTGGAGTATCCCTTCGGAAATAACGGGGTTGGAGTATCCCCAATTATGAGAAATAAATATTTTGG
1 TTGGAGTATCCCTTCGGAAATAACGGGGTTGGAGTATCCCCGATTATGAAAAATAAATATTTAGG
* *
1100698 AAATAAAGCCGGGG
66 AAATAAAACCGGGA
* * *
1100712 TTGAAGTATCCCCTC-GAAGGTAACGGGGTTGGAGTATCCCCGAT
1 TTGGAGTATCCCTTCGGAA-ATAACGGGGTTGGAGTATCCCCGAT
1100756 GAAATAACGA
Statistics
Matches: 104, Mismatches: 16, Indels: 6
0.83 0.13 0.05
Matches are distributed among these distances:
78 9 0.09
79 95 0.91
ACGTcount: A:0.30, C:0.16, G:0.28, T:0.26
Consensus pattern (79 bp):
TTGGAGTATCCCTTCGGAAATAACGGGGTTGGAGTATCCCCGATTATGAAAAATAAATATTTAGG
AAATAAAACCGGGA
Done.