Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold126
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: 2080828
ACGTcount: A:0.30, C:0.16, G:0.16, T:0.30
Warning! 191490 characters in sequence are not A, C, G, or T
File 12 of 13
Found at i:1881497 original size:45 final size:42
Alignment explanation
Indices: 1881446--1881550 Score: 131
Period size: 42 Copynumber: 2.4 Consensus size: 42
1881436 GTACTTTTCA
*
1881446 GTCCTCAAAGAGTAGGACACACTTCCTTCCCTT-CTTTTCTCTTTT
1 GTCCTCAAAGAGTAGGACACACTTCATT---TTCCTTTT-TCTTTT
* * *
1881491 GTCCTCAAAGAGCAGGACGCACTTTATTTTCCTTTTTCTTTT
1 GTCCTCAAAGAGTAGGACACACTTCATTTTCCTTTTTCTTTT
1881533 GTCCTCAAAGAGTAGGAC
1 GTCCTCAAAGAGTAGGAC
1881551 GTATTTCGTT
Statistics
Matches: 54, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
42 25 0.46
43 5 0.09
45 24 0.44
ACGTcount: A:0.21, C:0.27, G:0.15, T:0.37
Consensus pattern (42 bp):
GTCCTCAAAGAGTAGGACACACTTCATTTTCCTTTTTCTTTT
Found at i:1881544 original size:42 final size:41
Alignment explanation
Indices: 1881479--1881580 Score: 132
Period size: 42 Copynumber: 2.4 Consensus size: 41
1881469 TCCTTCCCTT
*
1881479 CTTTTCTCTTTTGTCCTCAAAGAGCAGGACGCACTTTATTTTC
1 CTTTT-TCTTTTGTCCTCAAAGAGCAGGACGCA-TTTAGTTTC
* * *
1881522 CTTTTTCTTTTGTCCTCAAAGAGTAGGACGTATTTCGTTTC
1 CTTTTTCTTTTGTCCTCAAAGAGCAGGACGCATTTAGTTTC
*
1881563 CTTTTTTCCTTTGTCCTC
1 C-TTTTTCTTTTGTCCTC
1881581 GAAAAATGGG
Statistics
Matches: 53, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
41 8 0.15
42 40 0.75
43 5 0.09
ACGTcount: A:0.15, C:0.25, G:0.14, T:0.47
Consensus pattern (41 bp):
CTTTTTCTTTTGTCCTCAAAGAGCAGGACGCATTTAGTTTC
Found at i:1881604 original size:41 final size:41
Alignment explanation
Indices: 1881479--1881604 Score: 103
Period size: 42 Copynumber: 3.0 Consensus size: 41
1881469 TCCTTCCCTT
* ** * * *
1881479 CTTTTCTCTTTTGTCCTCAAAGAGCAGGACGCACTTTATTTTC
1 CTTTT-TCCTTTGTCCTCAAAGAATAGGACGTA-TCTCTTTTC
* * * *
1881522 CTTTTTCTTTTGTCCTCAAAGAGTAGGACGTATTTCGTTTC
1 CTTTTTCCTTTGTCCTCAAAGAATAGGACGTATCTCTTTTC
*
1881563 CTTTTTTCCTTTGTCCTCGAAA-AATGGGACGTA-CTCTTTTC
1 C-TTTTTCCTTTGTCCTC-AAAGAATAGGACGTATCTCTTTTC
1881604 C
1 C
1881605 AGTTTGTCCT
Statistics
Matches: 72, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
41 15 0.21
42 49 0.68
43 8 0.11
ACGTcount: A:0.17, C:0.24, G:0.15, T:0.44
Consensus pattern (41 bp):
CTTTTTCCTTTGTCCTCAAAGAATAGGACGTATCTCTTTTC
Found at i:1882331 original size:19 final size:19
Alignment explanation
Indices: 1882307--1882401 Score: 106
Period size: 19 Copynumber: 5.6 Consensus size: 19
1882297 TTCAATAATT
1882307 TGTATCGATACATAAGTAA
1 TGTATCGATACATAAGTAA
1882326 TGTATCGATAC---AG---
1 TGTATCGATACATAAGTAA
1882339 TGTATCGATACATAAGTAA
1 TGTATCGATACATAAGTAA
1882358 TGTATCGATAC---AG---
1 TGTATCGATACATAAGTAA
1882371 TGTATCGATACATAAGTAA
1 TGTATCGATACATAAGTAA
1882390 TGTATCGATACA
1 TGTATCGATACA
1882402 GTGTATCGCT
Statistics
Matches: 64, Mismatches: 0, Indels: 24
0.73 0.00 0.27
Matches are distributed among these distances:
13 22 0.34
16 8 0.12
19 34 0.53
ACGTcount: A:0.38, C:0.13, G:0.18, T:0.32
Consensus pattern (19 bp):
TGTATCGATACATAAGTAA
Found at i:1882344 original size:13 final size:13
Alignment explanation
Indices: 1882326--1882414 Score: 61
Period size: 13 Copynumber: 5.9 Consensus size: 13
1882316 ACATAAGTAA
1882326 TGTATCGATACAG
1 TGTATCGATACAG
1882339 TGTATCGATACATAAG
1 TGTATCGATAC---AG
1882355 TAATGTATCGATACAG
1 ---TGTATCGATACAG
1882371 TGTATCGATACATAAG
1 TGTATCGATAC---AG
1882387 TAATGTATCGATACAG
1 ---TGTATCGATACAG
*
1882403 TGTATCGCTACA
1 TGTATCGATACA
1882415 AAGCTACTGC
Statistics
Matches: 63, Mismatches: 1, Indels: 24
0.72 0.01 0.27
Matches are distributed among these distances:
13 33 0.52
16 8 0.13
19 22 0.35
ACGTcount: A:0.35, C:0.15, G:0.19, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAG
Found at i:1882348 original size:32 final size:32
Alignment explanation
Indices: 1882307--1882479 Score: 210
Period size: 32 Copynumber: 5.4 Consensus size: 32
1882297 TTCAATAATT
1882307 TGTATCGATACATAAGTAATGTATCGATACAG
1 TGTATCGATACATAAGTAATGTATCGATACAG
1882339 TGTATCGATACATAAGTAATGTATCGATACAG
1 TGTATCGATACATAAGTAATGTATCGATACAG
1882371 TGTATCGATACATAAGTAATGTATCGATACAG
1 TGTATCGATACATAAGTAATGTATCGATACAG
* * * **
1882403 TGTATCGCTACA-AAGCTACTGCCAAGGA-A-A-
1 TGTATCGATACATAAG-TAATG-TATCGATACAG
** *
1882433 TGTATCGATACATTTGTAGAATGTATCGATACAT
1 TGTATCGATACATAAGT--AATGTATCGATACAG
1882467 TGTATCGATACAT
1 TGTATCGATACAT
1882480 CGATCTTTGT
Statistics
Matches: 121, Mismatches: 12, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
30 12 0.10
31 8 0.07
32 84 0.69
33 4 0.03
34 13 0.11
ACGTcount: A:0.36, C:0.14, G:0.18, T:0.31
Consensus pattern (32 bp):
TGTATCGATACATAAGTAATGTATCGATACAG
Found at i:1882472 original size:13 final size:13
Alignment explanation
Indices: 1882454--1882479 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1882444 ATTTGTAGAA
1882454 TGTATCGATACAT
1 TGTATCGATACAT
1882467 TGTATCGATACAT
1 TGTATCGATACAT
1882480 CGATCTTTGT
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:1884901 original size:52 final size:52
Alignment explanation
Indices: 1884842--1884969 Score: 152
Period size: 52 Copynumber: 2.5 Consensus size: 52
1884832 CTCAATTTTT
* * *
1884842 CATAATCGAGGATACTCCAACCCCGGTTTTATTTTC-AAAACACCAAGTTTC
1 CATAATCGGGGATACTCCAACCCCGGATTTATTTCCAAAAACACCAAGTTTC
* * * * *
1884893 CTTTAATCGGGGATACTCCAA-CTCTGATTTATTTCCAAAAACACCAATTTTT
1 C-ATAATCGGGGATACTCCAACCCCGGATTTATTTCCAAAAACACCAAGTTTC
*
1884945 CACAATCGGGGATACTCCAACCCCG
1 CATAATCGGGGATACTCCAACCCCG
1884970 TTAATCATCG
Statistics
Matches: 62, Mismatches: 12, Indels: 5
0.78 0.15 0.06
Matches are distributed among these distances:
51 29 0.47
52 33 0.53
ACGTcount: A:0.30, C:0.28, G:0.12, T:0.29
Consensus pattern (52 bp):
CATAATCGGGGATACTCCAACCCCGGATTTATTTCCAAAAACACCAAGTTTC
Found at i:1884952 original size:51 final size:50
Alignment explanation
Indices: 1884834--1885123 Score: 160
Period size: 51 Copynumber: 5.6 Consensus size: 50
1884824 TTAAGTTTCT
* * *
1884834 CAATTTTTCATAATCGAGGATACTCCAACCCCGGTTTTATTTTCAAAACAC
1 CAATTTTTCATAATCGGGGATACTCCAA-CCCGGATTTATTTCCAAAACAC
* * * * *
1884885 CAAGTTTCCTTTAATCGGGGATACTCCAACTCTGATTTATTTCCAAAAACAC
1 CAATTTTTC-ATAATCGGGGATACTCCAACCCGGATTTATTTCC-AAAACAC
* * * * *
1884937 CAATTTTTCACAATCGGGGATACTCCAACCCCG-TTAATCATCGGGGATACTCCAAC-C
1 CAATTTTTCATAATCGGGGATACTCCAACCCGGATTTAT-TTC---CA-A----AACAC
* * * * * *
1884994 CCATTATTT-TTGA--GGGGATACTCAAACCCCGGTTTTATTTCTAAAACAC
1 CAATT-TTTCATAATCGGGGATACTCCAA-CCCGGATTTATTTCCAAAACAC
* * * *
1885043 CAATTCTCCACAATCGGGGATATTCCAACTCC-GATTTTATTTCCAAAACAC
1 CAATTTTTCATAATCGGGGATACTCCAAC-CCGGA-TTTATTTCCAAAACAC
* * *
1885094 TAATTTTTCACAATCGAGGATACTCCAACC
1 CAATTTTTCATAATCGGGGATACTCCAACC
1885124 TCGTTATTTC
Statistics
Matches: 178, Mismatches: 41, Indels: 41
0.68 0.16 0.16
Matches are distributed among these distances:
48 4 0.02
49 6 0.03
50 7 0.04
51 92 0.52
52 32 0.18
53 2 0.01
54 1 0.01
55 12 0.07
56 6 0.03
57 10 0.06
58 6 0.03
ACGTcount: A:0.30, C:0.27, G:0.12, T:0.31
Consensus pattern (50 bp):
CAATTTTTCATAATCGGGGATACTCCAACCCGGATTTATTTCCAAAACAC
Found at i:1885105 original size:157 final size:159
Alignment explanation
Indices: 1884851--1885197 Score: 488
Period size: 158 Copynumber: 2.2 Consensus size: 159
1884841 TCATAATCGA
**
1884851 GGATACTCCAACCCCGGTTTTATTTTCAAAACACCAAGTTTCCTTTAATCGGGGATACTCCAACT
1 GGATACTCCAACCCCGGTTTTATTTTCAAAACACCAAGTTTCCTACAATCGGGGATACTCCAACT
* *
1884916 CTGATTTATTTCCAAAAACACCAATTTTTCACAATCGGGGATACTCCAACCCCGTTA-ATCATCG
66 CCGATTTATTTCCAAAAACACCAATTTTTCACAATCGAGGATACTCCAACCCCGTTATATCATCG
* * *
1884980 GGGATACTCCAACCCCATTATTTTTGAGG
131 AGGATACTCCAACCCCATTACTTTCGAGG
* *
1885009 GGATACTCAAACCCCGGTTTTA-TTTCTAAAACACCAA-TTCTCC-ACAATCGGGGATATTCCAA
1 GGATACTCCAACCCCGGTTTTATTTTC-AAAACACCAAGTT-TCCTACAATCGGGGATACTCCAA
* * *
1885071 CTCCGATTTTATTTCC-AAAACACTAATTTTTCACAATCGAGGATACTCCAACCTCGTTATTTCA
64 CTCCGA-TTTATTTCCAAAAACACCAATTTTTCACAATCGAGGATACTCCAACCCCGTTATATCA
**
1885135 TCGAGGATACTCCAACCCTGTTACTTTCGAGG
128 TCGAGGATACTCCAACCCCATTACTTTCGAGG
* *
1885167 GGACACTCCAACCCCGGCTTTATTTTCAAAA
1 GGATACTCCAACCCCGGTTTTATTTTCAAAA
1885198 TATTGATTTC
Statistics
Matches: 167, Mismatches: 17, Indels: 10
0.86 0.09 0.05
Matches are distributed among these distances:
157 67 0.40
158 96 0.57
159 4 0.02
ACGTcount: A:0.29, C:0.28, G:0.13, T:0.30
Consensus pattern (159 bp):
GGATACTCCAACCCCGGTTTTATTTTCAAAACACCAAGTTTCCTACAATCGGGGATACTCCAACT
CCGATTTATTTCCAAAAACACCAATTTTTCACAATCGAGGATACTCCAACCCCGTTATATCATCG
AGGATACTCCAACCCCATTACTTTCGAGG
Found at i:1885157 original size:28 final size:29
Alignment explanation
Indices: 1885106--1885162 Score: 91
Period size: 28 Copynumber: 2.0 Consensus size: 29
1885096 ATTTTTCACA
1885106 ATCGAGGATACTCCAACCTCGTTA-TTTC
1 ATCGAGGATACTCCAACCTCGTTACTTTC
1885134 ATCGAGGATACTCCAACC-CTGTTACTTTC
1 ATCGAGGATACTCCAACCTC-GTTACTTTC
1885163 GAGGGGACAC
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
27 1 0.04
28 22 0.81
29 4 0.15
ACGTcount: A:0.25, C:0.30, G:0.14, T:0.32
Consensus pattern (29 bp):
ATCGAGGATACTCCAACCTCGTTACTTTC
Found at i:1885293 original size:79 final size:79
Alignment explanation
Indices: 1885134--1885311 Score: 191
Period size: 79 Copynumber: 2.3 Consensus size: 79
1885124 TCGTTATTTC
* * * * *
1885134 ATCGAGGATACTCCAACCCTGTTACTTTCGAGGGGACACTCCAACCCCGGCTTTATTTTCAAAAT
1 ATCGGGGATACTCCAACCCTATTACTTTCGAGAGGACACTCCAACCCCGACTTTATTTTCAAAAC
1885199 ATTGATTTCTCATA
66 ATTGATTTCTCATA
* * * * **
1885213 ATTGGGGATACTCCAACCCTATTATTTTC-ACGAGGATACTCCAATCCCGACTTTATTTTTGAAA
1 ATCGGGGATACTCCAACCCTATTACTTTCGA-GAGGACACTCCAACCCCGACTTTATTTTCAAAA
1885277 CATCT-ATTT-TCTATA
65 CAT-TGATTTCTC-ATA
* *
1885292 ATCGGGGACACTTCAACCCT
1 ATCGGGGATACTCCAACCCT
1885312 TGTCTTTTTT
Statistics
Matches: 82, Mismatches: 14, Indels: 6
0.80 0.14 0.06
Matches are distributed among these distances:
78 3 0.04
79 78 0.95
80 1 0.01
ACGTcount: A:0.27, C:0.26, G:0.14, T:0.33
Consensus pattern (79 bp):
ATCGGGGATACTCCAACCCTATTACTTTCGAGAGGACACTCCAACCCCGACTTTATTTTCAAAAC
ATTGATTTCTCATA
Found at i:1887318 original size:30 final size:27
Alignment explanation
Indices: 1887252--1887322 Score: 88
Period size: 27 Copynumber: 2.5 Consensus size: 27
1887242 TCATTCATAT
*
1887252 TTTTATTTCCGATGGGATACTCCAACCC
1 TTTTATTTCC-AAGGGATACTCCAACCC
*
1887280 TGTTATTTCCAAGGGATACTCCAACCTC
1 TTTTATTTCCAAGGGATACTCCAACC-C
1887308 GGTTTTATTTCCAAG
1 --TTTTATTTCCAAG
1887323 ACATCGATTT
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
27 15 0.41
28 10 0.27
30 12 0.32
ACGTcount: A:0.23, C:0.25, G:0.15, T:0.37
Consensus pattern (27 bp):
TTTTATTTCCAAGGGATACTCCAACCC
Found at i:1887412 original size:79 final size:78
Alignment explanation
Indices: 1887267--1887435 Score: 198
Period size: 79 Copynumber: 2.2 Consensus size: 78
1887257 TTTCCGATGG
* * * *
1887267 GATACTCCAACCCTGTTATTTCCAAGGGATACTCCAACCTCGGTTTTATTTCCAAGACATCGATT
1 GATACTCCAACCCTGTTATTTCCAAGGGATACTCCAACCCCGATTATATTTCCAAAACATCGATT
* *
1887332 TTTCATAATCGGA
66 TTTCACAACCGGA
** * *
1887345 GATACTCCAATCCC-GTTATTTCTGAGGGAATACTCTAACCCCGATTATATTTTCAAAACA-CTG
1 GATACTCCAA-CCCTGTTATTTCCAAGGG-ATACTCCAACCCCGATTATATTTCCAAAACATC-G
*
1887408 ATTTTTCACAACCGGG
63 ATTTTTCACAACCGGA
1887424 GATACTCCAACC
1 GATACTCCAACC
1887436 GCGGTTTTAT
Statistics
Matches: 77, Mismatches: 11, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
78 25 0.32
79 52 0.68
ACGTcount: A:0.28, C:0.27, G:0.14, T:0.31
Consensus pattern (78 bp):
GATACTCCAACCCTGTTATTTCCAAGGGATACTCCAACCCCGATTATATTTCCAAAACATCGATT
TTTCACAACCGGA
Found at i:1887451 original size:51 final size:50
Alignment explanation
Indices: 1887374--1887498 Score: 142
Period size: 51 Copynumber: 2.5 Consensus size: 50
1887364 TTCTGAGGGA
* * ** * *
1887374 ATACTCTAACCCCGATTATATTTTCAAAACACTGATTTTTCACAACCGGGG
1 ATACTCCAA-CCCGGTTATATTTTCAAAACACCAAGTTTCCACAACCGGGG
* **
1887425 ATACTCCAACCGCGGTTTTATTTTCAAAACACCAAGTTTCCACAATTGGGG
1 ATACTCCAACC-CGGTTATATTTTCAAAACACCAAGTTTCCACAACCGGGG
*
1887476 ATACTCCAACCCGGTTATTTTTT
1 ATACTCCAACCCGGTTATATTTT
1887499 AGAGGATACT
Statistics
Matches: 62, Mismatches: 11, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
50 12 0.19
51 50 0.81
ACGTcount: A:0.29, C:0.26, G:0.13, T:0.33
Consensus pattern (50 bp):
ATACTCCAACCCGGTTATATTTTCAAAACACCAAGTTTCCACAACCGGGG
Found at i:1887526 original size:130 final size:130
Alignment explanation
Indices: 1887292--1887565 Score: 336
Period size: 130 Copynumber: 2.1 Consensus size: 130
1887282 TTATTTCCAA
* * * * * * *
1887292 GGGATACTCCAACCTCGGTTTTATTTCCAAGACATCGATTTTTCATAATCGGAGATACTCCAATC
1 GGGATACTCCAACCGCGGTTTTATTTCCAAAACACCAAGTTTCCACAATCGGAGATACTCCAATC
* *
1887357 CCGTTATTTCTGAGGGAATACTCTAACCCCGATTATATTTTCAAAACACTGATTTTTCACAACCG
66 CCGTTATTTCTGAGGGAATACTCTAACCCCGATTATATTTCCAAAACACTAATTTTTCACAACCG
* * *
1887422 GGGATACTCCAACCGCGGTTTTATTTTCAAAACACCAAGTTTCCACAATTGGGGATACTCCAA-C
1 GGGATACTCCAACCGCGGTTTTATTTCCAAAACACCAAGTTTCCACAATCGGAGATACTCCAATC
* * * * * * *
1887486 CCGGTTATTTTTTAGAGG-ATACTCTAACCTCGATTTTATTTCCAAAATACTAATTTTTCATAAT
66 CC-GTTATTTCTGAG-GGAATACTCTAACCCCGATTATATTTCCAAAACACTAATTTTTCACAAC
1887550 CG
129 CG
*
1887552 AGGATACTCCAACC
1 GGGATACTCCAACC
1887566 TTGTTATTTT
Statistics
Matches: 122, Mismatches: 20, Indels: 4
0.84 0.14 0.03
Matches are distributed among these distances:
129 3 0.02
130 117 0.96
131 2 0.02
ACGTcount: A:0.29, C:0.24, G:0.14, T:0.33
Consensus pattern (130 bp):
GGGATACTCCAACCGCGGTTTTATTTCCAAAACACCAAGTTTCCACAATCGGAGATACTCCAATC
CCGTTATTTCTGAGGGAATACTCTAACCCCGATTATATTTCCAAAACACTAATTTTTCACAACCG
Found at i:1887621 original size:79 final size:79
Alignment explanation
Indices: 1887423--1887631 Score: 251
Period size: 79 Copynumber: 2.6 Consensus size: 79
1887413 TCACAACCGG
* * * * *
1887423 GGATACTCCAACCGC-GGTTTTATTTTCAAAACACCAAGTTTCCACAATTGGGGATACTCCAACC
1 GGATACTCCAACC-CTGGTTTTATTTTCAAAACACTAATTTTTCACAATCGAGGATACTCCAACC
**
1887487 CGGTTATTTTTTAGA
65 CGGTTATTTTCGAGA
* * * * *
1887502 GGATACTCTAA-CCTCGATTTTATTTCCAAAATACTAATTTTTCATAATCGAGGATACTCCAACC
1 GGATACTCCAACCCT-GGTTTTATTTTCAAAACACTAATTTTTCACAATCGAGGATACTCCAACC
**
1887566 TTGTTATTTTCGAGA
65 CGGTTATTTTCGAGA
*
1887581 GGATACTCCAACCCTGGTTTTATTTTCAAAACACTGATTTTTCACAATCGA
1 GGATACTCCAACCCTGGTTTTATTTTCAAAACACTAATTTTTCACAATCGA
1887632 CTCCAACCCT
Statistics
Matches: 107, Mismatches: 20, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
77 1 0.01
78 1 0.01
79 102 0.95
80 3 0.03
ACGTcount: A:0.29, C:0.22, G:0.13, T:0.35
Consensus pattern (79 bp):
GGATACTCCAACCCTGGTTTTATTTTCAAAACACTAATTTTTCACAATCGAGGATACTCCAACCC
GGTTATTTTCGAGA
Found at i:1887673 original size:46 final size:46
Alignment explanation
Indices: 1887585--1887676 Score: 123
Period size: 46 Copynumber: 2.0 Consensus size: 46
1887575 TCGAGAGGAT
* * * *
1887585 ACTCCAACCCTGGTTTTATTTTCAAAACACTGATTTTTCACAATCG
1 ACTCCAACCCTGATTTTATTTCCAAAACACTGATCTTCCACAATCG
*
1887631 ACTCCAACCCTGATTTTATTTCCAAAATA-TCGATCTTCCACAATCG
1 ACTCCAACCCTGATTTTATTTCCAAAACACT-GATCTTCCACAATCG
1887677 GGGATACTTT
Statistics
Matches: 40, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
45 1 0.03
46 39 0.98
ACGTcount: A:0.29, C:0.28, G:0.08, T:0.35
Consensus pattern (46 bp):
ACTCCAACCCTGATTTTATTTCCAAAACACTGATCTTCCACAATCG
Found at i:1897356 original size:21 final size:20
Alignment explanation
Indices: 1897308--1897359 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 20
1897298 CCCTCATTTC
1897308 TATCAATACATATGAAAATG
1 TATCAATACATATGAAAATG
* *
1897328 TATTAATACATCATGTGAAA-G
1 TATCAATACAT-ATG-AAAATG
1897349 TATCAATACAT
1 TATCAATACAT
1897360 TTCATTGCCA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
20 10 0.37
21 14 0.52
22 3 0.11
ACGTcount: A:0.46, C:0.12, G:0.10, T:0.33
Consensus pattern (20 bp):
TATCAATACATATGAAAATG
Found at i:1903547 original size:67 final size:67
Alignment explanation
Indices: 1903463--1903596 Score: 268
Period size: 67 Copynumber: 2.0 Consensus size: 67
1903453 AGGACGTATG
1903463 GAACATAGAAAATGAATGCACAAACAAAGGCTGTCAAAATGGTTGCATGAACATGTCATTTTGAC
1 GAACATAGAAAATGAATGCACAAACAAAGGCTGTCAAAATGGTTGCATGAACATGTCATTTTGAC
1903528 AT
66 AT
1903530 GAACATAGAAAATGAATGCACAAACAAAGGCTGTCAAAATGGTTGCATGAACATGTCATTTTGAC
1 GAACATAGAAAATGAATGCACAAACAAAGGCTGTCAAAATGGTTGCATGAACATGTCATTTTGAC
1903595 AT
66 AT
1903597 TAAGACATCA
Statistics
Matches: 67, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
67 67 1.00
ACGTcount: A:0.42, C:0.15, G:0.19, T:0.24
Consensus pattern (67 bp):
GAACATAGAAAATGAATGCACAAACAAAGGCTGTCAAAATGGTTGCATGAACATGTCATTTTGAC
AT
Found at i:1904135 original size:13 final size:14
Alignment explanation
Indices: 1904111--1904139 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
1904101 TGAGTTTGCT
1904111 AGTAGTGGTGGCTG
1 AGTAGTGGTGGCTG
1904125 AGTAG-GGTGGCTG
1 AGTAGTGGTGGCTG
1904138 AG
1 AG
1904140 ATTAAAGGCT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 10 0.67
14 5 0.33
ACGTcount: A:0.17, C:0.07, G:0.52, T:0.24
Consensus pattern (14 bp):
AGTAGTGGTGGCTG
Found at i:1904433 original size:20 final size:20
Alignment explanation
Indices: 1904408--1904480 Score: 92
Period size: 20 Copynumber: 3.6 Consensus size: 20
1904398 AATTGCCTGC
* * *
1904408 ATGTATCAATACATTAAAGA
1 ATGTATCGATACAATGAAGA
1904428 ATGTATCGATACAATGAAGA
1 ATGTATCGATACAATGAAGA
* *
1904448 ATTTATCGATATAATGAAGA
1 ATGTATCGATACAATGAAGA
*
1904468 ATGTATTGATACA
1 ATGTATCGATACA
1904481 TTTTCATTCC
Statistics
Matches: 45, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 45 1.00
ACGTcount: A:0.45, C:0.08, G:0.15, T:0.32
Consensus pattern (20 bp):
ATGTATCGATACAATGAAGA
Found at i:1907567 original size:23 final size:23
Alignment explanation
Indices: 1907524--1907568 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
1907514 AATATTATTT
* *
1907524 ATAAATTAAATATAAATAATATC
1 ATAAATTAAATAGAAAAAATATC
1907547 ATAAA-TAAATAAGAAAAAATAT
1 ATAAATTAAAT-AGAAAAAATAT
1907569 TTATTTTAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 5 0.26
23 14 0.74
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.29
Consensus pattern (23 bp):
ATAAATTAAATAGAAAAAATATC
Found at i:1911132 original size:2 final size:2
Alignment explanation
Indices: 1911125--1911170 Score: 83
Period size: 2 Copynumber: 23.0 Consensus size: 2
1911115 TTGATCTCTT
*
1911125 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TT
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1911167 TA TA
1 TA TA
1911171 ACGGAGATCA
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:1911699 original size:17 final size:18
Alignment explanation
Indices: 1911677--1911713 Score: 51
Period size: 17 Copynumber: 2.1 Consensus size: 18
1911667 ATTATTTACT
1911677 ATATTTATT-ACA-TTAAA
1 ATATTT-TTAACATTTAAA
1911694 ATATTTTTAACATTTAAA
1 ATATTTTTAACATTTAAA
1911712 AT
1 AT
1911714 TACTTTAATT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 2 0.11
17 9 0.50
18 7 0.39
ACGTcount: A:0.46, C:0.05, G:0.00, T:0.49
Consensus pattern (18 bp):
ATATTTTTAACATTTAAA
Found at i:1911899 original size:2 final size:2
Alignment explanation
Indices: 1911886--1911921 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
1911876 GGAAAGAATG
*
1911886 AT AT AT AA AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1911922 TTCATTCATT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:1915381 original size:32 final size:30
Alignment explanation
Indices: 1915326--1915389 Score: 76
Period size: 33 Copynumber: 2.0 Consensus size: 30
1915316 TTTTATATTA
*
1915326 TTTTTAAGTTTTTCTTACTAATTTATAAATAAT
1 TTTTTAAGTTTTTATTAC-AA-TT-TAAATAAT
1915359 TTTTTAAGTTTTATATTA-AATTTAAATAAT
1 TTTTTAAGTTTT-TATTACAATTTAAATAAT
1915389 T
1 T
1915390 GTATTTTTTT
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
30 9 0.31
31 2 0.07
32 2 0.07
33 12 0.41
34 4 0.14
ACGTcount: A:0.36, C:0.03, G:0.03, T:0.58
Consensus pattern (30 bp):
TTTTTAAGTTTTTATTACAATTTAAATAAT
Found at i:1915830 original size:2 final size:2
Alignment explanation
Indices: 1915823--1915852 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
1915813 TCACTCTGTA
1915823 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1915853 TTGTAATTTA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1916115 original size:17 final size:18
Alignment explanation
Indices: 1916093--1916154 Score: 62
Period size: 16 Copynumber: 3.7 Consensus size: 18
1916083 TTATTTTAAT
1916093 ATTATAAATAAATA-TTA
1 ATTATAAATAAATATTTA
*
1916110 ATTAT-AGTAAATATTTA
1 ATTATAAATAAATATTTA
*
1916127 AATA-AAAT-AATATTTA
1 ATTATAAATAAATATTTA
1916143 ATT-TAATATAAA
1 ATTATAA-ATAAA
1916155 ATTAAAAAAT
Statistics
Matches: 36, Mismatches: 4, Indels: 9
0.73 0.08 0.18
Matches are distributed among these distances:
16 19 0.53
17 15 0.42
18 2 0.06
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (18 bp):
ATTATAAATAAATATTTA
Found at i:1920334 original size:18 final size:18
Alignment explanation
Indices: 1920308--1920343 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
1920298 TTGAACATAA
*
1920308 ATATGTTATATTTTTATT
1 ATATATTATATTTTTATT
1920326 ATATATTATATTTTTATT
1 ATATATTATATTTTTATT
1920344 GACTACTGAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.31, C:0.00, G:0.03, T:0.67
Consensus pattern (18 bp):
ATATATTATATTTTTATT
Found at i:1920437 original size:24 final size:24
Alignment explanation
Indices: 1920408--1920454 Score: 78
Period size: 25 Copynumber: 2.0 Consensus size: 24
1920398 TATATTAAAA
1920408 TTTT-AAATATTAAATTAATAATTT
1 TTTTAAAATATTAAATTAA-AATTT
1920432 TTTTAAAATATTAAATTAAAATT
1 TTTTAAAATATTAAATTAAAATT
1920455 AAACTAAAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
24 8 0.36
25 14 0.64
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (24 bp):
TTTTAAAATATTAAATTAAAATTT
Found at i:1920462 original size:24 final size:25
Alignment explanation
Indices: 1920412--1920466 Score: 67
Period size: 25 Copynumber: 2.2 Consensus size: 25
1920402 TTAAAATTTT
****
1920412 AAATATTAAATTAATAATTTTTTTA
1 AAATATTAAATTAATAATTAAACTA
1920437 AAATATTAAATTAA-AATTAAACTA
1 AAATATTAAATTAATAATTAAACTA
1920461 AAATAT
1 AAATAT
1920467 AATATTTAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
24 12 0.46
25 14 0.54
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (25 bp):
AAATATTAAATTAATAATTAAACTA
Found at i:1920863 original size:24 final size:26
Alignment explanation
Indices: 1920835--1920891 Score: 64
Period size: 27 Copynumber: 2.2 Consensus size: 26
1920825 GAGATAAGTT
*
1920835 ATAATAAA-A-ACTATAACATGAAAA
1 ATAATAAATATACTATAACATAAAAA
* *
1920859 ATAATTAAATATGCTATTACATAAAAA
1 ATAA-TAAATATACTATAACATAAAAA
1920886 ATAATA
1 ATAATA
1920892 TGAATATGAT
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
24 4 0.15
25 4 0.15
26 3 0.11
27 16 0.59
ACGTcount: A:0.61, C:0.07, G:0.04, T:0.28
Consensus pattern (26 bp):
ATAATAAATATACTATAACATAAAAA
Found at i:1920880 original size:27 final size:28
Alignment explanation
Indices: 1920845--1920899 Score: 76
Period size: 27 Copynumber: 2.0 Consensus size: 28
1920835 ATAATAAAAA
*
1920845 CTATAACATGAAAAATAAT-TAAATATG
1 CTATAACATAAAAAATAATATAAATATG
* *
1920872 CTATTACATAAAAAATAATATGAATATG
1 CTATAACATAAAAAATAATATAAATATG
1920900 ATACGAATAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
27 17 0.71
28 7 0.29
ACGTcount: A:0.55, C:0.07, G:0.07, T:0.31
Consensus pattern (28 bp):
CTATAACATAAAAAATAATATAAATATG
Found at i:1921789 original size:127 final size:125
Alignment explanation
Indices: 1921573--1921825 Score: 420
Period size: 127 Copynumber: 2.0 Consensus size: 125
1921563 TGGCTTTGCT
* * *
1921573 TAAATGTCCCAAGGAAAGAAAATTAAAAATTGAAATTGATCCATCTGTTGCCTTGGCACAACTTT
1 TAAATGTCCCAAGGAAAGAAAATTAAAAATTGAAATTGAGCCATCTGATGCCTTGGAACAACTTT
1921638 TATTTACTAGTTGTGAATATAAAAGGGAATTCAAAATATTGAAGAAGCATGCATACTTAACA
66 TATTTACTAGTTGTGAATATAAAA-GGAATTC-AAATATTGAAGAAGCATGCATACTTAACA
*
1921700 TAAATGTCCCAAGGAAAGAAAATTAAAATTTGAAATTGAGCCATTCT-ATGCCTTGGAACAACTT
1 TAAATGTCCCAAGGAAAGAAAATTAAAAATTGAAATTGAGCCA-TCTGATGCCTTGGAACAACTT
1921764 TTATTTA-TAGTTGTGAATATAAAAAGGAATTCAAATATTGAAGAAGCATGCATACTTAACA
65 TTATTTACTAGTTGTGAATAT-AAAAGGAATTCAAATATTGAAGAAGCATGCATACTTAACA
1921825 T
1 T
1921826 TATTCATTTC
Statistics
Matches: 120, Mismatches: 4, Indels: 6
0.92 0.03 0.05
Matches are distributed among these distances:
125 30 0.25
126 20 0.17
127 67 0.56
128 3 0.03
ACGTcount: A:0.42, C:0.13, G:0.15, T:0.30
Consensus pattern (125 bp):
TAAATGTCCCAAGGAAAGAAAATTAAAAATTGAAATTGAGCCATCTGATGCCTTGGAACAACTTT
TATTTACTAGTTGTGAATATAAAAGGAATTCAAATATTGAAGAAGCATGCATACTTAACA
Found at i:1922488 original size:19 final size:20
Alignment explanation
Indices: 1922443--1922490 Score: 55
Period size: 19 Copynumber: 2.5 Consensus size: 20
1922433 TATTTTAAAA
1922443 TTATTAA-AATTTAAAAATT
1 TTATTAATAATTTAAAAATT
* * *
1922462 TGACTAATAA-TTAATAATT
1 TTATTAATAATTTAAAAATT
1922481 TTATTAATAA
1 TTATTAATAA
1922491 CCAAAAGGTT
Statistics
Matches: 23, Mismatches: 5, Indels: 2
0.77 0.17 0.07
Matches are distributed among these distances:
19 21 0.91
20 2 0.09
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.46
Consensus pattern (20 bp):
TTATTAATAATTTAAAAATT
Found at i:1922872 original size:19 final size:20
Alignment explanation
Indices: 1922848--1922897 Score: 59
Period size: 19 Copynumber: 2.5 Consensus size: 20
1922838 TTATAATTAA
*
1922848 TAAAAAATAATTTTTAAT-T
1 TAAAAAATAATTTTAAATAT
*
1922867 TAAAAAATTA-TTTAAATAT
1 TAAAAAATAATTTTAAATAT
1922886 TAATAAAATAAT
1 TAA-AAAATAAT
1922898 AATATATCAA
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
18 6 0.24
19 13 0.52
20 6 0.24
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (20 bp):
TAAAAAATAATTTTAAATAT
Found at i:1922979 original size:20 final size:19
Alignment explanation
Indices: 1922913--1922989 Score: 73
Period size: 20 Copynumber: 3.8 Consensus size: 19
1922903 ATCAAATGAT
*
1922913 TAAAATTTAAAATTTTATA
1 TAAAATTTAAAATTTTGTA
* **
1922932 TAAAATAAATATAAATTACGTA
1 TAAAAT--TTA-AAATTTTGTA
*
1922954 TTAAATTTAAATATTTTGTA
1 TAAAATTTAAA-ATTTTGTA
1922974 TAAAATTTAAAATTTT
1 TAAAATTTAAAATTTT
1922990 ATATTATATA
Statistics
Matches: 45, Mismatches: 9, Indels: 8
0.73 0.15 0.13
Matches are distributed among these distances:
19 13 0.29
20 18 0.40
21 2 0.04
22 12 0.27
ACGTcount: A:0.51, C:0.01, G:0.03, T:0.45
Consensus pattern (19 bp):
TAAAATTTAAAATTTTGTA
Found at i:1923059 original size:20 final size:19
Alignment explanation
Indices: 1923036--1923074 Score: 60
Period size: 20 Copynumber: 2.0 Consensus size: 19
1923026 GATTTAAATA
1923036 ATTTTTTAATATTATTAATT
1 ATTTTTTAATATTA-TAATT
*
1923056 ATTTTTTATTATTATAATT
1 ATTTTTTAATATTATAATT
1923075 TTAAAAATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 5 0.28
20 13 0.72
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (19 bp):
ATTTTTTAATATTATAATT
Found at i:1923085 original size:14 final size:14
Alignment explanation
Indices: 1923068--1923115 Score: 53
Period size: 14 Copynumber: 3.4 Consensus size: 14
1923058 TTTTTATTAT
*
1923068 TATAATTTTAAAAA
1 TATAAATTTAAAAA
*
1923082 TATAAAATT-AAAA
1 TATAAATTTAAAAA
*
1923095 TATTAAATTTAATAA
1 TA-TAAATTTAAAAA
1923110 TATAAA
1 TATAAA
1923116 AATTAAAATA
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
13 6 0.21
14 17 0.61
15 5 0.18
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (14 bp):
TATAAATTTAAAAA
Found at i:1923106 original size:28 final size:31
Alignment explanation
Indices: 1923065--1923125 Score: 92
Period size: 29 Copynumber: 2.1 Consensus size: 31
1923055 TATTTTTTAT
1923065 TATTATAATTTTAAAAATAT-AAAATTAAAA
1 TATTATAATTTTAAAAATATAAAAATTAAAA
*
1923095 TATTA-AA-TTTAATAATATAAAAATTAAAA
1 TATTATAATTTTAAAAATATAAAAATTAAAA
1923124 TA
1 TA
1923126 CTTCTCCACC
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
28 10 0.34
29 14 0.48
30 5 0.17
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (31 bp):
TATTATAATTTTAAAAATATAAAAATTAAAA
Found at i:1924462 original size:20 final size:21
Alignment explanation
Indices: 1924427--1924477 Score: 95
Period size: 20 Copynumber: 2.5 Consensus size: 21
1924417 TATAATTAAA
1924427 ATATTTTTAATAAATTTTTTT
1 ATATTTTTAATAAATTTTTTT
1924448 ATATTTTTAAT-AATTTTTTT
1 ATATTTTTAATAAATTTTTTT
1924468 ATATTTTTAA
1 ATATTTTTAA
1924478 AATACATGGT
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
20 19 0.63
21 11 0.37
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (21 bp):
ATATTTTTAATAAATTTTTTT
Found at i:1978269 original size:16 final size:16
Alignment explanation
Indices: 1978248--1978280 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
1978238 AACCCTCTCT
1978248 AAACTAAATGATGAAA
1 AAACTAAATGATGAAA
1978264 AAACTAAATGATGAAA
1 AAACTAAATGATGAAA
1978280 A
1 A
1978281 TAAATCGATA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.64, C:0.06, G:0.12, T:0.18
Consensus pattern (16 bp):
AAACTAAATGATGAAA
Found at i:1979015 original size:16 final size:16
Alignment explanation
Indices: 1978990--1979025 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
1978980 CAACTTTTCA
1978990 TTTTGAATTGAAAATG
1 TTTTGAATTGAAAATG
*
1979006 TTTTGTATTGAAAATG
1 TTTTGAATTGAAAATG
1979022 TTTT
1 TTTT
1979026 ATATGTCAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.31, C:0.00, G:0.17, T:0.53
Consensus pattern (16 bp):
TTTTGAATTGAAAATG
Found at i:1982194 original size:20 final size:21
Alignment explanation
Indices: 1982169--1982208 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 21
1982159 AATTTTTCAG
1982169 AATGTATCGATACAT-TGAAC
1 AATGTATCGATACATCTGAAC
1982189 AATGTATCGATACATCTGAA
1 AATGTATCGATACATCTGAA
1982209 AAACCCAGAT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 15 0.79
21 4 0.21
ACGTcount: A:0.40, C:0.15, G:0.15, T:0.30
Consensus pattern (21 bp):
AATGTATCGATACATCTGAAC
Found at i:1985247 original size:34 final size:35
Alignment explanation
Indices: 1985208--1985281 Score: 89
Period size: 34 Copynumber: 2.1 Consensus size: 35
1985198 ATTTTCTACA
* *
1985208 TTTCAAAGAGCTTTTGTATT-CTTTGTTG-TTATTT
1 TTTCAAAGAGCATTTGTATTCCTTTG-TGCTTATTC
**
1985242 TTTCAAAGCTCATTTGTATTCCTTTGTGCTTATTC
1 TTTCAAAGAGCATTTGTATTCCTTTGTGCTTATTC
1985277 TTTCA
1 TTTCA
1985282 TAAACATCAG
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
34 19 0.56
35 15 0.44
ACGTcount: A:0.18, C:0.15, G:0.12, T:0.55
Consensus pattern (35 bp):
TTTCAAAGAGCATTTGTATTCCTTTGTGCTTATTC
Found at i:1986121 original size:237 final size:237
Alignment explanation
Indices: 1985698--1986144 Score: 566
Period size: 237 Copynumber: 1.9 Consensus size: 237
1985688 TACAAACCCC
* * * * *
1985698 ATTTTCATTTCTAAAACACCAAAATTTTCATTTCTGAGGATACTTCAACCCTACTATCTTCGAGG
1 ATTTTCATTTCTAAAACACCAAAATTTTCATTACGGAGGATACTCCAACCCTACCATCTTCAAGG
** * * * *
1985763 GGATACTCCAACCTTGTTTTTACTTCCAAAACCTCGAATTTTTTATCCCCGGGGATAGTCTAACC
66 GGATACTCCAACCCCGTTTCTACTTCCAAAACCTCAAATTTTTTATCCCCGGGAATACTCTAACC
*
1985828 CCACCATCACTGAGGGGATACTCCAACCCCGTTTCTACTTCTAAAAGTCAAAA-TTTTCATCTCT
131 CCACCATCACTGAGGGGATACTCCAACCCCATTTCTACTTCTAAAAGTCAAAATTTTTCATCT-T
1985892 AGGGATACTCTAACCCCAACATCAAAGGGGTACTCCAACTCTT
195 AGGGATACTCTAACCCCAACATCAAAGGGGTACTCCAACTCTT
*
1985935 ATTTTCATTTCTAAAATACCAAAATTTTCATCTACGGA-GATACTCCAA-CCTCACCATC-TCTA
1 ATTTTCATTTCTAAAACACCAAAATTTTCAT-TACGGAGGATACTCCAACCCT-ACCATCTTC-A
* * * * *
1985997 AGGGGATACTTCAACCCCGTTTCTATTTCCAAAATGC-CAAATTTTTTATCTCTGGGAATACTCT
63 AGGGGATACTCCAACCCCGTTTCTACTTCCAAAA-CCTCAAATTTTTTATCCCCGGGAATACTCT
* * * *
1986061 AACCCCACCATC-TTCGAGGGGATATTCCAACCCCATTTTTACTTCTAAAATGTC-AAATTTTTT
127 AACCCCACCATCACT-GAGGGGATACTCCAACCCCATTTCTACTTCTAAAA-GTCAAAATTTTTC
* *
1986124 ATCTTTGGGATACTTTAACCC
190 ATCTTAGGGATACTCTAACCC
1986145 TACTATCTCC
Statistics
Matches: 179, Mismatches: 24, Indels: 14
0.82 0.11 0.06
Matches are distributed among these distances:
236 6 0.03
237 157 0.88
238 16 0.09
ACGTcount: A:0.29, C:0.27, G:0.11, T:0.33
Consensus pattern (237 bp):
ATTTTCATTTCTAAAACACCAAAATTTTCATTACGGAGGATACTCCAACCCTACCATCTTCAAGG
GGATACTCCAACCCCGTTTCTACTTCCAAAACCTCAAATTTTTTATCCCCGGGAATACTCTAACC
CCACCATCACTGAGGGGATACTCCAACCCCATTTCTACTTCTAAAAGTCAAAATTTTTCATCTTA
GGGATACTCTAACCCCAACATCAAAGGGGTACTCCAACTCTT
Found at i:1986172 original size:79 final size:79
Alignment explanation
Indices: 1985730--1986223 Score: 369
Period size: 80 Copynumber: 6.2 Consensus size: 79
1985720 AATTTTCATT
* * ** *
1985730 TCTGAGGATACT-TCAACCCTACTATCTTCGAGGGGATACTCCAACCTTGTTTTTACTTCCAAAA
1 TCTG-GGATACTCT-AACCCTACCATCTCCGAGGGGATACTCCAACCCCGTTTTTACTTCTAAAA
** *
1985794 CCTCGAATTTTTTATCC
64 TGTCAAATTTTTTAT-C
* * * * * * *
1985811 CCGGGGATAGTCTAACCCCACCATCACTGAGGGGATACTCCAACCCCGTTTCTACTTCTAAAA-G
1 TCTGGGATACTCTAACCCTACCATCTCCGAGGGGATACTCCAACCCCGTTTTTACTTCTAAAATG
* *
1985875 TCAAAATTTTCATC
66 TCAAATTTTTTATC
* * ** * * *
1985889 TCTAGGGATACTCTAACCCCAACA--TCAAAGGGG-TACTCCAA-CTCTTATTTTCATTTCTAAA
1 TCT-GGGATACTCTAACCCTACCATCTCCGAGGGGATACTCCAACCCCGT-TTTT-ACTTCTAAA
** * *
1985950 ATACCAAAATTTTCATC
63 ATGTCAAATTTTTTATC
* ** * * * *
1985967 TAC-GGAGATACTCCAA-CCTCACCATCTCTAAGGGGATACTTCAACCCCGTTTCTATTTCCAAA
1 T-CTGG-GATACTCTAACCCT-ACCATCTCCGAGGGGATACTCCAACCCCGTTTTTACTTCTAAA
*
1986030 ATGCCAAATTTTTTATC
63 ATGTCAAATTTTTTATC
* * * *
1986047 TCTGGGAATACTCTAACCCCACCATCTTCGAGGGGATATTCCAACCCCATTTTTACTTCTAAAAT
1 TCTGGG-ATACTCTAACCCTACCATCTCCGAGGGGATACTCCAACCCCGTTTTTACTTCTAAAAT
1986112 GTCAAATTTTTTATC
65 GTCAAATTTTTTATC
* * * * *
1986127 TTTGGGATACTTTAACCCTACTATCTCCGAGGGGATACTCTAACCCCGTTTTTACTTTCAAAACA
1 TCTGGGATACTCTAACCCTACCATCTCCGAGGGGATACTCCAACCCCGTTTTTAC-TTCTAAA-A
* * * *
1986192 T-TGAAA-ATTTCATT
64 TGTCAAATTTTTTATC
1986206 TCTGGGATACTCTAACCC
1 TCTGGGATACTCTAACCC
1986224 AATTTTTTAT
Statistics
Matches: 328, Mismatches: 68, Indels: 36
0.76 0.16 0.08
Matches are distributed among these distances:
75 3 0.01
76 11 0.03
77 19 0.06
78 28 0.09
79 94 0.29
80 153 0.47
81 17 0.05
82 3 0.01
ACGTcount: A:0.28, C:0.27, G:0.12, T:0.33
Consensus pattern (79 bp):
TCTGGGATACTCTAACCCTACCATCTCCGAGGGGATACTCCAACCCCGTTTTTACTTCTAAAATG
TCAAATTTTTTATC
Found at i:1991393 original size:13 final size:13
Alignment explanation
Indices: 1991375--1991399 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1991365 CAATTCATCA
1991375 TGTATCGATACAC
1 TGTATCGATACAC
1991388 TGTATCGATACA
1 TGTATCGATACA
1991400 ATGCGCCATA
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):
TGTATCGATACAC
Found at i:1991414 original size:33 final size:33
Alignment explanation
Indices: 1991355--1991417 Score: 90
Period size: 33 Copynumber: 1.9 Consensus size: 33
1991345 TTTGAAGTAA
* * *
1991355 TGTATCGATACAATTCATCATGTATCGATACAC
1 TGTATCGATACAATGCACCATATATCGATACAC
*
1991388 TGTATCGATACAATGCGCCATATATCGATA
1 TGTATCGATACAATGCACCATATATCGATA
1991418 AAAACAATGG
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
33 26 1.00
ACGTcount: A:0.33, C:0.21, G:0.14, T:0.32
Consensus pattern (33 bp):
TGTATCGATACAATGCACCATATATCGATACAC
Found at i:1991493 original size:19 final size:20
Alignment explanation
Indices: 1991449--1991501 Score: 72
Period size: 20 Copynumber: 2.7 Consensus size: 20
1991439 CTGCTAGTTT
* * *
1991449 CATGTATCAATACAATTATC
1 CATGTATCGATACAATGATA
1991469 CATGTATCGATACAATGA-A
1 CATGTATCGATACAATGATA
1991488 CATGTATCGATACA
1 CATGTATCGATACA
1991502 TTGTATCGAT
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
19 14 0.47
20 16 0.53
ACGTcount: A:0.40, C:0.19, G:0.11, T:0.30
Consensus pattern (20 bp):
CATGTATCGATACAATGATA
Found at i:1991508 original size:13 final size:13
Alignment explanation
Indices: 1991490--1991514 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1991480 ACAATGAACA
1991490 TGTATCGATACAT
1 TGTATCGATACAT
1991503 TGTATCGATACA
1 TGTATCGATACA
1991515 AAGCATAATG
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:1991531 original size:33 final size:32
Alignment explanation
Indices: 1991471--1991534 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 32
1991461 CAATTATCCA
*
1991471 TGTATCGATACAATGAACATGTATCGATACAT
1 TGTATCGATACAAAGAACATGTATCGATACAT
1991503 TGTATCGATACAAAGCATA-ATGTATCGATACA
1 TGTATCGATACAAAG-A-ACATGTATCGATACA
1991535 AACATTTGGG
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
32 14 0.48
33 14 0.48
34 1 0.03
ACGTcount: A:0.39, C:0.16, G:0.16, T:0.30
Consensus pattern (32 bp):
TGTATCGATACAAAGAACATGTATCGATACAT
Found at i:1992081 original size:21 final size:21
Alignment explanation
Indices: 1992056--1992097 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
1992046 GGCTCTCGTT
* * *
1992056 AAAATTTTTTCCCTTTGATAA
1 AAAATTTCTCCCCCTTGATAA
1992077 AAAATTTCTCCCCCTTGATAA
1 AAAATTTCTCCCCCTTGATAA
1992098 TCGGTTAAAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.33, C:0.21, G:0.05, T:0.40
Consensus pattern (21 bp):
AAAATTTCTCCCCCTTGATAA
Found at i:1992354 original size:23 final size:23
Alignment explanation
Indices: 1992327--1992370 Score: 88
Period size: 23 Copynumber: 1.9 Consensus size: 23
1992317 ATTACAAGGA
1992327 AAGTCACAATAATAATCAAAACC
1 AAGTCACAATAATAATCAAAACC
1992350 AAGTCACAATAATAATCAAAA
1 AAGTCACAATAATAATCAAAA
1992371 TGGAAGGGGT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.59, C:0.18, G:0.05, T:0.18
Consensus pattern (23 bp):
AAGTCACAATAATAATCAAAACC
Found at i:1993163 original size:22 final size:21
Alignment explanation
Indices: 1993128--1993177 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 21
1993118 TTTGTTGATG
*
1993128 ATTTTG-A-TGAAAAATGAAGT
1 ATTTTGAAGTGAAAAAT-AAGA
1993148 ATTTTGAAGTGAAAAATAAGA
1 ATTTTGAAGTGAAAAATAAGA
*
1993169 AGTTTGAAG
1 ATTTTGAAG
1993178 AAGATTTGAT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
20 6 0.23
21 12 0.46
22 8 0.31
ACGTcount: A:0.46, C:0.00, G:0.22, T:0.32
Consensus pattern (21 bp):
ATTTTGAAGTGAAAAATAAGA
Found at i:1993174 original size:21 final size:22
Alignment explanation
Indices: 1993135--1993177 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
1993125 ATGATTTTGA
* *
1993135 TGAAAAATGAAGTATTTTGAAG
1 TGAAAAATGAAGAAGTTTGAAG
1993157 TGAAAAAT-AAGAAGTTTGAAG
1 TGAAAAATGAAGAAGTTTGAAG
1993178 AAGATTTGAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 11 0.58
22 8 0.42
ACGTcount: A:0.49, C:0.00, G:0.23, T:0.28
Consensus pattern (22 bp):
TGAAAAATGAAGAAGTTTGAAG
Found at i:1993304 original size:13 final size:13
Alignment explanation
Indices: 1993286--1993311 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1993276 TAGTAACCTT
1993286 TGTATCGATACAA
1 TGTATCGATACAA
1993299 TGTATCGATACAA
1 TGTATCGATACAA
1993312 CGAATATTGT
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:1995010 original size:11 final size:11
Alignment explanation
Indices: 1994994--1995023 Score: 60
Period size: 11 Copynumber: 2.7 Consensus size: 11
1994984 GCCGTTATAA
1994994 GCTTGTTTGGT
1 GCTTGTTTGGT
1995005 GCTTGTTTGGT
1 GCTTGTTTGGT
1995016 GCTTGTTT
1 GCTTGTTT
1995024 TCATGCTTTC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.00, C:0.10, G:0.33, T:0.57
Consensus pattern (11 bp):
GCTTGTTTGGT
Found at i:1995152 original size:13 final size:13
Alignment explanation
Indices: 1995134--1995164 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
1995124 ACATTTCTTC
1995134 ATGTATCGATACA
1 ATGTATCGATACA
1995147 ATGTATCGATACA
1 ATGTATCGATACA
*
1995160 TTGTA
1 ATGTA
1995165 CCATTTATCG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.35
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1995174 original size:33 final size:32
Alignment explanation
Indices: 1995114--1995180 Score: 82
Period size: 33 Copynumber: 2.0 Consensus size: 32
1995104 GTTACAAGCT
*
1995114 ATGTATCGATACATTTCTTCATGTATCGATACA
1 ATGTATCGATACATTTC-TCATGTATCGACACA
*
1995147 ATGTATCGATACATTGTAC-CATTTATCGACACA
1 ATGTATCGATACATT-T-CTCATGTATCGACACA
1995180 A
1 A
1995181 ATAGTGATAG
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
33 28 0.93
34 1 0.03
35 1 0.03
ACGTcount: A:0.33, C:0.19, G:0.12, T:0.36
Consensus pattern (32 bp):
ATGTATCGATACATTTCTCATGTATCGACACA
Found at i:1995832 original size:21 final size:21
Alignment explanation
Indices: 1995805--1995888 Score: 68
Period size: 19 Copynumber: 4.1 Consensus size: 21
1995795 AAGTTTTCAT
1995805 TTTTCTCCCCCTAT-TAAAAA
1 TTTTCTCCCCCTATATAAAAA
* ***
1995825 -TTTCTCTCCCT-TA-AACGG
1 TTTTCTCCCCCTATATAAAAA
*
1995843 TTATCTCCCCCTATATAAAAGA
1 TTTTCTCCCCCTATATAAAA-A
* *
1995865 TTTTCTCCCCTTATGTAAAAA
1 TTTTCTCCCCCTATATAAAAA
1995886 TTT
1 TTT
1995889 ATTAACAACA
Statistics
Matches: 47, Mismatches: 12, Indels: 9
0.69 0.18 0.13
Matches are distributed among these distances:
18 3 0.06
19 19 0.40
20 2 0.04
21 6 0.13
22 17 0.36
ACGTcount: A:0.27, C:0.27, G:0.05, T:0.40
Consensus pattern (21 bp):
TTTTCTCCCCCTATATAAAAA
Found at i:2003500 original size:33 final size:33
Alignment explanation
Indices: 2003463--2003529 Score: 91
Period size: 33 Copynumber: 2.0 Consensus size: 33
2003453 GTTACAAGCT
**
2003463 ATGTATCGATACATT-TCTTCATGTATCGATACA
1 ATGTATCGATACATTGT-AACATGTATCGATACA
*
2003496 ATGTATGGATACATTGTAACATGTATCGATACA
1 ATGTATCGATACATTGTAACATGTATCGATACA
2003529 A
1 A
2003530 ATAATGATAG
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
33 29 0.97
34 1 0.03
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.36
Consensus pattern (33 bp):
ATGTATCGATACATTGTAACATGTATCGATACA
Found at i:2003602 original size:19 final size:20
Alignment explanation
Indices: 2003558--2003610 Score: 81
Period size: 19 Copynumber: 2.7 Consensus size: 20
2003548 CTGCCAGTTT
*
2003558 CATGTATCGATACAATTGTC
1 CATGTATCGATACAATTGAC
*
2003578 CATGTATCGATACAA-TGAG
1 CATGTATCGATACAATTGAC
2003597 CATGTATCGATACA
1 CATGTATCGATACA
2003611 TTATATCGAT
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
19 16 0.52
20 15 0.48
ACGTcount: A:0.34, C:0.19, G:0.17, T:0.30
Consensus pattern (20 bp):
CATGTATCGATACAATTGAC
Found at i:2006165 original size:13 final size:13
Alignment explanation
Indices: 2006147--2006172 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2006137 CTATTTATGA
2006147 TGTATCGATACAC
1 TGTATCGATACAC
2006160 TGTATCGATACAC
1 TGTATCGATACAC
2006173 ACAAATATGT
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:0.23, G:0.15, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAC
Found at i:2006244 original size:10 final size:10
Alignment explanation
Indices: 2006225--2006318 Score: 59
Period size: 10 Copynumber: 9.1 Consensus size: 10
2006215 TTAACGATAC
*
2006225 ATGAATAGTG
1 ATGAACAGTG
2006235 ATGAACAGTG
1 ATGAACAGTG
2006245 ATGAACAGTG
1 ATGAACAGTG
* *
2006255 ATGTATC-GATAC
1 ATG-AACAG-T-G
2006267 ATGAA-AGTG
1 ATGAACAGTG
* *
2006276 ATGTATC-GATAC
1 ATG-AACAG-T-G
2006288 ATGAACAGTG
1 ATGAACAGTG
*
2006298 ATGAATAGTG
1 ATGAACAGTG
2006308 ATGAACAGTG
1 ATGAACAGTG
2006318 A
1 A
2006319 AAATGAGATT
Statistics
Matches: 64, Mismatches: 11, Indels: 18
0.69 0.12 0.19
Matches are distributed among these distances:
9 3 0.05
10 45 0.70
11 9 0.14
12 7 0.11
ACGTcount: A:0.39, C:0.09, G:0.27, T:0.26
Consensus pattern (10 bp):
ATGAACAGTG
Found at i:2006254 original size:44 final size:41
Alignment explanation
Indices: 2006191--2006278 Score: 122
Period size: 44 Copynumber: 2.1 Consensus size: 41
2006181 GTATCGATAC
* *
2006191 ATGAATAGTGATGAACAGTGATTTTTAACGATACATGAATAGTG
1 ATGAACAGTGATGAACAGTGA--TGTAACGATACATGAA-AGTG
*
2006235 ATGAACAGTGATGAACAGTGATGTATCGATACATGAAAGTG
1 ATGAACAGTGATGAACAGTGATGTAACGATACATGAAAGTG
2006276 ATG
1 ATG
2006279 TATCGATACA
Statistics
Matches: 41, Mismatches: 3, Indels: 3
0.87 0.06 0.06
Matches are distributed among these distances:
41 7 0.17
42 14 0.34
44 20 0.49
ACGTcount: A:0.39, C:0.08, G:0.25, T:0.28
Consensus pattern (41 bp):
ATGAACAGTGATGAACAGTGATGTAACGATACATGAAAGTG
Found at i:2006300 original size:22 final size:22
Alignment explanation
Indices: 2006245--2006300 Score: 105
Period size: 21 Copynumber: 2.6 Consensus size: 22
2006235 ATGAACAGTG
2006245 ATGAACAGTGATGTATCGATAC
1 ATGAACAGTGATGTATCGATAC
2006267 ATGAA-AGTGATGTATCGATAC
1 ATGAACAGTGATGTATCGATAC
2006288 ATGAACAGTGATG
1 ATGAACAGTGATG
2006301 AATAGTGATG
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
21 21 0.64
22 12 0.36
ACGTcount: A:0.38, C:0.11, G:0.25, T:0.27
Consensus pattern (22 bp):
ATGAACAGTGATGTATCGATAC
Found at i:2006406 original size:53 final size:53
Alignment explanation
Indices: 2006342--2006478 Score: 238
Period size: 53 Copynumber: 2.6 Consensus size: 53
2006332 CTACTTCCAA
2006342 TGTATCGATACATATTTTGTGTATCGATACAAATTTGGCTACTGCCAATGACC
1 TGTATCGATACATATTTTGTGTATCGATACAAATTTGGCTACTGCCAATGACC
* *
2006395 TGTATCGATACATATTGTGTGTATCGATACAAATTTGGCTACTGCCAATGTCC
1 TGTATCGATACATATTTTGTGTATCGATACAAATTTGGCTACTGCCAATGACC
*
2006448 TATATCGATACATATTTGTGTGTATCGATAC
1 TGTATCGATACATATTT-TGTGTATCGATAC
2006479 TATGCAATTT
Statistics
Matches: 79, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
53 66 0.84
54 13 0.16
ACGTcount: A:0.28, C:0.18, G:0.18, T:0.37
Consensus pattern (53 bp):
TGTATCGATACATATTTTGTGTATCGATACAAATTTGGCTACTGCCAATGACC
Found at i:2006491 original size:20 final size:21
Alignment explanation
Indices: 2006466--2006519 Score: 76
Period size: 20 Copynumber: 2.7 Consensus size: 21
2006456 TACATATTTG
2006466 TGTGTATCGATACTATGC-AA
1 TGTGTATCGATACTATGCAAA
* *
2006486 TTTGTATCGATAC-ATTCAAA
1 TGTGTATCGATACTATGCAAA
2006506 TGTGTATCGATACT
1 TGTGTATCGATACT
2006520 TTTCAGGGTT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
19 3 0.10
20 26 0.90
ACGTcount: A:0.30, C:0.15, G:0.17, T:0.39
Consensus pattern (21 bp):
TGTGTATCGATACTATGCAAA
Found at i:2006584 original size:21 final size:21
Alignment explanation
Indices: 2006558--2006598 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
2006548 GTCAACCTTG
2006558 TGTATTAATACCAATA-GTATA
1 TGTATTAATA-CAATACGTATA
*
2006579 TGTATTGATACAATACGTAT
1 TGTATTAATACAATACGTAT
2006599 TTTTACTTAG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.39, C:0.10, G:0.12, T:0.39
Consensus pattern (21 bp):
TGTATTAATACAATACGTATA
Found at i:2007020 original size:20 final size:20
Alignment explanation
Indices: 2006997--2007069 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
2006987 ACAACTCAAA
2006997 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
****
2007017 GTATCGATACATGAAAAAGAT
1 GTATCGATACATGTTGCA-AT
2007038 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
2007058 GTATCGATACAT
1 GTATCGATACAT
2007070 AAAAAAAGAT
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
20 28 0.64
21 16 0.36
ACGTcount: A:0.36, C:0.14, G:0.19, T:0.32
Consensus pattern (20 bp):
GTATCGATACATGTTGCAAT
Found at i:2007048 original size:41 final size:42
Alignment explanation
Indices: 2006997--2007091 Score: 174
Period size: 41 Copynumber: 2.3 Consensus size: 42
2006987 ACAACTCAAA
*
2006997 GTATCGATACATGTTGCAATGTATCGATACAT-GAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAAGAT
2007038 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAAGAT
2007080 GTATCGATACAT
1 GTATCGATACAT
2007092 TTCTTGGCAG
Statistics
Matches: 52, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
41 32 0.62
42 20 0.38
ACGTcount: A:0.40, C:0.13, G:0.18, T:0.29
Consensus pattern (42 bp):
GTATCGATACATGTTGCAATGTATCGATACATAAAAAAAGAT
Found at i:2007148 original size:13 final size:13
Alignment explanation
Indices: 2007130--2007155 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2007120 TACAGCAAGT
2007130 ATGTATCGATACA
1 ATGTATCGATACA
2007143 ATGTATCGATACA
1 ATGTATCGATACA
2007156 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:2011239 original size:15 final size:15
Alignment explanation
Indices: 2011219--2011249 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
2011209 TAAAAATGTC
*
2011219 CAAAATGAGGAAGCT
1 CAAAATGAAGAAGCT
2011234 CAAAATGAAGAAGCT
1 CAAAATGAAGAAGCT
2011249 C
1 C
2011250 CAAACGAAAT
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:0.48, C:0.16, G:0.23, T:0.13
Consensus pattern (15 bp):
CAAAATGAAGAAGCT
Found at i:2013342 original size:20 final size:21
Alignment explanation
Indices: 2013264--2013341 Score: 70
Period size: 20 Copynumber: 3.6 Consensus size: 21
2013254 ATGTCCAAAA
*
2013264 TGTATCGATACATGTTTTTG-
1 TGTATCGATACATCTTTTTGT
** *
2013284 TGTATCGATACATCTGGAAATTCT
1 TGTATCGATACATCT---TTTTGT
2013308 ATGTATCGATACAT-TTTTTGT
1 -TGTATCGATACATCTTTTTGT
2013329 TGTATCGATACAT
1 TGTATCGATACAT
2013342 TGTATCGATA
Statistics
Matches: 46, Mismatches: 7, Indels: 10
0.73 0.11 0.16
Matches are distributed among these distances:
20 27 0.59
21 3 0.07
23 2 0.04
24 1 0.02
25 13 0.28
ACGTcount: A:0.26, C:0.13, G:0.17, T:0.45
Consensus pattern (21 bp):
TGTATCGATACATCTTTTTGT
Found at i:2013346 original size:13 final size:13
Alignment explanation
Indices: 2013328--2013366 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
2013318 ACATTTTTTG
2013328 TTGTATCGATACA
1 TTGTATCGATACA
2013341 TTGTATCGATACA
1 TTGTATCGATACA
*
2013354 CTGTATCGATACA
1 TTGTATCGATACA
2013367 GGGTGATTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.31, C:0.18, G:0.15, T:0.36
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:2015194 original size:17 final size:17
Alignment explanation
Indices: 2015172--2015218 Score: 76
Period size: 17 Copynumber: 2.7 Consensus size: 17
2015162 AATTACTTGA
2015172 TTAAGGGGGAGATTTTT
1 TTAAGGGGGAGATTTTT
2015189 TTAAGGGGGAGATTTTT
1 TTAAGGGGGAGATTTTT
*
2015206 TAAACGGGGGAGA
1 TTAA-GGGGGAGA
2015219 CAAAGGAGAG
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
17 20 0.71
18 8 0.29
ACGTcount: A:0.28, C:0.02, G:0.38, T:0.32
Consensus pattern (17 bp):
TTAAGGGGGAGATTTTT
Found at i:2015847 original size:20 final size:20
Alignment explanation
Indices: 2015824--2015896 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
2015814 ACAACTCAAA
2015824 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
****
2015844 GTATCGATACATGAAAAAGAT
1 GTATCGATACATGTTGCA-AT
2015865 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
2015885 GTATCGATACAT
1 GTATCGATACAT
2015897 AAAAAAAGAT
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
20 28 0.64
21 16 0.36
ACGTcount: A:0.36, C:0.14, G:0.19, T:0.32
Consensus pattern (20 bp):
GTATCGATACATGTTGCAAT
Found at i:2015875 original size:41 final size:42
Alignment explanation
Indices: 2015824--2015918 Score: 174
Period size: 41 Copynumber: 2.3 Consensus size: 42
2015814 ACAACTCAAA
*
2015824 GTATCGATACATGTTGCAATGTATCGATACAT-GAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAAGAT
2015865 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAAGAT
2015907 GTATCGATACAT
1 GTATCGATACAT
2015919 TTCTTGGCAG
Statistics
Matches: 52, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
41 32 0.62
42 20 0.38
ACGTcount: A:0.40, C:0.13, G:0.18, T:0.29
Consensus pattern (42 bp):
GTATCGATACATGTTGCAATGTATCGATACATAAAAAAAGAT
Found at i:2015975 original size:13 final size:13
Alignment explanation
Indices: 2015957--2015982 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2015947 TACAGCAAGT
2015957 ATGTATCGATACA
1 ATGTATCGATACA
2015970 ATGTATCGATACA
1 ATGTATCGATACA
2015983 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:2020599 original size:20 final size:20
Alignment explanation
Indices: 2020574--2020631 Score: 75
Period size: 19 Copynumber: 3.0 Consensus size: 20
2020564 CTGCTAGTTT
* *
2020574 CATGTATCAATACAATTGTC
1 CATGTATCGATACAATTGTA
*
2020594 CATGTATCGATACAA-TGAA
1 CATGTATCGATACAATTGTA
2020613 CATGTATCGATAC-ATTGTA
1 CATGTATCGATACAATTGTA
2020632 TCGATACATT
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
18 1 0.03
19 18 0.55
20 14 0.42
ACGTcount: A:0.36, C:0.17, G:0.14, T:0.33
Consensus pattern (20 bp):
CATGTATCGATACAATTGTA
Found at i:2020633 original size:13 final size:13
Alignment explanation
Indices: 2020615--2020652 Score: 67
Period size: 13 Copynumber: 2.9 Consensus size: 13
2020605 ACAATGAACA
2020615 TGTATCGATACAT
1 TGTATCGATACAT
2020628 TGTATCGATACAT
1 TGTATCGATACAT
*
2020641 TGTATCAATACA
1 TGTATCGATACA
2020653 AAGCGTAATG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.34, C:0.16, G:0.13, T:0.37
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:2025732 original size:25 final size:25
Alignment explanation
Indices: 2025700--2025782 Score: 166
Period size: 25 Copynumber: 3.3 Consensus size: 25
2025690 AAATTAATAA
2025700 GTTTCCTTCAAGAATATCAAGATGT
1 GTTTCCTTCAAGAATATCAAGATGT
2025725 GTTTCCTTCAAGAATATCAAGATGT
1 GTTTCCTTCAAGAATATCAAGATGT
2025750 GTTTCCTTCAAGAATATCAAGATGT
1 GTTTCCTTCAAGAATATCAAGATGT
2025775 GTTTCCTT
1 GTTTCCTT
2025783 GGTCTTACCA
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 58 1.00
ACGTcount: A:0.29, C:0.17, G:0.16, T:0.39
Consensus pattern (25 bp):
GTTTCCTTCAAGAATATCAAGATGT
Found at i:2028509 original size:13 final size:13
Alignment explanation
Indices: 2028491--2028517 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
2028481 ATAAAGCAAG
2028491 AATGTATCGATAC
1 AATGTATCGATAC
2028504 AATGTATCGATAC
1 AATGTATCGATAC
2028517 A
1 A
2028518 CAAAAATTGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
AATGTATCGATAC
Found at i:2028515 original size:32 final size:32
Alignment explanation
Indices: 2028474--2028536 Score: 92
Period size: 32 Copynumber: 2.0 Consensus size: 32
2028464 TAGCCAAACT
*
2028474 TGTATCGATAAAGCAAGAA-TGTATCGATACAA
1 TGTATCGATAAA-CAAAAATTGTATCGATACAA
*
2028506 TGTATCGATACACAAAAATTGTATCGATACA
1 TGTATCGATAAACAAAAATTGTATCGATACA
2028537 TTAGCTTGTA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
31 5 0.18
32 23 0.82
ACGTcount: A:0.43, C:0.14, G:0.16, T:0.27
Consensus pattern (32 bp):
TGTATCGATAAACAAAAATTGTATCGATACAA
Found at i:2030161 original size:10 final size:10
Alignment explanation
Indices: 2030148--2030180 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
2030138 TTTTGGTCTT
2030148 AAAAAAAAGA
1 AAAAAAAAGA
2030158 AAAAAAAAGA
1 AAAAAAAAGA
2030168 ACAAAAAAA-A
1 A-AAAAAAAGA
2030178 AAA
1 AAA
2030181 GAAATCAAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
9 2 0.09
10 13 0.59
11 7 0.32
ACGTcount: A:0.91, C:0.03, G:0.06, T:0.00
Consensus pattern (10 bp):
AAAAAAAAGA
Found at i:2030954 original size:22 final size:20
Alignment explanation
Indices: 2030906--2030964 Score: 73
Period size: 20 Copynumber: 2.9 Consensus size: 20
2030896 ACTGCCAAGG
2030906 AAATGTATCGATACATTAAT
1 AAATGTATCGATACATTAAT
*
2030926 AAATGTATCGATACATGCTTAT
1 AAATGTATCGATACAT--TAAT
* *
2030948 AATTGTATTGATACATT
1 AAATGTATCGATACATT
2030965 TCTCATTGTA
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
20 17 0.50
22 17 0.50
ACGTcount: A:0.39, C:0.10, G:0.12, T:0.39
Consensus pattern (20 bp):
AAATGTATCGATACATTAAT
Found at i:2032452 original size:119 final size:119
Alignment explanation
Indices: 2032276--2032500 Score: 344
Period size: 119 Copynumber: 1.9 Consensus size: 119
2032266 TGACATTCAC
* *
2032276 ACCACTCTTTTCCTTCTATCACGGACATTCAAACGTCCAAGACTCGAGCTTGGACCCGTAAACAC
1 ACCACTCTTTTCCTTCTATCACGGACATTCAAACGACCAACACTCGAGCTTGGACCCGTAAACAC
**
2032341 TAAGAAAATTGAAACTCACCTCTA-TTTTGCTCTGTTTCTTGTTGGCAGCAAGTT
66 TAAGAAAACCGAAACTCACCT-TAGTTTTGCTCTGTTTCTTGTTGGCAGCAAGTT
** ** *
2032395 ACCACTCTTTTCCTTCTATCACGGATGTTCGGACGACCATCACTCGAGCTTGGACCCGTAAACAC
1 ACCACTCTTTTCCTTCTATCACGGACATTCAAACGACCAACACTCGAGCTTGGACCCGTAAACAC
*
2032460 TAAGAAAACCGAAACTCTCCTTAGTTTTGCTCTGTTTCTTG
66 TAAGAAAACCGAAACTCACCTTAGTTTTGCTCTGTTTCTTG
2032501 CTAGCAATAA
Statistics
Matches: 95, Mismatches: 10, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
118 2 0.02
119 93 0.98
ACGTcount: A:0.25, C:0.28, G:0.16, T:0.31
Consensus pattern (119 bp):
ACCACTCTTTTCCTTCTATCACGGACATTCAAACGACCAACACTCGAGCTTGGACCCGTAAACAC
TAAGAAAACCGAAACTCACCTTAGTTTTGCTCTGTTTCTTGTTGGCAGCAAGTT
Found at i:2035183 original size:145 final size:139
Alignment explanation
Indices: 2034879--2035449 Score: 536
Period size: 144 Copynumber: 4.0 Consensus size: 139
2034869 ACCCTTCAGT
* * *
2034879 TTTTTAGTCCTCAAAGAGTAAGATGC-TTTTTTTTCAAAGCCTACACAAGCTGGTGGCACCCTTT
1 TTTTTAGTCCTAAAAGAG-AAG-TTCTTTTTTTTTCAAAGCCCACACAAGCTGGTGGCACCC-TT
* * * * * * * * *
2034943 TATTTTAGTCTTCAAAGAGTATGTCACTTCTCCTTGTT-TTTTTCAAAGCCTACATAAGTTGATG
63 TATTTTAGTCCTCAAAAAGCATGACACTTTTCCTTTTTCTTTTTCAAAGCCCACACAAGCTGATG
**
2035007 GCATGCTTTACC
128 GCACCCTTTACC
* * * *
2035019 TTTATCTTAGTCCTCAAAGAGCAAGTTACTTTTTTTTTTAAAGCCCATATAAGCTGGTGGCACCC
1 -TT-T-TTAGTCCTAAAAGAG-AAGTT-CTTTTTTTTTCAAAGCCCACACAAGCTGGTGGCACCC
* * * ** *
2035084 TTTATTTTAGTCTTCAAAGAGCAGGATGCTTTTCCTTTTCCTTTCTTCAAAGCCCACACAAGCTG
61 TTTATTTTAGTCCTCAAAAAGCATGACACTTTTCCTTTTTCTTT-TTCAAAGCCCACACAAGCTG
2035149 ATGGCACCCTTTACC
125 ATGGCACCCTTTACC
* * * *
2035164 TTTTTAGTCCTAAAAAAAGATGACGTTTTTTCTTTTTTCAAAGCCCACACAAGTTGGTAGCACCC
1 TTTTTAGTCCT---AAAAGA-GAAGTTCTTT-TTTTTTCAAAGCCCACACAAGCTGGTGGCACCC
* * * * * * *
2035229 TTTATTTTAGTCCTAAAAAAGCAAGACGCTTTTCTTTTTTCTTTTTTAAAGCACACACAAGCTGG
61 TTTATTTTAGTCCTCAAAAAGCATGACACTTTTCCTTTTTCTTTTTCAAAGCCCACACAAGCTGA
*
2035294 TGACACCCTTTACC
126 TGGCACCCTTTACC
** *
2035308 TTTTTAGTCCTCTAAGAGTAAGATGT-TTCTTCCTTTTTCAAAGCCCACACAAGGTGGTGGCACC
1 TTTTTAGTCCTAAAAGAG-AAG-T-TCTT-TT--TTTTTCAAAGCCCACACAAGCTGGTGGCACC
* * * *
2035372 TTTTATTTTAGTCCTCAAAAAGCATGACACTTTTCTTTTTTCTTTTTAAAAGCCCATACAAGCTG
60 CTTTATTTTAGTCCTCAAAAAGCATGACACTTTTCCTTTTTCTTTTTCAAAGCCCACACAAGCTG
* *
2035437 GTGGCGCCCTTTA
125 ATGGCACCCTTTA
2035450 TTTTAGTCTT
Statistics
Matches: 361, Mismatches: 52, Indels: 31
0.81 0.12 0.07
Matches are distributed among these distances:
140 1 0.00
141 8 0.02
142 14 0.04
143 54 0.15
144 179 0.50
145 104 0.29
146 1 0.00
ACGTcount: A:0.25, C:0.23, G:0.15, T:0.38
Consensus pattern (139 bp):
TTTTTAGTCCTAAAAGAGAAGTTCTTTTTTTTTCAAAGCCCACACAAGCTGGTGGCACCCTTTAT
TTTAGTCCTCAAAAAGCATGACACTTTTCCTTTTTCTTTTTCAAAGCCCACACAAGCTGATGGCA
CCCTTTACC
Found at i:2035478 original size:73 final size:71
Alignment explanation
Indices: 2034908--2035665 Score: 457
Period size: 73 Copynumber: 10.5 Consensus size: 71
2034898 AAGATGCTTT
* * * *
2034908 TTTTTCAAAGCCTACACAAGCTGGTGGCACCCTTTTATTTTAGTCTTCAAAGAGTATG-TCACTT
1 TTTTTCAAAGCCCACACAAGCTGGTGGCACCC-TTTATTTTAGTCTTTAAAGAGCA-GAT-GCTT
** *
2034972 CTCCTTGTT-
63 -TTTTTTTTC
* * * * * * *
2034981 TTTTTCAAAGCCTACATAAGTTGATGGCATGCTTTACCTTTATCTTAGTCCTCAAAGAGCA-A-G
1 TTTTTCAAAGCCCACACAAGCTGGTGGCA--C----CCTTTATTTTAGTCTTTAAAGAGCAGATG
**
2035044 --TTACTTTTT-
60 CTTTTTTTTTTC
* * *
2035053 TTTTT-AAAGCCCATATAAGCTGGTGGCACCCTTTATTTTAGTCTTCAAAGAGCAGGATGCTTTT
1 TTTTTCAAAGCCCACACAAGCTGGTGGCACCCTTTATTTTAGTCTTTAAAGAGCA-GATGCTTTT
* *
2035117 CCTTTTCC
65 -TTTTTTC
* * **
2035125 TTTCTTCAAAGCCCACACAAGCTGATGGCACCCTTTACCTTTTTAGTC-CTAAA-AAAAGATGAC
1 TTT-TTCAAAGCCCACACAAGCTGGTGGCACCCTTTA---TTTTAGTCTTTAAAGAGCAGATG-C
* *
2035188 -GTTTTTTCT-
61 TTTTTTTTTTC
* * * * * *
2035197 TTTTTCAAAGCCCACACAAGTTGGTAGCACCCTTTATTTTAGTCCTAAAAAAGCAAGACGCTTTT
1 TTTTTCAAAGCCCACACAAGCTGGTGGCACCCTTTATTTTAGTCTTTAAAGAGC-AGATGCTTTT
2035262 CTTTTTTC
65 -TTTTTTC
* * * * *
2035270 TTTTTTAAAGCACACACAAGCTGGTGACACCCTTTACCTTTTTAGTCCTCT-AAGAGTAAGATG-
1 TTTTTCAAAGCCCACACAAGCTGGTGGCACCCTTTA---TTTTAGT-CTTTAAAGAG-CAGATGC
* *
2035333 ---TTTCTTCC
61 TTTTTTTTTTC
* * * * * **
2035341 TTTTTCAAAGCCCACACAAGGTGGTGGCACCTTTTATTTTAGTCCTCAAAAAGCATGACACTTTT
1 TTTTTCAAAGCCCACACAAGCTGGTGGCACCCTTTATTTTAGTCTTTAAAGAGCA-GATGCTTTT
2035406 CTTTTTTC
65 -TTTTTTC
* * * *
2035414 TTTTTAAAAGCCCATACAAGCTGGTGGCGCCCTTTATTTTAGTCTTTAGAGAGCAGCATGCTTTT
1 TTTTTCAAAGCCCACACAAGCTGGTGGCACCCTTTATTTTAGTCTTTAAAGAGCAG-ATGCTTTT
2035479 TCTTTTTC
65 T-TTTTTC
* * * **
2035487 TTTTTTTAAAGCCCACACAAGCTGGTGGCACCTTTTACCTTTTTAGTCCTTAAAGAGTGGAATG-
1 -TTTTTCAAAGCCCACACAAGCTGGTGGCACCCTTTA---TTTTAGTCTTTAAAGAGCAG-ATGC
2035551 TTTTTTTTTTC
61 TTTTTTTTTTC
* * * *
2035562 -----CAAAGCCCACATAAGCTGGTGGCACCTTTTATTTTAGT-TCTTGAAGAGCAAAATGCTTT
1 TTTTTCAAAGCCCACACAAGCTGGTGGCACCCTTTATTTTAGTCT-TTAAAGAGC-AGATGCTTT
2035621 TTGTTTTTC
64 TT-TTTTTC
* * *
2035630 TTTTCCAAAGCCCACACAAGTTGGTTGCACCCTTTA
1 TTTTTCAAAGCCCACACAAGCTGGTGGCACCCTTTA
2035666 CCTTTTGGTC
Statistics
Matches: 536, Mismatches: 96, Indels: 106
0.73 0.13 0.14
Matches are distributed among these distances:
65 23 0.04
66 17 0.03
67 8 0.01
68 28 0.05
69 33 0.06
70 4 0.01
71 96 0.18
72 26 0.05
73 153 0.29
74 65 0.12
75 10 0.02
76 23 0.04
77 28 0.05
78 20 0.04
79 2 0.00
ACGTcount: A:0.24, C:0.22, G:0.15, T:0.39
Consensus pattern (71 bp):
TTTTTCAAAGCCCACACAAGCTGGTGGCACCCTTTATTTTAGTCTTTAAAGAGCAGATGCTTTTT
TTTTTC
Found at i:2035481 original size:144 final size:142
Alignment explanation
Indices: 2034907--2035665 Score: 516
Period size: 144 Copynumber: 5.3 Consensus size: 142
2034897 TAAGATGCTT
* * * * * * *
2034907 TTTTTTCAAAGCCTACACAAGCTGGTGGCACCCTTTTATTTTAGTCTTCAAAGAGTATGTCACTT
1 TTTTTTCAAAGCCCACACAAGCTGGTGGCACCC-TTTATTTTAGTCCTCAAAAAGCAAGACGCTT
* * * * * * * * ** *
2034972 CTCCTTGTT-TTTTTCAAAGCCTACATAAGTTGATGGCATGCTTTACCTTTATCTTAGTCCTCAA
65 TTCTTTTTTCTTTTTAAAAGCCCACACAAGCTGGTGGCACCCTTTA-C--T-T-TTAGT-CTCTA
* *
2035036 AGAGCAAGTTAC--TT-TT-
124 AGAG-AAGATGCTTTTCTTC
* * * * * *
2035052 TTTTTT-AAAGCCCATATAAGCTGGTGGCACCCTTTATTTTAGTCTTCAAAGAGCAGGATGCTTT
1 TTTTTTCAAAGCCCACACAAGCTGGTGGCACCCTTTATTTTAGTCCTCAAAAAGCAAGACGCTTT
* * * * * *
2035116 TCCTTTTCCTTTCTTCAAAGCCCACACAAGCTGATGGCACCCTTTACCTTTTTAGTC-CTAAAAA
66 TCTTTTTTCTTT-TTAAAAGCCCACACAAGCTGGTGGCACCCTTTA-C-TTTTAGTCTCTAAGAG
2035180 AAGATGACGTTTT-TTC
128 AAGATG-C-TTTTCTTC
* * *
2035196 TTTTTTCAAAGCCCACACAAGTTGGTAGCACCCTTTATTTTAGTCCTAAAAAAGCAAGACGCTTT
1 TTTTTTCAAAGCCCACACAAGCTGGTGGCACCCTTTATTTTAGTCCTCAAAAAGCAAGACGCTTT
* * *
2035261 TCTTTTTTCTTTTTTAAAGCACACACAAGCTGGTGACACCCTTTACCTTTTTAGTCCTCTAAGAG
66 TCTTTTTTCTTTTTAAAAGCCCACACAAGCTGGTGGCACCCTTTA-C-TTTTAGT-CTCTAAGAG
2035326 TAAGATG--TTTCTTC
128 -AAGATGCTTTTCTTC
* * * * *
2035340 CTTTTTCAAAGCCCACACAAGGTGGTGGCACCTTTTATTTTAGTCCTCAAAAAGCATGACACTTT
1 TTTTTTCAAAGCCCACACAAGCTGGTGGCACCCTTTATTTTAGTCCTCAAAAAGCAAGACGCTTT
* * * *
2035405 TCTTTTTTCTTTTTAAAAGCCCATACAAGCTGGTGGCGCCCTTTA-TTTTAGTCTTTAGAGAGCA
66 TCTTTTTTCTTTTTAAAAGCCCACACAAGCTGGTGGCACCCTTTACTTTTAGTCTCTA-AGAGAA
2035469 GCATGCTTTTTCTTTTTC
130 G-ATGC-TTTTC---TTC
* * * * ** *
2035487 TTTTTTTAAAGCCCACACAAGCTGGTGGCACCTTTTACCTTTTTAGTCCTTAAAGAG-TGGAATG
1 TTTTTTCAAAGCCCACACAAGCTGGTGGCACCCTTTA---TTTTAGTCCTCAAAAAGCAAG-ACG
* * *
2035551 -TTTT-TTTTTTC-----CAAAGCCCACATAAGCTGGTGGCACCTTTTA-TTTTAGT-TCTTGAA
62 CTTTTCTTTTTTCTTTTTAAAAGCCCACACAAGCTGGTGGCACCCTTTACTTTTAGTCTC-T-AA
* * *
2035607 GAGCAAAATGCTTTTTGTTT
125 GAG-AAGATGC-TTTTCTTC
* *
2035627 TTCTTTTCCAAAGCCCACACAAGTTGGTTGCACCCTTTA
1 TT-TTTT-CAAAGCCCACACAAGCTGGTGGCACCCTTTA
2035666 CCTTTTGGTC
Statistics
Matches: 510, Mismatches: 75, Indels: 61
0.79 0.12 0.09
Matches are distributed among these distances:
139 4 0.01
140 15 0.03
141 19 0.04
142 33 0.06
143 87 0.17
144 180 0.35
145 96 0.19
146 5 0.01
147 43 0.08
148 7 0.01
149 5 0.01
150 16 0.03
ACGTcount: A:0.24, C:0.22, G:0.15, T:0.39
Consensus pattern (142 bp):
TTTTTTCAAAGCCCACACAAGCTGGTGGCACCCTTTATTTTAGTCCTCAAAAAGCAAGACGCTTT
TCTTTTTTCTTTTTAAAAGCCCACACAAGCTGGTGGCACCCTTTACTTTTAGTCTCTAAGAGAAG
ATGCTTTTCTTC
Found at i:2035526 original size:218 final size:211
Alignment explanation
Indices: 2035048--2035599 Score: 602
Period size: 218 Copynumber: 2.6 Consensus size: 211
2035038 AGCAAGTTAC
* * * * *
2035048 TTTTTTTTTTAAAGCCCATATAAGCTGGTGGCACCCTTTA---TTTTAGTCTTCAAAGAGCAGGA
1 TTTTTTTTTTAAAGCCCACACAAGCTGGTGGCACCCTTTACCTTTTTAGTCCTCTAAGAGTAGGA
* *
2035110 TGCTTTTCCTTTTCCTTTCTTCAAAGCCCACACAAGCTGATGGCACCCTTTACCTTTTTAGTCCT
66 TG--TTT-C--TTCCTTT-TTCAAAGCCCACACAAGCTGGTGGCACCTTTTA---TTTTAGTCCT
* *
2035175 AAAAAAAGATGACGTTTTTTCTTTTTTCAAAGCCCACACAAGTTGGTAGCACCCTTTATTTTAGT
122 AAAAAAAGATGACGTTTTTTCTTTTTTAAAAGCCCACACAAGCTGGTAGCACCCTTTATTTTAGT
2035240 CCTAAAAAAGCAAGACGCTTTTCTT
187 CCTAAAAAAGCAAGACGCTTTTCTT
* * *
2035265 TTTTCTTTTTTAAAGCACACACAAGCTGGTGACACCCTTTACCTTTTTAGTCCTCTAAGAGTAAG
1 TTTT-TTTTTTAAAGCCCACACAAGCTGGTGGCACCCTTTACCTTTTTAGTCCTCTAAGAGTAGG
* *
2035330 ATGTTTCTTCCTTTTTCAAAGCCCACACAAGGTGGTGGCACCTTTTATTTTAGTCCT-CAAAAAG
65 ATGTTTCTTCCTTTTTCAAAGCCCACACAAGCTGGTGGCACCTTTTATTTTAGTCCTAAAAAAAG
* * * * * *
2035394 CATGACACTTTTCTTTTTTCTTTTTAAAAGCCCATACAAGCTGGTGGCGCCCTTTATTTTAGTCT
130 -ATG--AC-GTT-TTTTCT-TTTTTAAAAGCCCACACAAGCTGGTAGCACCCTTTATTTTAGTCC
* * * *
2035459 TTAGAGAGC-AGCATGCTTTTTCTT
189 TAAAAAAGCAAG-ACGC-TTTTCTT
*
2035483 TTTCTTTTTTTAAAGCCCACACAAGCTGGTGGCACCTTTTACCTTTTTAGTCCT-TAAAGAGT-G
1 TTT-TTTTTTTAAAGCCCACACAAGCTGGTGGCACCCTTTACCTTTTTAGTCCTCT-AAGAGTAG
*
2035546 GAATGTTT-TT--TTTTTCCAAAGCCCACATAAGCTGGTGGCACCTTTTATTTTAGT
64 G-ATGTTTCTTCCTTTTT-CAAAGCCCACACAAGCTGGTGGCACCTTTTATTTTAGT
2035600 TCTTGAAGAG
Statistics
Matches: 289, Mismatches: 30, Indels: 33
0.82 0.09 0.09
Matches are distributed among these distances:
211 6 0.02
212 13 0.04
214 2 0.01
215 37 0.13
216 50 0.17
217 56 0.19
218 101 0.35
219 4 0.01
221 20 0.07
ACGTcount: A:0.24, C:0.22, G:0.15, T:0.39
Consensus pattern (211 bp):
TTTTTTTTTTAAAGCCCACACAAGCTGGTGGCACCCTTTACCTTTTTAGTCCTCTAAGAGTAGGA
TGTTTCTTCCTTTTTCAAAGCCCACACAAGCTGGTGGCACCTTTTATTTTAGTCCTAAAAAAAGA
TGACGTTTTTTCTTTTTTAAAAGCCCACACAAGCTGGTAGCACCCTTTATTTTAGTCCTAAAAAA
GCAAGACGCTTTTCTT
Found at i:2035567 original size:69 final size:68
Alignment explanation
Indices: 2035487--2035730 Score: 205
Period size: 69 Copynumber: 3.5 Consensus size: 68
2035477 TTTCTTTTTC
*
2035487 TTTTTTT--AAAGCCCACACAAGCTGGTGGCACCTTTTACCTTTTTAGTCCTTAAAGAGTGGAAT
1 TTTTTTTCCAAAGCCCACACAAGCTGGTGGCACCTTTTACC-TTTTAGTCCTTAAAGAGAGGAAT
2035550 GTTT
65 GTTT
* * * *
2035554 TTTTTTTCCAAAGCCCACATAAGCTGGTGGCACCTTTTA--TTTTAGTTCTTGAAGAGCA-AAAT
1 TTTTTTTCCAAAGCCCACACAAGCTGGTGGCACCTTTTACCTTTTAGTCCTTAAAGAG-AGGAAT
2035616 GCTTTTTGTT
65 G-----T-TT
* * * * * *
2035626 TTTCTTTTCCAAAGCCCACACAAGTTGGTTGCACCCTTTACCTTTTGGTCCATCAAGAGCAGGAC
1 TTT-TTTTCCAAAGCCCACACAAGCTGGTGGCACCTTTTACCTTTTAGTCCTTAAAGAG-AGGA-
*
2035691 A--CTT
63 ATGTTT
* *
2035695 TTTCTTTCTCAAAGCCCACACAAGTTGGTGGCACCT
1 TTTTTTTC-CAAAGCCCACACAAGCTGGTGGCACCT
2035731 ATCTACTTCA
Statistics
Matches: 144, Mismatches: 18, Indels: 28
0.76 0.09 0.15
Matches are distributed among these distances:
66 19 0.13
67 7 0.05
68 4 0.03
69 59 0.41
71 1 0.01
72 5 0.03
73 32 0.22
75 15 0.10
76 1 0.01
77 1 0.01
ACGTcount: A:0.23, C:0.23, G:0.17, T:0.36
Consensus pattern (68 bp):
TTTTTTTCCAAAGCCCACACAAGCTGGTGGCACCTTTTACCTTTTAGTCCTTAAAGAGAGGAATG
TTT
Found at i:2035665 original size:216 final size:216
Alignment explanation
Indices: 2034879--2035665 Score: 604
Period size: 216 Copynumber: 3.7 Consensus size: 216
2034869 ACCCTTCAGT
* * *
2034879 TTTTTAGTCCTCAAAGAGTAAGATG---CTTTTTTTTCAAAGCCTACACAAGCTGGTGGCACCCT
1 TTTTTAGTCCTCTAAGAGTAAGATGTTTCTTCTTTTTCAAAGCCCACACAAGCTGGTGGCA-CCT
* * * *** * * * * * *
2034941 TTTATTTTAGTCTTCAAAGAGTATGTCACTTCTCCTTGTT-TTTTTCAAAGCCTACATAAGTTGA
65 TTTATTTTAGTCCTCAAAAAGCAAAACACTTTTCTTTTTTCTTTTTCAAAGCCCACACAAGTTGG
* * * * *
2035005 TGGCATGCTTTACCTTTATCTTAGTCCTCAAAGAGC-A-A-G--TTAC--TTTT-TTTTTTAAAG
130 TAGCA--C----CCTTTATTTTAGTCCTAAAAAAGCAAGACGCTTTTCTTTTTTCTTTTTTAAAG
* * * *
2035062 CCCATATAAGCTGGTGGCACCCTTTA--
189 CACACACAAGCTGGTGACACCCTTTACC
* * * * *
2035088 -TTTTAGTCTTCAAAGAGCAGGATGCTTTTCCTTTTCCTTTCTTCAAAGCCCACACAAGCTGATG
1 TTTTTAGTCCTCTAAGAGTAAGATG--TTT-C--TT-CTTT-TTCAAAGCCCACACAAGCTGGTG
* ** * *
2035152 GCACCCTTTACCTTTTTAGTCCT-AAAAA--AAGATGAC-GTT-TTTTCT-TTTTTCAAAGCCCA
59 GCACCTTTTA---TTTTAGTCCTCAAAAAGCAA-AACACTTTTCTTTTTTCTTTTTCAAAGCCCA
2035211 CACAAGTTGGTAGCACCCTTTATTTTAGTCCTAAAAAAGCAAGACGCTTTTCTTTTTTCTTTTTT
120 CACAAGTTGGTAGCACCCTTTATTTTAGTCCTAAAAAAGCAAGACGCTTTTCTTTTTTCTTTTTT
2035276 AAAGCACACACAAGCTGGTGACACCCTTTACC
185 AAAGCACACACAAGCTGGTGACACCCTTTACC
*
2035308 TTTTTAGTCCTCTAAGAGTAAGATGTTTCTTCCTTTTTCAAAGCCCACACAAGGTGGTGGCACCT
1 TTTTTAGTCCTCTAAGAGTAAGATGTTTCTT-CTTTTTCAAAGCCCACACAAGCTGGTGGCACCT
** * * *
2035373 TTTATTTTAGTCCTCAAAAAGCATGACACTTTTCTTTTTTCTTTTTAAAAGCCCATACAAGCTGG
65 TTTATTTTAGTCCTCAAAAAGCAAAACACTTTTCTTTTTTCTTTTTCAAAGCCCACACAAGTTGG
* * * * * * * *
2035438 TGGCGCCCTTTATTTTAGTCTTTAGAGAGC-AGCATGCTTTT-TCTTTTTCTTTTTTTAAAGCCC
130 TAGCACCCTTTATTTTAGTCCTAAAAAAGCAAG-ACGCTTTTCT-TTTTTC-TTTTTTAAAGCAC
* *
2035501 ACACAAGCTGGTGGCACCTTTTACC
192 ACACAAGCTGGTGACACCCTTTACC
* *
2035526 TTTTTAGTCCT-TAAAGAGT-GGAATGTTT-TT-TTTTTCCAAAGCCCACATAAGCTGGTGGCAC
1 TTTTTAGTCCTCT-AAGAGTAAG-ATGTTTCTTCTTTTT-CAAAGCCCACACAAGCTGGTGGCAC
* ** * ** *
2035587 CTTTTATTTTAGTTCTTGAAGAGCAAAATGCTTTT-TGTTTTTCTTTTCCAAAGCCCACACAAGT
63 CTTTTATTTTAGTCCTCAAAAAGCAAAACACTTTTCT-TTTTTCTTTTTCAAAGCCCACACAAGT
*
2035651 TGGTTGCACCCTTTA
127 TGGTAGCACCCTTTA
2035666 CCTTTTGGTC
Statistics
Matches: 468, Mismatches: 72, Indels: 69
0.77 0.12 0.11
Matches are distributed among these distances:
208 21 0.04
210 21 0.04
211 1 0.00
212 11 0.02
213 6 0.01
214 4 0.01
215 42 0.09
216 131 0.28
217 77 0.16
218 118 0.25
219 7 0.01
220 9 0.02
221 20 0.04
ACGTcount: A:0.24, C:0.22, G:0.15, T:0.39
Consensus pattern (216 bp):
TTTTTAGTCCTCTAAGAGTAAGATGTTTCTTCTTTTTCAAAGCCCACACAAGCTGGTGGCACCTT
TTATTTTAGTCCTCAAAAAGCAAAACACTTTTCTTTTTTCTTTTTCAAAGCCCACACAAGTTGGT
AGCACCCTTTATTTTAGTCCTAAAAAAGCAAGACGCTTTTCTTTTTTCTTTTTTAAAGCACACAC
AAGCTGGTGACACCCTTTACC
Found at i:2035724 original size:142 final size:141
Alignment explanation
Indices: 2035408--2035730 Score: 382
Period size: 142 Copynumber: 2.3 Consensus size: 141
2035398 ACACTTTTCT
* * * * * **
2035408 TTTTTCTTTTTAAAAGCCCATACAAGCTGGTGGCGCCCTTTATTTTAGTCTTTAGAGAGCAGCAT
1 TTTTTCTTTTTCAAAGCCCACACAAGCTGGTGGCACCTTTTATTTTAGTCTTGAGAGAGCAAAAT
** * *
2035473 GCTTTTTCTTTTTCTTTTTTTAAAGCCCACACAAGCTGGTGGCACCTTTTACCTTTTTAGTCCTT
66 GCTTTTTCTTTTTCTTTTTCCAAAGCCCACACAAGCTGGTGGCACCCTTTACCTTTTTAGTCCAT
*
2035538 AAAGAGTGGAA
131 AAAGAGAGGAA
* *
2035549 TGTTTTTTTTTTCCAAAGCCCACATAAGCTGGTGGCACCTTTTATTTTAGTTCTTGA-AGAGCAA
1 T-TTTTCTTTTT-CAAAGCCCACACAAGCTGGTGGCACCTTTTATTTTAG-TCTTGAGAGAGCAA
* * * *
2035613 AATGCTTTTTGTTTTTC-TTTTCCAAAGCCCACACAAGTTGGTTGCACCCTTTACC-TTTTGGTC
63 AATGCTTTTTCTTTTTCTTTTTCCAAAGCCCACACAAGCTGGTGGCACCCTTTACCTTTTTAGTC
*
2035676 CATCAAGAGCAGGACA
128 CATAAAGAG-AGGA-A
* *
2035692 CTTTTTCTTTCTCAAAGCCCACACAAGTTGGTGGCACCT
1 -TTTTTCTTTTTCAAAGCCCACACAAGCTGGTGGCACCT
2035731 ATCTACTTCA
Statistics
Matches: 153, Mismatches: 23, Indels: 11
0.82 0.12 0.06
Matches are distributed among these distances:
141 15 0.10
142 70 0.46
143 62 0.41
144 6 0.04
ACGTcount: A:0.22, C:0.23, G:0.17, T:0.38
Consensus pattern (141 bp):
TTTTTCTTTTTCAAAGCCCACACAAGCTGGTGGCACCTTTTATTTTAGTCTTGAGAGAGCAAAAT
GCTTTTTCTTTTTCTTTTTCCAAAGCCCACACAAGCTGGTGGCACCCTTTACCTTTTTAGTCCAT
AAAGAGAGGAA
Found at i:2036657 original size:13 final size:13
Alignment explanation
Indices: 2036639--2036665 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
2036629 GATACATGGG
2036639 ACAATGTATTGAT
1 ACAATGTATTGAT
2036652 ACAATGTATTGAT
1 ACAATGTATTGAT
2036665 A
1 A
2036666 TATAGTAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.07, G:0.15, T:0.37
Consensus pattern (13 bp):
ACAATGTATTGAT
Found at i:2038036 original size:31 final size:31
Alignment explanation
Indices: 2037998--2038088 Score: 150
Period size: 31 Copynumber: 3.0 Consensus size: 31
2037988 AAAAAAAAAA
2037998 AAAGTCCACGACTCAGTGGCAATCTCTTCTC
1 AAAGTCCACGACTCAGTGGCAATCTCTTCTC
*
2038029 AAAGTCCACGACTCAGTGGCAATCTCTGCTC
1 AAAGTCCACGACTCAGTGGCAATCTCTTCTC
*
2038060 AAAGTCCACGACGCAGTGGC-ATC-CTTCTC
1 AAAGTCCACGACTCAGTGGCAATCTCTTCTC
2038089 TTTAAAGCCA
Statistics
Matches: 57, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
29 5 0.09
30 3 0.05
31 49 0.86
ACGTcount: A:0.25, C:0.33, G:0.19, T:0.23
Consensus pattern (31 bp):
AAAGTCCACGACTCAGTGGCAATCTCTTCTC
Found at i:2038156 original size:34 final size:34
Alignment explanation
Indices: 2038084--2038316 Score: 243
Period size: 34 Copynumber: 7.0 Consensus size: 34
2038074 AGTGGCATCC
*
2038084 TTCTCTTTAAAG-CCACAACTCCGTGGCA-C---
1 TTCTTTTTAAAGCCCACAACTCCGTGGCACCTTT
2038113 -TCTTTTTAAAGCCCACAACTCCGTGGCACCTTT
1 TTCTTTTTAAAGCCCACAACTCCGTGGCACCTTT
* *
2038146 TTCTTTTTAAAGGCCACAACTACGTGGCA-CTCTT
1 TTCTTTTTAAAGCCCACAACTCCGTGGCACCT-TT
* *
2038180 TTCCTTCT-AAGCCCACAACTCCGTGGCACTCTTT
1 TTCTTTTTAAAGCCCACAACTCCGTGGCAC-CTTT
* *
2038214 TTCCTTCT-AAGCCCACAACTCCGTGGCACTCTTTT
1 TTCTTTTTAAAGCCCACAACTCCGTGGCAC-C-TTT
* *
2038249 TTCCCTTTTAAAGCCCACAACTCCGTGGCACCTTG
1 TT-CTTTTTAAAGCCCACAACTCCGTGGCACCTTT
* * *
2038284 TTCTTTTT-AAGTCCACAACTTCGTGGCATCTTT
1 TTCTTTTTAAAGCCCACAACTCCGTGGCACCTTT
2038317 CACCCTTTCT
Statistics
Matches: 178, Mismatches: 14, Indels: 20
0.84 0.07 0.09
Matches are distributed among these distances:
28 10 0.06
29 16 0.09
30 1 0.01
33 41 0.23
34 72 0.40
35 11 0.06
36 6 0.03
37 21 0.12
ACGTcount: A:0.20, C:0.33, G:0.13, T:0.34
Consensus pattern (34 bp):
TTCTTTTTAAAGCCCACAACTCCGTGGCACCTTT
Found at i:2038230 original size:67 final size:65
Alignment explanation
Indices: 2038096--2038316 Score: 270
Period size: 67 Copynumber: 3.3 Consensus size: 65
2038086 CTCTTTAAAG
*
2038096 CCACAACTCCGTGGCACTC-TTT--TTAAAGCCCACAACTCCGTGGCACCTTTTTCTTTTTAAAG
1 CCACAACTCCGTGGCACTCTTTTCCTTTAAGCCCACAACTCCGTGGCACCTTTTTCTTTTT-AAG
*
2038158 G
65 C
* * *
2038159 CCACAACTACGTGGCACTCTTTTCCTTCTAAGCCCACAACTCCGTGGCACTCTTTTTCCTTCTAA
1 CCACAACTCCGTGGCACTCTTTTCCTT-TAAGCCCACAACTCCGTGGCAC-CTTTTTCTTTTTAA
2038224 GC
64 GC
*
2038226 CCACAACTCCGTGGCACTCTTTTTTCCCTTTTAAAGCCCACAACTCCGTGGCACCTTGTTCTTTT
1 CCACAACTCCGTGGCACTC--TTTT-CC-TTT-AAGCCCACAACTCCGTGGCACCTTTTTCTTTT
*
2038291 TAAGT
61 TAAGC
*
2038296 CCACAACTTCGTGGCA-TCTTT
1 CCACAACTCCGTGGCACTCTTT
2038317 CACCCTTTCT
Statistics
Matches: 137, Mismatches: 11, Indels: 16
0.84 0.07 0.10
Matches are distributed among these distances:
63 18 0.13
64 3 0.02
66 2 0.01
67 45 0.33
68 10 0.07
69 6 0.04
70 30 0.22
71 23 0.17
ACGTcount: A:0.20, C:0.34, G:0.13, T:0.33
Consensus pattern (65 bp):
CCACAACTCCGTGGCACTCTTTTCCTTTAAGCCCACAACTCCGTGGCACCTTTTTCTTTTTAAGC
Found at i:2038361 original size:33 final size:33
Alignment explanation
Indices: 2038320--2038490 Score: 258
Period size: 33 Copynumber: 5.2 Consensus size: 33
2038310 CATCTTTCAC
2038320 CCTT-TCTAAAGCCCACACAAGTCGGTGGCAAA
1 CCTTCTCTAAAGCCCACACAAGTCGGTGGCAAA
2038352 CCTTCTCTAAAGCCCACACAAGTCGGTGGCAAA
1 CCTTCTCTAAAGCCCACACAAGTCGGTGGCAAA
2038385 CCCTTCTCTAAAGCCCACACAAGTCGGTGGC-AA
1 -CCTTCTCTAAAGCCCACACAAGTCGGTGGCAAA
* *
2038418 CCTTCCTCCAAAGCCCACACAAGTTGGTGGC-AA
1 CCTT-CTCTAAAGCCCACACAAGTCGGTGGCAAA
* *
2038451 CCATTCTCTAAAGCCCACACTAGTCGGTGGCAAC
1 CC-TTCTCTAAAGCCCACACAAGTCGGTGGCAAA
2038485 CCTTCT
1 CCTTCT
2038491 AAGCCCAATA
Statistics
Matches: 128, Mismatches: 6, Indels: 9
0.90 0.04 0.06
Matches are distributed among these distances:
32 8 0.06
33 85 0.66
34 35 0.27
ACGTcount: A:0.27, C:0.35, G:0.18, T:0.20
Consensus pattern (33 bp):
CCTTCTCTAAAGCCCACACAAGTCGGTGGCAAA
Found at i:2038410 original size:67 final size:66
Alignment explanation
Indices: 2038318--2038490 Score: 269
Period size: 67 Copynumber: 2.6 Consensus size: 66
2038308 GGCATCTTTC
*
2038318 ACCCTT-TCTAAAGCCCACACAAGTCGGTGGCAAACCTTCTCTAAAGCCCACACAAGTCGGTGGC
1 ACCCTTCTCTAAAGCCCACACAAGTCGGTGGCAAACCTTCTCCAAAGCCCACACAAGTCGGTGGC
2038382 AA
66 -A
*
2038384 ACCCTTCTCTAAAGCCCACACAAGTCGGTGGC-AACCTTCCTCCAAAGCCCACACAAGTTGGTGG
1 ACCCTTCTCTAAAGCCCACACAAGTCGGTGGCAAACCTT-CTCCAAAGCCCACACAAGTCGGTGG
2038448 CA
65 CA
* * *
2038450 ACCATTCTCTAAAGCCCACACTAGTCGGTGGCAACCCTTCT
1 ACCCTTCTCTAAAGCCCACACAAGTCGGTGGCAAACCTTCT
2038491 AAGCCCAATA
Statistics
Matches: 99, Mismatches: 5, Indels: 6
0.90 0.05 0.05
Matches are distributed among these distances:
66 45 0.45
67 54 0.55
ACGTcount: A:0.28, C:0.35, G:0.17, T:0.20
Consensus pattern (66 bp):
ACCCTTCTCTAAAGCCCACACAAGTCGGTGGCAAACCTTCTCCAAAGCCCACACAAGTCGGTGGC
A
Found at i:2038548 original size:49 final size:49
Alignment explanation
Indices: 2038490--2039512 Score: 1208
Period size: 49 Copynumber: 20.7 Consensus size: 49
2038480 GCAACCCTTC
* * * *
2038490 TAAGCCCAATATAGCTGGCCCTGAATCAGCATATTGGCACCTTCATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
*
2038539 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACC-TCACCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
*
2038587 TAAGTTCAATGTAGCTGGCCTTGAATCAGCACATTGGCA----C--CTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* * * *
2038630 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATCGACACCTTTTCCATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACC--TT-CATCTT
* *
2038682 TAAGTTCAATGTAGCTGGCCTTGAATCAGCACATTGACATCCTTTTTCATCATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA-CC----T--TCATCTT
* * * * * * * * *
2038738 TAAGCCCAATATCGTTGGCCGTGAATCAACATATTGGCATCTTTATCACTTTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA-C-CT-TCA-TCTT
* * * * * ** * ** * *
2038791 CTCA-TCTTCATCTTTAAGTCCAATGTCGCTGGCCT-TG-A-ATCAGCACATTGGCACCTT
1 -TAAGTC--CA-ATGT-AG--C--TGGC-CTTGAATCAGCACATTGGCACCTT--CATCTT
* * *
2038848 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
*
2038897 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
*
2038946 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACC-TCATCTA
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
*
2038994 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
2039043 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACC-TCATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
*
2039091 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
2039140 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACC-TCATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
*
2039188 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
2039237 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACC-TCATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
*
2039285 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
*
2039334 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACC-TCACCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
2039382 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA----C--CTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* * *
2039425 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATCGGCACCTTTTCCATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACC--TT-CATCTT
*
2039477 TAAGTTCAATGTAGCTGGCCTTGAATCAGCACATTG
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTG
2039513 ACATCCTTTT
Statistics
Matches: 849, Mismatches: 80, Indels: 87
0.84 0.08 0.09
Matches are distributed among these distances:
43 76 0.09
45 2 0.00
48 280 0.33
49 318 0.37
50 3 0.00
51 9 0.01
52 77 0.09
53 8 0.01
54 4 0.00
55 7 0.01
56 43 0.05
57 7 0.01
58 3 0.00
59 5 0.01
60 1 0.00
61 3 0.00
62 3 0.00
ACGTcount: A:0.25, C:0.27, G:0.18, T:0.31
Consensus pattern (49 bp):
TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
Found at i:2038645 original size:43 final size:44
Alignment explanation
Indices: 2038485--2038717 Score: 198
Period size: 48 Copynumber: 4.9 Consensus size: 44
2038475 CGGTGGCAAC
* * * *
2038485 CCTTCTAAGCCCAATATAGCTGGCCCTGAATCAGCATATTGGCACCTTCA
1 CCTT-TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGG---C--CA
*
2038535 TCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTCA
1 CCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGG---C-CA
*
2038583 CCTTTAAGTTCAATGTAGCTGGCCTTGAATCAGCACATTGG-CA
1 CCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCCA
* **
2038626 CCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATCGACACCTTTTCCA
1 CCTTTAAGTCCAATGTAGCTGGCCTTGAATCAG-----C-ACA--TTGGCCA
* *
2038678 TCTTTAAGTTCAATGTAGCTGGCCTTGAATCAGCACATTG
1 CCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTG
2038718 ACATCCTTTT
Statistics
Matches: 159, Mismatches: 15, Indels: 24
0.80 0.08 0.12
Matches are distributed among these distances:
43 33 0.21
44 2 0.01
46 3 0.02
47 1 0.01
48 43 0.27
49 40 0.25
50 3 0.02
51 2 0.01
52 32 0.20
ACGTcount: A:0.26, C:0.27, G:0.18, T:0.30
Consensus pattern (44 bp):
CCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCCA
Found at i:2038716 original size:95 final size:92
Alignment explanation
Indices: 2038536--2038726 Score: 285
Period size: 95 Copynumber: 2.0 Consensus size: 92
2038526 GCACCTTCAT
* * *
2038536 CTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTCACCTTTAAGTTCAATGTAG
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATCGACACCTCACCTTTAAGTTCAATGTAG
*
2038601 CTGGCCTTGAATCAGCACATTGGCA-C
66 CTGGCCTTGAATCAGCACATTGACATC
* *
2038627 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATCGACACCTTTTCCATCTTTAAGTTCAAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATCGACACC---T-CACCTTTAAGTTCAAT
2038692 GTAGCTGGCCTTGAATCAGCACATTGACATC
62 GTAGCTGGCCTTGAATCAGCACATTGACATC
2038723 CTTT
1 CTTT
2038727 TTCATCATCT
Statistics
Matches: 89, Mismatches: 6, Indels: 5
0.89 0.06 0.05
Matches are distributed among these distances:
91 40 0.45
94 1 0.01
95 43 0.48
96 5 0.06
ACGTcount: A:0.26, C:0.26, G:0.17, T:0.31
Consensus pattern (92 bp):
CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATCGACACCTCACCTTTAAGTTCAATGTAG
CTGGCCTTGAATCAGCACATTGACATC
Found at i:2038763 original size:56 final size:52
Alignment explanation
Indices: 2038627--2038765 Score: 170
Period size: 52 Copynumber: 2.6 Consensus size: 52
2038617 ACATTGGCAC
*
2038627 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATCGACACCTTTTCCAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATCGACACCTTTTCCAT
* * *
2038679 CTTTAAGTTCAATGTAGCTGGCCTTGAATCAGCACATTGACATCCTTTTTCATCAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATCGACA-CC-TTTTC--CAT
* * * *
2038735 CTTTAAGCCCAATATCGTTGGCCGTGAATCA
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCA
2038766 ACATATTGGC
Statistics
Matches: 73, Mismatches: 10, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
52 38 0.52
53 2 0.03
54 5 0.07
56 28 0.38
ACGTcount: A:0.26, C:0.25, G:0.15, T:0.34
Consensus pattern (52 bp):
CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATCGACACCTTTTCCAT
Found at i:2039028 original size:97 final size:97
Alignment explanation
Indices: 2038798--2039512 Score: 1184
Period size: 97 Copynumber: 7.4 Consensus size: 97
2038788 TTTCTCATCT
* *
2038798 TCATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCA----C--CTTTAAGTCCAA
1 TCATCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCCAA
* * *
2038857 TATCGCTGGCCTTGAATCAGCATATTGGCACC
66 TGTAGCTGGCCTTGAATCAGCACATTGGCACC
2038889 TTCATCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCCA
1 -TCATCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCCA
2038954 ATGTAGCTGGCCTTGAATCAGCACATTGGCACC
65 ATGTAGCTGGCCTTGAATCAGCACATTGGCACC
*
2038987 TCATCTATAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCCAA
1 TCATCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCCAA
2039052 TGTAGCTGGCCTTGAATCAGCACATTGGCACC
66 TGTAGCTGGCCTTGAATCAGCACATTGGCACC
2039084 TCATCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCCAA
1 TCATCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCCAA
2039149 TGTAGCTGGCCTTGAATCAGCACATTGGCACC
66 TGTAGCTGGCCTTGAATCAGCACATTGGCACC
2039181 TCATCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCCAA
1 TCATCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCCAA
2039246 TGTAGCTGGCCTTGAATCAGCACATTGGCACC
66 TGTAGCTGGCCTTGAATCAGCACATTGGCACC
2039278 TCATCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCCAA
1 TCATCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCCAA
2039343 TGTAGCTGGCCTTGAATCAGCACATTGGCACC
66 TGTAGCTGGCCTTGAATCAGCACATTGGCACC
* *
2039375 TCACCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA----C--CTTTAAGTCCAA
1 TCATCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCCAA
* * *
2039434 TATAGCTGGCCTTGAATCAGCATATCGGCACC
66 TGTAGCTGGCCTTGAATCAGCACATTGGCACC
* *
2039466 TTTTCCATCTTTAAGTTCAATGTAGCTGGCCTTGAATCAGCACATTG
1 ---T-CATCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTG
2039513 ACATCCTTTT
Statistics
Matches: 599, Mismatches: 14, Indels: 17
0.95 0.02 0.03
Matches are distributed among these distances:
91 41 0.07
92 44 0.07
93 1 0.00
94 1 0.00
95 40 0.07
96 1 0.00
97 430 0.72
98 41 0.07
ACGTcount: A:0.24, C:0.27, G:0.18, T:0.30
Consensus pattern (97 bp):
TCATCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCCAA
TGTAGCTGGCCTTGAATCAGCACATTGGCACC
Found at i:2040402 original size:13 final size:13
Alignment explanation
Indices: 2040384--2040408 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2040374 CATAAAATGT
2040384 TGTATCGATACAA
1 TGTATCGATACAA
2040397 TGTATCGATACA
1 TGTATCGATACA
2040409 TATTTTTTTG
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:2040406 original size:33 final size:33
Alignment explanation
Indices: 2040364--2040430 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
2040354 TTCAACAATC
2040364 TGTATCGATACATAAAATGTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
*** *
2040397 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
2040430 T
1 T
2040431 TTAAGCTACT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.34, C:0.12, G:0.13, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATAAAATGTTGTATCGATACAA
Found at i:2040490 original size:13 final size:13
Alignment explanation
Indices: 2040472--2040496 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2040462 ATTACTCACA
2040472 TGTATCGATACAT
1 TGTATCGATACAT
2040485 TGTATCGATACA
1 TGTATCGATACA
2040497 CTGATCTTTG
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:2040633 original size:52 final size:52
Alignment explanation
Indices: 2040505--2040625 Score: 217
Period size: 52 Copynumber: 2.3 Consensus size: 52
2040495 CACTGATCTT
2040505 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATGATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATGATAAAA
*
2040557 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACT-ATTAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACA-TGATAAAA
2040609 TGTATCGATACATGCAG
1 TGTATCGATACATGCAG
2040626 ATAAATTTTC
Statistics
Matches: 67, Mismatches: 1, Indels: 2
0.96 0.01 0.03
Matches are distributed among these distances:
52 66 0.99
53 1 0.01
ACGTcount: A:0.35, C:0.18, G:0.19, T:0.28
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATGATAAAA
Found at i:2045224 original size:15 final size:15
Alignment explanation
Indices: 2045199--2045234 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
2045189 AAATAAATAA
2045199 AAAATTATTGAAAAG
1 AAAATTATTGAAAAG
* *
2045214 GAAATTCTTGAAAAG
1 AAAATTATTGAAAAG
2045229 AAAATT
1 AAAATT
2045235 GTCGAACTAG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.56, C:0.03, G:0.14, T:0.28
Consensus pattern (15 bp):
AAAATTATTGAAAAG
Found at i:2050314 original size:111 final size:109
Alignment explanation
Indices: 2050168--2050382 Score: 403
Period size: 111 Copynumber: 2.0 Consensus size: 109
2050158 TCATGAGGCA
2050168 AAAAATGATAATAAAAAAATACAACTAACACCATATATAAGCTAACAAATCACATTCCTTCTTCA
1 AAAAATGATAATAAAAAAATACAACTAACACCATATATAAGCTAACAAATCACATTCCTTCTTCA
2050233 CATAATTAAATAAACTTGAAAACATGATGAACATACATGATAAT
66 CATAATTAAATAAACTTGAAAACATGATGAACATACATGATAAT
*
2050277 AAAAATGATAATTAAAAAAAATGCAACTAACACCATATATAAGCTAACAAATCACATTCCTTCTT
1 AAAAATGATAA-T-AAAAAAATACAACTAACACCATATATAAGCTAACAAATCACATTCCTTCTT
2050342 CACATAATTAAATAAACTTGAAAACATGATGAACATACATG
64 CACATAATTAAATAAACTTGAAAACATGATGAACATACATG
2050383 CTGATATATA
Statistics
Matches: 103, Mismatches: 1, Indels: 2
0.97 0.01 0.02
Matches are distributed among these distances:
109 11 0.11
110 1 0.01
111 91 0.88
ACGTcount: A:0.52, C:0.17, G:0.06, T:0.26
Consensus pattern (109 bp):
AAAAATGATAATAAAAAAATACAACTAACACCATATATAAGCTAACAAATCACATTCCTTCTTCA
CATAATTAAATAAACTTGAAAACATGATGAACATACATGATAAT
Found at i:2051847 original size:42 final size:42
Alignment explanation
Indices: 2051810--2053919 Score: 1008
Period size: 42 Copynumber: 48.9 Consensus size: 42
2051800 CAGTCTTCAA
* * *
2051810 GGTCAAAGCCGATAGGCAGAATGAGGGTAGAAAAGTCTGC-AG
1 GGTCAAAGCCGACAGGCAGACTAAGGGTAGAAAAGTCT-CTAG
** * * *
2051852 GGTC-AAGACTAATAGGCAGACTAAGGGTAGAAAAGTCTCCAA
1 GGTCAAAG-CCGACAGGCAGACTAAGGGTAGAAAAGTCTCTAG
** ** * *
2051894 GGTCAAAGTAGACAAACAGACTGAGGCTA-AGAAAGTCTCTAG
1 GGTCAAAGCCGACAGGCAGACTAAGGGTAGA-AAAGTCTCTAG
* * * *
2051936 GGTCAAAGCCGACAAGTAGACTAAAGGTAAAAAAGTCTCTAG
1 GGTCAAAGCCGACAGGCAGACTAAGGGTAGAAAAGTCTCTAG
* * * * *
2051978 GGTCAAAGTCGACAGGTAGATTGAGGGTATGAAAAGTCTCCAG
1 GGTCAAAGCCGACAGGCAGACTAAGGGTA-GAAAAGTCTCTAG
* * * *** *
2052021 AGTC-ACGACTGACAAATAGACTAAGGGTAGAAAAGTCTCTAA
1 GGTCAAAG-CCGACAGGCAGACTAAGGGTAGAAAAGTCTCTAG
* *
2052063 GGTCAAAGCCAACATGCAGACTAAGGGTAGAAAAGTCTCTAG
1 GGTCAAAGCCGACAGGCAGACTAAGGGTAGAAAAGTCTCTAG
* ** *
2052105 GGTCAAAGCTGACAGATAGA-TAAGGGAAGAAAAAGTCTCTAG
1 GGTCAAAGCCGACAGGCAGACTAAGGGTAG-AAAAGTCTCTAG
* * *
2052147 GGTC-AAGACTGACAAGCAGACTAAGGGTAGAAAAGTCTCCAG
1 GGTCAAAG-CCGACAGGCAGACTAAGGGTAGAAAAGTCTCTAG
* *
2052189 GGTCAAA-CTCGATAGGCAGACTAAGGGTAGGAAAGTCTCTAG
1 GGTCAAAGC-CGACAGGCAGACTAAGGGTAGAAAAGTCTCTAG
* * * *
2052231 GGTCAAAGCTGACAAGCAGACTAAGGGTAGGAAAGTCTCCAG
1 GGTCAAAGCCGACAGGCAGACTAAGGGTAGAAAAGTCTCTAG
* * * * * * *
2052273 GGTTAAAGCTGATAGGCAGACTGAGGGAAGGAAAAGTCTCCAA
1 GGTCAAAGCCGACAGGCAGACTAAGGGTA-GAAAAGTCTCTAG
** * *
2052316 GGTC-AAGATTGACAGGCAGACTAAGGGTAGAAAAGTCTCCAA
1 GGTCAAAG-CCGACAGGCAGACTAAGGGTAGAAAAGTCTCTAG
* * * *
2052358 GGTCAAAGTCGACAAGCAGACTGAA-GGTAGGAAGGTCTCTAG
1 GGTCAAAGCCGACAGGCAGACT-AAGGGTAGAAAAGTCTCTAG
* * * *
2052400 GGTCAACGCCGACAGACAGATTGAGGGTA-AGAAAGTCTCTAG
1 GGTCAAAGCCGACAGGCAGACTAAGGGTAGA-AAAGTCTCTAG
* * * * * *
2052442 GGTCAAAGCCGACAGACAGACCAAGGGAAGGAAAAATCGACAAG
1 GGTCAAAGCCGACAGGCAGACTAAGGGTA-GAAAAGTC-TCTAG
* * * * * * * * * **
2052486 CAGACTAAGGGCCAAAAAG-TGTCT-AGGGT--CAAAGTCGATA-
1 -GGTC-AA-AGCCGACAGGCAGACTAAGGGTAGAAAAGTCTCTAG
*** * * * ** *
2052526 GG-CAAA-TTTA-AGGAAGAAAAGTCTTTAGGGTCAAAGCCAATAGGTAGACTAAA
1 GGTCAAAGCCGACAGGCAG---A--C-TAAGGGT---AG--AA-AAGT-CTCT-AG
* * ** * * *
2052579 GGTAAAAAAGTCTCCAGGGTCAAAGCTAACAAGCAGATTGAGGGTAGGACAGTCTCTAG
1 GGT--CAAAGCCGACA-GG-CAGA-CTAA------------GGGTAGAAAAGTCTCTAG
** * * * *
2052638 GGTCAAAGCCGGTAGGCAGAGTAAGGGAAGGAAAAGTCTCCAA
1 GGTCAAAGCCGACAGGCAGACTAAGGGTA-GAAAAGTCTCTAG
* * * *
2052681 GGTC-AAGACCGACAAGCAGACTAAGGGAAGGAAAAGTCTCCAA
1 GGTCAAAG-CCGACAGGCAGACTAAGGGTA-GAAAAGTCTCTAG
* * *
2052724 GGTCAAAGCCGATAGGCAGACTGAGGGTAGGAAAGTCTCTAG
1 GGTCAAAGCCGACAGGCAGACTAAGGGTAGAAAAGTCTCTAG
* * * *
2052766 GGTCAAAGCCGACAGGCAGACTAAGAG-AAAGAAAGTGTCCAG
1 GGTCAAAGCCGACAGGCAGACTAAGGGTAGA-AAAGTCTCTAG
* * * * ** * *
2052808 GGTCAAAACTGACAGGTAGACTAAGGGAATTAAAGTCTCCAA
1 GGTCAAAGCCGACAGGCAGACTAAGGGTAGAAAAGTCTCTAG
* * * * * *
2052850 GGTTAAAGCCGATAAGCAGACTAAGGGAAGGAAAGTCTCTAA
1 GGTCAAAGCCGACAGGCAGACTAAGGGTAGAAAAGTCTCTAG
* ** * * *
2052892 GATCAAAGTTGACAAGCAGACTAAGGG-AAAGAAAGTCTCTAA
1 GGTCAAAGCCGACAGGCAGACTAAGGGTAGA-AAAGTCTCTAG
* * * * *
2052934 GGTTAAAGCCGATAGGCAGACTGAGGGTA-AGAAAGTCTCCAA
1 GGTCAAAGCCGACAGGCAGACTAAGGGTAGA-AAAGTCTCTAG
* * *
2052976 GGTCAAAGCTGACAGGTAGACTAAGGGTCGAAAAGTCTCTAAG
1 GGTCAAAGCCGACAGGCAGACTAAGGGTAGAAAAGTCTCT-AG
* * * * * *
2053019 AGTAAAAAAGTCTCCA-AGGTCAAAGCCGATAGATAGACTGATGGTATGAAAAGTCTCCAG
1 GGT--CAAAG-C-CGACAGG-C--AGAC--T--A-AGG------GTA-GAAAAGTCTCTAG
* * *
2053079 GGT-AAAACTGATAGGCAGACTAAGGGTAGAAAAGTCTCTAG
1 GGTCAAAGCCGACAGGCAGACTAAGGGTAGAAAAGTCTCTAG
* * * * * * * * *
2053120 AGTCAAAGTCAACAAGTAAACTAAGGGTAGGAAAGTCTCCAA
1 GGTCAAAGCCGACAGGCAGACTAAGGGTAGAAAAGTCTCTAG
* * *
2053162 GGTTAAAGCCGACAGGCAGACTAAGGGAAGAAAAGTCTCAAG
1 GGTCAAAGCCGACAGGCAGACTAAGGGTAGAAAAGTCTCTAG
** * *
2053204 GGTCAAAGTTGACAGGCAGACTAAGGGTAGAAAAGTCTCCAA
1 GGTCAAAGCCGACAGGCAGACTAAGGGTAGAAAAGTCTCTAG
* * * *
2053246 GGTCAAAGCCGACAGGCAGACTTAGGG-AAAGAAAGTCTCCAA
1 GGTCAAAGCCGACAGGCAGACTAAGGGTAGA-AAAGTCTCTAG
* * * * * * *
2053288 GATCAAAGTCGACAGACAGACTTAGGGAAAAAAAGTCTCCAG
1 GGTCAAAGCCGACAGGCAGACTAAGGGTAGAAAAGTCTCTAG
* * * * *
2053330 AGTCAAAGCCGACAGGCAGATTGAGGG-AAAGAAAGTCTTTAG
1 GGTCAAAGCCGACAGGCAGACTAAGGGTAGA-AAAGTCTCTAG
* * *
2053372 GGTCAAAGCCGACAGGCAAACTGAGGGTAGGAAAGTCT-TCAG
1 GGTCAAAGCCGACAGGCAGACTAAGGGTAGAAAAGTCTCT-AG
* * * * * * *
2053414 GGTCAAAACCGATAAGCAGACTGAGGGAAGGAAAAGCCTCCAG
1 GGTCAAAGCCGACAGGCAGACTAAGGGTA-GAAAAGTCTCTAG
* * * ** *
2053457 AGTCAAAGTCGACAGGCAGACTAAAGGTAGGGAAGTCTCCAG
1 GGTCAAAGCCGACAGGCAGACTAAGGGTAGAAAAGTCTCTAG
*** * * * * *
2053499 GGTCAAAAATGATAGGCAAACTTAGGGAAAAAAAGTCTCTAG
1 GGTCAAAGCCGACAGGCAGACTAAGGGTAGAAAAGTCTCTAG
* * * * * ** * *
2053541 GGTCAAACCCGATAGACAGACTGAGAGTAGTTAAGTCTCCAA
1 GGTCAAAGCCGACAGGCAGACTAAGGGTAGAAAAGTCTCTAG
* * * * *
2053583 GGTCAAAGCCGATAAGCAGACTGAGGGATAGGAAAGTCTCCAG
1 GGTCAAAGCCGACAGGCAGACTAAGGG-TAGAAAAGTCTCTAG
* * * *
2053626 GGTC-AAGACTGACAGGCAGACTAAGGGAAGGAAAGTCTCCAG
1 GGTCAAAG-CCGACAGGCAGACTAAGGGTAGAAAAGTCTCTAG
* * * *
2053668 GGTCAAACCCGACAGGCAGACTAAAGGAAGGAAAGTCTCTAG
1 GGTCAAAGCCGACAGGCAGACTAAGGGTAGAAAAGTCTCTAG
* *
2053710 GGTCAAAGCCGAGAGGCAGACTAAGGGATAGAAAAGTCTCCAG
1 GGTCAAAGCCGACAGGCAGACTAAGGG-TAGAAAAGTCTCTAG
* *
2053753 GGTC-AAGACTGACAGGCAGACTAAGGG-AAAGAAAGTCTCTAG
1 GGTCAAAG-CCGACAGGCAGACTAAGGGTAGA-AAAGTCTCTAG
* * * *
2053795 GGTCAAAGCCGACAAGTAGACTAAGGGATAGGAAAGTCT-TCAA
1 GGTCAAAGCCGACAGGCAGACTAAGGG-TAGAAAAGTCTCT-AG
* * * * * *
2053838 GGTCAAATCTGACAAGCAGACTAAGGGATAGGAAAGTCTCCAA
1 GGTCAAAGCCGACAGGCAGACTAAGGG-TAGAAAAGTCTCTAG
* *
2053881 GGTCAAAGCCCACAGGCAAACTAAGGGATAG-AAAGTCTC
1 GGTCAAAGCCGACAGGCAGACTAAGGG-TAGAAAAGTCTC
2053920 CAGAAATTTA
Statistics
Matches: 1591, Mismatches: 365, Indels: 224
0.73 0.17 0.10
Matches are distributed among these distances:
34 2 0.00
35 2 0.00
37 2 0.00
38 1 0.00
39 1 0.00
40 1 0.00
41 44 0.03
42 1084 0.68
43 333 0.21
44 8 0.01
45 10 0.01
46 8 0.01
47 6 0.00
48 2 0.00
49 5 0.00
50 3 0.00
51 3 0.00
52 1 0.00
53 6 0.00
54 5 0.00
55 7 0.00
56 10 0.01
57 12 0.01
58 1 0.00
59 6 0.00
60 9 0.01
61 12 0.01
62 1 0.00
64 2 0.00
67 4 0.00
ACGTcount: A:0.39, C:0.17, G:0.29, T:0.16
Consensus pattern (42 bp):
GGTCAAAGCCGACAGGCAGACTAAGGGTAGAAAAGTCTCTAG
Found at i:2053017 original size:126 final size:126
Alignment explanation
Indices: 2052539--2053919 Score: 862
Period size: 127 Copynumber: 10.8 Consensus size: 126
2052529 AAATTTAAGG
* * * * * * * *
2052539 AAGAAAAGTCTTTAGGGTCAAAGCCAATAGGTAGACTAAAGGTAAAAAAGTCTCCAGGGTCAAAG
1 AAGAAAAGTC-TCAAGGTCAAAGCCGACAGGCAGACTAAGGGTAAGAAAGTCTCCAAGGTCAAAG
* * * * * ** * *
2052604 CTAACAAGCAGATTGAGGGTAGGACAGTCTCTAGGGTCAAAGCCGGTAGGCAGAGTAAGGGA
65 CTGACAGGCAGACTAAGGGTAGGAAAGTCTCTAGGGTCAAAGCCGACAAGCAGACTAAGGGA
* *
2052666 AGGAAAAGTCTCCAAGGTC-AAGACCGACAAGCAGACTAAGGG-AAGGAAAAGTCTCCAAGGTCA
1 AAGAAAAGTCT-CAAGGTCAAAG-CCGACAGGCAGACTAAGGGTAA-G-AAAGTCTCCAAGGTCA
* * * * *
2052729 AAGCCGATAGGCAGACTGAGGGTAGGAAAGTCTCTAGGGTCAAAGCCGACAGGCAGACTAAGAGA
62 AAGCTGACAGGCAGACTAAGGGTAGGAAAGTCTCTAGGGTCAAAGCCGACAAGCAGACTAAGGGA
* * * * * * *
2052794 AAG-AAAGTGTCCAGGGTCAAAACTGACAGGTAGACTAAGGG-AATTAAAGTCTCCAAGGTTAAA
1 AAGAAAAGTCT-CAAGGTCAAAGCCGACAGGCAGACTAAGGGTAA-GAAAGTCTCCAAGGTCAAA
* * * * * * **
2052857 GCCGATAAGCAGACTAAGGGAAGGAAAGTCTCTAAGATCAAAGTTGACAAGCAGACTAAGGGA
64 GCTGACAGGCAGACTAAGGGTAGGAAAGTCTCTAGGGTCAAAGCCGACAAGCAGACTAAGGGA
* * *
2052920 AAG-AAAGTCTCTAAGGTTAAAGCCGATAGGCAGACTGAGGGTAAGAAAGTCTCCAAGGTCAAAG
1 AAGAAAAGTCTC-AAGGTCAAAGCCGACAGGCAGACTAAGGGTAAGAAAGTCTCCAAGGTCAAAG
* * * * * * ** * * *
2052984 CTGACAGGTAGACTAAGGGTCGAAAAGTCTCTAAGAGTAAAAAAGTCTCCAAG--GTCAAAGCCG
65 CTGACAGGCAGACTAAGGGTAGGAAAGTCTCT-AGGGT--CAAAGCCGACAAGCAGACTAAG-GG
2053047 A
126 A
* * * * * * * ** * *
2053048 TAG-ATAGACTGATGGTATGAAAAGTCTCCAGGGTAAAACTGATAGGCAGACTAAGGGTAGAAAA
1 AAGAAAAGTCTCAAGG--T-CAAAGCCGACA-GG-CAGACT-A-AGG--G--T-A----AG-AAA
* * * * * * * *
2053112 GTCT-CTAGAGTCAAAG-TCAACAAGTAAACTAAGGGTAGGAAAGTCTCCAAGGTTAAAGCCGAC
49 GTCTCCAAG-GTCAAAGCT-GACAGGCAGACTAAGGGTAGGAAAGTCTCTAGGGTCAAAGCCGAC
*
2053175 AGGCAGACTAAGGG-
112 AAGCAGACTAAGGGA
**
2053189 AAGAAAAGTCTCAAGGGTCAAAGTTGACAGGCAGACTAAGGGT-AGAAAAGTCTCCAAGGTCAAA
1 AAGAAAAGTCTCAA-GGTCAAAGCCGACAGGCAGACTAAGGGTAAG-AAAGTCTCCAAGGTCAAA
* * * * * * * * *
2053253 GCCGACAGGCAGACTTAGGGAAAGAAAGTCTCCAAGATCAAAGTCGAC-AGACAGACTTAGGGA
64 GCTGACAGGCAGACTAAGGGTAGGAAAGTCTCTAGGGTCAAAGCCGACAAG-CAGACTAAGGGA
* * * * ** *
2053316 AA-AAAAGTCTCCAGAGTCAAAGCCGACAGGCAGATTGAGGGAAAGAAAGTCTTTAGGGTCAAAG
1 AAGAAAAGTCTCAAG-GTCAAAGCCGACAGGCAGACTAAGGGTAAGAAAGTCTCCAAGGTCAAAG
* * * * * *
2053380 CCGACAGGCAAACTGAGGGTAGGAAAGTCT-TCAGGGTCAAAACCGATAAGCAGACTGAGGGA
65 CTGACAGGCAGACTAAGGGTAGGAAAGTCTCT-AGGGTCAAAGCCGACAAGCAGACTAAGGGA
* * * * * * * * *
2053442 AGGAAAAGCCTCCAGAGTCAAAGTCGACAGGCAGACTAAAGGTAGGGAAGTCTCCAGGGTCAAAA
1 AAGAAAAGTCTCAAG-GTCAAAGCCGACAGGCAGACTAAGGGTAAGAAAGTCTCCAAGGTCAAAG
* * * * * ** * * * *
2053507 ATGATAGGCAAACTTAGGGAAAAAAAGTCTCTAGGGTCAAACCCGA-TAGACAGACTGAGAG-
65 CTGACAGGCAGACTAAGGGTAGGAAAGTCTCTAGGGTCAAAGCCGACAAG-CAGACTAAGGGA
* ** * * * * *
2053568 TAGTTAAGTCTCCAAGGTCAAAGCCGATAAGCAGACTGAGGGATAGGAAAGTCTCCAGGGTC-AA
1 AAGAAAAGTCT-CAAGGTCAAAGCCGACAGGCAGACTAAGGG-TAAGAAAGTCTCCAAGGTCAAA
* * * * *
2053632 GACTGACAGGCAGACTAAGGGAAGGAAAGTCTCCAGGGTCAAACCCGACAGGCAGACTAAAGG-
64 G-CTGACAGGCAGACTAAGGGTAGGAAAGTCTCTAGGGTCAAAGCCGACAAGCAGACTAAGGGA
* * * *
2053695 AAGGAAAGTCTCTAGGGTCAAAGCCGAGAGGCAGACTAAGGG-ATAGAAAAGTCTCCAGGGTC-A
1 AAGAAAAGTCTC-AAGGTCAAAGCCGACAGGCAGACTAAGGGTA-AG-AAAGTCTCCAAGGTCAA
* * *
2053758 AGACTGACAGGCAGACTAAGGGAAAGAAAGTCTCTAGGGTCAAAGCCGACAAGTAGACTAAGGGA
63 AG-CTGACAGGCAGACTAAGGGTAGGAAAGTCTCTAGGGTCAAAGCCGACAAGCAGACTAAGGGA
* * * * * *
2053823 TAGGAAAGTCTTCAAGGTCAAATCTGACAAGCAGACTAAGGGATAGGAAAGTCTCCAAGGTCAAA
1 AAGAAAAGTC-TCAAGGTCAAAGCCGACAGGCAGACTAAGGG-TAAGAAAGTCTCCAAGGTCAAA
** *
2053888 GCCCACAGGCAAACTAAGGGATA-GAAAGTCTC
64 GCTGACAGGCAGACTAAGGG-TAGGAAAGTCTC
2053920 CAGAAATTTA
Statistics
Matches: 982, Mismatches: 214, Indels: 115
0.75 0.16 0.09
Matches are distributed among these distances:
125 4 0.00
126 342 0.35
127 352 0.36
128 157 0.16
129 17 0.02
130 7 0.01
131 2 0.00
132 5 0.01
134 4 0.00
136 4 0.00
137 1 0.00
138 5 0.01
139 3 0.00
140 7 0.01
141 11 0.01
142 7 0.01
143 16 0.02
144 38 0.04
ACGTcount: A:0.39, C:0.17, G:0.29, T:0.15
Consensus pattern (126 bp):
AAGAAAAGTCTCAAGGTCAAAGCCGACAGGCAGACTAAGGGTAAGAAAGTCTCCAAGGTCAAAGC
TGACAGGCAGACTAAGGGTAGGAAAGTCTCTAGGGTCAAAGCCGACAAGCAGACTAAGGGA
Found at i:2053084 original size:60 final size:60
Alignment explanation
Indices: 2052957--2053085 Score: 161
Period size: 60 Copynumber: 2.1 Consensus size: 60
2052947 AGGCAGACTG
* * *
2052957 AGGGTAAGAAAGTCTCCAAGGTCAAAGCTGACAGGTAGACTAAGGGTCGAAAAGTCTCTA
1 AGGGTAAAAAAGTCTCCAAGGTCAAAGCCGACAGATAGACTAAGGGTCGAAAAGTCTCTA
* * * * * *
2053017 AGAGTAAAAAAGTCTCCAAGGTCAAAGCCGATAGATAGACTGATGGTATGAAAAGTCTC-C
1 AGGGTAAAAAAGTCTCCAAGGTCAAAGCCGACAGATAGACTAAGGGT-CGAAAAGTCTCTA
2053077 AGGGTAAAA
1 AGGGTAAAA
2053086 CTGATAGGCA
Statistics
Matches: 58, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
60 48 0.83
61 10 0.17
ACGTcount: A:0.40, C:0.16, G:0.26, T:0.19
Consensus pattern (60 bp):
AGGGTAAAAAAGTCTCCAAGGTCAAAGCCGACAGATAGACTAAGGGTCGAAAAGTCTCTA
Found at i:2053099 original size:102 final size:101
Alignment explanation
Indices: 2052923--2053122 Score: 276
Period size: 102 Copynumber: 2.0 Consensus size: 101
2052913 TAAGGGAAAG
* * * *
2052923 AAAGTCTCTAAGGTTAAAGCCGATAGGCAGACTGAGGGTAAGAAAGTCTCCAAGGTCAAAGCTGA
1 AAAGTCTCCAAGGTCAAAGCCGATAGACAGACTGAGGGTAAGAAAGTCTCCAAGGTCAAAACTGA
* *
2052988 CAGGTAGACTAAGGGTCGAAAAGTCTCTAAGAGTAAA
66 CAGGCAGACTAAGGGTAGAAAAGTCTCT-AGAGTAAA
* * * *
2053025 AAAGTCTCCAAGGTCAAAGCCGATAGATAGACTGATGGTATGAAAAGTCTCCAGGGT-AAAACTG
1 AAAGTCTCCAAGGTCAAAGCCGATAGACAGACTGAGGGTAAG-AAAGTCTCCAAGGTCAAAACTG
*
2053089 ATAGGCAGACTAAGGGTAGAAAAGTCTCTAGAGT
65 ACAGGCAGACTAAGGGTAGAAAAGTCTCTAGAGT
2053123 CAAAGTCAAC
Statistics
Matches: 86, Mismatches: 11, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
101 5 0.06
102 68 0.79
103 13 0.15
ACGTcount: A:0.38, C:0.15, G:0.27, T:0.20
Consensus pattern (101 bp):
AAAGTCTCCAAGGTCAAAGCCGATAGACAGACTGAGGGTAAGAAAGTCTCCAAGGTCAAAACTGA
CAGGCAGACTAAGGGTAGAAAAGTCTCTAGAGTAAA
Found at i:2054974 original size:15 final size:15
Alignment explanation
Indices: 2054943--2054986 Score: 54
Period size: 15 Copynumber: 3.0 Consensus size: 15
2054933 CCGATTTGGG
**
2054943 TTTTTATTTGATT-T
1 TTTTTATTTTTTTAT
*
2054957 TTTTTGTTTTTTTAT
1 TTTTTATTTTTTTAT
2054972 TTTTTATTTTTTTAT
1 TTTTTATTTTTTTAT
2054987 GCATAATATT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
14 10 0.40
15 15 0.60
ACGTcount: A:0.11, C:0.00, G:0.05, T:0.84
Consensus pattern (15 bp):
TTTTTATTTTTTTAT
Found at i:2062431 original size:28 final size:28
Alignment explanation
Indices: 2062391--2062457 Score: 80
Period size: 28 Copynumber: 2.4 Consensus size: 28
2062381 AAAATAGGGA
* ** * *
2062391 TTGGACTATCCCCTCGGAAGTAACGGGG
1 TTGGAGTATCCCCAAGGAAATAACGAGG
*
2062419 TTGGAGTATCCCCAATGAAATAACGAGG
1 TTGGAGTATCCCCAAGGAAATAACGAGG
2062447 TTGGAGTATCC
1 TTGGAGTATCC
2062458 TCGATTGTGA
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 33 1.00
ACGTcount: A:0.27, C:0.21, G:0.28, T:0.24
Consensus pattern (28 bp):
TTGGAGTATCCCCAAGGAAATAACGAGG
Found at i:2062508 original size:54 final size:52
Alignment explanation
Indices: 2062450--2062571 Score: 138
Period size: 51 Copynumber: 2.3 Consensus size: 52
2062440 AACGAGGTTG
* * * * *
2062450 GAGTATCCTCGATTGTGAAAAAATTGGTATTTTTTGGAAATAAAGTCGGAGTTA
1 GAGTATCCCCGATTGTGAAAAAATTAG--TGTTTTGAAAATAAAATCGGAGTTA
* * *
2062504 GAGTATCCCCGATTAT-AGAAAATTAGTGTTTTGAAAATAAAATCGGAGTTG
1 GAGTATCCCCGATTGTGAAAAAATTAGTGTTTTGAAAATAAAATCGGAGTTA
*
2062555 GAATATCCCCGATTGTG
1 GAGTATCCCCGATTGTG
2062572 GAGAATTGAG
Statistics
Matches: 57, Mismatches: 10, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
51 35 0.61
53 8 0.14
54 14 0.25
ACGTcount: A:0.34, C:0.11, G:0.23, T:0.33
Consensus pattern (52 bp):
GAGTATCCCCGATTGTGAAAAAATTAGTGTTTTGAAAATAAAATCGGAGTTA
Done.