Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008750.1 Hibiscus syriacus cultivar Beakdansim tig00111841_pilon, whole genome shotgun sequence
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: 3719443
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 10 of 18
Found at i:1924480 original size:8 final size:8
Alignment explanation
Indices: 1924469--1924526 Score: 80
Period size: 8 Copynumber: 6.9 Consensus size: 8
1924459 AAAGGGAGAA
1924469 AAAAAGAG
1 AAAAAGAG
*
1924477 AAAAATAAG
1 AAAAA-GAG
1924486 AAAAAGAG
1 AAAAAGAG
1924494 AAAAAGAG
1 AAAAAGAG
1924502 AAAAAGAG
1 AAAAAGAG
1924510 AAAAAGAAG
1 AAAAAG-AG
1924519 AAAGAAGA
1 AAA-AAGA
1924527 AAGAAAACAT
Statistics
Matches: 45, Mismatches: 2, Indels: 5
0.87 0.04 0.10
Matches are distributed among these distances:
8 29 0.64
9 13 0.29
10 3 0.07
ACGTcount: A:0.76, C:0.00, G:0.22, T:0.02
Consensus pattern (8 bp):
AAAAAGAG
Found at i:1924489 original size:16 final size:16
Alignment explanation
Indices: 1924469--1924526 Score: 80
Period size: 17 Copynumber: 3.4 Consensus size: 16
1924459 AAAGGGAGAA
1924469 AAAAAGAGAAAAATAAG
1 AAAAAGAGAAAAA-AAG
*
1924486 AAAAAGAGAAAAAGAG
1 AAAAAGAGAAAAAAAG
1924502 AAAAAGAGAAAAAGAAG
1 AAAAAGAGAAAAA-AAG
1924519 AAAGAAGA
1 AAA-AAGA
1924527 AAGAAAACAT
Statistics
Matches: 37, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
16 15 0.41
17 18 0.49
18 4 0.11
ACGTcount: A:0.76, C:0.00, G:0.22, T:0.02
Consensus pattern (16 bp):
AAAAAGAGAAAAAAAG
Found at i:1924528 original size:16 final size:17
Alignment explanation
Indices: 1924465--1924526 Score: 92
Period size: 16 Copynumber: 3.7 Consensus size: 17
1924455 AAAGAAAGGG
1924465 AGAA-AAAAAGAGAAAA
1 AGAAGAAAAAGAGAAAA
*
1924481 ATAAGAAAAAGAGAAAA
1 AGAAGAAAAAGAGAAAA
1924498 AG-AGAAAAAGAGAAAA
1 AGAAGAAAAAGAGAAAA
1924514 AGAAGAAAGAAGA
1 AGAAGAAA-AAGA
1924527 AAGAAAACAT
Statistics
Matches: 41, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
16 19 0.46
17 18 0.44
18 4 0.10
ACGTcount: A:0.76, C:0.00, G:0.23, T:0.02
Consensus pattern (17 bp):
AGAAGAAAAAGAGAAAA
Found at i:1926518 original size:54 final size:52
Alignment explanation
Indices: 1926415--1926800 Score: 294
Period size: 53 Copynumber: 7.1 Consensus size: 52
1926405 TTTCTTGATA
* * * * * *
1926415 TGATGTTTTTAAACGAATTTTAAAGAAGTTAAGCTTGATGTTCAAGGGTTTCT
1 TGATGTTTTCAAA-GAATTTTAAAGAAGCTAAGCCTGATTTTTAGGGGTTTCT
* *
1926468 TGATGTTTTCAAATGAATTTTGAAAGAAGCTAAGCCTAATTTTTAGGGGTTTTT
1 TGATGTTTTCAAA-GAATTTT-AAAGAAGCTAAGCCTGATTTTTAGGGGTTTCT
* * * * *
1926522 TGATGTTTTCAAAAAGAGTTTAAAGAAGCTAAGCCCGATTTTCAAGGGTTTCT
1 TGATGTTTTCAAAGA-ATTTTAAAGAAGCTAAGCCTGATTTTTAGGGGTTTCT
1926575 TGATGATTATTTCCAAATGAATTTTGAAAGAAGCTAAGCCTGATTTTTAGGGGTTTCT
1 TGATG--T-TTT-CAAA-GAATTTT-AAAGAAGCTAAGCCTGATTTTTAGGGGTTTCT
* * * * * * * *
1926633 TGATATTTTCATGACAAGTTTT-TAGAAACAAAGACTGATTTTTAGGGGTTTGT
1 TGATGTTTTCA-AAGAA-TTTTAAAGAAGCTAAGCCTGATTTTTAGGGGTTTCT
* * *
1926686 TGATGATTATTTCTAAAGAATTTTAAAGAAGTTAA-CCTTGATTTTCAGGGGGGTTT-A
1 TGATG--T-TTTC-AAAGAATTTTAAAGAAGCTAAGCC-TGATTTTTA--GGGGTTTCT
* ** * *
1926743 TGAT-TATTTCCAAAAAAAATTAAAGAAGCTAAGCATAATTTTTAGGGGTTTCT
1 TGATGT-TTT-CAAAGAATTTTAAAGAAGCTAAGCCTGATTTTTAGGGGTTTCT
1926796 TGATG
1 TGATG
1926801 ATAATTGTAA
Statistics
Matches: 264, Mismatches: 47, Indels: 43
0.75 0.13 0.12
Matches are distributed among these distances:
52 7 0.03
53 86 0.33
54 75 0.28
55 17 0.06
56 25 0.09
57 13 0.05
58 41 0.16
ACGTcount: A:0.32, C:0.09, G:0.20, T:0.39
Consensus pattern (52 bp):
TGATGTTTTCAAAGAATTTTAAAGAAGCTAAGCCTGATTTTTAGGGGTTTCT
Found at i:1926630 original size:111 final size:109
Alignment explanation
Indices: 1926433--1926802 Score: 376
Period size: 111 Copynumber: 3.4 Consensus size: 109
1926423 TTAAACGAAT
* * *
1926433 TTTAAAGAAGTTAAGCTTGATGTTCAAGGGTTTCTTGATG--T-TTT-CAAATGAATTTTGAAAG
1 TTTAAAGAAGCTAAGCCTGATTTTCAAGGGTTTCTTGATGATTATTTCCAAATGAATTTTGAAAG
*
1926494 AAGCTAAGCCTAATTTTTAGGGGTTTTTTGATGTTTTCAAAAAGAG
66 AAGCTAAGCCTGATTTTTAGGGGTTTTTTGAT-TTTTCAAAAA-AG
*
1926540 TTTAAAGAAGCTAAGCCCGATTTTCAAGGGTTTCTTGATGATTATTTCCAAATGAATTTTGAAAG
1 TTTAAAGAAGCTAAGCCTGATTTTCAAGGGTTTCTTGATGATTATTTCCAAATGAATTTTGAAAG
* * *
1926605 AAGCTAAGCCTGATTTTTAGGGGTTTCTTGATATTTTCATGACAAG
66 AAGCTAAGCCTGATTTTTAGGGGTTTTTTGAT-TTTTCA-AAAAAG
** * * * * * * *
1926651 TTTTTAGAAACAAAGACTGATTTTTAGGGGTTTGTTGATGATTATTTCTAAA-GAATTTT-AAAG
1 TTTAAAGAAGCTAAGCCTGATTTTCAAGGGTTTCTTGATGATTATTTCCAAATGAATTTTGAAAG
* * * * *
1926714 AAGTTAA-CCTTGATTTTCAGGGGGGTTTATGATTATTTCCAAAAAAA
66 AAGCTAAGCC-TGATTTTTA-GGGGTTTTTTGATT-TTT-CAAAAAAG
* * * * *
1926761 ATTAAAGAAGCTAAGCATAATTTTTAGGGGTTTCTTGATGAT
1 TTTAAAGAAGCTAAGCCTGATTTTCAAGGGTTTCTTGATGAT
1926803 AATTGTAAAC
Statistics
Matches: 218, Mismatches: 36, Indels: 15
0.81 0.13 0.06
Matches are distributed among these distances:
107 36 0.17
108 2 0.01
109 20 0.09
110 59 0.27
111 99 0.45
112 2 0.01
ACGTcount: A:0.32, C:0.09, G:0.20, T:0.39
Consensus pattern (109 bp):
TTTAAAGAAGCTAAGCCTGATTTTCAAGGGTTTCTTGATGATTATTTCCAAATGAATTTTGAAAG
AAGCTAAGCCTGATTTTTAGGGGTTTTTTGATTTTTCAAAAAAG
Found at i:1927271 original size:59 final size:59
Alignment explanation
Indices: 1927174--1927317 Score: 200
Period size: 59 Copynumber: 2.4 Consensus size: 59
1927164 CAGGGTGTTT
* * * *
1927174 TCAATATTTCCTTTGCTTGATTCACAACACTTTGAATCAGCAACGCCTCACTTGAA-GGA
1 TCAACATTTCCTTTGCTCGATTCATAACACTTTGAATCAGCAACGCCCCACTT-AAGGGA
* *
1927233 TCAACATTTCCTTTTCTCGATTCATAACACTTTGAATCAGTAACGCCCCACTTAAGGGA
1 TCAACATTTCCTTTGCTCGATTCATAACACTTTGAATCAGCAACGCCCCACTTAAGGGA
*
1927292 TTAACATTTCCTATTGCTCGATTCAT
1 TCAACATTTCCT-TTGCTCGATTCAT
1927318 GGAATTTCAA
Statistics
Matches: 75, Mismatches: 8, Indels: 3
0.87 0.09 0.03
Matches are distributed among these distances:
58 2 0.03
59 61 0.81
60 12 0.16
ACGTcount: A:0.28, C:0.26, G:0.12, T:0.35
Consensus pattern (59 bp):
TCAACATTTCCTTTGCTCGATTCATAACACTTTGAATCAGCAACGCCCCACTTAAGGGA
Found at i:1927485 original size:287 final size:287
Alignment explanation
Indices: 1926946--1927529 Score: 734
Period size: 287 Copynumber: 2.0 Consensus size: 287
1926936 CAGGATTTTT
* * * * *
1926946 TCAATATTTTCTTTGCTCGATTCACAACACTTCGAATCAGCAATGCCTCAAATGAGGGATCAACA
1 TCAACATTTCCTTTGCTCGATTCACAACACTTCGAATCAGCAACGCCCCAAATAAGGGATCAACA
* * *
1927011 TTTCCTATTGCTCGATTCACTGCATTTCGAATCAGAAAAAGTCATCCGGGCCATCAGTAAGTCTT
66 TTTCCTATTGCTCGATTCACTGAATTTCAAATCAGAAAAAGTCATCCGGCCCATCAGTAAGTCTT
* * **
1927076 CCGAGCATGATGCTTAAATCCTTCGTGTTATCTATAAGTCTTTCGAGCAAGATGATAAGTGTTTC
131 CCGAGCATGATGCTTAAATCCTTCGGGTCATCTATAAGTCTTTCGAGCAAGATGATAAGTCCTTC
* * * * * *
1927141 GGGTCATCCATAGGACCTTCGGGCAGGGTGTTTTCAATATTTCCTTTGCTTGATTCACAACACTT
196 GGGCCATCCATAAGACCTTCAGGCAGGATGTTTTCAACATTTCCTTTGCTCGATTCACAACA-TT
* * *
1927206 T-GAATCAGCAACGCCTCACTTGA-AGGA
260 TCGAATCAACAACACCTCACTCGAGA-GA
* * * * ** *
1927233 TCAACATTTCCTTTTCTCGATTCATAACACTTTGAATCAGTAACGCCCCACTTAAGGGATTAACA
1 TCAACATTTCCTTTGCTCGATTCACAACACTTCGAATCAGCAACGCCCCAAATAAGGGATCAACA
* *
1927298 TTTCCTATTGCTCGATTCA-TGGAATTTCAAATCA-ATAAAAGTCCTTCGGCCCATCAGTAAG-C
66 TTTCCTATTGCTCGATTCACT-GAATTTCAAATCAGA-AAAAGTCATCCGGCCCATCAGTAAGTC
*
1927360 TTTTC-AGTCATGATGCTTAAATCCATT-GGGTCATCTATAAGTCTTTCGAGCAAGATGATAAGT
129 -TTCCGAG-CATGATGCTTAAATCC-TTCGGGTCATCTATAAGTCTTTCGAGCAAGATGATAAGT
* *
1927423 CCTTCGGGCCATTCATAAGACCTTCAGGCATGATGTTTTC-ACATTTCCTATTGCTCGATTCACA
191 CCTTCGGGCCATCCATAAGACCTTCAGGCAGGATGTTTTCAACATTTCCT-TTGCTCGATTCACA
*
1927487 TCATTTCGAATCAACAACACCTCACTCGAGAGA
255 ACATTTCGAATCAACAACACCTCACTCGAGAGA
1927520 TCAACATTTC
1 TCAACATTTC
1927530 TAGTGGAAAG
Statistics
Matches: 255, Mismatches: 34, Indels: 16
0.84 0.11 0.05
Matches are distributed among these distances:
286 16 0.06
287 236 0.93
288 3 0.01
ACGTcount: A:0.28, C:0.24, G:0.16, T:0.32
Consensus pattern (287 bp):
TCAACATTTCCTTTGCTCGATTCACAACACTTCGAATCAGCAACGCCCCAAATAAGGGATCAACA
TTTCCTATTGCTCGATTCACTGAATTTCAAATCAGAAAAAGTCATCCGGCCCATCAGTAAGTCTT
CCGAGCATGATGCTTAAATCCTTCGGGTCATCTATAAGTCTTTCGAGCAAGATGATAAGTCCTTC
GGGCCATCCATAAGACCTTCAGGCAGGATGTTTTCAACATTTCCTTTGCTCGATTCACAACATTT
CGAATCAACAACACCTCACTCGAGAGA
Found at i:1934008 original size:20 final size:20
Alignment explanation
Indices: 1933981--1934030 Score: 68
Period size: 20 Copynumber: 2.5 Consensus size: 20
1933971 TCATGCAATG
1933981 GGTA-CGATACT-GTAGGTGA
1 GGTATCGATACTCGTAGG-GA
*
1934000 GGTATCGATACTCGTAGGGT
1 GGTATCGATACTCGTAGGGA
1934020 GGTATCGATAC
1 GGTATCGATAC
1934031 CAAGATCACT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
19 4 0.14
20 19 0.68
21 5 0.18
ACGTcount: A:0.24, C:0.14, G:0.34, T:0.28
Consensus pattern (20 bp):
GGTATCGATACTCGTAGGGA
Found at i:1937795 original size:31 final size:31
Alignment explanation
Indices: 1937757--1937822 Score: 114
Period size: 31 Copynumber: 2.1 Consensus size: 31
1937747 AATCATTTTT
* *
1937757 ATAAGTTTAATGATTTTTTTGTAATAGTTTG
1 ATAAGTTTAATGACTATTTTGTAATAGTTTG
1937788 ATAAGTTTAATGACTATTTTGTAATAGTTTG
1 ATAAGTTTAATGACTATTTTGTAATAGTTTG
1937819 ATAA
1 ATAA
1937823 ATTTTAGTAC
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.33, C:0.02, G:0.15, T:0.50
Consensus pattern (31 bp):
ATAAGTTTAATGACTATTTTGTAATAGTTTG
Found at i:1940505 original size:13 final size:14
Alignment explanation
Indices: 1940487--1940516 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
1940477 TGAGGTTCTC
1940487 TCTTTCTTTTTT-T
1 TCTTTCTTTTTTGT
1940500 TCTTTCTTTTTTGT
1 TCTTTCTTTTTTGT
1940514 TCT
1 TCT
1940517 ATTTTATTTC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 12 0.75
14 4 0.25
ACGTcount: A:0.00, C:0.17, G:0.03, T:0.80
Consensus pattern (14 bp):
TCTTTCTTTTTTGT
Found at i:1945137 original size:10 final size:10
Alignment explanation
Indices: 1945122--1945212 Score: 58
Period size: 10 Copynumber: 8.5 Consensus size: 10
1945112 AAGATATAGC
*
1945122 AAAAAAAGAT
1 AAAAAAAAAT
1945132 AAAAAAAAAT
1 AAAAAAAAAT
1945142 ACAGAAAAAAA-
1 A-A-AAAAAAAT
**
1945153 AGAAAAAAAGC
1 A-AAAAAAAAT
*
1945164 AAAAAAAAGCAA
1 AAAAAAAA--AT
1945176 AAAAAAAAAT
1 AAAAAAAAAT
1945186 AAGAAAAAAAAT
1 -A-AAAAAAAAT
* *
1945198 AAGAAAAAAG
1 AAAAAAAAAT
1945208 AAAAA
1 AAAAA
1945213 TAAGAAGAAA
Statistics
Matches: 65, Mismatches: 9, Indels: 14
0.74 0.10 0.16
Matches are distributed among these distances:
10 35 0.54
11 6 0.09
12 24 0.37
ACGTcount: A:0.84, C:0.03, G:0.09, T:0.04
Consensus pattern (10 bp):
AAAAAAAAAT
Found at i:1945169 original size:43 final size:42
Alignment explanation
Indices: 1945103--1945205 Score: 127
Period size: 43 Copynumber: 2.3 Consensus size: 42
1945093 ACACAGAGAG
*
1945103 AAAAAAGAAAAGATATAGCAAAAAAAG-ATAAAAAAAAATACAGAA
1 AAAAAAGAAAA-A-A-AGCAAAAAAAGCAAAAAAAAAAATA-AGAA
1945148 AAAAAAGAAAAAAAGCAAAAAAAAGCAAAAAAAAAAATAAGAA
1 AAAAAAGAAAAAAAGC-AAAAAAAGCAAAAAAAAAAATAAGAA
*
1945191 AAAAAATAAGAAAAA
1 AAAAAAGAA-AAAAA
1945206 AGAAAAATAA
Statistics
Matches: 53, Mismatches: 2, Indels: 7
0.85 0.03 0.11
Matches are distributed among these distances:
42 3 0.06
43 21 0.40
44 18 0.34
45 11 0.21
ACGTcount: A:0.81, C:0.04, G:0.10, T:0.06
Consensus pattern (42 bp):
AAAAAAGAAAAAAAGCAAAAAAAGCAAAAAAAAAAATAAGAA
Found at i:1945205 original size:9 final size:9
Alignment explanation
Indices: 1945103--1945223 Score: 81
Period size: 8 Copynumber: 13.4 Consensus size: 9
1945093 ACACAGAGAG
1945103 AAAAAAGAA
1 AAAAAAGAA
* *
1945112 AAGATATAGCA
1 AA-A-AAAGAA
1945123 AAAAAAG-A
1 AAAAAAGAA
*
1945131 TAAAAA-AA
1 AAAAAAGAA
* *
1945139 AATACAGAA
1 AAAAAAGAA
1945148 AAAAAAG-A
1 AAAAAAGAA
1945156 AAAAAAGCAA
1 AAAAAAG-AA
*
1945166 AAAAAAG-C
1 AAAAAAGAA
1945174 AAAAAA-AA
1 AAAAAAGAA
*
1945182 AAATAAGAA
1 AAAAAAGAA
*
1945191 AAAAAATAA
1 AAAAAAGAA
1945200 GAAAAAAGAA
1 -AAAAAAGAA
*
1945210 AAATAAGAA
1 AAAAAAGAA
1945219 GAAAA
1 -AAAA
1945224 TAAATAGATC
Statistics
Matches: 85, Mismatches: 17, Indels: 19
0.70 0.14 0.16
Matches are distributed among these distances:
8 29 0.34
9 29 0.34
10 21 0.25
11 6 0.07
ACGTcount: A:0.80, C:0.03, G:0.11, T:0.06
Consensus pattern (9 bp):
AAAAAAGAA
Found at i:1945212 original size:44 final size:43
Alignment explanation
Indices: 1945122--1945229 Score: 130
Period size: 43 Copynumber: 2.5 Consensus size: 43
1945112 AAGATATAGC
* *
1945122 AAAAAAAGATAAAAAAAAATACAGAAAAAAAAGAAAAAAAGCA
1 AAAAAAAGAAAAAAAAAAATACAGAAAAAAAAAAAAAAAAGCA
1945165 AAAAAAAGCAAAAAAAAAAATA-AGAAAAAAAATAAGAAAAAAG-A
1 AAAAAAAG-AAAAAAAAAAATACAGAAAAAAAA-AA-AAAAAAGCA
* * *
1945209 AAAATAAGAAGAAAATAAATA
1 AAAAAAAGAAAAAAAAAAATA
1945230 GATCCAATAC
Statistics
Matches: 57, Mismatches: 5, Indels: 6
0.84 0.07 0.09
Matches are distributed among these distances:
43 29 0.51
44 21 0.37
45 7 0.12
ACGTcount: A:0.81, C:0.03, G:0.09, T:0.06
Consensus pattern (43 bp):
AAAAAAAGAAAAAAAAAAATACAGAAAAAAAAAAAAAAAAGCA
Found at i:1947371 original size:110 final size:111
Alignment explanation
Indices: 1947178--1947489 Score: 422
Period size: 110 Copynumber: 2.8 Consensus size: 111
1947168 AAGATTTTAA
* * * * * *
1947178 AGAAACTAAGCCTGATTTTCAGGGGTTTCTTGATAATGATTGTCAATGAATTTCCTAAAAGAATC
1 AGAAATTAAGCCTGATTTTCAGAGGTTTCTTGATGATGATTTTCAATGAATTTCTTAAAAGAAGC
* *
1947243 TAAGCTTAATTTTAGGGGTTTCCTT-ATGTTTTCAAATGAGTTTTT
66 TAAGCCTATTTTTAGGGGTTTCCTTGATGTTTTCAAATGAGTTTTT
*
1947288 AGAAATTAAGCCTCATTTTCAGAGGTTTCTTGATGATGATTTTCAATGAATTTCTTAAAAGAAGC
1 AGAAATTAAGCCTGATTTTCAGAGGTTTCTTGATGATGATTTTCAATGAATTTCTTAAAAGAAGC
*
1947353 TAAGCCTATTTTTAGGGGTTT-TTTGATGTTTTCAAATGAGTTTTT
66 TAAGCCTATTTTTAGGGGTTTCCTTGATGTTTTCAAATGAGTTTTT
* * *
1947398 AG-AATCTAATCCTGATTTTCAGAGGTTTCTTGATGATTATTTCCAAAT-AAGTTT-TTAAAA-A
1 AGAAAT-TAAGCCTGATTTTCAGAGGTTTCTTGATGATGATTTTC-AATGAA-TTTCTTAAAAGA
1947459 AGCTAAGCCTAATTTTTAGGGGTTT-CTTGAT
63 AGCTAAGCCT-ATTTTTAGGGGTTTCCTTGAT
1947490 AATAACTAAA
Statistics
Matches: 182, Mismatches: 15, Indels: 10
0.88 0.07 0.05
Matches are distributed among these distances:
109 16 0.09
110 160 0.88
111 6 0.03
ACGTcount: A:0.29, C:0.11, G:0.18, T:0.42
Consensus pattern (111 bp):
AGAAATTAAGCCTGATTTTCAGAGGTTTCTTGATGATGATTTTCAATGAATTTCTTAAAAGAAGC
TAAGCCTATTTTTAGGGGTTTCCTTGATGTTTTCAAATGAGTTTTT
Found at i:1947373 original size:58 final size:59
Alignment explanation
Indices: 1947172--1947549 Score: 273
Period size: 58 Copynumber: 6.7 Consensus size: 59
1947162 AAAAGAAAGA
* *
1947172 TTTT-AAAGAAACTAAGCCTGATTTTCAGGGGTTTCTTGATAATGATTGTC-AATGAAT
1 TTTTAAAAGAAACTAAGCCTGATTTTCAGGGGTTTCTTGATGATGATTTTCAAATGAAT
* * * * * *
1947229 TTCCTAAAAGAATCTAAGCTTAATTTT-AGGGGTTTCCT--T-ATG-TTTTCAAATGAGT
1 TT-TTAAAAGAAACTAAGCCTGATTTTCAGGGGTTTCTTGATGATGATTTTCAAATGAAT
* * *
1947284 TTTT---AGAAATTAAGCCTCATTTTCAGAGGTTTCTTGATGATGATTTTC-AATGAAT
1 TTTTAAAAGAAACTAAGCCTGATTTTCAGGGGTTTCTTGATGATGATTTTCAAATGAAT
* * *
1947339 TTCTTAAAAGAAGCTAAGCCT-ATTTTTAGGGGTTT-TT--TGATG-TTTTCAAATGAGT
1 TT-TTAAAAGAAACTAAGCCTGATTTTCAGGGGTTTCTTGATGATGATTTTCAAATGAAT
* * * * *
1947394 TTTT---AGAATCTAATCCTGATTTTCAGAGGTTTCTTGATGATTATTTCCAAAT-AAGT
1 TTTTAAAAGAAACTAAGCCTGATTTTCAGGGGTTTCTTGATGATGATTTTCAAATGAA-T
* * * * ** ** *
1947450 TTTTAAAA-AAGCTAAGCCTAATTTTTAGGGGTTTCTTGATAAT-AACTAAAAATGAAAGA
1 TTTTAAAAGAAACTAAGCCTGATTTTCAGGGGTTTCTTGATGATGATTTTCAAATG-AA-T
* *
1947509 TTTT--AAGAAACTAAGCTTGATTTTCAAGGGTTTCTTGATGA
1 TTTTAAAAGAAACTAAGCCTGATTTTCAGGGGTTTCTTGATGA
1947550 GTAATTCCTT
Statistics
Matches: 252, Mismatches: 44, Indels: 49
0.73 0.13 0.14
Matches are distributed among these distances:
51 26 0.10
52 21 0.08
53 2 0.01
54 13 0.05
55 40 0.16
56 21 0.08
57 12 0.05
58 80 0.32
59 37 0.15
ACGTcount: A:0.31, C:0.11, G:0.17, T:0.41
Consensus pattern (59 bp):
TTTTAAAAGAAACTAAGCCTGATTTTCAGGGGTTTCTTGATGATGATTTTCAAATGAAT
Found at i:1947783 original size:38 final size:38
Alignment explanation
Indices: 1947741--1947855 Score: 176
Period size: 38 Copynumber: 3.0 Consensus size: 38
1947731 GAGGGATCAA
*
1947741 TATCTCGCTTGAGATGGTTTCACTCGAAACAGAAGATT
1 TATCTCGCTTGAGATAGTTTCACTCGAAACAGAAGATT
* * *
1947779 TATCTCACTTGAGATAGTTCCACTCGAAAAAGAAGATT
1 TATCTCGCTTGAGATAGTTTCACTCGAAACAGAAGATT
* *
1947817 CATCTCGCTTGAGATAGTTTCACTCGAAACAAAAGATT
1 TATCTCGCTTGAGATAGTTTCACTCGAAACAGAAGATT
1947855 T
1 T
1947856 TAAGAAACTA
Statistics
Matches: 67, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
38 67 1.00
ACGTcount: A:0.33, C:0.19, G:0.17, T:0.30
Consensus pattern (38 bp):
TATCTCGCTTGAGATAGTTTCACTCGAAACAGAAGATT
Found at i:1948000 original size:41 final size:42
Alignment explanation
Indices: 1947902--1948001 Score: 132
Period size: 42 Copynumber: 2.4 Consensus size: 42
1947892 AAGTAAGATT
* * *
1947902 TTCGGGCCAT-CAGTAAGTCTTTCGAGCATGATGCTTAAATCC
1 TTCGGGCCATCCA-TAAGTCTTTCGAGCAAGATGCATAAATCA
* *
1947944 TTCGGGTCATCCATAAGTCTTTCGAGCAAGATG-ATAAGTCA
1 TTCGGGCCATCCATAAGTCTTTCGAGCAAGATGCATAAATCA
1947985 TTCGGGCCATCCATAAG
1 TTCGGGCCATCCATAAG
1948002 ACCTTCAGGC
Statistics
Matches: 51, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
41 21 0.41
42 28 0.55
43 2 0.04
ACGTcount: A:0.26, C:0.23, G:0.22, T:0.29
Consensus pattern (42 bp):
TTCGGGCCATCCATAAGTCTTTCGAGCAAGATGCATAAATCA
Found at i:1948136 original size:344 final size:344
Alignment explanation
Indices: 1947504--1948201 Score: 1078
Period size: 343 Copynumber: 2.0 Consensus size: 344
1947494 ACTAAAAATG
*
1947504 AAAGATTTTAAGAAACTAAGCTTGATTTTCAAGGGTTTCTTGATGAGTAATTCCTTCGGGCCATC
1 AAAGATTTTAAGAAACTAAGCTTGATTTTCAAGGGTTTCTTGATAAGTAATT-CTTCGGGCCATC
* *
1947569 AGTAAGTCTTTCAAGCATGATGCTTAAATCCTTTGGGTCATCTATAAGTCTTTTCGAGCAAGATG
65 AGTAAGTCTTTCAAGCATGATGCTTAAATCCTTCGGGTCATCCATAAGTCTTTTCGAGCAAGATG
1947634 ATAAGTCATTCAGGCCATCCATAAGACCTTAAACCAGGATGTTTTCAACATTTCCTTTGCTTGAT
130 ATAAGTCATTCAGGCCATCCATAAGACCTTAAACCAGGATGTTTTCAACATTTCCTTTGCTTGAT
* * * *
1947699 TCACGACATTTTGAATTAGCGACACCTCACTTGAGGGATCAATATCTCGCTTGAGATGGTTTCAC
195 TCACGACATTTTGAATCAGCGACACCTCACTTGAGGGATCAACATCTCGCTTAAGATAGTTTCAC
* *
1947764 TCGAAACAGAAGATTTATCTCACTTGAGATAGTTCCACTCGAAAAAGAAGA-TTCATCTCGCTTG
260 TCAAAACAGAAGATTTATCTCACTTGAGATAGTTCCACTCGAAAAAGAAGACTTCATCTCACTTG
1947828 AGATAGTTTCACTCGAAACA
325 AGATAGTTTCACTCGAAACA
1947848 AAAGATTTTAAGAAACTAAGCTTGATTTTCAAGGGTTTCTTGATAAGTAAGATT-TTCGGGCCAT
1 AAAGATTTTAAGAAACTAAGCTTGATTTTCAAGGGTTTCTTGATAAGT-A-ATTCTTCGGGCCAT
*
1947912 CAGTAAGTCTTTCGAGCATGATGCTTAAATCCTTCGGGTCATCCATAAGTC-TTTCGAGCAAGAT
64 CAGTAAGTCTTTCAAGCATGATGCTTAAATCCTTCGGGTCATCCATAAGTCTTTTCGAGCAAGAT
* * ** * *
1947976 GATAAGTCATTCGGGCCATCCATAAGACCTTCAGGCAGGATGTTTTCAATATTTCTTTTGCTTGA
129 GATAAGTCATTCAGGCCATCCATAAGACCTTAAACCAGGATGTTTTCAACATTTCCTTTGCTTGA
* ** * *
1948041 TTCATGACATTTTGAATCAGCGATGCCTCACTTGAGGGATTAACATCTTGCTTAAGATAGTTTCA
194 TTCACGACATTTTGAATCAGCGACACCTCACTTGAGGGATCAACATCTCGCTTAAGATAGTTTCA
* * * ** *
1948106 CTCAAAACAGAAGATTTTATCTCGCTTGAGATAGTTTCACTCGAAACAGAAGACTTTTTCTTACT
259 CTCAAAACAGAAGA-TTTATCTCACTTGAGATAGTTCCACTCGAAAAAGAAGACTTCATCTCACT
*
1948171 TGAGATAGTTTCACTTGAAACA
323 TGAGATAGTTTCACTCGAAACA
*
1948193 GAAGATTTT
1 AAAGATTTT
1948202 TATCTCGCTT
Statistics
Matches: 321, Mismatches: 29, Indels: 7
0.90 0.08 0.02
Matches are distributed among these distances:
343 141 0.44
344 140 0.44
345 37 0.12
346 3 0.01
ACGTcount: A:0.30, C:0.19, G:0.18, T:0.33
Consensus pattern (344 bp):
AAAGATTTTAAGAAACTAAGCTTGATTTTCAAGGGTTTCTTGATAAGTAATTCTTCGGGCCATCA
GTAAGTCTTTCAAGCATGATGCTTAAATCCTTCGGGTCATCCATAAGTCTTTTCGAGCAAGATGA
TAAGTCATTCAGGCCATCCATAAGACCTTAAACCAGGATGTTTTCAACATTTCCTTTGCTTGATT
CACGACATTTTGAATCAGCGACACCTCACTTGAGGGATCAACATCTCGCTTAAGATAGTTTCACT
CAAAACAGAAGATTTATCTCACTTGAGATAGTTCCACTCGAAAAAGAAGACTTCATCTCACTTGA
GATAGTTTCACTCGAAACA
Found at i:1948138 original size:39 final size:40
Alignment explanation
Indices: 1948095--1948299 Score: 285
Period size: 40 Copynumber: 5.2 Consensus size: 40
1948085 ATCTTGCTTA
* *
1948095 AGATAGTTTCACTCAAAACAGAAGA-TTTTATCTCGCTTG
1 AGATAGTTTCACTCGAAACAGAAGATTTTTATCTCACTTG
* *
1948134 AGATAGTTTCACTCGAAACAGAAGACTTTT-TCTTACTTG
1 AGATAGTTTCACTCGAAACAGAAGATTTTTATCTCACTTG
* *
1948173 AGATAGTTTCACTTGAAACAGAAGATTTTTATCTCGCTTG
1 AGATAGTTTCACTCGAAACAGAAGATTTTTATCTCACTTG
*
1948213 AGATAGTTTCACTCGAAACA-ACAGATTTTTATCTCATTTG
1 AGATAGTTTCACTCGAAACAGA-AGATTTTTATCTCACTTG
*
1948253 AGATAGTTTCACTCGAAAAAGAAGA--TTTATCTCACTTG
1 AGATAGTTTCACTCGAAACAGAAGATTTTTATCTCACTTG
*
1948291 AGATTGTTT
1 AGATAGTTT
1948300 TCTTAAAATG
Statistics
Matches: 149, Mismatches: 13, Indels: 9
0.87 0.08 0.05
Matches are distributed among these distances:
38 20 0.13
39 60 0.40
40 68 0.46
41 1 0.01
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (40 bp):
AGATAGTTTCACTCGAAACAGAAGATTTTTATCTCACTTG
Found at i:1948242 original size:78 final size:79
Alignment explanation
Indices: 1948085--1948299 Score: 301
Period size: 78 Copynumber: 2.7 Consensus size: 79
1948075 AGGGATTAAC
* * *
1948085 ATCTTGCTTAAGATAGTTTCACTCAAAACAGAAGATTTTATCTCGCTTGAGATAGTTTCACTCGA
1 ATCTTACTTGAGATAGTTTCACTCGAAACAGAAGATTTTATCTCGCTTGAGATAGTTTCACTCGA
1948150 AACAGAAGACTTTT
66 AACAGAAGACTTTT
*
1948164 -TCTTACTTGAGATAGTTTCACTTGAAACAGAAGATTTTTATCTCGCTTGAGATAGTTTCACTCG
1 ATCTTACTTGAGATAGTTTCACTCGAAACAGAAGA-TTTTATCTCGCTTGAGATAGTTTCACTCG
*
1948228 AAACA-ACAGATTTTT
65 AAACAGA-AGACTTTT
* * * * *
1948243 ATCTCATTTGAGATAGTTTCACTCGAAAAAGAAGA-TTTATCTCACTTGAGATTGTTT
1 ATCTTACTTGAGATAGTTTCACTCGAAACAGAAGATTTTATCTCGCTTGAGATAGTTT
1948300 TCTTAAAATG
Statistics
Matches: 122, Mismatches: 11, Indels: 7
0.87 0.08 0.05
Matches are distributed among these distances:
78 51 0.42
79 41 0.34
80 30 0.25
ACGTcount: A:0.32, C:0.16, G:0.15, T:0.37
Consensus pattern (79 bp):
ATCTTACTTGAGATAGTTTCACTCGAAACAGAAGATTTTATCTCGCTTGAGATAGTTTCACTCGA
AACAGAAGACTTTT
Found at i:1948590 original size:91 final size:90
Alignment explanation
Indices: 1948403--1948604 Score: 235
Period size: 91 Copynumber: 2.2 Consensus size: 90
1948393 ACATTTTCTA
* * *
1948403 TGCTCGATTCACAACACTTCGAATCAGCCACGCCTCACATAAGGGACTAACATTCCCAGTAGAGA
1 TGCTCAATTCACAACATTTCGAATCAGCCACGCCTCACATAAGGGACCAACATTCCCAGTAGAGA
*
1948468 ATCCATGAGAGAACTTATTGAACCTT
66 ATCCATAAGAGAACTTATT-AACCTT
* ** * * *
1948494 GGCTCAATTCACAACATTTCGAATCAGGGACGCCTCACATGAGGGACCAACATTTCCAGTATAGA
1 TGCTCAATTCACAACATTTCGAATCAGCCACGCCTCACATAAGGGACCAACATTCCCAGTAGAGA
* * * *
1948559 ATTCATAAAGAAGAGCTTGTT-TCCTT
66 ATCCAT-AAG-AGAACTTATTAACCTT
*
1948585 TGCTCAATTCACGACATTTC
1 TGCTCAATTCACAACATTTC
1948605 AAACTAGCGA
Statistics
Matches: 93, Mismatches: 16, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
91 83 0.89
92 2 0.02
93 8 0.09
ACGTcount: A:0.32, C:0.26, G:0.17, T:0.26
Consensus pattern (90 bp):
TGCTCAATTCACAACATTTCGAATCAGCCACGCCTCACATAAGGGACCAACATTCCCAGTAGAGA
ATCCATAAGAGAACTTATTAACCTT
Found at i:1954855 original size:2 final size:2
Alignment explanation
Indices: 1954839--1955103 Score: 124
Period size: 2 Copynumber: 135.0 Consensus size: 2
1954829 CTAACAGTAT
* *
1954839 TA TA -A TA TA TA -A TA TA TA TGA CTA CA TA -A TA TA TA CTA AA
1 TA TA TA TA TA TA TA TA TA TA T-A -TA TA TA TA TA TA TA -TA TA
* *
1954879 TA TA TA -A TA TGC TA AA TA -A TA TA TGA -A TA CTA TA TA TA T-
1 TA TA TA TA TA T-A TA TA TA TA TA TA T-A TA TA -TA TA TA TA TA
*
1954918 TA GTA -A TA TA TA TA TA TA TA TCA TA TA TA TA CTA TA TC T- TA
1 TA -TA TA TA TA TA TA TA TA TA T-A TA TA TA TA -TA TA TA TA TA
* * *
1954959 TA TA AA TA CTA TA TA TA TA CA CTA TA TA -A TA CA TA TA -A GTA
1 TA TA TA TA -TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA -TA
*
1955000 T- TA TA TA -A TA -A TA TA CA TA TA CTA TA -A TA TA TA CTA CTA
1 TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA -TA -TA
* *
1955039 TA TA -A TA TA TA CTA AA TA TA -A TA TA TA AA TA CTA TA TA -A TA
1 TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA
1955080 TA TA T- TA -A TA -A TA TA TA TA -A TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1955104 GATTAGGATC
Statistics
Matches: 204, Mismatches: 21, Indels: 76
0.68 0.07 0.25
Matches are distributed among these distances:
1 22 0.11
2 152 0.75
3 29 0.14
4 1 0.00
ACGTcount: A:0.51, C:0.07, G:0.02, T:0.41
Consensus pattern (2 bp):
TA
Found at i:1954901 original size:45 final size:43
Alignment explanation
Indices: 1954823--1955098 Score: 138
Period size: 45 Copynumber: 6.1 Consensus size: 43
1954813 TAAAAATATT
*
1954823 TATATACTAACAGTATTATAATATATAATATATATGACTAC-ATAA
1 TATATACTAACA-TA-TATAATATATAATATATATGAATACTAT-A
*
1954868 TATATACTAA-ATATATAATATGCTAAATAATATATGAATACTATA
1 TATATACTAACATATATAATAT-AT-AAT-ATATATGAATACTATA
* * *
1954913 TATATTAGTAATATATATATATATATCATATATAT-ACTATATCTTATA
1 TATA-TACTAACATATATA-ATATATAATATATATGA--ATA-C-TATA
* * * *
1954961 TAAATACT-ATATATATACACTATATAATACATAT-AAGTATTATA
1 TATATACTAACATATATA-A-TATATAATATATATGAA-TACTATA
* *
1955005 TAATAATA-TACATATACTATAATATATACTACTATAT-AATA-TATA
1 T-AT-ATACTA-ACATA-TATAATATATAATA-TATATGAATACTATA
* * * * *
1955050 CTAAATA-TAATATATAAATACTATATAATATATATTAATAATATA
1 -TATATACTAACATAT--ATAATATATAATATATATGAATACTATA
1955095 TATA
1 TATA
1955099 ATATAGATTA
Statistics
Matches: 189, Mismatches: 18, Indels: 49
0.74 0.07 0.19
Matches are distributed among these distances:
42 9 0.05
43 13 0.07
44 33 0.17
45 44 0.23
46 38 0.20
47 37 0.20
48 15 0.08
ACGTcount: A:0.50, C:0.07, G:0.02, T:0.41
Consensus pattern (43 bp):
TATATACTAACATATATAATATATAATATATATGAATACTATA
Found at i:1955023 original size:72 final size:70
Alignment explanation
Indices: 1954921--1955084 Score: 182
Period size: 70 Copynumber: 2.4 Consensus size: 70
1954911 TATATATTAG
* *
1954921 TAATATATATATA-TATATCATATATATAC-TATATCT-T-ATATA-AATACTATAT-ATATACA
1 TAATATATAAATACTATATAATATATATACATATA-CTATAATATATAATACTATATAATATACA
1954980 CT-ATA
65 CTAATA
* * * *
1954985 TAATACATATAAGTATTATATAATA-ATATACATATACTATAATATATACTACTATATAATATAT
1 TAAT--ATATAAATACTATATAATATATATACATATACTATAATATATAATACTATATAATATAC
1955049 ACTAAATA
64 ACT-AATA
1955057 TAATATATAAATACTATATAATATATAT
1 TAATATATAAATACTATATAATATATAT
1955085 TAATAATATA
Statistics
Matches: 82, Mismatches: 7, Indels: 15
0.79 0.07 0.14
Matches are distributed among these distances:
64 4 0.05
66 15 0.18
67 13 0.16
68 5 0.06
69 9 0.11
70 25 0.30
71 4 0.05
72 7 0.09
ACGTcount: A:0.50, C:0.08, G:0.01, T:0.41
Consensus pattern (70 bp):
TAATATATAAATACTATATAATATATATACATATACTATAATATATAATACTATATAATATACAC
TAATA
Found at i:1955071 original size:49 final size:48
Alignment explanation
Indices: 1955002--1955103 Score: 122
Period size: 49 Copynumber: 2.1 Consensus size: 48
1954992 TATAAGTATT
1955002 ATATAATAATATACATATACTATA-ATATATACTACTATATAATATATACTAA
1 ATATAATAATATACATATACTATATA-ATATA-TACTA-ATAATATATA-T-A
*
1955054 ATATAAT-ATATA-A-ATACTATATAATATATATTAATAATATATATA
1 ATATAATAATATACATATACTATATAATATATACTAATAATATATATA
1955099 ATATA
1 ATATA
1955104 GATTAGGATC
Statistics
Matches: 48, Mismatches: 1, Indels: 9
0.83 0.02 0.16
Matches are distributed among these distances:
45 6 0.12
46 1 0.02
47 10 0.21
48 4 0.08
49 13 0.27
50 2 0.04
51 5 0.10
52 7 0.15
ACGTcount: A:0.54, C:0.06, G:0.00, T:0.40
Consensus pattern (48 bp):
ATATAATAATATACATATACTATATAATATATACTAATAATATATATA
Found at i:1955090 original size:13 final size:12
Alignment explanation
Indices: 1954843--1955101 Score: 76
Period size: 11 Copynumber: 21.8 Consensus size: 12
1954833 CAGTATTATA
1954843 ATATATAAT-AT
1 ATATATAATAAT
1954854 ATATGACTACATAAT
1 ATAT-A-TA-ATAAT
1954869 ATATACTAAATATAT
1 ATATA-T-AATA-AT
*
1954884 AATATGCTAAATAAT
1 -ATAT-AT-AATAAT
* *
1954899 ATAT-GAATACT
1 ATATATAATAAT
* *
1954910 ATATATATTAGT
1 ATATATAATAAT
1954922 A-ATAT-AT-AT
1 ATATATAATAAT
*
1954931 ATATAT-ATCAT
1 ATATATAATAAT
*
1954942 ATATATACT-AT
1 ATATATAATAAT
*
1954953 ATCT-TATATAA-
1 ATATATA-ATAAT
1954964 ATACTAT-AT-AT
1 ATA-TATAATAAT
*
1954975 ATACACTATATAAT
1 ATATA-TA-ATAAT
*
1954989 ACATATAAGT-AT
1 ATATATAA-TAAT
1955001 -TATATAATAAT
1 ATATATAATAAT
* *
1955012 ATACAT-ATACT
1 ATATATAATAAT
*
1955023 ATA-ATATATACT
1 ATATATA-ATAAT
1955035 ACTATATAAT-AT
1 A-TATATAATAAT
1955047 ATACTA-AAT-AT
1 ATA-TATAATAAT
1955058 A-ATAT-ATAA-
1 ATATATAATAAT
1955067 ATACTAT-ATAAT
1 ATA-TATAATAAT
1955079 ATATATTAATAAT
1 ATATA-TAATAAT
1955092 ATATATAATA
1 ATATATAATA
1955102 TAGATTAGGA
Statistics
Matches: 193, Mismatches: 19, Indels: 71
0.68 0.07 0.25
Matches are distributed among these distances:
9 7 0.04
10 17 0.09
11 71 0.37
12 35 0.18
13 22 0.11
14 20 0.10
15 11 0.06
16 10 0.05
ACGTcount: A:0.51, C:0.07, G:0.02, T:0.41
Consensus pattern (12 bp):
ATATATAATAAT
Found at i:1955392 original size:27 final size:25
Alignment explanation
Indices: 1955340--1955434 Score: 79
Period size: 27 Copynumber: 3.6 Consensus size: 25
1955330 CCTATTATAA
* *
1955340 TATATATATATATA-AACATAAATAC
1 TATA-ATATATATACTATATAAATAC
1955365 TATGGAATATATATACTATATAAATAC
1 TAT--AATATATATACTATATAAATAC
*
1955392 TATTTAATATATA-AATAATATAAATAC
1 TA--TAATATATATACT-ATATAAATAC
1955419 -ATAATATTATATACTA
1 TATAATA-TATATACTA
1955435 ATGTTAATGT
Statistics
Matches: 58, Mismatches: 4, Indels: 16
0.74 0.05 0.21
Matches are distributed among these distances:
24 5 0.09
25 8 0.14
26 14 0.24
27 30 0.52
29 1 0.02
ACGTcount: A:0.53, C:0.06, G:0.02, T:0.39
Consensus pattern (25 bp):
TATAATATATATACTATATAAATAC
Found at i:1957903 original size:31 final size:32
Alignment explanation
Indices: 1957847--1957910 Score: 85
Period size: 31 Copynumber: 2.0 Consensus size: 32
1957837 AGAAAGTTTG
* * *
1957847 GGGCCTACCTAAGAATACATCTTAGGGCTGCA
1 GGGCCAACCCAAGAATACATCTTAGGGCCGCA
*
1957879 GGGCCAACCCAAGAAT-GATCTTAGGGCCGCA
1 GGGCCAACCCAAGAATACATCTTAGGGCCGCA
1957910 G
1 G
1957911 AGCCTACCTA
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
31 14 0.50
32 14 0.50
ACGTcount: A:0.28, C:0.27, G:0.28, T:0.17
Consensus pattern (32 bp):
GGGCCAACCCAAGAATACATCTTAGGGCCGCA
Found at i:1981180 original size:32 final size:31
Alignment explanation
Indices: 1981144--1981220 Score: 82
Period size: 31 Copynumber: 2.5 Consensus size: 31
1981134 TGGGGCCACG
*
1981144 GGGCCTACCTAAGAACACATCTTAGGGCCGCA
1 GGGCCTACCTAAGAA-ACATCTCAGGGCCGCA
** **
1981176 GGGCCTACCCGAGAATGATCTCAGGGCCGCA
1 GGGCCTACCTAAGAAACATCTCAGGGCCGCA
**
1981207 AAGCCTACCTAAGA
1 GGGCCTACCTAAGA
1981221 GTCACATTAG
Statistics
Matches: 36, Mismatches: 9, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
31 23 0.64
32 13 0.36
ACGTcount: A:0.29, C:0.31, G:0.26, T:0.14
Consensus pattern (31 bp):
GGGCCTACCTAAGAAACATCTCAGGGCCGCA
Found at i:1985531 original size:31 final size:32
Alignment explanation
Indices: 1985470--1985541 Score: 92
Period size: 31 Copynumber: 2.3 Consensus size: 32
1985460 TGGGGCCATG
* *
1985470 GGGCCTACCTAAGAATACATCTTAGGGCCGCA
1 GGGCCTACCCAAGAATACATCTCAGGGCCGCA
* *
1985502 GGGCCTACCCGAGAAT-GATCTCAGGGCCGCA
1 GGGCCTACCCAAGAATACATCTCAGGGCCGCA
*
1985533 GAGCCTACC
1 GGGCCTACC
1985542 TTAGAGTCAC
Statistics
Matches: 35, Mismatches: 5, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
31 21 0.60
32 14 0.40
ACGTcount: A:0.25, C:0.32, G:0.28, T:0.15
Consensus pattern (32 bp):
GGGCCTACCCAAGAATACATCTCAGGGCCGCA
Found at i:1993767 original size:32 final size:31
Alignment explanation
Indices: 1993689--1993808 Score: 93
Period size: 31 Copynumber: 3.9 Consensus size: 31
1993679 CTAAGGGAAT
* *
1993689 ATCTTAGGGCCTG-AGAGCCTACCCAAGAAA-
1 ATCTTAGGGCC-GCAGGGCCTACCTAAGAAAC
* * **
1993719 GT-TTGGGGCCATAGGGCCTACCTAAGAACAC
1 ATCTTAGGGCCGCAGGGCCTACCTAAGAA-AC
* **
1993750 ATCTTAGGGCCGCAGGGCCTACCTGAGAATG
1 ATCTTAGGGCCGCAGGGCCTACCTAAGAAAC
* * *
1993781 ATCTTAGGGCTGTAGAGCCTACCTAAGA
1 ATCTTAGGGCCGCAGGGCCTACCTAAGA
1993809 GTCACATTAG
Statistics
Matches: 70, Mismatches: 16, Indels: 7
0.75 0.17 0.08
Matches are distributed among these distances:
29 21 0.30
30 2 0.03
31 25 0.36
32 22 0.31
ACGTcount: A:0.28, C:0.25, G:0.28, T:0.20
Consensus pattern (31 bp):
ATCTTAGGGCCGCAGGGCCTACCTAAGAAAC
Found at i:1993788 original size:31 final size:32
Alignment explanation
Indices: 1993731--1993808 Score: 95
Period size: 31 Copynumber: 2.5 Consensus size: 32
1993721 TTGGGGCCAT
1993731 AGGGCCTACCTAAGAACACATCTTAGGGCCGC
1 AGGGCCTACCTAAGAACACATCTTAGGGCCGC
* ** * *
1993763 AGGGCCTACCTGAGAA-TGATCTTAGGGCTGT
1 AGGGCCTACCTAAGAACACATCTTAGGGCCGC
*
1993794 AGAGCCTACCTAAGA
1 AGGGCCTACCTAAGA
1993809 GTCACATTAG
Statistics
Matches: 39, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
31 24 0.62
32 15 0.38
ACGTcount: A:0.28, C:0.26, G:0.27, T:0.19
Consensus pattern (32 bp):
AGGGCCTACCTAAGAACACATCTTAGGGCCGC
Found at i:1997721 original size:2 final size:2
Alignment explanation
Indices: 1997714--1997743 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
1997704 ATACGAAGAA
1997714 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
1997744 GGTTAGAGAA
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:1998411 original size:16 final size:16
Alignment explanation
Indices: 1998378--1998416 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 16
1998368 TTTCATATTT
*
1998378 TTTTAAATTTATATAA
1 TTTTAAATTTATAAAA
1998394 TTTTAAATCTT-TAAAA
1 TTTTAAAT-TTATAAAA
1998410 TTTTAAA
1 TTTTAAA
1998417 ATAACATTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 19 0.90
17 2 0.10
ACGTcount: A:0.44, C:0.03, G:0.00, T:0.54
Consensus pattern (16 bp):
TTTTAAATTTATAAAA
Found at i:2001416 original size:35 final size:35
Alignment explanation
Indices: 2001364--2001462 Score: 180
Period size: 35 Copynumber: 2.8 Consensus size: 35
2001354 AACAAATATC
*
2001364 TACCAAACTTTGAAAAACATTTTTCAAAGAAACATT
1 TACCAAACTTTGAAAACCA-TTTTCAAAGAAACATT
2001400 TACCAAACTTTGAAAACCATTTTCAAAGAAACATT
1 TACCAAACTTTGAAAACCATTTTCAAAGAAACATT
2001435 TACCAAACTTTGAAAACCATTTTCAAAG
1 TACCAAACTTTGAAAACCATTTTCAAAG
2001463 TTGGTTGCCA
Statistics
Matches: 62, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
35 44 0.71
36 18 0.29
ACGTcount: A:0.45, C:0.19, G:0.06, T:0.29
Consensus pattern (35 bp):
TACCAAACTTTGAAAACCATTTTCAAAGAAACATT
Found at i:2001420 original size:21 final size:21
Alignment explanation
Indices: 2001396--2001456 Score: 64
Period size: 21 Copynumber: 3.2 Consensus size: 21
2001386 TTCAAAGAAA
2001396 CATTTACCAAACTTTGAAAAC
1 CATTTACCAAACTTTGAAAAC
*
2001417 CATTT-TCAAA----G-AAA-
1 CATTTACCAAACTTTGAAAAC
2001431 CATTTACCAAACTTTGAAAAC
1 CATTTACCAAACTTTGAAAAC
2001452 CATTT
1 CATTT
2001457 TCAAAGTTGG
Statistics
Matches: 31, Mismatches: 2, Indels: 14
0.66 0.04 0.30
Matches are distributed among these distances:
14 5 0.16
15 7 0.23
16 1 0.03
19 1 0.03
20 7 0.23
21 10 0.32
ACGTcount: A:0.43, C:0.21, G:0.05, T:0.31
Consensus pattern (21 bp):
CATTTACCAAACTTTGAAAAC
Found at i:2006038 original size:21 final size:21
Alignment explanation
Indices: 2006014--2006074 Score: 64
Period size: 21 Copynumber: 3.2 Consensus size: 21
2006004 TTCAAAGAAA
2006014 CATTTACCAAACTTTGAAAAC
1 CATTTACCAAACTTTGAAAAC
*
2006035 CATTT-TCAAA----G-AAA-
1 CATTTACCAAACTTTGAAAAC
2006049 CATTTACCAAACTTTGAAAAC
1 CATTTACCAAACTTTGAAAAC
2006070 CATTT
1 CATTT
2006075 TCAAAGTTGG
Statistics
Matches: 31, Mismatches: 2, Indels: 14
0.66 0.04 0.30
Matches are distributed among these distances:
14 5 0.16
15 7 0.23
16 1 0.03
19 1 0.03
20 7 0.23
21 10 0.32
ACGTcount: A:0.43, C:0.21, G:0.05, T:0.31
Consensus pattern (21 bp):
CATTTACCAAACTTTGAAAAC
Found at i:2006041 original size:35 final size:35
Alignment explanation
Indices: 2005976--2006080 Score: 185
Period size: 35 Copynumber: 3.0 Consensus size: 35
2005966 AACATCTACC
*
2005976 AAAC-TTTACCAAACTTTGAAAAACATTTTTCAAAG
1 AAACATTTACCAAACTTTGAAAACCA-TTTTCAAAG
2006011 AAACATTTACCAAACTTTGAAAACCATTTTCAAAG
1 AAACATTTACCAAACTTTGAAAACCATTTTCAAAG
2006046 AAACATTTACCAAACTTTGAAAACCATTTTCAAAG
1 AAACATTTACCAAACTTTGAAAACCATTTTCAAAG
2006081 TTGGTTGCCA
Statistics
Matches: 68, Mismatches: 1, Indels: 2
0.96 0.01 0.03
Matches are distributed among these distances:
35 48 0.71
36 20 0.29
ACGTcount: A:0.46, C:0.19, G:0.06, T:0.30
Consensus pattern (35 bp):
AAACATTTACCAAACTTTGAAAACCATTTTCAAAG
Found at i:2006935 original size:21 final size:21
Alignment explanation
Indices: 2006894--2006988 Score: 104
Period size: 21 Copynumber: 4.5 Consensus size: 21
2006884 AGTAAGTTTG
**
2006894 GGATCGATCCC-TCAAGGAAAA
1 GGATCGATCCCTTC-ACCAAAA
*
2006915 GTATCGATCCCTTCACCAAAA
1 GGATCGATCCCTTCACCAAAA
2006936 GGATCGATCCCTTCACCAAAA
1 GGATCGATCCCTTCACCAAAA
**
2006957 GGATCGAT-CCTTCGATGAAAA
1 GGATCGATCCCTTC-ACCAAAA
*
2006978 TGATCGATCCC
1 GGATCGATCCC
2006989 CTTCTTGCAA
Statistics
Matches: 64, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
20 5 0.08
21 55 0.86
22 4 0.06
ACGTcount: A:0.33, C:0.28, G:0.18, T:0.21
Consensus pattern (21 bp):
GGATCGATCCCTTCACCAAAA
Found at i:2023248 original size:85 final size:85
Alignment explanation
Indices: 2023148--2023318 Score: 342
Period size: 85 Copynumber: 2.0 Consensus size: 85
2023138 TGTCCTCTAC
2023148 ACATTACTAAAATTAAGGAATTTTTTCTGAAACAAATGAATAAAATGTATTTGGTATTAAATGTT
1 ACATTACTAAAATTAAGGAATTTTTTCTGAAACAAATGAATAAAATGTATTTGGTATTAAATGTT
2023213 TTACATCTTTGTTCAAGATA
66 TTACATCTTTGTTCAAGATA
2023233 ACATTACTAAAATTAAGGAATTTTTTCTGAAACAAATGAATAAAATGTATTTGGTATTAAATGTT
1 ACATTACTAAAATTAAGGAATTTTTTCTGAAACAAATGAATAAAATGTATTTGGTATTAAATGTT
2023298 TTACATCTTTGTTCAAGATA
66 TTACATCTTTGTTCAAGATA
2023318 A
1 A
2023319 GAATTAAGCT
Statistics
Matches: 86, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
85 86 1.00
ACGTcount: A:0.40, C:0.08, G:0.12, T:0.40
Consensus pattern (85 bp):
ACATTACTAAAATTAAGGAATTTTTTCTGAAACAAATGAATAAAATGTATTTGGTATTAAATGTT
TTACATCTTTGTTCAAGATA
Found at i:2024077 original size:2 final size:2
Alignment explanation
Indices: 2024070--2024097 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
2024060 AACTACCCTA
2024070 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
2024098 GAGAAAATAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2025091 original size:62 final size:62
Alignment explanation
Indices: 2024991--2025138 Score: 170
Period size: 62 Copynumber: 2.4 Consensus size: 62
2024981 AAAGTGCTTT
* ** * * *
2024991 TTCGAAAATTGAGTTGTAAAATTGGCGAATTCGAGTTGCGAAATCCGAATTCGAGTTGCGAA
1 TTCGAAAACTGAGTTGCGAATTTGGCAAATTCGAGTTGCGAAATCCAAATTCGAGTTGCGAA
* * ** **
2025053 TTTGAAAACTGAGTTGCGAATTTGGCAAATTCGTGTTGCGAAATGTAAATTCTTGTTGCGAA
1 TTCGAAAACTGAGTTGCGAATTTGGCAAATTCGAGTTGCGAAATCCAAATTCGAGTTGCGAA
* *
2025115 TTCGAAAACTGTGTTACGAATTTG
1 TTCGAAAACTGAGTTGCGAATTTG
2025139 ACTTTCGTGT
Statistics
Matches: 71, Mismatches: 15, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
62 71 1.00
ACGTcount: A:0.30, C:0.12, G:0.24, T:0.33
Consensus pattern (62 bp):
TTCGAAAACTGAGTTGCGAATTTGGCAAATTCGAGTTGCGAAATCCAAATTCGAGTTGCGAA
Found at i:2025129 original size:20 final size:19
Alignment explanation
Indices: 2025045--2025136 Score: 60
Period size: 20 Copynumber: 4.5 Consensus size: 19
2025035 CCGAATTCGA
*
2025045 GTTGCGAATTTGAAAACTGA
1 GTTGCGAA-TTGAAAACTGT
* *
2025065 GTTGCGAATTTGGCAAATTCGT
1 GTTGCGAA-TT-GAAAACT-GT
* *
2025087 GTTGCGAAATGTAAATTCT-T
1 GTTGCGAATTG-AAA-ACTGT
2025107 GTTGCGAATTCGAAAACTGT
1 GTTGCGAATT-GAAAACTGT
*
2025127 GTTACGAATT
1 GTTGCGAATT
2025137 TGACTTTCGT
Statistics
Matches: 56, Mismatches: 10, Indels: 12
0.72 0.13 0.15
Matches are distributed among these distances:
19 2 0.04
20 35 0.62
21 9 0.16
22 10 0.18
ACGTcount: A:0.29, C:0.12, G:0.24, T:0.35
Consensus pattern (19 bp):
GTTGCGAATTGAAAACTGT
Found at i:2030792 original size:57 final size:57
Alignment explanation
Indices: 2030726--2030839 Score: 219
Period size: 57 Copynumber: 2.0 Consensus size: 57
2030716 ATGACCTCTG
*
2030726 GATAGGTCTTTCGGGACATTTATACGAGCTGTGGTGACAACATAGTTGTGCACAACC
1 GATAGGTCTTTCGGGACATTTATACGAGCAGTGGTGACAACATAGTTGTGCACAACC
2030783 GATAGGTCTTTCGGGACATTTATACGAGCAGTGGTGACAACATAGTTGTGCACAACC
1 GATAGGTCTTTCGGGACATTTATACGAGCAGTGGTGACAACATAGTTGTGCACAACC
2030840 TCAGTGTACT
Statistics
Matches: 56, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
57 56 1.00
ACGTcount: A:0.27, C:0.19, G:0.26, T:0.27
Consensus pattern (57 bp):
GATAGGTCTTTCGGGACATTTATACGAGCAGTGGTGACAACATAGTTGTGCACAACC
Found at i:2031703 original size:21 final size:21
Alignment explanation
Indices: 2031677--2031717 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 21
2031667 AGCATTATTG
2031677 TAGCA-GGATATCGGTTCCCTA
1 TAGCAGGGA-ATCGGTTCCCTA
2031698 TAGCAGGGGAATCGGTTCCC
1 TAGCA-GGGAATCGGTTCCC
2031718 CTATGACAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 5 0.28
22 10 0.56
23 3 0.17
ACGTcount: A:0.22, C:0.24, G:0.29, T:0.24
Consensus pattern (21 bp):
TAGCAGGGAATCGGTTCCCTA
Found at i:2032759 original size:3 final size:3
Alignment explanation
Indices: 2032751--2032783 Score: 57
Period size: 3 Copynumber: 11.0 Consensus size: 3
2032741 TTTCGACATT
*
2032751 TTA TTA TTA TTA TTA TTA CTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
2032784 ACTAAATTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (3 bp):
TTA
Found at i:2041297 original size:23 final size:23
Alignment explanation
Indices: 2041239--2041309 Score: 85
Period size: 23 Copynumber: 3.2 Consensus size: 23
2041229 TCTTAAGGAG
2041239 ATTTCTATGTGGTC-CTTCGG-GC
1 ATTTCTATGTGG-CACTTCGGTGC
*
2041261 ATTT-TATATGGCACTTCGGTGC
1 ATTTCTATGTGGCACTTCGGTGC
* *
2041283 ATTTCTACGTGGCACTTCGGTGT
1 ATTTCTATGTGGCACTTCGGTGC
2041306 ATTT
1 ATTT
2041310 TATAAGAGCT
Statistics
Matches: 42, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
20 1 0.02
21 12 0.29
22 10 0.24
23 19 0.45
ACGTcount: A:0.14, C:0.20, G:0.24, T:0.42
Consensus pattern (23 bp):
ATTTCTATGTGGCACTTCGGTGC
Found at i:2049357 original size:17 final size:18
Alignment explanation
Indices: 2049326--2049359 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
2049316 GTATGGTGTA
*
2049326 ATGATTGTATTACATGAT
1 ATGATTGTATGACATGAT
2049344 ATGA-TGTATGACATGA
1 ATGATTGTATGACATGA
2049360 ACTCATATGA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.35, C:0.06, G:0.21, T:0.38
Consensus pattern (18 bp):
ATGATTGTATGACATGAT
Found at i:2051395 original size:30 final size:30
Alignment explanation
Indices: 2051325--2051397 Score: 78
Period size: 30 Copynumber: 2.4 Consensus size: 30
2051315 AATGGATTTA
* * *
2051325 TTTAGTGACCAAATTATAAATTTGGTAAAG
1 TTTAGGGACCAAAGTATAAATTTGGAAAAG
*
2051355 TTT-GGTGACCAAAGTATAAACTTT-GAAAAT
1 TTTAGG-GACCAAAGTATAAA-TTTGGAAAAG
2051385 TTTAGGGACCAAA
1 TTTAGGGACCAAA
2051398 AAGTAATTTT
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
29 1 0.03
30 30 0.83
31 5 0.14
ACGTcount: A:0.40, C:0.10, G:0.18, T:0.33
Consensus pattern (30 bp):
TTTAGGGACCAAAGTATAAATTTGGAAAAG
Found at i:2051571 original size:218 final size:218
Alignment explanation
Indices: 2051193--2051629 Score: 813
Period size: 218 Copynumber: 2.0 Consensus size: 218
2051183 AAGATGTAAT
* *
2051193 ACCCCAAAAATTTAGATAATGACCAAAATGTAAATTTTGAAAGTTTGGTGGTCAAAGTAGAAAAT
1 ACCCCAAAAATTTAGATAATGACCAAAATATAAATTTTGAAAGTTTGATGGTCAAAGTAGAAAAT
2051258 TTTGGAAAAGTTTAAGAAATTAAGTGTTAAATTTTCCCAAAATTTTTTTATTCCATAAATGGATT
66 TTTGGAAAAGTTTAAGAAATTAAGTGTTAAATTTTCCCAAAATTTTTTTATTCCATAAATGGATT
*
2051323 TATTTAGTGACCAAATTATAAATTTGGTAAAGTTTGGTGACCAAAGTATAAACTTTGAAAATTTT
131 TATTTAGTGACCAAATTATAAATTTGGTAAAGTTTGGTGACCAAAGTATAAACTTTGAAAAGTTT
2051388 AGGGACCAAAAAGTAATTTTGGA
196 AGGGACCAAAAAGTAATTTTGGA
2051411 ACCCCAAAAATTTAGATAATGACCAAAATATAAATTTTGAAAGTTTGATGGTCAAAGTAG-AAAT
1 ACCCCAAAAATTTAGATAATGACCAAAATATAAATTTTGAAAGTTTGATGGTCAAAGTAGAAAAT
2051475 TTTGGGAAAAGTTTAAGAAATTAAGTGTTAAATTTTCCCAAAATTTTTTTATTCCATAAATGGAT
66 TTT-GGAAAAGTTTAAGAAATTAAGTGTTAAATTTTCCCAAAATTTTTTTATTCCATAAATGGAT
*
2051540 TTATTTAGTGACCAAATTATAAATTTGGTAAAGTTTGGTGACTAAAGTATAAACTTTGAAAAGTT
130 TTATTTAGTGACCAAATTATAAATTTGGTAAAGTTTGGTGACCAAAGTATAAACTTTGAAAAGTT
*
2051605 TAGGGACTAAAAAGTAATTTTGGA
195 TAGGGACCAAAAAGTAATTTTGGA
2051629 A
1 A
2051630 AAATTAAAAA
Statistics
Matches: 213, Mismatches: 5, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
217 7 0.03
218 206 0.97
ACGTcount: A:0.41, C:0.08, G:0.16, T:0.35
Consensus pattern (218 bp):
ACCCCAAAAATTTAGATAATGACCAAAATATAAATTTTGAAAGTTTGATGGTCAAAGTAGAAAAT
TTTGGAAAAGTTTAAGAAATTAAGTGTTAAATTTTCCCAAAATTTTTTTATTCCATAAATGGATT
TATTTAGTGACCAAATTATAAATTTGGTAAAGTTTGGTGACCAAAGTATAAACTTTGAAAAGTTT
AGGGACCAAAAAGTAATTTTGGA
Found at i:2051591 original size:30 final size:31
Alignment explanation
Indices: 2051543--2051615 Score: 82
Period size: 30 Copynumber: 2.5 Consensus size: 31
2051533 AATGGATTTA
* * *
2051543 TTTA-GTGACCAAATTATAAA-TTTGGTAAAG
1 TTTAGGTGACTAAAGTATAAACTTT-GAAAAG
2051573 TTT-GGTGACTAAAGTATAAACTTTGAAAAG
1 TTTAGGTGACTAAAGTATAAACTTTGAAAAG
2051603 TTTAGG-GACTAAA
1 TTTAGGTGACTAAA
2051616 AAGTAATTTT
Statistics
Matches: 37, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
30 32 0.86
31 5 0.14
ACGTcount: A:0.40, C:0.07, G:0.19, T:0.34
Consensus pattern (31 bp):
TTTAGGTGACTAAAGTATAAACTTTGAAAAG
Found at i:2053578 original size:12 final size:12
Alignment explanation
Indices: 2053561--2053597 Score: 56
Period size: 12 Copynumber: 3.1 Consensus size: 12
2053551 ATATTGTTGA
2053561 AGTTACTGTAGC
1 AGTTACTGTAGC
*
2053573 AGTTACTGTAGT
1 AGTTACTGTAGC
*
2053585 AGTTACTATAGC
1 AGTTACTGTAGC
2053597 A
1 A
2053598 ATGAACAGTA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.30, C:0.14, G:0.22, T:0.35
Consensus pattern (12 bp):
AGTTACTGTAGC
Found at i:2054517 original size:134 final size:134
Alignment explanation
Indices: 2054345--2054888 Score: 698
Period size: 134 Copynumber: 4.1 Consensus size: 134
2054335 TTTTCATATA
* * ** * * *
2054345 TGATATTCCCTCCAGAATAAGTGGAATAAATCCCTCTCTTTCAAGATTTGATGTTCCCCGAGTGA
1 TGATATTCCCTTCAGAAGAAGCAGAACAAATCCCTCTCTTTCAAGATTTGATATTCCCTGAGTGA
* * * ** * **
2054410 CAGTGGAACAAGTCTGCCCCTATTCAATCTTCCCTGAGTAACATAGAAATGGATCAACAT-CCGT
66 TAGCGGAACAAGTCTGCCCCGATTCAATCTTCCCTGAGTAACAGCGGAATGGATCAAC-TCCCCC
2054474 AGATC
130 AGATC
** * * *
2054479 CAATATTCCCTTCAGAAGAAGCAGAACATATCCCTCTCTTCCAAGATTTGATAATCCCTGAGTGA
1 TGATATTCCCTTCAGAAGAAGCAGAACAAATCCCTCTCTTTCAAGATTTGATATTCCCTGAGTGA
* * * * * *
2054544 TAGCAGAACAAGTCTTCCTCAATTCAATCTTCCCTGAGTAACAGCGGAATGAATCAACTCCCCCG
66 TAGCGGAACAAGTCTGCCCCGATTCAATCTTCCCTGAGTAACAGCGGAATGGATCAACTCCCCCA
2054609 GATC
131 GATC
* * *
2054613 TGATATTCCCTTCAGAAGAAGCAGAACATATCCCTCTCTTTCAAGATTTGATATTCCATGAGTGG
1 TGATATTCCCTTCAGAAGAAGCAGAACAAATCCCTCTCTTTCAAGATTTGATATTCCCTGAGTGA
* * *
2054678 TAGCGGAACAAGTCTGCCCCGATTCAATCTTCCGTGAGTGACCGCGGAATGGATCAACTCCCCCA
66 TAGCGGAACAAGTCTGCCCCGATTCAATCTTCCCTGAGTAACAGCGGAATGGATCAACTCCCCCA
*
2054743 GATA
131 GATC
2054747 TGATATTCCCTTCAGAAGAAGC-GAAACAAATCCCTCTCTTTCAAGATTTGATATTCCCTGAGTG
1 TGATATTCCCTTCAGAAGAAGCAG-AACAAATCCCTCTCTTTCAAGATTTGATATTCCCTGAGTG
* * * * *
2054811 ATAGCGGAACAAGTATGCCCCGATTTAATCTTCCCTGAGTGATAGCGGAATGAATCAACAT-CCC
65 ATAGCGGAACAAGTCTGCCCCGATTCAATCTTCCCTGAGTAACAGCGGAATGGATCAAC-TCCCC
2054875 CAGATC
129 CAGATC
2054881 TGATATTC
1 TGATATTC
2054889 TCTGAGTGAC
Statistics
Matches: 356, Mismatches: 51, Indels: 6
0.86 0.12 0.01
Matches are distributed among these distances:
133 2 0.01
134 353 0.99
135 1 0.00
ACGTcount: A:0.30, C:0.26, G:0.17, T:0.27
Consensus pattern (134 bp):
TGATATTCCCTTCAGAAGAAGCAGAACAAATCCCTCTCTTTCAAGATTTGATATTCCCTGAGTGA
TAGCGGAACAAGTCTGCCCCGATTCAATCTTCCCTGAGTAACAGCGGAATGGATCAACTCCCCCA
GATC
Found at i:2055044 original size:3 final size:3
Alignment explanation
Indices: 2055036--2055111 Score: 152
Period size: 3 Copynumber: 25.3 Consensus size: 3
2055026 TTTTTTGTCA
2055036 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
2055084 TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT T
2055112 GTTGTTGTTG
Statistics
Matches: 73, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 73 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:2055116 original size:3 final size:3
Alignment explanation
Indices: 2055110--2055156 Score: 85
Period size: 3 Copynumber: 15.7 Consensus size: 3
2055100 ATTATTATTA
*
2055110 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTT TTG TTG TTG TTG TT
1 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TT
2055157 ATTAATTAAA
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.00, C:0.00, G:0.30, T:0.70
Consensus pattern (3 bp):
TTG
Found at i:2058668 original size:35 final size:35
Alignment explanation
Indices: 2058622--2058702 Score: 162
Period size: 35 Copynumber: 2.3 Consensus size: 35
2058612 CTTGTCATAG
2058622 CATATTTTTCCATTTGTTCATACCATATGCCACAT
1 CATATTTTTCCATTTGTTCATACCATATGCCACAT
2058657 CATATTTTTCCATTTGTTCATACCATATGCCACAT
1 CATATTTTTCCATTTGTTCATACCATATGCCACAT
2058692 CATATTTTTCC
1 CATATTTTTCC
2058703 CTTGTTTATA
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 46 1.00
ACGTcount: A:0.25, C:0.26, G:0.05, T:0.44
Consensus pattern (35 bp):
CATATTTTTCCATTTGTTCATACCATATGCCACAT
Found at i:2067592 original size:18 final size:18
Alignment explanation
Indices: 2067569--2067611 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
2067559 AACTCCAACG
*
2067569 TTCTTCTTTTTCTCCA-TC
1 TTCTTCTTTGTCT-CATTC
2067587 TTCTTCTTTGTCTCATTC
1 TTCTTCTTTGTCTCATTC
2067605 TTCTTCT
1 TTCTTCT
2067612 CTAGGTCTAC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 2 0.09
18 21 0.91
ACGTcount: A:0.05, C:0.30, G:0.02, T:0.63
Consensus pattern (18 bp):
TTCTTCTTTGTCTCATTC
Found at i:2074296 original size:13 final size:13
Alignment explanation
Indices: 2074278--2074308 Score: 62
Period size: 13 Copynumber: 2.4 Consensus size: 13
2074268 TATTTCTTTG
2074278 ACTAATCATTTCA
1 ACTAATCATTTCA
2074291 ACTAATCATTTCA
1 ACTAATCATTTCA
2074304 ACTAA
1 ACTAA
2074309 CTTGATTCTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.42, C:0.23, G:0.00, T:0.35
Consensus pattern (13 bp):
ACTAATCATTTCA
Found at i:2074352 original size:31 final size:29
Alignment explanation
Indices: 2074299--2074356 Score: 89
Period size: 31 Copynumber: 1.9 Consensus size: 29
2074289 CAACTAATCA
2074299 TTTCAACTAACTTGATTCTTTTTGTCTTG
1 TTTCAACTAACTTGATTCTTTTTGTCTTG
*
2074328 TTTCTACTAACATTGATTTCTTTTTGTCT
1 TTTCAACTAAC-TTGA-TTCTTTTTGTCT
2074357 GGTCTGTTGC
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
29 10 0.38
30 4 0.15
31 12 0.46
ACGTcount: A:0.17, C:0.17, G:0.09, T:0.57
Consensus pattern (29 bp):
TTTCAACTAACTTGATTCTTTTTGTCTTG
Found at i:2077077 original size:74 final size:75
Alignment explanation
Indices: 2076954--2077287 Score: 374
Period size: 74 Copynumber: 4.5 Consensus size: 75
2076944 TGAAATCCTA
* *
2076954 TCTTAAAACAGACTTTGTCTCACTTGAGATAGTTTTACTCGAAAGAAGACATTT-ATCTCACTTG
1 TCTTAAAACAGACTTTGTCTCGCTTGAGATAGTTTTACTCGAAAAAAGACATTTCATCTCACTTG
*
2077018 AGATTATTTT
66 AGATTGTTTT
* *
2077028 TCTTAAAACAGTCTTTGTCTCGCTTGAGATAGTTTTACTCGAAATAAGACATTT-ATCTCACTTG
1 TCTTAAAACAGACTTTGTCTCGCTTGAGATAGTTTTACTCGAAAAAAGACATTTCATCTCACTTG
2077092 AGATT-TTTT
66 AGATTGTTTT
* * * * * *
2077101 TGCTTAAAACAAACTTTGTCTCGTTTGAGACAATTTTACTCGAAAAAATACATTTCATTTCAC-T
1 T-CTTAAAACAGACTTTGTCTCGCTTGAGATAGTTTTACTCGAAAAAAGACATTTCATCTCACTT
*
2077165 CAGATTGTTTT
65 GAGATTGTTTT
** * * * *
2077176 TCTTAAAACAAGA-TTCATCTCGCTTGAGATAATTTTTACCCGAAACAAGA-ATATTCATTTCAC
1 TCTTAAAAC-AGACTTTGTCTCGCTTGAGAT-AGTTTTACTCGAAAAAAGACAT-TTCATCTCAC
**
2077239 TCAAGATTGTTTT
63 TTGAGATTGTTTT
* * *
2077252 TCTTGAAACCAGATTTTGTCTCGATTGAGATAGTTT
1 TCTT-AAAACAGACTTTGTCTCGCTTGAGATAGTTT
2077288 CACTTAAAAC
Statistics
Matches: 223, Mismatches: 28, Indels: 16
0.84 0.10 0.06
Matches are distributed among these distances:
73 5 0.02
74 141 0.63
75 38 0.17
76 21 0.09
77 18 0.08
ACGTcount: A:0.31, C:0.17, G:0.13, T:0.40
Consensus pattern (75 bp):
TCTTAAAACAGACTTTGTCTCGCTTGAGATAGTTTTACTCGAAAAAAGACATTTCATCTCACTTG
AGATTGTTTT
Found at i:2077319 original size:39 final size:39
Alignment explanation
Indices: 2077262--2077746 Score: 688
Period size: 39 Copynumber: 12.5 Consensus size: 39
2077252 TCTTGAAACC
* * **
2077262 AGATTTTGTCTCGATTGAGATAGTTTCACTTAAAACAGA
1 AGATTTTATCTCGCTTGAGATAGTTTCACTCGAAACAGA
* *
2077301 ATATTTTATCTCGCTTGAGATAGTTTCCCTCGAAACAGA
1 AGATTTTATCTCGCTTGAGATAGTTTCACTCGAAACAGA
* *
2077340 AGATTTTATCTCGCTTGAGATAGTTTCCCTCGAAACTGA
1 AGATTTTATCTCGCTTGAGATAGTTTCACTCGAAACAGA
*
2077379 AGATTTTATCTCGCTTGAGACAGTTTCACTCGAAACAGA
1 AGATTTTATCTCGCTTGAGATAGTTTCACTCGAAACAGA
*
2077418 AGATTTTATCTCGCTTGAGACT-GTTTCACTCAAAACA-A
1 AGATTTTATCTCGCTTGAGA-TAGTTTCACTCGAAACAGA
*
2077456 TAGATTTTATCTCGCTTGAGATAGTTTCCCTCGAAACAGA
1 -AGATTTTATCTCGCTTGAGATAGTTTCACTCGAAACAGA
2077496 AGATTTTATCTCGCTTGAGATAGTTTCACTCGAAACAGA
1 AGATTTTATCTCGCTTGAGATAGTTTCACTCGAAACAGA
* * *
2077535 AGATTTTGTCTCTCTTGAGATAGTTTCCCTCGAAACAGA
1 AGATTTTATCTCGCTTGAGATAGTTTCACTCGAAACAGA
* * *
2077574 ATATTTTATCTCGCTTGAGATTGTTTCACTCGAAACAAA
1 AGATTTTATCTCGCTTGAGATAGTTTCACTCGAAACAGA
* * *
2077613 AGATTTTTTCTCGCTTGAGATAGTTTCCCTTGAAACAGA
1 AGATTTTATCTCGCTTGAGATAGTTTCACTCGAAACAGA
* * * *
2077652 ATATTTTATCTCGCTTGAGATAGTCTCACTCGAAATAAA
1 AGATTTTATCTCGCTTGAGATAGTTTCACTCGAAACAGA
* *
2077691 AGATTTTATCTCGCTTGAGATTGTTTCACTCGAAAGAGA
1 AGATTTTATCTCGCTTGAGATAGTTTCACTCGAAACAGA
*
2077730 AGA-TTTATCTCACTTGA
1 AGATTTTATCTCGCTTGA
2077747 AATTGCTTTT
Statistics
Matches: 398, Mismatches: 44, Indels: 9
0.88 0.10 0.02
Matches are distributed among these distances:
38 15 0.04
39 382 0.96
40 1 0.00
ACGTcount: A:0.29, C:0.19, G:0.16, T:0.36
Consensus pattern (39 bp):
AGATTTTATCTCGCTTGAGATAGTTTCACTCGAAACAGA
Found at i:2078032 original size:92 final size:95
Alignment explanation
Indices: 2077795--2078042 Score: 243
Period size: 97 Copynumber: 2.6 Consensus size: 95
2077785 GATTAACATT
* * * * * * * **
2077795 TCCTTTGCTAGATTCATGGCATTTCAAATCAACGACCCCTCACTCGAGGGAGCAACATTTTCAGT
1 TCCTTGGCTCGATTCACGACATTTCAAATCAACGACGCCTCACTTGAGGGACCAACATTCCCAGT
* *
2077860 AGAGAATTCATAATTAAGAGCTTATTCACA
66 AGAGAATTCATAATGAAGAACTTATTCACA
* * * * * * *
2077890 TTTCCTTTGG-TCGATTCACAACACTCCAAATCATCCACGCCTCACATGAGGGACCAACGTTCCC
1 --TCC-TTGGCTCGATTCACGACATTTCAAATCAACGACGCCTCACTTGAGGGACCAACATTCCC
*
2077954 AGTAGAGAATTCATGA-GAAGAACTTATTCA-A
63 AGTAGAGAATTCATAATGAAGAACTTATTCACA
* * *
2077985 -CCTTGGCTCGATTCACGACATTTCGAATCAACGATGCCTCACTTGAGGGACGAACATT
1 TCCTTGGCTCGATTCACGACATTTCAAATCAACGACGCCTCACTTGAGGGACCAACATT
2078043 TACAATGGAC
Statistics
Matches: 120, Mismatches: 29, Indels: 9
0.76 0.18 0.06
Matches are distributed among these distances:
91 4 0.03
92 43 0.36
95 1 0.01
96 12 0.10
97 57 0.47
98 3 0.03
ACGTcount: A:0.30, C:0.26, G:0.17, T:0.27
Consensus pattern (95 bp):
TCCTTGGCTCGATTCACGACATTTCAAATCAACGACGCCTCACTTGAGGGACCAACATTCCCAGT
AGAGAATTCATAATGAAGAACTTATTCACA
Found at i:2080132 original size:9 final size:9
Alignment explanation
Indices: 2080114--2080150 Score: 58
Period size: 9 Copynumber: 4.2 Consensus size: 9
2080104 ATTATTTAGG
*
2080114 TTTATTTTA
1 TTTATGTTA
2080123 TTTATGTTA
1 TTTATGTTA
2080132 TTTATGTTA
1 TTTATGTTA
2080141 TTTAT-TTA
1 TTTATGTTA
2080149 TT
1 TT
2080151 GTTTTTAATT
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
8 5 0.19
9 22 0.81
ACGTcount: A:0.22, C:0.00, G:0.05, T:0.73
Consensus pattern (9 bp):
TTTATGTTA
Found at i:2092926 original size:101 final size:101
Alignment explanation
Indices: 2092751--2092952 Score: 404
Period size: 101 Copynumber: 2.0 Consensus size: 101
2092741 TCAATCCGAA
2092751 TACTCTATGTGAAATTCCCCAGGACATCATCCATAAGGACTTACCCTAGACCTCTAGGATCTTGG
1 TACTCTATGTGAAATTCCCCAGGACATCATCCATAAGGACTTACCCTAGACCTCTAGGATCTTGG
2092816 AGTCCAATATGAATGATAAGAACAGAAAGGATTTAC
66 AGTCCAATATGAATGATAAGAACAGAAAGGATTTAC
2092852 TACTCTATGTGAAATTCCCCAGGACATCATCCATAAGGACTTACCCTAGACCTCTAGGATCTTGG
1 TACTCTATGTGAAATTCCCCAGGACATCATCCATAAGGACTTACCCTAGACCTCTAGGATCTTGG
2092917 AGTCCAATATGAATGATAAGAACAGAAAGGATTTAC
66 AGTCCAATATGAATGATAAGAACAGAAAGGATTTAC
2092953 CAGCTAACTG
Statistics
Matches: 101, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
101 101 1.00
ACGTcount: A:0.35, C:0.22, G:0.18, T:0.26
Consensus pattern (101 bp):
TACTCTATGTGAAATTCCCCAGGACATCATCCATAAGGACTTACCCTAGACCTCTAGGATCTTGG
AGTCCAATATGAATGATAAGAACAGAAAGGATTTAC
Found at i:2093792 original size:23 final size:23
Alignment explanation
Indices: 2093766--2093813 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 23
2093756 ATAAAGTACA
*
2093766 ATAACATACTAGGTAGCGCTTAT
1 ATAACATAATAGGTAGCGCTTAT
**
2093789 ATAATGTAATAGGTAGCGCTTAT
1 ATAACATAATAGGTAGCGCTTAT
2093812 AT
1 AT
2093814 TTACCTATTT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.35, C:0.12, G:0.19, T:0.33
Consensus pattern (23 bp):
ATAACATAATAGGTAGCGCTTAT
Found at i:2094266 original size:23 final size:23
Alignment explanation
Indices: 2094231--2094303 Score: 119
Period size: 23 Copynumber: 3.2 Consensus size: 23
2094221 ATACTTTACA
*
2094231 ATATAAGCACTACCTATTACATT
1 ATATAAGCGCTACCTATTACATT
*
2094254 ATATAAACGCTACCTATTACATT
1 ATATAAGCGCTACCTATTACATT
*
2094277 ATATAAGCGCTACCTATTACATC
1 ATATAAGCGCTACCTATTACATT
2094300 ATAT
1 ATAT
2094304 TTTTACCTAT
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 46 1.00
ACGTcount: A:0.38, C:0.22, G:0.05, T:0.34
Consensus pattern (23 bp):
ATATAAGCGCTACCTATTACATT
Found at i:2094697 original size:23 final size:23
Alignment explanation
Indices: 2094671--2094733 Score: 99
Period size: 23 Copynumber: 2.7 Consensus size: 23
2094661 ATATAACCAC
2094671 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
* *
2094694 TACCTATTACATTATATAAGCGC
1 TACCTATTACATTATATAAACGA
*
2094717 TACCTATTACATCATAT
1 TACCTATTACATTATAT
2094734 TTTTACCTAT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.38, C:0.21, G:0.05, T:0.37
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:2095127 original size:23 final size:23
Alignment explanation
Indices: 2095101--2095163 Score: 90
Period size: 23 Copynumber: 2.7 Consensus size: 23
2095091 ATATAACCAC
2095101 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
* * *
2095124 TACCTATTATATTATATAAGCGC
1 TACCTATTACATTATATAAACGA
*
2095147 TACCTATTACATCATAT
1 TACCTATTACATTATAT
2095164 TTTTACCTAT
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 35 1.00
ACGTcount: A:0.38, C:0.19, G:0.05, T:0.38
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:2095504 original size:431 final size:430
Alignment explanation
Indices: 2093880--2095788 Score: 3611
Period size: 430 Copynumber: 4.4 Consensus size: 430
2093870 TATTACATTA
2093880 TATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAAT
1 TATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAAT
*
2093945 TTATGTTTCAATTTTTTTTAATAGTGTTTTATGTTTTCCACCTACAATATTAATTTAATAATTTC
66 TTATGTTTCAA-TTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTC
*
2094010 ATTTGCACAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTTTAATTT
130 ATTTGCACAAAAAATTATTTGATTGTTTTGATATTTTATAAAATATTATTTAGAATTTTTAATTT
*
2094075 AATAATAATGTATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATAT
195 AATAATAATATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATAT
2094140 CTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACT
260 CTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACT
* * *
2094205 TTTATAAAAAGGATAAATACTTTACAATATAAGCACTACCTATTACATTATATAAACGCTACCTA
325 TTTATAAAAAGGATAGATACTTTACAATATAACCACTACCTATTACATTATATAAACGATACCTA
2094270 TTACATTATATAAGCGCTACCTATTACATCATATTTTTACC
390 TTACATTATATAAGCGCTACCTATTACATCATATTTTTACC
2094311 TATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAAT
1 TATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAAT
*
2094376 TTATGTTTCAATTTTTTTAATAGTGTTTCATGTTTTTCACCTACAATATTAATTTAATAATTTCA
66 TTATGTTTCAATTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCA
2094441 TTTGCACAAAAAATTATTTGATTGTTTTGATATTTTATAAAATATTATTTAGAATTTTTAATTTA
131 TTTGCACAAAAAATTATTTGATTGTTTTGATATTTTATAAAATATTATTTAGAATTTTTAATTTA
2094506 ATAATAATATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATC
196 ATAATAATATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATC
2094571 TTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTT
261 TTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTT
2094636 TTATAAAAAGGATAGATACTTTACAATATAACCACTACCTATTACATTATATAAACGATACCTAT
326 TTATAAAAAGGATAGATACTTTACAATATAACCACTACCTATTACATTATATAAACGATACCTAT
2094701 TACATTATATAAGCGCTACCTATTACATCATATTTTTACC
391 TACATTATATAAGCGCTACCTATTACATCATATTTTTACC
*
2094741 TATTATATTGAAAGTGTCCATACTTTTTATAAAAATGATCGATACTTCTTTTAAAGTTATGTAAT
1 TATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAAT
2094806 TTATGTTTCAATTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCA
66 TTATGTTTCAATTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCA
*
2094871 TTTGCACAAAAAATTATTTGATTGTTTTGATATTTTATAAAATATTATTTAGAATTTTAAATTTA
131 TTTGCACAAAAAATTATTTGATTGTTTTGATATTTTATAAAATATTATTTAGAATTTTTAATTTA
2094936 ATAATAATATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATC
196 ATAATAATATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATC
2095001 TTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTT
261 TTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTT
* * *
2095066 TTATAAAAATGATAGACATTTTACAATATAACCACTACCTATTACATTATATAAACGATACCTAT
326 TTATAAAAAGGATAGATACTTTACAATATAACCACTACCTATTACATTATATAAACGATACCTAT
*
2095131 TATATTATATAAGCGCTACCTATTACATCATATTTTTACC
391 TACATTATATAAGCGCTACCTATTACATCATATTTTTACC
*
2095171 TATTATATTGAAAGTGTCCATACTTTTTATAAAATGGATCGATACTTCTTTTAAAGTTATGTAAT
1 TATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAAT
2095236 TTATGTTTCAATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTC
66 TTATGTTTCAA-TTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTC
2095301 ATTTGCACAAAAAATTATTTGATTGTTTTGATATTTTATAAAATATTATTTAGAATTTTTAATTT
130 ATTTGCACAAAAAATTATTTGATTGTTTTGATATTTTATAAAATATTATTTAGAATTTTTAATTT
2095366 AATAATAATATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATAT
195 AATAATAATATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATAT
*
2095431 CTTAAAACTCACTCAAAGGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACT
260 CTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACT
* *
2095496 TTTATAAAAAGGATATATACTTTACAATATAACCACTACCTATTATATTATATAAACGATACCTA
325 TTTATAAAAAGGATAGATACTTTACAATATAACCACTACCTATTACATTATATAAACGATACCTA
2095561 TTACATTATATAAGCGCTACCTATTACATCATATTTTTACC
390 TTACATTATATAAGCGCTACCTATTACATCATATTTTTACC
*
2095602 TATTATATTGAAAGTATCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAAT
1 TATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAAT
*
2095667 TTATGTTTCAATTTTTTTAACAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCA
66 TTATGTTTCAATTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCA
* *
2095732 TTTACACAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTT
131 TTTGCACAAAAAATTATTTGATTGTTTTGATATTTTATAAAATATTATTTAGAATTT
2095789 AGATTTAACA
Statistics
Matches: 1448, Mismatches: 29, Indels: 3
0.98 0.02 0.00
Matches are distributed among these distances:
430 952 0.66
431 496 0.34
ACGTcount: A:0.39, C:0.12, G:0.08, T:0.41
Consensus pattern (430 bp):
TATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAAT
TTATGTTTCAATTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCA
TTTGCACAAAAAATTATTTGATTGTTTTGATATTTTATAAAATATTATTTAGAATTTTTAATTTA
ATAATAATATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATC
TTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTT
TTATAAAAAGGATAGATACTTTACAATATAACCACTACCTATTACATTATATAAACGATACCTAT
TACATTATATAAGCGCTACCTATTACATCATATTTTTACC
Found at i:2095548 original size:861 final size:860
Alignment explanation
Indices: 2093880--2095796 Score: 3620
Period size: 861 Copynumber: 2.2 Consensus size: 860
2093870 TATTACATTA
2093880 TATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAAT
1 TATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAAT
*
2093945 TTATGTTTCAATTTTTTTTAATAGTGTTTTATGTTTTCCACCTACAATATTAATTTAATAATTTC
66 TTATGTTTCAA-TTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTC
*
2094010 ATTTGCACAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTTTAATTT
130 ATTTGCACAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTTAAATTT
*
2094075 AATAATAATGTATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATAT
195 AATAATAATATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATAT
2094140 CTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACT
260 CTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACT
* * *
2094205 TTTATAAAAAGGATAAATACTTTACAATATAAGCACTACCTATTACATTATATAAACGCTACCTA
325 TTTATAAAAAGGATAAACACTTTACAATATAACCACTACCTATTACATTATATAAACGATACCTA
2094270 TTACATTATATAAGCGCTACCTATTACATCATATTTTTACCTATTATATTGAAAGTGTCCATACT
390 TTACATTATATAAGCGCTACCTATTACATCATATTTTTACCTATTATATTGAAAGTGTCCATACT
2094335 TTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAATTTATGTTTCAATTTTTTTAATAGT
455 TTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAATTTATGTTTCAATTTTTTTAATAGT
*
2094400 GTTTCATGTTTTTCACCTACAATATTAATTTAATAATTTCATTTGCACAAAAAATTATTTGATTG
520 GTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCACAAAAAATTATTTGATTG
2094465 TTTTGATATTTTATAAAATATTATTTAGAATTTTTAATTTAATAATAATATATATCGTAACGTAA
585 TTTTGATATTTTATAAAATATTATTTAGAATTTTTAATTTAATAATAATATATATCGTAACGTAA
2094530 AAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACTCAAAAGATAACC
650 AAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACTCAAAAGATAACC
2094595 TTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGGATAGATACTTTAC
715 TTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGGATAGATACTTTAC
2094660 AATATAACCACTACCTATTACATTATATAAACGATACCTATTACATTATATAAGCGCTACCTATT
780 AATATAACCACTACCTATTACATTATATAAACGATACCTATTACATTATATAAGCGCTACCTATT
2094725 ACATCATATTTTTACC
845 ACATCATATTTTTACC
*
2094741 TATTATATTGAAAGTGTCCATACTTTTTATAAAAATGATCGATACTTCTTTTAAAGTTATGTAAT
1 TATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAAT
2094806 TTATGTTTCAATTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCA
66 TTATGTTTCAATTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCA
*
2094871 TTTGCACAAAAAATTATTTGATTGTTTTGATATTTTATAAAATATTATTTAGAATTTTAAATTTA
131 TTTGCACAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTTAAATTTA
2094936 ATAATAATATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATC
196 ATAATAATATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATC
2095001 TTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTT
261 TTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTT
* * *
2095066 TTATAAAAATGATAGACATTTTACAATATAACCACTACCTATTACATTATATAAACGATACCTAT
326 TTATAAAAAGGATAAACACTTTACAATATAACCACTACCTATTACATTATATAAACGATACCTAT
*
2095131 TATATTATATAAGCGCTACCTATTACATCATATTTTTACCTATTATATTGAAAGTGTCCATACTT
391 TACATTATATAAGCGCTACCTATTACATCATATTTTTACCTATTATATTGAAAGTGTCCATACTT
*
2095196 TTTATAAAATGGATCGATACTTCTTTTAAAGTTATGTAATTTATGTTTCAATTTTTTTTAATAGT
456 TTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAATTTATGTTTCAA-TTTTTTTAATAGT
2095261 GTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCACAAAAAATTATTTGATTG
520 GTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCACAAAAAATTATTTGATTG
2095326 TTTTGATATTTTATAAAATATTATTTAGAATTTTTAATTTAATAATAATATATATCGTAACGTAA
585 TTTTGATATTTTATAAAATATTATTTAGAATTTTTAATTTAATAATAATATATATCGTAACGTAA
*
2095391 AAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACTCAAAGGATAACC
650 AAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACTCAAAAGATAACC
*
2095456 TTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGGATATATACTTTAC
715 TTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGGATAGATACTTTAC
*
2095521 AATATAACCACTACCTATTATATTATATAAACGATACCTATTACATTATATAAGCGCTACCTATT
780 AATATAACCACTACCTATTACATTATATAAACGATACCTATTACATTATATAAGCGCTACCTATT
2095586 ACATCATATTTTTACC
845 ACATCATATTTTTACC
*
2095602 TATTATATTGAAAGTATCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAAT
1 TATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAAT
*
2095667 TTATGTTTCAATTTTTTTAACAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCA
66 TTATGTTTCAATTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCA
* *
2095732 TTTACACAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAA-TTTAGATTTA
131 TTTGCACAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTTAAATTTA
2095796 A
196 A
2095797 CAACATTAAC
Statistics
Matches: 1032, Mismatches: 23, Indels: 3
0.98 0.02 0.00
Matches are distributed among these distances:
860 428 0.41
861 604 0.59
ACGTcount: A:0.39, C:0.12, G:0.08, T:0.41
Consensus pattern (860 bp):
TATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAAT
TTATGTTTCAATTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCA
TTTGCACAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTTAAATTTA
ATAATAATATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATC
TTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTT
TTATAAAAAGGATAAACACTTTACAATATAACCACTACCTATTACATTATATAAACGATACCTAT
TACATTATATAAGCGCTACCTATTACATCATATTTTTACCTATTATATTGAAAGTGTCCATACTT
TTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAATTTATGTTTCAATTTTTTTAATAGTG
TTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCACAAAAAATTATTTGATTGT
TTTGATATTTTATAAAATATTATTTAGAATTTTTAATTTAATAATAATATATATCGTAACGTAAA
AAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACTCAAAAGATAACCT
TAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGGATAGATACTTTACA
ATATAACCACTACCTATTACATTATATAAACGATACCTATTACATTATATAAGCGCTACCTATTA
CATCATATTTTTACC
Found at i:2095549 original size:23 final size:23
Alignment explanation
Indices: 2095522--2095594 Score: 85
Period size: 23 Copynumber: 3.2 Consensus size: 23
2095512 ATACTTTACA
*
2095522 ATATAACCACTACCTATTATATT
1 ATATAACCACTACCTATTACATT
*
2095545 ATATAAACGA-TACCTATTACATT
1 ATAT-AACCACTACCTATTACATT
* * *
2095568 ATATAAGCGCTACCTATTACATC
1 ATATAACCACTACCTATTACATT
2095591 ATAT
1 ATAT
2095595 TTTTACCTAT
Statistics
Matches: 42, Mismatches: 6, Indels: 4
0.81 0.12 0.08
Matches are distributed among these distances:
22 2 0.05
23 36 0.86
24 4 0.10
ACGTcount: A:0.40, C:0.21, G:0.04, T:0.36
Consensus pattern (23 bp):
ATATAACCACTACCTATTACATT
Found at i:2095646 original size:22 final size:22
Alignment explanation
Indices: 2095612--2095656 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
2095602 TATTATATTG
*
2095612 AAAGTATCCATACTT-TTTATAA
1 AAAGGATCCATACTTCTTT-TAA
*
2095634 AAAGGATCGATACTTCTTTTAA
1 AAAGGATCCATACTTCTTTTAA
2095656 A
1 A
2095657 GTTATGTAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 17 0.85
23 3 0.15
ACGTcount: A:0.40, C:0.13, G:0.09, T:0.38
Consensus pattern (22 bp):
AAAGGATCCATACTTCTTTTAA
Found at i:2096069 original size:39 final size:39
Alignment explanation
Indices: 2096015--2096101 Score: 156
Period size: 39 Copynumber: 2.2 Consensus size: 39
2096005 TCAAGTTGTA
*
2096015 GATTTTGATTTCCTTTTGCTTGGCATCATATGAGATTTG
1 GATTTTGATTTCCTTTTGCTTGGCACCATATGAGATTTG
*
2096054 GATTTTGATTTCCTTTTGCTTGGCACCATATGAGCTTTG
1 GATTTTGATTTCCTTTTGCTTGGCACCATATGAGATTTG
2096093 GATTTTGAT
1 GATTTTGAT
2096102 GAGCATCGGA
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
39 46 1.00
ACGTcount: A:0.17, C:0.14, G:0.21, T:0.48
Consensus pattern (39 bp):
GATTTTGATTTCCTTTTGCTTGGCACCATATGAGATTTG
Found at i:2096395 original size:18 final size:18
Alignment explanation
Indices: 2096372--2096408 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
2096362 CGAAATATAT
2096372 ATTGAAATTCAAACTCAA
1 ATTGAAATTCAAACTCAA
* *
2096390 ATTGAAATTTAAATTCAA
1 ATTGAAATTCAAACTCAA
2096408 A
1 A
2096409 CTCCAATTAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.51, C:0.11, G:0.05, T:0.32
Consensus pattern (18 bp):
ATTGAAATTCAAACTCAA
Found at i:2096425 original size:24 final size:25
Alignment explanation
Indices: 2096370--2096427 Score: 75
Period size: 24 Copynumber: 2.4 Consensus size: 25
2096360 GCCGAAATAT
2096370 ATATTGAAATTCAAACTCAAATTGAA
1 ATATT-AAATTCAAACTCAAATTGAA
* *
2096396 AT-TTAAATTCAAACTCCAATT-AC
1 ATATTAAATTCAAACTCAAATTGAA
2096419 ATATTAAAT
1 ATATTAAAT
2096428 GAATTTGAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
23 3 0.10
24 22 0.76
25 2 0.07
26 2 0.07
ACGTcount: A:0.48, C:0.14, G:0.03, T:0.34
Consensus pattern (25 bp):
ATATTAAATTCAAACTCAAATTGAA
Found at i:2096829 original size:25 final size:25
Alignment explanation
Indices: 2096795--2096844 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
2096785 ATTATTTTTC
*
2096795 CAAATAATGTACCCATAACAATGTT
1 CAAATAATGTACCCACAACAATGTT
2096820 CAAATAATGTACCCACAACAATGTT
1 CAAATAATGTACCCACAACAATGTT
2096845 TAATTGATTT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.44, C:0.22, G:0.08, T:0.26
Consensus pattern (25 bp):
CAAATAATGTACCCACAACAATGTT
Found at i:2097154 original size:23 final size:23
Alignment explanation
Indices: 2097128--2097190 Score: 99
Period size: 23 Copynumber: 2.7 Consensus size: 23
2097118 ATATAACCAC
2097128 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
* *
2097151 TACCTATTACATTATATAAGCGC
1 TACCTATTACATTATATAAACGA
*
2097174 TACCTATTACATCATAT
1 TACCTATTACATTATAT
2097191 GTTTACCTAT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.38, C:0.21, G:0.05, T:0.37
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:2097593 original size:25 final size:25
Alignment explanation
Indices: 2097536--2097601 Score: 87
Period size: 25 Copynumber: 2.6 Consensus size: 25
2097526 CACTCAAAAG
*
2097536 ATGTATATACCTAAATATGTAGTTA
1 ATGTACATACCTAAATATGTAGTTA
***
2097561 ACAAACATACCTAAATATGTAGTTA
1 ATGTACATACCTAAATATGTAGTTA
*
2097586 TTGTACATACCTAAAT
1 ATGTACATACCTAAAT
2097602 TTAATGATAA
Statistics
Matches: 33, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
25 33 1.00
ACGTcount: A:0.42, C:0.14, G:0.09, T:0.35
Consensus pattern (25 bp):
ATGTACATACCTAAATATGTAGTTA
Found at i:2100388 original size:183 final size:182
Alignment explanation
Indices: 2100071--2100565 Score: 875
Period size: 183 Copynumber: 2.7 Consensus size: 182
2100061 TTAAAATTAC
*
2100071 CGACATTTTTTTAAATGGTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACCGACACAAT
1 CGACACTTTTTTAAAT-GTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACCGACACAAT
* *
2100136 ATTAGAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATATTTATACCGATT
65 ATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAAACCGGTATATTTATACCGATT
2100201 ATATTACAAAATTATCTATTACATTATAAATT-TGGGTTCCGATATGTAAATGT
130 ATATTACAAAATTATCTATTACATTAT-AATTATGGGTTCCGATATGTAAATGT
*
2100254 CGACACTTTTTTAAATCGTATCGACTCATTTTTCTTCCAATCTGGACATAAAGTACCGACACAAT
1 CGACACTTTTTTAAAT-GTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACCGACACAAT
*
2100319 ATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAAACCGGTATATTTATACCGGTT
65 ATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAAACCGGTATATTTATACCGATT
* *
2100384 ATATTACAAAATTATCTATTACATTATAATTATGGGTTTCGATGTGTAAATGT
130 ATATTACAAAATTATCTATTACATTATAATTATGGGTTCCGATATGTAAATGT
*
2100437 CGACACTTTTTGACAATGTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACCGACACAAT
1 CGACACTTTTTTA-AATGTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACCGACACAAT
2100502 ATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAAACCGGTATATTTATACCGAT
65 ATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAAACCGGTATATTTATACCGAT
2100566 AGCATTGCAA
Statistics
Matches: 299, Mismatches: 11, Indels: 4
0.95 0.04 0.01
Matches are distributed among these distances:
182 4 0.01
183 292 0.98
184 3 0.01
ACGTcount: A:0.33, C:0.17, G:0.15, T:0.35
Consensus pattern (182 bp):
CGACACTTTTTTAAATGTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACCGACACAATA
TTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAAACCGGTATATTTATACCGATTA
TATTACAAAATTATCTATTACATTATAATTATGGGTTCCGATATGTAAATGT
Found at i:2100979 original size:23 final size:23
Alignment explanation
Indices: 2100953--2101015 Score: 99
Period size: 23 Copynumber: 2.7 Consensus size: 23
2100943 ATATAATCAC
2100953 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
* *
2100976 TACCTATTACATTATATAAGCGC
1 TACCTATTACATTATATAAACGA
*
2100999 TACCTATTACATCATAT
1 TACCTATTACATTATAT
2101016 TTTTACCTAT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.38, C:0.21, G:0.05, T:0.37
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:2102616 original size:9 final size:9
Alignment explanation
Indices: 2102602--2102681 Score: 61
Period size: 9 Copynumber: 8.6 Consensus size: 9
2102592 CTTGTTTGGA
2102602 TCATCATCT
1 TCATCATCT
2102611 TCATCATCAT
1 TCATCATC-T
*
2102621 CATCATCATCG
1 --TCATCATCT
2102632 TCATCATCT
1 TCATCATCT
* *
2102641 TCATCGTCA
1 TCATCATCT
* * *
2102650 GCTTCATCG
1 TCATCATCT
*
2102659 TCATCATCA
1 TCATCATCT
*
2102668 TCGTCATCT
1 TCATCATCT
2102677 TCATC
1 TCATC
2102682 GTCAGCTTCA
Statistics
Matches: 54, Mismatches: 14, Indels: 6
0.73 0.19 0.08
Matches are distributed among these distances:
9 45 0.83
10 1 0.02
12 8 0.15
ACGTcount: A:0.23, C:0.34, G:0.06, T:0.38
Consensus pattern (9 bp):
TCATCATCT
Found at i:2102618 original size:12 final size:12
Alignment explanation
Indices: 2102605--2102693 Score: 97
Period size: 12 Copynumber: 7.4 Consensus size: 12
2102595 GTTTGGATCA
* *
2102605 TCATCTTCATCA
1 TCATCGTCATCT
* *
2102617 TCATCATCATCA
1 TCATCGTCATCT
* *
2102629 TCGTCATCATCT
1 TCATCGTCATCT
*
2102641 TCATCGTCAGCT
1 TCATCGTCATCT
*
2102653 TCATCGTCATCA
1 TCATCGTCATCT
2102665 TCATCGTCATCT
1 TCATCGTCATCT
*
2102677 TCATCGTCAGCT
1 TCATCGTCATCT
2102689 TCATC
1 TCATC
2102694 TTCTGCGACC
Statistics
Matches: 67, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
12 67 1.00
ACGTcount: A:0.21, C:0.34, G:0.08, T:0.37
Consensus pattern (12 bp):
TCATCGTCATCT
Found at i:2102620 original size:6 final size:6
Alignment explanation
Indices: 2102601--2102681 Score: 81
Period size: 6 Copynumber: 13.5 Consensus size: 6
2102591 ACTTGTTTGG
* * * *
2102601 ATCATC ATCTTC ATCATC ATCATC ATCATC GTCATC ATCTTC ATCGTC
1 ATCATC ATCATC ATCATC ATCATC ATCATC ATCATC ATCATC ATCATC
* * * * *
2102649 AGCTTC ATCGTC ATCATC ATCGTC ATCTTC ATC
1 ATCATC ATCATC ATCATC ATCATC ATCATC ATC
2102682 GTCAGCTTCA
Statistics
Matches: 62, Mismatches: 13, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
6 62 1.00
ACGTcount: A:0.23, C:0.33, G:0.06, T:0.37
Consensus pattern (6 bp):
ATCATC
Found at i:2102657 original size:36 final size:36
Alignment explanation
Indices: 2102617--2102693 Score: 127
Period size: 36 Copynumber: 2.1 Consensus size: 36
2102607 ATCTTCATCA
*
2102617 TCATCATCATCATCGTCATCATCTTCATCGTCAGCT
1 TCATCATCATCATCATCATCATCTTCATCGTCAGCT
* *
2102653 TCATCGTCATCATCATCGTCATCTTCATCGTCAGCT
1 TCATCATCATCATCATCATCATCTTCATCGTCAGCT
2102689 TCATC
1 TCATC
2102694 TTCTGCGACC
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
36 38 1.00
ACGTcount: A:0.21, C:0.34, G:0.09, T:0.36
Consensus pattern (36 bp):
TCATCATCATCATCATCATCATCTTCATCGTCAGCT
Found at i:2102696 original size:6 final size:6
Alignment explanation
Indices: 2102605--2102696 Score: 76
Period size: 6 Copynumber: 15.3 Consensus size: 6
2102595 GTTTGGATCA
* * * * * * *
2102605 TCATCT TCATCA TCATCA TCATCA TCGTCA TCATCT TCATCG TCAGCT
1 TCATCT TCATCT TCATCT TCATCT TCATCT TCATCT TCATCT TCATCT
* * * * *
2102653 TCATCG TCATCA TCATCG TCATCT TCATCG TCAGCT TCATCT TC
1 TCATCT TCATCT TCATCT TCATCT TCATCT TCATCT TCATCT TC
2102697 TGCGACCGCT
Statistics
Matches: 70, Mismatches: 16, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
6 70 1.00
ACGTcount: A:0.21, C:0.34, G:0.08, T:0.38
Consensus pattern (6 bp):
TCATCT
Found at i:2104500 original size:198 final size:198
Alignment explanation
Indices: 2104162--2105130 Score: 1821
Period size: 198 Copynumber: 4.9 Consensus size: 198
2104152 TTTAAATTAG
*
2104162 TATCGACACAAACTAAAAAGTGTCGACACACTATTTAGACATATTCTCTCATAAAACCGGTATAC
1 TATCGACACAAACTAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATAC
2104227 TTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGTTTTTGGGATC
66 TTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGTTTTTGGGATC
* *
2104292 GACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTTTGGACCAA
131 GACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGACCAA
2104357 AAA
196 AAA
* *
2104360 TATCGACACCAACTAAAAAATGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATAC
1 TATCGACACAAACTAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATAC
2104425 TTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGTTTTTGGGATC
66 TTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGTTTTTGGGATC
2104490 GACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGACCAA
131 GACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGACCAA
*
2104555 AAC
196 AAA
2104558 TATCGACACAAACTAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATAC
1 TATCGACACAAACTAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATAC
2104623 TTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGTTTTTGGGATC
66 TTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGTTTTTGGGATC
*
2104688 GACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGAACAA
131 GACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGACCAA
2104753 AAA
196 AAA
2104756 TATCGACACAAACTAAAATAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTAAAA-AGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
2104821 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGTTTTTGGGAT
65 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGTTTTTGGGAT
2104886 CGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGACCA
130 CGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGACCA
2104951 AAAA
195 AAAA
*
2104955 TATCGACACAAACTAAAACGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATAC
1 TATCGACACAAACTAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATAC
* *
2105020 TTGTACCGGTTAGATTGAAAAATTACATATTATATTATACTTTTGGTTTTCGATGTTTTTGGGAT
66 TTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGG-GTTCGATGTTTTTGGGAT
*
2105085 CGACACTTTTTATATATGGATCGACACTTTATTGTTGCACCCTGTT
130 CGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTT
2105131 GGCCATATTG
Statistics
Matches: 754, Mismatches: 15, Indels: 3
0.98 0.02 0.00
Matches are distributed among these distances:
198 495 0.66
199 259 0.34
ACGTcount: A:0.31, C:0.18, G:0.15, T:0.36
Consensus pattern (198 bp):
TATCGACACAAACTAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATAC
TTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGTTTTTGGGATC
GACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGACCAA
AAA
Found at i:2104983 original size:397 final size:396
Alignment explanation
Indices: 2104162--2105130 Score: 1821
Period size: 397 Copynumber: 2.4 Consensus size: 396
2104152 TTTAAATTAG
*
2104162 TATCGACACAAACTAAAAAGTGTCGACACACTATTTAGACATATTCTCTCATAAAACCGGTATAC
1 TATCGACACAAACTAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATAC
2104227 TTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGTTTTTGGGATC
66 TTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGTTTTTGGGATC
* * *
2104292 GACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTTTGGACCAA
131 GACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGAACAA
*
2104357 AAATATCGACACCAACTAAAAAATGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTA
196 AAATATCGACACAAACTAAAAAATGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTA
2104422 TACTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGTTTTTGGG
261 TACTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGTTTTTGGG
2104487 ATCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGAC
326 ATCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGAC
*
2104552 CAAAAC
391 CAAAAA
2104558 TATCGACACAAACTAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATAC
1 TATCGACACAAACTAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATAC
2104623 TTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGTTTTTGGGATC
66 TTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGTTTTTGGGATC
2104688 GACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGAACAA
131 GACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGAACAA
*
2104753 AAATATCGACACAAACTAAAATAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGT
196 AAATATCGACACAAACTAAAA-AATGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGT
2104818 ATACTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGTTTTTGG
260 ATACTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGTTTTTGG
2104883 GATCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGA
325 GATCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGA
2104948 CCAAAAA
390 CCAAAAA
*
2104955 TATCGACACAAACTAAAACGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATAC
1 TATCGACACAAACTAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATAC
* *
2105020 TTGTACCGGTTAGATTGAAAAATTACATATTATATTATACTTTTGGTTTTCGATGTTTTTGGGAT
66 TTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGG-GTTCGATGTTTTTGGGAT
*
2105085 CGACACTTTTTATATATGGATCGACACTTTATTGTTGCACCCTGTT
130 CGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTT
2105131 GGCCATATTG
Statistics
Matches: 560, Mismatches: 11, Indels: 2
0.98 0.02 0.00
Matches are distributed among these distances:
396 211 0.38
397 287 0.51
398 62 0.11
ACGTcount: A:0.31, C:0.18, G:0.15, T:0.36
Consensus pattern (396 bp):
TATCGACACAAACTAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATAC
TTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGTTTTTGGGATC
GACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGAACAA
AAATATCGACACAAACTAAAAAATGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTA
TACTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGTTTTTGGG
ATCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGAC
CAAAAA
Found at i:2105295 original size:19 final size:19
Alignment explanation
Indices: 2105249--2105297 Score: 80
Period size: 19 Copynumber: 2.6 Consensus size: 19
2105239 TTATATTCAC
*
2105249 ATACAAAAATATAAATCGT
1 ATACAAAATTATAAATCGT
*
2105268 ATACAAAATTATAAATCTT
1 ATACAAAATTATAAATCGT
2105287 ATACAAAATTA
1 ATACAAAATTA
2105298 ACCCTACATT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.57, C:0.10, G:0.02, T:0.31
Consensus pattern (19 bp):
ATACAAAATTATAAATCGT
Found at i:2107134 original size:33 final size:33
Alignment explanation
Indices: 2107097--2107162 Score: 105
Period size: 33 Copynumber: 2.0 Consensus size: 33
2107087 CATCTTAATA
*
2107097 TCACCCCTTAACACCCCAACTTCTTTCACCACT
1 TCACCCCTCAACACCCCAACTTCTTTCACCACT
* *
2107130 TCACCCCTCAACACCTCTACTTCTTTCACCACT
1 TCACCCCTCAACACCCCAACTTCTTTCACCACT
2107163 CCATCTATTT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.23, C:0.48, G:0.00, T:0.29
Consensus pattern (33 bp):
TCACCCCTCAACACCCCAACTTCTTTCACCACT
Found at i:2107221 original size:21 final size:21
Alignment explanation
Indices: 2107196--2107239 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
2107186 CCCCTTATGC
2107196 CTCTCAAGTGTATCTTCAACT
1 CTCTCAAGTGTATCTTCAACT
* * *
2107217 CTCTCAAGTTTCTCTTCGACT
1 CTCTCAAGTGTATCTTCAACT
2107238 CT
1 CT
2107240 TGATTATCTT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.18, C:0.32, G:0.09, T:0.41
Consensus pattern (21 bp):
CTCTCAAGTGTATCTTCAACT
Found at i:2109668 original size:20 final size:20
Alignment explanation
Indices: 2109641--2109687 Score: 78
Period size: 20 Copynumber: 2.4 Consensus size: 20
2109631 TCCGGTAACG
2109641 TTTTACCGGTTTTATCAT-T
1 TTTTACCGGTTTTATCATAT
2109660 TTGTTACCGGTTTTATCATAT
1 TT-TTACCGGTTTTATCATAT
2109681 TTTTACC
1 TTTTACC
2109688 TGGTATATCG
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
19 2 0.08
20 21 0.81
21 3 0.12
ACGTcount: A:0.17, C:0.17, G:0.11, T:0.55
Consensus pattern (20 bp):
TTTTACCGGTTTTATCATAT
Found at i:2110138 original size:227 final size:229
Alignment explanation
Indices: 2109736--2110453 Score: 1318
Period size: 227 Copynumber: 3.1 Consensus size: 229
2109726 ATTTTTATAC
*
2109736 GTATGTACACTTTTATAAAAATGATATATACTTTTTTTAAAGTTATGTAATTTATGTTTCAA-TT
1 GTATGGACACTTTTATAAAAATGATATATACTTTTTTTAAAGTTATGTAATTTATGTTTCAATTT
2109800 TTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACAAAAAA
66 TTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACAAAAAA
2109865 TTATTTGATTATTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATATTAACCAAA
131 TTATTTGATTATTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATATTAACCAAA
*
2109930 TATAATAATAAATATGTTTTCCACAGTGAAATAA
196 GATAATAATAAATATGTTTTCCACAGTGAAATAA
2109964 GTATGGACACTTTTATAAAAATGATATATACTTTTTTTAAAGTTATGTAATTTATGTTTCAATTT
1 GTATGGACACTTTTATAAAAATGATATATACTTTTTTTAAAGTTATGTAATTTATGTTTCAATTT
*
2110029 TTTTTAATAGTGTTTCATGTTTTCCACCTACAATATT-ATTT-AGAATTTCATTTACACAAAAAA
66 TTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACAAAAAA
2110092 TTATTTGATTATTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATATTAACCAAA
131 TTATTTGATTATTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATATTAACCAAA
2110157 GATAATAATAAATATGTTTTCCACAGTGAAATAA
196 GATAATAATAAATATGTTTTCCACAGTGAAATAA
2110191 GTATGGACACTTTTATAAAAATGATATATACTTTTTTTAAAGTTATGTAATTTATGTTTCAATTT
1 GTATGGACACTTTTATAAAAATGATATATACTTTTTTTAAAGTTATGTAATTTATGTTTCAATTT
*
2110256 TTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACACAAAA
66 TTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACAAAAAA
*
2110321 TTATTTGATTGTTTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATATTAACCAA
131 TTATTTGATT-ATTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATATTAACCAA
*
2110386 AGATAATAATAAATATATTTT-CACAGTGAAATAA
195 AGATAATAATAAATATGTTTTCCACAGTGAAATAA
* * *
2110420 GTATAGACACTTTTATAAAAAGGATAAATACTTT
1 GTATGGACACTTTTATAAAAATGATATATACTTT
2110454 ACAATATAAC
Statistics
Matches: 476, Mismatches: 10, Indels: 7
0.97 0.02 0.01
Matches are distributed among these distances:
227 221 0.46
228 69 0.14
229 113 0.24
230 73 0.15
ACGTcount: A:0.39, C:0.08, G:0.08, T:0.45
Consensus pattern (229 bp):
GTATGGACACTTTTATAAAAATGATATATACTTTTTTTAAAGTTATGTAATTTATGTTTCAATTT
TTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACAAAAAA
TTATTTGATTATTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATATTAACCAAA
GATAATAATAAATATGTTTTCCACAGTGAAATAA
Found at i:2121198 original size:97 final size:97
Alignment explanation
Indices: 2121097--2121285 Score: 234
Period size: 97 Copynumber: 1.9 Consensus size: 97
2121087 AAATAAAATA
* * * * *
2121097 AAAATAAATCCAACGATTTATTTTCTTTTACAACCCATAATCGTATAAGATTATCAAGAAAATAA
1 AAAATAAATCAAACGATTTATTTCCTTTTACAAACCAAAATCATATAAGATTATCAAGAAAATAA
**
2121162 ATTTGATAATTTATTTACTTATACAAATCCTG
66 ATTCAATAATTTATTTACTTATACAAATCCTG
* * * * * * *
2121194 AAAATATATCAAATGATTTATTTCCTTTTACAAACCAAAATCATTTGAGATTCTTAGGAAAATAA
1 AAAATAAATCAAACGATTTATTTCCTTTTACAAACCAAAATCATATAAGATTATCAAGAAAATAA
* *
2121259 ATTCAATAATTTATTTTCTTTTACAAA
66 ATTCAATAATTTATTTACTTATACAAA
2121286 ATAGTGAAAT
Statistics
Matches: 76, Mismatches: 16, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
97 76 1.00
ACGTcount: A:0.42, C:0.13, G:0.06, T:0.39
Consensus pattern (97 bp):
AAAATAAATCAAACGATTTATTTCCTTTTACAAACCAAAATCATATAAGATTATCAAGAAAATAA
ATTCAATAATTTATTTACTTATACAAATCCTG
Found at i:2121324 original size:53 final size:53
Alignment explanation
Indices: 2121252--2121352 Score: 159
Period size: 53 Copynumber: 1.9 Consensus size: 53
2121242 GATTCTTAGG
* *
2121252 AAAATAAATTCAATAATTTATTTTCTTTTACAAAATAGTGAAA-TAAATAGTGA
1 AAAATAAATCCAATAATTTATTTCCTTTTACAAAATAG-GAAACTAAATAGTGA
*
2121305 AAAATAAATCCAATGATTTATTTCCTTTTACAAAATAGGAAACTAAAT
1 AAAATAAATCCAATAATTTATTTCCTTTTACAAAATAGGAAACTAAAT
2121353 TCAACGATTT
Statistics
Matches: 44, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
52 4 0.09
53 40 0.91
ACGTcount: A:0.49, C:0.09, G:0.07, T:0.36
Consensus pattern (53 bp):
AAAATAAATCCAATAATTTATTTCCTTTTACAAAATAGGAAACTAAATAGTGA
Found at i:2121362 original size:39 final size:39
Alignment explanation
Indices: 2121296--2121435 Score: 163
Period size: 39 Copynumber: 3.5 Consensus size: 39
2121286 ATAGTGAAAT
* *
2121296 AAATAGTGAAAAATAAATCCAATGATTTATTTCCTTTTACA
1 AAATAG-G-AAAATAAATCCAACGATTTATTTCCTTTTATA
* * * *
2121337 AAATAGGAAACTAAATTCAACGATTTTTTTCCTTTTTTA
1 AAATAGGAAAATAAATCCAACGATTTATTTCCTTTTATA
* * * *
2121376 AAATAAGAAAATAAATTCAATGATTTATTTCCTTTCATA
1 AAATAGGAAAATAAATCCAACGATTTATTTCCTTTTATA
*
2121415 AAACAGGAAAATAAATCCAAC
1 AAATAGGAAAATAAATCCAAC
2121436 AACAACAACA
Statistics
Matches: 83, Mismatches: 16, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
39 76 0.92
40 1 0.01
41 6 0.07
ACGTcount: A:0.45, C:0.13, G:0.07, T:0.35
Consensus pattern (39 bp):
AAATAGGAAAATAAATCCAACGATTTATTTCCTTTTATA
Found at i:2121909 original size:38 final size:39
Alignment explanation
Indices: 2121850--2121924 Score: 116
Period size: 38 Copynumber: 1.9 Consensus size: 39
2121840 TGAGACTCTC
*
2121850 AGGAAAATAAATTTAACGATTTATTT-TCTTTACAAAAT
1 AGGAAAATAAATCTAACGATTTATTTCTCTTTACAAAAT
* *
2121888 AGGAAAATAAATCTAATGATTTATTTCTTTTTACAAA
1 AGGAAAATAAATCTAACGATTTATTTCTCTTTACAAA
2121925 CCATAATAAT
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
38 24 0.73
39 9 0.27
ACGTcount: A:0.44, C:0.08, G:0.08, T:0.40
Consensus pattern (39 bp):
AGGAAAATAAATCTAACGATTTATTTCTCTTTACAAAAT
Found at i:2121993 original size:39 final size:39
Alignment explanation
Indices: 2121944--2122063 Score: 145
Period size: 39 Copynumber: 3.1 Consensus size: 39
2121934 TTAAAATTTT
* *
2121944 TAGGAAAATAAATTCAAAGATTTATTTTATTTTATAAAA
1 TAGGAAAATAAATTCAACGATTTATTTTCTTTTATAAAA
* *
2121983 TAGGAAAATAAA-TCTAACGATTTATTTCCTTTTACAAAA
1 TAGGAAAATAAATTC-AACGATTTATTTTCTTTTATAAAA
** *
2122022 TATAAAAATAAATTCAACGATTT-TTTTCCTTTTTTAAAA
1 TAGGAAAATAAATTCAACGATTTATTTT-CTTTTATAAAA
2122061 TAG
1 TAG
2122064 AATCGTTCAA
Statistics
Matches: 68, Mismatches: 10, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
38 5 0.07
39 61 0.90
40 2 0.03
ACGTcount: A:0.44, C:0.08, G:0.07, T:0.41
Consensus pattern (39 bp):
TAGGAAAATAAATTCAACGATTTATTTTCTTTTATAAAA
Found at i:2122161 original size:58 final size:58
Alignment explanation
Indices: 2122026--2122161 Score: 143
Period size: 58 Copynumber: 2.3 Consensus size: 58
2122016 ACAAAATATA
* * * * *
2122026 AAAATAAATTCAACGATTTTTTTCCTTTTTTAAAATAGAATCGTTCAAGATTTTCAAG
1 AAAATAAATTCAACGATTTATTTCCTTTTTCAAAATAAAATCATTCAAGATTATCAAG
** * *
2122084 AAAATAAATTCAATTATTTATTT-CTTTTTACAAAATAAAATCATAT-AATATTCAT-AAT
1 AAAATAAATTCAACGATTTATTTCCTTTTT-CAAAATAAAATCAT-TCAAGATT-ATCAAG
2122142 AAAATAAATTCAACGATTTA
1 AAAATAAATTCAACGATTTA
2122162 AAAAGCAGGG
Statistics
Matches: 64, Mismatches: 11, Indels: 6
0.79 0.14 0.07
Matches are distributed among these distances:
57 6 0.09
58 56 0.88
59 2 0.03
ACGTcount: A:0.45, C:0.10, G:0.04, T:0.40
Consensus pattern (58 bp):
AAAATAAATTCAACGATTTATTTCCTTTTTCAAAATAAAATCATTCAAGATTATCAAG
Found at i:2126500 original size:45 final size:44
Alignment explanation
Indices: 2126436--2126697 Score: 161
Period size: 45 Copynumber: 5.8 Consensus size: 44
2126426 AAATTAATTC
* *
2126436 TTTAATTTTAGCAACCCAATAATTAAAAGGAACTAATTTTTTTAT
1 TTTAATTTTTGCAA-CCAATAATCAAAAGGAACTAATTTTTTTAT
* ** * * *
2126481 TTTAATTTTTGTAATCCAATAATCAAAATAAACAAATTATTTGAT
1 TTTAATTTTTGCAA-CCAATAATCAAAAGGAACTAATTTTTTTAT
* * * * *
2126526 TTTAGTTTTCGCAACACAATAAT-AGAAAGGAATTAATATTTTGAT
1 TTTAATTTTTGCAAC-CAATAATCA-AAAGGAACTAATTTTTTTAT
* ** ** * * *
2126571 ATTAATTTTTATAACCCAATAATCCTAAGAAATTAATCTTTTGT-T
1 TTTAATTTTTGCAA-CCAATAATCAAAAGGAACTAAT-TTTTTTAT
* * **
2126616 TTTACTTTTGGCAACACAATAATCAAAAGGAACTAATCATTTTAT
1 TTTAATTTTTGCAAC-CAATAATCAAAAGGAACTAATTTTTTTAT
* * * *
2126661 TTT-ACTTTTGACAACTCAATAATAAAAAAGAATTAAT
1 TTTAATTTTTG-CAAC-CAATAATCAAAAGGAACTAAT
2126698 CCTTTTGTCG
Statistics
Matches: 161, Mismatches: 48, Indels: 16
0.72 0.21 0.07
Matches are distributed among these distances:
44 10 0.06
45 147 0.91
46 4 0.02
ACGTcount: A:0.42, C:0.11, G:0.07, T:0.40
Consensus pattern (44 bp):
TTTAATTTTTGCAACCAATAATCAAAAGGAACTAATTTTTTTAT
Found at i:2126576 original size:90 final size:89
Alignment explanation
Indices: 2126436--2126658 Score: 241
Period size: 90 Copynumber: 2.5 Consensus size: 89
2126426 AAATTAATTC
* * * * * *
2126436 TTTAATTTTAGCAACCCAATAATTAAAAGGAACTAATTTTTTTATTTTAATTTTTGTAATCCAAT
1 TTTAATTTTAGCAACACAATAA-TAAAAGGAACTAATATTTTGATATTAATTTTTATAACCCAAT
*
2126501 AATCAAAATAAACAAAT-TATTTGAT
65 AATCAAAAGAAACAAATCT-TTTGAT
* * *
2126526 TTTAGTTTTCGCAACACAATAATAGAAAGGAATTAATATTTTGATATTAATTTTTATAACCCAAT
1 TTTAATTTTAGCAACACAATAATA-AAAGGAACTAATATTTTGATATTAATTTTTATAACCCAAT
** ** *
2126591 AATCCTAAGAAATTAATCTTTTGTT
65 AATCAAAAGAAACAAATCTTTTGAT
* *
2126616 TTTACTTTTGGCAACACAATAATCAAAAGGAACTAATCATTTT
1 TTTAATTTTAGCAACACAATAAT-AAAAGGAACTAAT-ATTTT
2126659 ATTTTACTTT
Statistics
Matches: 111, Mismatches: 18, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
89 2 0.02
90 102 0.92
91 7 0.06
ACGTcount: A:0.40, C:0.12, G:0.08, T:0.40
Consensus pattern (89 bp):
TTTAATTTTAGCAACACAATAATAAAAGGAACTAATATTTTGATATTAATTTTTATAACCCAATA
ATCAAAAGAAACAAATCTTTTGAT
Found at i:2126681 original size:90 final size:88
Alignment explanation
Indices: 2126436--2126688 Score: 233
Period size: 90 Copynumber: 2.8 Consensus size: 88
2126426 AAATTAATTC
* *
2126436 TTTAATTTTAGCAACCCAATAATTAAAAGGAACTAATTTTTTTATTTTAATTTTTG-TAA-TCCA
1 TTTAATTTTAGCAACACAATAA-TAAAAGGAACTAA-TATTTTATTTTAA-TTTTGATAACT-CA
*
2126499 ATAATCAAAATAAACAAATTATTTGAT
62 ATAATCAAAAGAAACAAATTATTTGAT
* * * * * *
2126526 TTTAGTTTTCGCAACACAATAATAGAAAGGAATTAATATTTTGATATTAATTTTTATAACCCAAT
1 TTTAATTTTAGCAACACAATAATA-AAAGGAACTAATATTTT-ATTTTAATTTTGATAACTCAAT
** ** *
2126591 AATCCTAAGAAATTAATCT-TTTGTT
64 AATCAAAAGAAACAAAT-TATTTGAT
* * * *
2126616 TTTACTTTTGGCAACACAATAATCAAAAGGAACTAATCATTTTATTTTACTTTTGACAACTCAAT
1 TTTAATTTTAGCAACACAATAAT-AAAAGGAACTAAT-ATTTTATTTTAATTTTGATAACTCAAT
*
2126681 AATAAAAA
64 AATCAAAA
2126689 AGAATTAATC
Statistics
Matches: 131, Mismatches: 25, Indels: 14
0.77 0.15 0.08
Matches are distributed among these distances:
89 11 0.08
90 113 0.86
91 7 0.05
ACGTcount: A:0.41, C:0.12, G:0.07, T:0.40
Consensus pattern (88 bp):
TTTAATTTTAGCAACACAATAATAAAAGGAACTAATATTTTATTTTAATTTTGATAACTCAATAA
TCAAAAGAAACAAATTATTTGAT
Found at i:2128567 original size:12 final size:13
Alignment explanation
Indices: 2128548--2128596 Score: 57
Period size: 13 Copynumber: 3.8 Consensus size: 13
2128538 TATATAGCTG
2128548 AATATATAATA-A
1 AATATATAATATA
*
2128560 AATTTATAATATA
1 AATATATAATATA
*
2128573 AATATATATTATA
1 AATATATAATATA
2128586 TAATATA-AATA
1 -AATATATAATA
2128597 ATGAAGAACA
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
12 10 0.32
13 15 0.48
14 6 0.19
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (13 bp):
AATATATAATATA
Found at i:2129268 original size:98 final size:98
Alignment explanation
Indices: 2129094--2129465 Score: 415
Period size: 98 Copynumber: 3.7 Consensus size: 98
2129084 CTAGAATCGG
* * *
2129094 GAAATTGTTTGTTGACAACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCGAGTCC
1 GAAATTGTTTGTTGACAACCAGCCGCCCCTTCGCTGTGAAGTTGAACTTGTGCTGTCTCGAGTCC
* * *
2129159 AATATCTTTCGCCGTGGAGTTGAGATTGGCTCC
66 AATATCCTTCGCTGTGAAGTTGAGATTGGCTCC
** * * * * *
2129192 GAAATTGTTT-TTCGACAGTCAGTCGCCCCTTCGCTGTTAAGTTGAGCTTGTGCTGTCTTGGGTC
1 GAAATTGTTTGTT-GACAACCAGCCGCCCCTTCGCTGTGAAGTTGAACTTGTGCTGTCTCGAGTC
* *
2129256 CAATATCCTTCGCTGTGAAGTTGAAATT-GATCC
65 CAATATCCTTCGCTGTGAAGTTGAGATTGGCTCC
* * * * *
2129289 TGAAACTAGGAAATTGTTGTTGACAACCAGTCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTC
1 -GAAA-T-TG----T-TTGTTGACAACCAGCCGCCCCTTCGCTGTGAAGTTGAACTTGTGCTGTC
*
2129354 TCGAGTCCAATATCCTTCGCTGTGAAGTTGAGATTGGCTTC
58 TCGAGTCCAATATCCTTCGCTGTGAAGTTGAGATTGGCTCC
** * * *
2129395 GAAATTGTTTGTTGACAGTCAGCCGCCCCTTCGCTGTGAAGTTGAGCTTGTGCTGTCTTGATTCC
1 GAAATTGTTTGTTGACAACCAGCCGCCCCTTCGCTGTGAAGTTGAACTTGTGCTGTCTCGAGTCC
2129460 AATATC
66 AATATC
2129466 TTTGGCTTTG
Statistics
Matches: 225, Mismatches: 38, Indels: 22
0.79 0.13 0.08
Matches are distributed among these distances:
97 6 0.03
98 133 0.59
99 2 0.01
100 1 0.00
103 1 0.00
104 2 0.01
105 75 0.33
106 5 0.02
ACGTcount: A:0.19, C:0.21, G:0.24, T:0.35
Consensus pattern (98 bp):
GAAATTGTTTGTTGACAACCAGCCGCCCCTTCGCTGTGAAGTTGAACTTGTGCTGTCTCGAGTCC
AATATCCTTCGCTGTGAAGTTGAGATTGGCTCC
Found at i:2129347 original size:105 final size:106
Alignment explanation
Indices: 2129192--2129465 Score: 298
Period size: 105 Copynumber: 2.7 Consensus size: 106
2129182 GATTGGCTCC
* ** * * * *
2129192 GAAATTGTTTTTCGACAGTCAGTCGCCCCTTCGCTGTTAAGTTGAGCTTGTGCTGTCTTGGGTCC
1 GAAATTGTTGTTCGACAACCAGTCGCCCCTTCGCTGTGAAGTTGAACTTGTGCTGTCTCGAGTCC
2129257 AATATCCTTCGCTGTGAAGTTGAAATTGATCCTGAAACTAG
66 AATATCCTTCGCTGTGAAGTTGAAATTGATCCTGAAACTAG
* * *
2129298 GAAATTGTTGTT-GACAACCAGTCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCGAGTCC
1 GAAATTGTTGTTCGACAACCAGTCGCCCCTTCGCTGTGAAGTTGAACTTGTGCTGTCTCGAGTCC
* **
2129362 AATATCCTTCGCTGTGAAGTTG--A--GAT--TG--GCTTC
66 AATATCCTTCGCTGTGAAGTTGAAATTGATCCTGAAACTAG
** * * * *
2129395 GAAATTGTTTGTT-GACAGTCAGCCGCCCCTTCGCTGTGAAGTTGAGCTTGTGCTGTCTTGATTC
1 GAAATTG-TTGTTCGACAACCAGTCGCCCCTTCGCTGTGAAGTTGAACTTGTGCTGTCTCGAGTC
2129459 CAATATC
65 CAATATC
2129466 TTTGGCTTTG
Statistics
Matches: 145, Mismatches: 22, Indels: 10
0.82 0.12 0.06
Matches are distributed among these distances:
97 9 0.06
98 54 0.37
99 2 0.01
101 3 0.02
103 1 0.01
105 65 0.45
106 11 0.08
ACGTcount: A:0.20, C:0.21, G:0.24, T:0.35
Consensus pattern (106 bp):
GAAATTGTTGTTCGACAACCAGTCGCCCCTTCGCTGTGAAGTTGAACTTGTGCTGTCTCGAGTCC
AATATCCTTCGCTGTGAAGTTGAAATTGATCCTGAAACTAG
Found at i:2129401 original size:203 final size:204
Alignment explanation
Indices: 2129093--2129465 Score: 642
Period size: 203 Copynumber: 1.8 Consensus size: 204
2129083 TCTAGAATCG
2129093 GGAAATTGTTTGTTGACAACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCGAGTC
1 GGAAATTGTTTGTTGACAACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCGAGTC
* * *
2129158 CAATATCTTTCGCCGTGGAGTTGAGATTGGCTCCGAAATTGTTT-TTCGACAGTCAGTCGCCCCT
66 CAATATCCTTCGCCGTGAAGTTGAGATTGGCTCCGAAATTGTTTGTT-GACAGTCAGCCGCCCCT
* *
2129222 TCGCTGTTAAGTTGAGCTTGTGCTGTCTTGGGTCCAATATCCTTCGCTGTGAAGTTGAAATTGAT
130 TCGCTGTGAAGTTGAGCTTGTGCTGTCTTGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGAT
2129287 CCTGAAACTA
195 CCTGAAACTA
*
2129297 GGAAATTG-TTGTTGACAACCAGTCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCGAGTC
1 GGAAATTGTTTGTTGACAACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCGAGTC
* *
2129361 CAATATCCTTCGCTGTGAAGTTGAGATTGGCTTCGAAATTGTTTGTTGACAGTCAGCCGCCCCTT
66 CAATATCCTTCGCCGTGAAGTTGAGATTGGCTCCGAAATTGTTTGTTGACAGTCAGCCGCCCCTT
*
2129426 CGCTGTGAAGTTGAGCTTGTGCTGTCTTGATTCCAATATC
131 CGCTGTGAAGTTGAGCTTGTGCTGTCTTGAGTCCAATATC
2129466 TTTGGCTTTG
Statistics
Matches: 159, Mismatches: 9, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
203 149 0.94
204 10 0.06
ACGTcount: A:0.19, C:0.21, G:0.25, T:0.35
Consensus pattern (204 bp):
GGAAATTGTTTGTTGACAACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCGAGTC
CAATATCCTTCGCCGTGAAGTTGAGATTGGCTCCGAAATTGTTTGTTGACAGTCAGCCGCCCCTT
CGCTGTGAAGTTGAGCTTGTGCTGTCTTGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGATC
CTGAAACTA
Found at i:2129667 original size:109 final size:109
Alignment explanation
Indices: 2129476--2129687 Score: 316
Period size: 109 Copynumber: 1.9 Consensus size: 109
2129466 TTTGGCTTTG
* * *
2129476 AAATTGGAAAATTGTTCATTGACAACCAACTATCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCT
1 AAATTGGAAAATTATTCATTGACAACCAACCATCCCTTCGTTGTGAAGTTGAACTTGTGTTATCT
* *
2129541 CGGGTAGCACGATATCCTCCGTCGTGGAGTTAAAATCGGCTCTA
66 CGAGTAGCACAATATCCTCCGTCGTGGAGTTAAAATCGGCTCTA
* * * *
2129585 AAATTGGAAAATTATTCGTTGACGACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTATCT
1 AAATTGGAAAATTATTCATTGACAACCAACCATCCCTTCGTTGTGAAGTTGAACTTGTGTTATCT
* * *
2129650 TGAGTGGCACAATATCCTCCGTCGTGGAGTTGAAATCG
66 CGAGTAGCACAATATCCTCCGTCGTGGAGTTAAAATCG
2129688 TGGGTGTTTG
Statistics
Matches: 91, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
109 91 1.00
ACGTcount: A:0.25, C:0.20, G:0.23, T:0.32
Consensus pattern (109 bp):
AAATTGGAAAATTATTCATTGACAACCAACCATCCCTTCGTTGTGAAGTTGAACTTGTGTTATCT
CGAGTAGCACAATATCCTCCGTCGTGGAGTTAAAATCGGCTCTA
Found at i:2139873 original size:10 final size:10
Alignment explanation
Indices: 2139853--2139896 Score: 54
Period size: 10 Copynumber: 4.4 Consensus size: 10
2139843 ACAGTTAGTA
*
2139853 AAATAAGAAT
1 AAATAAAAAT
*
2139863 AAATAGAAAT
1 AAATAAAAAT
2139873 AAATAAAAAT
1 AAATAAAAAT
2139883 AACA-AAAAAT
1 AA-ATAAAAAT
2139893 AAAT
1 AAAT
2139897 GGCAAGAAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
9 1 0.03
10 27 0.93
11 1 0.03
ACGTcount: A:0.75, C:0.02, G:0.05, T:0.18
Consensus pattern (10 bp):
AAATAAAAAT
Found at i:2142235 original size:46 final size:45
Alignment explanation
Indices: 2142162--2142322 Score: 191
Period size: 45 Copynumber: 3.6 Consensus size: 45
2142152 TGTCTTCACC
*
2142162 TTTGATTTTACTTTTGACAACTCAATAATAAAAAAGAAATTATTCA
1 TTTGATTTTACTTTTGACAACTCAATAATAAAAAAG-AATTAATCA
* * * * *
2142208 TTTGATTTTACTTTTGAAAACTAAATAATCATAAGGAATTAAT-A
1 TTTGATTTTACTTTTGACAACTCAATAATAAAAAAGAATTAATCA
* * *
2142252 CTTTAATTTTATTTTTGGCAACTCAATAATAAAAAAGAATTAATCA
1 -TTTGATTTTACTTTTGACAACTCAATAATAAAAAAGAATTAATCA
*
2142298 TTTTATTTTACTTTT-AGCAACTCAA
1 TTTGATTTTACTTTTGA-CAACTCAA
2142323 AAATCAATAG
Statistics
Matches: 95, Mismatches: 17, Indels: 7
0.80 0.14 0.06
Matches are distributed among these distances:
44 1 0.01
45 62 0.65
46 32 0.34
ACGTcount: A:0.41, C:0.11, G:0.07, T:0.42
Consensus pattern (45 bp):
TTTGATTTTACTTTTGACAACTCAATAATAAAAAAGAATTAATCA
Found at i:2144318 original size:30 final size:30
Alignment explanation
Indices: 2144253--2144319 Score: 82
Period size: 31 Copynumber: 2.2 Consensus size: 30
2144243 AAATTTTAAC
* *
2144253 TTGACCCTTAAACTTTAGATAAAATACAAAT
1 TTGACCCTTAAAATTTAAATAAAATAC-AAT
*
2144284 TTGACTCTTAAAATTTAAATAAAATATC-AT
1 TTGACCCTTAAAATTTAAATAAAATA-CAAT
2144314 TTGACC
1 TTGACC
2144320 ACTAAATCTA
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
30 7 0.23
31 23 0.74
32 1 0.03
ACGTcount: A:0.43, C:0.15, G:0.06, T:0.36
Consensus pattern (30 bp):
TTGACCCTTAAAATTTAAATAAAATACAAT
Found at i:2146383 original size:18 final size:17
Alignment explanation
Indices: 2146360--2146393 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
2146350 CCGCTATTCA
2146360 TGAACCGATCAGAACCGT
1 TGAACCGATC-GAACCGT
*
2146378 TGAACCGTTCGAACCG
1 TGAACCGATCGAACCG
2146394 GACCGGCTGA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.29, C:0.29, G:0.24, T:0.18
Consensus pattern (17 bp):
TGAACCGATCGAACCGT
Found at i:2148348 original size:21 final size:21
Alignment explanation
Indices: 2148322--2148366 Score: 90
Period size: 21 Copynumber: 2.1 Consensus size: 21
2148312 GGTAACTTTG
2148322 CTTTTATGGATTTTATCCTCA
1 CTTTTATGGATTTTATCCTCA
2148343 CTTTTATGGATTTTATCCTCA
1 CTTTTATGGATTTTATCCTCA
2148364 CTT
1 CTT
2148367 GGGTTAAACA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.18, C:0.20, G:0.09, T:0.53
Consensus pattern (21 bp):
CTTTTATGGATTTTATCCTCA
Found at i:2153801 original size:29 final size:30
Alignment explanation
Indices: 2153764--2153832 Score: 77
Period size: 31 Copynumber: 2.3 Consensus size: 30
2153754 TTTAGGTCCT
*
2153764 CAACTTTTAAAAC-TTGCAATACAATCCCC
1 CAACATTTAAAACGTTGCAATACAATCCCC
** **
2153793 CAACATTTAGTACGTTTGCAATATGATCCCC
1 CAACATTTAAAACG-TTGCAATACAATCCCC
2153824 CAACATTTA
1 CAACATTTA
2153833 GTACGTTTGT
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
29 10 0.30
31 23 0.70
ACGTcount: A:0.35, C:0.28, G:0.07, T:0.30
Consensus pattern (30 bp):
CAACATTTAAAACGTTGCAATACAATCCCC
Found at i:2153847 original size:31 final size:31
Alignment explanation
Indices: 2153777--2153848 Score: 117
Period size: 31 Copynumber: 2.3 Consensus size: 31
2153767 CTTTTAAAAC
**
2153777 TTGCAATACAATCCCCCAACATTTAGTACGT
1 TTGCAATATGATCCCCCAACATTTAGTACGT
2153808 TTGCAATATGATCCCCCAACATTTAGTACGT
1 TTGCAATATGATCCCCCAACATTTAGTACGT
*
2153839 TTGTAATATG
1 TTGCAATATG
2153849 GCATTGAACT
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 38 1.00
ACGTcount: A:0.31, C:0.24, G:0.12, T:0.33
Consensus pattern (31 bp):
TTGCAATATGATCCCCCAACATTTAGTACGT
Found at i:2155203 original size:13 final size:13
Alignment explanation
Indices: 2155164--2155200 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
2155154 ATTATTATTT
*
2155164 AAAAATAATTTCA
1 AAAAATAATTTAA
2155177 AAAAATAATTTAA
1 AAAAATAATTTAA
2155190 ATAAAATAATT
1 A-AAAATAATT
2155201 AAAGTCATAT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
13 13 0.59
14 9 0.41
ACGTcount: A:0.65, C:0.03, G:0.00, T:0.32
Consensus pattern (13 bp):
AAAAATAATTTAA
Found at i:2158974 original size:12 final size:12
Alignment explanation
Indices: 2158953--2159042 Score: 101
Period size: 12 Copynumber: 7.5 Consensus size: 12
2158943 TTCTGGTGGG
*
2158953 ATGCCTGGAGGT
1 ATGCCCGGAGGT
* *
2158965 TTTCCCGGAGGT
1 ATGCCCGGAGGT
2158977 ATGCCCGGAGGT
1 ATGCCCGGAGGT
*
2158989 ATGCCTGGAGGT
1 ATGCCCGGAGGT
*
2159001 ATGCCTGGA-GT
1 ATGCCCGGAGGT
2159012 CATGCCCGGAGGT
1 -ATGCCCGGAGGT
* *
2159025 ATGCCTGGAGGC
1 ATGCCCGGAGGT
2159037 ATGCCC
1 ATGCCC
2159043 AGTGGGATGC
Statistics
Matches: 66, Mismatches: 10, Indels: 4
0.82 0.12 0.05
Matches are distributed among these distances:
11 2 0.03
12 62 0.94
13 2 0.03
ACGTcount: A:0.16, C:0.24, G:0.38, T:0.22
Consensus pattern (12 bp):
ATGCCCGGAGGT
Found at i:2158980 original size:24 final size:24
Alignment explanation
Indices: 2158872--2159035 Score: 141
Period size: 24 Copynumber: 6.8 Consensus size: 24
2158862 CAGCAGGAAA
* * * *
2158872 CCTGGAGGCATGCCTGGTGGGTTC
1 CCTGGAGGTATGCCTGGAGGTTTT
* * *
2158896 CCGGGTGGAATGCCTGGAGGTTTT
1 CCTGGAGGTATGCCTGGAGGTTTT
* *
2158920 CCTGGTGGAATGCCTGGAGGTTTT
1 CCTGGAGGTATGCCTGGAGGTTTT
* * *
2158944 TCTGGTGGGATGCCTGGAGGTTTT
1 CCTGGAGGTATGCCTGGAGGTTTT
* * * *
2158968 CCCGGAGGTATGCCCGGAGGTATG
1 CCTGGAGGTATGCCTGGAGGTTTT
* *
2158992 CCTGGAGGTATGCCTGGA-GTCATG
1 CCTGGAGGTATGCCTGGAGGT-TTT
*
2159016 CCCGGAGGTATGCCTGGAGG
1 CCTGGAGGTATGCCTGGAGG
2159036 CATGCCCAGT
Statistics
Matches: 119, Mismatches: 19, Indels: 3
0.84 0.13 0.02
Matches are distributed among these distances:
23 2 0.02
24 116 0.97
25 1 0.01
ACGTcount: A:0.13, C:0.20, G:0.41, T:0.26
Consensus pattern (24 bp):
CCTGGAGGTATGCCTGGAGGTTTT
Found at i:2158993 original size:36 final size:36
Alignment explanation
Indices: 2158953--2159042 Score: 128
Period size: 36 Copynumber: 2.5 Consensus size: 36
2158943 TTCTGGTGGG
* *
2158953 ATGCCTGGAGGTTTTCCCGGAGGT-ATGCCCGGAGGT
1 ATGCCTGGAGGTATGCCCGGA-GTCATGCCCGGAGGT
*
2158989 ATGCCTGGAGGTATGCCTGGAGTCATGCCCGGAGGT
1 ATGCCTGGAGGTATGCCCGGAGTCATGCCCGGAGGT
*
2159025 ATGCCTGGAGGCATGCCC
1 ATGCCTGGAGGTATGCCC
2159043 AGTGGGATGC
Statistics
Matches: 48, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
35 2 0.04
36 46 0.96
ACGTcount: A:0.16, C:0.24, G:0.38, T:0.22
Consensus pattern (36 bp):
ATGCCTGGAGGTATGCCCGGAGTCATGCCCGGAGGT
Found at i:2159005 original size:48 final size:48
Alignment explanation
Indices: 2158905--2159057 Score: 155
Period size: 48 Copynumber: 3.2 Consensus size: 48
2158895 CCCGGGTGGA
* * * * ** *
2158905 ATGCCTGGAGGTTTTCCTGGTGGAATGCCTGGAGGTTTTTCTGGTGGG
1 ATGCCTGGAGGTTTTCCCGGAGGTATGCCTGGAGGTATGCCTGGAGGG
* *
2158953 ATGCCTGGAGGTTTTCCCGGAGGTATGCCCGGAGGTATGCCTGGAGGT
1 ATGCCTGGAGGTTTTCCCGGAGGTATGCCTGGAGGTATGCCTGGAGGG
* * * ** *
2159001 ATGCCTGGA-GTCATGCCCGGAGGTATGCCTGGAGGCATGCCCAGTGGG
1 ATGCCTGGAGGT-TTTCCCGGAGGTATGCCTGGAGGTATGCCTGGAGGG
2159049 ATGCCTGGA
1 ATGCCTGGA
2159058 AATGTTGATT
Statistics
Matches: 87, Mismatches: 17, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
47 2 0.02
48 85 0.98
ACGTcount: A:0.14, C:0.20, G:0.39, T:0.26
Consensus pattern (48 bp):
ATGCCTGGAGGTTTTCCCGGAGGTATGCCTGGAGGTATGCCTGGAGGG
Found at i:2159039 original size:24 final size:24
Alignment explanation
Indices: 2158953--2159057 Score: 120
Period size: 24 Copynumber: 4.4 Consensus size: 24
2158943 TTCTGGTGGG
** *
2158953 ATGCCTGGAGGTTTTCCCGGAGGT
1 ATGCCTGGAGGCATGCCCGGAGGT
* * *
2158977 ATGCCCGGAGGTATGCCTGGAGGT
1 ATGCCTGGAGGCATGCCCGGAGGT
*
2159001 ATGCCTGGAGTCATGCCCGGAGGT
1 ATGCCTGGAGGCATGCCCGGAGGT
* * *
2159025 ATGCCTGGAGGCATGCCCAGTGGG
1 ATGCCTGGAGGCATGCCCGGAGGT
2159049 ATGCCTGGA
1 ATGCCTGGA
2159058 AATGTTGATT
Statistics
Matches: 69, Mismatches: 12, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 69 1.00
ACGTcount: A:0.16, C:0.23, G:0.39, T:0.22
Consensus pattern (24 bp):
ATGCCTGGAGGCATGCCCGGAGGT
Done.