Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr11
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: 61124829
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1263459 characters in sequence are not A, C, G, or T
File 78 of 205
Found at i:23263258 original size:18 final size:19
Alignment explanation
Indices: 23263207--23263266 Score: 70
Period size: 18 Copynumber: 3.2 Consensus size: 19
23263197 TAAATTACGA
23263207 TTTTAACCCTCACAATGCT
1 TTTTAACCCTCACAATGCT
* * *
23263226 TTTGTCACACTCACAGTGC-
1 TTT-TAACCCTCACAATGCT
23263245 TTTTAACCCTCACAATG-T
1 TTTTAACCCTCACAATGCT
23263263 TTTT
1 TTTT
23263267 GCTCCCACAA
Statistics
Matches: 33, Mismatches: 6, Indels: 5
0.75 0.14 0.11
Matches are distributed among these distances:
18 15 0.45
19 6 0.18
20 12 0.36
ACGTcount: A:0.23, C:0.28, G:0.08, T:0.40
Consensus pattern (19 bp):
TTTTAACCCTCACAATGCT
Found at i:23267950 original size:51 final size:50
Alignment explanation
Indices: 23267890--23268110 Score: 207
Period size: 51 Copynumber: 4.4 Consensus size: 50
23267880 GATGAACATG
23267890 TGTGTAGTACTATGTGAAGGCTACTACGTGTATCGATAAATAATGGTCACA
1 TGTGTAGTACTATGTGAAGGCTACTACGTGTATCGA-AAATAATGGTCACA
* * * * * *
23267941 TGTGTAGTACTAAGTGAAGGATACTATGTGTA-CTGAAAAGCT-TTCGTCACG
1 TGTGTAGTACTATGTGAAGGCTACTACGTGTATC-GAAAA--TAATGGTCACA
* * * *
23267992 TGTGTAGTACTATGTGAAGGCTACTACGTGAACCGTAAAACT--TGATCACG
1 TGTGTAGTACTATGTGAAGGCTACTACGTGTATCG-AAAA-TAATGGTCACA
* * * *
23268042 TTTGTAGTACTATGTGAAGGCTACTACGTGTATCGAATGATAATAGTAACA
1 TGTGTAGTACTATGTGAAGGCTACTACGTGTATCGAA-AATAATGGTCACA
* *
23268093 TGGGTGGTACTATGTGAA
1 TGTGTAGTACTATGTGAA
23268111 AACCCCCAAA
Statistics
Matches: 139, Mismatches: 23, Indels: 16
0.78 0.13 0.09
Matches are distributed among these distances:
49 3 0.02
50 43 0.31
51 87 0.63
52 6 0.04
ACGTcount: A:0.30, C:0.14, G:0.25, T:0.31
Consensus pattern (50 bp):
TGTGTAGTACTATGTGAAGGCTACTACGTGTATCGAAAATAATGGTCACA
Found at i:23268054 original size:50 final size:49
Alignment explanation
Indices: 23267889--23268073 Score: 219
Period size: 51 Copynumber: 3.7 Consensus size: 49
23267879 CGATGAACAT
* * *
23267889 GTGTGTAGTACTATGTGAAGGCTACTACGTGTATCGATAAATAATGGTCAC
1 GTGTGTAGTACTATGTGAAGGCTACTACGTGTACCG-TAAA-ACTTGTCAC
* * * * *
23267940 ATGTGTAGTACTAAGTGAAGGATACTATGTGTACTG-AAAAGCTTTCGTCAC
1 GTGTGTAGTACTATGTGAAGGCTACTACGTGTACCGTAAAA-C-TT-GTCAC
*
23267991 GTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGTAAAACTTGATCAC
1 GTGTGTAGTACTATGTGAAGGCTACTACGTGTACCGTAAAACTTG-TCAC
*
23268041 GTTTGTAGTACTATGTGAAGGCTACTACGTGTA
1 GTGTGTAGTACTATGTGAAGGCTACTACGTGTA
23268074 TCGAATGATA
Statistics
Matches: 113, Mismatches: 16, Indels: 11
0.81 0.11 0.08
Matches are distributed among these distances:
48 1 0.01
49 4 0.04
50 38 0.34
51 66 0.58
52 4 0.04
ACGTcount: A:0.29, C:0.15, G:0.25, T:0.31
Consensus pattern (49 bp):
GTGTGTAGTACTATGTGAAGGCTACTACGTGTACCGTAAAACTTGTCAC
Found at i:23277535 original size:153 final size:153
Alignment explanation
Indices: 23277257--23277545 Score: 479
Period size: 153 Copynumber: 1.9 Consensus size: 153
23277247 AATCGATCAA
* * * *
23277257 TTGATGAGTACTTCAAGAAAAGATGGTCAAATGAAAGAAAAAGTACAATTGATCTTTCACTTGTT
1 TTGATGAGTACTTCAAGAAAAGATGGTCAAATAAAAGAAAAAGTACAATTGATCTCTCACCTATT
* *
23277322 ATGAAATGTTATTGGTGTAGTTCAAAAGATCATGAGGGTTTTCGATGTCCAATTAAATGTCCAAC
66 ATGAAATGTTATTGGTGTAGCTCAAAAGATCATGAGGGTTTACGATGTCCAATTAAATGTCCAAC
23277387 TAGAAAGTAATTATGAATTTCAG
131 TAGAAAGTAATTATGAATTTCAG
* *
23277410 TTGATGAGTACTTCAAGAAGAGATGGTCAAATAAAAGAAAGAGTACAATTGATCTCTCACCTATT
1 TTGATGAGTACTTCAAGAAAAGATGGTCAAATAAAAGAAAAAGTACAATTGATCTCTCACCTATT
* * *
23277475 GTGAAATGTTATTGGTGTAGCTCAAAAGATCATGCGGGTTTACGGTGTCCAATTAAATGTCCAAC
66 ATGAAATGTTATTGGTGTAGCTCAAAAGATCATGAGGGTTTACGATGTCCAATTAAATGTCCAAC
23277540 TAGAAA
131 TAGAAA
23277546 TTATGACTTT
Statistics
Matches: 125, Mismatches: 11, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
153 125 1.00
ACGTcount: A:0.37, C:0.12, G:0.20, T:0.31
Consensus pattern (153 bp):
TTGATGAGTACTTCAAGAAAAGATGGTCAAATAAAAGAAAAAGTACAATTGATCTCTCACCTATT
ATGAAATGTTATTGGTGTAGCTCAAAAGATCATGAGGGTTTACGATGTCCAATTAAATGTCCAAC
TAGAAAGTAATTATGAATTTCAG
Found at i:23277876 original size:22 final size:21
Alignment explanation
Indices: 23277851--23277892 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
23277841 ACAAGACACT
*
23277851 ACATCAACATCATAAATTTTAC
1 ACATCAAC-GCATAAATTTTAC
*
23277873 ACATCTACGCATAAATTTTA
1 ACATCAACGCATAAATTTTA
23277893 AGCAAGGAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 11 0.61
22 7 0.39
ACGTcount: A:0.43, C:0.21, G:0.02, T:0.33
Consensus pattern (21 bp):
ACATCAACGCATAAATTTTAC
Found at i:23278490 original size:30 final size:30
Alignment explanation
Indices: 23278430--23278518 Score: 91
Period size: 25 Copynumber: 3.1 Consensus size: 30
23278420 ATTTCTCATG
* * *
23278430 CCAATATCTCGATACCTATATCTTTTACTTT
1 CCAATAT-TTGATACCCATATCTTTGACTTT
23278461 CCAATATTTGATACCCATA-CATTTGAC-TT
1 CCAATATTTGATACCCATATC-TTTGACTTT
23278490 ----TATTTGATACCCATATCTTTGACTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
23278516 CCA
1 CCA
23278519 TAAATATGGA
Statistics
Matches: 49, Mismatches: 3, Indels: 14
0.74 0.05 0.21
Matches are distributed among these distances:
25 21 0.43
26 3 0.06
29 3 0.06
30 15 0.31
31 7 0.14
ACGTcount: A:0.27, C:0.25, G:0.06, T:0.43
Consensus pattern (30 bp):
CCAATATTTGATACCCATATCTTTGACTTT
Found at i:23279482 original size:106 final size:106
Alignment explanation
Indices: 23279297--23279506 Score: 384
Period size: 106 Copynumber: 2.0 Consensus size: 106
23279287 TGTATTAGAA
23279297 TACGGAACTTGTAAAATGTATTCTTGTTCCGTATTCGTCGAAGGAGATAGTTGTGCAGAAAGCTT
1 TACGGAACTTGTAAAATGTATTCTTGTTCCGTATTCGTCGAAGGAGATAGTTGTGCAGAAAGCTT
* *
23279362 GAAATGAGAAGCCAACGGGGTACTTACAGGTTTGGTCTGCT
66 GAAATGAAAAGCCAACGGGGTACTTACAGCTTTGGTCTGCT
*
23279403 TACGGAACTTGTAACATGTATTCTTGTTCCGTATTCGTCGAAGGAGATAGTTGTGCAGAAAGCTT
1 TACGGAACTTGTAAAATGTATTCTTGTTCCGTATTCGTCGAAGGAGATAGTTGTGCAGAAAGCTT
*
23279468 GAAATGAAAAGCCAACGGGGTACTTACAGCTTTTGTCTG
66 GAAATGAAAAGCCAACGGGGTACTTACAGCTTTGGTCTG
23279507 ATCGTTCATG
Statistics
Matches: 100, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
106 100 1.00
ACGTcount: A:0.28, C:0.16, G:0.26, T:0.30
Consensus pattern (106 bp):
TACGGAACTTGTAAAATGTATTCTTGTTCCGTATTCGTCGAAGGAGATAGTTGTGCAGAAAGCTT
GAAATGAAAAGCCAACGGGGTACTTACAGCTTTGGTCTGCT
Found at i:23289173 original size:21 final size:24
Alignment explanation
Indices: 23289131--23289173 Score: 65
Period size: 21 Copynumber: 1.9 Consensus size: 24
23289121 GGATAATATG
23289131 TTTTGATATAACAAATTAAAGTGT
1 TTTTGATATAACAAATTAAAGTGT
23289155 TTTTGA-ATAA-AAA-TAAAGT
1 TTTTGATATAACAAATTAAAGT
23289174 TGAGCAATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 6 0.32
22 3 0.16
23 4 0.21
24 6 0.32
ACGTcount: A:0.47, C:0.02, G:0.12, T:0.40
Consensus pattern (24 bp):
TTTTGATATAACAAATTAAAGTGT
Found at i:23289344 original size:20 final size:21
Alignment explanation
Indices: 23289319--23289369 Score: 70
Period size: 20 Copynumber: 2.5 Consensus size: 21
23289309 TATCAATCCA
* *
23289319 GTATCGATACT-TTTCTTATG
1 GTATCGATACTATTTCCTAAG
23289339 GTATCGATA-TATTTCCTAAG
1 GTATCGATACTATTTCCTAAG
23289359 GTATCGATACT
1 GTATCGATACT
23289370 CCTGCTCCAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
19 1 0.04
20 25 0.93
21 1 0.04
ACGTcount: A:0.25, C:0.16, G:0.16, T:0.43
Consensus pattern (21 bp):
GTATCGATACTATTTCCTAAG
Found at i:23293482 original size:40 final size:40
Alignment explanation
Indices: 23293421--23293561 Score: 221
Period size: 40 Copynumber: 3.5 Consensus size: 40
23293411 TGTTATTCTC
* *
23293421 TCTGTCTGGTGTGTTTCGGTTGGATTAGCTTTTATGAGCT
1 TCTGTCTGGTGTGTTTCGGTTGGACTAGCTCTTATGAGCT
* *
23293461 TCTATCTGGTGTGTTTTGGTTGGACTAGCTCTTATGAGCT
1 TCTGTCTGGTGTGTTTCGGTTGGACTAGCTCTTATGAGCT
*
23293501 TCTGTCTGGTGTGTTTCAGTTGGACTAGCTCTTATGAGCT
1 TCTGTCTGGTGTGTTTCGGTTGGACTAGCTCTTATGAGCT
*
23293541 TATGTCTGGTGTG-TTCGGTTG
1 TCTGTCTGGTGTGTTTCGGTTG
23293562 ATCTGACGAT
Statistics
Matches: 92, Mismatches: 9, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
39 7 0.08
40 85 0.92
ACGTcount: A:0.11, C:0.14, G:0.30, T:0.45
Consensus pattern (40 bp):
TCTGTCTGGTGTGTTTCGGTTGGACTAGCTCTTATGAGCT
Found at i:23295088 original size:20 final size:20
Alignment explanation
Indices: 23295063--23295110 Score: 71
Period size: 20 Copynumber: 2.4 Consensus size: 20
23295053 TCGATCCGAA
*
23295063 ATCGATACT-TTTCTTAAGGT
1 ATCGATA-TATTTCCTAAGGT
23295083 ATCGATATATTTCCTAAGGT
1 ATCGATATATTTCCTAAGGT
23295103 ATCGATAT
1 ATCGATAT
23295111 TCTTGCAGCA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
19 1 0.04
20 25 0.96
ACGTcount: A:0.29, C:0.15, G:0.15, T:0.42
Consensus pattern (20 bp):
ATCGATATATTTCCTAAGGT
Found at i:23297068 original size:7 final size:7
Alignment explanation
Indices: 23297056--23297081 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
23297046 CTTACAGTAC
23297056 ACACAAT
1 ACACAAT
23297063 ACACAAT
1 ACACAAT
23297070 ACACAAT
1 ACACAAT
23297077 ACACA
1 ACACA
23297082 TATATGTATA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.58, C:0.31, G:0.00, T:0.12
Consensus pattern (7 bp):
ACACAAT
Found at i:23300154 original size:15 final size:15
Alignment explanation
Indices: 23300134--23300164 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
23300124 GTGTCCACGA
23300134 TGGGAGAATTTGTGT
1 TGGGAGAATTTGTGT
23300149 TGGGAGAATTTGTGT
1 TGGGAGAATTTGTGT
23300164 T
1 T
23300165 TGTACTTATC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.19, C:0.00, G:0.39, T:0.42
Consensus pattern (15 bp):
TGGGAGAATTTGTGT
Found at i:23302248 original size:16 final size:15
Alignment explanation
Indices: 23302229--23302280 Score: 54
Period size: 14 Copynumber: 3.4 Consensus size: 15
23302219 AGGTAAATGA
23302229 ATAATTCAATAAATTT
1 ATAATTC-ATAAATTT
*
23302245 ATAA-TCATAAATGT
1 ATAATTCATAAATTT
23302259 AT-ATTCATGATAATTT
1 ATAATTCAT-A-AATTT
23302275 ATAATT
1 ATAATT
23302281 TTATATTTAA
Statistics
Matches: 30, Mismatches: 2, Indels: 7
0.77 0.05 0.18
Matches are distributed among these distances:
13 1 0.03
14 13 0.43
15 3 0.10
16 10 0.33
17 3 0.10
ACGTcount: A:0.46, C:0.06, G:0.04, T:0.44
Consensus pattern (15 bp):
ATAATTCATAAATTT
Found at i:23303762 original size:15 final size:15
Alignment explanation
Indices: 23303742--23303773 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
23303732 ACCGCAATAA
23303742 TTCTTCTTTTTCTGC
1 TTCTTCTTTTTCTGC
23303757 TTCTTCTTTTTCTGC
1 TTCTTCTTTTTCTGC
23303772 TT
1 TT
23303774 AATGTTGCAC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.00, C:0.25, G:0.06, T:0.69
Consensus pattern (15 bp):
TTCTTCTTTTTCTGC
Found at i:23304373 original size:16 final size:16
Alignment explanation
Indices: 23304352--23304383 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
23304342 CAATTTTGAA
*
23304352 ATTCAATCTATATTTT
1 ATTCAATATATATTTT
23304368 ATTCAATATATATTTT
1 ATTCAATATATATTTT
23304384 CCCAGTCAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.34, C:0.09, G:0.00, T:0.56
Consensus pattern (16 bp):
ATTCAATATATATTTT
Found at i:23306366 original size:18 final size:18
Alignment explanation
Indices: 23306343--23306389 Score: 76
Period size: 18 Copynumber: 2.6 Consensus size: 18
23306333 ACGCAATAAA
*
23306343 ACACATATATCCATATAT
1 ACACATATATACATATAT
23306361 ACACATATATACATATAT
1 ACACATATATACATATAT
*
23306379 ATACATATATA
1 ACACATATATA
23306390 TACCTAAGCC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.49, C:0.17, G:0.00, T:0.34
Consensus pattern (18 bp):
ACACATATATACATATAT
Found at i:23306367 original size:10 final size:10
Alignment explanation
Indices: 23306343--23306392 Score: 68
Period size: 10 Copynumber: 5.2 Consensus size: 10
23306333 ACGCAATAAA
23306343 ACACATATAT
1 ACACATATAT
23306353 -C-CATATAT
1 ACACATATAT
23306361 ACACATATAT
1 ACACATATAT
*
23306371 ACATATATAT
1 ACACATATAT
*
23306381 ACATATATAT
1 ACACATATAT
23306391 AC
1 AC
23306393 CTAAGCCTTT
Statistics
Matches: 37, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
8 7 0.19
9 2 0.05
10 28 0.76
ACGTcount: A:0.48, C:0.18, G:0.00, T:0.34
Consensus pattern (10 bp):
ACACATATAT
Found at i:23308222 original size:27 final size:29
Alignment explanation
Indices: 23308184--23308240 Score: 91
Period size: 27 Copynumber: 2.0 Consensus size: 29
23308174 AATAAACAAA
*
23308184 AAAAAAGGAGAGAT-GA-GATGTTCTTAC
1 AAAAAAGAAGAGATGGATGATGTTCTTAC
23308211 AAAAAAGAAGAGATGGATGATGTTCTTAC
1 AAAAAAGAAGAGATGGATGATGTTCTTAC
23308240 A
1 A
23308241 TCAAAATTTG
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
27 13 0.48
28 2 0.07
29 12 0.44
ACGTcount: A:0.46, C:0.07, G:0.25, T:0.23
Consensus pattern (29 bp):
AAAAAAGAAGAGATGGATGATGTTCTTAC
Found at i:23308325 original size:13 final size:13
Alignment explanation
Indices: 23308291--23308327 Score: 51
Period size: 13 Copynumber: 2.9 Consensus size: 13
23308281 TGATTTGTTG
23308291 TTTTAT-TATGTTA
1 TTTTATGTAT-TTA
23308304 TTTTA-GTATTTA
1 TTTTATGTATTTA
23308316 TTTTATGTATTT
1 TTTTATGTATTT
23308328 TTAAGTAGAA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
12 8 0.36
13 14 0.64
ACGTcount: A:0.22, C:0.00, G:0.08, T:0.70
Consensus pattern (13 bp):
TTTTATGTATTTA
Found at i:23308786 original size:18 final size:19
Alignment explanation
Indices: 23308765--23308810 Score: 51
Period size: 19 Copynumber: 2.5 Consensus size: 19
23308755 CTTTTTTTGT
*
23308765 TATTTTCTTGT-TTTTCAC
1 TATTTTCTTGTCATTTCAC
23308783 TATTTTGC-TGTCATTTCAC
1 TATTTT-CTTGTCATTTCAC
*
23308802 TATTATCTT
1 TATTTTCTT
23308811 CTACTATTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 5
0.77 0.07 0.17
Matches are distributed among these distances:
18 10 0.43
19 13 0.57
ACGTcount: A:0.15, C:0.17, G:0.07, T:0.61
Consensus pattern (19 bp):
TATTTTCTTGTCATTTCAC
Found at i:23309484 original size:17 final size:19
Alignment explanation
Indices: 23309462--23309501 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
23309452 CCGAAAATTG
23309462 GTATAT-CTCAT-TTTTTA
1 GTATATCCTCATATTTTTA
*
23309479 GTATATCCTCATATTTTTT
1 GTATATCCTCATATTTTTA
23309498 GTAT
1 GTAT
23309502 CCCCTCATGT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 6 0.30
18 5 0.25
19 9 0.45
ACGTcount: A:0.23, C:0.12, G:0.07, T:0.57
Consensus pattern (19 bp):
GTATATCCTCATATTTTTA
Found at i:23309495 original size:18 final size:17
Alignment explanation
Indices: 23309462--23309495 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
23309452 CCGAAAATTG
*
23309462 GTATATCTCATTTTTTA
1 GTATATCTCATATTTTA
23309479 GTATATCCTCATATTTT
1 GTATAT-CTCATATTTT
23309496 TTGTATCCCC
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:0.24, C:0.15, G:0.06, T:0.56
Consensus pattern (17 bp):
GTATATCTCATATTTTA
Found at i:23309507 original size:19 final size:20
Alignment explanation
Indices: 23309471--23309509 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 20
23309461 GGTATATCTC
*
23309471 ATTTTTTAGTATATCCTCAT
1 ATTTTTTAGTATACCCTCAT
*
23309491 ATTTTTT-GTATCCCCTCAT
1 ATTTTTTAGTATACCCTCAT
23309510 GTCTACTAGT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 10 0.59
20 7 0.41
ACGTcount: A:0.21, C:0.21, G:0.05, T:0.54
Consensus pattern (20 bp):
ATTTTTTAGTATACCCTCAT
Found at i:23311672 original size:40 final size:40
Alignment explanation
Indices: 23311614--23311732 Score: 114
Period size: 40 Copynumber: 3.0 Consensus size: 40
23311604 AGTGGCACTT
*
23311614 TTTAGAAAATGCCGCAATAGATCGAGCATTAGCGGCGCTAG
1 TTTAGAAACT-CCGCAATAGATCGAGCATTAGCGGCGCTAG
* * * *
23311655 TTTAGAAACTCCGCAATAGACCGAGCTTTAGTGGCG-AAG
1 TTTAGAAACTCCGCAATAGATCGAGCATTAGCGGCGCTAG
* * * * * *
23311694 TTTGAGAAACGCTGCTATAGATCAAGAAATAGCGGCGCT
1 TTT-AGAAACTCCGCAATAGATCGAGCATTAGCGGCGCT
23311733 TTATGTAAAA
Statistics
Matches: 61, Mismatches: 15, Indels: 4
0.76 0.19 0.05
Matches are distributed among these distances:
39 5 0.08
40 47 0.77
41 9 0.15
ACGTcount: A:0.32, C:0.19, G:0.26, T:0.23
Consensus pattern (40 bp):
TTTAGAAACTCCGCAATAGATCGAGCATTAGCGGCGCTAG
Found at i:23312277 original size:21 final size:20
Alignment explanation
Indices: 23312251--23312345 Score: 82
Period size: 21 Copynumber: 4.5 Consensus size: 20
23312241 AGTTTAGGGT
23312251 TTTAGGGTTTGATATTTATGG
1 TTTAGGGTTT-ATATTTATGG
* *
23312272 TTTAGGGTTTAGCATTTATGA
1 TTTAGGGTTTA-TATTTATGG
* **
23312293 TTTAAGGTTTATAGTGCATGG
1 TTTAGGGTTTATA-TTTATGG
* *
23312314 TTTAGGGTTTAAGATTTAAGG
1 TTTAGGGTTT-ATATTTATGG
23312335 TTTTAGGGTTT
1 -TTTAGGGTTT
23312346 TAGGGTTTAA
Statistics
Matches: 58, Mismatches: 12, Indels: 7
0.75 0.16 0.09
Matches are distributed among these distances:
20 2 0.03
21 44 0.76
22 12 0.21
ACGTcount: A:0.22, C:0.02, G:0.27, T:0.48
Consensus pattern (20 bp):
TTTAGGGTTTATATTTATGG
Found at i:23312703 original size:14 final size:14
Alignment explanation
Indices: 23312684--23312711 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
23312674 GTATCAAATT
23312684 TTTAAATAATATTA
1 TTTAAATAATATTA
23312698 TTTAAATAATATTA
1 TTTAAATAATATTA
23312712 GTAATGTCAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (14 bp):
TTTAAATAATATTA
Found at i:23313780 original size:11 final size:10
Alignment explanation
Indices: 23313758--23313787 Score: 51
Period size: 11 Copynumber: 2.9 Consensus size: 10
23313748 TTGGCTGTTT
23313758 AGATTGTGTA
1 AGATTGTGTA
23313768 AGATTGATGTA
1 AGATTG-TGTA
23313779 AGATTGTGT
1 AGATTGTGT
23313788 GCTTGGTATA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
10 9 0.47
11 10 0.53
ACGTcount: A:0.30, C:0.00, G:0.30, T:0.40
Consensus pattern (10 bp):
AGATTGTGTA
Found at i:23313832 original size:36 final size:36
Alignment explanation
Indices: 23313785--23313871 Score: 165
Period size: 36 Copynumber: 2.4 Consensus size: 36
23313775 TGTAAGATTG
23313785 TGTGCTTGGTATATATTTAACAACACTGCTTTATTC
1 TGTGCTTGGTATATATTTAACAACACTGCTTTATTC
*
23313821 TGTGCTTGGTATATATTTGACAACACTGCTTTATTC
1 TGTGCTTGGTATATATTTAACAACACTGCTTTATTC
23313857 TGTGCTTGGTATATA
1 TGTGCTTGGTATATA
23313872 ATTGAAATTC
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
36 50 1.00
ACGTcount: A:0.23, C:0.15, G:0.17, T:0.45
Consensus pattern (36 bp):
TGTGCTTGGTATATATTTAACAACACTGCTTTATTC
Found at i:23317404 original size:20 final size:22
Alignment explanation
Indices: 23317365--23317408 Score: 65
Period size: 20 Copynumber: 2.1 Consensus size: 22
23317355 TATATATTAT
23317365 TTTTTAAATATTAAAACCTATA
1 TTTTTAAATATTAAAACCTATA
*
23317387 TTTTT-AATA-TATAACCTATA
1 TTTTTAAATATTAAAACCTATA
23317407 TT
1 TT
23317409 AGAATGGGTA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 12 0.57
21 4 0.19
22 5 0.24
ACGTcount: A:0.41, C:0.09, G:0.00, T:0.50
Consensus pattern (22 bp):
TTTTTAAATATTAAAACCTATA
Found at i:23317883 original size:20 final size:21
Alignment explanation
Indices: 23317841--23317887 Score: 69
Period size: 20 Copynumber: 2.3 Consensus size: 21
23317831 TTATAAATAT
23317841 TATATTTTAAATATTAAAACC
1 TATATTTTAAATATTAAAACC
* *
23317862 TATATTTTTAATA-TATAACC
1 TATATTTTAAATATTAAAACC
23317882 TATATT
1 TATATT
23317888 AGTATGGATA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
20 12 0.50
21 12 0.50
ACGTcount: A:0.43, C:0.09, G:0.00, T:0.49
Consensus pattern (21 bp):
TATATTTTAAATATTAAAACC
Found at i:23317887 original size:121 final size:120
Alignment explanation
Indices: 23317338--23318340 Score: 1566
Period size: 121 Copynumber: 8.3 Consensus size: 120
23317328 ATTCATATGC
*
23317338 AATTTTAAA-ATTAATTATATATATTATTTTTTAAATATTAAAACCTATATTTTTAATATATAAC
1 AATTTTAAACA-TAATTATATATATTATATTTTAAATATTAAAACCTATATTTTTAATATATAAC
* * * * *
23317402 CTATATTAGAATGGGTATATAACCTATATTTCAAATTCATGT-TTAGTAACTTTTTA
65 CTATATTAGTATGGATATGTAACCTATATTTCAAATTCAT-TACTAATAACTTTTTA
* * * *
23317458 AATTTTAAACATAATTATTTATTTTATATTTTAAATATTAAAACTTATATTTTTAATATGTAACC
1 AATTTTAAACATAATTATATATATTATATTTTAAATATTAAAACCTATATTTTTAATATATAACC
*
23317523 TATATTAGTATGGATATATAACCTATATTTCAAATTCATTACTAATAACTTTTTA
66 TATATTAGTATGGATATGTAACCTATATTTCAAATTCATTACTAATAACTTTTTA
* * * * * *
23317578 AATTTTAAAAATATTTAAAAATATTATATTTTAAATATTAAAACCTATATTGTTCATATATAACC
1 AATTTTAAACATAATTATATATATTATATTTTAAATATTAAAACCTATATTTTTAATATATAACC
* * *
23317643 --TATTAATATGGGTATATAACCTATATTTCAAATTCATTACTAATAAC-TTTTA
66 TATATTAGTATGGATATGTAACCTATATTTCAAATTCATTACTAATAACTTTTTA
* * *
23317695 AATTTTAAACATAATTATTTATTTTATATTTTTAAATATTAAAACCTATATTTTTAATATATCAC
1 AATTTTAAACATAATTATATATATTATA-TTTTAAATATTAAAACCTATATTTTTAATATATAAC
23317760 CTATATTAGTATGGATATGTAACCTATATTTCAAATTCATTACTAATAACTTTTTTA
65 CTATATTAGTATGGATATGTAACCTATATTTCAAATTCATTACTAATAAC-TTTTTA
* *
23317817 AATTTTATACATAATTATAAATATTATATTTTAAATATTAAAACCTATATTTTTAATATATAACC
1 AATTTTAAACATAATTATATATATTATATTTTAAATATTAAAACCTATATTTTTAATATATAACC
*
23317882 TATATTAGTATGGATATGTAACCTATATTTCAAATTTATTACTAATAACTTTTTA
66 TATATTAGTATGGATATGTAACCTATATTTCAAATTCATTACTAATAACTTTTTA
* * *
23317937 AATTTTAAACATAATTATTTATTTTATATTTTTAAATATTAAAACCTATATTTTTAATATATCAC
1 AATTTTAAACATAATTATATATATTATA-TTTTAAATATTAAAACCTATATTTTTAATATATAAC
23318002 CTATATTAGTATGGATATGTAACCTATATTTCAAATTCATTACTAATAACTTTTTTA
65 CTATATTAGTATGGATATGTAACCTATATTTCAAATTCATTACTAATAAC-TTTTTA
* * *
23318059 AATTTTATACATAATTATAAATATTATATTTTAAATATTAAAACCTATATTTTTAATATATCACC
1 AATTTTAAACATAATTATATATATTATATTTTAAATATTAAAACCTATATTTTTAATATATAACC
23318124 TATATTAGTATGGATATGTAACCTATATTTCAAATTCATTACTAATAACTTTTTTA
66 TATATTAGTATGGATATGTAACCTATATTTCAAATTCATTACTAATAAC-TTTTTA
* * *
23318180 AATTTTATACATAATTATAAATATTATATTTTAAATATTAAAACCTATATTTTTAATATATCACC
1 AATTTTAAACATAATTATATATATTATATTTTAAATATTAAAACCTATATTTTTAATATATAACC
23318245 TATATTAGTATGGATATGTAACCTATATTTCAAATTCATTACTAATAACTTTTTA
66 TATATTAGTATGGATATGTAACCTATATTTCAAATTCATTACTAATAACTTTTTA
* *
23318300 AATTTTAAACATAATTATTTATTTTATATTTTTAAATATTA
1 AATTTTAAACATAATTATATATATTATA-TTTTAAATATTA
23318341 TACATAATTA
Statistics
Matches: 820, Mismatches: 53, Indels: 19
0.92 0.06 0.02
Matches are distributed among these distances:
117 27 0.03
118 79 0.10
119 1 0.00
120 266 0.32
121 388 0.47
122 59 0.07
ACGTcount: A:0.40, C:0.09, G:0.03, T:0.47
Consensus pattern (120 bp):
AATTTTAAACATAATTATATATATTATATTTTAAATATTAAAACCTATATTTTTAATATATAACC
TATATTAGTATGGATATGTAACCTATATTTCAAATTCATTACTAATAACTTTTTA
Found at i:23318324 original size:27 final size:30
Alignment explanation
Indices: 23318316--23318374 Score: 88
Period size: 27 Copynumber: 2.0 Consensus size: 30
23318306 AAACATAATT
23318316 ATTTATTTTATATTTTTAAATATTATACATA
1 ATTTA-TTTATATTTTTAAATATTATACATA
23318347 A-TTA-TT-TATTTTTAAATATTATACATA
1 ATTTATTTATATTTTTAAATATTATACATA
23318374 A
1 A
23318375 AATTTTAAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
27 22 0.79
28 2 0.07
30 3 0.11
31 1 0.04
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.56
Consensus pattern (30 bp):
ATTTATTTATATTTTTAAATATTATACATA
Found at i:23318346 original size:34 final size:34
Alignment explanation
Indices: 23318294--23318358 Score: 112
Period size: 34 Copynumber: 1.9 Consensus size: 34
23318284 TACTAATAAC
*
23318294 TTTTTAAATTTTAAACATAATTATTTATTTTATA
1 TTTTTAAATATTAAACATAATTATTTATTTTATA
*
23318328 TTTTTAAATATTATACATAATTATTTATTTT
1 TTTTTAAATATTAAACATAATTATTTATTTT
23318359 TAAATATTAT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 29 1.00
ACGTcount: A:0.37, C:0.03, G:0.00, T:0.60
Consensus pattern (34 bp):
TTTTTAAATATTAAACATAATTATTTATTTTATA
Found at i:23318354 original size:21 final size:22
Alignment explanation
Indices: 23318329--23318399 Score: 72
Period size: 21 Copynumber: 3.0 Consensus size: 22
23318319 TATTTTATAT
23318329 TTTTAAATATTATACATAATTATTTA
1 TTTTAAATATTATACAT-A--A-TTA
*
23318355 TTTTTAAATATTATACATAA-AA
1 -TTTTAAATATTATACATAATTA
*
23318377 TTTTAAATTTTATACATAATTA
1 TTTTAAATATTATACATAATTA
23318399 T
1 T
23318400 AAATGTTATA
Statistics
Matches: 40, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
21 18 0.45
22 3 0.08
24 1 0.03
26 1 0.03
27 17 0.43
ACGTcount: A:0.44, C:0.04, G:0.00, T:0.52
Consensus pattern (22 bp):
TTTTAAATATTATACATAATTA
Found at i:23318381 original size:27 final size:27
Alignment explanation
Indices: 23318326--23318379 Score: 92
Period size: 27 Copynumber: 2.0 Consensus size: 27
23318316 ATTTATTTTA
*
23318326 TATTTTTAAATATTATACATAATTATT
1 TATTTTTAAATATTATACATAAATATT
23318353 TATTTTTAAATATTATACATAAA-ATT
1 TATTTTTAAATATTATACATAAATATT
23318379 T
1 T
23318380 TAAATTTTAT
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
26 4 0.15
27 22 0.85
ACGTcount: A:0.43, C:0.04, G:0.00, T:0.54
Consensus pattern (27 bp):
TATTTTTAAATATTATACATAAATATT
Found at i:23318402 original size:19 final size:20
Alignment explanation
Indices: 23318359--23318409 Score: 59
Period size: 19 Copynumber: 2.5 Consensus size: 20
23318349 TATTTATTTT
*
23318359 TAAATATTATACATAAAATTT
1 TAAATATTATACAT-AAATTA
*
23318380 TAAATTTTATACAT-AATTA
1 TAAATATTATACATAAATTA
*
23318399 TAAATGTTATA
1 TAAATATTATA
23318410 TTTTTAAATA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
19 14 0.52
21 13 0.48
ACGTcount: A:0.49, C:0.04, G:0.02, T:0.45
Consensus pattern (20 bp):
TAAATATTATACATAAATTA
Found at i:23318624 original size:52 final size:52
Alignment explanation
Indices: 23318557--23318837 Score: 338
Period size: 52 Copynumber: 5.2 Consensus size: 52
23318547 ACATAACTCA
*
23318557 CATAACTTACATAACTTACATAACTTACATAATACATAAATATTTATCATAT
1 CATAACTTACATAACTCACATAACTTACATAATACATAAATATTTATCATAT
* * *
23318609 CACAACTTACATAACTCACATAACTTACATAATACATAAATATATATCATTT
1 CATAACTTACATAACTCACATAACTTACATAATACATAAATATTTATCATAT
*
23318661 CATAACTTACATAACTCACGTAACTTACATAACTTACAAAATACATAAATATATATATCATAT
1 CATAACTTACAT-A---AC-T--C--ACATAACTTACATAATACATAAATAT-T-TATCATAT
* *
23318724 CATAACTTACATAACTCACATAACTTA-AT-A-AC-T-TATATATATCATAT
1 CATAACTTACATAACTCACATAACTTACATAATACATAAATATTTATCATAT
*
23318771 CATAACTTACATAACTCACATAACTTACATAACTTACATAAATATATATCATAT
1 CATAACTTACATAACTCACATAACTTACATAA--TACATAAATATTTATCATAT
23318825 CATAACTTACATA
1 CATAACTTACATA
23318838 GCTTATTTAT
Statistics
Matches: 199, Mismatches: 12, Indels: 34
0.81 0.05 0.14
Matches are distributed among these distances:
47 35 0.18
48 2 0.01
49 5 0.03
50 1 0.01
51 2 0.01
52 62 0.31
53 3 0.02
54 36 0.18
56 3 0.02
57 1 0.01
58 1 0.01
59 3 0.02
61 25 0.13
62 1 0.01
63 19 0.10
ACGTcount: A:0.46, C:0.20, G:0.00, T:0.34
Consensus pattern (52 bp):
CATAACTTACATAACTCACATAACTTACATAATACATAAATATTTATCATAT
Found at i:23318627 original size:70 final size:64
Alignment explanation
Indices: 23318482--23318756 Score: 217
Period size: 70 Copynumber: 4.4 Consensus size: 64
23318472 ACTAATTTCC
* * * *
23318482 ACATAACAT-ACATAACTCACATAACATATATAACTTAATAACTTATATATATCATAACTCAACT
1 ACATAAC-TCACATAACTTACATAAC-TACATAACTTAATAACTAATATATATCATAACACAACT
23318546 T
64 T
* *
23318547 ACATAACTCACATAACTTACATAACTTACATAACTTACATAATACATAAATATTTATCATATCAC
1 ACATAACTCACATAACTTACATAAC-TACATAACTTA-AT-A-AC-T-AATATATATCATAACAC
23318612 AACTT
60 AACTT
*
23318617 ACATAACTCACATAACTTACATAA-TACAT-A---AAT-A-T-ATATCAT-T--T--CATAACTT
1 ACATAACTCACATAACTTACATAACTACATAACTTAATAACTAATAT-ATATCATAACACAACTT
* * * * *
23318669 ACATAACTCACGTAACTTACATAACTTACA-AA-ATACATAAAT-ATATATATCATATCATAACT
1 ACATAACTCACATAACTTACATAAC-TACATAACTTA-ATAACTAATATATATCATAACACAACT
23318731 T
64 T
23318732 ACATAACTCACATAACTTA-ATAACT
1 ACATAACTCACATAACTTACATAACT
23318757 TATATATATC
Statistics
Matches: 179, Mismatches: 11, Indels: 44
0.76 0.05 0.19
Matches are distributed among these distances:
52 30 0.17
54 6 0.03
56 6 0.03
57 3 0.02
58 4 0.02
59 6 0.03
60 1 0.01
61 2 0.01
62 5 0.03
63 28 0.16
64 2 0.01
65 32 0.18
66 2 0.01
67 2 0.01
68 7 0.04
69 1 0.01
70 42 0.23
ACGTcount: A:0.47, C:0.20, G:0.00, T:0.32
Consensus pattern (64 bp):
ACATAACTCACATAACTTACATAACTACATAACTTAATAACTAATATATATCATAACACAACTT
Found at i:23318777 original size:47 final size:48
Alignment explanation
Indices: 23318681--23318837 Score: 205
Period size: 47 Copynumber: 3.2 Consensus size: 48
23318671 ATAACTCACG
* * *
23318681 TAACTTACATAACTTACA-AA-ATACATAA-ATATATATATCATATCA
1 TAACTTACATAACTCACATAACTTACATAACTTATATATATCATATCA
23318726 TAACTTACATAACTCACATAACTTA-ATAACTTATATATATCATATCA
1 TAACTTACATAACTCACATAACTTACATAACTTATATATATCATATCA
23318773 TAACTTACATAACTCACATAACTTACATAACTTACATAAATATATATCATATCA
1 TAACTTACATAACTCACATAACTTACATAAC-T---T--ATATATATCATATCA
23318827 TAACTTACATA
1 TAACTTACATA
23318838 GCTTATTTAT
Statistics
Matches: 99, Mismatches: 3, Indels: 11
0.88 0.03 0.10
Matches are distributed among these distances:
45 17 0.17
46 6 0.06
47 43 0.43
48 5 0.05
49 1 0.01
52 1 0.01
54 26 0.26
ACGTcount: A:0.47, C:0.18, G:0.00, T:0.34
Consensus pattern (48 bp):
TAACTTACATAACTCACATAACTTACATAACTTATATATATCATATCA
Found at i:23318842 original size:9 final size:9
Alignment explanation
Indices: 23318482--23318842 Score: 224
Period size: 9 Copynumber: 40.1 Consensus size: 9
23318472 ACTAATTTCC
*
23318482 ACATAACAT
1 ACATAACTT
*
23318491 ACATAACTC
1 ACATAACTT
*
23318500 ACATAACAT
1 ACATAACTT
*
23318509 ATATAACTT
1 ACATAACTT
23318518 A-ATAACTT
1 ACATAACTT
* *
23318526 ATATATATCAT
1 ACATA-A-CTT
23318537 A-ACTCAACTT
1 ACA-T-AACTT
*
23318547 ACATAACTC
1 ACATAACTT
23318556 ACATAACTT
1 ACATAACTT
23318565 ACATAACTT
1 ACATAACTT
23318574 ACATAACTT
1 ACATAACTT
23318583 ACATAA--T
1 ACATAACTT
*
23318590 ACATAA-AT
1 ACATAACTT
** * *
23318598 ATTTATCAT
1 ACATAACTT
*
23318607 ATCACAACTT
1 A-CATAACTT
*
23318617 ACATAACTC
1 ACATAACTT
23318626 ACATAACTT
1 ACATAACTT
23318635 ACATAA--T
1 ACATAACTT
*
23318642 ACATAA-AT
1 ACATAACTT
* *
23318650 ATATATCATT
1 ACATAAC-TT
*
23318660 TCATAACTT
1 ACATAACTT
*
23318669 ACATAACTC
1 ACATAACTT
*
23318678 ACGTAACTT
1 ACATAACTT
23318687 ACATAACTT
1 ACATAACTT
*
23318696 ACA-AA-AT
1 ACATAACTT
*
23318703 ACATAAATAT
1 ACATAACT-T
* * *
23318713 ATATATCAT
1 ACATAACTT
23318722 ATCATAACTT
1 A-CATAACTT
*
23318732 ACATAACTC
1 ACATAACTT
23318741 ACATAACTT
1 ACATAACTT
23318750 A-ATAACTT
1 ACATAACTT
* *
23318758 ATATATATCAT
1 ACATA-A-CTT
23318769 ATCATAACTT
1 A-CATAACTT
*
23318779 ACATAACTC
1 ACATAACTT
23318788 ACATAACTT
1 ACATAACTT
23318797 ACATAACTT
1 ACATAACTT
*
23318806 ACATAA-AT
1 ACATAACTT
* * *
23318814 ATATATCAT
1 ACATAACTT
23318823 ATCATAACTT
1 A-CATAACTT
*
23318833 ACATAGCTT
1 ACATAACTT
23318842 A
1 A
23318843 TTTATACTTA
Statistics
Matches: 275, Mismatches: 55, Indels: 44
0.74 0.15 0.12
Matches are distributed among these distances:
7 18 0.07
8 34 0.12
9 173 0.63
10 36 0.13
11 10 0.04
12 4 0.01
ACGTcount: A:0.46, C:0.20, G:0.01, T:0.33
Consensus pattern (9 bp):
ACATAACTT
Found at i:23324293 original size:21 final size:21
Alignment explanation
Indices: 23324265--23324321 Score: 73
Period size: 21 Copynumber: 2.8 Consensus size: 21
23324255 CTACACCTTA
*
23324265 AAGCAGAGGCAGCAGCGAGGG
1 AAGCAGAGGCAGCAGCAAGGG
* *
23324286 AAGTAGAGGTAGCAGCAAGGG
1 AAGCAGAGGCAGCAGCAAGGG
23324307 AAGCAGA-GCAG-AGCA
1 AAGCAGAGGCAGCAGCA
23324322 GAGAAAAAAG
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
19 4 0.13
20 3 0.10
21 24 0.77
ACGTcount: A:0.39, C:0.16, G:0.42, T:0.04
Consensus pattern (21 bp):
AAGCAGAGGCAGCAGCAAGGG
Found at i:23324725 original size:43 final size:43
Alignment explanation
Indices: 23324645--23324758 Score: 149
Period size: 43 Copynumber: 2.6 Consensus size: 43
23324635 GAACGGTAAT
*
23324645 TTTAGCGGCATTTGT-GATAAAAAGCGCCGCTAAAGGTCATGTTC
1 TTTAGCGGCATTT-TCTAT-AAAAGCGCCGCTAAAGGTCATGTTC
* *
23324689 TTTAGCGGCATTTTCTATAAAAGCGCTGCTATAGGTCATGTTC
1 TTTAGCGGCATTTTCTATAAAAGCGCCGCTAAAGGTCATGTTC
* * *
23324732 TTTAGTGACATTTGCTATAAAAGCGCC
1 TTTAGCGGCATTTTCTATAAAAGCGCC
23324759 TTTAGCGGCG
Statistics
Matches: 62, Mismatches: 7, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
43 47 0.76
44 15 0.24
ACGTcount: A:0.26, C:0.18, G:0.22, T:0.33
Consensus pattern (43 bp):
TTTAGCGGCATTTTCTATAAAAGCGCCGCTAAAGGTCATGTTC
Found at i:23324801 original size:70 final size:70
Alignment explanation
Indices: 23324688--23324827 Score: 208
Period size: 70 Copynumber: 2.0 Consensus size: 70
23324678 AGGTCATGTT
* * *
23324688 CTTTAGCGGCATTTTCTATAAAAGCGCTGCTATAGGTCATGTTCTTTAGTGACATTTGCTATAAA
1 CTTTAGCGGCATTTGCTATAAAAGCGCCGCTAAAGGTCATGTTCTTTAGTGACATTTGCTATAAA
23324753 AGCGC
66 AGCGC
* * * * *
23324758 CTTTAGCGGCGTTTGCTATAAAAGCGCCGCTAAATGTCATGTTCTTTAGTGGCGTTTGTTATAAA
1 CTTTAGCGGCATTTGCTATAAAAGCGCCGCTAAAGGTCATGTTCTTTAGTGACATTTGCTATAAA
23324823 AGCGC
66 AGCGC
23324828 TGCTAAAGAA
Statistics
Matches: 62, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
70 62 1.00
ACGTcount: A:0.24, C:0.19, G:0.22, T:0.35
Consensus pattern (70 bp):
CTTTAGCGGCATTTGCTATAAAAGCGCCGCTAAAGGTCATGTTCTTTAGTGACATTTGCTATAAA
AGCGC
Found at i:23324821 original size:43 final size:43
Alignment explanation
Indices: 23324758--23324942 Score: 160
Period size: 43 Copynumber: 4.3 Consensus size: 43
23324748 ATAAAAGCGC
*
23324758 CTTTAGCGGCGTTTGCTATAAAAGCGCCGCTAAATGTCATGTT
1 CTTTAGCGGCGTTTGTTATAAAAGCGCCGCTAAATGTCATGTT
* * * **
23324801 CTTTAGTGGCGTTTGTTATAAAAGCGCTGCTAAA-GAACATGGC
1 CTTTAGCGGCGTTTGTTATAAAAGCGCCGCTAAATG-TCATGTT
* * * * * * * *
23324844 CCTTAGCGACGCTTCTTTTTAAA-CGCCGCAAAAAT-TCATGAT
1 CTTTAGCGGCGTTTGTTATAAAAGCGCCGC-TAAATGTCATGTT
* * * *
23324886 CTTTATCAGCGTTTGATATAAAAGCGCCGCTAAAGGTCATGTT
1 CTTTAGCGGCGTTTGTTATAAAAGCGCCGCTAAATGTCATGTT
*
23324929 GTTTAGCGGCGTTT
1 CTTTAGCGGCGTTT
23324943 ATGTGAAAAA
Statistics
Matches: 104, Mismatches: 33, Indels: 10
0.71 0.22 0.07
Matches are distributed among these distances:
42 27 0.26
43 77 0.74
ACGTcount: A:0.25, C:0.20, G:0.22, T:0.32
Consensus pattern (43 bp):
CTTTAGCGGCGTTTGTTATAAAAGCGCCGCTAAATGTCATGTT
Found at i:23328960 original size:42 final size:42
Alignment explanation
Indices: 23328901--23328989 Score: 160
Period size: 42 Copynumber: 2.1 Consensus size: 42
23328891 TCATTCCTGG
23328901 CTTGGCTTTCCTTTTTGTCTTGACTCTATCCCTTCCAGCTGT
1 CTTGGCTTTCCTTTTTGTCTTGACTCTATCCCTTCCAGCTGT
* *
23328943 CTTGGCTTTCCTTTTTGTCTTGATTCTATGCCTTCCAGCTGT
1 CTTGGCTTTCCTTTTTGTCTTGACTCTATCCCTTCCAGCTGT
23328985 CTTGG
1 CTTGG
23328990 TGAAGACTAT
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
42 45 1.00
ACGTcount: A:0.07, C:0.28, G:0.17, T:0.48
Consensus pattern (42 bp):
CTTGGCTTTCCTTTTTGTCTTGACTCTATCCCTTCCAGCTGT
Found at i:23329554 original size:26 final size:26
Alignment explanation
Indices: 23329525--23329682 Score: 192
Period size: 26 Copynumber: 6.1 Consensus size: 26
23329515 GTAGTGGACT
*
23329525 TAAATTATCGAAATACCCTCGAAGAG
1 TAAATTATCGAAATACCCTCGAAGGG
* *
23329551 TAAATTATTGAAATACCCTCGATGGG
1 TAAATTATCGAAATACCCTCGAAGGG
23329577 TAAATTATCGAAATACCCTC-AATGGG
1 TAAATTATCGAAATACCCTCGAA-GGG
* * * *
23329603 TAAATTATCAAAATAACCTTGATGGG
1 TAAATTATCGAAATACCCTCGAAGGG
* * *
23329629 TAAATTATCAAAATACCCTGGATGGG
1 TAAATTATCGAAATACCCTCGAAGGG
* *
23329655 TAAATTACCGAAATACCCCCGAAGGG
1 TAAATTATCGAAATACCCTCGAAGGG
23329681 TA
1 TA
23329683 GAATGACCGT
Statistics
Matches: 114, Mismatches: 16, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
25 1 0.01
26 112 0.98
27 1 0.01
ACGTcount: A:0.39, C:0.18, G:0.17, T:0.26
Consensus pattern (26 bp):
TAAATTATCGAAATACCCTCGAAGGG
Found at i:23329654 original size:78 final size:78
Alignment explanation
Indices: 23329525--23329672 Score: 215
Period size: 78 Copynumber: 1.9 Consensus size: 78
23329515 GTAGTGGACT
* * ** *
23329525 TAAATTATCGAAATACCCTCGAAGAGTAAATTATTGAAATACCCTCGATGGGTAAATTATCGAAA
1 TAAATTATCAAAATAACCTCGAAGAGTAAATTATCAAAATACCCTCGATGGGTAAATTACCGAAA
23329590 TACCCTCAATGGG
66 TACCCTCAATGGG
* * * *
23329603 TAAATTATCAAAATAACCTTGATGGGTAAATTATCAAAATACCCTGGATGGGTAAATTACCGAAA
1 TAAATTATCAAAATAACCTCGAAGAGTAAATTATCAAAATACCCTCGATGGGTAAATTACCGAAA
23329668 TACCC
66 TACCC
23329673 CCGAAGGGTA
Statistics
Matches: 61, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
78 61 1.00
ACGTcount: A:0.40, C:0.18, G:0.16, T:0.27
Consensus pattern (78 bp):
TAAATTATCAAAATAACCTCGAAGAGTAAATTATCAAAATACCCTCGATGGGTAAATTACCGAAA
TACCCTCAATGGG
Found at i:23329940 original size:26 final size:26
Alignment explanation
Indices: 23329911--23329960 Score: 82
Period size: 26 Copynumber: 1.9 Consensus size: 26
23329901 ACATATACTG
* *
23329911 TACTGGCAGCTCTGTTGCAATATTTT
1 TACTGGCAGCTATGCTGCAATATTTT
23329937 TACTGGCAGCTATGCTGCAATATT
1 TACTGGCAGCTATGCTGCAATATT
23329961 GGTGTGTGGG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.22, C:0.20, G:0.20, T:0.38
Consensus pattern (26 bp):
TACTGGCAGCTATGCTGCAATATTTT
Found at i:23330471 original size:18 final size:18
Alignment explanation
Indices: 23330448--23330492 Score: 56
Period size: 18 Copynumber: 2.4 Consensus size: 18
23330438 AAACAAATAA
23330448 GTTTTCATA-ACAAACACT
1 GTTTTCA-AGACAAACACT
23330466 GTTTTCAAGACAAACACAT
1 GTTTTCAAGACAAACAC-T
*
23330485 ATTTTCAA
1 GTTTTCAA
23330493 CTTCAAAATA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
17 1 0.04
18 15 0.62
19 8 0.33
ACGTcount: A:0.40, C:0.20, G:0.07, T:0.33
Consensus pattern (18 bp):
GTTTTCAAGACAAACACT
Found at i:23340170 original size:12 final size:13
Alignment explanation
Indices: 23340143--23340184 Score: 54
Period size: 12 Copynumber: 3.4 Consensus size: 13
23340133 GGTTTTCTCA
23340143 AAATGGAAAT-AG
1 AAATGGAAATGAG
23340155 AAATGGAAATGA-
1 AAATGGAAATGAG
23340167 AAAT-GAGAATGAG
1 AAATGGA-AATGAG
23340180 AAATG
1 AAATG
23340185 TTTCTTTTGC
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
11 2 0.08
12 19 0.73
13 5 0.19
ACGTcount: A:0.57, C:0.00, G:0.26, T:0.17
Consensus pattern (13 bp):
AAATGGAAATGAG
Found at i:23340170 original size:18 final size:19
Alignment explanation
Indices: 23340143--23340184 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 19
23340133 GGTTTTCTCA
*
23340143 AAATGGAAAT-AGAAATG-G
1 AAATGAAAATGAG-AATGAG
23340161 AAATGAAAATGAGAATGAG
1 AAATGAAAATGAGAATGAG
23340180 AAATG
1 AAATG
23340185 TTTCTTTTGC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
18 13 0.62
19 8 0.38
ACGTcount: A:0.57, C:0.00, G:0.26, T:0.17
Consensus pattern (19 bp):
AAATGAAAATGAGAATGAG
Found at i:23341811 original size:9 final size:9
Alignment explanation
Indices: 23341794--23341830 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
23341784 TGAGTTTTCA
23341794 AATTCGAAT
1 AATTCGAAT
*
23341803 AACTCGAAT
1 AATTCGAAT
23341812 AATTCGAAT
1 AATTCGAAT
23341821 AATTCGAAT
1 AATTCGAAT
23341830 A
1 A
23341831 TCAAACTATA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.46, C:0.14, G:0.11, T:0.30
Consensus pattern (9 bp):
AATTCGAAT
Found at i:23349867 original size:26 final size:26
Alignment explanation
Indices: 23349833--23349904 Score: 90
Period size: 26 Copynumber: 2.7 Consensus size: 26
23349823 AACCATAGCA
* *
23349833 CAAATTAGTCATTTACCCTCGAGGGG
1 CAAAATAGTCATTTACCCTCCAGGGG
23349859 CAAAATAGTCATTTACCCTCCAGGGG
1 CAAAATAGTCATTTACCCTCCAGGGG
** *
23349885 CATTATGGTCATTTTACCCT
1 CAAAATAGTCA-TTTACCCT
23349905 ATAAGGGTTA
Statistics
Matches: 40, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
26 32 0.80
27 8 0.20
ACGTcount: A:0.26, C:0.25, G:0.18, T:0.31
Consensus pattern (26 bp):
CAAAATAGTCATTTACCCTCCAGGGG
Found at i:23350060 original size:27 final size:27
Alignment explanation
Indices: 23349971--23350060 Score: 110
Period size: 27 Copynumber: 3.3 Consensus size: 27
23349961 AGGGGCACTA
*
23349971 CGATCATATTACCC-TACGAGGGTATTT
1 CGATCATTTTACCCAT-CGAGGGTATTT
* *
23349998 CAATCATTTTACTCATCGAGGGTATTT
1 CGATCATTTTACCCATCGAGGGTATTT
* * *
23350025 TGGTTATTTTACCCATCGAGGGTATTT
1 CGATCATTTTACCCATCGAGGGTATTT
23350052 CGATCATTT
1 CGATCATTT
23350061 AACAAATATT
Statistics
Matches: 51, Mismatches: 11, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
27 50 0.98
28 1 0.02
ACGTcount: A:0.23, C:0.19, G:0.18, T:0.40
Consensus pattern (27 bp):
CGATCATTTTACCCATCGAGGGTATTT
Found at i:23353557 original size:54 final size:53
Alignment explanation
Indices: 23353432--23353604 Score: 204
Period size: 54 Copynumber: 3.2 Consensus size: 53
23353422 CTGTAAAATA
* *
23353432 GGTAAAATGACCAAAATACCCTCATAGGGTAAAATAGCTGAAATACCCCCATAA
1 GGTAAAATGACCAAAATACCCTCATAGGGTAAAATA-CTGAAATACCCCTATAG
* * * * * *
23353486 GATAGAATGATCGAAATACCC-CTATAGGGTAAAATGACTGAAATAACCCTACAG
1 GGTAAAATGACCAAAATACCCTC-ATAGGGTAAAAT-ACTGAAATACCCCTATAG
* * *
23353540 GGTAAAAGGACCAAAATACCCTCATAGGGTATAATAACTAAAATACCCCTATAG
1 GGTAAAATGACCAAAATACCCTCATAGGGTAAAAT-ACTGAAATACCCCTATAG
23353594 GGTAAAATGAC
1 GGTAAAATGAC
23353605 TGTTATACCC
Statistics
Matches: 97, Mismatches: 19, Indels: 6
0.80 0.16 0.05
Matches are distributed among these distances:
53 1 0.01
54 94 0.97
55 2 0.02
ACGTcount: A:0.44, C:0.20, G:0.17, T:0.20
Consensus pattern (53 bp):
GGTAAAATGACCAAAATACCCTCATAGGGTAAAATACTGAAATACCCCTATAG
Found at i:23353617 original size:27 final size:27
Alignment explanation
Indices: 23353432--23353605 Score: 158
Period size: 27 Copynumber: 6.4 Consensus size: 27
23353422 CTGTAAAATA
*
23353432 GGTAAAATGACCAAAATA-CCCTCATAG
1 GGTAAAATGACTAAAATACCCCT-ATAG
* * *
23353459 GGTAAAAT-AGCTGAAATACCCCCATAA
1 GGTAAAATGA-CTAAAATACCCCTATAG
* * *
23353486 GATAGAATGA-TCGAAATACCCCTATAG
1 GGTAAAATGACT-AAAATACCCCTATAG
* * *
23353513 GGTAAAATGACTGAAATAACCCTACAG
1 GGTAAAATGACTAAAATACCCCTATAG
* *
23353540 GGTAAAAGGACCAAAATA-CCCTCATAG
1 GGTAAAATGACTAAAATACCCCT-ATAG
* *
23353567 GGTATAATAACTAAAATACCCCTATAG
1 GGTAAAATGACTAAAATACCCCTATAG
23353594 GGTAAAATGACT
1 GGTAAAATGACT
23353606 GTTATACCCC
Statistics
Matches: 118, Mismatches: 22, Indels: 14
0.77 0.14 0.09
Matches are distributed among these distances:
26 6 0.05
27 103 0.87
28 9 0.08
ACGTcount: A:0.44, C:0.20, G:0.17, T:0.20
Consensus pattern (27 bp):
GGTAAAATGACTAAAATACCCCTATAG
Found at i:23356702 original size:27 final size:27
Alignment explanation
Indices: 23356334--23356693 Score: 339
Period size: 27 Copynumber: 13.4 Consensus size: 27
23356324 CCCCAAAATA
* * * *
23356334 GGTAAAATAACCAAAATA-CCTCATAA
1 GGTAAAATGACCGAAATACCCCCATAG
* * *
23356360 GATAAAATGACCAAAATA-CTCCATAG
1 GGTAAAATGACCGAAATACCCCCATAG
* * * **
23356386 GGTAGAATAATCGAAATACCCTTATAG
1 GGTAAAATGACCGAAATACCCCCATAG
* *** *
23356413 GGTAAAATGACCAAAATACCTTTATAA
1 GGTAAAATGACCGAAATACCCCCATAG
*
23356440 GGTAAAATAACCGAAATACCCCCATAG
1 GGTAAAATGACCGAAATACCCCCATAG
*
23356467 GGTAAAATAACCGAAATACCCCCATAG
1 GGTAAAATGACCGAAATACCCCCATAG
* *
23356494 GGTAAAATAACCGAAATACCCTCATAG
1 GGTAAAATGACCGAAATACCCCCATAG
** *
23356521 GGTAAAATGATTGAAATACGCCCATAG
1 GGTAAAATGACCGAAATACCCCCATAG
** *
23356548 GGTAAAATGAATGAAATACCCCCACAG
1 GGTAAAATGACCGAAATACCCCCATAG
* * * *
23356575 GGTAGTATTG-CCAAAAGACCCCCATAG
1 GGTA-AAATGACCGAAATACCCCCATAG
* *
23356602 GGTAAAATGACCAAAATACCCCCACAG
1 GGTAAAATGACCGAAATACCCCCATAG
* * **
23356629 GGTAGAATGACTGAAATACCATCATAG
1 GGTAAAATGACCGAAATACCCCCATAG
* *
23356656 GGTAAAATAACCGAAATACCTCCATAG
1 GGTAAAATGACCGAAATACCCCCATAG
23356683 GGTAAAATGAC
1 GGTAAAATGAC
23356694 TGTTATACCC
Statistics
Matches: 274, Mismatches: 57, Indels: 5
0.82 0.17 0.01
Matches are distributed among these distances:
26 37 0.14
27 234 0.85
28 3 0.01
ACGTcount: A:0.44, C:0.21, G:0.16, T:0.19
Consensus pattern (27 bp):
GGTAAAATGACCGAAATACCCCCATAG
Found at i:23356704 original size:81 final size:81
Alignment explanation
Indices: 23356334--23356693 Score: 379
Period size: 81 Copynumber: 4.5 Consensus size: 81
23356324 CCCCAAAATA
* * * * *
23356334 GGTAAAATAACCAAAATACCT-CATAAGATAAAATGACCAAAATA-CTCCATAGGGTAGAAT-AA
1 GGTAAAATAACCAAAATACCTCCATAGGGTAAAATGACCGAAATACCCCCATAGGGTAAAATGAA
**
23356396 TCGAAATACCCTTATAG
66 T-GAAATACCCCCATAG
* ** * *
23356413 GGTAAAATGACCAAAATACCTTTATAAGGTAAAATAACCGAAATACCCCCATAGGGTAAAAT-AA
1 GGTAAAATAACCAAAATACCTCCATAGGGTAAAATGACCGAAATACCCCCATAGGGTAAAATGAA
*
23356477 CCGAAATACCCCCATAG
66 -TGAAATACCCCCATAG
* ** *
23356494 GGTAAAATAACCGAAATACC-CTCATAGGGTAAAATGATTGAAATACGCCCATAGGGTAAAATGA
1 GGTAAAATAACCAAAATACCTC-CATAGGGTAAAATGACCGAAATACCCCCATAGGGTAAAATGA
*
23356558 ATGAAATACCCCCACAG
65 ATGAAATACCCCCATAG
** ** * * * * * *
23356575 GGTAGTATTGCCAAAAGACCCCCATAGGGTAAAATGACCAAAATACCCCCACAGGGTAGAATGAC
1 GGTAAAATAACCAAAATACCTCCATAGGGTAAAATGACCGAAATACCCCCATAGGGTAAAATGAA
**
23356640 TGAAATACCATCATAG
66 TGAAATACCCCCATAG
*
23356656 GGTAAAATAACCGAAATACCTCCATAGGGTAAAATGAC
1 GGTAAAATAACCAAAATACCTCCATAGGGTAAAATGAC
23356694 TGTTATACCC
Statistics
Matches: 231, Mismatches: 44, Indels: 10
0.81 0.15 0.04
Matches are distributed among these distances:
79 20 0.09
80 19 0.08
81 189 0.82
82 3 0.01
ACGTcount: A:0.44, C:0.21, G:0.16, T:0.19
Consensus pattern (81 bp):
GGTAAAATAACCAAAATACCTCCATAGGGTAAAATGACCGAAATACCCCCATAGGGTAAAATGAA
TGAAATACCCCCATAG
Found at i:23369364 original size:19 final size:20
Alignment explanation
Indices: 23369340--23369385 Score: 85
Period size: 19 Copynumber: 2.4 Consensus size: 20
23369330 CATCCAAACA
23369340 CCAGAAAAGTAAATCA-TTT
1 CCAGAAAAGTAAATCATTTT
23369359 CCAGAAAAGTAAATCATTTT
1 CCAGAAAAGTAAATCATTTT
23369379 CCAGAAA
1 CCAGAAA
23369386 TCATTTTTTG
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
19 16 0.62
20 10 0.38
ACGTcount: A:0.48, C:0.17, G:0.11, T:0.24
Consensus pattern (20 bp):
CCAGAAAAGTAAATCATTTT
Found at i:23369984 original size:26 final size:26
Alignment explanation
Indices: 23369946--23370005 Score: 93
Period size: 26 Copynumber: 2.3 Consensus size: 26
23369936 CTGTAAGTGC
*
23369946 TCTGAAACTGATACATGTTATGATAT
1 TCTGAAACGGATACATGTTATGATAT
*
23369972 TCTGAAACGGATATATGTTATGATAT
1 TCTGAAACGGATACATGTTATGATAT
*
23369998 TCTAAAAC
1 TCTGAAAC
23370006 TACTGTAGGT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 31 1.00
ACGTcount: A:0.37, C:0.12, G:0.15, T:0.37
Consensus pattern (26 bp):
TCTGAAACGGATACATGTTATGATAT
Found at i:23371938 original size:16 final size:16
Alignment explanation
Indices: 23371917--23371948 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
23371907 ATTGCTTCCA
23371917 TTCCTAACTGGTGGTG
1 TTCCTAACTGGTGGTG
23371933 TTCCTAACTGGTGGTG
1 TTCCTAACTGGTGGTG
23371949 GTCGAGGATG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.12, C:0.19, G:0.31, T:0.38
Consensus pattern (16 bp):
TTCCTAACTGGTGGTG
Found at i:23372832 original size:27 final size:27
Alignment explanation
Indices: 23372491--23372914 Score: 367
Period size: 27 Copynumber: 15.7 Consensus size: 27
23372481 ATACCTTTGA
* * * *
23372491 AGGGTAAAATAATCGAAATACCCTCGAT
1 AGGGTAAAATGACCGTAATACCC-CTAT
* * * *
23372519 -GGGTAAAATGACTGAAATACCATCGAT
1 AGGGTAAAATGACCGTAATACC-CCTAT
* * * *
23372546 -GGGTAAAATAACCGAAATACTCTCGAT
1 AGGGTAAAATGACCGTAATAC-CCCTAT
* * *
23372573 A-GGTAAAATGACTGAAATACCCTCAAT
1 AGGGTAAAATGACCGTAATACCC-CTAT
** *
23372600 -GGGTAAAATGACCAAAATACCCTTGAT
1 AGGGTAAAATGACCGTAATACCCCT-AT
*** *
23372627 -GGGTAAAATGACTAAAATACCCTTGAT
1 AGGGTAAAATGACCGTAATACCCCT-AT
*
23372654 -GGGTAAAATGACCGAAATACCCCTAT
1 AGGGTAAAATGACCGTAATACCCCTAT
* *
23372680 AGGGTAAAATGACCGTAATACCCTTGT
1 AGGGTAAAATGACCGTAATACCCCTAT
* * *
23372707 AGGGTAAAATAACTGTAATACCCTTAT
1 AGGGTAAAATGACCGTAATACCCCTAT
* * *
23372734 AGGGTAAAATGACCGTAATGCTCCTGT
1 AGGGTAAAATGACCGTAATACCCCTAT
* * *
23372761 AGGGTAAAATGATCGTAATATCCCTGT
1 AGGGTAAAATGACCGTAATACCCCTAT
23372788 AGGGTAAAATGACCGTAATACCCCTAT
1 AGGGTAAAATGACCGTAATACCCCTAT
* * * *
23372815 AGGGTAAAATTACTGTAATGCCTCTATT
1 AGGGTAAAATGACCGTAATACCCCTA-T
*
23372843 A-GGTAAAATGACCGTAATGCCCCTAT
1 AGGGTAAAATGACCGTAATACCCCTAT
*
23372869 AGGATAAAATGACCGTAATACCCCTAT
1 AGGGTAAAATGACCGTAATACCCCTAT
*
23372896 AGGGTAAAATGACCATAAT
1 AGGGTAAAATGACCGTAAT
23372915 GCCCTGGTGG
Statistics
Matches: 339, Mismatches: 48, Indels: 19
0.83 0.12 0.05
Matches are distributed among these distances:
26 5 0.01
27 331 0.98
28 3 0.01
ACGTcount: A:0.38, C:0.18, G:0.19, T:0.25
Consensus pattern (27 bp):
AGGGTAAAATGACCGTAATACCCCTAT
Found at i:23372943 original size:26 final size:26
Alignment explanation
Indices: 23372914--23372965 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
23372904 ATGACCATAA
* *
23372914 TGCCCTGGTGGGTAAATGACTATTTT
1 TGCCCTCGTGAGTAAATGACTATTTT
* *
23372940 TGCCCTCGTGATTAAATGATTATTTT
1 TGCCCTCGTGAGTAAATGACTATTTT
23372966 GTCTGTGGTT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.21, C:0.15, G:0.21, T:0.42
Consensus pattern (26 bp):
TGCCCTCGTGAGTAAATGACTATTTT
Found at i:23372981 original size:23 final size:23
Alignment explanation
Indices: 23372951--23373007 Score: 78
Period size: 23 Copynumber: 2.4 Consensus size: 23
23372941 GCCCTCGTGA
*
23372951 TTAAATGATTATTTTGTCTGTGG
1 TTAAATGATTAATTTGTCTGTGG
* *
23372974 TTAAATGACTAATTTGTCTGTGT
1 TTAAATGATTAATTTGTCTGTGG
23372997 TTAATATGATT
1 TTAA-ATGATT
23373008 GATGTGTTTG
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
23 24 0.83
24 5 0.17
ACGTcount: A:0.26, C:0.05, G:0.18, T:0.51
Consensus pattern (23 bp):
TTAAATGATTAATTTGTCTGTGG
Found at i:23373148 original size:27 final size:27
Alignment explanation
Indices: 23373099--23373163 Score: 73
Period size: 27 Copynumber: 2.4 Consensus size: 27
23373089 ATGGAAGAAG
*
23373099 TACTA-TACTGGTGGCTCTACCACA-A
1 TACTATTACTGGTGGCTATACCACATA
*
23373124 TCACTGTTACTGGTGGC-ATAGCCACATA
1 T-ACTATTACTGGTGGCTATA-CCACATA
23373152 TACTATTACTGG
1 TACTATTACTGG
23373164 CAACTTTGCT
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
25 1 0.03
26 5 0.15
27 25 0.76
28 2 0.06
ACGTcount: A:0.26, C:0.25, G:0.18, T:0.31
Consensus pattern (27 bp):
TACTATTACTGGTGGCTATACCACATA
Found at i:23373183 original size:26 final size:26
Alignment explanation
Indices: 23373151--23373204 Score: 90
Period size: 26 Copynumber: 2.1 Consensus size: 26
23373141 ATAGCCACAT
23373151 ATACTATTACTGGCAACTTTGCTGCG
1 ATACTATTACTGGCAACTTTGCTGCG
* *
23373177 ATACTATTGCTGGCAGCTTTGCTGCG
1 ATACTATTACTGGCAACTTTGCTGCG
23373203 AT
1 AT
23373205 GCTACTGATG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.20, C:0.22, G:0.22, T:0.35
Consensus pattern (26 bp):
ATACTATTACTGGCAACTTTGCTGCG
Found at i:23373216 original size:26 final size:26
Alignment explanation
Indices: 23373161--23373216 Score: 76
Period size: 26 Copynumber: 2.2 Consensus size: 26
23373151 ATACTATTAC
* *
23373161 TGGCAACTTTGCTGCGATACTATTGC
1 TGGCAACTTTGCTGCGATACTACTGA
* *
23373187 TGGCAGCTTTGCTGCGATGCTACTGA
1 TGGCAACTTTGCTGCGATACTACTGA
23373213 TGGC
1 TGGC
23373217 TTTGTGTTAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.16, C:0.23, G:0.29, T:0.32
Consensus pattern (26 bp):
TGGCAACTTTGCTGCGATACTACTGA
Found at i:23373462 original size:32 final size:32
Alignment explanation
Indices: 23373207--23373459 Score: 197
Period size: 32 Copynumber: 7.9 Consensus size: 32
23373197 GCTGCGATGC
** *
23373207 TACTGATGGCTTTGTGTTAATCATAGTACCGT
1 TACTGATGGCTTTGTGCCAATCATATTACCGT
*
23373239 TACTGATGGCTTTGTGCCAATCATAGTACCGT
1 TACTGATGGCTTTGTGCCAATCATATTACCGT
* * *
23373271 TACTGATGACTTTATGCCGATCATATTACCGT
1 TACTGATGGCTTTGTGCCAATCATATTACCGT
* * * * *
23373303 TA-TCGATGACTATGTGCCGATTAT-TTCACTGT
1 TACT-GATGGCTTTGTGCCAATCATATT-ACCGT
* * * * *
23373335 TACTGATGGCTGTGTG-TAGATCATATCACTGC
1 TACTGATGGCTTTGTGCCA-ATCATATTACCGT
* * * * *
23373367 CACTAATGGCTTTGTACCGATCATGTTACCGT
1 TACTGATGGCTTTGTGCCAATCATATTACCGT
* * * * *
23373399 TACTGATGGCTATATGCCGATCATATCACTGT
1 TACTGATGGCTTTGTGCCAATCATATTACCGT
* *
23373431 TACTGATGGCTTTGTGCTAATCACATTAC
1 TACTGATGGCTTTGTGCCAATCATATTAC
23373460 TGTACGTATG
Statistics
Matches: 174, Mismatches: 41, Indels: 12
0.77 0.18 0.05
Matches are distributed among these distances:
31 3 0.02
32 169 0.97
33 2 0.01
ACGTcount: A:0.23, C:0.21, G:0.20, T:0.37
Consensus pattern (32 bp):
TACTGATGGCTTTGTGCCAATCATATTACCGT
Found at i:23387391 original size:29 final size:29
Alignment explanation
Indices: 23387352--23387423 Score: 90
Period size: 29 Copynumber: 2.4 Consensus size: 29
23387342 ATAATTGCAG
*
23387352 AAAATCTACCAAATAAATAATAAATGCGAT
1 AAAATC-ACCAAATAAAGAATAAATGCGAT
* *
23387382 AAAATCACCAAATAACGAATAAATGTGAT
1 AAAATCACCAAATAAAGAATAAATGCGAT
* *
23387411 AAGATCGCCAAAT
1 AAAATCACCAAAT
23387424 CTCGTTCAAT
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
29 31 0.84
30 6 0.16
ACGTcount: A:0.54, C:0.15, G:0.10, T:0.21
Consensus pattern (29 bp):
AAAATCACCAAATAAAGAATAAATGCGAT
Found at i:23388169 original size:41 final size:41
Alignment explanation
Indices: 23388110--23388393 Score: 363
Period size: 41 Copynumber: 6.9 Consensus size: 41
23388100 TTCTGAACTT
23388110 TCGGGGCTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGC
1 TCGGGGCTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGC
* * **
23388151 TTGGGGCTTTAGCGGCGTTTTTGGAAAAGTGTAAG-TAATGC
1 TCGGGGCTTTAGCGGCGTTTTTGGAAAAGCG-CCGCTAATGC
*
23388192 TCGGGGCTTTAGCGGCGTTTTTGCAAAAGCGCCGCTAATGC
1 TCGGGGCTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGC
* *
23388233 TCGGGGCTTTAGCAGCATTTTTGGAAAAGCGCCGCTAATGC
1 TCGGGGCTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGC
**
23388274 TAAGGGCTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGC
1 TCGGGGCTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGC
* ** * * * *
23388315 TAGGGATTTTAGTGGTGTTTTTCGAAAAGCGTCGCTAATGC
1 TCGGGGCTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGC
* * ** *
23388356 TCGGGGTTTTACCGGCGTTTTTCCAAAAACGCCGCTAA
1 TCGGGGCTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAA
23388394 AAATATTTTA
Statistics
Matches: 210, Mismatches: 31, Indels: 4
0.86 0.13 0.02
Matches are distributed among these distances:
40 1 0.00
41 208 0.99
42 1 0.00
ACGTcount: A:0.20, C:0.19, G:0.31, T:0.30
Consensus pattern (41 bp):
TCGGGGCTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGC
Found at i:23388791 original size:15 final size:14
Alignment explanation
Indices: 23388739--23388787 Score: 62
Period size: 14 Copynumber: 3.4 Consensus size: 14
23388729 ACTATTTAAA
*
23388739 GGTTTAGGGAGTAT
1 GGTTTAGGGATTAT
*
23388753 GGATTTAAGGATTAT
1 GG-TTTAGGGATTAT
*
23388768 GGATTAGGGATTAT
1 GGTTTAGGGATTAT
23388782 GGTTTA
1 GGTTTA
23388788 AGGGTTGGGA
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
14 17 0.59
15 12 0.41
ACGTcount: A:0.27, C:0.00, G:0.35, T:0.39
Consensus pattern (14 bp):
GGTTTAGGGATTAT
Found at i:23388921 original size:15 final size:15
Alignment explanation
Indices: 23388887--23388917 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
23388877 TTTTGAGGCA
23388887 TAGGGATTATGTGTT
1 TAGGGATTATGTGTT
23388902 TAGGGATTATG-GTT
1 TAGGGATTATGTGTT
23388916 TA
1 TA
23388918 AGGGTTGGGG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 5 0.31
15 11 0.69
ACGTcount: A:0.23, C:0.00, G:0.32, T:0.45
Consensus pattern (15 bp):
TAGGGATTATGTGTT
Found at i:23388964 original size:22 final size:22
Alignment explanation
Indices: 23388901--23388993 Score: 66
Period size: 22 Copynumber: 4.2 Consensus size: 22
23388891 GATTATGTGT
* *
23388901 TTAGGGATTAT-GGTTTAAGGG
1 TTAGGGGTTATGGGTTTAGGGG
*
23388922 TT-GGGGTTTAAGCAGGTTTAGGGG
1 TTAGGGG-TTATG--GGTTTAGGGG
*
23388946 TTAGGGGTTATGGGTTTAGGAGA
1 TTAGGGGTTATGGGTTTAGG-GG
* * *
23388969 TT-GGAGTTAGGGGTTTAGGGT
1 TTAGGGGTTATGGGTTTAGGGG
23388990 TTAG
1 TTAG
23388994 ATTAATTGGT
Statistics
Matches: 57, Mismatches: 8, Indels: 13
0.73 0.10 0.17
Matches are distributed among these distances:
20 3 0.05
21 8 0.14
22 24 0.42
23 3 0.05
24 15 0.26
25 4 0.07
ACGTcount: A:0.19, C:0.01, G:0.43, T:0.37
Consensus pattern (22 bp):
TTAGGGGTTATGGGTTTAGGGG
Found at i:23391402 original size:6 final size:6
Alignment explanation
Indices: 23391371--23391401 Score: 55
Period size: 6 Copynumber: 5.3 Consensus size: 6
23391361 AACTACTTCA
23391371 TTCTTT TTCTTT TTCTTT TTCTTT TT-TTT TT
1 TTCTTT TTCTTT TTCTTT TTCTTT TTCTTT TT
23391402 TGTGAAATTT
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 5 0.20
6 20 0.80
ACGTcount: A:0.00, C:0.13, G:0.00, T:0.87
Consensus pattern (6 bp):
TTCTTT
Found at i:23394301 original size:43 final size:43
Alignment explanation
Indices: 23394241--23394331 Score: 130
Period size: 43 Copynumber: 2.1 Consensus size: 43
23394231 CTTTGAGTTC
* * *
23394241 ATTA-CAAGATTTCCTTGATTAAGTAAATGTATTATATCTTTT
1 ATTACCAAGATTTACTTGATTAAGAAAATGCATTATATCTTTT
* *
23394283 ATTACCAAGATTTACTTGATTAAGAAAATGCATTGTATTTTTT
1 ATTACCAAGATTTACTTGATTAAGAAAATGCATTATATCTTTT
23394326 ATTACC
1 ATTACC
23394332 TTGCAATGTG
Statistics
Matches: 43, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
42 4 0.09
43 39 0.91
ACGTcount: A:0.34, C:0.11, G:0.10, T:0.45
Consensus pattern (43 bp):
ATTACCAAGATTTACTTGATTAAGAAAATGCATTATATCTTTT
Found at i:23394812 original size:85 final size:84
Alignment explanation
Indices: 23394711--23394996 Score: 335
Period size: 85 Copynumber: 3.4 Consensus size: 84
23394701 CGTTTTTGCG
* * * *
23394711 AAAAGCGTCGCTAAAGGT-TTGTTCTATAGCGGCATTTGTGGGAAAAGCGCCGCTAAAGGTCTTA
1 AAAAGCGCCGCTAAAGGTCTTGATCTATAGCGGC-TTTGTGGGAAAAGCACCGCTAAAGGTCTTG
23394775 AGCTATAGCGACGTTTGTGAA
65 AGCTATAGCGACGTTTGTG-A
* *
23394796 AAAAGCGCCGCTAAAGGTCTTGATCTATAGCGGCGTTGTGGGAAAAGCTCCGCTAGAA-GTCTTG
1 AAAAGCGCCGCTAAAGGTCTTGATCTATAGCGGCTTTGTGGGAAAAGCACCGCTA-AAGGTCTTG
*
23394860 AGCTATAGCGGA-GTTTGTGC
65 AGCTATAGC-GACGTTTGTGA
* * * * *
23394880 AAAAGCGCCGCTAAAGGTCCTGATCTATAGCGACGTTTGTGGAAAAATCACCGCTAAAGGTCCTG
1 AAAAGCGCCGCTAAAGGTCTTGATCTATAGCGGC-TTTGTGGGAAAAGCACCGCTAAAGGTCTTG
* * * *
23394945 ATCTACAGCGGCGTTTGTGGG
65 AGCTATAGCGACGTTTGT-GA
* *
23394966 AAAAGCGCTGCTAAAGGTCATGATCTATAGC
1 AAAAGCGCCGCTAAAGGTCTTGATCTATAGC
23394997 AGCGTTTATT
Statistics
Matches: 175, Mismatches: 19, Indels: 13
0.85 0.09 0.06
Matches are distributed among these distances:
84 35 0.20
85 92 0.53
86 48 0.27
ACGTcount: A:0.28, C:0.19, G:0.28, T:0.25
Consensus pattern (84 bp):
AAAAGCGCCGCTAAAGGTCTTGATCTATAGCGGCTTTGTGGGAAAAGCACCGCTAAAGGTCTTGA
GCTATAGCGACGTTTGTGA
Found at i:23394926 original size:127 final size:129
Alignment explanation
Indices: 23394734--23394971 Score: 365
Period size: 127 Copynumber: 1.9 Consensus size: 129
23394724 AAGGTTTGTT
* *
23394734 CTATAGCGGCATTTGTGGGAAAAGCGCCGCTAAAGGTCTTAAGCTATAGCGACGTTTGTGAAAAA
1 CTATAGCGGCATTTGTGGCAAAAGCGCCGCTAAAGGTCCTAAGCTATAGCGACGTTTGTGAAAAA
* * *
23394799 AGCGCCGCTAAAGGTCTTGATCTATAGCGGCG-TTGTGGGAAAAGCTCCGCTAGAAGTCTTGAG
66 AGCACCGCTAAAGGTCCTGATCTACAGCGGCGTTTGTGGGAAAAGCTCCGCTAGAAGTCTTGAG
* * *
23394862 CTATAGCGG-AGTTTGT-GCAAAAGCGCCGCTAAAGGTCCTGATCTATAGCGACGTTTGTGGAAA
1 CTATAGCGGCA-TTTGTGGCAAAAGCGCCGCTAAAGGTCCTAAGCTATAGCGACGTTTGTGAAAA
*
23394925 AATCACCGCTAAAGGTCCTGATCTACAGCGGCGTTTGTGGGAAAAGC
65 AAGCACCGCTAAAGGTCCTGATCTACAGCGGCGTTTGTGGGAAAAGC
23394972 GCTGCTAAAG
Statistics
Matches: 99, Mismatches: 9, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
127 72 0.73
128 27 0.27
ACGTcount: A:0.27, C:0.20, G:0.29, T:0.24
Consensus pattern (129 bp):
CTATAGCGGCATTTGTGGCAAAAGCGCCGCTAAAGGTCCTAAGCTATAGCGACGTTTGTGAAAAA
AGCACCGCTAAAGGTCCTGATCTACAGCGGCGTTTGTGGGAAAAGCTCCGCTAGAAGTCTTGAG
Found at i:23395002 original size:43 final size:43
Alignment explanation
Indices: 23394699--23395003 Score: 357
Period size: 43 Copynumber: 7.2 Consensus size: 43
23394689 TGTTTTTAGT
* * * *
23394699 GGCGTTTTTGCGAAAAGCGTCGCTAAAGGT-TTGTTCTATAGC
1 GGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCTTGATCTATAGC
* * *
23394741 GGCATTTGTGGGAAAAGCGCCGCTAAAGGTCTTAAGCTATAGC
1 GGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCTTGATCTATAGC
* **
23394784 GACGTTTGTGAAAAAAGCGCCGCTAAAGGTCTTGATCTATAGC
1 GGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCTTGATCTATAGC
* *
23394827 GGCG-TTGTGGGAAAAGCTCCGCTAGAA-GTCTTGAGCTATAGC
1 GGCGTTTGTGGGAAAAGCGCCGCTA-AAGGTCTTGATCTATAGC
* * *
23394869 GGAGTTTGT-GCAAAAGCGCCGCTAAAGGTCCTGATCTATAGC
1 GGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCTTGATCTATAGC
* * * * * *
23394911 GACGTTTGTGGAAAAATCACCGCTAAAGGTCCTGATCTACAGC
1 GGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCTTGATCTATAGC
* *
23394954 GGCGTTTGTGGGAAAAGCGCTGCTAAAGGTCATGATCTATAGC
1 GGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCTTGATCTATAGC
*
23394997 AGCGTTT
1 GGCGTTT
23395004 ATTTCTAAAA
Statistics
Matches: 221, Mismatches: 37, Indels: 9
0.83 0.14 0.03
Matches are distributed among these distances:
41 2 0.01
42 93 0.42
43 126 0.57
ACGTcount: A:0.26, C:0.19, G:0.29, T:0.26
Consensus pattern (43 bp):
GGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCTTGATCTATAGC
Found at i:23402765 original size:27 final size:26
Alignment explanation
Indices: 23402725--23402781 Score: 69
Period size: 27 Copynumber: 2.2 Consensus size: 26
23402715 TGGAGGCGGT
* *
23402725 ATATAACCACTTCATACATCTATTTCC
1 ATATAAACACTTCATACATCCATTT-C
* *
23402752 ATATAAACATTTCATATATCCATTTC
1 ATATAAACACTTCATACATCCATTTC
23402778 ATAT
1 ATAT
23402782 TACAATTTCT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
26 5 0.19
27 21 0.81
ACGTcount: A:0.37, C:0.23, G:0.00, T:0.40
Consensus pattern (26 bp):
ATATAAACACTTCATACATCCATTTC
Found at i:23404597 original size:20 final size:20
Alignment explanation
Indices: 23404572--23404617 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 20
23404562 TTCTCTCTAT
23404572 TTTTGGCGT-TGGCTCCTTGA
1 TTTTGG-GTGTGGCTCCTTGA
*
23404592 TTTTGGGTGGTGGTTCCTTGA
1 TTTTGGGT-GTGGCTCCTTGA
23404613 TTTTG
1 TTTTG
23404618 TCCATGTTGG
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
19 2 0.09
20 6 0.26
21 15 0.65
ACGTcount: A:0.04, C:0.13, G:0.33, T:0.50
Consensus pattern (20 bp):
TTTTGGGTGTGGCTCCTTGA
Found at i:23408280 original size:3 final size:3
Alignment explanation
Indices: 23408272--23408350 Score: 92
Period size: 3 Copynumber: 27.3 Consensus size: 3
23408262 TAAATATAGA
*
23408272 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT GAT -AT AAT -AT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * * *
23408318 GAT AAT AAC ATT AAA AAT AAT AAT AAT AA- AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
23408351 GCTAAGAAAA
Statistics
Matches: 64, Mismatches: 9, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
2 6 0.09
3 58 0.91
ACGTcount: A:0.65, C:0.01, G:0.03, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:23409960 original size:45 final size:45
Alignment explanation
Indices: 23409901--23410368 Score: 250
Period size: 44 Copynumber: 10.7 Consensus size: 45
23409891 TTGTTTATTT
** * * *
23409901 AGTCTGC-CCTACTGCAGTTTCAGGGGGATAAGACTTGATTTCTTG
1 AGTCTGCTCC-ACTGCAACTTCAGGGAGATAAGACTCGATTGCTTG
* *
23409946 AGTCTGCTCCACTGCAACTTCAGGGAGATAAGAGTCGCTTGCTTG
1 AGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTCGATTGCTTG
* * *
23409991 GGTCGGCTCCACTGCAACTTCAGGGAGATAAGACCCGA-TGC--G
1 AGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTCGATTGCTTG
* * *
23410033 A-TCTGCT-CTCTGCAACTTCAGAGAGATAAGATCTGTGATT--TT-
1 AGTCTGCTCCACTGCAACTTCAGGGAGATAAGA-CT-CGATTGCTTG
* * * * * *
23410075 AATCTACTCCACTGTAACTTCAGGGAGATAGGA-T-TATTGGCTTT
1 AGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTCGATT-GCTTG
* * * * *
23410119 AATCTGCTCCAGTGTAACTTCAGGGAGATAAGATTCGCCA-T-CTTC
1 AGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTCG--ATTGCTTG
* * * * * *
23410164 AGTCTGC-CTTACTACAACTTCA-GGAGGATAAGGCTTGCTTACTT-
1 AGTCTGCTC-CACTGCAACTTCAGGGA-GATAAGACTCGATTGCTTG
* *
23410208 AGTCTGCGCCACTGCAACTTCAGGGAGATAAGACTAGA-TGC---
1 AGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTCGATTGCTTG
* * ** * *
23410249 AATCTACT-CTTTGCAACTTCAGAGAGATAAGATCTGTGATT--TT-
1 AGTCTGCTCCACTGCAACTTCAGGGAGATAAGA-CT-CGATTGCTTG
* * * * * *
23410292 AATCCGCTCCACTGCGACTTCAGGGAGATAGGA-TTG-TTGGCTTT
1 AGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTCGATT-GCTTG
*
23410336 AATCTGCTCCACTGCAACTTCAGGGAGATAAGA
1 AGTCTGCTCCACTGCAACTTCAGGGAGATAAGA
23410369 TTCGCCATCT
Statistics
Matches: 330, Mismatches: 61, Indels: 65
0.72 0.13 0.14
Matches are distributed among these distances:
40 48 0.15
41 15 0.05
42 8 0.02
43 19 0.06
44 134 0.41
45 102 0.31
46 2 0.01
47 1 0.00
48 1 0.00
ACGTcount: A:0.26, C:0.22, G:0.23, T:0.29
Consensus pattern (45 bp):
AGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTCGATTGCTTG
Found at i:23410851 original size:44 final size:44
Alignment explanation
Indices: 23410734--23410855 Score: 149
Period size: 44 Copynumber: 2.8 Consensus size: 44
23410724 ATCTGCTATT
* * *
23410734 TTCAACCTACTCCACTGTTGCTC-AGGTAAATAGGATTCACAATC
1 TTCAACCTATTCCACTGTTGATCAAGG-AGATAGGATTCACAATC
* * *
23410778 TTCAACCTATTCCATTGTTGACCAGGGAGATAGGACTT-ACAATC
1 TTCAACCTATTCCACTGTTGATCAAGGAGATAGGA-TTCACAATC
*
23410822 TTCAACCTATTCCACTGTTGTTCAAGGAGATAGG
1 TTCAACCTATTCCACTGTTGATCAAGGAGATAGG
23410856 GCTAAGGTCA
Statistics
Matches: 66, Mismatches: 10, Indels: 4
0.82 0.12 0.05
Matches are distributed among these distances:
44 62 0.94
45 4 0.06
ACGTcount: A:0.29, C:0.24, G:0.17, T:0.30
Consensus pattern (44 bp):
TTCAACCTATTCCACTGTTGATCAAGGAGATAGGATTCACAATC
Found at i:23410925 original size:45 final size:44
Alignment explanation
Indices: 23410874--23411005 Score: 122
Period size: 44 Copynumber: 3.0 Consensus size: 44
23410864 CATCGATCTG
*
23410874 CTTCGCTGTCGATGCAGGAAGGTAAGATATGCTATTTTTAACCTA
1 CTTCGCTGTCGATGCAGGAAGGCAAGAT-TGCTATTTTTAACCTA
* ** * * * * * * * *
23410919 CTTCGCTG-CAACCCAGGGAGGCAAGGTTGGTGTCTTCAATCTG
1 CTTCGCTGTCGATGCAGGAAGGCAAGATTGCTATTTTTAACCTA
*
23410962 CTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCT
1 CTTCGCTGTCGATGCAGGAAGGCAAGAT-TGCTATTTTTAACCT
23411006 GCTCCGCTAC
Statistics
Matches: 62, Mismatches: 23, Indels: 4
0.70 0.26 0.04
Matches are distributed among these distances:
43 18 0.29
44 26 0.42
45 18 0.29
ACGTcount: A:0.22, C:0.22, G:0.26, T:0.30
Consensus pattern (44 bp):
CTTCGCTGTCGATGCAGGAAGGCAAGATTGCTATTTTTAACCTA
Found at i:23410969 original size:43 final size:43
Alignment explanation
Indices: 23410919--23411053 Score: 126
Period size: 44 Copynumber: 3.1 Consensus size: 43
23410909 TTTTAACCTA
23410919 CTTCGCTGCAACCCAGGGAGGCAAGGTTGGTGTCTTCAATCTG
1 CTTCGCTGCAACCCAGGGAGGCAAGGTTGGTGTCTTCAATCTG
**** * * * * * * *
23410962 CTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTG
1 CTTCGCTG-CAACCCAGGGAGGCAAGGT-TGGTGTCTTCAATCTG
* * *
23411007 CTCCGCTACAACCCAGGGAGGCAAGGTTGGTGTCTTCGATCTG
1 CTTCGCTGCAACCCAGGGAGGCAAGGTTGGTGTCTTCAATCTG
23411050 CTTC
1 CTTC
23411054 ACTGTCGGTG
Statistics
Matches: 64, Mismatches: 26, Indels: 4
0.68 0.28 0.04
Matches are distributed among these distances:
43 21 0.33
44 26 0.41
45 17 0.27
ACGTcount: A:0.19, C:0.26, G:0.28, T:0.27
Consensus pattern (43 bp):
CTTCGCTGCAACCCAGGGAGGCAAGGTTGGTGTCTTCAATCTG
Found at i:23410979 original size:88 final size:88
Alignment explanation
Indices: 23410866--23411389 Score: 823
Period size: 88 Copynumber: 6.0 Consensus size: 88
23410856 GCTAAGGTCA
* * * * * *
23410866 TCGATCTGCTTCGCTGTCGATGCAGGAAGGTAAGATATGCTATTTTTAACCTACTTCGCTGCAAC
1 TCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTACAAC
*
23410931 CCAGGGAGGCAAGGTTGGTGTCT
66 CCAGGGAGGCAAGGCTGGTGTCT
*
23410954 TCAATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTACAAC
1 TCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTACAAC
*
23411019 CCAGGGAGGCAAGGTTGGTGTCT
66 CCAGGGAGGCAAGGCTGGTGTCT
* * *
23411042 TCGATCTGCTTCACTGTCGGTGCAGGAAGGCAAGATCTACTATTTTTAACCTGCTCCCCTACAAC
1 TCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTACAAC
*
23411107 CCAGAGAGGCAAGGCTGGTGTCT
66 CCAGGGAGGCAAGGCTGGTGTCT
* * * *
23411130 TCGATCTGCTTCTCTGTCGGTGCAGGAAGGCAAGATCTGCAATTTTTAACCTGCACCGCTGCAAC
1 TCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTACAAC
*
23411195 CTAGGGAGGCAAGGCTGGTGTCT
66 CCAGGGAGGCAAGGCTGGTGTCT
*
23411218 TCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTACTCCGCTACAAC
1 TCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTACAAC
* * *
23411283 CTAGGGAGGCAAGGCTAGTGTCC
66 CCAGGGAGGCAAGGCTGGTGTCT
* *
23411306 TCGATCTCCTTCACTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTACAAC
1 TCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTACAAC
*
23411371 CCAGGGAGGCAAGGTTGGT
66 CCAGGGAGGCAAGGCTGGT
23411390 AGTGCTACAA
Statistics
Matches: 402, Mismatches: 34, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
88 402 1.00
ACGTcount: A:0.21, C:0.25, G:0.27, T:0.27
Consensus pattern (88 bp):
TCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTACAAC
CCAGGGAGGCAAGGCTGGTGTCT
Found at i:23415180 original size:16 final size:16
Alignment explanation
Indices: 23415159--23415189 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
23415149 CCATTGGATA
23415159 TAGTGCCCTAAGTATC
1 TAGTGCCCTAAGTATC
23415175 TAGTGCCCTAAGTAT
1 TAGTGCCCTAAGTAT
23415190 AGTATTTTCG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.26, C:0.23, G:0.19, T:0.32
Consensus pattern (16 bp):
TAGTGCCCTAAGTATC
Found at i:23416585 original size:25 final size:26
Alignment explanation
Indices: 23416547--23416603 Score: 71
Period size: 26 Copynumber: 2.2 Consensus size: 26
23416537 CATTTTCTCG
* * *
23416547 AATTTTTTCAAGGG-AAAATTGTTAT
1 AATTTTATCAAGGGTAAAATTGTCAA
*
23416572 AATTTTATCGAGGGTAAAATTGTCAA
1 AATTTTATCAAGGGTAAAATTGTCAA
23416598 AATTTT
1 AATTTT
23416604 GGTGAGAAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
25 12 0.44
26 15 0.56
ACGTcount: A:0.37, C:0.05, G:0.16, T:0.42
Consensus pattern (26 bp):
AATTTTATCAAGGGTAAAATTGTCAA
Found at i:23421225 original size:17 final size:17
Alignment explanation
Indices: 23421203--23421238 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
23421193 CCTAGACAAC
23421203 CTCCTTAACAGGCAGCT
1 CTCCTTAACAGGCAGCT
23421220 CTCCTTAACAGGCAGCT
1 CTCCTTAACAGGCAGCT
23421237 CT
1 CT
23421239 AGAAGAGCAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.22, C:0.36, G:0.17, T:0.25
Consensus pattern (17 bp):
CTCCTTAACAGGCAGCT
Found at i:23421750 original size:10 final size:10
Alignment explanation
Indices: 23421715--23421757 Score: 50
Period size: 10 Copynumber: 4.1 Consensus size: 10
23421705 AAACAATTCT
23421715 ATAACAAAAA
1 ATAACAAAAA
*
23421725 GATAACAAAAC
1 -ATAACAAAAA
*
23421736 TTAACAAAAA
1 ATAACAAAAA
23421746 ATAACAACAAA
1 ATAACAA-AAA
23421757 A
1 A
23421758 GCAAAATGCT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
10 14 0.52
11 13 0.48
ACGTcount: A:0.72, C:0.14, G:0.02, T:0.12
Consensus pattern (10 bp):
ATAACAAAAA
Found at i:23422030 original size:14 final size:14
Alignment explanation
Indices: 23422013--23422051 Score: 53
Period size: 14 Copynumber: 2.8 Consensus size: 14
23422003 ATTTTACAAG
23422013 ATATATTTTTGTTT
1 ATATATTTTTGTTT
23422027 ATATATTATTT-TTT
1 ATATATT-TTTGTTT
*
23422041 AAATATTTTTG
1 ATATATTTTTG
23422052 AACTTTTATA
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
13 3 0.14
14 16 0.73
15 3 0.14
ACGTcount: A:0.28, C:0.00, G:0.05, T:0.67
Consensus pattern (14 bp):
ATATATTTTTGTTT
Found at i:23422725 original size:5 final size:5
Alignment explanation
Indices: 23422693--23422752 Score: 81
Period size: 5 Copynumber: 12.4 Consensus size: 5
23422683 AAAAACTTTA
*
23422693 AATAT -ATAT AAT-T ATTA- AATATT AATAT AATAT AATAT AATAT AATAT
1 AATAT AATAT AATAT AATAT AATA-T AATAT AATAT AATAT AATAT AATAT
23422741 AATAT AATAT AA
1 AATAT AATAT AA
23422753 ATATTTTTAA
Statistics
Matches: 49, Mismatches: 2, Indels: 8
0.83 0.03 0.14
Matches are distributed among these distances:
4 10 0.20
5 35 0.71
6 4 0.08
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (5 bp):
AATAT
Found at i:23422991 original size:24 final size:26
Alignment explanation
Indices: 23422944--23423010 Score: 93
Period size: 24 Copynumber: 2.6 Consensus size: 26
23422934 AAAAATAAAA
23422944 ATTTACCAAAATATTATAACTTTTTTT
1 ATTTACCAAAATA-TATAACTTTTTTT
23422971 ATTTACCAAAATATAT-A-TTTTTTT
1 ATTTACCAAAATATATAACTTTTTTT
**
23422995 ATTTGTCAAAATATAT
1 ATTTACCAAAATATAT
23423011 CAAAAAAACT
Statistics
Matches: 38, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
24 21 0.55
25 1 0.03
26 3 0.08
27 13 0.34
ACGTcount: A:0.39, C:0.09, G:0.01, T:0.51
Consensus pattern (26 bp):
ATTTACCAAAATATATAACTTTTTTT
Found at i:23423166 original size:4 final size:4
Alignment explanation
Indices: 23423157--23423291 Score: 77
Period size: 4 Copynumber: 33.2 Consensus size: 4
23423147 GGGCAGAAGG
* * *
23423157 AGAA AGAA AGAA AGAA AGAA AGGAGA GGAA AGAA AG-A A-AA AGAA GGAC
1 AGAA AGAA AGAA AGAA AGAA A-GA-A AGAA AGAA AGAA AGAA AGAA AGAA
* * *
23423205 AGAAA AGGAA AG-G AGAA GAGAA AAAA AGAA CGAA AG-A AG-A AG-A AGAAA
1 AG-AA A-GAA AGAA AGAA -AGAA AGAA AGAA AGAA AGAA AGAA AGAA AG-AA
*
23423253 AGGAAA AGAGA AGAA A-AA AGAA AGAA AGAA GGAA AGAA A
1 A-G-AA AGA-A AGAA AGAA AGAA AGAA AGAA AGAA AGAA A
23423292 AGGAAAGGAG
Statistics
Matches: 104, Mismatches: 14, Indels: 26
0.72 0.10 0.18
Matches are distributed among these distances:
3 18 0.17
4 59 0.57
5 20 0.19
6 7 0.07
ACGTcount: A:0.69, C:0.01, G:0.30, T:0.00
Consensus pattern (4 bp):
AGAA
Found at i:23423203 original size:18 final size:18
Alignment explanation
Indices: 23423159--23423291 Score: 74
Period size: 18 Copynumber: 6.8 Consensus size: 18
23423149 GCAGAAGGAG
*
23423159 AAAGAAAGAAAGAAAG-A
1 AAAGAAGGAAAGAAAGAA
*
23423176 AAGGAGAGGAAAGAAAGAA
1 AAAGA-AGGAAAGAAAGAA
*
23423195 AAAGAAGGACAGAAAAGGAA
1 AAAGAAGGAAAG-AAA-GAA
* *
23423215 AGGAGAAGAGAAAAAAAGAA
1 A-AAGAAG-GAAAGAAAGAA
*
23423235 CGAAAGAAGAAGAAGAAAAGGAA
1 --AAAGAAGGA-AAG-AAA-GAA
23423258 AAGAGAA-GAAA-AAAGAAA
1 AA-AGAAGGAAAGAAAG-AA
23423276 GAAAGAAGGAAAGAAA
1 -AAAGAAGGAAAGAAA
23423292 AGGAAAGGAG
Statistics
Matches: 89, Mismatches: 11, Indels: 29
0.69 0.09 0.22
Matches are distributed among these distances:
17 5 0.06
18 25 0.28
19 14 0.16
20 13 0.15
21 18 0.20
22 11 0.12
23 3 0.03
ACGTcount: A:0.69, C:0.02, G:0.29, T:0.00
Consensus pattern (18 bp):
AAAGAAGGAAAGAAAGAA
Found at i:23423293 original size:82 final size:81
Alignment explanation
Indices: 23423185--23423355 Score: 240
Period size: 82 Copynumber: 2.1 Consensus size: 81
23423175 AAAGGAGAGG
*
23423185 AAAGAAAGAAAAAGAAGGACAGAAAAGGAAAGGAGAAGAGAAAAAAAGAACGAAAGAAGAAGA-A
1 AAAGAAAG-AAAAGAAGGAAAGAAAAGGAAAGGAGAAGAGAAAAAAA-AA-GAAA-AAGAAGAGA
*
23423249 GAA-AAGGAAAAGAGAAGAAA
62 GAAGAAGGAAAA-AAAAGAAA
*
23423269 AAAGAAAG-AAAGAAGGAAAGAAAAGGAAAGGAGAAGAGAAAAAAAAAGAAAAAGAAGAGGGAAG
1 AAAGAAAGAAAAGAAGGAAAGAAAAGGAAAGGAGAAGAGAAAAAAAAAGAAAAAGAAGAGAGAA-
23423333 GAAGGAAAAAAAAGAAA
65 GAAGGAAAAAAAAGAAA
23423350 AAAGAA
1 AAAGAA
23423356 GAAGGTAATT
Statistics
Matches: 81, Mismatches: 3, Indels: 9
0.87 0.03 0.10
Matches are distributed among these distances:
79 7 0.09
80 7 0.09
81 15 0.19
82 44 0.54
84 8 0.10
ACGTcount: A:0.70, C:0.01, G:0.29, T:0.00
Consensus pattern (81 bp):
AAAGAAAGAAAAGAAGGAAAGAAAAGGAAAGGAGAAGAGAAAAAAAAAGAAAAAGAAGAGAGAAG
AAGGAAAAAAAAGAAA
Found at i:23423300 original size:44 final size:44
Alignment explanation
Indices: 23423185--23423319 Score: 165
Period size: 44 Copynumber: 3.2 Consensus size: 44
23423175 AAAGGAGAGG
*
23423185 AAAGAAAGAAAAAGAAGGACAGAAAAGGAAAGGAGAAGAG-A-AAA
1 AAAGAAAG--AAAGAAGGAAAGAAAAGGAAAGGAGAAGAGAAGAAA
* * *
23423229 AAAGAACGAAAGAA-G-AAG--AAGAAAAGGAAAAGAGAAGAAA
1 AAAGAAAGAAAGAAGGAAAGAAAAGGAAAGGAGAAGAGAAGAAA
*
23423269 AAAGAAAGAAAGAAGGAAAGAAAAGGAAAGGAGAAGAGAAAAAA
1 AAAGAAAGAAAGAAGGAAAGAAAAGGAAAGGAGAAGAGAAGAAA
23423313 AAAGAAA
1 AAAGAAA
23423320 AAGAAGAGGG
Statistics
Matches: 77, Mismatches: 8, Indels: 12
0.79 0.08 0.12
Matches are distributed among these distances:
38 14 0.18
39 1 0.01
40 18 0.23
41 2 0.03
42 9 0.12
44 33 0.43
ACGTcount: A:0.70, C:0.01, G:0.28, T:0.00
Consensus pattern (44 bp):
AAAGAAAGAAAGAAGGAAAGAAAAGGAAAGGAGAAGAGAAGAAA
Found at i:23423323 original size:34 final size:33
Alignment explanation
Indices: 23423241--23423360 Score: 102
Period size: 39 Copynumber: 3.5 Consensus size: 33
23423231 AGAACGAAAG
* *
23423241 AAGAAGAAGAAAAGGAAAAGAGAAGAAAAAAGAAAGA
1 AAGAAAAAGAAAAGG-AAAGAGAAG-AGAAA-AAA-A
23423278 AAGAAGGAAAGAAAAGGAAAGGAGAAGAGAAAAAAA
1 AAGAA--AAAGAAAAGGAAA-GAGAAGAGAAAAAAA
* *
23423314 AAGAAAAAGAAGAGGGAAG-GAAG-G-AAAAAA
1 AAGAAAAAGAAAAGGAAAGAGAAGAGAAAAAAA
23423344 AAGAAAAAAGAAGAAGG
1 AAG-AAAAAGAA-AAGG
23423361 TAATTTTATT
Statistics
Matches: 73, Mismatches: 5, Indels: 15
0.78 0.05 0.16
Matches are distributed among these distances:
30 9 0.12
31 9 0.12
32 7 0.10
33 1 0.01
34 11 0.15
36 6 0.08
37 8 0.11
38 7 0.10
39 15 0.21
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (33 bp):
AAGAAAAAGAAAAGGAAAGAGAAGAGAAAAAAA
Found at i:23423355 original size:110 final size:112
Alignment explanation
Indices: 23423157--23423359 Score: 249
Period size: 110 Copynumber: 1.8 Consensus size: 112
23423147 GGGCAGAAGG
* *
23423157 AGAAAGAAAGAAAGAAAGAAAGGAGAGGAAAGAAAGAAAAAGAAGGACAGAAAAGGAAAGGAGAA
1 AGAAAGAAAGAAAGAAAGAAAGGAAAGGAAAG-AAGAAAAAGAA-GACAGAAAAAGAAAGGAGAA
* *
23423222 GAGAAAAAAAGAACGAAAGAAGAAGAAGAAAAGGAAAAGAGAAGAAAAA
64 GAGAAAAAAAGAAAGAAAAAAGAAGAAGAAAAGGAAAAGAGAAGAAAAA
*
23423271 AGAAAGAAAGAAGGAAAGAAAAGGAAAGGAGAAG-AGAAAAA-AA-A-AGAAAAAGAAGAGG-GA
1 AGAAAGAAAGAAAGAAAG-AAAGGAAAGGA-AAGAAGAAAAAGAAGACAGAAAAAGAA-AGGAGA
23423331 AG-GAAGGAAAAA-AAAGAAAAAAGAAGAAG
63 AGAGAA--AAAAAGAAAGAAAAAAGAAGAAG
23423360 GTAATTTTAT
Statistics
Matches: 79, Mismatches: 5, Indels: 14
0.81 0.05 0.14
Matches are distributed among these distances:
109 3 0.04
110 28 0.35
111 9 0.11
113 2 0.03
114 24 0.30
115 10 0.13
116 3 0.04
ACGTcount: A:0.69, C:0.01, G:0.30, T:0.00
Consensus pattern (112 bp):
AGAAAGAAAGAAAGAAAGAAAGGAAAGGAAAGAAGAAAAAGAAGACAGAAAAAGAAAGGAGAAGA
GAAAAAAAGAAAGAAAAAAGAAGAAGAAAAGGAAAAGAGAAGAAAAA
Found at i:23427289 original size:27 final size:22
Alignment explanation
Indices: 23427224--23427267 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
23427214 TTTGGTTTTT
*
23427224 TATACATTTTAGTAAATAAAAA
1 TATATATTTTAGTAAATAAAAA
*
23427246 TATATATATTAGTAAATAAAAA
1 TATATATTTTAGTAAATAAAAA
23427268 AAGTTATAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.57, C:0.02, G:0.05, T:0.36
Consensus pattern (22 bp):
TATATATTTTAGTAAATAAAAA
Found at i:23434294 original size:331 final size:331
Alignment explanation
Indices: 23433689--23434352 Score: 1319
Period size: 331 Copynumber: 2.0 Consensus size: 331
23433679 CTACAGACTG
23433689 CAGAAAATGTGATCGTATCCTTCCCATGAAGCAATGTGGTGGTAAGATGATCATATTCATCAGGA
1 CAGAAAATGTGATCGTATCCTTCCCATGAAGCAATGTGGTGGTAAGATGATCATATTCATCAGGA
23433754 AGAGAATTCAACAACAATAATGCATTGTCTTCATCTTCAAATTTCTCATCCAAATTTAGCAAGTT
66 AGAGAATTCAACAACAATAATGCATTGTCTTCATCTTCAAATTTCTCATCCAAATTTAGCAAGTT
23433819 TGCTAAAATTTTATTGAATTAGTTCACATGGTCATTTATCGACATACCAGGTGCATACGTGAATC
131 TGCTAAAATTTTATTGAATTAGTTCACATGGTCATTTATCGACATACCAGGTGCATACGTGAATC
23433884 GATAAAGTTTTTTTTTCATATAAAGCCTATTTTCAAGACTTTTTGTTAGAAACTTTTCTTCCACA
196 GATAAAGTTTTTTTTTCATATAAAGCCTATTTTCAAGACTTTTTGTTAGAAACTTTTCTTCCACA
*
23433949 ACTTTTTCGCTTATGTCTCCCTCATGACAGAGTACTTCTGCTCTTTGGCCAAACATAGGCGGATT
261 ACTTTTTAGCTTATGTCTCCCTCATGACAGAGTACTTCTGCTCTTTGGCCAAACATAGGCGGATT
23434014 GTACCA
326 GTACCA
23434020 CAGAAAATGTGATCGTATCCTTCCCATGAAGCAATGTGGTGGTAAGATGATCATATTCATCAGGA
1 CAGAAAATGTGATCGTATCCTTCCCATGAAGCAATGTGGTGGTAAGATGATCATATTCATCAGGA
23434085 AGAGAATTCAACAACAATAATGCATTGTCTTCATCTTCAAATTTCTCATCCAAATTTAGCAAGTT
66 AGAGAATTCAACAACAATAATGCATTGTCTTCATCTTCAAATTTCTCATCCAAATTTAGCAAGTT
23434150 TGCTAAAATTTTATTGAATTAGTTCACATGGTCATTTATCGACATACCAGGTGCATACGTGAATC
131 TGCTAAAATTTTATTGAATTAGTTCACATGGTCATTTATCGACATACCAGGTGCATACGTGAATC
23434215 GATAAAGTTTTTTTTTCATATAAAGCCTATTTTCAAGACTTTTTGTTAGAAACTTTTCTTCCACA
196 GATAAAGTTTTTTTTTCATATAAAGCCTATTTTCAAGACTTTTTGTTAGAAACTTTTCTTCCACA
23434280 ACTTTTTAGCTTATGTCTCCCTCATGACAGAGTACTTCTGCTCTTTGGCCAAACATAGGCGGATT
261 ACTTTTTAGCTTATGTCTCCCTCATGACAGAGTACTTCTGCTCTTTGGCCAAACATAGGCGGATT
23434345 GTACCA
326 GTACCA
23434351 CA
1 CA
23434353 CGCATGTCTA
Statistics
Matches: 332, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
331 332 1.00
ACGTcount: A:0.30, C:0.19, G:0.15, T:0.35
Consensus pattern (331 bp):
CAGAAAATGTGATCGTATCCTTCCCATGAAGCAATGTGGTGGTAAGATGATCATATTCATCAGGA
AGAGAATTCAACAACAATAATGCATTGTCTTCATCTTCAAATTTCTCATCCAAATTTAGCAAGTT
TGCTAAAATTTTATTGAATTAGTTCACATGGTCATTTATCGACATACCAGGTGCATACGTGAATC
GATAAAGTTTTTTTTTCATATAAAGCCTATTTTCAAGACTTTTTGTTAGAAACTTTTCTTCCACA
ACTTTTTAGCTTATGTCTCCCTCATGACAGAGTACTTCTGCTCTTTGGCCAAACATAGGCGGATT
GTACCA
Found at i:23450549 original size:31 final size:31
Alignment explanation
Indices: 23450514--23450581 Score: 104
Period size: 31 Copynumber: 2.2 Consensus size: 31
23450504 TACACTGGTA
23450514 GTCACCCAACTATT-AGTAAA-TTTCATTTTTG
1 GTCACCCAACTATTCA--AAATTTTCATTTTTG
23450545 GTCACCCAACTATTCAAAATTTTCATTTTTG
1 GTCACCCAACTATTCAAAATTTTCATTTTTG
23450576 GTCACC
1 GTCACC
23450582 AACCGTTCAA
Statistics
Matches: 35, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
30 3 0.09
31 31 0.89
32 1 0.03
ACGTcount: A:0.28, C:0.24, G:0.09, T:0.40
Consensus pattern (31 bp):
GTCACCCAACTATTCAAAATTTTCATTTTTG
Found at i:23450591 original size:30 final size:31
Alignment explanation
Indices: 23450534--23450591 Score: 91
Period size: 31 Copynumber: 1.9 Consensus size: 31
23450524 TATTAGTAAA
*
23450534 TTTCATTTTTGGTCACCCAACTATTCAAAAT
1 TTTCATTTTTGGTCACCCAACCATTCAAAAT
*
23450565 TTTCATTTTTGGTCA-CCAACCGTTCAA
1 TTTCATTTTTGGTCACCCAACCATTCAA
23450592 GTACTGATGG
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
30 10 0.40
31 15 0.60
ACGTcount: A:0.26, C:0.24, G:0.09, T:0.41
Consensus pattern (31 bp):
TTTCATTTTTGGTCACCCAACCATTCAAAAT
Found at i:23459529 original size:11 final size:11
Alignment explanation
Indices: 23459513--23459551 Score: 53
Period size: 11 Copynumber: 3.6 Consensus size: 11
23459503 TAATATTGAA
23459513 TTTTTATATAT
1 TTTTTATATAT
*
23459524 TTTTTA-AAAT
1 TTTTTATATAT
*
23459534 TTTTCATATAT
1 TTTTTATATAT
23459545 TTTTTAT
1 TTTTTAT
23459552 TTTTAGAAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
10 8 0.35
11 15 0.65
ACGTcount: A:0.28, C:0.03, G:0.00, T:0.69
Consensus pattern (11 bp):
TTTTTATATAT
Found at i:23459542 original size:21 final size:20
Alignment explanation
Indices: 23459511--23459550 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 20
23459501 AATAATATTG
23459511 AATTTTTATATATTTTTTAA
1 AATTTTTATATATTTTTTAA
23459531 AATTTTTCATATATTTTTTA
1 AATTTTT-ATATATTTTTTA
23459551 TTTTTAGAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 7 0.37
21 12 0.63
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.65
Consensus pattern (20 bp):
AATTTTTATATATTTTTTAA
Found at i:23460033 original size:23 final size:23
Alignment explanation
Indices: 23460002--23460080 Score: 92
Period size: 23 Copynumber: 3.4 Consensus size: 23
23459992 AACTTTGGAG
23460002 TTTTT-TTTTATATTTTTAAGTT
1 TTTTTATTTTATATTTTTAAGTT
*
23460024 TTTTTATTTTGA-ATTTTAAAGATT
1 TTTTTATTTT-ATATTTTTAAG-TT
*
23460048 TTTTTATTTT-TATTTTTATGTAT
1 TTTTTATTTTATATTTTTAAGT-T
23460071 TTTTTATTTT
1 TTTTTATTTT
23460081 TAAAAATATA
Statistics
Matches: 49, Mismatches: 3, Indels: 9
0.80 0.05 0.15
Matches are distributed among these distances:
22 6 0.12
23 30 0.61
24 13 0.27
ACGTcount: A:0.20, C:0.00, G:0.05, T:0.75
Consensus pattern (23 bp):
TTTTTATTTTATATTTTTAAGTT
Found at i:23460097 original size:23 final size:22
Alignment explanation
Indices: 23460071--23460129 Score: 73
Period size: 23 Copynumber: 2.5 Consensus size: 22
23460061 TTTTATGTAT
23460071 TTTTTATTTTTAAAAATATAAAA
1 TTTTTATTTTTAAAAATAT-AAA
* *
23460094 TTTTGATTTTTTTAAAATATAAA
1 TTTTTA-TTTTTAAAAATATAAA
23460117 TTTTTATGTTTTA
1 TTTTTAT-TTTTA
23460130 TTTAAAAAAG
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
22 1 0.03
23 17 0.57
24 12 0.40
ACGTcount: A:0.37, C:0.00, G:0.03, T:0.59
Consensus pattern (22 bp):
TTTTTATTTTTAAAAATATAAA
Found at i:23460365 original size:18 final size:18
Alignment explanation
Indices: 23460326--23460365 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
23460316 CTTTTATAAT
* *
23460326 TTTTTAATATTTTTTTTA
1 TTTTTAATAATTTATTTA
*
23460344 TTTTTAATAATTTATTTG
1 TTTTTAATAATTTATTTA
23460362 TTTT
1 TTTT
23460366 GAACCGGTTA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.23, C:0.00, G:0.03, T:0.75
Consensus pattern (18 bp):
TTTTTAATAATTTATTTA
Found at i:23460622 original size:17 final size:16
Alignment explanation
Indices: 23460575--23460629 Score: 51
Period size: 17 Copynumber: 3.4 Consensus size: 16
23460565 AGTTTTTGGA
*
23460575 AATTTTTATTTTTTTT
1 AATTTTTATGTTTTTT
*
23460591 AA-TTTTAGAGTTTTTTT
1 AATTTTTA-TG-TTTTTT
23460608 AATTTTTCATGTTTTTT
1 AATTTTT-ATGTTTTTT
23460625 -ATTTT
1 AATTTT
23460630 ATTTAAAAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 8
0.74 0.07 0.19
Matches are distributed among these distances:
15 5 0.16
16 7 0.22
17 14 0.44
18 5 0.16
19 1 0.03
ACGTcount: A:0.20, C:0.02, G:0.05, T:0.73
Consensus pattern (16 bp):
AATTTTTATGTTTTTT
Found at i:23460684 original size:25 final size:26
Alignment explanation
Indices: 23460619--23460685 Score: 84
Period size: 25 Copynumber: 2.6 Consensus size: 26
23460609 ATTTTTCATG
*
23460619 TTTTTTATTTTATTTAAAAAATTATAA
1 TTTTTTATATT-TTTAAAAAATTATAA
23460646 TTTTTTGA-ATTTTTAAAAAA-TATAA
1 TTTTTT-ATATTTTTAAAAAATTATAA
*
23460671 TTTTTTATGTTTTTA
1 TTTTTTATATTTTTA
23460686 TTTAAAATAT
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
24 1 0.03
25 17 0.47
26 9 0.25
27 8 0.22
28 1 0.03
ACGTcount: A:0.36, C:0.00, G:0.03, T:0.61
Consensus pattern (26 bp):
TTTTTTATATTTTTAAAAAATTATAA
Found at i:23460684 original size:26 final size:27
Alignment explanation
Indices: 23460619--23460684 Score: 77
Period size: 26 Copynumber: 2.5 Consensus size: 27
23460609 ATTTTTCATG
23460619 TTTTTTAT-TTTATTTAAAAAATTATAA
1 TTTTTTATGTTT-TTTAAAAAATTATAA
*
23460646 -TTTTT-TGAATTTTTAAAAAA-TATAA
1 TTTTTTATG-TTTTTTAAAAAATTATAA
23460671 TTTTTTATGTTTTT
1 TTTTTTATGTTTTT
23460685 ATTTAAAATA
Statistics
Matches: 33, Mismatches: 2, Indels: 9
0.75 0.05 0.20
Matches are distributed among these distances:
25 6 0.18
26 23 0.70
27 4 0.12
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.62
Consensus pattern (27 bp):
TTTTTTATGTTTTTTAAAAAATTATAA
Found at i:23461730 original size:15 final size:15
Alignment explanation
Indices: 23461671--23461730 Score: 57
Period size: 15 Copynumber: 3.8 Consensus size: 15
23461661 TACTTTTTTC
23461671 TCCAAAACCCTAAAAA
1 TCCAAAACCCT-AAAA
*
23461687 TCCTAAAATTCCTAAAA
1 TCC-AAAA-CCCTAAAA
**
23461704 TCTTAAACCCTAAAA
1 TCCAAAACCCTAAAA
*
23461719 TCCAAAAACCTA
1 TCCAAAACCCTA
23461731 CAAGTCAGGA
Statistics
Matches: 35, Mismatches: 7, Indels: 5
0.74 0.15 0.11
Matches are distributed among these distances:
15 16 0.46
16 6 0.17
17 10 0.29
18 3 0.09
ACGTcount: A:0.50, C:0.28, G:0.00, T:0.22
Consensus pattern (15 bp):
TCCAAAACCCTAAAA
Found at i:23465733 original size:35 final size:35
Alignment explanation
Indices: 23465682--23465752 Score: 124
Period size: 35 Copynumber: 2.0 Consensus size: 35
23465672 CATTAGTTTC
*
23465682 TAGGCATAATGTCAAAATTAGTCTTAATTTTCGGT
1 TAGGCATAATGTCAAAATTAGTCTTAAATTTCGGT
*
23465717 TAGGTATAATGTCAAAATTAGTCTTAAATTTCGGT
1 TAGGCATAATGTCAAAATTAGTCTTAAATTTCGGT
23465752 T
1 T
23465753 GTTTGGTCAC
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.32, C:0.10, G:0.17, T:0.41
Consensus pattern (35 bp):
TAGGCATAATGTCAAAATTAGTCTTAAATTTCGGT
Found at i:23468671 original size:13 final size:13
Alignment explanation
Indices: 23468653--23468677 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
23468643 AAATTCAATG
23468653 TCAATTTCATATA
1 TCAATTTCATATA
23468666 TCAATTTCATAT
1 TCAATTTCATAT
23468678 CCAAACAGAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.00, T:0.48
Consensus pattern (13 bp):
TCAATTTCATATA
Found at i:23471753 original size:21 final size:21
Alignment explanation
Indices: 23471724--23471778 Score: 76
Period size: 21 Copynumber: 2.6 Consensus size: 21
23471714 AACAGCGGTG
*
23471724 GCAGTGAGATTAGTTACTGTA
1 GCAGTGAGATTAGGTACTGTA
*
23471745 GC-GATGAGATTGGGTACTGTA
1 GCAG-TGAGATTAGGTACTGTA
23471766 GCAGTGAGATTAG
1 GCAGTGAGATTAG
23471779 CGGTGGAGTG
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
20 1 0.03
21 27 0.93
22 1 0.03
ACGTcount: A:0.27, C:0.09, G:0.35, T:0.29
Consensus pattern (21 bp):
GCAGTGAGATTAGGTACTGTA
Found at i:23472457 original size:11 final size:12
Alignment explanation
Indices: 23472428--23472460 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
23472418 TTCAGCTAGG
*
23472428 ATGCTGGTCTGC
1 ATGCTGGTTTGC
23472440 ATGCTGGTTTGC
1 ATGCTGGTTTGC
23472452 -TGCTGGTTT
1 ATGCTGGTTT
23472461 CCTGTTACAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
11 9 0.45
12 11 0.55
ACGTcount: A:0.06, C:0.18, G:0.33, T:0.42
Consensus pattern (12 bp):
ATGCTGGTTTGC
Found at i:23472990 original size:11 final size:12
Alignment explanation
Indices: 23472961--23472993 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
23472951 TTCAGCTAGG
*
23472961 ATGCTGGTCTGC
1 ATGCTGGTTTGC
23472973 ATGCTGGTTTGC
1 ATGCTGGTTTGC
23472985 -TGCTGGTTT
1 ATGCTGGTTT
23472994 CCTGTTACAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
11 9 0.45
12 11 0.55
ACGTcount: A:0.06, C:0.18, G:0.33, T:0.42
Consensus pattern (12 bp):
ATGCTGGTTTGC
Found at i:23473267 original size:533 final size:533
Alignment explanation
Indices: 23472261--23473328 Score: 2127
Period size: 533 Copynumber: 2.0 Consensus size: 533
23472251 CTGCTCCCAA
23472261 ACCCTAGATAGAATTACAAATAAAATGTAGCTGGCATACCAGCTATAACATCAAACATAAATCAA
1 ACCCTAGATAGAATTACAAATAAAATGTAGCTGGCATACCAGCTATAACATCAAACATAAATCAA
23472326 CAACTACTTCTATTAACTTTAAGTATAAATTACATTGCAACTAAATCAAGTTACAAATGAACAAA
66 CAACTACTTCTATTAACTTTAAGTATAAATTACATTGCAACTAAATCAAGTTACAAATGAACAAA
23472391 ATAAACAAAATGCTGCTGCTTATCTGGTTCAGCTAGGATGCTGGTCTGCATGCTGGTTTGCTGCT
131 ATAAACAAAATGCTGCTGCTTATCTGGTTCAGCTAGGATGCTGGTCTGCATGCTGGTTTGCTGCT
23472456 GGTTTCCTGTTACAACAAATTAAGTAATGCATCAAATTAATGTTGGTATTCAAGCAACAAATTAA
196 GGTTTCCTGTTACAACAAATTAAGTAATGCATCAAATTAATGTTGGTATTCAAGCAACAAATTAA
23472521 GTAATGCATCAAAGTATCATTACACCATAGCTACTTAAATATATGAAGAATACTCTCAACTTCCT
261 GTAATGCATCAAAGTATCATTACACCATAGCTACTTAAATATATGAAGAATACTCTCAACTTCCT
23472586 AGTCTTGAAAGCTGAGAAGATAGCAATAGAGATGCCATGAACACTTCCAAATCATAATTATGCAT
326 AGTCTTGAAAGCTGAGAAGATAGCAATAGAGATGCCATGAACACTTCCAAATCATAATTATGCAT
23472651 TATAAAGTCTTAGCAACTAGCATGCATCATATACAGGCTAATGTCATTGATATGTAAGTAGCAGA
391 TATAAAGTCTTAGCAACTAGCATGCATCATATACAGGCTAATGTCATTGATATGTAAGTAGCAGA
23472716 TTTATATCAAACCATTGAAAACACAAGCGTGATAGCAAAAATGGAGTCCTTGCTGAAAGTAACTT
456 TTTATATCAAACCATTGAAAACACAAGCGTGATAGCAAAAATGGAGTCCTTGCTGAAAGTAACTT
23472781 CCAGACTACAGAT
521 CCAGACTACAGAT
23472794 ACCCTAGATAGAATTACAAATAAAATGTAGCTGGCATACCAGCTATAACATCAAACATAAATCAA
1 ACCCTAGATAGAATTACAAATAAAATGTAGCTGGCATACCAGCTATAACATCAAACATAAATCAA
23472859 CAACTACTTCTATTAACTTTAAGTATAAATTACATTGCAACTAAATCAAGTTACAAATGAACAAA
66 CAACTACTTCTATTAACTTTAAGTATAAATTACATTGCAACTAAATCAAGTTACAAATGAACAAA
23472924 ATAAACAAAATGCTGCTGCTTATCTGGTTCAGCTAGGATGCTGGTCTGCATGCTGGTTTGCTGCT
131 ATAAACAAAATGCTGCTGCTTATCTGGTTCAGCTAGGATGCTGGTCTGCATGCTGGTTTGCTGCT
23472989 GGTTTCCTGTTACAACAAATTAAGTAATGCATCAAATTAATGTTGGTATTCAAGCAACAAATTAA
196 GGTTTCCTGTTACAACAAATTAAGTAATGCATCAAATTAATGTTGGTATTCAAGCAACAAATTAA
23473054 GTAATGCATCAAAGTATCATTACACCATAGCTACTTAAATATATGAAGAATACTCTCAACTTCCT
261 GTAATGCATCAAAGTATCATTACACCATAGCTACTTAAATATATGAAGAATACTCTCAACTTCCT
23473119 AGTCTTGAAAGCTGAGAAGATAGCAATAGAGATGCCATGAACACTTCCAAATCATAATTATGCAT
326 AGTCTTGAAAGCTGAGAAGATAGCAATAGAGATGCCATGAACACTTCCAAATCATAATTATGCAT
*
23473184 TATAAAGTCTTAGCAACTAGCATGCATCATATATAGGCTAATGTCATTGATATGTAAGTAGCAGA
391 TATAAAGTCTTAGCAACTAGCATGCATCATATACAGGCTAATGTCATTGATATGTAAGTAGCAGA
23473249 TTTATATCAAACCATTGAAAACACAAGCGTGATAGCAAAAATGGAGTCCTTGCTGAAAGTAACTT
456 TTTATATCAAACCATTGAAAACACAAGCGTGATAGCAAAAATGGAGTCCTTGCTGAAAGTAACTT
23473314 CCAGACTACAGAT
521 CCAGACTACAGAT
23473327 AC
1 AC
23473329 AACTGCAATT
Statistics
Matches: 534, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
533 534 1.00
ACGTcount: A:0.39, C:0.18, G:0.15, T:0.28
Consensus pattern (533 bp):
ACCCTAGATAGAATTACAAATAAAATGTAGCTGGCATACCAGCTATAACATCAAACATAAATCAA
CAACTACTTCTATTAACTTTAAGTATAAATTACATTGCAACTAAATCAAGTTACAAATGAACAAA
ATAAACAAAATGCTGCTGCTTATCTGGTTCAGCTAGGATGCTGGTCTGCATGCTGGTTTGCTGCT
GGTTTCCTGTTACAACAAATTAAGTAATGCATCAAATTAATGTTGGTATTCAAGCAACAAATTAA
GTAATGCATCAAAGTATCATTACACCATAGCTACTTAAATATATGAAGAATACTCTCAACTTCCT
AGTCTTGAAAGCTGAGAAGATAGCAATAGAGATGCCATGAACACTTCCAAATCATAATTATGCAT
TATAAAGTCTTAGCAACTAGCATGCATCATATACAGGCTAATGTCATTGATATGTAAGTAGCAGA
TTTATATCAAACCATTGAAAACACAAGCGTGATAGCAAAAATGGAGTCCTTGCTGAAAGTAACTT
CCAGACTACAGAT
Found at i:23480373 original size:63 final size:63
Alignment explanation
Indices: 23480254--23480374 Score: 165
Period size: 63 Copynumber: 1.9 Consensus size: 63
23480244 CCCGTGTCTA
* * * *
23480254 TGGCTCGTGTGACACTAATTCACAAACAGTGAGTTACATGGCATGGACACGCGCCTATGTCCC
1 TGGCCCGTGTGACACTAATTCACAAACAATGAATTACATGGCATGCACACGCGCCTATGTCCC
*
23480317 TGGCCCGTGTGA-ACCTAATTCACAAACAATGAATTACATGGCCTGTCACACG-GCCTAT
1 TGGCCCGTGTGACA-CTAATTCACAAACAATGAATTACATGGCATG-CACACGCGCCTAT
23480375 CACACGGCCT
Statistics
Matches: 51, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
62 1 0.02
63 45 0.88
64 5 0.10
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.24
Consensus pattern (63 bp):
TGGCCCGTGTGACACTAATTCACAAACAATGAATTACATGGCATGCACACGCGCCTATGTCCC
Done.