Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A07
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: 93829987
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4250000 characters in sequence are not A, C, G, or T
File 79 of 295
Found at i:22964552 original size:48 final size:50
Alignment explanation
Indices: 22964495--22964591 Score: 155
Period size: 51 Copynumber: 2.0 Consensus size: 50
22964485 GTTTTGTAAG
22964495 ATTGGTTTTGGGTACGGC-T-TT-TTCTTCTTCTTATTCTTTTCCCTGAA
1 ATTGGTTTTGGGTACGGCTTCTTCTTCTTCTTCTTATTCTTTTCCCTGAA
*
22964542 ATTGGTTTTTGGGTACGGCTTCTTCTTCTTCTTCTTCTTCTTTTCCCTGA
1 ATTGG-TTTTGGGTACGGCTTCTTCTTCTTCTTCTTATTCTTTTCCCTGA
22964592 CTGATCTGAA
Statistics
Matches: 45, Mismatches: 1, Indels: 4
0.90 0.02 0.08
Matches are distributed among these distances:
47 5 0.11
48 13 0.29
49 1 0.02
50 2 0.04
51 24 0.53
ACGTcount: A:0.08, C:0.22, G:0.16, T:0.54
Consensus pattern (50 bp):
ATTGGTTTTGGGTACGGCTTCTTCTTCTTCTTCTTATTCTTTTCCCTGAA
Found at i:22965319 original size:18 final size:18
Alignment explanation
Indices: 22965274--22965337 Score: 78
Period size: 18 Copynumber: 3.6 Consensus size: 18
22965264 ATGAAATAAG
22965274 TTATATGTTGTTGTTC-T
1 TTATATGTTGTTGTTCAT
*
22965291 TTAGGGA-GTTGTTGTTCAT
1 TTA--TATGTTGTTGTTCAT
22965310 TTATATGTTGTTGTTCAT
1 TTATATGTTGTTGTTCAT
*
22965328 TTATAAGTTG
1 TTATATGTTG
22965338 AAGTTTCAAT
Statistics
Matches: 40, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
17 4 0.10
18 31 0.77
19 5 0.12
ACGTcount: A:0.17, C:0.05, G:0.22, T:0.56
Consensus pattern (18 bp):
TTATATGTTGTTGTTCAT
Found at i:22967346 original size:14 final size:14
Alignment explanation
Indices: 22967327--22967382 Score: 76
Period size: 14 Copynumber: 4.0 Consensus size: 14
22967317 GAAAAGTAAG
*
22967327 TCATTTTTCAGAAA
1 TCATTTTCCAGAAA
22967341 TCATTTTCCAGAAA
1 TCATTTTCCAGAAA
*
22967355 TCATTTTCCAAAAA
1 TCATTTTCCAGAAA
* *
22967369 TTATTTTCCGGAAA
1 TCATTTTCCAGAAA
22967383 ATATTTTACT
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 37 1.00
ACGTcount: A:0.36, C:0.18, G:0.07, T:0.39
Consensus pattern (14 bp):
TCATTTTCCAGAAA
Found at i:22967387 original size:14 final size:14
Alignment explanation
Indices: 22967338--22967389 Score: 54
Period size: 14 Copynumber: 3.7 Consensus size: 14
22967328 CATTTTTCAG
22967338 AAATCATTTTCC-A
1 AAATCATTTTCCGA
*
22967351 GAAATCATTTTCCAA
1 -AAATCATTTTCCGA
*
22967366 AAATTATTTTCCGGA
1 AAATCATTTTCC-GA
22967381 AAAT-ATTTT
1 AAATCATTTT
22967390 ACTTGCAAAC
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
14 28 0.82
15 6 0.18
ACGTcount: A:0.38, C:0.15, G:0.06, T:0.40
Consensus pattern (14 bp):
AAATCATTTTCCGA
Found at i:22970927 original size:25 final size:25
Alignment explanation
Indices: 22970893--22970942 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
22970883 AGCAGACTGC
22970893 AACTCCCCATATTAGCTTTTTCATT
1 AACTCCCCATATTAGCTTTTTCATT
22970918 AACTCCCCATATTAGCTTTTTCATT
1 AACTCCCCATATTAGCTTTTTCATT
22970943 TTGGCAAATC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.24, C:0.28, G:0.04, T:0.44
Consensus pattern (25 bp):
AACTCCCCATATTAGCTTTTTCATT
Found at i:22974390 original size:4 final size:4
Alignment explanation
Indices: 22974381--22974461 Score: 72
Period size: 4 Copynumber: 19.8 Consensus size: 4
22974371 AGTAAGTTAA
* *** * *
22974381 AAAG AAAG AAAG AAAG AAAG AAAG ATAG AAAG AGTT ACAG AGAG CAAACG
1 AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAAG -AAA-G
**
22974431 TGAG AAAG AAAG AAAG AAAG AAAG AAAG AAA
1 AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAA
22974462 TAGAAAAGGG
Statistics
Matches: 61, Mismatches: 14, Indels: 4
0.77 0.18 0.05
Matches are distributed among these distances:
4 57 0.93
5 3 0.05
6 1 0.02
ACGTcount: A:0.65, C:0.04, G:0.26, T:0.05
Consensus pattern (4 bp):
AAAG
Found at i:22980182 original size:26 final size:25
Alignment explanation
Indices: 22980153--22980255 Score: 82
Period size: 26 Copynumber: 3.9 Consensus size: 25
22980143 AATATCGCGA
*
22980153 ACTCATGCTGGTAACAGTCTTTGCAG
1 ACTCATGCTGG-AACAGTCCTTGCAG
* *
22980179 ACTC-TGATTGAATACTAGTCCTTGCAG
1 ACTCATG-CTGGA-AC-AGTCCTTGCAG
* *
22980206 ACTCATACATGGAATAGTCCTTGCAG
1 ACTCATGC-TGGAACAGTCCTTGCAG
* *
22980232 ACTCATACATGGAATAGTCCTTGC
1 ACTCATGC-TGGAACAGTCCTTGC
22980256 GAACCCATAC
Statistics
Matches: 65, Mismatches: 7, Indels: 10
0.79 0.09 0.12
Matches are distributed among these distances:
25 3 0.05
26 43 0.66
27 15 0.23
28 4 0.06
ACGTcount: A:0.27, C:0.23, G:0.19, T:0.30
Consensus pattern (25 bp):
ACTCATGCTGGAACAGTCCTTGCAG
Found at i:22980264 original size:26 final size:26
Alignment explanation
Indices: 22980194--22980286 Score: 134
Period size: 26 Copynumber: 3.6 Consensus size: 26
22980184 GATTGAATAC
22980194 TAGTCCTTGCAGACTCATACATGGAA
1 TAGTCCTTGCAGACTCATACATGGAA
22980220 TAGTCCTTGCAGACTCATACATGGAA
1 TAGTCCTTGCAGACTCATACATGGAA
* *
22980246 TAGTCCTTGC-GAACCCATACATGGAT
1 TAGTCCTTGCAG-ACTCATACATGGAA
* *
22980272 TAATCCTTGCGGACT
1 TAGTCCTTGCAGACT
22980287 ATTACTTAAA
Statistics
Matches: 61, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
25 1 0.02
26 59 0.97
27 1 0.02
ACGTcount: A:0.28, C:0.25, G:0.19, T:0.28
Consensus pattern (26 bp):
TAGTCCTTGCAGACTCATACATGGAA
Found at i:22983651 original size:40 final size:40
Alignment explanation
Indices: 22983600--22983725 Score: 164
Period size: 41 Copynumber: 3.1 Consensus size: 40
22983590 AAAAATTATA
* * *
22983600 AAAAACTGAGCAATAGCGGCG-TTTTAGCAAAAACGCCGCT
1 AAAAACAGAGCATTAGCGGCGCTTTT-GGAAAAACGCCGCT
* *
22983640 AAAAACAGAGCATTAGCGGCGCTTTTGGTAAAATGCCGCT
1 AAAAACAGAGCATTAGCGGCGCTTTTGGAAAAACGCCGCT
* *
22983680 AAAGACTAGAGCATTAGCAGCGCTTTTGGAAAAACGCCGCT
1 AAAAAC-AGAGCATTAGCGGCGCTTTTGGAAAAACGCCGCT
22983721 AAAAA
1 AAAAA
22983726 TCATATAACT
Statistics
Matches: 74, Mismatches: 10, Indels: 3
0.85 0.11 0.03
Matches are distributed among these distances:
40 35 0.47
41 39 0.53
ACGTcount: A:0.37, C:0.21, G:0.23, T:0.19
Consensus pattern (40 bp):
AAAAACAGAGCATTAGCGGCGCTTTTGGAAAAACGCCGCT
Found at i:22989396 original size:43 final size:43
Alignment explanation
Indices: 22989340--22989575 Score: 289
Period size: 43 Copynumber: 5.5 Consensus size: 43
22989330 TTTTTGAATT
* *
22989340 TCATGA-CTTTTAGCGGCGTTTTTGAAAAAAGCGCCGCTAAAGG
1 TCATGATC-TTTAGCGGCGTTTGTGGAAAAAGCGCCGCTAAAGG
* * * *
22989383 TCTTGATCTTTAGCGGCGTTTGTGGGAAAAGCGCCACTAGAGG
1 TCATGATCTTTAGCGGCGTTTGTGGAAAAAGCGCCGCTAAAGG
* * * *
22989426 TCATGAT-TGTTAGCGGCATTTGT-AAGAAAAGTGTCGCTAAAGG
1 TCATGATCT-TTAGCGGCGTTTGTGGA-AAAAGCGCCGCTAAAGG
*
22989469 TCATGATCTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGG
1 TCATGATCTTTAGCGGCGTTTGTGGAAAAAGCGCCGCTAAAGG
* * *
22989512 TTATGATCTTTAGCGGCATTTGTGGAAAAAGCGCCGCTAATGG
1 TCATGATCTTTAGCGGCGTTTGTGGAAAAAGCGCCGCTAAAGG
*
22989555 TAATGATCTTTAGCGGCGTTT
1 TCATGATCTTTAGCGGCGTTT
22989576 TTTCAAATAA
Statistics
Matches: 163, Mismatches: 25, Indels: 10
0.82 0.13 0.05
Matches are distributed among these distances:
42 1 0.01
43 160 0.98
44 2 0.01
ACGTcount: A:0.25, C:0.17, G:0.29, T:0.30
Consensus pattern (43 bp):
TCATGATCTTTAGCGGCGTTTGTGGAAAAAGCGCCGCTAAAGG
Found at i:22992670 original size:11 final size:11
Alignment explanation
Indices: 22992654--22992684 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
22992644 AAGTATGGGT
22992654 AGGTATGGGAA
1 AGGTATGGGAA
*
22992665 AGGTATGGGCA
1 AGGTATGGGAA
22992676 AGGTATGGG
1 AGGTATGGG
22992685 GTATATTCTA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.29, C:0.03, G:0.48, T:0.19
Consensus pattern (11 bp):
AGGTATGGGAA
Found at i:22996755 original size:18 final size:18
Alignment explanation
Indices: 22996732--22996824 Score: 159
Period size: 18 Copynumber: 5.2 Consensus size: 18
22996722 CCCAACTACT
*
22996732 GTATACGTGAACAGTACC
1 GTATACGTGAATAGTACC
*
22996750 GTATACGTGAATAGTTCC
1 GTATACGTGAATAGTACC
22996768 GTATACGTGAATAGTACC
1 GTATACGTGAATAGTACC
*
22996786 GTATACGTGAATAGTGCC
1 GTATACGTGAATAGTACC
22996804 GTATACGTGAATAGTACC
1 GTATACGTGAATAGTACC
22996822 GTA
1 GTA
22996825 AACGGTCGTA
Statistics
Matches: 70, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 70 1.00
ACGTcount: A:0.31, C:0.17, G:0.24, T:0.28
Consensus pattern (18 bp):
GTATACGTGAATAGTACC
Found at i:22997385 original size:11 final size:11
Alignment explanation
Indices: 22997369--22997399 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
22997359 AAGTATGGGT
22997369 AGGTATGGGAA
1 AGGTATGGGAA
*
22997380 AGGTATGGGCA
1 AGGTATGGGAA
22997391 AGGTATGGG
1 AGGTATGGG
22997400 GTATATTCTA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.29, C:0.03, G:0.48, T:0.19
Consensus pattern (11 bp):
AGGTATGGGAA
Found at i:23001530 original size:43 final size:43
Alignment explanation
Indices: 23001482--23001569 Score: 176
Period size: 43 Copynumber: 2.0 Consensus size: 43
23001472 CTTGCAGATG
23001482 TTAGATTTCTGAACTTTCTTAGACCAGTTTGAAAGTGAAAAGT
1 TTAGATTTCTGAACTTTCTTAGACCAGTTTGAAAGTGAAAAGT
23001525 TTAGATTTCTGAACTTTCTTAGACCAGTTTGAAAGTGAAAAGT
1 TTAGATTTCTGAACTTTCTTAGACCAGTTTGAAAGTGAAAAGT
23001568 TT
1 TT
23001570 TAAAATTGTG
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 45 1.00
ACGTcount: A:0.32, C:0.11, G:0.18, T:0.39
Consensus pattern (43 bp):
TTAGATTTCTGAACTTTCTTAGACCAGTTTGAAAGTGAAAAGT
Found at i:23010328 original size:22 final size:22
Alignment explanation
Indices: 23010277--23010337 Score: 61
Period size: 22 Copynumber: 2.8 Consensus size: 22
23010267 ATAAGTAAAT
* *
23010277 ACAAAAATAA-AGGAAAATATA
1 ACAAAAATAATAGAAAAATACA
* *
23010298 ATAACAATAATAGAAAAATACA
1 ACAAAAATAATAGAAAAATACA
* *
23010320 ACAATAATAATAGTAAAA
1 ACAAAAATAATAGAAAAA
23010338 GATATAATAA
Statistics
Matches: 32, Mismatches: 7, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
21 8 0.25
22 24 0.75
ACGTcount: A:0.69, C:0.07, G:0.07, T:0.18
Consensus pattern (22 bp):
ACAAAAATAATAGAAAAATACA
Found at i:23010388 original size:3 final size:3
Alignment explanation
Indices: 23010380--23010415 Score: 63
Period size: 3 Copynumber: 12.0 Consensus size: 3
23010370 ACACTACCAT
*
23010380 ATA ATA ATA ATA ATA ATA ATA ATG ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
23010416 TAGAAATACA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:23010522 original size:3 final size:3
Alignment explanation
Indices: 23010508--23010549 Score: 75
Period size: 3 Copynumber: 13.7 Consensus size: 3
23010498 AAATATACAC
23010508 TAA TATA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
23010550 TTAAAATGCA
Statistics
Matches: 38, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
3 35 0.92
4 3 0.08
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:23011047 original size:26 final size:26
Alignment explanation
Indices: 23010998--23011073 Score: 100
Period size: 26 Copynumber: 2.9 Consensus size: 26
23010988 GATTTTTTGT
23010998 TCTTGAATCTCAAAAAAAAAAAATCCCC
1 TCTTGAATCTC--AAAAAAAAAATCCCC
***
23011026 TCTTGAATCTCAAAAAAAAAATCTTT
1 TCTTGAATCTCAAAAAAAAAATCCCC
23011052 TCTTGAATCT-AAAAAAAAAATC
1 TCTTGAATCTCAAAAAAAAAATC
23011074 TCTTCTCTCC
Statistics
Matches: 45, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
25 12 0.27
26 22 0.49
28 11 0.24
ACGTcount: A:0.50, C:0.18, G:0.04, T:0.28
Consensus pattern (26 bp):
TCTTGAATCTCAAAAAAAAAATCCCC
Found at i:23011595 original size:44 final size:44
Alignment explanation
Indices: 23011539--23011766 Score: 178
Period size: 44 Copynumber: 5.2 Consensus size: 44
23011529 TTCTTCGATC
* * *
23011539 TGTTCCCCATAAACACAGGGATGCCAAATTTGCTGTCTTCAACT
1 TGTTCCCTATAAACACAGGGATGCCAAATCTGCTATCTTCAACT
* *
23011583 TTTTCCTTATAAACACAGGGATGCCAAATCTGCTATCTTCAACT
1 TGTTCCCTATAAACACAGGGATGCCAAATCTGCTATCTTCAACT
* * ** *
23011627 TGTTCCCTATAAGCACAGGGATTCC--ATGCTGAAATCTTCGA-T
1 TGTTCCCTATAAACACAGGGATGCCAAAT-CTGCTATCTTCAACT
* * * * * * ** *
23011669 CTGCTTCACC-GTGAGCATAGGAATGTCAGTTCTGCTATCTTCGA-T
1 -TG-TTC-CCTATAAACACAGGGATGCCAAATCTGCTATCTTCAACT
* * *
23011714 CTGTTCCCTATAAGCACAGGGATGCCAAATCTGCTGTTTTCAACT
1 -TGTTCCCTATAAACACAGGGATGCCAAATCTGCTATCTTCAACT
23011759 TGTTCCCT
1 TGTTCCCT
23011767 GACAATACGG
Statistics
Matches: 145, Mismatches: 31, Indels: 16
0.76 0.16 0.08
Matches are distributed among these distances:
42 3 0.02
43 14 0.10
44 109 0.75
45 18 0.12
46 1 0.01
ACGTcount: A:0.25, C:0.26, G:0.17, T:0.32
Consensus pattern (44 bp):
TGTTCCCTATAAACACAGGGATGCCAAATCTGCTATCTTCAACT
Found at i:23012532 original size:205 final size:205
Alignment explanation
Indices: 23011907--23013214 Score: 2075
Period size: 205 Copynumber: 6.4 Consensus size: 205
23011897 GGAACATCCA
* * * * *
23011907 AAAGTCAAATCTGCTATGTCTTCGATTTGTTCCTTGTAAGCACAACGATGCCAAATCATCTTGGA
1 AAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGGATGCCAAACCATCTTGGA
* ** * ** * *
23011972 TCTTGCTTCAGT-ATAAACATCTGAAGGTTAGATCTGCTATGTATCTGCTCTCCATTGAAGCGGA
66 TC-TGCTTCAGTGA-AATCATCTGAAGGCGAGATCTGCTATGTGTCTGCTCTCCATCAAAGTGAA
* * *
23012036 GATGTCAGACTTCGATTTGTTCTCTGACAATACAGAGACCACAAATCATCTTAGATTTGCTTCAT
129 GATGCCAAACTTCGATTTGTTCTCTGACAATACAGAGACGACAAATCATCTTAGATTTGCTTCAT
23012101 CGTAATCACGTG
194 CGTAATCACGTG
* * *
23012113 AAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTATAAGCACAAGGATGCCAAATCATCTTGGA
1 AAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGGATGCCAAACCATCTTGGA
* * * ** *
23012178 TCTTGCTTTAGT-ATAAACATCTGAAGGTC-AGATCTGCTATGTATCTGCTCTCCATTGAAGTGG
66 TC-TGCTTCAGTGA-AATCATCTGAAGG-CGAGATCTGCTATGTGTCTGCTCTCCATCAAAGTGA
*
23012241 AGATGCCAGACTTCGATTTGTTCTCTGACAATACAGAGACGACAAATCATCTTAGATTTGCTTCA
128 AGATGCCAAACTTCGATTTGTTCTCTGACAATACAGAGACGACAAATCATCTTAGATTTGCTTCA
23012306 TCGTAATCACGTG
193 TCGTAATCACGTG
23012319 AAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGGATGCCAAACCATCTTGGA
1 AAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGGATGCCAAACCATCTTGGA
*
23012384 TCTGCTTCAGTGAAATCATCTGAAGGCGAGATCTGCTATGTGTCTGCTCTTCATCAAAGTGAAGA
66 TCTGCTTCAGTGAAATCATCTGAAGGCGAGATCTGCTATGTGTCTGCTCTCCATCAAAGTGAAGA
* * * * * *
23012449 TGCCAAACTTCAATTCGTTCTCTGACAATACAAAGACAACAAATCATCTTAGAATTGCTTCATCA
131 TGCCAAACTTCGATTTGTTCTCTGACAATACAGAGACGACAAATCATCTTAGATTTGCTTCATCG
23012514 TAATCACGTG
196 TAATCACGTG
* * *
23012524 AAAGCCAAATCAGCCATGTCTTCGATTTGTTCCTTGTAAACACAAGGCTGCCAAACTATCTTGGA
1 AAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGGATGCCAAACCATCTTGGA
23012589 TCTGCTTCAGTGAAATCATCTGAAGGCGAGATCTGCTATGTGTCTGCTCTCCATCAAAGTGAAGA
66 TCTGCTTCAGTGAAATCATCTGAAGGCGAGATCTGCTATGTGTCTGCTCTCCATCAAAGTGAAGA
* *
23012654 TGCCAAACTTCGATTCGTTCTCTGACAATACGGAGACGACAAATCATCTTAGATTTGCTTCATCG
131 TGCCAAACTTCGATTTGTTCTCTGACAATACAGAGACGACAAATCATCTTAGATTTGCTTCATCG
23012719 TAATCACGTG
196 TAATCACGTG
*
23012729 AAAGCCAAATCAGCTATGTCTTCGATTTTTTCCTTGTAAACACAAGGATGCCAAACCATCTTGGA
1 AAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGGATGCCAAACCATCTTGGA
* * * * * *
23012794 TCTGCTTCAGTGAAATCATCTGAAGGTGAGATCTACTATATGTCTACTCTTCATCAAAGTAAAGA
66 TCTGCTTCAGTGAAATCATCTGAAGGCGAGATCTGCTATGTGTCTGCTCTCCATCAAAGTGAAGA
*
23012859 TGCCAAACTTTGATTTGTTCTCTGACAATACAGAGACGACAAATCATCTTAGATTTGCTTCATCG
131 TGCCAAACTTCGATTTGTTCTCTGACAATACAGAGACGACAAATCATCTTAGATTTGCTTCATCG
*
23012924 TAATCACATG
196 TAATCACGTG
*
23012934 AAAGCCAAATCAGCTATGTCTTCGATTTGCTCCTTGTAAACACAAGGATGCCAAACCATCTTGGA
1 AAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGGATGCCAAACCATCTTGGA
* * *
23012999 TCTGCTTTAGTGAAATCATCTGAAGGTGAGATCTGCGATGTGTCTGCTCTCCATCAAAGTGAAGA
66 TCTGCTTCAGTGAAATCATCTGAAGGCGAGATCTGCTATGTGTCTGCTCTCCATCAAAGTGAAGA
23013064 TGCCAAACTTCGATTTGTTCTCTGACAATACAGAGACGACAAATCATCTTAGATTTGCTTCATCG
131 TGCCAAACTTCGATTTGTTCTCTGACAATACAGAGACGACAAATCATCTTAGATTTGCTTCATCG
23013129 TAATCACGTG
196 TAATCACGTG
23013139 AAAGCCAAATCAGCTATGTCTTCGATTTGCTT-CTTGTAAACACAAGGATGCCAAACCATCTTGG
1 AAAGCCAAATCAGCTATGTCTTCGATTTG-TTCCTTGTAAACACAAGGATGCCAAACCATCTTGG
23013203 ATCTGCTTCAGT
65 ATCTGCTTCAGT
23013215 ATAACATCTG
Statistics
Matches: 1035, Mismatches: 63, Indels: 9
0.93 0.06 0.01
Matches are distributed among these distances:
204 1 0.00
205 772 0.75
206 262 0.25
ACGTcount: A:0.30, C:0.22, G:0.18, T:0.31
Consensus pattern (205 bp):
AAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGGATGCCAAACCATCTTGGA
TCTGCTTCAGTGAAATCATCTGAAGGCGAGATCTGCTATGTGTCTGCTCTCCATCAAAGTGAAGA
TGCCAAACTTCGATTTGTTCTCTGACAATACAGAGACGACAAATCATCTTAGATTTGCTTCATCG
TAATCACGTG
Found at i:23027324 original size:20 final size:19
Alignment explanation
Indices: 23027299--23027338 Score: 71
Period size: 20 Copynumber: 2.1 Consensus size: 19
23027289 TTATTTAATT
23027299 AATTTAAATTAAATAATTAA
1 AATTTAAATTAAA-AATTAA
23027319 AATTTAAATTAAAAATTAA
1 AATTTAAATTAAAAATTAA
23027338 A
1 A
23027339 TTAATTAGTC
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 7 0.35
20 13 0.65
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (19 bp):
AATTTAAATTAAAAATTAA
Found at i:23027330 original size:12 final size:12
Alignment explanation
Indices: 23027313--23027342 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
23027303 TAAATTAAAT
*
23027313 AATTAAAATTTA
1 AATTAAAAATTA
23027325 AATTAAAAATTA
1 AATTAAAAATTA
23027337 AATTAA
1 AATTAA
23027343 TTAGTCATTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (12 bp):
AATTAAAAATTA
Found at i:23031169 original size:46 final size:45
Alignment explanation
Indices: 23031057--23031366 Score: 156
Period size: 46 Copynumber: 6.7 Consensus size: 45
23031047 GCATATTTGT
23031057 GCTGATGCCATGTCCCAGACATGGTCTTACACTGACACATCTCGTAG
1 GCTGATG-CATGTCCCAGACAT-GTCTTACACTGACACATCTCGTAG
* * ** * *
23031104 TC-GATGCATGTCCCAGACATGTCTTACACTGGCTTATGTCTTGAG
1 GCTGATGCATGTCCCAGACATGTCTTACACTGACACATCTCGT-AG
* *
23031149 GCTGATGAATGTCCCAGACATGTCTTACACT-A-ACA-CTCGTTTCAAT
1 GCTGATGCATGTCCCAGACATGTCTTACACTGACACATCTCG--T--AG
* * ** *
23031195 GCTGATGCCATGTCCTAGACCTGGTCTTACA-T-A-AGTTCTAGCATATATG
1 GCTGATG-CATGTCCCAGACAT-GTCTTACACTGACACATCT--C--GTA-G
* * * *
23031244 TGCAGATGCCTTGTCCCAGACATGGTTTTACACTGGCACATCTCGTA-
1 -GCTGATG-CATGTCCCAGACAT-GTCTTACACTGACACATCTCGTAG
* * * *
23031291 GCCGATGCATGTTCCAGACATGTCTTACA-TTAGCTTACGTCTCG-AG
1 GCTGATGCATGTCCCAGACATGTCTTACACTGA-C--ACATCTCGTAG
* *
23031337 GCTAATGCATAT-CCAGACATGTCTTACACT
1 GCTGATGCATGTCCCAGACATGTCTTACACT
23031367 AGCACTCGTT
Statistics
Matches: 200, Mismatches: 41, Indels: 45
0.70 0.14 0.16
Matches are distributed among these distances:
43 3 0.01
44 26 0.13
45 47 0.23
46 62 0.31
47 15 0.08
48 11 0.05
49 2 0.01
50 28 0.14
51 2 0.01
53 4 0.02
ACGTcount: A:0.24, C:0.26, G:0.20, T:0.30
Consensus pattern (45 bp):
GCTGATGCATGTCCCAGACATGTCTTACACTGACACATCTCGTAG
Found at i:23031964 original size:46 final size:46
Alignment explanation
Indices: 23031888--23031982 Score: 154
Period size: 46 Copynumber: 2.1 Consensus size: 46
23031878 CCGGCCAAGC
* *
23031888 TCTTTTAAAAGGGTCTAATTGCCCTGTAAAGACCCCTAAATTTTAT
1 TCTTTTAAAACGGTCTAATTGCCCTGTAAAGACCCCCAAATTTTAT
* *
23031934 TCTTTTAAAACGGTCTAATTGTCCTTTAAAGACCCCCAAATTTTAT
1 TCTTTTAAAACGGTCTAATTGCCCTGTAAAGACCCCCAAATTTTAT
23031980 TCT
1 TCT
23031983 CTAGCTATTT
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
46 45 1.00
ACGTcount: A:0.29, C:0.21, G:0.11, T:0.39
Consensus pattern (46 bp):
TCTTTTAAAACGGTCTAATTGCCCTGTAAAGACCCCCAAATTTTAT
Found at i:23036417 original size:31 final size:31
Alignment explanation
Indices: 23036382--23036466 Score: 118
Period size: 31 Copynumber: 2.7 Consensus size: 31
23036372 TTGTAGTCGA
* *
23036382 AGCTACCACTAT-TCACTGATCAGGTAGCTAG
1 AGCTACCACT-TCTCACTAATCAGGTAGCCAG
23036413 AGCTACCACTTCTCACTAATCAGGTAGCCAG
1 AGCTACCACTTCTCACTAATCAGGTAGCCAG
*
23036444 AGCTACCACTTCTTACTGAATCA
1 AGCTACCACTTCTCACT-AATCA
23036467 AATTACTTAT
Statistics
Matches: 49, Mismatches: 3, Indels: 3
0.89 0.05 0.05
Matches are distributed among these distances:
30 1 0.02
31 43 0.88
32 5 0.10
ACGTcount: A:0.29, C:0.29, G:0.15, T:0.26
Consensus pattern (31 bp):
AGCTACCACTTCTCACTAATCAGGTAGCCAG
Found at i:23036606 original size:35 final size:35
Alignment explanation
Indices: 23036560--23036897 Score: 387
Period size: 35 Copynumber: 9.7 Consensus size: 35
23036550 TTTCCTCATT
**
23036560 GAAATACCATACCTATATTTCACAACTCAGTATGG
1 GAAATACCATACCTACGTTTCACAACTCAGTATGG
* **
23036595 GAAATGCCATACCTACGTTTCTTAACTCA-TAT-G
1 GAAATACCATACCTACGTTTCACAACTCAGTATGG
23036628 GATAATACCATACCTACGTTTCACAACTCAGTATGG
1 GA-AATACCATACCTACGTTTCACAACTCAGTATGG
**
23036664 TTAATACCATACCTACGTTTCACAACTCAGTATGG
1 GAAATACCATACCTACGTTTCACAACTCAGTATGG
** *
23036699 TTAATACCATACCTACGTTTCACAACTCGGTATGG
1 GAAATACCATACCTACGTTTCACAACTCAGTATGG
** * * *
23036734 TTAATATCATACCTACGTTTCACAACGCGGTAT-G
1 GAAATACCATACCTACGTTTCACAACTCAGTATGG
* *
23036768 GATGATACCATACCTATGTTTCACAACTCAGTATGG
1 GA-AATACCATACCTACGTTTCACAACTCAGTATGG
** * *
23036804 TTAATACCATACCTACATTTTACAACTCAGTAT-G
1 GAAATACCATACCTACGTTTCACAACTCAGTATGG
*
23036838 GATGATACCATACCTACGTTTCACAACTCAGTATGG
1 GA-AATACCATACCTACGTTTCACAACTCAGTATGG
** * *
23036874 TTAATAGCATACCTACATTTCACA
1 GAAATACCATACCTACGTTTCACA
23036898 CTTTGCCATG
Statistics
Matches: 260, Mismatches: 36, Indels: 14
0.84 0.12 0.05
Matches are distributed among these distances:
33 3 0.01
34 29 0.11
35 225 0.87
36 3 0.01
ACGTcount: A:0.32, C:0.24, G:0.12, T:0.31
Consensus pattern (35 bp):
GAAATACCATACCTACGTTTCACAACTCAGTATGG
Found at i:23036732 original size:70 final size:70
Alignment explanation
Indices: 23036562--23036897 Score: 494
Period size: 70 Copynumber: 4.8 Consensus size: 70
23036552 TCCTCATTGA
** ** * **
23036562 AATACCATACCTATATTTCACAACTCAGTATGGGAAATGCCATACCTACGTTTCTTAACTCA-TA
1 AATACCATACCTACGTTTCACAACTCAGTATGGTTAATACCATACCTACGTTTCACAACTCAGTA
23036626 TGGAT
66 TGGAT
23036631 AATACCATACCTACGTTTCACAACTCAGTATGGTTAATACCATACCTACGTTTCACAACTCAGTA
1 AATACCATACCTACGTTTCACAACTCAGTATGGTTAATACCATACCTACGTTTCACAACTCAGTA
*
23036696 TGGTT
66 TGGAT
* * * *
23036701 AATACCATACCTACGTTTCACAACTCGGTATGGTTAATATCATACCTACGTTTCACAACGCGGTA
1 AATACCATACCTACGTTTCACAACTCAGTATGGTTAATACCATACCTACGTTTCACAACTCAGTA
23036766 TGGAT
66 TGGAT
* * * *
23036771 GATACCATACCTATGTTTCACAACTCAGTATGGTTAATACCATACCTACATTTTACAACTCAGTA
1 AATACCATACCTACGTTTCACAACTCAGTATGGTTAATACCATACCTACGTTTCACAACTCAGTA
23036836 TGGAT
66 TGGAT
* * *
23036841 GATACCATACCTACGTTTCACAACTCAGTATGGTTAATAGCATACCTACATTTCACA
1 AATACCATACCTACGTTTCACAACTCAGTATGGTTAATACCATACCTACGTTTCACA
23036898 CTTTGCCATG
Statistics
Matches: 242, Mismatches: 24, Indels: 1
0.91 0.09 0.00
Matches are distributed among these distances:
69 55 0.23
70 187 0.77
ACGTcount: A:0.32, C:0.24, G:0.12, T:0.31
Consensus pattern (70 bp):
AATACCATACCTACGTTTCACAACTCAGTATGGTTAATACCATACCTACGTTTCACAACTCAGTA
TGGAT
Found at i:23036782 original size:105 final size:104
Alignment explanation
Indices: 23036562--23036897 Score: 474
Period size: 105 Copynumber: 3.2 Consensus size: 104
23036552 TCCTCATTGA
* ** * ** *
23036562 AATACCATACCTATATTTCACAACTCAGTATGGGAAATGCCATACCTACGTTTCTTAACTCATAT
1 AATACCATACCTACATTTCACAACTCAGTATGGTTAATACCATACCTACGTTTCACAACTCGTAT
23036627 GGATAATACCATACCTACGTTTCACAACTCAGTATGGTT
66 GGATAATACCATACCTACGTTTCACAACTCAGTATGGTT
*
23036666 AATACCATACCTACGTTTCACAACTCAGTATGGTTAATACCATACCTACGTTTCACAACTCGGTA
1 AATACCATACCTACATTTCACAACTCAGTATGGTTAATACCATACCTACGTTTCACAACTC-GTA
* * * * *
23036731 TGGTTAATATCATACCTACGTTTCACAACGCGGTATGGAT
65 TGGATAATACCATACCTACGTTTCACAACTCAGTATGGTT
* ** * *
23036771 GATACCATACCTATGTTTCACAACTCAGTATGGTTAATACCATACCTACATTTTACAACTCAGTA
1 AATACCATACCTACATTTCACAACTCAGTATGGTTAATACCATACCTACGTTTCACAACTC-GTA
*
23036836 TGGATGATACCATACCTACGTTTCACAACTCAGTATGGTT
65 TGGATAATACCATACCTACGTTTCACAACTCAGTATGGTT
*
23036876 AATAGCATACCTACATTTCACA
1 AATACCATACCTACATTTCACA
23036898 CTTTGCCATG
Statistics
Matches: 203, Mismatches: 28, Indels: 1
0.88 0.12 0.00
Matches are distributed among these distances:
104 54 0.27
105 149 0.73
ACGTcount: A:0.32, C:0.24, G:0.12, T:0.31
Consensus pattern (104 bp):
AATACCATACCTACATTTCACAACTCAGTATGGTTAATACCATACCTACGTTTCACAACTCGTAT
GGATAATACCATACCTACGTTTCACAACTCAGTATGGTT
Found at i:23041988 original size:187 final size:188
Alignment explanation
Indices: 23041664--23042071 Score: 611
Period size: 187 Copynumber: 2.2 Consensus size: 188
23041654 TGGGGTAAGG
*
23041664 TGCCGATGCCATGTCCCAGACCTGGTCATACACAAGTTCTAGCATATATGTACCGATGCCATGTC
1 TGCCGATGCCATGTCCCAGACCTGGTCTTACACAAGTTCTAGCATATATGTACCGATGCCATGTC
* * * *
23041729 CCAGACATGGTCTTACACTGACACATATCGTATCTGATGCATGTCCCATACATGTCTTGCACTGG
66 CCAGACATGGTCTTACACTGACACATATCGTAGCCGATGCATGTCCCAGACATGTCTTACACTGG
* * *
23041794 CTTACGTCTCGAGGTCGATGCATGT-CCATACATGTCTTACACTATCACTCGTTTCAA
131 CTTACGTCTCGAGGCCGATGCATGTCCCAGACATGTCTTACACTAGCACTCGTTTCAA
* * * * * *
23041851 TGTCGATGCCATATCCTAGACCTGGTCTTACACAAGTTCTAGCATTTATGTGCCGATGCCATGTT
1 TGCCGATGCCATGTCCCAGACCTGGTCTTACACAAGTTCTAGCATATATGTACCGATGCCATGTC
* * * *
23041916 CCAGACATGGTCTTACACTGGCACATCTCGTAGCCGATGCATGTCCTAGACATGTGTTACACTGG
66 CCAGACATGGTCTTACACTGACACATATCGTAGCCGATGCATGTCCCAGACATGTCTTACACTGG
* * *
23041981 TTTACGTCTTGAGGCCGATGCATGTCCCAGGCATGTCTTACACTAGCACTCGTTTCAA
131 CTTACGTCTCGAGGCCGATGCATGTCCCAGACATGTCTTACACTAGCACTCGTTTCAA
*
23042039 TGCCGATGCCATGTCCCAGACATGGTCTTACAC
1 TGCCGATGCCATGTCCCAGACCTGGTCTTACAC
23042072 TGGCTTACAC
Statistics
Matches: 195, Mismatches: 25, Indels: 1
0.88 0.11 0.00
Matches are distributed among these distances:
187 137 0.70
188 58 0.30
ACGTcount: A:0.23, C:0.28, G:0.20, T:0.29
Consensus pattern (188 bp):
TGCCGATGCCATGTCCCAGACCTGGTCTTACACAAGTTCTAGCATATATGTACCGATGCCATGTC
CCAGACATGGTCTTACACTGACACATATCGTAGCCGATGCATGTCCCAGACATGTCTTACACTGG
CTTACGTCTCGAGGCCGATGCATGTCCCAGACATGTCTTACACTAGCACTCGTTTCAA
Found at i:23047652 original size:13 final size:13
Alignment explanation
Indices: 23047627--23047664 Score: 51
Period size: 13 Copynumber: 2.9 Consensus size: 13
23047617 AGCTATCACA
*
23047627 TGAATTAAATTAT
1 TGAATTAATTTAT
23047640 T-AAGTTAATTTAT
1 TGAA-TTAATTTAT
23047653 TGAATTAATTTA
1 TGAATTAATTTA
23047665 ATTTGACAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
12 2 0.09
13 18 0.82
14 2 0.09
ACGTcount: A:0.42, C:0.00, G:0.08, T:0.50
Consensus pattern (13 bp):
TGAATTAATTTAT
Found at i:23050635 original size:83 final size:83
Alignment explanation
Indices: 23050535--23050700 Score: 262
Period size: 83 Copynumber: 2.0 Consensus size: 83
23050525 AAGGACAATG
* * *
23050535 GTAAGACCAAACCCAACAAAGGAAAGA-CTGCATTAAAACCTAAAGAAGGAATTTCTAAGGATGG
1 GTAAGACCAAACCCAACAAAAGAAAAATC-GCATTAAAACCTAAAGAAGGAATTTCTAAGGAAGG
23050599 AAAATGTTTCCATTACGGT
65 AAAATGTTTCCATTACGGT
* * *
23050618 GTAAGACCAAACCCAACAAAAGAAAAATCGCATTGAAACTTAAAGGAGGAATTTCTAAGGAAGGA
1 GTAAGACCAAACCCAACAAAAGAAAAATCGCATTAAAACCTAAAGAAGGAATTTCTAAGGAAGGA
23050683 AAATGTTTCCATTACGGT
66 AAATGTTTCCATTACGGT
23050701 AAGACCGGAC
Statistics
Matches: 76, Mismatches: 6, Indels: 2
0.90 0.07 0.02
Matches are distributed among these distances:
83 75 0.99
84 1 0.01
ACGTcount: A:0.44, C:0.16, G:0.19, T:0.20
Consensus pattern (83 bp):
GTAAGACCAAACCCAACAAAAGAAAAATCGCATTAAAACCTAAAGAAGGAATTTCTAAGGAAGGA
AAATGTTTCCATTACGGT
Found at i:23051743 original size:19 final size:20
Alignment explanation
Indices: 23051710--23051750 Score: 57
Period size: 19 Copynumber: 2.1 Consensus size: 20
23051700 ATTTTAAAAA
*
23051710 TTAAAAACTATTAAAATTAT
1 TTAAAAACTATTAAAAATAT
*
23051730 TTAAAAAGTA-TAAAAATAT
1 TTAAAAACTATTAAAAATAT
23051749 TT
1 TT
23051751 TTTAAATATT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 10 0.53
20 9 0.47
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.39
Consensus pattern (20 bp):
TTAAAAACTATTAAAAATAT
Found at i:23064290 original size:18 final size:18
Alignment explanation
Indices: 23064267--23064311 Score: 58
Period size: 17 Copynumber: 2.6 Consensus size: 18
23064257 ATTAAAATTT
23064267 TAAAAATAATTCACAACA
1 TAAAAATAATTCACAACA
*
23064285 TAAAAA-ATTTCACAACA
1 TAAAAATAATTCACAACA
*
23064302 T-CAAATAATT
1 TAAAAATAATT
23064312 AGAGGATATG
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
16 3 0.13
17 14 0.61
18 6 0.26
ACGTcount: A:0.58, C:0.16, G:0.00, T:0.27
Consensus pattern (18 bp):
TAAAAATAATTCACAACA
Found at i:23065708 original size:19 final size:19
Alignment explanation
Indices: 23065661--23065714 Score: 60
Period size: 19 Copynumber: 3.0 Consensus size: 19
23065651 ATACTTTAAA
23065661 ATATTTATTA-T-TAATA-
1 ATATTTATTATTATAATAT
**
23065677 ATATTTAAAATTATAATAT
1 ATATTTATTATTATAATAT
*
23065696 ATATTTATTATTAAAATAT
1 ATATTTATTATTATAATAT
23065715 TAGTATAAAT
Statistics
Matches: 30, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
16 8 0.27
17 1 0.03
18 5 0.17
19 16 0.53
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (19 bp):
ATATTTATTATTATAATAT
Found at i:23066484 original size:21 final size:21
Alignment explanation
Indices: 23066460--23066516 Score: 66
Period size: 19 Copynumber: 2.8 Consensus size: 21
23066450 AAAATTAAAA
23066460 AAAAATATAAAATTTATTTTT
1 AAAAATATAAAATTTATTTTT
23066481 AAAAATCAT--AATTT-TTTTT
1 AAAAAT-ATAAAATTTATTTTT
*
23066500 AAAAAAATTAAAATTTA
1 AAAAATA-TAAAATTTA
23066517 ATTAAGTGCT
Statistics
Matches: 30, Mismatches: 1, Indels: 9
0.75 0.03 0.22
Matches are distributed among these distances:
18 1 0.03
19 11 0.37
20 5 0.17
21 11 0.37
22 2 0.07
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (21 bp):
AAAAATATAAAATTTATTTTT
Found at i:23066943 original size:27 final size:27
Alignment explanation
Indices: 23066912--23066984 Score: 119
Period size: 27 Copynumber: 2.7 Consensus size: 27
23066902 GGGTATGGTG
*
23066912 CCTATCTGATAGGCAGCACTGGTGACC
1 CCTATCTGATAGGCGGCACTGGTGACC
*
23066939 CCTATCTGATAGGCGGTACTGGTGACC
1 CCTATCTGATAGGCGGCACTGGTGACC
*
23066966 CCTATCTAATAGGCGGCAC
1 CCTATCTGATAGGCGGCAC
23066985 CAATAGCATT
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 42 1.00
ACGTcount: A:0.22, C:0.29, G:0.26, T:0.23
Consensus pattern (27 bp):
CCTATCTGATAGGCGGCACTGGTGACC
Found at i:23072792 original size:62 final size:62
Alignment explanation
Indices: 23072494--23072772 Score: 452
Period size: 62 Copynumber: 4.5 Consensus size: 62
23072484 CAGTGTACCT
* * *
23072494 AATTTATATTACAAACTTTATTCCAAGTTTTAATGTTGTAAT-TATTTAATTTATATAACAA
1 AATTTATATTACAAAGTTTGTTCCAAGTTTTAATATTGTAATGTATTTAATTTATATAACAA
* *
23072555 AATTTATATTACAAAGTTTGTTCCAATTTTTAATATTGTAATGTATTTAATTTATATAATAA
1 AATTTATATTACAAAGTTTGTTCCAAGTTTTAATATTGTAATGTATTTAATTTATATAACAA
*
23072617 AATTTATATTACAAAGTTTGTTCCAAGTTTTAGTATTGTAATGTATTTAATTTATATAACAA
1 AATTTATATTACAAAGTTTGTTCCAAGTTTTAATATTGTAATGTATTTAATTTATATAACAA
* * *
23072679 AATTTATATTATAAAGTTTGTTTCAAGTTTTAATATTGTAATGTATTTAATTTATATTACAA
1 AATTTATATTACAAAGTTTGTTCCAAGTTTTAATATTGTAATGTATTTAATTTATATAACAA
* *
23072741 AAATTATATTACAAAGTTTGTTTCAAGTTTTA
1 AATTTATATTACAAAGTTTGTTCCAAGTTTTA
23072773 GTGTTGCAAT
Statistics
Matches: 203, Mismatches: 14, Indels: 1
0.93 0.06 0.00
Matches are distributed among these distances:
61 38 0.19
62 165 0.81
ACGTcount: A:0.38, C:0.06, G:0.08, T:0.49
Consensus pattern (62 bp):
AATTTATATTACAAAGTTTGTTCCAAGTTTTAATATTGTAATGTATTTAATTTATATAACAA
Found at i:23073943 original size:14 final size:14
Alignment explanation
Indices: 23073924--23073950 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
23073914 CAAATTACAT
23073924 GTTAGAATAGTATC
1 GTTAGAATAGTATC
23073938 GTTAGAATAGTAT
1 GTTAGAATAGTAT
23073951 TATTAGAAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.37, C:0.04, G:0.22, T:0.37
Consensus pattern (14 bp):
GTTAGAATAGTATC
Found at i:23073956 original size:14 final size:14
Alignment explanation
Indices: 23073925--23073958 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
23073915 AAATTACATG
*
23073925 TTAGAATAGTATCG
1 TTAGAATAGTATCA
*
23073939 TTAGAATAGTATTA
1 TTAGAATAGTATCA
23073953 TTAGAA
1 TTAGAA
23073959 AAAATGTCAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.41, C:0.03, G:0.18, T:0.38
Consensus pattern (14 bp):
TTAGAATAGTATCA
Found at i:23075971 original size:17 final size:16
Alignment explanation
Indices: 23075937--23075974 Score: 51
Period size: 17 Copynumber: 2.4 Consensus size: 16
23075927 TCTATTTTTT
23075937 TTCT-TCTCTTTCTCC
1 TTCTCTCTCTTTCTCC
*
23075952 TTCTCTCTCTATTCTGC
1 TTCTCTCTCT-TTCTCC
23075969 TTCTCT
1 TTCTCT
23075975 TTTTTTTCTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
15 4 0.20
16 5 0.25
17 11 0.55
ACGTcount: A:0.03, C:0.37, G:0.03, T:0.58
Consensus pattern (16 bp):
TTCTCTCTCTTTCTCC
Found at i:23076000 original size:5 final size:5
Alignment explanation
Indices: 23075990--23076024 Score: 70
Period size: 5 Copynumber: 7.0 Consensus size: 5
23075980 TTCTTTCTTT
23075990 TTCCC TTCCC TTCCC TTCCC TTCCC TTCCC TTCCC
1 TTCCC TTCCC TTCCC TTCCC TTCCC TTCCC TTCCC
23076025 GCTCTCTCTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 30 1.00
ACGTcount: A:0.00, C:0.60, G:0.00, T:0.40
Consensus pattern (5 bp):
TTCCC
Found at i:23089293 original size:38 final size:37
Alignment explanation
Indices: 23089237--23089358 Score: 158
Period size: 38 Copynumber: 3.2 Consensus size: 37
23089227 GTGTACGTAT
* *
23089237 AAGACCATAGT-TGGGCTATGGCATCGTAATTAAAGTGT-
1 AAGACCATA-TCT-GGCTATGGCATTGTGA-TAAAGTGTA
23089275 AAGACCATATCTGCGCTATGGCATTGTGATAAAGTGTA
1 AAGACCATATCTG-GCTATGGCATTGTGATAAAGTGTA
*
23089313 AAGACCATAACTAGGCTATGGCATTGTGATAAAGTGTA
1 AAGACCATATCT-GGCTATGGCATTGTGATAAAGTGTA
23089351 AAGACCAT
1 AAGACCAT
23089359 GGCAATATAT
Statistics
Matches: 77, Mismatches: 3, Indels: 8
0.88 0.03 0.09
Matches are distributed among these distances:
37 10 0.13
38 66 0.86
39 1 0.01
ACGTcount: A:0.34, C:0.15, G:0.24, T:0.27
Consensus pattern (37 bp):
AAGACCATATCTGGCTATGGCATTGTGATAAAGTGTA
Found at i:23093787 original size:6 final size:6
Alignment explanation
Indices: 23093766--23093799 Score: 50
Period size: 6 Copynumber: 5.3 Consensus size: 6
23093756 AAATAAAGAC
23093766 AATTAA AATTCCAA AATTAA AATTAA AATTAA AA
1 AATTAA AATT--AA AATTAA AATTAA AATTAA AA
23093800 ACTTTTGAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
6 20 0.77
8 6 0.23
ACGTcount: A:0.65, C:0.06, G:0.00, T:0.29
Consensus pattern (6 bp):
AATTAA
Found at i:23094781 original size:20 final size:20
Alignment explanation
Indices: 23094758--23094795 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
23094748 CCAGCTTGAG
23094758 ACATGCCCGTGTAGCCTGGA
1 ACATGCCCGTGTAGCCTGGA
*
23094778 ACATGCCCGTGTGGCCTG
1 ACATGCCCGTGTAGCCTG
23094796 CCCGTGGGCA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.16, C:0.32, G:0.32, T:0.21
Consensus pattern (20 bp):
ACATGCCCGTGTAGCCTGGA
Found at i:23096915 original size:3 final size:3
Alignment explanation
Indices: 23096907--23096950 Score: 88
Period size: 3 Copynumber: 14.7 Consensus size: 3
23096897 ACCATTTGTA
23096907 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
23096951 ATAAGTAAAT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:23096961 original size:8 final size:7
Alignment explanation
Indices: 23096905--23096961 Score: 63
Period size: 6 Copynumber: 8.9 Consensus size: 7
23096895 TCACCATTTG
23096905 TAAATAA
1 TAAATAA
23096912 T-AATAA
1 TAAATAA
23096918 T-AATAA
1 TAAATAA
23096924 T-AATAA
1 TAAATAA
23096930 T-AATAA
1 TAAATAA
23096936 T-AATAA
1 TAAATAA
23096942 T-AATAA
1 TAAATAA
23096948 TAAATAA
1 TAAATAA
23096955 GTAAATA
1 -TAAATA
23096962 TCTTTTACTT
Statistics
Matches: 48, Mismatches: 0, Indels: 3
0.94 0.00 0.06
Matches are distributed among these distances:
6 36 0.75
7 6 0.12
8 6 0.12
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.32
Consensus pattern (7 bp):
TAAATAA
Found at i:23102671 original size:13 final size:13
Alignment explanation
Indices: 23102653--23102688 Score: 54
Period size: 13 Copynumber: 2.7 Consensus size: 13
23102643 GATAATTAGT
23102653 AAATCATACATAC
1 AAATCATACATAC
*
23102666 AAATCATACATAT
1 AAATCATACATAC
23102679 AAATTCATAC
1 AAA-TCATAC
23102689 CAAACTATCA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
13 15 0.71
14 6 0.29
ACGTcount: A:0.53, C:0.19, G:0.00, T:0.28
Consensus pattern (13 bp):
AAATCATACATAC
Found at i:23103282 original size:3 final size:3
Alignment explanation
Indices: 23103274--23103308 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
23103264 AATATGACAC
23103274 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
23103309 GTAAATATCT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:23124292 original size:23 final size:24
Alignment explanation
Indices: 23124230--23124295 Score: 80
Period size: 27 Copynumber: 2.7 Consensus size: 24
23124220 GCTATGTGAG
**
23124230 GAAATGAGAGAATGAATGATGATT
1 GAAATGAGAGAATGAGGGATGATT
23124254 GAGAGATGAGAAGAATGAGGGATGATT
1 GA-A-ATGAG-AGAATGAGGGATGATT
23124281 GAAATGAG-GAATGAG
1 GAAATGAGAGAATGAG
23124296 TGAGGGTATT
Statistics
Matches: 37, Mismatches: 2, Indels: 7
0.80 0.04 0.15
Matches are distributed among these distances:
23 7 0.19
24 2 0.05
25 6 0.16
26 6 0.16
27 16 0.43
ACGTcount: A:0.44, C:0.00, G:0.36, T:0.20
Consensus pattern (24 bp):
GAAATGAGAGAATGAGGGATGATT
Found at i:23125379 original size:18 final size:18
Alignment explanation
Indices: 23125356--23125391 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
23125346 TTCATCATAT
23125356 ATATGAA-ATTGATAAGTG
1 ATATGAATA-TGATAAGTG
23125374 ATATGAATATGATAAGTG
1 ATATGAATATGATAAGTG
23125392 TGAGTGTGAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 16 0.94
19 1 0.06
ACGTcount: A:0.44, C:0.00, G:0.22, T:0.33
Consensus pattern (18 bp):
ATATGAATATGATAAGTG
Found at i:23127095 original size:34 final size:34
Alignment explanation
Indices: 23127031--23127096 Score: 80
Period size: 34 Copynumber: 1.9 Consensus size: 34
23127021 GTGACAGTCT
* **
23127031 AGTATCAGTTAGGGTCGTAGCCCATTACAGTATC
1 AGTATCAGTTAGGGCCGTAGCCCAACACAGTATC
*
23127065 AGTATCAGTGT-GGGCCTTAGCCCAACACAGTA
1 AGTATCAGT-TAGGGCCGTAGCCCAACACAGTA
23127097 ATAGTAATAG
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
34 26 0.96
35 1 0.04
ACGTcount: A:0.27, C:0.23, G:0.24, T:0.26
Consensus pattern (34 bp):
AGTATCAGTTAGGGCCGTAGCCCAACACAGTATC
Found at i:23134799 original size:34 final size:34
Alignment explanation
Indices: 23134756--23134835 Score: 97
Period size: 34 Copynumber: 2.4 Consensus size: 34
23134746 AGTGATAGTC
* *
23134756 CAGTATCAGTAAGGGCCGTAGCCCATTACAGTAT
1 CAGTATCAGTAAGGGCCGTAGCCCAATACAGTAA
** * *
23134790 CAGTATCAGTGTGGGCCTTAGCCCAATATAGTAA
1 CAGTATCAGTAAGGGCCGTAGCCCAATACAGTAA
*
23134824 CAGTAACAGTAA
1 CAGTATCAGTAA
23134836 TGCAATCAGA
Statistics
Matches: 37, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
34 37 1.00
ACGTcount: A:0.33, C:0.21, G:0.23, T:0.24
Consensus pattern (34 bp):
CAGTATCAGTAAGGGCCGTAGCCCAATACAGTAA
Found at i:23144147 original size:14 final size:15
Alignment explanation
Indices: 23144128--23144162 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
23144118 AGTGTTGGGG
*
23144128 TAAAAATTTTAAAAA
1 TAAAAATTGTAAAAA
*
23144143 TAAAAATTGTGAAAA
1 TAAAAATTGTAAAAA
23144158 TAAAA
1 TAAAA
23144163 TAAAATAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.66, C:0.00, G:0.06, T:0.29
Consensus pattern (15 bp):
TAAAAATTGTAAAAA
Found at i:23147157 original size:5 final size:5
Alignment explanation
Indices: 23147147--23147174 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
23147137 CCAATTTATG
23147147 AAAAT AAAAT AAAAT AAAAT AAAAT AAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAA
23147175 GAACACACAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (5 bp):
AAAAT
Found at i:23150228 original size:36 final size:36
Alignment explanation
Indices: 23150181--23150254 Score: 148
Period size: 36 Copynumber: 2.1 Consensus size: 36
23150171 CTATGGCCAT
23150181 AGTTTCAACCATGAAATCAAAAGTGCATAAAAGTAA
1 AGTTTCAACCATGAAATCAAAAGTGCATAAAAGTAA
23150217 AGTTTCAACCATGAAATCAAAAGTGCATAAAAGTAA
1 AGTTTCAACCATGAAATCAAAAGTGCATAAAAGTAA
23150253 AG
1 AG
23150255 GACATTGAGA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 38 1.00
ACGTcount: A:0.50, C:0.14, G:0.15, T:0.22
Consensus pattern (36 bp):
AGTTTCAACCATGAAATCAAAAGTGCATAAAAGTAA
Found at i:23160840 original size:13 final size:13
Alignment explanation
Indices: 23160822--23160851 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
23160812 ATGGCAATCA
23160822 TGTCACACGGCCG
1 TGTCACACGGCCG
*
23160835 TGTCACACGGGCG
1 TGTCACACGGCCG
23160848 TGTC
1 TGTC
23160852 CCTGCTAAGC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.13, C:0.33, G:0.33, T:0.20
Consensus pattern (13 bp):
TGTCACACGGCCG
Found at i:23170073 original size:208 final size:208
Alignment explanation
Indices: 23169701--23170110 Score: 678
Period size: 208 Copynumber: 2.0 Consensus size: 208
23169691 ACGCCTACTA
* *
23169701 ATCGCGTGATTTCGTGATAGATTTTAAATATTTATAATTAATCATTCTTGAAACTAACTATTATC
1 ATCGCGAGATTTCGTGATAGATTTTAAATATTAATAATTAATCATTCTTGAAACTAACTATTATC
* * ** *
23169766 GCGATGTAGGCAAGTGTACCTATCGAACAGTAGTATAGTTTTAGCAAGACCGGATTGTCCAACCC
66 ACAATACAGGCAAGTGTACCTATCGAACAGTAGTATAATTTTAGCAAGACCGGATTGTCCAACCC
* *
23169831 AAAGGAACTAAAAGTACTAGTAATGACTGTCTTTTTATTATCTAGCCTAAGAATAAAGAGGTTTT
131 AAAGGAACTAAAAGTACTAGTAATGACTGTCTTTTTATTATCTAGCCTAAGAATAAAAAAG-TTT
23169896 TGTTTTAACTAATG
195 TGTTTTAACTAATG
* * * *
23169910 ATCGCGAGATTTTGTGATAGGTTTTAAATATTAATAATTACTCGTTCTTG-AACTAACTATTATC
1 ATCGCGAGATTTCGTGATAGATTTTAAATATTAATAATTAATCATTCTTGAAACTAACTATTATC
*
23169974 ACAATACAGGCAAGTGTACCTATCGAACAGTAGTATAATTTTAGCAAGACCGGATTGTCGAACCC
66 ACAATACAGGCAAGTGTACCTATCGAACAGTAGTATAATTTTAGCAAGACCGGATTGTCCAACCC
23170039 AAAGGAACTAAAAGTACTAGTAATGACTGTCTTTTTATTATCTAGCCTAAGAATAAAAAAGTTTT
131 AAAGGAACTAAAAGTACTAGTAATGACTGTCTTTTTATTATCTAGCCTAAGAATAAAAAAGTTTT
23170104 GTTTTAA
196 GTTTTAA
23170111 TTAACTAATT
Statistics
Matches: 187, Mismatches: 14, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
207 11 0.06
208 132 0.71
209 44 0.24
ACGTcount: A:0.35, C:0.14, G:0.17, T:0.34
Consensus pattern (208 bp):
ATCGCGAGATTTCGTGATAGATTTTAAATATTAATAATTAATCATTCTTGAAACTAACTATTATC
ACAATACAGGCAAGTGTACCTATCGAACAGTAGTATAATTTTAGCAAGACCGGATTGTCCAACCC
AAAGGAACTAAAAGTACTAGTAATGACTGTCTTTTTATTATCTAGCCTAAGAATAAAAAAGTTTT
GTTTTAACTAATG
Found at i:23173123 original size:11 final size:11
Alignment explanation
Indices: 23173106--23173150 Score: 54
Period size: 11 Copynumber: 3.9 Consensus size: 11
23173096 AGATAAATAT
23173106 TATTTTATTAA
1 TATTTTATTAA
*
23173117 TACTTTATTAAGA
1 TATTTTATT-A-A
*
23173130 TATTTTATTAT
1 TATTTTATTAA
23173141 TATTTTATTA
1 TATTTTATTA
23173151 GTATATAAAG
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
11 18 0.62
12 2 0.07
13 9 0.31
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.62
Consensus pattern (11 bp):
TATTTTATTAA
Found at i:23175339 original size:38 final size:40
Alignment explanation
Indices: 23175287--23175499 Score: 205
Period size: 46 Copynumber: 4.9 Consensus size: 40
23175277 TCTGATATGA
23175287 AATGTGTAAGACCATGGTTGAAAGATACCATGGCAACC-T
1 AATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCAT
23175326 -ATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATAT
1 AATGTGTAAGACCATGGTTGAAAGATACCATGGCAACC----AT
*
23175369 GAAATGTGTAAGACCATGGTTGAAAGATACCGTGGCAACCTGATAT
1 --AATGTGTAAGACCATGGTTGAAAGATACCATGGCAACC----AT
23175415 GAGATGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGACAT
1 -A-ATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC----CAT
* ** *
23175461 GAAAAGAATAAGACCATGGTTGAAAGATACCATAGCAAC
1 --AATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
23175500 ATGACAGAAA
Statistics
Matches: 152, Mismatches: 8, Indels: 21
0.84 0.04 0.12
Matches are distributed among these distances:
38 37 0.24
43 1 0.01
45 1 0.01
46 111 0.73
47 1 0.01
50 1 0.01
ACGTcount: A:0.38, C:0.16, G:0.24, T:0.22
Consensus pattern (40 bp):
AATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCAT
Found at i:23175393 original size:46 final size:46
Alignment explanation
Indices: 23175326--23175543 Score: 294
Period size: 46 Copynumber: 4.7 Consensus size: 46
23175316 ATGGCAACCT
*
23175326 ATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAA
1 ATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGACATGAA
* * *
23175372 ATGTGTAAGACCATGGTTGAAAGATACCGTGGCAACCTGATATGAG
1 ATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGACATGAA
*
23175418 ATGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAA
1 ATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGACATGAA
* ** * *
23175464 AAGAATAAGACCATGGTTGAAAGATACCATAGCAACATGACA-GAAA
1 ATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGACATG-AA
* * * *
23175510 ATGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 ATGTGTAAGACCATGGTTGAAAGATACCATGGCA
23175544 TCACGTCAAA
Statistics
Matches: 154, Mismatches: 17, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
45 1 0.01
46 153 0.99
ACGTcount: A:0.39, C:0.15, G:0.24, T:0.21
Consensus pattern (46 bp):
ATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGACATGAA
Found at i:23178798 original size:5 final size:5
Alignment explanation
Indices: 23178760--23178855 Score: 56
Period size: 5 Copynumber: 18.2 Consensus size: 5
23178750 TACAAGGTCC
*
23178760 TATTT T-TTT TA-TT TATTCT AATTT T-TATT T-TTT TATTT TATTTT
1 TATTT TATTT TATTT TATT-T TATTT TAT-TT TATTT TATTT TA-TTT
* *
23178804 TATTTT TCTTT TGATTTT TATTT TCATTT CAATTT TATTAT TATTT TATTT
1 TA-TTT TATTT T-A-TTT TATTT T-ATTT -TATTT TATT-T TATTT TATTT
23178855 T
1 T
23178856 GAATGACATA
Statistics
Matches: 74, Mismatches: 6, Indels: 22
0.73 0.06 0.22
Matches are distributed among these distances:
4 12 0.16
5 30 0.41
6 28 0.38
7 4 0.05
ACGTcount: A:0.19, C:0.04, G:0.01, T:0.76
Consensus pattern (5 bp):
TATTT
Found at i:23178799 original size:25 final size:24
Alignment explanation
Indices: 23178763--23178815 Score: 70
Period size: 25 Copynumber: 2.2 Consensus size: 24
23178753 AAGGTCCTAT
23178763 TTTTTTTATTTATTCTAATTTTTA
1 TTTTTTTATTTATTCTAATTTTTA
* * *
23178787 TTTTTTTATTTTATTTTTATTTTTC
1 TTTTTTTA-TTTATTCTAATTTTTA
23178812 TTTT
1 TTTT
23178816 GATTTTTATT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
24 8 0.32
25 17 0.68
ACGTcount: A:0.15, C:0.04, G:0.00, T:0.81
Consensus pattern (24 bp):
TTTTTTTATTTATTCTAATTTTTA
Found at i:23178803 original size:18 final size:20
Alignment explanation
Indices: 23178762--23178854 Score: 86
Period size: 18 Copynumber: 4.7 Consensus size: 20
23178752 CAAGGTCCTA
*
23178762 TTTT-TTTTATTTATTCTAAT
1 TTTTATTTTATTTATT-TTAT
23178782 TTTTATTTT-TTTATTTTAT
1 TTTTATTTTATTTATTTTAT
* *
23178801 TTTTATTTT-TCT-TTTGAT
1 TTTTATTTTATTTATTTTAT
23178819 TTTTATTTTCATTTCAATTTTAT
1 TTTTATTTT-ATTT--ATTTTAT
*
23178842 TATTATTTTATTT
1 TTTTATTTTATTT
23178855 TGAATGACAT
Statistics
Matches: 61, Mismatches: 6, Indels: 10
0.79 0.08 0.13
Matches are distributed among these distances:
18 14 0.23
19 14 0.23
20 12 0.20
21 4 0.07
22 4 0.07
23 13 0.21
ACGTcount: A:0.18, C:0.04, G:0.01, T:0.76
Consensus pattern (20 bp):
TTTTATTTTATTTATTTTAT
Found at i:23178822 original size:7 final size:6
Alignment explanation
Indices: 23178760--23178855 Score: 70
Period size: 6 Copynumber: 16.0 Consensus size: 6
23178750 TACAAGGTCC
* * * *
23178760 TATTTT TTTTATT TATTCT AATTTT TATTTT TTTATTT TATTTT TATTTT
1 TATTTT TATT-TT TATTTT TATTTT TATTTT TAT-TTT TATTTT TATTTT
* * * * * *
23178810 TCTTTT GATTTT TATTTT CA-TTT CAATTT TATTAT TA-TTT TATTTT
1 TATTTT TATTTT TATTTT TATTTT TATTTT TATTTT TATTTT TATTTT
23178856 GAATGACATA
Statistics
Matches: 69, Mismatches: 17, Indels: 8
0.73 0.18 0.09
Matches are distributed among these distances:
5 9 0.13
6 50 0.72
7 10 0.14
ACGTcount: A:0.19, C:0.04, G:0.01, T:0.76
Consensus pattern (6 bp):
TATTTT
Found at i:23184057 original size:55 final size:55
Alignment explanation
Indices: 23183998--23184104 Score: 153
Period size: 55 Copynumber: 1.9 Consensus size: 55
23183988 ACCATGGATG
* * *
23183998 TTCCACACGGGCGT-GTCGCACGCCCGTGTTGTTTTAGCAGGCTAGCCCACGGTTC
1 TTCCACACGGGCGTAAT-GCACGCCCGTGTTGTTCTAGCAGGCTAGACCACGGTTC
* *
23184053 TTCCACACGGGCGTAATGCACGCCCGTGTTGTTCTGGCAGGCTCGACCACGG
1 TTCCACACGGGCGTAATGCACGCCCGTGTTGTTCTAGCAGGCTAGACCACGG
23184105 CCATATCGAA
Statistics
Matches: 46, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
55 45 0.98
56 1 0.02
ACGTcount: A:0.14, C:0.33, G:0.30, T:0.23
Consensus pattern (55 bp):
TTCCACACGGGCGTAATGCACGCCCGTGTTGTTCTAGCAGGCTAGACCACGGTTC
Found at i:23188086 original size:122 final size:120
Alignment explanation
Indices: 23187871--23188095 Score: 369
Period size: 122 Copynumber: 1.9 Consensus size: 120
23187861 CCAAAATAAC
* * *
23187871 CATGAGAATGCGAATAGTAATGTCATGGGTATGAGGTTTTCCAAATCTTGATTTAACACGGAATG
1 CATGAGAATGAGAATAGTAATGTCATGGGTATGAGGTTTTCCAAAACTTGATTTAACACGAAATG
23187936 TATGATAACTAACCTAAGAATGAAAATTAAATGATAGACATTGGCATGGTAATAG
66 TATGATAACTAACCTAAGAATGAAAATTAAATGATAGACATTGGCATGGTAATAG
* *
23187991 CATGAGAATGAGCATAGTAATGTCATGGGTATGATGTTTTCCTAATAACTTGATTTAACACGAAA
1 CATGAGAATGAGAATAGTAATGTCATGGGTATGAGGTTTTCC-AA-AACTTGATTTAACACGAAA
* *
23188056 TGTATGATAGCTAACCTAAGAATGCAAATTAAATGATAGA
64 TGTATGATAACTAACCTAAGAATGAAAATTAAATGATAGA
23188096 ATAATTTGCA
Statistics
Matches: 96, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
120 39 0.41
121 2 0.02
122 55 0.57
ACGTcount: A:0.39, C:0.11, G:0.20, T:0.30
Consensus pattern (120 bp):
CATGAGAATGAGAATAGTAATGTCATGGGTATGAGGTTTTCCAAAACTTGATTTAACACGAAATG
TATGATAACTAACCTAAGAATGAAAATTAAATGATAGACATTGGCATGGTAATAG
Found at i:23205607 original size:26 final size:26
Alignment explanation
Indices: 23205551--23205607 Score: 87
Period size: 26 Copynumber: 2.2 Consensus size: 26
23205541 TACCTAGACC
* *
23205551 CCCTAGTTGATAAAATGACTATTATG
1 CCCTTGTTGATAAAATAACTATTATG
*
23205577 CCCTTGTTGATAAAATAACTGTTATG
1 CCCTTGTTGATAAAATAACTATTATG
23205603 CCCTT
1 CCCTT
23205608 ATGAGATGTA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.30, C:0.19, G:0.14, T:0.37
Consensus pattern (26 bp):
CCCTTGTTGATAAAATAACTATTATG
Found at i:23210736 original size:25 final size:25
Alignment explanation
Indices: 23210708--23210759 Score: 70
Period size: 25 Copynumber: 2.1 Consensus size: 25
23210698 TGGTAGCTTT
*
23210708 TCTTTCTCGTCTTCTCG-TAGATCAG
1 TCTTTCTCGTCTTC-AGATAGATCAG
*
23210733 TCTTTCTTGTCTTCAGATAGATCAG
1 TCTTTCTCGTCTTCAGATAGATCAG
23210758 TC
1 TC
23210760 ACTTTTATGT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
24 1 0.04
25 23 0.96
ACGTcount: A:0.15, C:0.25, G:0.15, T:0.44
Consensus pattern (25 bp):
TCTTTCTCGTCTTCAGATAGATCAG
Found at i:23211908 original size:15 final size:15
Alignment explanation
Indices: 23211890--23211918 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
23211880 TAATAACTTT
23211890 TTTCAACGGTTATAA
1 TTTCAACGGTTATAA
23211905 TTTCAACGGTTATA
1 TTTCAACGGTTATA
23211919 TCCTAACAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.31, C:0.14, G:0.14, T:0.41
Consensus pattern (15 bp):
TTTCAACGGTTATAA
Found at i:23212079 original size:20 final size:20
Alignment explanation
Indices: 23212041--23212079 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
23212031 ATTTCTCTGA
*
23212041 ATTTTATTCTCTTTGATTTT
1 ATTTTATTCTCTTTAATTTT
23212061 ATTTTATTC-CTTATAATTT
1 ATTTTATTCTCTT-TAATTT
23212080 ATAAAATAGT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 3 0.18
20 14 0.82
ACGTcount: A:0.21, C:0.10, G:0.03, T:0.67
Consensus pattern (20 bp):
ATTTTATTCTCTTTAATTTT
Found at i:23224656 original size:11 final size:11
Alignment explanation
Indices: 23224634--23224717 Score: 55
Period size: 11 Copynumber: 7.4 Consensus size: 11
23224624 GTTTAAAATT
23224634 TTTTATTTTTTA
1 TTTTA-TTTTTA
23224646 TTTTATTTTTA
1 TTTTATTTTTA
*
23224657 TTTATCTTCTTTCA
1 TTT-TATT-TTT-A
* *
23224671 GTAT-TTTTTA
1 TTTTATTTTTA
23224681 TTTTA-TTTTA
1 TTTTATTTTTA
* *
23224691 TTTTAATATTA
1 TTTTATTTTTA
*
23224702 TTTTAATTTTA
1 TTTTATTTTTA
23224713 GTTTT
1 -TTTT
23224718 CATAATTTTT
Statistics
Matches: 59, Mismatches: 7, Indels: 12
0.76 0.09 0.15
Matches are distributed among these distances:
10 13 0.22
11 26 0.44
12 14 0.24
13 4 0.07
14 2 0.03
ACGTcount: A:0.20, C:0.04, G:0.02, T:0.74
Consensus pattern (11 bp):
TTTTATTTTTA
Found at i:23224704 original size:21 final size:22
Alignment explanation
Indices: 23224678--23224730 Score: 65
Period size: 21 Copynumber: 2.5 Consensus size: 22
23224668 TCAGTATTTT
23224678 TTATTTTATTTTA-TTTTAATA
1 TTATTTTATTTTAGTTTTAATA
*
23224699 TTATTTTAATTTTAGTTTTCATA
1 TTATTTT-ATTTTAGTTTTAATA
*
23224722 AT-TTTTATT
1 TTATTTTATT
23224731 GAATAATTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
21 10 0.36
22 10 0.36
23 8 0.29
ACGTcount: A:0.26, C:0.02, G:0.02, T:0.70
Consensus pattern (22 bp):
TTATTTTATTTTAGTTTTAATA
Found at i:23224712 original size:6 final size:5
Alignment explanation
Indices: 23224641--23224717 Score: 50
Period size: 5 Copynumber: 14.8 Consensus size: 5
23224631 ATTTTTTATT
* * * *
23224641 TTTTA TTTTA TTTT- TATTTA TCTTC TTTCA GTATT- TTTTA TTTTA TTTTA
1 TTTTA TTTTA TTTTA T-TTTA TTTTA TTTTA -TTTTA TTTTA TTTTA TTTTA
*
23224691 TTTTAA TATTA TTTTAA TTTTA GTTTT
1 TTTT-A TTTTA TTTT-A TTTTA -TTTT
23224718 CATAATTTTT
Statistics
Matches: 55, Mismatches: 10, Indels: 13
0.71 0.13 0.17
Matches are distributed among these distances:
4 4 0.07
5 35 0.64
6 16 0.29
ACGTcount: A:0.21, C:0.04, G:0.03, T:0.73
Consensus pattern (5 bp):
TTTTA
Found at i:23224727 original size:22 final size:22
Alignment explanation
Indices: 23224679--23224728 Score: 59
Period size: 22 Copynumber: 2.3 Consensus size: 22
23224669 CAGTATTTTT
*
23224679 TATTTT-ATTTTATTTTAATAT
1 TATTTTAATTTTATTTTAATAA
*
23224700 TATTTTAATTTTAGTTTTCATAA
1 TATTTTAATTTTA-TTTTAATAA
23224723 T-TTTTA
1 TATTTTA
23224729 TTGAATAATT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
21 6 0.24
22 11 0.44
23 8 0.32
ACGTcount: A:0.28, C:0.02, G:0.02, T:0.68
Consensus pattern (22 bp):
TATTTTAATTTTATTTTAATAA
Found at i:23228066 original size:14 final size:17
Alignment explanation
Indices: 23228047--23228088 Score: 54
Period size: 17 Copynumber: 2.6 Consensus size: 17
23228037 TCCAAAAATG
23228047 AATTTATT-TT-A-TTA
1 AATTTATTATTAATTTA
23228061 AATTTATTATTAATTTA
1 AATTTATTATTAATTTA
*
23228078 AATTTAATATT
1 AATTTATTATT
23228089 TATCTTATAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
14 8 0.33
15 2 0.08
16 1 0.04
17 13 0.54
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (17 bp):
AATTTATTATTAATTTA
Found at i:23231950 original size:26 final size:26
Alignment explanation
Indices: 23231919--23231970 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
23231909 ATTCAGTTTG
23231919 AGTATTGATTGAATCGACTATTTGAA
1 AGTATTGATTGAATCGACTATTTGAA
23231945 AGTATTGATTGAATCGACTATTTGAA
1 AGTATTGATTGAATCGACTATTTGAA
23231971 CACCCCTAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.35, C:0.08, G:0.19, T:0.38
Consensus pattern (26 bp):
AGTATTGATTGAATCGACTATTTGAA
Found at i:23245294 original size:6 final size:6
Alignment explanation
Indices: 23245283--23245315 Score: 57
Period size: 6 Copynumber: 5.5 Consensus size: 6
23245273 TCCTCCTATC
*
23245283 TTTTTA TTTTTA TTTTTA TTTTTA TTTTAA TTT
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTT
23245316 AATTATTTTC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (6 bp):
TTTTTA
Found at i:23261776 original size:3 final size:3
Alignment explanation
Indices: 23261768--23261799 Score: 55
Period size: 3 Copynumber: 10.3 Consensus size: 3
23261758 TTTTATTCCC
23261768 ATT ATT ATT ATT ATT ATT ATT ATT ATTT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT A-TT ATT A
23261800 GTCTATTTAT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 25 0.89
4 3 0.11
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:23262403 original size:21 final size:21
Alignment explanation
Indices: 23262357--23262407 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 21
23262347 TTTATTGTTA
23262357 TTTATTTTAGACCTTTCATATG
1 TTTATTTTAGA-CTTTCATATG
*
23262379 -TTATTTTAGA-TTGTTATATG
1 TTTATTTTAGACTT-TCATATG
23262399 TTTATTTTA
1 TTTATTTTA
23262408 ATTCGCTCAT
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
19 2 0.08
20 6 0.23
21 18 0.69
ACGTcount: A:0.24, C:0.06, G:0.10, T:0.61
Consensus pattern (21 bp):
TTTATTTTAGACTTTCATATG
Found at i:23265009 original size:21 final size:20
Alignment explanation
Indices: 23264985--23265050 Score: 64
Period size: 21 Copynumber: 3.2 Consensus size: 20
23264975 AATAAAAATT
23264985 TATAAACAAAGTATATAATAA
1 TATAAACAAA-TATATAATAA
*
23265006 TATAAAC-CATATGATAAGTAA
1 TATAAACAAATAT-ATAA-TAA
* *
23265027 TATAAATATATATAT-ATAA
1 TATAAACAAATATATAATAA
23265046 TATAA
1 TATAA
23265051 TATATAATAA
Statistics
Matches: 39, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
19 11 0.28
20 6 0.15
21 18 0.46
22 4 0.10
ACGTcount: A:0.58, C:0.05, G:0.05, T:0.33
Consensus pattern (20 bp):
TATAAACAAATATATAATAA
Found at i:23265058 original size:12 final size:12
Alignment explanation
Indices: 23265024--23265059 Score: 56
Period size: 12 Copynumber: 3.0 Consensus size: 12
23265014 ATATGATAAG
23265024 TAATATA-AATA
1 TAATATATAATA
23265035 TATATATATAATA
1 TA-ATATATAATA
23265048 TAATATATAATA
1 TAATATATAATA
23265060 AAAGGAAGAT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
11 2 0.09
12 15 0.65
13 6 0.26
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (12 bp):
TAATATATAATA
Found at i:23265153 original size:130 final size:134
Alignment explanation
Indices: 23264941--23265184 Score: 279
Period size: 130 Copynumber: 1.8 Consensus size: 134
23264931 TAAAGTAATG
** * *
23264941 TAAGGAATAATATATGGTAAAATATATAGCATATAATAAAAATTTATAAACAAAGTATATAATAA
1 TAAGGAATAATATATAATAAAATATATAG-A-ATAATAAAAATATATAAACAAAATATATAATAA
* *
23265006 TATAAACCATATGATAA-G-TAATATAAATA-TATATATATAAT-ATAATATATAATAAAAGGAA
64 TATAAAACATATCATAAGGATAATATAAATACTAT-TATATAATAATAATATATAATAAAAGGAA
23265067 GATATTA
128 GATATTA
* * *
23265074 TAAGGAATAATATATAATAAAATATGATAG-GTAAT-AAAATATATAAATAAAATATAGTGA-AA
1 TAAGGAATAATATATAATAAAATAT-ATAGAATAATAAAAATATATAAACAAAATATA-TAATAA
* *
23265136 TATAAATAC-TATCATAAGGATAATATATATACTATTATTTAATAATAAT
64 TATAAA-ACATATCATAAGGATAATATAAATACTATTATATAATAATAAT
23265185 TTTTAAAAAA
Statistics
Matches: 93, Mismatches: 11, Indels: 14
0.79 0.09 0.12
Matches are distributed among these distances:
130 33 0.35
131 8 0.09
132 17 0.18
133 31 0.33
134 4 0.04
ACGTcount: A:0.56, C:0.03, G:0.08, T:0.33
Consensus pattern (134 bp):
TAAGGAATAATATATAATAAAATATATAGAATAATAAAAATATATAAACAAAATATATAATAATA
TAAAACATATCATAAGGATAATATAAATACTATTATATAATAATAATATATAATAAAAGGAAGAT
ATTA
Found at i:23265293 original size:14 final size:14
Alignment explanation
Indices: 23265276--23265311 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
23265266 AATATAAGGA
23265276 ATAATATATA-TAGT
1 ATAATATATAGT-GT
23265290 ATAATATATAGTGT
1 ATAATATATAGTGT
23265304 ATAATATA
1 ATAATATA
23265312 ATTTATAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
14 20 0.95
15 1 0.05
ACGTcount: A:0.50, C:0.00, G:0.08, T:0.42
Consensus pattern (14 bp):
ATAATATATAGTGT
Found at i:23267092 original size:31 final size:31
Alignment explanation
Indices: 23267032--23267100 Score: 88
Period size: 31 Copynumber: 2.2 Consensus size: 31
23267022 AATTATAAAA
*
23267032 TGATCACTCAATTATTATTAAATTTCTTTTT
1 TGATCACTCAATTATTATCAAATTTCTTTTT
*
23267063 TGGTCACTCAATTA-T-TCAAATTTACCTTTTT
1 TGATCACTCAATTATTATCAAATTT--CTTTTT
23267094 TGATCAC
1 TGATCAC
23267101 CCAACTATCT
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
29 7 0.21
30 1 0.03
31 25 0.76
ACGTcount: A:0.28, C:0.17, G:0.06, T:0.49
Consensus pattern (31 bp):
TGATCACTCAATTATTATCAAATTTCTTTTT
Found at i:23267274 original size:57 final size:58
Alignment explanation
Indices: 23267152--23267276 Score: 144
Period size: 57 Copynumber: 2.2 Consensus size: 58
23267142 CCAACTAGTG
* ** *
23267152 ACCAAAAAGACAAAATCGAATAGTTGGGTGACCATTTTGTAACTTTTCATATTTGGGTG
1 ACCAAAAA-ACAAAATCGAATAGTTGGGTGACCATTTTGTAACTTTTCATAGTTAAGTA
* * * * * *
23267211 ATCAAAAAA-AATATCTAATAGTTTGGTGACTATTTTGTAATTTTTCATAGTTAAGTA
1 ACCAAAAAACAAAATCGAATAGTTGGGTGACCATTTTGTAACTTTTCATAGTTAAGTA
23267268 ACCAAAAAA
1 ACCAAAAAA
23267277 GAAACCATAA
Statistics
Matches: 55, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
57 47 0.85
58 1 0.02
59 7 0.13
ACGTcount: A:0.39, C:0.11, G:0.15, T:0.34
Consensus pattern (58 bp):
ACCAAAAAACAAAATCGAATAGTTGGGTGACCATTTTGTAACTTTTCATAGTTAAGTA
Found at i:23269922 original size:7 final size:7
Alignment explanation
Indices: 23269910--23269937 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
23269900 CGTTAGCTTT
23269910 ATTGTTA
1 ATTGTTA
23269917 ATTGTTA
1 ATTGTTA
23269924 ATTGTTA
1 ATTGTTA
23269931 ATTGTTA
1 ATTGTTA
23269938 CCTTAATTGC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.29, C:0.00, G:0.14, T:0.57
Consensus pattern (7 bp):
ATTGTTA
Found at i:23274691 original size:33 final size:34
Alignment explanation
Indices: 23274614--23274701 Score: 101
Period size: 34 Copynumber: 2.6 Consensus size: 34
23274604 TTTCAGTTAA
*
23274614 GGCCTTAGCCCATTTCAGAATCAGAAACAGTGTG
1 GGCCTAAGCCCATTTCAGAATCAGAAACAGTGTG
* *
23274648 GGCCTGAGCCCATTTCAGTAA-CA-ATATCAGTG-G
1 GGCCTAAGCCCATTTCAG-AATCAGA-AACAGTGTG
*
23274681 GGCCTAAGCCCATTACAGAAT
1 GGCCTAAGCCCATTTCAGAAT
23274702 TAGTATAGTA
Statistics
Matches: 47, Mismatches: 4, Indels: 7
0.81 0.07 0.12
Matches are distributed among these distances:
32 2 0.04
33 18 0.38
34 25 0.53
35 2 0.04
ACGTcount: A:0.30, C:0.25, G:0.23, T:0.23
Consensus pattern (34 bp):
GGCCTAAGCCCATTTCAGAATCAGAAACAGTGTG
Found at i:23277035 original size:60 final size:60
Alignment explanation
Indices: 23276959--23277093 Score: 168
Period size: 60 Copynumber: 2.2 Consensus size: 60
23276949 GTGTTAACTT
* *
23276959 GGCCTTAGCCCATATCAATATTAATCTGGGCCATAGCCC-CTTAC-AGTATC-AGAGTATATTG
1 GGCC-TAGCCCATATCAATATCAATCTGGGCCATAGCCCTATTACAAG--TCGAGA-TATATTG
* *
23277020 GGCCTAGCCCATATCAGTATCAATCTGGGCCGTAGCCCTATTACAAGTCGAGATATATTG
1 GGCCTAGCCCATATCAATATCAATCTGGGCCATAGCCCTATTACAAGTCGAGATATATTG
*
23277080 GGCCTTGCCCATAT
1 GGCCTAGCCCATAT
23277094 TAACATAGTT
Statistics
Matches: 66, Mismatches: 5, Indels: 7
0.85 0.06 0.09
Matches are distributed among these distances:
60 53 0.80
61 11 0.17
62 2 0.03
ACGTcount: A:0.26, C:0.26, G:0.20, T:0.28
Consensus pattern (60 bp):
GGCCTAGCCCATATCAATATCAATCTGGGCCATAGCCCTATTACAAGTCGAGATATATTG
Found at i:23277057 original size:28 final size:27
Alignment explanation
Indices: 23276959--23277057 Score: 74
Period size: 28 Copynumber: 3.4 Consensus size: 27
23276949 GTGTTAACTT
* *
23276959 GGCCTTAGCCCATATCAATATTAATCTG
1 GGCC-TAGCCCATATCAGTATCAATCTG
* *
23276987 GGCCATAGCCCCT-TACAGTATCAGAGTATATTG
1 GGCC-TAGCCCATAT-CAGTATC--A--AT-CTG
23277020 GGCCTAGCCCATATCAGTATCAATCTG
1 GGCCTAGCCCATATCAGTATCAATCTG
23277047 GGCCGTAGCCC
1 GGCC-TAGCCC
23277058 TATTACAAGT
Statistics
Matches: 56, Mismatches: 7, Indels: 16
0.71 0.09 0.20
Matches are distributed among these distances:
27 7 0.12
28 24 0.43
30 2 0.04
32 16 0.29
33 7 0.12
ACGTcount: A:0.25, C:0.28, G:0.20, T:0.26
Consensus pattern (27 bp):
GGCCTAGCCCATATCAGTATCAATCTG
Found at i:23279172 original size:19 final size:18
Alignment explanation
Indices: 23279135--23279178 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
23279125 ATACATGCAG
23279135 TAAT-ATTTTTCTAATAA
1 TAATAATTTTTCTAATAA
*
23279152 TAATAATTTTATCTCATAA
1 TAATAATTTT-TCTAATAA
*
23279171 TACTAATT
1 TAATAATT
23279179 AAAATTTCGT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 4 0.17
18 5 0.22
19 14 0.61
ACGTcount: A:0.41, C:0.09, G:0.00, T:0.50
Consensus pattern (18 bp):
TAATAATTTTTCTAATAA
Found at i:23279708 original size:36 final size:35
Alignment explanation
Indices: 23279641--23279710 Score: 86
Period size: 36 Copynumber: 2.0 Consensus size: 35
23279631 CTCACTTCAA
* * * *
23279641 ATCTCCCTTAACTCTCTCTTAAAATCTCTCCACAT
1 ATCTCCCTCAACTCCCTCCTAAAATCCCTCCACAT
*
23279676 ATCTCTCCTCAACTCCCTCCTACAATCCCTCCACA
1 ATCTC-CCTCAACTCCCTCCTAAAATCCCTCCACA
23279711 ACTAGTTCAA
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
35 5 0.17
36 24 0.83
ACGTcount: A:0.24, C:0.44, G:0.00, T:0.31
Consensus pattern (35 bp):
ATCTCCCTCAACTCCCTCCTAAAATCCCTCCACAT
Found at i:23283094 original size:18 final size:19
Alignment explanation
Indices: 23283061--23283097 Score: 67
Period size: 18 Copynumber: 2.0 Consensus size: 19
23283051 TCGCTGGACT
23283061 AGGGTTAAAGGTGTTACCA
1 AGGGTTAAAGGTGTTACCA
23283080 AGGGTTAAA-GTGTTACCA
1 AGGGTTAAAGGTGTTACCA
23283098 GACGAATCGA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 9 0.50
19 9 0.50
ACGTcount: A:0.32, C:0.11, G:0.30, T:0.27
Consensus pattern (19 bp):
AGGGTTAAAGGTGTTACCA
Found at i:23284945 original size:43 final size:42
Alignment explanation
Indices: 23284889--23284988 Score: 101
Period size: 42 Copynumber: 2.3 Consensus size: 42
23284879 CAGATGTGGC
* * * *
23284889 CTTACATGTAATCAAATATCAATGCCACTATCCCAGACAGGGT
1 CTTACACGAAATCAAAGA-CAATGCCAATATCCCAGACAGGGT
* * * *
23284932 CTTACACGAAATCATAGACGATGCCAATGTCCCAGACATGGT
1 CTTACACGAAATCAAAGACAATGCCAATATCCCAGACAGGGT
*
23284974 TTTACACGTAAATCA
1 CTTACACG-AAATCA
23284989 CAAATCGATG
Statistics
Matches: 47, Mismatches: 9, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
42 27 0.57
43 20 0.43
ACGTcount: A:0.35, C:0.25, G:0.15, T:0.25
Consensus pattern (42 bp):
CTTACACGAAATCAAAGACAATGCCAATATCCCAGACAGGGT
Found at i:23288719 original size:26 final size:26
Alignment explanation
Indices: 23288683--23288735 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
23288673 TCTCATAGGA
23288683 TAAGAATTCCTTCTGAAATTAAACAG
1 TAAGAATTCCTTCTGAAATTAAACAG
23288709 TAAGAATTCCTTCTGAAATTAAACAG
1 TAAGAATTCCTTCTGAAATTAAACAG
23288735 T
1 T
23288736 CACATATATT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.42, C:0.15, G:0.11, T:0.32
Consensus pattern (26 bp):
TAAGAATTCCTTCTGAAATTAAACAG
Found at i:23291572 original size:42 final size:43
Alignment explanation
Indices: 23291482--23291597 Score: 123
Period size: 43 Copynumber: 2.7 Consensus size: 43
23291472 TCCCAGACGC
* *
23291482 GGTCTTACATGTAATCAAATATCGATGCC-ATTGTCCCAGAAA
1 GGTCTTACACGAAATCAAATATCGATGCCAATTGTCCCAGAAA
* * *
23291524 GTGTCTTACACGAAATCATATAT-GATGCCAATT-TTCCAGACAT
1 G-GTCTTACACGAAATCAAATATCGATGCCAATTGTCCCAGA-AA
*
23291567 GGTCTTTCACGAAATCACAA-ATCGATGCCAA
1 GGTCTTACACGAAATCA-AATATCGATGCCAA
23291598 CGCCCCAAAA
Statistics
Matches: 62, Mismatches: 7, Indels: 9
0.79 0.09 0.12
Matches are distributed among these distances:
42 30 0.48
43 32 0.52
ACGTcount: A:0.34, C:0.22, G:0.16, T:0.28
Consensus pattern (43 bp):
GGTCTTACACGAAATCAAATATCGATGCCAATTGTCCCAGAAA
Found at i:23295239 original size:43 final size:43
Alignment explanation
Indices: 23295128--23295242 Score: 153
Period size: 43 Copynumber: 2.7 Consensus size: 43
23295118 TGTGTTTTCG
* *
23295128 TGTAAGACCACGTCTGGGACGTTGGCA-TCATATTTGATTTCA
1 TGTAAGACCACGTCTGGGACGTTGGCATTGATATTTGATTACA
* **
23295170 TGTAAGACC-CTATCTGGGACAATGGCATTGATATTTGATTACA
1 TGTAAGACCAC-GTCTGGGACGTTGGCATTGATATTTGATTACA
*
23295213 TGTAAGACCACGTCTGGGATGTTGGCATTG
1 TGTAAGACCACGTCTGGGACGTTGGCATTG
23295243 TACAAACTTT
Statistics
Matches: 61, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
41 1 0.02
42 22 0.36
43 37 0.61
44 1 0.02
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.32
Consensus pattern (43 bp):
TGTAAGACCACGTCTGGGACGTTGGCATTGATATTTGATTACA
Found at i:23295960 original size:34 final size:34
Alignment explanation
Indices: 23295877--23295961 Score: 109
Period size: 34 Copynumber: 2.5 Consensus size: 34
23295867 GGTCATTTTG
* *
23295877 GGTAAGATTGTGGTAAGTGCTTATTTTGGAGTTT
1 GGTAAGATTGTGGTATGTGCTTATTTTGGAGATT
* *
23295911 GGTAAGTTTTTGGTATGTGCTTAATTTTGGA-ATT
1 GGTAAGATTGTGGTATGTGCTT-ATTTTGGAGATT
*
23295945 GGTAAGAATGTGGTATG
1 GGTAAGATTGTGGTATG
23295962 AAATTGAATA
Statistics
Matches: 43, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
34 35 0.81
35 8 0.19
ACGTcount: A:0.22, C:0.02, G:0.32, T:0.44
Consensus pattern (34 bp):
GGTAAGATTGTGGTATGTGCTTATTTTGGAGATT
Found at i:23300181 original size:20 final size:20
Alignment explanation
Indices: 23300156--23300193 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
23300146 GTCACATATA
23300156 TCATGAACTCAGACCACAAC
1 TCATGAACTCAGACCACAAC
* *
23300176 TCATGAGCTCAGATCACA
1 TCATGAACTCAGACCACA
23300194 GAGTTCCTAG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.37, C:0.32, G:0.13, T:0.18
Consensus pattern (20 bp):
TCATGAACTCAGACCACAAC
Found at i:23302830 original size:35 final size:35
Alignment explanation
Indices: 23302791--23302866 Score: 93
Period size: 35 Copynumber: 2.2 Consensus size: 35
23302781 AATTTAATTT
23302791 ATATTTT-ATTATCTGATT-TAAATATAATTTGTAAA
1 ATATTTTGA-TATCTGATTATAAATATAATTT-TAAA
* * *
23302826 ATATTTTGATATTTTATTATGAATATAATTTTAAA
1 ATATTTTGATATCTGATTATAAATATAATTTTAAA
23302861 ATATTT
1 ATATTT
23302867 AAATTTTATT
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
35 24 0.67
36 12 0.33
ACGTcount: A:0.39, C:0.01, G:0.05, T:0.54
Consensus pattern (35 bp):
ATATTTTGATATCTGATTATAAATATAATTTTAAA
Found at i:23304635 original size:26 final size:26
Alignment explanation
Indices: 23304578--23304647 Score: 70
Period size: 26 Copynumber: 2.7 Consensus size: 26
23304568 AATTTTCTTG
* * *
23304578 AAATTTTACCA-GGGAAAAATTGTCA
1 AAATTTTACTAGGGGTAAAATCGTCA
* *
23304603 AATTTTTACTAGGGGTAAAATCGTTA
1 AAATTTTACTAGGGGTAAAATCGTCA
* *
23304629 AAATTTTATTGGGGGTAAA
1 AAATTTTACTAGGGGTAAA
23304648 GTAGGGATGA
Statistics
Matches: 36, Mismatches: 8, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
25 9 0.25
26 27 0.75
ACGTcount: A:0.39, C:0.07, G:0.20, T:0.34
Consensus pattern (26 bp):
AAATTTTACTAGGGGTAAAATCGTCA
Found at i:23307883 original size:27 final size:27
Alignment explanation
Indices: 23307744--23307872 Score: 195
Period size: 27 Copynumber: 4.8 Consensus size: 27
23307734 CTTACCATAA
*
23307744 AAGGGAAAAACAATCATTTTACCCCAT
1 AAGGGCAAAACAATCATTTTACCCCAT
23307771 AAGGGCAAAACAATCATTTTACCCCAT
1 AAGGGCAAAACAATCATTTTACCCCAT
*
23307798 AAGGGCAAAACAATCATTTTACCACAT
1 AAGGGCAAAACAATCATTTTACCCCAT
* * *
23307825 AAAGGCAAAATAGTCATTTTACCCCAT
1 AAGGGCAAAACAATCATTTTACCCCAT
* *
23307852 AAGGGCAAAATAGTCATTTTA
1 AAGGGCAAAACAATCATTTTA
23307873 TCGATTAAGG
Statistics
Matches: 95, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 95 1.00
ACGTcount: A:0.43, C:0.21, G:0.12, T:0.24
Consensus pattern (27 bp):
AAGGGCAAAACAATCATTTTACCCCAT
Found at i:23308015 original size:18 final size:18
Alignment explanation
Indices: 23307989--23308030 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 18
23307979 CATATTGCGG
23307989 GCCCATGTGGGCCCATAT-
1 GCCCATGT-GGCCCATATA
*
23308007 GCCCGTGTGGCCCATATA
1 GCCCATGTGGCCCATATA
23308025 GCCCAT
1 GCCCAT
23308031 AAATGGCCTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
17 9 0.43
18 12 0.57
ACGTcount: A:0.17, C:0.36, G:0.26, T:0.21
Consensus pattern (18 bp):
GCCCATGTGGCCCATATA
Found at i:23311788 original size:56 final size:56
Alignment explanation
Indices: 23311728--23311856 Score: 186
Period size: 56 Copynumber: 2.3 Consensus size: 56
23311718 AGACAGGGTT
* *
23311728 TTACTTGCACACATGTAACAGAATCACATATCGATGCCAACGTATTAAATGCGGTC
1 TTACTTGCACACATATAACAGAATCACATATCGACGCCAACGTATTAAATGCGGTC
* * * *
23311784 TTACTTGCACACATATAACGGGATCACATATCGACGCCAACGTATTACATGTGGTC
1 TTACTTGCACACATATAACAGAATCACATATCGACGCCAACGTATTAAATGCGGTC
**
23311840 TTACCCGCACACATATA
1 TTACTTGCACACATATA
23311857 TCGATGCCAT
Statistics
Matches: 65, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
56 65 1.00
ACGTcount: A:0.33, C:0.26, G:0.16, T:0.26
Consensus pattern (56 bp):
TTACTTGCACACATATAACAGAATCACATATCGACGCCAACGTATTAAATGCGGTC
Found at i:23324596 original size:40 final size:40
Alignment explanation
Indices: 23324541--23324717 Score: 309
Period size: 40 Copynumber: 4.4 Consensus size: 40
23324531 TGTGCATAGT
*
23324541 ATTCGTGCGGGTTATTGTAACCGGGTTAAGTCCCGAAGGC
1 ATTCGTGCGGGTTATTATAACCGGGTTAAGTCCCGAAGGC
*
23324581 ATTCGTGCGGGTTATTATAACCGGGGTAAGTCCCGAAGGC
1 ATTCGTGCGGGTTATTATAACCGGGTTAAGTCCCGAAGGC
* *
23324621 ATTCGTGCGGGTTATTATAACCGGGCTAAGTCCCAAAGGC
1 ATTCGTGCGGGTTATTATAACCGGGTTAAGTCCCGAAGGC
23324661 ATTCGTGCGGGTTATTATAACCGGGTTAAGTCCCGAAGGC
1 ATTCGTGCGGGTTATTATAACCGGGTTAAGTCCCGAAGGC
*
23324701 ATTCGTGCTGGTTATTA
1 ATTCGTGCGGGTTATTA
23324718 CATCCGAGCC
Statistics
Matches: 130, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 130 1.00
ACGTcount: A:0.22, C:0.20, G:0.30, T:0.28
Consensus pattern (40 bp):
ATTCGTGCGGGTTATTATAACCGGGTTAAGTCCCGAAGGC
Found at i:23331923 original size:40 final size:40
Alignment explanation
Indices: 23331868--23332044 Score: 291
Period size: 40 Copynumber: 4.4 Consensus size: 40
23331858 TGTGCATAGT
*
23331868 ATTCGTGCGGGTTATTGTAACCGGGTTAAGTCCCGAAGGC
1 ATTCGTGCGGGTTATTATAACCGGGTTAAGTCCCGAAGGC
*
23331908 ATTCGTGCGGGTTATTATAACCGGGGTAAGTCCCGAAGGC
1 ATTCGTGCGGGTTATTATAACCGGGTTAAGTCCCGAAGGC
* * *
23331948 ATTCGTGTGGGTTATTATAATCGGGCTAAGTCCCGAAGGC
1 ATTCGTGCGGGTTATTATAACCGGGTTAAGTCCCGAAGGC
*
23331988 ATTCGTGCGGGTTATTATAACTGGGTTAAGTCCCGAAGGC
1 ATTCGTGCGGGTTATTATAACCGGGTTAAGTCCCGAAGGC
*
23332028 ATTCGTGCTGGTTATTA
1 ATTCGTGCGGGTTATTA
23332045 CATCCGAGCC
Statistics
Matches: 127, Mismatches: 10, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 127 1.00
ACGTcount: A:0.21, C:0.18, G:0.31, T:0.30
Consensus pattern (40 bp):
ATTCGTGCGGGTTATTATAACCGGGTTAAGTCCCGAAGGC
Found at i:23335414 original size:22 final size:18
Alignment explanation
Indices: 23335367--23335404 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
23335357 CTTCGATGCT
23335367 ATAATGTTTATGAAATGA
1 ATAATGTTTATGAAATGA
23335385 ATAATGTTTATGAAATGA
1 ATAATGTTTATGAAATGA
23335403 AT
1 AT
23335405 GTTAAATGTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.45, C:0.00, G:0.16, T:0.39
Consensus pattern (18 bp):
ATAATGTTTATGAAATGA
Found at i:23335512 original size:52 final size:52
Alignment explanation
Indices: 23335429--23335529 Score: 132
Period size: 52 Copynumber: 1.9 Consensus size: 52
23335419 ATTGTCCGAA
** * *
23335429 AATGCCTTTAACCCTAGTCCGGCGACGGATACGAGTTAGGGGTGTTACAGGT
1 AATGCCTTTAACCCTAGTCCAACGACAGATACGAGTTAGGGGAGTTACAGGT
* *
23335481 AATGCCTCTTAA-CCTATTCCAACGACAGATACGGGTTAGGGGAGTTACA
1 AATGCCT-TTAACCCTAGTCCAACGACAGATACGAGTTAGGGGAGTTACA
23335530 ATTGGAGTAT
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
52 38 0.90
53 4 0.10
ACGTcount: A:0.27, C:0.22, G:0.27, T:0.25
Consensus pattern (52 bp):
AATGCCTTTAACCCTAGTCCAACGACAGATACGAGTTAGGGGAGTTACAGGT
Found at i:23339865 original size:31 final size:31
Alignment explanation
Indices: 23339822--23339885 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
23339812 CCTTTTCATA
23339822 TTTCATAATTCATAACACTGGGCCGAAGCCT
1 TTTCATAATTCATAACACTGGGCCGAAGCCT
* **
23339853 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATAATTCATAACACTGGGCCGAAGCCT
23339884 TT
1 TT
23339886 ACTGTAAACG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.25, C:0.23, G:0.16, T:0.36
Consensus pattern (31 bp):
TTTCATAATTCATAACACTGGGCCGAAGCCT
Found at i:23340125 original size:24 final size:24
Alignment explanation
Indices: 23340078--23340195 Score: 154
Period size: 23 Copynumber: 5.0 Consensus size: 24
23340068 GCTTTATCAT
*
23340078 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
*
23340103 GTAACTGGGGCA-AAGCCCTTTTTA
1 ATAACTGGGGCATAAGCCC-TTTTA
23340127 ATAACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
23340150 ATAACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
*
23340173 ATAATTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
23340196 TCACTTCCTC
Statistics
Matches: 85, Mismatches: 4, Indels: 9
0.87 0.04 0.09
Matches are distributed among these distances:
23 46 0.54
24 26 0.31
25 13 0.15
ACGTcount: A:0.27, C:0.21, G:0.22, T:0.30
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:23340267 original size:9 final size:9
Alignment explanation
Indices: 23340253--23340305 Score: 52
Period size: 9 Copynumber: 5.4 Consensus size: 9
23340243 ACATCATGTG
23340253 CATATCATA
1 CATATCATA
*
23340262 CATATCATGTG
1 CATATCA--TA
23340273 CATATCATA
1 CATATCATA
*
23340282 CATGTCATGTA
1 CATATCA--TA
23340293 CATATCATA
1 CATATCATA
23340302 CATA
1 CATA
23340306 CCACGTTTTT
Statistics
Matches: 36, Mismatches: 4, Indels: 8
0.75 0.08 0.17
Matches are distributed among these distances:
9 20 0.56
11 16 0.44
ACGTcount: A:0.38, C:0.21, G:0.08, T:0.34
Consensus pattern (9 bp):
CATATCATA
Found at i:23340270 original size:20 final size:20
Alignment explanation
Indices: 23340245--23340305 Score: 104
Period size: 20 Copynumber: 3.0 Consensus size: 20
23340235 TTATGAATAC
23340245 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
23340265 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
* *
23340285 GTCATGTACATATCATACAT
1 ATCATGTGCATATCATACAT
23340305 A
1 A
23340306 CCACGTTTTT
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 38 1.00
ACGTcount: A:0.36, C:0.20, G:0.10, T:0.34
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:23340294 original size:11 final size:11
Alignment explanation
Indices: 23340245--23340300 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 11
23340235 TTATGAATAC
*
23340245 ATCATGTGCAT
1 ATCATGTACAT
23340256 ATCA--TACAT
1 ATCATGTACAT
*
23340265 ATCATGTGCAT
1 ATCATGTACAT
23340276 ATCA--TACAT
1 ATCATGTACAT
*
23340285 GTCATGTACAT
1 ATCATGTACAT
23340296 ATCAT
1 ATCAT
23340301 ACATACCACG
Statistics
Matches: 36, Mismatches: 5, Indels: 8
0.73 0.10 0.16
Matches are distributed among these distances:
9 15 0.42
11 21 0.58
ACGTcount: A:0.34, C:0.20, G:0.11, T:0.36
Consensus pattern (11 bp):
ATCATGTACAT
Found at i:23340380 original size:25 final size:25
Alignment explanation
Indices: 23340348--23340395 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
23340338 ATATTTAAAC
* * *
23340348 CCTAGGGGTATAATGGTTATTTTTA
1 CCTAGGGGCAAAATGGTCATTTTTA
23340373 CCTAGGGGCAAAATGGTCATTTT
1 CCTAGGGGCAAAATGGTCATTTT
23340396 CATGTTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.25, C:0.12, G:0.25, T:0.38
Consensus pattern (25 bp):
CCTAGGGGCAAAATGGTCATTTTTA
Found at i:23346037 original size:6 final size:6
Alignment explanation
Indices: 23346019--23346094 Score: 50
Period size: 6 Copynumber: 12.3 Consensus size: 6
23346009 AAGAAACATT
* * *
23346019 ATCAGA A-CTAGA ATCAGA ATCAG- GTGACAGA ATTAGA ATCAGA ATCAGT
1 ATCAGA ATC-AGA ATCAGA ATCAGA AT--CAGA ATCAGA ATCAGA ATCAGA
*
23346068 ATCAGGTA A-CAGA ATCAAA ATCAGA AT
1 ATCA-G-A ATCAGA ATCAGA ATCAGA AT
23346095 GTGAATGCAA
Statistics
Matches: 54, Mismatches: 8, Indels: 16
0.69 0.10 0.21
Matches are distributed among these distances:
5 4 0.07
6 41 0.76
7 7 0.13
8 2 0.04
ACGTcount: A:0.47, C:0.14, G:0.18, T:0.20
Consensus pattern (6 bp):
ATCAGA
Found at i:23346064 original size:31 final size:31
Alignment explanation
Indices: 23346028--23346094 Score: 98
Period size: 31 Copynumber: 2.2 Consensus size: 31
23346018 TATCAGAACT
* * *
23346028 AGAATCAGAATCAGGTGACAGAATTAGAATC
1 AGAATCAGAATCAGGTAACAGAATCAAAATC
*
23346059 AGAATCAGTATCAGGTAACAGAATCAAAATC
1 AGAATCAGAATCAGGTAACAGAATCAAAATC
23346090 AGAAT
1 AGAAT
23346095 GTGAATGCAA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.48, C:0.13, G:0.19, T:0.19
Consensus pattern (31 bp):
AGAATCAGAATCAGGTAACAGAATCAAAATC
Found at i:23346633 original size:27 final size:27
Alignment explanation
Indices: 23346603--23346932 Score: 326
Period size: 27 Copynumber: 12.2 Consensus size: 27
23346593 AACACCCTAG
*
23346603 GGGTAAAATAGTAATTTTATAAACCGA
1 GGGTAAAATAGTAATTTTATAAATCGA
* *
23346630 GGGTAAAA-CGATAATTCTATAAATCGA
1 GGGTAAAATAG-TAATTTTATAAATCGA
*
23346657 GGGTAAAATAGTAATTTTGTAAATCGA
1 GGGTAAAATAGTAATTTTATAAATCGA
* * * *
23346684 GGGTAAAACAGTAATTTTGTCAATCAA
1 GGGTAAAATAGTAATTTTATAAATCGA
** *
23346711 GGGTAAAACGGTAATTCTT-TAAATAGA
1 GGGTAAAATAGTAATT-TTATAAATCGA
*
23346738 GGGTAAAATAGTAATTTTGTAAATCGA
1 GGGTAAAATAGTAATTTTATAAATCGA
** * *
23346765 GGGTAAAACGGTAATTCTATAAATTGA
1 GGGTAAAATAGTAATTTTATAAATCGA
* * *
23346792 GGGTAAAATAATAATTCTATAAATCAA
1 GGGTAAAATAGTAATTTTATAAATCGA
* * *
23346819 TGGTAAAA-CGATAATTTTGTAAATCGA
1 GGGTAAAATAG-TAATTTTATAAATCGA
* *
23346846 GGGTAAAA-CGATAATTTTATAAATCAA
1 GGGTAAAATAG-TAATTTTATAAATCGA
* * *
23346873 GGGTAAAATAGTAATTATGTAAATTGA
1 GGGTAAAATAGTAATTTTATAAATCGA
* *
23346900 GGGTAAAATAGTAATTTTTGTAATTCGA
1 GGGTAAAATAGTAA-TTTTATAAATCGA
23346928 GGGTA
1 GGGTA
23346933 CTTTGATAAT
Statistics
Matches: 253, Mismatches: 43, Indels: 13
0.82 0.14 0.04
Matches are distributed among these distances:
26 3 0.01
27 231 0.91
28 19 0.08
ACGTcount: A:0.42, C:0.06, G:0.20, T:0.31
Consensus pattern (27 bp):
GGGTAAAATAGTAATTTTATAAATCGA
Found at i:23346740 original size:81 final size:81
Alignment explanation
Indices: 23346603--23346932 Score: 396
Period size: 81 Copynumber: 4.1 Consensus size: 81
23346593 AACACCCTAG
* * * * *
23346603 GGGTAAAATAGTAATTTTATAAACCGAGGGTAAAACGATAATTCTATAAATCGAGGGTAAAATAG
1 GGGTAAAACAGTAATTTTATAAATCAAGGGTAAAACAATAATTCTATAAATAGAGGGTAAAATAG
23346668 TAATTTTGTAAATCGA
66 TAATTTTGTAAATCGA
* * ** *
23346684 GGGTAAAACAGTAATTTTGTCAATCAAGGGTAAAACGGTAATTCTTTAAATAGAGGGTAAAATAG
1 GGGTAAAACAGTAATTTTATAAATCAAGGGTAAAACAATAATTCTATAAATAGAGGGTAAAATAG
23346749 TAATTTTGTAAATCGA
66 TAATTTTGTAAATCGA
* * ** * * *
23346765 GGGTAAAACGGTAATTCTATAAATTGAGGGTAAAATAATAATTCTATAAATCA-ATGGTAAAA-C
1 GGGTAAAACAGTAATTTTATAAATCAAGGGTAAAACAATAATTCTATAAAT-AGAGGGTAAAATA
23346828 GATAATTTTGTAAATCGA
65 G-TAATTTTGTAAATCGA
* * * * *
23346846 GGGTAAAAC-GATAATTTTATAAATCAAGGGTAAAATAGTAATTATGTAAATTGAGGGTAAAATA
1 GGGTAAAACAG-TAATTTTATAAATCAAGGGTAAAACAATAATTCTATAAATAGAGGGTAAAATA
*
23346910 GTAATTTTTGTAATTCGA
65 GTAA-TTTTGTAAATCGA
23346928 GGGTA
1 GGGTA
23346933 CTTTGATAAT
Statistics
Matches: 213, Mismatches: 30, Indels: 11
0.84 0.12 0.04
Matches are distributed among these distances:
80 2 0.01
81 192 0.90
82 19 0.09
ACGTcount: A:0.42, C:0.06, G:0.20, T:0.31
Consensus pattern (81 bp):
GGGTAAAACAGTAATTTTATAAATCAAGGGTAAAACAATAATTCTATAAATAGAGGGTAAAATAG
TAATTTTGTAAATCGA
Found at i:23346958 original size:55 final size:54
Alignment explanation
Indices: 23346898--23347002 Score: 126
Period size: 54 Copynumber: 1.9 Consensus size: 54
23346888 TATGTAAATT
23346898 GAGGGTAAAAT-AGTAATTTTTGT-AATTCGAGGGTACTTT-GATAATTTTACATGTC
1 GAGGGT-AAATCAGTAA-TTTTGTAAATT-GAGGGTA-TTTCGATAATTTTACATGTC
** *
23346953 GAGGGTATTTCAGTAATTTTGTAAATTGAGGGTATTTCGGTAATTTTACA
1 GAGGGTAAATCAGTAATTTTGTAAATTGAGGGTATTTCGATAATTTTACA
23347003 AATCGAGGAT
Statistics
Matches: 44, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
53 3 0.07
54 26 0.59
55 15 0.34
ACGTcount: A:0.30, C:0.07, G:0.23, T:0.41
Consensus pattern (54 bp):
GAGGGTAAATCAGTAATTTTGTAAATTGAGGGTATTTCGATAATTTTACATGTC
Found at i:23346997 original size:54 final size:54
Alignment explanation
Indices: 23346909--23347084 Score: 189
Period size: 54 Copynumber: 3.3 Consensus size: 54
23346899 AGGGTAAAAT
* **
23346909 AGTAATTTTTGT-AATTCGAGGGTACTTTGATAATTTTACATGTCGAGGGTATTTC
1 AGTAA-TTTTGTAAATT-GAGGGTACTTTGGTAATTTTACAAATCGAGGGTATTTC
* *
23346964 AGTAATTTTGTAAATTGAGGGTA-TTTCGGTAATTTTACAAATCGAGGATATTTG
1 AGTAATTTTGTAAATTGAGGGTACTTT-GGTAATTTTACAAATCGAGGGTATTTC
* * * * *
23347018 GGTAATTTTATAAACTGGGGGTACTTTGGTAATTTTACAACT-G-GTGGTATTTC
1 AGTAATTTTGTAAATTGAGGGTACTTTGGTAATTTTACAAATCGAG-GGTATTTC
*
23347071 AGTAATTTGGTAAA
1 AGTAATTTTGTAAA
23347085 CTAAAGTATT
Statistics
Matches: 102, Mismatches: 15, Indels: 10
0.80 0.12 0.08
Matches are distributed among these distances:
52 1 0.01
53 21 0.21
54 68 0.67
55 12 0.12
ACGTcount: A:0.28, C:0.07, G:0.23, T:0.41
Consensus pattern (54 bp):
AGTAATTTTGTAAATTGAGGGTACTTTGGTAATTTTACAAATCGAGGGTATTTC
Found at i:23347027 original size:27 final size:27
Alignment explanation
Indices: 23346924--23347078 Score: 122
Period size: 27 Copynumber: 5.8 Consensus size: 27
23346914 TTTTTGTAAT
* **
23346924 TCGAGGGTACTTT-GATAATTTTACATG
1 TCGAGGGTA-TTTCGGTAATTTTACAAA
* **
23346951 TCGAGGGTATTTCAGTAATTTTGTAAA
1 TCGAGGGTATTTCGGTAATTTTACAAA
*
23346978 TTGAGGGTATTTCGGTAATTTTACAAA
1 TCGAGGGTATTTCGGTAATTTTACAAA
* * *
23347005 TCGAGGATATTTGGGTAATTTTATAAA
1 TCGAGGGTATTTCGGTAATTTTACAAA
* *
23347032 -CTGGGGGTACTTT-GGTAATTTTACAAC
1 TC-GAGGGTA-TTTCGGTAATTTTACAAA
*
23347059 T-G-GTGGTATTTCAGTAATTT
1 TCGAG-GGTATTTCGGTAATTT
23347079 GGTAAACTAA
Statistics
Matches: 103, Mismatches: 19, Indels: 13
0.76 0.14 0.10
Matches are distributed among these distances:
25 4 0.04
26 16 0.16
27 80 0.78
28 3 0.03
ACGTcount: A:0.27, C:0.08, G:0.23, T:0.41
Consensus pattern (27 bp):
TCGAGGGTATTTCGGTAATTTTACAAA
Done.