Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D02
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: 70731513
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1900000 characters in sequence are not A, C, G, or T
File 119 of 222
Found at i:38555292 original size:20 final size:20
Alignment explanation
Indices: 38555269--38555323 Score: 74
Period size: 20 Copynumber: 2.8 Consensus size: 20
38555259 TTGTGTAATT
*
38555269 AGAGGCATCGAAGTGAAAAC
1 AGAGGCACCGAAGTGAAAAC
* * *
38555289 AGAGACACCGAAGTGCAAAT
1 AGAGGCACCGAAGTGAAAAC
38555309 AGAGGCACCGAAGTG
1 AGAGGCACCGAAGTG
38555324 TAATCCTATA
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.42, C:0.18, G:0.31, T:0.09
Consensus pattern (20 bp):
AGAGGCACCGAAGTGAAAAC
Found at i:38556019 original size:17 final size:17
Alignment explanation
Indices: 38555997--38556032 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 17
38555987 CAAATTTCCT
38555997 ATCAATTCTAA-CATTTA
1 ATCAATTC-AATCATTTA
38556014 ATCAATTCAATCATTTA
1 ATCAATTCAATCATTTA
38556031 AT
1 AT
38556033 AAAAACTAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 2 0.11
17 16 0.89
ACGTcount: A:0.42, C:0.17, G:0.00, T:0.42
Consensus pattern (17 bp):
ATCAATTCAATCATTTA
Found at i:38561532 original size:47 final size:47
Alignment explanation
Indices: 38561475--38561778 Score: 425
Period size: 47 Copynumber: 6.4 Consensus size: 47
38561465 ATTGATGTAC
* * *
38561475 AAGTATATATATGTGATAGGGCCGAGTGGCCAATGTGATGAATGTGA
1 AAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
*
38561522 AAGTATATATATGCGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
1 AAGTGTATATAT--GTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
* *
38561571 ACA-TGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
1 A-AGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
* *
38561618 ACA-TGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
1 A-AGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
* *
38561665 ACA-TGCATATATGAGATAAGGCCGAATGGCCAATGTGATGAATGTGA
1 A-AGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
* *
38561712 AAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGGATGTGG
1 AAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
*
38561759 AAGTGTATAAATGTGATAAG
1 AAGTGTATATATGTGATAAG
38561779 TCCCGAAGGG
Statistics
Matches: 239, Mismatches: 14, Indels: 8
0.92 0.05 0.03
Matches are distributed among these distances:
46 1 0.00
47 197 0.82
49 40 0.17
50 1 0.00
ACGTcount: A:0.33, C:0.10, G:0.31, T:0.27
Consensus pattern (47 bp):
AAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
Found at i:38561656 original size:22 final size:22
Alignment explanation
Indices: 38561629--38561750 Score: 61
Period size: 22 Copynumber: 5.3 Consensus size: 22
38561619 CATGTGTATG
38561629 TGTGATAAGGCCGAATGGCCAA
1 TGTGATAAGGCCGAATGGCCAA
* * *
38561651 TGTGATGAATG-TGAACAT-GCATATA
1 TGTGAT-AAGGCCG-A-ATGGC-CA-A
*
38561676 TGAGATAAGGCCGAATGGCCAA
1 TGTGATAAGGCCGAATGGCCAA
* * ***
38561698 TGTGATGAATG-TGAAAGTGTATATA
1 TGTGAT-AAGGCCG-AA-TGGCCA-A
38561723 TGTGATAAGGCCGAATGGCCAA
1 TGTGATAAGGCCGAATGGCCAA
38561745 TGTGAT
1 TGTGAT
38561751 GGATGTGGAA
Statistics
Matches: 70, Mismatches: 18, Indels: 24
0.62 0.16 0.21
Matches are distributed among these distances:
22 21 0.30
23 17 0.24
24 17 0.24
25 15 0.21
ACGTcount: A:0.34, C:0.11, G:0.30, T:0.25
Consensus pattern (22 bp):
TGTGATAAGGCCGAATGGCCAA
Found at i:38579200 original size:12 final size:12
Alignment explanation
Indices: 38579183--38579207 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
38579173 AAGAGAGAGG
38579183 GTTTGAAAAAGA
1 GTTTGAAAAAGA
38579195 GTTTGAAAAAGA
1 GTTTGAAAAAGA
38579207 G
1 G
38579208 ACAAGTGAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.48, C:0.00, G:0.28, T:0.24
Consensus pattern (12 bp):
GTTTGAAAAAGA
Found at i:38587701 original size:59 final size:60
Alignment explanation
Indices: 38587619--38587762 Score: 218
Period size: 59 Copynumber: 2.4 Consensus size: 60
38587609 GGATAAGGAC
*
38587619 CAAACCTTTCAATATGGACATATAAAAGCCTAACATTTATAAAAGTGTTCAAATGAAGG-
1 CAAACCTTTCAAAATGGACATATAAAAGCCTAACATTTATAAAAGTGTTCAAATGAAGGT
* * * *
38587678 CCAACTTTTCAAAATGGTCATATAAAGGCCTAACATTTATAAAAGTGTTCAAATGAAGGT
1 CAAACCTTTCAAAATGGACATATAAAAGCCTAACATTTATAAAAGTGTTCAAATGAAGGT
* *
38587738 CAAACCTTTCAAAATGAACAAATAA
1 CAAACCTTTCAAAATGGACATATAA
38587763 CGGTTTATCC
Statistics
Matches: 74, Mismatches: 10, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
59 54 0.73
60 20 0.27
ACGTcount: A:0.44, C:0.16, G:0.12, T:0.27
Consensus pattern (60 bp):
CAAACCTTTCAAAATGGACATATAAAAGCCTAACATTTATAAAAGTGTTCAAATGAAGGT
Found at i:38587706 original size:28 final size:30
Alignment explanation
Indices: 38587625--38587715 Score: 89
Period size: 28 Copynumber: 3.1 Consensus size: 30
38587615 GGACCAAACC
* * *
38587625 TTTCAATATGGACATATAAAAGCCTAACAT
1 TTTCAAAATGGTCATATAAAGGCCTAACAT
* * *
38587655 TTAT-AAAAGTGTTCAAATGAAGGCC-AAC-T
1 TT-TCAAAA-TGGTCATATAAAGGCCTAACAT
38587684 TTTCAAAATGGTCATATAAAGGCCTAACAT
1 TTTCAAAATGGTCATATAAAGGCCTAACAT
38587714 TT
1 TT
38587716 ATAAAAGTGT
Statistics
Matches: 47, Mismatches: 9, Indels: 10
0.71 0.14 0.15
Matches are distributed among these distances:
28 14 0.30
29 10 0.21
30 11 0.23
31 12 0.26
ACGTcount: A:0.41, C:0.15, G:0.13, T:0.31
Consensus pattern (30 bp):
TTTCAAAATGGTCATATAAAGGCCTAACAT
Found at i:38587791 original size:31 final size:31
Alignment explanation
Indices: 38587717--38587824 Score: 87
Period size: 31 Copynumber: 3.5 Consensus size: 31
38587707 CTAACATTTA
* *
38587717 TAAAAGTGTTCAAATGAA-GGTCAAACC-TTT
1 TAAAAGTGCTCAAAT-AACGGTCAAGCCTTTT
* ** ** *
38587747 CAAAA-TGAACAAATAACGGTTTATCCTTTT
1 TAAAAGTGCTCAAATAACGGTCAAGCCTTTT
* * *
38587777 TGAAAGTTCTCAAATAAGGGTCAAGCCTTTT
1 TAAAAGTGCTCAAATAACGGTCAAGCCTTTT
38587808 TAAAAGTGCTCAAATAA
1 TAAAAGTGCTCAAATAA
38587825 GGGCTTTTCA
Statistics
Matches: 58, Mismatches: 17, Indels: 5
0.73 0.21 0.06
Matches are distributed among these distances:
28 2 0.03
29 13 0.22
30 10 0.17
31 33 0.57
ACGTcount: A:0.40, C:0.15, G:0.15, T:0.31
Consensus pattern (31 bp):
TAAAAGTGCTCAAATAACGGTCAAGCCTTTT
Found at i:38590494 original size:28 final size:28
Alignment explanation
Indices: 38590422--38590486 Score: 130
Period size: 28 Copynumber: 2.3 Consensus size: 28
38590412 GTTATCTTAT
38590422 GAAAGTGTCATTGCAGTCACTGACACTA
1 GAAAGTGTCATTGCAGTCACTGACACTA
38590450 GAAAGTGTCATTGCAGTCACTGACACTA
1 GAAAGTGTCATTGCAGTCACTGACACTA
38590478 GAAAGTGTC
1 GAAAGTGTC
38590487 GTGACAGTTT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 37 1.00
ACGTcount: A:0.32, C:0.20, G:0.23, T:0.25
Consensus pattern (28 bp):
GAAAGTGTCATTGCAGTCACTGACACTA
Found at i:38611285 original size:17 final size:17
Alignment explanation
Indices: 38611263--38611298 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 17
38611253 TTAGTTTTTT
38611263 ATTAAATGATT-GAATTG
1 ATTAAATG-TTAGAATTG
38611280 ATTAAATGTTAGAATTG
1 ATTAAATGTTAGAATTG
38611297 AT
1 AT
38611299 AGGAAATTTG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 2 0.11
17 16 0.89
ACGTcount: A:0.42, C:0.00, G:0.17, T:0.42
Consensus pattern (17 bp):
ATTAAATGTTAGAATTG
Found at i:38612017 original size:39 final size:39
Alignment explanation
Indices: 38611969--38612045 Score: 100
Period size: 39 Copynumber: 2.0 Consensus size: 39
38611959 TTGTATAGGA
* *
38611969 TTACACTTCGGTGCCTCTATTTGCACTTTGGTGCCTCTG
1 TTACACTTCGGTGCCTCTATTTGCACTTCGATGCCTCTG
* * * *
38612008 TTACTCTTCGGTGTCTCTGTTTTCACTTCGATGCCTCT
1 TTACACTTCGGTGCCTCTATTTGCACTTCGATGCCTCT
38612046 AATTGCACAA
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
39 32 1.00
ACGTcount: A:0.09, C:0.29, G:0.18, T:0.44
Consensus pattern (39 bp):
TTACACTTCGGTGCCTCTATTTGCACTTCGATGCCTCTG
Found at i:38612045 original size:20 final size:20
Alignment explanation
Indices: 38611969--38612045 Score: 84
Period size: 20 Copynumber: 3.9 Consensus size: 20
38611959 TTGTATAGGA
*
38611969 TTACACTTCGGTGCCTCTAT
1 TTACACTTCGGTGCCTCTGT
* *
38611989 TTGCACTTTGGTGCCTCTG-
1 TTACACTTCGGTGCCTCTGT
* *
38612008 TTACTCTTCGGTGTCTCTGT
1 TTACACTTCGGTGCCTCTGT
* *
38612028 TTTCACTTCGATGCCTCT
1 TTACACTTCGGTGCCTCT
38612046 AATTGCACAA
Statistics
Matches: 45, Mismatches: 11, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
19 15 0.33
20 30 0.67
ACGTcount: A:0.09, C:0.29, G:0.18, T:0.44
Consensus pattern (20 bp):
TTACACTTCGGTGCCTCTGT
Found at i:38623874 original size:20 final size:20
Alignment explanation
Indices: 38623851--38623929 Score: 59
Period size: 20 Copynumber: 4.0 Consensus size: 20
38623841 TAATGGTAAT
* *
38623851 ATGGGCATCGAAGTGCGACC
1 ATGGGCATCGAAGTGCAAAC
* *
38623871 ATGGGCACCGAGGTGCAAAC
1 ATGGGCATCGAAGTGCAAAC
* * ** *
38623891 AAGGACATCGAAGTGTGAAG
1 ATGGGCATCGAAGTGCAAAC
* *
38623911 ATGGGCACCAAAGTGCAAA
1 ATGGGCATCGAAGTGCAAA
38623930 TTGGGGTATC
Statistics
Matches: 42, Mismatches: 17, Indels: 0
0.71 0.29 0.00
Matches are distributed among these distances:
20 42 1.00
ACGTcount: A:0.34, C:0.20, G:0.33, T:0.13
Consensus pattern (20 bp):
ATGGGCATCGAAGTGCAAAC
Found at i:38635311 original size:34 final size:36
Alignment explanation
Indices: 38635262--38635344 Score: 91
Period size: 34 Copynumber: 2.4 Consensus size: 36
38635252 TATGCAAAAA
* * * * *
38635262 GCATATATTTATACTTATCAA-CTACATGTGCTGAAT
1 GCATACATATATACTTAT-AATCCACATATGCCGAAT
38635298 G-A-ACATATATACTTATAATCCACATATGCCGAAT
1 GCATACATATATACTTATAATCCACATATGCCGAAT
38635332 GCATACATATATA
1 GCATACATATATA
38635345 TATCCAACAA
Statistics
Matches: 39, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
33 2 0.05
34 25 0.64
35 2 0.05
36 10 0.26
ACGTcount: A:0.39, C:0.18, G:0.10, T:0.34
Consensus pattern (36 bp):
GCATACATATATACTTATAATCCACATATGCCGAAT
Found at i:38635574 original size:41 final size:42
Alignment explanation
Indices: 38635514--38635747 Score: 334
Period size: 41 Copynumber: 5.7 Consensus size: 42
38635504 TAAATTTAAA
38635514 CAGATTCACCGGCACTTAGCCTGCTAGGCTTATAACCTGATT
1 CAGATTCACCGGCACTTAGCCTGCTAGGCTTATAACCTGATT
*
38635556 CAGATT-ACCGGCATTTAGCCTGCTAGGCTTATAACCTGATT
1 CAGATTCACCGGCACTTAGCCTGCTAGGCTTATAACCTGATT
* ** * *
38635597 TAG-TTCACCGAAACTTAGCATGCTAGGCTTATAGCCTGATT
1 CAGATTCACCGGCACTTAGCCTGCTAGGCTTATAACCTGATT
*
38635638 CAGA-TCACCGGCACTTGGCCTGCTAGGCTTATAACCTGATT
1 CAGATTCACCGGCACTTAGCCTGCTAGGCTTATAACCTGATT
*
38635679 CAG-TTCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATT
1 CAGATTCACCGGCACTTAGCCTGCTAGGCTTATAACCTGATT
** *
38635720 CAGA-TCACCAACACTTAGCCTACTAGGC
1 CAGATTCACCGGCACTTAGCCTGCTAGGC
38635748 GTTAAGCCTG
Statistics
Matches: 170, Mismatches: 18, Indels: 9
0.86 0.09 0.05
Matches are distributed among these distances:
40 2 0.01
41 162 0.95
42 6 0.04
ACGTcount: A:0.24, C:0.28, G:0.20, T:0.28
Consensus pattern (42 bp):
CAGATTCACCGGCACTTAGCCTGCTAGGCTTATAACCTGATT
Found at i:38635738 original size:123 final size:124
Alignment explanation
Indices: 38635514--38635758 Score: 372
Period size: 123 Copynumber: 2.0 Consensus size: 124
38635504 TAAATTTAAA
*
38635514 CAGATTCACCGGCACTTAGCCTGCTAGGCTTATAACCTGATTCAGATTACCGGCATTTAGCCTGC
1 CAGATTCACCGGCACTTAGCCTGCTAGGCTTATAACCTGATTCAGATTACCGGCACTTAGCCTGC
* * *
38635579 TAGGCTTATAACCTGATTTAGTTCACCGAAACTTAGCATGCTAGGC-TTATAGCCTGATT
66 TAGGCTTATAACCTGATTCAGATCACCGAAACTTAGCATACTAGGCGTTA-AGCCTGATT
*
38635638 CAGA-TCACCGGCACTTGGCCTGCTAGGCTTATAACCTGATTCAG-TTCACCGGCACTTAGCCTG
1 CAGATTCACCGGCACTTAGCCTGCTAGGCTTATAACCTGATTCAGATT-ACCGGCACTTAGCCTG
* *
38635701 CTAGGCTTATAGCCTGATTCAGATCACC-AACACTTAGCCTACTAGGCGTTAAGCCTGA
65 CTAGGCTTATAACCTGATTCAGATCACCGAA-ACTTAGCATACTAGGCGTTAAGCCTGA
38635759 AAACCTCAAT
Statistics
Matches: 111, Mismatches: 7, Indels: 7
0.89 0.06 0.06
Matches are distributed among these distances:
122 4 0.04
123 100 0.90
124 7 0.06
ACGTcount: A:0.24, C:0.27, G:0.20, T:0.28
Consensus pattern (124 bp):
CAGATTCACCGGCACTTAGCCTGCTAGGCTTATAACCTGATTCAGATTACCGGCACTTAGCCTGC
TAGGCTTATAACCTGATTCAGATCACCGAAACTTAGCATACTAGGCGTTAAGCCTGATT
Found at i:38637674 original size:49 final size:49
Alignment explanation
Indices: 38637453--38638052 Score: 944
Period size: 47 Copynumber: 12.6 Consensus size: 49
38637443 CCCTTCGGGA
* * * * *
38637453 CTTATCACAT-T-TATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
38637500 CCTGTCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
38637547 CTCATCAC--ATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
38637594 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
38637641 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
38637690 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTCGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
38637739 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
38637788 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
38637835 CTTATCAC--ATATATACACTTTTACATTCATCACAACGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
38637882 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
38637931 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTCGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
38637980 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
38638027 CTTATCACATATATATACA--TTCACAT
1 CTTATCACATATATATACACTTTCACAT
38638053 CACAATTATC
Statistics
Matches: 520, Mismatches: 25, Indels: 16
0.93 0.04 0.03
Matches are distributed among these distances:
46 1 0.00
47 274 0.53
49 245 0.47
ACGTcount: A:0.29, C:0.29, G:0.08, T:0.33
Consensus pattern (49 bp):
CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:38637850 original size:192 final size:192
Alignment explanation
Indices: 38637453--38638052 Score: 992
Period size: 192 Copynumber: 3.1 Consensus size: 192
38637443 CCCTTCGGGA
* * * * * * * *
38637453 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCAC--ATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
*
38637516 ACTTTCACATTCATCACATCGGCCATTAGGCCTCATCAC--ATATATACACTTTCACATTCATCA
66 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCA
* *
38637579 CATCGGCTATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
131 CATCGGCCATTCGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
38637641 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAT
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAT
*
38637706 ACACTTTCACATTCATCACATCGGCCATTCGGCCTTATCACATATATATACACTTTCACATTCAT
64 ACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCAT
* *
38637771 CACATTGGCCATTCGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
129 CACATCGGCCATTCGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
38637835 CTTATCACATATATACACTTTTACATTCATCACAACGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
38637900 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCA
66 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCA
38637965 CATCGGCCATTCGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
131 CATCGGCCATTCGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
38638027 CTTATCACATATATATACATTCACAT
1 CTTATCACATATATACACTTTCACAT
38638053 CACAATTATC
Statistics
Matches: 384, Mismatches: 22, Indels: 8
0.93 0.05 0.02
Matches are distributed among these distances:
188 8 0.02
190 39 0.10
192 247 0.64
194 90 0.23
ACGTcount: A:0.29, C:0.29, G:0.08, T:0.33
Consensus pattern (192 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCA
CATCGGCCATTCGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:38638088 original size:241 final size:238
Alignment explanation
Indices: 38637453--38638052 Score: 1033
Period size: 241 Copynumber: 2.5 Consensus size: 238
38637443 CCCTTCGGGA
* * * * * *
38637453 CTTATCACAT-T-TATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTCGGCCTTATCACATATATAC
*
38637516 ACTTTCACATTCATCACATCGGCCATTAGGCCTCATCACATATATACACTTTCACATTCATCACA
66 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
*
38637581 TCGGCTATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTAT
131 TC-GCTATTAGGCCTTATCACATATATACACTTTCACATTCATCACAACGGCCATTAGGCCTTAT
38637646 CACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
195 CACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
38637690 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTCGGCCTTATCACATATATAT
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTCGGCCTTATCAC--ATATAT
* *
38637755 ACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACACTTTCACATTCATCA
64 ACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCA
*
38637820 CATCGGCTATTAGGCCTTATCACATATATACACTTTTACATTCATCACAACGGCCATTAGGCCTT
129 CATC-GCTATTAGGCCTTATCACATATATACACTTTCACATTCATCACAACGGCCATTAGGCCTT
38637885 ATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
193 ATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
38637931 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTCGGCCTTATCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTCGGCCTTATCACATATATAC
* *
38637996 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACATTCACAT
66 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACAT
38638053 CACAATTATC
Statistics
Matches: 344, Mismatches: 15, Indels: 6
0.94 0.04 0.02
Matches are distributed among these distances:
237 10 0.03
238 1 0.00
239 99 0.29
241 234 0.68
ACGTcount: A:0.29, C:0.29, G:0.08, T:0.33
Consensus pattern (238 bp):
CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTCGGCCTTATCACATATATAC
ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
TCGCTATTAGGCCTTATCACATATATACACTTTCACATTCATCACAACGGCCATTAGGCCTTATC
ACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:38641092 original size:15 final size:15
Alignment explanation
Indices: 38641072--38641121 Score: 52
Period size: 15 Copynumber: 3.4 Consensus size: 15
38641062 TTCAAGAATT
38641072 TATATATATTACACA
1 TATATATATTACACA
38641087 TATATATATT-CGTACA
1 TATATATATTAC--ACA
38641103 T-TATATA-TACACA
1 TATATATATTACACA
*
38641116 AATATA
1 TATATA
38641122 ACATCCAAAC
Statistics
Matches: 30, Mismatches: 1, Indels: 9
0.75 0.03 0.22
Matches are distributed among these distances:
13 3 0.10
14 6 0.20
15 17 0.57
16 4 0.13
ACGTcount: A:0.46, C:0.12, G:0.02, T:0.40
Consensus pattern (15 bp):
TATATATATTACACA
Found at i:38641801 original size:14 final size:14
Alignment explanation
Indices: 38641777--38641804 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
38641767 TTCACACAGA
38641777 GTAATTCACATACT
1 GTAATTCACATACT
38641791 GTAATTCACATACT
1 GTAATTCACATACT
38641805 ACAAATTTTC
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:0.36, C:0.21, G:0.07, T:0.36
Consensus pattern (14 bp):
GTAATTCACATACT
Found at i:38643014 original size:24 final size:24
Alignment explanation
Indices: 38642987--38643033 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
38642977 ACAAGTTTTG
*
38642987 AATGTAAGGCTCACATGATTTGTA
1 AATGTAAGGCTCACATGAGTTGTA
*
38643011 AATGTAATGCTCACATGAGTTGT
1 AATGTAAGGCTCACATGAGTTGT
38643034 GAAAATGGGT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.32, C:0.13, G:0.21, T:0.34
Consensus pattern (24 bp):
AATGTAAGGCTCACATGAGTTGTA
Found at i:38645841 original size:12 final size:12
Alignment explanation
Indices: 38645824--38645850 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
38645814 ATTCCGAAGT
38645824 ATATATATATAC
1 ATATATATATAC
38645836 ATATATATATAC
1 ATATATATATAC
38645848 ATA
1 ATA
38645851 AGTATGCCAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.52, C:0.07, G:0.00, T:0.41
Consensus pattern (12 bp):
ATATATATATAC
Found at i:38646362 original size:27 final size:27
Alignment explanation
Indices: 38646331--38646508 Score: 198
Period size: 27 Copynumber: 6.6 Consensus size: 27
38646321 TAAATTGTAC
38646331 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
38646358 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
38646384 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
38646412 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
38646440 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
38646467 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
38646494 AGCAC-AGAGTGTGCG
1 AGCACTA-AGTGTGCG
38646509 GGCTCAATAT
Statistics
Matches: 129, Mismatches: 18, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
26 1 0.01
27 105 0.81
28 23 0.18
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.29
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:38646445 original size:82 final size:81
Alignment explanation
Indices: 38646332--38646487 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
38646322 AAATTGTACA
* *
38646332 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
38646396 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
38646413 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
38646478 TGCGAGTTGA
65 TGCGAATTGA
38646488 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:38648705 original size:17 final size:17
Alignment explanation
Indices: 38648683--38648719 Score: 65
Period size: 17 Copynumber: 2.2 Consensus size: 17
38648673 ATGCACTAAC
*
38648683 ATGAAAATGTAATGACA
1 ATGAAAATGCAATGACA
38648700 ATGAAAATGCAATGACA
1 ATGAAAATGCAATGACA
38648717 ATG
1 ATG
38648720 TGTACTTATC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.51, C:0.08, G:0.19, T:0.22
Consensus pattern (17 bp):
ATGAAAATGCAATGACA
Found at i:38667623 original size:17 final size:17
Alignment explanation
Indices: 38667601--38667637 Score: 65
Period size: 17 Copynumber: 2.2 Consensus size: 17
38667591 GATAAGTACA
*
38667601 CATTGTCATTGCATTTT
1 CATTGTCATTACATTTT
38667618 CATTGTCATTACATTTT
1 CATTGTCATTACATTTT
38667635 CAT
1 CAT
38667638 GTTAGTGCAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.22, C:0.19, G:0.08, T:0.51
Consensus pattern (17 bp):
CATTGTCATTACATTTT
Found at i:38669892 original size:24 final size:24
Alignment explanation
Indices: 38669828--38669884 Score: 87
Period size: 24 Copynumber: 2.4 Consensus size: 24
38669818 CAAACCCATT
38669828 TTCACAACTCATGTGAGCATTACA
1 TTCACAACTCATGTGAGCATTACA
* * *
38669852 TTTACAAATCATGTGAGCCTTACA
1 TTCACAACTCATGTGAGCATTACA
38669876 TTCACAACT
1 TTCACAACT
38669885 TGTGTGAGAA
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.33, C:0.25, G:0.11, T:0.32
Consensus pattern (24 bp):
TTCACAACTCATGTGAGCATTACA
Found at i:38674251 original size:76 final size:76
Alignment explanation
Indices: 38674169--38674368 Score: 199
Period size: 78 Copynumber: 2.6 Consensus size: 76
38674159 GAAATTAGGG
* * * *
38674169 ATGTATATATTATATTCGAATATGTATGAGTATACATGTATAAGTTCATGTTTTGATTATAAG-T
1 ATGTATATGTTAGATTCGAATATGTATGAGTATACATGTATAAGTTCATGTATTGA-AATAAGAT
38674233 ATGTAA-TTATAT
65 ATG-AATTTATAT
* * * * * * * *
38674245 ATGTATATGGTAGACTCGAATATATATATAAATATACATGTATAAATTCTTGTATTGAAATTAGA
1 ATGTATATGTTAGATTCG-A-ATATGTATGAGTATACATGTATAAGTTCATGTATTGAAATAAGA
38674310 TATGAATTTATAT
64 TATGAATTTATAT
* * *
38674323 ATGTATATGTGAGGTTCGAATGTGTATG-GTTATACATGTATAAGTT
1 ATGTATATGTTAGATTCGAATATGTATGAG-TATACATGTATAAGTT
38674369 TTATATTGAA
Statistics
Matches: 98, Mismatches: 21, Indels: 10
0.76 0.16 0.08
Matches are distributed among these distances:
76 35 0.36
77 8 0.08
78 55 0.56
ACGTcount: A:0.36, C:0.04, G:0.17, T:0.43
Consensus pattern (76 bp):
ATGTATATGTTAGATTCGAATATGTATGAGTATACATGTATAAGTTCATGTATTGAAATAAGATA
TGAATTTATAT
Found at i:38674806 original size:41 final size:41
Alignment explanation
Indices: 38674749--38674993 Score: 330
Period size: 41 Copynumber: 6.0 Consensus size: 41
38674739 ATTAAGGTTT
* **
38674749 TCAGGCT-TAACGCCTAGTAGGCTAAGTGTTGGTGATCTGAA
1 TCAGGCTATAA-GCCTAGCAGGCTAAGTGCCGGTGATCTGAA
*
38674790 TCAGGCTATAAGCCTAGCAGGCTAAGTGCCGGTGAACTGAA
1 TCAGGCTATAAGCCTAGCAGGCTAAGTGCCGGTGATCTGAA
* *
38674831 TCAGGTTATAAGCCTAGCAGGCTAAGTGCCGGTGGTCTGAA
1 TCAGGCTATAAGCCTAGCAGGCTAAGTGCCGGTGATCTGAA
* * ** * *
38674872 TTAGGCTATAAGCCTAGCATGCTAAGTTTCGGTGAACTAAA
1 TCAGGCTATAAGCCTAGCAGGCTAAGTGCCGGTGATCTGAA
* *
38674913 TCAGGTTATAAGCCTAGCAGGCTAAGTGCCGGTGATCTAAA
1 TCAGGCTATAAGCCTAGCAGGCTAAGTGCCGGTGATCTGAA
*
38674954 TCAGGTTATAAGCCTAGCAGGCTAAGTGCCGGTGAATCTG
1 TCAGGCTATAAGCCTAGCAGGCTAAGTGCCGGTG-ATCTG
38674994 TTTAAATTAA
Statistics
Matches: 180, Mismatches: 22, Indels: 3
0.88 0.11 0.01
Matches are distributed among these distances:
41 173 0.96
42 7 0.04
ACGTcount: A:0.27, C:0.19, G:0.28, T:0.25
Consensus pattern (41 bp):
TCAGGCTATAAGCCTAGCAGGCTAAGTGCCGGTGATCTGAA
Found at i:38674970 original size:123 final size:123
Alignment explanation
Indices: 38674751--38674987 Score: 379
Period size: 123 Copynumber: 1.9 Consensus size: 123
38674741 TAAGGTTTTC
* * *
38674751 AGGCTTAACGCCTAGTAGGCTAAGTGTTGGTGATCTGAATCAGGCTATAAGCCTAGCAGGCTAAG
1 AGGCTTAACGCCTAGCAGGCTAAGTGTTGGTGAACTAAATCAGGCTATAAGCCTAGCAGGCTAAG
*
38674816 TGCCGGTGAACTGAATCAGGTTATAAGCCTAGCAGGCTAAGTGCCGGTGGTCTGAATT
66 TGCCGGTGAACTAAATCAGGTTATAAGCCTAGCAGGCTAAGTGCCGGTGGTCTGAATT
* *
38674874 AGGCTATAA-GCCTAGCATGCTAAGT-TTCGGTGAACTAAATCAGGTTATAAGCCTAGCAGGCTA
1 AGGCT-TAACGCCTAGCAGGCTAAGTGTT-GGTGAACTAAATCAGGCTATAAGCCTAGCAGGCTA
*
38674937 AGTGCCGGTGATCTAAATCAGGTTATAAGCCTAGCAGGCTAAGTGCCGGTG
64 AGTGCCGGTGAACTAAATCAGGTTATAAGCCTAGCAGGCTAAGTGCCGGTG
38674988 AATCTGTTTA
Statistics
Matches: 105, Mismatches: 7, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
122 2 0.02
123 100 0.95
124 3 0.03
ACGTcount: A:0.27, C:0.19, G:0.29, T:0.25
Consensus pattern (123 bp):
AGGCTTAACGCCTAGCAGGCTAAGTGTTGGTGAACTAAATCAGGCTATAAGCCTAGCAGGCTAAG
TGCCGGTGAACTAAATCAGGTTATAAGCCTAGCAGGCTAAGTGCCGGTGGTCTGAATT
Found at i:38676807 original size:18 final size:18
Alignment explanation
Indices: 38676765--38676807 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
38676755 GCCCATTCAG
* *
38676765 AAGTATATATATATACAT
1 AAGTATGTATATATACAC
38676783 ATA-TATGTATATATACAC
1 A-AGTATGTATATATACAC
38676801 AAGTATG
1 AAGTATG
38676808 CCCGTTCGGG
Statistics
Matches: 21, Mismatches: 2, Indels: 4
0.78 0.07 0.15
Matches are distributed among these distances:
17 1 0.05
18 19 0.90
19 1 0.05
ACGTcount: A:0.47, C:0.07, G:0.09, T:0.37
Consensus pattern (18 bp):
AAGTATGTATATATACAC
Found at i:38677336 original size:28 final size:28
Alignment explanation
Indices: 38677254--38677431 Score: 234
Period size: 28 Copynumber: 6.4 Consensus size: 28
38677244 GAGATTGGCG
* * * *
38677254 CTAAGTGTGCGGGTTTAAATTGTGCAGCA
1 CTAAGTGTGCGAGTTT-GATTATGTAGCA
* * *
38677283 CTAAGTGTACGA-ATTGACTATGTAGCA
1 CTAAGTGTGCGAGTTTGATTATGTAGCA
38677310 CTAAGTGTGCGAGTTTGATTATGTAGCA
1 CTAAGTGTGCGAGTTTGATTATGTAGCA
*
38677338 CTAAGTGTGCGAGTTTGACTATGTAGCA
1 CTAAGTGTGCGAGTTTGATTATGTAGCA
*
38677366 CTAAGTGTGCGAGTTTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATGTAGCA
*
38677394 CTAAGTGTGCGAG-TTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATGTAGCA
*
38677421 CTGAGTGTGCG
1 CTAAGTGTGCG
38677432 GACTTAATAT
Statistics
Matches: 134, Mismatches: 14, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
27 43 0.32
28 81 0.60
29 10 0.07
ACGTcount: A:0.26, C:0.13, G:0.28, T:0.33
Consensus pattern (28 bp):
CTAAGTGTGCGAGTTTGATTATGTAGCA
Found at i:38677428 original size:83 final size:83
Alignment explanation
Indices: 38677279--38677431 Score: 236
Period size: 83 Copynumber: 1.8 Consensus size: 83
38677269 TAAATTGTGC
* *
38677279 AGCACTAAGTGTACGAATTGACTATGTAGCACTAAGTGTGCGAGTTTGATTATGTAGCACTAAGT
1 AGCACTAAGTGTACGAATTGACTATATAGCACTAAGTGTGCGAGTTTGATTATATAGCACTAAGT
38677344 GTGCGAGTTTGACTATGT
66 GTGCGAGTTTGACTATGT
* * * *
38677362 AGCACTAAGTGTGCGAGTTTGATTATATAGCACTAAGTGTGCGAG-TTGATTATATAGCACTGAG
1 AGCACTAAGTGTACGA-ATTGACTATATAGCACTAAGTGTGCGAGTTTGATTATATAGCACTAAG
38677426 TGTGCG
65 TGTGCG
38677432 GACTTAATAT
Statistics
Matches: 63, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
83 38 0.60
84 25 0.40
ACGTcount: A:0.27, C:0.13, G:0.27, T:0.32
Consensus pattern (83 bp):
AGCACTAAGTGTACGAATTGACTATATAGCACTAAGTGTGCGAGTTTGATTATATAGCACTAAGT
GTGCGAGTTTGACTATGT
Found at i:38683023 original size:25 final size:25
Alignment explanation
Indices: 38682979--38683050 Score: 108
Period size: 25 Copynumber: 2.9 Consensus size: 25
38682969 CAGGCCCATT
*
38682979 TTCACAACTCGTGTGAGCATACTGA
1 TTCACAACTCGTGTGAGCATACCGA
* * *
38683004 TTTACAGCTTGTGTGAGCATACCGA
1 TTCACAACTCGTGTGAGCATACCGA
38683029 TTCACAACTCGTGTGAGCATAC
1 TTCACAACTCGTGTGAGCATAC
38683051 ATGTACAAGA
Statistics
Matches: 40, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 40 1.00
ACGTcount: A:0.26, C:0.24, G:0.21, T:0.29
Consensus pattern (25 bp):
TTCACAACTCGTGTGAGCATACCGA
Found at i:38685908 original size:34 final size:32
Alignment explanation
Indices: 38685846--38685939 Score: 107
Period size: 34 Copynumber: 2.9 Consensus size: 32
38685836 AACTGCTTAG
*
38685846 CAAATGCATATACCTAATGCATATATATTTAA
1 CAAATGCATATACCGAATGCATATATATTTAA
* *
38685878 TAGATGCATATACCGAATGCACATATATATTTAA
1 CAAATGCATATACCGAATG--CATATATATTTAA
* * **
38685912 CAAATGCTTAGACCGAATATATATATAT
1 CAAATGCATATACCGAATGCATATATAT
38685940 GCTCATCAAT
Statistics
Matches: 51, Mismatches: 9, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
32 24 0.47
34 27 0.53
ACGTcount: A:0.43, C:0.15, G:0.10, T:0.33
Consensus pattern (32 bp):
CAAATGCATATACCGAATGCATATATATTTAA
Found at i:38686712 original size:76 final size:78
Alignment explanation
Indices: 38686573--38686740 Score: 200
Period size: 76 Copynumber: 2.2 Consensus size: 78
38686563 AGCTAACAAT
* * * *
38686573 TTCATACCTTTAATTCAATACAAGAACTTATATTTGTATATAAATACATATTCGAACTTACATAT
1 TTCATACCTTTAAATCAATACAAGAACTTATATATGTATATAAATACATATTCCAACTCACATAT
38686638 AC-ATACATAACA
66 ACAATACATAACA
* * * *
38686650 TTCATACCTTTAAAT-ATATTCAAG-ACTTAT-TCATGTATATACATATATGTTCCAACTCACAT
1 TTCATACCTTTAAATCA-ATACAAGAACTTATAT-ATGTATATAAATACATATTCCAACTCACAT
*
38686712 ATACATATATATAACA
64 ATACA-ATACATAACA
38686728 TTCATACCTTTAA
1 TTCATACCTTTAA
38686741 CCAAATCCAA
Statistics
Matches: 78, Mismatches: 9, Indels: 7
0.83 0.10 0.07
Matches are distributed among these distances:
75 1 0.01
76 35 0.45
77 20 0.26
78 22 0.28
ACGTcount: A:0.40, C:0.18, G:0.04, T:0.38
Consensus pattern (78 bp):
TTCATACCTTTAAATCAATACAAGAACTTATATATGTATATAAATACATATTCCAACTCACATAT
ACAATACATAACA
Found at i:38686877 original size:25 final size:25
Alignment explanation
Indices: 38686843--38686901 Score: 109
Period size: 25 Copynumber: 2.4 Consensus size: 25
38686833 GAATTTATAC
38686843 ATATATATATTCAAACATGATACAT
1 ATATATATATTCAAACATGATACAT
*
38686868 ATATATATATTCGAACATGATACAT
1 ATATATATATTCAAACATGATACAT
38686893 ATATATATA
1 ATATATATA
38686902 CATATCATTC
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 33 1.00
ACGTcount: A:0.47, C:0.10, G:0.05, T:0.37
Consensus pattern (25 bp):
ATATATATATTCAAACATGATACAT
Found at i:38691393 original size:60 final size:60
Alignment explanation
Indices: 38691322--38691442 Score: 242
Period size: 60 Copynumber: 2.0 Consensus size: 60
38691312 AATGAGTCCA
38691322 TCAATATATTTATTTCTCTTATTATTTATTTATTTATTTTTAAATAAATTTAAAAATATC
1 TCAATATATTTATTTCTCTTATTATTTATTTATTTATTTTTAAATAAATTTAAAAATATC
38691382 TCAATATATTTATTTCTCTTATTATTTATTTATTTATTTTTAAATAAATTTAAAAATATC
1 TCAATATATTTATTTCTCTTATTATTTATTTATTTATTTTTAAATAAATTTAAAAATATC
38691442 T
1 T
38691443 TAAAATCGAG
Statistics
Matches: 61, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
60 61 1.00
ACGTcount: A:0.36, C:0.07, G:0.00, T:0.57
Consensus pattern (60 bp):
TCAATATATTTATTTCTCTTATTATTTATTTATTTATTTTTAAATAAATTTAAAAATATC
Found at i:38695981 original size:14 final size:14
Alignment explanation
Indices: 38695962--38696001 Score: 55
Period size: 13 Copynumber: 2.9 Consensus size: 14
38695952 AGTTTGTAGA
38695962 AAATAAACAAAAAT
1 AAATAAACAAAAAT
*
38695976 AAATAAA-TAAAAT
1 AAATAAACAAAAAT
*
38695989 AAAAAAACAAAAA
1 AAATAAACAAAAA
38696002 CGTAAAACAG
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
13 11 0.50
14 11 0.50
ACGTcount: A:0.82, C:0.05, G:0.00, T:0.12
Consensus pattern (14 bp):
AAATAAACAAAAAT
Found at i:38699972 original size:23 final size:22
Alignment explanation
Indices: 38699920--38699972 Score: 56
Period size: 23 Copynumber: 2.4 Consensus size: 22
38699910 TCCACGTCTT
*
38699920 TTTCTTTTGTTTCTTTTTCTAA
1 TTTCTTTTCTTTCTTTTTCTAA
38699942 -TTCATTTTCTCTTCTTTCTTC-AA
1 TTTC-TTTTCT-TTCTTT-TTCTAA
38699965 TTTCTTTT
1 TTTCTTTT
38699973 TCACTCTCAA
Statistics
Matches: 26, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 3 0.12
22 5 0.19
23 12 0.46
24 6 0.23
ACGTcount: A:0.09, C:0.19, G:0.02, T:0.70
Consensus pattern (22 bp):
TTTCTTTTCTTTCTTTTTCTAA
Found at i:38701301 original size:11 final size:9
Alignment explanation
Indices: 38701261--38701294 Score: 52
Period size: 9 Copynumber: 3.9 Consensus size: 9
38701251 TTTTATTGAA
*
38701261 TTTTGTCTT
1 TTTTGACTT
38701270 TTTTGA-TT
1 TTTTGACTT
38701278 TTTTGACTT
1 TTTTGACTT
38701287 TTTTGACT
1 TTTTGACT
38701295 AATTTTTTTG
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
8 8 0.35
9 15 0.65
ACGTcount: A:0.09, C:0.09, G:0.12, T:0.71
Consensus pattern (9 bp):
TTTTGACTT
Found at i:38707591 original size:147 final size:147
Alignment explanation
Indices: 38707425--38707720 Score: 493
Period size: 147 Copynumber: 2.0 Consensus size: 147
38707415 TATTATAAAA
* * * *
38707425 TAAATAAATAGAGAGTAAAGAATAAAGAAAATAAGAAAGTAAAAGAGAGCTTAGCTTCTCTAAAG
1 TAAATAAATAAAGAGTAAAGAACAAAGAAAATAAGAAAGTAAAAGAGAGCGTAGCTTCTCCAAAG
38707490 TTTCTATTTATAGACATAATAAGTATAAATAAAAAAGAGATATACTTCTAATGACTATTAGAATT
66 TTTCTATTTATAGACATAATAAGTATAAATAAAAAAGAGATATACTTCTAATGACTATTAGAATT
*
38707555 TAAAGTATATAAAAACT
131 TAAAGTACATAAAAACT
* *
38707572 TAAATAAATAAAGAGTAAAGAACAAAGAAAATGAGAAAGTAAAAGATAGCGTAGCTTCTCCAAAG
1 TAAATAAATAAAGAGTAAAGAACAAAGAAAATAAGAAAGTAAAAGAGAGCGTAGCTTCTCCAAAG
* * * *
38707637 TTTTTATTTATAGACATAATAAGTATAAATGAAGAAGAGATATATTTCTAATGACTATTAGAATT
66 TTTCTATTTATAGACATAATAAGTATAAATAAAAAAGAGATATACTTCTAATGACTATTAGAATT
38707702 TAAAGTACATAAAAACT
131 TAAAGTACATAAAAACT
38707719 TA
1 TA
38707721 TATTGATATT
Statistics
Matches: 138, Mismatches: 11, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
147 138 1.00
ACGTcount: A:0.51, C:0.07, G:0.14, T:0.28
Consensus pattern (147 bp):
TAAATAAATAAAGAGTAAAGAACAAAGAAAATAAGAAAGTAAAAGAGAGCGTAGCTTCTCCAAAG
TTTCTATTTATAGACATAATAAGTATAAATAAAAAAGAGATATACTTCTAATGACTATTAGAATT
TAAAGTACATAAAAACT
Found at i:38708445 original size:28 final size:28
Alignment explanation
Indices: 38708412--38708465 Score: 81
Period size: 28 Copynumber: 1.9 Consensus size: 28
38708402 TATAAAAATT
*
38708412 ATTAATAATATTATTTAAATCATAATAA
1 ATTAATAATAATATTTAAATCATAATAA
* *
38708440 ATTAATATTAATATTTAAATGATAAT
1 ATTAATAATAATATTTAAATCATAAT
38708466 TTTTATATTT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 23 1.00
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.44
Consensus pattern (28 bp):
ATTAATAATAATATTTAAATCATAATAA
Found at i:38710536 original size:27 final size:26
Alignment explanation
Indices: 38710471--38710552 Score: 67
Period size: 27 Copynumber: 3.1 Consensus size: 26
38710461 GTGATGGAAA
* * ** *
38710471 AAATAATAAAAAATTTATTAAAATAA
1 AAATTATAAAAAATATAAAAAAATAT
38710497 AAATTATAAAAAA-AGTAAAGAAAATAT
1 AAATTATAAAAAATA-TAAA-AAAATAT
* *
38710524 AAATTATTCAAAATTATAAAAAAATAT
1 AAATTA-TAAAAAATATAAAAAAATAT
38710551 AA
1 AA
38710553 GAAAGTATTT
Statistics
Matches: 45, Mismatches: 7, Indels: 7
0.76 0.12 0.12
Matches are distributed among these distances:
26 14 0.31
27 21 0.47
28 9 0.20
29 1 0.02
ACGTcount: A:0.68, C:0.01, G:0.02, T:0.28
Consensus pattern (26 bp):
AAATTATAAAAAATATAAAAAAATAT
Found at i:38717824 original size:36 final size:36
Alignment explanation
Indices: 38717777--38717857 Score: 162
Period size: 36 Copynumber: 2.2 Consensus size: 36
38717767 TATCGTATGA
38717777 TTTGCCCATGTCTATTTTTAGTACAAAAGACCCCAT
1 TTTGCCCATGTCTATTTTTAGTACAAAAGACCCCAT
38717813 TTTGCCCATGTCTATTTTTAGTACAAAAGACCCCAT
1 TTTGCCCATGTCTATTTTTAGTACAAAAGACCCCAT
38717849 TTTGCCCAT
1 TTTGCCCAT
38717858 TCTCTTGTGC
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 45 1.00
ACGTcount: A:0.26, C:0.26, G:0.11, T:0.37
Consensus pattern (36 bp):
TTTGCCCATGTCTATTTTTAGTACAAAAGACCCCAT
Found at i:38723184 original size:50 final size:50
Alignment explanation
Indices: 38723130--38723225 Score: 122
Period size: 50 Copynumber: 1.9 Consensus size: 50
38723120 TTTGAAATCG
* * *
38723130 TCCATG-TCATGTATTTAAATGAGATAAACATTTCTATGCATTGAAAACCA
1 TCCATGATAATGTATTTAAATGACA-AAACATCTCTATGCATTGAAAACCA
* * *
38723180 TCCATGATAATGTATTTGAATGACAAAACGTCTCTGTGCATTGAAA
1 TCCATGATAATGTATTTAAATGACAAAACATCTCTATGCATTGAAA
38723226 TTGTCCATAT
Statistics
Matches: 39, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
50 24 0.62
51 15 0.38
ACGTcount: A:0.36, C:0.16, G:0.15, T:0.33
Consensus pattern (50 bp):
TCCATGATAATGTATTTAAATGACAAAACATCTCTATGCATTGAAAACCA
Found at i:38723263 original size:20 final size:22
Alignment explanation
Indices: 38723220--38723268 Score: 75
Period size: 23 Copynumber: 2.3 Consensus size: 22
38723210 TCTCTGTGCA
38723220 TTGAAATTGTCCATATCCCATGC
1 TTGAAATTGTCCATAT-CCATGC
38723243 TTGAAATTGTCCAT-T-CATGC
1 TTGAAATTGTCCATATCCATGC
38723263 TTGAAA
1 TTGAAA
38723269 CGTCCATCCT
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
20 11 0.42
22 1 0.04
23 14 0.54
ACGTcount: A:0.29, C:0.20, G:0.14, T:0.37
Consensus pattern (22 bp):
TTGAAATTGTCCATATCCATGC
Found at i:38723275 original size:19 final size:19
Alignment explanation
Indices: 38723238--38723303 Score: 62
Period size: 19 Copynumber: 3.5 Consensus size: 19
38723228 GTCCATATCC
*
38723238 CATGCTTGAAATTGTCCATT
1 CATGCTTGAAA-CGTCCATT
*
38723258 CATGCTTGAAACGTCCATC
1 CATGCTTGAAACGTCCATT
* * * *
38723277 CTTGATTGAAACATTCA-T
1 CATGCTTGAAACGTCCATT
38723295 CATGCTTGA
1 CATGCTTGA
38723304 TGTATGAAAA
Statistics
Matches: 37, Mismatches: 9, Indels: 2
0.77 0.19 0.04
Matches are distributed among these distances:
18 7 0.19
19 19 0.51
20 11 0.30
ACGTcount: A:0.27, C:0.23, G:0.15, T:0.35
Consensus pattern (19 bp):
CATGCTTGAAACGTCCATT
Found at i:38725218 original size:21 final size:21
Alignment explanation
Indices: 38725192--38725234 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
38725182 AGGATTTCTA
* *
38725192 GTATTAATAATGTTGTTAATT
1 GTATTAACAATATTGTTAATT
38725213 GTATTAACAATATTGTTAATT
1 GTATTAACAATATTGTTAATT
38725234 G
1 G
38725235 AGTTGGTGTC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.35, C:0.02, G:0.14, T:0.49
Consensus pattern (21 bp):
GTATTAACAATATTGTTAATT
Found at i:38726438 original size:22 final size:22
Alignment explanation
Indices: 38726394--38726441 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 22
38726384 ATATAATAGT
* *
38726394 GAAATTGTAGCAAGACAACAGC
1 GAAATAGTAGCAAAACAACAGC
**
38726416 GAAATAGTAGCAAAACAGTAGC
1 GAAATAGTAGCAAAACAACAGC
38726438 GAAA
1 GAAA
38726442 CAACAACAAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.50, C:0.15, G:0.23, T:0.12
Consensus pattern (22 bp):
GAAATAGTAGCAAAACAACAGC
Found at i:38726858 original size:22 final size:22
Alignment explanation
Indices: 38726828--38726946 Score: 90
Period size: 22 Copynumber: 5.6 Consensus size: 22
38726818 TTTTTATTTT
38726828 AAAA-ATTTTAAAAA-ATTAAA
1 AAAATATTTTAAAAATATTAAA
**
38726848 AAAAGTATTTTAAAAATATTTTA
1 AAAA-TATTTTAAAAATATTAAA
*
38726871 AAAATATTTTAAAAATATT--T
1 AAAATATTTTAAAAATATTAAA
* ** **
38726891 TAAA-ATTAAAAAAAGTATTTTA
1 AAAATATTTTAAAAA-TATTAAA
*
38726913 AAAATATTTT-AAAAT-TAAAA
1 AAAATATTTTAAAAATATTAAA
38726933 AAAATATTTTAAAA
1 AAAATATTTTAAAA
38726947 TTAAAAAAAA
Statistics
Matches: 78, Mismatches: 13, Indels: 15
0.74 0.12 0.14
Matches are distributed among these distances:
19 8 0.10
20 23 0.29
21 4 0.05
22 32 0.41
23 11 0.14
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.38
Consensus pattern (22 bp):
AAAATATTTTAAAAATATTAAA
Found at i:38726862 original size:11 final size:11
Alignment explanation
Indices: 38726822--38726926 Score: 114
Period size: 11 Copynumber: 9.9 Consensus size: 11
38726812 GGCCCATTTT
38726822 TATTTT-AAAA
1 TATTTTAAAAA
38726832 -ATTTTAAAAA
1 TATTTTAAAAA
**
38726842 -ATTAAAAAAA
1 TATTTTAAAAA
38726852 GTATTTTAAAAA
1 -TATTTTAAAAA
38726864 TATTTTAAAAA
1 TATTTTAAAAA
38726875 TATTTTAAAAA
1 TATTTTAAAAA
38726886 TATTTT--AAA
1 TATTTTAAAAA
**
38726895 -ATTAAAAAAA
1 TATTTTAAAAA
38726905 GTATTTTAAAAA
1 -TATTTTAAAAA
38726917 TATTTTAAAA
1 TATTTTAAAA
38726927 TTAAAAAAAA
Statistics
Matches: 80, Mismatches: 8, Indels: 13
0.79 0.08 0.13
Matches are distributed among these distances:
8 3 0.04
9 8 0.10
10 15 0.19
11 38 0.47
12 16 0.20
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (11 bp):
TATTTTAAAAA
Found at i:38726885 original size:53 final size:53
Alignment explanation
Indices: 38726822--38726955 Score: 193
Period size: 53 Copynumber: 2.6 Consensus size: 53
38726812 GGCCCATTTT
38726822 TATTTTAAAAAT-TTTAAAAAATTAAAAAAAGTATTTTAAAAATATTTTAAAAA
1 TATTTTAAAAATATTT-AAAAATTAAAAAAAGTATTTTAAAAATATTTTAAAAA
*
38726875 TATTTTAAAAATATTTTAAAATTAAAAAAAGTATTTTAAAAATATTTT-AAAA
1 TATTTTAAAAATATTTAAAAATTAAAAAAAGTATTTTAAAAATATTTTAAAAA
*** *
38726927 T-TAAAAAAAATATTTTAAAATTAAAAAAA
1 TATTTTAAAAATATTTAAAAATTAAAAAAA
38726956 ATTAAAAAAA
Statistics
Matches: 76, Mismatches: 4, Indels: 4
0.90 0.05 0.05
Matches are distributed among these distances:
51 25 0.33
52 5 0.07
53 43 0.57
54 3 0.04
ACGTcount: A:0.60, C:0.00, G:0.01, T:0.39
Consensus pattern (53 bp):
TATTTTAAAAATATTTAAAAATTAAAAAAAGTATTTTAAAAATATTTTAAAAA
Found at i:38726909 original size:20 final size:19
Alignment explanation
Indices: 38726881--38726955 Score: 76
Period size: 20 Copynumber: 4.3 Consensus size: 19
38726871 AAAATATTTT
38726881 AAAAATATTTTAAAATTAA
1 AAAAATATTTTAAAATTAA
38726900 AAAAAGTA--TT----TT-A
1 AAAAA-TATTTTAAAATTAA
38726913 A-AAATATTTTAAAATTAAA
1 AAAAATATTTTAAAATT-AA
38726932 AAAAATATTTTAAAATTAA
1 AAAAATATTTTAAAATTAA
38726951 AAAAA
1 AAAAA
38726956 ATTAAAAAAA
Statistics
Matches: 46, Mismatches: 0, Indels: 20
0.70 0.00 0.30
Matches are distributed among these distances:
11 2 0.04
12 3 0.07
13 4 0.09
14 2 0.04
17 2 0.04
18 2 0.04
19 14 0.30
20 17 0.37
ACGTcount: A:0.64, C:0.00, G:0.01, T:0.35
Consensus pattern (19 bp):
AAAAATATTTTAAAATTAA
Found at i:38726913 original size:31 final size:31
Alignment explanation
Indices: 38726870--38726998 Score: 156
Period size: 31 Copynumber: 4.2 Consensus size: 31
38726860 AAAATATTTT
38726870 AAAAA-TATTTTAAAAATATTTTAAAATTAA
1 AAAAAGTATTTTAAAAATATTTTAAAATTAA
38726900 AAAAAGTATTTTAAAAATATTTTAAAATTAA
1 AAAAAGTATTTTAAAAATATTTTAAAATTAA
* * ***
38726931 AAAAAATATTTTAAAATTA-AAAAAAATTAAAA
1 AAAAAGTATTTTAAAAATATTTTAAAATT--AA
*
38726963 AAAAAGTA-TGTAAATAATATTTTAAAATTAA
1 AAAAAGTATTTTAAA-AATATTTTAAAATTAA
38726994 AAAAA
1 AAAAA
38726999 TAAATATATT
Statistics
Matches: 83, Mismatches: 11, Indels: 9
0.81 0.11 0.09
Matches are distributed among these distances:
30 11 0.13
31 54 0.65
32 12 0.14
33 6 0.07
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (31 bp):
AAAAAGTATTTTAAAAATATTTTAAAATTAA
Found at i:38726956 original size:20 final size:20
Alignment explanation
Indices: 38726912--38726957 Score: 92
Period size: 20 Copynumber: 2.3 Consensus size: 20
38726902 AAAGTATTTT
38726912 AAAAATATTTTAAAATTAAA
1 AAAAATATTTTAAAATTAAA
38726932 AAAAATATTTTAAAATTAAA
1 AAAAATATTTTAAAATTAAA
38726952 AAAAAT
1 AAAAAT
38726958 TAAAAAAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (20 bp):
AAAAATATTTTAAAATTAAA
Found at i:38727399 original size:27 final size:28
Alignment explanation
Indices: 38727369--38727428 Score: 104
Period size: 28 Copynumber: 2.2 Consensus size: 28
38727359 TTCAATTTTA
38727369 AATTATAAATCAATG-TTAATTTAGACT
1 AATTATAAATCAATGTTTAATTTAGACT
*
38727396 AATTATAAATCAATGTTTAATTTGGACT
1 AATTATAAATCAATGTTTAATTTAGACT
38727424 AATTA
1 AATTA
38727429 ATTTGAAGGC
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
27 15 0.48
28 16 0.52
ACGTcount: A:0.43, C:0.07, G:0.08, T:0.42
Consensus pattern (28 bp):
AATTATAAATCAATGTTTAATTTAGACT
Found at i:38727904 original size:33 final size:34
Alignment explanation
Indices: 38727844--38727914 Score: 117
Period size: 33 Copynumber: 2.1 Consensus size: 34
38727834 TATAAACAGT
**
38727844 TGCAAAGATTAAAGAAAAAAAGTTAGAGGTTAGC
1 TGCAAAGATTAAAGAAAAAAAAATAGAGGTTAGC
38727878 TGCAAAGATTAAA-AAAAAAAAATAGAGGTTAGC
1 TGCAAAGATTAAAGAAAAAAAAATAGAGGTTAGC
38727911 TGCA
1 TGCA
38727915 GTTCTCAATT
Statistics
Matches: 35, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
33 22 0.63
34 13 0.37
ACGTcount: A:0.52, C:0.07, G:0.21, T:0.20
Consensus pattern (34 bp):
TGCAAAGATTAAAGAAAAAAAAATAGAGGTTAGC
Found at i:38728621 original size:20 final size:20
Alignment explanation
Indices: 38728561--38728623 Score: 60
Period size: 20 Copynumber: 3.2 Consensus size: 20
38728551 TGGAAGGGAG
*
38728561 AAAG-AAAAAGG-AAAATGA
1 AAAGAAAAAAGGAAAAATAA
*
38728579 AAAGAAAAAAGGGAATGAA-AA
1 AAAGAAAAAA-GGAA-AAATAA
*
38728600 AAATAAAAAAGGAAAAATAA
1 AAAGAAAAAAGGAAAAATAA
38728620 AAAG
1 AAAG
38728624 TGGTGGGCCG
Statistics
Matches: 35, Mismatches: 5, Indels: 8
0.73 0.10 0.17
Matches are distributed among these distances:
18 4 0.11
19 7 0.20
20 11 0.31
21 11 0.31
22 2 0.06
ACGTcount: A:0.75, C:0.00, G:0.19, T:0.06
Consensus pattern (20 bp):
AAAGAAAAAAGGAAAAATAA
Found at i:38740432 original size:40 final size:40
Alignment explanation
Indices: 38740157--38740418 Score: 331
Period size: 40 Copynumber: 6.7 Consensus size: 40
38740147 TTGAATGATG
* * * *
38740157 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
38740197 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
38740237 TCCGGGCT--G-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
38740274 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
38740313 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
38740353 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
38740394 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
38740419 AACGAGGAGC
Statistics
Matches: 201, Mismatches: 14, Indels: 14
0.88 0.06 0.06
Matches are distributed among these distances:
37 35 0.17
38 1 0.00
39 37 0.18
40 118 0.59
41 10 0.05
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:38740436 original size:80 final size:77
Alignment explanation
Indices: 38740158--38740451 Score: 262
Period size: 80 Copynumber: 3.7 Consensus size: 77
38740148 TGAATGATGT
* * * **
38740158 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGAT-CCGAAGGCATT
1 CCGGGCTATGTCCCGAAGGCATTTGTGC-GAG-GACTA-ATCCGGGTTAAG-TCCCGAAGGCATT
*
38740221 TGTGCGAGA-TACTAATT
62 TGTGCGA-ATTACTAA-A
* *
38740238 CCGGGC--TG-CCCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAG-CCCGAAGGCATTTG
1 CCGGGCTATGTCCCGAAGGCATTTGTGCGAG-GACTAA-TCCGGGTTAAGTCCCGAAGGCATTTG
*
38740299 TGCGAGTTACTAAA
64 TGCGAATTACTAAA
* * *
38740313 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTT
1 -CCGGGCTATGTCCCGAAGGCATTTGTGCGAG-GACT-AATCCGGGTTAAGTCCCGAAGGCATTT
38740378 GTGCGAATTACTATAA
63 GTGCGAATTACTA-AA
** * *
38740394 CCGGGCTATGTCCCGAAGGCATTTGAACGAGGAGCTATATCC-GGTTAAATTCCGAAGG
1 CCGGGCTATGTCCCGAAGGCATTTGTGCGAGGA-CTA-ATCCGGGTTAAGTCCCGAAGG
38740452 TACGTGATTT
Statistics
Matches: 181, Mismatches: 20, Indels: 27
0.79 0.09 0.12
Matches are distributed among these distances:
76 30 0.17
77 24 0.13
78 9 0.05
79 50 0.28
80 66 0.36
81 2 0.01
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (77 bp):
CCGGGCTATGTCCCGAAGGCATTTGTGCGAGGACTAATCCGGGTTAAGTCCCGAAGGCATTTGTG
CGAATTACTAAA
Found at i:38742812 original size:118 final size:118
Alignment explanation
Indices: 38742604--38742837 Score: 441
Period size: 118 Copynumber: 2.0 Consensus size: 118
38742594 AGTAGAACTT
*
38742604 TGACGGGAGCCCAACGCAATTATACGGTAACCGAAAAGGAAATCTTCGCTATAGTTTTTGCTTTT
1 TGACGGGAGCCCAACGCAATTATACGGTAACCGAAAAGGAAATCTTCGCTATAGTTTTTGCTTTC
38742669 GAAAAATTCCGCTCATATCTTATAGGTACCAAAGTTACAGTATTTACTAACCA
66 GAAAAATTCCGCTCATATCTTATAGGTACCAAAGTTACAGTATTTACTAACCA
* *
38742722 TGACGGGAGCCCAACGCAATTATACGGTAATCGAAAAGGAACTCTTCGCTATAGTTTTTGCTTTC
1 TGACGGGAGCCCAACGCAATTATACGGTAACCGAAAAGGAAATCTTCGCTATAGTTTTTGCTTTC
38742787 GAAAAATTCCGCTCATATCTTATAGGTACCAAAGTTACAGTATTTACTAAC
66 GAAAAATTCCGCTCATATCTTATAGGTACCAAAGTTACAGTATTTACTAAC
38742838 TATGCGGCCA
Statistics
Matches: 113, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
118 113 1.00
ACGTcount: A:0.32, C:0.21, G:0.17, T:0.30
Consensus pattern (118 bp):
TGACGGGAGCCCAACGCAATTATACGGTAACCGAAAAGGAAATCTTCGCTATAGTTTTTGCTTTC
GAAAAATTCCGCTCATATCTTATAGGTACCAAAGTTACAGTATTTACTAACCA
Found at i:38744204 original size:50 final size:50
Alignment explanation
Indices: 38744093--38744331 Score: 270
Period size: 50 Copynumber: 4.7 Consensus size: 50
38744083 ATTTGGGTAA
38744093 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTGAGATCATG
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA-CC--GAG---ATG
* *
38744149 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
* * *
38744199 AGAGGTCCC-TCGTAAGACCATGTCTGGGACATGGCATGGGCACCGATATG
1 AGAGATCCCAT-GTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
* * *
38744249 AGA-ACTCCCATGTAAGACCATATCTGGGATATGGCATTGGCA--GTACATG
1 AGAGA-TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCG-AGATG
* * *
38744298 AAACATCCTATGTAAGACCATGTCTGGGACATGG
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGG
38744332 TTTTGGCATG
Statistics
Matches: 164, Mismatches: 14, Indels: 17
0.84 0.07 0.09
Matches are distributed among these distances:
48 1 0.01
49 33 0.20
50 84 0.51
51 1 0.01
53 3 0.02
55 2 0.01
56 40 0.24
ACGTcount: A:0.27, C:0.22, G:0.28, T:0.23
Consensus pattern (50 bp):
AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
Found at i:38751631 original size:9 final size:9
Alignment explanation
Indices: 38751617--38751705 Score: 108
Period size: 9 Copynumber: 9.9 Consensus size: 9
38751607 TTCAGTTAAA
38751617 AATTAACCG
1 AATTAACCG
38751626 AATTAACCG
1 AATTAACCG
38751635 AATT-ACTCG
1 AATTAAC-CG
38751644 AATTAACCG
1 AATTAACCG
*
38751653 AATTAACTG
1 AATTAACCG
* *
38751662 GATTACCCG
1 AATTAACCG
*
38751671 AATTAACTG
1 AATTAACCG
* *
38751680 AATTACCCA
1 AATTAACCG
38751689 AATTAACCG
1 AATTAACCG
38751698 AATTAACC
1 AATTAACC
38751706 TGTAACACCC
Statistics
Matches: 66, Mismatches: 12, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
8 2 0.03
9 62 0.94
10 2 0.03
ACGTcount: A:0.42, C:0.22, G:0.10, T:0.26
Consensus pattern (9 bp):
AATTAACCG
Found at i:38753188 original size:40 final size:40
Alignment explanation
Indices: 38753090--38753352 Score: 316
Period size: 40 Copynumber: 6.6 Consensus size: 40
38753080 TCCTCGTTCA
* * * * *
38753090 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
*
38753129 AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
*
38753169 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
38753209 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
38753249 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* ** * * * *
38753289 AAGGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCACG
* *
38753329 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
38753353 CAGCATTCAA
Statistics
Matches: 200, Mismatches: 20, Indels: 7
0.88 0.09 0.03
Matches are distributed among these distances:
39 38 0.19
40 154 0.77
41 8 0.04
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:38753361 original size:41 final size:41
Alignment explanation
Indices: 38753284--38753361 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
38753274 TTAGTATCTC
* * *
38753284 GCACAAAGGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
38753325 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAAGGCCTTC-GGATCTTAGCCCGGACA-CATTCA
38753362 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (41 bp):
GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:38760518 original size:40 final size:40
Alignment explanation
Indices: 38760420--38760682 Score: 316
Period size: 40 Copynumber: 6.6 Consensus size: 40
38760410 TCCTCGTTCA
* * * * *
38760420 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
*
38760459 AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
*
38760499 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
38760539 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
38760579 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* ** * * * *
38760619 AAGGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCACG
* *
38760659 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
38760683 CAGCATTCAA
Statistics
Matches: 200, Mismatches: 20, Indels: 7
0.88 0.09 0.03
Matches are distributed among these distances:
39 38 0.19
40 154 0.77
41 8 0.04
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:38760691 original size:41 final size:41
Alignment explanation
Indices: 38760614--38760691 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
38760604 TTAGTATCTC
* * *
38760614 GCACAAAGGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
38760655 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAAGGCCTTC-GGATCTTAGCCCGGACA-CATTCA
38760692 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (41 bp):
GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:38767987 original size:40 final size:40
Alignment explanation
Indices: 38767889--38768151 Score: 298
Period size: 40 Copynumber: 6.6 Consensus size: 40
38767879 TCCTCGTTCA
* * * * *
38767889 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* *
38767928 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
38767968 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* *
38768008 AATGCCTTCGGGACTTAACCCAGATTTAATAACTCACACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
38768048 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* ** * * * *
38768088 AAGGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCACG
* *
38768128 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
38768152 CAGCATTCAA
Statistics
Matches: 196, Mismatches: 24, Indels: 7
0.86 0.11 0.03
Matches are distributed among these distances:
39 37 0.19
40 151 0.77
41 8 0.04
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.25
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:38768160 original size:41 final size:41
Alignment explanation
Indices: 38768083--38768160 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
38768073 TTAGTATCTC
* * *
38768083 GCACAAAGGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
38768124 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAAGGCCTTC-GGATCTTAGCCCGGACA-CATTCA
38768161 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (41 bp):
GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:38774713 original size:19 final size:19
Alignment explanation
Indices: 38774685--38774723 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 19
38774675 AGAGCAAAAG
38774685 AAACGAG-AAACGGGCCAA
1 AAACGAGAAAACGGGCCAA
*
38774703 AAACGGAGAAAATGGGCCAA
1 AAAC-GAGAAAACGGGCCAA
38774723 A
1 A
38774724 GTATGAAATC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 4 0.22
19 3 0.17
20 11 0.61
ACGTcount: A:0.51, C:0.18, G:0.28, T:0.03
Consensus pattern (19 bp):
AAACGAGAAAACGGGCCAA
Found at i:38778211 original size:43 final size:41
Alignment explanation
Indices: 38778091--38778212 Score: 135
Period size: 44 Copynumber: 3.0 Consensus size: 41
38778081 GTAATCAAAT
* *
38778091 ATCGATG-CACCATCCCAGACA-GG-GTTACACGAAATCAA
1 ATCGATGCCAACATCCCAGACATGGTCTTACACGAAATCAA
* * *
38778129 ATACGATGCTAA-GTCCCAGACATGGTCTTACACATAAATCATA
1 AT-CGATGCCAACATCCCAGACATGGTCTTACAC-GAAATCA-A
38778172 AGTCGATGCCAACATCCCAGACATGGTCTTACACGAAATCA
1 A-TCGATGCCAACATCCCAGACATGGTCTTACACGAAATCA
38778213 CAGCATGACA
Statistics
Matches: 68, Mismatches: 8, Indels: 11
0.78 0.09 0.13
Matches are distributed among these distances:
38 2 0.03
39 14 0.21
40 3 0.04
41 6 0.09
42 6 0.09
43 16 0.24
44 21 0.31
ACGTcount: A:0.36, C:0.27, G:0.16, T:0.20
Consensus pattern (41 bp):
ATCGATGCCAACATCCCAGACATGGTCTTACACGAAATCAA
Found at i:38790517 original size:18 final size:18
Alignment explanation
Indices: 38790481--38790520 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
38790471 TTTATGATTA
**
38790481 GGTTGGGTTGGGTAATTG
1 GGTTGGGTTGAATAATTG
*
38790499 GGTTGGGTTGAATACTTG
1 GGTTGGGTTGAATAATTG
38790517 GGTT
1 GGTT
38790521 TGGATTGGGT
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:0.12, C:0.03, G:0.45, T:0.40
Consensus pattern (18 bp):
GGTTGGGTTGAATAATTG
Found at i:38791625 original size:33 final size:32
Alignment explanation
Indices: 38791575--38791669 Score: 97
Period size: 30 Copynumber: 3.0 Consensus size: 32
38791565 CATGTAGAAT
* * *
38791575 CAGTCTGGGCCTGAGCCCTATACAGTATCAGTA
1 CAGTGTGGGCCTTAGCCC-ATACAGTAACAGTA
38791608 CAGTGTGGGCCTTAGCCCATTACAGTAACA--A
1 CAGTGTGGGCCTTAGCCCA-TACAGTAACAGTA
* *
38791639 -TGTGTGGGCTTTAGCCCAATACAGTAACAGT
1 CAGTGTGGGCCTTAGCCC-ATACAGTAACAGT
38791670 GGGGGCTTTA
Statistics
Matches: 53, Mismatches: 5, Indels: 9
0.79 0.07 0.13
Matches are distributed among these distances:
30 25 0.47
31 2 0.04
32 1 0.02
33 25 0.47
ACGTcount: A:0.26, C:0.24, G:0.24, T:0.25
Consensus pattern (32 bp):
CAGTGTGGGCCTTAGCCCATACAGTAACAGTA
Found at i:38791693 original size:28 final size:28
Alignment explanation
Indices: 38791603--38791687 Score: 118
Period size: 30 Copynumber: 3.0 Consensus size: 28
38791593 TATACAGTAT
* *
38791603 CAGT-ACAGTGTGGGCCTTAGCCCATTA
1 CAGTAACAGTGTGGGCTTTAGCCCAATA
38791630 CAGTAACAATGTGTGGGCTTTAGCCCAATA
1 CAGTAAC-A-GTGTGGGCTTTAGCCCAATA
*
38791660 CAGTAACAGTGGGGGCTTTAGCCCAATA
1 CAGTAACAGTGTGGGCTTTAGCCCAATA
38791688 TTGTAATCAG
Statistics
Matches: 52, Mismatches: 3, Indels: 5
0.87 0.05 0.08
Matches are distributed among these distances:
27 4 0.08
28 21 0.40
29 2 0.04
30 25 0.48
ACGTcount: A:0.27, C:0.22, G:0.26, T:0.25
Consensus pattern (28 bp):
CAGTAACAGTGTGGGCTTTAGCCCAATA
Found at i:38791832 original size:26 final size:26
Alignment explanation
Indices: 38791803--38791879 Score: 100
Period size: 26 Copynumber: 3.0 Consensus size: 26
38791793 ACACCAATAT
* * * *
38791803 CGCAGCAAAGCTGCTAGTAATAGTGA
1 CGCAACAAAGCTGCCAGTAACAGTAA
*
38791829 CGCATCAAAGCTGCCAGTAACAGTAA
1 CGCAACAAAGCTGCCAGTAACAGTAA
*
38791855 CACAACAAAGCTGCCAGTAACAGTA
1 CGCAACAAAGCTGCCAGTAACAGTA
38791880 TATGTGGCAA
Statistics
Matches: 45, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 45 1.00
ACGTcount: A:0.39, C:0.25, G:0.21, T:0.16
Consensus pattern (26 bp):
CGCAACAAAGCTGCCAGTAACAGTAA
Found at i:38792169 original size:81 final size:81
Alignment explanation
Indices: 38792054--38792356 Score: 298
Period size: 81 Copynumber: 3.8 Consensus size: 81
38792044 GGGTATAACA
* * *
38792054 GTCATTTTACCCTAT-AGGAGTATTTC-GATCATTTTACCTTTCAGGGGTATTTC-AGTCATTTT
1 GTCATTTTACCCTTTAAGG-GTATTTCAG-TCATTTTACCCTTCAAGGGTATTTCGA-TCATTTT
38792116 AACCTTCGAAGGTATTTCT
63 AACCTTCGAAGGTATTTCT
* * * * *
38792135 ATCATTTTACCCTTTAAGGGTATTTCGGTTATTTTA-CCTTTAGGGGGTA-TTC-AGTCATTTTA
1 GTCATTTTACCCTTTAAGGGTATTTCAGTCATTTTACCCTTCA-AGGGTATTTCGA-TCATTTTA
* * *
38792197 CCCTTCAAATGTATTT-T
64 ACCTTCGAAGGTATTTCT
* * *
38792214 GGTCATTTTACTCTTTAAGGGTATTTCAGTCATGTTACCCTTCAAGAGTATTTCGATCATTTT-A
1 -GTCATTTTACCCTTTAAGGGTATTTCAGTCATTTTACCCTTCAAGGGTATTTCGATCATTTTAA
* * *
38792278 CCTTTTGAGGGTATTTCG
65 CC-TTCGAAGGTATTTCT
* * **
38792296 GTCATTGTACCATTCGAGGGTATTTCAGTCATTTTACCCTTCAAGGGTATTTCGATCATTT
1 GTCATTTTACCCTTTAAGGGTATTTCAGTCATTTTACCCTTCAAGGGTATTTCGATCATTT
38792357 GCTATGAATC
Statistics
Matches: 184, Mismatches: 29, Indels: 18
0.80 0.13 0.08
Matches are distributed among these distances:
79 1 0.01
80 67 0.36
81 111 0.60
82 5 0.03
ACGTcount: A:0.21, C:0.18, G:0.17, T:0.44
Consensus pattern (81 bp):
GTCATTTTACCCTTTAAGGGTATTTCAGTCATTTTACCCTTCAAGGGTATTTCGATCATTTTAAC
CTTCGAAGGTATTTCT
Found at i:38792342 original size:27 final size:27
Alignment explanation
Indices: 38792052--38792356 Score: 268
Period size: 27 Copynumber: 11.3 Consensus size: 27
38792042 AGGGGTATAA
38792052 CAGTCATTTTACCC-T-ATAGGAGTATTT
1 CAGTCATTTTACCCTTCA-AGG-GTATTT
* *
38792079 C-GATCATTTTACCTTTCAGGGGTATTT
1 CAG-TCATTTTACCCTTCAAGGGTATTT
*
38792106 CAGTCATTTTAACCTTCGAA-GGTATTT
1 CAGTCATTTTACCCTTC-AAGGGTATTT
*
38792133 CTA-TCATTTTACCCTTTAAGGGTATTT
1 C-AGTCATTTTACCCTTCAAGGGTATTT
* * * *
38792160 CGGTTATTTTA-CCTTTAGGGGGTA-TT
1 CAGTCATTTTACCCTTCA-AGGGTATTT
**
38792186 CAGTCATTTTACCCTTCAAATGTATTT
1 CAGTCATTTTACCCTTCAAGGGTATTT
** * *
38792213 TGGTCATTTTACTCTTTAAGGGTATTT
1 CAGTCATTTTACCCTTCAAGGGTATTT
* *
38792240 CAGTCATGTTACCCTTCAAGAGTATTT
1 CAGTCATTTTACCCTTCAAGGGTATTT
* **
38792267 C-GATCATTTTACCTTTTGAGGGTATTT
1 CAG-TCATTTTACCCTTCAAGGGTATTT
* * * *
38792294 CGGTCATTGTACCATTCGAGGGTATTT
1 CAGTCATTTTACCCTTCAAGGGTATTT
38792321 CAGTCATTTTACCCTTCAAGGGTATTT
1 CAGTCATTTTACCCTTCAAGGGTATTT
38792348 C-GATCATTT
1 CAG-TCATTT
38792357 GCTATGAATC
Statistics
Matches: 224, Mismatches: 40, Indels: 28
0.77 0.14 0.10
Matches are distributed among these distances:
26 25 0.11
27 191 0.85
28 7 0.03
29 1 0.00
ACGTcount: A:0.22, C:0.18, G:0.17, T:0.44
Consensus pattern (27 bp):
CAGTCATTTTACCCTTCAAGGGTATTT
Found at i:38796210 original size:27 final size:27
Alignment explanation
Indices: 38796193--38796425 Score: 180
Period size: 27 Copynumber: 8.6 Consensus size: 27
38796183 ATATTAAGTC
38796193 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTCAGTGCTATATAATCAACT
* *
38796220 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTCAGTGCTATATAATC-AACT
* * *
38796248 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTCAGTGCTATATAATCAACT
* * *
38796275 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTCAGTGCTATATAATCAACT
* * *
38796302 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTCAGTGCTATATAATC-AACT
* *** ** *
38796330 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTCAGTGCTATATAATCAACT
* * **
38796357 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTCAGTGCTAT-ATAATCAACT
* * * * *
38796384 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTCAGTGCTATATAATCAACT
*
38796411 CGCACACTTAGTGCT
1 CGCACACTCAGTGCT
38796426 GTACAATTTA
Statistics
Matches: 185, Mismatches: 17, Indels: 8
0.88 0.08 0.04
Matches are distributed among these distances:
27 134 0.72
28 51 0.28
ACGTcount: A:0.30, C:0.29, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTCAGTGCTATATAATCAACT
Found at i:38796277 original size:55 final size:54
Alignment explanation
Indices: 38796193--38796425 Score: 315
Period size: 55 Copynumber: 4.3 Consensus size: 54
38796183 ATATTAAGTC
* * * *
38796193 CGCACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTC-AACT
38796248 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAACT
** * *
38796302 CGCACACTTAGTGCTACATAGTCAAACTCGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTC-AACTCGCACACTTAGTGCTACATAGTCAACT
* ** * *
38796357 CGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTA-CATAGTCAACTCGCACACTTAGTGCTACATAGTCAACT
38796411 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
38796426 GTACAATTTA
Statistics
Matches: 160, Mismatches: 15, Indels: 6
0.88 0.08 0.03
Matches are distributed among these distances:
54 67 0.42
55 93 0.58
ACGTcount: A:0.30, C:0.29, G:0.15, T:0.27
Consensus pattern (54 bp):
CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAACT
Found at i:38796330 original size:82 final size:82
Alignment explanation
Indices: 38796193--38796425 Score: 335
Period size: 82 Copynumber: 2.9 Consensus size: 82
38796183 ATATTAAGTC
* * *
38796193 CGCACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCTACATAATCAAACTCGCACACTTA
1 CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCTACATAGTCAAACTCGCACACTTA
38796258 GTGCTACATAGTCAACT
66 GTGCTACATAGTCAACT
*
38796275 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAAACTCGCACACTTA
1 CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCTACATAGTCAAACTCGCACACTTA
** * *
38796340 GTGCCGCATGGTCAATT
66 GTGCTACATAGTCAACT
* ** *
38796357 CGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAA-TCGCACACTT
1 CGCACACTTAGTGCTA-CATAATCAACTCGCACACTTAGTGCTACATAGTCAAACTCGCACACTT
38796420 AGTGCT
65 AGTGCT
38796426 GTACAATTTA
Statistics
Matches: 137, Mismatches: 13, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
81 16 0.12
82 121 0.88
ACGTcount: A:0.30, C:0.29, G:0.15, T:0.27
Consensus pattern (82 bp):
CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCTACATAGTCAAACTCGCACACTTA
GTGCTACATAGTCAACT
Found at i:38804501 original size:27 final size:27
Alignment explanation
Indices: 38804471--38804691 Score: 214
Period size: 27 Copynumber: 8.6 Consensus size: 27
38804461 ATATTGAGCC
* *
38804471 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* *
38804498 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
38804525 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
**
38804553 CGCACACTTAGTGC--CATGGTCAA-T
1 CGCACACTTAGTGCTACATAATCAACT
38804577 CGCACACTTAGTGCT-CAT-ATC-A-T
1 CGCACACTTAGTGCTACATAATCAACT
*
38804600 CGCACACTTAGTGC--CAT-GTCAA-T
1 CGCACACTTAGTGCTACATAATCAACT
* **
38804623 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* * *
38804650 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
38804677 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
38804692 GTACAATTTA
Statistics
Matches: 170, Mismatches: 16, Indels: 16
0.84 0.08 0.08
Matches are distributed among these distances:
22 5 0.03
23 32 0.19
24 17 0.10
25 8 0.05
26 9 0.05
27 81 0.48
28 18 0.11
ACGTcount: A:0.29, C:0.29, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:38807701 original size:49 final size:50
Alignment explanation
Indices: 38807632--38807864 Score: 299
Period size: 49 Copynumber: 4.7 Consensus size: 50
38807622 ATCTATTGTG
* *
38807632 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATTATT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
* * * *
38807682 -GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGATAACTT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAA-TT
* * * * * **
38807732 CGATCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
* *
38807782 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACATGTACCGGATAATT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
*
38807832 -GGTCGCATGTGTAGTACTAAGTGCAGGCTACTA
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTA
38807865 TGCGNNNNNN
Statistics
Matches: 157, Mismatches: 24, Indels: 5
0.84 0.13 0.03
Matches are distributed among these distances:
49 72 0.46
50 47 0.30
51 38 0.24
ACGTcount: A:0.25, C:0.19, G:0.27, T:0.29
Consensus pattern (50 bp):
AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
Found at i:38818852 original size:10 final size:10
Alignment explanation
Indices: 38818837--38818892 Score: 58
Period size: 10 Copynumber: 5.4 Consensus size: 10
38818827 AAGAACTACA
*
38818837 ATTTTTTTCT
1 ATTTTTTACT
*
38818847 ATTTTTTATT
1 ATTTTTTACT
*
38818857 ATTTTGTTGCT
1 ATTTT-TTACT
*
38818868 ATTTTTCACT
1 ATTTTTTACT
38818878 ATTTTGTTACT
1 ATTTT-TTACT
38818889 ATTT
1 ATTT
38818893 CACAATTATG
Statistics
Matches: 37, Mismatches: 7, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
10 21 0.57
11 16 0.43
ACGTcount: A:0.16, C:0.09, G:0.05, T:0.70
Consensus pattern (10 bp):
ATTTTTTACT
Found at i:38818870 original size:11 final size:11
Alignment explanation
Indices: 38818845--38818892 Score: 55
Period size: 11 Copynumber: 4.5 Consensus size: 11
38818835 CAATTTTTTT
38818845 CTATTTT-TTA
1 CTATTTTGTTA
* *
38818855 TTATTTTGTTG
1 CTATTTTGTTA
*
38818866 CTATTTT-TCA
1 CTATTTTGTTA
38818876 CTATTTTGTTA
1 CTATTTTGTTA
38818887 CTATTT
1 CTATTT
38818893 CACAATTATG
Statistics
Matches: 30, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
10 14 0.47
11 16 0.53
ACGTcount: A:0.17, C:0.10, G:0.06, T:0.67
Consensus pattern (11 bp):
CTATTTTGTTA
Found at i:38818870 original size:21 final size:21
Alignment explanation
Indices: 38818837--38818892 Score: 69
Period size: 21 Copynumber: 2.7 Consensus size: 21
38818827 AAGAACTACA
* * *
38818837 ATTTT-TTTCTATTTTTTATT
1 ATTTTGTTACTATTTTTCACT
*
38818857 ATTTTGTTGCTATTTTTCACT
1 ATTTTGTTACTATTTTTCACT
38818878 ATTTTGTTACTATTT
1 ATTTTGTTACTATTT
38818893 CACAATTATG
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
20 5 0.16
21 26 0.84
ACGTcount: A:0.16, C:0.09, G:0.05, T:0.70
Consensus pattern (21 bp):
ATTTTGTTACTATTTTTCACT
Found at i:38829518 original size:16 final size:16
Alignment explanation
Indices: 38829497--38829542 Score: 60
Period size: 16 Copynumber: 2.9 Consensus size: 16
38829487 AATTGGGTTG
38829497 AGAAAATTATTTAATT
1 AGAAAATTATTTAATT
*
38829513 AGAAAATTAATTAATT
1 AGAAAATTATTTAATT
38829529 --AAAATTAATTTAAT
1 AGAAAATT-ATTTAAT
38829543 AAATAATATC
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
14 6 0.22
15 6 0.22
16 15 0.56
ACGTcount: A:0.54, C:0.00, G:0.04, T:0.41
Consensus pattern (16 bp):
AGAAAATTATTTAATT
Found at i:38831806 original size:29 final size:29
Alignment explanation
Indices: 38831774--38831955 Score: 215
Period size: 29 Copynumber: 6.3 Consensus size: 29
38831764 GTCACCATCA
38831774 CTTTTCATAATCGATAGCCGAAGCTATCC
1 CTTTTCATAATCGATAGCCGAAGCTATCC
* *
38831803 CTTTTCATTATCGATAGTCGAAGCTATCC
1 CTTTTCATAATCGATAGCCGAAGCTATCC
*
38831832 CTTTTCATATTCGATAGCCGAAGCTATCC
1 CTTTTCATAATCGATAGCCGAAGCTATCC
* *
38831861 CTTTTCATATTCGATAGCTGAAGCTATCC
1 CTTTTCATAATCGATAGCCGAAGCTATCC
** * * * * *
38831890 CTTTTCATGTTTGATGGTCGTTA-CCATCC
1 CTTTTCATAATCGATAGCCG-AAGCTATCC
*
38831919 CTATTT-ATAATCGATAGCAGAAGCTATCC
1 CT-TTTCATAATCGATAGCCGAAGCTATCC
38831948 CTTTTCAT
1 CTTTTCAT
38831956 TAGTCGATGG
Statistics
Matches: 128, Mismatches: 21, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
28 4 0.03
29 120 0.94
30 4 0.03
ACGTcount: A:0.24, C:0.25, G:0.14, T:0.37
Consensus pattern (29 bp):
CTTTTCATAATCGATAGCCGAAGCTATCC
Found at i:38831887 original size:87 final size:87
Alignment explanation
Indices: 38831774--38831955 Score: 244
Period size: 87 Copynumber: 2.1 Consensus size: 87
38831764 GTCACCATCA
*
38831774 CTTTTCATAATCGATAGCCGAAGCTATCCCTTTTCAT-TATCGATAGTCG-AAGCTATCCCT-TT
1 CTTTTCATAATCGATAGCCGAAGCTATCCCTTTTCATGT-TCGATAGTCGTAA-CCATCCCTATT
* *
38831836 TCATATTCGATAGCCGAAGCTATCC
64 T-ATAATCGATAGCAGAAGCTATCC
* * * * *
38831861 CTTTTCATATTCGATAGCTGAAGCTATCCCTTTTCATGTTTGATGGTCGTTACCATCCCTATTTA
1 CTTTTCATAATCGATAGCCGAAGCTATCCCTTTTCATGTTCGATAGTCGTAACCATCCCTATTTA
38831926 TAATCGATAGCAGAAGCTATCC
66 TAATCGATAGCAGAAGCTATCC
38831948 CTTTTCAT
1 CTTTTCAT
38831956 TAGTCGATGG
Statistics
Matches: 84, Mismatches: 8, Indels: 6
0.86 0.08 0.06
Matches are distributed among these distances:
87 79 0.94
88 5 0.06
ACGTcount: A:0.24, C:0.25, G:0.14, T:0.37
Consensus pattern (87 bp):
CTTTTCATAATCGATAGCCGAAGCTATCCCTTTTCATGTTCGATAGTCGTAACCATCCCTATTTA
TAATCGATAGCAGAAGCTATCC
Found at i:38839329 original size:87 final size:87
Alignment explanation
Indices: 38839179--38839426 Score: 245
Period size: 87 Copynumber: 2.9 Consensus size: 87
38839169 AATGGAATAA
* * * * * * * * *
38839179 CGATGGTCATCACCATCCCTTTTCATAGTTGATGGTCGTCA-CCATCCTTTTTCATAATCGATAG
1 CGATGCTCGTCACCATCCCTTTTCATAATTGATAGCCG-AAGCTATCCCTTTTCATAATTGATAG
*
38839243 CAAAAGCTATCCCTTTTCATATT
65 CAGAAGCTATCCCTTTTCATATT
* * * *
38839266 CGATAGCT-G-GAGCTATCCCTTTTCAT-ATTCGATAGTCGAAGCTATCTCC-TTTCATATTTGA
1 CGAT-GCTCGTCA-CCATCCCTTTTCATAATT-GATAGCCGAAGCTATC-CCTTTTCATAATTGA
* *
38839327 TAGCTGAAGCTATCCCTTTTCATGTT
62 TAGCAGAAGCTATCCCTTTTCATATT
* *
38839353 TGATGGTCGTCACCATCCCTTTTCATAATTGATAGCCGAAGCTATCCCTTTTCATAATTGATAGC
1 CGATGCTCGTCACCATCCCTTTTCATAATTGATAGCCGAAGCTATCCCTTTTCATAATTGATAGC
*
38839418 CGAAGCTAT
66 AGAAGCTAT
38839427 TCATTTTCTT
Statistics
Matches: 131, Mismatches: 21, Indels: 18
0.77 0.12 0.11
Matches are distributed among these distances:
86 8 0.06
87 116 0.89
88 7 0.05
ACGTcount: A:0.24, C:0.25, G:0.15, T:0.37
Consensus pattern (87 bp):
CGATGCTCGTCACCATCCCTTTTCATAATTGATAGCCGAAGCTATCCCTTTTCATAATTGATAGC
AGAAGCTATCCCTTTTCATATT
Found at i:38839434 original size:29 final size:29
Alignment explanation
Indices: 38839222--38839426 Score: 211
Period size: 29 Copynumber: 7.1 Consensus size: 29
38839212 GGTCGTCACC
* * **
38839222 ATCCTTTTTCATAATCGATAGCAAAAGCT
1 ATCCCTTTTCATAATTGATAGCCGAAGCT
* *
38839251 ATCCCTTTTCAT-ATTCGATAGCTGGAGCT
1 ATCCCTTTTCATAATT-GATAGCCGAAGCT
*
38839280 ATCCCTTTTCAT-ATTCGATAGTCGAAGCT
1 ATCCCTTTTCATAATT-GATAGCCGAAGCT
* *
38839309 ATCTCC-TTTCATATTTGATAGCTGAAGCT
1 ATC-CCTTTTCATAATTGATAGCCGAAGCT
** * * * *
38839338 ATCCCTTTTCATGTTTGATGGTCGTCA-CC
1 ATCCCTTTTCATAATTGATAGCCG-AAGCT
38839367 ATCCCTTTTCATAATTGATAGCCGAAGCT
1 ATCCCTTTTCATAATTGATAGCCGAAGCT
38839396 ATCCCTTTTCATAATTGATAGCCGAAGCT
1 ATCCCTTTTCATAATTGATAGCCGAAGCT
38839425 AT
1 AT
38839427 TCATTTTCTT
Statistics
Matches: 147, Mismatches: 23, Indels: 12
0.81 0.13 0.07
Matches are distributed among these distances:
28 5 0.03
29 137 0.93
30 5 0.03
ACGTcount: A:0.25, C:0.23, G:0.14, T:0.38
Consensus pattern (29 bp):
ATCCCTTTTCATAATTGATAGCCGAAGCT
Found at i:38841722 original size:28 final size:27
Alignment explanation
Indices: 38841658--38841865 Score: 326
Period size: 28 Copynumber: 7.6 Consensus size: 27
38841648 TTATTAAGTC
* *
38841658 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
38841685 CGCACACTTAGTGCTACATAATCATACT
1 CGCACACTTAGTGCTACATAATCA-ACT
*
38841713 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTTAGTGCTACATAATCAACT
*
38841740 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
38841768 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
38841796 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
* *
38841824 CGCACACTTAGTGCTACATAGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
38841851 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
38841866 GCACAATTTA
Statistics
Matches: 173, Mismatches: 6, Indels: 4
0.95 0.03 0.02
Matches are distributed among these distances:
27 66 0.38
28 107 0.62
ACGTcount: A:0.32, C:0.29, G:0.13, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:38841742 original size:55 final size:55
Alignment explanation
Indices: 38841658--38841865 Score: 344
Period size: 55 Copynumber: 3.8 Consensus size: 55
38841648 TTATTAAGTC
* * *
38841658 CGCACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCTACATAATCATACT
1 CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCTACATAATCAAACT
* *
38841713 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCTACATAATCAAACT
38841768 CGCACACTTAGTGCTACATAATCAAACTCGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATC-AACTCGCACACTTAGTGCTACATAATCAAACT
* *
38841824 CGCACACTTAGTGCTACATAGTCAATTCGCACACTTAGTGCT
1 CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCT
38841866 GCACAATTTA
Statistics
Matches: 143, Mismatches: 9, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
55 90 0.63
56 53 0.37
ACGTcount: A:0.32, C:0.29, G:0.13, T:0.26
Consensus pattern (55 bp):
CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCTACATAATCAAACT
Found at i:38841854 original size:111 final size:110
Alignment explanation
Indices: 38841658--38841865 Score: 371
Period size: 111 Copynumber: 1.9 Consensus size: 110
38841648 TTATTAAGTC
* *
38841658 CGCACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCTACATAATCATACTCGCACACTTA
1 CGCACACTCAGTGCTACATAATCAACTCGCACACTTAGTGCTACATAATCAAACTCGCACACTTA
38841723 GTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAAACT
66 GTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAAACT
*
38841768 CGCACACTTAGTGCTACATAATCAAACTCGCACACTTAGTGCTACATAATCAAACTCGCACACTT
1 CGCACACTCAGTGCTACATAATC-AACTCGCACACTTAGTGCTACATAATCAAACTCGCACACTT
*
38841833 AGTGCTACATAGTCAATTCGCACACTTAGTGCT
65 AGTGCTACATAGTCAACTCGCACACTTAGTGCT
38841866 GCACAATTTA
Statistics
Matches: 93, Mismatches: 4, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
110 21 0.23
111 72 0.77
ACGTcount: A:0.32, C:0.29, G:0.13, T:0.26
Consensus pattern (110 bp):
CGCACACTCAGTGCTACATAATCAACTCGCACACTTAGTGCTACATAATCAAACTCGCACACTTA
GTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAAACT
Found at i:38874823 original size:27 final size:28
Alignment explanation
Indices: 38874739--38874834 Score: 131
Period size: 27 Copynumber: 3.4 Consensus size: 28
38874729 CATGAGATTG
* * * *
38874739 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGCGAGTTT-GATTATATA
38874768 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
38874796 GCACTAAGTGTGCGAG-TTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
38874823 GCACTGAGTGTG
1 GCACTAAGTGTG
38874835 TGGACTTAAT
Statistics
Matches: 62, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 22 0.35
28 22 0.35
29 18 0.29
ACGTcount: A:0.27, C:0.12, G:0.28, T:0.32
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:38874847 original size:27 final size:27
Alignment explanation
Indices: 38874767--38874849 Score: 87
Period size: 27 Copynumber: 3.0 Consensus size: 27
38874757 TAAATTGTAC
* *
38874767 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGA-CTTGAATATAT
* *
38874795 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGACTTGAATATAT
* *
38874822 AGCACTGAGTGTGTGGACTT-AATATAT
1 AGCACTAAGTGTG-CGACTTGAATATAT
38874849 A
1 A
38874850 TTTTTGAATC
Statistics
Matches: 49, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
27 29 0.59
28 20 0.41
ACGTcount: A:0.30, C:0.11, G:0.25, T:0.34
Consensus pattern (27 bp):
AGCACTAAGTGTGCGACTTGAATATAT
Found at i:38874849 original size:29 final size:27
Alignment explanation
Indices: 38874739--38874850 Score: 89
Period size: 28 Copynumber: 4.0 Consensus size: 27
38874729 CATGAGATTG
** * *
38874739 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGC-GACTT-AATTATATA
* *
38874768 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGA-CTTAATTATATA
* *
38874796 GCACTAAGTGTGCGAGTTGATTATATA
1 GCACTAAGTGTGCGACTTAATTATATA
* *
38874823 GCACTGAGTGTGTGGACTTAATATATAT
1 GCACTAAGTGTG-CGACTTAAT-TATAT
38874851 TTTTGAATCA
Statistics
Matches: 71, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
27 22 0.31
28 28 0.39
29 21 0.30
ACGTcount: A:0.29, C:0.12, G:0.26, T:0.34
Consensus pattern (27 bp):
GCACTAAGTGTGCGACTTAATTATATA
Found at i:38894064 original size:44 final size:44
Alignment explanation
Indices: 38893996--38894097 Score: 114
Period size: 44 Copynumber: 2.3 Consensus size: 44
38893986 GTCCAACTAT
* * * * *
38893996 GGTCTTACACATGTTTACCATGATGCCATAACATCTTTCAACCAT
1 GGTCTTACTCAT-TATATCATGATGACATAACATCTTTCAACCAG
* * * *
38894041 GTTCTTACTCATTATATCATGATGAGATAGCATCTTTCAACTAG
1 GGTCTTACTCATTATATCATGATGACATAACATCTTTCAACCAG
38894085 GGTCTTACTCATT
1 GGTCTTACTCATT
38894098 TTAGGTGCAT
Statistics
Matches: 47, Mismatches: 10, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
44 37 0.79
45 10 0.21
ACGTcount: A:0.27, C:0.23, G:0.13, T:0.37
Consensus pattern (44 bp):
GGTCTTACTCATTATATCATGATGACATAACATCTTTCAACCAG
Found at i:38901087 original size:18 final size:17
Alignment explanation
Indices: 38901043--38901090 Score: 78
Period size: 19 Copynumber: 2.7 Consensus size: 17
38901033 CAGCCCGCCA
38901043 CAAAATTCTTGTGTGAC
1 CAAAATTCTTGTGTGAC
38901060 CAAAATTTCTCTGTGTGAC
1 CAAAA-TTCT-TGTGTGAC
38901079 CAAAATTCTTGT
1 CAAAATTCTTGT
38901091 TTAAAAAACT
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
17 8 0.28
18 8 0.28
19 13 0.45
ACGTcount: A:0.29, C:0.19, G:0.15, T:0.38
Consensus pattern (17 bp):
CAAAATTCTTGTGTGAC
Found at i:38903045 original size:28 final size:28
Alignment explanation
Indices: 38903003--38903209 Score: 310
Period size: 28 Copynumber: 7.4 Consensus size: 28
38902993 CTATTCAGTA
* *
38903003 ACAGT-ACAGTGTGGGCCATAGCCCAAT
1 ACAGTAACAATGTGGGCCTTAGCCCAAT
38903030 ACAGTAACAATGTGGGCCTTAGCCCAAT
1 ACAGTAACAATGTGGGCCTTAGCCCAAT
*
38903058 ATAGTAACAATGTGGGCCTTAGCCCAAT
1 ACAGTAACAATGTGGGCCTTAGCCCAAT
*
38903086 ACAGTAACAATGTAGGCCTTAGCCCAAT
1 ACAGTAACAATGTGGGCCTTAGCCCAAT
* *
38903114 ACAGTAACAATGTGGGCCTTATCCAAAT
1 ACAGTAACAATGTGGGCCTTAGCCCAAT
38903142 ACAGTAACAATGTGGGCCTTAGCCCAAT
1 ACAGTAACAATGTGGGCCTTAGCCCAAT
* *
38903170 ATAG-AATCAGTGTGGGCCTTAGCCCAAT
1 ACAGTAA-CAATGTGGGCCTTAGCCCAAT
*
38903198 ACAGTAATAATG
1 ACAGTAACAATG
38903210 CAGTGCAATA
Statistics
Matches: 162, Mismatches: 15, Indels: 5
0.89 0.08 0.03
Matches are distributed among these distances:
27 7 0.04
28 153 0.94
29 2 0.01
ACGTcount: A:0.33, C:0.23, G:0.21, T:0.23
Consensus pattern (28 bp):
ACAGTAACAATGTGGGCCTTAGCCCAAT
Found at i:38903345 original size:26 final size:26
Alignment explanation
Indices: 38903316--38903365 Score: 91
Period size: 26 Copynumber: 1.9 Consensus size: 26
38903306 ACCAATATCA
*
38903316 CAGCAAAGCTGCTAGTAATAGTATTG
1 CAGCAAAGCTGCCAGTAATAGTATTG
38903342 CAGCAAAGCTGCCAGTAATAGTAT
1 CAGCAAAGCTGCCAGTAATAGTAT
38903366 ATGTGGCAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.36, C:0.18, G:0.22, T:0.24
Consensus pattern (26 bp):
CAGCAAAGCTGCCAGTAATAGTATTG
Found at i:38903383 original size:27 final size:26
Alignment explanation
Indices: 38903329--38903385 Score: 69
Period size: 27 Copynumber: 2.2 Consensus size: 26
38903319 CAAAGCTGCT
**
38903329 AGTAATAGTATTGCAGCAAAGCTGCC
1 AGTAATAGTATTGCAGCAAAGCCACC
**
38903355 AGTAATAGTATATGTGGCAAAGCCACC
1 AGTAATAGTAT-TGCAGCAAAGCCACC
38903382 AGTA
1 AGTA
38903386 GGTCCACAGT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
26 11 0.42
27 15 0.58
ACGTcount: A:0.37, C:0.18, G:0.23, T:0.23
Consensus pattern (26 bp):
AGTAATAGTATTGCAGCAAAGCCACC
Found at i:38903628 original size:27 final size:27
Alignment explanation
Indices: 38903598--38903739 Score: 176
Period size: 27 Copynumber: 5.3 Consensus size: 27
38903588 GGGTATAACA
** *
38903598 GTCATTTTACCCTATAAGGGTCTTTCG
1 GTCATTTTACCCTATGGGGGTATTTCG
* *
38903625 GTCATTTTATCTTATGGGGGTATTTCG
1 GTCATTTTACCCTATGGGGGTATTTCG
* * * *
38903652 ATCATTCTACCTTATGGGGATATTTCG
1 GTCATTTTACCCTATGGGGGTATTTCG
*
38903679 GTCATCTTACCCTATGGGGGTATTTCG
1 GTCATTTTACCCTATGGGGGTATTTCG
*
38903706 GTCAATTTACCCTATGGGGGTATTTCG
1 GTCATTTTACCCTATGGGGGTATTTCG
*
38903733 ATCATTT
1 GTCATTT
38903740 ATTGACATCT
Statistics
Matches: 97, Mismatches: 18, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 97 1.00
ACGTcount: A:0.18, C:0.18, G:0.22, T:0.42
Consensus pattern (27 bp):
GTCATTTTACCCTATGGGGGTATTTCG
Found at i:38905426 original size:11 final size:11
Alignment explanation
Indices: 38905410--38905446 Score: 56
Period size: 11 Copynumber: 3.4 Consensus size: 11
38905400 AATAGAGAAT
*
38905410 GATGCTTGATG
1 GATGCTTGAGG
38905421 GATGCTTGAGG
1 GATGCTTGAGG
*
38905432 GATGATTGAGG
1 GATGCTTGAGG
38905443 GATG
1 GATG
38905447 AGAAGGTCTT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
11 24 1.00
ACGTcount: A:0.22, C:0.05, G:0.43, T:0.30
Consensus pattern (11 bp):
GATGCTTGAGG
Found at i:38918594 original size:25 final size:25
Alignment explanation
Indices: 38918566--38918636 Score: 97
Period size: 25 Copynumber: 2.8 Consensus size: 25
38918556 TGAACACACC
*
38918566 CATATTCACAACTCGTGTGAGCATT
1 CATATTCACAACTCATGTGAGCATT
* *
38918591 CATATTCACAACTTATGTGAGGATT
1 CATATTCACAACTCATGTGAGCATT
* *
38918616 CATATTCATAGCTCATGTGAG
1 CATATTCACAACTCATGTGAG
38918637 AATTTCTATC
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 40 1.00
ACGTcount: A:0.30, C:0.20, G:0.17, T:0.34
Consensus pattern (25 bp):
CATATTCACAACTCATGTGAGCATT
Found at i:38921235 original size:54 final size:54
Alignment explanation
Indices: 38921172--38921280 Score: 209
Period size: 54 Copynumber: 2.0 Consensus size: 54
38921162 GTCAAATATG
*
38921172 ATCACAAGGCATTACACTATCATAGGTTATTGTGACATATATATCTAGACTCAT
1 ATCACAAGGCATCACACTATCATAGGTTATTGTGACATATATATCTAGACTCAT
38921226 ATCACAAGGCATCACACTATCATAGGTTATTGTGACATATATATCTAGACTCAT
1 ATCACAAGGCATCACACTATCATAGGTTATTGTGACATATATATCTAGACTCAT
38921280 A
1 A
38921281 GGCACTATGT
Statistics
Matches: 54, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
54 54 1.00
ACGTcount: A:0.36, C:0.19, G:0.13, T:0.32
Consensus pattern (54 bp):
ATCACAAGGCATCACACTATCATAGGTTATTGTGACATATATATCTAGACTCAT
Found at i:38929139 original size:17 final size:17
Alignment explanation
Indices: 38929117--38929151 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
38929107 TTCTTGTACC
38929117 TTAATTAACTATCCAAA
1 TTAATTAACTATCCAAA
38929134 TTAATTAACTATCCAAA
1 TTAATTAACTATCCAAA
38929151 T
1 T
38929152 GAAAAAATTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.46, C:0.17, G:0.00, T:0.37
Consensus pattern (17 bp):
TTAATTAACTATCCAAA
Found at i:38930873 original size:7 final size:7
Alignment explanation
Indices: 38930830--38930855 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
38930820 ACTTTCTATA
38930830 ATATAAT
1 ATATAAT
38930837 ATATAAT
1 ATATAAT
38930844 ATATAAT
1 ATATAAT
38930851 ATATA
1 ATATA
38930856 TTACCTATAT
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:0.00, G:0.00, T:0.42
Consensus pattern (7 bp):
ATATAAT
Found at i:38939429 original size:21 final size:19
Alignment explanation
Indices: 38939400--38939443 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 19
38939390 TCAAAAGAAA
38939400 TTTTCTTCTCCATT-TTCATT
1 TTTTCTTCT-C-TTCTTCATT
38939420 TTTTGCTTCTCTTCTTCATT
1 TTTT-CTTCTCTTCTTCATT
38939440 TTTT
1 TTTT
38939444 TTTTTTTCAT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
19 2 0.09
20 15 0.68
21 5 0.23
ACGTcount: A:0.07, C:0.23, G:0.02, T:0.68
Consensus pattern (19 bp):
TTTTCTTCTCTTCTTCATT
Found at i:38945836 original size:30 final size:30
Alignment explanation
Indices: 38945779--38945841 Score: 81
Period size: 30 Copynumber: 2.1 Consensus size: 30
38945769 AAATATGGGC
* * *
38945779 TTATCTGGATACAAATCAAAGGGTAAGGGT
1 TTATCTGGATACAAATCAAAAGATAAGGCT
* *
38945809 TTATTTGGATACAAATTAAAAGATAAGGCT
1 TTATCTGGATACAAATCAAAAGATAAGGCT
38945839 TTA
1 TTA
38945842 AGAAAACTGA
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.40, C:0.08, G:0.21, T:0.32
Consensus pattern (30 bp):
TTATCTGGATACAAATCAAAAGATAAGGCT
Found at i:38954568 original size:25 final size:25
Alignment explanation
Indices: 38954534--38954602 Score: 75
Period size: 25 Copynumber: 2.6 Consensus size: 25
38954524 AAGAAGAAAG
* *
38954534 AAAATAAAAAAATAAAATCTAATCT
1 AAAAAAAAAAAATAAAACCTAATCT
* *
38954559 AAAAAAAAAAGAGAAAACCTAATCT
1 AAAAAAAAAAAATAAAACCTAATCT
38954584 AAAAATGAAAAGAAATAAA
1 AAAAA--AAAA-AAATAAA
38954603 GAAAAGAAAA
Statistics
Matches: 35, Mismatches: 6, Indels: 3
0.80 0.14 0.07
Matches are distributed among these distances:
25 26 0.74
27 4 0.11
28 5 0.14
ACGTcount: A:0.71, C:0.07, G:0.06, T:0.16
Consensus pattern (25 bp):
AAAAAAAAAAAATAAAACCTAATCT
Found at i:38956335 original size:6 final size:6
Alignment explanation
Indices: 38956324--38956368 Score: 51
Period size: 6 Copynumber: 8.0 Consensus size: 6
38956314 TTTTGCAAAA
* *
38956324 ATGAAT ATGAAT ATGAAT ATGAAT TTGGAT -TGAAT -TGAAT A-GAAT
1 ATGAAT ATGAAT ATGAAT ATGAAT ATGAAT ATGAAT ATGAAT ATGAAT
38956369 GGTTATTAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
5 13 0.37
6 22 0.63
ACGTcount: A:0.44, C:0.00, G:0.20, T:0.36
Consensus pattern (6 bp):
ATGAAT
Found at i:38956636 original size:30 final size:30
Alignment explanation
Indices: 38956600--38956883 Score: 177
Period size: 30 Copynumber: 9.2 Consensus size: 30
38956590 TCATCAACCA
* **
38956600 ATGAAAAGGGATGGCTTCGGCTATTGAATT
1 ATGAAAAGGGATGGCTTCGACTATCAAATT
* *
38956630 ATGAAAAGGGATGG-TGACGACTATC-AATA
1 ATGAAAAGGGATGGCT-TCGACTATCAAATT
*
38956659 ATGAAAAGGGATGG-TGAT-GACCATCAAATT
1 ATGAAAAGGGATGGCT--TCGACTATCAAATT
* * *
38956689 ATGAAAATGGATGGCTTCGACAATCGAATT
1 ATGAAAAGGGATGGCTTCGACTATCAAATT
*
38956719 ATGAAAAGGGATAGCTTCGACTATCAAATT
1 ATGAAAAGGGATGGCTTCGACTATCAAATT
* * *
38956749 ATGGAAAGGGATGG-TGGT-GACCATCACCACCATCAACA
1 ATGAAAAGGGATGGCT--TCGACTATCA--A--AT----T
* * *
38956787 ATGAAAAGGGATGG-TGACGACCATCGAATT
1 ATGAAAAGGGATGGCT-TCGACTATCAAATT
* **
38956817 ATGAAAAGGGATGGCTTCAACTATCAAAAC
1 ATGAAAAGGGATGGCTTCGACTATCAAATT
* * * * *
38956847 ATGGAAAGGGATAGCTTCGGCTATCGAACT
1 ATGAAAAGGGATGGCTTCGACTATCAAATT
38956877 ATGAAAA
1 ATGAAAA
38956884 AAGGTGGTAA
Statistics
Matches: 200, Mismatches: 37, Indels: 34
0.74 0.14 0.13
Matches are distributed among these distances:
29 27 0.14
30 142 0.71
31 3 0.01
32 1 0.00
34 4 0.02
36 1 0.00
37 1 0.00
38 21 0.10
ACGTcount: A:0.38, C:0.14, G:0.26, T:0.23
Consensus pattern (30 bp):
ATGAAAAGGGATGGCTTCGACTATCAAATT
Found at i:38956705 original size:89 final size:90
Alignment explanation
Indices: 38956600--38956858 Score: 247
Period size: 98 Copynumber: 2.8 Consensus size: 90
38956590 TCATCAACCA
* * * *
38956600 ATGAAAAGGGATGGCTTCGGCTATTGAATTATGAAAAGGGAT-GGTGACGACTATC-AATAATGA
1 ATGAAAAGGGATGGCTTCGACAATCGAATTATGAAAAGGGATAGCT-ACGACTATCAAATAATGA
38956663 AAAGGGATGGTGATGACCATCAAATT
65 AAAGGGATGGTGATGACCATCAAATT
* * * *
38956689 ATGAAAATGGATGGCTTCGACAATCGAATTATGAAAAGGGATAGCTTCGACTATCAAATTATGGA
1 ATGAAAAGGGATGGCTTCGACAATCGAATTATGAAAAGGGATAGCTACGACTATCAAATAATGAA
* *
38956754 AAGGGATGGTGGTGACCATCACCACCATCAACA
66 AAGGGATGGTGATGACCATCA--A--AT----T
* * * * *
38956787 ATGAAAAGGGATGG-TGACGACCATCGAATTATGAAAAGGGATGGCTTCAACTATCAAA-ACATG
1 ATGAAAAGGGATGGCT-TCGACAATCGAATTATGAAAAGGGATAGCTACGACTATCAAATA-ATG
*
38956850 GAAAGGGAT
64 AAAAGGGAT
38956859 AGCTTCGGCT
Statistics
Matches: 142, Mismatches: 16, Indels: 15
0.82 0.09 0.09
Matches are distributed among these distances:
89 46 0.32
90 29 0.20
92 1 0.01
94 2 0.01
97 1 0.01
98 63 0.44
ACGTcount: A:0.38, C:0.14, G:0.26, T:0.22
Consensus pattern (90 bp):
ATGAAAAGGGATGGCTTCGACAATCGAATTATGAAAAGGGATAGCTACGACTATCAAATAATGAA
AAGGGATGGTGATGACCATCAAATT
Found at i:38956900 original size:128 final size:128
Alignment explanation
Indices: 38956652--38956900 Score: 311
Period size: 128 Copynumber: 1.9 Consensus size: 128
38956642 GGTGACGACT
* * * * *
38956652 ATCAATAATGAAAAGGGATGGTGATGACCATCAAATTATGAAAATGGATGGCTTCGACAATCGAA
1 ATCAACAATGAAAAGGGATGGTGACGACCATCAAATTATGAAAAGGGATGGCTTCAACAATCAAA
** * * * ****
38956717 TTATGAAAAGGGATAGCTTCGACTATCAAATTATGGAAAGGGATGGTGGTGACCATCACCACC
66 ACATGAAAAGGGATAGCTTCGACTATCAAACTATGAAAAAGGATGGTAACAACCATCACCACC
* *
38956780 ATCAACAATGAAAAGGGATGGTGACGACCATCGAATTATGAAAAGGGATGGCTTCAACTATCAAA
1 ATCAACAATGAAAAGGGATGGTGACGACCATCAAATTATGAAAAGGGATGGCTTCAACAATCAAA
* * *
38956845 ACATGGAAAGGGATAGCTTCGGCTATCGAACTATGAAAAAAGG-TGGTAACAACCAT
66 ACATGAAAAGGGATAGCTTCGACTATCAAACTATG-AAAAAGGATGGTAACAACCAT
38956901 TGTGATTTTA
Statistics
Matches: 101, Mismatches: 19, Indels: 2
0.83 0.16 0.02
Matches are distributed among these distances:
128 96 0.95
129 5 0.05
ACGTcount: A:0.39, C:0.15, G:0.24, T:0.22
Consensus pattern (128 bp):
ATCAACAATGAAAAGGGATGGTGACGACCATCAAATTATGAAAAGGGATGGCTTCAACAATCAAA
ACATGAAAAGGGATAGCTTCGACTATCAAACTATGAAAAAGGATGGTAACAACCATCACCACC
Found at i:38963521 original size:306 final size:304
Alignment explanation
Indices: 38963098--38963650 Score: 892
Period size: 306 Copynumber: 1.8 Consensus size: 304
38963088 TAATAGCCCG
* *
38963098 TTTTAAGTGAAATTAGAATAGTGGTTTTGGGACCACAAATCTGACGTGAAAATATTTATTATTAT
1 TTTTAAGTGAAATCAGAACAGTGGTTTTGGGACCACAAATCTGACGTGAAAATATTTATTATTAT
* *
38963163 TATTTTAATGTCTACAGCATGTTAGTATCACCGTATAAAAATTTCGTTAAGAAATTTTACCATTT
66 TATTTTAATGTCTACAGCATGTTAGTATCACCATATAAAAATTTCATTAAGAAATTTTACCATTT
* *
38963228 GCATGCTTAATTTGATAAAAAGGACTAAATTGCAAAAGATGCAAAATTAGAGTTCTGTAAATTAA
131 GCATGCTTAATTTGATAAAAAAGACTAAATTGCAAAAGATACAAAATTAGAGTTCTGTAAATTAA
* * * *
38963293 AGGCACTAAATGGATATATAATTACTGTGTAAGAGT-CTTTATGTGGTAATTAGACCATTTTTTG
196 AGACACTAAATGGATATAGAATTAATGTCTAAGAGTGC-TTATGTGGTAATTAGACCATTTTTTG
38963357 TTTAAGTGGAAAAATATGGCCATTAAATTAAGTTGTAACAACCCA
260 TTTAAGTGGAAAAATATGGCCATTAAATTAAGTTGTAACAACCCA
* *
38963402 TTTTTAGTGAAATCAGAACAGTGGTTTTGGGACCATAAATCTGACGTGAAAATATTTATTTTATT
1 TTTTAAGTGAAATCAGAACAGTGGTTTTGGGACCACAAATCTGACGTGAAAATATTTA--TTATT
* *
38963467 ATTATTTTAATGTCTGCAGCATGTTAGTATCACCATATAAAAATTTTATTAAGAAATTTTACCAT
64 ATTATTTTAATGTCTACAGCATGTTAGTATCACCATATAAAAATTTCATTAAGAAATTTTACCAT
* * * * *
38963532 TTGCATGCTTAATTTGATAAAAAAGAGTGAATTGCAAAAGGTACAAAATTAGAGTTTTTTAAATT
129 TTGCATGCTTAATTTGATAAAAAAGACTAAATTGCAAAAGATACAAAATTAGAGTTCTGTAAATT
*
38963597 AACGACACTAAATGGATATAGAATTAATGTCTAAGAGTGCTTATGTGGTAATTA
194 AAAGACACTAAATGGATATAGAATTAATGTCTAAGAGTGCTTATGTGGTAATTA
38963651 TTGTTTATTT
Statistics
Matches: 226, Mismatches: 20, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
304 54 0.24
306 171 0.76
307 1 0.00
ACGTcount: A:0.37, C:0.10, G:0.16, T:0.37
Consensus pattern (304 bp):
TTTTAAGTGAAATCAGAACAGTGGTTTTGGGACCACAAATCTGACGTGAAAATATTTATTATTAT
TATTTTAATGTCTACAGCATGTTAGTATCACCATATAAAAATTTCATTAAGAAATTTTACCATTT
GCATGCTTAATTTGATAAAAAAGACTAAATTGCAAAAGATACAAAATTAGAGTTCTGTAAATTAA
AGACACTAAATGGATATAGAATTAATGTCTAAGAGTGCTTATGTGGTAATTAGACCATTTTTTGT
TTAAGTGGAAAAATATGGCCATTAAATTAAGTTGTAACAACCCA
Found at i:38964584 original size:30 final size:30
Alignment explanation
Indices: 38964537--38964873 Score: 106
Period size: 30 Copynumber: 11.3 Consensus size: 30
38964527 TCATCAACCA
* * *
38964537 ATGAAAAGAGATGGCTTCAGGTATCAAAAT
1 ATGAAAAGGGATAGCTTCAGCTATCAAAAT
* * *
38964567 ATGGAAAGGGATAGCTTCAGCTATCGAATT
1 ATGAAAAGGGATAGCTTCAGCTATCAAAAT
* * *
38964597 ATGAAAAGGGAT-G-GTCACGACCATCAACA-
1 ATGAAAAGGGATAGCTTCA-G-CTATCAAAAT
* * ** * **
38964626 ATGAAAAGAGATGGCGAC-GACCAT-TGAAT
1 ATGAAAAGGGATAGCTTCAG-CTATCAAAAT
* * * **
38964655 TTTACAAAGGGATGGCTTTGGCTAT-AAAATT
1 ATGA-AAAGGGATAGCTTCAGCTATCAAAA-T
* *
38964686 ATGAAAATGGATGGCTTC-GACTATCAAAATT
1 ATGAAAAGGGATAGCTTCAG-CTATCAAAA-T
* * *
38964717 ATGAAAAGGAACAGCTTCAGCTATCAAATT
1 ATGAAAAGGGATAGCTTCAGCTATCAAAAT
* * * *
38964747 ATGAAAAAGGAT-G-GTGACGACCATCAACAAT
1 ATGAAAAGGGATAGCTTCA-G-CTATCAA-AAT
* * * *
38964778 -T-AAAAGGGAT-G-GTGACGACCATCAAATT
1 ATGAAAAGGGATAGCTTCA-G-CTATCAAAAT
* * * *
38964806 ATTAAAAGGGATGGCTTCGGCTATCAAAAC
1 ATGAAAAGGGATAGCTTCAGCTATCAAAAT
* * *
38964836 ATGAAAATGGATAGCTTCAGCTATCGAACT
1 ATGAAAAGGGATAGCTTCAGCTATCAAAAT
38964866 ATGAAAAG
1 ATGAAAAG
38964874 TAGTGGTAAC
Statistics
Matches: 231, Mismatches: 58, Indels: 36
0.71 0.18 0.11
Matches are distributed among these distances:
28 8 0.03
29 48 0.21
30 135 0.58
31 38 0.16
32 2 0.01
ACGTcount: A:0.40, C:0.14, G:0.23, T:0.23
Consensus pattern (30 bp):
ATGAAAAGGGATAGCTTCAGCTATCAAAAT
Found at i:38964787 original size:29 final size:29
Alignment explanation
Indices: 38964739--38964819 Score: 110
Period size: 29 Copynumber: 2.7 Consensus size: 29
38964729 AGCTTCAGCT
* *
38964739 ATCAAATTATGAAAAAGGATGGTGACGACC
1 ATCAAA-TATTAAAAGGGATGGTGACGACC
38964769 ATCAACA-ATTAAAAGGGATGGTGACGACC
1 ATCAA-ATATTAAAAGGGATGGTGACGACC
38964798 ATCAAATTATTAAAAGGGATGG
1 ATCAAA-TATTAAAAGGGATGG
38964820 CTTCGGCTAT
Statistics
Matches: 46, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
28 1 0.02
29 25 0.54
30 19 0.41
31 1 0.02
ACGTcount: A:0.43, C:0.12, G:0.23, T:0.21
Consensus pattern (29 bp):
ATCAAATATTAAAAGGGATGGTGACGACC
Found at i:38964814 original size:150 final size:149
Alignment explanation
Indices: 38964537--38964873 Score: 448
Period size: 150 Copynumber: 2.3 Consensus size: 149
38964527 TCATCAACCA
* * * * *
38964537 ATGAAAA-GAGATGGCTTCAGGTATCAAAATATGGAAAGGGATAGCTTCAGCTATCGAATTATGA
1 ATGAAAATG-GATGGCTTCAGCTATCAAAATATGAAAAGGAACAGCTTCAGCTATCAAATTATGA
* **
38964601 AAAGGGATGGTCACGACCATCAACAATGAAAAGAGATGGCGACGACCATTGAATTTTACAAAGGG
65 AAAAGGATGGTCACGACCATCAACAATGAAAAGAGATGGCGACGACCATCAAATTTTACAAAGGG
* *
38964666 ATGGCTTTGGCTAT-AAAATT
130 ATGGCTTCGGCTATCAAAA-C
38964686 ATGAAAATGGATGGCTTC-GACTATCAAAATTATGAAAAGGAACAGCTTCAGCTATCAAATTATG
1 ATGAAAATGGATGGCTTCAG-CTATCAAAA-TATGAAAAGGAACAGCTTCAGCTATCAAATTATG
* * * *
38964750 AAAAAGGATGGTGACGACCATCAACAATTAAAAGGGATGGTGACGACCATCAAATTATTA-AAAG
64 AAAAAGGATGGTCACGACCATCAACAATGAAAAGAGATGGCGACGACCATCAAATT-TTACAAAG
38964814 GGATGGCTTCGGCTATCAAAAC
128 GGATGGCTTCGGCTATCAAAAC
* * *
38964836 ATGAAAATGGATAGCTTCAGCTATCGAACTATGAAAAG
1 ATGAAAATGGATGGCTTCAGCTATCAAAATATGAAAAG
38964874 TAGTGGTAAC
Statistics
Matches: 165, Mismatches: 17, Indels: 12
0.85 0.09 0.06
Matches are distributed among these distances:
148 1 0.01
149 33 0.20
150 123 0.75
151 8 0.05
ACGTcount: A:0.40, C:0.14, G:0.23, T:0.23
Consensus pattern (149 bp):
ATGAAAATGGATGGCTTCAGCTATCAAAATATGAAAAGGAACAGCTTCAGCTATCAAATTATGAA
AAAGGATGGTCACGACCATCAACAATGAAAAGAGATGGCGACGACCATCAAATTTTACAAAGGGA
TGGCTTCGGCTATCAAAAC
Done.