Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr14
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: 244914714
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.31
Warning! 4503000 characters in sequence are not A, C, G, or T
File 636 of 770
Found at i:199463125 original size:14 final size:14
Alignment explanation
Indices: 199463102--199463153 Score: 50
Period size: 15 Copynumber: 3.6 Consensus size: 14
199463092 AGCCAAAAAG
* *
199463102 AAAAACAAAAGTAT
1 AAAAATAAAAGAAT
*
199463116 AAAAATAAAAAAAT
1 AAAAATAAAAGAAT
*
199463130 AAAAAAGAAGAAGAAT
1 -AAAAATAA-AAGAAT
199463146 AAAAATAA
1 AAAAATAA
199463154 TAAAACAAAG
Statistics
Matches: 30, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
14 11 0.37
15 14 0.47
16 5 0.17
ACGTcount: A:0.79, C:0.02, G:0.08, T:0.12
Consensus pattern (14 bp):
AAAAATAAAAGAAT
Found at i:199465164 original size:2 final size:2
Alignment explanation
Indices: 199465159--199465187 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
199465149 CTTTTAAAGC
199465159 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
199465188 TTCCTTTCAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:199470841 original size:27 final size:28
Alignment explanation
Indices: 199470784--199470853 Score: 106
Period size: 27 Copynumber: 2.5 Consensus size: 28
199470774 AAATTTGTAC
**
199470784 AGCACTAAGTGTGCGAATTTGATTATAT
1 AGCACTAAGTGTGCGAAGCTGATTATAT
*
199470812 AGCACTATGTGTGCG-AGCTGATTATAT
1 AGCACTAAGTGTGCGAAGCTGATTATAT
199470839 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
199470854 GACTTATTAT
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
27 24 0.63
28 14 0.37
ACGTcount: A:0.29, C:0.14, G:0.26, T:0.31
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAAGCTGATTATAT
Found at i:199470862 original size:27 final size:27
Alignment explanation
Indices: 199470784--199470865 Score: 103
Period size: 27 Copynumber: 3.0 Consensus size: 27
199470774 AAATTTGTAC
* *
199470784 AGCACTAAGTGTGCGAATTTGATTATAT
1 AGCACTAAGTGTGCGGACTT-ATTATAT
* *
199470812 AGCACTATGTGTGC-GAGCTGATTATAT
1 AGCACTAAGTGTGCGGA-CTTATTATAT
199470839 AGCACTAAGTGTGCGGACTTATTATAT
1 AGCACTAAGTGTGCGGACTTATTATAT
199470866 GCTTTTGCAT
Statistics
Matches: 46, Mismatches: 6, Indels: 5
0.81 0.11 0.09
Matches are distributed among these distances:
27 30 0.65
28 16 0.35
ACGTcount: A:0.29, C:0.13, G:0.23, T:0.34
Consensus pattern (27 bp):
AGCACTAAGTGTGCGGACTTATTATAT
Found at i:199478712 original size:27 final size:28
Alignment explanation
Indices: 199478655--199478724 Score: 106
Period size: 27 Copynumber: 2.5 Consensus size: 28
199478645 AAATTTGTAC
**
199478655 AGCACTAAGTGTGCGAATTTGATTATAT
1 AGCACTAAGTGTGCGAAGCTGATTATAT
*
199478683 AGCACTATGTGTGCG-AGCTGATTATAT
1 AGCACTAAGTGTGCGAAGCTGATTATAT
199478710 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
199478725 GACTTATTAT
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
27 24 0.63
28 14 0.37
ACGTcount: A:0.29, C:0.14, G:0.26, T:0.31
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAAGCTGATTATAT
Found at i:199478733 original size:27 final size:27
Alignment explanation
Indices: 199478655--199478736 Score: 103
Period size: 27 Copynumber: 3.0 Consensus size: 27
199478645 AAATTTGTAC
* *
199478655 AGCACTAAGTGTGCGAATTTGATTATAT
1 AGCACTAAGTGTGCGGACTT-ATTATAT
* *
199478683 AGCACTATGTGTGC-GAGCTGATTATAT
1 AGCACTAAGTGTGCGGA-CTTATTATAT
199478710 AGCACTAAGTGTGCGGACTTATTATAT
1 AGCACTAAGTGTGCGGACTTATTATAT
199478737 GCTTTTGCAT
Statistics
Matches: 46, Mismatches: 6, Indels: 5
0.81 0.11 0.09
Matches are distributed among these distances:
27 30 0.65
28 16 0.35
ACGTcount: A:0.29, C:0.13, G:0.23, T:0.34
Consensus pattern (27 bp):
AGCACTAAGTGTGCGGACTTATTATAT
Found at i:199481358 original size:40 final size:40
Alignment explanation
Indices: 199481292--199481458 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 40
199481282 AAATTGAATG
* * *
199481292 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
199481331 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
*
199481371 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
199481411 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
199481451 ATATCCGG
1 ATATCCGG
199481459 TTATATTCCG
Statistics
Matches: 105, Mismatches: 18, Indels: 9
0.80 0.14 0.07
Matches are distributed among these distances:
39 16 0.15
40 87 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:199489342 original size:40 final size:40
Alignment explanation
Indices: 199489276--199489426 Score: 164
Period size: 40 Copynumber: 3.8 Consensus size: 40
199489266 AAATTGAATG
* * *
199489276 ATATCCGGGCTAA-ACCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
199489315 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
*
199489355 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* *
199489395 CTATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC
199489427 ACATGCTTAT
Statistics
Matches: 93, Mismatches: 15, Indels: 7
0.81 0.13 0.06
Matches are distributed among these distances:
39 15 0.16
40 76 0.82
41 2 0.02
ACGTcount: A:0.27, C:0.23, G:0.26, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:199489440 original size:40 final size:39
Alignment explanation
Indices: 199489313--199489442 Score: 147
Period size: 40 Copynumber: 3.3 Consensus size: 39
199489303 ATGCTGGAAA
* * *
199489313 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGC-AAT-GC
* *
199489354 -TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGA-GTC
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCAATG-C
*
199489392 ATTCTATCCGGGCTAAGACCCGAAGGCATTTGTGCACATGC
1 -TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCA-ATGC
199489433 TTATATCCGG
1 TTATATCCGG
199489443 TTATATTCCG
Statistics
Matches: 75, Mismatches: 9, Indels: 11
0.79 0.09 0.12
Matches are distributed among these distances:
37 1 0.01
38 1 0.01
40 70 0.93
41 2 0.03
42 1 0.01
ACGTcount: A:0.24, C:0.24, G:0.27, T:0.25
Consensus pattern (39 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCAATGC
Found at i:199491720 original size:20 final size:20
Alignment explanation
Indices: 199491697--199491735 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
199491687 TAAACATGGT
199491697 ATGTATGATATGCACATGAC
1 ATGTATGATATGCACATGAC
199491717 ATGTATGATATGCACATGA
1 ATGTATGATATGCACATGA
199491736 TGTGTTCATA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.36, C:0.13, G:0.21, T:0.31
Consensus pattern (20 bp):
ATGTATGATATGCACATGAC
Found at i:199491817 original size:23 final size:24
Alignment explanation
Indices: 199491787--199491903 Score: 170
Period size: 23 Copynumber: 4.9 Consensus size: 24
199491777 AGGAAGTGCA
199491787 AAAGGGCTTATGCCCCAGTTATT-
1 AAAGGGCTTATGCCCCAGTTATTG
199491810 AAAGGGCTTATGCCCCAGTTATT-
1 AAAGGGCTTATGCCCCAGTTATTG
199491833 AAAGGGCTTATGCCCCAGTTATTG
1 AAAGGGCTTATGCCCCAGTTATTG
199491857 AAAAGGGCTT-TGCCCCAGTTATTG
1 -AAAGGGCTTATGCCCCAGTTATTG
*
199491881 AAAGAGGC-TAGGCCTCCAGTTAT
1 AAAG-GGCTTATGCC-CCAGTTAT
199491904 ATGATAAAGC
Statistics
Matches: 88, Mismatches: 1, Indels: 8
0.91 0.01 0.08
Matches are distributed among these distances:
23 51 0.58
24 20 0.23
25 17 0.19
ACGTcount: A:0.26, C:0.21, G:0.24, T:0.28
Consensus pattern (24 bp):
AAAGGGCTTATGCCCCAGTTATTG
Found at i:199492132 original size:31 final size:31
Alignment explanation
Indices: 199492097--199492160 Score: 110
Period size: 31 Copynumber: 2.1 Consensus size: 31
199492087 CGTTTACAGT
199492097 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
**
199492128 AAAGGCTTCGGCCCAGTGTTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
199492159 AA
1 AA
199492161 TATGAAAAGG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.38, C:0.16, G:0.23, T:0.23
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:199499824 original size:23 final size:24
Alignment explanation
Indices: 199499794--199499912 Score: 156
Period size: 23 Copynumber: 4.9 Consensus size: 24
199499784 AGGAAGTGCA
199499794 AAAGGGCTTATGCCCCAGTTATT-
1 AAAGGGCTTATGCCCCAGTTATTG
199499817 AAAGGGCTTATGCCCCAGTTATT-
1 AAAGGGCTTATGCCCCAGTTATTG
199499840 AAAGGGCTTATGCCCCAGTTAGTTTG
1 AAAGGGCTTATGCCCCAGTTA--TTG
199499866 AAAAGGGCTT-TGCCCCAGTTATTG
1 -AAAGGGCTTATGCCCCAGTTATTG
*
199499890 AAAGAGGC-TAGGCCTCCAGTTAT
1 AAAG-GGCTTATGCC-CCAGTTAT
199499913 ATTAAAGCAG
Statistics
Matches: 88, Mismatches: 1, Indels: 12
0.87 0.01 0.12
Matches are distributed among these distances:
23 49 0.56
24 9 0.10
25 10 0.11
26 11 0.12
27 9 0.10
ACGTcount: A:0.26, C:0.21, G:0.24, T:0.29
Consensus pattern (24 bp):
AAAGGGCTTATGCCCCAGTTATTG
Found at i:199500138 original size:31 final size:31
Alignment explanation
Indices: 199500103--199500166 Score: 92
Period size: 31 Copynumber: 2.1 Consensus size: 31
199500093 CGTTTACAGT
* *
199500103 AAAGGCTTTGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGACCCAGTAATATGAAATATGA
**
199500134 AAAGGCTTCGACCCAGTGTTATGAAATATGA
1 AAAGGCTTCGACCCAGTAATATGAAATATGA
199500165 AA
1 AA
199500167 TATGAAAAGA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.39, C:0.14, G:0.22, T:0.25
Consensus pattern (31 bp):
AAAGGCTTCGACCCAGTAATATGAAATATGA
Found at i:199502808 original size:28 final size:28
Alignment explanation
Indices: 199502737--199502835 Score: 110
Period size: 28 Copynumber: 3.5 Consensus size: 28
199502727 GTAATAAGCC
*
199502737 CGCACACTTAGTGCT-TAATAGTCAAACT
1 CGCACACTTAGTGCTAT-ATAATCAAACT
*
199502765 CACACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * ** *
199502793 TGCACACTTAGTGCTATACAATTTGAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
199502822 CGCACACTTAGTGC
1 CGCACACTTAGTGC
199502836 CAATTTTGTG
Statistics
Matches: 60, Mismatches: 9, Indels: 3
0.83 0.12 0.04
Matches are distributed among these distances:
28 42 0.70
29 18 0.30
ACGTcount: A:0.32, C:0.26, G:0.13, T:0.28
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:199513233 original size:29 final size:29
Alignment explanation
Indices: 199513199--199513276 Score: 102
Period size: 29 Copynumber: 2.7 Consensus size: 29
199513189 GTGACGAGAT
* *
199513199 CGGCACTAAGTGTGCGTGCTGGAAATATA
1 CGGCACTAAGTGTGCGAGCTGGAAAAATA
* *
199513228 TGGCACTAAGTGTGCAAGCTGGAAAAATA
1 CGGCACTAAGTGTGCGAGCTGGAAAAATA
**
199513257 CGGCACTGGGTGTGCGAGCT
1 CGGCACTAAGTGTGCGAGCT
199513277 CGAGGGTATG
Statistics
Matches: 41, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
29 41 1.00
ACGTcount: A:0.27, C:0.18, G:0.33, T:0.22
Consensus pattern (29 bp):
CGGCACTAAGTGTGCGAGCTGGAAAAATA
Found at i:199515826 original size:29 final size:29
Alignment explanation
Indices: 199515794--199515871 Score: 102
Period size: 29 Copynumber: 2.7 Consensus size: 29
199515784 ATACCCTCCG
** *
199515794 AGCTCGCACACCCAGTGCCGTATTTTTCC
1 AGCTCGCACACTTAGTGCCGTATATTTCC
* *
199515823 AGCTTGCACACTTAGTGCCATATATTTCC
1 AGCTCGCACACTTAGTGCCGTATATTTCC
*
199515852 AGCACGCACACTTAGTGCCG
1 AGCTCGCACACTTAGTGCCG
199515872 ATCTCGTCAC
Statistics
Matches: 41, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
29 41 1.00
ACGTcount: A:0.22, C:0.33, G:0.18, T:0.27
Consensus pattern (29 bp):
AGCTCGCACACTTAGTGCCGTATATTTCC
Found at i:199517614 original size:29 final size:29
Alignment explanation
Indices: 199517582--199517656 Score: 105
Period size: 29 Copynumber: 2.6 Consensus size: 29
199517572 AATCATATTC
*
199517582 ATATGGCCCATTAGGCCCAAATCACCTGA
1 ATATGGCCCATTAGGCCCAAATCACATGA
* **
199517611 ATATAGCCCATTAGGCCCAAATCACATTT
1 ATATGGCCCATTAGGCCCAAATCACATGA
*
199517640 ATATGGCCCGTTAGGCC
1 ATATGGCCCATTAGGCC
199517657 TAGTCACATT
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
29 40 1.00
ACGTcount: A:0.29, C:0.29, G:0.17, T:0.24
Consensus pattern (29 bp):
ATATGGCCCATTAGGCCCAAATCACATGA
Found at i:199517655 original size:58 final size:57
Alignment explanation
Indices: 199517548--199517656 Score: 148
Period size: 58 Copynumber: 1.9 Consensus size: 57
199517538 AAATTCACAT
* * *
199517548 ACCTGTATCTAGCCCATTCAGCCCAATCATATTCATATGGCCCATTAGGCCCAAATC
1 ACCTGAATATAGCCCATTCAGCCCAATCACATTCATATGGCCCATTAGGCCCAAATC
* *
199517605 ACCTGAATATAGCCCATT-AGGCCCAAATCACATTTATATGGCCCGTTAGGCC
1 ACCTGAATATAGCCCATTCA-GCCC-AATCACATTCATATGGCCCATTAGGCC
199517657 TAGTCACATT
Statistics
Matches: 45, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
56 1 0.02
57 20 0.44
58 24 0.53
ACGTcount: A:0.28, C:0.31, G:0.15, T:0.26
Consensus pattern (57 bp):
ACCTGAATATAGCCCATTCAGCCCAATCACATTCATATGGCCCATTAGGCCCAAATC
Found at i:199520371 original size:13 final size:13
Alignment explanation
Indices: 199520353--199520381 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
199520343 TTTAGTTTAA
199520353 TTAGTTAATTAGT
1 TTAGTTAATTAGT
199520366 TTAGTTAATTAGT
1 TTAGTTAATTAGT
199520379 TTA
1 TTA
199520382 ATAAACAACC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.31, C:0.00, G:0.14, T:0.55
Consensus pattern (13 bp):
TTAGTTAATTAGT
Found at i:199525090 original size:60 final size:61
Alignment explanation
Indices: 199524958--199525105 Score: 144
Period size: 60 Copynumber: 2.5 Consensus size: 61
199524948 GGACGATTAG
* * *
199524958 CTTGTCTACAATACTAGCAATTTATCTGCATCACTGGTGGCTTGTCCACAATACTGATGGA
1 CTTGTCTACAATACTAGCAATTTATCTGAATCACTGATAGCTTGTCCACAATACTGATGGA
* * * * * *
199525019 -TTTTCCT-CAATACTCGTAGTTTATTTGAATTACTGATAGCTTGTCCACAATACT-A-GGAA
1 CTTGT-CTACAATACTAGCAATTTATCTGAATCACTGATAGCTTGTCCACAATACTGATGG-A
*
199525078 CTTGTCTACAATACT-GACAGTTTATCTG
1 CTTGTCTACAATACTAG-CAATTTATCTG
199525106 TAATAATGGT
Statistics
Matches: 70, Mismatches: 12, Indels: 11
0.75 0.13 0.12
Matches are distributed among these distances:
58 2 0.03
59 5 0.07
60 61 0.87
61 2 0.03
ACGTcount: A:0.27, C:0.21, G:0.16, T:0.36
Consensus pattern (61 bp):
CTTGTCTACAATACTAGCAATTTATCTGAATCACTGATAGCTTGTCCACAATACTGATGGA
Found at i:199526795 original size:68 final size:68
Alignment explanation
Indices: 199526679--199526942 Score: 289
Period size: 68 Copynumber: 3.9 Consensus size: 68
199526669 ATCCTTGTGA
* * * *
199526679 ACTTTATATGTTGTCATAG-TCCAACTATAGTCTTACACAATATGTTCCCATGTTTACTGTCATG
1 ACTTCATATGTTGCCATAGCT-CAACTATGGTCTTACACAATATGTTCCCATGTTTACTGTCCTG
199526743 GTAG
65 GTAG
* * * *
199526747 ACTTCACATGTTGCCATAGCTCAGCTATGGTCTAACACAATATGTTCCCATGTTTACTGTCCTGA
1 ACTTCATATGTTGCCATAGCTCAACTATGGTCTTACACAATATGTTCCCATGTTTACTGTCCTGG
*
199526812 TGG
66 TAG
* * * * * * * *
199526815 AATTCATATGTTGCTATAGC-CTAGCTATGGTCTTACATAATTTGTTCACGTGTTTACTATCCTG
1 ACTTCATATGTTGCCATAGCTC-AACTATGGTCTTACACAATATGTTCCCATGTTTACTGTCCTG
199526879 GTAG
65 GTAG
* * * * **
199526883 ACTTCATATGTTACCACAGCCCAACTATGGTCCTACACAATATGTTCTTATGTTTACTGT
1 ACTTCATATGTTGCCATAGCTCAACTATGGTCTTACACAATATGTTCCCATGTTTACTGT
199526943 TTTAGCTTTT
Statistics
Matches: 161, Mismatches: 32, Indels: 6
0.81 0.16 0.03
Matches are distributed among these distances:
67 1 0.01
68 158 0.98
69 2 0.01
ACGTcount: A:0.25, C:0.22, G:0.16, T:0.38
Consensus pattern (68 bp):
ACTTCATATGTTGCCATAGCTCAACTATGGTCTTACACAATATGTTCCCATGTTTACTGTCCTGG
TAG
Found at i:199538077 original size:40 final size:35
Alignment explanation
Indices: 199538011--199538140 Score: 120
Period size: 35 Copynumber: 3.6 Consensus size: 35
199538001 CATGGCAAAG
199538011 TGTGAAATGTAGGTATGGTATCATCCATACTGAGT
1 TGTGAAATGTAGGTATGGTATCATCCATACTGAGT
199538046 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGT
1 TGTGAAATGTAGGTATGG---TATC--ATCCATACTGAGT
** * * * *
199538086 TAAGAAA-GTAGGTATGGCAT-TTCCCATGCCGAGT
1 TGTGAAATGTAGGTATGGTATCAT-CCATACTGAGT
* *
199538120 TGTAAAACGTAGGTATGGTAT
1 TGTGAAATGTAGGTATGGTAT
199538141 TTCAATGAGG
Statistics
Matches: 78, Mismatches: 10, Indels: 14
0.76 0.10 0.14
Matches are distributed among these distances:
33 1 0.01
34 13 0.17
35 30 0.38
36 2 0.03
38 4 0.05
39 10 0.13
40 18 0.23
ACGTcount: A:0.31, C:0.12, G:0.25, T:0.32
Consensus pattern (35 bp):
TGTGAAATGTAGGTATGGTATCATCCATACTGAGT
Found at i:199541137 original size:26 final size:26
Alignment explanation
Indices: 199541108--199541217 Score: 184
Period size: 26 Copynumber: 4.2 Consensus size: 26
199541098 TGGTACAAAT
199541108 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
199541134 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
199541160 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
199541186 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
199541212 TGATAA
1 TGATAA
199541218 GAATTTCATG
Statistics
Matches: 82, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 82 1.00
ACGTcount: A:0.34, C:0.05, G:0.25, T:0.36
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTCCA
Found at i:199546929 original size:26 final size:26
Alignment explanation
Indices: 199546900--199547009 Score: 184
Period size: 26 Copynumber: 4.2 Consensus size: 26
199546890 TGGTACAAAT
199546900 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
199546926 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
199546952 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
199546978 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
199547004 TGATAA
1 TGATAA
199547010 GAATTTCATG
Statistics
Matches: 82, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 82 1.00
ACGTcount: A:0.34, C:0.05, G:0.25, T:0.36
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTCCA
Found at i:199548531 original size:25 final size:26
Alignment explanation
Indices: 199548490--199548541 Score: 63
Period size: 25 Copynumber: 2.0 Consensus size: 26
199548480 TTTACAGTTT
199548490 TACCCCTAGGAGAAAATT-ACCGAAA
1 TACCCCTAGGAGAAAATTGACCGAAA
* *
199548515 TACCCCTAGG-GTTAAATTGACCTAAA
1 TACCCCTAGGAG-AAAATTGACCGAAA
199548541 T
1 T
199548542 GCATGTTTGA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
24 1 0.04
25 15 0.65
26 7 0.30
ACGTcount: A:0.38, C:0.23, G:0.15, T:0.23
Consensus pattern (26 bp):
TACCCCTAGGAGAAAATTGACCGAAA
Found at i:199552714 original size:26 final size:26
Alignment explanation
Indices: 199552678--199552787 Score: 184
Period size: 26 Copynumber: 4.2 Consensus size: 26
199552668 TGATACAAAT
199552678 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
199552704 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
199552730 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
199552756 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
199552782 TGATAA
1 TGATAA
199552788 GAATTTCATG
Statistics
Matches: 82, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 82 1.00
ACGTcount: A:0.34, C:0.05, G:0.25, T:0.36
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTCCA
Found at i:199554300 original size:26 final size:26
Alignment explanation
Indices: 199554271--199554323 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
199554261 TTTACAGTTT
199554271 TACCCCTAGGAGATAAATT-ACCGAAA
1 TACCCCTAGG-GATAAATTGACCGAAA
* *
199554297 TACCCCTAGGGTTAAATTGACCTAAA
1 TACCCCTAGGGATAAATTGACCGAAA
199554323 T
1 T
199554324 GCATGTTTGA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.38, C:0.23, G:0.15, T:0.25
Consensus pattern (26 bp):
TACCCCTAGGGATAAATTGACCGAAA
Found at i:199558527 original size:26 final size:25
Alignment explanation
Indices: 199558468--199558601 Score: 223
Period size: 26 Copynumber: 5.2 Consensus size: 25
199558458 TGATACAAAT
199558468 TGATAATAGGTTAGGTAAATGTTCA
1 TGATAATAGGTTAGGTAAATGTTCA
199558493 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTT-CA
199558519 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTT-CA
*
199558545 TGATAATGGGTTAGGTAAATGTTCA
1 TGATAATAGGTTAGGTAAATGTTCA
*
199558570 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATG-TTCA
199558596 TGATAA
1 TGATAA
199558602 GAATTTCATG
Statistics
Matches: 106, Mismatches: 1, Indels: 3
0.96 0.01 0.03
Matches are distributed among these distances:
25 46 0.43
26 60 0.57
ACGTcount: A:0.34, C:0.05, G:0.25, T:0.36
Consensus pattern (25 bp):
TGATAATAGGTTAGGTAAATGTTCA
Found at i:199558528 original size:51 final size:50
Alignment explanation
Indices: 199558468--199558601 Score: 223
Period size: 51 Copynumber: 2.6 Consensus size: 50
199558458 TGATACAAAT
199558468 TGATAATAGGTTAGGTAAATGTTCATGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCATGATAATAGGTTAGGTAAATGTT-CA
*
199558519 TGATAATAGGTTAGGTAAATGTTCCATGATAATGGGTTAGGTAAATGTTCA
1 TGATAATAGGTTAGGTAAATGTT-CATGATAATAGGTTAGGTAAATGTTCA
*
199558570 TGATAATGGGTTAGGTAAATGTTTCATGATAA
1 TGATAATAGGTTAGGTAAATG-TTCATGATAA
199558602 GAATTTCATG
Statistics
Matches: 79, Mismatches: 2, Indels: 4
0.93 0.02 0.05
Matches are distributed among these distances:
51 53 0.67
52 26 0.33
ACGTcount: A:0.34, C:0.05, G:0.25, T:0.36
Consensus pattern (50 bp):
TGATAATAGGTTAGGTAAATGTTCATGATAATAGGTTAGGTAAATGTTCA
Found at i:199560114 original size:25 final size:26
Alignment explanation
Indices: 199560086--199560137 Score: 70
Period size: 25 Copynumber: 2.0 Consensus size: 26
199560076 TTTACAGTTT
199560086 TACCCCTAGAGATAAATT-ACCGAAA
1 TACCCCTAGAGATAAATTGACCGAAA
* * *
199560111 TACCCCTAGGGTTAAATTGACCTAAA
1 TACCCCTAGAGATAAATTGACCGAAA
199560137 T
1 T
199560138 GCATGTTTGA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
25 16 0.70
26 7 0.30
ACGTcount: A:0.38, C:0.23, G:0.13, T:0.25
Consensus pattern (26 bp):
TACCCCTAGAGATAAATTGACCGAAA
Found at i:199561485 original size:10 final size:11
Alignment explanation
Indices: 199561465--199561499 Score: 54
Period size: 11 Copynumber: 3.3 Consensus size: 11
199561455 AAATAATATT
199561465 TAAATATTTTA
1 TAAATATTTTA
199561476 TAAA-ATTTTA
1 TAAATATTTTA
*
199561486 AAAATATTTTA
1 TAAATATTTTA
199561497 TAA
1 TAA
199561500 TCAGTTGGGT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
10 9 0.43
11 12 0.57
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (11 bp):
TAAATATTTTA
Found at i:199565314 original size:27 final size:27
Alignment explanation
Indices: 199565266--199565424 Score: 175
Period size: 27 Copynumber: 5.9 Consensus size: 27
199565256 GCGAGGCTGC
* *
199565266 CAGATATTGTGAC-GAAGTCACCAGATA
1 CAGATATTGTGGCAG-AGCCACCAGATA
199565293 CAGATATTGTGGCAGAGCCACCAGA-A
1 CAGATATTGTGGCAGAGCCACCAGATA
199565319 CAGATATATGTGGCAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
* * *
199565346 CAGATAATTGTAGCATAGCCACCAG-GA
1 CAGAT-ATTGTGGCAGAGCCACCAGATA
199565373 CAGATATATGTGGCAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
* *
199565400 TAGATAATTGTGGCATAGCCACCAG
1 CAGAT-ATTGTGGCAGAGCCACCAG
199565425 GACGCTTCCT
Statistics
Matches: 114, Mismatches: 10, Indels: 16
0.81 0.07 0.11
Matches are distributed among these distances:
26 10 0.09
27 99 0.87
28 5 0.04
ACGTcount: A:0.35, C:0.21, G:0.25, T:0.19
Consensus pattern (27 bp):
CAGATATTGTGGCAGAGCCACCAGATA
Found at i:199565425 original size:54 final size:54
Alignment explanation
Indices: 199565284--199565427 Score: 236
Period size: 54 Copynumber: 2.7 Consensus size: 54
199565274 GTGACGAAGT
* *
199565284 CACCAGATACAGAT-ATTGTGGCAGAGCCACCAGAACAGATATATGTGGCAGAGC
1 CACCAGAT-CAGATAATTGTGGCATAGCCACCAGGACAGATATATGTGGCAGAGC
*
199565338 CACCAGATCAGATAATTGTAGCATAGCCACCAGGACAGATATATGTGGCAGAGC
1 CACCAGATCAGATAATTGTGGCATAGCCACCAGGACAGATATATGTGGCAGAGC
*
199565392 CACCAGATTAGATAATTGTGGCATAGCCACCAGGAC
1 CACCAGATCAGATAATTGTGGCATAGCCACCAGGAC
199565428 GCTTCCTCCA
Statistics
Matches: 84, Mismatches: 5, Indels: 2
0.92 0.05 0.02
Matches are distributed among these distances:
53 5 0.06
54 79 0.94
ACGTcount: A:0.35, C:0.23, G:0.24, T:0.18
Consensus pattern (54 bp):
CACCAGATCAGATAATTGTGGCATAGCCACCAGGACAGATATATGTGGCAGAGC
Found at i:199567055 original size:26 final size:26
Alignment explanation
Indices: 199567014--199567090 Score: 147
Period size: 26 Copynumber: 3.0 Consensus size: 26
199567004 AATTCCCACG
199567014 TGGAACA-TTACCTAACCCATTATCA
1 TGGAACATTTACCTAACCCATTATCA
199567039 TGGAACATTTACCTAACCCATTATCA
1 TGGAACATTTACCTAACCCATTATCA
199567065 TGGAACATTTACCTAACCCATTATCA
1 TGGAACATTTACCTAACCCATTATCA
199567091 ATTTGTATCA
Statistics
Matches: 51, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
25 7 0.14
26 44 0.86
ACGTcount: A:0.35, C:0.27, G:0.08, T:0.30
Consensus pattern (26 bp):
TGGAACATTTACCTAACCCATTATCA
Found at i:199570244 original size:40 final size:39
Alignment explanation
Indices: 199570080--199570262 Score: 129
Period size: 40 Copynumber: 4.6 Consensus size: 39
199570070 AAATTGAATG
* * *
199570080 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
199570120 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
199570160 ACATCCGGGCTAAGA-CCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
199570199 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
199570238 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
199570263 CTTGGTGCGG
Statistics
Matches: 111, Mismatches: 26, Indels: 12
0.74 0.17 0.08
Matches are distributed among these distances:
37 4 0.04
38 2 0.02
39 34 0.31
40 71 0.64
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
Found at i:199578330 original size:40 final size:39
Alignment explanation
Indices: 199578165--199578348 Score: 138
Period size: 40 Copynumber: 4.6 Consensus size: 39
199578155 AAATTGAATG
* * *
199578165 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
199578205 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
199578245 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
199578285 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
199578324 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
199578349 CTTGGTGCGG
Statistics
Matches: 113, Mismatches: 26, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
37 4 0.04
38 2 0.02
39 3 0.03
40 104 0.92
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
Found at i:199578373 original size:80 final size:81
Alignment explanation
Indices: 199578205--199578393 Score: 186
Period size: 80 Copynumber: 2.4 Consensus size: 81
199578195 GCTGGAAATT
* * * *
199578205 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
*
199578270 TTCGTGCGAGTCATTC
66 TTCGTGCGAGTCATCC
* * * * * *
199578286 -TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGC
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGC
* * * *
199578349 CTTGGTGCGGGTTA-CC
65 ATTCGTGCGAGTCATCC
* * *
199578365 ATAACCGGGCTATGTCCCGAAGGCGATTG
1 ATAACCGGGCTAAGACCCGAAGGCAATTG
199578394 ATCGAGTAGC
Statistics
Matches: 86, Mismatches: 20, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
79 2 0.02
80 84 0.98
ACGTcount: A:0.23, C:0.24, G:0.30, T:0.23
Consensus pattern (81 bp):
ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTCATCC
Found at i:199584460 original size:39 final size:39
Alignment explanation
Indices: 199584406--199584568 Score: 245
Period size: 39 Copynumber: 4.2 Consensus size: 39
199584396 TGTGAATGAA
199584406 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
199584445 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
** *
199584484 TGTGCGAGCTATGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
* * * **
199584523 TGTGTGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCGTT
1 TGTGCGAATTGTGATATCCGGGCTAAG-CCCGAAGGCAAT
199584563 TGTGCG
1 TGTGCG
199584569 GGTTACCATA
Statistics
Matches: 113, Mismatches: 10, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
39 98 0.87
40 15 0.13
ACGTcount: A:0.23, C:0.20, G:0.33, T:0.25
Consensus pattern (39 bp):
TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
Found at i:199597608 original size:40 final size:40
Alignment explanation
Indices: 199597549--199597690 Score: 124
Period size: 40 Copynumber: 3.5 Consensus size: 40
199597539 AAATTGAATG
* * *
199597549 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * ***
199597589 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * ** *
199597629 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGACAATT-ATGCTAGAAACT
*
199597669 CTATCCGGGCTAAGACCCGAAG
1 ATATCCGGGCTAAGACCCGAAG
199597691 GCATTTGTGC
Statistics
Matches: 86, Mismatches: 15, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
39 3 0.03
40 83 0.97
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
Found at i:199597691 original size:40 final size:39
Alignment explanation
Indices: 199597588--199597700 Score: 145
Period size: 40 Copynumber: 2.8 Consensus size: 39
199597578 TGCTGGAAAT
* * **
199597588 TATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC
1 TATATCCGGGCTAAGACCCGAAGGC-ATTGTGCGAGTCAC
*
199597628 TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCAT
1 TATATCCGGGCTAAGACCCGAAGGCATT-GTGCGAGTCAC
*
199597668 TCTATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 TATATCCGGGCTAAGACCCGAAGGCA-TTGTGC
199597701 ACATGTTATA
Statistics
Matches: 65, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
39 3 0.05
40 60 0.92
41 2 0.03
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.24
Consensus pattern (39 bp):
TATATCCGGGCTAAGACCCGAAGGCATTGTGCGAGTCAC
Found at i:199605608 original size:39 final size:40
Alignment explanation
Indices: 199605550--199605650 Score: 132
Period size: 39 Copynumber: 2.5 Consensus size: 40
199605540 AAATTGAATG
* *
199605550 ATATCCGGGCTAAGCCCCGAAGACAATTATGCT-GAAATT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * * *
199605589 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAGCT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
199605629 ATATCCGGGCTAAGACCCGAAG
1 ATATCCGGGCTAAGACCCGAAG
199605651 GCATTCGTGC
Statistics
Matches: 53, Mismatches: 8, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
39 29 0.55
40 24 0.45
ACGTcount: A:0.31, C:0.23, G:0.25, T:0.22
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
Found at i:199605643 original size:40 final size:40
Alignment explanation
Indices: 199605550--199605732 Score: 181
Period size: 40 Copynumber: 4.6 Consensus size: 40
199605540 AAATTGAATG
* * * * *
199605550 ATATCCGGGCTAAGCCCCGAAGACAATTATGCT-GAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
* *
199605589 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
* *
199605629 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTAGTAGTT
* * * * * *
199605669 AAATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGTG
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
* * *
199605709 ATATCCGGGTTAAGTCCCGTAGGC
1 ATATCCGGGCTAAGACCCGAAGGC
199605733 CTTGGTGCGG
Statistics
Matches: 121, Mismatches: 20, Indels: 5
0.83 0.14 0.03
Matches are distributed among these distances:
39 32 0.26
40 87 0.72
41 2 0.02
ACGTcount: A:0.28, C:0.22, G:0.26, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
Found at i:199610085 original size:7 final size:6
Alignment explanation
Indices: 199610070--199610144 Score: 51
Period size: 7 Copynumber: 11.0 Consensus size: 6
199610060 CTCCATCCTA
*
199610070 AATTCTC AATCTTC AATTTTC AATTTC AATTTCC GATTTCC AATTTTC
1 AATT-TC AAT-TTC AA-TTTC AATTTC AATTT-C AATTT-C AA-TTTC
*
199610118 AATTCTC AATCTTC AATCCTC AATTTC
1 AATT-TC AAT-TTC AAT-TTC AATTTC
199610145 CAATCCTCAA
Statistics
Matches: 58, Mismatches: 4, Indels: 13
0.77 0.05 0.17
Matches are distributed among these distances:
6 13 0.22
7 39 0.67
8 6 0.10
ACGTcount: A:0.28, C:0.25, G:0.01, T:0.45
Consensus pattern (6 bp):
AATTTC
Found at i:199610092 original size:14 final size:13
Alignment explanation
Indices: 199610070--199610148 Score: 68
Period size: 14 Copynumber: 5.8 Consensus size: 13
199610060 CTCCATCCTA
*
199610070 AATTCTCAATCTTC
1 AATTTTCAAT-TTC
199610084 AATTTTCAATTTC
1 AATTTTCAATTTC
* *
199610097 AATTTCCGATTTCC
1 AATTTTCAATTT-C
199610111 AATTTTCAATTCTC
1 AATTTTCAATT-TC
* *
199610125 AATCTTCAATCCTC
1 AATTTTCAAT-TTC
*
199610139 AATTTCCAAT
1 AATTTTCAAT
199610149 CCTCAATCCT
Statistics
Matches: 53, Mismatches: 9, Indels: 6
0.78 0.13 0.09
Matches are distributed among these distances:
13 13 0.25
14 39 0.74
15 1 0.02
ACGTcount: A:0.29, C:0.25, G:0.01, T:0.44
Consensus pattern (13 bp):
AATTTTCAATTTC
Found at i:199610140 original size:21 final size:21
Alignment explanation
Indices: 199610116--199610161 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
199610106 TTTCCAATTT
*
199610116 TCAA-TTCTCAATCTTCAATCC
1 TCAATTTC-CAATCCTCAATCC
199610137 TCAATTTCCAATCCTCAATCC
1 TCAATTTCCAATCCTCAATCC
199610158 TCAA
1 TCAA
199610162 ATATTTTTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 20 0.87
22 3 0.13
ACGTcount: A:0.30, C:0.35, G:0.00, T:0.35
Consensus pattern (21 bp):
TCAATTTCCAATCCTCAATCC
Found at i:199610149 original size:14 final size:13
Alignment explanation
Indices: 199610114--199610155 Score: 57
Period size: 14 Copynumber: 3.1 Consensus size: 13
199610104 GATTTCCAAT
*
199610114 TTTCAATTCTCAA
1 TTTCAATCCTCAA
199610127 TCTTCAATCCTCAA
1 T-TTCAATCCTCAA
199610141 TTTCCAATCCTCAA
1 TTT-CAATCCTCAA
199610155 T
1 T
199610156 CCTCAAATAT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
13 3 0.12
14 23 0.88
ACGTcount: A:0.29, C:0.31, G:0.00, T:0.40
Consensus pattern (13 bp):
TTTCAATCCTCAA
Found at i:199619154 original size:43 final size:42
Alignment explanation
Indices: 199618998--199619155 Score: 106
Period size: 43 Copynumber: 3.7 Consensus size: 42
199618988 TGTGTTATCG
* * * * *
199618998 TGTAAGACCATGTCTGGGACGTTGGCATCGACTTCTGTTTTACG
1 TGTAAGACCACGTCTGGGACGTTGGCATC-AATTTTG-ATTACA
* * * * **
199619042 TTTAAGACCATGTCTGGGACATTGGCATC-GTTAATCAATTACA
1 TGTAAGACCACGTCTGGGACGTTGGCATCAATT--TTGATTACA
* * *
199619085 TGTAAGACC-CTATTTGGGATAG-TGGCATCAATGTTTGATTACA
1 TGTAAGACCAC-GTCTGGGA-CGTTGGCATCAAT-TTTGATTACA
199619128 TGTAAGACCACGTCTGGGACGTTGGCAT
1 TGTAAGACCACGTCTGGGACGTTGGCAT
199619156 TGTATTTACT
Statistics
Matches: 86, Mismatches: 20, Indels: 17
0.70 0.16 0.14
Matches are distributed among these distances:
42 3 0.03
43 53 0.62
44 29 0.34
45 1 0.01
ACGTcount: A:0.25, C:0.18, G:0.25, T:0.32
Consensus pattern (42 bp):
TGTAAGACCACGTCTGGGACGTTGGCATCAATTTTGATTACA
Found at i:199623821 original size:40 final size:40
Alignment explanation
Indices: 199623771--199623919 Score: 176
Period size: 40 Copynumber: 3.7 Consensus size: 40
199623761 TAGTGATTCA
*
199623771 CACAATTGCCTTCGGGAATTAGCCCGGATTTAGTAACTCG
1 CACAAATGCCTTCGGGAATTAGCCCGGATTTAGTAACTCG
* * * *
199623811 CACGAATGCCTTCGGGACTTAACCCGG-TTTTGATAACTCG
1 CACAAATGCCTTCGGGAATTAGCCCGGATTTAG-TAACTCG
* * *
199623851 CACAAATGCCTTCGGGAATT-GACCGGATTTAGTCACTTAG
1 CACAAATGCCTTCGGGAATTAGCCCGGATTTAGTAAC-TCG
* *
199623891 CACAAAAGCCTTCGGGACTTAGCCCGGAT
1 CACAAATGCCTTCGGGAATTAGCCCGGAT
199623920 ACCATTCGAA
Statistics
Matches: 90, Mismatches: 15, Indels: 7
0.80 0.13 0.06
Matches are distributed among these distances:
39 11 0.12
40 72 0.80
41 7 0.08
ACGTcount: A:0.26, C:0.26, G:0.23, T:0.26
Consensus pattern (40 bp):
CACAAATGCCTTCGGGAATTAGCCCGGATTTAGTAACTCG
Found at i:199623838 original size:80 final size:80
Alignment explanation
Indices: 199623768--199623917 Score: 203
Period size: 80 Copynumber: 1.9 Consensus size: 80
199623758 TTATAGTGAT
* * * * *
199623768 TCACACAATTGCCTTCGGGAATTAGCCCGGATTTAGTAAC-TCGCACGAATGCCTTCGGGACTTA
1 TCACACAAATGCCTTCGGGAATT-GACCGGATTTAGTAACTTAGCACAAAAGCCTTCGGGACTTA
*
199623832 ACCCGGTTTTGATAAC
65 ACCCGGTTTAGATAAC
* * *
199623848 TCGCACAAATGCCTTCGGGAATTGACCGGATTTAGTCACTTAGCACAAAAGCCTTCGGGACTTAG
1 TCACACAAATGCCTTCGGGAATTGACCGGATTTAGTAACTTAGCACAAAAGCCTTCGGGACTTAA
199623913 CCCGG
66 CCCGG
199623918 ATACCATTCG
Statistics
Matches: 61, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
79 14 0.23
80 47 0.77
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (80 bp):
TCACACAAATGCCTTCGGGAATTGACCGGATTTAGTAACTTAGCACAAAAGCCTTCGGGACTTAA
CCCGGTTTAGATAAC
Found at i:199631801 original size:38 final size:40
Alignment explanation
Indices: 199631752--199631893 Score: 108
Period size: 38 Copynumber: 3.7 Consensus size: 40
199631742 GACTCGCTCG
*
199631752 ATTGTCTTCGGGACA-TAG-CCGG--TTATAGTATTCGCACA
1 ATTGCCTTCGGGACATTAGCCCGGATTTA-AGTA-TCGCACA
199631790 ATTGCCTTCGGGA-ATTAGCCCGGATTTAAGTATCGCACA
1 ATTGCCTTCGGGACATTAGCCCGGATTTAAGTATCGCACA
* **
199631829 A--GCCTTCGGGAC-TTAACCCGG-TTTTGGTAACTCGCACA
1 ATTGCCTTCGGGACATTAGCCCGGATTTAAGT-A-TCGCACA
* *
199631867 AATGCCTTCCGGGA-ATT-GACCGGATTT
1 ATTGCCTT-CGGGACATTAGCCCGGATTT
199631894 TAGTCACTTA
Statistics
Matches: 86, Mismatches: 6, Indels: 21
0.76 0.05 0.19
Matches are distributed among these distances:
36 5 0.06
37 20 0.23
38 23 0.27
39 12 0.14
40 13 0.15
41 13 0.15
ACGTcount: A:0.23, C:0.24, G:0.24, T:0.29
Consensus pattern (40 bp):
ATTGCCTTCGGGACATTAGCCCGGATTTAAGTATCGCACA
Found at i:199632629 original size:2 final size:2
Alignment explanation
Indices: 199632622--199632649 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
199632612 CATGTGCAAC
199632622 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
199632650 GCTAGAGCCG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:199636125 original size:40 final size:40
Alignment explanation
Indices: 199636079--199636263 Score: 245
Period size: 40 Copynumber: 4.7 Consensus size: 40
199636069 ACTACTCGTT
* *
199636079 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAGCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
*
199636119 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
*
199636159 C-AATGCCTTC-GGATCTTAGTCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAACTCGCA
* *
199636198 CAAATGCCTTC-GGATCTTAGTCCGGATTTAGTAACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
199636239 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
199636264 CATCATTCGA
Statistics
Matches: 133, Mismatches: 7, Indels: 10
0.89 0.05 0.07
Matches are distributed among these distances:
38 3 0.02
39 33 0.25
40 84 0.63
41 13 0.10
ACGTcount: A:0.25, C:0.26, G:0.22, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:199636190 original size:79 final size:81
Alignment explanation
Indices: 199636081--199636263 Score: 250
Period size: 79 Copynumber: 2.3 Consensus size: 81
199636071 TACTCGTTCA
* *
199636081 AATGCCTTCGGGACATAGCCCGG-TTATAGTAGCTCGCACAAATGCCTTCGGGA-CTTAACCCGG
1 AATGCCTTCGGGACTTAGCCCGGATTATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCCGG
*
199636144 ATTTAGTAAC-TCGCAC
65 ATTTAGTAACTTAGCAC
* **
199636160 AATGCCTTC-GGATCTTAGTCCGGATT-TAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGG
1 AATGCCTTCGGGA-CTTAGCCCGGATTATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGG
199636223 ATTTAGTAACTTAGCAC
65 ATTTAGTAACTTAGCAC
*
199636240 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
199636264 CATCATTCGA
Statistics
Matches: 91, Mismatches: 8, Indels: 9
0.84 0.07 0.08
Matches are distributed among these distances:
78 6 0.07
79 57 0.63
80 25 0.27
81 3 0.03
ACGTcount: A:0.25, C:0.26, G:0.22, T:0.26
Consensus pattern (81 bp):
AATGCCTTCGGGACTTAGCCCGGATTATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGA
TTTAGTAACTTAGCAC
Found at i:199644147 original size:39 final size:40
Alignment explanation
Indices: 199644041--199644224 Score: 218
Period size: 40 Copynumber: 4.7 Consensus size: 40
199644031 GCTACTCGTT
* * *
199644041 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAGCTCGTA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
* *
199644081 CAAATGCCTTCGGGACTTAACCTGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
*
199644121 C-AATGCCTTC-GGATCTTAGTCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAACTCGCA
* *
199644160 CAAATGCCTTC-GGATCTTAGTCCGGA-TTAGTAACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
199644200 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
199644225 CATCATTCGA
Statistics
Matches: 129, Mismatches: 10, Indels: 11
0.86 0.07 0.07
Matches are distributed among these distances:
38 3 0.02
39 56 0.43
40 68 0.53
41 2 0.02
ACGTcount: A:0.26, C:0.26, G:0.22, T:0.27
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:199644152 original size:79 final size:80
Alignment explanation
Indices: 199644043--199644224 Score: 223
Period size: 79 Copynumber: 2.3 Consensus size: 80
199644033 TACTCGTTCA
* * *
199644043 AATGCCTTCGGGACATAGCCCGG-TTATAGTAGCTCGTACAAATGCCTTCGGGA-CTTA-ACCTG
1 AATGCCTTCGGGACTTAGCCCGGATTATAGTAACTCGCACAAATGCCTTC-GGATCTTAGACC-G
*
199644105 GATTTAGTAAC-TCGCAC
64 GA-TTAGTAACTTAGCAC
* *
199644122 AATGCCTTC-GGATCTTAGTCCGGATT-TAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGG
1 AATGCCTTCGGGA-CTTAGCCCGGATTATAGTAACTCGCACAAATGCCTTCGGATCTTAGACCGG
199644185 ATTAGTAACTTAGCAC
65 ATTAGTAACTTAGCAC
*
199644201 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
199644225 CATCATTCGA
Statistics
Matches: 89, Mismatches: 8, Indels: 12
0.82 0.07 0.11
Matches are distributed among these distances:
78 14 0.16
79 68 0.76
80 7 0.08
ACGTcount: A:0.25, C:0.25, G:0.23, T:0.27
Consensus pattern (80 bp):
AATGCCTTCGGGACTTAGCCCGGATTATAGTAACTCGCACAAATGCCTTCGGATCTTAGACCGGA
TTAGTAACTTAGCAC
Found at i:199653717 original size:41 final size:41
Alignment explanation
Indices: 199653672--199653789 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
199653662 TGAAAGATAA
199653672 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
199653713 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
199653743 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
199653784 ATGTAG
1 ATGTAG
199653790 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:199653728 original size:71 final size:71
Alignment explanation
Indices: 199653640--199653803 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
199653630 GAGATGTATC
199653640 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
199653705 AGGACA
66 AGGACA
199653711 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
199653776 AGGACA
66 AGGACA
199653782 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
199653804 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:199661295 original size:41 final size:41
Alignment explanation
Indices: 199661250--199661367 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
199661240 TGAAAGATAA
199661250 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
199661291 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
199661321 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
199661362 ATGTAG
1 ATGTAG
199661368 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:199661306 original size:71 final size:71
Alignment explanation
Indices: 199661218--199661381 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
199661208 GAGATGTATC
199661218 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
199661283 AGGACA
66 AGGACA
199661289 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
199661354 AGGACA
66 AGGACA
199661360 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
199661382 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:199664417 original size:27 final size:28
Alignment explanation
Indices: 199664387--199664456 Score: 106
Period size: 27 Copynumber: 2.5 Consensus size: 28
199664377 ATAGTGAGTC
* *
199664387 CGCACACCTAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTACATAATCAAACT
*
199664414 CGCACACTTAGTGCTACATGATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
199664442 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
199664457 GTACAAGTTT
Statistics
Matches: 39, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
27 20 0.51
28 19 0.49
ACGTcount: A:0.30, C:0.30, G:0.14, T:0.26
Consensus pattern (28 bp):
CGCACACTTAGTGCTACATAATCAAACT
Found at i:199666290 original size:2 final size:2
Alignment explanation
Indices: 199666283--199666314 Score: 50
Period size: 2 Copynumber: 17.0 Consensus size: 2
199666273 ATGTGCAAAC
199666283 AT AT AT AT AT AT A- AT AT AT AT AT AT AT -T AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
199666315 GTGCAAGAGC
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
1 2 0.07
2 26 0.93
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:199666299 original size:13 final size:13
Alignment explanation
Indices: 199666283--199666314 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
199666273 ATGTGCAAAC
199666283 ATATATATATATA
1 ATATATATATATA
199666296 ATATATATATATA
1 ATATATATATATA
*
199666309 TTATAT
1 ATATAT
199666315 GTGCAAGAGC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (13 bp):
ATATATATATATA
Found at i:199666301 original size:11 final size:10
Alignment explanation
Indices: 199666283--199666314 Score: 50
Period size: 9 Copynumber: 3.4 Consensus size: 10
199666273 ATGTGCAAAC
199666283 ATATATATAT
1 ATATATATAT
199666293 ATA-ATATAT
1 ATATATATAT
199666302 ATATATAT-T
1 ATATATATAT
199666311 ATAT
1 ATAT
199666315 GTGCAAGAGC
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
9 14 0.67
10 7 0.33
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (10 bp):
ATATATATAT
Found at i:199666303 original size:15 final size:15
Alignment explanation
Indices: 199666283--199666314 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
199666273 ATGTGCAAAC
199666283 ATATATATATATAAT
1 ATATATATATATAAT
*
199666298 ATATATATATATTAT
1 ATATATATATATAAT
199666313 AT
1 AT
199666315 GTGCAAGAGC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (15 bp):
ATATATATATATAAT
Found at i:199669378 original size:40 final size:40
Alignment explanation
Indices: 199669323--199669532 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
199669313 AACATTGGAA
199669323 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
199669363 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
199669403 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * *
199669443 ATATATCCGGGCTAAGACCCGAAGGCCTTTGTGCAAG-TC
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * * * *
199669482 ACCAAATCCGGGTTATGACCCGAAGGCAATCGTGCGAGTCG
1 A-TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
*
199669523 CTATATCCGG
1 ATATATCCGG
199669533 TTAAATCCCG
Statistics
Matches: 151, Mismatches: 17, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
39 2 0.01
40 149 0.99
ACGTcount: A:0.25, C:0.24, G:0.29, T:0.22
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
Found at i:199677512 original size:40 final size:40
Alignment explanation
Indices: 199677457--199677666 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
199677447 AACATTGGAA
199677457 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
199677497 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
199677537 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * *
199677577 ATATATCCGGGCTAAGACCCGAAGGCCTTTGTGCAAG-TC
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * * * *
199677616 ACCAAATCCGGGTTATGACCCGAAGGCAATCGTGCGAGTCG
1 A-TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
*
199677657 CTATATCCGG
1 ATATATCCGG
199677667 TTAAATCCCG
Statistics
Matches: 151, Mismatches: 17, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
39 2 0.01
40 149 0.99
ACGTcount: A:0.25, C:0.24, G:0.29, T:0.22
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
Found at i:199679565 original size:29 final size:29
Alignment explanation
Indices: 199679504--199679602 Score: 159
Period size: 29 Copynumber: 3.5 Consensus size: 29
199679494 AATGAGATTG
199679504 GCACTAAGTGTGCGAGTTT-AATTGTATA
1 GCACTAAGTGTGCGAGTTTGAATTGTATA
199679532 GCACTAAGTGTGCGAGTTTGAATTGTATA
1 GCACTAAGTGTGCGAGTTTGAATTGTATA
199679561 GCACTAAGTGTGCGAGTTTGAATAT-TA-A
1 GCACTAAGTGTGCGAGTTTGAAT-TGTATA
*
199679589 GCACTAAGTTTGCG
1 GCACTAAGTGTGCG
199679603 GACTTACTAT
Statistics
Matches: 68, Mismatches: 1, Indels: 4
0.93 0.01 0.05
Matches are distributed among these distances:
28 33 0.49
29 34 0.50
30 1 0.01
ACGTcount: A:0.28, C:0.12, G:0.26, T:0.33
Consensus pattern (29 bp):
GCACTAAGTGTGCGAGTTTGAATTGTATA
Found at i:199685346 original size:38 final size:39
Alignment explanation
Indices: 199685294--199685436 Score: 234
Period size: 39 Copynumber: 3.7 Consensus size: 39
199685284 GAATGTTCGA
199685294 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
* *
199685333 GTGATA-CCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
*
199685371 ATGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
*
199685410 GTGATATCCGGGTTAAGTCCCGAAGGC
1 GTGATATCCGGGCTAAG-CCCGAAGGC
199685437 CTTTGTGCGG
Statistics
Matches: 95, Mismatches: 7, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
38 35 0.37
39 51 0.54
40 9 0.09
ACGTcount: A:0.27, C:0.21, G:0.30, T:0.22
Consensus pattern (39 bp):
GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
Found at i:199685382 original size:77 final size:79
Alignment explanation
Indices: 199685295--199685476 Score: 269
Period size: 77 Copynumber: 2.3 Consensus size: 79
199685285 AATGTTCGAG
199685295 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTGTGATA-CCGGGCTAAG-CCCGAAGGC
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTGTGATATCCGGGCTAAGTCCCGAAGGC
199685358 AATTGTGCGAGTTA
66 AATTGTGCGAGTTA
*
199685372 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTGTGATATCCGGGTTAAGTCCCGAAGGC
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTGTGATATCCGGGCTAAGTCCCGAAGGC
** *
199685437 CTTTGTGCGGGTTA
66 AATTGTGCGAGTTA
** * *
199685451 CCATAACCGGGCTATGTCCCGAAGGC
1 TGATATCCGGGCTAAG-CCCGAAGGC
199685477 GTTTGAACGA
Statistics
Matches: 94, Mismatches: 8, Indels: 3
0.90 0.08 0.03
Matches are distributed among these distances:
77 44 0.47
78 9 0.10
79 32 0.34
80 9 0.10
ACGTcount: A:0.25, C:0.23, G:0.30, T:0.23
Consensus pattern (79 bp):
TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTGTGATATCCGGGCTAAGTCCCGAAGGC
AATTGTGCGAGTTA
Found at i:199692525 original size:38 final size:39
Alignment explanation
Indices: 199692473--199692615 Score: 234
Period size: 39 Copynumber: 3.7 Consensus size: 39
199692463 GAATGTTCGA
199692473 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
* *
199692512 GTGATA-CCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
*
199692550 ATGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
*
199692589 GTGATATCCGGGTTAAGTCCCGAAGGC
1 GTGATATCCGGGCTAAG-CCCGAAGGC
199692616 CTTTGTGCGG
Statistics
Matches: 95, Mismatches: 7, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
38 35 0.37
39 51 0.54
40 9 0.09
ACGTcount: A:0.27, C:0.21, G:0.30, T:0.22
Consensus pattern (39 bp):
GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
Found at i:199692561 original size:77 final size:79
Alignment explanation
Indices: 199692474--199692655 Score: 269
Period size: 77 Copynumber: 2.3 Consensus size: 79
199692464 AATGTTCGAG
199692474 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTGTGATA-CCGGGCTAAG-CCCGAAGGC
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTGTGATATCCGGGCTAAGTCCCGAAGGC
199692537 AATTGTGCGAGTTA
66 AATTGTGCGAGTTA
*
199692551 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTGTGATATCCGGGTTAAGTCCCGAAGGC
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTGTGATATCCGGGCTAAGTCCCGAAGGC
** *
199692616 CTTTGTGCGGGTTA
66 AATTGTGCGAGTTA
** * *
199692630 CCATAACCGGGCTATGTCCCGAAGGC
1 TGATATCCGGGCTAAG-CCCGAAGGC
199692656 GTTTGAACGA
Statistics
Matches: 94, Mismatches: 8, Indels: 3
0.90 0.08 0.03
Matches are distributed among these distances:
77 44 0.47
78 9 0.10
79 32 0.34
80 9 0.10
ACGTcount: A:0.25, C:0.23, G:0.30, T:0.23
Consensus pattern (79 bp):
TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTGTGATATCCGGGCTAAGTCCCGAAGGC
AATTGTGCGAGTTA
Found at i:199697212 original size:2 final size:2
Alignment explanation
Indices: 199697205--199697230 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
199697195 ACATTCGGCC
199697205 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
199697231 GCATGTGTGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:199697715 original size:28 final size:29
Alignment explanation
Indices: 199697683--199697780 Score: 159
Period size: 28 Copynumber: 3.5 Consensus size: 29
199697673 AATGAGATTG
199697683 GCACTAAGTGTGCGAGTTT-AATTGTATA
1 GCACTAAGTGTGCGAGTTTGAATTGTATA
199697711 GCACTAAGTGTGCGAGTTTGAATTG-ATA
1 GCACTAAGTGTGCGAGTTTGAATTGTATA
199697739 GCACTAAGTGTGCGAGTTTGAATAT-TA-A
1 GCACTAAGTGTGCGAGTTTGAAT-TGTATA
199697767 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
199697781 GACTTACTGT
Statistics
Matches: 67, Mismatches: 0, Indels: 6
0.92 0.00 0.08
Matches are distributed among these distances:
28 60 0.90
29 7 0.10
ACGTcount: A:0.29, C:0.12, G:0.28, T:0.32
Consensus pattern (29 bp):
GCACTAAGTGTGCGAGTTTGAATTGTATA
Found at i:199698813 original size:18 final size:18
Alignment explanation
Indices: 199698790--199698828 Score: 78
Period size: 18 Copynumber: 2.2 Consensus size: 18
199698780 ATATGTACAA
199698790 TTCCTTTTCGAGTCTAGT
1 TTCCTTTTCGAGTCTAGT
199698808 TTCCTTTTCGAGTCTAGT
1 TTCCTTTTCGAGTCTAGT
199698826 TTC
1 TTC
199698829 TATAGAAACA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.10, C:0.23, G:0.15, T:0.51
Consensus pattern (18 bp):
TTCCTTTTCGAGTCTAGT
Found at i:199705092 original size:39 final size:40
Alignment explanation
Indices: 199705034--199705134 Score: 132
Period size: 39 Copynumber: 2.5 Consensus size: 40
199705024 AAATTGAATG
* *
199705034 ATATCCGGGCTAAGCCCCGAAGACAATTATGCT-GAAATT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * * *
199705073 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAGCT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
199705113 ATATCCGGGCTAAGACCCGAAG
1 ATATCCGGGCTAAGACCCGAAG
199705135 GCATTCGTGC
Statistics
Matches: 53, Mismatches: 8, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
39 29 0.55
40 24 0.45
ACGTcount: A:0.31, C:0.23, G:0.25, T:0.22
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
Found at i:199705127 original size:40 final size:40
Alignment explanation
Indices: 199705034--199705216 Score: 181
Period size: 40 Copynumber: 4.6 Consensus size: 40
199705024 AAATTGAATG
* * * * *
199705034 ATATCCGGGCTAAGCCCCGAAGACAATTATGCT-GAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
* *
199705073 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
* *
199705113 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTAGTAGTT
* * * * * *
199705153 AAATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGTG
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
* * *
199705193 ATATCCGGGTTAAGTCCCGTAGGC
1 ATATCCGGGCTAAGACCCGAAGGC
199705217 CTTGGTGCGG
Statistics
Matches: 121, Mismatches: 20, Indels: 5
0.83 0.14 0.03
Matches are distributed among these distances:
39 32 0.26
40 87 0.72
41 2 0.02
ACGTcount: A:0.28, C:0.22, G:0.26, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
Found at i:199705241 original size:80 final size:80
Alignment explanation
Indices: 199705075--199705261 Score: 189
Period size: 80 Copynumber: 2.3 Consensus size: 80
199705065 CTGAAATTAT
* * *
199705075 ATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAGCTATATCCGGGCTAAGACCCGAAGGCATT
1 ATCCGGGCTAAGACCCGAAGGCAATTGTGCAAATAGCTATATCCGGGCTAAGACCCGAAGGCATT
* *
199705140 CGTGCAAGTTGTTAA
66 CGTGCAAGTTATCAA
* * * * * *
199705155 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGCCT
1 ATCCGGGCTAAGACCCGAAGGCAATTGTGCAAATAGCT-ATATCCGGGCTAAGACCCGAAGGCAT
* **
199705219 TGGTGCGGGTTATCATA
65 TCGTGCAAGTTATCA-A
* * *
199705236 A-CCGGGCTATGTCCCGAAGGCGATTG
1 ATCCGGGCTAAGACCCGAAGGCAATTG
199705262 AACGAGTAGC
Statistics
Matches: 87, Mismatches: 18, Indels: 4
0.80 0.17 0.04
Matches are distributed among these distances:
79 1 0.01
80 84 0.97
81 2 0.02
ACGTcount: A:0.24, C:0.22, G:0.29, T:0.24
Consensus pattern (80 bp):
ATCCGGGCTAAGACCCGAAGGCAATTGTGCAAATAGCTATATCCGGGCTAAGACCCGAAGGCATT
CGTGCAAGTTATCAA
Found at i:199706778 original size:40 final size:40
Alignment explanation
Indices: 199706654--199706779 Score: 112
Period size: 40 Copynumber: 3.1 Consensus size: 40
199706644 GGGTGTTACA
* ** * **
199706654 ATCCGGGCTAA-ATCCCGAAGACAATTATGCTGGAAATTAT
1 ATCCGGGCTAAGA-CCCGAAGGCAATTGCGCTAGTGATTAT
* ** *
199706694 ATCCGGGTTAAGACCCGAAGGCAATTGCGCTAGTGGCTAC
1 ATCCGGGCTAAGACCCGAAGGCAATTGCGCTAGTGATTAT
* *
199706734 ATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTGATTAT
1 ATCCGGGCTAAGACCCGAAGGCAATTGCGCTA-GTGATTAT
199706774 ATCCGG
1 ATCCGG
199706780 TTATATTCCG
Statistics
Matches: 68, Mismatches: 16, Indels: 4
0.77 0.18 0.05
Matches are distributed among these distances:
39 1 0.01
40 66 0.97
41 1 0.01
ACGTcount: A:0.28, C:0.23, G:0.26, T:0.23
Consensus pattern (40 bp):
ATCCGGGCTAAGACCCGAAGGCAATTGCGCTAGTGATTAT
Found at i:199708887 original size:40 final size:40
Alignment explanation
Indices: 199708843--199709030 Score: 308
Period size: 40 Copynumber: 4.7 Consensus size: 40
199708833 GCTACTTGCT
199708843 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
199708883 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
199708923 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
* * * *
199708963 CAAATGCCTTTGGG-CTTAGCCCGG-AATTAGTCACTAGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTA-TAGTAACTCGCA
*
199709002 CAAATGCCTTCAGGACTTAGCCCGGTTAT
1 CAAATGCCTTCGGGACTTAGCCCGGTTAT
199709031 CATCCGAATA
Statistics
Matches: 138, Mismatches: 7, Indels: 6
0.91 0.05 0.04
Matches are distributed among these distances:
38 1 0.01
39 32 0.23
40 104 0.75
41 1 0.01
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
Found at i:199709029 original size:79 final size:80
Alignment explanation
Indices: 199708810--199709030 Score: 315
Period size: 80 Copynumber: 2.8 Consensus size: 80
199708800 AAACGAAGTA
* * * *
199708810 CCTTCGGAATTTAG-CCGGATATAGCT-ACTTGCTCAAATGCCTTCGGGACTTAGCCCGGTTATA
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTAGCACAAATGCCTTCGGGACTTAGCCCGGTTATA
199708873 GTAACTCGCACAAATG
65 GTAACTCGCACAAATG
* *
199708889 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGTTATAG
199708954 TAACTCGCACAAATG
66 TAACTCGCACAAATG
* * *
199708969 CCTTTGGG-CTTAGCCCGGA-ATTAGTCACTAGCACAAATGCCTTCAGGACTTAGCCCGGTTAT
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGTTAT
199709031 CATCCGAATA
Statistics
Matches: 129, Mismatches: 10, Indels: 6
0.89 0.07 0.04
Matches are distributed among these distances:
78 1 0.01
79 61 0.47
80 67 0.52
ACGTcount: A:0.24, C:0.27, G:0.22, T:0.27
Consensus pattern (80 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGTTATAG
TAACTCGCACAAATG
Found at i:199713919 original size:124 final size:122
Alignment explanation
Indices: 199713699--199713920 Score: 284
Period size: 124 Copynumber: 1.8 Consensus size: 122
199713689 GAATTATGTG
* * * *
199713699 GAATGAAATATGGATGTATTGATTATTGATTTATGTGTGTATGAGTATTCGAATAATACCCGGGC
1 GAATGAAATATGGATGTAATGATTATTGATGTATGTGTGCATGAGAATTCGAATAATACCCGGGC
* * * **
199713764 TAAGTCCCGAAGGCGATCATGCTAGTGATTATAATTGTGTTTGAGCCTTAGTAACGA
66 TAAGCCCCGAAGACAATCATGCTAGAAATTATAATTGTGTTTGAGCCTTAGTAACGA
* * *
199713821 GAATGAAATATGTATGTCCAATGATTATTGATGTATGTGTGCATGAGAAATT-GAATGATATCCG
1 GAATGAAATATGGATGT--AATGATTATTGATGTATGTGTGCATGAG-AATTCGAATAATACCCG
* *
199713885 GGCTAAGCCCCGAAGACAATTATGCTGGAAATTATA
63 GGCTAAGCCCCGAAGACAATCATGCTAGAAATTATA
199713921 TCCGGGTTAA
Statistics
Matches: 83, Mismatches: 14, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
122 16 0.19
124 64 0.77
125 3 0.04
ACGTcount: A:0.32, C:0.12, G:0.24, T:0.32
Consensus pattern (122 bp):
GAATGAAATATGGATGTAATGATTATTGATGTATGTGTGCATGAGAATTCGAATAATACCCGGGC
TAAGCCCCGAAGACAATCATGCTAGAAATTATAATTGTGTTTGAGCCTTAGTAACGA
Found at i:199713964 original size:40 final size:40
Alignment explanation
Indices: 199713879--199714029 Score: 141
Period size: 40 Copynumber: 3.8 Consensus size: 40
199713869 AATTGAATGA
* * * *
199713879 TATCCGGGCTAAGCCCCGAAGACAATTATGCTG-GAAATTA-
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC-GAGACA-TAC
* * *
199713919 TATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC-TAC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC--GAGACATAC
*
199713960 -ATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGACATTC
1 TATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGACATAC
*
199713999 TATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC
199714030 ACGTGGTTAT
Statistics
Matches: 92, Mismatches: 12, Indels: 14
0.78 0.10 0.12
Matches are distributed among these distances:
38 3 0.03
39 5 0.05
40 80 0.87
41 3 0.03
42 1 0.01
ACGTcount: A:0.26, C:0.25, G:0.27, T:0.22
Consensus pattern (40 bp):
TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGACATAC
Found at i:199714043 original size:40 final size:40
Alignment explanation
Indices: 199713916--199714045 Score: 154
Period size: 40 Copynumber: 3.2 Consensus size: 40
199713906 ATGCTGGAAA
* * *
199713916 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
* * * ***
199713956 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGACA
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
*
199713996 TTCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-GTGG
199714036 TTATATCCGG
1 TTATATCCGG
199714046 TTATATTCCG
Statistics
Matches: 72, Mismatches: 17, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
39 1 0.01
40 71 0.99
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.24
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
Found at i:199714044 original size:80 final size:80
Alignment explanation
Indices: 199713878--199714045 Score: 207
Period size: 80 Copynumber: 2.1 Consensus size: 80
199713868 AAATTGAATG
* *
199713878 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAATTATATCCGGGTTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTGGAAATTATATCCGGGCTAAGACCCGAAGGCA
199713943 ATTGTGCTAGTGGCT
66 ATTGTGCTAGTGGCT
* * * * *
199713958 ACATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGACATTCTATCCGGGCTAAGACCCGAAGG
1 ATATCCGGGCTAAGACCCGAAGACAATT-ATGCTG-GAAATTATATCCGGGCTAAGACCCGAAGG
* *
199714021 CATTTGTGC-ACGTGGTT
64 CAATTGTGCTA-GTGGCT
199714038 ATATCCGG
1 ATATCCGG
199714046 TTATATTCCG
Statistics
Matches: 75, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
79 5 0.07
80 70 0.93
ACGTcount: A:0.26, C:0.24, G:0.27, T:0.23
Consensus pattern (80 bp):
ATATCCGGGCTAAGACCCGAAGACAATTATGCTGGAAATTATATCCGGGCTAAGACCCGAAGGCA
ATTGTGCTAGTGGCT
Found at i:199726679 original size:40 final size:39
Alignment explanation
Indices: 199726634--199726763 Score: 163
Period size: 40 Copynumber: 3.3 Consensus size: 39
199726624 CGGAATACAA
199726634 CCGGATATAACCACGTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACGAATGCCTTCGGGTCTTAGC
* *
199726674 CCGGATAGAACGACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACGAATGCCTTCGGGTCTTAGC
* * * *
199726714 CCGGATGTAGCCGCTAGCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACT-GCACGAA-TGCCTTCGGGTCTTAGC
199726754 CCGGATATAA
1 CCGGATATAA
199726764 TTTCCAGCAT
Statistics
Matches: 77, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
39 3 0.04
40 74 0.96
ACGTcount: A:0.23, C:0.28, G:0.25, T:0.23
Consensus pattern (39 bp):
CCGGATATAACCACTGCACGAATGCCTTCGGGTCTTAGC
Found at i:199738932 original size:71 final size:71
Alignment explanation
Indices: 199738817--199738979 Score: 301
Period size: 71 Copynumber: 2.3 Consensus size: 71
199738807 CGATTTGTCT
199738817 CGTAGCTCTC-TGTCTACATGGTGTCCGTCACTTGGAATCACGCATGCGACCCAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCGTCACTTGGAATCACGCATGCGACCCAGCTACATTTAT
199738881 CTTTCA
66 CTTTCA
* *
199738887 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCGTCACTTGGAATCACGCATGCGACCCAGCTACATTTAT
199738952 CTTTCA
66 CTTTCA
199738958 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
199738980 GATACATCTC
Statistics
Matches: 90, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
70 10 0.11
71 80 0.89
ACGTcount: A:0.19, C:0.29, G:0.18, T:0.34
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCGTCACTTGGAATCACGCATGCGACCCAGCTACATTTAT
CTTTCA
Found at i:199739017 original size:71 final size:70
Alignment explanation
Indices: 199738817--199739013 Score: 240
Period size: 71 Copynumber: 2.8 Consensus size: 70
199738807 CGATTTGTCT
* * * * *
199738817 CGTAGCTCTC-TGTCTACATGGTGTCCGTCACTTGGAATCACGCATGCGACCCAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
199738881 CTTTCA
65 CTTTCA
* * * *
199738887 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
199738952 CTTTCA
65 CTTTCA
* *
199738958 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACACATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACACATGCGACCTAGCTAC
199739014 TACAGGGTGT
Statistics
Matches: 117, Mismatches: 8, Indels: 6
0.89 0.06 0.05
Matches are distributed among these distances:
68 22 0.19
69 1 0.01
70 11 0.09
71 83 0.71
ACGTcount: A:0.21, C:0.29, G:0.18, T:0.32
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACACATGCGACCTAGCTACATTTATC
TTTCA
Found at i:199740834 original size:3 final size:3
Alignment explanation
Indices: 199740828--199740868 Score: 50
Period size: 3 Copynumber: 13.7 Consensus size: 3
199740818 TTTCTTTGTA
199740828 TAT TAT TAT TA- TAT TAT TAT ATAT TAT TAT ATAT TA- TAT TA
1 TAT TAT TAT TAT TAT TAT TAT -TAT TAT TAT -TAT TAT TAT TA
199740869 CCTACATTTT
Statistics
Matches: 34, Mismatches: 0, Indels: 8
0.81 0.00 0.19
Matches are distributed among these distances:
2 4 0.12
3 24 0.71
4 6 0.18
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (3 bp):
TAT
Found at i:199740852 original size:10 final size:10
Alignment explanation
Indices: 199740826--199740864 Score: 69
Period size: 10 Copynumber: 3.8 Consensus size: 10
199740816 TTTTTCTTTG
199740826 TATATTATTA
1 TATATTATTA
199740836 TTATATTATTA
1 -TATATTATTA
199740847 TATATTATTA
1 TATATTATTA
199740857 TATATTAT
1 TATATTAT
199740865 ATTACCTACA
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
10 18 0.64
11 10 0.36
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (10 bp):
TATATTATTA
Found at i:199753071 original size:89 final size:87
Alignment explanation
Indices: 199752942--199753103 Score: 218
Period size: 89 Copynumber: 1.8 Consensus size: 87
199752932 ATTCGACGGA
* *
199752942 GAGCAGATCGAAGACATAGTAGATCTAACCTTCAGATGTTTTCACATCAAAGTAGATCCAAGATG
1 GAGCAGATCGAAGACATAGTAGATCTAACCTTCAGATGTTTACAC-T-AAAGCAGATCCAAGATG
199753007 ATTTGGCATCCTTGCGTTTACAAG
64 ATTTGGCATCCTTGCGTTTACAAG
* ** * * *
199753031 GAGCAGATCGAAGACATAGTAGATTTGGCTTTCACG-TGTTTACGCTAAAGCAGATCTAAGATGA
1 GAGCAGATCGAAGACATAGTAGATCTAACCTTCA-GATGTTTACACTAAAGCAGATCCAAGATGA
199753095 TTTGGCATC
65 TTTGGCATC
199753104 TCTATATTGT
Statistics
Matches: 64, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
87 25 0.39
88 1 0.02
89 37 0.58
90 1 0.02
ACGTcount: A:0.31, C:0.18, G:0.22, T:0.28
Consensus pattern (87 bp):
GAGCAGATCGAAGACATAGTAGATCTAACCTTCAGATGTTTACACTAAAGCAGATCCAAGATGAT
TTGGCATCCTTGCGTTTACAAG
Found at i:199753160 original size:130 final size:130
Alignment explanation
Indices: 199753006--199753273 Score: 394
Period size: 130 Copynumber: 2.1 Consensus size: 130
199752996 GATCCAAGAT
* * *
199753006 GATTTGGCATCCTTGCGTTTACAAGGAGCAGATCGAAGACATAGTAGATTTGGCTTTCACGTGTT
1 GATTTGGCATCCTTGCGTTTACAAGGAACAGATCGAAGACATAGCAGATTTGGCTTTAACGTGTT
*
199753071 TACGCTAAAGCAG-ATCTAAGATGATTTGGCATCTCTATATTGTCAGAGAACAAATCAAAGAAAC
66 TACGCTAAAG-AGAATCTAAGATGATTTGGCATCTCTATATTGTCAGAGAACAAAGCAAAGAAAC
199753135 A
130 A
* * *
199753136 GATTTGGCATCCTTGCGTTTACAAGGAACGGATGGAAGACATAGCAGCTTTGGCTTTAACGTGTT
1 GATTTGGCATCCTTGCGTTTACAAGGAACAGATCGAAGACATAGCAGATTTGGCTTTAACGTGTT
* * * * * *
199753201 TATGCTGAAGTGAATCTAAGATGATTTGGCATCTCTGTATTGTCAGGGAACAAAGCAAAGAAGCA
66 TACGCTAAAGAGAATCTAAGATGATTTGGCATCTCTATATTGTCAGAGAACAAAGCAAAGAAACA
*
199753266 AATTTGGC
1 GATTTGGC
199753274 GTCTCTGTGT
Statistics
Matches: 123, Mismatches: 14, Indels: 2
0.88 0.10 0.01
Matches are distributed among these distances:
129 1 0.01
130 122 0.99
ACGTcount: A:0.31, C:0.16, G:0.24, T:0.29
Consensus pattern (130 bp):
GATTTGGCATCCTTGCGTTTACAAGGAACAGATCGAAGACATAGCAGATTTGGCTTTAACGTGTT
TACGCTAAAGAGAATCTAAGATGATTTGGCATCTCTATATTGTCAGAGAACAAAGCAAAGAAACA
Found at i:199755408 original size:40 final size:39
Alignment explanation
Indices: 199755243--199755426 Score: 138
Period size: 40 Copynumber: 4.6 Consensus size: 39
199755233 AAATTGAATG
* * *
199755243 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
199755283 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
199755323 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
199755363 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
199755402 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
199755427 CTTGGTGCGG
Statistics
Matches: 113, Mismatches: 26, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
37 4 0.04
38 2 0.02
39 3 0.03
40 104 0.92
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
Found at i:199755451 original size:80 final size:81
Alignment explanation
Indices: 199755283--199755471 Score: 186
Period size: 80 Copynumber: 2.4 Consensus size: 81
199755273 GCTGGAAATT
* * * *
199755283 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
*
199755348 TTCGTGCGAGTCATTC
66 TTCGTGCGAGTCATCC
* * * * * *
199755364 -TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGC
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGC
* * * *
199755427 CTTGGTGCGGGTTA-CC
65 ATTCGTGCGAGTCATCC
* * *
199755443 ATAACCGGGCTATGTCCCGAAGGCGATTG
1 ATAACCGGGCTAAGACCCGAAGGCAATTG
199755472 ATCGAGTAGC
Statistics
Matches: 86, Mismatches: 20, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
79 2 0.02
80 84 0.98
ACGTcount: A:0.23, C:0.24, G:0.30, T:0.23
Consensus pattern (81 bp):
ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTCATCC
Found at i:199763521 original size:40 final size:39
Alignment explanation
Indices: 199763356--199763539 Score: 138
Period size: 40 Copynumber: 4.6 Consensus size: 39
199763346 AAATTGAATG
* * *
199763356 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
199763396 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
199763436 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
199763476 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
199763515 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
199763540 CTTGGTGCGG
Statistics
Matches: 113, Mismatches: 26, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
37 4 0.04
38 2 0.02
39 3 0.03
40 104 0.92
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
Found at i:199763564 original size:80 final size:81
Alignment explanation
Indices: 199763396--199763584 Score: 186
Period size: 80 Copynumber: 2.4 Consensus size: 81
199763386 GCTGGAAATT
* * * *
199763396 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
*
199763461 TTCGTGCGAGTCATTC
66 TTCGTGCGAGTCATCC
* * * * * *
199763477 -TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGC
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGC
* * * *
199763540 CTTGGTGCGGGTTA-CC
65 ATTCGTGCGAGTCATCC
* * *
199763556 ATAACCGGGCTATGTCCCGAAGGCGATTG
1 ATAACCGGGCTAAGACCCGAAGGCAATTG
199763585 ATCGAGTAGC
Statistics
Matches: 86, Mismatches: 20, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
79 2 0.02
80 84 0.98
ACGTcount: A:0.23, C:0.24, G:0.30, T:0.23
Consensus pattern (81 bp):
ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTCATCC
Found at i:199767056 original size:30 final size:30
Alignment explanation
Indices: 199767022--199767081 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
199767012 ATTTAATACG
199767022 AACTTTGGAAAAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
* * * *
199767052 AACTTTTGCATAATTACACTTTTTCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
199767082 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.30, C:0.25, G:0.07, T:0.38
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCCTA
Found at i:199772922 original size:46 final size:46
Alignment explanation
Indices: 199772855--199773026 Score: 208
Period size: 46 Copynumber: 3.7 Consensus size: 46
199772845 AACCCGCCCC
*
199772855 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCATCCA
*
199772901 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGG--G-C--GTTCGCATCCA
* * * *
199772949 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCATCCA
*
199772994 TAGGTGAACTCGGACTCAACTCAACGAGTTCGG
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGG
199773027 ATGCTCAACC
Statistics
Matches: 107, Mismatches: 10, Indels: 18
0.79 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 3 0.03
44 2 0.02
45 1 0.01
46 60 0.56
47 28 0.26
48 3 0.03
49 2 0.02
50 3 0.03
51 3 0.03
ACGTcount: A:0.28, C:0.28, G:0.22, T:0.22
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCATCCA
Found at i:199772967 original size:93 final size:93
Alignment explanation
Indices: 199772860--199773030 Score: 306
Period size: 93 Copynumber: 1.8 Consensus size: 93
199772850 GCCCCTAAGT
* *
199772860 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
199772925 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
* *
199772953 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAGGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
199773018 CGAGTTCGGATGC
66 CGAGTTCGGATGC
199773031 TCAACCATCC
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.27, C:0.29, G:0.22, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:199779537 original size:27 final size:28
Alignment explanation
Indices: 199779481--199779550 Score: 124
Period size: 27 Copynumber: 2.5 Consensus size: 28
199779471 AAATTCTTAC
199779481 AGCACTAAGTGTGCGAGTTTGATCATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
*
199779509 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
199779536 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
199779551 GACTCACTAT
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 24 0.59
28 17 0.41
ACGTcount: A:0.29, C:0.14, G:0.27, T:0.30
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATCATAT
Found at i:199779561 original size:27 final size:27
Alignment explanation
Indices: 199779481--199779562 Score: 78
Period size: 27 Copynumber: 3.0 Consensus size: 27
199779471 AAATTCTTAC
* *
199779481 AGCACTAAGTGTGCGAGTTTGA-TCATAT
1 AGCACTAAGTGTGCGAG-CTCACT-ATAT
* * *
199779509 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGCTCACTATAT
199779536 AGCACTAAGTGTGCG-GACTCACTATAT
1 AGCACTAAGTGTGCGAG-CTCACTATAT
199779563 GCTTTTGAAT
Statistics
Matches: 49, Mismatches: 3, Indels: 5
0.86 0.05 0.09
Matches are distributed among these distances:
26 1 0.02
27 30 0.61
28 18 0.37
ACGTcount: A:0.29, C:0.16, G:0.24, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGCTCACTATAT
Found at i:199783595 original size:46 final size:44
Alignment explanation
Indices: 199783531--199783650 Score: 152
Period size: 46 Copynumber: 2.7 Consensus size: 44
199783521 ATTGAGACGA
* * *
199783531 GTGCTAGTGTAAGACATGTCTGGGACATGCTTTGGCCT-CAAGAT
1 GTGCCAGTGTAAGACATGTCTGGGACATGCATCGG-CTACAAGAT
*
199783575 GTAAGCCAGTGTAAGACATGTCTGAGACATGCATCGGCTACAAGAT
1 GT--GCCAGTGTAAGACATGTCTGGGACATGCATCGGCTACAAGAT
*
199783621 GTGTCAGTGTAAGACCATGTCTGGGACATG
1 GTGCCAGTGTAAGA-CATGTCTGGGACATG
199783651 GCATACCCCA
Statistics
Matches: 66, Mismatches: 6, Indels: 7
0.84 0.08 0.09
Matches are distributed among these distances:
44 13 0.20
45 16 0.24
46 37 0.56
ACGTcount: A:0.27, C:0.18, G:0.29, T:0.26
Consensus pattern (44 bp):
GTGCCAGTGTAAGACATGTCTGGGACATGCATCGGCTACAAGAT
Found at i:199785479 original size:34 final size:35
Alignment explanation
Indices: 199785430--199785508 Score: 99
Period size: 34 Copynumber: 2.3 Consensus size: 35
199785420 GAATAGCACA
*
199785430 TTCAAAATAACTTCACATAAAACCGAATATAT-AAG
1 TTCAATATAACTTCACATAAAACCGAATA-ATCAAG
** *
199785465 TTCAATATAA-TTCACATGTAATCGAATAATCAAG
1 TTCAATATAACTTCACATAAAACCGAATAATCAAG
199785499 TTCAATATAA
1 TTCAATATAA
199785509 GCTTACCTAT
Statistics
Matches: 39, Mismatches: 4, Indels: 3
0.85 0.09 0.07
Matches are distributed among these distances:
33 2 0.05
34 28 0.72
35 9 0.23
ACGTcount: A:0.48, C:0.15, G:0.06, T:0.30
Consensus pattern (35 bp):
TTCAATATAACTTCACATAAAACCGAATAATCAAG
Found at i:199792336 original size:28 final size:28
Alignment explanation
Indices: 199792296--199792367 Score: 101
Period size: 29 Copynumber: 2.5 Consensus size: 28
199792286 AAAATTGTAC
* *
199792296 AGCACTAAGTGTGCGAGCTTG-ATTCTAT
1 AGCACTAAGTGTGCGAGC-TGAAATATAT
199792324 AGCACTAAGTGTGCGAGCTGAAAATATAT
1 AGCACTAAGTGTGCGAGCTG-AAATATAT
199792353 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
199792368 GATTCACTAT
Statistics
Matches: 40, Mismatches: 2, Indels: 3
0.89 0.04 0.07
Matches are distributed among these distances:
27 2 0.05
28 18 0.45
29 20 0.50
ACGTcount: A:0.31, C:0.17, G:0.26, T:0.26
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGCTGAAATATAT
Found at i:199803604 original size:66 final size:68
Alignment explanation
Indices: 199803528--199803714 Score: 281
Period size: 71 Copynumber: 2.7 Consensus size: 68
199803518 TAGTACCACT
*
199803528 CATGCGACCTAGC-CGATTTGTC-T-CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAAT
1 CATGCGACCTAGCAC-ATTTATCTTACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAAT
199803590 CACG
65 CACG
199803594 CATGCGACCTAGCTACATTTATCTTTCACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGA
1 CATGCGACCTAGC-ACATTTATC-TT-ACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGA
199803659 ATCACG
63 ATCACG
199803665 CATGCGACCTAGCTACATTTATCTTTCACGTAGCTCTCTTGTCTACATGG
1 CATGCGACCTAGC-ACATTTATC-TT-ACGTAGCTCTCTTGTCTACATGG
199803715 GATACATCTC
Statistics
Matches: 114, Mismatches: 1, Indels: 7
0.93 0.01 0.06
Matches are distributed among these distances:
66 13 0.11
67 6 0.05
68 1 0.01
69 1 0.01
71 93 0.82
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (68 bp):
CATGCGACCTAGCACATTTATCTTACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATC
ACG
Found at i:199803639 original size:71 final size:71
Alignment explanation
Indices: 199803551--199803714 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
199803541 CGATTTGTCT
199803551 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
199803616 CTTTCA
66 CTTTCA
199803622 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
199803687 CTTTCA
66 CTTTCA
199803693 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
199803715 GATACATCTC
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:199803752 original size:71 final size:70
Alignment explanation
Indices: 199803551--199803748 Score: 276
Period size: 71 Copynumber: 2.8 Consensus size: 70
199803541 CGATTTGTCT
* * *
199803551 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACGCATGCGACCTAGCTACATTTAT
199803616 CTTTCA
65 CTTTCA
* * *
199803622 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACGCATGCGACCTAGCTACATTTAT
199803687 CTTTCA
65 CTTTCA
* *
199803693 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACGCATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACGCATGCGACCTAGCTAC
199803749 TACAGGGTGT
Statistics
Matches: 121, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
68 23 0.19
69 1 0.01
70 1 0.01
71 96 0.79
ACGTcount: A:0.20, C:0.28, G:0.18, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACGCATGCGACCTAGCTACATTTATC
TTTCA
Found at i:199808885 original size:29 final size:28
Alignment explanation
Indices: 199808853--199808955 Score: 116
Period size: 29 Copynumber: 3.6 Consensus size: 28
199808843 GTGACGAGAT
* *
199808853 TGGCACTGAGTGTGCGAGCTTGTAATGTA
1 TGGCACTAAGTGTGCGAGCTTG-AATATA
* *
199808882 TGGCACTAAGTGTGCGAGTTTGGACTATA
1 TGGCACTAAGTGTGCGAGCTT-GAATATA
* * *
199808911 TGGCACTATGTGTGCGGGCTTGAATCACA
1 TGGCACTAAGTGTGCGAGCTTGAAT-ATA
199808940 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
199808956 TGATTGAGTA
Statistics
Matches: 62, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
28 3 0.05
29 58 0.94
30 1 0.02
ACGTcount: A:0.21, C:0.17, G:0.33, T:0.29
Consensus pattern (28 bp):
TGGCACTAAGTGTGCGAGCTTGAATATA
Found at i:199811287 original size:16 final size:16
Alignment explanation
Indices: 199811266--199811297 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
199811256 TGAGTACTTA
199811266 GTATTCTGTTGAATAT
1 GTATTCTGTTGAATAT
199811282 GTATTCTGTTGAATAT
1 GTATTCTGTTGAATAT
199811298 TCACGTTAGG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.25, C:0.06, G:0.19, T:0.50
Consensus pattern (16 bp):
GTATTCTGTTGAATAT
Found at i:199813348 original size:38 final size:38
Alignment explanation
Indices: 199813297--199813453 Score: 145
Period size: 38 Copynumber: 3.9 Consensus size: 38
199813287 TTTCAAATTA
* * *
199813297 ACATGTATAACCGTGGCATATCCTCTTAGCACCACGTT
1 ACATGTTTAACAGTGGCATATCCACTTAGCACCACGTT
* *
199813335 ACATGTTTAACCGTGGTATATCCACTTAGC-CCACGTTAAT
1 ACATGTTTAACAGTGGCATATCCACTTAGCACCACG-T--T
*
199813375 GAATCAATATATGTAACAGTGGCATATCCACTTAGCACCACGTT
1 --A-C-ATGT-T-TAACAGTGGCATATCCACTTAGCACCACGTT
* * *
199813419 ACATGTGTAATAGTGGTATATCCACTTAGCACCAC
1 ACATGTTTAACAGTGGCATATCCACTTAGCACCAC
199813454 ATTTTTTCAT
Statistics
Matches: 99, Mismatches: 10, Indels: 20
0.77 0.08 0.16
Matches are distributed among these distances:
37 5 0.05
38 54 0.55
40 4 0.04
41 1 0.01
42 2 0.02
43 1 0.01
44 4 0.04
45 1 0.01
46 22 0.22
47 5 0.05
ACGTcount: A:0.30, C:0.25, G:0.16, T:0.29
Consensus pattern (38 bp):
ACATGTTTAACAGTGGCATATCCACTTAGCACCACGTT
Found at i:199815717 original size:15 final size:15
Alignment explanation
Indices: 199815694--199815735 Score: 66
Period size: 15 Copynumber: 2.8 Consensus size: 15
199815684 GAAGCCTAGA
199815694 ATAAGGAAATCCAAG
1 ATAAGGAAATCCAAG
* *
199815709 ATAAAGAAATCCATG
1 ATAAGGAAATCCAAG
199815724 ATAAGGAAATCC
1 ATAAGGAAATCC
199815736 CATTTACAGT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.52, C:0.14, G:0.17, T:0.17
Consensus pattern (15 bp):
ATAAGGAAATCCAAG
Found at i:199816864 original size:18 final size:18
Alignment explanation
Indices: 199816830--199816863 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
199816820 AAACTTTCAT
199816830 CTTACACATCATCATATA
1 CTTACACATCATCATATA
199816848 CTTACA-ATCAT-ATATA
1 CTTACACATCATCATATA
199816864 TCAGTCCAAG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 5 0.31
17 5 0.31
18 6 0.38
ACGTcount: A:0.41, C:0.24, G:0.00, T:0.35
Consensus pattern (18 bp):
CTTACACATCATCATATA
Found at i:199828636 original size:40 final size:40
Alignment explanation
Indices: 199828581--199828748 Score: 196
Period size: 40 Copynumber: 4.2 Consensus size: 40
199828571 TGAATGATAC
* *
199828581 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
* *
199828621 CCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG-TTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAG-TGATTATAT
* * ** *
199828661 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTACCAAAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
* * * *
199828701 CCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
199828741 CC-GGCTAA
1 CCGGGCTAA
199828749 ATTCCGAAGA
Statistics
Matches: 106, Mismatches: 20, Indels: 5
0.81 0.15 0.04
Matches are distributed among these distances:
39 6 0.06
40 98 0.92
41 2 0.02
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
Found at i:199852475 original size:42 final size:42
Alignment explanation
Indices: 199852409--199852506 Score: 117
Period size: 42 Copynumber: 2.3 Consensus size: 42
199852399 ACTAAGACTA
** * *
199852409 TGTGTAAGACCATATTTGGAATATGGAATCTATATGAAACTT
1 TGTGTAAGACCATATTAAGAATATGGAATCGAGATGAAACTT
* *
199852451 TGTGTAAGACCATATCTAAG-ATATGGCATCGAGATGAGACTT
1 TGTGTAAGACCATAT-TAAGAATATGGAATCGAGATGAAACTT
*
199852493 CGTGTAAGACCATA
1 TGTGTAAGACCATA
199852507 GCTAGGCTAT
Statistics
Matches: 48, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
42 46 0.96
43 2 0.04
ACGTcount: A:0.35, C:0.13, G:0.21, T:0.31
Consensus pattern (42 bp):
TGTGTAAGACCATATTAAGAATATGGAATCGAGATGAAACTT
Found at i:199855538 original size:28 final size:28
Alignment explanation
Indices: 199855469--199855569 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
199855459 GACAAGATTG
* * * *
199855469 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTT--GATTATATA
199855499 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
199855527 GCACTAAGTGTGCGAG-TTGAATACATATA
1 GCACTAAGTGTGCGAGTTTG-AT-TATATA
199855556 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
199855570 GATTCACTAT
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 3 0.05
28 24 0.38
29 19 0.30
30 18 0.28
ACGTcount: A:0.30, C:0.14, G:0.27, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:199863461 original size:28 final size:28
Alignment explanation
Indices: 199863392--199863492 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
199863382 GACAAGATTG
* * * *
199863392 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTT--GATTATATA
199863422 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
199863450 GCACTAAGTGTGCGAG-TTGAATACATATA
1 GCACTAAGTGTGCGAGTTTG-AT-TATATA
199863479 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
199863493 GATTCACTAT
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 3 0.05
28 24 0.38
29 19 0.30
30 18 0.28
ACGTcount: A:0.30, C:0.14, G:0.27, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:199872104 original size:40 final size:40
Alignment explanation
Indices: 199872049--199872298 Score: 376
Period size: 40 Copynumber: 6.2 Consensus size: 40
199872039 AACATTGGAA
199872049 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
199872089 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
199872129 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
199872169 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * *
199872209 ATATATCCGGGCTAAGACCCGAAGGCCTTTGTGCAAG-TC
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * ** * * *
199872248 ACCAAATCCGGATTATGACCCGAAGGCAATCGTGCGAGTCG
1 A-TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
*
199872289 CTATATCCGG
1 ATATATCCGG
199872299 TTAAATCCCG
Statistics
Matches: 190, Mismatches: 18, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
39 2 0.01
40 188 0.99
ACGTcount: A:0.26, C:0.24, G:0.28, T:0.22
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
Found at i:199878049 original size:40 final size:40
Alignment explanation
Indices: 199878004--199878171 Score: 167
Period size: 40 Copynumber: 4.2 Consensus size: 40
199877994 CGGAATATAA
199878004 CCGGATATAACCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* *** * *
199878044 CCGGATAGAATGTCTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
* * *
199878084 CCGGATGTAACCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
*** * * * * *
199878124 CCGGATATAATTTCCAGCATAATTGTCTTCGGGGCTTAGC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
199878164 CCGGATAT
1 CCGGATAT
199878172 CATTCAATTT
Statistics
Matches: 104, Mismatches: 23, Indels: 2
0.81 0.18 0.02
Matches are distributed among these distances:
39 1 0.01
40 103 0.99
ACGTcount: A:0.23, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:199878154 original size:80 final size:80
Alignment explanation
Indices: 199878004--199878171 Score: 216
Period size: 80 Copynumber: 2.1 Consensus size: 80
199877994 CGGAATATAA
*
199878004 CCGGATATAACCACGTGCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTCGCACGAATG
1 CCGGATATAACCACGTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATG
*
199878069 CCTTCGGGTCTTAGC
66 CCTTCGGGGCTTAGC
* * * * *
199878084 CCGGATGTAACCAC-TAGCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAA
1 CCGGATATAACCACGT-GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTC-GCACGAA
*
199878146 TTGTCTTCGGGGCTTAGC
64 -TGCCTTCGGGGCTTAGC
199878164 CCGGATAT
1 CCGGATAT
199878172 CATTCAATTT
Statistics
Matches: 76, Mismatches: 9, Indels: 6
0.84 0.10 0.07
Matches are distributed among these distances:
79 4 0.05
80 72 0.95
ACGTcount: A:0.23, C:0.27, G:0.23, T:0.26
Consensus pattern (80 bp):
CCGGATATAACCACGTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATG
CCTTCGGGGCTTAGC
Found at i:199882361 original size:30 final size:30
Alignment explanation
Indices: 199882315--199882374 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
199882305 TTCCCGAGCC
199882315 TAGGGGAAAAAGTGTAATTATGCAAAAGTT
1 TAGGGGAAAAAGTGTAATTATGCAAAAGTT
* *
199882345 TAGGGGCAAAAA-TGTAATTTTGCCAAAGTT
1 TAGGGG-AAAAAGTGTAATTATGCAAAAGTT
199882375 CACATTAAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
30 22 0.81
31 5 0.19
ACGTcount: A:0.40, C:0.07, G:0.25, T:0.28
Consensus pattern (30 bp):
TAGGGGAAAAAGTGTAATTATGCAAAAGTT
Done.