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 555 of 770
Found at i:172765165 original size:123 final size:123
Alignment explanation
Indices: 172764946--172765284 Score: 597
Period size: 123 Copynumber: 2.8 Consensus size: 123
172764936 GGATATAATT
* * * * * * *
172764946 ACTAGCATAAATGTCTTCGGGACTTAGCCCGGGTATCATTCAATTGCTCATGCACACATAAATCA
1 ACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACATATATCA
*
172765011 ATAATCATTACACATCCATATTTCATTTTCGTTACTAAGGCTCGAACACAAACATATC
66 ATAATCATTACACATCCATATTTCATTTTCGTTACTAAGGCTCAAACACAAACATATC
172765069 ACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACATATATCA
1 ACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACATATATCA
172765134 ATAATCATTACACATCCATATTTCATTTTCGTTACTAAGGCTCAAACACAAACATATC
66 ATAATCATTACACATCCATATTTCATTTTCGTTACTAAGGCTCAAACACAAACATATC
*
172765192 ACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACATATGTCA
1 ACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACATATATCA
172765257 ATAATCATTACACATCCATATTTCATTT
66 ATAATCATTACACATCCATATTTCATTT
172765285 CACATAATTC
Statistics
Matches: 207, Mismatches: 9, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
123 207 1.00
ACGTcount: A:0.34, C:0.25, G:0.11, T:0.30
Consensus pattern (123 bp):
ACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACATATATCA
ATAATCATTACACATCCATATTTCATTTTCGTTACTAAGGCTCAAACACAAACATATC
Found at i:172768417 original size:41 final size:40
Alignment explanation
Indices: 172768360--172768538 Score: 207
Period size: 40 Copynumber: 4.5 Consensus size: 40
172768350 CGAATGGTAT
* * *
172768360 CCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACTAAAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAAA
* *
172768401 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACCAAAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAA
* * * *
172768441 CTGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAA
* * * * *
172768481 CCGGGCTAATTCCCGAAGGCAATTGTGCGAATCACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAA
172768521 CCGGGC-AATGTCCCGAAG
1 CCGGGCTAA-GTCCCGAAG
172768539 ACAATCGAGC
Statistics
Matches: 118, Mismatches: 19, Indels: 3
0.84 0.14 0.02
Matches are distributed among these distances:
39 2 0.02
40 90 0.76
41 26 0.22
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.23
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAA
Found at i:172771947 original size:143 final size:143
Alignment explanation
Indices: 172771691--172772123 Score: 812
Period size: 143 Copynumber: 3.0 Consensus size: 143
172771681 GCAAAGACCA
172771691 TATGGCACTATGTGTGCGATTCACTATGGCACTATGTGTGCGATTCACTATGGCACTATGTGTGC
1 TATGGCACTATGTGTGCGATTCACTATGGCACTATGTGTGCGATTCACTATGGCACTATGTGTGC
172771756 GATTCACTATGGCACTATGTGTGCGATTCACTATGGCACTATGTGTGCGATTCACTATGCACTAT
66 GATTCACTATGGCACTATGTGTGCGATTCACTATGGCACTATGTGTGCGATTCACTATGCACTAT
172771821 GTGTGCGATTTAC
131 GTGTGCGATTTAC
172771834 TATGGCACTATGTGTGCGATTCACTATGGCACTATGTGTGCGATTCACTATGGCACTATGTGTGC
1 TATGGCACTATGTGTGCGATTCACTATGGCACTATGTGTGCGATTCACTATGGCACTATGTGTGC
172771899 GATTCACTATGGCACTATGTGTGCGATTCACTATGGCACTATGTGTGCGATTCACTATGCACTAT
66 GATTCACTATGGCACTATGTGTGCGATTCACTATGGCACTATGTGTGCGATTCACTATGCACTAT
172771964 GTGTGCGATTTAC
131 GTGTGCGATTTAC
172771977 TATGGCACTATGTGTGCGATTCACTATGGCACTATGTGTGCGATTCACTATGGCACTATGTGTGC
1 TATGGCACTATGTGTGCGATTCACTATGGCACTATGTGTGCGATTCACTATGGCACTATGTGTGC
* * **
172772042 GATTTACTATGGCACTATGTGTGCGATTTACTATGGCACTATGTGTGCGATTTGCTATAGCACTA
66 GATTCACTATGGCACTATGTGTGCGATTCACTATGGCACTATGTGTGCGATTCACTAT-GCACTA
*
172772107 TGTGTGCGATTTGC
130 TGTGTGCGATTTAC
172772121 TAT
1 TAT
172772124 AGTCACATTC
Statistics
Matches: 284, Mismatches: 5, Indels: 1
0.98 0.02 0.00
Matches are distributed among these distances:
143 262 0.92
144 22 0.08
ACGTcount: A:0.21, C:0.19, G:0.25, T:0.35
Consensus pattern (143 bp):
TATGGCACTATGTGTGCGATTCACTATGGCACTATGTGTGCGATTCACTATGGCACTATGTGTGC
GATTCACTATGGCACTATGTGTGCGATTCACTATGGCACTATGTGTGCGATTCACTATGCACTAT
GTGTGCGATTTAC
Found at i:172772125 original size:24 final size:24
Alignment explanation
Indices: 172771691--172772117 Score: 777
Period size: 24 Copynumber: 17.9 Consensus size: 24
172771681 GCAAAGACCA
172771691 TATGGCACTATGTGTGCGATTCAC
1 TATGGCACTATGTGTGCGATTCAC
172771715 TATGGCACTATGTGTGCGATTCAC
1 TATGGCACTATGTGTGCGATTCAC
172771739 TATGGCACTATGTGTGCGATTCAC
1 TATGGCACTATGTGTGCGATTCAC
172771763 TATGGCACTATGTGTGCGATTCAC
1 TATGGCACTATGTGTGCGATTCAC
172771787 TATGGCACTATGTGTGCGATTCAC
1 TATGGCACTATGTGTGCGATTCAC
*
172771811 TAT-GCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTCAC
172771834 TATGGCACTATGTGTGCGATTCAC
1 TATGGCACTATGTGTGCGATTCAC
172771858 TATGGCACTATGTGTGCGATTCAC
1 TATGGCACTATGTGTGCGATTCAC
172771882 TATGGCACTATGTGTGCGATTCAC
1 TATGGCACTATGTGTGCGATTCAC
172771906 TATGGCACTATGTGTGCGATTCAC
1 TATGGCACTATGTGTGCGATTCAC
172771930 TATGGCACTATGTGTGCGATTCAC
1 TATGGCACTATGTGTGCGATTCAC
*
172771954 TAT-GCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTCAC
172771977 TATGGCACTATGTGTGCGATTCAC
1 TATGGCACTATGTGTGCGATTCAC
172772001 TATGGCACTATGTGTGCGATTCAC
1 TATGGCACTATGTGTGCGATTCAC
*
172772025 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTCAC
*
172772049 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTCAC
**
172772073 TATGGCACTATGTGTGCGATTTGC
1 TATGGCACTATGTGTGCGATTCAC
*
172772097 TATAGCACTATGTGTGCGATT
1 TATGGCACTATGTGTGCGATT
172772118 TGCTATAGTC
Statistics
Matches: 394, Mismatches: 7, Indels: 4
0.97 0.02 0.01
Matches are distributed among these distances:
23 44 0.11
24 350 0.89
ACGTcount: A:0.21, C:0.19, G:0.25, T:0.35
Consensus pattern (24 bp):
TATGGCACTATGTGTGCGATTCAC
Found at i:172780326 original size:24 final size:24
Alignment explanation
Indices: 172779891--172780318 Score: 777
Period size: 24 Copynumber: 17.9 Consensus size: 24
172779881 GCAAAGACCA
172779891 TATGGCACTATGTGTGCGATTCAC
1 TATGGCACTATGTGTGCGATTCAC
172779915 TATGGCACTATGTGTGCGATTCAC
1 TATGGCACTATGTGTGCGATTCAC
172779939 TATGGCACTATGTGTGCGATTCAC
1 TATGGCACTATGTGTGCGATTCAC
172779963 TATGGCACTATGTGTGCGATTCAC
1 TATGGCACTATGTGTGCGATTCAC
172779987 TATGGCACTATGTGTGCGATTCAC
1 TATGGCACTATGTGTGCGATTCAC
*
172780011 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTCAC
172780035 TATGGCACTATGTGTGCGATTCAC
1 TATGGCACTATGTGTGCGATTCAC
172780059 TATGGCACTATGTGTGCGATTCAC
1 TATGGCACTATGTGTGCGATTCAC
172780083 TATGGCACTATGTGTGCGATTCAC
1 TATGGCACTATGTGTGCGATTCAC
*
172780107 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTCAC
172780131 TATGGCACTATGTGTGCGATTCAC
1 TATGGCACTATGTGTGCGATTCAC
*
172780155 TAT-GCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTCAC
172780178 TATGGCACTATGTGTGCGATTCAC
1 TATGGCACTATGTGTGCGATTCAC
172780202 TATGGCACTATGTGTGCGATTCAC
1 TATGGCACTATGTGTGCGATTCAC
*
172780226 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTCAC
*
172780250 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTCAC
**
172780274 TATGGCACTATGTGTGCGATTTGC
1 TATGGCACTATGTGTGCGATTCAC
*
172780298 TATAGCACTATGTGTGCGATT
1 TATGGCACTATGTGTGCGATT
172780319 TGCTATAGTC
Statistics
Matches: 394, Mismatches: 9, Indels: 2
0.97 0.02 0.00
Matches are distributed among these distances:
23 22 0.06
24 372 0.94
ACGTcount: A:0.21, C:0.19, G:0.25, T:0.35
Consensus pattern (24 bp):
TATGGCACTATGTGTGCGATTCAC
Found at i:172784201 original size:24 final size:24
Alignment explanation
Indices: 172784174--172784227 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 24
172784164 TCATTATTTA
* *
172784174 TTGCTCACAATATTTCACATTTTG
1 TTGCCCACAATATCTCACATTTTG
* *
172784198 TTGCCCACGATATCTCTCATTTTG
1 TTGCCCACAATATCTCACATTTTG
172784222 TGTGCC
1 T-TGCC
172784228 TTTAGATATC
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
24 21 0.84
25 4 0.16
ACGTcount: A:0.19, C:0.26, G:0.13, T:0.43
Consensus pattern (24 bp):
TTGCCCACAATATCTCACATTTTG
Found at i:172785373 original size:40 final size:40
Alignment explanation
Indices: 172785294--172785373 Score: 92
Period size: 40 Copynumber: 2.0 Consensus size: 40
172785284 ATAGGGGTTT
* * *
172785294 TCACATGGCCTGACACATGCCCGTGTCATGGCCCGTGTCTC
1 TCACACGGCCTGACACA-GCCCGTGTCATAGCCCATGTCTC
172785335 TCACACGGCCATGACACA-CCCGTGTGC-TAGCCCATGTCT
1 TCACACGGCC-TGACACAGCCCGTGT-CATAGCCCATGTCT
172785374 AAAAATCTTG
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
40 17 0.50
41 10 0.29
42 7 0.21
ACGTcount: A:0.17, C:0.38, G:0.23, T:0.23
Consensus pattern (40 bp):
TCACACGGCCTGACACAGCCCGTGTCATAGCCCATGTCTC
Found at i:172786753 original size:68 final size:70
Alignment explanation
Indices: 172786681--172786878 Score: 294
Period size: 71 Copynumber: 2.8 Consensus size: 70
172786671 ACACCCTGTA
* * * *
172786681 GTAGCTAGGTCACATGCGTGATA-CGAGATGTA-TC-CCATGTAGACAAGAGAGCTACGTGAAAG
1 GTAGCTAGGTCGCATGCGTGATACCAAG-TGAAGACACCATGTAGACAAGAGAGCTACGTGAAAG
172786743 ATAAAT
65 ATAAAT
*
172786749 GTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGTGAAAG
1 GTAGCTAGGTCGCATGCGTGATACCAAGTGAA-GACACCATGTAGACAAGAGAGCTACGTGAAAG
172786814 ATAAAT
65 ATAAAT
*
172786820 GTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACG
1 GTAGCTAGGTCGCATGCGTGATACCAAGTGAA-GACACCATGTAGACAAGAGAGCTACG
172786879 AGACAAATCG
Statistics
Matches: 121, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
68 24 0.20
69 3 0.02
70 1 0.01
71 93 0.77
ACGTcount: A:0.34, C:0.18, G:0.28, T:0.20
Consensus pattern (70 bp):
GTAGCTAGGTCGCATGCGTGATACCAAGTGAAGACACCATGTAGACAAGAGAGCTACGTGAAAGA
TAAAT
Found at i:172786792 original size:41 final size:41
Alignment explanation
Indices: 172786747--172786864 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
172786737 TGAAAGATAA
172786747 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
172786788 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
172786818 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
172786859 ATGTAG
1 ATGTAG
172786865 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:172786804 original size:71 final size:71
Alignment explanation
Indices: 172786715--172786878 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
172786705 GAGATGTATC
172786715 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
172786780 AGGACA
66 AGGACA
172786786 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
172786851 AGGACA
66 AGGACA
172786857 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
172786879 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:172794319 original size:68 final size:70
Alignment explanation
Indices: 172794247--172794444 Score: 294
Period size: 71 Copynumber: 2.8 Consensus size: 70
172794237 ACACCCTGTA
* * * *
172794247 GTAGCTAGGTCACATGCGTGATA-CGAGATGTA-TC-CCATGTAGACAAGAGAGCTACGTGAAAG
1 GTAGCTAGGTCGCATGCGTGATACCAAG-TGAAGACACCATGTAGACAAGAGAGCTACGTGAAAG
172794309 ATAAAT
65 ATAAAT
*
172794315 GTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGTGAAAG
1 GTAGCTAGGTCGCATGCGTGATACCAAGTGAA-GACACCATGTAGACAAGAGAGCTACGTGAAAG
172794380 ATAAAT
65 ATAAAT
*
172794386 GTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACG
1 GTAGCTAGGTCGCATGCGTGATACCAAGTGAA-GACACCATGTAGACAAGAGAGCTACG
172794445 AGACAAATCG
Statistics
Matches: 121, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
68 24 0.20
69 3 0.02
70 1 0.01
71 93 0.77
ACGTcount: A:0.34, C:0.18, G:0.28, T:0.20
Consensus pattern (70 bp):
GTAGCTAGGTCGCATGCGTGATACCAAGTGAAGACACCATGTAGACAAGAGAGCTACGTGAAAGA
TAAAT
Found at i:172794358 original size:41 final size:41
Alignment explanation
Indices: 172794313--172794430 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
172794303 TGAAAGATAA
172794313 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
172794354 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
172794384 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
172794425 ATGTAG
1 ATGTAG
172794431 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:172794370 original size:71 final size:71
Alignment explanation
Indices: 172794281--172794444 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
172794271 GAGATGTATC
172794281 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
172794346 AGGACA
66 AGGACA
172794352 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
172794417 AGGACA
66 AGGACA
172794423 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
172794445 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:172796794 original size:49 final size:49
Alignment explanation
Indices: 172796679--172796891 Score: 199
Period size: 49 Copynumber: 4.4 Consensus size: 49
172796669 TAATGCTGAT
** * *
172796679 GCCATGTCCCAGACATGGTCTTACACTGGTTCAT-C-CATC-ATGTCGAC
1 GCCATGTCCCAGACATGGTCTTACACTGACT-ATACAAATCGATGCCGAC
* *
172796726 GCCATGTCCCAGACATGGTCTTACACTGACTATAGAAATCGAGGCCGAC
1 GCCATGTCCCAGACATGGTCTTACACTGACTATACAAATCGATGCCGAC
* *
172796775 GCCATGTCCCAGACATGGTCTTACACT-AGCTCATACATATCCG-TGCCGAT
1 GCCATGTCCCAGACATGGTCTTACACTGA-CT-ATACAAAT-CGATGCCGAC
* * * * *
172796825 GTCATGTCCCAGATATGGTCTTACACTGAC-ACTTC-TATAC-ATGCCGAT
1 GCCATGTCCCAGACATGGTCTTACACTGACTA-TACAAAT-CGATGCCGAC
172796873 GCCATGTCCCAGACATGGT
1 GCCATGTCCCAGACATGGT
172796892 TTTCCATTGA
Statistics
Matches: 141, Mismatches: 16, Indels: 17
0.81 0.09 0.10
Matches are distributed among these distances:
46 2 0.01
47 29 0.21
48 33 0.23
49 37 0.26
50 37 0.26
51 3 0.02
ACGTcount: A:0.24, C:0.30, G:0.20, T:0.26
Consensus pattern (49 bp):
GCCATGTCCCAGACATGGTCTTACACTGACTATACAAATCGATGCCGAC
Found at i:172796844 original size:50 final size:48
Alignment explanation
Indices: 172796679--172796891 Score: 204
Period size: 50 Copynumber: 4.4 Consensus size: 48
172796669 TAATGCTGAT
* *
172796679 GCCATGTCCCAGACATGGTCTTACACTGGTTCATCCATCAT-GT--CGAC
1 GCCATGTCCCAGACATGGTCTTACACT-GCTCATACAT-ATCGTGCCGAC
* * *
172796726 GCCATGTCCCAGACATGGTCTTACACTGACT-ATAGAAATCGAGGCCGAC
1 GCCATGTCCCAGACATGGTCTTACACTG-CTCATACATATCG-TGCCGAC
*
172796775 GCCATGTCCCAGACATGGTCTTACACTAGCTCATACATATCCGTGCCGAT
1 GCCATGTCCCAGACATGGTCTTACACT-GCTCATACATAT-CGTGCCGAC
* * * * * *
172796825 GTCATGTCCCAGATATGGTCTTACACTG-ACACTTC-TATACATGCCGAT
1 GCCATGTCCCAGACATGGTCTTACACTGCTCA-TACATAT-CGTGCCGAC
172796873 GCCATGTCCCAGACATGGT
1 GCCATGTCCCAGACATGGT
172796892 TTTCCATTGA
Statistics
Matches: 140, Mismatches: 17, Indels: 17
0.80 0.10 0.10
Matches are distributed among these distances:
45 2 0.01
46 5 0.04
47 28 0.20
48 30 0.21
49 36 0.26
50 37 0.26
51 2 0.01
ACGTcount: A:0.24, C:0.30, G:0.20, T:0.26
Consensus pattern (48 bp):
GCCATGTCCCAGACATGGTCTTACACTGCTCATACATATCGTGCCGAC
Found at i:172796854 original size:99 final size:96
Alignment explanation
Indices: 172796679--172796854 Score: 255
Period size: 96 Copynumber: 1.8 Consensus size: 96
172796669 TAATGCTGAT
* * *
172796679 GCCATGTCCCAGACATGGTCTTACACTGGTTCATCCATCATGTCGACGCCATGTCCCAGACATGG
1 GCCATGTCCCAGACATGGTCTTACACTAGCTCATACATCATGTCGACGCCATGTCCCAGACATGG
172796744 TCTTACACTGACTATAGAAATCGAGGCCGAC
66 TCTTACACTGACTATAGAAATCGAGGCCGAC
* * *
172796775 GCCATGTCCCAGACATGGTCTTACACTAGCTCATACAT-ATCCGTGCCGATGTCATGTCCCAGAT
1 GCCATGTCCCAGACATGGTCTTACACTAGCTCATACATCAT--GT--CGACGCCATGTCCCAGAC
172796839 ATGGTCTTACACTGAC
62 ATGGTCTTACACTGAC
172796855 ACTTCTATAC
Statistics
Matches: 70, Mismatches: 6, Indels: 5
0.86 0.07 0.06
Matches are distributed among these distances:
95 2 0.03
96 35 0.50
97 2 0.03
99 31 0.44
ACGTcount: A:0.24, C:0.30, G:0.20, T:0.26
Consensus pattern (96 bp):
GCCATGTCCCAGACATGGTCTTACACTAGCTCATACATCATGTCGACGCCATGTCCCAGACATGG
TCTTACACTGACTATAGAAATCGAGGCCGAC
Found at i:172796891 original size:48 final size:48
Alignment explanation
Indices: 172796667--172796944 Score: 198
Period size: 48 Copynumber: 5.9 Consensus size: 48
172796657 CAACATAGGG
* *** *
172796667 TATA-ATGCTGATGCCATGTCCCAGACATGGTCTTACACTGGTTCATC
1 TATACATGCCGATGCCATGTCCCAGACATGGTCTTACACTGACACTTC
* * * *
172796714 CAT-CATGTCGACGCCATGTCCCAGACATGGTCTTACACTG--ACTATA
1 TATACATGCCGATGCCATGTCCCAGACATGGTCTTACACTGACACT-TC
* * * * * *
172796760 GAAATCGAGGCCGACGCCATGTCCCAGACATGGTCTTACACT-AGCTCATAC
1 TATA-C-ATGCCGATGCCATGTCCCAGACATGGTCTTACACTGA-CAC-TTC
* * * *
172796811 ATATCCGTGCCGATGTCATGTCCCAGATATGGTCTTACACTGACACTTC
1 -TATACATGCCGATGCCATGTCCCAGACATGGTCTTACACTGACACTTC
* * * *
172796860 TATACATGCCGATGCCATGTCCCAGACATGGTTTTCCATTGACACATC
1 TATACATGCCGATGCCATGTCCCAGACATGGTCTTACACTGACACTTC
* *
172796908 --T-CGTAGCCGATG-CATGTCCCAAACAT-GTCTTACACTG
1 TATACAT-GCCGATGCCATGTCCCAGACATGGTCTTACACTG
172796945 GCTTACATCT
Statistics
Matches: 182, Mismatches: 37, Indels: 27
0.74 0.15 0.11
Matches are distributed among these distances:
44 8 0.04
45 16 0.09
46 10 0.05
47 35 0.19
48 41 0.23
49 35 0.19
50 32 0.18
51 3 0.02
52 2 0.01
ACGTcount: A:0.25, C:0.29, G:0.19, T:0.27
Consensus pattern (48 bp):
TATACATGCCGATGCCATGTCCCAGACATGGTCTTACACTGACACTTC
Found at i:172796953 original size:46 final size:47
Alignment explanation
Indices: 172796903--172797086 Score: 132
Period size: 46 Copynumber: 4.0 Consensus size: 47
172796893 TTCCATTGAC
*
172796903 ACATCTCGTA-GCCGATGCATGTCCCAAACATGTCTTACACTGGCTT
1 ACATCTCGTAGGCCGATGCATGTCCCAAACATGTCTTACACTAGCTT
* * ** *
172796949 ACATCTCG-AGGCCAATACATGTCATAGACATGTCTTACACTAG-TT
1 ACATCTCGTAGGCCGATGCATGTCCCAAACATGTCTTACACTAGCTT
* * * * *
172796994 CTCGTCTC-AATGCCGATGCCATGTCTCGAAA-ATAGTCTTACACTAGCTCT
1 -ACATCTCGTAGGCCGATG-CATGTC-CCAAACAT-GTCTTACACTAGCT-T
* * *
172797044 -TATAAT-GT-GGCCGATGCATGTCCCAGACATGTCTTACACTAGC
1 ACAT-CTCGTAGGCCGATGCATGTCCCAAACATGTCTTACACTAGC
172797087 ACACAATATC
Statistics
Matches: 106, Mismatches: 21, Indels: 22
0.71 0.14 0.15
Matches are distributed among these distances:
45 3 0.03
46 62 0.58
47 16 0.15
48 22 0.21
49 2 0.02
50 1 0.01
ACGTcount: A:0.26, C:0.28, G:0.17, T:0.29
Consensus pattern (47 bp):
ACATCTCGTAGGCCGATGCATGTCCCAAACATGTCTTACACTAGCTT
Found at i:172799072 original size:2 final size:2
Alignment explanation
Indices: 172799065--172799092 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
172799055 GCATACATAC
172799065 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
172799093 GCTTACAACC
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:172805304 original size:38 final size:38
Alignment explanation
Indices: 172805252--172805341 Score: 171
Period size: 38 Copynumber: 2.4 Consensus size: 38
172805242 AACATAGACA
172805252 TGTATGTTCGGCCACATGAATGAGTATATGAGTTGATG
1 TGTATGTTCGGCCACATGAATGAGTATATGAGTTGATG
*
172805290 TGTATGTTCAGCCACATGAATGAGTATATGAGTTGATG
1 TGTATGTTCGGCCACATGAATGAGTATATGAGTTGATG
172805328 TGTATGTTCGGCCA
1 TGTATGTTCGGCCA
172805342 TAGGTAGCCT
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
38 50 1.00
ACGTcount: A:0.26, C:0.12, G:0.28, T:0.34
Consensus pattern (38 bp):
TGTATGTTCGGCCACATGAATGAGTATATGAGTTGATG
Found at i:172806130 original size:40 final size:40
Alignment explanation
Indices: 172805938--172806123 Score: 225
Period size: 40 Copynumber: 4.7 Consensus size: 40
172805928 TCGAATGATG
* * * *
172805938 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
** *
172805978 TCCGGACTAAGAT-CTGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
172806018 TCCGGGTTAAGTCCCAAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
172806058 TCTGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
* *
172806099 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGTTAAGTCCCGAAGGCATTTG
172806124 AACGAGTAGC
Statistics
Matches: 128, Mismatches: 14, Indels: 8
0.85 0.09 0.05
Matches are distributed among these distances:
39 1 0.01
40 117 0.91
41 10 0.08
ACGTcount: A:0.25, C:0.20, G:0.27, T:0.28
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:172815014 original size:40 final size:40
Alignment explanation
Indices: 172814959--172815201 Score: 393
Period size: 40 Copynumber: 6.1 Consensus size: 40
172814949 ACTAAAATCT
172814959 GAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCCC
1 GAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCCC
* * *
172814999 GAAGGTATTTGTGCTAGTTACTATATCCGGGTTAAGTCCC
1 GAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCCC
172815039 GAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCCC
1 GAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCCC
*
172815079 GAAGGCATTTGTGCTAGTTACTATATCCGGGCTAAGTCCC
1 GAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCCC
*
172815119 GAAGGCATTTGTGCTAGT-ATTATATCCGGGCTAAGTCCC
1 GAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCCC
* *
172815158 GAAGGCATTTGTGCGAGTTG-CTATATCC-GGCTAAATCCC
1 GAAGGCATTTGTGCTAG-TGACTATATCCGGGCTAAGTCCC
172815197 GAAGG
1 GAAGG
172815202 TACTTGGGTT
Statistics
Matches: 190, Mismatches: 11, Indels: 5
0.92 0.05 0.02
Matches are distributed among these distances:
39 51 0.27
40 139 0.73
ACGTcount: A:0.23, C:0.21, G:0.27, T:0.29
Consensus pattern (40 bp):
GAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCCC
Found at i:172821710 original size:12 final size:12
Alignment explanation
Indices: 172821695--172821719 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
172821685 CATATTATAA
172821695 ATATTTTGTGTT
1 ATATTTTGTGTT
172821707 ATATTTTGTGTT
1 ATATTTTGTGTT
172821719 A
1 A
172821720 AAAATAAAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.20, C:0.00, G:0.16, T:0.64
Consensus pattern (12 bp):
ATATTTTGTGTT
Found at i:172823182 original size:40 final size:40
Alignment explanation
Indices: 172823134--172823378 Score: 415
Period size: 40 Copynumber: 6.2 Consensus size: 40
172823124 GGACTAAGAT
172823134 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
*
172823174 CCGAAGGCATTTGTGCTAGTTACTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
172823214 CCGAAGGCATTTGTGCTAGT-ACTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
*
172823253 CCGAAGGCATTTGTGCTAGTTACTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
*
172823293 CCGAAGGCATTTGTGCTAGTGATTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
* *
172823333 CCGAAGGCATTTGTGCGAGTTG-CTATATCC-GGCTAAATC
1 CCGAAGGCATTTGTGCTAG-TGACTATATCCGGGCTAAGTC
172823372 CCGAAGG
1 CCGAAGG
172823379 TACTTGGGTT
Statistics
Matches: 197, Mismatches: 6, Indels: 5
0.95 0.03 0.02
Matches are distributed among these distances:
39 54 0.27
40 141 0.72
41 2 0.01
ACGTcount: A:0.23, C:0.22, G:0.27, T:0.28
Consensus pattern (40 bp):
CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
Found at i:172823259 original size:79 final size:80
Alignment explanation
Indices: 172823134--172823378 Score: 440
Period size: 79 Copynumber: 3.1 Consensus size: 80
172823124 GGACTAAGAT
172823134 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTTACTA
1 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTTACTA
172823199 TATCCGGGCTAAGTC
66 TATCCGGGCTAAGTC
172823214 CCGAAGGCATTTGTGCTAGT-ACTATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTTACTA
1 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTTACTA
172823278 TATCCGGGCTAAGTC
66 TATCCGGGCTAAGTC
* * *
172823293 CCGAAGGCATTTGTGCTAGTGATTATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTGCTA
1 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTTACTA
*
172823358 TATCC-GGCTAAATC
66 TATCCGGGCTAAGTC
172823372 CCGAAGG
1 CCGAAGG
172823379 TACTTGGGTT
Statistics
Matches: 160, Mismatches: 4, Indels: 3
0.96 0.02 0.02
Matches are distributed among these distances:
79 94 0.59
80 66 0.41
ACGTcount: A:0.23, C:0.22, G:0.27, T:0.28
Consensus pattern (80 bp):
CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTTACTA
TATCCGGGCTAAGTC
Found at i:172823338 original size:119 final size:119
Alignment explanation
Indices: 172823134--172823378 Score: 420
Period size: 119 Copynumber: 2.1 Consensus size: 119
172823124 GGACTAAGAT
*
172823134 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTTACTA
1 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA
* *
172823199 TATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAG-TACTATATCCGGGCTAAGTC
66 TATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC-GGCTAAATC
* *
172823253 CCGAAGGCATTTGTGCTAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGATTA
1 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA
*
172823318 TATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTGCTATATCCGGCTAAATC
66 TATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGCTAAATC
172823372 CCGAAGG
1 CCGAAGG
172823379 TACTTGGGTT
Statistics
Matches: 119, Mismatches: 6, Indels: 2
0.94 0.05 0.02
Matches are distributed among these distances:
119 110 0.92
120 9 0.08
ACGTcount: A:0.23, C:0.22, G:0.27, T:0.28
Consensus pattern (119 bp):
CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA
TATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGCTAAATC
Found at i:172827329 original size:29 final size:27
Alignment explanation
Indices: 172827295--172827397 Score: 98
Period size: 29 Copynumber: 3.6 Consensus size: 27
172827285 TACTCAATCA
*
172827295 CGCACACTTAGTGCCATGTGATTCAAGCC
1 CGCACACTTAGTGCCAT-T-ATTCAAGCT
* * *
172827324 CGCACACATAGTGCCATATAGTCCAAACT
1 CGCACACTTAGTGCCAT-TA-TTCAAGCT
*
172827353 CGCACACTTAGTGCCATACATTACAAGCT
1 CGCACACTTAGTGCCAT-TATT-CAAGCT
*
172827382 CGCACACTCAGTGCCA
1 CGCACACTTAGTGCCA
172827398 ATCTCGTCAC
Statistics
Matches: 62, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
28 2 0.03
29 60 0.97
ACGTcount: A:0.29, C:0.33, G:0.17, T:0.21
Consensus pattern (27 bp):
CGCACACTTAGTGCCATTATTCAAGCT
Found at i:172835112 original size:29 final size:27
Alignment explanation
Indices: 172835078--172835180 Score: 98
Period size: 29 Copynumber: 3.6 Consensus size: 27
172835068 TACTCAATCA
*
172835078 CGCACACTTAGTGCCATGTGATTCAAGCC
1 CGCACACTTAGTGCCAT-T-ATTCAAGCT
* * *
172835107 CGCACACATAGTGCCATATAGTCCAAACT
1 CGCACACTTAGTGCCAT-TA-TTCAAGCT
*
172835136 CGCACACTTAGTGCCATACATTACAAGCT
1 CGCACACTTAGTGCCAT-TATT-CAAGCT
*
172835165 CGCACACTCAGTGCCA
1 CGCACACTTAGTGCCA
172835181 ATCTCGTCAC
Statistics
Matches: 62, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
28 2 0.03
29 60 0.97
ACGTcount: A:0.29, C:0.33, G:0.17, T:0.21
Consensus pattern (27 bp):
CGCACACTTAGTGCCATTATTCAAGCT
Found at i:172845516 original size:11 final size:11
Alignment explanation
Indices: 172845480--172845535 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 11
172845470 CATGGTATGT
172845480 ATGATATGCAC
1 ATGATATGCAC
* *
172845491 ATGACATG--T
1 ATGATATGCAC
172845500 ATGATATGCAC
1 ATGATATGCAC
*
172845511 ATGATATG--T
1 ATGATATGCAC
172845520 ATGATATGCAC
1 ATGATATGCAC
172845531 ATGAT
1 ATGAT
172845536 GTATTCGTAA
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
9 15 0.43
11 20 0.57
ACGTcount: A:0.36, C:0.12, G:0.20, T:0.32
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:172845535 original size:20 final size:20
Alignment explanation
Indices: 172845469--172845535 Score: 116
Period size: 20 Copynumber: 3.4 Consensus size: 20
172845459 ATTTTGATAA
*
172845469 ACATGGTATGTATGATATGC
1 ACATGATATGTATGATATGC
*
172845489 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
172845509 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
172845529 ACATGAT
1 ACATGAT
172845536 GTATTCGTAA
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 44 1.00
ACGTcount: A:0.34, C:0.12, G:0.21, T:0.33
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:172845727 original size:25 final size:24
Alignment explanation
Indices: 172845585--172845713 Score: 213
Period size: 24 Copynumber: 5.3 Consensus size: 24
172845575 GAAGAAGTGC
*
172845585 AAAGGGCTTATGCCCCAGTTATCA
1 AAAGGGCTTATGCCCCAGTTATTA
*
172845609 AAAGGGCTTATGCTCCAGTTATTA
1 AAAGGGCTTATGCCCCAGTTATTA
*
172845633 AAAGGGCTTATGCCCCAGCTATTA
1 AAAGGGCTTATGCCCCAGTTATTA
172845657 AAAGGGCTTATGCCCCAGTTATTA
1 AAAGGGCTTATGCCCCAGTTATTA
*
172845681 AAAGGGCTTTTGCCCCAGTTATTA
1 AAAGGGCTTATGCCCCAGTTATTA
172845705 AAAGAGGCT
1 AAAG-GGCT
172845714 AGGCCTCTAG
Statistics
Matches: 98, Mismatches: 6, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
24 94 0.96
25 4 0.04
ACGTcount: A:0.29, C:0.21, G:0.22, T:0.28
Consensus pattern (24 bp):
AAAGGGCTTATGCCCCAGTTATTA
Found at i:172847528 original size:27 final size:27
Alignment explanation
Indices: 172847498--172847869 Score: 548
Period size: 27 Copynumber: 13.8 Consensus size: 27
172847488 TACTAAAATG
* * * *
172847498 CCCTCAATTTGTAAAATTACCGTTTTA
1 CCCTCGATTTATAGAATTACCATTTTA
* *
172847525 CCCTCGATTTACAGAATTACCGTTTTA
1 CCCTCGATTTATAGAATTACCATTTTA
*
172847552 CCCTCGATTTATAGAATTACTATTTTA
1 CCCTCGATTTATAGAATTACCATTTTA
*
172847579 CCCTCGATTTACAGAATTACCATTTTA
1 CCCTCGATTTATAGAATTACCATTTTA
172847606 CCCTCGATTTATAGAATTACCATTTTA
1 CCCTCGATTTATAGAATTACCATTTTA
* * *
172847633 CCTTCGATTTACAGAATTACCGTTTTA
1 CCCTCGATTTATAGAATTACCATTTTA
172847660 CCCTCGATTTATAGAATTACCATTTTA
1 CCCTCGATTTATAGAATTACCATTTTA
172847687 CCCTCGATTTATAGAATTACCATTTTA
1 CCCTCGATTTATAGAATTACCATTTTA
172847714 CCCTCGATTTATAGAATTACCATTTTA
1 CCCTCGATTTATAGAATTACCATTTTA
172847741 CCCTCGATTTATAGAATTACCATTTTA
1 CCCTCGATTTATAGAATTACCATTTTA
* *
172847768 CCCTC-AGTTTATAGAATTATCGTTTTA
1 CCCTCGA-TTTATAGAATTACCATTTTA
* *
172847795 CCCTCGATTTATAGAATTACCGTGTTA
1 CCCTCGATTTATAGAATTACCATTTTA
* * *
172847822 TCCTCGATTTACAAAATTACCATTTTA
1 CCCTCGATTTATAGAATTACCATTTTA
* *
172847849 CCCTCGATTTACAAAATTACC
1 CCCTCGATTTATAGAATTACC
172847870 GCTCATCCTC
Statistics
Matches: 317, Mismatches: 26, Indels: 4
0.91 0.07 0.01
Matches are distributed among these distances:
26 1 0.00
27 315 0.99
28 1 0.00
ACGTcount: A:0.29, C:0.23, G:0.08, T:0.40
Consensus pattern (27 bp):
CCCTCGATTTATAGAATTACCATTTTA
Found at i:172847904 original size:53 final size:54
Alignment explanation
Indices: 172847523--172847922 Score: 201
Period size: 54 Copynumber: 7.4 Consensus size: 54
172847513 ATTACCGTTT
* * * * * * * ***
172847523 TACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTATAGAATTACTATTT
1 TACCCTCGATTTACAAAATTACCGTCTCATCCTCGATTTACAAAATTACCAAAA
* * * * * * * ***
172847577 TACCCTCGATTTACAGAATTACCATTTTACCCTCGATTTATAGAATTACCATTT
1 TACCCTCGATTTACAAAATTACCGTCTCATCCTCGATTTACAAAATTACCAAAA
* * * * * * * ***
172847631 TACCTTCGATTTACAGAATTACCGTTTTACCCTCGATTTATAGAATTACCATTT
1 TACCCTCGATTTACAAAATTACCGTCTCATCCTCGATTTACAAAATTACCAAAA
* * * * * * * * ***
172847685 TACCCTCGATTTATAGAATTACCATTTTACCCTCGATTTATAGAATTACCATTT
1 TACCCTCGATTTACAAAATTACCGTCTCATCCTCGATTTACAAAATTACCAAAA
* * * * * * * * * ****
172847739 TACCCTCGATTTATAGAATTACCATTTTACCCTC-AGTTTATAGAATTATCGTTT
1 TACCCTCGATTTACAAAATTACCGTCTCATCCTCGA-TTTACAAAATTACCAAAA
* * * * ***
172847793 TACCCTCGATTTATAGAATTACCGTGTTATCCTCGATTTACAAAATTACCATTT
1 TACCCTCGATTTACAAAATTACCGTCTCATCCTCGATTTACAAAATTACCAAAA
*
172847847 TACCCTCGATTTACAAAATTACCG-CTCATCCTCGATTTACAAAATTACTAAAA
1 TACCCTCGATTTACAAAATTACCGTCTCATCCTCGATTTACAAAATTACCAAAA
* *
172847900 TACCCTTGGTTTACAAAATTACC
1 TACCCTCGATTTACAAAATTACC
172847923 AAAATACCCT
Statistics
Matches: 318, Mismatches: 26, Indels: 5
0.91 0.07 0.01
Matches are distributed among these distances:
53 45 0.14
54 272 0.86
55 1 0.00
ACGTcount: A:0.30, C:0.23, G:0.08, T:0.39
Consensus pattern (54 bp):
TACCCTCGATTTACAAAATTACCGTCTCATCCTCGATTTACAAAATTACCAAAA
Found at i:172848040 original size:27 final size:27
Alignment explanation
Indices: 172847887--172848149 Score: 196
Period size: 27 Copynumber: 9.8 Consensus size: 27
172847877 CTCGATTTAC
* * **
172847887 AAAATTACTAAAATACCCTTGGTTTAC
1 AAAATTACCAAAATACCCCTGGTTTGT
** **
172847914 AAAATTACCAAAATA-CCCTCAATCAGT
1 AAAATTACCAAAATACCCCT-GGTTTGT
*
172847941 AAAATTACCAAAATACCCTTGGTTTGT
1 AAAATTACCAAAATACCCCTGGTTTGT
* *
172847968 AAAATTACTAAAATACCCCTAGTTTGT
1 AAAATTACCAAAATACCCCTGGTTTGT
*
172847995 AAAAATT-CCAAAATACCCCTGGCTTGT
1 -AAAATTACCAAAATACCCCTGGTTTGT
**
172848022 AAAATTACCAAAATACCCCTAATTTGT
1 AAAATTACCAAAATACCCCTGGTTTGT
* * * *
172848049 GAAATTATCAAAATA-CTCTCGATTTGT
1 AAAATTACCAAAATACCCCT-GGTTTGT
* * **
172848076 AAAA-TATCGAAATACCCCT-GTAGGGT
1 AAAATTACCAAAATACCCCTGGT-TTGT
* * **
172848102 AGAATTACCGAAATACCCCT-GTAGGGT
1 AAAATTACCAAAATACCCCTGGT-TTGT
*
172848129 AGAATTACCAAAATACCCCTG
1 AAAATTACCAAAATACCCCTG
172848150 TAGGGTAGAA
Statistics
Matches: 192, Mismatches: 35, Indels: 17
0.79 0.14 0.07
Matches are distributed among these distances:
25 1 0.01
26 26 0.14
27 156 0.81
28 9 0.05
ACGTcount: A:0.40, C:0.21, G:0.11, T:0.28
Consensus pattern (27 bp):
AAAATTACCAAAATACCCCTGGTTTGT
Found at i:172848150 original size:27 final size:27
Alignment explanation
Indices: 172848083--172848299 Score: 272
Period size: 27 Copynumber: 8.0 Consensus size: 27
172848073 TGTAAAATAT
172848083 CGAAATACCCCTGTAGGGTAGAATTAC
1 CGAAATACCCCTGTAGGGTAGAATTAC
172848110 CGAAATACCCCTGTAGGGTAGAATTAC
1 CGAAATACCCCTGTAGGGTAGAATTAC
*
172848137 CAAAATACCCCTGTAGGGTAGAATTAC
1 CGAAATACCCCTGTAGGGTAGAATTAC
* * *
172848164 TGAAATAACCCTATAGGGTAGAATTAC
1 CGAAATACCCCTGTAGGGTAGAATTAC
* * * * *
172848191 TGAAATACCCCTATAAGGTAGCATTAT
1 CGAAATACCCCTGTAGGGTAGAATTAC
* * *
172848218 CGAAATACCCTTGTATGGTAGAAATAC
1 CGAAATACCCCTGTAGGGTAGAATTAC
*
172848245 CGAAATAGCCCTGTAGGGTAGAATTAC
1 CGAAATACCCCTGTAGGGTAGAATTAC
* * * * *
172848272 TGAGATACCCTTGTGGGGTAAAATTAC
1 CGAAATACCCCTGTAGGGTAGAATTAC
172848299 C
1 C
172848300 ATTTTGCCCC
Statistics
Matches: 163, Mismatches: 27, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 163 1.00
ACGTcount: A:0.35, C:0.19, G:0.21, T:0.25
Consensus pattern (27 bp):
CGAAATACCCCTGTAGGGTAGAATTAC
Found at i:172848540 original size:25 final size:24
Alignment explanation
Indices: 172848502--172848571 Score: 95
Period size: 25 Copynumber: 2.8 Consensus size: 24
172848492 AGGAAGTGCT
* *
172848502 AAAAGGACTATGCCCCAGTTTACC
1 AAAAGGGCTTTGCCCCAGTTTACC
*
172848526 GAAAAGGGCTTTGCCCCAGTTTATC
1 -AAAAGGGCTTTGCCCCAGTTTACC
172848551 AAAAGGGGCTTTGCCCCAGTT
1 AAAA-GGGCTTTGCCCCAGTT
172848572 ATTAAAAGAG
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
24 4 0.10
25 37 0.90
ACGTcount: A:0.27, C:0.26, G:0.23, T:0.24
Consensus pattern (24 bp):
AAAAGGGCTTTGCCCCAGTTTACC
Found at i:172848573 original size:24 final size:25
Alignment explanation
Indices: 172848512--172848584 Score: 96
Period size: 25 Copynumber: 3.0 Consensus size: 25
172848502 AAAAGGACTA
*
172848512 TGCCCCAGTTTACCGAAAA-GGGCTT
1 TGCCCCAGTTTATC-AAAAGGGGCTT
172848537 TGCCCCAGTTTATCAAAAGGGGCTT
1 TGCCCCAGTTTATCAAAAGGGGCTT
* *
172848562 TGCCCCAG-TTATTAAAAGAGGCT
1 TGCCCCAGTTTATCAAAAGGGGCT
172848585 AGGCCTCCAG
Statistics
Matches: 44, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
24 17 0.39
25 27 0.61
ACGTcount: A:0.26, C:0.25, G:0.23, T:0.26
Consensus pattern (25 bp):
TGCCCCAGTTTATCAAAAGGGGCTT
Found at i:172848898 original size:27 final size:27
Alignment explanation
Indices: 172848868--172849374 Score: 798
Period size: 27 Copynumber: 18.8 Consensus size: 27
172848858 TACTGAAATG
* * * *
172848868 CCCTCAATTTGTAAAATTACCGTTTTA
1 CCCTCGATTTATAGAATTACCATTTTA
* *
172848895 CCCTCGATTTACAGAATTACCGTTTTA
1 CCCTCGATTTATAGAATTACCATTTTA
*
172848922 CCCTCGATTTATAGAATTACTATTTTA
1 CCCTCGATTTATAGAATTACCATTTTA
* *
172848949 CCCTCGATTTACAAAATTACCATTTTA
1 CCCTCGATTTATAGAATTACCATTTTA
* *
172848976 CCCTCGATTTACAGAATTACCGTTTTA
1 CCCTCGATTTATAGAATTACCATTTTA
*
172849003 CCCTCGATTTACAGAATTACCATTTTA
1 CCCTCGATTTATAGAATTACCATTTTA
172849030 CCCTCGATTTATAGAATTACCATTTTA
1 CCCTCGATTTATAGAATTACCATTTTA
172849057 CCCTCGATTTATAGAATTACCATTTTA
1 CCCTCGATTTATAGAATTACCATTTTA
172849084 CCCTCGATTTATAGAATTACCATTTTA
1 CCCTCGATTTATAGAATTACCATTTTA
172849111 CCCTCGATTTATAGAATTACCATTTTA
1 CCCTCGATTTATAGAATTACCATTTTA
**
172849138 CCCTCGATTTATAGAATTACTGTTTTA
1 CCCTCGATTTATAGAATTACCATTTTA
172849165 CCCTCGATTTATAGAATTACCATTTTA
1 CCCTCGATTTATAGAATTACCATTTTA
172849192 CCCTCGATTTATAGAATTACCATTTTA
1 CCCTCGATTTATAGAATTACCATTTTA
172849219 CCCTCGATTTATAGAATTACCATTTTA
1 CCCTCGATTTATAGAATTACCATTTTA
* *
172849246 CCCTCGATTTATAAAATTACTATTTTA
1 CCCTCGATTTATAGAATTACCATTTTA
* * *
172849273 CCCTCAATTTATAGAATTATCGTTTTA
1 CCCTCGATTTATAGAATTACCATTTTA
* *
172849300 CCCTCGATTTATAGAATTACCGTGTTA
1 CCCTCGATTTATAGAATTACCATTTTA
* *
172849327 TCCTCGATTTACAGAATTACCATTTTA
1 CCCTCGATTTATAGAATTACCATTTTA
*
172849354 CCCTCGATTTACAGAATTACC
1 CCCTCGATTTATAGAATTACC
172849375 GCTCACCCTC
Statistics
Matches: 447, Mismatches: 33, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 447 1.00
ACGTcount: A:0.29, C:0.23, G:0.08, T:0.40
Consensus pattern (27 bp):
CCCTCGATTTATAGAATTACCATTTTA
Found at i:172849417 original size:27 final size:27
Alignment explanation
Indices: 172849392--172849585 Score: 199
Period size: 27 Copynumber: 7.2 Consensus size: 27
172849382 CTCGATTTAC
* **
172849392 AAAATTACTAAAATACCCTTGGTTTAC
1 AAAATTACCAAAATACCCTTGGTTTGT
*** **
172849419 AAAATTACCAAAATACCCTCAATCCGT
1 AAAATTACCAAAATACCCTTGGTTTGT
172849446 AAAATTACCAAAATACCCTTGGTTTGT
1 AAAATTACCAAAATACCCTTGGTTTGT
* * *
172849473 AAAATTACTAAAATACCCCTAGTTTGT
1 AAAATTACCAAAATACCCTTGGTTTGT
* * *
172849500 AAAATTTCCAAAATACCCCTGGCTTGT
1 AAAATTACCAAAATACCCTTGGTTTGT
* *
172849527 AAAATTACCAAAATACCCCTGATTTGT
1 AAAATTACCAAAATACCCTTGGTTTGT
* * * * *
172849554 GAAATTATCAAAATACTCTCGATTTGT
1 AAAATTACCAAAATACCCTTGGTTTGT
172849581 AAAAT
1 AAAAT
172849586 ATCGAAATAC
Statistics
Matches: 138, Mismatches: 29, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 138 1.00
ACGTcount: A:0.40, C:0.21, G:0.08, T:0.31
Consensus pattern (27 bp):
AAAATTACCAAAATACCCTTGGTTTGT
Found at i:172849580 original size:81 final size:80
Alignment explanation
Indices: 172849444--172849627 Score: 210
Period size: 81 Copynumber: 2.3 Consensus size: 80
172849434 CCCTCAATCC
* * * *
172849444 GTAAAATTACCAAAATACCCTTGGTTTGTAAAATTACTAAAATACCCCTAGTTTGTAAAATTTCC
1 GTAAAATTACCAAAATACCCCTGATTTGTAAAATTACTAAAATACCCCGAGTTTGTAAAATAT-C
***
172849509 AAAATACCCCTGGCTT
65 AAAATACCCCTGGAGG
* *
172849525 GTAAAATTACCAAAATACCCCTGATTTGTGAAATTA-TCAAAATACTCTCGA-TTTGTAAAATAT
1 GTAAAATTACCAAAATACCCCTGATTTGTAAAATTACT-AAAATAC-CCCGAGTTTGTAAAATAT
* *
172849588 CGAAATACCCCTGTAGG
64 CAAAATACCCCTGGAGG
* *
172849605 GTAGAATTACCGAAATACCCCTG
1 GTAAAATTACCAAAATACCCCTG
172849628 TAGGGTAGAA
Statistics
Matches: 88, Mismatches: 13, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
80 34 0.39
81 51 0.58
82 3 0.03
ACGTcount: A:0.38, C:0.21, G:0.12, T:0.30
Consensus pattern (80 bp):
GTAAAATTACCAAAATACCCCTGATTTGTAAAATTACTAAAATACCCCGAGTTTGTAAAATATCA
AAATACCCCTGGAGG
Found at i:172849620 original size:27 final size:27
Alignment explanation
Indices: 172849588--172849831 Score: 290
Period size: 27 Copynumber: 9.0 Consensus size: 27
172849578 TGTAAAATAT
172849588 CGAAATACCCCTGTAGGGTAGAATTAC
1 CGAAATACCCCTGTAGGGTAGAATTAC
172849615 CGAAATACCCCTGTAGGGTAGAATTAC
1 CGAAATACCCCTGTAGGGTAGAATTAC
*
172849642 CAAAATACCCCTGTAGGGTAGAATTAC
1 CGAAATACCCCTGTAGGGTAGAATTAC
* * * *
172849669 TGAAATAACCCTATAAGGTAGAATTAC
1 CGAAATACCCCTGTAGGGTAGAATTAC
** * *
172849696 TAAAATACCCCTATAGGATAGAATTAC
1 CGAAATACCCCTGTAGGGTAGAATTAC
* * * *
172849723 TGAAATACCCCTATAAGGTAGAATTAT
1 CGAAATACCCCTGTAGGGTAGAATTAC
* * *
172849750 CGAAATACCCTTGTATGGTAGAAATAC
1 CGAAATACCCCTGTAGGGTAGAATTAC
*
172849777 CGAAATAGCCCTGTAGGGTAGAATTAC
1 CGAAATACCCCTGTAGGGTAGAATTAC
* * * * *
172849804 TGAGATACCCTTGTGGGGTAAAATTAC
1 CGAAATACCCCTGTAGGGTAGAATTAC
172849831 C
1 C
172849832 ATTTTGCCCC
Statistics
Matches: 186, Mismatches: 31, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 186 1.00
ACGTcount: A:0.37, C:0.19, G:0.19, T:0.25
Consensus pattern (27 bp):
CGAAATACCCCTGTAGGGTAGAATTAC
Found at i:172850072 original size:25 final size:25
Alignment explanation
Indices: 172850034--172850128 Score: 147
Period size: 25 Copynumber: 3.8 Consensus size: 25
172850024 AGGAAGTGCT
* *
172850034 AAAAGGACTATGCCCCAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTACCG
172850059 AAAAGGGCTTTGCCCCAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTACCG
*
172850084 AAAAGGGCTTTGCCCCAGTTTATC-
1 AAAAGGGCTTTGCCCCAGTTTACCG
172850108 AAAAGGGGCTTTGCCCCAGTT
1 AAAA-GGGCTTTGCCCCAGTT
172850129 ATTAAAAGAG
Statistics
Matches: 66, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
24 4 0.06
25 62 0.94
ACGTcount: A:0.26, C:0.26, G:0.23, T:0.24
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTACCG
Found at i:172850135 original size:24 final size:24
Alignment explanation
Indices: 172850034--172850141 Score: 128
Period size: 25 Copynumber: 4.4 Consensus size: 24
172850024 AGGAAGTGCT
* * *
172850034 AAAAGGACTATGCCCCAGTTTACC
1 AAAAGGGCTTTGCCCCAGTTTATC
*
172850058 GAAAAGGGCTTTGCCCCAGTTTACC
1 -AAAAGGGCTTTGCCCCAGTTTATC
172850083 GAAAAGGGCTTTGCCCCAGTTTATC
1 -AAAAGGGCTTTGCCCCAGTTTATC
*
172850108 AAAAGGGGCTTTGCCCCAG-TTATT
1 AAAA-GGGCTTTGCCCCAGTTTATC
172850132 AAAAGAGGCT
1 AAAAG-GGCT
172850142 AGGCCTCCAG
Statistics
Matches: 77, Mismatches: 4, Indels: 5
0.90 0.05 0.06
Matches are distributed among these distances:
23 1 0.01
24 16 0.21
25 60 0.78
ACGTcount: A:0.29, C:0.24, G:0.23, T:0.24
Consensus pattern (24 bp):
AAAAGGGCTTTGCCCCAGTTTATC
Found at i:172850455 original size:27 final size:27
Alignment explanation
Indices: 172850425--172850821 Score: 571
Period size: 27 Copynumber: 14.7 Consensus size: 27
172850415 TACTGAAATG
* * * *
172850425 CCCTCAATTTGTAAAATTACCGTTTTA
1 CCCTCGATTTATAGAATTACCATTTTA
* *
172850452 CCCTCGATTTACAGAATTACCGTTTTA
1 CCCTCGATTTATAGAATTACCATTTTA
*
172850479 CCCTCGATTTATAGAATTACTATTTTA
1 CCCTCGATTTATAGAATTACCATTTTA
*
172850506 CCCTCGATTTACAGAATTACCATTTTA
1 CCCTCGATTTATAGAATTACCATTTTA
172850533 CCCTCGATTTATAGAATTACCATTTTA
1 CCCTCGATTTATAGAATTACCATTTTA
* *
172850560 CCCTCGATTTACAGAATTACCGTTTTA
1 CCCTCGATTTATAGAATTACCATTTTA
172850587 CCCTCGATTTATAGAATTACCATTTTA
1 CCCTCGATTTATAGAATTACCATTTTA
172850614 CCCTCGATTTATAGAATTACCATTTTA
1 CCCTCGATTTATAGAATTACCATTTTA
172850641 CCCTCGATTTATAGAATTACCATTTTA
1 CCCTCGATTTATAGAATTACCATTTTA
172850668 CCCTCGATTTATAGAATTACCATTTTA
1 CCCTCGATTTATAGAATTACCATTTTA
* * *
172850695 CCCTCAATTTATAGAATTATCGTTTTA
1 CCCTCGATTTATAGAATTACCATTTTA
* *
172850722 CCCTCGATTTATAGAATTACCGTGTTA
1 CCCTCGATTTATAGAATTACCATTTTA
* * *
172850749 TCCTCGATTTACAGAATTACCGTTTTA
1 CCCTCGATTTATAGAATTACCATTTTA
* * *
172850776 CCCTCGATTTACAAAATTACCA-TTCA
1 CCCTCGATTTATAGAATTACCATTTTA
* * *
172850802 CCCTTGATTTACAAAATTAC
1 CCCTCGATTTATAGAATTAC
172850822 TAAAATACCC
Statistics
Matches: 342, Mismatches: 28, Indels: 1
0.92 0.08 0.00
Matches are distributed among these distances:
26 22 0.06
27 320 0.94
ACGTcount: A:0.29, C:0.23, G:0.08, T:0.39
Consensus pattern (27 bp):
CCCTCGATTTATAGAATTACCATTTTA
Found at i:172850839 original size:27 final size:27
Alignment explanation
Indices: 172850801--172850991 Score: 177
Period size: 27 Copynumber: 7.1 Consensus size: 27
172850791 ATTACCATTC
* * *
172850801 ACCCTTGATTTACAAAATTACTAAAAT
1 ACCCTTGGTTTATAAAATTACCAAAAT
*
172850828 ACCCTTGGTTTACAAAATTACCAAAAT
1 ACCCTTGGTTTATAAAATTACCAAAAT
*** *
172850855 ACCC-TCAATCAGTAAAATTACCAAAAT
1 ACCCTTGGTTTA-TAAAATTACCAAAAT
* *
172850882 ACCCTTGGTTTGTAAAATTACTAAAAT
1 ACCCTTGGTTTATAAAATTACCAAAAT
* * *
172850909 ACCCTTAGTTTGTAAAATTTCCAAAAT
1 ACCCTTGGTTTATAAAATTACCAAAAT
* * *
172850936 ACCCCTGGCTTGTAAAATTACCAAAAT
1 ACCCTTGGTTTATAAAATTACCAAAAT
* * * * *
172850963 ACCCCTGATTTGTGAAATTATCAAAAT
1 ACCCTTGGTTTATAAAATTACCAAAAT
172850990 AC
1 AC
172850992 TCTCGATTTG
Statistics
Matches: 138, Mismatches: 24, Indels: 4
0.83 0.14 0.02
Matches are distributed among these distances:
26 3 0.02
27 133 0.96
28 2 0.01
ACGTcount: A:0.40, C:0.21, G:0.08, T:0.31
Consensus pattern (27 bp):
ACCCTTGGTTTATAAAATTACCAAAAT
Found at i:172850926 original size:81 final size:81
Alignment explanation
Indices: 172850814--172850991 Score: 225
Period size: 81 Copynumber: 2.2 Consensus size: 81
172850804 CTTGATTTAC
* *
172850814 AAAATTACTAAAATACCCTTGGTTTACAAAATTACCAAAATACCCTCAATC-AGTAAAATTACCA
1 AAAATTACTAAAATACCCTTAGTTTACAAAATTACCAAAATACCC-CAAGCTAGTAAAATTACCA
* *
172850878 AAATACCCTTGGTTTGT
65 AAATACCCCTGATTTGT
** * ** *
172850895 AAAATTACTAAAATACCCTTAGTTTGTAAAATTTCCAAAATACCCCTGGCTTGTAAAATTACCAA
1 AAAATTACTAAAATACCCTTAGTTTACAAAATTACCAAAATACCCCAAGCTAGTAAAATTACCAA
172850960 AATACCCCTGATTTGT
66 AATACCCCTGATTTGT
*
172850976 GAAATTA-TCAAAATAC
1 AAAATTACT-AAAATAC
172850992 TCTCGATTTG
Statistics
Matches: 84, Mismatches: 11, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
80 3 0.04
81 81 0.96
ACGTcount: A:0.42, C:0.20, G:0.08, T:0.30
Consensus pattern (81 bp):
AAAATTACTAAAATACCCTTAGTTTACAAAATTACCAAAATACCCCAAGCTAGTAAAATTACCAA
AATACCCCTGATTTGT
Found at i:172850975 original size:54 final size:53
Alignment explanation
Indices: 172850814--172851007 Score: 217
Period size: 54 Copynumber: 3.6 Consensus size: 53
172850804 CTTGATTTAC
* ** **
172850814 AAAATTACTAAAATACCCTTGGTTTACAAAATTACCAAAATACCCTCAATCAGT
1 AAAATTACCAAAATACCCTTGGTTTGTAAAATTACCAAAATACCCT-AATTTGT
* *
172850868 AAAATTACCAAAATACCCTTGGTTTGTAAAATTACTAAAATACCCTTAGTTTGT
1 AAAATTACCAAAATACCCTTGGTTTGTAAAATTACCAAAATACCC-TAATTTGT
* * * *
172850922 AAAATTTCCAAAATACCCCTGGCTTGTAAAATTACCAAAATACCCCTGATTTGT
1 AAAATTACCAAAATACCCTTGGTTTGTAAAATTACCAAAATA-CCCTAATTTGT
* * * * *
172850976 GAAATTATCAAAATACTCTCGATTTGTAAAAT
1 AAAATTACCAAAATACCCTTGGTTTGTAAAAT
172851008 ATCGAAATAC
Statistics
Matches: 117, Mismatches: 21, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
54 113 0.97
55 4 0.03
ACGTcount: A:0.41, C:0.20, G:0.08, T:0.31
Consensus pattern (53 bp):
AAAATTACCAAAATACCCTTGGTTTGTAAAATTACCAAAATACCCTAATTTGT
Found at i:172850999 original size:27 final size:26
Alignment explanation
Indices: 172850869--172851022 Score: 118
Period size: 27 Copynumber: 5.8 Consensus size: 26
172850859 TCAATCAGTA
* * *
172850869 AAATTACCAAAATACCCTTGGTTTGT
1 AAATTATCAAAATACCCCTGATTTGT
*
172850895 AAAATTA-CTAAAATA-CCCTTAGTTTGT
1 -AAATTATC-AAAATACCCCTGA-TTTGT
**
172850922 AAAATT-TCCAAAATACCCCTGGCTTGT
1 -AAATTAT-CAAAATACCCCTGATTTGT
*
172850949 AAAATTACCAAAATACCCCTGATTTGT
1 -AAATTATCAAAATACCCCTGATTTGT
*
172850976 GAAATTATCAAAATA-CTCTCGATTTGT
1 -AAATTATCAAAATACCCCT-GATTTGT
* *
172851003 AAAATATCGAAATACCCCTG
1 AAATTATCAAAATACCCCTG
172851023 TAGGGTAGAA
Statistics
Matches: 104, Mismatches: 15, Indels: 17
0.76 0.11 0.12
Matches are distributed among these distances:
26 20 0.19
27 79 0.76
28 5 0.05
ACGTcount: A:0.38, C:0.20, G:0.10, T:0.32
Consensus pattern (26 bp):
AAATTATCAAAATACCCCTGATTTGT
Found at i:172851002 original size:81 final size:80
Alignment explanation
Indices: 172850814--172851049 Score: 210
Period size: 81 Copynumber: 2.9 Consensus size: 80
172850804 CTTGATTTAC
** * ** **
172850814 AAAATTACTAAAATACCCTTG-GTTTACAAAATTACCAAAATA-CCCTCAATCAGTAAAATTACC
1 AAAATTACTAAAATACCC-TGAGTTTGTAAAA-TATCAAAATACCCCTGGA-GGGTAAAATTACC
* *
172850877 AAAATACCCTTGGTTTGT
63 AAAATACCCCTGATTTGT
* * ***
172850895 AAAATTACTAAAATACCCTTAGTTTGTAAAATTTCCAAAATACCCCTGGCTTGTAAAATTACCAA
1 AAAATTACTAAAATACCCTGAGTTTGTAAAATAT-CAAAATACCCCTGGAGGGTAAAATTACCAA
172850960 AATACCCCTGATTTGT
65 AATACCCCTGATTTGT
* * * * * *
172850976 GAAATTA-TCAAAATACTCTCGA-TTTGTAAAATATCGAAATACCCCTGTAGGGTAGAATTACCG
1 AAAATTACT-AAAATACCCT-GAGTTTGTAAAATATCAAAATACCCCTGGAGGGTAAAATTACCA
172851039 AAATACCCCTG
64 AAATACCCCTG
172851050 TAGGGTAGAA
Statistics
Matches: 127, Mismatches: 23, Indels: 11
0.79 0.14 0.07
Matches are distributed among these distances:
80 36 0.28
81 86 0.68
82 5 0.04
ACGTcount: A:0.39, C:0.21, G:0.10, T:0.30
Consensus pattern (80 bp):
AAAATTACTAAAATACCCTGAGTTTGTAAAATATCAAAATACCCCTGGAGGGTAAAATTACCAAA
ATACCCCTGATTTGT
Found at i:172851042 original size:27 final size:27
Alignment explanation
Indices: 172851010--172851069 Score: 111
Period size: 27 Copynumber: 2.2 Consensus size: 27
172851000 TGTAAAATAT
172851010 CGAAATACCCCTGTAGGGTAGAATTAC
1 CGAAATACCCCTGTAGGGTAGAATTAC
172851037 CGAAATACCCCTGTAGGGTAGAATTAC
1 CGAAATACCCCTGTAGGGTAGAATTAC
*
172851064 CAAAAT
1 CGAAAT
172851070 TACCAAAATA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.37, C:0.22, G:0.20, T:0.22
Consensus pattern (27 bp):
CGAAATACCCCTGTAGGGTAGAATTAC
Found at i:172851104 original size:27 final size:26
Alignment explanation
Indices: 172851066--172851138 Score: 85
Period size: 27 Copynumber: 2.8 Consensus size: 26
172851056 AGAATTACCA
*
172851066 AAATTACCAAAATACCCCTGATTTGT
1 AAATTATCAAAATACCCCTGATTTGT
*
172851092 GAAATTATCAAAATA-CTCTCGATTTGT
1 -AAATTATCAAAATACCCCT-GATTTGT
* *
172851119 AAAATATCGAAATACCCCTG
1 AAATTATCAAAATACCCCTG
172851139 TAGGGTAGAA
Statistics
Matches: 39, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
26 16 0.41
27 23 0.59
ACGTcount: A:0.40, C:0.21, G:0.10, T:0.30
Consensus pattern (26 bp):
AAATTATCAAAATACCCCTGATTTGT
Found at i:172851116 original size:143 final size:143
Alignment explanation
Indices: 172850922--172851212 Score: 392
Period size: 143 Copynumber: 2.0 Consensus size: 143
172850912 CTTAGTTTGT
* * *
172850922 AAAATTTCCAAAATACCCCTGGCTTGTAAAATTACCAAAATACCCCTGATTTGTGAAATTATCAA
1 AAAATTACCAAAATACCCCTGACTTGTAAAATTACCAAAATACCCCTGATTTGT-AAAATATCAA
* ** * *
172850987 AATA-CTCTCG-ATTTGTA-AAATATCGAAATACCCCTGTAGGGTAGAATTACCGAAATACCCCT
65 AATACCCCT-GTA-GGGTAGAAATACCGAAATACCCCTGTAGGGTAGAATTACCAAAATACCCCT
172851049 GTAGGGTAGAATTACC
128 GTAGGGTAGAATTACC
* * * * *
172851065 AAAATTACCAAAATACCCCTGATTTGTGAAATTATCAAAATA-CTCTCGATTTGTAAAATATCGA
1 AAAATTACCAAAATACCCCTGACTTGTAAAATTACCAAAATACCCCT-GATTTGTAAAATATCAA
*
172851129 AATACCCCTGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAGAATTACCAAAATACCCCTGT
65 AATACCCCTGTAGGGTAGAAATACCGAAATACCCCTGTAGGGTAGAATTACCAAAATACCCCTGT
172851194 AGGGTAGAATTACC
130 AGGGTAGAATTACC
172851208 AAAAT
1 AAAAT
172851213 ACCCCTGTAG
Statistics
Matches: 130, Mismatches: 14, Indels: 8
0.86 0.09 0.05
Matches are distributed among these distances:
142 19 0.15
143 111 0.85
ACGTcount: A:0.38, C:0.20, G:0.14, T:0.27
Consensus pattern (143 bp):
AAAATTACCAAAATACCCCTGACTTGTAAAATTACCAAAATACCCCTGATTTGTAAAATATCAAA
ATACCCCTGTAGGGTAGAAATACCGAAATACCCCTGTAGGGTAGAATTACCAAAATACCCCTGTA
GGGTAGAATTACC
Found at i:172851153 original size:116 final size:116
Alignment explanation
Indices: 172850949--172851185 Score: 474
Period size: 116 Copynumber: 2.0 Consensus size: 116
172850939 CCTGGCTTGT
172850949 AAAATTACCAAAATACCCCTGATTTGTGAAATTATCAAAATACTCTCGATTTGTAAAATATCGAA
1 AAAATTACCAAAATACCCCTGATTTGTGAAATTATCAAAATACTCTCGATTTGTAAAATATCGAA
172851014 ATACCCCTGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAGAATTACC
66 ATACCCCTGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAGAATTACC
172851065 AAAATTACCAAAATACCCCTGATTTGTGAAATTATCAAAATACTCTCGATTTGTAAAATATCGAA
1 AAAATTACCAAAATACCCCTGATTTGTGAAATTATCAAAATACTCTCGATTTGTAAAATATCGAA
172851130 ATACCCCTGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAGAATTACC
66 ATACCCCTGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAGAATTACC
172851181 AAAAT
1 AAAAT
172851186 ACCCCTGTAG
Statistics
Matches: 121, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
116 121 1.00
ACGTcount: A:0.39, C:0.19, G:0.14, T:0.27
Consensus pattern (116 bp):
AAAATTACCAAAATACCCCTGATTTGTGAAATTATCAAAATACTCTCGATTTGTAAAATATCGAA
ATACCCCTGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAGAATTACC
Found at i:172851158 original size:27 final size:27
Alignment explanation
Indices: 172851126--172851369 Score: 344
Period size: 27 Copynumber: 9.0 Consensus size: 27
172851116 TGTAAAATAT
172851126 CGAAATACCCCTGTAGGGTAGAATTAC
1 CGAAATACCCCTGTAGGGTAGAATTAC
172851153 CGAAATACCCCTGTAGGGTAGAATTAC
1 CGAAATACCCCTGTAGGGTAGAATTAC
*
172851180 CAAAATACCCCTGTAGGGTAGAATTAC
1 CGAAATACCCCTGTAGGGTAGAATTAC
*
172851207 CAAAATACCCCTGTAGGGTAGAATTAC
1 CGAAATACCCCTGTAGGGTAGAATTAC
* * *
172851234 TGAAATAACCCTATAGGGTAGAATTAC
1 CGAAATACCCCTGTAGGGTAGAATTAC
* * * *
172851261 TGAAATACCCCTATAAGGTAGAATTAT
1 CGAAATACCCCTGTAGGGTAGAATTAC
* *
172851288 CGAAATACCCTTGTAGGGTAGAAATAC
1 CGAAATACCCCTGTAGGGTAGAATTAC
*
172851315 CGAAATAGCCCTGTAGGGTAGAATTAC
1 CGAAATACCCCTGTAGGGTAGAATTAC
* * * *
172851342 CGAGATACCCTTGTGGGGTAAAATTAC
1 CGAAATACCCCTGTAGGGTAGAATTAC
172851369 C
1 C
172851370 ATTTTGCCCC
Statistics
Matches: 195, Mismatches: 22, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 195 1.00
ACGTcount: A:0.36, C:0.20, G:0.21, T:0.24
Consensus pattern (27 bp):
CGAAATACCCCTGTAGGGTAGAATTAC
Found at i:172851634 original size:26 final size:26
Alignment explanation
Indices: 172851572--172851667 Score: 115
Period size: 25 Copynumber: 3.8 Consensus size: 26
172851562 AGGAAGTGCT
* * *
172851572 AAAAGGACTATGCCCCAGTTTACTG-
1 AAAAGGGCTTTGCCCCAGTTTACCGA
*
172851597 GAAAGGGCTTTGCCCCAGTTTACCGA
1 AAAAGGGCTTTGCCCCAGTTTACCGA
* *
172851623 AAAAGGGCTTTGCCCTAGTTTATC-A
1 AAAAGGGCTTTGCCCCAGTTTACCGA
*
172851648 AAAGGGGCTTTGCCCCAGTT
1 AAAAGGGCTTTGCCCCAGTT
172851668 ATTAAAAGAG
Statistics
Matches: 61, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
25 40 0.66
26 21 0.34
ACGTcount: A:0.26, C:0.24, G:0.24, T:0.26
Consensus pattern (26 bp):
AAAAGGGCTTTGCCCCAGTTTACCGA
Found at i:172851669 original size:24 final size:25
Alignment explanation
Indices: 172851582--172851680 Score: 103
Period size: 25 Copynumber: 4.0 Consensus size: 25
172851572 AAAAGGACTA
**
172851582 TGCCCCAGTTTACTGGAAA-GGGCTT
1 TGCCCCAGTTTA-TCAAAAGGGGCTT
* *
172851607 TGCCCCAGTTTACCGAAAAAGGGCTT
1 TGCCCCAGTTTATC-AAAAGGGGCTT
*
172851633 TGCCCTAGTTTATCAAAAGGGGCTT
1 TGCCCCAGTTTATCAAAAGGGGCTT
* *
172851658 TGCCCCAG-TTATTAAAAGAGGCT
1 TGCCCCAGTTTATCAAAAGGGGCT
172851681 AGGCCTCCAG
Statistics
Matches: 63, Mismatches: 9, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
24 13 0.21
25 32 0.51
26 18 0.29
ACGTcount: A:0.25, C:0.23, G:0.24, T:0.27
Consensus pattern (25 bp):
TGCCCCAGTTTATCAAAAGGGGCTT
Found at i:172858220 original size:40 final size:40
Alignment explanation
Indices: 172858093--172858222 Score: 165
Period size: 40 Copynumber: 3.2 Consensus size: 40
172858083 ATGCTGGAAA
* *
172858093 TTATATCCGGGTTAAGACCCGAAGGCAATT-GTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTGG
* * **
172858133 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCA
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
*
172858173 TTCTATCCGGGCTAAGACCCGAAGGCATTCGTGC-ACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGA-GTGG
172858213 TTATATCCGG
1 TTATATCCGG
172858223 TTGTATTCCG
Statistics
Matches: 76, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
39 4 0.05
40 72 0.95
ACGTcount: A:0.23, C:0.25, G:0.28, T:0.24
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
Found at i:172866266 original size:40 final size:40
Alignment explanation
Indices: 172866139--172866268 Score: 165
Period size: 40 Copynumber: 3.2 Consensus size: 40
172866129 ATGCTGGAAA
* *
172866139 TTATATCCGGGTTAAGACCCGAAGGCAATT-GTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTGG
* * **
172866179 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCA
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
*
172866219 TTCTATCCGGGCTAAGACCCGAAGGCATTCGTGC-ACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGA-GTGG
172866259 TTATATCCGG
1 TTATATCCGG
172866269 TTGTATTCCG
Statistics
Matches: 76, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
39 4 0.05
40 72 0.95
ACGTcount: A:0.23, C:0.25, G:0.28, T:0.24
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
Found at i:172869102 original size:40 final size:40
Alignment explanation
Indices: 172869057--172869223 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
172869047 CGGAATATAA
172869057 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
172869097 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
172869137 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
172869177 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
172869216 CCGGATAT
1 CCGGATAT
172869224 CATTCAATTT
Statistics
Matches: 107, Mismatches: 19, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
39 14 0.13
40 93 0.87
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:172877114 original size:40 final size:40
Alignment explanation
Indices: 172877069--172877235 Score: 176
Period size: 40 Copynumber: 4.2 Consensus size: 40
172877059 CGGAATATAA
172877069 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
172877109 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
172877149 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * * *
172877189 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-ATTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
172877228 CCGGATAT
1 CCGGATAT
172877236 CATTCAATTT
Statistics
Matches: 106, Mismatches: 20, Indels: 3
0.82 0.16 0.02
Matches are distributed among these distances:
39 13 0.12
40 93 0.88
ACGTcount: A:0.25, C:0.26, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:172880826 original size:35 final size:35
Alignment explanation
Indices: 172880731--172880903 Score: 213
Period size: 35 Copynumber: 5.0 Consensus size: 35
172880721 CTCTCTGTTA
* * *
172880731 GGCGTGTTTCGGTTGGATTAGCACCTATGAGCATT
1 GGCGTGTTACGGTTGGATTAGCTCTTATGAGCATT
* * ** *
172880766 GGTGTGTTTCTATT-GATTAGCTCTTATAAGCATT
1 GGCGTGTTACGGTTGGATTAGCTCTTATGAGCATT
172880800 GGCGTGTTACGGTTGGATTAGCTCTTATGAGCATT
1 GGCGTGTTACGGTTGGATTAGCTCTTATGAGCATT
* * *
172880835 GGCGTGTTACGGTTAGACTAGCTCTTATGAGCACT
1 GGCGTGTTACGGTTGGATTAGCTCTTATGAGCATT
* * *
172880870 GGCGTGTTACAGTTTGATTAGCTCTTTTGAGCAT
1 GGCGTGTTACGGTTGGATTAGCTCTTATGAGCAT
172880904 CAACGTGTTA
Statistics
Matches: 118, Mismatches: 19, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
34 27 0.23
35 91 0.77
ACGTcount: A:0.18, C:0.16, G:0.28, T:0.38
Consensus pattern (35 bp):
GGCGTGTTACGGTTGGATTAGCTCTTATGAGCATT
Found at i:172881750 original size:9 final size:9
Alignment explanation
Indices: 172881728--172881771 Score: 63
Period size: 9 Copynumber: 4.9 Consensus size: 9
172881718 AATAAATATT
172881728 AATTAATT-
1 AATTAATTA
172881736 AATTAATTA
1 AATTAATTA
172881745 AATTAATTA
1 AATTAATTA
*
172881754 AATTAACTA
1 AATTAATTA
172881763 AATTTAATT
1 AA-TTAATT
172881772 CTCAATTCAA
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
8 8 0.25
9 19 0.59
10 5 0.16
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (9 bp):
AATTAATTA
Found at i:172881771 original size:5 final size:4
Alignment explanation
Indices: 172881725--172881759 Score: 52
Period size: 4 Copynumber: 8.2 Consensus size: 4
172881715 TAAAATAAAT
172881725 ATTA ATTA ATTA ATTA ATTAA ATTA ATTAA ATTA A
1 ATTA ATTA ATTA ATTA ATT-A ATTA ATT-A ATTA A
172881760 CTAAATTTAA
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
4 21 0.72
5 8 0.28
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (4 bp):
ATTA
Found at i:172881785 original size:14 final size:14
Alignment explanation
Indices: 172881768--172881795 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
172881758 AACTAAATTT
172881768 AATTCTCAATTCAA
1 AATTCTCAATTCAA
172881782 AATTCTCAATTCAA
1 AATTCTCAATTCAA
172881796 TTCTAATTTC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.43, C:0.21, G:0.00, T:0.36
Consensus pattern (14 bp):
AATTCTCAATTCAA
Found at i:172885308 original size:12 final size:12
Alignment explanation
Indices: 172885291--172885321 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
172885281 CACATATATG
172885291 ATATAATACCTC
1 ATATAATACCTC
*
172885303 ATATAATACTTC
1 ATATAATACCTC
172885315 ATATAAT
1 ATATAAT
172885322 CAAGTACACA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.45, C:0.16, G:0.00, T:0.39
Consensus pattern (12 bp):
ATATAATACCTC
Found at i:172886324 original size:23 final size:23
Alignment explanation
Indices: 172886276--172886326 Score: 59
Period size: 23 Copynumber: 2.2 Consensus size: 23
172886266 AAGTTCCATG
*
172886276 TTCATATATCACCGTCTCATACT
1 TTCATATATCACCGTATCATACT
* *
172886299 TTCATATATCA-TGTATCATCATT
1 TTCATATATCACCGTATCAT-ACT
172886322 TTCAT
1 TTCAT
172886327 GTATTTTAGG
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
22 6 0.25
23 18 0.75
ACGTcount: A:0.27, C:0.24, G:0.04, T:0.45
Consensus pattern (23 bp):
TTCATATATCACCGTATCATACT
Found at i:172886582 original size:23 final size:24
Alignment explanation
Indices: 172886527--172886582 Score: 69
Period size: 24 Copynumber: 2.4 Consensus size: 24
172886517 AGCCTTGTAA
* *
172886527 CGGGAAGCTCACACAGAGCCATTT
1 CGGGAAGCTCACAAAGAGCCATAT
* *
172886551 TGGGAAGCTCATAAAGAGCC-TAT
1 CGGGAAGCTCACAAAGAGCCATAT
172886574 CGGGAAGCT
1 CGGGAAGCT
172886583 TATCTGGGCT
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
23 10 0.37
24 17 0.63
ACGTcount: A:0.30, C:0.23, G:0.29, T:0.18
Consensus pattern (24 bp):
CGGGAAGCTCACAAAGAGCCATAT
Found at i:172887775 original size:13 final size:13
Alignment explanation
Indices: 172887759--172887786 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
172887749 CTTTATTTTA
172887759 TTATTTTTCATCT
1 TTATTTTTCATCT
172887772 TTATTTTTCATCT
1 TTATTTTTCATCT
172887785 TT
1 TT
172887787 CCAATTTTGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.14, C:0.14, G:0.00, T:0.71
Consensus pattern (13 bp):
TTATTTTTCATCT
Found at i:172891002 original size:24 final size:24
Alignment explanation
Indices: 172890970--172891019 Score: 100
Period size: 24 Copynumber: 2.1 Consensus size: 24
172890960 TCAGAACATG
172890970 TTCTCCATTCTTGAACTGGGTTTA
1 TTCTCCATTCTTGAACTGGGTTTA
172890994 TTCTCCATTCTTGAACTGGGTTTA
1 TTCTCCATTCTTGAACTGGGTTTA
172891018 TT
1 TT
172891020 GGATTACATT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.16, C:0.20, G:0.16, T:0.48
Consensus pattern (24 bp):
TTCTCCATTCTTGAACTGGGTTTA
Found at i:172893764 original size:14 final size:16
Alignment explanation
Indices: 172893745--172893777 Score: 52
Period size: 14 Copynumber: 2.2 Consensus size: 16
172893735 CCTAGCTTTC
172893745 TTGTTAGAA-A-AATT
1 TTGTTAGAACATAATT
172893759 TTGTTAGAACATAATT
1 TTGTTAGAACATAATT
172893775 TTG
1 TTG
172893778 GTGCATCACA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 9 0.53
15 1 0.06
16 7 0.41
ACGTcount: A:0.36, C:0.03, G:0.15, T:0.45
Consensus pattern (16 bp):
TTGTTAGAACATAATT
Found at i:172894547 original size:21 final size:21
Alignment explanation
Indices: 172894517--172894556 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
172894507 TACCTACTGT
*
172894517 GGTATCACAATATCCACTTTG
1 GGTATCACAATACCCACTTTG
*
172894538 GGTATTACAATACCCACTT
1 GGTATCACAATACCCACTT
172894557 GCCCAAGGAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.30, C:0.25, G:0.12, T:0.33
Consensus pattern (21 bp):
GGTATCACAATACCCACTTTG
Found at i:172897313 original size:40 final size:40
Alignment explanation
Indices: 172897268--172897434 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
172897258 CGGAATATAA
172897268 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * * *
172897308 CCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
* * *
172897348 CCGGATATAACCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
172897388 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
172897427 CCGGATAT
1 CCGGATAT
172897435 CATTCAATTT
Statistics
Matches: 107, Mismatches: 19, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
39 14 0.13
40 93 0.87
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:172897418 original size:80 final size:79
Alignment explanation
Indices: 172897268--172897434 Score: 205
Period size: 80 Copynumber: 2.1 Consensus size: 79
172897258 CGGAATATAA
* *
172897268 CCGGATATAATCACGTGCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTCGCACGAATG
1 CCGGATATAACCACGTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATG
172897333 CCTTCGGGCCTTAGC
66 CCTTCGGG-CTTAGC
* * ** *
172897348 CCGGATATAACCAC-TAGCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAA
1 CCGGATATAACCACGT-GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTC-GCACGAA
*
172897410 TTGTCTTCGGGCTTAGC
64 -TGCCTTCGGGCTTAGC
172897427 CCGGATAT
1 CCGGATAT
172897435 CATTCAATTT
Statistics
Matches: 76, Mismatches: 8, Indels: 7
0.84 0.09 0.08
Matches are distributed among these distances:
79 18 0.24
80 58 0.76
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (79 bp):
CCGGATATAACCACGTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATG
CCTTCGGGCTTAGC
Found at i:172898283 original size:17 final size:19
Alignment explanation
Indices: 172898260--172898305 Score: 53
Period size: 17 Copynumber: 2.5 Consensus size: 19
172898250 AAGAAGCATG
172898260 AATCATGCTCAAGAATG-C
1 AATCATGCTCAAGAATGAC
*
172898278 -ATCATGGC-CAAGTATGAC
1 AATCAT-GCTCAAGAATGAC
172898296 AATCATGCTC
1 AATCATGCTC
172898306 CTTTTCAACT
Statistics
Matches: 23, Mismatches: 1, Indels: 7
0.74 0.03 0.23
Matches are distributed among these distances:
17 12 0.52
18 5 0.22
19 6 0.26
ACGTcount: A:0.35, C:0.24, G:0.17, T:0.24
Consensus pattern (19 bp):
AATCATGCTCAAGAATGAC
Found at i:172905320 original size:40 final size:40
Alignment explanation
Indices: 172905275--172905441 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
172905265 CGGAATATAA
172905275 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * * *
172905315 CCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
* * *
172905355 CCGGATATAACCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
172905395 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
172905434 CCGGATAT
1 CCGGATAT
172905442 CATTCAATTT
Statistics
Matches: 107, Mismatches: 19, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
39 14 0.13
40 93 0.87
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:172905425 original size:80 final size:79
Alignment explanation
Indices: 172905275--172905441 Score: 205
Period size: 80 Copynumber: 2.1 Consensus size: 79
172905265 CGGAATATAA
* *
172905275 CCGGATATAATCACGTGCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTCGCACGAATG
1 CCGGATATAACCACGTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATG
172905340 CCTTCGGGCCTTAGC
66 CCTTCGGG-CTTAGC
* * ** *
172905355 CCGGATATAACCAC-TAGCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAA
1 CCGGATATAACCACGT-GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTC-GCACGAA
*
172905417 TTGTCTTCGGGCTTAGC
64 -TGCCTTCGGGCTTAGC
172905434 CCGGATAT
1 CCGGATAT
172905442 CATTCAATTT
Statistics
Matches: 76, Mismatches: 8, Indels: 7
0.84 0.09 0.08
Matches are distributed among these distances:
79 18 0.24
80 58 0.76
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (79 bp):
CCGGATATAACCACGTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATG
CCTTCGGGCTTAGC
Found at i:172906288 original size:17 final size:19
Alignment explanation
Indices: 172906265--172906310 Score: 53
Period size: 17 Copynumber: 2.5 Consensus size: 19
172906255 AAGAAGCATG
172906265 AATCATGCTCAAGAATG-C
1 AATCATGCTCAAGAATGAC
*
172906283 -ATCATGGC-CAAGTATGAC
1 AATCAT-GCTCAAGAATGAC
172906301 AATCATGCTC
1 AATCATGCTC
172906311 CTTTTCAACT
Statistics
Matches: 23, Mismatches: 1, Indels: 7
0.74 0.03 0.23
Matches are distributed among these distances:
17 12 0.52
18 5 0.22
19 6 0.26
ACGTcount: A:0.35, C:0.24, G:0.17, T:0.24
Consensus pattern (19 bp):
AATCATGCTCAAGAATGAC
Found at i:172911680 original size:40 final size:39
Alignment explanation
Indices: 172911594--172911742 Score: 144
Period size: 39 Copynumber: 3.8 Consensus size: 39
172911584 AATTGAATGA
* * * *
172911594 TATCCGGGCTAAGCCCCGAAGACAATATGCTG-GAAATTA-
1 TATCCGGGCTAAGACCCGAAGGCAAT-TG-TGCGAGACTAC
* * *
172911633 TATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTAC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC--GAGACTAC
*
172911674 -ATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGACTTC
1 TATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGACTAC
*
172911712 TATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC
172911743 AAGTATGGTA
Statistics
Matches: 91, Mismatches: 12, Indels: 14
0.78 0.10 0.12
Matches are distributed among these distances:
37 2 0.02
38 7 0.08
39 52 0.57
40 30 0.33
ACGTcount: A:0.26, C:0.25, G:0.28, T:0.21
Consensus pattern (39 bp):
TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGACTAC
Found at i:172927331 original size:93 final size:93
Alignment explanation
Indices: 172927215--172927386 Score: 308
Period size: 93 Copynumber: 1.8 Consensus size: 93
172927205 CGCCCATAAG
* *
172927215 CGAACTCAGACTCAACTCAACGAGCTCGGGCATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCAGACTCAACCCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
172927280 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
* *
172927308 CGAACTCGGACTCAACCCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCAGACTCAACCCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
172927373 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
172927387 TCAACCATCC
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.29, C:0.30, G:0.20, T:0.20
Consensus pattern (93 bp):
CGAACTCAGACTCAACCCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:172927383 original size:46 final size:46
Alignment explanation
Indices: 172927208--172927383 Score: 207
Period size: 46 Copynumber: 3.8 Consensus size: 46
172927198 TGTAACCCGC
* * *
172927208 CCATAAGCGAACTCAGACTCAACTCAACGAGCTCGGGCATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
172927254 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
* *
172927304 -C-TCA-CGAACTCGGACTCAACCCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
172927347 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
172927384 TGCTCAACCA
Statistics
Matches: 109, Mismatches: 12, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 61 0.56
47 28 0.26
48 2 0.02
49 2 0.02
50 4 0.04
51 2 0.02
ACGTcount: A:0.30, C:0.30, G:0.20, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:172929129 original size:55 final size:55
Alignment explanation
Indices: 172929070--172929179 Score: 202
Period size: 55 Copynumber: 2.0 Consensus size: 55
172929060 TAGTTAATAT
*
172929070 GTTTGATTTTGAGGTTGTGTATATATTAAGCCATGCAAAAATGGCTAAGTATAAA
1 GTTTGATTTTGAGGTTGTGTATATATTAAACCATGCAAAAATGGCTAAGTATAAA
*
172929125 GTTTGATTTTGAGGTTGTGTATATATTAAACCATGCTAAAATGGCTAAGTATAAA
1 GTTTGATTTTGAGGTTGTGTATATATTAAACCATGCAAAAATGGCTAAGTATAAA
172929180 TTTTAAGTTT
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
55 53 1.00
ACGTcount: A:0.35, C:0.07, G:0.21, T:0.37
Consensus pattern (55 bp):
GTTTGATTTTGAGGTTGTGTATATATTAAACCATGCAAAAATGGCTAAGTATAAA
Found at i:172929560 original size:2 final size:2
Alignment explanation
Indices: 172929555--172929588 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
172929545 TGTGGATGTG
172929555 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
172929589 GTTATGCAAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:172933459 original size:31 final size:31
Alignment explanation
Indices: 172933424--172933495 Score: 126
Period size: 31 Copynumber: 2.3 Consensus size: 31
172933414 TATACTGGGT
172933424 CGAAGCCTTTTCATTATTCATATCACTAGGC
1 CGAAGCCTTTTCATTATTCATATCACTAGGC
* *
172933455 CGAAGCCTTTTCATTTTTCATATCACTGGGC
1 CGAAGCCTTTTCATTATTCATATCACTAGGC
172933486 CGAAGCCTTT
1 CGAAGCCTTT
172933496 ACTGTAAACG
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
31 39 1.00
ACGTcount: A:0.22, C:0.26, G:0.15, T:0.36
Consensus pattern (31 bp):
CGAAGCCTTTTCATTATTCATATCACTAGGC
Found at i:172933748 original size:25 final size:25
Alignment explanation
Indices: 172933716--172933785 Score: 104
Period size: 25 Copynumber: 2.8 Consensus size: 25
172933706 CTCTTTTAAT
* *
172933716 AACTGGGGCAAAGCCCTTTTTGATG
1 AACTGGGGCAAAGCCCTTTTCGATA
*
172933741 AATTGGGGCAAAGCCCTTTTCGATA
1 AACTGGGGCAAAGCCCTTTTCGATA
*
172933766 AACTGGGGAAAAGCCCTTTT
1 AACTGGGGCAAAGCCCTTTT
172933786 GCACTTCCTC
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 40 1.00
ACGTcount: A:0.27, C:0.20, G:0.26, T:0.27
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTCGATA
Found at i:172933844 original size:10 final size:10
Alignment explanation
Indices: 172933831--172933870 Score: 62
Period size: 10 Copynumber: 3.9 Consensus size: 10
172933821 CATATATGAA
172933831 CATATCATGG
1 CATATCATGG
*
172933841 CATATCAGGTG
1 CATATCATG-G
172933852 CATATCATGG
1 CATATCATGG
172933862 CATATCATG
1 CATATCATG
172933871 TACAATACAG
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
10 18 0.67
11 9 0.33
ACGTcount: A:0.30, C:0.20, G:0.20, T:0.30
Consensus pattern (10 bp):
CATATCATGG
Found at i:172941212 original size:40 final size:40
Alignment explanation
Indices: 172941146--172941311 Score: 160
Period size: 40 Copynumber: 4.2 Consensus size: 40
172941136 AAATTGAATG
* * *
172941146 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
172941185 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
*
172941225 AT-TCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
172941264 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
172941304 ATATCCGG
1 ATATCCGG
172941312 TTATATTCCG
Statistics
Matches: 103, Mismatches: 18, Indels: 11
0.78 0.14 0.08
Matches are distributed among these distances:
38 3 0.03
39 41 0.40
40 57 0.55
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:172941231 original size:39 final size:40
Alignment explanation
Indices: 172941186--172941295 Score: 136
Period size: 39 Copynumber: 2.8 Consensus size: 40
172941176 CTGGAAATTA
* *
172941186 TATCCGGGTTAAGACCCGAAGGCAATTGTGCTAG-T-GGC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTTAGGC
**
172941224 TATTCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTATTC
1 TA-TCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGTTAGGC
*
172941265 TATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC
172941296 ACGTGATTAT
Statistics
Matches: 62, Mismatches: 5, Indels: 8
0.83 0.07 0.11
Matches are distributed among these distances:
38 5 0.08
39 26 0.42
40 26 0.42
41 5 0.08
ACGTcount: A:0.23, C:0.24, G:0.29, T:0.25
Consensus pattern (40 bp):
TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTTAGGC
Found at i:172949215 original size:38 final size:40
Alignment explanation
Indices: 172949164--172949272 Score: 143
Period size: 38 Copynumber: 2.8 Consensus size: 40
172949154 CTGGAAATTA
* *
172949164 TATCCGGGTTAAGACCCGAAGGCAATTGTGCTAG-T-GGC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTTAGGC
**
172949202 TATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTATTC
1 TATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGTTAGGC
*
172949242 TATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC
172949273 ACGTGATTAT
Statistics
Matches: 62, Mismatches: 5, Indels: 6
0.85 0.07 0.08
Matches are distributed among these distances:
37 3 0.05
38 28 0.45
39 1 0.02
40 28 0.45
41 2 0.03
ACGTcount: A:0.23, C:0.24, G:0.29, T:0.24
Consensus pattern (40 bp):
TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTTAGGC
Found at i:172949286 original size:40 final size:40
Alignment explanation
Indices: 172949124--172949288 Score: 162
Period size: 40 Copynumber: 4.2 Consensus size: 40
172949114 AAATTGAATG
* * **
172949124 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTG-GAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC-GAGTGATT
* * *
172949163 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTG--G
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTGATT
* *
172949201 CTATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGTGATT
* *
172949241 CTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGA-GTGATT
172949281 ATATCCGG
1 ATATCCGG
172949289 TTATATTCCG
Statistics
Matches: 104, Mismatches: 15, Indels: 13
0.79 0.11 0.10
Matches are distributed among these distances:
37 3 0.03
38 29 0.28
39 14 0.13
40 56 0.54
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.24
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTGATT
Found at i:172952912 original size:28 final size:28
Alignment explanation
Indices: 172952843--172952943 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
172952833 GACAAGATTG
* * * *
172952843 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTT--GATTATATA
172952873 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
172952901 GCACTAAGTGTGCGAG-TTGAATACATATA
1 GCACTAAGTGTGCGAGTTTG-AT-TATATA
172952930 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
172952944 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:172954414 original size:27 final size:26
Alignment explanation
Indices: 172954379--172954490 Score: 104
Period size: 27 Copynumber: 4.2 Consensus size: 26
172954369 AGGATGGCTG
*
172954379 CCAGA-ACAGATAATGTGACAGAGTCA
1 CCAGATACAGATAATGTGGCAGAG-CA
*
172954405 CTAGATACAGATAATCGTGGCAGAGCTA
1 CCAGATACAGATAAT-GTGGCAGAGC-A
*
172954433 CCAGA-ACAGATATATGTGGTAGAGCCA
1 CCAGATACAGATA-ATGTGGCAGAG-CA
*
172954460 CCAGAT-CAGATAATTGTGGCATAGACA
1 CCAGATACAGATAA-TGTGGCAGAG-CA
172954487 CCAG
1 CCAG
172954491 GACGCTTCCT
Statistics
Matches: 72, Mismatches: 7, Indels: 13
0.78 0.08 0.14
Matches are distributed among these distances:
26 5 0.07
27 51 0.71
28 16 0.22
ACGTcount: A:0.38, C:0.20, G:0.24, T:0.19
Consensus pattern (26 bp):
CCAGATACAGATAATGTGGCAGAGCA
Found at i:172956466 original size:28 final size:27
Alignment explanation
Indices: 172956403--172956472 Score: 113
Period size: 27 Copynumber: 2.6 Consensus size: 27
172956393 ATAGTGAGTC
172956403 CGCACACTTAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTATATAATCAACT
* *
172956430 CGCACACTTAGTGTTATATGATCAAACT
1 CGCACACTTAGTGCTATATAATC-AACT
172956458 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
172956473 GTACAAATTT
Statistics
Matches: 39, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
27 21 0.54
28 18 0.46
ACGTcount: A:0.30, C:0.26, G:0.14, T:0.30
Consensus pattern (27 bp):
CGCACACTTAGTGCTATATAATCAACT
Found at i:172963347 original size:42 final size:42
Alignment explanation
Indices: 172963249--172963414 Score: 147
Period size: 43 Copynumber: 3.9 Consensus size: 42
172963239 TGATATGTGT
* ** * *
172963249 TTTCGTGTAAGCCCACATCTAGGACGTTGGCATTG-ATTTGACA
1 TTTCGTGTAAGACCATGTCTGGGACATTGGCATTGTATTTG--A
172963292 TTTACGTGTAAGACCATGTCTGGGACATTGGCATTGTATTTGA
1 TTT-CGTGTAAGACCATGTCTGGGACATTGGCATTGTATTTGA
* * * ** *
172963335 TTTTGTGTAAGACCCTGTCTGGGACAGTGGCATCAATACTTGA
1 TTTCGTGTAAGACCATGTCTGGGACATTGGCAT-TGTATTTGA
* * *
172963378 TTACATGTAAGA-CATCGTCTGGGACGTTGGCATTGTA
1 TTTCGTGTAAGACCAT-GTCTGGGACATTGGCATTGTA
172963415 CGAGTTTTTT
Statistics
Matches: 100, Mismatches: 19, Indels: 9
0.78 0.15 0.07
Matches are distributed among these distances:
42 31 0.31
43 37 0.37
44 27 0.27
45 5 0.05
ACGTcount: A:0.23, C:0.17, G:0.25, T:0.34
Consensus pattern (42 bp):
TTTCGTGTAAGACCATGTCTGGGACATTGGCATTGTATTTGA
Found at i:172969783 original size:40 final size:40
Alignment explanation
Indices: 172969724--172969931 Score: 202
Period size: 40 Copynumber: 5.2 Consensus size: 40
172969714 CAATTGAATG
* * * *
172969724 ATATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * * **
172969764 ATATCCGGGTTAAGACCCGAAGGCCA-TTGTGCTAGTGACC
1 ATATCCGGGCTAAGACCCGAAGG-CATTTGTGCAAGTAATT
* * **
172969804 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * **
172969844 AAATCCGGGCTAATACCCGAAGGCATTTGTGCAAGTCGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * * **
172969884 CTATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
172969924 ATATCCGG
1 ATATCCGG
172969932 TTGTATTCCG
Statistics
Matches: 140, Mismatches: 26, Indels: 4
0.82 0.15 0.02
Matches are distributed among these distances:
39 2 0.01
40 136 0.97
41 2 0.01
ACGTcount: A:0.25, C:0.24, G:0.26, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
Found at i:172969862 original size:80 final size:80
Alignment explanation
Indices: 172969726--172969931 Score: 236
Period size: 80 Copynumber: 2.6 Consensus size: 80
172969716 ATTGAATGAT
* * ** * * *
172969726 ATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATTATATCCGGGTTAAGACCCGAAGGCCA-
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGG-CAT
*
172969790 TTGTGCTAGT-GACCAC
65 TTGTGCAAGTCGACC-C
* * *
172969806 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTTAAATCCGGGCTAATACCCGAAGGCATT
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCATT
** *
172969871 TGTGCAAGTCGTTCT
66 TGTGCAAGTCGACCC
* *
172969886 ATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTTATATCCGG
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGG
172969932 TTGTATTCCG
Statistics
Matches: 107, Mismatches: 17, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
79 2 0.02
80 103 0.96
81 2 0.02
ACGTcount: A:0.25, C:0.24, G:0.26, T:0.25
Consensus pattern (80 bp):
ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCATT
TGTGCAAGTCGACCC
Found at i:172977834 original size:40 final size:40
Alignment explanation
Indices: 172977775--172977982 Score: 202
Period size: 40 Copynumber: 5.2 Consensus size: 40
172977765 CAATTGAATG
* * * *
172977775 ATATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * * **
172977815 ATATCCGGGTTAAGACCCGAAGGCCA-TTGTGCTAGTGACC
1 ATATCCGGGCTAAGACCCGAAGG-CATTTGTGCAAGTAATT
* * **
172977855 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * **
172977895 AAATCCGGGCTAATACCCGAAGGCATTTGTGCAAGTCGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * * **
172977935 CTATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
172977975 ATATCCGG
1 ATATCCGG
172977983 TTGTATTCCG
Statistics
Matches: 140, Mismatches: 26, Indels: 4
0.82 0.15 0.02
Matches are distributed among these distances:
39 2 0.01
40 136 0.97
41 2 0.01
ACGTcount: A:0.25, C:0.24, G:0.26, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
Found at i:172977913 original size:80 final size:80
Alignment explanation
Indices: 172977777--172977982 Score: 236
Period size: 80 Copynumber: 2.6 Consensus size: 80
172977767 ATTGAATGAT
* * ** * * *
172977777 ATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATTATATCCGGGTTAAGACCCGAAGGCCA-
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGG-CAT
*
172977841 TTGTGCTAGT-GACCAC
65 TTGTGCAAGTCGACC-C
* * *
172977857 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTTAAATCCGGGCTAATACCCGAAGGCATT
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCATT
** *
172977922 TGTGCAAGTCGTTCT
66 TGTGCAAGTCGACCC
* *
172977937 ATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTTATATCCGG
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGG
172977983 TTGTATTCCG
Statistics
Matches: 107, Mismatches: 17, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
79 2 0.02
80 103 0.96
81 2 0.02
ACGTcount: A:0.25, C:0.24, G:0.26, T:0.25
Consensus pattern (80 bp):
ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCATT
TGTGCAAGTCGACCC
Found at i:172980603 original size:28 final size:28
Alignment explanation
Indices: 172980572--172980643 Score: 90
Period size: 28 Copynumber: 2.6 Consensus size: 28
172980562 TTGATATTTT
**
172980572 GCACACTAAGTTTCATTCTCAATATCTC
1 GCACACTAAGTGCCATTCTCAATATCTC
*
172980600 GCACACTAAGTGCCATTCTCAATATTTC
1 GCACACTAAGTGCCATTCTCAATATCTC
* * *
172980628 GTACACTGAGTACCAT
1 GCACACTAAGTGCCAT
172980644 ATTTGATTGC
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 38 1.00
ACGTcount: A:0.29, C:0.28, G:0.11, T:0.32
Consensus pattern (28 bp):
GCACACTAAGTGCCATTCTCAATATCTC
Found at i:172981622 original size:18 final size:18
Alignment explanation
Indices: 172981599--172981633 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
172981589 GATTACTGCA
*
172981599 TACTGCACTGTTTATTGT
1 TACTGCACTATTTATTGT
172981617 TACTGCACTATTTATTG
1 TACTGCACTATTTATTG
172981634 CTACAGTAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.20, C:0.17, G:0.14, T:0.49
Consensus pattern (18 bp):
TACTGCACTATTTATTGT
Found at i:172986068 original size:40 final size:40
Alignment explanation
Indices: 172986023--172986189 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
172986013 CGGAATATAA
172986023 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
172986063 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
172986103 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
172986143 CCGGATATAATTTCCAGCA-AATTGTCTTCGGGGCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
172986182 CCGGATAT
1 CCGGATAT
172986190 CATTCAATTT
Statistics
Matches: 107, Mismatches: 19, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
39 26 0.24
40 81 0.76
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:172999735 original size:40 final size:40
Alignment explanation
Indices: 172999664--172999761 Score: 99
Period size: 40 Copynumber: 2.5 Consensus size: 40
172999654 GGATATAGCG
* * * * *
172999664 ACTCGCTCAAAAGCCTTCGGGACATAGCCCGG-TTATAATA
1 ACTCGCACAAATGCCTTCGGCACATAACCCGGATT-TAAGA
* * **
172999704 GCTCGCACAAATGCCTTCGGCACTTAACCCGGATTTGGGA
1 ACTCGCACAAATGCCTTCGGCACATAACCCGGATTTAAGA
172999744 ACTCGCACAAATGCCTTC
1 ACTCGCACAAATGCCTTC
172999762 AGATCTTAGC
Statistics
Matches: 47, Mismatches: 10, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
40 45 0.96
41 2 0.04
ACGTcount: A:0.27, C:0.31, G:0.20, T:0.22
Consensus pattern (40 bp):
ACTCGCACAAATGCCTTCGGCACATAACCCGGATTTAAGA
Found at i:172999775 original size:40 final size:39
Alignment explanation
Indices: 172999705--172999816 Score: 127
Period size: 40 Copynumber: 2.8 Consensus size: 39
172999695 GTTATAATAG
* *
172999705 CTCGCACAAATGCCTTCGGCACTTAACCCGGATTTGGGAA
1 CTCGCACAAATGCCTTCGG-ACTTAGCCCGGATGTGGGAA
* **
172999745 CTCGCACAAATGCCTTCAGATCTTAGCCCGGATGTGGTCA
1 CTCGCACAAATGCCTTCGGA-CTTAGCCCGGATGTGGGAA
*
172999785 CTTAGCACAAA-GCCTTCGGGACTTAGCCCGGA
1 C-TCGCACAAATGCCTTC-GGACTTAGCCCGGA
172999817 CATCATTCGA
Statistics
Matches: 62, Mismatches: 7, Indels: 6
0.83 0.09 0.08
Matches are distributed among these distances:
39 1 0.02
40 51 0.82
41 10 0.16
ACGTcount: A:0.24, C:0.30, G:0.23, T:0.22
Consensus pattern (39 bp):
CTCGCACAAATGCCTTCGGACTTAGCCCGGATGTGGGAA
Found at i:173002350 original size:21 final size:22
Alignment explanation
Indices: 173002324--173002364 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
173002314 TACTAGACAC
*
173002324 AGGGGC-ACACGCCCGTGTGGG
1 AGGGGCAACACGCCCATGTGGG
173002345 AGGGGCAACACGCCCATGTG
1 AGGGGCAACACGCCCATGTG
173002365 ACTCATCCAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 6 0.33
22 12 0.67
ACGTcount: A:0.20, C:0.29, G:0.41, T:0.10
Consensus pattern (22 bp):
AGGGGCAACACGCCCATGTGGG
Found at i:173003605 original size:46 final size:45
Alignment explanation
Indices: 173003525--173003720 Score: 191
Period size: 46 Copynumber: 4.2 Consensus size: 45
173003515 CATGTCCTGC
* *
173003525 ACATGGTCTTACACTAGC-TCAACTCGTA-GCCGATGCATGTCCCAG
1 ACAT-GTCTTACACTGGCTTCATCTCG-AGGCCGATGCATGTCCCAG
173003570 ACATGTCTTACACTGGCTTACATCTCGAGGCCGATGCATGTCCCAG
1 ACATGTCTTACACTGGCTT-CATCTCGAGGCCGATGCATGTCCCAG
* * * * *
173003616 ACATGTCTTACACTAGCTTTCGTCTCAATGCTGATGCCATGTCCCAG
1 ACATGTCTTACACTGGC-TTCATCTCGAGGCCGATG-CATGTCCCAG
* * * * *
173003663 ACATGGTCTTACACTGGCTCTCATAAT-GTGACCAATGCATGTCTCAG
1 ACAT-GTCTTACACTGGCT-TCAT-CTCGAGGCCGATGCATGTCCCAG
173003710 ACATGTCTTAC
1 ACATGTCTTAC
173003721 GCTAGCACAC
Statistics
Matches: 126, Mismatches: 17, Indels: 15
0.80 0.11 0.09
Matches are distributed among these distances:
44 12 0.10
45 6 0.05
46 58 0.46
47 30 0.24
48 19 0.15
49 1 0.01
ACGTcount: A:0.23, C:0.29, G:0.19, T:0.29
Consensus pattern (45 bp):
ACATGTCTTACACTGGCTTCATCTCGAGGCCGATGCATGTCCCAG
Found at i:173003701 original size:94 final size:92
Alignment explanation
Indices: 173003556--173003726 Score: 238
Period size: 94 Copynumber: 1.8 Consensus size: 92
173003546 ACTCGTAGCC
* * *
173003556 GATGCATGTCCCAGACATGTCTTACACTGGCTTACATCTCGAGGCCGATGCATGTCCCAGACATG
1 GATGCATGTCCCAGACATGTCTTACACTGGCTTACATATCGAGACCAATGCATGTCCCAGACATG
173003621 TCTTACACTAGCTTTCGTCTCAATGCT
66 TCTTACACTAGCTTTCGTCTCAATGCT
* *
173003648 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCT-CATAAT-GTGACCAATGCATGTCTCAGA
1 GATG-CATGTCCCAGACAT-GTCTTACACTGGCT-TACAT-ATCGAGACCAATGCATGTCCCAGA
*
173003711 CATGTCTTACGCTAGC
62 CATGTCTTACACTAGC
173003727 ACACAAATGA
Statistics
Matches: 69, Mismatches: 6, Indels: 6
0.85 0.07 0.07
Matches are distributed among these distances:
92 4 0.06
93 14 0.20
94 49 0.71
95 2 0.03
ACGTcount: A:0.23, C:0.29, G:0.20, T:0.29
Consensus pattern (92 bp):
GATGCATGTCCCAGACATGTCTTACACTGGCTTACATATCGAGACCAATGCATGTCCCAGACATG
TCTTACACTAGCTTTCGTCTCAATGCT
Found at i:173012839 original size:29 final size:29
Alignment explanation
Indices: 173012805--173012936 Score: 137
Period size: 29 Copynumber: 4.6 Consensus size: 29
173012795 TAATCGATCA
*
173012805 CGCACACTTAGTGCCAT-GTGATTT-AAGCT
1 CGCACACTTAGTGCCATACT--TTTCAAGCT
* * **
173012834 CGCACACATAGTGCCGTATA-ATTT-AAATT
1 CGCACACTTAGTGCC--ATACTTTTCAAGCT
173012863 CGCACACTTAGTGCCATACTTTTCAAGCT
1 CGCACACTTAGTGCCATACTTTTCAAGCT
*
173012892 TGCACACTTAGTGCCATACTTTTCAAGCT
1 CGCACACTTAGTGCCATACTTTTCAAGCT
*
173012921 TGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
173012937 ATCTTGTCAC
Statistics
Matches: 89, Mismatches: 9, Indels: 10
0.82 0.08 0.09
Matches are distributed among these distances:
27 3 0.03
28 3 0.03
29 81 0.91
31 2 0.02
ACGTcount: A:0.27, C:0.27, G:0.16, T:0.31
Consensus pattern (29 bp):
CGCACACTTAGTGCCATACTTTTCAAGCT
Found at i:173020779 original size:29 final size:29
Alignment explanation
Indices: 173020745--173020876 Score: 137
Period size: 29 Copynumber: 4.6 Consensus size: 29
173020735 TAATCGATCA
*
173020745 CGCACACTTAGTGCCAT-GTGATTT-AAGCT
1 CGCACACTTAGTGCCATACT--TTTCAAGCT
* * **
173020774 CGCACACATAGTGCCGTATA-ATTT-AAATT
1 CGCACACTTAGTGCC--ATACTTTTCAAGCT
173020803 CGCACACTTAGTGCCATACTTTTCAAGCT
1 CGCACACTTAGTGCCATACTTTTCAAGCT
*
173020832 TGCACACTTAGTGCCATACTTTTCAAGCT
1 CGCACACTTAGTGCCATACTTTTCAAGCT
*
173020861 TGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
173020877 ATCTTGTCAC
Statistics
Matches: 89, Mismatches: 9, Indels: 10
0.82 0.08 0.09
Matches are distributed among these distances:
27 3 0.03
28 3 0.03
29 81 0.91
31 2 0.02
ACGTcount: A:0.27, C:0.27, G:0.16, T:0.31
Consensus pattern (29 bp):
CGCACACTTAGTGCCATACTTTTCAAGCT
Found at i:173024991 original size:29 final size:28
Alignment explanation
Indices: 173024921--173024995 Score: 87
Period size: 28 Copynumber: 2.6 Consensus size: 28
173024911 ATACTCGATT
* *
173024921 TCGCACACTTAGTGCCATGCGATTTAGC
1 TCGCACACTTAGTGCCATGCCATTGAGC
* ** *
173024949 CCGCACACACAGTGCCATGCCCTTCGAGC
1 TCGCACACTTAGTGCCATGCCATT-GAGC
173024978 TCGCACACTTAGTGCCAT
1 TCGCACACTTAGTGCCAT
173024996 ATATTTCCAG
Statistics
Matches: 37, Mismatches: 9, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
28 19 0.51
29 18 0.49
ACGTcount: A:0.21, C:0.36, G:0.20, T:0.23
Consensus pattern (28 bp):
TCGCACACTTAGTGCCATGCCATTGAGC
Found at i:173025012 original size:29 final size:29
Alignment explanation
Indices: 173024979--173025052 Score: 139
Period size: 29 Copynumber: 2.6 Consensus size: 29
173024969 CCTTCGAGCT
173024979 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
*
173025008 TGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
173025037 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
173025053 ATCTCGTCAC
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 43 1.00
ACGTcount: A:0.27, C:0.31, G:0.15, T:0.27
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:173032856 original size:29 final size:28
Alignment explanation
Indices: 173032786--173032860 Score: 87
Period size: 28 Copynumber: 2.6 Consensus size: 28
173032776 ATACTCGATT
* *
173032786 TCGCACACTTAGTGCCATGCGATTTAGC
1 TCGCACACTTAGTGCCATGCCATTGAGC
* ** *
173032814 CCGCACACACAGTGCCATGCCCTTCGAGC
1 TCGCACACTTAGTGCCATGCCATT-GAGC
173032843 TCGCACACTTAGTGCCAT
1 TCGCACACTTAGTGCCAT
173032861 ATATTTCCAG
Statistics
Matches: 37, Mismatches: 9, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
28 19 0.51
29 18 0.49
ACGTcount: A:0.21, C:0.36, G:0.20, T:0.23
Consensus pattern (28 bp):
TCGCACACTTAGTGCCATGCCATTGAGC
Found at i:173032877 original size:29 final size:29
Alignment explanation
Indices: 173032844--173032917 Score: 139
Period size: 29 Copynumber: 2.6 Consensus size: 29
173032834 CCTTCGAGCT
173032844 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
*
173032873 TGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
173032902 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
173032918 ATCTCGTCAC
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 43 1.00
ACGTcount: A:0.27, C:0.31, G:0.15, T:0.27
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:173037006 original size:25 final size:25
Alignment explanation
Indices: 173036978--173037025 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
173036968 CTTATATATG
* * *
173036978 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
173037003 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
173037026 GTTTATGTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:173037093 original size:19 final size:19
Alignment explanation
Indices: 173037069--173037130 Score: 108
Period size: 19 Copynumber: 3.3 Consensus size: 19
173037059 TAAATATGGT
173037069 ATGTATGATATGCACATGA
1 ATGTATGATATGCACATGA
173037088 ATGTATGATATGCACATGA
1 ATGTATGATATGCACATGA
173037107 TATGTATGATATGCACATG-
1 -ATGTATGATATGCACATGA
173037126 ATGTA
1 ATGTA
173037131 ATCATAAATG
Statistics
Matches: 42, Mismatches: 0, Indels: 3
0.93 0.00 0.07
Matches are distributed among these distances:
18 5 0.12
19 19 0.45
20 18 0.43
ACGTcount: A:0.35, C:0.10, G:0.21, T:0.34
Consensus pattern (19 bp):
ATGTATGATATGCACATGA
Found at i:173037106 original size:11 final size:11
Alignment explanation
Indices: 173037073--173037127 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 11
173037063 TATGGTATGT
173037073 ATGATATGCAC
1 ATGATATGCAC
*
173037084 ATGA-ATG--T
1 ATGATATGCAC
173037092 ATGATATGCAC
1 ATGATATGCAC
*
173037103 ATGATATG--T
1 ATGATATGCAC
173037112 ATGATATGCAC
1 ATGATATGCAC
173037123 ATGAT
1 ATGAT
173037128 GTAATCATAA
Statistics
Matches: 35, Mismatches: 4, Indels: 10
0.71 0.08 0.20
Matches are distributed among these distances:
8 4 0.11
9 11 0.31
10 3 0.09
11 17 0.49
ACGTcount: A:0.36, C:0.11, G:0.20, T:0.33
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:173037113 original size:20 final size:20
Alignment explanation
Indices: 173037068--173037127 Score: 113
Period size: 20 Copynumber: 3.0 Consensus size: 20
173037058 ATAAATATGG
173037068 TATGTATGATATGCACATGA
1 TATGTATGATATGCACATGA
173037088 -ATGTATGATATGCACATGA
1 TATGTATGATATGCACATGA
173037107 TATGTATGATATGCACATGA
1 TATGTATGATATGCACATGA
173037127 T
1 T
173037128 GTAATCATAA
Statistics
Matches: 39, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
19 19 0.49
20 20 0.51
ACGTcount: A:0.35, C:0.10, G:0.20, T:0.35
Consensus pattern (20 bp):
TATGTATGATATGCACATGA
Found at i:173037231 original size:23 final size:23
Alignment explanation
Indices: 173037177--173037316 Score: 189
Period size: 24 Copynumber: 6.0 Consensus size: 23
173037167 GAGGAAGTGA
173037177 AAAAGGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTAT
173037200 CAAAAGGGCTTATGCCCCAGTTAT
1 -AAAAGGGCTTATGCCCCAGTTAT
173037224 AAAAGGGCTTATGCCCCAG-T-T
1 AAAAGGGCTTATGCCCCAGTTAT
173037245 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTA-T
*
173037269 GAAAGGGCTT-TGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTA-T
*
173037292 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
173037316 A
1 A
173037317 TGATAAAGCA
Statistics
Matches: 107, Mismatches: 3, Indels: 12
0.88 0.02 0.10
Matches are distributed among these distances:
21 20 0.19
22 2 0.02
23 37 0.35
24 41 0.38
25 7 0.07
ACGTcount: A:0.29, C:0.22, G:0.23, T:0.26
Consensus pattern (23 bp):
AAAAGGGCTTATGCCCCAGTTAT
Found at i:173037264 original size:44 final size:45
Alignment explanation
Indices: 173037177--173037289 Score: 176
Period size: 44 Copynumber: 2.5 Consensus size: 45
173037167 GAGGAAGTGA
173037177 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTA-T
1 AAAAGGGCTTATGCCCCAG-T-T-AAAAGGGCTTATGCCCCAGTTATT
173037224 AAAAGGGCTTATGCCCCAGTTAAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTAAAAGGGCTTATGCCCCAGTTATT
*
173037269 GAAAGGGCTT-TGCCCCAGTTA
1 AAAAGGGCTTATGCCCCAGTTA
173037290 TTAAAAGAGG
Statistics
Matches: 64, Mismatches: 1, Indels: 5
0.91 0.01 0.07
Matches are distributed among these distances:
44 33 0.52
45 11 0.17
46 1 0.02
47 19 0.30
ACGTcount: A:0.28, C:0.23, G:0.23, T:0.26
Consensus pattern (45 bp):
AAAAGGGCTTATGCCCCAGTTAAAAGGGCTTATGCCCCAGTTATT
Found at i:173037295 original size:68 final size:69
Alignment explanation
Indices: 173037177--173037314 Score: 210
Period size: 68 Copynumber: 2.0 Consensus size: 69
173037167 GAGGAAGTGA
*
173037177 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATAAAAG-GGCTTATGCC-C
1 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATAAAAGAGGC-TAGGCCTC
173037240 CAGTT
65 CAGTT
**
173037245 AAAAGGGCTTATGCCCCAGTTATTGAAAGGGCTT-TGCCCCAGTTATTAAAAGAGGCTAGGCCTC
1 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTA-TAAAAGAGGCTAGGCCTC
173037309 CAGTT
65 CAGTT
173037314 A
1 A
173037315 TATGATAAAG
Statistics
Matches: 64, Mismatches: 3, Indels: 5
0.89 0.04 0.07
Matches are distributed among these distances:
67 11 0.17
68 43 0.67
69 10 0.16
ACGTcount: A:0.29, C:0.22, G:0.23, T:0.25
Consensus pattern (69 bp):
AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATAAAAGAGGCTAGGCCTCC
AGTT
Found at i:173037562 original size:31 final size:31
Alignment explanation
Indices: 173037507--173037600 Score: 172
Period size: 31 Copynumber: 3.1 Consensus size: 31
173037497 CGTTTACAGT
173037507 AAAGGCTTCGGCCCAGT-ATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
173037537 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
*
173037568 AAAGGCTTCGGCCCAGTATTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
173037599 AA
1 AA
173037601 TATGAAAAGG
Statistics
Matches: 62, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
30 17 0.27
31 45 0.73
ACGTcount: A:0.38, C:0.16, G:0.22, T:0.23
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:173043623 original size:25 final size:25
Alignment explanation
Indices: 173043594--173043641 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
173043584 CCTTATAATG
* * *
173043594 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
173043619 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
173043642 GTTTATGTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Done.