Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A10
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: 111961792
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4980000 characters in sequence are not A, C, G, or T
File 196 of 344
Found at i:65359307 original size:18 final size:17
Alignment explanation
Indices: 65359284--65359332 Score: 55
Period size: 18 Copynumber: 2.8 Consensus size: 17
65359274 AACTGATTGT
65359284 TACTGAATATTGGACT-A
1 TACTGAATATTGGA-TGA
*
65359301 CTACTGAATGTCTGGATGA
1 -TACTGAATAT-TGGATGA
65359320 TACTGAATATTGG
1 TACTGAATATTGG
65359333 TTATTACTGA
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
17 3 0.11
18 19 0.70
19 5 0.19
ACGTcount: A:0.31, C:0.12, G:0.22, T:0.35
Consensus pattern (17 bp):
TACTGAATATTGGATGA
Found at i:65362232 original size:39 final size:39
Alignment explanation
Indices: 65362120--65362235 Score: 117
Period size: 40 Copynumber: 2.9 Consensus size: 39
65362110 CTGATGAATT
* *
65362120 AAATCAGGCTTATGCCTAGCAGGCTTATTGCCGGTGTATA
1 AAATCAGGCTTAGGCCTAGCAGGCTTA-TGCCGGTGTAGA
* * * *
65362160 AAATCAGACTTCGAGTCTAGCAGGCCTTGTGCCGGTGT-GA
1 AAATCAGGCTTAG-GCCTAGCAGG-CTTATGCCGGTGTAGA
* *
65362200 GATTCAGGCTTAGGCCTAGCAGGCTTTATGCCGGTG
1 AAATCAGGCTTAGGCCTAGCAGGC-TTATGCCGGTG
65362236 ACTTATTATA
Statistics
Matches: 61, Mismatches: 12, Indels: 7
0.76 0.15 0.09
Matches are distributed among these distances:
38 1 0.02
39 19 0.31
40 20 0.33
41 18 0.30
42 3 0.05
ACGTcount: A:0.22, C:0.22, G:0.29, T:0.28
Consensus pattern (39 bp):
AAATCAGGCTTAGGCCTAGCAGGCTTATGCCGGTGTAGA
Found at i:65367745 original size:30 final size:30
Alignment explanation
Indices: 65367709--65367766 Score: 107
Period size: 30 Copynumber: 1.9 Consensus size: 30
65367699 GATTAGCATG
*
65367709 AAATTTCTCTAAAAATAGGCACTTGAGATA
1 AAATTTCTCTAAAAATAGGAACTTGAGATA
65367739 AAATTTCTCTAAAAATAGGAACTTGAGA
1 AAATTTCTCTAAAAATAGGAACTTGAGA
65367767 GTTGTTTAAG
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.45, C:0.12, G:0.14, T:0.29
Consensus pattern (30 bp):
AAATTTCTCTAAAAATAGGAACTTGAGATA
Found at i:65368769 original size:38 final size:38
Alignment explanation
Indices: 65368727--65368817 Score: 128
Period size: 40 Copynumber: 2.3 Consensus size: 38
65368717 GTCCAACCCA
65368727 ACACACCATGTGGGGATAAAATCGACCCACCCAGCCCT
1 ACACACCATGTGGGGATAAAATCGACCCACCCAGCCCT
* * *
65368765 ACACACCAAGTATGGGGATAAAATTGACCCATCCAGCCCT
1 ACACACC-A-TGTGGGGATAAAATCGACCCACCCAGCCCT
*
65368805 ACACACCAAGTGG
1 ACACACCATGTGG
65368818 TACTGTAAAA
Statistics
Matches: 46, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
38 10 0.22
39 2 0.04
40 34 0.74
ACGTcount: A:0.34, C:0.33, G:0.19, T:0.14
Consensus pattern (38 bp):
ACACACCATGTGGGGATAAAATCGACCCACCCAGCCCT
Found at i:65368784 original size:40 final size:40
Alignment explanation
Indices: 65368737--65368815 Score: 140
Period size: 40 Copynumber: 2.0 Consensus size: 40
65368727 ACACACCATG
65368737 TGGGGATAAAATCGACCCACCCAGCCCTACACACCAAGTA
1 TGGGGATAAAATCGACCCACCCAGCCCTACACACCAAGTA
* *
65368777 TGGGGATAAAATTGACCCATCCAGCCCTACACACCAAGT
1 TGGGGATAAAATCGACCCACCCAGCCCTACACACCAAGT
65368816 GGTACTGTAA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 37 1.00
ACGTcount: A:0.34, C:0.33, G:0.18, T:0.15
Consensus pattern (40 bp):
TGGGGATAAAATCGACCCACCCAGCCCTACACACCAAGTA
Found at i:65379328 original size:48 final size:48
Alignment explanation
Indices: 65379247--65379522 Score: 374
Period size: 48 Copynumber: 5.8 Consensus size: 48
65379237 ACTGTGCTAA
* *
65379247 ATGTACCTGTGTAAGACCATGTCTGGGACATGGCATTGGCGATGATAT
1 ATGTGCCTGTGTAAGACCATGTCTGGGACATGGCATCGGCGATGATAT
* * ** *
65379295 ATGTGTCTGTGTAAGACCATGTTTGGGGTATGGCATCAGCGATGATAT
1 ATGTGCCTGTGTAAGACCATGTCTGGGACATGGCATCGGCGATGATAT
* *
65379343 ATGTGCTTGTGTAAGACCATGTCTGGGACATGGCATCGACGATGATAT
1 ATGTGCCTGTGTAAGACCATGTCTGGGACATGGCATCGGCGATGATAT
*
65379391 ATGTGCCTGTGTAAGACCATGTCTGGGACATGGCATTGGCGATGATAT
1 ATGTGCCTGTGTAAGACCATGTCTGGGACATGGCATCGGCGATGATAT
* * *
65379439 GTGTGCCAGTGTAAGGCCATGTCTGGGACATGGCATCGGCGATGATAT
1 ATGTGCCTGTGTAAGACCATGTCTGGGACATGGCATCGGCGATGATAT
* ** * *
65379487 GTG-GATTCATGTAAGACCATGTCGGGGACATGGCAT
1 ATGTGCCT-GTGTAAGACCATGTCTGGGACATGGCAT
65379523 TGGTACTTTA
Statistics
Matches: 200, Mismatches: 27, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
47 1 0.00
48 199 1.00
ACGTcount: A:0.24, C:0.16, G:0.32, T:0.29
Consensus pattern (48 bp):
ATGTGCCTGTGTAAGACCATGTCTGGGACATGGCATCGGCGATGATAT
Found at i:65379515 original size:144 final size:144
Alignment explanation
Indices: 65379247--65379522 Score: 419
Period size: 144 Copynumber: 1.9 Consensus size: 144
65379237 ACTGTGCTAA
* *
65379247 ATGTACCTGTGTAAGACCATGTCTGGGACATGGCATTGGCGATGATATATGTGTCTGTGTAAGAC
1 ATGTACCTGTGTAAGACCATGTCTGGGACATGGCATTGGCGATGATATATGTGCCAGTGTAAGAC
* ** * * *
65379312 CATGTTTGGGGTATGGCATCAGCGATGATATATGTGCTTGTGTAAGACCATGTCTGGGACATGGC
66 CATGTCTGGGACATGGCATCAGCGATGATATATGTGATTATGTAAGACCATGTCGGGGACATGGC
65379377 ATCGACGATGATAT
131 ATCGACGATGATAT
* * *
65379391 ATGTGCCTGTGTAAGACCATGTCTGGGACATGGCATTGGCGATGATATGTGTGCCAGTGTAAGGC
1 ATGTACCTGTGTAAGACCATGTCTGGGACATGGCATTGGCGATGATATATGTGCCAGTGTAAGAC
* *
65379456 CATGTCTGGGACATGGCATCGGCGATGATATGTG-GATTCATGTAAGACCATGTCGGGGACATGG
66 CATGTCTGGGACATGGCATCAGCGATGATATATGTGATT-ATGTAAGACCATGTCGGGGACATGG
65379520 CAT
130 CAT
65379523 TGGTACTTTA
Statistics
Matches: 118, Mismatches: 13, Indels: 2
0.89 0.10 0.02
Matches are distributed among these distances:
143 3 0.03
144 115 0.97
ACGTcount: A:0.24, C:0.16, G:0.32, T:0.29
Consensus pattern (144 bp):
ATGTACCTGTGTAAGACCATGTCTGGGACATGGCATTGGCGATGATATATGTGCCAGTGTAAGAC
CATGTCTGGGACATGGCATCAGCGATGATATATGTGATTATGTAAGACCATGTCGGGGACATGGC
ATCGACGATGATAT
Found at i:65382914 original size:19 final size:19
Alignment explanation
Indices: 65382890--65382929 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
65382880 ATTAATTTTG
65382890 ATCAAATGAAATT-AAATTA
1 ATCAAAT-AAATTAAAATTA
*
65382909 ATCAAATTAATTAAAATTA
1 ATCAAATAAATTAAAATTA
65382928 AT
1 AT
65382930 ATGATATTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 4 0.21
19 15 0.79
ACGTcount: A:0.57, C:0.05, G:0.03, T:0.35
Consensus pattern (19 bp):
ATCAAATAAATTAAAATTA
Found at i:65384195 original size:19 final size:19
Alignment explanation
Indices: 65384171--65384210 Score: 64
Period size: 19 Copynumber: 2.1 Consensus size: 19
65384161 ATTAATTTTG
65384171 ATCAAATTAAATT-AAATTA
1 ATCAAATT-AATTAAAATTA
65384190 ATCAAATTAATTAAAATTA
1 ATCAAATTAATTAAAATTA
65384209 AT
1 AT
65384211 ATGATATTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
18 4 0.20
19 16 0.80
ACGTcount: A:0.57, C:0.05, G:0.00, T:0.38
Consensus pattern (19 bp):
ATCAAATTAATTAAAATTA
Found at i:65385364 original size:41 final size:42
Alignment explanation
Indices: 65385301--65385438 Score: 151
Period size: 41 Copynumber: 3.4 Consensus size: 42
65385291 GCAAATCGGA
* *
65385301 ATAGCTTTGGCTAT-ATATGGCACTTAGTGTGT-GAGACTGA-G
1 ATAGCTTCGGCTATGA-AAGGCACTTAGTGTGTCGAGACT-ATG
65385342 ATAGCTTCGGCTATGAAAGGCACTTAGTGT-TCGAGACTATG
1 ATAGCTTCGGCTATGAAAGGCACTTAGTGTGTCGAGACTATG
** * * *
65385383 ATAGCTTCTACTATGAAAGGCACTTAGTGTG-CAAGATTATA
1 ATAGCTTCGGCTATGAAAGGCACTTAGTGTGTCGAGACTATG
*
65385424 ATAGATTCGGCTATG
1 ATAGCTTCGGCTATG
65385439 CTTTGGCACT
Statistics
Matches: 83, Mismatches: 10, Indels: 8
0.82 0.10 0.08
Matches are distributed among these distances:
40 2 0.02
41 80 0.96
42 1 0.01
ACGTcount: A:0.28, C:0.14, G:0.25, T:0.32
Consensus pattern (42 bp):
ATAGCTTCGGCTATGAAAGGCACTTAGTGTGTCGAGACTATG
Found at i:65387614 original size:49 final size:48
Alignment explanation
Indices: 65387467--65387615 Score: 135
Period size: 49 Copynumber: 3.0 Consensus size: 48
65387457 AAAACCATAG
* * *
65387467 TTGTCGAGCAACCCAAGGTGGTAGAATGTACATATGCTAATAGTCATCG
1 TTGTCGGGCAACCC-AGGTGGTAGAATGTACATATTCTAATAGTCATCA
* * * *
65387516 TTGTCGGGCAACCCAGGATGAT-GGA-GTAAATAGATTGTGAA-AG-CTATCA
1 TTGTCGGGCAACCCAGG-TGGTAGAATGTACAT--ATTCT-AATAGTC-ATCA
*
65387565 TTGTCGGGCAACCCGAGGTGGTAGTATGTACATATTCTAATAGTCATCA
1 TTGTCGGGCAACCC-AGGTGGTAGAATGTACATATTCTAATAGTCATCA
65387614 TT
1 TT
65387616 TCCGAGCAAC
Statistics
Matches: 79, Mismatches: 11, Indels: 20
0.72 0.10 0.18
Matches are distributed among these distances:
47 5 0.06
48 8 0.10
49 53 0.67
50 8 0.10
51 5 0.06
ACGTcount: A:0.30, C:0.17, G:0.26, T:0.28
Consensus pattern (48 bp):
TTGTCGGGCAACCCAGGTGGTAGAATGTACATATTCTAATAGTCATCA
Found at i:65387642 original size:98 final size:97
Alignment explanation
Indices: 65387467--65387647 Score: 231
Period size: 98 Copynumber: 1.9 Consensus size: 97
65387457 AAAACCATAG
* *
65387467 TTGTCGAGCAACCCAAGGTGGTAGAATGTACATATGCTAATAGTCATCGTTGTCGGGCAACCCAG
1 TTGTCGAGCAACCCAAGGTGGTAGAATGTACATATGCTAATAGTCATCATTGTCGAGCAACCCAG
***
65387532 GATGATGGAGTAAATAGATTGTGAAAGCTATCA
66 GATGACAAAGT-AATAGATTGTGAAAGCTATCA
* * * * *
65387565 TTGTCGGGCAACCCGAGGTGGTAGTATGTACATATTCTAATAGTCATCATT-TCCGAGCAACCTA
1 TTGTCGAGCAACCCAAGGTGGTAGAATGTACATATGCTAATAGTCATCATTGT-CGAGCAACCCA
65387629 GGACT-ACAAAGTAATAGAT
65 GGA-TGACAAAGTAATAGAT
65387648 CCGTGCATTC
Statistics
Matches: 71, Mismatches: 10, Indels: 5
0.83 0.12 0.06
Matches are distributed among these distances:
97 8 0.11
98 62 0.87
99 1 0.01
ACGTcount: A:0.31, C:0.18, G:0.24, T:0.27
Consensus pattern (97 bp):
TTGTCGAGCAACCCAAGGTGGTAGAATGTACATATGCTAATAGTCATCATTGTCGAGCAACCCAG
GATGACAAAGTAATAGATTGTGAAAGCTATCA
Found at i:65396293 original size:42 final size:42
Alignment explanation
Indices: 65396213--65396297 Score: 125
Period size: 42 Copynumber: 2.0 Consensus size: 42
65396203 AAGACCTCCT
* * *
65396213 CCTTTGCCTATAGCTGATTGGTGATCTTGACATGGACCTTGA
1 CCTTCGCCTATAACTGATTGGTGATCTAGACATGGACCTTGA
* *
65396255 CCTTCGCCTATAACTGATTGGTGATCTAGACTTTGACCTTGA
1 CCTTCGCCTATAACTGATTGGTGATCTAGACATGGACCTTGA
65396297 C
1 C
65396298 TGTCTTCGAT
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 38 1.00
ACGTcount: A:0.20, C:0.24, G:0.21, T:0.35
Consensus pattern (42 bp):
CCTTCGCCTATAACTGATTGGTGATCTAGACATGGACCTTGA
Found at i:65399547 original size:22 final size:22
Alignment explanation
Indices: 65399530--65399575 Score: 74
Period size: 22 Copynumber: 2.1 Consensus size: 22
65399520 ATAGCAGTAT
*
65399530 AATAGCAAAATGACAGCAAAAC
1 AATAACAAAATGACAGCAAAAC
*
65399552 AATAACAAAATGACAGTAAAAC
1 AATAACAAAATGACAGCAAAAC
65399574 AA
1 AA
65399576 AAGTAGAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.63, C:0.15, G:0.11, T:0.11
Consensus pattern (22 bp):
AATAACAAAATGACAGCAAAAC
Found at i:65403783 original size:27 final size:28
Alignment explanation
Indices: 65403752--65403822 Score: 74
Period size: 27 Copynumber: 2.5 Consensus size: 28
65403742 ATATTTTAAC
**
65403752 ATTAATACATTAAAATATAAATGT-TTG
1 ATTAATACATTAAAATATAAATGTGTAA
* *
65403779 ATTAAATA-ATAAAAATATAATTGTGTAA
1 ATT-AATACATTAAAATATAAATGTGTAA
65403807 ATTTAATACATTAAAA
1 A-TTAATACATTAAAA
65403823 CCATAATTAA
Statistics
Matches: 35, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
27 17 0.49
28 10 0.29
29 8 0.23
ACGTcount: A:0.54, C:0.03, G:0.06, T:0.38
Consensus pattern (28 bp):
ATTAATACATTAAAATATAAATGTGTAA
Found at i:65427160 original size:93 final size:93
Alignment explanation
Indices: 65427045--65427215 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
65427035 GCCCATAAGT
* *
65427045 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
65427110 CGAGCTCGGATGCCTAGTTACATCTCTC
66 CGAGCTCGGATGCCTAGTTACATCTCTC
* *
65427138 GAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
65427203 CGAGTTCGGATGC
66 CGAGCTCGGATGC
65427216 TCAACCATCC
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.27, C:0.29, G:0.22, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCTC
Found at i:65427212 original size:46 final size:46
Alignment explanation
Indices: 65427037--65427212 Score: 207
Period size: 46 Copynumber: 3.8 Consensus size: 46
65427027 TGTAACCCGC
* * *
65427037 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTTGCAT
* *
65427083 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA---C-ATTTGCAT
* *
65427133 CTC-T---CGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
1 C-CATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTTGCAT
*
65427176 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
65427213 TGCTCAACCA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 1 0.01
43 8 0.07
44 1 0.01
46 65 0.59
47 28 0.25
49 1 0.01
50 6 0.05
51 1 0.01
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTTGCAT
Found at i:65429999 original size:26 final size:26
Alignment explanation
Indices: 65429966--65430018 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
65429956 TAAGCATACA
65429966 CGACCTAATGAATGAATGCTTTTAAG
1 CGACCTAATGAATGAATGCTTTTAAG
65429992 CGACCTAATGAATGAATGCTTTTAAG
1 CGACCTAATGAATGAATGCTTTTAAG
65430018 C
1 C
65430019 TAACTCAAAG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.34, C:0.17, G:0.19, T:0.30
Consensus pattern (26 bp):
CGACCTAATGAATGAATGCTTTTAAG
Found at i:65436154 original size:11 final size:11
Alignment explanation
Indices: 65436140--65436164 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
65436130 AAAAAAGTAT
65436140 AAAAAATCATA
1 AAAAAATCATA
65436151 AAAAAATCATA
1 AAAAAATCATA
65436162 AAA
1 AAA
65436165 TATATAGAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.76, C:0.08, G:0.00, T:0.16
Consensus pattern (11 bp):
AAAAAATCATA
Found at i:65436194 original size:29 final size:29
Alignment explanation
Indices: 65436143--65436199 Score: 80
Period size: 29 Copynumber: 2.0 Consensus size: 29
65436133 AAAGTATAAA
65436143 AAATCATAAAAAAATCATAAAATATATAG
1 AAATCATAAAAAAATCATAAAATATATAG
* *
65436172 AAAT-ATAGAAAAAATTATAAAATTTATA
1 AAATCATA-AAAAAATCATAAAATATATA
65436200 AAGTCGTAAG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 3 0.12
29 22 0.88
ACGTcount: A:0.65, C:0.04, G:0.04, T:0.28
Consensus pattern (29 bp):
AAATCATAAAAAAATCATAAAATATATAG
Found at i:65436198 original size:9 final size:9
Alignment explanation
Indices: 65436053--65436201 Score: 52
Period size: 10 Copynumber: 15.6 Consensus size: 9
65436043 AAAAATAAAA
*
65436053 ATAAAAATCA
1 ATAAAAAT-T
*
65436063 ATAAAAGTT
1 ATAAAAATT
65436072 ATAAAAATT
1 ATAAAAATT
*
65436081 AT-TAAATT
1 ATAAAAATT
*
65436089 TTAAAATATAT
1 ATAAAA-AT-T
*
65436100 AAAAAACATT
1 ATAAAA-ATT
*
65436110 -TAAAATTT
1 ATAAAAATT
65436118 ATTAAAAATT
1 A-TAAAAATT
* *
65436128 AGAAAAAAGT
1 A-TAAAAATT
*
65436138 ATAAAAAATC
1 AT-AAAAATT
*
65436148 ATAAAAA-A
1 ATAAAAATT
65436156 ATCATAAAATAT
1 AT-A-AAAAT-T
*
65436168 ATAGAAATAT
1 ATAAAAAT-T
*
65436178 AGAAAAAATT
1 A-TAAAAATT
*
65436188 ATAAAATTT
1 ATAAAAATT
65436197 ATAAA
1 ATAAA
65436202 GTCGTAAGAA
Statistics
Matches: 103, Mismatches: 25, Indels: 23
0.68 0.17 0.15
Matches are distributed among these distances:
8 10 0.10
9 33 0.32
10 45 0.44
11 13 0.13
12 2 0.02
ACGTcount: A:0.64, C:0.03, G:0.03, T:0.30
Consensus pattern (9 bp):
ATAAAAATT
Found at i:65436501 original size:20 final size:21
Alignment explanation
Indices: 65436454--65436501 Score: 71
Period size: 21 Copynumber: 2.3 Consensus size: 21
65436444 CATTTTATAT
*
65436454 TTTTTAATAAAATTTAAATAA
1 TTTTTATTAAAATTTAAATAA
*
65436475 CTTTTATTAAAATTT-AATAA
1 TTTTTATTAAAATTTAAATAA
65436495 TTTTTAT
1 TTTTTAT
65436502 AATTTTTATA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
20 11 0.46
21 13 0.54
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (21 bp):
TTTTTATTAAAATTTAAATAA
Found at i:65438193 original size:17 final size:17
Alignment explanation
Indices: 65438171--65438207 Score: 74
Period size: 17 Copynumber: 2.2 Consensus size: 17
65438161 CTGCTTGATG
65438171 GTTCAATAATTACTTGA
1 GTTCAATAATTACTTGA
65438188 GTTCAATAATTACTTGA
1 GTTCAATAATTACTTGA
65438205 GTT
1 GTT
65438208 TTGGGTTGCC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.32, C:0.11, G:0.14, T:0.43
Consensus pattern (17 bp):
GTTCAATAATTACTTGA
Found at i:65440401 original size:32 final size:32
Alignment explanation
Indices: 65440325--65440407 Score: 89
Period size: 33 Copynumber: 2.6 Consensus size: 32
65440315 CCTGAGCTTG
* * *
65440325 GCCTAATTTTTTTTCCCAAGCCCATGTTTCGG
1 GCCTAATATTTTTGCCCAAGCCCATGTTTCGA
* *
65440357 GCTTAATAATTTTTGCCCAAGCCCATTTTTC-A
1 GCCTAAT-ATTTTTGCCCAAGCCCATGTTTCGA
65440389 GCCTAATGA-TTTTGCCCAA
1 GCCTAAT-ATTTTTGCCCAA
65440408 ACCCTCTCAA
Statistics
Matches: 43, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
31 10 0.23
32 13 0.30
33 20 0.47
ACGTcount: A:0.22, C:0.27, G:0.13, T:0.39
Consensus pattern (32 bp):
GCCTAATATTTTTGCCCAAGCCCATGTTTCGA
Found at i:65442050 original size:2 final size:2
Alignment explanation
Indices: 65442043--65442082 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
65442033 CATTTTGGAA
65442043 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
65442083 TCCATATGAA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:65454802 original size:15 final size:16
Alignment explanation
Indices: 65454782--65454811 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
65454772 CTTCTTGTCT
65454782 TATCTATGTT-CTCTA
1 TATCTATGTTGCTCTA
65454797 TATCTATGTTGCTCT
1 TATCTATGTTGCTCT
65454812 GGCTATTCAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.17, C:0.20, G:0.10, T:0.53
Consensus pattern (16 bp):
TATCTATGTTGCTCTA
Found at i:65455118 original size:30 final size:30
Alignment explanation
Indices: 65455082--65455142 Score: 122
Period size: 30 Copynumber: 2.0 Consensus size: 30
65455072 GGCCAATATG
65455082 ATCCTCCAAGGACCCTTCAAATAATGGGAT
1 ATCCTCCAAGGACCCTTCAAATAATGGGAT
65455112 ATCCTCCAAGGACCCTTCAAATAATGGGAT
1 ATCCTCCAAGGACCCTTCAAATAATGGGAT
65455142 A
1 A
65455143 ACTTAAAATG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.34, C:0.26, G:0.16, T:0.23
Consensus pattern (30 bp):
ATCCTCCAAGGACCCTTCAAATAATGGGAT
Found at i:65464137 original size:18 final size:18
Alignment explanation
Indices: 65464114--65464148 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
65464104 TCATTCAAGT
65464114 ATTGACTTGTCTTTTCTA
1 ATTGACTTGTCTTTTCTA
65464132 ATTGACTTGTCTTTTCT
1 ATTGACTTGTCTTTTCT
65464149 TTATATTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.14, C:0.17, G:0.11, T:0.57
Consensus pattern (18 bp):
ATTGACTTGTCTTTTCTA
Found at i:65465031 original size:25 final size:25
Alignment explanation
Indices: 65464953--65465031 Score: 113
Period size: 25 Copynumber: 3.2 Consensus size: 25
65464943 CCACACGGCC
*
65464953 GTGTCACACACCCGTGTGCCAGGCT
1 GTGTCACACGCCCGTGTGCCAGGCT
* * *
65464978 ATGTCACACGCCCGTGCGCCAGGCC
1 GTGTCACACGCCCGTGTGCCAGGCT
*
65465003 GTGTGACACGCCCGTGTGCCAGGCT
1 GTGTCACACGCCCGTGTGCCAGGCT
65465028 GTGT
1 GTGT
65465032 AACTCACTGA
Statistics
Matches: 46, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 46 1.00
ACGTcount: A:0.14, C:0.35, G:0.32, T:0.19
Consensus pattern (25 bp):
GTGTCACACGCCCGTGTGCCAGGCT
Found at i:65467334 original size:30 final size:30
Alignment explanation
Indices: 65467298--65467357 Score: 120
Period size: 30 Copynumber: 2.0 Consensus size: 30
65467288 AATATCTTTC
65467298 CTAACTACTTTCAAACTTGAGGATGCAACA
1 CTAACTACTTTCAAACTTGAGGATGCAACA
65467328 CTAACTACTTTCAAACTTGAGGATGCAACA
1 CTAACTACTTTCAAACTTGAGGATGCAACA
65467358 TTGTAACATA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.37, C:0.23, G:0.13, T:0.27
Consensus pattern (30 bp):
CTAACTACTTTCAAACTTGAGGATGCAACA
Found at i:65473160 original size:34 final size:33
Alignment explanation
Indices: 65473093--65473213 Score: 109
Period size: 34 Copynumber: 3.6 Consensus size: 33
65473083 ACACGGTCAA
* * *
65473093 CCATCCAACACA-CAGATGCTCGTATGAGCTAAT
1 CCATCCAGCACACCAAATACTCGTATGA-CTAAT
*
65473126 CCATCCAGCACACCAAATATTCGTATGACTTAAT
1 CCATCCAGCACACCAAATACTCGTATGAC-TAAT
** * * *
65473160 CCATCCAGTGCACCAAATGCTCATATTAACTAAT
1 CCATCCAGCACACCAAATACTCGTA-TGACTAAT
**
65473194 TTATCCAGCACACCAAATAC
1 CCATCCAGCACACCAAATAC
65473214 CACTATAATA
Statistics
Matches: 70, Mismatches: 15, Indels: 5
0.78 0.17 0.06
Matches are distributed among these distances:
33 12 0.17
34 55 0.79
35 3 0.04
ACGTcount: A:0.36, C:0.31, G:0.10, T:0.24
Consensus pattern (33 bp):
CCATCCAGCACACCAAATACTCGTATGACTAAT
Found at i:65478126 original size:26 final size:25
Alignment explanation
Indices: 65478097--65478171 Score: 71
Period size: 26 Copynumber: 2.9 Consensus size: 25
65478087 CTCATCCCAT
*
65478097 TTTTACCTTAGTAAAGTTTTTGACAA
1 TTTTACCTTAGTAAA-ATTTTGACAA
* *
65478123 TTTTACCCTTGGTAAAATTTTGACGA
1 TTTTA-CCTTAGTAAAATTTTGACAA
*
65478149 TTTTA-CTCTCGATAAAATTTTGA
1 TTTTACCT-TAG-TAAAATTTTGA
65478172 GAAATTTCGT
Statistics
Matches: 42, Mismatches: 4, Indels: 6
0.81 0.08 0.12
Matches are distributed among these distances:
24 2 0.05
25 2 0.05
26 29 0.69
27 9 0.21
ACGTcount: A:0.29, C:0.13, G:0.12, T:0.45
Consensus pattern (25 bp):
TTTTACCTTAGTAAAATTTTGACAA
Found at i:65482318 original size:10 final size:11
Alignment explanation
Indices: 65482293--65482334 Score: 50
Period size: 11 Copynumber: 3.8 Consensus size: 11
65482283 TAAAAAGTTT
*
65482293 AAAAAGTATAAA
1 AAAAA-TATAAG
*
65482305 AAAAAT-TTAG
1 AAAAATATAAG
65482315 AAAAATATAAG
1 AAAAATATAAG
65482326 AAAAATATA
1 AAAAATATA
65482335 TATTATAAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
10 8 0.31
11 13 0.50
12 5 0.19
ACGTcount: A:0.71, C:0.00, G:0.07, T:0.21
Consensus pattern (11 bp):
AAAAATATAAG
Found at i:65482318 original size:21 final size:20
Alignment explanation
Indices: 65482284--65482331 Score: 60
Period size: 21 Copynumber: 2.4 Consensus size: 20
65482274 AAAAAAAGGT
* *
65482284 AAAAAGTTTAAAAAGTATAA
1 AAAAAATTTAAAAAATATAA
65482304 AAAAAATTTAGAAAAATATAA
1 AAAAAATTTA-AAAAATATAA
*
65482325 GAAAAAT
1 AAAAAAT
65482332 ATATATTATA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
20 9 0.38
21 15 0.62
ACGTcount: A:0.69, C:0.00, G:0.08, T:0.23
Consensus pattern (20 bp):
AAAAAATTTAAAAAATATAA
Found at i:65485723 original size:21 final size:21
Alignment explanation
Indices: 65485680--65485724 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
65485670 AAAGAAGGTT
*
65485680 GGAAGAAAGAGAAAAGGGGAG
1 GGAAGAAAGAGAAAAGGCGAG
* *
65485701 GGAAGAAAGAGAGAAGGCTAG
1 GGAAGAAAGAGAAAAGGCGAG
65485722 GGA
1 GGA
65485725 GAAGCTGAGA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.49, C:0.02, G:0.47, T:0.02
Consensus pattern (21 bp):
GGAAGAAAGAGAAAAGGCGAG
Found at i:65500027 original size:14 final size:16
Alignment explanation
Indices: 65500008--65500047 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 16
65499998 ATTTTGTTAA
65500008 ATTATAA-TA-ATTAT
1 ATTATAATTATATTAT
65500022 ATTATAATTATATTAT
1 ATTATAATTATATTAT
*
65500038 TTTAT-ATTAT
1 ATTATAATTAT
65500048 GAAATAAATA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
14 7 0.30
15 7 0.30
16 9 0.39
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.57
Consensus pattern (16 bp):
ATTATAATTATATTAT
Found at i:65500030 original size:11 final size:11
Alignment explanation
Indices: 65500014--65500047 Score: 52
Period size: 11 Copynumber: 3.2 Consensus size: 11
65500004 TTAAATTATA
65500014 ATAATTATATT
1 ATAATTATATT
65500025 ATAATTATATT
1 ATAATTATATT
*
65500036 AT-TTTATATT
1 ATAATTATATT
65500046 AT
1 AT
65500048 GAAATAAATA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
10 9 0.41
11 13 0.59
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (11 bp):
ATAATTATATT
Found at i:65500198 original size:23 final size:23
Alignment explanation
Indices: 65500155--65500198 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 23
65500145 AGATATTTAT
* *
65500155 TATTATAATTATTATTTAATTGA
1 TATTATAATTATAATTAAATTGA
65500178 TATTA-AATTATAAATTAAATT
1 TATTATAATTAT-AATTAAATT
65500199 AAATAGTTGA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 6 0.33
23 12 0.67
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (23 bp):
TATTATAATTATAATTAAATTGA
Found at i:65500356 original size:28 final size:29
Alignment explanation
Indices: 65500302--65500361 Score: 72
Period size: 28 Copynumber: 2.1 Consensus size: 29
65500292 AGCTAAAGAT
65500302 ATTTATTATAATAATAATTATTAAATT-A
1 ATTTATTATAATAATAATTATTAAATTGA
*
65500330 ATTTATTATAA-AATCATATTA-TGAATTGA
1 ATTTATTATAATAAT-A-ATTATTAAATTGA
65500359 ATT
1 ATT
65500362 AAATTAAAGC
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
27 3 0.11
28 17 0.61
29 8 0.29
ACGTcount: A:0.47, C:0.02, G:0.03, T:0.48
Consensus pattern (29 bp):
ATTTATTATAATAATAATTATTAAATTGA
Found at i:65500488 original size:3 final size:3
Alignment explanation
Indices: 65500482--65500519 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
65500472 ATTATTATTA
65500482 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TT
1 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TT
65500520 AACTAATATA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.00, C:0.00, G:0.32, T:0.68
Consensus pattern (3 bp):
TTG
Found at i:65500632 original size:13 final size:13
Alignment explanation
Indices: 65500600--65500634 Score: 54
Period size: 12 Copynumber: 2.8 Consensus size: 13
65500590 AAACAGGGGG
*
65500600 AAAGGAAAGAAGA
1 AAAGGAAAAAAGA
65500613 AAA-GAAAAAAGA
1 AAAGGAAAAAAGA
65500625 AAAGGAAAAA
1 AAAGGAAAAA
65500635 CTAGGGTTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
12 11 0.55
13 9 0.45
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (13 bp):
AAAGGAAAAAAGA
Found at i:65508370 original size:41 final size:41
Alignment explanation
Indices: 65508301--65508382 Score: 137
Period size: 41 Copynumber: 2.0 Consensus size: 41
65508291 TTTTTGAAAA
*
65508301 AAAAGAGTCAGTTTTCTCTCTATATTCCTGATGATTTCTTT
1 AAAAGAGTCAGTTTTCTCTCCATATTCCTGATGATTTCTTT
* *
65508342 AAAAGAGTCAGTTTTTTCTCCATCTTCCTGATGATTTCTTT
1 AAAAGAGTCAGTTTTCTCTCCATATTCCTGATGATTTCTTT
65508383 CCCCATCTCT
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
41 38 1.00
ACGTcount: A:0.23, C:0.18, G:0.12, T:0.46
Consensus pattern (41 bp):
AAAAGAGTCAGTTTTCTCTCCATATTCCTGATGATTTCTTT
Found at i:65521790 original size:104 final size:105
Alignment explanation
Indices: 65521675--65522362 Score: 675
Period size: 105 Copynumber: 6.7 Consensus size: 105
65521665 TTAAAAGTCA
* * * *
65521675 CGATCTTAAATCAGCTAACTCAAAAATGGATAAGTTGCGATCTTAAATCAACTAACCTTTGTCAA
1 CGATCTTAAATCAGCTAACTCAAAGATGAATAGGTTGCGATCTTAAATCAACTAACCTTTGTAAA
* * * *
65521740 ATCAATCGTGAACGTAGGTCA-CGAGTTGTTTAAGAGCTA
66 ATCAACCGTGAACGTAGGTCATCGAGCTGTTTAAGAGTTG
* * * * * *
65521779 CAATCTTAAATCAACTAACTCAAATATGGATAGGTTGAGATATTAAATCAACTAACCTTTGTAAA
1 CGATCTTAAATCAGCTAACTCAAAGATGAATAGGTTGCGATCTTAAATCAACTAACCTTTGTAAA
* * * * * * * *
65521844 ATTAGCTGTAAACATAGGTTATCAAGCTGTTTAGGAGTTG
66 ATCAACCGTGAACGTAGGTCATCGAGCTGTTTAAGAGTTG
* * * *
65521884 CGATCTTAAATCAGTTAACTCAAAGATGGATAGATTGC-A-C---AA-C-A--AACTTTTGTAAA
1 CGATCTTAAATCAGCTAACTCAAAGATGAATAGGTTGCGATCTTAAATCAACTAACCTTTGTAAA
*** *
65521940 ATCAGTTGTGAACGTAGGTCATCGAGCTATTT-AGAAGTTG
66 ATCAACCGTGAACGTAGGTCATCGAGCTGTTTAAG-AGTTG
* *
65521980 CGATCTTAAATCAGCTAACTCAAAGATGAATAGGTTGTGAT-TTAAATCAGCTAACCTTTGTAAA
1 CGATCTTAAATCAGCTAACTCAAAGATGAATAGGTTGCGATCTTAAATCAACTAACCTTTGTAAA
* * * * * *
65522044 ATCAACCGCGAACATAAGTCGTCGAGCTATTTATGAGTTG
66 ATCAACCGTGAACGTAGGTCATCGAGCTGTTTAAGAGTTG
* * * * * *
65522084 TGATCTTAAATCAGCTAACTCAAATATGAATATGTTACAATCTTAAATCAGCTAACCTTTGTAAA
1 CGATCTTAAATCAGCTAACTCAAAGATGAATAGGTTGCGATCTTAAATCAACTAACCTTTGTAAA
* * * *
65522149 ATCAACCTTAAACGTAGGTCATTGAGTTGTTT-AGAAGTTG
66 ATCAACCGTGAACGTAGGTCATCGAGCTGTTTAAG-AGTTG
* * * * * *
65522189 CGGTCTTAAATCAGCTACCTCAAAGATGAATATGTTGCAATATTAAATCATCTAACCTTTGTAAA
1 CGATCTTAAATCAGCTAACTCAAAGATGAATAGGTTGCGATCTTAAATCAACTAACCTTTGTAAA
** * ** * **
65522254 ATCGGCTGTGAGTGTAGGTCATCGAGCT-ATTCGGAAGTTG
66 ATCAACCGTGAACGTAGGTCATCGAGCTGTTTAAG-AGTTG
* *
65522294 CGATCTTAAATCAGCTAACTCAAAGATGAATAGGTTGTGATCTTAAATCAACTAACCTTTGAAAA
1 CGATCTTAAATCAGCTAACTCAAAGATGAATAGGTTGCGATCTTAAATCAACTAACCTTTGTAAA
65522359 ATCA
66 ATCA
65522363 GCATCTTTAA
Statistics
Matches: 477, Mismatches: 92, Indels: 29
0.80 0.15 0.05
Matches are distributed among these distances:
95 1 0.00
96 75 0.16
97 1 0.00
98 1 0.00
99 1 0.00
100 4 0.01
101 1 0.00
104 152 0.32
105 241 0.51
ACGTcount: A:0.36, C:0.16, G:0.17, T:0.31
Consensus pattern (105 bp):
CGATCTTAAATCAGCTAACTCAAAGATGAATAGGTTGCGATCTTAAATCAACTAACCTTTGTAAA
ATCAACCGTGAACGTAGGTCATCGAGCTGTTTAAGAGTTG
Found at i:65522091 original size:200 final size:203
Alignment explanation
Indices: 65521675--65522325 Score: 600
Period size: 200 Copynumber: 3.2 Consensus size: 203
65521665 TTAAAAGTCA
* * * * *
65521675 CGATCTTAAATCAGCTAACTCAAAAATGGATAAGTTGCGATCTTAAATCAACTAACCTTTGTCAA
1 CGATCTTAAATCAGCTAACTCAAAGATGAATATGTT---A-C---AATCAACAAACCTTTGTAAA
* * * * *
65521740 ATCAATCGTGAACGTAGGTCA-CGAGTTGTTTA-AGAGCTACAATCTTAAATCAACTAACTCAAA
59 ATCAATTGTGAACGTAGGTCATCGAGTTGTTTAGA-AGTTGCGATCTTAAATCAGCTAACTCAAA
* * * * * * * *
65521803 TATGGATAGGTTGAGATATTAAATCAACTAACCTTTGTAAAATTAGCTGTAAACATAGGTTATCA
123 GATGAATAGGTTGAGATATTAAATCAACTAACCTTTGTAAAATCAACCGCAAACATAAGTCATCA
*
65521868 AGCTGTTTAGGAGTTG
188 AGCTATTTAGGAGTTG
* * * * *
65521884 CGATCTTAAATCAGTTAACTCAAAGATGGATA-GATTGC-A-CAACAAACTTTTGTAAAATCAGT
1 CGATCTTAAATCAGCTAACTCAAAGATGAATATG-TTACAATCAACAAACCTTTGTAAAATCAAT
* *
65521946 TGTGAACGTAGGTCATCGAGCTATTTAGAAGTTGCGATCTTAAATCAGCTAACTCAAAGATGAAT
65 TGTGAACGTAGGTCATCGAGTTGTTTAGAAGTTGCGATCTTAAATCAGCTAACTCAAAGATGAAT
* * * * *
65522011 AGGTTGTGAT-TTAAATCAGCTAACCTTTGTAAAATCAACCGCGAACATAAGTCGTCGAGCTATT
130 AGGTTGAGATATTAAATCAACTAACCTTTGTAAAATCAACCGCAAACATAAGTCATCAAGCTATT
*
65522075 TATGAGTTG
195 TAGGAGTTG
* *
65522084 TGATCTTAAATCAGCTAACTCAAATATGAATATGTTACAATCTTAAATCAGCTAACCTTTGTAAA
1 CGATCTTAAATCAGCTAACTCAAAGATGAATATGTTACAATC---AA-CA---AACCTTTGTAAA
* * * * *
65522149 ATCAACCT-TAAACGTAGGTCATTGAGTTGTTTAGAAGTTGCGGTCTTAAATCAGCTACCTCAAA
59 ATCAA-TTGTGAACGTAGGTCATCGAGTTGTTTAGAAGTTGCGATCTTAAATCAGCTAACTCAAA
* * ** * ** *** *
65522213 GATGAATATGTTGCA-ATATTAAATCATCTAACCTTTGTAAAATCGGCTGTGAGTGTAGGTCATC
123 GATGAATAGGTTG-AGATATTAAATCAACTAACCTTTGTAAAATCAACCGCAAACATAAGTCATC
* *
65522277 GAGCTA-TTCGGAAGTTG
187 AAGCTATTTAGG-AGTTG
65522294 CGATCTTAAATCAGCTAACTCAAAGATGAATA
1 CGATCTTAAATCAGCTAACTCAAAGATGAATA
65522326 GGTTGTGATC
Statistics
Matches: 366, Mismatches: 59, Indels: 33
0.80 0.13 0.07
Matches are distributed among these distances:
200 115 0.31
201 51 0.14
202 2 0.01
205 3 0.01
206 2 0.01
208 1 0.00
209 114 0.31
210 78 0.21
ACGTcount: A:0.35, C:0.16, G:0.18, T:0.31
Consensus pattern (203 bp):
CGATCTTAAATCAGCTAACTCAAAGATGAATATGTTACAATCAACAAACCTTTGTAAAATCAATT
GTGAACGTAGGTCATCGAGTTGTTTAGAAGTTGCGATCTTAAATCAGCTAACTCAAAGATGAATA
GGTTGAGATATTAAATCAACTAACCTTTGTAAAATCAACCGCAAACATAAGTCATCAAGCTATTT
AGGAGTTG
Found at i:65522182 original size:305 final size:309
Alignment explanation
Indices: 65521675--65522362 Score: 834
Period size: 305 Copynumber: 2.2 Consensus size: 309
65521665 TTAAAAGTCA
* * * * *
65521675 CGATCTTAAATCAGCTAACTCAAAAATGGATAAGTTGCGATCTTAAATCAACTAACCTTTGTCAA
1 CGATCTTAAATCAGCTAACTCAAAGATGAATAGGTTGTGATCTTAAATCAACTAACCTTTGTAAA
* * * * * *
65521740 ATCAATCGTGAACGTAGGTCACGAGTTGTTTAAGAGCTACAATCTTAAATCAACTAACTCAAATA
66 ATCAACCGCGAACATAAGTCACGAGCTATTTAAGAGCTACAATCTTAAATCAACTAACTCAAATA
* * * * *
65521805 TGGATAGGTTGAGATATTAAATCAACTAACCTTTGTAAAATTAGCTGTAAACATAGGTTATCAAG
131 TGAATAGGTTGAAATATTAAATCAACTAACCTTTGTAAAATAACCTGTAAACATAGGTCATCAAG
* * * *
65521870 CTGTTTAGGAGTTGCGATCTTAAATCAGTTAACTCAAAGATGGATA-GATTGC-A-CAA-CA-AA
196 CTGTTTAGAAGTTGCGATCTTAAATCAGCTAACTCAAAGATGAATATG-TTGCAATAAATCATAA
* * *
65521930 CTTTTGTAAAATCAGTTGTGAACGTAGGTCATCGAGCTATTTAGAAGTTG
260 CCTTTGTAAAATCAGCTGTGAACGTAGGTCATCGAGCTATTCAGAAGTTG
*
65521980 CGATCTTAAATCAGCTAACTCAAAGATGAATAGGTTGTGAT-TTAAATCAGCTAACCTTTGTAAA
1 CGATCTTAAATCAGCTAACTCAAAGATGAATAGGTTGTGATCTTAAATCAACTAACCTTTGTAAA
* * * *** *
65522044 ATCAACCGCGAACATAAGTCGTCGAGCTATTTATGAGTTGTGATCTTAAATCAGCTAACTCAAAT
66 ATCAACCGCGAACATAAGTC-ACGAGCTATTTAAGAGCTACAATCTTAAATCAACTAACTCAAAT
* * * * *
65522109 ATGAATATGTT-ACAATCTTAAATCAGCTAACCTTTGTAAAATCAACCT-TAAACGTAGGTCATT
130 ATGAATAGGTTGA-AATATTAAATCAACTAACCTTTGTAAAAT-AACCTGTAAACATAGGTCATC
* * * *
65522172 GAGTTGTTTAGAAGTTGCGGTCTTAAATCAGCTACCTCAAAGATGAATATGTTGCAATATTAAAT
193 AAGCTGTTTAGAAGTTGCGATCTTAAATCAGCTAACTCAAAGATGAATATGTTGC-A-A-TAAAT
* ** *
65522237 CATCTAACCTTTGTAAAATCGGCTGTGAGTGTAGGTCATCGAGCTATTCGGAAGTTG
255 CA--TAACCTTTGTAAAATCAGCTGTGAACGTAGGTCATCGAGCTATTCAGAAGTTG
*
65522294 CGATCTTAAATCAGCTAACTCAAAGATGAATAGGTTGTGATCTTAAATCAACTAACCTTTGAAAA
1 CGATCTTAAATCAGCTAACTCAAAGATGAATAGGTTGTGATCTTAAATCAACTAACCTTTGTAAA
65522359 ATCA
66 ATCA
65522363 GCATCTTTAA
Statistics
Matches: 323, Mismatches: 46, Indels: 18
0.83 0.12 0.05
Matches are distributed among these distances:
304 38 0.12
305 165 0.51
306 4 0.01
308 1 0.00
310 2 0.01
311 2 0.01
314 86 0.27
315 25 0.08
ACGTcount: A:0.36, C:0.16, G:0.17, T:0.31
Consensus pattern (309 bp):
CGATCTTAAATCAGCTAACTCAAAGATGAATAGGTTGTGATCTTAAATCAACTAACCTTTGTAAA
ATCAACCGCGAACATAAGTCACGAGCTATTTAAGAGCTACAATCTTAAATCAACTAACTCAAATA
TGAATAGGTTGAAATATTAAATCAACTAACCTTTGTAAAATAACCTGTAAACATAGGTCATCAAG
CTGTTTAGAAGTTGCGATCTTAAATCAGCTAACTCAAAGATGAATATGTTGCAATAAATCATAAC
CTTTGTAAAATCAGCTGTGAACGTAGGTCATCGAGCTATTCAGAAGTTG
Found at i:65528174 original size:19 final size:19
Alignment explanation
Indices: 65528143--65528185 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
65528133 GTTTGAAAAA
*
65528143 AAAT-ATTTGCTTGTACAT
1 AAATAATTTACTTGTACAT
*
65528161 AAATAATTTACTTGTTCAT
1 AAATAATTTACTTGTACAT
65528180 AAATAA
1 AAATAA
65528186 ATAAACTGAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 4 0.18
19 18 0.82
ACGTcount: A:0.42, C:0.09, G:0.07, T:0.42
Consensus pattern (19 bp):
AAATAATTTACTTGTACAT
Found at i:65535533 original size:21 final size:21
Alignment explanation
Indices: 65535485--65535534 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 21
65535475 TATACATTAA
*
65535485 AAATATAT-AAAAATAGAAAT
1 AAATATATAAAAAATACAAAT
* *
65535505 AAACATATAAAAAATTCAAAT
1 AAATATATAAAAAATACAAAT
*
65535526 ATATATATA
1 AAATATATA
65535535 GAATCTAGAA
Statistics
Matches: 24, Mismatches: 5, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
20 7 0.29
21 17 0.71
ACGTcount: A:0.66, C:0.04, G:0.02, T:0.28
Consensus pattern (21 bp):
AAATATATAAAAAATACAAAT
Found at i:65538081 original size:12 final size:12
Alignment explanation
Indices: 65538066--65538093 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
65538056 AAGTCAATTT
65538066 TTATAAATACTC
1 TTATAAATACTC
65538078 TTATAAATACTC
1 TTATAAATACTC
65538090 TTAT
1 TTAT
65538094 CAGGGAAGTC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.39, C:0.14, G:0.00, T:0.46
Consensus pattern (12 bp):
TTATAAATACTC
Found at i:65541700 original size:15 final size:15
Alignment explanation
Indices: 65541676--65541705 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
65541666 ATAATGATTA
*
65541676 AAAAATATTATTTAC
1 AAAAACATTATTTAC
65541691 AAAAACATTATTTAC
1 AAAAACATTATTTAC
65541706 GAATATAAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.53, C:0.10, G:0.00, T:0.37
Consensus pattern (15 bp):
AAAAACATTATTTAC
Found at i:65544713 original size:42 final size:43
Alignment explanation
Indices: 65544635--65544720 Score: 113
Period size: 42 Copynumber: 2.0 Consensus size: 43
65544625 TTACGTTTTA
*
65544635 GAACCACACTGGCAGAGGACATAGGAGTGTGCCCAGGCCGTGT
1 GAACCACACGGGCAGAGGACATAGGAGTGTGCCCAGGCCGTGT
* * *
65544678 GAACCACACGGGCA-AGGACATGGGCA-TGTGTCCAGGTCGTGT
1 GAACCACACGGGCAGAGGACATAGG-AGTGTGCCCAGGCCGTGT
65544720 G
1 G
65544721 GCATATAAAT
Statistics
Matches: 38, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
42 24 0.63
43 14 0.37
ACGTcount: A:0.24, C:0.24, G:0.36, T:0.15
Consensus pattern (43 bp):
GAACCACACGGGCAGAGGACATAGGAGTGTGCCCAGGCCGTGT
Found at i:65546735 original size:54 final size:53
Alignment explanation
Indices: 65546677--65546785 Score: 166
Period size: 54 Copynumber: 2.0 Consensus size: 53
65546667 TGAAATTAAC
* *
65546677 TATTTAAATGGTAATTTCAT-TTTTTTAATGTTAAATTTTTTTGATAAGTAATAA
1 TATTTAAATGGTAATTTCATGTCTTTTAATATT-AA-TTTTTTGATAAGTAATAA
*
65546731 TATTTAAATGGTAATTTCATGTCTTTTACTATTAATTTTTTGATAAGTAATAA
1 TATTTAAATGGTAATTTCATGTCTTTTAATATTAATTTTTTGATAAGTAATAA
65546784 TA
1 TA
65546786 ATTTTTTTTA
Statistics
Matches: 51, Mismatches: 3, Indels: 3
0.89 0.05 0.05
Matches are distributed among these distances:
53 20 0.39
54 22 0.43
55 9 0.18
ACGTcount: A:0.35, C:0.04, G:0.09, T:0.52
Consensus pattern (53 bp):
TATTTAAATGGTAATTTCATGTCTTTTAATATTAATTTTTTGATAAGTAATAA
Found at i:65551021 original size:53 final size:53
Alignment explanation
Indices: 65550940--65551085 Score: 204
Period size: 53 Copynumber: 2.7 Consensus size: 53
65550930 CTTACACGGT
* *
65550940 TCACATATCATACCGAAGCCATATCCCAGAC-ATGGTCTTATACGAAATCACATTA
1 TCACAT-T-ATACCGATGCCATAGCCCAG-CTATGGTCTTATACGAAATCACATTA
* *
65550995 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAGTCACATTA
1 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGAAATCACATTA
**
65551048 TCACATTGCACCGATGCCATAGCCCAGCTATGGTCTTA
1 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTA
65551086 AACGGGCACA
Statistics
Matches: 84, Mismatches: 6, Indels: 4
0.89 0.06 0.04
Matches are distributed among these distances:
52 1 0.01
53 76 0.90
54 1 0.01
55 6 0.07
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (53 bp):
TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGAAATCACATTA
Found at i:65555611 original size:53 final size:53
Alignment explanation
Indices: 65555519--65555669 Score: 196
Period size: 53 Copynumber: 2.8 Consensus size: 53
65555509 CTTACACGGT
* * * *
65555519 TCACATATCATACCGAAGCCATATCCTAGAC-ATGATCTTATACGGAATCACATTA
1 TCACAT-T-ATACCGATGCCATAGCCCAG-CTATGGTCTTATACGGAATCACATTA
*
65555574 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAGTCACATTA
1 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAATCACATTA
** *
65555627 TCACATTGCACCGATGCCATAGCCCAGCTATGGTCTTAAACGG
1 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGG
65555670 GCACACTTAT
Statistics
Matches: 87, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
52 1 0.01
53 79 0.91
54 1 0.01
55 6 0.07
ACGTcount: A:0.30, C:0.27, G:0.16, T:0.26
Consensus pattern (53 bp):
TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAATCACATTA
Found at i:65565448 original size:3 final size:3
Alignment explanation
Indices: 65565435--65565517 Score: 59
Period size: 3 Copynumber: 27.3 Consensus size: 3
65565425 GAGGGCATAT
65565435 ATA AT- ATA ATA AT- ATAA ATA ATA ATA TATA CATGA GA-A ATA ATA
1 ATA ATA ATA ATA ATA AT-A ATA ATA ATA -ATA -AT-A -ATA ATA ATA
* *
65565479 ATA ATA AT- ATAA ATA ATA GTA AAA ATA ATA A-A ATA ATA A
1 ATA ATA ATA AT-A ATA ATA ATA ATA ATA ATA ATA ATA ATA A
65565518 AACAAAGCTC
Statistics
Matches: 65, Mismatches: 6, Indels: 18
0.73 0.07 0.20
Matches are distributed among these distances:
2 9 0.14
3 45 0.69
4 9 0.14
5 2 0.03
ACGTcount: A:0.65, C:0.01, G:0.04, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:65565457 original size:12 final size:12
Alignment explanation
Indices: 65565433--65565514 Score: 69
Period size: 12 Copynumber: 6.5 Consensus size: 12
65565423 GAGAGGGCAT
65565433 ATATAATATAATA
1 ATATAA-ATAATA
65565446 ATATAAATAATA
1 ATATAAATAATA
65565458 ATATATACATGAGA-A
1 ATATA-A-AT-A-ATA
65565473 ATA-ATAATAATA
1 ATATA-AATAATA
65565485 ATATAAATAATA
1 ATATAAATAATA
* *
65565497 GTAAAAATAATA
1 ATATAAATAATA
*
65565509 AAATAA
1 ATATAA
65565515 TAAAACAAAG
Statistics
Matches: 58, Mismatches: 5, Indels: 13
0.76 0.07 0.17
Matches are distributed among these distances:
11 1 0.02
12 36 0.62
13 10 0.17
14 5 0.09
15 5 0.09
16 1 0.02
ACGTcount: A:0.65, C:0.01, G:0.04, T:0.30
Consensus pattern (12 bp):
ATATAAATAATA
Found at i:65565476 original size:21 final size:18
Alignment explanation
Indices: 65565435--65565517 Score: 73
Period size: 18 Copynumber: 4.6 Consensus size: 18
65565425 GAGGGCATAT
*
65565435 ATAAT-ATAATAATATAA
1 ATAATAATAATAATAGAA
65565452 ATAATAATATATACATGAGAA
1 ATAATAATA-ATA-AT-AGAA
*
65565473 ATAATAATAATAATATAA
1 ATAATAATAATAATAGAA
* *
65565491 ATAATAGTAAAAATA-ATA
1 ATAATAATAATAATAGA-A
65565509 A-AATAATAA
1 ATAATAATAA
65565518 AACAAAGCTC
Statistics
Matches: 56, Mismatches: 5, Indels: 10
0.79 0.07 0.14
Matches are distributed among these distances:
17 13 0.23
18 21 0.38
19 5 0.09
20 5 0.09
21 12 0.21
ACGTcount: A:0.65, C:0.01, G:0.04, T:0.30
Consensus pattern (18 bp):
ATAATAATAATAATAGAA
Found at i:65565505 original size:27 final size:27
Alignment explanation
Indices: 65565433--65565518 Score: 74
Period size: 27 Copynumber: 3.3 Consensus size: 27
65565423 GAGAGGGCAT
* *
65565433 ATATAATATAATAATATAAATAATAAT-
1 ATATAA-ATAATAGTAAAAATAATAATA
* *
65565460 ATATACAT--GAG-AAATAATAATAATA
1 ATATAAATAATAGTAAA-AATAATAATA
65565485 ATATAAATAATAGTAAAAATAATAA-A
1 ATATAAATAATAGTAAAAATAATAATA
65565511 ATAATAAA
1 AT-ATAAA
65565519 ACAAAGCTCT
Statistics
Matches: 47, Mismatches: 6, Indels: 12
0.72 0.09 0.18
Matches are distributed among these distances:
23 2 0.04
24 10 0.21
25 7 0.15
26 5 0.11
27 20 0.43
28 3 0.06
ACGTcount: A:0.65, C:0.01, G:0.03, T:0.30
Consensus pattern (27 bp):
ATATAAATAATAGTAAAAATAATAATA
Found at i:65565993 original size:22 final size:22
Alignment explanation
Indices: 65565965--65566014 Score: 91
Period size: 22 Copynumber: 2.3 Consensus size: 22
65565955 GGAGTGGTTG
*
65565965 GGGTGGTTTAGGTGGCCAAGGT
1 GGGTGGTTTAGATGGCCAAGGT
65565987 GGGTGGTTTAGATGGCCAAGGT
1 GGGTGGTTTAGATGGCCAAGGT
65566009 GGGTGG
1 GGGTGG
65566015 CCAACAAGGG
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.14, C:0.08, G:0.52, T:0.26
Consensus pattern (22 bp):
GGGTGGTTTAGATGGCCAAGGT
Found at i:65566041 original size:38 final size:38
Alignment explanation
Indices: 65565999--65566084 Score: 145
Period size: 38 Copynumber: 2.3 Consensus size: 38
65565989 GTGGTTTAGA
*
65565999 TGGCCAAGGTGGGTGGCCAACAAGGGTAGTAGAGTAGG
1 TGGCCAAGGTGGGTGGCCAAAAAGGGTAGTAGAGTAGG
* *
65566037 TGGCCAAGGTGGGTGGCCAAAAAGGGTGGTGGAGTAGG
1 TGGCCAAGGTGGGTGGCCAAAAAGGGTAGTAGAGTAGG
65566075 TGGCCAAGGT
1 TGGCCAAGGT
65566085 TATTTATTTA
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
38 45 1.00
ACGTcount: A:0.24, C:0.13, G:0.47, T:0.16
Consensus pattern (38 bp):
TGGCCAAGGTGGGTGGCCAAAAAGGGTAGTAGAGTAGG
Found at i:65566389 original size:44 final size:44
Alignment explanation
Indices: 65566334--65567181 Score: 687
Period size: 44 Copynumber: 19.3 Consensus size: 44
65566324 TGAGTTCTTG
* * * *
65566334 ATCTGCT-TCTTCGATTTGTTCCCCATAAACACAGAGATGCCAA
1 ATCTGCTATCTTCGATCTGTTCCCTATAAGCACAGGGATGCCAA
* * * * *
65566377 ATCTGATGTCTTC-AACTGGTTCCCTATAAACACAAGGATGCCAA
1 ATCTGCTATCTTCGATCT-GTTCCCTATAAGCACAGGGATGCCAA
* *
65566421 ATCTGCTATCTTC-AACTTGTTCCCTATAAGCACAGGGATTCC--
1 ATCTGCTATCTTCGATC-TGTTCCCTATAAGCACAGGGATGCCAA
** * * * * * *
65566463 ATGCTGAAATCATCGATCTGCTTCACTGTAAGCACAGGAATGTCAG
1 AT-CTGCTATCTTCGATCTG-TTCCCTATAAGCACAGGGATGCCAA
* * *
65566509 ATCTGCTATCTTCGATCCGTTCCCTATAAGCACAAGGATTCC--
1 ATCTGCTATCTTCGATCTGTTCCCTATAAGCACAGGGATGCCAA
** * * * *
65566551 ATGCTGAAATCTTCGATCTGCTTCACC-GTAAGCACAGGAATGTCAG
1 AT-CTGCTATCTTCGATCTG-TTC-CCTATAAGCACAGGGATGCCAA
* * *
65566597 ATCTGTTATCTTCGATCCGTTCCCTATAAGCACAGGGATTCC--
1 ATCTGCTATCTTCGATCTGTTCCCTATAAGCACAGGGATGCCAA
** * * * *
65566639 ATGCTGAAATCTTCGATCTGCTTCACC-GTAAGCACAGGAATGTCAG
1 AT-CTGCTATCTTCGATCTG-TTC-CCTATAAGCACAGGGATGCCAA
*
65566685 ATCTGCTATCTTCGATCTGTTCCCTATAAGTACAGGGATGCCAA
1 ATCTGCTATCTTCGATCTGTTCCCTATAAGCACAGGGATGCCAA
* * *
65566729 ATCTGCTATTTTC-AACTTGTTACCTATAAGCACAGGGATGCCAA
1 ATCTGCTATCTTCGATC-TGTTCCCTATAAGCACAGGGATGCCAA
* *
65566773 ATCTGCTATCTTC-AACTTGTTCCCTATAAGCACAGGGATTCC--
1 ATCTGCTATCTTCGATC-TGTTCCCTATAAGCACAGGGATGCCAA
** * * * ** *
65566815 ATGCTGAAATCTTCGATCTGCTT-CATCGTAAGCACAGGAATATCAG
1 AT-CTGCTATCTTCGATCTG-TTCCCT-ATAAGCACAGGGATGCCAA
65566861 ATCTGCTATCTTCGATCTGTTCCCTATAAGCACAGGGATGCCAA
1 ATCTGCTATCTTCGATCTGTTCCCTATAAGCACAGGGATGCCAA
* * *
65566905 ATCTGCTGTTTTC-AACTTGTTCCCTATAAGCACAGGGATGCCAA
1 ATCTGCTATCTTCGATC-TGTTCCCTATAAGCACAGGGATGCCAA
* ** * * * * *
65566949 GT-TGAAATCTTCGATCTGCTTCACTGTAAGCACAGGAATGTCAG
1 ATCTGCTATCTTCGATCTG-TTCCCTATAAGCACAGGGATGCCAA
65566993 ATCTGCTATCTTCGATCTGTTCCCTATAAGCACAGGGATGCCAA
1 ATCTGCTATCTTCGATCTGTTCCCTATAAGCACAGGGATGCCAA
* *
65567037 ATCTGCTGTCTTC-AACTTGTTCCCTATAAGCACAGGGATGCCAA
1 ATCTGCTATCTTCGATC-TGTTCCCTATAAGCACAGGGATGCCAA
* * *
65567081 ATCTGCTGTTTTC-AACTTGTTCCCTATAAGCACAGGGATGCC--
1 ATCTGCTATCTTCGATC-TGTTCCCTATAAGCACAGGGATGCCAA
** * * * * *
65567123 ATGCTGAAATCTTCGATCTGCTTCACTGTAAGCACAGGAATGTCAG
1 AT-CTGCTATCTTCGATCTG-TTCCCTATAAGCACAGGGATGCCAA
65567169 ATCTGCTATCTTC
1 ATCTGCTATCTTC
65567182 AGTCTGCTCC
Statistics
Matches: 649, Mismatches: 118, Indels: 74
0.77 0.14 0.09
Matches are distributed among these distances:
42 10 0.02
43 86 0.13
44 456 0.70
45 87 0.13
46 10 0.02
ACGTcount: A:0.26, C:0.25, G:0.18, T:0.30
Consensus pattern (44 bp):
ATCTGCTATCTTCGATCTGTTCCCTATAAGCACAGGGATGCCAA
Found at i:65566640 original size:176 final size:175
Alignment explanation
Indices: 65566333--65567123 Score: 841
Period size: 176 Copynumber: 4.5 Consensus size: 175
65566323 TTGAGTTCTT
* * * * ** *
65566333 GATCTGCT-TCTTCGATTTGTTCCCCATAAACACAGAGATGCCAAATCTGATGTCTTCAACTGGT
1 GATCTGCTATCTTCGATCTGTTCCCTATAAGCACAGGGATGCC-AATCTGAAATCTTCAACTTGT
* * *
65566397 TCCCTATAAACACAAGG-ATGCCAAATCTGCTATCTTCAACTTGTTCCCTATAAGCACAGGGATT
65 TACCTATAAGCAC-AGGAATGCCAAATCTGCTATCTTCAACTCGTTCCCTATAAGCACAGGGATT
*
65566461 CCATGCTGAAATCATCGATCTGCTTCACTGTAAGCACAGGAATGTCA
129 CCATGCTGAAATCTTCGATCTGCTTCACTGTAAGCACAGGAATGTCA
* * * *
65566508 GATCTGCTATCTTCGATCCGTTCCCTATAAGCACAAGGATTCC-ATGCTGAAATCTTCGA-TCTG
1 GATCTGCTATCTTCGATCTGTTCCCTATAAGCACAGGGATGCCAAT-CTGAAATCTTCAACT-TG
* * * * *
65566571 CTTCACC-GTAAGCACAGGAATGTCAGATCTGTTATCTTCGA-TCCGTTCCCTATAAGCACAGGG
64 -TT-ACCTATAAGCACAGGAATGCCAAATCTGCTATCTTCAACT-CGTTCCCTATAAGCACAGGG
*
65566634 ATTCCATGCTGAAATCTTCGATCTGCTTCACCGTAAGCACAGGAATGTCA
126 ATTCCATGCTGAAATCTTCGATCTGCTTCACTGTAAGCACAGGAATGTCA
* ** *
65566684 GATCTGCTATCTTCGATCTGTTCCCTATAAGTACAGGGATGCCAAATCTGCTATTTTCAACTTGT
1 GATCTGCTATCTTCGATCTGTTCCCTATAAGCACAGGGATGCC-AATCTGAAATCTTCAACTTGT
* *
65566749 TACCTATAAGCACAGGGATGCCAAATCTGCTATCTTCAACTTGTTCCCTATAAGCACAGGGATTC
65 TACCTATAAGCACAGGAATGCCAAATCTGCTATCTTCAACTCGTTCCCTATAAGCACAGGGATTC
*
65566814 CATGCTGAAATCTTCGATCTGCTTCA-TCGTAAGCACAGGAATATCA
130 CATGCTGAAATCTTCGATCTGCTTCACT-GTAAGCACAGGAATGTCA
*** *
65566860 GATCTGCTATCTTCGATCTGTTCCCTATAAGCACAGGGATGCCAAATCTGCTGTTTTCAACTTGT
1 GATCTGCTATCTTCGATCTGTTCCCTATAAGCACAGGGATGCC-AATCTGAAATCTTCAACTTGT
* * * ** * * * *
65566925 TCCCTATAAGCACAGGGATGCCAAGT-TGAAATCTTCGA-TCTGCTTCACTGTAAGCACAGGAAT
65 TACCTATAAGCACAGGAATGCCAAATCTGCTATCTTCAACTC-G-TTCCCTATAAGCACAGGGAT
* ** * * * *
65566988 GTCAGAT-CTGCTATCTTCGATCTG-TTCCCTATAAGCACAGGGATGCCA
128 -TC-CATGCTGAAATCTTCGATCTGCTTCACTGTAAGCACAGGAATGTCA
* * * *** *
65567036 AATCTGCTGTCTTC-AACTTGTTCCCTATAAGCACAGGGATGCCAAATCTGCTGTTTTCAACTTG
1 GATCTGCTATCTTCGATC-TGTTCCCTATAAGCACAGGGATGCC-AATCTGAAATCTTCAACTTG
* *
65567100 TTCCCTATAAGCACAGGGATGCCA
64 TTACCTATAAGCACAGGAATGCCA
65567124 TGCTGAAATC
Statistics
Matches: 537, Mismatches: 60, Indels: 37
0.85 0.09 0.06
Matches are distributed among these distances:
174 4 0.01
175 38 0.07
176 458 0.85
177 32 0.06
178 5 0.01
ACGTcount: A:0.26, C:0.26, G:0.18, T:0.30
Consensus pattern (175 bp):
GATCTGCTATCTTCGATCTGTTCCCTATAAGCACAGGGATGCCAATCTGAAATCTTCAACTTGTT
ACCTATAAGCACAGGAATGCCAAATCTGCTATCTTCAACTCGTTCCCTATAAGCACAGGGATTCC
ATGCTGAAATCTTCGATCTGCTTCACTGTAAGCACAGGAATGTCA
Found at i:65567323 original size:68 final size:68
Alignment explanation
Indices: 65567239--65567431 Score: 262
Period size: 68 Copynumber: 2.8 Consensus size: 68
65567229 CTTCTATTGG
* * * * * *
65567239 AACTTCAAGGAGATCTGCTATGGCTTTTAGCCGCTCCAATGCCATTTCTGGAAGAAGAGGT-TTG
1 AACTTCAAGGAGATCTGCTGTGGCTTTTAGCCGCTCCAATGCCATTTCAGGAAAAAAAGATCCT-
65567303 CTGA
65 CTGA
* * *
65567307 AACTTCAAGGAGATCTGTTGTGGCTTTTAGCCGCTCCAACGCCATTTCAGGAAAAAAATATCCTC
1 AACTTCAAGGAGATCTGCTGTGGCTTTTAGCCGCTCCAATGCCATTTCAGGAAAAAAAGATCCTC
65567372 TGA
66 TGA
* * *
65567375 AACTTCAAGGAGATCTGCTGTGGCTTTTAGCCGCTCCAATGTCATTCCAGGGAAAAA
1 AACTTCAAGGAGATCTGCTGTGGCTTTTAGCCGCTCCAATGCCATTTCAGGAAAAAA
65567432 GAAATTTGTA
Statistics
Matches: 110, Mismatches: 14, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
68 109 0.99
69 1 0.01
ACGTcount: A:0.27, C:0.22, G:0.22, T:0.28
Consensus pattern (68 bp):
AACTTCAAGGAGATCTGCTGTGGCTTTTAGCCGCTCCAATGCCATTTCAGGAAAAAAAGATCCTC
TGA
Found at i:65567740 original size:61 final size:64
Alignment explanation
Indices: 65567622--65567740 Score: 192
Period size: 61 Copynumber: 1.9 Consensus size: 64
65567612 CCATGTATCT
*
65567622 ATGCTTATGTCAAATGATTAGGATGCTATGATCGAAATGAATCAAATGCTCCTAACTAAATGTG
1 ATGCTTATGTCAAATAATTAGGATGCTATGATCGAAATGAATCAAATGCTCCTAACTAAATGTG
65567686 ATGCTTTATGTCAAATAATTAGGATG-T-T-AT-GAAATGAATCAAATGCTCCTAACTA
1 ATGC-TTATGTCAAATAATTAGGATGCTATGATCGAAATGAATCAAATGCTCCTAACTA
65567741 GATGCGTTAC
Statistics
Matches: 53, Mismatches: 1, Indels: 5
0.90 0.02 0.08
Matches are distributed among these distances:
61 25 0.47
62 2 0.04
63 1 0.02
64 5 0.09
65 20 0.38
ACGTcount: A:0.37, C:0.13, G:0.17, T:0.33
Consensus pattern (64 bp):
ATGCTTATGTCAAATAATTAGGATGCTATGATCGAAATGAATCAAATGCTCCTAACTAAATGTG
Found at i:65571762 original size:19 final size:20
Alignment explanation
Indices: 65571738--65571784 Score: 71
Period size: 19 Copynumber: 2.5 Consensus size: 20
65571728 AGTGAAAGTT
*
65571738 TAATGCAAATGT-TGTAATG
1 TAATGCAAATGTATGGAATG
65571757 TAATGCAAATGTATGGAATG
1 TAATGCAAATGTATGGAATG
65571777 -AATGCAAA
1 TAATGCAAA
65571785 AGAAAGGAAG
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
19 20 0.77
20 6 0.23
ACGTcount: A:0.43, C:0.06, G:0.21, T:0.30
Consensus pattern (20 bp):
TAATGCAAATGTATGGAATG
Found at i:65574607 original size:3 final size:3
Alignment explanation
Indices: 65574594--65574676 Score: 59
Period size: 3 Copynumber: 27.3 Consensus size: 3
65574584 GAGGGCATAT
65574594 ATA AT- ATA ATA ATA AT- ATAA ATA ATA ATA TATA CATGA GA-A ATA
1 ATA ATA ATA ATA ATA ATA AT-A ATA ATA ATA -ATA -AT-A -ATA ATA
* *
65574638 ATA ATA AT- ATAA ATA ATA GTA AAA ATA ATA A-A ATA ATA A
1 ATA ATA ATA AT-A ATA ATA ATA ATA ATA ATA ATA ATA ATA A
65574677 AACAAAGCTC
Statistics
Matches: 65, Mismatches: 6, Indels: 18
0.73 0.07 0.20
Matches are distributed among these distances:
2 9 0.14
3 45 0.69
4 9 0.14
5 2 0.03
ACGTcount: A:0.65, C:0.01, G:0.04, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:65574618 original size:12 final size:12
Alignment explanation
Indices: 65574594--65574673 Score: 76
Period size: 12 Copynumber: 6.8 Consensus size: 12
65574584 GAGGGCATAT
65574594 ATAATAT-AATA
1 ATAATATAAATA
65574605 ATAATATAAATA
1 ATAATATAAATA
*
65574617 ATAATATATACATG
1 ATAATATA-A-ATA
*
65574631 AGAA-AT-AATA
1 ATAATATAAATA
65574641 ATAATATAAATA
1 ATAATATAAATA
* *
65574653 ATAGTAAAAATA
1 ATAATATAAATA
*
65574665 ATAAAATAA
1 ATAATATAA
65574674 TAAAACAAAG
Statistics
Matches: 55, Mismatches: 9, Indels: 9
0.75 0.12 0.12
Matches are distributed among these distances:
10 5 0.09
11 10 0.18
12 32 0.58
13 3 0.05
14 5 0.09
ACGTcount: A:0.65, C:0.01, G:0.04, T:0.30
Consensus pattern (12 bp):
ATAATATAAATA
Found at i:65575151 original size:22 final size:22
Alignment explanation
Indices: 65575123--65575172 Score: 100
Period size: 22 Copynumber: 2.3 Consensus size: 22
65575113 GGAGTGGTTG
65575123 GGGTGGTTTAGGTGGCCAAGGT
1 GGGTGGTTTAGGTGGCCAAGGT
65575145 GGGTGGTTTAGGTGGCCAAGGT
1 GGGTGGTTTAGGTGGCCAAGGT
65575167 GGGTGG
1 GGGTGG
65575173 CCAAAAAGGG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.12, C:0.08, G:0.54, T:0.26
Consensus pattern (22 bp):
GGGTGGTTTAGGTGGCCAAGGT
Found at i:65576417 original size:16 final size:17
Alignment explanation
Indices: 65576393--65576438 Score: 58
Period size: 16 Copynumber: 2.6 Consensus size: 17
65576383 CATGTTTTTG
*
65576393 TCATGTATTTTTTG-TA
1 TCATATATTTTTTGATA
65576409 TCATATATTTTTTGTACTA
1 TCATATATTTTTTG-A-TA
65576428 TCATATATTTT
1 TCATATATTTT
65576439 GTTAACTTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
16 13 0.50
19 13 0.50
ACGTcount: A:0.24, C:0.09, G:0.07, T:0.61
Consensus pattern (17 bp):
TCATATATTTTTTGATA
Found at i:65577337 original size:131 final size:130
Alignment explanation
Indices: 65577148--65577444 Score: 303
Period size: 131 Copynumber: 2.3 Consensus size: 130
65577138 TTGACAATTC
* * * * * * *
65577148 GAGAATCATGCCCTATCGTGCTGGGTTGTGATTTCTCGTTTGCTCAAAACGATCGAACATTCCTT
1 GAGAATCGTGCCCTATCGTGCTGGGTTGCGATTTTTCATTGGCTCAAAACAATCGAACATCCCTT
* * **
65577213 TATATTTTCACTCATGTTT-ATAAAAAATAC-TTAAAAACG-AAGACGATGTTCAATATTTGGCG
66 TAGAATTTCACTCACATTTCAT--AAAAT-CTTTAAAAACGAAAG-CGATGTTCAATATTTGGCG
65577275 ATTT
127 ATTT
* * * * * *
65577279 GAGAATCGTGCCCTATCATACTGGGTTGCGCTTTTTCATTGGTTCGAAACAATTGAACATCCCTT
1 GAGAATCGTGCCCTATCGTGCTGGGTTGCGATTTTTCATTGGCTCAAAACAATCGAACATCCCTT
* * * * * *
65577344 TGGAATTTCACTCACATTTCCTAAAATCTTTCAAAATGAAAGCGATGTTCGATGTTTGGCGATTT
66 TAGAATTTCACTCACATTTCATAAAATCTTTAAAAACGAAAGCGATGTTCAATATTTGGCGATTT
* * *
65577409 GAGAATCGAGCCCTATCGTGTTGGGTTGCGTTTTTT
1 GAGAATCGTGCCCTATCGTGCTGGGTTGCGATTTTT
65577445 TATTTGTCCA
Statistics
Matches: 135, Mismatches: 28, Indels: 7
0.79 0.16 0.04
Matches are distributed among these distances:
129 1 0.01
130 64 0.47
131 69 0.51
132 1 0.01
ACGTcount: A:0.26, C:0.19, G:0.19, T:0.36
Consensus pattern (130 bp):
GAGAATCGTGCCCTATCGTGCTGGGTTGCGATTTTTCATTGGCTCAAAACAATCGAACATCCCTT
TAGAATTTCACTCACATTTCATAAAATCTTTAAAAACGAAAGCGATGTTCAATATTTGGCGATTT
Found at i:65584117 original size:205 final size:205
Alignment explanation
Indices: 65583765--65584177 Score: 772
Period size: 205 Copynumber: 2.0 Consensus size: 205
65583755 ATGGACAACT
*
65583765 TTGAATACACATATAAGTAAATAGTGAAAGTATAGATAATGTTACTTATAAGCGTGATATATATA
1 TTGAATACACATATAAGTAAATAGTGAAAGTATAGATAATGTTACTTATAAGCATGATATATATA
* *
65583830 CATTAAGGATGTGAAATGGAGAGGAGGAGGAGGAAAATATATGAATGACTTGTGTATAAATTGAT
66 CATTAAGGATGTGAAATAGAGAGGAGGAGGAGGAAAATATATGAATAACTTGTGTATAAATTGAT
65583895 CACATGCCCGATTATAATCGATAAACGTTGAATTAGAAATGATATAATGTTTTATTTCATATGTT
131 CACATGCCCGATTATAATCGATAAACGTTGAATTAGAAATGATATAATGTTTTATTTCATATGTT
65583960 CGTTATTAAA
196 CGTTATTAAA
*
65583970 TTGAATACACATATAAGTAAATAGTGAAATTATAGATAATGTTACTTATAAGCATGATATATATA
1 TTGAATACACATATAAGTAAATAGTGAAAGTATAGATAATGTTACTTATAAGCATGATATATATA
* *
65584035 CATTAAGGATGTGAAATAGAGATGAGGAGGAGGAAAATATATGAATAACTTGTGTATAAGTTGAT
66 CATTAAGGATGTGAAATAGAGAGGAGGAGGAGGAAAATATATGAATAACTTGTGTATAAATTGAT
65584100 CACATGCCCGATTATAATCGATAAACGTTGAATTAGAAATGATATAATGTTTTATTTCATATGTT
131 CACATGCCCGATTATAATCGATAAACGTTGAATTAGAAATGATATAATGTTTTATTTCATATGTT
65584165 CGTTATTAAA
196 CGTTATTAAA
65584175 TTG
1 TTG
65584178 TAAATATTGT
Statistics
Matches: 202, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
205 202 1.00
ACGTcount: A:0.40, C:0.07, G:0.19, T:0.34
Consensus pattern (205 bp):
TTGAATACACATATAAGTAAATAGTGAAAGTATAGATAATGTTACTTATAAGCATGATATATATA
CATTAAGGATGTGAAATAGAGAGGAGGAGGAGGAAAATATATGAATAACTTGTGTATAAATTGAT
CACATGCCCGATTATAATCGATAAACGTTGAATTAGAAATGATATAATGTTTTATTTCATATGTT
CGTTATTAAA
Found at i:65584356 original size:51 final size:51
Alignment explanation
Indices: 65584298--65584445 Score: 199
Period size: 51 Copynumber: 2.9 Consensus size: 51
65584288 TGAACCATGG
65584298 CAATATGTGATATGTGAATATGTGATTCCGTATAAGACCATAGCTGGGCGA
1 CAATATGTGATATGTGAATATGTGATTCCGTATAAGACCATAGCTGGGCGA
** *
65584349 CAATATGTGATATGTGAATATGTGATTTTGTATAAGACCATAGCTGGGCTA
1 CAATATGTGATATGTGAATATGTGATTCCGTATAAGACCATAGCTGGGCGA
**** * * *
65584400 TGGCATCTG-TATGTGATTATGTGATTCCGTGTAAGACCATAGCTGG
1 CAATATGTGATATGTGAATATGTGATTCCGTATAAGACCATAGCTGG
65584446 ACTATGGCAT
Statistics
Matches: 85, Mismatches: 12, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
50 33 0.39
51 52 0.61
ACGTcount: A:0.28, C:0.13, G:0.26, T:0.33
Consensus pattern (51 bp):
CAATATGTGATATGTGAATATGTGATTCCGTATAAGACCATAGCTGGGCGA
Found at i:65584435 original size:50 final size:51
Alignment explanation
Indices: 65584305--65584521 Score: 253
Period size: 50 Copynumber: 4.3 Consensus size: 51
65584295 TGGCAATATG
* ** * *
65584305 TGATATGTGAATATGTGATTCCGTATAAGACCATAGCTGGGCGACAATATG
1 TGATATGTGAATATGTGATTCCGTATAAGACCATAGCTGGGCTATGACATC
** *
65584356 TGATATGTGAATATGTGATTTTGTATAAGACCATAGCTGGGCTATGGCATC
1 TGATATGTGAATATGTGATTCCGTATAAGACCATAGCTGGGCTATGACATC
* * * *
65584407 TG-TATGTGATTATGTGATTCCGTGTAAGACCATAGCTGGACTATGGCATC
1 TGATATGTGAATATGTGATTCCGTATAAGACCATAGCTGGGCTATGACATC
* * * * *
65584457 -GGTATGTG-ATATGTGATTACGTGTACGACCATAGCTGTGCTATGACAT-
1 TGATATGTGAATATGTGATTCCGTATAAGACCATAGCTGGGCTATGACATC
65584505 TGATATGTGAATATGTG
1 TGATATGTGAATATGTG
65584522 TAAGACCATA
Statistics
Matches: 143, Mismatches: 20, Indels: 7
0.84 0.12 0.04
Matches are distributed among these distances:
49 42 0.29
50 56 0.39
51 45 0.31
ACGTcount: A:0.27, C:0.13, G:0.26, T:0.34
Consensus pattern (51 bp):
TGATATGTGAATATGTGATTCCGTATAAGACCATAGCTGGGCTATGACATC
Found at i:65584520 original size:99 final size:102
Alignment explanation
Indices: 65584305--65584521 Score: 264
Period size: 99 Copynumber: 2.2 Consensus size: 102
65584295 TGGCAATATG
* *
65584305 TGATATGTGAATATGTGATTCCGTATAAGACCATAGCTGGGCGACAATATGTGATATGTGAATAT
1 TGATATGTGAATATGTGATTCCGTATAAGACCATAGCTGGACGACAACATGTGATATGTGAATAT
** *
65584370 GTGATTTTGTATAAGACCATAGCTGGGCTATGGCATC
66 GTGATTACGTATAAGACCATAGCTGGGCTATGACATC
* * * ***
65584407 TG-TATGTGATTATGTGATTCCGTGTAAGACCATAGCTGGACTATGGCATCG-G-TATGTG-ATA
1 TGATATGTGAATATGTGATTCCGTATAAGACCATAGCTGGACGACAACAT-GTGATATGTGAATA
* * *
65584468 TGTGATTACGTGTACGACCATAGCTGTGCTATGACAT-
65 TGTGATTACGTATAAGACCATAGCTGGGCTATGACATC
65584505 TGATATGTGAATATGTG
1 TGATATGTGAATATGTG
65584522 TAAGACCATA
Statistics
Matches: 98, Mismatches: 15, Indels: 7
0.82 0.12 0.06
Matches are distributed among these distances:
98 2 0.02
99 47 0.48
100 6 0.06
101 40 0.41
102 3 0.03
ACGTcount: A:0.27, C:0.13, G:0.26, T:0.34
Consensus pattern (102 bp):
TGATATGTGAATATGTGATTCCGTATAAGACCATAGCTGGACGACAACATGTGATATGTGAATAT
GTGATTACGTATAAGACCATAGCTGGGCTATGACATC
Found at i:65584523 original size:42 final size:41
Alignment explanation
Indices: 65584463--65584584 Score: 154
Period size: 42 Copynumber: 2.9 Consensus size: 41
65584453 CATCGGTATG
* * * *
65584463 TGATATGTGATTACGTGTACGACCATAGCTGTGCTATGACA
1 TGATATGTGAATATGTGTAAGACCATAGCTGGGCTATGACA
65584504 TTGATATGTGAATATGTGTAAGACCATAGCTGGGCTATGACA
1 -TGATATGTGAATATGTGTAAGACCATAGCTGGGCTATGACA
* * * *
65584546 TCATTATGTGAAGATGTGTAAGACCATAGTTGGACTATG
1 TGA-TATGTGAATATGTGTAAGACCATAGCTGGGCTATG
65584585 GCATCGAGGA
Statistics
Matches: 71, Mismatches: 8, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
41 2 0.03
42 69 0.97
ACGTcount: A:0.30, C:0.13, G:0.25, T:0.32
Consensus pattern (41 bp):
TGATATGTGAATATGTGTAAGACCATAGCTGGGCTATGACA
Found at i:65587571 original size:9 final size:10
Alignment explanation
Indices: 65587552--65587590 Score: 71
Period size: 10 Copynumber: 4.0 Consensus size: 10
65587542 ATTTCATGTT
65587552 ATTTAAAAAA
1 ATTTAAAAAA
65587562 ATTT-AAAAA
1 ATTTAAAAAA
65587571 ATTTAAAAAA
1 ATTTAAAAAA
65587581 ATTTAAAAAA
1 ATTTAAAAAA
65587591 GGGTCCATAC
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
9 9 0.32
10 19 0.68
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (10 bp):
ATTTAAAAAA
Found at i:65587576 original size:19 final size:19
Alignment explanation
Indices: 65587552--65587590 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
65587542 ATTTCATGTT
65587552 ATTTAAAAAAATTTAAAAA
1 ATTTAAAAAAATTTAAAAA
65587571 ATTTAAAAAAATTTAAAAA
1 ATTTAAAAAAATTTAAAAA
65587590 A
1 A
65587591 GGGTCCATAC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (19 bp):
ATTTAAAAAAATTTAAAAA
Found at i:65593370 original size:44 final size:47
Alignment explanation
Indices: 65593304--65593391 Score: 137
Period size: 44 Copynumber: 1.9 Consensus size: 47
65593294 TAAAAATGCG
65593304 TACTTTTTTAAAATATATATATTTTAAAAATTTATAAATTGGTTGCA
1 TACTTTTTTAAAATATATATATTTTAAAAATTTATAAATTGGTTGCA
* *
65593351 TACTTTTTTTAAA-A-A-ATATTTTATAAATTTATAAATTGGTT
1 TACTTTTTTAAAATATATATATTTTAAAAATTTATAAATTGGTT
65593392 CAACCAGTTT
Statistics
Matches: 39, Mismatches: 2, Indels: 3
0.89 0.05 0.07
Matches are distributed among these distances:
44 25 0.64
45 1 0.03
46 1 0.03
47 12 0.31
ACGTcount: A:0.40, C:0.03, G:0.06, T:0.51
Consensus pattern (47 bp):
TACTTTTTTAAAATATATATATTTTAAAAATTTATAAATTGGTTGCA
Found at i:65595991 original size:20 final size:21
Alignment explanation
Indices: 65595966--65596005 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
65595956 ATTATTTTAT
*
65595966 TTTATT-TTATAAATAAAATA
1 TTTATTATTAAAAATAAAATA
65595986 TTTATTAATTAAAAATAAAA
1 TTTATT-ATTAAAAATAAAA
65596006 AAATTAAACA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 6 0.35
22 11 0.65
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (21 bp):
TTTATTATTAAAAATAAAATA
Found at i:65604848 original size:17 final size:17
Alignment explanation
Indices: 65604813--65604852 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
65604803 GTCGTTTCTC
65604813 TTAAAAAAAATATTGAT
1 TTAAAAAAAATATTGAT
*
65604830 TTAATAAAAATATAT-AT
1 TTAAAAAAAATAT-TGAT
65604847 TTAAAA
1 TTAAAA
65604853 TATTTATAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
17 19 0.95
18 1 0.05
ACGTcount: A:0.60, C:0.00, G:0.03, T:0.38
Consensus pattern (17 bp):
TTAAAAAAAATATTGAT
Found at i:65607794 original size:15 final size:15
Alignment explanation
Indices: 65607774--65607806 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
65607764 AAAGTAACTT
*
65607774 TAATAATAATGATAA
1 TAATAATAAAGATAA
65607789 TAATAATAAAGATAA
1 TAATAATAAAGATAA
65607804 TAA
1 TAA
65607807 AATGAAAACA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.64, C:0.00, G:0.06, T:0.30
Consensus pattern (15 bp):
TAATAATAAAGATAA
Found at i:65607829 original size:24 final size:25
Alignment explanation
Indices: 65607791--65607838 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
65607781 AATGATAATA
65607791 ATAATAAAGATAATA-AAATGAAAAC
1 ATAATAAAGATAATAGAAA-GAAAAC
65607816 ATAATAAAGA-AATAGAAAGAAAA
1 ATAATAAAGATAATAGAAAGAAAA
65607839 TGGAAAGAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
24 9 0.41
25 13 0.59
ACGTcount: A:0.71, C:0.02, G:0.10, T:0.17
Consensus pattern (25 bp):
ATAATAAAGATAATAGAAAGAAAAC
Found at i:65612409 original size:61 final size:58
Alignment explanation
Indices: 65612343--65612458 Score: 142
Period size: 61 Copynumber: 1.9 Consensus size: 58
65612333 AGTGATTATC
* ** *
65612343 TTAATATTAAGCTTAATTTAATATTTATATTGTAGATAAATATTCTATTAATTTAATAGAT
1 TTAATATTAAACTTAATCAAATATTTAT-CT-T-GATAAATATTCTATTAATTTAATAGAT
* * *
65612404 TTAATATTAAATTTAATCAAATATTTATCTTGATAAGTATTTTATTAATTTAATA
1 TTAATATTAAACTTAATCAAATATTTATCTTGATAAATATTCTATTAATTTAATA
65612459 TTAAAGTGAT
Statistics
Matches: 48, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
58 22 0.46
59 1 0.02
60 1 0.02
61 24 0.50
ACGTcount: A:0.41, C:0.03, G:0.05, T:0.50
Consensus pattern (58 bp):
TTAATATTAAACTTAATCAAATATTTATCTTGATAAATATTCTATTAATTTAATAGAT
Found at i:65613412 original size:24 final size:25
Alignment explanation
Indices: 65613385--65613443 Score: 72
Period size: 24 Copynumber: 2.5 Consensus size: 25
65613375 ATCTATCTCC
65613385 TTATATATATGTT-T-TTATAATTT
1 TTATATATATGTTATATTATAATTT
65613408 TT-TATAATAT-TTATATTATAATTT
1 TTATAT-ATATGTTATATTATAATTT
*
65613432 TGATATATATGT
1 TTATATATATGT
65613444 ATGAGATGAT
Statistics
Matches: 30, Mismatches: 1, Indels: 8
0.77 0.03 0.21
Matches are distributed among these distances:
22 5 0.17
23 7 0.23
24 14 0.47
25 4 0.13
ACGTcount: A:0.34, C:0.00, G:0.05, T:0.61
Consensus pattern (25 bp):
TTATATATATGTTATATTATAATTT
Found at i:65614788 original size:19 final size:19
Alignment explanation
Indices: 65614761--65614805 Score: 56
Period size: 19 Copynumber: 2.3 Consensus size: 19
65614751 AAATAATACA
*
65614761 TTAAATTAAA-AAATAAAT
1 TTAATTTAAAGAAATAAAT
65614779 CTTAATTTAAATGAAATAAAT
1 -TTAATTTAAA-GAAATAAAT
65614800 TTAATT
1 TTAATT
65614806 ATCTAAAAGG
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
19 9 0.39
20 6 0.26
21 8 0.35
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.40
Consensus pattern (19 bp):
TTAATTTAAAGAAATAAAT
Found at i:65614972 original size:10 final size:10
Alignment explanation
Indices: 65614957--65614986 Score: 60
Period size: 10 Copynumber: 3.0 Consensus size: 10
65614947 AAAGGTTGAT
65614957 GGCCAAAAAA
1 GGCCAAAAAA
65614967 GGCCAAAAAA
1 GGCCAAAAAA
65614977 GGCCAAAAAA
1 GGCCAAAAAA
65614987 TACAATTAGG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.60, C:0.20, G:0.20, T:0.00
Consensus pattern (10 bp):
GGCCAAAAAA
Found at i:65630435 original size:30 final size:29
Alignment explanation
Indices: 65630401--65630458 Score: 75
Period size: 29 Copynumber: 2.0 Consensus size: 29
65630391 TATTCTTTTG
65630401 GTATAAAATATATAATATATA-ATAT-TTTAT
1 GTAT-AAATA-AT-ATATATACATATATTTAT
65630431 GTATAAATAATATATATACATATATTTA
1 GTATAAATAATATATATACATATATTTA
65630459 AATTTTAACT
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
27 7 0.27
28 6 0.23
29 9 0.35
30 4 0.15
ACGTcount: A:0.50, C:0.02, G:0.03, T:0.45
Consensus pattern (29 bp):
GTATAAATAATATATATACATATATTTAT
Found at i:65635095 original size:26 final size:25
Alignment explanation
Indices: 65635042--65635096 Score: 65
Period size: 25 Copynumber: 2.2 Consensus size: 25
65635032 TTTTGACATA
* * *
65635042 AAAAATTATGTTAATTTTATTTTTT
1 AAAAATTATGCTAATTTTATTATGT
*
65635067 AAAAATTGTGCTAATTTTATTGATGT
1 AAAAATTATGCTAATTTTATT-ATGT
65635093 AAAA
1 AAAA
65635097 TATAGTTATT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
25 19 0.76
26 6 0.24
ACGTcount: A:0.40, C:0.02, G:0.09, T:0.49
Consensus pattern (25 bp):
AAAAATTATGCTAATTTTATTATGT
Found at i:65635278 original size:282 final size:264
Alignment explanation
Indices: 65634880--65635570 Score: 786
Period size: 265 Copynumber: 2.5 Consensus size: 264
65634870 AAATTAATTT
* * *
65634880 TAAAATAATTATAATTTAATTTAGAATTATGGT-TTAAAAGAGTTGTGCTAATTTTAAAATAGAG
1 TAAAATAATTAAAATTTAATTTAGAATT-TGTTATTAAAAAAGTTGTGCTAATTTTAAAATAGAG
* * * * * * *
65634944 TTATTAATTAAATAGAACTCTAAGCAT-AAATATAAGAAATTTTTTAATAATTATAATTATAATT
65 TTATTACTTAAATAGAACTCTAAACATAAAATATAAGAAAATTTATGATAATTAAAATTAGAATT
* *
65635008 AAATTCAAAATCATTAGTTAAAAATTTTGACATAAAAAATTA-TGTTAATTTTATTTTTTAAAAA
130 TAATTCAAAAT-ATTAGTT-AAAA-TTT----T------TTACTCTT-A--TT-TTTTTT--AAA
* * * *
65635072 TTGTGCTAATTTTATTGATGTAAAATATAGTTATTACTTTAATAGAACTCTAAGCATCTTAATTA
176 TTGTACTAATTTTATTGAGGTAAAATAGAGTTATTACTTGAATAGAACTCTAAGCATCTTAATTA
* * *
65635137 TCACATTGAATAGAAC-TGTAAGTA
241 CCACATTGAATAAAACTTG-AAGCA
* *
65635161 TAAAATAATTACAATTTAGTTTAGAATTTGTTAGTTAAAAAAGTTGTGCTAATTTTAAAATAGAG
1 TAAAATAATTAAAATTTAATTTAGAATTTGTTA-TTAAAAAAGTTGTGCTAATTTTAAAATAGAG
* * * *
65635226 TTATTACTTGAATAAAACTCTAAACATAAAATATAA-AAAATTTATGATAATTAGATTTAGAATT
65 TTATTACTTAAATAGAACTCTAAACATAAAATATAAGAAAATTTATGATAATTAAAATTAGAATT
65635290 TAATTCAAAATTATTAGTTAAAATTTTTTACTCTTATTTTTTTTAAATTGTACTAATTTTATTGA
130 TAATTCAAAA-TATTAGTTAAAATTTTTTACTCTTATTTTTTTTAAATTGTACTAATTTTATTGA
* * *
65635355 GGTAAAATAGAGTTATTACTTGAATAGAATTCTAAGTATCTTAATTACCACTTTGAATAAAACTT
194 GGTAAAATAGAGTTATTACTTGAATAGAACTCTAAGCATCTTAATTACCACATTGAATAAAACTT
65635420 GAAGCA
259 GAAGCA
* * *
65635426 TAAAATAATTAAAATTTAATTTAGAATTAT-TAATT-AAAAATTTGTGCTAATTTTAAAATAAAA
1 TAAAATAATTAAAATTTAATTTAGAATT-TGTTATTAAAAAAGTTGTGCTAATTTTAAAAT-AGA
* * *
65635489 G-TATTACTTAAATGGAACTCTAAACATAAAATCTAAGAAAAATTATGATAATTAAAATTAGAAT
64 GTTATTACTTAAATAGAACTCTAAACATAAAATATAAGAAAATTTATGATAATTAAAATTAGAAT
65635553 TTAATTCATAAATATTAG
129 TTAATTCA-AAATATTAG
65635571 GTTCACATAT
Statistics
Matches: 362, Mismatches: 38, Indels: 37
0.83 0.09 0.08
Matches are distributed among these distances:
263 54 0.15
264 43 0.12
265 110 0.30
266 3 0.01
267 6 0.02
268 2 0.01
270 4 0.01
271 3 0.01
276 1 0.00
280 6 0.02
281 30 0.08
282 91 0.25
283 9 0.02
ACGTcount: A:0.45, C:0.06, G:0.09, T:0.41
Consensus pattern (264 bp):
TAAAATAATTAAAATTTAATTTAGAATTTGTTATTAAAAAAGTTGTGCTAATTTTAAAATAGAGT
TATTACTTAAATAGAACTCTAAACATAAAATATAAGAAAATTTATGATAATTAAAATTAGAATTT
AATTCAAAATATTAGTTAAAATTTTTTACTCTTATTTTTTTTAAATTGTACTAATTTTATTGAGG
TAAAATAGAGTTATTACTTGAATAGAACTCTAAGCATCTTAATTACCACATTGAATAAAACTTGA
AGCA
Found at i:65637311 original size:17 final size:17
Alignment explanation
Indices: 65637291--65637324 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
65637281 GTTAGCGAAC
65637291 AAATATTTAAATATAAA
1 AAATATTTAAATATAAA
*
65637308 AAATATTTATATATAAA
1 AAATATTTAAATATAAA
65637325 TTAAATTAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (17 bp):
AAATATTTAAATATAAA
Found at i:65637780 original size:20 final size:20
Alignment explanation
Indices: 65637755--65637802 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
65637745 GGAGCAATTG
*
65637755 AATCAATTTGATTAAAATCA
1 AATCAAATTGATTAAAATCA
**
65637775 AATCAAATTGATTGGAATCA
1 AATCAAATTGATTAAAATCA
*
65637795 AATAAAAT
1 AATCAAAT
65637803 CAGGATATAT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.52, C:0.08, G:0.08, T:0.31
Consensus pattern (20 bp):
AATCAAATTGATTAAAATCA
Found at i:65642148 original size:48 final size:48
Alignment explanation
Indices: 65642084--65642218 Score: 182
Period size: 48 Copynumber: 2.8 Consensus size: 48
65642074 ACCATGATTA
* * * **
65642084 ATGAGAGCTAGTGTAAGACCATGTTTGGGATATGGCATCGGTGTTGAT
1 ATGATAGCCAGTGTAAGACCATGTCTGGGATATGGCATCGGCATTGAT
*
65642132 ATGATAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAT
1 ATGATAGCCAGTGTAAGACCATGTCTGGGATATGGCATCGGCATTGAT
* *
65642180 ATG-TATGCCAGTGTAAGACAATATCTGGGATATGGCATC
1 ATGATA-GCCAGTGTAAGACCATGTCTGGGATATGGCATC
65642219 AGTCACGGTA
Statistics
Matches: 77, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
47 2 0.03
48 75 0.97
ACGTcount: A:0.27, C:0.15, G:0.30, T:0.28
Consensus pattern (48 bp):
ATGATAGCCAGTGTAAGACCATGTCTGGGATATGGCATCGGCATTGAT
Found at i:65642231 original size:48 final size:47
Alignment explanation
Indices: 65642093--65642307 Score: 167
Period size: 48 Copynumber: 4.6 Consensus size: 47
65642083 AATGAGAGCT
* * **
65642093 AGTGTAAGACCATGTTTGGGATATGGCATCGGTGTTGATATG-ATAGCC
1 AGTGTAAGACCATATCTGGGATATGGCATC-GTCATGATATGTAT-GCC
* * *
65642141 AGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGATATGTATGCC
1 AGTGTAAGACCATATCTGGGATATGGCATCGTCA-TGATATGTATGCC
* * * **
65642189 AGTGTAAGACAATATCTGGGATATGGCATCAGTCACGGTATGTGATTTC
1 AGTGTAAGACCATATCTGGGATATGGCATC-GTCATGATATGT-ATGCC
* * * * *
65642238 A-TGTAAGATCGTATCTAGGATATGGCATTGAT-ATGAGAT-T-T--C
1 AGTGTAAGACCATATCTGGGATATGGCATCG-TCATGATATGTATGCC
65642280 A-TGTAAGACCATATCTGGGATATGGCAT
1 AGTGTAAGACCATATCTGGGATATGGCAT
65642308 TGATATGAGA
Statistics
Matches: 138, Mismatches: 24, Indels: 16
0.78 0.13 0.09
Matches are distributed among these distances:
42 26 0.19
44 1 0.01
46 1 0.01
47 6 0.04
48 95 0.69
49 9 0.07
ACGTcount: A:0.28, C:0.14, G:0.27, T:0.31
Consensus pattern (47 bp):
AGTGTAAGACCATATCTGGGATATGGCATCGTCATGATATGTATGCC
Found at i:65642340 original size:42 final size:42
Alignment explanation
Indices: 65642191--65642476 Score: 184
Period size: 42 Copynumber: 6.6 Consensus size: 42
65642181 TGTATGCCAG
* * *
65642191 TGTAAGACAATATCTGGGATATGGCATCAGTCACGGTATGTGATTTCA
1 TGTAAGACCATATCTGGGATATGGCAT---T---GATATGAGATTTCA
* * *
65642239 TGTAAGATCGTATCTAGGATATGGCATTGATATGAGATTTCA
1 TGTAAGACCATATCTGGGATATGGCATTGATATGAGATTTCA
65642281 TGTAAGACCATATCTGGGATATGGCATTGATATGAGATTTCA
1 TGTAAGACCATATCTGGGATATGGCATTGATATGAGATTTCA
** * * * ** *
65642323 TGTAAGACCATGGCTGGGACATGGC---GATGTGAGGTCCCG
1 TGTAAGACCATATCTGGGATATGGCATTGATATGAGATTTCA
* * * * * *
65642362 TGTAAGACCATGTCTGGTACATGGCATCGGCACTAACGTGAAATTTCG
1 TGTAAGACCATATCTGGGATATGGCAT-TG-A-T-A--TGAGATTTCA
* * **
65642410 TATAAGACCATATCTGGGATATGGCATCGATATGTAGA-CCCA
1 TGTAAGACCATATCTGGGATATGGCATTGATATG-AGATTTCA
* * *
65642452 TGTAAGACCATGTCTCGGACATGGC
1 TGTAAGACCATATCTGGGATATGGC
65642477 TTTGGAATTC
Statistics
Matches: 191, Mismatches: 37, Indels: 26
0.75 0.15 0.10
Matches are distributed among these distances:
39 32 0.17
42 97 0.51
43 3 0.02
44 2 0.01
45 3 0.02
46 1 0.01
47 1 0.01
48 52 0.27
ACGTcount: A:0.28, C:0.17, G:0.26, T:0.29
Consensus pattern (42 bp):
TGTAAGACCATATCTGGGATATGGCATTGATATGAGATTTCA
Found at i:65648624 original size:16 final size:16
Alignment explanation
Indices: 65648603--65648637 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
65648593 AATCAAGAAA
65648603 ACCCTTACATGCATAC
1 ACCCTTACATGCATAC
65648619 ACCCTTACATGCATAC
1 ACCCTTACATGCATAC
65648635 ACC
1 ACC
65648638 GTAATTAGTC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.31, C:0.40, G:0.06, T:0.23
Consensus pattern (16 bp):
ACCCTTACATGCATAC
Found at i:65649680 original size:92 final size:92
Alignment explanation
Indices: 65649523--65649714 Score: 348
Period size: 92 Copynumber: 2.1 Consensus size: 92
65649513 CAATCTAGTG
65649523 CTTAAACCCTAAAAATATACCGATTTTAAACCTAATACCAAAGTATAAATCATATATAAGCCCCA
1 CTTAAACCCTAAAAATATACCGATTTTAAACCTAATACCAAAGTATAAATCATATATAAGCCCCA
65649588 TTACCCCTTAAAACACTATTAGTTTAA
66 TTACCCCTTAAAACACTATTAGTTTAA
* *
65649615 CTTAAACCCTAAAAATATACTGCTTTTAAACCTAATACCAAAGTATAAATCATATATAAGCCCCA
1 CTTAAACCCTAAAAATATACCGATTTTAAACCTAATACCAAAGTATAAATCATATATAAGCCCCA
*
65649680 TTAGCCCTTAAAACACTATTAGTTTAA
66 TTACCCCTTAAAACACTATTAGTTTAA
*
65649707 CTAAAACC
1 CTTAAACC
65649715 TCAACCAAAC
Statistics
Matches: 96, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
92 96 1.00
ACGTcount: A:0.43, C:0.23, G:0.05, T:0.29
Consensus pattern (92 bp):
CTTAAACCCTAAAAATATACCGATTTTAAACCTAATACCAAAGTATAAATCATATATAAGCCCCA
TTACCCCTTAAAACACTATTAGTTTAA
Found at i:65654452 original size:18 final size:17
Alignment explanation
Indices: 65654416--65654459 Score: 52
Period size: 18 Copynumber: 2.5 Consensus size: 17
65654406 CAAATACATT
65654416 TAAAAACATAAAAAAAAA
1 TAAAAA-ATAAAAAAAAA
* *
65654434 TTAAAAATAAGAAACAAA
1 TAAAAAATAA-AAAAAAA
65654452 TAAAAAAT
1 TAAAAAAT
65654460 GAGGCTAAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
17 4 0.18
18 18 0.82
ACGTcount: A:0.77, C:0.05, G:0.02, T:0.16
Consensus pattern (17 bp):
TAAAAAATAAAAAAAAA
Found at i:65655523 original size:13 final size:14
Alignment explanation
Indices: 65655500--65655528 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
65655490 AACTCACATA
65655500 AATAAACTATTTTT
1 AATAAACTATTTTT
65655514 AATAAA-TATTTTT
1 AATAAACTATTTTT
65655527 AA
1 AA
65655529 ATTATGTGGG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 9 0.60
14 6 0.40
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (14 bp):
AATAAACTATTTTT
Found at i:65659472 original size:43 final size:42
Alignment explanation
Indices: 65659420--65659562 Score: 144
Period size: 43 Copynumber: 3.3 Consensus size: 42
65659410 TATCCCATAT
* *
65659420 ATGGCCTTACATGTTTTCATATACCGATGCCAACGTCCCAGAC
1 ATGGTCTTACATGTTATCATATA-CGATGCCAACGTCCCAGAC
* * ** * *
65659463 GTGGTCTTACACGAAATCATATAACGATGCCAACATCCAAGAC
1 ATGGTCTTACATGTTATCATAT-ACGATGCCAACGTCCCAGAC
* * *
65659506 ATGGTCTTACATGTAATAACA-ATACAATGCCAATGTCCCAGAC
1 ATGGTCTTACATGT--TATCATATACGATGCCAACGTCCCAGAC
65659549 ATGGTCTTACATGT
1 ATGGTCTTACATGT
65659563 AATCTCATCT
Statistics
Matches: 80, Mismatches: 17, Indels: 6
0.78 0.17 0.06
Matches are distributed among these distances:
43 74 0.93
44 3 0.04
45 3 0.04
ACGTcount: A:0.32, C:0.25, G:0.16, T:0.27
Consensus pattern (42 bp):
ATGGTCTTACATGTTATCATATACGATGCCAACGTCCCAGAC
Found at i:65659563 original size:43 final size:45
Alignment explanation
Indices: 65659437--65659565 Score: 149
Period size: 43 Copynumber: 3.0 Consensus size: 45
65659427 TACATGTTTT
* * * * *
65659437 CATATACCGATGCCAACGTCCCAGACGTGGTCTTACACG-AA-AT
1 CATATAACAATGCCAACGTCCCAGACATGGTCTTACATGTAATAA
* * *
65659480 CATATAACGATGCCAACATCCAAGACATGGTCTTACATGTAATAA
1 CATATAACAATGCCAACGTCCCAGACATGGTCTTACATGTAATAA
*
65659525 CA-AT-ACAATGCCAATGTCCCAGACATGGTCTTACATGTAAT
1 CATATAACAATGCCAACGTCCCAGACATGGTCTTACATGTAAT
65659566 CTCATCTCGA
Statistics
Matches: 74, Mismatches: 10, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
43 67 0.91
44 4 0.05
45 3 0.04
ACGTcount: A:0.35, C:0.26, G:0.16, T:0.24
Consensus pattern (45 bp):
CATATAACAATGCCAACGTCCCAGACATGGTCTTACATGTAATAA
Found at i:65666795 original size:9 final size:9
Alignment explanation
Indices: 65666781--65666805 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
65666771 TTAATTCACC
65666781 TTTGTTAAA
1 TTTGTTAAA
65666790 TTTGTTAAA
1 TTTGTTAAA
65666799 TTTGTTA
1 TTTGTTA
65666806 TGTTACCATG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.28, C:0.00, G:0.12, T:0.60
Consensus pattern (9 bp):
TTTGTTAAA
Found at i:65667065 original size:3 final size:3
Alignment explanation
Indices: 65667057--65667090 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
65667047 GCAAGTTATC
65667057 TGT TGT TGT TGT TGT TGT TGT TGT TGT TGT TGT T
1 TGT TGT TGT TGT TGT TGT TGT TGT TGT TGT TGT T
65667091 TCTATTTCAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.00, C:0.00, G:0.32, T:0.68
Consensus pattern (3 bp):
TGT
Found at i:65675881 original size:55 final size:55
Alignment explanation
Indices: 65675791--65675907 Score: 139
Period size: 55 Copynumber: 2.1 Consensus size: 55
65675781 TGTATATAGG
* * * * *
65675791 CGCACGCCCATGTTGTTTTATCAGTCTTGAGCACGGATGT-TGGGCACGGGCGTGT
1 CGCACGCCCATATTGTTTTATCAGTCTTAACCACGGAT-TCTAGACACGGGCGTGT
* *
65675846 CGCACGCCCATATTGTTTTCTCAGT-TTCAACCACGGCTTCTAGACACGGGCGTGT
1 CGCACGCCCATATTGTTTTATCAGTCTT-AACCACGGATTCTAGACACGGGCGTGT
65675901 CGCACGC
1 CGCACGC
65675908 TCGTGTTGTT
Statistics
Matches: 53, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
54 3 0.06
55 50 0.94
ACGTcount: A:0.16, C:0.29, G:0.27, T:0.27
Consensus pattern (55 bp):
CGCACGCCCATATTGTTTTATCAGTCTTAACCACGGATTCTAGACACGGGCGTGT
Found at i:65681374 original size:22 final size:22
Alignment explanation
Indices: 65681346--65681405 Score: 93
Period size: 22 Copynumber: 2.7 Consensus size: 22
65681336 TCTCCGATTA
65681346 TTAGCACATTAGTGCTCTCCGT
1 TTAGCACATTAGTGCTCTCCGT
* *
65681368 TTAGCACATTCGTGCTCTCTGT
1 TTAGCACATTAGTGCTCTCCGT
*
65681390 TTAGTACATTAGTGCT
1 TTAGCACATTAGTGCT
65681406 ATCTATTCAT
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 34 1.00
ACGTcount: A:0.18, C:0.23, G:0.18, T:0.40
Consensus pattern (22 bp):
TTAGCACATTAGTGCTCTCCGT
Found at i:65682720 original size:75 final size:74
Alignment explanation
Indices: 65682591--65683418 Score: 706
Period size: 75 Copynumber: 11.1 Consensus size: 74
65682581 GTTACAGTTA
* * * * *
65682591 TCTAATAGCTCGCTGACATAAGTTCACAGTTGATATTTTTACGGTCCACTGATTTAAGATCACGA
1 TCTAACAGCTCGCTGACCTACGTTCACAGCTGATATTTTTACGGT-CACTGATTTAAGATCGCGA
** *
65682656 CTATCGATTT
65 CCCTCGGTTT
* * * * * * *
65682666 TCTAGCAGCTCGCTGACCTACATTCGCAACTGATATTTTTGCGGCTCATTGATTTAAGATCGCGG
1 TCTAACAGCTCGCTGACCTACGTTCACAGCTGATATTTTTACGG-TCACTGATTTAAGATCGCGA
* *
65682731 CCATCGGCTT
65 CCCTCGGTTT
* * * ** * * * * *
65682741 TCTAATAGCTTGATGACCTACGTTCGTAGCTGATTTTTTTACAGTCTCCTAATTTAAGATTGCGA
1 TCTAACAGCTCGCTGACCTACGTTCACAGCTGATATTTTTACGGTC-ACTGATTTAAGATCGCGA
*
65682806 CCATCGGTTT
65 CCCTCGGTTT
* * ** *
65682816 TTTAACAGCTCGCTGACCTACGTTCCCAATTGATATTTTTACGGTCCGCTGATTTAAGATCGCGA
1 TCTAACAGCTCGCTGACCTACGTTCACAGCTGATATTTTTACGGT-CACTGATTTAAGATCGCGA
65682881 CCCTCGGTTT
65 CCCTCGGTTT
* * * *
65682891 TCTAATAGCTCGCTAACCTACGTTCACAGCTGATATTTTTAGGGTCTGCTGATTTAAGATCGCGA
1 TCTAACAGCTCGCTGACCTACGTTCACAGCTGATATTTTTACGGTC-ACTGATTTAAGATCGCGA
*
65682956 CCCTCGATTT
65 CCCTCGGTTT
* ** * * * * * *
65682966 TCTAACAACTTTCTAACCTACGTTCACAGTTGATACTTTTATGGTCCATTGATTTAAGATCACGA
1 TCTAACAGCTCGCTGACCTACGTTCACAGCTGATATTTTTACGGT-CACTGATTTAAGATCGCGA
*
65683031 CCCTTGGTTT
65 CCCTCGGTTT
* * * *
65683041 TCTAACAGCTCGTTGACCTACGTTCACAGCTGATATTTTTATGGTTCGCTGATTTAAGATCGTGA
1 TCTAACAGCTCGCTGACCTACGTTCACAGCTGATATTTTTACGG-TCACTGATTTAAGATCGCGA
***
65683106 -CCTATTTTT
65 CCCTCGGTTT
* * * * * *** *
65683115 CTCTAATAGCTCGCTGACCTATGTTCACAGTTGATATTTTTATGATTTGTTGATTTAAGATCACG
1 -TCTAACAGCTCGCTGACCTACGTTCACAGCTGATATTTTTACG-GTCACTGATTTAAGATCGCG
*
65683180 ACCCTCGATTT
64 ACCCTCGGTTT
* * * * * **
65683191 TCTAACAGCTCGTTGACTTACATTCACAGTTGATATTTTTACGGTCCGCTGATTTAAGATCATGA
1 TCTAACAGCTCGCTGACCTACGTTCACAGCTGATATTTTTACGGT-CACTGATTTAAGATCGCGA
**
65683256 CCCTCAATTT
65 CCCTCGGTTT
* * * * * * *
65683266 TCTAATAGCTC-CATGACCTACATTTACGGCTGATATTTTTATGGTCATTGATTTAATATCGCGA
1 TCTAACAGCTCGC-TGACCTACGTTCACAGCTGATATTTTTACGGTCACTGATTTAAGATCGCGA
* *
65683330 CCTTTGGTTT
65 CCCTCGGTTT
* * * * * * *
65683340 TCTAACAGCTCGTTGACCTACGTTCACAGGTGAGATTTTTATGGTCCGCTTATTTAATATCGCGA
1 TCTAACAGCTCGCTGACCTACGTTCACAGCTGATATTTTTACGGT-CACTGATTTAAGATCGCGA
* *
65683405 CCCTTGATTT
65 CCCTCGGTTT
65683415 TCTA
1 TCTA
65683419 GCAATTTGCT
Statistics
Matches: 610, Mismatches: 130, Indels: 26
0.80 0.17 0.03
Matches are distributed among these distances:
74 67 0.11
75 533 0.87
76 10 0.02
ACGTcount: A:0.23, C:0.22, G:0.17, T:0.38
Consensus pattern (74 bp):
TCTAACAGCTCGCTGACCTACGTTCACAGCTGATATTTTTACGGTCACTGATTTAAGATCGCGAC
CCTCGGTTT
Found at i:65684411 original size:14 final size:14
Alignment explanation
Indices: 65684394--65684433 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
65684384 ATCCTTTTGA
*
65684394 AAAAAATATTTTTT
1 AAAAAATAATTTTT
65684408 AAAAAATAATTTTT
1 AAAAAATAATTTTT
*
65684422 -ATAAATAATTTT
1 AAAAAATAATTTT
65684434 ATTTTTATAT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
13 11 0.46
14 13 0.54
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (14 bp):
AAAAAATAATTTTT
Found at i:65684455 original size:18 final size:18
Alignment explanation
Indices: 65684407--65684455 Score: 55
Period size: 18 Copynumber: 2.7 Consensus size: 18
65684397 AAATATTTTT
*
65684407 TAAAAAATAATTTTTATA
1 TAAAAATTAATTTTTATA
* *
65684425 -AATAATTTTATTTTTATA
1 TAA-AAATTAATTTTTATA
65684443 TAAAAATTAATTT
1 TAAAAATTAATTT
65684456 CAACCAACCA
Statistics
Matches: 24, Mismatches: 5, Indels: 4
0.73 0.15 0.12
Matches are distributed among these distances:
17 2 0.08
18 20 0.83
19 2 0.08
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (18 bp):
TAAAAATTAATTTTTATA
Found at i:65684644 original size:24 final size:22
Alignment explanation
Indices: 65684617--65684687 Score: 72
Period size: 25 Copynumber: 3.0 Consensus size: 22
65684607 TTTAATAAAT
65684617 TTAAATAATATTCTTAAAATATTA
1 TTAAA-AATATT-TTAAAATATTA
65684641 TTAAAAATATTTATAAAAATATTTA
1 TTAAAAATATTT-T-AAAATA-TTA
* *
65684666 ATAAAAATATTTTACAAT-TTA
1 TTAAAAATATTTTAAAATATTA
65684687 T
1 T
65684688 AAATATTTAA
Statistics
Matches: 41, Mismatches: 3, Indels: 9
0.77 0.06 0.17
Matches are distributed among these distances:
21 3 0.07
22 1 0.02
23 11 0.27
24 12 0.29
25 14 0.34
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (22 bp):
TTAAAAATATTTTAAAATATTA
Found at i:65684649 original size:12 final size:12
Alignment explanation
Indices: 65684617--65684676 Score: 61
Period size: 12 Copynumber: 4.9 Consensus size: 12
65684607 TTTAATAAAT
*
65684617 TTAAATAATATTC
1 TTAAA-AATATTA
65684630 TT-AAAATATTA
1 TTAAAAATATTA
65684641 TTAAAAATATT-
1 TTAAAAATATTA
65684652 TATAAAAATATTTA
1 T-TAAAAATA-TTA
*
65684666 ATAAAAATATT
1 TTAAAAATATT
65684677 TTACAATTTA
Statistics
Matches: 41, Mismatches: 2, Indels: 9
0.79 0.04 0.17
Matches are distributed among these distances:
11 9 0.22
12 20 0.49
13 12 0.29
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (12 bp):
TTAAAAATATTA
Found at i:65684669 original size:13 final size:13
Alignment explanation
Indices: 65684632--65684677 Score: 69
Period size: 12 Copynumber: 3.7 Consensus size: 13
65684622 TAATATTCTT
*
65684632 AAAATA-TTATTA
1 AAAATATTTAATA
65684644 AAAATATTT-ATA
1 AAAATATTTAATA
65684656 AAAATATTTAATA
1 AAAATATTTAATA
65684669 AAAATATTT
1 AAAATATTT
65684678 TACAATTTAT
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
12 17 0.55
13 14 0.45
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (13 bp):
AAAATATTTAATA
Found at i:65691289 original size:129 final size:130
Alignment explanation
Indices: 65691053--65691303 Score: 378
Period size: 129 Copynumber: 1.9 Consensus size: 130
65691043 CTTTCGTTAG
* * *
65691053 TTGATTCAATGTTGCATGTATATATAGTTGTACATATTTGTAAGAAATACATACATTGAGAGAAC
1 TTGATTCAATGCTACATGTATATATAGTTGTACATATTTATAAGAAATACATACATTGAGAG-AC
*
65691118 TTTTTCCTCAATACATTAGAGTATTCATCTCTAATTTCATCATGTTATCAGATTTTTTATCCTTA
65 TTTTTCCTCAATACATTAGAGTATTCATCTCTAATTTCATCATGGTATCAGATTTTTTATCCTTA
65691183 A
130 A
* * * * * *
65691184 TTGATTCGATGCTACATGTATATATAGTTGTATATATTTATTAGAAATATATACTTTGAGAG-TT
1 TTGATTCAATGCTACATGTATATATAGTTGTACATATTTATAAGAAATACATACATTGAGAGACT
* *
65691248 TTTTCTTCAATACATTAGAGTATTCATCTCTAATTTTATCATGGTATCAGATTTTT
66 TTTTCCTCAATACATTAGAGTATTCATCTCTAATTTCATCATGGTATCAGATTTTT
65691304 ATCTAATTTT
Statistics
Matches: 108, Mismatches: 12, Indels: 2
0.89 0.10 0.02
Matches are distributed among these distances:
129 54 0.50
131 54 0.50
ACGTcount: A:0.31, C:0.12, G:0.12, T:0.45
Consensus pattern (130 bp):
TTGATTCAATGCTACATGTATATATAGTTGTACATATTTATAAGAAATACATACATTGAGAGACT
TTTTCCTCAATACATTAGAGTATTCATCTCTAATTTCATCATGGTATCAGATTTTTTATCCTTAA
Found at i:65691333 original size:13 final size:13
Alignment explanation
Indices: 65691317--65691341 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
65691307 TAATTTTTGA
65691317 GATTTTTTTTTCT
1 GATTTTTTTTTCT
65691330 GATTTTTTTTTC
1 GATTTTTTTTTC
65691342 CGAAAACCCT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.08, C:0.08, G:0.08, T:0.76
Consensus pattern (13 bp):
GATTTTTTTTTCT
Found at i:65695953 original size:27 final size:27
Alignment explanation
Indices: 65695918--65695971 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
65695908 CTACAACGGT
65695918 TATTGTATTCTTGTGGGAGGAAACTTA
1 TATTGTATTCTTGTGGGAGGAAACTTA
65695945 TATTGTATTCTTGTGGGAGGAAACTTA
1 TATTGTATTCTTGTGGGAGGAAACTTA
65695972 GTCATTTGGA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.26, C:0.07, G:0.26, T:0.41
Consensus pattern (27 bp):
TATTGTATTCTTGTGGGAGGAAACTTA
Found at i:65697116 original size:101 final size:101
Alignment explanation
Indices: 65696937--65697120 Score: 262
Period size: 101 Copynumber: 1.8 Consensus size: 101
65696927 TTATGAAGCG
** * * *
65696937 CTAAAACTTGAGATAAGTGGGATTTAGATGCTCATTTAATTTGATACCGATAATTCTTTCAGTTC
1 CTAAAACTTGAGATAAGTGGGAACTAGATGCTCATTTAATCTGATACCGATAATTCTTTCAATGC
* *
65697002 TCTGATGCGATATATTCAGCCAAGGCTTCAGACACC
66 TCTAATGCCATATATTCAGCCAAGGCTTCAGACACC
* *
65697038 CTAAAACTTGAGATAAGTGGGAACTAGGTGCTCATTTAATCTGATA-TGCATAATTCTTTCAATG
1 CTAAAACTTGAGATAAGTGGGAACTAGATGCTCATTTAATCTGATACCG-ATAATTCTTTCAATG
*
65697102 GTCTAATGCCATATATTCA
65 CTCTAATGCCATATATTCA
65697121 AGTAAGACCA
Statistics
Matches: 72, Mismatches: 10, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
100 1 0.01
101 71 0.99
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.34
Consensus pattern (101 bp):
CTAAAACTTGAGATAAGTGGGAACTAGATGCTCATTTAATCTGATACCGATAATTCTTTCAATGC
TCTAATGCCATATATTCAGCCAAGGCTTCAGACACC
Found at i:65702150 original size:20 final size:20
Alignment explanation
Indices: 65702125--65702162 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
65702115 TAATAAATTA
65702125 ATTGTCATCCTATAATTAGT
1 ATTGTCATCCTATAATTAGT
*
65702145 ATTGTCATCTTATAATTA
1 ATTGTCATCCTATAATTA
65702163 TTAAATAATC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.32, C:0.13, G:0.08, T:0.47
Consensus pattern (20 bp):
ATTGTCATCCTATAATTAGT
Found at i:65705268 original size:40 final size:40
Alignment explanation
Indices: 65705213--65705291 Score: 149
Period size: 40 Copynumber: 2.0 Consensus size: 40
65705203 CCTCTGATAC
*
65705213 CAATTACAGACTATTTAAAGTGCGGAAGATCTATTTTTTT
1 CAATTACAGACTATTTAAAGTACGGAAGATCTATTTTTTT
65705253 CAATTACAGACTATTTAAAGTACGGAAGATCTATTTTTT
1 CAATTACAGACTATTTAAAGTACGGAAGATCTATTTTTT
65705292 ATTAAAGGAA
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
40 38 1.00
ACGTcount: A:0.34, C:0.13, G:0.14, T:0.39
Consensus pattern (40 bp):
CAATTACAGACTATTTAAAGTACGGAAGATCTATTTTTTT
Found at i:65705317 original size:16 final size:17
Alignment explanation
Indices: 65705296--65705329 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
65705286 TTTTTTATTA
65705296 AAGGAAAGATT-TTTAC
1 AAGGAAAGATTGTTTAC
*
65705312 AAGGAAAGGTTGTTTAC
1 AAGGAAAGATTGTTTAC
65705329 A
1 A
65705330 GAGAGGATAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 10 0.62
17 6 0.38
ACGTcount: A:0.41, C:0.06, G:0.24, T:0.29
Consensus pattern (17 bp):
AAGGAAAGATTGTTTAC
Found at i:65706901 original size:18 final size:18
Alignment explanation
Indices: 65706878--65706912 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
65706868 TGTTAATATA
65706878 GGAGTAAATCCCTGATTG
1 GGAGTAAATCCCTGATTG
*
65706896 GGAGTAAATCCTTGATT
1 GGAGTAAATCCCTGATT
65706913 AGGACATATC
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:0.29, C:0.14, G:0.26, T:0.31
Consensus pattern (18 bp):
GGAGTAAATCCCTGATTG
Found at i:65714017 original size:21 final size:23
Alignment explanation
Indices: 65713979--65714030 Score: 81
Period size: 22 Copynumber: 2.3 Consensus size: 23
65713969 CTTAGGTTGA
*
65713979 TGTTCTTTTGGAAAAACT-GATT
1 TGTTGTTTTGGAAAAACTCGATT
65714001 TGTTGTTTTGG-AAAACTCGATT
1 TGTTGTTTTGGAAAAACTCGATT
65714023 TGTTGTTT
1 TGTTGTTT
65714031 CCAAAATCGA
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
21 6 0.21
22 22 0.79
ACGTcount: A:0.21, C:0.08, G:0.21, T:0.50
Consensus pattern (23 bp):
TGTTGTTTTGGAAAAACTCGATT
Found at i:65714042 original size:20 final size:22
Alignment explanation
Indices: 65713991--65714042 Score: 65
Period size: 21 Copynumber: 2.5 Consensus size: 22
65713981 TTCTTTTGGA
**
65713991 AAAACT-GATTTGTTGTTTTGG
1 AAAACTCGATTTGTTGTTTTCC
65714012 AAAACTCGATTTGTTG-TTTCC
1 AAAACTCGATTTGTTGTTTTCC
65714033 AAAA-TCGATT
1 AAAACTCGATT
65714043 GATTTATAGA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
20 6 0.21
21 13 0.46
22 9 0.32
ACGTcount: A:0.29, C:0.12, G:0.17, T:0.42
Consensus pattern (22 bp):
AAAACTCGATTTGTTGTTTTCC
Found at i:65715640 original size:11 final size:11
Alignment explanation
Indices: 65715608--65715634 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
65715598 GTTTAGGAAA
65715608 AAAATAAAATT
1 AAAATAAAATT
65715619 AAAATAAAATT
1 AAAATAAAATT
65715630 AAAAT
1 AAAAT
65715635 CCAATTTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (11 bp):
AAAATAAAATT
Done.