Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A04
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: 82679320
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 4050000 characters in sequence are not A, C, G, or T
File 124 of 255
Found at i:39613051 original size:17 final size:15
Alignment explanation
Indices: 39613031--39613064 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 15
39613021 AATTGTTTCA
39613031 ATTTACATATTATATAT
1 ATTTA-ATA-TATATAT
39613048 ATTTAATATATATAT
1 ATTTAATATATATAT
39613063 AT
1 AT
39613065 GAAATCATCA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 9 0.53
16 3 0.18
17 5 0.29
ACGTcount: A:0.44, C:0.03, G:0.00, T:0.53
Consensus pattern (15 bp):
ATTTAATATATATAT
Found at i:39615288 original size:27 final size:28
Alignment explanation
Indices: 39615204--39615301 Score: 135
Period size: 27 Copynumber: 3.5 Consensus size: 28
39615194 CATGAGATTG
* * * *
39615204 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGCGAGTTT-GATTATATA
39615233 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
39615261 GCACTAAGTGTGCGAG-TTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
39615288 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
39615302 GACTTAATAT
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 24 0.38
28 22 0.34
29 18 0.28
ACGTcount: A:0.27, C:0.13, G:0.29, T:0.32
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:39615312 original size:27 final size:27
Alignment explanation
Indices: 39615232--39615314 Score: 96
Period size: 27 Copynumber: 3.0 Consensus size: 27
39615222 TAAATTGTAC
* *
39615232 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGA-CTTGAATATAT
* *
39615260 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGACTTGAATATAT
*
39615287 AGCACTGAGTGTGCGGACTT-AATATAT
1 AGCACTAAGTGTGC-GACTTGAATATAT
39615314 A
1 A
39615315 TTTTTGAATC
Statistics
Matches: 50, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
27 30 0.60
28 20 0.40
ACGTcount: A:0.30, C:0.12, G:0.25, T:0.33
Consensus pattern (27 bp):
AGCACTAAGTGTGCGACTTGAATATAT
Found at i:39615315 original size:29 final size:27
Alignment explanation
Indices: 39615204--39615315 Score: 98
Period size: 28 Copynumber: 4.0 Consensus size: 27
39615194 CATGAGATTG
** * *
39615204 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGC-GACTT-AATTATATA
* *
39615233 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGA-CTTAATTATATA
* *
39615261 GCACTAAGTGTGCGAGTTGATTATATA
1 GCACTAAGTGTGCGACTTAATTATATA
*
39615288 GCACTGAGTGTGCGGACTTAATATATAT
1 GCACTAAGTGTGC-GACTTAAT-TATAT
39615316 TTTTGAATCA
Statistics
Matches: 72, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
27 23 0.32
28 28 0.39
29 21 0.29
ACGTcount: A:0.29, C:0.12, G:0.26, T:0.33
Consensus pattern (27 bp):
GCACTAAGTGTGCGACTTAATTATATA
Found at i:39628671 original size:14 final size:14
Alignment explanation
Indices: 39628643--39628690 Score: 55
Period size: 14 Copynumber: 3.4 Consensus size: 14
39628633 AGGCTCCATT
39628643 TGATTTACT-GAAAA
1 TGATTT-CTCGAAAA
39628657 TGACTTTC-CGAAAA
1 TGA-TTTCTCGAAAA
*
39628671 TGATTTCTGGAAAA
1 TGATTTCTCGAAAA
39628685 TGATTT
1 TGATTT
39628691 ACTTTTCTGG
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
13 4 0.13
14 23 0.77
15 3 0.10
ACGTcount: A:0.35, C:0.10, G:0.17, T:0.38
Consensus pattern (14 bp):
TGATTTCTCGAAAA
Found at i:39629195 original size:18 final size:19
Alignment explanation
Indices: 39629154--39629192 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
39629144 TTATAATTGT
*
39629154 AATAAACATTTATTATTAA
1 AATAAACATTTAATATTAA
39629173 AATAAA-ATTTAAATATTAA
1 AATAAACATTT-AATATTAA
39629192 A
1 A
39629193 TAATTTATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 4 0.22
19 14 0.78
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (19 bp):
AATAAACATTTAATATTAA
Found at i:39629212 original size:20 final size:22
Alignment explanation
Indices: 39629183--39629224 Score: 61
Period size: 20 Copynumber: 2.0 Consensus size: 22
39629173 AATAAAATTT
*
39629183 AAATATTAAA-TA-ATTTATTA
1 AAATAATAAATTATATTTATTA
39629203 AAATAATAAATTATATTTATTA
1 AAATAATAAATTATATTTATTA
39629225 TATTAAAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 9 0.47
21 2 0.11
22 8 0.42
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (22 bp):
AAATAATAAATTATATTTATTA
Found at i:39639514 original size:56 final size:56
Alignment explanation
Indices: 39639427--39639587 Score: 182
Period size: 56 Copynumber: 2.8 Consensus size: 56
39639417 ATAATACATC
* * *
39639427 CTAGGTCCAGGAGCTTGTGTAGCCCTATTGAGAGGCATGTAATTATGTGGTACACG
1 CTAGGTCCGGGAGCTTGTGTAGCCCTGTTGAGAGGCATGTAATTATGTGATACACG
* * * * *
39639483 CTAGGTCCGGGAGCTTATGTAGCCTTGTTGAGAGGC--GTAGTTATGTGATGCATG
1 CTAGGTCCGGGAGCTTGTGTAGCCCTGTTGAGAGGCATGTAATTATGTGATACACG
**
39639537 CTAGGTCCAGGTGCTCTTGTGTAGCCCTGTTGAGAGGCATGCTATATTATG
1 CTAGGTCC-GG-GAGCTTGTGTAGCCCTGTTGAGAGGCATG-TA-ATTATG
39639588 ATTATGACAC
Statistics
Matches: 86, Mismatches: 13, Indels: 8
0.80 0.12 0.07
Matches are distributed among these distances:
54 22 0.26
55 2 0.02
56 54 0.63
58 1 0.01
59 2 0.02
60 5 0.06
ACGTcount: A:0.20, C:0.17, G:0.32, T:0.31
Consensus pattern (56 bp):
CTAGGTCCGGGAGCTTGTGTAGCCCTGTTGAGAGGCATGTAATTATGTGATACACG
Found at i:39651165 original size:40 final size:40
Alignment explanation
Indices: 39651083--39651303 Score: 288
Period size: 40 Copynumber: 5.6 Consensus size: 40
39651073 TATTCGGATG
* *
39651083 ATATCCGGGCTAAGTCCCGAAGGCA-TGGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACT
* *
39651122 ATATCCGGGCTAAGTCCCAAAGGCAGTTGTGCTATTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACT
* *
39651162 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTCG-CT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTA-TTGACT
* *
39651202 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACT
* *
39651242 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTA-TTGACT
* *
39651282 ATAT-CTGGCTAAATCCCGAAGG
1 ATATCCGGGCTAAGTCCCGAAGG
39651304 TACTTGGGTT
Statistics
Matches: 160, Mismatches: 18, Indels: 8
0.86 0.10 0.04
Matches are distributed among these distances:
39 40 0.25
40 116 0.73
41 4 0.03
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACT
Found at i:39651232 original size:80 final size:79
Alignment explanation
Indices: 39651083--39651303 Score: 320
Period size: 80 Copynumber: 2.8 Consensus size: 79
39651073 TATTCGGATG
* * *
39651083 ATATCCGGGCTAAGTCCCGAAGGCA-TGGTGCTAGTGACTATATCCGGGCTAAGTCCCAAAGGCA
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTG-CTATATCCGGGCTAAGTCCCGAAGGCA
*
39651147 GTTGTGCTATTGACT
65 GTTGTGCTAGTGACT
*
39651162 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTCGCTATATCCGGGCTAAGTCCCGAAGGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGT-GCTATATCCGGGCTAAGTCCCGAAGGCA
*
39651227 TTTGTGCTAGTGACT
65 GTTGTGCTAGTGACT
* * *
39651242 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT-CTGGCTAAATCCCGAAGG
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TGCTATATCCGGGCTAAGTCCCGAAGG
39651304 TACTTGGGTT
Statistics
Matches: 130, Mismatches: 9, Indels: 6
0.90 0.06 0.04
Matches are distributed among these distances:
79 41 0.32
80 87 0.67
81 2 0.02
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.26
Consensus pattern (79 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGCTATATCCGGGCTAAGTCCCGAAGGCAG
TTGTGCTAGTGACT
Found at i:39656389 original size:468 final size:468
Alignment explanation
Indices: 39655513--39656451 Score: 1637
Period size: 468 Copynumber: 2.0 Consensus size: 468
39655503 AAAAATGTCA
* *
39655513 AAGGTTAGGGGCAAAACAGTCATTTGGTCCGGGGGTAGATATTAAACTTGAAATGCATAATGTGG
1 AAGGTTAGGGGCAAAACAATCATTTGGACCGGGGGTAGATATTAAACTTGAAATGCATAATGTGG
* * * * *
39655578 GGTATTAATGAGCTAATTTTGTTGTTATAAACCCCGAGGAACAAATTTCGGAGGCCGATCGAGGT
66 GGTATTAATGAGCTAATTTTATTGCTATAAACCCCGAGGAACAAATTCCGGAGGCCAATCAAGGT
*
39655643 AAACGCAAGGTTTCAGAATAACCGAAACATAACTCTGGAACTGATACCAGGTAAGTTCAGATAAC
131 AAACGCAAGGTTTCAGAATAACCGAAACATAACTCTGAAACTGATACCAGGTAAGTTCAGATAAC
*
39655708 TTAAAGTAAACCCCTAATATGCATGATTGTATGATTTATGAACGCATAATGTTTGCATTATTAAT
196 TTAAAGTAAACCCCTAATATGCATGATTGTATGATTTATGAACGCATAATGATTGCATTATTAAT
39655773 GGCATGAAAATGCATGAAATGCGTCTTTGATAATGACTTGTTGATAACAGTCTCGGTTGAGGTTA
261 GGCATGAAAATGCATGAAATGCGTCTTTGATAATGACTTGTTGATAACAGTCTCGGTTGAGGTTA
*
39655838 AAAGGGAATTCGATGGATAAACCATGTTTTACATGTGAAAGGACATCCTACATGTGTTGTAGTAA
326 AAAGGGAATTCGATGGATAAACCATGTTTTACATGTGAAAGGACATCCTACATGTGTTGCAGTAA
39655903 GGATTTAGCCCGGACGGGTAATCCATGATCTCAAGTATGGAAAGGAATCTAACCCGGACGGGTGT
391 GGATTTAGCCCGGACGGGTAATCCATGATCTCAAGTATGGAAAGGAATCTAACCCGGACGGGTGT
39655968 TCCTTGAATGATC
456 TCCTTGAATGATC
*
39655981 AAGGTTAGGGGCAAAACAATCATTTGGACCGGGGGTAGATATTAAACTTGAAATGTATAATGTGG
1 AAGGTTAGGGGCAAAACAATCATTTGGACCGGGGGTAGATATTAAACTTGAAATGCATAATGTGG
* **
39656046 GGTATTAATGAGCTAATTTTATTGCTATAGACCTTGAGGAACAAATTCCGGAGGCCAATCAAGGT
66 GGTATTAATGAGCTAATTTTATTGCTATAAACCCCGAGGAACAAATTCCGGAGGCCAATCAAGGT
* * *
39656111 AAACGCAATGTTTC-GAAATAACCGAAACATAACTCTGAAACTGTTACCAGGTAAGTTCGGATAA
131 AAACGCAAGGTTTCAG-AATAACCGAAACATAACTCTGAAACTGATACCAGGTAAGTTCAGATAA
* *
39656175 CTTAAAGTAAACCCCTAATATGCATGATTGTATGATTTATGAATGCATGATGATTGCATTATTAA
195 CTTAAAGTAAACCCCTAATATGCATGATTGTATGATTTATGAACGCATAATGATTGCATTATTAA
* *
39656240 TGGCATGAAAATGCATGAAATGCGTCTTTGTTAATGACTTGTTGATAACCGTCTCGGTTGAGGTT
260 TGGCATGAAAATGCATGAAATGCGTCTTTGATAATGACTTGTTGATAACAGTCTCGGTTGAGGTT
* * *
39656305 AAAAGGGAATTCGATGGATAAACCATGTTTTACATGTGAAAGTAGATCCTGCATGTGTTGCAGTA
325 AAAAGGGAATTCGATGGATAAACCATGTTTTACATGTGAAAGGACATCCTACATGTGTTGCAGTA
*
39656370 AGGATTTAGCCCGGACGGGTAATCCGTGATCTCAAGTATGGAAAGGAATCTAACCCGGACGGGTG
390 AGGATTTAGCCCGGACGGGTAATCCATGATCTCAAGTATGGAAAGGAATCTAACCCGGACGGGTG
39656435 TTCCTTGAATGATC
455 TTCCTTGAATGATC
39656449 AAG
1 AAG
39656452 CCTCTAGAAA
Statistics
Matches: 445, Mismatches: 25, Indels: 2
0.94 0.05 0.00
Matches are distributed among these distances:
467 1 0.00
468 444 1.00
ACGTcount: A:0.33, C:0.15, G:0.24, T:0.29
Consensus pattern (468 bp):
AAGGTTAGGGGCAAAACAATCATTTGGACCGGGGGTAGATATTAAACTTGAAATGCATAATGTGG
GGTATTAATGAGCTAATTTTATTGCTATAAACCCCGAGGAACAAATTCCGGAGGCCAATCAAGGT
AAACGCAAGGTTTCAGAATAACCGAAACATAACTCTGAAACTGATACCAGGTAAGTTCAGATAAC
TTAAAGTAAACCCCTAATATGCATGATTGTATGATTTATGAACGCATAATGATTGCATTATTAAT
GGCATGAAAATGCATGAAATGCGTCTTTGATAATGACTTGTTGATAACAGTCTCGGTTGAGGTTA
AAAGGGAATTCGATGGATAAACCATGTTTTACATGTGAAAGGACATCCTACATGTGTTGCAGTAA
GGATTTAGCCCGGACGGGTAATCCATGATCTCAAGTATGGAAAGGAATCTAACCCGGACGGGTGT
TCCTTGAATGATC
Found at i:39664151 original size:21 final size:22
Alignment explanation
Indices: 39664109--39664151 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
39664099 TAAACGAAGT
* *
39664109 ACAATATTATTTAACTACATAA
1 ACAATATAATTTAACTAAATAA
39664131 ACAATATAATTT-ACTAAATAA
1 ACAATATAATTTAACTAAATAA
39664152 TTACATGTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 8 0.42
22 11 0.58
ACGTcount: A:0.53, C:0.12, G:0.00, T:0.35
Consensus pattern (22 bp):
ACAATATAATTTAACTAAATAA
Found at i:39667793 original size:36 final size:36
Alignment explanation
Indices: 39667753--39667824 Score: 99
Period size: 36 Copynumber: 2.0 Consensus size: 36
39667743 GCGCATGACC
* * *
39667753 TAAATGAAGCAAAACATTAAATATATGTATTAATAT
1 TAAATGAAGCAAAACAATAAACATATGCATTAATAT
* *
39667789 TAAATGAAGCTAAACAATATACATATGCATTAATAT
1 TAAATGAAGCAAAACAATAAACATATGCATTAATAT
39667825 ATATATATGC
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
36 31 1.00
ACGTcount: A:0.51, C:0.08, G:0.08, T:0.32
Consensus pattern (36 bp):
TAAATGAAGCAAAACAATAAACATATGCATTAATAT
Found at i:39667885 original size:45 final size:45
Alignment explanation
Indices: 39667824--39667914 Score: 139
Period size: 45 Copynumber: 2.0 Consensus size: 45
39667814 TGCATTAATA
**
39667824 TATATATATGCTTGACTTAAATGAAGTTAAACCTGCTAATAATGG
1 TATATATATGCTTGACTTAAATGAAACTAAACCTGCTAATAATGG
*
39667869 TATATATATG-TATGACTTAAATGAAACTAAACTTGCTAATAATGG
1 TATATATATGCT-TGACTTAAATGAAACTAAACCTGCTAATAATGG
39667914 T
1 T
39667915 TAATTTAATT
Statistics
Matches: 42, Mismatches: 3, Indels: 2
0.89 0.06 0.04
Matches are distributed among these distances:
44 1 0.02
45 41 0.98
ACGTcount: A:0.40, C:0.10, G:0.14, T:0.36
Consensus pattern (45 bp):
TATATATATGCTTGACTTAAATGAAACTAAACCTGCTAATAATGG
Found at i:39667923 original size:137 final size:133
Alignment explanation
Indices: 39667644--39667900 Score: 392
Period size: 139 Copynumber: 1.9 Consensus size: 133
39667634 TGCATGATGC
*
39667644 ATTAATATTAAATGAAGCTAAACAGTATACATATGCATTAATATATATATGCTTGACTTAAATGA
1 ATTAATATTAAATGAAGCTAAACAATATACATATGCATTAATATATATATGCTTGACTTAAATGA
*
39667709 AGCTAAACCTGCTAATAATGGTATATATATATATGCGCATGACCTAAATGAAGCAAAACATTAAA
66 AGCTAAACCTGCTAATAATGG---ATATATATAT-CGCATGACCTAAATGAAACAAAACATTAAA
39667774 TATATGT
127 TATATGT
39667781 ATTAATATTAAATGAAGCTAAACAATATACATATGCATTAATATATATATATGCTTGACTTAAAT
1 ATTAATATTAAATGAAGCTAAACAATATACATATGCATT-A-ATATATATATGCTTGACTTAAAT
* * * *
39667846 GAAGTTAAACCTGCTAATAATGG-TATATATAT-GTATGACTTAAATGAAACTAAAC
64 GAAGCTAAACCTGCTAATAATGGATATATATATCGCATGACCTAAATGAAACAAAAC
39667901 TTGCTAATAA
Statistics
Matches: 112, Mismatches: 6, Indels: 8
0.89 0.05 0.06
Matches are distributed among these distances:
133 19 0.17
135 9 0.08
137 38 0.34
138 1 0.01
139 45 0.40
ACGTcount: A:0.44, C:0.11, G:0.12, T:0.33
Consensus pattern (133 bp):
ATTAATATTAAATGAAGCTAAACAATATACATATGCATTAATATATATATGCTTGACTTAAATGA
AGCTAAACCTGCTAATAATGGATATATATATCGCATGACCTAAATGAAACAAAACATTAAATATA
TGT
Found at i:39668382 original size:21 final size:21
Alignment explanation
Indices: 39668353--39668411 Score: 73
Period size: 21 Copynumber: 2.8 Consensus size: 21
39668343 CAACTGATGG
*
39668353 TGGTTGTGGCCTGTGGAACCT
1 TGGTTGTGGCCTGTGGAACCA
* *
39668374 TGTTTGTGGCTTGTGGAACCA
1 TGGTTGTGGCCTGTGGAACCA
*
39668395 TGGTCGTGGCCTCGTGG
1 TGGTTGTGGCCT-GTGG
39668412 GACAAAGCAT
Statistics
Matches: 31, Mismatches: 6, Indels: 1
0.82 0.16 0.03
Matches are distributed among these distances:
21 27 0.87
22 4 0.13
ACGTcount: A:0.08, C:0.19, G:0.39, T:0.34
Consensus pattern (21 bp):
TGGTTGTGGCCTGTGGAACCA
Found at i:39675739 original size:68 final size:68
Alignment explanation
Indices: 39675624--39675750 Score: 168
Period size: 68 Copynumber: 1.9 Consensus size: 68
39675614 GCTACATTTA
* * *
39675624 TCTCGTAGCTCTCTTGTCTACATGGTGTACACATAGTATCACCCATGTGACCTAGCTACCTCATA
1 TCTCGTAGCTCTCTTGTCTACATGGTATACACACAGTATCACACATGTGACCTAGCTACCTCATA
39675689 ATG
66 ATG
* * *
39675692 TCTCGTAGCTCTCTTGTAC-ACATGGTATACATC-CCGTGTTACACATGTGACCTAGCTAC
1 TCTCGTAGCTCTCTTGT-CTACATGGTATACA-CACAGTATCACACATGTGACCTAGCTAC
39675751 ATACCATCTG
Statistics
Matches: 51, Mismatches: 6, Indels: 4
0.84 0.10 0.07
Matches are distributed among these distances:
68 49 0.96
69 2 0.04
ACGTcount: A:0.23, C:0.28, G:0.17, T:0.32
Consensus pattern (68 bp):
TCTCGTAGCTCTCTTGTCTACATGGTATACACACAGTATCACACATGTGACCTAGCTACCTCATA
ATG
Found at i:39686920 original size:12 final size:12
Alignment explanation
Indices: 39686903--39686929 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
39686893 CTCCAACATC
39686903 TTATTTATAAAG
1 TTATTTATAAAG
39686915 TTATTTATAAAG
1 TTATTTATAAAG
39686927 TTA
1 TTA
39686930 ATCATTTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.41, C:0.00, G:0.07, T:0.52
Consensus pattern (12 bp):
TTATTTATAAAG
Found at i:39690334 original size:30 final size:30
Alignment explanation
Indices: 39690247--39690327 Score: 144
Period size: 30 Copynumber: 2.7 Consensus size: 30
39690237 TTTTCAACCA
*
39690247 TAGGGGTAAAATGGTCATTTTGTCAAAGTT
1 TAGGGGTAAAATGGTCATTTTGTCAAAGTC
39690277 TAGGGGTAAAATGGTCATTTTGTCAAAGTC
1 TAGGGGTAAAATGGTCATTTTGTCAAAGTC
*
39690307 TAGGGGCAAAATGGTCATTTT
1 TAGGGGTAAAATGGTCATTTT
39690328 ACCAAAGATG
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 49 1.00
ACGTcount: A:0.30, C:0.09, G:0.27, T:0.35
Consensus pattern (30 bp):
TAGGGGTAAAATGGTCATTTTGTCAAAGTC
Found at i:39693980 original size:45 final size:45
Alignment explanation
Indices: 39693922--39694140 Score: 190
Period size: 45 Copynumber: 4.9 Consensus size: 45
39693912 TTTTGGATTG
* * *
39693922 AGAAAT-AAGAAAGACTATAGTTGAAAGATACCATAACATTGTACC
1 AGAAATGAA-AAAGACCATAGTTGAAAGATACCATAGCATTATACC
* * *
39693967 AGAAACGAAAAAGACCATGGTTGAAAGATACCATTGCATTATACC
1 AGAAATGAAAAAGACCATAGTTGAAAGATACCATAGCATTATACC
* * * * * * *
39694012 CGAAATGAGAAAGATCATAGTTGAAAGACACTATGGCACTATACC
1 AGAAATGAAAAAGACCATAGTTGAAAGATACCATAGCATTATACC
* * * * *
39694057 AGAAATGTATAAGACCATAGTTGAAAGATACCAT-GACAATACATC
1 AGAAATGAAAAAGACCATAGTTGAAAGATACCATAG-CATTATACC
* * * * * *
39694102 AGCAATGAATATGACTACAGTTGAAAGATACTATAGCAT
1 AGAAATGAAAAAGACCATAGTTGAAAGATACCATAGCAT
39694141 CACTTTGGAA
Statistics
Matches: 139, Mismatches: 32, Indels: 6
0.79 0.18 0.03
Matches are distributed among these distances:
44 1 0.01
45 135 0.97
46 3 0.02
ACGTcount: A:0.45, C:0.16, G:0.17, T:0.22
Consensus pattern (45 bp):
AGAAATGAAAAAGACCATAGTTGAAAGATACCATAGCATTATACC
Found at i:39694080 original size:90 final size:90
Alignment explanation
Indices: 39693923--39694090 Score: 221
Period size: 90 Copynumber: 1.9 Consensus size: 90
39693913 TTTGGATTGA
* * * *
39693923 GAAATAAGAAAGACTATAGTTGAAAGATACCATAACATTGTACCAGAAACGAAAAAGACCATGGT
1 GAAATAAGAAAGACTATAGTTGAAAGACACCATAACACTATACCAGAAACGAAAAAGACCATAGT
39693988 TGAAAGATACCATTGCATTATACCC
66 TGAAAGATACCATTGCATTATACCC
* * ** * * *
39694013 GAAATGAGAAAGA-TCATAGTTGAAAGACACTATGGCACTATACCAGAAATGTATAAGACCATAG
1 GAAATAAGAAAGACT-ATAGTTGAAAGACACCATAACACTATACCAGAAACGAAAAAGACCATAG
39694077 TTGAAAGATACCAT
65 TTGAAAGATACCAT
39694091 GACAATACAT
Statistics
Matches: 66, Mismatches: 11, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
89 1 0.02
90 65 0.98
ACGTcount: A:0.45, C:0.15, G:0.18, T:0.21
Consensus pattern (90 bp):
GAAATAAGAAAGACTATAGTTGAAAGACACCATAACACTATACCAGAAACGAAAAAGACCATAGT
TGAAAGATACCATTGCATTATACCC
Found at i:39697644 original size:48 final size:47
Alignment explanation
Indices: 39697587--39697768 Score: 197
Period size: 48 Copynumber: 3.8 Consensus size: 47
39697577 ATGTTGAGGA
*
39697587 CGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCGTCTCAATGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTC-TATCAATGC
* * * * *
39697635 CGATACCATGTCCCGGGCATGATCTTACACTGGCTCTC-AT-AATGTGGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCTATCAA--T-GC
* * * *
39697683 CAATGCCATGTCCTAGACATGGTCTTACACTAGCACACATATCAATGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTC-TATCAATGC
* *
39697731 CGATGCCATGTCCCAAACATGGTCTTACACTGGCTCTC
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTC
39697769 ATAATGTGGC
Statistics
Matches: 107, Mismatches: 21, Indels: 12
0.76 0.15 0.09
Matches are distributed among these distances:
45 2 0.02
46 1 0.01
47 1 0.01
48 98 0.92
49 1 0.01
50 2 0.02
51 2 0.02
ACGTcount: A:0.24, C:0.31, G:0.19, T:0.26
Consensus pattern (47 bp):
CGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCTATCAATGC
Found at i:39697729 original size:96 final size:96
Alignment explanation
Indices: 39697589--39697779 Score: 292
Period size: 96 Copynumber: 2.0 Consensus size: 96
39697579 GTTGAGGACG
* * * * ***
39697589 ATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCGTCTCAATGCCGATACCATGTCCCGGGCA
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCACACATATCAATGCCGATACCATGTCCCAAACA
39697654 TGATCTTACACTGGCTCTCATAATGTGGCCA
66 TGATCTTACACTGGCTCTCATAATGTGGCCA
* *
39697685 ATGCCATGTCCTAGACATGGTCTTACACTAGCACACATATCAATGCCGATGCCATGTCCCAAACA
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCACACATATCAATGCCGATACCATGTCCCAAACA
*
39697750 TGGTCTTACACTGGCTCTCATAATGTGGCC
66 TGATCTTACACTGGCTCTCATAATGTGGCC
39697780 TGTAACACCC
Statistics
Matches: 85, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
96 85 1.00
ACGTcount: A:0.24, C:0.30, G:0.19, T:0.27
Consensus pattern (96 bp):
ATGCCATGTCCCAGACATGGTCTTACACTAGCACACATATCAATGCCGATACCATGTCCCAAACA
TGATCTTACACTGGCTCTCATAATGTGGCCA
Found at i:39698726 original size:15 final size:16
Alignment explanation
Indices: 39698697--39698736 Score: 50
Period size: 15 Copynumber: 2.7 Consensus size: 16
39698687 CCTCACTTGC
*
39698697 ACATTTCCA-TCC-AA
1 ACATTACCATTCCAAA
39698711 ACATTACCATTCCAAA
1 ACATTACCATTCCAAA
39698727 ACA-TACCATT
1 ACATTACCATT
39698737 TGTAAGCACA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
14 8 0.35
15 10 0.43
16 5 0.22
ACGTcount: A:0.40, C:0.33, G:0.00, T:0.28
Consensus pattern (16 bp):
ACATTACCATTCCAAA
Found at i:39699455 original size:23 final size:23
Alignment explanation
Indices: 39699354--39699466 Score: 95
Period size: 23 Copynumber: 4.8 Consensus size: 23
39699344 AGGCTCTTCC
*
39699354 TGAGCTGATAAACAGTAAGCTCTAT
1 TGAGCTG--AAACGGTAAGCTCTAT
* * *
39699379 TGCGCTAAAAACGGTAAGCTTTAT
1 TGAGCT-GAAACGGTAAGCTCTAT
*
39699403 TAAGCT-AAACGGTAAGCTCT-T
1 TGAGCTGAAACGGTAAGCTCTAT
* * *
39699424 TCGATCTGAATCGGTAAGCTCTAA
1 T-GAGCTGAAACGGTAAGCTCTAT
*
39699448 TGAGCTGAAACAGTAAGCT
1 TGAGCTGAAACGGTAAGCT
39699467 TTTACAAGCT
Statistics
Matches: 70, Mismatches: 14, Indels: 10
0.74 0.15 0.11
Matches are distributed among these distances:
21 2 0.03
22 16 0.23
23 28 0.40
24 19 0.27
25 5 0.07
ACGTcount: A:0.34, C:0.18, G:0.21, T:0.27
Consensus pattern (23 bp):
TGAGCTGAAACGGTAAGCTCTAT
Found at i:39702705 original size:42 final size:42
Alignment explanation
Indices: 39702639--39702735 Score: 113
Period size: 42 Copynumber: 2.3 Consensus size: 42
39702629 ACGGCTAACC
**
39702639 ACACGCCCATGTGCCAGCTTGTGTGCCAAACACGACCGATAG
1 ACACGCCCATGTGCCAGCCCGTGTGCCAAACACGACCGATAG
* * * * *
39702681 ACACGCCCATGTGCCTGCCCGTGTGCCACACAGGACTGATAT
1 ACACGCCCATGTGCCAGCCCGTGTGCCAAACACGACCGATAG
* *
39702723 ACACACCCTTGTG
1 ACACGCCCATGTG
39702736 TCAGGCCACA
Statistics
Matches: 46, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
42 46 1.00
ACGTcount: A:0.24, C:0.35, G:0.23, T:0.19
Consensus pattern (42 bp):
ACACGCCCATGTGCCAGCCCGTGTGCCAAACACGACCGATAG
Found at i:39707870 original size:23 final size:23
Alignment explanation
Indices: 39707794--39707951 Score: 129
Period size: 23 Copynumber: 6.7 Consensus size: 23
39707784 GACTCATCAT
* *
39707794 AGCTCATATGAGCTTATCGATATATC
1 AGCTCATAAGAGCTTACCG-T-T-TC
*
39707820 AGCTCATAAGAGCTTACTGTTTTC
1 AGCTCATAAGAGCTTACCG-TTTC
**
39707844 AGCTCATTGGAGCTTACCGTTTC
1 AGCTCATAAGAGCTTACCGTTTC
* *
39707867 AGCTCAAAAGAGCTTACCATTTC
1 AGCTCATAAGAGCTTACCGTTTC
* * *
39707890 AACTCGAT-AGAGCTTACTGTTTT
1 AGCTC-ATAAGAGCTTACCGTTTC
* * *
39707913 AACTCAAAAGAGCTTACCGTTTT
1 AGCTCATAAGAGCTTACCGTTTC
* *
39707936 AGATCATTAGAGCTTA
1 AGCTCATAAGAGCTTA
39707952 TTGTTATTAG
Statistics
Matches: 108, Mismatches: 22, Indels: 7
0.79 0.16 0.05
Matches are distributed among these distances:
22 1 0.01
23 70 0.65
24 19 0.18
25 1 0.01
26 17 0.16
ACGTcount: A:0.29, C:0.21, G:0.16, T:0.34
Consensus pattern (23 bp):
AGCTCATAAGAGCTTACCGTTTC
Found at i:39714329 original size:27 final size:27
Alignment explanation
Indices: 39714278--39714367 Score: 103
Period size: 28 Copynumber: 3.2 Consensus size: 27
39714268 GTGACAGAGT
*
39714278 CACCAGATATAGATATTTTGTGGCAGTGC
1 CACCAGA-ACAGATA-TTTGTGGCAGTGC
*
39714307 CACCAGAACAGATATATGTGGCAAG-GC
1 CACCAGAACAGATATTTGTGGC-AGTGC
39714334 CACCAGAACAGATAATTTGTGGCA-TAGC
1 CACCAGAACAGAT-ATTTGTGGCAGT-GC
39714362 CACCAG
1 CACCAG
39714368 GATGCTTCCT
Statistics
Matches: 54, Mismatches: 3, Indels: 9
0.82 0.05 0.14
Matches are distributed among these distances:
27 23 0.43
28 24 0.44
29 7 0.13
ACGTcount: A:0.33, C:0.22, G:0.23, T:0.21
Consensus pattern (27 bp):
CACCAGAACAGATATTTGTGGCAGTGC
Found at i:39714363 original size:28 final size:28
Alignment explanation
Indices: 39714278--39714367 Score: 105
Period size: 27 Copynumber: 3.2 Consensus size: 28
39714268 GTGACAGAGT
* *
39714278 CACCAGATATAGATATTTTGTGGCAGT-GC
1 CACCAGA-ACAGATAATTTGTGGCA-TAGC
*
39714307 CACCAGAACAGAT-ATATGTGGCA-AGGC
1 CACCAGAACAGATAATTTGTGGCATA-GC
39714334 CACCAGAACAGATAATTTGTGGCATAGC
1 CACCAGAACAGATAATTTGTGGCATAGC
39714362 CACCAG
1 CACCAG
39714368 GATGCTTCCT
Statistics
Matches: 53, Mismatches: 4, Indels: 9
0.80 0.06 0.14
Matches are distributed among these distances:
27 23 0.43
28 22 0.42
29 8 0.15
ACGTcount: A:0.33, C:0.22, G:0.23, T:0.21
Consensus pattern (28 bp):
CACCAGAACAGATAATTTGTGGCATAGC
Found at i:39714520 original size:28 final size:28
Alignment explanation
Indices: 39714473--39714539 Score: 107
Period size: 28 Copynumber: 2.4 Consensus size: 28
39714463 AAATTAACCC
*
39714473 TAGGGGTATAAAGGTCATTTTGCATACA
1 TAGGGGTATAAAGGTAATTTTGCATACA
* *
39714501 TAGGGGTATTATGGTAATTTTGCATACA
1 TAGGGGTATAAAGGTAATTTTGCATACA
39714529 TAGGGGTATAA
1 TAGGGGTATAA
39714540 TAGTGCATCT
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
28 35 1.00
ACGTcount: A:0.31, C:0.07, G:0.27, T:0.34
Consensus pattern (28 bp):
TAGGGGTATAAAGGTAATTTTGCATACA
Found at i:39715065 original size:21 final size:22
Alignment explanation
Indices: 39715021--39715065 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 22
39715011 TCCGATGGCT
* *
39715021 AGATCCAAGTCTGATCGCTCCAA
1 AGATCCAAGCCT-ATCGATCCAA
39715044 AGATCCAAGCCT-TCGATCCAA
1 AGATCCAAGCCTATCGATCCAA
39715065 A
1 A
39715066 CCTTGAGAAG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 9 0.45
23 11 0.55
ACGTcount: A:0.33, C:0.31, G:0.16, T:0.20
Consensus pattern (22 bp):
AGATCCAAGCCTATCGATCCAA
Found at i:39722122 original size:27 final size:27
Alignment explanation
Indices: 39722071--39722160 Score: 103
Period size: 28 Copynumber: 3.2 Consensus size: 27
39722061 GTGATAGAGT
39722071 CACCAGATACAGATATTTTGTGGCAGTGC
1 CACCAGA-ACAGATA-TTTGTGGCAGTGC
* *
39722100 CACCAGAATAGATATATGTGGCAAG-GC
1 CACCAGAACAGATATTTGTGGC-AGTGC
39722127 CACCAGAACAGATAATTTGTGGCA-TAGC
1 CACCAGAACAGAT-ATTTGTGGCAGT-GC
39722155 CACCAG
1 CACCAG
39722161 GACGCTTCCT
Statistics
Matches: 53, Mismatches: 4, Indels: 9
0.80 0.06 0.14
Matches are distributed among these distances:
27 22 0.42
28 24 0.45
29 7 0.13
ACGTcount: A:0.33, C:0.22, G:0.23, T:0.21
Consensus pattern (27 bp):
CACCAGAACAGATATTTGTGGCAGTGC
Found at i:39722156 original size:28 final size:28
Alignment explanation
Indices: 39722071--39722160 Score: 105
Period size: 27 Copynumber: 3.2 Consensus size: 28
39722061 GTGATAGAGT
*
39722071 CACCAGATACAGATATTTTGTGGCAGT-GC
1 CACCAGA-ACAGATAATTTGTGGCA-TAGC
* *
39722100 CACCAGAATAGAT-ATATGTGGCA-AGGC
1 CACCAGAACAGATAATTTGTGGCATA-GC
39722127 CACCAGAACAGATAATTTGTGGCATAGC
1 CACCAGAACAGATAATTTGTGGCATAGC
39722155 CACCAG
1 CACCAG
39722161 GACGCTTCCT
Statistics
Matches: 52, Mismatches: 5, Indels: 9
0.79 0.08 0.14
Matches are distributed among these distances:
27 22 0.42
28 22 0.42
29 8 0.15
ACGTcount: A:0.33, C:0.22, G:0.23, T:0.21
Consensus pattern (28 bp):
CACCAGAACAGATAATTTGTGGCATAGC
Found at i:39722313 original size:28 final size:28
Alignment explanation
Indices: 39722282--39722358 Score: 145
Period size: 28 Copynumber: 2.8 Consensus size: 28
39722272 TATAAAGGTC
*
39722282 ATTTTGCATACATAAGGGTATTATGGTA
1 ATTTTGCATACATAGGGGTATTATGGTA
39722310 ATTTTGCATACATAGGGGTATTATGGTA
1 ATTTTGCATACATAGGGGTATTATGGTA
39722338 ATTTTGCATACATAGGGGTAT
1 ATTTTGCATACATAGGGGTAT
39722359 AATAGTGCAT
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
28 48 1.00
ACGTcount: A:0.30, C:0.08, G:0.23, T:0.39
Consensus pattern (28 bp):
ATTTTGCATACATAGGGGTATTATGGTA
Found at i:39726215 original size:23 final size:23
Alignment explanation
Indices: 39726129--39726267 Score: 113
Period size: 23 Copynumber: 5.8 Consensus size: 23
39726119 GGACTCATCA
39726129 TAGCTCG-TATGAGCTTACCGATATAT
1 TAGCTCGATA-GAGCTTACCG-T-T-T
* *
39726155 CAGCTCG-TAAGAGCTTACTGTTT
1 TAGCTCGAT-AGAGCTTACCGTTT
*
39726178 TCAGCTC-ATTGGAGCTTACCGTTT
1 T-AGCTCGA-TAGAGCTTACCGTTT
* *
39726202 TAGCTTGATAGAGCTTACTGTTTT
1 TAGCTCGATAGAGCTTACCG-TTT
*
39726226 TCAACTCGATAGAGCTTACCGTTT
1 T-AGCTCGATAGAGCTTACCGTTT
*
39726250 CAGCTCGATAGAGCTTAC
1 TAGCTCGATAGAGCTTAC
39726268 TATTTCAGCT
Statistics
Matches: 93, Mismatches: 13, Indels: 17
0.76 0.11 0.14
Matches are distributed among these distances:
23 31 0.33
24 27 0.29
25 18 0.19
26 16 0.17
27 1 0.01
ACGTcount: A:0.23, C:0.22, G:0.20, T:0.35
Consensus pattern (23 bp):
TAGCTCGATAGAGCTTACCGTTT
Found at i:39726242 original size:25 final size:24
Alignment explanation
Indices: 39726154--39726279 Score: 136
Period size: 23 Copynumber: 5.3 Consensus size: 24
39726144 TACCGATATA
39726154 TCAGCTCG-TAAGAGCTTACTGTTT
1 TCAGCTCGAT-AGAGCTTACTGTTT
* *
39726178 TCAGCTC-ATTGGAGCTTACCGTTT
1 TCAGCTCGA-TAGAGCTTACTGTTT
*
39726202 T-AGCTTGATAGAGCTTACTGTTTT
1 TCAGCTCGATAGAGCTTACTG-TTT
* *
39726226 TCAACTCGATAGAGCTTACCG-TT
1 TCAGCTCGATAGAGCTTACTGTTT
*
39726249 TCAGCTCGATAGAGCTTACT-ATT
1 TCAGCTCGATAGAGCTTACTGTTT
39726272 TCAGCTCG
1 TCAGCTCG
39726280 GGAGGAGCTT
Statistics
Matches: 86, Mismatches: 10, Indels: 13
0.79 0.09 0.12
Matches are distributed among these distances:
23 44 0.51
24 25 0.29
25 17 0.20
ACGTcount: A:0.21, C:0.22, G:0.20, T:0.37
Consensus pattern (24 bp):
TCAGCTCGATAGAGCTTACTGTTT
Found at i:39726245 original size:48 final size:47
Alignment explanation
Indices: 39726139--39726268 Score: 156
Period size: 48 Copynumber: 2.7 Consensus size: 47
39726129 TAGCTCGTAT
* *
39726139 GAGCTTACCGATATATCAGCTCG-TAAGAGCTTACTGTTTTCAGCTCATTG
1 GAGCTTACCG-T-T-TCAGCTCGAT-AGAGCTTACTGTTTTCAACTCATTA
* *
39726189 GAGCTTACCGTTTTAGCTTGATAGAGCTTACTGTTTTTCAACTCGA-TA
1 GAGCTTACCGTTTCAGCTCGATAGAGCTTACTG-TTTTCAACTC-ATTA
39726237 GAGCTTACCGTTTCAGCTCGATAGAGCTTACT
1 GAGCTTACCGTTTCAGCTCGATAGAGCTTACT
39726269 ATTTCAGCTC
Statistics
Matches: 71, Mismatches: 6, Indels: 8
0.84 0.07 0.09
Matches are distributed among these distances:
47 17 0.24
48 42 0.59
49 2 0.03
50 10 0.14
ACGTcount: A:0.23, C:0.22, G:0.20, T:0.35
Consensus pattern (47 bp):
GAGCTTACCGTTTCAGCTCGATAGAGCTTACTGTTTTCAACTCATTA
Found at i:39729634 original size:21 final size:22
Alignment explanation
Indices: 39729610--39729654 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 22
39729600 ACAATGTCTC
39729610 AATTCACA-CAATTACTATATA
1 AATTCACATCAATTACTATATA
* * *
39729631 AATTCTCATCACTTGCTATATA
1 AATTCACATCAATTACTATATA
39729653 AA
1 AA
39729655 AGCTTTTCAC
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
21 7 0.35
22 13 0.65
ACGTcount: A:0.42, C:0.20, G:0.02, T:0.36
Consensus pattern (22 bp):
AATTCACATCAATTACTATATA
Found at i:39745371 original size:40 final size:40
Alignment explanation
Indices: 39745316--39745581 Score: 480
Period size: 40 Copynumber: 6.7 Consensus size: 40
39745306 AGCATTGGAT
*
39745316 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGATGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
39745356 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
39745396 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
39745436 TATATCCGGGCTAAGA-CCGAAGGCAATTATGCGAGTTGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
* *
39745475 TATATCCGGGCTATGACCCGAAGGCAATTATGCGAGATGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
39745515 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
* *
39745555 TATGTCCGGGTTAAGACCCGAAGGCAA
1 TATATCCGGGCTAAGACCCGAAGGCAA
39745582 ATGTGTTTGC
Statistics
Matches: 218, Mismatches: 7, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
39 38 0.17
40 180 0.83
ACGTcount: A:0.30, C:0.20, G:0.28, T:0.22
Consensus pattern (40 bp):
TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
Found at i:39745528 original size:119 final size:120
Alignment explanation
Indices: 39745316--39745581 Score: 480
Period size: 119 Copynumber: 2.2 Consensus size: 120
39745306 AGCATTGGAT
39745316 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGATGATATATCCGGGCTAAGACCCGAAGGC
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGATGATATATCCGGGCTAAGACCCGAAGGC
*
39745381 AATTATGCGAGTTGATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
66 AATTATGCGAGATGATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
* *
39745436 TATATCCGGGCTAAGA-CCGAAGGCAATTATGCGAGTTGATATATCCGGGCTATGACCCGAAGGC
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGATGATATATCCGGGCTAAGACCCGAAGGC
39745500 AATTATGCGAGATGATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
66 AATTATGCGAGATGATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
* *
39745555 TATGTCCGGGTTAAGACCCGAAGGCAA
1 TATATCCGGGCTAAGACCCGAAGGCAA
39745582 ATGTGTTTGC
Statistics
Matches: 140, Mismatches: 5, Indels: 2
0.95 0.03 0.01
Matches are distributed among these distances:
119 114 0.81
120 26 0.19
ACGTcount: A:0.30, C:0.20, G:0.28, T:0.22
Consensus pattern (120 bp):
TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGATGATATATCCGGGCTAAGACCCGAAGGC
AATTATGCGAGATGATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
Found at i:39748739 original size:26 final size:26
Alignment explanation
Indices: 39748703--39748754 Score: 95
Period size: 26 Copynumber: 2.0 Consensus size: 26
39748693 TGACTAAACC
39748703 ATGCTTTGATACCACTAAATGTAACA
1 ATGCTTTGATACCACTAAATGTAACA
*
39748729 ATGCTTTGATACCGCTAAATGTAACA
1 ATGCTTTGATACCACTAAATGTAACA
39748755 CCCCTTACCC
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.37, C:0.19, G:0.13, T:0.31
Consensus pattern (26 bp):
ATGCTTTGATACCACTAAATGTAACA
Found at i:39749114 original size:73 final size:75
Alignment explanation
Indices: 39748991--39749143 Score: 215
Period size: 73 Copynumber: 2.1 Consensus size: 75
39748981 ATGAAACAGG
* *
39748991 GTCACACGCCTCTCTGGAAATAGGGACACGCCCGTGTCTTCAGGCCGTGTAACTCTCTAATTATG
1 GTCACACGCCTCTCTGGAAATAGGGACACGCCCGTGTCCTCAAGCCGTGTAACTCTCTAATTATG
39749056 ACATCAGCAT
66 ACATCAGCAT
* * * *
39749066 GTCACACG-CTCGTGTGGACATA-GGAC-CGCCCGTGTCCTCAAGCTGTGTAACTCTCTATTTAT
1 GTCACACGCCTC-TCTGGAAATAGGGACACGCCCGTGTCCTCAAGCCGTGTAACTCTCTAATTAT
39749128 GACATCAGCAT
65 GACATCAGCAT
39749139 G-CACA
1 GTCACA
39749144 TCGTACTACA
Statistics
Matches: 71, Mismatches: 6, Indels: 5
0.87 0.07 0.06
Matches are distributed among these distances:
72 4 0.06
73 44 0.62
74 7 0.10
75 16 0.23
ACGTcount: A:0.24, C:0.29, G:0.22, T:0.25
Consensus pattern (75 bp):
GTCACACGCCTCTCTGGAAATAGGGACACGCCCGTGTCCTCAAGCCGTGTAACTCTCTAATTATG
ACATCAGCAT
Found at i:39751127 original size:37 final size:37
Alignment explanation
Indices: 39751035--39751454 Score: 279
Period size: 37 Copynumber: 11.5 Consensus size: 37
39751025 ATGCCGACCT
* *
39751035 TTAAAAAAGGTTGGGATAGACCTAGTC-AAGGCCAACC
1 TTAAAAAAGGTTGGGATAGACCTTGTCTAAGG-TAACC
* * **
39751072 TTTGAAAAAGGTTAGGATAGACC-AATCTAAGGTAACAC
1 -TTAAAAAAGGTTGGGATAGACCTTGTCTAAGGTAAC-C
* *
39751110 TTAAAAAAGGTTGGGATAGACTCAT-T-TAAGATAACC
1 TTAAAAAAGGTTGGGATAGAC-CTTGTCTAAGGTAACC
* *
39751146 TT-TAAAAGGTTGGGATAGACCTTGTCTAAGGCAACCC
1 TTAAAAAAGGTTGGGATAGACCTTGTCTAAGGTAA-CC
* * *
39751183 TTAAAAAATGTTAGGATAGA-CTTGTTTAAGGTAACC
1 TTAAAAAAGGTTGGGATAGACCTTGTCTAAGGTAACC
*
39751219 TT-AAAAAGGTTGGGATAGACCTTCTCTAAGGTAACCC
1 TTAAAAAAGGTTGGGATAGACCTTGTCTAAGGTAA-CC
* * ** * *
39751256 TTAAAAAAAGTTGGAATAGA-CTCCTCTAAAGCAACC
1 TTAAAAAAGGTTGGGATAGACCTTGTCTAAGGTAACC
* * * * *
39751292 CT-AAAAGGGTTAGGATAGACCTTGTTTAAGGCAACC
1 TTAAAAAAGGTTGGGATAGACCTTGTCTAAGGTAACC
** ** ** ***
39751328 TTTAAAAAA-GTTAAGATA-AAGTCATCTAATACAACC
1 -TTAAAAAAGGTTGGGATAGACCTTGTCTAAGGTAACC
* * ** *
39751364 TT-AAAAAGGTTGGGATATACCTTATCTAAGACAACT
1 TTAAAAAAGGTTGGGATAGACCTTGTCTAAGGTAACC
* * * ** *
39751400 TTTAAAAAGGTTGGGATATACCTTATCTAAGACAACT
1 TTAAAAAAGGTTGGGATAGACCTTGTCTAAGGTAACC
*
39751437 TTTAAAAAGGTTGGGATA
1 TTAAAAAAGGTTGGGATA
39751455 AACCCGTCTA
Statistics
Matches: 313, Mismatches: 52, Indels: 35
0.78 0.13 0.09
Matches are distributed among these distances:
34 7 0.02
35 55 0.18
36 66 0.21
37 125 0.40
38 60 0.19
ACGTcount: A:0.39, C:0.15, G:0.20, T:0.27
Consensus pattern (37 bp):
TTAAAAAAGGTTGGGATAGACCTTGTCTAAGGTAACC
Found at i:39751167 original size:110 final size:108
Alignment explanation
Indices: 39751039--39751454 Score: 315
Period size: 110 Copynumber: 3.8 Consensus size: 108
39751029 CGACCTTTAA
* *
39751039 AAAAGGTTGGGATAGACCTAGTC-AAGGCCAACCTTTGAAAAAGGTTAGGATAGACCAATCTAAG
1 AAAAGGTTGGGATAGACCTAGTCTAAGG-CAACCCTTAAAAAAGGTTAGGATAGACCAATCTAAG
39751103 GTAACACTTAAAAAAGGTTGGGATAGACTCATTTAAGATAACCTTT
65 GTAAC-CTT-AAAAAGGTTGGGATAGACTCATTTAAGATAACCTTT
* * *** *
39751149 AAAAGGTTGGGATAGACCTTGTCTAAGGCAACCCTTAAAAAATGTTAGGATAGACTTGTTTAAGG
1 AAAAGGTTGGGATAGACCTAGTCTAAGGCAACCCTTAAAAAAGGTTAGGATAGACCAATCTAAGG
* * *
39751214 TAACCTTAAAAAGGTTGGGATAGACCTTC-TCTAAGGTAACCCTTAA
66 TAACCTTAAAAAGGTTGGGATAGA-C-TCATTTAAGATAA-CCTT-T
* * ** * * ** *
39751260 AAAAAGTTGGAATAGA-CTCCTCTAAAGCAACCC-T-AAAAGGGTTAGGATAGACCTTGTTTAAG
1 AAAAGGTTGGGATAGACCTAGTCTAAGGCAACCCTTAAAAAAGGTTAGGATAGACC-AATCTAAG
* * ** * * * * * *
39751322 GCAACCTTTAAAAAAGTTAAGATAAAGTCATCTAATACAACCTTA
65 GTAACC-TTAAAAAGGTTGGGATAGACTCATTTAAGATAACCTTT
* * * * * * *
39751367 AAAAGGTTGGGATATACCTTA-TCTAAGACAA-CTTTTAAAAAGGTTGGGATATACCTTATCTAA
1 AAAAGGTTGGGATAGACC-TAGTCTAAGGCAACCCTTAAAAAAGGTTAGGATAGACC-AATCTAA
** *
39751430 GACAACTTTTAAAAAGGTTGGGATA
64 GGTAAC-CTTAAAAAGGTTGGGATA
39751455 AACCCGTCTA
Statistics
Matches: 248, Mismatches: 45, Indels: 27
0.77 0.14 0.08
Matches are distributed among these distances:
107 15 0.06
108 49 0.20
109 75 0.30
110 91 0.37
111 18 0.07
ACGTcount: A:0.39, C:0.15, G:0.20, T:0.27
Consensus pattern (108 bp):
AAAAGGTTGGGATAGACCTAGTCTAAGGCAACCCTTAAAAAAGGTTAGGATAGACCAATCTAAGG
TAACCTTAAAAAGGTTGGGATAGACTCATTTAAGATAACCTTT
Found at i:39751201 original size:73 final size:73
Alignment explanation
Indices: 39751035--39751454 Score: 343
Period size: 73 Copynumber: 5.7 Consensus size: 73
39751025 ATGCCGACCT
* * * *
39751035 TTAAAAAAGGTTGGGATAGAC-CTAGTC-AAGGCCAACCTTTGAAAAAGGTTAGGATAGACC-AA
1 TTAAAAAAGGTTAGGATAGACTC-A-TCTAA-GACAACCTTT--AAAAGGTTGGGATAGACCTTA
* *
39751097 TCTAAGGTAACAC
61 TCTAAGGCAACCC
* * * *
39751110 TTAAAAAAGGTTGGGATAGACTCATTTAAGATAACCTTTAAAAGGTTGGGATAGACCTTGTCTAA
1 TTAAAAAAGGTTAGGATAGACTCATCTAAGACAACCTTTAAAAGGTTGGGATAGACCTTATCTAA
39751175 GGCAACCC
66 GGCAACCC
* ** * ** * *
39751183 TTAAAAAATGTTAGGATAGACTTGTTTAAGGTAACCTTAAAAAGGTTGGGATAGACCTTCTCTAA
1 TTAAAAAAGGTTAGGATAGACTCATCTAAGACAACCTTTAAAAGGTTGGGATAGACCTTATCTAA
*
39751248 GGTAACCC
66 GGCAACCC
* * * * * *
39751256 TTAAAAAAAGTT-GGAATAGACTCCTCTAA-AGCAACC-CTAAAAGGGTTAGGATAGACCTTGTT
1 TTAAAAAAGGTTAGG-ATAGACTCATCTAAGA-CAACCTTTAAAA-GGTTGGGATAGACCTTATC
*
39751318 TAAGGCAACCT
63 TAAGGCAACCC
* * * * * *
39751329 TTAAAAAA-GTTAAGATAAAGTCATCTAATACAACCTTAAAAAGGTTGGGATATACCTTATCTAA
1 TTAAAAAAGGTTAGGATAGACTCATCTAAGACAACCTTTAAAAGGTTGGGATAGACCTTATCTAA
* *
39751393 GACAA-CT
66 GGCAACCC
* * * * *
39751400 TTTAAAAAGGTTGGGATATACCTTATCTAAGACAACTTTTAAAAAGGTTGGGATA
1 TTAAAAAAGGTTAGGATAGA-CTCATCTAAGACAACCTTT-AAAAGGTTGGGATA
39751455 AACCCGTCTA
Statistics
Matches: 284, Mismatches: 49, Indels: 25
0.79 0.14 0.07
Matches are distributed among these distances:
71 9 0.03
72 72 0.25
73 155 0.55
74 23 0.08
75 24 0.08
76 1 0.00
ACGTcount: A:0.39, C:0.15, G:0.20, T:0.27
Consensus pattern (73 bp):
TTAAAAAAGGTTAGGATAGACTCATCTAAGACAACCTTTAAAAGGTTGGGATAGACCTTATCTAA
GGCAACCC
Found at i:39751275 original size:146 final size:145
Alignment explanation
Indices: 39751067--39751393 Score: 381
Period size: 146 Copynumber: 2.2 Consensus size: 145
39751057 TAGTCAAGGC
* * * *
39751067 CAACCTTTGAAAAAGGTTAGGATAGACC-AATCTAAGGTAACACTTAAAAAAGGTTGGGATAGAC
1 CAACC-TT-AAAAAGGTTGGGATAGACCTTATCTAAGGTAACACTTAAAAAAAGTTGGAATAGAC
* * * *
39751131 TCAT-TTAAGATAACCTTTAAAA-GGTTGGGATAGACCTTGTCTAAGGCAACCCTTAAAAAATGT
64 TCATCTAAAG-CAACC-CTAAAAGGGTTAGGATAGACCTTGTCTAAGGCAACCCTTAAAAAA-GT
* * ** * *
39751194 TAGGATAGACTTGTTTAAGG
126 TAAGATAAACTCATCTAAGA
* * *
39751214 TAACCTTAAAAAGGTTGGGATAGACCTTCTCTAAGGTAACCCTTAAAAAAAGTTGGAATAGACTC
1 CAACCTTAAAAAGGTTGGGATAGACCTTATCTAAGGTAACACTTAAAAAAAGTTGGAATAGACTC
* * *
39751279 CTCTAAAGCAACCCTAAAAGGGTTAGGATAGACCTTGTTTAAGGCAACCTTTAAAAAAGTTAAGA
66 ATCTAAAGCAACCCTAAAAGGGTTAGGATAGACCTTGTCTAAGGCAACCCTTAAAAAAGTTAAGA
* *
39751344 TAAAGTCATCTAATA
131 TAAACTCATCTAAGA
*
39751359 CAACCTTAAAAAGGTTGGGATATACCTTATCTAAG
1 CAACCTTAAAAAGGTTGGGATAGACCTTATCTAAG
39751394 ACAACTTTTA
Statistics
Matches: 152, Mismatches: 25, Indels: 8
0.82 0.14 0.04
Matches are distributed among these distances:
145 69 0.45
146 75 0.49
147 8 0.05
ACGTcount: A:0.39, C:0.15, G:0.19, T:0.27
Consensus pattern (145 bp):
CAACCTTAAAAAGGTTGGGATAGACCTTATCTAAGGTAACACTTAAAAAAAGTTGGAATAGACTC
ATCTAAAGCAACCCTAAAAGGGTTAGGATAGACCTTGTCTAAGGCAACCCTTAAAAAAGTTAAGA
TAAACTCATCTAAGA
Found at i:39751735 original size:6 final size:7
Alignment explanation
Indices: 39751711--39751742 Score: 50
Period size: 6 Copynumber: 4.9 Consensus size: 7
39751701 TACAACTAAA
39751711 AAAATAT
1 AAAATAT
39751718 AAAATAT
1 AAAATAT
39751725 AAAAT-T
1 AAAATAT
39751731 AAAAT-T
1 AAAATAT
39751737 AAAATA
1 AAAATA
39751743 ATAATTGAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
6 12 0.50
7 12 0.50
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (7 bp):
AAAATAT
Found at i:39756984 original size:22 final size:23
Alignment explanation
Indices: 39756933--39756985 Score: 67
Period size: 22 Copynumber: 2.4 Consensus size: 23
39756923 AGAAGACCAT
*
39756933 TTTAT-GTGTTAAATGTTGAAAA
1 TTTATGGTGTTAAATGCTGAAAA
*
39756955 TTTA-GGTGTTAAATGCTG-CAA
1 TTTATGGTGTTAAATGCTGAAAA
39756976 TTTATGGTGT
1 TTTATGGTGT
39756986 CTGAAAGTTG
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
21 6 0.22
22 21 0.78
ACGTcount: A:0.28, C:0.04, G:0.23, T:0.45
Consensus pattern (23 bp):
TTTATGGTGTTAAATGCTGAAAA
Found at i:39759853 original size:46 final size:46
Alignment explanation
Indices: 39759800--39759928 Score: 204
Period size: 46 Copynumber: 2.8 Consensus size: 46
39759790 TATTTGGGCA
39759800 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
*
39759846 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTGTGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * * *
39759892 CCCGAGCTCGTTGAGTTGAGTCCAACTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
39759929 GCGAGTTACA
Statistics
Matches: 76, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
46 76 1.00
ACGTcount: A:0.19, C:0.22, G:0.29, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:39764058 original size:50 final size:49
Alignment explanation
Indices: 39763895--39764078 Score: 190
Period size: 50 Copynumber: 3.7 Consensus size: 49
39763885 GTGAGGTCAT
* *
39763895 GTGTGTAGTACTAAGTGCAAGCTACTACGTGTACTGGATAATT-GATCGC
1 GTGTGTAGTACTAAGTGCAAGCTACTACGTGTAC-AGATAATTAGATCAC
* * * ** * *
39763944 ATGTGTAGTACTAAGTGCAAGCTATTATGCATACCTGATAACTTCGATCAC
1 GTGTGTAGTACTAAGTGCAAGCTACTACGTGTA-CAGATAA-TTAGATCAC
* ** *
39763995 GTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGGTCAC
1 GTGTGTAGTACTAAGTGCAAGCTACTACGTGTA-CAGATAATTAGATCAC
* *
39764045 GTGTGTAGTACTAAGTGCAGGCTACTATGTGTAC
1 GTGTGTAGTACTAAGTGCAAGCTACTACGTGTAC
39764079 TTAAGATGCA
Statistics
Matches: 112, Mismatches: 20, Indels: 6
0.81 0.14 0.04
Matches are distributed among these distances:
49 34 0.30
50 42 0.38
51 36 0.32
ACGTcount: A:0.27, C:0.17, G:0.26, T:0.31
Consensus pattern (49 bp):
GTGTGTAGTACTAAGTGCAAGCTACTACGTGTACAGATAATTAGATCAC
Found at i:39765141 original size:44 final size:43
Alignment explanation
Indices: 39765077--39765191 Score: 133
Period size: 44 Copynumber: 2.7 Consensus size: 43
39765067 TATGTGTTTT
* *
39765077 CGTGTAAGACCACGTTTGGGACGTTGGCATCGATCTATGATTTA
1 CGTGTAAGACCACGTCTGGGACGTTGGCATCGATATATGA-TTA
* * * *
39765121 CGTGTGAGACCATGTCTGGGACAG-TGGCATCTATATGTGATTA
1 CGTGTAAGACCACGTCTGGGAC-GTTGGCATCGATATATGATTA
* *
39765164 CATGTAAGAACACGTCTGGGACGTTGGC
1 CGTGTAAGACCACGTCTGGGACGTTGGC
39765192 GTTGTACGAG
Statistics
Matches: 59, Mismatches: 10, Indels: 5
0.80 0.14 0.07
Matches are distributed among these distances:
42 1 0.02
43 25 0.42
44 32 0.54
45 1 0.02
ACGTcount: A:0.23, C:0.18, G:0.30, T:0.29
Consensus pattern (43 bp):
CGTGTAAGACCACGTCTGGGACGTTGGCATCGATATATGATTA
Found at i:39772180 original size:12 final size:12
Alignment explanation
Indices: 39772163--39772188 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
39772153 ATAAAAACAC
39772163 GGTCTGGCACAT
1 GGTCTGGCACAT
39772175 GGTCTGGCACAT
1 GGTCTGGCACAT
39772187 GG
1 GG
39772189 CCTGCGACAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.15, C:0.23, G:0.38, T:0.23
Consensus pattern (12 bp):
GGTCTGGCACAT
Found at i:39775055 original size:17 final size:18
Alignment explanation
Indices: 39775033--39775075 Score: 52
Period size: 17 Copynumber: 2.4 Consensus size: 18
39775023 CTTCAATTTC
39775033 TTGTTTTAAATTTTG-TT
1 TTGTTTTAAATTTTGTTT
***
39775050 TTGTTTTTGTTTTTGTTT
1 TTGTTTTAAATTTTGTTT
39775068 TTGTTTTA
1 TTGTTTTA
39775076 TTTTATTTTT
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
17 12 0.57
18 9 0.43
ACGTcount: A:0.09, C:0.00, G:0.14, T:0.77
Consensus pattern (18 bp):
TTGTTTTAAATTTTGTTT
Found at i:39775059 original size:6 final size:6
Alignment explanation
Indices: 39775043--39775074 Score: 57
Period size: 6 Copynumber: 5.5 Consensus size: 6
39775033 TTGTTTTAAA
39775043 TTTTG- TTTTGT TTTTGT TTTTGT TTTTGT TTT
1 TTTTGT TTTTGT TTTTGT TTTTGT TTTTGT TTT
39775075 ATTTTATTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 5 0.19
6 21 0.81
ACGTcount: A:0.00, C:0.00, G:0.16, T:0.84
Consensus pattern (6 bp):
TTTTGT
Found at i:39788002 original size:31 final size:32
Alignment explanation
Indices: 39787964--39788023 Score: 95
Period size: 31 Copynumber: 1.9 Consensus size: 32
39787954 CATAAAGGGG
*
39787964 CACACGCCCATGTA-GGTGGGCCGTGTGGACT
1 CACACGCCCATGTATGATGGGCCGTGTGGACT
*
39787995 CACACGCCCATGTATTATGGGCCGTGTGG
1 CACACGCCCATGTATGATGGGCCGTGTGG
39788024 TCACCCACAC
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
31 14 0.54
32 12 0.46
ACGTcount: A:0.17, C:0.28, G:0.33, T:0.22
Consensus pattern (32 bp):
CACACGCCCATGTATGATGGGCCGTGTGGACT
Found at i:39798619 original size:55 final size:54
Alignment explanation
Indices: 39798532--39798770 Score: 242
Period size: 55 Copynumber: 4.5 Consensus size: 54
39798522 ATTAGGGTTT
* * *
39798532 AAGGATACCATGTAAGGCCATGCCAAGGCATGGCAATTGGTAAGGTTTC-TAAGGC
1 AAGGATACCATGTAAGACCATGTCAAGACATGGC-ATTGGTAA-GTTTCATAAGGC
* * * * * *
39798587 AAGGAAATCATGTAAGACCATATCAATACATGGCATTGATAGGTTTCTATAAGGC
1 AAGGATACCATGTAAGACCATGTCAAGACATGGCATTGGTAAGTTTC-ATAAGGC
* * * *
39798642 AAAGG-TCCCATGTAAGACCATGCCAAGGCATGGCATTGGTGAG-TTCATAAGGC
1 -AAGGATACCATGTAAGACCATGTCAAGACATGGCATTGGTAAGTTTCATAAGGC
*
39798695 AAGGATACCATGTAAGACCATGTCAAGACATGGCAATGGTAAGTTTC--AA---
1 AAGGATACCATGTAAGACCATGTCAAGACATGGCATTGGTAAGTTTCATAAGGC
* *
39798744 AAGGATACCACGTAAGACCATGACAAG
1 AAGGATACCATGTAAGACCATGTCAAG
39798771 TTATGGAAAT
Statistics
Matches: 153, Mismatches: 26, Indels: 16
0.78 0.13 0.08
Matches are distributed among these distances:
49 25 0.16
52 6 0.04
53 45 0.29
54 12 0.08
55 61 0.40
56 4 0.03
ACGTcount: A:0.36, C:0.18, G:0.25, T:0.22
Consensus pattern (54 bp):
AAGGATACCATGTAAGACCATGTCAAGACATGGCATTGGTAAGTTTCATAAGGC
Found at i:39798741 original size:108 final size:110
Alignment explanation
Indices: 39798539--39798741 Score: 295
Period size: 108 Copynumber: 1.9 Consensus size: 110
39798529 TTTAAGGATA
* *
39798539 CCATGTAAGGCCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGCAAGGAAATCATGTAAGA
1 CCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGCAAGGAAACCATGTAAGA
* * *
39798604 CCATATCAATACATGGCATTGATAGGTTTCTATAAGGCAAAGGTC
66 CCATATCAAGACATGGCAATGATAAGTTTCTATAAGGCAAAGGTC
* *
39798649 CCATGTAAGACCATGCCAAGGCATGGC-ATTGGTGA-G-TTCATAAGGCAAGGATACCATGTAAG
1 CCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTC-TAAGGCAAGGAAACCATGTAAG
* *
39798711 ACCATGTCAAGACATGGCAATGGTAAGTTTC
65 ACCATATCAAGACATGGCAATGATAAGTTTC
39798742 AAAAGGATAC
Statistics
Matches: 83, Mismatches: 9, Indels: 4
0.86 0.09 0.04
Matches are distributed among these distances:
107 3 0.04
108 47 0.57
109 7 0.08
110 26 0.31
ACGTcount: A:0.33, C:0.18, G:0.25, T:0.24
Consensus pattern (110 bp):
CCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGCAAGGAAACCATGTAAGA
CCATATCAAGACATGGCAATGATAAGTTTCTATAAGGCAAAGGTC
Found at i:39815549 original size:68 final size:67
Alignment explanation
Indices: 39815477--39815626 Score: 171
Period size: 67 Copynumber: 2.2 Consensus size: 67
39815467 CATCATGTGT
* * * *
39815477 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACC
1 ACAAGAGAGCTAC--GACA-TAT-ATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACC
39815539 ATGTAG
62 ATGTAG
** * *
39815545 ACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGT
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
39815610 AG
66 AG
39815612 ACAAGAGAGCTACGA
1 ACAAGAGAGCTACGA
39815627 GATAAACTGG
Statistics
Matches: 70, Mismatches: 9, Indels: 7
0.81 0.10 0.08
Matches are distributed among these distances:
64 20 0.29
65 7 0.10
66 4 0.06
67 26 0.37
68 13 0.19
ACGTcount: A:0.33, C:0.17, G:0.29, T:0.21
Consensus pattern (67 bp):
ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
AG
Found at i:39815582 original size:64 final size:64
Alignment explanation
Indices: 39815501--39815684 Score: 194
Period size: 67 Copynumber: 2.8 Consensus size: 64
39815491 AGACATTATG
* *
39815501 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * * *
39815565 ATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
39815630 AA
63 AA
* * * *
39815632 ACTG--GCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGT-GTACAAGAGAGC
1 A-TGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAG-ACAAGAGAGC
39815685 CGAACTATAT
Statistics
Matches: 98, Mismatches: 17, Indels: 11
0.78 0.13 0.09
Matches are distributed among these distances:
62 1 0.01
63 19 0.19
64 21 0.21
65 8 0.08
66 16 0.16
67 31 0.32
68 2 0.02
ACGTcount: A:0.30, C:0.17, G:0.30, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:39825713 original size:43 final size:43
Alignment explanation
Indices: 39825665--39825747 Score: 112
Period size: 43 Copynumber: 1.9 Consensus size: 43
39825655 ACATGTATCA
* * * *
39825665 CATCCATTATAAACTCAGACCATTTAACGAGCTTGGATGCTCG
1 CATCCATAATAAACTCAGACCACTCAACGAGCTCGGATGCTCG
* *
39825708 CATCCATAATGAACTCGGACCACTCAACGAGCTCGGATGC
1 CATCCATAATAAACTCAGACCACTCAACGAGCTCGGATGC
39825748 CACATATATC
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
43 34 1.00
ACGTcount: A:0.30, C:0.29, G:0.18, T:0.23
Consensus pattern (43 bp):
CATCCATAATAAACTCAGACCACTCAACGAGCTCGGATGCTCG
Found at i:39833244 original size:40 final size:40
Alignment explanation
Indices: 39833043--39833230 Score: 299
Period size: 40 Copynumber: 4.7 Consensus size: 40
39833033 TATTCGGATG
* *
39833043 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* *
39833083 A-ATTCCGGGCTAAG-CCCGAAGGCATTTCTGCGAGTTACT
1 ATA-ACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* *
39833122 ATATCTGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
39833162 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
39833202 ATAACCGGGCTAAGTCCCGAAGGCATTTG
1 ATAACCGGGCTAAGTCCCGAAGGCATTTG
39833231 AGCAAGTAGC
Statistics
Matches: 137, Mismatches: 8, Indels: 6
0.91 0.05 0.04
Matches are distributed among these distances:
39 34 0.25
40 103 0.75
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.26
Consensus pattern (40 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
Found at i:39833244 original size:80 final size:80
Alignment explanation
Indices: 39833043--39833263 Score: 299
Period size: 80 Copynumber: 2.8 Consensus size: 80
39833033 TATTCGGATG
*
39833043 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCTAGT-GACTA-ATTCCGGGCTAAG-CCCGAAGG
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTAG-CTATA-TCCGGGCTAAGTCCCGAAGG
39833105 CATTTCTGCGAGTTACT
64 CATTTCTGCGAGTTACT
* * * *
39833122 ATATCTGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAACCGGGCTAAGTCCCGAAGGC
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCAAG-TAGCTATATCCGGGCTAAGTCCCGAAGGC
*
39833186 ATTTGTGCGAGTTACT
65 ATTTCTGCGAGTTACT
* * *
39833202 ATAACCGGGCTAAGTCCCGAAGGCATTTGAGCAAGTAGCTATATCC-GGCTAAATTCCGAAGG
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTAGCTATATCCGGGCTAAGTCCCGAAGG
39833264 TACTTGGTTT
Statistics
Matches: 125, Mismatches: 12, Indels: 10
0.85 0.08 0.07
Matches are distributed among these distances:
79 61 0.49
80 64 0.51
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.25
Consensus pattern (80 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTAGCTATATCCGGGCTAAGTCCCGAAGGCA
TTTCTGCGAGTTACT
Found at i:39833261 original size:119 final size:119
Alignment explanation
Indices: 39833043--39833263 Score: 313
Period size: 119 Copynumber: 1.9 Consensus size: 119
39833033 TATTCGGATG
* *
39833043 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTCCGGGCTAAGCCCGAAGGCAT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAATACCGGGCTAAGCCCGAAGGCAT
* * * *
39833108 TTCTGCGAGTTACTATATCTGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
66 TTCAGCAAGTTACTATATCTCGGCTAAATCCCGAAGGCATTTGTGCGAGTTACT
*
39833162 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTAAGTCCCGAAGGC
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAAT-ACCGGGCTAAG-CCCGAAGGC
* *
39833226 ATTTGAGCAAG-TAGCTATATC-CGGCTAAATTCCGAAGG
64 ATTTCAGCAAGTTA-CTATATCTCGGCTAAATCCCGAAGG
39833264 TACTTGGTTT
Statistics
Matches: 90, Mismatches: 9, Indels: 6
0.86 0.09 0.06
Matches are distributed among these distances:
118 2 0.02
119 64 0.71
120 24 0.27
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.25
Consensus pattern (119 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAATACCGGGCTAAGCCCGAAGGCAT
TTCAGCAAGTTACTATATCTCGGCTAAATCCCGAAGGCATTTGTGCGAGTTACT
Found at i:39837577 original size:47 final size:47
Alignment explanation
Indices: 39837512--39838606 Score: 1732
Period size: 47 Copynumber: 23.1 Consensus size: 47
39837502 GAAATGATAG
* * *
39837512 TAAGGCCTAATGGCCGATGTGATGAACGTGGAAGTGTATATATATGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* *
39837559 TAAGGCCTAATGGCCGATGTGATGAACGTGAAAGTGTATATATATGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
39837606 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGA
* *
39837655 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGG
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* *
39837702 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGG
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
39837749 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATACATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT--ATATGTGA
*
39837798 TAGGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
39837845 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAAGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTG-AAAGTGTATATATGTGA
*
39837893 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGAGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
39837940 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATACATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT--ATATGTGA
*
39837989 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
39838036 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
39838083 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATACATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT--ATATGTGA
* *
39838132 TAGGGCCTAATGGCTGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* *
39838179 TAAGGCCTAATGGTCGATGTGATGAATGTGAAAGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
39838226 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
39838273 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGA
* *
39838322 TAGGGCCTAATGGCCGATGTGATGAATGTGAAAGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
39838369 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
39838416 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGA
*
39838465 TAGGGCCTAAT-G--G--GTGATGAATGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGA
* *
39838509 TAGGGCCTAATGGCCGATGTGATGAATGTGAAAGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* * * * * * * *
39838556 CAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTATAAATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
39838603 TAAG
1 TAAG
39838607 TCCCGAAGGG
Statistics
Matches: 987, Mismatches: 43, Indels: 36
0.93 0.04 0.03
Matches are distributed among these distances:
44 42 0.04
45 1 0.00
46 1 0.00
47 634 0.64
48 47 0.05
49 262 0.27
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (47 bp):
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
Found at i:39837686 original size:96 final size:96
Alignment explanation
Indices: 39837512--39838606 Score: 1719
Period size: 96 Copynumber: 11.6 Consensus size: 96
39837502 GAAATGATAG
* *
39837512 TAAGGCCTAATGGCCGATGTGATGAACGTGGAAGTGTATATATA--TGATAAGGCCTAATGGCCG
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
* *
39837575 ATGTGATGAACGTGAAAGTGTATATATATGA
66 ATGTGATGAATGTGAAAGTGTATATATGTGA
39837606 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
* *
39837671 ATGTGATGAATGTGAAAGTGTATATACGTGG
66 ATGTGATGAATGTGAAAGTGTATATATGTGA
* *
39837702 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATACGTGGTAAGGCCTAATGGCCG
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
39837765 ATGTGATGAATGTGAAAGTGTATACATATGTGA
66 ATGTGATGAATGTGAAAGTGTAT--ATATGTGA
*
39837798 TAGGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCG
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
*
39837861 ATGTGATGAATGTGAAAAGTATATATATGTGA
66 ATGTGATGAATGTG-AAAGTGTATATATGTGA
*
39837893 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGAG--TATATATGTGATAAGGCCTAATGGCCG
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
39837956 ATGTGATGAATGTGAAAGTGTATACATATGTGA
66 ATGTGATGAATGTGAAAGTGTAT--ATATGTGA
39837989 TAAGGCCTAATGGCCGATGTGATGAATGTGAAA--GTATATATATGTGATAAGGCCTAATGGCCG
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
39838052 ATGTGATGAATGTGAAAGTGTATATATGTGA
66 ATGTGATGAATGTGAAAGTGTATATATGTGA
* * *
39838083 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATACATATGTGATAGGGCCTAATGGCTG
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
39838148 ATGTGATGAATGTGAAAGTGTATATATGTGA
66 ATGTGATGAATGTGAAAGTGTATATATGTGA
*
39838179 TAAGGCCTAATGGTCGATGTGATGAATGTGAAA--GTATATATATGTGATAAGGCCTAATGGCCG
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
*
39838242 ATGTGATGAATGTGAAAGTGTATATACGTGA
66 ATGTGATGAATGTGAAAGTGTATATATGTGA
*
39838273 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAGGGCCTAATGGCCG
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
*
39838338 ATGTGATGAATGTGAAAGTATATATATGTGA
66 ATGTGATGAATGTGAAAGTGTATATATGTGA
*
39838369 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATACGTGATAAGGCCTAATGGCCG
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
39838432 ATGTGATGAATGTGAAAGTGTATATATATGTGA
66 ATGTGATGAATGTGAAAGTG--TATATATGTGA
* *
39838465 TAGGGCCTAAT-G--G--GTGATGAATGTGAAAGTGTATATATATGTGATAGGGCCTAATGGCCG
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
*
39838525 ATGTGATGAATGTGAAAGTATATATATGTGA
66 ATGTGATGAATGTGAAAGTGTATATATGTGA
* * * * * * *
39838556 CAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTATA-A-ATGTGATAAG
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAG
39838607 TCCCGAAGGG
Statistics
Matches: 937, Mismatches: 42, Indels: 44
0.92 0.04 0.04
Matches are distributed among these distances:
91 37 0.04
92 1 0.00
93 45 0.05
94 282 0.30
95 85 0.09
96 479 0.51
97 8 0.01
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (96 bp):
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
ATGTGATGAATGTGAAAGTGTATATATGTGA
Found at i:39837770 original size:143 final size:143
Alignment explanation
Indices: 39837512--39838606 Score: 1739
Period size: 143 Copynumber: 7.7 Consensus size: 143
39837502 GAAATGATAG
* * *
39837512 TAAGGCCTAATGGCCGATGTGATGAACGTGGAAGTGTATATATATGATAAGGCCTAATGGCCGAT
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGAT
* *
39837577 GTGATGAACGTGAAAGTGTATATATATGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
66 GTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
39837642 TATATATATGTGA
131 TATATATATGTGA
* *
39837655 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGGTAAGGCCTAATGGCCGAT
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGAT
* *
39837720 GTGATGAATGTGAAAGTGTATATACGTGGTAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
66 GTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
*
39837785 TATACATATGTGA
131 TATATATATGTGA
*
39837798 TAGGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGAT
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGAT
* *
39837863 GTGATGAATGTGAAAAGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGA
66 GTGATGAATGTG-AAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGT
39837928 G--TATATATGTGA
130 GTATATATATGTGA
39837940 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATACATATGTGATAAGGCCTAATGGCCG
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT--ATATGTGATAAGGCCTAATGGCCG
*
39838005 ATGTGATGAATGTGAAAGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
64 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
39838070 TG--TATATATGTGA
129 TGTATATATATGTGA
* *
39838083 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATACATATGTGATAGGGCCTAATGGCTG
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT--ATATGTGATAAGGCCTAATGGCCG
*
39838148 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGTCGATGTGATGAATGTGAAA-
64 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
39838212 -GTATATATATGTGA
129 TGTATATATATGTGA
*
39838226 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGATAAGGCCTAATGGCCGAT
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGAT
*
39838291 GTGATGAATGTGAAAGTGTATATATATGTGATAGGGCCTAATGGCCGATGTGATGAATGTGAAA-
66 GTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
39838355 -GTATATATATGTGA
129 TGTATATATATGTGA
*
39838369 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGATAAGGCCTAATGGCCGAT
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGAT
*
39838434 GTGATGAATGTGAAAGTGTATATATATGTGATAGGGCCTAAT-G--G--GTGATGAATGTGAAAG
66 GTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
39838494 TGTATATATATGTGA
129 TGTATATATATGTGA
* * * * * * * *
39838509 TAGGGCCTAATGGCCGATGTGATGAATGTGAAAGTATATATATGTGACAGGGCCGAGTGGCCAAC
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGAT
* *
39838574 GTGATGGATGTGAAAGTGTATAAATGTGATAAG
66 GTGATGAATGTGAAAGTGTATATATGTGATAAG
39838607 TCCCGAAGGG
Statistics
Matches: 902, Mismatches: 41, Indels: 23
0.93 0.04 0.02
Matches are distributed among these distances:
138 28 0.03
140 88 0.10
141 42 0.05
142 49 0.05
143 608 0.67
144 87 0.10
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (143 bp):
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGAT
GTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
TATATATATGTGA
Found at i:39840595 original size:29 final size:29
Alignment explanation
Indices: 39840560--39840633 Score: 112
Period size: 29 Copynumber: 2.6 Consensus size: 29
39840550 GTTGTGAGAT
* * *
39840560 TGGCACTAAGTGTGCGGGCTTGAAATGCA
1 TGGCACTAAGTGTGCGAGCTTAAAATACA
*
39840589 TGGCACTAAGTGTGCGAGTTTAAAATACA
1 TGGCACTAAGTGTGCGAGCTTAAAATACA
39840618 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
39840634 TGGTTGATTA
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
29 41 1.00
ACGTcount: A:0.27, C:0.16, G:0.31, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGCTTAAAATACA
Found at i:39840716 original size:51 final size:51
Alignment explanation
Indices: 39840640--39840747 Score: 216
Period size: 51 Copynumber: 2.1 Consensus size: 51
39840630 TGCGTGGTTG
39840640 ATTATTAAGCACTATGTGTGCGAACCCACTATATATATATATTTTCTATCA
1 ATTATTAAGCACTATGTGTGCGAACCCACTATATATATATATTTTCTATCA
39840691 ATTATTAAGCACTATGTGTGCGAACCCACTATATATATATATTTTCTATCA
1 ATTATTAAGCACTATGTGTGCGAACCCACTATATATATATATTTTCTATCA
39840742 ATTATT
1 ATTATT
39840748 TATATTAAGG
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
51 57 1.00
ACGTcount: A:0.33, C:0.17, G:0.09, T:0.41
Consensus pattern (51 bp):
ATTATTAAGCACTATGTGTGCGAACCCACTATATATATATATTTTCTATCA
Found at i:39841122 original size:40 final size:40
Alignment explanation
Indices: 39840997--39841231 Score: 210
Period size: 40 Copynumber: 5.9 Consensus size: 40
39840987 TCGATTGATG
** **
39840997 TCCGGGCTAAGTCCCGAAG-GC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCT-AGTGA-TGTA
* ** * * **
39841037 TCCGGACTAAG-CCCGAAG-GCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGA-TGTA
39841076 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTA
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTA
*
39841116 TTCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTA
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTA
* * * * * *
39841156 TCCGGGCTAAGTTCTGAAGAGCATTCGTGCTGGTGTTATA
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTA
* * *
39841196 TCCGGGCT-AGGCCTCGAAGAGCAATCATGCTGGTGA
1 TCCGGGCTAAGTCC-CGAAGAGCATTCATGCTAGTGA
39841232 CGTGTATTCG
Statistics
Matches: 164, Mismatches: 27, Indels: 8
0.82 0.14 0.04
Matches are distributed among these distances:
39 29 0.18
40 123 0.75
41 12 0.07
ACGTcount: A:0.24, C:0.22, G:0.29, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTA
Found at i:39841147 original size:23 final size:23
Alignment explanation
Indices: 39841081--39841147 Score: 56
Period size: 23 Copynumber: 3.2 Consensus size: 23
39841071 CTAAATCCGG
39841081 GCTAAGTCCCGAAGAGCATTCAT
1 GCTAAGTCCCGAAGAGCATTCAT
* * **
39841104 GCT-AGT---G-A-TGTATTCGG
1 GCTAAGTCCCGAAGAGCATTCAT
39841121 GCTAAGTCCCGAAGAGCATTCAT
1 GCTAAGTCCCGAAGAGCATTCAT
39841144 GCTA
1 GCTA
39841148 GTGATGTATC
Statistics
Matches: 30, Mismatches: 8, Indels: 12
0.60 0.16 0.24
Matches are distributed among these distances:
17 8 0.27
18 4 0.13
19 1 0.03
21 1 0.03
22 4 0.13
23 12 0.40
ACGTcount: A:0.27, C:0.22, G:0.25, T:0.25
Consensus pattern (23 bp):
GCTAAGTCCCGAAGAGCATTCAT
Found at i:39844689 original size:49 final size:49
Alignment explanation
Indices: 39844551--39845943 Score: 2247
Period size: 47 Copynumber: 29.1 Consensus size: 49
39844541 GAAATGATAG
*
39844551 TAAGGCCTAATGGCCGATGTGATGAACGTGAAAGTGTATATATA--TGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
* *
39844598 TAAGGCCTAATGGCCAATGTGATGAACGTGAAAGTGTATATATA--TGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
*
39844645 TAAGGCCTAATGGCCGATGTGATGAACGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
39844694 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
*
39844743 TAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATATATA--TGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
* *
39844790 TAAGCCCTAATGGCCGATGTGATGAACGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
* *
39844839 TACGGCCTAATGGTCGATGTGATGAATGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
*
39844888 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGT-T-TATATACGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
*
39844935 TAAGCCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
*
39844984 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATACGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
* *
39845031 TAAGGCCTAATGGCCGATGTGATGAATGCGAAAGTG--TATATACGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
39845078 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
*
39845127 TAGGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
*
39845174 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATACGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
*
39845221 TAGGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
39845268 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
*
39845317 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATACATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
*
39845366 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTATATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
*
39845415 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATACGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
*
39845462 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATACATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
39845511 TAAGGCCTAATGGCCGATGTGATGAATGTGAAA--GTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
* *
39845558 TAAGGTCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATACGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
*
39845605 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATACATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
*
39845654 TAGGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
39845701 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
*
39845750 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATACGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
39845797 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
*
39845846 TAGGGCCTAATGGCCGATGTGATGAATGTGAAA--GTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
* * *** * * *
39845893 CAGGGCCGCGTGGCCAACGTGATGGATGTGAAAGTGTATA-A-ATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
39845940 TAAG
1 TAAG
39845944 TCCCGAAGGG
Statistics
Matches: 1269, Mismatches: 55, Indels: 44
0.93 0.04 0.03
Matches are distributed among these distances:
47 679 0.54
48 3 0.00
49 587 0.46
ACGTcount: A:0.32, C:0.10, G:0.29, T:0.29
Consensus pattern (49 bp):
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
Found at i:39844731 original size:96 final size:96
Alignment explanation
Indices: 39844551--39845943 Score: 2233
Period size: 96 Copynumber: 14.6 Consensus size: 96
39844541 GAAATGATAG
* *
39844551 TAAGGCCTAATGGCCGATGTGATGAACGTGAAAGTGTATATATA--TGATAAGGCCTAATGGCCA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
* *
39844614 ATGTGATGAACGTGAAAGTGTATATATATGA
66 ATGTGATGAATGTGAAAGTGTATATATGTGA
*
39844645 TAAGGCCTAATGGCCGATGTGATGAACGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
39844710 ATGTGATGAATGTGAAAGTGTATATATATGTGA
66 ATGTGATGAATGTGAAAGTG--TATATATGTGA
* *
39844743 TAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATATATA--TGATAAGCCCTAATGGCCG
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
*
39844806 ATGTGATGAACGTGAAAGTGTATATATATGTGA
66 ATGTGATGAATGTGAAAGTG--TATATATGTGA
* *
39844839 TACGGCCTAATGGTCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
* *
39844904 ATGTGATGAATGTGAAAGTTTATATACGTGA
66 ATGTGATGAATGTGAAAGTGTATATATGTGA
*
39844935 TAAGCCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
*
39845000 ATGTGATGAATGTGAAAGTGTATATACGTGA
66 ATGTGATGAATGTGAAAGTGTATATATGTGA
* *
39845031 TAAGGCCTAATGGCCGATGTGATGAATGCGAAAGTG--TATATACGTGATAAGGCCTAATGGCCG
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
39845094 ATGTGATGAATGTGAAAGTGTATATATATGTGA
66 ATGTGATGAATGTGAAAGTG--TATATATGTGA
*
39845127 TAGGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCG
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
*
39845190 ATGTGATGAATGTGAAAGTGTATATACGTGA
66 ATGTGATGAATGTGAAAGTGTATATATGTGA
*
39845221 TAGGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCG
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
39845284 ATGTGATGAATGTGAAAGTGTATATATATGTGA
66 ATGTGATGAATGTGAAAGTG--TATATATGTGA
*
39845317 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATACATATGTGATAAGGCCTAATGGCCG
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
*
39845382 ATGTGATGAATGTGAAAGTATATATATATGTGA
66 ATGTGATGAATGTGAAAG--TGTATATATGTGA
*
39845415 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATACGTGATAAGGCCTAATGGCCG
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
39845478 ATGTGATGAATGTGAAAGTGTATACATATGTGA
66 ATGTGATGAATGTGAAAGTGTAT--ATATGTGA
*
39845511 TAAGGCCTAATGGCCGATGTGATGAATGTGAAA--GTATATATATGTGATAAGGTCTAATGGCCG
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
*
39845574 ATGTGATGAATGTGAAAGTGTATATACGTGA
66 ATGTGATGAATGTGAAAGTGTATATATGTGA
* *
39845605 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATACATATGTGATAGGGCCTAATGGCCG
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
39845670 ATGTGATGAATGTGAAAGTGTATATATGTGA
66 ATGTGATGAATGTGAAAGTGTATATATGTGA
39845701 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
*
39845766 ATGTGATGAATGTGAAAGTGTATATACGTGA
66 ATGTGATGAATGTGAAAGTGTATATATGTGA
*
39845797 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAGGGCCTAATGGCCG
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
*
39845862 ATGTGATGAATGTGAAAGTATATATATGTGA
66 ATGTGATGAATGTGAAAGTGTATATATGTGA
* * *** * * *
39845893 CAGGGCCGCGTGGCCAACGTGATGGATGTGAAAGTGTATA-A-ATGTGATAAG
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAG
39845944 TCCCGAAGGG
Statistics
Matches: 1224, Mismatches: 55, Indels: 40
0.93 0.04 0.03
Matches are distributed among these distances:
94 237 0.19
95 1 0.00
96 806 0.66
98 179 0.15
100 1 0.00
ACGTcount: A:0.32, C:0.10, G:0.29, T:0.29
Consensus pattern (96 bp):
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
ATGTGATGAATGTGAAAGTGTATATATGTGA
Found at i:39845071 original size:143 final size:143
Alignment explanation
Indices: 39844551--39845943 Score: 2276
Period size: 143 Copynumber: 9.7 Consensus size: 143
39844541 GAAATGATAG
* * *
39844551 TAAGGCCTAATGGCCGATGTGATGAACGTGAAAGTGTATATATATGATAAGGCCTAATGGCCAAT
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGAT
* * *
39844616 GTGATGAACGTGAAAGTGTATATATATGATAAGGCCTAATGGCCGATGTGATGAACGTGAAAGTG
66 GTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
39844681 TATATATATGTGA
131 TATATATATGTGA
*
39844694 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCG
* * *
39844759 ATGTGATGAATGTGAAAGTGTATATATATGATAAGCCCTAATGGCCGATGTGATGAACGTGAAAG
64 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
39844824 TGTATATATATGTGA
129 TGTATATATATGTGA
* *
39844839 TACGGCCTAATGGTCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCG
* * *
39844904 ATGTGATGAATGTGAAAGTTTATATACGTGATAAGCCCTAATGGCCGATGTGATGAATGTGAAAG
64 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
39844969 TGTATATATATGTGA
129 TGTATATATATGTGA
*
39844984 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGATAAGGCCTAATGGCCGAT
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGAT
* *
39845049 GTGATGAATGCGAAAGTGTATATACGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
66 GTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
39845114 TATATATATGTGA
131 TATATATATGTGA
*
39845127 TAGGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGAT
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGAT
* *
39845192 GTGATGAATGTGAAAGTGTATATACGTGATAGGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
66 GTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
39845257 --TATATATGTGA
131 TATATATATGTGA
39845268 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCG
39845333 ATGTGATGAATGTGAAAGTGTATACATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
64 ATGTGATGAATGTGAAAGTGTAT--ATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
39845398 AGTATATATATATGTGA
127 AGTGTATATATATGTGA
*
39845415 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGATAAGGCCTAATGGCCGAT
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGAT
39845480 GTGATGAATGTGAAAGTGTATACATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA-
66 GTGATGAATGTGAAAGTGTAT--ATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
39845544 -GTATATATATGTGA
129 TGTATATATATGTGA
* *
39845558 TAAGGTCTAATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGATAAGGCCTAATGGCCGAT
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGAT
*
39845623 GTGATGAATGTGAAAGTGTATACATATGTGATAGGGCCTAATGGCCGATGTGATGAATGTGAAAG
66 GTGATGAATGTGAAAGTGTAT--ATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
39845688 TG--TATATATGTGA
129 TGTATATATATGTGA
39845701 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCG
*
39845766 ATGTGATGAATGTGAAAGTGTATATACGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
64 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
39845831 TGTATATATATGTGA
129 TGTATATATATGTGA
* * * * *** * *
39845846 TAGGGCCTAATGGCCGATGTGATGAATGTGAAAGTATATATATGTGACAGGGCCGCGTGGCCAAC
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGAT
* *
39845911 GTGATGGATGTGAAAGTGTATAAATGTGATAAG
66 GTGATGAATGTGAAAGTGTATATATGTGATAAG
39845944 TCCCGAAGGG
Statistics
Matches: 1191, Mismatches: 45, Indels: 28
0.94 0.04 0.02
Matches are distributed among these distances:
141 46 0.04
143 594 0.50
145 504 0.42
147 47 0.04
ACGTcount: A:0.32, C:0.10, G:0.29, T:0.29
Consensus pattern (143 bp):
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGAT
GTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
TATATATATGTGA
Found at i:39846118 original size:37 final size:37
Alignment explanation
Indices: 39846062--39846140 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
39846052 CCGAGCTCTA
* * *
39846062 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
39846099 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
39846136 AAGAC
1 AAGAC
39846141 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:39853347 original size:39 final size:40
Alignment explanation
Indices: 39853286--39853505 Score: 330
Period size: 39 Copynumber: 5.7 Consensus size: 40
39853276 TTCGGATGAA
* *
39853286 AACCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-
1 AACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAT
*
39853325 ATTCCGGGCTAAG-CCCGAAGGCA-TTGTGCGAGTTA-TAT
1 A-ACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAT
* *
39853363 ATCCGGTCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAT
1 AACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAT
39853403 AACCGGGCTAAGTCCCGAAGGCATTTGT-CGAGTTACTAT
1 AACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAT
39853442 AACCGGGCTAAGTCCCGAAGGCATTTGT-CGAGTTACTAT
1 AACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAT
39853481 AA-C-GGCTAAGTCCCGAAGGCATTTG
1 AACCGGGCTAAGTCCCGAAGGCATTTG
39853506 AGCAAGTAGC
Statistics
Matches: 170, Mismatches: 6, Indels: 12
0.90 0.03 0.06
Matches are distributed among these distances:
37 34 0.20
38 22 0.13
39 75 0.44
40 39 0.23
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (40 bp):
AACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAT
Found at i:39860384 original size:21 final size:21
Alignment explanation
Indices: 39860334--39860387 Score: 56
Period size: 21 Copynumber: 2.6 Consensus size: 21
39860324 ACCTGCCAAG
*
39860334 AGAAAAGTAAATTAATAAATA
1 AGAAAAATAAATTAATAAATA
* * *
39860355 ATAATAATAAATTAAATTAA-A
1 AGAAAAATAAATT-AATAAATA
39860376 AGAAAAATAAAT
1 AGAAAAATAAAT
39860388 GGCTAGAGTA
Statistics
Matches: 26, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
21 21 0.81
22 5 0.19
ACGTcount: A:0.69, C:0.00, G:0.06, T:0.26
Consensus pattern (21 bp):
AGAAAAATAAATTAATAAATA
Found at i:39861936 original size:30 final size:30
Alignment explanation
Indices: 39861891--39861949 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
39861881 AAAAATCATG
* *
39861891 CTTTTACAAATTTGCATTTTTA-CCCCTAAC
1 CTTTCACAAATTTGCA-ATTTAGCCCCTAAC
*
39861921 CTTTCACATATTTGCAATTTAGCCCCTAA
1 CTTTCACAAATTTGCAATTTAGCCCCTAA
39861950 GCTCGTAAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 4 0.16
30 21 0.84
ACGTcount: A:0.27, C:0.27, G:0.05, T:0.41
Consensus pattern (30 bp):
CTTTCACAAATTTGCAATTTAGCCCCTAAC
Found at i:39864414 original size:15 final size:14
Alignment explanation
Indices: 39864394--39864446 Score: 61
Period size: 15 Copynumber: 3.6 Consensus size: 14
39864384 GACATGAAAA
39864394 CCAAGATAAAGAAGT
1 CCAAGATAAAGAA-T
*
39864409 CCAAGACAAAGAAAT
1 CCAAGATAAAG-AAT
*
39864424 CCATGATAAAGCAAT
1 CCAAGATAAAG-AAT
39864439 CCAAGATA
1 CCAAGATA
39864447 CAATATCATA
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
15 30 0.94
16 2 0.06
ACGTcount: A:0.53, C:0.19, G:0.15, T:0.13
Consensus pattern (14 bp):
CCAAGATAAAGAAT
Found at i:39871916 original size:12 final size:12
Alignment explanation
Indices: 39871899--39871923 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
39871889 ACATCATATA
39871899 TTCAGAAAAATC
1 TTCAGAAAAATC
39871911 TTCAGAAAAATC
1 TTCAGAAAAATC
39871923 T
1 T
39871924 AATATCTCTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.48, C:0.16, G:0.08, T:0.28
Consensus pattern (12 bp):
TTCAGAAAAATC
Found at i:39875876 original size:28 final size:28
Alignment explanation
Indices: 39875819--39875971 Score: 229
Period size: 28 Copynumber: 5.5 Consensus size: 28
39875809 TAAATTGTGC
* *
39875819 AGCACTAAGTGTGCGA-ATTGACTATGT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
39875846 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
*
39875874 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
39875902 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
* * *
39875930 AGCACTAGGTGTGCGAG-CTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
*
39875957 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
39875972 GACTTAATAT
Statistics
Matches: 116, Mismatches: 9, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
27 37 0.32
28 79 0.68
ACGTcount: A:0.25, C:0.14, G:0.29, T:0.31
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATTATGT
Found at i:39875962 original size:83 final size:83
Alignment explanation
Indices: 39875819--39875971 Score: 236
Period size: 83 Copynumber: 1.8 Consensus size: 83
39875809 TAAATTGTGC
* *
39875819 AGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAGTTTGATTATGTAGCACTAAGT
1 AGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAGTCTGATTATATAGCACTAAGT
39875884 GTGCGAGTTTGACTATGT
66 GTGCGAGTTTGACTATGT
* * * *
39875902 AGCACTAAGTGTGCGAGTTTGATTATGTAGCACTAGGTGTGCGAG-CTGATTATATAGCACTGAG
1 AGCACTAAGTGTGCGA-ATTGACTATGTAGCACTAAGTGTGCGAGTCTGATTATATAGCACTAAG
39875966 TGTGCG
65 TGTGCG
39875972 GACTTAATAT
Statistics
Matches: 63, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
83 38 0.60
84 25 0.40
ACGTcount: A:0.25, C:0.14, G:0.29, T:0.31
Consensus pattern (83 bp):
AGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAGTCTGATTATATAGCACTAAGT
GTGCGAGTTTGACTATGT
Found at i:39884039 original size:28 final size:28
Alignment explanation
Indices: 39883982--39884134 Score: 229
Period size: 28 Copynumber: 5.5 Consensus size: 28
39883972 TAAATTGTGC
* *
39883982 AGCACTAAGTGTGCGA-ATTGACTATGT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
39884009 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
*
39884037 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
39884065 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
* * *
39884093 AGCACTAGGTGTGCGAG-CTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
*
39884120 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
39884135 GACTTAATAT
Statistics
Matches: 116, Mismatches: 9, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
27 37 0.32
28 79 0.68
ACGTcount: A:0.25, C:0.14, G:0.29, T:0.31
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATTATGT
Found at i:39884125 original size:83 final size:83
Alignment explanation
Indices: 39883982--39884134 Score: 236
Period size: 83 Copynumber: 1.8 Consensus size: 83
39883972 TAAATTGTGC
* *
39883982 AGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAGTTTGATTATGTAGCACTAAGT
1 AGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAGTCTGATTATATAGCACTAAGT
39884047 GTGCGAGTTTGACTATGT
66 GTGCGAGTTTGACTATGT
* * * *
39884065 AGCACTAAGTGTGCGAGTTTGATTATGTAGCACTAGGTGTGCGAG-CTGATTATATAGCACTGAG
1 AGCACTAAGTGTGCGA-ATTGACTATGTAGCACTAAGTGTGCGAGTCTGATTATATAGCACTAAG
39884129 TGTGCG
65 TGTGCG
39884135 GACTTAATAT
Statistics
Matches: 63, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
83 38 0.60
84 25 0.40
ACGTcount: A:0.25, C:0.14, G:0.29, T:0.31
Consensus pattern (83 bp):
AGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAGTCTGATTATATAGCACTAAGT
GTGCGAGTTTGACTATGT
Found at i:39886546 original size:14 final size:14
Alignment explanation
Indices: 39886526--39886570 Score: 65
Period size: 14 Copynumber: 3.2 Consensus size: 14
39886516 TCCTACACCT
39886526 TAAACCCTAAACTA
1 TAAACCCTAAACTA
*
39886540 TATACCCTAAA-TCA
1 TAAACCCTAAACT-A
39886554 TAAACCCTAAACTA
1 TAAACCCTAAACTA
39886568 TAA
1 TAA
39886571 TGATAATTAA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
13 1 0.04
14 25 0.93
15 1 0.04
ACGTcount: A:0.49, C:0.27, G:0.00, T:0.24
Consensus pattern (14 bp):
TAAACCCTAAACTA
Found at i:39886862 original size:14 final size:14
Alignment explanation
Indices: 39886843--39886947 Score: 63
Period size: 14 Copynumber: 7.5 Consensus size: 14
39886833 AAAAACGCCA
39886843 CTAAACCTTAAACC
1 CTAAACCTTAAACC
*
39886857 CTAAACAC-TAAACT
1 CTAAAC-CTTAAACC
39886871 CTAAACCCTT-AACC
1 CTAAA-CCTTAAACC
* *
39886885 CCAAACCCTTACACC
1 CTAAA-CCTTAAACC
* **
39886900 TTAAA-CTCCAACC
1 CTAAACCTTAAACC
* *
39886913 CTAACCCCTAAACC
1 CTAAACCTTAAACC
* * *
39886927 CTAAATCATAATCC
1 CTAAACCTTAAACC
39886941 CTAAACC
1 CTAAACC
39886948 CATAATTCAT
Statistics
Matches: 67, Mismatches: 19, Indels: 10
0.70 0.20 0.10
Matches are distributed among these distances:
13 8 0.12
14 50 0.75
15 9 0.13
ACGTcount: A:0.40, C:0.40, G:0.00, T:0.20
Consensus pattern (14 bp):
CTAAACCTTAAACC
Found at i:39886865 original size:21 final size:21
Alignment explanation
Indices: 39886841--39886946 Score: 63
Period size: 21 Copynumber: 5.0 Consensus size: 21
39886831 ATAAAAACGC
39886841 CACTAAACCTTAAACCCTAAA
1 CACTAAACCTTAAACCCTAAA
*
39886862 CACTAAA-CTCTAAACCCTTAA
1 CACTAAACCT-TAAACCCTAAA
* * * *
39886883 CCCCAAACCCTTACACCTTAAA
1 CACTAAA-CCTTAAACCCTAAA
* * * *
39886905 CTC-CAACCCTAACCCCTAAA
1 CACTAAACCTTAAACCCTAAA
* * * *
39886925 CCCTAAATCATAATCCCTAAA
1 CACTAAACCTTAAACCCTAAA
39886946 C
1 C
39886947 CCATAATTCA
Statistics
Matches: 64, Mismatches: 17, Indels: 8
0.72 0.19 0.09
Matches are distributed among these distances:
20 14 0.22
21 38 0.59
22 10 0.16
23 2 0.03
ACGTcount: A:0.41, C:0.40, G:0.00, T:0.20
Consensus pattern (21 bp):
CACTAAACCTTAAACCCTAAA
Found at i:39886998 original size:7 final size:7
Alignment explanation
Indices: 39886986--39887037 Score: 50
Period size: 7 Copynumber: 7.4 Consensus size: 7
39886976 AGTTAACTCC
*
39886986 TAAACCT
1 TAAACCA
*
39886993 TAAACCC
1 TAAACCA
39887000 TAAACCA
1 TAAACCA
* * *
39887007 TATATCT
1 TAAACCA
39887014 TAAACCA
1 TAAACCA
39887021 TAAACCA
1 TAAACCA
*
39887028 TAAACTA
1 TAAACCA
39887035 TAA
1 TAA
39887038 TGATAATTAA
Statistics
Matches: 36, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
7 36 1.00
ACGTcount: A:0.50, C:0.25, G:0.00, T:0.25
Consensus pattern (7 bp):
TAAACCA
Found at i:39887428 original size:41 final size:41
Alignment explanation
Indices: 39887194--39887412 Score: 334
Period size: 41 Copynumber: 5.4 Consensus size: 41
39887184 GTTATATGAC
* *
39887194 TTTTAGTGGCGTTTTTCCAAAAGAGCCGCTAATGCTCTGG-
1 TTTTAGCGGCGTTTTTCCAAAAGCGCCGCTAATGCTCTGGT
39887234 TTTTAGCGGCGTTTTTCCAAAAGCGCCGCTAATGCTCTGGT
1 TTTTAGCGGCGTTTTTCCAAAAGCGCCGCTAATGCTCTGGT
39887275 TTTTAGCGGCGTTTTTCCAAAAGCGCCGCTAATGCTCTGGT
1 TTTTAGCGGCGTTTTTCCAAAAGCGCCGCTAATGCTCTGGT
*
39887316 TTTTAGCGGCATTTTTCCAAAAGCGCCGCTAATGCTCTGGT
1 TTTTAGCGGCGTTTTTCCAAAAGCGCCGCTAATGCTCTGGT
* * * * * *
39887357 TTTTAGCGACGTTTTGCTAGAAGCACCGCTAATGCTCT-AT
1 TTTTAGCGGCGTTTTTCCAAAAGCGCCGCTAATGCTCTGGT
*
39887397 TTTTTGCGGCGTTTTT
1 TTTTAGCGGCGTTTTT
39887413 TACTAAAACG
Statistics
Matches: 165, Mismatches: 13, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
40 52 0.32
41 113 0.68
ACGTcount: A:0.18, C:0.22, G:0.23, T:0.37
Consensus pattern (41 bp):
TTTTAGCGGCGTTTTTCCAAAAGCGCCGCTAATGCTCTGGT
Found at i:39887484 original size:12 final size:12
Alignment explanation
Indices: 39887467--39887492 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
39887457 GTTTTTGGTT
39887467 AAAACGCCGCTA
1 AAAACGCCGCTA
39887479 AAAACGCCGCTA
1 AAAACGCCGCTA
39887491 AA
1 AA
39887493 GCCCTATTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.46, C:0.31, G:0.15, T:0.08
Consensus pattern (12 bp):
AAAACGCCGCTA
Found at i:39887981 original size:30 final size:30
Alignment explanation
Indices: 39887945--39888007 Score: 126
Period size: 30 Copynumber: 2.1 Consensus size: 30
39887935 CGAGATGGCC
39887945 TAAAAGCCCTTTTAGTATTTTTATTGACTA
1 TAAAAGCCCTTTTAGTATTTTTATTGACTA
39887975 TAAAAGCCCTTTTAGTATTTTTATTGACTA
1 TAAAAGCCCTTTTAGTATTTTTATTGACTA
39888005 TAA
1 TAA
39888008 CAGAATACGA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 33 1.00
ACGTcount: A:0.32, C:0.13, G:0.10, T:0.46
Consensus pattern (30 bp):
TAAAAGCCCTTTTAGTATTTTTATTGACTA
Found at i:39889774 original size:46 final size:46
Alignment explanation
Indices: 39889721--39889813 Score: 159
Period size: 46 Copynumber: 2.0 Consensus size: 46
39889711 GCATAACTTA
39889721 GTCTCTATAAAGAAGACCACCCAAGGATTATACATCTTCAGCGCAT
1 GTCTCTATAAAGAAGACCACCCAAGGATTATACATCTTCAGCGCAT
* **
39889767 GTCTCTATAAAGAAGATCACCTGAGGATTATACATCTTCAGCGCAT
1 GTCTCTATAAAGAAGACCACCCAAGGATTATACATCTTCAGCGCAT
39889813 G
1 G
39889814 CCGAAGTCAT
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
46 44 1.00
ACGTcount: A:0.33, C:0.24, G:0.17, T:0.26
Consensus pattern (46 bp):
GTCTCTATAAAGAAGACCACCCAAGGATTATACATCTTCAGCGCAT
Found at i:39891678 original size:29 final size:29
Alignment explanation
Indices: 39891636--39891703 Score: 100
Period size: 29 Copynumber: 2.3 Consensus size: 29
39891626 AATTAGCTAC
* *
39891636 TTGATTCACCTTCTGCGTGTAAGGTAAGG
1 TTGAATCACCTTCTGCGTGTAAGATAAGG
*
39891665 TTGAATCACCTTCTGCGTGTAAGATAATG
1 TTGAATCACCTTCTGCGTGTAAGATAAGG
*
39891694 TTGAACCACC
1 TTGAATCACC
39891704 CTTCCCAAGG
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 35 1.00
ACGTcount: A:0.25, C:0.21, G:0.22, T:0.32
Consensus pattern (29 bp):
TTGAATCACCTTCTGCGTGTAAGATAAGG
Found at i:39892315 original size:20 final size:20
Alignment explanation
Indices: 39892292--39892332 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
39892282 CTTTAAATTG
39892292 ATTTGAATAAAAGCAAATCA
1 ATTTGAATAAAAGCAAATCA
* * *
39892312 ATTTGATTGAAATCAAATCA
1 ATTTGAATAAAAGCAAATCA
39892332 A
1 A
39892333 AACGAGATAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.51, C:0.10, G:0.10, T:0.29
Consensus pattern (20 bp):
ATTTGAATAAAAGCAAATCA
Found at i:39893819 original size:40 final size:40
Alignment explanation
Indices: 39893774--39894250 Score: 794
Period size: 40 Copynumber: 11.9 Consensus size: 40
39893764 CAAGCTCAAT
* * * * *
39893774 TGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCACGAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
*
39893814 TGCCTTCGGGTCTTAGCCCGGATATATCAACTT-GCACAAT
1 TGCCTTCGGGTCTTAGCCCGGATATATCAA-TTCGCACAAA
39893854 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
* * *
39893894 CGCCGTCGGGTCTTAGCCCGGATATATCAGTTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
* *
39893934 TGCCTTCGGGTCTTATCCCGGATATATCAATCCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
* *
39893974 TGCCTTCGGGTCTTATCCCGGATATATCAGTTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
*
39894014 TGCCTTTGGGTCTTAGCCCGGATATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
*
39894054 TGCCTTCAGGTCTTAGCCCGGATATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
*
39894094 TGCCTTCGGGTCTTATCCCGGATATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
39894134 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
39894174 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
39894214 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCAC
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCAC
39894251 TAAGACCCGG
Statistics
Matches: 410, Mismatches: 25, Indels: 4
0.93 0.06 0.01
Matches are distributed among these distances:
39 2 0.00
40 407 0.99
41 1 0.00
ACGTcount: A:0.24, C:0.28, G:0.20, T:0.28
Consensus pattern (40 bp):
TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
Found at i:39893971 original size:120 final size:120
Alignment explanation
Indices: 39893774--39894342 Score: 819
Period size: 120 Copynumber: 4.9 Consensus size: 120
39893764 CAAGCTCAAT
* * * * *
39893774 TGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCACGAATGCCTTCGGGTCTTAGCCCGGATAT
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAATGCCTTCGGGTCTTAGCCCGGATAT
* *
39893839 ATCAA-CTTGCACAATTGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
66 ATCAATC-CGCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
* * * *
39893894 CGCCGTCGGGTCTTAGCCCGGATATATCAGTTCGCACAAATGCCTTCGGGTCTTATCCCGGATAT
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAATGCCTTCGGGTCTTAGCCCGGATAT
* *
39893959 ATCAATCCGCACAAATGCCTTCGGGTCTTATCCCGGATATATCAGTTCGCACAAA
66 ATCAATCCGCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
* *
39894014 TGCCTTTGGGTCTTAGCCCGGATATATCAATTCGCACAAATGCCTTCAGGTCTTAGCCCGGATAT
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAATGCCTTCGGGTCTTAGCCCGGATAT
* *
39894079 ATCAATTCGCACAAATGCCTTCGGGTCTTATCCCGGATATATCAATTCGCACAAA
66 ATCAATCCGCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
39894134 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAATGCCTTCGGGTCTTAGCCCGGATAT
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAATGCCTTCGGGTCTTAGCCCGGATAT
* *
39894199 ATCAATTCGCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACTAA
66 ATCAATCCGCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
*
39894254 ---------G----A-CCCGGATATATCAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATAT
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAATGCCTTCGGGTCTTAGCCCGGATAT
*
39894305 ATCAA-CTTGCACAAATGCCTTCGGGTCTTAGCCCGGAT
66 ATCAATC-CGCACAAATGCCTTCGGGTCTTAGCCCGGAT
39894343 GTATTCAAAT
Statistics
Matches: 419, Mismatches: 28, Indels: 18
0.90 0.06 0.04
Matches are distributed among these distances:
106 83 0.20
107 1 0.00
111 1 0.00
120 333 0.79
121 1 0.00
ACGTcount: A:0.24, C:0.28, G:0.20, T:0.27
Consensus pattern (120 bp):
TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAATGCCTTCGGGTCTTAGCCCGGATAT
ATCAATCCGCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
Found at i:39894311 original size:40 final size:40
Alignment explanation
Indices: 39894256--39894342 Score: 165
Period size: 40 Copynumber: 2.2 Consensus size: 40
39894246 CGCACTAAGA
39894256 CCCGGATATATCAACTCGCACAAATGCCTTCGGGTCTTAG
1 CCCGGATATATCAACTCGCACAAATGCCTTCGGGTCTTAG
*
39894296 CCCGGATATATCAACTTGCACAAATGCCTTCGGGTCTTAG
1 CCCGGATATATCAACTCGCACAAATGCCTTCGGGTCTTAG
39894336 CCCGGAT
1 CCCGGAT
39894343 GTATTCAAAT
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 46 1.00
ACGTcount: A:0.24, C:0.30, G:0.21, T:0.25
Consensus pattern (40 bp):
CCCGGATATATCAACTCGCACAAATGCCTTCGGGTCTTAG
Found at i:39894335 original size:106 final size:106
Alignment explanation
Indices: 39894150--39894342 Score: 361
Period size: 106 Copynumber: 1.8 Consensus size: 106
39894140 CGGGTCTTAG
*
39894150 CCCGGATATATCAATTCGCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAAT
1 CCCGGATATATCAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAAT
39894215 GCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACTAAGA
66 GCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACTAAGA
39894256 CCCGGATATATCAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTT-GCACAAA
1 CCCGGATATATCAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAA-TTCGCACAAA
39894320 TGCCTTCGGGTCTTAGCCCGGAT
65 TGCCTTCGGGTCTTAGCCCGGAT
39894343 GTATTCAAAT
Statistics
Matches: 85, Mismatches: 1, Indels: 2
0.97 0.01 0.02
Matches are distributed among these distances:
106 83 0.98
107 2 0.02
ACGTcount: A:0.26, C:0.28, G:0.20, T:0.26
Consensus pattern (106 bp):
CCCGGATATATCAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAAT
GCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACTAAGA
Found at i:39901929 original size:16 final size:16
Alignment explanation
Indices: 39901908--39901959 Score: 54
Period size: 16 Copynumber: 3.4 Consensus size: 16
39901898 TGTATTTGTA
39901908 AATTTTGATTTTATAT
1 AATTTTGATTTTATAT
* *
39901924 AATTTT-A-TATATAA
1 AATTTTGATTTTATAT
* *
39901938 AATTTTGATTTGATCT
1 AATTTTGATTTTATAT
39901954 AATTTT
1 AATTTT
39901960 TATAGATTAT
Statistics
Matches: 28, Mismatches: 6, Indels: 4
0.74 0.16 0.11
Matches are distributed among these distances:
14 11 0.39
15 2 0.07
16 15 0.54
ACGTcount: A:0.35, C:0.02, G:0.06, T:0.58
Consensus pattern (16 bp):
AATTTTGATTTTATAT
Found at i:39901943 original size:30 final size:29
Alignment explanation
Indices: 39901907--39901963 Score: 87
Period size: 30 Copynumber: 1.9 Consensus size: 29
39901897 TTGTATTTGT
*
39901907 AAATTTTGATTTTATATAATTTTATATATA
1 AAATTTTGATTTGATATAATTTT-TATATA
*
39901937 AAATTTTGATTTGATCTAATTTTTATA
1 AAATTTTGATTTGATATAATTTTTATA
39901964 GATTATTAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
29 4 0.16
30 21 0.84
ACGTcount: A:0.37, C:0.02, G:0.05, T:0.56
Consensus pattern (29 bp):
AAATTTTGATTTGATATAATTTTTATATA
Found at i:39902262 original size:15 final size:16
Alignment explanation
Indices: 39902232--39902269 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
39902222 TTAAAAACTA
39902232 ATTTAAAAAAATATTT
1 ATTTAAAAAAATATTT
39902248 ATTTAAAAATAAT-TTT
1 ATTTAAAAA-AATATTT
*
39902264 TTTTAA
1 ATTTAA
39902270 CTTTTTTCTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 17 0.85
17 3 0.15
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (16 bp):
ATTTAAAAAAATATTT
Found at i:39907098 original size:47 final size:47
Alignment explanation
Indices: 39906991--39907372 Score: 548
Period size: 47 Copynumber: 8.1 Consensus size: 47
39906981 GAAATGATAG
39906991 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGA
* *
39907040 TAGGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
39907087 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* * * *
39907134 TAAGGCCTAATAGCCGACGTGATGAATGTGAAAGTGTATGTGTGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* * * *
39907181 TAAGGCCTAATAGCCGACGTGATGAATGTGAAAGTGTATGTGTGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
39907228 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
39907275 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* * * * * * * * * *
39907322 CAAGGCCGAGTGGCCAACGTAATGGATGTGGAAGTGCATAAATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
39907369 TAAG
1 TAAG
39907373 TCCCAAAAGG
Statistics
Matches: 310, Mismatches: 23, Indels: 2
0.93 0.07 0.01
Matches are distributed among these distances:
47 275 0.89
49 35 0.11
ACGTcount: A:0.31, C:0.10, G:0.31, T:0.28
Consensus pattern (47 bp):
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
Found at i:39907534 original size:37 final size:37
Alignment explanation
Indices: 39907491--39907569 Score: 113
Period size: 37 Copynumber: 2.1 Consensus size: 37
39907481 CCGAGCTCTA
* * *
39907491 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGAGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGAGT
* *
39907528 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGAGT
39907565 AAGAC
1 AAGAC
39907570 TTCGTAATAA
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.25, C:0.19, G:0.30, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGAGT
Found at i:39909522 original size:43 final size:43
Alignment explanation
Indices: 39909422--39909524 Score: 197
Period size: 43 Copynumber: 2.4 Consensus size: 43
39909412 TTGGTTTTCA
*
39909422 GCACTAAGTGTGCGAGCAATAAGTGTTCACGGTTGTGAGATTG
1 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
39909465 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
1 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
39909508 GCACTAAGTGTGCGGGC
1 GCACTAAGTGTGCGGGC
39909525 TTGAAATGCA
Statistics
Matches: 59, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 59 1.00
ACGTcount: A:0.23, C:0.16, G:0.35, T:0.26
Consensus pattern (43 bp):
GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
Found at i:39909541 original size:29 final size:29
Alignment explanation
Indices: 39909506--39909579 Score: 105
Period size: 29 Copynumber: 2.6 Consensus size: 29
39909496 GTTGTGAGAT
* *
39909506 TGGCACTAAGTGTGCGGGCTTGAAA-TGCA
1 TGGCACTAAGTGTGCGAG-TTGAAAGTACA
*
39909535 TGGCACTAAGTGTGCGAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGAGTTGAAAGTACA
39909564 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
39909580 TGGTTGATTA
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
28 5 0.12
29 36 0.88
ACGTcount: A:0.26, C:0.16, G:0.32, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGTTGAAAGTACA
Found at i:39909938 original size:40 final size:40
Alignment explanation
Indices: 39909890--39910085 Score: 257
Period size: 40 Copynumber: 4.9 Consensus size: 40
39909880 TTGAATGATG
*
39909890 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTA
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATATA
* *
39909930 TCCGGGCTAAGTCCCGAGGAGCATTCATGCTAGTGATGTA
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATATA
* *
39909970 TCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATATA
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATATA
* ** * * * *
39910010 TCCGTGCTAAACCCCGAAGAGCATTCGTGCTGGTGTTATG
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATATA
* * *
39910050 TCCGGGCTAGGTCCCGAAGAGCAATCATGCTGGTGA
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGA
39910086 CGTGTATTCG
Statistics
Matches: 137, Mismatches: 19, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
40 137 1.00
ACGTcount: A:0.23, C:0.23, G:0.29, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATATA
Found at i:39914083 original size:47 final size:47
Alignment explanation
Indices: 39913550--39914075 Score: 818
Period size: 47 Copynumber: 11.1 Consensus size: 47
39913540 GAAATGATAG
* *
39913550 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTG--TATATGTGTGA
* * **
39913599 TAGGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
* **
39913646 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
*
39913693 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
*
39913740 TAAGGCCTAATAGCCGACGTGATGAATGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
* *
39913787 TAATGCCTAATAGCCGACGTGATGAATGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
* *
39913834 TAGGGCCTAATAGCCGACGTGATGAATGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
*
39913881 TAGGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
* *
39913928 TAAGGCCTAATAGCCGACGTGATGAATGTGAAAGTGTATGTGTGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
*
39913975 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
* * * *
39914022 TAAGGCCTAATGGCCGATGTTACGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
*
39914069 CAAGGCC
1 TAAGGCC
39914076 GAGTGGCCAA
Statistics
Matches: 456, Mismatches: 21, Indels: 2
0.95 0.04 0.00
Matches are distributed among these distances:
47 421 0.92
49 35 0.08
ACGTcount: A:0.31, C:0.10, G:0.30, T:0.29
Consensus pattern (47 bp):
TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
Found at i:39914294 original size:37 final size:37
Alignment explanation
Indices: 39914238--39914316 Score: 113
Period size: 37 Copynumber: 2.1 Consensus size: 37
39914228 CTGAGCTCTA
* * * *
39914238 AAGACCCGATGACTACGTGTGGGGATTTTGTTCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
39914275 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
39914312 AAGAC
1 AAGAC
39914317 TTCGTAATAA
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.24, C:0.18, G:0.32, T:0.27
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:39917924 original size:47 final size:46
Alignment explanation
Indices: 39917782--39917938 Score: 178
Period size: 47 Copynumber: 3.4 Consensus size: 46
39917772 AATAGCACAA
*
39917782 CCCAGACACGTCTTACACTAGCTATCTGTGTTGAGGCCGATGCATGT
1 CCCAGACACGTCTTACACTACCTATCT-TGTTGAGGCCGATGCATGT
* * * * * *
39917829 CCTAGACATGTCTTACACTAGCAC-AAC-TCTT-A-GTCGATGCGTGT
1 CCCAGACACGTCTTACACTA-C-CTATCTTGTTGAGGCCGATGCATGT
39917873 CCCAGACACGTCTTACACTACCTATCTTTGTTGAGGCCGATGCATGT
1 CCCAGACACGTCTTACACTACCTATC-TTGTTGAGGCCGATGCATGT
*
39917920 CCCAGACATGTCTTACACT
1 CCCAGACACGTCTTACACT
39917939 GGCTCTCAAA
Statistics
Matches: 89, Mismatches: 14, Indels: 14
0.76 0.12 0.12
Matches are distributed among these distances:
42 1 0.01
43 3 0.03
44 28 0.31
45 4 0.04
46 4 0.04
47 46 0.52
48 2 0.02
49 1 0.01
ACGTcount: A:0.23, C:0.29, G:0.19, T:0.29
Consensus pattern (46 bp):
CCCAGACACGTCTTACACTACCTATCTTGTTGAGGCCGATGCATGT
Found at i:39920086 original size:40 final size:40
Alignment explanation
Indices: 39920049--39920269 Score: 254
Period size: 40 Copynumber: 5.6 Consensus size: 40
39920039 GCTACTCGTT
*
39920049 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
*
39920089 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* *
39920129 CAAATGCCTTC-GGATCTTAGTCCGGATTTAGTAACTCGTA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAACTCGCA
* * *
39920169 CAAATGCCTTCGGG-CTTAGCCCGAAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * * * * *
39920208 CAAATGCCTTC-GGTCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAAC-TCGCA
*
39920248 CAAA-GCCTTCGGAACTTAGCCC
1 CAAATGCCTTCGGGACTTAGCCC
39920270 AGACATCATT
Statistics
Matches: 154, Mismatches: 21, Indels: 12
0.82 0.11 0.06
Matches are distributed among these distances:
38 2 0.01
39 53 0.34
40 95 0.62
41 4 0.03
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:39920161 original size:80 final size:80
Alignment explanation
Indices: 39920049--39920265 Score: 264
Period size: 79 Copynumber: 2.7 Consensus size: 80
39920039 GCTACTCGTT
* *
39920049 CAAATGCCTTCGGGA-CATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCC
1 CAAATGCCTTC-GGATCTTAGTCCGGATT-TAGTAACTCGCACAAATGCCTTCGGGACTTAACCC
* *
39920112 GGATTTAGTAACTCGCA
64 GAAATTAGTAACTCGCA
* *
39920129 CAAATGCCTTCGGATCTTAGTCCGGATTTAGTAACTCGTACAAATGCCTTCGGG-CTTAGCCCGA
1 CAAATGCCTTCGGATCTTAGTCCGGATTTAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGA
*
39920193 AATTAGTATCTCGCA
66 AATTAGTAACTCGCA
* * * * *
39920208 CAAATGCCTTCGG-TCTTAGTCCGGATATGGTCACTTAGCACAAA-GCCTTCGGAACTTA
1 CAAATGCCTTCGGATCTTAGTCCGGATTTAGTAAC-TCGCACAAATGCCTTCGGGACTTA
39920266 GCCCAGACAT
Statistics
Matches: 120, Mismatches: 13, Indels: 9
0.85 0.09 0.06
Matches are distributed among these distances:
78 26 0.22
79 48 0.40
80 44 0.37
81 2 0.02
ACGTcount: A:0.26, C:0.26, G:0.21, T:0.27
Consensus pattern (80 bp):
CAAATGCCTTCGGATCTTAGTCCGGATTTAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGA
AATTAGTAACTCGCA
Found at i:39932881 original size:24 final size:24
Alignment explanation
Indices: 39932854--39932950 Score: 106
Period size: 24 Copynumber: 4.1 Consensus size: 24
39932844 GTGTTACAAT
* *
39932854 CCCTATCACCAGACACCTGCAAAC
1 CCCTATCACCAGACACATGCGAAC
* *
39932878 CCCTAT-ACTAGACACTTGCGAAC
1 CCCTATCACCAGACACATGCGAAC
* * **
39932901 CTCTATCACTAGACACATATGAAC
1 CCCTATCACCAGACACATGCGAAC
*
39932925 CCCTATCACCAGATACATGCGAAC
1 CCCTATCACCAGACACATGCGAAC
39932949 CC
1 CC
39932951 TTATAGTGAA
Statistics
Matches: 60, Mismatches: 12, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
23 19 0.32
24 41 0.68
ACGTcount: A:0.33, C:0.38, G:0.10, T:0.19
Consensus pattern (24 bp):
CCCTATCACCAGACACATGCGAAC
Found at i:39932892 original size:23 final size:24
Alignment explanation
Indices: 39932854--39932916 Score: 83
Period size: 23 Copynumber: 2.7 Consensus size: 24
39932844 GTGTTACAAT
*
39932854 CCCTATCACCAGACACCTGCAAAC
1 CCCTATCACTAGACACCTGCAAAC
* *
39932878 CCCTAT-ACTAGACACTTGCGAAC
1 CCCTATCACTAGACACCTGCAAAC
*
39932901 CTCTATCACTAGACAC
1 CCCTATCACTAGACAC
39932917 ATATGAACCC
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
23 19 0.56
24 15 0.44
ACGTcount: A:0.32, C:0.40, G:0.10, T:0.19
Consensus pattern (24 bp):
CCCTATCACTAGACACCTGCAAAC
Found at i:39938448 original size:50 final size:51
Alignment explanation
Indices: 39938371--39938497 Score: 184
Period size: 50 Copynumber: 2.5 Consensus size: 51
39938361 CCATGGCAAC
* *
39938371 AAGTGATAAGTGATAGCTTCGGATACACTTATCTGATCAAAGACAAGTG-A
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAAGACAAATGCA
* * *
39938421 AAGTGATAAGTGATAGCTTCGGCTACACTTATTTGATCAAGGACAAATGCC
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAAGACAAATGCA
* *
39938472 AAGTGAAAAGTGGTAGCTTCGGCTAC
1 AAGTGATAAGTGATAGCTTCGGCTAC
39938498 CTGATCAGTG
Statistics
Matches: 69, Mismatches: 7, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
50 45 0.65
51 24 0.35
ACGTcount: A:0.35, C:0.16, G:0.24, T:0.26
Consensus pattern (51 bp):
AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAAGACAAATGCA
Found at i:39938511 original size:31 final size:31
Alignment explanation
Indices: 39938473--39938621 Score: 226
Period size: 31 Copynumber: 4.8 Consensus size: 31
39938463 ACAAATGCCA
39938473 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
* *
39938504 AGTGAAAAGTGGTAGCTTCTGCTACCTGACC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
*
39938535 AGTGAAAAGTGGTAGCTCCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
* * * *
39938566 AGTGAAAAATGGTAGCTCCAGCTACCTGTTC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
*
39938597 AGTGAATAGTGGTAGCTTCGGCTAC
1 AGTGAAAAGTGGTAGCTTCGGCTAC
39938622 AAGTGACAAG
Statistics
Matches: 106, Mismatches: 12, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 106 1.00
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.26
Consensus pattern (31 bp):
AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
Found at i:39938709 original size:47 final size:47
Alignment explanation
Indices: 39938640--39938810 Score: 184
Period size: 47 Copynumber: 3.6 Consensus size: 47
39938630 AGTGATTCCC
* * *
39938640 GTATAAGACCATATCTGGGATATGGCATCGGTGTGATATATGCTACT
1 GTATAAGACCATAGCTGGGATATGGCATCGGTGTGATATGTGATACT
* * * * *
39938687 GTATAAGACCATATCTGGGATATGGCATCAGTGAGACATGTGAT-TT
1 GTATAAGACCATAGCTGGGATATGGCATCGGTGTGATATGTGATACT
* * *
39938733 GTGTAAGACCATAGCTGGGCTATGGCATCGATATGTGATATGTGATTAC-
1 GTATAAGACCATAGCTGGGATATGGCATCG--GTGTGATATGTGA-TACT
* *
39938782 GTGTAAGACCATAGCTGGGTTATGGCATC
1 GTATAAGACCATAGCTGGGATATGGCATC
39938811 ATTATGTGAA
Statistics
Matches: 105, Mismatches: 15, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
46 27 0.26
47 39 0.37
48 10 0.10
49 29 0.28
ACGTcount: A:0.27, C:0.15, G:0.27, T:0.30
Consensus pattern (47 bp):
GTATAAGACCATAGCTGGGATATGGCATCGGTGTGATATGTGATACT
Found at i:39940468 original size:18 final size:20
Alignment explanation
Indices: 39940428--39940469 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
39940418 TGATTGAAAT
*
39940428 TTTAATTATTTTTGTTACTCA
1 TTTAATTATTTTAGTTAC-CA
39940449 TTTAATT-TTTTAGTTA-CA
1 TTTAATTATTTTAGTTACCA
39940467 TTT
1 TTT
39940470 TCCTCACAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
18 5 0.25
20 8 0.40
21 7 0.35
ACGTcount: A:0.24, C:0.07, G:0.05, T:0.64
Consensus pattern (20 bp):
TTTAATTATTTTAGTTACCA
Found at i:39941598 original size:25 final size:24
Alignment explanation
Indices: 39941565--39941612 Score: 78
Period size: 25 Copynumber: 2.0 Consensus size: 24
39941555 GAGATGCGTT
*
39941565 TTTATTATAAAATATCACATTTTAG
1 TTTATTATAAAATAT-AAATTTTAG
39941590 TTTATTATAAAATATAAATTTTA
1 TTTATTATAAAATATAAATTTTA
39941613 AAAATGTAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
24 7 0.32
25 15 0.68
ACGTcount: A:0.44, C:0.04, G:0.02, T:0.50
Consensus pattern (24 bp):
TTTATTATAAAATATAAATTTTAG
Found at i:39947218 original size:37 final size:37
Alignment explanation
Indices: 39947168--39947246 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
39947158 TTATTACGAA
* * *
39947168 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
39947205 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
39947242 GTCTT
1 GTCTT
39947247 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:39947441 original size:49 final size:49
Alignment explanation
Indices: 39947364--39947634 Score: 446
Period size: 47 Copynumber: 5.6 Consensus size: 49
39947354 GCCCTTCGGG
*
39947364 ACTTATCACATTCATCACATCGGCCATTAGGCCCTATCACATATATATAC
1 ACTT-TCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
*
39947414 ACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATATAC
1 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
*
39947463 ACTTTCACATTCATCAAATCGGCCATTAGGCCTTATCAC--ATATATAC
1 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
*
39947510 ACTTTCACATTCATCACATCGGCCATTAGGCCTTACCACATATATAT--
1 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
*
39947557 ACTTTCACATTCATCACATCGGCCATTATGCCTTATCAC--ATATATAC
1 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
39947604 ACTTTCACATTCATCACATCGGCCATTAGGC
1 ACTTTCACATTCATCACATCGGCCATTAGGC
39947635 ATCGGCCATT
Statistics
Matches: 210, Mismatches: 7, Indels: 11
0.92 0.03 0.05
Matches are distributed among these distances:
45 6 0.03
47 112 0.53
49 88 0.42
50 4 0.02
ACGTcount: A:0.30, C:0.30, G:0.08, T:0.31
Consensus pattern (49 bp):
ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
Found at i:39947639 original size:14 final size:14
Alignment explanation
Indices: 39947620--39947648 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
39947610 ACATTCATCA
39947620 CATCGGCCATTAGG
1 CATCGGCCATTAGG
39947634 CATCGGCCATTAGG
1 CATCGGCCATTAGG
39947648 C
1 C
39947649 CTTATCACAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.21, C:0.31, G:0.28, T:0.21
Consensus pattern (14 bp):
CATCGGCCATTAGG
Done.