Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D07
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: 58101237
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1550000 characters in sequence are not A, C, G, or T
File 126 of 199
Found at i:36318992 original size:32 final size:32
Alignment explanation
Indices: 36318950--36319025 Score: 89
Period size: 32 Copynumber: 2.4 Consensus size: 32
36318940 TGCATGTGTG
* * *
36318950 TAACTTTTCATCTTCAAGTCTCTTCGCATTAT
1 TAACTCTTCATATTCAAGTCTCTTCACATTAT
* **
36318982 TAACTCTTCATATTCAAGTCTTTTCACATTCG
1 TAACTCTTCATATTCAAGTCTCTTCACATTAT
*
36319014 TAACTTTTCATA
1 TAACTCTTCATA
36319026 ATTTATTTTG
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
32 37 1.00
ACGTcount: A:0.25, C:0.24, G:0.05, T:0.46
Consensus pattern (32 bp):
TAACTCTTCATATTCAAGTCTCTTCACATTAT
Found at i:36323504 original size:32 final size:32
Alignment explanation
Indices: 36323462--36323537 Score: 89
Period size: 32 Copynumber: 2.4 Consensus size: 32
36323452 TGCATGTCTG
* * *
36323462 TAACTTTTCATCTTCAAGTCTCTTCGCATTAT
1 TAACTCTTCATATTCAAGTCTCTTCACATTAT
* **
36323494 TAACTCTTCATATTCAAGTCTTTTCACATTCG
1 TAACTCTTCATATTCAAGTCTCTTCACATTAT
*
36323526 TAACTTTTCATA
1 TAACTCTTCATA
36323538 ATTTATTTTG
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
32 37 1.00
ACGTcount: A:0.25, C:0.24, G:0.05, T:0.46
Consensus pattern (32 bp):
TAACTCTTCATATTCAAGTCTCTTCACATTAT
Found at i:36326808 original size:40 final size:40
Alignment explanation
Indices: 36326764--36327028 Score: 333
Period size: 40 Copynumber: 6.7 Consensus size: 40
36326754 GCTCCTCGTT
*
36326764 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
* *
36326804 CAAATGCCTTTGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
*
36326844 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* *
36326884 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* *
36326923 CAAATGCCTTC-GGATCTTAGTCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAACTCGCA
* * * * *
36326963 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
*
36327004 CAAA-GCTTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
36327029 CATCATTCAA
Statistics
Matches: 204, Mismatches: 16, Indels: 10
0.89 0.07 0.04
Matches are distributed among these distances:
38 2 0.01
39 33 0.16
40 156 0.76
41 13 0.06
ACGTcount: A:0.25, C:0.26, G:0.22, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:36326948 original size:119 final size:122
Alignment explanation
Indices: 36326764--36327028 Score: 337
Period size: 119 Copynumber: 2.2 Consensus size: 122
36326754 GCTCCTCGTT
* * *
36326764 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTTGGGACTTAACCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTTCGGACTTAACCCG
* *
36326828 GATTTAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
66 GATTTAGTAACTCGCACAAATGCCTTC-GGATCTTAACCCGGATATAGTAACTTAGCA
* **
36326884 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCC-TTCGGATCTTAGTCC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTTCGGA-CTTAACCC
* ** * *
36326946 GGATTTAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCGGATATGGTCACTTAGCA
65 GGATTTAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGATATAGTAACTTAGCA
*
36327004 CAAA-GCTTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
36327029 CATCATTCAA
Statistics
Matches: 126, Mismatches: 14, Indels: 10
0.84 0.09 0.07
Matches are distributed among these distances:
118 8 0.06
119 84 0.67
120 34 0.27
ACGTcount: A:0.25, C:0.26, G:0.22, T:0.26
Consensus pattern (122 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTTCGGACTTAACCCG
GATTTAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGATATAGTAACTTAGCA
Found at i:36329333 original size:18 final size:18
Alignment explanation
Indices: 36329292--36329327 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
36329282 CATTCCGAAG
* *
36329292 TATATATATATATACATA
1 TATATGTATATATACACA
36329310 TATATGTATATATACACA
1 TATATGTATATATACACA
36329328 AGTATGCCCA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.47, C:0.08, G:0.03, T:0.42
Consensus pattern (18 bp):
TATATGTATATATACACA
Found at i:36329842 original size:27 final size:27
Alignment explanation
Indices: 36329804--36329954 Score: 169
Period size: 27 Copynumber: 5.6 Consensus size: 27
36329794 TAAATTGTAC
*
36329804 AGCACTAAGTGTGCGGTTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
36329831 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
36329857 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
36329885 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
36329913 AGCACTAAGTGTGCGATTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
36329940 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
36329955 GGCTCAATAT
Statistics
Matches: 104, Mismatches: 17, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
27 81 0.78
28 23 0.22
ACGTcount: A:0.26, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:36329918 original size:82 final size:81
Alignment explanation
Indices: 36329805--36329954 Score: 230
Period size: 82 Copynumber: 1.8 Consensus size: 81
36329795 AAATTGTACA
*
36329805 GCACTAAGTGTGCGGTTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGAT-GCACTAAGTG
1 GCACTAAGTGTGCGGTTTGACTATGTAGCACTAAGTGTGCGAAATGAATAT-ATAGCACTAAGTG
36329869 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** * *
36329886 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTATATAGCACTGAGTG
1 GCACTAAGTGTGCG-GTTTGACTATGTAGCACTAAGTGTGCGAAATGAATATATAGCACTAAGTG
36329951 TGCG
65 TGCG
36329955 GGCTCAATAT
Statistics
Matches: 62, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
81 16 0.26
82 46 0.74
ACGTcount: A:0.26, C:0.15, G:0.29, T:0.30
Consensus pattern (81 bp):
GCACTAAGTGTGCGGTTTGACTATGTAGCACTAAGTGTGCGAAATGAATATATAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:36329945 original size:55 final size:53
Alignment explanation
Indices: 36329804--36329954 Score: 167
Period size: 55 Copynumber: 2.8 Consensus size: 53
36329794 TAAATTGTAC
* *
36329804 AGCACTAAGTGTGCGGTTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG
1 AGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATATG
* * ** ** *
36329857 ATGCACTAAGTGTGCGAATTGACCATGCGGCACTAAGTGTGCGAGTTTGACTATG
1 A-GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGA-AATGAATATG
* * *
36329912 TAGCACTAAGTGTGCGATTTGATTATATAGCACTGAGTGTGCG
1 -AGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCG
36329955 GGCTCAATAT
Statistics
Matches: 80, Mismatches: 15, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
53 1 0.01
54 37 0.46
55 41 0.51
56 1 0.01
ACGTcount: A:0.26, C:0.15, G:0.28, T:0.30
Consensus pattern (53 bp):
AGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATATG
Found at i:36337824 original size:40 final size:40
Alignment explanation
Indices: 36337779--36338044 Score: 308
Period size: 40 Copynumber: 6.7 Consensus size: 40
36337769 GCTCCTCGTT
* *
36337779 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAGCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
* *
36337819 GAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
*
36337859 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* *
36337899 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* *
36337938 CAAATGCCTTC-GGATCTTAGTCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAACTCGCA
* ** * * * *
36337978 CAAATGCCTTC-AGATCTTAGTTCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
*
36338019 CAAA-GCTTTCGGGACTTAGCCCGGAT
1 CAAATGCCTTCGGGACTTAGCCCGGAT
36338045 ATCATTCAAA
Statistics
Matches: 200, Mismatches: 21, Indels: 10
0.87 0.09 0.04
Matches are distributed among these distances:
38 2 0.01
39 33 0.17
40 153 0.76
41 12 0.06
ACGTcount: A:0.25, C:0.26, G:0.22, T:0.27
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:36337963 original size:79 final size:80
Alignment explanation
Indices: 36337779--36337988 Score: 300
Period size: 79 Copynumber: 2.6 Consensus size: 80
36337769 GCTCCTCGTT
* * *
36337779 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAGCTCGCAGAAATGCCTTCGGGACTTAACCCG
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCACAAATGCCTTCGGGACTTAACCCG
*
36337843 GATTTAGTAACTCGCA
65 GAATTAGTAACTCGCA
* *
36337859 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACAAATGCCTTCGGG-CTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
*
36337923 AATTAGTATCTCGCA
66 AATTAGTAACTCGCA
* *
36337938 CAAATGCCTTC-GGATCTTAGTCCGGATTTAGTATCTCGCACAAATGCCTTC
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAACTCGCACAAATGCCTTC
36337989 AGATCTTAGT
Statistics
Matches: 118, Mismatches: 10, Indels: 5
0.89 0.08 0.04
Matches are distributed among these distances:
78 3 0.03
79 66 0.56
80 47 0.40
81 2 0.02
ACGTcount: A:0.25, C:0.27, G:0.21, T:0.26
Consensus pattern (80 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
AATTAGTAACTCGCA
Found at i:36338004 original size:119 final size:122
Alignment explanation
Indices: 36337779--36338043 Score: 319
Period size: 119 Copynumber: 2.2 Consensus size: 122
36337769 GCTCCTCGTT
* * *
36337779 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAGCTCGCAGAAATGCCTTCGGGACTTAACCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAGCTCGCACAAATGCCTTCGGGACTTAACCCG
* * *
36337843 GATTTAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGATTTAGTAAC-TCGCA
66 GATTTAGTAACTCGCACAAATGCCTTCGAGACTTAACCCGGATATAGTAACTTAGCA
* **
36337899 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTC-GGATCTTAGTCC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAGCTCGCACAAATGCCTTCGGGA-CTTAACCC
* *** * *
36337961 GGATTTAGTATCTCGCACAAATGCCTTC-AGATCTTAGTTCGGATATGGTCACTTAGCA
65 GGATTTAGTAACTCGCACAAATGCCTTCGAGA-CTTAACCCGGATATAGTAACTTAGCA
*
36338019 CAAA-GCTTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
36338044 TATCATTCAA
Statistics
Matches: 124, Mismatches: 16, Indels: 10
0.83 0.11 0.07
Matches are distributed among these distances:
118 5 0.04
119 85 0.69
120 34 0.27
ACGTcount: A:0.25, C:0.26, G:0.22, T:0.26
Consensus pattern (122 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAGCTCGCACAAATGCCTTCGGGACTTAACCCG
GATTTAGTAACTCGCACAAATGCCTTCGAGACTTAACCCGGATATAGTAACTTAGCA
Found at i:36340574 original size:20 final size:20
Alignment explanation
Indices: 36340547--36340599 Score: 63
Period size: 20 Copynumber: 2.6 Consensus size: 20
36340537 AGTTGTGCAA
36340547 ATAGGGACACCGAAGTGTA-
1 ATAGGGACACCGAAGTGTAT
**
36340566 ATCAGGGACATTGAAGTGTAT
1 AT-AGGGACACCGAAGTGTAT
*
36340587 ATAGGGGCACCGA
1 ATAGGGACACCGA
36340600 GGTGCAATGG
Statistics
Matches: 27, Mismatches: 5, Indels: 3
0.77 0.14 0.09
Matches are distributed among these distances:
19 2 0.07
20 23 0.85
21 2 0.07
ACGTcount: A:0.34, C:0.15, G:0.32, T:0.19
Consensus pattern (20 bp):
ATAGGGACACCGAAGTGTAT
Found at i:36347102 original size:11 final size:11
Alignment explanation
Indices: 36347088--36347121 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
36347078 AAAAAAAGAT
36347088 AAAAAAATTCA
1 AAAAAAATTCA
*
36347099 AAAAAAATTGA
1 AAAAAAATTCA
36347110 AAAAAAAGTTCA
1 AAAAAAA-TTCA
36347122 TGTGATTGCA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
11 17 0.85
12 3 0.15
ACGTcount: A:0.71, C:0.06, G:0.06, T:0.18
Consensus pattern (11 bp):
AAAAAAATTCA
Found at i:36348328 original size:38 final size:38
Alignment explanation
Indices: 36348282--36348354 Score: 137
Period size: 38 Copynumber: 1.9 Consensus size: 38
36348272 AAAATGAAAA
*
36348282 TGAAAAAGAAATTGAAAGAAAAGAAAACAAAAAGAGAT
1 TGAAAAAGAAATTGAAAGAAAAGAAAAAAAAAAGAGAT
36348320 TGAAAAAGAAATTGAAAGAAAAGAAAAAAAAAAGA
1 TGAAAAAGAAATTGAAAGAAAAGAAAAAAAAAAGA
36348355 AAAAGACATT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 34 1.00
ACGTcount: A:0.71, C:0.01, G:0.18, T:0.10
Consensus pattern (38 bp):
TGAAAAAGAAATTGAAAGAAAAGAAAAAAAAAAGAGAT
Found at i:36348330 original size:28 final size:28
Alignment explanation
Indices: 36348270--36348324 Score: 78
Period size: 26 Copynumber: 2.0 Consensus size: 28
36348260 AGTGCGAGTG
*
36348270 AGAAAATGAAAATGAAAAAGAAATTGAA
1 AGAAAATGAAAATCAAAAAGAAATTGAA
*
36348298 AGAAAA-GAAAA-CAAAAAGAGATTGAA
1 AGAAAATGAAAATCAAAAAGAAATTGAA
36348324 A
1 A
36348325 AAGAAATTGA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
26 14 0.56
27 5 0.20
28 6 0.24
ACGTcount: A:0.69, C:0.02, G:0.18, T:0.11
Consensus pattern (28 bp):
AGAAAATGAAAATCAAAAAGAAATTGAA
Found at i:36348338 original size:33 final size:33
Alignment explanation
Indices: 36348278--36348374 Score: 90
Period size: 38 Copynumber: 2.8 Consensus size: 33
36348268 TGAGAAAATG
* *
36348278 AAAATGAAAAAGAAATT-GAAAGAAAAGAAAACAA
1 AAAAAGAAAAAGAAATTGGAAAGAAAA-CAAA-AA
*
36348312 AAAGAGATTGAAAAAGAAATT-GAAAGAAAAGAAAAA
1 AAA-A-A--GAAAAAGAAATTGGAAAGAAAACAAAAA
*
36348348 AAAAAGAAAAAGACATTGGAAAGAAAA
1 AAAAAGAAAAAGAAATTGGAAAGAAAA
36348375 TGAGTGAAAA
Statistics
Matches: 55, Mismatches: 3, Indels: 11
0.80 0.04 0.16
Matches are distributed among these distances:
32 11 0.20
33 9 0.16
34 4 0.07
35 2 0.04
36 5 0.09
37 3 0.05
38 21 0.38
ACGTcount: A:0.71, C:0.02, G:0.18, T:0.09
Consensus pattern (33 bp):
AAAAAGAAAAAGAAATTGGAAAGAAAACAAAAA
Found at i:36348384 original size:43 final size:43
Alignment explanation
Indices: 36348296--36348391 Score: 104
Period size: 43 Copynumber: 2.2 Consensus size: 43
36348286 AAAGAAATTG
* * *
36348296 AAAGAAAAGAAAACAAAAAGAGATTGAAAAAGAAATTGAAAGA
1 AAAGAAAAAAAAACAAAAAGACATTGAAAAAGAAAATGAAAGA
* * **
36348339 AAAGAAAAAAAAAAGAAAAAGACATTG-GAAAGAAAATGAGTGA
1 AAAG-AAAAAAAAACAAAAAGACATTGAAAAAGAAAATGAAAGA
*
36348382 AAAGGAAAAA
1 AAAGAAAAAA
36348392 GAGCTTGAAC
Statistics
Matches: 44, Mismatches: 8, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
42 5 0.11
43 20 0.45
44 19 0.43
ACGTcount: A:0.70, C:0.02, G:0.20, T:0.08
Consensus pattern (43 bp):
AAAGAAAAAAAAACAAAAAGACATTGAAAAAGAAAATGAAAGA
Found at i:36364638 original size:49 final size:49
Alignment explanation
Indices: 36364289--36364899 Score: 944
Period size: 47 Copynumber: 12.6 Consensus size: 49
36364279 CCCTTCGGGA
* * * * *
36364289 CTTATCACAT-T-TATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
36364336 CCTGTCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
36364383 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
36364430 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
36364477 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
36364524 CTTATCACATATATATATATACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
36364575 CTTATCACATATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
36364626 CTTATCACATATATATATATGCACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATATA--CACTTTCACATTCATCACATCGGCCATTAGGC
36364679 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
36364728 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
36364777 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
36364824 CTTATCACATATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
36364873 CTTATCAC--ATATATACACTTTCACATT
1 CTTATCACATATATATACACTTTCACATT
36364900 TATTCAAATA
Statistics
Matches: 536, Mismatches: 18, Indels: 20
0.93 0.03 0.03
Matches are distributed among these distances:
46 1 0.00
47 246 0.46
49 133 0.25
51 116 0.22
53 40 0.07
ACGTcount: A:0.30, C:0.29, G:0.08, T:0.33
Consensus pattern (49 bp):
CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:36371885 original size:56 final size:56
Alignment explanation
Indices: 36371818--36371937 Score: 231
Period size: 56 Copynumber: 2.1 Consensus size: 56
36371808 ACAAGGGATG
36371818 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
*
36371874 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
36371930 ATGGGCAA
1 ATGGGCAA
36371938 TAAACTAATA
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 63 1.00
ACGTcount: A:0.45, C:0.09, G:0.23, T:0.23
Consensus pattern (56 bp):
ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
Found at i:36373156 original size:40 final size:40
Alignment explanation
Indices: 36373066--36373285 Score: 208
Period size: 40 Copynumber: 5.7 Consensus size: 40
36373056 TCGAATGATG
* * * *
36373066 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * * * *
36373106 TCCAGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTTAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
36373146 TCCGGGCTAAG-CCC----G-ATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
36373180 TCCGGGTTAAGTCCCAAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
36373220 TCCGGGTTAAGTCCCGAAGGCATTTGTTG-GAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTG-TGCGAGTTACTA-AA
*
36373261 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
36373286 AACGAGTAGC
Statistics
Matches: 149, Mismatches: 20, Indels: 22
0.78 0.10 0.12
Matches are distributed among these distances:
34 25 0.17
35 4 0.03
39 3 0.02
40 105 0.70
41 12 0.08
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.27
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:36373299 original size:40 final size:40
Alignment explanation
Indices: 36373168--36373318 Score: 157
Period size: 40 Copynumber: 3.8 Consensus size: 40
36373158 CCGATTGGTG
* *
36373168 CGAGTTACTA-AATCCGGGTTAAGTCCCAAAGGCATTTGTG
1 CGAGTTACTATAA-CCGGGTTAAGTCCCGAAGGCATTTGTA
*
36373208 CGAGTTACTA-AATCCGGGTTAAGTCCCGAAGGCATTTGTT
1 CGAGTTACTATAA-CCGGGTTAAGTCCCGAAGGCATTTGTA
* * * *
36373248 GGAGTTACTATAACCGGGCTATGTCCCGAAGGCATTTGAA
1 CGAGTTACTATAACCGGGTTAAGTCCCGAAGGCATTTGTA
* * *
36373288 CGAG-TAGCTATATCC-GGTTAAATTCCGAAGG
1 CGAGTTA-CTATAACCGGGTTAAGTCCCGAAGG
36373319 TACGTGATTT
Statistics
Matches: 96, Mismatches: 13, Indels: 5
0.84 0.11 0.04
Matches are distributed among these distances:
39 14 0.15
40 80 0.83
41 2 0.02
ACGTcount: A:0.27, C:0.20, G:0.26, T:0.27
Consensus pattern (40 bp):
CGAGTTACTATAACCGGGTTAAGTCCCGAAGGCATTTGTA
Found at i:36373303 original size:80 final size:79
Alignment explanation
Indices: 36373169--36373318 Score: 187
Period size: 80 Copynumber: 1.9 Consensus size: 79
36373159 CGATTGGTGC
* ** *
36373169 GAGTTACTAAATCCGGGTTAAGTCCCAAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCC
1 GAGTTACTAAATCCGGGCTAAGTCCCAAAGGCATTTGAACGAGTTACTAAATCC-GGTTAAATCC
36373234 CGAAGGCATTTGTTG
65 CGAAGGCATTTGTTG
* * * *
36373249 GAGTTACTATAA-CCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGCTATATCCGGTTAAATT
1 GAGTTACTA-AATCCGGGCTAAGTCCCAAAGGCATTTGAACGAGTTA-CTAAATCCGGTTAAATC
36373312 CCGAAGG
64 CCGAAGG
36373319 TACGTGATTT
Statistics
Matches: 60, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
79 16 0.27
80 42 0.70
81 2 0.03
ACGTcount: A:0.27, C:0.19, G:0.26, T:0.27
Consensus pattern (79 bp):
GAGTTACTAAATCCGGGCTAAGTCCCAAAGGCATTTGAACGAGTTACTAAATCCGGTTAAATCCC
GAAGGCATTTGTTG
Found at i:36378962 original size:49 final size:47
Alignment explanation
Indices: 36378902--36379454 Score: 827
Period size: 47 Copynumber: 11.6 Consensus size: 47
36378892 GATAATTGTG
* * *
36378902 ATGTGAATGTATATATATTTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* *
36378949 ATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
36378996 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGA
36379045 ATGTGAAAGTGTATATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTG----TATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
36379096 ATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* **
36379143 ATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCTAATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
36379190 ATGTGAAAGTGTATATATATGTGATAGGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGA
36379239 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
36379288 ATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
36379335 ATGTGAAAGTGTATATATGTGATGAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* * * * * * *
36379382 ATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGG
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* *
36379429 ATGTGAAAGTGTATAAATGTAATAAG
1 ATGTGAAAGTGTATATATGTGATAAG
36379455 TCCCGAAGGG
Statistics
Matches: 468, Mismatches: 32, Indels: 12
0.91 0.06 0.02
Matches are distributed among these distances:
47 283 0.60
49 136 0.29
51 49 0.10
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.30
Consensus pattern (47 bp):
ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
Found at i:36384622 original size:56 final size:56
Alignment explanation
Indices: 36384536--36384655 Score: 231
Period size: 56 Copynumber: 2.1 Consensus size: 56
36384526 ACAAGGGATG
36384536 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
*
36384592 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
36384648 ATGGGCAA
1 ATGGGCAA
36384656 TAAACTAATA
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 63 1.00
ACGTcount: A:0.45, C:0.09, G:0.23, T:0.23
Consensus pattern (56 bp):
ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
Found at i:36386014 original size:40 final size:40
Alignment explanation
Indices: 36385783--36386007 Score: 287
Period size: 40 Copynumber: 5.7 Consensus size: 40
36385773 TCGAATGATG
* * * *
36385783 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
36385823 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
36385863 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
36385902 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
36385942 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
* *
36385983 -CCGGGCTATGTCCCAAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
36386008 AACGAGTAGC
Statistics
Matches: 164, Mismatches: 16, Indels: 10
0.86 0.08 0.05
Matches are distributed among these distances:
39 34 0.21
40 120 0.73
41 10 0.06
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:36386029 original size:119 final size:119
Alignment explanation
Indices: 36385783--36386040 Score: 283
Period size: 119 Copynumber: 2.2 Consensus size: 119
36385773 TCGAATGATG
* *
36385783 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
* * **
36385848 GTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAAA
66 GTGCGAGATACTAATACCGGGCTAAGCCCAAAGGCATTGGAACGAGTTACTAAA
* * * **
36385902 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGTTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCAT
* * * *
36385965 TTGTGCGAGTTACT-ATAACCGGGCTATGTCCCAAAGGCATTTGAACGAG-TAGCTATA
64 TTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCAAAGGCATTGGAACGAGTTA-CTAAA
* *
36386022 TCC-GGTTAAATTCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
36386041 TACGTGATTT
Statistics
Matches: 117, Mismatches: 17, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
118 3 0.03
119 84 0.72
120 30 0.26
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (119 bp):
TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
GTGCGAGATACTAATACCGGGCTAAGCCCAAAGGCATTGGAACGAGTTACTAAA
Found at i:36393880 original size:20 final size:20
Alignment explanation
Indices: 36393857--36393899 Score: 70
Period size: 20 Copynumber: 2.1 Consensus size: 20
36393847 TTTTTCATTA
36393857 TTTTCTTCTTTCT-TTTCCTC
1 TTTTCTT-TTTCTATTTCCTC
36393877 TTTTCTTTTTCTATTTCCTC
1 TTTTCTTTTTCTATTTCCTC
36393897 TTT
1 TTT
36393900 CAATTGAGTT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
19 5 0.23
20 17 0.77
ACGTcount: A:0.02, C:0.26, G:0.00, T:0.72
Consensus pattern (20 bp):
TTTTCTTTTTCTATTTCCTC
Found at i:36394653 original size:104 final size:104
Alignment explanation
Indices: 36394512--36394702 Score: 229
Period size: 104 Copynumber: 1.8 Consensus size: 104
36394502 CGTGTAACTT
* * * * * *
36394512 ACTGTTTACAATTTAGAAGCACACGGGCAGATGACACGGATGAGTGTCAGGCTGTGTGAGACACA
1 ACTGTTTACAATTTAGAACCACACAGCCAGATAACACGGATGAGTGTCAGGCCGTGGGAGACACA
* *
36394577 AGAGCAAGGGCACGAGCATGTGTCCAAGCCATGTGACTC
66 AGAGCAAGGACACAAGCATGTGTCCAAGCCATGTGACTC
** * * * * *
36394616 ACTGTTTACGGTTTATAACCACACAGCCAGATAACACGTATGTGTGTCATGCCGTGGGAGCCACA
1 ACTGTTTACAATTTAGAACCACACAGCCAGATAACACGGATGAGTGTCAGGCCGTGGGAGACACA
* *
36394681 GGGGCAAGGACACAAGCATGTG
66 AGAGCAAGGACACAAGCATGTG
36394703 CCAGGCTGTG
Statistics
Matches: 70, Mismatches: 17, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
104 70 1.00
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (104 bp):
ACTGTTTACAATTTAGAACCACACAGCCAGATAACACGGATGAGTGTCAGGCCGTGGGAGACACA
AGAGCAAGGACACAAGCATGTGTCCAAGCCATGTGACTC
Found at i:36403076 original size:19 final size:19
Alignment explanation
Indices: 36403052--36403105 Score: 60
Period size: 17 Copynumber: 2.9 Consensus size: 19
36403042 AAAGCTGTAT
36403052 ACAATTAGAACTCTAAGAC
1 ACAATTAGAACTCTAAGAC
* *
36403071 ACAATTAGAAGT-T--GTAT
1 ACAATTAGAACTCTAAG-AC
36403088 ACAATTAGAACTCTAAGA
1 ACAATTAGAACTCTAAGA
36403106 TTACATAATC
Statistics
Matches: 28, Mismatches: 3, Indels: 8
0.72 0.08 0.21
Matches are distributed among these distances:
16 1 0.04
17 12 0.43
18 2 0.07
19 12 0.43
20 1 0.04
ACGTcount: A:0.46, C:0.15, G:0.13, T:0.26
Consensus pattern (19 bp):
ACAATTAGAACTCTAAGAC
Found at i:36403087 original size:36 final size:36
Alignment explanation
Indices: 36403035--36403105 Score: 124
Period size: 36 Copynumber: 2.0 Consensus size: 36
36403025 ATCAAATGCT
36403035 ACAATTAAAAGCTGTATACAATTAGAACTCTAAGAC
1 ACAATTAAAAGCTGTATACAATTAGAACTCTAAGAC
* *
36403071 ACAATTAGAAGTTGTATACAATTAGAACTCTAAGA
1 ACAATTAAAAGCTGTATACAATTAGAACTCTAAGA
36403106 TTACATAATC
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 33 1.00
ACGTcount: A:0.46, C:0.14, G:0.13, T:0.27
Consensus pattern (36 bp):
ACAATTAAAAGCTGTATACAATTAGAACTCTAAGAC
Found at i:36403093 original size:17 final size:17
Alignment explanation
Indices: 36403034--36403097 Score: 58
Period size: 17 Copynumber: 3.6 Consensus size: 17
36403024 CATCAAATGC
* *
36403034 TACAATTAAAAGCTGTA
1 TACAATTAGAAGTTGTA
*
36403051 TACAATTAGAACTCTAAG-A
1 TACAATTAGAAGT-T--GTA
*
36403070 CACAATTAGAAGTTGTA
1 TACAATTAGAAGTTGTA
36403087 TACAATTAGAA
1 TACAATTAGAA
36403098 CTCTAAGATT
Statistics
Matches: 37, Mismatches: 6, Indels: 8
0.73 0.12 0.16
Matches are distributed among these distances:
16 1 0.03
17 21 0.57
18 2 0.05
19 12 0.32
20 1 0.03
ACGTcount: A:0.47, C:0.12, G:0.12, T:0.28
Consensus pattern (17 bp):
TACAATTAGAAGTTGTA
Found at i:36407425 original size:19 final size:19
Alignment explanation
Indices: 36407401--36407454 Score: 69
Period size: 17 Copynumber: 2.9 Consensus size: 19
36407391 AAAGCTGTAT
36407401 ACAATTAGAACTCTAAGAC
1 ACAATTAGAACTCTAAGAC
*
36407420 ACAATTAGAAC-CT--GTAT
1 ACAATTAGAACTCTAAG-AC
36407437 ACAATTAGAACTCTAAGA
1 ACAATTAGAACTCTAAGA
36407455 TTACATAATC
Statistics
Matches: 30, Mismatches: 1, Indels: 8
0.77 0.03 0.21
Matches are distributed among these distances:
16 1 0.03
17 12 0.40
18 4 0.13
19 12 0.40
20 1 0.03
ACGTcount: A:0.46, C:0.19, G:0.11, T:0.24
Consensus pattern (19 bp):
ACAATTAGAACTCTAAGAC
Found at i:36407435 original size:36 final size:36
Alignment explanation
Indices: 36407384--36407454 Score: 124
Period size: 36 Copynumber: 2.0 Consensus size: 36
36407374 ATCAAAGGCT
*
36407384 ACAATTAAAAGCTGTATACAATTAGAACTCTAAGAC
1 ACAATTAAAACCTGTATACAATTAGAACTCTAAGAC
*
36407420 ACAATTAGAACCTGTATACAATTAGAACTCTAAGA
1 ACAATTAAAACCTGTATACAATTAGAACTCTAAGA
36407455 TTACATAATC
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 33 1.00
ACGTcount: A:0.46, C:0.17, G:0.11, T:0.25
Consensus pattern (36 bp):
ACAATTAAAACCTGTATACAATTAGAACTCTAAGAC
Found at i:36407442 original size:17 final size:17
Alignment explanation
Indices: 36407383--36407447 Score: 69
Period size: 17 Copynumber: 3.7 Consensus size: 17
36407373 CATCAAAGGC
* *
36407383 TACAATTAAAAGCTGTA
1 TACAATTAGAACCTGTA
36407400 TACAATTAGAACTCTAAG-A
1 TACAATTAGAAC-CT--GTA
*
36407419 CACAATTAGAACCTGTA
1 TACAATTAGAACCTGTA
36407436 TACAATTAGAAC
1 TACAATTAGAAC
36407448 TCTAAGATTA
Statistics
Matches: 40, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
16 1 0.03
17 22 0.55
18 4 0.10
19 12 0.30
20 1 0.03
ACGTcount: A:0.46, C:0.17, G:0.11, T:0.26
Consensus pattern (17 bp):
TACAATTAGAACCTGTA
Found at i:36419607 original size:35 final size:35
Alignment explanation
Indices: 36419524--36419594 Score: 133
Period size: 35 Copynumber: 2.0 Consensus size: 35
36419514 AACATGAATG
*
36419524 AACAACTCAAAGACAAGTCGAGATGGACCTTGGAA
1 AACAACTCAAAGACAAATCGAGATGGACCTTGGAA
36419559 AACAACTCAAAGACAAATCGAGATGGACCTTGGAA
1 AACAACTCAAAGACAAATCGAGATGGACCTTGGAA
36419594 A
1 A
36419595 TTTGAATCAA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.45, C:0.20, G:0.21, T:0.14
Consensus pattern (35 bp):
AACAACTCAAAGACAAATCGAGATGGACCTTGGAA
Found at i:36433836 original size:13 final size:13
Alignment explanation
Indices: 36433818--36433842 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
36433808 ATAATGACTC
36433818 TAAAAATATTTAA
1 TAAAAATATTTAA
36433831 TAAAAATATTTA
1 TAAAAATATTTA
36433843 CGGCTTTATA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (13 bp):
TAAAAATATTTAA
Found at i:36437700 original size:37 final size:37
Alignment explanation
Indices: 36437654--36437779 Score: 164
Period size: 37 Copynumber: 3.4 Consensus size: 37
36437644 AGCTTTTCGG
36437654 AGCATCTGGCATGTTATTAGGTGGATTAGCTCTTATA
1 AGCATCTGGCATGTTATTAGGTGGATTAGCTCTTATA
* * *
36437691 AGCACCTGGCTTGTTATCAGGTGGATTAGCTCTTATA
1 AGCATCTGGCATGTTATTAGGTGGATTAGCTCTTATA
* ** *
36437728 AGCATTTGGTGTGTTATTAGGTGGATTAGATCTTATGA
1 AGCATCTGGCATGTTATTAGGTGGATTAGCTCTTAT-A
*
36437766 A-CATTTGGCATGTT
1 AGCATCTGGCATGTT
36437780 TCAGTTGGAC
Statistics
Matches: 77, Mismatches: 11, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
37 75 0.97
38 2 0.03
ACGTcount: A:0.23, C:0.13, G:0.25, T:0.39
Consensus pattern (37 bp):
AGCATCTGGCATGTTATTAGGTGGATTAGCTCTTATA
Found at i:36442813 original size:16 final size:18
Alignment explanation
Indices: 36442782--36442819 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 18
36442772 AAAAATAAAA
*
36442782 ATAAAAATGAATAGAA-C
1 ATAAAAATGAACAGAATC
36442799 ATAAAAAT-AACAGAATC
1 ATAAAAATGAACAGAATC
36442816 ATAA
1 ATAA
36442820 TGTAATACCT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 6 0.32
17 13 0.68
ACGTcount: A:0.66, C:0.08, G:0.08, T:0.18
Consensus pattern (18 bp):
ATAAAAATGAACAGAATC
Found at i:36452537 original size:171 final size:171
Alignment explanation
Indices: 36452252--36452595 Score: 643
Period size: 171 Copynumber: 2.0 Consensus size: 171
36452242 AAGAGATGAT
*
36452252 GGTAACAAAAAACAAGACATTGAATAGGTAGGTCTTGCTTGCAAAACACTTTTAATAAAAACTTC
1 GGTAACAAAAAACAAGACATTGAATAGGTAGGTATTGCTTGCAAAACACTTTTAATAAAAACTTC
* *
36452317 TTTCCCTCCTTAGAAGAGTGGTTTAATAGACCAAATATCTATTCGGCTGTTCATACGATCTTTTA
66 TTTCCCTCCTTAGAAGAGTGGTTCAATACACCAAATATCTATTCGGCTGTTCATACGATCTTTTA
36452382 ATAATTGGAAAGCCTACCTTCTGTTTTGACCCACAAAATAA
131 ATAATTGGAAAGCCTACCTTCTGTTTTGACCCACAAAATAA
36452423 GGTAACAAAAAACAAGACATTGAATAGGTAGGTATTGCTTGCAAAACACTTTTAATAAAAACTTC
1 GGTAACAAAAAACAAGACATTGAATAGGTAGGTATTGCTTGCAAAACACTTTTAATAAAAACTTC
*
36452488 TTTCCCTCCTTAGAAGAGTGGTTCAATACACGAAATATCTATTCGGCTGTTCATACGATCTTTTA
66 TTTCCCTCCTTAGAAGAGTGGTTCAATACACCAAATATCTATTCGGCTGTTCATACGATCTTTTA
*
36452553 ATAATTGGAAAGCCTACCTTTTGTTTTGACCCACAAAATAA
131 ATAATTGGAAAGCCTACCTTCTGTTTTGACCCACAAAATAA
36452594 GG
1 GG
36452596 GAGCCCCAAA
Statistics
Matches: 168, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
171 168 1.00
ACGTcount: A:0.35, C:0.18, G:0.15, T:0.31
Consensus pattern (171 bp):
GGTAACAAAAAACAAGACATTGAATAGGTAGGTATTGCTTGCAAAACACTTTTAATAAAAACTTC
TTTCCCTCCTTAGAAGAGTGGTTCAATACACCAAATATCTATTCGGCTGTTCATACGATCTTTTA
ATAATTGGAAAGCCTACCTTCTGTTTTGACCCACAAAATAA
Found at i:36455307 original size:24 final size:24
Alignment explanation
Indices: 36455280--36455333 Score: 65
Period size: 24 Copynumber: 2.2 Consensus size: 24
36455270 AAATAAAATA
36455280 CAAAAAAA-AGGAAAACATCATATT
1 CAAAAAAAGAGG-AAACATCATATT
* **
36455304 CAAAAAAAGAGGTAATTTCATATT
1 CAAAAAAAGAGGAAACATCATATT
36455328 CAAAAA
1 CAAAAA
36455334 TAAATAAAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
24 23 0.88
25 3 0.12
ACGTcount: A:0.59, C:0.11, G:0.09, T:0.20
Consensus pattern (24 bp):
CAAAAAAAGAGGAAACATCATATT
Found at i:36458965 original size:26 final size:26
Alignment explanation
Indices: 36458935--36459009 Score: 114
Period size: 26 Copynumber: 2.9 Consensus size: 26
36458925 TGGAGGAAGT
* * *
36458935 ATACTGTTACTGGCAACTTTGTTGCG
1 ATACTGCTACTGGCAACTTTGCTCCG
36458961 ATACTGCTACTGGCAACTTTGCTCCG
1 ATACTGCTACTGGCAACTTTGCTCCG
*
36458987 ATACTGCTACTGGCAGCTTTGCT
1 ATACTGCTACTGGCAACTTTGCT
36459010 ACGGTATTGG
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 45 1.00
ACGTcount: A:0.19, C:0.25, G:0.21, T:0.35
Consensus pattern (26 bp):
ATACTGCTACTGGCAACTTTGCTCCG
Found at i:36467634 original size:26 final size:26
Alignment explanation
Indices: 36467600--36467706 Score: 124
Period size: 26 Copynumber: 4.1 Consensus size: 26
36467590 TGGAGGAAGT
* *
36467600 ATACTGTTACTGGCAACTTTGCTGCG
1 ATACTGTTACTGGCAGCTTTACTGCG
* * * * *
36467626 ATATTGTTATTGGCAGCTCTACCGTG
1 ATACTGTTACTGGCAGCTTTACTGCG
* *
36467652 ATACTGTTACTGGCAGCTTTGCTACG
1 ATACTGTTACTGGCAGCTTTACTGCG
*
36467678 ATACTATTACTGGCAGCTTTACTGCG
1 ATACTGTTACTGGCAGCTTTACTGCG
36467704 ATA
1 ATA
36467707 TTGGTGTGTT
Statistics
Matches: 64, Mismatches: 17, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
26 64 1.00
ACGTcount: A:0.21, C:0.21, G:0.21, T:0.36
Consensus pattern (26 bp):
ATACTGTTACTGGCAGCTTTACTGCG
Found at i:36477626 original size:47 final size:47
Alignment explanation
Indices: 36477557--36478205 Score: 1001
Period size: 47 Copynumber: 13.6 Consensus size: 47
36477547 AGTATATGTG
*
36477557 GAATGTGAAAGTATATATATATGTGATAAGGCCTAATGGCCGATGTGAT
1 GAATGTGAAAG--TGTATATATGTGATAAGGCCTAATGGCCGATGTGAT
*
36477606 GAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGAT
1 GAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGAT
36477653 GAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGAT
1 GAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGAT
* *
36477702 GAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGTCGATGTGAT
1 GAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGAT
36477749 GAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGAT
1 GAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGAT
* *
36477798 GAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGAT
1 GAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGAT
*
36477845 GAATGTGAAAGTATATATATGTGATAAGGCCTAATGGCCGATGTGAT
1 GAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGAT
*
36477892 GAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGAT
1 GAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGAT
36477939 GAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGAT
1 GAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGAT
* *
36477988 GAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGAT
1 GAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGAT
36478035 GAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGAT
1 GAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGAT
* * * *
36478084 GAATGTGAAGGTGTATATATGTAATAAGGCCTAATAGTCGATGTGAT
1 GAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGAT
* * * * * *
36478131 GAATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGAT
1 GAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGAT
* * *
36478178 GGACGTGAAAGTGTATAAATGTGATAAG
1 GAATGTGAAAGTGTATATATGTGATAAG
36478206 TCCCGAAGGG
Statistics
Matches: 554, Mismatches: 38, Indels: 18
0.91 0.06 0.03
Matches are distributed among these distances:
47 362 0.65
49 192 0.35
ACGTcount: A:0.34, C:0.08, G:0.29, T:0.29
Consensus pattern (47 bp):
GAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGAT
Found at i:36477670 original size:96 final size:96
Alignment explanation
Indices: 36477557--36478205 Score: 1090
Period size: 96 Copynumber: 6.8 Consensus size: 96
36477547 AGTATATGTG
*
36477557 GAATGTGAAAGTATATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
1 GAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
36477622 ATATGTGATAAGGCCTAATAGCCGATGTGAT
66 ATATGTGATAAGGCCTAATAGCCGATGTGAT
36477653 GAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
1 GAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
*
36477718 ATATGTGATAAGGCCTAATAGTCGATGTGAT
66 ATATGTGATAAGGCCTAATAGCCGATGTGAT
36477749 GAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
1 GAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
* * *
36477814 ATATGTGATAAGGCCGAATGGCCAATGTGAT
66 ATATGTGATAAGGCCTAATAGCCGATGTGAT
36477845 GAATGTGAAA--GTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
1 GAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
36477908 ATATGTGATAAGGCCTAATAGCCGATGTGAT
66 ATATGTGATAAGGCCTAATAGCCGATGTGAT
36477939 GAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
1 GAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
* * *
36478004 ATATGTGATAAGGCCGAATGGCCAATGTGAT
66 ATATGTGATAAGGCCTAATAGCCGATGTGAT
*
36478035 GAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAGGTGTAT
1 GAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
* *
36478100 ATATGTAATAAGGCCTAATAGTCGATGTGAT
66 ATATGTGATAAGGCCTAATAGCCGATGTGAT
* * * * * * * *
36478131 GAATGTGAAAGTG--TATATATGTGACAGGGCCGAGTGGCCAACGTGATGGACGTGAAAGTGTAT
1 GAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
*
36478194 AAATGTGATAAG
66 ATATGTGATAAG
36478206 TCCCGAAGGG
Statistics
Matches: 522, Mismatches: 29, Indels: 6
0.94 0.05 0.01
Matches are distributed among these distances:
94 142 0.27
96 380 0.73
ACGTcount: A:0.34, C:0.08, G:0.29, T:0.29
Consensus pattern (96 bp):
GAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
ATATGTGATAAGGCCTAATAGCCGATGTGAT
Found at i:36478071 original size:286 final size:286
Alignment explanation
Indices: 36477557--36478205 Score: 1100
Period size: 286 Copynumber: 2.3 Consensus size: 286
36477547 AGTATATGTG
36477557 GAATGTGAAAGTATATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
1 GAATGTGAAAG--TATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
36477622 ATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCT
64 ATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCT
* * *
36477687 AATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGTCGATGTGATGAA
129 AATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATAGCCAATGTGATGAA
36477752 TGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
194 TGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
* *
36477817 TGTGATAAGGCCGAATGGCCAATGTGAT
259 TGTAATAAGGCCGAATAGCCAATGTGAT
36477845 GAATGTGAAAGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
1 GAATGTGAAAGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
36477910 ATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAA
66 ATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAA
*
36477975 TGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATG
131 TGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATAGCCAATGTGATGAATG
*
36478040 TGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAGGTGTATATATG
196 TGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATG
* * *
36478105 TAATAAGGCCTAATAGTCGATGTGAT
261 TAATAAGGCCGAATAGCCAATGTGAT
* * * * * * * * * *
36478131 GAATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGGACGTGAAAGTGTATAA
1 GAATGTGAAAGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
36478196 ATGTGATAAG
66 ATGTGATAAG
36478206 TCCCGAAGGG
Statistics
Matches: 341, Mismatches: 20, Indels: 2
0.94 0.06 0.01
Matches are distributed among these distances:
286 330 0.97
288 11 0.03
ACGTcount: A:0.34, C:0.08, G:0.29, T:0.29
Consensus pattern (286 bp):
GAATGTGAAAGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
ATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAA
TGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATAGCCAATGTGATGAATG
TGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATG
TAATAAGGCCGAATAGCCAATGTGAT
Found at i:36479840 original size:18 final size:18
Alignment explanation
Indices: 36479798--36479840 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
36479788 GCCCATTCCG
* *
36479798 AAGTATATATATATACAT
1 AAGTATGTATATATACAC
36479816 ATA-TATGTATATATACAC
1 A-AGTATGTATATATACAC
36479834 AAGTATG
1 AAGTATG
36479841 CCCATTCGGG
Statistics
Matches: 21, Mismatches: 2, Indels: 4
0.78 0.07 0.15
Matches are distributed among these distances:
17 1 0.05
18 19 0.90
19 1 0.05
ACGTcount: A:0.47, C:0.07, G:0.09, T:0.37
Consensus pattern (18 bp):
AAGTATGTATATATACAC
Found at i:36480348 original size:27 final size:27
Alignment explanation
Indices: 36480317--36480494 Score: 187
Period size: 27 Copynumber: 6.6 Consensus size: 27
36480307 TAAATTGTAC
36480317 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
36480344 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * * *
36480370 ATGCACTAAGTGTGCTAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
* *
36480398 GGCACTAAGTGTGCAAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
36480426 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
36480453 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
36480480 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
36480495 GACTCAATAT
Statistics
Matches: 126, Mismatches: 22, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
27 104 0.83
28 22 0.17
ACGTcount: A:0.28, C:0.15, G:0.27, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:36480485 original size:82 final size:81
Alignment explanation
Indices: 36480314--36480493 Score: 209
Period size: 82 Copynumber: 2.2 Consensus size: 81
36480304 GATTAAATTG
* * *
36480314 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCAATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
*
36480379 GTGTGCTAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
36480395 TGCGGCACTAAGTGTGCAAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCAA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
36480459 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
36480477 TATAGCACTGAGTGTGC
1 TACAGCACTAAGTGTGC
36480494 GGACTCAATA
Statistics
Matches: 81, Mismatches: 16, Indels: 3
0.81 0.16 0.03
Matches are distributed among these distances:
81 17 0.21
82 64 0.79
ACGTcount: A:0.28, C:0.16, G:0.26, T:0.31
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCAATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:36487860 original size:18 final size:18
Alignment explanation
Indices: 36487818--36487860 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
36487808 GCCCATTCCG
* *
36487818 AAGTATATATATATACAT
1 AAGTATGTATATATACAC
36487836 ATA-TATGTATATATACAC
1 A-AGTATGTATATATACAC
36487854 AAGTATG
1 AAGTATG
36487861 CCCATTCGGG
Statistics
Matches: 21, Mismatches: 2, Indels: 4
0.78 0.07 0.15
Matches are distributed among these distances:
17 1 0.05
18 19 0.90
19 1 0.05
ACGTcount: A:0.47, C:0.07, G:0.09, T:0.37
Consensus pattern (18 bp):
AAGTATGTATATATACAC
Found at i:36488368 original size:27 final size:27
Alignment explanation
Indices: 36488337--36488514 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
36488327 TAAATTGTAC
36488337 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
36488364 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
36488390 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
36488418 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
36488446 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
36488473 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
36488500 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
36488515 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:36488451 original size:82 final size:81
Alignment explanation
Indices: 36488338--36488493 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
36488328 AAATTGTACA
* *
36488338 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
36488402 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
36488419 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
36488484 TGCGAGTTGA
65 TGCGAATTGA
36488494 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:36488505 original size:82 final size:81
Alignment explanation
Indices: 36488334--36488514 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
36488324 GATTAAATTG
* *
36488334 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
36488399 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
36488415 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
36488479 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
36488497 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
36488515 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:36504068 original size:17 final size:15
Alignment explanation
Indices: 36504041--36504080 Score: 53
Period size: 17 Copynumber: 2.5 Consensus size: 15
36504031 TGTATTTGCC
*
36504041 TTTTCTTTCTTTTCTT
1 TTTTTTTTCTTTT-TT
36504057 TTCTTTTTTCTTTTTT
1 TT-TTTTTTCTTTTTT
36504073 TTTTTTTT
1 TTTTTTTT
36504081 TGAGAAGGCT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
15 6 0.27
16 6 0.27
17 10 0.45
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (15 bp):
TTTTTTTTCTTTTTT
Found at i:36506160 original size:94 final size:94
Alignment explanation
Indices: 36505998--36506177 Score: 288
Period size: 94 Copynumber: 1.9 Consensus size: 94
36505988 TTTAATTAGA
* *
36505998 ACTTGAACTCGAACCTGAATAATCAGGTTTAAAATTGAACATGATTACTTTTACGGGATATGACG
1 ACTTGAACTCGAACCTGAATAATCACGTTTAAAATCGAACATGATTACTTTTACGGGATATGACG
*
36506063 TATTAGATCCTCCGGATACATGAAACTTG
66 TATTAGATCCTCCGAATACATGAAACTTG
* * * **
36506092 ACTTGAACTCGAACTTGAATAATCACGTTTAAAATCGAGCATGATTATTTTTACGGGATATGGTG
1 ACTTGAACTCGAACCTGAATAATCACGTTTAAAATCGAACATGATTACTTTTACGGGATATGACG
36506157 TATTAGATCCTCCGAATACAT
66 TATTAGATCCTCCGAATACAT
36506178 TATATATGTT
Statistics
Matches: 78, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
94 78 1.00
ACGTcount: A:0.33, C:0.17, G:0.18, T:0.32
Consensus pattern (94 bp):
ACTTGAACTCGAACCTGAATAATCACGTTTAAAATCGAACATGATTACTTTTACGGGATATGACG
TATTAGATCCTCCGAATACATGAAACTTG
Found at i:36514854 original size:7 final size:7
Alignment explanation
Indices: 36514839--36514884 Score: 65
Period size: 7 Copynumber: 6.6 Consensus size: 7
36514829 GAGTCTTGAT
36514839 TTTAGGG
1 TTTAGGG
*
36514846 TTTATGG
1 TTTAGGG
*
36514853 TTTAGAG
1 TTTAGGG
36514860 TTTAGGG
1 TTTAGGG
36514867 TTTAGGG
1 TTTAGGG
*
36514874 TTTGGGG
1 TTTAGGG
36514881 TTTA
1 TTTA
36514885 TTATTTTATA
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
7 33 1.00
ACGTcount: A:0.15, C:0.00, G:0.37, T:0.48
Consensus pattern (7 bp):
TTTAGGG
Found at i:36515079 original size:7 final size:6
Alignment explanation
Indices: 36515051--36515201 Score: 59
Period size: 7 Copynumber: 22.0 Consensus size: 6
36515041 AATATATATA
* *
36515051 TTTAGAG TTTAAGG TGTAGG TTTATGG TTTGGGG TTTAAGG TTTAGGG
1 TTTAG-G TTT-AGG TTTAGG TTTA-GG TTT-AGG TTT-AGG TTTA-GG
* * * *
36515099 TTTATGA TTTAGTG TTAACAG TTTAGTG TTTACGG TTTAGGG TGTAGG
1 TTTA-GG TTTAG-G TTTA-GG TTTAG-G TTTA-GG TTTA-GG TTTAGG
* *
36515147 TTTATGG TTTAGTG TTTATGA TTTAGGG TTTAGGG TTTAGTA TTTATGG
1 TTTA-GG TTTAG-G TTTA-GG TTTA-GG TTTA-GG TTTAG-G TTTA-GG
36515196 TTTAGG
1 TTTAGG
36515202 GGTTAAGGGC
Statistics
Matches: 111, Mismatches: 20, Indels: 27
0.70 0.13 0.17
Matches are distributed among these distances:
6 17 0.15
7 89 0.80
8 5 0.05
ACGTcount: A:0.19, C:0.01, G:0.32, T:0.48
Consensus pattern (6 bp):
TTTAGG
Found at i:36515088 original size:14 final size:14
Alignment explanation
Indices: 36515051--36515202 Score: 90
Period size: 14 Copynumber: 10.5 Consensus size: 14
36515041 AATATATATA
* *
36515051 TTTAGAGTTTAAGG
1 TTTAGGGTTTATGG
*
36515065 TGTA-GGTTTATGG
1 TTTAGGGTTTATGG
* *
36515078 TTTGGGGTTTAAGG
1 TTTAGGGTTTATGG
*
36515092 TTTAGGGTTTATGA
1 TTTAGGGTTTATGG
* * **
36515106 TTTAGTGTTAACAG
1 TTTAGGGTTTATGG
* *
36515120 TTTAGTGTTTACGG
1 TTTAGGGTTTATGG
36515134 TTTAGGGTGTAGGTTTATGG
1 TTTA----G--GGTTTATGG
* *
36515154 TTTAGTGTTTATGA
1 TTTAGGGTTTATGG
*
36515168 TTTAGGGTTTAGGG
1 TTTAGGGTTTATGG
**
36515182 TTTAGTATTTATGG
1 TTTAGGGTTTATGG
36515196 TTTAGGG
1 TTTAGGG
36515203 GTTAAGGGCT
Statistics
Matches: 103, Mismatches: 28, Indels: 14
0.71 0.19 0.10
Matches are distributed among these distances:
13 9 0.09
14 81 0.79
16 1 0.01
18 1 0.01
20 11 0.11
ACGTcount: A:0.19, C:0.01, G:0.32, T:0.47
Consensus pattern (14 bp):
TTTAGGGTTTATGG
Found at i:36515149 original size:62 final size:62
Alignment explanation
Indices: 36515083--36515202 Score: 168
Period size: 62 Copynumber: 1.9 Consensus size: 62
36515073 TATGGTTTGG
* *
36515083 GGTTTAAGGTTTAGGGTTTATGATTTAGTGTTAACAGTTTAGTGTTTACGGTTTAGGGTGTA
1 GGTTTAAGGTTTAGGGTTTATGATTTAGGGTTAACAGTTTAGTATTTACGGTTTAGGGTGTA
* * * ** *
36515145 GGTTTATGGTTTAGTGTTTATGATTTAGGGTTTAGGGTTTAGTATTTATGGTTTAGGG
1 GGTTTAAGGTTTAGGGTTTATGATTTAGGGTTAACAGTTTAGTATTTACGGTTTAGGG
36515203 GTTAAGGGCT
Statistics
Matches: 50, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
62 50 1.00
ACGTcount: A:0.19, C:0.02, G:0.32, T:0.47
Consensus pattern (62 bp):
GGTTTAAGGTTTAGGGTTTATGATTTAGGGTTAACAGTTTAGTATTTACGGTTTAGGGTGTA
Found at i:36515162 original size:34 final size:35
Alignment explanation
Indices: 36515119--36515185 Score: 100
Period size: 34 Copynumber: 1.9 Consensus size: 35
36515109 AGTGTTAACA
*
36515119 GTTTAGTGTTTACGGTTTAGGGTGTA-GGTTTATG
1 GTTTAGTGTTTACGATTTAGGGTGTAGGGTTTATG
* *
36515153 GTTTAGTGTTTATGATTTAGGGTTTAGGGTTTA
1 GTTTAGTGTTTACGATTTAGGGTGTAGGGTTTA
36515186 GTATTTATGG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 23 0.79
35 6 0.21
ACGTcount: A:0.16, C:0.01, G:0.33, T:0.49
Consensus pattern (35 bp):
GTTTAGTGTTTACGATTTAGGGTGTAGGGTTTATG
Found at i:36515172 original size:48 final size:49
Alignment explanation
Indices: 36515083--36515186 Score: 122
Period size: 48 Copynumber: 2.1 Consensus size: 49
36515073 TATGGTTTGG
* * *
36515083 GGTTTAAGGTTTAGGGTTTATGATTTAGTGTTAACAGTTTAGTGTTTAC
1 GGTTTAGGGTGTAGGGTTTATGATTTAGTGTTAACAGTTTAGGGTTTAC
* * * *
36515132 GGTTTAGGGTGTA-GGTTTATGGTTTAGTGTTTA-TGATTTAGGGTTTAG
1 GGTTTAGGGTGTAGGGTTTATGATTTAGTGTTAACAG-TTTAGGGTTTAC
36515180 GGTTTAG
1 GGTTTAG
36515187 TATTTATGGT
Statistics
Matches: 47, Mismatches: 7, Indels: 3
0.82 0.12 0.05
Matches are distributed among these distances:
47 1 0.02
48 35 0.74
49 11 0.23
ACGTcount: A:0.19, C:0.02, G:0.32, T:0.47
Consensus pattern (49 bp):
GGTTTAGGGTGTAGGGTTTATGATTTAGTGTTAACAGTTTAGGGTTTAC
Found at i:36515184 original size:28 final size:28
Alignment explanation
Indices: 36515145--36515235 Score: 94
Period size: 28 Copynumber: 3.2 Consensus size: 28
36515135 TTAGGGTGTA
*
36515145 GGTTTATGGTTTAGTGTTTATGATTTAG
1 GGTTTAGGGTTTAGTGTTTATGATTTAG
* *
36515173 GGTTTAGGGTTTAGTATTTATGGTTTAGG
1 GGTTTAGGGTTTAGTGTTTATGATTTA-G
* * * *
36515202 GGTTAAGGGCTCA-TGGTTTAGGATTTAG
1 GGTTTAGGGTTTAGT-GTTTATGATTTAG
36515230 GGTTTA
1 GGTTTA
36515236 AGGTGTAACA
Statistics
Matches: 51, Mismatches: 10, Indels: 4
0.78 0.15 0.06
Matches are distributed among these distances:
28 31 0.61
29 20 0.39
ACGTcount: A:0.19, C:0.02, G:0.33, T:0.46
Consensus pattern (28 bp):
GGTTTAGGGTTTAGTGTTTATGATTTAG
Found at i:36516294 original size:18 final size:18
Alignment explanation
Indices: 36516271--36516315 Score: 65
Period size: 18 Copynumber: 2.5 Consensus size: 18
36516261 ATAGTGTGAA
36516271 ACGATCTCC-GACATCCTT
1 ACGATC-CCTGACATCCTT
36516289 ACGATCCCTGACATCCTT
1 ACGATCCCTGACATCCTT
*
36516307 AAGATCCCT
1 ACGATCCCT
36516316 AAATTTGCTT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
17 2 0.08
18 23 0.92
ACGTcount: A:0.24, C:0.38, G:0.11, T:0.27
Consensus pattern (18 bp):
ACGATCCCTGACATCCTT
Found at i:36520960 original size:161 final size:161
Alignment explanation
Indices: 36520690--36520995 Score: 549
Period size: 161 Copynumber: 1.9 Consensus size: 161
36520680 TTATAGAAAG
* * * *
36520690 TTTGCGGCTTTTGAGAAGTAATATGGAGAAAAGGAAGGGATTGAGGATGCCATTTTGGGGAAGAG
1 TTTGCGGCTTTTGAGAAGCAATATGGAGAAAAGGAAGGGATTGAGGATGCCATTGTAGGGAAGAA
36520755 GAGGTTTCAGTATGAGGATGAAGTCAGGAAGAATCCATTGAATTATGATGCTTGGTTTGATTATA
66 GAGGTTTCAGTATGAGGATGAAGTCAGGAAGAATCCATTGAATTATGATGCTTGGTTTGATTATA
36520820 TAAGGTTGGAAGAGAATTGTTATAGAAACTT
131 TAAGGTTGGAAGAGAATTGTTATAGAAACTT
* *
36520851 TTTGTGGCTTTTGAGAAGCAATATGGAGATAAGGAAGGGATTGAGGATGCCATTGTAGGGAAGAA
1 TTTGCGGCTTTTGAGAAGCAATATGGAGAAAAGGAAGGGATTGAGGATGCCATTGTAGGGAAGAA
*
36520916 GAGGTTTTAGTATGAGGATGAAGTCAGGAAGAATCCATTGAATTATGATGCTTGGTTTGATTATA
66 GAGGTTTCAGTATGAGGATGAAGTCAGGAAGAATCCATTGAATTATGATGCTTGGTTTGATTATA
36520981 TAAGGTTGGAAGAGA
131 TAAGGTTGGAAGAGA
36520996 GTGTAGGCAA
Statistics
Matches: 138, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
161 138 1.00
ACGTcount: A:0.32, C:0.06, G:0.32, T:0.30
Consensus pattern (161 bp):
TTTGCGGCTTTTGAGAAGCAATATGGAGAAAAGGAAGGGATTGAGGATGCCATTGTAGGGAAGAA
GAGGTTTCAGTATGAGGATGAAGTCAGGAAGAATCCATTGAATTATGATGCTTGGTTTGATTATA
TAAGGTTGGAAGAGAATTGTTATAGAAACTT
Found at i:36522706 original size:43 final size:43
Alignment explanation
Indices: 36522658--36522739 Score: 103
Period size: 43 Copynumber: 1.9 Consensus size: 43
36522648 TATAGCGGCG
*
36522658 TTTGT-GATAAAAGCGCCAGTAAAGATCACGTTCTTTAGCAGCA
1 TTTGTGGAT-AAAGCGCCACTAAAGATCACGTTCTTTAGCAGCA
* * * *
36522701 TTTGTGGGTAAAGCGCCCCTAAAGGTCATGTTCTTTAGC
1 TTTGTGGATAAAGCGCCACTAAAGATCACGTTCTTTAGC
36522740 GGCGTTTTTT
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
43 31 0.94
44 2 0.06
ACGTcount: A:0.27, C:0.20, G:0.23, T:0.30
Consensus pattern (43 bp):
TTTGTGGATAAAGCGCCACTAAAGATCACGTTCTTTAGCAGCA
Found at i:36528448 original size:10 final size:10
Alignment explanation
Indices: 36528433--36528459 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
36528423 GAGATGAAAT
36528433 TTGAATCAAA
1 TTGAATCAAA
36528443 TTGAATCAAA
1 TTGAATCAAA
36528453 TTGAATC
1 TTGAATC
36528460 GAATATATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.44, C:0.11, G:0.11, T:0.33
Consensus pattern (10 bp):
TTGAATCAAA
Found at i:36528980 original size:19 final size:21
Alignment explanation
Indices: 36528947--36528986 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
36528937 TTGAGGGTAA
*
36528947 AGGGTGAGAAGT-AAAAGTTT
1 AGGGTGAGAAATAAAAAGTTT
36528967 AGGG-GAGAAATAAAAAGTTT
1 AGGGTGAGAAATAAAAAGTTT
36528987 TGGAGGTTGA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 6 0.33
20 12 0.67
ACGTcount: A:0.45, C:0.00, G:0.33, T:0.23
Consensus pattern (21 bp):
AGGGTGAGAAATAAAAAGTTT
Found at i:36529112 original size:30 final size:31
Alignment explanation
Indices: 36529059--36529126 Score: 93
Period size: 30 Copynumber: 2.2 Consensus size: 31
36529049 GGTTTGGGTT
*
36529059 AAAGTTGGGAGGAGAGCAAAAGTTATGGGGGG
1 AAAG-TGGGAGGAGAGCAAAAGTTATGGGAGG
* *
36529091 AAAGTGGGAGG-GAGTAAAAGTTTTGGGAGG
1 AAAGTGGGAGGAGAGCAAAAGTTATGGGAGG
36529121 AAAGTG
1 AAAGTG
36529127 AAGAGGTTTA
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
30 22 0.67
31 7 0.21
32 4 0.12
ACGTcount: A:0.35, C:0.01, G:0.46, T:0.18
Consensus pattern (31 bp):
AAAGTGGGAGGAGAGCAAAAGTTATGGGAGG
Found at i:36531293 original size:26 final size:25
Alignment explanation
Indices: 36531250--36531312 Score: 67
Period size: 26 Copynumber: 2.5 Consensus size: 25
36531240 GTATAACAAC
36531250 AAACACC-TTCAT-ACTTAGACATTT
1 AAACACCATTCATCA-TTAGACATTT
* *
36531274 TAACAACCATTCATCATTAGATATTT
1 AAAC-ACCATTCATCATTAGACATTT
*
36531300 AAACATCATTCAT
1 AAACACCATTCAT
36531313 TAGCAAAATC
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
24 3 0.09
25 11 0.34
26 17 0.53
27 1 0.03
ACGTcount: A:0.40, C:0.22, G:0.03, T:0.35
Consensus pattern (25 bp):
AAACACCATTCATCATTAGACATTT
Found at i:36532002 original size:56 final size:51
Alignment explanation
Indices: 36531829--36532020 Score: 217
Period size: 53 Copynumber: 3.6 Consensus size: 51
36531819 AAGCCAAAGT
* **
36531829 CATGTCCCAGACATGGTCTTACGGGGGACCTCTC-ATCTCGGTGCCAACGC
1 CATGTCCCAAACATGGTCTTACATGGGACCTCTCGATCTCGGTGCCAACGC
*
36531879 AATGTCCCAAACATGGTCTTATGACATGGGACCTCTCG-TCTCGGTGCCAACGC
1 CATGTCCCAAACATGGTC-T-T-ACATGGGACCTCTCGATCTCGGTGCCAACGC
* * *
36531932 CATGTCTCAAACATGGTCTTATATGGGACCTCTCATGATCTCAAGGATGCCAATGC
1 CATGTCCCAAACATGGTCTTACATGGGACCTCTC--GATCTC--GG-TGCCAACGC
* *
36531988 CATGTCCCAGACATGGTCTTACATGGGATCTCT
1 CATGTCCCAAACATGGTCTTACATGGGACCTCT
36532021 TTACCAAAAT
Statistics
Matches: 120, Mismatches: 12, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
50 29 0.24
51 2 0.02
52 3 0.03
53 47 0.39
55 2 0.02
56 37 0.31
ACGTcount: A:0.22, C:0.29, G:0.22, T:0.26
Consensus pattern (51 bp):
CATGTCCCAAACATGGTCTTACATGGGACCTCTCGATCTCGGTGCCAACGC
Found at i:36535721 original size:17 final size:17
Alignment explanation
Indices: 36535699--36535731 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
36535689 TCTTTTACCA
36535699 GTAACTAGTAATAACCT
1 GTAACTAGTAATAACCT
*
36535716 GTAACTGGTAATAACC
1 GTAACTAGTAATAACC
36535732 CGATTGGAGA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.39, C:0.18, G:0.15, T:0.27
Consensus pattern (17 bp):
GTAACTAGTAATAACCT
Found at i:36539486 original size:50 final size:50
Alignment explanation
Indices: 36539409--36539654 Score: 233
Period size: 50 Copynumber: 4.8 Consensus size: 50
36539399 TCGTGTACTT
* ** * **
36539409 CCAATGCCATATCAAAGATATGGTCTTACATGGGAGTTCTCATATCGGTG
1 CCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGGTG
* ** * * *
36539459 CCCATGCCATGTCCCAGACATGGTCTTACGGGGGACCTTTCATCTTGGTG
1 CCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGGTG
* ** * *
36539509 CCAACT-CCATGTCCCAGATATGGTCTTACATGGGACCTCTTGTCTTGGTG
1 CCAA-TGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGGTG
*
36539559 CCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATGATCTCAAGGATG
1 CCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCAT-A--TC--GG-TG
* * *
36539615 TCAATACCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 CCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
36539655 TTACCCAAAT
Statistics
Matches: 159, Mismatches: 29, Indels: 10
0.80 0.15 0.05
Matches are distributed among these distances:
50 117 0.74
51 1 0.01
53 1 0.01
55 2 0.01
56 38 0.24
ACGTcount: A:0.22, C:0.27, G:0.22, T:0.28
Consensus pattern (50 bp):
CCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGGTG
Found at i:36539559 original size:100 final size:104
Alignment explanation
Indices: 36539424--36539655 Score: 267
Period size: 100 Copynumber: 2.2 Consensus size: 104
36539414 GCCATATCAA
** * * * *
36539424 AGATATGGTCTTACATGGGAGTTCTCATATCGGTGCCCATGCCATGTCCCAGACATGGTCTTACG
1 AGATATGGTCTTACATGGGACCTCTTATATCGGTGCCAACGCCATGTCCCAGACATGGTCTTACA
*
36539489 GGGGACCT-T-TCATCT-TGG-TGCCAACT-CCATGTCCC
66 GGGGACCTCTATCATCTAAGGATGCCAA-TACCATGTCCC
* * *
36539524 AGATATGGTCTTACATGGGACCTCTTGTCTTGGTGCCAACGCCATGTCCCAGACATGGTCTTACA
1 AGATATGGTCTTACATGGGACCTCTTATATCGGTGCCAACGCCATGTCCCAGACATGGTCTTACA
* * *
36539589 TGGGACCTCTCATGATCTCAAGGATGTCAATACCATGTCCC
66 GGGGACCTCT-ATCATCT-AAGGATGCCAATACCATGTCCC
* *
36539630 AGACATGGTCTTACATGGGATCTCTT
1 AGATATGGTCTTACATGGGACCTCTT
36539656 TACCCAAATG
Statistics
Matches: 110, Mismatches: 15, Indels: 8
0.83 0.11 0.06
Matches are distributed among these distances:
100 63 0.57
101 1 0.01
103 5 0.05
105 3 0.03
106 38 0.35
ACGTcount: A:0.21, C:0.27, G:0.23, T:0.29
Consensus pattern (104 bp):
AGATATGGTCTTACATGGGACCTCTTATATCGGTGCCAACGCCATGTCCCAGACATGGTCTTACA
GGGGACCTCTATCATCTAAGGATGCCAATACCATGTCCC
Found at i:36544811 original size:29 final size:29
Alignment explanation
Indices: 36544748--36544815 Score: 93
Period size: 29 Copynumber: 2.3 Consensus size: 29
36544738 TAATCAACCG
36544748 CGCACACTTAGTGCCATGCACTTTAAACT
1 CGCACACTTAGTGCCATGCACTTTAAACT
* **
36544777 CACACACTTAGTGCCATGCA-TTTCAAGTT
1 CGCACACTTAGTGCCATGCACTTT-AAACT
36544806 CGCACACTTA
1 CGCACACTTA
36544816 CCTTTTCCGC
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
28 3 0.09
29 31 0.91
ACGTcount: A:0.28, C:0.31, G:0.13, T:0.28
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCACTTTAAACT
Found at i:36544928 original size:174 final size:174
Alignment explanation
Indices: 36544637--36544964 Score: 575
Period size: 174 Copynumber: 1.9 Consensus size: 174
36544627 TACTCAAGGT
* **
36544637 ACTTACCTTTTCCACTGTCCAAAATTGACTCGGTAAAGTCGCACCCTTCGTATAAATAATTTATA
1 ACTTACCTTTTCCACTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATATAAATAATTTATA
*
36544702 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGC
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGC
36544767 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
131 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
* * *
36544811 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAGGTCGCACCCTTAATGTAAATAATTTATA
1 ACTTACCTTTTCCACTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATATAAATAATTTATA
*
36544876 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGT
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGC
*
36544941 ACTTTAAACTCGCACACTTAGTGC
131 ACTTTAAACTCACACACTTAGTGC
36544965 TGTACAATTT
Statistics
Matches: 145, Mismatches: 9, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
174 145 1.00
ACGTcount: A:0.31, C:0.25, G:0.14, T:0.30
Consensus pattern (174 bp):
ACTTACCTTTTCCACTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATATAAATAATTTATA
GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGC
ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
Found at i:36544956 original size:29 final size:30
Alignment explanation
Indices: 36544917--36544995 Score: 110
Period size: 29 Copynumber: 2.7 Consensus size: 30
36544907 CTTAATAATC
36544917 AACCACGCACACTTAGTGCCATGTAC-TTTA
1 AACC-CGCACACTTAGTGCCATGTACATTTA
*
36544947 AACTCGCACACTTAGTG-C-TGTACAATTTA
1 AACCCGCACACTTAGTGCCATGTAC-ATTTA
36544976 AACCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
36544996 ATCTCATGAC
Statistics
Matches: 43, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
27 5 0.12
28 1 0.02
29 33 0.77
30 4 0.09
ACGTcount: A:0.30, C:0.30, G:0.14, T:0.25
Consensus pattern (30 bp):
AACCCGCACACTTAGTGCCATGTACATTTA
Found at i:36552960 original size:29 final size:29
Alignment explanation
Indices: 36552897--36552964 Score: 93
Period size: 29 Copynumber: 2.3 Consensus size: 29
36552887 TAATCAACCG
36552897 CGCACACTTAGTGCCATGCACTTTAAACT
1 CGCACACTTAGTGCCATGCACTTTAAACT
* **
36552926 CACACACTTAGTGCCATGCA-TTTCAAGTT
1 CGCACACTTAGTGCCATGCACTTT-AAACT
36552955 CGCACACTTA
1 CGCACACTTA
36552965 CCTTTTTCCG
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
28 3 0.09
29 31 0.91
ACGTcount: A:0.28, C:0.31, G:0.13, T:0.28
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCACTTTAAACT
Found at i:36553084 original size:175 final size:174
Alignment explanation
Indices: 36552786--36553114 Score: 577
Period size: 175 Copynumber: 1.9 Consensus size: 174
36552776 TACTCAAGGT
* * *
36552786 ACTTACCTTTTCCGCTGTCCAAAATTGACTCGGTAAAGTCGTACCCTTCATATAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATATAAATAATTTATA
*
36552851 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGC
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGC
36552916 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
131 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
* *
36552960 ACTTACCTTTTTCCGCTGTCCAAAATCGACTCGGTAAGGTCGCACCCTTAATGTAAATAATTTAT
1 ACTTACC-TTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATATAAATAATTTAT
36553025 AGAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATG
65 AGAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATG
* *
36553090 TACTTTAAACTCGCACACTTAGTGC
130 CACTTTAAACTCACACACTTAGTGC
36553115 TGTACAATTT
Statistics
Matches: 146, Mismatches: 8, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
174 7 0.05
175 139 0.95
ACGTcount: A:0.31, C:0.24, G:0.14, T:0.30
Consensus pattern (174 bp):
ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATATAAATAATTTATA
GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGC
ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
Found at i:36553106 original size:29 final size:30
Alignment explanation
Indices: 36553067--36553145 Score: 110
Period size: 29 Copynumber: 2.7 Consensus size: 30
36553057 CTTAATAATC
36553067 AACCACGCACACTTAGTGCCATGTAC-TTTA
1 AACC-CGCACACTTAGTGCCATGTACATTTA
*
36553097 AACTCGCACACTTAGTG-C-TGTACAATTTA
1 AACCCGCACACTTAGTGCCATGTAC-ATTTA
36553126 AACCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
36553146 ATCTCATGAC
Statistics
Matches: 43, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
27 5 0.12
28 1 0.02
29 33 0.77
30 4 0.09
ACGTcount: A:0.30, C:0.30, G:0.14, T:0.25
Consensus pattern (30 bp):
AACCCGCACACTTAGTGCCATGTACATTTA
Found at i:36564431 original size:35 final size:32
Alignment explanation
Indices: 36564243--36564489 Score: 129
Period size: 33 Copynumber: 7.4 Consensus size: 32
36564233 CAACTATTCA
* * *
36564243 GATGTAAGACCATAGTTGGACCATGGCAGTGTAT
1 GATGTAAGACCATAGCTGGGCTATGGCA-T-TAT
* *
36564277 AAATGTAAGACCATAGCTAGGCTATGGCA-TACT
1 -GATGTAAGACCATAGCTGGGCTATGGCATTA-T
* *
36564310 GATGATAAAACCATAGCTGGGCTATGGCATTCT
1 GATG-TAAGACCATAGCTGGGCTATGGCATTAT
* * * * *
36564343 GATGATAAGACCGTAACT-AGTTATGGCACTAT
1 GATG-TAAGACCATAGCTGGGCTATGGCATTAT
* * * *
36564375 GGACGTAAGACCATGGTTGGGCCATGGCAGTGTAT
1 -GATGTAAGACCATAGCTGGGCTATGGCA-T-TAT
* * * * *
36564410 ACATGTAAGACCATAGCTGGGCTAAGACGTTCT
1 -GATGTAAGACCATAGCTGGGCTATGGCATTAT
** * *
36564443 GATGATAAGACCATAAATGGGTTATGACATTATT
1 GATG-TAAGACCATAGCTGGGCTATGGCATTA-T
* *
36564477 AACGTAAGACCAT
1 GATGTAAGACCAT
36564490 GGCAGAGCCA
Statistics
Matches: 159, Mismatches: 44, Indels: 20
0.71 0.20 0.09
Matches are distributed among these distances:
32 27 0.17
33 81 0.51
34 5 0.03
35 46 0.29
ACGTcount: A:0.32, C:0.17, G:0.25, T:0.26
Consensus pattern (32 bp):
GATGTAAGACCATAGCTGGGCTATGGCATTAT
Found at i:36564485 original size:133 final size:133
Alignment explanation
Indices: 36564246--36564487 Score: 324
Period size: 133 Copynumber: 1.8 Consensus size: 133
36564236 CTATTCAGAT
* *
36564246 GTAAGACCATAGTTGGACCATGGCAGTGTATAAATGTAAGACCATAGCTAGGCTATGGCATACTG
1 GTAAGACCATAGTTGGACCATGGCAGTGTATAAATGTAAGACCATAGCTAGGCTAAGACATACTG
** * * *
36564311 ATGATAAAACCATAGCTGGGCTATGGCATTCTGATGATAAGACCGTAACTAGTTATGGCACTATG
66 ATGATAAAACCATAAATGGGCTATGACATTCTAACGATAAGACCGTAACTAGTTATGGCACTATG
36564376 GAC
131 GAC
* * * * * *
36564379 GTAAGACCATGGTTGGGCCATGGCAGTGTATACATGTAAGACCATAGCTGGGCTAAGACGTTCTG
1 GTAAGACCATAGTTGGACCATGGCAGTGTATAAATGTAAGACCATAGCTAGGCTAAGACATACTG
* * *
36564444 ATGATAAGACCATAAATGGGTTATGACATTATTAACG-TAAGACC
66 ATGATAAAACCATAAATGGGCTATGACATT-CTAACGATAAGACC
36564488 ATGGCAGAGC
Statistics
Matches: 92, Mismatches: 16, Indels: 2
0.84 0.15 0.02
Matches are distributed among these distances:
133 89 0.97
134 3 0.03
ACGTcount: A:0.32, C:0.17, G:0.25, T:0.26
Consensus pattern (133 bp):
GTAAGACCATAGTTGGACCATGGCAGTGTATAAATGTAAGACCATAGCTAGGCTAAGACATACTG
ATGATAAAACCATAAATGGGCTATGACATTCTAACGATAAGACCGTAACTAGTTATGGCACTATG
GAC
Found at i:36570071 original size:21 final size:20
Alignment explanation
Indices: 36570030--36570074 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
36570020 GGCTATGGGA
*
36570030 ACGGGCATGTGGAGGGTCAC
1 ACGGGCATGTGGAGAGTCAC
*
36570050 ACGGGCATGTGGAATAGTCAC
1 ACGGGCATGTGG-AGAGTCAC
36570071 ACGG
1 ACGG
36570075 CAGTGTGCCC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 12 0.55
21 10 0.45
ACGTcount: A:0.24, C:0.20, G:0.40, T:0.16
Consensus pattern (20 bp):
ACGGGCATGTGGAGAGTCAC
Found at i:36575704 original size:98 final size:98
Alignment explanation
Indices: 36575532--36575726 Score: 345
Period size: 98 Copynumber: 2.0 Consensus size: 98
36575522 ACAACAAAAT
*
36575532 TTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACGATTCC
1 TTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATTCC
*
36575597 TCTAGAATCCCAAACTCAGAATATTTCCTTTAC
66 TCTAAAATCCCAAACTCAGAATATTTCCTTTAC
36575630 TTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATTCC
1 TTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATTCC
* * *
36575695 TTTAAAATCCCAAACTCGGAATATTTCTTTTA
66 TCTAAAATCCCAAACTCAGAATATTTCCTTTA
36575727 TTGTTTTTAG
Statistics
Matches: 92, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
98 92 1.00
ACGTcount: A:0.37, C:0.24, G:0.10, T:0.29
Consensus pattern (98 bp):
TTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATTCC
TCTAAAATCCCAAACTCAGAATATTTCCTTTAC
Found at i:36577207 original size:19 final size:19
Alignment explanation
Indices: 36577180--36577273 Score: 116
Period size: 19 Copynumber: 4.8 Consensus size: 19
36577170 AATCATATAT
36577180 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
* ** *
36577199 TCCAAGATTATATATCATC
1 TCTAAGATTGCATATCATA
36577218 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
36577237 TCTAAGATTGCATATATCATA
1 TCTAAGATTGC--ATATCATA
**
36577258 TCTTGGATTGCATATC
1 TCTAAGATTGCATATC
36577274 CTCAAAAATT
Statistics
Matches: 63, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
19 46 0.73
21 17 0.27
ACGTcount: A:0.34, C:0.17, G:0.11, T:0.38
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:36577224 original size:38 final size:39
Alignment explanation
Indices: 36577180--36577273 Score: 136
Period size: 38 Copynumber: 2.4 Consensus size: 39
36577170 AATCATATAT
*
36577180 TCTAAGATTGCATATCATATCCAAGATT-ATATATCATC
1 TCTAAGATTGCATATCATATCCAAGATTCATATATCATA
*
36577218 TCTAAGATTGCATATCATATCTAAGATTGCATATATCATA
1 TCTAAGATTGCATATCATATCCAAGATT-CATATATCATA
**
36577258 TCTTGGATTGCATATC
1 TCTAAGATTGCATATC
36577274 CTCAAAAATT
Statistics
Matches: 50, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
38 27 0.54
40 23 0.46
ACGTcount: A:0.34, C:0.17, G:0.11, T:0.38
Consensus pattern (39 bp):
TCTAAGATTGCATATCATATCCAAGATTCATATATCATA
Found at i:36577239 original size:21 final size:21
Alignment explanation
Indices: 36577154--36577273 Score: 96
Period size: 19 Copynumber: 5.9 Consensus size: 21
36577144 TACAAATTAA
* *
36577154 ATCTCTAAGATTACAAAATCAT
1 ATCTCTAAGATTGC-ATATCAT
*
36577176 ATATTCTAAGATTGCATATCAT
1 AT-CTCTAAGATTGCATATCAT
36577198 ATC-C-AAGATT--ATAT-AT
1 ATCTCTAAGATTGCATATCAT
36577214 CATCTCTAAGATTGCATATCAT
1 -ATCTCTAAGATTGCATATCAT
36577236 A--TCTAAGATTGCATATATCAT
1 ATCTCTAAGATTGC--ATATCAT
*
36577257 ATCT-T-GGATTGCATATC
1 ATCTCTAAGATTGCATATC
36577274 CTCAAAAATT
Statistics
Matches: 82, Mismatches: 5, Indels: 25
0.73 0.04 0.22
Matches are distributed among these distances:
16 2 0.02
17 7 0.09
18 1 0.01
19 28 0.34
20 1 0.01
21 19 0.23
22 13 0.16
23 11 0.13
ACGTcount: A:0.37, C:0.17, G:0.09, T:0.38
Consensus pattern (21 bp):
ATCTCTAAGATTGCATATCAT
Found at i:36577820 original size:217 final size:217
Alignment explanation
Indices: 36577476--36578573 Score: 1982
Period size: 217 Copynumber: 5.1 Consensus size: 217
36577466 AGGAATCAGT
* * * * * *
36577476 GCTTCAATCTACTCCACTGCAACTTCAGGGAGATAGGACTTGCCATCTTCAGTCTGCCTCACTGC
1 GCTTTAATCTGCTCCACTGCAACTTCAGGAAGATAAGATTTGCCATCTTCAGTCTGCCTCACTGT
* * * *
36577541 AGCTTCAGGAGGATAAGACTTGCTTCCTTAGTC-TGCTCCACTGCAACTTCAGGGAGATAAGACT
66 AACTTCAGGAGGATAAGACTTGCTTACTTAGTCTTG-TCCACCGCAACTTCAGGGAGATCAGACT
* * *
36577605 AGATGCGATCTGCTCTTTGTAACTTCAGAGAGATAAGATCTGTGATTTTAATCCGCTCTACTGCA
130 AGATGCGATCTGCTCTCTGTAACTTCAGAGAGATAAGATCTGTAATTTTAATCCGCTCCACTGCA
36577670 ACTTCAGGGAGATAGGATTGTCG
195 ACTTCAGGGAGATAGGATTGTCG
* *
36577693 GCTTTAATCTGCTCCACTGCAACTTTAGGGAGATAAGATTTGCCATCTTCAGTCTGCCTCACTGT
1 GCTTTAATCTGCTCCACTGCAACTTCAGGAAGATAAGATTTGCCATCTTCAGTCTGCCTCACTGT
*
36577758 AACTTCAGGAGGATAAGACTTGCTTACTTAGTCTTGTCCACCGCAACTTCAGGGAGATAAGACTA
66 AACTTCAGGAGGATAAGACTTGCTTACTTAGTCTTGTCCACCGCAACTTCAGGGAGATCAGACTA
* *
36577823 GATGAGATCTGCTCTCTGTAACTTCAAAGAGATAAGATCTGTAATTTTAATCCGCTCCACTGCAA
131 GATGCGATCTGCTCTCTGTAACTTCAGAGAGATAAGATCTGTAATTTTAATCCGCTCCACTGCAA
36577888 CTTCAGGGAGATAGGATTGTCG
196 CTTCAGGGAGATAGGATTGTCG
36577910 GCTTTAATCTGCTCCACTGCAACTTCAGGAAGATAAGATTTGCCATCTTCAGTCTGCCTCACTGT
1 GCTTTAATCTGCTCCACTGCAACTTCAGGAAGATAAGATTTGCCATCTTCAGTCTGCCTCACTGT
36577975 AACTTCAGGAGGATAAGACTTGCTTACTTAGTCTTGTCCACCGCAACTTCAGGGAGATCAGACTA
66 AACTTCAGGAGGATAAGACTTGCTTACTTAGTCTTGTCCACCGCAACTTCAGGGAGATCAGACTA
36578040 GATGCGATCTGCTCTCTGTAACTTCAGAGAGATAAGATCTGTAATTTTAATCCGCTCCACTGCAA
131 GATGCGATCTGCTCTCTGTAACTTCAGAGAGATAAGATCTGTAATTTTAATCCGCTCCACTGCAA
36578105 CTTCAGGGAGATAGGATTGTCG
196 CTTCAGGGAGATAGGATTGTCG
*
36578127 GCTTTAATCTACTCCACTGCAACTTCAGGAAGATAAGATTTGCCATCTTCAGTCTGCCTCACTGT
1 GCTTTAATCTGCTCCACTGCAACTTCAGGAAGATAAGATTTGCCATCTTCAGTCTGCCTCACTGT
36578192 AACTTCAGGAGGATAAGACTTGCTTACTTAGTCTTGTCCACCGCAACTTCAGGGAGATCAGACTA
66 AACTTCAGGAGGATAAGACTTGCTTACTTAGTCTTGTCCACCGCAACTTCAGGGAGATCAGACTA
*
36578257 GATGCGATCTGCTCTCTGTAATTTCAGAGAGATAAGATCTGTAATTTTAATCCGCTCCACTGCAA
131 GATGCGATCTGCTCTCTGTAACTTCAGAGAGATAAGATCTGTAATTTTAATCCGCTCCACTGCAA
36578322 CTTCAGGGAGATAGGATTGTCG
196 CTTCAGGGAGATAGGATTGTCG
36578344 GCTTTAATCTGCTCCACTGCAACTTCAGGAAGATAAGATTTGCCATCTTCAGTCTGCCTCACTGT
1 GCTTTAATCTGCTCCACTGCAACTTCAGGAAGATAAGATTTGCCATCTTCAGTCTGCCTCACTGT
36578409 AACTTCAGGAGGATAAGACTTGCTTACTTAGTCTTGTCCACCGCAACTTCAGGGAGATCAGACTA
66 AACTTCAGGAGGATAAGACTTGCTTACTTAGTCTTGTCCACCGCAACTTCAGGGAGATCAGACTA
*
36578474 GATGCGATCTGCTCTCTGTAACTTCAGAGAGATAAGATCTGTAATTTTAATCCGTTCCACTGCAA
131 GATGCGATCTGCTCTCTGTAACTTCAGAGAGATAAGATCTGTAATTTTAATCCGCTCCACTGCAA
36578539 CTTCAGGGAGATAGGATTGTCG
196 CTTCAGGGAGATAGGATTGTCG
*
36578561 ACTTTAATCTGCT
1 GCTTTAATCTGCT
36578574 TCCCACTATC
Statistics
Matches: 855, Mismatches: 25, Indels: 2
0.97 0.03 0.00
Matches are distributed among these distances:
217 853 1.00
218 2 0.00
ACGTcount: A:0.26, C:0.23, G:0.21, T:0.30
Consensus pattern (217 bp):
GCTTTAATCTGCTCCACTGCAACTTCAGGAAGATAAGATTTGCCATCTTCAGTCTGCCTCACTGT
AACTTCAGGAGGATAAGACTTGCTTACTTAGTCTTGTCCACCGCAACTTCAGGGAGATCAGACTA
GATGCGATCTGCTCTCTGTAACTTCAGAGAGATAAGATCTGTAATTTTAATCCGCTCCACTGCAA
CTTCAGGGAGATAGGATTGTCG
Found at i:36578653 original size:44 final size:44
Alignment explanation
Indices: 36578605--36579044 Score: 141
Period size: 44 Copynumber: 10.1 Consensus size: 44
36578595 TGATTTGTCG
36578605 TCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAA
1 TCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAA
* * * * * * * ***
36578649 TCTTCAACCTACTCCACTACTGCTCAGGGAAACAAG-GCT-TGG
1 TCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAA
** * * *
36578691 TGGCTTAAATCTGCTTCCCACTA-T-CTT-GGAAAGATAAGATTTGTC-A
1 T--CTTCGATCTGC-T-CCACTACTGCTTAGG-GAGATAAGATCT-ACAA
* *
36578737 TCTTCGATTTGCTCCACTACTGTTTAGGGAGATAAGATCTACAA
1 TCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAA
* * * * * * * * ***
36578781 TTTTC-AACATTCTTCGCTGCTGCTTAGGGAGACAAG-GCT-TGG
1 TCTTCGATC-TGCTCCACTACTGCTTAGGGAGATAAGATCTACAA
** ** * * *
36578823 TGGCTTAAATCTGCTTCCCACTA-T-CTTAGAAATATAAGAT-TCGCCA
1 T--CTTCGATCTGC-T-CCACTACTGCTTAGGGAGATAAGATCT-ACAA
36578869 TCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAA
1 TCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAA
* * * * ** * * *
36578913 TTTTCAACCTTCTCTGCTACTGCTCAGGGAGACAAGGTGGCTTA-AA
1 TCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGAT--C-TACAA
* * **
36578959 TC-T-G--CTTC-CCACTA-T-CTT-GGAAAGATAAGAT-TCACTG
1 TCTTCGATCTGCTCCACTACTGCTTAGG-GAGATAAGATCT-ACAA
36578996 TCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAA
1 TCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAA
36579040 TCTTC
1 TCTTC
36579045 AGCCTTCTCC
Statistics
Matches: 271, Mismatches: 86, Indels: 78
0.62 0.20 0.18
Matches are distributed among these distances:
35 1 0.00
36 1 0.00
37 2 0.01
38 3 0.01
39 10 0.04
40 1 0.00
41 7 0.03
42 24 0.09
43 13 0.05
44 178 0.66
45 14 0.05
46 15 0.06
47 2 0.01
ACGTcount: A:0.26, C:0.24, G:0.18, T:0.31
Consensus pattern (44 bp):
TCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAA
Found at i:36578720 original size:132 final size:132
Alignment explanation
Indices: 36578566--36579177 Score: 937
Period size: 132 Copynumber: 4.7 Consensus size: 132
36578556 TGTCGACTTT
* *
36578566 AATCTGCTTCCCACTATCTTGGAAAGATATGATTTGTCGTCTTCGATCTGCTCCACTACTGCTTA
1 AATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGCCGTCTTCGATCTGCTCCACTACTGCTTA
* * * *
36578631 GGGAGATAAGATCTACAATCTTCAACCTACTCCACTACTGCTCAGGGAAACAAGGCTTGGTGGCT
66 GGGAGATAAGATCTACAATTTTCAACCTTCTCCGCTACTGCTCAGGGAGACAAGGCTTGGTGGCT
36578696 TA
131 TA
* * * *
36578698 AATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGTCATCTTCGATTTGCTCCACTACTGTTTA
1 AATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGCCGTCTTCGATCTGCTCCACTACTGCTTA
* * * *
36578763 GGGAGATAAGATCTACAATTTTCAACATTCTTCGCTGCTGCTTAGGGAGACAAGGCTTGGTGGCT
66 GGGAGATAAGATCTACAATTTTCAACCTTCTCCGCTACTGCTCAGGGAGACAAGGCTTGGTGGCT
36578828 TA
131 TA
* * * *
36578830 AATCTGCTTCCCACTATCTTAGAAATATAAGATTCGCCATCTTCGATCTGCTCCACTACTGCTTA
1 AATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGCCGTCTTCGATCTGCTCCACTACTGCTTA
*
36578895 GGGAGATAAGATCTACAATTTTCAACCTTCTCTGCTACTGCTCAGGGAGACAA-----GGTGGCT
66 GGGAGATAAGATCTACAATTTTCAACCTTCTCCGCTACTGCTCAGGGAGACAAGGCTTGGTGGCT
36578955 TA
131 TA
** *
36578957 AATCTGCTTCCCACTATCTTGGAAAGATAAGATTCACTGTCTTCGATCTGCTCCACTACTGCTTA
1 AATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGCCGTCTTCGATCTGCTCCACTACTGCTTA
* * * *
36579022 GGGAGATAAGATCTACAATCTTCAGCCTTCTCCGCTGCTGCTCAGAGAGACAAGGCTTGGTGGCT
66 GGGAGATAAGATCTACAATTTTCAACCTTCTCCGCTACTGCTCAGGGAGACAAGGCTTGGTGGCT
36579087 TA
131 TA
* *
36579089 AATCTGCTTCCCACTATCTTGGAAAGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGTTTA
1 AATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGCCGTCTTCGATCTGCTCCACTACTGCTTA
36579154 GGGAGATAAGATCTACAATTTTCA
66 GGGAGATAAGATCTACAATTTTCA
36579178 CTGATCTGTT
Statistics
Matches: 438, Mismatches: 37, Indels: 10
0.90 0.08 0.02
Matches are distributed among these distances:
127 117 0.27
132 321 0.73
ACGTcount: A:0.26, C:0.24, G:0.19, T:0.31
Consensus pattern (132 bp):
AATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGCCGTCTTCGATCTGCTCCACTACTGCTTA
GGGAGATAAGATCTACAATTTTCAACCTTCTCCGCTACTGCTCAGGGAGACAAGGCTTGGTGGCT
TA
Found at i:36579060 original size:259 final size:260
Alignment explanation
Indices: 36578566--36579177 Score: 958
Period size: 259 Copynumber: 2.3 Consensus size: 260
36578556 TGTCGACTTT
* * *
36578566 AATCTGCTTCCCACTATCTTGGAAAGATATGATTTGTCGTCTTCGATCTGCTCCACTACTGCTTA
1 AATCTGCTTCCCACTATCTTGGAAAGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTA
*
36578631 GGGAGATAAGATCTACAATCTTCAACCTACTCCACTACTGCTCAGGGAAACAAGGCTTGGTGGCT
66 GGGAGATAAGATCTACAATTTTCAACCTACTCCACTACTGCTCAGGGAAACAA-G---GGTGGCT
** * *
36578696 TAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGTCATCTTCGATTTGCTCCACTACTGTT
127 TAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTACTCATCTTCGATCTGCTCCACTACTGCT
* * * *
36578761 TAGGGAGATAAGATCTACAATTTTCAACATTCTTCGCTGCTGCTTAGGGAGACAAGGCTTGGTGG
192 TAGGGAGATAAGATCTACAATCTTCAACATTCTCCGCTGCTGCTCAGAGAGACAAGGCTTGGTGG
36578826 CTTA
257 CTTA
* * *
36578830 AATCTGCTTCCCACTATCTTAGAAATATAAGATTCGCCATCTTCGATCTGCTCCACTACTGCTTA
1 AATCTGCTTCCCACTATCTTGGAAAGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTA
* ** *
36578895 GGGAGATAAGATCTACAATTTTCAACCTTCTCTGCTACTGCTCAGGGAGACAA-GGTGGCTTAAA
66 GGGAGATAAGATCTACAATTTTCAACCTACTCCACTACTGCTCAGGGAAACAAGGGTGGCTTAAA
*
36578959 TCTGCTTCCCACTATCTTGGAAAGATAAGATTCACT-GTCTTCGATCTGCTCCACTACTGCTTAG
131 TCTGCTTCCCACTATCTTGGAAAGATAAGATT-ACTCATCTTCGATCTGCTCCACTACTGCTTAG
* *
36579023 GGAGATAAGATCTACAATCTTCAGCCTTCTCCGCTGCTGCTCAGAGAGACAAGGCTTGGTGGCTT
195 GGAGATAAGATCTACAATCTTCAACATTCTCCGCTGCTGCTCAGAGAGACAAGGCTTGGTGGCTT
36579088 A
260 A
*
36579089 AATCTGCTTCCCACTATCTTGGAAAGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGTTTA
1 AATCTGCTTCCCACTATCTTGGAAAGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTA
36579154 GGGAGATAAGATCTACAATTTTCA
66 GGGAGATAAGATCTACAATTTTCA
36579178 CTGATCTGTT
Statistics
Matches: 321, Mismatches: 26, Indels: 7
0.91 0.07 0.02
Matches are distributed among these distances:
259 213 0.66
260 1 0.00
264 107 0.33
ACGTcount: A:0.26, C:0.24, G:0.19, T:0.31
Consensus pattern (260 bp):
AATCTGCTTCCCACTATCTTGGAAAGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTA
GGGAGATAAGATCTACAATTTTCAACCTACTCCACTACTGCTCAGGGAAACAAGGGTGGCTTAAA
TCTGCTTCCCACTATCTTGGAAAGATAAGATTACTCATCTTCGATCTGCTCCACTACTGCTTAGG
GAGATAAGATCTACAATCTTCAACATTCTCCGCTGCTGCTCAGAGAGACAAGGCTTGGTGGCTTA
Found at i:36580405 original size:12 final size:12
Alignment explanation
Indices: 36580385--36580437 Score: 54
Period size: 12 Copynumber: 4.2 Consensus size: 12
36580375 TGGCCTCTCC
*
36580385 TTTTACTTTTACT
1 TTTTCCTTTT-CT
*
36580398 TTTTCTTTTTTCCT
1 TTTTC-CTTTT-CT
36580412 TTTTCCTTTTCT
1 TTTTCCTTTTCT
36580424 TTTTCCTTTT-T
1 TTTTCCTTTTCT
36580435 TTT
1 TTT
36580438 GAAATATTTT
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
11 4 0.11
12 12 0.34
13 8 0.23
14 11 0.31
ACGTcount: A:0.04, C:0.19, G:0.00, T:0.77
Consensus pattern (12 bp):
TTTTCCTTTTCT
Found at i:36580435 original size:20 final size:20
Alignment explanation
Indices: 36580398--36580434 Score: 67
Period size: 19 Copynumber: 1.9 Consensus size: 20
36580388 TACTTTTACT
36580398 TTTTCTTTTTTCCTTTTTCC
1 TTTTCTTTTTTCCTTTTTCC
36580418 TTTTC-TTTTTCCTTTTT
1 TTTTCTTTTTTCCTTTTT
36580435 TTTGAAATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
19 12 0.71
20 5 0.29
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (20 bp):
TTTTCTTTTTTCCTTTTTCC
Found at i:36603107 original size:50 final size:50
Alignment explanation
Indices: 36602991--36603225 Score: 308
Period size: 50 Copynumber: 4.7 Consensus size: 50
36602981 GATCATAACA
* ** * *
36602991 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTACTCATGTCAG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCT-CTCATCTCGG
* * * *
36603042 TGCCCATGCCATGTCCCAGACATGGTCTTATATGTGTCCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* * * *
36603092 TGCCCATGCCATGTCCCTGACATGGTCTTACAGGGGACCTATCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* * *
36603142 TGCCAATGTCATGTCCCAAACATGGTCTTACATGGGACATCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
*
36603192 TGCCAATGTCATGTCCCAGACATGGTCTTACATG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATG
36603226 ATACCTCTTT
Statistics
Matches: 161, Mismatches: 23, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
50 128 0.80
51 33 0.20
ACGTcount: A:0.21, C:0.29, G:0.22, T:0.28
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
Found at i:36610040 original size:27 final size:27
Alignment explanation
Indices: 36610010--36610062 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 27
36610000 TAATAAACCT
* * * *
36610010 TAAAATAGATTAATGAGATAAATAAAA
1 TAAAATAAATAAATAAGAAAAATAAAA
36610037 TAAAATAAATAAATAAGAAAAATAAA
1 TAAAATAAATAAATAAGAAAAATAAA
36610063 CAAATAATAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.70, C:0.00, G:0.08, T:0.23
Consensus pattern (27 bp):
TAAAATAAATAAATAAGAAAAATAAAA
Found at i:36610060 original size:17 final size:17
Alignment explanation
Indices: 36610027--36610083 Score: 69
Period size: 17 Copynumber: 3.3 Consensus size: 17
36610017 GATTAATGAG
36610027 ATAAATAAAATAAAATAA
1 ATAAATAAAA-AAAATAA
*
36610045 ATAAATAAGAAAAATAA
1 ATAAATAAAAAAAATAA
* * *
36610062 ACAAATAATAAAAATCA
1 ATAAATAAAAAAAATAA
36610079 ATAAA
1 ATAAA
36610084 CTAATCAGGA
Statistics
Matches: 34, Mismatches: 5, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
17 25 0.74
18 9 0.26
ACGTcount: A:0.75, C:0.04, G:0.02, T:0.19
Consensus pattern (17 bp):
ATAAATAAAAAAAATAA
Found at i:36610577 original size:22 final size:21
Alignment explanation
Indices: 36610552--36610600 Score: 53
Period size: 21 Copynumber: 2.3 Consensus size: 21
36610542 TAGCAAATCG
*
36610552 ATTGATTGAAATAAAGAAATAA
1 ATTGAATGAAA-AAAGAAATAA
* *
36610574 ATTGAATGCAAAAATAAATAA
1 ATTGAATGAAAAAAGAAATAA
*
36610595 ACTGAA
1 ATTGAA
36610601 ATATATTGAT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
21 14 0.61
22 9 0.39
ACGTcount: A:0.59, C:0.04, G:0.12, T:0.24
Consensus pattern (21 bp):
ATTGAATGAAAAAAGAAATAA
Found at i:36612756 original size:41 final size:41
Alignment explanation
Indices: 36612710--36612796 Score: 129
Period size: 41 Copynumber: 2.1 Consensus size: 41
36612700 CACATCTCAC
* * *
36612710 GTGAGATGCATCGTATAACTACGTTCCAACCCACAGCTTGT
1 GTGAGATGCATCGTATAACTACATTACAACCCACAGCTCGT
* *
36612751 GTGAGATGCATCGTATAGCTACATTACAACCGACAGCTCGT
1 GTGAGATGCATCGTATAACTACATTACAACCCACAGCTCGT
36612792 GTGAG
1 GTGAG
36612797 CATACTTATT
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
41 41 1.00
ACGTcount: A:0.28, C:0.24, G:0.23, T:0.25
Consensus pattern (41 bp):
GTGAGATGCATCGTATAACTACATTACAACCCACAGCTCGT
Found at i:36615230 original size:57 final size:57
Alignment explanation
Indices: 36615117--36615230 Score: 149
Period size: 56 Copynumber: 2.0 Consensus size: 57
36615107 AAATGGTGAA
* * * * *
36615117 AATGGAGAAATTGAAAGCATTTGGAAATGATTATGGTTTTCTCCAAATGATAATGAC
1 AATGGAGAAATTGAAAGCATTTGAAAATGAATATCGTTTTCTCCAAAAGAAAATGAC
* *
36615174 AATGGAGAAATT-AAATCATTTGAAAATGAATGTCGTTTTCTCCAAAAAGAAAATGAC
1 AATGGAGAAATTGAAAGCATTTGAAAATGAATATCGTTTTCTCC-AAAAGAAAATGAC
36615231 CTGGAAATGA
Statistics
Matches: 49, Mismatches: 7, Indels: 2
0.84 0.12 0.03
Matches are distributed among these distances:
56 26 0.53
57 23 0.47
ACGTcount: A:0.42, C:0.10, G:0.18, T:0.30
Consensus pattern (57 bp):
AATGGAGAAATTGAAAGCATTTGAAAATGAATATCGTTTTCTCCAAAAGAAAATGAC
Found at i:36618062 original size:32 final size:34
Alignment explanation
Indices: 36617999--36618062 Score: 78
Period size: 32 Copynumber: 1.9 Consensus size: 34
36617989 TTGTAAAGAC
*
36617999 ATAACTTTTGTATGTAAAGTTGTCTTATAAAAAT
1 ATAACTTTTGTATGTAAAGTTATCTTATAAAAAT
* * *
36618033 ATAAC-TTT-TATGTAAGGTTATTTTTTAAAA
1 ATAACTTTTGTATGTAAAGTTATCTTATAAAA
36618063 TAACACAATC
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
32 18 0.69
33 3 0.12
34 5 0.19
ACGTcount: A:0.38, C:0.05, G:0.11, T:0.47
Consensus pattern (34 bp):
ATAACTTTTGTATGTAAAGTTATCTTATAAAAAT
Found at i:36618352 original size:9 final size:9
Alignment explanation
Indices: 36618338--36618368 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
36618328 GTTAAACGAA
36618338 TCGAGTTAT
1 TCGAGTTAT
*
36618347 TCGAGTTAA
1 TCGAGTTAT
36618356 TCGAGTTAT
1 TCGAGTTAT
36618365 TCGA
1 TCGA
36618369 ATCAACTCGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.26, C:0.13, G:0.23, T:0.39
Consensus pattern (9 bp):
TCGAGTTAT
Found at i:36623787 original size:25 final size:25
Alignment explanation
Indices: 36623759--36623806 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
36623749 CAAATGTTTC
*
36623759 ATTTGAAAATTTTAAAACTTTTCTT
1 ATTTGAAAATTATAAAACTTTTCTT
* *
36623784 ATTTGATAATTATAATACTTTTC
1 ATTTGAAAATTATAAAACTTTTC
36623807 AGAAATCGAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.35, C:0.08, G:0.04, T:0.52
Consensus pattern (25 bp):
ATTTGAAAATTATAAAACTTTTCTT
Found at i:36626935 original size:14 final size:14
Alignment explanation
Indices: 36626916--36626952 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 14
36626906 AATATTTTCT
36626916 TATA-AAATA-ATA
1 TATATAAATATATA
36626928 TATATAAATATATA
1 TATATAAATATATA
36626942 TATATGAAATA
1 TATAT-AAATA
36626953 GAATGAAAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 4 0.18
13 5 0.23
14 8 0.36
15 5 0.23
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (14 bp):
TATATAAATATATA
Found at i:36627005 original size:24 final size:24
Alignment explanation
Indices: 36626941--36627011 Score: 76
Period size: 26 Copynumber: 3.0 Consensus size: 24
36626931 ATAAATATAT
*
36626941 ATATAT-GAAATAGAATGAAAATA
1 ATATATGGAAATAAAATGAAAATA
*
36626964 GTATATGGAAAATCAAAATGAAAAGTA
1 ATATATGG-AAAT-AAAATGAAAA-TA
36626991 ATA-ATGGAAATAAAAT-AAAAT
1 ATATATGGAAATAAAATGAAAAT
36627012 TTTAAAGGGA
Statistics
Matches: 41, Mismatches: 3, Indels: 9
0.77 0.06 0.17
Matches are distributed among these distances:
22 1 0.02
23 9 0.22
24 6 0.15
25 8 0.20
26 13 0.32
27 4 0.10
ACGTcount: A:0.61, C:0.01, G:0.14, T:0.24
Consensus pattern (24 bp):
ATATATGGAAATAAAATGAAAATA
Found at i:36636790 original size:26 final size:26
Alignment explanation
Indices: 36636759--36636822 Score: 92
Period size: 26 Copynumber: 2.5 Consensus size: 26
36636749 TGACCTGCAA
*
36636759 CTCGTGTGAGCAGGCCCATTTCACAG
1 CTCGTGTGAGCAGACCCATTTCACAG
* *
36636785 CTCGTGTGAGCATACCTATTTCACAG
1 CTCGTGTGAGCAGACCCATTTCACAG
*
36636811 CTCGTATGAGCA
1 CTCGTGTGAGCA
36636823 ACTATGTGTA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 34 1.00
ACGTcount: A:0.22, C:0.28, G:0.23, T:0.27
Consensus pattern (26 bp):
CTCGTGTGAGCAGACCCATTTCACAG
Found at i:36646413 original size:10 final size:10
Alignment explanation
Indices: 36646398--36646422 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
36646388 TCAATTATTA
36646398 ATAAATTTTC
1 ATAAATTTTC
36646408 ATAAATTTTC
1 ATAAATTTTC
36646418 ATAAA
1 ATAAA
36646423 AGTTAGAATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.48, C:0.08, G:0.00, T:0.44
Consensus pattern (10 bp):
ATAAATTTTC
Found at i:36646806 original size:12 final size:12
Alignment explanation
Indices: 36646789--36646815 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
36646779 AAATTGAATC
36646789 TAGATAAATGTA
1 TAGATAAATGTA
36646801 TAGATAAATGTA
1 TAGATAAATGTA
36646813 TAG
1 TAG
36646816 GAGTGAGACT
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:0.48, C:0.00, G:0.19, T:0.33
Consensus pattern (12 bp):
TAGATAAATGTA
Found at i:36650463 original size:19 final size:20
Alignment explanation
Indices: 36650418--36650463 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 20
36650408 CTGAAAACTC
36650418 ATATTTAATAATAAGTTTTA
1 ATATTTAATAATAAGTTTTA
* *
36650438 ACA-TTAATAAT-ATTTTTA
1 ATATTTAATAATAAGTTTTA
36650456 ATATTTAA
1 ATATTTAA
36650464 AAAATAAATA
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
18 8 0.36
19 12 0.55
20 2 0.09
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.50
Consensus pattern (20 bp):
ATATTTAATAATAAGTTTTA
Found at i:36651495 original size:23 final size:23
Alignment explanation
Indices: 36651469--36651517 Score: 64
Period size: 23 Copynumber: 2.1 Consensus size: 23
36651459 ATTCAGATAC
36651469 AATAAAATACCATCT-TTTCTAAA
1 AATAAAAT-CCATCTATTTCTAAA
* *
36651492 AATAAAATTCATCTATTTTTAAA
1 AATAAAATCCATCTATTTCTAAA
36651515 AAT
1 AAT
36651518 TCTTTTTTGA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
22 5 0.22
23 18 0.78
ACGTcount: A:0.49, C:0.12, G:0.00, T:0.39
Consensus pattern (23 bp):
AATAAAATCCATCTATTTCTAAA
Found at i:36652293 original size:16 final size:16
Alignment explanation
Indices: 36652253--36652293 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
36652243 TATTCTTTAG
36652253 AATTTTTA-ATTTTTT
1 AATTTTTATATTTTTT
* *
36652268 AATATATATATTTTTT
1 AATTTTTATATTTTTT
36652284 AATTTTTATA
1 AATTTTTATA
36652294 AATATTTTGA
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
15 6 0.29
16 15 0.71
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (16 bp):
AATTTTTATATTTTTT
Found at i:36652327 original size:19 final size:18
Alignment explanation
Indices: 36652280--36652327 Score: 55
Period size: 19 Copynumber: 2.6 Consensus size: 18
36652270 TATATATATT
36652280 TTTTAATTTTTATAAATA
1 TTTTAATTTTTATAAATA
36652298 TTTTGAA-TTTTA-AAATTTA
1 TTTT-AATTTTTATAAA--TA
36652317 TTTTAATTTTT
1 TTTTAATTTTT
36652328 TTATTTGTTG
Statistics
Matches: 26, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
17 3 0.12
18 11 0.42
19 12 0.46
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (18 bp):
TTTTAATTTTTATAAATA
Found at i:36652333 original size:18 final size:18
Alignment explanation
Indices: 36652253--36652333 Score: 55
Period size: 16 Copynumber: 4.7 Consensus size: 18
36652243 TATTCTTTAG
36652253 AATTTTTA-A-TT-TTTT
1 AATTTTTATATTTATTTT
* *
36652268 AATATATATA-TT-TTTT
1 AATTTTTATATTTATTTT
**
36652284 AATTTTTATAAATATTTT
1 AATTTTTATATTTATTTT
* *
36652302 GAATTTTAAAATTTATTTT
1 -AATTTTTATATTTATTTT
*
36652321 AATTTTTTTATTT
1 AATTTTTATATTT
36652334 GTTGTTGAGA
Statistics
Matches: 50, Mismatches: 12, Indels: 5
0.75 0.18 0.07
Matches are distributed among these distances:
15 6 0.12
16 15 0.30
17 1 0.02
18 14 0.28
19 14 0.28
ACGTcount: A:0.33, C:0.00, G:0.01, T:0.65
Consensus pattern (18 bp):
AATTTTTATATTTATTTT
Found at i:36653170 original size:16 final size:15
Alignment explanation
Indices: 36653149--36653179 Score: 53
Period size: 16 Copynumber: 2.0 Consensus size: 15
36653139 ATATCAAGGT
36653149 TAATTAAGTAAATTAA
1 TAATTAAGT-AATTAA
36653165 TAATTAAGTAATTAA
1 TAATTAAGTAATTAA
36653180 AATAAGATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 6 0.40
16 9 0.60
ACGTcount: A:0.55, C:0.00, G:0.06, T:0.39
Consensus pattern (15 bp):
TAATTAAGTAATTAA
Found at i:36654025 original size:29 final size:30
Alignment explanation
Indices: 36653964--36654034 Score: 90
Period size: 29 Copynumber: 2.4 Consensus size: 30
36653954 TCATCGGCAA
* *
36653964 ATGAAAATGGATAGCTTTGGGCTAACGAAT
1 ATGAAAAGGGATAGCTTTCGGCTAACGAAT
* *
36653994 ATGAAAAGGGATAGC-TTCGGCTATCGATT
1 ATGAAAAGGGATAGCTTTCGGCTAACGAAT
*
36654023 ATGGAAAGGGAT
1 ATGAAAAGGGAT
36654035 GGTGACGACC
Statistics
Matches: 36, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
29 22 0.61
30 14 0.39
ACGTcount: A:0.35, C:0.10, G:0.30, T:0.25
Consensus pattern (30 bp):
ATGAAAAGGGATAGCTTTCGGCTAACGAAT
Found at i:36654084 original size:30 final size:29
Alignment explanation
Indices: 36654027--36654216 Score: 107
Period size: 30 Copynumber: 6.4 Consensus size: 29
36654017 TCGATTATGG
*
36654027 AAAGGGATGGTGACGACCATCAACAATGA
1 AAAGGGATAGTGACGACCATCAACAATGA
*
36654056 AAAGGGATAGTGACGATCATCAAACAATGA
1 AAAGGGATAGTGACGACCATC-AACAATGA
* * * * * ***
36654086 AAAGAGATGGCT-TCAACTATCGATTTATGA
1 AAAGGGATAG-TGACGACCATC-AACAATGA
* * *
36654116 AAAGGGATAGCT-TCGACTATCAA-ATTATAA
1 AAAGGGATAG-TGACGACCATCAACA--ATGA
* **
36654146 AAAGGGATGGTGACGACCCCCGAACAATGA
1 AAAGGGATAGTGACGACCATC-AACAATGA
* * * *
36654176 AAAGGGTTGGTGATGACCATCAACTTATGA
1 AAAGGGATAGTGACGACCATCAAC-AATGA
36654206 AAAGGGATAGT
1 AAAGGGATAGT
36654217 TTCAGCTGTC
Statistics
Matches: 122, Mismatches: 31, Indels: 15
0.73 0.18 0.09
Matches are distributed among these distances:
29 24 0.20
30 94 0.77
31 3 0.02
32 1 0.01
ACGTcount: A:0.40, C:0.15, G:0.25, T:0.21
Consensus pattern (29 bp):
AAAGGGATAGTGACGACCATCAACAATGA
Found at i:36654176 original size:60 final size:60
Alignment explanation
Indices: 36653994--36654276 Score: 186
Period size: 60 Copynumber: 4.7 Consensus size: 60
36653984 GCTAACGAAT
* * *
36653994 ATGAAAAGGGATAGCTTCGGCTATC-GATTATGGAAAGGGATGGTGACGACCATC-AACA
1 ATGAAAAGGGATAGCTTCGACTATCAAATTATGAAAAGGGATGGTGACGACCATCGAACA
* ** * * * * ***
36654052 ATGAAAAGGGATAG-TGACGA-TCATCAAACAATGAAAAGAGATGGCT-TCAACTATCGATTT
1 ATGAAAAGGGATAGCT-TCGACT-ATCAAATTATGAAAAGGGATGG-TGACGACCATCGAACA
* **
36654112 ATGAAAAGGGATAGCTTCGACTATCAAATTATAAAAAGGGATGGTGACGACCCCCGAACA
1 ATGAAAAGGGATAGCTTCGACTATCAAATTATGAAAAGGGATGGTGACGACCATCGAACA
* * * * * ** ** *
36654172 ATGAAAAGGG-TTGGTGAT-GACCATCAACTTATGAAAAGGGATAGTTTC-AGCTGTCGAACT
1 ATGAAAAGGGATAGCT--TCGACTATCAAATTATGAAAAGGGATGGTGACGA-CCATCGAACA
* * *
36654232 ATGAAAATGGGATAACTTCGATTATCAAATTACGAAAAGGGATGG
1 ATGAAAA-GGGATAGCTTCGACTATCAAATTATGAAAAGGGATGG
36654277 GTTAACCATC
Statistics
Matches: 165, Mismatches: 46, Indels: 25
0.70 0.19 0.11
Matches are distributed among these distances:
57 2 0.01
58 19 0.12
59 24 0.15
60 91 0.55
61 27 0.16
62 2 0.01
ACGTcount: A:0.38, C:0.14, G:0.25, T:0.23
Consensus pattern (60 bp):
ATGAAAAGGGATAGCTTCGACTATCAAATTATGAAAAGGGATGGTGACGACCATCGAACA
Found at i:36655304 original size:12 final size:12
Alignment explanation
Indices: 36655287--36655316 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
36655277 TCAAGCAATT
36655287 ACACGGCCTAGC
1 ACACGGCCTAGC
*
36655299 ACACGGCCTGGC
1 ACACGGCCTAGC
36655311 ACACGG
1 ACACGG
36655317 GTGTGTGAGG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.23, C:0.40, G:0.30, T:0.07
Consensus pattern (12 bp):
ACACGGCCTAGC
Found at i:36661782 original size:30 final size:28
Alignment explanation
Indices: 36661709--36661783 Score: 87
Period size: 29 Copynumber: 2.5 Consensus size: 28
36661699 GGCTATCGAT
*
36661709 TATGAAAACGGATGGTGATGACCATCAAC
1 TATGAAAA-GGATGGTGACGACCATCAAC
* *
36661738 AAAGAAAAGGGATGGTGACGACCATCAAAC
1 TATGAAAA-GGATGGTGACGACCATC-AAC
36661768 TATGAAAAGAGATGGT
1 TATGAAAAG-GATGGT
36661784 TTCGGCTATC
Statistics
Matches: 38, Mismatches: 6, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
29 23 0.61
30 15 0.39
ACGTcount: A:0.43, C:0.13, G:0.27, T:0.17
Consensus pattern (28 bp):
TATGAAAAGGATGGTGACGACCATCAAC
Found at i:36661795 original size:30 final size:30
Alignment explanation
Indices: 36661761--36661865 Score: 75
Period size: 30 Copynumber: 3.5 Consensus size: 30
36661751 GGTGACGACC
* *
36661761 ATCAAACTATGAAAAGAGATGGTTTCGGCT
1 ATCAAACTATGAAAAGAGATAGCTTCGGCT
** * *
36661791 ATCAATTTATTAAAAGGGATAGCTTCGGCT
1 ATCAAACTATGAAAAGAGATAGCTTCGGCT
* * * * * **
36661821 ATCGAATTTTGAAAAGGGATAGATTCATCT
1 ATCAAACTATGAAAAGAGATAGCTTCGGCT
* *
36661851 GTCGAACTATGAAAA
1 ATCAAACTATGAAAA
36661866 AGGGATTATG
Statistics
Matches: 59, Mismatches: 16, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
30 59 1.00
ACGTcount: A:0.37, C:0.12, G:0.21, T:0.30
Consensus pattern (30 bp):
ATCAAACTATGAAAAGAGATAGCTTCGGCT
Found at i:36675182 original size:49 final size:48
Alignment explanation
Indices: 36675099--36675191 Score: 159
Period size: 49 Copynumber: 1.9 Consensus size: 48
36675089 TGCTATGCAA
*
36675099 TGCTAAACTTGGTCTTCACTGTCTACACTATTATCACTATTTATACAT
1 TGCTAAACTTAGTCTTCACTGTCTACACTATTATCACTATTTATACAT
*
36675147 TGCTAAACTTAGTCTTCCACTGTCTACACTCTTATCACTATTTAT
1 TGCTAAACTTAGTCTT-CACTGTCTACACTATTATCACTATTTAT
36675192 CCCTTCTTGA
Statistics
Matches: 42, Mismatches: 2, Indels: 1
0.93 0.04 0.02
Matches are distributed among these distances:
48 15 0.36
49 27 0.64
ACGTcount: A:0.26, C:0.25, G:0.08, T:0.42
Consensus pattern (48 bp):
TGCTAAACTTAGTCTTCACTGTCTACACTATTATCACTATTTATACAT
Found at i:36676991 original size:25 final size:27
Alignment explanation
Indices: 36676953--36677003 Score: 70
Period size: 25 Copynumber: 2.0 Consensus size: 27
36676943 CTCAATACAC
*
36676953 ATATATACATAATCAATATATTTCATA
1 ATATATACATAATCAATACATTTCATA
*
36676980 ATATATA-A-AATCAATCCATTTCAT
1 ATATATACATAATCAATACATTTCAT
36677004 TTCAATTATG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
25 14 0.64
26 1 0.05
27 7 0.32
ACGTcount: A:0.47, C:0.14, G:0.00, T:0.39
Consensus pattern (27 bp):
ATATATACATAATCAATACATTTCATA
Found at i:36680298 original size:6 final size:6
Alignment explanation
Indices: 36680287--36680371 Score: 52
Period size: 6 Copynumber: 13.7 Consensus size: 6
36680277 TTCCATATCA
* *
36680287 AAAAAG AAAAAG --AAAT AAAAAG GAAAAG AAAATA- AAGAAAG TAAAAAG
1 AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG AAAA-AG AA-AAAG -AAAAAG
*
36680335 AAAATA- AAGAAAG TAAAAAG AACATAG AAAAAG AAAA
1 AAAA-AG AA-AAAG -AAAAAG AA-AAAG AAAAAG AAAA
36680372 TAAAGAAAGT
Statistics
Matches: 62, Mismatches: 6, Indels: 22
0.69 0.07 0.24
Matches are distributed among these distances:
4 3 0.05
6 36 0.58
7 19 0.31
8 4 0.06
ACGTcount: A:0.76, C:0.01, G:0.15, T:0.07
Consensus pattern (6 bp):
AAAAAG
Done.