Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A06
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: 115140250
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2234201 characters in sequence are not A, C, G, or T
File 313 of 345
Found at i:105777687 original size:20 final size:20
Alignment explanation
Indices: 105777649--105777689 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
105777639 TTAAATTGTA
* **
105777649 AAAGATAAATACATTTAATT
1 AAAGATAAATAAAGATAATT
105777669 AAAGATAAATAAAGATAATT
1 AAAGATAAATAAAGATAATT
105777689 A
1 A
105777690 GAATAAAATC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.61, C:0.02, G:0.07, T:0.29
Consensus pattern (20 bp):
AAAGATAAATAAAGATAATT
Found at i:105783482 original size:179 final size:177
Alignment explanation
Indices: 105783167--105783523 Score: 678
Period size: 179 Copynumber: 2.0 Consensus size: 177
105783157 AGGCCTGTCT
105783167 ACTAGGCCCGGGCCCAGCCCGGCCCAAAATATGGGCCTAAAAAATTGTCCAAGCTCGGCCCAAAA
1 ACTAGGCCCGGGCCCAGCCCGGCCCAAAATATGGGCCTAAAAAATTGTCCAAGCTCGGCCCAAAA
105783232 TAAAATTACTAAGCTCGAGCCTGGCCCGACTCGACCCGACCCATATTAAATTTTTTTTGCTTATT
66 TAAAATTACTAAGCTCGAGCCTGGCCCGACTCGACCCGACCCATATTAAATTTTTTTTGCTTATT
105783297 TCATTAAATAAAAAAAATTAAAAATATAATAAATCAAATATATTTAA
131 TCATTAAATAAAAAAAATTAAAAATATAATAAATCAAATATATTTAA
105783344 ACTAGGCCCGGGCCCAGCCCGGCCCAAAATATGGGCCTAAAAAATTGTCCAAGCTCGGCCCAAAA
1 ACTAGGCCCGGGCCCAGCCCGGCCCAAAATATGGGCCTAAAAAATTGTCCAAGCTCGGCCCAAAA
*
105783409 TAAAAAATTACTAAGCTCGAGCCTGGCCCGACTCGACTCGACCCATATTAAATTTTTTTTGCTTA
66 T--AAAATTACTAAGCTCGAGCCTGGCCCGACTCGACCCGACCCATATTAAATTTTTTTTGCTTA
*
105783474 TTTCATTAAATAAAAAAATTTAAAAATATAATAAATCAAATATATTTAA
129 TTTCATTAAATAAAAAAAATTAAAAATATAATAAATCAAATATATTTAA
105783523 A
1 A
105783524 AGCATAAAAA
Statistics
Matches: 176, Mismatches: 2, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
177 66 0.38
179 110 0.62
ACGTcount: A:0.38, C:0.23, G:0.13, T:0.26
Consensus pattern (177 bp):
ACTAGGCCCGGGCCCAGCCCGGCCCAAAATATGGGCCTAAAAAATTGTCCAAGCTCGGCCCAAAA
TAAAATTACTAAGCTCGAGCCTGGCCCGACTCGACCCGACCCATATTAAATTTTTTTTGCTTATT
TCATTAAATAAAAAAAATTAAAAATATAATAAATCAAATATATTTAA
Found at i:105783530 original size:26 final size:24
Alignment explanation
Indices: 105783491--105783539 Score: 62
Period size: 26 Copynumber: 2.0 Consensus size: 24
105783481 AAATAAAAAA
*
105783491 ATTTAAAAATATAATAAATCAAATAT
1 ATTTAAAAACATAA-AAA-CAAATAT
*
105783517 ATTTAAAAGCATAAAAACAAATA
1 ATTTAAAAACATAAAAACAAATA
105783540 AAAATGATAC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 6 0.29
25 3 0.14
26 12 0.57
ACGTcount: A:0.63, C:0.06, G:0.02, T:0.29
Consensus pattern (24 bp):
ATTTAAAAACATAAAAACAAATAT
Found at i:105784233 original size:32 final size:32
Alignment explanation
Indices: 105784192--105784284 Score: 159
Period size: 32 Copynumber: 2.9 Consensus size: 32
105784182 TGTCAATCAT
*
105784192 TTCAATATCCAACAAGTTTAAAACATAATAAA
1 TTCAATATCCAACAAGCTTAAAACATAATAAA
105784224 TTCAATATCCAACAAGCTTAAAACATAATAAA
1 TTCAATATCCAACAAGCTTAAAACATAATAAA
**
105784256 TTCAATATCTGACAAGCTTAAAACATAAT
1 TTCAATATCCAACAAGCTTAAAACATAAT
105784285 CAATATCTAA
Statistics
Matches: 58, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
32 58 1.00
ACGTcount: A:0.51, C:0.17, G:0.04, T:0.28
Consensus pattern (32 bp):
TTCAATATCCAACAAGCTTAAAACATAATAAA
Found at i:105784291 original size:27 final size:30
Alignment explanation
Indices: 105784192--105784297 Score: 119
Period size: 32 Copynumber: 3.5 Consensus size: 30
105784182 TGTCAATCAT
* *
105784192 TTCAATATCCAACAAGTTTAAAACATAATAAA
1 TTCAATATCTAACAAGCTTAAAAC--AATAAA
*
105784224 TTCAATATCCAACAAGCTTAAAACATAATAAA
1 TTCAATATCTAACAAGCTTAAAAC--AATAAA
*
105784256 TTCAATATCTGACAAGCTTAAAAC-AT-AA
1 TTCAATATCTAACAAGCTTAAAACAATAAA
105784284 -TCAATATCTAACAA
1 TTCAATATCTAACAA
105784298 ATCCAAGACA
Statistics
Matches: 70, Mismatches: 4, Indels: 5
0.89 0.05 0.06
Matches are distributed among these distances:
27 13 0.19
28 2 0.03
29 2 0.03
32 53 0.76
ACGTcount: A:0.51, C:0.18, G:0.04, T:0.27
Consensus pattern (30 bp):
TTCAATATCTAACAAGCTTAAAACAATAAA
Found at i:105786207 original size:47 final size:47
Alignment explanation
Indices: 105786138--105786236 Score: 180
Period size: 47 Copynumber: 2.1 Consensus size: 47
105786128 TAAATACATT
* *
105786138 AATTTAGTATATATATTATCCACAATTTCTAACTTCACTAGGATATG
1 AATTTAGTATATATAGTATCCACAATTTCTAACTTCACCAGGATATG
105786185 AATTTAGTATATATAGTATCCACAATTTCTAACTTCACCAGGATATG
1 AATTTAGTATATATAGTATCCACAATTTCTAACTTCACCAGGATATG
105786232 AATTT
1 AATTT
105786237 CTTTGAACTT
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 50 1.00
ACGTcount: A:0.36, C:0.15, G:0.09, T:0.39
Consensus pattern (47 bp):
AATTTAGTATATATAGTATCCACAATTTCTAACTTCACCAGGATATG
Found at i:105788851 original size:21 final size:21
Alignment explanation
Indices: 105788827--105788866 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
105788817 TTACATGACA
*
105788827 TTAATATTTTCATCTTAAATT
1 TTAACATTTTCATCTTAAATT
105788848 TTAACATTTTCATCTTAAA
1 TTAACATTTTCATCTTAAA
105788867 AAAATCAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.35, C:0.12, G:0.00, T:0.53
Consensus pattern (21 bp):
TTAACATTTTCATCTTAAATT
Found at i:105791865 original size:59 final size:59
Alignment explanation
Indices: 105791757--105791881 Score: 153
Period size: 59 Copynumber: 2.1 Consensus size: 59
105791747 TTTTTAAAAC
* *
105791757 TTTTAGAATTAGAATTAAGTTGAAAAATTTTGTAAATGTTCAAGATAAATTTATTGAAT
1 TTTTAGAATTAGAATTAAGATGAAAAATTTTGTAAATATTCAAGATAAATTTATTGAAT
* * * * * * *
105791816 TTTTAGAATTAGAATTAA-ATGACAATTTTTGTACATATTGAGGGCTAAATTTATTTAAT
1 TTTTAGAATTAGAATTAAGATGAAAAATTTTGTAAATATTCA-AGATAAATTTATTGAAT
105791875 TTTTAGA
1 TTTTAGA
105791882 TTTAAGATCA
Statistics
Matches: 56, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
58 17 0.30
59 39 0.70
ACGTcount: A:0.39, C:0.03, G:0.14, T:0.44
Consensus pattern (59 bp):
TTTTAGAATTAGAATTAAGATGAAAAATTTTGTAAATATTCAAGATAAATTTATTGAAT
Found at i:105792219 original size:19 final size:19
Alignment explanation
Indices: 105792171--105792220 Score: 73
Period size: 19 Copynumber: 2.6 Consensus size: 19
105792161 CTTTCGTCTC
*
105792171 GCGATCTGTGCGGCCTTAG
1 GCGATCTGTTCGGCCTTAG
*
105792190 GCGATCCGTTCGGCCTTAG
1 GCGATCTGTTCGGCCTTAG
*
105792209 GTGATCTGTTCG
1 GCGATCTGTTCG
105792221 TCCAAACTCG
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
19 27 1.00
ACGTcount: A:0.10, C:0.26, G:0.34, T:0.30
Consensus pattern (19 bp):
GCGATCTGTTCGGCCTTAG
Found at i:105793959 original size:13 final size:13
Alignment explanation
Indices: 105793943--105793967 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
105793933 AGAATGATTT
105793943 TTTGAAAATTTCG
1 TTTGAAAATTTCG
105793956 TTTGAAAATTTC
1 TTTGAAAATTTC
105793968 AACGTTTGGG
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:0.32, C:0.08, G:0.12, T:0.48
Consensus pattern (13 bp):
TTTGAAAATTTCG
Found at i:105795244 original size:44 final size:44
Alignment explanation
Indices: 105795184--105795293 Score: 202
Period size: 44 Copynumber: 2.5 Consensus size: 44
105795174 GTGTTGTAGA
*
105795184 AAAGGATTTAGCCCGGATGGGTAATCCGTTGATCTCAAATATAG
1 AAAGGATCTAGCCCGGATGGGTAATCCGTTGATCTCAAATATAG
105795228 AAAGGATCTAGCCCGGATGGGTAATCCGTTGATCTCAAATATAG
1 AAAGGATCTAGCCCGGATGGGTAATCCGTTGATCTCAAATATAG
*
105795272 AAAGGATCTAGCCCGGACGGGT
1 AAAGGATCTAGCCCGGATGGGT
105795294 GTTCCTTAAG
Statistics
Matches: 64, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
44 64 1.00
ACGTcount: A:0.31, C:0.18, G:0.27, T:0.24
Consensus pattern (44 bp):
AAAGGATCTAGCCCGGATGGGTAATCCGTTGATCTCAAATATAG
Found at i:105796747 original size:37 final size:37
Alignment explanation
Indices: 105796696--105796771 Score: 104
Period size: 37 Copynumber: 2.1 Consensus size: 37
105796686 ATGCTCGATG
105796696 TTGTTGTGATTAGCCAA-ATGTAT-TGGCTTATAATGAT
1 TTGTTGTGATTAGCCAAGA-G-ATGTGGCTTATAATGAT
105796733 TTGTTGT-ATGTAGCCAAGAGATGTGGCTTATAATGAT
1 TTGTTGTGAT-TAGCCAAGAGATGTGGCTTATAATGAT
105796770 TT
1 TT
105796772 TGGCTTGTAA
Statistics
Matches: 36, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
36 4 0.11
37 31 0.86
38 1 0.03
ACGTcount: A:0.26, C:0.08, G:0.24, T:0.42
Consensus pattern (37 bp):
TTGTTGTGATTAGCCAAGAGATGTGGCTTATAATGAT
Found at i:105804320 original size:28 final size:28
Alignment explanation
Indices: 105804288--105804346 Score: 118
Period size: 28 Copynumber: 2.1 Consensus size: 28
105804278 TAGTATATCA
105804288 TGTGAATAATACTAATTTACTTATTCTT
1 TGTGAATAATACTAATTTACTTATTCTT
105804316 TGTGAATAATACTAATTTACTTATTCTT
1 TGTGAATAATACTAATTTACTTATTCTT
105804344 TGT
1 TGT
105804347 TCACATCTAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.31, C:0.10, G:0.08, T:0.51
Consensus pattern (28 bp):
TGTGAATAATACTAATTTACTTATTCTT
Found at i:105807271 original size:64 final size:64
Alignment explanation
Indices: 105807191--105807362 Score: 177
Period size: 67 Copynumber: 2.7 Consensus size: 64
105807181 AGACATTATG
* * *
105807191 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAAAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAAAGAGCTACGAGATAA
* * * * * * **
105807255 ATGTAGCTAGGTCGCATGCGTGGTTCCAGGTGAAGGACACCATGAAGACAAGGGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTA--TG-TGTACACCATGTAGACAAAAGAGCTACGAGAT
105807320 AA
63 AA
* *
105807322 AT-TAGCTAGGTCACATGGGTGGTACTGA-GTGTTCACCATGT
1 ATGTAGCTAGGTCGCATGGGTGGTACT-ATGTGTACACCATGT
105807363 GCACAAGAGA
Statistics
Matches: 85, Mismatches: 19, Indels: 9
0.75 0.17 0.08
Matches are distributed among these distances:
63 8 0.09
64 25 0.29
66 22 0.26
67 30 0.35
ACGTcount: A:0.29, C:0.17, G:0.30, T:0.24
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAAAGAGCTACGAGATAA
Found at i:105809331 original size:36 final size:36
Alignment explanation
Indices: 105809281--105809360 Score: 115
Period size: 36 Copynumber: 2.2 Consensus size: 36
105809271 GTTGCTACTC
* * *
105809281 AAAGCCATGTTTCAACATGTTCTAAAAATATAATTT
1 AAAGTCATATTTCAACATGTTCTAAAAAGATAATTT
*
105809317 AAAGTCATATTTCAACATGTTCTAAAAAGATCATTT
1 AAAGTCATATTTCAACATGTTCTAAAAAGATAATTT
*
105809353 AAATTCAT
1 AAAGTCAT
105809361 CACTAATTAA
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
36 39 1.00
ACGTcount: A:0.42, C:0.14, G:0.07, T:0.36
Consensus pattern (36 bp):
AAAGTCATATTTCAACATGTTCTAAAAAGATAATTT
Found at i:105812079 original size:10 final size:10
Alignment explanation
Indices: 105812066--105812124 Score: 59
Period size: 10 Copynumber: 6.0 Consensus size: 10
105812056 TTTTAAATTT
105812066 TTATATTAAA
1 TTATATTAAA
105812076 TTATATTAAA
1 TTATATTAAA
*
105812086 ATAT-TTAAA
1 TTATATTAAA
*
105812095 ATATTATTAAA
1 TTA-TATTAAA
*
105812106 TCATATTAAA
1 TTATATTAAA
*
105812116 CTAT-TTAAA
1 TTATATTAAA
105812125 AATATTTTAT
Statistics
Matches: 42, Mismatches: 5, Indels: 5
0.81 0.10 0.10
Matches are distributed among these distances:
9 13 0.31
10 23 0.55
11 6 0.14
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (10 bp):
TTATATTAAA
Found at i:105812103 original size:30 final size:31
Alignment explanation
Indices: 105812069--105812130 Score: 99
Period size: 30 Copynumber: 2.0 Consensus size: 31
105812059 TAAATTTTTA
*
105812069 TATTAAATTATATTAAAATATTT-AAAATAT
1 TATTAAATCATATTAAAATATTTAAAAATAT
*
105812099 TATTAAATCATATTAAACTATTTAAAAATAT
1 TATTAAATCATATTAAAATATTTAAAAATAT
105812130 T
1 T
105812131 TTATTTTTAT
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
30 21 0.72
31 8 0.28
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (31 bp):
TATTAAATCATATTAAAATATTTAAAAATAT
Found at i:105812130 original size:10 final size:9
Alignment explanation
Indices: 105812071--105812131 Score: 50
Period size: 10 Copynumber: 6.2 Consensus size: 9
105812061 AATTTTTATA
*
105812071 TTAAATTAT
1 TTAAAATAT
105812080 ATTAAAATAT
1 -TTAAAATAT
105812090 TTAAAATAT
1 TTAAAATAT
*
105812099 TATTAAATCAT
1 T-TAAAAT-AT
*
105812110 ATTAAACTAT
1 -TTAAAATAT
105812120 TTAAAAATAT
1 TT-AAAATAT
105812130 TT
1 TT
105812132 TATTTTTATA
Statistics
Matches: 42, Mismatches: 5, Indels: 8
0.76 0.09 0.15
Matches are distributed among these distances:
9 12 0.29
10 23 0.55
11 6 0.14
12 1 0.02
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (9 bp):
TTAAAATAT
Found at i:105812180 original size:10 final size:10
Alignment explanation
Indices: 105812167--105812208 Score: 50
Period size: 10 Copynumber: 4.2 Consensus size: 10
105812157 AAATAATATT
105812167 TTATTTTAAA
1 TTATTTTAAA
*
105812177 TTATATTAAA
1 TTATTTTAAA
*
105812187 ATATTTTAAA
1 TTATTTTAAA
105812197 TT-TTTTGAAA
1 TTATTTT-AAA
105812207 TT
1 TT
105812209 TAGAAATACT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
9 4 0.15
10 23 0.85
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.57
Consensus pattern (10 bp):
TTATTTTAAA
Found at i:105812200 original size:55 final size:55
Alignment explanation
Indices: 105812135--105812240 Score: 151
Period size: 55 Copynumber: 1.9 Consensus size: 55
105812125 AATATTTTAT
* *
105812135 TTTTATATTTTTTGAAA-ATAGGAAATAATATTTTATTTTAAATTATATTAAAATA
1 TTTTAAATTTTTTGAAATATA-GAAATAATATTTTATATTAAATTATATTAAAATA
* * *
105812190 TTTTAAATTTTTTGAAATTTAGAAATACTTTTTTATATTAAATTATATTAA
1 TTTTAAATTTTTTGAAATATAGAAATAATATTTTATATTAAATTATATTAA
105812241 TTTTTTTCTC
Statistics
Matches: 45, Mismatches: 5, Indels: 2
0.87 0.10 0.04
Matches are distributed among these distances:
55 43 0.96
56 2 0.04
ACGTcount: A:0.42, C:0.01, G:0.05, T:0.53
Consensus pattern (55 bp):
TTTTAAATTTTTTGAAATATAGAAATAATATTTTATATTAAATTATATTAAAATA
Found at i:105815005 original size:37 final size:37
Alignment explanation
Indices: 105814964--105815045 Score: 119
Period size: 37 Copynumber: 2.2 Consensus size: 37
105814954 AAACGCTCAT
* * ** *
105814964 AAGAGCTAATCTAACCGATAACACGCCAAATGTTTTG
1 AAGAGCTAATCCAACCAATAACACGCCAAATACTCTG
105815001 AAGAGCTAATCCAACCAATAACACGCCAAATACTCTG
1 AAGAGCTAATCCAACCAATAACACGCCAAATACTCTG
105815038 AAGAGCTA
1 AAGAGCTA
105815046 TACATCCGCC
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
37 40 1.00
ACGTcount: A:0.41, C:0.24, G:0.15, T:0.20
Consensus pattern (37 bp):
AAGAGCTAATCCAACCAATAACACGCCAAATACTCTG
Found at i:105820430 original size:141 final size:140
Alignment explanation
Indices: 105820190--105820445 Score: 343
Period size: 141 Copynumber: 1.8 Consensus size: 140
105820180 GAAGTAGCTT
* * * *
105820190 TCTTCTTGCCTTCTCTATGGCATGCTCGAGAAGAATTTGGGGCTAGTGGCCGAAGATGAAGCAAG
1 TCTTCTTGCCTTCTATATGGCATGCCCGAGAAGAATTTGGGGCTAGTGGCCGAAGATCAAACAAG
* ** * *
105820255 CAATAAAGGCTGGGTGAGAAGGGCTGTCGGGTTGAGTGAGGAAGGTTTCAGAACGGAGAAAAACA
66 CAATAAAGGCTGGGTGAGAACGGCTGTCAAGTTGAGTAAAGAAGGTTTCAGAACGGAGAAAAACA
105820320 AAGGTGAGTC
131 AAGGTGAGTC
* * *
105820330 TCTTCTTGCCTTTCTATATGGCATGCCCGAGAA-AAGTTTTGGGCTAGTGGCCGGAGGTCAAACA
1 TCTTCTTGCC-TTCTATATGGCATGCCCGAGAAGAA-TTTGGGGCTAGTGGCCGAAGATCAAACA
** * *
105820394 AGCAATGGAGGCTGGGTGAGCACGGTTGTCAAGTTGAGTAAAGAAGGTTTCA
64 AGCAATAAAGGCTGGGTGAGAACGGCTGTCAAGTTGAGTAAAGAAGGTTTCA
105820446 AAATGATAAA
Statistics
Matches: 98, Mismatches: 16, Indels: 3
0.84 0.14 0.03
Matches are distributed among these distances:
140 12 0.12
141 86 0.88
ACGTcount: A:0.27, C:0.16, G:0.33, T:0.24
Consensus pattern (140 bp):
TCTTCTTGCCTTCTATATGGCATGCCCGAGAAGAATTTGGGGCTAGTGGCCGAAGATCAAACAAG
CAATAAAGGCTGGGTGAGAACGGCTGTCAAGTTGAGTAAAGAAGGTTTCAGAACGGAGAAAAACA
AAGGTGAGTC
Found at i:105825576 original size:34 final size:34
Alignment explanation
Indices: 105825538--105825604 Score: 125
Period size: 34 Copynumber: 2.0 Consensus size: 34
105825528 TAAATCTAAA
*
105825538 TATTTAGATTAAATTTTTAAGCTTAAGCTTGGTT
1 TATTTAGATTAAAATTTTAAGCTTAAGCTTGGTT
105825572 TATTTAGATTAAAATTTTAAGCTTAAGCTTGGT
1 TATTTAGATTAAAATTTTAAGCTTAAGCTTGGT
105825605 CCGATCTGAC
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 32 1.00
ACGTcount: A:0.31, C:0.06, G:0.15, T:0.48
Consensus pattern (34 bp):
TATTTAGATTAAAATTTTAAGCTTAAGCTTGGTT
Found at i:105826042 original size:26 final size:25
Alignment explanation
Indices: 105825994--105826060 Score: 77
Period size: 24 Copynumber: 2.7 Consensus size: 25
105825984 TGTATTAATG
105825994 ATTTAATATA-AATATAAATATATT
1 ATTTAATATATAATATAAATATATT
105826018 ATTTAATATATAAT-TAATATGATATT
1 ATTTAATATATAATATAA-AT-ATATT
*
105826044 -TTTTATAATATAATATA
1 ATTTAAT-ATATAATATA
105826061 TTCGTAGCGG
Statistics
Matches: 37, Mismatches: 1, Indels: 7
0.82 0.02 0.16
Matches are distributed among these distances:
24 13 0.35
25 10 0.27
26 12 0.32
27 2 0.05
ACGTcount: A:0.49, C:0.00, G:0.01, T:0.49
Consensus pattern (25 bp):
ATTTAATATATAATATAAATATATT
Found at i:105826794 original size:35 final size:33
Alignment explanation
Indices: 105826723--105826794 Score: 135
Period size: 33 Copynumber: 2.2 Consensus size: 33
105826713 AAGTATAAAG
105826723 AAAAAGGTATGTTTTATATATATATATAATGGT
1 AAAAAGGTATGTTTTATATATATATATAATGGT
105826756 AAAAAGGTATGTTTTATATATATATATAATGGT
1 AAAAAGGTATGTTTTATATATATATATAATGGT
105826789 ATAAAA
1 A-AAAA
105826795 CATATATGTT
Statistics
Matches: 38, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
33 34 0.89
34 4 0.11
ACGTcount: A:0.46, C:0.00, G:0.14, T:0.40
Consensus pattern (33 bp):
AAAAAGGTATGTTTTATATATATATATAATGGT
Found at i:105829678 original size:29 final size:29
Alignment explanation
Indices: 105829620--105829696 Score: 88
Period size: 29 Copynumber: 2.7 Consensus size: 29
105829610 CAATAGGAAT
*
105829620 TTTTAGTTTTATTTTTTTATTATATCATA
1 TTTTAGTTTTATTTTTTTCTTATATCATA
105829649 TTTTAGTTTTATTTATTTTCTCTAT-T-ATA
1 TTTTAGTTTTATTT-TTTTCT-TATATCATA
*
105829678 -TTAAGTTTTCATTTTTTTC
1 TTTTAGTTTT-ATTTTTTTC
105829697 ATAAACTTTA
Statistics
Matches: 43, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
28 13 0.30
29 21 0.49
30 6 0.14
31 3 0.07
ACGTcount: A:0.21, C:0.06, G:0.04, T:0.69
Consensus pattern (29 bp):
TTTTAGTTTTATTTTTTTCTTATATCATA
Found at i:105832484 original size:81 final size:81
Alignment explanation
Indices: 105832347--105832569 Score: 342
Period size: 81 Copynumber: 2.8 Consensus size: 81
105832337 TTAGTTTACC
* * *
105832347 AAATTACTAAAATAACCTTTGTTTATAAAATTACCAAAATA-CCCTTTGTTTATAAAATTACCAA
1 AAATTACTAAAATACCCTTTGTTTATAAAATTACCAAAATATCCC-TAGTTTGTAAAATTACCAA
105832411 AATACCCCTGGTTTGTA
65 AATACCCCTGGTTTGTA
*
105832428 AAATTACTAAAATACCCTTTGTTTATAAAATTACCAAAATATCCCTGGTTTGTAAAATTACCAAA
1 AAATTACTAAAATACCCTTTGTTTATAAAATTACCAAAATATCCCTAGTTTGTAAAATTACCAAA
105832493 ATACCCCTGGTTTGTA
66 ATACCCCTGGTTTGTA
* * * *
105832509 AAATTA-TCAAAATACCCCTAGTTTGTAAAATTACCAAAATATCCCTAATTTGTAAAATTAC
1 AAATTACT-AAAATACCCTTTGTTTATAAAATTACCAAAATATCCCTAGTTTGTAAAATTAC
105832570 TGAAATTCCC
Statistics
Matches: 132, Mismatches: 8, Indels: 4
0.92 0.06 0.03
Matches are distributed among these distances:
80 1 0.01
81 128 0.97
82 3 0.02
ACGTcount: A:0.41, C:0.18, G:0.07, T:0.35
Consensus pattern (81 bp):
AAATTACTAAAATACCCTTTGTTTATAAAATTACCAAAATATCCCTAGTTTGTAAAATTACCAAA
ATACCCCTGGTTTGTA
Found at i:105832575 original size:27 final size:27
Alignment explanation
Indices: 105832347--105832569 Score: 284
Period size: 27 Copynumber: 8.3 Consensus size: 27
105832337 TTAGTTTACC
* * * * *
105832347 AAATTACTAAAATAACCTTTGTTTATA
1 AAATTACCAAAATACCCCTGGTTTGTA
* * *
105832374 AAATTACCAAAATACCCTTTGTTTATA
1 AAATTACCAAAATACCCCTGGTTTGTA
105832401 AAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* * * *
105832428 AAATTACTAAAATACCCTTTGTTTATA
1 AAATTACCAAAATACCCCTGGTTTGTA
*
105832455 AAATTACCAAAATATCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
105832482 AAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* *
105832509 AAATTATCAAAATACCCCTAGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* **
105832536 AAATTACCAAAATATCCCTAATTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
105832563 AAATTAC
1 AAATTAC
105832570 TGAAATTCCC
Statistics
Matches: 176, Mismatches: 20, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 176 1.00
ACGTcount: A:0.41, C:0.18, G:0.07, T:0.35
Consensus pattern (27 bp):
AAATTACCAAAATACCCCTGGTTTGTA
Found at i:105832590 original size:81 final size:81
Alignment explanation
Indices: 105832367--105832627 Score: 260
Period size: 81 Copynumber: 3.2 Consensus size: 81
105832357 AATAACCTTT
* ** * ***
105832367 GTTTATAAAATTACCAAAATA-CCCTTTGTTTATAAAATTACCAAAATACCCCTGGTTTGTAAAA
1 GTTTGTAAAATTACCAAAATATCCC-TAATTTGTAAAATTACCAAAATACCCCTGACCTGTAAAA
* *
105832431 TTA-CTAAAATACCCTTT
65 TTATC-AAAATACCCCTA
* ** ***
105832448 GTTTATAAAATTACCAAAATATCCCTGGTTTGTAAAATTACCAAAATACCCCTGGTTTGTAAAAT
1 GTTTGTAAAATTACCAAAATATCCCTAATTTGTAAAATTACCAAAATACCCCTGACCTGTAAAAT
105832513 TATCAAAATACCCCTA
66 TATCAAAATACCCCTA
** *
105832529 GTTTGTAAAATTACCAAAATATCCCTAATTTGTAAAATTACTGAAAT-TCCCTCGACCTGTAAAA
1 GTTTGTAAAATTACCAAAATATCCCTAATTTGTAAAATTACCAAAATACCCCT-GACCTGTAAAA
** *
105832593 TTATTGAAATA-CCCTC
65 TTATCAAAATACCCCTA
*
105832609 GACTTGTAAAATTACCAAA
1 G-TTTGTAAAATTACCAAA
105832628 GTACCATTGA
Statistics
Matches: 159, Mismatches: 17, Indels: 8
0.86 0.09 0.04
Matches are distributed among these distances:
80 9 0.06
81 146 0.92
82 4 0.03
ACGTcount: A:0.39, C:0.19, G:0.08, T:0.33
Consensus pattern (81 bp):
GTTTGTAAAATTACCAAAATATCCCTAATTTGTAAAATTACCAAAATACCCCTGACCTGTAAAAT
TATCAAAATACCCCTA
Found at i:105832632 original size:27 final size:27
Alignment explanation
Indices: 105832372--105832632 Score: 221
Period size: 27 Copynumber: 9.7 Consensus size: 27
105832362 CCTTTGTTTA
* *
105832372 TAAAATTACCAAAATACCCTTTG-TTTA
1 TAAAATTACCAAAATACCC-TCGATTTG
*
105832399 TAAAATTACCAAAATACCC-CTGGTTTG
1 TAAAATTACCAAAATACCCTC-GATTTG
* * *
105832426 TAAAATTACTAAAATACCCTTTG-TTTA
1 TAAAATTACCAAAATACCC-TCGATTTG
*
105832453 TAAAATTACCAAAATATCCCT-GGTTTG
1 TAAAATTACCAAAATA-CCCTCGATTTG
*
105832480 TAAAATTACCAAAATACCC-CTGGTTTG
1 TAAAATTACCAAAATACCCTC-GATTTG
* *
105832507 TAAAATTATCAAAATACCC-CTAGTTTG
1 TAAAATTACCAAAATACCCTCGA-TTTG
*
105832534 TAAAATTACCAAAATATCCCT-AATTTG
1 TAAAATTACCAAAATA-CCCTCGATTTG
** * **
105832561 TAAAATTACTGAAATTCCCTCGACCTG
1 TAAAATTACCAAAATACCCTCGATTTG
*** *
105832588 TAAAATTATTGAAATACCCTCGACTTG
1 TAAAATTACCAAAATACCCTCGATTTG
*
105832615 TAAAATTACCAAAGTACC
1 TAAAATTACCAAAATACC
105832633 ATTGATTTAC
Statistics
Matches: 197, Mismatches: 25, Indels: 24
0.80 0.10 0.10
Matches are distributed among these distances:
26 9 0.05
27 180 0.91
28 8 0.04
ACGTcount: A:0.39, C:0.20, G:0.08, T:0.33
Consensus pattern (27 bp):
TAAAATTACCAAAATACCCTCGATTTG
Found at i:105832686 original size:27 final size:27
Alignment explanation
Indices: 105832372--105832688 Score: 182
Period size: 27 Copynumber: 11.7 Consensus size: 27
105832362 CCTTTGTTTA
* * *
105832372 TAAAATTACCAAAATACCCTTTG-TTTA
1 TAAAATTACCGAAATACCC-TCGATTTG
* *
105832399 TAAAATTACCAAAATACCC-CTGGTTTG
1 TAAAATTACCGAAATACCCTC-GATTTG
** * *
105832426 TAAAATTACTAAAATACCCTTTG-TTTA
1 TAAAATTACCGAAATACCC-TCGATTTG
* *
105832453 TAAAATTACCAAAATATCCCT-GGTTTG
1 TAAAATTACCGAAATA-CCCTCGATTTG
* *
105832480 TAAAATTACCAAAATACCC-CTGGTTTG
1 TAAAATTACCGAAATACCCTC-GATTTG
* * *
105832507 TAAAATTATCAAAATACCC-CTAGTTTG
1 TAAAATTACCGAAATACCCTCGA-TTTG
* *
105832534 TAAAATTACCAAAATATCCCT-AATTTG
1 TAAAATTACCGAAATA-CCCTCGATTTG
* * **
105832561 TAAAATTACTGAAATTCCCTCGACCTG
1 TAAAATTACCGAAATACCCTCGATTTG
** *
105832588 TAAAATTATTGAAATACCCTCGACTTG
1 TAAAATTACCGAAATACCCTCGATTTG
* * *
105832615 TAAAATTACC-AAAGTACCATTGATTTA
1 TAAAATTACCGAAA-TACCCTCGATTTG
* * *** * *
105832642 CAGAATTACCGTTTTACCCTCAATTTA
1 TAAAATTACCGAAATACCCTCGATTTG
*
105832669 CAAAATTACCGAAATACCCT
1 TAAAATTACCGAAATACCCT
105832689 TGTAGGGTAG
Statistics
Matches: 237, Mismatches: 39, Indels: 28
0.78 0.13 0.09
Matches are distributed among these distances:
26 12 0.05
27 217 0.92
28 8 0.03
ACGTcount: A:0.39, C:0.21, G:0.08, T:0.33
Consensus pattern (27 bp):
TAAAATTACCGAAATACCCTCGATTTG
Found at i:105832710 original size:27 final size:27
Alignment explanation
Indices: 105832672--105832838 Score: 212
Period size: 27 Copynumber: 6.3 Consensus size: 27
105832662 CAATTTACAA
*
105832672 AATTACCGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * *
105832699 AAATCCCAAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
105832726 AATTATCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
105832753 AATTACCGGAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * * *
105832780 AATTATCGAAGTACCACTGTAGGGTGG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
105832807 AATTACCGAGATA-CCTTGTAGGGTA-
1 AATTACCGAAATACCCCTGTAGGGTAG
105832832 AATTACC
1 AATTACC
105832839 ATTTTGCCCC
Statistics
Matches: 119, Mismatches: 21, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
25 7 0.06
26 9 0.08
27 103 0.87
ACGTcount: A:0.33, C:0.20, G:0.23, T:0.25
Consensus pattern (27 bp):
AATTACCGAAATACCCCTGTAGGGTAG
Found at i:105833316 original size:22 final size:22
Alignment explanation
Indices: 105833264--105833319 Score: 60
Period size: 22 Copynumber: 2.5 Consensus size: 22
105833254 TTAAAGCCTT
* * *
105833264 CTGATTATGGCTTTGTGTCAAC
1 CTGATTATGGCTCTATGGCAAC
*
105833286 CT-ACATATGGCTCTATGGCAAC
1 CTGA-TTATGGCTCTATGGCAAC
105833308 CTGATTATGGCT
1 CTGATTATGGCT
105833320 GTGTGCCAAA
Statistics
Matches: 27, Mismatches: 5, Indels: 4
0.75 0.14 0.11
Matches are distributed among these distances:
21 1 0.04
22 25 0.93
23 1 0.04
ACGTcount: A:0.21, C:0.21, G:0.21, T:0.36
Consensus pattern (22 bp):
CTGATTATGGCTCTATGGCAAC
Found at i:105833515 original size:27 final size:27
Alignment explanation
Indices: 105833485--105833587 Score: 127
Period size: 27 Copynumber: 3.8 Consensus size: 27
105833475 TATTCTGTTA
* *
105833485 AGTGGCTTTGCCACATTATCTGTTTCT
1 AGTGGCTCTGCCACAATATCTGTTTCT
* *
105833512 AGTGGCTATGCCACAAATATTTG-TTCT
1 AGTGGCTCTGCCAC-AATATCTGTTTCT
*
105833539 AGTGGCTCTGCCACAATATCTGTATCT
1 AGTGGCTCTGCCACAATATCTGTTTCT
* *
105833566 AGTGACTCTGTCACAATATCTG
1 AGTGGCTCTGCCACAATATCTG
105833588 ATAACTGAGC
Statistics
Matches: 66, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
26 7 0.11
27 53 0.80
28 6 0.09
ACGTcount: A:0.22, C:0.22, G:0.18, T:0.37
Consensus pattern (27 bp):
AGTGGCTCTGCCACAATATCTGTTTCT
Found at i:105833757 original size:19 final size:19
Alignment explanation
Indices: 105833735--105833792 Score: 58
Period size: 19 Copynumber: 3.4 Consensus size: 19
105833725 TTCTGATTTT
105833735 TGATTCTGTTACCTGATAC
1 TGATTCTGTTACCTGATAC
*
105833754 TGATTCTG--A--T--T-T
1 TGATTCTGTTACCTGATAC
105833766 TGATTCTGTTACCTGATAC
1 TGATTCTGTTACCTGATAC
105833785 TGATTCTG
1 TGATTCTG
105833793 ATTCTGATTC
Statistics
Matches: 30, Mismatches: 2, Indels: 14
0.65 0.04 0.30
Matches are distributed among these distances:
12 8 0.27
13 1 0.03
14 1 0.03
15 1 0.03
16 1 0.03
17 1 0.03
18 1 0.03
19 16 0.53
ACGTcount: A:0.19, C:0.17, G:0.17, T:0.47
Consensus pattern (19 bp):
TGATTCTGTTACCTGATAC
Found at i:105833762 original size:6 final size:6
Alignment explanation
Indices: 105833724--105833834 Score: 75
Period size: 6 Copynumber: 17.8 Consensus size: 6
105833714 TTGCATTCAC
* * *
105833724 ATTCTG ATTTTTG ATTCTG -TTACCTG ATACTG ATTCTG ATTTTG ATTCTG
1 ATTCTG A-TTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG ATTCTG
* * *
105833774 -TTACCTG ATACTG ATTCTG ATTCTG ATTCTG -TCACCTA ATTCTG ATTCTG
1 ATT--CTG ATTCTG ATTCTG ATTCTG ATTCTG AT--TCTG ATTCTG ATTCTG
*
105833824 ATTTTG ATTCT
1 ATTCTG ATTCT
105833835 AGTTTTGATA
Statistics
Matches: 81, Mismatches: 14, Indels: 20
0.70 0.12 0.17
Matches are distributed among these distances:
5 5 0.06
6 60 0.74
7 13 0.16
8 3 0.04
ACGTcount: A:0.19, C:0.17, G:0.14, T:0.50
Consensus pattern (6 bp):
ATTCTG
Found at i:105833770 original size:31 final size:31
Alignment explanation
Indices: 105833724--105833834 Score: 177
Period size: 31 Copynumber: 3.5 Consensus size: 31
105833714 TTGCATTCAC
105833724 ATTCTGATTTTTGATTCTGTTACCTGATACTG
1 ATTCTGA-TTTTGATTCTGTTACCTGATACTG
105833756 ATTCTGATTTTGATTCTGTTACCTGATACTG
1 ATTCTGATTTTGATTCTGTTACCTGATACTG
* * * *
105833787 ATTCTGATTCTGATTCTGTCACCTAATTCTG
1 ATTCTGATTTTGATTCTGTTACCTGATACTG
105833818 ATTCTGATTTTGATTCT
1 ATTCTGATTTTGATTCT
105833835 AGTTTTGATA
Statistics
Matches: 74, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
31 67 0.91
32 7 0.09
ACGTcount: A:0.19, C:0.17, G:0.14, T:0.50
Consensus pattern (31 bp):
ATTCTGATTTTGATTCTGTTACCTGATACTG
Found at i:105835312 original size:60 final size:59
Alignment explanation
Indices: 105835222--105835364 Score: 148
Period size: 60 Copynumber: 2.4 Consensus size: 59
105835212 ATCAAAGTTA
* * * * *
105835222 ACTGGGCCTTAACCCATATCAATATTAATCTGGGCCATAGCCCCT-TAC-AGTAAC-AGAGTAT
1 ACTGGGCC-TAGCCCATATCAGTATCAATCTAGGCCATA-ACCCTATACAAGT--CGAGA-TAT
*
105835283 ACTGGGCCTAGCCCATATCAGTATCAATCTAGGCCGTAACCCTATACAAGTCGAGATAT
1 ACTGGGCCTAGCCCATATCAGTATCAATCTAGGCCATAACCCTATACAAGTCGAGATAT
* *
105835342 ATTGGGCCTTGCCCATATCAGTA
1 ACTGGGCCTAGCCCATATCAGTA
105835365 CAGTTGGTCC
Statistics
Matches: 71, Mismatches: 8, Indels: 8
0.82 0.09 0.09
Matches are distributed among these distances:
59 29 0.41
60 31 0.44
61 11 0.15
ACGTcount: A:0.29, C:0.27, G:0.18, T:0.26
Consensus pattern (59 bp):
ACTGGGCCTAGCCCATATCAGTATCAATCTAGGCCATAACCCTATACAAGTCGAGATAT
Found at i:105853095 original size:18 final size:18
Alignment explanation
Indices: 105853072--105853116 Score: 63
Period size: 18 Copynumber: 2.5 Consensus size: 18
105853062 ACCGCACAGT
105853072 AAAAAAAATTGAAAAAGA
1 AAAAAAAATTGAAAAAGA
** *
105853090 AAAAAAAGCTGAAAACGA
1 AAAAAAAATTGAAAAAGA
105853108 AAAAAAAAT
1 AAAAAAAAT
105853117 AAAATATTGG
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.76, C:0.04, G:0.11, T:0.09
Consensus pattern (18 bp):
AAAAAAAATTGAAAAAGA
Found at i:105853177 original size:27 final size:27
Alignment explanation
Indices: 105853139--105853220 Score: 164
Period size: 27 Copynumber: 3.0 Consensus size: 27
105853129 ATGTGGGTGC
105853139 CAGAGGCGGCACCAGTGTTGCCTCTGG
1 CAGAGGCGGCACCAGTGTTGCCTCTGG
105853166 CAGAGGCGGCACCAGTGTTGCCTCTGG
1 CAGAGGCGGCACCAGTGTTGCCTCTGG
105853193 CAGAGGCGGCACCAGTGTTGCCTCTGG
1 CAGAGGCGGCACCAGTGTTGCCTCTGG
105853220 C
1 C
105853221 GGCACCAGTT
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 55 1.00
ACGTcount: A:0.15, C:0.30, G:0.37, T:0.18
Consensus pattern (27 bp):
CAGAGGCGGCACCAGTGTTGCCTCTGG
Found at i:105853223 original size:21 final size:22
Alignment explanation
Indices: 105853143--105853229 Score: 77
Period size: 27 Copynumber: 3.5 Consensus size: 22
105853133 GGGTGCCAGA
105853143 GGCGGCACCAGTGTTGCCTCTGGCAG
1 GGCGGCACCAGTGTTGCCTCT----G
105853169 AGGCGGCACCAGTGTTGCCTCTGGCAG
1 -GGCGGCACCAGTGTTGCCTCT----G
105853196 AGGCGGCACCAGTGTTGCCTCT-
1 -GGCGGCACCAGTGTTGCCTCTG
105853218 GGCGGCACCAGT
1 GGCGGCACCAGT
105853230 TGTGTGGGTC
Statistics
Matches: 60, Mismatches: 0, Indels: 6
0.91 0.00 0.09
Matches are distributed among these distances:
21 12 0.20
27 48 0.80
ACGTcount: A:0.14, C:0.31, G:0.37, T:0.18
Consensus pattern (22 bp):
GGCGGCACCAGTGTTGCCTCTG
Found at i:105853478 original size:23 final size:23
Alignment explanation
Indices: 105853452--105853516 Score: 69
Period size: 26 Copynumber: 2.7 Consensus size: 23
105853442 TGTTGTCAGT
105853452 TATTAATATTGTTAGTAAAAAAA
1 TATTAATATTGTTAGTAAAAAAA
* *
105853475 TATTGTTATTATTGTTAGTAAAAAAC
1 TA---TTAATATTGTTAGTAAAAAAA
105853501 TA-TAATTATTGTTAGT
1 TATTAA-TATTGTTAGT
105853517 TATTATTATT
Statistics
Matches: 35, Mismatches: 3, Indels: 8
0.76 0.07 0.17
Matches are distributed among these distances:
22 2 0.06
23 12 0.34
26 21 0.60
ACGTcount: A:0.42, C:0.02, G:0.11, T:0.46
Consensus pattern (23 bp):
TATTAATATTGTTAGTAAAAAAA
Found at i:105853509 original size:26 final size:26
Alignment explanation
Indices: 105853453--105853510 Score: 80
Period size: 26 Copynumber: 2.2 Consensus size: 26
105853443 GTTGTCAGTT
* *
105853453 ATTAATATTGTTAGTAAAAAAATATT
1 ATTATTATTGTTAGTAAAAAAATATA
* *
105853479 GTTATTATTGTTAGTAAAAAACTATA
1 ATTATTATTGTTAGTAAAAAAATATA
105853505 ATTATT
1 ATTATT
105853511 GTTAGTTATT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.45, C:0.02, G:0.09, T:0.45
Consensus pattern (26 bp):
ATTATTATTGTTAGTAAAAAAATATA
Found at i:105857593 original size:72 final size:72
Alignment explanation
Indices: 105857476--105857616 Score: 221
Period size: 72 Copynumber: 2.0 Consensus size: 72
105857466 GCCCCCCGAT
* *
105857476 GAGCCCAGGAAATTGTCATTGCCCGCAAAATCCGGATGATAAGAAGTATCAGCCGAATGTGAATG
1 GAGCCCAGGAAATAGTCATTGCCCGCAAAATCCAGATGATAAGAAGTATCAGCCGAATGTGAATG
105857541 CGATGAC
66 CGATGAC
* * *
105857548 GAGCCC-GAGAAATAGTCATTGCCTGCCAAATCCAGATGATAAGAAGTATCAGTCGAATGTGAAT
1 GAGCCCAG-GAAATAGTCATTGCCCGCAAAATCCAGATGATAAGAAGTATCAGCCGAATGTGAAT
105857612 GCGAT
65 GCGAT
105857617 CGCTCGGACT
Statistics
Matches: 63, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
71 1 0.02
72 62 0.98
ACGTcount: A:0.34, C:0.20, G:0.26, T:0.21
Consensus pattern (72 bp):
GAGCCCAGGAAATAGTCATTGCCCGCAAAATCCAGATGATAAGAAGTATCAGCCGAATGTGAATG
CGATGAC
Found at i:105860007 original size:146 final size:145
Alignment explanation
Indices: 105859487--105860551 Score: 1079
Period size: 146 Copynumber: 7.1 Consensus size: 145
105859477 ATAAGTAAAA
* * * * * *
105859487 TATTTTCGTATATTAATTTTTTATATTATTTTAGCA-AAAATGTTTTAAATGTATTATGTAAGTA
1 TATTTTCGTATTTTATTTTTTTATATTATTTTAGTACATAATGTTTCAAATGTATTAT-TTA-TA
** *
105859551 TTTTTTTATATTAATTTAATAAATAACACTGATTTT-GACACTTT-TTCGTATTTTTTATTTTCG
64 TTTTTTTATATTTTTTTAATAAATAACCCTGATTTTAG-CACTTTATTCGTA---TTT-TTTTCG
*
105859614 TATCTTATTTTTTAAAATATAT
124 TATATTATTTTTTAAAATATAT
* * * * *
105859636 TACTTTCGTATTATT-TTATTTTAAAACCCTTATTTTAGTACATAATGTTTTAAATGTGTTATTT
1 TATTTTCGTATT-TTATT-TTTTTATA---TTATTTTAGTACATAATGTTTCAAATGTATTATTT
* *
105859700 A-AGTATTTTTAATATTTTTTTAATAAATAA-CCTGATTTTAGCACTTTATTTGTA-TTTTTTCG
61 ATA-T-TTTTTTATATTTTTTTAATAAATAACCCTGATTTTAGCACTTTATTCGTATTTTTTTCG
*
105859762 TATCTT-TTTTTT-AAATATAT
124 TATATTATTTTTTAAAATATAT
* * *
105859782 TATTTTCGCATTTTATTTCTTTATATTATTTTAGTACATTATGTTTTCAAATGTATTATTTA-AG
1 TATTTTCGTATTTTATTTTTTTATATTATTTTAGTACATAATG-TTTCAAATGTATTATTTATA-
105859846 TGTTTTTTATATTTTTTTAATAAATAACCCTGATTTTAGCACTTTATTCGTA-TTTTTTCGTATA
64 T-TTTTTTATATTTTTTTAATAAATAACCCTGATTTTAGCACTTTATTCGTATTTTTTTCGTATA
105859910 TTATTTTTTAAAATATAT
128 TTATTTTTTAAAATATAT
* * * * *
105859928 TATTTTCCTATTTTATTTTTTTATTTTATTTTAGCAAAAAATGTTTCAAATGTATTAGGTATATT
1 TATTTTCGTATTTTATTTTTTTATATTATTTTAGTACATAATGTTTCAAATGTA-T---TAT-TT
* ** *
105859993 ATGTAAGTGTTTTTTTATACTAATTTAATAAATAACCCTGATTTT-GACACTTTCTTCGTA-TTT
61 A--T-A---TTTTTTTATATTTTTTTAATAAATAACCCTGATTTTAG-CACTTTATTCGTATTTT
*
105860056 TTTCGTATCTTATTTTTTAAAATATAT
119 TTTCGTATATTATTTTTTAAAATATAT
* * *
105860083 TATTTTCCTATTTTATTTCTTCATATTATTTTAGTACATAATGTTTCAAATGTATTATTTA-AGT
1 TATTTTCGTATTTTATTTTTTTATATTATTTTAGTACATAATGTTTCAAATGTATTATTTATA-T
* *
105860147 ATTTTTTATATTTTTTCAATAAATATCCCTGATTTTAGCACTTTATTCGTATTTTTTTCGTATAT
65 -TTTTTTATATTTTTTTAATAAATAACCCTGATTTTAGCACTTTATTCGTATTTTTTTCGTATAT
105860212 TATTTTTTAAAATATAT
129 TATTTTTTAAAATATAT
* * * *** *
105860229 TATTTTCTTATTTTA-TTTTTTATATTATTTTAGCA-AAAAAAATTCAAATGTATTAATTA-ACT
1 TATTTTCGTATTTTATTTTTTTATATTATTTTAGTACATAATGTTTCAAATGTATTATTTATA-T
* * * *
105860291 GTTTCTATATATTAAGGGGTTTTTTACTAAATAACCCTGATTTT-GATACTTTCTTCGTAATTTT
65 -TTT-T-T-TA-T-A---TTTTTTTAATAAATAACCCTGATTTTAG-CACTTTATTCGT-A----
105860355 TTTATTTTCGTATATTATTTTTTAAAATATAT
115 TTT-TTTTCGTATATTATTTTTTAAAATATAT
* *
105860387 TATTTTCGTATTTTATTTCTTTATATTATTTTAGTACATAATGCTTCAAATGTATTATTTA-AGT
1 TATTTTCGTATTTTATTTTTTTATATTATTTTAGTACATAATGTTTCAAATGTATTATTTATA-T
*
105860451 GTTTTTTATATTTTTTTAATAAATAACCCTGATTTTAGCACTTTATTCATATTTTTTTCGTATAT
65 -TTTTTTATATTTTTTTAATAAATAACCCTGATTTTAGCACTTTATTCGTATTTTTTTCGTATAT
105860516 TATTTTTTAAAATATAT
129 TATTTTTTAAAATATAT
* *
105860533 TATGTTGGTATTTTATTTT
1 TATTTTCGTATTTTATTTT
105860552 AGCATGAAAT
Statistics
Matches: 782, Mismatches: 86, Indels: 99
0.81 0.09 0.10
Matches are distributed among these distances:
142 17 0.02
143 43 0.05
144 62 0.08
145 84 0.11
146 154 0.20
147 11 0.01
148 13 0.02
149 17 0.02
150 14 0.02
151 6 0.01
152 80 0.10
153 42 0.05
154 22 0.03
155 122 0.16
156 3 0.00
157 5 0.01
158 43 0.05
159 19 0.02
160 25 0.03
ACGTcount: A:0.29, C:0.08, G:0.07, T:0.56
Consensus pattern (145 bp):
TATTTTCGTATTTTATTTTTTTATATTATTTTAGTACATAATGTTTCAAATGTATTATTTATATT
TTTTTATATTTTTTTAATAAATAACCCTGATTTTAGCACTTTATTCGTATTTTTTTCGTATATTA
TTTTTTAAAATATAT
Found at i:105860256 original size:12 final size:13
Alignment explanation
Indices: 105860224--105860259 Score: 56
Period size: 12 Copynumber: 2.8 Consensus size: 13
105860214 TTTTTTAAAA
105860224 TATATTATTTTCT
1 TATATTATTTTCT
*
105860237 TATTTTATTTT-T
1 TATATTATTTTCT
105860249 TATATTATTTT
1 TATATTATTTT
105860260 AGCAAAAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
12 11 0.52
13 10 0.48
ACGTcount: A:0.22, C:0.03, G:0.00, T:0.75
Consensus pattern (13 bp):
TATATTATTTTCT
Found at i:105860446 original size:304 final size:296
Alignment explanation
Indices: 105859487--105860551 Score: 1220
Period size: 304 Copynumber: 3.6 Consensus size: 296
105859477 ATAAGTAAAA
* * * * *
105859487 TATTTTCGTATATTAATTT-TTTATATTATTTTAGCA-AAAATGTTTTAAATGTATTATGTAAGT
1 TATTTTCGTAT-TTTATTTCTTTATATTATTTTAGTACATAATGTTTCAAATGTATTATTTAAGT
* ** *
105859550 ATTTTTTTATATTAATTTAATAAATAACACTGATTTT-GACACTTT-TTCGTATTTTTTATTTTC
65 -GTTTTTTATATTTTTTTAATAAATAACCCTGATTTTAG-CACTTTATTCGTA---TTT-TTTTC
* * * * * *
105859613 GTATCTTATTTTTTAAAATATATTACTTTCGTATTATT-TTATTTTAAAACCCTTATTTTAGTAC
124 GTATATTATTTTTTAAAATATATTATTTTCCTATT-TTATT-TTTT-ATA---TTATTTTAGCAA
* ** * * * * * **
105859677 ATAATGTTTTAAATG-T-GT-TAT-T-TAAGTATTTTTA-ATATTTTTTTAATAAATAA-CCTGA
183 AAAATAATTCAAATGTTAGTATATATGTAACTGTTTCTATATACTAATTTAATAAATAACCCTGA
* *
105859735 TTTT-AGCACTTTATTTGTATTTTTTCGTATCTT-TTTTTT-AAATATAT
248 TTTTGA-CACTTTCTTCGTATTTTTTCGTATCTTATTTTTTAAAATATAT
* *
105859782 TATTTTCGCATTTTATTTCTTTATATTATTTTAGTACATTATGTTTTCAAATGTATTATTTAAGT
1 TATTTTCGTATTTTATTTCTTTATATTATTTTAGTACATAATG-TTTCAAATGTATTATTTAAGT
105859847 GTTTTTTATATTTTTTTAATAAATAACCCTGATTTTAGCACTTTATTCGTA-TTTTTTCGTATAT
65 GTTTTTTATATTTTTTTAATAAATAACCCTGATTTTAGCACTTTATTCGTATTTTTTTCGTATAT
* **
105859911 TATTTTTTAAAATATATTATTTTCCTATTTTATTTTTTTATTTTATTTTAGCAAAAAATGTTTCA
130 TATTTTTTAAAATATATTATTTTCCTATTTTA-TTTTTTATATTATTTTAGCAAAAAATAATTCA
* * *
105859976 AATGTATTAGGTATATTATGTAAGTGTTTTTTTATACTAATTTAATAAATAACCCTGATTTTGAC
194 AATG--TTA-GTATA-TATGTAACTGTTTCTATATACTAATTTAATAAATAACCCTGATTTTGAC
105860041 ACTTTCTTCGTATTTTTTCGTATCTTATTTTTTAAAATATAT
255 ACTTTCTTCGTATTTTTTCGTATCTTATTTTTTAAAATATAT
* * *
105860083 TATTTTCCTATTTTATTTCTTCATATTATTTTAGTACATAATGTTTCAAATGTATTATTTAAGTA
1 TATTTTCGTATTTTATTTCTTTATATTATTTTAGTACATAATGTTTCAAATGTATTATTTAAGTG
* *
105860148 TTTTTTATATTTTTTCAATAAATATCCCTGATTTTAGCACTTTATTCGTATTTTTTTCGTATATT
66 TTTTTTATATTTTTTTAATAAATAACCCTGATTTTAGCACTTTATTCGTATTTTTTTCGTATATT
*
105860213 ATTTTTTAAAATATATTATTTTCTTATTTTATTTTTTATATTATTTTAGCAAAAAA-AATTCAAA
131 ATTTTTTAAAATATATTATTTTCCTATTTTATTTTTTATATTATTTTAGCAAAAAATAATTCAAA
* *
105860277 TG-TA-T-TA-AT-TAACTGTTTCTATATATTAAGGGGTTTTTTACTAAATAACCCTGATTTTGA
196 TGTTAGTATATATGTAACTGTTTCTATATACTAA-------TTTAATAAATAACCCTGATTTTGA
* *
105860337 TACTTTCTTCGTAATTTTTTTATTTTCGTATATTATTTTTTAAAATATAT
254 CACTTTCTTCGT-A-----TT-TTTTCGTATCTTATTTTTTAAAATATAT
*
105860387 TATTTTCGTATTTTATTTCTTTATATTATTTTAGTACATAATGCTTCAAATGTATTATTTAAGTG
1 TATTTTCGTATTTTATTTCTTTATATTATTTTAGTACATAATGTTTCAAATGTATTATTTAAGTG
*
105860452 TTTTTTATATTTTTTTAATAAATAACCCTGATTTTAGCACTTTATTCATATTTTTTTCGTATATT
66 TTTTTTATATTTTTTTAATAAATAACCCTGATTTTAGCACTTTATTCGTATTTTTTTCGTATATT
* **
105860517 ATTTTTTAAAATATATTATGTTGGTATTTTATTTT
131 ATTTTTTAAAATATATTATTTTCCTATTTTATTTT
105860552 AGCATGAAAT
Statistics
Matches: 679, Mismatches: 55, Indels: 63
0.85 0.07 0.08
Matches are distributed among these distances:
288 23 0.03
290 16 0.02
291 6 0.01
292 41 0.06
293 8 0.01
294 9 0.01
295 27 0.04
296 45 0.07
297 70 0.10
298 17 0.03
299 42 0.06
300 100 0.15
301 91 0.13
303 2 0.00
304 182 0.27
ACGTcount: A:0.29, C:0.08, G:0.07, T:0.56
Consensus pattern (296 bp):
TATTTTCGTATTTTATTTCTTTATATTATTTTAGTACATAATGTTTCAAATGTATTATTTAAGTG
TTTTTTATATTTTTTTAATAAATAACCCTGATTTTAGCACTTTATTCGTATTTTTTTCGTATATT
ATTTTTTAAAATATATTATTTTCCTATTTTATTTTTTATATTATTTTAGCAAAAAATAATTCAAA
TGTTAGTATATATGTAACTGTTTCTATATACTAATTTAATAAATAACCCTGATTTTGACACTTTC
TTCGTATTTTTTCGTATCTTATTTTTTAAAATATAT
Found at i:105860675 original size:30 final size:31
Alignment explanation
Indices: 105860639--105860697 Score: 102
Period size: 30 Copynumber: 1.9 Consensus size: 31
105860629 CGTATTTTTT
105860639 TATTTTCAGATTTTATTTTTTTA-ATTATAC
1 TATTTTCAGATTTTATTTTTTTATATTATAC
*
105860669 TATTTTCATATTTTATTTTTTTATATTAT
1 TATTTTCAGATTTTATTTTTTTATATTAT
105860698 TTTAACAAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
30 22 0.81
31 5 0.19
ACGTcount: A:0.25, C:0.05, G:0.02, T:0.68
Consensus pattern (31 bp):
TATTTTCAGATTTTATTTTTTTATATTATAC
Found at i:105861154 original size:14 final size:14
Alignment explanation
Indices: 105861135--105861197 Score: 58
Period size: 14 Copynumber: 4.4 Consensus size: 14
105861125 AAAAAATTAC
105861135 CTTTTTCTTTCCTT
1 CTTTTTCTTTCCTT
* *
105861149 CTTTTTCCTTCCCT
1 CTTTTTCTTTCCTT
*
105861163 CTTCTTCTTCTCCTTCT
1 CTTTTTCTT-TCC-T-T
105861180 CTTTTTCTTT--TT
1 CTTTTTCTTTCCTT
105861192 CTTTTT
1 CTTTTT
105861198 TCTTCTCTCA
Statistics
Matches: 40, Mismatches: 6, Indels: 8
0.74 0.11 0.15
Matches are distributed among these distances:
12 7 0.17
13 1 0.03
14 19 0.47
15 3 0.08
16 1 0.03
17 9 0.22
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (14 bp):
CTTTTTCTTTCCTT
Found at i:105861168 original size:17 final size:18
Alignment explanation
Indices: 105861146--105861192 Score: 51
Period size: 19 Copynumber: 2.6 Consensus size: 18
105861136 TTTTTCTTTC
105861146 CTTCTTTTTCCTTC-CCT
1 CTTCTTTTTCCTTCTCCT
*
105861163 CTTCTTCTTCTCCTTCTCTT
1 CTTCTT-TT-TCCTTCTCCT
*
105861183 TTTCTTTTTC
1 CTTCTTTTTC
105861193 TTTTTTCTTC
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
17 6 0.24
18 4 0.16
19 8 0.32
20 7 0.28
ACGTcount: A:0.00, C:0.36, G:0.00, T:0.64
Consensus pattern (18 bp):
CTTCTTTTTCCTTCTCCT
Found at i:105861250 original size:27 final size:26
Alignment explanation
Indices: 105861220--105861287 Score: 72
Period size: 22 Copynumber: 2.7 Consensus size: 26
105861210 CGCCGGCCTC
105861220 CTTCTCCTCCTCTCCTTCTTTTTCTTT
1 CTTCTCCT-CTCTCCTTCTTTTTCTTT
*
105861247 CTTCTTCT-TCT-CTTC--TTTCTTT
1 CTTCTCCTCTCTCCTTCTTTTTCTTT
* *
105861269 CTTCTCTTCTTTCCTTCTT
1 CTTCTCCTCTCTCCTTCTT
105861288 CTCTCTTTTT
Statistics
Matches: 33, Mismatches: 4, Indels: 9
0.72 0.09 0.20
Matches are distributed among these distances:
22 13 0.39
23 2 0.06
24 8 0.24
25 3 0.09
27 7 0.21
ACGTcount: A:0.00, C:0.37, G:0.00, T:0.63
Consensus pattern (26 bp):
CTTCTCCTCTCTCCTTCTTTTTCTTT
Found at i:105861253 original size:3 final size:3
Alignment explanation
Indices: 105861234--105861309 Score: 68
Period size: 3 Copynumber: 25.0 Consensus size: 3
105861224 TCCTCCTCTC
*
105861234 CTT CTT TTT CTTT CTT CTT CTT C-T CTT CTTT CTTT CTT C-T CTT CTT
1 CTT CTT CTT C-TT CTT CTT CTT CTT CTT C-TT C-TT CTT CTT CTT CTT
* *
105861280 -TC CTT CTT CTCT CTT TTT CTT CTT CTT CTT
1 CTT CTT CTT CT-T CTT CTT CTT CTT CTT CTT
105861310 TGCCGAAAAT
Statistics
Matches: 61, Mismatches: 6, Indels: 12
0.77 0.08 0.15
Matches are distributed among these distances:
2 5 0.08
3 43 0.70
4 13 0.21
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
CTT
Found at i:105861255 original size:16 final size:16
Alignment explanation
Indices: 105861234--105861310 Score: 75
Period size: 16 Copynumber: 4.4 Consensus size: 16
105861224 TCCTCCTCTC
105861234 CTTCTTTTTCTTTCTT
1 CTTCTTTTTCTTTCTT
105861250 CTTCTTCTCTTCTTTCTTT
1 CTTCTT-T-TTCTTTC-TT
*
105861269 CTTCTCTTCTTTCCTTCTT
1 C-T-TCTT-TTTCTTTCTT
105861288 CTCTCTTTTTC-TTCTT
1 CT-TCTTTTTCTTTCTT
105861304 CTTCTTT
1 CTTCTTT
105861311 GCCGAAAATG
Statistics
Matches: 55, Mismatches: 1, Indels: 11
0.82 0.01 0.16
Matches are distributed among these distances:
15 5 0.09
16 13 0.24
17 5 0.09
18 13 0.24
19 6 0.11
20 7 0.13
21 6 0.11
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (16 bp):
CTTCTTTTTCTTTCTT
Found at i:105861262 original size:8 final size:8
Alignment explanation
Indices: 105861249--105861309 Score: 60
Period size: 8 Copynumber: 7.9 Consensus size: 8
105861239 TTTTCTTTCT
105861249 TCTTCTTC
1 TCTTCTTC
105861257 TCTTCTT-
1 TCTTCTTC
105861264 TCTTTCTTC
1 TC-TTCTTC
105861273 TCTTCTT-
1 TCTTCTTC
105861280 TCCTTCTTC
1 T-CTTCTTC
105861289 TC-TCTT-
1 TCTTCTTC
105861295 T-TTCTTC
1 TCTTCTTC
105861302 TTCTTCTT
1 -TCTTCTT
105861310 TGCCGAAAAT
Statistics
Matches: 45, Mismatches: 0, Indels: 15
0.75 0.00 0.25
Matches are distributed among these distances:
6 5 0.11
7 7 0.16
8 25 0.56
9 8 0.18
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (8 bp):
TCTTCTTC
Found at i:105861288 original size:27 final size:27
Alignment explanation
Indices: 105861232--105861306 Score: 83
Period size: 27 Copynumber: 3.0 Consensus size: 27
105861222 TCTCCTCCTC
105861232 TCCTTCTT-TTTCTTTC-T-TCTTC-T
1 TCCTTCTTCTTTCTTTCTTCTCTTCTT
105861255 T-C-TCTTCTTTCTTTCTTCTCTTCTT
1 TCCTTCTTCTTTCTTTCTTCTCTTCTT
*
105861280 TCCTTCTTCTCTCTTT-TTCTTCTTCTT
1 TCCTTCTTCTTTCTTTCTTC-TCTTCTT
105861307 CTTTGCCGAA
Statistics
Matches: 44, Mismatches: 1, Indels: 10
0.80 0.02 0.18
Matches are distributed among these distances:
21 4 0.09
22 9 0.20
23 2 0.05
24 5 0.11
25 2 0.05
26 4 0.09
27 18 0.41
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (27 bp):
TCCTTCTTCTTTCTTTCTTCTCTTCTT
Found at i:105864911 original size:35 final size:34
Alignment explanation
Indices: 105864879--105865033 Score: 211
Period size: 35 Copynumber: 4.5 Consensus size: 34
105864869 TAATATGGTT
* * * *
105864879 AATACCATACCTATGTTTCACAACTCGGTATGGAA
1 AATACCATACCTACGTATCATAGCTCGGTATGG-A
* *
105864914 AATATCATACCTACGTATTATAGCTCGGTATGGA
1 AATACCATACCTACGTATCATAGCTCGGTATGGA
* *
105864948 AGATACCATACCTACATATCATAGCTCAGTATGGA
1 A-ATACCATACCTACGTATCATAGCTCGGTATGGA
105864983 AATACCATACCTACGTATCATAGCTCGGTATGGA
1 AATACCATACCTACGTATCATAGCTCGGTATGGA
105865017 TAATACCATACCTACGT
1 -AATACCATACCTACGT
105865034 GCCATAAATT
Statistics
Matches: 106, Mismatches: 12, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
34 33 0.31
35 73 0.69
ACGTcount: A:0.34, C:0.23, G:0.15, T:0.28
Consensus pattern (34 bp):
AATACCATACCTACGTATCATAGCTCGGTATGGA
Found at i:105872264 original size:3 final size:3
Alignment explanation
Indices: 105872256--105872283 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
105872246 GTACCATGTG
105872256 TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA T
105872284 CAGTCATTCA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:105874373 original size:23 final size:23
Alignment explanation
Indices: 105874347--105874394 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 23
105874337 AAGTAAGAAA
* *
105874347 AGGGAAGCGTACAGGAGAATGAG
1 AGGGAACCGTACAGGAGAAAGAG
* *
105874370 AGGGAACCTTATAGGAGAAAGAG
1 AGGGAACCGTACAGGAGAAAGAG
105874393 AG
1 AG
105874395 ATTTTTTGTG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.42, C:0.08, G:0.40, T:0.10
Consensus pattern (23 bp):
AGGGAACCGTACAGGAGAAAGAG
Found at i:105878645 original size:88 final size:88
Alignment explanation
Indices: 105878496--105878672 Score: 318
Period size: 88 Copynumber: 2.0 Consensus size: 88
105878486 CATTTCCTCT
* *
105878496 GTCTCCTACTAAAAGACTTTAGTAGGTTATGAAATAGATACTATGGTATCTTTTGAAAATTGTTG
1 GTCTCCTACTAAAAGACTTTAGTAGATTATGAAATAGATACTATGGTATCTTTTGAAAATTGTTA
105878561 ACATTAGTTTAGTCTTTGAACAA
66 ACATTAGTTTAGTCTTTGAACAA
* *
105878584 GTCTCCTACTAAAAGACTTTAGTAGATTATGAAATAGATTCTGTGGTATCTTTTGAAAATTGTTA
1 GTCTCCTACTAAAAGACTTTAGTAGATTATGAAATAGATACTATGGTATCTTTTGAAAATTGTTA
105878649 ACATTAGTTTAGTCTTTGAACAA
66 ACATTAGTTTAGTCTTTGAACAA
105878672 G
1 G
105878673 ATAAAACACT
Statistics
Matches: 85, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
88 85 1.00
ACGTcount: A:0.33, C:0.11, G:0.17, T:0.39
Consensus pattern (88 bp):
GTCTCCTACTAAAAGACTTTAGTAGATTATGAAATAGATACTATGGTATCTTTTGAAAATTGTTA
ACATTAGTTTAGTCTTTGAACAA
Found at i:105882114 original size:26 final size:28
Alignment explanation
Indices: 105882085--105882138 Score: 76
Period size: 26 Copynumber: 2.0 Consensus size: 28
105882075 GGGATGATAA
* *
105882085 TAATTTTTTTATAAA-A-TTATTTTTAT
1 TAATTTATGTATAAATATTTATTTTTAT
105882111 TAATTTATGTATAAATATTTATTTTTAT
1 TAATTTATGTATAAATATTTATTTTTAT
105882139 ATTTTTAAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
26 13 0.54
27 1 0.04
28 10 0.42
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (28 bp):
TAATTTATGTATAAATATTTATTTTTAT
Found at i:105884370 original size:14 final size:15
Alignment explanation
Indices: 105884341--105884375 Score: 54
Period size: 14 Copynumber: 2.4 Consensus size: 15
105884331 ATATGCTATG
105884341 GAATGAGTCTAATAT
1 GAATGAGTCTAATAT
105884356 GAATGAGTC-AATAT
1 GAATGAGTCTAATAT
*
105884370 GTATGA
1 GAATGA
105884376 TGATTTTGTG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 10 0.53
15 9 0.47
ACGTcount: A:0.40, C:0.06, G:0.23, T:0.31
Consensus pattern (15 bp):
GAATGAGTCTAATAT
Found at i:105884678 original size:28 final size:27
Alignment explanation
Indices: 105884647--105884732 Score: 68
Period size: 28 Copynumber: 3.1 Consensus size: 27
105884637 GAAAAAATGT
*
105884647 CTTTATGGCGAACCTCT-AAAAGGAAAGC
1 CTTTATGACG-ACCTCTGAAAAGG-AAGC
* *
105884675 CTTTGTGACGACCTCTGAAATGGAAGC
1 CTTTATGACGACCTCTGAAAAGGAAGC
* * *
105884702 CTTTGTTG-CGATCTCTGATGAAGGAAGC
1 CTTT-ATGACGACCTCTGA-AAAGGAAGC
105884730 CTT
1 CTT
105884733 CATGGCAACC
Statistics
Matches: 48, Mismatches: 7, Indels: 6
0.79 0.11 0.10
Matches are distributed among these distances:
27 23 0.48
28 25 0.52
ACGTcount: A:0.27, C:0.21, G:0.24, T:0.28
Consensus pattern (27 bp):
CTTTATGACGACCTCTGAAAAGGAAGC
Found at i:105884717 original size:27 final size:27
Alignment explanation
Indices: 105884658--105884732 Score: 75
Period size: 27 Copynumber: 2.7 Consensus size: 27
105884648 TTTATGGCGA
*
105884658 ACCTCT-AAAAGGAAAGCCTTTGTGACG
1 ACCTCTGAGAAGG-AAGCCTTTGTGACG
105884685 ACCTCTGA-AATGGAAGCCTTTGTTG-CG
1 ACCTCTGAGAA-GGAAGCCTTTG-TGACG
*
105884712 ATCTCTGATGAAGGAAGCCTT
1 ACCTCTGA-GAAGGAAGCCTT
105884733 CATGGCAACC
Statistics
Matches: 42, Mismatches: 1, Indels: 9
0.81 0.02 0.17
Matches are distributed among these distances:
27 26 0.62
28 14 0.33
29 2 0.05
ACGTcount: A:0.28, C:0.21, G:0.24, T:0.27
Consensus pattern (27 bp):
ACCTCTGAGAAGGAAGCCTTTGTGACG
Found at i:105893281 original size:16 final size:16
Alignment explanation
Indices: 105893235--105893282 Score: 53
Period size: 16 Copynumber: 3.0 Consensus size: 16
105893225 AAATATATAT
* *
105893235 ATGTATATAT-ATAAA
1 ATGTAAATATAATGAA
*
105893250 ATGTAATATGTAATGAA
1 ATGTAA-ATATAATGAA
105893267 ATGTAAATATAATGAA
1 ATGTAAATATAATGAA
105893283 GGATAATATA
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
15 5 0.19
16 12 0.44
17 10 0.37
ACGTcount: A:0.52, C:0.00, G:0.12, T:0.35
Consensus pattern (16 bp):
ATGTAAATATAATGAA
Found at i:105893391 original size:16 final size:15
Alignment explanation
Indices: 105893345--105893402 Score: 66
Period size: 16 Copynumber: 3.9 Consensus size: 15
105893335 TAATTTTTTA
*
105893345 AAAAATAATATATAT
1 AAAAATAATATAAAT
105893360 -AAAAT-ATATAAAT
1 AAAAATAATATAAAT
* *
105893373 AAATATAATTATAAGT
1 AAAAATAA-TATAAAT
105893389 AAAAATAATATAAA
1 AAAAATAATATAAA
105893403 AATAATATAT
Statistics
Matches: 35, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
13 7 0.20
14 9 0.26
15 6 0.17
16 13 0.37
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (15 bp):
AAAAATAATATAAAT
Found at i:105893404 original size:11 final size:11
Alignment explanation
Indices: 105893345--105893411 Score: 57
Period size: 11 Copynumber: 6.1 Consensus size: 11
105893335 TAATTTTTTA
105893345 AAAAATAATAT
1 AAAAATAATAT
*
105893356 ATATAA-AATAT
1 A-AAAATAATAT
*
105893367 ATAAATAAATAT
1 AAAAAT-AATAT
** *
105893379 AATTATAA-GT
1 AAAAATAATAT
105893389 AAAAATAATAT
1 AAAAATAATAT
105893400 AAAAATAATAT
1 AAAAATAATAT
105893411 A
1 A
105893412 TACTTTTTTT
Statistics
Matches: 42, Mismatches: 10, Indels: 8
0.70 0.17 0.13
Matches are distributed among these distances:
10 9 0.21
11 22 0.52
12 11 0.26
ACGTcount: A:0.67, C:0.00, G:0.01, T:0.31
Consensus pattern (11 bp):
AAAAATAATAT
Found at i:105895054 original size:87 final size:87
Alignment explanation
Indices: 105894963--105895455 Score: 507
Period size: 87 Copynumber: 5.6 Consensus size: 87
105894953 TACAGAGATA
* * ** * * * * *
105894963 CCAAATCATCTTAGATTTGCTTCAGCGTAAACA-CGTGAAAGCCAAATCTTCTATGTCTTCGATT
1 CCAAATCATCTTGGATCTGCTTCAGTATAAACATC-TGAAGGTCAGACCTGCTATGTCTTCGATT
105895027 TG-TTCCTTGTAAACACAAGGATG
65 TGCTT-CTTGTAAACACAAGGATG
105895050 CCAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTCAGACCTGCTATGTCTTCGATTT
1 CCAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTCAGACCTGCTATGTCTTCGATTT
*
105895115 GCTTCTTGTAAACCCAAGGATG
66 GCTTCTTGTAAACACAAGGATG
*
105895137 CCAAATCATCTTGGATCTGCTTCAATATAAACATCTGAAGGTCAGACCTGCTATGTCTTCGATTT
1 CCAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTCAGACCTGCTATGTCTTCGATTT
*
105895202 GCTTCTTGTAAACCCAAGGATG
66 GCTTCTTGTAAACACAAGGATG
* * * * *
105895224 CCAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATGT-GTCTGCTC
1 CCAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTCAGACCTGCTATGTCTTC-GATT
* * * * * *
105895288 TCCATCGAATATGGAGACGCTA-GAT-
65 TGCTTC---T-TGTAAACACAAGGATG
** * * * * *
105895313 -C-TGTTATCTTGGATCTGCTTTGATGTGA-AAACATCTAAAAGTCAGATCTGCTATGTCTTCGA
1 CCAAATCATCTTGGATCTGC-TTCA-GT-ATAAACATCTGAAGGTCAGACCTGCTATGTCTTCGA
* *
105895375 TTTGCTCCTTGTAAACACAAGAATG
63 TTTGCTTCTTGTAAACACAAGGATG
** * * *
105895400 CCAAATCATCTTGGATCTATTTCAGTAAAAACATCTGAAGGTTAGATCTGCTATGT
1 CCAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTCAGACCTGCTATGT
105895456 ATCTATCTCT
Statistics
Matches: 340, Mismatches: 50, Indels: 32
0.81 0.12 0.08
Matches are distributed among these distances:
85 7 0.02
86 6 0.02
87 258 0.76
88 11 0.03
89 44 0.13
90 7 0.02
91 7 0.02
ACGTcount: A:0.28, C:0.21, G:0.18, T:0.33
Consensus pattern (87 bp):
CCAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTCAGACCTGCTATGTCTTCGATTT
GCTTCTTGTAAACACAAGGATG
Found at i:105895435 original size:176 final size:176
Alignment explanation
Indices: 105894998--105895557 Score: 652
Period size: 176 Copynumber: 3.2 Consensus size: 176
105894988 CGTAAACACG
* * * *
105894998 TGAAAGCCAAATCTTCTATGTCTTCGATTTGTTCCTTGTAAACACAAGGATGCCAAATCATCTTG
1 TGAAAGTCAGATCTGCTATGTCTTCGATTTGCTCCTTGTAAACACAAGGATGCCAAATCATCTTG
* * * * *
105895063 GATCTGCTTCAGTATAAACATCTGAAGGTCAGACCTGCTATGTCT-TCGATTTGCTTC---T-TG
66 GATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATGTATCT-GATCTCCTTCGAATATG
* * * * ** * ** *
105895123 TAAACCCAAGGATGCCAAATCATCTTGGATCTGCTTCAATAT--AAACATC
130 GAGACGCTA-GAT--C-TGTTATCTTGGATCTGCTTTGATGTGAAAACATC
* * * *
105895172 TGAAGGTCAGACCTGCTATGTCTTCGATTTGCTTCTTGTAAACCCAAGGATGCCAAATCATCTTG
1 TGAAAGTCAGATCTGCTATGTCTTCGATTTGCTCCTTGTAAACACAAGGATGCCAAATCATCTTG
* * *
105895237 GATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATGTGTCTGCTCTCCATCGAATATGG
66 GATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATGTATCTGATCTCCTTCGAATATGG
105895302 AGACGCTAGATCTGTTATCTTGGATCTGCTTTGATGTGAAAACATC
131 AGACGCTAGATCTGTTATCTTGGATCTGCTTTGATGTGAAAACATC
* *
105895348 TAAAAGTCAGATCTGCTATGTCTTCGATTTGCTCCTTGTAAACACAAGAATGCCAAATCATCTTG
1 TGAAAGTCAGATCTGCTATGTCTTCGATTTGCTCCTTGTAAACACAAGGATGCCAAATCATCTTG
** * * *
105895413 GATCTATTTCAGTAAAAACATCTGAAGGTTAGATCTGCTATGTATCT-ATCTCTGTTTGAATATG
66 GATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATGTATCTGATCTC-CTTCGAATATG
* * *
105895477 GAGATG-TCAGATCTGGTATCTTGGATCTGCTTTGATGTGAGAACATC
130 GAGACGCT-AGATCTGTTATCTTGGATCTGCTTTGATGTGAAAACATC
* *
105895524 CGAAAGTCAGATCTACTATGTCTTCGATTTGCTC
1 TGAAAGTCAGATCTGCTATGTCTTCGATTTGCTC
105895558 TCCGTCGAAG
Statistics
Matches: 332, Mismatches: 45, Indels: 16
0.84 0.11 0.04
Matches are distributed among these distances:
174 124 0.37
175 7 0.02
176 190 0.57
177 4 0.01
178 7 0.02
ACGTcount: A:0.27, C:0.20, G:0.19, T:0.34
Consensus pattern (176 bp):
TGAAAGTCAGATCTGCTATGTCTTCGATTTGCTCCTTGTAAACACAAGGATGCCAAATCATCTTG
GATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATGTATCTGATCTCCTTCGAATATGG
AGACGCTAGATCTGTTATCTTGGATCTGCTTTGATGTGAAAACATC
Found at i:105903759 original size:14 final size:16
Alignment explanation
Indices: 105903724--105903760 Score: 53
Period size: 15 Copynumber: 2.5 Consensus size: 16
105903714 CAAACGATGC
105903724 GATG-AAATGCTATGA
1 GATGCAAATGCTATGA
105903739 GATGCAAATGC-ATGA
1 GATGCAAATGCTATGA
105903754 -ATGCAAA
1 GATGCAAA
105903761 AAGGACATCG
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 7 0.33
15 8 0.38
16 6 0.29
ACGTcount: A:0.43, C:0.11, G:0.24, T:0.22
Consensus pattern (16 bp):
GATGCAAATGCTATGA
Found at i:105911693 original size:21 final size:19
Alignment explanation
Indices: 105911661--105911713 Score: 63
Period size: 19 Copynumber: 2.7 Consensus size: 19
105911651 TATAACCAAA
105911661 ATATATAATAATATAAACC
1 ATATATAATAATATAAACC
*
105911680 ATATAATAAGTAATATAAA-A
1 ATAT-ATAA-TAATATAAACC
105911700 ATATATATATAATA
1 ATATATA-ATAATA
105911714 AAATGTAATA
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
19 12 0.40
20 9 0.30
21 9 0.30
ACGTcount: A:0.60, C:0.04, G:0.02, T:0.34
Consensus pattern (19 bp):
ATATATAATAATATAAACC
Found at i:105911724 original size:17 final size:17
Alignment explanation
Indices: 105911704--105911745 Score: 59
Period size: 17 Copynumber: 2.5 Consensus size: 17
105911694 ATAAAAATAT
105911704 ATATATAATAAAATGTA
1 ATATATAATAAAATGTA
* *
105911721 ATATGTAATGAAATGTA
1 ATATATAATAAAATGTA
105911738 A-ATATAAT
1 ATATATAAT
105911746 GAAGGATAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
16 6 0.27
17 16 0.73
ACGTcount: A:0.55, C:0.00, G:0.10, T:0.36
Consensus pattern (17 bp):
ATATATAATAAAATGTA
Found at i:105911861 original size:17 final size:17
Alignment explanation
Indices: 105911831--105911872 Score: 57
Period size: 17 Copynumber: 2.5 Consensus size: 17
105911821 ATATATATAA
*
105911831 AATATATAAATAAATAT
1 AATATATAAATAAAAAT
* *
105911848 AATTTATAAGTAAAAAT
1 AATATATAAATAAAAAT
105911865 AATATATA
1 AATATATA
105911873 CTATTTTTTT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (17 bp):
AATATATAAATAAAAAT
Found at i:105918184 original size:26 final size:26
Alignment explanation
Indices: 105918149--105918201 Score: 97
Period size: 26 Copynumber: 2.0 Consensus size: 26
105918139 ATAACAAAAG
*
105918149 AAAAAGAAAACATCTTCTTCTCCATA
1 AAAAAGAAAAAATCTTCTTCTCCATA
105918175 AAAAAGAAAAAATCTTCTTCTCCATA
1 AAAAAGAAAAAATCTTCTTCTCCATA
105918201 A
1 A
105918202 GGTTTCACCA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.49, C:0.21, G:0.04, T:0.26
Consensus pattern (26 bp):
AAAAAGAAAAAATCTTCTTCTCCATA
Found at i:105927012 original size:21 final size:21
Alignment explanation
Indices: 105926953--105927016 Score: 60
Period size: 21 Copynumber: 3.0 Consensus size: 21
105926943 TTGCATCAAC
105926953 TTAATTTTAAT-TTTAACTATTA
1 TTAATTTTAATATTTAA-T-TTA
* * *
105926975 -TATTTTTCATTAATTAATTTA
1 TTAATTTT-AATATTTAATTTA
105926996 TTAATTTTAATATTTAATTTA
1 TTAATTTTAATATTTAATTTA
105927017 AAGTTACAAA
Statistics
Matches: 33, Mismatches: 6, Indels: 7
0.72 0.13 0.15
Matches are distributed among these distances:
21 20 0.61
22 9 0.27
23 4 0.12
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.61
Consensus pattern (21 bp):
TTAATTTTAATATTTAATTTA
Found at i:105927183 original size:12 final size:12
Alignment explanation
Indices: 105927166--105927195 Score: 60
Period size: 12 Copynumber: 2.5 Consensus size: 12
105927156 TTATAAAACA
105927166 AAAATTCATTTT
1 AAAATTCATTTT
105927178 AAAATTCATTTT
1 AAAATTCATTTT
105927190 AAAATT
1 AAAATT
105927196 AAATTACTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.47, C:0.07, G:0.00, T:0.47
Consensus pattern (12 bp):
AAAATTCATTTT
Found at i:105928153 original size:27 final size:28
Alignment explanation
Indices: 105928119--105928174 Score: 105
Period size: 27 Copynumber: 2.0 Consensus size: 28
105928109 AAAATATATA
105928119 TATAAACACTAAATTTATATTAT-ATTT
1 TATAAACACTAAATTTATATTATAATTT
105928146 TATAAACACTAAATTTATATTATAATTT
1 TATAAACACTAAATTTATATTATAATTT
105928174 T
1 T
105928175 TGACAAATTA
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
27 23 0.82
28 5 0.18
ACGTcount: A:0.45, C:0.07, G:0.00, T:0.48
Consensus pattern (28 bp):
TATAAACACTAAATTTATATTATAATTT
Found at i:105928393 original size:13 final size:13
Alignment explanation
Indices: 105928377--105928402 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
105928367 TTTATTTTTG
105928377 GATAAAATTTAAA
1 GATAAAATTTAAA
105928390 GATAAAATTTAAA
1 GATAAAATTTAAA
105928403 TTTTTTAATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.62, C:0.00, G:0.08, T:0.31
Consensus pattern (13 bp):
GATAAAATTTAAA
Found at i:105935270 original size:19 final size:19
Alignment explanation
Indices: 105935227--105935263 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
105935217 ATGAAAGTTT
**
105935227 TAAAATGTGTAATTAAAAC
1 TAAAATGTGTAAAAAAAAC
105935246 TAAAATGTGTAAAAAAAA
1 TAAAATGTGTAAAAAAAA
105935264 TCAAAATAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.59, C:0.03, G:0.11, T:0.27
Consensus pattern (19 bp):
TAAAATGTGTAAAAAAAAC
Found at i:105938296 original size:33 final size:33
Alignment explanation
Indices: 105938257--105938432 Score: 165
Period size: 33 Copynumber: 5.4 Consensus size: 33
105938247 AAGGGTGGTA
* * *
105938257 TTGAAAAGGAAAGGTATACTTTGTGTATACCAC
1 TTGAAAAGGAAATGTACACTTTGTGTGTACCAC
* * *
105938290 TTGAAAAGGAAAAGTACACTATATGTGTA-CAC
1 TTGAAAAGGAAATGTACACTTTGTGTGTACCAC
** * *
105938322 TTGAAAAGGTTATGTACACTTTGTGTGTACAAA
1 TTGAAAAGGAAATGTACACTTTGTGTGTACCAC
** *
105938355 TTGAAAAGGGTATGTACACTTCGTGTGTACCAC
1 TTGAAAAGGAAATGTACACTTTGTGTGTACCAC
* * * * * *
105938388 TTGAAAAGGGAATGTGCACCTCGGGTGTACAAC
1 TTGAAAAGGAAATGTACACTTTGTGTGTACCAC
*
105938421 TAGAAAAGGAAA
1 TTGAAAAGGAAA
105938433 GGTCCATCGG
Statistics
Matches: 119, Mismatches: 23, Indels: 2
0.83 0.16 0.01
Matches are distributed among these distances:
32 27 0.23
33 92 0.77
ACGTcount: A:0.36, C:0.13, G:0.23, T:0.27
Consensus pattern (33 bp):
TTGAAAAGGAAATGTACACTTTGTGTGTACCAC
Found at i:105938343 original size:65 final size:66
Alignment explanation
Indices: 105938274--105938396 Score: 160
Period size: 65 Copynumber: 1.9 Consensus size: 66
105938264 GGAAAGGTAT
* *
105938274 ACTTTGTGTATACCACTTGAAAAGGAAAAGTACACTAT-ATGTGTA-CACTTGAAAAGGTTATGT
1 ACTTTGTGTATACAAATTGAAAAGGAAAAGTACACT-TCATGTGTACCACTTGAAAAGGTTATGT
105938337 AC
65 AC
* ** * *
105938339 ACTTTGTGTGTACAAATTGAAAAGGGTATGTACACTTCGTGTGTACCACTTGAAAAGG
1 ACTTTGTGTATACAAATTGAAAAGGAAAAGTACACTTCATGTGTACCACTTGAAAAGG
105938397 GAATGTGCAC
Statistics
Matches: 49, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
64 1 0.02
65 36 0.73
66 12 0.24
ACGTcount: A:0.34, C:0.14, G:0.21, T:0.31
Consensus pattern (66 bp):
ACTTTGTGTATACAAATTGAAAAGGAAAAGTACACTTCATGTGTACCACTTGAAAAGGTTATGTA
C
Found at i:105940805 original size:48 final size:47
Alignment explanation
Indices: 105940739--105940900 Score: 152
Period size: 46 Copynumber: 3.5 Consensus size: 47
105940729 AAGCTGACGC
* *
105940739 CATGTCCTAGACAGGTCTTACACTAGCTTGTATATCTCGAGGCTGATG
1 CATGTCCCAGACATGTCTTACACTAGCTTGTA-ATCTCGAGGCTGATG
** * * * *
105940787 CATGTCCCAGACATGTCTTACACTAGCTT-CCATCTCAAAGTTGGTG
1 CATGTCCCAGACATGTCTTACACTAGCTTGTAATCTCGAGGCTGATG
* * * *
105940833 CATGTCCCAGACATTTCTTACAGTAGCTCTCGTAA--T-GTGGCCGATG
1 CATGTCCCAGACATGTCTTACACTAGCT-T-GTAATCTCGAGGCTGATG
*
105940879 CATGTCCCAAACATGTCTTACA
1 CATGTCCCAGACATGTCTTACA
105940901 TTGGCACACG
Statistics
Matches: 91, Mismatches: 20, Indels: 8
0.76 0.17 0.07
Matches are distributed among these distances:
46 61 0.67
47 2 0.02
48 27 0.30
49 1 0.01
ACGTcount: A:0.24, C:0.27, G:0.19, T:0.30
Consensus pattern (47 bp):
CATGTCCCAGACATGTCTTACACTAGCTTGTAATCTCGAGGCTGATG
Found at i:105943949 original size:59 final size:54
Alignment explanation
Indices: 105943843--105943979 Score: 125
Period size: 59 Copynumber: 2.4 Consensus size: 54
105943833 ATTAGGGTCC
* * *
105943843 GAATTTAGCCTGGACTGGTAATTCAGATCTGAGCTCATTAGAGTACATGTCATTGTAAG
1 GAATTTAGCCTAGACTGGTAATCCAGATCTGAGCTCATGAGAGTACATGTCA--G---G
* ** *
105943902 GAATTTAGCCTAGACTGGTAATCCAGA-CATTA-CTCTATGAGTTTACATTTCAGG
1 GAATTTAGCCTAGACTGGTAATCCAGATC-TGAGCTC-ATGAGAGTACATGTCAGG
*
105943956 GGATTTAGCCTAGACTGGTAATCC
1 GAATTTAGCCTAGACTGGTAATCC
105943980 CGCCGTAAGA
Statistics
Matches: 68, Mismatches: 8, Indels: 9
0.80 0.09 0.11
Matches are distributed among these distances:
54 24 0.35
57 1 0.01
58 4 0.06
59 39 0.57
ACGTcount: A:0.28, C:0.18, G:0.22, T:0.32
Consensus pattern (54 bp):
GAATTTAGCCTAGACTGGTAATCCAGATCTGAGCTCATGAGAGTACATGTCAGG
Found at i:105948203 original size:22 final size:22
Alignment explanation
Indices: 105948175--105948223 Score: 91
Period size: 22 Copynumber: 2.3 Consensus size: 22
105948165 GATCAAATTT
105948175 TGAGTCTTCCTATTCCTATTAC
1 TGAGTCTTCCTATTCCTATTAC
105948197 TGAGTCTTCCTATTCCTATTAC
1 TGAGTCTTCCTATTCCTATTAC
105948219 T-AGTC
1 TGAGTC
105948224 AATTTGATAA
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
21 4 0.15
22 23 0.85
ACGTcount: A:0.18, C:0.27, G:0.10, T:0.45
Consensus pattern (22 bp):
TGAGTCTTCCTATTCCTATTAC
Found at i:105950329 original size:14 final size:15
Alignment explanation
Indices: 105950310--105950342 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
105950300 TTTTTTAAAA
*
105950310 TTTTAACCA-ATATT
1 TTTTAAACATATATT
105950324 TTTTAAACATATATT
1 TTTTAAACATATATT
105950339 TTTT
1 TTTT
105950343 TTGAAAATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 8 0.47
15 9 0.53
ACGTcount: A:0.33, C:0.09, G:0.00, T:0.58
Consensus pattern (15 bp):
TTTTAAACATATATT
Found at i:105951098 original size:30 final size:30
Alignment explanation
Indices: 105951064--105951126 Score: 117
Period size: 30 Copynumber: 2.1 Consensus size: 30
105951054 ATTTATTTTA
105951064 TTGTTAATTTTGTTATTATTTTAAAGACAT
1 TTGTTAATTTTGTTATTATTTTAAAGACAT
*
105951094 TTGTTAATTTTGTTATTATTTTAGAGACAT
1 TTGTTAATTTTGTTATTATTTTAAAGACAT
105951124 TTG
1 TTG
105951127 CTTCTTAAAT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.27, C:0.03, G:0.13, T:0.57
Consensus pattern (30 bp):
TTGTTAATTTTGTTATTATTTTAAAGACAT
Found at i:105951280 original size:12 final size:12
Alignment explanation
Indices: 105951250--105951282 Score: 52
Period size: 11 Copynumber: 2.9 Consensus size: 12
105951240 TATATTTTTT
105951250 AAAATT-ATATA
1 AAAATTAATATA
105951261 AAAA-TAATATA
1 AAAATTAATATA
105951272 AAAATTAATAT
1 AAAATTAATAT
105951283 GAGCGGGTCG
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
10 1 0.05
11 13 0.65
12 6 0.30
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (12 bp):
AAAATTAATATA
Found at i:105953166 original size:214 final size:206
Alignment explanation
Indices: 105952796--105953271 Score: 763
Period size: 214 Copynumber: 2.3 Consensus size: 206
105952786 TTTTGTAATG
*
105952796 TCATATTAGTGAATTTGCTAATACATACTTCATCCAGGTAAAGTATGCATTATTAAAATTAAATT
1 TCATATTAGTGAATCTGCTAATACATACTTCATCCAGGTAAAGTATGCATT-TTAAAATTAAATT
*
105952861 AAAATATTAAATAAGAAATAAAATTATAAAATAATATGTTATTTGGAAAATAACTATTATTGTAA
65 AAAATATTAAATAAGAAATAAAATTATAAAACAATATGTTATTTGGAAAATAACTATTATTGTAA
* *
105952926 TGAGATACATGTTTTATTATGTATAAGTATTTAAATTTTTGTTTTTGTAATGTGATACATGCGTG
130 TGAGATACATGTTTTATTAGGTATAAGTATTT-AATTTTTGTTTTTGTAAGGTGATACATGC---
**
105952991 TGTGTGTATATATATATAA
191 ---GTAAATATATATATAA
*
105953010 TCATATTAGTGAATCTGCTAATACATACTTCATCCAGGTAAAGTATGTATTGTTAAAATTAAATT
1 TCATATTAGTGAATCTGCTAATACATACTTCATCCAGGTAAAGTATGCATT-TTAAAATTAAATT
105953075 AAAATATTAAATAAGAAATAAAATTATAAAACAATATGTTATTTGGAAAATAACTATTATTGTAA
65 AAAATATTAAATAAGAAATAAAATTATAAAACAATATGTTATTTGGAAAATAACTATTATTGTAA
*
105953140 TGAGATACATGTTTTATTAGGTATAAGTATTTAATTTTTTTTTTTGTAAGGTGATACATGCGTAA
130 TGAGATACATGTTTTATTAGGTATAAGTATTTAATTTTTGTTTTTGTAAGGTGATACATGCGTAA
105953205 ATATATATATAA
195 ATATATATATAA
* * * *
105953217 TCATATTAGTAAATCTACTAATACATACTTCATTCAGATAAAGTATGCATTTTAA
1 TCATATTAGTGAATCTGCTAATACATACTTCATCCAGGTAAAGTATGCATTTTAA
105953272 TAACATATGA
Statistics
Matches: 248, Mismatches: 14, Indels: 8
0.92 0.05 0.03
Matches are distributed among these distances:
206 4 0.02
207 60 0.24
213 27 0.11
214 157 0.63
ACGTcount: A:0.41, C:0.07, G:0.12, T:0.41
Consensus pattern (206 bp):
TCATATTAGTGAATCTGCTAATACATACTTCATCCAGGTAAAGTATGCATTTTAAAATTAAATTA
AAATATTAAATAAGAAATAAAATTATAAAACAATATGTTATTTGGAAAATAACTATTATTGTAAT
GAGATACATGTTTTATTAGGTATAAGTATTTAATTTTTGTTTTTGTAAGGTGATACATGCGTAAA
TATATATATAA
Found at i:105961501 original size:28 final size:27
Alignment explanation
Indices: 105961463--105961517 Score: 83
Period size: 28 Copynumber: 2.0 Consensus size: 27
105961453 GCATTCGCAG
* *
105961463 AGATAAGTTTGTTGGGATAGTAAACAC
1 AGATAAGTTTGTTCGAATAGTAAACAC
105961490 AGATGAAGTTTGTTCGAATAGTAAACAC
1 AGAT-AAGTTTGTTCGAATAGTAAACAC
105961518 GGAGGTAAGC
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
27 4 0.16
28 21 0.84
ACGTcount: A:0.38, C:0.09, G:0.24, T:0.29
Consensus pattern (27 bp):
AGATAAGTTTGTTCGAATAGTAAACAC
Found at i:105966567 original size:23 final size:23
Alignment explanation
Indices: 105966514--105966567 Score: 54
Period size: 23 Copynumber: 2.3 Consensus size: 23
105966504 AAGCAAATTA
* * *
105966514 TAAATTCAGGTGCACCGAAGTGT
1 TAAATTCAGGAGCACCAAAGTGC
** *
105966537 TAGTTTCAGGAGCACTAAAGTGC
1 TAAATTCAGGAGCACCAAAGTGC
105966560 TAAATTCA
1 TAAATTCA
105966568 TAAGCACGCT
Statistics
Matches: 23, Mismatches: 8, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.33, C:0.17, G:0.22, T:0.28
Consensus pattern (23 bp):
TAAATTCAGGAGCACCAAAGTGC
Found at i:105967561 original size:12 final size:12
Alignment explanation
Indices: 105967544--105967569 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
105967534 ACATAGCCGC
105967544 GTCGCAGCCTGT
1 GTCGCAGCCTGT
105967556 GTCGCAGCCTGT
1 GTCGCAGCCTGT
105967568 GT
1 GT
105967570 GCCAGACCGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.08, C:0.31, G:0.35, T:0.27
Consensus pattern (12 bp):
GTCGCAGCCTGT
Found at i:105974677 original size:29 final size:29
Alignment explanation
Indices: 105974644--105974703 Score: 111
Period size: 29 Copynumber: 2.1 Consensus size: 29
105974634 TAAAGTGTTA
105974644 AATGCTTCTAAACACTTTTAATCGAAATT
1 AATGCTTCTAAACACTTTTAATCGAAATT
*
105974673 AATGCTTCTAAACACTTTTGATCGAAATT
1 AATGCTTCTAAACACTTTTAATCGAAATT
105974702 AA
1 AA
105974704 AAGGCACATC
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.38, C:0.17, G:0.08, T:0.37
Consensus pattern (29 bp):
AATGCTTCTAAACACTTTTAATCGAAATT
Found at i:105987087 original size:55 final size:55
Alignment explanation
Indices: 105987028--105987134 Score: 162
Period size: 55 Copynumber: 1.9 Consensus size: 55
105987018 AATGTGCAAC
* * *
105987028 ACTGACTTTAATG-CATGGCCATGGCACACACCCGTGTGACCTGCCCGTGTACGAT
1 ACTGACTTTAA-GACATAGCCATGGCACACACCAGTGTGACCTACCCGTGTACGAT
*
105987083 ACTGACTTTAAGACATAGCCATGGCACACACCAGTGTGGCCTACCCGTGTAC
1 ACTGACTTTAAGACATAGCCATGGCACACACCAGTGTGACCTACCCGTGTAC
105987135 AACAATAACT
Statistics
Matches: 47, Mismatches: 4, Indels: 2
0.89 0.08 0.04
Matches are distributed among these distances:
54 1 0.02
55 46 0.98
ACGTcount: A:0.24, C:0.31, G:0.22, T:0.22
Consensus pattern (55 bp):
ACTGACTTTAAGACATAGCCATGGCACACACCAGTGTGACCTACCCGTGTACGAT
Found at i:105992119 original size:27 final size:27
Alignment explanation
Indices: 105992070--105992125 Score: 67
Period size: 27 Copynumber: 2.1 Consensus size: 27
105992060 GCTTCCACCT
* * *
105992070 TTCTTTCTCTTTTTCTTTATTTATTCA
1 TTCTTTATCTGTTTCTTTATTTATACA
* *
105992097 TTCTTTATCTGTTTGTTTTTTTATACA
1 TTCTTTATCTGTTTCTTTATTTATACA
105992124 TT
1 TT
105992126 AATATATTAT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.12, C:0.14, G:0.04, T:0.70
Consensus pattern (27 bp):
TTCTTTATCTGTTTCTTTATTTATACA
Found at i:105997185 original size:40 final size:40
Alignment explanation
Indices: 105997045--105997266 Score: 301
Period size: 40 Copynumber: 5.5 Consensus size: 40
105997035 TATTCGGATG
* *
105997045 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
105997085 ATATCC-GGCTAAGTCCCGAAGGCATTTGTGCGAGTAGTTG-CT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGC---TAG-TGACT
105997127 ATA-CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
**
105997166 ATATCCGGGCTAAGTCCCGAAGGCATTCATGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* *
105997206 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAG-TGACT
*
105997246 ATATCC-GGCTAAATCCCGAAG
1 ATATCCGGGCTAAGTCCCGAAG
105997267 ATACTTGGGT
Statistics
Matches: 164, Mismatches: 10, Indels: 17
0.86 0.05 0.09
Matches are distributed among these distances:
38 2 0.01
39 46 0.28
40 79 0.48
41 4 0.02
42 32 0.20
43 1 0.01
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
Found at i:106005261 original size:13 final size:13
Alignment explanation
Indices: 106005243--106005267 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
106005233 ATAAGGGGAT
106005243 TTAAAATTAAAAA
1 TTAAAATTAAAAA
106005256 TTAAAATTAAAA
1 TTAAAATTAAAA
106005268 CAAATTAAAA
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:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (13 bp):
TTAAAATTAAAAA
Found at i:106016640 original size:23 final size:23
Alignment explanation
Indices: 106016614--106016658 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
106016604 TAGGTATGTG
106016614 ATGAAGTTATCTT-ATAAATATGC
1 ATGAAGTTATCTTGA-AAATATGC
*
106016637 ATGAATTTATCTTGAAAATATG
1 ATGAAGTTATCTTGAAAATATG
106016659 TTGAATTGGT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 19 0.95
24 1 0.05
ACGTcount: A:0.40, C:0.07, G:0.13, T:0.40
Consensus pattern (23 bp):
ATGAAGTTATCTTGAAAATATGC
Found at i:106024435 original size:23 final size:23
Alignment explanation
Indices: 106024409--106024453 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
106024399 TGGGTATGTG
*
106024409 ATGACGTTATCTT-ATAAATATGC
1 ATGAAGTTATCTTGA-AAATATGC
*
106024432 ATGAATTTATCTTGAAAATATG
1 ATGAAGTTATCTTGAAAATATG
106024454 TTGAATTGGT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 18 0.95
24 1 0.05
ACGTcount: A:0.38, C:0.09, G:0.13, T:0.40
Consensus pattern (23 bp):
ATGAAGTTATCTTGAAAATATGC
Found at i:106034872 original size:16 final size:17
Alignment explanation
Indices: 106034846--106034881 Score: 65
Period size: 16 Copynumber: 2.2 Consensus size: 17
106034836 CCTTCCATTT
106034846 TTTTCACACTTCAATCC
1 TTTTCACACTTCAATCC
106034863 TTTT-ACACTTCAATCC
1 TTTTCACACTTCAATCC
106034879 TTT
1 TTT
106034882 CAATATTCTC
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 15 0.79
17 4 0.21
ACGTcount: A:0.22, C:0.31, G:0.00, T:0.47
Consensus pattern (17 bp):
TTTTCACACTTCAATCC
Found at i:106034915 original size:13 final size:11
Alignment explanation
Indices: 106034887--106034919 Score: 57
Period size: 11 Copynumber: 3.0 Consensus size: 11
106034877 CCTTTCAATA
106034887 TTCTCTCAAAT
1 TTCTCTCAAAT
106034898 TTCTCTCAAAT
1 TTCTCTCAAAT
*
106034909 TCCTCTCAAAT
1 TTCTCTCAAAT
106034920 CTCTTTTTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.27, C:0.30, G:0.00, T:0.42
Consensus pattern (11 bp):
TTCTCTCAAAT
Found at i:106036085 original size:7 final size:7
Alignment explanation
Indices: 106036073--106036104 Score: 64
Period size: 7 Copynumber: 4.6 Consensus size: 7
106036063 TAGTCAAATC
106036073 GTATTTA
1 GTATTTA
106036080 GTATTTA
1 GTATTTA
106036087 GTATTTA
1 GTATTTA
106036094 GTATTTA
1 GTATTTA
106036101 GTAT
1 GTAT
106036105 ATAACTAATA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 25 1.00
ACGTcount: A:0.28, C:0.00, G:0.16, T:0.56
Consensus pattern (7 bp):
GTATTTA
Found at i:106036634 original size:30 final size:30
Alignment explanation
Indices: 106036598--106036689 Score: 123
Period size: 30 Copynumber: 3.1 Consensus size: 30
106036588 GACACGGGCA
106036598 CATCAACAGCGCCCAGACAATCACC-GTGCC
1 CATCAACAGCGCCCAGACAATCACCAG-GCC
*
106036628 CATCAACAGCGCCCATACAATCACCAGGCC
1 CATCAACAGCGCCCAGACAATCACCAGGCC
** * *
106036658 CATCAACAGCGGTCACACAGTCACCAGGCC
1 CATCAACAGCGCCCAGACAATCACCAGGCC
106036688 CA
1 CA
106036690 ACACTTCAAC
Statistics
Matches: 56, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
30 55 0.98
31 1 0.02
ACGTcount: A:0.32, C:0.42, G:0.16, T:0.10
Consensus pattern (30 bp):
CATCAACAGCGCCCAGACAATCACCAGGCC
Found at i:106036780 original size:18 final size:18
Alignment explanation
Indices: 106036743--106036785 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 18
106036733 TGCCAGGTGC
* **
106036743 GTATCCTAGCCCTTTTAT
1 GTATCCTAACCCTTACAT
106036761 GTATCCTAACCCTTACAT
1 GTATCCTAACCCTTACAT
*
106036779 GTTTCCT
1 GTATCCT
106036786 TTTCCAGTCC
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.19, C:0.30, G:0.09, T:0.42
Consensus pattern (18 bp):
GTATCCTAACCCTTACAT
Found at i:106037071 original size:21 final size:22
Alignment explanation
Indices: 106037025--106037072 Score: 57
Period size: 21 Copynumber: 2.3 Consensus size: 22
106037015 CCAACATCCA
106037025 CAACCAAATCCCCTGCCAGAAG
1 CAACCAAATCCCCTGCCAGAAG
*
106037047 -AACCAGAATCCCC-GCC-GGAG
1 CAACCA-AATCCCCTGCCAGAAG
106037067 CAACCA
1 CAACCA
106037073 CAACCCTTGC
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
20 3 0.13
21 13 0.57
22 7 0.30
ACGTcount: A:0.35, C:0.42, G:0.17, T:0.06
Consensus pattern (22 bp):
CAACCAAATCCCCTGCCAGAAG
Found at i:106037289 original size:54 final size:55
Alignment explanation
Indices: 106037207--106037327 Score: 149
Period size: 54 Copynumber: 2.2 Consensus size: 55
106037197 TATTGTTTCA
* *
106037207 TTTAATAAAATAAAATTTATTTTGAATAAAGT-A-ATTGT-AATTTACTTTTATATT
1 TTTAATAAAATAAAAGTTATTTTAAATAAAGTAATATTGTGAA--TACTTTTATATT
* * * *
106037261 TTTAATAAAATAGAAGTTCTTTTAAATAAAGTAATATTTTGAATATTTTTATATT
1 TTTAATAAAATAAAAGTTATTTTAAATAAAGTAATATTGTGAATACTTTTATATT
106037316 TTTAATAAAATA
1 TTTAATAAAATA
106037328 TAAATAATGC
Statistics
Matches: 58, Mismatches: 6, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
54 28 0.48
55 24 0.41
56 4 0.07
57 2 0.03
ACGTcount: A:0.44, C:0.02, G:0.06, T:0.49
Consensus pattern (55 bp):
TTTAATAAAATAAAAGTTATTTTAAATAAAGTAATATTGTGAATACTTTTATATT
Found at i:106040572 original size:126 final size:126
Alignment explanation
Indices: 106040347--106041224 Score: 1283
Period size: 126 Copynumber: 7.0 Consensus size: 126
106040337 GCCAAATAGG
* * *
106040347 AACTACTGTAGAAAAAGAGTGTCCACGTGGGAGCTTTTTTCAGTATTTTTGCTGACAATGCATCC
1 AACTACTGTAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGTACTTTTGCTGACAGTGCATCC
* *
106040412 TGCTTGAAGCGTTTTTGACACTATTTGTTCAGAAACATCTTTTCAAAATTATTTTTTCAGA
66 TGCTTGAAGCGTTTTTTACACTATTTGTTCAGAAACATCTTCTCAAAATTATTTTTTCAGA
* * * *
106040473 AACTACTATAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTTAGTACTTTTGCTGACATTGTATCC
1 AACTACTGTAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGTACTTTTGCTGACAGTGCATCC
* * * *
106040538 TACTTAAAACATTTTTTACACTATTTGTTCAGAAACATCTTCTCAAAATTATTTTTTCAGA
66 TGCTTGAAGCGTTTTTTACACTATTTGTTCAGAAACATCTTCTCAAAATTATTTTTTCAGA
* * * * * * *
106040599 AACTACTGTAGAAAAAAAGCGTCCACATGGGAGCTCTTTTCAATACTTTTGTTGACAGTACATCT
1 AACTACTGTAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGTACTTTTGCTGACAGTGCATCC
*
106040664 TGCTTGAAGCGTTTTTTACACTATTTGTTCAGAAACATCTTCTCAAAATTACTTTTTCAGA
66 TGCTTGAAGCGTTTTTTACACTATTTGTTCAGAAACATCTTCTCAAAATTATTTTTTCAGA
* * *
106040725 AACTATTGTAGAAAAAAAGCGTCCACATGGGAGCTTTTTTCAGTACTTTTGCTGACAGTGCATCC
1 AACTACTGTAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGTACTTTTGCTGACAGTGCATCC
* * * *
106040790 TGCTTAAAG-TTTTTTTGACACTATTTGTTTAGAAACATCTTCTCAAAATTATTTTTTCAAA
66 TGCTTGAAGCGTTTTTT-ACACTATTTGTTCAGAAACATCTTCTCAAAATTATTTTTTCAGA
* * * * *
106040851 AACTACTGTAGAAAAAGAACGTCCACGTGGGAGCTTTTTTCAATACTTTTGTTGACAGTACATCT
1 AACTACTGTAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGTACTTTTGCTGACAGTGCATCC
*
106040916 TGCTTGAAGCGTTTTTTACACTATTTGTTCAGAAACATCTTCTCAAAATTACTTTTTCAGA
66 TGCTTGAAGCGTTTTTTACACTATTTGTTCAGAAACATCTTCTCAAAATTATTTTTTCAGA
* * *
106040977 AACTATTGTAGAAAAAAAGCGTCCACATGGGAGCTTTTTTCAGTACTTTTGCTGACAGTGCATCC
1 AACTACTGTAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGTACTTTTGCTGACAGTGCATCC
* * * *
106041042 TGCTTAAAG-TTTTTTTGACACTATTTGTTTAGAAACATCTTCTCAAAATTATTTTTTCAAA
66 TGCTTGAAGCGTTTTTT-ACACTATTTGTTCAGAAACATCTTCTCAAAATTATTTTTTCAGA
* * *
106041103 AACTACTGTAGAAAAAGAACGTCCACGTGGGAGCTTTTTTCAGTACTTTTACTGACAGTGCATCT
1 AACTACTGTAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGTACTTTTGCTGACAGTGCATCC
* * * * *
106041168 TCCTTAAAGCGTTTTTGACACTATTTGTTTAGAAACATTTTCTCAAAATTATTTTTT
66 TGCTTGAAGCGTTTTTTACACTATTTGTTCAGAAACATCTTCTCAAAATTATTTTTT
106041225 TAGATATGTC
Statistics
Matches: 673, Mismatches: 75, Indels: 8
0.89 0.10 0.01
Matches are distributed among these distances:
125 12 0.02
126 650 0.97
127 11 0.02
ACGTcount: A:0.30, C:0.17, G:0.15, T:0.38
Consensus pattern (126 bp):
AACTACTGTAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGTACTTTTGCTGACAGTGCATCC
TGCTTGAAGCGTTTTTTACACTATTTGTTCAGAAACATCTTCTCAAAATTATTTTTTCAGA
Found at i:106042806 original size:13 final size:13
Alignment explanation
Indices: 106042755--106042813 Score: 55
Period size: 13 Copynumber: 4.5 Consensus size: 13
106042745 TAAACTTGTG
* *
106042755 AAAAGTACTTCTT
1 AAAAATACTTTTT
*
106042768 AAAAGTACTTTTT
1 AAAAATACTTTTT
* * * *
106042781 CATAACACCTTTT
1 AAAAATACTTTTT
106042794 AAAAATACTTTTT
1 AAAAATACTTTTT
106042807 AAAAATA
1 AAAAATA
106042814 TTGCTACTAA
Statistics
Matches: 36, Mismatches: 10, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
13 36 1.00
ACGTcount: A:0.44, C:0.14, G:0.03, T:0.39
Consensus pattern (13 bp):
AAAAATACTTTTT
Found at i:106051544 original size:23 final size:23
Alignment explanation
Indices: 106051486--106051545 Score: 57
Period size: 23 Copynumber: 2.6 Consensus size: 23
106051476 CCATTATAAT
** **
106051486 AGAAAAAAAAAAGCTGAAGCTGA
1 AGAAAAAAAAAAGGAGAAAATGA
** *
106051509 AGAAAGGAGAAAGGAGAAAATGA
1 AGAAAAAAAAAAGGAGAAAATGA
106051532 AGAAAAAAAAAAGG
1 AGAAAAAAAAAAGG
106051546 TAAGGAGATG
Statistics
Matches: 27, Mismatches: 10, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.65, C:0.03, G:0.27, T:0.05
Consensus pattern (23 bp):
AGAAAAAAAAAAGGAGAAAATGA
Found at i:106056231 original size:12 final size:12
Alignment explanation
Indices: 106056207--106056244 Score: 51
Period size: 13 Copynumber: 3.2 Consensus size: 12
106056197 CCTTTCTTTC
106056207 TTTTCTTT-TTT
1 TTTTCTTTGTTT
*
106056218 TTTTTTTTGGTTT
1 TTTTCTTT-GTTT
106056231 TTTTCTTTGTTT
1 TTTTCTTTGTTT
106056243 TT
1 TT
106056245 GTTGCAGCTA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
11 7 0.30
12 6 0.26
13 10 0.43
ACGTcount: A:0.00, C:0.05, G:0.08, T:0.87
Consensus pattern (12 bp):
TTTTCTTTGTTT
Found at i:106057587 original size:22 final size:21
Alignment explanation
Indices: 106057548--106057596 Score: 53
Period size: 22 Copynumber: 2.3 Consensus size: 21
106057538 ATCATATTAT
*
106057548 AAATTTTCAAGGGTTGAAGATA
1 AAATTTTCAAGGGATGAA-ATA
* *
106057570 AAATTTTGAAGTGATGAAATA
1 AAATTTTCAAGGGATGAAATA
*
106057591 TAATTT
1 AAATTT
106057597 AAGGATAATT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
21 8 0.35
22 15 0.65
ACGTcount: A:0.43, C:0.02, G:0.18, T:0.37
Consensus pattern (21 bp):
AAATTTTCAAGGGATGAAATA
Found at i:106059177 original size:25 final size:25
Alignment explanation
Indices: 106059149--106059200 Score: 61
Period size: 25 Copynumber: 2.1 Consensus size: 25
106059139 ATTAAAATAT
106059149 AAATA-ATAAAAAAATTTAGATTTTA
1 AAATAGATAAAAAAATTTA-ATTTTA
** *
106059174 AAATAGATTTATAAATTTAATTTTA
1 AAATAGATAAAAAAATTTAATTTTA
106059199 AA
1 AA
106059201 TTTTATAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 13 0.57
26 10 0.43
ACGTcount: A:0.56, C:0.00, G:0.04, T:0.40
Consensus pattern (25 bp):
AAATAGATAAAAAAATTTAATTTTA
Found at i:106059200 original size:12 final size:13
Alignment explanation
Indices: 106059160--106059203 Score: 56
Period size: 12 Copynumber: 3.5 Consensus size: 13
106059150 AATAATAAAA
106059160 AAATTTAGATTTT
1 AAATTTAGATTTT
*
106059173 AAA-ATAGATTTAT
1 AAATTTAGATTT-T
106059186 AAATTTA-ATTTT
1 AAATTTAGATTTT
106059198 AAATTT
1 AAATTT
106059204 TATAAAAATT
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
12 14 0.52
13 11 0.41
14 2 0.07
ACGTcount: A:0.45, C:0.00, G:0.05, T:0.50
Consensus pattern (13 bp):
AAATTTAGATTTT
Found at i:106059922 original size:6 final size:6
Alignment explanation
Indices: 106059908--106059941 Score: 59
Period size: 6 Copynumber: 5.7 Consensus size: 6
106059898 CGTTAGTATA
*
106059908 ATATAT ATATTT ATATTT ATATTT ATATTT ATAT
1 ATATTT ATATTT ATATTT ATATTT ATATTT ATAT
106059942 GTTTTTTAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (6 bp):
ATATTT
Found at i:106060548 original size:86 final size:88
Alignment explanation
Indices: 106060450--106060641 Score: 248
Period size: 88 Copynumber: 2.2 Consensus size: 88
106060440 TAAATTTAAA
* ** *
106060450 AAAAAAAACAATTAAGCCCCT-CTT-TTTTTCAGTCAATTAAGTACTTAAACTTTCAAAATGTAT
1 AAAAAAAACAATTAAGCCCCTGCTTGTTTTTCACTCAATTAAGTACTTAAACTTTCAAAATACAC
*
106060513 CAAAAAGTCCCTCAGACTTCTTC
66 CAAAAAGACCCTCAGACTTCTTC
* * *
106060536 AAAAAAAGCAATTAAGCTCCTGCTTGTTTTTCACTCAATTAGGTACTTAAACTTTCAAAATACAC
1 AAAAAAAACAATTAAGCCCCTGCTTGTTTTTCACTCAATTAAGTACTTAAACTTTCAAAATACAC
** *
106060601 CAAAAAGACCCTCA-AAAT-TTA
66 CAAAAAGACCCTCAGACTTCTTC
*
106060622 AAAAAAAATAATTAAGCCCC
1 AAAAAAAACAATTAAGCCCC
106060642 GACTCTTATT
Statistics
Matches: 90, Mismatches: 14, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
86 38 0.42
87 5 0.06
88 47 0.52
ACGTcount: A:0.42, C:0.21, G:0.07, T:0.29
Consensus pattern (88 bp):
AAAAAAAACAATTAAGCCCCTGCTTGTTTTTCACTCAATTAAGTACTTAAACTTTCAAAATACAC
CAAAAAGACCCTCAGACTTCTTC
Found at i:106060720 original size:19 final size:19
Alignment explanation
Indices: 106060675--106060732 Score: 64
Period size: 19 Copynumber: 3.0 Consensus size: 19
106060665 AAATTATAAA
*
106060675 TAATAAAAATAATAAATTT
1 TAATAAAATTAATAAATTT
*
106060694 TAGA-AAAATTATTAAATTT
1 TA-ATAAAATTAATAAATTT
*
106060713 TAATAAAATTTAAAAAATTT
1 TAATAAAA-TTAATAAATTT
106060733 AAAATTTATT
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
18 1 0.03
19 21 0.66
20 10 0.31
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.40
Consensus pattern (19 bp):
TAATAAAATTAATAAATTT
Found at i:106060744 original size:29 final size:29
Alignment explanation
Indices: 106060684--106060753 Score: 83
Period size: 26 Copynumber: 2.5 Consensus size: 29
106060674 ATAATAAAAA
* *
106060684 TAATAAATTTTAGAAAAATTATTAAATTT
1 TAATAAAATTTAGAAAAATTATAAAATTT
106060713 TAATAAAATTTA-AAAAATT-TAAAA-TT
1 TAATAAAATTTAGAAAAATTATAAAATTT
* *
106060739 TATTAAAAATTAGAA
1 TAATAAAATTTAGAA
106060754 TTTTTTTGTA
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
26 12 0.33
27 6 0.17
28 7 0.19
29 11 0.31
ACGTcount: A:0.57, C:0.00, G:0.03, T:0.40
Consensus pattern (29 bp):
TAATAAAATTTAGAAAAATTATAAAATTT
Found at i:106061000 original size:19 final size:19
Alignment explanation
Indices: 106060949--106061154 Score: 85
Period size: 19 Copynumber: 10.9 Consensus size: 19
106060939 TTGGTATGAT
106060949 AATTTTTATAATTTTTTTAC
1 AATTTTTATAA-TTTTTTAC
**
106060969 AAAAATTT-T-ATTTTTTAC
1 -AATTTTTATAATTTTTTAC
106060987 -ATTTTGTATAATTTTCTTAC
1 AATTTT-TATAATTTT-TTAC
* * * *
106061007 GACTTTATAAAATTTTATAC
1 -AATTTTTATAATTTTTTAC
** *
106061027 TTTTTTTAT-A-TTTCTA-
1 AATTTTTATAATTTTTTAC
* *
106061043 TATATTTTATAAATTTTTAC
1 AAT-TTTTATAATTTTTTAC
*
106061063 AATTTTTATACA-ATTTTAC
1 AATTTTTATA-ATTTTTTAC
*
106061082 AATTTTTTATATTTTTTTAC
1 AA-TTTTTATAATTTTTTAC
*
106061102 GAA-TTTTAT-ATTTTTTTC
1 -AATTTTTATAATTTTTTAC
*
106061120 TAATTTTTAATAA-ATTTTA-
1 -AATTTTT-ATAATTTTTTAC
*
106061139 AATATTT-TAATTTTTT
1 AATTTTTATAATTTTTT
106061155 TAATTAAAAT
Statistics
Matches: 141, Mismatches: 26, Indels: 40
0.68 0.13 0.19
Matches are distributed among these distances:
16 8 0.06
17 16 0.11
18 26 0.18
19 41 0.29
20 31 0.22
21 16 0.11
22 3 0.02
ACGTcount: A:0.32, C:0.06, G:0.01, T:0.61
Consensus pattern (19 bp):
AATTTTTATAATTTTTTAC
Found at i:106061059 original size:28 final size:29
Alignment explanation
Indices: 106061012--106061111 Score: 80
Period size: 28 Copynumber: 3.5 Consensus size: 29
106061002 CTTACGACTT
* **
106061012 TATAAAATTTTATACTTTTTTTATATTTC
1 TATACAATTTTATAAATTTTTTATATTTC
* * *
106061041 TATA-TATTTTATAAA-TTTTTACAATTTT
1 TATACAATTTTATAAATTTTTTA-TATTTC
* *
106061069 TATACAATTTTA-CAATTTTTTATATTTT
1 TATACAATTTTATAAATTTTTTATATTTC
*
106061097 TTTACGAATTTTATA
1 TATAC-AATTTTATA
106061112 TTTTTTTCTA
Statistics
Matches: 56, Mismatches: 10, Indels: 9
0.75 0.13 0.12
Matches are distributed among these distances:
27 6 0.11
28 27 0.48
29 23 0.41
ACGTcount: A:0.33, C:0.06, G:0.01, T:0.60
Consensus pattern (29 bp):
TATACAATTTTATAAATTTTTTATATTTC
Found at i:106061060 original size:10 final size:10
Alignment explanation
Indices: 106061010--106061137 Score: 52
Period size: 10 Copynumber: 13.2 Consensus size: 10
106061000 TTCTTACGAC
*
106061010 TTTATAAAAT
1 TTTATAAATT
*
106061020 TTTAT-ACTT
1 TTTATAAATT
* *
106061029 TTTTTATATT
1 TTTATAAATT
* *
106061039 TCTATATA-T
1 TTTATAAATT
106061048 TTTATAAATT
1 TTTATAAATT
*
106061058 TTTA-CAATT
1 TTTATAAATT
106061067 TTTATACAA-T
1 TTTATA-AATT
* *
106061077 TTTACAATTT
1 TTTATAAATT
**
106061087 TTTATATTTT
1 TTTATAAATT
**
106061097 TTTACGAA-T
1 TTTATAAATT
**
106061106 TTTATATTTT
1 TTTATAAATT
*
106061116 TTTCT-AATT
1 TTTATAAATT
106061125 TTTAATAAATT
1 TTT-ATAAATT
106061136 TT
1 TT
106061138 AAATATTTTA
Statistics
Matches: 83, Mismatches: 27, Indels: 15
0.66 0.22 0.12
Matches are distributed among these distances:
9 32 0.39
10 43 0.52
11 8 0.10
ACGTcount: A:0.31, C:0.05, G:0.01, T:0.62
Consensus pattern (10 bp):
TTTATAAATT
Found at i:106061204 original size:10 final size:11
Alignment explanation
Indices: 106061185--106061214 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
106061175 TTATAGATTT
106061185 TAATTTTTTTA
1 TAATTTTTTTA
*
106061196 TAATTTTTTTC
1 TAATTTTTTTA
106061207 TAATTTTT
1 TAATTTTT
106061215 AATAAAAGCA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.23, C:0.03, G:0.00, T:0.73
Consensus pattern (11 bp):
TAATTTTTTTA
Found at i:106061419 original size:86 final size:87
Alignment explanation
Indices: 106061251--106061417 Score: 205
Period size: 86 Copynumber: 1.9 Consensus size: 87
106061241 TTCTAAAAAA
* * * * *
106061251 GTTTGAGAGTCTTTTTGATGCATTTTGAAAGTTCAAATATCCAATTGAGTGTAAAAAAAAGTAGG
1 GTTTGAGAGACTTTTTGATGCATTTTGAAAGTTCAAATACCCAAATGAGTGCAAAAAAAAGTAGA
*
106061316 GACTTAGTTGTTTTTTTATAAG
66 GACTTAATTGTTTTTTTATAAG
* * * *
106061338 GTTTGA-AGACTTTTTTATGTATTTTGAAAGTTCAAGTACCCAAATGAGTGCGAAAAAAA-TATG
1 GTTTGAGAGACTTTTTGATGCATTTTGAAAGTTCAAATACCCAAATGAGTGCAAAAAAAAGTA-G
*
106061401 AG-CTTAATTATTTTTTT
65 AGACTTAATTGTTTTTTT
106061418 TAAAATTGAG
Statistics
Matches: 68, Mismatches: 11, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
85 15 0.22
86 47 0.69
87 6 0.09
ACGTcount: A:0.33, C:0.08, G:0.19, T:0.41
Consensus pattern (87 bp):
GTTTGAGAGACTTTTTGATGCATTTTGAAAGTTCAAATACCCAAATGAGTGCAAAAAAAAGTAGA
GACTTAATTGTTTTTTTATAAG
Done.