Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01000002.1 Hibiscus syriacus cultivar Beakdansim tig00000003_pilon, whole genome shotgun sequence
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: 2131600
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 10
Found at i:1411 original size:77 final size:81
Alignment explanation
Indices: 1245--1411 Score: 186
Period size: 77 Copynumber: 2.1 Consensus size: 81
1235 AATTATCCTG
* * *
1245 AATATTGTAAGTAAGCATTAATAGAATGTAATTTAGATTACTACTCTTTTAATTGATATATATAA
1 AATATTTTAAATAAACATTAATAGAATGTAATTTAGATTACTACTCTTTTAATTGATATATATAA
*
1310 TTCAGAATAATTATAT
66 TTCAGAATAATTAAAT
* * *
1326 AAGT-TTTTAAATAAACATTAA-AGATTGTAATTTTGATTA-TAAGTC-TTTAA-TG-TATATAT
1 AA-TATTTTAAATAAACATTAATAGAATGTAATTTAGATTACT-ACTCTTTTAATTGATATATAT
*
1385 AATT-TGAATTAATTAAAT
64 AATTCAGAA-TAATTAAAT
1403 AATATTTTA
1 AATATTTTA
1412 TTTATTAATT
Statistics
Matches: 74, Mismatches: 8, Indels: 12
0.79 0.09 0.13
Matches are distributed among these distances:
76 4 0.05
77 26 0.35
78 2 0.03
79 6 0.08
80 19 0.26
81 16 0.22
82 1 0.01
ACGTcount: A:0.43, C:0.04, G:0.09, T:0.44
Consensus pattern (81 bp):
AATATTTTAAATAAACATTAATAGAATGTAATTTAGATTACTACTCTTTTAATTGATATATATAA
TTCAGAATAATTAAAT
Found at i:2199 original size:36 final size:36
Alignment explanation
Indices: 2159--2437 Score: 283
Period size: 36 Copynumber: 8.0 Consensus size: 36
2149 ATATTGATAT
* ***
2159 TTATATGCATGATATATATATTCTTGCTACTGATGA
1 TTATATGCATGATATACATGCGCTTGCTACTGATGA
* * *
2195 TTATATACATGATATACATGCACTTGCTATTGATGA
1 TTATATGCATGATATACATGCGCTTGCTACTGATGA
* * *
2231 TTATATACATGATATACAT--GTTTGCTA-TTATGA
1 TTATATGCATGATATACATGCGCTTGCTACTGATGA
* *
2264 TTATATGCATGATGTACATGCTCTTGCTACT-A--A
1 TTATATGCATGATATACATGCGCTTGCTACTGATGA
* * * *
2297 TTATTAT--ATGATATACACGCACTTGCTACTAATTA
1 TTA-TATGCATGATATACATGCGCTTGCTACTGATGA
2332 TTATATGCATGATATACATGCGCTTGCTACTGATGA
1 TTATATGCATGATATACATGCGCTTGCTACTGATGA
* * *
2368 TTATATGCATGTTATATATGTGCTTGCTAC---TGA
1 TTATATGCATGATATACATGCGCTTGCTACTGATGA
* *
2401 TTATATGCATGATATACATGTGCTTGCTACTGGTGA
1 TTATATGCATGATATACATGCGCTTGCTACTGATGA
2437 T
1 T
2438 CAATGATGAT
Statistics
Matches: 206, Mismatches: 25, Indels: 24
0.81 0.10 0.09
Matches are distributed among these distances:
32 20 0.10
33 58 0.28
34 12 0.06
35 11 0.05
36 105 0.51
ACGTcount: A:0.29, C:0.14, G:0.15, T:0.41
Consensus pattern (36 bp):
TTATATGCATGATATACATGCGCTTGCTACTGATGA
Found at i:2335 original size:137 final size:136
Alignment explanation
Indices: 2181--2431 Score: 362
Period size: 137 Copynumber: 1.8 Consensus size: 136
2171 TATATATATT
* *
2181 CTTGCTACTGATGATTATATACATGATATACATGCACTTGCTATTGATGATTATATACATGATAT
1 CTTGCTACTAATGATTATATACATGATATACATGCACTTGCTACTGATGATTATATACATGATAT
*
2246 ACATGT-TTGCTATTATGATTATATGCATGATGTACATGCT-CTTGCTACTAATTATTATATGAT
66 ACATGTCTTGCTA--ATGATTATATGCATGATATACATG-TGCTTGCTACTAATTATTATATGAT
2309 ATACACGCA
128 ATACACGCA
* * * * *
2318 CTTGCTACTAATTATTATATGCATGATATACATGCGCTTGCTACTGATGATTATATGCATGTTAT
1 CTTGCTACTAATGATTATATACATGATATACATGCACTTGCTACTGATGATTATATACATGATAT
* *
2383 ATATGTGCTTGCTACTGATTATATGCATGATATACATGTGCTTGCTACT
66 ACATGT-CTTGCTAATGATTATATGCATGATATACATGTGCTTGCTACT
2432 GGTGATCAAT
Statistics
Matches: 101, Mismatches: 10, Indels: 6
0.86 0.09 0.05
Matches are distributed among these distances:
136 1 0.01
137 94 0.93
139 6 0.06
ACGTcount: A:0.29, C:0.15, G:0.15, T:0.41
Consensus pattern (136 bp):
CTTGCTACTAATGATTATATACATGATATACATGCACTTGCTACTGATGATTATATACATGATAT
ACATGTCTTGCTAATGATTATATGCATGATATACATGTGCTTGCTACTAATTATTATATGATATA
CACGCA
Found at i:2430 original size:69 final size:69
Alignment explanation
Indices: 2159--2437 Score: 284
Period size: 69 Copynumber: 4.0 Consensus size: 69
2149 ATATTGATAT
* * * *
2159 TTATATGCATGATATATATATTCTTGCTACTGATGATTATATACATGATATACATGCACTTGCTA
1 TTATATGCATGATATACAT-GTCTTGCTAC--ATGATTATATGCATGATATACATGCGCTTGCTA
*
2224 TTGATGA
63 CTGATGA
* * * *
2231 TTATATACATGATATACATGT-TTGCTATTATGATTATATGCATGATGTACATGCTCTTGCTACT
1 TTATATGCATGATATACATGTCTTGCTA-CATGATTATATGCATGATATACATGCGCTTGCTACT
2295 -A--A
65 GATGA
* * *
2297 TTATTAT--ATGATATACACGCACTTGCTACTAATTATTATATGCATGATATACATGCGCTTGCT
1 TTA-TATGCATGATATACATG-TCTTGCTAC--ATGATTATATGCATGATATACATGCGCTTGCT
2360 ACTGATGA
62 ACTGATGA
* * *
2368 TTATATGCATGTTATATATGTGCTTGCTAC-TGATTATATGCATGATATACATGTGCTTGCTACT
1 TTATATGCATGATATACATGT-CTTGCTACATGATTATATGCATGATATACATGCGCTTGCTACT
*
2432 GGTGA
65 GATGA
2437 T
1 T
2438 CAATGATGAT
Statistics
Matches: 174, Mismatches: 21, Indels: 27
0.78 0.09 0.12
Matches are distributed among these distances:
65 11 0.06
66 4 0.02
67 9 0.05
68 33 0.19
69 69 0.40
70 9 0.05
71 5 0.03
72 34 0.20
ACGTcount: A:0.29, C:0.14, G:0.15, T:0.41
Consensus pattern (69 bp):
TTATATGCATGATATACATGTCTTGCTACATGATTATATGCATGATATACATGCGCTTGCTACTG
ATGA
Found at i:12623 original size:36 final size:36
Alignment explanation
Indices: 12505--12735 Score: 166
Period size: 36 Copynumber: 6.5 Consensus size: 36
12495 GGTCCTGATG
* * * *
12505 ATTATATACATGATATACATACACTTGCTATTGATG
1 ATTATATGCATGATATACATACACTTGCTACTAATT
* *** * *
12541 A-TATATACATGATATACAT-GTGTTGCTA-TCGATG
1 ATTATATGCATGATATACATACACTTGCTACT-AATT
* * ** *
12575 ACTATATGCATGATGTACATATGCTTGTTACTAATT
1 ATTATATGCATGATATACATACACTTGCTACTAATT
**
12611 ATTATATGCATGATATACACGCACTTGCTACTAATT
1 ATTATATGCATGATATACATACACTTGCTACTAATT
* * * * *
12647 ATTATATGCATGATATACATGCGCTTTCTACTGATG
1 ATTATATGCATGATATACATACACTTGCTACTAATT
* ** * *
12683 ATTATATTCATGCA-ATACATGTACTTGCTACTGATG
1 ATTATATGCATG-ATATACATACACTTGCTACTAATT
12719 A-TATATGCATGATATAC
1 ATTATATGCATGATATAC
12736 TTGTGCTTGC
Statistics
Matches: 161, Mismatches: 28, Indels: 13
0.80 0.14 0.06
Matches are distributed among these distances:
33 1 0.01
34 12 0.07
35 47 0.29
36 99 0.61
37 2 0.01
ACGTcount: A:0.32, C:0.15, G:0.14, T:0.39
Consensus pattern (36 bp):
ATTATATGCATGATATACATACACTTGCTACTAATT
Found at i:12658 original size:72 final size:71
Alignment explanation
Indices: 12572--12749 Score: 198
Period size: 72 Copynumber: 2.5 Consensus size: 71
12562 GTTGCTATCG
* * *
12572 ATGACTATATGCATGATGTACATATGCTTGTTACTAATTATTATATGCATG-ATATACACGCACT
1 ATGA-TATATGCATGATATACATGTGCTTGTTACTAATGATTATATGCATGCA-ATACACGCACT
12636 TGCTACTA
64 TGCTACTA
* * * * * *
12644 ATTATTATATGCATGATATACATGCGCTT-TCTACTGATGATTATATTCATGCAATACATGTACT
1 ATGA-TATATGCATGATATACATGTGCTTGT-TACTAATGATTATATGCATGCAATACACGCACT
*
12708 TGCTACTG
64 TGCTACTA
* *
12716 ATGATATATGCATGATATACTTGTGCTTGCTACT
1 ATGATATATGCATGATATACATGTGCTTGTTACT
12750 GGTGATCAAT
Statistics
Matches: 88, Mismatches: 15, Indels: 7
0.80 0.14 0.06
Matches are distributed among these distances:
71 27 0.31
72 60 0.68
73 1 0.01
ACGTcount: A:0.30, C:0.16, G:0.15, T:0.39
Consensus pattern (71 bp):
ATGATATATGCATGATATACATGTGCTTGTTACTAATGATTATATGCATGCAATACACGCACTTG
CTACTA
Found at i:21122 original size:135 final size:135
Alignment explanation
Indices: 20878--21368 Score: 734
Period size: 136 Copynumber: 3.6 Consensus size: 135
20868 TTGTTAGATT
* * * * * *
20878 GAACAAGTTCTTCGCATTATGAACTTCTTCTCTCT-TTTGGATGAGTTTTTCTCACTATGAACTC
1 GAACAAGCTCTTCTCATTATGAACTTCTTCTCCCTCGTTGGATGAGTTCTTCTCATTATGAACTC
* * * * * * *
20942 TTCACTGAAAATGTTGATCGCTCAAGCGAGGCGTCCCTGACTCGAAATG-CTGTGAATCGAGTGA
66 TCCATTGAAAATGTTGATCCCTCAAGCGAGGTGTCACTGATTCGAAATGTC-ATGAATCGAGTGA
21006 TAGGTC
130 TAGGTC
21012 GAACAAGCTCTTCTCATTATGAACTTCTTCTCCCTCGTTGGATGAGTTCTTCTCATTATGAACTC
1 GAACAAGCTCTTCTCATTATGAACTTCTTCTCCCTCGTTGGATGAGTTCTTCTCATTATGAACTC
21077 TCCATTGAAAATGTTGATCCCTCAAGCGAGGTGTCACTGATTCGAAATGTCATGAATCGAGTGAT
66 TCCATTGAAAATGTTGATCCCTCAAGCGAGGTGTCACTGATTCGAAATGTCATGAATCGAGTGAT
21142 AGGTC
131 AGGTC
**
21147 GAACAAGCTCTTCTCATTATGAACTTCTTCTCCCTTTTTCGGATGAGTTCTTCTCATTATGAACT
1 GAACAAGCTCTTCTCATTATGAACTTCTTCTCCCTCGTT-GGATGAGTTCTTCTCATTATGAACT
* ** *
21212 CTCCATTGGAAATGTCAATTCCTCAAGCGAGGTGTCACTGATTCGAAATGTCATGAATCGAGTGA
65 CTCCATTGAAAATGTTGATCCCTCAAGCGAGGTGTCACTGATTCGAAATGTCATGAATCGAGTGA
21277 TAGGTC
130 TAGGTC
* * *
21283 AAACAAGCTCTTCTCATTATGAACTTCTTCTCCCTCTGTCGGATGAGTTTTTCTCATTATGAACT
1 GAACAAGCTCTTCTCATTATGAACTTCTTCTCCCTC-GTTGGATGAGTTCTTCTCATTATGAACT
*
21348 CTCCATTGAAAATGCTGATCC
65 CTCCATTGAAAATGTTGATCC
21369 ACCTTTTTTT
Statistics
Matches: 324, Mismatches: 29, Indels: 6
0.90 0.08 0.02
Matches are distributed among these distances:
134 32 0.10
135 124 0.38
136 167 0.52
137 1 0.00
ACGTcount: A:0.25, C:0.23, G:0.18, T:0.34
Consensus pattern (135 bp):
GAACAAGCTCTTCTCATTATGAACTTCTTCTCCCTCGTTGGATGAGTTCTTCTCATTATGAACTC
TCCATTGAAAATGTTGATCCCTCAAGCGAGGTGTCACTGATTCGAAATGTCATGAATCGAGTGAT
AGGTC
Found at i:22356 original size:15 final size:15
Alignment explanation
Indices: 22335--22370 Score: 56
Period size: 15 Copynumber: 2.4 Consensus size: 15
22325 CTCCTTATTC
22335 ATTTTTCTTTCTTTTT
1 ATTTTTC-TTCTTTTT
22351 -TTTTTCTTCTTTTT
1 ATTTTTCTTCTTTTT
22365 ATTTTT
1 ATTTTT
22371 TCATTTTTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
14 8 0.42
15 11 0.58
ACGTcount: A:0.06, C:0.11, G:0.00, T:0.83
Consensus pattern (15 bp):
ATTTTTCTTCTTTTT
Found at i:22360 original size:14 final size:14
Alignment explanation
Indices: 22336--22380 Score: 56
Period size: 14 Copynumber: 3.1 Consensus size: 14
22326 TCCTTATTCA
22336 TTTTTCTTTCTTTTT
1 TTTTTC-TTCTTTTT
22351 TTTTTCTTCTTTTT
1 TTTTTCTTCTTTTT
*
22365 ATTTT-TTCATTTTT
1 TTTTTCTTC-TTTTT
22379 TT
1 TT
22381 CTTCAAGCAT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
13 3 0.11
14 18 0.67
15 6 0.22
ACGTcount: A:0.04, C:0.11, G:0.00, T:0.84
Consensus pattern (14 bp):
TTTTTCTTCTTTTT
Found at i:38158 original size:23 final size:23
Alignment explanation
Indices: 38132--38179 Score: 78
Period size: 23 Copynumber: 2.1 Consensus size: 23
38122 ACATATTAGA
**
38132 TAGCGCTTATATAATGTAATAGG
1 TAGCGCTTATATAATAAAATAGG
38155 TAGCGCTTATATAATAAAATAGG
1 TAGCGCTTATATAATAAAATAGG
38178 TA
1 TA
38180 TTTAACCGGA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.40, C:0.08, G:0.19, T:0.33
Consensus pattern (23 bp):
TAGCGCTTATATAATAAAATAGG
Found at i:38238 original size:87 final size:87
Alignment explanation
Indices: 38092--38349 Score: 435
Period size: 87 Copynumber: 3.0 Consensus size: 87
38082 ATGTTATATC
*
38092 ATTTAACCGGAAATATTATCAAGTACAATAACATATTAGATAGCGCTTATATAATGTAATAGGTA
1 ATTTAACCGGAAATATTATCAAGTACAATAACATATTAGGTAGCGCTTATATAATGTAATAGGTA
*
38157 GCGCTTATATAATAAAATAGGT
66 GCGCTTATATAATAAAATAGAT
38179 ATTTAACCGGAAATATTATCAAGTACAATAACATATTAGGTAGCGCTTATATAATGTAATAGGTA
1 ATTTAACCGGAAATATTATCAAGTACAATAACATATTAGGTAGCGCTTATATAATGTAATAGGTA
*
38244 GTGCTTATATAATAAAATAGAT
66 GCGCTTATATAATAAAATAGAT
* * * * *
38266 ATTTAACCGTAAATATTATCAAATACAATAACATATTAGGTATCGCTTATATAATATAATAGATA
1 ATTTAACCGGAAATATTATCAAGTACAATAACATATTAGGTAGCGCTTATATAATGTAATAGGTA
*
38331 GCGCTTATATAATATAATA
66 GCGCTTATATAATAAAATA
38350 AGTAGCGCTT
Statistics
Matches: 161, Mismatches: 10, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
87 161 1.00
ACGTcount: A:0.43, C:0.10, G:0.13, T:0.34
Consensus pattern (87 bp):
ATTTAACCGGAAATATTATCAAGTACAATAACATATTAGGTAGCGCTTATATAATGTAATAGGTA
GCGCTTATATAATAAAATAGAT
Found at i:38262 original size:23 final size:23
Alignment explanation
Indices: 38215--38263 Score: 71
Period size: 23 Copynumber: 2.1 Consensus size: 23
38205 AATAACATAT
**
38215 TAGGTAGCGCTTATATAATGTAA
1 TAGGTAGCGCTTATATAATAAAA
*
38238 TAGGTAGTGCTTATATAATAAAA
1 TAGGTAGCGCTTATATAATAAAA
38261 TAG
1 TAG
38264 ATATTTAACC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.39, C:0.06, G:0.20, T:0.35
Consensus pattern (23 bp):
TAGGTAGCGCTTATATAATAAAA
Found at i:38339 original size:21 final size:23
Alignment explanation
Indices: 38309--38372 Score: 103
Period size: 23 Copynumber: 2.8 Consensus size: 23
38299 TATTAGGTAT
38309 CGCTTATATAATATAAT-AGATAG
1 CGCTTATATAATATAATAAG-TAG
38332 CGCTTATATAATATAATAAGTAG
1 CGCTTATATAATATAATAAGTAG
*
38355 CGCTTATATAATAAAATA
1 CGCTTATATAATATAATA
38373 TGTATTTAAC
Statistics
Matches: 39, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
23 37 0.95
24 2 0.05
ACGTcount: A:0.45, C:0.09, G:0.11, T:0.34
Consensus pattern (23 bp):
CGCTTATATAATATAATAAGTAG
Found at i:38340 original size:110 final size:107
Alignment explanation
Indices: 38219--38447 Score: 343
Period size: 110 Copynumber: 2.1 Consensus size: 107
38209 ACATATTAGG
* * * *
38219 TAGCGCTTATATAATGTAATAGGTAGTGCTTATATAATAAAATA-GATATTTAACCGTAAATATT
1 TAGCGCTTATATAATATAATAAGTAGCGCTTATATAATAAAATATG-TATTTAACCGGAAATA-T
*
38283 ATCAAATACAATAACATATTAGGTATCGCTTATATAATATAATAGA
64 -T-AAATACAATAACATATTAGGTAGCGCTTATATAATATAATAGA
38329 TAGCGCTTATATAATATAATAAGTAGCGCTTATATAATAAAATATGTATTTAACCGGAAATATTA
1 TAGCGCTTATATAATATAATAAGTAGCGCTTATATAATAAAATATGTATTTAACCGGAAATATTA
* * *
38394 AGTACAATAACATATTAGGTAGCGCTTATATAATGTAATAGG
66 AATACAATAACATATTAGGTAGCGCTTATATAATATAATAGA
38436 TAGCGCTTATAT
1 TAGCGCTTATAT
38448 TGACCTATTT
Statistics
Matches: 110, Mismatches: 8, Indels: 5
0.89 0.07 0.04
Matches are distributed among these distances:
107 51 0.46
108 1 0.01
109 1 0.01
110 56 0.51
111 1 0.01
ACGTcount: A:0.42, C:0.10, G:0.14, T:0.35
Consensus pattern (107 bp):
TAGCGCTTATATAATATAATAAGTAGCGCTTATATAATAAAATATGTATTTAACCGGAAATATTA
AATACAATAACATATTAGGTAGCGCTTATATAATATAATAGA
Found at i:38889 original size:199 final size:198
Alignment explanation
Indices: 38474--38916 Score: 581
Period size: 199 Copynumber: 2.2 Consensus size: 198
38464 TAAACAGGTA
* * *
38474 ACATTGCAAATTTACCTATTACCTTATAATTATCGGTTTTGATGTTTTTGGGATCGATACAATTT
1 ACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGATGTTTTTGGGATCGATACAATTT
*
38539 TAAATGTATCGACACTTTATGCGTGCACCTCGTTAGGCATTCATTTTGGGAAAAAATATCGACAC
66 TAAATGTATCGACACTTTATGCGTGCACCTCGTTAGGCATTCATTCTGGGAAAAAATATCGACAC
* * *
38604 AAACTTAAAACGTGTATATACATTATGTAGACCTATTTTCTCATAAAACCCGGTATATTTCTACC
131 -AACTTAAAACGTGTATATAAATTATGTAGACCTATTCTCTCATAAAACCCGGTATATTTATACC
38669 GGGT
195 GGGT
* * *
38673 ACATTGTAAATTTACCTATTACATTGTAATTATCGGTTTCAATGTTTTTGGGATCGATAC-TTTT
1 ACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGATGTTTTTGGGATCGATACAATTT
* * * *
38737 AATAAATGTATCGACACTTTATGTGTGCACCTCTTTTGGCATTCATTCT-GGACAAAATGTATCG
66 --TAAATGTATCGACACTTTATGCGTGCACCTCGTTAGGCATTCATTCTGGGA-AAAA-ATATCG
* ** * ** * *
38801 ATAC-TTTTTAAATTTGTTTCGATAAATTATGTTGACCTATTCTCTCATAAAA-CCGGTATATTT
127 ACACAACTTAAAACGTGTAT--ATAAATTATGTAGACCTATTCTCTCATAAAACCCGGTATATTT
*
38864 ATACCGGTT
190 ATACCGGGT
38873 ACATTGT-AATTTACCTATTACATTATAATTATCGGTTTCGATGT
1 ACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGATGT
38917 AACATATGTG
Statistics
Matches: 213, Mismatches: 25, Indels: 12
0.85 0.10 0.05
Matches are distributed among these distances:
198 3 0.01
199 102 0.48
200 72 0.34
201 36 0.17
ACGTcount: A:0.29, C:0.16, G:0.14, T:0.40
Consensus pattern (198 bp):
ACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGATGTTTTTGGGATCGATACAATTT
TAAATGTATCGACACTTTATGCGTGCACCTCGTTAGGCATTCATTCTGGGAAAAAATATCGACAC
AACTTAAAACGTGTATATAAATTATGTAGACCTATTCTCTCATAAAACCCGGTATATTTATACCG
GGT
Found at i:39063 original size:38 final size:38
Alignment explanation
Indices: 38978--39065 Score: 108
Period size: 38 Copynumber: 2.3 Consensus size: 38
38968 TTCTCTCATT
* *
38978 ATAATATAATTAATGATATATTCTTATTATAATAAATA
1 ATAATATAATTTATAATATATTCTTATTATAATAAATA
* *
39016 ATAAAATAATTTATAATA-ATT-TTATTTTAATAAAATA
1 ATAATATAATTTATAATATATTCTTATTATAAT-AAATA
39053 ATAATCATAATTT
1 ATAAT-ATAATTT
39066 TTTTATTTAT
Statistics
Matches: 43, Mismatches: 5, Indels: 4
0.83 0.10 0.08
Matches are distributed among these distances:
36 9 0.21
37 12 0.28
38 22 0.51
ACGTcount: A:0.51, C:0.02, G:0.01, T:0.45
Consensus pattern (38 bp):
ATAATATAATTTATAATATATTCTTATTATAATAAATA
Found at i:39070 original size:31 final size:29
Alignment explanation
Indices: 39014--39073 Score: 75
Period size: 31 Copynumber: 2.0 Consensus size: 29
39004 TTATAATAAA
*
39014 TAATAAAATAATTTATAATAATTTTATTT
1 TAATAAAATAATTCATAATAATTTTATTT
**
39043 TAATAAAATAATAATCATAATTTTTTTATTT
1 TAATAAAATAAT--TCATAATAATTTTATTT
39074 ATAAATTATA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
29 12 0.46
31 14 0.54
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.52
Consensus pattern (29 bp):
TAATAAAATAATTCATAATAATTTTATTT
Found at i:39842 original size:31 final size:28
Alignment explanation
Indices: 39807--39886 Score: 83
Period size: 30 Copynumber: 2.8 Consensus size: 28
39797 TTATAATATT
*
39807 AAATATAATTTATAATAATTTTATTTTAATA
1 AAATATAA-TAATAATAATTTT-TTTT-ATA
*
39838 AAATATAATAATCATAATTTTTTTTATA
1 AAATATAATAATAATAATTTTTTTTATA
39866 AAATTATAGAT-ATAAT-ATTTT
1 AAA-TATA-ATAATAATAATTTT
39887 AATAATAATA
Statistics
Matches: 44, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
28 11 0.25
29 12 0.27
30 13 0.30
31 8 0.18
ACGTcount: A:0.47, C:0.01, G:0.01, T:0.50
Consensus pattern (28 bp):
AAATATAATAATAATAATTTTTTTTATA
Found at i:39859 original size:26 final size:27
Alignment explanation
Indices: 39827--39897 Score: 76
Period size: 28 Copynumber: 2.6 Consensus size: 27
39817 TATAATAATT
39827 TTATTTTAATAAAATATAATA-ATCATAA
1 TTATTTTAATAAAATAT-ATAGAT-ATAA
* *
39855 TTTTTTTTATAAAAT-TATAGATATAA
1 TTATTTTAATAAAATATATAGATATAA
39881 -TATTTTAATAATAATAT
1 TTATTTTAATAA-AATAT
39898 TGACAAAATT
Statistics
Matches: 36, Mismatches: 4, Indels: 7
0.77 0.09 0.15
Matches are distributed among these distances:
25 9 0.25
26 10 0.28
27 4 0.11
28 13 0.36
ACGTcount: A:0.48, C:0.01, G:0.01, T:0.49
Consensus pattern (27 bp):
TTATTTTAATAAAATATATAGATATAA
Found at i:40457 original size:785 final size:789
Alignment explanation
Indices: 38863--42771 Score: 6103
Period size: 784 Copynumber: 5.0 Consensus size: 789
38853 CCGGTATATT
*
38863 TATACCGGTTACATTGT-AATTTACCTATTACATTATAATTATCGGTTTCGATGTAACATATGTG
1 TATACCGATTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGATGTAACATATGTG
*
38927 TCGATACTTTTAGAAAATGTATCGACACATATGTTTAACTATTCTCTCATTATAATATAATTAAT
66 TCAATACTTTTAGAAAATGTATCGACACATATGTTTAACTATTCTCTCATTATAATATAATTAAT
* *
38992 GATATAT-TCTTATTATAATAAATAATAAAATAATTTATAATAATTTTATTTTAAT-AAA-ATAA
131 GATATATATTTTATTATAAT-AATAATAATATAATTTATAATAATTTTATTTTAATAAAATATAA
* *
39054 TAATCATAATTTTTTTATTTATAAATTATAGATATAACATTTTAATAATAATATTGACATAAATA
195 TAATCATAATTTTTTT-TATA-AAATTATAGATATAATATTTTAATAATAATATTGACATAAATA
* * *
39119 ATATTAAATAATTTATTCTAATATTTAACAAAATAATATTATTATTTTCTTAATAAATAATATTA
258 ATATTAAATAAATTATTCTAATATTTTA-AAAATAATATTATTATTTTGTTAATAAATAATATTA
* * *
39184 TTTTATTGTATTTGATTTTTACAATTATATTGTAATTATGATTATTTTTCATCACTTCATCATGA
322 TTTTATTGTATTTGATGTTTATAATTATATTGTAATTATGATTATTTTTCATCACTTCATTATGA
* *
39249 TTATTTTTTAAAATTATATTGTAATTATATATAATTTTTATTATTTTTTTATTTTATTATTAGAA
387 -T-TTTTTTAAAATTATATTGTAATTATATATAATATTT-TT-TTATTTTATTTTATTATTAGAA
* * *
39314 AACTAATATCGAAATAGAAATATTGTGTCATTTTTTTCATTAGTTATATTGTGGCAACTTACAAA
448 AGCTAATATCGAAATAGAAATATCGTGTCCTTTTTTTCATTAGTTATATTGTGGCAACTTACAAA
*
39379 CTAAAAAATTAAAATTAATTTGTATAATTTCTGTTTATTAATTTTATCATTAAAAAATCTATTTT
513 CTAAAAAATTAAAATTAATTTGTATAATTTGTGTTTATTAATTTTATCATTAAAAAATCTATTTT
* **
39444 TACAGGTTTTGTTATTGTTGGAAATAACAAAACCGGT-AAAATTACCTAAAACATTATTATTTCT
578 TACCGGTTTTGTTATTGTTGGGCATAACAAAACCGGTAAAAATTACCTAAAACATTATTATTTCT
* *
39508 ACCTAAAACATCAATGTTTTTTAATATTTCCGGTAAAATGCCCAACAATAACAAAACCGGTAAAA
643 ACCTAAAACATCAATGTTTTTTAACATTTCCGGTAAAATGCCCAACAATAACAAAAACGGTAAAA
*
39573 AAATAACAAAACCGGTAGCGCTTTACCGGTTTTGTTAAAATAATGATGTTTTCGGTAATTTTTAC
708 AAATAACAAAACCAGTAGCGCTTTACCGGTTTTGTTAAAATAATGATGTTTTCGGTAATTTTTAC
39638 CGGTTTTGTTATTGTTG
773 CGGTTTTGTTATTGTTG
* * * *
39655 TATATCGGTTACATTGTAAATTTACCTATTACATTATAGTTATAGGTTTCGATGTAACATATGTG
1 TATACCGATTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGATGTAACATATGTG
* *
39720 TCGATACTTTTAGAAAATGTATCGACACATATTTTTAACTATTCTCTCATTATAATATAATTAAT
66 TCAATACTTTTAGAAAATGTATCGACACATATGTTTAACTATTCTCTCATTATAATATAATTAAT
* *
39785 GATATATAATTT-TTATAAT-ATTA-AATATAATTTATAATAATTTTATTTTAATAAAATATAAT
131 GATATATATTTTATTATAATAATAATAATATAATTTATAATAATTTTATTTTAATAAAATATAAT
39847 AATCATAATTTTTTTTATAAAATTATAGATATAATATTTTAATAATAATATTGACA-AAATTAAT
196 AATCATAATTTTTTTTATAAAATTATAGATATAATATTTTAATAATAATATTGACATAAA-TAAT
*
39911 ATTAAATAAATTATTCTAATATTTTAAAATTAATATTATTATTTTGTTAATAAATAATATTATTT
260 ATTAAATAAATTATTCTAATATTTTAAAAATAATATTATTATTTTGTTAATAAATAATATTATTT
*
39976 TATTGTATTTGATGTTTATAGTTATATTGTAATTATGATTATTTTTCATCACTTCATTATGATTT
325 TATTGTATTTGATGTTTATAATTATATTGTAATTATGATTATTTTTCATCACTTCATTATGATTT
*
40041 TTTT-AAATTATATTGTAATTATATATATATATTTTTTTATTTT-TTTTATTATTAGAAAACTAA
390 TTTTAAAATTATATTGTAATTATATATA-ATATTTTTTTATTTTATTTTATTATTAGAAAGCTAA
* * *
40104 TATCGAAATATAAATATGGTTTCCTTTTTTTCATTAGTTATATTGTGGCAACTTACAAACTAAAA
454 TATCGAAATAGAAATATCGTGTCCTTTTTTTCATTAGTTATATTGTGGCAACTTACAAACTAAAA
40169 AATTAAAATTAATTTGTATAATTTGTGTTTATTAATTTTATCATTAAAAAATCTATTTTTACCGG
519 AATTAAAATTAATTTGTATAATTTGTGTTTATTAATTTTATCATTAAAAAATCTATTTTTACCGG
* * *
40234 GTTTGTTATTGTTGGGCATAACAAAACCGGTAAAACTTACCTAAAATATTATTATTTCTACCTAA
584 TTTTGTTATTGTTGGGCATAACAAAACCGGTAAAAATTACCTAAAACATTATTATTTCTACCTAA
* * *
40299 AACGTCAATATTTTTTAACATTTCCGGTAAAATGCCCAACAATAACAAAACCGGTAAAAAAATAA
649 AACATCAATGTTTTTTAACATTTCCGGTAAAATGCCCAACAATAACAAAAACGGTAAAAAAATAA
* *
40364 CAAAACCAGTAGTG-TTGTACCGGTTTTGTTAAAGTAATGATGTTTTCGGTAATTTTTACCGGTT
714 CAAAACCAGTAGCGCTT-TACCGGTTTTGTTAAAATAATGATGTTTTCGGTAATTTTTACCGGTT
40428 TTGTTATTGTTG
778 TTGTTATTGTTG
*
40440 TATACCAATTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGATGTAACATATGTG
1 TATACCGATTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGATGTAACATATGTG
* *
40505 TCAATACTTTTATAAAATATATCGACACATATGTTTAACTA-T-TCTCA-TATAATA-AATTAAT
66 TCAATACTTTTAGAAAATGTATCGACACATATGTTTAACTATTCTCTCATTATAATATAATTAAT
*
40566 GATATAT-TTTTATTATAATAAATAATAATATAATTTATAATAATTTTGTTTTAATAAAATATAA
131 GATATATATTTTATTATAAT-AATAATAATATAATTTATAATAATTTTATTTTAATAAAATATAA
*
40630 TAATCATAATTTTTTATTTATAAAATTGTAGATATAATATTTTAATAATAATATTGACATAAATA
195 TAATCATAA-TTTTT-TTTATAAAATTATAGATATAATATTTTAATAATAATATTGACATAAATA
40695 ATATTAAATAAATTATTCTAATATTTTAAAAATAATATT-TTATTTTGTTAATAAATAATATTAT
258 ATATTAAATAAATTATTCTAATATTTTAAAAATAATATTATTATTTTGTTAATAAATAATATTAT
* *
40759 TTTAATGTA-TTGATGTTTA-AA-TATATTATAATTATGATTATTTTTCATCACTTCATTATGAT
323 TTTATTGTATTTGATGTTTATAATTATATTGTAATTATGATTATTTTTCATCACTTCATTATGAT
40821 TTTTTTAAAATTATATTGTAATTATATATAA-ATTTTTTTATTTTTTATTTTATTATTAGAAAGC
388 TTTTTTAAAATTATATTGTAATTATATATAATATTTTTTTA--TTTTATTTTATTATTAGAAAGC
* * *
40885 TAATATCGAAATAGAAATATGGTTTCCTTTTTTTCATTAGATATATTGTGGCAACTTACAAACTA
451 TAATATCGAAATAGAAATATCGTGTCCTTTTTTTCATTAGTTATATTGTGGCAACTTACAAACTA
* *
40950 AAAAATTAAAATTAATTTGTATAATTTGTGTTTACTAATTTTATCATTAAAAAGTCTATTTTTAC
516 AAAAATTAAAATTAATTTGTATAATTTGTGTTTATTAATTTTATCATTAAAAAATCTATTTTTAC
* *
41015 CGGTTTTGTTATTGTTGGGCATAACAAAACCGGTAAAATTTACCTAAAATATTATTATTTCTACC
581 CGGTTTTGTTATTGTTGGGCATAACAAAACCGGTAAAAATTACCTAAAACATTATTATTTCTACC
* * *
41080 TAAAACGTCAATGTTTTTTAATATTTCCGGTAAAATGCCCAACAATAACAAAATCGGTAAAAAAA
646 TAAAACATCAATGTTTTTTAACATTTCCGGTAAAATGCCCAACAATAACAAAAACGGTAAAAAAA
* * *
41145 TAACAAAACCAGTAGCG-TTGTACCGGTTTTGTTAAAGTAATGATGTTTTCGGTAATTATTACTG
711 TAACAAAACCAGTAGCGCTT-TACCGGTTTTGTTAAAATAATGATGTTTTCGGTAATTTTTACCG
41209 GTTTTGTTATTGTTG
775 GTTTTGTTATTGTTG
41224 TATACCGATTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGATGTAACATATGTG
1 TATACCGATTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGATGTAACATATGTG
* *
41289 TCAATACTTTTATAAAATATATCGACACATATGTTTAACTATTCTCTCATTATAATATAATTAAT
66 TCAATACTTTTAGAAAATGTATCGACACATATGTTTAACTATTCTCTCATTATAATATAATTAAT
*
41354 GATATATTATTTTTTATTATAATAATAATAATATAATTTATAATATTTTTATTTTAAT-AAA-AT
131 GATATA-TA--TTTTATTATAATAATAATAATATAATTTATAATAATTTTATTTTAATAAAATAT
*
41417 AATAATCATAATTTTTTATTTATAAAATTGTAGATAT-ATATTTTAATAAT-A-ATTGACAT-AA
193 AATAATCATAA-TTTTT-TTTATAAAATTATAGATATAATATTTTAATAATAATATTGACATAAA
41478 -AATATTAAATAAATTA-T-TAATATTTT-AAAA-AATA-TATTATTTTGTTAAT-AAT-ATATT
256 TAATATTAAATAAATTATTCTAATATTTTAAAAATAATATTATTATTTTGTTAATAAATAATATT
*
41535 TTTTTATTGTATTTGATGTTTATAATTATATTGTAATTATGATTATTTTTCATCACTTCATTATG
321 ATTTTATTGTATTTGATGTTTATAATTATATTGTAATTATGATTATTTTTCATCACTTCATTATG
*
41600 ATTTTTTTAAAATTATATTGTAATTATATATAAT-TTTTTTATTTTTTATTTTATTATTAGAAAG
386 ATTTTTTTAAAATTATATTGTAATTATATATAATATTTTTT-TATTTTATTTTATTATTAGAAAG
*
41664 CTAATATCGAAATAGAAATACCGTGTCCTTTTTTTCATTAGTTATATTGTGGCAACTTACAAACT
450 CTAATATCGAAATAGAAATATCGTGTCCTTTTTTTCATTAGTTATATTGTGGCAACTTACAAACT
* * * *
41729 AAAAAATAAAAATTAATTTGTAGAATTTTTGTTT-TCTAATTTTATCATTAAAAAGTCTATTTTT
515 AAAAAATTAAAATTAATTTGTATAATTTGTGTTTAT-TAATTTTATCATTAAAAAATCTATTTTT
* * *
41793 ATCGGTTTTGTTATTGTTGGGCATAACAAAATCGGTAAAAATTACCTAAAACATTATTATTTATA
579 ACCGGTTTTGTTATTGTTGGGCATAACAAAACCGGTAAAAATTACCTAAAACATTATTATTTCTA
*
41858 CCTAAAACATCAATG-TTTTTAACATTTTCGGTAAAATGCCCAACAATAACAAAAACGGTAAAAA
644 CCTAAAACATCAATGTTTTTTAACATTTCCGGTAAAATGCCCAACAATAACAAAAACGGTAAAAA
* * *
41922 AATAACAAAACCAGTAGCGCTTTACCGATTTTGTTAAAATAATAATGTTTTCGGTAATTTTTACA
709 AATAACAAAACCAGTAGCGCTTTACCGGTTTTGTTAAAATAATGATGTTTTCGGTAATTTTTACC
41987 GGTTTTGTTATTGTTG
774 GGTTTTGTTATTGTTG
* *
42003 TAAACCGATTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCAATGTAACATATGTG
1 TATACCGATTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGATGTAACATATGTG
** *
42068 TCAATACTTTTAGAAAATGTATTAACGCATATGTTTAACTA-T-TCTCATTA-AATAATAATTAA
66 TCAATACTTTTAGAAAATGTATCGACACATATGTTTAACTATTCTCTCATTATAAT-ATAATTAA
42130 T-ATAT-TATTCTTATTATAATAAATAATAATATAATTTATAATAATTTTATTTTAATAAAATAT
130 TGATATATATT-TTATTATAAT-AATAATAATATAATTTATAATAATTTTATTTTAATAAAATAT
42193 AATAATCATAATTTTTTATTAT-AAATTATAGATATAATATTTTAATAAT-AT-TTGACATAAAT
193 AATAATCATAATTTTTT-TTATAAAATTATAGATATAATATTTTAATAATAATATTGACATAAAT
42255 AATATTAAATAAATTATTCTAATATTTTAAAAATAATATTATTATTTTGTTAATAAATAATATTA
257 AATATTAAATAAATTATTCTAATATTTTAAAAATAATATTATTATTTTGTTAATAAATAATATTA
* * *
42320 TTTTATTTTATTTGATGTTTATAGTTATATTGTAATTATGATTATTTTTCATCACATCATTATGA
322 TTTTATTGTATTTGATGTTTATAATTATATTGTAATTATGATTATTTTTCATCACTTCATTATGA
42385 TTATTTTTTAAAATTATATTGTAATTATATAT-ATA------TA---T-TTTT-TTATTAGAAAG
387 -T-TTTTTTAAAATTATATTGTAATTATATATAATATTTTTTTATTTTATTTTATTATTAGAAAG
* *
42438 C---TATCGAAATAGAAATACCGTGT-CTTTTTTTCATTAGTTATATTGTGGCAACTTACAAATT
450 CTAATATCGAAATAGAAATATCGTGTCCTTTTTTTCATTAGTTATATTGTGGCAACTTACAAACT
* * * *
42499 AAAAAAATAAAATTAATTTGTATAATAAATGTGTTTACTATTTTTATCATTAAAAAATCTATTTT
515 AAAAAATTAAAATTAATTTGTATAAT--TTGTGTTTATTAATTTTATCATTAAAAAATCTATTTT
* *
42564 TACCGGTTTTATTATTGTTGGGCATAACAAAACCGGTAAAAATTATCTAAAACATTATTATTTCT
578 TACCGGTTTTGTTATTGTTGGGCATAACAAAACCGGTAAAAATTACCTAAAACATTATTATTTCT
* * * * *
42629 ACCTAAAACATCAATGTTTTCTAACATTTCCGGTAAAATGGCCAATAATAACAAAAAAGATAAAA
643 ACCTAAAACATCAATGTTTTTTAACATTTCCGGTAAAATGCCCAACAATAACAAAAACGGT-AAA
*
42694 AAAATAACAAAACC-GATAGCGCTTTACCGATTTTGTTAAAATAATGATGTTTTCGGTAATTTTT
707 AAAATAACAAAACCAG-TAGCGCTTTACCGGTTTTGTTAAAATAATGATGTTTTCGGTAATTTTT
42758 ACCGGTTTTGTTAT
771 ACCGGTTTTGTTAT
42772 GCACAACAAT
Statistics
Matches: 2924, Mismatches: 132, Indels: 140
0.91 0.04 0.04
Matches are distributed among these distances:
770 60 0.02
771 22 0.01
772 109 0.04
773 49 0.02
774 138 0.05
775 37 0.01
776 23 0.01
777 33 0.01
778 16 0.01
779 242 0.08
780 243 0.08
781 115 0.04
782 79 0.03
783 40 0.01
784 762 0.26
785 310 0.11
786 149 0.05
787 22 0.01
788 27 0.01
789 138 0.05
790 95 0.03
791 42 0.01
792 48 0.02
793 123 0.04
794 2 0.00
ACGTcount: A:0.38, C:0.09, G:0.08, T:0.45
Consensus pattern (789 bp):
TATACCGATTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGATGTAACATATGTG
TCAATACTTTTAGAAAATGTATCGACACATATGTTTAACTATTCTCTCATTATAATATAATTAAT
GATATATATTTTATTATAATAATAATAATATAATTTATAATAATTTTATTTTAATAAAATATAAT
AATCATAATTTTTTTTATAAAATTATAGATATAATATTTTAATAATAATATTGACATAAATAATA
TTAAATAAATTATTCTAATATTTTAAAAATAATATTATTATTTTGTTAATAAATAATATTATTTT
ATTGTATTTGATGTTTATAATTATATTGTAATTATGATTATTTTTCATCACTTCATTATGATTTT
TTTAAAATTATATTGTAATTATATATAATATTTTTTTATTTTATTTTATTATTAGAAAGCTAATA
TCGAAATAGAAATATCGTGTCCTTTTTTTCATTAGTTATATTGTGGCAACTTACAAACTAAAAAA
TTAAAATTAATTTGTATAATTTGTGTTTATTAATTTTATCATTAAAAAATCTATTTTTACCGGTT
TTGTTATTGTTGGGCATAACAAAACCGGTAAAAATTACCTAAAACATTATTATTTCTACCTAAAA
CATCAATGTTTTTTAACATTTCCGGTAAAATGCCCAACAATAACAAAAACGGTAAAAAAATAACA
AAACCAGTAGCGCTTTACCGGTTTTGTTAAAATAATGATGTTTTCGGTAATTTTTACCGGTTTTG
TTATTGTTG
Found at i:40573 original size:26 final size:26
Alignment explanation
Indices: 40544--40597 Score: 65
Period size: 26 Copynumber: 2.1 Consensus size: 26
40534 TATGTTTAAC
*
40544 TATTCTCA-TATAATAAATTAATGATA
1 TATTCTCATTATAATAAA-TAATAATA
* *
40570 TATTTTTATTATAATAAATAATAATA
1 TATTCTCATTATAATAAATAATAATA
40596 TA
1 TA
40598 ATTTATAATA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
26 15 0.62
27 9 0.38
ACGTcount: A:0.48, C:0.04, G:0.02, T:0.46
Consensus pattern (26 bp):
TATTCTCATTATAATAAATAATAATA
Found at i:40630 original size:36 final size:36
Alignment explanation
Indices: 40551--40632 Score: 89
Period size: 37 Copynumber: 2.2 Consensus size: 36
40541 AACTATTCTC
*
40551 ATATAATAAATTAATGATATATTTTTATTATAATAA
1 ATATAATAAATTAATAATATATTTTTATTATAATAA
*
40587 ATAATAATATAATTTATAATA-ATTTTGT-TT-TAATAAA
1 AT-ATAATA-AATTAATAATATATTTT-TATTATAAT-AA
40624 ATATAATAA
1 ATATAATAA
40633 TCATAATTTT
Statistics
Matches: 40, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
35 1 0.03
36 12 0.30
37 17 0.43
38 10 0.25
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.46
Consensus pattern (36 bp):
ATATAATAAATTAATAATATATTTTTATTATAATAA
Found at i:40641 original size:30 final size:31
Alignment explanation
Indices: 40586--40655 Score: 81
Period size: 30 Copynumber: 2.3 Consensus size: 31
40576 TATTATAATA
*
40586 AATAATAATATAATTTATAATAATTTTGTT-TT
1 AATAA-AATATAATTAATAATAATTTT-TTATT
*
40618 AATAAAATATAA-TAATCATAATTTTTTATT
1 AATAAAATATAATTAATAATAATTTTTTATT
*
40648 TATAAAAT
1 AATAAAAT
40656 TGTAGATATA
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
29 2 0.06
30 20 0.59
31 7 0.21
32 5 0.15
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.49
Consensus pattern (31 bp):
AATAAAATATAATTAATAATAATTTTTTATT
Found at i:41386 original size:41 final size:37
Alignment explanation
Indices: 41340--41429 Score: 101
Period size: 38 Copynumber: 2.3 Consensus size: 37
41330 TTCTCTCATT
*
41340 ATAATATAATTAATGATATATTATTT-TTTATTATAATAATA
1 ATAATATAATTAAT-A-ATATT-TTTATTT-TAATAA-AATA
*
41381 ATAATATAATTTATAATATTTTTATTTTAATAAAATA
1 ATAATATAATTAATAATATTTTTATTTTAATAAAATA
41418 ATAATCATAATT
1 ATAAT-ATAATT
41430 TTTTATTTAT
Statistics
Matches: 45, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
37 9 0.20
38 14 0.31
39 8 0.18
40 1 0.02
41 13 0.29
ACGTcount: A:0.48, C:0.01, G:0.01, T:0.50
Consensus pattern (37 bp):
ATAATATAATTAATAATATTTTTATTTTAATAAAATA
Found at i:42919 original size:30 final size:31
Alignment explanation
Indices: 42883--42940 Score: 91
Period size: 30 Copynumber: 1.9 Consensus size: 31
42873 TTATGCACAA
42883 CAATAACAAAACCGATACCGT-TTTTTTAGC
1 CAATAACAAAACCGATACCGTCTTTTTTAGC
* *
42913 CAATAACAAAATCGATACTGTCTTTTTT
1 CAATAACAAAACCGATACCGTCTTTTTT
42941 TAATCGTATA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
30 19 0.76
31 6 0.24
ACGTcount: A:0.36, C:0.21, G:0.09, T:0.34
Consensus pattern (31 bp):
CAATAACAAAACCGATACCGTCTTTTTTAGC
Found at i:43317 original size:67 final size:67
Alignment explanation
Indices: 43209--43340 Score: 228
Period size: 67 Copynumber: 2.0 Consensus size: 67
43199 CTTAACTTAG
* * *
43209 CTTGATGTCTAAGCTTTCGGATAATTTTATGAAATGTCCATGTTTAAATTCTAGATCTAAAAAAA
1 CTTGATGTCTAAGCTTTCGGATAATTTTATGAAATGCCCATGTTCAAATTCAAGATCTAAAAAAA
43274 AT
66 AT
*
43276 CTTGATGTCTAAGCTTTTGGATAATTTTATGAAATGCCCATGTTCAAATTCAAGATCTAAAAAAA
1 CTTGATGTCTAAGCTTTCGGATAATTTTATGAAATGCCCATGTTCAAATTCAAGATCTAAAAAAA
43341 TCATTTAGTT
Statistics
Matches: 61, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
67 61 1.00
ACGTcount: A:0.36, C:0.13, G:0.14, T:0.37
Consensus pattern (67 bp):
CTTGATGTCTAAGCTTTCGGATAATTTTATGAAATGCCCATGTTCAAATTCAAGATCTAAAAAAA
AT
Found at i:46612 original size:8 final size:8
Alignment explanation
Indices: 46601--46634 Score: 59
Period size: 8 Copynumber: 4.2 Consensus size: 8
46591 CATATTTATA
46601 TATTTAAT
1 TATTTAAT
46609 TATTTAAT
1 TATTTAAT
*
46617 TATTTAAC
1 TATTTAAT
46625 TATTTAAT
1 TATTTAAT
46633 TA
1 TA
46635 CTATCCGTAT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
8 24 1.00
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (8 bp):
TATTTAAT
Found at i:47148 original size:266 final size:266
Alignment explanation
Indices: 46675--47206 Score: 1000
Period size: 266 Copynumber: 2.0 Consensus size: 266
46665 TACCAAAACT
46675 TATGCTAAAACCGAAATTGCAATAAAAACAATAATAAAACCCGATTAAACACGAATACACCCGGA
1 TATGCTAAAACCGAAATTGCAATAAAAACAATAATAAAACCCGATTAAACACGAATACACCCGGA
46740 CAAATTGAGCGTCTACAGCTGCCCTCTTTGTTCATTGTCGTGGAACGAGAAGAGCAAAGATCAAT
66 CAAATTGAGCGTCTACAGCTGCCCTCTTTGTTCATTGTCGTGGAACGAGAAGAGCAAAGATCAAT
46805 GGATGGTCAAATTTGTCCAGTCGTGAAAAATTCAAAAGATTAATCCGCTTCACTACAACTTCAGG
131 GGATGGTCAAATTTGTCCAGTCGTGAAAAATTCAAAAGATTAATCCGCTTCACTACAACTTCAGG
46870 ATAAGCGAGACTTG-AAAATTCTTCAAAATCGGGTTCGCTCCCTATCGTTTCAGGGAACGTAGAA
196 ATAAGCGAGACTTGAAAAATTCTTCAAAATCGGGTTCGCTCCCTATCGTTTCAGGGAACGTAGAA
46934 CTTGAA
261 CTTGAA
46940 TATGCTAATAACCGAAATTGCAATAAAAACAATAATAAAACCCGATTAAACACGAATA-ACCCCG
1 TATGCTAA-AACCGAAATTGCAATAAAAACAATAATAAAACCCGATTAAACACGAATACA-CCCG
47004 GACAAATTGAGCGTCTACAGCTGCCC-CTTTGTTCATTGTCGTGGAACGAGAATAGAGCAAAGAT
64 GACAAATTGAGCGTCTACAGCTGCCCTCTTTGTTCATTGTCGTGGAACGAG-A-AGAGCAAAGAT
47068 CAATGGATGGTCAAATTTGTCCAGTCGTGAAAAATTCAAAAGA-TAATCCGCTTCACTACAACTT
127 CAATGGATGGTCAAATTTGTCCAGTCGTGAAAAATTCAAAAGATTAATCCGCTTCACTACAACTT
47132 CAGGATAAGCGAGACTTGAAAAATTCTTCAAAATCGGGTTCGCTCCCTATCGTTTCAGGGAACGT
192 CAGGATAAGCGAGACTTGAAAAATTCTTCAAAATCGGGTTCGCTCCCTATCGTTTCAGGGAACGT
47197 AGAACTTGAA
257 AGAACTTGAA
47207 GAATCTTCTG
Statistics
Matches: 262, Mismatches: 0, Indels: 8
0.97 0.00 0.03
Matches are distributed among these distances:
265 33 0.13
266 119 0.45
267 110 0.42
ACGTcount: A:0.36, C:0.21, G:0.18, T:0.24
Consensus pattern (266 bp):
TATGCTAAAACCGAAATTGCAATAAAAACAATAATAAAACCCGATTAAACACGAATACACCCGGA
CAAATTGAGCGTCTACAGCTGCCCTCTTTGTTCATTGTCGTGGAACGAGAAGAGCAAAGATCAAT
GGATGGTCAAATTTGTCCAGTCGTGAAAAATTCAAAAGATTAATCCGCTTCACTACAACTTCAGG
ATAAGCGAGACTTGAAAAATTCTTCAAAATCGGGTTCGCTCCCTATCGTTTCAGGGAACGTAGAA
CTTGAA
Found at i:47353 original size:54 final size:54
Alignment explanation
Indices: 47196--47540 Score: 351
Period size: 54 Copynumber: 6.3 Consensus size: 54
47186 TCAGGGAACG
* *** *
47196 TAGAACTTGAAGAATCTTCTGGGGACGGGTTCGCTCCCTATTGT-TTCAGGGAGTA
1 TAGAACTCGAA-AATCTTCTGCAAACGGGTTCGCTCCCTCTT-TCTTCAGGGAGTA
* * *
47251 TAGAACTCGAATAATCTTCTGCTAACGGGTCCGCTCCCTATTGT-TTCAGGGAGTA
1 TAGAACTCGAA-AATCTTCTGCAAACGGGTTCGCTCCCTCTT-TCTTCAGGGAGTA
* *
47306 TAGAACTC-AAGAATCTTCTGCTAACTGGTTCGCTCCCTCTTTCTTCAGGGAGTA
1 TAGAACTCGAA-AATCTTCTGCAAACGGGTTCGCTCCCTCTTTCTTCAGGGAGTA
* * *
47360 TAGAACTCGAATATCTTCTTCAAACGGGTTCGCTCCCTCTTTCTTCAGGGAGAA
1 TAGAACTCGAAAATCTTCTGCAAACGGGTTCGCTCCCTCTTTCTTCAGGGAGTA
* * * *
47414 TAGAACTCGAATATCTTCTTCAAACGGGTTTGCTCCCTCTTTC-TCTAGGGAGAA
1 TAGAACTCGAAAATCTTCTGCAAACGGGTTCGCTCCCTCTTTCTTC-AGGGAGTA
* ** * * * *
47468 TAGAACTCGAATATCTTCAACAATCGTG-TCTGCTCCCTATTTCTTCAGAGAGTA
1 TAGAACTCGAAAATCTTCTGCAAACGGGTTC-GCTCCCTCTTTCTTCAGGGAGTA
47522 T-GAGACTCGAACAATCTTC
1 TAGA-ACTCGAA-AATCTTC
47541 AATAATCGCG
Statistics
Matches: 258, Mismatches: 25, Indels: 14
0.87 0.08 0.05
Matches are distributed among these distances:
53 6 0.02
54 185 0.72
55 67 0.26
ACGTcount: A:0.24, C:0.24, G:0.20, T:0.32
Consensus pattern (54 bp):
TAGAACTCGAAAATCTTCTGCAAACGGGTTCGCTCCCTCTTTCTTCAGGGAGTA
Found at i:47514 original size:162 final size:163
Alignment explanation
Indices: 47220--47532 Score: 388
Period size: 162 Copynumber: 1.9 Consensus size: 163
47210 TCTTCTGGGG
* *
47220 ACGGGTTCGCTCCCTATTGTTTCAGGGAGTATAGAACTCGAATAATCTTCTGCTAACGGGTCCGC
1 ACGGGTTCGCTCCCTATTGTTTCAGGGAGAATAGAACTCGAATAATCTTCTGCAAACGGGTCCGC
* * ** * *
47285 TCCCTATTGTTTCAGGGAGTATAGAACTCAAGAATCTTCTGCTAACTGGTTCGCTCCCTCTTTCT
66 TCCCTATTGTCTCAGGGAGAATAGAACTCAAGAATCTTCAACTAACTCGTTCGCTCCCTATTTCT
*
47350 TCAGGGAGTAT-AGAACTCGAATATCTTCTTCAA
131 TCAGAGAGTATGAG-ACTCGAATATCTTCTTCAA
* * **
47383 ACGGGTTCGCTCCCTCTT-TCTTCAGGGAGAATAGAACTCGAAT-ATCTTCTTCAAACGGGTTTG
1 ACGGGTTCGCTCCCTATTGT-TTCAGGGAGAATAGAACTCGAATAATCTTCTGCAAACGGGTCCG
* *
47446 CTCCCTCTT-TCTCTAGGGAGAATAGAACTCGAA-TATCTTCAAC-AA-TCGTGTCTGCTCCCTA
65 CTCCCTATTGTCTC-AGGGAGAATAGAACTC-AAGAATCTTCAACTAACTCGT-TC-GCTCCCTA
47507 TTTCTTCAGAGAGTATGAGACTCGAA
126 TTTCTTCAGAGAGTATGAGACTCGAA
47533 CAATCTTCAA
Statistics
Matches: 129, Mismatches: 15, Indels: 13
0.82 0.10 0.08
Matches are distributed among these distances:
160 3 0.02
161 7 0.05
162 76 0.59
163 43 0.33
ACGTcount: A:0.24, C:0.24, G:0.20, T:0.32
Consensus pattern (163 bp):
ACGGGTTCGCTCCCTATTGTTTCAGGGAGAATAGAACTCGAATAATCTTCTGCAAACGGGTCCGC
TCCCTATTGTCTCAGGGAGAATAGAACTCAAGAATCTTCAACTAACTCGTTCGCTCCCTATTTCT
TCAGAGAGTATGAGACTCGAATATCTTCTTCAA
Found at i:47561 original size:55 final size:55
Alignment explanation
Indices: 47472--47709 Score: 304
Period size: 55 Copynumber: 4.4 Consensus size: 55
47462 GGAGAATAGA
* * * *
47472 ACTCGAA-TATCTTCAACAATCGTGTCTGCTCCCTATTTCTTCAGAGAGTATGAG
1 ACTCGAACAATCTTCAATAATCGCGTCTGCTCCCTATTTCTTCAGAGAGTATAAG
*
47526 ACTCGAACAATCTTCAATAATCGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAG
1 ACTCGAACAATCTTCAATAATCGCGTCTGCTCCCTATTTCTTCAGAGAGTATAAG
* ** * * * *
47581 ACTCGAACGATCTTCAACGATTGTGTCTGCGCCCTATATCTTCAGAGAGTATAAG
1 ACTCGAACAATCTTCAATAATCGCGTCTGCTCCCTATTTCTTCAGAGAGTATAAG
* * *
47636 AC-C-CACAATCTTC-ATCAATTGCGTCTGCTCCCTATTTCTTCAGAGAGTATGAG
1 ACTCGAACAATCTTCAAT-AATCGCGTCTGCTCCCTATTTCTTCAGAGAGTATAAG
47689 ACTCGAACAATCTTCAATAAT
1 ACTCGAACAATCTTCAATAAT
47710 TGTTGGGAAA
Statistics
Matches: 158, Mismatches: 21, Indels: 9
0.84 0.11 0.05
Matches are distributed among these distances:
52 1 0.01
53 42 0.27
54 9 0.06
55 104 0.66
56 2 0.01
ACGTcount: A:0.28, C:0.26, G:0.16, T:0.31
Consensus pattern (55 bp):
ACTCGAACAATCTTCAATAATCGCGTCTGCTCCCTATTTCTTCAGAGAGTATAAG
Found at i:47712 original size:108 final size:110
Alignment explanation
Indices: 47472--47712 Score: 337
Period size: 108 Copynumber: 2.2 Consensus size: 110
47462 GGAGAATAGA
* * * * *
47472 ACTCGAA-TATCTTCAACAATCGTGTCTGCTCCCTATTTCTTCAGAGAGTATGAGACTCGAACAA
1 ACTCGAACAATCTTCAACAATTGTGTCTGCGCCCTATATCTTCAGAGAGTATAAGACTCGAACAA
47536 TCTTCAATAATCGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAG
66 TCTTCAATAATCGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAG
* * *
47581 ACTCGAACGATCTTCAACGATTGTGTCTGCGCCCTATATCTTCAGAGAGTATAAGAC-C-CACAA
1 ACTCGAACAATCTTCAACAATTGTGTCTGCGCCCTATATCTTCAGAGAGTATAAGACTCGAACAA
* * *
47644 TCTTC-ATCAATTGCGTCTGCTCCCTATTTCTTCAGAGAGTATGAG
66 TCTTCAAT-AATCGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAG
*
47689 ACTCGAACAATCTTCAATAATTGT
1 ACTCGAACAATCTTCAACAATTGT
47713 TGGGAAATCT
Statistics
Matches: 117, Mismatches: 13, Indels: 5
0.87 0.10 0.04
Matches are distributed among these distances:
107 2 0.02
108 64 0.55
109 8 0.07
110 43 0.37
ACGTcount: A:0.28, C:0.25, G:0.16, T:0.31
Consensus pattern (110 bp):
ACTCGAACAATCTTCAACAATTGTGTCTGCGCCCTATATCTTCAGAGAGTATAAGACTCGAACAA
TCTTCAATAATCGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAG
Found at i:58238 original size:16 final size:16
Alignment explanation
Indices: 58217--58249 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
58207 AACCTTATTC
58217 ACATGATATCTACCCA
1 ACATGATATCTACCCA
58233 ACATGATATCTACCCA
1 ACATGATATCTACCCA
58249 A
1 A
58250 TAATGCTTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.39, C:0.30, G:0.06, T:0.24
Consensus pattern (16 bp):
ACATGATATCTACCCA
Found at i:61594 original size:8 final size:8
Alignment explanation
Indices: 61583--61615 Score: 50
Period size: 8 Copynumber: 4.2 Consensus size: 8
61573 ATATTTTATA
61583 TATTTAAT
1 TATTTAAT
61591 TATTTAAT
1 TATTTAAT
*
61599 TA-TTAAC
1 TATTTAAT
61606 TATTTAAT
1 TATTTAAT
61614 TA
1 TA
61616 CTTATCCGTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
7 6 0.27
8 16 0.73
ACGTcount: A:0.39, C:0.03, G:0.00, T:0.58
Consensus pattern (8 bp):
TATTTAAT
Found at i:61609 original size:15 final size:15
Alignment explanation
Indices: 61586--61615 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
61576 TTTTATATAT
*
61586 TTAATTATTTAATTA
1 TTAACTATTTAATTA
61601 TTAACTATTTAATTA
1 TTAACTATTTAATTA
61616 CTTATCCGTA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.40, C:0.03, G:0.00, T:0.57
Consensus pattern (15 bp):
TTAACTATTTAATTA
Found at i:65328 original size:20 final size:21
Alignment explanation
Indices: 65305--65352 Score: 55
Period size: 20 Copynumber: 2.3 Consensus size: 21
65295 GGATAAAAAT
65305 AAATTTATAATAAAA-ATAT-A
1 AAATTTAT-ATAAAATATATAA
* *
65325 AAATATATTTAAAATATATAA
1 AAATTTATATAAAATATATAA
65346 AAATTTA
1 AAATTTA
65353 AAAATTTTAA
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
19 5 0.22
20 11 0.48
21 7 0.30
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (21 bp):
AAATTTATATAAAATATATAA
Found at i:65331 original size:18 final size:19
Alignment explanation
Indices: 65297--65347 Score: 52
Period size: 17 Copynumber: 2.7 Consensus size: 19
65287 ATTTTAAAGG
**
65297 ATAAAAATA-AATTTATA-
1 ATAAAAATATAAAATATAT
65314 ATAAAAATATAAAATATAT
1 ATAAAAATATAAAATATAT
*
65333 TTAAAATATATAAAA
1 ATAAAA-ATATAAAA
65348 ATTTAAAAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
17 9 0.32
18 6 0.21
19 5 0.18
20 8 0.29
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (19 bp):
ATAAAAATATAAAATATAT
Found at i:67321 original size:2 final size:2
Alignment explanation
Indices: 67314--67339 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
67304 TTTTCATTAA
67314 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
67340 TCTTCACCCC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:68781 original size:2 final size:2
Alignment explanation
Indices: 68774--68804 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
68764 TCAATAAAAG
68774 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
68805 AATAAAGAAG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:70116 original size:2 final size:2
Alignment explanation
Indices: 70109--70172 Score: 121
Period size: 2 Copynumber: 32.5 Consensus size: 2
70099 TATCATTGTG
70109 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
70151 AT AT AT AT AT AT AT AT AT -T AT A
1 AT AT AT AT AT AT AT AT AT AT AT A
70173 AAGTTAAACT
Statistics
Matches: 61, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
1 1 0.02
2 60 0.98
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:77901 original size:2 final size:2
Alignment explanation
Indices: 77894--77922 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
77884 ATAATATGTA
77894 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
77923 CAATTAAAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:78921 original size:37 final size:36
Alignment explanation
Indices: 78874--78950 Score: 111
Period size: 35 Copynumber: 2.1 Consensus size: 36
78864 AAGTATAATA
*
78874 TATATATATATATATAATATCTGATTTTAAAACTATAC
1 TATATATATATATATAATATAT--TTTTAAAACTATAC
*
78912 TATAT-TATATATATAATATATTTTTTAAACTATAC
1 TATATATATATATATAATATATTTTTAAAACTATAC
78947 TATA
1 TATA
78951 CTTAAAATAT
Statistics
Matches: 37, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
35 17 0.46
37 15 0.41
38 5 0.14
ACGTcount: A:0.44, C:0.06, G:0.01, T:0.48
Consensus pattern (36 bp):
TATATATATATATATAATATATTTTTAAAACTATAC
Found at i:78961 original size:16 final size:17
Alignment explanation
Indices: 78936--78968 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
78926 AATATATTTT
*
78936 TTAAACTATAC-TATAC
1 TTAAAATATACATATAC
78952 TTAAAATATACATATAC
1 TTAAAATATACATATAC
78969 ATATGTTTAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.48, C:0.15, G:0.00, T:0.36
Consensus pattern (17 bp):
TTAAAATATACATATAC
Found at i:78961 original size:35 final size:36
Alignment explanation
Indices: 78898--78967 Score: 99
Period size: 35 Copynumber: 2.0 Consensus size: 36
78888 TAATATCTGA
*
78898 TTTTAAAACTATACTATATTATATATATA-ATATAT
1 TTTTAAAACTATACTATATTATAAATATACATATAT
*
78933 TTTTTAAACTATACTATACTTA-AAATATACATATA
1 TTTTAAAACTATACTATA-TTATAAATATACATATA
78968 CATATGTTTA
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
35 23 0.74
36 8 0.26
ACGTcount: A:0.46, C:0.09, G:0.00, T:0.46
Consensus pattern (36 bp):
TTTTAAAACTATACTATATTATAAATATACATATAT
Found at i:88186 original size:21 final size:21
Alignment explanation
Indices: 88161--88254 Score: 161
Period size: 21 Copynumber: 4.5 Consensus size: 21
88151 AAAATAGAGA
* *
88161 TATCGGTACTGCCTAAGAGAG
1 TATCGATACTGCCTAAGGGAG
88182 TATCGATACTGCCTAAGGGAG
1 TATCGATACTGCCTAAGGGAG
88203 TATCGATACTGCCTAAGGGAG
1 TATCGATACTGCCTAAGGGAG
88224 TATCGATACTGCCTAAGGGAG
1 TATCGATACTGCCTAAGGGAG
*
88245 TATTGATACT
1 TATCGATACT
88255 TCCTTTATAA
Statistics
Matches: 70, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 70 1.00
ACGTcount: A:0.29, C:0.18, G:0.27, T:0.27
Consensus pattern (21 bp):
TATCGATACTGCCTAAGGGAG
Found at i:90068 original size:41 final size:41
Alignment explanation
Indices: 90023--90236 Score: 135
Period size: 41 Copynumber: 5.2 Consensus size: 41
90013 GAAATTTTGC
*
90023 GGCGTTTTTATGTAAACGCCACGATAGAGTAGCACTATAGA
1 GGCGTTTTTATGTAAACGCCGCGATAGAGTAGCACTATAGA
* ** ** * * * * *
90064 GGCGTTTTCATACAAACGTTGCAAAAGAGTTGGAC-AGTAGT
1 GGCGTTTTTATGTAAACGCCGCGATAGAGTAGCACTA-TAGA
* * *
90105 GGCGTTTTTTTAGTAAACGTCGCGATAGAGCAGCACTATAGA
1 GGCGTTTTTAT-GTAAACGCCGCGATAGAGTAGCACTATAGA
* * ** * * * * *
90147 GGCATTTTCATACAAACACCGCTATAGAGTTGGAC-AGTAGT
1 GGCGTTTTTATGTAAACGCCGCGATAGAGTAGCACTA-TAGA
* * *
90188 GGCGTTTTTTTAGTAAACGCCACGATAAAGTAGCACTATAGA
1 GGCGTTTTTAT-GTAAACGCCGCGATAGAGTAGCACTATAGA
*
90230 GGTGTTT
1 GGCGTTT
90237 GGTTTACAAA
Statistics
Matches: 120, Mismatches: 47, Indels: 11
0.67 0.26 0.06
Matches are distributed among these distances:
40 2 0.02
41 64 0.53
42 52 0.43
43 2 0.02
ACGTcount: A:0.30, C:0.16, G:0.25, T:0.29
Consensus pattern (41 bp):
GGCGTTTTTATGTAAACGCCGCGATAGAGTAGCACTATAGA
Found at i:90143 original size:83 final size:83
Alignment explanation
Indices: 90023--90236 Score: 313
Period size: 83 Copynumber: 2.6 Consensus size: 83
90013 GAAATTTTGC
* ***
90023 GGCGTTTTTAT-GTAAACGCCACGATAGAGTAGCACTATAGAGGCGTTTTCATACAAACGTTGCA
1 GGCGTTTTTTTAGTAAACGCCACGATAGAGTAGCACTATAGAGGCGTTTTCATACAAACACCGCA
90087 AAAGAGTTGGACAGTAGT
66 AAAGAGTTGGACAGTAGT
* * * * *
90105 GGCGTTTTTTTAGTAAACGTCGCGATAGAGCAGCACTATAGAGGCATTTTCATACAAACACCGCT
1 GGCGTTTTTTTAGTAAACGCCACGATAGAGTAGCACTATAGAGGCGTTTTCATACAAACACCGCA
*
90170 ATAGAGTTGGACAGTAGT
66 AAAGAGTTGGACAGTAGT
* *
90188 GGCGTTTTTTTAGTAAACGCCACGATAAAGTAGCACTATAGAGGTGTTT
1 GGCGTTTTTTTAGTAAACGCCACGATAGAGTAGCACTATAGAGGCGTTT
90237 GGTTTACAAA
Statistics
Matches: 115, Mismatches: 16, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
82 10 0.09
83 105 0.91
ACGTcount: A:0.30, C:0.16, G:0.25, T:0.29
Consensus pattern (83 bp):
GGCGTTTTTTTAGTAAACGCCACGATAGAGTAGCACTATAGAGGCGTTTTCATACAAACACCGCA
AAAGAGTTGGACAGTAGT
Found at i:90382 original size:23 final size:23
Alignment explanation
Indices: 90356--90416 Score: 122
Period size: 23 Copynumber: 2.7 Consensus size: 23
90346 TCAATAGATG
90356 ACGCTCAATATCAGGTACGCCGT
1 ACGCTCAATATCAGGTACGCCGT
90379 ACGCTCAATATCAGGTACGCCGT
1 ACGCTCAATATCAGGTACGCCGT
90402 ACGCTCAATATCAGG
1 ACGCTCAATATCAGG
90417 ATGAAGTTTT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 38 1.00
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.21
Consensus pattern (23 bp):
ACGCTCAATATCAGGTACGCCGT
Found at i:93159 original size:16 final size:16
Alignment explanation
Indices: 93128--93161 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
93118 CTTGCTCCCA
93128 TAAAATTTTATCAATT
1 TAAAATTTTATCAATT
93144 TAAAAGTTTTAT-AATT
1 TAAAA-TTTTATCAATT
93160 TA
1 TA
93162 GGAGTGATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 11 0.65
17 6 0.35
ACGTcount: A:0.44, C:0.03, G:0.03, T:0.50
Consensus pattern (16 bp):
TAAAATTTTATCAATT
Found at i:95522 original size:26 final size:27
Alignment explanation
Indices: 95467--95527 Score: 72
Period size: 26 Copynumber: 2.3 Consensus size: 27
95457 ACAATTTTAA
95467 AAAATAAAATATCAAATAAAAAATAGT
1 AAAATAAAATATCAAATAAAAAATAGT
* **
95494 AAAATAAAA-A-CAACATAAAATATTTT
1 AAAATAAAATATCAA-ATAAAAAATAGT
95520 AAAATAAA
1 AAAATAAA
95528 CATAAAATAT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
25 3 0.10
26 18 0.60
27 9 0.30
ACGTcount: A:0.70, C:0.05, G:0.02, T:0.23
Consensus pattern (27 bp):
AAAATAAAATATCAAATAAAAAATAGT
Found at i:96917 original size:44 final size:44
Alignment explanation
Indices: 96854--97007 Score: 139
Period size: 44 Copynumber: 3.5 Consensus size: 44
96844 ATTGAAATGT
* * * *
96854 TGATCCACCTTCTTCTGTGATGGAATCAAACGAGATGTCGGTGC
1 TGATCCACCTCCTTCTGTGATGGAATCGAACAAGATGTCAGTGC
* * * * * * ** *
96898 TGATCTACCTCCTTCTGTGATAGATTTTGAGCAAAATGAAAATGAC
1 TGATCCACCTCCTTCTGTGATGGA-ATCGAACAAGATGTCAGTG-C
*
96944 -GATCCACCTCCTTCTGTGATGGAATCGAACAAGATGTCAGTGT
1 TGATCCACCTCCTTCTGTGATGGAATCGAACAAGATGTCAGTGC
* *
96987 TGATCTACCTCCTTCAGTGAT
1 TGATCCACCTCCTTCTGTGAT
97008 AAAATCGAGC
Statistics
Matches: 82, Mismatches: 25, Indels: 6
0.73 0.22 0.05
Matches are distributed among these distances:
44 51 0.62
45 30 0.37
46 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.21, T:0.31
Consensus pattern (44 bp):
TGATCCACCTCCTTCTGTGATGGAATCGAACAAGATGTCAGTGC
Found at i:97094 original size:132 final size:132
Alignment explanation
Indices: 96923--97284 Score: 471
Period size: 132 Copynumber: 2.7 Consensus size: 132
96913 TGTGATAGAT
* * *
96923 TTTGAGCAAAATGAAAATGA-CGATCCACCTCCTTCTGTGATGGAATCGAACAAGATGTC-AGTG
1 TTTGAGCGAAATAAAAAT-ATCGATCCACCTCCTTCTGTGATGGAATCGAACGAGATGTCGA-TG
*
96986 TTGATCTACCTCCTTCAGTGATAAAATCGAGCAAAAAGTTGATGCTGACCCAACTAC-TTATGCG
64 TTGATCTACCTCCTTCAGTGATAGAATCGAGCAAAAAGTTGATGCTGACCCAACT-CTTTATGCG
*
97050 ATGGT
128 ATGGA
* * * * **
97055 TTTGAGTGAAATAAAAATATCGATCCACTTCCTTGTGTGATGGATTCGAACGAGATGTCGATACT
1 TTTGAGCGAAATAAAAATATCGATCCACCTCCTTCTGTGATGGAATCGAACGAGATGTCGATGTT
* * * *
97120 GATCTACCTCCTTTTA-TGATAGAATCGAGAAAAAAGTTGATGTTGATCCAACTCTTTATGCGAT
66 GATCTACCTCC-TTCAGTGATAGAATCGAGCAAAAAGTTGATGCTGACCCAACTCTTTATGCGAT
97184 GGA
130 GGA
* * * *
97187 TTTGAGCGAAATAAAAATGTCGATCCACCTCATTCTGTAATGGAATCGAACGAGATATCGATGTT
1 TTTGAGCGAAATAAAAATATCGATCCACCTCCTTCTGTGATGGAATCGAACGAGATGTCGATGTT
* *
97252 GATCTTCCTCCTTCTGTGATAGAATCGAGCAAA
66 GATCTACCTCCTTCAGTGATAGAATCGAGCAAA
97285 CATTTGAACA
Statistics
Matches: 196, Mismatches: 29, Indels: 10
0.83 0.12 0.04
Matches are distributed among these distances:
131 4 0.02
132 188 0.96
133 4 0.02
ACGTcount: A:0.31, C:0.19, G:0.20, T:0.30
Consensus pattern (132 bp):
TTTGAGCGAAATAAAAATATCGATCCACCTCCTTCTGTGATGGAATCGAACGAGATGTCGATGTT
GATCTACCTCCTTCAGTGATAGAATCGAGCAAAAAGTTGATGCTGACCCAACTCTTTATGCGATG
GA
Found at i:97802 original size:30 final size:32
Alignment explanation
Indices: 97768--97858 Score: 98
Period size: 36 Copynumber: 2.8 Consensus size: 32
97758 ACAAAATTCA
97768 TTTCAAGGGAAATGATCTCAAAGATC-AGT-G
1 TTTCAAGGGAAATGATCTCAAAGATCAAGTCG
* *
97798 TTTCAAGGGAAACTG-TCTCAAGAGAGACAAAATTCG
1 TTTCAAGGGAAA-TGATCTCAA-AGA-TC--AAGTCG
97834 TTTCAAGGGAAATGATCTCAAAGAT
1 TTTCAAGGGAAATGATCTCAAAGAT
97859 TTTTGTTTCA
Statistics
Matches: 50, Mismatches: 3, Indels: 12
0.77 0.05 0.18
Matches are distributed among these distances:
30 18 0.36
31 5 0.10
32 1 0.02
35 7 0.14
36 19 0.38
ACGTcount: A:0.38, C:0.14, G:0.22, T:0.25
Consensus pattern (32 bp):
TTTCAAGGGAAATGATCTCAAAGATCAAGTCG
Found at i:97810 original size:66 final size:67
Alignment explanation
Indices: 97729--98058 Score: 355
Period size: 66 Copynumber: 4.9 Consensus size: 67
97719 CAAAGATTTT
* * * * *
97729 GTGTTTCAAGAGAAACTGTCTCTAGGGAGACAAAATTCATTTCAAGGGAAATGATCTCAAAGA-T
1 GTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTCGTTTCAAGAGAAATGATCTCAAAGAGT
97793 CA
66 CA
*
97795 GTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTCGTTTCAAGGGAAATGATCTCAAAGA-T
1 GTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTCGTTTCAAGAGAAATGATCTCAAAGAGT
**
97859 TT
66 CA
* * * * * * *
97861 TTGTTTCAA-GAAAACTGTCTCAAGGGAGACAAAATTTGTTTCAAGAGAAA-CATATACAAAGAT
1 GTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTCGTTTCAAGAGAAATGATCT-CAAAGAG
**
97924 TTT
65 TCA
* * *
97927 GTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGAGAAATTATCTCAAAAGAG
1 GTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTCGTTTCAAGAGAAATGATCTC-AAAGAG
*
97992 ACAAAA
65 TC---A
* *
97998 CTCGTTTCAAGGGAAACTGTCTCAAGAGAGACAAACTTCGTTTCAAGAGAAACTG-TCTCAA
1 GT-GTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTCGTTTCAAGAGAAA-TGATCTCAA
98059 GATGGACAAA
Statistics
Matches: 226, Mismatches: 28, Indels: 15
0.84 0.10 0.06
Matches are distributed among these distances:
64 3 0.01
65 43 0.19
66 79 0.35
67 39 0.17
68 8 0.04
71 3 0.01
72 50 0.22
73 1 0.00
ACGTcount: A:0.39, C:0.15, G:0.20, T:0.26
Consensus pattern (67 bp):
GTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTCGTTTCAAGAGAAATGATCTCAAAGAGT
CA
Found at i:97844 original size:36 final size:36
Alignment explanation
Indices: 97796--98086 Score: 254
Period size: 36 Copynumber: 8.4 Consensus size: 36
97786 CAAAGATCAG
*
97796 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATT
* * **
97832 CGTTTCAAGGGAAA-TGATCTC-A-A-AG---ATTTT
1 TGTTTCAAGAGAAACTG-TCTCAAGAGAGACAAAATT
*
97862 TGTTTCAAGA-AAACTGTCTCAAGGGAGACAAAATT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATT
* * **
97897 TGTTTCAAGAGAAAC-ATAT-ACA-A-AG---ATTTT
1 TGTTTCAAGAGAAACTGTCTCA-AGAGAGACAAAATT
97927 GTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATT
1 -TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATT
* * * *
97964 TGTTTCAAGAGAAATTATCTCAAAAGAGACAAAACT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATT
* * *
98000 CGTTTCAAGGGAAACTGTCTCAAGAGAGACAAACTT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATT
* *
98036 CGTTTCAAGAGAAACTGTCTCAAGATG-GACAAACTT
1 TGTTTCAAGAGAAACTGTCTCAAGA-GAGACAAAATT
*
98072 TGTTTCAAAAGAAAC
1 TGTTTCAAGAGAAAC
98087 AGACTCGGCT
Statistics
Matches: 205, Mismatches: 31, Indels: 38
0.75 0.11 0.14
Matches are distributed among these distances:
29 7 0.03
30 17 0.08
31 15 0.07
32 5 0.02
33 6 0.03
34 4 0.02
35 19 0.09
36 128 0.62
37 4 0.02
ACGTcount: A:0.40, C:0.15, G:0.19, T:0.26
Consensus pattern (36 bp):
TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATT
Found at i:97867 original size:30 final size:30
Alignment explanation
Indices: 97768--97870 Score: 84
Period size: 30 Copynumber: 3.2 Consensus size: 30
97758 ACAAAATTCA
*
97768 TTTCAAGGGAAATGATCTCAAAGATCA-GTG
1 TTTCAAGGGAAATGATCTCAAAGAT-ATTTG
* *
97798 TTTCAAGGGAAACTG-TCTCAAGAGAGACAAAATTCG
1 TTTCAAGGGAAA-TGATCTC-A-A-AG---ATATTTG
*
97834 TTTCAAGGGAAATGATCTCAAAGATTTTTG
1 TTTCAAGGGAAATGATCTCAAAGATATTTG
97864 TTTCAAG
1 TTTCAAG
97871 AAAACTGTCT
Statistics
Matches: 58, Mismatches: 6, Indels: 18
0.71 0.07 0.22
Matches are distributed among these distances:
30 27 0.47
31 3 0.05
32 1 0.02
33 4 0.07
34 1 0.02
35 4 0.07
36 18 0.31
ACGTcount: A:0.36, C:0.14, G:0.21, T:0.29
Consensus pattern (30 bp):
TTTCAAGGGAAATGATCTCAAAGATATTTG
Found at i:97955 original size:132 final size:133
Alignment explanation
Indices: 97718--97987 Score: 393
Period size: 132 Copynumber: 2.0 Consensus size: 133
97708 GAAAACATAA
* * *
97718 TCAAAGATTTTGTGTTTCAAGAGAAACTGTCTCTAGGGAGACAAAATTCATTTCAAGGGAAATGA
1 TCAAAGATTTTGTGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTCATTTCAAGAGAAATCA
* * *
97783 TCTCAAAGATCAGTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTCGTTTCAAGGGAAATG
66 TATCAAAGATCAGTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTCGTTTCAAGAGAAATG
97848 ATC
131 ATC
**
97851 TCAAAGATTTT-TGTTTCAAGA-AAACTGTCTCAAGGGAGACAAAATTTGTTTCAAGAGAAA-CA
1 TCAAAGATTTTGTGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTCATTTCAAGAGAAATCA
** *
97913 TATACAAAGATTTTGTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGAGAAA
66 TAT-CAAAGA-TCAGTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTCGTTTCAAGAGAAA
*
97978 TTATC
129 TGATC
97983 TCAAA
1 TCAAA
97988 AGAGACAAAA
Statistics
Matches: 123, Mismatches: 12, Indels: 5
0.88 0.09 0.04
Matches are distributed among these distances:
130 3 0.02
131 41 0.33
132 68 0.55
133 11 0.09
ACGTcount: A:0.39, C:0.13, G:0.19, T:0.29
Consensus pattern (133 bp):
TCAAAGATTTTGTGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTCATTTCAAGAGAAATCA
TATCAAAGATCAGTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTCGTTTCAAGAGAAATG
ATC
Found at i:98355 original size:42 final size:42
Alignment explanation
Indices: 98269--98369 Score: 134
Period size: 42 Copynumber: 2.4 Consensus size: 42
98259 GGTCTTATGG
* * * *
98269 ATGGCCCGAATGACTTA-TCATCTTGCTCGAAAGTCTTATAA
1 ATGGCCCGAAGGACTTACGCATCATGCTCGAAAGACTTATAA
*
98310 ATGGCCTGAAGGACTTACGCATCATGCTCGAAAGACTTACT-A
1 ATGGCCCGAAGGACTTACGCATCATGCTCGAAAGACTTA-TAA
98352 ATGGCCCGAAGGACTTAC
1 ATGGCCCGAAGGACTTAC
98370 TCGTCAAGAA
Statistics
Matches: 52, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
41 15 0.29
42 36 0.69
43 1 0.02
ACGTcount: A:0.30, C:0.24, G:0.21, T:0.26
Consensus pattern (42 bp):
ATGGCCCGAAGGACTTACGCATCATGCTCGAAAGACTTATAA
Found at i:98564 original size:21 final size:21
Alignment explanation
Indices: 98535--98591 Score: 96
Period size: 21 Copynumber: 2.7 Consensus size: 21
98525 CTTATGGATA
98535 GCTCGAAGGACTTATCATCTT
1 GCTCGAAGGACTTATCATCTT
*
98556 GCTCTAAGGACTTATCATCTT
1 GCTCGAAGGACTTATCATCTT
*
98577 GCTCGAAAGACTTAT
1 GCTCGAAGGACTTAT
98592 AGATGACCCG
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.26, C:0.23, G:0.18, T:0.33
Consensus pattern (21 bp):
GCTCGAAGGACTTATCATCTT
Found at i:98742 original size:43 final size:43
Alignment explanation
Indices: 98695--98911 Score: 308
Period size: 43 Copynumber: 5.0 Consensus size: 43
98685 AGTTTCTTAG
* **
98695 TTGTCATCAAGGAACCCCTACATATCACGTTGGTCCTTTGAGC
1 TTGTCATCAAGGAACCCCTACATATCACGTTGGTCCCTCAAGC
*
98738 TTGTCATCAAGGAACCCCTACATATCACATTGGTCCCTCAAGC
1 TTGTCATCAAGGAACCCCTACATATCACGTTGGTCCCTCAAGC
*
98781 TTGTCATCAAGGAATCCCTACATATCACGTTGGTCCCTCAAGC
1 TTGTCATCAAGGAACCCCTACATATCACGTTGGTCCCTCAAGC
* * ** * * *
98824 TTATCATCAAGGAACCCTTACATATCATATTAGTCCTTCAATC
1 TTGTCATCAAGGAACCCCTACATATCACGTTGGTCCCTCAAGC
* *
98867 TTGTCATCAAGGAACCCCTACATATCATGTTGGTCTCTCAAGC
1 TTGTCATCAAGGAACCCCTACATATCACGTTGGTCCCTCAAGC
98910 TT
1 TT
98912 AGTTTCTTAT
Statistics
Matches: 153, Mismatches: 21, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
43 153 1.00
ACGTcount: A:0.27, C:0.29, G:0.14, T:0.30
Consensus pattern (43 bp):
TTGTCATCAAGGAACCCCTACATATCACGTTGGTCCCTCAAGC
Found at i:100965 original size:9 final size:9
Alignment explanation
Indices: 100953--100986 Score: 52
Period size: 8 Copynumber: 3.8 Consensus size: 9
100943 TTTATTTTTG
100953 TTTTTCTAT
1 TTTTTCTAT
100962 TTTTTCTA-
1 TTTTTCTAT
100970 TTTTTCTAT
1 TTTTTCTAT
100979 ATTTTTCT
1 -TTTTTCT
100987 TCTTTTCTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
8 8 0.35
9 8 0.35
10 7 0.30
ACGTcount: A:0.12, C:0.12, G:0.00, T:0.76
Consensus pattern (9 bp):
TTTTTCTAT
Found at i:100972 original size:33 final size:32
Alignment explanation
Indices: 100922--100984 Score: 83
Period size: 33 Copynumber: 1.9 Consensus size: 32
100912 TTCCTTTCTC
* *
100922 TTTTTATTTCTTTTATTTTTGTTTATTTTTGT
1 TTTTTATTTCTTTTATTTTTCTATATTTTTGT
100954 TTTTCTATTT-TTTCTATTTTTCTATATTTTT
1 TTTT-TATTTCTTT-TATTTTTCTATATTTTT
100985 CTTCTTTTCT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
32 7 0.26
33 20 0.74
ACGTcount: A:0.11, C:0.06, G:0.03, T:0.79
Consensus pattern (32 bp):
TTTTTATTTCTTTTATTTTTCTATATTTTTGT
Found at i:100994 original size:18 final size:17
Alignment explanation
Indices: 100953--100986 Score: 59
Period size: 17 Copynumber: 1.9 Consensus size: 17
100943 TTTATTTTTG
100953 TTTTTCTATTTTTTCTA
1 TTTTTCTATTTTTTCTA
100970 TTTTTCTATATTTTTCT
1 TTTTTCTAT-TTTTTCT
100987 TCTTTTCTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.12, C:0.12, G:0.00, T:0.76
Consensus pattern (17 bp):
TTTTTCTATTTTTTCTA
Found at i:102149 original size:21 final size:21
Alignment explanation
Indices: 102123--102162 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
102113 CATTGAGATG
102123 CAATGTATACTATGC-AATGTA
1 CAATGTATA-TATGCTAATGTA
102144 CAATGTATATATGCTAATG
1 CAATGTATATATGCTAATG
102163 CAAAGATGCA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.38, C:0.12, G:0.15, T:0.35
Consensus pattern (21 bp):
CAATGTATATATGCTAATGTA
Found at i:105052 original size:16 final size:16
Alignment explanation
Indices: 105027--105066 Score: 55
Period size: 16 Copynumber: 2.5 Consensus size: 16
105017 TATCAAATAA
*
105027 AAAATTAAAA-AACAGT
1 AAAATAAAAACAACA-T
105043 AAAATAAAAACAACAT
1 AAAATAAAAACAACAT
105059 AAAATAAA
1 AAAATAAA
105067 TTAAAATAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 18 0.82
17 4 0.18
ACGTcount: A:0.75, C:0.07, G:0.03, T:0.15
Consensus pattern (16 bp):
AAAATAAAAACAACAT
Found at i:105066 original size:21 final size:21
Alignment explanation
Indices: 105042--105085 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
105032 TAAAAAACAG
105042 TAAAATAAAA-ACAACATAAAA
1 TAAAATAAAATA-AACATAAAA
*
105063 TAAATTAAAATAAACATAAAA
1 TAAAATAAAATAAACATAAAA
105084 TA
1 TA
105086 TAAGGACCTA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 20 0.95
22 1 0.05
ACGTcount: A:0.73, C:0.07, G:0.00, T:0.20
Consensus pattern (21 bp):
TAAAATAAAATAAACATAAAA
Found at i:111781 original size:16 final size:17
Alignment explanation
Indices: 111753--111786 Score: 61
Period size: 16 Copynumber: 2.1 Consensus size: 17
111743 TACGACAGAA
111753 TATTTATTTTTATAATT
1 TATTTATTTTTATAATT
111770 TATTTA-TTTTATAATT
1 TATTTATTTTTATAATT
111786 T
1 T
111787 TTTTTGTCAG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 11 0.65
17 6 0.35
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (17 bp):
TATTTATTTTTATAATT
Found at i:112788 original size:30 final size:29
Alignment explanation
Indices: 112747--112897 Score: 112
Period size: 31 Copynumber: 5.1 Consensus size: 29
112737 TTAAGAAAAT
*
112747 AATAAAATATATTTAATAATTTAAAATAA
1 AATAAAATATATTTAATAAATTAAAATAA
* *
112776 CAATATAATATATTTAATAAATTAAGATAA
1 -AATAAAATATATTTAATAAATTAAAATAA
* *
112806 AAT---ATATACTTTGATAAGTTAAAATAA
1 AATAAAATATA-TTTAATAAATTAAAATAA
* * *
112833 TAATAAAATATGTTTTTAA-AAGTTTAAATAA
1 -AATAAAATA--TATTTAATAAATTAAAATAA
** *
112864 GAATAAAATATATATTTTTAAATAAAAATAA
1 -AATAAAATATAT-TTAATAAATTAAAATAA
112895 AAT
1 AAT
112898 GTTTATAATA
Statistics
Matches: 96, Mismatches: 16, Indels: 18
0.74 0.12 0.14
Matches are distributed among these distances:
26 5 0.05
27 15 0.16
28 3 0.03
29 5 0.05
30 31 0.32
31 32 0.33
32 4 0.04
33 1 0.01
ACGTcount: A:0.57, C:0.01, G:0.04, T:0.38
Consensus pattern (29 bp):
AATAAAATATATTTAATAAATTAAAATAA
Found at i:112827 original size:27 final size:27
Alignment explanation
Indices: 112742--112837 Score: 95
Period size: 27 Copynumber: 3.4 Consensus size: 27
112732 TTTAATTAAG
* *
112742 AAAATAATAAAATATATTTAATAATTT
1 AAAATAATAATATATATTTAATAAATT
*
112769 AAAATAACAATATAATATATTTAATAAATT
1 AAAATAA-TA-AT-ATATATTTAATAAATT
* * *
112799 AAGATAA-AATATATACTTTGATAAGTT
1 AAAATAATAATATATA-TTTAATAAATT
112826 AAAATAATAATA
1 AAAATAATAATA
112838 AAATATGTTT
Statistics
Matches: 57, Mismatches: 7, Indels: 9
0.78 0.10 0.12
Matches are distributed among these distances:
26 5 0.09
27 24 0.42
28 6 0.11
29 1 0.02
30 21 0.37
ACGTcount: A:0.58, C:0.02, G:0.03, T:0.36
Consensus pattern (27 bp):
AAAATAATAATATATATTTAATAAATT
Found at i:113913 original size:2 final size:2
Alignment explanation
Indices: 113906--113948 Score: 77
Period size: 2 Copynumber: 21.5 Consensus size: 2
113896 AAGGCTACCA
*
113906 AT AT AT AT AT AT AT AT AT AT AT AT AT GT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
113948 A
1 A
113949 ATGAAACTTC
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (2 bp):
AT
Found at i:117659 original size:106 final size:103
Alignment explanation
Indices: 117513--117776 Score: 271
Period size: 103 Copynumber: 2.5 Consensus size: 103
117503 ATCATAAGTG
* * ** * * * *
117513 ACAAAATTATCATAATTTTTATAAATTATAGTGTCCAACATTTTGTTACTAAAAACATACTAATT
1 ACAAATTTATCATAATTTCTATTGATAATAGTGTCCAACATTTGGTCACTAAAAA-A-A-T-AGT
* *
117578 GTGA-TAATATTGATGGTCATAAAATATATTTTTGGTGTC-AA
62 GTGACT-ATATTGATAGTCATAAAATATATTTTTGGTATCAAA
* **
117619 ACAAATTTATTATAATTTCTATTGATAATAGTGTTGAACATTTGGTCACTAAAAAAATAGTGTGA
1 ACAAATTTATCATAATTTCTATTGATAATAGTGTCCAACATTTGGTCACTAAAAAAATAGTGTGA
* *
117684 CTATATTTATAGTCATAAAATATATTTTTTGTATCAAA
66 CTATATTGATAGTCATAAAATATATTTTTGGTATCAAA
* * * * * * *
117722 AAAAATTCATCACAATTTCTATTGATAATAATGTCAAATATGTGGTCACTAAAAA
1 ACAAATTTATCATAATTTCTATTGATAATAGTGTCCAACATTTGGTCACTAAAAA
117777 TACTTAATAT
Statistics
Matches: 132, Mismatches: 24, Indels: 7
0.81 0.15 0.04
Matches are distributed among these distances:
102 35 0.27
103 50 0.38
104 1 0.01
105 1 0.01
106 45 0.34
ACGTcount: A:0.41, C:0.09, G:0.10, T:0.39
Consensus pattern (103 bp):
ACAAATTTATCATAATTTCTATTGATAATAGTGTCCAACATTTGGTCACTAAAAAAATAGTGTGA
CTATATTGATAGTCATAAAATATATTTTTGGTATCAAA
Found at i:118076 original size:3 final size:3
Alignment explanation
Indices: 118068--118100 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
118058 TCATTAAGTT
118068 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
118101 AATTTCCTTA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:118371 original size:13 final size:13
Alignment explanation
Indices: 118355--118384 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
118345 TTTAATTGCG
118355 AAAATTAAAAATT
1 AAAATTAAAAATT
*
118368 AAAATTAAAATTT
1 AAAATTAAAAATT
118381 AAAA
1 AAAA
118385 ACTCGATTCG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (13 bp):
AAAATTAAAAATT
Found at i:119958 original size:15 final size:15
Alignment explanation
Indices: 119910--119970 Score: 54
Period size: 15 Copynumber: 4.2 Consensus size: 15
119900 GACCCTGACA
119910 AAAAT-AAATGAAAT
1 AAAATAAAATGAAAT
* * * *
119924 TAAATTAAATTAGAT
1 AAAATAAAATGAAAT
*
119939 -TAATAAAATGAAAT
1 AAAATAAAATGAAAT
*
119953 AAAATAAAATAAAAT
1 AAAATAAAATGAAAT
119968 AAA
1 AAA
119971 TATTAATAAT
Statistics
Matches: 36, Mismatches: 9, Indels: 3
0.75 0.19 0.06
Matches are distributed among these distances:
14 14 0.39
15 22 0.61
ACGTcount: A:0.69, C:0.00, G:0.05, T:0.26
Consensus pattern (15 bp):
AAAATAAAATGAAAT
Found at i:119984 original size:6 final size:5
Alignment explanation
Indices: 119940--119970 Score: 53
Period size: 5 Copynumber: 6.2 Consensus size: 5
119930 AAATTAGATT
*
119940 AATAA AATGA AATAA AATAA AATAA AATAA A
1 AATAA AATAA AATAA AATAA AATAA AATAA A
119971 TATTAATAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.77, C:0.00, G:0.03, T:0.19
Consensus pattern (5 bp):
AATAA
Found at i:120056 original size:29 final size:29
Alignment explanation
Indices: 120017--120093 Score: 81
Period size: 29 Copynumber: 2.6 Consensus size: 29
120007 TCAAAAAAAA
120017 TTTAAACTATATATTATATTTAAAAATG-T
1 TTTAAA-TATATATTATATTTAAAAATGAT
120046 TTTCAAATATAT-TATATAGTTTTAAAAATGAT
1 TTT-AAATATATAT-TATA--TTTAAAAATGAT
120078 TTTAAA-A-ATATTATAT
1 TTTAAATATATATTATAT
120094 AAGTTTTCCA
Statistics
Matches: 42, Mismatches: 0, Indels: 14
0.75 0.00 0.25
Matches are distributed among these distances:
27 1 0.02
28 1 0.02
29 18 0.43
30 5 0.12
31 13 0.31
32 4 0.10
ACGTcount: A:0.45, C:0.03, G:0.04, T:0.48
Consensus pattern (29 bp):
TTTAAATATATATTATATTTAAAAATGAT
Found at i:120062 original size:32 final size:32
Alignment explanation
Indices: 120026--120100 Score: 93
Period size: 31 Copynumber: 2.4 Consensus size: 32
120016 ATTTAAACTA
*
120026 TATATTA-TATTTAAAAATG-TTTTCAAATATAT
1 TATATTAGT-TTTAAAAATGATTTT-AAAAATAT
120058 TATA-TAGTTTTAAAAATGATTTTAAAAATAT
1 TATATTAGTTTTAAAAATGATTTTAAAAATAT
*
120089 TATATAAGTTTT
1 TATATTAGTTTT
120101 CCAAAATGTT
Statistics
Matches: 38, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
31 23 0.61
32 15 0.39
ACGTcount: A:0.44, C:0.01, G:0.05, T:0.49
Consensus pattern (32 bp):
TATATTAGTTTTAAAAATGATTTTAAAAATAT
Found at i:120107 original size:33 final size:31
Alignment explanation
Indices: 120035--120112 Score: 104
Period size: 31 Copynumber: 2.5 Consensus size: 31
120025 ATATATTATA
*
120035 TTTAAAAATGTTTTCAAATATATTATATAGT
1 TTTAAAAATGTTTTCAAAAATATTATATAGT
120066 TTTAAAAATGATTTT-AAAAATATTATATAAGT
1 TTTAAAAATG-TTTTCAAAAATATTATAT-AGT
*
120098 TTTCCAAAATGTTTT
1 TTT-AAAAATGTTTT
120113 TTTAAAACTA
Statistics
Matches: 42, Mismatches: 2, Indels: 5
0.86 0.04 0.10
Matches are distributed among these distances:
31 22 0.52
32 14 0.33
33 6 0.14
ACGTcount: A:0.42, C:0.04, G:0.06, T:0.47
Consensus pattern (31 bp):
TTTAAAAATGTTTTCAAAAATATTATATAGT
Found at i:120134 original size:39 final size:40
Alignment explanation
Indices: 120085--120172 Score: 124
Period size: 40 Copynumber: 2.2 Consensus size: 40
120075 GATTTTAAAA
* * * *
120085 ATATTATATAAGTTTTC-CAAAATGTTTTTTTAAAACTAT
1 ATATTATATAAATTTTCAAAAAATATTTTTTAAAAACTAT
*
120124 ATGTTATATAAATTTTCAAAAAATATTTTTTAAAAACTAT
1 ATATTATATAAATTTTCAAAAAATATTTTTTAAAAACTAT
120164 ATATTATAT
1 ATATTATAT
120173 TTTCAAATGA
Statistics
Matches: 42, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
39 15 0.36
40 27 0.64
ACGTcount: A:0.43, C:0.06, G:0.03, T:0.48
Consensus pattern (40 bp):
ATATTATATAAATTTTCAAAAAATATTTTTTAAAAACTAT
Found at i:121057 original size:84 final size:84
Alignment explanation
Indices: 120969--121789 Score: 670
Period size: 84 Copynumber: 9.9 Consensus size: 84
120959 GTTTGTCTCT
** * * *
120969 GAGCTGAATGTAATCGAACTCGAAGGTCTTCGGTTGGCAGATAGCCCTTCTCGACTTAAGCTATA
1 GAGCTGAGCGTAATCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATA
121034 CTGCAAATGATGTGCCTTG
66 CTGCAAATGATGTGCCTTG
* * * * * * * *
121053 GAGCTGAGCGTAGTCAAACTCGAAGGTCTTTGG-TGACAAATAACCCTTCTAGCCTTGAGTTATG
1 GAGCTGAGCGTAATCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATA
* * *
121117 CTGTAAATGATGTTCCCTCG
66 CTGCAAATGATG-TGCCTTG
* * * * * * *
121137 AAGCTAAGTGTAATCGAACTCGAGGGTC--T--TTGGCAGATAGCCCTTCTCGACTTAAGCTAAA
1 GAGCTGAGCGTAATCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATA
121198 CTGCAAATGATGTGCCTTG
66 CTGCAAATGATGTGCCTTG
* * * *
121217 GAGCTTAGCGTAGTCGAACTCAAAAGGTCTTTGGTTGGCAGATAACCCTTATCGACTTAAGTTAT
1 GAGCTGAGCGTAATCGAACTC-GAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTAT
* * *
121282 GCTTCAAATGATGTGCCCTTC
65 ACTGCAAATGATGTG-CCTTG
* * * * * * * * * *
121303 AAGCTGAGTGTAATCAAACTCG-AGGGC-CT--TTGGCAGATAGCCCTTTTAGCCTTGAGTTATA
1 GAGCTGAGCGTAATCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATA
*** * *
121364 CCATAAATGTTGTGTCGTT-
66 CTGCAAATGATGTG-CCTTG
* * * * *
121383 GAGCTGAGCGTAATCGAACTCAAAGGTCTTTTGG-TGACAGATAACCCTTCTAGTCTTGAGTTAT
1 GAGCTGAGCGTAATCGAACTCGAAGGTC-TTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTAT
* ** *
121447 GA-TGTAAATGAAATGCCCTG
65 -ACTGCAAATGATGTGCCTTG
* * * * * * * *
121467 GAGCTGA-TGTAATCGAGCTCGAAGGTCTTTTGATGGCAAATAGCCCTTCTCGATTTAAGCTATA
1 GAGCTGAGCGTAATCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATA
121531 CTGCAAATGATGTGCCTTG
66 CTGCAAATGATGTGCCTTG
* * * * * * * *
121550 GAGTTGAGCGTAGTCGAACTCGAAGGTCTTTGG-TGACATATAACCCTTCTAGCCTTGAGTTATG
1 GAGCTGAGCGTAATCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATA
** * **
121614 CTATAAATGTTGTGCCCTCA
66 CTGCAAATGATGTG-CCTTG
* * * * * *
121634 AAGCTGAGTGTAATCGAACTCGAGGGTC--T--TTGGCAGATAGCCCTTCTCGACTTAAGCTATG
1 GAGCTGAGCGTAATCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATA
* * *
121695 TTACAAATGATGTGCTTTG
66 CTGCAAATGATGTGCCTTG
* * *
121714 GAGCTGAGCGTAGTTGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATG
1 GAGCTGAGCGTAATCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATA
121779 CTGCAAATGAT
66 CTGCAAATGAT
121790 TTATTTAAAA
Statistics
Matches: 567, Mismatches: 146, Indels: 48
0.75 0.19 0.06
Matches are distributed among these distances:
80 65 0.11
81 116 0.20
82 8 0.01
83 131 0.23
84 186 0.33
85 41 0.07
86 20 0.04
ACGTcount: A:0.26, C:0.20, G:0.24, T:0.30
Consensus pattern (84 bp):
GAGCTGAGCGTAATCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATA
CTGCAAATGATGTGCCTTG
Found at i:121347 original size:166 final size:164
Alignment explanation
Indices: 120970--121789 Score: 966
Period size: 166 Copynumber: 4.9 Consensus size: 164
120960 TTTGTCTCTG
* * *
120970 AGCTGAATGTAATCGAACTCGAAGGTCTTCGGTTGGCAGATAGCCCTTCTCGACTTAAGCTATAC
1 AGCTGAGTGTAATCGAACTCG-AGGGC--C-TTTGGCAGATAGCCCTTCTCGACTTAAGCTATAC
* *
121035 TGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCAAACTCGAAGGTCTTTGGTGACAAATAACCCT
62 TGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTGACAGATAACCCT
* * *
121100 TCTAGCCTTGAGTTATGCTGTAAATGATGTTCCCTCGA
127 TCTAGACTTGAGTTATGCTGTAAATGATGTGCCCTCAA
* * *
121138 AGCTAAGTGTAATCGAACTCGAGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTAAACTGCA
1 AGCTGAGTGTAATCGAACTCGAGGGCCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATACTGCA
* * * *
121203 AATGATGTGCCTTGGAGCTTAGCGTAGTCGAACTCAAAAGGTCTTTGGTTGGCAGATAACCCTTA
66 AATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTC-GAAGGTCTTTGG-TGACAGATAACCCTTC
* *
121268 TCGACTTAAGTTATGCT-TCAAATGATGTGCCCTTC-A
129 TAGACTTGAGTTATGCTGT-AAATGATGTGCCC-TCAA
* * * * * * ***
121304 AGCTGAGTGTAATCAAACTCGAGGGCCTTTGGCAGATAGCCCTTTTAGCCTTGAGTTATACCATA
1 AGCTGAGTGTAATCGAACTCGAGGGCCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATACTGCA
* * * *
121369 AATGTTGTGTCGTT-GAGCTGAGCGTAATCGAACTCAAAGGTCTTTTGGTGACAGATAACCCTTC
66 AATGATGTG-CCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTC-TTTGGTGACAGATAACCCTTC
* * ** **
121433 TAGTCTTGAGTTATGATGTAAATGAAATGCCCT-GG
129 TAGACTTGAGTTATGCTGTAAATGATGTGCCCTCAA
* * * * *
121468 AGCTGA-TGTAATCGAGCTCGAAGGTCTTTTGATGGCAAATAGCCCTTCTCGATTTAAGCTATAC
1 AGCTGAGTGTAATCGAACTCG-AGGGC-CTT--TGGCAGATAGCCCTTCTCGACTTAAGCTATAC
* *
121532 TGCAAATGATGTGCCTTGGAGTTGAGCGTAGTCGAACTCGAAGGTCTTTGGTGACATATAACCCT
62 TGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTGACAGATAACCCT
* * *
121597 TCTAGCCTTGAGTTATGCTATAAATGTTGTGCCCTCAA
127 TCTAGACTTGAGTTATGCTGTAAATGATGTGCCCTCAA
* ** *
121635 AGCTGAGTGTAATCGAACTCGAGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATGTTACA
1 AGCTGAGTGTAATCGAACTCGAGGGCCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATACTGCA
* * *
121700 AATGATGTGCTTTGGAGCTGAGCGTAGTTGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCT
66 AATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGG-TGACAGATAACCCTTCT
* * *
121765 CGACTTAAGTTATGCTGCAAATGAT
130 AGACTTGAGTTATGCTGTAAATGAT
121790 TTATTTAAAA
Statistics
Matches: 547, Mismatches: 89, Indels: 35
0.82 0.13 0.05
Matches are distributed among these distances:
163 12 0.02
164 155 0.28
165 94 0.17
166 178 0.33
167 76 0.14
168 32 0.06
ACGTcount: A:0.26, C:0.20, G:0.24, T:0.30
Consensus pattern (164 bp):
AGCTGAGTGTAATCGAACTCGAGGGCCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATACTGCA
AATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTGACAGATAACCCTTCTA
GACTTGAGTTATGCTGTAAATGATGTGCCCTCAA
Found at i:121614 original size:331 final size:330
Alignment explanation
Indices: 121002--121788 Score: 1005
Period size: 331 Copynumber: 2.4 Consensus size: 330
120992 AGGTCTTCGG
* ** *
121002 TTGGCAGATAGCCCTTCTCGACTTAAGCTATACTGCAAATGATGTGCCTTGGAGCTGAGCGTAGT
1 TTGGCAGATAGCCCTTCTAGACTTAAGCTATACCACAAATGATGTGCGTTGGAGCTGAGCGTAGT
* * * ** *
121067 CAAACTCGAAGGTCTTTGGTGACAAATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATGTTC
66 CGAACTCGAAGGTCTTTGGTGACAGATAACCCTTCTAGACTTGAGTTATGCTGTAAATGAAATGC
* *
121132 CCTCGAAGCTAAGTGTAATCGAACTCGAGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTAA
131 CCTCGAAGCTAAGTGTAATCGAACTCGAAGGTCTTTGGCAAATAGCCCTTCTCGACTTAAGCTAA
*
121197 ACTGCAAATGATGTGCCTTGGAGCTTAGCGTAGTCGAACTCAAAAGGTCTTTGGTTGGCAGATAA
196 ACTGCAAATGATGTGCCTTGGAGCTTAGCGTAGTCGAACTCAAAAGGTCTTTGGTTGACAGATAA
*
121262 CCCTTATCGACTTAAGTTATGCT-TCAAATGATGTGCCCTTC-AAGCTGAGTGTAATCAAACTCG
261 CCCTTATAGACTTAAGTTATGCTAT-AAATGATGTGCCC-TCAAAGCTGAGTGTAATCAAACTCG
121325 AGGGCCT
324 AGGGCCT
* * * * * * *
121332 TTGGCAGATAGCCCTTTTAGCCTTGAGTTATACCATAAATGTTGTGTCGTT-GAGCTGAGCGTAA
1 TTGGCAGATAGCCCTTCTAGACTTAAGCTATACCACAAATGATGTG-CGTTGGAGCTGAGCGTAG
* * *
121396 TCGAACTCAAAGGTCTTTTGGTGACAGATAACCCTTCTAGTCTTGAGTTATGATGTAAATGAAAT
65 TCGAACTCGAAGGTC-TTTGGTGACAGATAACCCTTCTAGACTTGAGTTATGCTGTAAATGAAAT
* * * *
121461 GCCCT-GGAGCTGA-TGTAATCGAGCTCGAAGGTCTTTTGATGGCAAATAGCCCTTCTCGATTTA
129 GCCCTCGAAGCTAAGTGTAATCGAACTCGAAGGTC--TT--TGGCAAATAGCCCTTCTCGACTTA
* *
121524 AGCTATACTGCAAATGATGTGCCTTGGAG-TTGAGCGTAGTCGAACTC-GAAGGTCTTTGG-TGA
190 AGCTAAACTGCAAATGATGTGCCTTGGAGCTT-AGCGTAGTCGAACTCAAAAGGTCTTTGGTTGA
* * * * * *
121586 CATATAACCCTTCTAGCCTTGAGTTATGCTATAAATGTTGTGCCCTCAAAGCTGAGTGTAATCGA
254 CAGATAACCCTTATAGACTTAAGTTATGCTATAAATGATGTGCCCTCAAAGCTGAGTGTAATCAA
*
121651 ACTCGAGGGTCT
319 ACTCGAGGGCCT
* *** *
121663 TTGGCAGATAGCCCTTCTCGACTTAAGCTATGTTACAAATGATGTGCTTTGGAGCTGAGCGTAGT
1 TTGGCAGATAGCCCTTCTAGACTTAAGCTATACCACAAATGATGTGCGTTGGAGCTGAGCGTAGT
* * * * *
121728 TGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGA
66 CGAACTCGAAGGTCTTTGG-TGACAGATAACCCTTCTAGACTTGAGTTATGCTGTAAATGA
121789 TTTATTTAAA
Statistics
Matches: 390, Mismatches: 56, Indels: 21
0.84 0.12 0.04
Matches are distributed among these distances:
329 18 0.05
330 78 0.20
331 215 0.55
332 14 0.04
333 65 0.17
ACGTcount: A:0.26, C:0.20, G:0.24, T:0.31
Consensus pattern (330 bp):
TTGGCAGATAGCCCTTCTAGACTTAAGCTATACCACAAATGATGTGCGTTGGAGCTGAGCGTAGT
CGAACTCGAAGGTCTTTGGTGACAGATAACCCTTCTAGACTTGAGTTATGCTGTAAATGAAATGC
CCTCGAAGCTAAGTGTAATCGAACTCGAAGGTCTTTGGCAAATAGCCCTTCTCGACTTAAGCTAA
ACTGCAAATGATGTGCCTTGGAGCTTAGCGTAGTCGAACTCAAAAGGTCTTTGGTTGACAGATAA
CCCTTATAGACTTAAGTTATGCTATAAATGATGTGCCCTCAAAGCTGAGTGTAATCAAACTCGAG
GGCCT
Found at i:125612 original size:4 final size:4
Alignment explanation
Indices: 125603--125628 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
125593 TGAAAGAGAA
125603 AAAT AAAT AAAT AAAT AAAT AAAT AA
1 AAAT AAAT AAAT AAAT AAAT AAAT AA
125629 GAGTTAGTGA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (4 bp):
AAAT
Found at i:127900 original size:13 final size:13
Alignment explanation
Indices: 127882--127908 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
127872 CTTTGGTGTC
127882 ACCGTGGTTGGGT
1 ACCGTGGTTGGGT
127895 ACCGTGGTTGGGT
1 ACCGTGGTTGGGT
127908 A
1 A
127909 TTTATACCCA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.11, C:0.15, G:0.44, T:0.30
Consensus pattern (13 bp):
ACCGTGGTTGGGT
Found at i:128248 original size:6 final size:5
Alignment explanation
Indices: 128199--128234 Score: 54
Period size: 5 Copynumber: 7.2 Consensus size: 5
128189 AAATTAGATT
* *
128199 AATAA AATGA AATGA AATAA AATAA AATAA AATAA A
1 AATAA AATAA AATAA AATAA AATAA AATAA AATAA A
128235 TATTAATAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
5 29 1.00
ACGTcount: A:0.75, C:0.00, G:0.06, T:0.19
Consensus pattern (5 bp):
AATAA
Found at i:128322 original size:24 final size:23
Alignment explanation
Indices: 128295--128354 Score: 59
Period size: 24 Copynumber: 2.5 Consensus size: 23
128285 AACTATATAT
*
128295 TATATTTAAAAACGTTTTCAAAAC
1 TATATTTAAAAA-GTTTTCAAAAA
* *
128319 TATATATTATATAGTTTTCAAAAA
1 TATAT-TTAAAAAGTTTTCAAAAA
128343 TGAT-TTTAAAAA
1 T-ATATTTAAAAA
128355 TATTATATAA
Statistics
Matches: 29, Mismatches: 5, Indels: 5
0.74 0.13 0.13
Matches are distributed among these distances:
23 5 0.17
24 17 0.59
25 7 0.24
ACGTcount: A:0.47, C:0.07, G:0.05, T:0.42
Consensus pattern (23 bp):
TATATTTAAAAAGTTTTCAAAAA
Found at i:128400 original size:39 final size:39
Alignment explanation
Indices: 128309--128586 Score: 204
Period size: 37 Copynumber: 7.6 Consensus size: 39
128299 TTTAAAAACG
*
128309 TTTTCAAAACTATATATTATAT-AGTTTTCAAAAATG--
1 TTTTTAAAACTATATATTATATAAGTTTTCAAAAATGTT
* *
128345 ATTTT-AAA--A-ATATTATATAAGTTTTCCAAAATGTT
1 TTTTTAAAACTATATATTATATAAGTTTTCAAAAATGTT
* *
128380 TTTTTAAAACTATATGTTATATAAATTTTCAAAAAATGTT
1 TTTTTAAAACTATATATTATATAAGTTTTC-AAAAATGTT
*
128420 TTTTAAAAACTATATA-T-TAT-A-TTTTC-AAAATG--
1 TTTTTAAAACTATATATTATATAAGTTTTCAAAAATGTT
* * *
128452 ATTTCAAAACTATATACTATATAA-TTTTC-AAAATG--
1 TTTTTAAAACTATATATTATATAAGTTTTCAAAAATGTT
* *
128487 -TTTTAAAACTTATATATTGTACATAAGTTTTCAAAAACGTT
1 TTTTTAAAAC-TATATA-T-TATATAAGTTTTCAAAAATGTT
*** * *
128528 TTAAAAAAACTATATAATATAT-A--TTTCAAAAAATATT
1 TTTTTAAAACTATATATTATATAAGTTTTC-AAAAATGTT
*
128565 TTTTGAAAACTATATATTATAT
1 TTTTTAAAACTATATATTATAT
128587 TTTTCAAAAA
Statistics
Matches: 196, Mismatches: 26, Indels: 39
0.75 0.10 0.15
Matches are distributed among these distances:
32 23 0.12
33 15 0.08
34 17 0.09
35 25 0.13
36 15 0.08
37 32 0.16
38 10 0.05
39 25 0.13
40 22 0.11
41 6 0.03
42 6 0.03
ACGTcount: A:0.44, C:0.07, G:0.04, T:0.44
Consensus pattern (39 bp):
TTTTTAAAACTATATATTATATAAGTTTTCAAAAATGTT
Found at i:128415 original size:109 final size:106
Alignment explanation
Indices: 128302--128559 Score: 271
Period size: 109 Copynumber: 2.4 Consensus size: 106
128292 TATTATATTT
* *
128302 AAAAACGTTTTCAAAACTATATATTATATAGTTTTCAAAAATGATTTTAAAA-ATAT-TATATAA
1 AAAAACGTTTTAAAAACTATATA-TATATA-TTTTCAAAAATGATTTCAAAACATATATATATAA
*
128365 GTTTTCCAAAATGTTTTTTTAAAAC-TATAT-GT-TATATAAATTTTC
64 -TTTT-CAAAATG---TTTTAAAACTTATATAGTGTACATAAATTTTC
*
128410 AAAAAATGTTTTTTAAAAACTATATAT-TATATTTTC-AAAATGATTTCAAAACTATATACTATA
1 -AAAAACG--TTTTAAAAACTATATATATATATTTTCAAAAATGATTTCAAAAC-ATATA-TATA
* *
128473 TAATTTTCAAAATGTTTTAAAACTTATATATTGTACATAAGTTTTC
61 TAATTTTCAAAATGTTTTAAAACTTATATAGTGTACATAAATTTTC
128519 AAAAACGTTTTAAAAAAACTATATA-ATATATATTTCAAAAA
1 AAAAACGTTTT--AAAAACTATATATATATAT-TTTCAAAAA
128560 ATATTTTTTG
Statistics
Matches: 128, Mismatches: 7, Indels: 27
0.79 0.04 0.17
Matches are distributed among these distances:
106 13 0.10
107 19 0.15
108 29 0.23
109 36 0.28
110 9 0.07
111 22 0.17
ACGTcount: A:0.45, C:0.08, G:0.05, T:0.42
Consensus pattern (106 bp):
AAAAACGTTTTAAAAACTATATATATATATTTTCAAAAATGATTTCAAAACATATATATATAATT
TTCAAAATGTTTTAAAACTTATATAGTGTACATAAATTTTC
Found at i:128482 original size:35 final size:34
Alignment explanation
Indices: 128284--128503 Score: 174
Period size: 34 Copynumber: 6.4 Consensus size: 34
128274 AAAAAAAATT
* *
128284 AAACTATATAT-TAT-A-TTTAAAAACG-TTTTCA
1 AAACTATATATATATAATTTTCAAAATGATTTT-A
*
128315 AAACTATATATTATATAGTTTTCAAAAATGATTTTA
1 AAACTATATA-TATATAATTTTC-AAAATGATTTTA
*
128351 AAA--ATAT-TATATAAGTTTTCCAAAATGTTTTTTTA
1 AAACTATATATATATAA-TTTT-CAAAATG--ATTTTA
* *
128386 AAACTATATGTTATATAAATTTTCAAAAAATGTTTTTTAA
1 AAACTATAT-ATATAT-AATTTTC--AAAATG-ATTTT-A
*
128426 AAACTATATAT-TAT-ATTTTCAAAATGATTTCA
1 AAACTATATATATATAATTTTCAAAATGATTTTA
128458 AAACTATATACTATATAATTTTCAAAATG-TTTTA
1 AAACTATATA-TATATAATTTTCAAAATGATTTTA
128492 AAACT-TATATAT
1 AAACTATATATAT
128504 TGTACATAAG
Statistics
Matches: 159, Mismatches: 9, Indels: 41
0.76 0.04 0.20
Matches are distributed among these distances:
31 10 0.06
32 21 0.13
33 21 0.13
34 23 0.14
35 23 0.14
36 15 0.09
37 8 0.05
38 4 0.03
39 16 0.10
40 18 0.11
ACGTcount: A:0.44, C:0.07, G:0.04, T:0.45
Consensus pattern (34 bp):
AAACTATATATATATAATTTTCAAAATGATTTTA
Found at i:136267 original size:22 final size:23
Alignment explanation
Indices: 136224--136268 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
136214 ATTATTACTC
136224 AAAATGAAAATAGTTTAGATAAA
1 AAAATGAAAATAGTTTAGATAAA
* *
136247 AAAATTAAAATTGTTTA-ATAAA
1 AAAATGAAAATAGTTTAGATAAA
136269 TAATATTTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 5 0.25
23 15 0.75
ACGTcount: A:0.60, C:0.00, G:0.09, T:0.31
Consensus pattern (23 bp):
AAAATGAAAATAGTTTAGATAAA
Found at i:136961 original size:27 final size:26
Alignment explanation
Indices: 136911--136970 Score: 68
Period size: 27 Copynumber: 2.3 Consensus size: 26
136901 GAGATCACGC
* * *
136911 AATAA-AATAAAATAAAATATATATT
1 AATAATAATAAAATAAAACACATATG
136936 AATAATAATAATAATAAAACACATATG
1 AATAATAATAA-AATAAAACACATATG
*
136963 AACAATAA
1 AATAATAA
136971 ACAAAAATGA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
25 5 0.17
26 5 0.17
27 19 0.66
ACGTcount: A:0.67, C:0.05, G:0.02, T:0.27
Consensus pattern (26 bp):
AATAATAATAAAATAAAACACATATG
Found at i:137200 original size:19 final size:20
Alignment explanation
Indices: 137163--137206 Score: 81
Period size: 20 Copynumber: 2.2 Consensus size: 20
137153 GATTTATAAA
137163 AAAAAGTATAATAAGATACT
1 AAAAAGTATAATAAGATACT
137183 AAAAAGTATAATAA-ATACT
1 AAAAAGTATAATAAGATACT
137202 AAAAA
1 AAAAA
137207 AATGAAAAGG
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
19 10 0.42
20 14 0.58
ACGTcount: A:0.66, C:0.05, G:0.07, T:0.23
Consensus pattern (20 bp):
AAAAAGTATAATAAGATACT
Found at i:139058 original size:105 final size:105
Alignment explanation
Indices: 138875--139554 Score: 1144
Period size: 105 Copynumber: 6.5 Consensus size: 105
138865 CCAATGTAGG
* * * *
138875 TTGCGTTGTTTCGAGGCCAATATCCTTCGTTTGCGAAGTTGAAATTGGCTCTGAAATTGAGAAAT
1 TTGCGTTGTCTGGAGTCCAATATCCTTCG-TTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAAT
*
138940 GTTTGTTGACAACCAACGGTCCCTTCGTCGTGAAGTTGAAC
65 GTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAAC
* * *
138981 TTGCGTTGTCTGGAGCCCAATATCCTTCGTTTTGAAGTTGAAATTGGCTCTGAAATTAAGAAATG
1 TTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATG
*
139046 TTTGTTGACAACCAGTGGTCCCTTCGTCGTGAAGTTGAAC
66 TTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAAC
* * *
139086 TTGAGTTGTCTAGAGTCCAATATCCTTCGTTGTGAAGTTGAAACTGGCTCTGAAATTGAGAAATG
1 TTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATG
*
139151 TTTGTTGACAACCAGCGGTCCCTTCATCGTGAAGTTGAAC
66 TTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAAC
* *
139191 TTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTAAAACTGGCTCTGAAATTGAGAAATG
1 TTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATG
139256 TTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAAC
66 TTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAAC
* *
139296 TTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGGAATCGAGAAATG
1 TTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATG
* *
139361 GTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTAAAC
66 TTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAAC
* *
139401 TTGCGCTGTCTGGAGTCCAATATCCTTCGTTATGAAGTTGAAATTGGCTCTGAAATTGAGAAATG
1 TTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATG
*
139466 GTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAAC
66 TTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAAC
*
139506 TTACGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCT
1 TTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCT
139555 ATGGGTAAAA
Statistics
Matches: 540, Mismatches: 34, Indels: 1
0.94 0.06 0.00
Matches are distributed among these distances:
105 514 0.95
106 26 0.05
ACGTcount: A:0.24, C:0.19, G:0.25, T:0.33
Consensus pattern (105 bp):
TTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATG
TTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAAC
Found at i:150821 original size:27 final size:27
Alignment explanation
Indices: 150772--150831 Score: 68
Period size: 27 Copynumber: 2.2 Consensus size: 27
150762 AATAAAATAA
* * * *
150772 AATAAAATATATAAAATATATATTAAT
1 AATAAAATATATAAAACACATATGAAC
150799 AATAATAATA-ATAAAACACATATGAAC
1 AATAA-AATATATAAAACACATATGAAC
150826 AATAAA
1 AATAAA
150832 CAAAAATGAG
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
26 1 0.04
27 23 0.82
28 4 0.14
ACGTcount: A:0.65, C:0.05, G:0.02, T:0.28
Consensus pattern (27 bp):
AATAAAATATATAAAACACATATGAAC
Found at i:150969 original size:2 final size:2
Alignment explanation
Indices: 150962--150988 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
150952 ACTAAATAAA
150962 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
150989 CGCGTTAATA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:151059 original size:20 final size:19
Alignment explanation
Indices: 151034--151077 Score: 79
Period size: 20 Copynumber: 2.3 Consensus size: 19
151024 ATTTATAAAA
151034 AAAAAGTATAATAAGATACT
1 AAAAAGTATAATAA-ATACT
151054 AAAAAGTATAATAAATACT
1 AAAAAGTATAATAAATACT
151073 AAAAA
1 AAAAA
151078 AATGGAAAGG
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
19 10 0.42
20 14 0.58
ACGTcount: A:0.66, C:0.05, G:0.07, T:0.23
Consensus pattern (19 bp):
AAAAAGTATAATAAATACT
Found at i:152408 original size:36 final size:39
Alignment explanation
Indices: 152345--152432 Score: 121
Period size: 36 Copynumber: 2.3 Consensus size: 39
152335 TTCAAAGAAT
*
152345 GTAACATTTTCGGTTGTCAACCGAAAATGTTAA-AGAAAA
1 GTAACATTTTAGGTTGTCAACCGAAAATGTTAAGA-AAAA
152384 -TAACATTTTAGG-T-TCAACCGAAAATGTTAAGAAAAA
1 GTAACATTTTAGGTTGTCAACCGAAAATGTTAAGAAAAA
*
152420 GTAACCTTTTAGG
1 GTAACATTTTAGG
152433 ATTAATTATC
Statistics
Matches: 45, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
36 21 0.47
37 13 0.29
38 11 0.24
ACGTcount: A:0.41, C:0.12, G:0.17, T:0.30
Consensus pattern (39 bp):
GTAACATTTTAGGTTGTCAACCGAAAATGTTAAGAAAAA
Found at i:157184 original size:19 final size:19
Alignment explanation
Indices: 157135--157186 Score: 77
Period size: 19 Copynumber: 2.7 Consensus size: 19
157125 GAATGCAATT
*
157135 AGTGCATCGATACATAAGG
1 AGTGCATCGATGCATAAGG
157154 AGTGCATCGATGCATAAGG
1 AGTGCATCGATGCATAAGG
* *
157173 TGTGCATTGATGCA
1 AGTGCATCGATGCA
157187 CCCCATTAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 30 1.00
ACGTcount: A:0.31, C:0.15, G:0.29, T:0.25
Consensus pattern (19 bp):
AGTGCATCGATGCATAAGG
Found at i:157585 original size:24 final size:25
Alignment explanation
Indices: 157567--157614 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
157557 TTAGGGTTAT
157567 TAAAGCATAAACATGTAGGGATAAC
1 TAAAGCATAAACATGTAGGGATAAC
* *
157592 TGAAGCATAAACATGTAGTGATA
1 TAAAGCATAAACATGTAGGGATA
157615 TGGTGCTAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.46, C:0.10, G:0.21, T:0.23
Consensus pattern (25 bp):
TAAAGCATAAACATGTAGGGATAAC
Found at i:160998 original size:21 final size:21
Alignment explanation
Indices: 160957--160998 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
160947 TTCTGGGTAT
* *
160957 TGTGTATCGATGCATCTTCAA
1 TGTGTATCGATGCACCCTCAA
*
160978 TGTGTATCGATGTACCCTCAA
1 TGTGTATCGATGCACCCTCAA
160999 ATAAATGAAC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.24, C:0.21, G:0.19, T:0.36
Consensus pattern (21 bp):
TGTGTATCGATGCACCCTCAA
Found at i:161462 original size:25 final size:25
Alignment explanation
Indices: 161433--161482 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
161423 GATTAGGGGT
161433 ACTGAAGCATAAACATGTAGGGATA
1 ACTGAAGCATAAACATGTAGGGATA
*
161458 ACTGAAGCATAAACATGTAGTGATA
1 ACTGAAGCATAAACATGTAGGGATA
161483 TGGTGCTAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.44, C:0.12, G:0.22, T:0.22
Consensus pattern (25 bp):
ACTGAAGCATAAACATGTAGGGATA
Found at i:161920 original size:18 final size:18
Alignment explanation
Indices: 161874--161909 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
161864 AGGGTTCTAC
161874 GTGGTCCTACGGGACATA
1 GTGGTCCTACGGGACATA
*
161892 GTGGTCCTACGGGGCATA
1 GTGGTCCTACGGGACATA
161910 TGTGTTCTAC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.19, C:0.22, G:0.36, T:0.22
Consensus pattern (18 bp):
GTGGTCCTACGGGACATA
Found at i:168351 original size:2 final size:2
Alignment explanation
Indices: 168346--168375 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
168336 ATATATGTTA
168346 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
168376 GAATGAATAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:171944 original size:15 final size:14
Alignment explanation
Indices: 171926--171972 Score: 53
Period size: 13 Copynumber: 3.4 Consensus size: 14
171916 ATCATATGAA
*
171926 ATGTGATAGAGAGCT
1 ATGTGATA-AGAACT
171941 ATGTGA-AAGAACT
1 ATGTGATAAGAACT
*
171954 ATGTGATATGAA-T
1 ATGTGATAAGAACT
171967 ATGTGA
1 ATGTGA
171973 ATGTGTAATA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
13 18 0.62
14 5 0.17
15 6 0.21
ACGTcount: A:0.38, C:0.04, G:0.28, T:0.30
Consensus pattern (14 bp):
ATGTGATAAGAACT
Found at i:176315 original size:17 final size:18
Alignment explanation
Indices: 176282--176315 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
176272 TCAATTCTGT
*
176282 CTTATTATTTAATTCCAA
1 CTTATCATTTAATTCCAA
176300 CTTATCATTT-ATTCCA
1 CTTATCATTTAATTCCA
176316 GACCTTTCTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.29, C:0.21, G:0.00, T:0.50
Consensus pattern (18 bp):
CTTATCATTTAATTCCAA
Found at i:178980 original size:29 final size:27
Alignment explanation
Indices: 178948--179065 Score: 78
Period size: 29 Copynumber: 4.0 Consensus size: 27
178938 AAATATTTAA
178948 AATATATTTATTAATATTTCTAATAATAT
1 AATATATTTA-TAATATTT-TAATAATAT
*
178977 AATATA-ATATAATATTTTTAATATTATAAT
1 AATATATTTATAATA-TTTTAATA--AT-AT
*
179007 AAAATATTTA-AATTATATTATAATAATAT
1 AATATATTTATAA-TAT-TT-TAATAATAT
* **
179036 AAGATATTATATTTTTATTTTAATAATAT
1 AATATATT-TA-TAATATTTTAATAATAT
179065 A
1 A
179066 TAATCAATTA
Statistics
Matches: 72, Mismatches: 6, Indels: 22
0.72 0.06 0.22
Matches are distributed among these distances:
27 10 0.14
28 5 0.07
29 27 0.38
30 16 0.22
31 9 0.12
32 5 0.07
ACGTcount: A:0.48, C:0.01, G:0.01, T:0.50
Consensus pattern (27 bp):
AATATATTTATAATATTTTAATAATAT
Found at i:178989 original size:27 final size:27
Alignment explanation
Indices: 178959--179013 Score: 83
Period size: 27 Copynumber: 2.0 Consensus size: 27
178949 ATATATTTAT
*
178959 TAATATTTCTAATAATATAATATAATA
1 TAATATTTCTAATAATATAATAAAATA
* *
178986 TAATATTTTTAATATTATAATAAAATA
1 TAATATTTCTAATAATATAATAAAATA
179013 T
1 T
179014 TTAAATTATA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (27 bp):
TAATATTTCTAATAATATAATAAAATA
Found at i:179023 original size:19 final size:22
Alignment explanation
Indices: 178979--179031 Score: 67
Period size: 20 Copynumber: 2.5 Consensus size: 22
178969 AATAATATAA
*
178979 TATAATATAATATTTTTAATAT
1 TATAATATAATATATTTAATAT
179001 TATAATA-AA-ATATTTAA-AT
1 TATAATATAATATATTTAATAT
*
179020 TATATTATAATA
1 TATAATATAATA
179032 ATATAAGATA
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
19 8 0.30
20 9 0.33
21 3 0.11
22 7 0.26
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (22 bp):
TATAATATAATATATTTAATAT
Found at i:179031 original size:59 final size:60
Alignment explanation
Indices: 178968--179216 Score: 159
Period size: 63 Copynumber: 4.0 Consensus size: 60
178958 TTAATATTTC
178968 TAATAATATAATATAATATAATAT-TTTTAATATTATAATAAAATATTTAAATTATATTA
1 TAATAATATAATATAATATAATATATTTTAATATTATAATAAAATATTTAAATTATATTA
* * * * * *
179027 TAATAATATAAGATATTATATTTTTATTTTAATAATATATAATCAATTATTAATAAACTTATATT
1 TAATAATATAATATAATATA-ATATATTTTAAT-AT-TATAATAAAATATT--TAAA-TTATATT
179092 A
60 A
* * * * * *
179093 TTTATTAATTTCATATAA-ATAATATA-ATTAA-ATTATTAATAATGAATAATTTTATTTATA-T
1 --TAATAATATAATATAATATAATATATTTTAATATTA-TAATAA--AAT-ATTTAAATTATATT
179154 A
60 A
* * *
179155 T-TTAATATTAATATAATAATCTAATAATATTTTAATATTTTAATAAAGATATTTAAAATATA
1 TAATAATA-TAATATAAT-A--TAAT-ATATTTTAATATTATAATAAA-ATATTTAAATTATA
179217 CTAATTAATA
Statistics
Matches: 143, Mismatches: 25, Indels: 39
0.69 0.12 0.19
Matches are distributed among these distances:
59 23 0.16
60 10 0.07
61 7 0.05
62 7 0.05
63 24 0.17
64 16 0.11
65 15 0.10
66 24 0.17
67 6 0.04
68 11 0.08
ACGTcount: A:0.49, C:0.02, G:0.01, T:0.48
Consensus pattern (60 bp):
TAATAATATAATATAATATAATATATTTTAATATTATAATAAAATATTTAAATTATATTA
Found at i:179221 original size:23 final size:23
Alignment explanation
Indices: 179195--179239 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
179185 TTTAATATTT
179195 TAATAAAGATATTTAAAATATAC
1 TAATAAAGATATTTAAAATATAC
* * *
179218 TAATTAATATTTTTAAAATATA
1 TAATAAAGATATTTAAAATATA
179240 ATATAAAACT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.42
Consensus pattern (23 bp):
TAATAAAGATATTTAAAATATAC
Found at i:179338 original size:29 final size:29
Alignment explanation
Indices: 179272--179343 Score: 78
Period size: 29 Copynumber: 2.5 Consensus size: 29
179262 AATTATTAAT
*
179272 AATATTAATA-TTTTTTAATAAAATATACC
1 AATAATAATATTTTTTTAATAAAATATA-C
*
179301 AATATTAATATTTTTATTAATAAAATTATA-
1 AATAATAATATTTTT-TTAATAAAA-TATAC
179331 AA-AATAATATTTT
1 AATAATAATATTTT
179344 ACCAATAAAT
Statistics
Matches: 39, Mismatches: 1, Indels: 6
0.85 0.02 0.13
Matches are distributed among these distances:
29 20 0.51
30 6 0.15
31 9 0.23
32 4 0.10
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (29 bp):
AATAATAATATTTTTTTAATAAAATATAC
Found at i:180212 original size:17 final size:17
Alignment explanation
Indices: 180190--180224 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
180180 GCGGATGCAA
*
180190 ATCACACAGTAATATGT
1 ATCACACACTAATATGT
*
180207 ATCACACACTGATATGT
1 ATCACACACTAATATGT
180224 A
1 A
180225 CATGTATGAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.40, C:0.20, G:0.11, T:0.29
Consensus pattern (17 bp):
ATCACACACTAATATGT
Found at i:180561 original size:19 final size:20
Alignment explanation
Indices: 180526--180565 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
180516 TGAATTTTTA
*
180526 AAATTTATTTTTGAAATTAT
1 AAATATATTTTTGAAATTAT
180546 AAATATATTTTT-AAATTAT
1 AAATATATTTTTGAAATTAT
180565 A
1 A
180566 TTTAAAATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 8 0.42
20 11 0.58
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.53
Consensus pattern (20 bp):
AAATATATTTTTGAAATTAT
Found at i:184270 original size:48 final size:48
Alignment explanation
Indices: 184251--184372 Score: 226
Period size: 48 Copynumber: 2.5 Consensus size: 48
184241 GATACATTAC
184251 CTGAATTCTGTTCTGATTTCTGATATGGATTCTCTTTTGATATCTAAT
1 CTGAATTCTGTTCTGATTTCTGATATGGATTCTCTTTTGATATCTAAT
*
184299 CTGAATTCTGTTTTGATTTCTGATATGGATTCTCTTTTGATATCTAAT
1 CTGAATTCTGTTCTGATTTCTGATATGGATTCTCTTTTGATATCTAAT
*
184347 CTGAATTCTGTTTTGATTTCTGATAT
1 CTGAATTCTGTTCTGATTTCTGATAT
184373 CTCCGTTTAC
Statistics
Matches: 73, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
48 73 1.00
ACGTcount: A:0.20, C:0.13, G:0.15, T:0.52
Consensus pattern (48 bp):
CTGAATTCTGTTCTGATTTCTGATATGGATTCTCTTTTGATATCTAAT
Found at i:184282 original size:24 final size:24
Alignment explanation
Indices: 184252--184372 Score: 143
Period size: 24 Copynumber: 5.0 Consensus size: 24
184242 ATACATTACC
*
184252 TGAATTCTGTTCTGATTTCTGATA
1 TGAATTCTGTTTTGATTTCTGATA
* * * * *
184276 TGGATTCTCTTTTGATATCTAATC
1 TGAATTCTGTTTTGATTTCTGATA
184300 TGAATTCTGTTTTGATTTCTGATA
1 TGAATTCTGTTTTGATTTCTGATA
* * * * *
184324 TGGATTCTCTTTTGATATCTAATC
1 TGAATTCTGTTTTGATTTCTGATA
184348 TGAATTCTGTTTTGATTTCTGATA
1 TGAATTCTGTTTTGATTTCTGATA
184372 T
1 T
184373 CTCCGTTTAC
Statistics
Matches: 76, Mismatches: 21, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
24 76 1.00
ACGTcount: A:0.21, C:0.12, G:0.15, T:0.52
Consensus pattern (24 bp):
TGAATTCTGTTTTGATTTCTGATA
Found at i:188816 original size:24 final size:24
Alignment explanation
Indices: 188788--188891 Score: 66
Period size: 24 Copynumber: 4.3 Consensus size: 24
188778 AAATATTTTA
* *
188788 TCTGATTTCTGACTTGAATTTTGT
1 TCTGATTTCTGACCTGAATTATGT
* *
188812 TCTGA-TACATTACCTGAATTATGT
1 TCTGATTTC-TGACCTGAATTATGT
* * ** *
188836 TCTGATTTCTTATCTGGGTTCTGT
1 TCTGATTTCTGACCTGAATTATGT
* * * *
188860 TTTGATATCTGATCTGAATTCTGT
1 TCTGATTTCTGACCTGAATTATGT
*
188884 TTTGATTT
1 TCTGATTT
188892 TTGATATCTC
Statistics
Matches: 63, Mismatches: 15, Indels: 4
0.77 0.18 0.05
Matches are distributed among these distances:
23 2 0.03
24 59 0.94
25 2 0.03
ACGTcount: A:0.18, C:0.13, G:0.16, T:0.52
Consensus pattern (24 bp):
TCTGATTTCTGACCTGAATTATGT
Found at i:188896 original size:24 final size:24
Alignment explanation
Indices: 188825--188896 Score: 74
Period size: 24 Copynumber: 3.0 Consensus size: 24
188815 GATACATTAC
* *
188825 CTGAATTATGTTCTGATTTCTT-AT
1 CTGAATTCTGTTTTGATTT-TTGAT
** * *
188849 CTGGGTTCTGTTTTGATATCTGAT
1 CTGAATTCTGTTTTGATTTTTGAT
188873 CTGAATTCTGTTTTGATTTTTGAT
1 CTGAATTCTGTTTTGATTTTTGAT
188897 ATCTCCGTTT
Statistics
Matches: 37, Mismatches: 10, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
23 1 0.03
24 36 0.97
ACGTcount: A:0.17, C:0.11, G:0.18, T:0.54
Consensus pattern (24 bp):
CTGAATTCTGTTTTGATTTTTGAT
Found at i:192080 original size:19 final size:18
Alignment explanation
Indices: 192050--192085 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
192040 CTTTTATTTC
*
192050 TTTTTTTATTTATTACTA
1 TTTTTTTATTTAATACTA
192068 TTTTTTTATTTTAATACT
1 TTTTTTTA-TTTAATACT
192086 TATTATTACT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.22, C:0.06, G:0.00, T:0.72
Consensus pattern (18 bp):
TTTTTTTATTTAATACTA
Found at i:201376 original size:8 final size:8
Alignment explanation
Indices: 201365--201398 Score: 61
Period size: 8 Copynumber: 4.4 Consensus size: 8
201355 TGAAAAAATT
201365 GAAAAAGA
1 GAAAAAGA
201373 GAAAAA-A
1 GAAAAAGA
201380 GAAAAAGA
1 GAAAAAGA
201388 GAAAAAGA
1 GAAAAAGA
201396 GAA
1 GAA
201399 TGAATAAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
7 7 0.28
8 18 0.72
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (8 bp):
GAAAAAGA
Found at i:201383 original size:15 final size:16
Alignment explanation
Indices: 201365--201398 Score: 61
Period size: 15 Copynumber: 2.2 Consensus size: 16
201355 TGAAAAAATT
201365 GAAAAAGAGAAAAA-A
1 GAAAAAGAGAAAAAGA
201380 GAAAAAGAGAAAAAGA
1 GAAAAAGAGAAAAAGA
201396 GAA
1 GAA
201399 TGAATAAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 14 0.78
16 4 0.22
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (16 bp):
GAAAAAGAGAAAAAGA
Done.