Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr1
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: 106989029
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3754247 characters in sequence are not A, C, G, or T
File 227 of 322
Found at i:75157540 original size:26 final size:27
Alignment explanation
Indices: 75157503--75157554 Score: 88
Period size: 26 Copynumber: 2.0 Consensus size: 27
75157493 TCAGTCATAC
75157503 ATCTCATAAGGGCATAATAGTCATTTT
1 ATCTCATAAGGGCATAATAGTCATTTT
*
75157530 ATCTCAT-AGGGTATAATAGTCATTT
1 ATCTCATAAGGGCATAATAGTCATTT
75157555 ATCAATTTGG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
26 17 0.71
27 7 0.29
ACGTcount: A:0.33, C:0.13, G:0.15, T:0.38
Consensus pattern (27 bp):
ATCTCATAAGGGCATAATAGTCATTTT
Found at i:75159869 original size:19 final size:18
Alignment explanation
Indices: 75159827--75159869 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 18
75159817 AGACACAATG
*
75159827 AAAATTTAAAATTGAGTT
1 AAAATTTAAAATTGAGTC
**
75159845 GCAATTTAAAACTTGAGTC
1 AAAATTTAAAA-TTGAGTC
75159864 AAAATT
1 AAAATT
75159870 GACCTTTTTA
Statistics
Matches: 19, Mismatches: 5, Indels: 1
0.76 0.20 0.04
Matches are distributed among these distances:
18 9 0.47
19 10 0.53
ACGTcount: A:0.47, C:0.07, G:0.12, T:0.35
Consensus pattern (18 bp):
AAAATTTAAAATTGAGTC
Found at i:75166476 original size:13 final size:13
Alignment explanation
Indices: 75166458--75166487 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
75166448 TTTCGAATAG
*
75166458 GAAAATGAGAGGA
1 GAAAATGAGAGAA
75166471 GAAAATGAGAGAA
1 GAAAATGAGAGAA
75166484 GAAA
1 GAAA
75166488 GAAGAGATGT
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:0.60, C:0.00, G:0.33, T:0.07
Consensus pattern (13 bp):
GAAAATGAGAGAA
Found at i:75172550 original size:39 final size:39
Alignment explanation
Indices: 75172454--75172634 Score: 165
Period size: 40 Copynumber: 4.6 Consensus size: 39
75172444 ATGATGCCTG
* *
75172454 GGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACT-ATATCC
1 GGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAT-TCC
75172493 GGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAATTCC
1 GG-CTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAATTCC
* * * *
75172533 AGGCTAAG-CCCGAAGGCATTGGTGCGAGTCAGTAAATCC
1 -GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCC
* *
75172572 GGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-ATAACC
1 -GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT-TCC
* *
75172612 GGGCTATGTCTCGAAGGCATTTG
1 -GGCTAAGTCCCGAAGGCATTTG
75172635 AACGAGTAGC
Statistics
Matches: 118, Mismatches: 16, Indels: 15
0.79 0.11 0.10
Matches are distributed among these distances:
39 35 0.30
40 71 0.60
41 12 0.10
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (39 bp):
GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCC
Found at i:75172656 original size:79 final size:78
Alignment explanation
Indices: 75172485--75172667 Score: 192
Period size: 79 Copynumber: 2.3 Consensus size: 78
75172475 TGCTAAGTGA
* *
75172485 CTATATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAATTCCAGGCTAAGCCCGAAGGC
1 CTATATCCGG-TTAAG-TCCGAAGGCATTTGTGCGAGTTACTAATACCAGGCTAAGCCCGAAGGC
**
75172550 ATTGGTGCGAGTCAG
64 ATTGGAACGAGTCAG
* * * *
75172565 -TAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCTCGAAG
1 CTATATCC-GGTTAAGT-CCGAAGGCATTTGTGCGAGTTACTAAT-ACCAGGCTAAG-CCCGAAG
*
75172628 GCATTTGAACGAGT-AG
62 GCATTGGAACGAGTCAG
*
75172644 CTATATCCGGTTAAATTCCGAAGG
1 CTATATCCGGTT-AAGTCCGAAGG
75172668 TACGTGATTC
Statistics
Matches: 86, Mismatches: 11, Indels: 13
0.78 0.10 0.12
Matches are distributed among these distances:
78 3 0.03
79 55 0.64
80 28 0.33
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.26
Consensus pattern (78 bp):
CTATATCCGGTTAAGTCCGAAGGCATTTGTGCGAGTTACTAATACCAGGCTAAGCCCGAAGGCAT
TGGAACGAGTCAG
Found at i:75184274 original size:39 final size:39
Alignment explanation
Indices: 75184248--75184366 Score: 202
Period size: 39 Copynumber: 3.1 Consensus size: 39
75184238 GTCCAGCACG
*
75184248 TAGCCTGCGGACCTAAAGTCCGGATATAATTCTCGCATA
1 TAGCCTGCGGACCTGAAGTCCGGATATAATTCTCGCATA
*
75184287 TAGCCTGCGGACATGAAGTCCGGATATAATTCTCGCATA
1 TAGCCTGCGGACCTGAAGTCCGGATATAATTCTCGCATA
* *
75184326 TAGCCTGCGGACCTGAAGTCTGGATATAATTCTCACATA
1 TAGCCTGCGGACCTGAAGTCCGGATATAATTCTCGCATA
75184365 TA
1 TA
75184367 TATATTCACA
Statistics
Matches: 75, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
39 75 1.00
ACGTcount: A:0.29, C:0.24, G:0.21, T:0.27
Consensus pattern (39 bp):
TAGCCTGCGGACCTGAAGTCCGGATATAATTCTCGCATA
Found at i:75185493 original size:53 final size:53
Alignment explanation
Indices: 75185430--75185534 Score: 201
Period size: 53 Copynumber: 2.0 Consensus size: 53
75185420 TCATGGCCGA
75185430 CCACTATTTATAAAAAGGAGTATTTGACATGCAAAACCATTGTTTTCAATACG
1 CCACTATTTATAAAAAGGAGTATTTGACATGCAAAACCATTGTTTTCAATACG
*
75185483 CCACTATTTATTAAAAGGAGTATTTGACATGCAAAACCATTGTTTTCAATAC
1 CCACTATTTATAAAAAGGAGTATTTGACATGCAAAACCATTGTTTTCAATAC
75185535 ATGCTTTAAT
Statistics
Matches: 51, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
53 51 1.00
ACGTcount: A:0.37, C:0.17, G:0.12, T:0.33
Consensus pattern (53 bp):
CCACTATTTATAAAAAGGAGTATTTGACATGCAAAACCATTGTTTTCAATACG
Found at i:75186305 original size:16 final size:16
Alignment explanation
Indices: 75186284--75186314 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
75186274 TTATGCGTGA
*
75186284 AAAATATAAAAGACAG
1 AAAATACAAAAGACAG
75186300 AAAATACAAAAGACA
1 AAAATACAAAAGACA
75186315 TTATAGTGAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.71, C:0.10, G:0.10, T:0.10
Consensus pattern (16 bp):
AAAATACAAAAGACAG
Found at i:75191449 original size:37 final size:36
Alignment explanation
Indices: 75191408--75191486 Score: 122
Period size: 37 Copynumber: 2.2 Consensus size: 36
75191398 CCCCATGAGT
75191408 AAGAGGCAATAGAGAATGTAGCCCTAGAGGAAGGAGA
1 AAGAGGCAATAGAGAATGTAGCCCTAGAGG-AGGAGA
* * *
75191445 AAGAGACAATAGAGAGTGTAGCCCTAGAGGAGGGGA
1 AAGAGGCAATAGAGAATGTAGCCCTAGAGGAGGAGA
75191481 AAGAGG
1 AAGAGG
75191487 TGAAAATCGG
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
36 10 0.26
37 28 0.74
ACGTcount: A:0.42, C:0.10, G:0.38, T:0.10
Consensus pattern (36 bp):
AAGAGGCAATAGAGAATGTAGCCCTAGAGGAGGAGA
Found at i:75195145 original size:89 final size:89
Alignment explanation
Indices: 75194749--75195126 Score: 702
Period size: 89 Copynumber: 4.2 Consensus size: 89
75194739 ATTTGACGGA
* * * * *
75194749 GAGCAGGTCGAAGATATAGCAGATCTAACCTTTGGATGTTTTCACATCGAAGTAGATCCAAGATG
1 GAGCAGATCGAAGACATAGCAGGTCTAACCTTCGGATGTTTTCACATCAAAGTAGATCCAAGATG
*
75194814 ATTCGGCATCCTTGCGTTTACAAG
66 ATTTGGCATCCTTGCGTTTACAAG
75194838 GAGCAGATCGAAGACATAGCAGGTCTAACCTTCGGATGTTTTCACATCAAAGTAGATCCAAGATG
1 GAGCAGATCGAAGACATAGCAGGTCTAACCTTCGGATGTTTTCACATCAAAGTAGATCCAAGATG
75194903 ATTTGGCATCCTTGCGTTTACAAG
66 ATTTGGCATCCTTGCGTTTACAAG
75194927 GAGCAGATCGAAGACATAGCAGGTCTAACCTTCGGATGTTTTCACATCAAAGTAGATCCAAGATG
1 GAGCAGATCGAAGACATAGCAGGTCTAACCTTCGGATGTTTTCACATCAAAGTAGATCCAAGATG
75194992 ATTTGGCATCCTTGCGTTTACAAG
66 ATTTGGCATCCTTGCGTTTACAAG
75195016 GAGCAGATCGAAGACATAGCAGGTCTAACCTTCGGATGTTTTCACATCAAAGTAGATCCAAGATG
1 GAGCAGATCGAAGACATAGCAGGTCTAACCTTCGGATGTTTTCACATCAAAGTAGATCCAAGATG
75195081 ATTTGGCATCCTTGCGTTTACAAG
66 ATTTGGCATCCTTGCGTTTACAAG
75195105 GAGCAGATCGAAGACATAGCAG
1 GAGCAGATCGAAGACATAGCAG
75195127 ATTTGGCTTT
Statistics
Matches: 283, Mismatches: 6, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
89 283 1.00
ACGTcount: A:0.31, C:0.20, G:0.23, T:0.26
Consensus pattern (89 bp):
GAGCAGATCGAAGACATAGCAGGTCTAACCTTCGGATGTTTTCACATCAAAGTAGATCCAAGATG
ATTTGGCATCCTTGCGTTTACAAG
Found at i:75195373 original size:44 final size:43
Alignment explanation
Indices: 75195325--75195573 Score: 338
Period size: 44 Copynumber: 5.7 Consensus size: 43
75195315 CGTTTACAAG
75195325 GAGCAGATCGAAGATAGCAGACTTGGCGTCTCTGTATTGTCAGA
1 GAGCAGATCGAAGATAGCAGA-TTGGCGTCTCTGTATTGTCAGA
* * * *
75195369 GAGCAGAT-TAGAGAAAACAGATTAGGTGTCTCTGTATTGTCAGA
1 GAGCAGATCGA-AGATAGCAGATT-GGCGTCTCTGTATTGTCAGA
*
75195413 GAGCAGATCGAAGATAGCAGATTAGGCATCTCTGTATTGTCAGA
1 GAGCAGATCGAAGATAGCAGATT-GGCGTCTCTGTATTGTCAGA
* *
75195457 GAGCAGATTGAAGATAGCAGATTTGGCGTCTCTATATTGTCAGA
1 GAGCAGATCGAAGATAGCAGA-TTGGCGTCTCTGTATTGTCAGA
*
75195501 GAGCAGATTGAAGATAGCAGATTTGGCGTCTCTGTATTGTCAGA
1 GAGCAGATCGAAGATAGCAGA-TTGGCGTCTCTGTATTGTCAGA
* *
75195545 GAGTAGATCGAAGATAACAGATCTGGCGT
1 GAGCAGATCGAAGATAGCAGAT-TGGCGT
75195574 TCCTGAGTTT
Statistics
Matches: 184, Mismatches: 16, Indels: 10
0.88 0.08 0.05
Matches are distributed among these distances:
43 4 0.02
44 177 0.96
45 3 0.02
ACGTcount: A:0.31, C:0.14, G:0.29, T:0.27
Consensus pattern (43 bp):
GAGCAGATCGAAGATAGCAGATTGGCGTCTCTGTATTGTCAGA
Found at i:75195613 original size:88 final size:88
Alignment explanation
Indices: 75195325--75195606 Score: 337
Period size: 88 Copynumber: 3.2 Consensus size: 88
75195315 CGTTTACAAG
* * * *
75195325 GAGCAGATCGAAGATAGCAGACTTGGCGTCTCTGTATTGTCAGAGAGCAGATTAGAGAAAACAGA
1 GAGCAGATTGAAGATAGCAGATTTGGCGTCTCTGTATTGTCAGAGAGCAGATGA-AGATAACAGA
*
75195390 TTAG-GTGTCTCT-GTATTGTCAGA
65 TTGGCGT-TCTCTAGTATTGTCAGA
* * * *
75195413 GAGCAGATCGAAGATAGCAGATTAGGCATCTCTGTATTGTCAGAGAGCAGATTGAAGATAGCAGA
1 GAGCAGATTGAAGATAGCAGATTTGGCGTCTCTGTATTGTCAGAGAGCAGA-TGAAGATAACAGA
75195478 TTTGGCG-TCTCTA-TATTGTCAGA
65 -TTGGCGTTCTCTAGTATTGTCAGA
*
75195501 GAGCAGATTGAAGATAGCAGATTTGGCGTCTCTGTATTGTCAGAGAGTAGATCGAAGATAACAGA
1 GAGCAGATTGAAGATAGCAGATTTGGCGTCTCTGTATTGTCAGAGAGCAGAT-GAAGATAACAGA
75195566 TCTGGCGTTC-CTGAGT-TTG-C-GA
65 T-TGGCGTTCTCT-AGTATTGTCAGA
*
75195588 GAAGCAGGTTGAAGATAGC
1 G-AGCAGATTGAAGATAGC
75195607 CAATTTGACA
Statistics
Matches: 171, Mismatches: 13, Indels: 20
0.84 0.06 0.10
Matches are distributed among these distances:
87 5 0.03
88 153 0.89
89 11 0.06
90 2 0.01
ACGTcount: A:0.30, C:0.15, G:0.29, T:0.26
Consensus pattern (88 bp):
GAGCAGATTGAAGATAGCAGATTTGGCGTCTCTGTATTGTCAGAGAGCAGATGAAGATAACAGAT
TGGCGTTCTCTAGTATTGTCAGA
Found at i:75195613 original size:132 final size:132
Alignment explanation
Indices: 75195325--75195566 Score: 387
Period size: 132 Copynumber: 1.8 Consensus size: 132
75195315 CGTTTACAAG
* * *
75195325 GAGCAGATCGAAGATAGCAGACTTGGCGTCTCTGTATTGTCAGAGAGCAGATTAGAGAAAACAGA
1 GAGCAGATTGAAGATAGCAGATTTGGCGTCTCTATATTGTCAGAGAGCAGATTAGAGAAAACAGA
* *
75195390 TTAGGTGTCTCTGTATTGTCAGAGAGCAGATCGAAGATAGCAGATTAGGCATCTCTGTATTGTCA
66 TTAGGCGTCTCTGTATTGTCAGAGAGCAGATCGAAGATAACAGATTAGGCATCTCTGTATTGTCA
75195455 GA
131 GA
* *
75195457 GAGCAGATTGAAGATAGCAGATTTGGCGTCTCTATATTGTCAGAGAGCAGATT-GAAGATAGCAG
1 GAGCAGATTGAAGATAGCAGATTTGGCGTCTCTATATTGTCAGAGAGCAGATTAG-AGAAAACAG
* *
75195521 ATTTGGCGTCTCTGTATTGTCAGAGAGTAGATCGAAGATAACAGAT
65 ATTAGGCGTCTCTGTATTGTCAGAGAGCAGATCGAAGATAACAGAT
75195567 CTGGCGTTCC
Statistics
Matches: 100, Mismatches: 9, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
131 1 0.01
132 99 0.99
ACGTcount: A:0.31, C:0.14, G:0.28, T:0.26
Consensus pattern (132 bp):
GAGCAGATTGAAGATAGCAGATTTGGCGTCTCTATATTGTCAGAGAGCAGATTAGAGAAAACAGA
TTAGGCGTCTCTGTATTGTCAGAGAGCAGATCGAAGATAACAGATTAGGCATCTCTGTATTGTCA
GA
Found at i:75203705 original size:22 final size:21
Alignment explanation
Indices: 75203664--75203707 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 21
75203654 GAATGTGCAT
75203664 ATATGAAGTTATCCATTTAGCC
1 ATATGAAGTTATCCA-TTAGCC
75203686 ATATGAATGTTATACC-TTAGCC
1 ATATGAA-GTTAT-CCATTAGCC
75203708 GAAACTAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
22 13 0.65
23 5 0.25
24 2 0.10
ACGTcount: A:0.32, C:0.18, G:0.14, T:0.36
Consensus pattern (21 bp):
ATATGAAGTTATCCATTAGCC
Found at i:75211163 original size:40 final size:40
Alignment explanation
Indices: 75210965--75211156 Score: 314
Period size: 40 Copynumber: 4.8 Consensus size: 40
75210955 NNNNTGATAA
75210965 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATT
75211005 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATT
75211045 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATT
* * *
75211085 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT-ATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAAT-T
* * *
75211125 CTGGGCTAAGTCCCAAAGGCATTTGAGCTAGT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGT
75211157 AGCTATATCC
Statistics
Matches: 144, Mismatches: 7, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
39 2 0.01
40 142 0.99
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.27
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATT
Found at i:75216388 original size:25 final size:24
Alignment explanation
Indices: 75216354--75216406 Score: 79
Period size: 25 Copynumber: 2.2 Consensus size: 24
75216344 CACAAATGTA
*
75216354 GCTCTTTATGAGCGTCCTGATATAG
1 GCTCTTTATGAGCGTCATGATAT-G
*
75216379 GCTCTTTATGAGCTTCATGATATG
1 GCTCTTTATGAGCGTCATGATATG
75216403 GCTC
1 GCTC
75216407 GCTTGAACTT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
24 5 0.19
25 21 0.81
ACGTcount: A:0.19, C:0.21, G:0.23, T:0.38
Consensus pattern (24 bp):
GCTCTTTATGAGCGTCATGATATG
Found at i:75218192 original size:46 final size:48
Alignment explanation
Indices: 75218090--75218264 Score: 170
Period size: 46 Copynumber: 3.8 Consensus size: 48
75218080 ATATTATTAG
* * * * **
75218090 AGCCAGTGTAAGACCATATCTGGGACATGGCATCGGCATTGAGA-CAA
1 AGCCAGTGTAAGACCATGTCTGAGACATGGCATCGGCCTCGAGATGTA
*
75218137 GAGCTAGTGTAAGA-CATGTCTGAGACAT-GCATCGGCCTCGAGATGTA
1 -AGCCAGTGTAAGACCATGTCTGAGACATGGCATCGGCCTCGAGATGTA
* *
75218184 AGCCAGTGTAAGA-CATGTATGGGACAT-GCATCGG-CTACGAGATGT-
1 AGCCAGTGTAAGACCATGTCTGAGACATGGCATCGGCCT-CGAGATGTA
*
75218229 -GTCAGTGTAAGACCATGTCT-AGGACATGGCATCGGC
1 AGCCAGTGTAAGACCATGTCTGA-GACATGGCATCGGC
75218265 ATTATGCCCT
Statistics
Matches: 108, Mismatches: 13, Indels: 13
0.81 0.10 0.10
Matches are distributed among these distances:
44 11 0.10
45 13 0.12
46 59 0.55
47 13 0.12
48 12 0.11
ACGTcount: A:0.29, C:0.20, G:0.30, T:0.22
Consensus pattern (48 bp):
AGCCAGTGTAAGACCATGTCTGAGACATGGCATCGGCCTCGAGATGTA
Found at i:75222302 original size:22 final size:23
Alignment explanation
Indices: 75222260--75222303 Score: 63
Period size: 22 Copynumber: 1.9 Consensus size: 23
75222250 TAAATCATAA
*
75222260 AAATAAAATTAATTATTATGTAGG
1 AAATAAAA-TAATTATAATGTAGG
75222284 AAATAAAA-AATTATAATGTA
1 AAATAAAATAATTATAATGTA
75222304 TAAATTATAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 11 0.58
24 8 0.42
ACGTcount: A:0.57, C:0.00, G:0.09, T:0.34
Consensus pattern (23 bp):
AAATAAAATAATTATAATGTAGG
Found at i:75222330 original size:23 final size:21
Alignment explanation
Indices: 75222291--75222332 Score: 57
Period size: 23 Copynumber: 1.9 Consensus size: 21
75222281 AGGAAATAAA
75222291 AAATTATAATGTATAAATTAT
1 AAATTATAATGTATAAATTAT
*
75222312 AAATATATATATGTCTAAATT
1 AAAT-TATA-ATGTATAAATT
75222333 CACTTAATCT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 4 0.22
22 4 0.22
23 10 0.56
ACGTcount: A:0.50, C:0.02, G:0.05, T:0.43
Consensus pattern (21 bp):
AAATTATAATGTATAAATTAT
Found at i:75222405 original size:6 final size:6
Alignment explanation
Indices: 75222394--75222422 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
75222384 AAATTTGAAG
75222394 AAATTC AAATTC AAATTC AAATTC AAATT
1 AAATTC AAATTC AAATTC AAATTC AAATT
75222423 ATAATTAATC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.52, C:0.14, G:0.00, T:0.34
Consensus pattern (6 bp):
AAATTC
Found at i:75222645 original size:52 final size:52
Alignment explanation
Indices: 75222567--75222670 Score: 181
Period size: 52 Copynumber: 2.0 Consensus size: 52
75222557 TTTGATGGAA
75222567 AAGGTGAAAAGGAATCAAAGATATAATTGACTGCCACTCGCAAAAGACTATC
1 AAGGTGAAAAGGAATCAAAGATATAATTGACTGCCACTCGCAAAAGACTATC
* * *
75222619 AAGGTGAAAAGGAATCAAAGATATAATTGACTTCTACTTGCAAAAGACTATC
1 AAGGTGAAAAGGAATCAAAGATATAATTGACTGCCACTCGCAAAAGACTATC
75222671 TTTTGATTGG
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
52 49 1.00
ACGTcount: A:0.44, C:0.15, G:0.18, T:0.22
Consensus pattern (52 bp):
AAGGTGAAAAGGAATCAAAGATATAATTGACTGCCACTCGCAAAAGACTATC
Found at i:75229869 original size:37 final size:37
Alignment explanation
Indices: 75229816--75229915 Score: 173
Period size: 37 Copynumber: 2.7 Consensus size: 37
75229806 CGAATAGTCG
* *
75229816 CCACACGTAGTTATCGGGTCTTACCTGGACAAAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
*
75229853 CCACACGTAGTCATCGGGTCTTACCCGGACATAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
75229890 CCACACGTAGTCATCGGGTCTTACCC
1 CCACACGTAGTCATCGGGTCTTACCC
75229916 AGAATACATT
Statistics
Matches: 60, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 60 1.00
ACGTcount: A:0.24, C:0.32, G:0.19, T:0.25
Consensus pattern (37 bp):
CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
Found at i:75230144 original size:48 final size:48
Alignment explanation
Indices: 75230090--75230498 Score: 665
Period size: 48 Copynumber: 8.5 Consensus size: 48
75230080 GCTGAATCAC
*
75230090 TAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCGCAT
1 TAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACAT
* *
75230138 TAGCCATTCGGCTTTACCACGTATACATATCTCATACATATTTCACAC
1 TAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACAT
* * * *
75230186 TAGCCATTCGACTTTACCACGTATACATATCTCATACATAGTTCACAC
1 TAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACAT
*
75230234 TAGCCATTCGACTTTACCACATATACATATCTCATACATATTTCACAT
1 TAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACAT
**
75230282 TTTCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACAT
1 TAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACAT
**
75230330 TTTCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACAT
1 TAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACAT
*
75230378 TAGCCATTCGGCTTTACCACATATACATATCTAATACATATTTCACAT
1 TAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACAT
* * *
75230426 TAGCCATTTGGCTTTACCACATATACATATCTTATATATATTTCACAT
1 TAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACAT
*
75230474 TTGCCATTCGGCTTTACCACATATA
1 TAGCCATTCGGCTTTACCACATATA
75230499 TATTTATCTT
Statistics
Matches: 342, Mismatches: 19, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
48 342 1.00
ACGTcount: A:0.30, C:0.27, G:0.07, T:0.36
Consensus pattern (48 bp):
TAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACAT
Found at i:75231934 original size:54 final size:54
Alignment explanation
Indices: 75231852--75231962 Score: 222
Period size: 54 Copynumber: 2.1 Consensus size: 54
75231842 AATTCATTAT
75231852 TAATATATATATCTAAACACTTAACTACAAGATTTAATCACCATTATCAAATCA
1 TAATATATATATCTAAACACTTAACTACAAGATTTAATCACCATTATCAAATCA
75231906 TAATATATATATCTAAACACTTAACTACAAGATTTAATCACCATTATCAAATCA
1 TAATATATATATCTAAACACTTAACTACAAGATTTAATCACCATTATCAAATCA
75231960 TAA
1 TAA
75231963 AACAGCTTAT
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
54 57 1.00
ACGTcount: A:0.47, C:0.18, G:0.02, T:0.33
Consensus pattern (54 bp):
TAATATATATATCTAAACACTTAACTACAAGATTTAATCACCATTATCAAATCA
Found at i:75234594 original size:103 final size:104
Alignment explanation
Indices: 75234415--75234678 Score: 406
Period size: 103 Copynumber: 2.5 Consensus size: 104
75234405 ACCGTTATTA
* * * *
75234415 GTGGATCTCGCACTTAGCACCACCACTTAATCGGGGAATCAGCACTTAGCAACCCCTTGGGGGAA
1 GTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGGAA
** *
75234480 TCAGCACATAGCAACCCCCTTT-TTATTTCAGAGATACG
66 TCAGCACATAGCAACCCCCTTTCACATTTCAAAGATACG
75234518 GTGGATATCGCACTTAGCACCACCAATGAA-CTGGGGAATCAGCACTTAGCAACCCCTCGGGGGA
1 GTGGATATCGCACTTAGCACCACCAATGAATC-GGGGAATCAGCACTTAGCAACCCCTCGGGGGA
75234582 ATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATACG
65 ATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATACG
* * **
75234622 GTGGATATCGCACATGGCACCACCAATGAATCGGGGAATCAGCACACAGCAACCCCT
1 GTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCT
75234679 TTATGTACAA
Statistics
Matches: 147, Mismatches: 11, Indels: 5
0.90 0.07 0.03
Matches are distributed among these distances:
102 1 0.01
103 81 0.55
104 64 0.44
105 1 0.01
ACGTcount: A:0.30, C:0.30, G:0.21, T:0.20
Consensus pattern (104 bp):
GTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGGAA
TCAGCACATAGCAACCCCCTTTCACATTTCAAAGATACG
Found at i:75236833 original size:28 final size:28
Alignment explanation
Indices: 75236791--75236859 Score: 111
Period size: 28 Copynumber: 2.5 Consensus size: 28
75236781 GACTGATTTC
*
75236791 GCACACATAGCGCTCGATTGAAGAACTT
1 GCACACATAGTGCTCGATTGAAGAACTT
*
75236819 GTACACATAGTGCTCGATTGAAGAACTT
1 GCACACATAGTGCTCGATTGAAGAACTT
*
75236847 GCACACACAGTGC
1 GCACACATAGTGC
75236860 CTCATAATTC
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
28 37 1.00
ACGTcount: A:0.32, C:0.25, G:0.22, T:0.22
Consensus pattern (28 bp):
GCACACATAGTGCTCGATTGAAGAACTT
Found at i:75236935 original size:40 final size:40
Alignment explanation
Indices: 75236891--75236985 Score: 172
Period size: 40 Copynumber: 2.4 Consensus size: 40
75236881 CCTTCGAGGT
*
75236891 TTAGCCCGGATATATTACTAGCACGAATACTCTTCGGGAC
1 TTAGCCCGGATATATCACTAGCACGAATACTCTTCGGGAC
*
75236931 TTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGGAC
1 TTAGCCCGGATATATCACTAGCACGAATACTCTTCGGGAC
75236971 TTAGCCCGGATATAT
1 TTAGCCCGGATATAT
75236986 AACTCTCAAT
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 53 1.00
ACGTcount: A:0.26, C:0.25, G:0.21, T:0.27
Consensus pattern (40 bp):
TTAGCCCGGATATATCACTAGCACGAATACTCTTCGGGAC
Found at i:75239615 original size:42 final size:44
Alignment explanation
Indices: 75239533--75239675 Score: 129
Period size: 43 Copynumber: 3.3 Consensus size: 44
75239523 CCCAAACTTG
* * * *
75239533 GTCTTACATGTAATCAAATATCGATGCCACTATCCTAGACA-GA
1 GTCTTACACGAAATCAAACATCGATGCCACTATCCCAGACATGA
*
75239576 GTCTTACACGAAATCAAACA-CGATGCCGA-TGTCCCAGACATGA
1 GTCTTACACGAAATCAAACATCGATGCC-ACTATCCCAGACATGA
* *
75239619 -TCTTACACGTAAATCTCAA-ATCGATGCCAAC-ATCCCAGACGTG-
1 GTCTTACACG-AAATC-AAACATCGATGCC-ACTATCCCAGACATGA
*
75239662 GTCGTACACGAAAT
1 GTCTTACACGAAAT
75239676 TATATATCAG
Statistics
Matches: 83, Mismatches: 10, Indels: 14
0.78 0.09 0.13
Matches are distributed among these distances:
42 25 0.30
43 30 0.36
44 28 0.34
ACGTcount: A:0.34, C:0.27, G:0.16, T:0.23
Consensus pattern (44 bp):
GTCTTACACGAAATCAAACATCGATGCCACTATCCCAGACATGA
Found at i:75239657 original size:44 final size:41
Alignment explanation
Indices: 75239552--75239676 Score: 110
Period size: 44 Copynumber: 2.9 Consensus size: 41
75239542 GTAATCAAAT
*
75239552 ATCGATGCCACTATCCTAGACA-GAGTCTTACACGAAA-TCAA
1 ATCGATGCCAC-ATCCCAGACATGA-TCTTACACGAAATTCAA
* **
75239593 ACACGATGCCGATGTCCCAGACATGATCTTACACGTAAATCTCAA
1 A-TCGATGCC-ACATCCCAGACATGATCTTACACG-AAAT-TCAA
* * *
75239638 ATCGATGCCAACATCCCAGACGTGGTCGTACACGAAATT
1 ATCGATGCC-ACATCCCAGACATGATCTTACACGAAATT
75239677 ATATATCAGA
Statistics
Matches: 67, Mismatches: 11, Indels: 11
0.75 0.12 0.12
Matches are distributed among these distances:
41 1 0.01
42 25 0.37
43 10 0.15
44 26 0.39
45 5 0.07
ACGTcount: A:0.34, C:0.28, G:0.17, T:0.22
Consensus pattern (41 bp):
ATCGATGCCACATCCCAGACATGATCTTACACGAAATTCAA
Found at i:75240406 original size:17 final size:17
Alignment explanation
Indices: 75240386--75240426 Score: 73
Period size: 17 Copynumber: 2.4 Consensus size: 17
75240376 AAAAGCACCG
75240386 ATCACAAAAACGTAGAA
1 ATCACAAAAACGTAGAA
*
75240403 ATCATAAAAACGTAGAA
1 ATCACAAAAACGTAGAA
75240420 ATCACAA
1 ATCACAA
75240427 TCAAAAGGAG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.59, C:0.17, G:0.10, T:0.15
Consensus pattern (17 bp):
ATCACAAAAACGTAGAA
Found at i:75248287 original size:47 final size:47
Alignment explanation
Indices: 75248169--75248391 Score: 179
Period size: 47 Copynumber: 4.8 Consensus size: 47
75248159 TCACTTGTGT
* *** *
75248169 GAGCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCCCATTATGA
1 GAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGACTTGA-GATGA
* * *
75248215 GAGCCAGTCTAAGACCACGTCTGGGACATGGCATCGACATTGAGATGA
1 GAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGAC-TTGAGATGA
* * * * *
75248263 GGGCTAGTGTAAGA-CATGTTTGGGACAT-GTATCGGCTAAGAGATGA
1 GAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGACT-TGAGATGA
* * * *
75248309 TAG-TCAGTGTAAGACCATGTTTGGGACATGGCATCAACTTGAGCT-A
1 GAGCT-AGTGTAAGACCATGTCTGGGACATGGCATCGACTTGAGATGA
* * *
75248355 TGAGCCAGTGTAAAACCATGTCTGGGACTTGGCATCG
1 -GAGCTAGTGTAAGACCATGTCTGGGACATGGCATCG
75248392 GCACTTAACC
Statistics
Matches: 139, Mismatches: 29, Indels: 17
0.75 0.16 0.09
Matches are distributed among these distances:
45 2 0.01
46 36 0.26
47 72 0.52
48 28 0.20
49 1 0.01
ACGTcount: A:0.27, C:0.19, G:0.30, T:0.24
Consensus pattern (47 bp):
GAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGACTTGAGATGA
Found at i:75248334 original size:94 final size:93
Alignment explanation
Indices: 75248171--75248393 Score: 236
Period size: 94 Copynumber: 2.4 Consensus size: 93
75248161 ACTTGTGTGA
* **
75248171 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCCCATTATGAGAGCCAGTCTAAGACCACGTC
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCCAAAGATGAGAGCCAGTCTAAGACCACGTC
*
75248236 TGGGACATGGCATCGACATTGAGATGAGG
66 TGGGACATGGCATCAAC-TTGAGATGAGG
* * * * * * *
75248265 GCTAGTGTAAGACATGTTTGGGACATGTATCGG-CTAAGAGATGATAGTCAGTGTAAGACCATGT
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCCAA-AGATGAGAGCCAGTCTAAGACCACGT
*
75248329 TTGGGACATGGCATCAACTTGAGCTATGA--
65 CTGGGACATGGCATCAACTTGAG--ATGAGG
* * *
75248358 GCCAGTGTAAAACCATGTCTGGGACTTGGCATCGGC
1 GCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGC
75248394 ACTTAACCCA
Statistics
Matches: 106, Mismatches: 17, Indels: 10
0.80 0.13 0.08
Matches are distributed among these distances:
93 17 0.16
94 79 0.75
95 10 0.09
ACGTcount: A:0.27, C:0.19, G:0.30, T:0.24
Consensus pattern (93 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCCAAAGATGAGAGCCAGTCTAAGACCACGTC
TGGGACATGGCATCAACTTGAGATGAGG
Found at i:75250862 original size:79 final size:81
Alignment explanation
Indices: 75250729--75250907 Score: 215
Period size: 79 Copynumber: 2.2 Consensus size: 81
75250719 ATGATGTCCG
* *
75250729 GGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTTGTG
1 GGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTTGTG
*
75250793 CGAGCTACTA-ATTCCA
66 CGAGCTACTATA-ACCA
* * **
75250809 GGCTAAG-CCCGAAGGCATTGGTGC-AAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCATTTGT
1 GGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCATTTGT
* *
75250871 GCGAGTTACTATAACCG
65 GCGAGCTACTATAACCA
*
75250888 GGCTATGTCCCGAAGGCATT
1 GGCTAAGTCCCGAAGGCATT
75250908 TGAACGAGTA
Statistics
Matches: 85, Mismatches: 10, Indels: 8
0.83 0.10 0.08
Matches are distributed among these distances:
78 1 0.01
79 58 0.68
80 26 0.31
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.25
Consensus pattern (81 bp):
GGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTTGTG
CGAGCTACTATAACCA
Found at i:75250916 original size:40 final size:40
Alignment explanation
Indices: 75250725--75250909 Score: 207
Period size: 40 Copynumber: 4.7 Consensus size: 40
75250715 GAGAATGATG
* * * *
75250725 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
75250765 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGCTACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* * *
75250805 TCCAGGCTAAG-CCCGAAGGCATTGGTGCAAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
75250844 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
75250885 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
75250910 AACGAGTAGC
Statistics
Matches: 121, Mismatches: 19, Indels: 10
0.81 0.13 0.07
Matches are distributed among these distances:
39 32 0.26
40 79 0.65
41 10 0.08
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:75250931 original size:79 final size:79
Alignment explanation
Indices: 75250778--75250942 Score: 183
Period size: 79 Copynumber: 2.1 Consensus size: 79
75250768 GGACTAAGAT
* **
75250778 CCGAAGGCATTTGTGCGAGCTACTAATTCCAGGCTAAGCCCGAAGGCATTGGTGCAAGTTACTAA
1 CCGAAGGCATTTGTGCGAGCTACTAATACCAGGCTAAGCCCGAAGGCATTGGAACAAGTTACTAA
*
75250843 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* * * * *
75250857 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGCTACTAAT-ACCAGGCTAAG-CCCGAAGGCATTGGAACAAGTTA-C
* *
75250920 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
75250936 CCGAAGG
1 CCGAAGG
75250943 TACGTGATTC
Statistics
Matches: 72, Mismatches: 11, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
78 2 0.03
79 47 0.65
80 23 0.32
ACGTcount: A:0.27, C:0.22, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGCTACTAATACCAGGCTAAGCCCGAAGGCATTGGAACAAGTTACTAA
ATCCGGGTTAAATC
Found at i:75258837 original size:79 final size:81
Alignment explanation
Indices: 75258701--75258885 Score: 236
Period size: 79 Copynumber: 2.3 Consensus size: 81
75258691 TCGAATGATG
*
75258701 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
75258765 TGTGCGAGATACTA-A
66 TGTGCGAGATACTATA
* * * **
75258780 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
*
75258842 TTTGTGCGAGTTACTATA
64 TTTGTGCGAGATACTATA
* *
75258860 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
75258886 AACGAGTAGC
Statistics
Matches: 92, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 1 0.01
79 58 0.63
80 33 0.36
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAGATACTATA
Found at i:75258899 original size:40 final size:40
Alignment explanation
Indices: 75258702--75258885 Score: 216
Period size: 40 Copynumber: 4.6 Consensus size: 40
75258692 CGAATGATGT
* * * *
75258702 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
* * *
75258742 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-A
75258782 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
75258820 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
75258861 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
75258886 AACGAGTAGC
Statistics
Matches: 126, Mismatches: 11, Indels: 14
0.83 0.07 0.09
Matches are distributed among these distances:
39 35 0.28
40 81 0.64
41 10 0.08
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:75258907 original size:79 final size:79
Alignment explanation
Indices: 75258754--75258918 Score: 210
Period size: 79 Copynumber: 2.1 Consensus size: 79
75258744 GGACTAAGAT
* **
75258754 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
*
75258819 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* *
75258833 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-C
* *
75258896 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
75258912 CCGAAGG
1 CCGAAGG
75258919 TACGTGATTC
Statistics
Matches: 75, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
78 2 0.03
79 48 0.64
80 25 0.33
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:75264339 original size:29 final size:29
Alignment explanation
Indices: 75264306--75264364 Score: 75
Period size: 29 Copynumber: 2.0 Consensus size: 29
75264296 GCCTGGGACA
75264306 GAGCGTCAT-CCCTCGCGGCCCGATCATAC
1 GAGCGTCATCCCCT-GCGGCCCGATCATAC
* * *
75264335 GAGCGTCGTCCCCTGCGGCCTGATTATAC
1 GAGCGTCATCCCCTGCGGCCCGATCATAC
75264364 G
1 G
75264365 GCCCATTATC
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
29 22 0.85
30 4 0.15
ACGTcount: A:0.15, C:0.37, G:0.27, T:0.20
Consensus pattern (29 bp):
GAGCGTCATCCCCTGCGGCCCGATCATAC
Found at i:75272809 original size:27 final size:27
Alignment explanation
Indices: 75272779--75272956 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
75272769 ATATTGAGTC
* * * *
75272779 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
75272806 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
75272833 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
75272861 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
75272888 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
75272915 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
75272942 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
75272957 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:75272918 original size:82 final size:81
Alignment explanation
Indices: 75272800--75272955 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
75272790 TGCTATATAA
* *
75272800 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
75272865 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
75272882 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
75272946 CACTTAGTGC
65 CACTTAGTGC
75272956 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:75288547 original size:93 final size:93
Alignment explanation
Indices: 75288439--75288610 Score: 308
Period size: 93 Copynumber: 1.8 Consensus size: 93
75288429 CGCCCATAAG
* *
75288439 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
*
75288504 ATGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
75288532 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
75288597 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
75288611 TCAACCATCC
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.22
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:75288607 original size:46 final size:46
Alignment explanation
Indices: 75288432--75288607 Score: 207
Period size: 46 Copynumber: 3.8 Consensus size: 46
75288422 TGTAACCCGC
* * *
75288432 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* * *
75288478 CCATAAGTGAACTCGGACTCAACTCAATGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
75288528 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
75288571 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
75288608 TGCTCAACCA
Statistics
Matches: 109, Mismatches: 12, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 62 0.57
47 28 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:75293282 original size:18 final size:18
Alignment explanation
Indices: 75293256--75293291 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
75293246 GGAATTTAAC
*
75293256 TTGATGAGTTTAAGTCGA
1 TTGACGAGTTTAAGTCGA
75293274 TTGACGAGTTTAAGTCGA
1 TTGACGAGTTTAAGTCGA
75293292 GTTTAAGTCG
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:0.28, C:0.08, G:0.28, T:0.36
Consensus pattern (18 bp):
TTGACGAGTTTAAGTCGA
Found at i:75295201 original size:62 final size:62
Alignment explanation
Indices: 75295116--75295306 Score: 364
Period size: 62 Copynumber: 3.1 Consensus size: 62
75295106 GATTCAGTAT
*
75295116 TATTATCTTTTTTTTATTTATTTAACTTGACATAATATAAAACATAATCTATGTCTATTAAAC
1 TATTATC-TTTATTTATTTATTTAACTTGACATAATATAAAACATAATCTATGTCTATTAAAC
75295179 TATTATCTTTATTTATTTATTTAACTTGACATAATATAAAACATAATCTATGTCTATTAAAC
1 TATTATCTTTATTTATTTATTTAACTTGACATAATATAAAACATAATCTATGTCTATTAAAC
75295241 TATTATCTTTATTTATTTATTTAACTTGACATAATATAAAACATAATCTATGTCTATTAAAC
1 TATTATCTTTATTTATTTATTTAACTTGACATAATATAAAACATAATCTATGTCTATTAAAC
75295303 TATT
1 TATT
75295307 TAGCTATATA
Statistics
Matches: 127, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
62 120 0.94
63 7 0.06
ACGTcount: A:0.38, C:0.11, G:0.03, T:0.48
Consensus pattern (62 bp):
TATTATCTTTATTTATTTATTTAACTTGACATAATATAAAACATAATCTATGTCTATTAAAC
Found at i:75297960 original size:41 final size:40
Alignment explanation
Indices: 75297898--75298047 Score: 153
Period size: 41 Copynumber: 3.7 Consensus size: 40
75297888 CCGAGCTTGA
* *
75297898 TTTCAAAGGGCCTTTGAGCCAGTGCTAATAACCGAACTTAG
1 TTTCGAAGGG-CTTCGAGCCAGTGCTAATAACCGAACTTAG
* *
75297939 TTTCGAAGGGCTTCAGAGCCAGTG-TCATAACCGGACTTAG
1 TTTCGAAGGGCTTC-GAGCCAGTGCTAATAACCGAACTTAG
* *
75297979 TTCCGAAGGGCCTTCGAGCCAGTGGTCTAAT--CCGAGCTTAG
1 TTTCGAAGGG-CTTCGAGCCAGT-G-CTAATAACCGAACTTAG
* *
75298020 TATCGAAGGGCTTTTGAGCCAGTGCTAA
1 TTTCGAAGGGC-TTCGAGCCAGTGCTAA
75298048 GAATCGGGCT
Statistics
Matches: 92, Mismatches: 11, Indels: 14
0.79 0.09 0.12
Matches are distributed among these distances:
39 4 0.04
40 36 0.39
41 49 0.53
43 3 0.03
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.26
Consensus pattern (40 bp):
TTTCGAAGGGCTTCGAGCCAGTGCTAATAACCGAACTTAG
Found at i:75304215 original size:55 final size:55
Alignment explanation
Indices: 75304150--75304257 Score: 198
Period size: 55 Copynumber: 2.0 Consensus size: 55
75304140 TGTTTATTGT
*
75304150 ATGTGGAAAAGGCATGTGTGAAAGTTTCATGCTTCAATTTTTATCATTTGTATGC
1 ATGTGAAAAAGGCATGTGTGAAAGTTTCATGCTTCAATTTTTATCATTTGTATGC
*
75304205 ATGTGAAAAAGGCATGTGTGAAAGTTTCATGCTTCAATTTTTGTCATTTGTAT
1 ATGTGAAAAAGGCATGTGTGAAAGTTTCATGCTTCAATTTTTATCATTTGTAT
75304258 ATGAAATTAT
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
55 51 1.00
ACGTcount: A:0.28, C:0.10, G:0.21, T:0.41
Consensus pattern (55 bp):
ATGTGAAAAAGGCATGTGTGAAAGTTTCATGCTTCAATTTTTATCATTTGTATGC
Found at i:75306030 original size:14 final size:14
Alignment explanation
Indices: 75306003--75306035 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
75305993 TGATATCCAG
75306003 ATGTGATATGATAT
1 ATGTGATATGATAT
75306017 ATGT-ATATGCATAT
1 ATGTGATATG-ATAT
75306031 ATGTG
1 ATGTG
75306036 TGAATGCTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
13 5 0.29
14 12 0.71
ACGTcount: A:0.33, C:0.03, G:0.21, T:0.42
Consensus pattern (14 bp):
ATGTGATATGATAT
Found at i:75306126 original size:41 final size:41
Alignment explanation
Indices: 75306059--75306137 Score: 131
Period size: 41 Copynumber: 1.9 Consensus size: 41
75306049 GGGTTTAAAT
* *
75306059 CCGAGCTTGGTTTCGAAGGGCCTTTGAGCCAGTGCTAATAA
1 CCGAACTTAGTTTCGAAGGGCCTTTGAGCCAGTGCTAATAA
*
75306100 CCGAACTTAGTTTCGAAGGGCTTTTGAGCCAGTGCTAA
1 CCGAACTTAGTTTCGAAGGGCCTTTGAGCCAGTGCTAA
75306138 GAATCGGGCT
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
41 35 1.00
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.28
Consensus pattern (41 bp):
CCGAACTTAGTTTCGAAGGGCCTTTGAGCCAGTGCTAATAA
Found at i:75306158 original size:41 final size:41
Alignment explanation
Indices: 75306059--75306159 Score: 123
Period size: 41 Copynumber: 2.5 Consensus size: 41
75306049 GGGTTTAAAT
* *
75306059 CCGAGCTTGGTTTCGAAGGGCCTTTGAGCCAGTGCTAATAA
1 CCGAGCTTGATTTCGAAGGGCCTTTGAGCCAGTGCTAAGAA
* *
75306100 CCGAACTT-AGTTTCGAAGGGCTTTTGAGCCAGTGCTAAGAA
1 CCGAGCTTGA-TTTCGAAGGGCCTTTGAGCCAGTGCTAAGAA
* * *
75306141 TCGGGCTTGATTCCGAAGG
1 CCGAGCTTGATTTCGAAGG
75306160 ATGTTTGTAC
Statistics
Matches: 50, Mismatches: 8, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
41 49 0.98
42 1 0.02
ACGTcount: A:0.23, C:0.21, G:0.30, T:0.27
Consensus pattern (41 bp):
CCGAGCTTGATTTCGAAGGGCCTTTGAGCCAGTGCTAAGAA
Found at i:75314005 original size:46 final size:46
Alignment explanation
Indices: 75313952--75314127 Score: 189
Period size: 46 Copynumber: 3.8 Consensus size: 46
75313942 TATTTGGGCA
75313952 TCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
75313998 TCCAAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
* * *
75314043 CATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
75314091 CCCGAGCTCATTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
75314128 GCGGGTTACA
Statistics
Matches: 110, Mismatches: 11, Indels: 18
0.79 0.08 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 64 0.58
47 27 0.25
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (46 bp):
TCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:75314107 original size:93 final size:93
Alignment explanation
Indices: 75313948--75314119 Score: 281
Period size: 93 Copynumber: 1.8 Consensus size: 93
75313938 GGGATATTTG
* * *
75313948 GGCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCAAACTCGTTGAG
1 GGCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCAAACTCATTGAG
75314013 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
* * * *
75314041 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCATTGAG
1 GGCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCAAACTCATTGAG
75314106 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
75314120 ACTTATGGGC
Statistics
Matches: 72, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.22, C:0.22, G:0.28, T:0.28
Consensus pattern (93 bp):
GGCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCAAACTCATTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:75317099 original size:15 final size:15
Alignment explanation
Indices: 75317060--75317139 Score: 74
Period size: 15 Copynumber: 5.4 Consensus size: 15
75317050 GTATCTTGGG
*
75317060 TTTCTTTATCCTGGA
1 TTTCTTTATTCTGGA
*
75317075 TCTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
* *
75317090 TTTCTTTATTCCGGG
1 TTTCTTTATTCTGGA
*
75317105 TTTCTCTA-TCTTGGA
1 TTTCTTTATTC-TGGA
* *
75317120 TTTCTTTTTTC-GGT
1 TTTCTTTATTCTGGA
75317134 TTTCTT
1 TTTCTT
75317140 GTTATCTTTG
Statistics
Matches: 52, Mismatches: 11, Indels: 5
0.76 0.16 0.07
Matches are distributed among these distances:
14 10 0.19
15 40 0.77
16 2 0.04
ACGTcount: A:0.09, C:0.19, G:0.14, T:0.59
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:75317120 original size:30 final size:30
Alignment explanation
Indices: 75317051--75317126 Score: 84
Period size: 30 Copynumber: 2.5 Consensus size: 30
75317041 CATAGTATCG
* *
75317051 TATCTTGGGTTTCTTTATCCTGGATCTCTT
1 TATCTTGGATTTCTTTATCCTGGATCTCTC
* *
75317081 TAT-TCTGGATTTCTTTATTCC-GGGTTTCTC
1 TATCT-TGGATTTCTTTA-TCCTGGATCTCTC
75317111 TATCTTGGATTTCTTT
1 TATCTTGGATTTCTTT
75317127 TTTCGGTTTT
Statistics
Matches: 39, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
29 1 0.03
30 34 0.87
31 4 0.10
ACGTcount: A:0.11, C:0.18, G:0.16, T:0.55
Consensus pattern (30 bp):
TATCTTGGATTTCTTTATCCTGGATCTCTC
Found at i:75319579 original size:46 final size:46
Alignment explanation
Indices: 75319526--75319701 Score: 187
Period size: 46 Copynumber: 3.8 Consensus size: 46
75319516 TATTTGGGCA
*
75319526 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * * *
75319572 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A--CG
* *
75319619 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * * * *
75319665 CCCGAGCTCATTGATTTGAGTCCAAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
75319702 GCGGGTTACA
Statistics
Matches: 108, Mismatches: 15, Indels: 14
0.79 0.11 0.10
Matches are distributed among these distances:
43 6 0.06
45 3 0.03
46 63 0.58
47 28 0.26
48 3 0.03
50 5 0.05
ACGTcount: A:0.22, C:0.21, G:0.27, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:75319684 original size:93 final size:93
Alignment explanation
Indices: 75319522--75319693 Score: 272
Period size: 93 Copynumber: 1.8 Consensus size: 93
75319512 GGGATATTTG
* * *
75319522 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCATTGAG
*
75319587 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCAAGTTCGTGAGATGTAACTA
* * * *
75319615 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCATTGAT
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCATTGAG
75319680 TTGAGTCCAAGTTC
66 TTGAGTCCAAGTTC
75319694 ACTTATGGGC
Statistics
Matches: 71, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.22, C:0.22, G:0.28, T:0.28
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCATTGAG
TTGAGTCCAAGTTCGTGAGATGTAACTA
Found at i:75333255 original size:40 final size:40
Alignment explanation
Indices: 75333207--75333314 Score: 189
Period size: 40 Copynumber: 2.7 Consensus size: 40
75333197 GCAAACACAT
* * *
75333207 TTGCCTTCGGGTCTTAACCCGGACATATCAACTTGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
75333247 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
75333287 TTGCCTTCGGGTCTTAGCCCGGATATAT
1 TTGCCTTCGGGTCTTAGCCCGGATATAT
75333315 TCCAATGCTC
Statistics
Matches: 65, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 65 1.00
ACGTcount: A:0.21, C:0.27, G:0.20, T:0.31
Consensus pattern (40 bp):
TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
Found at i:75340777 original size:71 final size:70
Alignment explanation
Indices: 75340643--75340772 Score: 176
Period size: 71 Copynumber: 1.9 Consensus size: 70
75340633 AGCCAATTTA
* * *
75340643 TCTCGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACACATGCGACCTAGCTACATT
1 TCTCGTAGCTCTCTTGTCTACATGGTGTACATCAC-TCGAATCACACATGCGACCTAGCTACATT
75340708 TATCTC
65 TATCTC
* *
75340714 TCTCGTAGCTCTCTTGTCTACATGG-GATACATC-C-CGTATCACACATGTGACCTAGCTAC
1 TCTCGTAGCTCTCTTGTCTACATGGTG-TACATCACTCGAATCACACATGCGACCTAGCTAC
75340773 TACATAGTAT
Statistics
Matches: 53, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
68 22 0.42
70 2 0.04
71 29 0.55
ACGTcount: A:0.21, C:0.30, G:0.16, T:0.33
Consensus pattern (70 bp):
TCTCGTAGCTCTCTTGTCTACATGGTGTACATCACTCGAATCACACATGCGACCTAGCTACATTT
ATCTC
Found at i:75340791 original size:68 final size:70
Alignment explanation
Indices: 75340641--75340798 Score: 171
Period size: 68 Copynumber: 2.3 Consensus size: 70
75340631 CTAGCCAATT
* * *
75340641 TATCTCGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACACATGCGACCTAGCTACA
1 TATCTCGTAGCTCTCTTGTCTACATGGTGTACATCAC-TCGAATCACACATGCGACCTAGCTACA
**
75340706 TTTATC
65 CATATC
* * *
75340712 TCTCTCGTAGCTCTCTTGTCTACATGG-GATACATC-C-CGTATCACACATGTGACCTAGCTACT
1 TATCTCGTAGCTCTCTTGTCTACATGGTG-TACATCACTCGAATCACACATGCGACCTAGCTAC-
*
75340774 ACATA-G
64 ACATATC
*
75340780 TATCTCGTAGCTTTCTTGT
1 TATCTCGTAGCTCTCTTGT
75340799 ACACATGACG
Statistics
Matches: 74, Mismatches: 11, Indels: 7
0.80 0.12 0.08
Matches are distributed among these distances:
68 39 0.53
69 3 0.04
70 2 0.03
71 30 0.41
ACGTcount: A:0.21, C:0.28, G:0.16, T:0.35
Consensus pattern (70 bp):
TATCTCGTAGCTCTCTTGTCTACATGGTGTACATCACTCGAATCACACATGCGACCTAGCTACAC
ATATC
Found at i:75354162 original size:148 final size:148
Alignment explanation
Indices: 75353890--75354183 Score: 462
Period size: 148 Copynumber: 2.0 Consensus size: 148
75353880 ATATATTTTA
** * **
75353890 ATATATTCAAATTTATGTAGCAACAATACCAATAATAATTGAGTTAAAATTTAATGGATATTTTA
1 ATATATTCAAATTTATGTAGCAACAATACCAATAATAATCAAGTTAAAATTCAATCCATATTTTA
* * *
75353955 GATTTATTATTATTTAAATTTAGATATATTTTCTCCCAATCTGATCTGAGGGAGTAAAGGTGAAC
66 GATCTATTACTATTTAAATTTAGATATATTTTCTCCCAATCTGATCTGAGGGAGAAAAGGTGAAC
75354020 CTGATCTGACGGTCTTAG
131 CTGATCTGACGGTCTTAG
* * *
75354038 ATATATTCAAATTTATGTAGCAATAATACTAATAATAATCAAGTTAAAATTCAGTCCATATTTTA
1 ATATATTCAAATTTATGTAGCAACAATACCAATAATAATCAAGTTAAAATTCAATCCATATTTTA
* * *
75354103 GATCTATTACTGTTTAAATTTAGATATATTTTCTCCCAATCTGATCTGATGGTGAAAAGGTGAAC
66 GATCTATTACTATTTAAATTTAGATATATTTTCTCCCAATCTGATCTGAGGGAGAAAAGGTGAAC
75354168 CTGATCTGACGGTCTT
131 CTGATCTGACGGTCTT
75354184 GATCAAGGTG
Statistics
Matches: 132, Mismatches: 14, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
148 132 1.00
ACGTcount: A:0.35, C:0.12, G:0.14, T:0.38
Consensus pattern (148 bp):
ATATATTCAAATTTATGTAGCAACAATACCAATAATAATCAAGTTAAAATTCAATCCATATTTTA
GATCTATTACTATTTAAATTTAGATATATTTTCTCCCAATCTGATCTGAGGGAGAAAAGGTGAAC
CTGATCTGACGGTCTTAG
Found at i:75358156 original size:445 final size:443
Alignment explanation
Indices: 75357322--75358209 Score: 1609
Period size: 445 Copynumber: 2.0 Consensus size: 443
75357312 AATAAAGAGA
*
75357322 AATACTGGAGTGATAAAATGGAAAATAAAGAATTCAAAATTTACTTGTAGGATCAGTCAGATTCG
1 AATACTAGAGTGATAAAATGGAAAATAAAGAATTCAAAATTTACTTGTAGGATCAGTCAGATTCG
* *
75357387 AGATGGACTACTCTCCCAAATAATACTTTTTAATAAAGACTCCTCTCCTATTAAAGAGTTTCCTA
66 AGATGGACCACTCTCCCAAATAATACTTTTTAATAAAGACTCCTCTCCTACTAAAGAGTTTCCTA
75357452 GGTTATTTATACTAACAATCCCAGGTAATAACCTCAACTAATAAGCTTAAATAAAGGAACATAAA
131 GGTTATTTATACTAACAATCCCAGGTAATAACCTCAACTAATAAGCTTAAATAAAGGAACATAAA
75357517 CTGTAACAGCCAAAGTGGTTCCTAATTTTCATATTAGTGTAACCAAGGTGGTTCCATGATTTCAG
196 CTGTAACAGCCAAAGTGGTTCCTAATTTTCATATTAGTGTAACCAAGGTGGTTCCATGATTTCAG
* *
75357582 TTAACTGACTAAATGTGACTTCTTCCATATTTTTTTCATGTGCCCTAGATTTCCACCTTGAGTAT
261 TTAACTGACTAAATATGACTTCTTCCATATTTTTTCCATGTGCCCTAGATTTCCACCTTGAGTAT
75357647 ATTTATAAGGGAGTTGCATCAATATTTCCCCCTCGTAAGATGACTTGTCCTCAAGGCGAAAGGAT
326 ATTTATAAGGGAGTTGCATCAATATTTCCCCCTCGTAAGATGACTTGTCCTCAAGGCGAAAGGAT
75357712 GGAAATTGTTCGACAAAGAGATCATAATTTTCCCCTGAAGCTTCTTCTAAAGG
391 GGAAATTGTTCGACAAAGAGATCATAATTTTCCCCTGAAGCTTCTTCTAAAGG
*
75357765 AATACTAGAGTGATAAAATGGAAAATAAAGAATTTAAAATTTACTTGTAGGATCAGTTC-GATTC
1 AATACTAGAGTGATAAAATGGAAAATAAAGAATTCAAAATTTACTTGTAGGATCAG-TCAGATTC
*
75357829 GAGATGGACCACTCTCCCAAATAATACTTTTTAATAAAAGGACTCC-CTTCTTACTAAAGAGTTT
65 GAGATGGACCACTCTCCCAAATAATACTTTTTAAT-AAA-GACTCCTC-TCCTACTAAAGAGTTT
75357893 CCTAGGTTATTTATACTAACAATCCCAGGTAATAACCTCAACTAATAAGCTTAAATAAAGGAACA
127 CCTAGGTTATTTATACTAACAATCCCAGGTAATAACCTCAACTAATAAGCTTAAATAAAGGAACA
* *
75357958 TAATCTGTAACAGCCAAAGTGGTTCCTAATTTTCATATTTGTGTAACCAAGGTGGTTCCATGATT
192 TAAACTGTAACAGCCAAAGTGGTTCCTAATTTTCATATTAGTGTAACCAAGGTGGTTCCATGATT
75358023 TCAGTTAACTGACTAAATATGACTTCTTCCATATTTTTTCCATGTGCCCTAGATTTCCACCTTGA
257 TCAGTTAACTGACTAAATATGACTTCTTCCATATTTTTTCCATGTGCCCTAGATTTCCACCTTGA
* *
75358088 GTATATTTATAGGGGAGTTGCATCAATATTTCCCCCTCGTAAGATGACTTGTCCTTAAGGCGAAA
322 GTATATTTATAAGGGAGTTGCATCAATATTTCCCCCTCGTAAGATGACTTGTCCTCAAGGCGAAA
* *
75358153 GGATTGAAATTGTTCGACAAGGAGATCATAATTTTCCCCTGAAGCTTCTTCTAAAGG
387 GGATGGAAATTGTTCGACAAAGAGATCATAATTTTCCCCTGAAGCTTCTTCTAAAGG
75358210 CCTCCCTTTC
Statistics
Matches: 428, Mismatches: 13, Indels: 6
0.96 0.03 0.01
Matches are distributed among these distances:
443 93 0.22
444 6 0.01
445 329 0.77
ACGTcount: A:0.33, C:0.18, G:0.16, T:0.32
Consensus pattern (443 bp):
AATACTAGAGTGATAAAATGGAAAATAAAGAATTCAAAATTTACTTGTAGGATCAGTCAGATTCG
AGATGGACCACTCTCCCAAATAATACTTTTTAATAAAGACTCCTCTCCTACTAAAGAGTTTCCTA
GGTTATTTATACTAACAATCCCAGGTAATAACCTCAACTAATAAGCTTAAATAAAGGAACATAAA
CTGTAACAGCCAAAGTGGTTCCTAATTTTCATATTAGTGTAACCAAGGTGGTTCCATGATTTCAG
TTAACTGACTAAATATGACTTCTTCCATATTTTTTCCATGTGCCCTAGATTTCCACCTTGAGTAT
ATTTATAAGGGAGTTGCATCAATATTTCCCCCTCGTAAGATGACTTGTCCTCAAGGCGAAAGGAT
GGAAATTGTTCGACAAAGAGATCATAATTTTCCCCTGAAGCTTCTTCTAAAGG
Found at i:75361388 original size:63 final size:63
Alignment explanation
Indices: 75361289--75361416 Score: 175
Period size: 63 Copynumber: 2.0 Consensus size: 63
75361279 TCATATTCAA
* ** * * *
75361289 TTCTTTGACAATGGTATTGACTATGAAATTGTGTGTAGAGCCATTATCAATAAGAATTAAAAC
1 TTCTTTCACAATGGTATCAACTATGAAATTGTGTGTAGACCCACTATCAATAAAAATTAAAAC
* * *
75361352 TTCTTTCATAATGGTATCAACTATGAAATTGTGTGTAGACCCACTGTTAATAAAAATTAAAAC
1 TTCTTTCACAATGGTATCAACTATGAAATTGTGTGTAGACCCACTATCAATAAAAATTAAAAC
75361415 TT
1 TT
75361417 GTATGGTCTT
Statistics
Matches: 56, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
63 56 1.00
ACGTcount: A:0.37, C:0.12, G:0.15, T:0.36
Consensus pattern (63 bp):
TTCTTTCACAATGGTATCAACTATGAAATTGTGTGTAGACCCACTATCAATAAAAATTAAAAC
Found at i:75368366 original size:18 final size:18
Alignment explanation
Indices: 75368345--75368402 Score: 53
Period size: 18 Copynumber: 3.2 Consensus size: 18
75368335 AAGGTTGACA
75368345 TTTTATTTAAATTAAACG
1 TTTTATTTAAATTAAACG
** * ** *
75368363 TTTTCCTTACATGGAAGG
1 TTTTATTTAAATTAAACG
*
75368381 GTTTATTTAAATTAAACG
1 TTTTATTTAAATTAAACG
75368399 TTTT
1 TTTT
75368403 CCTTACGATC
Statistics
Matches: 26, Mismatches: 14, Indels: 0
0.65 0.35 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.31, C:0.09, G:0.12, T:0.48
Consensus pattern (18 bp):
TTTTATTTAAATTAAACG
Found at i:75371122 original size:241 final size:241
Alignment explanation
Indices: 75370693--75371176 Score: 844
Period size: 241 Copynumber: 2.0 Consensus size: 241
75370683 ATTACTGGGC
*
75370693 ATTCTATTTACAACATTTAAGGTGCAGGGGACACACGGCCTAACCACATGCCCAGGTATAAGCTA
1 ATTCTATTTACAACATTTAAGGTGCAGGGGACACACGGCCTAACCACATGCCCAGGTATAAGCCA
*
75370758 TGTGTCTCACACAGTCTGATCACATGCCCGTGTGCCAGGCCGTGTGGACTCAAAAATGAGCCTTT
66 TGTGTCTCACACAGTCTGATCACACGCCCGTGTGCCAGGCCGTGTGGACTCAAAAATGAGCCTTT
* *
75370823 CAATTCAAGTTTACCAACCTTGCAAACCTTAAATAACAAGCAACTTAAATTCCAATCTTTCAATC
131 CAATTCAAGTTTACCAACCCTGCAAACCTTAAATAACAAGAAACTTAAATTCCAATCTTTCAATC
*
75370888 AATCCAAAACATGATTAAATACATCTAAAACATGTCAAAACTGTTA
196 AATCCAAAACATGATCAAATACATCTAAAACATGTCAAAACTGTTA
* *
75370934 ATTCTGTTTACAACATTTAAGGTGCCGGGGACACACGGCCTAACCACATGCCC-GTGTATAAGCC
1 ATTCTATTTACAACATTTAAGGTGCAGGGGACACACGGCCTAACCACATGCCCAG-GTATAAGCC
* * * *
75370998 GTGTGTCTCATACGGTCTGATCACACGCCCGTGTGTCAGGCCGTGTGGACTCAAAAATGAGCCTT
65 ATGTGTCTCACACAGTCTGATCACACGCCCGTGTGCCAGGCCGTGTGGACTCAAAAATGAGCCTT
75371063 TCAATTCAAGTTTACCAACCCTGCAAACCTTAAATAACAAGAAACTTAAATTCCAATCTTTCAAT
130 TCAATTCAAGTTTACCAACCCTGCAAACCTTAAATAACAAGAAACTTAAATTCCAATCTTTCAAT
*
75371128 CAATCCAAAAGATGATCAAATACATCTAAAACATGTCAAAACTGTTA
195 CAATCCAAAACATGATCAAATACATCTAAAACATGTCAAAACTGTTA
75371175 AT
1 AT
75371177 ATAACGACCT
Statistics
Matches: 230, Mismatches: 12, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
240 1 0.00
241 229 1.00
ACGTcount: A:0.34, C:0.25, G:0.15, T:0.26
Consensus pattern (241 bp):
ATTCTATTTACAACATTTAAGGTGCAGGGGACACACGGCCTAACCACATGCCCAGGTATAAGCCA
TGTGTCTCACACAGTCTGATCACACGCCCGTGTGCCAGGCCGTGTGGACTCAAAAATGAGCCTTT
CAATTCAAGTTTACCAACCCTGCAAACCTTAAATAACAAGAAACTTAAATTCCAATCTTTCAATC
AATCCAAAACATGATCAAATACATCTAAAACATGTCAAAACTGTTA
Found at i:75376409 original size:27 final size:26
Alignment explanation
Indices: 75376371--75376465 Score: 111
Period size: 27 Copynumber: 3.5 Consensus size: 26
75376361 NNNNNNNNNN
75376371 GTGGCAGAGCCACCAGATCAGATAAT
1 GTGGCAGAGCCACCAGATCAGATAAT
*
75376397 CGTGGCATAGCCACCAGAAT-AGATATAT
1 -GTGGCAGAGCCACCAG-ATCAGATA-AT
* *
75376425 GTGACAGAGCCACTAGATCAGATAATT
1 GTGGCAGAGCCACCAGATCAGATAA-T
*
75376452 GTGGCATAGCCACC
1 GTGGCAGAGCCACC
75376466 TGGACGCTTC
Statistics
Matches: 57, Mismatches: 7, Indels: 8
0.79 0.10 0.11
Matches are distributed among these distances:
26 3 0.05
27 50 0.88
28 4 0.07
ACGTcount: A:0.34, C:0.23, G:0.24, T:0.19
Consensus pattern (26 bp):
GTGGCAGAGCCACCAGATCAGATAAT
Found at i:75378125 original size:26 final size:26
Alignment explanation
Indices: 75378089--75378248 Score: 259
Period size: 26 Copynumber: 6.2 Consensus size: 26
75378079 TGAAATGTCC
* **
75378089 ATCATGGAACATTTACCTAAGACATT
1 ATCATGAAACATTTACCTAACCCATT
75378115 ATCAT-AGAACATTTACCTAACCCATT
1 ATCATGA-AACATTTACCTAACCCATT
75378141 ATCATGAAACATTTACCTAACCCATT
1 ATCATGAAACATTTACCTAACCCATT
75378167 ATCATGAAACATTTACCTAACCCATT
1 ATCATGAAACATTTACCTAACCCATT
75378193 ATCATGAAACATTTACCTAACCCATT
1 ATCATGAAACATTTACCTAACCCATT
* *
75378219 ATCATGGAACATTTACCTAACCTATT
1 ATCATGAAACATTTACCTAACCCATT
75378245 ATCA
1 ATCA
75378249 ATTTGTATCA
Statistics
Matches: 127, Mismatches: 5, Indels: 4
0.93 0.04 0.03
Matches are distributed among these distances:
26 126 0.99
27 1 0.01
ACGTcount: A:0.38, C:0.25, G:0.06, T:0.31
Consensus pattern (26 bp):
ATCATGAAACATTTACCTAACCCATT
Found at i:75382695 original size:15 final size:16
Alignment explanation
Indices: 75382675--75382711 Score: 51
Period size: 14 Copynumber: 2.4 Consensus size: 16
75382665 TATTATATTC
75382675 TTATTTTATATGT-AT
1 TTATTTTATATGTAAT
*
75382690 TTA-TTTATATTTAAT
1 TTATTTTATATGTAAT
75382705 TTATTTT
1 TTATTTT
75382712 GTTCACTAAC
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
14 8 0.42
15 8 0.42
16 3 0.16
ACGTcount: A:0.27, C:0.00, G:0.03, T:0.70
Consensus pattern (16 bp):
TTATTTTATATGTAAT
Found at i:75383665 original size:8 final size:8
Alignment explanation
Indices: 75383626--75383666 Score: 50
Period size: 7 Copynumber: 5.2 Consensus size: 8
75383616 CTTTATATAT
75383626 ATTTAAAA
1 ATTTAAAA
75383634 ATATTAAAA
1 AT-TTAAAA
*
75383643 A-TTAATA
1 ATTTAAAA
75383650 ATTT-AAA
1 ATTTAAAA
75383657 ATTTAAAA
1 ATTTAAAA
75383665 AT
1 AT
75383667 ATTTAAAAAC
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
7 12 0.43
8 9 0.32
9 7 0.25
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (8 bp):
ATTTAAAA
Found at i:75385219 original size:18 final size:19
Alignment explanation
Indices: 75385196--75385242 Score: 55
Period size: 17 Copynumber: 2.5 Consensus size: 19
75385186 AATATTAAAT
75385196 AAAATTTAAAAAGTT-C-AA
1 AAAATTTAAAAA-TTACAAA
75385214 AAAA-TTAAAAATTAACAAA
1 AAAATTTAAAAATT-ACAAA
75385233 AAAATTTAAA
1 AAAATTTAAA
75385243 TGTTAAGTTC
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
16 2 0.08
17 7 0.28
18 5 0.20
19 6 0.24
20 5 0.20
ACGTcount: A:0.68, C:0.04, G:0.02, T:0.26
Consensus pattern (19 bp):
AAAATTTAAAAATTACAAA
Found at i:75385864 original size:27 final size:28
Alignment explanation
Indices: 75385816--75385871 Score: 69
Period size: 27 Copynumber: 2.0 Consensus size: 28
75385806 TGGACTTAAC
*
75385816 TTTTAAATTTTTAATTAATTTTATATATT
1 TTTTAAACTTTT-ATTAATTTTATATATT
* *
75385845 TTTTAAACTTTT-TTATTTTTATTTATT
1 TTTTAAACTTTTATTAATTTTATATATT
75385872 ATATTTATAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
27 13 0.54
29 11 0.46
ACGTcount: A:0.29, C:0.02, G:0.00, T:0.70
Consensus pattern (28 bp):
TTTTAAACTTTTATTAATTTTATATATT
Found at i:75385925 original size:18 final size:17
Alignment explanation
Indices: 75385898--75385941 Score: 52
Period size: 17 Copynumber: 2.5 Consensus size: 17
75385888 ATAACATTTC
*
75385898 AAAAAAATTAAAATTTTT
1 AAAAATATT-AAATTTTT
**
75385916 AAAAATATTAGTTTTTT
1 AAAAATATTAAATTTTT
75385933 AAAAATATT
1 AAAAATATT
75385942 TTTTAAAATT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
17 15 0.65
18 8 0.35
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (17 bp):
AAAAATATTAAATTTTT
Found at i:75389086 original size:22 final size:22
Alignment explanation
Indices: 75389061--75389102 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
75389051 AGTACCGTGT
* *
75389061 TGCTGAACAGAGAGCATTGTAG
1 TGCTAAACAGAGAACATTGTAG
75389083 TGCTAAACAGAGAACATTGT
1 TGCTAAACAGAGAACATTGT
75389103 CGTGATAAGT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.36, C:0.14, G:0.26, T:0.24
Consensus pattern (22 bp):
TGCTAAACAGAGAACATTGTAG
Found at i:75389154 original size:22 final size:22
Alignment explanation
Indices: 75389123--75389185 Score: 81
Period size: 22 Copynumber: 2.9 Consensus size: 22
75389113 AGATAGAACC
*
75389123 AAGTGTTGATTAGAGAGCACCA
1 AAGTGATGATTAGAGAGCACCA
*
75389145 AAGTGATGATTAGAGAGCATCA
1 AAGTGATGATTAGAGAGCACCA
* * *
75389167 AAGTGCTAAATAGAGAGCA
1 AAGTGATGATTAGAGAGCA
75389186 TCGAAGTGCT
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 36 1.00
ACGTcount: A:0.41, C:0.11, G:0.27, T:0.21
Consensus pattern (22 bp):
AAGTGATGATTAGAGAGCACCA
Found at i:75389186 original size:22 final size:22
Alignment explanation
Indices: 75389133--75389220 Score: 97
Period size: 22 Copynumber: 4.0 Consensus size: 22
75389123 AAGTGTTGAT
* * * *
75389133 TAGAGAGCACCAAAGTGATGAT
1 TAGAGAGCATCAAAGTGCTAAA
75389155 TAGAGAGCATCAAAGTGCTAAA
1 TAGAGAGCATCAAAGTGCTAAA
*
75389177 TAGAGAGCATCGAAGTGCTAAA
1 TAGAGAGCATCAAAGTGCTAAA
* *
75389199 CAAAGAGCA-CAGAAGTGCTAAA
1 TAGAGAGCATCA-AAGTGCTAAA
75389221 CCCGTACAAG
Statistics
Matches: 57, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
21 1 0.02
22 56 0.98
ACGTcount: A:0.44, C:0.15, G:0.25, T:0.16
Consensus pattern (22 bp):
TAGAGAGCATCAAAGTGCTAAA
Found at i:75392269 original size:41 final size:41
Alignment explanation
Indices: 75392212--75392292 Score: 153
Period size: 41 Copynumber: 2.0 Consensus size: 41
75392202 AAAATTACTA
75392212 AAAACGGGACAAGAAAACTTACCCAATTTGGCCAAGAAAGC
1 AAAACGGGACAAGAAAACTTACCCAATTTGGCCAAGAAAGC
*
75392253 AAAACGGGACAAGAAAACTTACCCTATTTGGCCAAGAAAG
1 AAAACGGGACAAGAAAACTTACCCAATTTGGCCAAGAAAG
75392293 TTTCTTCTCT
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
41 39 1.00
ACGTcount: A:0.46, C:0.21, G:0.20, T:0.14
Consensus pattern (41 bp):
AAAACGGGACAAGAAAACTTACCCAATTTGGCCAAGAAAGC
Found at i:75397411 original size:21 final size:21
Alignment explanation
Indices: 75397381--75397426 Score: 83
Period size: 21 Copynumber: 2.2 Consensus size: 21
75397371 CTCTAACTAT
75397381 TTTTAATATATTATTTTAAAA
1 TTTTAATATATTATTTTAAAA
*
75397402 TTTTATTATATTATTTTAAAA
1 TTTTAATATATTATTTTAAAA
75397423 TTTT
1 TTTT
75397427 TTAATTTTAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (21 bp):
TTTTAATATATTATTTTAAAA
Found at i:75397912 original size:26 final size:26
Alignment explanation
Indices: 75397874--75397927 Score: 72
Period size: 26 Copynumber: 2.1 Consensus size: 26
75397864 TTGAAAATTT
* *
75397874 TTCGAATCGAGTCAAATGAAATAAAA
1 TTCGAATCAAGTCAAATCAAATAAAA
* *
75397900 TTCGAGTCAAGTCAAATCAAGTAAAA
1 TTCGAATCAAGTCAAATCAAATAAAA
75397926 TT
1 TT
75397928 ATTCGAGTTA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.46, C:0.13, G:0.15, T:0.26
Consensus pattern (26 bp):
TTCGAATCAAGTCAAATCAAATAAAA
Found at i:75398030 original size:15 final size:15
Alignment explanation
Indices: 75398012--75398046 Score: 54
Period size: 15 Copynumber: 2.3 Consensus size: 15
75398002 AAAATTTTTG
75398012 AAAGCAAAAA-AAAAA
1 AAAG-AAAAAGAAAAA
75398027 AAAGAAAAAGAAAAA
1 AAAGAAAAAGAAAAA
75398042 AAAGA
1 AAAGA
75398047 TGCTTTAGAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 5 0.26
15 14 0.74
ACGTcount: A:0.86, C:0.03, G:0.11, T:0.00
Consensus pattern (15 bp):
AAAGAAAAAGAAAAA
Found at i:75398227 original size:19 final size:19
Alignment explanation
Indices: 75398205--75398243 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
75398195 TTTTTATAAC
75398205 TATTTTGAATTTTG-AATTT
1 TATTTT-AATTTTGTAATTT
*
75398224 TATTTTATTTTTGTAATTT
1 TATTTTAATTTTGTAATTT
75398243 T
1 T
75398244 TGTTAAGAGA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 6 0.33
19 12 0.67
ACGTcount: A:0.23, C:0.00, G:0.08, T:0.69
Consensus pattern (19 bp):
TATTTTAATTTTGTAATTT
Found at i:75398407 original size:18 final size:19
Alignment explanation
Indices: 75398384--75398422 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
75398374 TTGCTTATCC
*
75398384 TAAAT-ATATTTAATAATT
1 TAAATAATATTTAAAAATT
*
75398402 TAAATAATTTTTAAAAATT
1 TAAATAATATTTAAAAATT
75398421 TA
1 TA
75398423 TACCAAAATT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 5 0.28
19 13 0.72
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (19 bp):
TAAATAATATTTAAAAATT
Found at i:75404172 original size:30 final size:31
Alignment explanation
Indices: 75404138--75404207 Score: 74
Period size: 29 Copynumber: 2.3 Consensus size: 31
75404128 TCGTTTCTAT
*
75404138 TATTATATACATGTATCATATA-TTCATTA-A
1 TATTATATACATGT-TCACATATTTCATTACA
**
75404168 TATTA-ATATTTGTTCACATATTTCATTACA
1 TATTATATACATGTTCACATATTTCATTACA
75404198 TATATATATA
1 TAT-TATATA
75404208 GGTATTTTTG
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
28 6 0.18
29 13 0.39
30 9 0.27
31 2 0.06
32 3 0.09
ACGTcount: A:0.39, C:0.10, G:0.03, T:0.49
Consensus pattern (31 bp):
TATTATATACATGTTCACATATTTCATTACA
Found at i:75415591 original size:18 final size:18
Alignment explanation
Indices: 75415557--75415591 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
75415547 TGTACGTACG
*
75415557 TATATATTATATGTATTT
1 TATATATTATATATATTT
*
75415575 TATATATTATGTATATT
1 TATATATTATATATATT
75415592 ATTTTTTTAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.34, C:0.00, G:0.06, T:0.60
Consensus pattern (18 bp):
TATATATTATATATATTT
Found at i:75417269 original size:17 final size:17
Alignment explanation
Indices: 75417247--75417286 Score: 80
Period size: 17 Copynumber: 2.4 Consensus size: 17
75417237 ATTGGTTAAG
75417247 TTGCATTTAGGATAATT
1 TTGCATTTAGGATAATT
75417264 TTGCATTTAGGATAATT
1 TTGCATTTAGGATAATT
75417281 TTGCAT
1 TTGCAT
75417287 CTAGTTATTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.28, C:0.07, G:0.17, T:0.47
Consensus pattern (17 bp):
TTGCATTTAGGATAATT
Found at i:75417375 original size:18 final size:18
Alignment explanation
Indices: 75417352--75417387 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
75417342 TTGTAAAACG
75417352 TTAATTTTGCAAAATATT
1 TTAATTTTGCAAAATATT
75417370 TTAATTTTGCAAAATATT
1 TTAATTTTGCAAAATATT
75417388 GATTAACATA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.39, C:0.06, G:0.06, T:0.50
Consensus pattern (18 bp):
TTAATTTTGCAAAATATT
Found at i:75417575 original size:9 final size:10
Alignment explanation
Indices: 75417552--75417585 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
75417542 TACAAATTGG
75417552 TTTATTTATT
1 TTTATTTATT
75417562 TTTATTTATT
1 TTTATTTATT
*
75417572 TTATTTTTATT
1 TT-TATTTATT
75417583 TTT
1 TTT
75417586 TGTGATTTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
10 13 0.59
11 9 0.41
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (10 bp):
TTTATTTATT
Found at i:75417576 original size:15 final size:14
Alignment explanation
Indices: 75417552--75417583 Score: 55
Period size: 15 Copynumber: 2.2 Consensus size: 14
75417542 TACAAATTGG
75417552 TTTATTTATTTTTA
1 TTTATTTATTTTTA
75417566 TTTATTTTATTTTTA
1 TTTA-TTTATTTTTA
75417581 TTT
1 TTT
75417584 TTTGTGATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 4 0.24
15 13 0.76
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (14 bp):
TTTATTTATTTTTA
Found at i:75417593 original size:21 final size:20
Alignment explanation
Indices: 75417556--75417599 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 20
75417546 AATTGGTTTA
*
75417556 TTTATTTTTATTTATTTTATT
1 TTTATTTTTATTGA-TTTATT
75417577 TTTATTTTT-TGTGATTTATT
1 TTTATTTTTAT-TGATTTATT
75417597 TTT
1 TTT
75417600 TAGGTGTTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
20 10 0.48
21 11 0.52
ACGTcount: A:0.16, C:0.00, G:0.05, T:0.80
Consensus pattern (20 bp):
TTTATTTTTATTGATTTATT
Found at i:75425281 original size:21 final size:21
Alignment explanation
Indices: 75425255--75425298 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
75425245 GCTTCGAGAG
*
75425255 CTATAATTAGCGATGAAGGAT
1 CTATAATTAACGATGAAGGAT
*
75425276 CTATAATTAATGATGAAGGAT
1 CTATAATTAACGATGAAGGAT
75425297 CT
1 CT
75425299 CACTTTGTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.39, C:0.09, G:0.20, T:0.32
Consensus pattern (21 bp):
CTATAATTAACGATGAAGGAT
Found at i:75432547 original size:46 final size:46
Alignment explanation
Indices: 75432480--75432833 Score: 442
Period size: 46 Copynumber: 7.7 Consensus size: 46
75432470 TGTAACCCGC
*
75432480 CCATAAGTGAACTCAGACTCAACTCAACGAGCTCAGGTGTTCGCAT
1 CCATAAGTGAACTCAGACTCAACTCAACGAGCTCAGGTGTTCGCTT
* * ***
75432526 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCAGACATTCGCTT
1 CCATAAGTGAACTCAGACTCAACTCAACGAGCTCAGGTGTTCGCTT
*
75432572 CCATAAGTGAACTCAGACTCAACTCAACGAGCTCAGGTGTTCGCAT
1 CCATAAGTGAACTCAGACTCAACTCAACGAGCTCAGGTGTTCGCTT
* * *
75432618 CCATAAGTGAACTCGGACTCAACTCAACGAGCTC-GGATGCCTAG-TT
1 CCATAAGTGAACTCAGACTCAACTCAACGAGCTCAGG-TG-TTCGCTT
* *** * * ***
75432664 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTCAGACATTCGCTT
1 CCATAAGT-GAACTCAGACTCAACTCAACGAGCTCAGGTGTTCGCTT
*
75432711 CCATAAGTGAACTCAGACTCAACTCAACGAGCTCAGGTGTTCGCAT
1 CCATAAGTGAACTCAGACTCAACTCAACGAGCTCAGGTGTTCGCTT
* * ***
75432757 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCAGACATTCGCTT
1 CCATAAGTGAACTCAGACTCAACTCAACGAGCTCAGGTGTTCGCTT
75432803 CCATAAGTGAACTCAGACTCAACTCAACGAG
1 CCATAAGTGAACTCAGACTCAACTCAACGAG
75432834 TTCGGATGCC
Statistics
Matches: 260, Mismatches: 43, Indels: 10
0.83 0.14 0.03
Matches are distributed among these distances:
45 2 0.01
46 224 0.86
47 33 0.13
48 1 0.00
ACGTcount: A:0.31, C:0.29, G:0.18, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCAGACTCAACTCAACGAGCTCAGGTGTTCGCTT
Found at i:75432705 original size:139 final size:139
Alignment explanation
Indices: 75432534--75432787 Score: 508
Period size: 139 Copynumber: 1.8 Consensus size: 139
75432524 ATCCATAAGT
75432534 GAACTCGGACTCAACTCAACGAGTTCAGACATTCGCTTCCATAAGTGAACTCAGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGTTCAGACATTCGCTTCCATAAGTGAACTCAGACTCAACTCAA
75432599 CGAGCTCAGGTGTTCGCATCCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTT
66 CGAGCTCAGGTGTTCGCATCCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTT
75432664 ACATCTCTC
131 ACATCTCTC
75432673 GAACTCGGACTCAACTCAACGAGTTCAGACATTCGCTTCCATAAGTGAACTCAGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGTTCAGACATTCGCTTCCATAAGTGAACTCAGACTCAACTCAA
75432738 CGAGCTCAGGTGTTCGCATCCATAAGTGAACTCGGACTCAACTCAACGAG
66 CGAGCTCAGGTGTTCGCATCCATAAGTGAACTCGGACTCAACTCAACGAG
75432788 TTCAGACATT
Statistics
Matches: 115, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
139 115 1.00
ACGTcount: A:0.30, C:0.29, G:0.19, T:0.22
Consensus pattern (139 bp):
GAACTCGGACTCAACTCAACGAGTTCAGACATTCGCTTCCATAAGTGAACTCAGACTCAACTCAA
CGAGCTCAGGTGTTCGCATCCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTT
ACATCTCTC
Found at i:75432762 original size:185 final size:185
Alignment explanation
Indices: 75432488--75432843 Score: 532
Period size: 185 Copynumber: 1.9 Consensus size: 185
75432478 GCCCATAAGT
*** *
75432488 GAACTCAGACTCAACTCAACGAGCTCAGGTGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCAGACTCAACTCAACGAGCTCAGACATTCGCATCCATAAGTGAACTCAGACTCAACTCAA
* * ***
75432553 CGAGTTCAGACATTCGCTTCCATAAGTGAACTCAGACTCAACTCAACGAGCTCAGGTGTTCGCAT
66 CGAGCTCAGACATTCGCATCCATAAGTGAACTCAGACTCAACTCAACGAGCTCAGACATTCGCAT
*
75432618 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCTC
131 CCATAAGTGAACTCAGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCTC
* * *
75432673 GAACTCGGACTCAACTCAACGAGTTCAGACATTCGCTTCCATAAGTGAACTCAGACTCAACTCAA
1 GAACTCAGACTCAACTCAACGAGCTCAGACATTCGCATCCATAAGTGAACTCAGACTCAACTCAA
*** * * *
75432738 CGAGCTCAGGTGTTCGCATCCATAAGTGAACTCGGACTCAACTCAACGAGTTCAGACATTCGCTT
66 CGAGCTCAGACATTCGCATCCATAAGTGAACTCAGACTCAACTCAACGAGCTCAGACATTCGCAT
*
75432803 CCATAAGTGAACTCAGACTCAACTCAACGAGTTCGGATGCC
131 CCATAAGTGAACTCAGACTCAACTCAACGAGCTCGGATGCC
75432844 CAAATATCCT
Statistics
Matches: 151, Mismatches: 20, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
185 151 1.00
ACGTcount: A:0.30, C:0.29, G:0.19, T:0.22
Consensus pattern (185 bp):
GAACTCAGACTCAACTCAACGAGCTCAGACATTCGCATCCATAAGTGAACTCAGACTCAACTCAA
CGAGCTCAGACATTCGCATCCATAAGTGAACTCAGACTCAACTCAACGAGCTCAGACATTCGCAT
CCATAAGTGAACTCAGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCTC
Found at i:75434497 original size:41 final size:41
Alignment explanation
Indices: 75434440--75434520 Score: 153
Period size: 41 Copynumber: 2.0 Consensus size: 41
75434430 GTTGAGCTTG
*
75434440 TGTGCAAACAAATTATGTGTATTTTGTGATTTTGTGAAATA
1 TGTGCAAACAAATTATGTGTATTTTGTGATTCTGTGAAATA
75434481 TGTGCAAACAAATTATGTGTATTTTGTGATTCTGTGAAAT
1 TGTGCAAACAAATTATGTGTATTTTGTGATTCTGTGAAAT
75434521 GTGGACTAAA
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
41 39 1.00
ACGTcount: A:0.31, C:0.06, G:0.20, T:0.43
Consensus pattern (41 bp):
TGTGCAAACAAATTATGTGTATTTTGTGATTCTGTGAAATA
Found at i:75461728 original size:57 final size:56
Alignment explanation
Indices: 75461630--75461770 Score: 142
Period size: 57 Copynumber: 2.5 Consensus size: 56
75461620 CCTCATTTTG
* * * * *
75461630 AAAAGGATTTAGCCCGGACGGGTAATCCTAATATAAGTCTTTCGAGCATATGTTATG
1 AAAAGGATTTAGCCCGGAC-TGTAATCCTAATATAACTCTTTAGAGCATATGTCATA
* * *
75461687 GAATGGATTTAGCCCGGACATGTAATCC-AGATCA-AACTCTTTAGAGTATATGTCATA
1 AAAAGGATTTAGCCCGGAC-TGTAATCCTA-AT-ATAACTCTTTAGAGCATATGTCATA
*
75461744 AAAAGGATTTAGCCTGGACTGGTAATC
1 AAAAGGATTTAGCCCGGACT-GTAATC
75461771 TTGACTAAGC
Statistics
Matches: 69, Mismatches: 12, Indels: 6
0.79 0.14 0.07
Matches are distributed among these distances:
56 2 0.03
57 66 0.96
58 1 0.01
ACGTcount: A:0.33, C:0.16, G:0.22, T:0.29
Consensus pattern (56 bp):
AAAAGGATTTAGCCCGGACTGTAATCCTAATATAACTCTTTAGAGCATATGTCATA
Found at i:75472781 original size:85 final size:85
Alignment explanation
Indices: 75472638--75472898 Score: 497
Period size: 85 Copynumber: 3.1 Consensus size: 85
75472628 AACATACCAT
75472638 TATAACAACCTTGCCAAAATGAATGGTCATAAGTTAACCATATTATTACTGTAAATAATAAGCAT
1 TATAACAACCTTGCCAAAATGAATGGTCATAAGTTAACCATATTATTACTGTAAATAATAAGCAT
75472703 ATACCAAACGCAAATATATA
66 ATACCAAACGCAAATATATA
75472723 TATAACAACCTTGCCAAAATGAATGGTCATAAGTTAACCATATTATTACTGTAAATAATAAGCAT
1 TATAACAACCTTGCCAAAATGAATGGTCATAAGTTAACCATATTATTACTGTAAATAATAAGCAT
75472788 ATACCAAACGCAAATATATA
66 ATACCAAACGCAAATATATA
*
75472808 TATAACAACCTTGCCAAAATGAATGGTCATAAGTTAACCATATTATCACTGTAAATAATAAGCAT
1 TATAACAACCTTGCCAAAATGAATGGTCATAAGTTAACCATATTATTACTGTAAATAATAAGCAT
*
75472873 ATACCAAA-GCATATATATA
66 ATACCAAACGCAAATATATA
75472892 TATAACA
1 TATAACA
75472899 TACATATTTA
Statistics
Matches: 174, Mismatches: 2, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
84 17 0.10
85 157 0.90
ACGTcount: A:0.46, C:0.16, G:0.09, T:0.28
Consensus pattern (85 bp):
TATAACAACCTTGCCAAAATGAATGGTCATAAGTTAACCATATTATTACTGTAAATAATAAGCAT
ATACCAAACGCAAATATATA
Found at i:75473978 original size:43 final size:43
Alignment explanation
Indices: 75473908--75474025 Score: 125
Period size: 43 Copynumber: 2.7 Consensus size: 43
75473898 ATATATCAAA
* * * *
75473908 CAATTCCAACGTCCTAGACGTGGTCTTACATGCT-ATCTCA-TAT
1 CAATGCCAACATCCCAGACGTGGTCTTACATG-TAATCACAGT-T
***
75473951 CAATGCCATTGTCCCAGACAG-GGTCTTACATGTAATCACAGTT
1 CAATGCCAACATCCCAGAC-GTGGTCTTACATGTAATCACAGTT
75473994 CAATGCCAACATCCCAGACGTGGTCTTACATG
1 CAATGCCAACATCCCAGACGTGGTCTTACATG
75474026 AGAACACATA
Statistics
Matches: 63, Mismatches: 8, Indels: 8
0.80 0.10 0.10
Matches are distributed among these distances:
42 2 0.03
43 59 0.94
44 2 0.03
ACGTcount: A:0.27, C:0.28, G:0.17, T:0.28
Consensus pattern (43 bp):
CAATGCCAACATCCCAGACGTGGTCTTACATGTAATCACAGTT
Found at i:75474180 original size:14 final size:14
Alignment explanation
Indices: 75474161--75474201 Score: 55
Period size: 15 Copynumber: 2.8 Consensus size: 14
75474151 TACATTCGAC
75474161 TTTCACATATATAA
1 TTTCACATATATAA
*
75474175 TTTCACATAATTTAA
1 TTTCACAT-ATATAA
75474190 TTTCAACATATA
1 TTTC-ACATATA
75474202 AGCTCATACA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
14 8 0.35
15 11 0.48
16 4 0.17
ACGTcount: A:0.41, C:0.15, G:0.00, T:0.44
Consensus pattern (14 bp):
TTTCACATATATAA
Found at i:75479248 original size:27 final size:27
Alignment explanation
Indices: 75479209--75479336 Score: 116
Period size: 27 Copynumber: 4.7 Consensus size: 27
75479199 ACACGCCCAA
*
75479209 AAAAGGAAACCTTTGTGGTGATCTATG
1 AAAAGGAAACCTTTGTGGCGATCTATG
* * * * *
75479236 AAAATGAATCCTTTGCGGTGATTTATG
1 AAAAGGAAACCTTTGTGGCGATCTATG
* * *
75479263 AAAATGAAGA-CTTTGTAGCGATCTAAG
1 AAAAGGAA-ACCTTTGTGGCGATCTATG
* *
75479290 AAAAGGAAACCTTTGTGGCAATCTTTG
1 AAAAGGAAACCTTTGTGGCGATCTATG
*
75479317 -AAAGGAATCCTTTTGTGGCG
1 AAAAGGAAACC-TTTGTGGCG
75479337 TTCTCTAAAG
Statistics
Matches: 81, Mismatches: 17, Indels: 6
0.78 0.16 0.06
Matches are distributed among these distances:
26 10 0.12
27 71 0.88
ACGTcount: A:0.33, C:0.12, G:0.24, T:0.30
Consensus pattern (27 bp):
AAAAGGAAACCTTTGTGGCGATCTATG
Found at i:75479346 original size:26 final size:26
Alignment explanation
Indices: 75479291--75479377 Score: 63
Period size: 26 Copynumber: 3.3 Consensus size: 26
75479281 CGATCTAAGA
*
75479291 AAAGGAAACCTTTGTGGCAATCTTTG
1 AAAGGAAACCTTTGTGGCAATCTCTG
* **
75479317 AAAGGAATCCTTTTGTGGCGTTCTCT-
1 AAAGGAAACC-TTTGTGGCAATCTCTG
* *
75479343 AAA-GAATGACCGTTGTGGCAACTATCTG
1 AAAGGAA--ACCTTTGTGGCAA-TCTCTG
75479371 -AAGGAAA
1 AAAGGAAA
75479378 TTCCTATGTG
Statistics
Matches: 46, Mismatches: 9, Indels: 12
0.69 0.13 0.18
Matches are distributed among these distances:
25 3 0.07
26 20 0.43
27 20 0.43
28 3 0.07
ACGTcount: A:0.31, C:0.16, G:0.24, T:0.29
Consensus pattern (26 bp):
AAAGGAAACCTTTGTGGCAATCTCTG
Found at i:75485996 original size:21 final size:21
Alignment explanation
Indices: 75485970--75486011 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
75485960 CTAATTTAAG
75485970 ATCGTGCGTCGGATAGTTCTT
1 ATCGTGCGTCGGATAGTTCTT
*
75485991 ATCGTGTGTCGGATAGTTCTT
1 ATCGTGCGTCGGATAGTTCTT
75486012 TTGGCGCGGC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.14, C:0.17, G:0.29, T:0.40
Consensus pattern (21 bp):
ATCGTGCGTCGGATAGTTCTT
Found at i:75494923 original size:29 final size:29
Alignment explanation
Indices: 75494883--75494965 Score: 139
Period size: 29 Copynumber: 2.9 Consensus size: 29
75494873 AATGTGACTA
75494883 GGCCTAACGGGCCATATAAATGTGATTTG
1 GGCCTAACGGGCCATATAAATGTGATTTG
*
75494912 GGCCTAATGGGCCATATAAATGTGATTTG
1 GGCCTAACGGGCCATATAAATGTGATTTG
* *
75494941 GGCCTAACGAGCCATATAAGTGTGA
1 GGCCTAACGGGCCATATAAATGTGA
75494966 AAAATGTAAG
Statistics
Matches: 50, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 50 1.00
ACGTcount: A:0.29, C:0.17, G:0.28, T:0.27
Consensus pattern (29 bp):
GGCCTAACGGGCCATATAAATGTGATTTG
Found at i:75495894 original size:12 final size:13
Alignment explanation
Indices: 75495877--75495908 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
75495867 ACAAATGTTA
75495877 AGTTTTG-TGCAT
1 AGTTTTGATGCAT
75495889 AGTTTTGATGCAT
1 AGTTTTGATGCAT
75495902 -GTTTTGA
1 AGTTTTGA
75495909 AATGTGCTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 14 0.74
13 5 0.26
ACGTcount: A:0.19, C:0.06, G:0.25, T:0.50
Consensus pattern (13 bp):
AGTTTTGATGCAT
Found at i:75497898 original size:46 final size:46
Alignment explanation
Indices: 75497831--75498685 Score: 1710
Period size: 46 Copynumber: 18.6 Consensus size: 46
75497821 TGTAACCCGC
75497831 CCATAAGTGAACTCGGACTCAACTCAATGAGCTCAGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAATGAGCTCAGGCGTTCGCAT
75497877 CCATAAGTGAACTCGGACTCAACTCAATGAGCTCAGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAATGAGCTCAGGCGTTCGCAT
75497923 CCATAAGTGAACTCGGACTCAACTCAATGAGCTCAGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAATGAGCTCAGGCGTTCGCAT
75497969 CCATAAGTGAACTCGGACTCAACTCAATGAGCTCAGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAATGAGCTCAGGCGTTCGCAT
75498015 CCATAAGTGAACTCGGACTCAACTCAATGAGCTCAGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAATGAGCTCAGGCGTTCGCAT
75498061 CCATAAGTGAACTCGGACTCAACTCAATGAGCTCAGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAATGAGCTCAGGCGTTCGCAT
75498107 CCATAAGTGAACTCGGACTCAACTCAATGAGCTCAGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAATGAGCTCAGGCGTTCGCAT
75498153 CCATAAGTGAACTCGGACTCAACTCAATGAGCTCAGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAATGAGCTCAGGCGTTCGCAT
75498199 CCATAAGTGAACTCGGACTCAACTCAATGAGCTCAGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAATGAGCTCAGGCGTTCGCAT
75498245 CCATAAGTGAACTCGGACTCAACTCAATGAGCTCAGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAATGAGCTCAGGCGTTCGCAT
75498291 CCATAAGTGAACTCGGACTCAACTCAATGAGCTCAGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAATGAGCTCAGGCGTTCGCAT
75498337 CCATAAGTGAACTCGGACTCAACTCAATGAGCTCAGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAATGAGCTCAGGCGTTCGCAT
75498383 CCATAAGTGAACTCGGACTCAACTCAATGAGCTCAGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAATGAGCTCAGGCGTTCGCAT
75498429 CCATAAGTGAACTCGGACTCAACTCAATGAGCTCAGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAATGAGCTCAGGCGTTCGCAT
75498475 CCATAAGTGAACTCGGACTCAACTCAATGAGCTCAGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAATGAGCTCAGGCGTTCGCAT
75498521 CCATAAGTGAACTCGGACTCAACTCAATGAGCTCAGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAATGAGCTCAGGCGTTCGCAT
75498567 CCATAAGTGAACTCGGACTCAACTCAATGAGCTCAGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAATGAGCTCAGGCGTTCGCAT
75498613 CCATAAGTGAACTCGGACTCAACTCAATGAGCTCAGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAATGAGCTCAGGCGTTCGCAT
75498659 CCATAAGTGAACTCGGACTCAACTCAA
1 CCATAAGTGAACTCGGACTCAACTCAA
75498686 CGAGTTCGGA
Statistics
Matches: 809, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 809 1.00
ACGTcount: A:0.29, C:0.28, G:0.22, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAATGAGCTCAGGCGTTCGCAT
Found at i:75499222 original size:331 final size:331
Alignment explanation
Indices: 75498620--75499282 Score: 1191
Period size: 331 Copynumber: 2.0 Consensus size: 331
75498610 CATCCATAAG
* *
75498620 TGAACTCGGACTCAACTCAATGAGCTCAGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 TGAACTCGGACTCAACTCAACGAGCTCAGGCGTTCACATCCATAAGTGAACTCGGACTCAACTCA
* *
75498685 ACGAGTTCGGATGCCTAGTTACAACTCACGAATTCGGACTCAACTCAACGAGTTCTGAACTCAAA
66 ACGAGTTCGGATGCCTAGTTACAACTCACGAACTCGGACTCAACTCAACGAGTTCAGAACTCAAA
* *
75498750 TATCCTAGTGACATGTCACTTGTATTCTAATCTATTCCTAAGGTTCAAACGGGCTTTTTCCTCTA
131 TATCCTAGTGACATGTCACTTGTATTCTAATCTATTCCTAAGGTTCAAACGGGATTTTTCCTCGA
* * * *
75498815 TCTCACATCTTTGCCGTCTTCCACGGAATATCGGAACCGATACTCGGTGATAGTTTATACTCATC
196 CCTCACATCTTTGCCGTCGTCAACGGAATATCGGAACCGATACTCGGTGATAGTTCATACTCATC
75498880 AAGTAATTCACATAATTACATATTATTTAACAATAACCACAAAACATAACATTTCATGATAATAT
261 AAGTAATTCACATAATTACATATTATTTAACAATAACCACAAAACATAACATTTCATGATAATAT
75498945 TAAGCA
326 TAAGCA
* * *
75498951 TGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCACGTTCATAAGTGAACTCGGACTCAACTCA
1 TGAACTCGGACTCAACTCAACGAGCTCAGGCGTTCACATCCATAAGTGAACTCGGACTCAACTCA
*
75499016 ATGAGTTCGGATGCCTAGTTACAACTCACGAACTCGGACTCAACTCAACGAGTTCAGAACTCAAA
66 ACGAGTTCGGATGCCTAGTTACAACTCACGAACTCGGACTCAACTCAACGAGTTCAGAACTCAAA
75499081 TATCCTAGTGACATGTCACTTGTATTCTAATCTATTCCTAAGGTTCAAACGGGATTTTTCCTCGA
131 TATCCTAGTGACATGTCACTTGTATTCTAATCTATTCCTAAGGTTCAAACGGGATTTTTCCTCGA
*
75499146 CCTCACATCTTTGCCGTCGTCAACGGAATATCGGAACTGATACTCGGTGATAGTTCATACTCATC
196 CCTCACATCTTTGCCGTCGTCAACGGAATATCGGAACCGATACTCGGTGATAGTTCATACTCATC
75499211 AAGTAATTCACATAATTACATATTATTTAACAATAACCACAAAACATAACATTTCATGATAATAT
261 AAGTAATTCACATAATTACATATTATTTAACAATAACCACAAAACATAACATTTCATGATAATAT
75499276 TAAGCA
326 TAAGCA
75499282 T
1 T
75499283 CATATCATAT
Statistics
Matches: 317, Mismatches: 15, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
331 317 1.00
ACGTcount: A:0.32, C:0.24, G:0.15, T:0.29
Consensus pattern (331 bp):
TGAACTCGGACTCAACTCAACGAGCTCAGGCGTTCACATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACAACTCACGAACTCGGACTCAACTCAACGAGTTCAGAACTCAAA
TATCCTAGTGACATGTCACTTGTATTCTAATCTATTCCTAAGGTTCAAACGGGATTTTTCCTCGA
CCTCACATCTTTGCCGTCGTCAACGGAATATCGGAACCGATACTCGGTGATAGTTCATACTCATC
AAGTAATTCACATAATTACATATTATTTAACAATAACCACAAAACATAACATTTCATGATAATAT
TAAGCA
Found at i:75499550 original size:16 final size:16
Alignment explanation
Indices: 75499499--75499552 Score: 58
Period size: 16 Copynumber: 3.5 Consensus size: 16
75499489 TTTAATATGA
*
75499499 ACTTTGGCATAATTAC
1 ACTTTTGCATAATTAC
* * *
75499515 ACTTTTGCCT--CTAA
1 ACTTTTGCATAATTAC
75499529 ACTTTTGCATAATTAC
1 ACTTTTGCATAATTAC
75499545 ACTTTTGC
1 ACTTTTGC
75499553 CCCTAGGCTC
Statistics
Matches: 29, Mismatches: 7, Indels: 4
0.73 0.17 0.10
Matches are distributed among these distances:
14 11 0.38
16 18 0.62
ACGTcount: A:0.26, C:0.22, G:0.09, T:0.43
Consensus pattern (16 bp):
ACTTTTGCATAATTAC
Found at i:75499882 original size:15 final size:15
Alignment explanation
Indices: 75499862--75499893 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
75499852 AAAAACATAA
75499862 AAATCACTTACTATG
1 AAATCACTTACTATG
75499877 AAATCACTTACTATG
1 AAATCACTTACTATG
75499892 AA
1 AA
75499894 GCTTGAAAGT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.44, C:0.19, G:0.06, T:0.31
Consensus pattern (15 bp):
AAATCACTTACTATG
Found at i:75502287 original size:14 final size:14
Alignment explanation
Indices: 75502268--75502304 Score: 53
Period size: 11 Copynumber: 2.9 Consensus size: 14
75502258 TGGTGCTACA
75502268 AGGTGGTGGTGAGG
1 AGGTGGTGGTGAGG
75502282 A---GGTGGTGAGG
1 AGGTGGTGGTGAGG
75502293 AGGTGGTGGTGA
1 AGGTGGTGGTGA
75502305 AGTGGAAGAA
Statistics
Matches: 20, Mismatches: 0, Indels: 6
0.77 0.00 0.23
Matches are distributed among these distances:
11 11 0.55
14 9 0.45
ACGTcount: A:0.16, C:0.00, G:0.62, T:0.22
Consensus pattern (14 bp):
AGGTGGTGGTGAGG
Found at i:75502288 original size:11 final size:11
Alignment explanation
Indices: 75502272--75502300 Score: 58
Period size: 11 Copynumber: 2.6 Consensus size: 11
75502262 GCTACAAGGT
75502272 GGTGGTGAGGA
1 GGTGGTGAGGA
75502283 GGTGGTGAGGA
1 GGTGGTGAGGA
75502294 GGTGGTG
1 GGTGGTG
75502301 GTGAAGTGGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.14, C:0.00, G:0.66, T:0.21
Consensus pattern (11 bp):
GGTGGTGAGGA
Found at i:75505845 original size:20 final size:20
Alignment explanation
Indices: 75505820--75505886 Score: 107
Period size: 20 Copynumber: 3.4 Consensus size: 20
75505810 ATTTTGATAT
75505820 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
75505840 ACATGATATGTACGATATGC
1 ACATGATATGTATGATATGC
* *
75505860 ATATGATATGTATGATATAC
1 ACATGATATGTATGATATGC
75505880 ACATGAT
1 ACATGAT
75505887 GTATTCATAA
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 42 1.00
ACGTcount: A:0.37, C:0.10, G:0.18, T:0.34
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:75505856 original size:9 final size:9
Alignment explanation
Indices: 75505822--75505877 Score: 58
Period size: 9 Copynumber: 5.8 Consensus size: 9
75505812 TTTGATATAC
75505822 ATGATATGT
1 ATGATATGT
*
75505831 ATGATATGCAC
1 ATGATATG--T
75505842 ATGATATGT
1 ATGATATGT
*
75505851 ACGATATGCAT
1 ATGATATG--T
75505862 ATGATATGT
1 ATGATATGT
75505871 ATGATAT
1 ATGATAT
75505878 ACACATGATG
Statistics
Matches: 39, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
9 23 0.59
11 16 0.41
ACGTcount: A:0.36, C:0.07, G:0.20, T:0.38
Consensus pattern (9 bp):
ATGATATGT
Found at i:75507314 original size:46 final size:45
Alignment explanation
Indices: 75507244--75507419 Score: 176
Period size: 46 Copynumber: 3.8 Consensus size: 45
75507234 TATTTGGGCA
75507244 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACATATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACATATGGATGCGAA-G
* * * * *
75507290 TCTGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAG-GCA-
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACATATG-GA-T-GCGAAG
* * * *
75507337 TCCGAGCTCGTTGAGTTGAGTCAGAGTTCACTTATGGATACGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACATATGGATGCGAA-G
* * *
75507383 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACATATGG
75507420 GCGGGTTACA
Statistics
Matches: 107, Mismatches: 16, Indels: 14
0.78 0.12 0.10
Matches are distributed among these distances:
44 3 0.03
45 1 0.01
46 67 0.63
47 31 0.29
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.23, C:0.20, G:0.29, T:0.28
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACATATGGATGCGAAG
Found at i:75507399 original size:93 final size:93
Alignment explanation
Indices: 75507240--75507411 Score: 272
Period size: 93 Copynumber: 1.8 Consensus size: 93
75507230 AGGATATTTG
* * * * *
75507240 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACATATGGATGCGAATGTCTGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCAGAGTTCACATATGGATACGAACGCCCGAACTCGTTGAG
75507305 TTGAGTCCGAGTTCGAGAGATGTAACTA
66 TTGAGTCCGAGTTCGAGAGATGTAACTA
* * *
75507333 GGCATCCGAGCTCGTTGAGTTGAGTCAGAGTTCACTTATGGATACGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCAGAGTTCACATATGGATACGAACGCCCGAACTCGTTGAG
75507398 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
75507412 ACTTATGGGC
Statistics
Matches: 71, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.23, C:0.20, G:0.30, T:0.27
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCAGAGTTCACATATGGATACGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGAGAGATGTAACTA
Found at i:75509018 original size:31 final size:33
Alignment explanation
Indices: 75508983--75509065 Score: 80
Period size: 38 Copynumber: 2.4 Consensus size: 33
75508973 GTTTACAGTG
75508983 AAGGCTTCGGCCCAGT-A-ATATGAAATATGAA
1 AAGGCTTCGGCCCAGTGAGATATGAAATATGAA
** *
75509014 AAGGCTTTAGCCCGGTGTTGTGAGATATGAAATATGAA
1 AAGGCTTCGGCCC-----AGTGAGATATGAAATATGAA
75509052 AAGGCTTCGGCCCA
1 AAGGCTTCGGCCCA
75509066 ATATATGTTG
Statistics
Matches: 39, Mismatches: 6, Indels: 12
0.68 0.11 0.21
Matches are distributed among these distances:
31 11 0.28
36 2 0.05
37 1 0.03
38 25 0.64
ACGTcount: A:0.33, C:0.17, G:0.27, T:0.24
Consensus pattern (33 bp):
AAGGCTTCGGCCCAGTGAGATATGAAATATGAA
Found at i:75516718 original size:20 final size:20
Alignment explanation
Indices: 75516693--75516779 Score: 165
Period size: 20 Copynumber: 4.3 Consensus size: 20
75516683 ATTTTGATAT
75516693 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
75516713 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
75516733 ACATGATATGTACGATATGC
1 ACATGATATGTATGATATGC
75516753 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
75516773 ACATGAT
1 ACATGAT
75516780 GTATTCATAA
Statistics
Matches: 65, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 65 1.00
ACGTcount: A:0.36, C:0.11, G:0.20, T:0.33
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:75516720 original size:11 final size:11
Alignment explanation
Indices: 75516704--75516779 Score: 83
Period size: 11 Copynumber: 7.5 Consensus size: 11
75516694 CATGATATGT
75516704 ATGATATGCAC
1 ATGATATGCAC
*
75516715 ATGATATG--T
1 ATGATATGCAC
75516724 ATGATATGCAC
1 ATGATATGCAC
*
75516735 ATGATATGTAC
1 ATGATATGCAC
75516746 --GATATGCAC
1 ATGATATGCAC
*
75516755 ATGATATG--T
1 ATGATATGCAC
75516764 ATGATATGCAC
1 ATGATATGCAC
75516775 ATGAT
1 ATGAT
75516780 GTATTCATAA
Statistics
Matches: 53, Mismatches: 6, Indels: 12
0.75 0.08 0.17
Matches are distributed among these distances:
9 24 0.45
11 29 0.55
ACGTcount: A:0.36, C:0.12, G:0.20, T:0.33
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:75516852 original size:25 final size:25
Alignment explanation
Indices: 75516800--75516875 Score: 102
Period size: 26 Copynumber: 3.0 Consensus size: 25
75516790 ATGCATTGGG
*
75516800 TTTTGCCCCAGTTTACCGAAAAGGGC
1 TTTTGCCCCAGTTTATC-AAAAGGGC
75516826 TTTTGCCCCAGTTTATCAAAAGGGC
1 TTTTGCCCCAGTTTATCAAAAGGGC
*
75516851 -TTTGCCCCAG-TTATTAAAAGAGGC
1 TTTTGCCCCAGTTTATCAAAAG-GGC
75516875 T
1 T
75516876 AGGCCTCCAG
Statistics
Matches: 46, Mismatches: 2, Indels: 5
0.87 0.04 0.09
Matches are distributed among these distances:
23 9 0.20
24 13 0.28
25 8 0.17
26 16 0.35
ACGTcount: A:0.25, C:0.24, G:0.21, T:0.30
Consensus pattern (25 bp):
TTTTGCCCCAGTTTATCAAAAGGGC
Found at i:75517120 original size:31 final size:31
Alignment explanation
Indices: 75517085--75517174 Score: 101
Period size: 38 Copynumber: 2.7 Consensus size: 31
75517075 GTTTACAGTG
*
75517085 AAGGCTTCGGCCCAGTAATATGAAATATGAA
1 AAGGCTTCGGCCCAGTAATATGAAATATAAA
75517116 AAGGCTTCGGCCCAGTGTTATGAGATATGAAATATAAA
1 AAGGCTTCGGCCCA--G---T-A-ATATGAAATATAAA
75517154 AAGGCTTCGGCCCAGT-ATATG
1 AAGGCTTCGGCCCAGTAATATG
75517175 CTGAGATGGA
Statistics
Matches: 51, Mismatches: 1, Indels: 15
0.76 0.01 0.22
Matches are distributed among these distances:
30 5 0.10
31 14 0.27
33 2 0.04
36 2 0.04
37 1 0.02
38 27 0.53
ACGTcount: A:0.34, C:0.17, G:0.24, T:0.24
Consensus pattern (31 bp):
AAGGCTTCGGCCCAGTAATATGAAATATAAA
Found at i:75517478 original size:38 final size:40
Alignment explanation
Indices: 75517421--75517502 Score: 141
Period size: 38 Copynumber: 2.1 Consensus size: 40
75517411 TAATAAGGCC
*
75517421 ATTTAAACTTTATCTTTTTTTTTCTGGGTTTATTCTATTT
1 ATTTAAACTTTATCTTTTTTTTTCTGGATTTATTCTATTT
75517461 ATTT-AACTTTATC-TTTTTTTTCTGGATTTATTCTATTT
1 ATTTAAACTTTATCTTTTTTTTTCTGGATTTATTCTATTT
75517499 ATTT
1 ATTT
75517503 TTCTTTTTTT
Statistics
Matches: 41, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
38 28 0.68
39 9 0.22
40 4 0.10
ACGTcount: A:0.18, C:0.10, G:0.06, T:0.66
Consensus pattern (40 bp):
ATTTAAACTTTATCTTTTTTTTTCTGGATTTATTCTATTT
Found at i:75520951 original size:12 final size:12
Alignment explanation
Indices: 75520934--75520958 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
75520924 ATTTATATTT
75520934 TTAATTTTTAAA
1 TTAATTTTTAAA
75520946 TTAATTTTTAAA
1 TTAATTTTTAAA
75520958 T
1 T
75520959 ACACAATTAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (12 bp):
TTAATTTTTAAA
Found at i:75523512 original size:3 final size:3
Alignment explanation
Indices: 75523504--75523538 Score: 52
Period size: 3 Copynumber: 11.7 Consensus size: 3
75523494 ATCTATCAAG
* *
75523504 TGA TGA TGA TGA TGA TGA TGA TGG TGA TGG TGA TG
1 TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TG
75523539 GTCTTGAGGA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.26, C:0.00, G:0.40, T:0.34
Consensus pattern (3 bp):
TGA
Found at i:75523539 original size:12 final size:12
Alignment explanation
Indices: 75523503--75523540 Score: 58
Period size: 12 Copynumber: 3.2 Consensus size: 12
75523493 GATCTATCAA
75523503 GTGATGATGATG
1 GTGATGATGATG
*
75523515 ATGATGATGATG
1 GTGATGATGATG
*
75523527 GTGATGGTGATG
1 GTGATGATGATG
75523539 GT
1 GT
75523541 CTTGAGGAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.24, C:0.00, G:0.42, T:0.34
Consensus pattern (12 bp):
GTGATGATGATG
Done.