Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr04 98600468
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: 98600468
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 273 characters in sequence are not A, C, G, or T
File 125 of 325
Found at i:37626377 original size:8 final size:8
Alignment explanation
Indices: 37626325--37626393 Score: 63
Period size: 8 Copynumber: 8.9 Consensus size: 8
37626315 TTCACAGTCC
37626325 TCATATAA
1 TCATATAA
*
37626333 TCACATAA
1 TCATATAA
*
37626341 -CATTTAA
1 TCATATAA
*
37626348 GCATAT-A
1 TCATATAA
*
37626355 TCATAGTAC
1 TCATA-TAA
37626364 TCATATAA
1 TCATATAA
37626372 TCATATAA
1 TCATATAA
*
37626380 -CATTTAA
1 TCATATAA
37626387 TCATATA
1 TCATATA
37626394 CTATAGTACT
Statistics
Matches: 48, Mismatches: 9, Indels: 8
0.74 0.14 0.12
Matches are distributed among these distances:
7 16 0.33
8 27 0.56
9 5 0.10
ACGTcount: A:0.45, C:0.16, G:0.03, T:0.36
Consensus pattern (8 bp):
TCATATAA
Found at i:37626515 original size:22 final size:22
Alignment explanation
Indices: 37626443--37626515 Score: 59
Period size: 22 Copynumber: 3.5 Consensus size: 22
37626433 CCACAATACT
*
37626443 CATATAGTCACATAACGTTTAAG
1 CATATA-TCACATAACATTTAAG
* *
37626466 AATATATCACA-AA-A-CT---
1 CATATATCACATAACATTTAAG
37626482 CATATAATCACATAACATTTAAG
1 CATAT-ATCACATAACATTTAAG
37626505 CATATATCACA
1 CATATATCACA
37626516 ATACTCATAT
Statistics
Matches: 38, Mismatches: 5, Indels: 15
0.66 0.09 0.26
Matches are distributed among these distances:
16 4 0.11
17 6 0.16
18 2 0.05
19 2 0.05
20 1 0.03
21 2 0.05
22 11 0.29
23 10 0.26
ACGTcount: A:0.47, C:0.19, G:0.05, T:0.29
Consensus pattern (22 bp):
CATATATCACATAACATTTAAG
Found at i:37636730 original size:47 final size:46
Alignment explanation
Indices: 37636661--37637017 Score: 270
Period size: 47 Copynumber: 7.6 Consensus size: 46
37636651 GGTATAATGC
*
37636661 CGATGCCATGTCCCAGACATGGTCTTACACCGGCTCTCACGCTAAGT
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCACG-TAAGT
* *
37636708 CGATGCCATGTCCCAGACATGGTCTTACACTGACTCTAACGTTAAGT
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCACG-TAAGT
* * * * *
37636755 CGATGCAATATCCCAGACATGGTCTTACACTGACTCTCATGTATCCGT
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCACGTA--AGT
* * * *
37636803 GACGATGCCATGTCCCAGACATGGTCTT-CTACTGACACATCATGT-AGC
1 --CGATGCCATGTCCCAGACATGGTCTTAC-ACTGGCTC-TCACGTAAGT
* * *
37636851 CGATG-CATGTCCCAGACAT-GTCTTACACTGGCTTACATCTCG-AGGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGC-T-C-TCACGTAAGT
* * * ** *
37636897 CGATG-CATGTCCTAAACAT-GTCTTACACTAGCTCTTGTC-TCAATGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTC-TCACGT-AA-GT
*
37636943 CGATGCCATGTCCCAGACTTGGTCTTACACTGGCTCTCA--TAATGT
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCACGTAA-GT
37636988 GGCTGATG-CATGTCCCAGACAT-GTCTTACA
1 --C-GATGCCATGTCCCAGACATGGTCTTACA
37637018 GTAGCACACA
Statistics
Matches: 259, Mismatches: 33, Indels: 37
0.79 0.10 0.11
Matches are distributed among these distances:
44 14 0.05
45 21 0.08
46 59 0.23
47 106 0.41
48 21 0.08
49 1 0.00
50 31 0.12
51 6 0.02
ACGTcount: A:0.23, C:0.29, G:0.20, T:0.28
Consensus pattern (46 bp):
CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCACGTAAGT
Found at i:37642208 original size:21 final size:21
Alignment explanation
Indices: 37642184--37642226 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
37642174 TACACTTAGA
37642184 GTGTC-AGTCCTATGAATAGTG
1 GTGTCGAGTCC-ATGAATAGTG
*
37642205 GTGTCGAGTTCATGAATAGTG
1 GTGTCGAGTCCATGAATAGTG
37642226 G
1 G
37642227 AGTTAAATCA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 16 0.80
22 4 0.20
ACGTcount: A:0.23, C:0.12, G:0.33, T:0.33
Consensus pattern (21 bp):
GTGTCGAGTCCATGAATAGTG
Found at i:37645861 original size:18 final size:18
Alignment explanation
Indices: 37645838--37645889 Score: 52
Period size: 18 Copynumber: 2.9 Consensus size: 18
37645828 TAATTATTTA
37645838 AAATATCATTATTTTTTC
1 AAATATCATTATTTTTTC
* * *
37645856 AAATATC-TAAAATATTTC
1 AAATATCAT-TATTTTTTC
*
37645874 AAATATCATTGTTTTT
1 AAATATCATTATTTTT
37645890 CATCTATATA
Statistics
Matches: 25, Mismatches: 7, Indels: 4
0.69 0.19 0.11
Matches are distributed among these distances:
17 1 0.04
18 23 0.92
19 1 0.04
ACGTcount: A:0.38, C:0.10, G:0.02, T:0.50
Consensus pattern (18 bp):
AAATATCATTATTTTTTC
Found at i:37647086 original size:28 final size:28
Alignment explanation
Indices: 37647055--37647178 Score: 101
Period size: 28 Copynumber: 4.5 Consensus size: 28
37647045 TTCAAATATC
* *
37647055 GCCACAGAGGCTGATCTTTTCATACTTT
1 GCCACAAAGGCTTATCTTTTCATACTTT
* * *
37647083 GCCACAAAGGTTTTTCTTTTCTTACTTT
1 GCCACAAAGGCTTATCTTTTCATACTTT
* *
37647111 GCCACAAAGG-TTATTATTTTCATACTTC
1 GCCACAAAGGCTTA-TCTTTTCATACTTT
* * *
37647139 ACCACAGAGGCTT-TCATTTCATGA-TTT
1 GCCACAAAGGCTTATCTTTTCAT-ACTTT
* *
37647166 TCCACAAAAGCTT
1 GCCACAAAGGCTT
37647179 CATTTCCTAA
Statistics
Matches: 76, Mismatches: 17, Indels: 7
0.76 0.17 0.07
Matches are distributed among these distances:
27 21 0.28
28 53 0.70
29 2 0.03
ACGTcount: A:0.25, C:0.23, G:0.13, T:0.39
Consensus pattern (28 bp):
GCCACAAAGGCTTATCTTTTCATACTTT
Found at i:37649343 original size:39 final size:39
Alignment explanation
Indices: 37649259--37649411 Score: 216
Period size: 39 Copynumber: 3.9 Consensus size: 39
37649249 TATGGTAACC
** * *
37649259 CGCACAAAGGCCTTCGGGACTTAACCCGGATATCACAATT
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCACAACT
* *
37649299 TGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAACT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
* *
37649338 CGCACAATTGCCTTCGGGCTTAGCCCGGGTATCACAATT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
37649377 TGCACAATTGCCTTCGGGCTTAGCCCGGATATCAC
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCAC
37649412 TCGAACATTC
Statistics
Matches: 101, Mismatches: 12, Indels: 1
0.89 0.11 0.01
Matches are distributed among these distances:
39 86 0.85
40 15 0.15
ACGTcount: A:0.24, C:0.30, G:0.22, T:0.25
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
Found at i:37649385 original size:78 final size:79
Alignment explanation
Indices: 37649228--37649410 Score: 269
Period size: 78 Copynumber: 2.3 Consensus size: 79
37649218 TCGTTCAAAC
* * **
37649228 GCCTTCGGGACATAGCCCGGTTATGGTAACCCGCACAAAGGCCTTCGGGACTTAACCCGGATATC
1 GCCTTCGGG-CTTAGCCCGGATATCATAACCCGCACAAAGGCCTTCGGGACTTAACCCGGATATC
37649293 ACAATTTGCACAATT
65 ACAATTTGCACAATT
* ** * *
37649308 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATTGCCTTCGGG-CTTAGCCCGGGTATCA
1 GCCTTCGGGCTTAGCCCGGATATCATAACCCGCACAAAGGCCTTCGGGACTTAACCCGGATATCA
37649372 CAATTTGCACAATT
66 CAATTTGCACAATT
37649386 GCCTTCGGGCTTAGCCCGGATATCA
1 GCCTTCGGGCTTAGCCCGGATATCA
37649411 CTCGAACATT
Statistics
Matches: 94, Mismatches: 9, Indels: 2
0.90 0.09 0.02
Matches are distributed among these distances:
78 53 0.56
79 32 0.34
80 9 0.10
ACGTcount: A:0.23, C:0.30, G:0.23, T:0.25
Consensus pattern (79 bp):
GCCTTCGGGCTTAGCCCGGATATCATAACCCGCACAAAGGCCTTCGGGACTTAACCCGGATATCA
CAATTTGCACAATT
Found at i:37662579 original size:20 final size:20
Alignment explanation
Indices: 37662554--37662598 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
37662544 TAGGGAAAAA
* *
37662554 ATGAAAAGTTGTAAAATTTG
1 ATGAAAAATTCTAAAATTTG
*
37662574 ATGAAAAATTCTAAAATTTT
1 ATGAAAAATTCTAAAATTTG
37662594 ATGAA
1 ATGAA
37662599 TACATGTGCT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.49, C:0.02, G:0.13, T:0.36
Consensus pattern (20 bp):
ATGAAAAATTCTAAAATTTG
Found at i:37668496 original size:20 final size:21
Alignment explanation
Indices: 37668458--37668496 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
37668448 ATCATTAAAG
**
37668458 TTTTAAAAATATTTTTTAATA
1 TTTTAAAAATATTAATTAATA
37668479 TTTTAAAAA-ATTAATTAA
1 TTTTAAAAATATTAATTAA
37668497 ATGCTAACAT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 7 0.44
21 9 0.56
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (21 bp):
TTTTAAAAATATTAATTAATA
Found at i:37673327 original size:20 final size:20
Alignment explanation
Indices: 37673294--37673332 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
37673284 GATAATTTTT
37673294 TGATGATTATATTTGAATGA
1 TGATGATTATATTTGAATGA
*
37673314 TGATAGATTA-ATTTTAATG
1 TGAT-GATTATATTTGAATG
37673333 TTATAAATTG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.36, C:0.00, G:0.18, T:0.46
Consensus pattern (20 bp):
TGATGATTATATTTGAATGA
Found at i:37676133 original size:54 final size:54
Alignment explanation
Indices: 37676069--37676265 Score: 211
Period size: 55 Copynumber: 3.6 Consensus size: 54
37676059 TTGGTAAGAT
* * * *
37676069 AAGGATATCATGTGAGACCATGCCAAGGCATCGCATTGATAAGTTCTATAAGGC
1 AAGGAAATCATGTAAGACCATGCCAAGGCATGGCATTGATGAGTTCTATAAGGC
* *
37676123 AAGGAAATCATGTAAGACCATGTCAAGACATGGCATTGATGAGTTACTATAAGGC
1 AAGGAAATCATGTAAGACCATGCCAAGGCATGGCATTGATGAGTT-CTATAAGGC
* * * *
37676178 AA--AAGTCCCATGTAAGACCATGCCAAGGCATGGAATTGGTGAGGTC-ATAAGGC
1 AAGGAAAT--CATGTAAGACCATGCCAAGGCATGGCATTGATGAGTTCTATAAGGC
* * * * *
37676231 AAGGATACCACGTAAGACCATGTCAAGACATGGCA
1 AAGGAAATCATGTAAGACCATGCCAAGGCATGGCA
37676266 ATGGTAAGTT
Statistics
Matches: 119, Mismatches: 19, Indels: 11
0.80 0.13 0.07
Matches are distributed among these distances:
53 35 0.29
54 40 0.34
55 44 0.37
ACGTcount: A:0.36, C:0.18, G:0.25, T:0.21
Consensus pattern (54 bp):
AAGGAAATCATGTAAGACCATGCCAAGGCATGGCATTGATGAGTTCTATAAGGC
Found at i:37676398 original size:16 final size:17
Alignment explanation
Indices: 37676379--37676411 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
37676369 CTTATTTAAT
37676379 ATTGAGATTAT-AAGTA
1 ATTGAGATTATCAAGTA
37676395 ATTGAGATTATCAAGTA
1 ATTGAGATTATCAAGTA
37676412 TTAAGTAAGT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 11 0.69
17 5 0.31
ACGTcount: A:0.42, C:0.03, G:0.18, T:0.36
Consensus pattern (17 bp):
ATTGAGATTATCAAGTA
Found at i:37678836 original size:24 final size:24
Alignment explanation
Indices: 37678809--37678862 Score: 99
Period size: 24 Copynumber: 2.2 Consensus size: 24
37678799 TGCTTAGTAA
37678809 GCCAGTATAACAGGAAATAAACTT
1 GCCAGTATAACAGGAAATAAACTT
37678833 GCCAGTATAACAGGAAATAAACTT
1 GCCAGTATAACAGGAAATAAACTT
*
37678857 ACCAGT
1 GCCAGT
37678863 TTTATTTATT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.44, C:0.19, G:0.17, T:0.20
Consensus pattern (24 bp):
GCCAGTATAACAGGAAATAAACTT
Found at i:37681608 original size:42 final size:42
Alignment explanation
Indices: 37681549--37681714 Score: 224
Period size: 42 Copynumber: 3.9 Consensus size: 42
37681539 TTAGGGTTAC
* *
37681549 TGAGACTACGTGTAAGACCATATCTGAGATATGGCATCAATA
1 TGAGACTACATGTAAGACCATATCTGAGATATGGCATCGATA
* * *
37681591 TGAGACTACATCTAAGACCATATCTGAGATATGACATTGATA
1 TGAGACTACATGTAAGACCATATCTGAGATATGGCATCGATA
* * * *
37681633 TGAGACTTCATGTAAGACCATAGCTAAGCTATTGGCATCGATA
1 TGAGACTACATGTAAGACCATATCTGAGATA-TGGCATCGATA
* *
37681676 CGAGATTACATGTAAGACCATATCTGAGATATGGCATCG
1 TGAGACTACATGTAAGACCATATCTGAGATATGGCATCG
37681715 GTAAGGTATA
Statistics
Matches: 105, Mismatches: 18, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
42 71 0.68
43 34 0.32
ACGTcount: A:0.35, C:0.17, G:0.20, T:0.27
Consensus pattern (42 bp):
TGAGACTACATGTAAGACCATATCTGAGATATGGCATCGATA
Found at i:37681694 original size:85 final size:84
Alignment explanation
Indices: 37681549--37681708 Score: 230
Period size: 85 Copynumber: 1.9 Consensus size: 84
37681539 TTAGGGTTAC
* * * *
37681549 TGAGACTACGTGTAAGACCATATCTGAGATATGGCATCAATATGAGACTACATCTAAGACCATAT
1 TGAGACTACATGTAAGACCATAGCTAAGATATGGCATCAATACGAGACTACATCTAAGACCATAT
37681614 CTGAGATATGACATTGATA
66 CTGAGATATGACATTGATA
* * * * *
37681633 TGAGACTTCATGTAAGACCATAGCTAAGCTATTGGCATCGATACGAGATTACATGTAAGACCATA
1 TGAGACTACATGTAAGACCATAGCTAAGATA-TGGCATCAATACGAGACTACATCTAAGACCATA
37681698 TCTGAGATATG
65 TCTGAGATATG
37681709 GCATCGGTAA
Statistics
Matches: 66, Mismatches: 9, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
84 26 0.39
85 40 0.61
ACGTcount: A:0.36, C:0.17, G:0.20, T:0.28
Consensus pattern (84 bp):
TGAGACTACATGTAAGACCATAGCTAAGATATGGCATCAATACGAGACTACATCTAAGACCATAT
CTGAGATATGACATTGATA
Found at i:37690700 original size:51 final size:51
Alignment explanation
Indices: 37690623--37690872 Score: 412
Period size: 51 Copynumber: 4.9 Consensus size: 51
37690613 CGGATACATG
* *
37690623 GTGGCCTTCACATAGTACCACCCTTGTAG-CCAAAGCTATTTTATTCACAAA
1 GTGGCCTTCACATAGTACCACACTTGT-GTCCAAAGCTATTATATTCACAAA
37690674 GTGGCCTTCACATAGTACCACACTTGTGTCCAAAGCTATTATATTCACAAA
1 GTGGCCTTCACATAGTACCACACTTGTGTCCAAAGCTATTATATTCACAAA
*
37690725 GTGGCCTTCACATAGTACCACACTTGTGTCCAAAACTATTATATTCACAAA
1 GTGGCCTTCACATAGTACCACACTTGTGTCCAAAGCTATTATATTCACAAA
* *
37690776 GTGGCATTCACATAGTACCACACTTGTGTCCAAATCTATTATATTCACAAA
1 GTGGCCTTCACATAGTACCACACTTGTGTCCAAAGCTATTATATTCACAAA
* * *
37690827 GTGACCTTCACATAATACCACACTTGTGTCCAAAGCTATTTTATTC
1 GTGGCCTTCACATAGTACCACACTTGTGTCCAAAGCTATTATATTC
37690873 CTAAGGTTCA
Statistics
Matches: 188, Mismatches: 10, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
50 1 0.01
51 187 0.99
ACGTcount: A:0.31, C:0.26, G:0.12, T:0.31
Consensus pattern (51 bp):
GTGGCCTTCACATAGTACCACACTTGTGTCCAAAGCTATTATATTCACAAA
Found at i:37690940 original size:24 final size:24
Alignment explanation
Indices: 37690908--37690986 Score: 104
Period size: 24 Copynumber: 3.1 Consensus size: 24
37690898 ACTTAGCACA
*
37690908 ATGCCATGGACTTATTTCGCTTAG
1 ATGCCATGGACTTATTTCACTTAG
37690932 ATGCCATGGACTTATTTCACTTAG
1 ATGCCATGGACTTATTTCACTTAG
*
37690956 CCCATTGCCATGGACTTATTTCACATAG
1 ---A-TGCCATGGACTTATTTCACTTAG
37690984 ATG
1 ATG
37690987 TCAATGTTCA
Statistics
Matches: 49, Mismatches: 2, Indels: 8
0.83 0.03 0.14
Matches are distributed among these distances:
24 25 0.51
25 1 0.02
27 1 0.02
28 22 0.45
ACGTcount: A:0.24, C:0.23, G:0.18, T:0.35
Consensus pattern (24 bp):
ATGCCATGGACTTATTTCACTTAG
Found at i:37690973 original size:28 final size:26
Alignment explanation
Indices: 37690896--37690979 Score: 109
Period size: 28 Copynumber: 3.2 Consensus size: 26
37690886 GGGAAATTTC
37690896 TCACTTAGCACAATGCCATGGACTTATT
1 TCACTTAGC-C-ATGCCATGGACTTATT
*
37690924 TCGCTTAG--ATGCCATGGACTTATT
1 TCACTTAGCCATGCCATGGACTTATT
37690948 TCACTTAGCCCATTGCCATGGACTTATT
1 TCACTTAG-CCA-TGCCATGGACTTATT
37690976 TCAC
1 TCAC
37690980 ATAGATGTCA
Statistics
Matches: 50, Mismatches: 2, Indels: 8
0.83 0.03 0.13
Matches are distributed among these distances:
24 23 0.46
27 1 0.02
28 26 0.52
ACGTcount: A:0.24, C:0.26, G:0.15, T:0.35
Consensus pattern (26 bp):
TCACTTAGCCATGCCATGGACTTATT
Found at i:37695071 original size:3 final size:3
Alignment explanation
Indices: 37695063--37695089 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
37695053 GGCTTAACAT
37695063 TCA TCA TCA TCA TCA TCA TCA TCA TCA
1 TCA TCA TCA TCA TCA TCA TCA TCA TCA
37695090 CAATTATACA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.33, G:0.00, T:0.33
Consensus pattern (3 bp):
TCA
Found at i:37697573 original size:51 final size:51
Alignment explanation
Indices: 37697496--37697745 Score: 358
Period size: 51 Copynumber: 4.9 Consensus size: 51
37697486 CGGATACACG
* * *
37697496 ATGGCCTTCATATAGTACCACCCTTGTAG-CCAAAGCTATTTTATTCACAAA
1 ATGGCCTTCACATAGTACCACACTTGT-GTCCAAAGCTATTATATTCACAAA
* * *
37697547 ATGGCCTTCACATAGTGCTACACTTGTGTCCAAAGCTATTATATTTACAAA
1 ATGGCCTTCACATAGTACCACACTTGTGTCCAAAGCTATTATATTCACAAA
* *
37697598 GTGGCCTTCACATAGTACCACACTTGTATCCAAAGCTATTATATTCACAAA
1 ATGGCCTTCACATAGTACCACACTTGTGTCCAAAGCTATTATATTCACAAA
* *
37697649 GTGGCCTTCACATAGTACCACACTTGTGTCCAAAGCTATTATCTTCACAAA
1 ATGGCCTTCACATAGTACCACACTTGTGTCCAAAGCTATTATATTCACAAA
* * * *
37697700 TTGACCTTCACATAGTACCACACCTGTGTCCAAAGCTATTTTATTC
1 ATGGCCTTCACATAGTACCACACTTGTGTCCAAAGCTATTATATTC
37697746 CTAAGGTTCA
Statistics
Matches: 180, Mismatches: 18, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
50 1 0.01
51 179 0.99
ACGTcount: A:0.30, C:0.26, G:0.12, T:0.32
Consensus pattern (51 bp):
ATGGCCTTCACATAGTACCACACTTGTGTCCAAAGCTATTATATTCACAAA
Found at i:37697817 original size:49 final size:49
Alignment explanation
Indices: 37697760--37697854 Score: 163
Period size: 49 Copynumber: 1.9 Consensus size: 49
37697750 GGTTCAACCG
* * *
37697760 GGAAATTTCTCACTTAGCACAATGGCATGGACTTATTTCACTTAGACCT
1 GGAAATTTCTCACTTAGCACAATGCCAAGGACTTAATTCACTTAGACCT
37697809 GGAAATTTCTCACTTAGCACAATGCCAAGGACTTAATTCACTTAGA
1 GGAAATTTCTCACTTAGCACAATGCCAAGGACTTAATTCACTTAGA
37697855 TGCCATAGAC
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
49 43 1.00
ACGTcount: A:0.32, C:0.22, G:0.16, T:0.31
Consensus pattern (49 bp):
GGAAATTTCTCACTTAGCACAATGCCAAGGACTTAATTCACTTAGACCT
Found at i:37697865 original size:24 final size:24
Alignment explanation
Indices: 37697830--37697901 Score: 101
Period size: 24 Copynumber: 3.0 Consensus size: 24
37697820 ACTTAGCACA
*
37697830 ATGCCA-AGGACTTAATTCACTTAG
1 ATGCCATA-GACTTATTTCACTTAG
37697854 ATGCCATAGACTTATTTCACTTAG
1 ATGCCATAGACTTATTTCACTTAG
* *
37697878 ATGCCATGGTCTTATTTCACTTAG
1 ATGCCATAGACTTATTTCACTTAG
37697902 CACAATGTCA
Statistics
Matches: 44, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
24 43 0.98
25 1 0.02
ACGTcount: A:0.28, C:0.21, G:0.15, T:0.36
Consensus pattern (24 bp):
ATGCCATAGACTTATTTCACTTAG
Found at i:37699043 original size:51 final size:51
Alignment explanation
Indices: 37698954--37699163 Score: 323
Period size: 51 Copynumber: 4.1 Consensus size: 51
37698944 ACAGATACAC
* * * * *
37698954 AGTGACCTTCACGTAGTACCACCCTTGTAG-GCAAAGCTATTTTATTCACAA
1 AGTGGCCTTCACATAGTACCACACTTGT-GTCCAAAGCTATTATATTCACAA
*
37699005 AGTGGCCTTTACATAGTACCACACTTGTGTCCAAAGCTATTATATTCACAA
1 AGTGGCCTTCACATAGTACCACACTTGTGTCCAAAGCTATTATATTCACAA
* *
37699056 AGTGGCCTTCACATAGTACCACACTTGTGTTCAAAGATATTATATTCACAA
1 AGTGGCCTTCACATAGTACCACACTTGTGTCCAAAGCTATTATATTCACAA
*
37699107 AGTGGCCTTCACATAGTACCACACTTGTGTCCAAATCTATTATATTCACAA
1 AGTGGCCTTCACATAGTACCACACTTGTGTCCAAAGCTATTATATTCACAA
37699158 AGTGGC
1 AGTGGC
37699164 ATTCTATAAA
Statistics
Matches: 146, Mismatches: 12, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
50 1 0.01
51 145 0.99
ACGTcount: A:0.31, C:0.24, G:0.15, T:0.30
Consensus pattern (51 bp):
AGTGGCCTTCACATAGTACCACACTTGTGTCCAAAGCTATTATATTCACAA
Found at i:37700927 original size:2 final size:2
Alignment explanation
Indices: 37700920--37700957 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
37700910 TGTGGTAGGA
37700920 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
37700958 GAAGAATGAG
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:37702458 original size:42 final size:43
Alignment explanation
Indices: 37702392--37702489 Score: 128
Period size: 42 Copynumber: 2.3 Consensus size: 43
37702382 AGACGTGTTT
* * *
37702392 TTACATGTAATTCAATATCGATGCCTCTGTCCCAAACAGGGTC
1 TTACATGTAAATCAATATCGATGCCTATGTCCCAAACAGGATC
*
37702435 TTACATG-AAATCAGATA-CGATGCCTATGTCCCAAACATGATC
1 TTACATGTAAATCA-ATATCGATGCCTATGTCCCAAACAGGATC
*
37702477 TTATATGTAAATC
1 TTACATGTAAATC
37702490 TCAATCGAGA
Statistics
Matches: 48, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
42 33 0.69
43 15 0.31
ACGTcount: A:0.33, C:0.22, G:0.14, T:0.31
Consensus pattern (43 bp):
TTACATGTAAATCAATATCGATGCCTATGTCCCAAACAGGATC
Found at i:37704375 original size:40 final size:39
Alignment explanation
Indices: 37704331--37704512 Score: 213
Period size: 39 Copynumber: 4.6 Consensus size: 39
37704321 GTTCAAAACA
* ** * *
37704331 CCTTCGGGACATAGCCCGGTTATGGTAACCCGCACAAATG
1 CCTTCGGG-CTTAGCCCGGTTATCATAACTCGCACAATTG
* *
37704371 CCTTCGGGACTTAACCCGGATT-TCACAACTCGCACAATTG
1 CCTTCGGG-CTTAGCCCGG-TTATCATAACTCGCACAATTG
* * *
37704411 CCTTCGGGCTTAGCCCGGGTATCATAGCTTGCACAATTG
1 CCTTCGGGCTTAGCCCGGTTATCATAACTCGCACAATTG
* *
37704450 CCTTCGGGCTTAGCCCGGATATCATAGCTCGCACAATTG
1 CCTTCGGGCTTAGCCCGGTTATCATAACTCGCACAATTG
*
37704489 CCTTCGGGCTTAGCCCGGATATCA
1 CCTTCGGGCTTAGCCCGGTTATCA
37704513 CTCGAACATT
Statistics
Matches: 126, Mismatches: 14, Indels: 5
0.87 0.10 0.03
Matches are distributed among these distances:
38 1 0.01
39 85 0.67
40 38 0.30
41 2 0.02
ACGTcount: A:0.21, C:0.31, G:0.23, T:0.25
Consensus pattern (39 bp):
CCTTCGGGCTTAGCCCGGTTATCATAACTCGCACAATTG
Found at i:37704445 original size:39 final size:39
Alignment explanation
Indices: 37704361--37704512 Score: 232
Period size: 39 Copynumber: 3.9 Consensus size: 39
37704351 TATGGTAACC
* * * * *
37704361 CGCACAAATGCCTTCGGGACTTAACCCGGATTTCACAACT
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCATAGCT
*
37704401 CGCACAATTGCCTTCGGGCTTAGCCCGGGTATCATAGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
*
37704440 TGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
37704479 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCA
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCA
37704513 CTCGAACATT
Statistics
Matches: 103, Mismatches: 9, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
39 86 0.83
40 17 0.17
ACGTcount: A:0.22, C:0.31, G:0.22, T:0.25
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
Found at i:37718514 original size:28 final size:27
Alignment explanation
Indices: 37718451--37718520 Score: 122
Period size: 27 Copynumber: 2.6 Consensus size: 27
37718441 ATAGTGAGTC
37718451 CGCACACTTAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTATATAATCAACT
*
37718478 CGCACACTTAGTGCTATATGATCAAACT
1 CGCACACTTAGTGCTATATAATC-AACT
37718506 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
37718521 GTACAAATTT
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 22 0.54
28 19 0.46
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.29
Consensus pattern (27 bp):
CGCACACTTAGTGCTATATAATCAACT
Found at i:37726342 original size:28 final size:27
Alignment explanation
Indices: 37726279--37726348 Score: 122
Period size: 27 Copynumber: 2.6 Consensus size: 27
37726269 ATAGTGAGTC
37726279 CGCACACTTAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTATATAATCAACT
*
37726306 CGCACACTTAGTGCTATATGATCAAACT
1 CGCACACTTAGTGCTATATAATC-AACT
37726334 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
37726349 GTACAAATTT
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 22 0.54
28 19 0.46
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.29
Consensus pattern (27 bp):
CGCACACTTAGTGCTATATAATCAACT
Found at i:37729213 original size:30 final size:30
Alignment explanation
Indices: 37729172--37729232 Score: 95
Period size: 30 Copynumber: 2.0 Consensus size: 30
37729162 ATTCACAACT
* *
37729172 TTGGTAAAATGACCATTTTGCCCCTAGGTC
1 TTGGCAAAATGACCATTTTACCCCTAGGTC
*
37729202 TTGGCAAAATGACCATTTTACCCCTATGTC
1 TTGGCAAAATGACCATTTTACCCCTAGGTC
37729232 T
1 T
37729233 AAAAATCAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.25, C:0.25, G:0.16, T:0.34
Consensus pattern (30 bp):
TTGGCAAAATGACCATTTTACCCCTAGGTC
Found at i:37729563 original size:12 final size:12
Alignment explanation
Indices: 37729546--37729571 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
37729536 CTAAAAATCT
37729546 GAAAATCATCAA
1 GAAAATCATCAA
37729558 GAAAATCATCAA
1 GAAAATCATCAA
37729570 GA
1 GA
37729572 TCACTTACAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.58, C:0.15, G:0.12, T:0.15
Consensus pattern (12 bp):
GAAAATCATCAA
Found at i:37733311 original size:45 final size:45
Alignment explanation
Indices: 37733252--37733339 Score: 140
Period size: 45 Copynumber: 2.0 Consensus size: 45
37733242 GAACTATGTG
* *
37733252 ATCTGAACTAATTGAGTTGTGGTTTGAGTTCATGATATATGTGGC
1 ATCTGAACTAATTGAGTTATGGTCTGAGTTCATGATATATGTGGC
* *
37733297 ATCTGAACTCATTGAGTTATGGTCTGAGTTCATGATGTATGTG
1 ATCTGAACTAATTGAGTTATGGTCTGAGTTCATGATATATGTG
37733340 ACACATATTT
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
45 39 1.00
ACGTcount: A:0.24, C:0.10, G:0.26, T:0.40
Consensus pattern (45 bp):
ATCTGAACTAATTGAGTTATGGTCTGAGTTCATGATATATGTGGC
Found at i:37735209 original size:52 final size:52
Alignment explanation
Indices: 37735153--37735271 Score: 220
Period size: 52 Copynumber: 2.3 Consensus size: 52
37735143 GGGAAATTTC
37735153 TCACTTAGCACAATGCCATGGACTTATTTCACTTAGATGCCATGGACTTATT
1 TCACTTAGCACAATGCCATGGACTTATTTCACTTAGATGCCATGGACTTATT
* *
37735205 TCACTTAGCACATTGCCATGGACTTATTTCACTTAGATGCCATGGTCTTATT
1 TCACTTAGCACAATGCCATGGACTTATTTCACTTAGATGCCATGGACTTATT
37735257 TCACTTAGCACAATG
1 TCACTTAGCACAATG
37735272 TCATATACTA
Statistics
Matches: 64, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 64 1.00
ACGTcount: A:0.26, C:0.24, G:0.15, T:0.35
Consensus pattern (52 bp):
TCACTTAGCACAATGCCATGGACTTATTTCACTTAGATGCCATGGACTTATT
Found at i:37735230 original size:28 final size:27
Alignment explanation
Indices: 37735153--37735268 Score: 163
Period size: 24 Copynumber: 4.4 Consensus size: 27
37735143 GGGAAATTTC
37735153 TCACTTAGCACAATGCCATGGACTTATT
1 TCACTTAGCAC-ATGCCATGGACTTATT
37735181 TCACTTAG---ATGCCATGGACTTATT
1 TCACTTAGCACATGCCATGGACTTATT
37735205 TCACTTAGCACATTGCCATGGACTTATT
1 TCACTTAGCACA-TGCCATGGACTTATT
*
37735233 TCACTTAG---ATGCCATGGTCTTATT
1 TCACTTAGCACATGCCATGGACTTATT
37735257 TCACTTAGCACA
1 TCACTTAGCACA
37735269 ATGTCATATA
Statistics
Matches: 80, Mismatches: 1, Indels: 15
0.83 0.01 0.16
Matches are distributed among these distances:
24 46 0.57
25 1 0.01
27 2 0.03
28 31 0.39
ACGTcount: A:0.26, C:0.24, G:0.15, T:0.35
Consensus pattern (27 bp):
TCACTTAGCACATGCCATGGACTTATT
Found at i:37745743 original size:40 final size:38
Alignment explanation
Indices: 37745686--37745773 Score: 131
Period size: 40 Copynumber: 2.3 Consensus size: 38
37745676 TACGGTACCT
*
37745686 TATGGTGTGTAGGGTTGGATGGGTTGATTATATCCCCA
1 TATGGTGTGTAGGGTTGGATGGGTCGATTATATCCCCA
* *
37745724 TACTTGGTGTGTAGGGTTGGGTGGGTCGATTCTATCCCCA
1 TA--TGGTGTGTAGGGTTGGATGGGTCGATTATATCCCCA
37745764 TATGGTGTGT
1 TATGGTGTGT
37745774 TAGGCTGGGC
Statistics
Matches: 45, Mismatches: 3, Indels: 4
0.87 0.06 0.08
Matches are distributed among these distances:
38 10 0.22
40 35 0.78
ACGTcount: A:0.15, C:0.12, G:0.35, T:0.38
Consensus pattern (38 bp):
TATGGTGTGTAGGGTTGGATGGGTCGATTATATCCCCA
Found at i:37747877 original size:42 final size:43
Alignment explanation
Indices: 37747829--37747951 Score: 194
Period size: 43 Copynumber: 2.9 Consensus size: 43
37747819 AAGCGCCATA
*
37747829 AAAGAACGTGACCTTTAGCGACGCTTTTCACACAAACTC-GCT
1 AAAGAACGTGACCTTTAGCGGCGCTTTTCACACAAACTCTGCT
* *
37747871 AAAGAACGTGACCTTTAGGGGCGCTTTTCACACAAACGCTGCT
1 AAAGAACGTGACCTTTAGCGGCGCTTTTCACACAAACTCTGCT
* *
37747914 AAAGAACGTGACCTTTAGTGGTGCTTTTCACACAAACT
1 AAAGAACGTGACCTTTAGCGGCGCTTTTCACACAAACT
37747952 GTGACAACCC
Statistics
Matches: 74, Mismatches: 6, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
42 36 0.49
43 38 0.51
ACGTcount: A:0.30, C:0.25, G:0.20, T:0.25
Consensus pattern (43 bp):
AAAGAACGTGACCTTTAGCGGCGCTTTTCACACAAACTCTGCT
Found at i:37755698 original size:41 final size:41
Alignment explanation
Indices: 37755653--37755770 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
37755643 TGAAAGATAA
37755653 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
37755694 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
37755724 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
37755765 ATGTAG
1 ATGTAG
37755771 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:37755709 original size:71 final size:71
Alignment explanation
Indices: 37755621--37755784 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
37755611 GAGATGTATC
37755621 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
37755686 AGGACA
66 AGGACA
37755692 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
37755757 AGGACA
66 AGGACA
37755763 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
37755785 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:37757160 original size:43 final size:43
Alignment explanation
Indices: 37757095--37757278 Score: 217
Period size: 43 Copynumber: 4.3 Consensus size: 43
37757085 GGTGTTACAC
* *
37757095 AAACGCCACTAAAGAACGTGACCTGTAGCGGCGCTTTTCTCAA
1 AAACGCCACTAAAGAACATGACCTTTAGCGGCGCTTTTCTCAA
* * * *
37757138 AAACGCCGCTAAAGAACTTGACCTTTAGCGGCGCTTTTATAAA
1 AAACGCCACTAAAGAACATGACCTTTAGCGGCGCTTTTCTCAA
* * * *
37757181 AAACGCCATTAAAGAACATGACCTTTAGCGACACTTTTCAT-AC
1 AAACGCCACTAAAGAACATGACCTTTAGCGGCGCTTTTC-TCAA
* * * * *
37757224 TAATGACGCTAAAGAACATGACCTTTAGCGGCGATTTTCTCAA
1 AAACGCCACTAAAGAACATGACCTTTAGCGGCGCTTTTCTCAA
37757267 AAACGCCACTAA
1 AAACGCCACTAA
37757279 TTTTAACATA
Statistics
Matches: 114, Mismatches: 25, Indels: 4
0.80 0.17 0.03
Matches are distributed among these distances:
42 1 0.01
43 112 0.98
44 1 0.01
ACGTcount: A:0.34, C:0.25, G:0.17, T:0.24
Consensus pattern (43 bp):
AAACGCCACTAAAGAACATGACCTTTAGCGGCGCTTTTCTCAA
Found at i:37758010 original size:13 final size:14
Alignment explanation
Indices: 37757977--37758012 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
37757967 AATGAATATT
37757977 CCATTATAATTAAA
1 CCATTATAATTAAA
*
37757991 CCATTATGATTAAA
1 CCATTATAATTAAA
37758005 -CATTATAA
1 CCATTATAA
37758013 ATATTTAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
13 7 0.35
14 13 0.65
ACGTcount: A:0.47, C:0.14, G:0.03, T:0.36
Consensus pattern (14 bp):
CCATTATAATTAAA
Found at i:37762208 original size:40 final size:40
Alignment explanation
Indices: 37762149--37762356 Score: 227
Period size: 40 Copynumber: 5.2 Consensus size: 40
37762139 CAATTGAATG
* * *
37762149 ATATCCGGGCTAAGTCCCGAAGACATTTGTGCTAGTAATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * * * *
37762189 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * **
37762229 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * * **
37762269 AAATCCGGGCTAATACCCGAACGCATTTGTGCAAGTCGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * **
37762309 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
37762349 ATATCCGG
1 ATATCCGG
37762357 TTGTAATCCG
Statistics
Matches: 143, Mismatches: 25, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 143 1.00
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
Found at i:37762287 original size:80 final size:80
Alignment explanation
Indices: 37762151--37762356 Score: 252
Period size: 80 Copynumber: 2.6 Consensus size: 80
37762141 ATTGAATGAT
* * * * * * *
37762151 ATCCGGGCTAAGTCCCGAAGACATTTGTGCTAGTAATTATATCCGGGTTAAGACCCGAAGGCAAT
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAACGCAAT
*
37762216 TGTGCTAGT-GACTAC
66 TGTGCAAGTCG-CTAC
* * * *
37762231 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTTAAATCCGGGCTAATACCCGAACGCATT
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAACGCAAT
* *
37762296 TGTGCAAGTCGTTAT
66 TGTGCAAGTCGCTAC
* *
37762311 ATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTTATATCCGG
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGG
37762357 TTGTAATCCG
Statistics
Matches: 108, Mismatches: 17, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
80 107 0.99
81 1 0.01
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.25
Consensus pattern (80 bp):
ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAACGCAAT
TGTGCAAGTCGCTAC
Found at i:37765881 original size:9 final size:9
Alignment explanation
Indices: 37765863--37765904 Score: 66
Period size: 9 Copynumber: 4.7 Consensus size: 9
37765853 TATTTATGTA
37765863 TTATGTAAG
1 TTATGTAAG
*
37765872 TTAAGTAAG
1 TTATGTAAG
*
37765881 TTTTGTAAG
1 TTATGTAAG
37765890 TTATGTAAG
1 TTATGTAAG
37765899 TTATGT
1 TTATGT
37765905 TATGATATAC
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
9 29 1.00
ACGTcount: A:0.31, C:0.00, G:0.21, T:0.48
Consensus pattern (9 bp):
TTATGTAAG
Found at i:37765920 original size:27 final size:26
Alignment explanation
Indices: 37765890--37766015 Score: 111
Period size: 27 Copynumber: 4.9 Consensus size: 26
37765880 GTTTTGTAAG
37765890 TTATGTAAGTTATGTTATGATATACAT
1 TTATGTAAGTTATGTTATGATATA-AT
* * *
37765917 TTATATAAGGTATGTTATGATATGA-
1 TTATGTAAGTTATGTTATGATATAAT
* * *
37765942 -TATAT-A-TTCATG-TATTATATAAG
1 TTATGTAAGTT-ATGTTATGATATAAT
*
37765965 TTATGTAAGTTATGATATGATATATAT
1 TTATGTAAGTTATGTTATGATATA-AT
37765992 TTATGTAAGTTAT-TATATGATATA
1 TTATGTAAGTTATGT-TATGATATA
37766016 TAATTAACAT
Statistics
Matches: 81, Mismatches: 10, Indels: 16
0.76 0.09 0.15
Matches are distributed among these distances:
22 9 0.11
23 4 0.05
24 9 0.11
25 4 0.05
26 11 0.14
27 44 0.54
ACGTcount: A:0.37, C:0.02, G:0.14, T:0.48
Consensus pattern (26 bp):
TTATGTAAGTTATGTTATGATATAAT
Found at i:37765961 original size:39 final size:40
Alignment explanation
Indices: 37765917--37765998 Score: 112
Period size: 43 Copynumber: 2.0 Consensus size: 40
37765907 TGATATACAT
*
37765917 TTATATAAG-GTATGTTATGATATGATATATATTCATGTA
1 TTATATAAGTGTAAGTTATGATATGATATATATTCATGTA
*
37765956 TTATATAAGTTATGTAAGTTATGATATGATATATATTTATGTA
1 TTATATAAG---TGTAAGTTATGATATGATATATATTCATGTA
37765999 AGTTATTATA
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
39 9 0.24
43 28 0.76
ACGTcount: A:0.37, C:0.01, G:0.15, T:0.48
Consensus pattern (40 bp):
TTATATAAGTGTAAGTTATGATATGATATATATTCATGTA
Found at i:37768616 original size:25 final size:24
Alignment explanation
Indices: 37768584--37768639 Score: 96
Period size: 25 Copynumber: 2.3 Consensus size: 24
37768574 ATTCAAAATG
37768584 CACAAAACGCACATAAACCCAAAC
1 CACAAAACGCACATAAACCCAAAC
37768608 ACACAAAACGCACATAAACCCAAAC
1 -CACAAAACGCACATAAACCCAAAC
37768633 C-CAAAAC
1 CACAAAAC
37768640 ATACAAAATA
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
23 6 0.19
24 1 0.03
25 24 0.77
ACGTcount: A:0.55, C:0.38, G:0.04, T:0.04
Consensus pattern (24 bp):
CACAAAACGCACATAAACCCAAAC
Found at i:37768755 original size:19 final size:19
Alignment explanation
Indices: 37768712--37768757 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
37768702 CGACAGCAGT
* *
37768712 GGAGAGAAGAGGGTGTGAC
1 GGAGAGAAGAGGATGCGAC
**
37768731 AAAGAGAAGAGGATGCGAC
1 GGAGAGAAGAGGATGCGAC
37768750 GGAGAGAA
1 GGAGAGAA
37768758 AACAGATTTC
Statistics
Matches: 21, Mismatches: 6, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.41, C:0.07, G:0.46, T:0.07
Consensus pattern (19 bp):
GGAGAGAAGAGGATGCGAC
Found at i:37768937 original size:22 final size:22
Alignment explanation
Indices: 37768911--37768956 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
37768901 TGATTTTGGG
37768911 GGAAAA-TGGGAGAAAAGAAATT
1 GGAAAATTGGG-GAAAAGAAATT
* *
37768933 GGAAAATTGGGGGAATGAAATT
1 GGAAAATTGGGGAAAAGAAATT
37768955 GG
1 GG
37768957 GGTAATCTGA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 17 0.81
23 4 0.19
ACGTcount: A:0.46, C:0.00, G:0.37, T:0.17
Consensus pattern (22 bp):
GGAAAATTGGGGAAAAGAAATT
Found at i:37769557 original size:21 final size:22
Alignment explanation
Indices: 37769533--37769580 Score: 71
Period size: 21 Copynumber: 2.2 Consensus size: 22
37769523 GATTTTACGA
* *
37769533 TTTATGGTTTATAGTTTA-GGG
1 TTTAGGGTCTATAGTTTATGGG
37769554 TTTAGGGTCTATAGTTTATGGG
1 TTTAGGGTCTATAGTTTATGGG
37769576 TTTAG
1 TTTAG
37769581 ATGTTAGTGT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
21 16 0.67
22 8 0.33
ACGTcount: A:0.19, C:0.02, G:0.29, T:0.50
Consensus pattern (22 bp):
TTTAGGGTCTATAGTTTATGGG
Found at i:37769662 original size:21 final size:21
Alignment explanation
Indices: 37769636--37769793 Score: 92
Period size: 21 Copynumber: 7.3 Consensus size: 21
37769626 TAGAGTTTTA
37769636 AGGGTTTATGATTTGAGATTT
1 AGGGTTTATGATTTGAGATTT
* * * *
37769657 AGGGTTTAGGGTGTAGGGGA--T
1 AGGGTTTATGAT-T-TGAGATTT
*
37769678 AGGGTTTATTG-TTTAGAGTTTT
1 AGGGTTTA-TGATTT-GAGATTT
*
37769700 AAGGTTTTATGATTTGAGATTT
1 -AGGGTTTATGATTTGAGATTT
* ** **
37769722 AGGGTTT-GGAGTTCAAGGGTT
1 AGGGTTTATGA-TTTGAGATTT
*
37769743 AGGGTTTA-GAGTTTAGAGTTTT
1 AGGGTTTATGA-TTT-GAGATTT
37769765 AAGGGTTTATGATTTGAGATTT
1 -AGGGTTTATGATTTGAGATTT
37769787 AGGGTTT
1 AGGGTTT
37769794 GGAGTTTAAA
Statistics
Matches: 103, Mismatches: 21, Indels: 26
0.69 0.14 0.17
Matches are distributed among these distances:
20 5 0.05
21 51 0.50
22 21 0.20
23 24 0.23
24 2 0.02
ACGTcount: A:0.22, C:0.01, G:0.34, T:0.44
Consensus pattern (21 bp):
AGGGTTTATGATTTGAGATTT
Found at i:37769796 original size:65 final size:64
Alignment explanation
Indices: 37769548--37769809 Score: 300
Period size: 65 Copynumber: 4.0 Consensus size: 64
37769538 GGTTTATAGT
* * * * * * *
37769548 TTAGGGTTTAGGGTCTATAG-TTTATGGGTTTA-GATGTT-AG-TGTTAAGGTTTGGGGTGTAGG
1 TTAGGGTTTAGTGTTTAGAGTTTTAAGGGTTTATGAT-TTGAGAT-TTAGGGTTTGGAGT-TAAG
37769609 GG
63 GG
* *
37769611 TTAAGGTTTAGTGTTTAGAGTTTTAAGGGTTTATGATTTGAGATTTAGGGTTTAGG-GTGTAGGG
1 TTAGGGTTTAGTGTTTAGAGTTTTAAGGGTTTATGATTTGAGATTTAGGGTTT-GGAGT-TAAGG
37769675 G
64 G
* * *
37769676 ATAGGGTTTATTGTTTAGAGTTTTAAGGTTTTATGATTTGAGATTTAGGGTTTGGAGTTCAAGGG
1 TTAGGGTTTAGTGTTTAGAGTTTTAAGGGTTTATGATTTGAGATTTAGGGTTTGGAGTT-AAGGG
*
37769741 TTAGGGTTTAGAGTTTAGAGTTTTAAGGGTTTATGATTTGAGATTTAGGGTTTGGAGTTTAAAGG
1 TTAGGGTTTAGTGTTTAGAGTTTTAAGGGTTTATGATTTGAGATTTAGGGTTTGGAG-TT-AAGG
37769806 G
64 G
37769807 TTA
1 TTA
37769810 TTGATTTAAG
Statistics
Matches: 175, Mismatches: 16, Indels: 13
0.86 0.08 0.06
Matches are distributed among these distances:
63 16 0.09
64 16 0.09
65 130 0.74
66 13 0.07
ACGTcount: A:0.22, C:0.01, G:0.34, T:0.43
Consensus pattern (64 bp):
TTAGGGTTTAGTGTTTAGAGTTTTAAGGGTTTATGATTTGAGATTTAGGGTTTGGAGTTAAGGG
Found at i:37770844 original size:49 final size:49
Alignment explanation
Indices: 37770772--37770871 Score: 182
Period size: 49 Copynumber: 2.0 Consensus size: 49
37770762 AGAAAAAGAA
* *
37770772 AAAGAAAACAGAGATAGGGGATATGAGGAAATCATTCAAGGATTCTCTC
1 AAAGAAAAAAAAGATAGGGGATATGAGGAAATCATTCAAGGATTCTCTC
37770821 AAAGAAAAAAAAGATAGGGGATATGAGGAAATCATTCAAGGATTCTCTC
1 AAAGAAAAAAAAGATAGGGGATATGAGGAAATCATTCAAGGATTCTCTC
37770870 AA
1 AA
37770872 GGCTCTTGAA
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
49 49 1.00
ACGTcount: A:0.46, C:0.11, G:0.23, T:0.20
Consensus pattern (49 bp):
AAAGAAAAAAAAGATAGGGGATATGAGGAAATCATTCAAGGATTCTCTC
Found at i:37774498 original size:44 final size:46
Alignment explanation
Indices: 37774447--37774539 Score: 129
Period size: 44 Copynumber: 2.1 Consensus size: 46
37774437 TACAATATCT
*
37774447 ATTCCATTCAACCAAACACA-AGAATT-C-TATTACAGCTCTATTCA
1 ATTCCATTCAACCAAACA-ATAGAATTACTTATTAAAGCTCTATTCA
* *
37774491 ATTCCATTCAACCAAACAATTGAATTACTTATTAAATCTCTATTCA
1 ATTCCATTCAACCAAACAATAGAATTACTTATTAAAGCTCTATTCA
37774537 ATT
1 ATT
37774540 ACAGCCCTAT
Statistics
Matches: 43, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
43 1 0.02
44 23 0.53
45 1 0.02
46 18 0.42
ACGTcount: A:0.39, C:0.24, G:0.03, T:0.34
Consensus pattern (46 bp):
ATTCCATTCAACCAAACAATAGAATTACTTATTAAAGCTCTATTCA
Found at i:37774636 original size:7 final size:7
Alignment explanation
Indices: 37774626--37774717 Score: 69
Period size: 7 Copynumber: 12.7 Consensus size: 7
37774616 ACCCTAAATA
37774626 ATAAACC
1 ATAAACC
37774633 ATAAACCC
1 ATAAA-CC
*
37774641 CT-AACC
1 ATAAACC
*
37774647 CTAAACCC
1 ATAAA-CC
*
37774655 TTAAACC
1 ATAAACC
37774662 ATAAACC
1 ATAAACC
37774669 ATAAACC
1 ATAAACC
37774676 ATAAACTC
1 ATAAAC-C
*
37774684 ATAATCC
1 ATAAACC
*
37774691 CTAAACCC
1 ATAAA-CC
* *
37774699 GTAATCC
1 ATAAACC
37774706 ATAAACC
1 ATAAACC
*
37774713 TTAAA
1 ATAAA
37774718 GTAGTTAGAT
Statistics
Matches: 69, Mismatches: 11, Indels: 10
0.77 0.12 0.11
Matches are distributed among these distances:
6 4 0.06
7 45 0.65
8 20 0.29
ACGTcount: A:0.47, C:0.33, G:0.01, T:0.20
Consensus pattern (7 bp):
ATAAACC
Found at i:37774666 original size:15 final size:15
Alignment explanation
Indices: 37774626--37774712 Score: 88
Period size: 15 Copynumber: 5.9 Consensus size: 15
37774616 ACCCTAAATA
37774626 ATAAACCATAAACCC
1 ATAAACCATAAACCC
* *
37774641 CT-AACCCTAAACCC
1 ATAAACCATAAACCC
*
37774655 TTAAACCATAAA-CC
1 ATAAACCATAAACCC
*
37774669 ATAAACCATAAACTC
1 ATAAACCATAAACCC
* *
37774684 ATAATCCCTAAACCC
1 ATAAACCATAAACCC
* *
37774699 GTAATCCATAAACC
1 ATAAACCATAAACC
37774713 TTAAAGTAGT
Statistics
Matches: 59, Mismatches: 11, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
14 25 0.42
15 34 0.58
ACGTcount: A:0.46, C:0.34, G:0.01, T:0.18
Consensus pattern (15 bp):
ATAAACCATAAACCC
Found at i:37774668 original size:22 final size:22
Alignment explanation
Indices: 37774627--37774717 Score: 80
Period size: 22 Copynumber: 4.2 Consensus size: 22
37774617 CCCTAAATAA
*
37774627 TAAA-CCATAAACCCCT-AACCC
1 TAAACCCATAAA-CCATAAACCC
* *
37774648 TAAACCCTTAAACCATAAACCA
1 TAAACCCATAAACCATAAACCC
*
37774670 TAAA-CCATAAACTCATAATCCC
1 TAAACCCATAAAC-CATAAACCC
* * *
37774692 TAAACCCGTAATCCATAAACCT
1 TAAACCCATAAACCATAAACCC
37774714 TAAA
1 TAAA
37774718 GTAGTTAGAT
Statistics
Matches: 56, Mismatches: 10, Indels: 7
0.77 0.14 0.10
Matches are distributed among these distances:
21 14 0.25
22 36 0.64
23 6 0.11
ACGTcount: A:0.46, C:0.33, G:0.01, T:0.20
Consensus pattern (22 bp):
TAAACCCATAAACCATAAACCC
Found at i:37774954 original size:40 final size:41
Alignment explanation
Indices: 37774910--37774996 Score: 106
Period size: 40 Copynumber: 2.2 Consensus size: 41
37774900 AAAAACACCG
* * * *
37774910 CTAATGCTT-GATCTATAGCGGTGTTTTTTAGACAGCGCCA
1 CTAATGCTTCGATCTATAGCGATGTTTTTCAAAAAGCGCCA
* *
37774950 CTAATG-TTCGATCTATTGCGATGTTTTTCAAAAAGCGCCT
1 CTAATGCTTCGATCTATAGCGATGTTTTTCAAAAAGCGCCA
37774990 CTAATGC
1 CTAATGC
37774997 CAATGAAGCT
Statistics
Matches: 39, Mismatches: 6, Indels: 3
0.81 0.12 0.06
Matches are distributed among these distances:
39 2 0.05
40 37 0.95
ACGTcount: A:0.24, C:0.21, G:0.20, T:0.36
Consensus pattern (41 bp):
CTAATGCTTCGATCTATAGCGATGTTTTTCAAAAAGCGCCA
Found at i:37775082 original size:40 final size:40
Alignment explanation
Indices: 37775024--37775104 Score: 110
Period size: 40 Copynumber: 2.0 Consensus size: 40
37775014 CTTAATATTT
* * *
37775024 TAGTGGCGTTTTTTAAAAAGCA-CCGCTAATGTTCAAACTA
1 TAGTGGCGGTTTTAAAAAAG-AGCCGCTAATGCTCAAACTA
*
37775064 TAGTGGCGGTTTTAAAAAAGAGCCGCTAATGCTCAATCTA
1 TAGTGGCGGTTTTAAAAAAGAGCCGCTAATGCTCAAACTA
37775104 T
1 T
37775105 TGCGACGTTT
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
39 1 0.03
40 35 0.97
ACGTcount: A:0.32, C:0.17, G:0.20, T:0.31
Consensus pattern (40 bp):
TAGTGGCGGTTTTAAAAAAGAGCCGCTAATGCTCAAACTA
Found at i:37775122 original size:40 final size:40
Alignment explanation
Indices: 37775030--37775135 Score: 106
Period size: 40 Copynumber: 2.6 Consensus size: 40
37775020 ATTTTAGTGG
* * * *
37775030 CGTTTTTTAAAAAGCA-CCGCTAATGTTCAAACTATAGTGG
1 CGTTTTTAAAAAAG-AGCCGCTAATGCTCAAACTATAGCGA
* * *
37775070 CGGTTTTAAAAAAGAGCCGCTAATGCTCAATCTATTGCGA
1 CGTTTTTAAAAAAGAGCCGCTAATGCTCAAACTATAGCGA
* * *
37775110 CGTTTTTCAAAAAGTGCCACTAATGC
1 CGTTTTTAAAAAAGAGCCGCTAATGC
37775136 CACTGAAGCT
Statistics
Matches: 54, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
39 1 0.02
40 53 0.98
ACGTcount: A:0.32, C:0.20, G:0.18, T:0.30
Consensus pattern (40 bp):
CGTTTTTAAAAAAGAGCCGCTAATGCTCAAACTATAGCGA
Found at i:37777103 original size:29 final size:28
Alignment explanation
Indices: 37777060--37777169 Score: 123
Period size: 29 Copynumber: 3.9 Consensus size: 28
37777050 CATGATTATG
* *
37777060 AATGTGACTGGGCCTAACGGGCCATATA
1 AATGTGATTGGGCCTAATGGGCCATATA
*
37777088 AATGTGATTTGGGCCTAATGAGCCATA-A
1 AATGTGA-TTGGGCCTAATGGGCCATATA
* *
37777116 ACAGGTGATTTGGGCCTAATAGGCCATATA
1 A-ATGTGA-TTGGGCCTAATGGGCCATATA
* *
37777146 AATATGATTGGGCTTAATGGGCCA
1 AATGTGATTGGGCCTAATGGGCCA
37777170 GATATAGGTA
Statistics
Matches: 69, Mismatches: 10, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
28 24 0.35
29 43 0.62
30 2 0.03
ACGTcount: A:0.30, C:0.16, G:0.27, T:0.26
Consensus pattern (28 bp):
AATGTGATTGGGCCTAATGGGCCATATA
Found at i:37781240 original size:16 final size:16
Alignment explanation
Indices: 37781219--37781249 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
37781209 ACGCCGAAAG
*
37781219 GCCGAAAAGTCAAAAT
1 GCCGAAAAGCCAAAAT
37781235 GCCGAAAAGCCAAAA
1 GCCGAAAAGCCAAAA
37781250 GTTTGGCTAC
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:0.52, C:0.23, G:0.19, T:0.06
Consensus pattern (16 bp):
GCCGAAAAGCCAAAAT
Found at i:37781507 original size:29 final size:29
Alignment explanation
Indices: 37781464--37781568 Score: 124
Period size: 29 Copynumber: 3.7 Consensus size: 29
37781454 CATGATTATG
* *
37781464 AATGTGA-CTGGGCCTAACGGGCCATATA
1 AATGTGATTTGGGCCTAATGGGCCATATA
*
37781492 AATGTGATTTGGGCCTAATAGGCCATATA
1 AATGTGATTTGGGCCTAATGGGCCATATA
* * *
37781521 CAGGTGATTTGGGCCTAATGGGCCATATG
1 AATGTGATTTGGGCCTAATGGGCCATATA
* *
37781550 AATATG-TTTGGGCTTAATG
1 AATGTGATTTGGGCCTAATG
37781569 TGATAGATAC
Statistics
Matches: 65, Mismatches: 11, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
28 19 0.29
29 46 0.71
ACGTcount: A:0.27, C:0.15, G:0.29, T:0.30
Consensus pattern (29 bp):
AATGTGATTTGGGCCTAATGGGCCATATA
Found at i:37787850 original size:11 final size:11
Alignment explanation
Indices: 37787833--37787863 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
37787823 ACTACAAACA
37787833 AATTCGACAAT
1 AATTCGACAAT
*
37787844 GATTCGACAAT
1 AATTCGACAAT
37787855 AATTCGACA
1 AATTCGACA
37787864 TTTGAAATTC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.42, C:0.19, G:0.13, T:0.26
Consensus pattern (11 bp):
AATTCGACAAT
Found at i:37792873 original size:42 final size:42
Alignment explanation
Indices: 37792773--37792921 Score: 163
Period size: 43 Copynumber: 3.5 Consensus size: 42
37792763 CAATGCCAGG
* ** *
37792773 GTCCCAGATATGGTCTTACATGTAATCAAATATCGATGCCACT
1 GTCCCAGACATGGTCTTACATAAAATCAAATA-CGATGCCAAT
* * * *
37792816 GTCCCTGACAGGGTCTTACACAAAATCATATACGATGCCAAT
1 GTCCCAGACATGGTCTTACATAAAATCAAATACGATGCCAAT
* * * *
37792858 GTCCCAGACATGGTCTTACATTTAAATCAAAAATGATGCCAAC
1 GTCCCAGACATGGTCTTACA-TAAAATCAAATACGATGCCAAT
*
37792901 GTCCCAGACGTGGTCTTACAT
1 GTCCCAGACATGGTCTTACAT
37792922 GATAACACAC
Statistics
Matches: 88, Mismatches: 17, Indels: 3
0.81 0.16 0.03
Matches are distributed among these distances:
42 28 0.32
43 60 0.68
ACGTcount: A:0.32, C:0.25, G:0.17, T:0.27
Consensus pattern (42 bp):
GTCCCAGACATGGTCTTACATAAAATCAAATACGATGCCAAT
Found at i:37798265 original size:40 final size:39
Alignment explanation
Indices: 37798220--37798427 Score: 218
Period size: 40 Copynumber: 5.2 Consensus size: 39
37798210 CGGATTACAA
* *
37798220 CCGGATATAACCACATGCACGAATACCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* *
37798260 CCGGATATAACGACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * * *
37798300 CCGGATTTAACAACTTGTACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* ** * *
37798340 CCGGATGTAGTCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
** * *
37798380 CCGGATATAATTACTAGCACAAATGTCTTCGGGACTTAGC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
37798420 CCGGATAT
1 CCGGATAT
37798428 CATTCAATTG
Statistics
Matches: 142, Mismatches: 25, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
39 1 0.01
40 141 0.99
ACGTcount: A:0.26, C:0.26, G:0.22, T:0.26
Consensus pattern (39 bp):
CCGGATATAACCACTGCACAAATGCCTTCGGGTCTTAGC
Found at i:37798360 original size:80 final size:80
Alignment explanation
Indices: 37798220--37798427 Score: 247
Period size: 80 Copynumber: 2.6 Consensus size: 80
37798210 CGGATTACAA
* * * *
37798220 CCGGATATAACCACATGCACGAATACCTTCGGGTCTTAGCCCGGATATAACGACTTGCACAAATG
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATATAACGACTAGCACAAATG
*
37798285 CCTTCGGGTATTAGC
66 CCTTCGGGTATTAAC
* * * * *
37798300 CCGGATTTAACAACTTGTACGAATGCCTTCGGGTCTTAGCCCGGATGTAGTC-ACTAGCACAATT
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATATA-ACGACTAGCACAAAT
*
37798364 GCCTTCGGGTCTTAAC
65 GCCTTCGGGTATTAAC
** * * * *
37798380 CCGGATATAATTACTAGCACAAATGTCTTCGGGACTTAGCCCGGATAT
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATAT
37798428 CATTCAATTG
Statistics
Matches: 107, Mismatches: 20, Indels: 2
0.83 0.16 0.02
Matches are distributed among these distances:
80 106 0.99
81 1 0.01
ACGTcount: A:0.26, C:0.26, G:0.22, T:0.26
Consensus pattern (80 bp):
CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATATAACGACTAGCACAAATG
CCTTCGGGTATTAAC
Found at i:37806393 original size:40 final size:39
Alignment explanation
Indices: 37806348--37806555 Score: 236
Period size: 40 Copynumber: 5.2 Consensus size: 39
37806338 CGGATTACAA
*
37806348 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* *
37806388 CCGGATATAACGACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
37806428 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* ** * *
37806468 CCGGATGTAGTCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
** * *
37806508 CCGGATATAATTACTAGCACAAATGTCTTCGGGACTTAGC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
37806548 CCGGATAT
1 CCGGATAT
37806556 CATTCAATTG
Statistics
Matches: 145, Mismatches: 22, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
39 1 0.01
40 144 0.99
ACGTcount: A:0.25, C:0.26, G:0.22, T:0.26
Consensus pattern (39 bp):
CCGGATATAACCACTGCACAAATGCCTTCGGGTCTTAGC
Found at i:37806488 original size:80 final size:80
Alignment explanation
Indices: 37806348--37806555 Score: 265
Period size: 80 Copynumber: 2.6 Consensus size: 80
37806338 CGGATTACAA
* * *
37806348 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGCCCGGATATAACGACTTGCACAAATG
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATATAACGACTAGCACAAATG
*
37806413 CCTTCGGGTATTAGC
66 CCTTCGGGTATTAAC
* * * *
37806428 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGTC-ACTAGCACAATT
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATATA-ACGACTAGCACAAAT
*
37806492 GCCTTCGGGTCTTAAC
65 GCCTTCGGGTATTAAC
** * * * *
37806508 CCGGATATAATTACTAGCACAAATGTCTTCGGGACTTAGCCCGGATAT
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATAT
37806556 CATTCAATTG
Statistics
Matches: 110, Mismatches: 17, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
80 109 0.99
81 1 0.01
ACGTcount: A:0.25, C:0.26, G:0.22, T:0.26
Consensus pattern (80 bp):
CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATATAACGACTAGCACAAATG
CCTTCGGGTATTAAC
Found at i:37809624 original size:42 final size:43
Alignment explanation
Indices: 37809519--37809668 Score: 99
Period size: 43 Copynumber: 3.5 Consensus size: 43
37809509 CAATGCTAGC
* * * * * *
37809519 GTCCTAGACGTGGTCTTCCATGTAATCAAATATCGATGCCATT
1 GTCCCAGACATGGTCTTACACGAAATCAAATATCGATGCCAAT
* * * *
37809562 GTCCCTGACA-GGATCCTACACGAAATCATATA-CGATGTCAAT
1 GTCCCAGACATGG-TCTTACACGAAATCAAATATCGATGCCAAT
* ** *
37809604 GTCCCAGACATGGTCTTACACATAAATCACAA-ATTAATGCCAAC
1 GTCCCAGACATGGTCTTACAC-GAAATCA-AATATCGATGCCAAT
* * *
37809648 GTCCTAGACGTAGTCTTACAC
1 GTCCCAGACATGGTCTTACAC
37809669 AATAACATAC
Statistics
Matches: 81, Mismatches: 21, Indels: 9
0.73 0.19 0.08
Matches are distributed among these distances:
42 26 0.32
43 30 0.37
44 25 0.31
ACGTcount: A:0.31, C:0.26, G:0.16, T:0.27
Consensus pattern (43 bp):
GTCCCAGACATGGTCTTACACGAAATCAAATATCGATGCCAAT
Found at i:37812063 original size:12 final size:13
Alignment explanation
Indices: 37812039--37812064 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
37812029 AGATCATGGT
37812039 AATTCTAAAAAAA
1 AATTCTAAAAAAA
37812052 AATTCTAAAAAAA
1 AATTCTAAAAAAA
37812065 TATTAAATAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.69, C:0.08, G:0.00, T:0.23
Consensus pattern (13 bp):
AATTCTAAAAAAA
Found at i:37812754 original size:116 final size:116
Alignment explanation
Indices: 37812573--37812801 Score: 352
Period size: 116 Copynumber: 2.0 Consensus size: 116
37812563 CACATGCCCA
* * * *
37812573 TGTGCTAGGCCATGTGGTTAATTAATGTTTTTTGAACCTAGGTGCAGGATTTACACTACCAAGAC
1 TGTGCTAGGCCATGTGGTTAATTAATGTTTTTTGAAACTAGGTGCAGGAATCACACGACCAAGAC
**
37812638 ACATG-CTCGTGTTCTAGGCTTTGTAGCACACACGGCTAAGACACACGCTCG
66 ACATGCCT-GTGTTCTAGGCCATGTAGCACACACGGCTAAGACACACGCTCG
* * *
37812689 TGTGCTAGGCCTTGTGGTTAATTAATTTTTTTTGAAATTAGGTGCAGGAATCACACGACCAAGAC
1 TGTGCTAGGCCATGTGGTTAATTAATGTTTTTTGAAACTAGGTGCAGGAATCACACGACCAAGAC
*
37812754 ACATGCCTGTGTTCTAGGCCATGTAGCACACACGGCTGAGACACACGC
66 ACATGCCTGTGTTCTAGGCCATGTAGCACACACGGCTAAGACACACGC
37812802 CCATGTCTCT
Statistics
Matches: 102, Mismatches: 10, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
116 100 0.98
117 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.24, T:0.28
Consensus pattern (116 bp):
TGTGCTAGGCCATGTGGTTAATTAATGTTTTTTGAAACTAGGTGCAGGAATCACACGACCAAGAC
ACATGCCTGTGTTCTAGGCCATGTAGCACACACGGCTAAGACACACGCTCG
Found at i:37827060 original size:27 final size:28
Alignment explanation
Indices: 37827004--37827073 Score: 115
Period size: 27 Copynumber: 2.5 Consensus size: 28
37826994 AAATTTGTAC
37827004 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATAT
* *
37827032 AGCACTAGGTGTGCGAG-TTGATTTTAT
1 AGCACTAAGTGTGCGAGTTTGATTATAT
37827059 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
37827074 GACTCACTAT
Statistics
Matches: 39, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
27 23 0.59
28 16 0.41
ACGTcount: A:0.26, C:0.13, G:0.29, T:0.33
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATTATAT
Found at i:37829626 original size:162 final size:162
Alignment explanation
Indices: 37829357--37829675 Score: 575
Period size: 162 Copynumber: 2.0 Consensus size: 162
37829347 AGTACTTGAA
*
37829357 ATGAATTATCATTGTATAAGATCCTTGTACAAAGCAATATGAACCAGAAGTTAAATAGATAATTC
1 ATGAATTATCATTGTATAAGATCCTTGTACAAAGCAATATGAACCAGAAGTTAAACAGATAATTC
* *
37829422 ATTTTACAAATCAACTGCTAGATTCATTTATTGACCTAAAGAGAATTACAAAATCTCACATATCA
66 ATTTTACAAATCAACTACCAGATTCATTTATTGACCTAAAGAGAATTACAAAATCTCACATATCA
*
37829487 GCTAAAAATGTTCCAATACGAATTGATACTCT
131 ACTAAAAATGTTCCAATACGAATTGATACTCT
*
37829519 ATGAATTATCATTGTATAAGATCCTTGTACAAAGCAATATGAACCAGAAGTTCAACAGATAATTC
1 ATGAATTATCATTGTATAAGATCCTTGTACAAAGCAATATGAACCAGAAGTTAAACAGATAATTC
* *
37829584 ATTTTACAAATCAACTACCAGATTCATTTATTGACTTAAAGAGAATTACAGAATCTCACATATCA
66 ATTTTACAAATCAACTACCAGATTCATTTATTGACCTAAAGAGAATTACAAAATCTCACATATCA
37829649 ACTAAAAATGTTCCAATACGAATTGAT
131 ACTAAAAATGTTCCAATACGAATTGAT
37829676 GTCCCAATAG
Statistics
Matches: 150, Mismatches: 7, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
162 150 1.00
ACGTcount: A:0.42, C:0.16, G:0.11, T:0.31
Consensus pattern (162 bp):
ATGAATTATCATTGTATAAGATCCTTGTACAAAGCAATATGAACCAGAAGTTAAACAGATAATTC
ATTTTACAAATCAACTACCAGATTCATTTATTGACCTAAAGAGAATTACAAAATCTCACATATCA
ACTAAAAATGTTCCAATACGAATTGATACTCT
Found at i:37835691 original size:71 final size:71
Alignment explanation
Indices: 37835607--37835770 Score: 310
Period size: 71 Copynumber: 2.3 Consensus size: 71
37835597 CGATTTGTCT
37835607 CGTAGCTCTCTTGTCTACATGGTGTCCGTCACTTGGAATCACGCATGCGACCCAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCGTCACTTGGAATCACGCATGCGACCCAGCTACATTTAT
37835672 CTTTCA
66 CTTTCA
* *
37835678 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCGTCACTTGGAATCACGCATGCGACCCAGCTACATTTAT
37835743 CTTTCA
66 CTTTCA
37835749 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
37835771 GATACATCTC
Statistics
Matches: 91, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
71 91 1.00
ACGTcount: A:0.19, C:0.29, G:0.18, T:0.34
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCGTCACTTGGAATCACGCATGCGACCCAGCTACATTTAT
CTTTCA
Found at i:37835808 original size:71 final size:70
Alignment explanation
Indices: 37835607--37835804 Score: 249
Period size: 71 Copynumber: 2.8 Consensus size: 70
37835597 CGATTTGTCT
* * * * *
37835607 CGTAGCTCTCTTGTCTACATGGTGTCCGTCACTTGGAATCACGCATGCGACCCAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
37835672 CTTTCA
65 CTTTCA
* * * *
37835678 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
37835743 CTTTCA
65 CTTTCA
* *
37835749 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACACATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACACATGCGACCTAGCTAC
37835805 TACAGGGTGT
Statistics
Matches: 118, Mismatches: 8, Indels: 5
0.90 0.06 0.04
Matches are distributed among these distances:
68 22 0.19
69 1 0.01
70 1 0.01
71 94 0.80
ACGTcount: A:0.21, C:0.29, G:0.18, T:0.33
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACACATGCGACCTAGCTACATTTATC
TTTCA
Found at i:37852689 original size:47 final size:47
Alignment explanation
Indices: 37852600--37852708 Score: 114
Period size: 47 Copynumber: 2.3 Consensus size: 47
37852590 GGTAAGGTGC
* **
37852600 CGATGCCATGTCCCAGACACGGTCTTACACTGGCTCATATCTCATGT
1 CGATGCCATGTCCCAAACACGGTCTTACACTAACTCATATCTCATGT
* * * *
37852647 CGATGCCATGTTCCAAACATGGTGTTACACTAACT-ATCATCTCATAGC
1 CGATGCCATGTCCCAAACACGGTCTTACACTAACTCAT-ATCTCAT-GT
*
37852695 CTATG-CATGTCCCA
1 CGATGCCATGTCCCA
37852709 GACATTCTTA
Statistics
Matches: 51, Mismatches: 9, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
46 2 0.04
47 44 0.86
48 5 0.10
ACGTcount: A:0.25, C:0.30, G:0.17, T:0.28
Consensus pattern (47 bp):
CGATGCCATGTCCCAAACACGGTCTTACACTAACTCATATCTCATGT
Found at i:37852781 original size:46 final size:45
Alignment explanation
Indices: 37852697--37852865 Score: 173
Period size: 46 Copynumber: 3.7 Consensus size: 45
37852687 CTCATAGCCT
* * *
37852697 ATGCATGTCCCAGACAT-TCTTACACTGGCTTACGTCTCGAGGCCA
1 ATGCATGTCCCAGACATGTCTTACACTAGCCT-CGTCTCGAGGCCG
**
37852742 ATGCATGTCCCAGACATGTCTTACACTAGCACTCGTCTCGATCCCG
1 ATGCATGTCCCAGACATGTCTTACACTAGC-CTCGTCTCGAGGCCG
* * * * *
37852788 ATGCCATGTCCCAGACATGGTCTTACA-TGGCTCTCATAAT-GTGGCTG
1 ATG-CATGTCCCAGACAT-GTCTTACACTAGC-CTCGT-CTCGAGGCCG
37852835 ATGCATGTCCCAGACATGTCTTACACTAGCC
1 ATGCATGTCCCAGACATGTCTTACACTAGCC
37852866 ACAATAATTC
Statistics
Matches: 104, Mismatches: 14, Indels: 12
0.80 0.11 0.09
Matches are distributed among these distances:
45 26 0.25
46 41 0.39
47 28 0.27
48 9 0.09
ACGTcount: A:0.22, C:0.31, G:0.20, T:0.27
Consensus pattern (45 bp):
ATGCATGTCCCAGACATGTCTTACACTAGCCTCGTCTCGAGGCCG
Found at i:37857769 original size:20 final size:20
Alignment explanation
Indices: 37857721--37857772 Score: 95
Period size: 20 Copynumber: 2.6 Consensus size: 20
37857711 AAATAGGGTC
*
37857721 ACACGCCCATGTGGCTTGGG
1 ACACGCCCGTGTGGCTTGGG
37857741 ACACGCCCGTGTGGCTTGGG
1 ACACGCCCGTGTGGCTTGGG
37857761 ACACGCCCGTGT
1 ACACGCCCGTGT
37857773 CCCTAACCCG
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.13, C:0.33, G:0.35, T:0.19
Consensus pattern (20 bp):
ACACGCCCGTGTGGCTTGGG
Found at i:37860243 original size:46 final size:45
Alignment explanation
Indices: 37860176--37860351 Score: 182
Period size: 46 Copynumber: 3.8 Consensus size: 45
37860166 TGTAACCCGC
37860176 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCCGG-CGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAG-T-CGGACGTTCGCAT
* *
37860222 CCATAAGTGAACTCGGACTCAACTCAACGAGATCGGATCCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAG-TCGGA---C--GTTCGCAT
* *
37860272 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAG-TCGGACGTTCGCAT
*
37860315 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAG-TCGGA
37860352 TGCCCAAATA
Statistics
Matches: 110, Mismatches: 10, Indels: 20
0.79 0.07 0.14
Matches are distributed among these distances:
42 2 0.02
43 3 0.03
44 2 0.02
45 5 0.05
46 60 0.55
47 28 0.25
48 2 0.02
49 2 0.02
50 3 0.03
51 3 0.03
ACGTcount: A:0.29, C:0.31, G:0.20, T:0.19
Consensus pattern (45 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTCGGACGTTCGCAT
Found at i:37860295 original size:93 final size:93
Alignment explanation
Indices: 37860183--37860352 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
37860173 CGCCCATAAG
*
37860183 CGAACTCGGACTCAACTCAACGAGCTCCGG-CGTTCGCATCCATAAGTGAACTCGGACTCAACTC
1 CGAACTCGGACTCAACTCAACGAG-TCCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTC
37860247 AACGAGATCGGATCCCTAGTTACATCTCA
65 AACGAGATCGGATCCCTAGTTACATCTCA
*
37860276 CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGTCCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCA
*
37860341 ACGAGTTCGGAT
66 ACGAGATCGGAT
37860353 GCCCAAATAT
Statistics
Matches: 73, Mismatches: 3, Indels: 2
0.94 0.04 0.03
Matches are distributed among these distances:
92 4 0.05
93 69 0.95
ACGTcount: A:0.28, C:0.31, G:0.21, T:0.20
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGTCCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGATCGGATCCCTAGTTACATCTCA
Found at i:37860370 original size:46 final size:45
Alignment explanation
Indices: 37860227--37860370 Score: 132
Period size: 46 Copynumber: 3.1 Consensus size: 45
37860217 CGCATCCATA
* *
37860227 AGTGAACTCGGACTCAACTCAACGAGATCGGAT-CCCTAGTTACATCTC
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCC-A---ACATCCC
* * * * *
37860275 A-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTC-GCATCCATA
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAACATCC--C
*
37860320 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAAATATCCC
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCC-AACATCCC
37860366 AGTGA
1 AGTGA
37860371 CATGTCACTT
Statistics
Matches: 77, Mismatches: 13, Indels: 14
0.74 0.12 0.13
Matches are distributed among these distances:
43 4 0.05
45 1 0.01
46 37 0.48
47 28 0.36
48 7 0.09
ACGTcount: A:0.30, C:0.30, G:0.20, T:0.20
Consensus pattern (45 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAACATCCC
Found at i:37860567 original size:24 final size:24
Alignment explanation
Indices: 37860535--37860585 Score: 102
Period size: 24 Copynumber: 2.1 Consensus size: 24
37860525 TTGTCACAAG
37860535 TATGATATTTCATAATAATTATCA
1 TATGATATTTCATAATAATTATCA
37860559 TATGATATTTCATAATAATTATCA
1 TATGATATTTCATAATAATTATCA
37860583 TAT
1 TAT
37860586 CATTTAAATA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.41, C:0.08, G:0.04, T:0.47
Consensus pattern (24 bp):
TATGATATTTCATAATAATTATCA
Found at i:37860583 original size:12 final size:12
Alignment explanation
Indices: 37860544--37860584 Score: 50
Period size: 12 Copynumber: 3.4 Consensus size: 12
37860534 GTATGATATT
37860544 TCATAATAATTA
1 TCATAATAATTA
37860556 TCAT-ATGATATT-
1 TCATAAT-A-ATTA
37860568 TCATAATAATTA
1 TCATAATAATTA
37860580 TCATA
1 TCATA
37860585 TCATTTAAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 8
0.76 0.00 0.24
Matches are distributed among these distances:
11 5 0.20
12 15 0.60
13 5 0.20
ACGTcount: A:0.44, C:0.10, G:0.02, T:0.44
Consensus pattern (12 bp):
TCATAATAATTA
Found at i:37883008 original size:9 final size:9
Alignment explanation
Indices: 37882960--37883017 Score: 50
Period size: 9 Copynumber: 6.7 Consensus size: 9
37882950 ATCCAAAGTT
37882960 TTATGTAAG
1 TTATGTAAG
*
37882969 TTATGATATG
1 TTATG-TAAG
* * *
37882979 ATATAT-AT
1 TTATGTAAG
37882987 TTATGT-A-
1 TTATGTAAG
37882994 TTATGTAAG
1 TTATGTAAG
37883003 TTATGTAAG
1 TTATGTAAG
37883012 TTATGT
1 TTATGT
37883018 TGCAACACCC
Statistics
Matches: 39, Mismatches: 7, Indels: 6
0.75 0.13 0.12
Matches are distributed among these distances:
7 6 0.15
8 6 0.15
9 21 0.54
10 6 0.15
ACGTcount: A:0.33, C:0.00, G:0.17, T:0.50
Consensus pattern (9 bp):
TTATGTAAG
Found at i:37884721 original size:50 final size:48
Alignment explanation
Indices: 37884610--37884738 Score: 154
Period size: 48 Copynumber: 2.6 Consensus size: 48
37884600 TCGAGATGTA
* *
37884610 AGCTAGTGTAAGACCATGTTTGGGACATGGTATCGATACGTATAGATG
1 AGCTAGTGTAAGACCATGTCTGGGACATGGCATCGATACGTATAGATG
* * *
37884658 TG-TCAGTGTAAGACTATGTCTGGGACATGGCATCGGTACGGATATACGA-G
1 AGCT-AGTGTAAGACCATGTCTGGGACATGGCATCGATAC-G-TATA-GATG
*
37884708 AGCTAGTGTAAGACCATGTCTGGTACATGGC
1 AGCTAGTGTAAGACCATGTCTGGGACATGGC
37884739 GTTGGCCTTG
Statistics
Matches: 68, Mismatches: 8, Indels: 8
0.81 0.10 0.10
Matches are distributed among these distances:
47 1 0.01
48 32 0.47
49 1 0.01
50 31 0.46
51 3 0.04
ACGTcount: A:0.27, C:0.16, G:0.30, T:0.27
Consensus pattern (48 bp):
AGCTAGTGTAAGACCATGTCTGGGACATGGCATCGATACGTATAGATG
Found at i:37895930 original size:24 final size:25
Alignment explanation
Indices: 37895882--37895930 Score: 73
Period size: 24 Copynumber: 2.0 Consensus size: 25
37895872 CATAATTAAA
* *
37895882 ACCTAGGGGTATAATGGTCATTTTT
1 ACCTAGGGGCATAATAGTCATTTTT
37895907 ACCTAGGGGCA-AATAGTCATTTTT
1 ACCTAGGGGCATAATAGTCATTTTT
37895931 CATATTATAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 12 0.55
25 10 0.45
ACGTcount: A:0.27, C:0.14, G:0.22, T:0.37
Consensus pattern (25 bp):
ACCTAGGGGCATAATAGTCATTTTT
Found at i:37910056 original size:48 final size:48
Alignment explanation
Indices: 37910000--37910093 Score: 161
Period size: 48 Copynumber: 2.0 Consensus size: 48
37909990 ATTCCATGTG
* * *
37910000 ACATCACCAGATTCGGTCATAATGTTTAGGCCGGGTTTGGGGTGTTTC
1 ACATCACCAGATTCGGTCATAACGTCTAGGCCAGGTTTGGGGTGTTTC
37910048 ACATCACCAGATTCGGTCATAACGTCTAGGCCAGGTTTGGGGTGTT
1 ACATCACCAGATTCGGTCATAACGTCTAGGCCAGGTTTGGGGTGTT
37910094 ACATATGTAA
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
48 43 1.00
ACGTcount: A:0.20, C:0.20, G:0.29, T:0.31
Consensus pattern (48 bp):
ACATCACCAGATTCGGTCATAACGTCTAGGCCAGGTTTGGGGTGTTTC
Found at i:37910212 original size:35 final size:35
Alignment explanation
Indices: 37910173--37910239 Score: 107
Period size: 35 Copynumber: 1.9 Consensus size: 35
37910163 TTTTTTTATT
*
37910173 CTTTAAATGTTTATGTAAGTTATGATAATCATAAA
1 CTTTAAATATTTATGTAAGTTATGATAATCATAAA
* *
37910208 CTTTAATTATTTATGTAAGTTATGATTATCAT
1 CTTTAAATATTTATGTAAGTTATGATAATCAT
37910240 CTTTAAATTT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
35 29 1.00
ACGTcount: A:0.36, C:0.06, G:0.10, T:0.48
Consensus pattern (35 bp):
CTTTAAATATTTATGTAAGTTATGATAATCATAAA
Found at i:37910805 original size:19 final size:20
Alignment explanation
Indices: 37910781--37910818 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
37910771 TATCTTAAAT
37910781 TTTAAAA-TAAAAATAAAAA
1 TTTAAAATTAAAAATAAAAA
*
37910800 TTTAAAATTAAAACTAAAA
1 TTTAAAATTAAAAATAAAA
37910819 TAAATAATAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 7 0.41
20 10 0.59
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.29
Consensus pattern (20 bp):
TTTAAAATTAAAAATAAAAA
Found at i:37910819 original size:19 final size:18
Alignment explanation
Indices: 37910776--37910832 Score: 53
Period size: 19 Copynumber: 3.1 Consensus size: 18
37910766 CAAGTTATCT
*
37910776 TAAATTTTAAAATAAAAA
1 TAAAATTTAAAATAAAAA
*
37910794 TAAAAATTTAAAATTAAAAC
1 T-AAAATTTAAAA-TAAAAA
*
37910814 TAAAA-TAAATAATAAAAA
1 TAAAATTTAA-AATAAAAA
37910832 T
1 T
37910833 TGAATTAAAT
Statistics
Matches: 32, Mismatches: 4, Indels: 6
0.76 0.10 0.14
Matches are distributed among these distances:
18 10 0.31
19 16 0.50
20 6 0.19
ACGTcount: A:0.68, C:0.02, G:0.00, T:0.30
Consensus pattern (18 bp):
TAAAATTTAAAATAAAAA
Found at i:37910831 original size:25 final size:25
Alignment explanation
Indices: 37910782--37910833 Score: 63
Period size: 25 Copynumber: 2.1 Consensus size: 25
37910772 ATCTTAAATT
*
37910782 TTAAAATAAAAATAAAAATTTAAAA
1 TTAAAATAAAAATAAAAATTAAAAA
37910807 TTAAAACT-AAAATAAATAA-TAAAAA
1 TTAAAA-TAAAAATAAA-AATTAAAAA
37910832 TT
1 TT
37910834 GAATTAAATA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
25 21 0.88
26 3 0.12
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.29
Consensus pattern (25 bp):
TTAAAATAAAAATAAAAATTAAAAA
Found at i:37911282 original size:71 final size:72
Alignment explanation
Indices: 37911202--37911392 Score: 203
Period size: 71 Copynumber: 2.7 Consensus size: 72
37911192 AAATGGTTCC
* *
37911202 ACTTAATATCAAAACTCAATAAGTTGAACTAAATTAACCTCTTTAAAAAT-TA-AAATTGA-ACA
1 ACTTAATATCAAAACTCAATAAATTGAACTAAATTAACCT-TTTAAAAATGTATAAATAGATA-A
*
37911264 AATGTCTT-T
64 AAGGT-TTCT
** ** * * * *
37911273 ACTTAATATCAAATTTCAATAAATCAAACTAAATTAAGCTTCTAAAAATGTATAACTAGATAAAC
1 ACTTAATATCAAAACTCAATAAATTGAACTAAATTAACCTTTTAAAAATGTATAAATAGATAAAA
37911338 GGTTTCT
66 GGTTTCT
*
37911345 -CTTAATATCAAAACTTAATAAATTGAACTAAATTAACCTTTTTAAAAA
1 ACTTAATATCAAAACTCAATAAATTGAACTAAATTAACC-TTTTAAAAA
37911393 CACATAATTA
Statistics
Matches: 97, Mismatches: 18, Indels: 9
0.78 0.15 0.07
Matches are distributed among these distances:
70 8 0.08
71 70 0.72
72 18 0.19
73 1 0.01
ACGTcount: A:0.47, C:0.14, G:0.05, T:0.34
Consensus pattern (72 bp):
ACTTAATATCAAAACTCAATAAATTGAACTAAATTAACCTTTTAAAAATGTATAAATAGATAAAA
GGTTTCT
Found at i:37916503 original size:22 final size:22
Alignment explanation
Indices: 37916460--37916503 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
37916450 AACATATAAT
*
37916460 TAAATTAATCAAAATTTACAAA
1 TAAATTAATCAAAAATTACAAA
*
37916482 TAAA-TAATTCAAAAATTGCAAA
1 TAAATTAA-TCAAAAATTACAAA
37916504 CAGCAGCACA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 3 0.16
22 16 0.84
ACGTcount: A:0.59, C:0.09, G:0.02, T:0.30
Consensus pattern (22 bp):
TAAATTAATCAAAAATTACAAA
Found at i:37917449 original size:20 final size:20
Alignment explanation
Indices: 37917424--37917463 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
37917414 TGAGAAATGA
*
37917424 AATAAAACTTGCTTATCATT
1 AATAAAACTTACTTATCATT
37917444 AATAAAACTTACTTATCATT
1 AATAAAACTTACTTATCATT
37917464 CATTTTTCCC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.42, C:0.15, G:0.03, T:0.40
Consensus pattern (20 bp):
AATAAAACTTACTTATCATT
Found at i:37917827 original size:40 final size:40
Alignment explanation
Indices: 37917774--37917889 Score: 128
Period size: 40 Copynumber: 2.9 Consensus size: 40
37917764 AAAATGATAC
* **
37917774 TTTGCGGCCTTTTTCTCATAAC-GTAGCTAATGCTTGAAC-T
1 TTTGCGGCGTTTTTCTCATAACACCA-CTAATGCTTG-ACTT
*
37917814 TTTGCAGCGTTTTTCTCATAACACCACTAATGCTTGACTT
1 TTTGCGGCGTTTTTCTCATAACACCACTAATGCTTGACTT
* * *
37917854 TTTGTGGCGTTTTTCTCAGAAACACCACTACTGCTT
1 TTTGCGGCGTTTTTCTCA-TAACACCACTAATGCTT
37917890 TACCTATTGT
Statistics
Matches: 65, Mismatches: 8, Indels: 5
0.83 0.10 0.06
Matches are distributed among these distances:
39 2 0.03
40 47 0.72
41 16 0.25
ACGTcount: A:0.21, C:0.24, G:0.16, T:0.40
Consensus pattern (40 bp):
TTTGCGGCGTTTTTCTCATAACACCACTAATGCTTGACTT
Found at i:37917905 original size:41 final size:40
Alignment explanation
Indices: 37917800--37917910 Score: 132
Period size: 41 Copynumber: 2.8 Consensus size: 40
37917790 CATAACGTAG
* * * *
37917800 CTAATGCTTGAACTTTTGCAGCGTTTTTCTCATAACACCA
1 CTAATGCTTGACCTATTGTAGCGTTTTTCTCAAAACACCA
* * *
37917840 CTAATGCTTGACTTTTTGTGGCGTTTTTCTCAGAAACACCA
1 CTAATGCTTGACCTATTGTAGCGTTTTTCTCA-AAACACCA
* *
37917881 CTACTGCTTTACCTATTGTAGCGTTTTTCT
1 CTAATGCTTGACCTATTGTAGCGTTTTTCT
37917911 GTTAGCTCCA
Statistics
Matches: 60, Mismatches: 10, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
40 28 0.47
41 32 0.53
ACGTcount: A:0.21, C:0.23, G:0.14, T:0.41
Consensus pattern (40 bp):
CTAATGCTTGACCTATTGTAGCGTTTTTCTCAAAACACCA
Found at i:37924861 original size:66 final size:65
Alignment explanation
Indices: 37924704--37924861 Score: 153
Period size: 67 Copynumber: 2.4 Consensus size: 65
37924694 ATTATGATGT
* * * * *
37924704 AGCTAGGTCACATGGGTGATACT-A-TGTGTACACCATGTAAACAAGAGAGCTACGGGATATATG
1 AGCTAGGTCACATGGGTGGTACTAAGTGAGGACACCATGTAAACAAGAGAGCTACGAGATAAATG
* * * * * *
37924767 TAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGTAGACAAGTA-AGTTACGAGATAA
1 -AGCTAGGTCACATGGGTGGTACTAAGTG-AGGACACCATGTAAACAAG-AGAGCTACGAGATAA
37924831 ACTG
63 A-TG
37924835 -GCTAGGTCACATGGGTGGTACTAAGTG
1 AGCTAGGTCACATGGGTGGTACTAAGTG
37924862 TTCACCATGT
Statistics
Matches: 74, Mismatches: 15, Indels: 8
0.76 0.15 0.08
Matches are distributed among these distances:
64 18 0.24
65 1 0.01
66 25 0.34
67 27 0.36
68 3 0.04
ACGTcount: A:0.31, C:0.16, G:0.29, T:0.23
Consensus pattern (65 bp):
AGCTAGGTCACATGGGTGGTACTAAGTGAGGACACCATGTAAACAAGAGAGCTACGAGATAAATG
Found at i:37933500 original size:80 final size:80
Alignment explanation
Indices: 37933416--37933564 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
37933406 TATGGTAACC
* * * *
37933416 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
37933480 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
37933496 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
37933561 CCGG
66 CCGG
37933565 TTATAATTTC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:37933506 original size:40 final size:38
Alignment explanation
Indices: 37933457--37933564 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
37933447 ATCACGATTT
*
37933457 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
37933497 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
37933537 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
37933565 TTATAATTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 56 0.92
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:37941613 original size:80 final size:80
Alignment explanation
Indices: 37941529--37941677 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
37941519 TATGGTAACC
* * * *
37941529 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
37941593 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
37941609 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
37941674 CCGG
66 CCGG
37941678 TTATAATTTC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:37941619 original size:40 final size:38
Alignment explanation
Indices: 37941570--37941677 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
37941560 ATCACGATTT
*
37941570 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
37941610 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
37941650 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
37941678 TTATAATTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 56 0.92
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:37945052 original size:40 final size:39
Alignment explanation
Indices: 37945008--37945189 Score: 238
Period size: 39 Copynumber: 4.6 Consensus size: 39
37944998 GTTCAAAACA
* * ** * *
37945008 CCTTCGGGACATAGCCCGGTTATGGTAACCCGCACAAATG
1 CCTTCGGG-CTTAGCCCGGATATCATAACTCGCACAATTG
* *
37945048 CCTTCGGGACTTAACCCGGATATCACAACTCGCACAATTG
1 CCTTCGGG-CTTAGCCCGGATATCATAACTCGCACAATTG
* *
37945088 CCTTCGGGCTTAGCCCGGGTATCATAGCTCGCACAATTG
1 CCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATTG
* *
37945127 CCTTCGGGCTTAGCCCGGATATCGTAGCTCGCACAATTG
1 CCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATTG
37945166 CCTTCGGGCTTAGCCCGGATATCA
1 CCTTCGGGCTTAGCCCGGATATCA
37945190 CTCGAACATT
Statistics
Matches: 127, Mismatches: 15, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
39 87 0.69
40 40 0.31
ACGTcount: A:0.21, C:0.31, G:0.24, T:0.24
Consensus pattern (39 bp):
CCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATTG
Found at i:37945119 original size:39 final size:39
Alignment explanation
Indices: 37945038--37945189 Score: 241
Period size: 39 Copynumber: 3.9 Consensus size: 39
37945028 TATGGTAACC
* * * *
37945038 CGCACAAATGCCTTCGGGACTTAACCCGGATATCACAACT
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCATAGCT
*
37945078 CGCACAATTGCCTTCGGGCTTAGCCCGGGTATCATAGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
*
37945117 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCGTAGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
37945156 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCA
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCA
37945190 CTCGAACATT
Statistics
Matches: 104, Mismatches: 8, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
39 87 0.84
40 17 0.16
ACGTcount: A:0.22, C:0.32, G:0.23, T:0.24
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
Found at i:37950535 original size:30 final size:29
Alignment explanation
Indices: 37950501--37950564 Score: 110
Period size: 30 Copynumber: 2.2 Consensus size: 29
37950491 ATGAATCGGA
37950501 AGCTTTGGCACTAAGTGTGCGATTTAAACT
1 AGCTTTGGCACTAAGTGTGCGATTT-AACT
*
37950531 AGCTTTGGCACTAAGTGTGTGATTTAACT
1 AGCTTTGGCACTAAGTGTGCGATTTAACT
37950560 AGCTT
1 AGCTT
37950565 CGGTTACTTG
Statistics
Matches: 33, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
29 9 0.27
30 24 0.73
ACGTcount: A:0.25, C:0.16, G:0.23, T:0.36
Consensus pattern (29 bp):
AGCTTTGGCACTAAGTGTGCGATTTAACT
Found at i:37951448 original size:87 final size:87
Alignment explanation
Indices: 37951302--37951476 Score: 332
Period size: 87 Copynumber: 2.0 Consensus size: 87
37951292 GGTTTATAAG
*
37951302 TATGTAAATGATTGATAATATTATGGCATGAATGATGTATGTTTTAGCTTAAAGAATGGTTGATT
1 TATGTAAATGATTGATAATATTATGGCATGAATGATGTATGTTTTAACTTAAAGAATGGTTGATT
37951367 GGGTTGTACATATATGCTTGAT
66 GGGTTGTACATATATGCTTGAT
*
37951389 TATGTAAATTATTGATAATATTATGGCATGAATGATGTATGTTTTAACTTAAAGAATGGTTGATT
1 TATGTAAATGATTGATAATATTATGGCATGAATGATGTATGTTTTAACTTAAAGAATGGTTGATT
37951454 GGGTTGTACATATATGCTTGAT
66 GGGTTGTACATATATGCTTGAT
37951476 T
1 T
37951477 CCTTGTTTGT
Statistics
Matches: 86, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
87 86 1.00
ACGTcount: A:0.31, C:0.05, G:0.22, T:0.42
Consensus pattern (87 bp):
TATGTAAATGATTGATAATATTATGGCATGAATGATGTATGTTTTAACTTAAAGAATGGTTGATT
GGGTTGTACATATATGCTTGAT
Found at i:37973978 original size:12 final size:13
Alignment explanation
Indices: 37973950--37973984 Score: 54
Period size: 12 Copynumber: 2.7 Consensus size: 13
37973940 TTCCAAATAA
37973950 TTTCATTTCTCTAT
1 TTTCATTT-TCTAT
37973964 TTTCATTTT-TAT
1 TTTCATTTTCTAT
37973976 TTTCATTTT
1 TTTCATTTT
37973985 GGAGAAAATC
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
12 12 0.57
13 1 0.05
14 8 0.38
ACGTcount: A:0.14, C:0.14, G:0.00, T:0.71
Consensus pattern (13 bp):
TTTCATTTTCTAT
Found at i:37975274 original size:12 final size:13
Alignment explanation
Indices: 37975257--37975289 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
37975247 TCTTATTTTA
37975257 TTTATTTTGA-TT
1 TTTATTTTGATTT
*
37975269 TTTATTTTTATTT
1 TTTATTTTGATTT
37975282 TTTATTTT
1 TTTATTTT
37975290 ATATTAAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 9 0.47
13 10 0.53
ACGTcount: A:0.15, C:0.00, G:0.03, T:0.82
Consensus pattern (13 bp):
TTTATTTTGATTT
Found at i:37980460 original size:68 final size:70
Alignment explanation
Indices: 37980388--37980585 Score: 294
Period size: 71 Copynumber: 2.8 Consensus size: 70
37980378 ACACCCTGTA
* * * *
37980388 GTAGCTAGGTCACATGCGTGATA-CGAGATGTA-TC-CCATGTAGACAAGAGAGCTACGTGAAAG
1 GTAGCTAGGTCGCATGCGTGATACCAAG-TGAAGACACCATGTAGACAAGAGAGCTACGTGAAAG
37980450 ATAAAT
65 ATAAAT
*
37980456 GTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGTGAAAG
1 GTAGCTAGGTCGCATGCGTGATACCAAGTGAA-GACACCATGTAGACAAGAGAGCTACGTGAAAG
37980521 ATAAAT
65 ATAAAT
*
37980527 GTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACG
1 GTAGCTAGGTCGCATGCGTGATACCAAGTGAA-GACACCATGTAGACAAGAGAGCTACG
37980586 AGACAAATCG
Statistics
Matches: 121, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
68 24 0.20
69 3 0.02
70 1 0.01
71 93 0.77
ACGTcount: A:0.34, C:0.18, G:0.28, T:0.20
Consensus pattern (70 bp):
GTAGCTAGGTCGCATGCGTGATACCAAGTGAAGACACCATGTAGACAAGAGAGCTACGTGAAAGA
TAAAT
Found at i:37980499 original size:41 final size:41
Alignment explanation
Indices: 37980454--37980571 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
37980444 TGAAAGATAA
37980454 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
37980495 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
37980525 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
37980566 ATGTAG
1 ATGTAG
37980572 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:37980511 original size:71 final size:71
Alignment explanation
Indices: 37980422--37980585 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
37980412 GAGATGTATC
37980422 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
37980487 AGGACA
66 AGGACA
37980493 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
37980558 AGGACA
66 AGGACA
37980564 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
37980586 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:37988027 original size:68 final size:70
Alignment explanation
Indices: 37987955--37988152 Score: 294
Period size: 71 Copynumber: 2.8 Consensus size: 70
37987945 ACACCCTGTA
* * * *
37987955 GTAGCTAGGTCACATGCGTGATA-CGAGATGTA-TC-CCATGTAGACAAGAGAGCTACGTGAAAG
1 GTAGCTAGGTCGCATGCGTGATACCAAG-TGAAGACACCATGTAGACAAGAGAGCTACGTGAAAG
37988017 ATAAAT
65 ATAAAT
*
37988023 GTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGTGAAAG
1 GTAGCTAGGTCGCATGCGTGATACCAAGTGAA-GACACCATGTAGACAAGAGAGCTACGTGAAAG
37988088 ATAAAT
65 ATAAAT
*
37988094 GTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACG
1 GTAGCTAGGTCGCATGCGTGATACCAAGTGAA-GACACCATGTAGACAAGAGAGCTACG
37988153 AGACAAATCG
Statistics
Matches: 121, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
68 24 0.20
69 3 0.02
70 1 0.01
71 93 0.77
ACGTcount: A:0.34, C:0.18, G:0.28, T:0.20
Consensus pattern (70 bp):
GTAGCTAGGTCGCATGCGTGATACCAAGTGAAGACACCATGTAGACAAGAGAGCTACGTGAAAGA
TAAAT
Found at i:37988066 original size:41 final size:41
Alignment explanation
Indices: 37988021--37988138 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
37988011 TGAAAGATAA
37988021 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
37988062 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
37988092 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
37988133 ATGTAG
1 ATGTAG
37988139 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:37988078 original size:71 final size:71
Alignment explanation
Indices: 37987989--37988152 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
37987979 GAGATGTATC
37987989 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
37988054 AGGACA
66 AGGACA
37988060 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
37988125 AGGACA
66 AGGACA
37988131 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
37988153 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:37991505 original size:23 final size:22
Alignment explanation
Indices: 37991459--37991510 Score: 56
Period size: 23 Copynumber: 2.4 Consensus size: 22
37991449 AAAATTCGGC
37991459 AAAGG-GA-AAAAGGAAAATAA
1 AAAGGAGAGAAAAGGAAAATAA
*
37991479 AAAGGTAGAGAAAAGAGAAAA-AG
1 AAAGG-AGAGAAAAG-GAAAATAA
37991502 AAAGGAGAG
1 AAAGGAGAG
37991511 TTTCAGTAGC
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
20 5 0.19
22 6 0.22
23 11 0.41
24 5 0.19
ACGTcount: A:0.65, C:0.00, G:0.31, T:0.04
Consensus pattern (22 bp):
AAAGGAGAGAAAAGGAAAATAA
Found at i:37994784 original size:16 final size:17
Alignment explanation
Indices: 37994753--37994785 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
37994743 GGTAAAGGAT
37994753 ACTTATTCTTAATCGTCC
1 ACTTATTC-TAATCGTCC
37994771 ACTTATTC-AATCGTC
1 ACTTATTCTAATCGTC
37994786 GGTAGTCAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
18 8 0.53
ACGTcount: A:0.24, C:0.27, G:0.06, T:0.42
Consensus pattern (17 bp):
ACTTATTCTAATCGTCC
Found at i:38009520 original size:47 final size:46
Alignment explanation
Indices: 38009355--38009709 Score: 230
Period size: 47 Copynumber: 7.6 Consensus size: 46
38009345 TTACCAATGC
* * * * *
38009355 CATGTCCCAGACATGGTCTTACACTGGCTCTCATATACGCGTGCTGATG
1 CATGTCCCAGACAT-GTCTTACACTGGCTATC-TCTATGAG-GCCGATG
* * *
38009404 CATGTCCCAGACATGTCTTACACTAGCACAACTCT-T-A-GCCGATG
1 CATGTCCCAGACATGTCTTACACTGGC-TATCTCTATGAGGCCGATG
*** * * * *
38009448 TGCGTCCCGGAAATGTATTACACTGGCTATCTCTATCGAGGCCAATG
1 CATGTCCCAGACATGTCTTACACTGGCTATCTCTAT-GAGGCCGATG
*
38009495 CATGTCCCAGACATGTCTTACACTGGCACTAATCTC--TG-TGCCGATG
1 CATGTCCCAGACATGTCTTACACTGG--CT-ATCTCTATGAGGCCGATG
* * *
38009541 CCATGTCCCAGACATGGTCTTACACTAGCTATC-ATA-GTATGGCTGATG
1 -CATGTCCCAGACAT-GTCTTACACTGGCTATCTCTATG-A-GGCCGATG
* * *
38009589 CATGTCCCAGACATGTCTTACACTAGCCT-TCGTCT-GGATGCCGATG
1 CATGTCCCAGACATGTCTTACACT-GGCTATC-TCTATGAGGCCGATG
* * *
38009635 CCATGTCCCAGACATGGTCTTACACTGGC--TCTCATGATGTGGCCAAAG
1 -CATGTCCCAGACAT-GTCTTACACTGGCTATCTC-T-ATGAGGCCGATG
*
38009683 CATGTCACAGACATGTCTTACACTGGC
1 CATGTCCCAGACATGTCTTACACTGGC
38009710 GCACAAATCA
Statistics
Matches: 240, Mismatches: 42, Indels: 51
0.72 0.13 0.15
Matches are distributed among these distances:
43 5 0.02
44 27 0.11
45 6 0.03
46 43 0.18
47 87 0.36
48 50 0.21
49 17 0.07
50 5 0.02
ACGTcount: A:0.23, C:0.29, G:0.21, T:0.27
Consensus pattern (46 bp):
CATGTCCCAGACATGTCTTACACTGGCTATCTCTATGAGGCCGATG
Found at i:38009607 original size:94 final size:93
Alignment explanation
Indices: 38009351--38009706 Score: 363
Period size: 94 Copynumber: 3.8 Consensus size: 93
38009341 TATATTACCA
* * * **
38009351 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATACGCGTGCTGATGCATGTCCCAGAC
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCTATCATGTA--TG-GCCAATGCATGTCCCAGAC
38009416 ATGTCTTACACTAGCAC-AA-CTCT-TAGCCG
63 ATGTCTTACACTAGCACTAATCTCTGT-GCCG
* * * * *
38009445 ATGTGC--GTCCCGGAAAT-GTATTACACTGGCTATC-TCTATCGAGGCCAATGCATGTCCCAGA
1 ATG-CCATGTCCCAGACATGGTCTTACACTGGCTATCATGTAT---GGCCAATGCATGTCCCAGA
*
38009506 CATGTCTTACACTGGCACTAATCTCTGTGCCG
62 CATGTCTTACACTAGCACTAATCTCTGTGCCG
* **
38009538 ATGCCATGTCCCAGACATGGTCTTACACTAGCTATCATAGTATGGCTGATGCATGTCCCAGACAT
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCTATCAT-GTATGGCCAATGCATGTCCCAGACAT
38009603 GTCTTACACTAGC-CT--TCGTCTGGATGCCG
65 GTCTTACACTAGCACTAATC-TCT-G-TGCCG
* * * *
38009632 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATGATGTGGCCAAAGCATGTCACAGACAT
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCTATCATG-TATGGCCAATGCATGTCCCAGACAT
38009697 GTCTTACACT
65 GTCTTACACT
38009707 GGCGCACAAA
Statistics
Matches: 220, Mismatches: 26, Indels: 32
0.79 0.09 0.12
Matches are distributed among these distances:
91 38 0.17
92 22 0.10
93 24 0.11
94 116 0.53
95 16 0.07
96 1 0.00
97 3 0.01
ACGTcount: A:0.23, C:0.29, G:0.21, T:0.28
Consensus pattern (93 bp):
ATGCCATGTCCCAGACATGGTCTTACACTGGCTATCATGTATGGCCAATGCATGTCCCAGACATG
TCTTACACTAGCACTAATCTCTGTGCCG
Found at i:38009687 original size:141 final size:138
Alignment explanation
Indices: 38009348--38009706 Score: 370
Period size: 141 Copynumber: 2.6 Consensus size: 138
38009338 GGATATATTA
* *
38009348 CCAATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATACGCGTGCTGATGCATGTCCCA
1 CCAATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAT--GTGTGCCGATGCATGTCCCA
* ** * *
38009413 GACATGTCTTACACTAGCACAACTCTTAGCCGATGTGCGTCCCGGAAATGTATTACACTGGCTAT
64 GACATGTCTTACACTAGCACAACTCATAGCCGATGCACGTCCCAGAAATGTATTACACTGCCTAT
38009478 CTCTATCGAGG
129 CTC-ATCGAGG
* * * *
38009489 CCAATG-CATGTCCCAGACAT-GTCTTACACTGGCACTAATCTCTGTGCCGATGCCATGTCCCAG
1 CCAATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATGTGTGCCGATG-CATGTCCCAG
* * * * * *
38009552 ACATGGTCTTACACTAGCTATCATAGT-ATGGCTGATGCATGTCCCAGACATGTCTTACACTAGC
65 ACAT-GTCTTACACTAGC-A-CA-ACTCATAGCCGATGCACGTCCCAGAAATGTATTACACT-GC
* *
38009616 CT-TCGTC-TGGATG
125 CTATC-TCATCGAGG
* * * *
38009629 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATGATGTG-GCCAAAGCATGTCACAG
1 CCAATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCAT-ATGTGTGCCGATGCATGTCCCAG
38009693 ACATGTCTTACACT
65 ACATGTCTTACACT
38009707 GGCGCACAAA
Statistics
Matches: 181, Mismatches: 27, Indels: 21
0.79 0.12 0.09
Matches are distributed among these distances:
137 8 0.04
138 14 0.08
139 31 0.17
140 34 0.19
141 62 0.34
142 29 0.16
143 3 0.02
ACGTcount: A:0.23, C:0.29, G:0.20, T:0.27
Consensus pattern (138 bp):
CCAATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATGTGTGCCGATGCATGTCCCAGA
CATGTCTTACACTAGCACAACTCATAGCCGATGCACGTCCCAGAAATGTATTACACTGCCTATCT
CATCGAGG
Found at i:38013837 original size:13 final size:13
Alignment explanation
Indices: 38013821--38013867 Score: 76
Period size: 13 Copynumber: 3.6 Consensus size: 13
38013811 CAGGGACATG
*
38013821 CCCGTGTGACATA
1 CCCGTGTGACACA
38013834 CCCGTGTGACACA
1 CCCGTGTGACACA
*
38013847 CCCGTGTGACACG
1 CCCGTGTGACACA
38013860 CCCGTGTG
1 CCCGTGTG
38013868 CGATTACTTC
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 32 1.00
ACGTcount: A:0.17, C:0.36, G:0.28, T:0.19
Consensus pattern (13 bp):
CCCGTGTGACACA
Done.