Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr2
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: 61750188
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1877335 characters in sequence are not A, C, G, or T
File 155 of 186
Found at i:51524582 original size:48 final size:48
Alignment explanation
Indices: 51524514--51524936 Score: 445
Period size: 48 Copynumber: 8.9 Consensus size: 48
51524504 GGTGAATTGT
* * * * * * *
51524514 CGATGCCAAGTTCTAAACATGGTCTTACACTGGCTCACATGTCGAGGC
1 CGATGCCATGTTCCAGACATGGTCTTACACTAGCTCACATATCAATGC
* *
51524562 TGATGCCATGTTCCAGACATGGTCTTACACTAGCTCTA-GTATCAATGC
1 CGATGCCATGTTCCAGACATGGTCTTACACTAGCTC-ACATATCAATGC
* *
51524610 CAATGCCATGTCCCAGACATGGTCTTA-ACTAGCGT-ACATATCAATGC
1 CGATGCCATGTTCCAGACATGGTCTTACACTAGC-TCACATATCAATGC
* * *
51524657 CGATGCCATGTCCCAGACATGGTCTTACACTAGCGCACATATCAATGT
1 CGATGCCATGTTCCAGACATGGTCTTACACTAGCTCACATATCAATGC
* *
51524705 CGATGCCATG-TCCTAGACATGGTCTTACACTAGCGCACATATCAATGT
1 CGATGCCATGTTCC-AGACATGGTCTTACACTAGCTCACATATCAATGC
* *
51524753 CGATGCCATG-TCCTAGACATGGTCTTACACTAGCTCGCACTA-CATTGC
1 CGATGCCATGTTCC-AGACATGGTCTTACACTAGCTCACA-TATCAATGC
* * * * * *
51524801 TGATGCCATGTTCCAAACATGGTATTACACTGGCTCTCATATC-GTGGC
1 CGATGCCATGTTCCAGACATGGTCTTACACTAGCTCACATATCAAT-GC
*
51524849 CGATGCCATG-TCCTAGACATGGTCTTACACTAG-TGCACATGTCAATGC
1 CGATGCCATGTTCC-AGACATGGTCTTACACTAGCT-CACATATCAATGC
* *
51524897 CGATGCCATG-TCCTAGACATGGT-TTTCACTAGCACACATA
1 CGATGCCATGTTCC-AGACATGGTCTTACACTAGCTCACATA
51524937 GCACCCAAAT
Statistics
Matches: 324, Mismatches: 37, Indels: 29
0.83 0.09 0.07
Matches are distributed among these distances:
46 1 0.00
47 63 0.19
48 253 0.78
49 7 0.02
ACGTcount: A:0.26, C:0.27, G:0.19, T:0.27
Consensus pattern (48 bp):
CGATGCCATGTTCCAGACATGGTCTTACACTAGCTCACATATCAATGC
Found at i:51524864 original size:144 final size:145
Alignment explanation
Indices: 51524514--51524929 Score: 524
Period size: 144 Copynumber: 2.9 Consensus size: 145
51524504 GGTGAATTGT
* * * * *
51524514 CGATGCCAAGTTCTAAACATGGTCTTACACTGGCTCACATGTCGAGGCTGATGCCATGTTCC-AG
1 CGATGCCATGTTCCAAACATGGTCTTACACTGGCTCACATATCGTGGCCGATGCCATG-TCCTAG
* * * *
51524578 ACATGGTCTTACACTAGCTCTA-GTATCAATGCCAATGCCATGTCCCAGACATGGTCTTA-ACTA
65 ACATGGTCTTACACTAGCGC-ACATATCAATGCCGATGCCATGTCCTAGACATGGTCTTACACTA
*
51524641 G-CGTACATATCAATGC
129 GCCGCACATATCAATGC
* * * * * *
51524657 CGATGCCATGTCCCAGACATGGTCTTACACTAGCGCACATATCAAT-GTCGATGCCATGTCCTAG
1 CGATGCCATGTTCCAAACATGGTCTTACACTGGCTCACATATC-GTGGCCGATGCCATGTCCTAG
*
51524721 ACATGGTCTTACACTAGCGCACATATCAATGTCGATGCCATGTCCTAGACATGGTCTTACACTAG
65 ACATGGTCTTACACTAGCGCACATATCAATGCCGATGCCATGTCCTAGACATGGTCTTACACTAG
*
51524786 CTCGCAC-TA-CATTGC
130 C-CGCACATATCAATGC
* * *
51524801 TGATGCCATGTTCCAAACATGGTATTACACTGGCTCTCATATCGTGGCCGATGCCATGTCCTAGA
1 CGATGCCATGTTCCAAACATGGTCTTACACTGGCTCACATATCGTGGCCGATGCCATGTCCTAGA
* * *
51524866 CATGGTCTTACACTAGTGCACATGTCAATGCCGATGCCATGTCCTAGACATGGT-TTTCACTAGC
66 CATGGTCTTACACTAGCGCACATATCAATGCCGATGCCATGTCCTAGACATGGTCTTACACTAGC
51524930 ACACATAGCA
Statistics
Matches: 235, Mismatches: 31, Indels: 14
0.84 0.11 0.05
Matches are distributed among these distances:
142 4 0.02
143 110 0.47
144 115 0.49
145 2 0.01
146 4 0.02
ACGTcount: A:0.25, C:0.27, G:0.20, T:0.28
Consensus pattern (145 bp):
CGATGCCATGTTCCAAACATGGTCTTACACTGGCTCACATATCGTGGCCGATGCCATGTCCTAGA
CATGGTCTTACACTAGCGCACATATCAATGCCGATGCCATGTCCTAGACATGGTCTTACACTAGC
CGCACATATCAATGC
Found at i:51528698 original size:46 final size:44
Alignment explanation
Indices: 51528639--51528753 Score: 149
Period size: 44 Copynumber: 2.6 Consensus size: 44
51528629 ACAGGACAGA
* *
51528639 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATT--AAATATGGCATTGGAG
* *
51528685 ACAGGATTGAGCCATGTAAGTCCATATTATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAG
* **
51528729 ACAGGAATAATTCATGTAAGTCCAT
1 ACAGGAATGAGCCATGTAAGTCCAT
51528754 GTCAAAGACA
Statistics
Matches: 61, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
44 35 0.57
46 26 0.43
ACGTcount: A:0.36, C:0.14, G:0.23, T:0.28
Consensus pattern (44 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAG
Found at i:51528734 original size:44 final size:45
Alignment explanation
Indices: 51528639--51528772 Score: 153
Period size: 46 Copynumber: 3.0 Consensus size: 45
51528629 ACAGGACAGA
* *
51528639 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTA-AAATATGGCATTGGAG
* *
51528685 ACAGGATTGAGCCATGTAAGTCCATATT-ATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
* ** * * *
51528729 ACAGGAATAATTCATGTAAGTCCATGTCAAAGACATGGCATTGG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAA-ATATGGCATTGG
51528773 CAGGATATTG
Statistics
Matches: 74, Mismatches: 12, Indels: 4
0.82 0.13 0.04
Matches are distributed among these distances:
44 36 0.49
45 1 0.01
46 37 0.50
ACGTcount: A:0.35, C:0.14, G:0.24, T:0.27
Consensus pattern (45 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
Found at i:51535349 original size:47 final size:47
Alignment explanation
Indices: 51535291--51535685 Score: 718
Period size: 47 Copynumber: 8.4 Consensus size: 47
51535281 CAGCCAAGAC
51535291 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
51535338 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
51535385 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
51535432 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
51535479 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
51535526 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
51535573 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* * * * * * *
51535620 AGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
51535667 AGTGTATAAATGTGATAAG
1 AGTGTATATATGTGATAAG
51535686 TCCCGAAGGG
Statistics
Matches: 338, Mismatches: 10, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
47 338 1.00
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (47 bp):
AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
Found at i:51535860 original size:37 final size:37
Alignment explanation
Indices: 51535804--51535882 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
51535794 CCGAGCTCTA
* * *
51535804 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
51535841 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
51535878 AAGAC
1 AAGAC
51535883 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:51537796 original size:43 final size:43
Alignment explanation
Indices: 51537748--51537850 Score: 206
Period size: 43 Copynumber: 2.4 Consensus size: 43
51537738 TTGGTTTTCA
51537748 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
1 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
51537791 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
1 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
51537834 GCACTAAGTGTGCGGGC
1 GCACTAAGTGTGCGGGC
51537851 TTGAAATGCA
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 60 1.00
ACGTcount: A:0.22, C:0.16, G:0.36, T:0.26
Consensus pattern (43 bp):
GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
Found at i:51537867 original size:29 final size:29
Alignment explanation
Indices: 51537832--51537905 Score: 105
Period size: 29 Copynumber: 2.6 Consensus size: 29
51537822 GTTGTGAGAT
* *
51537832 TGGCACTAAGTGTGCGGGCTTGAAA-TGCA
1 TGGCACTAAGTGTGCGAG-TTGAAAGTACA
*
51537861 TGGCACTAAGTGTGCGAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGAGTTGAAAGTACA
51537890 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
51537906 TGGTTGATTA
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
28 5 0.12
29 36 0.88
ACGTcount: A:0.26, C:0.16, G:0.32, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGTTGAAAGTACA
Found at i:51538341 original size:40 final size:40
Alignment explanation
Indices: 51538297--51538453 Score: 242
Period size: 40 Copynumber: 3.9 Consensus size: 40
51538287 GAGTTACTAA
51538297 ATCCGGGCTAAGTCCCGAAGAGCAATCATGCTAGTGATGT
1 ATCCGGGCTAAGTCCCGAAGAGCAATCATGCTAGTGATGT
*
51538337 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGT
1 ATCCGGGCTAAGTCCCGAAGAGCAATCATGCTAGTGATGT
* * * *
51538377 ATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATAT
1 ATCCGGGCTAAGTCCCGAAGAGCAATCATGCTAGTGATGT
* * *
51538417 ATCCGTGCTAAATCCCGAAGAGCAATCATGCTGGTGA
1 ATCCGGGCTAAGTCCCGAAGAGCAATCATGCTAGTGA
51538454 CGTGTATTCG
Statistics
Matches: 107, Mismatches: 10, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
40 107 1.00
ACGTcount: A:0.27, C:0.22, G:0.27, T:0.24
Consensus pattern (40 bp):
ATCCGGGCTAAGTCCCGAAGAGCAATCATGCTAGTGATGT
Found at i:51538355 original size:80 final size:80
Alignment explanation
Indices: 51538218--51538447 Score: 234
Period size: 80 Copynumber: 2.9 Consensus size: 80
51538208 TCGAATGATG
* ** * *
51538218 TCCGGGCTAAGTCCCGAAG-GC-TTTGTGCTAAGTGACCATATCCGGACTAAGAT-CCGAAG-GC
1 TCCGGGCTAAGTCCCGAAGAGCAATCATGCT-AGTGA-TATATCCGGGCTAAG-TCCCGAAGAGC
** *
51538279 ATTGGTGCGAGTTACTAAA
63 ATTCATGCGAGTGA-TAAA
*
51538298 TCCGGGCTAAGTCCCGAAGAGCAATCATGCTAGTGATGTATCCGGGCTAAGTCCCGAAGAGCATT
1 TCCGGGCTAAGTCCCGAAGAGCAATCATGCTAGTGATATATCCGGGCTAAGTCCCGAAGAGCATT
* **
51538363 CATGCTAGTGATGTA
66 CATGCGAGTGATAAA
* * * * * *
51538378 TCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATATATCCGTGCTAAATCCCGAAGAGCAAT
1 TCCGGGCTAAGTCCCGAAGAGCAATCATGCTAGTGATATATCCGGGCTAAGTCCCGAAGAGCATT
51538443 CATGC
66 CATGC
51538448 TGGTGACGTG
Statistics
Matches: 127, Mismatches: 19, Indels: 8
0.82 0.12 0.05
Matches are distributed among these distances:
79 1 0.01
80 102 0.80
81 19 0.15
82 5 0.04
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.24
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGAGCAATCATGCTAGTGATATATCCGGGCTAAGTCCCGAAGAGCATT
CATGCGAGTGATAAA
Found at i:51538433 original size:120 final size:120
Alignment explanation
Indices: 51538218--51538453 Score: 307
Period size: 120 Copynumber: 2.0 Consensus size: 120
51538208 TCGAATGATG
** *
51538218 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTG
1 TCCGGGCTAAGTCCCGAAGGCTTCATGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTC
* *
51538283 GTGCGAGTTACTAAATCCGGGCTAAGTCCCGAAGAGCAATCATGCTAGTGATGTA
66 GTGCGAGTGACTAAATCCGGGCTAAATCCCGAAGAGCAATCATGCTAGTGATGTA
** * *
51538338 TCCGGGCTAAGTCCCGAAGAGCATTCATGCT-AGTGA-TGTATCCGGGCTAAGTTCCGAAGAGCA
1 TCCGGGCTAAGTCCCGAAG-GC-TTCATGCTAAGTGACCATATCCGGACTAAGATCCGAAG-GCA
* * * *
51538401 TTCGTGCTAGTGA-TATATCCGTGCTAAATCCCGAAGAGCAATCATGCTGGTGA
63 TTCGTGCGAGTGACTAAATCCGGGCTAAATCCCGAAGAGCAATCATGCTAGTGA
51538454 CGTGTATTCG
Statistics
Matches: 100, Mismatches: 13, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
120 74 0.74
121 20 0.20
122 6 0.06
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.24
Consensus pattern (120 bp):
TCCGGGCTAAGTCCCGAAGGCTTCATGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTC
GTGCGAGTGACTAAATCCGGGCTAAATCCCGAAGAGCAATCATGCTAGTGATGTA
Found at i:51541333 original size:79 final size:81
Alignment explanation
Indices: 51541188--51541376 Score: 251
Period size: 79 Copynumber: 2.4 Consensus size: 81
51541178 TACTCGAATG
* *
51541188 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGCGACTACATCCGGACTAAGATCCGAAGGC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGCGACTAAATCCGGACTAAGATCCGAAGGC
51541253 ATTTGTGCGAGTTACT
66 ATTTGTGCGAGTTACT
* ** **
51541269 A-ATTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAG
1 ATA-TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGCGACTAAATCCGGACTAAGAT-CCGAAG
51541330 GCATTTGTGCGAGTTACT
64 GCATTTGTGCGAGTTACT
* *
51541348 ATAACCGGGCTATGTCCCGAAGGCATTTG
1 ATATCCGGGCTAAGTCCCGAAGGCATTTG
51541377 AACGAGTAGC
Statistics
Matches: 95, Mismatches: 9, Indels: 9
0.84 0.08 0.08
Matches are distributed among these distances:
78 1 0.01
79 50 0.53
80 32 0.34
81 12 0.13
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.26
Consensus pattern (81 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGCGACTAAATCCGGACTAAGATCCGAAGGC
ATTTGTGCGAGTTACT
Found at i:51541338 original size:40 final size:40
Alignment explanation
Indices: 51541190--51541376 Score: 245
Period size: 40 Copynumber: 4.7 Consensus size: 40
51541180 CTCGAATGAT
* * ** *
51541190 ATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGCGACTAC
1 ATCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAA
*
51541231 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAA
1 ATCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAA
*
51541271 TTCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAA
1 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAA
*
51541310 ATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
1 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-A
*
51541351 A-CCGGGCTATGTCCCGAAGGCATTTG
1 ATCCGGGCTAAGTCCCGAAGGCATTTG
51541377 AACGAGTAGC
Statistics
Matches: 130, Mismatches: 12, Indels: 9
0.86 0.08 0.06
Matches are distributed among these distances:
39 36 0.28
40 65 0.50
41 28 0.22
42 1 0.01
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.26
Consensus pattern (40 bp):
ATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAA
Found at i:51541398 original size:79 final size:79
Alignment explanation
Indices: 51541245--51541409 Score: 219
Period size: 79 Copynumber: 2.1 Consensus size: 79
51541235 GGACTAAGAT
* **
51541245 CCGAAGGCATTTGTGCGAGTTACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
*
51541310 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
*
51541324 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGTTACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-C
* *
51541387 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
51541403 CCGAAGG
1 CCGAAGG
51541410 TACGTGATTT
Statistics
Matches: 76, Mismatches: 7, Indels: 6
0.85 0.08 0.07
Matches are distributed among these distances:
78 2 0.03
79 49 0.64
80 25 0.33
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.26
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:51553534 original size:48 final size:48
Alignment explanation
Indices: 51553404--51553537 Score: 155
Period size: 48 Copynumber: 2.8 Consensus size: 48
51553394 TGAATTGTTA
* * *
51553404 ATGCCATGT-TCAAAACATGGTCTTACACTGGCTCACATGCCGAGGCAT
1 ATGCCATGTCTC-AAACATGGTCTTACACTGGCTCTCATGCCAAGGCAG
* * * * * *
51553452 ATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCGT-CTCAATGCCG
1 ATGCCATGTCTCAAACATGGTCTTACACTGGCTCTCATGC-CAAGGCAG
51553500 ATGCCATGTCTCAAACATGGTCTTACACTGGCTCTCAT
1 ATGCCATGTCTCAAACATGGTCTTACACTGGCTCTCAT
51553538 AAGGTGGCCA
Statistics
Matches: 71, Mismatches: 13, Indels: 4
0.81 0.15 0.05
Matches are distributed among these distances:
47 1 0.01
48 69 0.97
49 1 0.01
ACGTcount: A:0.24, C:0.30, G:0.19, T:0.28
Consensus pattern (48 bp):
ATGCCATGTCTCAAACATGGTCTTACACTGGCTCTCATGCCAAGGCAG
Found at i:51553552 original size:48 final size:48
Alignment explanation
Indices: 51553403--51553570 Score: 134
Period size: 48 Copynumber: 3.5 Consensus size: 48
51553393 GTGAATTGTT
* ** *
51553403 AATGCCATGT-TCAAAACATGGTCTTACACTGGCTCACATGCCGAGG-C
1 AATGCCATGTCTCAAAACATGGTCTTACACTGGCTCTCAT-AAGTGGCC
* * * *
51553450 ATATGCCATGTC-CCAGACATGGTCTTACACTAGCTCTCGTCTCAA-T-GCC
1 A-ATGCCATGTCTCAAAACATGGTCTTACACTGGCTCTC--AT-AAGTGGCC
*
51553499 GATGCCATGTCTC-AAACATGGTCTTACACTGGCTCTCATAAGGTGGCC
1 AATGCCATGTCTCAAAACATGGTCTTACACTGGCTCTCATAA-GTGGCC
* *
51553547 AATGCCATGTC-CTAGACATGGTCT
1 AATGCCATGTCTCAAAACATGGTCT
51553571 GGCTTTCACG
Statistics
Matches: 96, Mismatches: 15, Indels: 19
0.74 0.12 0.15
Matches are distributed among these distances:
45 2 0.02
46 1 0.01
47 3 0.03
48 87 0.91
49 2 0.02
50 1 0.01
ACGTcount: A:0.24, C:0.29, G:0.20, T:0.27
Consensus pattern (48 bp):
AATGCCATGTCTCAAAACATGGTCTTACACTGGCTCTCATAAGTGGCC
Found at i:51563276 original size:48 final size:48
Alignment explanation
Indices: 51563203--51563343 Score: 160
Period size: 48 Copynumber: 2.9 Consensus size: 48
51563193 ACATTTGGGT
* *
51563203 GATATGAGAACCAGTGTAAGACCATGTTTGGGACATGGCATCAGCCAC
1 GATATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCAGCCAC
* ** *
51563251 -ATTATGAGAGCTAGTGTAAGACCATGTCTAAGACATGGCATC-GACCTC
1 GA-TATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCAG-CCAC
* * * *
51563299 GATATGTGAGCCAATGTAAGACCATGTCTGGGATAGGGCATCAGC
1 GATATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCAGC
51563344 AATTTACCCT
Statistics
Matches: 76, Mismatches: 13, Indels: 8
0.78 0.13 0.08
Matches are distributed among these distances:
47 2 0.03
48 72 0.95
49 2 0.03
ACGTcount: A:0.30, C:0.20, G:0.27, T:0.23
Consensus pattern (48 bp):
GATATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCAGCCAC
Found at i:51567345 original size:12 final size:12
Alignment explanation
Indices: 51567328--51567353 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
51567318 CCTTACACGC
51567328 CCGTGTGCCAGG
1 CCGTGTGCCAGG
51567340 CCGTGTGCCAGG
1 CCGTGTGCCAGG
51567352 CC
1 CC
51567354 ATGTACTACC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.08, C:0.38, G:0.38, T:0.15
Consensus pattern (12 bp):
CCGTGTGCCAGG
Found at i:51568287 original size:20 final size:19
Alignment explanation
Indices: 51568262--51568322 Score: 59
Period size: 20 Copynumber: 3.0 Consensus size: 19
51568252 ATGTGTCATT
51568262 CAGGGGTACCGAAGTACAAA
1 CAGGGGTA-CGAAGTACAAA
* * *
51568282 CAGGGGCACGTATGTACAATT
1 CAGGGGTACG-AAGTACAA-A
51568303 CAGGGGTATCGAAGTACAAA
1 CAGGGGTA-CGAAGTACAAA
51568323 TAAGGGCACG
Statistics
Matches: 32, Mismatches: 6, Indels: 6
0.73 0.14 0.14
Matches are distributed among these distances:
19 2 0.06
20 14 0.44
21 14 0.44
22 2 0.06
ACGTcount: A:0.36, C:0.18, G:0.30, T:0.16
Consensus pattern (19 bp):
CAGGGGTACGAAGTACAAA
Found at i:51568304 original size:41 final size:41
Alignment explanation
Indices: 51568259--51568348 Score: 144
Period size: 41 Copynumber: 2.2 Consensus size: 41
51568249 CGAATGTGTC
*
51568259 ATTCAGGGGTACCGAAGTACAAACAGGGGCACGTATGTACA
1 ATTCAGGGGTACCGAAGTACAAACAAGGGCACGTATGTACA
* * *
51568300 ATTCAGGGGTATCGAAGTACAAATAAGGGCACGTATGTGCA
1 ATTCAGGGGTACCGAAGTACAAACAAGGGCACGTATGTACA
51568341 ATTCAGGG
1 ATTCAGGG
51568349 AATAATTAAA
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
41 45 1.00
ACGTcount: A:0.33, C:0.17, G:0.30, T:0.20
Consensus pattern (41 bp):
ATTCAGGGGTACCGAAGTACAAACAAGGGCACGTATGTACA
Found at i:51568308 original size:21 final size:21
Alignment explanation
Indices: 51568282--51568348 Score: 66
Period size: 21 Copynumber: 3.2 Consensus size: 21
51568272 GAAGTACAAA
51568282 CAGGGGCACGTATGTACAATT
1 CAGGGGCACGTATGTACAATT
* * *
51568303 CAGGGGTATCG-AAGTACAAAT
1 CAGGGGCA-CGTATGTACAATT
* *
51568324 -AAGGGCACGTATGTGCAATT
1 CAGGGGCACGTATGTACAATT
51568344 CAGGG
1 CAGGG
51568349 AATAATTAAA
Statistics
Matches: 34, Mismatches: 9, Indels: 6
0.69 0.18 0.12
Matches are distributed among these distances:
19 2 0.06
20 12 0.35
21 18 0.53
22 2 0.06
ACGTcount: A:0.31, C:0.16, G:0.31, T:0.21
Consensus pattern (21 bp):
CAGGGGCACGTATGTACAATT
Found at i:51569618 original size:25 final size:24
Alignment explanation
Indices: 51569578--51569641 Score: 83
Period size: 25 Copynumber: 2.6 Consensus size: 24
51569568 AAAATAGAAA
* * *
51569578 AAAAAATAAAGCAAAACGAAACAGG
1 AAAAAAGAAAG-AAAAAGAAAAAGG
51569603 AAAGAAAGAAAGAAAAAGAAAAAGG
1 AAA-AAAGAAAGAAAAAGAAAAAGG
51569628 AAAAAAGAAAGAAA
1 AAAAAAGAAAGAAA
51569642 GCCACGGCCT
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
24 11 0.31
25 17 0.49
26 7 0.20
ACGTcount: A:0.75, C:0.05, G:0.19, T:0.02
Consensus pattern (24 bp):
AAAAAAGAAAGAAAAAGAAAAAGG
Found at i:51569638 original size:32 final size:32
Alignment explanation
Indices: 51569552--51569642 Score: 82
Period size: 32 Copynumber: 2.9 Consensus size: 32
51569542 ATAATAAAAT
* *
51569552 AAATAAA-TAAAAGAAAAAA-ATAGAAA-AAA
1 AAATAAAGAAAAAGAAAAAAGAAAGAAAGAAA
* * *
51569581 AAATAAAGCAAAACGAAACAGGAAAGAAAGAAA
1 AAATAAAG-AAAAAGAAAAAAGAAAGAAAGAAA
*
51569614 GAA-AAAGAAAAAGGAAAAAAGAAAGAAAG
1 AAATAAAGAAAAA-GAAAAAAGAAAGAAAG
51569643 CCACGGCCTT
Statistics
Matches: 48, Mismatches: 9, Indels: 7
0.75 0.14 0.11
Matches are distributed among these distances:
29 7 0.15
31 12 0.25
32 24 0.50
33 5 0.10
ACGTcount: A:0.76, C:0.03, G:0.16, T:0.04
Consensus pattern (32 bp):
AAATAAAGAAAAAGAAAAAAGAAAGAAAGAAA
Found at i:51570619 original size:40 final size:39
Alignment explanation
Indices: 51570489--51570626 Score: 131
Period size: 41 Copynumber: 3.5 Consensus size: 39
51570479 ACTTCAAGTC
* * *
51570489 GATGAGGCACAGGGTGTCAATT--TACTTCGGTTTAATC-
1 GATGAGACACTGGGTGTCAATTACTACTTCGATTT-ATCT
*
51570526 GATGAGACACTAGGTGTCAATTTACTACTTCAGATTTAT-T
1 GATGAGACACTGGGTGTCAA-TTACTACTTC-GATTTATCT
* * *
51570566 CGATGAGATACTGGGTGCCAAGTTACTACTTCGAATTATCT
1 -GATGAGACACTGGGTGTCAA-TTACTACTTCGATTTATCT
*
51570607 GATGAGGCACTGGGTGTCAA
1 GATGAGACACTGGGTGTCAA
51570627 ACTAGTGTGT
Statistics
Matches: 82, Mismatches: 12, Indels: 11
0.78 0.11 0.10
Matches are distributed among these distances:
37 17 0.21
38 2 0.02
40 31 0.38
41 32 0.39
ACGTcount: A:0.27, C:0.17, G:0.25, T:0.32
Consensus pattern (39 bp):
GATGAGACACTGGGTGTCAATTACTACTTCGATTTATCT
Found at i:51570864 original size:16 final size:16
Alignment explanation
Indices: 51570809--51570865 Score: 55
Period size: 16 Copynumber: 3.6 Consensus size: 16
51570799 ATGAATTATA
51570809 TATT-CATGAATTGAG
1 TATTGCATGAATTGAG
* * *
51570824 TATGGTATGAAATGATG
1 TATTGCATGAATTGA-G
*
51570841 TA-TACATGAATTGAG
1 TATTGCATGAATTGAG
51570856 TATTGCATGA
1 TATTGCATGA
51570866 CTGATGCCAT
Statistics
Matches: 31, Mismatches: 8, Indels: 5
0.70 0.18 0.11
Matches are distributed among these distances:
15 6 0.19
16 22 0.71
17 3 0.10
ACGTcount: A:0.35, C:0.05, G:0.23, T:0.37
Consensus pattern (16 bp):
TATTGCATGAATTGAG
Found at i:51575959 original size:28 final size:29
Alignment explanation
Indices: 51575905--51575975 Score: 99
Period size: 29 Copynumber: 2.5 Consensus size: 29
51575895 TACTTCATGC
51575905 TAATTTTTTGAATTTTGATGAAGTATTTA
1 TAATTTTTTGAATTTTGATGAAGTATTTA
* **
51575934 TATTTTTTTGAATTTTTTTGAA-TATTTA
1 TAATTTTTTGAATTTTGATGAAGTATTTA
*
51575962 TAATTTTTTAAATT
1 TAATTTTTTGAATT
51575976 ATTTGGTGAC
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
28 18 0.49
29 19 0.51
ACGTcount: A:0.30, C:0.00, G:0.08, T:0.62
Consensus pattern (29 bp):
TAATTTTTTGAATTTTGATGAAGTATTTA
Found at i:51577346 original size:30 final size:30
Alignment explanation
Indices: 51577289--51577347 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
51577279 TTTTTTAATT
*
51577289 TAAAAATATATAATTATTTAAATTTTTTTG
1 TAAAAATATATAATTATTTAAAATTTTTTG
51577319 TAAAAA-ATA-AATTATATTATAAATTTTTT
1 TAAAAATATATAATTAT-TTA-AAATTTTTT
51577348 AAAAATTTAA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
28 6 0.23
29 6 0.23
30 14 0.54
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (30 bp):
TAAAAATATATAATTATTTAAAATTTTTTG
Found at i:51577358 original size:29 final size:28
Alignment explanation
Indices: 51577287--51577358 Score: 76
Period size: 29 Copynumber: 2.5 Consensus size: 28
51577277 AATTTTTTAA
*
51577287 TTTAAAAATATATAATTATTTAAATTTTT
1 TTTAAAAATATA-AATTATTTAAATATTT
51577316 TTGTAAAAA-ATAAATTATATTATAA-ATTT
1 TT-TAAAAATATAAATTAT-TTA-AATATTT
*
51577345 TTTAAAAATTTAAA
1 TTTAAAAATATAAA
51577359 AAATATCAAA
Statistics
Matches: 37, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
28 12 0.32
29 17 0.46
30 8 0.22
ACGTcount: A:0.50, C:0.00, G:0.01, T:0.49
Consensus pattern (28 bp):
TTTAAAAATATAAATTATTTAAATATTT
Found at i:51577546 original size:4 final size:4
Alignment explanation
Indices: 51577537--51577655 Score: 238
Period size: 4 Copynumber: 29.8 Consensus size: 4
51577527 ACATTGTGCC
51577537 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA
51577585 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA
51577633 TTTA TTTA TTTA TTTA TTTA TTT
1 TTTA TTTA TTTA TTTA TTTA TTT
51577656 GAAAGGCTAT
Statistics
Matches: 115, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 115 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (4 bp):
TTTA
Found at i:51582759 original size:20 final size:19
Alignment explanation
Indices: 51582722--51582787 Score: 64
Period size: 20 Copynumber: 3.4 Consensus size: 19
51582712 AGGGTTAGGG
51582722 TTTAAGGTTTTT-TATATTT
1 TTTAA-GTTTTTATATATTT
*
51582741 TTTAAGTTTTCTATATATTC
1 TTTAAGTTTT-TATATATTT
*
51582761 TTTAGATTTTTTATA-ATTT
1 TTTA-AGTTTTTATATATTT
*
51582780 TTTGAGTT
1 TTTAAGTT
51582788 GCAAAGTTAA
Statistics
Matches: 39, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
18 8 0.21
19 12 0.31
20 14 0.36
21 5 0.13
ACGTcount: A:0.23, C:0.03, G:0.09, T:0.65
Consensus pattern (19 bp):
TTTAAGTTTTTATATATTT
Found at i:51584676 original size:66 final size:66
Alignment explanation
Indices: 51584595--51584788 Score: 379
Period size: 66 Copynumber: 2.9 Consensus size: 66
51584585 CCAGAATTGA
51584595 AGATAAATTTGATTTCATTGAGTACTCTTGATTCAAAAGGGTACAAGTACACAGCTGAAAGTGGG
1 AGATAAATTTGATTTCATTGAGTACTCTTGATTCAAAAGGGTACAAGTACACAGCTGAAAGTGGG
51584660 G
66 G
51584661 AGATAAATTTGATTTCATTGAGTACTCTTGATTCAAAAGGGTACAAGTACACAGCTGAAAGTGGG
1 AGATAAATTTGATTTCATTGAGTACTCTTGATTCAAAAGGGTACAAGTACACAGCTGAAAGTGGG
51584726 G
66 G
*
51584727 AGATAAATTTGATTTCATTGAGTACTCTTGATTCAAAAGGGTACAAGTACACAGCTAAAAGT
1 AGATAAATTTGATTTCATTGAGTACTCTTGATTCAAAAGGGTACAAGTACACAGCTGAAAGT
51584789 AGGGTTCTAA
Statistics
Matches: 127, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
66 127 1.00
ACGTcount: A:0.36, C:0.12, G:0.22, T:0.29
Consensus pattern (66 bp):
AGATAAATTTGATTTCATTGAGTACTCTTGATTCAAAAGGGTACAAGTACACAGCTGAAAGTGGG
G
Found at i:51586276 original size:25 final size:25
Alignment explanation
Indices: 51586248--51586311 Score: 60
Period size: 24 Copynumber: 2.6 Consensus size: 25
51586238 GTTAAAGCAC
*
51586248 ATAATTGGGAAGCTCATGTA-AGCCA
1 ATAATTGGGAAGCTCA-GAAGAGCCA
** *
51586273 ATAA-CAGGTAGCTCAGAAGAGCCA
1 ATAATTGGGAAGCTCAGAAGAGCCA
*
51586297 TTAATTGGGAAGCTC
1 ATAATTGGGAAGCTC
51586312 CGGATAACCA
Statistics
Matches: 29, Mismatches: 8, Indels: 4
0.71 0.20 0.10
Matches are distributed among these distances:
23 2 0.07
24 16 0.55
25 11 0.38
ACGTcount: A:0.36, C:0.17, G:0.25, T:0.22
Consensus pattern (25 bp):
ATAATTGGGAAGCTCAGAAGAGCCA
Found at i:51586399 original size:26 final size:25
Alignment explanation
Indices: 51586363--51586435 Score: 83
Period size: 26 Copynumber: 2.8 Consensus size: 25
51586353 GAAGCTCCGG
51586363 AGAGCCATTAATCAGGAAGCTCACAA
1 AGAGCC-TTAATCAGGAAGCTCACAA
**
51586389 AGAGCCTTTAATTGGGAAGCTCACAA
1 AGAGCC-TTAATCAGGAAGCTCACAA
* *
51586415 TGAGCCATATATCAGGAAGCT
1 AGAGCCTTA-ATCAGGAAGCT
51586436 TATAAGAGCT
Statistics
Matches: 39, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
25 2 0.05
26 37 0.95
ACGTcount: A:0.37, C:0.21, G:0.22, T:0.21
Consensus pattern (25 bp):
AGAGCCTTAATCAGGAAGCTCACAA
Found at i:51586444 original size:51 final size:51
Alignment explanation
Indices: 51586249--51586435 Score: 131
Period size: 48 Copynumber: 3.7 Consensus size: 51
51586239 TTAAAGCACA
* * * * * *
51586249 TAATTGGGAAGCTCATGTA-AGCCAATAA-CAGGTAGCTCA-GAAGAGCCAT
1 TAATTGGGAAGCTC-CGAAGAGCCATTAATCAGGAAGCTCACAAAGAGCCTT
* * * ** ** *
51586298 TAATTGGGAAGCTCCGGATAACCA-TATATCAGGAAATTCA-AGCGAGCC-A
1 TAATTGGGAAGCTCCGAAGAGCCATTA-ATCAGGAAGCTCACAAAGAGCCTT
*
51586347 T-ATTGGGAAGCTCCGGAGAGCCATTAATCAGGAAGCTCACAAAGAGCCTT
1 TAATTGGGAAGCTCCGAAGAGCCATTAATCAGGAAGCTCACAAAGAGCCTT
51586397 TAATTGGGAAGCTCAC-AATGAGCCA-TATATCAGGAAGCT
1 TAATTGGGAAGCTC-CGAA-GAGCCATTA-ATCAGGAAGCT
51586436 TATAAGAGCT
Statistics
Matches: 110, Mismatches: 18, Indels: 17
0.76 0.12 0.12
Matches are distributed among these distances:
48 35 0.32
49 28 0.25
50 14 0.13
51 15 0.14
52 18 0.16
ACGTcount: A:0.35, C:0.20, G:0.24, T:0.21
Consensus pattern (51 bp):
TAATTGGGAAGCTCCGAAGAGCCATTAATCAGGAAGCTCACAAAGAGCCTT
Found at i:51588988 original size:15 final size:16
Alignment explanation
Indices: 51588968--51588997 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
51588958 GAAAATTGCC
51588968 AAAATGGG-CTAAATA
1 AAAATGGGACTAAATA
51588983 AAAATGGGACTAAAT
1 AAAATGGGACTAAAT
51588998 TGGAATATCT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.53, C:0.07, G:0.20, T:0.20
Consensus pattern (16 bp):
AAAATGGGACTAAATA
Found at i:51591957 original size:43 final size:43
Alignment explanation
Indices: 51591875--51591957 Score: 121
Period size: 43 Copynumber: 1.9 Consensus size: 43
51591865 ACATGTATCG
* *
51591875 CATCCATTATGAACTCAGACCACTCAACGAGCTTAGATGCTCT
1 CATCCATAATGAACTCAGACCACTCAACGAGCTCAGATGCTCT
** *
51591918 CATCCATAATGAACTTGGACCACTCAACGAGCTCGGATGC
1 CATCCATAATGAACTCAGACCACTCAACGAGCTCAGATGC
51591958 CATATATATC
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
43 35 1.00
ACGTcount: A:0.30, C:0.30, G:0.17, T:0.23
Consensus pattern (43 bp):
CATCCATAATGAACTCAGACCACTCAACGAGCTCAGATGCTCT
Found at i:51598908 original size:5 final size:5
Alignment explanation
Indices: 51598898--51598925 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
51598888 GCTTAGAACC
51598898 TTTTA TTTTA TTTTA TTTTA TTTTA TTT
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTT
51598926 ATCATTAATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (5 bp):
TTTTA
Found at i:51602850 original size:42 final size:42
Alignment explanation
Indices: 51602750--51602860 Score: 134
Period size: 42 Copynumber: 2.6 Consensus size: 42
51602740 ATGGGCAGAG
* * * * *
51602750 ACACGGGCATGTGTCTCAGACGTGTGAGACACATGGCCTAGC
1 ACACGGGCGTGTGTCTTAGCCATGTGAGACACAAGGCCTAGC
* *
51602792 ACACGGGTGTGTGTCTTAGCTATGTGAGACACAAGGCCTAGC
1 ACACGGGCGTGTGTCTTAGCCATGTGAGACACAAGGCCTAGC
*
51602834 -CAACGGGCGTGTGTCTTGGCCATGTGA
1 AC-ACGGGCGTGTGTCTTAGCCATGTGA
51602861 ATCCTGCACC
Statistics
Matches: 58, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
41 1 0.02
42 57 0.98
ACGTcount: A:0.22, C:0.23, G:0.32, T:0.23
Consensus pattern (42 bp):
ACACGGGCGTGTGTCTTAGCCATGTGAGACACAAGGCCTAGC
Found at i:51615271 original size:29 final size:30
Alignment explanation
Indices: 51615215--51615272 Score: 73
Period size: 29 Copynumber: 1.9 Consensus size: 30
51615205 ATTTGAATAA
* *
51615215 ATTTTTAATTTACAAGGATTAAATTGAACCT
1 ATTTTTAA-TTACAAGGACTAAACTGAACCT
*
51615246 ATTTTTAA-TACATGGACTAAACTGAAC
1 ATTTTTAATTACAAGGACTAAACTGAAC
51615273 TTTACATAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 16 0.67
31 8 0.33
ACGTcount: A:0.40, C:0.12, G:0.10, T:0.38
Consensus pattern (30 bp):
ATTTTTAATTACAAGGACTAAACTGAACCT
Found at i:51615577 original size:25 final size:24
Alignment explanation
Indices: 51615548--51615597 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 24
51615538 TTTTTATTTT
*
51615548 AATATTTATATTGA-TATTAAATAAA
1 AATATCTATATT-ATTATTAAA-AAA
51615573 AATATCTATATTATTATTAAAAAA
1 AATATCTATATTATTATTAAAAAA
51615597 A
1 A
51615598 TCAGTTTAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
24 5 0.22
25 18 0.78
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.42
Consensus pattern (24 bp):
AATATCTATATTATTATTAAAAAA
Found at i:51630702 original size:18 final size:19
Alignment explanation
Indices: 51630676--51630729 Score: 51
Period size: 18 Copynumber: 3.0 Consensus size: 19
51630666 AATCAATTGT
*
51630676 TAAACATTA-AAAAACTGA
1 TAAAAATTAGAAAAACTGA
*
51630694 TAAAAATTATAAAAA-TGA
1 TAAAAATTAGAAAAACTGA
**
51630712 CGAAAA-TAGAAAAACTGA
1 TAAAAATTAGAAAAACTGA
51630730 AACCAGTCAT
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
17 7 0.23
18 18 0.60
19 5 0.17
ACGTcount: A:0.63, C:0.07, G:0.09, T:0.20
Consensus pattern (19 bp):
TAAAAATTAGAAAAACTGA
Found at i:51631754 original size:21 final size:21
Alignment explanation
Indices: 51631730--51631779 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
51631720 ATTCTTGTGC
* *
51631730 TTGTTTTTTTTTTTTGAAGTT
1 TTGTTTTTTCTTTTTAAAGTT
*
51631751 TTGTTTTGTCTTTTTAAAGTT
1 TTGTTTTTTCTTTTTAAAGTT
51631772 TT-TTTTTT
1 TTGTTTTTT
51631780 ACGTTAGTTA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
20 5 0.20
21 20 0.80
ACGTcount: A:0.10, C:0.02, G:0.12, T:0.76
Consensus pattern (21 bp):
TTGTTTTTTCTTTTTAAAGTT
Found at i:51637635 original size:27 final size:27
Alignment explanation
Indices: 51637605--51637656 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 27
51637595 TCATGTGAAA
* *
51637605 TTGAATGGCAAATTATTGTTACATGAT
1 TTGAATGGCAAATTACTATTACATGAT
**
51637632 TTGAATGTTAAATTACTATTACATG
1 TTGAATGGCAAATTACTATTACATG
51637657 GGTTGTATGA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 21 1.00
ACGTcount: A:0.35, C:0.08, G:0.15, T:0.42
Consensus pattern (27 bp):
TTGAATGGCAAATTACTATTACATGAT
Found at i:51643627 original size:14 final size:15
Alignment explanation
Indices: 51643608--51643637 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
51643598 AACATGCATA
51643608 AAATAACC-AATTTC
1 AAATAACCAAATTTC
51643622 AAATAACCAAATTTC
1 AAATAACCAAATTTC
51643637 A
1 A
51643638 TTCAACCAGT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 8 0.53
15 7 0.47
ACGTcount: A:0.53, C:0.20, G:0.00, T:0.27
Consensus pattern (15 bp):
AAATAACCAAATTTC
Found at i:51644341 original size:20 final size:20
Alignment explanation
Indices: 51644317--51644366 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
51644307 TGAACCACTC
*
51644317 CATTTACTTTCTTACCA-TT
1 CATTTACTTACTTACCATTT
*
51644336 CTATTTACTTACTTTCCATTT
1 C-ATTTACTTACTTACCATTT
51644357 CATTTACTTA
1 CATTTACTTA
51644367 GCTTTAACTT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
19 1 0.04
20 23 0.85
21 3 0.11
ACGTcount: A:0.22, C:0.24, G:0.00, T:0.54
Consensus pattern (20 bp):
CATTTACTTACTTACCATTT
Found at i:51646674 original size:25 final size:25
Alignment explanation
Indices: 51646592--51646675 Score: 69
Period size: 25 Copynumber: 3.4 Consensus size: 25
51646582 AGGTAACCTA
* * *
51646592 CCACAAAGGCTTCCCAAATAAATTG
1 CCACAAAGGCTTCCCAAGTGACTTG
** * **
51646617 CCACAAAGGCTTTACAGGTGACTCA
1 CCACAAAGGCTTCCCAAGTGACTTG
**
51646642 CCGGAAAGGCTTCCCAAGTGACTTG
1 CCACAAAGGCTTCCCAAGTGACTTG
*
51646667 CCATAAAGG
1 CCACAAAGG
51646676 TTTGGTTTGG
Statistics
Matches: 42, Mismatches: 17, Indels: 0
0.71 0.29 0.00
Matches are distributed among these distances:
25 42 1.00
ACGTcount: A:0.33, C:0.27, G:0.20, T:0.19
Consensus pattern (25 bp):
CCACAAAGGCTTCCCAAGTGACTTG
Found at i:51656187 original size:19 final size:18
Alignment explanation
Indices: 51656155--51656195 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 18
51656145 AATTCGAAAC
*
51656155 AAAATAGAAGATTTTAGA
1 AAAATAGAAAATTTTAGA
*
51656173 AAAATTAGAAAATTTTGGA
1 AAAA-TAGAAAATTTTAGA
51656192 AAAA
1 AAAA
51656196 GGAGTCACAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 4 0.20
19 16 0.80
ACGTcount: A:0.59, C:0.00, G:0.15, T:0.27
Consensus pattern (18 bp):
AAAATAGAAAATTTTAGA
Found at i:51666689 original size:40 final size:40
Alignment explanation
Indices: 51666595--51666739 Score: 193
Period size: 40 Copynumber: 3.6 Consensus size: 40
51666585 TACTCGAATG
*
51666595 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGCGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCT-AGCGACT
*
51666636 ATATCCGGACTAAGAT-CCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAG-TCCCGAAGGCATTTGTGCTAGCGACT
* * * *
51666676 AAATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
* *
51666716 ATATCCGGGTTAAGACCCGAAGGC
1 ATATCCGGGCTAAGTCCCGAAGGC
51666740 CTTGTGCGAG
Statistics
Matches: 92, Mismatches: 10, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
39 1 0.01
40 61 0.66
41 29 0.32
42 1 0.01
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
Found at i:51670479 original size:42 final size:42
Alignment explanation
Indices: 51670383--51670538 Score: 140
Period size: 43 Copynumber: 3.6 Consensus size: 42
51670373 CATACAATTT
* * *
51670383 CAACGTCCCAGACATGGTCTTACATGTAATCAAA-TATCGATGC
1 CAACGTCCCAGACAAGGTCTTACACGAAAT-AAAGTA-CGATGC
*
51670426 C-ACTATCCCAGACAAGGTCTTACACGAAATAAAGTACGATGC
1 CAAC-GTCCCAGACAAGGTCTTACACGAAATAAAGTACGATGC
*
51670468 CAACGTCCCAGACGTA-GTCTTACACGTAAATTATAAGT-CGATGC
1 CAACGTCCCAGAC-AAGGTCTTACACG-AAA-TA-AAGTACGATGC
* * * *
51670512 CAATGTCCCAAACATGGTCCTACACGA
1 CAACGTCCCAGACAAGGTCTTACACGA
51670539 TAACACATAT
Statistics
Matches: 94, Mismatches: 11, Indels: 16
0.78 0.09 0.13
Matches are distributed among these distances:
42 30 0.32
43 32 0.34
44 28 0.30
45 4 0.04
ACGTcount: A:0.34, C:0.27, G:0.17, T:0.22
Consensus pattern (42 bp):
CAACGTCCCAGACAAGGTCTTACACGAAATAAAGTACGATGC
Found at i:51670536 original size:44 final size:41
Alignment explanation
Indices: 51670387--51670538 Score: 151
Period size: 42 Copynumber: 3.6 Consensus size: 41
51670377 CAATTTCAAC
* * * *
51670387 GTCCCAGACATGGTCTTACATGTAATCAAATATCGATGCCACT
1 GTCCCAGACATGGTCTTACACGAAAT-AAA-GTCGATGCCAAT
* * *
51670430 ATCCCAGACAAGGTCTTACACGAAATAAAGTACGATGCCAAC
1 GTCCCAGACATGGTCTTACACGAAATAAAGT-CGATGCCAAT
* *
51670472 GTCCCAGACGTAGTCTTACACGTAAATTATAAGTCGATGCCAAT
1 GTCCCAGACATGGTCTTACACG-AAA-TA-AAGTCGATGCCAAT
* *
51670516 GTCCCAAACATGGTCCTACACGA
1 GTCCCAGACATGGTCTTACACGA
51670539 TAACACATAT
Statistics
Matches: 89, Mismatches: 16, Indels: 8
0.79 0.14 0.07
Matches are distributed among these distances:
41 1 0.01
42 29 0.33
43 26 0.29
44 29 0.33
45 4 0.04
ACGTcount: A:0.34, C:0.26, G:0.17, T:0.23
Consensus pattern (41 bp):
GTCCCAGACATGGTCTTACACGAAATAAAGTCGATGCCAAT
Found at i:51682279 original size:40 final size:40
Alignment explanation
Indices: 51682223--51682441 Score: 286
Period size: 40 Copynumber: 5.5 Consensus size: 40
51682213 TGATTCTTGA
* *
51682223 GGAATTTTATCTGGGCTTAAAGACCCGCAGGCTTCGTGCT
1 GGAATTGTATCCGGGCTTAAAGACCCGCAGGCTTCGTGCT
*
51682263 GGAATTGTATCCGGGCTTAAAGACCTGCAGGCTTCGTGCT
1 GGAATTGTATCCGGGCTTAAAGACCCGCAGGCTTCGTGCT
* * *
51682303 AGAATTGTATCCTGGCTTAAAGACCCGCAGGCTAT-ATGCT
1 GGAATTGTATCCGGGCTTAAAGACCCGCAGGCT-TCGTGCT
* *
51682343 AGAA-TGTTATCCGGGCTTAAAGACCCGCAGACTTCGTGCT
1 GGAATTG-TATCCGGGCTTAAAGACCCGCAGGCTTCGTGCT
51682383 GGAA-TGTTATCCGGGCTTAAAGACCCGCAGGCTTCGTGCT
1 GGAATTG-TATCCGGGCTTAAAGACCCGCAGGCTTCGTGCT
* *
51682423 GGTATTATAT-CGGG-TTAAA
1 GGAATTGTATCCGGGCTTAAA
51682442 TTTCTCGTAG
Statistics
Matches: 161, Mismatches: 14, Indels: 10
0.87 0.08 0.05
Matches are distributed among these distances:
38 5 0.03
39 7 0.04
40 147 0.91
41 2 0.01
ACGTcount: A:0.23, C:0.22, G:0.27, T:0.28
Consensus pattern (40 bp):
GGAATTGTATCCGGGCTTAAAGACCCGCAGGCTTCGTGCT
Found at i:51689960 original size:3 final size:3
Alignment explanation
Indices: 51689952--51689977 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
51689942 TTGAAGAGAA
51689952 AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AA
51689978 CAATTAAAAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:51690119 original size:23 final size:23
Alignment explanation
Indices: 51690072--51690138 Score: 66
Period size: 24 Copynumber: 2.9 Consensus size: 23
51690062 TTGTAATGAT
* *
51690072 AATAGTAAAAAAAC-GAAAGAAAA
1 AATAG-AAAAAAACTAAAATAAAA
51690095 AATAGAAAAAAACTAAAATAGAAA
1 AATAGAAAAAAACTAAAATA-AAA
*
51690119 AATA-AAATAAAATTAAAATA
1 AATAGAAA-AAAACTAAAATA
51690139 TATAAAAATT
Statistics
Matches: 38, Mismatches: 3, Indels: 5
0.83 0.07 0.11
Matches are distributed among these distances:
22 8 0.21
23 12 0.32
24 18 0.47
ACGTcount: A:0.75, C:0.03, G:0.07, T:0.15
Consensus pattern (23 bp):
AATAGAAAAAAACTAAAATAAAA
Found at i:51690119 original size:24 final size:24
Alignment explanation
Indices: 51690092--51690138 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
51690082 AAACGAAAGA
51690092 AAAAATAGAAA-AAAACTAAAATAG
1 AAAAATA-AAATAAAACTAAAATAG
*
51690116 AAAAATAAAATAAAATTAAAATA
1 AAAAATAAAATAAAACTAAAATA
51690139 TATAAAAATT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 3 0.14
24 18 0.86
ACGTcount: A:0.77, C:0.02, G:0.04, T:0.17
Consensus pattern (24 bp):
AAAAATAAAATAAAACTAAAATAG
Found at i:51690145 original size:15 final size:14
Alignment explanation
Indices: 51690125--51690225 Score: 54
Period size: 15 Copynumber: 7.1 Consensus size: 14
51690115 GAAAAATAAA
51690125 ATAAAATTAAAATAT
1 ATAAAATTAAAA-AT
51690140 ATAAAAATTAAAAAT
1 AT-AAAATTAAAAAT
*
51690155 AT-AAATATAAGAAT
1 ATAAAAT-TAAAAAT
*
51690169 A-ATAAATTAATTAAT
1 ATA-AAATTAA-AAAT
51690184 -T--AATTAGTAAAAT
1 ATAAAATTA--AAAAT
51690197 A-AAAA-TAAATAAT
1 ATAAAATTAAA-AAT
51690210 ATAAAAATTAAAAAT
1 AT-AAAATTAAAAAT
51690225 A
1 A
51690226 AAACAAAATA
Statistics
Matches: 68, Mismatches: 3, Indels: 30
0.67 0.03 0.30
Matches are distributed among these distances:
12 7 0.10
13 11 0.16
14 13 0.19
15 23 0.34
16 14 0.21
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (14 bp):
ATAAAATTAAAAAT
Found at i:51690238 original size:22 final size:21
Alignment explanation
Indices: 51690191--51690240 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 21
51690181 AATTAATTAG
* *
51690191 TAAAA-TAAAAATAAATAATA
1 TAAAATTAAAAATAAACAAAA
51690211 TAAAAATTAAAAATAAAACAAAA
1 T-AAAATTAAAAAT-AAACAAAA
51690234 TAAAATT
1 TAAAATT
51690241 GGGGTGTTTA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
20 1 0.04
21 4 0.16
22 13 0.52
23 7 0.28
ACGTcount: A:0.74, C:0.02, G:0.00, T:0.24
Consensus pattern (21 bp):
TAAAATTAAAAATAAACAAAA
Found at i:51694177 original size:30 final size:30
Alignment explanation
Indices: 51694141--51694201 Score: 88
Period size: 30 Copynumber: 2.0 Consensus size: 30
51694131 CACAGACTGG
*
51694141 CACAT-GGTAGTGTGGCCTGCCCGTGTGGAT
1 CACATGGGT-GTGTGGCCTACCCGTGTGGAT
*
51694171 CACATGGGTGTTTGGCCTACCCGTGTGGAT
1 CACATGGGTGTGTGGCCTACCCGTGTGGAT
51694201 C
1 C
51694202 CTGAAAACTC
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
30 25 0.89
31 3 0.11
ACGTcount: A:0.13, C:0.25, G:0.34, T:0.28
Consensus pattern (30 bp):
CACATGGGTGTGTGGCCTACCCGTGTGGAT
Found at i:51698856 original size:21 final size:22
Alignment explanation
Indices: 51698812--51698857 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 22
51698802 GTTAATTTGA
* *
51698812 AATTTTAAGTATTTTTTAAAAT
1 AATTTTAAGTAATTTATAAAAT
*
51698834 AATTTTAAG-AATTTATCAAAT
1 AATTTTAAGTAATTTATAAAAT
51698855 AAT
1 AAT
51698858 GTCCAAGGCA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
21 12 0.57
22 9 0.43
ACGTcount: A:0.46, C:0.02, G:0.04, T:0.48
Consensus pattern (22 bp):
AATTTTAAGTAATTTATAAAAT
Found at i:51699714 original size:58 final size:58
Alignment explanation
Indices: 51699650--51699766 Score: 218
Period size: 58 Copynumber: 2.0 Consensus size: 58
51699640 CACTCTTGAA
51699650 TAATATAACTTATTTTAAATAAAAAAAATGTCA-TTTTTTTATAATTTTTCTAATCGAG
1 TAATATAACTTATTTTAAATAAAAAAAA-GTCATTTTTTTTATAATTTTTCTAATCGAG
51699708 TAATATAACTTATTTTAAATAAAAAAAAGTCATTTTTTTTATAATTTTTCTAATCGAG
1 TAATATAACTTATTTTAAATAAAAAAAAGTCATTTTTTTTATAATTTTTCTAATCGAG
51699766 T
1 T
51699767 TGGTGTCCAA
Statistics
Matches: 58, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
57 4 0.07
58 54 0.93
ACGTcount: A:0.41, C:0.07, G:0.05, T:0.47
Consensus pattern (58 bp):
TAATATAACTTATTTTAAATAAAAAAAAGTCATTTTTTTTATAATTTTTCTAATCGAG
Found at i:51703303 original size:14 final size:13
Alignment explanation
Indices: 51703284--51703320 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
51703274 AAAACATTTT
51703284 TTTTTAATTTAGAG
1 TTTTTAATTTA-AG
*
51703298 TTTTTAAATTAAG
1 TTTTTAATTTAAG
51703311 TTTTTAATTT
1 TTTTTAATTT
51703321 TTATAATTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
13 11 0.52
14 10 0.48
ACGTcount: A:0.30, C:0.00, G:0.08, T:0.62
Consensus pattern (13 bp):
TTTTTAATTTAAG
Found at i:51703312 original size:13 final size:14
Alignment explanation
Indices: 51703284--51703317 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
51703274 AAAACATTTT
*
51703284 TTTTTAATTTAGAG
1 TTTTTAAATTAGAG
51703298 TTTTTAAATTA-AG
1 TTTTTAAATTAGAG
51703311 TTTTTAA
1 TTTTTAA
51703318 TTTTTATAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 9 0.47
14 10 0.53
ACGTcount: A:0.32, C:0.00, G:0.09, T:0.59
Consensus pattern (14 bp):
TTTTTAAATTAGAG
Found at i:51708346 original size:44 final size:42
Alignment explanation
Indices: 51708296--51708453 Score: 139
Period size: 44 Copynumber: 3.7 Consensus size: 42
51708286 GTGTGATTTC
51708296 GTGTAAGACCACGTCTGGGACGTTGGCATCGATTTCATATTTAA
1 GTGTAAGACCACGTCTGGGACGTTGGCATCGATTT-ATA-TTAA
* ** *
51708340 GTGTAAGACCATGTCTGGGACGTCAGCATCGTATTTA-ACTT-C
1 GTGTAAGACCACGTCTGGGACGTTGGCATCG-ATTTATA-TTAA
*
51708382 GTGTAAGACC-CTGTCTAGGACAG-TGGCATCGATATT-TGATTACA
1 GTGTAAGACCAC-GTCTGGGAC-GTTGGCATCGAT-TTAT-ATTA-A
*
51708426 -TGTAAGACCACGTTTGGGACGTTGGCAT
1 GTGTAAGACCACGTCTGGGACGTTGGCAT
51708454 TGTATGATCT
Statistics
Matches: 92, Mismatches: 12, Indels: 21
0.74 0.10 0.17
Matches are distributed among these distances:
41 2 0.02
42 29 0.32
43 27 0.29
44 30 0.33
45 4 0.04
ACGTcount: A:0.25, C:0.19, G:0.26, T:0.30
Consensus pattern (42 bp):
GTGTAAGACCACGTCTGGGACGTTGGCATCGATTTATATTAA
Found at i:51713908 original size:22 final size:23
Alignment explanation
Indices: 51713882--51713933 Score: 70
Period size: 22 Copynumber: 2.3 Consensus size: 23
51713872 TTTTAATTAT
*
51713882 TATTAAATTATATTATAAATTGA
1 TATTAAATTATAATATAAATTGA
* *
51713905 -ATTATATTATAATATAAATTTA
1 TATTAAATTATAATATAAATTGA
51713927 TATTAAA
1 TATTAAA
51713934 CATATATAAT
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
22 19 0.79
23 5 0.21
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (23 bp):
TATTAAATTATAATATAAATTGA
Found at i:51713924 original size:17 final size:17
Alignment explanation
Indices: 51713883--51713931 Score: 64
Period size: 17 Copynumber: 2.8 Consensus size: 17
51713873 TTTAATTATT
51713883 ATTAAATTATATTATAA
1 ATTAAATTATATTATAA
*
51713900 ATTGAATTATATTAT-A
1 ATTAAATTATATTATAA
51713916 ATATAAATTTATATTA
1 AT-TAAA-TTATATTA
51713932 AACATATATA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
16 3 0.11
17 17 0.61
18 8 0.29
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (17 bp):
ATTAAATTATATTATAA
Found at i:51720473 original size:24 final size:24
Alignment explanation
Indices: 51720428--51720473 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
51720418 TTGATCATAT
*
51720428 TTATGTAATTCACTTGTACATACA
1 TTATGTAATTCACTTATACATACA
*
51720452 TTATG-AATTCCACTTATGCATA
1 TTATGTAATT-CACTTATACATA
51720474 ATGATGATAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 4 0.21
24 15 0.79
ACGTcount: A:0.33, C:0.17, G:0.09, T:0.41
Consensus pattern (24 bp):
TTATGTAATTCACTTATACATACA
Found at i:51727274 original size:8 final size:8
Alignment explanation
Indices: 51727261--51727287 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
51727251 ATAACTAAGC
51727261 AAAAGTTT
1 AAAAGTTT
51727269 AAAAGTTT
1 AAAAGTTT
51727277 AAAAGTTT
1 AAAAGTTT
51727285 AAA
1 AAA
51727288 CATACCAAAG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.56, C:0.00, G:0.11, T:0.33
Consensus pattern (8 bp):
AAAAGTTT
Found at i:51730327 original size:68 final size:68
Alignment explanation
Indices: 51730180--51730315 Score: 182
Period size: 68 Copynumber: 2.0 Consensus size: 68
51730170 TTTTGGTCTG
* * ** *
51730180 CCTATTAGACCTTGTAGCCCCCCACATGCAAAGTCCTTGGTATATGCGAACTAGGAACGCGAACT
1 CCTACTAGACCTTGTAGCCCCCCACATGCAAACTCCTTGGTATACACAAACTAGGAACGCGAACT
51730245 TCC
66 TCC
* * * * *
51730248 CCTACTAGACCTTGTAGCCCCCCACATGCAAACTCCTTGGTTTACACAAATTGGGACCGTGAACT
1 CCTACTAGACCTTGTAGCCCCCCACATGCAAACTCCTTGGTATACACAAACTAGGAACGCGAACT
51730313 TCC
66 TCC
51730316 GTTGTGAGAC
Statistics
Matches: 58, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
68 58 1.00
ACGTcount: A:0.26, C:0.32, G:0.18, T:0.24
Consensus pattern (68 bp):
CCTACTAGACCTTGTAGCCCCCCACATGCAAACTCCTTGGTATACACAAACTAGGAACGCGAACT
TCC
Found at i:51730663 original size:14 final size:14
Alignment explanation
Indices: 51730646--51730703 Score: 55
Period size: 14 Copynumber: 3.9 Consensus size: 14
51730636 TAAGATAAAT
51730646 AAAAAATAAAATAC
1 AAAAAATAAAATAC
51730660 AAAAAATAAAATA-
1 AAAAAATAAAATAC
* *
51730673 AAACAGATTCAAAAATGC
1 AAA-A-AAT--AAAATAC
51730691 AAAAAATAAAATA
1 AAAAAATAAAATA
51730704 AATTTAAGAA
Statistics
Matches: 35, Mismatches: 4, Indels: 10
0.71 0.08 0.20
Matches are distributed among these distances:
13 3 0.09
14 19 0.54
15 2 0.06
16 2 0.06
17 6 0.17
18 3 0.09
ACGTcount: A:0.74, C:0.07, G:0.03, T:0.16
Consensus pattern (14 bp):
AAAAAATAAAATAC
Found at i:51731604 original size:23 final size:23
Alignment explanation
Indices: 51731577--51731623 Score: 85
Period size: 23 Copynumber: 2.0 Consensus size: 23
51731567 GCTAGATTTT
*
51731577 TCCTAAATATTATTACTAAATAA
1 TCCTAAATATTATCACTAAATAA
51731600 TCCTAAATATTATCACTAAATAA
1 TCCTAAATATTATCACTAAATAA
51731623 T
1 T
51731624 TCAAATTTTA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.47, C:0.15, G:0.00, T:0.38
Consensus pattern (23 bp):
TCCTAAATATTATCACTAAATAA
Found at i:51738990 original size:23 final size:23
Alignment explanation
Indices: 51738960--51739003 Score: 79
Period size: 23 Copynumber: 1.9 Consensus size: 23
51738950 AGATTTTTCT
*
51738960 TAAATATTATCACTAAGTAATCC
1 TAAATATTATCACTAAATAATCC
51738983 TAAATATTATCACTAAATAAT
1 TAAATATTATCACTAAATAAT
51739004 TCAAAATTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.48, C:0.14, G:0.02, T:0.36
Consensus pattern (23 bp):
TAAATATTATCACTAAATAATCC
Found at i:51739000 original size:13 final size:13
Alignment explanation
Indices: 51738960--51739001 Score: 54
Period size: 13 Copynumber: 3.5 Consensus size: 13
51738950 AGATTTTTCT
51738960 TAAATATTATCAC
1 TAAATATTATCAC
*
51738973 TAAGTA--ATC-C
1 TAAATATTATCAC
51738983 TAAATATTATCAC
1 TAAATATTATCAC
51738996 TAAATA
1 TAAATA
51739002 ATTCAAAATT
Statistics
Matches: 24, Mismatches: 2, Indels: 6
0.75 0.06 0.19
Matches are distributed among these distances:
10 6 0.25
11 3 0.12
12 3 0.12
13 12 0.50
ACGTcount: A:0.48, C:0.14, G:0.02, T:0.36
Consensus pattern (13 bp):
TAAATATTATCAC
Found at i:51739010 original size:23 final size:23
Alignment explanation
Indices: 51738961--51739010 Score: 73
Period size: 23 Copynumber: 2.2 Consensus size: 23
51738951 GATTTTTCTT
* *
51738961 AAATATTATCACTAAGTAATCCT
1 AAATATTATCACTAAATAATCCA
*
51738984 AAATATTATCACTAAATAATTCA
1 AAATATTATCACTAAATAATCCA
51739007 AAAT
1 AAAT
51739011 TTAAAAATTA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.50, C:0.14, G:0.02, T:0.34
Consensus pattern (23 bp):
AAATATTATCACTAAATAATCCA
Found at i:51745319 original size:22 final size:23
Alignment explanation
Indices: 51745291--51745333 Score: 79
Period size: 22 Copynumber: 1.9 Consensus size: 23
51745281 TGACTAAATC
51745291 TGTGGTAGAT-CAAAAGTAACTT
1 TGTGGTAGATACAAAAGTAACTT
51745313 TGTGGTAGATACAAAAGTAAC
1 TGTGGTAGATACAAAAGTAAC
51745334 CCTCTAACTG
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
22 10 0.50
23 10 0.50
ACGTcount: A:0.40, C:0.09, G:0.23, T:0.28
Consensus pattern (23 bp):
TGTGGTAGATACAAAAGTAACTT
Found at i:51745711 original size:8 final size:8
Alignment explanation
Indices: 51745698--51745724 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
51745688 ACCACAAAGC
51745698 AGAGATAA
1 AGAGATAA
51745706 AGAGATAA
1 AGAGATAA
51745714 AGAGATAA
1 AGAGATAA
51745722 AGA
1 AGA
51745725 AAAAGATAAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.63, C:0.00, G:0.26, T:0.11
Consensus pattern (8 bp):
AGAGATAA
Found at i:51752414 original size:29 final size:30
Alignment explanation
Indices: 51752372--51752432 Score: 106
Period size: 29 Copynumber: 2.1 Consensus size: 30
51752362 CTTAACAAGT
51752372 AAATGCCTCTAAAATAAT-AAAAAATTAAC
1 AAATGCCTCTAAAATAATAAAAAAATTAAC
*
51752401 AAATGCCTTTAAAATAATAAAAAAATTAAC
1 AAATGCCTCTAAAATAATAAAAAAATTAAC
51752431 AA
1 AA
51752433 TAAAATAAGT
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
29 17 0.57
30 13 0.43
ACGTcount: A:0.61, C:0.11, G:0.03, T:0.25
Consensus pattern (30 bp):
AAATGCCTCTAAAATAATAAAAAAATTAAC
Found at i:51761196 original size:38 final size:38
Alignment explanation
Indices: 51761145--51761224 Score: 151
Period size: 38 Copynumber: 2.1 Consensus size: 38
51761135 TATTACTTTT
*
51761145 AGGTGGGTGGCCAACAAGGGTGGTGGAGTAGGTGGCCA
1 AGGTGGGTGGCCAAAAAGGGTGGTGGAGTAGGTGGCCA
51761183 AGGTGGGTGGCCAAAAAGGGTGGTGGAGTAGGTGGCCA
1 AGGTGGGTGGCCAAAAAGGGTGGTGGAGTAGGTGGCCA
51761221 AGGT
1 AGGT
51761225 TATTTATTTA
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
38 41 1.00
ACGTcount: A:0.23, C:0.11, G:0.50, T:0.16
Consensus pattern (38 bp):
AGGTGGGTGGCCAAAAAGGGTGGTGGAGTAGGTGGCCA
Found at i:51761233 original size:4 final size:4
Alignment explanation
Indices: 51761224--51761257 Score: 68
Period size: 4 Copynumber: 8.5 Consensus size: 4
51761214 GTGGCCAAGG
51761224 TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TT
1 TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TT
51761258 TGTGTTTGGG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 30 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (4 bp):
TTAT
Found at i:51761539 original size:44 final size:44
Alignment explanation
Indices: 51761484--51762625 Score: 1156
Period size: 44 Copynumber: 26.0 Consensus size: 44
51761474 TGAGTTCTTG
* * * *
51761484 ATCTGCT-TCTTCGATTTGTTCCCCATAAACACAGGGATGCCAA
1 ATCTGCTGTCTTCAACTTGTTCCCTATAAGCACAGGGATGCCAA
* * *
51761527 ATCTGATGTCTTCAACTGGTTCCCTATAAACACAGGGATGCCAA
1 ATCTGCTGTCTTCAACTTGTTCCCTATAAGCACAGGGATGCCAA
* *
51761571 ATCTGCTATCTTCAACTTGTTCCCTATAAGCACAGGGATTCC--
1 ATCTGCTGTCTTCAACTTGTTCCCTATAAGCACAGGGATGCCAA
*** * * * * * *
51761613 ATGCTGAAATCTTCGA-TCTGCTTCACC-GTAAGTACAGGAATGTCAG
1 AT-CTGCTGTCTTCAACT-TG-TTC-CCTATAAGCACAGGGATGCCAA
* * *
51761659 ATCTGCTATCTTCGA-TTCGTTCCCTATAAGCACAGGGATTCC--
1 ATCTGCTGTCTTCAACTT-GTTCCCTATAAGCACAGGGATGCCAA
*** * * * * * *
51761701 ATGCTGAAATCTTCGA-TCTGCTTCACC-GTAAGCACAAGAATGTCAG
1 AT-CTGCTGTCTTCAACT-TG-TTC-CCTATAAGCACAGGGATGCCAA
* * * *
51761747 ATCTGCTATCTTCGA-TCTATTCCCTATAAGTACAGGGATGCCAA
1 ATCTGCTGTCTTCAACT-TGTTCCCTATAAGCACAGGGATGCCAA
* *
51761791 ATCTGCTATTTTCAACTTGTTCCCTATAAGCACAGGGATGCCAA
1 ATCTGCTGTCTTCAACTTGTTCCCTATAAGCACAGGGATGCCAA
*
51761835 ATCTGCTGTTTTCAACTTGTTCCCTATAAGCACAGGGATGCCAA
1 ATCTGCTGTCTTCAACTTGTTCCCTATAAGCACAGGGATGCCAA
*
51761879 ATCTGCTGTTTTCAACTTGTTCCCTATAAGCACAGGGATGCCAA
1 ATCTGCTGTCTTCAACTTGTTCCCTATAAGCACAGGGATGCCAA
*
51761923 ATCTGCTGTTTTCAACTTGTTCCCTATAAGCACAGGGATGCCAA
1 ATCTGCTGTCTTCAACTTGTTCCCTATAAGCACAGGGATGCCAA
*
51761967 ATCTGCTGTTTTCAACTTGTTCCCTATAAGCACAGGGATGCCAA
1 ATCTGCTGTCTTCAACTTGTTCCCTATAAGCACAGGGATGCCAA
*
51762011 ATCTGCTGTTTTCAACTTGTTCCCTATAAGCACAGGGATGCCAA
1 ATCTGCTGTCTTCAACTTGTTCCCTATAAGCACAGGGATGCCAA
*
51762055 ATCTGCTGTTTTCAACTTGTTCCCTATAAGCACAGGGATGCCAA
1 ATCTGCTGTCTTCAACTTGTTCCCTATAAGCACAGGGATGCCAA
*
51762099 ATCTGCTGTTTTCAACTTGTTCCCTATAAGCACAGGGATGCCAA
1 ATCTGCTGTCTTCAACTTGTTCCCTATAAGCACAGGGATGCCAA
*
51762143 ATCTGCTGTTTTCAACTTGTTCCCTATAAGCACAGGGATGCCAA
1 ATCTGCTGTCTTCAACTTGTTCCCTATAAGCACAGGGATGCCAA
* *
51762187 ATCTGCTGTTTTCAACTTGTTCCCTATAAGCACAGGGATGCCAT
1 ATCTGCTGTCTTCAACTTGTTCCCTATAAGCACAGGGATGCCAA
* **** * * * * * * *
51762231 GT-TAAAATCTTCGA-TCTGCTTCACTGTAAGCATAGGAATGTCAG
1 ATCTGCTGTCTTCAACT-TG-TTCCCTATAAGCACAGGGATGCCAA
* *
51762275 ATCTGCTATCTTCAACTTGTTCCCTATAAGCACAGGGATTCC--
1 ATCTGCTGTCTTCAACTTGTTCCCTATAAGCACAGGGATGCCAA
*** * * * * * *
51762317 ATGCTGAAATCTTCGA-TCTGCTT-CATCGTAAGCACAGGAATGTCAG
1 AT-CTGCTGTCTTCAACT-TG-TTCCCT-ATAAGCACAGGGATGCCAA
* * *
51762363 ATCTACTATCTTCGA-TCTGTTCCCTATAAGCACAGGGATGCCAA
1 ATCTGCTGTCTTCAACT-TGTTCCCTATAAGCACAGGGATGCCAA
* *
51762407 ATCTGCTGTTTTCAACTTGTTCCCTATAAGCACAGGGATGCCAT
1 ATCTGCTGTCTTCAACTTGTTCCCTATAAGCACAGGGATGCCAA
* **** * * * * * * *
51762451 GT-TAAAATCTTCGA-TCTGCTTCACTGTAAGCATAGGAATGTCAG
1 ATCTGCTGTCTTCAACT-TG-TTCCCTATAAGCACAGGGATGCCAA
* *
51762495 ATCTGCTATCTTCGA-TCTGTTCCCTATAAGCACAGGGATGCCAA
1 ATCTGCTGTCTTCAACT-TGTTCCCTATAAGCACAGGGATGCCAA
51762539 ATCTGCTGTCTTCAACTTGTTCCCTATAAGCACAGGGATGCCAA
1 ATCTGCTGTCTTCAACTTGTTCCCTATAAGCACAGGGATGCCAA
*
51762583 ATCTGCTGTTTTCAACTTGTTCCCTATAAGCACAGGGATGCCA
1 ATCTGCTGTCTTCAACTTGTTCCCTATAAGCACAGGGATGCCA
51762626 TGCTGAAATC
Statistics
Matches: 948, Mismatches: 118, Indels: 65
0.84 0.10 0.06
Matches are distributed among these distances:
42 10 0.01
43 65 0.07
44 793 0.84
45 73 0.08
46 7 0.01
ACGTcount: A:0.26, C:0.25, G:0.18, T:0.31
Consensus pattern (44 bp):
ATCTGCTGTCTTCAACTTGTTCCCTATAAGCACAGGGATGCCAA
Found at i:51762850 original size:68 final size:68
Alignment explanation
Indices: 51762741--51762927 Score: 277
Period size: 68 Copynumber: 2.8 Consensus size: 68
51762731 CTTCCACTGG
* * * ** *
51762741 AACTTCAAGGAGATCTGCTGTGGCTTTTAGTCGCTCCAATGCCATTTCTGGAAGAAGAGGT-TTG
1 AACTTCAAGGAGATCTGCTGTGGCTTTTAGCCGCTCCAATGCCATTTCAGGAAGAAAAAATCCT-
51762805 CTAA
65 CTAA
*
51762809 AACTTCAAGGAGATCTGTTGTGGCTTTTAGCCGCTCCAATGCCATTTCAGGAAGAAAAAATCCTC
1 AACTTCAAGGAGATCTGCTGTGGCTTTTAGCCGCTCCAATGCCATTTCAGGAAGAAAAAATCCTC
*
51762874 TGA
66 TAA
*
51762877 AACTTCAAGGAGATCTGCTGTGGCTTTTAGCCGCTCCAATGTCATTTCAGG
1 AACTTCAAGGAGATCTGCTGTGGCTTTTAGCCGCTCCAATGCCATTTCAGG
51762928 GAAAAAGAAA
Statistics
Matches: 108, Mismatches: 10, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
68 107 0.99
69 1 0.01
ACGTcount: A:0.26, C:0.21, G:0.23, T:0.30
Consensus pattern (68 bp):
AACTTCAAGGAGATCTGCTGTGGCTTTTAGCCGCTCCAATGCCATTTCAGGAAGAAAAAATCCTC
TAA
Found at i:51764446 original size:6 final size:6
Alignment explanation
Indices: 51764435--51764464 Score: 60
Period size: 6 Copynumber: 5.0 Consensus size: 6
51764425 TGTATTTTTT
51764435 TTTGCC TTTGCC TTTGCC TTTGCC TTTGCC
1 TTTGCC TTTGCC TTTGCC TTTGCC TTTGCC
51764465 ATATAACTCC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.00, C:0.33, G:0.17, T:0.50
Consensus pattern (6 bp):
TTTGCC
Found at i:51767266 original size:19 final size:20
Alignment explanation
Indices: 51767242--51767288 Score: 71
Period size: 19 Copynumber: 2.5 Consensus size: 20
51767232 AATGAAAGTT
51767242 TAATGCAAATGT-TGCAATG
1 TAATGCAAATGTATGCAATG
*
51767261 TAATGCAAATGTATGGAATG
1 TAATGCAAATGTATGCAATG
51767281 -AATGCAAA
1 TAATGCAAA
51767289 AGAAAGGAAG
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
19 20 0.77
20 6 0.23
ACGTcount: A:0.43, C:0.09, G:0.21, T:0.28
Consensus pattern (20 bp):
TAATGCAAATGTATGCAATG
Found at i:51770137 original size:38 final size:38
Alignment explanation
Indices: 51770095--51770181 Score: 147
Period size: 38 Copynumber: 2.3 Consensus size: 38
51770085 TGGGGTGGTT
* *
51770095 TAGGTGGCCTAGGTGGGTGGCCAACAAGGGTGGTGGAG
1 TAGGTGGCCAAGGTGGGTGGCCAAAAAGGGTGGTGGAG
*
51770133 TAGGTGGCCAATGTGGGTGGCCAAAAAGGGTGGTGGAG
1 TAGGTGGCCAAGGTGGGTGGCCAAAAAGGGTGGTGGAG
51770171 TAGGTGGCCAA
1 TAGGTGGCCAA
51770182 AGTTATTTAT
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
38 46 1.00
ACGTcount: A:0.22, C:0.13, G:0.47, T:0.18
Consensus pattern (38 bp):
TAGGTGGCCAAGGTGGGTGGCCAAAAAGGGTGGTGGAG
Found at i:51770808 original size:23 final size:23
Alignment explanation
Indices: 51770778--51770823 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
51770768 ATTATGTTTT
*
51770778 GGTATATTTGTGTTAAATTTATA
1 GGTATATTTGCGTTAAATTTATA
51770801 GGTATATTTGCGTTAAATTTATA
1 GGTATATTTGCGTTAAATTTATA
51770824 TTAATTTTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.30, C:0.02, G:0.17, T:0.50
Consensus pattern (23 bp):
GGTATATTTGCGTTAAATTTATA
Found at i:51782188 original size:15 final size:15
Alignment explanation
Indices: 51782150--51782191 Score: 50
Period size: 16 Copynumber: 2.8 Consensus size: 15
51782140 GTTTGGCTAG
51782150 GAAGGAA-AAAAAAA
1 GAAGGAAGAAAAAAA
* *
51782164 GGAGAAAAGAAAAAAA
1 GAAG-GAAGAAAAAAA
51782180 GAAGGAAGAAAA
1 GAAGGAAGAAAA
51782192 CCCAAATTTT
Statistics
Matches: 22, Mismatches: 4, Indels: 3
0.76 0.14 0.10
Matches are distributed among these distances:
14 3 0.14
15 9 0.41
16 10 0.45
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (15 bp):
GAAGGAAGAAAAAAA
Found at i:51782503 original size:228 final size:227
Alignment explanation
Indices: 51782103--51782911 Score: 1051
Period size: 228 Copynumber: 3.5 Consensus size: 227
51782093 CATTATTAAT
* **
51782103 TGCATAACAAAAATAAAAAGAGGACTAGTGAAAGCCTGTTTGGCTAGGAAGGAAAAAAA-AAGGA
1 TGCATAACAAAAAGAAAAAGAGGACTAGTGAAAGCCTGTTTGGCTAGGAAGGAAAAAAAGAACAA
* * *
51782167 GAAAAG-AAAAAA-A--GAAGGAAGAAAACCCAAATTTTCTAAGAAGCCAAACAAGCTTCCTAGA
66 GAAAAGAAAAAAAGAGGGAAGGAAGAAAACCCAGATTTTCTAGGAAGCCAAACAAGCTTCCTAAA
* ** *
51782228 AGGGCTTGTTCTTTTCCATCTCATTCATAATTTCTCTTGATTTTTCAGTT-ATTGAAGAGGGTTT
131 AGAGCTTGTTCTTTTCCATCTCATTCATGGTTTCTCTTGAGTTTTCAGTTGA-TGAAGAGGGTTT
* *
51782292 TTTTTCTTTT-TCAAAGAACTAAAAAGTACGATGA
195 CTTTTCTTTTCT-AAAGAACTAAAAAATA-GATGA
* * * * *
51782326 TGCAAAACAAAAAGAAAAAGAGGACTGGTGAAAGCTTATTTGGCTAGTAAGGAAAAAAAGAACAA
1 TGCATAACAAAAAGAAAAAGAGGACTAGTGAAAGCCTGTTTGGCTAGGAAGGAAAAAAAGAACAA
* * * *
51782391 GAAAAGAAAAAAAGAGGGAAGAAAGAAAATCCAGATTTTCTAGGAAGCCAAACAAACTGCCTAAA
66 GAAAAGAAAAAAAGAGGGAAGGAAGAAAACCCAGATTTTCTAGGAAGCCAAACAAGCTTCCTAAA
* *
51782456 AGAGCTTGTTCTTTTCCATCTCATTCATGGCTTCTTTTGAGTTTTCAGTTGATGAAG-GAGG-TT
131 AGAGCTTGTTCTTTTCCATCTCATTCATGGTTTCTCTTGAGTTTTCAGTTGATGAAGAG-GGTTT
51782519 CTTTTCTTTTCTAAAGAACTAAAAAATAGATGA
195 CTTTTCTTTTCTAAAGAACTAAAAAATAGATGA
* * * *
51782552 TGCATAACAAAAAGAAAAAGAGGATTGGTGAAAGCCTGTTTGGCTAGCAAGGAAAAAAAAGAACG
1 TGCATAACAAAAAGAAAAAGAGGACTAGTGAAAGCCTGTTTGGCTAGGAAGG-AAAAAAAGAACA
* *
51782617 AGAAAAGAAAAAAACGAGGGAAGGAATAAAACCCAGATTTACTAGGAAGCCAAACAAGCTTCCTA
65 AGAAAAGAAAAAAA-GAGGGAAGGAAGAAAACCCAGATTTTCTAGGAAGCCAAACAAGCTTCCTA
* * * * *
51782682 AAAGAACATGTTCTTTTCCATCTCATTCATGGTTTCTCTTGAGTTTTTAGTTGATGAAAAAGGTT
129 AAAGAGCTTGTTCTTTTCCATCTCATTCATGGTTTCTCTTGAGTTTTCAGTTGATGAAGAGGGTT
*
51782747 TCTTTTCTTTCCTAAAGAACTAAAAAATATGATGA
194 TCTTTTCTTTTCTAAAGAACTAAAAAATA-GATGA
* * **
51782782 TGCATAACAAAAAGAAAAAGAGAACTAGTGAAAGCCTGTTTGGCTGGCGAGAAAAAAAATAAGAT
1 TGCATAACAAAAAGAAAAAGAGGACTAGTGAAAGCCTGTTTGGCTAG-GA-AGGAAAAA-AAGA-
* * * *
51782847 TAAAAAAAGAAAAAAAAAAGAGGGAAGGAAGAAAACTCAGATTTTCTAGGAAGCCAAACAAGCTT
62 -ACAAGAA-AAGAAAAAAAGAGGGAAGGAAGAAAACCCAGATTTTCTAGGAAGCCAAACAAGCTT
51782912 AAGAGAAAAC
Statistics
Matches: 510, Mismatches: 57, Indels: 27
0.86 0.10 0.05
Matches are distributed among these distances:
223 53 0.10
224 9 0.02
225 6 0.01
226 53 0.10
227 52 0.10
228 192 0.38
229 30 0.06
230 48 0.09
231 6 0.01
232 5 0.01
234 47 0.09
235 9 0.02
ACGTcount: A:0.43, C:0.13, G:0.20, T:0.25
Consensus pattern (227 bp):
TGCATAACAAAAAGAAAAAGAGGACTAGTGAAAGCCTGTTTGGCTAGGAAGGAAAAAAAGAACAA
GAAAAGAAAAAAAGAGGGAAGGAAGAAAACCCAGATTTTCTAGGAAGCCAAACAAGCTTCCTAAA
AGAGCTTGTTCTTTTCCATCTCATTCATGGTTTCTCTTGAGTTTTCAGTTGATGAAGAGGGTTTC
TTTTCTTTTCTAAAGAACTAAAAAATAGATGA
Found at i:51783122 original size:5 final size:5
Alignment explanation
Indices: 51783114--51783197 Score: 53
Period size: 6 Copynumber: 15.6 Consensus size: 5
51783104 AAAGAAAATT
** ** *
51783114 AAGAA AAGAA AAGAA AAGAAA AAGTG AAGAA AAG-A GGGAA AATAAA AAGAAA
1 AAGAA AAGAA AAGAA AAG-AA AAGAA AAGAA AAGAA AAGAA AA-GAA AAG-AA
51783166 AAGAAA AAGAAA AAGAAA AAGAAA AAGAA AAG
1 AAG-AA AAG-AA AAG-AA AAG-AA AAGAA AAG
51783198 GAGGTACAAG
Statistics
Matches: 65, Mismatches: 10, Indels: 8
0.78 0.12 0.10
Matches are distributed among these distances:
4 2 0.03
5 25 0.38
6 38 0.58
ACGTcount: A:0.76, C:0.00, G:0.21, T:0.02
Consensus pattern (5 bp):
AAGAA
Found at i:51783166 original size:6 final size:6
Alignment explanation
Indices: 51783152--51783196 Score: 81
Period size: 6 Copynumber: 7.5 Consensus size: 6
51783142 GAAAAGAGGG
*
51783152 AAAATA AAAAGA AAAAGA AAAAGA AAAAGA AAAAGA AAAAGA AAA
1 AAAAGA AAAAGA AAAAGA AAAAGA AAAAGA AAAAGA AAAAGA AAA
51783197 GGAGGTACAA
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 38 1.00
ACGTcount: A:0.84, C:0.00, G:0.13, T:0.02
Consensus pattern (6 bp):
AAAAGA
Found at i:51783172 original size:12 final size:12
Alignment explanation
Indices: 51783117--51783196 Score: 85
Period size: 12 Copynumber: 6.8 Consensus size: 12
51783107 GAAAATTAAG
51783117 AAAAG-AAAAG-
1 AAAAGAAAAAGA
51783127 AAAAGAAAAAG-
1 AAAAGAAAAAGA
** *
51783138 TGAAGAAAAGAGGG
1 AAAAGAAAA-A-GA
*
51783152 AAAATAAAAAGA
1 AAAAGAAAAAGA
51783164 AAAAGAAAAAGA
1 AAAAGAAAAAGA
51783176 AAAAGAAAAAGA
1 AAAAGAAAAAGA
51783188 AAAAGAAAA
1 AAAAGAAAA
51783197 GGAGGTACAA
Statistics
Matches: 59, Mismatches: 7, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
10 5 0.08
11 12 0.20
12 34 0.58
13 2 0.03
14 6 0.10
ACGTcount: A:0.78, C:0.00, G:0.20, T:0.03
Consensus pattern (12 bp):
AAAAGAAAAAGA
Found at i:51797245 original size:35 final size:35
Alignment explanation
Indices: 51797062--51797235 Score: 269
Period size: 35 Copynumber: 5.0 Consensus size: 35
51797052 ATATTAAATG
*
51797062 TTCAATATATCATCACATATGGCTGATTATACAAAA
1 TTCAATATATCATCACATATGGCCGATTATAC-AAA
* *
51797098 TTCAATATATCATCACATATAGCCGAATATACAAA
1 TTCAATATATCATCACATATGGCCGATTATACAAA
* * *
51797133 TTC-ATATACCATCACATATAGCCGAATATACAAA
1 TTCAATATATCATCACATATGGCCGATTATACAAA
*
51797167 TTCAATATATCATCACATATGGTCGATTATACAAA
1 TTCAATATATCATCACATATGGCCGATTATACAAA
51797202 TTCAATATATCATCACATATGGCCGATTATACAA
1 TTCAATATATCATCACATATGGCCGATTATACAA
51797236 GGTTCATATA
Statistics
Matches: 128, Mismatches: 9, Indels: 3
0.91 0.06 0.02
Matches are distributed among these distances:
34 33 0.26
35 66 0.52
36 29 0.23
ACGTcount: A:0.42, C:0.20, G:0.07, T:0.31
Consensus pattern (35 bp):
TTCAATATATCATCACATATGGCCGATTATACAAA
Found at i:51799786 original size:9 final size:9
Alignment explanation
Indices: 51799772--51799797 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
51799762 TAAGTGACAT
51799772 GAAAGTTCC
1 GAAAGTTCC
51799781 GAAAGTTCC
1 GAAAGTTCC
51799790 GAAAGTTC
1 GAAAGTTC
51799798 TCGGTTTAGT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.35, C:0.19, G:0.23, T:0.23
Consensus pattern (9 bp):
GAAAGTTCC
Found at i:51801828 original size:22 final size:20
Alignment explanation
Indices: 51801800--51801869 Score: 95
Period size: 20 Copynumber: 3.4 Consensus size: 20
51801790 AAATACTAAC
*
51801800 AGAGGCACCGTAGTGCAAATAT
1 AGAGGCACCGAAGTGC-AA-AT
*
51801822 AGAGGCACCGAAGTGCAAAC
1 AGAGGCACCGAAGTGCAAAT
*
51801842 AGAGGCATCGAAGTGCAAAT
1 AGAGGCACCGAAGTGCAAAT
51801862 AGAGGCAC
1 AGAGGCAC
51801870 TTCTTATTTT
Statistics
Matches: 43, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
20 26 0.60
21 2 0.05
22 15 0.35
ACGTcount: A:0.39, C:0.20, G:0.30, T:0.11
Consensus pattern (20 bp):
AGAGGCACCGAAGTGCAAAT
Found at i:51806807 original size:14 final size:14
Alignment explanation
Indices: 51806784--51806822 Score: 53
Period size: 13 Copynumber: 2.9 Consensus size: 14
51806774 AGATAGGAGT
*
51806784 ACATATAAAACATA
1 ACATAAAAAACATA
51806798 ACATAAAAAA-ATA
1 ACATAAAAAACATA
*
51806811 ACCTAAAAAACA
1 ACATAAAAAACA
51806823 AAGTCTTAGA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
13 12 0.55
14 10 0.45
ACGTcount: A:0.69, C:0.15, G:0.00, T:0.15
Consensus pattern (14 bp):
ACATAAAAAACATA
Found at i:51809630 original size:18 final size:18
Alignment explanation
Indices: 51809607--51809641 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
51809597 TTGTGGCTTA
51809607 GGACACGCCCGTGCCTTT
1 GGACACGCCCGTGCCTTT
*
51809625 GGACACGCTCGTGCCTT
1 GGACACGCCCGTGCCTT
51809642 GAGCCCATGT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.11, C:0.37, G:0.29, T:0.23
Consensus pattern (18 bp):
GGACACGCCCGTGCCTTT
Found at i:51822516 original size:27 final size:27
Alignment explanation
Indices: 51822486--51822584 Score: 117
Period size: 27 Copynumber: 3.7 Consensus size: 27
51822476 CTAGTTTGAT
* * *
51822486 AAACCAACTGGCGAACCTTAGCTCACC
1 AAACCAACTGGCAAACCCTAGCTCGCC
* *
51822513 AAACCAACTGGCAAACCCCAGCTTGCC
1 AAACCAACTGGCAAACCCTAGCTCGCC
*
51822540 AAACCAACTGGTAAACCCTAGCTCGCC
1 AAACCAACTGGCAAACCCTAGCTCGCC
* * *
51822567 AAACGAACTAGCGAACCC
1 AAACCAACTGGCAAACCC
51822585 AACTTGTAAT
Statistics
Matches: 60, Mismatches: 12, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 60 1.00
ACGTcount: A:0.35, C:0.37, G:0.15, T:0.12
Consensus pattern (27 bp):
AAACCAACTGGCAAACCCTAGCTCGCC
Found at i:51827502 original size:33 final size:33
Alignment explanation
Indices: 51827460--51827526 Score: 134
Period size: 33 Copynumber: 2.0 Consensus size: 33
51827450 TCATACATAG
51827460 TCATGAATTCATTACTTTCACATTTCTTTTGCA
1 TCATGAATTCATTACTTTCACATTTCTTTTGCA
51827493 TCATGAATTCATTACTTTCACATTTCTTTTGCA
1 TCATGAATTCATTACTTTCACATTTCTTTTGCA
51827526 T
1 T
51827527 GATCAACATT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.24, C:0.21, G:0.06, T:0.49
Consensus pattern (33 bp):
TCATGAATTCATTACTTTCACATTTCTTTTGCA
Found at i:51832291 original size:16 final size:16
Alignment explanation
Indices: 51832270--51832302 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
51832260 ATGTAACGCC
*
51832270 CCAAAAATCCCGAAAT
1 CCAAAAATCCCAAAAT
51832286 CCAAAAATCCCAAAAT
1 CCAAAAATCCCAAAAT
51832302 C
1 C
51832303 TTGAATTTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.52, C:0.33, G:0.03, T:0.12
Consensus pattern (16 bp):
CCAAAAATCCCAAAAT
Found at i:51833567 original size:15 final size:16
Alignment explanation
Indices: 51833547--51833583 Score: 58
Period size: 15 Copynumber: 2.4 Consensus size: 16
51833537 CCAAAAAGTT
51833547 GAAAAGTCGAAA-ACC
1 GAAAAGTCGAAATACC
*
51833562 GAAAAGTCGAAATGCC
1 GAAAAGTCGAAATACC
51833578 GAAAAG
1 GAAAAG
51833584 ACAAAAGTTG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
15 12 0.60
16 8 0.40
ACGTcount: A:0.51, C:0.16, G:0.24, T:0.08
Consensus pattern (16 bp):
GAAAAGTCGAAATACC
Found at i:51833731 original size:18 final size:19
Alignment explanation
Indices: 51833686--51833733 Score: 62
Period size: 19 Copynumber: 2.6 Consensus size: 19
51833676 ACTTGGGTTT
* *
51833686 AGAATTGGCCAAATGGGCC
1 AGAATGGGCTAAATGGGCC
51833705 AGAATGGGCTAAATGGGCC
1 AGAATGGGCTAAATGGGCC
*
51833724 TG-ATGGGCTA
1 AGAATGGGCTA
51833734 TTGGGCCCAT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
18 8 0.31
19 18 0.69
ACGTcount: A:0.29, C:0.17, G:0.35, T:0.19
Consensus pattern (19 bp):
AGAATGGGCTAAATGGGCC
Found at i:51833855 original size:29 final size:27
Alignment explanation
Indices: 51833808--51833919 Score: 91
Period size: 29 Copynumber: 4.0 Consensus size: 27
51833798 TGAGTATAAT
*
51833808 ATGATTTGGGCCTAATGGGCCATATGA
1 ATGAATTGGGCCTAATGGGCCATATGA
* *
51833835 AGGTGAATTGGGCCTAGTGGGCCATAAGAA
1 A--TGAATTGGGCCTAATGGGCCATATG-A
* * *
51833865 TATGAATTAGGCCAAATGGGCCATTTGA
1 -ATGAATTGGGCCTAATGGGCCATATGA
* *
51833893 AT-AAGGTTGGGCCTAGTGGGCTATATG
1 ATGAA--TTGGGCCTAATGGGCCATATG
51833920 CATGTATGTA
Statistics
Matches: 66, Mismatches: 13, Indels: 11
0.73 0.14 0.12
Matches are distributed among these distances:
26 2 0.03
27 3 0.05
28 17 0.26
29 42 0.64
30 1 0.02
31 1 0.02
ACGTcount: A:0.28, C:0.13, G:0.32, T:0.27
Consensus pattern (27 bp):
ATGAATTGGGCCTAATGGGCCATATGA
Found at i:51844008 original size:12 final size:12
Alignment explanation
Indices: 51843991--51844015 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
51843981 ATGGCTTTGG
51843991 AAGTTGAATGAT
1 AAGTTGAATGAT
51844003 AAGTTGAATGAT
1 AAGTTGAATGAT
51844015 A
1 A
51844016 TTTTACTATT
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:0.44, C:0.00, G:0.24, T:0.32
Consensus pattern (12 bp):
AAGTTGAATGAT
Found at i:51846182 original size:46 final size:46
Alignment explanation
Indices: 51846115--51846234 Score: 168
Period size: 46 Copynumber: 2.6 Consensus size: 46
51846105 CCCATAAGCG
* * * *
51846115 AACTCGGACTCAACTCAACGAGCTCGGGCATTCGGATCTATGAGTA
1 AACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATGAGTA
* * *
51846161 AACTCAGACTCAACTCAACGAGTTCGGACATTTGCATCCATGAGTG
1 AACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATGAGTA
*
51846207 AACTTGGACTCAACTCAACGAGTTCGGA
1 AACTCGGACTCAACTCAACGAGTTCGGA
51846235 TGCTCAACCA
Statistics
Matches: 65, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
46 65 1.00
ACGTcount: A:0.30, C:0.26, G:0.22, T:0.23
Consensus pattern (46 bp):
AACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATGAGTA
Found at i:51851764 original size:30 final size:29
Alignment explanation
Indices: 51851728--51851850 Score: 138
Period size: 30 Copynumber: 4.1 Consensus size: 29
51851718 AAGAAACATT
* * *
51851728 ATCAGAATTGGAACCAAAATGAGAATCAGA
1 ATCAGAATTGTAA-CAGAATCAGAATCAGA
*
51851758 ATCAGAATCAGTAACAGAATCAGAATCAGA
1 ATCAGAAT-TGTAACAGAATCAGAATCAGA
*
51851788 ATCAGTATTAGTAACAGAATCAGAATCAGA
1 ATCAGAATT-GTAACAGAATCAGAATCAGA
* *
51851818 ATCAGAATTACGTGACAGAATCAGAACCAGA
1 ATCAGAATT--GTAACAGAATCAGAATCAGA
51851849 AT
1 AT
51851851 GTGAATGCAA
Statistics
Matches: 80, Mismatches: 10, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
30 57 0.71
31 23 0.29
ACGTcount: A:0.48, C:0.15, G:0.18, T:0.19
Consensus pattern (29 bp):
ATCAGAATTGTAACAGAATCAGAATCAGA
Found at i:51851843 original size:6 final size:6
Alignment explanation
Indices: 51851749--51851825 Score: 104
Period size: 6 Copynumber: 12.8 Consensus size: 6
51851739 AACCAAAATG
* *
51851749 AGAATC AGAATC AGAATC AGTAA-C AGAATC AGAATC AGAATC AGTATT
1 AGAATC AGAATC AGAATC AG-AATC AGAATC AGAATC AGAATC AGAATC
51851797 AGTAA-C AGAATC AGAATC AGAATC AGAAT
1 AG-AATC AGAATC AGAATC AGAATC AGAAT
51851826 TACGTGACAG
Statistics
Matches: 63, Mismatches: 4, Indels: 8
0.84 0.05 0.11
Matches are distributed among these distances:
5 4 0.06
6 56 0.89
7 3 0.05
ACGTcount: A:0.49, C:0.14, G:0.17, T:0.19
Consensus pattern (6 bp):
AGAATC
Found at i:51852222 original size:27 final size:27
Alignment explanation
Indices: 51852171--51852222 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
51852161 AGTCGTCAAC
*
51852171 AAATATGTTAGGCACATAGCTATAGGT
1 AAATATGTTAGGCACATAGCCATAGGT
*
51852198 AAATATGTTTGGCACGA-AGCCATAG
1 AAATATGTTAGGCAC-ATAGCCATAG
51852223 TCAAGATGAC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
27 21 0.95
28 1 0.05
ACGTcount: A:0.37, C:0.13, G:0.23, T:0.27
Consensus pattern (27 bp):
AAATATGTTAGGCACATAGCCATAGGT
Found at i:51852431 original size:27 final size:26
Alignment explanation
Indices: 51852352--51852434 Score: 112
Period size: 27 Copynumber: 3.1 Consensus size: 26
51852342 TCGATCGGTC
* * *
51852352 AACAGATATTGTGACAGAGTCACCAA
1 AACAGATATTGTGGCAGAGCCACCAG
51852378 ATACAGATATTGTGGCAGAGCCACCAG
1 A-ACAGATATTGTGGCAGAGCCACCAG
*
51852405 AACAGATATTTGTGGCATAGCCACCAG
1 AACAGATA-TTGTGGCAGAGCCACCAG
51852432 AAC
1 AAC
51852435 GCTTCCTCCG
Statistics
Matches: 51, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
26 8 0.16
27 43 0.84
ACGTcount: A:0.37, C:0.22, G:0.22, T:0.19
Consensus pattern (26 bp):
AACAGATATTGTGGCAGAGCCACCAG
Found at i:51852828 original size:27 final size:27
Alignment explanation
Indices: 51852633--51852828 Score: 212
Period size: 27 Copynumber: 7.3 Consensus size: 27
51852623 GGGGCAAAAT
* * *
51852633 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
51852660 GATAATTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
51852687 GGTATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * * *
51852714 GATAATTCTACCCTATAGGGGTATTTT
1 GGTAATTCTACCCTACAAGGGTATTTC
* * *
51852741 GGTAATTCTATCCTATAAGGGTATTTT
1 GGTAATTCTACCCTACAAGGGTATTTC
* * * * *
51852768 AGTAATTTTACCCCATAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
51852795 GGAAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
51852822 AGTAATT
1 GGTAATT
51852829 TCACAATCAA
Statistics
Matches: 142, Mismatches: 27, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 142 1.00
ACGTcount: A:0.27, C:0.19, G:0.18, T:0.36
Consensus pattern (27 bp):
GGTAATTCTACCCTACAAGGGTATTTC
Found at i:51852863 original size:27 final size:27
Alignment explanation
Indices: 51852833--51853134 Score: 313
Period size: 27 Copynumber: 11.2 Consensus size: 27
51852823 GTAATTTCAC
* *
51852833 AATCAAGGGTAAAACGGTAATTCTAAA
1 AATCGAGGGTAAAACGGTAATTCTATA
* * *
51852860 AATCGAGGGTAAAACGATAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTCTATA
* *
51852887 AA-CTGAGGGTAAACCAGTAATTCTATA
1 AATC-GAGGGTAAAACGGTAATTCTATA
* * * *
51852914 AATCAAGGGTAAAACAGTAATTTTACA
1 AATCGAGGGTAAAACGGTAATTCTATA
51852941 AATCGAGGGTAAAACGGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTATA
* *
51852968 AATCGAGGGTAAAACAGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTATA
*
51852995 AA-CTGAGGGTAAAACGGTAATTCTGTA
1 AATC-GAGGGTAAAACGGTAATTCTATA
** *
51853022 AATCGAGGGTAAAATAGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTATA
* * * *
51853049 AA-CTGGGGGTAAAATGGTAATTTTGTA
1 AATC-GAGGGTAAAACGGTAATTCTATA
* *
51853076 AATCGAGGGTAAAACGGTAATTTTAAA
1 AATCGAGGGTAAAACGGTAATTCTATA
** * *
51853103 AATTAAGGGTAAAACAGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTATA
51853130 AATCG
1 AATCG
51853135 GGAGTACTTT
Statistics
Matches: 231, Mismatches: 38, Indels: 12
0.82 0.14 0.04
Matches are distributed among these distances:
26 3 0.01
27 225 0.97
28 3 0.01
ACGTcount: A:0.42, C:0.10, G:0.22, T:0.27
Consensus pattern (27 bp):
AATCGAGGGTAAAACGGTAATTCTATA
Found at i:51852910 original size:54 final size:54
Alignment explanation
Indices: 51852838--51853134 Score: 373
Period size: 54 Copynumber: 5.5 Consensus size: 54
51852828 TTCACAATCA
*
51852838 AGGGTAAAACGGTAATTCTAAAAATCGAGGGTAAAAC-GATAATTTTGTAAACTG
1 AGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAACAG-TAATTTTGTAAACTG
* * * **
51852892 AGGGTAAACCAGTAATTCTATAAATCAAGGGTAAAACAGTAATTTTACAAA-TCG
1 AGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAACAGTAATTTTGTAAACT-G
*
51852946 AGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAACAGTAATTCTGTAAACTG
1 AGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAACAGTAATTTTGTAAACTG
* * *
51853000 AGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAATAGTAATTCTGTAAACTG
1 AGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAACAGTAATTTTGTAAACTG
* * * * * ** * *
51853054 GGGGTAAAATGGTAATTTTGTAAATCGAGGGTAAAACGGTAATTTTAAAAATTA
1 AGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAACAGTAATTTTGTAAACTG
* *
51853108 AGGGTAAAACAGTAATTCTGTAAATCG
1 AGGGTAAAACGGTAATTCTATAAATCG
51853135 GGAGTACTTT
Statistics
Matches: 212, Mismatches: 28, Indels: 6
0.86 0.11 0.02
Matches are distributed among these distances:
53 1 0.00
54 209 0.99
55 2 0.01
ACGTcount: A:0.41, C:0.09, G:0.22, T:0.27
Consensus pattern (54 bp):
AGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAACAGTAATTTTGTAAACTG
Found at i:51853153 original size:81 final size:81
Alignment explanation
Indices: 51852833--51853131 Score: 370
Period size: 81 Copynumber: 3.7 Consensus size: 81
51852823 GTAATTTCAC
*
51852833 AATCAAGGGTAAAACGGTAATTCTAAAAATCGAGGGTAAAAC-GATAATTTTGTAAACTGAGGGT
1 AATCAAGGGTAAAACGGTAATTCTAAAAATCGAGGGTAAAACAG-TAATTCTGTAAACTGAGGGT
* *
51852897 AAACCAGTAATTCTATA
65 AAAACAGTAATTCTGTA
* * * * *
51852914 AATCAAGGGTAAAACAGTAATTTTACAAATCGAGGGTAAAACGGTAATTCTATAAA-TCGAGGGT
1 AATCAAGGGTAAAACGGTAATTCTAAAAATCGAGGGTAAAACAGTAATTCTGTAAACT-GAGGGT
51852978 AAAACAGTAATTCTGTA
65 AAAACAGTAATTCTGTA
* ** * *
51852995 AA-CTGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAATAGTAATTCTGTAAACTGGGGGT
1 AATC-AAGGGTAAAACGGTAATTCTAAAAATCGAGGGTAAAACAGTAATTCTGTAAACTGAGGGT
** *
51853059 AAAATGGTAATTTTGTA
65 AAAACAGTAATTCTGTA
* * **
51853076 AATCGAGGGTAAAACGGTAATTTTAAAAATTAAGGGTAAAACAGTAATTCTGTAAA
1 AATCAAGGGTAAAACGGTAATTCTAAAAATCGAGGGTAAAACAGTAATTCTGTAAA
51853132 TCGGGAGTAC
Statistics
Matches: 188, Mismatches: 25, Indels: 10
0.84 0.11 0.04
Matches are distributed among these distances:
80 2 0.01
81 183 0.97
82 3 0.02
ACGTcount: A:0.42, C:0.09, G:0.21, T:0.27
Consensus pattern (81 bp):
AATCAAGGGTAAAACGGTAATTCTAAAAATCGAGGGTAAAACAGTAATTCTGTAAACTGAGGGTA
AAACAGTAATTCTGTA
Found at i:51859011 original size:27 final size:27
Alignment explanation
Indices: 51858981--51859037 Score: 96
Period size: 27 Copynumber: 2.1 Consensus size: 27
51858971 ATACATCTCA
*
51858981 TAGGGGCATATCAGTCATTTTACCATG
1 TAGGGGAATATCAGTCATTTTACCATG
*
51859008 TAGGGGAATTTCAGTCATTTTACCATG
1 TAGGGGAATATCAGTCATTTTACCATG
51859035 TAG
1 TAG
51859038 AGGGTCTAGG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.26, C:0.16, G:0.23, T:0.35
Consensus pattern (27 bp):
TAGGGGAATATCAGTCATTTTACCATG
Found at i:51863786 original size:42 final size:42
Alignment explanation
Indices: 51863727--51863848 Score: 147
Period size: 43 Copynumber: 2.9 Consensus size: 42
51863717 TAGGGTGAGT
*
51863727 TGAGATTAT-GTGTAAGACCATATCTGGGATATGGCATCGATA
1 TGAGATT-TCGTGTAAGACCATATCTGGGATATGGCATCGAAA
* * * *
51863769 TGAGATTTCGTGTAAGACCATAGCTAGGCTATTGGCATTGAAA
1 TGAGATTTCGTGTAAGACCATATCTGGGATA-TGGCATCGAAA
* * *
51863812 TGAGATCTCATGTAAGACCATATTTGGGATATGGCAT
1 TGAGATTTCGTGTAAGACCATATCTGGGATATGGCAT
51863849 TGGTATGGTG
Statistics
Matches: 67, Mismatches: 11, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
41 1 0.01
42 32 0.48
43 34 0.51
ACGTcount: A:0.30, C:0.13, G:0.25, T:0.31
Consensus pattern (42 bp):
TGAGATTTCGTGTAAGACCATATCTGGGATATGGCATCGAAA
Found at i:51863963 original size:20 final size:20
Alignment explanation
Indices: 51863931--51863977 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
51863921 CTGCAATGTT
*
51863931 TAAGTTGTGAAAGACTATAG
1 TAAGTTGTCAAAGACTATAG
* *
51863951 TATGTTGTCAAAGATTATAG
1 TAAGTTGTCAAAGACTATAG
51863971 TAAGTTG
1 TAAGTTG
51863978 CAAGTTGGTA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.36, C:0.04, G:0.23, T:0.36
Consensus pattern (20 bp):
TAAGTTGTCAAAGACTATAG
Found at i:51867734 original size:29 final size:29
Alignment explanation
Indices: 51867687--51867761 Score: 96
Period size: 29 Copynumber: 2.6 Consensus size: 29
51867677 AATAATATTC
*
51867687 ATATGGCCCATTAGGCCCAAATCACCTGT
1 ATATGGCCCATTAGGCCCAAATCACATGT
* ** *
51867716 ATATGGCCTATTATTCCCAAATCACATTT
1 ATATGGCCCATTAGGCCCAAATCACATGT
*
51867745 ATATGTCCCATTAGGCC
1 ATATGGCCCATTAGGCC
51867762 TAGTCACATT
Statistics
Matches: 37, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
29 37 1.00
ACGTcount: A:0.28, C:0.28, G:0.13, T:0.31
Consensus pattern (29 bp):
ATATGGCCCATTAGGCCCAAATCACATGT
Found at i:51868039 original size:16 final size:16
Alignment explanation
Indices: 51868008--51868038 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
51867998 TCATCGTTTC
51868008 GGCTTTTCGGCATTTT
1 GGCTTTTCGGCATTTT
51868024 GGCTTTTCGG-ATTTT
1 GGCTTTTCGGCATTTT
51868039 TCCTATACAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 5 0.33
16 10 0.67
ACGTcount: A:0.06, C:0.16, G:0.26, T:0.52
Consensus pattern (16 bp):
GGCTTTTCGGCATTTT
Found at i:51869130 original size:17 final size:16
Alignment explanation
Indices: 51869108--51869146 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
51869098 ACAAAGAAAG
51869108 TTTGGGATTTCAAGATT
1 TTTGGG-TTTCAAGATT
**
51869125 TTTGGGTTTCGGGATT
1 TTTGGGTTTCAAGATT
51869141 TTTGGG
1 TTTGGG
51869147 GCATTACACA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
16 14 0.70
17 6 0.30
ACGTcount: A:0.13, C:0.05, G:0.33, T:0.49
Consensus pattern (16 bp):
TTTGGGTTTCAAGATT
Found at i:51870081 original size:96 final size:96
Alignment explanation
Indices: 51869912--51870098 Score: 302
Period size: 96 Copynumber: 1.9 Consensus size: 96
51869902 TCCGAGGAAG
* * * * *
51869912 TCTGTAATCGAAGGGAATGATAGAGTAAACAAGGAGCCTAAGAAGCTTGGTTTGAGCAAGGGAAG
1 TCTGTAATCAAAGGGAATGATAGAGGAAACAAGGAGCCCAAGAAGCTTGGCTTGAGCAAGGGAAA
51869977 AGCAGAAGCCAAGAGGGAAAAGAGGAACACA
66 AGCAGAAGCCAAGAGGGAAAAGAGGAACACA
*
51870008 TCTGTCATCAAAGGGAATGATAGAGGAAACAAGGAGCCCAAGAAGCTTGGCTTGAGCAAGGGAAA
1 TCTGTAATCAAAGGGAATGATAGAGGAAACAAGGAGCCCAAGAAGCTTGGCTTGAGCAAGGGAAA
* *
51870073 AGCCGAAGCCAAGAGGGCAAAGAGGA
66 AGCAGAAGCCAAGAGGGAAAAGAGGA
51870099 GTAAAAAGAA
Statistics
Matches: 83, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
96 83 1.00
ACGTcount: A:0.41, C:0.14, G:0.33, T:0.12
Consensus pattern (96 bp):
TCTGTAATCAAAGGGAATGATAGAGGAAACAAGGAGCCCAAGAAGCTTGGCTTGAGCAAGGGAAA
AGCAGAAGCCAAGAGGGAAAAGAGGAACACA
Found at i:51883834 original size:40 final size:40
Alignment explanation
Indices: 51883632--51883820 Score: 308
Period size: 40 Copynumber: 4.7 Consensus size: 40
51883622 TATTCGGATG
* **
51883632 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCTAGAGACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
51883672 A-AATTCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATAA-CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
51883712 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
51883752 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
51883792 ATAACCAGGCTAAGTCCCGAAGGCATTTG
1 ATAACCGGGCTAAGTCCCGAAGGCATTTG
51883821 AGCAAGTAGC
Statistics
Matches: 139, Mismatches: 8, Indels: 4
0.92 0.05 0.03
Matches are distributed among these distances:
39 2 0.01
40 136 0.98
41 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
Found at i:51883834 original size:80 final size:80
Alignment explanation
Indices: 51883632--51883853 Score: 308
Period size: 80 Copynumber: 2.8 Consensus size: 80
51883622 TATTCGGATG
* *
51883632 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCTAG-AGACTA-AATTCGGGCTAAGTCCCGAAGG
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTAG-CTATAA-CCGGGCTAAGTCCCGAAGG
51883695 CATTTGTGCGAGTTACT
64 CATTTGTGCGAGTTACT
* *
51883712 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAACCGGGCTAAGTCCCGAAGGC
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCAAG-TAGCTATAACCGGGCTAAGTCCCGAAGGC
51883776 ATTTGTGCGAGTTACT
65 ATTTGTGCGAGTTACT
* * * * *
51883792 ATAACCAGGCTAAGTCCCGAAGGCATTTGAGCAAGTAGCTATATCC-GGCTAAATTCCGAAGG
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTAGCTATAACCGGGCTAAGTCCCGAAGG
51883854 TACTTGGTTT
Statistics
Matches: 128, Mismatches: 10, Indels: 9
0.87 0.07 0.06
Matches are distributed among these distances:
79 16 0.12
80 109 0.85
81 2 0.02
82 1 0.01
ACGTcount: A:0.27, C:0.22, G:0.27, T:0.24
Consensus pattern (80 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTAGCTATAACCGGGCTAAGTCCCGAAGGCA
TTTGTGCGAGTTACT
Found at i:51893218 original size:40 final size:40
Alignment explanation
Indices: 51893124--51893268 Score: 193
Period size: 40 Copynumber: 3.6 Consensus size: 40
51893114 TACTCGAATG
*
51893124 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGCGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCT-AGCGACT
* *
51893165 ACATCCGGACTAAGAT-CCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAG-TCCCGAAGGCATTTGTGCTAGCGACT
* * *
51893205 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
* *
51893245 ATATCCGGGTTAAGACCCGAAGGC
1 ATATCCGGGCTAAGTCCCGAAGGC
51893269 CTTGTGCGAG
Statistics
Matches: 92, Mismatches: 10, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
39 1 0.01
40 62 0.67
41 28 0.30
42 1 0.01
ACGTcount: A:0.26, C:0.25, G:0.26, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
Found at i:51900661 original size:40 final size:40
Alignment explanation
Indices: 51900567--51900711 Score: 193
Period size: 40 Copynumber: 3.6 Consensus size: 40
51900557 TACTCGAATG
*
51900567 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGCGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCT-AGCGACT
* *
51900608 ACATCCGGACTAAGAT-CCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAG-TCCCGAAGGCATTTGTGCTAGCGACT
* * *
51900648 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
* *
51900688 ATATCCGGGTTAAGACCCGAAGGC
1 ATATCCGGGCTAAGTCCCGAAGGC
51900712 CTTGTGCGAG
Statistics
Matches: 92, Mismatches: 10, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
39 1 0.01
40 62 0.67
41 28 0.30
42 1 0.01
ACGTcount: A:0.26, C:0.25, G:0.26, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
Done.