Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D06
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: 68668488
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1920000 characters in sequence are not A, C, G, or T
File 34 of 230
Found at i:9261615 original size:25 final size:24
Alignment explanation
Indices: 9261581--9261633 Score: 70
Period size: 25 Copynumber: 2.2 Consensus size: 24
9261571 TTCTTTTTCT
* *
9261581 TTTTCTTTTCATTTTTAGTTTAGG
1 TTTTCTTTTCATTTTTAGATTAGA
*
9261605 TTTTCTCTTTCCTTTTTAGATTAGA
1 TTTTCT-TTTCATTTTTAGATTAGA
9261630 TTTT
1 TTTT
9261634 ATTATTGTAG
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
24 6 0.24
25 19 0.76
ACGTcount: A:0.13, C:0.11, G:0.09, T:0.66
Consensus pattern (24 bp):
TTTTCTTTTCATTTTTAGATTAGA
Found at i:9264232 original size:37 final size:37
Alignment explanation
Indices: 9264171--9264316 Score: 235
Period size: 37 Copynumber: 4.0 Consensus size: 37
9264161 TACGTATGAT
* *
9264171 CACTTATCAC-TTG-TCCCTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
9264206 CAAC-TATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1 C-ACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
9264243 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
*
9264280 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
9264317 TAAAGCTATC
Statistics
Matches: 104, Mismatches: 3, Indels: 6
0.92 0.03 0.05
Matches are distributed among these distances:
35 7 0.07
36 7 0.07
37 90 0.87
ACGTcount: A:0.25, C:0.21, G:0.16, T:0.37
Consensus pattern (37 bp):
CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
Found at i:9264333 original size:46 final size:46
Alignment explanation
Indices: 9264280--9264646 Score: 437
Period size: 46 Copynumber: 7.6 Consensus size: 46
9264270 TAAGTGTAGC
* **
9264280 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
* * *
9264326 CACTTATCACTTTGTCTCTTGATCAGATAAGTATAGACGAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
9264372 CACTTATCACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
1 CACTTATCAC---T---TTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
*
9264424 CACTTATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTAT
1 CACTTATCAC--T----TTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
*
9264476 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
* *
9264522 CACTTATCACTTTATCACTTGATCAGATAAGTATAGCCGAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
* ** *
9264568 TACTTATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCAC--T----TTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
*
9264620 CACTTATCACTTTATCACTTGATCAGA
1 CACTTATCACTTTGTCACTTGATCAGA
9264647 AGTACTCAAA
Statistics
Matches: 289, Mismatches: 19, Indels: 26
0.87 0.06 0.08
Matches are distributed among these distances:
46 154 0.53
48 1 0.00
49 1 0.00
50 2 0.01
51 3 0.01
52 128 0.44
ACGTcount: A:0.29, C:0.22, G:0.14, T:0.35
Consensus pattern (46 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
Found at i:9264399 original size:52 final size:52
Alignment explanation
Indices: 9264323--9264640 Score: 417
Period size: 52 Copynumber: 6.3 Consensus size: 52
9264313 TAGCTAAAGC
* * *
9264323 TATCACTTATCACTTTGTCTCTTGATCAGATAAGTATAGACGAAGCTATCACT
1 TATCACTTTTCAC-TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
*
9264376 TATCACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
* * *
9264428 TATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTATCACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
9264480 TATCAC---T---TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
*
9264526 TATCAC-TTT-A----TCACTTGATCAGATAAGTATAGCCGAAGCTATTACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
* * ** *
9264572 TATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
9264624 TATCACTTTATCACTTG
1 TATCACTTT-TCACTTG
9264641 ATCAGAAGTA
Statistics
Matches: 238, Mismatches: 17, Indels: 20
0.87 0.06 0.07
Matches are distributed among these distances:
46 84 0.35
47 2 0.01
48 2 0.01
52 132 0.55
53 18 0.08
ACGTcount: A:0.29, C:0.22, G:0.14, T:0.35
Consensus pattern (52 bp):
TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
Found at i:9264521 original size:196 final size:196
Alignment explanation
Indices: 9264280--9264632 Score: 598
Period size: 196 Copynumber: 1.8 Consensus size: 196
9264270 TAAGTGTAGC
* * * * *
9264280 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCTCT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCAAAGCTATCACTTATCACTTTATCACT
*
9264345 TGATCAGATAAGTATAGACGAAGCTATCACTTATCACTTTTCACTTGTCACTTGATCAGATAAGT
66 TGATCAGATAAGTATAGACGAAGCTATCACTTATCACTTTCCACTTGTCACTTGATCAGATAAGT
* *
9264410 GTAGCCGAAGCTATCACTTATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTA
131 GTAGCCAAAGCTACCACTTATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTA
9264475 T
196 T
*
9264476 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACTTATCACTTTATCACT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCAAAGCTATCACTTATCACTTTATCACT
* *
9264541 TGATCAGATAAGTATAGCCGAAGCTATTACTTATCACTTTCCACTTGTCACTTGATCAGATAAGT
66 TGATCAGATAAGTATAGACGAAGCTATCACTTATCACTTTCCACTTGTCACTTGATCAGATAAGT
*
9264606 GTAGCTAAAGCTACCACTTATCACTTT
131 GTAGCCAAAGCTACCACTTATCACTTT
9264633 ATCACTTGAT
Statistics
Matches: 145, Mismatches: 12, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
196 145 1.00
ACGTcount: A:0.29, C:0.22, G:0.14, T:0.35
Consensus pattern (196 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCAAAGCTATCACTTATCACTTTATCACT
TGATCAGATAAGTATAGACGAAGCTATCACTTATCACTTTCCACTTGTCACTTGATCAGATAAGT
GTAGCCAAAGCTACCACTTATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTA
T
Found at i:9264635 original size:98 final size:97
Alignment explanation
Indices: 9264280--9264646 Score: 492
Period size: 98 Copynumber: 3.7 Consensus size: 97
9264270 TAAGTGTAGC
* * * *
9264280 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCTCT
1 CACTT-TCAC-TTGTCACTTGATCAGATAAGTGTAGCCAAAGCTATCACTTATCACTTTATCACT
*
9264345 TGATCAGATAAGTATAGACGAAGCTATCACTTAT
64 TGATCAGATAAGTATAGCCGAAGCTATCACTTAT
*
9264379 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTATCACTTTCCACTTG
1 CAC-TTTCACTTGTCACTTGATCAGATAAGTGTAGCCAAAGCTATCACTTATCACTTT--A----
* *
9264444 TCACTTGATCAGATAAGTGTAGCTGAAGCTATCACTTAT
59 TCACTTGATCAGATAAGTATAGCCGAAGCTATCACTTAT
* *
9264483 CAC--T---TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACTTATCACTTTATCACTTG
1 CACTTTCACTTGTCACTTGATCAGATAAGTGTAGCCAAAGCTATCACTTATCACTTTATCACTTG
*
9264543 ATCAGATAAGTATAGCCGAAGCTATTACTTAT
66 ATCAGATAAGTATAGCCGAAGCTATCACTTAT
* *
9264575 CACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTATCACTT
1 CACTTT-CACTTGTCACTTGATCAGATAAGTGTAGCCAAAGCTATCACTTATCACTTTATCACTT
9264640 GATCAGA
65 GATCAGA
9264647 AGTACTCAAA
Statistics
Matches: 239, Mismatches: 16, Indels: 27
0.85 0.06 0.10
Matches are distributed among these distances:
92 39 0.16
94 1 0.00
96 1 0.00
98 150 0.63
99 7 0.03
100 2 0.01
101 1 0.00
104 38 0.16
ACGTcount: A:0.29, C:0.22, G:0.14, T:0.35
Consensus pattern (97 bp):
CACTTTCACTTGTCACTTGATCAGATAAGTGTAGCCAAAGCTATCACTTATCACTTTATCACTTG
ATCAGATAAGTATAGCCGAAGCTATCACTTAT
Found at i:9272455 original size:16 final size:17
Alignment explanation
Indices: 9272434--9272466 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
9272424 GCATAATTTT
*
9272434 TTTTAAA-AAAATCATA
1 TTTTAAACAAAAACATA
9272450 TTTTAAACAAAAACATA
1 TTTTAAACAAAAACATA
9272467 AAAATTTAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.58, C:0.09, G:0.00, T:0.33
Consensus pattern (17 bp):
TTTTAAACAAAAACATA
Found at i:9273233 original size:35 final size:37
Alignment explanation
Indices: 9273180--9273259 Score: 85
Period size: 36 Copynumber: 2.2 Consensus size: 37
9273170 TATGCTAAAA
** *
9273180 TTTTATATATTTTATAATTAAATTT-ACATA-AAATAT
1 TTTTATATATAATATAATTAAATTTAAAATAGAAAT-T
**
9273216 TTTTATATATAAT-TAATTTGATTTAAAATAGAAATT
1 TTTTATATATAATATAATTAAATTTAAAATAGAAATT
9273252 TTTTATAT
1 TTTTATAT
9273260 TTTTTAGAAA
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
35 9 0.24
36 24 0.65
37 4 0.11
ACGTcount: A:0.42, C:0.01, G:0.03, T:0.54
Consensus pattern (37 bp):
TTTTATATATAATATAATTAAATTTAAAATAGAAATT
Found at i:9278727 original size:397 final size:396
Alignment explanation
Indices: 9277932--9279514 Score: 2223
Period size: 397 Copynumber: 4.0 Consensus size: 396
9277922 TCTTCGACCG
* * * * * *
9277932 ATTCCACTGCCGACCGGAGGAA-TAGAATTACTGGCTTCAATATACTCCACTGCAACCTCAGGGA
1 ATTCCACTGCTGTCCAG-GGAAGTAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGA
* * * *
9277996 GGTAAAATTTGCCATCTTTGATCTGTTCCACTACTGCTTAGGGAGACAAGATCTGTAATCTCCAA
65 GGTAAAATCTGCCATCTTTGATCTGCTCCACTACTGCTTAGGGAGACAAGATCTGAAATCTTCAA
* * *
9278061 TCTATTCCACGT-C-GCCC-AGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCA
130 TCTATTCCAC-TACTGCCCAAGGAAG-TAGAATTATTGGCTTCAATGTACTCCACTGTAACCACA
* * * * * * * **
9278123 GGGAGGTAAAATCTGTCATATTTGATCTGCTCCTCTACTGCTTAGGGAGATAAGACCTGTAATCT
193 GGGAGGTAAAATCCGCCATCTTTGATCTGCCCCACTACTGCTTAGGGAGACAAGATCTAAAATCT
* * *
9278188 TCAATCTATTCCACTGCTGCCCAGGGAAGTAGAATTTCTGGCTTCAATATACTCCACTGTAACCT
258 CCAATCTATTCCACTGCTGCCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGTAACCT
* * * * *
9278253 CAGGGAGGTAAAATTCACCACCTTTGATCTGCTCCACTACTGCTTGGGGAGACAAGATCTGAAAT
323 CAGGGAGGTAAAATCCGCCATCTTTGATCTGCCCCACTACTGCTTAGGGAGACAAGATCTGAAAT
9278318 CTTCAATCT
388 CTTCAATCT
*
9278327 ATTCCACTGCTGTCCAGGGAAGTAAAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAG
1 ATTCCACTGCTGTCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAG
* * *
9278392 GTAAAATCCGCCATCTTTGATCTGCTCCACTACTGCTTAGGGAGACAATATCTGAAATCTTTAAT
66 GTAAAATCTGCCATCTTTGATCTGCTCCACTACTGCTTAGGGAGACAAGATCTGAAATCTTCAAT
* *
9278457 CTATTCCACTACTGTCCAAGGAAGTTGAATTATTGGCTTCAATGTACTCCACTGTAACCACAGGG
131 CTATTCCACTACTGCCCAAGGAAGTAGAATTATTGGCTTCAATGTACTCCACTGTAACCACAGGG
* * * *
9278522 AGGTAAAATCCGCCATCTTTGATCTGCTCCACTACTGCCTAGGGAGACAATATCTGAAATCTCCA
196 AGGTAAAATCCGCCATCTTTGATCTGCCCCACTACTGCTTAGGGAGACAAGATCTAAAATCTCCA
*
9278587 ATCTATTCCACTGTTGCCCTAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCA
261 ATCTATTCCACTGCTGCCC-AGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCA
* * *
9278652 GGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTGCTTAGGGAGAGAAGATCTGAAATCT
325 GGGAGGTAAAATCCGCCATCTTTGATCTGCCCCACTACTGCTTAGGGAGACAAGATCTGAAATCT
9278717 TCAATCT
390 TCAATCT
* *
9278724 ATTCCACTGTTGCCCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGA
1 ATTCCACTGCTG-TCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGA
* * *
9278789 GGTAAAATCTGCCATCTTTGATCTGCTCTACTACTGCTTGGGGAGACAAGATCTGAAGTCTTCAA
65 GGTAAAATCTGCCATCTTTGATCTGCTCCACTACTGCTTAGGGAGACAAGATCTGAAATCTTCAA
* * * *
9278854 TCTATTCCGCTACTGCCCAGGGAAGTAAAATTATTGGTTTCAATGTACTCCACTGTAACCACAGG
130 TCTATTCCACTACTGCCCAAGGAAGTAGAATTATTGGCTTCAATGTACTCCACTGTAACCACAGG
* * *
9278919 GAGGTAAAATTCACCATCTTTGATCTGCCCCACTACTGCTTGGGGAGACAAGATCTAAAATC-CT
195 GAGGTAAAATCCGCCATCTTTGATCTGCCCCACTACTGCTTAGGGAGACAAGATCTAAAATCTC-
* ** *
9278983 CAATCTATTCCACTACTATCCAAGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGTAACCAT
259 CAATCTATTCCACTGCTGCCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGTAACC-T
* *
9279048 -AGGAAGGTAAAATCTGCCATCTTTGATCTGCCCCACTACTGCTTAGGGAGACAAGATCTGAAAT
323 CAGGGAGGTAAAATCCGCCATCTTTGATCTGCCCCACTACTGCTTAGGGAGACAAGATCTGAAAT
9279112 CTTCAATCT
388 CTTCAATCT
*
9279121 ATTCCGCTGCTGTCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGTAACCAC-GAGGA
1 ATTCCACTGCTGTCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAG-GGA
* * * * ** *
9279185 GGTAAAATTTGCCATCTTCGATCTGCTTCGCTGTCTA-TGC--AGGAAGGTAAGATCTAAAATCT
65 GGTAAAATCTGCCATCTTTGATCTGC-TC-C--ACTACTGCTTAGGGAGACAAGATCTGAAATCT
* *
9279247 TCAATCTATTCCACTGCTGCCCAGGGAAGTAGAATTATTGGCTTCAATGTACTCCACTGTAACCA
126 TCAATCTATTCCACTACTGCCCAAGGAAGTAGAATTATTGGCTTCAATGTACTCCACTGTAACCA
* * *
9279312 CAGGAAGGTAAAATCTGCCATCTTTGATCTGCCCCACTACTGCTTAGGGAGATAAGATCTAAAAT
191 CAGGGAGGTAAAATCCGCCATCTTTGATCTGCCCCACTACTGCTTAGGGAGACAAGATCTAAAAT
* * * *
9279377 CTTCAATCTATTCCACTGTTGCCTAGGGAAGTAGAATTATTGGCTTCAATGTACTCCACTGTAAC
256 CTCCAATCTATTCCACTGCTGCCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGTAAC
* * * * **
9279442 CACAGGGAGGTAAAATCTGCCATCTTTGATCTGCCCCACTACTGCTCAGGGGGACAAGATCTGCT
321 CTCAGGGAGGTAAAATCCGCCATCTTTGATCTGCCCCACTACTGCTTAGGGAGACAAGATCTGAA
9279507 ATCTTCAA
386 ATCTTCAA
9279515 CCTGCTCCAC
Statistics
Matches: 1066, Mismatches: 107, Indels: 28
0.89 0.09 0.02
Matches are distributed among these distances:
394 5 0.00
395 122 0.11
396 187 0.18
397 505 0.47
398 241 0.23
399 3 0.00
400 3 0.00
ACGTcount: A:0.28, C:0.25, G:0.19, T:0.28
Consensus pattern (396 bp):
ATTCCACTGCTGTCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAG
GTAAAATCTGCCATCTTTGATCTGCTCCACTACTGCTTAGGGAGACAAGATCTGAAATCTTCAAT
CTATTCCACTACTGCCCAAGGAAGTAGAATTATTGGCTTCAATGTACTCCACTGTAACCACAGGG
AGGTAAAATCCGCCATCTTTGATCTGCCCCACTACTGCTTAGGGAGACAAGATCTAAAATCTCCA
ATCTATTCCACTGCTGCCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAG
GGAGGTAAAATCCGCCATCTTTGATCTGCCCCACTACTGCTTAGGGAGACAAGATCTGAAATCTT
CAATCT
Found at i:9279275 original size:662 final size:660
Alignment explanation
Indices: 9277932--9279514 Score: 2362
Period size: 662 Copynumber: 2.4 Consensus size: 660
9277922 TCTTCGACCG
* * * * *
9277932 ATTCCACTGCCGACCGGAGGAA-TAGAATTACTGGCTTCAATATACTCCACTGCAACCTCAGGGA
1 ATTCCACTGCTGCCCAG-GGAAGTAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGGGA
* * * *
9277996 GGTAAAATTTGCCATCTTTGATCTGTTCCACTACTGCTTAGGGAGACAAGATCTGTAATCTCCAA
65 GGTAAAATCTGCCATCTTTGATCTGCTCCACTACTGCTTAGGGAGACAAGATCTGAAATCTTCAA
* *
9278061 TCTATTCCAC-GTCGCCCAGGG-AGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAG
130 TCTATTCCACTGTTGCCCAGGGAAG-TAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAG
* * * * *
9278124 GGAGGTAAAATCTGTCATATTTGATCTGCTCCT-CTACTGCTTAGGGAGATAAGACCTGTAATCT
194 GGAGGTAAAATCTGCCATCTTTGATCTGCT-CTACTACTGCTTGGGGAGACAAGATCTGTAATCT
* * *
9278188 TCAATCTATTCCACTGCTGCCCAGGGAAGTAGAATTTCTGGCTTCAATATACTCCACTGTAACCT
258 TCAATCTATTCCACTACTGCCCAGGGAAGTAAAATTTCTGGCTTCAATATACTCCACTGTAACCA
* *
9278253 CAGGGAGGTAAAATTCACCACCTTTGATCTGCTCCACTACTGCTTGGGGAGACAAGATCTGAAAT
323 CAGGGAGGTAAAATTCACCACCTTTGATCTGCCCCACTACTGCTTGGGGAGACAAGATCTAAAAT
* * * *
9278318 CTTCAATCTATTCCACTGCTGTCCAGGGAAGTAAAATTACTGGCTTCAATGTACTCCACTGTAAC
388 CCTCAATCTATTCCACTACTATCCAAGGAAGTAAAATTACTGGCTTCAATGTACTCCACTGTAAC
* * *
9278383 CACAGGGAGGTAAAATCCGCCATCTTTGATCTGCTCCACTACTGCTTAGGGAGACAATATCTGAA
453 CACAGGAAGGTAAAATCCGCCATCTTTGATCTGCCCCACTACTGCTTAGGGAGACAAGATCTGAA
* * *
9278448 ATCTTTAATCTATTCCACTACTGTCCAAGGAAGTTGAATTATTGGCTTCAATGTACTCCACTGTA
518 ATCTTCAATCTATTCCACTACTGTCCAAGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGTA
* * * *
9278513 ACCACAGGGAGGTAAAATCCGCCATCTTTGATCTGCTCCACTACTGCCTAGGGAGACAATATCTG
583 ACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTGCCTAGGAAGACAAGATCTA
9278578 AAATCTCCAATCT
648 AAATCTCCAATCT
*
9278591 ATTCCACTGTTGCCCTAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGGGA
1 ATTCCACTGCTGCCC-AGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGGGA
* * *
9278656 GGTAAAATCCGCCATCTTCGATCTGCTCCACTACTGCTTAGGGAGAGAAGATCTGAAATCTTCAA
65 GGTAAAATCTGCCATCTTTGATCTGCTCCACTACTGCTTAGGGAGACAAGATCTGAAATCTTCAA
9278721 TCTATTCCACTGTTGCCCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAG
130 TCTATTCCACTGTTG-CCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAG
9278786 GGAGGTAAAATCTGCCATCTTTGATCTGCTCTACTACTGCTTGGGGAGACAAGATCTG-AAGTCT
194 GGAGGTAAAATCTGCCATCTTTGATCTGCTCTACTACTGCTTGGGGAGACAAGATCTGTAA-TCT
* * *
9278850 TCAATCTATTCCGCTACTGCCCAGGGAAGTAAAATTAT-TGGTTTCAATGTACTCCACTGTAACC
258 TCAATCTATTCCACTACTGCCCAGGGAAGTAAAATT-TCTGGCTTCAATATACTCCACTGTAACC
*
9278914 ACAGGGAGGTAAAATTCACCATCTTTGATCTGCCCCACTACTGCTTGGGGAGACAAGATCTAAAA
322 ACAGGGAGGTAAAATTCACCACCTTTGATCTGCCCCACTACTGCTTGGGGAGACAAGATCTAAAA
*
9278979 TCCTCAATCTATTCCACTACTATCCAAGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGTAA
387 TCCTCAATCTATTCCACTACTATCCAAGGAAGTAAAATTACTGGCTTCAATGTACTCCACTGTAA
* *
9279044 CCATAGGAAGGTAAAATCTGCCATCTTTGATCTGCCCCACTACTGCTTAGGGAGACAAGATCTGA
452 CCACAGGAAGGTAAAATCCGCCATCTTTGATCTGCCCCACTACTGCTTAGGGAGACAAGATCTGA
* * *
9279109 AATCTTCAATCTATTCCGCTGCTGTCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGT
517 AATCTTCAATCTATTCCACTACTGTCCAAGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGT
** * **
9279174 AACCAC-GAGGAGGTAAAATTTGCCATCTTCGATCTGCTTCGCTGTCTA-TG-C-AGGAAGGTAA
582 AACCACAG-GGAGGTAAAATCCGCCATCTTCGATCTGC-TC-C--ACTACTGCCTAGGAAGACAA
*
9279235 GATCTAAAATCTTCAATCT
642 GATCTAAAATCTCCAATCT
* * *
9279254 ATTCCACTGCTGCCCAGGGAAGTAGAATTATTGGCTTCAATGTACTCCACTGTAACCACAGGAAG
1 ATTCCACTGCTGCCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAG
* * *
9279319 GTAAAATCTGCCATCTTTGATCTGCCCCACTACTGCTTAGGGAGATAAGATCTAAAATCTTCAAT
66 GTAAAATCTGCCATCTTTGATCTGCTCCACTACTGCTTAGGGAGACAAGATCTGAAATCTTCAAT
* *
9279384 CTATTCCACTGTTGCCTAGGGAAGTAGAATTATTGGCTTCAATGTACTCCACTGTAACCACAGGG
131 CTATTCCACTGTTGCCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGG
* * *
9279449 AGGTAAAATCTGCCATCTTTGATCTGCCCCACTACTGCTCAGGGG-GACAAGATCTGCT-ATCTT
196 AGGTAAAATCTGCCATCTTTGATCTGCTCTACTACTGCT-TGGGGAGACAAGATCTG-TAATCTT
9279512 CAA
259 CAA
9279515 CCTGCTCCAC
Statistics
Matches: 839, Mismatches: 69, Indels: 30
0.89 0.07 0.03
Matches are distributed among these distances:
659 16 0.02
660 109 0.13
661 112 0.13
662 553 0.66
663 42 0.05
664 2 0.00
665 2 0.00
666 3 0.00
ACGTcount: A:0.28, C:0.25, G:0.19, T:0.28
Consensus pattern (660 bp):
ATTCCACTGCTGCCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAG
GTAAAATCTGCCATCTTTGATCTGCTCCACTACTGCTTAGGGAGACAAGATCTGAAATCTTCAAT
CTATTCCACTGTTGCCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGG
AGGTAAAATCTGCCATCTTTGATCTGCTCTACTACTGCTTGGGGAGACAAGATCTGTAATCTTCA
ATCTATTCCACTACTGCCCAGGGAAGTAAAATTTCTGGCTTCAATATACTCCACTGTAACCACAG
GGAGGTAAAATTCACCACCTTTGATCTGCCCCACTACTGCTTGGGGAGACAAGATCTAAAATCCT
CAATCTATTCCACTACTATCCAAGGAAGTAAAATTACTGGCTTCAATGTACTCCACTGTAACCAC
AGGAAGGTAAAATCCGCCATCTTTGATCTGCCCCACTACTGCTTAGGGAGACAAGATCTGAAATC
TTCAATCTATTCCACTACTGTCCAAGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGTAACC
ACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTGCCTAGGAAGACAAGATCTAAAA
TCTCCAATCT
Found at i:9279527 original size:132 final size:132
Alignment explanation
Indices: 9277932--9279514 Score: 2223
Period size: 132 Copynumber: 12.0 Consensus size: 132
9277922 TCTTCGACCG
* * * * * *
9277932 ATTCCACTGCCGACCGGAGGAA-TAGAATTACTGGCTTCAATATACTCCACTGCAACCTCAGGGA
1 ATTCCACTGCTGCCCAG-GGAAGTAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGA
* * * *
9277996 GGTAAAATTTGCCATCTTTGATCTGTTCCACTACTGCTTAGGGAGACAAGATCTGTAATCTCCAA
65 GGTAAAATCTGCCATCTTTGATCTGCTCCACTACTGCTTAGGGAGACAAGATCTGAAATCTTCAA
9278061 TCT
130 TCT
*
9278064 ATTCCAC-G-TCGCCCAGGG-AGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGGG
1 ATTCCACTGCT-GCCCAGGGAAG-TAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGG
* * * * * *
9278126 AGGTAAAATCTGTCATATTTGATCTGCTCCTCTACTGCTTAGGGAGATAAGACCTGTAATCTTCA
64 AGGTAAAATCTGCCATCTTTGATCTGCTCCACTACTGCTTAGGGAGACAAGATCTGAAATCTTCA
9278191 ATCT
129 ATCT
* * *
9278195 ATTCCACTGCTGCCCAGGGAAGTAGAATTTCTGGCTTCAATATACTCCACTGTAACCTCAGGGAG
1 ATTCCACTGCTGCCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAG
* * *
9278260 GTAAAAT-TCACCACCTTTGATCTGCTCCACTACTGCTTGGGGAGACAAGATCTGAAATCTTCAA
66 GTAAAATCT-GCCATCTTTGATCTGCTCCACTACTGCTTAGGGAGACAAGATCTGAAATCTTCAA
9278324 TCT
130 TCT
* *
9278327 ATTCCACTGCTGTCCAGGGAAGTAAAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAG
1 ATTCCACTGCTGCCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAG
* * *
9278392 GTAAAATCCGCCATCTTTGATCTGCTCCACTACTGCTTAGGGAGACAATATCTGAAATCTTTAAT
66 GTAAAATCTGCCATCTTTGATCTGCTCCACTACTGCTTAGGGAGACAAGATCTGAAATCTTCAAT
9278457 CT
131 CT
* * * * *
9278459 ATTCCACTACTGTCCAAGGAAGTTGAATTATTGGCTTCAATGTACTCCACTGTAACCACAGGGAG
1 ATTCCACTGCTGCCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAG
* * * *
9278524 GTAAAATCCGCCATCTTTGATCTGCTCCACTACTGCCTAGGGAGACAATATCTGAAATCTCCAAT
66 GTAAAATCTGCCATCTTTGATCTGCTCCACTACTGCTTAGGGAGACAAGATCTGAAATCTTCAAT
9278589 CT
131 CT
* *
9278591 ATTCCACTGTTGCCCTAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGGGA
1 ATTCCACTGCTGCCC-AGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGA
* * *
9278656 GGTAAAATCCGCCATCTTCGATCTGCTCCACTACTGCTTAGGGAGAGAAGATCTGAAATCTTCAA
65 GGTAAAATCTGCCATCTTTGATCTGCTCCACTACTGCTTAGGGAGACAAGATCTGAAATCTTCAA
9278721 TCT
130 TCT
*
9278724 ATTCCACTGTTGCCCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGA
1 ATTCCACTGCTG-CCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGA
* * *
9278789 GGTAAAATCTGCCATCTTTGATCTGCTCTACTACTGCTTGGGGAGACAAGATCTGAAGTCTTCAA
65 GGTAAAATCTGCCATCTTTGATCTGCTCCACTACTGCTTAGGGAGACAAGATCTGAAATCTTCAA
9278854 TCT
130 TCT
* * * * *
9278857 ATTCCGCTACTGCCCAGGGAAGTAAAATTATTGGTTTCAATGTACTCCACTGTAACCACAGGGAG
1 ATTCCACTGCTGCCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAG
* * * * *
9278922 GTAAAAT-TCACCATCTTTGATCTGCCCCACTACTGCTTGGGGAGACAAGATCTAAAATCCTCAA
66 GTAAAATCT-GCCATCTTTGATCTGCTCCACTACTGCTTAGGGAGACAAGATCTGAAATCTTCAA
9278986 TCT
130 TCT
* ** * * *
9278989 ATTCCACTACTATCCAAGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGTAACCATAGGAAG
1 ATTCCACTGCTGCCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAG
*
9279054 GTAAAATCTGCCATCTTTGATCTGCCCCACTACTGCTTAGGGAGACAAGATCTGAAATCTTCAAT
66 GTAAAATCTGCCATCTTTGATCTGCTCCACTACTGCTTAGGGAGACAAGATCTGAAATCTTCAAT
9279119 CT
131 CT
* *
9279121 ATTCCGCTGCTGTCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGTAACCAC-GAGGA
1 ATTCCACTGCTGCCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAG-GGA
* * * * ** *
9279185 GGTAAAATTTGCCATCTTCGATCTGCTTCGCTGTCTA-TGC--AGGAAGGTAAGATCTAAAATCT
65 GGTAAAATCTGCCATCTTTGATCTGC-TC-C--ACTACTGCTTAGGGAGACAAGATCTGAAATCT
9279247 TCAATCT
126 TCAATCT
* *
9279254 ATTCCACTGCTGCCCAGGGAAGTAGAATTATTGGCTTCAATGTACTCCACTGTAACCACAGGAAG
1 ATTCCACTGCTGCCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAG
* * *
9279319 GTAAAATCTGCCATCTTTGATCTGCCCCACTACTGCTTAGGGAGATAAGATCTAAAATCTTCAAT
66 GTAAAATCTGCCATCTTTGATCTGCTCCACTACTGCTTAGGGAGACAAGATCTGAAATCTTCAAT
9279384 CT
131 CT
* * *
9279386 ATTCCACTGTTGCCTAGGGAAGTAGAATTATTGGCTTCAATGTACTCCACTGTAACCACAGGGAG
1 ATTCCACTGCTGCCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAG
* * * **
9279451 GTAAAATCTGCCATCTTTGATCTGCCCCACTACTGCTCAGGGGGACAAGATCTGCTATCTTCAA
66 GTAAAATCTGCCATCTTTGATCTGCTCCACTACTGCTTAGGGAGACAAGATCTGAAATCTTCAA
9279515 CCTGCTCCAC
Statistics
Matches: 1310, Mismatches: 120, Indels: 42
0.89 0.08 0.03
Matches are distributed among these distances:
129 4 0.00
130 5 0.00
131 116 0.09
132 823 0.63
133 351 0.27
134 5 0.00
135 3 0.00
136 3 0.00
ACGTcount: A:0.28, C:0.25, G:0.19, T:0.28
Consensus pattern (132 bp):
ATTCCACTGCTGCCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAG
GTAAAATCTGCCATCTTTGATCTGCTCCACTACTGCTTAGGGAGACAAGATCTGAAATCTTCAAT
CT
Found at i:9280830 original size:8 final size:7
Alignment explanation
Indices: 9280784--9280827 Score: 56
Period size: 7 Copynumber: 6.3 Consensus size: 7
9280774 CCTTAGCTTC
9280784 TTCATTT
1 TTCATTT
9280791 TT-ACTTT
1 TTCA-TTT
9280798 TTCATTT
1 TTCATTT
9280805 TTCA-TT
1 TTCATTT
9280811 TTCATCTT
1 TTCAT-TT
9280819 TTCATTT
1 TTCATTT
9280826 TT
1 TT
9280828 TCACATCACT
Statistics
Matches: 33, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
6 7 0.21
7 18 0.55
8 8 0.24
ACGTcount: A:0.14, C:0.16, G:0.00, T:0.70
Consensus pattern (7 bp):
TTCATTT
Found at i:9281805 original size:20 final size:20
Alignment explanation
Indices: 9281780--9281820 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
9281770 GGTTTGGCAG
*
9281780 AAAAAATC-TGAAGGAATGAA
1 AAAAAATCGT-AAAGAATGAA
9281800 AAAAAATCGTAAAGAATGAA
1 AAAAAATCGTAAAGAATGAA
9281820 A
1 A
9281821 TAACATTTGC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 18 0.95
21 1 0.05
ACGTcount: A:0.63, C:0.05, G:0.17, T:0.15
Consensus pattern (20 bp):
AAAAAATCGTAAAGAATGAA
Found at i:9289403 original size:23 final size:23
Alignment explanation
Indices: 9289384--9289437 Score: 76
Period size: 23 Copynumber: 2.4 Consensus size: 23
9289374 TGTATACACG
9289384 TACATAATAAAAATATATACTAA
1 TACATAATAAAAATATATACTAA
* *
9289407 TACATAATAATAATA-ATAGTAA
1 TACATAATAAAAATATATACTAA
9289429 TAC-TAATAA
1 TACATAATAA
9289438 TACTAATAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
21 6 0.21
22 9 0.31
23 14 0.48
ACGTcount: A:0.59, C:0.07, G:0.02, T:0.31
Consensus pattern (23 bp):
TACATAATAAAAATATATACTAA
Found at i:9289418 original size:3 final size:3
Alignment explanation
Indices: 9289387--9289456 Score: 63
Period size: 3 Copynumber: 23.3 Consensus size: 3
9289377 ATACACGTAC
* * * *
9289387 ATA ATA AAA ATA TATA CTA ATA CATA ATA ATA ATA ATA GTA ATA CTA
1 ATA ATA ATA ATA -ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA
*
9289434 ATA ATA CTA ATA AT- ATA A-A ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA A
9289457 CAAGGATATT
Statistics
Matches: 53, Mismatches: 10, Indels: 8
0.75 0.14 0.11
Matches are distributed among these distances:
2 4 0.08
3 43 0.81
4 6 0.11
ACGTcount: A:0.61, C:0.06, G:0.01, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:9289941 original size:11 final size:12
Alignment explanation
Indices: 9289921--9289958 Score: 60
Period size: 11 Copynumber: 3.2 Consensus size: 12
9289911 AGAAAAAAAA
9289921 GAAGAGAGAGAGG
1 GAAGAGAGA-AGG
9289934 GAAGAGAGAAGG
1 GAAGAGAGAAGG
9289946 G-AGAGAGAAGG
1 GAAGAGAGAAGG
9289957 GA
1 GA
9289959 GGGGGAAAGG
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
11 11 0.46
12 4 0.17
13 9 0.38
ACGTcount: A:0.47, C:0.00, G:0.53, T:0.00
Consensus pattern (12 bp):
GAAGAGAGAAGG
Found at i:9290461 original size:8 final size:8
Alignment explanation
Indices: 9290448--9290472 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
9290438 GGTGTTCGGC
9290448 GCAAGTGG
1 GCAAGTGG
9290456 GCAAGTGG
1 GCAAGTGG
9290464 GCAAGTGG
1 GCAAGTGG
9290472 G
1 G
9290473 GGGTAGGTGG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.24, C:0.12, G:0.52, T:0.12
Consensus pattern (8 bp):
GCAAGTGG
Found at i:9291006 original size:44 final size:45
Alignment explanation
Indices: 9290977--9291589 Score: 172
Period size: 44 Copynumber: 13.8 Consensus size: 45
9290967 CCTTTATTTT
*
9290977 AATCCACTCCACTGTAATCTCAGGCAGATAGGAT-TACTATCTTC
1 AATCCACTCCACTGTAATCTCAGGCAGATAAGATCTACTATCTTC
* * * * *
9291021 AATCTACTCCGCTGTAATCTCAGGGAGATAAGATCTGA-AATTTTTC
1 AATCCACTCCACTGTAATCTCAGGCAGATAAGATCT-ACTA-TCTTC
** *** * **
9291067 GGTCTGTTCCACTGTAATCTCAGGGAGATAAGATCT-CTGGCTTC
1 AATCCACTCCACTGTAATCTCAGGCAGATAAGATCTACTATCTTC
* * *
9291111 AATCTGATGTGATCTACTCTACTGTAA-CTTCAGAG-AGATAAGATCCT-TTAT-TTT
1 AATC---------C-ACTCCACTGTAATC-TCAG-GCAGATAAGAT-CTACTATCTTC
* * *
9291165 AATCCGCTCCACTGTAA-CTTCAGAG-AGATAGGATC-ACTAGCTTC
1 AATCCACTCCACTGTAATC-TCAG-GCAGATAAGATCTACTATCTTC
* * *
9291209 AATCTACTCCGCTGTAATCTCAGGGAGATAAGAT-TACTATCTTC
1 AATCCACTCCACTGTAATCTCAGGCAGATAAGATCTACTATCTTC
** * * * * * *
9291253 AATCTGCCCCATTGTAATCTCAGGGAGATAGGA--TAGTGTCTTC
1 AATCCACTCCACTGTAATCTCAGGCAGATAAGATCTACTATCTTC
* ** * * **
9291296 GATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCT-CTGGCTTC
1 AATCCACTCCACTGTAATCTCAGGCAGATAAGATCTACTATCTTC
** * * * *
9291340 AATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTGGAAT-TCTCC
1 AATCCACTCCACTGTAATCTCAGGCAGATAAGATCT--ACTATCTTC
** * * * * *
9291386 GGTCTACTCCACTGTAACCTCAGGGAAATAAGA-C--CTGAT-GT-
1 AATCCACTCCACTGTAATCTCAGGCAGATAAGATCTACT-ATCTTC
* ** *
9291427 GATCTTCTCTACTGTAA-CTTCAGAG-AGATAAGA--T-CT-T-TT-
1 AATCCACTCCACTGTAATC-TCAG-GCAGATAAGATCTACTATCTTC
* * * *
9291466 AATCCGCTCCATTGTAATCTCAAGG-AGATAGGAT-TACTATCTTT
1 AATCCACTCCACTGTAATCTC-AGGCAGATAAGATCTACTATCTTC
* ** * * **
9291510 GATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCT-CTGGCTTC
1 AATCCACTCCACTGTAATCTCAGGCAGATAAGATCTACTATCTTC
** * *
9291554 AATCTGCTCCACTGTAACCTCAGGGAGATAAGATCT
1 AATCCACTCCACTGTAATCTCAGGCAGATAAGATCT
9291590 GAAATTTTTT
Statistics
Matches: 443, Mismatches: 85, Indels: 82
0.73 0.14 0.13
Matches are distributed among these distances:
39 24 0.05
40 5 0.01
41 30 0.07
42 2 0.00
43 46 0.10
44 227 0.51
45 7 0.02
46 68 0.15
47 1 0.00
53 1 0.00
54 28 0.06
55 4 0.01
ACGTcount: A:0.27, C:0.23, G:0.19, T:0.31
Consensus pattern (45 bp):
AATCCACTCCACTGTAATCTCAGGCAGATAAGATCTACTATCTTC
Found at i:9291198 original size:188 final size:187
Alignment explanation
Indices: 9290901--9291242 Score: 571
Period size: 188 Copynumber: 1.8 Consensus size: 187
9290891 CTAACTGCTT
* *** *
9290901 AGGGAGATAAGATCTGTGGTTTTGTCTGCTGTGATCTACTCTACTGTAACTTCAGAGAGATAAGA
1 AGGGAGATAAGATCTCTGGTTCAATCTGATGTGATCTACTCTACTGTAACTTCAGAGAGATAAGA
* *
9290966 TCCTTTATTTTAATCCACTCCACTGTAATCTCAGGCAGATAGGATTACTATCTTCAATCTACTCC
66 TCCTTTATTTTAATCCACTCCACTGTAATCTCAGGCAGATAGGATCACTAGCTTCAATCTACTCC
9291031 GCTGTAATCTCAGGGAGATAAGATCTGAAATTTTTCGGTCTGTTCCACTGTAATCTC
131 GCTGTAATCTCAGGGAGATAAGATCTGAAATTTTTCGGTCTGTTCCACTGTAATCTC
9291088 AGGGAGATAAGATCTCTGGCTTCAATCTGATGTGATCTACTCTACTGTAACTTCAGAGAGATAAG
1 AGGGAGATAAGATCTCTGG-TTCAATCTGATGTGATCTACTCTACTGTAACTTCAGAGAGATAAG
*
9291153 ATCCTTTATTTTAATCCGCTCCACTGTAA-CTTCAGAG-AGATAGGATCACTAGCTTCAATCTAC
65 ATCCTTTATTTTAATCCACTCCACTGTAATC-TCAG-GCAGATAGGATCACTAGCTTCAATCTAC
9291216 TCCGCTGTAATCTCAGGGAGATAAGAT
128 TCCGCTGTAATCTCAGGGAGATAAGAT
9291243 TACTATCTTC
Statistics
Matches: 144, Mismatches: 8, Indels: 5
0.92 0.05 0.03
Matches are distributed among these distances:
187 19 0.13
188 124 0.86
189 1 0.01
ACGTcount: A:0.28, C:0.20, G:0.19, T:0.33
Consensus pattern (187 bp):
AGGGAGATAAGATCTCTGGTTCAATCTGATGTGATCTACTCTACTGTAACTTCAGAGAGATAAGA
TCCTTTATTTTAATCCACTCCACTGTAATCTCAGGCAGATAGGATCACTAGCTTCAATCTACTCC
GCTGTAATCTCAGGGAGATAAGATCTGAAATTTTTCGGTCTGTTCCACTGTAATCTC
Found at i:9291362 original size:87 final size:88
Alignment explanation
Indices: 9291165--9291587 Score: 287
Period size: 87 Copynumber: 4.9 Consensus size: 88
9291155 CCTTTATTTT
* * *
9291165 AATCCGCTCCACTGTAACTTCAGAGAGATAGGATCACTAGCTTCAATCTACTCCGCTGTAATCTC
1 AATCTGCTCCACTGTAACCTCAGGGAGATAGGATCACTAGCTTCAATCTACTCCGCTGTAATCTC
*
9291230 AGGGAGATAAGATTACTATCTTC
66 AGGGAGATAAGATTACTAGCTTC
* * * * * *
9291253 AATCTGCCCCATTGTAATCTCAGGGAGATAGGAT-AGT-GTCTTCGATCTGCTCCGCTGTAATCT
1 AATCTGCTCCACTGTAACCTCAGGGAGATAGGATCACTAG-CTTCAATCTACTCCGCTGTAATCT
*
9291316 CAGGGAGATAAGATCT-CTGGCTTC
65 CAGGGAGATAAGAT-TACTAGCTTC
* * * * ** * *
9291340 AATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTGGAAT-TCTCCGGTCTACTCCACTGTAAC
1 AATCTGCTCCACTGTAACCTCAGGGAGATAGGATC---ACTAGCTTCAATCTACTCCGCTGTAAT
* * *
9291404 CTCAGGGAAATAAGA--CCT-GATGT-
63 CTCAGGGAGATAAGATTACTAGCT-TC
* * * * * * * ** **
9291427 GATCTTCTCTACTGTAACTTCAGAGAGATAAGAT--CT---TTTAATCCGCTCCATTGTAATCTC
1 AATCTGCTCCACTGTAACCTCAGGGAGATAGGATCACTAGCTTCAATCTACTCCGCTGTAATCTC
* * * *
9291487 AAGGAGATAGGATTACTATCTTT
66 AGGGAGATAAGATTACTAGCTTC
* * * * * * * * *
9291510 GATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTCTGGCTTCAATCTGCTCCACTGTAACCTC
1 AATCTGCTCCACTGTAACCTCAGGGAGATAGGATCACTAGCTTCAATCTACTCCGCTGTAATCTC
9291575 AGGGAGATAAGAT
66 AGGGAGATAAGAT
9291588 CTGAAATTTT
Statistics
Matches: 262, Mismatches: 56, Indels: 34
0.74 0.16 0.10
Matches are distributed among these distances:
80 25 0.10
82 4 0.02
83 29 0.11
85 2 0.01
86 1 0.00
87 105 0.40
88 63 0.24
90 31 0.12
91 2 0.01
ACGTcount: A:0.27, C:0.23, G:0.20, T:0.29
Consensus pattern (88 bp):
AATCTGCTCCACTGTAACCTCAGGGAGATAGGATCACTAGCTTCAATCTACTCCGCTGTAATCTC
AGGGAGATAAGATTACTAGCTTC
Found at i:9307936 original size:17 final size:17
Alignment explanation
Indices: 9307914--9307949 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 17
9307904 ATTATTTTTT
9307914 TGAAATT-TTAAAAATAA
1 TGAAATTATTAAAAA-AA
9307931 TGAAATTATTAAAAAAA
1 TGAAATTATTAAAAAAA
9307948 TG
1 TG
9307950 CACGTTTTAG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 11 0.61
18 7 0.39
ACGTcount: A:0.58, C:0.00, G:0.08, T:0.33
Consensus pattern (17 bp):
TGAAATTATTAAAAAAA
Found at i:9308113 original size:16 final size:17
Alignment explanation
Indices: 9308089--9308121 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
9308079 CTATCTATCT
*
9308089 ATACGAAATTA-TAAAA
1 ATACAAAATTACTAAAA
9308105 ATACAAAATTACTAAAA
1 ATACAAAATTACTAAAA
9308122 TTCACAACTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.64, C:0.09, G:0.03, T:0.24
Consensus pattern (17 bp):
ATACAAAATTACTAAAA
Found at i:9318616 original size:20 final size:21
Alignment explanation
Indices: 9318578--9318617 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
9318568 CAATTTGTTA
**
9318578 TGAACTAAGAGAATTATAAAT
1 TGAACTAAGAGAAGAATAAAT
9318599 TGAAC-AAGAGAAGAATAAA
1 TGAACTAAGAGAAGAATAAA
9318618 AAAAATAAAG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.57, C:0.05, G:0.17, T:0.20
Consensus pattern (21 bp):
TGAACTAAGAGAAGAATAAAT
Found at i:9321444 original size:13 final size:14
Alignment explanation
Indices: 9321426--9321456 Score: 55
Period size: 13 Copynumber: 2.3 Consensus size: 14
9321416 GTTAGTGAAA
9321426 AAAATTCAATA-TT
1 AAAATTCAATATTT
9321439 AAAATTCAATATTT
1 AAAATTCAATATTT
9321453 AAAA
1 AAAA
9321457 GAGATCCTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.65
14 6 0.35
ACGTcount: A:0.58, C:0.06, G:0.00, T:0.35
Consensus pattern (14 bp):
AAAATTCAATATTT
Found at i:9326800 original size:16 final size:16
Alignment explanation
Indices: 9326767--9326800 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
9326757 ACAAATTGTT
* *
9326767 AACATTAATGGGAGAC
1 AACATTAATGGCAAAC
9326783 AACATTAATGGCAAAC
1 AACATTAATGGCAAAC
9326799 AA
1 AA
9326801 TACAAAGTGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.15, G:0.18, T:0.18
Consensus pattern (16 bp):
AACATTAATGGCAAAC
Found at i:9329627 original size:21 final size:21
Alignment explanation
Indices: 9329601--9329641 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
9329591 AGATGAGCAA
* *
9329601 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
9329622 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
9329642 TTGAGCAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:9331580 original size:16 final size:16
Alignment explanation
Indices: 9331547--9331580 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
9331537 GGAGATTGTT
* *
9331547 AACATTAATGGGAGAC
1 AACATTAATGGCAAAC
9331563 AACATTAATGGCAAAC
1 AACATTAATGGCAAAC
9331579 AA
1 AA
9331581 TACAAAGTGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.15, G:0.18, T:0.18
Consensus pattern (16 bp):
AACATTAATGGCAAAC
Found at i:9332780 original size:41 final size:40
Alignment explanation
Indices: 9332748--9332857 Score: 141
Period size: 41 Copynumber: 2.7 Consensus size: 40
9332738 ATGTCCTGGT
9332748 CTTTAGCAGCGTTTTTGGAGAAGCGCCGCTAATGCTCAGAG
1 CTTTAGCAGCGTTTTTGGAGAAGCGCCGCTAATGCTCAG-G
* * * * *
9332789 ATTTAGCGGTGTTTTTGGAAAAGCGCCGCTAATGCTCAGAA
1 CTTTAGCAGCGTTTTTGGAGAAGCGCCGCTAATGCTCAG-G
9332830 CTTTAG-AGTCGTTTTTGGAGAAGCGCCG
1 CTTTAGCAG-CGTTTTTGGAGAAGCGCCG
9332858 TTAAAACATT
Statistics
Matches: 59, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
40 1 0.02
41 58 0.98
ACGTcount: A:0.23, C:0.19, G:0.29, T:0.29
Consensus pattern (40 bp):
CTTTAGCAGCGTTTTTGGAGAAGCGCCGCTAATGCTCAGG
Found at i:9333282 original size:14 final size:15
Alignment explanation
Indices: 9333254--9333286 Score: 59
Period size: 14 Copynumber: 2.3 Consensus size: 15
9333244 AACGTTTATA
9333254 GATTATGGAATTAGG
1 GATTATGGAATTAGG
9333269 GATTATGG-ATTAGG
1 GATTATGGAATTAGG
9333283 GATT
1 GATT
9333287 CTGGTTTAAG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 10 0.56
15 8 0.44
ACGTcount: A:0.30, C:0.00, G:0.33, T:0.36
Consensus pattern (15 bp):
GATTATGGAATTAGG
Found at i:9333434 original size:7 final size:7
Alignment explanation
Indices: 9333421--9333473 Score: 63
Period size: 7 Copynumber: 7.7 Consensus size: 7
9333411 TTAAATAAGA
9333421 TTTAGGG
1 TTTAGGG
*
9333428 GTTAGGG
1 TTTAGGG
*
9333435 GTTAGGG
1 TTTAGGG
* *
9333442 ATT-CGG
1 TTTAGGG
9333448 TTTAGGG
1 TTTAGGG
9333455 TTTAGGG
1 TTTAGGG
9333462 TTTAGGG
1 TTTAGGG
9333469 TTTAG
1 TTTAG
9333474 ATAAATTAGT
Statistics
Matches: 40, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
6 4 0.10
7 36 0.90
ACGTcount: A:0.15, C:0.02, G:0.43, T:0.40
Consensus pattern (7 bp):
TTTAGGG
Found at i:9333542 original size:14 final size:14
Alignment explanation
Indices: 9333512--9333555 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
9333502 TAAATAAGGT
*
9333512 TTAGGGGTTAGTAG
1 TTAGGGGTTAGGAG
*
9333526 TTAGGGGTTAGGGG
1 TTAGGGGTTAGGAG
* *
9333540 TTAGTGGTTAAGAG
1 TTAGGGGTTAGGAG
9333554 TT
1 TT
9333556 GTGATTTGGG
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
14 25 1.00
ACGTcount: A:0.20, C:0.00, G:0.43, T:0.36
Consensus pattern (14 bp):
TTAGGGGTTAGGAG
Found at i:9333673 original size:7 final size:7
Alignment explanation
Indices: 9333661--9333703 Score: 59
Period size: 7 Copynumber: 6.1 Consensus size: 7
9333651 ATTGTAAAAG
9333661 AGGGGTT
1 AGGGGTT
9333668 AGGGGTT
1 AGGGGTT
*
9333675 AGAGGTT
1 AGGGGTT
* *
9333682 AAGGATT
1 AGGGGTT
9333689 AGGGGTT
1 AGGGGTT
9333696 AGGGGTT
1 AGGGGTT
9333703 A
1 A
9333704 TGGATAGGTA
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
7 30 1.00
ACGTcount: A:0.23, C:0.00, G:0.49, T:0.28
Consensus pattern (7 bp):
AGGGGTT
Found at i:9333692 original size:21 final size:21
Alignment explanation
Indices: 9333666--9333708 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
9333656 AAAAGAGGGG
9333666 TTAGGGGTTAGAGGTTAAGGA
1 TTAGGGGTTAGAGGTTAAGGA
* *
9333687 TTAGGGGTTAGGGGTTATGGA
1 TTAGGGGTTAGAGGTTAAGGA
9333708 T
1 T
9333709 AGGTAACTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.23, C:0.00, G:0.44, T:0.33
Consensus pattern (21 bp):
TTAGGGGTTAGAGGTTAAGGA
Found at i:9337919 original size:26 final size:27
Alignment explanation
Indices: 9337869--9337938 Score: 108
Period size: 26 Copynumber: 2.6 Consensus size: 27
9337859 AAAAATAAAA
*
9337869 ATTTACCAAAATGT-TATAACTTTTTTT
1 ATTTACCAAAATATATATAAC-TTTTTT
9337896 ATTTACCAAAATATATATAA-TTTTTT
1 ATTTACCAAAATATATATAACTTTTTT
9337922 ATTTACCAAAATATATA
1 ATTTACCAAAATATATA
9337939 AAAAAACAAA
Statistics
Matches: 41, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
26 23 0.56
27 13 0.32
28 5 0.12
ACGTcount: A:0.41, C:0.10, G:0.01, T:0.47
Consensus pattern (27 bp):
ATTTACCAAAATATATATAACTTTTTT
Found at i:9337963 original size:10 final size:9
Alignment explanation
Indices: 9337938--9337962 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
9337928 CAAAATATAT
9337938 AAAAAAACA
1 AAAAAAACA
9337947 AAAAAAACA
1 AAAAAAACA
9337956 AAAAAAA
1 AAAAAAA
9337963 AAACCTGCAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.92, C:0.08, G:0.00, T:0.00
Consensus pattern (9 bp):
AAAAAAACA
Found at i:9338047 original size:27 final size:27
Alignment explanation
Indices: 9338017--9338083 Score: 107
Period size: 27 Copynumber: 2.5 Consensus size: 27
9338007 CGCCAATGGT
9338017 ATTGGCGGCACCAAAGGTGCCAAAACC
1 ATTGGCGGCACCAAAGGTGCCAAAACC
* * *
9338044 ATTGGCGGCATCAATGGTGCCAATACC
1 ATTGGCGGCACCAAAGGTGCCAAAACC
9338071 ATTGGCGGCACCA
1 ATTGGCGGCACCA
9338084 GTTAATAATA
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 36 1.00
ACGTcount: A:0.28, C:0.28, G:0.27, T:0.16
Consensus pattern (27 bp):
ATTGGCGGCACCAAAGGTGCCAAAACC
Found at i:9338137 original size:4 final size:4
Alignment explanation
Indices: 9338123--9338253 Score: 85
Period size: 4 Copynumber: 32.2 Consensus size: 4
9338113 GAGCAGAAGG
* *
9338123 AGAA GGAA AGAA AGAA AGAA AGGAGA GGAA AGAA AG-A A-AA AGAA AGAA
1 AGAA AGAA AGAA AGAA AGAA A-GA-A AGAA AGAA AGAA AGAA AGAA AGAA
* * * *
9338171 AGGAGA GGAA AG-G AGAA GAGAA AAAA AGAA AG-A AG-A AGAA AAAA AGGAAA
1 A-GA-A AGAA AGAA AGAA -AGAA AGAA AGAA AGAA AGAA AGAA AGAA A-G-AA
*
9338221 AGAGA AGAA A-AA AGAA AGAA AGAA GGAA AGAA A
1 AGA-A AGAA AGAA AGAA AGAA AGAA AGAA AGAA A
9338254 AGGAAAGGAA
Statistics
Matches: 100, Mismatches: 14, Indels: 26
0.71 0.10 0.19
Matches are distributed among these distances:
3 15 0.15
4 63 0.63
5 17 0.17
6 5 0.05
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (4 bp):
AGAA
Found at i:9338151 original size:22 final size:23
Alignment explanation
Indices: 9338119--9338286 Score: 91
Period size: 24 Copynumber: 7.0 Consensus size: 23
9338109 GTGGGAGCAG
9338119 AAGGAGAAGGAAAGAAAGAAAGA
1 AAGGAGAAGGAAAGAAAGAAAGA
9338142 AAGGAG-AGGAAAGAAAGAAAAAGA
1 AAGGAGAAGGAAAGAAAG--AAAGA
*
9338166 AA-GA-AAGGAGAGGAAAGGAGAAGA
1 AAGGAGAAGGA-AAGAAA-GA-AAGA
* * *
9338190 GAA--AAAAAGAAAGAAGAAGAAAAA
1 -AAGGAGAAGGAAAG-A-AAGAAAGA
*
9338214 AAGGA-AAAGAGAAGAAA-AAAGA
1 AAGGAGAAGGA-AAGAAAGAAAGA
*
9338236 AAGAAAGAAGGAAAGAAAAGGAAAGGA
1 AAG-GAGAAGGAAAG-AAA-GAAA-GA
*
9338263 AAGGAGAAGAGAAA-AAAAAAAGA
1 AAGGAGAAG-GAAAGAAAGAAAGA
9338286 A
1 A
9338287 GAAGAAGAGG
Statistics
Matches: 116, Mismatches: 9, Indels: 40
0.70 0.05 0.24
Matches are distributed among these distances:
22 18 0.16
23 24 0.21
24 38 0.33
25 17 0.15
26 10 0.09
27 9 0.08
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (23 bp):
AAGGAGAAGGAAAGAAAGAAAGA
Found at i:9338153 original size:14 final size:14
Alignment explanation
Indices: 9338136--9338182 Score: 67
Period size: 14 Copynumber: 3.4 Consensus size: 14
9338126 AGGAAAGAAA
9338136 GAAAGAAAGGAGAG
1 GAAAGAAAGGAGAG
* * *
9338150 GAAAGAAAGAAAAA
1 GAAAGAAAGGAGAG
9338164 GAAAGAAAGGAGAG
1 GAAAGAAAGGAGAG
9338178 GAAAG
1 GAAAG
9338183 GAGAAGAGAA
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
14 27 1.00
ACGTcount: A:0.64, C:0.00, G:0.36, T:0.00
Consensus pattern (14 bp):
GAAAGAAAGGAGAG
Found at i:9338164 original size:10 final size:10
Alignment explanation
Indices: 9338151--9338292 Score: 69
Period size: 10 Copynumber: 13.6 Consensus size: 10
9338141 AAAGGAGAGG
9338151 AAAGAAAGAA
1 AAAGAAAGAA
9338161 AAAGAAAG-A
1 AAAGAAAGAA
* * *
9338170 AAGGAGAGGA
1 AAAGAAAGAA
*
9338180 AAGGAGAAGAGA
1 AAAGA-AAGA-A
9338192 AAA-AAAGAA
1 AAAGAAAGAA
9338201 AGAAG-AAG-A
1 A-AAGAAAGAA
*
9338210 AAA-AAAGGA
1 AAAGAAAGAA
9338219 AAAGAGAAGAAA
1 AAAGA-AAG-AA
9338231 AAAGAAAGAA
1 AAAGAAAGAA
9338241 AGAAGGAAAGAA
1 A-AA-GAAAGAA
*
9338253 AAGGAAAGGAA
1 AAAGAAA-GAA
*
9338264 AGGAGAAGAGAAA
1 A-AAGAA-AG-AA
*
9338277 AAAAAAAGAA
1 AAAGAAAGAA
*
9338287 GAAGAA
1 AAAGAA
9338293 GAGGGAAGGA
Statistics
Matches: 103, Mismatches: 13, Indels: 32
0.70 0.09 0.22
Matches are distributed among these distances:
8 5 0.05
9 15 0.15
10 37 0.36
11 18 0.17
12 24 0.23
13 4 0.04
ACGTcount: A:0.71, C:0.00, G:0.29, T:0.00
Consensus pattern (10 bp):
AAAGAAAGAA
Found at i:9338184 original size:5 final size:5
Alignment explanation
Indices: 9338119--9338267 Score: 61
Period size: 5 Copynumber: 31.0 Consensus size: 5
9338109 GTGGGAGCAG
* * *
9338119 AAGGA GAAGGA AA-GA AA-GA AA-GA AAGGA GAGGA AA-GA AAGAA AAAGA
1 AAGGA -AAGGA AAGGA AAGGA AAGGA AAGGA AAGGA AAGGA AAGGA AAGGA
* * *
9338166 AA-GA AAGGA GAGGA AAGGA GAAGAGA AA--A AAAGA AA-GA AGAAGA
1 AAGGA AAGGA AAGGA AAGGA -AAG-GA AAGGA AAGGA AAGGA A-AGGA
* * * * *
9338210 AA-AA AAGGA AAAGA GAAGAAA AAAGA AA-GA AA-G- AAGGA AAGAA AAGGA
1 AAGGA AAGGA AAGGA -AAG-GA AAGGA AAGGA AAGGA AAGGA AAGGA AAGGA
9338258 AAGGA AAGGA
1 AAGGA AAGGA
9338268 GAAGAGAAAA
Statistics
Matches: 113, Mismatches: 16, Indels: 29
0.72 0.10 0.18
Matches are distributed among these distances:
3 5 0.04
4 32 0.28
5 56 0.50
6 17 0.15
7 3 0.03
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (5 bp):
AAGGA
Found at i:9338217 original size:44 final size:44
Alignment explanation
Indices: 9338151--9338292 Score: 174
Period size: 44 Copynumber: 3.4 Consensus size: 44
9338141 AAAGGAGAGG
* *
9338151 AAAGAAAGAAAAAGAAAGAAAGGAGAGGAAAGGAGAAGAGAAAA
1 AAAGAAAGAAGAAGAAAAAAAGGAGAGGAAAGGAGAAGAGAAAA
*
9338195 AAAGAAAGAAGAAGAAAAAAA-G-GA--AAA-GAGAAGAAAAAA
1 AAAGAAAGAAGAAGAAAAAAAGGAGAGGAAAGGAGAAGAGAAAA
*
9338234 GAAAGAAAGAAG--GAAAGAAAAGGAAAGGAAAGGAGAAGAGAAAA
1 -AAAGAAAGAAGAAGAAA-AAAAGGAGAGGAAAGGAGAAGAGAAAA
9338278 AAA-AAAGAAGAAGAA
1 AAAGAAAGAAGAAGAA
9338293 GAGGGAAGGA
Statistics
Matches: 84, Mismatches: 5, Indels: 18
0.79 0.05 0.17
Matches are distributed among these distances:
38 4 0.05
39 15 0.18
40 15 0.18
41 1 0.01
42 9 0.11
43 7 0.08
44 33 0.39
ACGTcount: A:0.71, C:0.00, G:0.29, T:0.00
Consensus pattern (44 bp):
AAAGAAAGAAGAAGAAAAAAAGGAGAGGAAAGGAGAAGAGAAAA
Found at i:9338295 original size:22 final size:22
Alignment explanation
Indices: 9338191--9338295 Score: 71
Period size: 22 Copynumber: 4.9 Consensus size: 22
9338181 AGGAGAAGAG
9338191 AAAAAAAGAAAGAAGAAGA-AAA
1 AAAAAAAG-AAGAAGAAGAGAAA
9338213 AAAGGAAAAG-AGAAGAA-A-AAA
1 AAA--AAAAGAAGAAGAAGAGAAA
*
9338234 GAAAGAAAGAAG--GAA-AGAAA
1 -AAAAAAAGAAGAAGAAGAGAAA
** * *
9338254 AGGAAAGGAAAGGAGAAGAGAAA
1 AAAAAAAG-AAGAAGAAGAGAAA
9338277 AAAAAAAGAAGAAGAAGAG
1 AAAAAAAGAAGAAGAAGAG
9338296 GGAAGGAAGG
Statistics
Matches: 65, Mismatches: 9, Indels: 18
0.71 0.10 0.20
Matches are distributed among these distances:
19 8 0.12
20 10 0.15
21 6 0.09
22 26 0.40
23 10 0.15
24 5 0.08
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (22 bp):
AAAAAAAGAAGAAGAAGAGAAA
Found at i:9339024 original size:16 final size:16
Alignment explanation
Indices: 9339003--9339034 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
9338993 TTTATTTACC
9339003 GAAATAATAGAGGAAA
1 GAAATAATAGAGGAAA
9339019 GAAATAATAGAGGAAA
1 GAAATAATAGAGGAAA
9339035 AAAAAGGGTG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.62, C:0.00, G:0.25, T:0.12
Consensus pattern (16 bp):
GAAATAATAGAGGAAA
Found at i:9339829 original size:161 final size:159
Alignment explanation
Indices: 9339323--9339889 Score: 556
Period size: 158 Copynumber: 3.5 Consensus size: 159
9339313 AAGAAAATGT
*
9339323 ACTGAAATAATATAAAACAATAAAA-TACGAGAATAATAT-ATTTTTATTTAAAGTAATAAAAAT
1 ACTGAAATAATATAAAACAATAAAATTA-GA-AAT--TATGATATTT-TTTAAAGTAATAAAAAT
*
9339386 CGAGAAAATAATACGAGTAAA-GGACAGGGGTAAGGGTTATTTTTTTACACCAAATTAATTTAAA
61 CGAGAAAATAATACGAGTAAATGG-CAGGGGTAAGGGTTATTTTTTTATACCAAATTAATTTAAA
9339450 TAACACACTAGAGTAATAAATTTCAAACATTATGC
125 TAACACACTAGAGTAATAAATTTCAAACATTATGC
* * **
9339485 ATTGAAATAATGTAAAATTATAAAATTAGAAATTATGATATTTTTTAAAGTAAT-AAAATGCGGA
1 ACTGAAATAATATAAAACAATAAAATTAGAAATTATGATATTTTTTAAAGTAATAAAAAT-C-GA
* * * ** * * *
9339549 GAAAAAAATATGAATAAATGGCAGAAGTAAGAGTGTATTACTAACTTTTATA--AAATTCA--GA
64 GAAAATAATACGAGTAAATGGCAGGGGTAAGGGT-TATT--T---TTTTATACCAAATTAATTTA
* * * * ** *
9339610 AATAATTA-A-TACA--AA-ATATTTCAAAGAAAATAC
123 AATAA-CACACTAGAGTAATAAATTTCAAACATTATGC
*
9339643 ACTGAAATAATATAAAACAATAAAA-TACGAGAATAATAT-ATTTTTATTTAAAGTAATAAAAAT
1 ACTGAAATAATATAAAACAATAAAATTA-GA-AAT--TATGATATTT-TTTAAAGTAATAAAAAT
*
9339706 CGAGAAAATAATA-GAGCAAATGGCAGGGGTAAGGGTTATTTTTTTATACCAAATTAATTTAAAT
61 CGAGAAAATAATACGAGTAAATGGCAGGGGTAAGGGTTATTTTTTTATACCAAATTAATTTAAAT
9339770 AACACACTAGAGTAATAAATTTCAAACATTATGC
126 AACACACTAGAGTAATAAATTTCAAACATTATGC
* * **
9339804 ACTGGAATAATGTAAAATTATAAAATTAGAAATTATGATATTTTTTAAAGTAAT-AAAATGCGGA
1 ACTGAAATAATATAAAACAATAAAATTAGAAATTATGATATTTTTTAAAGTAATAAAAAT-C-GA
* *
9339868 GAAAAAAATACGAATAAATGGC
64 GAAAATAATACGAGTAAATGGC
9339890 CGAAGTAAGT
Statistics
Matches: 324, Mismatches: 49, Indels: 66
0.74 0.11 0.15
Matches are distributed among these distances:
153 7 0.02
155 6 0.02
156 2 0.01
157 14 0.04
158 63 0.19
159 54 0.17
160 62 0.19
161 63 0.19
162 37 0.11
163 4 0.01
164 6 0.02
166 6 0.02
ACGTcount: A:0.50, C:0.07, G:0.13, T:0.30
Consensus pattern (159 bp):
ACTGAAATAATATAAAACAATAAAATTAGAAATTATGATATTTTTTAAAGTAATAAAAATCGAGA
AAATAATACGAGTAAATGGCAGGGGTAAGGGTTATTTTTTTATACCAAATTAATTTAAATAACAC
ACTAGAGTAATAAATTTCAAACATTATGC
Found at i:9339885 original size:319 final size:320
Alignment explanation
Indices: 9339129--9339915 Score: 1330
Period size: 320 Copynumber: 2.5 Consensus size: 320
9339119 TATTCTCCCT
* * * * *
9339129 TAACACACTAAATTAATAAATTTCAAACATGATGCACTGAAATAATGTAAAAATATAAAAGACTA
1 TAACACACTAGAGTAATAAATTTCAAACATTATGCACTGAAATAATGTAAAATTAT-AAA-ATTA
** *
9339194 -AGTTTATGATATTTTTTAAAGTAATAAAATGCGGAGAAAAAAATATGAACAAATGGCAGAAGTA
64 GAAATTATGATATTTTTTAAAGTAATAAAATGCGGAGAAAAAAATATGAATAAATGGCAGAAGTA
* **
9339258 AAAGTGTATTACTAACTTTTATAAAATTCAAAAATAATTAATACAAAATATTTCAAAGAAAATGT
129 AGAGTGTATTACTAACTTTTATAAAATTCAAAAATAATTAATACAAAATATTTCAAAGAAAATAC
9339323 ACTGAAATAATATAAAACAATAAAATACGAGAATAATATATTTTTATTTAAAGTAATAAAAATCG
194 ACTGAAATAATATAAAACAATAAAATACGAGAATAATATATTTTTATTTAAAGTAATAAAAATCG
*
9339388 AGAAAATAATACGAGTAAAGGACAGGGGTAAGGGTTATTTTTTTACACCAAATTAATTTAAA
259 AGAAAATAATACGAGCAAAGGACAGGGGTAAGGGTTATTTTTTTACACCAAATTAATTTAAA
*
9339450 TAACACACTAGAGTAATAAATTTCAAACATTATGCATTGAAATAATGTAAAATTATAAAATTAGA
1 TAACACACTAGAGTAATAAATTTCAAACATTATGCACTGAAATAATGTAAAATTATAAAATTAGA
9339515 AATTATGATATTTTTTAAAGTAATAAAATGCGGAGAAAAAAATATGAATAAATGGCAGAAGTAAG
66 AATTATGATATTTTTTAAAGTAATAAAATGCGGAGAAAAAAATATGAATAAATGGCAGAAGTAAG
*
9339580 AGTGTATTACTAACTTTTATAAAATTCAGAAATAATTAATACAAAATATTTCAAAGAAAATACAC
131 AGTGTATTACTAACTTTTATAAAATTCAAAAATAATTAATACAAAATATTTCAAAGAAAATACAC
9339645 TGAAATAATATAAAACAATAAAATACGAGAATAATATATTTTTATTTAAAGTAATAAAAATCGAG
196 TGAAATAATATAAAACAATAAAATACGAGAATAATATATTTTTATTTAAAGTAATAAAAATCGAG
*
9339710 AAAATAATA-GAGCAAATGG-CAGGGGTAAGGGTTATTTTTTTATACCAAATTAATTTAAA
261 AAAATAATACGAGCAAA-GGACAGGGGTAAGGGTTATTTTTTTACACCAAATTAATTTAAA
*
9339769 TAACACACTAGAGTAATAAATTTCAAACATTATGCACTGGAATAATGTAAAATTATAAAATTAGA
1 TAACACACTAGAGTAATAAATTTCAAACATTATGCACTGAAATAATGTAAAATTATAAAATTAGA
* *
9339834 AATTATGATATTTTTTAAAGTAATAAAATGCGGAGAAAAAAATACGAATAAATGGCCGAAGTAAG
66 AATTATGATATTTTTTAAAGTAATAAAATGCGGAGAAAAAAATATGAATAAATGGCAGAAGTAAG
* * *
9339899 -TTTTTTTACTAACTTTT
131 AGTGTATTACTAACTTTT
9339916 TTTTCAACTT
Statistics
Matches: 442, Mismatches: 22, Indels: 7
0.94 0.05 0.01
Matches are distributed among these distances:
318 14 0.03
319 174 0.39
320 203 0.46
321 51 0.12
ACGTcount: A:0.50, C:0.08, G:0.12, T:0.31
Consensus pattern (320 bp):
TAACACACTAGAGTAATAAATTTCAAACATTATGCACTGAAATAATGTAAAATTATAAAATTAGA
AATTATGATATTTTTTAAAGTAATAAAATGCGGAGAAAAAAATATGAATAAATGGCAGAAGTAAG
AGTGTATTACTAACTTTTATAAAATTCAAAAATAATTAATACAAAATATTTCAAAGAAAATACAC
TGAAATAATATAAAACAATAAAATACGAGAATAATATATTTTTATTTAAAGTAATAAAAATCGAG
AAAATAATACGAGCAAAGGACAGGGGTAAGGGTTATTTTTTTACACCAAATTAATTTAAA
Found at i:9344710 original size:26 final size:26
Alignment explanation
Indices: 9344680--9344731 Score: 86
Period size: 26 Copynumber: 2.0 Consensus size: 26
9344670 CACCACTGAA
9344680 TTGGGGAATCAGCACACAGCAACCCC
1 TTGGGGAATCAGCACACAGCAACCCC
**
9344706 TTGGGGAATCAGCACTTAGCAACCCC
1 TTGGGGAATCAGCACACAGCAACCCC
9344732 CTTTTTCATT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.29, C:0.33, G:0.23, T:0.15
Consensus pattern (26 bp):
TTGGGGAATCAGCACACAGCAACCCC
Found at i:9344860 original size:104 final size:103
Alignment explanation
Indices: 9344659--9345017 Score: 506
Period size: 103 Copynumber: 3.5 Consensus size: 103
9344649 GGTGGATCCC
* * ** *
9344659 GCACTTAGC-ACCACCACTGAATTGGGGAATCAGCACACAGCAACCCCTTGGGGAATCAGCACTT
1 GCACTTAGCAACCACCAATGAATAGGGGAATCAGCACTTAGCAACCCCTCGGGGAATCAGCACTT
** * *
9344723 AGCAACCCCCTTTTTCATTTCAAAGATATGGTGGAATCA
66 AGCAACCCCCTTTCACATTT-AAAAATACGGTGGAATCA
* ** *
9344762 GCACTTAGCAACCACCAGTGGGTAGGGGAATCAGCATTTAGCAACCCCTCGGGGGAATCAGCACT
1 GCACTTAGCAACCACCAATGAATAGGGGAATCAGCACTTAGCAACCCCTC-GGGGAATCAGCACT
*
9344827 TAGCAACCCCCTTTCACATTTAAAAATACGGTGGACTCA
65 TAGCAACCCCCTTTCACATTTAAAAATACGGTGGAATCA
* *
9344866 GCACATAGCAACCACCAAT-AAGTAGGGGAATCAGCACTTAGAAACCCCTCGGGGAATCAGCACT
1 GCACTTAGCAACCACCAATGAA-TAGGGGAATCAGCACTTAGCAACCCCTCGGGGAATCAGCACT
9344930 TAGCAACCCCCTTTCACATTTAAAAATACGGTGGAATCA
65 TAGCAACCCCCTTTCACATTTAAAAATACGGTGGAATCA
* **
9344969 GCACTTAGCAACCACCAATGAATCGGGGAATCAGCACACAGCAACCCCT
1 GCACTTAGCAACCACCAATGAATAGGGGAATCAGCACTTAGCAACCCCT
9345018 TTATATGTAA
Statistics
Matches: 227, Mismatches: 25, Indels: 8
0.87 0.10 0.03
Matches are distributed among these distances:
103 102 0.45
104 92 0.41
105 33 0.15
ACGTcount: A:0.32, C:0.29, G:0.20, T:0.19
Consensus pattern (103 bp):
GCACTTAGCAACCACCAATGAATAGGGGAATCAGCACTTAGCAACCCCTCGGGGAATCAGCACTT
AGCAACCCCCTTTCACATTTAAAAATACGGTGGAATCA
Found at i:9344919 original size:26 final size:26
Alignment explanation
Indices: 9344890--9344939 Score: 91
Period size: 26 Copynumber: 1.9 Consensus size: 26
9344880 CCAATAAGTA
9344890 GGGGAATCAGCACTTAGAAACCCCTC
1 GGGGAATCAGCACTTAGAAACCCCTC
*
9344916 GGGGAATCAGCACTTAGCAACCCC
1 GGGGAATCAGCACTTAGAAACCCC
9344940 CTTTCACATT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.30, C:0.32, G:0.24, T:0.14
Consensus pattern (26 bp):
GGGGAATCAGCACTTAGAAACCCCTC
Found at i:9345379 original size:30 final size:29
Alignment explanation
Indices: 9345345--9345409 Score: 76
Period size: 30 Copynumber: 2.2 Consensus size: 29
9345335 TAATCCACCA
9345345 CCCAACTATTTGAAAAATTACAATTTTGCC
1 CCCAACT-TTTGAAAAATTACAATTTTGCC
* * * *
9345375 CCCAAACTTTTGCATAATTACACTTTTGTC
1 CCC-AACTTTTGAAAAATTACAATTTTGCC
9345405 CCCAA
1 CCCAA
9345410 GCTTGGAAAT
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
29 2 0.07
30 24 0.80
31 4 0.13
ACGTcount: A:0.32, C:0.28, G:0.06, T:0.34
Consensus pattern (29 bp):
CCCAACTTTTGAAAAATTACAATTTTGCC
Found at i:9352419 original size:105 final size:104
Alignment explanation
Indices: 9352247--9352607 Score: 519
Period size: 104 Copynumber: 3.5 Consensus size: 104
9352237 AGTGGATCCC
* * * *
9352247 GCACTTAGC-ACCACCACTGAATTGGGGAATCAGCACACAGCAACCCCTTGAGGGAATCAGCACT
1 GCACTTAGCAACCACCAATGAATAGGGGAATCAGCACACAGCAACCCCTCGGGGGAATCAGCACT
** * *
9352311 TAGCAACCCCCTTTTTCATTTCAAAGATATGGTGGAATCA
66 TAGCAACCCCCTTTCACATTT-AAAAATACGGTGGAATCA
* ** * **
9352351 GCACTTAGCAACCACCAGTGGGTAGGGGAATCAACACTTAGCAACCCCTCGGGGGAATCAGCACT
1 GCACTTAGCAACCACCAATGAATAGGGGAATCAGCACACAGCAACCCCTCGGGGGAATCAGCACT
*
9352416 TAGCAACCCCCTTTCACATTTAAAAATACGGTGGACTCA
66 TAGCAACCCCCTTTCACATTTAAAAATACGGTGGAATCA
* **
9352455 GCACATAGCAACCACCAAT-AAGTAGGGGAATCAGCACTTAGCAACCCCTCGGGGGAATCAGCAC
1 GCACTTAGCAACCACCAATGAA-TAGGGGAATCAGCACACAGCAACCCCTCGGGGGAATCAGCAC
9352519 TTAGCAACCCCCTTTCACATTTAAAAATACGGTGGAATCA
65 TTAGCAACCCCCTTTCACATTTAAAAATACGGTGGAATCA
*
9352559 GCACTTAGCAACCACCAATGAATCGGGGAATCAGCACACAGCAACCCCT
1 GCACTTAGCAACCACCAATGAATAGGGGAATCAGCACACAGCAACCCCT
9352608 TTATATGTAA
Statistics
Matches: 230, Mismatches: 24, Indels: 6
0.88 0.09 0.02
Matches are distributed among these distances:
104 163 0.71
105 67 0.29
ACGTcount: A:0.32, C:0.29, G:0.20, T:0.19
Consensus pattern (104 bp):
GCACTTAGCAACCACCAATGAATAGGGGAATCAGCACACAGCAACCCCTCGGGGGAATCAGCACT
TAGCAACCCCCTTTCACATTTAAAAATACGGTGGAATCA
Found at i:9355546 original size:3 final size:3
Alignment explanation
Indices: 9355538--9355575 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
9355528 TCTTAATACT
9355538 AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AA
1 AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AA
9355576 TAATAATAAT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.68, C:0.32, G:0.00, T:0.00
Consensus pattern (3 bp):
AAC
Found at i:9355666 original size:19 final size:21
Alignment explanation
Indices: 9355642--9355680 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
9355632 ACTAAAACAA
*
9355642 AAAAT-ATTACAA-AATATAC
1 AAAATAATAACAACAATATAC
9355661 AAAATAATAACAACAATATA
1 AAAATAATAACAACAATATA
9355681 ATCAAAAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 5 0.29
20 6 0.35
21 6 0.35
ACGTcount: A:0.67, C:0.10, G:0.00, T:0.23
Consensus pattern (21 bp):
AAAATAATAACAACAATATAC
Found at i:9355851 original size:27 final size:27
Alignment explanation
Indices: 9355821--9355902 Score: 128
Period size: 27 Copynumber: 3.0 Consensus size: 27
9355811 ATCAATATGA
9355821 CACCATTGGTGCCGCCAATGGCATTGG
1 CACCATTGGTGCCGCCAATGGCATTGG
**
9355848 CACCATTGGTGCCGCCAATGGTTTTGG
1 CACCATTGGTGCCGCCAATGGCATTGG
* *
9355875 CACCTTTGGTGCCGCCAATGCCATTGG
1 CACCATTGGTGCCGCCAATGGCATTGG
9355902 C
1 C
9355903 GTGACCAATG
Statistics
Matches: 49, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 49 1.00
ACGTcount: A:0.16, C:0.30, G:0.28, T:0.26
Consensus pattern (27 bp):
CACCATTGGTGCCGCCAATGGCATTGG
Found at i:9356020 original size:26 final size:26
Alignment explanation
Indices: 9355959--9356029 Score: 99
Period size: 27 Copynumber: 2.7 Consensus size: 26
9355949 TTTTGTTTTT
9355959 TTAT-ATATTTTGGTAAATAAAAAAA
1 TTATAATATTTTGGTAAATAAAAAAA
* *
9355984 TTATATGTATTTTGGTAAATAAAAAAG
1 TTATA-ATATTTTGGTAAATAAAAAAA
*
9356011 TTATAATATTTTGATAAAT
1 TTATAATATTTTGGTAAAT
9356030 TTTTATTTTT
Statistics
Matches: 40, Mismatches: 4, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
25 4 0.10
26 12 0.30
27 24 0.60
ACGTcount: A:0.46, C:0.00, G:0.10, T:0.44
Consensus pattern (26 bp):
TTATAATATTTTGGTAAATAAAAAAA
Found at i:9356045 original size:18 final size:19
Alignment explanation
Indices: 9356019--9356054 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
9356009 AGTTATAATA
9356019 TTTTGATAA-ATTTTTATT
1 TTTTGATAATATTTTTATT
*
9356037 TTTTTATAATATTTTTAT
1 TTTTGATAATATTTTTAT
9356055 AAAAAACCCT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.28, C:0.00, G:0.03, T:0.69
Consensus pattern (19 bp):
TTTTGATAATATTTTTATT
Found at i:9356051 original size:11 final size:11
Alignment explanation
Indices: 9356011--9356056 Score: 55
Period size: 11 Copynumber: 4.5 Consensus size: 11
9356001 AATAAAAAAG
9356011 TTATAATATTT
1 TTATAATATTT
*
9356022 TGATAA-ATTT
1 TTATAATATTT
9356032 TTAT--T-TTT
1 TTATAATATTT
9356040 TTATAATATTT
1 TTATAATATTT
9356051 TTATAA
1 TTATAA
9356057 AAAACCCTCC
Statistics
Matches: 29, Mismatches: 2, Indels: 8
0.74 0.05 0.21
Matches are distributed among these distances:
8 7 0.24
10 8 0.28
11 14 0.48
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (11 bp):
TTATAATATTT
Found at i:9357159 original size:15 final size:14
Alignment explanation
Indices: 9357133--9357175 Score: 50
Period size: 15 Copynumber: 2.9 Consensus size: 14
9357123 TCATAGAAAT
*
9357133 AAATATTATTTAAA
1 AAATATTTTTTAAA
9357147 AAATTATTTTTTAAA
1 AAA-TATTTTTTAAA
*
9357162 AGATATGTTTTTAA
1 AAATAT-TTTTTAA
9357176 CGGCGTTTGT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
14 6 0.24
15 19 0.76
ACGTcount: A:0.47, C:0.00, G:0.05, T:0.49
Consensus pattern (14 bp):
AAATATTTTTTAAA
Found at i:9357330 original size:86 final size:86
Alignment explanation
Indices: 9357178--9357399 Score: 279
Period size: 86 Copynumber: 2.6 Consensus size: 86
9357168 GTTTTTAACG
*
9357178 GCGTTTGTGTGAAAAGCGCCGCTAAAGGT-CTGTTCTATAGCGGCGTTTGTGGGAAAAAGCGCCG
1 GCGTTTGTGTGAAAAGCGCCGCTAAAGGTCCTGATCTATAGCGGCGTTT-TGGGAAAAAGCGCCG
* *
9357242 CTAAAGGTCTTTATCTATAGCA
65 CTAAAGGTCCTAATCTATAGCA
* * * * *
9357264 GTGTTTGTG-GAACAAGCGCCGCTAAAAGTCCTGATCTATAGCGGCGTTTTGTGAAGAAGCGTCG
1 GCGTTTGTGTGAA-AAGCGCCGCTAAAGGTCCTGATCTATAGCGGCGTTTTGGGAAAAAGCGCCG
*
9357328 CTAAAGGTCCTAATCTATAGCG
65 CTAAAGGTCCTAATCTATAGCA
*** *
9357350 GCGTTTTGTGTGGTTA-CGCCGCTAAAGGTCCTAATCTATAGCGGCGTTTT
1 GCG-TTTGTGTGAAAAGCGCCGCTAAAGGTCCTGATCTATAGCGGCGTTTT
9357400 TTGCGGCGCT
Statistics
Matches: 117, Mismatches: 15, Indels: 8
0.84 0.11 0.06
Matches are distributed among these distances:
85 3 0.03
86 88 0.75
87 25 0.21
88 1 0.01
ACGTcount: A:0.23, C:0.19, G:0.28, T:0.29
Consensus pattern (86 bp):
GCGTTTGTGTGAAAAGCGCCGCTAAAGGTCCTGATCTATAGCGGCGTTTTGGGAAAAAGCGCCGC
TAAAGGTCCTAATCTATAGCA
Found at i:9357399 original size:43 final size:43
Alignment explanation
Indices: 9357176--9357399 Score: 249
Period size: 43 Copynumber: 5.2 Consensus size: 43
9357166 ATGTTTTTAA
**
9357176 CGGCGTTTGTGTGAA-AAGCGCCGCTAAAGGT-CTGTTCTATAG
1 CGGCGTTT-TGTGAAGAAGCGCCGCTAAAGGTCCTAATCTATAG
* * * *
9357218 CGGCGTTTGTGGGAAAAAGCGCCGCTAAAGGTCTTTATCTATAG
1 CGGCGTTT-TGTGAAGAAGCGCCGCTAAAGGTCCTAATCTATAG
* * * * *
9357262 CAGTG-TTTGTGGAACAAGCGCCGCTAAAAGTCCTGATCTATAG
1 CGGCGTTTTGT-GAAGAAGCGCCGCTAAAGGTCCTAATCTATAG
*
9357305 CGGCGTTTTGTGAAGAAGCGTCGCTAAAGGTCCTAATCTATAG
1 CGGCGTTTTGTGAAGAAGCGCCGCTAAAGGTCCTAATCTATAG
** *
9357348 CGGCGTTTTGTGTGGTTA-CGCCGCTAAAGGTCCTAATCTATAG
1 CGGCGTTTTGTGAAG-AAGCGCCGCTAAAGGTCCTAATCTATAG
9357391 CGGCGTTTT
1 CGGCGTTTT
9357400 TTGCGGCGCT
Statistics
Matches: 156, Mismatches: 21, Indels: 9
0.84 0.11 0.05
Matches are distributed among these distances:
42 16 0.10
43 123 0.79
44 17 0.11
ACGTcount: A:0.23, C:0.20, G:0.29, T:0.29
Consensus pattern (43 bp):
CGGCGTTTTGTGAAGAAGCGCCGCTAAAGGTCCTAATCTATAG
Found at i:9357502 original size:34 final size:35
Alignment explanation
Indices: 9357454--9357520 Score: 93
Period size: 34 Copynumber: 1.9 Consensus size: 35
9357444 CATTTCTCCC
*
9357454 TCAAATCTTCTTTTCTTTCAAAACC-CCAAAAAAT
1 TCAAATCTTCTTTTCCTTCAAAACCACCAAAAAAT
*
9357488 TCAAAT-TTCTTTTTCCTTGAAAACCACCAAAAA
1 TCAAATCTTC-TTTTCCTTCAAAACCACCAAAAA
9357521 GAGGTTATTT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
33 3 0.10
34 19 0.66
35 7 0.24
ACGTcount: A:0.39, C:0.25, G:0.01, T:0.34
Consensus pattern (35 bp):
TCAAATCTTCTTTTCCTTCAAAACCACCAAAAAAT
Found at i:9359308 original size:33 final size:33
Alignment explanation
Indices: 9359268--9359334 Score: 134
Period size: 33 Copynumber: 2.0 Consensus size: 33
9359258 GAGTTCAATG
9359268 ATGGCATGTGTGTTGTCTAATAAAATTGGTTCA
1 ATGGCATGTGTGTTGTCTAATAAAATTGGTTCA
9359301 ATGGCATGTGTGTTGTCTAATAAAATTGGTTCA
1 ATGGCATGTGTGTTGTCTAATAAAATTGGTTCA
9359334 A
1 A
9359335 CGTTAATGTA
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:0.28, C:0.09, G:0.24, T:0.39
Consensus pattern (33 bp):
ATGGCATGTGTGTTGTCTAATAAAATTGGTTCA
Found at i:9380869 original size:17 final size:18
Alignment explanation
Indices: 9380839--9380872 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
9380829 ATTTTGCCGA
*
9380839 GGCATTATTGTTAGTAAG
1 GGCATTATTCTTAGTAAG
9380857 GGCA-TATTCTTAGTAA
1 GGCATTATTCTTAGTAA
9380873 TCCCGACCTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.29, C:0.09, G:0.24, T:0.38
Consensus pattern (18 bp):
GGCATTATTCTTAGTAAG
Found at i:9382756 original size:28 final size:25
Alignment explanation
Indices: 9382724--9382788 Score: 62
Period size: 23 Copynumber: 2.5 Consensus size: 25
9382714 GTCACTTACT
9382724 TTAAAGAATGTTAAATGTACAATTTTGA
1 TTAAAGAATGTT--AT-TACAATTTTGA
*
9382752 TTAAA-TAT-TTATTACAATTTTGA
1 TTAAAGAATGTTATTACAATTTTGA
9382775 TTAAATGAAATGTT
1 TTAAA-G-AATGTT
9382789 CATCCTTGAC
Statistics
Matches: 31, Mismatches: 2, Indels: 9
0.74 0.05 0.21
Matches are distributed among these distances:
23 16 0.52
24 2 0.06
26 4 0.13
27 4 0.13
28 5 0.16
ACGTcount: A:0.42, C:0.03, G:0.11, T:0.45
Consensus pattern (25 bp):
TTAAAGAATGTTATTACAATTTTGA
Found at i:9383434 original size:20 final size:19
Alignment explanation
Indices: 9383404--9383472 Score: 61
Period size: 19 Copynumber: 3.6 Consensus size: 19
9383394 GCTTTGTGAA
9383404 CCAAGATGCACATTC-TGTG
1 CCAAGATGCAC-TTCGTGTG
9383423 CCAAGAATGCACTTCGTGTG
1 CCAAG-ATGCACTTCGTGTG
* * *
9383443 -CTAGTATGCACTTTGTGCG
1 CCAAG-ATGCACTTCGTGTG
*
9383462 CCAATATGCAC
1 CCAAGATGCAC
9383473 AATACGTGCC
Statistics
Matches: 41, Mismatches: 6, Indels: 6
0.77 0.11 0.11
Matches are distributed among these distances:
19 29 0.71
20 12 0.29
ACGTcount: A:0.25, C:0.26, G:0.22, T:0.28
Consensus pattern (19 bp):
CCAAGATGCACTTCGTGTG
Found at i:9385534 original size:9 final size:9
Alignment explanation
Indices: 9385517--9385547 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
9385507 GAGATTAAAT
*
9385517 TAATATTAA
1 TAATTTTAA
9385526 TAATTTTAA
1 TAATTTTAA
9385535 TAATTTTAA
1 TAATTTTAA
9385544 TAAT
1 TAAT
9385548 ACGATAATTA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (9 bp):
TAATTTTAA
Found at i:9393755 original size:28 final size:27
Alignment explanation
Indices: 9393707--9393766 Score: 77
Period size: 28 Copynumber: 2.2 Consensus size: 27
9393697 ATTTACGTAC
9393707 ATAATAAAAAAAGAGTCATTTTTATAA
1 ATAATAAAAAAAGAGTCATTTTTATAA
* *
9393734 TTAATAAAAAATCAG-GTTATTTTTATAA
1 ATAATAAAAAA--AGAGTCATTTTTATAA
9393762 ATAAT
1 ATAAT
9393767 CACTGGACTT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
27 10 0.36
28 16 0.57
29 2 0.07
ACGTcount: A:0.52, C:0.03, G:0.07, T:0.38
Consensus pattern (27 bp):
ATAATAAAAAAAGAGTCATTTTTATAA
Found at i:9403583 original size:30 final size:31
Alignment explanation
Indices: 9403541--9403607 Score: 77
Period size: 31 Copynumber: 2.2 Consensus size: 31
9403531 ATTTTTTAGC
*
9403541 AAATTTTAATT-AACCTCCT-AAAATTTTTAA
1 AAATTTTAATTAAACCT-CTGAAAAATTTTAA
*
9403571 AAATTATT-ATTAAACCTTTGAAAAATTTTAA
1 AAATT-TTAATTAAACCTCTGAAAAATTTTAA
9403602 AAATTT
1 AAATTT
9403608 CTATTAGGCT
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
30 10 0.31
31 22 0.69
ACGTcount: A:0.46, C:0.09, G:0.01, T:0.43
Consensus pattern (31 bp):
AAATTTTAATTAAACCTCTGAAAAATTTTAA
Found at i:9403908 original size:21 final size:22
Alignment explanation
Indices: 9403879--9403919 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
9403869 TCTATTTAAA
* *
9403879 AATATAAATAT-TTATATATCT
1 AATAAAAATATATAATATATCT
9403900 AATAAAAATATATAATATAT
1 AATAAAAATATATAATATAT
9403920 TGTATGTTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 10 0.59
22 7 0.41
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.41
Consensus pattern (22 bp):
AATAAAAATATATAATATATCT
Found at i:9415241 original size:5 final size:5
Alignment explanation
Indices: 9415115--9415223 Score: 202
Period size: 5 Copynumber: 22.0 Consensus size: 5
9415105 ATAATAACTT
9415115 TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA
1 TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA
9415165 TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TAT-A
1 TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA
*
9415214 TATAT TATAA
1 TATAA TATAA
9415224 GCTTTATAAA
Statistics
Matches: 101, Mismatches: 2, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
4 4 0.04
5 97 0.96
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (5 bp):
TATAA
Found at i:9430990 original size:22 final size:22
Alignment explanation
Indices: 9430965--9431033 Score: 102
Period size: 22 Copynumber: 3.1 Consensus size: 22
9430955 TCTTTAATTA
*
9430965 TTAGCACATTAGTGCTCTCCGT
1 TTAGCACATTAGTGCTCTCTGT
*
9430987 TTAGCACATTTGTGCTCTCTGT
1 TTAGCACATTAGTGCTCTCTGT
* *
9431009 ATAGCACTTTAGTGCTCTCTGT
1 TTAGCACATTAGTGCTCTCTGT
9431031 TTA
1 TTA
9431034 ATAGTGCATA
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 41 1.00
ACGTcount: A:0.17, C:0.23, G:0.17, T:0.42
Consensus pattern (22 bp):
TTAGCACATTAGTGCTCTCTGT
Found at i:9432538 original size:26 final size:27
Alignment explanation
Indices: 9432481--9432538 Score: 66
Period size: 27 Copynumber: 2.2 Consensus size: 27
9432471 AGTATCTATT
*
9432481 TTTTTTGTCACAAGTGGTACCTAAATC
1 TTTTTTGTCACAAGTGGCACCTAAATC
* *
9432508 ATTTTT-TCCCAAGTTGGCACCTAAA-C
1 TTTTTTGTCACAAG-TGGCACCTAAATC
9432534 TTTTT
1 TTTTT
9432539 AATTTTTTTT
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
26 11 0.42
27 15 0.58
ACGTcount: A:0.24, C:0.21, G:0.12, T:0.43
Consensus pattern (27 bp):
TTTTTTGTCACAAGTGGCACCTAAATC
Found at i:9438336 original size:21 final size:21
Alignment explanation
Indices: 9438310--9438351 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
9438300 GATACCTAGT
9438310 AAAAGGTATCGATACTTTTTG
1 AAAAGGTATCGATACTTTTTG
*
9438331 AAAAGGTATCGGTACTTTTTG
1 AAAAGGTATCGATACTTTTTG
9438352 TAATTGATTG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.31, C:0.10, G:0.21, T:0.38
Consensus pattern (21 bp):
AAAAGGTATCGATACTTTTTG
Found at i:9439814 original size:31 final size:32
Alignment explanation
Indices: 9439759--9439829 Score: 85
Period size: 31 Copynumber: 2.3 Consensus size: 32
9439749 ATTTTGATGA
*
9439759 TATTTTA-TAATTATTTAATTAGATA-AATAT
1 TATTTTATTAATTATTTAATGAGATATAATAT
**
9439789 TATTTTATTAA-TATTTTAATGAGATATTTTAT
1 TATTTTATTAATTA-TTTAATGAGATATAATAT
9439821 TATTTTATT
1 TATTTTATT
9439830 TAGTATATAA
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
30 9 0.26
31 14 0.40
32 12 0.34
ACGTcount: A:0.37, C:0.00, G:0.04, T:0.59
Consensus pattern (32 bp):
TATTTTATTAATTATTTAATGAGATATAATAT
Found at i:9441903 original size:21 final size:21
Alignment explanation
Indices: 9441879--9441993 Score: 72
Period size: 21 Copynumber: 5.5 Consensus size: 21
9441869 TATTAACTCA
9441879 TATGAGTTTCAGTTTAACCCT
1 TATGAGTTTCAGTTTAACCCT
* * * *
9441900 TATGGATTTTC-GTTCAGCTCT
1 TAT-GAGTTTCAGTTTAACCCT
* *
9441921 TTTGATTTTCAGTTTAACCCT
1 TATGAGTTTCAGTTTAACCCT
* * * *
9441942 AATGGGTTTTC-GTTTAGCTCT
1 TATGAG-TTTCAGTTTAACCCT
* * *
9441963 TTTAAGCTTCAGTTTAACCCT
1 TATGAGTTTCAGTTTAACCCT
*
9441984 TATGGGTTTC
1 TATGAGTTTC
9441994 CATTCCGCTC
Statistics
Matches: 65, Mismatches: 25, Indels: 8
0.66 0.26 0.08
Matches are distributed among these distances:
20 10 0.15
21 45 0.69
22 10 0.15
ACGTcount: A:0.18, C:0.18, G:0.17, T:0.47
Consensus pattern (21 bp):
TATGAGTTTCAGTTTAACCCT
Found at i:9441952 original size:42 final size:42
Alignment explanation
Indices: 9441883--9441992 Score: 166
Period size: 42 Copynumber: 2.6 Consensus size: 42
9441873 AACTCATATG
* *
9441883 AGTTTCAGTTTAACCCTTATGGATTTTCGTTCAGCTCTTTTG
1 AGTTTCAGTTTAACCCTTATGGGTTTTCGTTCAGCTCTTTTA
* * *
9441925 ATTTTCAGTTTAACCCTAATGGGTTTTCGTTTAGCTCTTTTA
1 AGTTTCAGTTTAACCCTTATGGGTTTTCGTTCAGCTCTTTTA
*
9441967 AGCTTCAGTTTAACCCTTATGGGTTT
1 AGTTTCAGTTTAACCCTTATGGGTTT
9441993 CCATTCCGCT
Statistics
Matches: 60, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 60 1.00
ACGTcount: A:0.18, C:0.18, G:0.16, T:0.47
Consensus pattern (42 bp):
AGTTTCAGTTTAACCCTTATGGGTTTTCGTTCAGCTCTTTTA
Found at i:9442013 original size:42 final size:42
Alignment explanation
Indices: 9441881--9442035 Score: 157
Period size: 42 Copynumber: 3.7 Consensus size: 42
9441871 TTAACTCATA
* * *
9441881 TGAGTTTCAGTTTAACCCTTATGGATTTTCGTTCAGCTCTTT
1 TGAGCTTCAGTTTAACCCTTATGGGTTTCCGTTCAGCTCTTT
** * * *
9441923 TGATTTTCAGTTTAACCCTAATGGGTTTTCGTTTAGCTCTTT
1 TGAGCTTCAGTTTAACCCTTATGGGTTTCCGTTCAGCTCTTT
* * * *
9441965 TAAGCTTCAGTTTAACCCTTATGGGTTTCCATTCCGCTCTTA
1 TGAGCTTCAGTTTAACCCTTATGGGTTTCCGTTCAGCTCTTT
* * * * *
9442007 CGAGCTTCCGCTCAACCCTTATAGGTTTC
1 TGAGCTTCAGTTTAACCCTTATGGGTTTC
9442036 TGCTTAGCAG
Statistics
Matches: 94, Mismatches: 19, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
42 94 1.00
ACGTcount: A:0.17, C:0.23, G:0.16, T:0.43
Consensus pattern (42 bp):
TGAGCTTCAGTTTAACCCTTATGGGTTTCCGTTCAGCTCTTT
Found at i:9452067 original size:3 final size:3
Alignment explanation
Indices: 9452059--9452085 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
9452049 CAGCTTATCA
9452059 TCC TCC TCC TCC TCC TCC TCC TCC TCC
1 TCC TCC TCC TCC TCC TCC TCC TCC TCC
9452086 AAGCCACCGC
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:0.00, C:0.67, G:0.00, T:0.33
Consensus pattern (3 bp):
TCC
Found at i:9454308 original size:21 final size:20
Alignment explanation
Indices: 9454267--9454303 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 20
9454257 TTTATTGATG
9454267 AATATTTTATATAATTAATT
1 AATATTTTATATAATTAATT
*
9454287 AATATTTT-TATATTTAA
1 AATATTTTATATAATTAA
9454304 AATTATTTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
19 8 0.50
20 8 0.50
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (20 bp):
AATATTTTATATAATTAATT
Found at i:9454354 original size:16 final size:17
Alignment explanation
Indices: 9454267--9454359 Score: 70
Period size: 16 Copynumber: 5.5 Consensus size: 17
9454257 TTTATTGATG
*
9454267 AATATTTTATATAATTAATT
1 AATATTTTATAT-ATT--TA
9454287 AATATTTT-TATATTTA
1 AATATTTTATATATTTA
9454303 AA-ATTATT-TA-ATTTGA
1 AATATT-TTATATATTT-A
** *
9454319 TTTATTTAATATATTTA
1 AATATTTTATATATTTA
9454336 AATATTTTATATA-TTA
1 AATATTTTATATATTTA
9454352 AATATTTT
1 AATATTTT
9454360 TTAAAAACGT
Statistics
Matches: 61, Mismatches: 7, Indels: 14
0.74 0.09 0.17
Matches are distributed among these distances:
15 7 0.11
16 20 0.33
17 16 0.26
18 7 0.11
19 3 0.05
20 8 0.13
ACGTcount: A:0.41, C:0.00, G:0.01, T:0.58
Consensus pattern (17 bp):
AATATTTTATATATTTA
Found at i:9455847 original size:6 final size:6
Alignment explanation
Indices: 9455836--9455871 Score: 72
Period size: 6 Copynumber: 6.0 Consensus size: 6
9455826 GTTGAATATA
9455836 TGGCAG TGGCAG TGGCAG TGGCAG TGGCAG TGGCAG
1 TGGCAG TGGCAG TGGCAG TGGCAG TGGCAG TGGCAG
9455872 GCAGGCATAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 30 1.00
ACGTcount: A:0.17, C:0.17, G:0.50, T:0.17
Consensus pattern (6 bp):
TGGCAG
Found at i:9457884 original size:3 final size:3
Alignment explanation
Indices: 9457870--9457914 Score: 56
Period size: 3 Copynumber: 14.7 Consensus size: 3
9457860 AATTGATGCG
*
9457870 TTA TTG TTA TTA TTA TTA TTA TTA TTA TT- TTA TATA TTA GTTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA -TTA TT
9457915 TTTCATGCAA
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
2 2 0.05
3 29 0.78
4 6 0.16
ACGTcount: A:0.29, C:0.00, G:0.04, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:9460443 original size:9 final size:9
Alignment explanation
Indices: 9460429--9460465 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
9460419 TATAGTTTGA
9460429 TATTCGAAT
1 TATTCGAAT
9460438 TATTCGAAT
1 TATTCGAAT
*
9460447 TATTCGAGT
1 TATTCGAAT
9460456 TATTCGAAT
1 TATTCGAAT
9460465 T
1 T
9460466 CGAAAACTCA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.30, C:0.11, G:0.14, T:0.46
Consensus pattern (9 bp):
TATTCGAAT
Found at i:9460654 original size:5 final size:5
Alignment explanation
Indices: 9460639--9460674 Score: 63
Period size: 5 Copynumber: 7.0 Consensus size: 5
9460629 ATTTTTCATC
9460639 TTTTCA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA
1 TTTT-A TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA
9460675 ATACTTATAT
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
5 26 0.87
6 4 0.13
ACGTcount: A:0.19, C:0.03, G:0.00, T:0.78
Consensus pattern (5 bp):
TTTTA
Found at i:9468512 original size:18 final size:18
Alignment explanation
Indices: 9468491--9468553 Score: 84
Period size: 18 Copynumber: 3.8 Consensus size: 18
9468481 ATAATAATTA
9468491 TTTTATTAAATTATATAT
1 TTTTATTAAATTATATAT
9468509 TTTTATTAAA-T-TATA-
1 TTTTATTAAATTATATAT
9468524 --TT-TTAAATTATATAT
1 TTTTATTAAATTATATAT
9468539 TTTTATTAAATTATA
1 TTTTATTAAATTATA
9468554 CATATACCTA
Statistics
Matches: 39, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
12 5 0.13
13 3 0.08
14 4 0.10
16 4 0.10
17 3 0.08
18 20 0.51
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (18 bp):
TTTTATTAAATTATATAT
Found at i:9468532 original size:30 final size:31
Alignment explanation
Indices: 9468486--9468553 Score: 120
Period size: 30 Copynumber: 2.2 Consensus size: 31
9468476 TTTTAATAAT
*
9468486 AATTATTTTATTAAATTATATATTTTTATTA
1 AATTATATTATTAAATTATATATTTTTATTA
9468517 AATTATATT-TTAAATTATATATTTTTATTA
1 AATTATATTATTAAATTATATATTTTTATTA
9468547 AATTATA
1 AATTATA
9468554 CATATACCTA
Statistics
Matches: 36, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
30 28 0.78
31 8 0.22
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (31 bp):
AATTATATTATTAAATTATATATTTTTATTA
Found at i:9468542 original size:15 final size:15
Alignment explanation
Indices: 9468496--9468543 Score: 55
Period size: 15 Copynumber: 3.2 Consensus size: 15
9468486 AATTATTTTA
9468496 TTAAATTATATATTT
1 TTAAATTATATATTT
*
9468511 TT--ATTAAATTATATT
1 TTAAATTATA-TAT-TT
9468526 TTAAATTATATATTT
1 TTAAATTATATATTT
9468541 TTA
1 TTA
9468544 TTAAATTATA
Statistics
Matches: 27, Mismatches: 2, Indels: 8
0.73 0.05 0.22
Matches are distributed among these distances:
13 5 0.19
14 3 0.11
15 11 0.41
16 3 0.11
17 5 0.19
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (15 bp):
TTAAATTATATATTT
Found at i:9472982 original size:21 final size:21
Alignment explanation
Indices: 9472941--9472983 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
9472931 AATAAAGTAG
*
9472941 ATTATATATTATTTTTATAGT
1 ATTATATATTATATTTATAGT
9472962 ATTATATATTATGATTT-TAGT
1 ATTATATATTAT-ATTTATAGT
9472983 A
1 A
9472984 AATTCATATA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 17 0.85
22 3 0.15
ACGTcount: A:0.35, C:0.00, G:0.07, T:0.58
Consensus pattern (21 bp):
ATTATATATTATATTTATAGT
Found at i:9473034 original size:18 final size:18
Alignment explanation
Indices: 9473011--9473046 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
9473001 TTATATTGAA
9473011 TTTTATTAAATTATATAT
1 TTTTATTAAATTATATAT
9473029 TTTTATTAAATTATATAT
1 TTTTATTAAATTATATAT
9473047 AATAATAATT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (18 bp):
TTTTATTAAATTATATAT
Found at i:9473093 original size:117 final size:118
Alignment explanation
Indices: 9472948--9473184 Score: 388
Period size: 120 Copynumber: 2.0 Consensus size: 118
9472938 TAGATTATAT
*
9472948 ATTATTTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATAATT-ATATT-GAA
1 ATTATTTTTATAGTATTATATATAATGATTTTAGTAAATTCATATAAGAATAATTAATATTAGAA
* * *
9473011 TTTTATTAAATTATATATTTTTATTAAATTATATATAATAATAATTATTTTAA
66 TTTTATTAAATTATATATTTTAATTAAATTATATATAATAACAATTATGTTAA
*
9473064 ATTATATTTTATAGTATTATATATAATGATTTTAGTAAATTCATATAAGAATATTTAATATTAAG
1 ATTAT-TTTTATAGTATTATATATAATGATTTTAGTAAATTCATATAAGAATAATTAATATT-AG
*
9473129 AATTTTATTAAATTATATATTTTAATTAAATTATATTTAATAACAATTATGTTAA
64 AATTTTATTAAATTATATATTTTAATTAAATTATATATAATAACAATTATGTTAA
9473184 A
1 A
9473185 ATATGATTAA
Statistics
Matches: 111, Mismatches: 6, Indels: 4
0.92 0.05 0.03
Matches are distributed among these distances:
116 5 0.05
117 48 0.43
118 5 0.05
120 53 0.48
ACGTcount: A:0.43, C:0.01, G:0.05, T:0.51
Consensus pattern (118 bp):
ATTATTTTTATAGTATTATATATAATGATTTTAGTAAATTCATATAAGAATAATTAATATTAGAA
TTTTATTAAATTATATATTTTAATTAAATTATATATAATAACAATTATGTTAA
Found at i:9473156 original size:18 final size:17
Alignment explanation
Indices: 9473130--9473164 Score: 61
Period size: 18 Copynumber: 2.0 Consensus size: 17
9473120 AATATTAAGA
9473130 ATTTTATTAAATTATAT
1 ATTTTATTAAATTATAT
9473147 ATTTTAATTAAATTATAT
1 ATTTT-ATTAAATTATAT
9473165 TTAATAACAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 5 0.29
18 12 0.71
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (17 bp):
ATTTTATTAAATTATAT
Found at i:9475892 original size:16 final size:16
Alignment explanation
Indices: 9475871--9475902 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
9475861 GGTTGGGACG
*
9475871 TTAGTTCCGTGTTTAC
1 TTAGTTCCATGTTTAC
9475887 TTAGTTCCATGTTTAC
1 TTAGTTCCATGTTTAC
9475903 ATTCTAGATT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.16, C:0.19, G:0.16, T:0.50
Consensus pattern (16 bp):
TTAGTTCCATGTTTAC
Found at i:9476750 original size:9 final size:9
Alignment explanation
Indices: 9476736--9476784 Score: 71
Period size: 9 Copynumber: 5.4 Consensus size: 9
9476726 TTTAGTTAAA
9476736 AATTAACCG
1 AATTAACCG
9476745 AATTAACCG
1 AATTAACCG
*
9476754 AATTACCCG
1 AATTAACCG
*
9476763 AATTACCCG
1 AATTAACCG
*
9476772 GATTAACCG
1 AATTAACCG
9476781 AATT
1 AATT
9476785 GAATCACTAC
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
9 36 1.00
ACGTcount: A:0.39, C:0.24, G:0.12, T:0.24
Consensus pattern (9 bp):
AATTAACCG
Found at i:9476929 original size:18 final size:18
Alignment explanation
Indices: 9476906--9476949 Score: 70
Period size: 18 Copynumber: 2.4 Consensus size: 18
9476896 AATTTTTATG
*
9476906 ATTGGGTTGGGTTGGGTA
1 ATTGGGTTGGGTTGGATA
9476924 ATTGGGTTGGGTTGGATA
1 ATTGGGTTGGGTTGGATA
*
9476942 CTTGGGTT
1 ATTGGGTT
9476950 TGGATTAGGT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.11, C:0.02, G:0.45, T:0.41
Consensus pattern (18 bp):
ATTGGGTTGGGTTGGATA
Found at i:9477328 original size:15 final size:15
Alignment explanation
Indices: 9477308--9477339 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
9477298 CATTTCACTA
*
9477308 TTATGTCTTTTGTAT
1 TTATGTCTTTTATAT
9477323 TTATGTCTTTTATAT
1 TTATGTCTTTTATAT
9477338 TT
1 TT
9477340 TGCATGCATA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.16, C:0.06, G:0.09, T:0.69
Consensus pattern (15 bp):
TTATGTCTTTTATAT
Found at i:9478991 original size:11 final size:11
Alignment explanation
Indices: 9478951--9479026 Score: 52
Period size: 11 Copynumber: 6.8 Consensus size: 11
9478941 ATTCCAAAAA
*
9478951 TAATATTATTT
1 TAATATTAATT
9478962 TAATAGTTTAATAT
1 TAATA--TTAAT-T
9478976 TAATATTAATT
1 TAATATTAATT
9478987 TAATACTT-ATCT
1 TAATA-TTAAT-T
* *
9478999 TAATAGT-AGT
1 TAATATTAATT
9479009 T--TATTAATT
1 TAATATTAATT
9479018 TAATATTAA
1 TAATATTAA
9479027 AATAATTATC
Statistics
Matches: 52, Mismatches: 5, Indels: 16
0.71 0.07 0.22
Matches are distributed among these distances:
8 3 0.06
9 3 0.06
10 2 0.04
11 21 0.40
12 13 0.25
13 4 0.08
14 6 0.12
ACGTcount: A:0.41, C:0.03, G:0.04, T:0.53
Consensus pattern (11 bp):
TAATATTAATT
Found at i:9486334 original size:11 final size:11
Alignment explanation
Indices: 9486318--9486342 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
9486308 AAAACCATAA
9486318 ATAAATCAATC
1 ATAAATCAATC
9486329 ATAAATCAATC
1 ATAAATCAATC
9486340 ATA
1 ATA
9486343 GTTAACATAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.56, C:0.16, G:0.00, T:0.28
Consensus pattern (11 bp):
ATAAATCAATC
Found at i:9486689 original size:42 final size:42
Alignment explanation
Indices: 9486630--9486823 Score: 232
Period size: 42 Copynumber: 4.6 Consensus size: 42
9486620 CAGCGTTTAC
*
9486630 GAAAATAAACGCC-CTAAAGGTCATGTTCTTTAGCGGCACTTA
1 GAAAA-AAACGCCGCTAAAGATCATGTTCTTTAGCGGCACTTA
* *
9486672 GAAAAAAATGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTA
1 GAAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCACTTA
* * * *
9486714 AAAAAAAGACGTCGCTAAAGATCATGTTCTTTAGCGGCGC-TC
1 GAAAAAA-ACGCCGCTAAAGATCATGTTCTTTAGCGGCACTTA
*
9486756 GAAGAAAAACGCCGCAAAAGATCATGTTCTTTAGCGGCACTT-
1 GAA-AAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCACTTA
* * *
9486798 GATAAAAAACTCCGCTATAGAACATG
1 GA-AAAAAACGCCGCTAAAGATCATG
9486824 ACTTTTAGCG
Statistics
Matches: 132, Mismatches: 15, Indels: 10
0.84 0.10 0.06
Matches are distributed among these distances:
41 6 0.05
42 90 0.68
43 36 0.27
ACGTcount: A:0.36, C:0.21, G:0.20, T:0.24
Consensus pattern (42 bp):
GAAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCACTTA
Found at i:9486734 original size:43 final size:42
Alignment explanation
Indices: 9486631--9486882 Score: 231
Period size: 42 Copynumber: 6.0 Consensus size: 42
9486621 AGCGTTTACG
* * *
9486631 AAAATAAACGCC-CTAAAGGTCATGTTCTTTAGCGGCACTTA
1 AAAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTA
* *
9486672 GAAAAAAATGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTA
1 AAAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTA
* **
9486714 AAAAAAAGACGTCGCTAAAGATCATGTTCTTTAGCGGCGCTCG
1 AAAAAAA-ACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTA
* * * *
9486757 AAGAAAAACGCCGCAAAAGATCATGTTCTTTAGCGGCACTTG
1 AAAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTA
* * * * * * *
9486799 ATAAAAAACTCCGCTATAGAACATG-ACTTTTAGCGACGCTTTC
1 AAAAAAAACGCCGCTAAAGATCATGTTC-TTTAGCGGCGC-TTA
*** * *
9486842 TTCACAAACGCCGCTAAAAGA-AATGTTCTTTAGCGGCGCTT
1 AAAAAAAACGCCGCT-AAAGATCATGTTCTTTAGCGGCGCTT
9486883 TCATCACAAA
Statistics
Matches: 172, Mismatches: 33, Indels: 11
0.80 0.15 0.05
Matches are distributed among these distances:
41 10 0.06
42 94 0.55
43 63 0.37
44 5 0.03
ACGTcount: A:0.33, C:0.22, G:0.19, T:0.25
Consensus pattern (42 bp):
AAAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTA
Found at i:9486805 original size:85 final size:85
Alignment explanation
Indices: 9486643--9486806 Score: 240
Period size: 85 Copynumber: 1.9 Consensus size: 85
9486633 AATAAACGCC
* * *
9486643 CTAAAGGTCATGTTCTTTAGCGGCACTTAGAAAAAAATGCCGCTAAAGATCATGTTCTTTAGCGG
1 CTAAAGATCATGTTCTTTAGCGGCACTTAGAAAAAAACGCCGCAAAAGATCATGTTCTTTAGCGG
*
9486708 CGCTTAAAAAAAAGACGTCG
66 CACTTAAAAAAAAGACGTCG
* *
9486728 CTAAAGATCATGTTCTTTAGCGGCGC-TCGAAGAAAAACGCCGCAAAAGATCATGTTCTTTAGCG
1 CTAAAGATCATGTTCTTTAGCGGCACTTAGAA-AAAAACGCCGCAAAAGATCATGTTCTTTAGCG
*
9486792 GCACTTGATAAAAAA
65 GCACTT-AAAAAAAA
9486807 CTCCGCTATA
Statistics
Matches: 70, Mismatches: 7, Indels: 3
0.88 0.09 0.04
Matches are distributed among these distances:
84 4 0.06
85 59 0.84
86 7 0.10
ACGTcount: A:0.35, C:0.20, G:0.21, T:0.25
Consensus pattern (85 bp):
CTAAAGATCATGTTCTTTAGCGGCACTTAGAAAAAAACGCCGCAAAAGATCATGTTCTTTAGCGG
CACTTAAAAAAAAGACGTCG
Found at i:9486851 original size:85 final size:86
Alignment explanation
Indices: 9486762--9486926 Score: 228
Period size: 86 Copynumber: 1.9 Consensus size: 86
9486752 GCTCGAAGAA
* *
9486762 AAACGCCGC-AAAAGATCATGTTCTTTAGCGGCAC-TTGATAAAAAAC-TCCGCTATAGAACATG
1 AAACGCCGCTAAAAGA-AATGTTCTTTAGCGGCACTTTCATAAAAAACGT-CGCTATAGAACATG
9486824 ACTTTTAGCGACGCTTTCTTCAC
64 ACTTTTAGCGACGCTTTCTTCAC
* * * *
9486847 AAACGCCGCTAAAAGAAATGTTCTTTAGCGGCGCTTTCATCACAAACGTTGCTATAGAACATGAC
1 AAACGCCGCTAAAAGAAATGTTCTTTAGCGGCACTTTCATAAAAAACGTCGCTATAGAACATGAC
*
9486912 TTTTAGCGGCGCTTT
66 TTTTAGCGACGCTTT
9486927 TATAAAAATG
Statistics
Matches: 70, Mismatches: 7, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
85 25 0.36
86 44 0.63
87 1 0.01
ACGTcount: A:0.30, C:0.24, G:0.18, T:0.28
Consensus pattern (86 bp):
AAACGCCGCTAAAAGAAATGTTCTTTAGCGGCACTTTCATAAAAAACGTCGCTATAGAACATGAC
TTTTAGCGACGCTTTCTTCAC
Found at i:9486917 original size:43 final size:43
Alignment explanation
Indices: 9486804--9486926 Score: 151
Period size: 43 Copynumber: 2.9 Consensus size: 43
9486794 ACTTGATAAA
* * *
9486804 AAACTCCGCTATAGAACATGACTTTTAGCGACGCTTTCTTCAC
1 AAACGCCGCTATAGAACATGACTTTTAGCGGCGCTTTCATCAC
* *
9486847 AAACGCCGCTAAAAGAA-ATG-TTCTTTAGCGGCGCTTTCATCAC
1 AAACGCCGCT-ATAGAACATGACT-TTTAGCGGCGCTTTCATCAC
**
9486890 AAACGTTGCTATAGAACATGACTTTTAGCGGCGCTTT
1 AAACGCCGCTATAGAACATGACTTTTAGCGGCGCTTT
9486927 TATAAAAATG
Statistics
Matches: 67, Mismatches: 9, Indels: 8
0.80 0.11 0.10
Matches are distributed among these distances:
42 6 0.09
43 55 0.82
44 6 0.09
ACGTcount: A:0.28, C:0.24, G:0.18, T:0.29
Consensus pattern (43 bp):
AAACGCCGCTATAGAACATGACTTTTAGCGGCGCTTTCATCAC
Found at i:9487336 original size:21 final size:21
Alignment explanation
Indices: 9487312--9487383 Score: 92
Period size: 21 Copynumber: 3.4 Consensus size: 21
9487302 TTCTTTTGAA
*
9487312 CCTCTGCTTCTCTTGCTGCAG
1 CCTCTGCTTCTCTCGCTGCAG
*
9487333 CCTCTGCTTCTCTCACTGCAG
1 CCTCTGCTTCTCTCGCTGCAG
* *
9487354 CCTTTGCTTCCCTCGCTG-ACG
1 CCTCTGCTTCTCTCGCTGCA-G
9487375 CCTCTGCTT
1 CCTCTGCTT
9487384 TAAGTTGTAG
Statistics
Matches: 44, Mismatches: 6, Indels: 2
0.85 0.12 0.04
Matches are distributed among these distances:
20 1 0.02
21 43 0.98
ACGTcount: A:0.06, C:0.42, G:0.17, T:0.36
Consensus pattern (21 bp):
CCTCTGCTTCTCTCGCTGCAG
Found at i:9490165 original size:25 final size:25
Alignment explanation
Indices: 9490131--9490222 Score: 87
Period size: 25 Copynumber: 3.5 Consensus size: 25
9490121 TGGAACAACT
9490131 TGTAAGTTATGTATTAAGTAAATTA
1 TGTAAGTTATGTATTAAGTAAATTA
*
9490156 TGTAAGTTATGTATATATTA-TAAAAGATA
1 TGTAAGTTATGTAT-TA--AGT-AAA-TTA
* *
9490185 TGTAAGTTATGTATTATGTAAGTTA
1 TGTAAGTTATGTATTAAGTAAATTA
* *
9490210 TATAAGCTATGTA
1 TGTAAGTTATGTA
9490223 AGTTATTATG
Statistics
Matches: 55, Mismatches: 6, Indels: 12
0.75 0.08 0.16
Matches are distributed among these distances:
25 27 0.49
26 4 0.07
27 2 0.04
28 6 0.11
29 16 0.29
ACGTcount: A:0.39, C:0.01, G:0.16, T:0.43
Consensus pattern (25 bp):
TGTAAGTTATGTATTAAGTAAATTA
Found at i:9490204 original size:16 final size:15
Alignment explanation
Indices: 9490183--9490320 Score: 63
Period size: 16 Copynumber: 8.8 Consensus size: 15
9490173 TTATAAAAGA
9490183 TATGTAAGTTATGTAT
1 TATGTAAGTTAT-TAT
*
9490199 TATGTAAGTTATATAAGC
1 TATGTAAGTTAT-T-A-T
9490217 TATGTAAG---TTAT
1 TATGTAAGTTATTAT
9490229 TATGTAAGTTAATATAT
1 TATGTAAGTT-AT-TAT
* * *
9490246 AATATATGTTGATTAT
1 TATGTAAGTT-ATTAT
*
9490262 GTAT-TAAG-TA-AAT
1 -TATGTAAGTTATTAT
* *
9490275 TAGGTAAGTTATGCAT
1 TATGTAAGTTAT-TAT
9490291 TATGTAAGTTATATAAGT
1 TATGTAAGTTAT-T-A-T
9490309 TATGTAAGTTAT
1 TATGTAAGTTAT
9490321 ATAAGCTACG
Statistics
Matches: 93, Mismatches: 15, Indels: 26
0.69 0.11 0.19
Matches are distributed among these distances:
12 10 0.11
13 7 0.08
14 4 0.04
15 2 0.02
16 33 0.35
17 16 0.17
18 21 0.23
ACGTcount: A:0.37, C:0.01, G:0.17, T:0.45
Consensus pattern (15 bp):
TATGTAAGTTATTAT
Found at i:9490221 original size:34 final size:34
Alignment explanation
Indices: 9490173--9490375 Score: 115
Period size: 34 Copynumber: 6.1 Consensus size: 34
9490163 TATGTATATA
* *
9490173 TTATAAAAGATATGTAAGTTATGTATTATGTAAG
1 TTATATAAGTTATGTAAGTTATGTATTATGTAAG
*
9490207 TTATATAAGCTATGTAAG---T-TATTATGTAAG
1 TTATATAAGTTATGTAAGTTATGTATTATGTAAG
* * *
9490237 TTA-ATATA-TAATATATG-T-TG-ATTATGT-A-
1 TTATATA-AGTTATGTAAGTTATGTATTATGTAAG
* * *
9490265 TTA-AGTAAATTAGGTAAGTTATGCATTATGTAAG
1 TTATA-TAAGTTATGTAAGTTATGTATTATGTAAG
* * *
9490299 TTATATAAGTTATGTAAGTTATATAAGCTACGTAAG
1 TTATATAAGTTATGTAAGTTATGT-A-TTATGTAAG
* * * *
9490335 TTATTATGTAAGTCATGTAGGCTATGTCTTATGTAAG
1 TTA-TA--TAAGTTATGTAAGTTATGTATTATGTAAG
9490372 TTAT
1 TTAT
9490376 TATAGGTAAG
Statistics
Matches: 130, Mismatches: 23, Indels: 30
0.71 0.13 0.16
Matches are distributed among these distances:
28 5 0.04
29 16 0.12
30 24 0.18
31 3 0.02
32 7 0.05
33 1 0.01
34 34 0.26
35 2 0.02
36 11 0.08
37 12 0.09
39 15 0.12
ACGTcount: A:0.36, C:0.03, G:0.17, T:0.43
Consensus pattern (34 bp):
TTATATAAGTTATGTAAGTTATGTATTATGTAAG
Found at i:9490286 original size:25 final size:25
Alignment explanation
Indices: 9490258--9490314 Score: 69
Period size: 25 Copynumber: 2.3 Consensus size: 25
9490248 TATATGTTGA
*
9490258 TTATGTATTAAGTAAATTAGGTAAG
1 TTATGTATTAAGTAAATTAGATAAG
* * * *
9490283 TTATGCATTATGTAAGTTATATAAG
1 TTATGTATTAAGTAAATTAGATAAG
9490308 TTATGTA
1 TTATGTA
9490315 AGTTATATAA
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.37, C:0.02, G:0.18, T:0.44
Consensus pattern (25 bp):
TTATGTATTAAGTAAATTAGATAAG
Found at i:9490375 original size:9 final size:9
Alignment explanation
Indices: 9490131--9490338 Score: 101
Period size: 9 Copynumber: 23.1 Consensus size: 9
9490121 TGGAACAACT
9490131 TGTAAGTTA
1 TGTAAGTTA
9490140 TGT-A-TTA
1 TGTAAGTTA
* *
9490147 AGTAAATTA
1 TGTAAGTTA
9490156 TGTAAGTTA
1 TGTAAGTTA
*
9490165 TGTATATATTA
1 TGTA-A-GTTA
** *
9490176 TAAAAGATA
1 TGTAAGTTA
9490185 TGTAAGTTA
1 TGTAAGTTA
9490194 TGT-A-TTA
1 TGTAAGTTA
9490201 TGTAAGTTA
1 TGTAAGTTA
* *
9490210 TATAAGCTA
1 TGTAAGTTA
9490219 TGTAAGTTATTA
1 TGTAAG---TTA
9490231 TGTAAGTTAA
1 TGTAAGTT-A
* *
9490241 TATATAATATA
1 TGTA-AGT-TA
*
9490252 TGT-TGATTA
1 TGTAAG-TTA
9490261 TGT-A-TTA
1 TGTAAGTTA
* *
9490268 AGTAAATTA
1 TGTAAGTTA
*
9490277 GGTAAGTTA
1 TGTAAGTTA
*
9490286 TG-CA-TTA
1 TGTAAGTTA
9490293 TGTAAGTTA
1 TGTAAGTTA
*
9490302 TATAAGTTA
1 TGTAAGTTA
9490311 TGTAAGTTA
1 TGTAAGTTA
* *
9490320 TATAAGCTA
1 TGTAAGTTA
*
9490329 CGTAAGTTA
1 TGTAAGTTA
9490338 T
1 T
9490339 TATGTAAGTC
Statistics
Matches: 147, Mismatches: 35, Indels: 34
0.68 0.16 0.16
Matches are distributed among these distances:
7 21 0.14
8 7 0.05
9 93 0.63
10 7 0.05
11 10 0.07
12 9 0.06
ACGTcount: A:0.38, C:0.02, G:0.16, T:0.43
Consensus pattern (9 bp):
TGTAAGTTA
Found at i:9490492 original size:13 final size:13
Alignment explanation
Indices: 9490419--9490548 Score: 67
Period size: 12 Copynumber: 10.1 Consensus size: 13
9490409 ATATATAAGT
9490419 TATGTAAGTTAT-
1 TATGTAAGTTATG
9490431 TATGTAAGTTAACTG
1 TATGTAAGTT-A-TG
*
9490446 TTGTGTAAGTT-TG
1 -TATGTAAGTTATG
* *
9490459 TATATAAATT-T-
1 TATGTAAGTTATG
* *
9490470 AATTTAAGTTATG
1 TATGTAAGTTATG
9490483 TATGTAAGTTATCTG
1 TATGTAAGTTA--TG
*
9490498 TTGTGTAAGTT-TG
1 -TATGTAAGTTATG
* *
9490511 TATATAAATT-T-
1 TATGTAAGTTATG
* *
9490522 AATTTAAGTTATG
1 TATGTAAGTTATG
9490535 TATGTAAGTTATG
1 TATGTAAGTTATG
9490548 T
1 T
9490549 CAGTTGTGTA
Statistics
Matches: 89, Mismatches: 18, Indels: 21
0.70 0.14 0.16
Matches are distributed among these distances:
11 14 0.16
12 28 0.31
13 26 0.29
14 1 0.01
15 2 0.02
16 18 0.20
ACGTcount: A:0.32, C:0.02, G:0.18, T:0.49
Consensus pattern (13 bp):
TATGTAAGTTATG
Found at i:9490499 original size:52 final size:52
Alignment explanation
Indices: 9490423--9490546 Score: 232
Period size: 52 Copynumber: 2.4 Consensus size: 52
9490413 ATAAGTTATG
*
9490423 TAAGTTAT-TATGTAAGTTAACTGTTGTGTAAGTTTGTATATAAATTTAATT
1 TAAGTTATGTATGTAAGTTATCTGTTGTGTAAGTTTGTATATAAATTTAATT
9490474 TAAGTTATGTATGTAAGTTATCTGTTGTGTAAGTTTGTATATAAATTTAATT
1 TAAGTTATGTATGTAAGTTATCTGTTGTGTAAGTTTGTATATAAATTTAATT
9490526 TAAGTTATGTATGTAAGTTAT
1 TAAGTTATGTATGTAAGTTAT
9490547 GTCAGTTGTG
Statistics
Matches: 71, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
51 8 0.11
52 63 0.89
ACGTcount: A:0.32, C:0.02, G:0.17, T:0.49
Consensus pattern (52 bp):
TAAGTTATGTATGTAAGTTATCTGTTGTGTAAGTTTGTATATAAATTTAATT
Found at i:9490512 original size:28 final size:29
Alignment explanation
Indices: 9490421--9490513 Score: 85
Period size: 28 Copynumber: 3.5 Consensus size: 29
9490411 ATATAAGTTA
*
9490421 TGTAAGTTAT-TATGTAAGTTAACTGTTG
1 TGTAAGTTATGTATGTAAGTTATCTGTTG
* **
9490449 TGTAAGTT-TGTATATAA---AT-T-TAA
1 TGTAAGTTATGTATGTAAGTTATCTGTTG
*
9490472 TTTAAGTTATGTATGTAAGTTATCTGTTG
1 TGTAAGTTATGTATGTAAGTTATCTGTTG
9490501 TGTAAGTT-TGTAT
1 TGTAAGTTATGTAT
9490514 ATAAATTTAA
Statistics
Matches: 49, Mismatches: 9, Indels: 14
0.68 0.12 0.19
Matches are distributed among these distances:
23 8 0.16
24 9 0.18
25 1 0.02
27 3 0.06
28 20 0.41
29 8 0.16
ACGTcount: A:0.29, C:0.02, G:0.19, T:0.49
Consensus pattern (29 bp):
TGTAAGTTATGTATGTAAGTTATCTGTTG
Found at i:9490553 original size:9 final size:9
Alignment explanation
Indices: 9490535--9490615 Score: 71
Period size: 9 Copynumber: 9.4 Consensus size: 9
9490525 TTAAGTTATG
9490535 TATGTAAGT
1 TATGTAAGT
*
9490544 TATGTCAGT
1 TATGTAAGT
*
9490553 TGTGT-A-T
1 TATGTAAGT
*
9490560 AATGTAAGT
1 TATGTAAGT
* *
9490569 TATGAAATT
1 TATGTAAGT
9490578 TATGT-A-T
1 TATGTAAGT
9490585 TATGTAAGT
1 TATGTAAGT
*
9490594 TATTTAAGT
1 TATGTAAGT
*
9490603 TATTTAAGT
1 TATGTAAGT
9490612 TATG
1 TATG
9490616 AAATATAGAG
Statistics
Matches: 58, Mismatches: 10, Indels: 8
0.76 0.13 0.11
Matches are distributed among these distances:
7 10 0.17
8 4 0.07
9 44 0.76
ACGTcount: A:0.32, C:0.01, G:0.19, T:0.48
Consensus pattern (9 bp):
TATGTAAGT
Found at i:9490569 original size:25 final size:25
Alignment explanation
Indices: 9490536--9490605 Score: 77
Period size: 25 Copynumber: 2.8 Consensus size: 25
9490526 TAAGTTATGT
** *
9490536 ATGTAAGTTATGTCAGTTGTGTATA
1 ATGTAAGTTATGAAAGTTATGTATA
* *
9490561 ATGTAAGTTATGAAATTTATGTATT
1 ATGTAAGTTATGAAAGTTATGTATA
**
9490586 ATGTAAGTTATTTAAGTTAT
1 ATGTAAGTTATGAAAGTTAT
9490606 TTAAGTTATG
Statistics
Matches: 37, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
25 37 1.00
ACGTcount: A:0.33, C:0.01, G:0.19, T:0.47
Consensus pattern (25 bp):
ATGTAAGTTATGAAAGTTATGTATA
Found at i:9490788 original size:28 final size:29
Alignment explanation
Indices: 9490757--9490833 Score: 77
Period size: 28 Copynumber: 2.7 Consensus size: 29
9490747 AAATTATATG
*
9490757 TTAAAAATAT-ATATATTAATATGTTAAA
1 TTAAAAATATAATATATTAATACGTTAAA
* *
9490785 TT-AAATTTTAATATATTAATACGTTAAA
1 TTAAAAATATAATATATTAATACGTTAAA
* * *
9490813 TTATATATATTAATACATTAA
1 TTAAAAATA-TAATATATTAA
9490834 GTAACTACCG
Statistics
Matches: 38, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
27 5 0.13
28 21 0.55
29 2 0.05
30 10 0.26
ACGTcount: A:0.49, C:0.03, G:0.03, T:0.45
Consensus pattern (29 bp):
TTAAAAATATAATATATTAATACGTTAAA
Found at i:9490820 original size:22 final size:23
Alignment explanation
Indices: 9490784--9490833 Score: 75
Period size: 22 Copynumber: 2.2 Consensus size: 23
9490774 AATATGTTAA
*
9490784 ATTAAATTTTAATATATTAATAC
1 ATTAAATTATAATATATTAATAC
*
9490807 GTTAAATTAT-ATATATTAATAC
1 ATTAAATTATAATATATTAATAC
9490829 ATTAA
1 ATTAA
9490834 GTAACTACCG
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
22 16 0.67
23 8 0.33
ACGTcount: A:0.48, C:0.04, G:0.02, T:0.46
Consensus pattern (23 bp):
ATTAAATTATAATATATTAATAC
Found at i:9490888 original size:120 final size:120
Alignment explanation
Indices: 9490750--9491225 Score: 733
Period size: 120 Copynumber: 3.9 Consensus size: 120
9490740 TACATTAAAA
* *
9490750 TTATATGTTAAAAATATATATATTAATATGTTAAATTAAATTTTAATATATTAATACGTTAAATT
1 TTATATATTAAAAATATATATATTAATACGTTAAATTAAATTTTAATATATTAATACGTTAAATT
*
9490815 ATATATATTAATACATTAAGTAACTACCGAAATTAAGACTAATATATTAAATAGC
66 ATATATATTAATACGTTAAGTAACTACCGAAATTAAGACTAATATATTAAATAGC
9490870 TTATATATTAAAATTATATGTTATAAATATATATTGATACGTTAAATTAAATTTTAATATATTAA
1 TTATATATTAAAA--ATA---TAT--ATAT-TA---ATACGTTAAATTAAATTTTAATATATTAA
9490935 TACGTTAAATTATATATATTAATACGTTAAGTAACTACCGAAATTAAGACTAATATATTAAATAG
55 TACGTTAAATTATATATATTAATACGTTAAGTAACTACCGAAATTAAGACTAATATATTAAATAG
9491000 C
120 C
* *
9491001 TTATATATTAAAAATATATATACTAATACGTTAAATTAAATTTTAATATATTAATACGTTAAGTT
1 TTATATATTAAAAATATATATATTAATACGTTAAATTAAATTTTAATATATTAATACGTTAAATT
*
9491066 ATATATATTTATACGTTAAGTAACTACCGAAATTAAGACTAATATATTAAATAGC
66 ATATATATTAATACGTTAAGTAACTACCGAAATTAAGACTAATATATTAAATAGC
* *
9491121 TTATATATTAAAAATATATCTATTACTACGTTAAATTAAATTTTAATATATTAATACGTTAAATT
1 TTATATATTAAAAATATATATATTAATACGTTAAATTAAATTTTAATATATTAATACGTTAAATT
* * *
9491186 ATAGATATCAATACGTTAAGT---TACCCAAATTAAGACTAAT
66 ATATATATTAATACGTTAAGTAACTACCGAAATTAAGACTAAT
9491226 TCGAACATTT
Statistics
Matches: 331, Mismatches: 14, Indels: 25
0.89 0.04 0.07
Matches are distributed among these distances:
117 18 0.05
120 184 0.56
122 3 0.01
123 2 0.01
124 3 0.01
125 3 0.01
126 3 0.01
127 4 0.01
128 2 0.01
129 3 0.01
131 106 0.32
ACGTcount: A:0.46, C:0.07, G:0.06, T:0.41
Consensus pattern (120 bp):
TTATATATTAAAAATATATATATTAATACGTTAAATTAAATTTTAATATATTAATACGTTAAATT
ATATATATTAATACGTTAAGTAACTACCGAAATTAAGACTAATATATTAAATAGC
Found at i:9490918 original size:33 final size:28
Alignment explanation
Indices: 9490898--9490958 Score: 86
Period size: 28 Copynumber: 2.1 Consensus size: 28
9490888 TGTTATAAAT
* *
9490898 ATATATTGATACGTTAAATTAAATTTTA
1 ATATATTAATACGTTAAATTATATTTTA
9490926 ATATATTAATACGTTAAATTATATATATTA
1 ATATATTAATACGTTAAATTATAT-T-TTA
9490956 ATA
1 ATA
9490959 CGTTAAGTAA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
28 22 0.76
29 1 0.03
30 6 0.21
ACGTcount: A:0.46, C:0.03, G:0.05, T:0.46
Consensus pattern (28 bp):
ATATATTAATACGTTAAATTATATTTTA
Found at i:9490954 original size:22 final size:23
Alignment explanation
Indices: 9490916--9490964 Score: 82
Period size: 22 Copynumber: 2.2 Consensus size: 23
9490906 ATACGTTAAA
*
9490916 TTAAATTTTAATATATTAATACG
1 TTAAATTATAATATATTAATACG
9490939 TTAAATTAT-ATATATTAATACG
1 TTAAATTATAATATATTAATACG
9490961 TTAA
1 TTAA
9490965 GTAACTACCG
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
22 17 0.68
23 8 0.32
ACGTcount: A:0.45, C:0.04, G:0.04, T:0.47
Consensus pattern (23 bp):
TTAAATTATAATATATTAATACG
Found at i:9492825 original size:82 final size:82
Alignment explanation
Indices: 9492697--9492883 Score: 214
Period size: 82 Copynumber: 2.3 Consensus size: 82
9492687 AGTTTTCTCA
* * ** * *
9492697 AAAACACCACTATTAAATTATTTTCCAGTACAGAAACAGCGCCGCATAAGG-AAATTTAATTAAT
1 AAAACGCCACTATAAAATT-TTTTCCAACACAGAAACAGCGCCGCATAAGGAAAAGTTAATCAAT
* * *
9492761 CATTGTGGCGTTTTCCTT
65 CATTGCGGCGTTTCCCCT
* * * **
9492779 AAAAATGCCACTATAAAATTTTTTCCAACACTGAAACGGCGCCGCATTCGGAAAAGTTAATCAAT
1 -AAAACGCCACTATAAAATTTTTTCCAACACAGAAACAGCGCCGCATAAGGAAAAGTTAATCAAT
9492844 CATTGCGGCGTTTCCCCT
65 CATTGCGGCGTTTCCCCT
*
9492862 AAAACGCCACTATCAAATTTTT
1 AAAACGCCACTATAAAATTTTT
9492884 ATTACTATTA
Statistics
Matches: 87, Mismatches: 16, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
82 45 0.52
83 42 0.48
ACGTcount: A:0.35, C:0.22, G:0.13, T:0.29
Consensus pattern (82 bp):
AAAACGCCACTATAAAATTTTTTCCAACACAGAAACAGCGCCGCATAAGGAAAAGTTAATCAATC
ATTGCGGCGTTTCCCCT
Found at i:9493702 original size:8 final size:7
Alignment explanation
Indices: 9493662--9493717 Score: 60
Period size: 7 Copynumber: 8.0 Consensus size: 7
9493652 ACTAAAGCGG
9493662 CCTAAAC
1 CCTAAAC
*
9493669 CCCAAAC
1 CCTAAAC
9493676 CC-AAAC
1 CCTAAAC
*
9493682 CTTAAAC
1 CCTAAAC
9493689 CCTAAAC
1 CCTAAAC
9493696 TCCTAAAC
1 -CCTAAAC
*
9493704 CATAAAC
1 CCTAAAC
*
9493711 CCAAAAC
1 CCTAAAC
9493718 ACCAAAACCT
Statistics
Matches: 41, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
6 5 0.12
7 29 0.71
8 7 0.17
ACGTcount: A:0.46, C:0.41, G:0.00, T:0.12
Consensus pattern (7 bp):
CCTAAAC
Done.