Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D11
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: 68311261
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.33
Warning! 408745 characters in sequence are not A, C, G, or T
File 128 of 226
Found at i:39765601 original size:9 final size:9
Alignment explanation
Indices: 39765587--39765669 Score: 103
Period size: 9 Copynumber: 9.2 Consensus size: 9
39765577 AGTGGATCAT
*
39765587 ATGATGCTG
1 ATGATGATG
*
39765596 ATGATGCTG
1 ATGATGATG
39765605 ATGATGATG
1 ATGATGATG
39765614 ATGATGATG
1 ATGATGATG
39765623 ATGATGATG
1 ATGATGATG
* **
39765632 AGGATGCGG
1 ATGATGATG
*
39765641 ATGAGGATG
1 ATGATGATG
39765650 ATGATGATG
1 ATGATGATG
*
39765659 ATAATGATG
1 ATGATGATG
39765668 AT
1 AT
39765670 ACCAATAATG
Statistics
Matches: 64, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
9 64 1.00
ACGTcount: A:0.31, C:0.04, G:0.35, T:0.30
Consensus pattern (9 bp):
ATGATGATG
Found at i:39765606 original size:6 final size:6
Alignment explanation
Indices: 39765587--39765669 Score: 103
Period size: 6 Copynumber: 13.8 Consensus size: 6
39765577 AGTGGATCAT
* * *
39765587 ATGATG CTGATG ATGCTG ATGATG ATGATG ATGATG ATGATG ATGAGG
1 ATGATG ATGATG ATGATG ATGATG ATGATG ATGATG ATGATG ATGATG
** * *
39765635 ATGCGG ATGAGG ATGATG ATGATG ATAATG ATGAT
1 ATGATG ATGATG ATGATG ATGATG ATGATG ATGAT
39765670 ACCAATAATG
Statistics
Matches: 67, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
6 67 1.00
ACGTcount: A:0.31, C:0.04, G:0.35, T:0.30
Consensus pattern (6 bp):
ATGATG
Found at i:39766448 original size:52 final size:53
Alignment explanation
Indices: 39766342--39766452 Score: 197
Period size: 52 Copynumber: 2.1 Consensus size: 53
39766332 GGAAACTGAA
39766342 AAATTTCTCACCTTTCGCATTTAGTATGAATCTAACATGTTTAAGCTGCAATT
1 AAATTTCTCACCTTTCGCATTTAGTATGAATCTAACATGTTTAAGCTGCAATT
* *
39766395 AAATTTCTCACCTTTTGTATTTAGTATG-ATCTAACATGTTTAAGCTGCAATT
1 AAATTTCTCACCTTTCGCATTTAGTATGAATCTAACATGTTTAAGCTGCAATT
39766447 AAATTT
1 AAATTT
39766453 GTAGTTTGTT
Statistics
Matches: 56, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
52 30 0.54
53 26 0.46
ACGTcount: A:0.31, C:0.16, G:0.11, T:0.42
Consensus pattern (53 bp):
AAATTTCTCACCTTTCGCATTTAGTATGAATCTAACATGTTTAAGCTGCAATT
Found at i:39779348 original size:27 final size:27
Alignment explanation
Indices: 39779317--39779404 Score: 95
Period size: 27 Copynumber: 3.3 Consensus size: 27
39779307 CACGACTTTT
*
39779317 ATTTCTTAGATCACCACAAAGGCTTCC
1 ATTTCTTAGATTACCACAAAGGCTTCC
* * * *
39779344 ATTTCTTAAATTTCCACAAAAGCTTTC
1 ATTTCTTAGATTACCACAAAGGCTTCC
* * **
39779371 ATTTCTTGGATTGCCACAAAGATTTCC
1 ATTTCTTAGATTACCACAAAGGCTTCC
39779398 ATTTCTT
1 ATTTCTT
39779405 TTTGCATGTT
Statistics
Matches: 49, Mismatches: 12, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
27 49 1.00
ACGTcount: A:0.28, C:0.24, G:0.09, T:0.39
Consensus pattern (27 bp):
ATTTCTTAGATTACCACAAAGGCTTCC
Found at i:39782642 original size:25 final size:25
Alignment explanation
Indices: 39782583--39782671 Score: 83
Period size: 25 Copynumber: 3.6 Consensus size: 25
39782573 ATTCATGTAT
* * * *
39782583 GCTCATATGAGCTGTA-AATGGTAA
1 GCTCATGTGAGCTGAATAACGGAAA
* *
39782607 GCTCCTCTGAGCTGAATAACGGAAA
1 GCTCATGTGAGCTGAATAACGGAAA
*
39782632 GCTCATGTGAGTTGAATAAC-GAGAA
1 GCTCATGTGAGCTGAATAACGGA-AA
*
39782657 GCTCATGCGAGCTGA
1 GCTCATGTGAGCTGA
39782672 GTATCAGGAA
Statistics
Matches: 53, Mismatches: 10, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
24 15 0.28
25 38 0.72
ACGTcount: A:0.31, C:0.18, G:0.27, T:0.24
Consensus pattern (25 bp):
GCTCATGTGAGCTGAATAACGGAAA
Found at i:39787707 original size:47 final size:47
Alignment explanation
Indices: 39787644--39788146 Score: 703
Period size: 47 Copynumber: 10.6 Consensus size: 47
39787634 CCCTTCGGGA
* * *
39787644 CTTATCACATTTATACACTTCCACATCCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
39787691 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* * *
39787738 CTTATCTCATATATGCA-TGTTCACATTCATCACATTGGCCGTTCGGC
1 CTTATCACATATATACACT-TTCACATTCATCACATTGGCCATTCGGC
* *
39787785 CTTATCACACATACACA-TGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACT-TTCACATTCATCACATTGGCCATTCGGC
*
39787832 CTTATCACACATACT-CA-TGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATA-TACACT-TTCACATTCATCACATTGGCCATTCGGC
* *
39787879 CTTATCTCATATATGCA-TGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACT-TTCACATTCATCACATTGGCCATTCGGC
* *
39787926 CTTATCACACATACACA-TGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACT-TTCACATTCATCACATTGGCCATTCGGC
*
39787973 CTTATCACATATATATATACACTTTCACATTCATCACATTGGCCATTCGAC
1 CTTATCAC----ATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
39788024 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
*
39788071 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATTGGCCATTCGGC
39788120 CTTATCACATATATACACTTTCACATT
1 CTTATCACATATATACACTTTCACATT
39788147 TATTCAAATA
Statistics
Matches: 421, Mismatches: 25, Indels: 20
0.90 0.05 0.04
Matches are distributed among these distances:
46 2 0.00
47 330 0.78
49 46 0.11
51 42 0.10
52 1 0.00
ACGTcount: A:0.27, C:0.30, G:0.09, T:0.34
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
Found at i:39789661 original size:56 final size:56
Alignment explanation
Indices: 39789591--39789710 Score: 222
Period size: 56 Copynumber: 2.1 Consensus size: 56
39789581 TATTAGTTTA
39789591 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
* *
39789647 TTTCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
39789703 TTGCCCAT
1 TTGCCCAT
39789711 CATCCCTTGT
Statistics
Matches: 61, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
56 61 1.00
ACGTcount: A:0.23, C:0.23, G:0.08, T:0.46
Consensus pattern (56 bp):
TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
Found at i:39792229 original size:47 final size:47
Alignment explanation
Indices: 39792122--39792813 Score: 1161
Period size: 47 Copynumber: 14.6 Consensus size: 47
39792112 GATAATTGTG
* * *
39792122 ATGTGAATGTATATATATGTAATAAGGCCTAATGGCCG-TGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
39792168 ATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
39792215 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGA
39792264 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGA
39792313 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
39792360 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGA
39792409 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
39792456 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
39792503 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGA
39792552 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
39792599 ATGTGAAAGTGTAATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGT-ATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* *
39792647 ATGTGAAAGTATATATATGTGATAAGGCCTAATAGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
39792694 ATGTGAAAGTGTATATATGTGATGAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* * * * * * *
39792741 ATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGG
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
39792788 ATGTGAAAGTGTATAAATGTGATAAG
1 ATGTGAAAGTGTATATATGTGATAAG
39792814 TCCCGAAGGG
Statistics
Matches: 617, Mismatches: 21, Indels: 15
0.94 0.03 0.02
Matches are distributed among these distances:
46 34 0.06
47 348 0.56
48 46 0.07
49 189 0.31
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.30
Consensus pattern (47 bp):
ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
Found at i:39792334 original size:96 final size:94
Alignment explanation
Indices: 39792122--39792813 Score: 1161
Period size: 96 Copynumber: 7.3 Consensus size: 94
39792112 GATAATTGTG
* * *
39792122 ATGTGAATGTATATATATGTAATAAGGCCTAATGGCCG-TGTGATGAATGTGAAAGTGTATATAT
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
*
39792186 GTGATAAGGCCGAATGGCCGATGTGATGA
66 GTGATAAGGCCTAATGGCCGATGTGATGA
39792215 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TAT
39792280 ATATGTGATAAGGCCTAATGGCCGATGTGATGA
62 ATATGTGATAAGGCCTAATGGCCGATGTGATGA
39792313 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATAT
39792378 ATGTGATAAGGCCTAATGGCCGATGTGATGA
64 ATGTGATAAGGCCTAATGGCCGATGTGATGA
39792409 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
39792474 GTGATAAGGCCTAATGGCCGATGTGATGA
66 GTGATAAGGCCTAATGGCCGATGTGATGA
39792503 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
39792568 ATGTGATAAGGCCTAATGGCCGATGTGATGA
64 ATGTGATAAGGCCTAATGGCCGATGTGATGA
*
39792599 ATGTGAAAGTGTAATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTATATATA
1 ATGTGAAAGTGT-ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
*
39792664 TGTGATAAGGCCTAATAGCCGATGTGATGA
65 TGTGATAAGGCCTAATGGCCGATGTGATGA
*
39792694 ATGTGAAAGTGTATATATGTGATGAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
* * * * * * *
39792759 GTGACAGGGCCGAGTGGCCAACGTGATGG
66 GTGATAAGGCCTAATGGCCGATGTGATGA
*
39792788 ATGTGAAAGTGTATAAATGTGATAAG
1 ATGTGAAAGTGTATATATGTGATAAG
39792814 TCCCGAAGGG
Statistics
Matches: 573, Mismatches: 18, Indels: 15
0.95 0.03 0.02
Matches are distributed among these distances:
93 9 0.02
94 144 0.25
95 118 0.21
96 256 0.45
98 46 0.08
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.30
Consensus pattern (94 bp):
ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
GTGATAAGGCCTAATGGCCGATGTGATGA
Found at i:39796177 original size:20 final size:19
Alignment explanation
Indices: 39796152--39796197 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 19
39796142 TATATGTGGT
39796152 ATGTGAAGTATATTTAATAA
1 ATGTGAAGTATA-TTAATAA
* *
39796172 ATGTGAAAGTGTATTAATAT
1 ATGTG-AAGTATATTAATAA
39796192 ATGTGA
1 ATGTGA
39796198 TAAGGCCTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
19 1 0.04
20 16 0.70
21 6 0.26
ACGTcount: A:0.41, C:0.00, G:0.20, T:0.39
Consensus pattern (19 bp):
ATGTGAAGTATATTAATAA
Found at i:39796295 original size:90 final size:91
Alignment explanation
Indices: 39796171--39796466 Score: 377
Period size: 90 Copynumber: 3.2 Consensus size: 91
39796161 ATATTTAATA
39796171 AATGTGAAAGTGTATTAATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGGAAAGTGTAT
1 AATGTGAAAGTGTA-T-ATA-A-GTGATAAGGCCTAATGGCCGATGTGATGAATGGAAAGTGTAT
39796236 ATATGTGATAA-GCC-AATG-CAATGTGATG
62 ATAT-TGATAAGGCCTAATGCCAATGTGATG
*
39796264 AAGTGTGAAAGTGTATATAAGTTATAAGGCCTAATGGCCGATGTGATGAATGTG-AAGTGTATAT
1 AA-TGTGAAAGTGTATATAAGTGATAAGGCCTAATGGCCGATGTGATGAATG-GAAAGTGTATAT
*
39796328 ATTGATAAGGCCTAATGCCGATGTGATG
64 ATTGATAAGGCCTAATGCCAATGTGATG
* * *
39796356 AATTTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGT-ATGAATGTAAAGTGTATATAT
1 AATGTGAAAGTGTATATAAGTGATAAGGCCTAATGGCCGATGTGATGAATGGAAAGTGTATATAT
* * * * *
39796420 TGCGACAGGGCCGAGTGGCCGATGTGATG
66 T--GATAAGGCCTAAT-GCCAATGTGATG
39796449 AATGTGAAAGTGTATATA
1 AATGTGAAAGTGTATATA
39796467 TGCGACAGGG
Statistics
Matches: 183, Mismatches: 11, Indels: 18
0.86 0.05 0.08
Matches are distributed among these distances:
89 6 0.03
90 66 0.36
91 44 0.24
92 23 0.13
93 32 0.17
94 12 0.07
ACGTcount: A:0.33, C:0.08, G:0.28, T:0.30
Consensus pattern (91 bp):
AATGTGAAAGTGTATATAAGTGATAAGGCCTAATGGCCGATGTGATGAATGGAAAGTGTATATAT
TGATAAGGCCTAATGCCAATGTGATG
Found at i:39796471 original size:47 final size:47
Alignment explanation
Indices: 39796188--39796521 Score: 395
Period size: 46 Copynumber: 7.3 Consensus size: 47
39796178 AAGTGTATTA
39796188 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATG-GAAAGTGT
1 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGT
*
39796234 ATATATGTGATAA-GCC-AAT-G-CAATGTGATGAAGTGTGAAAGTGT
1 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAA-TGTGAAAGTGT
* *
39796278 ATATAAGTTATAAGGCCTAATGGCCGATGTGATGAATGTG-AAGTGT
1 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGT
*
39796324 ATATAT-TGATAAGGCCTAAT-GCCGATGTGATGAATTTGAAAGTGT
1 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGT
39796369 ATATATGTGATAAGGCCTAATGGCCGATGT-ATGAATGT-AAAGTGT
1 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGT
* * * * *
39796414 ATATATTGCGACAGGGCCGAGTGGCCGATGTGATGAATGTGAAAGTGT
1 ATATA-TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGT
* * * * * * * *
39796462 ATATATGCGA-CAGGGCGAGTGGCCAACGTGAATGGATGTGAAAGTGT
1 ATATATGTGATAAGGCCTAATGGCCGATGTG-ATGAATGTGAAAGTGT
*
39796509 ATAAATGT-ATAAG
1 ATATATGTGATAAG
39796522 TCCCGAAGGG
Statistics
Matches: 252, Mismatches: 22, Indels: 27
0.84 0.07 0.09
Matches are distributed among these distances:
42 11 0.04
43 3 0.01
44 39 0.15
45 43 0.17
46 84 0.33
47 49 0.19
48 23 0.09
ACGTcount: A:0.33, C:0.09, G:0.29, T:0.28
Consensus pattern (47 bp):
ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGT
Found at i:39796685 original size:34 final size:34
Alignment explanation
Indices: 39796638--39796709 Score: 119
Period size: 34 Copynumber: 2.1 Consensus size: 34
39796628 CCAGCTAAAG
39796638 GACCATGACTACGTGTGGAGATTATGT-CGGTAA
1 GACCATGACTACGTGTGGAGATTATGTCCGGTAA
*
39796671 GACCGATGACTACGTGTGGAGATTTTGTCCGGTAA
1 GACC-ATGACTACGTGTGGAGATTATGTCCGGTAA
39796706 GACC
1 GACC
39796710 CGATAACTTC
Statistics
Matches: 36, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
33 4 0.11
34 22 0.61
35 10 0.28
ACGTcount: A:0.25, C:0.18, G:0.31, T:0.26
Consensus pattern (34 bp):
GACCATGACTACGTGTGGAGATTATGTCCGGTAA
Found at i:39796731 original size:36 final size:34
Alignment explanation
Indices: 39796645--39796724 Score: 97
Period size: 34 Copynumber: 2.3 Consensus size: 34
39796635 AAGGACCATG
* * *
39796645 ACTACGTGTGGAGATTATGTCGGTAAGACCGATG
1 ACTACATGTGGAGATTTTGTCGGTAAGACCGATA
*
39796679 ACTACGTGTGGAGATTTTGTCCGGTAAGACCCGATA
1 ACTACATGTGGAGATTTTGT-CGGTAAGA-CCGATA
*
39796715 ACTTCATGTG
1 ACTACATGTG
39796725 ACGATTTCGT
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
34 19 0.47
35 8 0.20
36 13 0.32
ACGTcount: A:0.25, C:0.17, G:0.29, T:0.29
Consensus pattern (34 bp):
ACTACATGTGGAGATTTTGTCGGTAAGACCGATA
Found at i:39802399 original size:47 final size:47
Alignment explanation
Indices: 39802270--39802651 Score: 673
Period size: 47 Copynumber: 8.1 Consensus size: 47
39802260 GGTGAAAAAT
39802270 TGAAAGTGTATATATGTGATAAGGCCTAA-GGCCGATGTGATGAATG
1 TGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATG
*
39802316 TGAAAGTGTATATA-GTGATAAGGCCTAATGGCCGATGTTATGAATG
1 TGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATG
39802362 TGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATG
1 TGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATG
39802409 TGAAAGTGTATATATGTGATAAGGCCTAATGGCC-ATGTGATGAATG
1 TGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATG
39802455 TGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATG
1 TGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATG
39802504 TGAAAGTGTATATATATGTGATAAGGCCTAATGG-CGATGTGATGAATG
1 TGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATG
39802552 TGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATG
1 TGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATG
39802599 TGAAAGTGTATATATGTGATGATAGGCCTAATGGCCGATGTGATGAATG
1 TGAAAGTGTATATATGTGAT-A-AGGCCTAATGGCCGATGTGATGAATG
39802648 TGAA
1 TGAA
39802652 TGATGGCCTA
Statistics
Matches: 326, Mismatches: 2, Indels: 13
0.96 0.01 0.04
Matches are distributed among these distances:
45 14 0.04
46 88 0.27
47 99 0.30
48 49 0.15
49 76 0.23
ACGTcount: A:0.32, C:0.08, G:0.29, T:0.30
Consensus pattern (47 bp):
TGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATG
Found at i:39802495 original size:95 final size:94
Alignment explanation
Indices: 39802270--39802651 Score: 673
Period size: 95 Copynumber: 4.0 Consensus size: 94
39802260 GGTGAAAAAT
39802270 TGAAAGTGTATATATGTGATAAGGCCTAA-GGCCGATGTGATGAATGTGAAAGTGTATATA-GTG
1 TGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTG
*
39802333 ATAAGGCCTAATGGCCGATGTTATGAATG
66 ATAAGGCCTAATGGCCGATGTGATGAATG
39802362 TGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTG
1 TGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTG
39802427 ATAAGGCCTAATGGCC-ATGTGATGAATG
66 ATAAGGCCTAATGGCCGATGTGATGAATG
39802455 TGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATA
1 TGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATA
39802520 TGTGATAAGGCCTAATGG-CGATGTGATGAATG
62 TGTGATAAGGCCTAATGGCCGATGTGATGAATG
39802552 TGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTG
1 TGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTG
39802617 ATGATAGGCCTAATGGCCGATGTGATGAATG
66 AT-A-AGGCCTAATGGCCGATGTGATGAATG
39802648 TGAA
1 TGAA
39802652 TGATGGCCTA
Statistics
Matches: 279, Mismatches: 1, Indels: 16
0.94 0.00 0.05
Matches are distributed among these distances:
92 29 0.10
93 62 0.22
94 20 0.07
95 105 0.38
96 19 0.07
97 44 0.16
ACGTcount: A:0.32, C:0.08, G:0.29, T:0.30
Consensus pattern (94 bp):
TGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTG
ATAAGGCCTAATGGCCGATGTGATGAATG
Found at i:39805058 original size:40 final size:40
Alignment explanation
Indices: 39804999--39805193 Score: 187
Period size: 40 Copynumber: 4.9 Consensus size: 40
39804989 CAACGATGAT
39804999 CCGGACTAAGTCCCGAAGAGCATTCATGCTAGTGATGTAA
1 CCGGACTAAGTCCCGAAGAGCATTCATGCTAGTGATGTAA
* *
39805039 CCGGACTAAGTCCCAAAGAGCATTCATGCTAGTGATGTAT
1 CCGGACTAAGTCCCGAAGAGCATTCATGCTAGTGATGTAA
** * * * * *
39805079 CCGGGTTAAGTTCCGAAGAGCATTCGTGCTAGTAATATAT
1 CCGGACTAAGTCCCGAAGAGCATTCATGCTAGTGATGTAA
* * * * * *
39805119 CCGTG-CTAA-ACCTCGAAGAGCATTCGTGCTGGTGTTATAT
1 CCG-GACTAAGTCC-CGAAGAGCATTCATGCTAGTGATGTAA
* * * *
39805159 CCGGGCTAGGTCCCGAAGAGCAATCATGCTGGTGA
1 CCGGACTAAGTCCCGAAGAGCATTCATGCTAGTGA
39805194 CGTGTATTCG
Statistics
Matches: 131, Mismatches: 20, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
39 2 0.02
40 126 0.96
41 3 0.02
ACGTcount: A:0.27, C:0.22, G:0.26, T:0.25
Consensus pattern (40 bp):
CCGGACTAAGTCCCGAAGAGCATTCATGCTAGTGATGTAA
Found at i:39805138 original size:80 final size:80
Alignment explanation
Indices: 39804997--39805188 Score: 217
Period size: 80 Copynumber: 2.4 Consensus size: 80
39804987 CTCAACGATG
* * * *
39804997 ATCCGGACTAAGTCCCGAAGAGCATTCATGCTAGTGATGTAACCGGACTAAGTCCCAAAGAGCAT
1 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTAATATAACCGGACTAAGACCCAAAGAGCAT
*
39805062 TCATGCTAGTGATGT
66 TCATGCTAGTGATAT
* * * * *
39805077 ATCCGGGTTAAGTTCCGAAGAGCATTCGTGCTAGTAATATATCCGTG-CTAA-ACCTCGAAGAGC
1 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTAATATAACCG-GACTAAGACC-CAAAGAGC
* * *
39805140 ATTCGTGCTGGTGTTAT
64 ATTCATGCTAGTGATAT
* *
39805157 ATCCGGGCTAGGTCCCGAAGAGCAATCATGCT
1 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCT
39805189 GGTGACGTGT
Statistics
Matches: 92, Mismatches: 18, Indels: 4
0.81 0.16 0.04
Matches are distributed among these distances:
79 2 0.02
80 89 0.97
81 1 0.01
ACGTcount: A:0.27, C:0.22, G:0.25, T:0.26
Consensus pattern (80 bp):
ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTAATATAACCGGACTAAGACCCAAAGAGCAT
TCATGCTAGTGATAT
Found at i:39808623 original size:47 final size:47
Alignment explanation
Indices: 39808516--39809060 Score: 905
Period size: 47 Copynumber: 11.6 Consensus size: 47
39808506 GATAATTGTG
* *
39808516 ATGTGAATGTATATATATGTGATAAGGCCTAATGGCCG-TGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
39808562 ATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
39808609 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGA
39808658 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
39808705 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
39808752 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
39808799 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
39808848 ATGTGAAAGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* *
39808895 ATGTGAAAGTATATATATGTGATAAGGCCTAATAGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
39808942 ATGTG-AAGTGTATATATGTGATGAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* * * * * * *
39808988 ATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGG
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
39809035 ATGTGAAAGTGTATAAATGTGATAAG
1 ATGTGAAAGTGTATATATGTGATAAG
39809061 TCCCGAAGGG
Statistics
Matches: 473, Mismatches: 20, Indels: 11
0.94 0.04 0.02
Matches are distributed among these distances:
46 78 0.16
47 303 0.64
49 92 0.19
ACGTcount: A:0.32, C:0.08, G:0.30, T:0.30
Consensus pattern (47 bp):
ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
Found at i:39808739 original size:143 final size:143
Alignment explanation
Indices: 39808516--39809060 Score: 899
Period size: 143 Copynumber: 3.9 Consensus size: 143
39808506 GATAATTGTG
* *
39808516 ATGTGAATGTATATATATGTGATAAGGCCTAATGGCCG-TGTGATGAATGTGAAAGTGTATATAT
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
39808580 GTGATAAGGCCGAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATG
66 GTGATAAGGCCGAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATG
39808645 GCCGATGTGATGA
131 GCCGATGTGATGA
39808658 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
*
39808723 GTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATG
66 GTGATAAGGCCGAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATG
39808786 GCCGATGTGATGA
131 GCCGATGTGATGA
*
39808799 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTATATAT
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
*
39808864 ATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA--GTATATATATGTGATAAGGCCTAA
64 ATGTGATAAGGCCGAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAA
*
39808927 TAGCCGATGTGATGA
129 TGGCCGATGTGATGA
*
39808942 ATGTG-AAGTGTATATATGTGATGAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
* * * * * *
39809006 GTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTATA-A-ATGTGATAAG
66 GTGATAAGGCCGAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAG
39809061 TCCCGAAGGG
Statistics
Matches: 382, Mismatches: 14, Indels: 16
0.93 0.03 0.04
Matches are distributed among these distances:
140 92 0.24
141 49 0.13
142 46 0.12
143 195 0.51
ACGTcount: A:0.32, C:0.08, G:0.30, T:0.30
Consensus pattern (143 bp):
ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
GTGATAAGGCCGAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATG
GCCGATGTGATGA
Found at i:39808804 original size:190 final size:190
Alignment explanation
Indices: 39808516--39809060 Score: 936
Period size: 190 Copynumber: 2.9 Consensus size: 190
39808506 GATAATTGTG
*
39808516 ATGTGAATGTATATATATGTGATAAGGCCTAATGGCCG-TGTGATGAATGTGAAAGTGTATATAT
1 ATGTGAAAGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
*
39808580 GTGATAAGGCCGAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATG
66 GTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATG
39808645 GCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
131 GCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
39808705 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
1 ATGTGAAAGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
39808770 GTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATG
66 GTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATG
*
39808835 GCCGATGTGATGAATGTGAAAGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
131 GCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
39808895 ATGTGAAAGTATATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTG-AAGTGTATATAT
1 ATGTGAAAGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
* * * * *
39808959 GTGATGAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGACAGGGCCGAGTG
66 GTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATG
* * * *
39809022 GCCAACGTGATGGATGTGAAAGTGTATAAATGTGATAAG
131 GCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAG
39809061 TCCCGAAGGG
Statistics
Matches: 339, Mismatches: 16, Indels: 4
0.94 0.04 0.01
Matches are distributed among these distances:
187 53 0.16
189 87 0.26
190 199 0.59
ACGTcount: A:0.32, C:0.08, G:0.30, T:0.30
Consensus pattern (190 bp):
ATGTGAAAGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
GTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATG
GCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
Found at i:39816089 original size:55 final size:52
Alignment explanation
Indices: 39815956--39816091 Score: 159
Period size: 50 Copynumber: 2.6 Consensus size: 52
39815946 CTCATGTCGG
* * * *
39815956 TGCCCATGCCATGTACCAGACATGGTCTTACGGGGGACCTCTCATCTCGATA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACGGGAGACCTCTCATCTCAATA
* * * *
39816008 --CTAACGCCATGTCCCAGACATAGTCTTACGTGAGACCTCTCATAACTCAATAA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACGGGAGACCTCTCAT--CTCAAT-A
39816061 TGCCAATGCCATGTCCCAGACATGGTCTTAC
1 TGCCAATGCCATGTCCCAGACATGGTCTTAC
39816092 ATAGGGTCTC
Statistics
Matches: 68, Mismatches: 11, Indels: 7
0.79 0.13 0.08
Matches are distributed among these distances:
50 36 0.53
52 5 0.07
53 1 0.01
55 26 0.38
ACGTcount: A:0.26, C:0.31, G:0.18, T:0.25
Consensus pattern (52 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACGGGAGACCTCTCATCTCAATA
Found at i:39821998 original size:26 final size:27
Alignment explanation
Indices: 39821968--39822023 Score: 64
Period size: 26 Copynumber: 2.1 Consensus size: 27
39821958 ATGAAAATTA
39821968 TACAAATCACATAAATA-T-AATTCAAT
1 TACAAA-CACATAAATACTCAATTCAAT
* *
39821994 TAC-AACATATAAATACTCAATTTAAT
1 TACAAACACATAAATACTCAATTCAAT
39822020 TACA
1 TACA
39822024 CGAACTTACC
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
24 9 0.36
25 3 0.12
26 13 0.52
ACGTcount: A:0.52, C:0.16, G:0.00, T:0.32
Consensus pattern (27 bp):
TACAAACACATAAATACTCAATTCAAT
Found at i:39823871 original size:29 final size:29
Alignment explanation
Indices: 39823839--39824193 Score: 123
Period size: 29 Copynumber: 12.2 Consensus size: 29
39823829 TAACCGTCTT
*
39823839 TTTTCATATTCGATCGTCGAAACCATCCC
1 TTTTCATATTCGATAGTCGAAACCATCCC
* * ** *
39823868 TTTTCGTAGTT-GATGGTCGTCATCATCCC
1 TTTTCATA-TTCGATAGTCGAAACCATCCC
* **
39823897 TTTTCAT-TATCAATAACCG-AACCTATCCC
1 TTTTCATAT-TCGATAGTCGAAACC-ATCCC
* * **
39823926 TTTTCACATTCGATGGTCGTCACCATCCC
1 TTTTCATATTCGATAGTCGAAACCATCCC
** * * *
39823955 TTTTTGT-TGTCGATTGTC-ATCACCGTCCC
1 TTTTCATAT-TCGATAGTCGA-AACCATCCC
* * * *
39823984 ATTTCATAATCGATAG-CTGAAGCTATCCC
1 TTTTCATATTCGATAGTC-GAAACCATCCC
* * **
39824013 TTTTCACATTCGATGGTCGTCACCATCCC
1 TTTTCATATTCGATAGTCGAAACCATCCC
* * * ** *
39824042 TTTTCGT-TGTCGATGGTTGTCACCATCGC
1 TTTTCATAT-TCGATAGTCGAAACCATCCC
* * * * * * *
39824071 ATTTCATAATCGATAGCCGGAGCTATTCC
1 TTTTCATATTCGATAGTCGAAACCATCCC
* * * *
39824100 TTTTCATATTTGATAGCCGAAGCTATCCC
1 TTTTCATATTCGATAGTCGAAACCATCCC
* * *
39824129 TTTTCATATTCGATA-ACTGAAGCTATCCC
1 TTTTCATATTCGATAGTC-GAAACCATCCC
* ** * *
39824158 TTTTCATATTTGATAACCGAAGCTATCCC
1 TTTTCATATTCGATAGTCGAAACCATCCC
39824187 TTTTCAT
1 TTTTCAT
39824194 TGGTCGATGA
Statistics
Matches: 244, Mismatches: 66, Indels: 32
0.71 0.19 0.09
Matches are distributed among these distances:
27 1 0.00
28 7 0.03
29 227 0.93
30 9 0.04
ACGTcount: A:0.22, C:0.27, G:0.14, T:0.37
Consensus pattern (29 bp):
TTTTCATATTCGATAGTCGAAACCATCCC
Found at i:39823989 original size:87 final size:87
Alignment explanation
Indices: 39823839--39824105 Score: 345
Period size: 87 Copynumber: 3.1 Consensus size: 87
39823829 TAACCGTCTT
* * ** * * * *
39823839 TTTTCATATTCGATCGTCGAAACCATCCCTTTTCGTAGTTGATGGTCGTCATCATCCCTTTTCAT
1 TTTTCACATTCGATGGTCGTCACCATCCCTTTTCGTTGTCGATGGTCGTCACCATCCCATTTCAT
* * * *
39823904 TATCAATAACCGAACCTATCCC
66 AATCGATAGCCGAAGCTATCCC
* * * *
39823926 TTTTCACATTCGATGGTCGTCACCATCCCTTTTTGTTGTCGATTGTCATCACCGTCCCATTTCAT
1 TTTTCACATTCGATGGTCGTCACCATCCCTTTTCGTTGTCGATGGTCGTCACCATCCCATTTCAT
*
39823991 AATCGATAGCTGAAGCTATCCC
66 AATCGATAGCCGAAGCTATCCC
* *
39824013 TTTTCACATTCGATGGTCGTCACCATCCCTTTTCGTTGTCGATGGTTGTCACCATCGCATTTCAT
1 TTTTCACATTCGATGGTCGTCACCATCCCTTTTCGTTGTCGATGGTCGTCACCATCCCATTTCAT
* *
39824078 AATCGATAGCCGGAGCTATTCC
66 AATCGATAGCCGAAGCTATCCC
39824100 TTTTCA
1 TTTTCA
39824106 TATTTGATAG
Statistics
Matches: 154, Mismatches: 26, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
87 154 1.00
ACGTcount: A:0.20, C:0.28, G:0.15, T:0.37
Consensus pattern (87 bp):
TTTTCACATTCGATGGTCGTCACCATCCCTTTTCGTTGTCGATGGTCGTCACCATCCCATTTCAT
AATCGATAGCCGAAGCTATCCC
Found at i:39824135 original size:58 final size:58
Alignment explanation
Indices: 39824072--39824193 Score: 190
Period size: 58 Copynumber: 2.1 Consensus size: 58
39824062 CACCATCGCA
* * * *
39824072 TTTCATAATCGATAGCCGGAGCTATTCCTTTTCATATTTGATAGCCGAAGCTATCCCT
1 TTTCATAATCGATAACCGAAGCTATCCCTTTTCATATTTGATAACCGAAGCTATCCCT
* *
39824130 TTTCATATTCGATAACTGAAGCTATCCCTTTTCATATTTGATAACCGAAGCTATCCCT
1 TTTCATAATCGATAACCGAAGCTATCCCTTTTCATATTTGATAACCGAAGCTATCCCT
39824188 TTTCAT
1 TTTCAT
39824194 TGGTCGATGA
Statistics
Matches: 58, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
58 58 1.00
ACGTcount: A:0.25, C:0.24, G:0.12, T:0.39
Consensus pattern (58 bp):
TTTCATAATCGATAACCGAAGCTATCCCTTTTCATATTTGATAACCGAAGCTATCCCT
Found at i:39824142 original size:87 final size:87
Alignment explanation
Indices: 39823839--39824192 Score: 273
Period size: 87 Copynumber: 4.1 Consensus size: 87
39823829 TAACCGTCTT
* * * * * * * * * *
39823839 TTTTCATATTCGATCGTCGAAACCATCCCTTTTCGTAGTTGATGGTCGTCATCATCCCTTTTCAT
1 TTTTCACATTCGATAGCCGTAACCATCCCTTTTCATTGTCGATGGTTGTCACCATCCCATTTCAT
* * * *
39823904 TATCAATAACCGAACCTATCCC
66 AATCGATAGCCGAAGCTATCCC
* * * ** * ** *
39823926 TTTTCACATTCGATGGTCGTCACCATCCCTTTTTGTTGTCGATTGTCATCACCGTCCCATTTCAT
1 TTTTCACATTCGATAGCCGTAACCATCCCTTTTCATTGTCGATGGTTGTCACCATCCCATTTCAT
*
39823991 AATCGATAGCTGAAGCTATCCC
66 AATCGATAGCCGAAGCTATCCC
* * * * *
39824013 TTTTCACATTCGATGGTCGTCACCATCCCTTTTCGTTGTCGATGGTTGTCACCATCGCATTTCAT
1 TTTTCACATTCGATAGCCGTAACCATCCCTTTTCATTGTCGATGGTTGTCACCATCCCATTTCAT
* *
39824078 AATCGATAGCCGGAGCTATTCC
66 AATCGATAGCCGAAGCTATCCC
* * * *** * * *
39824100 TTTTCATATTTGATAGCCG-AAGCTATCCCTTTTCATAT-TCGATAACTG-AAGCTATCCCTTTT
1 TTTTCACATTCGATAGCCGTAA-CCATCCCTTTTCAT-TGTCGATGGTTGTCA-CCATCCCATTT
* * *
39824162 CATATTTGATAACCGAAGCTATCCC
63 CATAATCGATAGCCGAAGCTATCCC
39824187 TTTTCA
1 TTTTCA
39824193 TTGGTCGATG
Statistics
Matches: 219, Mismatches: 45, Indels: 6
0.81 0.17 0.02
Matches are distributed among these distances:
86 2 0.01
87 216 0.99
88 1 0.00
ACGTcount: A:0.22, C:0.27, G:0.14, T:0.37
Consensus pattern (87 bp):
TTTTCACATTCGATAGCCGTAACCATCCCTTTTCATTGTCGATGGTTGTCACCATCCCATTTCAT
AATCGATAGCCGAAGCTATCCC
Found at i:39826005 original size:78 final size:81
Alignment explanation
Indices: 39825870--39826053 Score: 243
Period size: 78 Copynumber: 2.3 Consensus size: 81
39825860 TTGAATGATG
*
39825870 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
39825934 TGTGCGAGATACTA-A
66 TGTGCGAGATACTATA
* * * **
39825949 TCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCAT
*
39826011 TTGTGCGAGTTACTATA
65 TTGTGCGAGATACTATA
* *
39826028 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
39826054 AACGAGGAGC
Statistics
Matches: 92, Mismatches: 9, Indels: 7
0.85 0.08 0.06
Matches are distributed among these distances:
77 1 0.01
78 49 0.53
79 28 0.30
80 14 0.15
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAGATACTATA
Found at i:39826015 original size:40 final size:40
Alignment explanation
Indices: 39825870--39826053 Score: 234
Period size: 40 Copynumber: 4.7 Consensus size: 40
39825860 TTGAATGATG
* * * *
39825870 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* *
39825910 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACT-AA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
39825949 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
39825988 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
39826029 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
39826054 AACGAGGAGC
Statistics
Matches: 127, Mismatches: 11, Indels: 12
0.85 0.07 0.08
Matches are distributed among these distances:
38 23 0.18
39 23 0.18
40 71 0.56
41 10 0.08
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:39833826 original size:77 final size:81
Alignment explanation
Indices: 39833706--39833888 Score: 234
Period size: 77 Copynumber: 2.3 Consensus size: 81
39833696 TTGAATGATG
*
39833706 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGAT-CCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAG-TCCCGAAGGCAT
39833769 TTGTGCGAGATACTA-A
65 TTGTGCGAGATACTATA
* * * **
39833785 TCCGGG-TAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGTCCCGAAGGCATT
*
39833847 TGTGCGAGTTACTATA
66 TGTGCGAGATACTATA
* *
39833863 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
39833889 AACGAGGAGC
Statistics
Matches: 90, Mismatches: 9, Indels: 9
0.83 0.08 0.08
Matches are distributed among these distances:
76 1 0.01
77 49 0.54
78 17 0.19
79 9 0.10
80 14 0.16
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGTCCCGAAGGCATT
TGTGCGAGATACTATA
Found at i:39833850 original size:40 final size:40
Alignment explanation
Indices: 39833706--39833888 Score: 225
Period size: 40 Copynumber: 4.7 Consensus size: 40
39833696 TTGAATGATG
* * * *
39833706 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* *
39833746 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACT-AA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
39833785 TCCGGG-TAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
39833823 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
39833864 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
39833889 AACGAGGAGC
Statistics
Matches: 126, Mismatches: 10, Indels: 14
0.84 0.07 0.09
Matches are distributed among these distances:
37 23 0.18
38 12 0.10
39 10 0.08
40 71 0.56
41 10 0.08
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:39837465 original size:30 final size:30
Alignment explanation
Indices: 39837429--39837521 Score: 145
Period size: 29 Copynumber: 3.2 Consensus size: 30
39837419 GAAATTTTAT
39837429 TCGATGGTCATCACCATCCCTTTTCATTAA
1 TCGATGGTCATCACCATCCCTTTTCATTAA
*
39837459 TCGATGGTCATCACCATCCCTTTTCA-TAG
1 TCGATGGTCATCACCATCCCTTTTCATTAA
* *
39837488 TTGATGGTCATCACCATTCCTTTTCATT-A
1 TCGATGGTCATCACCATCCCTTTTCATTAA
39837517 TCGAT
1 TCGAT
39837522 AGCCAAAGTT
Statistics
Matches: 57, Mismatches: 5, Indels: 3
0.88 0.08 0.05
Matches are distributed among these distances:
29 30 0.53
30 27 0.47
ACGTcount: A:0.22, C:0.28, G:0.12, T:0.39
Consensus pattern (30 bp):
TCGATGGTCATCACCATCCCTTTTCATTAA
Found at i:39837538 original size:29 final size:30
Alignment explanation
Indices: 39837506--39837688 Score: 148
Period size: 29 Copynumber: 6.3 Consensus size: 30
39837496 CATCACCATT
*
39837506 CCTTTTCATTA-TCGATAGCCAAAGTTATC
1 CCTTTTCATTATTCGATAGCCAAAGCTATC
* *
39837535 CCTTTTCA-TATTTGATAGCCGAAGCTATC
1 CCTTTTCATTATTCGATAGCCAAAGCTATC
* *** * *
39837564 CCTTTTCA-TATTCGATGGTCGTCA-CTGTA
1 CCTTTTCATTATTCGATAG-CCAAAGCTATC
* * * **
39837593 CCATTTCA-TAATCGATATCCGGAGCTA-C
1 CCTTTTCATTATTCGATAGCCAAAGCTATC
39837621 CCTTTTCA-TATTCGATAGCCAAAGCTATC
1 CCTTTTCATTATTCGATAGCCAAAGCTATC
* **
39837650 CCTTTTC-TTATTTGATAGCTGAAGCTATC
1 CCTTTTCATTATTCGATAGCCAAAGCTATC
39837679 CCTTTTCATT
1 CCTTTTCATT
39837689 GGTCGATGAT
Statistics
Matches: 121, Mismatches: 27, Indels: 11
0.76 0.17 0.07
Matches are distributed among these distances:
28 26 0.21
29 91 0.75
30 4 0.03
ACGTcount: A:0.23, C:0.25, G:0.13, T:0.39
Consensus pattern (30 bp):
CCTTTTCATTATTCGATAGCCAAAGCTATC
Found at i:39837581 original size:87 final size:85
Alignment explanation
Indices: 39837474--39837661 Score: 232
Period size: 87 Copynumber: 2.2 Consensus size: 85
39837464 GGTCATCACC
* * * *
39837474 ATCCCTTTTCATAGTTGATGGTCATCACCATTCCTTTTCATTATCGATAGCCAAAGTTATCCCTT
1 ATCCCTTTTCATA-TTGATGGTCATCACCATACCATTTCATAATCGATAGCCAAAGCTA-CCCTT
* *
39837539 TTCATATTTGATAGCCGAAGCT
64 TTCATATTCGATAGCCAAAGCT
* ** * **
39837561 ATCCCTTTTCATATTCGATGGTCGTCACTGTACCATTTCATAATCGATATCCGGAGCTACCCTTT
1 ATCCCTTTTCATATT-GATGGTCATCACCATACCATTTCATAATCGATAGCCAAAGCTACCCTTT
39837626 TCATATTCGATAGCCAAAGCT
65 TCATATTCGATAGCCAAAGCT
*
39837647 ATCCCTTTTCTTATT
1 ATCCCTTTTCATATT
39837662 TGATAGCTGA
Statistics
Matches: 87, Mismatches: 13, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
86 41 0.47
87 46 0.53
ACGTcount: A:0.23, C:0.26, G:0.12, T:0.39
Consensus pattern (85 bp):
ATCCCTTTTCATATTGATGGTCATCACCATACCATTTCATAATCGATAGCCAAAGCTACCCTTTT
CATATTCGATAGCCAAAGCT
Found at i:39837686 original size:86 final size:87
Alignment explanation
Indices: 39837474--39837687 Score: 202
Period size: 86 Copynumber: 2.5 Consensus size: 87
39837464 GGTCATCACC
* * * * * * *
39837474 ATCCCTTTTCATAGTT-GATGGTCATCACCATTCCTTTTCATTATCGATAGCCAAAGTTATCCCT
1 ATCCCTTTTCATA-TTCGATGCTCGTAACTATACCTTTTCATAATCGATAGCCAAAGCTATCCCT
* *
39837538 TTTCATATTTGATAGCCGAAGCT
65 TTTCATATTCGATAGCCAAAGCT
* * * * * **
39837561 ATCCCTTTTCATATTCGATGGTCGTCACTGTACCATTTCATAATCGATATCCGGAGCTA-CCCTT
1 ATCCCTTTTCATATTCGATGCTCGTAACTATACCTTTTCATAATCGATAGCCAAAGCTATCCCTT
39837625 TTCATATTCGATAGCCAAAGCT
66 TTCATATTCGATAGCCAAAGCT
* * *
39837647 ATCCCTTTTCTTATTTGATAGCT-G-AAGCTATCCCTTTTCAT
1 ATCCCTTTTCATATTCGAT-GCTCGTAA-CTATACCTTTTCAT
39837688 TGGTCGATGA
Statistics
Matches: 105, Mismatches: 19, Indels: 7
0.80 0.15 0.05
Matches are distributed among these distances:
85 1 0.01
86 56 0.53
87 48 0.46
ACGTcount: A:0.23, C:0.25, G:0.13, T:0.39
Consensus pattern (87 bp):
ATCCCTTTTCATATTCGATGCTCGTAACTATACCTTTTCATAATCGATAGCCAAAGCTATCCCTT
TTCATATTCGATAGCCAAAGCT
Found at i:39848452 original size:16 final size:17
Alignment explanation
Indices: 39848431--39848463 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
39848421 TTGAGCAAGT
*
39848431 ATAATG-TATTTGGTTA
1 ATAATGTTATTTAGTTA
39848447 ATAATGTTATTTAGTTA
1 ATAATGTTATTTAGTTA
39848464 TGACATGGTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.33, C:0.00, G:0.15, T:0.52
Consensus pattern (17 bp):
ATAATGTTATTTAGTTA
Found at i:39854347 original size:41 final size:41
Alignment explanation
Indices: 39854291--39854386 Score: 111
Period size: 41 Copynumber: 2.3 Consensus size: 41
39854281 TTCAGGCTTA
* * ** * *
39854291 AAGTCTAGCATGCTTAAGGCCGGTGATGTAATTTAGACTTT
1 AAGTCCAGCAGGCTTAAGGCCGGTGAAATAATTCAAACTTT
* *
39854332 ATGTCCAGCAGGCTTAATGCCGGTGAAATAATTCAAACTTT
1 AAGTCCAGCAGGCTTAAGGCCGGTGAAATAATTCAAACTTT
*
39854373 AAGTCTAGCAGGCT
1 AAGTCCAGCAGGCT
39854387 AATTGCTGGT
Statistics
Matches: 45, Mismatches: 10, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
41 45 1.00
ACGTcount: A:0.29, C:0.18, G:0.23, T:0.30
Consensus pattern (41 bp):
AAGTCCAGCAGGCTTAAGGCCGGTGAAATAATTCAAACTTT
Found at i:39863909 original size:29 final size:29
Alignment explanation
Indices: 39863877--39864269 Score: 177
Period size: 29 Copynumber: 13.8 Consensus size: 29
39863867 AAGGCATTAA
*
39863877 TTTAACTGAGA-ATGCAACAAAGGCATCCT
1 TTTAACAGAGATA-GCAACAAAGGCATCCT
* ** *
39863906 TTTAACAGAGATAGCAATAAAAACGTCCT
1 TTTAACAGAGATAGCAACAAAGGCATCCT
*
39863935 TTTAACAGAGATAG-ACATAAAGGCATCCT
1 TTTAACAGAGATAGCA-ACAAAGGCATCCT
* * * *
39863964 TTTAACAAAGA-AACCACAAAGGCGTCC-
1 TTTAACAGAGATAGCAACAAAGGCATCCT
* * * * *
39863991 TTTAACAGAGATTGCCATAAAGACTTCCT
1 TTTAACAGAGATAGCAACAAAGGCATCCT
* * *
39864020 TTTAACAGAGATCGCCACAAAGGCTTCCT
1 TTTAACAGAGATAGCAACAAAGGCATCCT
** * * * *
39864049 TTTAATGGTGA-A-CACCACAAAAGCTTCAT
1 TTTAACAGAGATAGCA--ACAAAGGCATCCT
* * *
39864078 TTTAACAGAGATCGTC-GCAAAGG-GTCCT
1 TTTAACAGAGATAG-CAACAAAGGCATCCT
* * * * *
39864106 TTGAATAGAGATAACTACAAAGGCTTCCT
1 TTTAACAGAGATAGCAACAAAGGCATCCT
* ** * *
39864135 TTTAACAGAGTTCA-CCGCAAAGGCTTAC-
1 TTTAACAGAGAT-AGCAACAAAGGCATCCT
* **
39864163 TTTAACAGAGATAGCCACAAAGGTTTCC-
1 TTTAACAGAGATAGCAACAAAGGCATCCT
* * *
39864191 TTT--CAAAGATAGCCACAAAGGCTTCCT
1 TTTAACAGAGATAGCAACAAAGGCATCCT
* ** *
39864218 TTTAACAGAGTTCA-CCGCAAAGGCTTCC-
1 TTTAACAGAGAT-AGCAACAAAGGCATCCT
* *
39864246 TTTAACAGTGATAGCCACAAAGGC
1 TTTAACAGAGATAGCAACAAAGGC
39864270 TTTCTTTCAG
Statistics
Matches: 284, Mismatches: 61, Indels: 39
0.74 0.16 0.10
Matches are distributed among these distances:
26 21 0.07
27 17 0.06
28 86 0.30
29 156 0.55
30 3 0.01
32 1 0.00
ACGTcount: A:0.36, C:0.22, G:0.17, T:0.25
Consensus pattern (29 bp):
TTTAACAGAGATAGCAACAAAGGCATCCT
Found at i:39864020 original size:85 final size:86
Alignment explanation
Indices: 39863893--39864089 Score: 234
Period size: 85 Copynumber: 2.3 Consensus size: 86
39863883 TGAGAATGCA
*
39863893 ACAAAGGCATCCTTTTAACAGAGATAGCAATAAAAACGTCCTTTTAACAGAGATAGACATAAAGG
1 ACAAAGGCATCCTTTTAACAGAGATAGCAATAAAAACGTCCTTTTAACAGAGATAGACACAAAGG
39863958 CATCCTTTTAACAAAGAAACC
66 CATCCTTTTAACAAAGAAACC
* * * * * * *
39863979 ACAAAGGCGTCC-TTTAACAGAGATTGCCATAAAGACTTCCTTTTAACAGAGATCGCCACAAAGG
1 ACAAAGGCATCCTTTTAACAGAGATAGCAATAAAAACGTCCTTTTAACAGAGATAGACACAAAGG
* ****
39864043 CTTCCTTTTAATGGTGAACACC
66 CATCCTTTTAACAAAGAA-ACC
* * *
39864065 ACAAAAGCTTCATTTTAACAGAGAT
1 ACAAAGGCATCCTTTTAACAGAGAT
39864090 CGTCGCAAAG
Statistics
Matches: 93, Mismatches: 16, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
85 58 0.62
86 23 0.25
87 12 0.13
ACGTcount: A:0.39, C:0.21, G:0.15, T:0.24
Consensus pattern (86 bp):
ACAAAGGCATCCTTTTAACAGAGATAGCAATAAAAACGTCCTTTTAACAGAGATAGACACAAAGG
CATCCTTTTAACAAAGAAACC
Found at i:39864043 original size:57 final size:58
Alignment explanation
Indices: 39863893--39864304 Score: 323
Period size: 57 Copynumber: 7.3 Consensus size: 58
39863883 TGAGAATGCA
* * * **
39863893 ACAAAGGCATCCTTTTAACAGAGATAGCAATAAAAACGTCCTTTTAACAGAGATAGA-C
1 ACAAAGGCTTCCTTTTAACAGAGATAGCCACAAAGGCGTCCTTTTAACAGAGATA-ACC
* * * * **
39863951 ATAAAGGCATCCTTTTAACAAAGA-AACCACAAAGGCGTCC-TTTAACAGAGATTGCC
1 ACAAAGGCTTCCTTTTAACAGAGATAGCCACAAAGGCGTCCTTTTAACAGAGATAACC
* * * * ** *
39864007 ATAAAGACTTCCTTTTAACAGAGATCGCCACAAAGGCTTCCTTTTAATGGTGA-ACACC
1 ACAAAGGCTTCCTTTTAACAGAGATAGCCACAAAGGCGTCCTTTTAACAGAGATA-ACC
* * * * * * * *
39864065 ACAAAAGCTTCATTTTAACAGAGATCGTCGCAAAGG-GTCCTTTGAATAGAGATAACT
1 ACAAAGGCTTCCTTTTAACAGAGATAGCCACAAAGGCGTCCTTTTAACAGAGATAACC
* * * * *
39864122 ACAAAGGCTTCCTTTTAACAGAGTTCA-CCGCAAAGGCTTAC-TTTAACAGAGATAGCC
1 ACAAAGGCTTCCTTTTAACAGAGAT-AGCCACAAAGGCGTCCTTTTAACAGAGATAACC
* * * * *
39864179 ACAAAGGTTTCC-TTT--CAAAGATAGCCACAAAGGCTTCCTTTTAACAGAGTTCACC
1 ACAAAGGCTTCCTTTTAACAGAGATAGCCACAAAGGCGTCCTTTTAACAGAGATAACC
* * * *
39864234 GCAAAGGCTTCC-TTTAACAGTGATAGCCACAAAGGCTTTC-TTT--CAGAGATAACC
1 ACAAAGGCTTCCTTTTAACAGAGATAGCCACAAAGGCGTCCTTTTAACAGAGATAACC
39864288 ACAAAGGC-TCACTTTTA
1 ACAAAGGCTTC-CTTTTA
39864305 TGGAAATGGC
Statistics
Matches: 283, Mismatches: 58, Indels: 29
0.76 0.16 0.08
Matches are distributed among these distances:
53 3 0.01
54 34 0.12
55 30 0.11
56 40 0.14
57 111 0.39
58 65 0.23
ACGTcount: A:0.36, C:0.23, G:0.17, T:0.25
Consensus pattern (58 bp):
ACAAAGGCTTCCTTTTAACAGAGATAGCCACAAAGGCGTCCTTTTAACAGAGATAACC
Found at i:39864081 original size:143 final size:143
Alignment explanation
Indices: 39863934--39864193 Score: 319
Period size: 143 Copynumber: 1.8 Consensus size: 143
39863924 AAAAACGTCC
* *
39863934 TTTTAACAGAGATAGACATAAAGGCATCCTTTTAACAAAGA-AACCACAAAGGCGTCC-TTTAAC
1 TTTTAACAGAGATAGACACAAAGG-ATCCTTTGAACAAAGATAACCACAAAGGCGTCCTTTTAAC
* * * *
39863997 AGAGATT-GCCATAAAGACTTCCTTTTAACAGAGATCGCCACAAAGGCTTCCTTTTAATGGTGAA
65 AGAG-TTCACCACAAAGACTTAC-TTTAACAGAGATAGCCACAAAGGCTTCCTTTTAATGGTGAA
39864061 CACCACAAAAGCTTCA
128 CACCACAAAAGCTTCA
* * * * * * * *
39864077 TTTTAACAGAGATCGTCGCAAAGGGTCCTTTGAATAGAGATAACTACAAAGGCTTCCTTTTAACA
1 TTTTAACAGAGATAGACACAAAGGATCCTTTGAACAAAGATAACCACAAAGGCGTCCTTTTAACA
* * *
39864142 GAGTTCACCGCAAAGGCTTACTTTAACAGAGATAGCCACAAAGGTTTCCTTT
66 GAGTTCACCACAAAGACTTACTTTAACAGAGATAGCCACAAAGGCTTCCTTT
39864194 CAAAGATAGC
Statistics
Matches: 97, Mismatches: 17, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
142 12 0.12
143 65 0.67
144 20 0.21
ACGTcount: A:0.35, C:0.22, G:0.17, T:0.26
Consensus pattern (143 bp):
TTTTAACAGAGATAGACACAAAGGATCCTTTGAACAAAGATAACCACAAAGGCGTCCTTTTAACA
GAGTTCACCACAAAGACTTACTTTAACAGAGATAGCCACAAAGGCTTCCTTTTAATGGTGAACAC
CACAAAAGCTTCA
Found at i:39864206 original size:26 final size:27
Alignment explanation
Indices: 39864122--39864296 Score: 137
Period size: 28 Copynumber: 6.3 Consensus size: 27
39864112 AGAGATAACT
*
39864122 ACAAAGGCTTCCTTTTAACAGAGTTCA-CC
1 ACAAAGGCTTCCTTTCAACAGA--T-AGCC
* *
39864151 GCAAAGGCTTACTTT-AACAGAGATAGCC
1 ACAAAGGCTTCCTTTCAAC--AGATAGCC
*
39864179 ACAAAGGTTTCCTTTCAA-AGATAGCC
1 ACAAAGGCTTCCTTTCAACAGATAGCC
*
39864205 ACAAAGGCTTCCTTTTAACAGAGTTCA-CC
1 ACAAAGGCTTCCTTTCAACAGA--T-AGCC
*
39864234 GCAAAGGCTTCCTTT-AACAGTGATAGCC
1 ACAAAGGCTTCCTTTCAACA--GATAGCC
* * *
39864262 ACAAAGGCTTTCTTTC-AGAGATAACC
1 ACAAAGGCTTCCTTTCAACAGATAGCC
39864288 ACAAAGGCT
1 ACAAAGGCT
39864297 CACTTTTATG
Statistics
Matches: 122, Mismatches: 12, Indels: 27
0.76 0.07 0.17
Matches are distributed among these distances:
26 39 0.32
27 5 0.04
28 40 0.33
29 32 0.26
30 6 0.05
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (27 bp):
ACAAAGGCTTCCTTTCAACAGATAGCC
Found at i:39864223 original size:83 final size:84
Alignment explanation
Indices: 39863943--39864304 Score: 306
Period size: 83 Copynumber: 4.3 Consensus size: 84
39863933 CTTTTAACAG
* * * * * * * *
39863943 AGATAGACATAAAGGCATCCTTTTAACAAAG-AAACCACAAAGGCGTCCTTTAACAGAGATTGCC
1 AGATAGCCACAAAGGCTTCCTTTTAACAGAGTACACCACAAAGGCTTACTTTAACAGAGATAGCC
* ** *
39864007 ATAAAGACTTCCTTTTAACAG
66 ACAAAGGTTTCC-TTT-ACAA
* ** * * * * * *
39864028 AGATCGCCACAAAGGCTTCCTTTTAATGGTGAACACCACAAAAGCTTCATTTTAACAGAGATCGT
1 AGATAGCCACAAAGGCTTCCTTTTAACAGAGTACACCACAAAGGCTT-ACTTTAACAGAGATAGC
* *
39864093 CGCAAAGG-GTCCTTTGA-ATA
65 CACAAAGGTTTCCTTT-ACA-A
* * * *
39864113 GAGATAACTACAAAGGCTTCCTTTTAACAGAGTTCACCGCAAAGGCTTACTTTAACAGAGATAGC
1 -AGATAGCCACAAAGGCTTCCTTTTAACAGAGTACACCACAAAGGCTTACTTTAACAGAGATAGC
39864178 CACAAAGGTTTCCTTT-CAA
65 CACAAAGGTTTCCTTTACAA
* * * *
39864197 AGATAGCCACAAAGGCTTCCTTTTAACAGAGTTCACCGCAAAGGCTTCCTTTAACAGTGATAGCC
1 AGATAGCCACAAAGGCTTCCTTTTAACAGAGTACACCACAAAGGCTTACTTTAACAGAGATAGCC
*
39864262 ACAAAGGCTTT-CTTT-CAG
66 ACAAAGG-TTTCCTTTACAA
*
39864280 AGATAACCACAAAGGC-TCACTTTTA
1 AGATAGCCACAAAGGCTTC-CTTTTA
39864305 TGGAAATGGC
Statistics
Matches: 227, Mismatches: 42, Indels: 18
0.79 0.15 0.06
Matches are distributed among these distances:
82 2 0.01
83 95 0.42
84 5 0.02
85 49 0.22
86 58 0.26
87 18 0.08
ACGTcount: A:0.35, C:0.23, G:0.17, T:0.25
Consensus pattern (84 bp):
AGATAGCCACAAAGGCTTCCTTTTAACAGAGTACACCACAAAGGCTTACTTTAACAGAGATAGCC
ACAAAGGTTTCCTTTACAA
Found at i:39870531 original size:26 final size:26
Alignment explanation
Indices: 39870500--39870554 Score: 110
Period size: 26 Copynumber: 2.1 Consensus size: 26
39870490 AACACACCAA
39870500 TATTGCAGCAAAGTTACCAGTAATAG
1 TATTGCAGCAAAGTTACCAGTAATAG
39870526 TATTGCAGCAAAGTTACCAGTAATAG
1 TATTGCAGCAAAGTTACCAGTAATAG
39870552 TAT
1 TAT
39870555 ATGTGGAAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.38, C:0.15, G:0.18, T:0.29
Consensus pattern (26 bp):
TATTGCAGCAAAGTTACCAGTAATAG
Found at i:39870767 original size:27 final size:27
Alignment explanation
Indices: 39870737--39870795 Score: 82
Period size: 27 Copynumber: 2.2 Consensus size: 27
39870727 ATCTCCTAAA
39870737 GGTATAATAGTCATTTTACCCTACGGG
1 GGTATAATAGTCATTTTACCCTACGGG
** * *
39870764 GGTATTTTGGTCATTTTACCTTACGGG
1 GGTATAATAGTCATTTTACCCTACGGG
39870791 GGTAT
1 GGTAT
39870796 TTCTCTCATT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.20, C:0.15, G:0.25, T:0.39
Consensus pattern (27 bp):
GGTATAATAGTCATTTTACCCTACGGG
Found at i:39870887 original size:27 final size:27
Alignment explanation
Indices: 39870746--39870879 Score: 171
Period size: 27 Copynumber: 5.0 Consensus size: 27
39870736 AGGTATAATA
* *
39870746 GTCATTTTACCCTACGGGGGTATTTTG
1 GTCATTTTACCCTATGGGGGTATTTCG
* * *
39870773 GTCATTTTACCTTACGGGGGTATTTCT
1 GTCATTTTACCCTATGGGGGTATTTCG
* *
39870800 CTCATTTTACCCTATAGGGGTACTTT-G
1 GTCATTTTACCCTATGGGGGTA-TTTCG
* *
39870827 GTCATTTTACCCTATGAGAGTATTTCG
1 GTCATTTTACCCTATGGGGGTATTTCG
39870854 GTCATTTTACCCTATGGGGGTATTTC
1 GTCATTTTACCCTATGGGGGTATTTC
39870880 AATCATTTAT
Statistics
Matches: 91, Mismatches: 14, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
26 3 0.03
27 85 0.93
28 3 0.03
ACGTcount: A:0.17, C:0.19, G:0.22, T:0.42
Consensus pattern (27 bp):
GTCATTTTACCCTATGGGGGTATTTCG
Found at i:39872891 original size:20 final size:18
Alignment explanation
Indices: 39872866--39872912 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 18
39872856 AAACAATTAT
*
39872866 AAAAAACTAAAGAATATATA
1 AAAAAACTAAA-AA-ATAGA
39872886 AAAAAACTTAAAAAATAGA
1 AAAAAAC-TAAAAAATAGA
39872905 AAAAAACT
1 AAAAAACT
39872913 CTAAACCCTA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
18 1 0.04
19 11 0.44
20 9 0.36
21 4 0.16
ACGTcount: A:0.72, C:0.06, G:0.04, T:0.17
Consensus pattern (18 bp):
AAAAAACTAAAAAATAGA
Found at i:39872897 original size:21 final size:19
Alignment explanation
Indices: 39872866--39872917 Score: 61
Period size: 20 Copynumber: 2.6 Consensus size: 19
39872856 AAACAATTAT
*
39872866 AAAAAAC-TAAAGAATATATA
1 AAAAAACTTAAA-AA-ATAGA
39872886 AAAAAACTTAAAAAATAGA
1 AAAAAACTTAAAAAATAGA
39872905 AAAAAACTCTAAA
1 AAAAAACT-TAAA
39872918 CCCTAAACTT
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
19 12 0.41
20 13 0.45
21 4 0.14
ACGTcount: A:0.71, C:0.08, G:0.04, T:0.17
Consensus pattern (19 bp):
AAAAAACTTAAAAAATAGA
Found at i:39893572 original size:40 final size:40
Alignment explanation
Indices: 39893528--39893607 Score: 106
Period size: 40 Copynumber: 2.0 Consensus size: 40
39893518 ACACGTTCAG
* * *
39893528 GGGTACTAAAGTACAAAAAGGGGCATGTATGTGCAAACAT
1 GGGTACCAAAGTACAAAAAGGGGAACGTATGTGCAAACAT
* **
39893568 GGGTACCGAAGTACAATCAGGGGAACGTATGTGCAAACAT
1 GGGTACCAAAGTACAAAAAGGGGAACGTATGTGCAAACAT
39893608 TCAATAATTT
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 34 1.00
ACGTcount: A:0.38, C:0.15, G:0.29, T:0.19
Consensus pattern (40 bp):
GGGTACCAAAGTACAAAAAGGGGAACGTATGTGCAAACAT
Found at i:39895536 original size:28 final size:28
Alignment explanation
Indices: 39895492--39895581 Score: 137
Period size: 28 Copynumber: 3.2 Consensus size: 28
39895482 TATACAGTAT
* *
39895492 CAGT-ACAGTGTGGGCCTTAGCCCATTA
1 CAGTAACAGTGTGAGCCTTAGCCCAATA
39895519 CAGTAACAGTGTGAGCCTTAGCCCAATA
1 CAGTAACAGTGTGAGCCTTAGCCCAATA
* *
39895547 TAGTAACAATGTGAGCCTTAGCCCAATA
1 CAGTAACAGTGTGAGCCTTAGCCCAATA
39895575 CAGTAAC
1 CAGTAAC
39895582 CAGTACAATG
Statistics
Matches: 57, Mismatches: 5, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
27 4 0.07
28 53 0.93
ACGTcount: A:0.31, C:0.24, G:0.21, T:0.23
Consensus pattern (28 bp):
CAGTAACAGTGTGAGCCTTAGCCCAATA
Found at i:39895706 original size:26 final size:26
Alignment explanation
Indices: 39895677--39895727 Score: 84
Period size: 26 Copynumber: 2.0 Consensus size: 26
39895667 CCAACACACA
* *
39895677 AATATCGCAGCAAAGCTGCCAGTAAT
1 AATAACGCAACAAAGCTGCCAGTAAT
39895703 AATAACGCAACAAAGCTGCCAGTAA
1 AATAACGCAACAAAGCTGCCAGTAA
39895728 CAGTATATGT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.43, C:0.24, G:0.18, T:0.16
Consensus pattern (26 bp):
AATAACGCAACAAAGCTGCCAGTAAT
Found at i:39895945 original size:27 final size:27
Alignment explanation
Indices: 39895900--39896121 Score: 245
Period size: 27 Copynumber: 8.2 Consensus size: 27
39895890 CATAACGGTC
*
39895900 ATTTTACCCCTTC-AGGGGTATTTTAGTC
1 ATTTTA-CCCTTCGA-GGGTATTTTAGTA
*
39895928 ATTTTACCCTTCGAGGGTATTTCAGTA
1 ATTTTACCCTTCGAGGGTATTTTAGTA
** *
39895955 ATTTTACCCTTTAAGGGTATTTCAGTA
1 ATTTTACCCTTCGAGGGTATTTTAGTA
* *
39895982 A-TTTACCCTTCGAGGGAATTTTGGTA
1 ATTTTACCCTTCGAGGGTATTTTAGTA
* *
39896008 ATTTTACTCTTCGAGTGTATTTT-GTTA
1 ATTTTACCCTTCGAGGGTATTTTAG-TA
*
39896035 ATTTTACCCTTCGAGGGTA-TTTCGATA
1 ATTTTACCCTTCGAGGGTATTTTAG-TA
* *
39896062 ATTTTACCCTTTGAGTGTATTTTAGTA
1 ATTTTACCCTTCGAGGGTATTTTAGTA
* * *
39896089 ATTTTACCATTCGAGGGTATTTCAGAA
1 ATTTTACCCTTCGAGGGTATTTTAGTA
39896116 ATTTTA
1 ATTTTA
39896122 TCCTATAGGA
Statistics
Matches: 166, Mismatches: 23, Indels: 11
0.83 0.12 0.05
Matches are distributed among these distances:
26 25 0.15
27 130 0.78
28 11 0.07
ACGTcount: A:0.23, C:0.15, G:0.17, T:0.45
Consensus pattern (27 bp):
ATTTTACCCTTCGAGGGTATTTTAGTA
Found at i:39896136 original size:107 final size:107
Alignment explanation
Indices: 39895928--39896126 Score: 276
Period size: 107 Copynumber: 1.9 Consensus size: 107
39895918 TATTTTAGTC
*
39895928 ATTTTACCCTTCGAGGGTATTTCAGTAATTTTACCCTTTAAGGGTATTTCAGTAATTTACCCTTC
1 ATTTTACCCTTCGAGGGTATTTCAGTAATTTTACCCTTTAAGGGTATTTCAGTAATTTACCATTC
** * * *
39895993 GAGGGAATTTTGGTAATTTTACTCTTCGAGTGTATTTTGTTA
66 GAGGGAATTTCAGAAATTTTACTCCTAGAGTGTATTTTGTTA
* * *
39896035 ATTTTACCCTTCGAGGGTATTTC-GATAATTTTACCCTTTGAGTGTATTTTAGTAATTTTACCAT
1 ATTTTACCCTTCGAGGGTATTTCAG-TAATTTTACCCTTTAAGGGTATTTCAGTAA-TTTACCAT
*
39896099 TCGAGGGTATTTCAGAAATTTTA-TCCTA
64 TCGAGGGAATTTCAGAAATTTTACTCCTA
39896127 TAGGATATTT
Statistics
Matches: 80, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
106 1 0.01
107 53 0.66
108 26 0.32
ACGTcount: A:0.24, C:0.15, G:0.17, T:0.45
Consensus pattern (107 bp):
ATTTTACCCTTCGAGGGTATTTCAGTAATTTTACCCTTTAAGGGTATTTCAGTAATTTACCATTC
GAGGGAATTTCAGAAATTTTACTCCTAGAGTGTATTTTGTTA
Found at i:39896165 original size:53 final size:54
Alignment explanation
Indices: 39896103--39896217 Score: 160
Period size: 54 Copynumber: 2.1 Consensus size: 54
39896093 TACCATTCGA
* * *
39896103 GGGTATTTCAGAAATTTTATCCTATA-GGATATTTCGATCATTCTACGTTATGG
1 GGGTATTTCAGAAATTCTACCCTATAGGGATATTTCGATCATTCTACCTTATGG
** * *
39896156 GGGTATTTCAGTTATTCTACCCTATAGGGGTATTTCGGTCATTCTACCTTATGG
1 GGGTATTTCAGAAATTCTACCCTATAGGGATATTTCGATCATTCTACCTTATGG
39896210 GGGTATTT
1 GGGTATTT
39896218 TGGTCATTTT
Statistics
Matches: 54, Mismatches: 7, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
53 22 0.41
54 32 0.59
ACGTcount: A:0.22, C:0.15, G:0.22, T:0.42
Consensus pattern (54 bp):
GGGTATTTCAGAAATTCTACCCTATAGGGATATTTCGATCATTCTACCTTATGG
Found at i:39896172 original size:27 final size:27
Alignment explanation
Indices: 39896132--39896231 Score: 112
Period size: 27 Copynumber: 3.7 Consensus size: 27
39896122 TCCTATAGGA
*
39896132 TATTTC-GATCATTCTACGTTATGGGGG
1 TATTTCAG-TCATTCTACCTTATGGGGG
* * *
39896159 TATTTCAGTTATTCTACCCTATAGGGG
1 TATTTCAGTCATTCTACCTTATGGGGG
*
39896186 TATTTCGGTCATTCTACCTTATGGGGG
1 TATTTCAGTCATTCTACCTTATGGGGG
** *
39896213 TATTTTGGTCATTTTACCT
1 TATTTCAGTCATTCTACCT
39896232 AATTTAGGGT
Statistics
Matches: 62, Mismatches: 10, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
27 61 0.98
28 1 0.02
ACGTcount: A:0.18, C:0.17, G:0.21, T:0.44
Consensus pattern (27 bp):
TATTTCAGTCATTCTACCTTATGGGGG
Found at i:39896631 original size:50 final size:50
Alignment explanation
Indices: 39896577--39896671 Score: 145
Period size: 50 Copynumber: 1.9 Consensus size: 50
39896567 TCTCAACGCA
* *
39896577 GTATTTCAGCTTTTCAGCTTTTGCCATTCTACAGTTACAGTGGGGACACC
1 GTATTTCAGCATTTCAGCTTTAGCCATTCTACAGTTACAGTGGGGACACC
* * *
39896627 GTATTTCTGCATTTCAGCTTTAGTCGTTCTACAGTTACAGTGGGG
1 GTATTTCAGCATTTCAGCTTTAGCCATTCTACAGTTACAGTGGGG
39896672 TAGTTACACA
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
50 40 1.00
ACGTcount: A:0.19, C:0.21, G:0.22, T:0.38
Consensus pattern (50 bp):
GTATTTCAGCATTTCAGCTTTAGCCATTCTACAGTTACAGTGGGGACACC
Found at i:39902364 original size:12 final size:12
Alignment explanation
Indices: 39902347--39902373 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
39902337 TACACGCCCA
39902347 TGTGCTAGGCCG
1 TGTGCTAGGCCG
39902359 TGTGCTAGGCCG
1 TGTGCTAGGCCG
39902371 TGT
1 TGT
39902374 AATAGCCTGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.07, C:0.22, G:0.41, T:0.30
Consensus pattern (12 bp):
TGTGCTAGGCCG
Found at i:39902550 original size:29 final size:29
Alignment explanation
Indices: 39902507--39902569 Score: 90
Period size: 29 Copynumber: 2.2 Consensus size: 29
39902497 TTACAAGCCA
* * *
39902507 CTCACACTATTTGATTCAATACGAAGTGT
1 CTCACACAATCTGATTCAATACGAAATGT
*
39902536 TTCACACAATCTGATTCAATACGAAATGT
1 CTCACACAATCTGATTCAATACGAAATGT
39902565 CTCAC
1 CTCAC
39902570 CTTTCTGACA
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.33, C:0.24, G:0.11, T:0.32
Consensus pattern (29 bp):
CTCACACAATCTGATTCAATACGAAATGT
Found at i:39903991 original size:12 final size:12
Alignment explanation
Indices: 39903956--39903991 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
39903946 GAAAATTTTA
*
39903956 ATAATAATATAA
1 ATAATAATATAT
*
39903968 ATGATAATATAT
1 ATAATAATATAT
39903980 ATAATAATATAT
1 ATAATAATATAT
39903992 TTAAAGTCGA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.58, C:0.00, G:0.03, T:0.39
Consensus pattern (12 bp):
ATAATAATATAT
Found at i:39905093 original size:24 final size:26
Alignment explanation
Indices: 39905061--39905117 Score: 73
Period size: 26 Copynumber: 2.3 Consensus size: 26
39905051 AAAAAATGTA
* *
39905061 TTTCGTTTTT-CTCCTCTTT-TCTTT
1 TTTCGTTTTTGCTACTATTTCTCTTT
*
39905085 TTTCTTTTTTGCTACTATTTCTCTTT
1 TTTCGTTTTTGCTACTATTTCTCTTT
39905111 TTTCGTT
1 TTTCGTT
39905118 CGTTCGTCCT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
24 9 0.33
25 7 0.26
26 11 0.41
ACGTcount: A:0.04, C:0.21, G:0.05, T:0.70
Consensus pattern (26 bp):
TTTCGTTTTTGCTACTATTTCTCTTT
Found at i:39906155 original size:217 final size:217
Alignment explanation
Indices: 39905772--39907030 Score: 2079
Period size: 217 Copynumber: 5.8 Consensus size: 217
39905762 CGGCAGGACT
** *
39905772 TGATGCGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTTTTACTTTAATCCGCTCCACTAC
1 TGATGCGATCCACTCTACTGCAACTTCAGAGAGATAAGATCTATTACTTTAATCCGCTCCACTAC
* * * *
39905837 AACTTCAGGGAGAAAGGATTATCGACTTCAATCTGCTCCACTGCAACCTTAGAGAGAGAAGATTT
66 AACTTCAGGGAGATAGGATTATCGACTTCAATCTGCTCCACTGCAACCTCAGGGAGATAAGATTT
**
39905902 GCTTCTTCAGTCTGCCCCACTGTGACTTTGGGGGGATAAGACTTGTTTTCTCAGTCTGCTCCACT
131 GCTTCTTCAGTCTGCCCCACTGTGACTTCAGGGGGATAAGACTTGTTTTCTCAGTCTGCTCCACT
39905967 GCAACTTCAGGGAGATAAGACC
196 GCAACTTCAGGGAGATAAGACC
*
39905989 TGATGCGATCCACTCTACTGCAACTTCAGAGAGATAAGACCTATTACTTTAATCCGCTCCACTAC
1 TGATGCGATCCACTCTACTGCAACTTCAGAGAGATAAGATCTATTACTTTAATCCGCTCCACTAC
* *
39906054 AACTTCAGGGAGATAGGATTATCGACTTAAATCTGCTTCACTGCAACCTCAGGGAGATAAGATTT
66 AACTTCAGGGAGATAGGATTATCGACTTCAATCTGCTCCACTGCAACCTCAGGGAGATAAGATTT
* **
39906119 GCTTCTTCAGTTTGCCCCACTGTGTTTTCAGGGGGATAAGACTTGTTTTCTCAGTCTGCTCCACT
131 GCTTCTTCAGTCTGCCCCACTGTGACTTCAGGGGGATAAGACTTGTTTTCTCAGTCTGCTCCACT
*
39906184 GCAACTTCAGGTAGATAAGACC
196 GCAACTTCAGGGAGATAAGACC
* * * *
39906206 TAATGTGATCCACTATACTACAACTTCAGAGAGATAAGATCTATTACTTTAATCCGCTCCACTAC
1 TGATGCGATCCACTCTACTGCAACTTCAGAGAGATAAGATCTATTACTTTAATCCGCTCCACTAC
* * * * *
39906271 AAATTCAGTGAGATAGGATTATTGACTTCGATCTGCTCCACTACAACCTCAGGGAGATAAGATTT
66 AACTTCAGGGAGATAGGATTATCGACTTCAATCTGCTCCACTGCAACCTCAGGGAGATAAGATTT
*
39906336 GCTTCTTCAGTTTGCCCCACTGTGACTTCAGGGGGATAAGACTTGTTTTCTCAGTCTGCTCCACT
131 GCTTCTTCAGTCTGCCCCACTGTGACTTCAGGGGGATAAGACTTGTTTTCTCAGTCTGCTCCACT
39906401 GCAACTTCAGGGAGATAAGACC
196 GCAACTTCAGGGAGATAAGACC
* * *
39906423 TAATGCGATCCACTATACTGCAACTTCAGAGAGATAAGATCTATTACTTTAATCCGCTCTACTAC
1 TGATGCGATCCACTCTACTGCAACTTCAGAGAGATAAGATCTATTACTTTAATCCGCTCCACTAC
* *
39906488 AACTTCAGTGAGATAGGATTATTGACTTCAATCTGCTCCACTGCAACCTCAGGGAGATAAGATTT
66 AACTTCAGGGAGATAGGATTATCGACTTCAATCTGCTCCACTGCAACCTCAGGGAGATAAGATTT
* * *
39906553 GCTTCATCAGTCTGCCCCACTATGACTTCAGGGGGATAAGACTTGTTTTCCCAGTCTGCTCCACT
131 GCTTCTTCAGTCTGCCCCACTGTGACTTCAGGGGGATAAGACTTGTTTTCTCAGTCTGCTCCACT
* * *
39906618 GTAACTTTAAGGAGATAAGACC
196 GCAACTTCAGGGAGATAAGACC
* * *
39906640 TGATACGATCCACTCTACTGCAACTTCAGAGAGATAATATCTATTACTTTAATCCGTTCCACTAC
1 TGATGCGATCCACTCTACTGCAACTTCAGAGAGATAAGATCTATTACTTTAATCCGCTCCACTAC
* * *
39906705 AACTTCAGGGAGATAGGATTATCAACTTCAATCTGCTCCAATGCAGCCTCAGGGAGATAAGATTT
66 AACTTCAGGGAGATAGGATTATCGACTTCAATCTGCTCCACTGCAACCTCAGGGAGATAAGATTT
*
39906770 GCTTCTTCAGTCTGCCCCACTGTGACTTCAAGGGGATAAGACTTGTTTTCTCAGTCTGCTCCACT
131 GCTTCTTCAGTCTGCCCCACTGTGACTTCAGGGGGATAAGACTTGTTTTCTCAGTCTGCTCCACT
39906835 GCAACTTCAGGGAGATAAGACC
196 GCAACTTCAGGGAGATAAGACC
* *
39906857 TGATGTGATCCACTCTACTGCAACTTCAGAGAGATAAGATCTATTACTTTAATCTGCTCCACTAC
1 TGATGCGATCCACTCTACTGCAACTTCAGAGAGATAAGATCTATTACTTTAATCCGCTCCACTAC
39906922 AACTTCAGGGAGATAGGATTATCGACTTCAATCTGCTCCACTGCAACCTCAGGGAGATAAGATTT
66 AACTTCAGGGAGATAGGATTATCGACTTCAATCTGCTCCACTGCAACCTCAGGGAGATAAGATTT
* *
39906987 GCTTCTTCAGTTTG-CCCACTGTGACTTCAAGGGGATAAGACTTG
131 GCTTCTTCAGTCTGCCCCACTGTGACTTCAGGGGGATAAGACTTG
39907031 CTGCGATCCA
Statistics
Matches: 971, Mismatches: 71, Indels: 1
0.93 0.07 0.00
Matches are distributed among these distances:
216 30 0.03
217 941 0.97
ACGTcount: A:0.27, C:0.24, G:0.19, T:0.30
Consensus pattern (217 bp):
TGATGCGATCCACTCTACTGCAACTTCAGAGAGATAAGATCTATTACTTTAATCCGCTCCACTAC
AACTTCAGGGAGATAGGATTATCGACTTCAATCTGCTCCACTGCAACCTCAGGGAGATAAGATTT
GCTTCTTCAGTCTGCCCCACTGTGACTTCAGGGGGATAAGACTTGTTTTCTCAGTCTGCTCCACT
GCAACTTCAGGGAGATAAGACC
Found at i:39907058 original size:172 final size:173
Alignment explanation
Indices: 39906704--39907125 Score: 514
Period size: 172 Copynumber: 2.4 Consensus size: 173
39906694 CGTTCCACTA
* * * * * * * * *
39906704 CAACTTCAGGGAGATAGGAT-TATCAACTTCAATCTGCTCCAATGCAGCCTCAGGGAGATAAGAT
1 CAACTTCAGAGAGATAAGATCTAT-TACTTTAATCTGCTCCACTACAACTTCAGGGAGATAGGAT
** * ** * *
39906768 T-TGCTTCTTCAGTCTGCCCCACTGTGACTTCAAGGGGATAAGACTTGTTTTCTCAGTCTGCTCC
65 TAT-CGACTTCAATCTGCCCCACTGCAACCTCAAGGGGATAAGACTTGTTCTCTCAGTCTGCTCC
*
39906832 ACTGCAACTTCAGGGAGATAAGACCTGATGTGATCCACTCTACTG
129 ACTGCAACTTCAGGGAGATAAGACCTGATGCGATCCACTCTACTG
39906877 CAACTTCAGAGAGATAAGATCTATTACTTTAATCTGCTCCACTACAACTTCAGGGAGATAGGATT
1 CAACTTCAGAGAGATAAGATCTATTACTTTAATCTGCTCCACTACAACTTCAGGGAGATAGGATT
* * *
39906942 ATCGACTTCAATCTGCTCCACTGCAACCTC-AGGGAGATAAGATTTGCTTCT-TCAGTTTGC-CC
66 ATCGACTTCAATCTGCCCCACTGCAACCTCAAGGG-GATAAGACTTG-TTCTCTCAGTCTGCTCC
** * *
39907004 ACTGTGACTTCAAGGG-GATAAGACTTGCTGCGATCCACTCTACTG
129 ACTGCAACTTC-AGGGAGATAAGACCTGATGCGATCCACTCTACTG
* *
39907049 CAACTTCAGAGAGATAAGATCTATTACTTTAATCTACTCCACTACAACTTCAGGAAGATAGGATT
1 CAACTTCAGAGAGATAAGATCTATTACTTTAATCTGCTCCACTACAACTTCAGGGAGATAGGATT
*
39907114 ATCGGCTTCAAT
66 ATCGACTTCAAT
39907126 TTACTTCCTT
Statistics
Matches: 217, Mismatches: 27, Indels: 11
0.85 0.11 0.04
Matches are distributed among these distances:
172 115 0.53
173 95 0.44
174 7 0.03
ACGTcount: A:0.28, C:0.24, G:0.19, T:0.29
Consensus pattern (173 bp):
CAACTTCAGAGAGATAAGATCTATTACTTTAATCTGCTCCACTACAACTTCAGGGAGATAGGATT
ATCGACTTCAATCTGCCCCACTGCAACCTCAAGGGGATAAGACTTGTTCTCTCAGTCTGCTCCAC
TGCAACTTCAGGGAGATAAGACCTGATGCGATCCACTCTACTG
Found at i:39907099 original size:44 final size:44
Alignment explanation
Indices: 39905779--39907108 Score: 586
Period size: 44 Copynumber: 30.7 Consensus size: 44
39905769 ACTTGATGCG
* * * *
39905779 ATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTTTTACTTTA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATCTATTACTTCA
* * *
39905823 ATCCGCTCCACTACAACTTCAGGGAGA-AAGGAT-TATCGACTTCA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAA-GATCTAT-TACTTCA
* * * *
39905867 ATCTGCTCCACTGCAACCTT-AGAGAGAGAAGATTTGCTT-CTTCA
1 ATCTGCTCCACTGCAA-CTTCAGGGAGATAAGATCT-ATTACTTCA
* * ** ** * **
39905911 GTCTGCCCCACTGTGACTTTGGGGGGATAAGA-CT-TGTTTTCTCA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATCTAT-TACT-TCA
* * * * *
39905955 GTCTGCTCCACTGCAACTTCAGGGAGATAAGA-C-CTGA-TGCG
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATCTATTACTTCA
** * * * *
39905996 ATCCACTCTACTGCAACTTCAGAGAGATAAGACCTATTACTTTA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATCTATTACTTCA
* * * * *
39906040 ATCCGCTCCACTACAACTTCAGGGAGATAGGAT-TATCGACTTAA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATCTAT-TACTTCA
* * * *
39906084 ATCTGCTTCACTGCAACCTCAGGGAGATAAGATTTGCTT-CTTCA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATCT-ATTACTTCA
* * * **** * **
39906128 GTTTGCCCCACTGTGTTTTCAGGGGGATAAGA-CT-TGTTTTCTCA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATCTAT-TACT-TCA
* * * *
39906172 GTCTGCTCCACTGCAACTTCAGGTAGATAAGACCTA--A-TGT-G
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATCTATTACT-TCA
** ** * * *
39906213 ATCCACTATACTACAACTTCAGAGAGATAAGATCTATTACTTTA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATCTATTACTTCA
* * * * * *
39906257 ATCCGCTCCACTACAAATTCAGTGAGATAGGAT-TATTGACTTCG
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATCTATT-ACTTCA
* * * *
39906301 ATCTGCTCCACTACAACCTCAGGGAGATAAGATTTGCTT-CTTCA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATCT-ATTACTTCA
* * * ** * **
39906345 GTTTGCCCCACTGTGACTTCAGGGGGATAAGA-CT-TGTTTTCTCA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATCTAT-TACT-TCA
* * * *
39906389 GTCTGCTCCACTGCAACTTCAGGGAGATAAGACCTA--A-TGCG
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATCTATTACTTCA
** ** * *
39906430 ATCCACTATACTGCAACTTCAGAGAGATAAGATCTATTACTTTA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATCTATTACTTCA
* * * * *
39906474 ATCCGCTCTACTACAACTTCAGTGAGATAGGAT-TATTGACTTCA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATCTATT-ACTTCA
* * * *
39906518 ATCTGCTCCACTGCAACCTCAGGGAGATAAGATTTGCTT-CATCA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATCT-ATTACTTCA
* * *** * *
39906562 GTCTGCCCCACTATGACTTCAGGGGGATAAGA-CT-TGT-TTTCCCA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATCTAT-TACTT--CA
* * * * * * *
39906606 GTCTGCTCCACTGTAACTTTAAGGAGATAAGACCTGA-TACGATCC
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATCT-ATTAC-TTCA
* * *
39906651 A-CT-CT--ACTGCAACTTCAGAGAGATAATATCTATTACTTTA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATCTATTACTTCA
* * * * *
39906691 ATCCGTTCCACTACAACTTCAGGGAGATAGGAT-TATCAACTTCA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATCTAT-TACTTCA
* * * * *
39906735 ATCTGCTCCAATGCAGCCTCAGGGAGATAAGATTTGCTT-CTTCA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATCT-ATTACTTCA
* * ** **
39906779 GTCTGCCCCACTGTGACTTCAAGGG-GATAAGA-CT-TGTTTTCTCA
1 ATCTGCTCCACTGCAACTTC-AGGGAGATAAGATCTAT-TACT-TCA
* * *
39906823 GTCTGCTCCACTGCAACTTCAGGGAGATAAGACCTGATGTGA--TCC
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATCT-AT-T-ACTTCA
* *
39906868 A-CT-CT--ACTGCAACTTCAGAGAGATAAGATCTATTACTTTA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATCTATTACTTCA
* * *
39906908 ATCTGCTCCACTACAACTTCAGGGAGATAGGAT-TATCGACTTCA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATCTAT-TACTTCA
* * *
39906952 ATCTGCTCCACTGCAACCTCAGGGAGATAAGATTTGCTT-CTTCA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATCT-ATTACTTCA
* * ** * * *
39906996 GTTTGC-CCACTGTGACTTCAAGGG-GATAAGA-C--TTGCTGCG
1 ATCTGCTCCACTGCAACTTC-AGGGAGATAAGATCTATTACTTCA
** * * *
39907036 ATCCACTCTACTGCAACTTCAGAGAGATAAGATCTATTACTTTA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATCTATTACTTCA
* * *
39907080 ATCTACTCCACTACAACTTCAGGAAGATA
1 ATCTGCTCCACTGCAACTTCAGGGAGATA
39907109 GGATTATCGG
Statistics
Matches: 957, Mismatches: 248, Indels: 162
0.70 0.18 0.12
Matches are distributed among these distances:
38 1 0.00
39 3 0.00
40 15 0.02
41 157 0.16
42 15 0.02
43 63 0.07
44 664 0.69
45 27 0.03
46 8 0.01
47 4 0.00
ACGTcount: A:0.28, C:0.24, G:0.19, T:0.29
Consensus pattern (44 bp):
ATCTGCTCCACTGCAACTTCAGGGAGATAAGATCTATTACTTCA
Found at i:39907218 original size:128 final size:129
Alignment explanation
Indices: 39907086--39907348 Score: 309
Period size: 127 Copynumber: 2.0 Consensus size: 129
39907076 TTTAATCTAC
* * *
39907086 TCCACTAC-AACTTCAGGAAGATAGGA-TTATCGGCTTCAATTTACTTCCTTACACTTGAAGATA
1 TCCACTACGAAC--CAGGAACATAGGACTTAT-GGCTTAAATCTACTTCCTTACACTTGAAGATA
* * * * *
39907149 AGATTCGCCATCTTTGATCTGCTCCGCTACTGCTTAGGG-GACAAGATCTGCAATTT-CCAGCCT
63 AGATTCACCATCCTTGATCTGCTCCACTACTGCTTAGGGAGACAAGATCTACAATTTCCCAACCT
39907212 AT
128 AT
* * * * * *
39907214 TCCACTGCGGACCAGGGACATATGACTTGTGGCTTAAATCTGCTTCCTTACACTTGAAGATAAGA
1 TCCACTACGAACCAGGAACATAGGACTTATGGCTTAAATCTACTTCCTTACACTTGAAGATAAGA
** * *
39907279 TTCACTGTCCTTGATCTGCTCCACTACTGTTTAGGGAGACAAGATCTATAATTTCCCAACCTAT
66 TTCACCATCCTTGATCTGCTCCACTACTGCTTAGGGAGACAAGATCTACAATTTCCCAACCTAT
39907343 TCCACT
1 TCCACT
39907349 GCTGGTCAGG
Statistics
Matches: 113, Mismatches: 18, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
127 72 0.64
128 25 0.22
129 16 0.14
ACGTcount: A:0.26, C:0.25, G:0.17, T:0.31
Consensus pattern (129 bp):
TCCACTACGAACCAGGAACATAGGACTTATGGCTTAAATCTACTTCCTTACACTTGAAGATAAGA
TTCACCATCCTTGATCTGCTCCACTACTGCTTAGGGAGACAAGATCTACAATTTCCCAACCTAT
Found at i:39908666 original size:7 final size:7
Alignment explanation
Indices: 39908656--39908690 Score: 54
Period size: 7 Copynumber: 5.1 Consensus size: 7
39908646 TTTTCATCAT
*
39908656 TTTTTTA
1 TTTTTCA
39908663 TTTTTCA
1 TTTTTCA
39908670 -TTTTCA
1 TTTTTCA
39908676 TTTTTCA
1 TTTTTCA
39908683 TTTTTCA
1 TTTTTCA
39908690 T
1 T
39908691 CCTTTTTTTA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
6 6 0.23
7 20 0.77
ACGTcount: A:0.14, C:0.11, G:0.00, T:0.74
Consensus pattern (7 bp):
TTTTTCA
Found at i:39908673 original size:13 final size:13
Alignment explanation
Indices: 39908657--39908687 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
39908647 TTTCATCATT
39908657 TTTTTATTTTTCA
1 TTTTTATTTTTCA
*
39908670 TTTTCATTTTTCA
1 TTTTTATTTTTCA
39908683 TTTTT
1 TTTTT
39908688 CATCCTTTTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.13, C:0.10, G:0.00, T:0.77
Consensus pattern (13 bp):
TTTTTATTTTTCA
Found at i:39909564 original size:20 final size:20
Alignment explanation
Indices: 39909527--39909566 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
39909517 CCTTGGCCTC
*
39909527 TCCTTTTCTTTTTCCTTTTT
1 TCCTTTTCTTTCTCCTTTTT
39909547 TCCTTTTC-TTCTCTCTTTTT
1 TCCTTTTCTTTCTC-CTTTTT
39909567 CTCTCATTCT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 4 0.22
20 14 0.78
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (20 bp):
TCCTTTTCTTTCTCCTTTTT
Found at i:39909622 original size:24 final size:24
Alignment explanation
Indices: 39909577--39909624 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
39909567 CTCTCATTCT
*
39909577 ATTTTGATTTTTTTTTTATTTTTG
1 ATTTTGATTTTTTTATTATTTTTG
*
39909601 ATTTTGATTTTTTTGATTTTTTTT
1 ATTTTGATTTTTTT-ATTATTTTT
39909625 AATTGGATCT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 14 0.67
25 7 0.33
ACGTcount: A:0.12, C:0.00, G:0.08, T:0.79
Consensus pattern (24 bp):
ATTTTGATTTTTTTATTATTTTTG
Found at i:39914608 original size:12 final size:12
Alignment explanation
Indices: 39914573--39914608 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
39914563 GAAAATTTTA
*
39914573 ATAATAATATAA
1 ATAATAATATAT
*
39914585 ATGATAATATAT
1 ATAATAATATAT
39914597 ATAATAATATAT
1 ATAATAATATAT
39914609 TTAAAGTCAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.58, C:0.00, G:0.03, T:0.39
Consensus pattern (12 bp):
ATAATAATATAT
Found at i:39919270 original size:30 final size:30
Alignment explanation
Indices: 39919228--39919461 Score: 169
Period size: 30 Copynumber: 7.9 Consensus size: 30
39919218 TTCCATAATC
*
39919228 GAAGTTATCCC-TTTCATAGTTCGATAGCT
1 GAAGCTATCCCTTTTCATAGTTCGATAGCT
* * * *
39919257 GAAGCTATCCCCTTTCATAATTTGATGGTCCT
1 GAAGCTATCCCTTTTCATAGTTCGATAG--CT
* * * * *
39919289 -CA-CCATCCTTTTTCATAATTTGATAG-T
1 GAAGCTATCCCTTTTCATAGTTCGATAGCT
* *
39919316 CGAAGCTATCCATTTTCATAGATCGATAGCT
1 -GAAGCTATCCCTTTTCATAGTTCGATAGCT
* * *
39919347 GAAGCCATCCCTTTTCATAGTTCGATGGTT
1 GAAGCTATCCCTTTTCATAGTTCGATAGCT
* * *
39919377 GTCA-CCATCCCTTTTCAT--TATCGATAGCC
1 G-AAGCTATCCCTTTTCATAGT-TCGATAGCT
* *
39919406 GAAGCTATCCCTTTTCATA-TTCAATAGCC
1 GAAGCTATCCCTTTTCATAGTTCGATAGCT
**
39919435 GAAGCTATCCCTTTTCATTCTTCGATA
1 GAAGCTATCCCTTTTCATAGTTCGATA
39919462 ATCGACATTA
Statistics
Matches: 164, Mismatches: 29, Indels: 23
0.76 0.13 0.11
Matches are distributed among these distances:
27 1 0.01
28 2 0.01
29 57 0.35
30 99 0.60
31 3 0.02
32 2 0.01
ACGTcount: A:0.24, C:0.25, G:0.14, T:0.37
Consensus pattern (30 bp):
GAAGCTATCCCTTTTCATAGTTCGATAGCT
Found at i:39919347 original size:90 final size:88
Alignment explanation
Indices: 39919226--39919452 Score: 285
Period size: 90 Copynumber: 2.6 Consensus size: 88
39919216 AATTCCATAA
* * * *
39919226 TCGAAGTTATCCCTTTCATAGTTCGATAGCTGAAGCTATCCCCTTTCATAATTTGATGGTCCTCA
1 TCGAAGCTATCCTTTTCATAGTTCGATAGCTGAAGCTATCCCTTTTCATAATTCGATGGTCCTCA
* *
39919291 CCATCCTTTTTCATAATTTGATAG
66 CCATCCCTTTTCATAA-TCGATAG
* * * **
39919315 TCGAAGCTATCCATTTTCATAGATCGATAGCTGAAGCCATCCCTTTTCATAGTTCGATGGTTGTC
1 TCGAAGCTATCC-TTTTCATAGTTCGATAGCTGAAGCTATCCCTTTTCATAATTCGATGGTCCTC
*
39919380 ACCATCCCTTTTCATTATCGATAG
65 ACCATCCCTTTTCATAATCGATAG
* * *
39919404 CCGAAGCTATCCCTTTTCATA-TTCAATAGCCGAAGCTATCCCTTTTCAT
1 TCGAAGCTAT-CCTTTTCATAGTTCGATAGCTGAAGCTATCCCTTTTCAT
39919453 TCTTCGATAA
Statistics
Matches: 119, Mismatches: 17, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
88 24 0.20
89 34 0.29
90 61 0.51
ACGTcount: A:0.24, C:0.26, G:0.14, T:0.37
Consensus pattern (88 bp):
TCGAAGCTATCCTTTTCATAGTTCGATAGCTGAAGCTATCCCTTTTCATAATTCGATGGTCCTCA
CCATCCCTTTTCATAATCGATAG
Found at i:39921390 original size:18 final size:19
Alignment explanation
Indices: 39921367--39921404 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 19
39921357 AGGTTTTGTA
*
39921367 TTTAAACCAA-AACCATTT
1 TTTAAAACAACAACCATTT
*
39921385 TTTAAAACAACAACTATTT
1 TTTAAAACAACAACCATTT
39921404 T
1 T
39921405 GAATTTATTA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 9 0.53
19 8 0.47
ACGTcount: A:0.45, C:0.18, G:0.00, T:0.37
Consensus pattern (19 bp):
TTTAAAACAACAACCATTT
Found at i:39928620 original size:41 final size:41
Alignment explanation
Indices: 39928561--39928683 Score: 133
Period size: 41 Copynumber: 3.0 Consensus size: 41
39928551 ATAATCACAT
* *
39928561 ATCGATGCTAGTGTCCCAGACAGGGTCTTACACGA-AACAA
1 ATCGATGCCAATGTCCCAGACAGGGTCTTACACGAGAACAA
* *
39928601 ATACGATGCCAATGTCCCAGACATGGTCTTACACGTAGCACAA
1 AT-CGATGCCAATGTCCCAGACAGGGTCTTACACG-AGAACAA
* * * *
39928644 GTCGATGACAACGTCCCAGAC-GTGGTCTTACACGATAACA
1 ATCGATGCCAATGTCCCAGACAG-GGTCTTACACGAGAACA
39928684 TATATCAAAA
Statistics
Matches: 69, Mismatches: 10, Indels: 7
0.80 0.12 0.08
Matches are distributed among these distances:
40 2 0.03
41 33 0.48
42 29 0.42
43 5 0.07
ACGTcount: A:0.32, C:0.27, G:0.21, T:0.20
Consensus pattern (41 bp):
ATCGATGCCAATGTCCCAGACAGGGTCTTACACGAGAACAA
Found at i:39928663 original size:42 final size:41
Alignment explanation
Indices: 39928573--39928683 Score: 134
Period size: 42 Copynumber: 2.7 Consensus size: 41
39928563 CGATGCTAGT
* * *
39928573 GTCCCAGACAGGGTCTTACACGAAACAAATACGATGCCAAT
1 GTCCCAGACATGGTCTTACACGAAACAAATACGATGACAAC
* *
39928614 GTCCCAGACATGGTCTTACACGTAGCACAAGT-CGATGACAAC
1 GTCCCAGACATGGTCTTACACG-A-AACAAATACGATGACAAC
*
39928656 GTCCCAGACGTGGTCTTACACGATAACA
1 GTCCCAGACATGGTCTTACACGA-AACA
39928684 TATATCAAAA
Statistics
Matches: 60, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
41 25 0.42
42 30 0.50
43 5 0.08
ACGTcount: A:0.32, C:0.28, G:0.21, T:0.19
Consensus pattern (41 bp):
GTCCCAGACATGGTCTTACACGAAACAAATACGATGACAAC
Found at i:39933037 original size:49 final size:49
Alignment explanation
Indices: 39932980--39933073 Score: 152
Period size: 49 Copynumber: 1.9 Consensus size: 49
39932970 TACCATGCAA
* * * *
39932980 TGCTAAACTTGTTCTTCCACTATCTACACTCTTATTACTATTTATACAT
1 TGCTAAACTTATTCTTCCACTATCTACACTATAATCACTATTTATACAT
39933029 TGCTAAACTTATTCTTCCACTATCTACACTATAATCACTATTTAT
1 TGCTAAACTTATTCTTCCACTATCTACACTATAATCACTATTTAT
39933074 CCCTTCTTGA
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
49 41 1.00
ACGTcount: A:0.29, C:0.24, G:0.03, T:0.44
Consensus pattern (49 bp):
TGCTAAACTTATTCTTCCACTATCTACACTATAATCACTATTTATACAT
Found at i:39933565 original size:13 final size:13
Alignment explanation
Indices: 39933529--39933557 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
39933519 TGGGTCACAA
39933529 GCCCATGTGTGTT
1 GCCCATGTGTGTT
39933542 GCCCATGTGTGTT
1 GCCCATGTGTGTT
39933555 GCC
1 GCC
39933558 TCTGTGTGAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.07, C:0.28, G:0.31, T:0.34
Consensus pattern (13 bp):
GCCCATGTGTGTT
Found at i:39935608 original size:8 final size:8
Alignment explanation
Indices: 39935589--39935646 Score: 53
Period size: 8 Copynumber: 6.9 Consensus size: 8
39935579 TGCGTGATTC
39935589 TTCTTCTTT
1 TTCTT-TTT
39935598 TTCTTTTT
1 TTCTTTTT
*
39935606 TTCTTTCT
1 TTCTTTTT
*
39935614 TTCTTTCT
1 TTCTTTTT
39935622 TTCTTTCTT
1 TTCTTT-TT
* *
39935631 TTAATTTCT
1 TT-CTTTTT
39935640 TTCTTTT
1 TTCTTTT
39935647 GTTTGCACGC
Statistics
Matches: 41, Mismatches: 6, Indels: 5
0.79 0.12 0.10
Matches are distributed among these distances:
8 27 0.66
9 11 0.27
10 3 0.07
ACGTcount: A:0.03, C:0.19, G:0.00, T:0.78
Consensus pattern (8 bp):
TTCTTTTT
Found at i:39935614 original size:4 final size:4
Alignment explanation
Indices: 39935597--39935645 Score: 62
Period size: 4 Copynumber: 11.8 Consensus size: 4
39935587 TCTTCTTCTT
* *
39935597 TTTC TTTT TTTC TTTC TTTC TTTC TTTC TTTC TTTTAA TTTC TTTC TTT
1 TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC -TTT-C TTTC TTTC TTT
39935646 TGTTTGCACG
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
4 33 0.85
5 6 0.15
ACGTcount: A:0.04, C:0.18, G:0.00, T:0.78
Consensus pattern (4 bp):
TTTC
Found at i:39938863 original size:27 final size:27
Alignment explanation
Indices: 39938828--39939106 Score: 262
Period size: 27 Copynumber: 10.4 Consensus size: 27
39938818 GCCATAACAA
*
39938828 TCATTTTACACTATGAGGGTATTTTGG
1 TCATTTTACCCTATGAGGGTATTTTGG
* * * *
39938855 TCATATTACCCTATGGGGGTCTTTCGG
1 TCATTTTACCCTATGAGGGTATTTTGG
* * *
39938882 TCATTCTATCTTATGAGGGTATTTTGG
1 TCATTTTACCCTATGAGGGTATTTTGG
* * * *
39938909 TCATTCTATCTTATGAGGGTATTTCGG
1 TCATTTTACCCTATGAGGGTATTTTGG
* * * * *
39938936 TCATATTACCCTACGGGGGTATTTCGA
1 TCATTTTACCCTATGAGGGTATTTTGG
* *
39938963 TCATTCTAACCTATGAGGGTATTTTGG
1 TCATTTTACCCTATGAGGGTATTTTGG
39938990 TCATTTTACCCTATG-GGGTATTTCT-G
1 TCATTTTACCCTATGAGGGTATTT-TGG
*
39939016 TCATTTTACCTTATCG-GGGTATTTTGG
1 TCATTTTACCCTAT-GAGGGTATTTTGG
*
39939043 TCATTTTACCCTATG-GGTGTATTTCGG
1 TCATTTTACCCTATGAGG-GTATTTTGG
* * * *
39939070 TTATTTTACCTTAT-AGGGGTATTTCGA
1 TCATTTTACCCTATGA-GGGTATTTTGG
39939097 TCATTTTACC
1 TCATTTTACC
39939107 TATTTTACGG
Statistics
Matches: 210, Mismatches: 36, Indels: 12
0.81 0.14 0.05
Matches are distributed among these distances:
26 26 0.12
27 182 0.87
28 2 0.01
ACGTcount: A:0.19, C:0.16, G:0.21, T:0.44
Consensus pattern (27 bp):
TCATTTTACCCTATGAGGGTATTTTGG
Found at i:39942196 original size:27 final size:27
Alignment explanation
Indices: 39942119--39942328 Score: 237
Period size: 27 Copynumber: 7.8 Consensus size: 27
39942109 GCAATTATGG
* *
39942119 GGGGTATGTTGGTCATTTTACCCTAT-
1 GGGGTATTTTGATCATTTTACCCTATA
* * * *
39942145 GGGGTATTTCGGTCATTCTATCCTATA
1 GGGGTATTTTGATCATTTTACCCTATA
*
39942172 GGGGTATTTTGATAATTTTACCCTA-A
1 GGGGTATTTTGATCATTTTACCCTATA
39942198 GGCGGTATTTTGATCATTTTACCCTAT-
1 GG-GGTATTTTGATCATTTTACCCTATA
*
39942225 GAGGGTATTTTGATCATTTTACCCTATG
1 G-GGGTATTTTGATCATTTTACCCTATA
* * * *
39942253 GGGGTATTTCGATTATTTTACCCTGTG
1 GGGGTATTTTGATCATTTTACCCTATA
* *
39942280 GGGGTATTTCGGTCATTTTACCCTATA
1 GGGGTATTTTGATCATTTTACCCTATA
* *
39942307 AGGGTATTTTGACCATTTTACC
1 GGGGTATTTTGATCATTTTACC
39942329 TATTTTAGGG
Statistics
Matches: 158, Mismatches: 21, Indels: 9
0.84 0.11 0.05
Matches are distributed among these distances:
26 25 0.16
27 131 0.83
28 2 0.01
ACGTcount: A:0.20, C:0.16, G:0.22, T:0.42
Consensus pattern (27 bp):
GGGGTATTTTGATCATTTTACCCTATA
Found at i:39942259 original size:81 final size:81
Alignment explanation
Indices: 39942121--39942328 Score: 274
Period size: 81 Copynumber: 2.6 Consensus size: 81
39942111 AATTATGGGG
* * * * * *
39942121 GGTATGTTGGTCATTTTACCCTATG-GGGTATTTCGGTCATTCTATCCTATAGGGGTATTTTGAT
1 GGTATTTTGGTCATTTTACCCTATGAGGGTATTTTGATCATTTTACCCTATAGGGGTATTTCGAT
39942185 AATTTTACCCTAAGGC
66 AATTTTACCCTAAGGC
* *
39942201 GGTATTTTGATCATTTTACCCTATGAGGGTATTTTGATCATTTTACCCTATGGGGGTATTTCGAT
1 GGTATTTTGGTCATTTTACCCTATGAGGGTATTTTGATCATTTTACCCTATAGGGGTATTTCGAT
* ** *
39942266 TATTTTACCCTGTGGG
66 AATTTTACCCTAAGGC
* * *
39942282 GGTATTTCGGTCATTTTACCCTATAAGGGTATTTTGACCATTTTACC
1 GGTATTTTGGTCATTTTACCCTATGAGGGTATTTTGATCATTTTACC
39942329 TATTTTAGGG
Statistics
Matches: 111, Mismatches: 16, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
80 23 0.21
81 88 0.79
ACGTcount: A:0.20, C:0.16, G:0.21, T:0.43
Consensus pattern (81 bp):
GGTATTTTGGTCATTTTACCCTATGAGGGTATTTTGATCATTTTACCCTATAGGGGTATTTCGAT
AATTTTACCCTAAGGC
Found at i:39944349 original size:23 final size:23
Alignment explanation
Indices: 39944319--39944366 Score: 96
Period size: 23 Copynumber: 2.1 Consensus size: 23
39944309 TTGATACGAG
39944319 GTAGCGGGTATCGATTCTTAATC
1 GTAGCGGGTATCGATTCTTAATC
39944342 GTAGCGGGTATCGATTCTTAATC
1 GTAGCGGGTATCGATTCTTAATC
39944365 GT
1 GT
39944367 CACCTTATTC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.21, C:0.17, G:0.27, T:0.35
Consensus pattern (23 bp):
GTAGCGGGTATCGATTCTTAATC
Found at i:39946648 original size:17 final size:17
Alignment explanation
Indices: 39946605--39946648 Score: 52
Period size: 17 Copynumber: 2.6 Consensus size: 17
39946595 CAATGTGTGT
* *
39946605 TGCCCGTGTGTGACATA
1 TGCCCGTGTGCGACACA
* *
39946622 TCCCCATGTGCGACACA
1 TGCCCGTGTGCGACACA
39946639 TGCCCGTGTG
1 TGCCCGTGTG
39946649 GCCAGGCTGT
Statistics
Matches: 21, Mismatches: 6, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.16, C:0.32, G:0.27, T:0.25
Consensus pattern (17 bp):
TGCCCGTGTGCGACACA
Found at i:39948332 original size:28 final size:28
Alignment explanation
Indices: 39948250--39948325 Score: 116
Period size: 30 Copynumber: 2.6 Consensus size: 28
39948240 CAATAGTAGT
*
39948250 GTGTGGGCCATAGCCCAATACAGTAACA
1 GTGTGGGCCTTAGCCCAATACAGTAACA
*
39948278 GAATGTGGGCCTTATCCCAATACAGTAACA
1 G--TGTGGGCCTTAGCCCAATACAGTAACA
39948308 GTGTGGGCCTTAGCCCAA
1 GTGTGGGCCTTAGCCCAA
39948326 AATAGTATTC
Statistics
Matches: 43, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
28 17 0.40
30 26 0.60
ACGTcount: A:0.29, C:0.25, G:0.25, T:0.21
Consensus pattern (28 bp):
GTGTGGGCCTTAGCCCAATACAGTAACA
Found at i:39949725 original size:27 final size:27
Alignment explanation
Indices: 39949685--39950181 Score: 462
Period size: 27 Copynumber: 18.4 Consensus size: 27
39949675 GGCTTGGGCC
*
39949685 GTAAAATTACTGAAATACCCTCGATGG
1 GTAAAATTACCGAAATACCCTCGATGG
** *
39949712 GTAAAATTATTGAAATACCCTCGATAG
1 GTAAAATTACCGAAATACCCTCGATGG
* * *
39949739 GTAAAATTACCGAAATATCCACGATAG
1 GTAAAATTACCGAAATACCCTCGATGG
* * *
39949766 ATAAAACTACTGAAATACCCTCGATGG
1 GTAAAATTACCGAAATACCCTCGATGG
** * * *
39949793 GTAAAATTATTGAAATAACTTCGATAG
1 GTAAAATTACCGAAATACCCTCGATGG
** * *
39949820 GTAAAATTATTGAAATACCTTTGAT-G
1 GTAAAATTACCGAAATACCCTCGATGG
* *
39949846 GTAAAATTACCAAAATACCCTCGATAG
1 GTAAAATTACCGAAATACCCTCGATGG
* **
39949873 GCAAAATTATTGAAATACCCTCGATGG
1 GTAAAATTACCGAAATACCCTCGATGG
*
39949900 GTAAAATTATCGAAATACCCTCGATGG
1 GTAAAATTACCGAAATACCCTCGATGG
* ** *
39949927 GTAAAATTTCTAAAATACCC-CTAATGG
1 GTAAAATTACCGAAATACCCTC-GATGG
* **
39949954 GTAAATTTACTAAAATACCCTCGATGG
1 GTAAAATTACCGAAATACCCTCGATGG
* *
39949981 GTAAAATTACCAAAATACCCTCAATGG
1 GTAAAATTACCGAAATACCCTCGATGG
* * * *
39950008 GTAAAATAATCGAACTACCCTCGAAGG
1 GTAAAATTACCGAAATACCCTCGATGG
* * *
39950035 GTAAAATTACCAAAATACCCTTGAAGG
1 GTAAAATTACCGAAATACCCTCGATGG
*
39950062 GTAAAATTACCAAAATACCCTCGATGG
1 GTAAAATTACCGAAATACCCTCGATGG
** **
39950089 GTAAAATTACAAAAATACCC-CTGAAAG
1 GTAAAATTACCGAAATACCCTC-GATGG
* * * *
39950116 GTAAAATAATCAAAATACCCTTGATGG
1 GTAAAATTACCGAAATACCCTCGATGG
* *
39950143 GTAAAATTATCGAAATA-CCTCTATAGG
1 GTAAAATTACCGAAATACCCTCGAT-GG
*
39950170 GTAAAATGACCG
1 GTAAAATTACCG
39950182 TTCTACCCCT
Statistics
Matches: 393, Mismatches: 71, Indels: 12
0.83 0.15 0.03
Matches are distributed among these distances:
26 28 0.07
27 364 0.93
28 1 0.00
ACGTcount: A:0.42, C:0.18, G:0.15, T:0.26
Consensus pattern (27 bp):
GTAAAATTACCGAAATACCCTCGATGG
Found at i:39950405 original size:26 final size:26
Alignment explanation
Indices: 39950376--39950428 Score: 79
Period size: 26 Copynumber: 2.0 Consensus size: 26
39950366 GCAGCTCTTT
*
39950376 TGCGTTACTGTTACTGGCAGATTTGC
1 TGCGTTACTATTACTGGCAGATTTGC
* *
39950402 TGCGTTATTATTACTGGCAGCTTTGC
1 TGCGTTACTATTACTGGCAGATTTGC
39950428 T
1 T
39950429 ACGATATTGG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.15, C:0.19, G:0.25, T:0.42
Consensus pattern (26 bp):
TGCGTTACTATTACTGGCAGATTTGC
Found at i:39950436 original size:26 final size:26
Alignment explanation
Indices: 39950386--39950436 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 26
39950376 TGCGTTACTG
* *
39950386 TTACTGGCAGATTTGCTGCGTTATTA
1 TTACTGGCAGATTTGCTACGATATTA
*
39950412 TTACTGGCAGCTTTGCTACGATATT
1 TTACTGGCAGATTTGCTACGATATT
39950437 GGTGTGTTGG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.20, C:0.18, G:0.22, T:0.41
Consensus pattern (26 bp):
TTACTGGCAGATTTGCTACGATATTA
Found at i:39952531 original size:34 final size:35
Alignment explanation
Indices: 39952480--39952564 Score: 93
Period size: 35 Copynumber: 2.5 Consensus size: 35
39952470 GTTTCAAAGG
39952480 TATT-AAAGTGTGGTTG-TTTCACATATTACAATGA
1 TATTCAAA-TGTGGTTGTTTTCACATATTACAATGA
* * * *
39952514 TATTCAAATGTGGTTGTTTTTACATGTTATAATGT
1 TATTCAAATGTGGTTGTTTTCACATATTACAATGA
* *
39952549 TGTCCAAATGTGGTTG
1 TATTCAAATGTGGTTG
39952565 CTTTGCATGT
Statistics
Matches: 43, Mismatches: 6, Indels: 3
0.83 0.12 0.06
Matches are distributed among these distances:
34 12 0.28
35 31 0.72
ACGTcount: A:0.27, C:0.08, G:0.20, T:0.45
Consensus pattern (35 bp):
TATTCAAATGTGGTTGTTTTCACATATTACAATGA
Found at i:39952581 original size:34 final size:35
Alignment explanation
Indices: 39952518--39952588 Score: 92
Period size: 34 Copynumber: 2.1 Consensus size: 35
39952508 CAATGATATT
* *
39952518 CAAATGTGGTTGTTTTTACATGTTATAATGTTGTC
1 CAAATGTGGTTGTCTTTACATGTTATAATGCTGTC
*
39952553 CAAATGTGGTTG-CTTTGCATG-TATTAATGCTGTC
1 CAAATGTGGTTGTCTTTACATGTTA-TAATGCTGTC
39952587 CA
1 CA
39952589 TTTTTGGTAC
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
33 2 0.06
34 18 0.56
35 12 0.38
ACGTcount: A:0.23, C:0.13, G:0.21, T:0.44
Consensus pattern (35 bp):
CAAATGTGGTTGTCTTTACATGTTATAATGCTGTC
Found at i:39952689 original size:69 final size:69
Alignment explanation
Indices: 39952578--39952706 Score: 179
Period size: 69 Copynumber: 1.9 Consensus size: 69
39952568 TGCATGTATT
* **
39952578 AATGCTGTCCATTTTTGGTACAAATCTATGATGTCTGAATGTTAT-TAATGCTGTCCAAATTAGT
1 AATGCTGTCCATTTTTGGTACAAATCAATGATGTCCAAATGTT-TCTAATGCTGTCCAAATTAGT
39952642 GCGTA
65 GCGTA
* * * *
39952647 AATGCTGTCCATTTTTGGTACAAGTCAATGCTGTCCAAATGTTTCTACTGTTGTCCAAAT
1 AATGCTGTCCATTTTTGGTACAAATCAATGATGTCCAAATGTTTCTAATGCTGTCCAAAT
39952707 ATTTGTGAAT
Statistics
Matches: 52, Mismatches: 7, Indels: 2
0.85 0.11 0.03
Matches are distributed among these distances:
68 1 0.02
69 51 0.98
ACGTcount: A:0.26, C:0.17, G:0.18, T:0.39
Consensus pattern (69 bp):
AATGCTGTCCATTTTTGGTACAAATCAATGATGTCCAAATGTTTCTAATGCTGTCCAAATTAGTG
CGTA
Found at i:39957584 original size:6 final size:6
Alignment explanation
Indices: 39957573--39957598 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
39957563 AGACTGAACA
39957573 GAAAGT GAAAGT GAAAGT GAAAGT GA
1 GAAAGT GAAAGT GAAAGT GAAAGT GA
39957599 TAGTCTGAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.50, C:0.00, G:0.35, T:0.15
Consensus pattern (6 bp):
GAAAGT
Found at i:39959289 original size:40 final size:40
Alignment explanation
Indices: 39959237--39959368 Score: 131
Period size: 40 Copynumber: 3.3 Consensus size: 40
39959227 TGTTTAGCTT
* * *
39959237 TTAGTGTACGATTCGAGATAGCTTCGACTATTTATGGCAC
1 TTAGTGTGCGATTCGAGATAGCTTCGGCTATATATGGCAC
* * * *
39959277 TTCGTGTGCGATT-GGGAATAGCTTCGGCTATATATGACAT
1 TTAGTGTGCGATTCGAG-ATAGCTTCGGCTATATATGGCAC
** * * *
39959317 TTAGTGTGCGAGACTAAGATAGCTTCGGCTATGTAAGGCAC
1 TTAGTGTGCGATTC-GAGATAGCTTCGGCTATATATGGCAC
39959358 TTAGTGTGCGA
1 TTAGTGTGCGA
39959369 GATTATAATA
Statistics
Matches: 73, Mismatches: 16, Indels: 5
0.78 0.17 0.05
Matches are distributed among these distances:
39 2 0.03
40 40 0.55
41 30 0.41
42 1 0.01
ACGTcount: A:0.24, C:0.16, G:0.27, T:0.33
Consensus pattern (40 bp):
TTAGTGTGCGATTCGAGATAGCTTCGGCTATATATGGCAC
Found at i:39959342 original size:41 final size:41
Alignment explanation
Indices: 39959293--39959388 Score: 131
Period size: 41 Copynumber: 2.3 Consensus size: 41
39959283 TGCGATTGGG
* *
39959293 AATAGCTTCGGCTATATATGACATTTAGTGTGCGAGACTA-
1 AATAGCTTCGGCTATATAAGACACTTAGTGTGCGAGACTAT
* * *
39959333 AGATAGCTTCGGCTATGTAAGGCACTTAGTGTGCGAGATTAT
1 A-ATAGCTTCGGCTATATAAGACACTTAGTGTGCGAGACTAT
39959375 AATAGCTTCGGCTA
1 AATAGCTTCGGCTA
39959389 AGCGATGGAA
Statistics
Matches: 49, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
40 1 0.02
41 47 0.96
42 1 0.02
ACGTcount: A:0.28, C:0.16, G:0.25, T:0.31
Consensus pattern (41 bp):
AATAGCTTCGGCTATATAAGACACTTAGTGTGCGAGACTAT
Found at i:39960083 original size:34 final size:34
Alignment explanation
Indices: 39960040--39960122 Score: 103
Period size: 35 Copynumber: 2.4 Consensus size: 34
39960030 TATTAAGGTA
39960040 TGGTTGTTTTGCATATTACAATGATATCCAAATG
1 TGGTTGTTTTGCATATTACAATGATATCCAAATG
* * * * *
39960074 TGGTTGTTTTTACATGTTATAATGTTGTCCAAATG
1 TGGTTG-TTTTGCATATTACAATGATATCCAAATG
*
39960109 TGGTTGCTTTGCAT
1 TGGTTGTTTTGCAT
39960123 GTATTAATGC
Statistics
Matches: 41, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
34 12 0.29
35 29 0.71
ACGTcount: A:0.23, C:0.11, G:0.20, T:0.46
Consensus pattern (34 bp):
TGGTTGTTTTGCATATTACAATGATATCCAAATG
Found at i:39960131 original size:34 final size:35
Alignment explanation
Indices: 39960040--39960138 Score: 96
Period size: 35 Copynumber: 2.9 Consensus size: 35
39960030 TATTAAGGTA
* * * * *
39960040 TGGTTGT-TTTGCATATTACAATGATATCCAAATG
1 TGGTTGTCTTTACATGTTATAATGCTGTCCAAATG
* *
39960074 TGGTTGTTTTTACATGTTATAATGTTGTCCAAATG
1 TGGTTGTCTTTACATGTTATAATGCTGTCCAAATG
*
39960109 TGGTTG-CTTTGCATG-TATTAATGCTGTCCA
1 TGGTTGTCTTTACATGTTA-TAATGCTGTCCA
39960139 TTTTGAGCAT
Statistics
Matches: 55, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
33 2 0.04
34 25 0.45
35 28 0.51
ACGTcount: A:0.23, C:0.12, G:0.20, T:0.44
Consensus pattern (35 bp):
TGGTTGTCTTTACATGTTATAATGCTGTCCAAATG
Found at i:39969362 original size:24 final size:24
Alignment explanation
Indices: 39969329--39969419 Score: 103
Period size: 24 Copynumber: 3.8 Consensus size: 24
39969319 TTGTCACACC
39969329 CAGCTCGTGAGAGCATACTGATTA
1 CAGCTCGTGAGAGCATACTGATTA
*
39969353 CAGCTTGTGAGAGCATACCT-ATTA
1 CAGCTCGTGAGAGCATA-CTGATTA
* * *
39969377 TAGCTCGTGAGAGTATACAGATTTA
1 CAGCTCGTGAGAGCATACTGA-TTA
* *
39969402 CAGCTCGGGTGAGCATAC
1 CAGCTCGTGAGAGCATAC
39969420 ATGTTCAGGA
Statistics
Matches: 55, Mismatches: 9, Indels: 5
0.80 0.13 0.07
Matches are distributed among these distances:
23 1 0.02
24 35 0.64
25 19 0.35
ACGTcount: A:0.29, C:0.20, G:0.25, T:0.26
Consensus pattern (24 bp):
CAGCTCGTGAGAGCATACTGATTA
Found at i:39971963 original size:20 final size:20
Alignment explanation
Indices: 39971914--39971968 Score: 65
Period size: 20 Copynumber: 2.8 Consensus size: 20
39971904 CATAATAAAA
*
39971914 GTACCAAAGTACAAACAGGG
1 GTACCAAAGTACAATCAGGG
* ** *
39971934 GCACGTAAGTGCAATCAGGG
1 GTACCAAAGTACAATCAGGG
39971954 GTACCAAAGTACAAT
1 GTACCAAAGTACAAT
39971969 AATTTTCTAT
Statistics
Matches: 26, Mismatches: 9, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.40, C:0.20, G:0.25, T:0.15
Consensus pattern (20 bp):
GTACCAAAGTACAATCAGGG
Found at i:39972168 original size:17 final size:16
Alignment explanation
Indices: 39972137--39972170 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
39972127 TATCCAAGTT
*
39972137 TTAATCAATATATTAA
1 TTAATCAATAAATTAA
39972153 TTAATACAATAAATTAA
1 TTAAT-CAATAAATTAA
39972170 T
1 T
39972171 CTCATACTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 5 0.31
17 11 0.69
ACGTcount: A:0.53, C:0.06, G:0.00, T:0.41
Consensus pattern (16 bp):
TTAATCAATAAATTAA
Found at i:39974071 original size:19 final size:20
Alignment explanation
Indices: 39974033--39974072 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
39974023 CGACACATAT
39974033 ATTTCTTCTAAAAGTGAATA
1 ATTTCTTCTAAAAGTGAATA
* *
39974053 ATTTGTTCTAACA-TGAATA
1 ATTTCTTCTAAAAGTGAATA
39974072 A
1 A
39974073 AATGGGTCGA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 7 0.39
20 11 0.61
ACGTcount: A:0.40, C:0.10, G:0.10, T:0.40
Consensus pattern (20 bp):
ATTTCTTCTAAAAGTGAATA
Found at i:39981437 original size:39 final size:40
Alignment explanation
Indices: 39981389--39981479 Score: 114
Period size: 39 Copynumber: 2.3 Consensus size: 40
39981379 AAAATCACAG
* * * *
39981389 TAAAGAAAATATAAA-AAGAAGAATAAGAAGAAAAAATAAA
1 TAAATAAAATA-AAATAACAAGAAAAAAAAGAAAAAATAAA
*
39981429 T-AATAAAATAAAATAACATGAAAAAAAAGAAAAAATAAA
1 TAAATAAAATAAAATAACAAGAAAAAAAAGAAAAAATAAA
39981468 TAAATAAAATAA
1 TAAATAAAATAA
39981480 GAGAAATAAA
Statistics
Matches: 44, Mismatches: 5, Indels: 4
0.83 0.09 0.08
Matches are distributed among these distances:
38 3 0.07
39 30 0.68
40 11 0.25
ACGTcount: A:0.76, C:0.01, G:0.08, T:0.15
Consensus pattern (40 bp):
TAAATAAAATAAAATAACAAGAAAAAAAAGAAAAAATAAA
Found at i:39983706 original size:27 final size:27
Alignment explanation
Indices: 39983676--39983853 Score: 119
Period size: 27 Copynumber: 6.6 Consensus size: 27
39983666 ATATTGAGCC
* *
39983676 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* * * *
39983703 CGCACATTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
* *
39983730 CGCACACTTAGTGCTACATAGTTAGACT
1 CGCACACTTAGTGCTACATAATCA-ACT
*** ** *
39983758 CGCACACTTAGTGCCGTATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* * **
39983785 CGCACTCTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* *
39983812 CGCACACTTAGTGCAACA-AAGT-AGAAT
1 CGCACACTTAGTGCTACATAA-TCA-ACT
39983839 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
39983854 GTACAATTTA
Statistics
Matches: 117, Mismatches: 29, Indels: 10
0.75 0.19 0.06
Matches are distributed among these distances:
26 2 0.02
27 93 0.79
28 22 0.19
ACGTcount: A:0.29, C:0.26, G:0.16, T:0.28
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:39983788 original size:55 final size:54
Alignment explanation
Indices: 39983676--39983853 Score: 150
Period size: 54 Copynumber: 3.3 Consensus size: 54
39983666 ATATTGAGCC
* * *
39983676 CGCACACTCAGTGCTATATAATCAACTCGCACATTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCCACGTAATCAAAT
* * * *
39983730 CGCACACTTAGTGCTACATAGTTAGACTCGCACACTTAGTG-C-CGTATGGTCAATT
1 CGCACACTTAGTGCTACATAATCA-ACTCGCACACTTAGTGCCACGTA--ATCAAAT
* * ** * *
39983785 CGCACTCTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAAC-AAAGT-AGAAT
1 CGCACACTTAGTGCTA-CATAATCAACTCGCACACTTAGTGCCACGTAA-TCA-AAT
39983839 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
39983854 GTACAATTTA
Statistics
Matches: 98, Mismatches: 17, Indels: 17
0.74 0.13 0.13
Matches are distributed among these distances:
53 5 0.05
54 52 0.53
55 40 0.41
56 1 0.01
ACGTcount: A:0.29, C:0.26, G:0.16, T:0.28
Consensus pattern (54 bp):
CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCCACGTAATCAAAT
Found at i:39991709 original size:27 final size:27
Alignment explanation
Indices: 39991679--39991856 Score: 119
Period size: 27 Copynumber: 6.6 Consensus size: 27
39991669 ATATTGAGCC
* *
39991679 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* * * *
39991706 CGCACATTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
* *
39991733 CGCACACTTAGTGCTACATAGTTAGACT
1 CGCACACTTAGTGCTACATAATCA-ACT
*** ** *
39991761 CGCACACTTAGTGCCGTATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* * **
39991788 CGCACTCTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* *
39991815 CGCACACTTAGTGCAACA-AAGT-AGAAT
1 CGCACACTTAGTGCTACATAA-TCA-ACT
39991842 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
39991857 GTACAATTTA
Statistics
Matches: 117, Mismatches: 29, Indels: 10
0.75 0.19 0.06
Matches are distributed among these distances:
26 2 0.02
27 93 0.79
28 22 0.19
ACGTcount: A:0.29, C:0.26, G:0.16, T:0.28
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:39991791 original size:55 final size:54
Alignment explanation
Indices: 39991679--39991856 Score: 150
Period size: 54 Copynumber: 3.3 Consensus size: 54
39991669 ATATTGAGCC
* * *
39991679 CGCACACTCAGTGCTATATAATCAACTCGCACATTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCCACGTAATCAAAT
* * * *
39991733 CGCACACTTAGTGCTACATAGTTAGACTCGCACACTTAGTG-C-CGTATGGTCAATT
1 CGCACACTTAGTGCTACATAATCA-ACTCGCACACTTAGTGCCACGTA--ATCAAAT
* * ** * *
39991788 CGCACTCTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAAC-AAAGT-AGAAT
1 CGCACACTTAGTGCTA-CATAATCAACTCGCACACTTAGTGCCACGTAA-TCA-AAT
39991842 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
39991857 GTACAATTTA
Statistics
Matches: 98, Mismatches: 17, Indels: 17
0.74 0.13 0.13
Matches are distributed among these distances:
53 5 0.05
54 52 0.53
55 40 0.41
56 1 0.01
ACGTcount: A:0.29, C:0.26, G:0.16, T:0.28
Consensus pattern (54 bp):
CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCCACGTAATCAAAT
Found at i:39993561 original size:26 final size:26
Alignment explanation
Indices: 39993525--39993584 Score: 93
Period size: 26 Copynumber: 2.3 Consensus size: 26
39993515 GGGCTGTCAC
* *
39993525 ACCAGTAATAGTGATGCAACAAAGTT
1 ACCAGTAATAGTAATACAACAAAGTT
39993551 ACCAGTAATAGTAATACAACAAAGTT
1 ACCAGTAATAGTAATACAACAAAGTT
*
39993577 TCCAGTAA
1 ACCAGTAA
39993585 CAATATATAT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 31 1.00
ACGTcount: A:0.45, C:0.17, G:0.15, T:0.23
Consensus pattern (26 bp):
ACCAGTAATAGTAATACAACAAAGTT
Found at i:39993786 original size:27 final size:27
Alignment explanation
Indices: 39993755--39993813 Score: 73
Period size: 27 Copynumber: 2.2 Consensus size: 27
39993745 CAACTCCTAG
*
39993755 GGGTATAACAGTCATTGTACCCTATGA
1 GGGTATAACAGCCATTGTACCCTATGA
** * *
39993782 GGGTATTTCAGCCATTTTACCCTTTGA
1 GGGTATAACAGCCATTGTACCCTATGA
39993809 GGGTA
1 GGGTA
39993814 ATTTAGTCAT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.24, C:0.19, G:0.24, T:0.34
Consensus pattern (27 bp):
GGGTATAACAGCCATTGTACCCTATGA
Found at i:39993824 original size:27 final size:27
Alignment explanation
Indices: 39993764--39994040 Score: 145
Period size: 27 Copynumber: 10.3 Consensus size: 27
39993754 GGGGTATAAC
* *
39993764 AGTCATTGTACCCTATGAGGGT-ATTT
1 AGTCATTTTACCCTTTGAGGGTAATTT
*
39993790 CAGCCATTTTACCCTTTGAGGGTAATTT
1 -AGTCATTTTACCCTTTGAGGGTAATTT
* * *
39993818 AGTCATTTTACCTTTTGGGGGTAATTC
1 AGTCATTTTACCCTTTGAGGGTAATTT
* * * * *
39993845 AATCATTCTACCCTTCGAGTGTAATTC
1 AGTCATTTTACCCTTTGAGGGTAATTT
* * * * *
39993872 GGTCACTTTACCCTTCGGGGGTAATTC
1 AGTCATTTTACCCTTTGAGGGTAATTT
* ** *
39993899 AGTCACTTTACCCTCCGGGGGTAA-TT
1 AGTCATTTTACCCTTTGAGGGTAATTT
* * *
39993925 CGATCATTTTACCCTTCG-GGATAATTT
1 AG-TCATTTTACCCTTTGAGGGTAATTT
* * * *
39993952 GGTCATTTTA-CCGTTCAGGGATAATTC
1 AGTCATTTTACCCTTTGAGGG-TAATTT
* * **
39993979 GGTCATTTT--CGTCTACAGGGGTAATTT
1 AGTCATTTTACCCT-TTGA-GGGTAATTT
* *
39994006 GGTCATTTTA-CCTTTCAGGAGTAATTT
1 AGTCATTTTACCCTTTGAGG-GTAATTT
*
39994033 GGTCATTT
1 AGTCATTT
39994041 GCCCGTTATT
Statistics
Matches: 203, Mismatches: 38, Indels: 18
0.78 0.15 0.07
Matches are distributed among these distances:
25 3 0.01
26 20 0.10
27 171 0.84
28 9 0.04
ACGTcount: A:0.21, C:0.20, G:0.21, T:0.39
Consensus pattern (27 bp):
AGTCATTTTACCCTTTGAGGGTAATTT
Found at i:39993840 original size:54 final size:54
Alignment explanation
Indices: 39993763--39993987 Score: 204
Period size: 54 Copynumber: 4.2 Consensus size: 54
39993753 AGGGGTATAA
* * * * * *
39993763 CAGTCATTGTACCCTATGAGGGTATTTCAGCCATTTTACCCTTTGAGGGTAATT
1 CAGTCATTTTACCCTTTGGGGGTAATTCAGTCATTTTACCCTTCGAGGGTAATT
* * * * *
39993817 TAGTCATTTTACCTTTTGGGGGTAATTCAATCATTCTACCCTTCGAGTGTAATT
1 CAGTCATTTTACCCTTTGGGGGTAATTCAGTCATTTTACCCTTCGAGGGTAATT
* * * * * *
39993871 CGGTCACTTTACCCTTCGGGGGTAATTCAGTCACTTTACCCTCCGGGGGTAATT
1 CAGTCATTTTACCCTTTGGGGGTAATTCAGTCATTTTACCCTTCGAGGGTAATT
* * ** *
39993925 C-GATCATTTTACCC-TTCGGGATAATTTGGTCATTTTACCGTTC-AGGGATAATT
1 CAG-TCATTTTACCCTTTGGGGGTAATTCAGTCATTTTACCCTTCGAGGG-TAATT
*
39993978 CGGTCATTTT
1 CAGTCATTTT
39993988 CGTCTACAGG
Statistics
Matches: 136, Mismatches: 32, Indels: 7
0.78 0.18 0.04
Matches are distributed among these distances:
52 3 0.02
53 35 0.26
54 98 0.72
ACGTcount: A:0.20, C:0.21, G:0.20, T:0.38
Consensus pattern (54 bp):
CAGTCATTTTACCCTTTGGGGGTAATTCAGTCATTTTACCCTTCGAGGGTAATT
Found at i:39993894 original size:81 final size:80
Alignment explanation
Indices: 39993797--39993987 Score: 222
Period size: 81 Copynumber: 2.4 Consensus size: 80
39993787 TTTCAGCCAT
* * * * **
39993797 TTTACCCTTTGAGGGTAATTTAGTCATTTTACCTTTTGGGGGTAATTCAATCATTCTACCCTTCG
1 TTTACCCTTCGGGGGTAATTCAGTCATTTTACCCTCCGGGGGTAATTCAATCATTCTACCCTTCG
39993862 AGTG-TAATTCGGTCAC
66 -G-GATAATTCGGTCAC
* * *
39993878 TTTACCCTTCGGGGGTAATTCAGTCACTTTACCCTCCGGGGGTAATTCGATCATTTTACCCTTCG
1 TTTACCCTTCGGGGGTAATTCAGTCATTTTACCCTCCGGGGGTAATTCAATCATTCTACCCTTCG
* *
39993943 GGATAATTTGGTCAT
66 GGATAATTCGGTCAC
* * * *
39993958 TTTACCGTTCAGGGATAATTCGGTCATTTT
1 TTTACCCTTCGGGGGTAATTCAGTCATTTT
39993988 CGTCTACAGG
Statistics
Matches: 93, Mismatches: 16, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
79 1 0.01
80 36 0.39
81 56 0.60
ACGTcount: A:0.20, C:0.21, G:0.20, T:0.39
Consensus pattern (80 bp):
TTTACCCTTCGGGGGTAATTCAGTCATTTTACCCTCCGGGGGTAATTCAATCATTCTACCCTTCG
GGATAATTCGGTCAC
Found at i:39994238 original size:15 final size:15
Alignment explanation
Indices: 39994218--39994248 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
39994208 TTCAAACACG
39994218 TTTTCCATTAGTCGT
1 TTTTCCATTAGTCGT
39994233 TTTTCCATTAGTCGT
1 TTTTCCATTAGTCGT
39994248 T
1 T
39994249 AAACAAAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.13, C:0.19, G:0.13, T:0.55
Consensus pattern (15 bp):
TTTTCCATTAGTCGT
Found at i:39995761 original size:26 final size:26
Alignment explanation
Indices: 39995732--39995834 Score: 102
Period size: 26 Copynumber: 4.0 Consensus size: 26
39995722 TCACCAATAT
*
39995732 TGCAGCAAAGCTGCCAGTAATAGTGA
1 TGCAGCAAAGCTGCCAGTAATAGTAA
* *
39995758 TGCAACAAAGCTACCAGTAATAGTAA
1 TGCAGCAAAGCTGCCAGTAATAGTAA
** *
39995784 TATAGCAAAGCTGCCAGTAACAGTATA
1 TGCAGCAAAGCTGCCAGTAATAGTA-A
**
39995811 TGTC-GCAAAGCCACCAGT-ATAGTA
1 TG-CAGCAAAGCTGCCAGTAATAGTA
39995835 TACTTCCCCT
Statistics
Matches: 62, Mismatches: 13, Indels: 4
0.78 0.16 0.05
Matches are distributed among these distances:
26 48 0.77
27 14 0.23
ACGTcount: A:0.39, C:0.20, G:0.20, T:0.20
Consensus pattern (26 bp):
TGCAGCAAAGCTGCCAGTAATAGTAA
Found at i:39995833 original size:52 final size:52
Alignment explanation
Indices: 39995735--39995834 Score: 132
Period size: 52 Copynumber: 1.9 Consensus size: 52
39995725 CCAATATTGC
* *
39995735 AGCAAAGCTGCCAGTAATAGTGATGCAACAAAGCTACCAGTAATAGTAATAT
1 AGCAAAGCTGCCAGTAACAGTGATGCAACAAAGCCACCAGTAATAGTAATAT
* *
39995787 AGCAAAGCTGCCAGTAACAGTATATGTC-GCAAAGCCACCAGT-ATAGTA
1 AGCAAAGCTGCCAGTAACAGT-GATG-CAACAAAGCCACCAGTAATAGTA
39995835 TACTTCCCCT
Statistics
Matches: 42, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
52 26 0.62
53 15 0.36
54 1 0.02
ACGTcount: A:0.40, C:0.20, G:0.20, T:0.20
Consensus pattern (52 bp):
AGCAAAGCTGCCAGTAACAGTGATGCAACAAAGCCACCAGTAATAGTAATAT
Found at i:39996064 original size:54 final size:54
Alignment explanation
Indices: 39995982--39996098 Score: 173
Period size: 54 Copynumber: 2.2 Consensus size: 54
39995972 AAAGGTATCA
*
39995982 CAGTCATTTTACCCTATGGGGGTATTTCAATCATTTTACCCTTTGAGGGTAATT
1 CAGTCATTTTACCCTATGAGGGTATTTCAATCATTTTACCCTTTGAGGGTAATT
* *
39996036 CAGTCATTTTACTC-ATCGAGGGTATTTCAGTCATTTTACCCTTTGAGGGTAATT
1 CAGTCATTTTACCCTAT-GAGGGTATTTCAATCATTTTACCCTTTGAGGGTAATT
**
39996090 TGGTCATTT
1 CAGTCATTT
39996099 GCCCATGATT
Statistics
Matches: 57, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
53 2 0.04
54 55 0.96
ACGTcount: A:0.21, C:0.18, G:0.19, T:0.42
Consensus pattern (54 bp):
CAGTCATTTTACCCTATGAGGGTATTTCAATCATTTTACCCTTTGAGGGTAATT
Found at i:39996098 original size:27 final size:27
Alignment explanation
Indices: 39995982--39996086 Score: 147
Period size: 27 Copynumber: 3.9 Consensus size: 27
39995972 AAAGGTATCA
* *
39995982 CAGTCATTTTACCCTATGGGGGTATTT
1 CAGTCATTTTACCCTTTGAGGGTATTT
* *
39996009 CAATCATTTTACCCTTTGAGGGTAATT
1 CAGTCATTTTACCCTTTGAGGGTATTT
* * *
39996036 CAGTCATTTTACTCATCGAGGGTATTT
1 CAGTCATTTTACCCTTTGAGGGTATTT
39996063 CAGTCATTTTACCCTTTGAGGGTA
1 CAGTCATTTTACCCTTTGAGGGTA
39996087 ATTTGGTCAT
Statistics
Matches: 66, Mismatches: 12, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 66 1.00
ACGTcount: A:0.22, C:0.19, G:0.19, T:0.40
Consensus pattern (27 bp):
CAGTCATTTTACCCTTTGAGGGTATTT
Found at i:39997727 original size:28 final size:28
Alignment explanation
Indices: 39997687--39997747 Score: 97
Period size: 28 Copynumber: 2.2 Consensus size: 28
39997677 TATACAGTAT
*
39997687 CAGT-ACAGTGTGGGCCTTAGCCCATTA
1 CAGTAACAGTGTGGGCCTTAGCCCAATA
*
39997714 TAGTAACAGTGTGGGCCTTAGCCCAATA
1 CAGTAACAGTGTGGGCCTTAGCCCAATA
39997742 CAGTAA
1 CAGTAA
39997748 TCAATACAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
27 3 0.10
28 27 0.90
ACGTcount: A:0.28, C:0.23, G:0.25, T:0.25
Consensus pattern (28 bp):
CAGTAACAGTGTGGGCCTTAGCCCAATA
Found at i:39998223 original size:81 final size:81
Alignment explanation
Indices: 39998137--39998385 Score: 374
Period size: 81 Copynumber: 3.1 Consensus size: 81
39998127 GGGTATTTTA
* * * *
39998137 GTCATTTTACCCTTCGAGGGTCATTCAGTCATTTTACCCTTCGGGGGTAATTCAGTAATTTTACC
1 GTCATTTTACCCTTCGAGGGTAATTCAGTCACTTTACCCTTCGGGGGTAATTCGGTCATTTTACC
* *
39998202 TTTCGGGGGTAATTTT
66 CTTCGGGGGTAATTCT
39998218 GTCATTTTACCCTTCGAGGGTAATTCAGTCACTTTACCCTTCGGGGGTAATTCGGTCATTTTACC
1 GTCATTTTACCCTTCGAGGGTAATTCAGTCACTTTACCCTTCGGGGGTAATTCGGTCATTTTACC
*
39998283 CTTC-GGGGTAATTCG
66 CTTCGGGGGTAATTCT
* * * * *
39998298 GTCACTTTACCTTTAGGGGGTAATTCAGTCACTTTACCCTTCGGGGGTAATTTGGTCATTTTACC
1 GTCATTTTACCCTTCGAGGGTAATTCAGTCACTTTACCCTTCGGGGGTAATTCGGTCATTTTACC
39998363 CTTCGGGGGTAATTCT
66 CTTCGGGGGTAATTCT
*
39998379 ATCATTT
1 GTCATTT
39998386 GCCCATGATT
Statistics
Matches: 152, Mismatches: 15, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
80 73 0.48
81 79 0.52
ACGTcount: A:0.18, C:0.21, G:0.22, T:0.39
Consensus pattern (81 bp):
GTCATTTTACCCTTCGAGGGTAATTCAGTCACTTTACCCTTCGGGGGTAATTCGGTCATTTTACC
CTTCGGGGGTAATTCT
Found at i:39998367 original size:27 final size:27
Alignment explanation
Indices: 39998108--39998385 Score: 335
Period size: 27 Copynumber: 10.3 Consensus size: 27
39998098 AGGTGTATAA
* *** *
39998108 CAGTCATTTTACCGTTTTAGGGTATTT
1 CAGTCATTTTACCCTTCGGGGGTAATT
* * *
39998135 TAGTCATTTTACCCTTCGAGGGTCATT
1 CAGTCATTTTACCCTTCGGGGGTAATT
39998162 CAGTCATTTTACCCTTCGGGGGTAATT
1 CAGTCATTTTACCCTTCGGGGGTAATT
* *
39998189 CAGTAATTTTACCTTTCGGGGGTAATT
1 CAGTCATTTTACCCTTCGGGGGTAATT
** *
39998216 TTGTCATTTTACCCTTCGAGGGTAATT
1 CAGTCATTTTACCCTTCGGGGGTAATT
*
39998243 CAGTCACTTTACCCTTCGGGGGTAATT
1 CAGTCATTTTACCCTTCGGGGGTAATT
*
39998270 CGGTCATTTTACCCTTC-GGGGTAATT
1 CAGTCATTTTACCCTTCGGGGGTAATT
* * * *
39998296 CGGTCACTTTACCTTTAGGGGGTAATT
1 CAGTCATTTTACCCTTCGGGGGTAATT
*
39998323 CAGTCACTTTACCCTTCGGGGGTAATT
1 CAGTCATTTTACCCTTCGGGGGTAATT
**
39998350 TGGTCATTTTACCCTTCGGGGGTAATT
1 CAGTCATTTTACCCTTCGGGGGTAATT
39998377 CTA-TCATTT
1 C-AGTCATTT
39998386 GCCCATGATT
Statistics
Matches: 216, Mismatches: 33, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
26 23 0.11
27 193 0.89
ACGTcount: A:0.18, C:0.21, G:0.21, T:0.40
Consensus pattern (27 bp):
CAGTCATTTTACCCTTCGGGGGTAATT
Found at i:40000613 original size:50 final size:50
Alignment explanation
Indices: 40000526--40000767 Score: 369
Period size: 50 Copynumber: 4.8 Consensus size: 50
40000516 GATAATAACA
* * *** * *
40000526 TGCCAAAGCCATGTCCTAGACATGGTCTTATGGGGGACCTCTCATTTTGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* *
40000576 TGTCAACACCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
*
40000626 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
40000676 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
*
40000726 TGCCAATGCCATGTCCCAGGA-ATGGTCTTACATGGGACCTCT
1 TGCCAACGCCATGTCCCA-GACATGGTCTTACATGGGACCTCT
40000768 TTACCCAAAT
Statistics
Matches: 177, Mismatches: 14, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
50 175 0.99
51 2 0.01
ACGTcount: A:0.21, C:0.30, G:0.23, T:0.26
Consensus pattern (50 bp):
TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
Found at i:40018590 original size:31 final size:29
Alignment explanation
Indices: 40018523--40018591 Score: 77
Period size: 29 Copynumber: 2.3 Consensus size: 29
40018513 AAAATAACGT
* * *
40018523 AAGTGACTAAAATGTAACATTTCAAATAT
1 AAGTGACTAAAATGTAACATTGCAAACAA
40018552 AAGTGACTAAAATGTAAC-TTGAAGCAAACAA
1 AAGTGACTAAAATGTAACATT---GCAAACAA
40018583 AAGTGACTA
1 AAGTGACTA
40018592 TTTTGATAGT
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
28 2 0.06
29 18 0.53
31 14 0.41
ACGTcount: A:0.49, C:0.12, G:0.14, T:0.25
Consensus pattern (29 bp):
AAGTGACTAAAATGTAACATTGCAAACAA
Found at i:40022046 original size:22 final size:23
Alignment explanation
Indices: 40022019--40022067 Score: 64
Period size: 24 Copynumber: 2.1 Consensus size: 23
40022009 TGAAAACTTA
40022019 AAAATAAT-TATACGATAAATTT
1 AAAATAATATATACGATAAATTT
**
40022041 AAAATAATAATATGTGATAAATTT
1 AAAATAAT-ATATACGATAAATTT
40022065 AAA
1 AAA
40022068 CAACATTCAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
22 8 0.35
24 15 0.65
ACGTcount: A:0.57, C:0.02, G:0.06, T:0.35
Consensus pattern (23 bp):
AAAATAATATATACGATAAATTT
Done.