Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr12
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: 101062743
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 4026412 characters in sequence are not A, C, G, or T
File 11 of 297
Found at i:3461307 original size:42 final size:41
Alignment explanation
Indices: 3461206--3461362 Score: 136
Period size: 43 Copynumber: 3.7 Consensus size: 41
3461196 CAATGCCAAC
* * * *
3461206 GTCCTAGACGTGGTCTTACATGTAATCAAATATCGATGCCACT
1 GTCCCAGACATGGTCTTACACGAAATCAAATA-CGATGCCA-T
* *
3461249 GTCCCAGACAGGGTCTTACACGAAATCAAATACGATACCGAT
1 GTCCCAGACATGGTCTTACACGAAATCAAATACGATGCC-AT
* * *
3461291 GTCCCAGACATGGTCTTGCACATAAATCTCAAAT-CGATGCCAAC
1 GTCCCAGACATGGTCTTACAC-GAAA--TCAAATACGATGCC-AT
* * *
3461335 ATCCCAGACGTGGTTTTACACGAAATCA
1 GTCCCAGACATGGTCTTACACGAAATCA
3461363 CATATCGGAA
Statistics
Matches: 93, Mismatches: 17, Indels: 10
0.77 0.14 0.08
Matches are distributed among these distances:
41 3 0.03
42 26 0.28
43 34 0.37
44 24 0.26
45 6 0.06
ACGTcount: A:0.32, C:0.26, G:0.18, T:0.24
Consensus pattern (41 bp):
GTCCCAGACATGGTCTTACACGAAATCAAATACGATGCCAT
Found at i:3463258 original size:52 final size:53
Alignment explanation
Indices: 3463135--3463341 Score: 242
Period size: 52 Copynumber: 3.9 Consensus size: 53
3463125 CATAGCACTG
* * * * *
3463135 AAGAAGACCATATCTTGTAAGA-CAGTAATTGATGGGTTATAACATCATATGGGA
1 AAGAAGACCATATCGTGTAAGACCA-TAACTGGTGGGTTATGACATCATAT-AGA
* * * * *
3463189 AA-AAGTCTATATCGTGTAAGACTATAATTGGTGGG-TATGGCATCATATAGA
1 AAGAAGACCATATCGTGTAAGACCATAACTGGTGGGTTATGACATCATATAGA
* * *
3463240 AAGAAGACCACATCGTGTAAGACCGTAACTAGTGGGTTATGACATCATATAGA
1 AAGAAGACCATATCGTGTAAGACCATAACTGGTGGGTTATGACATCATATAGA
*
3463293 AAGAAGACCATA-CATGTAAGACCATAACTGGTGGGTTATGACATCATAT
1 AAGAAGACCATATCGTGTAAGACCATAACTGGTGGGTTATGACATCATAT
3463342 GGGGAAGTTT
Statistics
Matches: 130, Mismatches: 20, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
51 4 0.03
52 71 0.55
53 52 0.40
54 3 0.02
ACGTcount: A:0.38, C:0.14, G:0.22, T:0.27
Consensus pattern (53 bp):
AAGAAGACCATATCGTGTAAGACCATAACTGGTGGGTTATGACATCATATAGA
Found at i:3463338 original size:105 final size:105
Alignment explanation
Indices: 3463135--3463341 Score: 258
Period size: 105 Copynumber: 2.0 Consensus size: 105
3463125 CATAGCACTG
* * * * * *
3463135 AAGAAGACCATATCTTGTAAGACAGTAATTGATGGGTTATAACATCATATGGGAAAAAGTCTATA
1 AAGAAGACCACATCGTGTAAGACAGTAATAGATGGGTTATAACATCATATGAGAAAAAGACCATA
* * * *
3463200 TCGTGTAAGACTATAATTGGTGGGTATGGCATCATATAGA
66 TCATGTAAGACCATAACTGGTGGGTATGACATCATATAGA
* *
3463240 AAGAAGACCACATCGTGTAAGACCGTAACTAG-TGGGTTATGACATCATAT-AGAAAGAAGACCA
1 AAGAAGACCACATCGTGTAAGACAGTAA-TAGATGGGTTATAACATCATATGAGAAA-AAGACCA
3463303 TA-CATGTAAGACCATAACTGGTGGGTTATGACATCATAT
64 TATCATGTAAGACCATAACTGGTGGG-TATGACATCATAT
3463342 GGGGAAGTTT
Statistics
Matches: 87, Mismatches: 12, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
104 24 0.28
105 61 0.70
106 2 0.02
ACGTcount: A:0.38, C:0.14, G:0.22, T:0.27
Consensus pattern (105 bp):
AAGAAGACCACATCGTGTAAGACAGTAATAGATGGGTTATAACATCATATGAGAAAAAGACCATA
TCATGTAAGACCATAACTGGTGGGTATGACATCATATAGA
Found at i:3463723 original size:27 final size:29
Alignment explanation
Indices: 3463647--3463723 Score: 97
Period size: 27 Copynumber: 2.8 Consensus size: 29
3463637 TAAGGAAACA
*
3463647 TTTGTGGAAAAACTCTAGAAAGATATGCC
1 TTTGTGGCAAAACTCTAGAAAGATATGCC
* *
3463676 TTTGTGGCAAACCTC-ATAAAGA-ATGCC
1 TTTGTGGCAAAACTCTAGAAAGATATGCC
*
3463703 TTTGTGGCAAATCTCTA-AAAG
1 TTTGTGGCAAAACTCTAGAAAG
3463724 GAAACGTCTT
Statistics
Matches: 43, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
27 23 0.53
28 7 0.16
29 13 0.30
ACGTcount: A:0.35, C:0.17, G:0.19, T:0.29
Consensus pattern (29 bp):
TTTGTGGCAAAACTCTAGAAAGATATGCC
Found at i:3470426 original size:27 final size:27
Alignment explanation
Indices: 3470395--3470572 Score: 196
Period size: 27 Copynumber: 6.6 Consensus size: 27
3470385 TAAATTGTAC
3470395 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * ** *
3470422 TGCACTAAGTGTGCAAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
3470448 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
3470476 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
3470504 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
3470531 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
3470558 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
3470573 GACTCAATAT
Statistics
Matches: 127, Mismatches: 21, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
27 104 0.82
28 23 0.18
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:3470536 original size:82 final size:81
Alignment explanation
Indices: 3470396--3470551 Score: 224
Period size: 82 Copynumber: 1.9 Consensus size: 81
3470386 AAATTGTACA
* *
3470396 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCAAAATGAATATGATGCACTAAGTGT
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCAAAATGAATACGATGCACTAAGTGT
3470461 GCGAATTGACCATGCG
66 GCGAATTGACCATGCG
* ** *
3470477 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACTAAGT
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCAAAATGAATACGAT-GCACTAAGT
*
3470541 GTGCGAGTTGA
64 GTGCGAATTGA
3470552 TTATATAGCA
Statistics
Matches: 66, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
81 16 0.24
82 50 0.76
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCAAAATGAATACGATGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:3470563 original size:82 final size:81
Alignment explanation
Indices: 3470392--3470572 Score: 220
Period size: 82 Copynumber: 2.2 Consensus size: 81
3470382 GATTAAATTG
* *
3470392 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCAAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCAAAATGAATACGATGCACTAA
3470457 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * * ** *
3470473 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCAAAATGAATACGAT-GCACT
* **
3470537 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
3470555 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
3470573 GACTCAATAT
Statistics
Matches: 83, Mismatches: 15, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
81 18 0.22
82 65 0.78
ACGTcount: A:0.28, C:0.15, G:0.27, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCAAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:3472458 original size:42 final size:43
Alignment explanation
Indices: 3472411--3472606 Score: 220
Period size: 42 Copynumber: 4.6 Consensus size: 43
3472401 TGAGATTACG
*
3472411 TGTAAGACCATATCTGGGATATGGCATCAATATGAGACTTTGA
1 TGTAAGACCATATCTGGGATATGGCATCAATATGAGACTTTCA
* * * * *
3472454 -GTAAGACTATATCTGGGATATGGCTTCAGTATGAGAC-CTCG
1 TGTAAGACCATATCTGGGATATGGCATCAATATGAGACTTTCA
*
3472495 TGTAAGACCATATCTGGGATATGGCATCAGTATGAGAC-TTCA
1 TGTAAGACCATATCTGGGATATGGCATCAATATGAGACTTTCA
* * * * * *
3472537 TGTAAGACCATACCTGGGCTATTGCCATCGATACGAGA-TTACA
1 TGTAAGACCATATCTGGGATA-TGGCATCAATATGAGACTTTCA
* *
3472580 TGTAAGACCATATCTAGGATATAGCAT
1 TGTAAGACCATATCTGGGATATGGCAT
3472607 TGGTATGGTA
Statistics
Matches: 128, Mismatches: 22, Indels: 7
0.82 0.14 0.04
Matches are distributed among these distances:
41 1 0.01
42 94 0.73
43 33 0.26
ACGTcount: A:0.31, C:0.17, G:0.23, T:0.29
Consensus pattern (43 bp):
TGTAAGACCATATCTGGGATATGGCATCAATATGAGACTTTCA
Found at i:3475456 original size:28 final size:28
Alignment explanation
Indices: 3475403--3475486 Score: 123
Period size: 28 Copynumber: 3.0 Consensus size: 28
3475393 CACTTTGTGC
3475403 TATTCTGGTGTGTTTTGGATGGATTATAT
1 TATTCTGGTGTGTTTTGGA-GGATTATAT
* *
3475432 TATTCTGGTGAGTTTGGGAGGATTATAT
1 TATTCTGGTGTGTTTTGGAGGATTATAT
* *
3475460 GATACTGGTGTGTTTTGGAGGATTATA
1 TATTCTGGTGTGTTTTGGAGGATTATA
3475487 CTAGTGTGTT
Statistics
Matches: 49, Mismatches: 6, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
28 32 0.65
29 17 0.35
ACGTcount: A:0.20, C:0.04, G:0.31, T:0.45
Consensus pattern (28 bp):
TATTCTGGTGTGTTTTGGAGGATTATAT
Found at i:3475738 original size:21 final size:21
Alignment explanation
Indices: 3475690--3475797 Score: 85
Period size: 21 Copynumber: 5.1 Consensus size: 21
3475680 CGCTATACTG
*
3475690 ATCAGGC-ACTTTATGTGTCGT
1 ATCAGGCAAC-TTGTGTGTCGT
3475711 ATTTCAGGCAACTTGTGTGTCGT
1 A--TCAGGCAACTTGTGTGTCGT
* *
3475734 ATCAGGCACCTCGTGTGTCGT
1 ATCAGGCAACTTGTGTGTCGT
* * * * *
3475755 TTCAAGCACCTCGTGTGACGT
1 ATCAGGCAACTTGTGTGTCGT
* *
3475776 TTCAGGC-ACTTATGTGTCGT
1 ATCAGGCAACTTGTGTGTCGT
3475796 AT
1 AT
3475798 ACTGATCAGG
Statistics
Matches: 72, Mismatches: 12, Indels: 7
0.79 0.13 0.08
Matches are distributed among these distances:
20 10 0.14
21 43 0.60
23 17 0.24
24 2 0.03
ACGTcount: A:0.18, C:0.22, G:0.25, T:0.35
Consensus pattern (21 bp):
ATCAGGCAACTTGTGTGTCGT
Found at i:3476929 original size:46 final size:46
Alignment explanation
Indices: 3476879--3477028 Score: 140
Period size: 46 Copynumber: 3.1 Consensus size: 46
3476869 TGGTTGGACC
3476879 ATGGCATCAATGTGATATGTGATCTGTGTAAGACCATAGCTGGGCT
1 ATGGCATCAATGTGATATGTGATCTGTGTAAGACCATAGCTGGGCT
* * * * ** *
3476925 ATGGCATCAGAGATATGTGATTACGTGCTTCCGTATAAGACCATATTTGGGAT
1 ATGGCATC----A-ATGTGA-TATGTG-ATCTGTGTAAGACCATAGCTGGGCT
* *
3476978 ATGGCATCAGTGTGATATGTGAT-TCGTGTAAGACCATGGCTGGGCT
1 ATGGCATCAATGTGATATGTGATCT-GTGTAAGACCATAGCTGGGCT
3477024 ATGGC
1 ATGGC
3477029 TATGGTGTGT
Statistics
Matches: 80, Mismatches: 16, Indels: 16
0.71 0.14 0.14
Matches are distributed among these distances:
46 30 0.38
47 5 0.06
48 5 0.06
49 1 0.01
50 1 0.01
51 6 0.08
52 5 0.06
53 27 0.34
ACGTcount: A:0.25, C:0.15, G:0.29, T:0.31
Consensus pattern (46 bp):
ATGGCATCAATGTGATATGTGATCTGTGTAAGACCATAGCTGGGCT
Found at i:3477037 original size:46 final size:46
Alignment explanation
Indices: 3476879--3477065 Score: 135
Period size: 46 Copynumber: 3.8 Consensus size: 46
3476869 TGGTTGGACC
**
3476879 ATGGCATCAATGTGATATGTGA-TCTGTGTAAGACCATAGCTGGGCT
1 ATGGCATCGGTGTGATATGTGATTC-GTGTAAGACCATAGCTGGGCT
* * * ** *
3476925 ATGGCATCAGAGATATGTGATTACGTGCTTCCGTATAAGACCATATTTGGGAT
1 ATGGCATC-G-G---TGTGA-TATGTGATT-CGTGTAAGACCATAGCTGGGCT
* *
3476978 ATGGCATCAGTGTGATATGTGATTCGTGTAAGACCATGGCTGGGCT
1 ATGGCATCGGTGTGATATGTGATTCGTGTAAGACCATAGCTGGGCT
* * *
3477024 ATGGCTATGGTGTGTGGTATGTGACTAT-GTGCAAGACCATAG
1 ATGGC-ATCG-GTGTGATATGTGA-T-TCGTGTAAGACCATAG
3477066 TTTTACTATG
Statistics
Matches: 108, Mismatches: 21, Indels: 21
0.72 0.14 0.14
Matches are distributed among these distances:
46 30 0.28
47 9 0.08
48 17 0.16
49 13 0.12
50 1 0.01
51 6 0.06
52 5 0.05
53 26 0.24
54 1 0.01
ACGTcount: A:0.25, C:0.14, G:0.29, T:0.31
Consensus pattern (46 bp):
ATGGCATCGGTGTGATATGTGATTCGTGTAAGACCATAGCTGGGCT
Found at i:3477798 original size:52 final size:52
Alignment explanation
Indices: 3477720--3477820 Score: 184
Period size: 52 Copynumber: 1.9 Consensus size: 52
3477710 TTTCTGATTT
* *
3477720 TAAAAGAATTAATCAGGTAAATTTGGTTGAAAATGAGGTATCGAGACCTCGG
1 TAAAAGAATTAATCAGGTAAATTTGGTTAAAAACGAGGTATCGAGACCTCGG
3477772 TAAAAGAATTAATCAGGTAAATTTGGTTAAAAACGAGGTATCGAGACCT
1 TAAAAGAATTAATCAGGTAAATTTGGTTAAAAACGAGGTATCGAGACCT
3477821 AAAATTTATA
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 47 1.00
ACGTcount: A:0.41, C:0.10, G:0.23, T:0.27
Consensus pattern (52 bp):
TAAAAGAATTAATCAGGTAAATTTGGTTAAAAACGAGGTATCGAGACCTCGG
Found at i:3481532 original size:28 final size:27
Alignment explanation
Indices: 3481500--3481553 Score: 81
Period size: 28 Copynumber: 2.0 Consensus size: 27
3481490 GAAACAGTAT
*
3481500 CAGGTGGGCCTTAGCCCATTAACAGAAC
1 CAGGTGGGCCTAAGCCCATT-ACAGAAC
*
3481528 CAGGTGGGCCTAAGCCTATTACAGAA
1 CAGGTGGGCCTAAGCCCATTACAGAA
3481554 TTAGTATTAG
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
27 6 0.25
28 18 0.75
ACGTcount: A:0.30, C:0.26, G:0.26, T:0.19
Consensus pattern (27 bp):
CAGGTGGGCCTAAGCCCATTACAGAAC
Found at i:3487344 original size:25 final size:20
Alignment explanation
Indices: 3487293--3487333 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
3487283 ATTATATCGC
3487293 ACACTTAGTGCCATTACATT
1 ACACTTAGTGCCATTACATT
3487313 ACACTTAGTGCCATTACATT
1 ACACTTAGTGCCATTACATT
3487333 A
1 A
3487334 AACCAAACTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.32, C:0.24, G:0.10, T:0.34
Consensus pattern (20 bp):
ACACTTAGTGCCATTACATT
Found at i:3491304 original size:46 final size:45
Alignment explanation
Indices: 3491251--3491506 Score: 248
Period size: 47 Copynumber: 5.5 Consensus size: 45
3491241 ATTGTGGGCT
*
3491251 AGTGTAAGACATGTCTGGGACATGCATCAGCCAC-ATTATGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATC-GCCACGA-GATGAGAGCC
* * * * *
3491297 AGTGTAAGACCATGTCTAGGACATGGCATCGGCATCGAGACGAGTGCT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGCCA-CGAGATGAGAGCC
* *
3491345 AGTGCAAGACATGTCTGGGACATGCATCGACCTCGAGATGTA-AGCC
1 AGTGTAAGACATGTCTGGGACATGCATCG-CCACGAGATG-AGAGCC
* * *
3491391 AGTGTAAGACATGTCTGGGACATGCATTGGCTACGAGATGATAGCC
1 AGTGTAAGACATGTCTGGGACATGCA-TCGCCACGAGATGAGAGCC
* * * *
3491437 ACTGTAAGACCATGTCTGGGACATGGCATCGACATGAGAT-ATGAGCT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGCCACGAGATGA-GAGCC
3491484 AGTGTAAGACCATGTCTGGGACA
1 AGTGTAAGA-CATGTCTGGGACA
3491507 CAGCATTGGC
Statistics
Matches: 174, Mismatches: 25, Indels: 21
0.79 0.11 0.10
Matches are distributed among these distances:
45 1 0.01
46 69 0.40
47 80 0.46
48 23 0.13
49 1 0.01
ACGTcount: A:0.29, C:0.20, G:0.29, T:0.22
Consensus pattern (45 bp):
AGTGTAAGACATGTCTGGGACATGCATCGCCACGAGATGAGAGCC
Found at i:3491476 original size:47 final size:45
Alignment explanation
Indices: 3491251--3491506 Score: 234
Period size: 46 Copynumber: 5.5 Consensus size: 45
3491241 ATTGTGGGCT
* *
3491251 AGTGTAAGACATGTCTGGGACATGCATCAGCCACAT--TATGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATC-G--ACATGAGATGATAGCC
* * * *
3491297 AGTGTAAGACCATGTCTAGGACATGGCATCGGCATCGAGACGAGT-GCT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGACAT-GAGATGA-TAGCC
* *
3491345 AGTGCAAGACATGTCTGGGACATGCATCGACCTCGAGATG-TAAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGACAT-GAGATGAT-AGCC
* * *
3491391 AGTGTAAGACATGTCTGGGACATGCATTGGCTACGAGATGATAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGAC-ATGAGATGATAGCC
* *
3491437 ACTGTAAGACCATGTCTGGGACATGGCATCGACATGAGAT-ATGAGCT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGACATGAGATGAT-AGCC
3491484 AGTGTAAGACCATGTCTGGGACA
1 AGTGTAAGA-CATGTCTGGGACA
3491507 CAGCATTGGC
Statistics
Matches: 174, Mismatches: 23, Indels: 25
0.78 0.10 0.11
Matches are distributed among these distances:
44 1 0.01
45 3 0.02
46 73 0.42
47 73 0.42
48 24 0.14
ACGTcount: A:0.29, C:0.20, G:0.29, T:0.22
Consensus pattern (45 bp):
AGTGTAAGACATGTCTGGGACATGCATCGACATGAGATGATAGCC
Found at i:3491503 original size:140 final size:140
Alignment explanation
Indices: 3491251--3491506 Score: 365
Period size: 140 Copynumber: 1.8 Consensus size: 140
3491241 ATTGTGGGCT
* *
3491251 AGTGTAAGACATGTCTGGGACATGCATCAGCCACATTATGAGAGCCAGTGTAAGACCATGTCTAG
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCACATGATGAGAGCCACTGTAAGACCATGTCTAG
* *
3491316 GACATGGCATCGGCATCGAGACGAGTGCTAGTGCAAGACATGTCTGGGACATGCATCGACCTCGA
66 GACATGGCATCGACATCGAGACGAGAGCTAGTGCAAGACATGTCTGGGACATGCATCGACCTCGA
3491381 GATGTAAGCC
131 GATGTAAGCC
** * * *
3491391 AGTGTAAGACATGTCTGGGACATGCATTGGCTACGA-GATGATAGCCACTGTAAGACCATGTCTG
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCAC-ATGATGAGAGCCACTGTAAGACCATGTCTA
* *
3491455 GGACATGGCATCGACAT-GAGA-TATGAGCTAGTGTAAGACCATGTCTGGGACA
65 GGACATGGCATCGACATCGAGACGA-GAGCTAGTGCAAGA-CATGTCTGGGACA
3491507 CAGCATTGGC
Statistics
Matches: 102, Mismatches: 11, Indels: 6
0.86 0.09 0.05
Matches are distributed among these distances:
138 1 0.01
139 16 0.16
140 84 0.82
141 1 0.01
ACGTcount: A:0.29, C:0.20, G:0.29, T:0.22
Consensus pattern (140 bp):
AGTGTAAGACATGTCTGGGACATGCATCAGCCACATGATGAGAGCCACTGTAAGACCATGTCTAG
GACATGGCATCGACATCGAGACGAGAGCTAGTGCAAGACATGTCTGGGACATGCATCGACCTCGA
GATGTAAGCC
Found at i:3492025 original size:40 final size:40
Alignment explanation
Indices: 3491967--3492498 Score: 282
Period size: 40 Copynumber: 13.3 Consensus size: 40
3491957 ATAATTATTG
*
3491967 CCTGAATGCACATACATGCCCTTATTTCTACTTCAG-TACC
1 CCTGAATGCACATACATGCCCCTATTTCTACTT-AGATACC
* * * *
3492007 CTTGAATGCACATGCATGCCCCTGTTTGTACTTAGATACC
1 CCTGAATGCACATACATGCCCCTATTTCTACTTAGATACC
* * * *
3492047 CCTGAATGCACATACACGCACCTGTTTGTACTTTAG-TACC
1 CCTGAATGCACATACATGCCCCTATTTCTAC-TTAGATACC
* * * * * * *
3492087 CCTAAATGCATACACGTGCCCCTGTTTGTACTTTGATACC
1 CCTGAATGCACATACATGCCCCTATTTCTACTTAGATACC
* * * * ** * * *
3492127 CCTAAATGCATACACGTGCCCCTGGTTGTACTTTGGTACC
1 CCTGAATGCACATACATGCCCCTATTTCTACTTAGATACC
* ** * * * * *
3492167 CCTGAATGCACACATGTGCTCCTGTTTATACTTCGGTACC
1 CCTGAATGCACATACATGCCCCTATTTCTACTTAGATACC
* * * * *
3492207 CCTAAATGCACACACGTGCCCCTATTTGC-ACTTTGGTACC
1 CCTGAATGCACATACATGCCCCTATTT-CTACTTAGATACC
* * * * * *
3492247 CCTGAATGAACACACGTGCCCTTATTTGTACTTCGATACC
1 CCTGAATGCACATACATGCCCCTATTTCTACTTAGATACC
* * * * * *
3492287 CCTGAATACACACACATACCCCTATTTGTACTTTGGTACC
1 CCTGAATGCACATACATGCCCCTATTTCTACTTAGATACC
* * * *
3492327 CCTAAATGCACACACATGCCCCTGTTTGTACTTCAG-TACC
1 CCTGAATGCACATACATGCCCCTATTTCTACTT-AGATACC
* * * * * * * * *
3492367 ACTAAATGCACATGCGTGCCCCTGTTTGTACTTTGGTATC
1 CCTGAATGCACATACATGCCCCTATTTCTACTTAGATACC
* * * * * * *
3492407 GCTGAATGCACAGACGTGCACTTGTTTGTACTTTAG-TACC
1 CCTGAATGCACATACATGCCCCTATTTCTAC-TTAGATACC
* ** * * * *
3492447 CCTGAATGCACACATGTGCCCCTGTTTGTACTTCGGTACC
1 CCTGAATGCACATACATGCCCCTATTTCTACTTAGATACC
*
3492487 CCTAAATGCACA
1 CCTGAATGCACA
3492499 CATGTGCCCC
Statistics
Matches: 413, Mismatches: 70, Indels: 18
0.82 0.14 0.04
Matches are distributed among these distances:
39 9 0.02
40 396 0.96
41 8 0.02
ACGTcount: A:0.23, C:0.30, G:0.16, T:0.31
Consensus pattern (40 bp):
CCTGAATGCACATACATGCCCCTATTTCTACTTAGATACC
Found at i:3492061 original size:80 final size:80
Alignment explanation
Indices: 3491967--3492509 Score: 532
Period size: 80 Copynumber: 6.8 Consensus size: 80
3491957 ATAATTATTG
* * * ** * **
3491967 CCTGAATGCACATACATGCCCTTATTTCTACTTCAGTACCCTTGAATGCACATGCATGCCCCTGT
1 CCTGAATGCACACACATGCCCCTATTTGTACTTTGGTACCCCTGAATGCACACACATGCCCCTGT
3492032 TTGTACTTAGATACC
66 TTGTACTTAGATACC
* * * * * * * *
3492047 CCTGAATGCACATACACGCACCTGTTTGTACTTTAGTACCCCTAAATGCATACACGTGCCCCTGT
1 CCTGAATGCACACACATGCCCCTATTTGTACTTTGGTACCCCTGAATGCACACACATGCCCCTGT
*
3492112 TTGTACTTTGATACC
66 TTGTACTTAGATACC
* * * ** ** *
3492127 CCTAAATGCATACACGTGCCCCTGGTTGTACTTTGGTACCCCTGAATGCACACATGTGCTCCTGT
1 CCTGAATGCACACACATGCCCCTATTTGTACTTTGGTACCCCTGAATGCACACACATGCCCCTGT
* * *
3492192 TTATACTTCGGTACC
66 TTGTACTTAGATACC
* * * * * * *
3492207 CCTAAATGCACACACGTGCCCCTATTTGCACTTTGGTACCCCTGAATGAACACACGTGCCCTTAT
1 CCTGAATGCACACACATGCCCCTATTTGTACTTTGGTACCCCTGAATGCACACACATGCCCCTGT
*
3492272 TTGTACTTCGATACC
66 TTGTACTTAGATACC
* * *
3492287 CCTGAATACACACACATACCCCTATTTGTACTTTGGTACCCCTAAATGCACACACATGCCCCTGT
1 CCTGAATGCACACACATGCCCCTATTTGTACTTTGGTACCCCTGAATGCACACACATGCCCCTGT
3492352 TTGTACTTCAG-TACC
66 TTGTACTT-AGATACC
* * ** * * * * * * * *
3492367 ACTAAATGCACATGCGTGCCCCTGTTTGTACTTTGGTATCGCTGAATGCACAGACGTGCACTTGT
1 CCTGAATGCACACACATGCCCCTATTTGTACTTTGGTACCCCTGAATGCACACACATGCCCCTGT
3492432 TTGTACTTTAG-TACC
66 TTGTAC-TTAGATACC
** * * * **
3492447 CCTGAATGCACACATGTGCCCCTGTTTGTACTTCGGTACCCCTAAATGCACACATGTGCCCCT
1 CCTGAATGCACACACATGCCCCTATTTGTACTTTGGTACCCCTGAATGCACACACATGCCCCT
3492510 AAATTCACAT
Statistics
Matches: 383, Mismatches: 78, Indels: 4
0.82 0.17 0.01
Matches are distributed among these distances:
80 380 0.99
81 3 0.01
ACGTcount: A:0.23, C:0.31, G:0.16, T:0.31
Consensus pattern (80 bp):
CCTGAATGCACACACATGCCCCTATTTGTACTTTGGTACCCCTGAATGCACACACATGCCCCTGT
TTGTACTTAGATACC
Found at i:3492499 original size:40 final size:40
Alignment explanation
Indices: 3492023--3492509 Score: 551
Period size: 40 Copynumber: 12.2 Consensus size: 40
3492013 TGCACATGCA
* * * * *
3492023 TGCCCCTGTTTGTACTTAGATACCCCTGAATGCACATACA
1 TGCCCCTGTTTGTACTTTGGTACCCCTAAATGCACACACG
* * * *
3492063 CGCACCTGTTTGTACTTTAGTACCCCTAAATGCATACACG
1 TGCCCCTGTTTGTACTTTGGTACCCCTAAATGCACACACG
* *
3492103 TGCCCCTGTTTGTACTTTGATACCCCTAAATGCATACACG
1 TGCCCCTGTTTGTACTTTGGTACCCCTAAATGCACACACG
* * *
3492143 TGCCCCTGGTTGTACTTTGGTACCCCTGAATGCACACATG
1 TGCCCCTGTTTGTACTTTGGTACCCCTAAATGCACACACG
* * *
3492183 TGCTCCTGTTTATACTTCGGTACCCCTAAATGCACACACG
1 TGCCCCTGTTTGTACTTTGGTACCCCTAAATGCACACACG
* * * *
3492223 TGCCCCTATTTGCACTTTGGTACCCCTGAATGAACACACG
1 TGCCCCTGTTTGTACTTTGGTACCCCTAAATGCACACACG
* * * * * * *
3492263 TGCCCTTATTTGTACTTCGATACCCCTGAATACACACACA
1 TGCCCCTGTTTGTACTTTGGTACCCCTAAATGCACACACG
* * *
3492303 TACCCCTATTTGTACTTTGGTACCCCTAAATGCACACACA
1 TGCCCCTGTTTGTACTTTGGTACCCCTAAATGCACACACG
** * **
3492343 TGCCCCTGTTTGTACTTCAGTACCACTAAATGCACATGCG
1 TGCCCCTGTTTGTACTTTGGTACCCCTAAATGCACACACG
* * * *
3492383 TGCCCCTGTTTGTACTTTGGTATCGCTGAATGCACAGACG
1 TGCCCCTGTTTGTACTTTGGTACCCCTAAATGCACACACG
* * * * *
3492423 TGCACTTGTTTGTACTTTAGTACCCCTGAATGCACACATG
1 TGCCCCTGTTTGTACTTTGGTACCCCTAAATGCACACACG
* *
3492463 TGCCCCTGTTTGTACTTCGGTACCCCTAAATGCACACATG
1 TGCCCCTGTTTGTACTTTGGTACCCCTAAATGCACACACG
3492503 TGCCCCT
1 TGCCCCT
3492510 AAATTCACAT
Statistics
Matches: 376, Mismatches: 71, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
40 376 1.00
ACGTcount: A:0.22, C:0.31, G:0.16, T:0.31
Consensus pattern (40 bp):
TGCCCCTGTTTGTACTTTGGTACCCCTAAATGCACACACG
Found at i:3492508 original size:20 final size:20
Alignment explanation
Indices: 3492485--3492523 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
3492475 TACTTCGGTA
3492485 CCCCTAAATGCACACATGTG
1 CCCCTAAATGCACACATGTG
* *
3492505 CCCCTAAATTCACATATGT
1 CCCCTAAATGCACACATGT
3492524 TCCCTTGTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.31, C:0.33, G:0.10, T:0.26
Consensus pattern (20 bp):
CCCCTAAATGCACACATGTG
Found at i:3492567 original size:100 final size:100
Alignment explanation
Indices: 3492427--3492609 Score: 287
Period size: 100 Copynumber: 1.8 Consensus size: 100
3492417 CAGACGTGCA
* *
3492427 CTTGTTTGTACTTTAGTACCCCTGAATGCACACATGTGCCCCTGTTTGTACTTCGGTACCCCTAA
1 CTTGTTTGTACTTTAGTACCCCTGAATGCACACACGTGCCCCTGGTTGTACTTCGGTACCCCTAA
*
3492492 ATGCACACATGTGCCCCTAAATTCACATATGTTCC
66 ATGCACACACGTGCCCCTAAATTCACATATGTTCC
* * *
3492527 CTTGTTTGTACTTTAG-ATCCCCTGAATGCATATACGTGCCCCTGGTTGTACTTCGGTACCCCTG
1 CTTGTTTGTACTTTAGTA-CCCCTGAATGCACACACGTGCCCCTGGTTGTACTTCGGTACCCCTA
*
3492591 AATGCACATACGTGCCCCT
65 AATGCACACACGTGCCCCT
3492610 GCTTGTACTT
Statistics
Matches: 75, Mismatches: 7, Indels: 2
0.89 0.08 0.02
Matches are distributed among these distances:
99 1 0.01
100 74 0.99
ACGTcount: A:0.20, C:0.30, G:0.17, T:0.33
Consensus pattern (100 bp):
CTTGTTTGTACTTTAGTACCCCTGAATGCACACACGTGCCCCTGGTTGTACTTCGGTACCCCTAA
ATGCACACACGTGCCCCTAAATTCACATATGTTCC
Found at i:3492570 original size:20 final size:20
Alignment explanation
Indices: 3492545--3492610 Score: 55
Period size: 20 Copynumber: 3.3 Consensus size: 20
3492535 TACTTTAGAT
3492545 CCCCTGAATGCATATACGTG
1 CCCCTGAATGCATATACGTG
** * *
3492565 CCCCTGGTTG--TACTTCGGTA
1 CCCCTGAATGCATA-TAC-GTG
*
3492585 CCCCTGAATGCACATACGTG
1 CCCCTGAATGCATATACGTG
3492605 CCCCTG
1 CCCCTG
3492611 CTTGTACTTT
Statistics
Matches: 33, Mismatches: 9, Indels: 8
0.66 0.18 0.16
Matches are distributed among these distances:
18 2 0.06
19 2 0.06
20 26 0.79
21 2 0.06
22 1 0.03
ACGTcount: A:0.18, C:0.35, G:0.21, T:0.26
Consensus pattern (20 bp):
CCCCTGAATGCATATACGTG
Found at i:3492576 original size:40 final size:40
Alignment explanation
Indices: 3492505--3492665 Score: 164
Period size: 40 Copynumber: 4.0 Consensus size: 40
3492495 CACACATGTG
* * * * * *
3492505 CCCCTAAATTCACATATGTTCCCTTGTTTGTACTTTAG-A
1 CCCCTGAATGCACATACGTGCCCCTGCTTGTACTTTAGTA
* * **
3492544 TCCCCTGAATGCATATACGTGCCCCTGGTTGTACTTCGGTA
1 -CCCCTGAATGCACATACGTGCCCCTGCTTGTACTTTAGTA
3492585 CCCCTGAATGCACATACGTGCCCCTGCTTGTACTTTAGTA
1 CCCCTGAATGCACATACGTGCCCCTGCTTGTACTTTAGTA
* * * *
3492625 CCCTTGAAAGCACATACGTGCCCTTG-TTAGTACTCTAGTA
1 CCCCTGAATGCACATACGTGCCCCTGCTT-GTACTTTAGTA
3492665 C
1 C
3492666 TCTTGAAGGC
Statistics
Matches: 102, Mismatches: 17, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
39 2 0.02
40 99 0.97
41 1 0.01
ACGTcount: A:0.21, C:0.29, G:0.17, T:0.33
Consensus pattern (40 bp):
CCCCTGAATGCACATACGTGCCCCTGCTTGTACTTTAGTA
Found at i:3495401 original size:47 final size:48
Alignment explanation
Indices: 3495350--3495478 Score: 129
Period size: 48 Copynumber: 2.7 Consensus size: 48
3495340 TGAGGCATCT
* *
3495350 GAACTTGTTGAGTTGCGTTCCGAGTTCACCTAT-G-GATGC-AAGAATCC
1 GAACTCGTTGAGTTGCGTTCCGAGTTCA-CTATGGAGATGCGAA-AACCC
* * * * *
3495397 GAACTCGTTCAGTTGTGTTTCGAGTTCATTATGGAGATGCGAACACCC
1 GAACTCGTTGAGTTGCGTTCCGAGTTCACTATGGAGATGCGAAAACCC
* * *
3495445 GAGCTCGTTGAGTTGCGTTCTGAGTTCATTATGG
1 GAACTCGTTGAGTTGCGTTCCGAGTTCACTATGG
3495479 GTGAGATTAT
Statistics
Matches: 67, Mismatches: 12, Indels: 5
0.80 0.14 0.06
Matches are distributed among these distances:
46 3 0.04
47 25 0.37
48 37 0.55
49 2 0.03
ACGTcount: A:0.21, C:0.19, G:0.27, T:0.33
Consensus pattern (48 bp):
GAACTCGTTGAGTTGCGTTCCGAGTTCACTATGGAGATGCGAAAACCC
Found at i:3503104 original size:19 final size:19
Alignment explanation
Indices: 3503069--3503106 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
3503059 TTGTAATTTA
*
3503069 AATTTTTATTTTCTTTTCT
1 AATTTTTATTTTATTTTCT
3503088 AATTTTTCA-TTTATTTTCT
1 AATTTTT-ATTTTATTTTCT
3503107 TCTAACAGGT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 16 0.94
20 1 0.06
ACGTcount: A:0.18, C:0.11, G:0.00, T:0.71
Consensus pattern (19 bp):
AATTTTTATTTTATTTTCT
Found at i:3504638 original size:30 final size:30
Alignment explanation
Indices: 3504604--3504664 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
3504594 TTCCCGAGCC
3504604 TAGGGGCAAAAGTGTAAATATGCAAAAGTT
1 TAGGGGCAAAAGTGTAAATATGCAAAAGTT
* * * * *
3504634 TAGGGGTAAAATTGTAATTTTTCAAAAGTT
1 TAGGGGCAAAAGTGTAAATATGCAAAAGTT
3504664 T
1 T
3504665 TAGTTAAGGA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.39, C:0.05, G:0.23, T:0.33
Consensus pattern (30 bp):
TAGGGGCAAAAGTGTAAATATGCAAAAGTT
Found at i:3508621 original size:246 final size:248
Alignment explanation
Indices: 3508186--3508683 Score: 910
Period size: 246 Copynumber: 2.0 Consensus size: 248
3508176 ATTGAATCTT
3508186 TTTACCGGTAAGATTTTCAGGGACGAAAATCCCTAAAGGGGGGAGAAATGTAACATCTCGAAATA
1 TTTACCGGTAAGATTTTCAGGGACGAAAATCCCTAAAGGGGGGAGAAATGTAACATCTCGAAATA
*
3508251 GGGCTTAAATGTAATAGTGATTGCGAAACCACAAATCTGAGATAGAAAAGTTTATTTCGATTAAT
66 GGGCTTAAATGGAATAGTGATTGCGAAACCACAAATCTGAGATAGAAAAGTTTATTTCGATTAAT
*
3508316 TTTTATGATTTACTGAGTGATTTGATGCATGTGTTAGAGTATTGATAAGAAATTTTATAGATTGC
131 TTTTATGATTTACTGAGTGATTAGATGCATGTGTTAGAGTATTGATAAGAAATTTTATAGATTGC
3508381 ATGTTTAATTTGCCTATTAGGGCTTATTTGCAGAAG-TGCTATAACAGCCCGA
196 ATGTTTAATTTGCCTATTAGGGCTTATTTGCAGAAGTTGCTATAACAGCCCGA
3508433 TTTACCGGTAAGATTTTCAGGGACGAAAATCCCTAAAGGGGGGAGAAATGTAACATCTCGAAATA
1 TTTACCGGTAAGATTTTCAGGGACGAAAATCCCTAAAGGGGGGAGAAATGTAACATCTCGAAATA
* *
3508498 GGGCTTAAATGGAATAGTGGTTG-GAAACCACAAATCTGAGATATAAAAGTTTATTTCGATTAAT
66 GGGCTTAAATGGAATAGTGATTGCGAAACCACAAATCTGAGATAGAAAAGTTTATTTCGATTAAT
* *
3508562 TTTTATGATTTACTGAGTGATTAGATGCATGTGTTAGGGTGTTGATAAGAAATTTTATAGATTGC
131 TTTTATGATTTACTGAGTGATTAGATGCATGTGTTAGAGTATTGATAAGAAATTTTATAGATTGC
* *
3508627 ATGTTTAATTTGCCTGTTAGGGCTTATTTGCAGAAGTTGCTGTAACAGCCCGA
196 ATGTTTAATTTGCCTATTAGGGCTTATTTGCAGAAGTTGCTATAACAGCCCGA
3508680 TTTA
1 TTTA
3508684 GGGCCTAAAC
Statistics
Matches: 242, Mismatches: 8, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
246 137 0.57
247 105 0.43
ACGTcount: A:0.32, C:0.11, G:0.23, T:0.34
Consensus pattern (248 bp):
TTTACCGGTAAGATTTTCAGGGACGAAAATCCCTAAAGGGGGGAGAAATGTAACATCTCGAAATA
GGGCTTAAATGGAATAGTGATTGCGAAACCACAAATCTGAGATAGAAAAGTTTATTTCGATTAAT
TTTTATGATTTACTGAGTGATTAGATGCATGTGTTAGAGTATTGATAAGAAATTTTATAGATTGC
ATGTTTAATTTGCCTATTAGGGCTTATTTGCAGAAGTTGCTATAACAGCCCGA
Found at i:3508868 original size:30 final size:30
Alignment explanation
Indices: 3508834--3508891 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
3508824 GGACTTATAG
3508834 GGGCAAAAGTGTAAATATGCAAAAGTTTAA
1 GGGCAAAAGTGTAAATATGCAAAAGTTTAA
* * * *
3508864 GGGCAAAATTGTAATTTTGCCAAAGTTT
1 GGGCAAAAGTGTAAATATGCAAAAGTTT
3508892 GAGTTAAGGA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.40, C:0.09, G:0.22, T:0.29
Consensus pattern (30 bp):
GGGCAAAAGTGTAAATATGCAAAAGTTTAA
Found at i:3512896 original size:246 final size:247
Alignment explanation
Indices: 3512462--3512958 Score: 854
Period size: 246 Copynumber: 2.0 Consensus size: 247
3512452 ATTGAATCTT
*
3512462 TTTACCGGTAAGATTTTCAGGGACGAAATCCCTAAATGGGGGAGAAATGTAACATCTCGAAATAG
1 TTTACCGGTAAGATTTTCAGGGACGAAATCCCTAAAGGGGGGAGAAATGTAACATCTCGAAATAG
* *
3512527 GGCTTAAATGTAATAGTGATTGCGAAACCACAAATCTGAGATAGAAAAGTTTATTTTGATTAATT
66 GGCTTAAATGGAATAGTGATTGCGAAACCACAAATCTGAGATAGAAAAGTTTATTTCGATTAATT
*
3512592 TTTATGATTTACTAAGTGATTTGATGCATGTGTTAGAGTATTGAGAAGAAATTTTATAGATTGCA
131 TTTATGATTTACTAAGTGATTAGATGCATGTGTTAGAGTATTGAGAAGAAATTTTATAGATTGCA
3512657 TGTTTAATTTACCTATTAGGGCTTATTTGCAGAAG-TGCTATAACAGCCCGA
196 TGTTTAATTTACCTATTAGGGCTTATTTGCAGAAGTTGCTATAACAGCCCGA
*
3512708 TTTACCGGTAAGATTTTCAGGGACGAAAATCTCTAAAGGGGGGAGAAATGTAACATCTCGAAATA
1 TTTACCGGTAAGATTTTCAGGGACG-AAATCCCTAAAGGGGGGAGAAATGTAACATCTCGAAATA
*
3512773 GGGCTTAAATGGAATAGTGGTTG-GAAACCACAAATCTGAGATAGAAAAGTTTATTTCGATTAAT
65 GGGCTTAAATGGAATAGTGATTGCGAAACCACAAATCTGAGATAGAAAAGTTTATTTCGATTAAT
* * * *
3512837 TTTTATGATTTACTGAGTGATTAGATGCATGTGTTAGGGTGTTGATAAGAAATTTTATAGATTGC
130 TTTTATGATTTACTAAGTGATTAGATGCATGTGTTAGAGTATTGAGAAGAAATTTTATAGATTGC
* * *
3512902 ATGTTTAATTTGCCTGTTAGGGCTTATTTGCAGAAGTTGCTGTAACAGCCCGA
195 ATGTTTAATTTACCTATTAGGGCTTATTTGCAGAAGTTGCTATAACAGCCCGA
3512955 TTTA
1 TTTA
3512959 GGGCCTAAAC
Statistics
Matches: 236, Mismatches: 13, Indels: 3
0.94 0.05 0.01
Matches are distributed among these distances:
246 159 0.67
247 77 0.33
ACGTcount: A:0.33, C:0.11, G:0.23, T:0.34
Consensus pattern (247 bp):
TTTACCGGTAAGATTTTCAGGGACGAAATCCCTAAAGGGGGGAGAAATGTAACATCTCGAAATAG
GGCTTAAATGGAATAGTGATTGCGAAACCACAAATCTGAGATAGAAAAGTTTATTTCGATTAATT
TTTATGATTTACTAAGTGATTAGATGCATGTGTTAGAGTATTGAGAAGAAATTTTATAGATTGCA
TGTTTAATTTACCTATTAGGGCTTATTTGCAGAAGTTGCTATAACAGCCCGA
Found at i:3518699 original size:40 final size:40
Alignment explanation
Indices: 3518297--3518685 Score: 778
Period size: 40 Copynumber: 9.7 Consensus size: 40
3518287 ATTCAGATTG
3518297 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
3518337 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
3518377 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
3518417 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
3518457 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
3518497 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
3518537 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
3518577 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
3518617 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
3518657 ATAACCGGGCTAAGTCCCGAAGGCATTTG
1 ATAACCGGGCTAAGTCCCGAAGGCATTTG
3518686 AGCTAGTAGC
Statistics
Matches: 349, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 349 1.00
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
Found at i:3526697 original size:40 final size:40
Alignment explanation
Indices: 3526495--3526683 Score: 351
Period size: 40 Copynumber: 4.7 Consensus size: 40
3526485 ATTCAGATTG
3526495 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
3526535 ATAACCGGGCTAAGTCCTGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
3526575 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
3526615 ATAGCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
3526655 ATAACCGGGCTAAGTCCCGAAGGCATTTG
1 ATAACCGGGCTAAGTCCCGAAGGCATTTG
3526684 AGCTAGTAGC
Statistics
Matches: 144, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
40 144 1.00
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
Found at i:3536098 original size:40 final size:40
Alignment explanation
Indices: 3536054--3536237 Score: 189
Period size: 40 Copynumber: 4.6 Consensus size: 40
3536044 GCTACTCGTT
* * *
3536054 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAAATCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
*
3536094 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGG-TTATAGTAACTCGCA
* * *
3536134 CCAATGCCTTCGGG-CTTAGCCCGG-AATTAGTAACTCACA
1 CAAATGCCTTCGGGACTTAGCCCGGTTA-TAGTAACTCGCA
* * * * *
3536173 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGTTATAGTAAC-TCGCA
3536214 CAAA-GCCTTCGGGACTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGG
3536238 ACATCATTCG
Statistics
Matches: 120, Mismatches: 16, Indels: 16
0.79 0.11 0.11
Matches are distributed among these distances:
38 2 0.02
39 30 0.25
40 75 0.62
41 13 0.11
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
Found at i:3536165 original size:79 final size:81
Alignment explanation
Indices: 3536056--3536238 Score: 205
Period size: 79 Copynumber: 2.3 Consensus size: 81
3536046 TACTCGTTCA
* * **
3536056 AATGCCTTCGGGACATAGCCCGG-TTATAGTAAATCGGACAAATGCCTTCGGGA-CTTAACCCGG
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAAATCACACAAATGCCTTC-GGATCTTAACCCGG
* *
3536119 ATTTAGTAAC-TCGCACC
65 ATATAGTAACTTAGCA-C
* **
3536136 AATGCCTTCGGG-CTTAGCCCGGAAT-TAGTAACTCACACAAATGCCTTCGGATCTTAGTCCGGA
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAAATCACACAAATGCCTTCGGATCTTAACCCGGA
* *
3536199 TATGGTCACTTAGCAC
66 TATAGTAACTTAGCAC
*
3536215 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
3536239 CATCATTCGA
Statistics
Matches: 87, Mismatches: 12, Indels: 8
0.81 0.11 0.07
Matches are distributed among these distances:
78 3 0.03
79 56 0.64
80 28 0.32
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.24
Consensus pattern (81 bp):
AATGCCTTCGGGACTTAGCCCGGAATATAGTAAATCACACAAATGCCTTCGGATCTTAACCCGGA
TATAGTAACTTAGCAC
Found at i:3537435 original size:56 final size:56
Alignment explanation
Indices: 3537368--3537487 Score: 231
Period size: 56 Copynumber: 2.1 Consensus size: 56
3537358 TATTAGTTTA
3537368 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
*
3537424 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
3537480 TTGCCCAT
1 TTGCCCAT
3537488 CATCCCTTGT
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 63 1.00
ACGTcount: A:0.23, C:0.23, G:0.09, T:0.45
Consensus pattern (56 bp):
TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
Found at i:3539683 original size:13 final size:13
Alignment explanation
Indices: 3539665--3539693 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
3539655 CAATAAGTGG
3539665 AGACTTGAGTATT
1 AGACTTGAGTATT
3539678 AGACTTGAGTATT
1 AGACTTGAGTATT
3539691 AGA
1 AGA
3539694 ACGAGTGAAA
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:0.34, C:0.07, G:0.24, T:0.34
Consensus pattern (13 bp):
AGACTTGAGTATT
Found at i:3542712 original size:9 final size:10
Alignment explanation
Indices: 3542692--3542723 Score: 55
Period size: 10 Copynumber: 3.1 Consensus size: 10
3542682 GATTACAAAT
3542692 AAAATAGAAA
1 AAAATAGAAA
3542702 AAAATAGAAAA
1 AAAATAG-AAA
3542713 AAAATAGAAA
1 AAAATAGAAA
3542723 A
1 A
3542724 GGGAACGCAC
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
10 11 0.52
11 10 0.48
ACGTcount: A:0.81, C:0.00, G:0.09, T:0.09
Consensus pattern (10 bp):
AAAATAGAAA
Found at i:3542715 original size:11 final size:11
Alignment explanation
Indices: 3542692--3542723 Score: 57
Period size: 11 Copynumber: 3.0 Consensus size: 11
3542682 GATTACAAAT
3542692 AAAATAG-AAA
1 AAAATAGAAAA
3542702 AAAATAGAAAA
1 AAAATAGAAAA
3542713 AAAATAGAAAA
1 AAAATAGAAAA
3542724 GGGAACGCAC
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 7 0.33
11 14 0.67
ACGTcount: A:0.81, C:0.00, G:0.09, T:0.09
Consensus pattern (11 bp):
AAAATAGAAAA
Found at i:3545097 original size:17 final size:19
Alignment explanation
Indices: 3545075--3545110 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
3545065 TCACAAGTGG
3545075 TGTAA-TTAT-TATTTTTA
1 TGTAATTTATATATTTTTA
3545092 TGTAATTTATATATTTTTA
1 TGTAATTTATATATTTTTA
3545111 AAAGATATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 5 0.29
18 4 0.24
19 8 0.47
ACGTcount: A:0.31, C:0.00, G:0.06, T:0.64
Consensus pattern (19 bp):
TGTAATTTATATATTTTTA
Found at i:3547103 original size:37 final size:37
Alignment explanation
Indices: 3547030--3547108 Score: 104
Period size: 37 Copynumber: 2.1 Consensus size: 37
3547020 TTATTACGAA
* * * *
3547030 GTCTTACCCGAACATAATCTCCAGACGAAGTTATCGG
1 GTCTTACCCGAACAAAATCCCCACACGAAGTCATCGG
* *
3547067 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGAACAAAATCCCCACACGAAGTCATCGG
3547104 GTCTT
1 GTCTT
3547109 TAGAGCTCGG
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.27, C:0.30, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGAACAAAATCCCCACACGAAGTCATCGG
Found at i:3547372 original size:47 final size:47
Alignment explanation
Indices: 3547227--3547464 Score: 388
Period size: 47 Copynumber: 5.1 Consensus size: 47
3547217 CCCTTCGGGA
* * * * * * *
3547227 CTTATCACATTTATGCACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
3547274 CCTGTCACATATATACACTTTCACATTCA-CACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
3547320 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
3547367 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
3547414 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
3547461 CTTA
1 CTTA
3547465 CTATCATTTC
Statistics
Matches: 179, Mismatches: 11, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
46 40 0.22
47 139 0.78
ACGTcount: A:0.28, C:0.31, G:0.10, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:3554192 original size:45 final size:45
Alignment explanation
Indices: 3553982--3554183 Score: 305
Period size: 45 Copynumber: 4.5 Consensus size: 45
3553972 ACTAGAAACG
*
3553982 AGTAAGACCATGACTGAAAGACGTTATGGCATCACTATTCTATCA
1 AGTAAGACCATGATTGAAAGACGTTATGGCATCACTATTCTATCA
* * * * *
3554027 AGTAAGACCACGACTAAAAGAAGTTATGGCATCACTATTCTGTCA
1 AGTAAGACCATGATTGAAAGACGTTATGGCATCACTATTCTATCA
* * *
3554072 AGTAAGACCATAATTGAAAGACGTTATGGCATTACTATTCTATCG
1 AGTAAGACCATGATTGAAAGACGTTATGGCATCACTATTCTATCA
*
3554117 AGTAAGACCATGATTGAAAGACGTTATGGCATCACTATTTTATCA
1 AGTAAGACCATGATTGAAAGACGTTATGGCATCACTATTCTATCA
*
3554162 AGTAAGACCATGGTTGAAAGAC
1 AGTAAGACCATGATTGAAAGAC
3554184 ACCATGGCAC
Statistics
Matches: 140, Mismatches: 17, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
45 140 1.00
ACGTcount: A:0.37, C:0.17, G:0.19, T:0.27
Consensus pattern (45 bp):
AGTAAGACCATGATTGAAAGACGTTATGGCATCACTATTCTATCA
Found at i:3555085 original size:20 final size:20
Alignment explanation
Indices: 3555060--3555101 Score: 75
Period size: 20 Copynumber: 2.1 Consensus size: 20
3555050 AAGCTAAAGT
3555060 TGCAATGAAAAGTAAGTAAA
1 TGCAATGAAAAGTAAGTAAA
*
3555080 TGCAATGGAAAGTAAGTAAA
1 TGCAATGAAAAGTAAGTAAA
3555100 TG
1 TG
3555102 GAAGGGTTCA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.50, C:0.05, G:0.24, T:0.21
Consensus pattern (20 bp):
TGCAATGAAAAGTAAGTAAA
Found at i:3557064 original size:42 final size:42
Alignment explanation
Indices: 3556993--3557159 Score: 201
Period size: 42 Copynumber: 4.0 Consensus size: 42
3556983 AGAGCACAAC
* * ** *
3556993 CACTCAAGCTCACAT-GGGAGCTTTACTGATACACAACTTGT
1 CACTTAAGCTCATATGGGGAGCTTCGCTGATACACAACTTAT
* *
3557034 CACTTAAGCTCATTTGGGGAGCATCGCTGATACACAACTTAT
1 CACTTAAGCTCATATGGGGAGCTTCGCTGATACACAACTTAT
* * * *
3557076 CATTTAAGCTCATATGGGGAGTTTCACTAATACACAACTTAT
1 CACTTAAGCTCATATGGGGAGCTTCGCTGATACACAACTTAT
* * *
3557118 CACTTCAGCTCATGTGGGGAGCTTCGTTGATACACAACTTAT
1 CACTTAAGCTCATATGGGGAGCTTCGCTGATACACAACTTAT
3557160 AAAACTGTTT
Statistics
Matches: 105, Mismatches: 20, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
41 12 0.11
42 93 0.89
ACGTcount: A:0.29, C:0.23, G:0.18, T:0.30
Consensus pattern (42 bp):
CACTTAAGCTCATATGGGGAGCTTCGCTGATACACAACTTAT
Found at i:3557121 original size:84 final size:83
Alignment explanation
Indices: 3556998--3557159 Score: 236
Period size: 84 Copynumber: 1.9 Consensus size: 83
3556988 ACAACCACTC
* * *
3556998 AAGCTCACATGGGAGCTTTACTGATACACAACTTGTCACTTAAGCTCATTTGGGGAGCATCGCTG
1 AAGCTCACATGGGAGCTTTACTAATACACAACTTATCACTTAAGCTCATGTGGGGAGCATCGCTG
3557063 ATACACAACTTATCATTT
66 ATACACAACTTATCATTT
* * * *
3557081 AAGCTCATATGGGGAG-TTTCACTAATACACAACTTATCACTTCAGCTCATGTGGGGAGCTTCGT
1 AAGCTCACAT-GGGAGCTTT-ACTAATACACAACTTATCACTTAAGCTCATGTGGGGAGCATCGC
3557145 TGATACACAACTTAT
64 TGATACACAACTTAT
3557160 AAAACTGTTT
Statistics
Matches: 70, Mismatches: 7, Indels: 3
0.88 0.09 0.04
Matches are distributed among these distances:
83 12 0.17
84 58 0.83
ACGTcount: A:0.29, C:0.22, G:0.19, T:0.30
Consensus pattern (83 bp):
AAGCTCACATGGGAGCTTTACTAATACACAACTTATCACTTAAGCTCATGTGGGGAGCATCGCTG
ATACACAACTTATCATTT
Found at i:3564333 original size:190 final size:190
Alignment explanation
Indices: 3564008--3564387 Score: 670
Period size: 190 Copynumber: 2.0 Consensus size: 190
3563998 TGATTGAAAA
* * *
3564008 CTATTGTTGTAAGCGAATTCAATCAAGGGTACATACCGTTCCCATGAACTACTGAACTCGAGGAT
1 CTATTGTTGTAAGCGAATTCAATCAAAGGTAAATACCGTTCCCAGGAACTACTGAACTCGAGGAT
* *
3564073 GCAACATCTCAACATATCCTCAAGTATCTGAATTATCCGCTCGGATTGACCATCGGTTTGTGGAT
66 GCAACATCTCAACATATCCTCAAGTATCTGAATTATCCGCTCAGATTGACCATCGGTTTGGGGAT
* *
3564138 GAAAAGCGGTGCTAAAATGCAGCTTGGTACCCAAAGCTTCTTGCAATTTCTTCCAAAATC
131 GAAAAGCAGTGCTAAAATGCAGCTTGGTACCCAAAGCTTCTTGCAATTTCCTCCAAAATC
*
3564198 CTATTGTTGTAAGCTAATTCAATCAAAGGTAAATACCGTTCCCAGGAACTACTGAACTCGAGGAT
1 CTATTGTTGTAAGCGAATTCAATCAAAGGTAAATACCGTTCCCAGGAACTACTGAACTCGAGGAT
* *
3564263 GCAACATCTCAACATATCCTCAAGTATCTGAATTATCCGCTTAGATTGACCATCGGTTTGGGGGT
66 GCAACATCTCAACATATCCTCAAGTATCTGAATTATCCGCTCAGATTGACCATCGGTTTGGGGAT
3564328 GAAAAGCAGTGCTAAAATGCAGCTTGGTACCCAAAGCTTCTTGCAATTTCCTCCAAAATC
131 GAAAAGCAGTGCTAAAATGCAGCTTGGTACCCAAAGCTTCTTGCAATTTCCTCCAAAATC
3564388 GTGAGGTGAA
Statistics
Matches: 180, Mismatches: 10, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
190 180 1.00
ACGTcount: A:0.30, C:0.23, G:0.19, T:0.28
Consensus pattern (190 bp):
CTATTGTTGTAAGCGAATTCAATCAAAGGTAAATACCGTTCCCAGGAACTACTGAACTCGAGGAT
GCAACATCTCAACATATCCTCAAGTATCTGAATTATCCGCTCAGATTGACCATCGGTTTGGGGAT
GAAAAGCAGTGCTAAAATGCAGCTTGGTACCCAAAGCTTCTTGCAATTTCCTCCAAAATC
Found at i:3564459 original size:66 final size:66
Alignment explanation
Indices: 3564378--3564512 Score: 252
Period size: 66 Copynumber: 2.0 Consensus size: 66
3564368 TTGCAATTTC
*
3564378 CTCCAAAATCGTGAGGTGAATCTCGGATCTCTATCCGACACGATAGAAATAGGTACCCCGTGTAA
1 CTCCAAAATCGTGAGGTGAATCTCGAATCTCTATCCGACACGATAGAAATAGGTACCCCGTGTAA
3564443 T
66 T
*
3564444 CTCCAAAATCGTGAGGTGAATCTCGAATCTCTATCCGACACGATAGAAATAGGTACCCTGTGTAA
1 CTCCAAAATCGTGAGGTGAATCTCGAATCTCTATCCGACACGATAGAAATAGGTACCCCGTGTAA
3564509 T
66 T
3564510 CTC
1 CTC
3564513 ACAATCTGAG
Statistics
Matches: 67, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
66 67 1.00
ACGTcount: A:0.30, C:0.24, G:0.20, T:0.25
Consensus pattern (66 bp):
CTCCAAAATCGTGAGGTGAATCTCGAATCTCTATCCGACACGATAGAAATAGGTACCCCGTGTAA
T
Found at i:3566686 original size:321 final size:321
Alignment explanation
Indices: 3566098--3566739 Score: 1158
Period size: 321 Copynumber: 2.0 Consensus size: 321
3566088 GCCCGATCTC
3566098 AAATCTATTTTTGAGAACACTGAGGCTCCTTTTAGTTGATCAAACAAATCATCAATACGCGGTAA
1 AAATCTATTTTTGAGAACACTGAGGCTCCTTTTAGTTGATCAAACAAATCATCAATACGCGGTAA
3566163 CGGATATTTATTCTTTATCGTCACTTTATTCAGTTGACGATAATCAATGCACAACCTCATGGTTC
66 CGGATATTTATTCTTTATCGTCACTTTATTCAGTTGACGATAATCAATGCACAACCTCATGGTTC
* *
3566228 CGTCCTTCTTTTTCACGAACAATACTGGTGCACCCCAAGGTGAGAAACTTGGTCGAGCGAAACCT
131 CGTCCTTCTTTTTCACGAACAATACTAGTGCACCCCAAGGTGAGAAACTTGGTCGAGCAAAACCT
* *
3566293 CTATCCGTCAACTCTTGCAATTGAGCTTTCAATTCCTTTAACTCGGTTAGTGCCATACGATACGG
196 CTATCCGTCAACTCTTGCAACTGAGCTTTCAACTCCTTTAACTCGGTTAGTGCCATACGATACGG
* *
3566358 AGCTATCGAAATTGGCGTAGTTCCAGGTACAAGCTCAATACCAAACTCTATCTCCCGAACA
261 AGCTATCGAAATCGGCGTAGTCCCAGGTACAAGCTCAATACCAAACTCTATCTCCCGAACA
3566419 AAATCTATTTTTGAGAACACTGAGGCTCCTTTTAGTTGATCAAACAAATCATCAATACGCGGTAA
1 AAATCTATTTTTGAGAACACTGAGGCTCCTTTTAGTTGATCAAACAAATCATCAATACGCGGTAA
*
3566484 CGGATATTTATTCTTTATCGTCACTTTATTCAGTTGACGATAGTCAATGCACAACCTCATGGTTC
66 CGGATATTTATTCTTTATCGTCACTTTATTCAGTTGACGATAATCAATGCACAACCTCATGGTTC
*
3566549 CGTCCTTCTTTTTCATGAACAATACTAGTGCACCCCAAGGTGAGAAACTTGGTCGAGCAAAACCT
131 CGTCCTTCTTTTTCACGAACAATACTAGTGCACCCCAAGGTGAGAAACTTGGTCGAGCAAAACCT
* * * * *
3566614 CTATCCGTCAATTCTTGTAACTGAGCTTTCAACTCTTTTAACTCGGTTGGTGCCATGCGATACGG
196 CTATCCGTCAACTCTTGCAACTGAGCTTTCAACTCCTTTAACTCGGTTAGTGCCATACGATACGG
*
3566679 GGCTATCGAAATCGGCGTAGTCCCAGGTACAAGCTCAATACCAAACTCTATCTCCCGAACA
261 AGCTATCGAAATCGGCGTAGTCCCAGGTACAAGCTCAATACCAAACTCTATCTCCCGAACA
3566740 GGTGGTAAAC
Statistics
Matches: 307, Mismatches: 14, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
321 307 1.00
ACGTcount: A:0.28, C:0.24, G:0.17, T:0.30
Consensus pattern (321 bp):
AAATCTATTTTTGAGAACACTGAGGCTCCTTTTAGTTGATCAAACAAATCATCAATACGCGGTAA
CGGATATTTATTCTTTATCGTCACTTTATTCAGTTGACGATAATCAATGCACAACCTCATGGTTC
CGTCCTTCTTTTTCACGAACAATACTAGTGCACCCCAAGGTGAGAAACTTGGTCGAGCAAAACCT
CTATCCGTCAACTCTTGCAACTGAGCTTTCAACTCCTTTAACTCGGTTAGTGCCATACGATACGG
AGCTATCGAAATCGGCGTAGTCCCAGGTACAAGCTCAATACCAAACTCTATCTCCCGAACA
Found at i:3577490 original size:56 final size:56
Alignment explanation
Indices: 3577399--3577521 Score: 176
Period size: 55 Copynumber: 2.2 Consensus size: 56
3577389 GAGATTGGCG
* * *
3577399 CTAAGTGTGCGGGTTTAAATTGTACAGCACTAAGTGTGCGAGTTTGATTATGTAGCA
1 CTAAGTGTGCGAGTTTAAATTATACAGCACTAAGTGTGCGAG-TTGATTATATAGCA
* *
3577456 CTAAGTGTGCGAGTTT-GATTATATAGCACTAAGTGTGCGAGTTGATTATATAGCA
1 CTAAGTGTGCGAGTTTAAATTATACAGCACTAAGTGTGCGAGTTGATTATATAGCA
*
3577511 CTGAGTGTGCG
1 CTAAGTGTGCG
3577522 GACTTAATAT
Statistics
Matches: 60, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
55 23 0.38
56 22 0.37
57 15 0.25
ACGTcount: A:0.26, C:0.12, G:0.28, T:0.33
Consensus pattern (56 bp):
CTAAGTGTGCGAGTTTAAATTATACAGCACTAAGTGTGCGAGTTGATTATATAGCA
Found at i:3577508 original size:27 final size:28
Alignment explanation
Indices: 3577399--3577521 Score: 176
Period size: 28 Copynumber: 4.4 Consensus size: 28
3577389 GAGATTGGCG
* * * *
3577399 CTAAGTGTGCGGGTTTAAATTGTACAGCA
1 CTAAGTGTGCGAGTTT-GATTATATAGCA
*
3577428 CTAAGTGTGCGAGTTTGATTATGTAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
3577456 CTAAGTGTGCGAGTTTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
3577484 CTAAGTGTGCGAG-TTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
*
3577511 CTGAGTGTGCG
1 CTAAGTGTGCG
3577522 GACTTAATAT
Statistics
Matches: 87, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
27 24 0.28
28 48 0.55
29 15 0.17
ACGTcount: A:0.26, C:0.12, G:0.28, T:0.33
Consensus pattern (28 bp):
CTAAGTGTGCGAGTTTGATTATATAGCA
Found at i:3577532 original size:27 final size:27
Alignment explanation
Indices: 3577424--3577534 Score: 116
Period size: 28 Copynumber: 4.0 Consensus size: 27
3577414 TAAATTGTAC
* * *
3577424 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGA-CTTGAATATAT
* *
3577452 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGA-CTTGAATATAT
* *
3577480 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGACTTGAATATAT
*
3577507 AGCACTGAGTGTGCGGACTT-AATATAT
1 AGCACTAAGTGTGC-GACTTGAATATAT
3577534 A
1 A
3577535 CTTTTGAATC
Statistics
Matches: 77, Mismatches: 5, Indels: 3
0.91 0.06 0.04
Matches are distributed among these distances:
27 30 0.39
28 47 0.61
ACGTcount: A:0.29, C:0.12, G:0.26, T:0.33
Consensus pattern (27 bp):
AGCACTAAGTGTGCGACTTGAATATAT
Found at i:3593056 original size:351 final size:351
Alignment explanation
Indices: 3592413--3593114 Score: 1404
Period size: 351 Copynumber: 2.0 Consensus size: 351
3592403 AAATAATAAT
3592413 TGTAACTCCTTATATTGCCTTATATTAATAAACATGATAAATCAAGTATGTTATTACAACCATCT
1 TGTAACTCCTTATATTGCCTTATATTAATAAACATGATAAATCAAGTATGTTATTACAACCATCT
3592478 CATGATTGATCTTTGGGCATATTCTTACATATAAAAGATTAAGTGAGCTAACAAAGTATTTCTAC
66 CATGATTGATCTTTGGGCATATTCTTACATATAAAAGATTAAGTGAGCTAACAAAGTATTTCTAC
3592543 CTTGAAACAGTTTAATCACAATAATCTTGCAAGTTATGCAAGGCATATGTATCGCCAAATACAAT
131 CTTGAAACAGTTTAATCACAATAATCTTGCAAGTTATGCAAGGCATATGTATCGCCAAATACAAT
3592608 GCTAAATTAACTTCAGCTACCTTAGAAGAATAAACATTCACTGATTAAGTATTATGTCGATTAAT
196 GCTAAATTAACTTCAGCTACCTTAGAAGAATAAACATTCACTGATTAAGTATTATGTCGATTAAT
3592673 TACAATTTCAATACAATTTAATAATTAATTCATTACTTATCTAACAATTAATATTGCAATAATAA
261 TACAATTTCAATACAATTTAATAATTAATTCATTACTTATCTAACAATTAATATTGCAATAATAA
3592738 CTTAGGCATGATTTTACTTAATCAAG
326 CTTAGGCATGATTTTACTTAATCAAG
3592764 TGTAACTCCTTATATTGCCTTATATTAATAAACATGATAAATCAAGTATGTTATTACAACCATCT
1 TGTAACTCCTTATATTGCCTTATATTAATAAACATGATAAATCAAGTATGTTATTACAACCATCT
3592829 CATGATTGATCTTTGGGCATATTCTTACATATAAAAGATTAAGTGAGCTAACAAAGTATTTCTAC
66 CATGATTGATCTTTGGGCATATTCTTACATATAAAAGATTAAGTGAGCTAACAAAGTATTTCTAC
3592894 CTTGAAACAGTTTAATCACAATAATCTTGCAAGTTATGCAAGGCATATGTATCGCCAAATACAAT
131 CTTGAAACAGTTTAATCACAATAATCTTGCAAGTTATGCAAGGCATATGTATCGCCAAATACAAT
3592959 GCTAAATTAACTTCAGCTACCTTAGAAGAATAAACATTCACTGATTAAGTATTATGTCGATTAAT
196 GCTAAATTAACTTCAGCTACCTTAGAAGAATAAACATTCACTGATTAAGTATTATGTCGATTAAT
3593024 TACAATTTCAATACAATTTAATAATTAATTCATTACTTATCTAACAATTAATATTGCAATAATAA
261 TACAATTTCAATACAATTTAATAATTAATTCATTACTTATCTAACAATTAATATTGCAATAATAA
3593089 CTTAGGCATGATTTTACTTAATCAAG
326 CTTAGGCATGATTTTACTTAATCAAG
3593115 CATCTTACCG
Statistics
Matches: 351, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
351 351 1.00
ACGTcount: A:0.38, C:0.15, G:0.11, T:0.36
Consensus pattern (351 bp):
TGTAACTCCTTATATTGCCTTATATTAATAAACATGATAAATCAAGTATGTTATTACAACCATCT
CATGATTGATCTTTGGGCATATTCTTACATATAAAAGATTAAGTGAGCTAACAAAGTATTTCTAC
CTTGAAACAGTTTAATCACAATAATCTTGCAAGTTATGCAAGGCATATGTATCGCCAAATACAAT
GCTAAATTAACTTCAGCTACCTTAGAAGAATAAACATTCACTGATTAAGTATTATGTCGATTAAT
TACAATTTCAATACAATTTAATAATTAATTCATTACTTATCTAACAATTAATATTGCAATAATAA
CTTAGGCATGATTTTACTTAATCAAG
Found at i:3594011 original size:56 final size:59
Alignment explanation
Indices: 3593945--3594061 Score: 150
Period size: 64 Copynumber: 1.9 Consensus size: 59
3593935 TTGGACCATC
3593945 TTAGGCTGGAAA-T-AAATTT-TCCTCGATTTTATTCTTGGAGCATTGTTTGCCAAATT
1 TTAGGCTGGAAATTCAAATTTCTCCTCGATTTTATTCTTGGAGCATTGTTTGCCAAATT
* *
3594001 TTAGGTTGGAAATTTGCTTCAAATTTCTTCTCGATTTTATTCTTGGAGCATTGTTTGCCAA
1 TTAGGCTGGAAA-----TTCAAATTTCTCCTCGATTTTATTCTTGGAGCATTGTTTGCCAA
3594062 GCCAATTTTC
Statistics
Matches: 51, Mismatches: 2, Indels: 8
0.84 0.03 0.13
Matches are distributed among these distances:
56 11 0.22
62 1 0.02
63 6 0.12
64 33 0.65
ACGTcount: A:0.23, C:0.15, G:0.18, T:0.44
Consensus pattern (59 bp):
TTAGGCTGGAAATTCAAATTTCTCCTCGATTTTATTCTTGGAGCATTGTTTGCCAAATT
Found at i:3606697 original size:40 final size:40
Alignment explanation
Indices: 3606597--3606861 Score: 286
Period size: 40 Copynumber: 6.7 Consensus size: 40
3606587 GCTCCTCGTT
* * * *
3606597 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* **
3606637 C-AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* *
3606676 CGAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* *
3606716 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * *
3606756 CAAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGG-ATTTAGTAACTCGCA
** * * * *
3606796 CAAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
*
3606837 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
3606862 CAGCATTCAA
Statistics
Matches: 197, Mismatches: 22, Indels: 12
0.85 0.10 0.05
Matches are distributed among these distances:
39 39 0.20
40 143 0.73
41 15 0.08
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:3606821 original size:80 final size:80
Alignment explanation
Indices: 3606564--3606861 Score: 263
Period size: 80 Copynumber: 3.7 Consensus size: 80
3606554 AAATCACGTA
* ** * * *
3606564 CCTTCGGGATTTAA-CCGGATATAGCTC-CTCGTTCAAATGCCTTCGGGACATAGCCCGG-TTTT
1 CCTTCGGGACTTAACCCGGATATAG-TCACTCGCACAAA-GCCTTCGGGACTTAACCCGGAATTT
* *
3606626 AGTAACTCACAC-AATG
64 AATAACTCGCACAAATG
* * * *
3606642 CCTTCGGGACATAACCCGGATTTA-ACAACTCGCACGAATGCCTTCGGGACTTAACCCGG-ATTT
1 CCTTCGGGACTTAACCCGGATATAGTC-ACTCGCAC-AAAGCCTTCGGGACTTAACCCGGAATTT
*
3606705 AATAACTCGCACGAATG
64 AATAACTCGCACAAATG
* *
3606722 CCTTCGGGACTTAACCCGGATTTAGT-ATCTCGCACAAAGGCCTTCGGGGCTTAACCCGGAATTT
1 CCTTCGGGACTTAACCCGGATATAGTCA-CTCGCACAAA-GCCTTCGGGACTTAACCCGGAATTT
* *
3606786 -GTATCTCGCACAAATG
64 AATAACTCGCACAAATG
** * * *
3606802 CCTTC-GGATCTTAGTCCGGATATATTCACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
1 CCTTCGGGA-CTTAACCCGGATATAGTCAC-TCGCACAAAGCCTTCGGGACTTAACCCGGA
3606862 CAGCATTCAA
Statistics
Matches: 182, Mismatches: 26, Indels: 22
0.79 0.11 0.10
Matches are distributed among these distances:
77 1 0.01
78 12 0.07
79 50 0.27
80 106 0.58
81 13 0.07
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.26
Consensus pattern (80 bp):
CCTTCGGGACTTAACCCGGATATAGTCACTCGCACAAAGCCTTCGGGACTTAACCCGGAATTTAA
TAACTCGCACAAATG
Found at i:3606870 original size:41 final size:41
Alignment explanation
Indices: 3606793--3606870 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
3606783 TTTGTATCTC
* * *
3606793 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
3606834 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
3606871 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:3615959 original size:24 final size:24
Alignment explanation
Indices: 3615932--3616025 Score: 109
Period size: 24 Copynumber: 3.9 Consensus size: 24
3615922 TTTACTGCAA
* *
3615932 TATTGAGTGGTTTGTCCACAACGT
1 TATTGAGTGGCTTGACCACAACGT
* *
3615956 TATT-AGGTGGCTTGGCCACAAAGT
1 TATTGA-GTGGCTTGACCACAACGT
*
3615980 TATTGAGTGGCTTGACCACAACAT
1 TATTGAGTGGCTTGACCACAACGT
**
3616004 TATTGAGTTACTTGACCACAAC
1 TATTGAGTGGCTTGACCACAAC
3616026 ATGCAACTTG
Statistics
Matches: 60, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
23 1 0.02
24 58 0.97
25 1 0.02
ACGTcount: A:0.27, C:0.19, G:0.22, T:0.32
Consensus pattern (24 bp):
TATTGAGTGGCTTGACCACAACGT
Found at i:3616071 original size:24 final size:24
Alignment explanation
Indices: 3616040--3616137 Score: 92
Period size: 24 Copynumber: 4.1 Consensus size: 24
3616030 AACTTGTCTG
*
3616040 CATT-TTGAGTGGCTTGGCCACAA
1 CATTATTGAGTGGCTTGACCACAA
*
3616063 CATTATTGAATGGCTTGACCACAA
1 CATTATTGAGTGGCTTGACCACAA
* * * **
3616087 TGA-TATTGAGTGCCTTGGCCACTG
1 -CATTATTGAGTGGCTTGACCACAA
* *
3616111 CGTTATTGACTGGCTTGACCACAA
1 CATTATTGAGTGGCTTGACCACAA
3616135 CAT
1 CAT
3616138 ACAGCTTGTC
Statistics
Matches: 56, Mismatches: 16, Indels: 5
0.73 0.21 0.06
Matches are distributed among these distances:
23 4 0.07
24 51 0.91
25 1 0.02
ACGTcount: A:0.24, C:0.22, G:0.22, T:0.31
Consensus pattern (24 bp):
CATTATTGAGTGGCTTGACCACAA
Found at i:3616128 original size:110 final size:110
Alignment explanation
Indices: 3615934--3616148 Score: 261
Period size: 110 Copynumber: 2.0 Consensus size: 110
3615924 TACTGCAATA
* * * * * * *
3615934 TTGAGTGGTTTGTCCACAACGTTATTAGGTGGCTTGGCCACAAAGTTATTGAGTGGCTTGACCAC
1 TTGAGTGGCTTGGCCACAACATTATTAGATGGCTTGACCACAAAGATATTGAGTGCCTTGACCAC
* * *
3615999 AACATTATTGAGTTACTTGACCACAACATGCAACTTGTCTGCATT
66 AACATTATTGACTGACTTGACCACAACATACAACTTGTCTGCATT
* *
3616044 TTGAGTGGCTTGGCCACAACATTATT-GAATGGCTTGACCACAATGATATTGAGTGCCTTGGCCA
1 TTGAGTGGCTTGGCCACAACATTATTAG-ATGGCTTGACCACAAAGATATTGAGTGCCTTGACCA
** * * *
3616108 CTGCGTTATTGACTGGCTTGACCACAACATACAGCTTGTCT
65 CAACATTATTGACTGACTTGACCACAACATACAACTTGTCT
3616149 ACAACATTGA
Statistics
Matches: 87, Mismatches: 17, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
109 1 0.01
110 86 0.99
ACGTcount: A:0.25, C:0.21, G:0.22, T:0.32
Consensus pattern (110 bp):
TTGAGTGGCTTGGCCACAACATTATTAGATGGCTTGACCACAAAGATATTGAGTGCCTTGACCAC
AACATTATTGACTGACTTGACCACAACATACAACTTGTCTGCATT
Found at i:3623474 original size:6 final size:6
Alignment explanation
Indices: 3623463--3623492 Score: 60
Period size: 6 Copynumber: 5.0 Consensus size: 6
3623453 CAACCTTTCC
3623463 ACACGT ACACGT ACACGT ACACGT ACACGT
1 ACACGT ACACGT ACACGT ACACGT ACACGT
3623493 TGCTTCGACC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.33, C:0.33, G:0.17, T:0.17
Consensus pattern (6 bp):
ACACGT
Found at i:3630698 original size:45 final size:45
Alignment explanation
Indices: 3630649--3630863 Score: 297
Period size: 45 Copynumber: 4.8 Consensus size: 45
3630639 ACCAAAAACT
* * * *
3630649 AGTAAGACCATGACTGAAAGACGTTATGTCATCACGATTATATTG
1 AGTAAGACCATGACTAAAAGACGTTATGGCATCACGATTCTATCG
* * * *
3630694 AGTAAGACCATGATTGAAAGACATTATGGCATCACGATTGTATCG
1 AGTAAGACCATGACTAAAAGACGTTATGGCATCACGATTCTATCG
** * * *
3630739 AGTAATTCCATGACTTAAAGACATTATGGCATCACGATTCTATCA
1 AGTAAGACCATGACTAAAAGACGTTATGGCATCACGATTCTATCG
3630784 AGTAAGACCATGACTAAAAGACGTTATGGCATCACGATTCTATCG
1 AGTAAGACCATGACTAAAAGACGTTATGGCATCACGATTCTATCG
3630829 AGTAAGACCAT-AGCTAAAAGACGTTATGGCATCAC
1 AGTAAGACCATGA-CTAAAAGACGTTATGGCATCAC
3630864 AAATCAAATT
Statistics
Matches: 153, Mismatches: 16, Indels: 2
0.89 0.09 0.01
Matches are distributed among these distances:
44 1 0.01
45 152 0.99
ACGTcount: A:0.36, C:0.18, G:0.19, T:0.27
Consensus pattern (45 bp):
AGTAAGACCATGACTAAAAGACGTTATGGCATCACGATTCTATCG
Found at i:3630759 original size:90 final size:89
Alignment explanation
Indices: 3630649--3630907 Score: 304
Period size: 90 Copynumber: 2.9 Consensus size: 89
3630639 ACCAAAAACT
* *
3630649 AGTAAGACCATGACTGAAAGACGTTATGTCATCACGATTATATTGAGTAAGACCATGATTGAAAG
1 AGTAAGACCATGACTAAAAGACGTTATGGCATCACGATTATATT-AGTAAGACCATGATTGAAAG
*
3630714 ACATTATGGCATCACGATTGTATCG
65 ACATTATGGCATCACGATTCTATCG
** * * * * * *
3630739 AGTAATTCCATGACTTAAAGACATTATGGCATCACGATTCTATCAAGTAAGACCATGACTAAAAG
1 AGTAAGACCATGACTAAAAGACGTTATGGCATCACGATTATAT-TAGTAAGACCATGATTGAAAG
*
3630804 ACGTTATGGCATCACGATTCTATCG
65 ACATTATGGCATCACGATTCTATCG
* * * * * *
3630829 AGTAAGACCAT-AGCTAAAAGACGTTATGGCATCACAAATCAAATTAATAAGACTATGTTTGAAA
1 AGTAAGACCATGA-CTAAAAGACGTTATGGCATCAC-GATTATATTAGTAAGACCATGATTGAAA
*
3630893 GACACTATGGCATCA
64 GACATTATGGCATCA
3630908 AGACGAGAAT
Statistics
Matches: 139, Mismatches: 27, Indels: 6
0.81 0.16 0.03
Matches are distributed among these distances:
89 1 0.01
90 134 0.96
91 4 0.03
ACGTcount: A:0.38, C:0.17, G:0.18, T:0.27
Consensus pattern (89 bp):
AGTAAGACCATGACTAAAAGACGTTATGGCATCACGATTATATTAGTAAGACCATGATTGAAAGA
CATTATGGCATCACGATTCTATCG
Found at i:3630894 original size:135 final size:135
Alignment explanation
Indices: 3630649--3630907 Score: 308
Period size: 135 Copynumber: 1.9 Consensus size: 135
3630639 ACCAAAAACT
* * * * *
3630649 AGTAAGACCATGACTGAAAGACGTTATGTCATCACGATTATATTGAGTAAGACCATGATTGAAAG
1 AGTAAGACCATGACTAAAAGACGTTATGGCATCACGATTATATCGAGTAAGACCATGACTAAAAG
* *** * ** *
3630714 ACATTATGGCATCACGATTGTATCGAGTAATTCCATGACTTAAAGACATTATGGCATCACGATTC
66 ACATTATGGCATCACAATCAAATCGAATAAGACCATGACTTAAAGACACTATGGCATCACGATTC
3630779 TATCA
131 TATCA
*
3630784 AGTAAGACCATGACTAAAAGACGTTATGGCATCACGATTCTATCGAGTAAGACCAT-AGCTAAAA
1 AGTAAGACCATGACTAAAAGACGTTATGGCATCACGATTATATCGAGTAAGACCATGA-CTAAAA
* * * *
3630848 GACGTTATGGCATCACAAATCAAAT-TAATAAGACTATG-TTTGAAAGACACTATGGCATCA
65 GACATTATGGCATCAC-AATCAAATCGAATAAGACCATGACTT-AAAGACACTATGGCATCA
3630908 AGACGAGAAT
Statistics
Matches: 103, Mismatches: 18, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
134 3 0.03
135 96 0.93
136 4 0.04
ACGTcount: A:0.38, C:0.17, G:0.18, T:0.27
Consensus pattern (135 bp):
AGTAAGACCATGACTAAAAGACGTTATGGCATCACGATTATATCGAGTAAGACCATGACTAAAAG
ACATTATGGCATCACAATCAAATCGAATAAGACCATGACTTAAAGACACTATGGCATCACGATTC
TATCA
Found at i:3634268 original size:19 final size:18
Alignment explanation
Indices: 3634240--3634278 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 18
3634230 GGTGACCAAT
*
3634240 TTTTTCCTTTTTGCTTCC
1 TTTTTCCTTTTTGATTCC
3634258 TTTTTCTCTTTTTGATTCC
1 TTTTTC-CTTTTTGATTCC
3634277 TT
1 TT
3634279 AGTGATTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 6 0.32
19 13 0.68
ACGTcount: A:0.03, C:0.23, G:0.05, T:0.69
Consensus pattern (18 bp):
TTTTTCCTTTTTGATTCC
Found at i:3634324 original size:21 final size:20
Alignment explanation
Indices: 3634289--3634329 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 20
3634279 AGTGATTAAA
* *
3634289 ACTTATTTTTTATTTCTTTC
1 ACTTATTTATTATTTATTTC
3634309 ACTTATTTGATTATTTATTTC
1 ACTTATTT-ATTATTTATTTC
3634330 TAGATCACTC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 8 0.44
21 10 0.56
ACGTcount: A:0.20, C:0.12, G:0.02, T:0.66
Consensus pattern (20 bp):
ACTTATTTATTATTTATTTC
Found at i:3636972 original size:50 final size:50
Alignment explanation
Indices: 3636856--3637202 Score: 331
Period size: 50 Copynumber: 6.8 Consensus size: 50
3636846 GAATATAACA
* * * * * * *
3636856 TGCCAAAGCTATGTCCCAGACATAGTCTTACATGGGATGCT-TCTTGTA-C
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCATCTAGG
* * * * ** *
3636905 TGCCAATGCCATATCCCAAATATGGTCTTACATGAGAGTTCTCATATAGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTAGG
* ** *
3636955 TGCCCATGCCATGTCCCAGACATGGTCTTACGGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTAGG
* * * * *
3637005 TGCCAATGCCTTGTCTCAGACATGGTCTTACTTGGGACCTCTTATCTAGA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTAGG
*
3637055 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCA-G
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCT-AGG
* *
3637105 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATAATCTCAAAGA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTC---ATCT---AGG
* * * *
3637161 TGCCAATGCCATGTCCCAAACATGGTTTTACATAGGATCTCT
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
3637203 TTACCCAAAT
Statistics
Matches: 246, Mismatches: 43, Indels: 11
0.82 0.14 0.04
Matches are distributed among these distances:
48 2 0.01
49 35 0.14
50 166 0.67
51 1 0.00
53 4 0.02
55 1 0.00
56 37 0.15
ACGTcount: A:0.24, C:0.28, G:0.20, T:0.28
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTAGG
Found at i:3643053 original size:12 final size:13
Alignment explanation
Indices: 3643025--3643105 Score: 50
Period size: 12 Copynumber: 6.3 Consensus size: 13
3643015 GATACCGGTT
3643025 CACATAGTAGCCTA
1 CACATAGTA-CCTA
3643039 CACATAGTA-CTA
1 CACATAGTACCTA
3643051 CACAT-GTGACC-A
1 CACATAGT-ACCTA
3643063 TCAC-TA-T-CCGATA
1 -CACATAGTACC--TA
*
3643076 CACATAGTAGCCTG
1 CACATAGTA-CCTA
3643090 CACATAGTA-CTA
1 CACATAGTACCTA
3643102 CACA
1 CACA
3643106 CGTGATCGAA
Statistics
Matches: 54, Mismatches: 2, Indels: 24
0.68 0.03 0.30
Matches are distributed among these distances:
10 2 0.04
11 2 0.04
12 21 0.39
13 7 0.13
14 20 0.37
16 2 0.04
ACGTcount: A:0.36, C:0.30, G:0.12, T:0.22
Consensus pattern (13 bp):
CACATAGTACCTA
Found at i:3643083 original size:51 final size:51
Alignment explanation
Indices: 3643019--3643219 Score: 221
Period size: 51 Copynumber: 4.0 Consensus size: 51
3643009 ATTAATGATA
* * *
3643019 CCGGTTCACATAGTAGCCTACACATAGTACTACACATGTGACCATCACTAT
1 CCGGTACACATAGTAGCCTGCACATAGTACTACACACGTGACCATCACTAT
* *
3643070 CCGATACACATAGTAGCCTGCACATAGTACTACACACGTGATCGA--AGCTAT
1 CCGGTACACATAGTAGCCTGCACATAGTACTACACACGTGA-CCATCA-CTAT
* * * * *
3643121 CCGGTACGCACAGTAGCCCGCACATAGTACTACACATGCGACCTATCA-T-T
1 CCGGTACACATAGTAGCCTGCACATAGTACTACACACGTGACC-ATCACTAT
* ** *
3643171 CTGGTACATGTAGTAGCCTGCACCTAGTACTACACACGTGACCATCACT
1 CCGGTACACATAGTAGCCTGCACATAGTACTACACACGTGACCATCACT
3643220 TTCAGTTTCA
Statistics
Matches: 123, Mismatches: 21, Indels: 13
0.78 0.13 0.08
Matches are distributed among these distances:
49 4 0.03
50 38 0.31
51 78 0.63
52 2 0.02
53 1 0.01
ACGTcount: A:0.30, C:0.30, G:0.17, T:0.23
Consensus pattern (51 bp):
CCGGTACACATAGTAGCCTGCACATAGTACTACACACGTGACCATCACTAT
Found at i:3645887 original size:25 final size:25
Alignment explanation
Indices: 3645853--3645904 Score: 104
Period size: 25 Copynumber: 2.1 Consensus size: 25
3645843 TATGTCACCC
3645853 ACAATTTTACACAATTAATTTACTT
1 ACAATTTTACACAATTAATTTACTT
3645878 ACAATTTTACACAATTAATTTACTT
1 ACAATTTTACACAATTAATTTACTT
3645903 AC
1 AC
3645905 TCGAGTTCAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.40, C:0.17, G:0.00, T:0.42
Consensus pattern (25 bp):
ACAATTTTACACAATTAATTTACTT
Found at i:3647149 original size:61 final size:61
Alignment explanation
Indices: 3647047--3647190 Score: 157
Period size: 61 Copynumber: 2.4 Consensus size: 61
3647037 TAAACAGAGG
* * ** *
3647047 TTGCCACAAAGGTTGTCATTTTCATTTAGTACTCTCCACAAAAGCTTTAC-TATCCAGAGTT
1 TTGCCACAAAGGTTGTCCTTTACATCCAGTACTCTCAAC-AAAGCTTTACATATCCAGAGTT
* * * *
3647108 TTGCCACAAAGGTTGTCCTTTACATCCAGTTCTCGT-AACAAAGGTTTTCATGTCCAGAGTT
1 TTGCCACAAAGGTTGTCCTTTACATCCAGTACTC-TCAACAAAGCTTTACATATCCAGAGTT
* *
3647169 TTTCCATAAAGGTTGTCCTTTA
1 TTGCCACAAAGGTTGTCCTTTA
3647191 ACTGGTGTTT
Statistics
Matches: 70, Mismatches: 11, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
60 8 0.11
61 61 0.87
62 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.15, T:0.37
Consensus pattern (61 bp):
TTGCCACAAAGGTTGTCCTTTACATCCAGTACTCTCAACAAAGCTTTACATATCCAGAGTT
Found at i:3647441 original size:94 final size:94
Alignment explanation
Indices: 3647268--3647447 Score: 270
Period size: 94 Copynumber: 1.9 Consensus size: 94
3647258 GGGACACCAG
* * *
3647268 AGAACCCCATTAGGTAATAACCTTCCTTAAACTTTCTCATATGATGTCATAACCGACCAATTATG
1 AGAACCACATTAGGTAATAACCTTCCTTAAACTTTCTCATATGATGTCATAACCCACCAATTACG
* * * *
3647333 GTTTTACACGATATGGTCTTCTTTCCATA
66 ATCTTACACAATATGATCTTCTTTCCATA
* *
3647362 AGAACCACATTAGGTAATAACCTTCCTTAAATTTTCTCATATGATGTCATAACCCACCAATTGCG
1 AGAACCACATTAGGTAATAACCTTCCTTAAACTTTCTCATATGATGTCATAACCCACCAATTACG
*
3647427 ATCTTACATAATATGATCTTC
66 ATCTTACACAATATGATCTTC
3647448 AGCGCCATGG
Statistics
Matches: 76, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
94 76 1.00
ACGTcount: A:0.32, C:0.23, G:0.11, T:0.34
Consensus pattern (94 bp):
AGAACCACATTAGGTAATAACCTTCCTTAAACTTTCTCATATGATGTCATAACCCACCAATTACG
ATCTTACACAATATGATCTTCTTTCCATA
Found at i:3659055 original size:50 final size:50
Alignment explanation
Indices: 3658946--3659145 Score: 208
Period size: 50 Copynumber: 3.9 Consensus size: 50
3658936 ACATTTGGGT
* * *
3658946 GATGAGA--TCCCATGTAAGACCATGTTTGGAACATGGCATTGGCATCATTGA
1 GATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA-C--CGA
* *
3658997 GATTATGAGAGGTCCCATGTAAGACCATGTCTTGGATATGGCATTGGCACCGA
1 G---ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGA
* *
3659050 GATGAGAGGTCCC-TCGTAAGACCGTGTCTGGGACATGGCATGGGCACCGA
1 GATGAGAGGTCCCAT-GTAAGACCATGTCTGGGACATGGCATTGGCACCGA
* ** * *
3659100 TATGAGAACTCCCATGTAAGACCATATCTGGGATATGGCATTGGCA
1 GATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
3659146 GTACAAGAAA
Statistics
Matches: 126, Mismatches: 16, Indels: 15
0.80 0.10 0.10
Matches are distributed among these distances:
49 1 0.01
50 80 0.63
51 2 0.02
53 3 0.02
54 6 0.05
55 1 0.01
56 33 0.26
ACGTcount: A:0.27, C:0.20, G:0.28, T:0.24
Consensus pattern (50 bp):
GATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGA
Found at i:3663016 original size:50 final size:50
Alignment explanation
Indices: 3662907--3663106 Score: 208
Period size: 50 Copynumber: 3.9 Consensus size: 50
3662897 ACATTTGGGT
* * *
3662907 GATGAGA--TCCCATGTAAGACCATGTTTGGAACATGGCATTGGCATCATTGA
1 GATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA-C--CGA
* *
3662958 GATTATGAGAGGTCCCATGTAAGACCATGTCTTGGATATGGCATTGGCACCGA
1 G---ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGA
* *
3663011 GATGAGAGGTCCC-TCGTAAGACCGTGTCTGGGACATGGCATGGGCACCGA
1 GATGAGAGGTCCCAT-GTAAGACCATGTCTGGGACATGGCATTGGCACCGA
* ** * *
3663061 TATGAGAACTCCCATGTAAGACCATATCTGGGATATGGCATTGGCA
1 GATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
3663107 GTACAAGAAA
Statistics
Matches: 126, Mismatches: 16, Indels: 15
0.80 0.10 0.10
Matches are distributed among these distances:
49 1 0.01
50 80 0.63
51 2 0.02
53 3 0.02
54 6 0.05
55 1 0.01
56 33 0.26
ACGTcount: A:0.27, C:0.20, G:0.28, T:0.24
Consensus pattern (50 bp):
GATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGA
Found at i:3675534 original size:32 final size:32
Alignment explanation
Indices: 3675466--3675537 Score: 92
Period size: 32 Copynumber: 2.2 Consensus size: 32
3675456 TAGGTGTTTT
* * *
3675466 TGTTCACACCCAATGGACCGTCCAACTCCTGG
1 TGTTCACACCCAAAGAACCGTCCAACTCCTGA
*
3675498 TGTTCACACCCAAAGAACCGTCCAAGTCCAT-A
1 TGTTCACACCCAAAGAACCGTCCAACTCC-TGA
3675530 TGTTCACA
1 TGTTCACA
3675538 GCAAGGACTT
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
32 34 0.97
33 1 0.03
ACGTcount: A:0.28, C:0.35, G:0.15, T:0.22
Consensus pattern (32 bp):
TGTTCACACCCAAAGAACCGTCCAACTCCTGA
Found at i:3680474 original size:14 final size:14
Alignment explanation
Indices: 3680419--3680478 Score: 59
Period size: 14 Copynumber: 4.2 Consensus size: 14
3680409 AAAATGATTT
**
3680419 AATATATTTTTTTA
1 AATATATTTTAATA
*
3680433 AATTTATTATTACATA
1 AATATATT-TTA-ATA
*
3680449 AAT-TAATTTAATA
1 AATATATTTTAATA
3680462 AATATATTTTAATA
1 AATATATTTTAATA
3680476 AAT
1 AAT
3680479 TGAGAATTCT
Statistics
Matches: 38, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
13 6 0.16
14 22 0.58
15 5 0.13
16 5 0.13
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.52
Consensus pattern (14 bp):
AATATATTTTAATA
Found at i:3682803 original size:29 final size:29
Alignment explanation
Indices: 3682767--3682948 Score: 204
Period size: 29 Copynumber: 6.2 Consensus size: 29
3682757 AAAAGAAGCT
* * *
3682767 TTTGTGGTAATCTCTATGATAAGGAAGTC
1 TTTGTGGTGATCTCTATTATAAGTAAGTC
* *
3682796 TTTATGGTGATCTCTATTACAAGTAAG-C
1 TTTGTGGTGATCTCTATTATAAGTAAGTC
* *
3682824 ATTTGTGGTGATCTCTATTATACGTAAGCC
1 -TTTGTGGTGATCTCTATTATAAGTAAGTC
*
3682854 TTTGTGGTGATCTCTATTATAAGTAAGTA
1 TTTGTGGTGATCTCTATTATAAGTAAGTC
* *
3682883 TTTGTGGTGATCTCTGTTATAAGTAAGCC
1 TTTGTGGTGATCTCTATTATAAGTAAGTC
* * * * *
3682912 TTTGTCGCGGTCTCTATTATAAAGGAAGCC
1 TTTGTGGTGATCTCTATTAT-AAGTAAGTC
3682942 TTTGTGG
1 TTTGTGG
3682949 CCATCTCTGT
Statistics
Matches: 130, Mismatches: 20, Indels: 5
0.84 0.13 0.03
Matches are distributed among these distances:
28 1 0.01
29 114 0.88
30 15 0.12
ACGTcount: A:0.24, C:0.13, G:0.23, T:0.40
Consensus pattern (29 bp):
TTTGTGGTGATCTCTATTATAAGTAAGTC
Found at i:3682841 original size:58 final size:58
Alignment explanation
Indices: 3682762--3682973 Score: 199
Period size: 58 Copynumber: 3.6 Consensus size: 58
3682752 TTCTAAAAAG
* * *
3682762 AAGCTTTTGTGGTAATCTCTATGATAAGGAAGTCTTTATGGTGATCTCTATTACAAGT
1 AAGCATTTGTGGTGATCTCTATGATAAGGAAGCCTTTATGGTGATCTCTATTACAAGT
* * * * *
3682820 AAGCATTTGTGGTGATCTCTATTATACGTAAGCCTTTGTGGTGATCTCTATTATAAGT
1 AAGCATTTGTGGTGATCTCTATGATAAGGAAGCCTTTATGGTGATCTCTATTACAAGT
* * * * * * * * * *
3682878 AAGTATTTGTGGTGATCTCTGTTATAAGTAAGCCTTTGTCGCGGTCTCTATTATAAAGG
1 AAGCATTTGTGGTGATCTCTATGATAAGGAAGCCTTTATGGTGATCTCTATTA-CAAGT
* ** * * *
3682937 AAGCCTTTGTGGCCATCTCTGTTAAAAGGAAGCCTTT
1 AAGCATTTGTGGTGATCTCTATGATAAGGAAGCCTTT
3682974 GCGGCTATCT
Statistics
Matches: 131, Mismatches: 22, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
58 97 0.74
59 34 0.26
ACGTcount: A:0.25, C:0.15, G:0.22, T:0.39
Consensus pattern (58 bp):
AAGCATTTGTGGTGATCTCTATGATAAGGAAGCCTTTATGGTGATCTCTATTACAAGT
Found at i:3682867 original size:87 final size:88
Alignment explanation
Indices: 3682761--3682948 Score: 243
Period size: 87 Copynumber: 2.1 Consensus size: 88
3682751 TTTCTAAAAA
* *
3682761 GAAGCTTTTGTGGTAATCTCTATGATAAGGAAGTCTTTATGGTGATCTCTATTACAAGTAAGCAT
1 GAAGCCTTTGTGGTAATCTCTATGATAAGGAAGTATTTATGGTGATCTCTATTACAAGTAAGCAT
* * *
3682826 TTGTGGTGATCTCTATTAT-ACG
66 TTGTCGCGATCTCTATTATAAAG
* * * * * * * *
3682848 TAAGCCTTTGTGGTGATCTCTATTATAAGTAAGTATTTGTGGTGATCTCTGTTATAAGTAAGCCT
1 GAAGCCTTTGTGGTAATCTCTATGATAAGGAAGTATTTATGGTGATCTCTATTACAAGTAAGCAT
*
3682913 TTGTCGCGGTCTCTATTATAAAG
66 TTGTCGCGATCTCTATTATAAAG
3682936 GAAGCCTTTGTGG
1 GAAGCCTTTGTGG
3682949 CCATCTCTGT
Statistics
Matches: 85, Mismatches: 15, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
87 71 0.84
88 14 0.16
ACGTcount: A:0.24, C:0.13, G:0.23, T:0.39
Consensus pattern (88 bp):
GAAGCCTTTGTGGTAATCTCTATGATAAGGAAGTATTTATGGTGATCTCTATTACAAGTAAGCAT
TTGTCGCGATCTCTATTATAAAG
Found at i:3682974 original size:29 final size:29
Alignment explanation
Indices: 3682755--3682990 Score: 148
Period size: 29 Copynumber: 8.1 Consensus size: 29
3682745 TGGCTATTTC
* * ** *
3682755 TAAAAAGAAGCTTTTGTGGTAATCTCTAT
1 TAAAAGGAAGCCTTTGTGGCGATCTCTGT
* * * * * *
3682784 GATAAGGAAGTCTTTATGGTGATCTCTAT
1 TAAAAGGAAGCCTTTGTGGCGATCTCTGT
* * * * *
3682813 TACAAGTAAGCATTTGTGGTGATCTCTAT
1 TAAAAGGAAGCCTTTGTGGCGATCTCTGT
* * * * *
3682842 TATACGTAAGCCTTTGTGGTGATCTCTAT
1 TAAAAGGAAGCCTTTGTGGCGATCTCTGT
* * ** *
3682871 TATAAGTAAGTATTTGTGGTGATCTCTGT
1 TAAAAGGAAGCCTTTGTGGCGATCTCTGT
* * * * *
3682900 TATAAGTAAGCCTTTGTCGCGGTCTCTAT
1 TAAAAGGAAGCCTTTGTGGCGATCTCTGT
*
3682929 TATAAAGGAAGCCTTTGTGGCCATCTCTGT
1 TA-AAAGGAAGCCTTTGTGGCGATCTCTGT
* * *
3682959 TAAAAGGAAGCCTTTGCGGCTATCTCAGT
1 TAAAAGGAAGCCTTTGTGGCGATCTCTGT
3682988 TAA
1 TAA
3682991 TGCCTTTCTG
Statistics
Matches: 171, Mismatches: 35, Indels: 2
0.82 0.17 0.01
Matches are distributed among these distances:
29 148 0.87
30 23 0.13
ACGTcount: A:0.26, C:0.15, G:0.22, T:0.37
Consensus pattern (29 bp):
TAAAAGGAAGCCTTTGTGGCGATCTCTGT
Found at i:3685297 original size:21 final size:20
Alignment explanation
Indices: 3685259--3685297 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
3685249 TAAAGCCAAA
3685259 TAATTAGTCATTAAGCTATG
1 TAATTAGTCATTAAGCTATG
* *
3685279 TAATTTGTCTATTTAGCTA
1 TAATTAGTC-ATTAAGCTA
3685298 GCATATGTCA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 8 0.50
21 8 0.50
ACGTcount: A:0.31, C:0.10, G:0.13, T:0.46
Consensus pattern (20 bp):
TAATTAGTCATTAAGCTATG
Found at i:3691001 original size:14 final size:14
Alignment explanation
Indices: 3690977--3691017 Score: 59
Period size: 12 Copynumber: 3.0 Consensus size: 14
3690967 ATAACATGCT
3690977 ATTATTTTTTATAAC
1 ATTA-TTTTTATAAC
3690992 ATTATTTTTATAA-
1 ATTATTTTTATAAC
3691005 ATT-TTTTTATAAC
1 ATTATTTTTATAAC
3691018 CTTAATTTTC
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
12 9 0.36
13 3 0.12
14 9 0.36
15 4 0.16
ACGTcount: A:0.34, C:0.05, G:0.00, T:0.61
Consensus pattern (14 bp):
ATTATTTTTATAAC
Found at i:3692760 original size:73 final size:73
Alignment explanation
Indices: 3692674--3692821 Score: 296
Period size: 73 Copynumber: 2.0 Consensus size: 73
3692664 GTGAATGCAT
3692674 AAGAGACCATCGGCCATGTCTAGGTTCGGCCAAAGGGTGAATGGTGGTCCCTCCAATAGATGCCT
1 AAGAGACCATCGGCCATGTCTAGGTTCGGCCAAAGGGTGAATGGTGGTCCCTCCAATAGATGCCT
3692739 CTTGGCCG
66 CTTGGCCG
3692747 AAGAGACCATCGGCCATGTCTAGGTTCGGCCAAAGGGTGAATGGTGGTCCCTCCAATAGATGCCT
1 AAGAGACCATCGGCCATGTCTAGGTTCGGCCAAAGGGTGAATGGTGGTCCCTCCAATAGATGCCT
3692812 CTTGGCCG
66 CTTGGCCG
3692820 AA
1 AA
3692822 TAAACACATA
Statistics
Matches: 75, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
73 75 1.00
ACGTcount: A:0.23, C:0.26, G:0.30, T:0.22
Consensus pattern (73 bp):
AAGAGACCATCGGCCATGTCTAGGTTCGGCCAAAGGGTGAATGGTGGTCCCTCCAATAGATGCCT
CTTGGCCG
Found at i:3694213 original size:12 final size:12
Alignment explanation
Indices: 3694196--3694250 Score: 51
Period size: 12 Copynumber: 4.4 Consensus size: 12
3694186 GTGCTCTCGA
3694196 TCTTTCTTTTCT
1 TCTTTCTTTTCT
3694208 TCTTTCTTTCTCAT
1 TCTTTCTTT-TC-T
*
3694222 T-TTTATTTTCT
1 TCTTTCTTTTCT
3694233 T-TTTCATTTTCT
1 TCTTTC-TTTTCT
3694245 CTCTTT
1 -TCTTT
3694251 TGTTCCATAG
Statistics
Matches: 36, Mismatches: 2, Indels: 8
0.78 0.04 0.17
Matches are distributed among these distances:
11 5 0.14
12 17 0.47
13 9 0.25
14 5 0.14
ACGTcount: A:0.05, C:0.22, G:0.00, T:0.73
Consensus pattern (12 bp):
TCTTTCTTTTCT
Found at i:3697789 original size:40 final size:40
Alignment explanation
Indices: 3697752--3697882 Score: 140
Period size: 40 Copynumber: 3.3 Consensus size: 40
3697742 GCTACTCGTT
*
3697752 CAAATGCCTTCGAAACATATCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGAAACATAACCCGGATT-TAGTAACTCGCA
* ** *
3697792 CAATTGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGAAACATAACCCGGATTTAGTAACTCGCA
** * * * *
3697832 CAAATGCCTTCG-GGCTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGAAACATAACCCGGATTTAGTAACTCGCA
3697871 CAAATGCCTTCG
1 CAAATGCCTTCG
3697883 GATCTTAGTC
Statistics
Matches: 80, Mismatches: 10, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
39 35 0.44
40 43 0.54
41 2 0.03
ACGTcount: A:0.27, C:0.28, G:0.19, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGAAACATAACCCGGATTTAGTAACTCGCA
Found at i:3697863 original size:79 final size:80
Alignment explanation
Indices: 3697780--3697936 Score: 203
Period size: 79 Copynumber: 2.0 Consensus size: 80
3697770 ATCCCGGTTA
* * *
3697780 TAGTAACTCGCACAATTGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCACAAATGCCTTC
1 TAGTAACTCGCACAAATGCCTTC-GGATCTTAACCCGGATATAGTAACTTAGCACAAA-GCCTTC
3697843 GGG-CTTAGCCCGGAAT
64 GGGACTTAGCCCGGAAT
* ** * *
3697859 TAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCGGATATGGTCACTTAGCACAAAGCCTTCGG
1 TAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGATATAGTAACTTAGCACAAAGCCTTCGG
3697924 GACTTAGCCCGGA
66 GACTTAGCCCGGA
3697937 CATCATTCAA
Statistics
Matches: 67, Mismatches: 8, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
78 3 0.04
79 45 0.67
80 19 0.28
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.25
Consensus pattern (80 bp):
TAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGATATAGTAACTTAGCACAAAGCCTTCGG
GACTTAGCCCGGAAT
Found at i:3697869 original size:39 final size:40
Alignment explanation
Indices: 3697780--3697936 Score: 187
Period size: 40 Copynumber: 4.0 Consensus size: 40
3697770 ATCCCGGTTA
* * *
3697780 TAGTAACTCGCACAATTGCCTTCGGGACTTAACCCGGATT
1 TAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAAT
3697820 TAGTAACTCGCACAAATGCCTTCGGG-CTTAGCCCGGAAT
1 TAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAAT
* *
3697859 TAGTATCTCGCACAAATGCCTTC-GGATCTTAGTCCGG-AT
1 TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGCCCGGAAT
* * *
3697898 ATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGCCCGGA
1 -TAGTAAC-TCGCACAAATGCCTTCGGGACTTAGCCCGGA
3697937 CATCATTCAA
Statistics
Matches: 101, Mismatches: 10, Indels: 11
0.83 0.08 0.09
Matches are distributed among these distances:
38 2 0.02
39 35 0.35
40 53 0.52
41 11 0.11
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
TAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAAT
Found at i:3704263 original size:148 final size:148
Alignment explanation
Indices: 3704070--3704364 Score: 572
Period size: 148 Copynumber: 2.0 Consensus size: 148
3704060 TTACAGCTGC
3704070 TGTCAGATTCTGTTTTATGGCAAATTTCACTTTACTAAGGATTTTCATGGACTAAATAGCATTTT
1 TGTCAGATTCTGTTTTATGGCAAATTTCACTTTACTAAGGATTTTCATGGACTAAATAGCATTTT
*
3704135 AAACATACATAACATCAAATATGACTTAGATTGGCGATTCAAATGGCTAATCATTTACAAACCCT
66 AAACATACATAACATCAAATATGACTTAGATTGGCCATTCAAATGGCTAATCATTTACAAACCCT
3704200 TTTCTTACCAAACCATAT
131 TTTCTTACCAAACCATAT
3704218 TGTCAGATTCTGTTTTATGGCAAATTTCACTTTACTAAGGATTTTCATGGACTAAATAGCATTTT
1 TGTCAGATTCTGTTTTATGGCAAATTTCACTTTACTAAGGATTTTCATGGACTAAATAGCATTTT
*
3704283 AAACATACATAACATCAAATATGACTTAGATTGGCCATTCCAATGGCTAATCATTTACAAACCCT
66 AAACATACATAACATCAAATATGACTTAGATTGGCCATTCAAATGGCTAATCATTTACAAACCCT
3704348 TTTCTTACCAAACCATA
131 TTTCTTACCAAACCATA
3704365 GCCATATCAT
Statistics
Matches: 145, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
148 145 1.00
ACGTcount: A:0.34, C:0.19, G:0.11, T:0.36
Consensus pattern (148 bp):
TGTCAGATTCTGTTTTATGGCAAATTTCACTTTACTAAGGATTTTCATGGACTAAATAGCATTTT
AAACATACATAACATCAAATATGACTTAGATTGGCCATTCAAATGGCTAATCATTTACAAACCCT
TTTCTTACCAAACCATAT
Found at i:3704654 original size:44 final size:44
Alignment explanation
Indices: 3704591--3704808 Score: 436
Period size: 44 Copynumber: 5.0 Consensus size: 44
3704581 TAATCACAAT
3704591 ATCTCACATAAAACATCATTTGCATAAACAACACCAAGACATCA
1 ATCTCACATAAAACATCATTTGCATAAACAACACCAAGACATCA
3704635 ATCTCACATAAAACATCATTTGCATAAACAACACCAAGACATCA
1 ATCTCACATAAAACATCATTTGCATAAACAACACCAAGACATCA
3704679 ATCTCACATAAAACATCATTTGCATAAACAACACCAAGACATCA
1 ATCTCACATAAAACATCATTTGCATAAACAACACCAAGACATCA
3704723 ATCTCACATAAAACATCATTTGCATAAACAACACCAAGACATCA
1 ATCTCACATAAAACATCATTTGCATAAACAACACCAAGACATCA
3704767 ATCTCACATAAAACATCATTTGCATAAACAACACCAAGACAT
1 ATCTCACATAAAACATCATTTGCATAAACAACACCAAGACAT
3704809 TCATGTTTCA
Statistics
Matches: 174, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 174 1.00
ACGTcount: A:0.48, C:0.27, G:0.05, T:0.21
Consensus pattern (44 bp):
ATCTCACATAAAACATCATTTGCATAAACAACACCAAGACATCA
Found at i:3705538 original size:57 final size:57
Alignment explanation
Indices: 3705476--3705589 Score: 192
Period size: 57 Copynumber: 2.0 Consensus size: 57
3705466 GACTCAACTC
* * *
3705476 AACGAGCTCTGATGCCTAGTTACATCTCATGAACTCGGACTCAAGTCAACGAGTTCG
1 AACGAGCTCGGATGCCTAGTTACATCTCACGAACTCGGACTCAACTCAACGAGTTCG
*
3705533 AACGAGCTCGGATGCCTAGTTACATCTCACGAACTCGGACTCTACTCAACGAGTTCG
1 AACGAGCTCGGATGCCTAGTTACATCTCACGAACTCGGACTCAACTCAACGAGTTCG
3705590 GAACTCAACC
Statistics
Matches: 53, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
57 53 1.00
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (57 bp):
AACGAGCTCGGATGCCTAGTTACATCTCACGAACTCGGACTCAACTCAACGAGTTCG
Found at i:3705746 original size:76 final size:76
Alignment explanation
Indices: 3705620--3705771 Score: 259
Period size: 76 Copynumber: 2.0 Consensus size: 76
3705610 CATGTCACTT
*
3705620 GTATTCTAATCTATTCCCAAGGTTCAAACGGGCGTTTTCCTCCATCACACATCTTTGCCGTCTTC
1 GTATTCTAATCTATTCCCAAGGTTCAAACGGGCATTTTCCTCCATCACACATCTTTGCCGTCTTC
*
3705685 CACGGAATATC
66 CACAGAATATC
* *
3705696 GTATTCTAATCTATTCCCAAGGTTCAAACGGGCATTTTCCTCGATCACACATCTTTGCTGTCTTC
1 GTATTCTAATCTATTCCCAAGGTTCAAACGGGCATTTTCCTCCATCACACATCTTTGCCGTCTTC
*
3705761 CATAGAATATC
66 CACAGAATATC
3705772 AAAATCGATA
Statistics
Matches: 71, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
76 71 1.00
ACGTcount: A:0.24, C:0.28, G:0.14, T:0.34
Consensus pattern (76 bp):
GTATTCTAATCTATTCCCAAGGTTCAAACGGGCATTTTCCTCCATCACACATCTTTGCCGTCTTC
CACAGAATATC
Found at i:3706093 original size:105 final size:105
Alignment explanation
Indices: 3705904--3706112 Score: 393
Period size: 105 Copynumber: 2.0 Consensus size: 105
3705894 CATTAAATTG
3705904 CTTAAAATGGAAATTATGTTACTACATTTACACATGAACTTACCTCGGTATAAAATTATTAGCAA
1 CTTAAAATGGAAATTATGTTACTACATTTACACATGAACTTACCTCGGTATAAAATTATTAGCAA
3705969 TCGAGCCTATTCTTTGTAAACTTTGTTTTTCCCTCGATCA
66 TCGAGCCTATTCTTTGTAAACTTTGTTTTTCCCTCGATCA
*
3706009 CTTAAAATGGAAATTATGTTACTACATTTACATATGAACTTACCTCGGTATAAAATTATTAGCAA
1 CTTAAAATGGAAATTATGTTACTACATTTACACATGAACTTACCTCGGTATAAAATTATTAGCAA
3706074 TCGAGCCTATT-TTTCGTAAACTTTGTTTTTCCCTCGATC
66 TCGAGCCTATTCTTT-GTAAACTTTGTTTTTCCCTCGATC
3706113 GCAACTTGAA
Statistics
Matches: 102, Mismatches: 1, Indels: 2
0.97 0.01 0.02
Matches are distributed among these distances:
104 3 0.03
105 99 0.97
ACGTcount: A:0.31, C:0.19, G:0.11, T:0.39
Consensus pattern (105 bp):
CTTAAAATGGAAATTATGTTACTACATTTACACATGAACTTACCTCGGTATAAAATTATTAGCAA
TCGAGCCTATTCTTTGTAAACTTTGTTTTTCCCTCGATCA
Found at i:3716851 original size:19 final size:19
Alignment explanation
Indices: 3716827--3716864 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
3716817 AATTTCTGGA
3716827 AAATGATTTACTTTTCTAG
1 AAATGATTTACTTTTCTAG
3716846 AAATGATTTACTTTTCTAG
1 AAATGATTTACTTTTCTAG
3716865 TGTTTGGATG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.32, C:0.11, G:0.11, T:0.47
Consensus pattern (19 bp):
AAATGATTTACTTTTCTAG
Found at i:3718212 original size:60 final size:60
Alignment explanation
Indices: 3718139--3718258 Score: 215
Period size: 60 Copynumber: 2.0 Consensus size: 60
3718129 CGAAAGCAAG
3718139 GACTTTCCCCCTTCCACTGCACA-AGAAAACAAGAGAAAACATGTGAGGTTGATTCTCAAT
1 GACTTTCCCCCTTCCACTGCACACA-AAAACAAGAGAAAACATGTGAGGTTGATTCTCAAT
*
3718199 GACTTTCCCCCTTCCACTGCACACAAGAACAAGAGAAAACATGTGAGGTTGATTCTCAAT
1 GACTTTCCCCCTTCCACTGCACACAAAAACAAGAGAAAACATGTGAGGTTGATTCTCAAT
3718259 ATTAATGATT
Statistics
Matches: 58, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
60 57 0.98
61 1 0.02
ACGTcount: A:0.34, C:0.26, G:0.17, T:0.23
Consensus pattern (60 bp):
GACTTTCCCCCTTCCACTGCACACAAAAACAAGAGAAAACATGTGAGGTTGATTCTCAAT
Found at i:3725850 original size:46 final size:46
Alignment explanation
Indices: 3725800--3726757 Score: 1764
Period size: 46 Copynumber: 20.8 Consensus size: 46
3725790 TGGTTGAGCA
3725800 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
3725846 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
3725892 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
3725938 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
3725984 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
3726030 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
3726076 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
3726122 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
3726168 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
3726214 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
3726260 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
3726306 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
3726352 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
3726398 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
3726444 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
3726490 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
3726536 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
3726582 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
3726628 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
* * *
3726673 CATCCGAGCTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
*
3726721 -CCAGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCC-GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
3726758 GCGGGTTACA
Statistics
Matches: 892, Mismatches: 10, Indels: 20
0.97 0.01 0.02
Matches are distributed among these distances:
42 2 0.00
43 5 0.01
45 5 0.01
46 844 0.95
47 27 0.03
48 3 0.00
50 4 0.00
51 2 0.00
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:3730062 original size:14 final size:14
Alignment explanation
Indices: 3730029--3730077 Score: 73
Period size: 14 Copynumber: 3.4 Consensus size: 14
3730019 ACTTTTTCCA
3730029 CTCTTTTTC-TTTT
1 CTCTTTTTCTTTTT
3730042 CATTCTTTTTCTTTTT
1 C--TCTTTTTCTTTTT
3730058 CTCTTTTTCTTTTT
1 CTCTTTTTCTTTTT
3730072 CTCTTT
1 CTCTTT
3730078 CAATGGATTG
Statistics
Matches: 33, Mismatches: 0, Indels: 5
0.87 0.00 0.13
Matches are distributed among these distances:
13 1 0.03
14 19 0.58
15 8 0.24
16 5 0.15
ACGTcount: A:0.02, C:0.22, G:0.00, T:0.76
Consensus pattern (14 bp):
CTCTTTTTCTTTTT
Found at i:3734173 original size:42 final size:43
Alignment explanation
Indices: 3734070--3734173 Score: 104
Period size: 43 Copynumber: 2.4 Consensus size: 43
3734060 AATGCCAACA
* *
3734070 TCCCAAACGTGGTCTTACATGTAATCAAATATCGATGCCACTG
1 TCCCAAACATGGTCTTACATGAAATCAAATATCGATGCCACTG
* * * * * *
3734113 TCCCAGATAGGGTTTTACATGAAATTAAATA-CGATGCTGA-TG
1 TCCCAAACATGGTCTTACATGAAATCAAATATCGATGC-CACTG
*
3734155 TCCCATACATGGTCTTACA
1 TCCCAAACATGGTCTTACA
3734174 CATAAATCAT
Statistics
Matches: 48, Mismatches: 12, Indels: 3
0.76 0.19 0.05
Matches are distributed among these distances:
42 23 0.48
43 25 0.52
ACGTcount: A:0.31, C:0.22, G:0.17, T:0.30
Consensus pattern (43 bp):
TCCCAAACATGGTCTTACATGAAATCAAATATCGATGCCACTG
Found at i:3741937 original size:40 final size:40
Alignment explanation
Indices: 3741876--3741978 Score: 98
Period size: 40 Copynumber: 2.6 Consensus size: 40
3741866 TTGATGACAA
* * * *
3741876 ATCGGCTATTTGTGGCTCTTAGTGTGCGATTCGACATAGC
1 ATCGGCTATATATGGCACTTAGTGTGCAATTCGACATAGC
* * * * *
3741916 TTTGGCTATATATGGCACTTAGAGTGCAATTTGAGATAGC
1 ATCGGCTATATATGGCACTTAGTGTGCAATTCGACATAGC
* * *
3741956 ATCGGCTATGTACGTCACTTAGT
1 ATCGGCTATATATGGCACTTAGT
3741979 TTGTGAGATA
Statistics
Matches: 48, Mismatches: 15, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
40 48 1.00
ACGTcount: A:0.22, C:0.17, G:0.25, T:0.35
Consensus pattern (40 bp):
ATCGGCTATATATGGCACTTAGTGTGCAATTCGACATAGC
Found at i:3742014 original size:28 final size:28
Alignment explanation
Indices: 3741983--3742041 Score: 91
Period size: 28 Copynumber: 2.1 Consensus size: 28
3741973 CTTAGTTTGT
* *
3741983 GAGATATCGAGTGTGGCACTTAATGTGC
1 GAGATATCAAGTATGGCACTTAATGTGC
*
3742011 GAGATATCAAGTATGGCACTTAGTGTGC
1 GAGATATCAAGTATGGCACTTAATGTGC
3742039 GAG
1 GAG
3742042 GCATTGAGTA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.27, C:0.14, G:0.32, T:0.27
Consensus pattern (28 bp):
GAGATATCAAGTATGGCACTTAATGTGC
Found at i:3742051 original size:28 final size:28
Alignment explanation
Indices: 3741983--3742052 Score: 77
Period size: 28 Copynumber: 2.5 Consensus size: 28
3741973 CTTAGTTTGT
* *
3741983 GAGATATCGAGTGTGGCACTTAATGTGC
1 GAGACATCGAGTATGGCACTTAATGTGC
* * *
3742011 GAGATATCAAGTATGGCACTTAGTGTGC
1 GAGACATCGAGTATGGCACTTAATGTGC
* *
3742039 GAGGCATTGAGTAT
1 GAGACATCGAGTAT
3742053 TCAACGGCAT
Statistics
Matches: 35, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
28 35 1.00
ACGTcount: A:0.27, C:0.13, G:0.31, T:0.29
Consensus pattern (28 bp):
GAGACATCGAGTATGGCACTTAATGTGC
Found at i:3745030 original size:20 final size:21
Alignment explanation
Indices: 3744994--3745032 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
3744984 TCAGAGGTCA
*
3744994 CACCGTGAGTGTTCTTATTGT
1 CACCGTGAGTCTTCTTATTGT
3745015 CACCGTGA-TCTTCTTATT
1 CACCGTGAGTCTTCTTATT
3745033 CGGTTAGCAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.15, C:0.23, G:0.18, T:0.44
Consensus pattern (21 bp):
CACCGTGAGTCTTCTTATTGT
Found at i:3746714 original size:53 final size:53
Alignment explanation
Indices: 3746651--3746754 Score: 208
Period size: 53 Copynumber: 2.0 Consensus size: 53
3746641 AATGATTTGG
3746651 GCATTGGTTAAACAAAAGGATTATATGAGTTTTATGTGGTGTATATATGTCTT
1 GCATTGGTTAAACAAAAGGATTATATGAGTTTTATGTGGTGTATATATGTCTT
3746704 GCATTGGTTAAACAAAAGGATTATATGAGTTTTATGTGGTGTATATATGTC
1 GCATTGGTTAAACAAAAGGATTATATGAGTTTTATGTGGTGTATATATGTC
3746755 CTACTTGGTT
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
53 51 1.00
ACGTcount: A:0.31, C:0.06, G:0.23, T:0.40
Consensus pattern (53 bp):
GCATTGGTTAAACAAAAGGATTATATGAGTTTTATGTGGTGTATATATGTCTT
Found at i:3750447 original size:30 final size:30
Alignment explanation
Indices: 3750411--3750473 Score: 117
Period size: 30 Copynumber: 2.1 Consensus size: 30
3750401 TTCAAGCTTG
3750411 CAAAACCCTCCTATGGCTGATATTTTTGGT
1 CAAAACCCTCCTATGGCTGATATTTTTGGT
*
3750441 CAAAACCCTCCTATGGTTGATATTTTTGGT
1 CAAAACCCTCCTATGGCTGATATTTTTGGT
3750471 CAA
1 CAA
3750474 GAAGAAAGGA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.25, C:0.22, G:0.16, T:0.37
Consensus pattern (30 bp):
CAAAACCCTCCTATGGCTGATATTTTTGGT
Found at i:3755876 original size:20 final size:21
Alignment explanation
Indices: 3755851--3755890 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
3755841 CCCTTGAAAC
*
3755851 AGGGC-ACACGCCCGTGTGGA
1 AGGGCAACACGCCCATGTGGA
*
3755871 AGGGCAATACGCCCATGTGG
1 AGGGCAACACGCCCATGTGG
3755891 TCATTATAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.23, C:0.28, G:0.38, T:0.12
Consensus pattern (21 bp):
AGGGCAACACGCCCATGTGGA
Found at i:3756795 original size:285 final size:285
Alignment explanation
Indices: 3756285--3756856 Score: 1144
Period size: 285 Copynumber: 2.0 Consensus size: 285
3756275 TTAAAAATCA
3756285 TATCTTGAGTTTCACAACTCGAAAATCAGTTTCGTGATTTTTCCCTGAAACTAGACTCATATGCC
1 TATCTTGAGTTTCACAACTCGAAAATCAGTTTCGTGATTTTTCCCTGAAACTAGACTCATATGCC
3756350 CATCTACATATTTTTTTCTAGAATTTTTGGTCGGGCCAATTAGTACATTTTATTAGTCAAAGTCT
66 CATCTACATATTTTTTTCTAGAATTTTTGGTCGGGCCAATTAGTACATTTTATTAGTCAAAGTCT
3756415 CCCATGTTACAGGGATCGACTACCCTGACCTTTGCGTATTACGACTTGGATATCTCCTTGTACAG
131 CCCATGTTACAGGGATCGACTACCCTGACCTTTGCGTATTACGACTTGGATATCTCCTTGTACAG
3756480 GGCTCCAATACTGATTCCATTTGTTTCTATAGAAACTAGACTCAGAGAGGAATCTATACATATAT
196 GGCTCCAATACTGATTCCATTTGTTTCTATAGAAACTAGACTCAGAGAGGAATCTATACATATAT
3756545 GGTATGACTCCTAATTATCTCTGGT
261 GGTATGACTCCTAATTATCTCTGGT
3756570 TATCTTGAGTTTCACAACTCGAAAATCAGTTTCGTGATTTTTCCCTGAAACTAGACTCATATGCC
1 TATCTTGAGTTTCACAACTCGAAAATCAGTTTCGTGATTTTTCCCTGAAACTAGACTCATATGCC
3756635 CATCTACATATTTTTTTCTAGAATTTTTGGTCGGGCCAATTAGTACATTTTATTAGTCAAAGTCT
66 CATCTACATATTTTTTTCTAGAATTTTTGGTCGGGCCAATTAGTACATTTTATTAGTCAAAGTCT
3756700 CCCATGTTACAGGGATCGACTACCCTGACCTTTGCGTATTACGACTTGGATATCTCCTTGTACAG
131 CCCATGTTACAGGGATCGACTACCCTGACCTTTGCGTATTACGACTTGGATATCTCCTTGTACAG
3756765 GGCTCCAATACTGATTCCATTTGTTTCTATAGAAACTAGACTCAGAGAGGAATCTATACATATAT
196 GGCTCCAATACTGATTCCATTTGTTTCTATAGAAACTAGACTCAGAGAGGAATCTATACATATAT
3756830 GGTATGACTCCTAATTATCTCTGGT
261 GGTATGACTCCTAATTATCTCTGGT
3756855 TA
1 TA
3756857 ATGAATTTCC
Statistics
Matches: 287, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
285 287 1.00
ACGTcount: A:0.27, C:0.21, G:0.16, T:0.36
Consensus pattern (285 bp):
TATCTTGAGTTTCACAACTCGAAAATCAGTTTCGTGATTTTTCCCTGAAACTAGACTCATATGCC
CATCTACATATTTTTTTCTAGAATTTTTGGTCGGGCCAATTAGTACATTTTATTAGTCAAAGTCT
CCCATGTTACAGGGATCGACTACCCTGACCTTTGCGTATTACGACTTGGATATCTCCTTGTACAG
GGCTCCAATACTGATTCCATTTGTTTCTATAGAAACTAGACTCAGAGAGGAATCTATACATATAT
GGTATGACTCCTAATTATCTCTGGT
Found at i:3757899 original size:79 final size:81
Alignment explanation
Indices: 3757796--3757979 Score: 222
Period size: 79 Copynumber: 2.3 Consensus size: 81
3757786 ACTCCTCGTT
* *
3757796 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCACAAATGCCTTCGGGA-CTTAACC
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGT-ATCTCGCACAAATGCCTTC-GGATCTTAACC
*
3757858 CGGAT-TTAGTAAC-TCGCA
63 CGGATATT-GTAACTTAGCA
**
3757876 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGATCTTAACCCGG
*
3757940 ATATTGTCACTTAGCA
66 ATATTGTAACTTAGCA
3757956 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
3757980 CATCATTCAA
Statistics
Matches: 92, Mismatches: 6, Indels: 13
0.83 0.05 0.12
Matches are distributed among these distances:
78 14 0.15
79 56 0.61
80 22 0.24
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (81 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGATCTTAACCCGG
ATATTGTAACTTAGCA
Found at i:3757913 original size:39 final size:41
Alignment explanation
Indices: 3757796--3757979 Score: 199
Period size: 40 Copynumber: 4.6 Consensus size: 41
3757786 ACTCCTCGTT
* *
3757796 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTAATCTCGCA
* *
3757836 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAA-CTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAATCTCGCA
3757876 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGT-ATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAATCTCGCA
* * *
3757915 CAAATGCCTTC-GGATCTTAGTCCGGATATT-GTCA-CTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGA-ATTAGTAATC-TCGCA
3757956 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
3757980 CATCATTCAA
Statistics
Matches: 128, Mismatches: 7, Indels: 19
0.83 0.05 0.12
Matches are distributed among these distances:
38 3 0.02
39 48 0.38
40 66 0.52
41 11 0.09
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (41 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAATCTCGCA
Found at i:3762251 original size:48 final size:46
Alignment explanation
Indices: 3762180--3762291 Score: 134
Period size: 46 Copynumber: 2.4 Consensus size: 46
3762170 TAATGCCATA
* * * *
3762180 TCCCAGACAGGTCTTACACTAGCTTGTATCTCGCAAGGTCGATGCATG
1 TCCCAGACATGTCTTACACTAGC-TCTAGC-CGCAAGGCCGATGCATG
* ** *
3762228 TCCCAGACATGTCTTACACTAGCTCTCGCCTTAATGCCGATGCATG
1 TCCCAGACATGTCTTACACTAGCTCTAGCCGCAAGGCCGATGCATG
3762274 TCCCAGACATGTCTTACA
1 TCCCAGACATGTCTTACA
3762292 TTGGCTCTCA
Statistics
Matches: 56, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
46 31 0.55
47 3 0.05
48 22 0.39
ACGTcount: A:0.23, C:0.30, G:0.19, T:0.28
Consensus pattern (46 bp):
TCCCAGACATGTCTTACACTAGCTCTAGCCGCAAGGCCGATGCATG
Found at i:3774068 original size:46 final size:45
Alignment explanation
Indices: 3773999--3774124 Score: 155
Period size: 46 Copynumber: 2.8 Consensus size: 45
3773989 GGTGGTATGT
* *
3773999 GAGCCAGTGTAAGGCATGTCTGGGACATGCATCAGCCACAT-CATGA
1 GAGCCAGTGTAAGACATGTCTGGGACATGCATC-GCCA-ATACACGA
* * * *
3774045 GTGCCAGTGTAAGACATGTCTGGGACATGCATCGGCATTGAGACGA
1 GAGCCAGTGTAAGACATGTCTGGGACATGCATCGCCAAT-ACACGA
*
3774091 GAGCTAGTGTAAGACATGTCTGGGACATGCATCG
1 GAGCCAGTGTAAGACATGTCTGGGACATGCATCG
3774125 GCCTCGGGAT
Statistics
Matches: 70, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
44 1 0.01
45 3 0.04
46 66 0.94
ACGTcount: A:0.27, C:0.21, G:0.31, T:0.21
Consensus pattern (45 bp):
GAGCCAGTGTAAGACATGTCTGGGACATGCATCGCCAATACACGA
Found at i:3775639 original size:20 final size:21
Alignment explanation
Indices: 3775600--3775639 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
3775590 GTCATAGTGG
*
3775600 CCACACGGGCGTGTTGCCCTT
1 CCACACGGGCATGTTGCCCTT
3775621 CCACACGGGCATG-TGCCCT
1 CCACACGGGCATGTTGCCCT
3775640 GTTTCAAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.12, C:0.40, G:0.28, T:0.20
Consensus pattern (21 bp):
CCACACGGGCATGTTGCCCTT
Found at i:3777063 original size:46 final size:46
Alignment explanation
Indices: 3776996--3777116 Score: 197
Period size: 46 Copynumber: 2.6 Consensus size: 46
3776986 GCCCATAAGC
* * *
3776996 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCACAAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCACAAGT
*
3777042 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCACAAGT
*
3777088 GAACTCGGACTCAACTCAATGAGTTCGGA
1 GAACTCGGACTCAACTCAACGAGTTCGGA
3777117 TGCTCAACCA
Statistics
Matches: 70, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
46 70 1.00
ACGTcount: A:0.29, C:0.29, G:0.22, T:0.20
Consensus pattern (46 bp):
GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCACAAGT
Found at i:3777135 original size:46 final size:45
Alignment explanation
Indices: 3776988--3777127 Score: 156
Period size: 46 Copynumber: 3.1 Consensus size: 45
3776978 TGTAACCCGC
* * ** * *
3776988 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTC-GGAATGCGCAA
* * *
3777034 CCACAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA-ATGCGCAA
* *
3777080 CCATAAGTGAACTCGGACTCAACTCAATGAGTTCGG-ATGCTCAA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGAATGCGCAA
3777124 CCAT
1 CCAT
3777128 CCTAGTGACA
Statistics
Matches: 83, Mismatches: 10, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
44 9 0.11
45 2 0.02
46 72 0.87
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (45 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGAATGCGCAA
Found at i:3782179 original size:50 final size:50
Alignment explanation
Indices: 3782104--3782204 Score: 193
Period size: 50 Copynumber: 2.0 Consensus size: 50
3782094 TCTCGAGTTC
*
3782104 CCTACACTGGCTGCAGACGTATTCTGAGATTTAGGACCCACATTTTGCTT
1 CCTACACTGGCTGCAGAAGTATTCTGAGATTTAGGACCCACATTTTGCTT
3782154 CCTACACTGGCTGCAGAAGTATTCTGAGATTTAGGACCCACATTTTGCTT
1 CCTACACTGGCTGCAGAAGTATTCTGAGATTTAGGACCCACATTTTGCTT
3782204 C
1 C
3782205 TTATAATTCC
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
50 50 1.00
ACGTcount: A:0.23, C:0.26, G:0.20, T:0.32
Consensus pattern (50 bp):
CCTACACTGGCTGCAGAAGTATTCTGAGATTTAGGACCCACATTTTGCTT
Found at i:3792911 original size:48 final size:47
Alignment explanation
Indices: 3792837--3793069 Score: 247
Period size: 48 Copynumber: 4.9 Consensus size: 47
3792827 AGAGTGAGTT
* * *
3792837 GCCGATGCCATGTTCCAAACATGGTCTTACCCTGGCTCAT-ATGTCAAG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTC-TCAT-TCAAG
** * * *
3792885 GCCGATGCCATGTCCTGGACACGGTCTTACACTAGCTCTCATCTCAAT
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCAT-TCAAG
* * *
3792933 CCCGATGCCATGTCCTAAACATGGTCTTACACTGGCTCTCA-T-AATG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATTCAA-G
* * * *
3792979 TGCCTGATGCCATGTCCCAGACATGGTCTTACACTAGCGCACATATCAAT
1 -GCC-GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCAT-TCAAG
3793029 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCA
3793070 CAACATCATC
Statistics
Matches: 153, Mismatches: 25, Indels: 14
0.80 0.13 0.07
Matches are distributed among these distances:
45 2 0.01
46 1 0.01
47 3 0.02
48 141 0.92
49 3 0.02
50 1 0.01
51 2 0.01
ACGTcount: A:0.23, C:0.31, G:0.19, T:0.27
Consensus pattern (47 bp):
GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATTCAAG
Found at i:3793007 original size:96 final size:94
Alignment explanation
Indices: 3792838--3793069 Score: 290
Period size: 96 Copynumber: 2.4 Consensus size: 94
3792828 GAGTGAGTTG
* *
3792838 CCGATGCCATGTTCCAAACATGGTCTTACCCTGG--CTCATATGTCAAGGCCGATGCCATGTCCT
1 CCGATGCCATG-TCCAAACATGGTCTTACACTGGCTCTCATATGT--A-GCCGATGCCATGTCCC
* * * *
3792901 GGACACGGTCTTACACTAGCTCTCATCTCAATC
62 AGACACGGTCTTACACTAGCGCACATATCAATC
3792934 CCGATGCCATGTCCTAAACATGGTCTTACACTGGCTCTCATAATGT-GCCTGATGCCATGTCCCA
1 CCGATGCCATGTCC-AAACATGGTCTTACACTGGCTCTCAT-ATGTAGCC-GATGCCATGTCCCA
* *
3792998 GACATGGTCTTACACTAGCGCACATATCAATG
63 GACACGGTCTTACACTAGCGCACATATCAATC
*
3793030 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCA
1 CCGATGCCATGT-CCAAACATGGTCTTACACTGGCTCTCA
3793070 CAACATCATC
Statistics
Matches: 121, Mismatches: 9, Indels: 12
0.85 0.06 0.08
Matches are distributed among these distances:
95 6 0.05
96 104 0.86
97 2 0.02
98 5 0.04
99 4 0.03
ACGTcount: A:0.23, C:0.31, G:0.19, T:0.27
Consensus pattern (94 bp):
CCGATGCCATGTCCAAACATGGTCTTACACTGGCTCTCATATGTAGCCGATGCCATGTCCCAGAC
ACGGTCTTACACTAGCGCACATATCAATC
Found at i:3793085 original size:48 final size:47
Alignment explanation
Indices: 3792887--3793110 Score: 160
Period size: 48 Copynumber: 4.8 Consensus size: 47
3792877 ATGTCAAGGC
** * * * *
3792887 CGATGCCATGTCCTGGACACGGTCTTACACTAGCTCTCATCTCAATC-C
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCA-CAC-ATCAT
* * * *
3792935 CGATGCCATGTCCTAAACATGGTCTTACACTGGCTCTCATA-AT-GT
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCACACATCAT
* * *
3792980 GCCTGATGCCATGTCCCAGACATGGTCTTACACTAG--CGCACATATCAAT
1 --C-GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCACACATC-AT
3793029 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCACAACATCAT
1 --CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCAC-ACATCAT
* * *
3793079 CAATGCCATAT-TC---CATGGTCTTACACTGGCTC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTC
3793111 ACATATCACG
Statistics
Matches: 147, Mismatches: 19, Indels: 24
0.77 0.10 0.13
Matches are distributed among these distances:
44 19 0.13
45 2 0.01
46 4 0.03
47 4 0.03
48 104 0.71
49 4 0.03
50 6 0.04
51 4 0.03
ACGTcount: A:0.24, C:0.32, G:0.17, T:0.27
Consensus pattern (47 bp):
CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCACACATCAT
Found at i:3793085 original size:96 final size:95
Alignment explanation
Indices: 3792836--3793156 Score: 276
Period size: 96 Copynumber: 3.4 Consensus size: 95
3792826 GAGAGTGAGT
* * *** * **
3792836 TGCCGATGCCATGTTCCAAACATGGTCTTACCCTGGCTCAT-ATGTCAAGGC-CGATGCCATGTC
1 TGCCGATGCCATGTCCCAAACATGGTCTTACACTGGCTC-TCACAAC-ATGCATAATGCCATGTC
* * * *
3792899 CTGGACACGGTCTTACACTAGCTCTCATCTCAA
64 C-CGACATGGTCTTACACTAGCTCACATATCAA
* * * ** * *
3792932 TCCCGATGCCATGTCCTAAACATGGTCTTACACTGGCTCTCATAATGTGCCTGATGCCATGTCCC
1 TGCCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCACAACATGCATAATGCCATGTCCC
*
3792997 AGACATGGTCTTACACTAGCGCACATATCAA
66 -GACATGGTCTTACACTAGCTCACATATCAA
* * *
3793028 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCACAACAT-CATCAATGCCATAT-T
1 TGCCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCACAACATGCAT-AATGCCATGTCC
* *
3793091 C--CATGGTCTTACACTGGCTCACATATCAC
65 CGACATGGTCTTACACTAGCTCACATATCAA
* * * ** *
3793120 GGTCGATGCCATGTTCCAAATGTGGTATTACACTGGC
1 TGCCGATGCCATGTCCCAAACATGGTCTTACACTGGC
3793157 ACACATATCA
Statistics
Matches: 186, Mismatches: 35, Indels: 12
0.80 0.15 0.05
Matches are distributed among these distances:
92 55 0.30
95 6 0.03
96 125 0.67
ACGTcount: A:0.24, C:0.30, G:0.19, T:0.27
Consensus pattern (95 bp):
TGCCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCACAACATGCATAATGCCATGTCCC
GACATGGTCTTACACTAGCTCACATATCAA
Found at i:3793129 original size:44 final size:43
Alignment explanation
Indices: 3793048--3793167 Score: 114
Period size: 44 Copynumber: 2.7 Consensus size: 43
3793038 ATGTCCCAGA
* * *
3793048 CATGGTCTTACACTGGCTCTCACAACATCATCAATGCCATATTC
1 CATGGTCTTACACTGGCTCACATATCA-CATCAATGCCATATTC
* * *
3793092 CATGGTCTTACACTGGCTCACATATCACGGTCGATGCCATGTTC
1 CATGGTCTTACACTGGCTCACATATCAC-ATCAATGCCATATTC
* *
3793136 CAAATGTGGTATTACACTGGCACACATATCAC
1 C--A--TGGTCTTACACTGGCTCACATATCAC
3793168 CCAAATGTCA
Statistics
Matches: 63, Mismatches: 8, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
43 1 0.02
44 37 0.59
46 1 0.02
48 24 0.38
ACGTcount: A:0.27, C:0.29, G:0.16, T:0.28
Consensus pattern (43 bp):
CATGGTCTTACACTGGCTCACATATCACATCAATGCCATATTC
Found at i:3800033 original size:32 final size:32
Alignment explanation
Indices: 3799962--3800023 Score: 97
Period size: 32 Copynumber: 1.9 Consensus size: 32
3799952 TTTACCTCGA
* * *
3799962 GAGCATTGAATGTTTAGTTGAATTGGAATCGT
1 GAGCATTGAATGTTTAGTTGAACTGAAAGCGT
3799994 GAGCATTGAATGTTTAGTTGAACTGAAAGC
1 GAGCATTGAATGTTTAGTTGAACTGAAAGC
3800024 TAGGCCATTG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
32 27 1.00
ACGTcount: A:0.31, C:0.08, G:0.27, T:0.34
Consensus pattern (32 bp):
GAGCATTGAATGTTTAGTTGAACTGAAAGCGT
Found at i:3800521 original size:40 final size:40
Alignment explanation
Indices: 3800424--3800522 Score: 101
Period size: 40 Copynumber: 2.5 Consensus size: 40
3800414 TAAGAGGTGC
* ** * **
3800424 ACAAGCCACCAGTATTGCAGACATGTTGCTAGTATTGTGG
1 ACAAGCCACCAGAATTGCAGACATACTACTAGTATTGCAG
* * *
3800464 ACAAGCGA-CAAATATTGCAGATATACTACTAGTATTGCAG
1 ACAAGCCACCAGA-ATTGCAGACATACTACTAGTATTGCAG
3800504 ACAAGCCACCAGAATTGCA
1 ACAAGCCACCAGAATTGCA
3800523 AACAAGCTGC
Statistics
Matches: 46, Mismatches: 11, Indels: 4
0.75 0.18 0.07
Matches are distributed among these distances:
39 2 0.04
40 41 0.89
41 3 0.07
ACGTcount: A:0.35, C:0.21, G:0.20, T:0.23
Consensus pattern (40 bp):
ACAAGCCACCAGAATTGCAGACATACTACTAGTATTGCAG
Done.