Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold42
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: 3911082
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.33
Warning! 18191 characters in sequence are not A, C, G, or T
File 15 of 24
Found at i:2278513 original size:20 final size:20
Alignment explanation
Indices: 2278488--2278561 Score: 103
Period size: 20 Copynumber: 3.6 Consensus size: 20
2278478 ACATCTTTTT
2278488 CATGTATCGATACATTGCAA
1 CATGTATCGATACATTGCAA
****
2278508 CATGTATCGATACATCTTTTT
1 CATGTATCGATACAT-TGCAA
2278529 CATGTATCGATACATTGCAA
1 CATGTATCGATACATTGCAA
2278549 CATGTATCGATAC
1 CATGTATCGATAC
2278562 TTTGAATTGT
Statistics
Matches: 45, Mismatches: 8, Indels: 2
0.82 0.15 0.04
Matches are distributed among these distances:
20 29 0.64
21 16 0.36
ACGTcount: A:0.31, C:0.20, G:0.14, T:0.35
Consensus pattern (20 bp):
CATGTATCGATACATTGCAA
Found at i:2278525 original size:41 final size:41
Alignment explanation
Indices: 2278468--2278561 Score: 188
Period size: 41 Copynumber: 2.3 Consensus size: 41
2278458 CTGCCAAGAA
2278468 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
2278509 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
2278550 ATGTATCGATAC
1 ATGTATCGATAC
2278562 TTTGAATTGT
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 53 1.00
ACGTcount: A:0.30, C:0.19, G:0.13, T:0.38
Consensus pattern (41 bp):
ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
Found at i:2280863 original size:163 final size:164
Alignment explanation
Indices: 2280587--2281119 Score: 569
Period size: 168 Copynumber: 3.2 Consensus size: 164
2280577 TCAGTTTTTC
* * ** *
2280587 AAAATTCCTTTCA-TTTCATGAGTTTTTTATTTTTTCCTTAAAA-TCTCTCTATTTTTGAAATAT
1 AAAATTCATTT-ATTTTCATGAGTTTTTCATTTTTT-CTTAAAATTCTCTCTATTTTAAAAATAA
** *
2280650 GAAGTTTGCTACTTTGTAAATGTTTTCGAGGGGATTTTTCTC-GAATTAAAATTTTTAAAATTCA
64 G-AGTTT-CTACTTCATAAATGTTTTCGGGGGGATTTTTCTCAG-ATTAAAATTTTTAAAATTCA
* *
2280714 TTAAATATCATTATTTAATTTATAGCAAATC-AGTTTGA
126 TCAAATATCATCATTTAATTTATAGCAAATCAAGTTTGA
* * *
2280752 AAAATTCATTTATTTTCATAAGTTTTTCATTTTTTTTTAAAATTCTCTC-ATTTTCAAAATAAGA
1 AAAATTCATTTATTTTCATGAGTTTTTCATTTTTTCTTAAAATTCTCTCTATTTTAAAAATAAGA
*
2280816 GTCTTCTACTCCATAAATGTTTTCGGGGGGATTTTTCTCAGATTAAAATTTTTAAAATTCATCAA
66 GT-TTCTACTTCATAAATGTTTTCGGGGGGATTTTTCTCAGATTAAAATTTTTAAAATTCATCAA
* * *
2280881 ATATCATCATTTGATTTATAGCAAATCAATTTTAAA
130 ATATCATCATTTAATTTATAGCAAATCAAGTTT-GA
* * * *
2280917 AAAATTTATTTATTTTTATGAGTTTTTTATCTTTTTCTTAAAATTC-CCCTATTTCTTGAAAAAT
1 AAAATTCATTTATTTTCATGAGTTTTTCAT-TTTTTCTTAAAATTCTCTCTA-TT-TT-AAAAAT
* * * * * * * *
2280981 CA-AGTTTTTAATTTCATAAATGGTTTCAGAGGAATATTTCTCAGATTAAAATTTTTAAAATTCA
62 AAGAGTTTCT-ACTTCATAAATGTTTTCGGGGGGATTTTTCTCAGATTAAAATTTTTAAAATTCA
* * ** * *
2281045 TCAAATATCATCATTTAATTCACATTAAATCAATTTTGT
126 TCAAATATCATCATTTAATTTATAGCAAATCAAGTTTGA
*
2281084 AAAATTCAATTTATTTT-ATGAGTTTTACATTTTTTC
1 AAAATTC-ATTTATTTTCATGAGTTTTTCATTTTTTC
2281120 ACAAGATAAT
Statistics
Matches: 313, Mismatches: 42, Indels: 25
0.82 0.11 0.07
Matches are distributed among these distances:
163 81 0.26
164 25 0.08
165 65 0.21
166 21 0.07
167 22 0.07
168 93 0.30
169 6 0.02
ACGTcount: A:0.33, C:0.11, G:0.08, T:0.47
Consensus pattern (164 bp):
AAAATTCATTTATTTTCATGAGTTTTTCATTTTTTCTTAAAATTCTCTCTATTTTAAAAATAAGA
GTTTCTACTTCATAAATGTTTTCGGGGGGATTTTTCTCAGATTAAAATTTTTAAAATTCATCAAA
TATCATCATTTAATTTATAGCAAATCAAGTTTGA
Found at i:2283542 original size:20 final size:20
Alignment explanation
Indices: 2283498--2283549 Score: 68
Period size: 20 Copynumber: 2.5 Consensus size: 20
2283488 CTACGATTTG
* * *
2283498 TATCGATATAATTAGTGAATG
1 TATCGATAT-ATAAATGAATC
2283519 TATCGATATATAAATGAATC
1 TATCGATATATAAATGAATC
2283539 TATCGATATAT
1 TATCGATATAT
2283550 GTCTCAAATG
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
20 19 0.68
21 9 0.32
ACGTcount: A:0.40, C:0.08, G:0.13, T:0.38
Consensus pattern (20 bp):
TATCGATATATAAATGAATC
Found at i:2291123 original size:23 final size:24
Alignment explanation
Indices: 2291088--2291132 Score: 74
Period size: 23 Copynumber: 1.9 Consensus size: 24
2291078 CTTAATAACA
*
2291088 AAAAAGAGTAAAAAAGGAAAAATG
1 AAAAAGAGAAAAAAAGGAAAAATG
2291112 AAAAAGA-AAAAAAAGGAAAAA
1 AAAAAGAGAAAAAAAGGAAAAA
2291133 ACATGAAATG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 13 0.65
24 7 0.35
ACGTcount: A:0.78, C:0.00, G:0.18, T:0.04
Consensus pattern (24 bp):
AAAAAGAGAAAAAAAGGAAAAATG
Found at i:2291133 original size:24 final size:25
Alignment explanation
Indices: 2291088--2291151 Score: 71
Period size: 25 Copynumber: 2.6 Consensus size: 25
2291078 CTTAATAACA
*
2291088 AAAAAGAGTAAAAAAGG-AAAA-ATG
1 AAAAAGA-AAAAAAAGGAAAAACATG
2291112 AAAAAGAAAAAAAAGGAAAAAACATG
1 AAAAAGAAAAAAAAGG-AAAAACATG
*
2291138 -AAATGAAAAAAAAG
1 AAAAAGAAAAAAAAG
2291152 TGCATATGGT
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
23 8 0.23
24 7 0.20
25 17 0.49
26 3 0.09
ACGTcount: A:0.75, C:0.02, G:0.17, T:0.06
Consensus pattern (25 bp):
AAAAAGAAAAAAAAGGAAAAACATG
Found at i:2291467 original size:9 final size:9
Alignment explanation
Indices: 2291453--2291485 Score: 59
Period size: 9 Copynumber: 3.8 Consensus size: 9
2291443 GATGAAATTT
2291453 AAAAAAATG
1 AAAAAAATG
2291462 -AAAAAATG
1 AAAAAAATG
2291470 AAAAAAATG
1 AAAAAAATG
2291479 AAAAAAA
1 AAAAAAA
2291486 AAAGAAGCTA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
8 8 0.35
9 15 0.65
ACGTcount: A:0.82, C:0.00, G:0.09, T:0.09
Consensus pattern (9 bp):
AAAAAAATG
Found at i:2291473 original size:7 final size:8
Alignment explanation
Indices: 2291454--2291484 Score: 53
Period size: 8 Copynumber: 3.8 Consensus size: 8
2291444 ATGAAATTTA
2291454 AAAAAATG
1 AAAAAATG
2291462 AAAAAATG
1 AAAAAATG
2291470 AAAAAAATG
1 -AAAAAATG
2291479 AAAAAA
1 AAAAAA
2291485 AAAAGAAGCT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
8 14 0.64
9 8 0.36
ACGTcount: A:0.81, C:0.00, G:0.10, T:0.10
Consensus pattern (8 bp):
AAAAAATG
Found at i:2292617 original size:88 final size:88
Alignment explanation
Indices: 2292165--2292619 Score: 301
Period size: 88 Copynumber: 5.2 Consensus size: 88
2292155 GAAAACAAAG
* ** * * * * * *
2292165 TTGCATTATTTCATTCATGTATGCATTTTAGATGGCATTGGCATTTGCCTCATTTCATATGCATT
1 TTGCATTATTTCATACACATTTGCATTTAAAATGACATTAGCATTTGCATCATTTCATATGCATT
* * * *
2292230 TGCCACTTTATTGAA-GCTTACAG
66 TACCACTTTACT-AATGCTTGCAT
* * * * * * * * * *
2292253 TTGCATTGTTTCATGCATAACTAG-ACTTT-AGATAACATTGGCATTCGCATCATTTCATATGCC
1 TTGCATTATTTCATACA-CATTTGCA-TTTAAAATGACATTAGCATTTGCATCATTTCATATGCA
* * ** *
2292316 TTTACCACTTTATTAAAGCTTATAG
64 TTTACCACTTTACTAATGCTTGCAT
* ** * *
2292341 TTGCATTATGTCATGGAAATTTGCATTTAAAATGACATTAGCATTTGCATCATTTCATATG-TTT
1 TTGCATTATTTCATACACATTTGCATTTAAAATGACATTAGCATTTGCATCATTTCATATGCATT
* *
2292405 TCGCCACTTTACCAATGCTTGCAT
66 T-ACCACTTTACTAATGCTTGCAT
* * * ** * *
2292429 TTGCATTA-TTC-TACACATATTTGCATTTCAGAGGACATTAGTGTTTGTATCATTCCATATGCA
1 TTGCATTATTTCATACAC--ATTTGCATTTAAAATGACATTAGCATTTGCATCATTTCATATGCA
* * *
2292492 TTTGCCACTTTACTGATGTTTGCAT
64 TTTACCACTTTACTAATGCTTGCAT
** * * * * *
2292517 TTGCATCGTTTCATACACATTTGTATTTTATATGACATTGGTATTTGCATCATTTCATATGCATT
1 TTGCATTATTTCATACACATTTGCATTTAAAATGACATTAGCATTTGCATCATTTCATATGCATT
* ** *
2292582 TACCATTTTGTTAATGCTTGTAT
66 TACCACTTTACTAATGCTTGCAT
*
2292605 TTACATTATTTCATA
1 TTGCATTATTTCATA
2292620 TGCTCTACAC
Statistics
Matches: 290, Mismatches: 66, Indels: 22
0.77 0.17 0.06
Matches are distributed among these distances:
86 2 0.01
87 14 0.05
88 259 0.89
89 10 0.03
90 5 0.02
ACGTcount: A:0.25, C:0.18, G:0.13, T:0.44
Consensus pattern (88 bp):
TTGCATTATTTCATACACATTTGCATTTAAAATGACATTAGCATTTGCATCATTTCATATGCATT
TACCACTTTACTAATGCTTGCAT
Found at i:2293691 original size:81 final size:79
Alignment explanation
Indices: 2293555--2293779 Score: 215
Period size: 81 Copynumber: 2.8 Consensus size: 79
2293545 TCCTTACTCT
* * * * *
2293555 TACCTAGTTAAACTCTTTTCATTA-CTGTTTAACGTGATGGTTTTTGCCTTGGTCAAACTTTTTT
1 TACCTAGTCAAACTCTTTTCATTATC-GTTTGACGTGATGG-TTCTGCCCTAGTCAAACTTTTTT
*
2293619 TTGTTCCCGTTTAAC-A
64 CT-TTCCCGTTTAACTA
* * *
2293635 GTACCTAGTCAAAATCTTTTCATTATCATTTGACATGATGGTTCTCGCCCTAGTCAAA-TATTTT
1 -TACCTAGTCAAACTCTTTTCATTATCGTTTGACGTGATGGTTCT-GCCCTAGTCAAACT-TTTT
* *
2293699 TCTTTCCTGTTTGACTA
63 TCTTTCCCGTTTAACTA
* * * * *
2293716 TACTTGGTCAAACTCTTTTCACTT-TTGTTTGATGTGATGGTTCTGCCCTAGTCAAACTCTTTTC
1 TACCTAGTCAAACTCTTTTCA-TTATCGTTTGACGTGATGGTTCTGCCCTAGTCAAACTTTTTTC
2293780 ACTTTCATTT
Statistics
Matches: 119, Mismatches: 19, Indels: 14
0.78 0.12 0.09
Matches are distributed among these distances:
79 17 0.14
80 49 0.41
81 52 0.44
82 1 0.01
ACGTcount: A:0.20, C:0.20, G:0.14, T:0.45
Consensus pattern (79 bp):
TACCTAGTCAAACTCTTTTCATTATCGTTTGACGTGATGGTTCTGCCCTAGTCAAACTTTTTTCT
TTCCCGTTTAACTA
Found at i:2293791 original size:44 final size:44
Alignment explanation
Indices: 2293722--2294688 Score: 808
Period size: 44 Copynumber: 22.0 Consensus size: 44
2293712 ACTATACTTG
* *
2293722 GTCAAACTCTTTTCACTTTTGTTTGATGTGATGGTTCTGCCCTA
1 GTCAAACTCTTTTCACTTTCGTTTGACGTGATGGTTCTGCCCTA
* * * *
2293766 GTCAAACTCTTTTCACTTTCATTTGACATGATGGTTTTGCCCTG
1 GTCAAACTCTTTTCACTTTCGTTTGACGTGATGGTTCTGCCCTA
* * * * *
2293810 GTCAAACTCTTTCCA-TTCTCATTTGACGTGATGGTTCTACCTTG
1 GTCAAACTCTTTTCACTT-TCGTTTGACGTGATGGTTCTGCCCTA
* * * * * *
2293854 GTGAAACTCTTTTCACTTCCATTTGATGCGATGGTTTTGCCCTA
1 GTCAAACTCTTTTCACTTTCGTTTGACGTGATGGTTCTGCCCTA
* ** *
2293898 GTCAAACTCTTTTCACTTTTGTTTGACAAGATGGTTCTACCCTA
1 GTCAAACTCTTTTCACTTTCGTTTGACGTGATGGTTCTGCCCTA
* * * * *
2293942 GTCAAACTTTTTTCACTTTCGTTTGACATGATGGTTTTGCCTTG
1 GTCAAACTCTTTTCACTTTCGTTTGACGTGATGGTTCTGCCCTA
* * * * *
2293986 GTCAAGCAT-TTTTCATTTTTGTTTGACGTGATGGTTCTGCCTTG
1 GTCAAAC-TCTTTTCACTTTCGTTTGACGTGATGGTTCTGCCCTA
* * * * *
2294030 GTCAAACTCCTTTCACTTTCGTTTGGCATGATGATTCTGCCTTA
1 GTCAAACTCTTTTCACTTTCGTTTGACGTGATGGTTCTGCCCTA
* * * * * *
2294074 GTCAAACTCCTTTCGCTTTTGTTTGATGTAATGATTCTGCCCTA
1 GTCAAACTCTTTTCACTTTCGTTTGACGTGATGGTTCTGCCCTA
** * *
2294118 GTCAAACT-TCTTTCACTTTAATTTGATGTGATTGTTCTGCCCTA
1 GTCAAACTCT-TTTCACTTTCGTTTGACGTGATGGTTCTGCCCTA
*** * * * * *
2294162 GTCAAACTCTTTTTGTTTTTGTTTAATGTGATGGTTTTGTCCTA
1 GTCAAACTCTTTTCACTTTCGTTTGACGTGATGGTTCTGCCCTA
* * *
2294206 GTCAAACTCTTTTCA-TTCTCATTTGACATGATGGTTCTACCCTA
1 GTCAAACTCTTTTCACTT-TCGTTTGACGTGATGGTTCTGCCCTA
* * * * * *
2294250 GTTAAA-TGCATTTCACCTTT-GTTTGACGTGATGGTTTTACCTTG
1 GTCAAACT-CTTTTCA-CTTTCGTTTGACGTGATGGTTCTGCCCTA
* * * ** *
2294294 GTCAAACTCTTTTCATTTTCATTTGACGTGATAGTTCAACCCTG
1 GTCAAACTCTTTTCACTTTCGTTTGACGTGATGGTTCTGCCCTA
* * * * *
2294338 GTCAAACTCTTTTCA-TTCTCATTTGACATGAAGGTTCTACCCTG
1 GTCAAACTCTTTTCACTT-TCGTTTGACGTGATGGTTCTGCCCTA
* *
2294382 GTCAAACTAC-TTTCACTTTCGTTTGACGTGATGGTTCTGCCTTG
1 GTCAAACT-CTTTTCACTTTCGTTTGACGTGATGGTTCTGCCCTA
* * * * *
2294426 GTCAAACTCCTTTT-ATTTTCGTCTGATGTGATGGTTTTGCCCTG
1 GTCAAACT-CTTTTCACTTTCGTTTGACGTGATGGTTCTGCCCTA
* * *
2294470 GTCAAACTCTTTTTGA-TTTCGTTTGATGTTATGGTTCTGCCCTA
1 GTCAAACTC-TTTTCACTTTCGTTTGACGTGATGGTTCTGCCCTA
* * * ** *
2294514 GTCAAATTCCTTTCATTTTTATTTGACGTGATGGTTCTACCCTCA
1 GTCAAACTCTTTTCACTTTCGTTTGACGTGATGGTTCTGCCCT-A
* * *
2294559 -TCAAACTCCTTTCGCTTTCGTTTGACGTGATGGTTCTGCCCTG
1 GTCAAACTCTTTTCACTTTCGTTTGACGTGATGGTTCTGCCCTA
* * * * * * *
2294602 GTAAAACTCCTTTCGCTTTTGTTTGATGTGATGATT-TAGCCGTA
1 GTCAAACTCTTTTCACTTTCGTTTGACGTGATGGTTCT-GCCCTA
* *
2294646 GTCAAACTCTTTTCA-TCCTCGTTTGACATGATGGTTCTGCCCT
1 GTCAAACTCTTTTCACT-TTCGTTTGACGTGATGGTTCTGCCCT
2294689 GGTTGAATTT
Statistics
Matches: 753, Mismatches: 146, Indels: 48
0.80 0.15 0.05
Matches are distributed among these distances:
43 18 0.02
44 718 0.95
45 15 0.02
46 2 0.00
ACGTcount: A:0.18, C:0.21, G:0.17, T:0.44
Consensus pattern (44 bp):
GTCAAACTCTTTTCACTTTCGTTTGACGTGATGGTTCTGCCCTA
Found at i:2294823 original size:42 final size:41
Alignment explanation
Indices: 2294718--2294928 Score: 156
Period size: 42 Copynumber: 5.0 Consensus size: 41
2294708 AACCTTATTA
* * * * * *
2294718 GGTCAACTTTTTTATCCTTTATTTACTTGTCGACTTAGTACTA
1 GGTCAAC-TTTTTATCCTTTGTTGACCTATCGGCTTAGT-CTT
* * * *
2294761 GGTAAATCCTTTTATCCTTTGTTGACTTGTCGG-TTCAGTCTT
1 GGTCAA-CTTTTTATCCTTTGTTGACCTATCGGCTT-AGTCTT
* * *
2294803 GATCAACTTTGTTATCCTTTGTTTACCTATCGGCTTAGTCCTG
1 GGTCAACTTT-TTATCCTTTGTTGACCTATCGGCTTAGT-CTT
* * * *
2294846 GGTAAATCTTTTTATCCTTTATTGACTTATCGG-TTCAATCTT
1 GGTCAA-CTTTTTATCCTTTGTTGACCTATCGGCTT-AGTCTT
* *
2294888 GGTCAACTTTTGTATCCTTTGTTCACCTGTCGGCTTAGTCT
1 GGTCAACTTTT-TATCCTTTGTTGACCTATCGGCTTAGTCT
2294929 CGGGTAACCC
Statistics
Matches: 133, Mismatches: 26, Indels: 19
0.75 0.15 0.11
Matches are distributed among these distances:
41 8 0.06
42 60 0.45
43 60 0.45
44 5 0.04
ACGTcount: A:0.17, C:0.20, G:0.16, T:0.47
Consensus pattern (41 bp):
GGTCAACTTTTTATCCTTTGTTGACCTATCGGCTTAGTCTT
Found at i:2294863 original size:85 final size:83
Alignment explanation
Indices: 2294720--2294935 Score: 279
Period size: 85 Copynumber: 2.5 Consensus size: 83
2294710 CCTTATTAGG
* * * * *
2294720 TCAACTTTTTTATCCTTTATTTACTTGTCGACTTAGTACTAGGTAAATCCTTTTATCCTTTGTTG
1 TCAAC-TTTTTATCCTTTGTTTACCTGTCGGCTTAGT-CTGGGTAAATCCTTTTATCCTTTATTG
* *
2294785 ACTTGTCGGTTCAGTCTTGA
64 ACTTATCGGTTCAATCTTGA
* *
2294805 TCAACTTTGTTATCCTTTGTTTACCTATCGGCTTAGTCCTGGGTAAATCTTTTTATCCTTTATTG
1 TCAACTTT-TTATCCTTTGTTTACCTGTCGGCTTAGT-CTGGGTAAATCCTTTTATCCTTTATTG
*
2294870 ACTTATCGGTTCAATCTTGG
64 ACTTATCGGTTCAATCTTGA
*
2294890 TCAACTTTTGTATCCTTTGTTCACCTGTCGGCTTAGTCTCGGGTAA
1 TCAACTTTT-TATCCTTTGTTTACCTGTCGGCTTAGTCT-GGGTAA
2294936 CCCTTTCATA
Statistics
Matches: 115, Mismatches: 13, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
84 6 0.05
85 109 0.95
ACGTcount: A:0.18, C:0.20, G:0.16, T:0.46
Consensus pattern (83 bp):
TCAACTTTTTATCCTTTGTTTACCTGTCGGCTTAGTCTGGGTAAATCCTTTTATCCTTTATTGAC
TTATCGGTTCAATCTTGA
Found at i:2298497 original size:149 final size:149
Alignment explanation
Indices: 2298299--2298758 Score: 427
Period size: 149 Copynumber: 3.1 Consensus size: 149
2298289 ATTGAGTCCA
* * * * *
2298299 AATTTGTCATCA-AGT-AGCTTCTTTGCCAAGAGTACATATTAGGCATAGGTTCGCTTTTCCTTT
1 AATTTGTCA-CAGAGTCA-CTTCTATGCCGAGGGTACATATTAGGCGTAGGTTTGCTTTTCCTTT
* * * *
2298362 CTAAGTCTTTTAGGGTTATCGAAATACTTTCACGTTGAAGGTACACCCATAAGGGCATT-TTCAT
64 TTAAGTCCTTTAGGGTTACCGAAATACTTTCACGTTGAAGGTACACCCATAAGGACATTATT-AT
*
2298426 AATTTTTTTAGAACCGAC-TCTT
128 AATTTTTCTAGAACCGACTTC-T
* * * *
2298448 ACTTTGTCAACAG-GTTACTTCTATGCCGAGGGTACATATTAGGTGTAGGTTTGCTTTTTCTTTT
1 AATTTGTC-ACAGAGTCACTTCTATGCCGAGGGTACATATTAGGCGTAGGTTTGCTTTTCCTTTT
* * * * * *
2298512 TAAGTCCTTTAGGGTTACCGATATACTTTCATGTTGGAGGTATACCTATAAGGACATTATTGTAA
65 TAAGTCCTTTAGGGTTACCGAAATACTTTCACGTTGAAGGTACACCCATAAGGACATTATTATAA
* *
2298577 TTTTTCTAGAACTGAGTTCT
130 TTTTTCTAGAACCGACTTCT
* * * **
2298597 AATTTGTCACCGAGTCGCTTCTATGCTGAGGGTACGCATTAGGCGTAGGTTTGCTTTTCCTTTTT
1 AATTTGTCACAGAGTCACTTCTATGCCGAGGGTACATATTAGGCGTAGGTTTGCTTTTCCTTTTT
* * * * * * * * **
2298662 AAGTCCTCTAGGATCACC-AAACA-TTTCTAGGTTGATGGT-CGA-CCTTAAGGACCTT-TTAGC
66 AAGTCCTTTAGGGTTACCGAAATACTTTC-ACGTTGAAGGTAC-ACCCATAAGGACATTATTATA
* *
2298722 ATTTTTCTAGAATCGAGTTCT
129 ATTTTTCTAGAACCGACTTCT
*
2298743 AATTTGTCACCGAGTC
1 AATTTGTCACAGAGTC
2298759 CGCTTTTACA
Statistics
Matches: 256, Mismatches: 47, Indels: 19
0.80 0.15 0.06
Matches are distributed among these distances:
146 37 0.14
147 14 0.05
148 15 0.06
149 184 0.72
150 6 0.02
ACGTcount: A:0.24, C:0.18, G:0.19, T:0.39
Consensus pattern (149 bp):
AATTTGTCACAGAGTCACTTCTATGCCGAGGGTACATATTAGGCGTAGGTTTGCTTTTCCTTTTT
AAGTCCTTTAGGGTTACCGAAATACTTTCACGTTGAAGGTACACCCATAAGGACATTATTATAAT
TTTTCTAGAACCGACTTCT
Found at i:2298832 original size:146 final size:146
Alignment explanation
Indices: 2298576--2298845 Score: 337
Period size: 146 Copynumber: 1.8 Consensus size: 146
2298566 CATTATTGTA
** * * * *
2298576 ATTTTTCTAGAACTGAGTTCTAATTTGTCACCGAGTCGCTTCTATGCTGAGGGTACGCATTAGGC
1 ATTTTTCTAGAACTGAGTTCTAATTTGTCACCGAGTCGCTTCTACACTGAAGGTACGAATCAGGA
* * * * *
2298641 GTAGGTTTGCTTTTCCTTTTTAAGTCCTCTAGGATCACCAAACATTTCTAGGTTGATGGTCGACC
66 GTAGGTTTGCTTTTCATCTATAAGTCCTCTAGGATCACCAAACATTTCTAAGTTAATGGTCGACC
2298706 TTAAGGACCTTTTAGC
131 TTAAGGACCTTTTAGC
* *
2298722 ATTTTTCTAGAA-TCGAGTTCTAATTTGTCACCGAGTCCGCTTTTACACTGAAGGTATGAATCAG
1 ATTTTTCTAGAACT-GAGTTCTAATTTGTCACCGAGT-CGCTTCTACACTGAAGGTACGAATCAG
* * * * **
2298786 GAGTAGGTTTG-TTTTTATCTATATGTCCTTTAGGATCATCGGACATTTCTAAGTTAATGG
64 GAGTAGGTTTGCTTTTCATCTATAAGTCCTCTAGGATCACCAAACATTTCTAAGTTAATGG
2298846 AAAACCTTAG
Statistics
Matches: 103, Mismatches: 19, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
145 1 0.01
146 72 0.70
147 30 0.29
ACGTcount: A:0.23, C:0.18, G:0.21, T:0.38
Consensus pattern (146 bp):
ATTTTTCTAGAACTGAGTTCTAATTTGTCACCGAGTCGCTTCTACACTGAAGGTACGAATCAGGA
GTAGGTTTGCTTTTCATCTATAAGTCCTCTAGGATCACCAAACATTTCTAAGTTAATGGTCGACC
TTAAGGACCTTTTAGC
Found at i:2304274 original size:17 final size:17
Alignment explanation
Indices: 2304252--2304286 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
2304242 TTAGGTGGTG
*
2304252 TTTCATTCATGCTTTCA
1 TTTCATGCATGCTTTCA
2304269 TTTCATGCATGCTTTCA
1 TTTCATGCATGCTTTCA
2304286 T
1 T
2304287 ACATGGACAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.17, C:0.23, G:0.09, T:0.51
Consensus pattern (17 bp):
TTTCATGCATGCTTTCA
Found at i:2306529 original size:157 final size:155
Alignment explanation
Indices: 2306300--2306787 Score: 371
Period size: 157 Copynumber: 3.1 Consensus size: 155
2306290 TAATGAGATA
* * * **
2306300 AACCTATCCTAAATACCTACCTTCGGCATAAAAGTGGACCCGGTGACAACCTAAGACTCTATTCT
1 AACCTATCATAAATACCCACCATCGGCATAAAAGCAGACCCGGTGACAACCTAAGACTCTATTCT
* * * * *
2306365 AACAAATTACAAAAATATCCCTAAAGGATATCTTCGACGTAGAAGTGCCCGATATCCCTAAAAGA
66 AACAAATTACAAAAATACCCCTAAAGGATACCTTCGACGTAAAAGTACCC-ATACCCCTAAAAGA
2306430 CTTAAAAAGGATTACAAAAGGGGATG
130 CTTAAAAAGGATTACAAAAGGGGATG
* * *
2306456 AACCTATTATAAATACCCACCATCGGCATAAAAAGCAGACCCGGTGAGAACCTAAGACT-TGGTT
1 AACCTATCATAAATACCCACCATCGGCAT-AAAAGCAGACCCGGTGACAACCTAAGACTCT-ATT
* ** * ** * * *
2306520 TTAGA-AAATTATGAAAATGCCCCTAGGGGATACCTTTGACGTAAAAGTACTCATACCCCTAAAG
64 CTA-ACAAATTACAAAAATACCCCTAAAGGATACCTTCGACGTAAAAGTACCCATACCCCTAAAA
* ** * *
2306584 GATTTAAAAAGGATTTTAAAA-AGAATG
128 GACTTAAAAAGGATTACAAAAGGGGATG
* * * ** * * *** *
2306611 AACCTATCCTAAATATCTACTTTCGGCATAAAATCAGACCTGGTGATGTCCTAAGAGT-TAGTTC
1 AACCTATCATAAATACCCACCATCGGCATAAAAGCAGACCCGGTGACAACCTAAGACTCTA-TTC
* * * ** * *
2306675 TAAAAAATTATAAAAATGCCCCTATGGGTATACCTTCAACATAAAAGTATCCTGGCA-A-CCCTA
65 TAACAAATTACAAAAATACCCCTAAAGG-ATACCTTCGACGTAAAAGTA-CC---CATACCCCTA
* * * *
2306738 AAAGACTTAAAAA-GACTA-AAGATGTGATG
125 AAAGACTTAAAAAGGATTACAAAAGGGGATG
* *
2306767 AACCTATCCTAAATGCCCACC
1 AACCTATCATAAATACCCACC
2306788 TTCAACATAA
Statistics
Matches: 262, Mismatches: 59, Indels: 22
0.76 0.17 0.06
Matches are distributed among these distances:
153 1 0.00
154 50 0.19
155 47 0.18
156 78 0.30
157 82 0.31
158 2 0.01
159 2 0.01
ACGTcount: A:0.39, C:0.21, G:0.16, T:0.24
Consensus pattern (155 bp):
AACCTATCATAAATACCCACCATCGGCATAAAAGCAGACCCGGTGACAACCTAAGACTCTATTCT
AACAAATTACAAAAATACCCCTAAAGGATACCTTCGACGTAAAAGTACCCATACCCCTAAAAGAC
TTAAAAAGGATTACAAAAGGGGATG
Found at i:2306691 original size:154 final size:153
Alignment explanation
Indices: 2306212--2306710 Score: 464
Period size: 154 Copynumber: 3.2 Consensus size: 153
2306202 TAAGTTTAAG
* * * * * * ** *
2306212 AAAAATTATGAAAATGCCCTTAGGGGATAACTTTGATGCAAAAGCACTCGATACCTTTAAGGGAC
1 AAAAATTATAAAAATGCCCCTAGGGGATACCTTTGACGTAAAAGTACTCGATACCCCTAAAGGAC
* ** * *
2306277 TCAAAAAGGATTATAATGAGATAAACCTATCCTAAATACCTACCTTCGGCATAAAAGT-GGACCC
66 TTAAAAAGGATTATAAAAAGATGAACCTATCCTAAATACCTACCTTCGGCATAAAA-TCAGACCC
*
2306341 GGTGACAACCTAAGACTCTA-TTCTA
130 GGTGA-GACCTAAGACT-TAGTTCTA
* * ** ** * * * * * * *
2306366 ACAAATTACAAAAATATCCCTAAAGGATATCTTCGACGTAGAAGTGCCCGATATCCCTAAAAGAC
1 AAAAATTATAAAAATGCCCCTAGGGGATACCTTTGACGTAAAAGTACTCGATACCCCTAAAGGAC
* * ** * * *
2306431 TTAAAAAGGATTACAAAAGGGGATGAACCTATTATAAATACCCACCATCGGCATAAAAAGCAGAC
66 TTAAAAAGGATTATAAAA--AGATGAACCTATCCTAAATACCTACCTTCGGCAT-AAAATCAGAC
* *
2306496 CCGGTGAGAACCTAAGACTTGGTTTTA
128 CCGGTGAG-ACCTAAGACTTAGTTCTA
* * *
2306523 GAAAATTATGAAAATGCCCCTAGGGGATACCTTTGACGTAAAAGTACTC-ATACCCCTAAAGGAT
1 AAAAATTATAAAAATGCCCCTAGGGGATACCTTTGACGTAAAAGTACTCGATACCCCTAAAGGAC
* * * *
2306587 TTAAAAAGGATTTTAAAAAGAATGAACCTATCCTAAATATCTACTTTCGGCATAAAATCAGACCT
66 TTAAAAAGGATTATAAAAAG-ATGAACCTATCCTAAATACCTACCTTCGGCATAAAATCAGACCC
* *
2306652 GGTGATGTCCTAAGAGTTAGTTCTA
130 GGTGA-GACCTAAGACTTAGTTCTA
*
2306677 AAAAATTATAAAAATGCCCCTATGGGTATACCTT
1 AAAAATTATAAAAATGCCCCTA-GGGGATACCTT
2306711 CAACATAAAA
Statistics
Matches: 266, Mismatches: 70, Indels: 17
0.75 0.20 0.05
Matches are distributed among these distances:
154 108 0.41
155 37 0.14
156 57 0.21
157 64 0.24
ACGTcount: A:0.39, C:0.19, G:0.17, T:0.25
Consensus pattern (153 bp):
AAAAATTATAAAAATGCCCCTAGGGGATACCTTTGACGTAAAAGTACTCGATACCCCTAAAGGAC
TTAAAAAGGATTATAAAAAGATGAACCTATCCTAAATACCTACCTTCGGCATAAAATCAGACCCG
GTGAGACCTAAGACTTAGTTCTA
Found at i:2306720 original size:155 final size:154
Alignment explanation
Indices: 2306212--2306790 Score: 438
Period size: 154 Copynumber: 3.7 Consensus size: 154
2306202 TAAGTTTAAG
* * * * * * * * ** **
2306212 AAAAATTATGAAAATGCCCTTAGGGGATAACTTTGATGCAAAAGCACTCGATACCTTTAAGGGAC
1 AAAAATTATAAAAATGCCCCTA-GGGATACCTTCGACGTAAAAGTACCCGATACCCCTAAAAGAC
* * * * *
2306277 TCAAAAAGGATTA-TAATGAG-ATAAACCTATCCTAAATACCTACCTTCGGCATAAAAGT-GGAC
65 TTAAAAAGGATTACAAAAGAGAATGAACCTATCCTAAATACCTACCTTCGGCATAAAA-TCAGAC
*
2306339 CCGGTGACAACCTAAGACTCTA-TTCTA
129 CCGGTGA-GACCTAAGACT-TAGTTCTA
* * ** * * * * *
2306366 ACAAATTACAAAAATATCCCTAAAGGATATCTTCGACGTAGAAGTGCCCGATATCCCTAAAAGAC
1 AAAAATTATAAAAATGCCCCT-AGGGATACCTTCGACGTAAAAGTACCCGATACCCCTAAAAGAC
* * ** * * *
2306431 TTAAAAAGGATTACAAAAGGGGATGAACCTATTATAAATACCCACCATCGGCATAAAAAGCAGAC
65 TTAAAAAGGATTACAAAAGAGAATGAACCTATCCTAAATACCTACCTTCGGCAT-AAAATCAGAC
* *
2306496 CCGGTGAGAACCTAAGACTTGGTTTTA
129 CCGGTGAG-ACCTAAGACTTAGTTCTA
* * * * * *
2306523 GAAAATTATGAAAATGCCCCTAGGGGATACCTTTGACGTAAAAGTACTC-ATACCCCTAAAGGAT
1 AAAAATTATAAAAATGCCCCTA-GGGATACCTTCGACGTAAAAGTACCCGATACCCCTAAAAGAC
** * *
2306587 TTAAAAAGGATTTTAAAA-AGAATGAACCTATCCTAAATATCTACTTTCGGCATAAAATCAGACC
65 TTAAAAAGGATTACAAAAGAGAATGAACCTATCCTAAATACCTACCTTCGGCATAAAATCAGACC
* * *
2306651 TGGTGATGTCCTAAGAGTTAGTTCTA
130 CGGTGA-GACCTAAGACTTAGTTCTA
* * * ** *
2306677 AAAAATTATAAAAATGCCCCTATGGGTATACCTTCAACATAAAAGTATCCTGGCAACCCTAAAAG
1 AAAAATTATAAAAATGCCCCTA-GGG-ATACCTTCGACGTAAAAGTA-CCCGATACCCCTAAAAG
* * * * *
2306742 ACTTAAAAA-GACTA-AAGATGTG-ATGAACCTATCCTAAATGCCCACCTTC
63 ACTTAAAAAGGATTACAA-AAGAGAATGAACCTATCCTAAATACCTACCTTC
2306791 AACATAAAGG
Statistics
Matches: 325, Mismatches: 86, Indels: 26
0.74 0.20 0.06
Matches are distributed among these distances:
154 107 0.33
155 52 0.16
156 85 0.26
157 81 0.25
ACGTcount: A:0.39, C:0.20, G:0.16, T:0.25
Consensus pattern (154 bp):
AAAAATTATAAAAATGCCCCTAGGGATACCTTCGACGTAAAAGTACCCGATACCCCTAAAAGACT
TAAAAAGGATTACAAAAGAGAATGAACCTATCCTAAATACCTACCTTCGGCATAAAATCAGACCC
GGTGAGACCTAAGACTTAGTTCTA
Found at i:2306834 original size:117 final size:117
Alignment explanation
Indices: 2306687--2306915 Score: 368
Period size: 117 Copynumber: 2.0 Consensus size: 117
2306677 AAAAATTATA
* *
2306687 AAAATGCCCCTATGGGTATACCTTCAACATAAAAGTATCCTGGCAACCCTAAAAGACTTAAAAAG
1 AAAATGCCCCTACGAGTATACCTTCAACATAAAAGTATCCTGGCAACCCTAAAAGACTTAAAAAG
* *
2306752 ACTAAAGATGTGATGAACCTATCCTAAATGCCCACCTTCAACATAAAGGATG
66 ACTAAAGATGGGATGAACCTATCCTAAATGCCCACATTCAACATAAAGGATG
* * * *
2306804 AAAATGCCCCTACGAGTATACTTTCGACATAAAAGTATCCTGGCAACCCTTAAGGACTTAAAAAG
1 AAAATGCCCCTACGAGTATACCTTCAACATAAAAGTATCCTGGCAACCCTAAAAGACTTAAAAAG
* *
2306869 ACTAAAGATGGGATGAACTTATCCTAAATGCCCACATTCAGCATAAA
66 ACTAAAGATGGGATGAACCTATCCTAAATGCCCACATTCAACATAAA
2306916 AGCGGACTCG
Statistics
Matches: 102, Mismatches: 10, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
117 102 1.00
ACGTcount: A:0.40, C:0.23, G:0.15, T:0.23
Consensus pattern (117 bp):
AAAATGCCCCTACGAGTATACCTTCAACATAAAAGTATCCTGGCAACCCTAAAAGACTTAAAAAG
ACTAAAGATGGGATGAACCTATCCTAAATGCCCACATTCAACATAAAGGATG
Found at i:2313010 original size:155 final size:157
Alignment explanation
Indices: 2312840--2313460 Score: 541
Period size: 165 Copynumber: 3.9 Consensus size: 157
2312830 AAAAACTCAT
* *
2312840 GAAAATGAATGAATTTTTGAAAATTGATTTAATATAAAATAAATAATATTATTTGATGAATTTTA
1 GAAAATGAATGAATTTTTGAAAAATGATTTAATAT-AAATAAATAATAATATTTGATGAATTTTA
*
2312905 AAAATTAAAAACCAA-GAGAATCCCCCCGAAAAAATTTAC-AGAGTAGAAAACTTCT-TATTTCG
65 AAAATTAAAAACCAAGGAAAATCCCCCCGAAAAAATTTACGA-AGTAGAAAAC-TCTGTATTTCG
*
2312967 AAAATA-GGAGAATTTCATGGAAAAAAT-GA
128 AAAATAGGGA-AATTTCATGGAAAAAATACA
* *
2312996 -AAAATGAATGAATTTTT-AAAAACTAATTTAATATGAAATAAATAATAATATTTTATGAATTTT
1 GAAAATGAATGAATTTTTGAAAAA-TGATTTAATAT-AAATAAATAATAATATTTGATGAATTTT
* * *
2313059 AAAAATTAAAAACTAAGGAAAATCTCCCCGAAAAAATTTACGAAGTAGAAAACTCTGTATTTCGT
64 AAAAATTAAAAACCAAGGAAAATCCCCCCGAAAAAATTTACGAAGTAGAAAACTCTGTATTTCGA
2313124 AAATAGGGAAATTTCATGGAAAAAATAAAAAACACA
129 AAATAGGGAAATTTCATGGAAAAAAT-------ACA
* *
2313160 TGAAAATGAATGAATTTTTGAAAAATGATTTAATATGAATCAAATGATAATATTTGATGAATTTT
1 -GAAAATGAATGAATTTTTGAAAAATGATTTAATATAAAT-AAATAATAATATTTGATGAATTTT
* * * ** * * * *
2313225 AAAAATTGAAAA-CAGAGAAAAATCACCTTGCAAAAATTTACAGAA-TTGAAAACACTATATTTT
64 AAAAATTAAAAACCA-AGGAAAATCCCCCCGAAAAAATTTAC-GAAGTAGAAAACTCTGTA-TTT
* * * *
2313288 GGAAAA-AGAG-AATTTCA-AGAAAAAATTTAAAAATTTA
126 CGAAAATAGGGAAATTTCATGGAAAAAA--T----A--CA
* * * *
2313325 TGAAAATGAATGAATTTTT-AAGAACTGACTTAATATGAATTAAATAACAATATTTGATGAATTT
1 -GAAAATGAATGAATTTTTGAA-AAATGATTTAATAT-AAATAAATAATAATATTTGATGAATTT
** * * * * * * *
2313389 TAAAAATTTTAAGCCCATGAAAATCCTCCCAAAAAAATTTACGAAGAAGAAAACCCTGTAATTT-
63 TAAAAATTAAAAACCAAGGAAAATCCCCCCGAAAAAATTTACGAAGTAGAAAACTCTGT-ATTTC
2313453 GAAAATAG
127 GAAAATAG
2313461 AAGAAATTCC
Statistics
Matches: 383, Mismatches: 52, Indels: 51
0.79 0.11 0.10
Matches are distributed among these distances:
154 4 0.01
155 71 0.19
156 61 0.16
157 4 0.01
163 4 0.01
164 18 0.05
165 106 0.28
166 100 0.26
167 15 0.04
ACGTcount: A:0.50, C:0.08, G:0.12, T:0.30
Consensus pattern (157 bp):
GAAAATGAATGAATTTTTGAAAAATGATTTAATATAAATAAATAATAATATTTGATGAATTTTAA
AAATTAAAAACCAAGGAAAATCCCCCCGAAAAAATTTACGAAGTAGAAAACTCTGTATTTCGAAA
ATAGGGAAATTTCATGGAAAAAATACA
Found at i:2313175 original size:166 final size:163
Alignment explanation
Indices: 2312996--2313448 Score: 491
Period size: 166 Copynumber: 2.7 Consensus size: 163
2312986 GAAAAAATGA
* *
2312996 AAAATGAATGAATTTTTAAAAACTAATTTAATATGAAATAAATAATAATATTTTATGAATTTTAA
1 AAAATGAATGAATTTTTAAAAACTGATTTAATATGAAATAAATAATAATATTTGATGAATTTTAA
* *
2313061 AAATTAAAAACTAAGGAAAATCTCCCCGAAAAAATTTACGAAGTAGAAAACTCTGTATTTCGTAA
66 AAATTAAAAAC-AAGGAAAATC-CCCCGAAAAAATTTACGAAGTAGAAAACACTGTATTTCGGAA
* * *
2313126 ATAGGGAAATTTCATGGAAAAAA-TAAAAAACACATG
129 AAAGAG-AATTTCA-AGAAAAAATTAAAAAACACATG
*
2313162 AAAATGAATGAATTTTTGAAAAA-TGATTTAATATG-AATCAAATGATAATATTTGATGAATTTT
1 AAAATGAATGAATTTTT-AAAAACTGATTTAATATGAAAT-AAATAATAATATTTGATGAATTTT
* * ** * * * *
2313225 AAAAATTGAAAACAGAGAAAAATCACCTTGCAAAAATTTACAGAA-TTGAAAACACTATATTTTG
64 AAAAATTAAAAACA-AGGAAAATC-CCCCGAAAAAATTTAC-GAAGTAGAAAACACTGTATTTCG
* ***
2313289 GAAAAAGAGAATTTCAAGAAAAAATTTAAAAATTTATG
126 GAAAAAGAGAATTTCAAGAAAAAATTAAAAAACACATG
* * * *
2313327 AAAATGAATGAATTTTTAAGAACTGACTTAATATGAATTAAATAACAATATTTGATGAATTTTAA
1 AAAATGAATGAATTTTTAAAAACTGATTTAATATGAAATAAATAATAATATTTGATGAATTTTAA
* ** * * * * *
2313392 AAATTTTAAGCCCATGAAAATCCTCCCAAAAAAATTTACGAAGAAGAAAACCCTGTA
66 AAA-TTAAAAACAAGGAAAATCC-CCCGAAAAAATTTACGAAGTAGAAAACACTGTA
2313449 ATTTGAAAAT
Statistics
Matches: 237, Mismatches: 40, Indels: 21
0.80 0.13 0.07
Matches are distributed among these distances:
164 15 0.06
165 103 0.43
166 111 0.47
167 8 0.03
ACGTcount: A:0.50, C:0.09, G:0.11, T:0.30
Consensus pattern (163 bp):
AAAATGAATGAATTTTTAAAAACTGATTTAATATGAAATAAATAATAATATTTGATGAATTTTAA
AAATTAAAAACAAGGAAAATCCCCCGAAAAAATTTACGAAGTAGAAAACACTGTATTTCGGAAAA
AGAGAATTTCAAGAAAAAATTAAAAAACACATG
Found at i:2313427 original size:165 final size:163
Alignment explanation
Indices: 2312996--2313555 Score: 465
Period size: 166 Copynumber: 3.4 Consensus size: 163
2312986 GAAAAAATGA
* * *
2312996 AAAATGAATGAATTTTTAAAAACTAATTTAATATGAAATAAATAATAATATTTTATGAATTTTAA
1 AAAATGAATGAATTTTT-AAAACTGATTTAATATGAATTAAATAATAATATTTGATGAATTTTAA
* * * *
2313061 AAATTAAAAACTAAGGAAAAT-CTCCCCGAAAAAATTTACGAAGTAGAAAACTCTGTATTTCGTA
65 AAATTAAAAAC-AAAGAAAATCCT-CCC-AAAAAATTTACGAAGTAGAAAACACTATATTTCGGA
* * *
2313125 AATAGGGAAATTTCATGGAAAAAATAAAAAACACATG
127 AAAAGAGAAATTTCATAGAAAAAATAAAAAACACATG
* * *
2313162 AAAATGAATGAATTTTTGAAAAATGATTTAATATGAATCAAATGATAATATTTGATGAATTTTAA
1 AAAATGAATGAATTTTT-AAAACTGATTTAATATGAATTAAATAATAATATTTGATGAATTTTAA
* * ** * *
2313227 AAATTGAAAACAGAGAAAAATCACCTTGC-AAAAATTTACAGAA-TTGAAAACACTATATTTTGG
65 AAATTAAAAACAAAG-AAAAT--CCTCCCAAAAAATTTAC-GAAGTAGAAAACACTATATTTCGG
* ***
2313290 AAAAAGAG-AATTTCA-AGAAAAAATTTAAAAATTTATG
126 AAAAAGAGAAATTTCATAGAAAAAA-TAAAAAACACATG
* *
2313327 AAAATGAATGAATTTTTAAGAACTGACTTAATATGAATTAAATAACAATATTTGATGAATTTTAA
1 AAAATGAATGAATTTTTAA-AACTGATTTAATATGAATTAAATAATAATATTTGATGAATTTTAA
* ** * * * * *
2313392 AAATTTTAAGCCCATGAAAATCCTCCCAAAAAAATTTACGAAGAAGAAAACCCTGTAATTT--GA
65 AAA-TTAAAAACAAAGAAAATCCTCCC-AAAAAATTTACGAAGTAGAAAACACTAT-ATTTCGGA
* * * * *
2313455 AAATAGAAGAAATTCCA-A-AAGAAAATCAATAACTCA-A
127 AAA-AG-AGAAATTTCATAGAA-AAAATAAAAAACACATG
* * * * * ** *
2313492 AAAATAAAAGGAATTTTTTAAAACTAATTTAATAAGATTTAAACGATAATATTTGAAGAATTTT
1 AAAAT-GAATGAA-TTTTTAAAACTGATTTAATATGAATTAAATAATAATATTTGATGAATTTT
2313556 GATGCTTAAA
Statistics
Matches: 319, Mismatches: 57, Indels: 36
0.77 0.14 0.09
Matches are distributed among these distances:
163 4 0.01
164 17 0.05
165 109 0.34
166 165 0.52
167 21 0.07
168 1 0.00
169 2 0.01
ACGTcount: A:0.51, C:0.08, G:0.11, T:0.30
Consensus pattern (163 bp):
AAAATGAATGAATTTTTAAAACTGATTTAATATGAATTAAATAATAATATTTGATGAATTTTAAA
AATTAAAAACAAAGAAAATCCTCCCAAAAAATTTACGAAGTAGAAAACACTATATTTCGGAAAAA
GAGAAATTTCATAGAAAAAATAAAAAACACATG
Found at i:2319736 original size:20 final size:21
Alignment explanation
Indices: 2319711--2319761 Score: 70
Period size: 20 Copynumber: 2.5 Consensus size: 21
2319701 ATAAGTTTTG
*
2319711 TATCGATACATTTA-TCATTA
1 TATCGATACATTTATTCAATA
*
2319731 TATCGATACA-TTATTCAATG
1 TATCGATACATTTATTCAATA
2319751 TATCGATACAT
1 TATCGATACAT
2319762 GCAGGCAAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
19 3 0.11
20 24 0.89
ACGTcount: A:0.35, C:0.16, G:0.08, T:0.41
Consensus pattern (21 bp):
TATCGATACATTTATTCAATA
Found at i:2333715 original size:17 final size:18
Alignment explanation
Indices: 2333695--2333744 Score: 70
Period size: 17 Copynumber: 2.9 Consensus size: 18
2333685 TGCTCTACCA
2333695 AAAAAAACAA-ACAAAAC
1 AAAAAAACAACACAAAAC
*
2333712 AAAAAAACAAGA-AAAAC
1 AAAAAAACAACACAAAAC
2333729 AAAAAAA-AACACAAAA
1 AAAAAAACAACACAAAA
2333745 AATGACAAAC
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
16 3 0.10
17 26 0.87
18 1 0.03
ACGTcount: A:0.84, C:0.14, G:0.02, T:0.00
Consensus pattern (18 bp):
AAAAAAACAACACAAAAC
Found at i:2333732 original size:35 final size:34
Alignment explanation
Indices: 2333693--2333761 Score: 86
Period size: 35 Copynumber: 2.0 Consensus size: 34
2333683 CATGCTCTAC
2333693 CAAAAAAAACAAACAAAACAA-AAAAACAAGAAAAA
1 CAAAAAAAA-AAACAAAA-AAGAAAAACAAGAAAAA
* *
2333728 CAAAAAAAAACACAAAAAATGACAAACAAGAAAA
1 CAAAAAAAAAAACAAAAAA-GAAAAACAAGAAAA
2333762 GGGGGAAGAA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
33 2 0.07
34 7 0.23
35 21 0.70
ACGTcount: A:0.80, C:0.14, G:0.04, T:0.01
Consensus pattern (34 bp):
CAAAAAAAAAAACAAAAAAGAAAAACAAGAAAAA
Found at i:2333736 original size:9 final size:9
Alignment explanation
Indices: 2333693--2333746 Score: 65
Period size: 9 Copynumber: 5.9 Consensus size: 9
2333683 CATGCTCTAC
2333693 CAAAAAAAA
1 CAAAAAAAA
*
2333702 CAAACAAAA
1 CAAAAAAAA
2333711 C-AAAAAAA
1 CAAAAAAAA
*
2333719 CAAGAAAAA
1 CAAAAAAAA
2333728 CAAAAAAAAA
1 C-AAAAAAAA
2333738 CACAAAAAA
1 CA-AAAAAA
2333747 TGACAAACAA
Statistics
Matches: 38, Mismatches: 4, Indels: 5
0.81 0.09 0.11
Matches are distributed among these distances:
8 7 0.18
9 17 0.45
10 14 0.37
ACGTcount: A:0.83, C:0.15, G:0.02, T:0.00
Consensus pattern (9 bp):
CAAAAAAAA
Found at i:2333753 original size:22 final size:22
Alignment explanation
Indices: 2333703--2333746 Score: 65
Period size: 21 Copynumber: 2.1 Consensus size: 22
2333693 CAAAAAAAAC
2333703 AAACAAAACAAAAAAACAAGAA
1 AAACAAAACAAAAAAACAAGAA
*
2333725 AAACAAAA-AAAAACACAA-AA
1 AAACAAAACAAAAAAACAAGAA
2333745 AA
1 AA
2333747 TGACAAACAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 4 0.19
21 9 0.43
22 8 0.38
ACGTcount: A:0.84, C:0.14, G:0.02, T:0.00
Consensus pattern (22 bp):
AAACAAAACAAAAAAACAAGAA
Found at i:2335053 original size:13 final size:13
Alignment explanation
Indices: 2335018--2335090 Score: 60
Period size: 13 Copynumber: 5.5 Consensus size: 13
2335008 AACAAAATTG
*
2335018 TTGTCAAGAAATT
1 TTGTCAAGAACTT
*
2335031 TTCATCAAGAACTT
1 TT-GTCAAGAACTT
*
2335045 TTGTCAAGAACAT
1 TTGTCAAGAACTT
*
2335058 GTGTC-AGAAAC-T
1 TTGTCAAG-AACTT
*
2335070 TTGTCAAGAAATGT
1 TTGTCAAGAACT-T
2335084 TTGTCAA
1 TTGTCAA
2335091 CATGAATCCC
Statistics
Matches: 48, Mismatches: 7, Indels: 9
0.75 0.11 0.14
Matches are distributed among these distances:
12 9 0.19
13 20 0.42
14 19 0.40
ACGTcount: A:0.36, C:0.14, G:0.16, T:0.34
Consensus pattern (13 bp):
TTGTCAAGAACTT
Found at i:2335088 original size:14 final size:13
Alignment explanation
Indices: 2335012--2335090 Score: 72
Period size: 14 Copynumber: 5.9 Consensus size: 13
2335002 ATTGTCAACA
2335012 AAATTGTTGTCAAG
1 AAATT-TTGTCAAG
*
2335026 AAATTTTCATCAAG
1 AAATTTT-GTCAAG
*
2335040 AACTTTTGTCAAG
1 AAATTTTGTCAAG
*
2335053 AACA-TGTGTC-AG
1 AA-ATTTTGTCAAG
*
2335065 AAACTTTGTCAAG
1 AAATTTTGTCAAG
2335078 AAATGTTTGTCAA
1 AAAT-TTTGTCAA
2335091 CATGAATCCC
Statistics
Matches: 53, Mismatches: 7, Indels: 10
0.76 0.10 0.14
Matches are distributed among these distances:
11 1 0.02
12 9 0.17
13 19 0.36
14 24 0.45
ACGTcount: A:0.37, C:0.13, G:0.16, T:0.34
Consensus pattern (13 bp):
AAATTTTGTCAAG
Found at i:2335776 original size:20 final size:20
Alignment explanation
Indices: 2335751--2335822 Score: 90
Period size: 20 Copynumber: 3.6 Consensus size: 20
2335741 TACCCAGATG
2335751 TATCGATACATTTTTCAATA
1 TATCGATACATTTTTCAATA
* * * *
2335771 TATCGATACATGTATGAATG
1 TATCGATACATTTTTCAATA
* *
2335791 CATCGATACATTCTTCAATA
1 TATCGATACATTTTTCAATA
2335811 TATCGATACATT
1 TATCGATACATT
2335823 CTGTCTTTTT
Statistics
Matches: 41, Mismatches: 11, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
20 41 1.00
ACGTcount: A:0.35, C:0.17, G:0.10, T:0.39
Consensus pattern (20 bp):
TATCGATACATTTTTCAATA
Found at i:2337628 original size:79 final size:79
Alignment explanation
Indices: 2337462--2337967 Score: 639
Period size: 79 Copynumber: 6.4 Consensus size: 79
2337452 GAGAAATTTA
* * * * * *
2337462 ATATTTTGGAGATAATAA-CGGGGTTGGAGTATCCCTTCAAAAATAACGGGTTTGGAGTATCCTC
1 ATATTTTAGAAATAA-AACCGGGGTTGGAGTATCCCCTCAGAAATAACGGGGTTGGAGTATCCCC
*
2337526 GATTATGAAAAATCG
65 GATTATGAAAAATTG
* * * * **
2337541 ATGA-TTTAGAAATAAAATCGGGATTAGG-GTATCCCCTCGGAAATAACGGGGCTAAAGTATCCC
1 AT-ATTTTAGAAATAAAACCGGGGTT-GGAGTATCCCCTCAGAAATAACGGGGTTGGAGTATCCC
*
2337604 CGACTATGAAAAATTG
64 CGATTATGAAAAATTG
* *
2337620 ATTTTTTAGAAATAAAACCGGGGTTGGAGTATCCCCTCAAAAATAACGGGGTTGGAGTATCCCCG
1 ATATTTTAGAAATAAAACCGGGGTTGGAGTATCCCCTCAGAAATAACGGGGTTGGAGTATCCCCG
*
2337685 ATTAAGAAAAATTG
66 ATTATGAAAAATTG
* *
2337699 ATATTTTAGAAATAAAGCCGGGGTTGGAGTATCCCCTCAGAAATAACGGGGCTGGAGTATCCCCG
1 ATATTTTAGAAATAAAACCGGGGTTGGAGTATCCCCTCAGAAATAACGGGGTTGGAGTATCCCCG
*
2337764 ACTATGAAAAATTG
66 ATTATGAAAAATTG
*
2337778 ATATTTTAGAAATAAAACCGGGGTTGGAGTATCCCTTC-GAAAATAACGGGGTTGGAGTATCCCC
1 ATATTTTAGAAATAAAACCGGGGTTGGAGTATCCCCTCAG-AAATAACGGGGTTGGAGTATCCCC
* *
2337842 GATTAAGAAAAATTA
65 GATTATGAAAAATTG
** *
2337857 ATATTTTAGAAATAAAGTCGGGGTTGGAGTATCCCCTCAGAAATAACGGGGTTAGAGTATCCCCG
1 ATATTTTAGAAATAAAACCGGGGTTGGAGTATCCCCTCAGAAATAACGGGGTTGGAGTATCCCCG
2337922 ---ATGAAAAATTG
66 ATTATGAAAAATTG
* * ** * *
2337933 ATGTTTTGGAAACGAAACCGGGATTGAAGTATCCC
1 ATATTTTAGAAATAAAACCGGGGTTGGAGTATCCC
2337968 TGAGATGAAA
Statistics
Matches: 371, Mismatches: 49, Indels: 17
0.85 0.11 0.04
Matches are distributed among these distances:
76 36 0.10
78 5 0.01
79 326 0.88
80 4 0.01
ACGTcount: A:0.35, C:0.15, G:0.24, T:0.26
Consensus pattern (79 bp):
ATATTTTAGAAATAAAACCGGGGTTGGAGTATCCCCTCAGAAATAACGGGGTTGGAGTATCCCCG
ATTATGAAAAATTG
Found at i:2337768 original size:158 final size:158
Alignment explanation
Indices: 2337462--2337968 Score: 738
Period size: 158 Copynumber: 3.2 Consensus size: 158
2337452 GAGAAATTTA
* * * *
2337462 ATATTTTGGAGATAATAA-CGGGGTTGGAGTATCCCTTCAAAAATAACGGGTTTGGAGTATCCTC
1 ATATTTTAGAAATAA-AACCGGGGTTGGAGTATCCCTTCAAAAATAACGGGGTTGGAGTATCCCC
* * * * *
2337526 GATTATGAAAAATCGATGA-TTTAGAAATAAAATCGGGATTAGG-GTATCCCCTCGGAAATAACG
65 GATTAAGAAAAATTGAT-ATTTTAGAAATAAAGTCGGGGTT-GGAGTATCCCCTCAGAAATAACG
*
2337589 GGGCTAAAGTATCCCCGACTATGAAAAATTG
128 GGGCTAGAGTATCCCCGACTATGAAAAATTG
* *
2337620 ATTTTTTAGAAATAAAACCGGGGTTGGAGTATCCCCTCAAAAATAACGGGGTTGGAGTATCCCCG
1 ATATTTTAGAAATAAAACCGGGGTTGGAGTATCCCTTCAAAAATAACGGGGTTGGAGTATCCCCG
*
2337685 ATTAAGAAAAATTGATATTTTAGAAATAAAGCCGGGGTTGGAGTATCCCCTCAGAAATAACGGGG
66 ATTAAGAAAAATTGATATTTTAGAAATAAAGTCGGGGTTGGAGTATCCCCTCAGAAATAACGGGG
*
2337750 CTGGAGTATCCCCGACTATGAAAAATTG
131 CTAGAGTATCCCCGACTATGAAAAATTG
*
2337778 ATATTTTAGAAATAAAACCGGGGTTGGAGTATCCCTTCGAAAATAACGGGGTTGGAGTATCCCCG
1 ATATTTTAGAAATAAAACCGGGGTTGGAGTATCCCTTCAAAAATAACGGGGTTGGAGTATCCCCG
*
2337843 ATTAAGAAAAATTAATATTTTAGAAATAAAGTCGGGGTTGGAGTATCCCCTCAGAAATAACGGGG
66 ATTAAGAAAAATTGATATTTTAGAAATAAAGTCGGGGTTGGAGTATCCCCTCAGAAATAACGGGG
*
2337908 TTAGAGTATCCCCG---ATGAAAAATTG
131 CTAGAGTATCCCCGACTATGAAAAATTG
* * ** * *
2337933 ATGTTTTGGAAACGAAACCGGGATTGAAGTATCCCT
1 ATATTTTAGAAATAAAACCGGGGTTGGAGTATCCCT
2337969 GAGATGAAAA
Statistics
Matches: 319, Mismatches: 27, Indels: 9
0.90 0.08 0.03
Matches are distributed among these distances:
155 41 0.13
157 5 0.02
158 273 0.86
ACGTcount: A:0.35, C:0.15, G:0.24, T:0.26
Consensus pattern (158 bp):
ATATTTTAGAAATAAAACCGGGGTTGGAGTATCCCTTCAAAAATAACGGGGTTGGAGTATCCCCG
ATTAAGAAAAATTGATATTTTAGAAATAAAGTCGGGGTTGGAGTATCCCCTCAGAAATAACGGGG
CTAGAGTATCCCCGACTATGAAAAATTG
Found at i:2340316 original size:13 final size:13
Alignment explanation
Indices: 2340300--2340399 Score: 90
Period size: 13 Copynumber: 8.2 Consensus size: 13
2340290 ATGTAATGAG
2340300 CAATGTATCGATA
1 CAATGTATCGATA
2340313 CAATGTATCGATA
1 CAATGTATCGATA
2340326 CAATG-A--G---
1 CAATGTATCGATA
2340333 CAATGTATCGATA
1 CAATGTATCGATA
*
2340346 CAATGTATTGATA
1 CAATGTATCGATA
*
2340359 CAATG-AGC-ATGCA
1 CAATGTATCGAT--A
* *
2340372 AAATGTATCGAGA
1 CAATGTATCGATA
2340385 CAATGTATCGATA
1 CAATGTATCGATA
2340398 CA
1 CA
2340400 TTGAATAATG
Statistics
Matches: 69, Mismatches: 8, Indels: 20
0.71 0.08 0.21
Matches are distributed among these distances:
7 5 0.07
8 1 0.01
10 2 0.03
11 2 0.03
12 2 0.03
13 54 0.78
14 2 0.03
15 1 0.01
ACGTcount: A:0.40, C:0.15, G:0.18, T:0.27
Consensus pattern (13 bp):
CAATGTATCGATA
Found at i:2340317 original size:20 final size:19
Alignment explanation
Indices: 2340261--2340350 Score: 75
Period size: 20 Copynumber: 4.9 Consensus size: 19
2340251 AAAATGCCTG
* *
2340261 AATGTATCGATACATTGTAA
1 AATGTATCGATACAATG-AC
**
2340281 AATGTATCGATGTAATGAGC
1 AATGTATCGATACAATGA-C
2340301 AATGTATCG-----AT-AC
1 AATGTATCGATACAATGAC
2340314 AATGTATCGATACAATGAGC
1 AATGTATCGATACAATGA-C
2340334 AATGTATCGATACAATG
1 AATGTATCGATACAATG
2340351 TATTGATACA
Statistics
Matches: 58, Mismatches: 4, Indels: 16
0.74 0.05 0.21
Matches are distributed among these distances:
13 10 0.17
14 1 0.02
15 2 0.03
18 2 0.03
19 2 0.03
20 41 0.71
ACGTcount: A:0.39, C:0.12, G:0.19, T:0.30
Consensus pattern (19 bp):
AATGTATCGATACAATGAC
Found at i:2340323 original size:33 final size:33
Alignment explanation
Indices: 2340281--2340367 Score: 147
Period size: 33 Copynumber: 2.6 Consensus size: 33
2340271 TACATTGTAA
**
2340281 AATGTATCGATGTAATGAGCAATGTATCGATAC
1 AATGTATCGATACAATGAGCAATGTATCGATAC
2340314 AATGTATCGATACAATGAGCAATGTATCGATAC
1 AATGTATCGATACAATGAGCAATGTATCGATAC
*
2340347 AATGTATTGATACAATGAGCA
1 AATGTATCGATACAATGAGCA
2340368 TGCAAAATGT
Statistics
Matches: 51, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 51 1.00
ACGTcount: A:0.39, C:0.13, G:0.20, T:0.29
Consensus pattern (33 bp):
AATGTATCGATACAATGAGCAATGTATCGATAC
Found at i:2340415 original size:33 final size:33
Alignment explanation
Indices: 2340281--2340419 Score: 143
Period size: 33 Copynumber: 4.0 Consensus size: 33
2340271 TACATTGTAA
** **
2340281 AATGTATCGATGTAATGAGCAATGTATCGATAC
1 AATGTATCGATACAATGAATAATGTATCGATAC
**
2340314 AATGTATCGATACAATGAGCAATGTATCGATAC
1 AATGTATCGATACAATGAATAATGTATCGATAC
* *
2340347 AATGTATTGATACAATGAGCATGCAAAATGTATCGAGAC
1 AATGTATCGATACAATGA--AT----AATGTATCGATAC
*
2340386 AATGTATCGATACATTGAATAATGTATCGATAC
1 AATGTATCGATACAATGAATAATGTATCGATAC
2340419 A
1 A
2340420 TTTCCTTGGC
Statistics
Matches: 91, Mismatches: 9, Indels: 12
0.81 0.08 0.11
Matches are distributed among these distances:
33 61 0.67
37 2 0.02
39 28 0.31
ACGTcount: A:0.40, C:0.13, G:0.19, T:0.29
Consensus pattern (33 bp):
AATGTATCGATACAATGAATAATGTATCGATAC
Found at i:2341348 original size:42 final size:42
Alignment explanation
Indices: 2341275--2341374 Score: 114
Period size: 42 Copynumber: 2.4 Consensus size: 42
2341265 CCATTTTTCG
* *
2341275 AGGAC-AAAGGAAAAGGGAAATGAAATACGTCCTACTCTCTA
1 AGGACAAAAGAAAAAGGAAAATGAAATACGTCCTACTCTCTA
* * *
2341316 AGGACAAAAGAAAAAGGAAAAT-AAAGTGCGTCCTACTCTTTG
1 AGGACAAAAGAAAAAGGAAAATGAAA-TACGTCCTACTCTCTA
*
2341358 AGGATAAAAGAGAAAAG
1 AGGACAAAAGA-AAAAG
2341375 AAGGGAAGGA
Statistics
Matches: 50, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
41 8 0.16
42 37 0.74
43 5 0.10
ACGTcount: A:0.48, C:0.13, G:0.23, T:0.16
Consensus pattern (42 bp):
AGGACAAAAGAAAAAGGAAAATGAAATACGTCCTACTCTCTA
Found at i:2341485 original size:61 final size:60
Alignment explanation
Indices: 2341390--2341618 Score: 281
Period size: 61 Copynumber: 3.9 Consensus size: 60
2341380 AAGGAAGTGT
*
2341390 GTCCTACTCTTTGAGGACTGAAAAGTGCTACCAACTCGTGTGGGCTTTGAAAAGAAAAGGA
1 GTCCTACTCTTTGAGGACTGAAAAGTGCCACCAACTCGTGTGGGCTTTGAAAA-AAAAGGA
* * * * * * *
2341451 GTCCTACCCTTTGAGGATTGGAAGGTGCCACCAACTTGTGTGGACTTTGCAAAAAGAAAGCA
1 GTCCTACTCTTTGAGGACTGAAAAGTGCCACCAACTCGTGTGGGCTTTG-AAAAA-AAAGGA
*
2341513 -TCCTACTCTTTGAGGACTGAAAAGTGCCACCAACTCGTGTGGGCTTT-----AAAAGGC
1 GTCCTACTCTTTGAGGACTGAAAAGTGCCACCAACTCGTGTGGGCTTTGAAAAAAAAGGA
* * *
2341567 GTCCTGCTCTTTGAGGACTGAAAAGTGCCACCGACTTGTGTGGGCTTTGAAA
1 GTCCTACTCTTTGAGGACTGAAAAGTGCCACCAACTCGTGTGGGCTTTGAAA
2341619 GGCATCCTGC
Statistics
Matches: 142, Mismatches: 19, Indels: 16
0.80 0.11 0.09
Matches are distributed among these distances:
54 4 0.03
55 45 0.32
61 84 0.59
62 9 0.06
ACGTcount: A:0.27, C:0.21, G:0.26, T:0.26
Consensus pattern (60 bp):
GTCCTACTCTTTGAGGACTGAAAAGTGCCACCAACTCGTGTGGGCTTTGAAAAAAAAGGA
Found at i:2342746 original size:8 final size:8
Alignment explanation
Indices: 2342719--2342757 Score: 53
Period size: 8 Copynumber: 4.9 Consensus size: 8
2342709 TTTCTCTCTT
2342719 TTTTCTTTG
1 TTTT-TTTG
*
2342728 TTTTGTT-
1 TTTTTTTG
2342735 TTTTTTTG
1 TTTTTTTG
2342743 TTTTTTTG
1 TTTTTTTG
2342751 TTTTTTT
1 TTTTTTT
2342758 AGAAGAGAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
7 6 0.22
8 17 0.63
9 4 0.15
ACGTcount: A:0.00, C:0.03, G:0.10, T:0.87
Consensus pattern (8 bp):
TTTTTTTG
Found at i:2342754 original size:15 final size:15
Alignment explanation
Indices: 2342717--2342756 Score: 55
Period size: 15 Copynumber: 2.6 Consensus size: 15
2342707 CTTTTCTCTC
2342717 TTTTTTCTTTGTTTTG
1 TTTTTT-TTTGTTTTG
2342733 TTTTTTTTTGTTTT-
1 TTTTTTTTTGTTTTG
2342747 TTTGTTTTTT
1 TTT-TTTTTT
2342757 TAGAAGAGAA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 3 0.13
15 14 0.61
16 6 0.26
ACGTcount: A:0.00, C:0.03, G:0.10, T:0.88
Consensus pattern (15 bp):
TTTTTTTTTGTTTTG
Found at i:2353466 original size:20 final size:20
Alignment explanation
Indices: 2353438--2353510 Score: 83
Period size: 20 Copynumber: 3.6 Consensus size: 20
2353428 TCATACCCTG
2353438 ATGTATCGATACATTTTTCA
1 ATGTATCGATACATTTTTCA
* * * *
2353458 ATATATCGATACATGTATGA
1 ATGTATCGATACATTTTTCA
* * *
2353478 ATGTATCGATATATTCTACA
1 ATGTATCGATACATTTTTCA
2353498 ATGTATCGATACA
1 ATGTATCGATACA
2353511 CTATGTCTTT
Statistics
Matches: 41, Mismatches: 12, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
20 41 1.00
ACGTcount: A:0.36, C:0.14, G:0.12, T:0.38
Consensus pattern (20 bp):
ATGTATCGATACATTTTTCA
Found at i:2358821 original size:79 final size:79
Alignment explanation
Indices: 2358674--2359160 Score: 660
Period size: 79 Copynumber: 6.2 Consensus size: 79
2358664 AGATAATAAT
* * *
2358674 GGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCTCGATTATGAAAAATCGATGAT
1 GGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTT
*
2358739 TTAGAAATAAAATC
66 TTAGAAATAAAACC
* * * *
2358753 GGGATTAGG-GTATCCCCTCGGAAATAACGGGGCTGGAGTATCCCCGACTATGAAAAATTGATGT
1 GGGGTT-GGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGT
2358817 TTTAGAAATAAAACC
65 TTTAGAAATAAAACC
* * * * *
2358832 GGGGTTGGAGTATCCCCTCAAAAATAACGGGGTTGTAGTATCCCCGATTAAGAAAAATTAATATT
1 GGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTT
*
2358897 TTAGAAATAAAGCC
66 TTAGAAATAAAACC
* *
2358911 GGGGTTGGAGTATCCCCTCAGAAAATAACGGGGCTGGAGTATCCCCGACTATGAAAAATTGATGT
1 GGGGTTGGAGTATCCCCTC-GAAAATAACGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGT
*
2358976 TTTAGAAATAAAACT
65 TTTAGAAATAAAACC
* * * * *
2358991 GGGGTTGAAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCTGATTAAGAAAATTTGATATT
1 GGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTT
*
2359056 TTAGAAATAAAGCC
66 TTAGAAATAAAACC
* *
2359070 GGGGTTGGAGTATCCCCTCGGAAATAACGGGGTTAGAGTATCCCCG---ATGAAAAATTGATGTT
1 GGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTT
*
2359132 TT-GAAATGAAACC
66 TTAGAAATAAAACC
* * *
2359145 GAGATTGAAGTATCCC
1 GGGGTTGGAGTATCCC
2359161 TGAGATAAAA
Statistics
Matches: 357, Mismatches: 48, Indels: 10
0.86 0.12 0.02
Matches are distributed among these distances:
75 22 0.06
76 15 0.04
78 2 0.01
79 247 0.69
80 71 0.20
ACGTcount: A:0.34, C:0.16, G:0.25, T:0.26
Consensus pattern (79 bp):
GGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTT
TTAGAAATAAAACC
Found at i:2359008 original size:159 final size:158
Alignment explanation
Indices: 2358674--2359160 Score: 725
Period size: 159 Copynumber: 3.1 Consensus size: 158
2358664 AGATAATAAT
* * * *
2358674 GGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCTCGATTATGAAAAATCGATGA-
1 GGGGTTGAAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATTAAGAAAAATTGAT-AT
** *
2358738 TTTAGAAATAAAATCGGGATTAGG-GTATCCCCTCGGAAATAACGGGGCTGGAGTATCCCCGACT
65 TTTAGAAATAAAGCCGGGGTT-GGAGTATCCCCTCGGAAATAACGGGGCTGGAGTATCCCCGACT
2358802 ATGAAAAATTGATGTTTTAGAAATAAAACC
129 ATGAAAAATTGATGTTTTAGAAATAAAACC
* * * *
2358832 GGGGTTGGAGTATCCCCTCAAAAATAACGGGGTTGTAGTATCCCCGATTAAGAAAAATTAATATT
1 GGGGTTGAAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATTAAGAAAAATTGATATT
*
2358897 TTAGAAATAAAGCCGGGGTTGGAGTATCCCCTCAGAAAATAACGGGGCTGGAGTATCCCCGACTA
66 TTAGAAATAAAGCCGGGGTTGGAGTATCCCCTC-GGAAATAACGGGGCTGGAGTATCCCCGACTA
*
2358962 TGAAAAATTGATGTTTTAGAAATAAAACT
130 TGAAAAATTGATGTTTTAGAAATAAAACC
* *
2358991 GGGGTTGAAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCTGATTAAGAAAATTTGATATT
1 GGGGTTGAAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATTAAGAAAAATTGATATT
* *
2359056 TTAGAAATAAAGCCGGGGTTGGAGTATCCCCTCGGAAATAACGGGGTTAGAGTATCCCCG---AT
66 TTAGAAATAAAGCCGGGGTTGGAGTATCCCCTCGGAAATAACGGGGCTGGAGTATCCCCGACTAT
*
2359118 GAAAAATTGATGTTTT-GAAATGAAACC
131 GAAAAATTGATGTTTTAGAAATAAAACC
* *
2359145 GAGATTGAAGTATCCC
1 GGGGTTGAAGTATCCC
2359161 TGAGATAAAA
Statistics
Matches: 302, Mismatches: 24, Indels: 10
0.90 0.07 0.03
Matches are distributed among these distances:
154 23 0.08
155 18 0.06
157 3 0.01
158 108 0.36
159 150 0.50
ACGTcount: A:0.34, C:0.16, G:0.25, T:0.26
Consensus pattern (158 bp):
GGGGTTGAAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATTAAGAAAAATTGATATT
TTAGAAATAAAGCCGGGGTTGGAGTATCCCCTCGGAAATAACGGGGCTGGAGTATCCCCGACTAT
GAAAAATTGATGTTTTAGAAATAAAACC
Found at i:2359074 original size:238 final size:237
Alignment explanation
Indices: 2358674--2359117 Score: 678
Period size: 238 Copynumber: 1.9 Consensus size: 237
2358664 AGATAATAAT
* * *
2358674 GGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCTCGATTATGAAAAATCGATGAT
1 GGGGTTGGAGTATCCCCTCGAAAATAACGGGGCTGGAGTATCCCCGACTATGAAAAATCGATGAT
* * *
2358739 TTAGAAATAAAATCGGGATTAGGGTATCCCCTCGGAAATAACGGGGCTGGAGTATCCCCGACTAT
66 TTAGAAATAAAATCGGGATTAGAGTATCCCCTCGAAAATAACGGGGCTGGAGTATCCCCGACTAA
*
2358804 GAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTATCCCCTCAAAAATAACGGGGTT-GT
131 GAAAAATTGATATTTTAGAAATAAAACCGGGGTTGGAGTATCCCCTCAAAAATAACGGGGTTAG-
2358868 AGTATCCCCGATTAAGAAAAATTAATATTTTAGAAATAAAGCC
195 AGTATCCCCGATTAAGAAAAATTAATATTTTAGAAATAAAGCC
* *
2358911 GGGGTTGGAGTATCCCCTCAGAAAATAACGGGGCTGGAGTATCCCCGACTATGAAAAATTGATGT
1 GGGGTTGGAGTATCCCCTC-GAAAATAACGGGGCTGGAGTATCCCCGACTATGAAAAATCGATGA
* * * *
2358976 TTTAGAAATAAAA-CTGGGGTT-GAAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCTGAT
65 TTTAGAAATAAAATC-GGGATTAG-AGTATCCCCTCGAAAATAACGGGGCTGGAGTATCCCCGAC
* * **
2359039 TAAGAAAATTTGATATTTTAGAAATAAAGCCGGGGTTGGAGTATCCCCTCGGAAATAACGGGGTT
128 TAAGAAAAATTGATATTTTAGAAATAAAACCGGGGTTGGAGTATCCCCTCAAAAATAACGGGGTT
2359104 AGAGTATCCCCGAT
193 AGAGTATCCCCGAT
2359118 GAAAAATTGA
Statistics
Matches: 186, Mismatches: 17, Indels: 7
0.89 0.08 0.03
Matches are distributed among these distances:
237 21 0.11
238 164 0.88
239 1 0.01
ACGTcount: A:0.33, C:0.16, G:0.25, T:0.26
Consensus pattern (237 bp):
GGGGTTGGAGTATCCCCTCGAAAATAACGGGGCTGGAGTATCCCCGACTATGAAAAATCGATGAT
TTAGAAATAAAATCGGGATTAGAGTATCCCCTCGAAAATAACGGGGCTGGAGTATCCCCGACTAA
GAAAAATTGATATTTTAGAAATAAAACCGGGGTTGGAGTATCCCCTCAAAAATAACGGGGTTAGA
GTATCCCCGATTAAGAAAAATTAATATTTTAGAAATAAAGCC
Found at i:2361516 original size:33 final size:33
Alignment explanation
Indices: 2361474--2361543 Score: 131
Period size: 33 Copynumber: 2.1 Consensus size: 33
2361464 TACATTGTAA
2361474 AATGTATCGACACAATGAGCAATGTATCGATAC
1 AATGTATCGACACAATGAGCAATGTATCGATAC
*
2361507 AATGTATCGATACAATGAGCAATGTATCGATAC
1 AATGTATCGACACAATGAGCAATGTATCGATAC
2361540 AATG
1 AATG
2361544 CAAAATGTAT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.40, C:0.16, G:0.19, T:0.26
Consensus pattern (33 bp):
AATGTATCGACACAATGAGCAATGTATCGATAC
Found at i:2361516 original size:53 final size:53
Alignment explanation
Indices: 2361454--2361560 Score: 146
Period size: 53 Copynumber: 2.0 Consensus size: 53
2361444 AAAATGCCTG
* *
2361454 AATGTATCGATACATTGTA-AAATGTATCGACACAATG-AGCAATGTATCGATAC
1 AATGTATCGATACAATG-AGAAATGTATCGACACAATGCA-AAATGTATCGATAC
* *
2361507 AATGTATCGATACAATGAGCAATGTATCGATACAATGCAAAATGTATCGATAC
1 AATGTATCGATACAATGAGAAATGTATCGACACAATGCAAAATGTATCGATAC
2361560 A
1 A
2361561 TTGAATAATG
Statistics
Matches: 48, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
52 1 0.02
53 46 0.96
54 1 0.02
ACGTcount: A:0.41, C:0.15, G:0.17, T:0.27
Consensus pattern (53 bp):
AATGTATCGATACAATGAGAAATGTATCGACACAATGCAAAATGTATCGATAC
Found at i:2361542 original size:13 final size:13
Alignment explanation
Indices: 2361493--2361523 Score: 62
Period size: 13 Copynumber: 2.4 Consensus size: 13
2361483 ACACAATGAG
2361493 CAATGTATCGATA
1 CAATGTATCGATA
2361506 CAATGTATCGATA
1 CAATGTATCGATA
2361519 CAATG
1 CAATG
2361524 AGCAATGTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.39, C:0.16, G:0.16, T:0.29
Consensus pattern (13 bp):
CAATGTATCGATA
Found at i:2361582 original size:20 final size:19
Alignment explanation
Indices: 2361454--2361580 Score: 122
Period size: 20 Copynumber: 6.7 Consensus size: 19
2361444 AAAATGCCTG
*
2361454 AATGTATCGATACATTGTAA
1 AATGTATCGATACAATG-AA
* *
2361474 AATGTATCGACACAATGAGC
1 AATGTATCGATACAATGA-A
2361494 AATGTATCGATAC------
1 AATGTATCGATACAATGAA
*
2361507 AATGTATCGATACAATGAGC
1 AATGTATCGATACAATGA-A
2361527 AATGTATCGATACAATGCAA
1 AATGTATCGATACAATG-AA
*
2361547 AATGTATCGATACATTGAA
1 AATGTATCGATACAATGAA
2361566 TAATGTATCGATACA
1 -AATGTATCGATACA
2361581 TTTCCTTGGC
Statistics
Matches: 91, Mismatches: 6, Indels: 20
0.78 0.05 0.17
Matches are distributed among these distances:
13 13 0.14
19 3 0.03
20 74 0.81
21 1 0.01
ACGTcount: A:0.41, C:0.14, G:0.17, T:0.28
Consensus pattern (19 bp):
AATGTATCGATACAATGAA
Found at i:2364057 original size:9 final size:9
Alignment explanation
Indices: 2364043--2364070 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
2364033 ATATTAAGTC
2364043 GAAACCAAT
1 GAAACCAAT
2364052 GAAACCAAT
1 GAAACCAAT
2364061 GAAACCAAT
1 GAAACCAAT
2364070 G
1 G
2364071 TCAAGTCAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.54, C:0.21, G:0.14, T:0.11
Consensus pattern (9 bp):
GAAACCAAT
Found at i:2375161 original size:1 final size:1
Alignment explanation
Indices: 2375157--2375246 Score: 54
Period size: 1 Copynumber: 90.0 Consensus size: 1
2375147 AAAAAAATTT
* ** * * * ** **
2375157 AAAAAAAAAAAACAAAAAAACCAAGAAAAAAACAAAAAAAAACAAAAAAACCAAAAGCAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
* * * *
2375222 CAAAAAAAAATAAACAAACAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAA
2375247 GGGGTCCAAA
Statistics
Matches: 66, Mismatches: 23, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
1 66 1.00
ACGTcount: A:0.84, C:0.12, G:0.02, T:0.01
Consensus pattern (1 bp):
A
Found at i:2375194 original size:33 final size:35
Alignment explanation
Indices: 2375157--2375244 Score: 114
Period size: 30 Copynumber: 2.6 Consensus size: 35
2375147 AAAAAAATTT
2375157 AAAAAAAAAAAACAAAAAAACC-AAG-AAAAAAAC
1 AAAAAAAAAAAACAAAAAAACCAAAGCAAAAAAAC
2375190 ---AAAAAAAAACAAAAAAACCAAAAGCAAAAAAAC
1 AAAAAAAAAAAACAAAAAAACC-AAAGCAAAAAAAC
2375223 AAAAAAAAATAAACAAACAAAA
1 AAAAAAAAA-AAACAAA-AAAA
2375245 AAGGGGTCCA
Statistics
Matches: 47, Mismatches: 0, Indels: 11
0.81 0.00 0.19
Matches are distributed among these distances:
30 19 0.40
32 3 0.06
33 8 0.17
36 6 0.13
37 7 0.15
38 4 0.09
ACGTcount: A:0.84, C:0.12, G:0.02, T:0.01
Consensus pattern (35 bp):
AAAAAAAAAAAACAAAAAAACCAAAGCAAAAAAAC
Found at i:2375196 original size:30 final size:32
Alignment explanation
Indices: 2375160--2375240 Score: 121
Period size: 33 Copynumber: 2.6 Consensus size: 32
2375150 AAAATTTAAA
2375160 AAAAAAAAACAAAAAAACC-AAG-AAAAAAAC
1 AAAAAAAAACAAAAAAACCAAAGCAAAAAAAC
2375190 AAAAAAAAACAAAAAAACCAAAAGCAAAAAAAC
1 AAAAAAAAACAAAAAAACC-AAAGCAAAAAAAC
* *
2375223 AAAAAAAAATAAACAAAC
1 AAAAAAAAACAAAAAAAC
2375241 AAAAAAGGGG
Statistics
Matches: 46, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
30 19 0.41
32 3 0.07
33 24 0.52
ACGTcount: A:0.83, C:0.14, G:0.02, T:0.01
Consensus pattern (32 bp):
AAAAAAAAACAAAAAAACCAAAGCAAAAAAAC
Found at i:2375230 original size:25 final size:25
Alignment explanation
Indices: 2375184--2375246 Score: 74
Period size: 25 Copynumber: 2.5 Consensus size: 25
2375174 AAACCAAGAA
2375184 AAAAACAAAAAAAAACAAAAAAACC
1 AAAAACAAAAAAAAACAAAAAAACC
* **
2375209 AAAAGCAAAAAAACAA-AAAAAAATA
1 AAAAACAAAAAAA-AACAAAAAAACC
2375234 AACAAACAAAAAA
1 AA-AAACAAAAAA
2375247 GGGGTCCAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
25 21 0.66
26 11 0.34
ACGTcount: A:0.84, C:0.13, G:0.02, T:0.02
Consensus pattern (25 bp):
AAAAACAAAAAAAAACAAAAAAACC
Found at i:2376523 original size:28 final size:28
Alignment explanation
Indices: 2376492--2376928 Score: 434
Period size: 28 Copynumber: 15.5 Consensus size: 28
2376482 CATTCATCTC
* *
2376492 TTCAAAGCCCAGAGGTCAGTGGCATCCT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
* *
2376520 TTCAAACCCCACAAGTCAGTGGCATCTT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
2376548 TTCAAAGCCCACAAGTCAGTGGCATCCT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
*
2376576 TTCAAAGCCCACAAGTTAGTGGCATCCT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
*
2376604 TTCAAAGCTCACAAGTCAGTGGCAT-CT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
* * *
2376631 CTTCAAAAGACCATAAGTTAGTGGCATCCT
1 -TTC-AAAGCCCACAAGTCAGTGGCATCCT
* *
2376661 TT-AATGCCCAGAAAG-CAGTGGCA-CCT
1 TTCAAAGCCCA-CAAGTCAGTGGCATCCT
*
2376687 TTCCAAAGCCCACAAGTTAGTGGCA-CCAT
1 TT-CAAAGCCCACAAGTCAGTGGCATCC-T
* * * *
2376716 TTCAAAACCCACAGGTTAGTGGCACCCT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
* * *
2376744 TTAAAAGCCCACACAAATCAGTGGCACCCT
1 TTCAAAG-CC-CACAAGTCAGTGGCATCCT
* * *
2376774 TCCAAAGCCCACAAATCAGTGGCACCCT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
* * *
2376802 TTCAAAGCCCACAAGTCAGTGGTACCCC
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
*
2376830 TTCAAAGCCCACAAGTCAGTGGCACCCT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
* * * *
2376858 TTTAAAGCCCATAGGTCAATGGCATACCCT
1 TTCAAAGCCCACAAGTCAGTGGCAT--CCT
* * * ** *
2376888 TTCAAAGCTCATAAGTCGGTAACACCCT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
2376916 TTCAAAGCCCACA
1 TTCAAAGCCCACA
2376929 TAAGTCGATG
Statistics
Matches: 346, Mismatches: 50, Indels: 26
0.82 0.12 0.06
Matches are distributed among these distances:
26 5 0.01
27 18 0.05
28 251 0.73
29 29 0.08
30 43 0.12
ACGTcount: A:0.30, C:0.31, G:0.17, T:0.22
Consensus pattern (28 bp):
TTCAAAGCCCACAAGTCAGTGGCATCCT
Found at i:2376974 original size:33 final size:32
Alignment explanation
Indices: 2376920--2376983 Score: 76
Period size: 33 Copynumber: 2.0 Consensus size: 32
2376910 CACCCTTTCA
* *
2376920 AAGCCCACATAAGTCGATGGCAACTCTTTTTTG
1 AAGCCCACACAAGTAGATGGCAACT-TTTTTTG
*
2376953 AAGCCCACACAAGTTAG-TGGCACCTTTTTTT
1 AAGCCCACACAAG-TAGATGGCAACTTTTTTT
2376984 AAAAAAAAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
32 6 0.22
33 19 0.70
34 2 0.07
ACGTcount: A:0.27, C:0.25, G:0.17, T:0.31
Consensus pattern (32 bp):
AAGCCCACACAAGTAGATGGCAACTTTTTTTG
Found at i:2378010 original size:51 final size:51
Alignment explanation
Indices: 2377924--2378041 Score: 191
Period size: 51 Copynumber: 2.3 Consensus size: 51
2377914 TACATGTATG
*
2377924 GATGTATCGATACATTCTTCAATATGTCGAAACATTCTGTCTTTTTACCCA
1 GATGTATCGATACATTCTTCAATATATCGAAACATTCTGTCTTTTTACCCA
* * * *
2377975 GATGTATCGATACATTCTTCAATGTATTGATACATTTTGTCTTTTTACCCA
1 GATGTATCGATACATTCTTCAATATATCGAAACATTCTGTCTTTTTACCCA
2378026 GATGTATCGATACATT
1 GATGTATCGATACATT
2378042 GAATAATGTA
Statistics
Matches: 62, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
51 62 1.00
ACGTcount: A:0.27, C:0.19, G:0.13, T:0.42
Consensus pattern (51 bp):
GATGTATCGATACATTCTTCAATATATCGAAACATTCTGTCTTTTTACCCA
Found at i:2381495 original size:32 final size:31
Alignment explanation
Indices: 2381417--2381624 Score: 150
Period size: 32 Copynumber: 6.5 Consensus size: 31
2381407 CCAATGGAGG
* * *
2381417 AACCTTTTCTAAATCCCACACAAGCTAGT-GC
1 AACCCTTTC-AAAGCCCACACAAGTTAGTGGC
* * *
2381448 AACCTTTTTCAAAGCCCACATAAGTTGGTGG-
1 AACC-CTTTCAAAGCCCACACAAGTTAGTGGC
*
2381479 AGACCCTTTCTAAAGCCCACGCAAGTTAGTGGC
1 A-ACCCTTTC-AAAGCCCACACAAGTTAGTGGC
* * * * *
2381512 AACCCTTTCCAGAGCCTACACAAGCTGGTAGC
1 AACCCTTT-CAAAGCCCACACAAGTTAGTGGC
* ** *
2381544 AACCTTCTTCAAAGCCCACACAAGTCGGTAGC
1 AACCCT-TTCAAAGCCCACACAAGTTAGTGGC
* *
2381576 AACCTTTTCAAAAGCCCACACAAGTTTGTGGC
1 AACCCTTTC-AAAGCCCACACAAGTTAGTGGC
* * *
2381608 ATCTCTTTCTAAGCCCA
1 AACCCTTTCAAAGCCCA
2381625 ATGTCATTGG
Statistics
Matches: 143, Mismatches: 26, Indels: 16
0.77 0.14 0.09
Matches are distributed among these distances:
31 34 0.24
32 105 0.73
33 4 0.03
ACGTcount: A:0.29, C:0.31, G:0.16, T:0.24
Consensus pattern (31 bp):
AACCCTTTCAAAGCCCACACAAGTTAGTGGC
Found at i:2381616 original size:96 final size:95
Alignment explanation
Indices: 2381434--2381608 Score: 244
Period size: 96 Copynumber: 1.8 Consensus size: 95
2381424 TCTAAATCCC
* * * * *
2381434 ACACAAGCTAGTGCAACCTTTTTCAAAGCCCACATAAGTTGGTGGAGACCCTTTCTAAAGCCCAC
1 ACACAAGCTAGTGCAACCTTCTTCAAAGCCCACACAAGTCGGTGCAGACCCTTTCAAAAGCCCAC
*
2381499 GCAAGTTAGTGGCAACCCTTTCCAGAGCCT
66 ACAAGTTAGTGGCAACCCTTTCCAGAGCCT
* *
2381529 ACACAAGCTGGTAGCAACCTTCTTCAAAGCCCACACAAGTCGGTAGCA-ACCTTTTCAAAAGCCC
1 ACACAAGCTAGT-GCAACCTTCTTCAAAGCCCACACAAGTCGGT-GCAGACCCTTTCAAAAGCCC
*
2381593 ACACAAGTTTGTGGCA
64 ACACAAGTTAGTGGCA
2381609 TCTCTTTCTA
Statistics
Matches: 69, Mismatches: 9, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
95 11 0.16
96 56 0.81
97 2 0.03
ACGTcount: A:0.30, C:0.30, G:0.18, T:0.22
Consensus pattern (95 bp):
ACACAAGCTAGTGCAACCTTCTTCAAAGCCCACACAAGTCGGTGCAGACCCTTTCAAAAGCCCAC
ACAAGTTAGTGGCAACCCTTTCCAGAGCCT
Found at i:2381955 original size:51 final size:52
Alignment explanation
Indices: 2381828--2381959 Score: 167
Period size: 52 Copynumber: 2.6 Consensus size: 52
2381818 TCCTAAGACC
* * * *
2381828 AATGTCGCTGGCCTTGAATCAGCACATTGTCATTCTTCTCATCTTCAAGTCT
1 AATGTCGCTGGCCTTGAATCAGCACATTGACATTCTTATCATATTCAAATCT
* * *
2381880 AATGTCGCTAGCCGTGAATCAGCACATTGACATTCTTAT-ATATTTAAATCT
1 AATGTCGCTGGCCTTGAATCAGCACATTGACATTCTTATCATATTCAAATCT
* * *
2381931 AATGTTGTTGGCCTTGAATTAGCACATTG
1 AATGTCGCTGGCCTTGAATCAGCACATTG
2381960 GCACCTTTTG
Statistics
Matches: 68, Mismatches: 12, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
51 33 0.49
52 35 0.51
ACGTcount: A:0.26, C:0.21, G:0.17, T:0.36
Consensus pattern (52 bp):
AATGTCGCTGGCCTTGAATCAGCACATTGACATTCTTATCATATTCAAATCT
Found at i:2388243 original size:24 final size:24
Alignment explanation
Indices: 2388166--2388244 Score: 58
Period size: 20 Copynumber: 3.2 Consensus size: 24
2388156 CGATACATTG
* *
2388166 AAAAATGTATCGATACATCTGGTT
1 AAAAATGTATCAATACATCTGGGT
2388190 AAAAGATAGAATATATCAATACAT-T--G-
1 AAAA-AT-G----TATCAATACATCTGGGT
2388216 AAAAATGTATCAATACATCTGGGT
1 AAAAATGTATCAATACATCTGGGT
2388240 AAAAA
1 AAAAA
2388245 ATGTGACTTT
Statistics
Matches: 43, Mismatches: 2, Indels: 20
0.66 0.03 0.31
Matches are distributed among these distances:
20 11 0.26
21 1 0.02
23 1 0.02
24 10 0.23
25 4 0.09
26 5 0.12
29 1 0.02
30 10 0.23
ACGTcount: A:0.48, C:0.10, G:0.14, T:0.28
Consensus pattern (24 bp):
AAAAATGTATCAATACATCTGGGT
Found at i:2389296 original size:34 final size:35
Alignment explanation
Indices: 2389258--2389324 Score: 102
Period size: 37 Copynumber: 1.9 Consensus size: 35
2389248 CCTTACAACA
2389258 CTATC-TTTC-AAGGCTAAGATAGAAACCTCTCTCT
1 CTATCTTTTCAAAGGCTAAGATAG-AACCTCTCTCT
2389292 CTATCTTTTTCAAAGGCTAAGATAGAACCTCTC
1 CTATC-TTTTCAAAGGCTAAGATAGAACCTCTC
2389325 AATCACTTAG
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
34 5 0.17
36 12 0.40
37 13 0.43
ACGTcount: A:0.30, C:0.25, G:0.12, T:0.33
Consensus pattern (35 bp):
CTATCTTTTCAAAGGCTAAGATAGAACCTCTCTCT
Found at i:2389801 original size:13 final size:13
Alignment explanation
Indices: 2389783--2389808 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2389773 CAATTTTTTG
2389783 TGTATCGATACAT
1 TGTATCGATACAT
2389796 TGTATCGATACAT
1 TGTATCGATACAT
2389809 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:2391532 original size:13 final size:13
Alignment explanation
Indices: 2391514--2391538 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2391504 ACTGAAGCAA
2391514 TGTATCGATACAT
1 TGTATCGATACAT
2391527 TGTATCGATACA
1 TGTATCGATACA
2391539 ATCTGGAAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:2392139 original size:23 final size:24
Alignment explanation
Indices: 2392094--2392140 Score: 62
Period size: 23 Copynumber: 2.0 Consensus size: 24
2392084 CAAAGAATTG
*
2392094 AACACAAATTCAATTAAGCACAAA
1 AACACAAATTCAATTAAGAACAAA
2392118 AACACAAA-TCAATTGAA-AACAAA
1 AACACAAATTCAATT-AAGAACAAA
2392141 TTTTCAACAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
23 11 0.52
24 10 0.48
ACGTcount: A:0.62, C:0.19, G:0.04, T:0.15
Consensus pattern (24 bp):
AACACAAATTCAATTAAGAACAAA
Found at i:2394728 original size:34 final size:35
Alignment explanation
Indices: 2394690--2394756 Score: 102
Period size: 37 Copynumber: 1.9 Consensus size: 35
2394680 CCTTACAACA
2394690 CTATC-TTTC-AAGGCTAAGATAGAAACCTCTCTCT
1 CTATCTTTTCAAAGGCTAAGATAG-AACCTCTCTCT
2394724 CTATCTTTTTCAAAGGCTAAGATAGAACCTCTC
1 CTATC-TTTTCAAAGGCTAAGATAGAACCTCTC
2394757 AATCACTTAG
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
34 5 0.17
36 12 0.40
37 13 0.43
ACGTcount: A:0.30, C:0.25, G:0.12, T:0.33
Consensus pattern (35 bp):
CTATCTTTTCAAAGGCTAAGATAGAACCTCTCTCT
Found at i:2395233 original size:13 final size:13
Alignment explanation
Indices: 2395215--2395240 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2395205 CAATTTTTTG
2395215 TGTATCGATACAT
1 TGTATCGATACAT
2395228 TGTATCGATACAT
1 TGTATCGATACAT
2395241 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:2396466 original size:13 final size:13
Alignment explanation
Indices: 2396448--2396472 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2396438 AATTTTCAAA
2396448 AAAAAAAGAAAAG
1 AAAAAAAGAAAAG
2396461 AAAAAAAGAAAA
1 AAAAAAAGAAAA
2396473 ATTCAGTGCA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (13 bp):
AAAAAAAGAAAAG
Found at i:2397810 original size:23 final size:22
Alignment explanation
Indices: 2397769--2397812 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
2397759 AGAGGCTTAC
**
2397769 AAAAAAAAACCTAAAAAAATAA
1 AAAAAAAAACAAAAAAAAATAA
2397791 AAAAAAAAACAAAAACAAAATA
1 AAAAAAAAACAAAAA-AAAATA
2397813 CTTTTTTGGG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 13 0.68
23 6 0.32
ACGTcount: A:0.84, C:0.09, G:0.00, T:0.07
Consensus pattern (22 bp):
AAAAAAAAACAAAAAAAAATAA
Found at i:2398546 original size:33 final size:33
Alignment explanation
Indices: 2398509--2398575 Score: 89
Period size: 33 Copynumber: 2.0 Consensus size: 33
2398499 TTCAACGATT
2398509 TGTATCGATACATAAAATGTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
* *** *
2398542 TGTATTGATACATACTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
2398575 T
1 T
2398576 TTAAGCTACT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.34, C:0.12, G:0.13, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATAAAATGTTGTATCGATACAA
Found at i:2398634 original size:13 final size:13
Alignment explanation
Indices: 2398616--2398708 Score: 89
Period size: 13 Copynumber: 7.9 Consensus size: 13
2398606 ATTACTCAAA
2398616 TGTATCGATACAT
1 TGTATCGATACAT
2398629 TGTATCGATACA-
1 TGTATCGATACAT
* *
2398641 T-TACCCA-A-A-
1 TGTATCGATACAT
2398650 TGTATCGATACAT
1 TGTATCGATACAT
2398663 TGTATCGATACAT
1 TGTATCGATACAT
*
2398676 TAT-TC-A-A-A-
1 TGTATCGATACAT
2398684 TGTATCGATACAT
1 TGTATCGATACAT
2398697 TGTATCGATACA
1 TGTATCGATACA
2398709 CTGATCTTTG
Statistics
Matches: 65, Mismatches: 6, Indels: 18
0.73 0.07 0.20
Matches are distributed among these distances:
8 2 0.03
9 5 0.08
10 7 0.11
11 7 0.11
12 5 0.08
13 39 0.60
ACGTcount: A:0.34, C:0.17, G:0.13, T:0.35
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:2398638 original size:34 final size:34
Alignment explanation
Indices: 2398595--2398708 Score: 210
Period size: 34 Copynumber: 3.4 Consensus size: 34
2398585 TGCCAAAACA
2398595 TGTATCGATACATTACTCAAATGTATCGATACAT
1 TGTATCGATACATTACTCAAATGTATCGATACAT
*
2398629 TGTATCGATACATTACCCAAATGTATCGATACAT
1 TGTATCGATACATTACTCAAATGTATCGATACAT
*
2398663 TGTATCGATACATTATTCAAATGTATCGATACAT
1 TGTATCGATACATTACTCAAATGTATCGATACAT
2398697 TGTATCGATACA
1 TGTATCGATACA
2398709 CTGATCTTTG
Statistics
Matches: 77, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
34 77 1.00
ACGTcount: A:0.35, C:0.18, G:0.12, T:0.35
Consensus pattern (34 bp):
TGTATCGATACATTACTCAAATGTATCGATACAT
Found at i:2398773 original size:20 final size:20
Alignment explanation
Indices: 2398748--2398801 Score: 108
Period size: 20 Copynumber: 2.7 Consensus size: 20
2398738 ATTTGCCCAG
2398748 ATGTATCGATACATTATAAA
1 ATGTATCGATACATTATAAA
2398768 ATGTATCGATACATTATAAA
1 ATGTATCGATACATTATAAA
2398788 ATGTATCGATACAT
1 ATGTATCGATACAT
2398802 GCAGGCAAAT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.43, C:0.11, G:0.11, T:0.35
Consensus pattern (20 bp):
ATGTATCGATACATTATAAA
Found at i:2398793 original size:72 final size:72
Alignment explanation
Indices: 2398717--2398853 Score: 256
Period size: 72 Copynumber: 1.9 Consensus size: 72
2398707 CACTGATCTT
*
2398717 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATAAAATGTATCGATACAT
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAATGTATCGATACAT
2398782 TATAAAA
66 TATAAAA
*
2398789 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTAAATGTATCGATACAT
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAATGTATCGATACAT
2398854 GCAAGCAACT
Statistics
Matches: 63, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
72 63 1.00
ACGTcount: A:0.36, C:0.17, G:0.16, T:0.31
Consensus pattern (72 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAATGTATCGATACAT
TATAAAA
Found at i:2402926 original size:140 final size:139
Alignment explanation
Indices: 2402605--2403098 Score: 528
Period size: 140 Copynumber: 3.5 Consensus size: 139
2402595 TGTATCGGTG
* * * * *** * *
2402605 TTAGGACCTAGTCAACCTCTTCTCACCGTTGTTTGACTATATTGTTGTTAGGACCTAGTCAAACT
1 TTAGGACCTAGTCAAACACTTCTCACC-TCGTTTGACTGTATTGGCATTAGGACCTGGTCAAACA
* * *
2402670 CTT-TCCACCCTTATTTGATTGTATTGGCATTAGGACCTAGTCAAATAC-TTCTCA-CCTTGTTT
65 CTTCT-CACCCTCATTTGATTGTATTGGCATTAGAACCTGGTCAAAT-CTTTC-CACCCTTGTTT
*
2402732 GACTATCTTGGCA
127 GACTATATTGGCA
* * * * * * *
2402745 TTAGGACTTGGTCATACACTTCTCACCTTGGTTGATTGTATTGGCATTAGGACTTGGTCAAACAC
1 TTAGGACCTAGTCAAACACTTCTCACCTCGTTTGACTGTATTGGCATTAGGACCTGGTCAAACAC
* *
2402810 TTCTCACCCTCATTTGATTGTATTGGCATTAGAACCTGGTTAAACTCTTTCCACCCTTGTTTGAT
66 TTCTCACCCTCATTTGATTGTATTGGCATTAGAACCTGGTCAAA-TCTTTCCACCCTTGTTTGAC
2402875 TATATTGGCA
130 TATATTGGCA
* * * *
2402885 TGAGGACCTAGTCAAACACTTCTCACCTCATTTGACTGTATTAGCATTAAGACCTGGTCAAACAC
1 TTAGGACCTAGTCAAACACTTCTCACCTCGTTTGACTGTATTGGCATTAGGACCTGGTCAAACAC
* ** * * ** *
2402950 TTCTCACCTTGGTTTGATTGTATTAG-AGTTAGAACCTGGCCAAAATCTTTTTACCTTTGTTTGA
66 TTCTCACCCTCATTTGATTGTATTGGCA-TTAGAACCTGGTC-AAATCTTTCCACCCTTGTTTGA
* **
2403014 CTATGTTGGTG
129 CTATATTGGCA
* * *
2403025 TTAGGACCTGGTCAAACTCTTCTCACCTCTGTTTGACTGTATTGGCATTAGGACTTGGTCAAACA
1 TTAGGACCTAGTCAAACACTTCTCACCTC-GTTTGACTGTATTGGCATTAGGACCTGGTCAAACA
2403090 CTTCTCACC
65 CTTCTCACC
2403099 TTGGTTTGAC
Statistics
Matches: 296, Mismatches: 51, Indels: 13
0.82 0.14 0.04
Matches are distributed among these distances:
139 71 0.24
140 182 0.61
141 43 0.15
ACGTcount: A:0.23, C:0.23, G:0.17, T:0.37
Consensus pattern (139 bp):
TTAGGACCTAGTCAAACACTTCTCACCTCGTTTGACTGTATTGGCATTAGGACCTGGTCAAACAC
TTCTCACCCTCATTTGATTGTATTGGCATTAGAACCTGGTCAAATCTTTCCACCCTTGTTTGACT
ATATTGGCA
Found at i:2403127 original size:47 final size:46
Alignment explanation
Indices: 2402605--2403115 Score: 463
Period size: 47 Copynumber: 10.9 Consensus size: 46
2402595 TGTATCGGTG
* * * * ***
2402605 TTAGGACCTAGTCAACCTCTTCTCACCGTTGTTTGACTATATTGTTG
1 TTAGGACCTGGTCAAACACTTCTCACC-TTGTTTGACTGTATTGGCA
* * * *
2402652 TTAGGACCTAGTCAAACTCTT-TCCACCCTTATTTGATTGTATTGGCA
1 TTAGGACCTGGTCAAACACTTCT-CA-CCTTGTTTGACTGTATTGGCA
* * * *
2402699 TTAGGACCTAGTCAAATACTTCTCACCTTGTTTGACTATCTTGGCA
1 TTAGGACCTGGTCAAACACTTCTCACCTTGTTTGACTGTATTGGCA
* * * *
2402745 TTAGGACTTGGTCATACACTTCTCACCTTGGTTGATTGTATTGGCA
1 TTAGGACCTGGTCAAACACTTCTCACCTTGTTTGACTGTATTGGCA
* ** *
2402791 TTAGGACTTGGTCAAACACTTCTCACCCTCATTTGATTGTATTGGCA
1 TTAGGACCTGGTCAAACACTTCTCA-CCTTGTTTGACTGTATTGGCA
* * * * *
2402838 TTAGAACCTGGTTAAACTCTT-TCCACCCTTGTTTGATTATATTGGCA
1 TTAGGACCTGGTCAAACACTTCT-CA-CCTTGTTTGACTGTATTGGCA
* * ** *
2402885 TGAGGACCTAGTCAAACACTTCTCACCTCATTTGACTGTATTAGCA
1 TTAGGACCTGGTCAAACACTTCTCACCTTGTTTGACTGTATTGGCA
* * *
2402931 TTAAGACCTGGTCAAACACTTCTCACCTTGGTTTGATTGTATTAG-A
1 TTAGGACCTGGTCAAACACTTCTCACCTT-GTTTGACTGTATTGGCA
* * * * * * **
2402977 GTTAGAACCTGGCCAAA-ATCTTTTTACCTTTGTTTGACTATGTTGGTG
1 -TTAGGACCTGGTCAAACA-CTTCTCACC-TTGTTTGACTGTATTGGCA
*
2403025 TTAGGACCTGGTCAAACTCTTCTCACCTCTGTTTGACTGTATTGGCA
1 TTAGGACCTGGTCAAACACTTCTCACCT-TGTTTGACTGTATTGGCA
* *
2403072 TTAGGACTTGGTCAAACACTTCTCACCTTGGTTTGACTATATTG
1 TTAGGACCTGGTCAAACACTTCTCACCTT-GTTTGACTGTATTG
2403116 ACGTTAAGAC
Statistics
Matches: 380, Mismatches: 70, Indels: 28
0.79 0.15 0.06
Matches are distributed among these distances:
46 126 0.33
47 248 0.65
48 6 0.02
ACGTcount: A:0.23, C:0.22, G:0.17, T:0.38
Consensus pattern (46 bp):
TTAGGACCTGGTCAAACACTTCTCACCTTGTTTGACTGTATTGGCA
Found at i:2403417 original size:59 final size:59
Alignment explanation
Indices: 2403343--2403455 Score: 181
Period size: 59 Copynumber: 1.9 Consensus size: 59
2403333 ACCACCCTAG
* * * *
2403343 TCAAATCTACCTCTGTTCTATTTGATATATGGTTACCACCCTGGTTAAACTTTTTTCAT
1 TCAAATCTACCTCTGTTCTACTTGACATATAGTTACCACCATGGTTAAACTTTTTTCAT
*
2403402 TCAAATCTACCTCTGTTCTGCTTGACATATAGTTACCACCATGGTTAAACTTTT
1 TCAAATCTACCTCTGTTCTACTTGACATATAGTTACCACCATGGTTAAACTTTT
2403456 CTTATTTCGG
Statistics
Matches: 49, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
59 49 1.00
ACGTcount: A:0.25, C:0.23, G:0.11, T:0.42
Consensus pattern (59 bp):
TCAAATCTACCTCTGTTCTACTTGACATATAGTTACCACCATGGTTAAACTTTTTTCAT
Found at i:2403539 original size:191 final size:191
Alignment explanation
Indices: 2403212--2403578 Score: 490
Period size: 191 Copynumber: 1.9 Consensus size: 191
2403202 AATCTCTAGA
* * * * *
2403212 CAAATCTACCTCTATTTTGTTTGACGTATGGTTACCACATTGGTCAAACTTTTCTCATTTTGATC
1 CAAATCTACCTCTATTCTGCTTGACATATAGTTACCACATTGGTCAAACTTTTCTCATTTCGATC
* * *
2403277 TAATGTATGGTTGACACCCTAATCAGATTCTTTTCATTTCGATTTGACATATGGTTACCACCCTA
66 TAACGTATGGTTGACACCCTAATCAGATTCTTTTCATTTCGATTTGACATATAGTTACCACCATA
*
2403342 GTCAAATCTACCTCTGTTC-TATTTGATATATGGTTACCACCCTGGTTAAACTTTTTTCATT
131 GTCAAATCTACCT-TGTTCTTATTTGACATATGGTTACCACCCTGGTTAAACTTTTTTCATT
* * * *
2403403 CAAATCTACCTCTGTTCTGCTTGACATATAGTTACCACCA-TGGTTAAACTTTTCTTATTTCGGT
1 CAAATCTACCTCTATTCTGCTTGACATATAGTTACCA-CATTGGTCAAACTTTTCTCATTTCGAT
* **
2403467 CTGACGTATGGTT-ACAACCCTAATCAGATTCTTTTCA-TTCTGATTTGATGTATAGTTACCACC
65 CTAACGTATGGTTGAC-ACCCTAATCAGATTCTTTTCATTTC-GATTTGACATATAGTTACCACC
* * * *
2403530 ATGGTCAAATCTGCCTTTTTCTTGTTTGACATATGGTTACCACCCTGGT
128 ATAGTCAAATCTACCTTGTTCTTATTTGACATATGGTTACCACCCTGGT
2403579 CAAATCTACC
Statistics
Matches: 152, Mismatches: 20, Indels: 8
0.84 0.11 0.04
Matches are distributed among these distances:
190 9 0.06
191 141 0.93
192 2 0.01
ACGTcount: A:0.23, C:0.22, G:0.14, T:0.41
Consensus pattern (191 bp):
CAAATCTACCTCTATTCTGCTTGACATATAGTTACCACATTGGTCAAACTTTTCTCATTTCGATC
TAACGTATGGTTGACACCCTAATCAGATTCTTTTCATTTCGATTTGACATATAGTTACCACCATA
GTCAAATCTACCTTGTTCTTATTTGACATATGGTTACCACCCTGGTTAAACTTTTTTCATT
Found at i:2403558 original size:44 final size:43
Alignment explanation
Indices: 2403510--2403624 Score: 149
Period size: 44 Copynumber: 2.6 Consensus size: 43
2403500 TTCATTCTGA
* * * *
2403510 TTTGATGTATAGTTACCACCATGGTCAAATCTGCCTTTTTCTTG
1 TTTGACGTAT-GTTACCACCCTGGTCAAATCTACCTCTTTCTTG
*
2403554 TTTGACATATGGTTACCACCCTGGTCAAATCTACCTCTTTCTTG
1 TTTGACGTAT-GTTACCACCCTGGTCAAATCTACCTCTTTCTTG
*
2403598 TCTGACGTATGATTACCACCCTGGTCA
1 TTTGACGTATG-TTACCACCCTGGTCA
2403625 GATTCTTTTC
Statistics
Matches: 62, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
43 1 0.02
44 61 0.98
ACGTcount: A:0.21, C:0.25, G:0.16, T:0.38
Consensus pattern (43 bp):
TTTGACGTATGTTACCACCCTGGTCAAATCTACCTCTTTCTTG
Found at i:2403643 original size:132 final size:129
Alignment explanation
Indices: 2403417--2403843 Score: 410
Period size: 132 Copynumber: 3.2 Consensus size: 129
2403407 TCTACCTCTG
* * * * ** **
2403417 TTCTGCTTGACATATAGTTACCACCATGGTTAAACTTTTCTTATTTCGGTCTGACGTATGGTTAC
1 TTCTGTTTGACATATGGTTACCACCCTGGTCAAACTTACCTCCTTTCGGTCTGACGTATGGTTAC
* ** * *
2403482 AACCCTAATCAGATTCTTTTCATTCTGATTTGATGTATAGTTACCACCATGGTCAAATCTGCCTT
66 CACCCTGGTCAGATTCTTTTCATTTTGATTTGATGTATAGTTACCACCCTGGTCAAAT-T-CCTT
2403547 T
129 T
* *
2403548 TTCTTGTTTGACATATGGTTACCACCCTGGTCAAA-TCTACCT-CTTTCTTGTCTGACGTATGAT
1 TTC-TGTTTGACATATGGTTACCACCCTGGTCAAACT-TACCTCCTTTC-GGTCTGACGTATGGT
** * * * *
2403611 TACCACCCTGGTCAGATTCTTTTCATTTTGATTTGAAATCTAGTTACAACCCCGGTAAAATTCAC
63 TACCACCCTGGTCAGATTCTTTTCATTTTGATTTGATGTATAGTTACCACCCTGGTCAAATTC-C
2403676 TTCT
127 TT-T
** * ** *
2403680 GTTCTGTTTGATGTATGATTACCACCCTGGTCAAACTTTTCTCCTTTCGGTCTGACATATGGTTA
1 -TTCTGTTTGACATATGGTTACCACCCTGGTCAAACTTACCTCCTTTCGGTCTGACGTATGGTTA
* * * * * *
2403745 CCATCTTGGTCAGATTTTTTTCATTTTGATTTGATGTATGGTTACCACCCTAGTCAAATTTTTCT
65 CCACCCTGGTCAGATTCTTTTCATTTTGATTTGATGTATAGTTACCACCCTGGTCAAA--TTCCT
*
2403810 CAT
128 -TT
* *
2403813 TTCGGTCTGACATATGGTTACCACCC-GGTCA
1 TTCTGTTTGACATATGGTTACCACCCTGGTCA
2403844 TATTCTTTTT
Statistics
Matches: 239, Mismatches: 46, Indels: 22
0.78 0.15 0.07
Matches are distributed among these distances:
130 1 0.00
131 17 0.07
132 207 0.87
133 12 0.05
134 2 0.01
ACGTcount: A:0.22, C:0.22, G:0.15, T:0.41
Consensus pattern (129 bp):
TTCTGTTTGACATATGGTTACCACCCTGGTCAAACTTACCTCCTTTCGGTCTGACGTATGGTTAC
CACCCTGGTCAGATTCTTTTCATTTTGATTTGATGTATAGTTACCACCCTGGTCAAATTCCTTT
Found at i:2403785 original size:44 final size:43
Alignment explanation
Indices: 2403732--2403930 Score: 177
Period size: 44 Copynumber: 4.6 Consensus size: 43
2403722 CCTTTCGGTC
*
2403732 TGACATATGGTTACCATCTTGGTCAGATTTTTTTCATTTTGATT
1 TGACATATGGTTACCA-CTTGGTCAGATTTTTTTCATTTCGATT
** * * * * * *
2403776 TGATGTATGGTTACCACCCTAGTCAAATTTTTCTCATTTCGGTC
1 TGACATATGGTTACCA-CTTGGTCAGATTTTTTTCATTTCGATT
** *
2403820 TGACATATGGTTACCACCCGGTCATATTCTTTTT-ATTTCGATT
1 TGACATATGGTTACCACTTGGTCAGATT-TTTTTCATTTCGATT
* * * * *
2403863 TGACATGTGGTTACCACTTGGCCAGAGTCTTTACA-TTCTGATT
1 TGACATATGGTTACCACTTGGTCAGATTTTTTTCATTTC-GATT
*
2403906 TGACGTATGGTTACCACCTTGGTCA
1 TGACATATGGTTACCA-CTTGGTCA
2403931 AACCCTTCTA
Statistics
Matches: 122, Mismatches: 29, Indels: 8
0.77 0.18 0.05
Matches are distributed among these distances:
42 6 0.05
43 57 0.47
44 59 0.48
ACGTcount: A:0.21, C:0.20, G:0.18, T:0.42
Consensus pattern (43 bp):
TGACATATGGTTACCACTTGGTCAGATTTTTTTCATTTCGATT
Found at i:2403853 original size:88 final size:88
Alignment explanation
Indices: 2403433--2403879 Score: 311
Period size: 88 Copynumber: 5.1 Consensus size: 88
2403423 TTGACATATA
* * * * * * **
2403433 GTTACCACCATGGTTAAACTTTTCTTATTTCGGTCTGACGTATGGTTACAACCCTAATCAGATTC
1 GTTACCACCCTGGTCAAATTTTTCTCATTTCGGTCTGACATATGGTTACCACCC-GGTCAGATTC
* *
2403498 -TTTTCATTCTGATTTGATGTATA
65 TTTTTCATTTTGATTTGATGTATG
* * ** * * * *
2403521 GTTACCACCATGGTCAAATCTGCCT-TTTTCTTGTTTGACATATGGTTACCACCCTGGTCA-AAT
1 GTTACCACCCTGGTCAAATTTTTCTCATTTC-GGTCTGACATATGGTTACCACCC-GGTCAGATT
*** * * *
2403584 CTACCTCTTTCTTG-TCTGACGTATG
64 CTTTTTCATT-TTGATTTGATGTATG
* * * * * * * * * * *
2403609 ATTACCACCCTGGTCAGATTCTTT-TCATTTTGATTTGAAATCTAGTTACAACCCCGGTAAAATT
1 GTTACCACCCTGGTCAAATT-TTTCTCATTTCGGTCTGACATATGGTTACCA-CCCGGTCAGATT
**
2403673 C-ACTTC-TGTTCTG-TTTGATGTATG
64 CTTTTTCAT-TT-TGATTTGATGTATG
* * * **
2403697 ATTACCACCCTGGTCAAACTTTTCTCCTTTCGGTCTGACATATGGTTACCATCTTGGTCAGATT-
1 GTTACCACCCTGGTCAAATTTTTCTCATTTCGGTCTGACATATGGTTACCA-CCCGGTCAGATTC
2403761 TTTTTCATTTTGATTTGATGTATG
65 TTTTTCATTTTGATTTGATGTATG
* *
2403785 GTTACCACCCTAGTCAAATTTTTCTCATTTCGGTCTGACATATGGTTACCACCCGGTCATATTCT
1 GTTACCACCCTGGTCAAATTTTTCTCATTTCGGTCTGACATATGGTTACCACCCGGTCAGATTCT
* ** *
2403850 TTTT-ATTTCGATTTGACATGTG
66 TTTTCATTTTGATTTGATGTATG
2403872 GTTACCAC
1 GTTACCAC
2403880 TTGGCCAGAG
Statistics
Matches: 277, Mismatches: 68, Indels: 29
0.74 0.18 0.08
Matches are distributed among these distances:
87 45 0.16
88 219 0.79
89 13 0.05
ACGTcount: A:0.21, C:0.22, G:0.15, T:0.41
Consensus pattern (88 bp):
GTTACCACCCTGGTCAAATTTTTCTCATTTCGGTCTGACATATGGTTACCACCCGGTCAGATTCT
TTTTCATTTTGATTTGATGTATG
Found at i:2403874 original size:43 final size:42
Alignment explanation
Indices: 2403693--2403879 Score: 149
Period size: 44 Copynumber: 4.3 Consensus size: 42
2403683 CTGTTTGATG
* * ** * *
2403693 TATGATTACCACCCTGGTCAAACTTTTCTCCTTTCGGTCTGACA
1 TATGGTTACCACCC-GGTCAAA-TTTTTTTATTTCGATTTGACA
** * * **
2403737 TATGGTTACCATCTTGGTCAGATTTTTTTCATTTTGATTTGATG
1 TATGGTTACCA-CCCGGTCAAATTTTTTT-ATTTCGATTTGACA
* * * *
2403781 TATGGTTACCACCCTAGTCAAATTTTTCTCATTTCGGTCTGACA
1 TATGGTTACCACCC-GGTCAAATTTTT-TTATTTCGATTTGACA
*
2403825 TATGGTTACCACCCGGTCATATTCTTTTTATTTCGATTTGACA
1 TATGGTTACCACCCGGTCAAATT-TTTTTATTTCGATTTGACA
*
2403868 TGTGGTTACCAC
1 TATGGTTACCAC
2403880 TTGGCCAGAG
Statistics
Matches: 110, Mismatches: 28, Indels: 11
0.74 0.19 0.07
Matches are distributed among these distances:
43 37 0.34
44 71 0.65
45 2 0.02
ACGTcount: A:0.20, C:0.22, G:0.16, T:0.42
Consensus pattern (42 bp):
TATGGTTACCACCCGGTCAAATTTTTTTATTTCGATTTGACA
Found at i:2403894 original size:43 final size:43
Alignment explanation
Indices: 2403732--2403927 Score: 117
Period size: 43 Copynumber: 4.5 Consensus size: 43
2403722 CCTTTCGGTC
* * * * *
2403732 TGACATATGGTTACCATCTTGGTCAGATTTTTTTCATTTTGATT
1 TGACATATGGTTACCA-CTTGGCCAGAGTCTTTACATTTCGATT
** * * * * * * * *
2403776 TGATGTATGGTTACCACCCTAGTCA-AATTTTTCTCATTTCGGTC
1 TGACATATGGTTACCA-CTTGGCCAGAGTCTTT-ACATTTCGATT
** * * * **
2403820 TGACATATGGTTACCACCCGGTCATATTCTTTTTATTTCGATT
1 TGACATATGGTTACCACTTGGCCAGAGTCTTTACATTTCGATT
*
2403863 TGACATGTGGTTACCACTTGGCCAGAGTCTTTACA-TTCTGATT
1 TGACATATGGTTACCACTTGGCCAGAGTCTTTACATTTC-GATT
*
2403906 TGACGTATGGTTACCACCTTGG
1 TGACATATGGTTACCA-CTTGG
2403928 TCAAACCCTT
Statistics
Matches: 120, Mismatches: 28, Indels: 8
0.77 0.18 0.05
Matches are distributed among these distances:
42 3 0.03
43 65 0.54
44 52 0.43
ACGTcount: A:0.20, C:0.20, G:0.18, T:0.42
Consensus pattern (43 bp):
TGACATATGGTTACCACTTGGCCAGAGTCTTTACATTTCGATT
Found at i:2404172 original size:44 final size:43
Alignment explanation
Indices: 2404057--2404518 Score: 229
Period size: 44 Copynumber: 10.6 Consensus size: 43
2404047 GTCTAACATG
* *
2404057 TATT-GACGTATGGTTACCACCCTA-CCAGAT-TCTTTTCATT-
1 TATTCGACGTATGGTTACCACCCTAGTCAAATCTCTTTT-ATTC
* *
2404097 TAGATTTGACGTATGGTTACCACCCTAGTCAAATCTACCTTTATTC
1 T--ATTCGACGTATGGTTACCACCCTAGTCAAATCT-CTTTTATTC
*
2404143 TATTCGACGTATGGTTACCACCCTGGTCAAA-CT-TTTCTCATTTC
1 TATTCGACGTATGGTTACCACCCTAGTCAAATCTCTTT-T-A-TTC
* * *
2404187 GATAT-GACGTATGGTTACTACCCTAGTCAGAT-TCTTTTCATTC
1 TAT-TCGACGTATGGTTACCACCCTAGTCAAATCTCTTTT-ATTC
* * * * *
2404230 TGATTTGACATATGGTTACCACCCTAGTCATATCTACCTCT-TTC
1 T-ATTCGACGTATGGTTACCACCCTAGTCAAATCT-CTTTTATTC
* * * * **
2404274 T-TGTCTAACATATGGTTACCACGCTAGCCAGCT-TCTTTGTATTCC
1 TAT-TC-GACGTATGGTTACCACCCTAGTCAAATCTCTTT-TATT-C
* ** * * * *
2404319 GATTTAATGTATGGTTACCACCCTGGTCAAATCTACCTATT-TCC
1 TATTCGACGTATGGTTACCACCCTAGTCAAATCT--CTTTTATTC
* * * *
2404363 TA-TCTGACGCATGGTTACCACCCTGGTCAGAT-TCTTTTCATTT
1 TATTC-GACGTATGGTTACCACCCTAGTCAAATCTCTTTT-ATTC
* * * *
2404406 TGATTTGACGTATGGTTACCACCCTGGTCAAATCTGCCTCT-TTC
1 T-ATTCGACGTATGGTTACCACCCTAGTCAAATCT-CTTTTATTC
* * *
2404450 T-TGTCTGACATATGGTTACCACCCTAGTTAGAT-TCTTTTCATTC
1 TAT-TC-GACGTATGGTTACCACCCTAGTCAAATCTCTTTT-ATTC
**
2404494 TTATTTAACGTATGGTTACCACCCT
1 -TATTCGACGTATGGTTACCACCCT
2404519 GGTTAAACCT
Statistics
Matches: 323, Mismatches: 60, Indels: 74
0.71 0.13 0.16
Matches are distributed among these distances:
40 1 0.00
41 6 0.02
42 11 0.03
43 36 0.11
44 235 0.73
45 17 0.05
46 14 0.04
47 3 0.01
ACGTcount: A:0.22, C:0.25, G:0.14, T:0.39
Consensus pattern (43 bp):
TATTCGACGTATGGTTACCACCCTAGTCAAATCTCTTTTATTC
Found at i:2404334 original size:176 final size:177
Alignment explanation
Indices: 2404149--2404526 Score: 521
Period size: 176 Copynumber: 2.1 Consensus size: 177
2404139 ATTCTATTCG
** * *
2404149 ACGTATGGTTACCACCCTGGTCAAACT-TTTCTCATTT-CGATATGACGTATGGTTACTACCCTA
1 ACGTATGGTTACCACCCTGGTCAAACTCTACCT-ATTTCCGATATGACGCATGGTTACCACCCTA
*
2404212 GTCAGATTCTTTTCATTCTGATTTGACATATGGTTACCACCCTAGTCATATCTACCTCTTTCTTG
65 GTCAGATTCTTTTCATTCTGATTTGACATATGGTTACCACCCTAGTCAAATCTACCTCTTTCTTG
* *
2404277 TCTAACATATGGTTACCACGCTAGCCAGCTTCTTTGT-ATTCCGATTTA
130 TCTAACATATGGTTACCACCCTAGCCAGATTCTTT-TCATTCCGATTTA
* * * *
2404325 ATGTATGGTTACCACCCTGGTCAAA-TCTACCTATTTCCTATCTGACGCATGGTTACCACCCTGG
1 ACGTATGGTTACCACCCTGGTCAAACTCTACCTATTTCCGATATGACGCATGGTTACCACCCTAG
* * * *
2404389 TCAGATTCTTTTCATTTTGATTTGACGTATGGTTACCACCCTGGTCAAATCTGCCTCTTTCTTGT
66 TCAGATTCTTTTCATTCTGATTTGACATATGGTTACCACCCTAGTCAAATCTACCTCTTTCTTGT
* ** **
2404454 CTGACATATGGTTACCACCCTAGTTAGATTCTTTTCATTCTTATTTA
131 CTAACATATGGTTACCACCCTAGCCAGATTCTTTTCATTCCGATTTA
*
2404501 ACGTATGGTTACCACCCTGGTTAAAC
1 ACGTATGGTTACCACCCTGGTCAAAC
2404527 CTTTATAACC
Statistics
Matches: 176, Mismatches: 22, Indels: 7
0.86 0.11 0.03
Matches are distributed among these distances:
175 6 0.03
176 170 0.97
ACGTcount: A:0.22, C:0.25, G:0.15, T:0.38
Consensus pattern (177 bp):
ACGTATGGTTACCACCCTGGTCAAACTCTACCTATTTCCGATATGACGCATGGTTACCACCCTAG
TCAGATTCTTTTCATTCTGATTTGACATATGGTTACCACCCTAGTCAAATCTACCTCTTTCTTGT
CTAACATATGGTTACCACCCTAGCCAGATTCTTTTCATTCCGATTTA
Found at i:2404520 original size:88 final size:88
Alignment explanation
Indices: 2404103--2404521 Score: 465
Period size: 88 Copynumber: 4.8 Consensus size: 88
2404093 CATTTAGATT
* * *
2404103 TGACGTATGGTTACCACCCTAGTCAAATCTACCTTT-ATTC-TATTCGACGTATGGTTACCACCC
1 TGACGTATGGTTACCACCCTAGTCAGAT-T-CTTTTCATTCTTATTTGACGTATGGTTACCACCC
** *
2404166 TGGTCAAA-CTTTTCTCATTTC--GATA
64 TGGTCAAATC-TACCTC-TTTCTTG-TC
* * * *
2404191 TGACGTATGGTTACTACCCTAGTCAGATTCTTTTCATTCTGATTTGACATATGGTTACCACCCTA
1 TGACGTATGGTTACCACCCTAGTCAGATTCTTTTCATTCTTATTTGACGTATGGTTACCACCCTG
*
2404256 GTCATATCTACCTCTTTCTTGTC
66 GTCAAATCTACCTCTTTCTTGTC
* * * * * ** * *
2404279 TAACATATGGTTACCACGCTAGCCAGCTTCTTTGT-ATTCCGATTTAATGTATGGTTACCACCCT
1 TGACGTATGGTTACCACCCTAGTCAGATTCTTT-TCATTCTTATTTGACGTATGGTTACCACCCT
* * *
2404343 GGTCAAATCTACCTATTTCCTATC
65 GGTCAAATCTACCTCTTTCTTGTC
* *
2404367 TGACGCATGGTTACCACCCTGGTCAGATTCTTTTCATT-TTGATTTGACGTATGGTTACCACCCT
1 TGACGTATGGTTACCACCCTAGTCAGATTCTTTTCATTCTT-ATTTGACGTATGGTTACCACCCT
*
2404431 GGTCAAATCTGCCTCTTTCTTGTC
65 GGTCAAATCTACCTCTTTCTTGTC
* * *
2404455 TGACATATGGTTACCACCCTAGTTAGATTCTTTTCATTCTTATTTAACGTATGGTTACCACCCTG
1 TGACGTATGGTTACCACCCTAGTCAGATTCTTTTCATTCTTATTTGACGTATGGTTACCACCCTG
2404520 GT
66 GT
2404522 TAAACCTTTA
Statistics
Matches: 276, Mismatches: 46, Indels: 18
0.81 0.14 0.05
Matches are distributed among these distances:
86 4 0.01
87 10 0.04
88 257 0.93
89 5 0.02
ACGTcount: A:0.21, C:0.25, G:0.15, T:0.38
Consensus pattern (88 bp):
TGACGTATGGTTACCACCCTAGTCAGATTCTTTTCATTCTTATTTGACGTATGGTTACCACCCTG
GTCAAATCTACCTCTTTCTTGTC
Found at i:2405495 original size:42 final size:42
Alignment explanation
Indices: 2404635--2405519 Score: 645
Period size: 42 Copynumber: 21.1 Consensus size: 42
2404625 AACCCTTCTA
* * * * *
2404635 ACTTCTTTACCTTTAGTTTGCTTATCGGCTTTAACCTTAGAT
1 ACTTCTTTACCTTTAGTCTGCCTATCGGCTTTGACCCTAGAG
* * * * * * *
2404677 ACTTCCTTACCTTTAGTCTACATGTTGACTTTGACCCTAAAG
1 ACTTCTTTACCTTTAGTCTGCCTATCGGCTTTGACCCTAGAG
** * * * * *
2404719 ACTTCTTTACCCCTAGTTTACCTATCGACTTTGACCATGGAG
1 ACTTCTTTACCTTTAGTCTGCCTATCGGCTTTGACCCTAGAG
* * ** * *
2404761 ACTTCTTTACCTCTAGTTTGCCTATTAGCTTTGACCTTGGAG
1 ACTTCTTTACCTTTAGTCTGCCTATCGGCTTTGACCCTAGAG
* * * ** * *
2404803 ACTTCCTGACTTTTAGTCTGCCTATCATCTTTGACCTTGGAG
1 ACTTCTTTACCTTTAGTCTGCCTATCGGCTTTGACCCTAGAG
* * * * * *
2404845 ACTTCTTAACCTTTAGTTTGCCTGTAGGGTTTAACCCTAGAG
1 ACTTCTTTACCTTTAGTCTGCCTATCGGCTTTGACCCTAGAG
* * * * *
2404887 ACTT-TCTTACCTTTAGTTTGCTTGTCGGCTTTGACCTTGGAG
1 ACTTCT-TTACCTTTAGTCTGCCTATCGGCTTTGACCCTAGAG
* * * * * *
2404929 ACTTCCTAACCTTTAGTCTGCATGTCAGG-TTTAACCCTACAG
1 ACTTCTTTACCTTTAGTCTGCCTATC-GGCTTTGACCCTAGAG
* * **
2404971 ACTTCTTTACCTTTAGTCTGCTTGTCGGCTTTGACCCCGGAG
1 ACTTCTTTACCTTTAGTCTGCCTATCGGCTTTGACCCTAGAG
* * * * **
2405013 ACTTCTTGACTTTTAGTCTACCTGTCAACTTTGACCCTAGAG
1 ACTTCTTTACCTTTAGTCTGCCTATCGGCTTTGACCCTAGAG
* * *
2405055 ACTTCTTTACCCTTAGTCTGCCTATCGGCTTTGACCTTGGAG
1 ACTTCTTTACCTTTAGTCTGCCTATCGGCTTTGACCCTAGAG
* ** * * ** *
2405097 ACTTCCTTACAATTAGTCTGCCTGTCGGCTTTAACATTGGA-
1 ACTTCTTTACCTTTAGTCTGCCTATCGGCTTTGACCCTAGAG
* * * *
2405138 AGCTTTTTTACTTTTAGTCTGCCTATTGGCTTTAACCCTAGAG
1 A-CTTCTTTACCTTTAGTCTGCCTATCGGCTTTGACCCTAGAG
* * * * * *
2405181 ACCTCCTTACCTTTTGTCTACCTACCGGCTTTGACCCTGGAG
1 ACTTCTTTACCTTTAGTCTGCCTATCGGCTTTGACCCTAGAG
* * * * ** * * * *
2405223 ATTTC-CTGCCTTTTAGTCTTCCTATTTAG-TTTTACCTTGGAA
1 ACTTCTTTACC-TTTAGTCTGCCTA-TCGGCTTTGACCCTAGAG
* * *
2405265 ACTTCTTTACCCTTAGTCTGCTTGTCGGCTTTGACCCTAGAG
1 ACTTCTTTACCTTTAGTCTGCCTATCGGCTTTGACCCTAGAG
*
2405307 ACTTTTTTACCTTTAGTCTGCCTATCGGCTTTGACCC-ATGAG
1 ACTTCTTTACCTTTAGTCTGCCTATCGGCTTTGACCCTA-GAG
* * * *
2405349 ACATT-TTTATCTTTAGTTTGCCTATTGGCTTTGACCTTAGAG
1 AC-TTCTTTACCTTTAGTCTGCCTATCGGCTTTGACCCTAGAG
* * * *
2405391 ACTTCTTTACCTTTAGTCTGCCTATC-ACCTTGACCTTGGAG
1 ACTTCTTTACCTTTAGTCTGCCTATCGGCTTTGACCCTAGAG
* * *
2405432 ACTTTTTTACCTTTAGTCTGCTTGTCGGCTTTGACCCTAGAG
1 ACTTCTTTACCTTTAGTCTGCCTATCGGCTTTGACCCTAGAG
* * * * *
2405474 ACTTCCTTACCCTTAGTCTG-CTCATCAGCTTCGACCCGAGAG
1 ACTTCTTTACCTTTAGTCTGCCT-ATCGGCTTTGACCCTAGAG
2405516 ACTT
1 ACTT
2405520 TTTTCTCTTT
Statistics
Matches: 663, Mismatches: 164, Indels: 32
0.77 0.19 0.04
Matches are distributed among these distances:
41 48 0.07
42 605 0.91
43 10 0.02
ACGTcount: A:0.18, C:0.26, G:0.16, T:0.40
Consensus pattern (42 bp):
ACTTCTTTACCTTTAGTCTGCCTATCGGCTTTGACCCTAGAG
Found at i:2406852 original size:19 final size:18
Alignment explanation
Indices: 2406809--2406852 Score: 52
Period size: 19 Copynumber: 2.4 Consensus size: 18
2406799 CAAGCAGCTG
2406809 AAGCAAGAAACAAATAGA
1 AAGCAAGAAACAAATAGA
* * *
2406827 AAACAAGAAAAGAAATAGC
1 AAGCAAG-AAACAAATAGA
2406846 AAGCAAG
1 AAGCAAG
2406853 TAGCGAAAAA
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
18 6 0.29
19 15 0.71
ACGTcount: A:0.66, C:0.11, G:0.18, T:0.05
Consensus pattern (18 bp):
AAGCAAGAAACAAATAGA
Found at i:2409121 original size:154 final size:155
Alignment explanation
Indices: 2408764--2409126 Score: 431
Period size: 155 Copynumber: 2.3 Consensus size: 155
2408754 CCACTAAGGA
* * * * ** *
2408764 TATCAAGTACTTCTACATCAAAGATATCCCTTATGGGCATTTTCATAATTTCCTATAACCGAGTC
1 TATCAAGTACTTCTACGTCGAAGATATCCCTTAAGGGCATTTTCGTAATTTTTTAGAACCGAGTC
* ** * * *
2408829 CTAGGTCATCACTGGGTCTGCTTCTATGCCGAAGGTGTATGTTTAGGATAGGTTCATCCCTTTTA
66 CTAGGTCATCACCGGGTCTGCTTCTATGCCGAAGGTAAATATTTAAGATAGATTCATCCCTTTTA
*
2408894 AAATCCTTTTTAAGTCCTTTAGGGG
131 AAATCCTTTTCAAGTCCTTTAGGGG
** * * * * *
2408919 TATCGGGCACTTCTACGTCGAAGGTATCCCTTAGGGGCATTTTGGTAATTTTTTAGAATCGAGTC
1 TATCAAGTACTTCTACGTCGAAGATATCCCTTAAGGGCATTTTCGTAATTTTTTAGAACCGAGTC
* ** * *
2408984 TTAGGTTGTCACCGGGTCTGCTTTTATGCTGAAGGTAAATATTTAAGATAGATT-ATCCCTTTTA
66 CTAGGTCATCACCGGGTCTGCTTCTATGCCGAAGGTAAATATTTAAGATAGATTCATCCCTTTTA
*
2409048 AAATCCTTTTCAAGTCTTTTAGGGG
131 AAATCCTTTTCAAGTCCTTTAGGGG
* * * * *
2409073 TGTCAAGTACTTCTACGTTGAATATATCCCTTAAGGGTAATTTCGTAATTTTTT
1 TATCAAGTACTTCTACGTCGAAGATATCCCTTAAGGGCATTTTCGTAATTTTTT
2409127 TAAACTTAGC
Statistics
Matches: 171, Mismatches: 37, Indels: 1
0.82 0.18 0.00
Matches are distributed among these distances:
154 76 0.44
155 95 0.56
ACGTcount: A:0.24, C:0.18, G:0.19, T:0.39
Consensus pattern (155 bp):
TATCAAGTACTTCTACGTCGAAGATATCCCTTAAGGGCATTTTCGTAATTTTTTAGAACCGAGTC
CTAGGTCATCACCGGGTCTGCTTCTATGCCGAAGGTAAATATTTAAGATAGATTCATCCCTTTTA
AAATCCTTTTCAAGTCCTTTAGGGG
Found at i:2414785 original size:162 final size:163
Alignment explanation
Indices: 2414535--2415135 Score: 555
Period size: 165 Copynumber: 3.6 Consensus size: 163
2414525 ATATCATGAG
* * * * *
2414535 ATTTTCTTCTCCGTAAAATTTTTTGAGGGGATTTTTATGT-GTTTAAAATTTTTAAAACTCATCA
1 ATTTTCTACTCTGT-AAATTTTTTG-GGGGATTTTTCT-TATTTTAAAA-TTTTAAAATTCATCA
* * *
2414599 AATATTATT-ATTTAAATCATATTAAATTAGTTCTCAAAAATTCATTCATTTTCATAAATTTTTG
62 AATA-TATTCATTT-AATCATATTAAATTAGTTTTCAAAAATTCATTCATTTTCATGAGTTTTTG
* ** *
2414663 AATTTTTTCCTTGAAACTTTCTT-TTTT-TCGAAATC-GA
125 AATTTTTTCCTTGAAAATTT-TTCTTTTCTAAAAAACTGA
* * *
2414700 ATTTTCTACTCTG-CAATTTTTTGGGGGATTTTTCTTCATTTTAAAATCTTAAAATTCATAAAAT
1 ATTTTCTACTCTGTAAATTTTTTGGGGGATTTTTCTT-ATTTTAAAATTTTAAAATTCATCAAAT
* *
2414764 ATATTCATTTAATCAATATTAAATCAGTTTTCAAAAATACATTCATTTTCATGAGTTTTTGAATT
65 ATATTCATTTAATC-ATATTAAATTAGTTTTCAAAAATTCATTCATTTTCATGAGTTTTTGAATT
2414829 TTTT-CTT-AAAATTTTTCTTTTCTAAAAAACTGA
129 TTTTCCTTGAAAATTTTTCTTTTCTAAAAAACTGA
* * * *
2414862 ATTTTCTACTCTGTAAATTTTTTCGGGGGGATTTTTCTTGATTTTTAATTTTTATAATTCACCAA
1 ATTTTCTACTCTGTAAATTTTTT--GGGGGATTTTTCTT-ATTTTAAAATTTTAAAATTCATCAA
*
2414927 ATAT-TATCATTTAATTCATATTAAATTAATTTTCAAAAATTCATTCATTTTCATGAGTTTTTGA
63 ATATAT-TCATTTAA-TCATATTAAATTAGTTTTCAAAAATTCATTCATTTTCATGAGTTTTTGA
* *
2414991 ATTTTTTTCCTTG-AAATTTTTCATTTT-TGAAAAA-TCAA
126 A-TTTTTTCCTTGAAAATTTTTC-TTTTCTAAAAAACT-GA
** ** **** * * *
2415029 ATTTTCTTTTCCATAAATTTTTTCGACAAAATTTTCTTGA-TTTAAAATTTTTAAAATTTATCTA
1 ATTTTCTACTCTGTAAATTTTTT-GGGGGATTTTTCTT-ATTTTAAAA-TTTTAAAATTCATCAA
* * **
2415093 ATAT-TATCATTAAATTCATATTAAATCAGTTTTGGAAAATTCA
63 ATATAT-TCATTTAA-TCATATTAAATTAGTTTTCAAAAATTCA
2415136 AACTATTTCA
Statistics
Matches: 367, Mismatches: 51, Indels: 35
0.81 0.11 0.08
Matches are distributed among these distances:
159 2 0.01
160 10 0.03
161 17 0.05
162 95 0.26
163 24 0.07
164 1 0.00
165 106 0.29
166 70 0.19
167 38 0.10
168 4 0.01
ACGTcount: A:0.32, C:0.11, G:0.07, T:0.49
Consensus pattern (163 bp):
ATTTTCTACTCTGTAAATTTTTTGGGGGATTTTTCTTATTTTAAAATTTTAAAATTCATCAAATA
TATTCATTTAATCATATTAAATTAGTTTTCAAAAATTCATTCATTTTCATGAGTTTTTGAATTTT
TTCCTTGAAAATTTTTCTTTTCTAAAAAACTGA
Found at i:2416707 original size:163 final size:162
Alignment explanation
Indices: 2416437--2416877 Score: 577
Period size: 163 Copynumber: 2.7 Consensus size: 162
2416427 AAGATATTTC
* * *
2416437 AATATTAATAATTTTTTTAATCTTTTATATTCCTAT-AGGGGTCC-TAAGGGTAAAAAAGATTTT
1 AATATTAAT-CTTTTTTTAATCTTTTATATTCCTATGA-GGGTCCGTAAGGGTATAAAAGATTTC
* * *
2416500 AAAAATATTTCATATCTTTTCGGGTTTTCATTAAGGTACGAAATGATATTTTTCGAAAATAGATA
64 AAAACT-TTTCATATCTTTTCGGGTTTTCATTAAGGTACGAAATGATATTTTTCAAAAATAAATA
* * ** *
2416565 ACTAAAATTATGTTAACACTTTCATGATTAAAATA
128 AATAAAATAAAATTAACACTTTAATGATTAAAATA
2416600 AATATTAATCTTTTTTTCAATCTTTTATATTCCTATGAGGGTCCGTAAGGG-ATAAAAGATTTCA
1 AATATTAATCTTTTTTT-AATCTTTTATATTCCTATGAGGGTCCGTAAGGGTATAAAAGATTTCA
* *
2416664 AAAGCTTTTCATATCTTTTTGGGTTTCCATTAAGGTACGAAATGATATTTTTCAAAAATAAATAA
65 AAA-CTTTTCATATCTTTTCGGGTTTTCATTAAGGTACGAAATGATATTTTTCAAAAATAAATAA
* *
2416729 ATAAAATAAAATTAACACTTTAATGATTGAAATC
129 ATAAAATAAAATTAACACTTTAATGATTAAAATA
* * * *
2416763 AATATTAATCATTTTTTTTAAT-TTTTATATTCTTATGGGGGTCCGT-GGGGTATAAAAGGTTTC
1 AATATTAATC--TTTTTTTAATCTTTTATATTCCTATGAGGGTCCGTAAGGGTATAAAAGATTTC
* * *
2416826 AAAAACTTTTCGTGTCTTTTCAGGTTTTCATTAAGGTACGAAATGATATTTT
64 -AAAACTTTTCATATCTTTTCGGGTTTTCATTAAGGTACGAAATGATATTTT
2416878 CGAGAAAGAG
Statistics
Matches: 246, Mismatches: 24, Indels: 16
0.86 0.08 0.06
Matches are distributed among these distances:
162 10 0.04
163 214 0.87
164 15 0.06
165 7 0.03
ACGTcount: A:0.35, C:0.10, G:0.13, T:0.42
Consensus pattern (162 bp):
AATATTAATCTTTTTTTAATCTTTTATATTCCTATGAGGGTCCGTAAGGGTATAAAAGATTTCAA
AACTTTTCATATCTTTTCGGGTTTTCATTAAGGTACGAAATGATATTTTTCAAAAATAAATAAAT
AAAATAAAATTAACACTTTAATGATTAAAATA
Found at i:2416924 original size:14 final size:14
Alignment explanation
Indices: 2416891--2416918 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
2416881 GAAAGAGATT
2416891 TAAAGAAAATAATA
1 TAAAGAAAATAATA
2416905 TAAAGAAAATAATA
1 TAAAGAAAATAATA
2416919 ATAAGATTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.71, C:0.00, G:0.07, T:0.21
Consensus pattern (14 bp):
TAAAGAAAATAATA
Found at i:2422948 original size:79 final size:79
Alignment explanation
Indices: 2422862--2423035 Score: 215
Period size: 79 Copynumber: 2.2 Consensus size: 79
2422852 GATAAAGACG
* * * * * *
2422862 GGGTTGGAGTATCCCCTTAGAAATAACGGGGCTGGAGTATCCCCAATTGTGGAAAATCGATATTC
1 GGGTTGGAGTATCCCCTCAAAAATAACGAGGCTAGAGTATCCCCAATTATGAAAAATCGATATTC
*
2422927 TAAAAATAAAA-CT
66 TAAAAATAAAATCC
* * * *
2422940 GGAGTTGGAGTATCCCCTCAAAAATAACGAGGTTAGAGTATCCTCGATTATGAAAAATCGATGTT
1 GG-GTTGGAGTATCCCCTCAAAAATAACGAGGCTAGAGTATCCCCAATTATGAAAAATCGATATT
* *
2423005 TTGAAAATAAAATCC
65 CTAAAAATAAAATCC
2423020 GGGTTGGAGTATCCCC
1 GGGTTGGAGTATCCCC
2423036 GATGGTAGAA
Statistics
Matches: 81, Mismatches: 13, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
78 2 0.02
79 76 0.94
80 3 0.04
ACGTcount: A:0.34, C:0.17, G:0.23, T:0.26
Consensus pattern (79 bp):
GGGTTGGAGTATCCCCTCAAAAATAACGAGGCTAGAGTATCCCCAATTATGAAAAATCGATATTC
TAAAAATAAAATCC
Found at i:2423033 original size:51 final size:49
Alignment explanation
Indices: 2422970--2423086 Score: 128
Period size: 51 Copynumber: 2.3 Consensus size: 49
2422960 AAAATAACGA
* * *
2422970 GGTTAGAGTATCCTCGAT-TATGAAAAATCGATGTTTTGAAAATAAAATCCG
1 GGTTGGAGTATCCCCGATGTA-G-AAAATCGATATTTTGAAAATAAAAT-CG
* * *
2423021 GGTTGGAGTATCCCCGATGGTAGAAAATTGGTATTTTGAAAATAAAATTG
1 GGTTGGAGTATCCCCGAT-GTAGAAAATCGATATTTTGAAAATAAAATCG
2423071 GGATTGGAGTATCCCC
1 GG-TTGGAGTATCCCC
2423087 TCAAAAATAA
Statistics
Matches: 57, Mismatches: 6, Indels: 6
0.83 0.09 0.09
Matches are distributed among these distances:
50 3 0.05
51 51 0.89
52 1 0.02
53 2 0.04
ACGTcount: A:0.33, C:0.12, G:0.24, T:0.31
Consensus pattern (49 bp):
GGTTGGAGTATCCCCGATGTAGAAAATCGATATTTTGAAAATAAAATCG
Found at i:2423078 original size:130 final size:129
Alignment explanation
Indices: 2422894--2423164 Score: 368
Period size: 130 Copynumber: 2.1 Consensus size: 129
2422884 ATAACGGGGC
* *
2422894 TGGAGTATCCCCAATTGTGGAAAATCGATATTCTAAAAATAAAACTGGAGTTGGAGTATCCCCTC
1 TGGAGTATCCCCAATGGTAGAAAATCGATATTCTAAAAATAAAACTGGAGTTGGAGTATCCCCTC
* *
2422959 AAAAATAACGAGGTTAGAGTATCCTCGATTATGAAAAATC-GATGTTTTGAAAATAAAA-TCCGG
66 AAAAATAACGAGGTTAGAGTATCCCCGATTATG-AAAATCAG-TGTTTTGAAAATAAAACT-AGG
2423022 GT
128 GT
* * * * * *
2423024 TGGAGTATCCCCGATGGTAGAAAATTGGTATTTTGAAAATAAAATTGG-GATTGGAGTATCCCCT
1 TGGAGTATCCCCAATGGTAGAAAATCGATATTCTAAAAATAAAACTGGAG-TTGGAGTATCCCCT
* *
2423088 CAAAAATAATGAGGTTAGAGTATCCCCGATTGTGAAAATCAGTGTTTTGAAAATAAAACTAGGGT
65 CAAAAATAACGAGGTTAGAGTATCCCCGATTATGAAAATCAGTGTTTTGAAAATAAAACTAGGGT
*
2423153 TGGAGCATCCCC
1 TGGAGTATCCCC
2423165 TCGAAAATAA
Statistics
Matches: 125, Mismatches: 13, Indels: 7
0.86 0.09 0.05
Matches are distributed among these distances:
129 38 0.30
130 87 0.70
ACGTcount: A:0.36, C:0.14, G:0.22, T:0.28
Consensus pattern (129 bp):
TGGAGTATCCCCAATGGTAGAAAATCGATATTCTAAAAATAAAACTGGAGTTGGAGTATCCCCTC
AAAAATAACGAGGTTAGAGTATCCCCGATTATGAAAATCAGTGTTTTGAAAATAAAACTAGGGT
Found at i:2423141 original size:78 final size:78
Alignment explanation
Indices: 2423021--2423381 Score: 365
Period size: 78 Copynumber: 4.6 Consensus size: 78
2423011 ATAAAATCCG
* * * *
2423021 GGTTGGAGTATCCCCGATGGTAGAAAATTGGTATTTTGAAAATAAAATTGGGATTGGAGTATCCC
1 GGTTGGAGTATCCCCGATTGTGGAAAATTAGTGTTTTGAAAATAAAATTGGG-TTGGAGTATCCC
*
2423086 CTCAAAAATAATGA
65 CTCAAAAATAACGA
* * * *
2423100 GGTTAGAGTATCCCCGATTGT-GAAAATCAGTGTTTTGAAAATAAAACTAGGGTTGGAGCATCCC
1 GGTTGGAGTATCCCCGATTGTGGAAAATTAGTGTTTTGAAAATAAAA-TTGGGTTGGAGTATCCC
* *
2423164 CTCGAAAATAACGG
65 CTCAAAAATAACGA
** * *
2423178 GGTTGGAGTATCCCTAATTATGGAAAATTTA-TGTTTT-AGAAATAAAACTGGGGTTGGAGTATC
1 GGTTGGAGTATCCCCGATTGTGGAAAA-TTAGTGTTTTGA-AAATAAAA-TTGGGTTGGAGTATC
* *
2423241 TCCTCATAAATAACGA
63 CCCTCAAAAATAACGA
* * * * *
2423257 GGTTGGAGTATCCCCGATTATGAAAAATTAATGTTTTGGAAAT-AAATTGAGGTTGGACTATCCC
1 GGTTGGAGTATCCCCGATTGTGGAAAATTAGTGTTTTGAAAATAAAATTG-GGTTGGAGTATCCC
** *
2423321 CTTGAAAATAA-TA
65 CTCAAAAATAACGA
* *
2423334 GGGTTAGAGTATCCCCGATTGTGGAAAA-TCGATGTTTTGAAAATAAAA
1 -GGTTGGAGTATCCCCGATTGTGGAAAATTAG-TGTTTTGAAAATAAAA
2423382 CCAGGGTTGG
Statistics
Matches: 234, Mismatches: 38, Indels: 20
0.80 0.13 0.07
Matches are distributed among these distances:
77 4 0.02
78 123 0.53
79 105 0.45
80 2 0.01
ACGTcount: A:0.35, C:0.12, G:0.23, T:0.30
Consensus pattern (78 bp):
GGTTGGAGTATCCCCGATTGTGGAAAATTAGTGTTTTGAAAATAAAATTGGGTTGGAGTATCCCC
TCAAAAATAACGA
Found at i:2423214 original size:208 final size:209
Alignment explanation
Indices: 2422865--2423240 Score: 494
Period size: 208 Copynumber: 1.8 Consensus size: 209
2422855 AAAGACGGGG
* * * *
2422865 TTGGAGTATCCCCTTAGAAATAACGGGGCTGGAGTATCCCCAATTGTGGAAAATCGATATTCTAA
1 TTGGAGTATCCCCTCAAAAATAACGAGGCTAGAGTATCCCCAATTGTGGAAAATCGATATTCTAA
* *
2422930 AAATAAAACTGGAGTTGGAGTATCCCCTCAAAAATAACGAGGTTAGAGTATCCTCGATTATGAAA
66 AAATAAAACTGGAGTTGGAGCATCCCCTCAAAAATAACGAGGTTAGAGTATCCTCAATTATGAAA
2422995 AATCGATGTTTT-GAAAATAAAA-TCCGGGTTGGAGTATCCCCGATGGTAGAAAATTGGTATTTT
131 AATCGATGTTTTAG-AAATAAAACT-CGGGTTGGAGTATCCCCGATGGTAGAAAATTGGTATTTT
2423058 GAAAATAAAATTGGGA
194 GAAAATAAAATTGGGA
* * * * * *
2423074 TTGGAGTATCCCCTCAAAAATAATGAGGTTAGAGTATCCCCGATTGT-GAAAATC-AGTGTTTTG
1 TTGGAGTATCCCCTCAAAAATAACGAGGCTAGAGTATCCCCAATTGTGGAAAATCGA-TATTCTA
* * *
2423137 AAAATAAAACTAGG-GTTGGAGCATCCCCTCGAAAATAACGGGGTTGGAGTATCC-CTAATTATG
65 AAAATAAAACT-GGAGTTGGAGCATCCCCTCAAAAATAACGAGGTTAGAGTATCCTC-AATTATG
* ** *
2423200 GAAAATTTATGTTTTAGAAATAAAACTGGGGTTGGAGTATC
128 AAAAATCGATGTTTTAGAAATAAAACTCGGGTTGGAGTATC
2423241 TCCTCATAAA
Statistics
Matches: 143, Mismatches: 19, Indels: 11
0.83 0.11 0.06
Matches are distributed among these distances:
207 2 0.01
208 97 0.68
209 44 0.31
ACGTcount: A:0.35, C:0.14, G:0.23, T:0.28
Consensus pattern (209 bp):
TTGGAGTATCCCCTCAAAAATAACGAGGCTAGAGTATCCCCAATTGTGGAAAATCGATATTCTAA
AAATAAAACTGGAGTTGGAGCATCCCCTCAAAAATAACGAGGTTAGAGTATCCTCAATTATGAAA
AATCGATGTTTTAGAAATAAAACTCGGGTTGGAGTATCCCCGATGGTAGAAAATTGGTATTTTGA
AAATAAAATTGGGA
Found at i:2423311 original size:157 final size:157
Alignment explanation
Indices: 2423054--2423398 Score: 419
Period size: 157 Copynumber: 2.2 Consensus size: 157
2423044 AAAATTGGTA
* * *
2423054 TTTTGAAAATAAAATTGGGATTGGAGTATCCCCTCAAAAATAATGAGGTTAGAGTATCCCCGATT
1 TTTTGAAAATAAAACTGGGGTTGGAGTATCCCCTCAAAAATAACGAGGTTAGAGTATCCCCGATT
* * * *
2423119 GTGAAAATCAGTGTTTTGAAAATAAAACTAGGGTTGGAGC-ATCCCCTCGAAAATAACGGGGTTG
66 ATGAAAATCAATGTTTTGAAAATAAAACTAGGGTTGGA-CTATCCCCTCGAAAATAACAGGGTTA
* **
2423183 GAGTATCCCTAATTATGGAAAATTTATG
130 GAGTATCCCCAATTATGGAAAATCGATG
* * *
2423211 TTTT-AGAAATAAAACTGGGGTTGGAGTATCTCCTCATAAATAACGAGGTTGGAGTATCCCCGAT
1 TTTTGA-AAATAAAACTGGGGTTGGAGTATCCCCTCAAAAATAACGAGGTTAGAGTATCCCCGAT
* * * * *
2423275 TATGAAAAATTAATGTTTTGGAAAT-AAA-TTGAGGTTGGACTATCCCCTTGAAAATAATAGGGT
65 TATG-AAAATCAATGTTTTGAAAATAAAACTAG-GGTTGGACTATCCCCTCGAAAATAACAGGGT
* *
2423338 TAGAGTATCCCCGATTGTGGAAAATCGATG
128 TAGAGTATCCCCAATTATGGAAAATCGATG
** *
2423368 TTTTGAAAATAAAACCAGGGTTGGAGCATCC
1 TTTTGAAAATAAAACTGGGGTTGGAGTATCC
2423399 TTTTGAAAGT
Statistics
Matches: 159, Mismatches: 24, Indels: 10
0.82 0.12 0.05
Matches are distributed among these distances:
156 4 0.03
157 137 0.86
158 18 0.11
ACGTcount: A:0.34, C:0.13, G:0.23, T:0.30
Consensus pattern (157 bp):
TTTTGAAAATAAAACTGGGGTTGGAGTATCCCCTCAAAAATAACGAGGTTAGAGTATCCCCGATT
ATGAAAATCAATGTTTTGAAAATAAAACTAGGGTTGGACTATCCCCTCGAAAATAACAGGGTTAG
AGTATCCCCAATTATGGAAAATCGATG
Found at i:2425646 original size:13 final size:13
Alignment explanation
Indices: 2425628--2425658 Score: 62
Period size: 13 Copynumber: 2.4 Consensus size: 13
2425618 ACAATTCATC
2425628 ATGTATCGATATA
1 ATGTATCGATATA
2425641 ATGTATCGATATA
1 ATGTATCGATATA
2425654 ATGTA
1 ATGTA
2425659 CTATGTATCG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.39, C:0.06, G:0.16, T:0.39
Consensus pattern (13 bp):
ATGTATCGATATA
Found at i:2428254 original size:13 final size:13
Alignment explanation
Indices: 2428236--2428262 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
2428226 ATAGTAACCC
2428236 ATGTATCGATACA
1 ATGTATCGATACA
2428249 ATGTATCGATACA
1 ATGTATCGATACA
2428262 A
1 A
2428263 GGAATATTGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:2432636 original size:9 final size:9
Alignment explanation
Indices: 2432622--2432655 Score: 52
Period size: 9 Copynumber: 3.8 Consensus size: 9
2432612 TCCGAGTCAC
2432622 CATCATTAT
1 CATCATTAT
2432631 CATCATTAT
1 CATCATTAT
2432640 CATC-TTCAT
1 CATCATT-AT
2432649 CATCATT
1 CATCATT
2432656 GATGGTTGAC
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
8 2 0.09
9 19 0.83
10 2 0.09
ACGTcount: A:0.29, C:0.26, G:0.00, T:0.44
Consensus pattern (9 bp):
CATCATTAT
Found at i:2434383 original size:13 final size:13
Alignment explanation
Indices: 2434365--2434390 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2434355 ACATTATGCT
2434365 TTGTATCGATACA
1 TTGTATCGATACA
2434378 TTGTATCGATACA
1 TTGTATCGATACA
2434391 AAGCATAATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:2435496 original size:68 final size:68
Alignment explanation
Indices: 2435365--2435496 Score: 183
Period size: 68 Copynumber: 1.9 Consensus size: 68
2435355 TACATTGAAA
* ** *
2435365 AATGTATCAATACATCTGGGTAAAACCTAGAATGTATCGATACAATGAACAATGTATCAATACAG
1 AATGTATCAATACATCTGGGTAAAACCCAGAATGTATCGATACAACAAACAATGTACCAATACAG
2435430 AGT
66 AGT
** * * *
2435433 AATGTATTGATACATTTGGGTAAAACCCAGAATGTATCGATACAACAAACAATGTGCCGATACA
1 AATGTATCAATACATCTGGGTAAAACCCAGAATGTATCGATACAACAAACAATGTACCAATACA
2435497 AATTATGGAC
Statistics
Matches: 55, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
68 55 1.00
ACGTcount: A:0.42, C:0.16, G:0.17, T:0.26
Consensus pattern (68 bp):
AATGTATCAATACATCTGGGTAAAACCCAGAATGTATCGATACAACAAACAATGTACCAATACAG
AGT
Found at i:2436177 original size:34 final size:34
Alignment explanation
Indices: 2436081--2436177 Score: 122
Period size: 34 Copynumber: 2.9 Consensus size: 34
2436071 AAGGAATGGG
* * *
2436081 CATCTTGCTCTTTGAGGACAATGGAAAAAGAGTA
1 CATCCTGCTCTTTGAGGACAAAGGAAAAGGAGTA
* *
2436115 CATCCTACTCTTCGAGGACAAAGGAAAAGGAGTA
1 CATCCTGCTCTTTGAGGACAAAGGAAAAGGAGTA
** *
2436149 TGTCCTGCTCTTTGAGGATAAAGGAAAAG
1 CATCCTGCTCTTTGAGGACAAAGGAAAAG
2436178 AAAATGAAAT
Statistics
Matches: 53, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
34 53 1.00
ACGTcount: A:0.35, C:0.16, G:0.25, T:0.24
Consensus pattern (34 bp):
CATCCTGCTCTTTGAGGACAAAGGAAAAGGAGTA
Found at i:2436236 original size:42 final size:42
Alignment explanation
Indices: 2436149--2436293 Score: 159
Period size: 42 Copynumber: 3.5 Consensus size: 42
2436139 AAAAGGAGTA
* * *
2436149 TGTCCTGCTCTTTGAGGATAAAGG--AAAAGAAAATGAAATG
1 TGTCCTGCTCTTTGAGGACAAAGGAAAAAAGGAAATAAAATG
* *
2436189 GGTCCTGCTCGTTGAGGACAAAGGAAAAAAGGAAATAAAATG
1 TGTCCTGCTCTTTGAGGACAAAGGAAAAAAGGAAATAAAATG
* * *
2436231 TGTCCTGTTCTTTAAGGACAAAGGAAAAAAAGGAAATTAAAACG
1 TGTCCTGCTCTTTGAGGACAAAGG-AAAAAAGGAAA-TAAAATG
** *
2436275 CATCCTGCTCTTTGGGGAC
1 TGTCCTGCTCTTTGAGGAC
2436294 TAGAAGGAGC
Statistics
Matches: 86, Mismatches: 15, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
40 21 0.24
42 34 0.40
43 11 0.13
44 20 0.23
ACGTcount: A:0.39, C:0.14, G:0.25, T:0.23
Consensus pattern (42 bp):
TGTCCTGCTCTTTGAGGACAAAGGAAAAAAGGAAATAAAATG
Found at i:2436367 original size:61 final size:61
Alignment explanation
Indices: 2436269--2436730 Score: 591
Period size: 61 Copynumber: 7.5 Consensus size: 61
2436259 AAAGGAAATT
* * * * **
2436269 AAAACGCATCCTGCTCTTTGGGGACTAGAAGGAGCCACCAACTTGTGTGGGCTTTGCAAGG
1 AAAAGGCATCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGG
** * * * ** *
2436330 AAAAAACATCATGCTCTTTGAGGACTAAAAGGTGCCACTAGCTCATATGGGCTTTAAAAGG
1 AAAAGGCATCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGG
* * *
2436391 AAAAGGTATCCTGCTCTTTGAGGACTGAAAGATGCCACCAACTTGTGTGGGCTTTAAAAGG
1 AAAAGGCATCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGG
* * * * *
2436452 AAAAGGCATCCTCCTCTTTGAGGGCTGAAAGATGCCACCAACTTGTGTAGGCTTTAAAAGG
1 AAAAGGCATCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGG
* * * *
2436513 AAAAGGCATCCTGCTCTTTGAGGACTGAGAGGTGCCACCAACTTGTGTAGGCTTTAAAATG
1 AAAAGGCATCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGG
* * ** *
2436574 AAAAGACATCCTACTCTTTGAGGACTAGGAGGTGCCACCAACTTGTGTGGGCTTTAAAACG
1 AAAAGGCATCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGG
**
2436635 AAAAGATGGGTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGG
1 AAAAG--GCATCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGG
* *
2436698 AAAAGACATCCTGCTCTTTGAGGACTGAAAGGT
1 AAAAGGCATCCTGCTCTTTGAGGACTAAAAGGT
2436731 TAAAAGGTTT
Statistics
Matches: 349, Mismatches: 50, Indels: 4
0.87 0.12 0.01
Matches are distributed among these distances:
61 295 0.85
63 54 0.15
ACGTcount: A:0.30, C:0.20, G:0.26, T:0.25
Consensus pattern (61 bp):
AAAAGGCATCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGG
Found at i:2437770 original size:7 final size:7
Alignment explanation
Indices: 2437701--2437751 Score: 86
Period size: 7 Copynumber: 7.4 Consensus size: 7
2437691 AAGTAGGTTC
2437701 TTTTCTT
1 TTTTCTT
*
2437708 TTCTCTT
1 TTTTCTT
2437715 TTTTCTT
1 TTTTCTT
2437722 TTTTCTT
1 TTTTCTT
2437729 TTTTCTT
1 TTTTCTT
2437736 TTTTCTT
1 TTTTCTT
2437743 TTTT-TT
1 TTTTCTT
2437749 TTT
1 TTT
2437752 GTGTTTAGTT
Statistics
Matches: 42, Mismatches: 2, Indels: 1
0.93 0.04 0.02
Matches are distributed among these distances:
6 5 0.12
7 37 0.88
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (7 bp):
TTTTCTT
Found at i:2440887 original size:15 final size:15
Alignment explanation
Indices: 2440869--2440898 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
2440859 CTAATGCAAG
2440869 ATGCAAGGTGTGTGT
1 ATGCAAGGTGTGTGT
2440884 ATGCAAGGTGTGTGT
1 ATGCAAGGTGTGTGT
2440899 GCATAAAGGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.20, C:0.07, G:0.40, T:0.33
Consensus pattern (15 bp):
ATGCAAGGTGTGTGT
Found at i:2442472 original size:179 final size:179
Alignment explanation
Indices: 2442246--2442580 Score: 494
Period size: 179 Copynumber: 1.9 Consensus size: 179
2442236 ATTTTTAAAA
* * * * *
2442246 AAAATATTAATTTTAGGGAAATTGATTTTTTCTAAATTTTTAATTTAACTTTTAAATTTCAAAAA
1 AAAATATTAATTTTAGGAAAACTGAATTTTTCTAAATTTTAAATTTAACTTCT-AATTTCAAAAA
* * * * *
2442311 TTATGTTTCGTACTCGACG-GAAAACCAGGAGATACGAAAGGTGTTAAAAATTTTCATACCCCTA
65 TAATGTTTCGTACCCAACGAAAAAACCAGGAGATACGAAAGGTATTAAAAATTTTCATACCCCTA
*
2442375 CGGAAAACCATAGGGATATGAAAACATAAACGATCTCATATTCTTTTTCT
130 CGGAAAACCATAGGAATATGAAAACATAAACGATCTCATATTCTTTTTCT
**
2442425 AAAATATTAA-TTTAGGAAAACTGAATTTTTCTAAATTCTTAAATTTAACTTCTAATTTTGAAAA
1 AAAATATTAATTTTAGGAAAACTGAATTTTTCTAAATT-TTAAATTTAACTTCTAATTTCAAAAA
* *
2442489 TAATGTTTCGTACCCAACGAAAAAACCAGGGGATACGAAAGGTATTAAAAATTTTCATATCCCTA
65 TAATGTTTCGTACCCAACGAAAAAACCAGGAGATACGAAAGGTATTAAAAATTTTCATACCCCTA
*
2442554 TGGAAAACCATAGGAATATGAAAACAT
130 CGGAAAACCATAGGAATATGAAAACAT
2442581 GACTCGAGTG
Statistics
Matches: 138, Mismatches: 16, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
178 49 0.36
179 89 0.64
ACGTcount: A:0.41, C:0.13, G:0.13, T:0.34
Consensus pattern (179 bp):
AAAATATTAATTTTAGGAAAACTGAATTTTTCTAAATTTTAAATTTAACTTCTAATTTCAAAAAT
AATGTTTCGTACCCAACGAAAAAACCAGGAGATACGAAAGGTATTAAAAATTTTCATACCCCTAC
GGAAAACCATAGGAATATGAAAACATAAACGATCTCATATTCTTTTTCT
Found at i:2444073 original size:25 final size:25
Alignment explanation
Indices: 2444041--2444102 Score: 90
Period size: 25 Copynumber: 2.5 Consensus size: 25
2444031 TTTGTTGGTG
2444041 TCTTCATTGC-TGCAACTTAATTGCT
1 TCTTCATTGCAT-CAACTTAATTGCT
* *
2444066 TCTTCATTGCATTAGCTTAATTGCT
1 TCTTCATTGCATCAACTTAATTGCT
2444091 TCTTCATTGCAT
1 TCTTCATTGCAT
2444103 TATTTCAACT
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
25 33 0.97
26 1 0.03
ACGTcount: A:0.19, C:0.23, G:0.11, T:0.47
Consensus pattern (25 bp):
TCTTCATTGCATCAACTTAATTGCT
Found at i:2444103 original size:25 final size:25
Alignment explanation
Indices: 2444056--2444104 Score: 98
Period size: 25 Copynumber: 2.0 Consensus size: 25
2444046 ATTGCTGCAA
2444056 CTTAATTGCTTCTTCATTGCATTAG
1 CTTAATTGCTTCTTCATTGCATTAG
2444081 CTTAATTGCTTCTTCATTGCATTA
1 CTTAATTGCTTCTTCATTGCATTA
2444105 TTTCAACTGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.20, C:0.20, G:0.10, T:0.49
Consensus pattern (25 bp):
CTTAATTGCTTCTTCATTGCATTAG
Found at i:2444281 original size:23 final size:23
Alignment explanation
Indices: 2444250--2444298 Score: 71
Period size: 23 Copynumber: 2.1 Consensus size: 23
2444240 GGCGTGAAAC
* * *
2444250 ATGCGTGAAATGTAATGCATGCA
1 ATGCATGAAATGAAATGCATGAA
2444273 ATGCATGAAATGAAATGCATGAA
1 ATGCATGAAATGAAATGCATGAA
2444296 ATG
1 ATG
2444299 AACATTACAT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.41, C:0.10, G:0.24, T:0.24
Consensus pattern (23 bp):
ATGCATGAAATGAAATGCATGAA
Found at i:2444289 original size:14 final size:14
Alignment explanation
Indices: 2444272--2444300 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
2444262 TAATGCATGC
2444272 AATGCATGAAATGA
1 AATGCATGAAATGA
2444286 AATGCATGAAATGA
1 AATGCATGAAATGA
2444300 A
1 A
2444301 CATTACATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.52, C:0.07, G:0.21, T:0.21
Consensus pattern (14 bp):
AATGCATGAAATGA
Found at i:2444618 original size:19 final size:19
Alignment explanation
Indices: 2444594--2444661 Score: 85
Period size: 19 Copynumber: 3.9 Consensus size: 19
2444584 AATTCAACAA
2444594 TTTGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
2444613 TTTGTATCGATAC--AA--
1 TTTGTATCGATACATAAGT
2444628 --TGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
*
2444645 ATTGTATCGATACATAA
1 TTTGTATCGATACATAA
2444662 TTAGCTACTG
Statistics
Matches: 43, Mismatches: 0, Indels: 12
0.78 0.00 0.22
Matches are distributed among these distances:
13 11 0.26
15 2 0.05
17 2 0.05
19 28 0.65
ACGTcount: A:0.35, C:0.12, G:0.15, T:0.38
Consensus pattern (19 bp):
TTTGTATCGATACATAAGT
Found at i:2444633 original size:13 final size:13
Alignment explanation
Indices: 2444615--2444639 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2444605 ACATAAGTTT
2444615 TGTATCGATACAA
1 TGTATCGATACAA
2444628 TGTATCGATACA
1 TGTATCGATACA
2444640 TAAGTATTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:2444637 original size:32 final size:32
Alignment explanation
Indices: 2444596--2444658 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
2444586 TTCAACAATT
*
2444596 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTATTGTATCGATACAA
2444628 TGTATCGATACATAAGTATTGTATCGATACA
1 TGTATCGATACATAAGTATTGTATCGATACA
2444659 TAATTAGCTA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.37
Consensus pattern (32 bp):
TGTATCGATACATAAGTATTGTATCGATACAA
Found at i:2444719 original size:13 final size:13
Alignment explanation
Indices: 2444701--2444726 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2444691 CATTTTTCTG
2444701 TGTATCGATACAT
1 TGTATCGATACAT
2444714 TGTATCGATACAT
1 TGTATCGATACAT
2444727 GGATCTTTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:2444723 original size:33 final size:33
Alignment explanation
Indices: 2444681--2444747 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
2444671 GCCAAGGAAA
***
2444681 TGTATCGATACATTTTTCTGTGTATCGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
*
2444714 TGTATCGATACATGGATCTTTGTATCGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
2444747 T
1 T
2444748 TGGAAATTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.25, C:0.15, G:0.16, T:0.43
Consensus pattern (33 bp):
TGTATCGATACATGGATCTGTGTATCGATACAT
Found at i:2446755 original size:52 final size:52
Alignment explanation
Indices: 2446671--2446839 Score: 170
Period size: 52 Copynumber: 3.2 Consensus size: 52
2446661 TATTTTCGAG
* *
2446671 GGGATACTCCAACTCCGGTTTTA--TCGCTAAAACACTAATTTTTCCACAATC
1 GGGATACTCCAACTCCGGTTTTATTTC-CAAAAACACCAATTTTTCCACAATC
* * **
2446722 AGGGATACTCCAA-TCCTGGTTTTATTTTC-AAAACGCCAA-TTTTCCTTTAATC
1 -GGGATACTCCAACTCC-GGTTTTATTTCCAAAAACACCAATTTTTCC-ACAATC
* *
2446774 GGGGATACTCCAACTCCGATTTTATTTCCAAAAATACCAATTTTT-CACAATC
1 -GGGATACTCCAACTCCGGTTTTATTTCCAAAAACACCAATTTTTCCACAATC
2446826 GAGGATACTCCAAC
1 G-GGATACTCCAAC
2446840 CTCGTTATTT
Statistics
Matches: 97, Mismatches: 12, Indels: 16
0.78 0.10 0.13
Matches are distributed among these distances:
51 10 0.10
52 69 0.71
53 13 0.13
54 5 0.05
ACGTcount: A:0.30, C:0.25, G:0.12, T:0.33
Consensus pattern (52 bp):
GGGATACTCCAACTCCGGTTTTATTTCCAAAAACACCAATTTTTCCACAATC
Done.