Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D04
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: 52479919
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.33
Warning! 336953 characters in sequence are not A, C, G, or T
File 66 of 173
Found at i:19376233 original size:17 final size:17
Alignment explanation
Indices: 19376213--19376253 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
19376203 TTACTTCTTT
19376213 TTTTTTTATAC-TCAAA
1 TTTTTTTATACTTCAAA
*
19376229 CTTTTTTT-TACTTCGAA
1 -TTTTTTTATACTTCAAA
19376246 TTTTTTTA
1 TTTTTTTA
19376254 CTACAATAGA
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
16 10 0.48
17 11 0.52
ACGTcount: A:0.22, C:0.12, G:0.02, T:0.63
Consensus pattern (17 bp):
TTTTTTTATACTTCAAA
Found at i:19384999 original size:25 final size:24
Alignment explanation
Indices: 19384970--19385043 Score: 63
Period size: 25 Copynumber: 3.3 Consensus size: 24
19384960 TCAAGAGTAA
19384970 TATAACTTGATTTTTGACAAAAAAT
1 TATAACTTGATTTTT-ACAAAAAAT
**
19384995 TATAAC-T-A---TT-CAAGTAA-
1 TATAACTTGATTTTTACAAAAAAT
19385012 TATAACTTGATTTTTTACAAAAAAT
1 TATAACTTGA-TTTTTACAAAAAAT
19385037 TATAACT
1 TATAACT
19385044 ATTCAAATAA
Statistics
Matches: 37, Mismatches: 4, Indels: 16
0.65 0.07 0.28
Matches are distributed among these distances:
17 6 0.16
18 6 0.16
19 1 0.03
20 2 0.05
23 3 0.08
24 6 0.16
25 13 0.35
ACGTcount: A:0.45, C:0.09, G:0.05, T:0.41
Consensus pattern (24 bp):
TATAACTTGATTTTTACAAAAAAT
Found at i:19385021 original size:42 final size:42
Alignment explanation
Indices: 19384965--19385056 Score: 166
Period size: 42 Copynumber: 2.2 Consensus size: 42
19384955 ATTGATCAAG
19384965 AGTAATATAACTTGATTTTTGACAAAAAATTATAACTATTCA
1 AGTAATATAACTTGATTTTTGACAAAAAATTATAACTATTCA
*
19385007 AGTAATATAACTTGATTTTTTACAAAAAATTATAACTATTCA
1 AGTAATATAACTTGATTTTTGACAAAAAATTATAACTATTCA
*
19385049 AATAATAT
1 AGTAATAT
19385057 TACCTGAAAA
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
42 48 1.00
ACGTcount: A:0.47, C:0.09, G:0.05, T:0.39
Consensus pattern (42 bp):
AGTAATATAACTTGATTTTTGACAAAAAATTATAACTATTCA
Found at i:19390520 original size:11 final size:11
Alignment explanation
Indices: 19390490--19390524 Score: 52
Period size: 11 Copynumber: 3.1 Consensus size: 11
19390480 ACTTTATTTT
*
19390490 TTTTGTTCGAG
1 TTTTGTTCGTG
19390501 TTATTGTTCGTG
1 TT-TTGTTCGTG
19390513 TTTTGTTCGTG
1 TTTTGTTCGTG
19390524 T
1 T
19390525 GTTGAAGATC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
11 12 0.55
12 10 0.45
ACGTcount: A:0.06, C:0.09, G:0.26, T:0.60
Consensus pattern (11 bp):
TTTTGTTCGTG
Found at i:19395560 original size:19 final size:20
Alignment explanation
Indices: 19395515--19395560 Score: 51
Period size: 19 Copynumber: 2.4 Consensus size: 20
19395505 TTTTATTATT
19395515 TTAATTCTTGATTAATTATGA
1 TTAATT-TTGATTAATTATGA
* *
19395536 -TGATTTTGTTTAATT-TGA
1 TTAATTTTGATTAATTATGA
19395554 TTAATTT
1 TTAATTT
19395561 CTATATTTAA
Statistics
Matches: 21, Mismatches: 3, Indels: 4
0.75 0.11 0.14
Matches are distributed among these distances:
18 3 0.14
19 14 0.67
20 4 0.19
ACGTcount: A:0.28, C:0.02, G:0.11, T:0.59
Consensus pattern (20 bp):
TTAATTTTGATTAATTATGA
Found at i:19401000 original size:40 final size:40
Alignment explanation
Indices: 19400930--19401028 Score: 126
Period size: 40 Copynumber: 2.5 Consensus size: 40
19400920 TTGAACAACT
* * *
19400930 TTCAGTAGGTATGGCTTGATAGAACATACTTTTTAGTGGA
1 TTCAATAGGTATGGCTCGATAGAACATACTTTGTAGTGGA
* * * *
19400970 TTCAATATGTATGGCTCGATGGAGCCTACTTTGTAGTGGA
1 TTCAATAGGTATGGCTCGATAGAACATACTTTGTAGTGGA
*
19401010 TTCAGTAGGTATGGCTCGA
1 TTCAATAGGTATGGCTCGA
19401029 AAGCGCATAC
Statistics
Matches: 50, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 50 1.00
ACGTcount: A:0.24, C:0.13, G:0.27, T:0.35
Consensus pattern (40 bp):
TTCAATAGGTATGGCTCGATAGAACATACTTTGTAGTGGA
Found at i:19401052 original size:40 final size:40
Alignment explanation
Indices: 19401008--19401096 Score: 106
Period size: 40 Copynumber: 2.2 Consensus size: 40
19400998 CTTTGTAGTG
* *
19401008 GATTCAGTAGGTATGGCTCGAAAGCGCATACGTTTCAATA
1 GATTCAGTAGCTATGGCTCGAAAGCGCATACATTTCAATA
* * ** * *
19401048 GATTCAGTAGCTATGGTTCGATATTGTATACATTTCAGTA
1 GATTCAGTAGCTATGGCTCGAAAGCGCATACATTTCAATA
19401088 GATTCAGTA
1 GATTCAGTA
19401097 AATACCACTC
Statistics
Matches: 41, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
40 41 1.00
ACGTcount: A:0.29, C:0.15, G:0.22, T:0.34
Consensus pattern (40 bp):
GATTCAGTAGCTATGGCTCGAAAGCGCATACATTTCAATA
Found at i:19402879 original size:20 final size:19
Alignment explanation
Indices: 19402854--19402968 Score: 79
Period size: 20 Copynumber: 5.8 Consensus size: 19
19402844 TTGTACGGGA
19402854 TTTGCACTTTGGTGCCTCTG
1 TTTGCACTTTGGTGCC-CTG
**
19402874 TTTGCACTTCAGTGCCCCTG
1 TTTGCACTTTGGTG-CCCTG
* **
19402894 TATATACTTTGGTGTCCCTG
1 TTTGCACTTTGGTG-CCCTG
* * *
19402914 TTCGCACTATGGTGCCCTTT
1 TTTGCACTTTGGTGCCC-TG
* *
19402934 TTTGTACATTT-GTGCCCCTA
1 TTTGCAC-TTTGGTG-CCCTG
19402954 TTTGCACTTTGGTGC
1 TTTGCACTTTGGTGC
19402969 TCTTGTTATG
Statistics
Matches: 71, Mismatches: 19, Indels: 11
0.70 0.19 0.11
Matches are distributed among these distances:
19 7 0.10
20 57 0.80
21 7 0.10
ACGTcount: A:0.10, C:0.26, G:0.21, T:0.43
Consensus pattern (19 bp):
TTTGCACTTTGGTGCCCTG
Found at i:19409351 original size:7 final size:7
Alignment explanation
Indices: 19409339--19409380 Score: 61
Period size: 7 Copynumber: 6.3 Consensus size: 7
19409329 AATTTTAGTA
19409339 TAATAAC
1 TAATAAC
19409346 TAATAAC
1 TAATAAC
*
19409353 T-ACAA-
1 TAATAAC
19409358 TAATAAC
1 TAATAAC
19409365 TAATAAC
1 TAATAAC
19409372 TAATAAC
1 TAATAAC
19409379 TA
1 TA
19409381 CAATAATTTG
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
5 1 0.03
6 6 0.19
7 24 0.77
ACGTcount: A:0.57, C:0.14, G:0.00, T:0.29
Consensus pattern (7 bp):
TAATAAC
Found at i:19410600 original size:24 final size:24
Alignment explanation
Indices: 19410555--19410601 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
19410545 ATCTCAATGT
* *
19410555 TAGTGGTTACATCTACTTTTATGC
1 TAGTGGCTACATCTAATTTTATGC
19410579 TAGTGGCTACATC-AATTGTTATG
1 TAGTGGCTACATCTAATT-TTATG
19410602 GTTTTTTTCT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 3 0.15
24 17 0.85
ACGTcount: A:0.23, C:0.15, G:0.19, T:0.43
Consensus pattern (24 bp):
TAGTGGCTACATCTAATTTTATGC
Found at i:19425568 original size:25 final size:25
Alignment explanation
Indices: 19425540--19425591 Score: 70
Period size: 25 Copynumber: 2.1 Consensus size: 25
19425530 ATTGCGTTCA
19425540 TTTTTGAACCAA-TATTCTTTCAATC
1 TTTTTGAA-CAATTATTCTTTCAATC
* *
19425565 TTTTTGAATAATTATTCTTTCATTC
1 TTTTTGAACAATTATTCTTTCAATC
19425590 TT
1 TT
19425592 CATTCATTCA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
24 2 0.08
25 22 0.92
ACGTcount: A:0.25, C:0.15, G:0.04, T:0.56
Consensus pattern (25 bp):
TTTTTGAACAATTATTCTTTCAATC
Found at i:19426721 original size:21 final size:21
Alignment explanation
Indices: 19426670--19426736 Score: 57
Period size: 21 Copynumber: 3.2 Consensus size: 21
19426660 GTCGTAAAAA
*
19426670 AAAAAGAAAACAA--AAAAATG
1 AAAAAGAAAA-AAGGAAAAAGG
* *
19426690 AAAATGAAAAATGGAAAAAGG
1 AAAAAGAAAAAAGGAAAAAGG
* * *
19426711 AAAAAGGAAAAAGTAAAAAGT
1 AAAAAGAAAAAAGGAAAAAGG
19426732 AAAAA
1 AAAAA
19426737 TGGAGAGGCT
Statistics
Matches: 37, Mismatches: 8, Indels: 3
0.77 0.17 0.06
Matches are distributed among these distances:
19 1 0.03
20 9 0.24
21 27 0.73
ACGTcount: A:0.75, C:0.01, G:0.16, T:0.07
Consensus pattern (21 bp):
AAAAAGAAAAAAGGAAAAAGG
Found at i:19426723 original size:7 final size:7
Alignment explanation
Indices: 19426690--19426736 Score: 58
Period size: 7 Copynumber: 6.6 Consensus size: 7
19426680 CAAAAAAATG
*
19426690 AAAATGA
1 AAAAGGA
19426697 AAAATGGA
1 AAAA-GGA
19426705 AAAAGGA
1 AAAAGGA
19426712 AAAAGGA
1 AAAAGGA
*
19426719 AAAAGTA
1 AAAAGGA
*
19426726 AAAAGTA
1 AAAAGGA
19426733 AAAA
1 AAAA
19426737 TGGAGAGGCT
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
7 31 0.84
8 6 0.16
ACGTcount: A:0.72, C:0.00, G:0.19, T:0.09
Consensus pattern (7 bp):
AAAAGGA
Found at i:19428083 original size:88 final size:88
Alignment explanation
Indices: 19427934--19428176 Score: 272
Period size: 88 Copynumber: 2.8 Consensus size: 88
19427924 GAAATCACAA
* * * ** *
19427934 AGCCTTATCTCCCTGAGCAGTAGTGGAGTAGACTGAAGATAGCAGATCTTGTCTTCCTGTACTTG
1 AGCCTTATCTCCTTAAGCAGAAGTGGAGTAGGTTGAAGATAGCAGATCTTGTCTTCCTGTACTGG
**
19427999 CAGCGAAGCAGATCGACTACACC
66 CAGCGAAGCAGATCGAAGACACC
* * *
19428022 AGCCTTATCTCCTTAAGGATAAGTGGAGTAGGTTCAAGATAGCAGATCTT-TCCTTCCTGTACTG
1 AGCCTTATCTCCTTAAGCAGAAGTGGAGTAGGTTGAAGATAGCAGATCTTGT-CTTCCTGTACTG
* **
19428086 GCAGTGAAGCAGATCGAAGACATT
65 GCAGCGAAGCAGATCGAAGACACC
* * * ** * * *
19428110 AGCCTTATCTCCTTGAGCAGCAGTGGAATAGGTTGAAGATAATAGATTTTATCTTCCTGTAATGG
1 AGCCTTATCTCCTTAAGCAGAAGTGGAGTAGGTTGAAGATAGCAGATCTTGTCTTCCTGTACTGG
19428175 CA
66 CA
19428177 ACGAGGTAGT
Statistics
Matches: 129, Mismatches: 24, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
87 1 0.01
88 127 0.98
89 1 0.01
ACGTcount: A:0.28, C:0.21, G:0.23, T:0.28
Consensus pattern (88 bp):
AGCCTTATCTCCTTAAGCAGAAGTGGAGTAGGTTGAAGATAGCAGATCTTGTCTTCCTGTACTGG
CAGCGAAGCAGATCGAAGACACC
Found at i:19428314 original size:50 final size:50
Alignment explanation
Indices: 19428259--19428933 Score: 431
Period size: 50 Copynumber: 13.5 Consensus size: 50
19428249 TTTGGCATTA
* * *
19428259 CAGTGGAATAGATTGAAGCTACAACCA-CGAATCTTACTTCCCTGGCGGTG
1 CAGTGGAACAGATTGAAGCTACAA-CAGCGAATCTTACTTCCCCGACGGTG
* * * * ** *
19428309 TAGTGGAACAGATTGAAGCTA-AAAAGGCAAATCTTGCTTCCCCGACATTA
1 CAGTGGAACAGATTGAAGCTACAACA-GCGAATCTTACTTCCCCGACGGTG
** * * * ** *
19428359 CAGTTAAAAAGAATGAAGCTACAACAGCGAATCTTAGTTCCTAGGCGGTG
1 CAGTGGAACAGATTGAAGCTACAACAGCGAATCTTACTTCCCCGACGGTG
* * * ** *
19428409 CAGTGGAACAGATTGAAGCTACAACGGCAAATCTTGCTTCCCCGACATTT
1 CAGTGGAACAGATTGAAGCTACAACAGCGAATCTTACTTCCCCGACGGTG
* * ** ** *
19428459 CAGAT--AAAAGATTGAAGCTATAACATTGAATCTTACTTCCTAGGCGGTG
1 CAG-TGGAACAGATTGAAGCTACAACAGCGAATCTTACTTCCCCGACGGTG
* * * **
19428508 TAGTGGAACAGGTTGAAGCTACAACAGCGAATCTTGCTTCCCCGACATTG
1 CAGTGGAACAGATTGAAGCTACAACAGCGAATCTTACTTCCCCGACGGTG
** * * * * * *
19428558 CAGTTAAAAAGATTGAATCTACAACAACGAATCTTACTTCACAGGCGGTG
1 CAGTGGAACAGATTGAAGCTACAACAGCGAATCTTACTTCCCCGACGGTG
* * ** * * **
19428608 TAGTGGAACAAATTGAAGCTACAATGGTGAATCTTGCTTCCCCGACATTG
1 CAGTGGAACAGATTGAAGCTACAACAGCGAATCTTACTTCCCCGACGGTG
** * * * *
19428658 CAGTTAAAAAGATTGAAGCTACAACAGTGAATCTTACTTCCCAGGCGGTG
1 CAGTGGAACAGATTGAAGCTACAACAGCGAATCTTACTTCCCCGACGGTG
* * * * * **
19428708 CAGTGGAACAAATTGAAGCTACAACGGCGAGTTTTGCTTCCCCGACATTG
1 CAGTGGAACAGATTGAAGCTACAACAGCGAATCTTACTTCCCCGACGGTG
** * * * ** *** *
19428758 CAGTTAAAAAGATTGAAGCTATAACAGCGAATCTTGCTTCCCTAAAATTT
1 CAGTGGAACAGATTGAAGCTACAACAGCGAATCTTACTTCCCCGACGGTG
* ** * * * * * *
19428808 TAGTAAAATAGATTGAAGCTACAACAGCTATTCTTACCTCCCTGGCGGTG
1 CAGTGGAACAGATTGAAGCTACAACAGCGAATCTTACTTCCCCGACGGTG
* * * * * **
19428858 TAATGGAACAGATTGAAGCTACAACAGTGAATCTTATTTTCCCGACATTG
1 CAGTGGAACAGATTGAAGCTACAACAGCGAATCTTACTTCCCCGACGGTG
* ** *
19428908 CAATTAAACTGATTGAAGCTACAACA
1 CAGTGGAACAGATTGAAGCTACAACA
19428934 ACAAACCTGA
Statistics
Matches: 457, Mismatches: 162, Indels: 12
0.72 0.26 0.02
Matches are distributed among these distances:
48 2 0.00
49 35 0.08
50 416 0.91
51 4 0.01
ACGTcount: A:0.33, C:0.21, G:0.20, T:0.26
Consensus pattern (50 bp):
CAGTGGAACAGATTGAAGCTACAACAGCGAATCTTACTTCCCCGACGGTG
Found at i:19428773 original size:150 final size:150
Alignment explanation
Indices: 19428259--19428933 Score: 543
Period size: 150 Copynumber: 4.5 Consensus size: 150
19428249 TTTGGCATTA
* * * * ** * ** *
19428259 CAGTGGAATAGATTGAAGCTACAACCA-CGAATCTTACTTCCCTGGCGGTGTAGTGGAACAGATT
1 CAGTGGAACAAATTGAAGCTACAA-CAGCGAATCTTACTTCCCCGACATTGCAGTTAAAAAGATT
* * * *
19428323 GAAGCTA-AAAAGGCAAATCTTGCTTCCCCGACATTACAGTTAAAAAGAATGAAGCTACAACAGC
65 GAAGCTACAACA-GCGAATCTTGCTTCCCCGACATTGCAGTTAAAAAGATTGAAGCTACAACAGC
* *
19428387 GAATCTTAGTTCCTAGGCGGTG
129 GAATCTTACTTCCCAGGCGGTG
* * * * * *
19428409 CAGTGGAACAGATTGAAGCTACAACGGCAAATCTTGCTTCCCCGACATTTCAGAT-AAAAGATTG
1 CAGTGGAACAAATTGAAGCTACAACAGCGAATCTTACTTCCCCGACATTGCAGTTAAAAAGATTG
* ** * ** * ** * ** * *
19428473 AAGCTATAACATTGAATCTTACTTCCTAGGCGGTGTAGTGGAACAGGTTGAAGCTACAACAGCGA
66 AAGCTACAACAGCGAATCTTGCTTCCCCGACATTGCAGTTAAAAAGATTGAAGCTACAACAGCGA
* * * **
19428538 ATCTTGCTTCCCCGACATTG
131 ATCTTACTTCCCAGGCGGTG
* * * * * * * ** * * *
19428558 CAGT-TAAAAAGATTGAATCTACAACAACGAATCTTACTTCACAGGCGGTGTAGTGGAACAA-AT
1 CAGTGGAACAA-ATTGAAGCTACAACAGCGAATCTTACTTCCCCGACATTGCAGT-TAAAAAGAT
** * *
19428621 TGAAGCTACAATGGTGAATCTTGCTTCCCCGACATTGCAGTTAAAAAGATTGAAGCTACAACAGT
64 TGAAGCTACAACAGCGAATCTTGCTTCCCCGACATTGCAGTTAAAAAGATTGAAGCTACAACAGC
19428686 GAATCTTACTTCCCAGGCGGTG
129 GAATCTTACTTCCCAGGCGGTG
* * * *
19428708 CAGTGGAACAAATTGAAGCTACAACGGCGAGTTTTGCTTCCCCGACATTGCAGTTAAAAAGATTG
1 CAGTGGAACAAATTGAAGCTACAACAGCGAATCTTACTTCCCCGACATTGCAGTTAAAAAGATTG
* ** * ** *
19428773 AAGCTATAACAGCGAATCTTGCTTCCCTAAAATTTTAG-TAAAATAGATTGAAGCTACAACAGCT
66 AAGCTACAACAGCGAATCTTGCTTCCCCGACATTGCAGTTAAAA-AGATTGAAGCTACAACAGCG
* * *
19428837 ATTCTTACCTCCCTGGCGGTG
130 AATCTTACTTCCCAGGCGGTG
* * * * * * * **
19428858 TAATGGAACAGATTGAAGCTACAACAGTGAATCTTATTTTCCCGACATTGCAATTAAACTGATTG
1 CAGTGGAACAAATTGAAGCTACAACAGCGAATCTTACTTCCCCGACATTGCAGTTAAAAAGATTG
19428923 AAGCTACAACA
66 AAGCTACAACA
19428934 ACAAACCTGA
Statistics
Matches: 397, Mismatches: 120, Indels: 16
0.74 0.23 0.03
Matches are distributed among these distances:
148 3 0.01
149 109 0.27
150 278 0.70
151 7 0.02
ACGTcount: A:0.33, C:0.21, G:0.20, T:0.26
Consensus pattern (150 bp):
CAGTGGAACAAATTGAAGCTACAACAGCGAATCTTACTTCCCCGACATTGCAGTTAAAAAGATTG
AAGCTACAACAGCGAATCTTGCTTCCCCGACATTGCAGTTAAAAAGATTGAAGCTACAACAGCGA
ATCTTACTTCCCAGGCGGTG
Found at i:19428832 original size:100 final size:101
Alignment explanation
Indices: 19428268--19428801 Score: 758
Period size: 100 Copynumber: 5.3 Consensus size: 101
19428258 ACAGTGGAAT
*
19428268 AGATTGAAGCTACAACCA-CGAATCTTACTTCCCT-GGCGGTGTAGTGGAACAGATTGAAGCTAA
1 AGATTGAAGCTACAA-CAGCGAATCTTACTTCCCTAGGCGGTGTAGTGGAACAGATTGAAGCTAC
* * *
19428331 AAAGGCAAATCTTGCTTCCCCGACATTACAGTTAAAA
65 AACGGCGAATCTTGCTTCCCCGACATTGCAGTTAAAA
* * *
19428368 AGAATGAAGCTACAACAGCGAATCTTAGTT-CCTAGGCGGTGCAGTGGAACAGATTGAAGCTACA
1 AGATTGAAGCTACAACAGCGAATCTTACTTCCCTAGGCGGTGTAGTGGAACAGATTGAAGCTACA
* * *
19428432 ACGGCAAATCTTGCTTCCCCGACATTTCAGAT-AAA
66 ACGGCGAATCTTGCTTCCCCGACATTGCAGTTAAAA
* ** *
19428467 AGATTGAAGCTATAACATTGAATCTTACTT-CCTAGGCGGTGTAGTGGAACAGGTTGAAGCTACA
1 AGATTGAAGCTACAACAGCGAATCTTACTTCCCTAGGCGGTGTAGTGGAACAGATTGAAGCTACA
*
19428531 ACAGCGAATCTTGCTTCCCCGACATTGCAGTTAAAA
66 ACGGCGAATCTTGCTTCCCCGACATTGCAGTTAAAA
* * * *
19428567 AGATTGAATCTACAACAACGAATCTTACTTCAC-AGGCGGTGTAGTGGAACAAATTGAAGCTACA
1 AGATTGAAGCTACAACAGCGAATCTTACTTCCCTAGGCGGTGTAGTGGAACAGATTGAAGCTACA
* *
19428631 ATGGTGAATCTTGCTTCCCCGACATTGCAGTTAAAA
66 ACGGCGAATCTTGCTTCCCCGACATTGCAGTTAAAA
* * *
19428667 AGATTGAAGCTACAACAGTGAATCTTACTTCCC-AGGCGGTGCAGTGGAACAAATTGAAGCTACA
1 AGATTGAAGCTACAACAGCGAATCTTACTTCCCTAGGCGGTGTAGTGGAACAGATTGAAGCTACA
* *
19428731 ACGGCGAGTTTTGCTTCCCCGACATTGCAGTTAAAA
66 ACGGCGAATCTTGCTTCCCCGACATTGCAGTTAAAA
* *
19428767 AGATTGAAGCTATAACAGCGAATCTTGCTTCCCTA
1 AGATTGAAGCTACAACAGCGAATCTTACTTCCCTA
19428802 AAATTTTAGT
Statistics
Matches: 389, Mismatches: 40, Indels: 9
0.89 0.09 0.02
Matches are distributed among these distances:
99 93 0.24
100 294 0.76
101 2 0.01
ACGTcount: A:0.33, C:0.21, G:0.21, T:0.25
Consensus pattern (101 bp):
AGATTGAAGCTACAACAGCGAATCTTACTTCCCTAGGCGGTGTAGTGGAACAGATTGAAGCTACA
ACGGCGAATCTTGCTTCCCCGACATTGCAGTTAAAA
Found at i:19434841 original size:42 final size:42
Alignment explanation
Indices: 19434702--19434842 Score: 151
Period size: 43 Copynumber: 3.4 Consensus size: 42
19434692 TACTCGGTGA
* * *
19434702 AATCAGCACTTAGCAACCACC-TTATATTCAGTGATACGGGG
1 AATCAGCACTTAGCAACCACCTTTACAATCAATGATACGGGG
* * *
19434743 AATCAGCACGTAGTAACC-CCTTTCACAATCAAGGATACGGTGG
1 AATCAGCACTTAGCAACCACCTTT-ACAATCAATGATACGG-GG
* * * *
19434786 AATCAGCAATTAGCAACCACCTTTAGAATCAATAATTCGGGG
1 AATCAGCACTTAGCAACCACCTTTACAATCAATGATACGGGG
*
19434828 AATTAGCACTTAGCA
1 AATCAGCACTTAGCA
19434843 GCCCCTCGGG
Statistics
Matches: 81, Mismatches: 15, Indels: 7
0.79 0.15 0.07
Matches are distributed among these distances:
40 2 0.02
41 18 0.22
42 27 0.33
43 29 0.36
44 5 0.06
ACGTcount: A:0.35, C:0.23, G:0.18, T:0.23
Consensus pattern (42 bp):
AATCAGCACTTAGCAACCACCTTTACAATCAATGATACGGGG
Found at i:19434851 original size:26 final size:26
Alignment explanation
Indices: 19434822--19434874 Score: 81
Period size: 26 Copynumber: 2.0 Consensus size: 26
19434812 AATCAATAAT
*
19434822 TCGGGGAAT-TAGCACTTAGCAGCCCC
1 TCGGGGAATCTA-CACTTAGCAACCCC
19434848 TCGGGGAATCTACACTTAGCAACCCC
1 TCGGGGAATCTACACTTAGCAACCCC
19434874 T
1 T
19434875 TTTTGATCAG
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
26 23 0.92
27 2 0.08
ACGTcount: A:0.25, C:0.32, G:0.23, T:0.21
Consensus pattern (26 bp):
TCGGGGAATCTACACTTAGCAACCCC
Found at i:19434893 original size:41 final size:41
Alignment explanation
Indices: 19434848--19435039 Score: 289
Period size: 41 Copynumber: 4.7 Consensus size: 41
19434838 TAGCAGCCCC
* *
19434848 TCGGGGAATCTACACTTAGCAACCCCTTTTTGATCAGTGAT
1 TCGGGGAATCTGCACTTAGCAACCCCTTTTTGATCAATGAT
*
19434889 TCGGGGAATCTGCACTTAGCAACCCCTTTTCGATCAATGAT
1 TCGGGGAATCTGCACTTAGCAACCCCTTTTTGATCAATGAT
19434930 TCGGGGAATCTGCACTTAGCAA-CCCTTTTTCGATCAATGAT
1 TCGGGGAATCTGCACTTAGCAACCCCTTTTT-GATCAATGAT
* *
19434971 TCGGGGAATTTACACTTAGCAACCCCTTTTTGAT-AAGTGAT
1 TCGGGGAATCTGCACTTAGCAACCCCTTTTTGATCAA-TGAT
* *
19435012 TCGGGAAAACTGCACTTAGCAACCCCTT
1 TCGGGGAATCTGCACTTAGCAACCCCTT
19435040 ACATTCAATG
Statistics
Matches: 138, Mismatches: 10, Indels: 6
0.90 0.06 0.04
Matches are distributed among these distances:
40 9 0.07
41 121 0.88
42 8 0.06
ACGTcount: A:0.26, C:0.25, G:0.19, T:0.30
Consensus pattern (41 bp):
TCGGGGAATCTGCACTTAGCAACCCCTTTTTGATCAATGAT
Found at i:19436538 original size:13 final size:14
Alignment explanation
Indices: 19436520--19436548 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
19436510 AAAATTGCTT
19436520 AAAAATCAAG-CAA
1 AAAAATCAAGTCAA
19436533 AAAAATCAAGTCAA
1 AAAAATCAAGTCAA
19436547 AA
1 AA
19436549 GACACTAAGC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 10 0.67
14 5 0.33
ACGTcount: A:0.69, C:0.14, G:0.07, T:0.10
Consensus pattern (14 bp):
AAAAATCAAGTCAA
Found at i:19446047 original size:20 final size:20
Alignment explanation
Indices: 19446000--19446085 Score: 77
Period size: 20 Copynumber: 4.2 Consensus size: 20
19445990 TACACTAGAC
*
19446000 CAGAGGCATC-ATAGATGCATAT
1 CAGAGGCATCGA-AG-TGCA-AG
19446022 CAGAGGCATCGAAGTGCAAG
1 CAGAGGCATCGAAGTGCAAG
* *
19446042 CAGAGGCA-CAAATATGCAAG
1 CAGAGGCATCGAA-GTGCAAG
* *
19446062 CAGAGGCACCGAAGTGCAAA
1 CAGAGGCATCGAAGTGCAAG
19446082 CAGA
1 CAGA
19446086 AGAATGAATG
Statistics
Matches: 55, Mismatches: 6, Indels: 8
0.80 0.09 0.12
Matches are distributed among these distances:
19 3 0.05
20 32 0.58
21 7 0.13
22 12 0.22
23 1 0.02
ACGTcount: A:0.40, C:0.21, G:0.28, T:0.12
Consensus pattern (20 bp):
CAGAGGCATCGAAGTGCAAG
Found at i:19453569 original size:19 final size:20
Alignment explanation
Indices: 19453545--19453582 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
19453535 GTTTCTTTTG
*
19453545 GCTTACAC-TATTTAAAGAT
1 GCTTACACTTATGTAAAGAT
19453564 GCTTACACTTATGTAAAGA
1 GCTTACACTTATGTAAAGA
19453583 ACTACGATGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 8 0.47
20 9 0.53
ACGTcount: A:0.37, C:0.16, G:0.13, T:0.34
Consensus pattern (20 bp):
GCTTACACTTATGTAAAGAT
Found at i:19461300 original size:47 final size:47
Alignment explanation
Indices: 19461237--19461540 Score: 416
Period size: 47 Copynumber: 6.4 Consensus size: 47
19461227 CCCTTCGGGA
* * *
19461237 CTTATCACATTTATACACTTCCACATCCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
*
19461284 CTTATCACATATATACACTTTCACATTCATCACATTAGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
19461331 CTTATCTCATATATGCA-TGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACT-TTCACATTCATCACATTGGCCATTCGGC
* *
19461378 CTTATCACACATACACA-TGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACT-TTCACATTCATCACATTGGCCATTCGGC
* *
19461425 CTTATCACACATACACA-TGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACT-TTCACATTCATCACATTGGCCATTCGGC
* *
19461472 CTTATCACGCATATATATACTTTCACATTCATCACATTGGCCACTCGGC
1 CTTATCA--CATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
19461521 CCTATCACATATATATACTT
1 CTTATCACATATATACACTT
19461541 GTACATCAAT
Statistics
Matches: 237, Mismatches: 16, Indels: 8
0.91 0.06 0.03
Matches are distributed among these distances:
46 1 0.00
47 195 0.82
49 40 0.17
50 1 0.00
ACGTcount: A:0.27, C:0.31, G:0.09, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
Found at i:19470752 original size:44 final size:44
Alignment explanation
Indices: 19470680--19470765 Score: 127
Period size: 44 Copynumber: 2.0 Consensus size: 44
19470670 AAGCAATAGT
*
19470680 GGAGCAGATCGAAGCCAGAAATCTTATCTCCCTGAGATTACAGC
1 GGAGCAGATCGAAGCCAGAAATCCTATCTCCCTGAGATTACAGC
* * * *
19470724 GGAGTAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACA
1 GGAGCAGATCGAAGCCAGAAATCCTATCTCCCTGAGATTACA
19470766 ATGGAGCGGA
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
44 37 1.00
ACGTcount: A:0.31, C:0.22, G:0.22, T:0.24
Consensus pattern (44 bp):
GGAGCAGATCGAAGCCAGAAATCCTATCTCCCTGAGATTACAGC
Found at i:19470940 original size:142 final size:142
Alignment explanation
Indices: 19470684--19470970 Score: 466
Period size: 142 Copynumber: 2.0 Consensus size: 142
19470674 AATAGTGGAG
* * *
19470684 CAGATCGAAGCCAGAAATCTTATCTCCCTGAGATTACAGCGGAGTAGATTGAAGCTAGTAATCCT
1 CAGATCGAAACCAGAAATCTTATCTCCCTGAGATTACAACGGAGCAGATTGAAGCTAGTAATCCT
*
19470749 ATCTCCCTGAGATTACAATGGAGCGGATTAAAATAAAGGATCTTATCTCTCTAAAGTTACAATAG
66 ATCTCCCTAAGATTACAATGGAGCGGATTAAAATAAAGGATCTTATCTCTCTAAAGTTACAATAG
19470814 AGTAGATCACAT
131 AGTAGATCACAT
* *
19470826 CAGATTGAAACCAGAAATCTTATTTCCCTGAGATTACAACGGAGCAGATTGAAGCTAGTAATCCT
1 CAGATCGAAACCAGAAATCTTATCTCCCTGAGATTACAACGGAGCAGATTGAAGCTAGTAATCCT
* * * * *
19470891 ATCTCCCTAAGATTACAGTGGAGTGGATTAAAATAGAGGATCTTATCTCTCTGAAGTTACAGTAG
66 ATCTCCCTAAGATTACAATGGAGCGGATTAAAATAAAGGATCTTATCTCTCTAAAGTTACAATAG
*
19470956 AGTAGATCGCAT
131 AGTAGATCACAT
19470968 CAG
1 CAG
19470971 GTCTTATCTC
Statistics
Matches: 133, Mismatches: 12, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
142 133 1.00
ACGTcount: A:0.34, C:0.18, G:0.20, T:0.27
Consensus pattern (142 bp):
CAGATCGAAACCAGAAATCTTATCTCCCTGAGATTACAACGGAGCAGATTGAAGCTAGTAATCCT
ATCTCCCTAAGATTACAATGGAGCGGATTAAAATAAAGGATCTTATCTCTCTAAAGTTACAATAG
AGTAGATCACAT
Found at i:19471190 original size:100 final size:100
Alignment explanation
Indices: 19471038--19472464 Score: 1265
Period size: 100 Copynumber: 14.2 Consensus size: 100
19471028 CAAACGATGT
* * *
19471038 AGTGGAACAGATTAAATCCACATTGGTGAATCTTGCTTCCCCGACATTGCAGTTTAAAA-GATTA
1 AGTGGAACAGATTAAAGCCACAATGGTGAATCTTGCTTTCCCGACATTGCAG-TTAAAAGGATTA
* * * *
19471102 AAGCTACAGCAGCAAATCTTACCTCCCAGGCAGTGT
65 AAGCTACAACAGCGAATCTTACTTCCCAGGCAGTGC
* * * * *
19471138 AGTGGAACAGATTAAAACCAAAATGGTGAATCTTTC-CTCCCTGACATTGCAGTTAAAAAGATTA
1 AGTGGAACAGATTAAAGCCACAATGGTGAATCTTGCTTTCCC-GACATTGCAGTTAAAAGGATTA
* * * * **
19471202 AAGCTACAGCAGCAAATCTTACCTCCCAAGTGGTGC
65 AAGCTACAACAGCGAATCTTACTTCCCAGGCAGTGC
* * ** *
19471238 AGTGGAACAGATTAAAGCCACAACGGTGAATCTTG-TGTCATTGACATTGCAGTTGAAAA-GACT
1 AGTGGAACAGATTAAAGCCACAATGGTGAATCTTGCTTTC-CCGACATTGCAGTT-AAAAGGATT
* * * * * * *
19471301 AAAGCCACAGCGGCGAGTGTTACTTCCCTGGCAATGC
64 AAAGCTACAACAGCGAATCTTACTTCCCAGGCAGTGC
* * *
19471338 AGT-GAAGCAAATTAAAGCCACAACGGTAAATCTTGCTTTCCCGACATTGCAGTTAAAAGGATTA
1 AGTGGAA-CAGATTAAAGCCACAATGGTGAATCTTGCTTTCCCGACATTGCAGTTAAAAGGATTA
* * * *
19471402 AAG-TCACAAC-GATGAATCTCACTCTCTCAGACAGTGC
65 AAGCT-ACAACAG-CGAATCTTACT-TCCCAGGCAGTGC
* * * *
19471439 AGTAGAGCAGATTAAAGCCAC-ATCTGTGAATCTTGCTTTCCCGACATTGCAGCTAAAAGGATTA
1 AGTGGAACAGATTAAAGCCACAAT-GGTGAATCTTGCTTTCCCGACATTGCAGTTAAAAGGATTA
* * * *
19471503 AAGCTACAATAGTGAATCTTACTTCCTAGGTAGTGC
65 AAGCTACAACAGCGAATCTTACTTCCCAGGCAGTGC
* * ** *
19471539 AGTGGAACAGATTAAAGCCACAACGGTGAATCTTG-TCTCATTGACATTGCAGTTGAAAA-GACT
1 AGTGGAACAGATTAAAGCCACAATGGTGAATCTTGCTTTC-CCGACATTGCAGTT-AAAAGGATT
* * * * * ** *
19471602 AAAGCCACAGCGGCGAGTGTTACTTCCTTGGCAATGC
64 AAAGCTACAACAGCGAATCTTACTTCCCAGGCAGTGC
* * * * *
19471639 AGT-GAAGCAGATTAAAGCCACAACGGTAAATCTTACTTTCCCAACATTGCTGTTAAAAGGATTA
1 AGTGGAA-CAGATTAAAGCCACAATGGTGAATCTTGCTTTCCCGACATTGCAGTTAAAAGGATTA
* * *
19471703 AAG-TCACAAC-GACGAATCTCACTCTCTCAGCCAGTGC
65 AAGCT-ACAACAG-CGAATCTTACT-TCCCAGGCAGTGC
* * * * **
19471740 AGTAGAGCAGATTAAAGCCAC-ATCGGTGAATCTTGCTTTCCCGAAATTACAACTAAAAGGATTA
1 AGTGGAACAGATTAAAGCCACAAT-GGTGAATCTTGCTTTCCCGACATTGCAGTTAAAAGGATTA
* *
19471804 AAGCTACAATAGCGAATCTTACTTCCCAGGCAGTGT
65 AAGCTACAACAGCGAATCTTACTTCCCAGGCAGTGC
* * * *
19471840 ATTGGAACAGATTAAAGCCACAACGGTGAATCTTG-TCTCCCTGACATTGCAGTTGAAAA-GACT
1 AGTGGAACAGATTAAAGCCACAATGGTGAATCTTGCTTTCCC-GACATTGCAGTT-AAAAGGATT
* * * * *
19471903 AAAGCCACAGCGGC-AAGTGTTACTTCCCTA-GCAATGC
64 AAAGCTACAACAGCGAA-TCTTACTTCCC-AGGCAGTGC
*
19471940 AGT-GAAGCAGATTAAAGCCACAATGGTAAATCTTGCTTTCCCGACATTGCAGTTAAAAGGATTA
1 AGTGGAA-CAGATTAAAGCCACAATGGTGAATCTTGCTTTCCCGACATTGCAGTTAAAAGGATTA
* * *
19472004 AAG-TCACAAC-GATGAATC-TAGCTCTCTCAGCCAGTGC
65 AAGCT-ACAACAG-CGAATCTTA-CT-TCCCAGGCAGTGC
* * * *
19472041 AGTAGAGCAGATTAAAGCCAC-ATCGGTGAATCTTGCTTTCCCAACATTGCAGCTAAAAGGATTA
1 AGTGGAACAGATTAAAGCCACAAT-GGTGAATCTTGCTTTCCCGACATTGCAGTTAAAAGGATTA
* * *
19472105 AAGCTACAACAACGAATCTTACTTCTCAGGCAGTGT
65 AAGCTACAACAGCGAATCTTACTTCCCAGGCAGTGC
* * *
19472141 AGTGGAACAGATTAAAGCCACAACGGTGAATCTTG-TCTCCCTGACATTGCAGTTGAAAAGG-CT
1 AGTGGAACAGATTAAAGCCACAATGGTGAATCTTGCTTTCCC-GACATTGCAGTT-AAAAGGATT
* * * * ** *
19472204 AAAGCCACAGCGGC-AAGTGTTACTTCCTTGGCAATGC
64 AAAGCTACAACAGCGAA-TCTTACTTCCCAGGCAGTGC
* *
19472241 AGT-GAAGCAGATTAAAGCCACAATGGTAAATCTTACTTTCCCGACATTGCAGTTAAAAGGATTA
1 AGTGGAA-CAGATTAAAGCCACAATGGTGAATCTTGCTTTCCCGACATTGCAGTTAAAAGGATTA
* * * *
19472305 AAG-TCACAATAGCGAATCTCACTCTCTCAGCCAGTGC
65 AAGCT-ACAACAGCGAATCTTACT-TCCCAGGCAGTGC
* ** * * * *
19472342 AGTAGAGTAGATTAAAGCCAC-ATCGGTGAATCTTGCTTTCCAGACATTGCAGCTAAATGTATTA
1 AGTGGAACAGATTAAAGCCACAAT-GGTGAATCTTGCTTTCCCGACATTGCAGTTAAAAGGATTA
*
19472406 AAGCTACAACAGCGAATCTTACTTCCCAAGCAGTGC
65 AAGCTACAACAGCGAATCTTACTTCCCAGGCAGTGC
* * *
19472442 AGTGGAATAGATTGAAGCTACAA
1 AGTGGAACAGATTAAAGCCACAA
19472465 AAGCAAATCT
Statistics
Matches: 1070, Mismatches: 196, Indels: 121
0.77 0.14 0.09
Matches are distributed among these distances:
99 61 0.06
100 643 0.60
101 350 0.33
102 16 0.01
ACGTcount: A:0.33, C:0.22, G:0.20, T:0.25
Consensus pattern (100 bp):
AGTGGAACAGATTAAAGCCACAATGGTGAATCTTGCTTTCCCGACATTGCAGTTAAAAGGATTAA
AGCTACAACAGCGAATCTTACTTCCCAGGCAGTGC
Found at i:19471607 original size:301 final size:301
Alignment explanation
Indices: 19471045--19472464 Score: 2100
Period size: 301 Copynumber: 4.7 Consensus size: 301
19471035 TGTAGTGGAA
* * * *
19471045 CAGATTAAATCCACATTGGTGAATCTTGCTTCCCCGACATTGCAGTTTAAAA-GATTAAAG-CTA
1 CAGATTAAAGCCACAATGGTAAATCTTGCTTTCCCGACATTGCAG-TTAAAAGGATTAAAGTC-A
* * * * * * * * * *
19471108 CAGC-AGCAAATCTTAC-CTCCCAGGCAGTGTAGTGGAACAGATTAAAACCAAAAT-GGTGAATC
64 CAACGA-CGAATCTCACTCTCTCAGCCAGTGCAGTAGAGCAGATTAAAGCC-ACATCGGTGAATC
* * * * * * * * **
19471170 TTTC-CTCCCTGACATTGCAGTTAAAAAGATTAAAGCTACAGCAGCAAATCTTACCTCCCAAGTG
127 TTGCTTTCCC-GACATTGCAGCTAAAAGGATTAAAGCTACAACAGCGAATCTTACTTCCCAGGCA
* *
19471234 GTGCAGTGGAACAGATTAAAGCCACAACGGTGAATCTTGTGTCATTGACATTGCAGTTGAAAAGA
191 GTGCAGTGGAACAGATTAAAGCCACAACGGTGAATCTTGTCTCACTGACATTGCAGTTGAAAAGA
*
19471299 CTAAAGCCACAGCGGCGAGTGTTACTTCCCTGGCAATGCAGTGAAG
256 CTAAAGCCACAGCGGCAAGTGTTACTTCCCTGGCAATGCAGTGAAG
* *
19471345 CAAATTAAAGCCACAACGGTAAATCTTGCTTTCCCGACATTGCAGTTAAAAGGATTAAAGTCACA
1 CAGATTAAAGCCACAATGGTAAATCTTGCTTTCCCGACATTGCAGTTAAAAGGATTAAAGTCACA
* * *
19471410 ACGATGAATCTCACTCTCTCAGACAGTGCAGTAGAGCAGATTAAAGCCACATCTGTGAATCTTGC
66 ACGACGAATCTCACTCTCTCAGCCAGTGCAGTAGAGCAGATTAAAGCCACATCGGTGAATCTTGC
* * * *
19471475 TTTCCCGACATTGCAGCTAAAAGGATTAAAGCTACAATAGTGAATCTTACTTCCTAGGTAGTGCA
131 TTTCCCGACATTGCAGCTAAAAGGATTAAAGCTACAACAGCGAATCTTACTTCCCAGGCAGTGCA
*
19471540 GTGGAACAGATTAAAGCCACAACGGTGAATCTTGTCTCATTGACATTGCAGTTGAAAAGACTAAA
196 GTGGAACAGATTAAAGCCACAACGGTGAATCTTGTCTCACTGACATTGCAGTTGAAAAGACTAAA
* *
19471605 GCCACAGCGGCGAGTGTTACTTCCTTGGCAATGCAGTGAAG
261 GCCACAGCGGCAAGTGTTACTTCCCTGGCAATGCAGTGAAG
* * * *
19471646 CAGATTAAAGCCACAACGGTAAATCTTACTTTCCCAACATTGCTGTTAAAAGGATTAAAGTCACA
1 CAGATTAAAGCCACAATGGTAAATCTTGCTTTCCCGACATTGCAGTTAAAAGGATTAAAGTCACA
19471711 ACGACGAATCTCACTCTCTCAGCCAGTGCAGTAGAGCAGATTAAAGCCACATCGGTGAATCTTGC
66 ACGACGAATCTCACTCTCTCAGCCAGTGCAGTAGAGCAGATTAAAGCCACATCGGTGAATCTTGC
* * * * *
19471776 TTTCCCGAAATTACAACTAAAAGGATTAAAGCTACAATAGCGAATCTTACTTCCCAGGCAGTGTA
131 TTTCCCGACATTGCAGCTAAAAGGATTAAAGCTACAACAGCGAATCTTACTTCCCAGGCAGTGCA
* *
19471841 TTGGAACAGATTAAAGCCACAACGGTGAATCTTGTCTCCCTGACATTGCAGTTGAAAAGACTAAA
196 GTGGAACAGATTAAAGCCACAACGGTGAATCTTGTCTCACTGACATTGCAGTTGAAAAGACTAAA
*
19471906 GCCACAGCGGCAAGTGTTACTTCCCTAGCAATGCAGTGAAG
261 GCCACAGCGGCAAGTGTTACTTCCCTGGCAATGCAGTGAAG
19471947 CAGATTAAAGCCACAATGGTAAATCTTGCTTTCCCGACATTGCAGTTAAAAGGATTAAAGTCACA
1 CAGATTAAAGCCACAATGGTAAATCTTGCTTTCCCGACATTGCAGTTAAAAGGATTAAAGTCACA
*
19472012 ACGATGAATCT-AGCTCTCTCAGCCAGTGCAGTAGAGCAGATTAAAGCCACATCGGTGAATCTTG
66 ACGACGAATCTCA-CTCTCTCAGCCAGTGCAGTAGAGCAGATTAAAGCCACATCGGTGAATCTTG
* * * *
19472076 CTTTCCCAACATTGCAGCTAAAAGGATTAAAGCTACAACAACGAATCTTACTTCTCAGGCAGTGT
130 CTTTCCCGACATTGCAGCTAAAAGGATTAAAGCTACAACAGCGAATCTTACTTCCCAGGCAGTGC
* *
19472141 AGTGGAACAGATTAAAGCCACAACGGTGAATCTTGTCTCCCTGACATTGCAGTTGAAAAGGCTAA
195 AGTGGAACAGATTAAAGCCACAACGGTGAATCTTGTCTCACTGACATTGCAGTTGAAAAGACTAA
*
19472206 AGCCACAGCGGCAAGTGTTACTTCCTTGGCAATGCAGTGAAG
260 AGCCACAGCGGCAAGTGTTACTTCCCTGGCAATGCAGTGAAG
*
19472248 CAGATTAAAGCCACAATGGTAAATCTTACTTTCCCGACATTGCAGTTAAAAGGATTAAAGTCACA
1 CAGATTAAAGCCACAATGGTAAATCTTGCTTTCCCGACATTGCAGTTAAAAGGATTAAAGTCACA
* *
19472313 A-TAGCGAATCTCACTCTCTCAGCCAGTGCAGTAGAGTAGATTAAAGCCACATCGGTGAATCTTG
66 ACGA-CGAATCTCACTCTCTCAGCCAGTGCAGTAGAGCAGATTAAAGCCACATCGGTGAATCTTG
* * * *
19472377 CTTTCCAGACATTGCAGCTAAATGTATTAAAGCTACAACAGCGAATCTTACTTCCCAAGCAGTGC
130 CTTTCCCGACATTGCAGCTAAAAGGATTAAAGCTACAACAGCGAATCTTACTTCCCAGGCAGTGC
* * *
19472442 AGTGGAATAGATTGAAGCTACAA
195 AGTGGAACAGATTAAAGCCACAA
19472465 AAGCAAATCT
Statistics
Matches: 1028, Mismatches: 83, Indels: 17
0.91 0.07 0.02
Matches are distributed among these distances:
299 6 0.01
300 63 0.06
301 954 0.93
302 5 0.00
ACGTcount: A:0.33, C:0.22, G:0.20, T:0.25
Consensus pattern (301 bp):
CAGATTAAAGCCACAATGGTAAATCTTGCTTTCCCGACATTGCAGTTAAAAGGATTAAAGTCACA
ACGACGAATCTCACTCTCTCAGCCAGTGCAGTAGAGCAGATTAAAGCCACATCGGTGAATCTTGC
TTTCCCGACATTGCAGCTAAAAGGATTAAAGCTACAACAGCGAATCTTACTTCCCAGGCAGTGCA
GTGGAACAGATTAAAGCCACAACGGTGAATCTTGTCTCACTGACATTGCAGTTGAAAAGACTAAA
GCCACAGCGGCAAGTGTTACTTCCCTGGCAATGCAGTGAAG
Found at i:19472292 original size:50 final size:49
Alignment explanation
Indices: 19471046--19472464 Score: 593
Period size: 50 Copynumber: 28.3 Consensus size: 49
19471036 GTAGTGGAAC
* ** * * *
19471046 AGATTAAATCCACATTGGTGAATCTTGCTTCCCCGACATTGCAGTTTAAA
1 AGATTAAAGCCACAACGGTGAATCTTACTTTCCCGACATTGCAG-TGAAA
* * * ** * * * * *
19471096 AGATTAAAGCTACAGCAGCAAATCTTAC-CTCCCAGGCAGTGTAGTGGAAC
1 AGATTAAAGCCACAACGGTGAATCTTACTTTCCC-GACATTGCAGT-GAAA
* * * * * *
19471146 AGATTAAAACCAAAATGGTGAATCTTTC-CTCCCTGACATTGCAGTTAAAA
1 AGATTAAAGCCACAACGGTGAATCTTACTTTCCC-GACATTGCAG-TGAAA
* * * ** * *
19471196 AGATTAAAGCTACAGCAGCAAATCTTAC-CTCCC-A-AGTGGTGCAGTGGAAC
1 AGATTAAAGCCACAACGGTGAATCTTACTTTCCCGACA-T--TGCAGT-GAAA
* * **
19471246 AGATTAAAGCCACAACGGTGAATCTT-GTGTCATTGACATTGCAGTTGAAA
1 AGATTAAAGCCACAACGGTGAATCTTACTTTC-CCGACATTGCAG-TGAAA
* * * * * * *
19471296 AGACTAAAGCCACAGCGGCGAGTGTTAC-TTCCCTGGCAATGCAGTGAAGCA
1 AGATTAAAGCCACAACGGTGAATCTTACTTTCCC-GACATTGCAGTGAA--A
* * *
19471347 A-ATTAAAGCCACAACGGTAAATCTTGCTTTCCCGACATTGCAGTTAAA
1 AGATTAAAGCCACAACGGTGAATCTTACTTTCCCGACATTGCAGTGAAA
* * * * * * **
19471395 AGGATTAAAGTCACAACGATGAATCTCACTCTCTCAGACAGTGCAGTAGAGC
1 A-GATTAAAGCCACAACGGTGAATCTTACTTTC-CCGACATTGCAGT-GAAA
* * *
19471447 AGATTAAAGCCACATCTGTGAATCTTGCTTTCCCGACATTGCAGCT-AAA
1 AGATTAAAGCCACAACGGTGAATCTTACTTTCCCGACATTGCAG-TGAAA
* ** * ** * *
19471496 AGGATTAAAGCTACAATAGTGAATCTTAC-TTCCTAGGTAGTGCAGTGGAAC
1 A-GATTAAAGCCACAACGGTGAATCTTACTTTCC-CGACATTGCAGT-GAAA
* * **
19471547 AGATTAAAGCCACAACGGTGAATCTT-GTCTCATTGACATTGCAGTTGAAA
1 AGATTAAAGCCACAACGGTGAATCTTACTTTC-CCGACATTGCAG-TGAAA
* * * * * * * * *
19471597 AGACTAAAGCCACAGCGGCGAGTGTTAC-TTCCTTGGCAATGCAGTGAAGC
1 AGATTAAAGCCACAACGGTGAATCTTACTTTCC-CGACATTGCAGTGAA-A
* * * *
19471647 AGATTAAAGCCACAACGGTAAATCTTACTTTCCCAACATTGCTGTTAAA
1 AGATTAAAGCCACAACGGTGAATCTTACTTTCCCGACATTGCAGTGAAA
* ** * * * * * **
19471696 AGGATTAAAGTCACAACGACGAATCTCACTCTCTCAGCCAGTGCAGTAGAGC
1 A-GATTAAAGCCACAACGGTGAATCTTACTTTC-CCGACATTGCAGT-GAAA
* * * * *
19471748 AGATTAAAGCCACATCGGTGAATCTTGCTTTCCCGAAATTACAACT-AAA
1 AGATTAAAGCCACAACGGTGAATCTTACTTTCCCGACATTGC-AGTGAAA
* ** * * * * * *
19471797 AGGATTAAAGCTACAATAGCGAATCTTAC-TTCCCAGGCAGTGTATTGGAAC
1 A-GATTAAAGCCACAACGGTGAATCTTACTTTCCC-GACATTGCAGT-GAAA
* *
19471848 AGATTAAAGCCACAACGGTGAATCTT-GTCTCCCTGACATTGCAGTTGAAA
1 AGATTAAAGCCACAACGGTGAATCTTACTTTCCC-GACATTGCAG-TGAAA
* * * * * * *
19471898 AGACTAAAGCCACAGCGG-CAAGTGTTAC-TTCCCTAGCAATGCAGTGAAGC
1 AGATTAAAGCCACAACGGTGAA-TCTTACTTTCCCGA-CATTGCAGTGAA-A
* * * *
19471948 AGATTAAAGCCACAATGGTAAATCTTGCTTTCCCGACATTGCAGTTAAA
1 AGATTAAAGCCACAACGGTGAATCTTACTTTCCCGACATTGCAGTGAAA
* * * * * * **
19471997 AGGATTAAAGTCACAACGATGAATC-TAGCTCTCTCAGCCAGTGCAGTAGAGC
1 A-GATTAAAGCCACAACGGTGAATCTTA-CTTTC-CCGACATTGCAGT-GAAA
* * *
19472049 AGATTAAAGCCACATCGGTGAATCTTGCTTTCCCAACATTGCAGCT-AAA
1 AGATTAAAGCCACAACGGTGAATCTTACTTTCCCGACATTGCAG-TGAAA
* *** * * * * *
19472098 AGGATTAAAGCTACAACAACGAATCTTAC-TTCTCAGGCAGTGTAGTGGAAC
1 A-GATTAAAGCCACAACGGTGAATCTTACTTTC-CCGACATTGCAGT-GAAA
* *
19472149 AGATTAAAGCCACAACGGTGAATCTT-GTCTCCCTGACATTGCAGTTGAAA
1 AGATTAAAGCCACAACGGTGAATCTTACTTTCCC-GACATTGCAG-TGAAA
** * * * * * * *
19472199 AGGCTAAAGCCACAGCGG-CAAGTGTTAC-TTCCTTGGCAATGCAGTGAAGC
1 AGATTAAAGCCACAACGGTGAA-TCTTACTTTCC-CGACATTGCAGTGAA-A
* * *
19472249 AGATTAAAGCCACAATGGTAAATCTTACTTTCCCGACATTGCAGTTAAA
1 AGATTAAAGCCACAACGGTGAATCTTACTTTCCCGACATTGCAGTGAAA
* ** * * * * * * **
19472298 AGGATTAAAGTCACAATAGCGAATCTCACTCTCTCAGCCAGTGCAGTAGAGT
1 A-GATTAAAGCCACAACGGTGAATCTTACTTTC-CCGACATTGCAGT-GAAA
* * *
19472350 AGATTAAAGCCACATCGGTGAATCTTGCTTTCCAGACATTGCAGCT-AAA
1 AGATTAAAGCCACAACGGTGAATCTTACTTTCCCGACATTGCAG-TGAAA
* * * * * * *
19472399 TGTATTAAAGCTACAACAGCGAATCTTAC-TTCCCAAGCAGTGCAGTGGAAT
1 AG-ATTAAAGCCACAACGGTGAATCTTACTTTCCCGA-CATTGCAGT-GAAA
* *
19472450 AGATTGAAGCTACAA
1 AGATTAAAGCCACAA
19472465 AAGCAAATCT
Statistics
Matches: 977, Mismatches: 316, Indels: 152
0.68 0.22 0.11
Matches are distributed among these distances:
47 1 0.00
48 4 0.00
49 61 0.06
50 718 0.73
51 181 0.19
52 11 0.01
53 1 0.00
ACGTcount: A:0.33, C:0.22, G:0.20, T:0.25
Consensus pattern (49 bp):
AGATTAAAGCCACAACGGTGAATCTTACTTTCCCGACATTGCAGTGAAA
Found at i:19477283 original size:24 final size:24
Alignment explanation
Indices: 19477251--19477300 Score: 100
Period size: 24 Copynumber: 2.1 Consensus size: 24
19477241 CGAGTTATAA
19477251 AATTTCATCTAAATTAAAACTTTC
1 AATTTCATCTAAATTAAAACTTTC
19477275 AATTTCATCTAAATTAAAACTTTC
1 AATTTCATCTAAATTAAAACTTTC
19477299 AA
1 AA
19477301 ATTTTTTTAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.44, C:0.16, G:0.00, T:0.40
Consensus pattern (24 bp):
AATTTCATCTAAATTAAAACTTTC
Found at i:19480849 original size:50 final size:50
Alignment explanation
Indices: 19480725--19481107 Score: 470
Period size: 50 Copynumber: 7.7 Consensus size: 50
19480715 AATCATAACA
* ** *
19480725 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTTTC-TCTAC--
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCATCT-CGG
* * * * ** *
19480774 TGCCAATGCCATATCCTAGATATGGTCTTACATAGGAGTTCTCATATCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* **
19480824 TGCCCATGCCATGTCCCAGACATGGTCTTACGGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
**
19480874 TGCCAATGCCATGTCCCAGACATGGTCTTACGGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* * *
19480924 TGCCAAT-TCATGTCCCAAACATGGTCTTACACAGGG-CCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACA-TGGGACCTCTCATCTCGG
*
19480973 TGCCAATGCCATGTCCCAGACATGGTCTTACACGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* * * * *
19481023 TGCCAACGTCATGTCCCAGGCATGGTCTTACATGGGACCTCTCATTTGGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
*
19481073 TGCCAACGCCATGTCCCAGACATGGTCTTACATGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGG
19481108 CTCACATATT
Statistics
Matches: 295, Mismatches: 33, Indels: 11
0.87 0.10 0.03
Matches are distributed among these distances:
48 6 0.02
49 78 0.26
50 211 0.72
ACGTcount: A:0.21, C:0.30, G:0.23, T:0.27
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
Found at i:19480853 original size:99 final size:98
Alignment explanation
Indices: 19480725--19481104 Score: 375
Period size: 99 Copynumber: 3.8 Consensus size: 98
19480715 AATCATAACA
* * * *
19480725 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTTTCTCTACTGCCAATGCCATATCC
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTTATCTCT-CTGCCAATGCCATGTCC
* * ** ** *
19480790 TAGATATGGTCTTACATAGGAGTTCTCATATCGG
65 CAGACATGGTCTTACACGGGACCTCTCATCTCGG
* ** * **
19480824 TGCCCATGCCATGTCCCAGACATGGTCTTACGGGGGACCTCTCATCTCGGTGCCAATGCCATGTC
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA--TCTTATCTCTCTGCCAATGCCATGTC
**
19480889 CCAGACATGGTCTTACGGGGGACCTCTCATCTCGG
64 CCAGACATGGTCTTACACGGGACCTCTCATCTCGG
* * * * * **
19480924 TGCCAAT-TCATGTCCCAAACATGGTCTTACACAGGGCCTCTCATCTCGGTGCCAATGCCATGTC
1 TGCCAATGCCATGTCCCAGACATGGTCTTACA-TGGG-ATCTTATCTCTCTGCCAATGCCATGTC
19480988 CCAGACATGGTCTTACACGGGACCTCTCATCTCGG
64 CCAGACATGGTCTTACACGGGACCTCTCATCTCGG
* * * * * *** *
19481023 TGCCAACGTCATGTCCCAGGCATGGTCTTACATGGGACCTCTCATTTGGGTGCCAACGCCATGTC
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA--TCTTATCTCTCTGCCAATGCCATGTC
19481088 CCAGACATGGTCTTACA
64 CCAGACATGGTCTTACA
19481105 TGGCTCACAT
Statistics
Matches: 240, Mismatches: 34, Indels: 13
0.84 0.12 0.05
Matches are distributed among these distances:
99 122 0.51
100 112 0.47
101 6 0.03
ACGTcount: A:0.21, C:0.30, G:0.22, T:0.27
Consensus pattern (98 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTTATCTCTCTGCCAATGCCATGTCCC
AGACATGGTCTTACACGGGACCTCTCATCTCGG
Found at i:19480995 original size:149 final size:150
Alignment explanation
Indices: 19480725--19481104 Score: 464
Period size: 149 Copynumber: 2.5 Consensus size: 150
19480715 AATCATAACA
* * ** * * *
19480725 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTTTC-TCTAC--TGCCAATGCCATA
1 TGCCAACGCCATGTCCCAGACATGGTCTTACAGGGGA-CCTCTCATCT-CGGTGCCAACGCCATG
* * * * * *
19480787 TCCTAGATATGGTCTTACATAGGAGTTCTCATATCGGTGCCCATGCCATGTCCCAGACATGGTCT
64 TCCCAAACATGGTCTTACACAGGAGCTCTCATATCGGTGCCAATGCCATGTCCCAGACATGGTCT
**
19480852 TACGGGGGACCTCTCATCTCGG
129 TACACGGGACCTCTCATCTCGG
* * **
19480874 TGCCAATGCCATGTCCCAGACATGGTCTTACGGGGGACCTCTCATCTCGGTGCCAA-TTCATGTC
1 TGCCAACGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGGTGCCAACGCCATGTC
*
19480938 CCAAACATGGTCTTACACAGG-GCCTCTCATCTCGGTGCCAATGCCATGTCCCAGACATGGTCTT
66 CCAAACATGGTCTTACACAGGAG-CTCTCATATCGGTGCCAATGCCATGTCCCAGACATGGTCTT
19481002 ACACGGGACCTCTCATCTCGG
130 ACACGGGACCTCTCATCTCGG
* * * * *
19481023 TGCCAACGTCATGTCCCAGGCATGGTCTTACATGGGACCTCTCATTTGGGTGCCAACGCCATGTC
1 TGCCAACGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGGTGCCAACGCCATGTC
*
19481088 CCAGACATGGTCTTACA
66 CCAAACATGGTCTTACA
19481105 TGGCTCACAT
Statistics
Matches: 198, Mismatches: 28, Indels: 9
0.84 0.12 0.04
Matches are distributed among these distances:
148 5 0.03
149 165 0.83
150 28 0.14
ACGTcount: A:0.21, C:0.30, G:0.22, T:0.27
Consensus pattern (150 bp):
TGCCAACGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGGTGCCAACGCCATGTC
CCAAACATGGTCTTACACAGGAGCTCTCATATCGGTGCCAATGCCATGTCCCAGACATGGTCTTA
CACGGGACCTCTCATCTCGG
Found at i:19483655 original size:51 final size:51
Alignment explanation
Indices: 19483579--19483765 Score: 184
Period size: 51 Copynumber: 3.7 Consensus size: 51
19483569 TATAAACACG
*
19483579 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATC-GATA-GATAATGGTCACA
1 TGTGTAGTACTATGTGCAGGCTACTACGTGTATCGGA-AGGAT-ATGGTCACA
* * * * *
19483630 TGTGTAGTACTATGTGCAGGCTACTATGTGTACCGGAAGGCTTTGGTCACG
1 TGTGTAGTACTATGTGCAGGCTACTACGTGTATCGGAAGGATATGGTCACA
* * * * * * *
19483681 TGTGTAGTACTATATGCAGGCTACTATGTG-AACTGAA-AAGTTTGATCACA
1 TGTGTAGTACTATGTGCAGGCTACTACGTGTATCGGAAGGA-TATGGTCACA
* *
19483731 TGTGTAGTACTACGTGAAGGCTACTACGTGTATCG
1 TGTGTAGTACTATGTGCAGGCTACTACGTGTATCG
19483766 AATGATAATA
Statistics
Matches: 113, Mismatches: 19, Indels: 8
0.81 0.14 0.06
Matches are distributed among these distances:
50 39 0.35
51 70 0.62
52 4 0.04
ACGTcount: A:0.26, C:0.16, G:0.27, T:0.31
Consensus pattern (51 bp):
TGTGTAGTACTATGTGCAGGCTACTACGTGTATCGGAAGGATATGGTCACA
Found at i:19510083 original size:43 final size:42
Alignment explanation
Indices: 19510030--19510141 Score: 134
Period size: 43 Copynumber: 2.6 Consensus size: 42
19510020 TTTCGTTTAT
* * ** *
19510030 CCCTAATGGGTTTTCATTCAGCTCTTTTGAGCTTCAGTTTAA
1 CCCTTATGGGTTTCCATTCAGCTCTTACGAGCTTCAGTTCAA
* *
19510072 CCCTTATTGGGTTTCCGTTCAGCTCTTACGAGCTTCCGTTCAA
1 CCCTTA-TGGGTTTCCATTCAGCTCTTACGAGCTTCAGTTCAA
* *
19510115 CCCTTATGGGTTTCCATTTAGCACTTA
1 CCCTTATGGGTTTCCATTCAGCTCTTA
19510142 TCTACTCATA
Statistics
Matches: 59, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
42 23 0.39
43 36 0.61
ACGTcount: A:0.17, C:0.26, G:0.17, T:0.40
Consensus pattern (42 bp):
CCCTTATGGGTTTCCATTCAGCTCTTACGAGCTTCAGTTCAA
Found at i:19510129 original size:21 final size:21
Alignment explanation
Indices: 19510070--19510129 Score: 66
Period size: 21 Copynumber: 2.8 Consensus size: 21
19510060 GCTTCAGTTT
19510070 AACCCTTATTGGGTTTCCGTTC
1 AACCCTTA-TGGGTTTCCGTTC
* * * * *
19510092 AGCTCTTACGAGCTTCCGTTC
1 AACCCTTATGGGTTTCCGTTC
19510113 AACCCTTATGGGTTTCC
1 AACCCTTATGGGTTTCC
19510130 ATTTAGCACT
Statistics
Matches: 28, Mismatches: 10, Indels: 1
0.72 0.26 0.03
Matches are distributed among these distances:
21 22 0.79
22 6 0.21
ACGTcount: A:0.15, C:0.30, G:0.18, T:0.37
Consensus pattern (21 bp):
AACCCTTATGGGTTTCCGTTC
Found at i:19516493 original size:11 final size:11
Alignment explanation
Indices: 19516477--19516505 Score: 58
Period size: 11 Copynumber: 2.6 Consensus size: 11
19516467 ACATTGAAAG
19516477 AAATAGTGATT
1 AAATAGTGATT
19516488 AAATAGTGATT
1 AAATAGTGATT
19516499 AAATAGT
1 AAATAGT
19516506 AAATAAGGGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.48, C:0.00, G:0.17, T:0.34
Consensus pattern (11 bp):
AAATAGTGATT
Found at i:19517306 original size:11 final size:12
Alignment explanation
Indices: 19517290--19517322 Score: 50
Period size: 11 Copynumber: 2.8 Consensus size: 12
19517280 GAACAGAAAC
19517290 AAAAATAAAA-T
1 AAAAATAAAATT
19517301 AAAAATAAAATT
1 AAAAATAAAATT
19517313 ACAAAATAAA
1 A-AAAATAAA
19517323 TTTTGTAAGA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 10 0.50
12 2 0.10
13 8 0.40
ACGTcount: A:0.79, C:0.03, G:0.00, T:0.18
Consensus pattern (12 bp):
AAAAATAAAATT
Found at i:19520663 original size:21 final size:20
Alignment explanation
Indices: 19520625--19520683 Score: 55
Period size: 21 Copynumber: 2.9 Consensus size: 20
19520615 CTGAGTGTGC
* **
19520625 TGATTGTAGTTCTGTTGTTGT
1 TGATTGTAATTCCCTTGTT-T
19520646 TGATTGTAATTCCCTTGTTT
1 TGATTGTAATTCCCTTGTTT
* *
19520666 TGAATTATAATTTCCTTG
1 TG-ATTGTAATTCCCTTG
19520684 AGTAGATATA
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
20 3 0.09
21 29 0.91
ACGTcount: A:0.17, C:0.10, G:0.19, T:0.54
Consensus pattern (20 bp):
TGATTGTAATTCCCTTGTTT
Found at i:19536894 original size:50 final size:50
Alignment explanation
Indices: 19536770--19537061 Score: 259
Period size: 50 Copynumber: 5.7 Consensus size: 50
19536760 GATAATAACA
* * ** *
19536770 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTTCATGTAC--
1 TGCCAACGCCATGTCCCAGAAATGGTCTTACATGGGACCTTTCATCT-CGG
* * * * * *
19536819 TGCCAATGCCATATCCCAGATATGGTCTTACACGGGA-GTTCTCATATCGG
1 TGCCAACGCCATGTCCCAGAAATGGTCTTACATGGGACCTT-TCATCTCGG
* * * ** *
19536869 TGCCCATGCCATGTCCCACAAATGGTCTTACGGGGGACCTTTCATCTCAG
1 TGCCAACGCCATGTCCCAGAAATGGTCTTACATGGGACCTTTCATCTCGG
* *
19536919 TGCCAACGCCATGTCCCA-AACATGGTCTTACATGGGACCTCTCGTCTCGG
1 TGCCAACGCCATGTCCCAGAA-ATGGTCTTACATGGGACCTTTCATCTCGG
* *
19536969 TGCCAACGCCATGTCCCAGACATTGTCTTACATGGGACCTTTCATGATCTCAAGG
1 TGCCAACGCCATGTCCCAGAAATGGTCTTACATGGGACCTTTC---ATCTC--GG
* * *
19537024 ATGCCAATGTCATGTCCCAGACATGGTCTTACATGGGA
1 -TGCCAACGCCATGTCCCAGAAATGGTCTTACATGGGA
19537062 TCTCTTTACC
Statistics
Matches: 203, Mismatches: 28, Indels: 17
0.82 0.11 0.07
Matches are distributed among these distances:
48 4 0.02
49 40 0.20
50 116 0.57
51 3 0.01
53 4 0.02
55 2 0.01
56 34 0.17
ACGTcount: A:0.23, C:0.28, G:0.22, T:0.27
Consensus pattern (50 bp):
TGCCAACGCCATGTCCCAGAAATGGTCTTACATGGGACCTTTCATCTCGG
Found at i:19536950 original size:100 final size:100
Alignment explanation
Indices: 19536770--19537066 Score: 326
Period size: 100 Copynumber: 2.9 Consensus size: 100
19536760 GATAATAACA
* ** * * *
19536770 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTTCATGT-ACTGCCAATGCCATATC
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTTTCATCTCAGTGCCAATGCCATGTC
* * **
19536834 CCAGATATGGTCTTACACGGGAGTTCTCATATCGG
66 CCAGACATGGTCTTACATGGGACCTCTCATATCGG
* * * * ** *
19536869 TGCCCATGCCATGTCCCACAAATGGTCTTACGGGGGACCTTTCATCTCAGTGCCAACGCCATGTC
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTTTCATCTCAGTGCCAATGCCATGTC
* * *
19536934 CCAAACATGGTCTTACATGGGACCTCTCGTCTCGG
66 CCAGACATGGTCTTACATGGGACCTCTCATATCGG
* *
19536969 TGCCAACGCCATGTCCCAGACATTGTCTTACATGGGACCTTTCATGATCTCAAGGATGCCAATGT
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTTTC---ATCTC-A-G-TGCCAATGC
*
19537034 CATGTCCCAGACATGGTCTTACATGGGATCTCT
60 CATGTCCCAGACATGGTCTTACATGGGACCTCT
19537067 TTACCCAAAT
Statistics
Matches: 161, Mismatches: 30, Indels: 7
0.81 0.15 0.04
Matches are distributed among these distances:
99 38 0.24
100 78 0.48
103 5 0.03
104 1 0.01
105 1 0.01
106 38 0.24
ACGTcount: A:0.23, C:0.29, G:0.22, T:0.27
Consensus pattern (100 bp):
TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTTTCATCTCAGTGCCAATGCCATGTC
CCAGACATGGTCTTACATGGGACCTCTCATATCGG
Found at i:19538438 original size:202 final size:202
Alignment explanation
Indices: 19538092--19538495 Score: 738
Period size: 202 Copynumber: 2.0 Consensus size: 202
19538082 CCCACTTTTT
*
19538092 CAATTAAGTCCTAATAGGCAATTTAGGCATGCAATCAATAAAATTTCTTATCAATACTCTAATAC
1 CAATTAAATCCTAATAGGCAATTTAGGCATGCAATCAATAAAATTTCTTATCAATACTCTAATAC
*
19538157 GTATATCTAATCACTCGATAAATCTTAAAAATTAATAAAAATTTTCTCTTTAAATCATAGTTGTG
66 GTATATCTAATCACTCGATAAATCTTAAAAATTAATAAAAATTTTCTATTTAAATCATAGTTGTG
*
19538222 GTTACGAAACCACTATTCTGATAACATTAAATTTGGGT-CATTACAGAAATGGTGAAATAAATGA
131 GTTACGAAACCACTATTCTGATAACACTAAATTT-GGTCCATTACAGAAATGGTGAAATAAATGA
19538286 AATATAGG
195 AATATAGG
19538294 CAATTAAATCCTAATAGGCAATTTAGGCATGCAATCAATAAAATTTCTTATCAATACTCTAATAC
1 CAATTAAATCCTAATAGGCAATTTAGGCATGCAATCAATAAAATTTCTTATCAATACTCTAATAC
* *
19538359 TTATATCTAATCACTCGATAAATCTTAAAAATTAATAATAATTTTCTATTTAAATCATAGTTGTG
66 GTATATCTAATCACTCGATAAATCTTAAAAATTAATAAAAATTTTCTATTTAAATCATAGTTGTG
*
19538424 GTTACGAAACCACTATTCTGATAACCCTAAATTTGGTCCATTACAGAAATGGTGAAATAAATGAA
131 GTTACGAAACCACTATTCTGATAACACTAAATTTGGTCCATTACAGAAATGGTGAAATAAATGAA
19538489 ATATAGG
196 ATATAGG
19538496 GCTTGTTATG
Statistics
Matches: 195, Mismatches: 6, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
201 3 0.02
202 192 0.98
ACGTcount: A:0.41, C:0.14, G:0.11, T:0.34
Consensus pattern (202 bp):
CAATTAAATCCTAATAGGCAATTTAGGCATGCAATCAATAAAATTTCTTATCAATACTCTAATAC
GTATATCTAATCACTCGATAAATCTTAAAAATTAATAAAAATTTTCTATTTAAATCATAGTTGTG
GTTACGAAACCACTATTCTGATAACACTAAATTTGGTCCATTACAGAAATGGTGAAATAAATGAA
ATATAGG
Found at i:19545289 original size:42 final size:42
Alignment explanation
Indices: 19545222--19545320 Score: 137
Period size: 42 Copynumber: 2.4 Consensus size: 42
19545212 ATGGCCTAAG
* * * *
19545222 ACACGACCTGGCACACGTATATGTGAGGCAATTTCGTGAGTT
1 ACACGGCCTGGCACACGTATATGTGAGGAAATTTCATGAGGT
*
19545264 ACACGGCCTGGCACACG-AGTGTGTGAGGAAATTTCATGAGGT
1 ACACGGCCTGGCACACGTA-TATGTGAGGAAATTTCATGAGGT
19545306 ACACGGCCTGGCACA
1 ACACGGCCTGGCACA
19545321 TGGGCATGTG
Statistics
Matches: 51, Mismatches: 5, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
41 1 0.02
42 50 0.98
ACGTcount: A:0.26, C:0.23, G:0.29, T:0.21
Consensus pattern (42 bp):
ACACGGCCTGGCACACGTATATGTGAGGAAATTTCATGAGGT
Found at i:19545861 original size:28 final size:24
Alignment explanation
Indices: 19545810--19545859 Score: 100
Period size: 24 Copynumber: 2.1 Consensus size: 24
19545800 ATTTATGAAC
19545810 ATGCTCACCAACCAAAATCAATTT
1 ATGCTCACCAACCAAAATCAATTT
19545834 ATGCTCACCAACCAAAATCAATTT
1 ATGCTCACCAACCAAAATCAATTT
19545858 AT
1 AT
19545860 TTCTTGACTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.42, C:0.28, G:0.04, T:0.26
Consensus pattern (24 bp):
ATGCTCACCAACCAAAATCAATTT
Found at i:19547078 original size:72 final size:72
Alignment explanation
Indices: 19546956--19547102 Score: 285
Period size: 72 Copynumber: 2.0 Consensus size: 72
19546946 TTGCTATGTC
19546956 ATGGGGATGATATTCGGCCTAGGTGGATTTTGTGTTAATGCCATTGCATGCTAAATATGAAGCTT
1 ATGGGGATGATATTCGGCCTAGGTGGATTTTGTGTTAATGCCATTGCATGCTAAATATGAAGCTT
19547021 GTTAATG
66 GTTAATG
*
19547028 ATGGTGATGATATTCGGCCTAGGTGGATTTTGTGTTAATGCCATTGCATGCTAAATATGAAGCTT
1 ATGGGGATGATATTCGGCCTAGGTGGATTTTGTGTTAATGCCATTGCATGCTAAATATGAAGCTT
19547093 GTTAATG
66 GTTAATG
19547100 ATG
1 ATG
19547103 CATGTGATGG
Statistics
Matches: 74, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
72 74 1.00
ACGTcount: A:0.25, C:0.11, G:0.27, T:0.37
Consensus pattern (72 bp):
ATGGGGATGATATTCGGCCTAGGTGGATTTTGTGTTAATGCCATTGCATGCTAAATATGAAGCTT
GTTAATG
Found at i:19548059 original size:79 final size:81
Alignment explanation
Indices: 19547923--19548107 Score: 236
Period size: 79 Copynumber: 2.3 Consensus size: 81
19547913 TTGAATGATG
*
19547923 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
19547987 TGTGCGAGATACTA-A
66 TGTGCGAGATACTATA
* * * **
19548002 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
*
19548064 TTTGTGCGAGTTACTATA
64 TTTGTGCGAGATACTATA
* *
19548082 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
19548108 AACGAGTAGC
Statistics
Matches: 92, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 1 0.01
79 58 0.63
80 33 0.36
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAGATACTATA
Found at i:19548121 original size:40 final size:40
Alignment explanation
Indices: 19547924--19548107 Score: 216
Period size: 40 Copynumber: 4.6 Consensus size: 40
19547914 TGAATGATGT
* * * *
19547924 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
* * *
19547964 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-A
19548004 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
19548042 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
19548083 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
19548108 AACGAGTAGC
Statistics
Matches: 126, Mismatches: 11, Indels: 14
0.83 0.07 0.09
Matches are distributed among these distances:
39 35 0.28
40 81 0.64
41 10 0.08
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:19548129 original size:79 final size:79
Alignment explanation
Indices: 19547976--19548140 Score: 210
Period size: 79 Copynumber: 2.1 Consensus size: 79
19547966 GGACTAAGAT
* **
19547976 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
*
19548041 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* *
19548055 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-C
* *
19548118 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
19548134 CCGAAGG
1 CCGAAGG
19548141 TACGTGATTT
Statistics
Matches: 75, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
78 2 0.03
79 48 0.64
80 25 0.33
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:19556033 original size:78 final size:81
Alignment explanation
Indices: 19555898--19556081 Score: 236
Period size: 78 Copynumber: 2.3 Consensus size: 81
19555888 TTGAATGATG
*
19555898 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
19555962 TGTGCGAG-TACTA-A
66 TGTGCGAGTTACTATA
* * * **
19555976 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
19556038 TTTGTGCGAGTTACTATA
64 TTTGTGCGAGTTACTATA
* *
19556056 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
19556082 AACGAGGAGC
Statistics
Matches: 92, Mismatches: 8, Indels: 9
0.84 0.07 0.08
Matches are distributed among these distances:
77 1 0.01
78 44 0.48
79 32 0.35
80 15 0.16
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.26
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAGTTACTATA
Found at i:19556043 original size:40 final size:40
Alignment explanation
Indices: 19555898--19556081 Score: 234
Period size: 40 Copynumber: 4.7 Consensus size: 40
19555888 TTGAATGATG
* * * *
19555898 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* *
19555938 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAG-TACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
19555977 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
19556016 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
19556057 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
19556082 AACGAGGAGC
Statistics
Matches: 127, Mismatches: 11, Indels: 12
0.85 0.07 0.08
Matches are distributed among these distances:
38 19 0.15
39 29 0.23
40 69 0.54
41 10 0.08
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:19556100 original size:80 final size:77
Alignment explanation
Indices: 19555899--19556114 Score: 197
Period size: 79 Copynumber: 2.7 Consensus size: 77
19555889 TGAATGATGT
** * * * *
19555899 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGAT-CCGAAGGCATT
1 CCGGGCTAAG-CCCGAAGGCATTTGAAC-GAGTGACTAAATCCGG-TTAA-ATCCCGAAGGCATT
*
19555962 TGTGCGAGTACTAATT
62 TGTGCGAGTACTAATA
** * *
19555978 CCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGT
1 CCGGGCTAAGCCCGAAGGCATTTGAACGAGTGACTAAATCC-GGTTAAATCCCGAAGGCATTTGT
19556043 GCGAGTTACT-ATAA
65 GCGAG-TACTAAT-A
* * *
19556057 CCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAGCTATATCCGGTTAAATTCCGAAGG
1 CCGGGCTAAG-CCCGAAGGCATTTGAACGAGTGA-CTAAATCCGGTTAAATCCCGAAGG
19556115 TACGTGATTT
Statistics
Matches: 116, Mismatches: 14, Indels: 14
0.81 0.10 0.10
Matches are distributed among these distances:
77 1 0.01
78 43 0.37
79 47 0.41
80 25 0.22
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (77 bp):
CCGGGCTAAGCCCGAAGGCATTTGAACGAGTGACTAAATCCGGTTAAATCCCGAAGGCATTTGTG
CGAGTACTAATA
Found at i:19556112 original size:79 final size:78
Alignment explanation
Indices: 19555950--19556114 Score: 201
Period size: 79 Copynumber: 2.1 Consensus size: 78
19555940 CGGACTAAGA
* ** *
19555950 TCCGAAGGCATTTGTGCGAGTACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 TCCGAAGGCATTTGTGCGAGTACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTGACTAA
*
19556015 ATCCGGGTTAAGT
66 ATCCGGGTTAAAT
* *
19556028 CCCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAG
1 TCCGAAGGCATTTGTGCGAG-TACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTGA-
*
19556091 CTATATCC-GGTTAAAT
62 CTAAATCCGGGTTAAAT
19556107 TCCGAAGG
1 TCCGAAGG
19556115 TACGTGATTT
Statistics
Matches: 74, Mismatches: 9, Indels: 7
0.82 0.10 0.08
Matches are distributed among these distances:
78 21 0.28
79 28 0.38
80 25 0.34
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.25
Consensus pattern (78 bp):
TCCGAAGGCATTTGTGCGAGTACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTGACTAA
ATCCGGGTTAAAT
Found at i:19564023 original size:79 final size:81
Alignment explanation
Indices: 19563887--19564071 Score: 236
Period size: 79 Copynumber: 2.3 Consensus size: 81
19563877 TTGAATGATG
*
19563887 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
19563951 TGTGCGAGATACTA-A
66 TGTGCGAGATACTATA
* * * **
19563966 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
*
19564028 TTTGTGCGAGTTACTATA
64 TTTGTGCGAGATACTATA
* *
19564046 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
19564072 AACGAGGAGC
Statistics
Matches: 92, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 1 0.01
79 58 0.63
80 33 0.36
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAGATACTATA
Found at i:19564085 original size:40 final size:40
Alignment explanation
Indices: 19563888--19564071 Score: 216
Period size: 40 Copynumber: 4.6 Consensus size: 40
19563878 TGAATGATGT
* * * *
19563888 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
* * *
19563928 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-A
19563968 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
19564006 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
19564047 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
19564072 AACGAGGAGC
Statistics
Matches: 126, Mismatches: 11, Indels: 14
0.83 0.07 0.09
Matches are distributed among these distances:
39 35 0.28
40 81 0.64
41 10 0.08
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:19564093 original size:79 final size:79
Alignment explanation
Indices: 19563888--19564104 Score: 201
Period size: 79 Copynumber: 2.7 Consensus size: 79
19563878 TGAATGATGT
** * * * **
19563888 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGAT-CCGAAGGCATT
1 CCGGGCTAAG-CCCGAAGGCATTTGAAC-GAGTGACTAAATCCGGGTTAA-ATCCCGAAGGCATT
*
19563951 TGTGCGAGATACTAATT
63 TGTGCGAGATACTAATA
** * *
19563968 CCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGT
1 CCGGGCTAAGCCCGAAGGCATTTGAACGAGTGACTAAATCCGGGTTAAATCCCGAAGGCATTTGT
*
19564033 GCGAGTTACT-ATAA
66 GCGAGATACTAAT-A
* * *
19564047 CCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAGCTATATCC-GGTTAAATTCCGAAGG
1 CCGGGCTAAG-CCCGAAGGCATTTGAACGAGTGA-CTAAATCCGGGTTAAATCCCGAAGG
19564105 TACGTGATTT
Statistics
Matches: 116, Mismatches: 16, Indels: 11
0.81 0.11 0.08
Matches are distributed among these distances:
78 3 0.03
79 71 0.61
80 42 0.36
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.24
Consensus pattern (79 bp):
CCGGGCTAAGCCCGAAGGCATTTGAACGAGTGACTAAATCCGGGTTAAATCCCGAAGGCATTTGT
GCGAGATACTAATA
Found at i:19569961 original size:30 final size:30
Alignment explanation
Indices: 19569900--19569961 Score: 70
Period size: 30 Copynumber: 2.1 Consensus size: 30
19569890 GTTTTTTGAA
* * * * **
19569900 AATATTTACAAAATGAGACATCTAATTTTT
1 AATATTTACAAAAAGAGAAACCAAAAATTT
19569930 AATATTTACAAAAAGAGAAACCAAAAATTT
1 AATATTTACAAAAAGAGAAACCAAAAATTT
19569960 AA
1 AA
19569962 AAATAATTCA
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.53, C:0.10, G:0.06, T:0.31
Consensus pattern (30 bp):
AATATTTACAAAAAGAGAAACCAAAAATTT
Found at i:19577679 original size:60 final size:60
Alignment explanation
Indices: 19577612--19577731 Score: 195
Period size: 60 Copynumber: 2.0 Consensus size: 60
19577602 GCAAGAGCCA
* * *
19577612 AGACTTGAACCCAGGCTCCCTTGGAACCTTAATGACACCGCAACCACTAGACCATAAGCT
1 AGACTTGAACCCAGGCTCCCTTGCAACCTTAATGACACCGCAACAACTAGACCACAAGCT
* *
19577672 AGACTTGAACCTAGGCTCCCTTGCAACCTTAATGACACTGCAACAACTAGACCACAAGCT
1 AGACTTGAACCCAGGCTCCCTTGCAACCTTAATGACACCGCAACAACTAGACCACAAGCT
19577732 TCCTTATGAC
Statistics
Matches: 55, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
60 55 1.00
ACGTcount: A:0.33, C:0.33, G:0.16, T:0.19
Consensus pattern (60 bp):
AGACTTGAACCCAGGCTCCCTTGCAACCTTAATGACACCGCAACAACTAGACCACAAGCT
Found at i:19581865 original size:21 final size:21
Alignment explanation
Indices: 19581823--19581873 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 21
19581813 CTCCTACTGG
* ***
19581823 TTAGGGTTTGGGGTTTTTGTT
1 TTAGGGTTTAGGGTTAAGGTT
19581844 TTAGGGTTTAGGGTTAAGGTT
1 TTAGGGTTTAGGGTTAAGGTT
*
19581865 TTATGGTTT
1 TTAGGGTTT
19581874 TTAAGTTTAG
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.12, C:0.00, G:0.35, T:0.53
Consensus pattern (21 bp):
TTAGGGTTTAGGGTTAAGGTT
Found at i:19582233 original size:126 final size:126
Alignment explanation
Indices: 19582091--19582382 Score: 424
Period size: 126 Copynumber: 2.3 Consensus size: 126
19582081 TAATTTCAAA
** * *
19582091 AAGCTCCCACGTGGACGTTCTTTTGCTACAATAGCTCCTGAAAAAATAATTTCGA-GAAGACGTT
1 AAGCTCCCACGTGGACGCACTTTTGCTACAGTAGCTCCTGAAAAAATAATTT-GAGGAAGACATT
* * * * *
19582155 TCTGAGTAAATAGTGTCAAAAACGCTTTTAGTAGGATGCTTTGTCAACAAAAGTACTGAAAG
65 TCTGAGCAAATACTGTCAAAAACGCTTTAAGCAGGATGATTTGTCAACAAAAGTACTGAAAG
* * * *
19582217 AAGCTCCCGCGTGGACGCGCTTTTGCTACAGTAGCTCCTGAAAAAATAATTTTAGGTAGACATTT
1 AAGCTCCCACGTGGACGCACTTTTGCTACAGTAGCTCCTGAAAAAATAATTTGAGGAAGACATTT
* *
19582282 CTGAGCAAATACTGTTAAAAACGCTTTAAGCAGGATGATTTGTGAACAAAAGTACTGAAAG
66 CTGAGCAAATACTGTCAAAAACGCTTTAAGCAGGATGATTTGTCAACAAAAGTACTGAAAG
*
19582343 AAGCTCCCACGTGGACGCACTTTTGCTATAGTAGCTCCTG
1 AAGCTCCCACGTGGACGCACTTTTGCTACAGTAGCTCCTG
19582383 TTTGGCCTGA
Statistics
Matches: 148, Mismatches: 17, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
125 1 0.01
126 147 0.99
ACGTcount: A:0.32, C:0.19, G:0.21, T:0.28
Consensus pattern (126 bp):
AAGCTCCCACGTGGACGCACTTTTGCTACAGTAGCTCCTGAAAAAATAATTTGAGGAAGACATTT
CTGAGCAAATACTGTCAAAAACGCTTTAAGCAGGATGATTTGTCAACAAAAGTACTGAAAG
Found at i:19584232 original size:7 final size:7
Alignment explanation
Indices: 19584222--19584246 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
19584212 CATAATACAT
19584222 AATACTA
1 AATACTA
19584229 AATACTA
1 AATACTA
19584236 AATACTA
1 AATACTA
19584243 AATA
1 AATA
19584247 TCAAATACCA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.60, C:0.12, G:0.00, T:0.28
Consensus pattern (7 bp):
AATACTA
Found at i:19585444 original size:28 final size:29
Alignment explanation
Indices: 19585412--19585466 Score: 94
Period size: 28 Copynumber: 1.9 Consensus size: 29
19585402 TCAAAAAAAT
19585412 AAAATTAAAGCCTTTTTAAAAT-AATTAA
1 AAAATTAAAGCCTTTTTAAAATGAATTAA
*
19585440 AAAATTAAAGCTTTTTTAAAATGAATT
1 AAAATTAAAGCCTTTTTAAAATGAATT
19585467 TGAGAGGAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
28 21 0.84
29 4 0.16
ACGTcount: A:0.51, C:0.05, G:0.05, T:0.38
Consensus pattern (29 bp):
AAAATTAAAGCCTTTTTAAAATGAATTAA
Found at i:19585485 original size:11 final size:11
Alignment explanation
Indices: 19585466--19585538 Score: 69
Period size: 11 Copynumber: 6.6 Consensus size: 11
19585456 TAAAATGAAT
19585466 TTGAGAGGAAA
1 TTGAGAGGAAA
* *
19585477 TTGAAAGGAAC
1 TTGAGAGGAAA
*
19585488 TTGAGAGGAAT
1 TTGAGAGGAAA
* *
19585499 TTAAGAGGAAT
1 TTGAGAGGAAA
19585510 TTGAGA-GAATA
1 TTGAGAGGAA-A
19585521 TTG-GAGAGAAA
1 TTGAGAG-GAAA
19585532 TTGAGAG
1 TTGAGAG
19585539 AAAGGATTTA
Statistics
Matches: 51, Mismatches: 7, Indels: 7
0.78 0.11 0.11
Matches are distributed among these distances:
10 5 0.10
11 40 0.78
12 6 0.12
ACGTcount: A:0.42, C:0.01, G:0.33, T:0.23
Consensus pattern (11 bp):
TTGAGAGGAAA
Found at i:19588134 original size:18 final size:19
Alignment explanation
Indices: 19588054--19588135 Score: 60
Period size: 20 Copynumber: 4.2 Consensus size: 19
19588044 CTTTTCAAAA
*
19588054 ATAATAAAATATATAATTTT
1 ATAATAAAA-ATAAAATTTT
*
19588074 ATTAA-AATAATAAAAATATTT
1 A-TAATAAAAAT-AAAAT-TTT
* *
19588095 ATACATAAAAGTAAAATATT
1 ATA-ATAAAAATAAAATTTT
*
19588115 ATAA-AAAAATATAATTTT
1 ATAATAAAAATAAAATTTT
19588133 ATA
1 ATA
19588136 TTAACATTTA
Statistics
Matches: 49, Mismatches: 8, Indels: 12
0.71 0.12 0.17
Matches are distributed among these distances:
18 14 0.29
19 3 0.06
20 15 0.31
21 13 0.27
22 4 0.08
ACGTcount: A:0.60, C:0.01, G:0.01, T:0.38
Consensus pattern (19 bp):
ATAATAAAAATAAAATTTT
Found at i:19588281 original size:22 final size:22
Alignment explanation
Indices: 19588248--19588297 Score: 59
Period size: 22 Copynumber: 2.3 Consensus size: 22
19588238 AAAATAAAAA
19588248 ATATAATTTTAT-ATTAATATTT
1 ATATAATTTTATAATTAA-ATTT
19588270 ATAT-ATTATTATAATTAAATTT
1 ATATAATT-TTATAATTAAATTT
*
19588292 AAATAA
1 ATATAA
19588298 AATATTTTTA
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
21 3 0.12
22 15 0.62
23 6 0.25
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (22 bp):
ATATAATTTTATAATTAAATTT
Found at i:19589656 original size:40 final size:40
Alignment explanation
Indices: 19589580--19589699 Score: 159
Period size: 43 Copynumber: 2.9 Consensus size: 40
19589570 GTTTGGATAC
* * * * * *
19589580 AAAACGCCGCTAAAAATCAAGCATTACCGGCCCTTTTAAA
1 AAAACGCCGTTAAAGATCGAGTATTAGCGGCGCTTTTAAA
19589620 AAAACGCCGTTAAAGATCGAGTATTAGCGGCGCTTTTTGTAAA
1 AAAACGCCGTTAAAGATCGAGTATTAGCGGCGC--TTT-TAAA
19589663 AAAACGCCGTTAAAGATCGAGTATTAGCGGCGCTTTT
1 AAAACGCCGTTAAAGATCGAGTATTAGCGGCGCTTTT
19589700 TGAAAAGTGC
Statistics
Matches: 71, Mismatches: 6, Indels: 6
0.86 0.07 0.07
Matches are distributed among these distances:
40 28 0.39
41 3 0.04
42 3 0.04
43 37 0.52
ACGTcount: A:0.34, C:0.21, G:0.20, T:0.25
Consensus pattern (40 bp):
AAAACGCCGTTAAAGATCGAGTATTAGCGGCGCTTTTAAA
Found at i:19589670 original size:43 final size:43
Alignment explanation
Indices: 19589616--19589705 Score: 173
Period size: 43 Copynumber: 2.1 Consensus size: 43
19589606 CCGGCCCTTT
19589616 TAAAAAAACGCCGTTAAAGATCGAGTATTAGCGGCGCTTTTTG
1 TAAAAAAACGCCGTTAAAGATCGAGTATTAGCGGCGCTTTTTG
19589659 TAAAAAAACGCCGTTAAAGATCGAGTATTAGCGGCGCTTTTTG
1 TAAAAAAACGCCGTTAAAGATCGAGTATTAGCGGCGCTTTTTG
19589702 -AAAA
1 TAAAA
19589706 GTGCCACTAA
Statistics
Matches: 47, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
42 4 0.09
43 43 0.91
ACGTcount: A:0.36, C:0.16, G:0.22, T:0.27
Consensus pattern (43 bp):
TAAAAAAACGCCGTTAAAGATCGAGTATTAGCGGCGCTTTTTG
Found at i:19589851 original size:41 final size:41
Alignment explanation
Indices: 19589788--19590290 Score: 551
Period size: 41 Copynumber: 12.5 Consensus size: 41
19589778 CTTTGAGTTT
* * * *
19589788 TCGGGGCTTTAGTGGCGTTTTTGAAAAAGCGTCGCTAATGC
1 TCGGGGCTTTAGCGGCGTTTTTGGAGAAGCGCCGCTAATGC
* ** *
19589829 TCAGGGCTTTAGCGGCACTTTTGGAAAAGCGCCGCTAATGC
1 TCGGGGCTTTAGCGGCGTTTTTGGAGAAGCGCCGCTAATGC
* * *
19589870 TCGGGGGCTTTAGCGGTGTTTTTGGAAAAGTGCCGCTAATGC
1 TC-GGGGCTTTAGCGGCGTTTTTGGAGAAGCGCCGCTAATGC
*
19589912 TCGGGGCTTTAGCAGCGTTTTTGGAGAAGCGCCGCTAATGC
1 TCGGGGCTTTAGCGGCGTTTTTGGAGAAGCGCCGCTAATGC
* *
19589953 TCGGGGCTTTAGCGGCGTTTTTGGAGAAGCGCCACTAGTGC
1 TCGGGGCTTTAGCGGCGTTTTTGGAGAAGCGCCGCTAATGC
* ** *
19589994 -CTAGGGCTTTAATGGCGTTTTTGGAGAAGCGCCGCTAGTGC
1 TC-GGGGCTTTAGCGGCGTTTTTGGAGAAGCGCCGCTAATGC
* * ** * * *
19590035 TCGAGGCTTTAGCCGAATTTTGGGAGAAGCACCGCTAGTGC
1 TCGGGGCTTTAGCGGCGTTTTTGGAGAAGCGCCGCTAATGC
* * * *
19590076 TCGGGGCTTTAGGGGCGTTTTGGGAGAAGCGTCGCTAGTGC
1 TCGGGGCTTTAGCGGCGTTTTTGGAGAAGCGCCGCTAATGC
* * *
19590117 TCGAGGCTTTAGCGGCATTTTTGGAAAAGCGCCGCTAATGC
1 TCGGGGCTTTAGCGGCGTTTTTGGAGAAGCGCCGCTAATGC
* *
19590158 TCGGGGCTTTAACGGCGTTTTTGGAGAAGCGCTGCTAATGC
1 TCGGGGCTTTAGCGGCGTTTTTGGAGAAGCGCCGCTAATGC
* * *
19590199 -AGGGGCTTTAGCGTCGTTTTTGGAGAAGTGCCGCTAATG-
1 TCGGGGCTTTAGCGGCGTTTTTGGAGAAGCGCCGCTAATGC
* *
19590238 -C-AGG-----G-GGCGTTTTTGGAAAAGCGCCGCTAATGC
1 TCGGGGCTTTAGCGGCGTTTTTGGAGAAGCGCCGCTAATGC
*
19590271 TCAGGGCTTTAGCGGCGTTT
1 TCGGGGCTTTAGCGGCGTTT
19590291 GTTGAAAAGC
Statistics
Matches: 389, Mismatches: 61, Indels: 24
0.82 0.13 0.05
Matches are distributed among these distances:
32 24 0.06
33 1 0.00
34 1 0.00
35 2 0.01
38 2 0.01
40 36 0.09
41 286 0.74
42 37 0.10
ACGTcount: A:0.18, C:0.20, G:0.34, T:0.28
Consensus pattern (41 bp):
TCGGGGCTTTAGCGGCGTTTTTGGAGAAGCGCCGCTAATGC
Found at i:19594675 original size:43 final size:43
Alignment explanation
Indices: 19594615--19594705 Score: 123
Period size: 43 Copynumber: 2.1 Consensus size: 43
19594605 CTTTGAGTTC
* *
19594615 ATTA-CAAGATTTCCTTGATTAA-ATAAATGTATTATATCTTTT
1 ATTACCAAGATTTACTTGATTAAGA-AAATGCATTATATCTTTT
* *
19594657 ATTACCAAGATTTACTTGATTAAGAAAATGCATTGTATGTTTT
1 ATTACCAAGATTTACTTGATTAAGAAAATGCATTATATCTTTT
19594700 ATTACC
1 ATTACC
19594706 TTGCATATGT
Statistics
Matches: 43, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
42 4 0.09
43 38 0.88
44 1 0.02
ACGTcount: A:0.35, C:0.11, G:0.10, T:0.44
Consensus pattern (43 bp):
ATTACCAAGATTTACTTGATTAAGAAAATGCATTATATCTTTT
Found at i:19595045 original size:43 final size:41
Alignment explanation
Indices: 19594973--19595280 Score: 359
Period size: 43 Copynumber: 7.3 Consensus size: 41
19594963 GATATGTTTT
* *
19594973 TAGCGGCGTTTGTGTGAAAAGCGCTGCTAAAGGTCTGTTCTA
1 TAGCGGCGTTTGTG-GAAAAGCGCCGCTAAAGGTCTGATCTA
19595015 TAGCGGCGTTTGTACGGAAAAGCGCCGCTAAAGGTCTTGATCTA
1 TAGCGGCGTTTGT--GGAAAAGCGCCGCTAAAGGTC-TGATCTA
* * *
19595059 TAGCGGCATTTGTGGGAAAAGCGTCGCTAAATGTCTTGATCTA
1 TAGCGGCGTTTGT-GGAAAAGCGCCGCTAAAGGTC-TGATCTA
* * * *
19595102 TAGCGGCATTTGTGAAAAAAGCGCCGCTAAAGATCTTGAGCTA
1 TAGCGGCGTTTGTG-GAAAAGCGCCGCTAAAGGTC-TGATCTA
*
19595145 TACCGGCGTTTGTGGAAAAGCGCCGCTAAAGGTCCTGATCTA
1 TAGCGGCGTTTGTGGAAAAGCGCCGCTAAAGGT-CTGATCTA
* * * *
19595187 TAGCAGCGTTTCTGGAAAAGGCACCACTAAAGGTCCTGATCTA
1 TAGCGGCGTTTGTGGAAAA-GCGCCGCTAAAGGT-CTGATCTA
*
19595230 TAGCGGCGTTTGTGGGAAAAACGCCGCTAAAGG--TGATCTA
1 TAGCGGCGTTTGT-GGAAAAGCGCCGCTAAAGGTCTGATCTA
19595270 TAGCGGCGTTT
1 TAGCGGCGTTT
19595281 ATTTATATAA
Statistics
Matches: 233, Mismatches: 26, Indels: 16
0.85 0.09 0.06
Matches are distributed among these distances:
40 18 0.08
42 53 0.23
43 137 0.59
44 25 0.11
ACGTcount: A:0.26, C:0.19, G:0.29, T:0.26
Consensus pattern (41 bp):
TAGCGGCGTTTGTGGAAAAGCGCCGCTAAAGGTCTGATCTA
Found at i:19595217 original size:128 final size:128
Alignment explanation
Indices: 19594973--19595261 Score: 359
Period size: 128 Copynumber: 2.2 Consensus size: 128
19594963 GATATGTTTT
** * * ** *
19594973 TAGCGGCGTTTGTGTGAAAAGCGCTGCTAAAGGTCTGTTCTATAGCGGCGTTTGTACGGAAAAGC
1 TAGCGGCGTTTGTGAAAAAAGCGCCGCTAAAGATCTGAGCTATACCGGCGTTTGTA-GGAAAAGC
* * * ** * * *
19595038 GCCGCTAAAGGTCTTGATCTATAGCGGCATTTGTGGGAAAAGCGTCGCTAAATGTCTTGATCTA
65 GCCGCTAAAGGTCCTGATCTATAGCAGCATTTCTGGGAAAAGCACCACTAAAGGTCCTGATCTA
*
19595102 TAGCGGCATTTGTGAAAAAAGCGCCGCTAAAGATCTTGAGCTATACCGGCGTTTGT-GGAAAAGC
1 TAGCGGCGTTTGTGAAAAAAGCGCCGCTAAAGATC-TGAGCTATACCGGCGTTTGTAGGAAAAGC
*
19595166 GCCGCTAAAGGTCCTGATCTATAGCAGCGTTTCT-GGAAAAGGCACCACTAAAGGTCCTGATCTA
65 GCCGCTAAAGGTCCTGATCTATAGCAGCATTTCTGGGAAAA-GCACCACTAAAGGTCCTGATCTA
*
19595230 TAGCGGCGTTTGTGGGAAAAA-CGCCGCTAAAG
1 TAGCGGCGTTTGT-GAAAAAAGCGCCGCTAAAG
19595262 GTGATCTATA
Statistics
Matches: 138, Mismatches: 19, Indels: 7
0.84 0.12 0.04
Matches are distributed among these distances:
127 6 0.04
128 79 0.57
129 36 0.26
130 17 0.12
ACGTcount: A:0.27, C:0.20, G:0.28, T:0.25
Consensus pattern (128 bp):
TAGCGGCGTTTGTGAAAAAAGCGCCGCTAAAGATCTGAGCTATACCGGCGTTTGTAGGAAAAGCG
CCGCTAAAGGTCCTGATCTATAGCAGCATTTCTGGGAAAAGCACCACTAAAGGTCCTGATCTA
Found at i:19603768 original size:31 final size:31
Alignment explanation
Indices: 19603722--19603789 Score: 84
Period size: 31 Copynumber: 2.2 Consensus size: 31
19603712 ATGGGGGTAG
* * *
19603722 GACATTGTATCTGTTCCGATCTG-TTCTGCAT
1 GACACTGTATATGTTCCAATCTGCTT-TGCAT
*
19603753 GACACTGTATATGTTCTAATCTGCTTTGCAT
1 GACACTGTATATGTTCCAATCTGCTTTGCAT
19603784 GACACT
1 GACACT
19603790 ATATCTATTC
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
31 30 0.94
32 2 0.06
ACGTcount: A:0.21, C:0.22, G:0.18, T:0.40
Consensus pattern (31 bp):
GACACTGTATATGTTCCAATCTGCTTTGCAT
Found at i:19607032 original size:22 final size:22
Alignment explanation
Indices: 19607005--19607049 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
19606995 TCGCTATAAA
19607005 TTCGTTGATTGAAAATCTTGAT
1 TTCGTTGATTGAAAATCTTGAT
19607027 TTCGTTGATTGAAAATCTTGAT
1 TTCGTTGATTGAAAATCTTGAT
19607049 T
1 T
19607050 CAAGAAACTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.27, C:0.09, G:0.18, T:0.47
Consensus pattern (22 bp):
TTCGTTGATTGAAAATCTTGAT
Found at i:19608214 original size:14 final size:14
Alignment explanation
Indices: 19608197--19608224 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
19608187 ACTATTTTTA
19608197 TACATTAGTAATAT
1 TACATTAGTAATAT
19608211 TACATTAGTAATAT
1 TACATTAGTAATAT
19608225 ACTAATTTAG
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:0.43, C:0.07, G:0.07, T:0.43
Consensus pattern (14 bp):
TACATTAGTAATAT
Found at i:19628567 original size:16 final size:16
Alignment explanation
Indices: 19628542--19628586 Score: 58
Period size: 15 Copynumber: 2.9 Consensus size: 16
19628532 AGAAACAAAA
19628542 ATAA-AATAAAATTAC
1 ATAATAATAAAATTAC
*
19628557 ATAATAAT-AAATTTC
1 ATAATAATAAAATTAC
19628572 ATAATAATTAAAATT
1 ATAATAA-TAAAATT
19628587 TTTCGACCAA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
15 17 0.65
16 4 0.15
17 5 0.19
ACGTcount: A:0.60, C:0.04, G:0.00, T:0.36
Consensus pattern (16 bp):
ATAATAATAAAATTAC
Found at i:19635928 original size:18 final size:20
Alignment explanation
Indices: 19635888--19635930 Score: 72
Period size: 19 Copynumber: 2.2 Consensus size: 20
19635878 CTTACTGTAA
19635888 CACATGGTAGGATCTCAAAC
1 CACATGGTAGGATCTCAAAC
19635908 CACAT-GTAGGATCTC-AAC
1 CACATGGTAGGATCTCAAAC
19635926 CACAT
1 CACAT
19635931 TAAATTACGG
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
18 8 0.35
19 10 0.43
20 5 0.22
ACGTcount: A:0.35, C:0.28, G:0.16, T:0.21
Consensus pattern (20 bp):
CACATGGTAGGATCTCAAAC
Found at i:19806456 original size:14 final size:14
Alignment explanation
Indices: 19806437--19806466 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
19806427 ATTGAGAGAG
*
19806437 GAGAGAAGAGTTGT
1 GAGAGAAGAGATGT
19806451 GAGAGAAGAGATGT
1 GAGAGAAGAGATGT
19806465 GA
1 GA
19806467 ATGAGGGATG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.40, C:0.00, G:0.43, T:0.17
Consensus pattern (14 bp):
GAGAGAAGAGATGT
Found at i:19810000 original size:17 final size:16
Alignment explanation
Indices: 19809969--19810002 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
19809959 AAATATTATG
19809969 AAATAAAAACAAACAA
1 AAATAAAAACAAACAA
*
19809985 AAATAAACATCAAACAA
1 AAATAAA-AACAAACAA
19810002 A
1 A
19810003 CGCCATCCCC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.76, C:0.15, G:0.00, T:0.09
Consensus pattern (16 bp):
AAATAAAAACAAACAA
Found at i:19811937 original size:21 final size:21
Alignment explanation
Indices: 19811900--19811939 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
19811890 TTGCAGCTTT
*
19811900 AAAAATTTTTGATGTTTTCTG
1 AAAAATTTCTGATGTTTTCTG
19811921 AAAAATTCTCTGA-GTTTTC
1 AAAAATT-TCTGATGTTTTC
19811940 GATTTAGTCC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 13 0.76
22 4 0.24
ACGTcount: A:0.30, C:0.10, G:0.12, T:0.47
Consensus pattern (21 bp):
AAAAATTTCTGATGTTTTCTG
Found at i:19812626 original size:25 final size:24
Alignment explanation
Indices: 19812584--19812657 Score: 76
Period size: 25 Copynumber: 3.0 Consensus size: 24
19812574 TTTTGAGCTA
*
19812584 CAACTCGTATGAGATTACCAATTT
1 CAACTCGTAAGAGATTACCAATTT
* * *
19812608 GCAGCTCGTAAGAGTTTACCGATTCT
1 -CAACTCGTAAGAGATTACCAATT-T
* *
19812634 CAACTCGTACGAGCTTACCAATTT
1 CAACTCGTAAGAGATTACCAATTT
19812658 ATAGCTTGTG
Statistics
Matches: 40, Mismatches: 8, Indels: 3
0.78 0.16 0.06
Matches are distributed among these distances:
24 1 0.03
25 38 0.95
26 1 0.03
ACGTcount: A:0.28, C:0.24, G:0.16, T:0.31
Consensus pattern (24 bp):
CAACTCGTAAGAGATTACCAATTT
Found at i:19819530 original size:15 final size:15
Alignment explanation
Indices: 19819510--19819538 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
19819500 ATGCTACATA
19819510 CACCGTGTTATCAAT
1 CACCGTGTTATCAAT
19819525 CACCGTGTTATCAA
1 CACCGTGTTATCAA
19819539 GCAATAATAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.28, C:0.28, G:0.14, T:0.31
Consensus pattern (15 bp):
CACCGTGTTATCAAT
Found at i:19823430 original size:25 final size:25
Alignment explanation
Indices: 19823402--19823451 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
19823392 GTTTCATATA
19823402 CATGTATCATCCAATTCAATTTTCC
1 CATGTATCATCCAATTCAATTTTCC
19823427 CATGTATCATCCAATTCAATTTTCC
1 CATGTATCATCCAATTCAATTTTCC
19823452 TATACCATGT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.28, C:0.28, G:0.04, T:0.40
Consensus pattern (25 bp):
CATGTATCATCCAATTCAATTTTCC
Found at i:19823460 original size:30 final size:30
Alignment explanation
Indices: 19823393--19823462 Score: 89
Period size: 25 Copynumber: 2.5 Consensus size: 30
19823383 ATAAATTATG
*
19823393 TTTCATATA-CATGTATCATCCAATTCAAT
1 TTTCCTATACCATGTATCATCCAATTCAAT
19823422 TTT-C----CCATGTATCATCCAATTCAAT
1 TTTCCTATACCATGTATCATCCAATTCAAT
19823447 TTTCCTATACCATGTA
1 TTTCCTATACCATGTA
19823463 ATAACATTTC
Statistics
Matches: 34, Mismatches: 1, Indels: 11
0.74 0.02 0.24
Matches are distributed among these distances:
25 23 0.68
26 1 0.03
29 3 0.09
30 7 0.21
ACGTcount: A:0.30, C:0.24, G:0.04, T:0.41
Consensus pattern (30 bp):
TTTCCTATACCATGTATCATCCAATTCAAT
Found at i:19827344 original size:12 final size:13
Alignment explanation
Indices: 19827327--19827356 Score: 53
Period size: 12 Copynumber: 2.4 Consensus size: 13
19827317 CGACCAACCC
19827327 ATATTAATTTT-T
1 ATATTAATTTTAT
19827339 ATATTAATTTTAT
1 ATATTAATTTTAT
19827352 ATATT
1 ATATT
19827357 TTTAAATATA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 11 0.65
13 6 0.35
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (13 bp):
ATATTAATTTTAT
Found at i:19827519 original size:30 final size:30
Alignment explanation
Indices: 19827483--19827539 Score: 105
Period size: 30 Copynumber: 1.9 Consensus size: 30
19827473 CTTAACAAGC
19827483 AAATGCCTCTAAAATAATAACAAAATTAAT
1 AAATGCCTCTAAAATAATAACAAAATTAAT
*
19827513 AAATGCCTTTAAAATAATAACAAAATT
1 AAATGCCTCTAAAATAATAACAAAATT
19827540 TTTACAATAA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.56, C:0.12, G:0.04, T:0.28
Consensus pattern (30 bp):
AAATGCCTCTAAAATAATAACAAAATTAAT
Found at i:19827609 original size:22 final size:22
Alignment explanation
Indices: 19827584--19827631 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
19827574 CAATAACAAC
*
19827584 AAAATGGTAGCAACATAGTAG-T
1 AAAATGGTAGCAAAATAG-AGAT
19827606 AAAATGGTAGCAAAATAGAGAT
1 AAAATGGTAGCAAAATAGAGAT
19827628 AAAA
1 AAAA
19827632 CAACAAGAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
21 2 0.08
22 22 0.92
ACGTcount: A:0.54, C:0.06, G:0.21, T:0.19
Consensus pattern (22 bp):
AAAATGGTAGCAAAATAGAGAT
Found at i:19827615 original size:11 final size:11
Alignment explanation
Indices: 19827583--19827621 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
19827573 ACAATAACAA
19827583 CAAAATGGTAG
1 CAAAATGGTAG
* *
19827594 CAACATAGTAG
1 CAAAATGGTAG
*
19827605 TAAAATGGTAG
1 CAAAATGGTAG
19827616 CAAAAT
1 CAAAAT
19827622 AGAGATAAAA
Statistics
Matches: 22, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
11 22 1.00
ACGTcount: A:0.49, C:0.10, G:0.21, T:0.21
Consensus pattern (11 bp):
CAAAATGGTAG
Found at i:19828070 original size:23 final size:23
Alignment explanation
Indices: 19828043--19828090 Score: 96
Period size: 23 Copynumber: 2.1 Consensus size: 23
19828033 GCCTCTTCCG
19828043 CTTCTATACATATGACCTTTCTT
1 CTTCTATACATATGACCTTTCTT
19828066 CTTCTATACATATGACCTTTCTT
1 CTTCTATACATATGACCTTTCTT
19828089 CT
1 CT
19828091 ATTAAGAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.21, C:0.27, G:0.04, T:0.48
Consensus pattern (23 bp):
CTTCTATACATATGACCTTTCTT
Found at i:19828449 original size:21 final size:21
Alignment explanation
Indices: 19828423--19828485 Score: 67
Period size: 21 Copynumber: 3.0 Consensus size: 21
19828413 ATCATTATTG
19828423 TAAATTTTTTATAATTTTTAA
1 TAAATTTTTTATAATTTTTAA
*
19828444 TAAA-TTTTTA-AATTTTCTTTA
1 TAAATTTTTTATAA-TTT-TTAA
*
19828465 TAATTTCTTTTATAATTTTTA
1 TAAATT-TTTTATAATTTTTA
19828486 CATCTTTTGA
Statistics
Matches: 34, Mismatches: 3, Indels: 9
0.74 0.07 0.20
Matches are distributed among these distances:
19 2 0.06
20 9 0.26
21 10 0.29
22 3 0.09
23 8 0.24
24 2 0.06
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.63
Consensus pattern (21 bp):
TAAATTTTTTATAATTTTTAA
Found at i:19828464 original size:11 final size:11
Alignment explanation
Indices: 19828425--19828482 Score: 52
Period size: 10 Copynumber: 5.5 Consensus size: 11
19828415 CATTATTGTA
19828425 AATTT-TTTAT
1 AATTTCTTTAT
*
19828435 AATTT-TTAAT
1 AATTTCTTTAT
*
19828445 AAATT-TTTA-
1 AATTTCTTTAT
19828454 AATTTTCTTTAT
1 AA-TTTCTTTAT
19828466 AATTTCTTTTAT
1 AATTTC-TTTAT
19828478 AATTT
1 AATTT
19828483 TTACATCTTT
Statistics
Matches: 40, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
9 2 0.05
10 18 0.45
11 8 0.20
12 12 0.30
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (11 bp):
AATTTCTTTAT
Found at i:19828502 original size:43 final size:40
Alignment explanation
Indices: 19828396--19828509 Score: 94
Period size: 43 Copynumber: 2.8 Consensus size: 40
19828386 TTATAGATAG
* *
19828396 TAATTTTTAATAATTTT-ATCATTATTGTA-AA-TT-TTTTA
1 TAATTTTTAATAATTTTGA-AATT-TTTTATAATTTCTTTTA
*
19828434 TAATTTTTAATAAATTTTTAAATTTTCTTTATAATTTCTTTTA
1 TAATTTTTAAT-AATTTTGAAA-TTT-TTTATAATTTCTTTTA
*
19828477 TAATTTTTACAT-CTTTTGAATATTTTTTATAAT
1 TAATTTTTA-ATAATTTTGAA-ATTTTTTATAAT
19828510 ATTTTAAATC
Statistics
Matches: 63, Mismatches: 4, Indels: 15
0.77 0.05 0.18
Matches are distributed among these distances:
38 11 0.17
39 8 0.13
40 6 0.10
41 10 0.16
42 11 0.17
43 15 0.24
44 2 0.03
ACGTcount: A:0.32, C:0.04, G:0.02, T:0.61
Consensus pattern (40 bp):
TAATTTTTAATAATTTTGAAATTTTTTATAATTTCTTTTA
Found at i:19829371 original size:122 final size:124
Alignment explanation
Indices: 19829070--19829418 Score: 524
Period size: 125 Copynumber: 2.8 Consensus size: 124
19829060 TAATTTCGAG
**
19829070 TTGACGTTTCTGATAAAATAGTATAAAATCGCTTCTAGCAGGATGATATTTGAGAAGAATTTGTG
1 TTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTAGCAGGATGATATTTGAGAAGAATTTGTG
* *
19829135 AAATCGCGCCCTCGTGGACGCGCTTTTGCTATAGTAGGTCACGGAAGAAATAATTATTTT
66 AAATCGCGCCCACGTAGACGCGCTTTTGCTATAGTAGGTCACGGAAGAAAT-ATTATTTT
*
19829195 TTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTAGCAGGATGCTATTTGAGAAGAATTTGTG
1 TTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTAGCAGGATGATATTTGAGAAGAATTTGTG
* * *
19829260 AAATCGCGGCCACGTCAG-CGCGCTTTTGCTATAGTAGGTCATGTAAGAAAT-TT-TTTT
66 AAATCGCGCCCACGT-AGACGCGCTTTTGCTATAGTAGGTCACGGAAGAAATATTATTTT
* *
19829317 TTGACGTTTCTGAGCAAATAATATAAAATCGCTTCTAGCAGGATGTTATTTGAGAAGAATTTGTG
1 TTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTAGCAGGATGATATTTGAGAAGAATTTGTG
* * * * *
19829382 AAATTGCGCCCTCGTGGATGCGCTTTTGCTACAGTAG
66 AAATCGCGCCCACGTAGACGCGCTTTTGCTATAGTAG
19829419 CATGTTTGGG
Statistics
Matches: 206, Mismatches: 16, Indels: 7
0.90 0.07 0.03
Matches are distributed among these distances:
121 1 0.00
122 96 0.47
123 2 0.01
125 106 0.51
126 1 0.00
ACGTcount: A:0.29, C:0.15, G:0.23, T:0.33
Consensus pattern (124 bp):
TTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTAGCAGGATGATATTTGAGAAGAATTTGTG
AAATCGCGCCCACGTAGACGCGCTTTTGCTATAGTAGGTCACGGAAGAAATATTATTTT
Found at i:19832649 original size:116 final size:116
Alignment explanation
Indices: 19832445--19832662 Score: 409
Period size: 116 Copynumber: 1.9 Consensus size: 116
19832435 TGATAAATTG
19832445 TATTAAGTCAAAAAATTGTATTAATGGTTAGTAAAATTATCAAATTATATAAAATTATTAATTGT
1 TATTAAGTCAAAAAATTGTATTAATGGTTAGTAAAATTATCAAATTATATAAAATTATTAATTGT
19832510 TAGTACCAGTCAAAACATTTTTCCAAATCTAACATTATGTGAATGTAAAAT
66 TAGTACCAGTCAAAACATTTTTCCAAATCTAACATTATGTGAATGTAAAAT
* *
19832561 TATTAAGTCAAAAAATTGTATTAATGGTTAGTAAAATTATCAAATTATGTAAAATTATTATTTGT
1 TATTAAGTCAAAAAATTGTATTAATGGTTAGTAAAATTATCAAATTATATAAAATTATTAATTGT
*
19832626 TAGTACCAGTCAAAATATTTTTCCAAATCTAACATTA
66 TAGTACCAGTCAAAACATTTTTCCAAATCTAACATTA
19832663 CGTTAAGGTT
Statistics
Matches: 99, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
116 99 1.00
ACGTcount: A:0.43, C:0.09, G:0.09, T:0.39
Consensus pattern (116 bp):
TATTAAGTCAAAAAATTGTATTAATGGTTAGTAAAATTATCAAATTATATAAAATTATTAATTGT
TAGTACCAGTCAAAACATTTTTCCAAATCTAACATTATGTGAATGTAAAAT
Found at i:19832699 original size:22 final size:20
Alignment explanation
Indices: 19832664--19832709 Score: 67
Period size: 22 Copynumber: 2.2 Consensus size: 20
19832654 CTAACATTAC
19832664 GTTAAGGTTAGGGTTTTTAA
1 GTTAAGGTTAGGGTTTTTAA
19832684 GTTAAGGGTTTAGGGTTTTTAA
1 GTTAA-GG-TTAGGGTTTTTAA
19832706 -TTAA
1 GTTAA
19832710 ATTAGGTTAG
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
20 5 0.21
21 6 0.25
22 13 0.54
ACGTcount: A:0.26, C:0.00, G:0.28, T:0.46
Consensus pattern (20 bp):
GTTAAGGTTAGGGTTTTTAA
Found at i:19832730 original size:29 final size:29
Alignment explanation
Indices: 19832688--19833477 Score: 766
Period size: 29 Copynumber: 28.4 Consensus size: 29
19832678 TTTTAAGTTA
19832688 AGGGTTTAGGGTTTTTAATTAAATTAGGTT
1 AGGG-TTAGGGTTTTTAATTAAATTAGGTT
*
19832718 AGGGTTAGTGTTTTTAATT-AA--A--TT
1 AGGGTTAGGGTTTTTAATTAAATTAGGTT
19832742 A-GGTTAGGGTTTTTAATTAAATTAGGTT
1 AGGGTTAGGGTTTTTAATTAAATTAGGTT
* * *
19832770 AAGGTTAGGGTTTTTAAATAAATTGGGTT
1 AGGGTTAGGGTTTTTAATTAAATTAGGTT
* * *
19832799 AGGGTTAGGATTTTTAATTAGATTAGATT
1 AGGGTTAGGGTTTTTAATTAAATTAGGTT
* *
19832828 AAGGTTA-GGTTTTTAAGTT-AA--GGGTTT
1 AGGGTTAGGGTTTTTAA-TTAAATTAGG-TT
* *
19832855 AGGGGTT----TTAATTAAATT--A-G--GTT
1 A-GGGTTAGGGTT--TTTAATTAAATTAGGTT
* *
19832878 AGGGTTAGGGTTTGTAATTAATTTAGGTT
1 AGGGTTAGGGTTTTTAATTAAATTAGGTT
19832907 AAGGGTTAGGGTTTTTAATTAAATTAGGTT
1 -AGGGTTAGGGTTTTTAATTAAATTAGGTT
* * *
19832937 AGGGTTAGGCTTTGTAATTAATTTAGGTT
1 AGGGTTAGGGTTTTTAATTAAATTAGGTT
*
19832966 AGGGGTTAGGGTTTTTAATTAAATTAGATT
1 A-GGGTTAGGGTTTTTAATTAAATTAGGTT
*
19832996 AGGGTTAGGGTTTTTAACTAAATTAGGTT
1 AGGGTTAGGGTTTTTAATTAAATTAGGTT
19833025 AGGGTTAGGGTTTTTAATTAAATTAGGTT
1 AGGGTTAGGGTTTTTAATTAAATTAGGTT
*
19833054 A-----A-GTTTTTTAATTAAATTAGGTT
1 AGGGTTAGGGTTTTTAATTAAATTAGGTT
*
19833077 AAGGTTAGGGTTTTTAAGTT-AA--AGGTTT
1 AGGGTTAGGGTTTTTAA-TTAAATTAGG-TT
*
19833105 AGGGTT----TTTAATTAAATT--A-G--GTT
1 AGGGTTAGGGTTT--TT-AATTAAATTAGGTT
* *
19833128 AAGGTTATGGTTTTTAAGTT-AA-TA-G-T
1 AGGGTTAGGGTTTTTAA-TTAAATTAGGTT
*
19833154 ----TTAGGGTTTTTAATTAAATTAAGTT
1 AGGGTTAGGGTTTTTAATTAAATTAGGTT
* * *
19833179 AGGGTTAGAGTTTGTAATTAATTTAGGTT
1 AGGGTTAGGGTTTTTAATTAAATTAGGTT
19833208 AGGGGTTAGGGTTTTTAATTAAATTAGGTT
1 A-GGGTTAGGGTTTTTAATTAAATTAGGTT
* *
19833238 AGGGTTAGGGTTTGTAATTAATTTAGGTT
1 AGGGTTAGGGTTTTTAATTAAATTAGGTT
19833267 AAGGGTTAGGGTTTTTAATTAAATTAGGTT
1 -AGGGTTAGGGTTTTTAATTAAATTAGGTT
19833297 AGGGTTAGGGTTTTTAATTAAATTAGGTT
1 AGGGTTAGGGTTTTTAATTAAATTAGGTT
* *
19833326 ACGGTTAGGGTTTTTAATTAATTTAGGTT
1 AGGGTTAGGGTTTTTAATTAAATTAGGTT
19833355 AGGGTTTAGGG-------TTAAATTAGGTT
1 AGGG-TTAGGGTTTTTAATTAAATTAGGTT
19833378 AGGGTTAGGGTTTTTAATTAAATTAGGTT
1 AGGGTTAGGGTTTTTAATTAAATTAGGTT
*
19833407 AGGGTTAGGGTTTTTAATTAAATTACGTT
1 AGGGTTAGGGTTTTTAATTAAATTAGGTT
19833436 AGGGTTAGGGTTTTTAATTAAATTAGGTT
1 AGGGTTAGGGTTTTTAATTAAATTAGGTT
19833465 AGGGTTTAGGGTT
1 AGGG-TTAGGGTT
19833478 AAATTAGGTT
Statistics
Matches: 643, Mismatches: 56, Indels: 122
0.78 0.07 0.15
Matches are distributed among these distances:
21 2 0.00
22 25 0.04
23 64 0.10
24 19 0.03
25 9 0.01
26 13 0.02
27 16 0.02
28 26 0.04
29 344 0.53
30 125 0.19
ACGTcount: A:0.28, C:0.01, G:0.27, T:0.45
Consensus pattern (29 bp):
AGGGTTAGGGTTTTTAATTAAATTAGGTT
Found at i:19832923 original size:59 final size:58
Alignment explanation
Indices: 19832848--19833477 Score: 787
Period size: 59 Copynumber: 11.2 Consensus size: 58
19832838 TTTTAAGTTA
* * *
19832848 AGGGTTTAGGGGTTTTAATTAAATTAGGTTAGGGTTAGGGTTTGTAATTAATTTAGGTT
1 AGGG-TTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGGTT
* * *
19832907 AAGGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGCTTTGTAATTAATTTAGGTT
1 -AGGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGGTT
* *
19832966 AGGGGTTAGGGTTTTTAATTAAATTAGATTAGGGTTAGGGTTTTTAACTAAATTAGGTT
1 A-GGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGGTT
*
19833025 AGGGTTAGGGTTTTTAATTAAATTAGGTTA-----A-GTTTTTTAATTAAATTAGGTT
1 AGGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGGTT
*
19833077 AAGGTTAGGGTTTTTAAGTT-AA--AGG-T----TTAGGGTTTTTAATTAAATTAGGTT
1 AGGGTTAGGGTTTTTAA-TTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGGTT
* * *
19833128 AAGGTTATGGTTTTTAAGTT-AA-TA-G-T----TTAGGGTTTTTAATTAAATTAAGTT
1 AGGGTTAGGGTTTTTAA-TTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGGTT
* * *
19833179 AGGGTTAGAGTTTGTAATTAATTTAGGTTAGGGGTTAGGGTTTTTAATTAAATTAGGTT
1 AGGGTTAGGGTTTTTAATTAAATTAGGTTA-GGGTTAGGGTTTTTAATTAAATTAGGTT
* *
19833238 AGGGTTAGGGTTTGTAATTAATTTAGGTTAAGGGTTAGGGTTTTTAATTAAATTAGGTT
1 AGGGTTAGGGTTTTTAATTAAATTAGGTT-AGGGTTAGGGTTTTTAATTAAATTAGGTT
* *
19833297 AGGGTTAGGGTTTTTAATTAAATTAGGTTACGGTTAGGGTTTTTAATTAATTTAGGTT
1 AGGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGGTT
19833355 AGGGTTTAGGG-------TTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGGTT
1 AGGG-TTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGGTT
*
19833407 AGGGTTAGGGTTTTTAATTAAATTACGTTAGGGTTAGGGTTTTTAATTAAATTAGGTT
1 AGGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGGTT
19833465 AGGGTTTAGGGTT
1 AGGG-TTAGGGTT
19833478 AAATTAGGTT
Statistics
Matches: 517, Mismatches: 28, Indels: 51
0.87 0.05 0.09
Matches are distributed among these distances:
49 1 0.00
50 6 0.01
51 87 0.17
52 83 0.16
53 4 0.01
54 1 0.00
58 104 0.20
59 226 0.44
60 5 0.01
ACGTcount: A:0.28, C:0.01, G:0.27, T:0.45
Consensus pattern (58 bp):
AGGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGGTT
Found at i:19833102 original size:21 final size:21
Alignment explanation
Indices: 19833077--19833120 Score: 72
Period size: 22 Copynumber: 2.1 Consensus size: 21
19833067 AAATTAGGTT
19833077 AAGG-TTAGGGTTTTTAAGTTA
1 AAGGTTTAGGGTTTTTAA-TTA
19833098 AAGGTTTAGGGTTTTTAATTA
1 AAGGTTTAGGGTTTTTAATTA
19833119 AA
1 AA
19833121 TTAGGTTAAG
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
21 9 0.41
22 13 0.59
ACGTcount: A:0.32, C:0.00, G:0.25, T:0.43
Consensus pattern (21 bp):
AAGGTTTAGGGTTTTTAATTA
Found at i:19833222 original size:301 final size:301
Alignment explanation
Indices: 19832688--19833471 Score: 1142
Period size: 301 Copynumber: 2.6 Consensus size: 301
19832678 TTTTAAGTTA
*
19832688 AGGGTTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGTGTTTTTAATTAAATTAGGTTAGGGTT
1 AGGG-TTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTT
* *
19832753 TTTAATTAAATTAGGTTAAGGTTAGGGTTTTTAAATAAATTGGGTTAGGGTTAGGATTTTTAATT
65 TTTAATTAAATTAGGTTAAGGTTAGGGTTTTTAATTAAA---GGTT---GTTAGGGTTTTTAATT
* * ** * *
19832818 AGATTAGATTAAGGTTAGGTTTTTAAGTTAAGGGTTTAGGGGTTTTAATTAAATTAGGTTAGGGT
124 AAATTAGGTTAAGGTTAGGTTTTTAAGTTAATAGTTTAGGGTTTTTAATTAAATTAAGTTAGGGT
*
19832883 TAGGGTTTGTAATTAATTTAGGTTAAGGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGCT
189 TAGAGTTTGTAATTAATTTAGGTTAAGGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGCT
*
19832948 TTGTAATTAATTTAGGTTAGGGGTTAGGGTTTTTAATTAAATTAGATT
254 TTGTAATTAATTTAGGTTAAGGGTTAGGGTTTTTAATTAAATTAGATT
* * *
19832996 AGGGTTAGGGTTTTTAACTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGGTTAAGTTTT
1 AGGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTT
19833061 TTAATTAAATTAGGTTAAGGTTAGGGTTTTTAAGTTAAAGG-T-TTAGGGTTTTTAATTAAATTA
66 TTAATTAAATTAGGTTAAGGTTAGGGTTTTTAA-TTAAAGGTTGTTAGGGTTTTTAATTAAATTA
19833124 GGTTAAGGTTATGGTTTTTAAGTTAATAGTTTAGGGTTTTTAATTAAATTAAGTTAGGGTTAGAG
130 GGTTAAGGTTA-GGTTTTTAAGTTAATAGTTTAGGGTTTTTAATTAAATTAAGTTAGGGTTAGAG
* *
19833189 TTTGTAATTAATTTAGGTTAGGGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTGTA
194 TTTGTAATTAATTTAGGTTAAGGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGCTTTGTA
*
19833254 ATTAATTTAGGTTAAGGGTTAGGGTTTTTAATTAAATTAGGTT
259 ATTAATTTAGGTTAAGGGTTAGGGTTTTTAATTAAATTAGATT
* *
19833297 AGGGTTAGGGTTTTTAATTAAATTAGGTTACGGTTAGGGTTTTTAATTAATTTAGGTTAGGGTTT
1 AGGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTT
**** *
19833362 AGGGTTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTA
66 TTAATTAAATTAGGTTAAGGTTAGGGTTTTTAATT-AA--AGGTT---GTTAGGGTTTTTAATTA
* * *
19833427 AATTACGTTAGGGTTAGGGTTTTTAA-TTAAATTAGGTTAGGGTTT
125 AATTAGGTTAAGGTTA-GGTTTTTAAGTT-AA-TAGTTTAGGGTTT
19833472 AGGGTTAAAT
Statistics
Matches: 433, Mismatches: 31, Indels: 23
0.89 0.06 0.05
Matches are distributed among these distances:
300 31 0.07
301 242 0.56
303 3 0.01
304 2 0.00
305 2 0.00
307 92 0.21
308 49 0.11
309 12 0.03
ACGTcount: A:0.28, C:0.01, G:0.26, T:0.45
Consensus pattern (301 bp):
AGGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTT
TTAATTAAATTAGGTTAAGGTTAGGGTTTTTAATTAAAGGTTGTTAGGGTTTTTAATTAAATTAG
GTTAAGGTTAGGTTTTTAAGTTAATAGTTTAGGGTTTTTAATTAAATTAAGTTAGGGTTAGAGTT
TGTAATTAATTTAGGTTAAGGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGCTTTGTAAT
TAATTTAGGTTAAGGGTTAGGGTTTTTAATTAAATTAGATT
Found at i:19833521 original size:25 final size:25
Alignment explanation
Indices: 19833493--19833604 Score: 96
Period size: 25 Copynumber: 4.7 Consensus size: 25
19833483 AGGTTATGGT
19833493 TTTTATTACATCAAATAAACTTCTA
1 TTTTATTACATCAAATAAACTTCTA
19833518 TTTTATTACATCAAAT-AA-TATC-A
1 TTTTATTACATCAAATAAACT-TCTA
** * ** *
19833541 --AAATAAC-TCGAAAT--TTTTTTA
1 TTTTATTACATC-AAATAAACTTCTA
19833562 TTTTATTACATCAAATAAACTTCTA
1 TTTTATTACATCAAATAAACTTCTA
19833587 TTTTATTACATCAAATAA
1 TTTTATTACATCAAATAA
19833605 TATCAAAATA
Statistics
Matches: 67, Mismatches: 11, Indels: 18
0.70 0.11 0.19
Matches are distributed among these distances:
20 3 0.04
21 10 0.15
23 10 0.15
24 6 0.09
25 38 0.57
ACGTcount: A:0.42, C:0.13, G:0.01, T:0.44
Consensus pattern (25 bp):
TTTTATTACATCAAATAAACTTCTA
Found at i:19833566 original size:69 final size:69
Alignment explanation
Indices: 19833493--19833647 Score: 258
Period size: 69 Copynumber: 2.3 Consensus size: 69
19833483 AGGTTATGGT
* **
19833493 TTTTATTACATCAAATAAACTTCTATTTTATTACATCAAATAATATCAAAATAACTCGAAATTTT
1 TTTTATTACATCAAATAAACTTCTATTTTATTACATCAAATAATATCAAAATAACTCCAAAAATT
*
19833558 TTTA
66 TCTA
19833562 TTTTATTACATCAAATAAACTTCTATTTTATTACATCAAATAATATCAAAATAACTCCAAAAATT
1 TTTTATTACATCAAATAAACTTCTATTTTATTACATCAAATAATATCAAAATAACTCCAAAAATT
19833627 TCTA
66 TCTA
*
19833631 TTTT-TTACATAAAATAA
1 TTTTATTACATCAAATAA
19833648 TATCAAAATA
Statistics
Matches: 81, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
68 12 0.15
69 69 0.85
ACGTcount: A:0.44, C:0.14, G:0.01, T:0.42
Consensus pattern (69 bp):
TTTTATTACATCAAATAAACTTCTATTTTATTACATCAAATAATATCAAAATAACTCCAAAAATT
TCTA
Found at i:19834769 original size:7 final size:7
Alignment explanation
Indices: 19834759--19834796 Score: 76
Period size: 7 Copynumber: 5.4 Consensus size: 7
19834749 TATATACATT
19834759 ATACTAA
1 ATACTAA
19834766 ATACTAA
1 ATACTAA
19834773 ATACTAA
1 ATACTAA
19834780 ATACTAA
1 ATACTAA
19834787 ATACTAA
1 ATACTAA
19834794 ATA
1 ATA
19834797 TCAATTGAAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 31 1.00
ACGTcount: A:0.58, C:0.13, G:0.00, T:0.29
Consensus pattern (7 bp):
ATACTAA
Found at i:19836000 original size:22 final size:22
Alignment explanation
Indices: 19835975--19836027 Score: 97
Period size: 22 Copynumber: 2.4 Consensus size: 22
19835965 TATGGATTTC
19835975 AGAGAATTTTGGAAGGAAATTG
1 AGAGAATTTTGGAAGGAAATTG
19835997 AGAGAATTTTGGAAGGAAATTG
1 AGAGAATTTTGGAAGGAAATTG
19836019 AGAGGAATT
1 AGA-GAATT
19836028 GAGAGGAAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
22 25 0.83
23 5 0.17
ACGTcount: A:0.42, C:0.00, G:0.32, T:0.26
Consensus pattern (22 bp):
AGAGAATTTTGGAAGGAAATTG
Found at i:19862262 original size:317 final size:317
Alignment explanation
Indices: 19861657--19862291 Score: 993
Period size: 317 Copynumber: 2.0 Consensus size: 317
19861647 CTCCTTTTCC
*
19861657 ATGATTAATTCCTCTAAATTGGACACTATAAAACAATCATCAATTGTATCAGGAAACCACGTAGA
1 ATGATTAATTCCTCTAAATTGGACACTATAAAACAATCATCAATTGTATCAGGAAACCACATAGA
* *
19861722 CTTAAAAACATTAAATGTTACCTAATCATCCTGAACAAGCATAGTCAACTCACCCTTCTGTACAT
66 CTTAAAAACATTAAATGTTACCTAATCATCATGAACAAGCATAGTCAACTCACCCTTCTATACAT
* * * *
19861787 CAATAAATGTCCTTCTAATTGATAGGAAAACCCTTCCTAGGATAATTGGCACTTTTTTGTCTGCT
131 CAATAAAGGTCCTTCTAATTGATAGGAAAACCCTTCCTAAGATAATTGACACTTTTTTGTCTACT
* *
19861852 TGAAAGTCTAGAATAATAAAGTCAGCAGGAAAAATAAATTTGACTACACGTACCAATACGTCCTC
196 TCAAAGTCTAGAATAATAAAGTCAGCAAGAAAAATAAATTTGACTACACGTACCAATACGTCCTC
* * *
19861917 GATTTTTCCTTCTAGATGTGCTAAGGATCGATCTGCTAATTGAAGTGTAACCATAGT
261 AATTTTCCCTTCTAGATGTGCTAAGGATCGATCTACTAATTGAAGTGTAACCATAGT
* * *
19861974 ATGATTAATTCCTCTAAATTGGACACTATAGAACAATCATCAATTGTGTCAGGAAATCACATAGA
1 ATGATTAATTCCTCTAAATTGGACACTATAAAACAATCATCAATTGTATCAGGAAACCACATAGA
* * * * *
19862039 CTTAAAAACATTAAATGTTACCTGATCGTCATGAACAAGCATAGTCAGCTCGCCCTTGTATACAT
66 CTTAAAAACATTAAATGTTACCTAATCATCATGAACAAGCATAGTCAACTCACCCTTCTATACAT
* * * * * *
19862104 CAATAAGGGTCCTTCTAGTTGATAGGAAAGCCCTTCCTAAGTTGATTGACACTTTTTTTTTCTAC
131 CAATAAAGGTCCTTCTAATTGATAGGAAAACCCTTCCTAAGATAATTGACAC-TTTTTTGTCTAC
* *
19862169 TTCAAAGTCTAGAATAATAAAGTCAGCAAGAACAATAAATTTGACTACACGTACCAATACGTCTT
195 TTCAAAGTCTAGAATAATAAAGTCAGCAAGAAAAATAAATTTGACTACACGTACCAATACGTCCT
*
19862234 CAATTTTCCCTTCTAGATGTGC-AAGGATCGATCTACTGATTGAAGTGTAACCATAGT
260 CAATTTTCCCTTCTAGATGTGCTAAGGATCGATCTACTAATTGAAGTGTAACCATAGT
19862291 A
1 A
19862292 GGTCTAACTT
Statistics
Matches: 288, Mismatches: 29, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
317 197 0.68
318 91 0.32
ACGTcount: A:0.35, C:0.20, G:0.15, T:0.31
Consensus pattern (317 bp):
ATGATTAATTCCTCTAAATTGGACACTATAAAACAATCATCAATTGTATCAGGAAACCACATAGA
CTTAAAAACATTAAATGTTACCTAATCATCATGAACAAGCATAGTCAACTCACCCTTCTATACAT
CAATAAAGGTCCTTCTAATTGATAGGAAAACCCTTCCTAAGATAATTGACACTTTTTTGTCTACT
TCAAAGTCTAGAATAATAAAGTCAGCAAGAAAAATAAATTTGACTACACGTACCAATACGTCCTC
AATTTTCCCTTCTAGATGTGCTAAGGATCGATCTACTAATTGAAGTGTAACCATAGT
Found at i:19865757 original size:29 final size:28
Alignment explanation
Indices: 19865722--19865799 Score: 104
Period size: 29 Copynumber: 2.7 Consensus size: 28
19865712 TCATGAGATT
19865722 GGCACTAAGTGTGCGGGTTTAAATTGTACA
1 GGCACTAAGTGTGCGGGTTTAAA--GTACA
*
19865752 -GCACTAAGTGTGCGAGTTTAAAGTACA
1 GGCACTAAGTGTGCGGGTTTAAAGTACA
19865779 TGGCACTAAGTGTGCGCGGTT
1 -GGCACTAAGTGTGCG-GGTT
19865800 GATTATTAAG
Statistics
Matches: 43, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
27 5 0.12
29 35 0.81
30 3 0.07
ACGTcount: A:0.26, C:0.15, G:0.31, T:0.28
Consensus pattern (28 bp):
GGCACTAAGTGTGCGGGTTTAAAGTACA
Found at i:19866060 original size:173 final size:174
Alignment explanation
Indices: 19865752--19866078 Score: 548
Period size: 173 Copynumber: 1.9 Consensus size: 174
19865742 AAATTGTACA
* * * *
19865752 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
1 GCACTAACTGTGCGAGTTTAAAGTACATGACACTAAGTGTGCGCGGTTGATTACTAAACACTATG
* * *
19865817 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACTTTACCGAGTCGA
66 TGTGCGAACCCAATATATATTTTATATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
19865882 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
131 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
* * * *
19865926 GCACTAACTGTGTGAGTTTAAAGTGCATGACACTAAGTGTGCGTGGTTGATTACTAAACATTATG
1 GCACTAACTGTGCGAGTTTAAAGTACATGACACTAAGTGTGCGCGGTTGATTACTAAACACTATG
19865991 TGTGC-AACCCAATATATATTTTATATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
66 TGTGCGAACCCAATATATATTTTATATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
19866055 TTTTGGACAGCGGAAAAGGTAAGT
131 TTTTGGACAGCGGAAAAGGTAAGT
19866079 ACCTTGAGTT
Statistics
Matches: 142, Mismatches: 11, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
173 80 0.56
174 62 0.44
ACGTcount: A:0.31, C:0.14, G:0.24, T:0.31
Consensus pattern (174 bp):
GCACTAACTGTGCGAGTTTAAAGTACATGACACTAAGTGTGCGCGGTTGATTACTAAACACTATG
TGTGCGAACCCAATATATATTTTATATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
Found at i:19886320 original size:25 final size:26
Alignment explanation
Indices: 19886288--19886342 Score: 71
Period size: 24 Copynumber: 2.2 Consensus size: 26
19886278 TTATTAAATT
*
19886288 ATATATTTTAATTATAA-TATATTTA
1 ATATATTTTAATAATAATTATATTTA
*
19886313 ATATA-TTTAATAATAATTATGTTTA
1 ATATATTTTAATAATAATTATATTTA
19886338 A-ATAT
1 ATATAT
19886343 GATTAAATTA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
24 13 0.50
25 13 0.50
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (26 bp):
ATATATTTTAATAATAATTATATTTA
Found at i:19886529 original size:44 final size:45
Alignment explanation
Indices: 19886480--19886574 Score: 138
Period size: 45 Copynumber: 2.1 Consensus size: 45
19886470 TTACACCTCT
* *
19886480 ATTACATTCAACCAAACA-CAGTTTTACTATTACGCCTCTATTCC
1 ATTACATTCAACCAAACAGCAGATTTACTATTACACCTCTATTCC
** *
19886524 ATTACATTCAACCAAACAGTTGATTTGCTATTACACCTCTATTCC
1 ATTACATTCAACCAAACAGCAGATTTACTATTACACCTCTATTCC
19886569 ATTACA
1 ATTACA
19886575 CCTCTAATCC
Statistics
Matches: 45, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
44 18 0.40
45 27 0.60
ACGTcount: A:0.33, C:0.27, G:0.05, T:0.35
Consensus pattern (45 bp):
ATTACATTCAACCAAACAGCAGATTTACTATTACACCTCTATTCC
Found at i:19886574 original size:16 final size:16
Alignment explanation
Indices: 19886555--19886606 Score: 86
Period size: 16 Copynumber: 3.2 Consensus size: 16
19886545 GATTTGCTAT
* *
19886555 TACACCTCTATTCCAT
1 TACACCTCTAATCCAA
19886571 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
19886587 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
19886603 TACA
1 TACA
19886607 GCGAACCAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 34 1.00
ACGTcount: A:0.35, C:0.37, G:0.00, T:0.29
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:19899208 original size:24 final size:24
Alignment explanation
Indices: 19899180--19899227 Score: 78
Period size: 24 Copynumber: 2.0 Consensus size: 24
19899170 AAAGAATTCA
* *
19899180 TGGCTTCTTCCACAACCTATATGG
1 TGGCTTCGTCCACAACCTACATGG
19899204 TGGCTTCGTCCACAACCTACATGG
1 TGGCTTCGTCCACAACCTACATGG
19899228 CAACTTATCT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.21, C:0.31, G:0.19, T:0.29
Consensus pattern (24 bp):
TGGCTTCGTCCACAACCTACATGG
Found at i:19921799 original size:38 final size:35
Alignment explanation
Indices: 19921723--19921800 Score: 86
Period size: 38 Copynumber: 2.1 Consensus size: 35
19921713 TTACTGTTGT
* *
19921723 TACTACTATGTTACTAATTGCATGTTCAACATGCC
1 TACTACTATGTTACTAATTGCATGATCAACATGAC
*
19921758 TACTACTATTGTTAAACTGATTGCATGAT-AATCATGAC
1 TACTACTA-TGTT--ACTAATTGCATGATCAA-CATGAC
19921796 TACTA
1 TACTA
19921801 TTTCTATATT
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
35 8 0.22
36 4 0.11
37 2 0.06
38 22 0.61
ACGTcount: A:0.32, C:0.19, G:0.12, T:0.37
Consensus pattern (35 bp):
TACTACTATGTTACTAATTGCATGATCAACATGAC
Found at i:19934321 original size:64 final size:64
Alignment explanation
Indices: 19934215--19934362 Score: 206
Period size: 64 Copynumber: 2.3 Consensus size: 64
19934205 CGCTGTGTCC
* * ** * *
19934215 AAGCCACTCAACATTGCAGTCAAGCTGTATCATTGTGGTCAAGCCACTCAATAATGTTGTGGCG
1 AAGCTACTCAATATTGCAGTCAAGCTACATCATTGTAGTCAAGCCACTCAATAACGTTGTGGCG
* * **
19934279 AAGCTACTCAATATCGCAGTCAAGCTACATCGTTGTAGTCAAGCCACTCAATAACGTTGTGGTT
1 AAGCTACTCAATATTGCAGTCAAGCTACATCATTGTAGTCAAGCCACTCAATAACGTTGTGGCG
19934343 AAGCTACTCAATATTGCAGT
1 AAGCTACTCAATATTGCAGT
19934363 AAAACTGCCA
Statistics
Matches: 73, Mismatches: 11, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
64 73 1.00
ACGTcount: A:0.30, C:0.23, G:0.20, T:0.28
Consensus pattern (64 bp):
AAGCTACTCAATATTGCAGTCAAGCTACATCATTGTAGTCAAGCCACTCAATAACGTTGTGGCG
Found at i:19934346 original size:24 final size:24
Alignment explanation
Indices: 19934309--19934355 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
19934299 CAAGCTACAT
19934309 CGTTGTAGTCAAGCCACTCAATAA
1 CGTTGTAGTCAAGCCACTCAATAA
* * *
19934333 CGTTGTGGTTAAGCTACTCAATA
1 CGTTGTAGTCAAGCCACTCAATA
19934356 TTGCAGTAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.30, C:0.21, G:0.19, T:0.30
Consensus pattern (24 bp):
CGTTGTAGTCAAGCCACTCAATAA
Found at i:19934512 original size:42 final size:42
Alignment explanation
Indices: 19934444--19934554 Score: 123
Period size: 42 Copynumber: 2.6 Consensus size: 42
19934434 TTTTTCAATA
* *
19934444 GGCATGCTTAACATGCGAATCGAATCTAAGAAAAACATAGTC
1 GGCATGCTTAACATGCAAATCAAATCTAAGAAAAACATAGTC
* * *** * * *
19934486 GGCATGTTTAACATGCAAATCAAATCTCAGTTTATCGTAGTT
1 GGCATGCTTAACATGCAAATCAAATCTAAGAAAAACATAGTC
*
19934528 GACATGCTTAACATGCAAATCAAATCT
1 GGCATGCTTAACATGCAAATCAAATCT
19934555 CAGCTAATAA
Statistics
Matches: 57, Mismatches: 12, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
42 57 1.00
ACGTcount: A:0.37, C:0.19, G:0.16, T:0.28
Consensus pattern (42 bp):
GGCATGCTTAACATGCAAATCAAATCTAAGAAAAACATAGTC
Found at i:19940981 original size:15 final size:16
Alignment explanation
Indices: 19940934--19940985 Score: 70
Period size: 17 Copynumber: 3.2 Consensus size: 16
19940924 TGTAAAATTT
*
19940934 TAGACTTTGAAAACTA
1 TAGACTGTGAAAACTA
19940950 TAGAACTGTGAAAACTA
1 TAG-ACTGTGAAAACTA
*
19940967 TAGATTGTG-AAACTA
1 TAGACTGTGAAAACTA
19940982 TAGA
1 TAGA
19940986 AAACTTTAGA
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
15 10 0.30
16 8 0.24
17 15 0.45
ACGTcount: A:0.44, C:0.10, G:0.17, T:0.29
Consensus pattern (16 bp):
TAGACTGTGAAAACTA
Found at i:19946824 original size:20 final size:20
Alignment explanation
Indices: 19946796--19946834 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
19946786 TTTTAAGTGA
*
19946796 AATATAATGTTATTTAATTT
1 AATAAAATGTTATTTAATTT
19946816 AATAAAATGTTATTTAATT
1 AATAAAATGTTATTTAATT
19946835 AATTAATTTG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.44, C:0.00, G:0.05, T:0.51
Consensus pattern (20 bp):
AATAAAATGTTATTTAATTT
Found at i:19952582 original size:19 final size:19
Alignment explanation
Indices: 19952558--19952598 Score: 66
Period size: 19 Copynumber: 2.2 Consensus size: 19
19952548 ATCTCATTTC
19952558 ATTCA-TTGCATTTAGATTA
1 ATTCATTTGCATTTA-ATTA
19952577 ATTCATTTGCATTTAATTA
1 ATTCATTTGCATTTAATTA
19952596 ATT
1 ATT
19952599 TACTGTAACA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
19 12 0.57
20 9 0.43
ACGTcount: A:0.32, C:0.10, G:0.07, T:0.51
Consensus pattern (19 bp):
ATTCATTTGCATTTAATTA
Found at i:19957046 original size:15 final size:15
Alignment explanation
Indices: 19957023--19957066 Score: 61
Period size: 15 Copynumber: 2.9 Consensus size: 15
19957013 TGAAATAAAT
*
19957023 TGATCAAATGTTGAA
1 TGATCAAATGATGAA
* *
19957038 TGATAAAATGATGTA
1 TGATCAAATGATGAA
19957053 TGATCAAATGATGA
1 TGATCAAATGATGA
19957067 GAAGTATGAG
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.43, C:0.05, G:0.20, T:0.32
Consensus pattern (15 bp):
TGATCAAATGATGAA
Found at i:19959129 original size:19 final size:19
Alignment explanation
Indices: 19959105--19959145 Score: 66
Period size: 19 Copynumber: 2.2 Consensus size: 19
19959095 ATCTCATTTT
19959105 ATTCA-TTGCATTTAGATTA
1 ATTCATTTGCATTTA-ATTA
19959124 ATTCATTTGCATTTAATTA
1 ATTCATTTGCATTTAATTA
19959143 ATT
1 ATT
19959146 TACAGTAACA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
19 12 0.57
20 9 0.43
ACGTcount: A:0.32, C:0.10, G:0.07, T:0.51
Consensus pattern (19 bp):
ATTCATTTGCATTTAATTA
Found at i:19961028 original size:20 final size:20
Alignment explanation
Indices: 19961005--19961042 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
19960995 TTGTTCATAT
*
19961005 TTTTAATAATTTATATTTAG
1 TTTTAATAATTTAAATTTAG
*
19961025 TTTTAATATTTTAAATTT
1 TTTTAATAATTTAAATTT
19961043 TTATTAGAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.34, C:0.00, G:0.03, T:0.63
Consensus pattern (20 bp):
TTTTAATAATTTAAATTTAG
Found at i:19965742 original size:19 final size:19
Alignment explanation
Indices: 19965718--19965758 Score: 66
Period size: 19 Copynumber: 2.2 Consensus size: 19
19965708 ATCTCATTTT
19965718 ATTCA-TTGCATTTAGATTA
1 ATTCATTTGCATTTA-ATTA
19965737 ATTCATTTGCATTTAATTA
1 ATTCATTTGCATTTAATTA
19965756 ATT
1 ATT
19965759 TACAGTAACA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
19 12 0.57
20 9 0.43
ACGTcount: A:0.32, C:0.10, G:0.07, T:0.51
Consensus pattern (19 bp):
ATTCATTTGCATTTAATTA
Found at i:19994743 original size:40 final size:40
Alignment explanation
Indices: 19994688--19994870 Score: 303
Period size: 40 Copynumber: 4.6 Consensus size: 40
19994678 ATTTGAATAC
19994688 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGATAT
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGATAT
*
19994728 ATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATAT
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGATAT
*
19994768 ATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTTGATAT
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGATAT
* * *
19994808 ATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGCTAT
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGATAT
* *
19994848 ACCCGGGTTAAGACCCGAAGGCA
1 ATCCGGGCTAAGACCCGAAGGCA
19994871 ATTGAGCTTG
Statistics
Matches: 134, Mismatches: 9, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 134 1.00
ACGTcount: A:0.27, C:0.22, G:0.29, T:0.22
Consensus pattern (40 bp):
ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGATAT
Done.