Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A04
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: 82679320
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 4050000 characters in sequence are not A, C, G, or T
File 175 of 255
Found at i:57710524 original size:38 final size:39
Alignment explanation
Indices: 57710482--57710559 Score: 95
Period size: 40 Copynumber: 2.0 Consensus size: 39
57710472 AAACCCTTTT
* * * *
57710482 CAGTACAGTATCGAT-TTTAGTTTGGCCTTAGCCCATCA
1 CAGTACAGAATCAATATGTAGTTGGGCCTTAGCCCATCA
*
57710520 CAGTACAGAATTAATCATGTAGTTGGGCCTTAGCCCATCA
1 CAGTACAGAATCAAT-ATGTAGTTGGGCCTTAGCCCATCA
57710560 ACGTATCAGT
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
38 12 0.36
40 21 0.64
ACGTcount: A:0.27, C:0.23, G:0.19, T:0.31
Consensus pattern (39 bp):
CAGTACAGAATCAATATGTAGTTGGGCCTTAGCCCATCA
Found at i:57713591 original size:16 final size:16
Alignment explanation
Indices: 57713572--57713606 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
57713562 AATAATGAGT
57713572 AAAT-AAAATAACAATG
1 AAATAAAAATAA-AATG
57713588 AAATAAAAATAAAATG
1 AAATAAAAATAAAATG
57713604 AAA
1 AAA
57713607 ACAACTAGCA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 11 0.61
17 7 0.39
ACGTcount: A:0.74, C:0.03, G:0.06, T:0.17
Consensus pattern (16 bp):
AAATAAAAATAAAATG
Found at i:57719093 original size:21 final size:17
Alignment explanation
Indices: 57719054--57719112 Score: 63
Period size: 17 Copynumber: 3.6 Consensus size: 17
57719044 TAAGGTTCCA
57719054 TAGCTATTAGACACCTT
1 TAGCTATTAGACACCTT
57719071 TAGCTATTAGA-ACAC--
1 TAGCTATTAGACAC-CTT
* *
57719086 -AACTTTTAGACACCTT
1 TAGCTATTAGACACCTT
57719102 TAGCTATTAGA
1 TAGCTATTAGA
57719113 ACACAACTTT
Statistics
Matches: 33, Mismatches: 4, Indels: 10
0.70 0.09 0.21
Matches are distributed among these distances:
14 9 0.27
15 2 0.06
16 2 0.06
17 20 0.61
ACGTcount: A:0.34, C:0.20, G:0.12, T:0.34
Consensus pattern (17 bp):
TAGCTATTAGACACCTT
Found at i:57719095 original size:31 final size:31
Alignment explanation
Indices: 57719060--57719124 Score: 130
Period size: 31 Copynumber: 2.1 Consensus size: 31
57719050 TCCATAGCTA
57719060 TTAGACACCTTTAGCTATTAGAACACAACTT
1 TTAGACACCTTTAGCTATTAGAACACAACTT
57719091 TTAGACACCTTTAGCTATTAGAACACAACTT
1 TTAGACACCTTTAGCTATTAGAACACAACTT
57719122 TTA
1 TTA
57719125 CACTTTACAC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 34 1.00
ACGTcount: A:0.35, C:0.22, G:0.09, T:0.34
Consensus pattern (31 bp):
TTAGACACCTTTAGCTATTAGAACACAACTT
Found at i:57727277 original size:29 final size:29
Alignment explanation
Indices: 57727235--57727293 Score: 109
Period size: 29 Copynumber: 2.0 Consensus size: 29
57727225 GTAAAACTCC
57727235 TAATTATTTTTGTACGATTTTTGGTGAAT
1 TAATTATTTTTGTACGATTTTTGGTGAAT
*
57727264 TAATTATTTTTGTACGATTTTTTGTGAAT
1 TAATTATTTTTGTACGATTTTTGGTGAAT
57727293 T
1 T
57727294 TTAAAATTCA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.24, C:0.03, G:0.15, T:0.58
Consensus pattern (29 bp):
TAATTATTTTTGTACGATTTTTGGTGAAT
Found at i:57733927 original size:34 final size:34
Alignment explanation
Indices: 57733878--57733959 Score: 94
Period size: 34 Copynumber: 2.4 Consensus size: 34
57733868 GAAGAATAAG
* * *
57733878 AGAAAAAGAAGAAGAAGAGAAGAAATA-GAGAAGA
1 AGAAAAAGAAAAAGAAAAGAA-AAAGAGGAGAAGA
*
57733912 AGAAGAAGAAAAAGAAAAGAAAAAGAGGAGAAGA
1 AGAAAAAGAAAAAGAAAAGAAAAAGAGGAGAAGA
*
57733946 AGAATAAGAGAAAA
1 AGAAAAAGA-AAAA
57733960 TGGAAAGAGC
Statistics
Matches: 41, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
33 4 0.10
34 33 0.80
35 4 0.10
ACGTcount: A:0.70, C:0.00, G:0.28, T:0.02
Consensus pattern (34 bp):
AGAAAAAGAAAAAGAAAAGAAAAAGAGGAGAAGA
Found at i:57733949 original size:6 final size:6
Alignment explanation
Indices: 57733867--57733954 Score: 71
Period size: 6 Copynumber: 15.5 Consensus size: 6
57733857 CTTGGACGGT
* *
57733867 AGAAGA ATAAG- AGAAAA AGAAGA AGAAG- AGAAGA A-ATAG- AGAAGA
1 AGAAGA AGAAGA AGAAGA AGAAGA AGAAGA AGAAGA AGA-AGA AGAAGA
* * * *
57733912 AGAAGA AGAAAA AGAA-A AGAAAA AG-AGG AGAAGA AGAATA AGA
1 AGAAGA AGAAGA AGAAGA AGAAGA AGAAGA AGAAGA AGAAGA AGA
57733955 GAAAATGGAA
Statistics
Matches: 66, Mismatches: 9, Indels: 14
0.74 0.10 0.16
Matches are distributed among these distances:
5 20 0.30
6 46 0.70
ACGTcount: A:0.68, C:0.00, G:0.28, T:0.03
Consensus pattern (6 bp):
AGAAGA
Found at i:57733954 original size:28 final size:28
Alignment explanation
Indices: 57733869--57733959 Score: 92
Period size: 31 Copynumber: 3.1 Consensus size: 28
57733859 TGGACGGTAG
* * * *
57733869 AAGAATAAGAGAAAAAGAAGAAGAAGAG
1 AAGAAAAAGAGAAGAAGAAGAAAAAGAA
57733897 AAGAAATAGAGAAGAAGAAGAAGAAAAAGAA
1 AAGAAA-A-AG-AGAAGAAGAAGAAAAAGAA
*
57733928 AAGAAAAAGAGGAGAAGAAGAATAAGAGAA
1 AAGAAAAAGAGAAGAAGAAGAA-AA-AGAA
57733958 AA
1 AA
57733960 TGGAAAGAGC
Statistics
Matches: 53, Mismatches: 5, Indels: 8
0.80 0.08 0.12
Matches are distributed among these distances:
28 17 0.32
29 5 0.09
30 9 0.17
31 22 0.42
ACGTcount: A:0.69, C:0.00, G:0.27, T:0.03
Consensus pattern (28 bp):
AAGAAAAAGAGAAGAAGAAGAAAAAGAA
Found at i:57733957 original size:11 final size:10
Alignment explanation
Indices: 57733878--57733948 Score: 56
Period size: 11 Copynumber: 6.8 Consensus size: 10
57733868 GAAGAATAAG
57733878 AGAAAA-AGA
1 AGAAAAGAGA
57733887 AGAAGAAGAGA
1 AGAA-AAGAGA
57733898 AGAAATAGAGA
1 AGAAA-AGAGA
*
57733909 AGAAGA-AGA
1 AGAAAAGAGA
*
57733918 AGAAAAAGAAA
1 AG-AAAAGAGA
*
57733929 AGAAAAAGAGG
1 AG-AAAAGAGA
57733940 AGAAGAAGA
1 AGAA-AAGA
57733949 ATAAGAGAAA
Statistics
Matches: 51, Mismatches: 5, Indels: 10
0.77 0.08 0.15
Matches are distributed among these distances:
9 9 0.18
10 9 0.18
11 33 0.65
ACGTcount: A:0.69, C:0.00, G:0.30, T:0.01
Consensus pattern (10 bp):
AGAAAAGAGA
Found at i:57737634 original size:34 final size:34
Alignment explanation
Indices: 57737591--57737668 Score: 86
Period size: 34 Copynumber: 2.3 Consensus size: 34
57737581 CATATGAAAA
* *
57737591 AACAATTCAT-GCATAATAACAGTTCGCTCAATAT
1 AACAATTCATAGAAT-ATAACAGTTCACTCAATAT
* * *
57737625 AACAGTTCATAGAATATAACATTTCATTCAATAT
1 AACAATTCATAGAATATAACAGTTCACTCAATAT
*
57737659 AATAATTCAT
1 AACAATTCAT
57737669 TCATACCACA
Statistics
Matches: 36, Mismatches: 7, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
34 33 0.92
35 3 0.08
ACGTcount: A:0.44, C:0.17, G:0.06, T:0.33
Consensus pattern (34 bp):
AACAATTCATAGAATATAACAGTTCACTCAATAT
Found at i:57737657 original size:17 final size:17
Alignment explanation
Indices: 57737591--57737671 Score: 65
Period size: 17 Copynumber: 4.8 Consensus size: 17
57737581 CATATGAAAA
*
57737591 AACAATTCATGC-ATAAT
1 AACAATTCATTCAAT-AT
* **
57737608 AACAGTTCGCTCAATAT
1 AACAATTCATTCAATAT
* **
57737625 AACAGTTCATAGAATAT
1 AACAATTCATTCAATAT
*
57737642 AACATTTCATTCAATAT
1 AACAATTCATTCAATAT
*
57737659 AATAATTCATTCA
1 AACAATTCATTCA
57737672 TACCACATCG
Statistics
Matches: 50, Mismatches: 13, Indels: 2
0.77 0.20 0.03
Matches are distributed among these distances:
17 48 0.96
18 2 0.04
ACGTcount: A:0.43, C:0.17, G:0.06, T:0.33
Consensus pattern (17 bp):
AACAATTCATTCAATAT
Found at i:57738730 original size:31 final size:31
Alignment explanation
Indices: 57738671--57738746 Score: 93
Period size: 31 Copynumber: 2.5 Consensus size: 31
57738661 CTTCAAGCGC
*** *
57738671 ATATATATTATATATTTTATGACCCATAAAT
1 ATATATATTATATATAACAAGACCCATAAAT
*
57738702 ATATATATTATATATAACAAGACGCATAAAT
1 ATATATATTATATATAACAAGACCCATAAAT
57738733 ATAT-TATT-TATATA
1 ATATATATTATATATA
57738747 CATATCTATT
Statistics
Matches: 40, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
29 6 0.15
30 4 0.10
31 30 0.75
ACGTcount: A:0.46, C:0.08, G:0.04, T:0.42
Consensus pattern (31 bp):
ATATATATTATATATAACAAGACCCATAAAT
Found at i:57746231 original size:30 final size:30
Alignment explanation
Indices: 57746174--57746231 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
57746164 TATAATTTCA
* *
57746174 TTTTATTTTTATTTTAATTTGGCCCTAACC
1 TTTTATTTTTATTTCAATTTAGCCCTAACC
* *
57746204 TTTTATTTTTGTTTCAATTTAGTCCTAA
1 TTTTATTTTTATTTCAATTTAGCCCTAA
57746232 TGGCTATTAT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.21, C:0.14, G:0.07, T:0.59
Consensus pattern (30 bp):
TTTTATTTTTATTTCAATTTAGCCCTAACC
Found at i:57746538 original size:12 final size:12
Alignment explanation
Indices: 57746479--57746643 Score: 100
Period size: 12 Copynumber: 14.1 Consensus size: 12
57746469 TTTTAAAAAA
57746479 ATTATTATATAT
1 ATTATTATATAT
* *
57746491 ATTTTTATTTATGT
1 ATTATTA--TATAT
*
57746505 ATTATT-TGTTAT
1 ATTATTAT-ATAT
57746517 ATTATT-TATAT
1 ATTATTATATAT
57746528 ATTATTATATAT
1 ATTATTATATAT
*
57746540 TTTATT-TATAT
1 ATTATTATATAT
57746551 ATT-TTAT-TAT
1 ATTATTATATAT
*
57746561 A-TATTAAATCAT
1 ATTATTATAT-AT
*
57746573 TTTATTATATAT
1 ATTATTATATAT
57746585 ATTATTCAT-T-T
1 ATTATT-ATATAT
* *
57746596 CTTATTTTAT-T
1 ATTATTATATAT
*
57746607 ATATATTATGTTAT
1 AT-TATTAT-ATAT
*
57746621 CTTATTAT-T-T
1 ATTATTATATAT
57746631 ATTATTATATAT
1 ATTATTATATAT
57746643 A
1 A
57746644 ATTTTAAAAT
Statistics
Matches: 118, Mismatches: 19, Indels: 32
0.70 0.11 0.19
Matches are distributed among these distances:
9 1 0.01
10 18 0.15
11 30 0.25
12 42 0.36
13 16 0.14
14 11 0.09
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.63
Consensus pattern (12 bp):
ATTATTATATAT
Found at i:57746545 original size:35 final size:36
Alignment explanation
Indices: 57746514--57746590 Score: 85
Period size: 32 Copynumber: 2.2 Consensus size: 36
57746504 TATTATTTGT
57746514 TATATTATTT-ATATATTATTATATATTTTATT-TA
1 TATATTATTTGATATATTATTATATATTTTATTATA
*
57746548 TATA-T-TTT-AT-TATATATTAAATCATTTTATTATA
1 TATATTATTTGATATAT-TATTATAT-ATTTTATTATA
57746582 TATATTATT
1 TATATTATT
57746591 CATTTCTTAT
Statistics
Matches: 37, Mismatches: 1, Indels: 8
0.80 0.02 0.17
Matches are distributed among these distances:
31 3 0.08
32 12 0.32
33 9 0.24
34 10 0.27
35 1 0.03
36 2 0.05
ACGTcount: A:0.36, C:0.01, G:0.00, T:0.62
Consensus pattern (36 bp):
TATATTATTTGATATATTATTATATATTTTATTATA
Found at i:57746561 original size:23 final size:25
Alignment explanation
Indices: 57746479--57746702 Score: 106
Period size: 23 Copynumber: 8.6 Consensus size: 25
57746469 TTTTAAAAAA
*
57746479 ATTATTATATATATTTTTATTTATGT
1 ATTATTATATATA-TTTTATTTATAT
* *
57746505 ATTATT-TGT-TATATTATTTATAT
1 ATTATTATATATATTTTATTTATAT
57746528 ATTA-T-TATATATTTTATTTATAT
1 ATTATTATATATATTTTATTTATAT
* *
57746551 ATT-TTAT-TATATATTA--AATCAT
1 ATTATTATATATATTTTATTTAT-AT
* *
57746573 TTTATTATATATATTATTCATTTCTTAT
1 ATTATTATATATATT-TT-ATTT-ATAT
* *
57746601 TTTATTATATATTATGTTATCTTATTATTT
1 ATTATTATATA-TATTTTAT-TTA-TA--T
* *
57746631 ATTATTATATATAATTTTAAAATTTACAA
1 ATTATTATATAT-ATTTT---ATTTATAT
*
57746660 ATTATTATTAAATATTGTT-TTTATAT
1 ATTATTA-TATATATT-TTATTTATAT
* *
57746686 ATCATTATTAAATATTT
1 ATTATTA-TATATATTT
57746703 AGTATGAAAT
Statistics
Matches: 155, Mismatches: 21, Indels: 45
0.70 0.10 0.20
Matches are distributed among these distances:
21 2 0.01
22 7 0.05
23 43 0.28
24 8 0.05
25 5 0.03
26 27 0.17
27 2 0.01
28 19 0.12
29 15 0.10
30 21 0.14
31 1 0.01
32 3 0.02
33 2 0.01
ACGTcount: A:0.35, C:0.03, G:0.02, T:0.61
Consensus pattern (25 bp):
ATTATTATATATATTTTATTTATAT
Found at i:57746626 original size:48 final size:45
Alignment explanation
Indices: 57746480--57746649 Score: 145
Period size: 46 Copynumber: 3.7 Consensus size: 45
57746470 TTTAAAAAAA
*
57746480 TTATTATATATATTTTTATTTATGTATTATT-TGT-TATATTATTTAT
1 TTATTATATATA-TTTTATTTATATATT-TTAT-TATATATTATTTAT
* * *
57746526 ATATTATTATATATTTTATTTATATATTTTATTATATATTAAATCATT
1 TTATTA-TATATATTTTATTTATATATTTTATTATATATT-ATTTA-T
*
57746574 TTATTATATATATTATTCATTTCT-TATTTTATTATATATTATGTTAT
1 TTATTATATATATT-TT-ATTTATATATTTTATTATATATTAT-TTAT
*
57746621 CTTATTAT-T-TATTATTATATATA-ATTTTA
1 -TTATTATATATATT-TTATTTATATATTTTA
57746650 AAATTTACAA
Statistics
Matches: 104, Mismatches: 10, Indels: 21
0.77 0.07 0.16
Matches are distributed among these distances:
45 13 0.12
46 33 0.32
47 20 0.19
48 33 0.32
49 5 0.05
ACGTcount: A:0.32, C:0.02, G:0.02, T:0.64
Consensus pattern (45 bp):
TTATTATATATATTTTATTTATATATTTTATTATATATTATTTAT
Found at i:57746627 original size:20 final size:20
Alignment explanation
Indices: 57746597--57746635 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
57746587 TATTCATTTC
*
57746597 TTATTTTATTATATATTATG
1 TTATCTTATTATATATTATG
*
57746617 TTATCTTATTATTTATTAT
1 TTATCTTATTATATATTAT
57746636 TATATATAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.28, C:0.03, G:0.03, T:0.67
Consensus pattern (20 bp):
TTATCTTATTATATATTATG
Found at i:57758500 original size:18 final size:18
Alignment explanation
Indices: 57758458--57758500 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
57758448 GCCCATTCCG
* *
57758458 AAGTATATATATATACAT
1 AAGTATGTATATATACAC
57758476 ATA-TATGTATATATACAC
1 A-AGTATGTATATATACAC
57758494 AAGTATG
1 AAGTATG
57758501 CCCATTCGGG
Statistics
Matches: 21, Mismatches: 2, Indels: 4
0.78 0.07 0.15
Matches are distributed among these distances:
17 1 0.05
18 19 0.90
19 1 0.05
ACGTcount: A:0.47, C:0.07, G:0.09, T:0.37
Consensus pattern (18 bp):
AAGTATGTATATATACAC
Found at i:57759031 original size:28 final size:28
Alignment explanation
Indices: 57758970--57759234 Score: 417
Period size: 28 Copynumber: 9.5 Consensus size: 28
57758960 TAAATTGTGC
*
57758970 AGCACTAAGTGTGCGA-ATTGACTATGT
1 AGCACTAAGTGTGCGAGTTTGACTATGT
57758997 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAGTTTGACTATGT
*
57759025 AGTACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAGTTTGACTATGT
57759053 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAGTTTGACTATGT
* *
57759081 AGCACTAAGTGTGCGAGCTTGATTATGT
1 AGCACTAAGTGTGCGAGTTTGACTATGT
* *
57759109 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGACTATGT
57759137 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAGTTTGACTATGT
* *
57759165 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGACTATGT
* *
57759193 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGACTATGT
*
57759220 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
57759235 GACTTATTAT
Statistics
Matches: 225, Mismatches: 12, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
27 40 0.18
28 185 0.82
ACGTcount: A:0.26, C:0.13, G:0.28, T:0.32
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGACTATGT
Found at i:57762168 original size:90 final size:90
Alignment explanation
Indices: 57762016--57762796 Score: 1057
Period size: 90 Copynumber: 8.7 Consensus size: 90
57762006 GTAGATCACT
* * *
57762016 GAAGCAGATCGAAGATGATAGATTTGGTGTCTCTGTATTGGACGGGGAGCAGATCGAAGATAGCA
1 GAAGCAGATCGAAGATGATAGATTTGGCGTCTCTGTATTAGACGAGGAGCAGATCGAAGATAGCA
* *
57762081 GATCTAACATTCGTGTGTTTACATT
66 GATCTGACATTCGTGTGTTTACATC
* * * *
57762106 GAAGCAGATCAAAAATGATAGATTTGGCATCTTTGTATTAGACGAGGAGCAGATCGAAGATAGCA
1 GAAGCAGATCGAAGATGATAGATTTGGCGTCTCTGTATTAGACGAGGAGCAGATCGAAGATAGCA
* *
57762171 GATCTGACATTTGTATGTTTACATC
66 GATCTGACATTCGTGTGTTTACATC
* * *
57762196 GAAGTAGATCGAAGATGACAGATTTGGCATCTCTGTATTAGAC-AGGGAGCAGATCGAAGATAGC
1 GAAGCAGATCGAAGATGATAGATTTGGCGTCTCTGTATTAGACGA-GGAGCAGATCGAAGATAGC
* * * *
57762260 AGATTTGACATCCGTGTATTTACATT
65 AGATCTGACATTCGTGTGTTTACATC
* * * * *
57762286 GAAGCAAATCGAAGATGATAGATTTGACGTCTCTGTATTAGACGGGGAGCAGAACAAAGATAGCA
1 GAAGCAGATCGAAGATGATAGATTTGGCGTCTCTGTATTAGACGAGGAGCAGATCGAAGATAGCA
57762351 GATCTGACATTCGTGTGTTTACATC
66 GATCTGACATTCGTGTGTTTACATC
* * * *
57762376 GAAGCAAATCGAAGATGATAGATTTGGTGTCTCTGTATTGGACGGGGAGCAGATCGAAGATAGCA
1 GAAGCAGATCGAAGATGATAGATTTGGCGTCTCTGTATTAGACGAGGAGCAGATCGAAGATAGCA
*
57762441 GATCTGACATTCATGTGTTTACATC
66 GATCTGACATTCGTGTGTTTACATC
* * * *
57762466 GAAGCAGATCGAAGATGACAGATTTGGCATCTCTGTATTAGACG-GAGAGCAGATCGAAAATACC
1 GAAGCAGATCGAAGATGATAGATTTGGCGTCTCTGTATTAGACGAG-GAGCAGATCGAAGATAGC
*
57762530 AGATCTGACATTTGTGTGTTTACATC
65 AGATCTGACATTCGTGTGTTTACATC
* * * * *
57762556 GAAGCAGATTGAAGATGACAGGTTTGGCGTCTCTATATTAGACGAGGAGCAGATCAAAGATAGCA
1 GAAGCAGATCGAAGATGATAGATTTGGCGTCTCTGTATTAGACGAGGAGCAGATCGAAGATAGCA
*
57762621 GGTCTGACATTCGTGTGTTTACATC
66 GATCTGACATTCGTGTGTTTACATC
* * * *
57762646 GAAGCAGATTGAAGATGATAGATTTGGCGTCTTTGTATTAGAC-AGGGGCAGATCGAAGATAGGA
1 GAAGCAGATCGAAGATGATAGATTTGGCGTCTCTGTATTAGACGAGGAGCAGATCGAAGATAGCA
*
57762710 GATCTGACATTTGTGTGTTTACATC
66 GATCTGACATTCGTGTGTTTACATC
** * * * *
57762735 GAAGCAGATCGAAGAT-AGCGGATTTGGCGTCTCTGTATTTGACGGGGAGCAGCTCAAAGATA
1 GAAGCAGATCGAAGATGA-TAGATTTGGCGTCTCTGTATTAGACGAGGAGCAGATCGAAGATA
57762797 TTAACATGGT
Statistics
Matches: 609, Mismatches: 76, Indels: 12
0.87 0.11 0.02
Matches are distributed among these distances:
88 1 0.00
89 79 0.13
90 528 0.87
91 1 0.00
ACGTcount: A:0.31, C:0.14, G:0.27, T:0.27
Consensus pattern (90 bp):
GAAGCAGATCGAAGATGATAGATTTGGCGTCTCTGTATTAGACGAGGAGCAGATCGAAGATAGCA
GATCTGACATTCGTGTGTTTACATC
Found at i:57764269 original size:25 final size:27
Alignment explanation
Indices: 57764223--57764273 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 27
57764213 AATCCTTTTT
* *
57764223 AAATTTTTTATATAATTTATTTATTTA
1 AAATGTTTTATATAATTCATTTATTTA
57764250 AAATGTTTTATAT-A-TCATTTATTT
1 AAATGTTTTATATAATTCATTTATTT
57764274 TTATTATAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
25 9 0.41
26 1 0.05
27 12 0.55
ACGTcount: A:0.35, C:0.02, G:0.02, T:0.61
Consensus pattern (27 bp):
AAATGTTTTATATAATTCATTTATTTA
Found at i:57764276 original size:27 final size:26
Alignment explanation
Indices: 57764218--57764275 Score: 73
Period size: 29 Copynumber: 2.2 Consensus size: 26
57764208 ATTTTAATCC
57764218 TTTTT-AAATTTTTTATATAATTTAT
1 TTTTTAAAATTTTTTATATAATTTAT
*
57764243 TTATTTAAAATGTTTTATATATCATTTAT
1 TT-TTTAAAAT-TTTT-TATATAATTTAT
57764272 TTTT
1 TTTT
57764276 ATTATAAACA
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
25 2 0.07
26 3 0.11
27 4 0.14
28 6 0.21
29 13 0.46
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.66
Consensus pattern (26 bp):
TTTTTAAAATTTTTTATATAATTTAT
Found at i:57764371 original size:23 final size:25
Alignment explanation
Indices: 57764306--57764376 Score: 78
Period size: 23 Copynumber: 2.9 Consensus size: 25
57764296 ATTTAAAAAA
57764306 ATTATTATATATATTTTTATT-TATGT
1 ATTATT-TATATA-TTTTATTATATGT
* *
57764332 ATTATTTGT-TATATTATTATAT-T
1 ATTATTTATATATTTTATTATATGT
57764355 -TTATTTATATATTTTATTATAT
1 ATTATTTATATATTTTATTATAT
57764377 ATTAAATCAT
Statistics
Matches: 39, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
22 7 0.18
23 19 0.49
24 5 0.13
25 2 0.05
26 6 0.15
ACGTcount: A:0.31, C:0.00, G:0.03, T:0.66
Consensus pattern (25 bp):
ATTATTTATATATTTTATTATATGT
Found at i:57764371 original size:28 final size:29
Alignment explanation
Indices: 57764306--57764456 Score: 77
Period size: 30 Copynumber: 5.1 Consensus size: 29
57764296 ATTTAAAAAA
57764306 ATTATTATA-TA-TAT-TTTTATTTATGTATT
1 ATTATTATATTATTATATTTTATTTA--TA-T
*
57764335 ATTTGTTATATTATTATATTTTATTTATAT
1 A-TTATTATATTATTATATTTTATTTATAT
57764365 ATT-TTATTATATATTAAATCATTTTATTATATAT
1 ATTATTA-TAT-TATT--AT-ATTTTATT-TATAT
*
57764399 ATTATTCAT-TT-CT-TATTTTA-TTATAT
1 ATTATT-ATATTATTATATTTTATTTATAT
* * *
57764425 ATTATGTTATCTTATTAT-TTATAATTATAT
1 ATTA--TTATATTATTATATTTTATTTATAT
57764455 AT
1 AT
57764457 AATTTTAAAA
Statistics
Matches: 100, Mismatches: 4, Indels: 35
0.72 0.03 0.25
Matches are distributed among these distances:
26 9 0.09
27 3 0.03
28 13 0.13
29 12 0.12
30 22 0.22
31 4 0.04
32 6 0.06
33 18 0.18
34 9 0.09
35 3 0.03
36 1 0.01
ACGTcount: A:0.32, C:0.03, G:0.02, T:0.63
Consensus pattern (29 bp):
ATTATTATATTATTATATTTTATTTATAT
Found at i:57764376 original size:12 final size:12
Alignment explanation
Indices: 57764307--57764379 Score: 60
Period size: 12 Copynumber: 6.0 Consensus size: 12
57764297 TTTAAAAAAA
57764307 TTATTATATATAT
1 TTATTATATAT-T
*
57764320 TT-TTATTTA-T
1 TTATTATATATT
* * *
57764330 GTATTATTTGTT
1 TTATTATATATT
*
57764342 ATATTATTATATT
1 TTATTA-TATATT
57764355 TTATTTATATATT
1 TTA-TTATATATT
57764368 TTATTATATATT
1 TTATTATATATT
57764380 AAATCATTTT
Statistics
Matches: 49, Mismatches: 7, Indels: 9
0.75 0.11 0.14
Matches are distributed among these distances:
10 2 0.04
11 6 0.12
12 21 0.43
13 17 0.35
14 3 0.06
ACGTcount: A:0.30, C:0.00, G:0.03, T:0.67
Consensus pattern (12 bp):
TTATTATATATT
Found at i:57764379 original size:20 final size:21
Alignment explanation
Indices: 57764340--57764409 Score: 69
Period size: 20 Copynumber: 3.5 Consensus size: 21
57764330 GTATTATTTG
* *
57764340 TTATATTATTATATT-T-TAT
1 TTATATCATTTTATTATATAT
57764359 TTATAT-ATTTTATTATATA-
1 TTATATCATTTTATTATATAT
*
57764378 TTAAATCATTTTATTATATAT
1 TTATATCATTTTATTATATAT
57764399 ATTAT-TCATTT
1 -TTATATCATTT
57764410 CTTATTTTAT
Statistics
Matches: 43, Mismatches: 3, Indels: 8
0.80 0.06 0.15
Matches are distributed among these distances:
18 7 0.16
19 12 0.28
20 15 0.35
21 6 0.14
22 3 0.07
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.63
Consensus pattern (21 bp):
TTATATCATTTTATTATATAT
Found at i:57773283 original size:6 final size:6
Alignment explanation
Indices: 57773273--57773342 Score: 81
Period size: 6 Copynumber: 11.7 Consensus size: 6
57773263 ATTTTTTATT
* *
57773273 TTTTTA GTTTTA -TTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTC
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA
*
57773320 TTTTGA -TTTTA TTATTTTA TTTT
1 TTTTTA TTTTTA -T-TTTTA TTTT
57773343 GAAAGACATA
Statistics
Matches: 55, Mismatches: 5, Indels: 8
0.81 0.07 0.12
Matches are distributed among these distances:
5 9 0.16
6 40 0.73
7 1 0.02
8 5 0.09
ACGTcount: A:0.16, C:0.01, G:0.03, T:0.80
Consensus pattern (6 bp):
TTTTTA
Found at i:57776681 original size:43 final size:43
Alignment explanation
Indices: 57776631--57776753 Score: 156
Period size: 43 Copynumber: 2.9 Consensus size: 43
57776621 ATTTCGGTTC
* * *
57776631 ATCCAATGATGCACTGTATGTGCCAGTATATTTTCTTTGATTT
1 ATCCAATGATGCACTATGTGTGCCAGTATATTTTCTTAGATTT
* * * *
57776674 CTCCAATGATGTACTATGTGTGCTAGTATATTTTCTTAGGTTT
1 ATCCAATGATGCACTATGTGTGCCAGTATATTTTCTTAGATTT
* * *
57776717 ATTCGATGATGCATTATGTGTGCCAGTATATTTTCTT
1 ATCCAATGATGCACTATGTGTGCCAGTATATTTTCTT
57776754 CGACTTGTCT
Statistics
Matches: 67, Mismatches: 13, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
43 67 1.00
ACGTcount: A:0.22, C:0.15, G:0.18, T:0.46
Consensus pattern (43 bp):
ATCCAATGATGCACTATGTGTGCCAGTATATTTTCTTAGATTT
Found at i:57776770 original size:43 final size:43
Alignment explanation
Indices: 57776649--57776824 Score: 140
Period size: 43 Copynumber: 4.1 Consensus size: 43
57776639 ATGCACTGTA
* * ** * *
57776649 TGTGCCAGTATATTTTCTTTGATTTCTCCAATGATGTACTATG
1 TGTGCCAGTATATTTTCTTAGATTTATCTGATGATGCATTATG
* *
57776692 TGTGCTAGTATATTTTCTTAGGTTTAT-TCGATGATGCATTATG
1 TGTGCCAGTATATTTTCTTAGATTTATCT-GATGATGCATTATG
* * * * *
57776735 TGTGCCAGTATATTTTCTTCGACTTGTCTGTTGATGCATTGTG
1 TGTGCCAGTATATTTTCTTAGATTTATCTGATGATGCATTATG
* * * * * *
57776778 TGTGCCAATATAATTACATT-GGTTTATCCGATGATACACTTATG
1 TGTGCCAGTATATTTTC-TTAGATTTATCTGATGATGCA-TTATG
57776822 TGT
1 TGT
57776825 CAATGTGATT
Statistics
Matches: 104, Mismatches: 25, Indels: 7
0.76 0.18 0.05
Matches are distributed among these distances:
43 94 0.90
44 10 0.10
ACGTcount: A:0.21, C:0.14, G:0.19, T:0.45
Consensus pattern (43 bp):
TGTGCCAGTATATTTTCTTAGATTTATCTGATGATGCATTATG
Found at i:57776781 original size:86 final size:87
Alignment explanation
Indices: 57776649--57776824 Score: 194
Period size: 86 Copynumber: 2.0 Consensus size: 87
57776639 ATGCACTGTA
* * * * * * *
57776649 TGTGCCAGTATATTTTCTTTGATTTCTCCAATGATGTACTATGTGTGCTAGTATATTTTC-TTAG
1 TGTGCCAGTATATTTTCTTCGACTTCTCCAATGATGCACTATGTGTGCCAATATAATTACATT-G
* *
57776713 GTTTATTCGATGATGCA-TTATG
65 GTTTATCCGATGATACACTTATG
* *** * *
57776735 TGTGCCAGTATATTTTCTTCGACTTGTCTGTTGATGCATTGTGTGTGCCAATATAATTACATTGG
1 TGTGCCAGTATATTTTCTTCGACTTCTCCAATGATGCACTATGTGTGCCAATATAATTACATTGG
57776800 TTTATCCGATGATACACTTATG
66 TTTATCCGATGATACACTTATG
57776822 TGT
1 TGT
57776825 CAATGTGATT
Statistics
Matches: 73, Mismatches: 15, Indels: 3
0.80 0.16 0.03
Matches are distributed among these distances:
86 63 0.86
87 10 0.14
ACGTcount: A:0.21, C:0.14, G:0.19, T:0.45
Consensus pattern (87 bp):
TGTGCCAGTATATTTTCTTCGACTTCTCCAATGATGCACTATGTGTGCCAATATAATTACATTGG
TTTATCCGATGATACACTTATG
Found at i:57781513 original size:30 final size:30
Alignment explanation
Indices: 57781456--57781513 Score: 71
Period size: 30 Copynumber: 1.9 Consensus size: 30
57781446 TTTTTGAACC
**
57781456 TAGGGGAAAAATGGTCATTTTGTCAAAGTT
1 TAGGGGAAAAATGGTCATTTTACCAAAGTT
* * *
57781486 TAGGGGCATAATGGTCGTTTTACCAAAG
1 TAGGGGAAAAATGGTCATTTTACCAAAG
57781514 ATATGAATTT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
30 23 1.00
ACGTcount: A:0.31, C:0.10, G:0.28, T:0.31
Consensus pattern (30 bp):
TAGGGGAAAAATGGTCATTTTACCAAAGTT
Found at i:57781911 original size:46 final size:46
Alignment explanation
Indices: 57781852--57782115 Score: 154
Period size: 46 Copynumber: 5.6 Consensus size: 46
57781842 TCACTTGTGT
57781852 GAGCTAGTGTAAGA-CATGTCTGGGACATGCATCGGCCACATTACGA
1 GAGCT-GTGTAAGACCATGTCTGGGACATGCATCGGCCACATTACGA
* * *
57781898 GAGCCTGTGTAAGACCATGTCTGGGATATGGCATCAG---TATTGAAACGA
1 GAG-CTGTGTAAGACCATGTCTGGGACAT-GCATCGGCCACATT---ACGA
* * * *
57781946 GTGCTAGTGTAAGA-CATGTCTGGGACATGCATCAGCCTCGA-GACGTA
1 GAGCT-GTGTAAGACCATGTCTGGGACATGCATCGGCCAC-ATTACG-A
* * *
57781993 -AGTTAGTGTAAGA-CATGTCTGGGACATGCATCGGCTAC--GA-GA
1 GAGCT-GTGTAAGACCATGTCTGGGACATGCATCGGCCACATTACGA
* * * * * *
57782035 TGTGTCAGTGTAAGACCATGTCTGGGACATGGTATCGGCACAGATATGCTA
1 -GAG-CTGTGTAAGACCATGTCTGGGACAT-GCATCGGC-CACAT-TACGA
*
57782086 GAACTTGTGTAAGACCATGTCTGGGACATG
1 GAGC-TGTGTAAGACCATGTCTGGGACATG
57782116 GTATTGGCAC
Statistics
Matches: 171, Mismatches: 24, Indels: 43
0.72 0.10 0.18
Matches are distributed among these distances:
42 1 0.01
43 1 0.01
44 11 0.06
45 17 0.10
46 61 0.36
47 32 0.19
48 20 0.12
49 2 0.01
50 25 0.15
51 1 0.01
ACGTcount: A:0.27, C:0.19, G:0.30, T:0.25
Consensus pattern (46 bp):
GAGCTGTGTAAGACCATGTCTGGGACATGCATCGGCCACATTACGA
Found at i:57784194 original size:40 final size:40
Alignment explanation
Indices: 57784150--57784337 Score: 308
Period size: 40 Copynumber: 4.7 Consensus size: 40
57784140 GCTACTTGCT
57784150 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
57784190 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
* *
57784230 CAAATGCCTTCGAGACTTAGCCCGGATATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
* * *
57784270 CAAATGCCTTCGGG-CTTAGCCCGG-AATTAGTCACTAGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTA-TAGTAACTCGCA
57784309 CAAATGCCTTCGGGACTTAGCCCGGTTAT
1 CAAATGCCTTCGGGACTTAGCCCGGTTAT
57784338 CATCCGAATA
Statistics
Matches: 138, Mismatches: 7, Indels: 6
0.91 0.05 0.04
Matches are distributed among these distances:
38 1 0.01
39 34 0.25
40 102 0.74
41 1 0.01
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
Found at i:57784328 original size:119 final size:119
Alignment explanation
Indices: 57784117--57784337 Score: 331
Period size: 119 Copynumber: 1.9 Consensus size: 119
57784107 AAACCAAGTA
* * * *
57784117 CCTTCGAAATTTAGCCGGATATAGCTACTTGCTCAAATGCCTTCGGGACTTAGCCCGGTTATAGT
1 CCTTCGAAACTTAGCCGGATATAGCTACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAGT
*
57784182 AACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
66 AACTAGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
*
57784236 CCTTCGAGACTTAGCCCGGATATAG-TAACTCGCACAAATGCCTTCGGG-CTTAGCCCGGA-ATT
1 CCTTCGAAACTTAG-CCGGATATAGCT-ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATA-T
*
57784298 AGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGTTAT
63 AGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGTTAT
57784338 CATCCGAATA
Statistics
Matches: 92, Mismatches: 7, Indels: 6
0.88 0.07 0.06
Matches are distributed among these distances:
118 1 0.01
119 62 0.67
120 29 0.32
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (119 bp):
CCTTCGAAACTTAGCCGGATATAGCTACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAGT
AACTAGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
Found at i:57787822 original size:436 final size:436
Alignment explanation
Indices: 57786999--57787859 Score: 1452
Period size: 436 Copynumber: 2.0 Consensus size: 436
57786989 CTACGGAGGA
* ** * * *
57786999 TGACATAGAGAGTAACATGTTGGCTTTCACTGAAGGGACTGTGCCAATTGAGGGTGAGCCCGTGA
1 TGACATAGAGAGTAACACGCCGGCTCTCACTAAAGGGACTGAGCCAATTGAGGGTGAGCCCGTGA
* * *
57787064 CTATGGGCCAAGACGGAGGGGCTAGAGAAGCCTACCTCCAAATGATGGATGCTTAGTACACAGAG
66 CTATGAGCCAAGACGGAGGGGCTAAAGAAGCCTACCTCCAAATGATGGATGCTAAGTACACAGAG
* * *
57787129 TTTATTCGTGCGAATCCAAACACTCCACCTCCCCCACCTCCTCCAATTCCTCAGTATGCTTCCGT
131 TTCATTCGTGCAAATCCAAACACTCCACCTCCCCCACCTCCTCCAATTCCTCAGTATGCTCCCGT
* *
57787194 AGCTCCACAAGGAGCAGACATGTTTAGGAGGGAGAAACCTCCGATAGACAAGATTCAGAAGCAAG
196 AGCTCCACAAGAAGCAGACATGTTTAGGAGGGAGAAACCTCCGATAGACAAGATCCAGAAGCAAG
*
57787259 AGGCCCAGGAATTTCGAGCCAAAATAGATGATGACCCGGAGAGAGCAGAGTTTTGGTTGGAGAAT
261 AGGCCCAGGAATTTCGAGCCAAAATAGATGACGACCCGGAGAGAGCAGAGTTTTGGTTGGAGAAT
* *
57787324 ACCATCAGAGTATTTGATGAACTATCATACACGTCTGAAGAGTGCGTGAAGTGTGCAGTGTCACT
326 ACCATCAGAGAATTTGATGAACTATCATACACGCCTGAAGAGTGCGTGAAGTGTGCAGTGTCACT
* *
57787389 CCTACGAGACTCGGCCTACCAATGATGGTATACTTAACACGTCGGC
391 CCTAAGAGACTCGGCCTACCAATGATGGAATACTTAACACGTCGGC
* *
57787435 TGACGTAGAGAGTAACACGCCGGCTCTCACTAAAGGGACTGAGCCAGTTGAGGGTGAGCCCGTGA
1 TGACATAGAGAGTAACACGCCGGCTCTCACTAAAGGGACTGAGCCAATTGAGGGTGAGCCCGTGA
*
57787500 CTATGAGCCAAGACGGAGGGGCTAAAGAAGCCTACCTCCAAATGATGGATGCTAAGTACACGGAG
66 CTATGAGCCAAGACGGAGGGGCTAAAGAAGCCTACCTCCAAATGATGGATGCTAAGTACACAGAG
* *
57787565 TTCGTTCGTGCAAATCCAAACACTCCACCTCCCCCACCTCCTCTAATTCCTCAGTATGCTCCCGT
131 TTCATTCGTGCAAATCCAAACACTCCACCTCCCCCACCTCCTCCAATTCCTCAGTATGCTCCCGT
* * *
57787630 AGCTCCATAAGAAGTAGACATGTTTAGGAGGGAGAAACCTCCGATAGACAAGATCCGGAAGCAAG
196 AGCTCCACAAGAAGCAGACATGTTTAGGAGGGAGAAACCTCCGATAGACAAGATCCAGAAGCAAG
* *
57787695 GGGCCCAGGAATTTCGAGCCAAAATAGATGACGACCCGGAGAGAGTAGAGTTTTGGTTGGAGAAT
261 AGGCCCAGGAATTTCGAGCCAAAATAGATGACGACCCGGAGAGAGCAGAGTTTTGGTTGGAGAAT
*
57787760 ACCATCAGAGAATTTGATGAACTATCATACACGCCTGAAGAGTGCGTGAAGTGTGTAGTGTCACT
326 ACCATCAGAGAATTTGATGAACTATCATACACGCCTGAAGAGTGCGTGAAGTGTGCAGTGTCACT
57787825 CCTAAGAGACTCGGCCTACCAATGATGGAATACTT
391 CCTAAGAGACTCGGCCTACCAATGATGGAATACTT
57787860 TCATGTCCGT
Statistics
Matches: 395, Mismatches: 30, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
436 395 1.00
ACGTcount: A:0.30, C:0.23, G:0.26, T:0.21
Consensus pattern (436 bp):
TGACATAGAGAGTAACACGCCGGCTCTCACTAAAGGGACTGAGCCAATTGAGGGTGAGCCCGTGA
CTATGAGCCAAGACGGAGGGGCTAAAGAAGCCTACCTCCAAATGATGGATGCTAAGTACACAGAG
TTCATTCGTGCAAATCCAAACACTCCACCTCCCCCACCTCCTCCAATTCCTCAGTATGCTCCCGT
AGCTCCACAAGAAGCAGACATGTTTAGGAGGGAGAAACCTCCGATAGACAAGATCCAGAAGCAAG
AGGCCCAGGAATTTCGAGCCAAAATAGATGACGACCCGGAGAGAGCAGAGTTTTGGTTGGAGAAT
ACCATCAGAGAATTTGATGAACTATCATACACGCCTGAAGAGTGCGTGAAGTGTGCAGTGTCACT
CCTAAGAGACTCGGCCTACCAATGATGGAATACTTAACACGTCGGC
Found at i:57789589 original size:17 final size:17
Alignment explanation
Indices: 57789567--57789601 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
57789557 CCTCCTCACA
57789567 CGGGCAGACAACACAGC
1 CGGGCAGACAACACAGC
57789584 CGGGCAGACAACACAGC
1 CGGGCAGACAACACAGC
57789601 C
1 C
57789602 ATGTCAATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.34, C:0.37, G:0.29, T:0.00
Consensus pattern (17 bp):
CGGGCAGACAACACAGC
Found at i:57803531 original size:30 final size:30
Alignment explanation
Indices: 57803473--57803531 Score: 73
Period size: 30 Copynumber: 2.0 Consensus size: 30
57803463 ATTTTCGAGC
* **
57803473 CTAGGGGAAAAATGGTTATTTTGTCAAAGT
1 CTAGGGGAAAAATGGTCATTTTACCAAAGT
* *
57803503 CTAGGGGCAAAATGGTCGTTTTACCAAAG
1 CTAGGGGAAAAATGGTCATTTTACCAAAG
57803532 ATATGAATTT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.32, C:0.12, G:0.27, T:0.29
Consensus pattern (30 bp):
CTAGGGGAAAAATGGTCATTTTACCAAAGT
Found at i:57804006 original size:46 final size:46
Alignment explanation
Indices: 57803874--57804090 Score: 178
Period size: 46 Copynumber: 4.7 Consensus size: 46
57803864 TGTGTGAGCT
* * * *
57803874 AGTGCAAGACATGTCTAGGACATGCATCGGCCAT--ATTATG-AGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCC-TCGA-GACGTA-AGCC
* * * * *
57803920 AGTGTAAGACCATGTCTGGGATATGGCATCGGCATTGAGACG-AGTGCT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTCGAGACGTA-AGCC
* *
57803968 AGTGTAAGACATGTCTAGGACATGCATCAGCCTCGAGACGTAAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGACGTAAGCC
* * *
57804014 AGTGTAAGACATGCCTGGGACATGCATCGG-CTACGAGATGT-A-TC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCT-CGAGACGTAAGCC
57804058 AGTGTAAGACCATGTCTGGGACATGGCATCGGC
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGC
57804091 ACAGATATGC
Statistics
Matches: 141, Mismatches: 21, Indels: 17
0.79 0.12 0.09
Matches are distributed among these distances:
44 10 0.07
45 16 0.11
46 65 0.46
47 26 0.18
48 23 0.16
49 1 0.01
ACGTcount: A:0.28, C:0.21, G:0.29, T:0.22
Consensus pattern (46 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGACGTAAGCC
Found at i:57807945 original size:118 final size:118
Alignment explanation
Indices: 57807730--57807945 Score: 254
Period size: 118 Copynumber: 1.8 Consensus size: 118
57807720 GGTTTATCGA
* * * * * *
57807730 TTTAAGTTCACAACCTCCAAAGTAGCTAGTAGGCCTAAGCTCCTAGCTGATATTATAAGAGCTCG
1 TTTAAGATCACAACCTCCAAAGTAGCTAGCAGACCTAAGCTCCCAGCTGACATTATAAGAGCTCA
* * * * ** *
57807795 CAGAGTTAAGTTTGTAGCTCCAACACAGCTAGTGGACCTACGCTCGTTTGTAG
66 CAGAATTAAGCTCGCAAATCCAACACAACTAGTGGACCTACGCTCGTTTGTAG
* * *
57807848 TTTAAGATCGCAACCTCTAAAGTAGCTAGCAGACCTACA-TTCCCAGCTGACATTATAAGAGCTC
1 TTTAAGATCACAACCTCCAAAGTAGCTAGCAGACCTA-AGCTCCCAGCTGACATTATAAGAGCTC
**
57807912 ACAGAATTAAGCTCGCAAATCCAGTACAACTAGT
65 ACAGAATTAAGCTCGCAAATCCAACACAACTAGT
57807946 AAGACTACCT
Statistics
Matches: 79, Mismatches: 18, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
118 78 0.99
119 1 0.01
ACGTcount: A:0.31, C:0.24, G:0.19, T:0.26
Consensus pattern (118 bp):
TTTAAGATCACAACCTCCAAAGTAGCTAGCAGACCTAAGCTCCCAGCTGACATTATAAGAGCTCA
CAGAATTAAGCTCGCAAATCCAACACAACTAGTGGACCTACGCTCGTTTGTAG
Found at i:57810073 original size:28 final size:28
Alignment explanation
Indices: 57810041--57810094 Score: 72
Period size: 28 Copynumber: 1.9 Consensus size: 28
57810031 TGTAAGAAAT
* * *
57810041 TATTAATAATATTATTTAAATTATAATA
1 TATTAATAATAGTATTCAAATCATAATA
*
57810069 TATTAATATTAGTATTCAAATCATAA
1 TATTAATAATAGTATTCAAATCATAA
57810095 CGAATATTTG
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 22 1.00
ACGTcount: A:0.48, C:0.04, G:0.02, T:0.46
Consensus pattern (28 bp):
TATTAATAATAGTATTCAAATCATAATA
Found at i:57810843 original size:25 final size:24
Alignment explanation
Indices: 57810799--57810847 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 24
57810789 AATTTAAATT
*
57810799 TTATATTAATATGAAGTAAATATAA
1 TTATATTAATATGAAATAAA-ATAA
*
57810824 TTATATTAATATTAAATAAAATAA
1 TTATATTAATATGAAATAAAATAA
57810848 AAATCCCCCA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 4 0.18
25 18 0.82
ACGTcount: A:0.55, C:0.00, G:0.04, T:0.41
Consensus pattern (24 bp):
TTATATTAATATGAAATAAAATAA
Found at i:57812927 original size:57 final size:58
Alignment explanation
Indices: 57812810--57812938 Score: 210
Period size: 58 Copynumber: 2.3 Consensus size: 58
57812800 TAATAGAAAC
* *
57812810 AAAAAC-AATTAA-GTTTGGCTTATAATTGATGGCAATTTTGTAAATTTTGCAAAATT
1 AAAAACAAATTAATTTTTAGCTTATAATTGATGGCAATTTTGTAAATTTTGCAAAATT
*
57812866 AAAAATAAATTAATTTTTAGCTTATAATTGATGGCAATTTTGTAAATTTT-CAAAATT
1 AAAAACAAATTAATTTTTAGCTTATAATTGATGGCAATTTTGTAAATTTTGCAAAATT
57812923 AAAAACAAATTAATTT
1 AAAAACAAATTAATTT
57812939 GAAGAAATAA
Statistics
Matches: 67, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
56 5 0.07
57 28 0.42
58 34 0.51
ACGTcount: A:0.43, C:0.06, G:0.10, T:0.40
Consensus pattern (58 bp):
AAAAACAAATTAATTTTTAGCTTATAATTGATGGCAATTTTGTAAATTTTGCAAAATT
Found at i:57835444 original size:48 final size:49
Alignment explanation
Indices: 57835231--57835549 Score: 221
Period size: 48 Copynumber: 6.7 Consensus size: 49
57835221 TAGGGTGTAA
* * * *
57835231 TGCCGATGCCATGTCCCAAACATGGTCTTACACT-AGCTCATCCATCAAG
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGAGCACATCTAT-ACG
* ** **
57835280 T--CGATGCCATGTCCCAGACATGATCTTACACTGATTATCGAAAT-TGA-G
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGAGCA-C-ATCTAT-ACG
* * * * *
57835328 -GCTGACGCCATGTCCCAAACATGGTCTTACACT-AGCTC-TCACATATCCG
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGAGCACAT--C-TATACG
*
57835377 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGA-CACCTCTATACG
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGAGCACATCTATACG
57835425 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGA-CACATC--T-CG
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGAGCACATCTATACG
* *
57835470 TAGTCGATG-CATGTCCCAGACAT-GTCTTATACTG-GCTTACATCT-TGA-G
1 T-GCCGATGCCATGTCCCAGACATGGTCTTACACTGAGC--ACATCTAT-ACG
* *
57835518 -GCCGATG-CATATTCCAGACAT-GTCTTACACTG
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTG
57835550 GCGCACAAAT
Statistics
Matches: 219, Mismatches: 31, Indels: 43
0.75 0.11 0.15
Matches are distributed among these distances:
44 11 0.05
45 17 0.08
46 40 0.18
47 31 0.14
48 51 0.23
49 34 0.16
50 33 0.15
51 2 0.01
ACGTcount: A:0.25, C:0.30, G:0.18, T:0.27
Consensus pattern (49 bp):
TGCCGATGCCATGTCCCAGACATGGTCTTACACTGAGCACATCTATACG
Found at i:57835524 original size:46 final size:46
Alignment explanation
Indices: 57835232--57835549 Score: 220
Period size: 46 Copynumber: 6.7 Consensus size: 46
57835222 AGGGTGTAAT
* * * * *
57835232 GCCGATGCCATGTCCCAAACATGGTCTTACACT-AGCTCATCCATCAA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGA-CACAT-CTTGAG
* * * **
57835279 GTCGATGCCATGTCCCAGACATGATCTTACACTGATTATCGAAATTGAG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGA-CA-C-ATCTTGAG
* * * * * * *
57835328 GCTGACGCCATGTCCCAAACATGGTCTTACACTAGCTCTCACATATCCG-T
1 GCCGATGCCATGTCCCAGACATGGTCTTACACT-G---ACACATCT-TGAG
*
57835378 GCCGATGCCATGTCCCAGACATGGTCTTACACTGACACCTCTAT-ACG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGACACATCT-TGA-G
*
57835425 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGACACATCTCGTA-
1 -GCCGATGCCATGTCCCAGACATGGTCTTACACTGACACATCTTG-AG
* * *
57835472 GTCGATG-CATGTCCCAGACAT-GTCTTATACTGGCTTACATCTTGAG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGAC--ACATCTTGAG
* *
57835518 GCCGATG-CATATTCCAGACAT-GTCTTACACTG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTG
57835550 GCGCACAAAT
Statistics
Matches: 215, Mismatches: 40, Indels: 33
0.75 0.14 0.11
Matches are distributed among these distances:
44 11 0.05
45 15 0.07
46 46 0.21
47 30 0.14
48 42 0.20
49 33 0.15
50 35 0.16
51 2 0.01
52 1 0.00
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.27
Consensus pattern (46 bp):
GCCGATGCCATGTCCCAGACATGGTCTTACACTGACACATCTTGAG
Found at i:57836276 original size:13 final size:13
Alignment explanation
Indices: 57836258--57836284 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
57836248 CTAAAAGTAC
57836258 AAAAATCATCAAG
1 AAAAATCATCAAG
57836271 AAAAATCATCAAG
1 AAAAATCATCAAG
57836284 A
1 A
57836285 TCACTACTTG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.63, C:0.15, G:0.07, T:0.15
Consensus pattern (13 bp):
AAAAATCATCAAG
Found at i:57837395 original size:5 final size:5
Alignment explanation
Indices: 57837385--57837415 Score: 62
Period size: 5 Copynumber: 6.2 Consensus size: 5
57837375 TAACCCCTTA
57837385 AATAT AATAT AATAT AATAT AATAT AATAT A
1 AATAT AATAT AATAT AATAT AATAT AATAT A
57837416 TAAACAAATA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 26 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (5 bp):
AATAT
Found at i:57849048 original size:50 final size:50
Alignment explanation
Indices: 57848967--57849069 Score: 161
Period size: 50 Copynumber: 2.1 Consensus size: 50
57848957 CAAAGTATTA
* * * * *
57848967 TTTATTATTTATATCAATTTTTTTATTAATGTATTTGTTATATAATTTGT
1 TTTATTATTTATATCAAATTTTTAATAAATGTATTTGTTACATAATTTAT
57849017 TTTATTATTTATATCAAATTTTTAATAAATGTATTTGTTACATAATTTAT
1 TTTATTATTTATATCAAATTTTTAATAAATGTATTTGTTACATAATTTAT
57849067 TTT
1 TTT
57849070 TCGCGTATGT
Statistics
Matches: 48, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
50 48 1.00
ACGTcount: A:0.31, C:0.03, G:0.05, T:0.61
Consensus pattern (50 bp):
TTTATTATTTATATCAAATTTTTAATAAATGTATTTGTTACATAATTTAT
Found at i:57850074 original size:20 final size:20
Alignment explanation
Indices: 57850049--57850088 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
57850039 CTTAAACTCC
57850049 TCTCACTTACATCCATATTA
1 TCTCACTTACATCCATATTA
57850069 TCTCACTTACATCCATATTA
1 TCTCACTTACATCCATATTA
57850089 ATCATTCTCT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.30, C:0.30, G:0.00, T:0.40
Consensus pattern (20 bp):
TCTCACTTACATCCATATTA
Found at i:57852774 original size:14 final size:14
Alignment explanation
Indices: 57852755--57852794 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
57852745 TTGATTGGCA
57852755 GTAAAATGTTTTCC
1 GTAAAATGTTTTCC
* *
57852769 GTAAAATGATTTCT
1 GTAAAATGTTTTCC
*
57852783 GGAAAATGTTTT
1 GTAAAATGTTTT
57852795 ACTTTTCTGT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.33, C:0.07, G:0.17, T:0.42
Consensus pattern (14 bp):
GTAAAATGTTTTCC
Found at i:57852807 original size:34 final size:35
Alignment explanation
Indices: 57852763--57852829 Score: 100
Period size: 35 Copynumber: 1.9 Consensus size: 35
57852753 CAGTAAAATG
* *
57852763 TTTTCCGTAAAATGA-TTTCTGGAAAATGTTTTAC
1 TTTTCCGTAAAATGACTTACTGGAAAATATTTTAC
*
57852797 TTTTCTGTAAAATGACTTACTGGAAAATATTTT
1 TTTTCCGTAAAATGACTTACTGGAAAATATTTT
57852830 CTGGTGTTTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 14 0.48
35 15 0.52
ACGTcount: A:0.31, C:0.10, G:0.13, T:0.45
Consensus pattern (35 bp):
TTTTCCGTAAAATGACTTACTGGAAAATATTTTAC
Found at i:57852816 original size:20 final size:20
Alignment explanation
Indices: 57852778--57852817 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
57852768 CGTAAAATGA
**
57852778 TTTCTGGAAAATGTTTTACT
1 TTTCTGGAAAATGACTTACT
*
57852798 TTTCTGTAAAATGACTTACT
1 TTTCTGGAAAATGACTTACT
57852818 GGAAAATATT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.28, C:0.12, G:0.12, T:0.47
Consensus pattern (20 bp):
TTTCTGGAAAATGACTTACT
Found at i:57855650 original size:14 final size:14
Alignment explanation
Indices: 57855631--57855658 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
57855621 CGGAAAATGG
57855631 GGAAAATCATTTCC
1 GGAAAATCATTTCC
57855645 GGAAAATCATTTCC
1 GGAAAATCATTTCC
57855659 CCTATCAAAC
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:0.36, C:0.21, G:0.14, T:0.29
Consensus pattern (14 bp):
GGAAAATCATTTCC
Found at i:57856131 original size:26 final size:25
Alignment explanation
Indices: 57856102--57856154 Score: 70
Period size: 26 Copynumber: 2.1 Consensus size: 25
57856092 TTTATATATT
* *
57856102 TAAAAATTATTAAAATTTCATAAAAA
1 TAAAAATAATAAAAATTTCA-AAAAA
*
57856128 TAAAAATAATAAAAATTTTAAAAAA
1 TAAAAATAATAAAAATTTCAAAAAA
57856153 TA
1 TA
57856155 GAAAGTTCAA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (25 bp):
TAAAAATAATAAAAATTTCAAAAAA
Found at i:57876056 original size:29 final size:28
Alignment explanation
Indices: 57876022--57876210 Score: 126
Period size: 29 Copynumber: 6.5 Consensus size: 28
57876012 TTGATTGTCA
*
57876022 ATTATGAAAAGGGATGGTGACGACCATCG
1 ATTATGAAAAGGGATGGT-TCGACCATCG
* * * * *
57876051 AATATGAAAAGGGATAGCTTTGGCTATCG
1 ATTATGAAAAGGGAT-GGTTCGACCATCG
* * * *
57876080 ATTATGAAAAGGGATAGCTTCGGCTATTG
1 ATTATGAAAAGGGAT-GGTTCGACCATCG
** * * * * *
57876109 ATTATGAAAAATGATAGTTTTGGCTACCG
1 ATTATGAAAAGGGAT-GGTTCGACCATCG
** *
57876138 ATTATGAAAAGGGATGGCGACAACCATCG
1 ATTATGAAAAGGGATGG-TTCGACCATCG
57876167 ATTAATGAAAAGGGATGGTTTCGACCATCG
1 ATT-ATGAAAAGGGATGG-TTCGACCATCG
*
57876197 AATATGAAAAGGGA
1 ATTATGAAAAGGGA
57876211 CAGTTATGAA
Statistics
Matches: 127, Mismatches: 30, Indels: 6
0.78 0.18 0.04
Matches are distributed among these distances:
28 1 0.01
29 100 0.79
30 26 0.20
ACGTcount: A:0.36, C:0.12, G:0.27, T:0.25
Consensus pattern (28 bp):
ATTATGAAAAGGGATGGTTCGACCATCG
Found at i:57876084 original size:58 final size:58
Alignment explanation
Indices: 57875996--57876210 Score: 200
Period size: 58 Copynumber: 3.7 Consensus size: 58
57875986 TCATCGACCA
* * * * *
57875996 ATGAAAAGGAATAGCTTTGATTGTCAATTATGAAAAGGGATGGTGACGACCATCGAAT
1 ATGAAAAGGGATAGCTTTGACTATCGATTATGAAAAGGGATGGTGACGACCATCGATT
* * * * * *
57876054 ATGAAAAGGGATAGCTTTGGCTATCGATTATGAAAAGGGATAGCT-TCGGCTATTGATT
1 ATGAAAAGGGATAGCTTTGACTATCGATTATGAAAAGGGAT-GGTGACGACCATCGATT
** * * * * *
57876112 ATGAAAAATGATAGTTTTGGCTACCGATTATGAAAAGGGATGGCGACAACCATCGATT
1 ATGAAAAGGGATAGCTTTGACTATCGATTATGAAAAGGGATGGTGACGACCATCGATT
* * *
57876170 AATGAAAAGGGAT-GGTTTCGACCATCGAATATGAAAAGGGA
1 -ATGAAAAGGGATAGCTTT-GACTATCGATTATGAAAAGGGA
57876211 CAGTTATGAA
Statistics
Matches: 124, Mismatches: 29, Indels: 7
0.77 0.18 0.04
Matches are distributed among these distances:
57 1 0.01
58 93 0.75
59 30 0.24
ACGTcount: A:0.36, C:0.11, G:0.27, T:0.26
Consensus pattern (58 bp):
ATGAAAAGGGATAGCTTTGACTATCGATTATGAAAAGGGATGGTGACGACCATCGATT
Found at i:57876176 original size:30 final size:29
Alignment explanation
Indices: 57876136--57876210 Score: 96
Period size: 30 Copynumber: 2.6 Consensus size: 29
57876126 TTTTGGCTAC
57876136 CGATTATGAAAAGGGATGGCGACAACCAT
1 CGATTATGAAAAGGGATGGCGACAACCAT
*** *
57876165 CGATTAATGAAAAGGGATGGTTTCGACCAT
1 CGATT-ATGAAAAGGGATGGCGACAACCAT
*
57876195 CGAATATGAAAAGGGA
1 CGATTATGAAAAGGGA
57876211 CAGTTATGAA
Statistics
Matches: 40, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
29 16 0.40
30 24 0.60
ACGTcount: A:0.39, C:0.13, G:0.28, T:0.20
Consensus pattern (29 bp):
CGATTATGAAAAGGGATGGCGACAACCAT
Found at i:57884027 original size:18 final size:18
Alignment explanation
Indices: 57884006--57884044 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
57883996 AACCATTATA
*
57884006 TTTAAAAAAAACCTTTGT
1 TTTAAAAAAAACCTTAGT
**
57884024 TTTAGTAAAAACCTTAGT
1 TTTAAAAAAAACCTTAGT
57884042 TTT
1 TTT
57884045 TAGATAACAG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.38, C:0.10, G:0.08, T:0.44
Consensus pattern (18 bp):
TTTAAAAAAAACCTTAGT
Found at i:57894228 original size:26 final size:26
Alignment explanation
Indices: 57894197--57894304 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
57894187 TGAAATGCCC
*
57894197 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
*
57894223 GTCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
57894249 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
57894275 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
57894301 ATCA
1 ATCA
57894305 ATTTGTACCA
Statistics
Matches: 75, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 75 1.00
ACGTcount: A:0.35, C:0.24, G:0.08, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:57896631 original size:29 final size:27
Alignment explanation
Indices: 57896613--57896682 Score: 113
Period size: 27 Copynumber: 2.6 Consensus size: 27
57896603 ATATTAAGTC
57896613 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTCAGTGCTATATAATCAACT
*
57896640 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTCAGTGCTATATAATC-AACT
*
57896668 CGCACACTTAGTGCT
1 CGCACACTCAGTGCT
57896683 GTACAATTTA
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 22 0.54
28 19 0.46
ACGTcount: A:0.31, C:0.29, G:0.13, T:0.27
Consensus pattern (27 bp):
CGCACACTCAGTGCTATATAATCAACT
Found at i:57896676 original size:28 final size:28
Alignment explanation
Indices: 57896613--57896710 Score: 135
Period size: 28 Copynumber: 3.5 Consensus size: 28
57896603 ATATTAAGTC
*
57896613 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
57896640 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
57896668 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
57896697 CGCACACTTAGTGC
1 CGCACACTTAGTGC
57896711 CAATCTCATG
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 22 0.34
28 23 0.36
29 19 0.30
ACGTcount: A:0.32, C:0.29, G:0.13, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:57900642 original size:36 final size:36
Alignment explanation
Indices: 57900601--57900672 Score: 126
Period size: 36 Copynumber: 2.0 Consensus size: 36
57900591 TTTATTTTAG
**
57900601 TAAAAACCTTAGTTTTTAGATAACAGTTGCAAATAA
1 TAAAAACCTTAGTTTTTAGATAACAGTCACAAATAA
57900637 TAAAAACCTTAGTTTTTAGATAACAGTCACAAATAA
1 TAAAAACCTTAGTTTTTAGATAACAGTCACAAATAA
57900673 AGTACTAAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 34 1.00
ACGTcount: A:0.46, C:0.12, G:0.10, T:0.32
Consensus pattern (36 bp):
TAAAAACCTTAGTTTTTAGATAACAGTCACAAATAA
Found at i:57923494 original size:15 final size:15
Alignment explanation
Indices: 57923474--57923511 Score: 67
Period size: 15 Copynumber: 2.5 Consensus size: 15
57923464 TTACATTTCG
57923474 GGTAATTCGGTTAAT
1 GGTAATTCGGTTAAT
57923489 GGTAATTCGGTTAAT
1 GGTAATTCGGTTAAT
*
57923504 GATAATTC
1 GGTAATTC
57923512 TGTTCAGATA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.29, C:0.08, G:0.24, T:0.39
Consensus pattern (15 bp):
GGTAATTCGGTTAAT
Found at i:57923826 original size:19 final size:18
Alignment explanation
Indices: 57923804--57923847 Score: 63
Period size: 18 Copynumber: 2.4 Consensus size: 18
57923794 TTGATTTTTC
57923804 ATAAACAAATTCAAAAAAT
1 ATAAA-AAATTCAAAAAAT
*
57923823 ATAAAAATTTCAAAAAAT
1 ATAAAAAATTCAAAAAAT
57923841 -TAAAAAA
1 ATAAAAAA
57923848 ATTATTAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 6 0.26
18 12 0.52
19 5 0.22
ACGTcount: A:0.70, C:0.07, G:0.00, T:0.23
Consensus pattern (18 bp):
ATAAAAAATTCAAAAAAT
Found at i:57923875 original size:10 final size:9
Alignment explanation
Indices: 57923816--57923884 Score: 52
Period size: 10 Copynumber: 7.3 Consensus size: 9
57923806 AAACAAATTC
57923816 AAAAAATAT
1 AAAAAATAT
*
57923825 -AAAAATTT
1 AAAAAATAT
57923833 CAAAAAAT-T
1 -AAAAAATAT
57923842 AAAAAAATTAT
1 -AAAAAA-TAT
* *
57923853 TAAAATTATT
1 AAAAAATA-T
57923863 AAAAAATCAT
1 AAAAAAT-AT
57923873 AAAAAATAT
1 AAAAAATAT
57923882 AAA
1 AAA
57923885 TTTTATTTAA
Statistics
Matches: 48, Mismatches: 6, Indels: 12
0.73 0.09 0.18
Matches are distributed among these distances:
8 7 0.15
9 14 0.29
10 25 0.52
11 2 0.04
ACGTcount: A:0.70, C:0.03, G:0.00, T:0.28
Consensus pattern (9 bp):
AAAAAATAT
Found at i:57923877 original size:20 final size:18
Alignment explanation
Indices: 57923817--57923877 Score: 52
Period size: 18 Copynumber: 3.3 Consensus size: 18
57923807 AACAAATTCA
**
57923817 AAAAATATAAAAATTTCA-
1 AAAAAT-TAAAAAAATCAT
*
57923835 AAAAATTAAAAAAATTAT
1 AAAAATTAAAAAAATCAT
*
57923853 TAAAATTATTAAAAAATCAT
1 AAAAATTA--AAAAAATCAT
57923873 AAAAA
1 AAAAA
57923878 ATATAAATTT
Statistics
Matches: 34, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
17 8 0.24
18 13 0.38
20 13 0.38
ACGTcount: A:0.69, C:0.03, G:0.00, T:0.28
Consensus pattern (18 bp):
AAAAATTAAAAAAATCAT
Found at i:57923884 original size:19 final size:19
Alignment explanation
Indices: 57923816--57923884 Score: 61
Period size: 20 Copynumber: 3.6 Consensus size: 19
57923806 AAACAAATTC
*
57923816 AAAAAATATAAAAATTTCA-
1 AAAAAATATAAAAA-ATCAT
* *
57923835 AAAAATTA-AAAAAATTAT
1 AAAAAATATAAAAAATCAT
* *
57923853 TAAAATTATTAAAAAATCAT
1 AAAAAATA-TAAAAAATCAT
57923873 AAAAAATATAAA
1 AAAAAATATAAA
57923885 TTTTATTTAA
Statistics
Matches: 40, Mismatches: 7, Indels: 6
0.75 0.13 0.11
Matches are distributed among these distances:
17 2 0.05
18 12 0.30
19 11 0.28
20 15 0.38
ACGTcount: A:0.70, C:0.03, G:0.00, T:0.28
Consensus pattern (19 bp):
AAAAAATATAAAAAATCAT
Found at i:57923891 original size:29 final size:27
Alignment explanation
Indices: 57923816--57923884 Score: 77
Period size: 28 Copynumber: 2.4 Consensus size: 27
57923806 AAACAAATTC
* *
57923816 AAAAAATATAAAAATT-TCAAAAAATTA
1 AAAAAATAT-AAAATTATTAAAAAATCA
57923843 AAAAAATTATTAAAATTATTAAAAAATCA
1 AAAAAA-TA-TAAAATTATTAAAAAATCA
57923872 TAAAAAATATAAA
1 -AAAAAATATAAA
57923885 TTTTATTTAA
Statistics
Matches: 36, Mismatches: 2, Indels: 7
0.80 0.04 0.16
Matches are distributed among these distances:
27 6 0.17
28 12 0.33
29 12 0.33
30 6 0.17
ACGTcount: A:0.70, C:0.03, G:0.00, T:0.28
Consensus pattern (27 bp):
AAAAAATATAAAATTATTAAAAAATCA
Found at i:57926176 original size:12 final size:12
Alignment explanation
Indices: 57926159--57926183 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
57926149 TAATTAAATG
57926159 AATTAAAAGCCA
1 AATTAAAAGCCA
57926171 AATTAAAAGCCA
1 AATTAAAAGCCA
57926183 A
1 A
57926184 TTTTTGTCCA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.60, C:0.16, G:0.08, T:0.16
Consensus pattern (12 bp):
AATTAAAAGCCA
Found at i:57926640 original size:7 final size:8
Alignment explanation
Indices: 57926622--57926648 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
57926612 CCTAGAGACT
57926622 AAAATGTA
1 AAAATGTA
57926630 AAAATGTA
1 AAAATGTA
57926638 AAAATGTA
1 AAAATGTA
57926646 AAA
1 AAA
57926649 CTTTAGGGGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.67, C:0.00, G:0.11, T:0.22
Consensus pattern (8 bp):
AAAATGTA
Found at i:57927128 original size:42 final size:42
Alignment explanation
Indices: 57927029--57927193 Score: 163
Period size: 42 Copynumber: 3.9 Consensus size: 42
57927019 TTAAGGTTAC
* * *
57927029 TGAGATTACGTGTAAGACCATATCTGGAAT-TGAAATTTATA
1 TGAGATTACGTGTAAGACCATATCTGGGATATGACATTGATA
* ** * * *
57927070 TGGGATTTTGTATAAGACCATATTTGGGATATGACATCGATA
1 TGAGATTACGTGTAAGACCATATCTGGGATATGACATTGATA
* * * *
57927112 TGAGATTTCGTGTAAGACCATAGCTGGGCTATTGGCATTGATA
1 TGAGATTACGTGTAAGACCATATCTGGGATA-TGACATTGATA
* *
57927155 CT-AGATTACATGTAAGACCATATCTGGGATATGGCATTG
1 -TGAGATTACGTGTAAGACCATATCTGGGATATGACATTG
57927194 GTACAGTACC
Statistics
Matches: 100, Mismatches: 21, Indels: 5
0.79 0.17 0.04
Matches are distributed among these distances:
41 24 0.24
42 41 0.41
43 34 0.34
44 1 0.01
ACGTcount: A:0.31, C:0.12, G:0.24, T:0.33
Consensus pattern (42 bp):
TGAGATTACGTGTAAGACCATATCTGGGATATGACATTGATA
Found at i:57928998 original size:29 final size:30
Alignment explanation
Indices: 57928960--57929020 Score: 74
Period size: 29 Copynumber: 2.1 Consensus size: 30
57928950 CGATAGTTTC
*
57928960 TTCTTCCTTCCTATTTT-TTTTT-TATTTTTG
1 TTCTTCCTT-CT-TTTTGTTTTTATATATTTG
57928990 TTCTT-CTTCTTTTTGTTTTTATATATTTG
1 TTCTTCCTTCTTTTTGTTTTTATATATTTG
57929019 TT
1 TT
57929021 GTTAATCGGA
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
27 4 0.14
28 7 0.25
29 12 0.43
30 5 0.18
ACGTcount: A:0.08, C:0.13, G:0.05, T:0.74
Consensus pattern (30 bp):
TTCTTCCTTCTTTTTGTTTTTATATATTTG
Found at i:57936920 original size:459 final size:460
Alignment explanation
Indices: 57936056--57936956 Score: 1660
Period size: 459 Copynumber: 2.0 Consensus size: 460
57936046 CTTCTTTTCG
*
57936056 TTTATATTTTTGCTGTTAACCAGAAATGGTGAGGGGATACGAGATTAACAGAAGTTCTTTTGTTA
1 TTTAAATTTTTGCTGTTAACCAGAAATGGTGAGGGGATACGAGATTAACAGAAGTTCTTTTGTTA
* * *
57936121 GTCACCGGTTAGAAGACTGTCGGTAAGTAACTGTCAATACGAGTATCTCCGTGAATTTTCTTTCA
66 GTCACCGGTCAGAAGACTGTCGGTAAGTAACTGTCAATACAAGCATCTCCGTGAATTTTCTTTCA
57936186 TTTTGTAAATTATTTGGAACGGAGGATTTTTGTGAGTTTCGAGAATGTTTTCTAAACGAGTGTGT
131 TTTTGTAAATTATTTGGAACGGAGGATTTTTGTGAGTTTCGAGAATGTTTTCTAAACGAGTGTGT
*
57936251 ATTTACTTAGCAGGTATAGCTATTAACAGCAAGGAATAGCAAGAAGACAATCTTTGTGATTGTTG
196 ATTTACTTAGCAGGCATAGCTATTAACAGCAAGGAATAGCAAGAAGACAATCTTTGTGATTGTTG
*
57936316 CTGAAGTTTCGGTAAGTTTGTGATATCTGAAGGTTTCATGTCGAAACTTTCGACGTGGGTATTAA
261 CTGAAGTTTCGGTAAGTTTGTGACATCTGAAGGTTTCATGTCGAAACTTTCGACGTGGGTATTAA
* *
57936381 GTGAGTAATGGAGAAGTTTTGCTGACTAATTGGCTAAATTGTGTTACTGAATGCTTGTTTTAGGC
326 GTGAGTAATCGAGAAGTTTTGCTGACTAATTGGCTAAATTGTGTTACTGAATGCTTATTTTAGGC
57936446 TTCGAGGATCTTTAGGGTTGTTGTCACTTCGAAATCTTTCCAGGTGCATATTTTTTTTCCTTCCT
391 TTCGAGGATCTTTAGGGTTGTTGTCACTTCGAAATCTTTCCAGGTGCATATTTTTTTTCCTTCCT
57936511 ATTTT
456 ATTTT
*
57936516 TTTAAATTTTTGCTGTTAACCAGAAATGGTGAGGGGATACGGGATTAACAGAAGTTCTTTTGTTA
1 TTTAAATTTTTGCTGTTAACCAGAAATGGTGAGGGGATACGAGATTAACAGAAGTTCTTTTGTTA
* * *
57936581 GTCATCGGTCAGAAGACTGTC-GTAAGTAACTGTCAATGCAAGCATCTCCGTGAATTTTCTTTCG
66 GTCACCGGTCAGAAGACTGTCGGTAAGTAACTGTCAATACAAGCATCTCCGTGAATTTTCTTTCA
*
57936645 TTTTGTAAATTATTTGGAATGGAGGATTTTTGTGAGTTTCGAGAATGTTTTCTAAACGAGTGTGT
131 TTTTGTAAATTATTTGGAACGGAGGATTTTTGTGAGTTTCGAGAATGTTTTCTAAACGAGTGTGT
57936710 ATTTACTTAGCAGGCATAGCTATTAACAGCAAGGAATAGCAAGAAGACAATCTTTGTGATTGTTG
196 ATTTACTTAGCAGGCATAGCTATTAACAGCAAGGAATAGCAAGAAGACAATCTTTGTGATTGTTG
*
57936775 CTGAAGTTTCGGTAAGTTTGTGACATCTGAAGGTTTCGTGTCGAAACTTTCGACGTGGGTATTAA
261 CTGAAGTTTCGGTAAGTTTGTGACATCTGAAGGTTTCATGTCGAAACTTTCGACGTGGGTATTAA
*
57936840 GTGAGTAATCGAGAAGTTTTGCTGATTAATTGGCTAAATTGTGTTACTGAATGCTTATTTTAGGC
326 GTGAGTAATCGAGAAGTTTTGCTGACTAATTGGCTAAATTGTGTTACTGAATGCTTATTTTAGGC
57936905 TTCGAGGATCTTTAGGGTTGTTGTCACTTCGAAATCTTTCCAGGTGCATATT
391 TTCGAGGATCTTTAGGGTTGTTGTCACTTCGAAATCTTTCCAGGTGCATATT
57936957 GGAAACCCTA
Statistics
Matches: 426, Mismatches: 15, Indels: 1
0.96 0.03 0.00
Matches are distributed among these distances:
459 344 0.81
460 82 0.19
ACGTcount: A:0.26, C:0.13, G:0.24, T:0.38
Consensus pattern (460 bp):
TTTAAATTTTTGCTGTTAACCAGAAATGGTGAGGGGATACGAGATTAACAGAAGTTCTTTTGTTA
GTCACCGGTCAGAAGACTGTCGGTAAGTAACTGTCAATACAAGCATCTCCGTGAATTTTCTTTCA
TTTTGTAAATTATTTGGAACGGAGGATTTTTGTGAGTTTCGAGAATGTTTTCTAAACGAGTGTGT
ATTTACTTAGCAGGCATAGCTATTAACAGCAAGGAATAGCAAGAAGACAATCTTTGTGATTGTTG
CTGAAGTTTCGGTAAGTTTGTGACATCTGAAGGTTTCATGTCGAAACTTTCGACGTGGGTATTAA
GTGAGTAATCGAGAAGTTTTGCTGACTAATTGGCTAAATTGTGTTACTGAATGCTTATTTTAGGC
TTCGAGGATCTTTAGGGTTGTTGTCACTTCGAAATCTTTCCAGGTGCATATTTTTTTTCCTTCCT
ATTTT
Found at i:57937302 original size:42 final size:42
Alignment explanation
Indices: 57937241--57937328 Score: 115
Period size: 42 Copynumber: 2.1 Consensus size: 42
57937231 TGCCCAGGCT
*
57937241 GTGTGAGTTACACAAGCAAGGAAAC-GACCGTGTGTCCAAGCC
1 GTGTGAGTCACACAAGCAAGGAAACTG-CCGTGTGTCCAAGCC
** **
57937283 GTGTGAGTCACACGGGCAAGGGCACTGCCGTGTGTCCAAGCC
1 GTGTGAGTCACACAAGCAAGGAAACTGCCGTGTGTCCAAGCC
57937325 GTGT
1 GTGT
57937329 AACTCCTTAT
Statistics
Matches: 40, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
42 39 0.98
43 1 0.03
ACGTcount: A:0.24, C:0.25, G:0.33, T:0.18
Consensus pattern (42 bp):
GTGTGAGTCACACAAGCAAGGAAACTGCCGTGTGTCCAAGCC
Found at i:57937427 original size:29 final size:29
Alignment explanation
Indices: 57937385--57937441 Score: 105
Period size: 29 Copynumber: 2.0 Consensus size: 29
57937375 GTGTGCACCA
57937385 GGCTGTGTGAGTCACACGGGCAAAGACAT
1 GGCTGTGTGAGTCACACGGGCAAAGACAT
*
57937414 GGCTGTGTGAGTCACACGGGCAAGGACA
1 GGCTGTGTGAGTCACACGGGCAAAGACA
57937442 CGACCGTGTG
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.26, C:0.21, G:0.37, T:0.16
Consensus pattern (29 bp):
GGCTGTGTGAGTCACACGGGCAAAGACAT
Found at i:57937450 original size:29 final size:29
Alignment explanation
Indices: 57937389--57937451 Score: 90
Period size: 29 Copynumber: 2.2 Consensus size: 29
57937379 GCACCAGGCT
* * *
57937389 GTGTGAGTCACACGGGCAAAGACATGGCT
1 GTGTGAGTCACACGGGCAAAGACACGACC
*
57937418 GTGTGAGTCACACGGGCAAGGACACGACC
1 GTGTGAGTCACACGGGCAAAGACACGACC
57937447 GTGTG
1 GTGTG
57937452 GCATCATAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.25, C:0.22, G:0.37, T:0.16
Consensus pattern (29 bp):
GTGTGAGTCACACGGGCAAAGACACGACC
Found at i:57938803 original size:75 final size:72
Alignment explanation
Indices: 57938680--57938822 Score: 164
Period size: 75 Copynumber: 1.9 Consensus size: 72
57938670 TGCAAAAGTA
* ** *
57938680 CATATATTATTTATAATAAACCCACGCATGCATACATATAATATAAAACCATTTTTTGATGCAAA
1 CATATATTATTTATAATAAACCCACACATGCATACATATAATATAAAACC-CCTTTTAATGCAAA
57938745 GATATGTT
65 GATATGTT
** *
57938753 CATATATTATTTATAATATAAACCTGCACATGCACT-CATTTAAT-TCAAAACCCCTTTTAATGC
1 CATATATTATTTAT-A-ATAAACCCACACATGCA-TACATATAATAT-AAAACCCCTTTTAATGC
57938816 AAAGATA
62 AAAGATA
57938823 CATGTATTGT
Statistics
Matches: 59, Mismatches: 7, Indels: 7
0.81 0.10 0.10
Matches are distributed among these distances:
73 14 0.24
74 17 0.29
75 27 0.46
76 1 0.02
ACGTcount: A:0.41, C:0.17, G:0.07, T:0.35
Consensus pattern (72 bp):
CATATATTATTTATAATAAACCCACACATGCATACATATAATATAAAACCCCTTTTAATGCAAAG
ATATGTT
Found at i:57939168 original size:20 final size:20
Alignment explanation
Indices: 57939139--57939182 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
57939129 TTAAAATATA
57939139 AAATTATTTTTT--AAATTTT
1 AAATT-TTTTTTAAAAATTTT
*
57939158 TAATTTTTTTTAAAAATTTT
1 AAATTTTTTTTAAAAATTTT
57939178 AAATT
1 AAATT
57939183 AGTAAAGATA
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
18 6 0.29
19 4 0.19
20 11 0.52
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (20 bp):
AAATTTTTTTTAAAAATTTT
Found at i:57939177 original size:19 final size:19
Alignment explanation
Indices: 57939140--57939179 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
57939130 TAAAATATAA
*
57939140 AATTATTTTTTAAATTTTT
1 AATTATTTTTTAAAATTTT
57939159 AATT-TTTTTTAAAAATTTT
1 AATTATTTTTT-AAAATTTT
57939178 AA
1 AA
57939180 ATTAGTAAAG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 6 0.32
19 13 0.68
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (19 bp):
AATTATTTTTTAAAATTTT
Found at i:57939570 original size:15 final size:15
Alignment explanation
Indices: 57939550--57939579 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
57939540 TTTAATCCTT
*
57939550 TATAAATTATAAAAA
1 TATAAACTATAAAAA
57939565 TATAAACTATAAAAA
1 TATAAACTATAAAAA
57939580 ATTAAAATTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.30
Consensus pattern (15 bp):
TATAAACTATAAAAA
Found at i:57941286 original size:23 final size:23
Alignment explanation
Indices: 57941243--57941289 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
57941233 AATGGCCTGT
57941243 TTTTTTTTTAATTAATGTTTTAGG
1 TTTTTTTTT-ATTAATGTTTTAGG
*
57941267 TTTTTTTTT-TTACATTTTTTAGG
1 TTTTTTTTTATTA-ATGTTTTAGG
57941290 GAAATAGATC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 3 0.14
23 9 0.43
24 9 0.43
ACGTcount: A:0.17, C:0.02, G:0.11, T:0.70
Consensus pattern (23 bp):
TTTTTTTTTATTAATGTTTTAGG
Found at i:57941520 original size:13 final size:13
Alignment explanation
Indices: 57941502--57941526 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
57941492 TTTTAAAAAA
57941502 TTTTTAATTAATT
1 TTTTTAATTAATT
57941515 TTTTTAATTAAT
1 TTTTTAATTAAT
57941527 AAGTATGCTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (13 bp):
TTTTTAATTAATT
Found at i:57942055 original size:108 final size:113
Alignment explanation
Indices: 57941925--57942150 Score: 272
Period size: 109 Copynumber: 2.1 Consensus size: 113
57941915 ATATTTTTTT
* * ** *
57941925 ATATATAATTTTTTATGTTAAATGCTTAT-TTTTTCCATGTACATTGT-GAGTATTGTAAATTCT
1 ATATATAATTTTATATGTTAAATACTTATATTTTTCCACCTACATTGTAG-GTATGGTAAATTCT
*
57941988 AATA-T-AAAAAATCAATTAATCATTTCAAATATCATTGATTTTAGTAA
65 AATATTAAAAAAATCAAATAATCATTTCAAATATCATTGATTTTAGTAA
* *
57942035 ATATA-AATTTTATATG-TAAATATTTATATTTTTCCACCTACATTGTAGGTATGGTAGATTCTA
1 ATATATAATTTTATATGTTAAATACTTATATTTTTCCACCTACATTGTAGGTATGGTAAATTCTA
* *
57942098 ATATTAAAAAAAATCAAATGATTATTTCAAATATCATT--TTTTATGTAA
66 ATATT-AAAAAAATCAAATAATCATTTCAAATATCATTGATTTTA-GTAA
57942146 A-ATAT
1 ATATAT
57942151 TTCAAATAAT
Statistics
Matches: 99, Mismatches: 10, Indels: 13
0.81 0.08 0.11
Matches are distributed among these distances:
108 9 0.09
109 42 0.42
110 15 0.15
111 5 0.05
112 28 0.28
ACGTcount: A:0.39, C:0.08, G:0.08, T:0.45
Consensus pattern (113 bp):
ATATATAATTTTATATGTTAAATACTTATATTTTTCCACCTACATTGTAGGTATGGTAAATTCTA
ATATTAAAAAAATCAAATAATCATTTCAAATATCATTGATTTTAGTAA
Found at i:57942060 original size:201 final size:205
Alignment explanation
Indices: 57941658--57942042 Score: 482
Period size: 201 Copynumber: 1.9 Consensus size: 205
57941648 TTTATATTAT
*
57941658 TCATTATGTTAAATATATTTTATTTTTTAAAAAAAAACATCAATTAATTTTTTTAGATTTTTATT
1 TCATTATGTTAAATATATTTTATTTTTT---AAAAAACATCAATCAATTTTTTTAGATTTTTATT
*
57941723 TATATATAATTTTTTATGTTAAATGTTTATTGTTTTCACCTACATTGTGAGTATCATAAATTCTA
63 TATATATAATTTTTTATGTTAAATGCTTATTGTTTTCACCTACATTGTGAGTATCATAAATTCTA
* * ** * * **
57941788 ATATTATAAAAGTAACAATTTCAAATATCATTTTTTTTCACTTATATCATGGATATAATAAAAAT
128 ATATAAAAAAAGTAACAATTTCAAATATCATTGATTTTCACGTAAATCATAAATATAATAAAAAT
57941853 ATATTTACATATA
193 ATATTTACATATA
* *
57941866 TCATTATGTTAAATATATTTTATTTTTT-AAAAACATCAA-CCATTTTTTTATA-TTTT-TTTAT
1 TCATTATGTTAAATATATTTTATTTTTTAAAAAACATCAATCAATTTTTTTAGATTTTTATTTAT
** **
57941927 ATATAATTTTTTATGTTAAATGCTTATT-TTTTCCATGTACATTGTGAGTATTGTAAATTCTAAT
66 ATATAATTTTTTATGTTAAATGCTTATTGTTTT-CACCTACATTGTGAGTATCATAAATTCTAAT
*
57941991 ATAAAAAATCAATTAATC-ATTTCAAATATCATTGATTTT-A-GTAAAT-ATAAAT
130 AT-AAAAA--AAGTAA-CAATTTCAAATATCATTGATTTTCACGTAAATCATAAAT
57942043 TTTATATGTA
Statistics
Matches: 155, Mismatches: 17, Indels: 17
0.82 0.09 0.09
Matches are distributed among these distances:
200 4 0.03
201 65 0.42
202 11 0.07
203 11 0.07
204 35 0.23
205 1 0.01
208 28 0.18
ACGTcount: A:0.38, C:0.08, G:0.05, T:0.49
Consensus pattern (205 bp):
TCATTATGTTAAATATATTTTATTTTTTAAAAAACATCAATCAATTTTTTTAGATTTTTATTTAT
ATATAATTTTTTATGTTAAATGCTTATTGTTTTCACCTACATTGTGAGTATCATAAATTCTAATA
TAAAAAAAGTAACAATTTCAAATATCATTGATTTTCACGTAAATCATAAATATAATAAAAATATA
TTTACATATA
Found at i:57942588 original size:12 final size:11
Alignment explanation
Indices: 57942561--57942592 Score: 55
Period size: 11 Copynumber: 2.8 Consensus size: 11
57942551 TAACATGTTT
57942561 ATTAATTAAAA
1 ATTAATTAAAA
57942572 ATTAATTAAAA
1 ATTAATTAAAA
57942583 ATTTAATTAA
1 A-TTAATTAA
57942593 GAAAAAGAGC
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 12 0.60
12 8 0.40
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (11 bp):
ATTAATTAAAA
Found at i:57954622 original size:23 final size:22
Alignment explanation
Indices: 57954596--57954648 Score: 61
Period size: 23 Copynumber: 2.3 Consensus size: 22
57954586 TAATTTGGTG
*
57954596 TAATTTAGTTTGGTTATTTTACT
1 TAATTTA-TTAGGTTATTTTACT
*
57954619 TAATTTCATTAGTTTATTTTACT
1 TAATTT-ATTAGGTTATTTTACT
*
57954642 TAGTTTA
1 TAATTTA
57954649 ATTTAATTTC
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
22 1 0.04
23 24 0.92
24 1 0.04
ACGTcount: A:0.25, C:0.06, G:0.09, T:0.60
Consensus pattern (22 bp):
TAATTTATTAGGTTATTTTACT
Found at i:57962361 original size:38 final size:38
Alignment explanation
Indices: 57962318--57962393 Score: 152
Period size: 38 Copynumber: 2.0 Consensus size: 38
57962308 TTCATCCTTT
57962318 TTCATTTCTTTTGGCCGAAAATTCTAAGGAAGGAGGAA
1 TTCATTTCTTTTGGCCGAAAATTCTAAGGAAGGAGGAA
57962356 TTCATTTCTTTTGGCCGAAAATTCTAAGGAAGGAGGAA
1 TTCATTTCTTTTGGCCGAAAATTCTAAGGAAGGAGGAA
57962394 GGAGTTCTTG
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.32, C:0.13, G:0.24, T:0.32
Consensus pattern (38 bp):
TTCATTTCTTTTGGCCGAAAATTCTAAGGAAGGAGGAA
Found at i:57974375 original size:57 final size:57
Alignment explanation
Indices: 57974273--57974436 Score: 240
Period size: 57 Copynumber: 2.9 Consensus size: 57
57974263 CGATATAATA
* ** *
57974273 CCTCTCGAGCATACGTTATGAT-TAGGATTTAGATTGGACTAGTAATCCTAATCGAGCT
1 CCTCT-GAGCATACGTTAT-ATAAAGGATTTAGCCTGGACTGGTAATCCTAATCGAGCT
* *
57974331 CCTCTGAGCATACGTTATATAAAGGAGTTAGCCTGGATTGGTAATCCTAATCGAGCT
1 CCTCTGAGCATACGTTATATAAAGGATTTAGCCTGGACTGGTAATCCTAATCGAGCT
*
57974388 CCTCTGAGCATACATTATATAAAGGATTTAGCCTGGACTGGTAATCCTA
1 CCTCTGAGCATACGTTATATAAAGGATTTAGCCTGGACTGGTAATCCTA
57974437 TTATACGATA
Statistics
Matches: 96, Mismatches: 9, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
56 2 0.02
57 89 0.93
58 5 0.05
ACGTcount: A:0.29, C:0.20, G:0.21, T:0.31
Consensus pattern (57 bp):
CCTCTGAGCATACGTTATATAAAGGATTTAGCCTGGACTGGTAATCCTAATCGAGCT
Found at i:57981610 original size:20 final size:21
Alignment explanation
Indices: 57981585--57981623 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
57981575 TCCTTAAAAC
57981585 AGGGC-ACACGCCCGTGTGGA
1 AGGGCAACACGCCCGTGTGGA
57981605 AGGGCAACACGCCCGTGTG
1 AGGGCAACACGCCCGTGTG
57981624 ACCAACTCGA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.21, C:0.31, G:0.38, T:0.10
Consensus pattern (21 bp):
AGGGCAACACGCCCGTGTGGA
Found at i:57982809 original size:47 final size:47
Alignment explanation
Indices: 57982738--57983000 Score: 225
Period size: 47 Copynumber: 5.6 Consensus size: 47
57982728 GTAAGGTGCT
*
57982738 GATGCCATGTCCCAGACATAGTCTTACACTGGCTCAT-ATCTC-AAGTC
1 GATGCCATGTCCCAGACAT-GTCTTACACTGGCT-ATCATCTCGAAGCC
* * *
57982785 GATGCCATGTCCTAGACATGGTCTTACACTGACTATCATCTCGTAGCC
1 GATGCCATGTCCCAGACAT-GTCTTACACTGGCTATCATCTCGAAGCC
* * *
57982833 GGTG-CATGTCCCAGACATGTCTTACACTGGCT-TACGTCTCGAGGCC
1 GATGCCATGTCCCAGACATGTCTTACACTGGCTAT-CATCTCGAAGCC
* * * * * **
57982879 GATG-CATGTCCTAGACATGTCTTACACTAGCTTTCGTCT-TAATGTT
1 GATGCCATGTCCCAGACATGTCTTACACTGGCTATCATCTCGAA-GCC
* * * ** ** *
57982925 GATGCCTTGTCCCAGACATGGTCTTACATTGGCTCTCATAACGTGGCT
1 GATGCCATGTCCCAGACAT-GTCTTACACTGGCTATCATCTCGAAGCC
57982973 GATG-CATGTCCCAGACATGTCTTACACT
1 GATGCCATGTCCCAGACATGTCTTACACT
57983001 AGCCAAATAA
Statistics
Matches: 176, Mismatches: 32, Indels: 17
0.78 0.14 0.08
Matches are distributed among these distances:
45 2 0.01
46 72 0.41
47 75 0.43
48 27 0.15
ACGTcount: A:0.22, C:0.28, G:0.20, T:0.30
Consensus pattern (47 bp):
GATGCCATGTCCCAGACATGTCTTACACTGGCTATCATCTCGAAGCC
Found at i:57985777 original size:49 final size:49
Alignment explanation
Indices: 57985669--57986056 Score: 594
Period size: 49 Copynumber: 8.1 Consensus size: 49
57985659 GAAATGATAG
57985669 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
*
57985716 TAAGGCCGAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
*
57985765 TAGGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
*
57985814 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTACATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
*
57985863 AAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
57985910 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
* * *
57985957 TAAGGCCTAACGGCCGAGGTGATGAATGTGGAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
* * * * * * *
57986006 CAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTATA-A-ATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
57986053 TAAG
1 TAAG
57986057 TCCCGAAGGG
Statistics
Matches: 315, Mismatches: 22, Indels: 8
0.91 0.06 0.02
Matches are distributed among these distances:
47 132 0.42
48 1 0.00
49 182 0.58
ACGTcount: A:0.32, C:0.09, G:0.31, T:0.28
Consensus pattern (49 bp):
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
Found at i:57985907 original size:25 final size:25
Alignment explanation
Indices: 57985879--57985957 Score: 65
Period size: 25 Copynumber: 3.3 Consensus size: 25
57985869 CTAATGGCCG
57985879 ATGTGATGAATGTGAAAGTGTATAT
1 ATGTGATGAATGTGAAAGTGTATAT
* *** ****
57985904 ATGTGAT-AAGGCCTAA-TG-GCCG
1 ATGTGATGAATGTGAAAGTGTATAT
57985926 ATGTGATGAATGTGAAAGTGTATAT
1 ATGTGATGAATGTGAAAGTGTATAT
57985951 ATGTGAT
1 ATGTGAT
57985958 AAGGCCTAAC
Statistics
Matches: 35, Mismatches: 16, Indels: 6
0.61 0.28 0.11
Matches are distributed among these distances:
22 7 0.20
23 7 0.20
24 7 0.20
25 14 0.40
ACGTcount: A:0.33, C:0.05, G:0.29, T:0.33
Consensus pattern (25 bp):
ATGTGATGAATGTGAAAGTGTATAT
Found at i:57985999 original size:96 final size:94
Alignment explanation
Indices: 57985669--57986056 Score: 578
Period size: 96 Copynumber: 4.0 Consensus size: 94
57985659 GAAATGATAG
57985669 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCGAT
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCGAT
57985734 GTGATGAATGTGAAAGTGTATATATATGTGA
66 GTGATGAATGTGAAAGTG--TATATATGTGA
* *
57985765 TAGGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCGAATGGCCG
57985830 ATGTGATGAATGTGAAAGTGTACATATATGTGA
64 ATGTGATGAATGTGAAAGTGT--ATATATGTGA
* *
57985863 AAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGAT
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCGAT
57985928 GTGATGAATGTGAAAGTGTATATATGTGA
66 GTGATGAATGTGAAAGTGTATATATGTGA
* * * * * * *
57985957 TAAGGCCTAACGGCCGAGGTGATGAATGTGGAAGTGTATATATATGTGACAGGGCCGAGTGGCCA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCGAATGGCCG
* * *
57986022 ACGTGATGGATGTGAAAGTGTATAAATGTGA
64 ATGTGATGAATGTGAAAGTGTATATATGTGA
57986053 TAAG
1 TAAG
57986057 TCCCGAAGGG
Statistics
Matches: 270, Mismatches: 16, Indels: 12
0.91 0.05 0.04
Matches are distributed among these distances:
94 42 0.16
96 138 0.51
98 90 0.33
ACGTcount: A:0.32, C:0.09, G:0.31, T:0.28
Consensus pattern (94 bp):
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCGAT
GTGATGAATGTGAAAGTGTATATATGTGA
Found at i:57986153 original size:37 final size:37
Alignment explanation
Indices: 57986097--57986175 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
57986087 CCGAGCTCTA
* * *
57986097 AAGACCCGATGACTACGTGTGAGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGAAGATTATGTCCGGGT
*
57986134 AAGACCCGATAACTTCGTGTGAAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGAAGATTATGTCCGGGT
57986171 AAGAC
1 AAGAC
57986176 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.27, C:0.19, G:0.29, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGAAGATTATGTCCGGGT
Found at i:57988038 original size:40 final size:40
Alignment explanation
Indices: 57987983--57988607 Score: 1106
Period size: 40 Copynumber: 15.6 Consensus size: 40
57987973 ATTCGAATGA
57987983 TATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATG
1 TATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATG
57988023 TATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATG
1 TATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATG
*
57988063 TATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGACG
1 TATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATG
*
57988103 TATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATA
1 TATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATG
57988143 TATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATG
1 TATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATG
57988183 TATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATG
1 TATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATG
57988223 TATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATG
1 TATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATG
57988263 TATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATG
1 TATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATG
*
57988303 TATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGCGATG
1 TATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATG
* *
57988343 TATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGCGATG
1 TATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATG
* *
57988383 TATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGACG
1 TATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATG
*
57988423 TATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATG
1 TATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATG
* *
57988463 TATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATA
1 TATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATG
* *
57988503 TATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGCGATG
1 TATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATG
* *
57988543 TATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATA
1 TATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATG
* *
57988583 TATCCGTGCTAAATCCCGAAGAGCA
1 TATCCGGGCTAAGTCCCGAAGAGCA
57988608 ATCATGCTGG
Statistics
Matches: 564, Mismatches: 21, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 564 1.00
ACGTcount: A:0.24, C:0.23, G:0.29, T:0.25
Consensus pattern (40 bp):
TATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATG
Found at i:57992342 original size:49 final size:49
Alignment explanation
Indices: 57992234--57992621 Score: 612
Period size: 49 Copynumber: 8.1 Consensus size: 49
57992224 GAAATGATAG
57992234 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
*
57992281 TAAGGCCGAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
*
57992330 TAGGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
*
57992379 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTACATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
57992428 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
57992475 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
* *
57992522 TAAGGCCTAATGGCCGAGGTGATGAATGTGGAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
* * * * * * *
57992571 CAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTATA-A-ATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
57992618 TAAG
1 TAAG
57992622 TCCCGAAGGG
Statistics
Matches: 319, Mismatches: 18, Indels: 8
0.92 0.05 0.02
Matches are distributed among these distances:
47 134 0.42
48 1 0.00
49 184 0.58
ACGTcount: A:0.32, C:0.09, G:0.31, T:0.28
Consensus pattern (49 bp):
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
Found at i:57992564 original size:96 final size:94
Alignment explanation
Indices: 57992234--57992621 Score: 596
Period size: 96 Copynumber: 4.0 Consensus size: 94
57992224 GAAATGATAG
57992234 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCGAT
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCGAT
57992299 GTGATGAATGTGAAAGTGTATATATATGTGA
66 GTGATGAATGTGAAAGTG--TATATATGTGA
* *
57992330 TAGGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCGAATGGCCG
57992395 ATGTGATGAATGTGAAAGTGTACATATATGTGA
64 ATGTGATGAATGTGAAAGTGT--ATATATGTGA
*
57992428 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGAT
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCGAT
57992493 GTGATGAATGTGAAAGTGTATATATGTGA
66 GTGATGAATGTGAAAGTGTATATATGTGA
* * * * * *
57992522 TAAGGCCTAATGGCCGAGGTGATGAATGTGGAAGTGTATATATATGTGACAGGGCCGAGTGGCCA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCGAATGGCCG
* * *
57992587 ACGTGATGGATGTGAAAGTGTATAAATGTGA
64 ATGTGATGAATGTGAAAGTGTATATATGTGA
57992618 TAAG
1 TAAG
57992622 TCCCGAAGGG
Statistics
Matches: 273, Mismatches: 13, Indels: 12
0.92 0.04 0.04
Matches are distributed among these distances:
94 44 0.16
96 138 0.51
98 91 0.33
ACGTcount: A:0.32, C:0.09, G:0.31, T:0.28
Consensus pattern (94 bp):
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCGAT
GTGATGAATGTGAAAGTGTATATATGTGA
Found at i:57992718 original size:37 final size:37
Alignment explanation
Indices: 57992662--57992740 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
57992652 CCGAGCTCTA
* * *
57992662 AAGACCCGATGACTACGTGTGAGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGAAGATTATGTCCGGGT
*
57992699 AAGACCCGATAACTTCGTGTGAAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGAAGATTATGTCCGGGT
57992736 AAGAC
1 AAGAC
57992741 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.27, C:0.19, G:0.29, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGAAGATTATGTCCGGGT
Found at i:57999114 original size:15 final size:15
Alignment explanation
Indices: 57999094--57999124 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
57999084 ATAAGCTCAA
57999094 AAAATTTACTATCAT
1 AAAATTTACTATCAT
57999109 AAAATTTACTATCAT
1 AAAATTTACTATCAT
57999124 A
1 A
57999125 TCCAAAAGGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.48, C:0.13, G:0.00, T:0.39
Consensus pattern (15 bp):
AAAATTTACTATCAT
Found at i:58001459 original size:18 final size:21
Alignment explanation
Indices: 58001436--58001476 Score: 61
Period size: 18 Copynumber: 2.1 Consensus size: 21
58001426 AACAACATAC
58001436 AATAAT-GTTG-ACAAAT-AT
1 AATAATAGTTGAACAAATCAT
58001454 AATAATAGTTGAACAAATCAT
1 AATAATAGTTGAACAAATCAT
58001475 AA
1 AA
58001477 ACCATAAACA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
18 6 0.30
19 4 0.20
20 6 0.30
21 4 0.20
ACGTcount: A:0.54, C:0.07, G:0.10, T:0.29
Consensus pattern (21 bp):
AATAATAGTTGAACAAATCAT
Found at i:58001471 original size:20 final size:19
Alignment explanation
Indices: 58001426--58001476 Score: 59
Period size: 18 Copynumber: 2.6 Consensus size: 19
58001416 TTTATCCCAA
*
58001426 AACAACATACAATAATGTTG
1 AACAA-ATATAATAATGTTG
58001446 -ACAAATATAATAATAGTTG
1 AACAAATATAATAAT-GTTG
58001465 AACAAATCATAA
1 AACAAAT-ATAA
58001477 ACCATAAACA
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
18 9 0.33
19 8 0.30
20 6 0.22
21 4 0.15
ACGTcount: A:0.55, C:0.12, G:0.08, T:0.25
Consensus pattern (19 bp):
AACAAATATAATAATGTTG
Found at i:58002939 original size:19 final size:19
Alignment explanation
Indices: 58002915--58002954 Score: 71
Period size: 19 Copynumber: 2.1 Consensus size: 19
58002905 ACTTACATAA
*
58002915 AATAATTATAAAAGAAGCC
1 AATAATTATAAAAGAAACC
58002934 AATAATTATAAAAGAAACC
1 AATAATTATAAAAGAAACC
58002953 AA
1 AA
58002955 AAGTAATCAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.62, C:0.10, G:0.07, T:0.20
Consensus pattern (19 bp):
AATAATTATAAAAGAAACC
Found at i:58003499 original size:27 final size:24
Alignment explanation
Indices: 58003433--58003500 Score: 61
Period size: 23 Copynumber: 2.8 Consensus size: 24
58003423 CATAATATAT
*
58003433 AATT-AAAAT-ATCAAATCCATAA
1 AATTAAAAATAATCAAATCAATAA
* *
58003455 AATTAAAAA-AAACGAATCAATCCAA
1 AATTAAAAATAATCAAATCAAT--AA
58003480 AATTAATAAATAATCAAATCA
1 AATTAA-AAATAATCAAATCA
58003501 TTCTCAATAA
Statistics
Matches: 35, Mismatches: 5, Indels: 7
0.74 0.11 0.15
Matches are distributed among these distances:
22 4 0.11
23 12 0.34
25 8 0.23
26 3 0.09
27 8 0.23
ACGTcount: A:0.62, C:0.13, G:0.01, T:0.24
Consensus pattern (24 bp):
AATTAAAAATAATCAAATCAATAA
Found at i:58005712 original size:46 final size:46
Alignment explanation
Indices: 58005645--58005736 Score: 166
Period size: 46 Copynumber: 2.0 Consensus size: 46
58005635 CTGTTATTTT
58005645 CTTATTCATTACTTAATCGAGTCGAAATCCTAACAATGGGGTTCAA
1 CTTATTCATTACTTAATCGAGTCGAAATCCTAACAATGGGGTTCAA
* *
58005691 CTTATTCGTTATTTAATCGAGTCGAAATCCTAACAATGGGGTTCAA
1 CTTATTCATTACTTAATCGAGTCGAAATCCTAACAATGGGGTTCAA
58005737 GAATATTTTT
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
46 44 1.00
ACGTcount: A:0.32, C:0.18, G:0.16, T:0.34
Consensus pattern (46 bp):
CTTATTCATTACTTAATCGAGTCGAAATCCTAACAATGGGGTTCAA
Found at i:58008923 original size:2 final size:2
Alignment explanation
Indices: 58008916--58008954 Score: 62
Period size: 2 Copynumber: 20.0 Consensus size: 2
58008906 ATATGACAAT
*
58008916 GA GA GA GA GA GA GA GA GA GA GA GA GA GT GA GA G- GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
58008955 AGAACAGGGT
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
1 1 0.03
2 33 0.97
ACGTcount: A:0.46, C:0.00, G:0.51, T:0.03
Consensus pattern (2 bp):
GA
Found at i:58010964 original size:21 final size:22
Alignment explanation
Indices: 58010924--58010970 Score: 69
Period size: 21 Copynumber: 2.2 Consensus size: 22
58010914 CTCTGCTCAA
*
58010924 ACTCCACCTGCTGCGGAGTAC-
1 ACTCCACCTGCTGCGAAGTACT
*
58010945 ACTCCACCTGCTGTGAAGTACT
1 ACTCCACCTGCTGCGAAGTACT
58010967 ACTC
1 ACTC
58010971 ACTCCTTCTG
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 19 0.83
22 4 0.17
ACGTcount: A:0.21, C:0.36, G:0.19, T:0.23
Consensus pattern (22 bp):
ACTCCACCTGCTGCGAAGTACT
Found at i:58015498 original size:31 final size:31
Alignment explanation
Indices: 58015460--58015525 Score: 132
Period size: 31 Copynumber: 2.1 Consensus size: 31
58015450 GAACTCTTTG
58015460 GAAAAGTTATTATGGAAGTAAAAGAATGGGT
1 GAAAAGTTATTATGGAAGTAAAAGAATGGGT
58015491 GAAAAGTTATTATGGAAGTAAAAGAATGGGT
1 GAAAAGTTATTATGGAAGTAAAAGAATGGGT
58015522 GAAA
1 GAAA
58015526 TGGAAGTAAC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 35 1.00
ACGTcount: A:0.47, C:0.00, G:0.29, T:0.24
Consensus pattern (31 bp):
GAAAAGTTATTATGGAAGTAAAAGAATGGGT
Found at i:58022974 original size:62 final size:63
Alignment explanation
Indices: 58022897--58023024 Score: 204
Period size: 63 Copynumber: 2.0 Consensus size: 63
58022887 ATCACCAGCG
* * * *
58022897 TTTAGAAGAGAAAAATAAAAGAAACAAGT-GACAAATACTATTCCTAGACAACTTGGCTTGAA
1 TTTAGAAAAGAAAAATAAAAGAAACAAGTGGAAAAATACTATTCCTAGACAACTCGACTTGAA
*
58022959 TTTAGAAAAGAAAAATAAAAGAAACAAGTGGAAAAATACTATTCCTAGACATCTCGACTTGAA
1 TTTAGAAAAGAAAAATAAAAGAAACAAGTGGAAAAATACTATTCCTAGACAACTCGACTTGAA
58023022 TTT
1 TTT
58023025 GTCTATTCCT
Statistics
Matches: 60, Mismatches: 5, Indels: 1
0.91 0.08 0.02
Matches are distributed among these distances:
62 28 0.47
63 32 0.53
ACGTcount: A:0.48, C:0.12, G:0.15, T:0.24
Consensus pattern (63 bp):
TTTAGAAAAGAAAAATAAAAGAAACAAGTGGAAAAATACTATTCCTAGACAACTCGACTTGAA
Found at i:58026425 original size:22 final size:22
Alignment explanation
Indices: 58026399--58026443 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
58026389 ATTATGTGTA
58026399 TTAATTCATAATATAA-TTAATT
1 TTAATT-ATAATATAATTTAATT
* *
58026421 TTAATTTTCATATAATTTAATT
1 TTAATTATAATATAATTTAATT
58026443 T
1 T
58026444 GGGTTAAATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 7 0.35
22 13 0.65
ACGTcount: A:0.40, C:0.04, G:0.00, T:0.56
Consensus pattern (22 bp):
TTAATTATAATATAATTTAATT
Found at i:58028227 original size:21 final size:21
Alignment explanation
Indices: 58028203--58028247 Score: 81
Period size: 21 Copynumber: 2.1 Consensus size: 21
58028193 CGAAGATATG
58028203 AATTTTGAAAATCCAAACCAA
1 AATTTTGAAAATCCAAACCAA
*
58028224 AATTTTGAAAATCTAAACCAA
1 AATTTTGAAAATCCAAACCAA
58028245 AAT
1 AAT
58028248 CTAGAAGGAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.53, C:0.16, G:0.04, T:0.27
Consensus pattern (21 bp):
AATTTTGAAAATCCAAACCAA
Found at i:58030062 original size:30 final size:30
Alignment explanation
Indices: 58030026--58030083 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
58030016 CTTTACGAGC
* *
58030026 TTAGGGGCAAAAGTGTAATTTTGACAAAGT
1 TTAGGGGCAAAAATATAATTTTGACAAAGT
* *
58030056 TTAGGGGTAAAAATATAATTTTGCCAAA
1 TTAGGGGCAAAAATATAATTTTGACAAA
58030084 ATGTGATTTT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.40, C:0.07, G:0.22, T:0.31
Consensus pattern (30 bp):
TTAGGGGCAAAAATATAATTTTGACAAAGT
Found at i:58031810 original size:93 final size:93
Alignment explanation
Indices: 58031699--58031869 Score: 279
Period size: 93 Copynumber: 1.8 Consensus size: 93
58031689 GCCCCTAAGT
* * * * *
58031699 GAACTCGGACTCAGCTCAATGAGCTCGGGCGTTCGCAGCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCACAGCCATAAGTGAACTCGGACTCAACTCAA
58031764 CGAGTTCGGATGCCTAGTTACATTTCAC
66 CGAGTTCGGATGCCTAGTTACATTTCAC
* *
58031792 GAACTCGGACTCAACTCAACGAGTTCGGACATTCACATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCACAGCCATAAGTGAACTCGGACTCAACTCAA
58031857 CGAGTTCGGATGC
66 CGAGTTCGGATGC
58031870 TCAACCATCC
Statistics
Matches: 71, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.28, C:0.28, G:0.22, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCACAGCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATTTCAC
Found at i:58031859 original size:46 final size:46
Alignment explanation
Indices: 58031694--58031866 Score: 183
Period size: 46 Copynumber: 3.7 Consensus size: 46
58031684 AACCCGCCCC
* * * * * * *
58031694 TAAGTGAACTCGGACTCAGCTCAATGAGCTCGGGCGTTCGCAGCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCACATCCA
*
58031740 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT--T
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCACATCCA
* *
58031788 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCACATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCACATCCA
58031833 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
58031867 TGCTCAACCA
Statistics
Matches: 105, Mismatches: 13, Indels: 18
0.77 0.10 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
44 1 0.01
45 2 0.02
46 59 0.56
47 29 0.28
48 2 0.02
49 1 0.01
50 2 0.02
51 2 0.02
ACGTcount: A:0.29, C:0.27, G:0.22, T:0.22
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCACATCCA
Found at i:58032323 original size:30 final size:30
Alignment explanation
Indices: 58032289--58032348 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
58032279 ATTTAATACG
58032289 AACTTTGGAAAAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
* * *
58032319 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
58032349 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.30, C:0.25, G:0.08, T:0.37
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCCTA
Found at i:58041856 original size:40 final size:40
Alignment explanation
Indices: 58041801--58042022 Score: 322
Period size: 40 Copynumber: 5.6 Consensus size: 40
58041791 TATTCGAATG
* *
58041801 ATATCCGGGTTAAGTCCCGAAGGCATTTATGCTAGTGATT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGATT
*
58041841 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGATT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGATT
58041881 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGATT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGATT
* * * *
58041921 ATATCCGGGCTAAGTCCCAAAGGCTTTTGTGCTATTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGATT
* * *
58041961 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAG-TGATT
*
58042001 ATATCC-GGCTAAATCCCGAAGG
1 ATATCCGGGCTAAGTCCCGAAGG
58042023 TACTTGGGTT
Statistics
Matches: 166, Mismatches: 15, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
39 14 0.08
40 150 0.90
41 2 0.01
ACGTcount: A:0.24, C:0.21, G:0.26, T:0.29
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGATT
Found at i:58049369 original size:30 final size:30
Alignment explanation
Indices: 58049335--58049394 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
58049325 ATTTCATACG
58049335 AACTTTGGAAAAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
* * * *
58049365 AACTTTTGCATAATTACACTTTTTCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
58049395 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.30, C:0.25, G:0.07, T:0.38
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCCTA
Found at i:58050659 original size:50 final size:50
Alignment explanation
Indices: 58050589--58051140 Score: 583
Period size: 50 Copynumber: 11.0 Consensus size: 50
58050579 TAAAATGGTT
*
58050589 TTAGGTCACGTGTGTAGTACTAAGTGCAGTCTACTACGTGTACCAGATAG
1 TTAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAG
* * * * * * *
58050639 TTAGGTCGCATGTGTAGTACTAAGTGCAAGCTACTATGCGTACTC-GAAAAC
1 TTAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTAC-CAG-ATAG
* * * *
58050690 TTCA-ATCACGTGTGTAGTACTAAGTGCACGCTACTACGTGTATCAGATGG
1 TT-AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAG
* *
58050740 TTAGGTCACGTGTGTAGTACTAAGTGCACGCTACTATGTGTACCAGATAG
1 TTAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAG
* * * * * * * *
58050790 TTAGGTCGCATGTGTAGTACTAAGTGCTGGCTACTATGCGTACCCGAAAAC
1 TTAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAG-ATAG
* * * *
58050841 TTCA-ATCACGTGTGTAGTACTAAGTGTAGGCTACTACGTGTATCAGATGG
1 TT-AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAG
*
58050891 TTAAGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAG
1 TTAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAG
* * * * * * *
58050941 TTAGGTCGCATGTGTAGTACTAAGTGCACGCTACTATGCGTACCAGACAAC
1 TTAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGA-TAG
* * * * * *
58050992 TTCA-ATCACATGTGTAGTACTAAGTGTAGGTTACTACGTGTATCAGATGG
1 TT-AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAG
* *
58051042 TTAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGAT-T
1 TTAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAG
* * * * *
58051091 TTTGGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAG
1 TTAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAG
58051141 CTTCGATTAC
Statistics
Matches: 411, Mismatches: 79, Indels: 24
0.80 0.15 0.05
Matches are distributed among these distances:
49 45 0.11
50 250 0.61
51 113 0.27
52 3 0.01
ACGTcount: A:0.26, C:0.19, G:0.26, T:0.30
Consensus pattern (50 bp):
TTAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAG
Found at i:58050725 original size:101 final size:99
Alignment explanation
Indices: 58050594--58051140 Score: 567
Period size: 101 Copynumber: 5.5 Consensus size: 99
58050584 TGGTTTTAGG
* * *
58050594 TCACGTGTGTAGTACTAAGTGCAGTCTACTACGTGTACCAGATAGTTAGGTCGCATGTGTAGTAC
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTTAGGTCACGTGTGTAGTAC
*
58050659 TAAGTGCAAGCTACTATGCGTACTC-GAAAACTTCAA
66 TAAGTGCACGCTACTATGCGTAC-CAG-AAACTT-AA
* * *
58050695 TCACGTGTGTAGTACTAAGTGCACGCTACTACGTGTATCAGATGGTTAGGTCACGTGTGTAGTAC
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTTAGGTCACGTGTGTAGTAC
* * * *
58050760 TAAGTGCACGCTACTATGTGTACCAGATAGTTAGG
66 TAAGTGCACGCTACTATGCGTACCAGAAACTTA-A
* * * * * * * * *
58050795 TCGCATGTGTAGTACTAAGTGCTGGCTACTATGCGTACCCGAAAACTTCA-ATCACGTGTGTAGT
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAG-ATAGTT-AGGTCACGTGTGTAGT
* * * * * ***
58050859 ACTAAGTGTAGGCTACTACGTGTATCAGATGGTTAA
64 ACTAAGTGCACGCTACTATGCGTACCAGAAACTTAA
* *
58050895 GTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTTAGGTCGCATGTGTAGTA
1 -TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTTAGGTCACGTGTGTAGTA
58050960 CTAAGTGCACGCTACTATGCGTACCAGACAACTTCAA
65 CTAAGTGCACGCTACTATGCGTACCAGA-AACTT-AA
* * * * *
58050997 TCACATGTGTAGTACTAAGTGTAGGTTACTACGTGTATCAGATGGTTAGGTCACGTGTGTAGTAC
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTTAGGTCACGTGTGTAGTAC
* * * * *** **
58051062 TAAGTGCAGGCTACTACGTGTACCGGATTTTTGG
66 TAAGTGCACGCTACTATGCGTACCAGAAACTTAA
* * * *
58051096 TCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAG
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAG
58051141 CTTCGATTAC
Statistics
Matches: 367, Mismatches: 71, Indels: 18
0.80 0.16 0.04
Matches are distributed among these distances:
99 40 0.11
100 79 0.22
101 245 0.67
102 3 0.01
ACGTcount: A:0.26, C:0.19, G:0.25, T:0.29
Consensus pattern (99 bp):
TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTTAGGTCACGTGTGTAGTAC
TAAGTGCACGCTACTATGCGTACCAGAAACTTAA
Found at i:58050825 original size:151 final size:150
Alignment explanation
Indices: 58050589--58051134 Score: 923
Period size: 151 Copynumber: 3.6 Consensus size: 150
58050579 TAAAATGGTT
*
58050589 TTAGGTCACGTGTGTAGTACTAAGTGCAGTCTACTACGTGTACCAGATAGTTAGGTCGCATGTGT
1 TTAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTTAGGTCGCATGTGT
* * *
58050654 AGTACTAAGTGCAAGCTACTATGCGTACTCGAAAACTTCAATCACGTGTGTAGTACTAAGTGCAC
66 AGTACTAAGTGCAGGCTACTATGCGTAC-CGAAAACTTCAATCACGTGTGTAGTACTAAGTGTAG
58050719 GCTACTACGTGTATCAGATGG
130 GCTACTACGTGTATCAGATGG
* *
58050740 TTAGGTCACGTGTGTAGTACTAAGTGCACGCTACTATGTGTACCAGATAGTTAGGTCGCATGTGT
1 TTAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTTAGGTCGCATGTGT
*
58050805 AGTACTAAGTGCTGGCTACTATGCGTACCCGAAAACTTCAATCACGTGTGTAGTACTAAGTGTAG
66 AGTACTAAGTGCAGGCTACTATGCGTA-CCGAAAACTTCAATCACGTGTGTAGTACTAAGTGTAG
58050870 GCTACTACGTGTATCAGATGG
130 GCTACTACGTGTATCAGATGG
*
58050891 TTAAGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTTAGGTCGCATGTGT
1 TTAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTTAGGTCGCATGTGT
* * *
58050956 AGTACTAAGTGCACGCTACTATGCGTACCAGACAACTTCAATCACATGTGTAGTACTAAGTGTAG
66 AGTACTAAGTGCAGGCTACTATGCGTACC-GAAAACTTCAATCACGTGTGTAGTACTAAGTGTAG
*
58051021 GTTACTACGTGTATCAGATGG
130 GCTACTACGTGTATCAGATGG
* * *
58051042 TTAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGAT-TTTTGGTCGCATGTGT
1 TTAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTTAGGTCGCATGTGT
58051106 AGTACTAAGTGCAGGCTACTATGCGTACC
66 AGTACTAAGTGCAGGCTACTATGCGTACC
58051135 AGATAGCTTC
Statistics
Matches: 373, Mismatches: 20, Indels: 5
0.94 0.05 0.01
Matches are distributed among these distances:
150 44 0.12
151 328 0.88
152 1 0.00
ACGTcount: A:0.26, C:0.19, G:0.25, T:0.30
Consensus pattern (150 bp):
TTAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTTAGGTCGCATGTGT
AGTACTAAGTGCAGGCTACTATGCGTACCGAAAACTTCAATCACGTGTGTAGTACTAAGTGTAGG
CTACTACGTGTATCAGATGG
Found at i:58055436 original size:27 final size:27
Alignment explanation
Indices: 58055388--58055448 Score: 68
Period size: 27 Copynumber: 2.3 Consensus size: 27
58055378 GCGAGGCTAC
* *
58055388 CAGATATTGTGACGAAGTCACCAGATA
1 CAGATATTGTGACGAAGCCACCAGAAA
* * *
58055415 CAGATATTGTGGCTAGGCCACCAGAAA
1 CAGATATTGTGACGAAGCCACCAGAAA
*
58055442 AAGATAT
1 CAGATAT
58055449 ATATATGTGG
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.38, C:0.18, G:0.23, T:0.21
Consensus pattern (27 bp):
CAGATATTGTGACGAAGCCACCAGAAA
Done.