Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A01
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: 104050246
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 4660000 characters in sequence are not A, C, G, or T
File 186 of 316
Found at i:59882719 original size:57 final size:58
Alignment explanation
Indices: 59882584--59882724 Score: 171
Period size: 58 Copynumber: 2.4 Consensus size: 58
59882574 ATAAGGTGAT
* * * * **
59882584 TTGGGCCTAATGGGCCATATAAAGGTGATTTGGGCCTAATGGGCCATATGAATATGAA
1 TTGGGCCTGATGGGCCATATGAATGTGAATTGGGCCTAACAGGCCATATGAATATGAA
*
59882642 TTGGGCCTGATGGGCCATATGAATGTGAATTGGGCCTGACAGGCCATAT-AA-ATGAGA
1 TTGGGCCTGATGGGCCATATGAATGTGAATTGGGCCTAACAGGCCATATGAATATGA-A
*
59882699 TTGGGCCGTG-TGGGCCATATGCATGT
1 TTGGGCC-TGATGGGCCATATGAATGT
59882725 ATGTAGGGGT
Statistics
Matches: 73, Mismatches: 8, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
56 4 0.05
57 25 0.34
58 44 0.60
ACGTcount: A:0.26, C:0.16, G:0.32, T:0.27
Consensus pattern (58 bp):
TTGGGCCTGATGGGCCATATGAATGTGAATTGGGCCTAACAGGCCATATGAATATGAA
Found at i:59888028 original size:43 final size:44
Alignment explanation
Indices: 59887975--59888137 Score: 183
Period size: 43 Copynumber: 3.8 Consensus size: 44
59887965 AACAAGACGT
* *
59887975 GATTATGTGTAAGACCATGTTTGGGACATTGGCATCATAT-TAC
1 GATTACGTGTAAGACCATGTCTGGGACATTGGCATCATATATAC
* *
59888018 GATTACGTGTAAGACCATGTCTGGGACATTGGCATCGT-TATAT
1 GATTACGTGTAAGACCATGTCTGGGACATTGGCATCATATATAC
* * *
59888061 GATTTCGTGTAAGACCATGTCTGGGACACTGGCATCGATATGT--
1 GATTACGTGTAAGACCATGTCTGGGACATTGGCATC-ATATATAC
* * * *
59888104 GATAACATGTAAGACCATATCTGGGATA-TGGCAT
1 GATTACGTGTAAGACCATGTCTGGGACATTGGCAT
59888138 TGTACGAGCT
Statistics
Matches: 104, Mismatches: 13, Indels: 7
0.84 0.10 0.06
Matches are distributed among these distances:
42 7 0.07
43 94 0.90
44 1 0.01
45 2 0.02
ACGTcount: A:0.28, C:0.16, G:0.25, T:0.31
Consensus pattern (44 bp):
GATTACGTGTAAGACCATGTCTGGGACATTGGCATCATATATAC
Found at i:59888119 original size:86 final size:84
Alignment explanation
Indices: 59887981--59888137 Score: 217
Period size: 86 Copynumber: 1.8 Consensus size: 84
59887971 ACGTGATTAT
* * * * *
59887981 GTGTAAGACCATGTTTGGGACATTGGCATCATATTACGATTACGTGTAAGACCATGTCTGGGACA
1 GTGTAAGACCATGTCTGGGACACTGGCATCATATTA-GATAACATGTAAGACCATATCTGGGACA
59888046 TTGGCATCGTTATATGATTTC
65 -TGGCATCGTTATATGATTTC
*
59888067 GTGTAAGACCATGTCTGGGACACTGGCATCGATATGT-GATAACATGTAAGACCATATCTGGGAT
1 GTGTAAGACCATGTCTGGGACACTGGCATC-ATAT-TAGATAACATGTAAGACCATATCTGGGAC
59888131 ATGGCAT
64 ATGGCAT
59888138 TGTACGAGCT
Statistics
Matches: 63, Mismatches: 6, Indels: 5
0.85 0.08 0.07
Matches are distributed among these distances:
85 6 0.10
86 52 0.83
87 4 0.06
88 1 0.02
ACGTcount: A:0.27, C:0.17, G:0.25, T:0.31
Consensus pattern (84 bp):
GTGTAAGACCATGTCTGGGACACTGGCATCATATTAGATAACATGTAAGACCATATCTGGGACAT
GGCATCGTTATATGATTTC
Found at i:59889644 original size:23 final size:24
Alignment explanation
Indices: 59889603--59889647 Score: 65
Period size: 23 Copynumber: 1.9 Consensus size: 24
59889593 TTTGCTCTTC
* *
59889603 TAGCATGAACTTGTTTTACCTTTT
1 TAGCATGAACTCGTCTTACCTTTT
59889627 TAGCAT-AACTCGTCTTACCTT
1 TAGCATGAACTCGTCTTACCTT
59889648 ACCTTACCTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 13 0.68
24 6 0.32
ACGTcount: A:0.22, C:0.22, G:0.11, T:0.44
Consensus pattern (24 bp):
TAGCATGAACTCGTCTTACCTTTT
Found at i:59889844 original size:53 final size:53
Alignment explanation
Indices: 59889716--59889970 Score: 250
Period size: 55 Copynumber: 4.8 Consensus size: 53
59889706 ACGCAAGTAC
* * * * *
59889716 CTTACCATTTCCATGACTTGTCATGGTCTTACGTGGTATCCTT---TT-GAAA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTAGAAA
* * * *
59889765 CTTACCACTACCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATAAA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTAGAAA
* * * *
59889818 CTCACCAATGCCATGCCTTGGCATGGTCTTACATGGGA-CCTTTGCCTTATAATAA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCC-TTGCCTTA-GA-AA
* * * *
59889873 CTTATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTAGAAA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTAGAAA
* * *
59889926 CCTTACCAATTTCCATGCCTTGGCATGGTCTTACACGGTATCCTT
1 -CTTACCAA-TGCCATGCCTTGACATGGTCTTACATGGTATCCTT
59889971 AAACCCTAAT
Statistics
Matches: 168, Mismatches: 28, Indels: 14
0.80 0.13 0.07
Matches are distributed among these distances:
49 38 0.23
52 4 0.02
53 45 0.27
54 9 0.05
55 70 0.42
56 2 0.01
ACGTcount: A:0.22, C:0.26, G:0.16, T:0.36
Consensus pattern (53 bp):
CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTAGAAA
Found at i:59895763 original size:43 final size:43
Alignment explanation
Indices: 59895672--59895862 Score: 121
Period size: 43 Copynumber: 4.6 Consensus size: 43
59895662 AGGGCTTCGG
* * ***
59895672 GCCTAGTAGGCTATAATGCCGGTGAGATAATATCAGGCTTTTG
1 GCCTAGCAGGCTATAATGCCGGTGAAATAATATCAGGCTTCAA
*
59895715 GCCTAGCAGGCTATAATGCCGGTGAAATGATATC-GGTCTTCAA
1 GCCTAGCAGGCTATAATGCCGGTGAAATAATATCAGG-CTTCAA
* * * * * *
59895758 TCCTAGCAGGCGA-AATGCCAGTG-AATGAGT-TCAGACTTAAA
1 GCCTAGCAGGCTATAATGCCGGTGAAAT-AATATCAGGCTTCAA
* ** * * *
59895799 GTCTAGCAGGCT-TCGTGCCGGTG--ATGAAT-TCGGGTTTAAA
1 GCCTAGCAGGCTATAATGCCGGTGAAAT-AATATCAGGCTTCAA
*
59895839 ACCTAGCAGGCTA-AATGCCGGTGA
1 GCCTAGCAGGCTATAATGCCGGTGA
59895863 TTTGATAAAA
Statistics
Matches: 115, Mismatches: 27, Indels: 14
0.74 0.17 0.09
Matches are distributed among these distances:
40 31 0.27
41 26 0.23
42 13 0.11
43 45 0.39
ACGTcount: A:0.27, C:0.19, G:0.28, T:0.26
Consensus pattern (43 bp):
GCCTAGCAGGCTATAATGCCGGTGAAATAATATCAGGCTTCAA
Found at i:59895863 original size:40 final size:40
Alignment explanation
Indices: 59895716--59895862 Score: 118
Period size: 40 Copynumber: 3.6 Consensus size: 40
59895706 AGGCTTTTGG
* *
59895716 CCTAGCAGGCTATAATGCCGGTGAAATG-ATATCGGTCTTCAAT
1 CCTAGCAGGCTA-AATGCCGGTG-AATGAAT-TCGGT-TTAAAA
* * * ** *
59895759 CCTAGCAGGCGAAATGCCAGTGAATGAGTTCAGACTTAAAG
1 CCTAGCAGGCTAAATGCCGGTGAATGAATTC-GGTTTAAAA
* ***
59895800 TCTAGCAGGCTTCGTGCCGGTG-ATGAATTCGGGTTTAAAA
1 CCTAGCAGGCTAAATGCCGGTGAATGAATTC-GGTTTAAAA
59895840 CCTAGCAGGCTAAATGCCGGTGA
1 CCTAGCAGGCTAAATGCCGGTGA
59895863 TTTGATAAAA
Statistics
Matches: 79, Mismatches: 22, Indels: 8
0.72 0.20 0.07
Matches are distributed among these distances:
40 31 0.39
41 26 0.33
42 11 0.14
43 11 0.14
ACGTcount: A:0.28, C:0.20, G:0.27, T:0.24
Consensus pattern (40 bp):
CCTAGCAGGCTAAATGCCGGTGAATGAATTCGGTTTAAAA
Found at i:59900130 original size:51 final size:51
Alignment explanation
Indices: 59900053--59900257 Score: 286
Period size: 51 Copynumber: 4.0 Consensus size: 51
59900043 CGGATACACG
* * * * *
59900053 GTGGCCTTAACATAGTGCTACCCTTGTAG-CCAAAGCTATTTTATTCACAAA
1 GTGGCCTTCACATAGTACCACACTTGT-GTCCAAAGCTATTATATTCACAAA
* * * *
59900104 ATGGCCTTCACATAGTACAACGCTTGTGTCCAAAGCTATTTTATTCACAAA
1 GTGGCCTTCACATAGTACCACACTTGTGTCCAAAGCTATTATATTCACAAA
*
59900155 GTGGCCTTCACTTAGTACCACACTTGTGTCCAAAGCTATTATATTCACAAA
1 GTGGCCTTCACATAGTACCACACTTGTGTCCAAAGCTATTATATTCACAAA
* *
59900206 GTGTCCTTCACATAGTACCACACTTGTGTCTAAAGCTATTATATTCACAAA
1 GTGGCCTTCACATAGTACCACACTTGTGTCCAAAGCTATTATATTCACAAA
59900257 G
1 G
59900258 GTTCAACTGG
Statistics
Matches: 140, Mismatches: 13, Indels: 2
0.90 0.08 0.01
Matches are distributed among these distances:
50 1 0.01
51 139 0.99
ACGTcount: A:0.30, C:0.24, G:0.14, T:0.32
Consensus pattern (51 bp):
GTGGCCTTCACATAGTACCACACTTGTGTCCAAAGCTATTATATTCACAAA
Found at i:59900313 original size:28 final size:27
Alignment explanation
Indices: 59900276--59900426 Score: 179
Period size: 28 Copynumber: 5.7 Consensus size: 27
59900266 GGGAAATTTC
*
59900276 TCACTTAGCACCATACCATGGACTTATT
1 TCACTTAGCA-CATGCCATGGACTTATT
59900304 TCACTTAGCACATTGCCATGGACTTATT
1 TCACTTAGCACA-TGCCATGGACTTATT
*
59900332 TCACTTAG---ATGCCATGGTCTTATT
1 TCACTTAGCACATGCCATGGACTTATT
* *
59900356 TAACTTAGCACATTGCCATGAACTTATT
1 TCACTTAGCACA-TGCCATGGACTTATT
*
59900384 TCACTTA--A-ATGCCATGGTCTTATT
1 TCACTTAGCACATGCCATGGACTTATT
59900408 TCACTTAGCACGATGCCAT
1 TCACTTAGCAC-ATGCCAT
59900427 ATCCTAGATA
Statistics
Matches: 106, Mismatches: 8, Indels: 18
0.80 0.06 0.14
Matches are distributed among these distances:
24 41 0.39
25 2 0.02
26 2 0.02
27 3 0.03
28 58 0.55
ACGTcount: A:0.26, C:0.25, G:0.13, T:0.36
Consensus pattern (27 bp):
TCACTTAGCACATGCCATGGACTTATT
Found at i:59900353 original size:24 final size:26
Alignment explanation
Indices: 59900291--59900417 Score: 145
Period size: 24 Copynumber: 4.9 Consensus size: 26
59900281 TAGCACCATA
59900291 CCATGGACTTATTTCACTTAGCACATTG
1 CCATGGACTTATTTCACTTAG--CATTG
59900319 CCATGGACTTATTTCACTTAG-A-TG
1 CCATGGACTTATTTCACTTAGCATTG
* *
59900343 CCATGGTCTTATTTAACTTAGCACATTG
1 CCATGGACTTATTTCACTTAG--CATTG
* *
59900371 CCATGAACTTATTTCACTTA--AATG
1 CCATGGACTTATTTCACTTAGCATTG
*
59900395 CCATGGTCTTATTTCACTTAGCA
1 CCATGGACTTATTTCACTTAGCA
59900418 CGATGCCATA
Statistics
Matches: 85, Mismatches: 8, Indels: 14
0.79 0.07 0.13
Matches are distributed among these distances:
24 42 0.49
25 1 0.01
26 1 0.01
27 1 0.01
28 40 0.47
ACGTcount: A:0.26, C:0.23, G:0.13, T:0.38
Consensus pattern (26 bp):
CCATGGACTTATTTCACTTAGCATTG
Found at i:59900354 original size:52 final size:52
Alignment explanation
Indices: 59900291--59900426 Score: 220
Period size: 52 Copynumber: 2.6 Consensus size: 52
59900281 TAGCACCATA
* * *
59900291 CCATGGACTTATTTCACTTAGCACATTGCCATGGACTTATTTCACTTAGATG
1 CCATGGTCTTATTTCACTTAGCACATTGCCATGAACTTATTTCACTTAAATG
*
59900343 CCATGGTCTTATTTAACTTAGCACATTGCCATGAACTTATTTCACTTAAATG
1 CCATGGTCTTATTTCACTTAGCACATTGCCATGAACTTATTTCACTTAAATG
59900395 CCATGGTCTTATTTCACTTAGCACGA-TGCCAT
1 CCATGGTCTTATTTCACTTAGCAC-ATTGCCAT
59900427 ATCCTAGATA
Statistics
Matches: 78, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
52 77 0.99
53 1 0.01
ACGTcount: A:0.26, C:0.24, G:0.14, T:0.37
Consensus pattern (52 bp):
CCATGGTCTTATTTCACTTAGCACATTGCCATGAACTTATTTCACTTAAATG
Found at i:59900532 original size:49 final size:49
Alignment explanation
Indices: 59900470--59900568 Score: 198
Period size: 49 Copynumber: 2.0 Consensus size: 49
59900460 TTTCACTTAG
59900470 CACATTGCCATGGTCTAACCATGGTCTTTTACTATCAATTCATATTACA
1 CACATTGCCATGGTCTAACCATGGTCTTTTACTATCAATTCATATTACA
59900519 CACATTGCCATGGTCTAACCATGGTCTTTTACTATCAATTCATATTACA
1 CACATTGCCATGGTCTAACCATGGTCTTTTACTATCAATTCATATTACA
59900568 C
1 C
59900569 TACGCAACAA
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
49 50 1.00
ACGTcount: A:0.28, C:0.25, G:0.10, T:0.36
Consensus pattern (49 bp):
CACATTGCCATGGTCTAACCATGGTCTTTTACTATCAATTCATATTACA
Found at i:59905564 original size:13 final size:12
Alignment explanation
Indices: 59905536--59905564 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
59905526 GAAAACTTTT
59905536 AAAAATTTCATG
1 AAAAATTTCATG
59905548 AAAAATTTCATG
1 AAAAATTTCATG
59905560 AAAAA
1 AAAAA
59905565 CAGGGGCACA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.59, C:0.07, G:0.07, T:0.28
Consensus pattern (12 bp):
AAAAATTTCATG
Found at i:59907875 original size:27 final size:27
Alignment explanation
Indices: 59907845--59908416 Score: 731
Period size: 27 Copynumber: 21.2 Consensus size: 27
59907835 AAAGTACTCC
59907845 CGATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
59907872 CGATTTACAGAATTATCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
** * **
59907899 CGATTTTTAAAATTATTGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
59907926 CGATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
59907953 TGATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
** * * *
59907980 CGATTTTTAAAATTATCATTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
59908007 CGATTTATAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
59908034 C-AGTTTACAGAATTATCGTTTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
*
59908061 CGATTTACAGAATTATCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* **
59908088 C-AGTTTACAAAATTACTATTTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
* * *
59908115 CGATTTATAGAATTATCATTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
** * *
59908142 CGATTTGTAAAATTACTGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
59908169 CGATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
59908196 C-AGTTTACAGAATTACTGTTTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
59908223 CGATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
59908250 C-AGTTTACAGAATTACTGTTTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
59908277 CGATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
** * *
59908304 CGATTTGTAAAATTACTGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* * *
59908331 TGATTTACAGAATTACTGGTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* *
59908358 C-AGTTTACAAAATTATCGTTTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
59908385 CGATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
59908412 TGATT
1 CGATT
59908417 GTGAAATTAC
Statistics
Matches: 474, Mismatches: 61, Indels: 20
0.85 0.11 0.04
Matches are distributed among these distances:
26 5 0.01
27 464 0.98
28 5 0.01
ACGTcount: A:0.27, C:0.22, G:0.10, T:0.41
Consensus pattern (27 bp):
CGATTTACAGAATTACCGTTTTACCCT
Found at i:59908451 original size:27 final size:27
Alignment explanation
Indices: 59908421--59908615 Score: 196
Period size: 27 Copynumber: 7.2 Consensus size: 27
59908411 TTGATTGTGA
59908421 AATTACTGAAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* *
59908448 AATT-TTCGAAATACCCCTATAGGGTAG
1 AATTACT-GAAATACCCCTGTAGGGTAG
* * * *
59908475 AACTACTGAAATACCCTTATAGGATAG
1 AATTACTGAAATACCCCTGTAGGGTAG
** *
59908502 AATTACCAAAATACCCCTGTAGAGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* *
59908529 AATTA-TCAAAATACCCTTGTAGGGTAG
1 AATTACT-GAAATACCCCTGTAGGGTAG
* *
59908556 AAATACCGAAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* * * * *
59908583 AATTACCGAGATACCCTTGTGGGGTAA
1 AATTACTGAAATACCCCTGTAGGGTAG
59908610 AATTAC
1 AATTAC
59908616 CATTTTGCCC
Statistics
Matches: 139, Mismatches: 25, Indels: 8
0.81 0.15 0.05
Matches are distributed among these distances:
26 1 0.01
27 137 0.99
28 1 0.01
ACGTcount: A:0.36, C:0.19, G:0.19, T:0.26
Consensus pattern (27 bp):
AATTACTGAAATACCCCTGTAGGGTAG
Found at i:59908489 original size:54 final size:54
Alignment explanation
Indices: 59908421--59908616 Score: 241
Period size: 54 Copynumber: 3.6 Consensus size: 54
59908411 TTGATTGTGA
* ** *
59908421 AATTACTGAAATACCCCTGTAGGGTAGAATTTTCGAAATACCCCTATAGGGTAG
1 AATTACTGAAATACCCTTGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAG
* * * * *
59908475 AACTACTGAAATACCCTTATAGGATAGAATTACCAAAATACCCCTGTAGAGTAG
1 AATTACTGAAATACCCTTGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAG
* *
59908529 AATTA-TCAAAATACCCTTGTAGGGTAGAAATACCGAAATACCCCTGTAGGGTAG
1 AATTACT-GAAATACCCTTGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAG
* * * *
59908583 AATTACCGAGATACCCTTGTGGGGTAAAATTACC
1 AATTACTGAAATACCCTTGTAGGGTAGAATTACC
59908617 ATTTTGCCCC
Statistics
Matches: 118, Mismatches: 22, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
53 1 0.01
54 117 0.99
ACGTcount: A:0.36, C:0.19, G:0.19, T:0.26
Consensus pattern (54 bp):
AATTACTGAAATACCCTTGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAG
Found at i:59908520 original size:81 final size:81
Alignment explanation
Indices: 59908429--59908614 Score: 237
Period size: 81 Copynumber: 2.3 Consensus size: 81
59908419 GAAATTACTG
* * * * *
59908429 AAATACCCCTGTAGGGTAGAATTTTCGAAATACCCCTATAGGGTAGAACTACTGAAATACCCTTA
1 AAATACCCCTGTAGGGTAGAATTATCAAAATACCCCTATAGGGTAGAAATACCGAAATACCCCTA
59908494 TAGGATAGAATTACCA
66 TAGGATAGAATTACCA
* * * *
59908510 AAATACCCCTGTAGAGTAGAATTATCAAAATACCCTTGTAGGGTAGAAATACCGAAATACCCCTG
1 AAATACCCCTGTAGGGTAGAATTATCAAAATACCCCTATAGGGTAGAAATACCGAAATACCCCTA
* *
59908575 TAGGGTAGAATTACCG
66 TAGGATAGAATTACCA
* * * *
59908591 AGATACCCTTGTGGGGTAAAATTA
1 AAATACCCCTGTAGGGTAGAATTA
59908615 CCATTTTGCC
Statistics
Matches: 89, Mismatches: 16, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
81 89 1.00
ACGTcount: A:0.37, C:0.19, G:0.19, T:0.25
Consensus pattern (81 bp):
AAATACCCCTGTAGGGTAGAATTATCAAAATACCCCTATAGGGTAGAAATACCGAAATACCCCTA
TAGGATAGAATTACCA
Found at i:59908853 original size:27 final size:26
Alignment explanation
Indices: 59908815--59908897 Score: 121
Period size: 27 Copynumber: 3.1 Consensus size: 26
59908805 CGGAGGAAGC
*
59908815 GTTCTGGTGGCTATGCCACAAATATCT
1 GTTCTGGTGGCTCTGCCAC-AATATCT
59908842 GTTCTGGTGGCTCTGCCACAATATCT
1 GTTCTGGTGGCTCTGCCACAATATCT
* *
59908868 GTATCTGGTGACTCTGTCACAATATCT
1 GT-TCTGGTGGCTCTGCCACAATATCT
59908895 GTT
1 GTT
59908898 GACCGATTGA
Statistics
Matches: 52, Mismatches: 3, Indels: 3
0.90 0.05 0.05
Matches are distributed among these distances:
26 10 0.19
27 42 0.81
ACGTcount: A:0.19, C:0.23, G:0.22, T:0.36
Consensus pattern (26 bp):
GTTCTGGTGGCTCTGCCACAATATCT
Found at i:59909017 original size:22 final size:22
Alignment explanation
Indices: 59908985--59909043 Score: 64
Period size: 22 Copynumber: 2.7 Consensus size: 22
59908975 CCCTTTATTA
*
59908985 ATGGCTCTGTGCCAACCTAAAT
1 ATGGCTTTGTGCCAACCTAAAT
* * * *
59909007 ATGGCTTTGTGCCATCTTGACT
1 ATGGCTTTGTGCCAACCTAAAT
*
59909029 ATGGCTTCGTGCCAA
1 ATGGCTTTGTGCCAA
59909044 ACGTATTTAC
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.20, C:0.25, G:0.22, T:0.32
Consensus pattern (22 bp):
ATGGCTTTGTGCCAACCTAAAT
Found at i:59909230 original size:27 final size:27
Alignment explanation
Indices: 59909200--59909281 Score: 96
Period size: 27 Copynumber: 3.1 Consensus size: 27
59909190 TATTCTGTTA
* *
59909200 GGTGGCTTTGCCACATTATCTG-ATTCT
1 GGTGGCTCTGCCACAATATCTGTA-TCT
59909227 GGTGGCTCTGCCACAATATCTGTATCT
1 GGTGGCTCTGCCACAATATCTGTATCT
* * *
59909254 GGTGACTCTGTCACGATATCTGT-TCT
1 GGTGGCTCTGCCACAATATCTGTATCT
59909280 GG
1 GG
59909282 CAGCCATGCT
Statistics
Matches: 49, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
26 5 0.10
27 43 0.88
28 1 0.02
ACGTcount: A:0.16, C:0.23, G:0.24, T:0.37
Consensus pattern (27 bp):
GGTGGCTCTGCCACAATATCTGTATCT
Found at i:59909408 original size:6 final size:6
Alignment explanation
Indices: 59909399--59909671 Score: 242
Period size: 6 Copynumber: 45.3 Consensus size: 6
59909389 TCGCATTCAC
*
59909399 ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG -TTACTA
1 ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG ATT-CTG
* * *
59909447 ATACTG ATTCTG ATTCTG -TTACTG A-TCTG ATTCTG -TCACCTA ATTCTG
1 ATTCTG ATTCTG ATTCTG ATT-CTG ATTCTG ATTCTG AT--TCTG ATTCTG
* *
59909495 ATTCTG ATTCTG ATTCTG ATTCTG -TTACTA ATACTG ATTCTG ATTCTG
1 ATTCTG ATTCTG ATTCTG ATTCTG ATT-CTG ATTCTG ATTCTG ATTCTG
* * *
59909543 -TTACTG ATTCTG ATTCTG ATTCTG -TCACCTA ATTCTG ATTCTA ATTCTG
1 ATT-CTG ATTCTG ATTCTG ATTCTG AT--TCTG ATTCTG ATTCTG ATTCTG
* *
59909592 ATTCTG -TTACTA ATAT-TG ATTTTG ATTCTG ATTCTG -TTACTG ATTCTG
1 ATTCTG ATT-CTG AT-TCTG ATTCTG ATTCTG ATTCTG ATT-CTG ATTCTG
* * * *
59909640 ATTCTG ATTCTT ATTTTG GTTCTA ATTCTG AT
1 ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG AT
59909672 AATGTTTCTT
Statistics
Matches: 217, Mismatches: 29, Indels: 42
0.75 0.10 0.15
Matches are distributed among these distances:
5 19 0.09
6 184 0.85
7 11 0.05
8 3 0.01
ACGTcount: A:0.20, C:0.17, G:0.14, T:0.49
Consensus pattern (6 bp):
ATTCTG
Found at i:59909618 original size:85 final size:85
Alignment explanation
Indices: 59909411--59909650 Score: 325
Period size: 85 Copynumber: 2.9 Consensus size: 85
59909401 TCTGATTCTG
* **
59909411 ATTCTGATTCTGATTCTGATTCTGATTCTGTTACTAATACTGATTCTGATTCTG-T--T-A--CT
1 ATTCTGATTCTAATTCTGATTCTGATTCTAATACTAATACTGATTCTGATTCTGTTACTGATTCT
59909470 GA-TCTGATTCTGTCACCTA
66 GATTCTGATTCTGTCACCTA
* **
59909489 ATTCTGATTCTGATTCTGATTCTGATTCTGTTACTAATACTGATTCTGATTCTGTTACTGATTCT
1 ATTCTGATTCTAATTCTGATTCTGATTCTAATACTAATACTGATTCTGATTCTGTTACTGATTCT
59909554 GATTCTGATTCTGTCACCTA
66 GATTCTGATTCTGTCACCTA
* * **
59909574 ATTCTGATTCTAATTCTGATTCTG-TTACTAATATTGATTTTGATTCTGATTCTGTTACTGATTC
1 ATTCTGATTCTAATTCTGATTCTGATT-CTAATACTAATACTGATTCTGATTCTGTTACTGATTC
59909638 TGATTCTGATTCT
65 TGATTCTGATTCT
59909651 TATTTTGGTT
Statistics
Matches: 147, Mismatches: 7, Indels: 9
0.90 0.04 0.06
Matches are distributed among these distances:
78 54 0.37
79 1 0.01
81 1 0.01
82 1 0.01
84 6 0.04
85 84 0.57
ACGTcount: A:0.20, C:0.17, G:0.14, T:0.48
Consensus pattern (85 bp):
ATTCTGATTCTAATTCTGATTCTGATTCTAATACTAATACTGATTCTGATTCTGTTACTGATTCT
GATTCTGATTCTGTCACCTA
Found at i:59909692 original size:17 final size:18
Alignment explanation
Indices: 59909659--59909692 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
59909649 CTTATTTTGG
59909659 TTCTAATTCTGATAATGT
1 TTCTAATTCTGATAATGT
*
59909677 TTCTTATTCT-ATAATG
1 TTCTAATTCTGATAATG
59909693 GGCTAAGGTC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.26, C:0.12, G:0.09, T:0.53
Consensus pattern (18 bp):
TTCTAATTCTGATAATGT
Found at i:59910405 original size:51 final size:51
Alignment explanation
Indices: 59910320--59910524 Score: 252
Period size: 51 Copynumber: 4.0 Consensus size: 51
59910310 TTACATACGC
* * * * *
59910320 AGTGGCTTTAACATA-TACCACCCTTGTAG-CCAAAGCTATTTTATCCACAA
1 AGTGGCCTTCACATAGTACCACACTTGT-GTCCAAAGCTATTATATTCACAA
* *
59910370 AGTTGCCTTCACATAGTACCACACTTGTGTCCAAAGCTATTTTATTCACAA
1 AGTGGCCTTCACATAGTACCACACTTGTGTCCAAAGCTATTATATTCACAA
* * * * * *
59910421 AGTGGCCATCACTTAGTACCGCACCTATGTCCAAAGCTATTATATTCACAT
1 AGTGGCCTTCACATAGTACCACACTTGTGTCCAAAGCTATTATATTCACAA
* *
59910472 AGTGGCCTTCACATAGTACCACACTTTTGTCTAAAGCTATTATATTCACAA
1 AGTGGCCTTCACATAGTACCACACTTGTGTCCAAAGCTATTATATTCACAA
59910523 AG
1 AG
59910525 GTTCAACTGA
Statistics
Matches: 133, Mismatches: 20, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
50 13 0.10
51 120 0.90
ACGTcount: A:0.31, C:0.25, G:0.13, T:0.31
Consensus pattern (51 bp):
AGTGGCCTTCACATAGTACCACACTTGTGTCCAAAGCTATTATATTCACAA
Found at i:59910620 original size:24 final size:24
Alignment explanation
Indices: 59910558--59910734 Score: 147
Period size: 24 Copynumber: 6.9 Consensus size: 24
59910548 TAGCACCATA
*
59910558 CCATGGACTTATTTTACTTAGCAAATTG
1 CCATGGACTTATTTCACTTAG---A-TG
*
59910586 CCATGGACTTATTTCACTTAGATA
1 CCATGGACTTATTTCACTTAGATG
* *
59910610 CCATGGTCTTATTTCACTTAGCCCGTTG
1 CCATGGACTTATTTCACTTA----GATG
**
59910638 CGTTGGACTTATTTCACTTAGATG
1 CCATGGACTTATTTCACTTAGATG
*
59910662 CCATGGTCTTATTTCACTTAGCACGTTG
1 CCATGGACTTATTTCACTTAG-A---TG
* * *
59910690 CCTTGAACTTATTTCACTTAAATG
1 CCATGGACTTATTTCACTTAGATG
*
59910714 CCATGGTCTTATTTCACTTAG
1 CCATGGACTTATTTCACTTAG
59910735 CACGATGCCA
Statistics
Matches: 121, Mismatches: 20, Indels: 20
0.75 0.12 0.12
Matches are distributed among these distances:
24 60 0.50
25 2 0.02
27 1 0.01
28 58 0.48
ACGTcount: A:0.23, C:0.22, G:0.15, T:0.40
Consensus pattern (24 bp):
CCATGGACTTATTTCACTTAGATG
Found at i:59910621 original size:52 final size:52
Alignment explanation
Indices: 59910555--59910743 Score: 270
Period size: 52 Copynumber: 3.6 Consensus size: 52
59910545 ACTTAGCACC
* * ** *
59910555 ATACCATGGACTTATTTTACTTAGCAAATTGCCATGGACTTATTTCACTTAG
1 ATACCATGGTCTTATTTCACTTAGCACGTTGCCTTGGACTTATTTCACTTAG
* *
59910607 ATACCATGGTCTTATTTCACTTAGCCCGTTGCGTTGGACTTATTTCACTTAG
1 ATACCATGGTCTTATTTCACTTAGCACGTTGCCTTGGACTTATTTCACTTAG
* * *
59910659 ATGCCATGGTCTTATTTCACTTAGCACGTTGCCTTGAACTTATTTCACTTAA
1 ATACCATGGTCTTATTTCACTTAGCACGTTGCCTTGGACTTATTTCACTTAG
* *
59910711 ATGCCATGGTCTTATTTCACTTAGCACGATGCC
1 ATACCATGGTCTTATTTCACTTAGCACGTTGCC
59910744 AATCCTAGAT
Statistics
Matches: 124, Mismatches: 13, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
52 124 1.00
ACGTcount: A:0.23, C:0.23, G:0.15, T:0.39
Consensus pattern (52 bp):
ATACCATGGTCTTATTTCACTTAGCACGTTGCCTTGGACTTATTTCACTTAG
Found at i:59910846 original size:82 final size:81
Alignment explanation
Indices: 59910696--59910885 Score: 298
Period size: 82 Copynumber: 2.4 Consensus size: 81
59910686 GTTGCCTTGA
*
59910696 ACTTATTTCACTTA--A-A-TGCCATGGTCTTATTTCACTTAGCACGATGCCAATCCTAGATATG
1 ACTTATTTCACTTAGCACATTGCCATGGTCTTATTTCACTTAGCACAATGCCAATCCTAGATATG
59910757 GTCTTACATGTGAATC
66 GTCTTACATGTGAATC
* * *
59910773 ACTTATTTCACTTAGCACATTGCTATGGTCTTATTTCAGTTAGGACAATGCCATATCCTAGATAT
1 ACTTATTTCACTTAGCACATTGCCATGGTCTTATTTCACTTAGCACAATGCCA-ATCCTAGATAT
59910838 GGTCTTACATGTGAATC
65 GGTCTTACATGTGAATC
*
59910855 ACTTATTTCACTTAGCTCATTGCCATGGTCT
1 ACTTATTTCACTTAGCACATTGCCATGGTCT
59910886 AACCATGGTC
Statistics
Matches: 102, Mismatches: 6, Indels: 5
0.90 0.05 0.04
Matches are distributed among these distances:
77 14 0.14
79 1 0.01
80 1 0.01
81 29 0.28
82 57 0.56
ACGTcount: A:0.26, C:0.22, G:0.15, T:0.38
Consensus pattern (81 bp):
ACTTATTTCACTTAGCACATTGCCATGGTCTTATTTCACTTAGCACAATGCCAATCCTAGATATG
GTCTTACATGTGAATC
Found at i:59910934 original size:49 final size:49
Alignment explanation
Indices: 59910872--59910967 Score: 192
Period size: 49 Copynumber: 2.0 Consensus size: 49
59910862 TCACTTAGCT
59910872 CATTGCCATGGTCTAACCATGGTCTTTTACTGTCAATTCATATTACACA
1 CATTGCCATGGTCTAACCATGGTCTTTTACTGTCAATTCATATTACACA
59910921 CATTGCCATGGTCTAACCATGGTCTTTTACTGTCAATTCATATTACA
1 CATTGCCATGGTCTAACCATGGTCTTTTACTGTCAATTCATATTACA
59910968 TTACGCAACA
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
49 47 1.00
ACGTcount: A:0.26, C:0.24, G:0.12, T:0.38
Consensus pattern (49 bp):
CATTGCCATGGTCTAACCATGGTCTTTTACTGTCAATTCATATTACACA
Found at i:59912532 original size:30 final size:30
Alignment explanation
Indices: 59912445--59912539 Score: 88
Period size: 30 Copynumber: 3.1 Consensus size: 30
59912435 AGCAAAATTT
59912445 ATGCAATAATAGATTGGAAGTCACCGAAAA
1 ATGCAATAATAGATTGGAAGTCACCGAAAA
* * *
59912475 ATGTTTCTGAGGTTA-AG-TTTG-AGTCACCGAAAA
1 ATG---C--A-ATAATAGATTGGAAGTCACCGAAAA
59912508 ATGCAATAATAGATTGGAAGTCACCGAAAA
1 ATGCAATAATAGATTGGAAGTCACCGAAAA
59912538 AT
1 AT
59912540 TTATGCAATA
Statistics
Matches: 50, Mismatches: 6, Indels: 18
0.68 0.08 0.24
Matches are distributed among these distances:
27 2 0.04
28 3 0.06
29 3 0.06
30 18 0.36
33 16 0.32
34 3 0.06
35 3 0.06
36 2 0.04
ACGTcount: A:0.41, C:0.13, G:0.21, T:0.25
Consensus pattern (30 bp):
ATGCAATAATAGATTGGAAGTCACCGAAAA
Found at i:59912551 original size:34 final size:34
Alignment explanation
Indices: 59912438--59912555 Score: 117
Period size: 34 Copynumber: 3.6 Consensus size: 34
59912428 TGATCCGAGC
59912438 AAAATTTATGCAATAATAGATTGGAAGTCACCGA
1 AAAATTTATGCAATAATAGATTGGAAGTCACCGA
* * * *
59912472 AAAATGTTTCTG-AGGTTA-AG-TTTG-AGTCACCG-
1 AAAA--TTTATGCA-ATAATAGATTGGAAGTCACCGA
59912504 AAAA---ATGCAATAATAGATTGGAAGTCACCGA
1 AAAATTTATGCAATAATAGATTGGAAGTCACCGA
59912535 AAAATTTATGCAATAATAGAT
1 AAAATTTATGCAATAATAGAT
59912556 CGTCTATAAT
Statistics
Matches: 65, Mismatches: 8, Indels: 22
0.68 0.08 0.23
Matches are distributed among these distances:
27 4 0.06
28 3 0.05
29 3 0.05
30 8 0.12
31 4 0.06
32 4 0.06
33 8 0.12
34 21 0.32
35 3 0.05
36 7 0.11
ACGTcount: A:0.42, C:0.11, G:0.19, T:0.28
Consensus pattern (34 bp):
AAAATTTATGCAATAATAGATTGGAAGTCACCGA
Found at i:59912719 original size:23 final size:23
Alignment explanation
Indices: 59912693--59912761 Score: 58
Period size: 23 Copynumber: 3.2 Consensus size: 23
59912683 ATAAGTTAGT
59912693 TGAGTTATAAATCTTTGAGGTTG
1 TGAGTTATAAATCTTTGAGGTTG
* ***
59912716 TGAGATTACACGGC-TT-A-G-T-
1 TGAG-TTATAAATCTTTGAGGTTG
59912735 TGAGTTATAAATCTTTGAGGTTG
1 TGAGTTATAAATCTTTGAGGTTG
59912758 TGAG
1 TGAG
59912762 ATTACACAGC
Statistics
Matches: 32, Mismatches: 8, Indels: 12
0.62 0.15 0.23
Matches are distributed among these distances:
18 5 0.16
19 6 0.19
20 2 0.06
21 2 0.06
22 2 0.06
23 10 0.31
24 5 0.16
ACGTcount: A:0.26, C:0.07, G:0.28, T:0.39
Consensus pattern (23 bp):
TGAGTTATAAATCTTTGAGGTTG
Found at i:59912747 original size:42 final size:42
Alignment explanation
Indices: 59912688--59912768 Score: 162
Period size: 42 Copynumber: 1.9 Consensus size: 42
59912678 ACTTGATAAG
59912688 TTAGTTGAGTTATAAATCTTTGAGGTTGTGAGATTACACGGC
1 TTAGTTGAGTTATAAATCTTTGAGGTTGTGAGATTACACGGC
59912730 TTAGTTGAGTTATAAATCTTTGAGGTTGTGAGATTACAC
1 TTAGTTGAGTTATAAATCTTTGAGGTTGTGAGATTACAC
59912769 AGCGTACTTA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 39 1.00
ACGTcount: A:0.27, C:0.09, G:0.25, T:0.40
Consensus pattern (42 bp):
TTAGTTGAGTTATAAATCTTTGAGGTTGTGAGATTACACGGC
Found at i:59912757 original size:21 final size:21
Alignment explanation
Indices: 59912691--59912757 Score: 50
Period size: 19 Copynumber: 3.2 Consensus size: 21
59912681 TGATAAGTTA
59912691 GTTGAGTTATAAATCTTTGAG
1 GTTGAGTTATAAATCTTTGAG
* ***
59912712 GTTGTGAGATTACACGGC-TT-A-
1 G-T-TGAG-TTATAAATCTTTGAG
59912733 GTTGAGTTATAAATCTTTGAG
1 GTTGAGTTATAAATCTTTGAG
59912754 GTTG
1 GTTG
59912758 TGAGATTACA
Statistics
Matches: 32, Mismatches: 8, Indels: 12
0.62 0.15 0.23
Matches are distributed among these distances:
18 5 0.16
19 6 0.19
20 2 0.06
21 6 0.19
22 2 0.06
23 6 0.19
24 5 0.16
ACGTcount: A:0.25, C:0.07, G:0.27, T:0.40
Consensus pattern (21 bp):
GTTGAGTTATAAATCTTTGAG
Found at i:59915744 original size:27 final size:27
Alignment explanation
Indices: 59915702--59915921 Score: 253
Period size: 27 Copynumber: 8.1 Consensus size: 27
59915692 GTTTACCAAG
* *
59915702 TTACTGAAGTACCCCTGTAGGGTAAAA
1 TTACTGAAATACCCCTGTAGGGTAGAA
*
59915729 TTATTGAAATACCCCTGTAGGGTAGAA
1 TTACTGAAATACCCCTGTAGGGTAGAA
* *
59915756 TTACTAAAATACCCCTATAGGGTAGAA
1 TTACTGAAATACCCCTGTAGGGTAGAA
* *
59915783 TTACTAAAATACCGCTGTAGGGTAGAA
1 TTACTGAAATACCCCTGTAGGGTAGAA
* *
59915810 TTACTGAAATACCGCTATAGGGTAGAA
1 TTACTGAAATACCCCTGTAGGGTAGAA
* * *
59915837 TTACCGAAATACCCTTGTACGGTAGAA
1 TTACTGAAATACCCCTGTAGGGTAGAA
* * *
59915864 ATACCGAAATACCCCTGTAGTGTAGAA
1 TTACTGAAATACCCCTGTAGGGTAGAA
* * * *
59915891 TTA-TCGAGATACCCTTGTGGGGTAAAA
1 TTACT-GAAATACCCCTGTAGGGTAGAA
59915918 TTAC
1 TTAC
59915922 CATTTTGCCC
Statistics
Matches: 165, Mismatches: 26, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
27 165 1.00
ACGTcount: A:0.35, C:0.18, G:0.20, T:0.27
Consensus pattern (27 bp):
TTACTGAAATACCCCTGTAGGGTAGAA
Found at i:59916552 original size:6 final size:6
Alignment explanation
Indices: 59916538--59916654 Score: 62
Period size: 6 Copynumber: 19.0 Consensus size: 6
59916528 GCATTCACAC
* * * *
59916538 TCTGGT TCTGAT TCT-AT TACCTGAT ACTGAT TCTGAT TCTG-T CACTTAAT
1 TCTGAT TCTGAT TCTGAT T--CTGAT TCTGAT TCTGAT TCTGAT -TC-TGAT
* * * *
59916588 TCTGAT TTTGAT TCTGAT TATG-T CACCTGAT TCTGAT TCTGAT TCTCAT
1 TCTGAT TCTGAT TCTGAT TCTGAT --TCTGAT TCTGAT TCTGAT TCTGAT
*
59916637 TTTGAT TCT-AGT TCTGAT
1 TCTGAT TCTGA-T TCTGAT
59916655 AATGTTTCTT
Statistics
Matches: 83, Mismatches: 17, Indels: 22
0.68 0.14 0.18
Matches are distributed among these distances:
5 6 0.07
6 66 0.80
7 7 0.08
8 4 0.05
ACGTcount: A:0.19, C:0.18, G:0.15, T:0.49
Consensus pattern (6 bp):
TCTGAT
Found at i:59916593 original size:31 final size:31
Alignment explanation
Indices: 59916558--59916633 Score: 107
Period size: 31 Copynumber: 2.5 Consensus size: 31
59916548 ATTCTATTAC
* * *
59916558 CTGATACTGATTCTGATTCTGTCACTTAATT
1 CTGATTCTGATTCTGATTATGTCACCTAATT
* *
59916589 CTGATTTTGATTCTGATTATGTCACCTGATT
1 CTGATTCTGATTCTGATTATGTCACCTAATT
59916620 CTGATTCTGATTCT
1 CTGATTCTGATTCT
59916634 CATTTTGATT
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 39 1.00
ACGTcount: A:0.20, C:0.18, G:0.14, T:0.47
Consensus pattern (31 bp):
CTGATTCTGATTCTGATTATGTCACCTAATT
Found at i:59919794 original size:22 final size:22
Alignment explanation
Indices: 59919766--59919840 Score: 62
Period size: 22 Copynumber: 3.3 Consensus size: 22
59919756 TTCCACATCC
59919766 ATCACATTGGCCATTCGGCCTT
1 ATCACATTGGCCATTCGGCCTT
** * * *
59919788 ATCACATATATACACTTTC-ACATT
1 ATCACAT-T-GGC-CATTCGGCCTT
59919812 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
59919835 ATCACA
1 ATCACA
59919841 CATACACATG
Statistics
Matches: 38, Mismatches: 10, Indels: 10
0.66 0.17 0.17
Matches are distributed among these distances:
22 17 0.45
23 5 0.13
24 5 0.13
25 11 0.29
ACGTcount: A:0.27, C:0.31, G:0.11, T:0.32
Consensus pattern (22 bp):
ATCACATTGGCCATTCGGCCTT
Found at i:59919801 original size:47 final size:46
Alignment explanation
Indices: 59919738--59919989 Score: 360
Period size: 47 Copynumber: 5.3 Consensus size: 46
59919728 CCCTTCGGGA
* *
59919738 CTTATCACATTTATACATTTCCACATCCATCACATTGGCCATTCGGC
1 CTTATCACATATATACATTT-CACATTCATCACATTGGCCATTCGGC
59919785 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACA-TTTCACATTCATCACATTGGCCATTCGGC
* *
59919832 CTTATCACACATACACATGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACAT-TTCACATTCATCACATTGGCCATTCGGC
* *
59919879 CTTATCACACATACACATGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACAT-TTCACATTCATCACATTGGCCATTCGGC
* *
59919926 CTTATCACGCATATATATACTTTCACATTCATCACATTGGCCACTCGGC
1 CTTATCA--CATATATACA-TTTCACATTCATCACATTGGCCATTCGGC
*
59919975 CCTATCACATATATA
1 CTTATCACATATATA
59919990 TACTTGTACA
Statistics
Matches: 191, Mismatches: 9, Indels: 10
0.91 0.04 0.05
Matches are distributed among these distances:
46 1 0.01
47 146 0.76
48 3 0.02
49 40 0.21
50 1 0.01
ACGTcount: A:0.28, C:0.31, G:0.09, T:0.32
Consensus pattern (46 bp):
CTTATCACATATATACATTTCACATTCATCACATTGGCCATTCGGC
Found at i:59923383 original size:40 final size:40
Alignment explanation
Indices: 59923323--59923686 Score: 532
Period size: 40 Copynumber: 9.1 Consensus size: 40
59923313 GCCCGAATAC
* * *
59923323 ACATCACTAGCATGATTGCTCTTCGGGACCTAGCCCGGAT
1 ACATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGAT
* * * ** * *
59923363 ATAACACCAGCACGAATGCTCTTCGGGGTTTAGCACAGAT
1 ACATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGAT
* * *
59923403 ATATCACTAGCACGAATGCTCTTCGGAACTTAGTCCGGAT
1 ACATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGAT
*
59923443 ACATCACTAGCACGAATGCTCTTCGAGACTTAGCCCGGAT
1 ACATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGAT
59923483 ACATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGAT
1 ACATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGAT
* * *
59923523 ACATCACAAGCATGAATGCTCTTCGGGACTTAGCCCGGGT
1 ACATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGAT
* * *
59923563 ACATCACTAGCATGAATGCTCTTTGGGACTTAGCACGGAT
1 ACATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGAT
*
59923603 ACATCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGAT
1 ACATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGAT
59923643 ACATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGAT
1 ACATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGAT
59923683 -CATC
1 ACATC
59923687 GTCGAGACCT
Statistics
Matches: 291, Mismatches: 33, Indels: 1
0.90 0.10 0.00
Matches are distributed among these distances:
39 4 0.01
40 287 0.99
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
ACATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGAT
Found at i:59923782 original size:38 final size:38
Alignment explanation
Indices: 59923740--59923814 Score: 107
Period size: 38 Copynumber: 2.0 Consensus size: 38
59923730 GAATTTTAAT
*
59923740 CCGGACATAATCTCTGT-ACATAGCCATCGGGTCTTTAC
1 CCGGACATAATCTCT-TCACATAGCCAGCGGGTCTTTAC
* *
59923778 CCGGACATAATCTCTTCATATAGTCAGCGGGTCTTTA
1 CCGGACATAATCTCTTCACATAGCCAGCGGGTCTTTA
59923815 AACTCGGATT
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
37 1 0.03
38 32 0.97
ACGTcount: A:0.24, C:0.27, G:0.19, T:0.31
Consensus pattern (38 bp):
CCGGACATAATCTCTTCACATAGCCAGCGGGTCTTTAC
Found at i:59925920 original size:40 final size:40
Alignment explanation
Indices: 59925861--59926072 Score: 259
Period size: 40 Copynumber: 5.3 Consensus size: 40
59925851 CATTTGAATG
*
59925861 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATT
* * *
59925901 TTATCCGGGTTAAGACCCGAAGGCATTTATGCTAGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATT
* * *
59925941 TTATCCGGGCTAAGGCCCGAAGGCATTTGTGCGAGTTGA-T
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAG-TGATT
* *
59925981 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAG-TGATT
* * * * *
59926021 ATACCCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATT
59926061 ATATCC-GGCTAA
1 ATATCCGGGCTAA
59926073 ATTCCGAAGA
Statistics
Matches: 151, Mismatches: 18, Indels: 7
0.86 0.10 0.04
Matches are distributed among these distances:
39 7 0.05
40 141 0.93
41 3 0.02
ACGTcount: A:0.23, C:0.20, G:0.28, T:0.28
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATT
Found at i:59928940 original size:46 final size:40
Alignment explanation
Indices: 59928714--59929002 Score: 366
Period size: 40 Copynumber: 7.1 Consensus size: 40
59928704 GCCCGAATAC
* * *
59928714 ACATCACTAGCATGATTGCTCTTCGGGACCTAGCCCGGAT
1 ACATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGAT
* * * ** *
59928754 ATAACACCAGCACGAATGCTCTTCGGGGTTTAGCAC-GAT
1 ACATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGAT
* * *
59928793 ATATCACTAGCACGAATGCTCTTCGGAACTTAGTCCGGAT
1 ACATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGAT
*
59928833 ACATCACTAGCACGAATGCTCTTCGAGACTTAGCCCGGAT
1 ACATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGAT
* *
59928873 ACATCACTAGCACGAATGCTCTTTGGGACTTAGCCCCCATAGGGT
1 ACATCACTAGCACGAATGCTCTTCGGGACTTAG--CCC---GGAT
*
59928918 AACATCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGAT
1 -ACATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGAT
59928959 ACATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGAT
1 ACATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGAT
59928999 -CATC
1 ACATC
59929003 GTCGAGACCT
Statistics
Matches: 215, Mismatches: 27, Indels: 15
0.84 0.11 0.06
Matches are distributed among these distances:
39 36 0.17
40 136 0.63
41 3 0.01
42 3 0.01
44 3 0.01
45 3 0.01
46 31 0.14
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.24
Consensus pattern (40 bp):
ACATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGAT
Found at i:59928949 original size:86 final size:85
Alignment explanation
Indices: 59928714--59928994 Score: 334
Period size: 86 Copynumber: 3.4 Consensus size: 85
59928704 GCCCGAATAC
* * * **
59928714 ACATCACTAGCATGATTGCTCTTCGGGACCTAGCCCGGATA--TAACA-C-C-AGCACGAATGCT
1 ACATCACTAGCACGAATGCTCTTCGGGACTTAGCCCCCATAGGTAACATCACTAGCACGAATGCT
** *
59928774 CTTCGGGGTTTAGCAC-GAT
66 CTTCGGGACTTAGCCCGGAT
* * *
59928793 ATATCACTAGCACGAATGCTCTTCGGAACTTAG--TCC---GG-ATACATCACTAGCACGAATGC
1 ACATCACTAGCACGAATGCTCTTCGGGACTTAGCCCCCATAGGTA-ACATCACTAGCACGAATGC
*
59928852 TCTTCGAGACTTAGCCCGGAT
65 TCTTCGGGACTTAGCCCGGAT
* *
59928873 ACATCACTAGCACGAATGCTCTTTGGGACTTAGCCCCCATAGGGTAACATCACTAGCATGAATGC
1 ACATCACTAGCACGAATGCTCTTCGGGACTTAGCCCCCATA-GGTAACATCACTAGCACGAATGC
59928938 TCTTCGGGACTTAGCCCGGAT
65 TCTTCGGGACTTAGCCCGGAT
59928959 ACATCACTAGCACGAATGCTCTTCGGGACTTAGCCC
1 ACATCACTAGCACGAATGCTCTTCGGGACTTAGCCC
59928995 GGATCATCGT
Statistics
Matches: 169, Mismatches: 19, Indels: 21
0.81 0.09 0.10
Matches are distributed among these distances:
75 1 0.01
76 3 0.02
77 1 0.01
78 1 0.01
79 52 0.31
80 33 0.20
82 2 0.01
86 75 0.44
87 1 0.01
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.24
Consensus pattern (85 bp):
ACATCACTAGCACGAATGCTCTTCGGGACTTAGCCCCCATAGGTAACATCACTAGCACGAATGCT
CTTCGGGACTTAGCCCGGAT
Found at i:59928963 original size:126 final size:119
Alignment explanation
Indices: 59928714--59929002 Score: 373
Period size: 126 Copynumber: 2.4 Consensus size: 119
59928704 GCCCGAATAC
* * * * *
59928714 ACATCACTAGCATGATTGCTCTTCGGGACCTAGCCCGGATATAACACCAGCACGAATGCTCTTCG
1 ACATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATACATCACCAGCACGAATGCTCTTCG
** * *
59928779 GGGTTTAGCACGATATATCACTAGCACGAATGCTCTTCGGAACTTAGTCCGGAT
66 GGACTTAGCACCATATATCACTAGCACGAATGCTCTTCGGAACTTAGCCCGGAT
* * *
59928833 ACATCACTAGCACGAATGCTCTTCGAGACTTAGCCCGGATACATCACTAGCACGAATGCTCTTTG
1 ACATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATACATCACCAGCACGAATGCTCTTCG
* * *
59928898 GGACTTAGCCCCCATAGGGTAACATCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGAT
66 GGACTTAG-CACCATA---T---ATCACTAGCACGAATGCTCTTCGGAACTTAGCCCGGAT
59928959 ACATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGAT-CATC
1 ACATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATACATC
59929003 GTCGAGACCT
Statistics
Matches: 147, Mismatches: 16, Indels: 8
0.86 0.09 0.05
Matches are distributed among these distances:
119 63 0.43
120 5 0.03
123 1 0.01
125 4 0.03
126 74 0.50
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.24
Consensus pattern (119 bp):
ACATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATACATCACCAGCACGAATGCTCTTCG
GGACTTAGCACCATATATCACTAGCACGAATGCTCTTCGGAACTTAGCCCGGAT
Found at i:59929097 original size:38 final size:38
Alignment explanation
Indices: 59929055--59929129 Score: 107
Period size: 38 Copynumber: 2.0 Consensus size: 38
59929045 GAATTTTAAT
*
59929055 CCGGACATAATCTCTGT-ACATAGCCATCGGGTCTTTAC
1 CCGGACATAATCTCT-TCACATAGCCAGCGGGTCTTTAC
* *
59929093 CCGGACATAATCTCTTCATATAGTCAGCGGGTCTTTA
1 CCGGACATAATCTCTTCACATAGCCAGCGGGTCTTTA
59929130 AACTCGGATT
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
37 1 0.03
38 32 0.97
ACGTcount: A:0.24, C:0.27, G:0.19, T:0.31
Consensus pattern (38 bp):
CCGGACATAATCTCTTCACATAGCCAGCGGGTCTTTAC
Found at i:59931257 original size:40 final size:40
Alignment explanation
Indices: 59931171--59931381 Score: 250
Period size: 40 Copynumber: 5.3 Consensus size: 40
59931161 CATTTGAATG
*
59931171 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGC-AGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGATT
* * * *
59931210 TTATCCGGGTTAAGACCCGAAGGCATTTATGCTAGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGATT
* *
59931250 TTATCCGGGCTAAGGCCCGAAGGCATTTGTGCGAGTTGA-T
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG-TGATT
*
59931290 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG-TGATT
* * * ** *
59931330 ATACCCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGATT
59931370 ATATCC-GGCTAA
1 ATATCCGGGCTAA
59931382 ATTCCGAAGA
Statistics
Matches: 150, Mismatches: 18, Indels: 8
0.85 0.10 0.05
Matches are distributed among these distances:
39 35 0.23
40 112 0.75
41 3 0.02
ACGTcount: A:0.23, C:0.20, G:0.28, T:0.28
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGATT
Found at i:59935214 original size:22 final size:22
Alignment explanation
Indices: 59935186--59935307 Score: 61
Period size: 22 Copynumber: 5.3 Consensus size: 22
59935176 TTCCACATCC
59935186 ATCACATTAGCCATTCGGCCTT
1 ATCACATTAGCCATTCGGCCTT
* * * *
59935208 ATCACATATATACACTTTC-ACATT
1 ATCACAT-TA-GC-CATTCGGCCTT
*
59935232 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTAGCCATTCGGCCTT
* * *
59935255 ATCTCATATATG-CATGTTC-ACATT
1 ATCACAT-TA-GCCA--TTCGGCCTT
*
59935279 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTAGCCATTCGGCCTT
59935302 ATCACA
1 ATCACA
59935308 CATACACATG
Statistics
Matches: 71, Mismatches: 17, Indels: 24
0.63 0.15 0.21
Matches are distributed among these distances:
22 26 0.37
23 13 0.18
24 12 0.17
25 20 0.28
ACGTcount: A:0.26, C:0.30, G:0.11, T:0.34
Consensus pattern (22 bp):
ATCACATTAGCCATTCGGCCTT
Found at i:59935221 original size:47 final size:47
Alignment explanation
Indices: 59935158--59935503 Score: 482
Period size: 47 Copynumber: 7.3 Consensus size: 47
59935148 CCCTTCGGGA
* * * *
59935158 CTTATCACATTTATACACT-TCCACATCCATCACATTAGCCATTCGGC
1 CTTATCACATATATACA-TGTTCACATTCATCACATTGGCCATTCGGC
59935205 CTTATCACATATATACACT-TTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACA-TGTTCACATTCATCACATTGGCCATTCGGC
* *
59935252 CTTATCTCATATATGCATGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACATGTTCACATTCATCACATTGGCCATTCGGC
* *
59935299 CTTATCACACATACACATGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACATGTTCACATTCATCACATTGGCCATTCGGC
* * *
59935346 CTTATCACACATACACATGTTCACATTCATTACATTGGCCATTCGGC
1 CTTATCACATATATACATGTTCACATTCATCACATTGGCCATTCGGC
* *
59935393 CTTATCACACATACACATGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACATGTTCACATTCATCACATTGGCCATTCGGC
* *
59935440 CTTATCACGCATATATATACT-TTCACATTCATCACATTGGCCACTCGGC
1 CTTATCA--CATATATACA-TGTTCACATTCATCACATTGGCCATTCGGC
*
59935489 CCTATCACATATATA
1 CTTATCACATATATA
59935504 TACTTGTACA
Statistics
Matches: 278, Mismatches: 17, Indels: 8
0.92 0.06 0.03
Matches are distributed among these distances:
46 1 0.00
47 236 0.85
49 40 0.14
50 1 0.00
ACGTcount: A:0.27, C:0.31, G:0.10, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACATGTTCACATTCATCACATTGGCCATTCGGC
Found at i:59939148 original size:43 final size:43
Alignment explanation
Indices: 59938980--59939150 Score: 154
Period size: 43 Copynumber: 4.0 Consensus size: 43
59938970 ACATAAGCTC
* * ** *
59938980 GTACAATGCC-ATATCCCAGATATGGTCTTACATGTTATCACA
1 GTACAATGCCAATGTCCCAGACATGGTCTTACATGAAATCTCA
* * * *
59939022 -TATCGATGCCACTGTCCCAGACAAT-GTCTTACACGAAATC-AA
1 GTA-CAATGCCAATGTCCCAGAC-ATGGTCTTACATGAAATCTCA
* *
59939064 TTA-ATTATGCCAATGTCCCAGACATGGTCTTAGATGAAATCTCA
1 GTACA--ATGCCAATGTCCCAGACATGGTCTTACATGAAATCTCA
* *
59939108 GTACAATGCCAATGTCCCAGGCATGGTCTTACATGTAATCTCA
1 GTACAATGCCAATGTCCCAGACATGGTCTTACATGAAATCTCA
59939151 TCTTGATAAC
Statistics
Matches: 103, Mismatches: 17, Indels: 17
0.75 0.12 0.12
Matches are distributed among these distances:
41 2 0.02
42 9 0.09
43 86 0.83
44 5 0.05
45 1 0.01
ACGTcount: A:0.31, C:0.25, G:0.16, T:0.29
Consensus pattern (43 bp):
GTACAATGCCAATGTCCCAGACATGGTCTTACATGAAATCTCA
Found at i:59942930 original size:24 final size:24
Alignment explanation
Indices: 59942903--59942948 Score: 67
Period size: 25 Copynumber: 1.9 Consensus size: 24
59942893 GTTATTGAGT
*
59942903 TCATA-TATGAAACATATGACTTTA
1 TCATATTATCAAACATAT-ACTTTA
59942927 TCATATTATCAAACATATACTT
1 TCATATTATCAAACATATACTT
59942949 GAAAAACACA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
24 9 0.45
25 11 0.55
ACGTcount: A:0.41, C:0.15, G:0.04, T:0.39
Consensus pattern (24 bp):
TCATATTATCAAACATATACTTTA
Found at i:59949014 original size:41 final size:40
Alignment explanation
Indices: 59948876--59949099 Score: 290
Period size: 40 Copynumber: 5.6 Consensus size: 40
59948866 AACCCAAGTA
* * * *
59948876 CCTTCGGGATTTA-ACCGGATATAG-CAAATCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATG
* *
59948915 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
*
59948955 CCTTCGGGACTTATCCCGGATATAGTCACTAGCACAAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCAC-AAATG
* * *
59948996 CCTTCGGGTCTTAGCCCGGATATCGTCACTAGCGCAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
*
59949036 CCTTCGGGACTTAACCCGGATATAGTCACTAGCACAAAGTG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAA-TG
* *
59949077 CCTTTGGGTCTTAGCCCGGATAT
1 CCTTCGGGACTTAGCCCGGATAT
59949100 CATCCGAATA
Statistics
Matches: 163, Mismatches: 18, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
39 12 0.07
40 93 0.57
41 58 0.36
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
Found at i:59949100 original size:81 final size:80
Alignment explanation
Indices: 59948876--59949100 Score: 319
Period size: 81 Copynumber: 2.8 Consensus size: 80
59948866 AACCCAAGTA
* * * * *
59948876 CCTTCGGGATTTAA-CCGGATATAG-CAAATCGCACAAATGCCTTCGGGACTTAGCCCGGATATA
1 CCTTCGGGACTTAACCCGGATATAGTC-ACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATC
*
59948939 GTAACTCGCACAAATG
65 GTAACTAGCACAAATG
*
59948955 CCTTCGGGACTTATCCCGGATATAGTCACTAGCACAAAATGCCTTCGGGTCTTAGCCCGGATATC
1 CCTTCGGGACTTAACCCGGATATAGTCACTAGCAC-AAATGCCTTCGGGTCTTAGCCCGGATATC
* *
59949020 GTCACTAGCGCAAATG
65 GTAACTAGCACAAATG
*
59949036 CCTTCGGGACTTAACCCGGATATAGTCACTAGCACAAAGTGCCTTTGGGTCTTAGCCCGGATATC
1 CCTTCGGGACTTAACCCGGATATAGTCACTAGCACAAA-TGCCTTCGGGTCTTAGCCCGGATATC
59949101 ATCCGAATAA
Statistics
Matches: 131, Mismatches: 11, Indels: 6
0.89 0.07 0.04
Matches are distributed among these distances:
79 12 0.09
80 19 0.15
81 100 0.76
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.24
Consensus pattern (80 bp):
CCTTCGGGACTTAACCCGGATATAGTCACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATCG
TAACTAGCACAAATG
Found at i:59950964 original size:20 final size:20
Alignment explanation
Indices: 59950939--59950992 Score: 90
Period size: 20 Copynumber: 2.7 Consensus size: 20
59950929 CAGGGCTTGC
**
59950939 CCACACGGGTGTGTCCCAAA
1 CCACACGGGCATGTCCCAAA
59950959 CCACACGGGCATGTCCCAAA
1 CCACACGGGCATGTCCCAAA
59950979 CCACACGGGCATGT
1 CCACACGGGCATGT
59950993 GACCCCTATT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.26, C:0.37, G:0.24, T:0.13
Consensus pattern (20 bp):
CCACACGGGCATGTCCCAAA
Found at i:59954233 original size:40 final size:40
Alignment explanation
Indices: 59954176--59954273 Score: 94
Period size: 40 Copynumber: 2.5 Consensus size: 40
59954166 ATTTCTATTT
* *
59954176 GTATAAACT-ATAATTCATTCA-CATAACCAGTAATTCATCC
1 GTATAAA-TAATAATTCATTCAGAATAA-CAATAATTCATCC
*
59954216 GTATAAATAATAGTTCA-TCAGTAATAACAATAATTCATCC
1 GTATAAATAATAATTCATTCAG-AATAACAATAATTCATCC
* * *
59954256 GTATCAACAATATTTCAT
1 GTATAAATAATAATTCAT
59954274 CCATATAAAC
Statistics
Matches: 48, Mismatches: 6, Indels: 7
0.79 0.10 0.11
Matches are distributed among these distances:
39 4 0.08
40 40 0.83
41 4 0.08
ACGTcount: A:0.42, C:0.18, G:0.06, T:0.34
Consensus pattern (40 bp):
GTATAAATAATAATTCATTCAGAATAACAATAATTCATCC
Found at i:59954284 original size:20 final size:20
Alignment explanation
Indices: 59954177--59954284 Score: 85
Period size: 20 Copynumber: 5.4 Consensus size: 20
59954167 TTTCTATTTG
* *
59954177 TATAAACTATAATTCATTCA
1 TATAAACAATAATTCATCCA
* * * *
59954197 CATAACCAGTAATTCATCCG
1 TATAAACAATAATTCATCCA
* *
59954217 TATAAATAATAGTTCAT-CA
1 TATAAACAATAATTCATCCA
*
59954236 GTA-ATAACAATAATTCATCCG
1 -TATA-AACAATAATTCATCCA
* *
59954257 TATCAACAATATTTCATCCA
1 TATAAACAATAATTCATCCA
59954277 TATAAACA
1 TATAAACA
59954285 CATATCTTAT
Statistics
Matches: 65, Mismatches: 19, Indels: 8
0.71 0.21 0.09
Matches are distributed among these distances:
19 2 0.03
20 62 0.95
21 1 0.02
ACGTcount: A:0.44, C:0.19, G:0.05, T:0.32
Consensus pattern (20 bp):
TATAAACAATAATTCATCCA
Found at i:59954549 original size:22 final size:22
Alignment explanation
Indices: 59954493--59954595 Score: 143
Period size: 22 Copynumber: 4.5 Consensus size: 22
59954483 CGAGCTGATA
*
59954493 AACAGTAAGCTCTATTGGGCTG
1 AACAGTAAGCTCTATTGAGCTG
*
59954515 AAAGCGGTAAGCTCTATTGAGCTG
1 -AA-CAGTAAGCTCTATTGAGCTG
59954539 AACAGTAAGCTCTATTGAGCTG
1 AACAGTAAGCTCTATTGAGCTG
*
59954561 AACAGTAAGCTCTATCGAGCTG
1 AACAGTAAGCTCTATTGAGCTG
*
59954583 AATCGGTAAGCTC
1 AA-CAGTAAGCTC
59954596 ATACGAGATG
Statistics
Matches: 73, Mismatches: 5, Indels: 4
0.89 0.06 0.05
Matches are distributed among these distances:
22 42 0.58
23 13 0.18
24 18 0.25
ACGTcount: A:0.30, C:0.19, G:0.25, T:0.25
Consensus pattern (22 bp):
AACAGTAAGCTCTATTGAGCTG
Found at i:59954553 original size:46 final size:44
Alignment explanation
Indices: 59954493--59954595 Score: 143
Period size: 46 Copynumber: 2.3 Consensus size: 44
59954483 CGAGCTGATA
* * *
59954493 AACAGTAAGCTCTATTGGGCTGAAAGCGGTAAGCTCTATTGAGCTG
1 AACAGTAAGCTCTATTGAGCTG-AA-CAGTAAGCTCTATCGAGCTG
59954539 AACAGTAAGCTCTATTGAGCTGAACAGTAAGCTCTATCGAGCTG
1 AACAGTAAGCTCTATTGAGCTGAACAGTAAGCTCTATCGAGCTG
*
59954583 AATCGGTAAGCTC
1 AA-CAGTAAGCTC
59954596 ATACGAGATG
Statistics
Matches: 52, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
44 20 0.38
45 11 0.21
46 21 0.40
ACGTcount: A:0.30, C:0.19, G:0.25, T:0.25
Consensus pattern (44 bp):
AACAGTAAGCTCTATTGAGCTGAACAGTAAGCTCTATCGAGCTG
Found at i:59963052 original size:18 final size:18
Alignment explanation
Indices: 59963029--59963067 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 18
59963019 GCCACAGTAC
59963029 CTTTACTAACAGAATTTT
1 CTTTACTAACAGAATTTT
*
59963047 CTTTACTAATAGAATTTT
1 CTTTACTAACAGAATTTT
59963065 CTT
1 CTT
59963068 ATTTCACAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.31, C:0.15, G:0.05, T:0.49
Consensus pattern (18 bp):
CTTTACTAACAGAATTTT
Found at i:59973780 original size:27 final size:26
Alignment explanation
Indices: 59973739--59973798 Score: 66
Period size: 27 Copynumber: 2.3 Consensus size: 26
59973729 ACATTTGTAT
* *
59973739 ATATCTGGTCTGGTGGCCTAGCCACA
1 ATATCTGATCTGGTGACCTAGCCACA
* * *
59973765 ATATCTGTATCTGGTGACTTCGTCACA
1 ATATCTG-ATCTGGTGACCTAGCCACA
59973792 ATATCTG
1 ATATCTG
59973799 GCAGCCTCGC
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
26 7 0.25
27 21 0.75
ACGTcount: A:0.22, C:0.23, G:0.22, T:0.33
Consensus pattern (26 bp):
ATATCTGATCTGGTGACCTAGCCACA
Found at i:59996244 original size:19 final size:20
Alignment explanation
Indices: 59996217--59996254 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 20
59996207 TGAATTTATA
* *
59996217 ATATTTTTA-AAGTTTGATG
1 ATATATTTATAAGCTTGATG
59996236 ATATATTTATAAGCTTGAT
1 ATATATTTATAAGCTTGAT
59996255 AGTTAAATAA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 8 0.50
20 8 0.50
ACGTcount: A:0.34, C:0.03, G:0.13, T:0.50
Consensus pattern (20 bp):
ATATATTTATAAGCTTGATG
Found at i:60008501 original size:43 final size:43
Alignment explanation
Indices: 60008391--60008488 Score: 151
Period size: 43 Copynumber: 2.3 Consensus size: 43
60008381 TTCGAGATGA
* * * *
60008391 GATTATGTGTAAGACCATGTCTGGGAGATTGGCATCATTATGT
1 GATTACGTGTAAGACCATGTCTGGGACAGTGGCATCATTATAT
60008434 GATTACGTGTAAGACCATGTCTGGGACAGTGGCATCATTATAT
1 GATTACGTGTAAGACCATGTCTGGGACAGTGGCATCATTATAT
*
60008477 GATTTCGTGTAA
1 GATTACGTGTAA
60008489 AGCCATAGCT
Statistics
Matches: 50, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
43 50 1.00
ACGTcount: A:0.27, C:0.13, G:0.27, T:0.34
Consensus pattern (43 bp):
GATTACGTGTAAGACCATGTCTGGGACAGTGGCATCATTATAT
Found at i:60009474 original size:20 final size:20
Alignment explanation
Indices: 60009449--60009487 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
60009439 ATGTTTGCCT
*
60009449 TGGTTGTTGATATGGTTAAG
1 TGGTTGTTCATATGGTTAAG
*
60009469 TGGTTGTTCATTTGGTTAA
1 TGGTTGTTCATATGGTTAA
60009488 TTATTAATTG
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:0.18, C:0.03, G:0.31, T:0.49
Consensus pattern (20 bp):
TGGTTGTTCATATGGTTAAG
Found at i:60011943 original size:30 final size:30
Alignment explanation
Indices: 60011886--60011943 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
60011876 TTTTCGAGCC
* **
60011886 TAGGGGTAAAATGGTCATTTTGTCAAAGTT
1 TAGGGGAAAAATGGTCATTTTACCAAAGTT
60011916 TAGGGGAAAAATGGTCATTTTACCAAAG
1 TAGGGGAAAAATGGTCATTTTACCAAAG
60011944 ATATGAATTT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.34, C:0.09, G:0.26, T:0.31
Consensus pattern (30 bp):
TAGGGGAAAAATGGTCATTTTACCAAAGTT
Found at i:60012350 original size:47 final size:45
Alignment explanation
Indices: 60012278--60012483 Score: 179
Period size: 46 Copynumber: 4.5 Consensus size: 45
60012268 GGGTTATTGT
* * *
60012278 GAGCTAGTGTAAAACATGTCTGGGACATGCATTGGCCATATTATGA-
1 GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCAT-TGA-GAC
*
60012324 GAGCTAGTGTAAGACCATGTCTGGGACATGGCATCAG-CATTGAGAC
1 GAGCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCATTGAGAC
*
60012370 GAGTGCTAGTGTAAGACATGTCTGGGACATGCATCGGCC-TCGAGAC
1 GA--GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCATTGAGAC
* * * * * *
60012416 ATAAGTTAGTGTAAGACAT-TTTGGGACATGCATCGGCTA-CGAGAT
1 --GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCATTGAGAC
* *
60012461 GTGTTAGTGTAAGACAATGTCTG
1 GAGCTAGTGTAAGAC-ATGTCTG
60012484 AAACACGACA
Statistics
Matches: 135, Mismatches: 14, Indels: 23
0.78 0.08 0.13
Matches are distributed among these distances:
43 13 0.10
44 2 0.01
45 27 0.20
46 43 0.32
47 32 0.24
48 18 0.13
ACGTcount: A:0.28, C:0.17, G:0.29, T:0.26
Consensus pattern (45 bp):
GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCATTGAGAC
Found at i:60015210 original size:112 final size:112
Alignment explanation
Indices: 60015008--60015267 Score: 344
Period size: 112 Copynumber: 2.3 Consensus size: 112
60014998 TATATGTGGA
* * * *
60015008 ATCGATATGTGACTCTGACATATGTGTGCGAGTAAGTCCACGTTTCATACGTTGGCATCGATATA
1 ATCGATATGTGATTCTGATATATGTGTGCGAGTAAGTCCACATTTCATACATTGGCATCGATATA
* ***
60015073 TGACTCTGATATAAGTGTGAGAGTAA-ATCCATGTTTAATGTGTTGGC
66 TGACTCTGATATAAGTGTGAGAGTAAGA-CCACGTTTAATACATTGGC
* * * *
60015120 ATTGATATGTGATTCCGATATATGTGTGCGAATAAGTCCACATTTCATACATTGGCATCGATATG
1 ATCGATATGTGATTCTGATATATGTGTGCGAGTAAGTCCACATTTCATACATTGGCATCGATATA
*
60015185 TGACTCTGATATATGTGTGCA-AGTAAGACCACGTTTAATACATTGGC
66 TGACTCTGATATAAGTGTG-AGAGTAAGACCACGTTTAATACATTGGC
* * *
60015232 ATCCATATGTGATTTTGATATATGTGTACGAGTAAG
1 ATCGATATGTGATTCTGATATATGTGTGCGAGTAAG
60015268 ACCTTGTATG
Statistics
Matches: 127, Mismatches: 19, Indels: 4
0.85 0.13 0.03
Matches are distributed among these distances:
112 125 0.98
113 2 0.02
ACGTcount: A:0.28, C:0.15, G:0.22, T:0.35
Consensus pattern (112 bp):
ATCGATATGTGATTCTGATATATGTGTGCGAGTAAGTCCACATTTCATACATTGGCATCGATATA
TGACTCTGATATAAGTGTGAGAGTAAGACCACGTTTAATACATTGGC
Found at i:60015268 original size:56 final size:56
Alignment explanation
Indices: 60015008--60015270 Score: 303
Period size: 56 Copynumber: 4.7 Consensus size: 56
60014998 TATATGTGGA
* * * *
60015008 ATCGATATGTGACTCTGACATATGTGTGCGAGTAAGTCCACGTTTCATACGTTGGC
1 ATCGATATGTGACTCTGATATATGTGTGCGAGTAAGACCACGTTTAATACATTGGC
* * * * ***
60015064 ATCGATATATGACTCTGATATAAGTGTGAGAGTAA-ATCCATGTTTAATGTGTTGGC
1 ATCGATATGTGACTCTGATATATGTGTGCGAGTAAGA-CCACGTTTAATACATTGGC
* * * * * * *
60015120 ATTGATATGTGATTCCGATATATGTGTGCGAATAAGTCCACATTTCATACATTGGC
1 ATCGATATGTGACTCTGATATATGTGTGCGAGTAAGACCACGTTTAATACATTGGC
*
60015176 ATCGATATGTGACTCTGATATATGTGTGCAAGTAAGACCACGTTTAATACATTGGC
1 ATCGATATGTGACTCTGATATATGTGTGCGAGTAAGACCACGTTTAATACATTGGC
* * * *
60015232 ATCCATATGTGATTTTGATATATGTGTACGAGTAAGACC
1 ATCGATATGTGACTCTGATATATGTGTGCGAGTAAGACC
60015271 TTGTATGAGG
Statistics
Matches: 169, Mismatches: 36, Indels: 4
0.81 0.17 0.02
Matches are distributed among these distances:
56 169 1.00
ACGTcount: A:0.29, C:0.15, G:0.22, T:0.34
Consensus pattern (56 bp):
ATCGATATGTGACTCTGATATATGTGTGCGAGTAAGACCACGTTTAATACATTGGC
Found at i:60022277 original size:5 final size:5
Alignment explanation
Indices: 60022267--60022297 Score: 62
Period size: 5 Copynumber: 6.2 Consensus size: 5
60022257 TTTTTCTTAC
60022267 AATTT AATTT AATTT AATTT AATTT AATTT A
1 AATTT AATTT AATTT AATTT AATTT AATTT A
60022298 TTATTATTAT
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:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (5 bp):
AATTT
Found at i:60029447 original size:13 final size:13
Alignment explanation
Indices: 60029429--60029455 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
60029419 GAAGTAATTG
60029429 CACACGGGCATGT
1 CACACGGGCATGT
60029442 CACACGGGCATGT
1 CACACGGGCATGT
60029455 C
1 C
60029456 CCTGCCAAGC
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:0.22, C:0.33, G:0.30, T:0.15
Consensus pattern (13 bp):
CACACGGGCATGT
Found at i:60032904 original size:16 final size:18
Alignment explanation
Indices: 60032873--60032905 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
60032863 AACTCGTCAC
60032873 ACTATCTATCATTTTGGT
1 ACTATCTATCATTTTGGT
60032891 ACTA-CTAT-ATTTTGG
1 ACTATCTATCATTTTGG
60032906 AGCTATATGG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
17 4 0.27
18 4 0.27
ACGTcount: A:0.24, C:0.15, G:0.12, T:0.48
Consensus pattern (18 bp):
ACTATCTATCATTTTGGT
Found at i:60035857 original size:43 final size:43
Alignment explanation
Indices: 60035804--60035887 Score: 114
Period size: 43 Copynumber: 2.0 Consensus size: 43
60035794 TCCAAGATGA
* * * * *
60035804 GATTATGTGTAAGACCATGTTTGGGACATTGGCATCATTATGT
1 GATTACGTGTAAGACCATCTCTGGAACATTGACATCATTATGT
*
60035847 GATTACGTGTAAGACCATCTCTGGAACATTGACATCGTTAT
1 GATTACGTGTAAGACCATCTCTGGAACATTGACATCATTAT
60035888 ATGACTTCTT
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
43 35 1.00
ACGTcount: A:0.27, C:0.15, G:0.23, T:0.35
Consensus pattern (43 bp):
GATTACGTGTAAGACCATCTCTGGAACATTGACATCATTATGT
Found at i:60052353 original size:27 final size:27
Alignment explanation
Indices: 60052322--60052499 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
60052312 TAAATTGTAC
60052322 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
60052349 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
60052375 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
60052403 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
60052431 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
60052458 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
60052485 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
60052500 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:60052436 original size:82 final size:81
Alignment explanation
Indices: 60052323--60052478 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
60052313 AAATTGTACA
* *
60052323 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
60052387 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
60052404 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
60052469 TGCGAGTTGA
65 TGCGAATTGA
60052479 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:60052490 original size:82 final size:81
Alignment explanation
Indices: 60052319--60052499 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
60052309 GATTAAATTG
* *
60052319 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
60052384 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
60052400 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
60052464 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
60052482 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
60052500 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:60060413 original size:27 final size:27
Alignment explanation
Indices: 60060382--60060552 Score: 203
Period size: 27 Copynumber: 6.6 Consensus size: 27
60060372 TAAATTGTAC
60060382 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* *
60060409 TGCACTAAGTGTGCGA-ATGA-TATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
*
60060433 AGCACT-AGTGTGCGAATTGAC-ATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
60060457 -GCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
60060484 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
60060511 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
60060538 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
60060553 GACTCAATAT
Statistics
Matches: 126, Mismatches: 11, Indels: 14
0.83 0.07 0.09
Matches are distributed among these distances:
23 14 0.11
24 20 0.16
25 9 0.07
26 6 0.05
27 62 0.49
28 15 0.12
ACGTcount: A:0.26, C:0.15, G:0.29, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:60065195 original size:40 final size:40
Alignment explanation
Indices: 60065108--60065225 Score: 188
Period size: 39 Copynumber: 3.0 Consensus size: 40
60065098 TTGAGGATTA
60065108 TTTCTGGGTTAAGTCCGAAGGCATTCGTG-TGGTTGTTA-
1 TTTCTGGGTTAAGTCCGAAGGCATTCGTGCTGGTTGTTAT
*
60065146 TTTCTGGGTTAAGTCCCGAAGGCATTCGTGCTGGTTGCTAT
1 TTTCTGGGTTAAGT-CCGAAGGCATTCGTGCTGGTTGTTAT
*
60065187 TTTC-GGGTTAAGTCCGAAGGCATTTGTGCTGGTTGTTAT
1 TTTCTGGGTTAAGTCCGAAGGCATTCGTGCTGGTTGTTAT
60065226 ATCCGGGCTA
Statistics
Matches: 74, Mismatches: 3, Indels: 5
0.90 0.04 0.06
Matches are distributed among these distances:
38 14 0.19
39 39 0.53
40 17 0.23
41 4 0.05
ACGTcount: A:0.15, C:0.15, G:0.31, T:0.39
Consensus pattern (40 bp):
TTTCTGGGTTAAGTCCGAAGGCATTCGTGCTGGTTGTTAT
Found at i:60065204 original size:39 final size:41
Alignment explanation
Indices: 60065108--60065248 Score: 186
Period size: 39 Copynumber: 3.6 Consensus size: 41
60065098 TTGAGGATTA
60065108 TTTCTGGGTTAAGT-CCGAAGGCATTCGTG-TGGTTGTTA-
1 TTTCTGGGTTAAGTCCCGAAGGCATTCGTGCTGGTTGTTAT
*
60065146 TTTCTGGGTTAAGTCCCGAAGGCATTCGTGCTGGTTGCTAT
1 TTTCTGGGTTAAGTCCCGAAGGCATTCGTGCTGGTTGTTAT
*
60065187 TTTC-GGGTTAAGT-CCGAAGGCATTTGTGCTGGTTGTTA-
1 TTTCTGGGTTAAGTCCCGAAGGCATTCGTGCTGGTTGTTAT
* * * *
60065225 TATCCGGGCTAAATCCCGAAGGCA
1 TTTCTGGGTTAAGTCCCGAAGGCA
60065249 ATTGGGTTGG
Statistics
Matches: 92, Mismatches: 6, Indels: 8
0.87 0.06 0.08
Matches are distributed among these distances:
38 17 0.18
39 45 0.49
40 26 0.28
41 4 0.04
ACGTcount: A:0.18, C:0.18, G:0.30, T:0.35
Consensus pattern (41 bp):
TTTCTGGGTTAAGTCCCGAAGGCATTCGTGCTGGTTGTTAT
Found at i:60066472 original size:27 final size:27
Alignment explanation
Indices: 60066442--60066495 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
60066432 TGTCATGTGA
* *
60066442 AATTGAATGGCAAATTATTGTTACATG
1 AATTGAATGGCAAATTACTATTACATG
**
60066469 AATTGAATGTTAAATTACTATTACATG
1 AATTGAATGGCAAATTACTATTACATG
60066496 GGTTGTATGA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.39, C:0.07, G:0.15, T:0.39
Consensus pattern (27 bp):
AATTGAATGGCAAATTACTATTACATG
Found at i:60086482 original size:47 final size:47
Alignment explanation
Indices: 60086404--60086807 Score: 637
Period size: 47 Copynumber: 8.6 Consensus size: 47
60086394 CCCTTCGGGA
* * * * * *
60086404 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
60086451 CCTGTCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
60086498 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
60086545 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
60086592 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
60086641 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
60086688 CTTATCACATATATACACTTTCACATTCATCACATTGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
60086735 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
60086782 CTTATCACATATATATACATTCACAT
1 CTTATCACATATATACACTTTCACAT
60086808 CACAATTATC
Statistics
Matches: 335, Mismatches: 20, Indels: 4
0.93 0.06 0.01
Matches are distributed among these distances:
47 289 0.86
49 46 0.14
ACGTcount: A:0.29, C:0.29, G:0.09, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:60086738 original size:190 final size:190
Alignment explanation
Indices: 60086404--60086808 Score: 692
Period size: 190 Copynumber: 2.2 Consensus size: 190
60086394 CCCTTCGGGA
* * *
60086404 CTTATCACAT-T-TATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATAC
1 CTTATCACATATATATACACTTTCACATCCATCACATCGGCCACTCGGCCCTATCACATATATAC
*
60086467 ACTTTCACATTCATCACATCGGCTATTAGGCCCTGTCACATATATACACTTTCACATTCATCACA
66 ACTTTCACATTCATCACATCGGCTATTAGGCCCTATCACATATATACACTTTCACATTCATCACA
60086532 TCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
131 TCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
60086592 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTCGGCCTTATCACATATATAC
1 CTTATCACATATATATACACTTTCACATCCATCACATCGGCCACTCGGCCCTATCACATATATAC
*
60086657 ACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
66 ACTTTCACATTCATCACATCGGCTATTAGGCCCTATCACATATATACACTTTCACATTCATCACA
* *
60086722 TTGGCTATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
131 TCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
60086782 CTTATCACATATATATACA--TTCACATC
1 CTTATCACATATATATACACTTTCACATC
60086809 ACAATTATCC
Statistics
Matches: 204, Mismatches: 11, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
188 17 0.08
189 1 0.00
190 186 0.91
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.33
Consensus pattern (190 bp):
CTTATCACATATATATACACTTTCACATCCATCACATCGGCCACTCGGCCCTATCACATATATAC
ACTTTCACATTCATCACATCGGCTATTAGGCCCTATCACATATATACACTTTCACATTCATCACA
TCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:60102481 original size:21 final size:21
Alignment explanation
Indices: 60102443--60102482 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
60102433 AAAAATAAAG
** *
60102443 AATAAAAACTTAATTAAATAA
1 AATAAAAAAATAACTAAATAA
60102464 AATAAAAAAATAACTAAAT
1 AATAAAAAAATAACTAAAT
60102483 TGCAAGAGAT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.70, C:0.05, G:0.00, T:0.25
Consensus pattern (21 bp):
AATAAAAAAATAACTAAATAA
Found at i:60102738 original size:15 final size:16
Alignment explanation
Indices: 60102720--60102753 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
60102710 AGATTAAATT
60102720 AATTAA-CTAAATGAA
1 AATTAACCTAAATGAA
*
60102735 AATTAACCTAAATGCA
1 AATTAACCTAAATGAA
60102751 AAT
1 AAT
60102754 GAGATGAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 6 0.35
16 11 0.65
ACGTcount: A:0.56, C:0.12, G:0.06, T:0.26
Consensus pattern (16 bp):
AATTAACCTAAATGAA
Found at i:60106879 original size:15 final size:17
Alignment explanation
Indices: 60106859--60106890 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
60106849 TATAACTTAA
60106859 CAATTC-AT-ACAATAT
1 CAATTCAATGACAATAT
60106874 CAATTCAATGACAATAT
1 CAATTCAATGACAATAT
60106891 GAATACAAGT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 6 0.40
16 2 0.13
17 7 0.47
ACGTcount: A:0.47, C:0.19, G:0.03, T:0.31
Consensus pattern (17 bp):
CAATTCAATGACAATAT
Found at i:60115081 original size:68 final size:65
Alignment explanation
Indices: 60114867--60115088 Score: 218
Period size: 64 Copynumber: 3.4 Consensus size: 65
60114857 CATAATTTTG
** * *
60114867 GCTCTCTTGTACACATGGTGTACACATAGTATCACCCATGTGACCTAGCCA-CTTTA-TCTCGTA
1 GCTCTCTTGTACACATGGTGTACACATAGTATCACCCATGCAACCTAGCTACCTCTATTCTCGTA
** * * * * * * *
60114930 GCTCTCTTGTTTACATGGTGTCCTTCACCTGGAACCACACATGCAACCTAGCTACATCTA-TCTC
1 GCTCTCTTGTACACATGGTG---TACACATAGTATCACCCATGCAACCTAGCTACCTCTATTCTC
60114994 GTA
63 GTA
60114997 GCTCTCTTGT-CTACATGGTGTACACATAGTATCACCCATGCAACCTAGCTACCTCATAATGTCT
1 GCTCTCTTGTAC-ACATGGTGTACACATAGTATCACCCATGCAACCTAGCTACCTC-T-AT-TCT
60115061 CGTA
62 CGTA
* *
60115065 GCTCTGTTGTACACATGGTATACA
1 GCTCTCTTGTACACATGGTGTACA
60115089 TCCCGTATTA
Statistics
Matches: 126, Mismatches: 23, Indels: 15
0.77 0.14 0.09
Matches are distributed among these distances:
63 18 0.14
64 28 0.22
65 1 0.01
66 23 0.18
67 28 0.22
68 27 0.21
69 1 0.01
ACGTcount: A:0.24, C:0.29, G:0.16, T:0.32
Consensus pattern (65 bp):
GCTCTCTTGTACACATGGTGTACACATAGTATCACCCATGCAACCTAGCTACCTCTATTCTCGTA
Found at i:60116760 original size:44 final size:47
Alignment explanation
Indices: 60116710--60116830 Score: 171
Period size: 47 Copynumber: 2.6 Consensus size: 47
60116700 TATGCGTGCT
60116710 GATGCATGTCCCAGACATGTCTTACACTAGCGC-AACTC-TT-A-GCC
1 GATGCATGTCCCAGACATGTCTTACACTAG-GCTAACTCGTTGAGGCC
* *
60116754 GATGCATGTCCCAGACACGTCTTACACT-GGCTATCTCTGTTGAGGCC
1 GATGCATGTCCCAGACATGTCTTACACTAGGCTAACTC-GTTGAGGCC
60116801 GATGCATGTCCCAGACATGTCTTACACTAG
1 GATGCATGTCCCAGACATGTCTTACACTAG
60116831 TGCTCGTCTG
Statistics
Matches: 68, Mismatches: 3, Indels: 8
0.86 0.04 0.10
Matches are distributed among these distances:
42 2 0.03
43 5 0.07
44 27 0.40
45 2 0.03
46 1 0.01
47 30 0.44
48 1 0.01
ACGTcount: A:0.23, C:0.30, G:0.21, T:0.26
Consensus pattern (47 bp):
GATGCATGTCCCAGACATGTCTTACACTAGGCTAACTCGTTGAGGCC
Found at i:60116856 original size:47 final size:44
Alignment explanation
Indices: 60116710--60116872 Score: 170
Period size: 47 Copynumber: 3.5 Consensus size: 44
60116700 TATGCGTGCT
* *
60116710 GATGCATGTCCCAGACATGTCTTACACTAGCGCAACTCT-TAGCC
1 GATGCATGTCCCAGACATGTCTTACACTAG-GCATCTCTGGAGCC
*
60116754 GATGCATGTCCCAGACACGTCTTACACT-GGCTATCTCTGTTGAGGCC
1 GATGCATGTCCCAGACATGTCTTACACTAGGC-ATCTCTG--GA-GCC
*
60116801 GATGCATGTCCCAGACATGTCTTACACTAGTGC-TCGTCTGGATGTC
1 GATGCATGTCCCAGACATGTCTTACACTAG-GCATC-TCTGGA-GCC
*
60116847 GATGCCATGTCCTAGACATGGTCTTA
1 GATG-CATGTCCCAGACAT-GTCTTA
60116873 TAATGGCGCA
Statistics
Matches: 102, Mismatches: 7, Indels: 16
0.82 0.06 0.13
Matches are distributed among these distances:
42 2 0.02
43 6 0.06
44 27 0.26
46 9 0.09
47 45 0.44
48 11 0.11
49 2 0.02
ACGTcount: A:0.21, C:0.28, G:0.22, T:0.28
Consensus pattern (44 bp):
GATGCATGTCCCAGACATGTCTTACACTAGGCATCTCTGGAGCC
Found at i:60118520 original size:16 final size:16
Alignment explanation
Indices: 60118495--60118525 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
60118485 TCGGCAAATC
*
60118495 TCGAATTGCCGAAAAG
1 TCGAAATGCCGAAAAG
60118511 TCGAAATGCCGAAAA
1 TCGAAATGCCGAAAA
60118526 ACTGGAAGTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.19, G:0.23, T:0.16
Consensus pattern (16 bp):
TCGAAATGCCGAAAAG
Found at i:60118788 original size:28 final size:28
Alignment explanation
Indices: 60118745--60118847 Score: 143
Period size: 28 Copynumber: 3.7 Consensus size: 28
60118735 ATTGCATGAC
* *
60118745 TATGAGTGTGAGTGGGCCTGATGGGCCA
1 TATGAATGTGATTGGGCCTGATGGGCCA
* *
60118773 TATGAAAGTGATTGGGTCTGATGGGCCA
1 TATGAATGTGATTGGGCCTGATGGGCCA
* *
60118801 TATGAATGCGATTGGGCCCGATGGGCCA
1 TATGAATGTGATTGGGCCTGATGGGCCA
*
60118829 TATGAATGAGATTGGGCCT
1 TATGAATGTGATTGGGCCT
60118848 AAAGGGGCCA
Statistics
Matches: 65, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
28 65 1.00
ACGTcount: A:0.22, C:0.15, G:0.37, T:0.26
Consensus pattern (28 bp):
TATGAATGTGATTGGGCCTGATGGGCCA
Found at i:60133408 original size:93 final size:93
Alignment explanation
Indices: 60133296--60133468 Score: 301
Period size: 93 Copynumber: 1.9 Consensus size: 93
60133286 CGCCCATAAG
*
60133296 CGAACTCAGACTCAACTCAACGAGCTCGGGCATTCGCATCCATAAATGAACTCGGACTCAACTCA
1 CGAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCA
*
60133361 ATGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
* * *
60133389 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCA
60133454 ACGAGTTCGGATGCC
66 ACGAGTTCGGATGCC
60133469 CAAATATCCC
Statistics
Matches: 75, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.21
Consensus pattern (93 bp):
CGAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:60133464 original size:46 final size:46
Alignment explanation
Indices: 60133289--60133464 Score: 198
Period size: 46 Copynumber: 3.8 Consensus size: 46
60133279 TGTAACCCGC
* * *
60133289 CCATAAGCGAACTCAGACTCAACTCAACGAGCTCGGGCATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
** * *
60133335 CCATAAATGAACTCGGACTCAACTCAATGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
60133385 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
60133428 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
60133465 TGCCCAAATA
Statistics
Matches: 108, Mismatches: 13, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 60 0.56
47 28 0.26
48 2 0.02
49 2 0.02
50 4 0.04
51 2 0.02
ACGTcount: A:0.31, C:0.29, G:0.19, T:0.21
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:60140466 original size:93 final size:92
Alignment explanation
Indices: 60140354--60140524 Score: 306
Period size: 93 Copynumber: 1.8 Consensus size: 92
60140344 CGCCCATAAG
* *
60140354 CGAACTCGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 CGAACTCGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
60140419 CGAGTTCGGATGCCTAGTTACATCTCA
66 CGAGTTCGGATGCCTAGTTACATCTCA
*
60140446 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTC-GACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
60140511 ACGAGTTCGGATGC
65 ACGAGTTCGGATGC
60140525 TCAACCATCC
Statistics
Matches: 75, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
92 7 0.09
93 68 0.91
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.21
Consensus pattern (92 bp):
CGAACTCGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCA
Found at i:60140521 original size:46 final size:46
Alignment explanation
Indices: 60140347--60140521 Score: 207
Period size: 46 Copynumber: 3.8 Consensus size: 46
60140337 TGTAACCCGC
* * *
60140347 CCATAAGCGAACTC-GACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
60140392 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
60140442 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
60140485 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
60140522 TGCTCAACCA
Statistics
Matches: 110, Mismatches: 10, Indels: 19
0.79 0.07 0.14
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 15 0.14
46 49 0.45
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.21
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:60140540 original size:46 final size:46
Alignment explanation
Indices: 60140395--60140533 Score: 144
Period size: 47 Copynumber: 3.0 Consensus size: 46
60140385 TTCGCATCCA
60140395 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGC-CTAGTTA-CATC
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTC-A---ACCATC
* * * * *
60140443 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA--
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGG--ATGCTCAACCATC
60140488 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATC
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATC
60140534 CTAGTGACAT
Statistics
Matches: 75, Mismatches: 9, Indels: 16
0.75 0.09 0.16
Matches are distributed among these distances:
44 8 0.11
45 2 0.03
46 28 0.37
47 30 0.40
48 2 0.03
49 4 0.05
50 1 0.01
ACGTcount: A:0.29, C:0.29, G:0.19, T:0.22
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATC
Found at i:60147529 original size:93 final size:93
Alignment explanation
Indices: 60147416--60147587 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
60147406 CGCCCATAAG
* *
60147416 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
60147481 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
60147509 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
60147574 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
60147588 TCAACCATCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:60147584 original size:46 final size:46
Alignment explanation
Indices: 60147409--60147584 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
60147399 TGTAACCCGC
* * *
60147409 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
60147455 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
60147505 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
60147548 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
60147585 TGCTCAACCA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 63 0.57
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:60162562 original size:13 final size:13
Alignment explanation
Indices: 60162544--60162570 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
60162534 AAGATAGGGT
60162544 AGATAATACAAAC
1 AGATAATACAAAC
60162557 AGATAATACAAAC
1 AGATAATACAAAC
60162570 A
1 A
60162571 TCGAGCCACT
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):
AGATAATACAAAC
Found at i:60166439 original size:12 final size:12
Alignment explanation
Indices: 60166422--60166453 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
60166412 ATCACTAACC
60166422 CAATACCCAAAT
1 CAATACCCAAAT
60166434 CAATACCCAAAT
1 CAATACCCAAAT
*
60166446 TAATACCC
1 CAATACCC
60166454 TAGCCCAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.47, C:0.34, G:0.00, T:0.19
Consensus pattern (12 bp):
CAATACCCAAAT
Found at i:60167802 original size:25 final size:25
Alignment explanation
Indices: 60167770--60167851 Score: 98
Period size: 25 Copynumber: 3.3 Consensus size: 25
60167760 TAAAATTCTC
60167770 TTTATGTAAATTTATATTTAAAATA
1 TTTATGTAAATTTATATTTAAAATA
* *
60167795 TTTATGT-AATATT-TA-TTCACATA
1 TTTATGTAAAT-TTATATTTAAAATA
*
60167818 CATTATGTAAATTTATATTTAAAATA
1 -TTTATGTAAATTTATATTTAAAATA
60167844 TTTATGTA
1 TTTATGTA
60167852 GTATTCATTC
Statistics
Matches: 46, Mismatches: 6, Indels: 10
0.74 0.10 0.16
Matches are distributed among these distances:
23 6 0.13
24 13 0.28
25 21 0.46
26 6 0.13
ACGTcount: A:0.40, C:0.04, G:0.05, T:0.51
Consensus pattern (25 bp):
TTTATGTAAATTTATATTTAAAATA
Found at i:60167824 original size:49 final size:49
Alignment explanation
Indices: 60167771--60167870 Score: 173
Period size: 49 Copynumber: 2.0 Consensus size: 49
60167761 AAAATTCTCT
*
60167771 TTATGTAAATTTATATTTAAAATATTTATGTAATATTTATTCACATACA
1 TTATGTAAATTTATATTTAAAATATTTATGTAATATTCATTCACATACA
* *
60167820 TTATGTAAATTTATATTTAAAATATTTATGTAGTATTCATTCTCATACA
1 TTATGTAAATTTATATTTAAAATATTTATGTAATATTCATTCACATACA
60167869 TT
1 TT
60167871 GATATTTATA
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
49 48 1.00
ACGTcount: A:0.38, C:0.07, G:0.05, T:0.50
Consensus pattern (49 bp):
TTATGTAAATTTATATTTAAAATATTTATGTAATATTCATTCACATACA
Found at i:60168545 original size:19 final size:18
Alignment explanation
Indices: 60168516--60168556 Score: 73
Period size: 19 Copynumber: 2.2 Consensus size: 18
60168506 GATATTGTTA
60168516 ATTTCAAATAAATGTTTT
1 ATTTCAAATAAATGTTTT
60168534 ATTTCTAAATAAATGTTTT
1 ATTTC-AAATAAATGTTTT
60168553 ATTT
1 ATTT
60168557 GATTCAAATG
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
18 5 0.23
19 17 0.77
ACGTcount: A:0.37, C:0.05, G:0.05, T:0.54
Consensus pattern (18 bp):
ATTTCAAATAAATGTTTT
Found at i:60171578 original size:29 final size:29
Alignment explanation
Indices: 60171515--60171622 Score: 103
Period size: 29 Copynumber: 3.8 Consensus size: 29
60171505 TTCACATACC
* * *
60171515 TATATCTGGCCTATTAAGCCC-AATCATA
1 TATATATGGCCTATTAGGCCCAAATCACA
* *
60171543 TTTATATGGCCTATTAGGCCCAAATCACC
1 TATATATGGCCTATTAGGCCCAAATCACA
* *
60171572 TATATATGGTCC-ATTAGGCCTAAATCGCA
1 TATATATGG-CCTATTAGGCCCAAATCACA
* **
60171601 TTTATATGGCCCGTTAGGCCCA
1 TATATATGGCCTATTAGGCCCA
60171623 GTCACATTCA
Statistics
Matches: 65, Mismatches: 12, Indels: 5
0.79 0.15 0.06
Matches are distributed among these distances:
28 20 0.31
29 43 0.66
30 2 0.03
ACGTcount: A:0.28, C:0.25, G:0.16, T:0.31
Consensus pattern (29 bp):
TATATATGGCCTATTAGGCCCAAATCACA
Found at i:60171874 original size:16 final size:16
Alignment explanation
Indices: 60171853--60171903 Score: 77
Period size: 16 Copynumber: 3.2 Consensus size: 16
60171843 AACTTTAGGC
60171853 TTTCGGCATTTCAGCT
1 TTTCGGCATTTCAGCT
60171869 TTTCGGCATTTCAG-T
1 TTTCGGCATTTCAGCT
*
60171884 ATTTCGGCATTTCGGCT
1 -TTTCGGCATTTCAGCT
60171901 TTT
1 TTT
60171904 GTCAATTCAT
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
15 1 0.03
16 30 0.94
17 1 0.03
ACGTcount: A:0.12, C:0.22, G:0.20, T:0.47
Consensus pattern (16 bp):
TTTCGGCATTTCAGCT
Found at i:60171897 original size:8 final size:8
Alignment explanation
Indices: 60171853--60171899 Score: 58
Period size: 8 Copynumber: 5.9 Consensus size: 8
60171843 AACTTTAGGC
60171853 TTTCGGCA
1 TTTCGGCA
* *
60171861 TTTCAGCT
1 TTTCGGCA
60171869 TTTCGGCA
1 TTTCGGCA
* *
60171877 TTTCAGTA
1 TTTCGGCA
60171885 TTTCGGCA
1 TTTCGGCA
60171893 TTTCGGC
1 TTTCGGC
60171900 TTTTGTCAAT
Statistics
Matches: 31, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
8 31 1.00
ACGTcount: A:0.13, C:0.23, G:0.21, T:0.43
Consensus pattern (8 bp):
TTTCGGCA
Found at i:60176068 original size:28 final size:28
Alignment explanation
Indices: 60176025--60176167 Score: 171
Period size: 28 Copynumber: 5.0 Consensus size: 28
60176015 TACCTGTATC
** *
60176025 TGGCCCATTAACCCCAATCATATTTATA
1 TGGCCCATTAGGCCCAATCACATTTATA
60176053 TGGCCCATTAGGCCCAAATCAC-TTGTATA
1 TGGCCCATTAGGCCC-AATCACATT-TATA
*
60176082 TGGCCCATTAGGTCCAAATCACATTTATA
1 TGGCCCATTAGG-CCCAATCACATTTATA
* *
60176111 TGGCCCGTTAGGCCCAGTCACATTTATA
1 TGGCCCATTAGGCCCAATCACATTTATA
* * *
60176139 TGGCCCGTTAGGCCCAGTCACATTCATA
1 TGGCCCATTAGGCCCAATCACATTTATA
60176167 T
1 T
60176168 TCATGCTCAC
Statistics
Matches: 103, Mismatches: 8, Indels: 8
0.87 0.07 0.07
Matches are distributed among these distances:
28 57 0.55
29 42 0.41
30 4 0.04
ACGTcount: A:0.27, C:0.28, G:0.16, T:0.29
Consensus pattern (28 bp):
TGGCCCATTAGGCCCAATCACATTTATA
Found at i:60176113 original size:58 final size:56
Alignment explanation
Indices: 60176025--60176167 Score: 162
Period size: 57 Copynumber: 2.5 Consensus size: 56
60176015 TACCTGTATC
** * *
60176025 TGGCCCATTAACCCCAATCATATTTATATGGCCCATTAGGCCCAAATCAC-TTGTATA
1 TGGCCCATTAGGCCAAATCACATTTATATGGCCCATTAGGCCC-AATCACATT-TATA
* *
60176082 TGGCCCATTAGGTCCAAATCACATTTATATGGCCCGTTAGGCCCAGTCACATTTATA
1 TGGCCCATTAGG-CCAAATCACATTTATATGGCCCATTAGGCCCAATCACATTTATA
* * * *
60176139 TGGCCCGTTAGGCCCAGTCACATTCATAT
1 TGGCCCATTAGGCCAAATCACATTTATAT
60176168 TCATGCTCAC
Statistics
Matches: 74, Mismatches: 10, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
56 14 0.19
57 30 0.41
58 30 0.41
ACGTcount: A:0.27, C:0.28, G:0.16, T:0.29
Consensus pattern (56 bp):
TGGCCCATTAGGCCAAATCACATTTATATGGCCCATTAGGCCCAATCACATTTATA
Found at i:60177267 original size:40 final size:40
Alignment explanation
Indices: 60177223--60177449 Score: 328
Period size: 40 Copynumber: 5.7 Consensus size: 40
60177213 CCAACCTAAT
* * ** *
60177223 TGCCTTCGGGATTTAGCCCGGATGTAACAACCAGCACAAA
1 TGCCTTCGGGACTTAACCCGGAAATAACAACCAGCACGAA
* * *
60177263 TGCCTTCGGGACTTAACCCGGAAATAGCGACCAGGACGAA
1 TGCCTTCGGGACTTAACCCGGAAATAACAACCAGCACGAA
* **
60177303 TGCCTTCGGGGCTTAACCTAGAAATAACAACCAGCACGAA
1 TGCCTTCGGGACTTAACCCGGAAATAACAACCAGCACGAA
*
60177343 TGCCTTCGGGACTTAACCCGGAAATAACAACTAGCACGAA
1 TGCCTTCGGGACTTAACCCGGAAATAACAACCAGCACGAA
*
60177383 TGCCTTCGGGACTTAACCCGGAAATAGCAACCAGCACGAA
1 TGCCTTCGGGACTTAACCCGGAAATAACAACCAGCACGAA
*
60177423 TGCCTTCGGGACTTAACCCGGATATAA
1 TGCCTTCGGGACTTAACCCGGAAATAA
60177450 TCCTCAATTG
Statistics
Matches: 165, Mismatches: 22, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
40 165 1.00
ACGTcount: A:0.32, C:0.28, G:0.22, T:0.18
Consensus pattern (40 bp):
TGCCTTCGGGACTTAACCCGGAAATAACAACCAGCACGAA
Found at i:60183891 original size:15 final size:15
Alignment explanation
Indices: 60183873--60183906 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
60183863 GCAAAGGTTG
60183873 AAAA-GCTGAAAAGCC
1 AAAAGGCTGAAAAG-C
60183888 AAAAGGCTGAAAAGC
1 AAAAGGCTGAAAAGC
60183903 AAAA
1 AAAA
60183907 AAAGTGGGTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 9 0.50
16 9 0.50
ACGTcount: A:0.59, C:0.15, G:0.21, T:0.06
Consensus pattern (15 bp):
AAAAGGCTGAAAAGC
Found at i:60183907 original size:16 final size:15
Alignment explanation
Indices: 60183873--60183907 Score: 52
Period size: 16 Copynumber: 2.3 Consensus size: 15
60183863 GCAAAGGTTG
60183873 AAAAGCTGAAAAGCCA
1 AAAAGCTGAAAAG-CA
*
60183889 AAAGGCTGAAAAGCA
1 AAAAGCTGAAAAGCA
60183904 AAAA
1 AAAA
60183908 AAGTGGGTTG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
15 5 0.29
16 12 0.71
ACGTcount: A:0.60, C:0.14, G:0.20, T:0.06
Consensus pattern (15 bp):
AAAAGCTGAAAAGCA
Found at i:60184083 original size:84 final size:84
Alignment explanation
Indices: 60183942--60184103 Score: 279
Period size: 84 Copynumber: 1.9 Consensus size: 84
60183932 GTGTGTCGGC
* * *
60183942 GCCCGTGTGGCAGGCCGTGTGACAAAACATGGTTGTGTGGTCTACGAGATGGCCATGAGAGTCTT
1 GCCCGCGTGGCAGGCCGTGTGACAAAACATGGCTGTGTGGTCGACGAGATGGCCATGAGAGTCTT
60184007 CATGGGCCGAAACGATTAT
66 CATGGGCCGAAACGATTAT
*
60184026 GCCCGCGTGGCAGGCCGTGTGACAAAACATGGCTGTGTGGTCGACGAGATGGCCATGAGCGTCTT
1 GCCCGCGTGGCAGGCCGTGTGACAAAACATGGCTGTGTGGTCGACGAGATGGCCATGAGAGTCTT
*
60184091 CATGGGCTGAAAC
66 CATGGGCCGAAAC
60184104 AATACTGTGC
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
84 73 1.00
ACGTcount: A:0.22, C:0.22, G:0.35, T:0.22
Consensus pattern (84 bp):
GCCCGCGTGGCAGGCCGTGTGACAAAACATGGCTGTGTGGTCGACGAGATGGCCATGAGAGTCTT
CATGGGCCGAAACGATTAT
Found at i:60199953 original size:44 final size:44
Alignment explanation
Indices: 60199890--60200422 Score: 690
Period size: 44 Copynumber: 12.1 Consensus size: 44
60199880 CGAATCCCAT
* * *
60199890 AGATTTAGCGTCTCTGTATTGTCAGAGGGCAGATCGAAGATAGC
1 AGATTTGGCGTCTCTGTATTGGCAGAGAGCAGATCGAAGATAGC
* * *
60199934 AGATTTGGCGTCTCTGTATTGGCGGAGAACAGATCGAAGATAAC
1 AGATTTGGCGTCTCTGTATTGGCAGAGAGCAGATCGAAGATAGC
* *
60199978 AGATTTGGCGTCTCTATATTGGCAGGGAGCAGATCGAAGATAGC
1 AGATTTGGCGTCTCTGTATTGGCAGAGAGCAGATCGAAGATAGC
* * * *
60200022 AGATTTGGCGTCTCTGTATTGTCAGAGGGTAGATCGAAGATAGT
1 AGATTTGGCGTCTCTGTATTGGCAGAGAGCAGATCGAAGATAGC
* * * * *
60200066 AGATTTGGCGTCTCTATATTGGCGGAGAGTAGATTGAAGATAAC
1 AGATTTGGCGTCTCTGTATTGGCAGAGAGCAGATCGAAGATAGC
* * * *
60200110 AGATTTGGCGTCCCTATATTGGGAGGGAGCAGATCGAAGATAGC
1 AGATTTGGCGTCTCTGTATTGGCAGAGAGCAGATCGAAGATAGC
* * *
60200154 AGATTTGGCGTCTCTGTATTGTCAGAGGGCAGATCGAAGATAGA
1 AGATTTGGCGTCTCTGTATTGGCAGAGAGCAGATCGAAGATAGC
* * *
60200198 AGATTTGGCGTCTCTGTATTGGCGGAGAGCAGATCAAAGATAAC
1 AGATTTGGCGTCTCTGTATTGGCAGAGAGCAGATCGAAGATAGC
*
60200242 AGATTTGGCGTCTCTGTATTGGCAGAGAGCAGATCAAAGATAGC
1 AGATTTGGCGTCTCTGTATTGGCAGAGAGCAGATCGAAGATAGC
** * * *
60200286 AGATTTGGCACCTCTATATTGGCGGAGAGCAGATCAAAGATAGC
1 AGATTTGGCGTCTCTGTATTGGCAGAGAGCAGATCGAAGATAGC
* *
60200330 AGATTTGGCATCTCTGTATTGACAGAGAGCAGATCGAAGAT-GAC
1 AGATTTGGCGTCTCTGTATTGGCAGAGAGCAGATCGAAGATAG-C
* * * * *
60200374 AGATTTGGCATCTCTATATTGGCAGAGAGCAGATAGAAAATAAC
1 AGATTTGGCGTCTCTGTATTGGCAGAGAGCAGATCGAAGATAGC
60200418 AGATT
1 AGATT
60200423 GGTGTTCCTG
Statistics
Matches: 427, Mismatches: 60, Indels: 4
0.87 0.12 0.01
Matches are distributed among these distances:
43 1 0.00
44 426 1.00
ACGTcount: A:0.30, C:0.15, G:0.29, T:0.26
Consensus pattern (44 bp):
AGATTTGGCGTCTCTGTATTGGCAGAGAGCAGATCGAAGATAGC
Found at i:60200127 original size:132 final size:132
Alignment explanation
Indices: 60199890--60200422 Score: 796
Period size: 132 Copynumber: 4.0 Consensus size: 132
60199880 CGAATCCCAT
*
60199890 AGATTTAGCGTCTCTGTATTGTCAGAGGGCAGATCGAAGATAGCAGATTTGGCGTCTCTGTATTG
1 AGATTTGGCGTCTCTGTATTGTCAGAGGGCAGATCGAAGATAGCAGATTTGGCGTCTCTGTATTG
* *
60199955 GCGGAGAACAGATCGAAGATAACAGATTTGGCGTCTCTATATTGGCAGGGAGCAGATCGAAGATA
66 GCGGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTATATTGGCAGAGAGCAGATCGAAGATA
60200020 GC
131 GC
* * *
60200022 AGATTTGGCGTCTCTGTATTGTCAGAGGGTAGATCGAAGATAGTAGATTTGGCGTCTCTATATTG
1 AGATTTGGCGTCTCTGTATTGTCAGAGGGCAGATCGAAGATAGCAGATTTGGCGTCTCTGTATTG
* * * * *
60200087 GCGGAGAGTAGATTGAAGATAACAGATTTGGCGTCCCTATATTGGGAGGGAGCAGATCGAAGATA
66 GCGGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTATATTGGCAGAGAGCAGATCGAAGATA
60200152 GC
131 GC
*
60200154 AGATTTGGCGTCTCTGTATTGTCAGAGGGCAGATCGAAGATAGAAGATTTGGCGTCTCTGTATTG
1 AGATTTGGCGTCTCTGTATTGTCAGAGGGCAGATCGAAGATAGCAGATTTGGCGTCTCTGTATTG
* * *
60200219 GCGGAGAGCAGATCAAAGATAACAGATTTGGCGTCTCTGTATTGGCAGAGAGCAGATCAAAGATA
66 GCGGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTATATTGGCAGAGAGCAGATCGAAGATA
60200284 GC
131 GC
** * * * * * *
60200286 AGATTTGGCACCTCTATATTGGCGGAGAGCAGATCAAAGATAGCAGATTTGGCATCTCTGTATTG
1 AGATTTGGCGTCTCTGTATTGTCAGAGGGCAGATCGAAGATAGCAGATTTGGCGTCTCTGTATTG
* * * * * *
60200351 ACAGAGAGCAGATCGAAGATGACAGATTTGGCATCTCTATATTGGCAGAGAGCAGATAGAAAATA
66 GCGGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTATATTGGCAGAGAGCAGATCGAAGATA
*
60200416 AC
131 GC
60200418 AGATT
1 AGATT
60200423 GGTGTTCCTG
Statistics
Matches: 362, Mismatches: 39, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
132 362 1.00
ACGTcount: A:0.30, C:0.15, G:0.29, T:0.26
Consensus pattern (132 bp):
AGATTTGGCGTCTCTGTATTGTCAGAGGGCAGATCGAAGATAGCAGATTTGGCGTCTCTGTATTG
GCGGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTATATTGGCAGAGAGCAGATCGAAGATA
GC
Found at i:60214074 original size:48 final size:47
Alignment explanation
Indices: 60214018--60214342 Score: 407
Period size: 48 Copynumber: 6.8 Consensus size: 47
60214008 CCTATGGTAT
* *
60214018 TGTGATCCCATGTAAGACCAAGTTAGGGAAATGGCATTGGCATCGATA
1 TGTGATCCCATGTAAGACCATGTT-GGGACATGGCATTGGCATCGATA
* * * *
60214066 TATGATCCCATGTAAGACCATATTTGAGACATGGCATTGGCATTGATA
1 TGTGATCCCATGTAAGACCAT-GTTGGGACATGGCATTGGCATCGATA
* * *
60214114 TGTGATCCCATGTAAAACCATGTCTGGGATATGGCATTAGCATCGATA
1 TGTGATCCCATGTAAGACCATGT-TGGGACATGGCATTGGCATCGATA
* *
60214162 TGTGATCCCATGTAAGACCATGTCTGGGACATAGCATTGGCATCGATC
1 TGTGATCCCATGTAAGACCATGT-TGGGACATGGCATTGGCATCGATA
60214210 TGTGATCCCATGTAAGACCATGTTTGGGACATGGCATTGGCATCGATA
1 TGTGATCCCATGTAAGACCATG-TTGGGACATGGCATTGGCATCGATA
* * * * *
60214258 TGTGATCCTATGTAAGACCATATCTGGGATATGGCGTTAGCATCGATA
1 TGTGATCCCATGTAAGACCATGT-TGGGACATGGCATTGGCATCGATA
** * *
60214306 TGTGATTTCGTGTAAGACCATGTCAGGGACATGGCAT
1 TGTGATCCCATGTAAGACCATGT-TGGGACATGGCAT
60214343 CGATATGAGA
Statistics
Matches: 240, Mismatches: 33, Indels: 8
0.85 0.12 0.03
Matches are distributed among these distances:
47 2 0.01
48 235 0.98
49 3 0.01
ACGTcount: A:0.28, C:0.18, G:0.25, T:0.29
Consensus pattern (47 bp):
TGTGATCCCATGTAAGACCATGTTGGGACATGGCATTGGCATCGATA
Found at i:60214216 original size:144 final size:144
Alignment explanation
Indices: 60214018--60214342 Score: 490
Period size: 144 Copynumber: 2.3 Consensus size: 144
60214008 CCTATGGTAT
* *
60214018 TGTGATCCCATGTAAGACCAAGT-TAGGGAAATGGCATTGGCATCGATATATGATCCCATGTAAG
1 TGTGATCCCATGTAAGACCATGTCT-GGGACATGGCATTGGCATCGATATATGATCCCATGTAAG
* *
60214082 ACCATATTTGAGACATGGCATTGGCATTGATATGTGATCCCATGTAAAACCATGTCTGGGATATG
65 ACCATATTTGAGACATGGCATTGGCATCGATATGTGATCCCATGTAAAACCATATCTGGGATATG
60214147 GCATTAGCATCGATA
130 GCATTAGCATCGATA
* * *
60214162 TGTGATCCCATGTAAGACCATGTCTGGGACATAGCATTGGCATCGATCTGTGATCCCATGTAAGA
1 TGTGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATATGATCCCATGTAAGA
* * * *
60214227 CCATGTTTGGGACATGGCATTGGCATCGATATGTGATCCTATGTAAGACCATATCTGGGATATGG
66 CCATATTTGAGACATGGCATTGGCATCGATATGTGATCCCATGTAAAACCATATCTGGGATATGG
*
60214292 CGTTAGCATCGATA
131 CATTAGCATCGATA
** * *
60214306 TGTGATTTCGTGTAAGACCATGTCAGGGACATGGCAT
1 TGTGATCCCATGTAAGACCATGTCTGGGACATGGCAT
60214343 CGATATGAGA
Statistics
Matches: 163, Mismatches: 17, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
144 162 0.99
145 1 0.01
ACGTcount: A:0.28, C:0.18, G:0.25, T:0.29
Consensus pattern (144 bp):
TGTGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATATGATCCCATGTAAGA
CCATATTTGAGACATGGCATTGGCATCGATATGTGATCCCATGTAAAACCATATCTGGGATATGG
CATTAGCATCGATA
Found at i:60216890 original size:28 final size:28
Alignment explanation
Indices: 60216812--60216893 Score: 74
Period size: 33 Copynumber: 2.8 Consensus size: 28
60216802 TAAATAGTGC
* *
60216812 ATGCAGTAATAGTCTGGGCCTGAGCCCT
1 ATGCAGTAACAGTATGGGCCTGAGCCCT
* * *
60216840 ATTCAGTATCAGTACAGTTTGGGCCTTAGCCCT
1 ATGCAG--T-A--ACAGTATGGGCCTGAGCCCT
60216873 ATGCAGTAACAGTATGGGCCT
1 ATGCAGTAACAGTATGGGCCT
60216894 ACGCCCAATA
Statistics
Matches: 43, Mismatches: 6, Indels: 10
0.73 0.10 0.17
Matches are distributed among these distances:
28 17 0.40
30 2 0.05
31 2 0.05
33 22 0.51
ACGTcount: A:0.23, C:0.23, G:0.26, T:0.28
Consensus pattern (28 bp):
ATGCAGTAACAGTATGGGCCTGAGCCCT
Found at i:60217312 original size:27 final size:27
Alignment explanation
Indices: 60217282--60217337 Score: 78
Period size: 27 Copynumber: 2.1 Consensus size: 27
60217272 GGAACATAAA
60217282 GGCATAATC-GTCATTTTACCATACAGG
1 GGCATAA-CGGTCATTTTACCATACAGG
* *
60217309 GGCATTACGGTCATTTTACCCTACAGG
1 GGCATAACGGTCATTTTACCATACAGG
60217336 GG
1 GG
60217338 TTTCAGCTCA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
26 1 0.04
27 25 0.96
ACGTcount: A:0.25, C:0.23, G:0.23, T:0.29
Consensus pattern (27 bp):
GGCATAACGGTCATTTTACCATACAGG
Found at i:60218607 original size:12 final size:12
Alignment explanation
Indices: 60218592--60218618 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
60218582 AATTATGGAG
60218592 AAGAGAAAAGAA
1 AAGAGAAAAGAA
60218604 AAGAGAAAAGAA
1 AAGAGAAAAGAA
60218616 AAG
1 AAG
60218619 CTTCGGAGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (12 bp):
AAGAGAAAAGAA
Found at i:60222841 original size:40 final size:40
Alignment explanation
Indices: 60222782--60222999 Score: 307
Period size: 40 Copynumber: 5.5 Consensus size: 40
60222772 CGGATGATAA
* *
60222782 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-T
* *
60222822 CCGAGCTAAGCCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
60222862 CTGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
60222902 CCGGGCTAAGTCCTGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
60222942 CCGGGCTAAGTCCCGAAGGCATTTGAGTGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
*
60222982 CC-GGCTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
60223000 TACTCTGTTT
Statistics
Matches: 161, Mismatches: 15, Indels: 5
0.89 0.08 0.03
Matches are distributed among these distances:
39 17 0.11
40 143 0.89
41 1 0.01
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:60230981 original size:40 final size:40
Alignment explanation
Indices: 60230926--60231103 Score: 254
Period size: 40 Copynumber: 4.5 Consensus size: 40
60230916 CGGATGATAA
* *
60230926 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-T
*
60230966 CCGGGCTAAGCCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
60231006 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* **
60231046 CCGGGCTAAGTCCCAAAGGCATTTGAACGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
*
60231086 CC-GGCTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
60231104 TACTCGGTTT
Statistics
Matches: 127, Mismatches: 9, Indels: 5
0.90 0.06 0.04
Matches are distributed among these distances:
39 16 0.13
40 110 0.87
41 1 0.01
ACGTcount: A:0.25, C:0.24, G:0.27, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:60233871 original size:29 final size:28
Alignment explanation
Indices: 60233835--60233906 Score: 101
Period size: 29 Copynumber: 2.5 Consensus size: 28
60233825 TCATGAGATT
*
60233835 GGCACTAAGTGTGCGGGTTTAAATTGTACA
1 GGCACTAAGTGTGCGAGTTTAAA--GTACA
60233865 -GCACTAAGTGTGCGAGTTTAAAGTACA
1 GGCACTAAGTGTGCGAGTTTAAAGTACA
60233892 TGGCACTAAGTGTGC
1 -GGCACTAAGTGTGC
60233907 ATGGTTGATT
Statistics
Matches: 39, Mismatches: 1, Indels: 5
0.87 0.02 0.11
Matches are distributed among these distances:
27 5 0.13
29 34 0.87
ACGTcount: A:0.28, C:0.15, G:0.29, T:0.28
Consensus pattern (28 bp):
GGCACTAAGTGTGCGAGTTTAAAGTACA
Found at i:60234130 original size:174 final size:174
Alignment explanation
Indices: 60233865--60234192 Score: 584
Period size: 174 Copynumber: 1.9 Consensus size: 174
60233855 AAATTGTACA
*
60233865 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCATGGTTGATTATTAAGCACTATG
1 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCACGGTTGATTATTAAGCACTATG
* *
60233930 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACCTTACCGAGTCGA
66 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACCTTACCGAGTCAA
*
60233995 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
131 TTTTGGACAGCAGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
* * *
60234039 GCACTAAGTGTGTGAGTTTAAAGTGCATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
1 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCACGGTTGATTATTAAGCACTATG
*
60234104 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
66 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACCTTACCGAGTCAA
60234169 TTTTGGACAGCAGAAAAGGTAAGT
131 TTTTGGACAGCAGAAAAGGTAAGT
60234193 ACCTTGAGTT
Statistics
Matches: 146, Mismatches: 8, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
174 146 1.00
ACGTcount: A:0.30, C:0.15, G:0.24, T:0.31
Consensus pattern (174 bp):
GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCACGGTTGATTATTAAGCACTATG
TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACCTTACCGAGTCAA
TTTTGGACAGCAGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
Found at i:60239447 original size:38 final size:38
Alignment explanation
Indices: 60239360--60239474 Score: 151
Period size: 38 Copynumber: 2.9 Consensus size: 38
60239350 AAGTGAATAT
* * * *
60239360 ATCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAA
1 ATCCGGGTTAAG-TCCCGAAGG-CATTCTGCGAGTTA-TAA
60239400 ATCCGGGTTAAGTCCCGAAGGCATTCTGCGAGTTATAA
1 ATCCGGGTTAAGTCCCGAAGGCATTCTGCGAGTTATAA
60239438 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTAT
1 ATCCGGGTTAAGTCCCGAAGGCATTC-TGCGAGTTAT
60239475 TAAGTTCCGA
Statistics
Matches: 69, Mismatches: 4, Indels: 5
0.88 0.05 0.06
Matches are distributed among these distances:
38 29 0.42
39 22 0.32
40 18 0.26
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (38 bp):
ATCCGGGTTAAGTCCCGAAGGCATTCTGCGAGTTATAA
Done.