Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A08
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: 123748673
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 5630000 characters in sequence are not A, C, G, or T
File 37 of 373
Found at i:10645606 original size:50 final size:50
Alignment explanation
Indices: 10645362--10645606 Score: 258
Period size: 50 Copynumber: 4.9 Consensus size: 50
10645352 ACCGAAGCTC
* * * *
10645362 TCTGGTCCACATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAA
1 TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTATCAA
* * * * * *
10645412 TTTGGTACACGTAGTAGCCTGCATTTAGTACTACACACTTGACTTAACCA
1 TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTATCAA
* * ** *
10645462 TCTGATACACGTAGTAGCCTGCACTTAGTACTACACACGTTATTTGAAGTTAA
1 TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCT--A-TCAA
* * * * *
10645515 -CGGGTACGCATAGTAGCCTGCACTTAGTATTACACATGTGACCTATCAA
1 TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTATCAA
* *
10645564 TCTGGTACATGTAGTAGCCTGCACTTAGTTCTACACACGTGAC
1 TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGAC
10645607 TCACAACAGA
Statistics
Matches: 155, Mismatches: 36, Indels: 8
0.78 0.18 0.04
Matches are distributed among these distances:
49 3 0.02
50 115 0.74
52 36 0.23
53 1 0.01
ACGTcount: A:0.28, C:0.25, G:0.18, T:0.29
Consensus pattern (50 bp):
TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTATCAA
Found at i:10651814 original size:27 final size:27
Alignment explanation
Indices: 10651782--10651835 Score: 99
Period size: 27 Copynumber: 2.0 Consensus size: 27
10651772 TTGTAAGTAT
10651782 GATGAAAAAGTATAAAATGCAATAGAA
1 GATGAAAAAGTATAAAATGCAATAGAA
*
10651809 GATGAAAAAGTATACAATGCAATAGAA
1 GATGAAAAAGTATAAAATGCAATAGAA
10651836 ATCATCATAT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.57, C:0.06, G:0.19, T:0.19
Consensus pattern (27 bp):
GATGAAAAAGTATAAAATGCAATAGAA
Found at i:10654579 original size:25 final size:25
Alignment explanation
Indices: 10654513--10654606 Score: 86
Period size: 26 Copynumber: 3.8 Consensus size: 25
10654503 AGCTCCGTAT
* * *
10654513 AGCCA-TATATCAGGAAGTTCAAGCG
1 AGCCATTA-ATCAGGAAGCTCCAGAG
* *
10654538 AGCCA-T-ATCGGGAAGCTCCGGAG
1 AGCCATTAATCAGGAAGCTCCAGAG
*
10654561 AGCCATTAATCAGGAAGCTCACAAAG
1 AGCCATTAATCAGGAAGCTC-CAGAG
*
10654587 AGCCTTTAATCAGGAAGCTC
1 AGCCATTAATCAGGAAGCTC
10654607 AAAAGAGCTA
Statistics
Matches: 57, Mismatches: 9, Indels: 5
0.80 0.13 0.07
Matches are distributed among these distances:
23 17 0.30
24 1 0.02
25 17 0.30
26 22 0.39
ACGTcount: A:0.34, C:0.23, G:0.24, T:0.18
Consensus pattern (25 bp):
AGCCATTAATCAGGAAGCTCCAGAG
Found at i:10654595 original size:26 final size:25
Alignment explanation
Indices: 10654559--10654614 Score: 94
Period size: 26 Copynumber: 2.2 Consensus size: 25
10654549 GAAGCTCCGG
10654559 AGAGCCATTAATCAGGAAGCTCACAA
1 AGAGCCATTAATCAGGAAGCTCA-AA
*
10654585 AGAGCCTTTAATCAGGAAGCTCAAA
1 AGAGCCATTAATCAGGAAGCTCAAA
10654610 AGAGC
1 AGAGC
10654615 TAAGGTGTGC
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
25 7 0.24
26 22 0.76
ACGTcount: A:0.41, C:0.21, G:0.21, T:0.16
Consensus pattern (25 bp):
AGAGCCATTAATCAGGAAGCTCAAA
Found at i:10658372 original size:32 final size:32
Alignment explanation
Indices: 10658336--10658399 Score: 112
Period size: 32 Copynumber: 2.0 Consensus size: 32
10658326 CAATGAAACA
10658336 TATTAACATTAACAGAAGAAAATAA-AACTATC
1 TATTAACATTAACAGAAGAAAA-AAGAACTATC
10658368 TATTAACATTAACAGAAGAAAAAAGAACTATC
1 TATTAACATTAACAGAAGAAAAAAGAACTATC
10658400 ATAGGAATTT
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
31 2 0.06
32 29 0.94
ACGTcount: A:0.56, C:0.12, G:0.08, T:0.23
Consensus pattern (32 bp):
TATTAACATTAACAGAAGAAAAAAGAACTATC
Found at i:10660321 original size:5 final size:6
Alignment explanation
Indices: 10660291--10660318 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
10660281 ATCTTGTGGC
10660291 AAAAAG AAAAAG AAAAAG AAAAAG AAAA
1 AAAAAG AAAAAG AAAAAG AAAAAG AAAA
10660319 GAATGGTAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (6 bp):
AAAAAG
Found at i:10665866 original size:17 final size:19
Alignment explanation
Indices: 10665844--10665911 Score: 81
Period size: 19 Copynumber: 3.8 Consensus size: 19
10665834 ATGGAAATAT
10665844 AATCTT-CA-ATGATATGC
1 AATCTTACATATGATATGC
*
10665861 AATCTTAGATATGATATGC
1 AATCTTACATATGATATGC
*
10665880 AATCTTAGATATGATA--C
1 AATCTTACATATGATATGC
*
10665897 AATCTTAGATATGAT
1 AATCTTACATATGAT
10665912 TGCGTTGAAT
Statistics
Matches: 48, Mismatches: 1, Indels: 4
0.91 0.02 0.08
Matches are distributed among these distances:
17 22 0.46
18 1 0.02
19 25 0.52
ACGTcount: A:0.38, C:0.12, G:0.13, T:0.37
Consensus pattern (19 bp):
AATCTTACATATGATATGC
Found at i:10665876 original size:19 final size:19
Alignment explanation
Indices: 10665852--10665911 Score: 106
Period size: 19 Copynumber: 3.3 Consensus size: 19
10665842 ATAATCTTCA
10665852 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
10665871 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
10665890 ATGATA--CAATCTTAGAT
1 ATGATATGCAATCTTAGAT
10665907 ATGAT
1 ATGAT
10665912 TGCGTTGAAT
Statistics
Matches: 41, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
17 16 0.39
19 25 0.61
ACGTcount: A:0.38, C:0.10, G:0.15, T:0.37
Consensus pattern (19 bp):
ATGATATGCAATCTTAGAT
Found at i:10666944 original size:89 final size:87
Alignment explanation
Indices: 10666815--10666976 Score: 209
Period size: 89 Copynumber: 1.8 Consensus size: 87
10666805 ATTCGATGGA
* * *
10666815 GAGCATATCGAAGACATAGCAGATCTAACCTTCAGATGTTTTCACATCGAAGTAGATCCAAGATG
1 GAGCAGATCGAAGACATAGCAGATCTAACCTTCAGATGTTTACAC-T-GAAGCAGATCCAAGATG
10666880 ATTTGGCATCCTTGCGTTGACAAG
64 ATTTGGCATCCTTGCGTTGACAAG
* ** * * *
10666904 GAGCAGATCGAAGACATAGCAGATTTGGCTTTCACG-TGTTTACGCTGAAGCAGATCTAAGATGA
1 GAGCAGATCGAAGACATAGCAGATCTAACCTTCA-GATGTTTACACTGAAGCAGATCCAAGATGA
10666968 TTTGGCATC
65 TTTGGCATC
10666977 TCTGTACTGT
Statistics
Matches: 63, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
87 25 0.40
88 1 0.02
89 36 0.57
90 1 0.02
ACGTcount: A:0.30, C:0.19, G:0.23, T:0.27
Consensus pattern (87 bp):
GAGCAGATCGAAGACATAGCAGATCTAACCTTCAGATGTTTACACTGAAGCAGATCCAAGATGAT
TTGGCATCCTTGCGTTGACAAG
Found at i:10667116 original size:57 final size:57
Alignment explanation
Indices: 10667009--10667116 Score: 153
Period size: 57 Copynumber: 1.9 Consensus size: 57
10666999 TGAAGAAACA
* * *
10667009 GATTTGGCATCTCCATATTCGACGGAGAGCAGATCGAAGGCATAGCAGATCCAAGAT
1 GATTTGGCATCTCCATATTAGACGGAGAGCAGATCGAAGACACAGCAGATCCAAGAT
** * *
10667066 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACACAGTAGATC
1 GATTTGGCATCTCCATATTAGACGGAGAGCAGATCGAAGACACAGCAGATC
10667117 TGACCTTCAT
Statistics
Matches: 44, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
57 44 1.00
ACGTcount: A:0.31, C:0.19, G:0.28, T:0.22
Consensus pattern (57 bp):
GATTTGGCATCTCCATATTAGACGGAGAGCAGATCGAAGACACAGCAGATCCAAGAT
Found at i:10667184 original size:78 final size:78
Alignment explanation
Indices: 10667052--10667282 Score: 383
Period size: 78 Copynumber: 3.0 Consensus size: 78
10667042 TCGAAGGCAT
* *
10667052 AGCAGATCCAAGATGATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACACAGTAGATC
1 AGCAGATCCAAGATGATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAGCAGATC
10667117 TGACCTTCATTGA
66 TGACCTTCATTGA
* * *
10667130 AGCAGATCCAAGATGATTTGGCATCTTTGTATTAGACGGGGAGCAGATCAAAGACATAACAGAT-
1 AGCAGATCCAAGATGATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAGCAGATC
10667194 TGGACCTTCATTGA
66 T-GACCTTCATTGA
* *
10667208 AGCAGATCCAAGATTATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACGTAGCAGATC
1 AGCAGATCCAAGATGATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAGCAGATC
10667273 TGACCTTCAT
66 TGACCTTCAT
10667283 GTGTTTACAT
Statistics
Matches: 141, Mismatches: 10, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
77 1 0.01
78 139 0.99
79 1 0.01
ACGTcount: A:0.31, C:0.19, G:0.25, T:0.25
Consensus pattern (78 bp):
AGCAGATCCAAGATGATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAGCAGATC
TGACCTTCATTGA
Found at i:10667375 original size:45 final size:46
Alignment explanation
Indices: 10667223--10667495 Score: 278
Period size: 45 Copynumber: 6.0 Consensus size: 46
10667213 ATCCAAGATT
*
10667223 ATTTGGCATCTCTGTATTAGACGGGGAGCAGATC-GAAGACGTAGCAG
1 ATTTGGCATCTCTGTATTAGACGGGGAGCAGATCAGAAGA--TAACAG
* * * * * * * * *
10667270 ATCTGACCT-TCATGTGTTTACATC--GAAGTAGATC-CAAGATGACAG
1 ATTTGGCATCTC-TGT-ATTAGA-CGGGGAGCAGATCAGAAGATAACAG
*
10667315 ATTTGGCATCTCTGTATTAGACGGGGAGCAAATCAG-AGATAACAG
1 ATTTGGCATCTCTGTATTAGACGGGGAGCAGATCAGAAGATAACAG
* *
10667360 ATTTGGCATCTCTGTATTAGACGGGGAGCAGAT-TGAAGA-AGCAG
1 ATTTGGCATCTCTGTATTAGACGGGGAGCAGATCAGAAGATAACAG
* *
10667404 ATTTGGCGTCTCTGTATTAGATGGGGAGCAGATC-GAAGATAACAG
1 ATTTGGCATCTCTGTATTAGACGGGGAGCAGATCAGAAGATAACAG
* *
10667449 ATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCA-AAGATAGCAG
1 ATTTGGCATCTCTGTATTAGACGGGGAGCAGATCAGAAGATAACAG
10667494 AT
1 AT
10667496 ATCGCCTTCC
Statistics
Matches: 187, Mismatches: 28, Indels: 24
0.78 0.12 0.10
Matches are distributed among these distances:
43 1 0.01
44 45 0.24
45 111 0.59
46 4 0.02
47 21 0.11
48 4 0.02
49 1 0.01
ACGTcount: A:0.30, C:0.16, G:0.29, T:0.26
Consensus pattern (46 bp):
ATTTGGCATCTCTGTATTAGACGGGGAGCAGATCAGAAGATAACAG
Found at i:10667432 original size:89 final size:90
Alignment explanation
Indices: 10667223--10667495 Score: 297
Period size: 89 Copynumber: 3.0 Consensus size: 90
10667213 ATCCAAGATT
* * * * * *
10667223 ATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACGTAGCAGATCTGACCT-TCATGTGT
1 ATTTGGCATCTCTGTATTAGACGGGGAGCAAATCGAAGA--TAACAGATTTGGCATCTC-TGT-A
* * * *
10667287 TTACATC--GAAGTAGATCCAAGAT-GACAG
62 TTAGA-CGGGGAGCAGATCAAAGATAG-CAG
10667315 ATTTGGCATCTCTGTATTAGACGGGGAGCAAATC-AGAGATAACAGATTTGGCATCTCTGTATTA
1 ATTTGGCATCTCTGTATTAGACGGGGAGCAAATCGA-AGATAACAGATTTGGCATCTCTGTATTA
**
10667379 GACGGGGAGCAGATTGAAGA-AGCAG
65 GACGGGGAGCAGATCAAAGATAGCAG
* * * *
10667404 ATTTGGCGTCTCTGTATTAGATGGGGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTATTAG
1 ATTTGGCATCTCTGTATTAGACGGGGAGCAAATCGAAGATAACAGATTTGGCATCTCTGTATTAG
10667469 ACGGGGAGCAGATCAAAGATAGCAG
66 ACGGGGAGCAGATCAAAGATAGCAG
10667494 AT
1 AT
10667496 ATCGCCTTCC
Statistics
Matches: 157, Mismatches: 17, Indels: 16
0.83 0.09 0.08
Matches are distributed among these distances:
88 1 0.01
89 83 0.53
90 34 0.22
91 3 0.02
92 36 0.23
ACGTcount: A:0.30, C:0.16, G:0.29, T:0.26
Consensus pattern (90 bp):
ATTTGGCATCTCTGTATTAGACGGGGAGCAAATCGAAGATAACAGATTTGGCATCTCTGTATTAG
ACGGGGAGCAGATCAAAGATAGCAG
Found at i:10667466 original size:134 final size:135
Alignment explanation
Indices: 10667223--10667495 Score: 354
Period size: 134 Copynumber: 2.0 Consensus size: 135
10667213 ATCCAAGATT
*
10667223 ATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACGTAGCAGATCTGACCTTCATGTGTT
1 ATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGAC--AGCAGATCTGACCTTCATGTGAT
* * *
10667288 TACATCGAAGTAGATCCAAGATGACAGATTTGGCATCTCTGTATTAGACGGGGAGCAAATCAGAG
64 TACATCGAAGCAGATCCAAGATAACAGATTTGGCATCTCTGTATTAGACGGGGAGCAAATCAAAG
10667353 ATAACAG
129 ATAACAG
* * * *
10667360 ATTTGGCATCTCTGTATTAGACGGGGAGCAGATTGAAGA-AGCAGATTTGGCGTCTC-TGT-ATT
1 ATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACAGCAGATCTGACCT-TCATGTGATT
* * * * * *
10667422 AGATGGGGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCAAAG
65 ACAT-CGAAGCAGATCCAAGATAACAGATTTGGCATCTCTGTATTAGACGGGGAGCAAATCAAAG
*
10667487 ATAGCAG
129 ATAACAG
10667494 AT
1 AT
10667496 ATCGCCTTCC
Statistics
Matches: 119, Mismatches: 15, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
133 5 0.04
134 74 0.62
135 2 0.02
137 38 0.32
ACGTcount: A:0.30, C:0.16, G:0.29, T:0.26
Consensus pattern (135 bp):
ATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACAGCAGATCTGACCTTCATGTGATTA
CATCGAAGCAGATCCAAGATAACAGATTTGGCATCTCTGTATTAGACGGGGAGCAAATCAAAGAT
AACAG
Found at i:10667868 original size:14 final size:15
Alignment explanation
Indices: 10667849--10667904 Score: 60
Period size: 18 Copynumber: 3.5 Consensus size: 15
10667839 AATCTTCAAT
10667849 GATATG-CAATCTTA
1 GATATGACAATCTTA
10667863 GATATGATACAATCTTA
1 GATATG--ACAATCTTA
10667880 GATATGATTGCAATCTTA
1 GATATGA---CAATCTTA
10667898 GATATGA
1 GATATGA
10667905 TATGCAATCT
Statistics
Matches: 36, Mismatches: 0, Indels: 8
0.82 0.00 0.18
Matches are distributed among these distances:
14 6 0.17
15 1 0.03
17 14 0.39
18 15 0.42
ACGTcount: A:0.38, C:0.11, G:0.16, T:0.36
Consensus pattern (15 bp):
GATATGACAATCTTA
Found at i:10667893 original size:35 final size:37
Alignment explanation
Indices: 10667847--10667925 Score: 121
Period size: 35 Copynumber: 2.2 Consensus size: 37
10667837 ATAATCTTCA
10667847 ATGATATGCAATCTTAGATATGATA-CAATCTTAGAT
1 ATGATATGCAATCTTAGATATGATAGCAATCTTAGAT
10667883 ATGAT-TGCAATCTTAGATATGATATGCAATCTTAGA-
1 ATGATATGCAATCTTAGATATGATA-GCAATCTTAGAT
10667919 A-GATATG
1 ATGATATG
10667926 ATTTTGTAAT
Statistics
Matches: 40, Mismatches: 0, Indels: 6
0.87 0.00 0.13
Matches are distributed among these distances:
35 22 0.55
36 8 0.20
37 10 0.25
ACGTcount: A:0.38, C:0.10, G:0.16, T:0.35
Consensus pattern (37 bp):
ATGATATGCAATCTTAGATATGATAGCAATCTTAGAT
Found at i:10667925 original size:17 final size:19
Alignment explanation
Indices: 10667847--10667918 Score: 123
Period size: 19 Copynumber: 3.9 Consensus size: 19
10667837 ATAATCTTCA
10667847 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
10667866 ATGATA--CAATCTTAGAT
1 ATGATATGCAATCTTAGAT
10667883 ATGAT-TGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
10667901 ATGATATGCAATCTTAGA
1 ATGATATGCAATCTTAGA
10667919 AGATATGATT
Statistics
Matches: 50, Mismatches: 0, Indels: 6
0.89 0.00 0.11
Matches are distributed among these distances:
17 16 0.32
18 16 0.32
19 18 0.36
ACGTcount: A:0.38, C:0.11, G:0.15, T:0.36
Consensus pattern (19 bp):
ATGATATGCAATCTTAGAT
Found at i:10667944 original size:22 final size:22
Alignment explanation
Indices: 10667847--10667941 Score: 79
Period size: 17 Copynumber: 4.8 Consensus size: 22
10667837 ATAATCTTCA
10667847 ATGATATGCAATCTT---AGAT
1 ATGATATGCAATCTTAGAAGAT
10667866 ATGATA--CAATCTT---AGAT
1 ATGATATGCAATCTTAGAAGAT
10667883 ATGAT-TGCAATCTT---AGAT
1 ATGATATGCAATCTTAGAAGAT
10667901 ATGATATGCAATCTTAGAAGAT
1 ATGATATGCAATCTTAGAAGAT
* *
10667923 ATGATTTTGTAATCTTAGA
1 ATGA-TATGCAATCTTAGA
10667942 GATTTAATTT
Statistics
Matches: 67, Mismatches: 2, Indels: 10
0.85 0.03 0.13
Matches are distributed among these distances:
17 16 0.24
18 16 0.24
19 15 0.22
22 8 0.12
23 12 0.18
ACGTcount: A:0.37, C:0.09, G:0.16, T:0.38
Consensus pattern (22 bp):
ATGATATGCAATCTTAGAAGAT
Found at i:10668230 original size:19 final size:18
Alignment explanation
Indices: 10668206--10668241 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
10668196 TGTTTCCCTG
*
10668206 ATTTTTTTATATATTTTAA
1 ATTTTTTAATA-ATTTTAA
10668225 ATTTTTTAATAATTTTA
1 ATTTTTTAATAATTTTA
10668242 GTATCATATC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 6 0.38
19 10 0.62
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (18 bp):
ATTTTTTAATAATTTTAA
Found at i:10672207 original size:16 final size:15
Alignment explanation
Indices: 10672186--10672225 Score: 64
Period size: 14 Copynumber: 2.7 Consensus size: 15
10672176 ATGTGTGCAC
10672186 AAAATTTCTTATGAAT
1 AAAATTTCTTA-GAAT
10672202 AAAATTTC-TAGAAT
1 AAAATTTCTTAGAAT
10672216 AAAATTTCTT
1 AAAATTTCTT
10672226 CCTTTAGACT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 12 0.52
15 3 0.13
16 8 0.35
ACGTcount: A:0.45, C:0.07, G:0.05, T:0.42
Consensus pattern (15 bp):
AAAATTTCTTAGAAT
Found at i:10674434 original size:48 final size:47
Alignment explanation
Indices: 10674361--10674529 Score: 134
Period size: 48 Copynumber: 3.6 Consensus size: 47
10674351 AAGCTGACGC
* ** * *
10674361 CATGTGCCAGACACATCTTATACTAGCTTGTCCATCATGAGGATGATG
1 CATGTCCCAGACATGTCTTACACTAGCTTGT-CATCATGAGGACGATG
* *
10674409 CATGTCCCAAACATGTCTTACACTAGCTCTCGTC-TCA--A-CACCGATG
1 CATGTCCCAGACATGTCTTACACTAGCT-T-GTCATCATGAGGA-CGATG
* * * *
10674455 CATGTCCCAGACATGTCTTACACTGGCTTAAAT-ATC-TCGAGGCCAATG
1 CATGTCCCAGACATGTCTTACACTAGCTT--GTCATCAT-GAGGACGATG
10674503 CATGTCCCAGACATGTCTTACACTAGC
1 CATGTCCCAGACATGTCTTACACTAGC
10674530 ACACATATCA
Statistics
Matches: 97, Mismatches: 15, Indels: 18
0.75 0.12 0.14
Matches are distributed among these distances:
45 2 0.02
46 34 0.35
48 57 0.59
49 2 0.02
50 2 0.02
ACGTcount: A:0.27, C:0.29, G:0.17, T:0.27
Consensus pattern (47 bp):
CATGTCCCAGACATGTCTTACACTAGCTTGTCATCATGAGGACGATG
Found at i:10674538 original size:48 final size:48
Alignment explanation
Indices: 10674406--10674538 Score: 153
Period size: 48 Copynumber: 2.8 Consensus size: 48
10674396 CATGAGGATG
* * * *
10674406 ATGCATGTCCCAAACATGTCTTACACTAGCTCTC--GTCTCAACACCG
1 ATGCATGTCCCAGACATGTCTTACACTAGCTCACATATCTCAACACCA
* * * * **
10674452 ATGCATGTCCCAGACATGTCTTACACTGGCTTAAATATCTCGAGGCCA
1 ATGCATGTCCCAGACATGTCTTACACTAGCTCACATATCTCAACACCA
*
10674500 ATGCATGTCCCAGACATGTCTTACACTAGCACACATATC
1 ATGCATGTCCCAGACATGTCTTACACTAGCTCACATATC
10674539 ACCCAATATC
Statistics
Matches: 71, Mismatches: 14, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
46 29 0.41
48 42 0.59
ACGTcount: A:0.28, C:0.31, G:0.15, T:0.26
Consensus pattern (48 bp):
ATGCATGTCCCAGACATGTCTTACACTAGCTCACATATCTCAACACCA
Found at i:10681350 original size:48 final size:47
Alignment explanation
Indices: 10681261--10681626 Score: 239
Period size: 49 Copynumber: 7.7 Consensus size: 47
10681251 GATGTATGCT
* * **
10681261 AGTGTAAGACATGTCTGGGACAT-GCATCGGCCA-CATTATGAGAGCC
1 AGTGTAAGACCTGTCTGGGACATGGCATCGG-CATTAAGATGAGAGCC
* * *
10681307 AGTGTAAGACCATGTTTAGGACATGGCATCGGCATTAAGATGAGAGCT
1 AGTGTAAGACC-TGTCTGGGACATGGCATCGGCATTAAGATGAGAGCC
* * * ** *
10681355 AGTGTAAGACATGTCTAGGACAT-GCATCGGCCTCGAGAT-ATGCAAGCT
1 AGTGTAAGACCTGTCTGGGACATGGCATCGGCATTAAGATGA-G--AGCC
* * * * *
10681403 AGTGTAAAACCTGTCTGGGACATGGCATCAGG--TTGACAT--GTGTC
1 AGTGTAAGACCTGTCTGGGACATGGCATC-GGCATTAAGATGAGAGCC
* **
10681447 AGTGTAAGACCTGTCTGGGACATGGCATCGACACCAATAGATGAGAGCC
1 AGTGTAAGACCTGTCTGGGACATGGCATCGGCA-TTA-AGATGAGAGCC
* * * * * * *
10681496 AGTTTAAGACTTGTCTGGGACATGGCATCGGCCTCGATATATGAAAGTC
1 AGTGTAAGACCTGTCTGGGACATGGCATCGGCAT-TA-AGATGAGAGCC
* * *
10681545 AGTGTAAGACCTGTCTGGGACATGGCATCGAC-TT-AGATGTTTGATCC
1 AGTGTAAGACCTGTCTGGGACATGGCATCGGCATTAAGATG--AGAGCC
* * *
10681592 AGTGTAAGACCATGTTTGGAACATGGCATGGGCAT
1 AGTGTAAGACC-TGTCTGGGACATGGCATCGGCAT
10681627 CGTACCCTAT
Statistics
Matches: 251, Mismatches: 50, Indels: 35
0.75 0.15 0.10
Matches are distributed among these distances:
43 1 0.00
44 29 0.12
45 5 0.02
46 25 0.10
47 39 0.16
48 73 0.29
49 77 0.31
50 2 0.01
ACGTcount: A:0.28, C:0.19, G:0.28, T:0.25
Consensus pattern (47 bp):
AGTGTAAGACCTGTCTGGGACATGGCATCGGCATTAAGATGAGAGCC
Found at i:10681524 original size:142 final size:140
Alignment explanation
Indices: 10681306--10681573 Score: 378
Period size: 142 Copynumber: 1.9 Consensus size: 140
10681296 TTATGAGAGC
* * ** *
10681306 CAGTGTAAGACCATGTTTAGGACATGGCATCGGCATTAAGATGAGAGCTAGTGTAAGACATGTCT
1 CAGTGTAAGACCATGTCTAGGACATGGCATCGACACAAAGATGAGAGCCAGTGTAAGACATGTCT
*
10681371 AGGACATGCATCGGCCTCGAGATATGCAAG-CTAGTGTAAAACCTGTCTGGGACATGGCATCAGG
66 AGGACATGCATCGGCCTCGAGATATGAAAGTC-AGTGTAAAACCTGTCTGGGACATGGCATCAGG
10681435 TTGACATGTGT
130 TTGACATGTGT
* * *
10681446 CAGTGTAAGACC-TGTCTGGGACATGGCATCGACACCAATAGATGAGAGCCAGTTTAAGACTTGT
1 CAGTGTAAGACCATGTCTAGGACATGGCATCGACA-CAA-AGATGAGAGCCAGTGTAAGACATGT
* * *
10681510 CTGGGACATGGCATCGGCCTCGATATATGAAAGTCAGTGTAAGACCTGTCTGGGACATGGCATC
64 CTAGGACAT-GCATCGGCCTCGAGATATGAAAGTCAGTGTAAAACCTGTCTGGGACATGGCATC
10681574 GACTTAGATG
Statistics
Matches: 112, Mismatches: 12, Indels: 6
0.86 0.09 0.05
Matches are distributed among these distances:
139 19 0.17
140 13 0.12
141 30 0.27
142 49 0.44
143 1 0.01
ACGTcount: A:0.28, C:0.19, G:0.28, T:0.24
Consensus pattern (140 bp):
CAGTGTAAGACCATGTCTAGGACATGGCATCGACACAAAGATGAGAGCCAGTGTAAGACATGTCT
AGGACATGCATCGGCCTCGAGATATGAAAGTCAGTGTAAAACCTGTCTGGGACATGGCATCAGGT
TGACATGTGT
Found at i:10688384 original size:48 final size:47
Alignment explanation
Indices: 10688210--10688471 Score: 209
Period size: 48 Copynumber: 5.6 Consensus size: 47
10688200 ATGGATGTGT
* *
10688210 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCC---ACATTATGAGA
1 GCTAGTGTAAGACCTGTCTGGGACATGGATCGGCCTTGACA-TATGA-A
* * * * * *
10688256 GCCAGTGTAAGAACATGTCTAGGACATGGCATCAGCATT-A-AGATGAGA
1 GCTAGTGTAAG-ACCTGTCTGGGACATGG-ATCGGCCTTGACATATGA-A
* * * *
10688304 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATATGCAA
1 GCTAGTGTAAGACCTGTCTGGGACATGGATCGGCCTTGACATATG-AA
* *
10688352 GCTAGTGTAAGACCTGTTTGGGACATGGATCGG-CTTGACATGTG--
1 GCTAGTGTAAGACCTGTCTGGGACATGGATCGGCCTTGACATATGAA
* * *
10688396 TC-AGTGTAAGACCTGTCTGGGACATGGCATCGGCCTTGATAGATGAAA
1 GCTAGTGTAAGACCTGTCTGGGACATGG-ATCGGCCTTGACATATG-AA
** *
10688444 TTTAGTGTAAGACCTATCTGGGACATGG
1 GCTAGTGTAAGACCTGTCTGGGACATGG
10688472 CATTGACTTA
Statistics
Matches: 177, Mismatches: 26, Indels: 23
0.78 0.12 0.10
Matches are distributed among these distances:
43 24 0.14
44 6 0.03
45 8 0.05
46 16 0.09
47 39 0.22
48 57 0.32
49 26 0.15
50 1 0.01
ACGTcount: A:0.27, C:0.18, G:0.29, T:0.25
Consensus pattern (47 bp):
GCTAGTGTAAGACCTGTCTGGGACATGGATCGGCCTTGACATATGAA
Found at i:10688487 original size:92 final size:93
Alignment explanation
Indices: 10688204--10688526 Score: 246
Period size: 92 Copynumber: 3.4 Consensus size: 93
10688194 GGTGTTATGG
* * ** * *
10688204 ATGTGTGCTAGTGTAAGACATGTCTGGGACAT-GCATCGGCCAC-A-TTATGAGAGCCAGTGTAA
1 ATGTGTGC-AGTGTAAGACCTGTCTGGGACATGGCATCGGCCTCGAGAGATGAAAGCTAGTGTAA
* * * * *
10688266 GAACATGTCTAGGACATGGCATC-AGCATTAAG
65 G-ACCTATCTGGGACATGG-ATCGA-C-TTGAC
* * * * *
10688298 ATGAGAGCTAGTGTAAGACATGTCTGGGACAT-GCATCGGCCTCGAGATATGCAAGCTAGTGTAA
1 ATGTGTGC-AGTGTAAGACCTGTCTGGGACATGGCATCGGCCTCGAGAGATGAAAGCTAGTGTAA
* * *
10688362 GACCTGTTTGGGACATGGATCGGCTTGAC
65 GACCTATCTGGGACATGGATCGACTTGAC
* * **
10688391 ATGTGT-CAGTGTAAGACCTGTCTGGGACATGGCATCGGCCTTGATAGATGAAATTTAGTGTAAG
1 ATGTGTGCAGTGTAAGACCTGTCTGGGACATGGCATCGGCCTCGAGAGATGAAAGCTAGTGTAAG
* *
10688455 ACCTATCTGGGACATGGCATTGACTT-AG
66 ACCTATCTGGGACATGG-ATCGACTTGAC
* * *
10688483 ATGTGTGAGCCAGTGCAAGACCATGTTTGGAACATGGCATCGGC
1 ATGTGT--G-CAGTGTAAGACC-TGTCTGGGACATGGCATCGGC
10688527 ATCATACCCT
Statistics
Matches: 189, Mismatches: 30, Indels: 17
0.80 0.13 0.07
Matches are distributed among these distances:
91 22 0.12
92 50 0.26
93 13 0.07
94 44 0.23
95 15 0.08
96 26 0.14
97 19 0.10
ACGTcount: A:0.27, C:0.18, G:0.29, T:0.26
Consensus pattern (93 bp):
ATGTGTGCAGTGTAAGACCTGTCTGGGACATGGCATCGGCCTCGAGAGATGAAAGCTAGTGTAAG
ACCTATCTGGGACATGGATCGACTTGAC
Found at i:10688510 original size:140 final size:140
Alignment explanation
Indices: 10688258--10688526 Score: 312
Period size: 140 Copynumber: 1.9 Consensus size: 140
10688248 TTATGAGAGC
* *
10688258 CAGTGTAAGAACATGTCTAGGACATGGCATCAGCATTAAGATGAGAGCTAGTGTAAGACATGTCT
1 CAGTGTAAGAACATGTCTAGGACATGGCATCAGCATTAAGATGAAAGCTAGTGTAAGACATATCT
* * * *
10688323 GGGACATGCATCGGCCTCGAGATATGCAAGCTAGTGTAAGACCTGTTTGGGACATGG-ATCGGCT
66 GGGACATGCATCGGACTCGAGATATGCAAGCCAGTGCAAGACCTGTTTGGAACATGGCATCGGCT
10688387 TGACATGTGT
131 TGACATGTGT
* * * * ** *
10688397 CAGTGTAAG-ACCTGTCTGGGACATGGCATCGGCCTTGATAGATGAAATTTAGTGTAAGACCTAT
1 CAGTGTAAGAACATGTCTAGGACATGGCATCAGCATT-A-AGATGAAAGCTAGTGTAAGACATAT
* * * **
10688461 CTGGGACATGGCAT-TGACT-TAGATGTGTGAGCCAGTGCAAGACCATGTTTGGAACATGGCATC
64 CTGGGACAT-GCATCGGACTCGAGATATGCAAGCCAGTGCAAGACC-TGTTTGGAACATGGCATC
10688524 GGC
127 GGC
10688527 ATCATACCCT
Statistics
Matches: 107, Mismatches: 18, Indels: 8
0.80 0.14 0.06
Matches are distributed among these distances:
138 23 0.21
139 29 0.27
140 45 0.42
141 10 0.09
ACGTcount: A:0.27, C:0.18, G:0.29, T:0.26
Consensus pattern (140 bp):
CAGTGTAAGAACATGTCTAGGACATGGCATCAGCATTAAGATGAAAGCTAGTGTAAGACATATCT
GGGACATGCATCGGACTCGAGATATGCAAGCCAGTGCAAGACCTGTTTGGAACATGGCATCGGCT
TGACATGTGT
Found at i:10733875 original size:25 final size:25
Alignment explanation
Indices: 10733847--10733927 Score: 92
Period size: 25 Copynumber: 3.2 Consensus size: 25
10733837 TCTGCTCATT
*
10733847 CGAGCTATGAATCGGTATGCTCTTA
1 CGAGCTATGAATCGGTAAGCTCTTA
* *
10733872 CGAGCTATGAATCGATAAGCTCATA
1 CGAGCTATGAATCGGTAAGCTCTTA
* * *
10733897 CGAGTTGA-GAATTGGTAAGCTCTCA
1 CGAGCT-ATGAATCGGTAAGCTCTTA
10733922 CGAGCT
1 CGAGCT
10733928 GTAAATCAAT
Statistics
Matches: 46, Mismatches: 9, Indels: 2
0.81 0.16 0.04
Matches are distributed among these distances:
25 45 0.98
26 1 0.02
ACGTcount: A:0.28, C:0.20, G:0.25, T:0.27
Consensus pattern (25 bp):
CGAGCTATGAATCGGTAAGCTCTTA
Found at i:10733894 original size:50 final size:50
Alignment explanation
Indices: 10733840--10733946 Score: 126
Period size: 50 Copynumber: 2.1 Consensus size: 50
10733830 ATACATGTCT
* * * * *
10733840 GCTCATTCGAGCT-ATGAATCGGTATGCTCTTACGAGCTATGAATCGATAA
1 GCTCATACGAGCTGA-GAATCGGTAAGCTCTCACGAGCTATAAATCAATAA
* * *
10733890 GCTCATACGAGTTGAGAATTGGTAAGCTCTCACGAGCTGTAAATCAATAA
1 GCTCATACGAGCTGAGAATCGGTAAGCTCTCACGAGCTATAAATCAATAA
10733940 GCTCATA
1 GCTCATA
10733947 TGAGTTGTGG
Statistics
Matches: 48, Mismatches: 8, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
50 47 0.98
51 1 0.02
ACGTcount: A:0.31, C:0.20, G:0.21, T:0.28
Consensus pattern (50 bp):
GCTCATACGAGCTGAGAATCGGTAAGCTCTCACGAGCTATAAATCAATAA
Found at i:10733952 original size:50 final size:50
Alignment explanation
Indices: 10733855--10733953 Score: 135
Period size: 50 Copynumber: 2.0 Consensus size: 50
10733845 TTCGAGCTAT
* * * *
10733855 GAATCGGTATGCTCTTACGAGCTATGAATCGATAAGCTCATACGAGTTGA
1 GAATCGGTAAGCTCTCACGAGCTATAAATCAATAAGCTCATACGAGTTGA
* * *
10733905 GAATTGGTAAGCTCTCACGAGCTGTAAATCAATAAGCTCATATGAGTTG
1 GAATCGGTAAGCTCTCACGAGCTATAAATCAATAAGCTCATACGAGTTG
10733954 TGGTGTGTCC
Statistics
Matches: 42, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
50 42 1.00
ACGTcount: A:0.31, C:0.17, G:0.23, T:0.28
Consensus pattern (50 bp):
GAATCGGTAAGCTCTCACGAGCTATAAATCAATAAGCTCATACGAGTTGA
Found at i:10739700 original size:38 final size:38
Alignment explanation
Indices: 10739656--10739729 Score: 130
Period size: 38 Copynumber: 1.9 Consensus size: 38
10739646 AAATGCGAAT
10739656 TTAGTAATATGATAGAAAGGGCATCCTTATCAATTTAA
1 TTAGTAATATGATAGAAAGGGCATCCTTATCAATTTAA
* *
10739694 TTAGTAATATGATTGAAAGGGCATTCTTATCAATTT
1 TTAGTAATATGATAGAAAGGGCATCCTTATCAATTT
10739730 TTTTTTTAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
38 34 1.00
ACGTcount: A:0.36, C:0.09, G:0.16, T:0.38
Consensus pattern (38 bp):
TTAGTAATATGATAGAAAGGGCATCCTTATCAATTTAA
Found at i:10740500 original size:14 final size:15
Alignment explanation
Indices: 10740483--10740524 Score: 52
Period size: 14 Copynumber: 2.9 Consensus size: 15
10740473 AAAGTTTAGG
10740483 GTTAGGGTTTTAA-A
1 GTTAGGGTTTTAAGA
* *
10740497 GTTA-GGATTTAAGG
1 GTTAGGGTTTTAAGA
10740511 GTTAGGGTTTTAAG
1 GTTAGGGTTTTAAG
10740525 TTGATTACAT
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
13 7 0.30
14 8 0.35
15 8 0.35
ACGTcount: A:0.26, C:0.00, G:0.33, T:0.40
Consensus pattern (15 bp):
GTTAGGGTTTTAAGA
Found at i:10740835 original size:32 final size:32
Alignment explanation
Indices: 10740789--10740900 Score: 156
Period size: 32 Copynumber: 3.5 Consensus size: 32
10740779 CGCATGGTTC
10740789 TGTGAAATGATAACAAATATCAACTTTCATTT
1 TGTGAAATGATAACAAATATCAACTTTCATTT
*
10740821 TGTGAAATGGTAACAAAT-TACAAC-TTCAATTT
1 TGTGAAATGATAACAAATAT-CAACTTTC-ATTT
* *
10740853 TGTGAAATAATAACAAATATCAACTTTAATTT
1 TGTGAAATGATAACAAATATCAACTTTCATTT
*
10740885 TGTTAAATGATAACAA
1 TGTGAAATGATAACAA
10740901 TATTCCTCTA
Statistics
Matches: 70, Mismatches: 6, Indels: 8
0.83 0.07 0.10
Matches are distributed among these distances:
31 4 0.06
32 63 0.90
33 3 0.04
ACGTcount: A:0.44, C:0.11, G:0.10, T:0.36
Consensus pattern (32 bp):
TGTGAAATGATAACAAATATCAACTTTCATTT
Found at i:10743381 original size:44 final size:44
Alignment explanation
Indices: 10743331--10743420 Score: 171
Period size: 44 Copynumber: 2.0 Consensus size: 44
10743321 ACAGCTATTT
10743331 AAAATAGTCGTTGGAAAAGTATCCATTGAGGGGAAAACACTTCC
1 AAAATAGTCGTTGGAAAAGTATCCATTGAGGGGAAAACACTTCC
*
10743375 AAAATAGTCGTTGGAAAAGTATCCATTGAGGGGAAAACGCTTCC
1 AAAATAGTCGTTGGAAAAGTATCCATTGAGGGGAAAACACTTCC
10743419 AA
1 AA
10743421 CTAGAAGTGT
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 45 1.00
ACGTcount: A:0.39, C:0.16, G:0.23, T:0.22
Consensus pattern (44 bp):
AAAATAGTCGTTGGAAAAGTATCCATTGAGGGGAAAACACTTCC
Found at i:10747376 original size:18 final size:18
Alignment explanation
Indices: 10747350--10747384 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
10747340 AGTGTAAAAC
*
10747350 TTGTTGAGTAGAATTAAG
1 TTGTGGAGTAGAATTAAG
10747368 TTGTGGAGTAGAATTAA
1 TTGTGGAGTAGAATTAA
10747385 CAATGAACTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.34, C:0.00, G:0.29, T:0.37
Consensus pattern (18 bp):
TTGTGGAGTAGAATTAAG
Found at i:10752286 original size:17 final size:17
Alignment explanation
Indices: 10752264--10752298 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
10752254 GCCATGGGTT
*
10752264 AGACGTGTTAAAGACCA
1 AGACGTGCTAAAGACCA
10752281 AGACGTGCTAAAGACCA
1 AGACGTGCTAAAGACCA
10752298 A
1 A
10752299 CTATCCCTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.43, C:0.20, G:0.23, T:0.14
Consensus pattern (17 bp):
AGACGTGCTAAAGACCA
Found at i:10752737 original size:13 final size:13
Alignment explanation
Indices: 10752716--10752779 Score: 85
Period size: 13 Copynumber: 4.9 Consensus size: 13
10752706 AGTTTGGCAA
10752716 TGCTTTTGAAAAG
1 TGCTTTTGAAAAG
*
10752729 TGATTTTGAAAAG
1 TGCTTTTGAAAAG
*
10752742 TGC-TGTGAAAATG
1 TGCTTTTGAAAA-G
*
10752755 TGCTTTTGAGAAG
1 TGCTTTTGAAAAG
10752768 TGCTTTTGAAAA
1 TGCTTTTGAAAA
10752780 ATTTAAGTGT
Statistics
Matches: 43, Mismatches: 6, Indels: 4
0.81 0.11 0.08
Matches are distributed among these distances:
12 7 0.16
13 30 0.70
14 6 0.14
ACGTcount: A:0.31, C:0.06, G:0.25, T:0.38
Consensus pattern (13 bp):
TGCTTTTGAAAAG
Found at i:10752958 original size:8 final size:9
Alignment explanation
Indices: 10752940--10752987 Score: 50
Period size: 8 Copynumber: 5.6 Consensus size: 9
10752930 TATTATAACT
10752940 TATTATTAA
1 TATTATTAA
10752949 TATT-TTAATA
1 TATTATT-A-A
10752959 TATTATTAA
1 TATTATTAA
10752968 TATT-TTAA
1 TATTATTAA
10752976 TA-TA-TAA
1 TATTATTAA
10752983 TATTA
1 TATTA
10752988 ATTTTAAATA
Statistics
Matches: 34, Mismatches: 0, Indels: 11
0.76 0.00 0.24
Matches are distributed among these distances:
7 6 0.18
8 10 0.29
9 10 0.29
10 6 0.18
11 2 0.06
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (9 bp):
TATTATTAA
Found at i:10752986 original size:21 final size:19
Alignment explanation
Indices: 10752940--10752998 Score: 84
Period size: 19 Copynumber: 3.1 Consensus size: 19
10752930 TATTATAACT
10752940 TATTATTAATATTTTAATA
1 TATTATTAATATTTTAATA
10752959 TATTATTAATATTTTAATA
1 TATTATTAATATTTTAATA
*
10752978 TATAATATTAAT-TTTAAATA
1 TAT--TATTAATATTTTAATA
10752998 T
1 T
10752999 TTCTAAGTAA
Statistics
Matches: 37, Mismatches: 1, Indels: 3
0.90 0.02 0.07
Matches are distributed among these distances:
19 22 0.59
20 8 0.22
21 7 0.19
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (19 bp):
TATTATTAATATTTTAATA
Found at i:10753396 original size:3 final size:3
Alignment explanation
Indices: 10753388--10753428 Score: 55
Period size: 3 Copynumber: 13.7 Consensus size: 3
10753378 CTTGATTCAC
* * *
10753388 CAT CAT CAT CAC CAT CAT CAT CAT CGT CGT CAT CAT CAT CA
1 CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CA
10753429 CTTTCTCGAC
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.29, C:0.37, G:0.05, T:0.29
Consensus pattern (3 bp):
CAT
Found at i:10753401 original size:12 final size:12
Alignment explanation
Indices: 10753384--10753410 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
10753374 ATTGCTTGAT
10753384 TCACCATCATCA
1 TCACCATCATCA
10753396 TCACCATCATCA
1 TCACCATCATCA
10753408 TCA
1 TCA
10753411 TCGTCGTCAT
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:0.33, C:0.41, G:0.00, T:0.26
Consensus pattern (12 bp):
TCACCATCATCA
Found at i:10755080 original size:72 final size:72
Alignment explanation
Indices: 10754817--10755050 Score: 357
Period size: 72 Copynumber: 3.3 Consensus size: 72
10754807 AAAATCATAT
**
10754817 ATAAACAACTATTGATAAAACTA-ATTTA-GTATAAATAAGTAGAACATAAA-TCAATATCCAAA
1 ATAAACAACTATTGATAAAACTAGA-TTACACATAAATAAGTAGAACATAAATTCAATATCCAAA
*
10754879 TACCAAAC
65 AACCAAAC
* *
10754887 ATAAACAACTTTTAATAAAACTAGATTACACATAAATAAGTAGAACATAAATTCAATATCCAAAA
1 ATAAACAACTATTGATAAAACTAGATTACACATAAATAAGTAGAACATAAATTCAATATCCAAAA
10754952 ACCAAAC
66 ACCAAAC
* *
10754959 ATAAACAACCATTGGTAAAACTAGATTACACATAAATAAGTAGAACATAAATTCAATATCCAAAA
1 ATAAACAACTATTGATAAAACTAGATTACACATAAATAAGTAGAACATAAATTCAATATCCAAAA
*
10755024 ATCAAAC
66 ACCAAAC
*
10755031 ATAAATAACTATTGATAAAA
1 ATAAACAACTATTGATAAAA
10755051 TTAGTTTAAC
Statistics
Matches: 148, Mismatches: 13, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
70 24 0.16
71 21 0.14
72 103 0.70
ACGTcount: A:0.55, C:0.15, G:0.06, T:0.24
Consensus pattern (72 bp):
ATAAACAACTATTGATAAAACTAGATTACACATAAATAAGTAGAACATAAATTCAATATCCAAAA
ACCAAAC
Found at i:10755504 original size:18 final size:18
Alignment explanation
Indices: 10755483--10755530 Score: 87
Period size: 18 Copynumber: 2.7 Consensus size: 18
10755473 TCCATCAATT
*
10755483 TGAACATCATTTGAAATG
1 TGAACATCATTTAAAATG
10755501 TGAACATCATTTAAAATG
1 TGAACATCATTTAAAATG
10755519 TGAACATCATTT
1 TGAACATCATTT
10755531 CTCACATTTT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
18 29 1.00
ACGTcount: A:0.40, C:0.12, G:0.12, T:0.35
Consensus pattern (18 bp):
TGAACATCATTTAAAATG
Found at i:10756486 original size:21 final size:21
Alignment explanation
Indices: 10756460--10756550 Score: 103
Period size: 21 Copynumber: 4.3 Consensus size: 21
10756450 AGATAATATA
10756460 TATAAATATATATGGTCATAG
1 TATAAATATATATGGTCATAG
* **
10756481 TATAAAAATATTACAGTCAATA-
1 TATAAATATA-TATGGTC-ATAG
*
10756503 TGTAAATATATATGGTCATAG
1 TATAAATATATATGGTCATAG
*
10756524 TGTAAATATATATGGTCATAG
1 TATAAATATATATGGTCATAG
*
10756545 TCTAAA
1 TATAAA
10756551 CCAATGGAGA
Statistics
Matches: 59, Mismatches: 8, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
20 3 0.05
21 40 0.68
22 13 0.22
23 3 0.05
ACGTcount: A:0.44, C:0.07, G:0.13, T:0.36
Consensus pattern (21 bp):
TATAAATATATATGGTCATAG
Found at i:10761931 original size:26 final size:26
Alignment explanation
Indices: 10761902--10762009 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
10761892 TGGTACAAAT
10761902 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
10761928 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
10761954 TGATAATGGGTTAGGTAAATGTTCTA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
10761980 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
10762006 TGAT
1 TGAT
10762010 GGGCATTTCA
Statistics
Matches: 75, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 75 1.00
ACGTcount: A:0.32, C:0.06, G:0.24, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:10768963 original size:26 final size:26
Alignment explanation
Indices: 10768934--10769093 Score: 232
Period size: 26 Copynumber: 6.2 Consensus size: 26
10768924 TGGTACAAAT
*
10768934 TGATAATGTG-TTAGGTAAATATTTCA
1 TGATAATG-GATTAGGTAAATATTCCA
10768960 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGATTAGGTAAATATTCCA
* * *
10768986 TGATAATGGGTTAGGTAAATGTTCTA
1 TGATAATGGATTAGGTAAATATTCCA
10769012 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGATTAGGTAAATATTCCA
* *
10769038 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGATTAGGTAAATATTCCA
* *
10769064 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGATTAGGTAAATATTCCA
10769090 TGAT
1 TGAT
10769094 GGGCATTTCA
Statistics
Matches: 123, Mismatches: 10, Indels: 2
0.91 0.07 0.01
Matches are distributed among these distances:
25 1 0.01
26 122 0.99
ACGTcount: A:0.34, C:0.06, G:0.23, T:0.38
Consensus pattern (26 bp):
TGATAATGGATTAGGTAAATATTCCA
Found at i:10769040 original size:78 final size:78
Alignment explanation
Indices: 10768934--10769093 Score: 259
Period size: 78 Copynumber: 2.1 Consensus size: 78
10768924 TGGTACAAAT
*
10768934 TGATAATGTGTTAGGTAAATATTTCATGATAATGGATTAGGTAAATATTCCATGATAATGGGTTA
1 TGATAATGTGTTAGGTAAATATTCCATGATAATGGATTAGGTAAATATTCCATGATAATGGGTTA
*
10768999 GGTAAATGTTCTA
66 GGTAAATGTTCCA
* * *
10769012 TGATAATG-GATTAGGTAAATATTCCATGATAATGGGTTAGGTAAATGTTCCATGATAATGGTTT
1 TGATAATGTG-TTAGGTAAATATTCCATGATAATGGATTAGGTAAATATTCCATGATAATGGGTT
10769076 AGGTAAATGTTCCA
65 AGGTAAATGTTCCA
10769090 TGAT
1 TGAT
10769094 GGGCATTTCA
Statistics
Matches: 76, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
77 1 0.01
78 75 0.99
ACGTcount: A:0.34, C:0.06, G:0.23, T:0.38
Consensus pattern (78 bp):
TGATAATGTGTTAGGTAAATATTCCATGATAATGGATTAGGTAAATATTCCATGATAATGGGTTA
GGTAAATGTTCCA
Found at i:10771961 original size:26 final size:24
Alignment explanation
Indices: 10771917--10771964 Score: 69
Period size: 26 Copynumber: 1.9 Consensus size: 24
10771907 ATATAATATT
*
10771917 TAATAAATATAAAAAACAAATGAA
1 TAATAAAAATAAAAAACAAATGAA
10771941 TAATAAGAAATAAAGAAACAAATG
1 TAATAA-AAATAAA-AAACAAATG
10771965 CAAACTTTAG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 6 0.29
25 6 0.29
26 9 0.43
ACGTcount: A:0.69, C:0.04, G:0.08, T:0.19
Consensus pattern (24 bp):
TAATAAAAATAAAAAACAAATGAA
Found at i:10772924 original size:19 final size:20
Alignment explanation
Indices: 10772880--10772930 Score: 68
Period size: 20 Copynumber: 2.6 Consensus size: 20
10772870 ATTAATTATT
* *
10772880 TATAAAATTTAATTTGAATA
1 TATAAAATATAATTTAAATA
*
10772900 TATAAAATATATTTTAAATA
1 TATAAAATATAATTTAAATA
10772920 T-TAAAATATAA
1 TATAAAATATAA
10772931 CCAATAAAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
19 9 0.33
20 18 0.67
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (20 bp):
TATAAAATATAATTTAAATA
Found at i:10776371 original size:37 final size:37
Alignment explanation
Indices: 10776244--10776372 Score: 116
Period size: 37 Copynumber: 3.5 Consensus size: 37
10776234 CTTGGAAGAC
* * * *
10776244 AAAAGACAAAGATGAATAGAAGTAATTCCCTACAAAG
1 AAAAGACAGAGATGAACAGAAGTGATTCTCTACAAAG
** * * * * *
10776281 AAAAGATGGAGATAAATAGTAA-AGATCCTCTACGAAG
1 AAAAGACAGAGATGAACAG-AAGTGATTCTCTACAAAG
* **
10776318 AAAAAATGGAGATGAACAGAAGTGATTCTCTACAAAG
1 AAAAGACAGAGATGAACAGAAGTGATTCTCTACAAAG
10776355 AAAAGACAGAGATGAACA
1 AAAAGACAGAGATGAACA
10776373 AGAACAATTC
Statistics
Matches: 72, Mismatches: 18, Indels: 4
0.77 0.19 0.04
Matches are distributed among these distances:
36 2 0.03
37 68 0.94
38 2 0.03
ACGTcount: A:0.52, C:0.12, G:0.20, T:0.16
Consensus pattern (37 bp):
AAAAGACAGAGATGAACAGAAGTGATTCTCTACAAAG
Found at i:10776386 original size:74 final size:74
Alignment explanation
Indices: 10776253--10776397 Score: 170
Period size: 74 Copynumber: 2.0 Consensus size: 74
10776243 CAAAAGACAA
* ** * *
10776253 AGATGAATAGAAGTAATTCCCTACAAAGAAAAGATGGAGATAAATAGTAAAGATCCTCTACGAAG
1 AGATGAACAGAAGTAATTCCCTACAAAGAAAAGACAGAGATAAATAGTAAAGATCCTCTACCAAA
10776318 AAAAAATGG
66 AAAAAATGG
* * *
10776327 AGATGAACAGAAGTGATTCTCTACAAAGAAAAGACAGAGATGAACA-AG-AACA-ATTCTCTACC
1 AGATGAACAGAAGTAATTCCCTACAAAGAAAAGACAGAGAT-AA-ATAGTAA-AGATCCTCTACC
10776389 AAAAAAAAA
63 AAAAAAAAA
10776398 AAAAAAAGAA
Statistics
Matches: 60, Mismatches: 8, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
74 54 0.90
75 5 0.08
76 1 0.02
ACGTcount: A:0.52, C:0.13, G:0.18, T:0.17
Consensus pattern (74 bp):
AGATGAACAGAAGTAATTCCCTACAAAGAAAAGACAGAGATAAATAGTAAAGATCCTCTACCAAA
AAAAAATGG
Found at i:10777499 original size:16 final size:16
Alignment explanation
Indices: 10777478--10777511 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
10777468 TAAAGTAAAT
* *
10777478 AAAATAAGTAAAGTTA
1 AAAATAAGAAAACTTA
10777494 AAAATAAGAAAACTTA
1 AAAATAAGAAAACTTA
10777510 AA
1 AA
10777512 GAATTAGTGT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.68, C:0.03, G:0.09, T:0.21
Consensus pattern (16 bp):
AAAATAAGAAAACTTA
Found at i:10779182 original size:21 final size:19
Alignment explanation
Indices: 10779154--10779193 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 19
10779144 CGTCAAAGTT
10779154 TAAGTTTATCACAAACTTAC
1 TAAGTTTAT-ACAAACTTAC
*
10779174 TAAGCTTTATGCAAACTTAC
1 TAAG-TTTATACAAACTTAC
10779194 CTCGTTTTGA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 13 0.72
21 5 0.28
ACGTcount: A:0.38, C:0.20, G:0.07, T:0.35
Consensus pattern (19 bp):
TAAGTTTATACAAACTTAC
Found at i:10782278 original size:34 final size:37
Alignment explanation
Indices: 10782166--10782278 Score: 108
Period size: 37 Copynumber: 3.1 Consensus size: 37
10782156 AGCAAGAGTA
* * *
10782166 ATTCTCTACAAAGAAAAGACGGAGATGAAC-ATGAACG
1 ATTCTCTGCAAAGAAAATACAGAGATGAACAAT-AACG
* * * **
10782203 ACTCTTTGCAAAGAAAATACAGAGATGAATAATAAAA
1 ATTCTCTGCAAAGAAAATACAGAGATGAACAATAACG
*
10782240 ATTCTCTGCATAGAAAA-A-A-AGATGAACAATAACG
1 ATTCTCTGCAAAGAAAATACAGAGATGAACAATAACG
10782274 ATTCT
1 ATTCT
10782279 ATTCAAAATT
Statistics
Matches: 61, Mismatches: 14, Indels: 5
0.76 0.17 0.06
Matches are distributed among these distances:
34 17 0.28
35 1 0.02
36 1 0.02
37 40 0.66
38 2 0.03
ACGTcount: A:0.49, C:0.14, G:0.16, T:0.21
Consensus pattern (37 bp):
ATTCTCTGCAAAGAAAATACAGAGATGAACAATAACG
Found at i:10785318 original size:11 final size:11
Alignment explanation
Indices: 10785302--10785367 Score: 50
Period size: 11 Copynumber: 6.0 Consensus size: 11
10785292 TTATTTCTAA
10785302 TATGTATATAT
1 TATGTATATAT
*
10785313 TATGTAAATATT
1 TATGTATATA-T
10785325 CTAATGT-TATAT
1 -T-ATGTATATAT
*
10785337 TATATATATAT
1 TATGTATATAT
10785348 TCA--TA-ATAT
1 T-ATGTATATAT
10785357 TATGTATATAT
1 TATGTATATAT
10785368 GTTTTTAGTA
Statistics
Matches: 44, Mismatches: 3, Indels: 16
0.70 0.05 0.25
Matches are distributed among these distances:
8 1 0.02
9 5 0.11
10 7 0.16
11 20 0.45
12 3 0.07
13 4 0.09
14 4 0.09
ACGTcount: A:0.39, C:0.03, G:0.06, T:0.52
Consensus pattern (11 bp):
TATGTATATAT
Found at i:10785347 original size:24 final size:25
Alignment explanation
Indices: 10785303--10785367 Score: 71
Period size: 24 Copynumber: 2.6 Consensus size: 25
10785293 TATTTCTAAT
* *
10785303 ATGTATATATTATGTAAATATTC-TA
1 ATGT-TATATTATATATATATTCATA
10785328 ATGTTATATTATATATATATTCATA
1 ATGTTATATTATATATATATTCATA
* *
10785353 ATATTAT-GTATATAT
1 ATGTTATATTATATAT
10785368 GTTTTTAGTA
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
24 23 0.66
25 12 0.34
ACGTcount: A:0.40, C:0.03, G:0.06, T:0.51
Consensus pattern (25 bp):
ATGTTATATTATATATATATTCATA
Found at i:10785447 original size:19 final size:19
Alignment explanation
Indices: 10785419--10785461 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
10785409 TATATAGTAT
*
10785419 TTTTATTATTATTACTT-TA
1 TTTTAGTATTATTA-TTATA
10785438 TTTTAGTATTATTATTATA
1 TTTTAGTATTATTATTATA
10785457 TTTTA
1 TTTTA
10785462 TTTACTTATG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 2 0.09
19 20 0.91
ACGTcount: A:0.28, C:0.02, G:0.02, T:0.67
Consensus pattern (19 bp):
TTTTAGTATTATTATTATA
Found at i:10785552 original size:42 final size:42
Alignment explanation
Indices: 10785505--10785587 Score: 166
Period size: 42 Copynumber: 2.0 Consensus size: 42
10785495 TATGCATATA
10785505 TATACGTATTCATATAATAGTATTTGTAATTACCTTATTTTG
1 TATACGTATTCATATAATAGTATTTGTAATTACCTTATTTTG
10785547 TATACGTATTCATATAATAGTATTTGTAATTACCTTATTTT
1 TATACGTATTCATATAATAGTATTTGTAATTACCTTATTTT
10785588 AACATTATTA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 41 1.00
ACGTcount: A:0.31, C:0.10, G:0.08, T:0.51
Consensus pattern (42 bp):
TATACGTATTCATATAATAGTATTTGTAATTACCTTATTTTG
Found at i:10785980 original size:24 final size:23
Alignment explanation
Indices: 10785924--10785983 Score: 66
Period size: 26 Copynumber: 2.4 Consensus size: 23
10785914 TACATGCATA
* *
10785924 TATATATTATGTGTATATTCTTT
1 TATATATTATGTATATATTATTT
10785947 TCATAGATATTATGTATATATATATTT
1 T-AT--ATATTATGTATATAT-TATTT
10785974 TATATATTAT
1 TATATATTAT
10785984 TTTTAACTTT
Statistics
Matches: 31, Mismatches: 2, Indels: 7
0.77 0.05 0.17
Matches are distributed among these distances:
23 1 0.03
24 9 0.29
26 16 0.52
27 5 0.16
ACGTcount: A:0.33, C:0.03, G:0.07, T:0.57
Consensus pattern (23 bp):
TATATATTATGTATATATTATTT
Found at i:10787936 original size:37 final size:37
Alignment explanation
Indices: 10787902--10787981 Score: 117
Period size: 37 Copynumber: 2.2 Consensus size: 37
10787892 ACTAAAGATC
*
10787902 GAGATGAACAAGAGTGATTCTCTA-AAATGAAAAGACA
1 GAGATGAACAAGAATGATTCTCTACAAA-GAAAAGACA
* *
10787939 GAGATGAACATGAATGATTCTCTACAAAGAAAAAACA
1 GAGATGAACAAGAATGATTCTCTACAAAGAAAAGACA
10787976 GAGATG
1 GAGATG
10787982 GATAGTAGAG
Statistics
Matches: 39, Mismatches: 3, Indels: 2
0.89 0.07 0.05
Matches are distributed among these distances:
37 36 0.92
38 3 0.08
ACGTcount: A:0.49, C:0.11, G:0.21, T:0.19
Consensus pattern (37 bp):
GAGATGAACAAGAATGATTCTCTACAAAGAAAAGACA
Found at i:10792549 original size:26 final size:26
Alignment explanation
Indices: 10792518--10792625 Score: 166
Period size: 26 Copynumber: 4.2 Consensus size: 26
10792508 TGAAATTCCC
10792518 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAAACCATT
*
10792544 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAAACCATT
*
10792570 ATCATGGAATATTTACCTAATA-CATT
1 ATCATGGAACATTTACCTAA-ACCATT
10792596 ATCATGGAACATTTACCT-AACTCATT
1 ATCATGGAACATTTACCTAAAC-CATT
10792622 ATCA
1 ATCA
10792626 ATTTGTATCA
Statistics
Matches: 75, Mismatches: 4, Indels: 6
0.88 0.05 0.07
Matches are distributed among these distances:
24 1 0.01
25 1 0.01
26 73 0.97
ACGTcount: A:0.37, C:0.22, G:0.07, T:0.33
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAAACCATT
Found at i:10798103 original size:25 final size:26
Alignment explanation
Indices: 10798066--10798118 Score: 65
Period size: 26 Copynumber: 2.0 Consensus size: 26
10798056 TCAAACATGC
10798066 ATTTAGGTCAATTTAACC-CTAGGGGT
1 ATTTAGGTCAATTT-ACCACTAGGGGT
*
10798092 ATTTCGGT-AATTTACCTACTAGGGGT
1 ATTTAGGTCAATTTACC-ACTAGGGGT
10798118 A
1 A
10798119 AAACTGTAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
24 3 0.12
25 5 0.21
26 16 0.67
ACGTcount: A:0.26, C:0.15, G:0.23, T:0.36
Consensus pattern (26 bp):
ATTTAGGTCAATTTACCACTAGGGGT
Found at i:10799635 original size:26 final size:26
Alignment explanation
Indices: 10799604--10799711 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
10799594 TGAAATTCCC
*
10799604 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
10799630 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
10799656 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
10799682 ATCATGGAATATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
10799708 ATCA
1 ATCA
10799712 ATTTGTATCA
Statistics
Matches: 78, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 78 1.00
ACGTcount: A:0.36, C:0.23, G:0.07, T:0.33
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:10801141 original size:10 final size:10
Alignment explanation
Indices: 10801114--10801143 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
10801104 AGCTAATCCA
*
10801114 TAACTACCAC
1 TAACTACTAC
10801124 TAACTACTAC
1 TAACTACTAC
10801134 TAACTACTAC
1 TAACTACTAC
10801144 CAATCTTTCA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.40, C:0.33, G:0.00, T:0.27
Consensus pattern (10 bp):
TAACTACTAC
Found at i:10805644 original size:10 final size:10
Alignment explanation
Indices: 10805629--10805653 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
10805619 AGCTAATCCA
10805629 TAACTACCAC
1 TAACTACCAC
10805639 TAACTACCAC
1 TAACTACCAC
10805649 TAACT
1 TAACT
10805654 GCTACCAATC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.40, C:0.36, G:0.00, T:0.24
Consensus pattern (10 bp):
TAACTACCAC
Found at i:10806525 original size:19 final size:20
Alignment explanation
Indices: 10806473--10806527 Score: 53
Period size: 19 Copynumber: 2.8 Consensus size: 20
10806463 GAAATTTCTG
10806473 AAAATAACTTTAAAA-GAATA
1 AAAAT-ACTTTAAAATGAATA
* *
10806493 AAAATA-TGTAAAAATTAA-A
1 AAAATACT-TTAAAATGAATA
10806512 AAAATACTTTAAAATG
1 AAAATACTTTAAAATG
10806528 GGTTTTATTG
Statistics
Matches: 28, Mismatches: 4, Indels: 7
0.72 0.10 0.18
Matches are distributed among these distances:
18 1 0.04
19 19 0.68
20 8 0.29
ACGTcount: A:0.64, C:0.04, G:0.05, T:0.27
Consensus pattern (20 bp):
AAAATACTTTAAAATGAATA
Found at i:10811748 original size:3 final size:3
Alignment explanation
Indices: 10811740--10811793 Score: 90
Period size: 3 Copynumber: 18.0 Consensus size: 3
10811730 GTATATACAT
* *
10811740 ATA ATA ATA ATG ATG ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
10811788 ATA ATA
1 ATA ATA
10811794 TGAAAATACA
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 49 1.00
ACGTcount: A:0.63, C:0.00, G:0.04, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:10812402 original size:8 final size:8
Alignment explanation
Indices: 10812391--10812415 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
10812381 TAAAATATAT
10812391 TTTTTTTA
1 TTTTTTTA
10812399 TTTTTTTA
1 TTTTTTTA
10812407 TTTTTTTA
1 TTTTTTTA
10812415 T
1 T
10812416 GTTTATATGT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (8 bp):
TTTTTTTA
Found at i:10813004 original size:17 final size:17
Alignment explanation
Indices: 10812982--10813015 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
10812972 GACGGGTTAT
10812982 TGGGTTGTTTGGTTTAG
1 TGGGTTGTTTGGTTTAG
10812999 TGGGTTGTTTGGTTTAG
1 TGGGTTGTTTGGTTTAG
10813016 GGCCCAAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.06, C:0.00, G:0.41, T:0.53
Consensus pattern (17 bp):
TGGGTTGTTTGGTTTAG
Found at i:10813745 original size:72 final size:72
Alignment explanation
Indices: 10813647--10813798 Score: 193
Period size: 72 Copynumber: 2.1 Consensus size: 72
10813637 TGAAACTTAA
** * ** *
10813647 TTTGAAAAGCAGATTTTGAAAATACCTCAAT-G-AGTCTTGAGGCTCAACTCATTTCTCGCAATA
1 TTTGAAAAGCAGAAATTGAAAATACCTC-ATCGTA-TCCTGAGGCTCAACTCACCTCTAGCAATA
10813710 TGAGTTGAAT
64 TGAGTTG-AT
*
10813720 TTTGAAAA-CAGAAATTGAAATTACCTCATCGTATCCTGAGGCTCAACTCACCTCTAGCAATATG
1 TTTGAAAAGCAGAAATTGAAAATACCTCATCGTATCCTGAGGCTCAACTCACCTCTAGCAATATG
10813784 AGTTGAT
66 AGTTGAT
10813791 TTTGAAAA
1 TTTGAAAA
10813799 AGTAGGAATT
Statistics
Matches: 70, Mismatches: 7, Indels: 6
0.84 0.08 0.07
Matches are distributed among these distances:
71 12 0.17
72 49 0.70
73 9 0.13
ACGTcount: A:0.34, C:0.18, G:0.16, T:0.32
Consensus pattern (72 bp):
TTTGAAAAGCAGAAATTGAAAATACCTCATCGTATCCTGAGGCTCAACTCACCTCTAGCAATATG
AGTTGAT
Found at i:10813876 original size:127 final size:127
Alignment explanation
Indices: 10813700--10814160 Score: 863
Period size: 127 Copynumber: 3.6 Consensus size: 127
10813690 TCAACTCATT
10813700 TCTCGCAATATGAGTTGAATT-TTGA-AAACAGAAATTGAAATTACCTCATCGTATCCTGAGGCT
1 TCTCGCAATATGAGTTG-ATTCTTGACAAACAGAAATTGAAATTACCTCATCGTATCCTGAGGCT
10813763 CAACTCACCTCTAGCAATATGAGTTGATTTTGAAAAAGTAGGAATTAAAAGGTTCAACCCACC
65 CAACTCACCTCTAGCAATATGAGTTGATTTTGAAAAAGTAGGAATTAAAAGGTTCAACCCACC
* *
10813826 TCTCGCAATATGAGTTGATTCTTGACAGACAGAAATTGAAATTACCTCATCGTATCCTGAGGCCC
1 TCTCGCAATATGAGTTGATTCTTGACAAACAGAAATTGAAATTACCTCATCGTATCCTGAGGCTC
10813891 AACTCACCTCTAGCAATATGAGTTGATTTTGAAAAAGTAGGAATTAAAAGGTTCAACCCACC
66 AACTCACCTCTAGCAATATGAGTTGATTTTGAAAAAGTAGGAATTAAAAGGTTCAACCCACC
10813953 TCTCGCAATATGAGTTGATTCTTGACAAACAGAAATTGAAATTACCTCATCGTATCCTGAGGCTC
1 TCTCGCAATATGAGTTGATTCTTGACAAACAGAAATTGAAATTACCTCATCGTATCCTGAGGCTC
10814018 AACTCACCTCTAGCAATATGAGTTGATTTTGAAAAAGTAGGAATTAAAAGGTTCAACCCACC
66 AACTCACCTCTAGCAATATGAGTTGATTTTGAAAAAGTAGGAATTAAAAGGTTCAACCCACC
* *
10814080 TCTCACAATATGAGTTGATTCTTGACAAACAGAAATTGAAATTACCTCATCCTATCCTGAGGCTC
1 TCTCGCAATATGAGTTGATTCTTGACAAACAGAAATTGAAATTACCTCATCGTATCCTGAGGCTC
10814145 AACTCACCTCTAGCAA
66 AACTCACCTCTAGCAA
10814161 AAATGAAAAA
Statistics
Matches: 327, Mismatches: 6, Indels: 3
0.97 0.02 0.01
Matches are distributed among these distances:
125 3 0.01
126 21 0.06
127 303 0.93
ACGTcount: A:0.34, C:0.21, G:0.16, T:0.28
Consensus pattern (127 bp):
TCTCGCAATATGAGTTGATTCTTGACAAACAGAAATTGAAATTACCTCATCGTATCCTGAGGCTC
AACTCACCTCTAGCAATATGAGTTGATTTTGAAAAAGTAGGAATTAAAAGGTTCAACCCACC
Found at i:10827113 original size:3 final size:3
Alignment explanation
Indices: 10827105--10827167 Score: 108
Period size: 3 Copynumber: 21.0 Consensus size: 3
10827095 GTATATACAT
* *
10827105 ATA ATA ATA ATG ATG ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
10827153 ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA
10827168 TGAAAATACA
Statistics
Matches: 58, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
3 58 1.00
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:10827750 original size:8 final size:8
Alignment explanation
Indices: 10827739--10827763 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
10827729 AAAAATATTT
10827739 TTTTTTTA
1 TTTTTTTA
10827747 TTTTTTTA
1 TTTTTTTA
10827755 TTTTTTTA
1 TTTTTTTA
10827763 T
1 T
10827764 GTTTATATGT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (8 bp):
TTTTTTTA
Found at i:10828355 original size:17 final size:17
Alignment explanation
Indices: 10828333--10828366 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
10828323 GACGGGTTAT
*
10828333 TGGGTTGTTTGGTTTAG
1 TGGGTTGTTTAGTTTAG
10828350 TGGGTTGTTTAGTTTAG
1 TGGGTTGTTTAGTTTAG
10828367 GGCCCAAAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.09, C:0.00, G:0.38, T:0.53
Consensus pattern (17 bp):
TGGGTTGTTTAGTTTAG
Found at i:10828997 original size:14 final size:13
Alignment explanation
Indices: 10828974--10829015 Score: 59
Period size: 14 Copynumber: 3.2 Consensus size: 13
10828964 CATACAAATT
10828974 AGAAGAAAAAAGAA
1 AGAAG-AAAAAGAA
10828988 AGAAAGAAAAAGAA
1 AG-AAGAAAAAGAA
10829002 AGAAG-AAAAGAA
1 AGAAGAAAAAGAA
10829014 AG
1 AG
10829016 TCACACACGG
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
12 9 0.33
13 3 0.11
14 12 0.44
15 3 0.11
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (13 bp):
AGAAGAAAAAGAA
Found at i:10831113 original size:12 final size:12
Alignment explanation
Indices: 10831096--10831120 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
10831086 TTGGGAATTT
10831096 TTCCAAAAGAAA
1 TTCCAAAAGAAA
10831108 TTCCAAAAGAAA
1 TTCCAAAAGAAA
10831120 T
1 T
10831121 ATATTGGCGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.56, C:0.16, G:0.08, T:0.20
Consensus pattern (12 bp):
TTCCAAAAGAAA
Found at i:10837240 original size:24 final size:23
Alignment explanation
Indices: 10837200--10837244 Score: 56
Period size: 24 Copynumber: 1.9 Consensus size: 23
10837190 TCACATAAAC
10837200 TCATAATTCAACTCAATTCAATTT
1 TCATAATTCAACTCAA-TCAATTT
*
10837224 TCATATTTCAA-TACAATCAAT
1 TCATAATTCAACT-CAATCAAT
10837245 ATCCAATATC
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
23 6 0.32
24 13 0.68
ACGTcount: A:0.40, C:0.20, G:0.00, T:0.40
Consensus pattern (23 bp):
TCATAATTCAACTCAATCAATTT
Found at i:10837696 original size:23 final size:24
Alignment explanation
Indices: 10837652--10837704 Score: 65
Period size: 23 Copynumber: 2.3 Consensus size: 24
10837642 AAGTAAATAC
* * *
10837652 ATATATGTATTACAGATGTACA-T
1 ATATATTTATTACACATATACACT
10837675 ATATATTTATTACACATATACACT
1 ATATATTTATTACACATATACACT
10837699 AT-TATT
1 ATATATT
10837705 ACCACACAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
23 23 0.88
24 3 0.12
ACGTcount: A:0.40, C:0.11, G:0.06, T:0.43
Consensus pattern (24 bp):
ATATATTTATTACACATATACACT
Found at i:10837748 original size:13 final size:14
Alignment explanation
Indices: 10837732--10837760 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
10837722 ATTTGTTTTC
10837732 TTTATTTA-TTTAT
1 TTTATTTACTTTAT
10837745 TTTATTTACTTTAT
1 TTTATTTACTTTAT
10837759 TT
1 TT
10837761 AAATATTTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.53
14 7 0.47
ACGTcount: A:0.21, C:0.03, G:0.00, T:0.76
Consensus pattern (14 bp):
TTTATTTACTTTAT
Found at i:10843392 original size:23 final size:23
Alignment explanation
Indices: 10843355--10843400 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
10843345 AATACATATG
*
10843355 TATTACAAATGTACA-TATGTATT
1 TATTACAAATATACACTAT-TATT
*
10843378 TATTACACATATACACTATTATT
1 TATTACAAATATACACTATTATT
10843401 ACCACACAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 17 0.85
24 3 0.15
ACGTcount: A:0.39, C:0.13, G:0.04, T:0.43
Consensus pattern (23 bp):
TATTACAAATATACACTATTATT
Found at i:10843440 original size:13 final size:14
Alignment explanation
Indices: 10843424--10843452 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
10843414 CATAATTTGA
10843424 TTTATTTA-TTTAT
1 TTTATTTACTTTAT
10843437 TTTATTTACTTTAT
1 TTTATTTACTTTAT
10843451 TT
1 TT
10843453 AATTAATATG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.53
14 7 0.47
ACGTcount: A:0.21, C:0.03, G:0.00, T:0.76
Consensus pattern (14 bp):
TTTATTTACTTTAT
Found at i:10849268 original size:22 final size:23
Alignment explanation
Indices: 10849225--10849268 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
10849215 AAAAACATTC
*
10849225 AATTTTAAATATATTTTTATATA
1 AATTTTAAATATATTTTAATATA
*
10849248 AATTTTAATTA-ATTTTAATAT
1 AATTTTAAATATATTTTAATAT
10849269 TTAGAATAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 9 0.47
23 10 0.53
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (23 bp):
AATTTTAAATATATTTTAATATA
Found at i:10850902 original size:9 final size:9
Alignment explanation
Indices: 10850890--10850927 Score: 53
Period size: 9 Copynumber: 4.3 Consensus size: 9
10850880 TAAAAATTTA
10850890 TAAAAAAAT
1 TAAAAAAAT
10850899 T--AAAAAT
1 TAAAAAAAT
10850906 TAAAAATAAT
1 TAAAAA-AAT
10850916 TAAAAAAAT
1 TAAAAAAAT
10850925 TAA
1 TAA
10850928 TGTGACAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
7 7 0.27
9 10 0.38
10 9 0.35
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (9 bp):
TAAAAAAAT
Found at i:10850916 original size:17 final size:19
Alignment explanation
Indices: 10850880--10850921 Score: 61
Period size: 17 Copynumber: 2.3 Consensus size: 19
10850870 TATAAAATCC
10850880 TAAAAATTTATAAAAAAAT
1 TAAAAATTTATAAAAAAAT
*
10850899 TAAAAA-TTA-AAAATAAT
1 TAAAAATTTATAAAAAAAT
10850916 TAAAAA
1 TAAAAA
10850922 AATTAATGTG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 13 0.59
18 3 0.14
19 6 0.27
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (19 bp):
TAAAAATTTATAAAAAAAT
Found at i:10854188 original size:24 final size:24
Alignment explanation
Indices: 10854161--10854209 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
10854151 CAATCTCAAC
10854161 AAAAAAATATTCTTCCTTTTTCTT
1 AAAAAAATATTCTTCCTTTTTCTT
10854185 AAAAAAATATTCTTCCTTTTTCTT
1 AAAAAAATATTCTTCCTTTTTCTT
10854209 A
1 A
10854210 CTTTCCTTTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.35, C:0.16, G:0.00, T:0.49
Consensus pattern (24 bp):
AAAAAAATATTCTTCCTTTTTCTT
Found at i:10866617 original size:12 final size:12
Alignment explanation
Indices: 10866600--10866624 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
10866590 AGTGTTCCCA
10866600 AAAAAAAAAAAG
1 AAAAAAAAAAAG
10866612 AAAAAAAAAAAG
1 AAAAAAAAAAAG
10866624 A
1 A
10866625 GTTTTAAACA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.92, C:0.00, G:0.08, T:0.00
Consensus pattern (12 bp):
AAAAAAAAAAAG
Found at i:10868764 original size:25 final size:24
Alignment explanation
Indices: 10868735--10868794 Score: 61
Period size: 25 Copynumber: 2.5 Consensus size: 24
10868725 TTATAAAAAA
10868735 TATTTTAAAAAT-TAAAACATTAAAT
1 TATTTTAAAAATATAAAA-A-TAAAT
* *
10868760 TATTTAAAATAATATAAAAATATAT
1 TATTTTAAA-AATATAAAAATAAAT
10868785 T-TTTTAAAAA
1 TATTTTAAAAA
10868795 ATTTAAATTT
Statistics
Matches: 30, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
23 2 0.07
24 6 0.20
25 13 0.43
26 4 0.13
27 5 0.17
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.42
Consensus pattern (24 bp):
TATTTTAAAAATATAAAAATAAAT
Found at i:10869011 original size:2 final size:2
Alignment explanation
Indices: 10869004--10869993 Score: 492
Period size: 2 Copynumber: 512.5 Consensus size: 2
10868994 GAGGGAGGGC
* * * * *
10869004 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GG GG GG GG GG
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
* * * * * * *
10869046 GA GG GA GG GA GA GA GA GA GG GC GA GA GA GG GA GG GA AA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
10869088 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
* * * * * * * *
10869130 GA GA GA GA GA GG GG GA GG GA GG GA G- GG GG GA GA GA GA GG GG
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
* * * * *
10869171 GA GA GG GA GA GA GA GA GA CG- GA GG GA GG GA GG GA G- GA GG GA
1 GA GA GA GA GA GA GA GA GA -GA GA GA GA GA GA GA GA GA GA GA GA
* * *
10869212 GA GA GA GA GA GA GA GG GA GA GG GA GA GC GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
* *
10869254 GA GA G- GA GA GA GA GA GA GG GA GA GT GA GA -A G- GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
* * * * * *
10869293 GA GG GA GA GA GA GG GA GA GA GA GG GA GA GG GA G- GA AA TA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
* * * * *
10869334 GA GG GA G- GA -A GA GA GA GA GG GA GG GA G- GG GA GA GA GG GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
* * * * * *
10869373 AA GA GA GA GA GA GA GA GA GA GA GA GT GA GT GA GT GA GT GA GT
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
* * * *
10869415 GA GA GA GA AA GT GA GA TA GA GA GA GA GA GA GA GG GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
* * **
10869457 GA G- GG GG GA GA -A CC GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
* * * * * *
10869497 GA GA GA GA GA GA GA GG GA -A G- GA GG GA GA GG GA GG GA GG GG
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
* * * * * * * *
10869537 GA GA GG GA AA GG GA AA TA GA GA GA GG GA GA GA GA GA GA GT GT
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
* * * * * * * * *
10869579 GT GT GT GT GT GA GT GA GTA -A GT GA GT GA GA GA GG GA GA GA GA
1 GA GA GA GA GA GA GA GA G-A GA GA GA GA GA GA GA GA GA GA GA GA
* * * * * * * * * * * *
10869621 GA GA GT GT GT GT GT GT GT GT GT GT GT GA GT GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
* * * *
10869663 GA GG GA GA GA GA GA GA GA GA GA AA GT GA GA GA GG GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
* * * *
10869705 GG GG GA GA G- GC GA GA GA GA GA GA GA GA GA G- GG GA G- GA -A
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
* * * * * *
10869743 G- GC GA G- GG GA GA GA GA G- GG GA G- GA -A G- GG GA GG GG GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
* * * * * *
10869779 GA GA GA GG GA GG GA -A CGA GG GA GA GA GA AA GA GG GA GA GG GA
1 GA GA GA GA GA GA GA GA -GA GA GA GA GA GA GA GA GA GA GA GA GA
* * * *
10869821 GA GA -A G- GA GA GG GA G- GG GA GG GC G- GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
* * * * *
10869859 GA GG GA GA GA G- GA GG GG GA GA GA GG GA GA GG GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
* * * * *
10869900 GA GG GA GC GA GG GA G- GG GA G- GG GA -A GA GA GA G- GA -A GCA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G-A
* * * * * *
10869938 -A GG GA GA GA GA GG GA GA GA GA GA GG GA GG GA G- GG GA G- GG
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
*
10869977 GA GA GA GA GA GG GA GA G
1 GA GA GA GA GA GA GA GA G
10869994 TGAGTTTATT
Statistics
Matches: 759, Mismatches: 186, Indels: 86
0.74 0.18 0.08
Matches are distributed among these distances:
1 39 0.05
2 716 0.94
3 4 0.01
ACGTcount: A:0.38, C:0.01, G:0.58, T:0.03
Consensus pattern (2 bp):
GA
Found at i:10870390 original size:30 final size:31
Alignment explanation
Indices: 10870312--10870376 Score: 105
Period size: 31 Copynumber: 2.1 Consensus size: 31
10870302 CAGTCTAGTG
10870312 ACTTAAA-GACAAACTTTTGAATAATTAAATA
1 ACTTAAACGA-AAACTTTTGAATAATTAAATA
*
10870343 ACTTAAACGAAAACTTTTGAATAATTTAATA
1 ACTTAAACGAAAACTTTTGAATAATTAAATA
10870374 ACT
1 ACT
10870377 AAATTGTAAC
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
31 30 0.94
32 2 0.06
ACGTcount: A:0.49, C:0.11, G:0.06, T:0.34
Consensus pattern (31 bp):
ACTTAAACGAAAACTTTTGAATAATTAAATA
Found at i:10872427 original size:36 final size:36
Alignment explanation
Indices: 10872378--10872454 Score: 145
Period size: 36 Copynumber: 2.1 Consensus size: 36
10872368 CAATGAAGCT
10872378 CACAAGTGCATGAAAGAAAAGTATGAAAATATTTGA
1 CACAAGTGCATGAAAGAAAAGTATGAAAATATTTGA
*
10872414 CACAAGTGTATGAAAGAAAAGTATGAAAATATTTGA
1 CACAAGTGCATGAAAGAAAAGTATGAAAATATTTGA
10872450 CACAA
1 CACAA
10872455 ATGTTGTCTG
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
36 40 1.00
ACGTcount: A:0.51, C:0.09, G:0.18, T:0.22
Consensus pattern (36 bp):
CACAAGTGCATGAAAGAAAAGTATGAAAATATTTGA
Found at i:10872739 original size:20 final size:20
Alignment explanation
Indices: 10872704--10872749 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 20
10872694 TTGATAAAAC
*
10872704 CGATACCAAGATAAAGTTAT
1 CGATACCAAGATAAAGGTAT
10872724 CGATACCAA-ATAAAAGGTAT
1 CGATACCAAGAT-AAAGGTAT
*
10872744 CTATAC
1 CGATAC
10872750 TAGATAGATA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
19 2 0.09
20 21 0.91
ACGTcount: A:0.46, C:0.17, G:0.13, T:0.24
Consensus pattern (20 bp):
CGATACCAAGATAAAGGTAT
Found at i:10875462 original size:21 final size:19
Alignment explanation
Indices: 10875424--10875464 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
10875414 AAAGGGTGAG
*
10875424 AAATACAAATTTTAGGGAA
1 AAATAAAAATTTTAGGGAA
10875443 AAATAAAAAGTTTTGAGGGAA
1 AAATAAAAA-TTTT-AGGGAA
10875464 A
1 A
10875465 TTCTGTTTCA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 8 0.42
20 4 0.21
21 7 0.37
ACGTcount: A:0.54, C:0.02, G:0.20, T:0.24
Consensus pattern (19 bp):
AAATAAAAATTTTAGGGAA
Found at i:10880995 original size:24 final size:24
Alignment explanation
Indices: 10880959--10881007 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 24
10880949 TATCTAATGT
* *
10880959 TATATGAGAGCCTTTGTGGCTATC
1 TATATGAGAGCCTCTATGGCTATC
10880983 TATATGA-ACGCCTCTATGGCTATC
1 TATATGAGA-GCCTCTATGGCTATC
10881007 T
1 T
10881008 TGTGAATGTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
23 1 0.05
24 21 0.95
ACGTcount: A:0.22, C:0.20, G:0.20, T:0.37
Consensus pattern (24 bp):
TATATGAGAGCCTCTATGGCTATC
Found at i:10887073 original size:24 final size:25
Alignment explanation
Indices: 10887019--10887066 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 25
10887009 TATATAATAG
*
10887019 GAAGCTCATATGAGCCATATAACGA
1 GAAGCTCATACGAGCCATATAACGA
*
10887044 GAAGCTCATGCGAGCCA-ATAACG
1 GAAGCTCATACGAGCCATATAACG
10887067 GGTAGCTTCG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 6 0.29
25 15 0.71
ACGTcount: A:0.38, C:0.23, G:0.23, T:0.17
Consensus pattern (25 bp):
GAAGCTCATACGAGCCATATAACGA
Found at i:10887120 original size:25 final size:24
Alignment explanation
Indices: 10887078--10887160 Score: 87
Period size: 25 Copynumber: 3.4 Consensus size: 24
10887068 GTAGCTTCGA
* *
10887078 AGAGCCATTAAACTGGAAGCTCTAG
1 AGAGCCATT-ATCGGGAAGCTCTAG
* * *
10887103 ATAGCCATGTATCGGGAAGTTCAAG
1 AGAGCCAT-TATCGGGAAGCTCTAG
*
10887128 AGAGCCA-TATCGGAAAGCTCTAG
1 AGAGCCATTATCGGGAAGCTCTAG
10887151 AGAGCCATTA
1 AGAGCCATTA
10887161 ATCAAGAAAC
Statistics
Matches: 47, Mismatches: 9, Indels: 5
0.77 0.15 0.08
Matches are distributed among these distances:
23 20 0.43
24 2 0.04
25 24 0.51
26 1 0.02
ACGTcount: A:0.35, C:0.19, G:0.25, T:0.20
Consensus pattern (24 bp):
AGAGCCATTATCGGGAAGCTCTAG
Found at i:10887152 original size:23 final size:23
Alignment explanation
Indices: 10887094--10887158 Score: 76
Period size: 23 Copynumber: 2.7 Consensus size: 23
10887084 ATTAAACTGG
* *
10887094 AAGCTCTAGATAGCCATGTATCGGG
1 AAGCTCTAGAGAGCCA--TATCGGA
* *
10887119 AAGTTCAAGAGAGCCATATCGGA
1 AAGCTCTAGAGAGCCATATCGGA
10887142 AAGCTCTAGAGAGCCAT
1 AAGCTCTAGAGAGCCAT
10887159 TAATCAAGAA
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
23 21 0.62
25 13 0.38
ACGTcount: A:0.34, C:0.20, G:0.26, T:0.20
Consensus pattern (23 bp):
AAGCTCTAGAGAGCCATATCGGA
Found at i:10887180 original size:26 final size:27
Alignment explanation
Indices: 10887151--10887210 Score: 79
Period size: 26 Copynumber: 2.3 Consensus size: 27
10887141 AAAGCTCTAG
10887151 AGAGCCATTAATCAAGAAACTCAC-AA
1 AGAGCCATTAATCAAGAAACTCACGAA
* * *
10887177 AGAGCCTTTAATCAGGAAGCTCACGAA
1 AGAGCCATTAATCAAGAAACTCACGAA
10887204 A-AGCCAT
1 AGAGCCAT
10887211 ATAACGGGAC
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
26 26 0.90
27 3 0.10
ACGTcount: A:0.43, C:0.23, G:0.17, T:0.17
Consensus pattern (27 bp):
AGAGCCATTAATCAAGAAACTCACGAA
Found at i:10891332 original size:45 final size:45
Alignment explanation
Indices: 10891282--10891455 Score: 210
Period size: 45 Copynumber: 3.9 Consensus size: 45
10891272 ATACCATAAA
* ** *
10891282 CGAGTAAGACCACGACTGAAAGAAATTATGGCATCATGATT-TTAAT
1 CGAGTAAGACCATGACTGAAAGATGTTATGGCATCACGATTCTT--T
* *
10891328 -GAGTAAAACAATGACTGAAAGATGTTATGGCATCACGATTCTTT
1 CGAGTAAGACCATGACTGAAAGATGTTATGGCATCACGATTCTTT
*
10891372 CGAGTAAGACCATGACTGAAAGATGTTATGGCATCACGATTCTAT
1 CGAGTAAGACCATGACTGAAAGATGTTATGGCATCACGATTCTTT
* * *
10891417 CGGGTAAGACCAT-AGTTGAAAGATGCTATGGCATCACGA
1 CGAGTAAGACCATGA-CTGAAAGATGTTATGGCATCACGA
10891456 ATCAAACGAA
Statistics
Matches: 113, Mismatches: 12, Indels: 7
0.86 0.09 0.05
Matches are distributed among these distances:
44 2 0.02
45 109 0.96
46 2 0.02
ACGTcount: A:0.36, C:0.16, G:0.22, T:0.26
Consensus pattern (45 bp):
CGAGTAAGACCATGACTGAAAGATGTTATGGCATCACGATTCTTT
Found at i:10891389 original size:90 final size:90
Alignment explanation
Indices: 10891279--10891497 Score: 235
Period size: 90 Copynumber: 2.4 Consensus size: 90
10891269 ACCATACCAT
* * *
10891279 AAACGAGTAAGACCACGACTGAAAGAAATTATGGCATCATGATTTTAAT-GAGTAAAACAAT-GA
1 AAACGAGTAAGACCATGACTGAAAGAAATTATGGCATCACGATTCT-ATCGAGTAAAACAATAG-
* *
10891342 CTGAAAGATGTTATGGCATCACGATTC
64 CTGAAAGATGCTATGGCATCACGAATC
*** ** * * * *
10891369 TTTCGAGTAAGACCATGACTGAAAGATGTTATGGCATCACGATTCTATCGGGTAAGACCATAGTT
1 AAACGAGTAAGACCATGACTGAAAGAAATTATGGCATCACGATTCTATCGAGTAAAACAATAGCT
10891434 GAAAGATGCTATGGCATCACGAATC
66 GAAAGATGCTATGGCATCACGAATC
* ** * *
10891459 AAACGAATAAGACCATGGTTGAAAGACACTATGGCATCA
1 AAACGAGTAAGACCATGACTGAAAGAAATTATGGCATCA
10891498 AGACAAGAAT
Statistics
Matches: 104, Mismatches: 23, Indels: 4
0.79 0.18 0.03
Matches are distributed among these distances:
89 2 0.02
90 101 0.97
91 1 0.01
ACGTcount: A:0.38, C:0.16, G:0.21, T:0.24
Consensus pattern (90 bp):
AAACGAGTAAGACCATGACTGAAAGAAATTATGGCATCACGATTCTATCGAGTAAAACAATAGCT
GAAAGATGCTATGGCATCACGAATC
Found at i:10891470 original size:45 final size:44
Alignment explanation
Indices: 10891308--10891497 Score: 184
Period size: 45 Copynumber: 4.2 Consensus size: 44
10891298 TGAAAGAAAT
* * * * * *
10891308 TATGGCATCATGATTTTAAT-GAGTAAAACAATGACTGAAAGATGT
1 TATGGCATCACGATTCT-ATCGAGTAAGACCATG-TTGAAAGATGC
* * *
10891353 TATGGCATCACGATTCTTTCGAGTAAGACCATGACTGAAAGATGT
1 TATGGCATCACGATTCTATCGAGTAAGACCATG-TTGAAAGATGC
*
10891398 TATGGCATCACGATTCTATCGGGTAAGACCATAGTTGAAAGATGC
1 TATGGCATCACGATTCTATCGAGTAAGACCAT-GTTGAAAGATGC
* * * * **
10891443 TATGGCATCACGAATCAAACGAATAAGACCATGGTTGAAAGACAC
1 TATGGCATCACGATTCTATCGAGTAAGACCAT-GTTGAAAGATGC
10891488 TATGGCATCA
1 TATGGCATCA
10891498 AGACAAGAAT
Statistics
Matches: 126, Mismatches: 17, Indels: 4
0.86 0.12 0.03
Matches are distributed among these distances:
44 1 0.01
45 124 0.98
46 1 0.01
ACGTcount: A:0.36, C:0.16, G:0.22, T:0.26
Consensus pattern (44 bp):
TATGGCATCACGATTCTATCGAGTAAGACCATGTTGAAAGATGC
Found at i:10891513 original size:45 final size:44
Alignment explanation
Indices: 10891421--10891532 Score: 127
Period size: 45 Copynumber: 2.5 Consensus size: 44
10891411 TTCTATCGGG
* ** * *
10891421 TAAGACCATAGTTGAAAGATGCTATGGCATCACGAATCAAACGAA
1 TAAGACCATGGTTGAAAGACACTATGGCATCAAGAA-CAAACAAA
*
10891466 TAAGACCATGGTTGAAAGACACTATGGCATCAAG-ACAAGAATAAA
1 TAAGACCATGGTTGAAAGACACTATGGCATCAAGAAC-A-AACAAA
*
10891511 TAAGACCAAGGTTGAAAGACAC
1 TAAGACCATGGTTGAAAGACAC
10891533 CATGCACACT
Statistics
Matches: 58, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
43 1 0.02
44 2 0.03
45 55 0.95
ACGTcount: A:0.45, C:0.17, G:0.21, T:0.18
Consensus pattern (44 bp):
TAAGACCATGGTTGAAAGACACTATGGCATCAAGAACAAACAAA
Found at i:10893558 original size:42 final size:42
Alignment explanation
Indices: 10893502--10893594 Score: 141
Period size: 42 Copynumber: 2.2 Consensus size: 42
10893492 TGGGACACTA
*
10893502 CCGTGTGTCTCTATTTCAAATGTTACACGGCTTGAGACACGG
1 CCGTGTGTCCCTATTTCAAATGTTACACGGCTTGAGACACGG
**
10893544 CCGTGTGTCCCTATTTTGAATGTTACACGGCTTGAGACACGG
1 CCGTGTGTCCCTATTTCAAATGTTACACGGCTTGAGACACGG
**
10893586 GTGTGTGTC
1 CCGTGTGTC
10893595 TCAGCTGTGT
Statistics
Matches: 46, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 46 1.00
ACGTcount: A:0.18, C:0.23, G:0.27, T:0.32
Consensus pattern (42 bp):
CCGTGTGTCCCTATTTCAAATGTTACACGGCTTGAGACACGG
Found at i:10898931 original size:46 final size:46
Alignment explanation
Indices: 10898814--10899076 Score: 366
Period size: 46 Copynumber: 5.7 Consensus size: 46
10898804 GCTACCTGAT
10898814 ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
1 ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
** * * * *
10898860 GGGAAAATGAATAAGACCATCGTTGAAAGATACCATGGCAACGTGAT
1 ATG-AAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
* * * *
10898907 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGACAACGTGAT
1 ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
* * *
10898953 ACGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACCTGAC
1 ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
10898999 ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
1 ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
* *
10899045 A-GAAAATGAGTAAAACCATAGTTGAAAGATAC
1 ATG-AAATGAGTAAGACCATGGTTGAAAGATAC
10899077 TATGACATCA
Statistics
Matches: 192, Mismatches: 23, Indels: 4
0.88 0.11 0.02
Matches are distributed among these distances:
45 1 0.01
46 151 0.79
47 40 0.21
ACGTcount: A:0.42, C:0.15, G:0.23, T:0.20
Consensus pattern (46 bp):
ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
Found at i:10899003 original size:92 final size:92
Alignment explanation
Indices: 10898807--10899076 Score: 416
Period size: 92 Copynumber: 2.9 Consensus size: 92
10898797 GGAGTGTGCT
*
10898807 ACCTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGACGGGAAAATGAAT
1 ACCTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC-AGAAAATGAAT
*
10898872 AAGACCATCGTTGAAAGATACCATGGCA
65 AAGACCATAGTTGAAAGATACCATGGCA
* * * * *
10898900 ACGTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGACAACGTGATACG-AAATGAAT
1 ACCTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGACA-GAAAATGAAT
*
10898964 AAGACCATGGTTGAAAGATACCATGGCA
65 AAGACCATAGTTGAAAGATACCATGGCA
* *
10898992 ACCTGACATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGACAGAAAATGAGTA
1 ACCTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGACAGAAAATGAATA
*
10899057 AAACCATAGTTGAAAGATAC
66 AGACCATAGTTGAAAGATAC
10899077 TATGACATCA
Statistics
Matches: 159, Mismatches: 16, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
91 1 0.01
92 109 0.69
93 49 0.31
ACGTcount: A:0.42, C:0.15, G:0.23, T:0.20
Consensus pattern (92 bp):
ACCTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGACAGAAAATGAATA
AGACCATAGTTGAAAGATACCATGGCA
Found at i:10899063 original size:138 final size:139
Alignment explanation
Indices: 10898810--10899083 Score: 408
Period size: 138 Copynumber: 2.0 Consensus size: 139
10898800 GTGTGCTACC
* * *
10898810 TGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGACGGGAAAATGAATAAG
1 TGATACGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGACAGGAAAATGAATAAG
* * * * *
10898875 ACCATCGTTGAAAGATACCATGGCAACGTGATATGAAATGTGTAAGACCATGGTTGAAAGATACC
66 ACCATCGTTGAAAGATACCATGGCAACATGACATGAAATGAGTAAAACCATAGTTGAAAGATACC
10898940 ATGACAACG
131 ATGACAACG
* * *
10898949 TGATACGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACCTGACATG-AAATGAGTAAG
1 TGATACGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGACAGGAAAATGAATAAG
*
10899013 ACCATGGTTGAAAGATACCATGGCAACATGACA-GAAAATGAGTAAAACCATAGTTGAAAGATAC
66 ACCATCGTTGAAAGATACCATGGCAACATGACATG-AAATGAGTAAAACCATAGTTGAAAGATAC
*
10899077 TATGACA
130 CATGACA
10899084 TCATGTCGAA
Statistics
Matches: 121, Mismatches: 13, Indels: 3
0.88 0.09 0.02
Matches are distributed among these distances:
137 1 0.01
138 72 0.60
139 48 0.40
ACGTcount: A:0.42, C:0.15, G:0.23, T:0.20
Consensus pattern (139 bp):
TGATACGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGACAGGAAAATGAATAAG
ACCATCGTTGAAAGATACCATGGCAACATGACATGAAATGAGTAAAACCATAGTTGAAAGATACC
ATGACAACG
Found at i:10900874 original size:53 final size:52
Alignment explanation
Indices: 10900726--10900880 Score: 181
Period size: 52 Copynumber: 3.0 Consensus size: 52
10900716 TGACGGAAAA
*
10900726 GATGTGATATGTGCTTCCGTATAAGACCATAGCTGGGCTATGGCATCGGTAC
1 GATGTGATATGTGATTCCGTATAAGACCATAGCTGGGCTATGGCATCGGTAC
* * * **
10900778 AATGTGAT-T-CGAGTTCCCGTATAAAACCATAGCTGGGCTATGGCATCGGTGT
1 GATGTGATATGTGA-TT-CCGTATAAGACCATAGCTGGGCTATGGCATCGGTAC
** *
10900830 GATGTGATAATGTGATTCCGTATAAGACCATTTCTGGGATATGGCAT-GGTA
1 GATGTGAT-ATGTGATTCCGTATAAGACCATAGCTGGGCTATGGCATCGGTA
10900881 TGTTATGTGA
Statistics
Matches: 85, Mismatches: 13, Indels: 10
0.79 0.12 0.09
Matches are distributed among these distances:
50 1 0.01
51 3 0.04
52 50 0.59
53 26 0.31
54 3 0.04
55 2 0.02
ACGTcount: A:0.25, C:0.17, G:0.28, T:0.30
Consensus pattern (52 bp):
GATGTGATATGTGATTCCGTATAAGACCATAGCTGGGCTATGGCATCGGTAC
Found at i:10909377 original size:46 final size:44
Alignment explanation
Indices: 10909287--10909406 Score: 145
Period size: 46 Copynumber: 2.7 Consensus size: 44
10909277 TTTGAGACAA
* *
10909287 GTGCTAGTGTAAGACATGTTTGGGACATGCATCGGCCTCAAGAT
1 GTGCTAGTGTAAGACATGTCTGGGACATGCATCAGCCTCAAGAT
* *
10909331 GTAAGCTAGTGTAAGACATGTCTGGGACATGTATCAG-CTACGAGAT
1 GT--GCTAGTGTAAGACATGTCTGGGACATGCATCAGCCT-CAAGAT
10909377 GTG-TCAGTGTAAGACCATGTCTGGGACATG
1 GTGCT-AGTGTAAGA-CATGTCTGGGACATG
10909407 AAGTCGATGT
Statistics
Matches: 67, Mismatches: 4, Indels: 9
0.84 0.05 0.11
Matches are distributed among these distances:
43 1 0.01
44 12 0.18
45 17 0.25
46 37 0.55
ACGTcount: A:0.27, C:0.17, G:0.30, T:0.27
Consensus pattern (44 bp):
GTGCTAGTGTAAGACATGTCTGGGACATGCATCAGCCTCAAGAT
Found at i:10912840 original size:115 final size:115
Alignment explanation
Indices: 10912635--10912868 Score: 351
Period size: 115 Copynumber: 2.0 Consensus size: 115
10912625 AATTTAGAGT
* * *
10912635 GGTTCGACCCCAATTGCCTACTCCACTACCTTAGCTTTCTACAACCAAGGAATTTCCTAAATTCA
1 GGTTCGACCCCAATTGCCTACTCCACAACCTTAGCTTTCTACAACCAAAGAATTTCCCAAATTCA
* *
10912700 CTAATTTGAGAACCTTTGAGAACAATTTTTAACCTTACAAACTCCCTTAA
66 CTAATTTGAGAACCTTTGAGAACAATGTTTAACCTTACAAACTACCTTAA
* * * * *
10912750 GGTTCGGCCCCAATTGCCTACTCTACAACTTTAGCTTTCTACAACTAAAGATTTTCCCAAATTCA
1 GGTTCGACCCCAATTGCCTACTCCACAACCTTAGCTTTCTACAACCAAAGAATTTCCCAAATTCA
* * *
10912815 CTAATTTGATAACCTTTGAGGACAATGTTTAACCTTACAAACTACTTTAA
66 CTAATTTGAGAACCTTTGAGAACAATGTTTAACCTTACAAACTACCTTAA
10912865 GGTT
1 GGTT
10912869 TCTACTCAAA
Statistics
Matches: 106, Mismatches: 13, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
115 106 1.00
ACGTcount: A:0.31, C:0.26, G:0.11, T:0.33
Consensus pattern (115 bp):
GGTTCGACCCCAATTGCCTACTCCACAACCTTAGCTTTCTACAACCAAAGAATTTCCCAAATTCA
CTAATTTGAGAACCTTTGAGAACAATGTTTAACCTTACAAACTACCTTAA
Found at i:10912971 original size:41 final size:41
Alignment explanation
Indices: 10912926--10913006 Score: 144
Period size: 41 Copynumber: 2.0 Consensus size: 41
10912916 GTAAACAAAG
10912926 AAAGAACCCATACAGGATAAAAGTGTTTGCAAATTAAGCTT
1 AAAGAACCCATACAGGATAAAAGTGTTTGCAAATTAAGCTT
* *
10912967 AAAGAATCCATACAGGATCAAAGTGTTTGCAAATTAAGCT
1 AAAGAACCCATACAGGATAAAAGTGTTTGCAAATTAAGCT
10913007 CAATTACAAG
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 38 1.00
ACGTcount: A:0.43, C:0.15, G:0.17, T:0.25
Consensus pattern (41 bp):
AAAGAACCCATACAGGATAAAAGTGTTTGCAAATTAAGCTT
Found at i:10914038 original size:11 final size:11
Alignment explanation
Indices: 10914024--10914060 Score: 56
Period size: 11 Copynumber: 3.4 Consensus size: 11
10914014 AAATAACAAC
10914024 AAAACAATAAA
1 AAAACAATAAA
*
10914035 AAAACAATAAG
1 AAAACAATAAA
*
10914046 AAAACAGTAAA
1 AAAACAATAAA
10914057 AAAA
1 AAAA
10914061 TAGTTTTTTT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
11 23 1.00
ACGTcount: A:0.78, C:0.08, G:0.05, T:0.08
Consensus pattern (11 bp):
AAAACAATAAA
Found at i:10914038 original size:22 final size:22
Alignment explanation
Indices: 10914013--10914062 Score: 64
Period size: 22 Copynumber: 2.3 Consensus size: 22
10914003 AAAAACCAAG
10914013 AAAATAACAACAAAACAATAAA
1 AAAATAACAACAAAACAATAAA
* * * *
10914035 AAAACAATAAGAAAACAGTAAA
1 AAAATAACAACAAAACAATAAA
10914057 AAAATA
1 AAAATA
10914063 GTTTTTTTTT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.76, C:0.10, G:0.04, T:0.10
Consensus pattern (22 bp):
AAAATAACAACAAAACAATAAA
Found at i:10914085 original size:5 final size:5
Alignment explanation
Indices: 10914077--10914101 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
10914067 TTTTTTATAT
10914077 TTGGG TTGGG TTGGG TTGGG TTGGG
1 TTGGG TTGGG TTGGG TTGGG TTGGG
10914102 CCGGGCTTTG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.00, C:0.00, G:0.60, T:0.40
Consensus pattern (5 bp):
TTGGG
Found at i:10922946 original size:23 final size:23
Alignment explanation
Indices: 10922919--10922964 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
10922909 CACCAAAATT
10922919 ACAAGAAAATGGATTAAATTGAC
1 ACAAGAAAATGGATTAAATTGAC
10922942 ACAAGAAAATGGATTAAATTGAC
1 ACAAGAAAATGGATTAAATTGAC
10922965 TTATCAATCA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.52, C:0.09, G:0.17, T:0.22
Consensus pattern (23 bp):
ACAAGAAAATGGATTAAATTGAC
Found at i:10923037 original size:20 final size:18
Alignment explanation
Indices: 10922999--10923042 Score: 63
Period size: 20 Copynumber: 2.4 Consensus size: 18
10922989 AAACCCTAAT
10922999 TTTCCC-TTTTCTTTTTC
1 TTTCCCTTTTTCTTTTTC
10923016 TTTCCCTTTTTCCTTCTTTC
1 TTTCCCTTTTT-CTT-TTTC
10923036 TTTCCCT
1 TTTCCCT
10923043 GCTAATCGTG
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
17 6 0.25
18 4 0.17
19 3 0.12
20 11 0.46
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (18 bp):
TTTCCCTTTTTCTTTTTC
Found at i:10923105 original size:18 final size:17
Alignment explanation
Indices: 10923062--10923108 Score: 51
Period size: 18 Copynumber: 2.6 Consensus size: 17
10923052 GCCTTCTTTC
*
10923062 TTTCTTTCTTTCTTTTT
1 TTTCTTTATTTCTTTTT
10923079 TATGT-TTTATTTCTTTTAT
1 T-T-TCTTTATTTCTTTT-T
10923098 TTTCTTTATTT
1 TTTCTTTATTT
10923109 AATCAATATG
Statistics
Matches: 25, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
17 2 0.08
18 20 0.80
19 3 0.12
ACGTcount: A:0.09, C:0.11, G:0.02, T:0.79
Consensus pattern (17 bp):
TTTCTTTATTTCTTTTT
Found at i:10930032 original size:18 final size:18
Alignment explanation
Indices: 10930005--10930067 Score: 58
Period size: 18 Copynumber: 3.6 Consensus size: 18
10929995 TCAGAATTCT
*
10930005 TCAATTTATACAACTTAA
1 TCAATATATACAACTTAA
* *
10930023 TCAATATATA-AAGATTCA
1 TCAATATATACAA-CTTAA
* *
10930041 -CTATTTATACAACTTAA
1 TCAATATATACAACTTAA
10930058 TCAATATATA
1 TCAATATATA
10930068 AAGATTCACT
Statistics
Matches: 33, Mismatches: 9, Indels: 6
0.69 0.19 0.12
Matches are distributed among these distances:
17 12 0.36
18 21 0.64
ACGTcount: A:0.46, C:0.14, G:0.02, T:0.38
Consensus pattern (18 bp):
TCAATATATACAACTTAA
Found at i:10930054 original size:35 final size:35
Alignment explanation
Indices: 10930008--10930079 Score: 144
Period size: 35 Copynumber: 2.1 Consensus size: 35
10929998 GAATTCTTCA
10930008 ATTTATACAACTTAATCAATATATAAAGATTCACT
1 ATTTATACAACTTAATCAATATATAAAGATTCACT
10930043 ATTTATACAACTTAATCAATATATAAAGATTCACT
1 ATTTATACAACTTAATCAATATATAAAGATTCACT
10930078 AT
1 AT
10930080 CTTCCTAAAT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 37 1.00
ACGTcount: A:0.46, C:0.14, G:0.03, T:0.38
Consensus pattern (35 bp):
ATTTATACAACTTAATCAATATATAAAGATTCACT
Found at i:10937629 original size:23 final size:22
Alignment explanation
Indices: 10937593--10937636 Score: 70
Period size: 23 Copynumber: 2.0 Consensus size: 22
10937583 TTTATAAAAT
*
10937593 TTAGTTTAGTTTTCTTTCATTC
1 TTAGTTTAGATTTCTTTCATTC
10937615 TTAGTTTTAGATTTCTTTCATT
1 TTAG-TTTAGATTTCTTTCATT
10937637 TGCTCTTGTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
22 4 0.20
23 16 0.80
ACGTcount: A:0.16, C:0.11, G:0.09, T:0.64
Consensus pattern (22 bp):
TTAGTTTAGATTTCTTTCATTC
Found at i:10938216 original size:15 final size:14
Alignment explanation
Indices: 10938193--10938227 Score: 52
Period size: 15 Copynumber: 2.4 Consensus size: 14
10938183 TCTTGAGCTT
10938193 TTATTTCTTTTATG
1 TTATTTCTTTTATG
*
10938207 TTATTATCTTTTATT
1 TTATT-TCTTTTATG
10938222 TTATTT
1 TTATTT
10938228 TATTATTATA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
14 6 0.32
15 13 0.68
ACGTcount: A:0.17, C:0.06, G:0.03, T:0.74
Consensus pattern (14 bp):
TTATTTCTTTTATG
Found at i:10938545 original size:21 final size:21
Alignment explanation
Indices: 10938519--10938560 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
10938509 TGATGATTTT
10938519 GAATG-TTGTTCATGGCATGTA
1 GAATGTTTG-TCATGGCATGTA
10938540 GAATGTTTGTCATGGCATGTA
1 GAATGTTTGTCATGGCATGTA
10938561 ATTGAAGTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
21 17 0.85
22 3 0.15
ACGTcount: A:0.24, C:0.10, G:0.29, T:0.38
Consensus pattern (21 bp):
GAATGTTTGTCATGGCATGTA
Done.