Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold511
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: 1668812
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
File 10 of 12
Found at i:1366083 original size:21 final size:21
Alignment explanation
Indices: 1366057--1366105 Score: 98
Period size: 21 Copynumber: 2.3 Consensus size: 21
1366047 AGCTCTCGCA
1366057 AGCCACCATAGCATTAATATC
1 AGCCACCATAGCATTAATATC
1366078 AGCCACCATAGCATTAATATC
1 AGCCACCATAGCATTAATATC
1366099 AGCCACC
1 AGCCACC
1366106 TCTGTCAGCA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.37, C:0.33, G:0.10, T:0.20
Consensus pattern (21 bp):
AGCCACCATAGCATTAATATC
Found at i:1371176 original size:15 final size:15
Alignment explanation
Indices: 1371156--1371185 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
1371146 ACTGTTTAGA
1371156 TGTTGTGAGCTACAC
1 TGTTGTGAGCTACAC
1371171 TGTTGTGAGCTACAC
1 TGTTGTGAGCTACAC
1371186 GAAATAATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.20, C:0.20, G:0.27, T:0.33
Consensus pattern (15 bp):
TGTTGTGAGCTACAC
Found at i:1374549 original size:19 final size:20
Alignment explanation
Indices: 1374525--1374565 Score: 75
Period size: 20 Copynumber: 2.1 Consensus size: 20
1374515 TTTCTATTTT
1374525 TTCTTAATG-TTTTTTTATC
1 TTCTTAATGTTTTTTTTATC
1374544 TTCTTAATGTTTTTTTTATC
1 TTCTTAATGTTTTTTTTATC
1374564 TT
1 TT
1374566 TCTTGTATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 9 0.43
20 12 0.57
ACGTcount: A:0.15, C:0.10, G:0.05, T:0.71
Consensus pattern (20 bp):
TTCTTAATGTTTTTTTTATC
Found at i:1378554 original size:52 final size:52
Alignment explanation
Indices: 1378476--1378603 Score: 224
Period size: 52 Copynumber: 2.5 Consensus size: 52
1378466 CGAAATATGA
*
1378476 AAATTTGCCTGCATGTATCGATACA-TTTAATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTTAA-AATGTATCGATACATCTGGGC
1378528 AAATTTGCCTGCATGTATCGATACATTTTAAAATGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTTAAAATGTATCGATACATCTGGGC
1378580 AAA-TTGCCTGCATGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACA
1378604 AAGATCAGTG
Statistics
Matches: 74, Mismatches: 1, Indels: 3
0.95 0.01 0.04
Matches are distributed among these distances:
51 21 0.28
52 48 0.65
53 5 0.07
ACGTcount: A:0.30, C:0.18, G:0.18, T:0.34
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTTTAAAATGTATCGATACATCTGGGC
Found at i:1378630 original size:13 final size:13
Alignment explanation
Indices: 1378612--1378636 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1378602 CAAAGATCAG
1378612 TGTATCGATACAA
1 TGTATCGATACAA
1378625 TGTATCGATACA
1 TGTATCGATACA
1378637 TTTGAGTAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1378717 original size:13 final size:13
Alignment explanation
Indices: 1378699--1378723 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1378689 CAAAAAAATA
1378699 TGTATCGATACAT
1 TGTATCGATACAT
1378712 TGTATCGATACA
1 TGTATCGATACA
1378724 ACATTTTATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1379999 original size:49 final size:48
Alignment explanation
Indices: 1379882--1380664 Score: 916
Period size: 43 Copynumber: 16.8 Consensus size: 48
1379872 AAAAGGATGT
*
1379882 CAATGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT----AAGGTGC
* * *
1379934 CGATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT-AAGGTGC
*
1379983 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT-AAGGTGC
* * * *
1380032 CACTATGCTGATTCAAGGCCAGCGATATTGGACTT----A-AAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAGGTGC
* *
1380075 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT-AAGGTGC
* * * *
1380124 CAATATGCTGATTCAAGGCCAGCGATATTGGACTT----A-AAGGCGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAGGTGC
1380167 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTT----A-AAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAGGTGC
* *
1380210 CAATGTGCTGATTCAAGGCCAGCGATATTGGACTT----A-AAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAGGTGC
*
1380253 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT-AAGGTGC
* * *
1380302 CAATATGCTGATTCAAGGCCAGCGATATTGGACTT----A-AAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAGGTGC
*
1380345 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT-AAGGTGC
* * *
1380394 CAATATGCTGATTCAAGGCCAGCGATATTGGACTT----A-AAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAGGTGC
* *
1380437 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGGTGAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAGGTGC
1380485 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTT----A-AAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAGGTGC
1380528 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT-AAGGTGC
*
1380577 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGGAAAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT----AAGGTGC
* * *
1380629 CAATATGCTGATTCAAGGCCAGCTATATTGGGCTTA
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTA
1380665 GAAGGGTTGC
Statistics
Matches: 639, Mismatches: 60, Indels: 64
0.84 0.08 0.08
Matches are distributed among these distances:
43 272 0.43
45 4 0.01
47 4 0.01
48 41 0.06
49 241 0.38
52 77 0.12
ACGTcount: A:0.31, C:0.19, G:0.26, T:0.25
Consensus pattern (48 bp):
CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAGGTGC
Found at i:1380111 original size:92 final size:92
Alignment explanation
Indices: 1379873--1380615 Score: 1131
Period size: 92 Copynumber: 8.0 Consensus size: 92
1379863 AGATGATGAA
* * *
1379873 AAAGGATGTCAATGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAAGGTGCCGAT
1 AAAGG-TGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT---AAAGGTGCCAAT
*
1379938 ATGCTGATTCAAGGCCAGCTATATTGGACTT
62 ATGCTGATTCAAGGCCAGCGATATTGGACTT
*
1379969 AAAGATGAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCA
1 ----A--AAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCA
*
1380034 CTATGCTGATTCAAGGCCAGCGATATTGGACTT
60 ATATGCTGATTCAAGGCCAGCGATATTGGACTT
* * *
1380067 AAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATATGC
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGC
1380132 TGATTCAAGGCCAGCGATATTGGACTT
66 TGATTCAAGGCCAGCGATATTGGACTT
* *
1380159 AAAGGCGCCAATGTGCTGATTCAAGGCCAGCTACATTGGAC-T-----TAAAGGTGCCAATGTGC
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGC
1380218 TGATTCAAGGCCAGCGATATTGGACTT
66 TGATTCAAGGCCAGCGATATTGGACTT
* *
1380245 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATATGC
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGC
1380310 TGATTCAAGGCCAGCGATATTGGACTT
66 TGATTCAAGGCCAGCGATATTGGACTT
* *
1380337 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATATGC
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGC
1380402 TGATTCAAGGCCAGCGATATTGGACTT
66 TGATTCAAGGCCAGCGATATTGGACTT
* * *
1380429 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGGT-GAGGTGCCAATGTGC
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGC
* *
1380493 TGATTCAAGGCCAGCTACATTGGACTT
66 TGATTCAAGGCCAGCGATATTGGACTT
*
1380520 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATGTGC
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGC
* * *
1380585 TGAGTCAAGGCCAGCTACATTGGACTT
66 TGATTCAAGGCCAGCGATATTGGACTT
1380612 AAAG
1 AAAG
1380616 ATGGAAAAGG
Statistics
Matches: 607, Mismatches: 27, Indels: 26
0.92 0.04 0.04
Matches are distributed among these distances:
86 81 0.13
87 1 0.00
91 86 0.14
92 352 0.58
94 1 0.00
98 40 0.07
100 1 0.00
101 41 0.07
102 4 0.01
ACGTcount: A:0.31, C:0.19, G:0.26, T:0.24
Consensus pattern (92 bp):
AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGC
TGATTCAAGGCCAGCGATATTGGACTT
Found at i:1380185 original size:21 final size:21
Alignment explanation
Indices: 1380160--1380271 Score: 56
Period size: 21 Copynumber: 5.2 Consensus size: 21
1380150 ATTGGACTTA
1380160 AAGGCGCCAATGTGCTGATTC
1 AAGGCGCCAATGTGCTGATTC
* *
1380181 AAGGCCAGCTACAT-TG--GACTTA
1 AAGG-C-GCCA-ATGTGCTGA-TTC
*
1380203 AAGGTGCCAATGTGCTGATTC
1 AAGGCGCCAATGTGCTGATTC
* *
1380224 AAGGCCAGCGATAT-TG--GACTTA
1 AAGG-C-GCCA-ATGTGCTGA-TTC
*
1380246 AAGGTGCCAATGTGCTGATTC
1 AAGGCGCCAATGTGCTGATTC
1380267 AAGGC
1 AAGGC
1380272 CAGCTACATT
Statistics
Matches: 65, Mismatches: 12, Indels: 28
0.62 0.11 0.27
Matches are distributed among these distances:
19 4 0.06
20 10 0.15
21 20 0.31
22 17 0.26
23 10 0.15
24 4 0.06
ACGTcount: A:0.28, C:0.21, G:0.28, T:0.24
Consensus pattern (21 bp):
AAGGCGCCAATGTGCTGATTC
Found at i:1380524 original size:22 final size:22
Alignment explanation
Indices: 1380499--1380566 Score: 54
Period size: 22 Copynumber: 3.1 Consensus size: 22
1380489 GTGCTGATTC
1380499 AAGGCCAGCTACATTGGACTTA
1 AAGGCCAGCTACATTGGACTTA
* * *
1380521 AAGG--TGCCA-ATGTGCTGA-TTC
1 AAGGCCAGCTACAT-TG--GACTTA
1380542 AAGGCCAGCTACATTGGACTTA
1 AAGGCCAGCTACATTGGACTTA
1380564 AAG
1 AAG
1380567 ATAAAGGTGC
Statistics
Matches: 33, Mismatches: 6, Indels: 14
0.62 0.11 0.26
Matches are distributed among these distances:
19 2 0.06
20 5 0.15
21 8 0.24
22 11 0.33
23 5 0.15
24 2 0.06
ACGTcount: A:0.31, C:0.21, G:0.25, T:0.24
Consensus pattern (22 bp):
AAGGCCAGCTACATTGGACTTA
Found at i:1380545 original size:21 final size:21
Alignment explanation
Indices: 1380479--1380545 Score: 50
Period size: 21 Copynumber: 3.1 Consensus size: 21
1380469 CTTAAAGGTG
1380479 AGGTGCCAATGTGCTGATTCA
1 AGGTGCCAATGTGCTGATTCA
* * *
1380500 AGGCCAGCTACAT-TG--GACTTAA
1 AGG--TGCCA-ATGTGCTGA-TTCA
1380522 AGGTGCCAATGTGCTGATTCA
1 AGGTGCCAATGTGCTGATTCA
1380543 AGG
1 AGG
1380546 CCAGCTACAT
Statistics
Matches: 33, Mismatches: 6, Indels: 14
0.62 0.11 0.26
Matches are distributed among these distances:
19 2 0.06
20 5 0.15
21 11 0.33
22 8 0.24
23 5 0.15
24 2 0.06
ACGTcount: A:0.27, C:0.19, G:0.28, T:0.25
Consensus pattern (21 bp):
AGGTGCCAATGTGCTGATTCA
Found at i:1380708 original size:33 final size:35
Alignment explanation
Indices: 1380664--1380733 Score: 126
Period size: 33 Copynumber: 2.1 Consensus size: 35
1380654 TATTGGGCTT
1380664 AGAAGGGTTGCCACCGACTTGTGTGGGCTTT-GGA
1 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAGGA
1380698 AGAA-GGTTGCCACCGACTTGTGTGGGCTTTAGGA
1 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAGGA
1380732 AG
1 AG
1380734 GGAGAAAGAT
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
33 26 0.74
34 9 0.26
ACGTcount: A:0.20, C:0.17, G:0.37, T:0.26
Consensus pattern (35 bp):
AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAGGA
Found at i:1380776 original size:34 final size:36
Alignment explanation
Indices: 1380718--1381280 Score: 322
Period size: 34 Copynumber: 16.4 Consensus size: 36
1380708 CACCGACTTG
* *
1380718 TGTGGGCTTTAGGAAGGGAGAAAGA-TGCCACGGAGT
1 TGTGGGCTTTA-AAAGGGAAAAAGAGTGCCACGGAGT
*
1380754 TGTGGAC-TTAAAAGGGAAAAAGAGTGCCACGGAGT
1 TGTGGGCTTTAAAAGGGAAAAAGAGTGCCACGGAGT
1380789 TGTGGGCTTTAAAA--GAAAAA-AGTGCCACGGAGT
1 TGTGGGCTTTAAAAGGGAAAAAGAGTGCCACGGAGT
1380822 TGTGGGCTTTGAAAAGGGAAAAAGAGTGCCACGGAGT
1 TGTGGGCTTT-AAAAGGGAAAAAGAGTGCCACGGAGT
1380859 TGTGGGCTTTAAACA--GAAAAAG-GTGCCACGGAGT
1 TGTGGGCTTTAAA-AGGGAAAAAGAGTGCCACGGAGT
* * **
1380893 TGTGGGCTTTAAAAAAGGAAAGAGAGTGCCACAAAGT
1 TGTGGGCTTT-AAAAGGGAAAAAGAGTGCCACGGAGT
*** ** *
1380930 TGTAGGTGCCACAGAGTTGTGGGCTTTAAAAGAAAAAGGTGCCACGGAGT
1 TGT-GG-GCTTTA-A---AAGGG------AA-AAAGA-GTGCCACGGAGT
* **
1380980 TGTGGGCTTTGAAAAGGAAAAAAGAGTGCCACAAAGT
1 TGTGGGCTTT-AAAAGGGAAAAAGAGTGCCACGGAGT
*
1381017 TGTGGGCTTTAAAA--GAAGAAG-GTGCCACGGAGT
1 TGTGGGCTTTAAAAGGGAAAAAGAGTGCCACGGAGT
*
1381050 TGTGGGCTTTGAAAA--GAAGAAG-GTGCCACGGAGT
1 TGTGGGCTTT-AAAAGGGAAAAAGAGTGCCACGGAGT
*
1381084 TGTGGGC-TT-AAA-CG-----G-GTGCCACGGAGT
1 TGTGGGCTTTAAAAGGGAAAAAGAGTGCCACGGAGT
* * * *
1381111 TGTGGAC-TT-AAAGATGAAAAA-AGTGCCACGAAAT
1 TGTGGGCTTTAAAAG-GGAAAAAGAGTGCCACGGAGT
1381145 TGTGGGCTTTAAAA--G-----G-GTGCCACGGAGT
1 TGTGGGCTTTAAAAGGGAAAAAGAGTGCCACGGAGT
* * *
1381173 TGTGGAC-TT-AAAGATGAAAAA-AGTGCCACGGAAT
1 TGTGGGCTTTAAAAG-GGAAAAAGAGTGCCACGGAGT
*
1381207 TGTGGGCTTTAAAA--G-----G-GTGCCACGGCGT
1 TGTGGGCTTTAAAAGGGAAAAAGAGTGCCACGGAGT
* * *
1381235 TGTGGAC-TTAAAA-GGAACAAG-GTGCCATGGAGT
1 TGTGGGCTTTAAAAGGGAAAAAGAGTGCCACGGAGT
1381268 TGTGGGCTTTAAA
1 TGTGGGCTTTAAA
1381281 GAAAAAATGC
Statistics
Matches: 423, Mismatches: 46, Indels: 118
0.72 0.08 0.20
Matches are distributed among these distances:
26 3 0.01
27 32 0.08
28 33 0.08
29 2 0.00
31 3 0.01
32 1 0.00
33 64 0.15
34 117 0.28
35 34 0.08
36 37 0.09
37 57 0.13
38 7 0.02
39 5 0.01
42 2 0.00
45 2 0.00
48 5 0.01
49 6 0.01
50 13 0.03
ACGTcount: A:0.32, C:0.13, G:0.34, T:0.21
Consensus pattern (36 bp):
TGTGGGCTTTAAAAGGGAAAAAGAGTGCCACGGAGT
Found at i:1380848 original size:70 final size:70
Alignment explanation
Indices: 1380738--1380924 Score: 297
Period size: 71 Copynumber: 2.7 Consensus size: 70
1380728 AGGAAGGGAG
*
1380738 AAAGATGCCACGGAGTTGTGGAC-TTAAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAA
1 AAAG-TGCCACGGAGTTGTGGGCTTTAAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAA
1380802 -AGAAA
65 CAGAAA
1380807 AAAGTGCCACGGAGTTGTGGGCTTTGAAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAA
1 AAAGTGCCACGGAGTTGTGGGCTTT-AAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAA
1380872 CAGAAA
65 CAGAAA
* * *
1380878 AAGGTGCCACGGAGTTGTGGGCTTTAAAAAAGGAAAGAGAGTGCCAC
1 AAAGTGCCACGGAGTTGTGGGCTTT-AAAAGGGAAAAAGAGTGCCAC
1380925 AAAGTTGTAG
Statistics
Matches: 110, Mismatches: 5, Indels: 4
0.92 0.04 0.03
Matches are distributed among these distances:
68 17 0.15
69 6 0.05
70 39 0.35
71 48 0.44
ACGTcount: A:0.35, C:0.13, G:0.33, T:0.19
Consensus pattern (70 bp):
AAAGTGCCACGGAGTTGTGGGCTTTAAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAC
AGAAA
Found at i:1381006 original size:87 final size:88
Alignment explanation
Indices: 1380847--1381019 Score: 296
Period size: 87 Copynumber: 2.0 Consensus size: 88
1380837 GGGAAAAAGA
*
1380847 GTGCCACGGAGTTGTGGGCTTTAAACAGAAAAAGGTGCCACGGAGTTGTGGGCTTTAAAAAAGGA
1 GTGCCACAGAGTTGTGGGCTTTAAACAGAAAAAGGTGCCACGGAGTTGTGGGCTTTAAAAAAGGA
*
1380912 AAGAGAGTGCCACAAAGTTGTAG
66 AAAAGAGTGCCACAAAGTTGTAG
*
1380935 GTGCCACAGAGTTGTGGGCTTTAAA-AGAAAAAGGTGCCACGGAGTTGTGGGCTTT-GAAAAGGA
1 GTGCCACAGAGTTGTGGGCTTTAAACAGAAAAAGGTGCCACGGAGTTGTGGGCTTTAAAAAAGG-
1380998 AAAAAGAGTGCCACAAAGTTGT
65 AAAAAGAGTGCCACAAAGTTGT
1381020 GGGCTTTAAA
Statistics
Matches: 81, Mismatches: 3, Indels: 3
0.93 0.03 0.03
Matches are distributed among these distances:
86 6 0.07
87 51 0.63
88 24 0.30
ACGTcount: A:0.34, C:0.13, G:0.32, T:0.21
Consensus pattern (88 bp):
GTGCCACAGAGTTGTGGGCTTTAAACAGAAAAAGGTGCCACGGAGTTGTGGGCTTTAAAAAAGGA
AAAAGAGTGCCACAAAGTTGTAG
Found at i:1381103 original size:61 final size:61
Alignment explanation
Indices: 1380933--1381280 Score: 367
Period size: 62 Copynumber: 5.4 Consensus size: 61
1380923 ACAAAGTTGT
* *
1380933 AGGTGCCACAGAGTTGTGGGCTTTAAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTTGAAAAGGA
1 AGGTGCCACGGAGTTGTGGGCTTTAAAAG-----GGTGCCACGGAGTTGTGGAC-TT-AAAAGG-
1380998 AAAA
58 AAAA
** *
1381002 AGAGTGCCACAAAGTTGTGGGCTTTAAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTTGAAAA-G
1 AG-GTGCCACGGAGTTGTGGGCTTT--AA-AAG--GGTGCCACGGAGTTGTGGAC-TT-AAAAGG
*
1381066 AAGA
58 AAAA
* *
1381070 AGGTGCCACGGAGTTGTGGGC-TTAAACGGGTGCCACGGAGTTGTGGACTTAAAGATGAAAA
1 AGGTGCCACGGAGTTGTGGGCTTTAAAAGGGTGCCACGGAGTTGTGGACTTAAA-AGGAAAA
* * * *
1381131 AAGTGCCACGAAATTGTGGGCTTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAGATGAAAA
1 AGGTGCCACGGAGTTGTGGGCTTTAAAAGGGTGCCACGGAGTTGTGGACTTAAA-AGGAAAA
* * * *
1381193 AAGTGCCACGGAATTGTGGGCTTTAAAAGGGTGCCACGGCGTTGTGGACTTAAAAGGAACA
1 AGGTGCCACGGAGTTGTGGGCTTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGAAAA
*
1381254 AGGTGCCATGGAGTTGTGGGCTTTAAA
1 AGGTGCCACGGAGTTGTGGGCTTTAAA
1381281 GAAAAAATGC
Statistics
Matches: 254, Mismatches: 18, Indels: 22
0.86 0.06 0.07
Matches are distributed among these distances:
59 3 0.01
60 3 0.01
61 70 0.28
62 91 0.36
63 2 0.01
64 2 0.01
66 2 0.01
67 17 0.07
68 5 0.02
69 3 0.01
70 51 0.20
72 2 0.01
73 3 0.01
ACGTcount: A:0.31, C:0.13, G:0.34, T:0.22
Consensus pattern (61 bp):
AGGTGCCACGGAGTTGTGGGCTTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGAAAA
Found at i:1381369 original size:31 final size:30
Alignment explanation
Indices: 1381284--1381369 Score: 111
Period size: 30 Copynumber: 2.8 Consensus size: 30
1381274 CTTTAAAGAA
1381284 AAAATGCCACTGAGTCGTGGACTTTGAGAC
1 AAAATGCCACTGAGTCGTGGACTTTGAGAC
* * *
1381314 AAAATGTCACTAAGTCGTGAACTTTGAG-C
1 AAAATGCCACTGAGTCGTGGACTTTGAGAC
*
1381343 AGAGATTGCCACTGAGTCGTGGACTTT
1 A-A-AATGCCACTGAGTCGTGGACTTT
1381370 TTTTTTTTTT
Statistics
Matches: 47, Mismatches: 7, Indels: 3
0.82 0.12 0.05
Matches are distributed among these distances:
29 2 0.04
30 26 0.55
31 19 0.40
ACGTcount: A:0.29, C:0.19, G:0.26, T:0.27
Consensus pattern (30 bp):
AAAATGCCACTGAGTCGTGGACTTTGAGAC
Found at i:1382361 original size:23 final size:25
Alignment explanation
Indices: 1382326--1382379 Score: 85
Period size: 23 Copynumber: 2.2 Consensus size: 25
1382316 TGAAAAGGGG
*
1382326 TTTTTCCTCTTTTTTGTTTTGTTT-
1 TTTTTTCTCTTTTTTGTTTTGTTTC
1382350 TTTTTTCT-TTTTTTGTTTTGTTTC
1 TTTTTTCTCTTTTTTGTTTTGTTTC
1382374 TTTTTT
1 TTTTTT
1382380 GGAAAAGAAC
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
23 15 0.54
24 13 0.46
ACGTcount: A:0.00, C:0.09, G:0.07, T:0.83
Consensus pattern (25 bp):
TTTTTTCTCTTTTTTGTTTTGTTTC
Found at i:1382365 original size:18 final size:17
Alignment explanation
Indices: 1382342--1382379 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
1382332 CTCTTTTTTG
*
1382342 TTTTGTTTTTTTTTCTTT
1 TTTTG-TTTTGTTTCTTT
1382360 TTTTGTTTTGTTTCTTT
1 TTTTGTTTTGTTTCTTT
1382377 TTT
1 TTT
1382380 GGAAAAGAAC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 14 0.74
18 5 0.26
ACGTcount: A:0.00, C:0.05, G:0.08, T:0.87
Consensus pattern (17 bp):
TTTTGTTTTGTTTCTTT
Found at i:1383491 original size:49 final size:48
Alignment explanation
Indices: 1383374--1384156 Score: 898
Period size: 43 Copynumber: 16.8 Consensus size: 48
1383364 AAAAGGATGT
* *
1383374 CAATGTGCTGATTCAAGGCTAGCTACATTGAACTTAAAGATGGAAAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT----AAGGTGC
* * *
1383426 CGATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT-AAGGTGC
*
1383475 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT-AAGGTGC
* * * * *
1383524 CACTATGCTGATTCAAGGCTAGCGATATTGGACTT----A-AAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAGGTGC
* *
1383567 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT-AAGGTGC
* * *
1383616 CAATATGCTGATTCAAGGCCAGCGATATTGGACTT----A-AAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAGGTGC
1383659 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTT----A-AAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAGGTGC
* *
1383702 CAATGTGCTGATTCAAGGCCAGCGATATTGGACTT----A-AAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAGGTGC
*
1383745 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT-AAGGTGC
* * *
1383794 CAATATGCTGATTCAAGGCCAGCGATATTGGACTT----A-AAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAGGTGC
*
1383837 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT-AAGGTGC
* * *
1383886 CAATATGCTGATTCAAGGCCAGCGATATTGGACTT----A-AAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAGGTGC
* *
1383929 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGGTGAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAGGTGC
1383977 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTT----A-AAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAGGTGC
*
1384020 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGATGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT-AAGGTGC
*
1384069 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGGAAAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT----AAGGTGC
* * *
1384121 CAATATGCTGATTCAAGGCCAGCTATATTGGGCTTA
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTA
1384157 GAAGGGTTGC
Statistics
Matches: 636, Mismatches: 63, Indels: 64
0.83 0.08 0.08
Matches are distributed among these distances:
43 273 0.43
45 4 0.01
47 4 0.01
48 41 0.06
49 239 0.38
52 75 0.12
ACGTcount: A:0.31, C:0.18, G:0.26, T:0.25
Consensus pattern (48 bp):
CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAGGTGC
Found at i:1383599 original size:92 final size:92
Alignment explanation
Indices: 1383365--1384107 Score: 1122
Period size: 92 Copynumber: 8.0 Consensus size: 92
1383355 AGATGATGAA
* * * * *
1383365 AAAGGATGTCAATGTGCTGATTCAAGGCTAGCTACATTGAACTTAAAGATGGAAAAGGTGCCGAT
1 AAAGG-TGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT---AAAGATGCCAAT
*
1383430 ATGCTGATTCAAGGCCAGCTATATTGGACTT
62 ATGCTGATTCAAGGCCAGCGATATTGGACTT
* *
1383461 AAAGATGAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCA
1 ----A--AAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGATGCCA
* *
1383526 CTATGCTGATTCAAGGCTAGCGATATTGGACTT
60 ATATGCTGATTCAAGGCCAGCGATATTGGACTT
* *
1383559 AAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATATGC
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGATGCCAATATGC
1383624 TGATTCAAGGCCAGCGATATTGGACTT
66 TGATTCAAGGCCAGCGATATTGGACTT
*
1383651 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAG-----G-TGCCAATGTGC
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGATGCCAATATGC
1383710 TGATTCAAGGCCAGCGATATTGGACTT
66 TGATTCAAGGCCAGCGATATTGGACTT
*
1383737 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATATGC
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGATGCCAATATGC
1383802 TGATTCAAGGCCAGCGATATTGGACTT
66 TGATTCAAGGCCAGCGATATTGGACTT
*
1383829 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATATGC
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGATGCCAATATGC
1383894 TGATTCAAGGCCAGCGATATTGGACTT
66 TGATTCAAGGCCAGCGATATTGGACTT
* * * *
1383921 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGGT-GAGGTGCCAATGTGC
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGATGCCAATATGC
* *
1383985 TGATTCAAGGCCAGCTACATTGGACTT
66 TGATTCAAGGCCAGCGATATTGGACTT
*
1384012 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGATGCCAATGTGC
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGATGCCAATATGC
* * *
1384077 TGAGTCAAGGCCAGCTACATTGGACTT
66 TGATTCAAGGCCAGCGATATTGGACTT
1384104 AAAG
1 AAAG
1384108 ATGGAAAAGG
Statistics
Matches: 609, Mismatches: 25, Indels: 26
0.92 0.04 0.04
Matches are distributed among these distances:
86 84 0.14
87 1 0.00
91 86 0.14
92 353 0.58
94 1 0.00
98 39 0.06
100 1 0.00
101 40 0.07
102 4 0.01
ACGTcount: A:0.31, C:0.18, G:0.26, T:0.25
Consensus pattern (92 bp):
AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGATGCCAATATGC
TGATTCAAGGCCAGCGATATTGGACTT
Found at i:1383676 original size:21 final size:21
Alignment explanation
Indices: 1383652--1383762 Score: 54
Period size: 21 Copynumber: 5.2 Consensus size: 21
1383642 ATTGGACTTA
1383652 AAGGTGCCAATGTGCTGATTC
1 AAGGTGCCAATGTGCTGATTC
* * *
1383673 AAGGCCAGCTACAT-TG--GACTTA
1 AAGG--TGCCA-ATGTGCTGA-TTC
1383695 AAGGTGCCAATGTGCTGATTC
1 AAGGTGCCAATGTGCTGATTC
* * *
1383716 AAGGCCAGCGATAT-TG--GACTTA
1 AAGG--TGCCA-ATGTGCTGA-TTC
1383738 AAGGTGCCAATGTGCTGATTC
1 AAGGTGCCAATGTGCTGATTC
1383759 AAGG
1 AAGG
1383763 CCAGCTACAT
Statistics
Matches: 64, Mismatches: 12, Indels: 28
0.62 0.12 0.27
Matches are distributed among these distances:
19 4 0.06
20 10 0.16
21 20 0.31
22 16 0.25
23 10 0.16
24 4 0.06
ACGTcount: A:0.28, C:0.19, G:0.28, T:0.25
Consensus pattern (21 bp):
AAGGTGCCAATGTGCTGATTC
Found at i:1384016 original size:22 final size:22
Alignment explanation
Indices: 1383991--1384058 Score: 54
Period size: 22 Copynumber: 3.1 Consensus size: 22
1383981 GTGCTGATTC
1383991 AAGGCCAGCTACATTGGACTTA
1 AAGGCCAGCTACATTGGACTTA
* * *
1384013 AAGG--TGCCA-ATGTGCTGA-TTC
1 AAGGCCAGCTACAT-TG--GACTTA
1384034 AAGGCCAGCTACATTGGACTTA
1 AAGGCCAGCTACATTGGACTTA
1384056 AAG
1 AAG
1384059 ATAAAGATGC
Statistics
Matches: 33, Mismatches: 6, Indels: 14
0.62 0.11 0.26
Matches are distributed among these distances:
19 2 0.06
20 5 0.15
21 8 0.24
22 11 0.33
23 5 0.15
24 2 0.06
ACGTcount: A:0.31, C:0.21, G:0.25, T:0.24
Consensus pattern (22 bp):
AAGGCCAGCTACATTGGACTTA
Found at i:1384037 original size:21 final size:21
Alignment explanation
Indices: 1383971--1384037 Score: 50
Period size: 21 Copynumber: 3.1 Consensus size: 21
1383961 CTTAAAGGTG
1383971 AGGTGCCAATGTGCTGATTCA
1 AGGTGCCAATGTGCTGATTCA
* * *
1383992 AGGCCAGCTACAT-TG--GACTTAA
1 AGG--TGCCA-ATGTGCTGA-TTCA
1384014 AGGTGCCAATGTGCTGATTCA
1 AGGTGCCAATGTGCTGATTCA
1384035 AGG
1 AGG
1384038 CCAGCTACAT
Statistics
Matches: 33, Mismatches: 6, Indels: 14
0.62 0.11 0.26
Matches are distributed among these distances:
19 2 0.06
20 5 0.15
21 11 0.33
22 8 0.24
23 5 0.15
24 2 0.06
ACGTcount: A:0.27, C:0.19, G:0.28, T:0.25
Consensus pattern (21 bp):
AGGTGCCAATGTGCTGATTCA
Found at i:1384200 original size:33 final size:31
Alignment explanation
Indices: 1384149--1384226 Score: 115
Period size: 33 Copynumber: 2.5 Consensus size: 31
1384139 CCAGCTATAT
1384149 TGGGC-TT-AGAAGGGTTGCCACCGACTTGTG
1 TGGGCTTTAAGAA-GGTTGCCACCGACTTGTG
1384179 TGGGCTTTGGAAGAAGGTTGCCACCGACTTGTG
1 TGGGCTTT--AAGAAGGTTGCCACCGACTTGTG
1384212 TGGGCTTTAAGAAGG
1 TGGGCTTTAAGAAGG
1384227 GAGAAAGATG
Statistics
Matches: 44, Mismatches: 0, Indels: 7
0.86 0.00 0.14
Matches are distributed among these distances:
30 5 0.11
31 9 0.20
33 26 0.59
34 4 0.09
ACGTcount: A:0.19, C:0.17, G:0.37, T:0.27
Consensus pattern (31 bp):
TGGGCTTTAAGAAGGTTGCCACCGACTTGTG
Found at i:1384387 original size:34 final size:34
Alignment explanation
Indices: 1384210--1384416 Score: 233
Period size: 34 Copynumber: 5.9 Consensus size: 34
1384200 CACCGACTTG
* *
1384210 TGTGGGCTTTAAGAAGGGAGAAAGA-TGCCCCGGAGT
1 TGTGGGCTTTAA-AA--GAAAAAGAGTGCCACGGAGT
*
1384246 TGTGGAC-TTAAAAGGGAAAAAGAGTGCCACGGAGT
1 TGTGGGCTTTAAAA--GAAAAAGAGTGCCACGGAGT
1384281 TGTGGGCTTTAAAAGAAAAA-AGTGCCACGGAGT
1 TGTGGGCTTTAAAAGAAAAAGAGTGCCACGGAGT
1384314 TGTGGGCTTTGAAAAGGGAAAAAGAGTGCCACGGAGT
1 TGTGGGCTTT-AAAA--GAAAAAGAGTGCCACGGAGT
*
1384351 TGTGGGCTTTAAACAGAAAAAG-GTGCCACGGTGT
1 TGTGGGCTTTAAA-AGAAAAAGAGTGCCACGGAGT
*
1384385 TGTGGGCTTTAAAAAAGGAAAGAGAGTGCCAC
1 TGTGGGCTTT--AAAA-GAAAAAGAGTGCCAC
1384417 AAAGTTGTAG
Statistics
Matches: 154, Mismatches: 6, Indels: 21
0.85 0.03 0.12
Matches are distributed among these distances:
33 23 0.15
34 42 0.27
35 28 0.18
36 30 0.19
37 31 0.20
ACGTcount: A:0.33, C:0.13, G:0.34, T:0.20
Consensus pattern (34 bp):
TGTGGGCTTTAAAAGAAAAAGAGTGCCACGGAGT
Found at i:1384424 original size:71 final size:69
Alignment explanation
Indices: 1384210--1384416 Score: 281
Period size: 71 Copynumber: 2.9 Consensus size: 69
1384200 CACCGACTTG
* * * *
1384210 TGTGGGCTTTAAGAAGGGAGAAAGATGCCCCGGAGTTGTGGAC-TTAAAAGGGAAAAAGAGTGCC
1 TGTGGGCTTTAA-AA--GAAAAAGGTGCCACGGAGTTGTGGGCTTTAAAAGGGAAAAAGAGTGCC
1384274 ACGGAGT
63 ACGGAGT
*
1384281 TGTGGGCTTTAAAAGAAAAAAGTGCCACGGAGTTGTGGGCTTTGAAAAGGGAAAAAGAGTGCCAC
1 TGTGGGCTTTAAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTT-AAAAGGGAAAAAGAGTGCCAC
1384346 GGAGT
65 GGAGT
* * *
1384351 TGTGGGCTTTAAACAGAAAAAGGTGCCACGGTGTTGTGGGCTTTAAAAAAGGAAAGAGAGTGCCA
1 TGTGGGCTTTAAA-AGAAAAAGGTGCCACGGAGTTGTGGGCTTT-AAAAGGGAAAAAGAGTGCCA
1384416 C
64 C
1384417 AAAGTTGTAG
Statistics
Matches: 123, Mismatches: 10, Indels: 6
0.88 0.07 0.04
Matches are distributed among these distances:
68 21 0.17
69 2 0.02
70 41 0.33
71 59 0.48
ACGTcount: A:0.33, C:0.13, G:0.34, T:0.20
Consensus pattern (69 bp):
TGTGGGCTTTAAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTTAAAAGGGAAAAAGAGTGCCACG
GAGT
Found at i:1384498 original size:87 final size:88
Alignment explanation
Indices: 1384339--1384511 Score: 287
Period size: 87 Copynumber: 2.0 Consensus size: 88
1384329 GGGAAAAAGA
* *
1384339 GTGCCACGGAGTTGTGGGCTTTAAACAGAAAAAGGTGCCACGGTGTTGTGGGCTTTAAAAAAGGA
1 GTGCCACAGAGTTGTGGGCTTTAAACAGAAAAAGGTGCCACGGAGTTGTGGGCTTTAAAAAAGGA
*
1384404 AAGAGAGTGCCACAAAGTTGTAG
66 AAAAGAGTGCCACAAAGTTGTAG
*
1384427 GTGCCACAGAGTTGTGGGCTTTAAA-AGAAAAAGGTGCCACGGAGTTGTGGGCTTT-GAAAAGGA
1 GTGCCACAGAGTTGTGGGCTTTAAACAGAAAAAGGTGCCACGGAGTTGTGGGCTTTAAAAAAGG-
1384490 AAAAAGAGTGCCACAAAGTTGT
65 AAAAAGAGTGCCACAAAGTTGT
1384512 GGGCTTTAAA
Statistics
Matches: 80, Mismatches: 4, Indels: 3
0.92 0.05 0.03
Matches are distributed among these distances:
86 6 0.08
87 50 0.62
88 24 0.30
ACGTcount: A:0.33, C:0.13, G:0.32, T:0.21
Consensus pattern (88 bp):
GTGCCACAGAGTTGTGGGCTTTAAACAGAAAAAGGTGCCACGGAGTTGTGGGCTTTAAAAAAGGA
AAAAGAGTGCCACAAAGTTGTAG
Found at i:1384562 original size:34 final size:33
Alignment explanation
Indices: 1384425--1384772 Score: 302
Period size: 34 Copynumber: 10.8 Consensus size: 33
1384415 ACAAAGTTGT
* *
1384425 AGGTGCCACAGAGTTGTGGGCTTTAAAAGAAAA
1 AGGTGCCACGGAGTTGTGGGCTTTAAAAGAAGA
*
1384458 AGGTGCCACGGAGTTGTGGGCTTTGAAAAGGAAAAA
1 AGGTGCCACGGAGTTGTGGGCTTT-AAAA-G-AAGA
**
1384494 AGAGTGCCACAAAGTTGTGGGCTTTAAAAGAAGA
1 AG-GTGCCACGGAGTTGTGGGCTTTAAAAGAAGA
1384528 AGGTGCCACGGAGTTGTGGGCTTTGAAAAGAAGA
1 AGGTGCCACGGAGTTGTGGGCTTT-AAAAGAAGA
*
1384562 AGGTGCCACGGAGTTGTGGGC-TT--AA-ACG-
1 AGGTGCCACGGAGTTGTGGGCTTTAAAAGAAGA
* *
1384590 -GGTGCCACGGAGTTGTGGAC-TTAAAGATGAAAA
1 AGGTGCCACGGAGTTGTGGGCTTTAAA-A-GAAGA
* * *
1384623 AAGTGCCACGAAATTGTGGGCTTT--AA-AAG-
1 AGGTGCCACGGAGTTGTGGGCTTTAAAAGAAGA
* *
1384652 -GGTGCCACGGAGTTGTGGAC-TTAAAGATGAAAA
1 AGGTGCCACGGAGTTGTGGGCTTTAAA-A-GAAGA
* *
1384685 AAGTGCCACGGAATTGTGGGCTTT--AA-AAG-
1 AGGTGCCACGGAGTTGTGGGCTTTAAAAGAAGA
* * *
1384714 -GGTGCCACGGCGTTGTGGAC-TTAAAAGGAACA
1 AGGTGCCACGGAGTTGTGGGCTTTAAAA-GAAGA
*
1384746 AGGTGCCATGGAGTTGTGGGCTTTAAA
1 AGGTGCCACGGAGTTGTGGGCTTTAAA
1384773 GAAAAAATGC
Statistics
Matches: 255, Mismatches: 32, Indels: 55
0.75 0.09 0.16
Matches are distributed among these distances:
27 25 0.10
28 32 0.13
29 6 0.02
30 8 0.03
31 2 0.01
32 5 0.02
33 64 0.25
34 77 0.30
35 6 0.02
36 10 0.04
37 20 0.08
ACGTcount: A:0.31, C:0.13, G:0.34, T:0.22
Consensus pattern (33 bp):
AGGTGCCACGGAGTTGTGGGCTTTAAAAGAAGA
Found at i:1384595 original size:61 final size:61
Alignment explanation
Indices: 1384425--1384772 Score: 367
Period size: 62 Copynumber: 5.4 Consensus size: 61
1384415 ACAAAGTTGT
* *
1384425 AGGTGCCACAGAGTTGTGGGCTTTAAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTTGAAAAGGA
1 AGGTGCCACGGAGTTGTGGGCTTTAAAAG-----GGTGCCACGGAGTTGTGGAC-TT-AAAAGG-
1384490 AAAA
58 AAAA
** *
1384494 AGAGTGCCACAAAGTTGTGGGCTTTAAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTTGAAAA-G
1 AG-GTGCCACGGAGTTGTGGGCTTT--AA-AAG--GGTGCCACGGAGTTGTGGAC-TT-AAAAGG
*
1384558 AAGA
58 AAAA
* *
1384562 AGGTGCCACGGAGTTGTGGGC-TTAAACGGGTGCCACGGAGTTGTGGACTTAAAGATGAAAA
1 AGGTGCCACGGAGTTGTGGGCTTTAAAAGGGTGCCACGGAGTTGTGGACTTAAA-AGGAAAA
* * * *
1384623 AAGTGCCACGAAATTGTGGGCTTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAGATGAAAA
1 AGGTGCCACGGAGTTGTGGGCTTTAAAAGGGTGCCACGGAGTTGTGGACTTAAA-AGGAAAA
* * * *
1384685 AAGTGCCACGGAATTGTGGGCTTTAAAAGGGTGCCACGGCGTTGTGGACTTAAAAGGAACA
1 AGGTGCCACGGAGTTGTGGGCTTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGAAAA
*
1384746 AGGTGCCATGGAGTTGTGGGCTTTAAA
1 AGGTGCCACGGAGTTGTGGGCTTTAAA
1384773 GAAAAAATGC
Statistics
Matches: 254, Mismatches: 18, Indels: 22
0.86 0.06 0.07
Matches are distributed among these distances:
59 3 0.01
60 3 0.01
61 70 0.28
62 91 0.36
63 2 0.01
64 2 0.01
66 2 0.01
67 17 0.07
68 5 0.02
69 3 0.01
70 51 0.20
72 2 0.01
73 3 0.01
ACGTcount: A:0.31, C:0.13, G:0.34, T:0.22
Consensus pattern (61 bp):
AGGTGCCACGGAGTTGTGGGCTTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGAAAA
Found at i:1384861 original size:31 final size:30
Alignment explanation
Indices: 1384776--1384861 Score: 111
Period size: 30 Copynumber: 2.8 Consensus size: 30
1384766 CTTTAAAGAA
1384776 AAAATGCCACTGAGTCGTGGACTTTGAGAC
1 AAAATGCCACTGAGTCGTGGACTTTGAGAC
* * *
1384806 AAAATGTCACTAAGTCGTGAACTTTGAG-C
1 AAAATGCCACTGAGTCGTGGACTTTGAGAC
*
1384835 AGAGATTGCCACTGAGTCGTGGACTTT
1 A-A-AATGCCACTGAGTCGTGGACTTT
1384862 TTTTTTTTTT
Statistics
Matches: 47, Mismatches: 7, Indels: 3
0.82 0.12 0.05
Matches are distributed among these distances:
29 2 0.04
30 26 0.55
31 19 0.40
ACGTcount: A:0.29, C:0.19, G:0.26, T:0.27
Consensus pattern (30 bp):
AAAATGCCACTGAGTCGTGGACTTTGAGAC
Found at i:1385852 original size:23 final size:25
Alignment explanation
Indices: 1385817--1385870 Score: 85
Period size: 23 Copynumber: 2.2 Consensus size: 25
1385807 TGAAAAGGGG
*
1385817 TTTTTCCTCTTTTTTGTTTTGTTT-
1 TTTTTTCTCTTTTTTGTTTTGTTTC
1385841 TTTTTTCT-TTTTTTGTTTTGTTTC
1 TTTTTTCTCTTTTTTGTTTTGTTTC
1385865 TTTTTT
1 TTTTTT
1385871 GGAAAAGAAC
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
23 15 0.54
24 13 0.46
ACGTcount: A:0.00, C:0.09, G:0.07, T:0.83
Consensus pattern (25 bp):
TTTTTTCTCTTTTTTGTTTTGTTTC
Found at i:1385856 original size:18 final size:17
Alignment explanation
Indices: 1385833--1385870 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
1385823 CTCTTTTTTG
*
1385833 TTTTGTTTTTTTTTCTTT
1 TTTTG-TTTTGTTTCTTT
1385851 TTTTGTTTTGTTTCTTT
1 TTTTGTTTTGTTTCTTT
1385868 TTT
1 TTT
1385871 GGAAAAGAAC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 14 0.74
18 5 0.26
ACGTcount: A:0.00, C:0.05, G:0.08, T:0.87
Consensus pattern (17 bp):
TTTTGTTTTGTTTCTTT
Found at i:1386982 original size:49 final size:48
Alignment explanation
Indices: 1386865--1387647 Score: 889
Period size: 43 Copynumber: 16.8 Consensus size: 48
1386855 AAAAGGATGT
* *
1386865 CAATGTGCTGATTCAAGGCCAGCTACATTGAATTTAAAGATGGAAAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT----AAGGTGC
* * *
1386917 CGATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT-AAGGTGC
*
1386966 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT-AAGGTGC
* * * * *
1387015 CACTATGCTGATTCAAGGCTAGCGATATTGGACTT----A-AAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAGGTGC
* *
1387058 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT-AAGGTGC
* * *
1387107 CAATATGCTGATTCAAGGCCAGCGATATTGGACTT----A-AAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAGGTGC
1387150 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTT----A-AAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAGGTGC
* *
1387193 CAATGTGCTGATTCAAGGCCAGCGATATTGGACTT----A-AAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAGGTGC
**
1387236 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGACGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT-AAGGTGC
* * *
1387285 CAATATGCTGATTCAAGGCCAGCGATATTGGACTT----A-AAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAGGTGC
*
1387328 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT-AAGGTGC
* * *
1387377 CAATATGCTGATTCAAGGCCAGCGATATTGGACTT----A-AAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAGGTGC
* *
1387420 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGGTGAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAGGTGC
1387468 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTT----A-AAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAGGTGC
*
1387511 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGATGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT-AAGGTGC
*
1387560 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGGAAAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT----AAGGTGC
* * *
1387612 CAATATGCTGATTCAAGGCCAGCTATATTGGGCTTA
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTA
1387648 GAAGGGTTGC
Statistics
Matches: 634, Mismatches: 65, Indels: 64
0.83 0.09 0.08
Matches are distributed among these distances:
43 272 0.43
45 4 0.01
47 4 0.01
48 41 0.06
49 238 0.38
52 75 0.12
ACGTcount: A:0.31, C:0.19, G:0.26, T:0.25
Consensus pattern (48 bp):
CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAGGTGC
Found at i:1387090 original size:92 final size:92
Alignment explanation
Indices: 1386856--1387598 Score: 1113
Period size: 92 Copynumber: 8.0 Consensus size: 92
1386846 AGATGATGAA
* * * * *
1386856 AAAGGATGTCAATGTGCTGATTCAAGGCCAGCTACATTGAATTTAAAGATGGAAAAGGTGCCGAT
1 AAAGG-TGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT---AAAGATGCCAAT
*
1386921 ATGCTGATTCAAGGCCAGCTATATTGGACTT
62 ATGCTGATTCAAGGCCAGCGATATTGGACTT
* *
1386952 AAAGATGAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCA
1 ----A--AAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGATGCCA
* *
1387017 CTATGCTGATTCAAGGCTAGCGATATTGGACTT
60 ATATGCTGATTCAAGGCCAGCGATATTGGACTT
* *
1387050 AAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATATGC
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGATGCCAATATGC
1387115 TGATTCAAGGCCAGCGATATTGGACTT
66 TGATTCAAGGCCAGCGATATTGGACTT
*
1387142 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAG-----G-TGCCAATGTGC
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGATGCCAATATGC
1387201 TGATTCAAGGCCAGCGATATTGGACTT
66 TGATTCAAGGCCAGCGATATTGGACTT
* *
1387228 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGACGCCAATATGC
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGATGCCAATATGC
1387293 TGATTCAAGGCCAGCGATATTGGACTT
66 TGATTCAAGGCCAGCGATATTGGACTT
*
1387320 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATATGC
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGATGCCAATATGC
1387385 TGATTCAAGGCCAGCGATATTGGACTT
66 TGATTCAAGGCCAGCGATATTGGACTT
* * * *
1387412 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGGT-GAGGTGCCAATGTGC
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGATGCCAATATGC
* *
1387476 TGATTCAAGGCCAGCTACATTGGACTT
66 TGATTCAAGGCCAGCGATATTGGACTT
*
1387503 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGATGCCAATGTGC
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGATGCCAATATGC
* * *
1387568 TGAGTCAAGGCCAGCTACATTGGACTT
66 TGATTCAAGGCCAGCGATATTGGACTT
1387595 AAAG
1 AAAG
1387599 ATGGAAAAGG
Statistics
Matches: 607, Mismatches: 27, Indels: 26
0.92 0.04 0.04
Matches are distributed among these distances:
86 84 0.14
87 1 0.00
91 86 0.14
92 351 0.58
94 1 0.00
98 39 0.06
100 1 0.00
101 40 0.07
102 4 0.01
ACGTcount: A:0.31, C:0.18, G:0.26, T:0.25
Consensus pattern (92 bp):
AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGATGCCAATATGC
TGATTCAAGGCCAGCGATATTGGACTT
Found at i:1387167 original size:21 final size:21
Alignment explanation
Indices: 1387143--1387253 Score: 54
Period size: 21 Copynumber: 5.2 Consensus size: 21
1387133 ATTGGACTTA
1387143 AAGGTGCCAATGTGCTGATTC
1 AAGGTGCCAATGTGCTGATTC
* * *
1387164 AAGGCCAGCTACAT-TG--GACTTA
1 AAGG--TGCCA-ATGTGCTGA-TTC
1387186 AAGGTGCCAATGTGCTGATTC
1 AAGGTGCCAATGTGCTGATTC
* * *
1387207 AAGGCCAGCGATAT-TG--GACTTA
1 AAGG--TGCCA-ATGTGCTGA-TTC
1387229 AAGGTGCCAATGTGCTGATTC
1 AAGGTGCCAATGTGCTGATTC
1387250 AAGG
1 AAGG
1387254 CCAGCTACAT
Statistics
Matches: 64, Mismatches: 12, Indels: 28
0.62 0.12 0.27
Matches are distributed among these distances:
19 4 0.06
20 10 0.16
21 20 0.31
22 16 0.25
23 10 0.16
24 4 0.06
ACGTcount: A:0.28, C:0.19, G:0.28, T:0.25
Consensus pattern (21 bp):
AAGGTGCCAATGTGCTGATTC
Found at i:1387507 original size:22 final size:22
Alignment explanation
Indices: 1387482--1387549 Score: 54
Period size: 22 Copynumber: 3.1 Consensus size: 22
1387472 GTGCTGATTC
1387482 AAGGCCAGCTACATTGGACTTA
1 AAGGCCAGCTACATTGGACTTA
* * *
1387504 AAGG--TGCCA-ATGTGCTGA-TTC
1 AAGGCCAGCTACAT-TG--GACTTA
1387525 AAGGCCAGCTACATTGGACTTA
1 AAGGCCAGCTACATTGGACTTA
1387547 AAG
1 AAG
1387550 ATAAAGATGC
Statistics
Matches: 33, Mismatches: 6, Indels: 14
0.62 0.11 0.26
Matches are distributed among these distances:
19 2 0.06
20 5 0.15
21 8 0.24
22 11 0.33
23 5 0.15
24 2 0.06
ACGTcount: A:0.31, C:0.21, G:0.25, T:0.24
Consensus pattern (22 bp):
AAGGCCAGCTACATTGGACTTA
Found at i:1387528 original size:21 final size:21
Alignment explanation
Indices: 1387462--1387528 Score: 50
Period size: 21 Copynumber: 3.1 Consensus size: 21
1387452 CTTAAAGGTG
1387462 AGGTGCCAATGTGCTGATTCA
1 AGGTGCCAATGTGCTGATTCA
* * *
1387483 AGGCCAGCTACAT-TG--GACTTAA
1 AGG--TGCCA-ATGTGCTGA-TTCA
1387505 AGGTGCCAATGTGCTGATTCA
1 AGGTGCCAATGTGCTGATTCA
1387526 AGG
1 AGG
1387529 CCAGCTACAT
Statistics
Matches: 33, Mismatches: 6, Indels: 14
0.62 0.11 0.26
Matches are distributed among these distances:
19 2 0.06
20 5 0.15
21 11 0.33
22 8 0.24
23 5 0.15
24 2 0.06
ACGTcount: A:0.27, C:0.19, G:0.28, T:0.25
Consensus pattern (21 bp):
AGGTGCCAATGTGCTGATTCA
Found at i:1387691 original size:33 final size:31
Alignment explanation
Indices: 1387640--1387717 Score: 115
Period size: 33 Copynumber: 2.5 Consensus size: 31
1387630 CCAGCTATAT
1387640 TGGGC-TT-AGAAGGGTTGCCACCGACTTGTG
1 TGGGCTTTAAGAA-GGTTGCCACCGACTTGTG
1387670 TGGGCTTTGGAAGAAGGTTGCCACCGACTTGTG
1 TGGGCTTT--AAGAAGGTTGCCACCGACTTGTG
1387703 TGGGCTTTAAGAAGG
1 TGGGCTTTAAGAAGG
1387718 GAGAAAGATG
Statistics
Matches: 44, Mismatches: 0, Indels: 7
0.86 0.00 0.14
Matches are distributed among these distances:
30 5 0.11
31 9 0.20
33 26 0.59
34 4 0.09
ACGTcount: A:0.19, C:0.17, G:0.37, T:0.27
Consensus pattern (31 bp):
TGGGCTTTAAGAAGGTTGCCACCGACTTGTG
Found at i:1387752 original size:34 final size:35
Alignment explanation
Indices: 1387701--1388291 Score: 283
Period size: 34 Copynumber: 17.3 Consensus size: 35
1387691 CACCGACTTG
* *
1387701 TGTGGGCTTTAAGAAGGGAGAAAGATGCCCCGGAGT
1 TGTGGGCTTTAA-AAGGGAAAAAGATGCCACGGAGT
*
1387737 TGTGGAC-TTAAAAGGGAAAAAGAGTGCCACGGAGT
1 TGTGGGCTTTAAAAGGGAAAAAGA-TGCCACGGAGT
*
1387772 TGTGGGCTTTAAAA-GAAAAAAG-TGCCACGGAGT
1 TGTGGGCTTTAAAAGGGAAAAAGATGCCACGGAGT
1387805 TGTGGGCTTTGAAAAGGGAAAAAGAGTGCCACGGAGT
1 TGTGGGCTTT-AAAAGGGAAAAAGA-TGCCACGGAGT
*
1387842 TGTGGGCTTTAAACA--GAAAAAGGTGCCACGGAGT
1 TGTGGGCTTTAAA-AGGGAAAAAGATGCCACGGAGT
* * **
1387876 TGTGGGCTTTAAAAAAGGAAAGAGAGTGCCACAAAGT
1 TGTGGGCTTT-AAAAGGGAAAAAGA-TGCCACGGAGT
*** ** * *
1387913 TGTAGGTGCCACAGAGTTGTGGGCTTTAAAAGAAAAAGGTGCCACAGAGT
1 TGT-GG-GCTTTA-A---AAGGG-----AAA----AAGATGCCACGGAGT
* **
1387963 TGTGGGCTTTGAAAAGGAAAAAAGAGTGCCACAAAGT
1 TGTGGGCTTT-AAAAGGGAAAAAGA-TGCCACGGAGT
* *
1388000 TGTGGGCTTTAAAA--GAAGAAGGTGCCACGGAGT
1 TGTGGGCTTTAAAAGGGAAAAAGATGCCACGGAGT
* *
1388033 TGTGGGCTTTGAAAA--GAAGAAGGTGCCACGGAGT
1 TGTGGGCTTT-AAAAGGGAAAAAGATGCCACGGAGT
*
1388067 TGTGGGC-TT-AAACGG-----G-TGCCACGGAGT
1 TGTGGGCTTTAAAAGGGAAAAAGATGCCACGGAGT
* * * * *
1388094 TGTGGAC-TTAAAGATGAAAAAAG-TGCCACGAAAT
1 TGTGGGCTTTAAA-AGGGAAAAAGATGCCACGGAGT
1388128 TGTGGGCTTTAAAA-GG-----G-TGCCACGGAGT
1 TGTGGGCTTTAAAAGGGAAAAAGATGCCACGGAGT
* * * *
1388156 TGTGGAC-TTAAAGATGAAAAAAG-TGCCACGGAAT
1 TGTGGGCTTTAAA-AGGGAAAAAGATGCCACGGAGT
*
1388190 TGTGGGCTTTAAAA-GG-----G-TGCCACGGCGT
1 TGTGGGCTTTAAAAGGGAAAAAGATGCCACGGAGT
* * * *
1388218 TGTGGAC-TTAAAA-GGAACAAGGTGCCATGGAGT
1 TGTGGGCTTTAAAAGGGAAAAAGATGCCACGGAGT
*
1388251 TGTGGGCTTT-AAA--GAAAAA-ATGCCACTGAGT
1 TGTGGGCTTTAAAAGGGAAAAAGATGCCACGGAGT
* *
1388282 CGTGGACTTT
1 TGTGGGCTTT
1388292 GAGACAAAAT
Statistics
Matches: 442, Mismatches: 59, Indels: 113
0.72 0.10 0.18
Matches are distributed among these distances:
27 32 0.07
28 36 0.08
29 3 0.01
31 20 0.05
32 6 0.01
33 63 0.14
34 109 0.25
35 54 0.12
36 28 0.06
37 54 0.12
38 3 0.01
39 3 0.01
40 3 0.01
42 2 0.00
45 2 0.00
47 3 0.01
48 3 0.01
49 3 0.01
50 13 0.03
51 2 0.00
ACGTcount: A:0.32, C:0.13, G:0.33, T:0.21
Consensus pattern (35 bp):
TGTGGGCTTTAAAAGGGAAAAAGATGCCACGGAGT
Found at i:1387915 original size:71 final size:69
Alignment explanation
Indices: 1387701--1387907 Score: 290
Period size: 71 Copynumber: 2.9 Consensus size: 69
1387691 CACCGACTTG
* * * *
1387701 TGTGGGCTTTAAGAAGGGAGAAAGATGCCCCGGAGTTGTGGAC-TTAAAAGGGAAAAAGAGTGCC
1 TGTGGGCTTTAA-AA--GAAAAAGGTGCCACGGAGTTGTGGGCTTTAAAAGGGAAAAAGAGTGCC
1387765 ACGGAGT
63 ACGGAGT
*
1387772 TGTGGGCTTTAAAAGAAAAAAGTGCCACGGAGTTGTGGGCTTTGAAAAGGGAAAAAGAGTGCCAC
1 TGTGGGCTTTAAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTT-AAAAGGGAAAAAGAGTGCCAC
1387837 GGAGT
65 GGAGT
* *
1387842 TGTGGGCTTTAAACAGAAAAAGGTGCCACGGAGTTGTGGGCTTTAAAAAAGGAAAGAGAGTGCCA
1 TGTGGGCTTTAAA-AGAAAAAGGTGCCACGGAGTTGTGGGCTTT-AAAAGGGAAAAAGAGTGCCA
1387907 C
64 C
1387908 AAAGTTGTAG
Statistics
Matches: 124, Mismatches: 9, Indels: 6
0.89 0.06 0.04
Matches are distributed among these distances:
68 21 0.17
69 2 0.02
70 41 0.33
71 60 0.48
ACGTcount: A:0.34, C:0.13, G:0.34, T:0.19
Consensus pattern (69 bp):
TGTGGGCTTTAAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTTAAAAGGGAAAAAGAGTGCCACG
GAGT
Found at i:1387989 original size:87 final size:88
Alignment explanation
Indices: 1387830--1388002 Score: 287
Period size: 87 Copynumber: 2.0 Consensus size: 88
1387820 GGGAAAAAGA
* *
1387830 GTGCCACGGAGTTGTGGGCTTTAAACAGAAAAAGGTGCCACGGAGTTGTGGGCTTTAAAAAAGGA
1 GTGCCACAGAGTTGTGGGCTTTAAACAGAAAAAGGTGCCACAGAGTTGTGGGCTTTAAAAAAGGA
*
1387895 AAGAGAGTGCCACAAAGTTGTAG
66 AAAAGAGTGCCACAAAGTTGTAG
*
1387918 GTGCCACAGAGTTGTGGGCTTTAAA-AGAAAAAGGTGCCACAGAGTTGTGGGCTTT-GAAAAGGA
1 GTGCCACAGAGTTGTGGGCTTTAAACAGAAAAAGGTGCCACAGAGTTGTGGGCTTTAAAAAAGG-
1387981 AAAAAGAGTGCCACAAAGTTGT
65 AAAAAGAGTGCCACAAAGTTGT
1388003 GGGCTTTAAA
Statistics
Matches: 80, Mismatches: 4, Indels: 3
0.92 0.05 0.03
Matches are distributed among these distances:
86 6 0.08
87 50 0.62
88 24 0.30
ACGTcount: A:0.34, C:0.13, G:0.32, T:0.21
Consensus pattern (88 bp):
GTGCCACAGAGTTGTGGGCTTTAAACAGAAAAAGGTGCCACAGAGTTGTGGGCTTTAAAAAAGGA
AAAAGAGTGCCACAAAGTTGTAG
Found at i:1388086 original size:61 final size:61
Alignment explanation
Indices: 1387916--1388263 Score: 358
Period size: 62 Copynumber: 5.4 Consensus size: 61
1387906 ACAAAGTTGT
* * *
1387916 AGGTGCCACAGAGTTGTGGGCTTTAAAAGAAAAAGGTGCCACAGAGTTGTGGGCTTTGAAAAGGA
1 AGGTGCCACGGAGTTGTGGGCTTTAAAAG-----GGTGCCACGGAGTTGTGGAC-TT-AAAAGG-
1387981 AAAA
58 AAAA
** *
1387985 AGAGTGCCACAAAGTTGTGGGCTTTAAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTTGAAAA-G
1 AG-GTGCCACGGAGTTGTGGGCTTT--AA-AAG--GGTGCCACGGAGTTGTGGAC-TT-AAAAGG
*
1388049 AAGA
58 AAAA
* *
1388053 AGGTGCCACGGAGTTGTGGGC-TTAAACGGGTGCCACGGAGTTGTGGACTTAAAGATGAAAA
1 AGGTGCCACGGAGTTGTGGGCTTTAAAAGGGTGCCACGGAGTTGTGGACTTAAA-AGGAAAA
* * * *
1388114 AAGTGCCACGAAATTGTGGGCTTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAGATGAAAA
1 AGGTGCCACGGAGTTGTGGGCTTTAAAAGGGTGCCACGGAGTTGTGGACTTAAA-AGGAAAA
* * * *
1388176 AAGTGCCACGGAATTGTGGGCTTTAAAAGGGTGCCACGGCGTTGTGGACTTAAAAGGAACA
1 AGGTGCCACGGAGTTGTGGGCTTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGAAAA
*
1388237 AGGTGCCATGGAGTTGTGGGCTTTAAA
1 AGGTGCCACGGAGTTGTGGGCTTTAAA
1388264 GAAAAAATGC
Statistics
Matches: 253, Mismatches: 19, Indels: 22
0.86 0.06 0.07
Matches are distributed among these distances:
59 3 0.01
60 3 0.01
61 70 0.28
62 91 0.36
63 2 0.01
64 2 0.01
66 2 0.01
67 17 0.07
68 5 0.02
69 3 0.01
70 50 0.20
72 2 0.01
73 3 0.01
ACGTcount: A:0.32, C:0.13, G:0.33, T:0.22
Consensus pattern (61 bp):
AGGTGCCACGGAGTTGTGGGCTTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGAAAA
Found at i:1388339 original size:31 final size:30
Alignment explanation
Indices: 1388267--1388352 Score: 138
Period size: 30 Copynumber: 2.8 Consensus size: 30
1388257 CTTTAAAGAA
1388267 AAAATGCCACTGAGTCGTGGACTTTGAGAC
1 AAAATGCCACTGAGTCGTGGACTTTGAGAC
1388297 AAAATGCCACTGAGTCGTGGACTTTGAG-C
1 AAAATGCCACTGAGTCGTGGACTTTGAGAC
*
1388326 AGAGATTGCCACTGAGTCGTGGACTTT
1 A-A-AATGCCACTGAGTCGTGGACTTT
1388353 TTTTTTTTTT
Statistics
Matches: 53, Mismatches: 1, Indels: 3
0.93 0.02 0.05
Matches are distributed among these distances:
29 2 0.04
30 29 0.55
31 22 0.42
ACGTcount: A:0.27, C:0.20, G:0.28, T:0.26
Consensus pattern (30 bp):
AAAATGCCACTGAGTCGTGGACTTTGAGAC
Found at i:1389343 original size:23 final size:25
Alignment explanation
Indices: 1389308--1389361 Score: 85
Period size: 23 Copynumber: 2.2 Consensus size: 25
1389298 TGAAAAGGGG
*
1389308 TTTTTCCTCTTTTTTGTTTTGTTT-
1 TTTTTTCTCTTTTTTGTTTTGTTTC
1389332 TTTTTTCT-TTTTTTGTTTTGTTTC
1 TTTTTTCTCTTTTTTGTTTTGTTTC
1389356 TTTTTT
1 TTTTTT
1389362 GGAAAAGAAC
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
23 15 0.54
24 13 0.46
ACGTcount: A:0.00, C:0.09, G:0.07, T:0.83
Consensus pattern (25 bp):
TTTTTTCTCTTTTTTGTTTTGTTTC
Found at i:1389347 original size:18 final size:17
Alignment explanation
Indices: 1389324--1389361 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
1389314 CTCTTTTTTG
*
1389324 TTTTGTTTTTTTTTCTTT
1 TTTTG-TTTTGTTTCTTT
1389342 TTTTGTTTTGTTTCTTT
1 TTTTGTTTTGTTTCTTT
1389359 TTT
1 TTT
1389362 GGAAAAGAAC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 14 0.74
18 5 0.26
ACGTcount: A:0.00, C:0.05, G:0.08, T:0.87
Consensus pattern (17 bp):
TTTTGTTTTGTTTCTTT
Found at i:1390473 original size:49 final size:48
Alignment explanation
Indices: 1390356--1391137 Score: 880
Period size: 43 Copynumber: 16.8 Consensus size: 48
1390346 AAAAGGATGT
*
1390356 CAATGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT----AAGGTGC
* * *
1390408 CGATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT-AAGGTGC
*
1390457 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT-AAGGTGC
* * * *
1390506 CACTATGCTGATTCAAGGCCAGCGATATTGGACTT----A-AAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAGGTGC
* * *
1390549 CAATATGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAGATGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT-AAGGTGC
* * * *
1390598 CAATATGCTGATTCAAGGCCAACGATATTGGACTT----A-AAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAGGTGC
1390641 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTT----A-AAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAGGTGC
* *
1390684 CAATGTGCTGATTCAAGGCCAGCGATATTGGACTT----A-AAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAGGTGC
*
1390727 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT-AAGGTGC
* * *
1390776 CAATATGCTGATTCAAGGCCAGCGATATTGGACTT----A-AAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAGGTGC
*
1390819 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT-AAGGTGC
* * * *
1390868 CAATATGTTGATTCAAGGCCAGCGATATTGGACTT----A-AAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAGGTGC
* *
1390911 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGGTGAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAGGTGC
*
1390959 CAATGTGCCGATTCAAGGCCAGCTACATTGGACTT----A-AAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAGGTGC
1391002 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT-AAGGTGC
*
1391051 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGGAAAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT----AAGGTGC
* * *
1391103 CAATATGC-GATTCAAGGCCAGCTATATTGGGCTTA
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTA
1391138 GAAGGGTTGC
Statistics
Matches: 636, Mismatches: 62, Indels: 65
0.83 0.08 0.09
Matches are distributed among these distances:
43 272 0.43
45 4 0.01
47 4 0.01
48 40 0.06
49 240 0.38
51 24 0.04
52 52 0.08
ACGTcount: A:0.31, C:0.19, G:0.26, T:0.25
Consensus pattern (48 bp):
CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAGGTGC
Found at i:1390586 original size:92 final size:92
Alignment explanation
Indices: 1390347--1391089 Score: 1113
Period size: 92 Copynumber: 8.0 Consensus size: 92
1390337 AGATGATGAA
* * *
1390347 AAAGGATGTCAATGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAAGGTGCCGAT
1 AAAGG-TGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT---AAAGGTGCCAAT
*
1390412 ATGCTGATTCAAGGCCAGCTATATTGGACTT
62 ATGCTGATTCAAGGCCAGCGATATTGGACTT
*
1390443 AAAGATGAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCA
1 ----A--AAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCA
*
1390508 CTATGCTGATTCAAGGCCAGCGATATTGGACTT
60 ATATGCTGATTCAAGGCCAGCGATATTGGACTT
* * *
1390541 AAAGGTGCCAATATGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAGATGCCAATATGC
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGC
*
1390606 TGATTCAAGGCCAACGATATTGGACTT
66 TGATTCAAGGCCAGCGATATTGGACTT
*
1390633 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGAC-T-----TAAAGGTGCCAATGTGC
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGC
1390692 TGATTCAAGGCCAGCGATATTGGACTT
66 TGATTCAAGGCCAGCGATATTGGACTT
* *
1390719 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATATGC
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGC
1390784 TGATTCAAGGCCAGCGATATTGGACTT
66 TGATTCAAGGCCAGCGATATTGGACTT
* * *
1390811 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATATGT
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGC
1390876 TGATTCAAGGCCAGCGATATTGGACTT
66 TGATTCAAGGCCAGCGATATTGGACTT
* * *
1390903 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGGT-GAGGTGCCAATGTGC
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGC
* * *
1390967 CGATTCAAGGCCAGCTACATTGGACTT
66 TGATTCAAGGCCAGCGATATTGGACTT
*
1390994 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATGTGC
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGC
* * *
1391059 TGAGTCAAGGCCAGCTACATTGGACTT
66 TGATTCAAGGCCAGCGATATTGGACTT
1391086 AAAG
1 AAAG
1391090 ATGGAAAAGG
Statistics
Matches: 603, Mismatches: 31, Indels: 26
0.91 0.05 0.04
Matches are distributed among these distances:
86 82 0.14
87 1 0.00
91 84 0.14
92 349 0.58
94 1 0.00
98 40 0.07
100 1 0.00
101 41 0.07
102 4 0.01
ACGTcount: A:0.31, C:0.19, G:0.26, T:0.25
Consensus pattern (92 bp):
AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGC
TGATTCAAGGCCAGCGATATTGGACTT
Found at i:1390701 original size:21 final size:21
Alignment explanation
Indices: 1390634--1390744 Score: 54
Period size: 21 Copynumber: 5.2 Consensus size: 21
1390624 ATTGGACTTA
1390634 AAGGTGCCAATGTGCTGATTC
1 AAGGTGCCAATGTGCTGATTC
* * *
1390655 AAGGCCAGCTACAT-TG--GACTTA
1 AAGG--TGCCA-ATGTGCTGA-TTC
1390677 AAGGTGCCAATGTGCTGATTC
1 AAGGTGCCAATGTGCTGATTC
* * *
1390698 AAGGCCAGCGATAT-TG--GACTTA
1 AAGG--TGCCA-ATGTGCTGA-TTC
1390720 AAGGTGCCAATGTGCTGATTC
1 AAGGTGCCAATGTGCTGATTC
1390741 AAGG
1 AAGG
1390745 CCAGCTACAT
Statistics
Matches: 64, Mismatches: 12, Indels: 28
0.62 0.12 0.27
Matches are distributed among these distances:
19 4 0.06
20 10 0.16
21 20 0.31
22 16 0.25
23 10 0.16
24 4 0.06
ACGTcount: A:0.28, C:0.19, G:0.28, T:0.25
Consensus pattern (21 bp):
AAGGTGCCAATGTGCTGATTC
Found at i:1390998 original size:22 final size:22
Alignment explanation
Indices: 1390973--1391040 Score: 54
Period size: 22 Copynumber: 3.1 Consensus size: 22
1390963 GTGCCGATTC
1390973 AAGGCCAGCTACATTGGACTTA
1 AAGGCCAGCTACATTGGACTTA
* * *
1390995 AAGG--TGCCA-ATGTGCTGA-TTC
1 AAGGCCAGCTACAT-TG--GACTTA
1391016 AAGGCCAGCTACATTGGACTTA
1 AAGGCCAGCTACATTGGACTTA
1391038 AAG
1 AAG
1391041 ATAAAGGTGC
Statistics
Matches: 33, Mismatches: 6, Indels: 14
0.62 0.11 0.26
Matches are distributed among these distances:
19 2 0.06
20 5 0.15
21 8 0.24
22 11 0.33
23 5 0.15
24 2 0.06
ACGTcount: A:0.31, C:0.21, G:0.25, T:0.24
Consensus pattern (22 bp):
AAGGCCAGCTACATTGGACTTA
Found at i:1391181 original size:33 final size:35
Alignment explanation
Indices: 1391137--1391206 Score: 117
Period size: 33 Copynumber: 2.1 Consensus size: 35
1391127 TATTGGGCTT
1391137 AGAAGGGTTGCCACCGACTTGTGTGGGCTTT-GGA
1 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAGGA
*
1391171 AGAA-GGTTGCCACTGACTTGTGTGGGCTTTAGGA
1 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAGGA
1391205 AG
1 AG
1391207 GGAGAAAGAT
Statistics
Matches: 34, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
33 25 0.74
34 9 0.26
ACGTcount: A:0.20, C:0.16, G:0.37, T:0.27
Consensus pattern (35 bp):
AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAGGA
Found at i:1391249 original size:34 final size:36
Alignment explanation
Indices: 1391191--1391787 Score: 333
Period size: 34 Copynumber: 17.4 Consensus size: 36
1391181 CACTGACTTG
* *
1391191 TGTGGGCTTTAGGAAGGGAGAAAGA-TGCCACGGAGT
1 TGTGGGCTTTA-AAAGGGAAAAAGAGTGCCACGGAGT
*
1391227 TGTGGAC-TTAAAAGGGAAAAAGAGTGCCACGGAGT
1 TGTGGGCTTTAAAAGGGAAAAAGAGTGCCACGGAGT
1391262 TGTGGGCTTTAAAA--GAAAAA-AGTGCCACGGAGT
1 TGTGGGCTTTAAAAGGGAAAAAGAGTGCCACGGAGT
1391295 TGTGGGCTTTGAAAAGGGAAAAAGAGTGCCACGGAGT
1 TGTGGGCTTT-AAAAGGGAAAAAGAGTGCCACGGAGT
1391332 TGTGGGCTTTAAACA--GAAAAAG-GTGCCACGGAGT
1 TGTGGGCTTTAAA-AGGGAAAAAGAGTGCCACGGAGT
* * **
1391366 TGTGGGCTTTAAAAAAGGAAAGAGAGTGCCACAAAGT
1 TGTGGGCTTT-AAAAGGGAAAAAGAGTGCCACGGAGT
*** ** *
1391403 TGTAGGTGCCACAGAGTTGTGGGCTTTAAAAGAAAAAGGTGCCACGGAGT
1 TGT-GG-GCTTTA-A---AAGGG------AA-AAAGA-GTGCCACGGAGT
* **
1391453 TGTGGGCTTTGAAAAGGAAAAAAGAGTGCCACAAAGT
1 TGTGGGCTTT-AAAAGGGAAAAAGAGTGCCACGGAGT
*
1391490 TGTGGGCTTTAAAA--GAAGAAG-GTGCCACGGAGT
1 TGTGGGCTTTAAAAGGGAAAAAGAGTGCCACGGAGT
* * *
1391523 TATGGGCTTTGAAAA--GAAGAAG-GTGCCATGGAGT
1 TGTGGGCTTT-AAAAGGGAAAAAGAGTGCCACGGAGT
*
1391557 TGTGGGCTTTGAAAA--GAAGAAG-GTGCCACGGAGT
1 TGTGGGCTTT-AAAAGGGAAAAAGAGTGCCACGGAGT
*
1391591 TGTGGGC-TT-AAA-CG-----G-GTGCCACGGAGT
1 TGTGGGCTTTAAAAGGGAAAAAGAGTGCCACGGAGT
* * * *
1391618 TGTGGAC-TT-AAAGATGAAAAA-AGTGCCACGAAAT
1 TGTGGGCTTTAAAAG-GGAAAAAGAGTGCCACGGAGT
1391652 TGTGGGCTTTAAAA--G-----G-GTGCCACGGAGT
1 TGTGGGCTTTAAAAGGGAAAAAGAGTGCCACGGAGT
* * *
1391680 TGTGGAC-TT-AAAGATGAAAAA-AGTGCCACGGAAT
1 TGTGGGCTTTAAAAG-GGAAAAAGAGTGCCACGGAGT
*
1391714 TGTGGGCTTTAAAA--G-----G-GTGCCACGGCGT
1 TGTGGGCTTTAAAAGGGAAAAAGAGTGCCACGGAGT
* * *
1391742 TGTGGAC-TTAAAA-GGAACAAG-GTGCCATGGAGT
1 TGTGGGCTTTAAAAGGGAAAAAGAGTGCCACGGAGT
1391775 TGTGGGCTTTAAA
1 TGTGGGCTTTAAA
1391788 GAAAAAATGC
Statistics
Matches: 453, Mismatches: 50, Indels: 118
0.73 0.08 0.19
Matches are distributed among these distances:
26 3 0.01
27 32 0.07
28 33 0.07
29 2 0.00
31 3 0.01
32 1 0.00
33 63 0.14
34 148 0.33
35 34 0.08
36 37 0.08
37 57 0.13
38 7 0.02
39 5 0.01
42 2 0.00
45 2 0.00
48 5 0.01
49 6 0.01
50 13 0.03
ACGTcount: A:0.32, C:0.12, G:0.34, T:0.21
Consensus pattern (36 bp):
TGTGGGCTTTAAAAGGGAAAAAGAGTGCCACGGAGT
Found at i:1391321 original size:70 final size:70
Alignment explanation
Indices: 1391211--1391397 Score: 297
Period size: 71 Copynumber: 2.7 Consensus size: 70
1391201 AGGAAGGGAG
*
1391211 AAAGATGCCACGGAGTTGTGGAC-TTAAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAA
1 AAAG-TGCCACGGAGTTGTGGGCTTTAAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAA
1391275 -AGAAA
65 CAGAAA
1391280 AAAGTGCCACGGAGTTGTGGGCTTTGAAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAA
1 AAAGTGCCACGGAGTTGTGGGCTTT-AAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAA
1391345 CAGAAA
65 CAGAAA
* * *
1391351 AAGGTGCCACGGAGTTGTGGGCTTTAAAAAAGGAAAGAGAGTGCCAC
1 AAAGTGCCACGGAGTTGTGGGCTTT-AAAAGGGAAAAAGAGTGCCAC
1391398 AAAGTTGTAG
Statistics
Matches: 110, Mismatches: 5, Indels: 4
0.92 0.04 0.03
Matches are distributed among these distances:
68 17 0.15
69 6 0.05
70 39 0.35
71 48 0.44
ACGTcount: A:0.35, C:0.13, G:0.33, T:0.19
Consensus pattern (70 bp):
AAAGTGCCACGGAGTTGTGGGCTTTAAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAC
AGAAA
Found at i:1391479 original size:87 final size:88
Alignment explanation
Indices: 1391320--1391492 Score: 296
Period size: 87 Copynumber: 2.0 Consensus size: 88
1391310 GGGAAAAAGA
*
1391320 GTGCCACGGAGTTGTGGGCTTTAAACAGAAAAAGGTGCCACGGAGTTGTGGGCTTTAAAAAAGGA
1 GTGCCACAGAGTTGTGGGCTTTAAACAGAAAAAGGTGCCACGGAGTTGTGGGCTTTAAAAAAGGA
*
1391385 AAGAGAGTGCCACAAAGTTGTAG
66 AAAAGAGTGCCACAAAGTTGTAG
*
1391408 GTGCCACAGAGTTGTGGGCTTTAAA-AGAAAAAGGTGCCACGGAGTTGTGGGCTTT-GAAAAGGA
1 GTGCCACAGAGTTGTGGGCTTTAAACAGAAAAAGGTGCCACGGAGTTGTGGGCTTTAAAAAAGG-
1391471 AAAAAGAGTGCCACAAAGTTGT
65 AAAAAGAGTGCCACAAAGTTGT
1391493 GGGCTTTAAA
Statistics
Matches: 81, Mismatches: 3, Indels: 3
0.93 0.03 0.03
Matches are distributed among these distances:
86 6 0.07
87 51 0.63
88 24 0.30
ACGTcount: A:0.34, C:0.13, G:0.32, T:0.21
Consensus pattern (88 bp):
GTGCCACAGAGTTGTGGGCTTTAAACAGAAAAAGGTGCCACGGAGTTGTGGGCTTTAAAAAAGGA
AAAAGAGTGCCACAAAGTTGTAG
Found at i:1391521 original size:70 final size:67
Alignment explanation
Indices: 1391406--1391815 Score: 321
Period size: 62 Copynumber: 6.4 Consensus size: 67
1391396 ACAAAGTTGT
*
1391406 AGGTGCCACAGAGTTGTGGGCTTTAAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTTGAAAAGGA
1 AGGTGCCACAGAGTTGTGGGCTTTAAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTTGAAAA-G-
1391471 AAAA
64 AAAA
* *
1391475 AGAGTGCCACAAAGTTGTGGGCTTTAAAAGAAGAAGGTGCCACGGAGTTATGGGCTTTGAAAAGA
1 AG-GTGCCACAGAGTTGTGGGCTTTAAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTTGAAAAGA
*
1391540 AGA
65 AAA
** *
1391543 AGGTGCCATGGAGTTGTGGGCTTTGAAAAGAAGAAGGTGCCACGGAGTTGTGGGC-TT-AAACG-
1 AGGTGCCACAGAGTTGTGGGCTTT-AAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTTGAAAAGA
1391605 ---
65 AAA
* * * * * *
1391605 -GGTGCCACGGAGTTGTGGAC-TTAAAGATGAAAAAAGTGCCACGAAATTGTGGGCTTT-AAAAG
1 AGGTGCCACAGAGTTGTGGGCTTTAAA-A-GAAGAAGGTGCCACGGAGTTGTGGGCTTTGAAAAG
1391667 ----
64 AAAA
* * * * *
1391667 -GGTGCCACGGAGTTGTGGAC-TTAAAGATGAAAAAAGTGCCACGGAATTGTGGGCTTT-AAAAG
1 AGGTGCCACAGAGTTGTGGGCTTTAAA-A-GAAGAAGGTGCCACGGAGTTGTGGGCTTTGAAAAG
1391729 ----
64 AAAA
* * * * *
1391729 -GGTGCCACGGCGTTGTGGAC-TTAAAAGGAACAAGGTGCCATGGAGTTGTGGGCTTT--AAAGA
1 AGGTGCCACAGAGTTGTGGGCTTTAAAA-GAAGAAGGTGCCACGGAGTTGTGGGCTTTGAAAAGA
1391790 AAA
65 AAA
* * * *
1391793 A-ATGCCACTGAGTCGTGGACTTT
1 AGGTGCCACAGAGTTGTGGGCTTT
1391816 GAGACAAAAT
Statistics
Matches: 303, Mismatches: 27, Indels: 26
0.85 0.08 0.07
Matches are distributed among these distances:
59 3 0.01
60 7 0.02
61 66 0.22
62 91 0.30
64 15 0.05
65 2 0.01
66 4 0.01
67 21 0.07
68 34 0.11
69 3 0.01
70 57 0.19
ACGTcount: A:0.31, C:0.13, G:0.33, T:0.22
Consensus pattern (67 bp):
AGGTGCCACAGAGTTGTGGGCTTTAAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTTGAAAAGAA
AA
Found at i:1391619 original size:61 final size:62
Alignment explanation
Indices: 1391544--1391787 Score: 325
Period size: 62 Copynumber: 4.0 Consensus size: 62
1391534 AAAAGAAGAA
* * * * * *
1391544 GGTGCCATGGAGTTGTGGGCTTTGAAA-A-GAAGAAGGTGCCACGGAGTTGTGGGC-TTAAACG
1 GGTGCCACGGAGTTGTGGAC-TT-AAAGATGAAAAAAGTGCCACGGAATTGTGGGCTTTAAAAG
*
1391605 GGTGCCACGGAGTTGTGGACTTAAAGATGAAAAAAGTGCCACGAAATTGTGGGCTTTAAAAG
1 GGTGCCACGGAGTTGTGGACTTAAAGATGAAAAAAGTGCCACGGAATTGTGGGCTTTAAAAG
1391667 GGTGCCACGGAGTTGTGGACTTAAAGATGAAAAAAGTGCCACGGAATTGTGGGCTTTAAAAG
1 GGTGCCACGGAGTTGTGGACTTAAAGATGAAAAAAGTGCCACGGAATTGTGGGCTTTAAAAG
* * * * * *
1391729 GGTGCCACGGCGTTGTGGACTTAAA-AGGAACAAGGTGCCATGGAGTTGTGGGCTTTAAA
1 GGTGCCACGGAGTTGTGGACTTAAAGATGAAAAAAGTGCCACGGAATTGTGGGCTTTAAA
1391788 GAAAAAATGC
Statistics
Matches: 166, Mismatches: 14, Indels: 6
0.89 0.08 0.03
Matches are distributed among these distances:
59 3 0.02
60 3 0.02
61 69 0.42
62 91 0.55
ACGTcount: A:0.29, C:0.14, G:0.34, T:0.23
Consensus pattern (62 bp):
GGTGCCACGGAGTTGTGGACTTAAAGATGAAAAAAGTGCCACGGAATTGTGGGCTTTAAAAG
Found at i:1391683 original size:62 final size:61
Alignment explanation
Indices: 1391472--1391787 Score: 323
Period size: 62 Copynumber: 5.0 Consensus size: 61
1391462 TGAAAAGGAA
* ** * * * * *
1391472 AAAAGAGTGCCACAAAGTTGTGGGCTTTAAAA-GAAGAAGGTGCCACGGAGTTATGGGCTTT
1 AAAAGGGTGCCACGGAGTTGTGGAC-TTAAAATGAAAAAAGTGCCACGGAATTGTGGGCTTT
* * * * *
1391533 GAAAAGAAGAAGGTGCCATGGAGTTGTGGGCTTTGAAAA-GAAGAAGGTGCCACGGAGTTGTGGG
1 ---AA-AAG--GGTGCCACGGAGTTGTGGAC-TT-AAAATGAAAAAAGTGCCACGGAATTGTGGG
1391597 C-TT
58 CTTT
* *
1391600 AAACGGGTGCCACGGAGTTGTGGACTTAAAGATGAAAAAAGTGCCACGAAATTGTGGGCTTT
1 AAAAGGGTGCCACGGAGTTGTGGACTTAAA-ATGAAAAAAGTGCCACGGAATTGTGGGCTTT
1391662 AAAAGGGTGCCACGGAGTTGTGGACTTAAAGATGAAAAAAGTGCCACGGAATTGTGGGCTTT
1 AAAAGGGTGCCACGGAGTTGTGGACTTAAA-ATGAAAAAAGTGCCACGGAATTGTGGGCTTT
* * * * * *
1391724 AAAAGGGTGCCACGGCGTTGTGGACTTAAAAGGAACAAGGTGCCATGGAGTTGTGGGCTTT
1 AAAAGGGTGCCACGGAGTTGTGGACTTAAAATGAAAAAAGTGCCACGGAATTGTGGGCTTT
1391785 AAA
1 AAA
1391788 GAAAAAATGC
Statistics
Matches: 225, Mismatches: 20, Indels: 17
0.86 0.08 0.06
Matches are distributed among these distances:
59 3 0.01
60 3 0.01
61 69 0.31
62 91 0.40
63 2 0.01
64 4 0.02
65 3 0.01
67 21 0.09
68 29 0.13
ACGTcount: A:0.31, C:0.13, G:0.34, T:0.22
Consensus pattern (61 bp):
AAAAGGGTGCCACGGAGTTGTGGACTTAAAATGAAAAAAGTGCCACGGAATTGTGGGCTTT
Found at i:1391710 original size:123 final size:123
Alignment explanation
Indices: 1391544--1391787 Score: 323
Period size: 123 Copynumber: 2.0 Consensus size: 123
1391534 AAAAGAAGAA
* * * * * *
1391544 GGTGCCATGGAGTTGTGGGCTTTGAAAAGAAGAAGGTGCCACGGAGTTGTGGGC-TTAAACGGGT
1 GGTGCCACGGAGTTGTGGACTTTGAAAAGAAAAAAGTGCCACGGAATTGTGGGCTTTAAAAGGGT
*
1391608 GCCACGGAGTTGTGGACTTAAAGATGAAAAAAGTGCCACGAAATTGTGGGCTTTAAAAG
66 GCCACGGAGTTGTGGACTTAAA-AGGAAAAAAGTGCCACGAAATTGTGGGCTTTAAAAG
1391667 GGTGCCACGGAGTTGTGGAC-TT-AAAGATGAAAAAAGTGCCACGGAATTGTGGGCTTTAAAAGG
1 GGTGCCACGGAGTTGTGGACTTTGAAA-A-GAAAAAAGTGCCACGGAATTGTGGGCTTTAAAAGG
* * * * * *
1391730 GTGCCACGGCGTTGTGGACTTAAAAGGAACAAGGTGCCATGGAGTTGTGGGCTTTAAA
64 GTGCCACGGAGTTGTGGACTTAAAAGGAAAAAAGTGCCACGAAATTGTGGGCTTTAAA
1391788 GAAAAAATGC
Statistics
Matches: 105, Mismatches: 13, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
121 3 0.03
122 3 0.03
123 69 0.66
124 30 0.29
ACGTcount: A:0.29, C:0.14, G:0.34, T:0.23
Consensus pattern (123 bp):
GGTGCCACGGAGTTGTGGACTTTGAAAAGAAAAAAGTGCCACGGAATTGTGGGCTTTAAAAGGGT
GCCACGGAGTTGTGGACTTAAAAGGAAAAAAGTGCCACGAAATTGTGGGCTTTAAAAG
Found at i:1391863 original size:31 final size:30
Alignment explanation
Indices: 1391791--1391876 Score: 138
Period size: 30 Copynumber: 2.8 Consensus size: 30
1391781 CTTTAAAGAA
1391791 AAAATGCCACTGAGTCGTGGACTTTGAGAC
1 AAAATGCCACTGAGTCGTGGACTTTGAGAC
1391821 AAAATGCCACTGAGTCGTGGACTTTGAG-C
1 AAAATGCCACTGAGTCGTGGACTTTGAGAC
*
1391850 AGAGATTGCCACTGAGTCGTGGACTTT
1 A-A-AATGCCACTGAGTCGTGGACTTT
1391877 TTTTTTTTTT
Statistics
Matches: 53, Mismatches: 1, Indels: 3
0.93 0.02 0.05
Matches are distributed among these distances:
29 2 0.04
30 29 0.55
31 22 0.42
ACGTcount: A:0.27, C:0.20, G:0.28, T:0.26
Consensus pattern (30 bp):
AAAATGCCACTGAGTCGTGGACTTTGAGAC
Found at i:1392856 original size:12 final size:12
Alignment explanation
Indices: 1392839--1392878 Score: 53
Period size: 12 Copynumber: 3.2 Consensus size: 12
1392829 GTTTTTCCTC
1392839 TTTTTTGTTTTG
1 TTTTTTGTTTTG
* *
1392851 TTTTTTTTTTTCT
1 TTTTTTGTTTT-G
1392864 TTTTTTGTTTTG
1 TTTTTTGTTTTG
1392876 TTT
1 TTT
1392879 CTTTTTTGGA
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
12 13 0.57
13 10 0.43
ACGTcount: A:0.00, C:0.03, G:0.10, T:0.88
Consensus pattern (12 bp):
TTTTTTGTTTTG
Found at i:1392859 original size:25 final size:26
Alignment explanation
Indices: 1392830--1392885 Score: 80
Period size: 25 Copynumber: 2.2 Consensus size: 26
1392820 TGAAAAGGGG
*
1392830 TTTTTCCTC-TTTTTTGTTTTGTTT-
1 TTTTTTCTCTTTTTTTGTTTTGTTTC
*
1392854 TTTTTTTTCTTTTTTTGTTTTGTTTC
1 TTTTTTCTCTTTTTTTGTTTTGTTTC
1392880 TTTTTT
1 TTTTTT
1392886 GGAAAAGAAC
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
24 7 0.25
25 15 0.54
26 6 0.21
ACGTcount: A:0.00, C:0.09, G:0.07, T:0.84
Consensus pattern (26 bp):
TTTTTTCTCTTTTTTTGTTTTGTTTC
Found at i:1392874 original size:17 final size:16
Alignment explanation
Indices: 1392839--1392885 Score: 58
Period size: 17 Copynumber: 2.8 Consensus size: 16
1392829 GTTTTTCCTC
*
1392839 TTTTTTGTTTTGTTTTT
1 TTTTTTCTTTT-TTTTT
1392856 TTTTTTCTTTTTTTGTT
1 TTTTTTCTTTTTTT-TT
*
1392873 TTGTTTCTTTTTT
1 TTTTTTCTTTTTT
1392886 GGAAAAGAAC
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
16 3 0.11
17 24 0.89
ACGTcount: A:0.00, C:0.04, G:0.09, T:0.87
Consensus pattern (16 bp):
TTTTTTCTTTTTTTTT
Found at i:1393996 original size:49 final size:48
Alignment explanation
Indices: 1393879--1394656 Score: 870
Period size: 43 Copynumber: 16.6 Consensus size: 48
1393869 AAAAGGATGT
*
1393879 CAATGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT----AAGGTGC
* * *
1393931 CGATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT-AAGGTGC
*
1393980 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT-AAGGTGC
* * * *
1394029 CACTATGCTGATTCAAGGCCAGCGATATTGGACTT----A-AAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAGGTGC
* * * *
1394072 CAATTTGCTGAGTCAAGGCTAGCTACATTGGACTTAAAGATGAAGATGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT-AAGGTGC
* * * *
1394121 CAATATGCTGATTCAAGGCCAGCGATATTAGACTT----A-AAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAGGTGC
1394164 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTT----A-AAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAGGTGC
* *
1394207 CAATGTGCTGATTCAAGGCCAGCGATATTGGACTT----A-AAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAGGTGC
*
1394250 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT-AAGGTGC
* * *
1394299 CAATATGCTGATTCAAGGCCAGCGATATTGGACTT--A-AT--GGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAGGTGC
*
1394342 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT-AAGGTGC
* * *
1394391 CAATATGCTGATTCAAGGCCAGCGATATTGGACTT----A-AAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAGGTGC
** * *
1394434 CAATGTGCTGATTCAAGTTCAGCTACATTGGACTTAAAGGTGAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAGGTGC
1394482 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTT----A-AAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAGGTGC
1394525 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT-AAGGTGC
*
1394574 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGGAAAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT----AAGGTGC
* * *
1394626 CAATATGCTGATTCAAGGCCAACTATATTGG
1 CAATGTGCTGATTCAAGGCCAGCTACATTGG
1394657 GATTAGAAGG
Statistics
Matches: 628, Mismatches: 66, Indels: 64
0.83 0.09 0.08
Matches are distributed among these distances:
43 268 0.43
45 4 0.01
46 4 0.01
47 4 0.01
48 39 0.06
49 237 0.38
52 72 0.11
ACGTcount: A:0.31, C:0.18, G:0.25, T:0.25
Consensus pattern (48 bp):
CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAGGTGC
Found at i:1394110 original size:92 final size:92
Alignment explanation
Indices: 1393870--1394612 Score: 1086
Period size: 92 Copynumber: 8.0 Consensus size: 92
1393860 AGATGATGAA
* * *
1393870 AAAGGATGTCAATGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAAGGTGCCGAT
1 AAAGG-TGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT---AAAGGTGCCAAT
*
1393935 ATGCTGATTCAAGGCCAGCTATATTGGACTT
62 ATGCTGATTCAAGGCCAGCGATATTGGACTT
*
1393966 AAAGATGAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCA
1 ----A--AAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCA
*
1394031 CTATGCTGATTCAAGGCCAGCGATATTGGACTT
60 ATATGCTGATTCAAGGCCAGCGATATTGGACTT
* * * * *
1394064 AAAGGTGCCAATTTGCTGAGTCAAGGCTAGCTACATTGGACTTAAAGATGAAGATGCCAATATGC
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGC
*
1394129 TGATTCAAGGCCAGCGATATTAGACTT
66 TGATTCAAGGCCAGCGATATTGGACTT
*
1394156 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGAC-T-----TAAAGGTGCCAATGTGC
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGC
1394215 TGATTCAAGGCCAGCGATATTGGACTT
66 TGATTCAAGGCCAGCGATATTGGACTT
* *
1394242 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATATGC
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGC
1394307 TGATTCAAGGCCAGCGATATTGGACTT
66 TGATTCAAGGCCAGCGATATTGGACTT
* * *
1394334 AATGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATATGC
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGC
1394399 TGATTCAAGGCCAGCGATATTGGACTT
66 TGATTCAAGGCCAGCGATATTGGACTT
** * * *
1394426 AAAGGTGCCAATGTGCTGATTCAAGTTCAGCTACATTGGACTTAAAGGT-GAGGTGCCAATGTGC
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGC
* *
1394490 TGATTCAAGGCCAGCTACATTGGACTT
66 TGATTCAAGGCCAGCGATATTGGACTT
*
1394517 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATGTGC
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGC
* * *
1394582 TGAGTCAAGGCCAGCTACATTGGACTT
66 TGATTCAAGGCCAGCGATATTGGACTT
1394609 AAAG
1 AAAG
1394613 ATGGAAAAGG
Statistics
Matches: 597, Mismatches: 37, Indels: 26
0.90 0.06 0.04
Matches are distributed among these distances:
86 81 0.14
87 1 0.00
91 84 0.14
92 344 0.58
94 1 0.00
98 40 0.07
100 1 0.00
101 41 0.07
102 4 0.01
ACGTcount: A:0.31, C:0.18, G:0.26, T:0.25
Consensus pattern (92 bp):
AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGC
TGATTCAAGGCCAGCGATATTGGACTT
Found at i:1394181 original size:21 final size:21
Alignment explanation
Indices: 1394157--1394267 Score: 54
Period size: 21 Copynumber: 5.2 Consensus size: 21
1394147 ATTAGACTTA
1394157 AAGGTGCCAATGTGCTGATTC
1 AAGGTGCCAATGTGCTGATTC
* * *
1394178 AAGGCCAGCTACAT-TG--GACTTA
1 AAGG--TGCCA-ATGTGCTGA-TTC
1394200 AAGGTGCCAATGTGCTGATTC
1 AAGGTGCCAATGTGCTGATTC
* * *
1394221 AAGGCCAGCGATAT-TG--GACTTA
1 AAGG--TGCCA-ATGTGCTGA-TTC
1394243 AAGGTGCCAATGTGCTGATTC
1 AAGGTGCCAATGTGCTGATTC
1394264 AAGG
1 AAGG
1394268 CCAGCTACAT
Statistics
Matches: 64, Mismatches: 12, Indels: 28
0.62 0.12 0.27
Matches are distributed among these distances:
19 4 0.06
20 10 0.16
21 20 0.31
22 16 0.25
23 10 0.16
24 4 0.06
ACGTcount: A:0.28, C:0.19, G:0.28, T:0.25
Consensus pattern (21 bp):
AAGGTGCCAATGTGCTGATTC
Found at i:1394521 original size:22 final size:22
Alignment explanation
Indices: 1394496--1394563 Score: 54
Period size: 22 Copynumber: 3.1 Consensus size: 22
1394486 GTGCTGATTC
1394496 AAGGCCAGCTACATTGGACTTA
1 AAGGCCAGCTACATTGGACTTA
* * *
1394518 AAGG--TGCCA-ATGTGCTGA-TTC
1 AAGGCCAGCTACAT-TG--GACTTA
1394539 AAGGCCAGCTACATTGGACTTA
1 AAGGCCAGCTACATTGGACTTA
1394561 AAG
1 AAG
1394564 ATAAAGGTGC
Statistics
Matches: 33, Mismatches: 6, Indels: 14
0.62 0.11 0.26
Matches are distributed among these distances:
19 2 0.06
20 5 0.15
21 8 0.24
22 11 0.33
23 5 0.15
24 2 0.06
ACGTcount: A:0.31, C:0.21, G:0.25, T:0.24
Consensus pattern (22 bp):
AAGGCCAGCTACATTGGACTTA
Found at i:1394542 original size:21 final size:21
Alignment explanation
Indices: 1394476--1394542 Score: 50
Period size: 21 Copynumber: 3.1 Consensus size: 21
1394466 CTTAAAGGTG
1394476 AGGTGCCAATGTGCTGATTCA
1 AGGTGCCAATGTGCTGATTCA
* * *
1394497 AGGCCAGCTACAT-TG--GACTTAA
1 AGG--TGCCA-ATGTGCTGA-TTCA
1394519 AGGTGCCAATGTGCTGATTCA
1 AGGTGCCAATGTGCTGATTCA
1394540 AGG
1 AGG
1394543 CCAGCTACAT
Statistics
Matches: 33, Mismatches: 6, Indels: 14
0.62 0.11 0.26
Matches are distributed among these distances:
19 2 0.06
20 5 0.15
21 11 0.33
22 8 0.24
23 5 0.15
24 2 0.06
ACGTcount: A:0.27, C:0.19, G:0.28, T:0.25
Consensus pattern (21 bp):
AGGTGCCAATGTGCTGATTCA
Found at i:1396064 original size:20 final size:20
Alignment explanation
Indices: 1396039--1396113 Score: 105
Period size: 20 Copynumber: 3.8 Consensus size: 20
1396029 TATTACTCAG
1396039 ATGTATCGATACATTTTTCA
1 ATGTATCGATACATTTTTCA
* * *
1396059 ATGTATCGATACATGTATGA
1 ATGTATCGATACATTTTTCA
* *
1396079 ATGTATCGATATATTCTTCA
1 ATGTATCGATACATTTTTCA
1396099 ATGTATCGATACATT
1 ATGTATCGATACATT
1396114 CTATCTTTTT
Statistics
Matches: 46, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 46 1.00
ACGTcount: A:0.32, C:0.13, G:0.13, T:0.41
Consensus pattern (20 bp):
ATGTATCGATACATTTTTCA
Found at i:1400197 original size:79 final size:79
Alignment explanation
Indices: 1400066--1400296 Score: 243
Period size: 79 Copynumber: 2.9 Consensus size: 79
1400056 CTTTTCATCT
** * *
1400066 CGGGGATACTCCAACCCCAGCCTTATTTCTAAAACACTATTTTTTCACAATC-GAGGATACTCCA
1 CGGGGATACTCCAACCCTGGCCTTATTTCTAAAACACTAATTTTCCACAATCGGA-GATACTCCA
*
1400130 ACCCTGTTATTTTCG
65 ACCCCGTTATTTTCG
*
1400145 CGGGGATACTCCAACCCTGGCCTTATTTCTAAAGCA-TAGATTTTCCACAATCGGAGATACTCCA
1 CGGGGATACTCCAACCCTGGCCTTATTTCTAAAACACTA-ATTTTCCACAATCGGAGATACTCCA
*
1400209 ACCCCGTTATTTTTG
65 ACCCCGTTATTTTCG
* * *** ** * * *
1400224 AGAGGGATACTCTAACCCTGATTTTATTT-TCAAAACACCGATTTTCTATAATCGGGGATACTCC
1 CG-GGGATACTCCAACCCTGGCCTTATTTCT-AAAACACTAATTTTCCACAATCGGAGATACTCC
*
1400288 AGCCCCGTT
64 AACCCCGTT
1400297 GTTATCCCCA
Statistics
Matches: 128, Mismatches: 19, Indels: 9
0.82 0.12 0.06
Matches are distributed among these distances:
78 2 0.02
79 68 0.53
80 58 0.45
ACGTcount: A:0.26, C:0.27, G:0.15, T:0.31
Consensus pattern (79 bp):
CGGGGATACTCCAACCCTGGCCTTATTTCTAAAACACTAATTTTCCACAATCGGAGATACTCCAA
CCCCGTTATTTTCG
Found at i:1413005 original size:26 final size:27
Alignment explanation
Indices: 1412976--1413035 Score: 72
Period size: 26 Copynumber: 2.3 Consensus size: 27
1412966 CCTTCTCTAT
* *
1412976 GTGGGC-ATGGACATCGCTTCATCTTG
1 GTGGGCAATGAACATCACTTCATCTTG
*
1413002 GT-GGCAATTAACATCACTTCATCTTG
1 GTGGGCAATGAACATCACTTCATCTTG
1413028 GT-GGCAAT
1 GTGGGCAAT
1413036 TGACTATTTC
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
25 3 0.10
26 27 0.90
ACGTcount: A:0.22, C:0.22, G:0.25, T:0.32
Consensus pattern (27 bp):
GTGGGCAATGAACATCACTTCATCTTG
Found at i:1413036 original size:26 final size:26
Alignment explanation
Indices: 1412986--1413036 Score: 93
Period size: 26 Copynumber: 2.0 Consensus size: 26
1412976 GTGGGCATGG
*
1412986 ACATCGCTTCATCTTGGTGGCAATTA
1 ACATCACTTCATCTTGGTGGCAATTA
1413012 ACATCACTTCATCTTGGTGGCAATT
1 ACATCACTTCATCTTGGTGGCAATT
1413037 GACTATTTCA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.24, C:0.24, G:0.18, T:0.35
Consensus pattern (26 bp):
ACATCACTTCATCTTGGTGGCAATTA
Found at i:1413872 original size:9 final size:9
Alignment explanation
Indices: 1413860--1413905 Score: 69
Period size: 9 Copynumber: 5.3 Consensus size: 9
1413850 TAAAACAAAC
1413860 AAAAAACAA
1 AAAAAACAA
1413869 AAAAAAC-A
1 AAAAAACAA
1413877 AAAAAAC-A
1 AAAAAACAA
1413885 AAAAAACAA
1 AAAAAACAA
*
1413894 AAAGAACAA
1 AAAAAACAA
1413903 AAA
1 AAA
1413906 CAAAAAACCA
Statistics
Matches: 35, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
8 16 0.46
9 19 0.54
ACGTcount: A:0.87, C:0.11, G:0.02, T:0.00
Consensus pattern (9 bp):
AAAAAACAA
Found at i:1413888 original size:25 final size:25
Alignment explanation
Indices: 1413851--1413937 Score: 92
Period size: 25 Copynumber: 3.6 Consensus size: 25
1413841 CTTCATACCT
1413851 AAAACAAAC-AAAAAACAAAAAAAAC
1 AAAA-AAACAAAAAAACAAAAAAAAC
*
1413876 AAAAAAACAAAAAAACAAAAAGAAC
1 AAAAAAACAAAAAAACAAAAAAAAC
*
1413901 --AAAAACAAAAAACCAAGAAAAAA-
1 AAAAAAACAAAAAAACAA-AAAAAAC
* *
1413924 ATAATAACAAAAAA
1 AAAAAAACAAAAAA
1413938 CAGAAAGGGG
Statistics
Matches: 54, Mismatches: 4, Indels: 8
0.82 0.06 0.12
Matches are distributed among these distances:
23 15 0.28
24 9 0.17
25 30 0.56
ACGTcount: A:0.83, C:0.13, G:0.02, T:0.02
Consensus pattern (25 bp):
AAAAAAACAAAAAAACAAAAAAAAC
Found at i:1413905 original size:31 final size:31
Alignment explanation
Indices: 1413851--1413936 Score: 93
Period size: 31 Copynumber: 2.7 Consensus size: 31
1413841 CTTCATACCT
*
1413851 AAAACAAACAAAAAACAAAAAAAACAAAAAAAC
1 AAAA-AAAC-AAAAACAACAAAAACAAAAAAAC
* *
1413884 AAAAAAACAAAAAGAACAAAAACAAAAAACC
1 AAAAAAACAAAAACAACAAAAACAAAAAAAC
* *
1413915 AAGAAAAA-AATAATAACAAAAA
1 AA-AAAAACAAAAACAACAAAAA
1413937 ACAGAAAGGG
Statistics
Matches: 47, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
31 34 0.72
32 9 0.19
33 4 0.09
ACGTcount: A:0.83, C:0.13, G:0.02, T:0.02
Consensus pattern (31 bp):
AAAAAAACAAAAACAACAAAAACAAAAAAAC
Found at i:1413912 original size:17 final size:16
Alignment explanation
Indices: 1413851--1413937 Score: 81
Period size: 16 Copynumber: 5.4 Consensus size: 16
1413841 CTTCATACCT
*
1413851 AAAACAAACAAAAAAC
1 AAAAAAAACAAAAAAC
1413867 AAAAAAAACAAAAAA-
1 AAAAAAAACAAAAAAC
*
1413882 ACAAAAAAAC-AAAAAG
1 A-AAAAAAACAAAAAAC
*
1413898 AACAAAAACAAAAAACC
1 AAAAAAAACAAAAAA-C
*
1413915 AAGAAAAAA-ATAATAAC
1 AA-AAAAAACA-AAAAAC
1413932 AAAAAA
1 AAAAAA
1413938 CAGAAAGGGG
Statistics
Matches: 60, Mismatches: 5, Indels: 12
0.78 0.06 0.16
Matches are distributed among these distances:
15 13 0.22
16 32 0.53
17 6 0.10
18 9 0.15
ACGTcount: A:0.83, C:0.13, G:0.02, T:0.02
Consensus pattern (16 bp):
AAAAAAAACAAAAAAC
Found at i:1413938 original size:25 final size:22
Alignment explanation
Indices: 1413851--1413938 Score: 86
Period size: 23 Copynumber: 3.7 Consensus size: 22
1413841 CTTCATACCT
* *
1413851 AAAACAAACAAAAAACAAAAAAA
1 AAAAAAAACAAAAAAC-CAAAAA
*
1413874 ACAAAAAAACAAAAAAACAAAAA
1 A-AAAAAAACAAAAAACCAAAAA
*
1413897 GAACAAAAACAAAAAACCAAGAAA
1 -AAAAAAAACAAAAAACCAA-AAA
1413921 AAAATAATAACAAAAAAC
1 AAAA-AA-AACAAAAAAC
1413939 AGAAAGGGGT
Statistics
Matches: 54, Mismatches: 6, Indels: 8
0.79 0.09 0.12
Matches are distributed among these distances:
23 25 0.46
24 19 0.35
25 10 0.19
ACGTcount: A:0.82, C:0.14, G:0.02, T:0.02
Consensus pattern (22 bp):
AAAAAAAACAAAAAACCAAAAA
Found at i:1415220 original size:29 final size:29
Alignment explanation
Indices: 1415137--1415877 Score: 845
Period size: 28 Copynumber: 25.6 Consensus size: 29
1415127 AAGAACTTCC
*
1415137 GTCAGTGGCAC-CCTTTCAAAGCCCACAA
1 GTCAGTGGCACTCTTTTCAAAGCCCACAA
* * *
1415165 GTCAGTAGCAC-CCTTTCAAAGCTCACAA
1 GTCAGTGGCACTCTTTTCAAAGCCCACAA
*
1415193 GCCAGTGGCACTCTTTTCAAAGCCCACAA
1 GTCAGTGGCACTCTTTTCAAAGCCCACAA
* *
1415222 GTCAGTGGCA-TCCTTTCAAAGCCCATAA
1 GTCAGTGGCACTCTTTTCAAAGCCCACAA
1415250 GTCAGTGGCAC-CTTTTCAAAGCCCACAA
1 GTCAGTGGCACTCTTTTCAAAGCCCACAA
*
1415278 GTCAGTGGCACTCTTTTCAAAACCCACAA
1 GTCAGTGGCACTCTTTTCAAAGCCCACAA
* *
1415307 GTTAGTGGTA-TCTTTTCAAAGCCCACACGA
1 GTCAGTGGCACTCTTTTCAAAGCCCACA--A
* *
1415337 GTCGGTGGTAAC-CTTTTCAAAGCCCACAA
1 GTCAGTGG-CACTCTTTTCAAAGCCCACAA
* *
1415366 GTCAGTGGCACTTTTTTTAAAGCCCACAA
1 GTCAGTGGCACTCTTTTCAAAGCCCACAA
* *
1415395 GTTAGTGGCA-TCTTTTTAAAGCCCACACGA
1 GTCAGTGGCACTCTTTTCAAAGCCCACA--A
*
1415425 GTCGGTGGCAAC-CTTTTCAAAGCCCACAA
1 GTCAGTGGC-ACTCTTTTCAAAGCCCACAA
*
1415454 GTCAGTGGCACTCTTTTCAAAGCCCATAA
1 GTCAGTGGCACTCTTTTCAAAGCCCACAA
*
1415483 GTTAGTGGCA-TCTTTTCAAAGCCCACACGA
1 GTCAGTGGCACTCTTTTCAAAGCCCACA--A
*
1415513 GTCGGTGGCAAC-CTTTTCAAAGCCCACAA
1 GTCAGTGGC-ACTCTTTTCAAAGCCCACAA
*
1415542 GTCAGTGGCA-TCCTTTCAAAGCCCACAA
1 GTCAGTGGCACTCTTTTCAAAGCCCACAA
* * *
1415570 GTCCGTGGCAC-CCTTCCAAAGCCCACAA
1 GTCAGTGGCACTCTTTTCAAAGCCCACAA
1415598 GTCAGTGGCACTCTTTTCAAAGCCCACAA
1 GTCAGTGGCACTCTTTTCAAAGCCCACAA
*
1415627 GTCAATGGCA-TCTTTTCAAAGCCCACACGA
1 GTCAGTGGCACTCTTTTCAAAGCCCACA--A
*
1415657 GTCGGTGGCAACTCTTTTCAAAGCCCACAA
1 GTCAGTGGC-ACTCTTTTCAAAGCCCACAA
* * *
1415687 GTCAGTGGCA-TCCTTTCAAAGCCTACGA
1 GTCAGTGGCACTCTTTTCAAAGCCCACAA
*
1415715 GTCGGTGGCAACTCTTTTCAAAGCCCACAA
1 GTCAGTGGC-ACTCTTTTCAAAGCCCACAA
* *
1415745 GTCAGTGGCA-TCCTTTCAAAGCCCACGA
1 GTCAGTGGCACTCTTTTCAAAGCCCACAA
* * *
1415773 GTCAGTGGCAC-CCTTTCAAAGCCTACCA
1 GTCAGTGGCACTCTTTTCAAAGCCCACAA
*
1415801 GTCAGTGGCAC-CCTTTCAAAGCCCACACAA
1 GTCAGTGGCACTCTTTTCAAAG-CC-CACAA
* **
1415831 GTCAGTGGCA-TCCTTTCAAAGCCCATGA
1 GTCAGTGGCACTCTTTTCAAAGCCCACAA
1415859 GTC-GATGGCAACTCTTTTC
1 GTCAG-TGGC-ACTCTTTTC
1415878 GGTGGCAACT
Statistics
Matches: 619, Mismatches: 61, Indels: 64
0.83 0.08 0.09
Matches are distributed among these distances:
27 1 0.00
28 303 0.49
29 155 0.25
30 92 0.15
31 51 0.08
32 17 0.03
ACGTcount: A:0.27, C:0.30, G:0.19, T:0.24
Consensus pattern (29 bp):
GTCAGTGGCACTCTTTTCAAAGCCCACAA
Found at i:1415226 original size:57 final size:57
Alignment explanation
Indices: 1415137--1416486 Score: 1394
Period size: 57 Copynumber: 23.7 Consensus size: 57
1415127 AAGAACTTCC
* * *
1415137 GTCAGTGGCAC-CCTTTCAAAGCCCACAAGTCAGTAGCACCCTTTCAAAGCTCACAA
1 GTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAA
* * *
1415193 GCCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCATAA
1 GTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAA
* *
1415250 GTCAGTGGCAC-CTTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAACCCACAA
1 GTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCAC-CCTTTCAAAGCCCACAA
* * * * *
1415307 GTTAGTGGTA-TCTTTTCAAAGCCCACACGAGTCGGTGGTAACCTTTTCAAAGCCCACAA
1 GTCAGTGGCACTCTTTTCAAAGCCCACA--AGTCAGTGG-CACCCTTTCAAAGCCCACAA
* * * * * *
1415366 GTCAGTGGCACTTTTTTTAAAGCCCACAAGTTAGTGGCATCTTTTTAAAGCCCACACGA
1 GTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACA--A
* * *
1415425 GTCGGTGGCAAC-CTTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCATAA
1 GTCAGTGGC-ACTCTTTTCAAAGCCCACAAGTCAGTGGCAC-CCTTTCAAAGCCCACAA
* * *
1415483 GTTAGTGGCA-TCTTTTCAAAGCCCACACGAGTCGGTGGCAACCTTTTCAAAGCCCACAA
1 GTCAGTGGCACTCTTTTCAAAGCCCACA--AGTCAGTGGC-ACCCTTTCAAAGCCCACAA
* * *
1415542 GTCAGTGGCA-TCCTTTCAAAGCCCACAAGTCCGTGGCACCCTTCCAAAGCCCACAA
1 GTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAA
* * *
1415598 GTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAATGGCATCTTTTCAAAGCCCACACGA
1 GTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACA--A
* * * *
1415657 GTCGGTGGCAACTCTTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCTACGA
1 GTCAGTGGC-ACTCTTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAA
* * *
1415715 GTCGGTGGCAACTCTTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACGA
1 GTCAGTGGC-ACTCTTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAA
* * *
1415773 GTCAGTGGCAC-CCTTTCAAAGCCTACCAGTCAGTGGCACCCTTTCAAAGCCCACACAA
1 GTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAG-CC-CACAA
* ** *
1415831 GTCAGTGGCA-TCCTTTCAAAGCCCATGAGTC-GATGGCAACTCTTT------------
1 GTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAG-TGGC-ACCCTTTCAAAGCCCACAA
* * ** **
1415876 -TCGGTGGCAACTATTTTCAAAGCCCACAAGTCAGTGGCATTCTTTCAAAGCCCATGA
1 GTCAGTGGC-ACTCTTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAA
* * * *
1415933 GTCAGTGGCAC-CCTTTCAAAGCCCACTAGTCAATGGCACCCTTTCAAAGCCCACCA
1 GTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAA
* * *
1415989 GTCAGTGGCACAC-TTTCAAAGCCCACAAGT-AATGGCACTCTTTCAAAGCCCACAA
1 GTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAA
* * * * **
1416044 GTCAGTGGCAC-CCTTTCAAAGCCCACAAGTTAGTGGTACTCTTTTCAAAGCATACAA
1 GTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCAC-CCTTTCAAAGCCCACAA
* * * *
1416101 GTTAGTGGCAC-CCTTTCAAAGCCCACAAGT-AATGGCACTCTTTCAAAGCCCACAA
1 GTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAA
*
1416156 GTCAGTGGCAC-CCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAA
1 GTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAA
* * * *
1416212 GTCAGTGGTACTCTTTTCAAAGCCTACAAGTTAGTGGCACCCTTTCAAAGCTCACAA
1 GTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAA
* * * *
1416269 GTCAGTGGCACTCTTTTCAAAGCCCACAAGTTAGTGGCATCCTTTTAAAGCCCAAAA
1 GTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAA
* * * * *
1416326 ATTAGTGGCAC-CCTTTCAAAGCCCACAAGTTAGTGGCACTCTTTTCAAAGCCCACAA
1 GTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCAC-CCTTTCAAAGCCCACAA
* * * * * *
1416383 GTTAGTGGCACTCTTTTCAAAGCCTACATACT-AGTGGTAACTCTTTTCAAAGCCCACCCGA
1 GTCAGTGGCACTCTTTTCAAAGCCCACA-AGTCAGTGG-CAC-CCTTTCAAAGCCCA--CAA
* * *
1416444 GTCGGTGGCAACTCTTTTCAAACCCCACACAAGTTAGTGGCAC
1 GTCAGTGGC-ACTCTTTTCAAA-GCC-CACAAGTCAGTGGCAC
1416487 TTTCTTTAAA
Statistics
Matches: 1111, Mismatches: 127, Indels: 105
0.83 0.09 0.08
Matches are distributed among these distances:
44 7 0.01
45 7 0.01
46 21 0.02
47 1 0.00
54 1 0.00
55 93 0.08
56 233 0.21
57 344 0.31
58 142 0.13
59 149 0.13
60 78 0.07
61 9 0.01
62 12 0.01
63 6 0.01
64 8 0.01
ACGTcount: A:0.28, C:0.30, G:0.18, T:0.24
Consensus pattern (57 bp):
GTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAA
Found at i:1415392 original size:88 final size:87
Alignment explanation
Indices: 1415137--1415855 Score: 872
Period size: 88 Copynumber: 8.3 Consensus size: 87
1415127 AAGAACTTCC
* * * * * *
1415137 GTCAGTGGCACCCTTTCAAAGCCCACA--AGTCAGTAGCACCCTTTCAAAGCTCACAAGCCAGTG
1 GTCAGTGGCATCCTTTCAAAGCCCACACGAGTCAGTGGAACCTTTTCAAAGCCCACAAGTCAGTG
1415200 GCACTCTTTTCAAAGCCCACAA
66 GCACTCTTTTCAAAGCCCACAA
* *
1415222 GTCAGTGGCATCCTTTCAAAGCCCATA--AGTCAGTGGCACCTTTTCAAAGCCCACAAGTCAGTG
1 GTCAGTGGCATCCTTTCAAAGCCCACACGAGTCAGTGGAACCTTTTCAAAGCCCACAAGTCAGTG
*
1415285 GCACTCTTTTCAAAACCCACAA
66 GCACTCTTTTCAAAGCCCACAA
* * * *
1415307 GTTAGTGGTATCTTTTCAAAGCCCACACGAGTCGGTGGTAACCTTTTCAAAGCCCACAAGTCAGT
1 GTCAGTGGCATCCTTTCAAAGCCCACACGAGTCAGTGG-AACCTTTTCAAAGCCCACAAGTCAGT
* *
1415372 GGCACTTTTTTTAAAGCCCACAA
65 GGCACTCTTTTCAAAGCCCACAA
* * * *
1415395 GTTAGTGGCATCTTTTTAAAGCCCACACGAGTCGGTGGCAACCTTTTCAAAGCCCACAAGTCAGT
1 GTCAGTGGCATCCTTTCAAAGCCCACACGAGTCAGTGG-AACCTTTTCAAAGCCCACAAGTCAGT
*
1415460 GGCACTCTTTTCAAAGCCCATAA
65 GGCACTCTTTTCAAAGCCCACAA
* * *
1415483 GTTAGTGGCATCTTTTCAAAGCCCACACGAGTCGGTGGCAACCTTTTCAAAGCCCACAAGTCAGT
1 GTCAGTGGCATCCTTTCAAAGCCCACACGAGTCAGTGG-AACCTTTTCAAAGCCCACAAGTCAGT
*
1415548 GGCA-TCCTTTCAAAGCCCACAA
65 GGCACTCTTTTCAAAGCCCACAA
* * * * *
1415570 GTCCGTGGCACCCTTCCAAAGCCCACA--AGTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAAT
1 GTCAGTGGCATCCTTTCAAAGCCCACACGAGTCAGTGGAAC-CTTTTCAAAGCCCACAAGTCAGT
1415633 GGCA-TCTTTTCAAAGCCCACACGA
65 GGCACTCTTTTCAAAGCCCACA--A
* * * * * *
1415657 GTCGGTGGCAACTCTTTTCAAAGCCCACA--AGTCAGTGGCATCC-TTTCAAAGCCTACGAGTCG
1 GTCAGTGGC-A-TCCTTTCAAAGCCCACACGAGTCAGTGG-AACCTTTTCAAAGCCCACAAGTCA
1415719 GTGGCAACTCTTTTCAAAGCCCACAA
63 GTGGC-ACTCTTTTCAAAGCCCACAA
* * * *
1415745 GTCAGTGGCATCCTTTCAAAG-CC-CACGAGTCAGTGGCACCCTTTCAAAGCCTACCAGTCAGTG
1 GTCAGTGGCATCCTTTCAAAGCCCACACGAGTCAGTGGAACCTTTTCAAAGCCCACAAGTCAGTG
*
1415808 GCAC-CCTTTCAAAGCCCACACAA
66 GCACTCTTTTCAAAG-CC-CACAA
1415831 GTCAGTGGCATCCTTTCAAAGCCCA
1 GTCAGTGGCATCCTTTCAAAGCCCA
1415856 TGAGTCGATG
Statistics
Matches: 565, Mismatches: 51, Indels: 33
0.87 0.08 0.05
Matches are distributed among these distances:
84 13 0.02
85 159 0.28
86 67 0.12
87 58 0.10
88 225 0.40
89 25 0.04
90 18 0.03
ACGTcount: A:0.28, C:0.31, G:0.18, T:0.23
Consensus pattern (87 bp):
GTCAGTGGCATCCTTTCAAAGCCCACACGAGTCAGTGGAACCTTTTCAAAGCCCACAAGTCAGTG
GCACTCTTTTCAAAGCCCACAA
Found at i:1415923 original size:28 final size:28
Alignment explanation
Indices: 1415890--1416406 Score: 669
Period size: 28 Copynumber: 18.4 Consensus size: 28
1415880 TGGCAACTAT
**
1415890 TTTCAAAGCCCACAAGTCAGTGGCATTC
1 TTTCAAAGCCCACAAGTCAGTGGCACCC
**
1415918 TTTCAAAGCCCATGAGTCAGTGGCACCC
1 TTTCAAAGCCCACAAGTCAGTGGCACCC
* *
1415946 TTTCAAAGCCCACTAGTCAATGGCACCC
1 TTTCAAAGCCCACAAGTCAGTGGCACCC
* *
1415974 TTTCAAAGCCCACCAGTCAGTGGCACAC
1 TTTCAAAGCCCACAAGTCAGTGGCACCC
* *
1416002 TTTCAAAGCCCACAAGT-AATGGCACTC
1 TTTCAAAGCCCACAAGTCAGTGGCACCC
1416029 TTTCAAAGCCCACAAGTCAGTGGCACCC
1 TTTCAAAGCCCACAAGTCAGTGGCACCC
* * *
1416057 TTTCAAAGCCCACAAGTTAGTGGTACTCT
1 TTTCAAAGCCCACAAGTCAGTGGCAC-CC
** *
1416086 TTTCAAAGCATACAAGTTAGTGGCACCC
1 TTTCAAAGCCCACAAGTCAGTGGCACCC
* *
1416114 TTTCAAAGCCCACAAGT-AATGGCACTC
1 TTTCAAAGCCCACAAGTCAGTGGCACCC
1416141 TTTCAAAGCCCACAAGTCAGTGGCACCC
1 TTTCAAAGCCCACAAGTCAGTGGCACCC
1416169 TTTCAAAGCCCACAAGTCAGTGGCACCC
1 TTTCAAAGCCCACAAGTCAGTGGCACCC
* *
1416197 TTTCAAAGCCCACAAGTCAGTGGTACTCT
1 TTTCAAAGCCCACAAGTCAGTGGCAC-CC
* *
1416226 TTTCAAAGCCTACAAGTTAGTGGCACCC
1 TTTCAAAGCCCACAAGTCAGTGGCACCC
* *
1416254 TTTCAAAGCTCACAAGTCAGTGGCACTCT
1 TTTCAAAGCCCACAAGTCAGTGGCAC-CC
* *
1416283 TTTCAAAGCCCACAAGTTAGTGGCATCC
1 TTTCAAAGCCCACAAGTCAGTGGCACCC
* * * *
1416311 TTTTAAAGCCCAAAAATTAGTGGCACCC
1 TTTCAAAGCCCACAAGTCAGTGGCACCC
* *
1416339 TTTCAAAGCCCACAAGTTAGTGGCACTCT
1 TTTCAAAGCCCACAAGTCAGTGGCAC-CC
* *
1416368 TTTCAAAGCCCACAAGTTAGTGGCACTCT
1 TTTCAAAGCCCACAAGTCAGTGGCAC-CC
1416397 TTTCAAAGCC
1 TTTCAAAGCC
1416407 TACATACTAG
Statistics
Matches: 433, Mismatches: 50, Indels: 11
0.88 0.10 0.02
Matches are distributed among these distances:
27 50 0.12
28 271 0.63
29 112 0.26
ACGTcount: A:0.29, C:0.30, G:0.17, T:0.24
Consensus pattern (28 bp):
TTTCAAAGCCCACAAGTCAGTGGCACCC
Found at i:1415980 original size:160 final size:158
Alignment explanation
Indices: 1415716--1416013 Score: 508
Period size: 160 Copynumber: 1.9 Consensus size: 158
1415706 AGCCTACGAG
*
1415716 TCGGTGGCAACTCTTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACGAGTCAGTGG
1 TCGGTGGCAACTATTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACGAGTCAGTGG
* *
1415781 CACCCTTTCAAAGCCTACCAGTCAGTGGCACCCTTTCAAAGCCCACACAAGTCAGTGGCATC-CT
66 CACCCTTTCAAAGCCCACCAGTCAATGGCACCCTTTCAAAGCCCAC-C-AGTCAGTGGCA-CACT
1415845 TTCAAAGCCCATGAGTCGATGGCAACTCTTT
128 TTCAAAGCCCATGAGTCGATGGCAACTCTTT
* *
1415876 TCGGTGGCAACTATTTTCAAAGCCCACAAGTCAGTGGCATTCTTTCAAAGCCCATGAGTCAGTGG
1 TCGGTGGCAACTATTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACGAGTCAGTGG
*
1415941 CACCCTTTCAAAGCCCACTAGTCAATGGCACCCTTTCAAAGCCCACCAGTCAGTGGCACACTTTC
66 CACCCTTTCAAAGCCCACCAGTCAATGGCACCCTTTCAAAGCCCACCAGTCAGTGGCACACTTTC
1416006 AAAGCCCA
131 AAAGCCCA
1416014 CAAGTAATGG
Statistics
Matches: 131, Mismatches: 6, Indels: 4
0.93 0.04 0.03
Matches are distributed among these distances:
157 1 0.01
158 24 0.18
159 1 0.01
160 105 0.80
ACGTcount: A:0.27, C:0.32, G:0.19, T:0.23
Consensus pattern (158 bp):
TCGGTGGCAACTATTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACGAGTCAGTGG
CACCCTTTCAAAGCCCACCAGTCAATGGCACCCTTTCAAAGCCCACCAGTCAGTGGCACACTTTC
AAAGCCCATGAGTCGATGGCAACTCTTT
Found at i:1416260 original size:85 final size:85
Alignment explanation
Indices: 1415879--1416406 Score: 674
Period size: 85 Copynumber: 6.2 Consensus size: 85
1415869 ACTCTTTTCG
* ** **
1415879 GTGGCAACTATTTTCAAAGCCCACAAGTCAGTGGCATTCTTTCAAAGCCCATGAGTCAGTGGCAC
1 GTGGC-ACTCTTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCAC
*
1415944 CCTTTCAAAGCCCACTAGTCA
65 CCTTTCAAAGCCCACAAGTCA
* * * * * *
1415965 ATGGCAC-CCTTTCAAAGCCCACCAGTCAGTGGCACACTTTCAAAGCCCACAAGT-AATGGCACT
1 GTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACC
1416028 CTTTCAAAGCCCACAAGTCA
66 CTTTCAAAGCCCACAAGTCA
* * * * ** *
1416048 GTGGCAC-CCTTTCAAAGCCCACAAGTTAGTGGTACTCTTTTCAAAGCATACAAGTTAGTGGCAC
1 GTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCAC-CCTTTCAAAGCCCACAAGTCAGTGGCAC
1416112 CCTTTCAAAGCCCACAAGT-A
65 CCTTTCAAAGCCCACAAGTCA
*
1416132 ATGGCACTC-TTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACC
1 GTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACC
1416196 CTTTCAAAGCCCACAAGTCA
66 CTTTCAAAGCCCACAAGTCA
* * * *
1416216 GTGGTACTCTTTTCAAAGCCTACAAGTTAGTGGCACCCTTTCAAAGCTCACAAGTCAGTGGCACT
1 GTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCAC-
* *
1416281 CTTTTCAAAGCCCACAAGTTA
65 CCTTTCAAAGCCCACAAGTCA
* * * *
1416302 GTGGCA-TCCTTTT-AAAGCCCAAAAATTAGTGGCACCCTTTCAAAGCCCACAAGTTAGTGGCAC
1 GTGGCACT-CTTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCAC
* *
1416365 TCTTTTCAAAGCCCACAAGTTA
65 -CCTTTCAAAGCCCACAAGTCA
1416387 GTGGCACTCTTTTCAAAGCC
1 GTGGCACTCTTTTCAAAGCC
1416407 TACATACTAG
Statistics
Matches: 392, Mismatches: 41, Indels: 18
0.87 0.09 0.04
Matches are distributed among these distances:
83 100 0.26
84 94 0.24
85 158 0.40
86 40 0.10
ACGTcount: A:0.29, C:0.30, G:0.17, T:0.24
Consensus pattern (85 bp):
GTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACC
CTTTCAAAGCCCACAAGTCA
Found at i:1416462 original size:32 final size:29
Alignment explanation
Indices: 1415879--1416487 Score: 490
Period size: 28 Copynumber: 21.3 Consensus size: 29
1415869 ACTCTTTTCG
*
1415879 GTGGCAACTATTTTCAAAGCCCA-CAAGTCA
1 GTGGC-ACTCTTTTCAAAGCCCACCAAGT-A
* **
1415909 GTGGCATTC-TTTCAAAGCCCA-TGAGTCA
1 GTGGCACTCTTTTCAAAGCCCACCAAGT-A
* *
1415937 GTGGCAC-CCTTTCAAAGCCCA-CTAGTCA
1 GTGGCACTCTTTTCAAAGCCCACCAAGT-A
* *
1415965 ATGGCAC-CCTTTCAAAGCCCACC-AGTCA
1 GTGGCACTCTTTTCAAAGCCCACCAAGT-A
*
1415993 GTGGCACAC-TTTCAAAGCCCA-CAAGTA
1 GTGGCACTCTTTTCAAAGCCCACCAAGTA
*
1416020 ATGGCACTC-TTTCAAAGCCCA-CAAGTCA
1 GTGGCACTCTTTTCAAAGCCCACCAAGT-A
*
1416048 GTGGCAC-CCTTTCAAAGCCCA-CAAGTTA
1 GTGGCACTCTTTTCAAAGCCCACCAAG-TA
* **
1416076 GTGGTACTCTTTTCAAAGCATA-CAAGTTA
1 GTGGCACTCTTTTCAAAGCCCACCAAG-TA
*
1416105 GTGGCAC-CCTTTCAAAGCCCA-CAAGTA
1 GTGGCACTCTTTTCAAAGCCCACCAAGTA
*
1416132 ATGGCACTC-TTTCAAAGCCCA-CAAGTCA
1 GTGGCACTCTTTTCAAAGCCCACCAAGT-A
*
1416160 GTGGCAC-CCTTTCAAAGCCCA-CAAGTCA
1 GTGGCACTCTTTTCAAAGCCCACCAAGT-A
*
1416188 GTGGCAC-CCTTTCAAAGCCCA-CAAGTCA
1 GTGGCACTCTTTTCAAAGCCCACCAAGT-A
* *
1416216 GTGGTACTCTTTTCAAAGCCTA-CAAGTTA
1 GTGGCACTCTTTTCAAAGCCCACCAAG-TA
* *
1416245 GTGGCAC-CCTTTCAAAGCTCA-CAAGTCA
1 GTGGCACTCTTTTCAAAGCCCACCAAGT-A
1416273 GTGGCACTCTTTTCAAAGCCCA-CAAGTTA
1 GTGGCACTCTTTTCAAAGCCCACCAAG-TA
** *
1416302 GTGGCA-TCCTTTT-AAAGCCCAAAAATTA
1 GTGGCACT-CTTTTCAAAGCCCACCAAGTA
*
1416330 GTGGCAC-CCTTTCAAAGCCCA-CAAGTTA
1 GTGGCACTCTTTTCAAAGCCCACCAAG-TA
1416358 GTGGCACTCTTTTCAAAGCCCA-CAAGTTA
1 GTGGCACTCTTTTCAAAGCCCACCAAG-TA
* *
1416387 GTGGCACTCTTTTCAAAGCCTA-CATACTA
1 GTGGCACTCTTTTCAAAGCCCACCA-AGTA
* * *
1416416 GTGGTAACTCTTTTCAAAGCCCACCCGAGTCG
1 GTGG-CACTCTTTTCAAAGCCCA-CCAAGT-A
*
1416448 GTGGCAACTCTTTTCAAACCCCACACAAGTTA
1 GTGGC-ACTCTTTTCAAAGCCCAC-CAAG-TA
1416480 GTGGCACT
1 GTGGCACT
1416488 TTCTTTAAAA
Statistics
Matches: 501, Mismatches: 48, Indels: 59
0.82 0.08 0.10
Matches are distributed among these distances:
27 61 0.12
28 249 0.50
29 131 0.26
30 24 0.05
31 6 0.01
32 29 0.06
33 1 0.00
ACGTcount: A:0.29, C:0.30, G:0.17, T:0.24
Consensus pattern (29 bp):
GTGGCACTCTTTTCAAAGCCCACCAAGTA
Found at i:1417241 original size:20 final size:20
Alignment explanation
Indices: 1417216--1417270 Score: 83
Period size: 20 Copynumber: 2.8 Consensus size: 20
1417206 TATTACCCAG
*
1417216 ATGTATCGATACATTTTTCA
1 ATGTATCGATACATTTATCA
* *
1417236 ATGTATCGATACATGTATGA
1 ATGTATCGATACATTTATCA
1417256 ATGTATCGATACATT
1 ATGTATCGATACATT
1417271 CTGTCTTTTT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.33, C:0.13, G:0.15, T:0.40
Consensus pattern (20 bp):
ATGTATCGATACATTTATCA
Found at i:1418222 original size:19 final size:19
Alignment explanation
Indices: 1418188--1418226 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 19
1418178 ACCATGCATT
*
1418188 TTTTTATTATGTTTCATGCA
1 TTTTTAATATGTTTCA-GCA
1418208 TTTTTAATATG-TTCAGCA
1 TTTTTAATATGTTTCAGCA
1418226 T
1 T
1418227 CTCATTGAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 4 0.22
19 4 0.22
20 10 0.56
ACGTcount: A:0.23, C:0.10, G:0.10, T:0.56
Consensus pattern (19 bp):
TTTTTAATATGTTTCAGCA
Found at i:1421339 original size:165 final size:165
Alignment explanation
Indices: 1420976--1421463 Score: 600
Period size: 165 Copynumber: 3.0 Consensus size: 165
1420966 AATTACGAGA
* ** * * ** *
1420976 TTTTCTTCTCCGTAAAACTTTT-GGGAAGA-TTTTCATGGGTTTAAAATTTTAAAAATTCATCAA
1 TTTTCTACTCCGTAAATTTTTTCGGGAGGATTTTTC-TGAGTTTTGAATTTTTAAAATTCATCAA
* * *
1421039 ATATTTTTATCTAATTT-ATATTAAACT--ATTTTTCAGAAATTCATTCATTTTCATAAGTTTTT
65 ATATTATTAT-TAATTTCATATTAAA-TAAATTTTT-AAAAATTCATTCATTTTCATGAGTTTTT
* * *
1421101 GAATTTTTTCTTAAAATTTTCCTGTTT-TCGAAATATGGAG
127 G-ATTTTTTCTTGAAATTTCCCT-TTTCTCGAAATACGGAG
*
1421141 TTTTCTACTCCGTAAATTTTTTCGGGAGGATTTTTCTTG-GTTTTGAATTTTTAAAATTCATAAA
1 TTTTCTACTCCGTAAATTTTTTCGGGAGGATTTTTC-TGAGTTTTGAATTTTTAAAATTCATCAA
* * *
1421205 ATATTATTATTTATTTCATATTAAATAAATATTTAAAAATGCATTCATTTTCATGAGTTTTT-AT
65 ATATTATTATTAATTTCATATTAAATAAATTTTTAAAAATTCATTCATTTTCATGAGTTTTTGA-
*
1421269 TTTTTTCTTGAAATTACCCTATTTCT-GAAATACGGAG
129 TTTTTTCTTGAAATTTCCCT-TTTCTCGAAATACGGAG
* * *
1421306 TTTTTTACTCCGTAAATTTTTTCGGGGGGATTTTTCTGAGTTTTTAATTTTTAAAAATT-ATCAA
1 TTTTCTACTCCGTAAATTTTTTCGGGAGGATTTTTCTGAGTTTTGAATTTTT-AAAATTCATCAA
*
1421370 ATATTATTATTAATTTCATATTAAATAAGTTTTTAAAAATTCATTCATTTTCATGAGTTTTTGAT
65 ATATTATTATTAATTTCATATTAAATAAATTTTTAAAAATTCATTCATTTTCATGAGTTTTTGAT
*
1421435 TTTTTCTTGAAATTTCCCTTTTCCCGAAA
130 TTTTTCTTGAAATTTCCCTTTTCTCGAAA
1421464 AACCAAATTT
Statistics
Matches: 282, Mismatches: 30, Indels: 22
0.84 0.09 0.07
Matches are distributed among these distances:
164 7 0.02
165 186 0.66
166 77 0.27
167 12 0.04
ACGTcount: A:0.30, C:0.11, G:0.10, T:0.50
Consensus pattern (165 bp):
TTTTCTACTCCGTAAATTTTTTCGGGAGGATTTTTCTGAGTTTTGAATTTTTAAAATTCATCAAA
TATTATTATTAATTTCATATTAAATAAATTTTTAAAAATTCATTCATTTTCATGAGTTTTTGATT
TTTTCTTGAAATTTCCCTTTTCTCGAAATACGGAG
Found at i:1422104 original size:11 final size:12
Alignment explanation
Indices: 1422086--1422141 Score: 69
Period size: 12 Copynumber: 4.7 Consensus size: 12
1422076 AGTTTCAGCT
*
1422086 GAAAAAAAGAGA
1 GAAAAAAAGAAA
*
1422098 GAAAAAAAGAGA
1 GAAAAAAAGAAA
*
1422110 GTAAGAAAAGAAA
1 G-AAAAAAAGAAA
1422123 G-AAAAAAGAAA
1 GAAAAAAAGAAA
1422134 GAAAAAAA
1 GAAAAAAA
1422142 ATTAGAAAAC
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
11 10 0.26
12 19 0.49
13 10 0.26
ACGTcount: A:0.77, C:0.00, G:0.21, T:0.02
Consensus pattern (12 bp):
GAAAAAAAGAAA
Found at i:1430043 original size:52 final size:52
Alignment explanation
Indices: 1429965--1430092 Score: 215
Period size: 52 Copynumber: 2.5 Consensus size: 52
1429955 CGAAATATGA
* *
1429965 AAATTTGCCTGCATGTATCGATACA-TTTAATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTTAA-AATGTATCGATACATCTCGGC
1430017 AAATTTGCCTGCATGTATCGATACATTTTAAAATGTATCGATACATCTCGGC
1 AAATTTGCCTGCATGTATCGATACATTTTAAAATGTATCGATACATCTCGGC
1430069 AAA-TTGCCTGCATGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACA
1430093 AAGATCAGTG
Statistics
Matches: 73, Mismatches: 2, Indels: 3
0.94 0.03 0.04
Matches are distributed among these distances:
51 21 0.29
52 47 0.64
53 5 0.07
ACGTcount: A:0.30, C:0.19, G:0.17, T:0.34
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTTTAAAATGTATCGATACATCTCGGC
Found at i:1430119 original size:13 final size:13
Alignment explanation
Indices: 1430101--1430125 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1430091 CAAAGATCAG
1430101 TGTATCGATACAA
1 TGTATCGATACAA
1430114 TGTATCGATACA
1 TGTATCGATACA
1430126 TTTGAGTAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1430203 original size:33 final size:33
Alignment explanation
Indices: 1430166--1430232 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
1430156 AGTAGCTTAA
1430166 ATTGTATCGATACAAAAAAATATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
* ***
1430199 ATTGTATCGATACAACATTTTATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
1430232 A
1 A
1430233 AATCGTTGAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.40, C:0.13, G:0.12, T:0.34
Consensus pattern (33 bp):
ATTGTATCGATACAAAAAAATATGTATCGATAC
Found at i:1430206 original size:13 final size:13
Alignment explanation
Indices: 1430188--1430212 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1430178 CAAAAAAATA
1430188 TGTATCGATACAT
1 TGTATCGATACAT
1430201 TGTATCGATACA
1 TGTATCGATACA
1430213 ACATTTTATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1441344 original size:78 final size:78
Alignment explanation
Indices: 1441209--1441409 Score: 237
Period size: 78 Copynumber: 2.6 Consensus size: 78
1441199 TCCCATATAA
* * ** *
1441209 CCCTAACGAACATGTGTTAACATGAAAGTT-CTCACATGATCCTAAGAACTCGGTTTTAAGGTAG
1 CCCTAACGAACATGTATCAACACAAAAGTTCCT-ACATGATCCTAAGAACTCGATTTTAAGGTAG
1441273 TATTATTTAAA-TAC
65 TATTA-TTAAAGTAC
* * *
1441287 CCCTAATGGACATGTATCAACACAAAAGTTCCTACATGATCCTAAGAACTTGATTTTAAGGTAGT
1 CCCTAACGAACATGTATCAACACAAAAGTTCCTACATGATCCTAAGAACTCGATTTTAAGGTAGT
1441352 ATTATTAAAGTAC
66 ATTATTAAAGTAC
** * * *
1441365 CTTTAACGAACATGTTTCGACATAAAAGTTCCT-CTATGATCCTAA
1 CCCTAACGAACATGTATCAACACAAAAGTTCCTAC-ATGATCCTAA
1441410 AGTTATGAAA
Statistics
Matches: 105, Mismatches: 15, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
77 6 0.06
78 97 0.92
79 2 0.02
ACGTcount: A:0.35, C:0.19, G:0.14, T:0.32
Consensus pattern (78 bp):
CCCTAACGAACATGTATCAACACAAAAGTTCCTACATGATCCTAAGAACTCGATTTTAAGGTAGT
ATTATTAAAGTAC
Found at i:1441686 original size:18 final size:19
Alignment explanation
Indices: 1441648--1441700 Score: 54
Period size: 19 Copynumber: 2.8 Consensus size: 19
1441638 TAAATGCATG
*
1441648 AATTTACATAAAAATCCCT
1 AATTTACATAAAAATCACT
*
1441667 AATTTACA-AAAAATGACT
1 AATTTACATAAAAATCACT
* *
1441685 AAAATGACATAAAAAT
1 -AATTTACATAAAAAT
1441701 GCATGATATG
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
18 8 0.29
19 14 0.50
20 6 0.21
ACGTcount: A:0.57, C:0.13, G:0.04, T:0.26
Consensus pattern (19 bp):
AATTTACATAAAAATCACT
Found at i:1445670 original size:235 final size:235
Alignment explanation
Indices: 1445259--1445698 Score: 772
Period size: 235 Copynumber: 1.9 Consensus size: 235
1445249 ACTGGTACTG
*
1445259 CTTATATGCTTTCACATTGTCAAGTAGCACCAGCTAGATATGGTCTTATGTCAAATTAGGCTTGA
1 CTTATATGCTTTCACATTGTCAAGTAGCACCAGCTAGATAAGGTCTTATGTCAAATTAGGCTTGA
* * * *
1445324 CCAATCCATTCTTACAACCCCACAACAACTACAGAAATTACATATTATAACATTGATTGGGAGGA
66 CCAATCCATTCTTAAAACCCCACAACAACTACAGAAATTACATATTATAACATTGACTAGAAGGA
* *
1445389 TTGACAAGTTTTGGCCATCTATACATAGGCAATACATTGATTTATGGGACAATCGTGCTAAGAGA
131 TTAACAAGTTTTGACCATCTATACATAGGCAATACATTGATTTATGGGACAATCGTGCTAAGAGA
1445454 TATATTATTGGTATGCTTTCACATATAAGCAATGGTATTA
196 TATATTATTGGTATGCTTTCACATATAAGCAATGGTATTA
* *
1445494 CTTATATGCTTTCACATTGTCAAGTAGCACCATCTAGATAAGGTCTTATGTCATATTAGGCTTGA
1 CTTATATGCTTTCACATTGTCAAGTAGCACCAGCTAGATAAGGTCTTATGTCAAATTAGGCTTGA
**
1445559 CCAATCCATTCTTAAAACCCCACAACAACTACAGAAATTACATATTATAATGTTGACTAGAAGGA
66 CCAATCCATTCTTAAAACCCCACAACAACTACAGAAATTACATATTATAACATTGACTAGAAGGA
*
1445624 TTAACAAGTTTTGACCATCTATACATAGGCAATACATTGATTTATGGGACAATCGTGCTGAGAGA
131 TTAACAAGTTTTGACCATCTATACATAGGCAATACATTGATTTATGGGACAATCGTGCTAAGAGA
1445689 TATATTATTG
196 TATATTATTG
1445699 ACATGCCATT
Statistics
Matches: 193, Mismatches: 12, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
235 193 1.00
ACGTcount: A:0.34, C:0.18, G:0.16, T:0.32
Consensus pattern (235 bp):
CTTATATGCTTTCACATTGTCAAGTAGCACCAGCTAGATAAGGTCTTATGTCAAATTAGGCTTGA
CCAATCCATTCTTAAAACCCCACAACAACTACAGAAATTACATATTATAACATTGACTAGAAGGA
TTAACAAGTTTTGACCATCTATACATAGGCAATACATTGATTTATGGGACAATCGTGCTAAGAGA
TATATTATTGGTATGCTTTCACATATAAGCAATGGTATTA
Found at i:1446900 original size:17 final size:17
Alignment explanation
Indices: 1446878--1446927 Score: 82
Period size: 17 Copynumber: 2.9 Consensus size: 17
1446868 ACGAATTTGA
1446878 ATAATACAATTAATTAG
1 ATAATACAATTAATTAG
*
1446895 ATAATAAAATTAATTAG
1 ATAATACAATTAATTAG
*
1446912 ATATTACAATTAATTA
1 ATAATACAATTAATTA
1446928 ATACAAATTA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 30 1.00
ACGTcount: A:0.54, C:0.04, G:0.04, T:0.38
Consensus pattern (17 bp):
ATAATACAATTAATTAG
Found at i:1447213 original size:32 final size:32
Alignment explanation
Indices: 1447159--1447219 Score: 79
Period size: 32 Copynumber: 1.9 Consensus size: 32
1447149 ATTTCGAATA
* *
1447159 GTTGGAAGCGCTAGTCACAATAGCGTTTTCAC
1 GTTGGAAGAGCTAGTCACAATAGCATTTTCAC
*
1447191 GTTGGAAGAGCTATTTCA-AATAGCATTTT
1 GTTGGAAGAGCTA-GTCACAATAGCATTTT
1447220 TGTATTAAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
32 22 0.88
33 3 0.12
ACGTcount: A:0.28, C:0.16, G:0.23, T:0.33
Consensus pattern (32 bp):
GTTGGAAGAGCTAGTCACAATAGCATTTTCAC
Found at i:1447851 original size:21 final size:21
Alignment explanation
Indices: 1447822--1447861 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
1447812 AAAAAAACTT
1447822 TAATCAATAA-ATTATTTTATC
1 TAATCAATAATATT-TTTTATC
*
1447843 TAATTAATAATATTTTTTA
1 TAATCAATAATATTTTTTA
1447862 AGAATTTCTA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 14 0.82
22 3 0.18
ACGTcount: A:0.42, C:0.05, G:0.00, T:0.53
Consensus pattern (21 bp):
TAATCAATAATATTTTTTATC
Found at i:1448561 original size:16 final size:16
Alignment explanation
Indices: 1448540--1448590 Score: 59
Period size: 17 Copynumber: 3.0 Consensus size: 16
1448530 GATTTTTATA
1448540 TTATATTTATATATTT
1 TTATATTTATATATTT
1448556 TTATATATTATA-ATTAT
1 TTATAT-TTATATATT-T
1448573 TATATATTTATTATATTT
1 T-TATATTTA-TATATTT
1448591 ATACAATAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
16 9 0.30
17 10 0.33
18 8 0.27
19 3 0.10
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (16 bp):
TTATATTTATATATTT
Found at i:1448654 original size:7 final size:7
Alignment explanation
Indices: 1448644--1448671 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
1448634 TATTATATTA
1448644 TTATTTT
1 TTATTTT
1448651 TTATTTT
1 TTATTTT
1448658 TTATTTT
1 TTATTTT
1448665 TTATTTT
1 TTATTTT
1448672 ATAATTTAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.14, C:0.00, G:0.00, T:0.86
Consensus pattern (7 bp):
TTATTTT
Found at i:1448660 original size:29 final size:30
Alignment explanation
Indices: 1448628--1448688 Score: 70
Period size: 29 Copynumber: 2.1 Consensus size: 30
1448618 TTTTAATAAA
* *
1448628 TTTATATATTATATTATTATTT-TTTATTT
1 TTTATATATTATATTATAATTTAATTATTT
* * *
1448657 TTTATTTTTTATTTTATAATTTAATTATTT
1 TTTATATATTATATTATAATTTAATTATTT
1448687 TT
1 TT
1448689 ATTTATGTTA
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
29 18 0.69
30 8 0.31
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (30 bp):
TTTATATATTATATTATAATTTAATTATTT
Found at i:1448688 original size:23 final size:24
Alignment explanation
Indices: 1448658--1448710 Score: 65
Period size: 23 Copynumber: 2.3 Consensus size: 24
1448648 TTTTTATTTT
*
1448658 TTATTTTTTATTT-TATAATTTAA
1 TTATTTTTTATTTATATAATGTAA
* *
1448681 TTA-TTTTTATTTATGTTATGTAA
1 TTATTTTTTATTTATATAATGTAA
1448704 TTATTTT
1 TTATTTT
1448711 ATACATAAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
22 9 0.36
23 13 0.52
24 3 0.12
ACGTcount: A:0.26, C:0.00, G:0.04, T:0.70
Consensus pattern (24 bp):
TTATTTTTTATTTATATAATGTAA
Found at i:1448974 original size:16 final size:16
Alignment explanation
Indices: 1448943--1449000 Score: 55
Period size: 16 Copynumber: 3.6 Consensus size: 16
1448933 AAATTTTTAG
*
1448943 GTCATTTTAAAGTTTGA
1 GTCATTTT-GAGTTTGA
*
1448960 GTCATTTTGAGTTTGG
1 GTCATTTTGAGTTTGA
* *
1448976 GTTATTTCGAGTTTGTA
1 GTCATTTTGAGTTTG-A
1448993 -TCATTTTG
1 GTCATTTTG
1449001 GGTTCGGGTT
Statistics
Matches: 33, Mismatches: 7, Indels: 3
0.77 0.16 0.07
Matches are distributed among these distances:
16 25 0.76
17 8 0.24
ACGTcount: A:0.19, C:0.07, G:0.22, T:0.52
Consensus pattern (16 bp):
GTCATTTTGAGTTTGA
Found at i:1448989 original size:32 final size:32
Alignment explanation
Indices: 1448953--1449014 Score: 90
Period size: 32 Copynumber: 1.9 Consensus size: 32
1448943 GTCATTTTAA
*
1448953 AGTTTG-AGTCATTTTGAGTTTGGGTTATTTCG
1 AGTTTGTA-TCATTTTGAGTTCGGGTTATTTCG
*
1448985 AGTTTGTATCATTTTGGGTTCGGGTTATTT
1 AGTTTGTATCATTTTGAGTTCGGGTTATTT
1449015 TGAATTCTGA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
32 26 0.96
33 1 0.04
ACGTcount: A:0.15, C:0.06, G:0.27, T:0.52
Consensus pattern (32 bp):
AGTTTGTATCATTTTGAGTTCGGGTTATTTCG
Found at i:1449031 original size:32 final size:32
Alignment explanation
Indices: 1448961--1449042 Score: 85
Period size: 32 Copynumber: 2.6 Consensus size: 32
1448951 AAAGTTTGAG
* * *
1448961 TCATTTTGAGTTTGGGTTATTTCGAGTTTGTA
1 TCATTTTGGGTTCGGGTTATTTCGAATTTGTA
*
1448993 TCATTTTGGGTTCGGGTTATTTTGAATTCTG-A
1 TCATTTTGGGTTCGGGTTATTTCGAATT-TGTA
* * *
1449025 TTATTTTAGATTCGGGTT
1 TCATTTTGGGTTCGGGTT
1449043 TAATACTCGG
Statistics
Matches: 42, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
32 40 0.95
33 2 0.05
ACGTcount: A:0.16, C:0.07, G:0.24, T:0.52
Consensus pattern (32 bp):
TCATTTTGGGTTCGGGTTATTTCGAATTTGTA
Found at i:1449892 original size:16 final size:16
Alignment explanation
Indices: 1449873--1449931 Score: 55
Period size: 16 Copynumber: 3.7 Consensus size: 16
1449863 AGTTCAAGTC
*
1449873 ATTTCAAATTCGAATT
1 ATTTCAAATTTGAATT
** *
1449889 ATTTTGAGTTTGAATT
1 ATTTCAAATTTGAATT
* *
1449905 ATTTCGAATTTAAATT
1 ATTTCAAATTTGAATT
*
1449921 ATTTTAAATTT
1 ATTTCAAATTT
1449932 CAAATCAATC
Statistics
Matches: 34, Mismatches: 9, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
16 34 1.00
ACGTcount: A:0.34, C:0.05, G:0.08, T:0.53
Consensus pattern (16 bp):
ATTTCAAATTTGAATT
Found at i:1449909 original size:32 final size:32
Alignment explanation
Indices: 1449840--1449925 Score: 84
Period size: 32 Copynumber: 2.7 Consensus size: 32
1449830 TTATCTAGAC
* * *
1449840 CATTTTAAGTTCAGATTATTTTGAGTTCAAGT
1 CATTTCAAATTCAAATTATTTTGAGTTCAAGT
* *
1449872 CATTTCAAATTCGAATTATTTTGAGTTTGAA-T
1 CATTTCAAATTCAAATTATTTTGAG-TTCAAGT
* * *
1449904 TATTTCGAATTTAAATTATTTT
1 CATTTCAAATTCAAATTATTTT
1449926 AAATTTCAAA
Statistics
Matches: 44, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
32 40 0.91
33 4 0.09
ACGTcount: A:0.30, C:0.08, G:0.12, T:0.50
Consensus pattern (32 bp):
CATTTCAAATTCAAATTATTTTGAGTTCAAGT
Found at i:1449978 original size:5 final size:5
Alignment explanation
Indices: 1449964--1450005 Score: 52
Period size: 5 Copynumber: 8.6 Consensus size: 5
1449954 TTAATTTTTT
*
1449964 ATTAA TTTAA ATTAA ATTAA ATTTAA ATT-A ATT-A ATTAA ATT
1 ATTAA ATTAA ATTAA ATTAA A-TTAA ATTAA ATTAA ATTAA ATT
1450006 TTTTAAATCC
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
4 8 0.24
5 20 0.61
6 5 0.15
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (5 bp):
ATTAA
Found at i:1449986 original size:16 final size:15
Alignment explanation
Indices: 1449911--1449998 Score: 62
Period size: 16 Copynumber: 6.1 Consensus size: 15
1449901 AATTATTTCG
*
1449911 AATTTAAATTATTTTA
1 AATTTAAATTA-ATTA
* *
1449927 AATTTCAAATCAATCA
1 AATTT-AAATTAATTA
*
1449943 ATTTTAAATT-ATT-
1 AATTTAAATTAATTA
*
1449956 AATTT---TTTATT-
1 AATTTAAATTAATTA
1449967 AATTTAAATTAAATTA
1 AATTTAAATT-AATTA
1449983 AATTTAAATTAATTA
1 AATTTAAATTAATTA
1449998 A
1 A
1449999 TTAAATTTTT
Statistics
Matches: 57, Mismatches: 8, Indels: 15
0.71 0.10 0.19
Matches are distributed among these distances:
10 2 0.04
11 8 0.14
13 4 0.07
14 4 0.07
15 13 0.23
16 21 0.37
17 5 0.09
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (15 bp):
AATTTAAATTAATTA
Found at i:1449988 original size:24 final size:21
Alignment explanation
Indices: 1449961--1450011 Score: 52
Period size: 19 Copynumber: 2.4 Consensus size: 21
1449951 TTATTAATTT
1449961 TTTATTAATTTAAATTAAATTAAA
1 TTTATTAA-TT-AATT-AATTAAA
1449985 TTTA--AATTAATTAATTAAA
1 TTTATTAATTAATTAATTAAA
*
1450004 TTTTTTAA
1 TTTATTAA
1450012 ATCCAAATCA
Statistics
Matches: 24, Mismatches: 1, Indels: 7
0.75 0.03 0.22
Matches are distributed among these distances:
19 10 0.42
20 4 0.17
21 4 0.17
22 2 0.08
24 4 0.17
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (21 bp):
TTTATTAATTAATTAATTAAA
Found at i:1450755 original size:46 final size:47
Alignment explanation
Indices: 1450703--1450791 Score: 144
Period size: 46 Copynumber: 1.9 Consensus size: 47
1450693 TGTTTAATAC
*
1450703 AAATTTGAAATATGCAGTTAAACAATTTAAAAAGTAAA-AAATAAAT
1 AAATTTGAAATATGCAGTTAAACAATCTAAAAAGTAAACAAATAAAT
* *
1450749 AAATTTGAATTATGCAGTTAAACAATCTGAAAAGTAAACAAAT
1 AAATTTGAAATATGCAGTTAAACAATCTAAAAAGTAAACAAAT
1450792 TAATTGTTTT
Statistics
Matches: 39, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
46 35 0.90
47 4 0.10
ACGTcount: A:0.55, C:0.07, G:0.10, T:0.28
Consensus pattern (47 bp):
AAATTTGAAATATGCAGTTAAACAATCTAAAAAGTAAACAAATAAAT
Found at i:1454856 original size:20 final size:20
Alignment explanation
Indices: 1454813--1454886 Score: 85
Period size: 20 Copynumber: 3.6 Consensus size: 20
1454803 AAAGTGGTTT
***
1454813 TGTATCGATACATTTCAGGCA
1 TGTATCGATACA-TTCACTAA
* *
1454834 TGTATCGATATATTCACTTA
1 TGTATCGATACATTCACTAA
1454854 TGTATCGATACATTCACTAA
1 TGTATCGATACATTCACTAA
1454874 TTGTATCGATACA
1 -TGTATCGATACA
1454887 AATTGTAAAA
Statistics
Matches: 46, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
20 23 0.50
21 23 0.50
ACGTcount: A:0.31, C:0.18, G:0.14, T:0.38
Consensus pattern (20 bp):
TGTATCGATACATTCACTAA
Found at i:1455429 original size:13 final size:13
Alignment explanation
Indices: 1455397--1455422 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1455387 ATGTCATCTA
1455397 AAATTTAAATTTT
1 AAATTTAAATTTT
1455410 AAATTTAAATTTT
1 AAATTTAAATTTT
1455423 TATTTTATCT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (13 bp):
AAATTTAAATTTT
Found at i:1456043 original size:34 final size:35
Alignment explanation
Indices: 1455938--1456104 Score: 126
Period size: 38 Copynumber: 4.5 Consensus size: 35
1455928 ATAAAAATAA
* **
1455938 AAATAATTATTAAAAGATATTAAATTA-AAATATA-T
1 AAATAATAATTAAAA-A-ATTAAATTATATTTATATT
1455973 ATAATAAATAATTAAAAATTATTAAAATTATATTTATATT
1 A-AAT-AATAATTAAAAA--ATT-AAATTATATTTATATT
* *
1456013 AAATAATAATTAAAAAATT-ATTTATATTTATGTT
1 AAATAATAATTAAAAAATTAAATTATATTTATATT
* *
1456047 AAATGATGATTAAAAATTATTAAAATTATATTTATATTT
1 AAATAATAATTAAAAA--ATT-AAATTATATTTATA-TT
1456086 AAA-AATAAATTAACAAAAT
1 AAATAAT-AATTAA-AAAAT
1456105 AACAATTAAA
Statistics
Matches: 108, Mismatches: 11, Indels: 23
0.76 0.08 0.16
Matches are distributed among these distances:
34 27 0.25
35 1 0.01
36 10 0.09
37 14 0.13
38 33 0.31
39 18 0.17
40 5 0.05
ACGTcount: A:0.56, C:0.01, G:0.02, T:0.41
Consensus pattern (35 bp):
AAATAATAATTAAAAAATTAAATTATATTTATATT
Found at i:1456121 original size:72 final size:72
Alignment explanation
Indices: 1455983--1456121 Score: 169
Period size: 72 Copynumber: 1.9 Consensus size: 72
1455973 ATAATAAATA
** * **
1455983 ATTAAAAATTATTAAAATTATATTTATATTAAATAATAATTAAAAAATTATTTATATTTATGTTA
1 ATTAAAAATTATTAAAATTATATTTATATTAAATAATAATTAAAAAATTATACATATTAAAATTA
1456048 AATGATG
66 AATGATG
1456055 ATTAAAAATTATTAAAATTATATTTATATTTAAA-AATAAATTAACAAAA-TA-ACA-ATTAAAA
1 ATTAAAAATTATTAAAATTATATTTATA-TTAAATAAT-AATTAA-AAAATTATACATATT-AAA
1456116 ATTAAA
62 ATTAAA
1456122 AAAAAATAAG
Statistics
Matches: 58, Mismatches: 5, Indels: 8
0.82 0.07 0.11
Matches are distributed among these distances:
71 3 0.05
72 38 0.66
73 13 0.22
74 4 0.07
ACGTcount: A:0.55, C:0.01, G:0.02, T:0.41
Consensus pattern (72 bp):
ATTAAAAATTATTAAAATTATATTTATATTAAATAATAATTAAAAAATTATACATATTAAAATTA
AATGATG
Found at i:1456577 original size:19 final size:19
Alignment explanation
Indices: 1456561--1456597 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
1456551 TTATTTAATT
1456561 TAATAAATTTAATTTAAAA
1 TAATAAATTTAATTTAAAA
* *
1456580 TATTAAATTAAATTTAAA
1 TAATAAATTTAATTTAAA
1456598 TAAAAATATT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (19 bp):
TAATAAATTTAATTTAAAA
Found at i:1458521 original size:169 final size:168
Alignment explanation
Indices: 1458217--1458555 Score: 543
Period size: 169 Copynumber: 2.0 Consensus size: 168
1458207 AAACTCATGC
1458217 TTCAAACATAGAATTAGAGTTTTTATTACTATTTCTTCCTTGAATTTTAGGGTGATAGAAACGGA
1 TTCAAACATAGAATTAGAGTTTTTATTACTATTTCTTCCTTGAATTTTAGGGTGATAGAAACGGA
*
1458282 AAACAAAATTTTTTCTTAAAACATTACTAATCCTTCACATATTTAAACAATATTATAGCGTTAGT
66 AAACAAAATTTTTTCTTAAAACATTACTAATCCTTCACATATTTAAACAATATTATAGCATTAGT
*
1458347 ATATTGAATCTTAATTAATTTATACGTAAAATATAAAT
131 ATATTGAATCTTAATTAATTTAGACGTAAAATATAAAT
** * * *
1458385 TTCAAACATAGAATTAGAGTTTTTATTTTTATTTCTTCCTTTAATTTTATGGTGATGGAAACGGA
1 TTCAAACATAGAATTAGAGTTTTTATTACTATTTCTTCCTTGAATTTTAGGGTGATAGAAACGGA
* ** * *
1458450 AAGCAATTTTCTTTTCTTAAAAGATTACTAATCCTTCACATATTTAAACAATATTATGGCATTAG
66 AAACAAAATT-TTTTCTTAAAACATTACTAATCCTTCACATATTTAAACAATATTATAGCATTAG
* *
1458515 TATATTGAATCTTAATTAATTTAGACGTAAAGTATATAT
130 TATATTGAATCTTAATTAATTTAGACGTAAAATATAAAT
1458554 TT
1 TT
1458556 TAATCTTATA
Statistics
Matches: 156, Mismatches: 14, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
168 67 0.43
169 89 0.57
ACGTcount: A:0.37, C:0.11, G:0.10, T:0.42
Consensus pattern (168 bp):
TTCAAACATAGAATTAGAGTTTTTATTACTATTTCTTCCTTGAATTTTAGGGTGATAGAAACGGA
AAACAAAATTTTTTCTTAAAACATTACTAATCCTTCACATATTTAAACAATATTATAGCATTAGT
ATATTGAATCTTAATTAATTTAGACGTAAAATATAAAT
Found at i:1458824 original size:225 final size:226
Alignment explanation
Indices: 1458385--1458809 Score: 622
Period size: 225 Copynumber: 1.9 Consensus size: 226
1458375 AAATATAAAT
* ** * * *
1458385 TTCAAACATAGAATTAGAGTTTTTATTTTTATTTCTTCCTTTAATTTTATGGTGATGGAAACGGA
1 TTCAAACATAGAATTAAAGTTTTTATTACTATTTCTTCCTTGAATTTTACGGTGATAGAAACGGA
* **
1458450 AAGCAATTTTCTTTTCTTAAAAGATTACTAATCCTTCACATATTTAAACAATATTATGGCATTAG
66 AAACAATTTTCTTTTCTTAAAAGATTACTAATCCTTCACATATTTAAACAATATTATAACATTAG
* * * *
1458515 TATATTGAATCTTAATTAATTTAGACGTAAAGTATATATTTTAATCTTATAATTTATATAACAAA
131 TATATTGAATCTTAACTAATTTAGAC-TAAAATATATATTTTAATCTCACAATTTATATAACAAA
1458580 TGAAAATCAAATCCAAATTTTCAAACTCATGC
195 TGAAAATCAAATCCAAATTTTCAAACTCATGC
1458612 TTCAAACATAGAATTAAAGTTTTTATTACTATTTCTTCCTTGAATTTTACGGTGATAGAAACGGA
1 TTCAAACATAGAATTAAAGTTTTTATTACTATTTCTTCCTTGAATTTTACGGTGATAGAAACGGA
* * *
1458677 AAACAA-TTT-TTTTCTTAGAAGATTACTAGTCCTTCACATATTTAAATAATATTATAACATTAG
66 AAACAATTTTCTTTTCTTAAAAGATTACTAATCCTTCACATATTTAAACAATATTATAACATTAG
* * **
1458740 TATATTGAATCTTAACTGATTTATA-TAAAATATATGTATTTTAATCTCACAATTTATATAGTAA
131 TATATTGAATCTTAACTAATTTAGACTAAAATATA--TATTTTAATCTCACAATTTATATAACAA
1458804 ATGAAA
194 ATGAAA
1458810 TAGAACTTCA
Statistics
Matches: 176, Mismatches: 20, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
223 8 0.05
225 101 0.57
226 3 0.02
227 64 0.36
ACGTcount: A:0.38, C:0.11, G:0.09, T:0.41
Consensus pattern (226 bp):
TTCAAACATAGAATTAAAGTTTTTATTACTATTTCTTCCTTGAATTTTACGGTGATAGAAACGGA
AAACAATTTTCTTTTCTTAAAAGATTACTAATCCTTCACATATTTAAACAATATTATAACATTAG
TATATTGAATCTTAACTAATTTAGACTAAAATATATATTTTAATCTCACAATTTATATAACAAAT
GAAAATCAAATCCAAATTTTCAAACTCATGC
Found at i:1461012 original size:17 final size:18
Alignment explanation
Indices: 1460975--1461012 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
1460965 TCACTAAAAA
*
1460975 TTTACTCATCACTTTATT
1 TTTACTCATCACTTTAAT
*
1460993 TTTACTCATC-TTTTAAT
1 TTTACTCATCACTTTAAT
1461010 TTT
1 TTT
1461013 TTAAAAAATA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 8 0.44
18 10 0.56
ACGTcount: A:0.21, C:0.18, G:0.00, T:0.61
Consensus pattern (18 bp):
TTTACTCATCACTTTAAT
Found at i:1463942 original size:8 final size:8
Alignment explanation
Indices: 1463929--1463963 Score: 70
Period size: 8 Copynumber: 4.4 Consensus size: 8
1463919 AAATATATTT
1463929 AAAAAATA
1 AAAAAATA
1463937 AAAAAATA
1 AAAAAATA
1463945 AAAAAATA
1 AAAAAATA
1463953 AAAAAATA
1 AAAAAATA
1463961 AAA
1 AAA
1463964 TACGTTTTAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 27 1.00
ACGTcount: A:0.89, C:0.00, G:0.00, T:0.11
Consensus pattern (8 bp):
AAAAAATA
Found at i:1464763 original size:2 final size:2
Alignment explanation
Indices: 1464756--1464785 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
1464746 AAATTTTGAA
1464756 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1464786 TCTGTTTTTA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Done.