Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold7
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: 6555642
ACGTcount: A:0.31, C:0.17, G:0.16, T:0.31
Warning! 349864 characters in sequence are not A, C, G, or T
File 18 of 37
Found at i:3196871 original size:16 final size:16
Alignment explanation
Indices: 3196852--3196899 Score: 51
Period size: 16 Copynumber: 2.9 Consensus size: 16
3196842 AACTTGAATT
*
3196852 TGATTTAAATTTAAGA
1 TGATTTAAATTTAAAA
* *
3196868 TGATTTGAATTAAAAAA
1 TGATTTAAATT-TAAAA
*
3196885 TAATTTAAATTTAAA
1 TGATTTAAATTTAAA
3196900 CGGATCTATT
Statistics
Matches: 25, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
16 13 0.52
17 12 0.48
ACGTcount: A:0.50, C:0.00, G:0.08, T:0.42
Consensus pattern (16 bp):
TGATTTAAATTTAAAA
Found at i:3197173 original size:67 final size:67
Alignment explanation
Indices: 3197094--3197228 Score: 270
Period size: 67 Copynumber: 2.0 Consensus size: 67
3197084 ATTTTCATCT
3197094 AAATGTGAATAGCATAGGACGTGATTACTGGATGGAGAAAATCAGGATACTCTTCCATCCAAACT
1 AAATGTGAATAGCATAGGACGTGATTACTGGATGGAGAAAATCAGGATACTCTTCCATCCAAACT
3197159 AA
66 AA
3197161 AAATGTGAATAGCATAGGACGTGATTACTGGATGGAGAAAATCAGGATACTCTTCCATCCAAACT
1 AAATGTGAATAGCATAGGACGTGATTACTGGATGGAGAAAATCAGGATACTCTTCCATCCAAACT
3197226 AA
66 AA
3197228 A
1 A
3197229 GTTTCTATAC
Statistics
Matches: 68, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
67 68 1.00
ACGTcount: A:0.39, C:0.16, G:0.21, T:0.24
Consensus pattern (67 bp):
AAATGTGAATAGCATAGGACGTGATTACTGGATGGAGAAAATCAGGATACTCTTCCATCCAAACT
AA
Found at i:3198197 original size:89 final size:89
Alignment explanation
Indices: 3198046--3198210 Score: 267
Period size: 89 Copynumber: 1.9 Consensus size: 89
3198036 TTTCAAACTA
* ***
3198046 GTCCACACTGTTGCATACTGGCTCTTGTATCACGTATTGAAGAAAATTGCACAACTCTAGGACTT
1 GTCCACACTGTTGCATACTGGCTCTTCTATCAAACATTGAAGAAAATTGCACAACTCTAGGACTT
3198111 CCCTTGGAACCGCACATTCTGTTT
66 CCCTTGGAACCGCACATTCTGTTT
* *
3198135 GTCCACACTGTTGCATACTGGTTCTTCTGTCAAACATTGAAGAAAATTGCACAACTCTAGGACTT
1 GTCCACACTGTTGCATACTGGCTCTTCTATCAAACATTGAAGAAAATTGCACAACTCTAGGACTT
*
3198200 TCCTTGGAACC
66 CCCTTGGAACC
3198211 TTGCACTCTC
Statistics
Matches: 69, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
89 69 1.00
ACGTcount: A:0.26, C:0.25, G:0.18, T:0.31
Consensus pattern (89 bp):
GTCCACACTGTTGCATACTGGCTCTTCTATCAAACATTGAAGAAAATTGCACAACTCTAGGACTT
CCCTTGGAACCGCACATTCTGTTT
Found at i:3204596 original size:166 final size:164
Alignment explanation
Indices: 3204136--3204654 Score: 583
Period size: 166 Copynumber: 3.2 Consensus size: 164
3204126 TGTAGGGACT
* *
3204136 AAATGAAATTTTCAAAAGTTTAGGGATTAAATAGCAAAATTTAGTTTTTAGAGGTAAAATCATTA
1 AAATGAAATTTTCAAAAGTTTAGGGATTAAAT-G-AAAATTTAATTTTTAGAGGTAAAATCATCA
*
3204201 TTTTAGTCATTTTTAAAGATTTCTATTATTCCTATGGCCTTCCGTAGGGGTATAGAAAATTTT-A
64 TTTTAGTCATTTTTAAAGATTTCTATTATTCCTATGGCCTTTCGTAGGGGTATA-AAAATTTTCA
* * * * * * **
3204265 AAACTTGTCGTATCCTTTTAATTTTTCATCGGGTATG
128 AGACTTTTCGTATCCTTTCAATGTTCCATCGAGTACA
* * **
3204302 AAATAAAATTTTCAAAAGTTTAGAGATTAAAT-AGCA---AA-TTTTAGAGGTAAAATCATCATT
1 AAATGAAATTTTCAAAAGTTTAGGGATTAAATGAAAATTTAATTTTTAGAGGTAAAATCATCATT
** ** *
3204362 TTAG-CA-TTTTAAAGATTAATATTATTCCTATGGCC-TTCTGTAGATGTATAAAAACTTTCAAG
66 TTAGTCATTTTTAAAGATTTCTATTATTCCTATGGCCTTTC-GTAGGGGTATAAAAATTTTCAAG
*
3204424 ACTTTTCGTATCCTTTCGATGTTCCATCGAGTACA
130 ACTTTTCGTATCCTTTCAATGTTCCATCGAGTACA
** *
3204459 AAATGAAATTTTTTAAAGTTTAGGGATTAAATGATAAATTTTAATTTTTAGAGATAAAATCATCA
1 AAATGAAATTTTCAAAAGTTTAGGGATTAAATGA-AAA-TTTAATTTTTAGAGGTAAAATCATCA
* **
3204524 TTTTAGTCATTTTTAAATATTTCTATTATTCCTACAGCCTTTCGTAGGGGTATAAAAATTTTCAA
64 TTTTAGTCATTTTTAAAGATTTCTATTATTCCTATGGCCTTTCGTAGGGGTATAAAAATTTTCAA
* * * * **
3204589 GACTTTTCATATCCTCTT-AGTTTTTCATCGAGT-TG
129 GACTTTTCGTATCCT-TTCAATGTTCCATCGAGTACA
*
3204624 AAATGAAATTTTCAAAAGTTTAAGGGCTTAA
1 AAATGAAATTTTCAAAAGTTT-AGGGATTAA
3204655 TAGAATTTTT
Statistics
Matches: 293, Mismatches: 46, Indels: 28
0.80 0.13 0.08
Matches are distributed among these distances:
156 9 0.03
157 93 0.32
158 3 0.01
159 26 0.09
160 1 0.00
163 4 0.01
164 25 0.09
165 21 0.07
166 106 0.36
167 5 0.02
ACGTcount: A:0.34, C:0.11, G:0.14, T:0.41
Consensus pattern (164 bp):
AAATGAAATTTTCAAAAGTTTAGGGATTAAATGAAAATTTAATTTTTAGAGGTAAAATCATCATT
TTAGTCATTTTTAAAGATTTCTATTATTCCTATGGCCTTTCGTAGGGGTATAAAAATTTTCAAGA
CTTTTCGTATCCTTTCAATGTTCCATCGAGTACA
Found at i:3205030 original size:153 final size:152
Alignment explanation
Indices: 3204757--3205122 Score: 384
Period size: 153 Copynumber: 2.4 Consensus size: 152
3204747 TAGTGTTATT
* * * * *
3204757 GAGATACTTTTATGTCAAAGGTATACCCAAGGGGCATTTTCATAATTTCCTAAAATCGAGTCTTA
1 GAGATAC-TTTATGTCAAAGGTATAACCAAGAGGTATTTTCATAATTTCCTAAAATCAAGTCCTA
* ** * * *
3204822 GGTAGTCTTTAGGTCACTTTTATGCCAAATGTGCATATTTTGGATAGGTTTATCCTATT-TATGA
65 CGTAGTCCCTAGGTCACTTTTATGCCAAATCTGCATA-TTAGGATAGGTTCATCCT-TTATATGA
*
3204886 TCATTTTTAAGTCTTTTAGAGTTACC
128 TCATTTTGAA-TCTTTTAGAGTTACC
** * *
3204912 GAGATACATTTATGTTGAAGGTA-AACCAAGAGGTATTTTCATAATTT-TTTAAATCAAGTCCTA
1 GAGATAC-TTTATGTCAAAGGTATAACCAAGAGGTATTTTCATAATTTCCTAAAATCAAGTCCTA
*
3204975 CGTAGTCACCT-GGTCGCTTTTATGCCAAAGGTCTGCATA-TAGGATAGGTTCATCCTTTATATG
65 CGTAGTC-CCTAGGTCACTTTTATGCCAAA--TCTGCATATTAGGATAGGTTCATCCTTTATATG
* * *
3205038 ATCCTTTTGCATCTTTTAGGGTTACC
127 ATCATTTTGAATCTTTTAGAGTTACC
* * * *
3205064 GAGATACTTTCATGTCAAAAGTATATCTAA-AGGTATTTTCATAATTTCTCTAGAATCAA
1 GAGATACTTT-ATGTCAAAGGTATAACCAAGAGGTATTTTCATAATTTC-CTAAAATCAA
3205123 TTCATCCCAT
Statistics
Matches: 174, Mismatches: 29, Indels: 17
0.79 0.13 0.08
Matches are distributed among these distances:
151 3 0.02
152 49 0.28
153 66 0.38
154 29 0.17
155 27 0.16
ACGTcount: A:0.29, C:0.16, G:0.17, T:0.39
Consensus pattern (152 bp):
GAGATACTTTATGTCAAAGGTATAACCAAGAGGTATTTTCATAATTTCCTAAAATCAAGTCCTAC
GTAGTCCCTAGGTCACTTTTATGCCAAATCTGCATATTAGGATAGGTTCATCCTTTATATGATCA
TTTTGAATCTTTTAGAGTTACC
Found at i:3210402 original size:52 final size:52
Alignment explanation
Indices: 3210332--3210452 Score: 224
Period size: 52 Copynumber: 2.3 Consensus size: 52
3210322 GAAAATTTAT
*
3210332 CTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGC
*
3210384 CTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGC
3210436 CTGCATGTATCGATACA
1 CTGCATGTATCGATACA
3210453 AAGATCAGTG
Statistics
Matches: 67, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
52 67 1.00
ACGTcount: A:0.29, C:0.18, G:0.18, T:0.35
Consensus pattern (52 bp):
CTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGC
Found at i:3210465 original size:52 final size:51
Alignment explanation
Indices: 3210332--3210472 Score: 212
Period size: 52 Copynumber: 2.7 Consensus size: 51
3210322 GAAAATTTAT
3210332 CTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGCAAATTTGC
* *
3210384 CTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGCAAATTTGC
*
3210436 CTGCATGTATCGATACA-AAGATCAGTGTATCGATACA
1 CTGCATGTATCGATACATTA-AT-AGTGTATCGATACA
3210473 ATGTATCGAT
Statistics
Matches: 82, Mismatches: 5, Indels: 4
0.90 0.05 0.04
Matches are distributed among these distances:
51 2 0.02
52 80 0.98
ACGTcount: A:0.30, C:0.18, G:0.18, T:0.33
Consensus pattern (51 bp):
CTGCATGTATCGATACATTAATAGTGTATCGATACATCTGGGCAAATTTGC
Found at i:3210479 original size:13 final size:13
Alignment explanation
Indices: 3210461--3210485 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3210451 CAAAGATCAG
3210461 TGTATCGATACAA
1 TGTATCGATACAA
3210474 TGTATCGATACA
1 TGTATCGATACA
3210486 TGTGAGTAAT
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:3210570 original size:13 final size:13
Alignment explanation
Indices: 3210552--3210576 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3210542 CAAAAAAATA
3210552 TGTATCGATACAT
1 TGTATCGATACAT
3210565 TGTATCGATACA
1 TGTATCGATACA
3210577 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:3210572 original size:33 final size:33
Alignment explanation
Indices: 3210530--3210596 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
3210520 AGTAGCTTAA
3210530 ATTGTATCGATACAAAAAAATATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
* ***
3210563 ATTGTATCGATACAACATTTTATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
3210596 A
1 A
3210597 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:3211587 original size:171 final size:171
Alignment explanation
Indices: 3211395--3211789 Score: 691
Period size: 171 Copynumber: 2.3 Consensus size: 171
3211385 TTTTAGAGAT
*
3211395 GATGAAGGTGCCAATATGCTGATTCAAGGCCAGCAATATTGGACTTAAAGATGAAGATGAGAAAA
1 GATGAAGATGCCAATATGCTGATTCAAGGCCAGCAATATTGGACTTAAAGATGAAGATGAGAAAA
3211460 GTGATAAAGATGCCAATATGTTGATTCATGGCCAACGATATTGGGCCTAAAGATGAGAAAAAGGA
66 GTGATAAAGATGCCAATATGTTGATTCATGGCCAACGATATTGGGCCTAAAGATGAGAAAAAGGA
3211525 TGTCAACGTGCTGATTCAAGGCCAGCTACATTGAACTTAAA
131 TGTCAACGTGCTGATTCAAGGCCAGCTACATTGAACTTAAA
* * * *
3211566 GATGAAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAAATGATGATGAGAAGA
1 GATGAAGATGCCAATATGCTGATTCAAGGCCAGCAATATTGGACTTAAAGATGAAGATGAGAAAA
*
3211631 GTGATAAAGATGCCAATATGTTGATTCATGGCCAACGATATTGGGCTTAAAGATGAGAAAAAGGA
66 GTGATAAAGATGCCAATATGTTGATTCATGGCCAACGATATTGGGCCTAAAGATGAGAAAAAGGA
3211696 TGTCAACGTGCTGATTCAAGGCCAGCTACATTGAACTTAAA
131 TGTCAACGTGCTGATTCAAGGCCAGCTACATTGAACTTAAA
* *
3211737 GATGGAAAATGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAG
1 GAT-GAAGA--TGCCAATATGCTGATTCAAGGCCAGCAATATTGGACTTAAAG
3211790 GTGCCAATGT
Statistics
Matches: 212, Mismatches: 9, Indels: 3
0.95 0.04 0.01
Matches are distributed among these distances:
171 168 0.79
172 4 0.02
174 40 0.19
ACGTcount: A:0.37, C:0.14, G:0.25, T:0.24
Consensus pattern (171 bp):
GATGAAGATGCCAATATGCTGATTCAAGGCCAGCAATATTGGACTTAAAGATGAAGATGAGAAAA
GTGATAAAGATGCCAATATGTTGATTCATGGCCAACGATATTGGGCCTAAAGATGAGAAAAAGGA
TGTCAACGTGCTGATTCAAGGCCAGCTACATTGAACTTAAA
Found at i:3211612 original size:49 final size:49
Alignment explanation
Indices: 3211466--3211624 Score: 147
Period size: 49 Copynumber: 3.1 Consensus size: 49
3211456 AAAAGTGATA
* * * * *
3211466 AAGATGCCAATATGTTGATTCATGGCCAACGATATTGGGCCTAAAGATGAG
1 AAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGAT--G
* ** * * *
3211517 AAAAAGGATGTCAACGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATG
1 ---AA-GATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATG
*
3211570 AAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAAATG
1 AAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATG
*
3211619 ATGATG
1 AAGATG
3211625 AGAAGAGTGA
Statistics
Matches: 85, Mismatches: 19, Indels: 7
0.77 0.17 0.06
Matches are distributed among these distances:
49 45 0.53
50 2 0.02
53 1 0.01
54 2 0.02
55 35 0.41
ACGTcount: A:0.36, C:0.16, G:0.24, T:0.25
Consensus pattern (49 bp):
AAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATG
Found at i:3211846 original size:49 final size:49
Alignment explanation
Indices: 3211637--3212111 Score: 536
Period size: 49 Copynumber: 9.9 Consensus size: 49
3211627 AAGAGTGATA
* * * * *
3211637 AAGATGCCAATATGTTGATTCATGGCCAACGATATTGGGCTTAAAGATGAG
1 AAGATGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGAT--G
* ** * *
3211688 AAAAAGGATGTCAACGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGG
1 ---AA-GATGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGAT-G
*
3211742 AAAATGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT-AA-A-G
1 AAGA--TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATG
* *
3211790 --G-TGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATG
1 AAGATGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATG
*
3211836 AAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT-AA-A-G
1 AAGATGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATG
* * *
3211882 --G-TGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATG
1 AAGATGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATG
*
3211928 AAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATG
1 AAGATGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATG
* *
3211977 AAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGGCTT-AA-A-G
1 AAGATGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATG
* *
3212023 --G-TGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATG
1 AAGATGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATG
*
3212069 AAGATGCCAATATGCTGATTCAAGGCCAGCTATATTGGGCTTA
1 AAGATGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTA
3212112 GAAGGGTTGC
Statistics
Matches: 360, Mismatches: 40, Indels: 47
0.81 0.09 0.11
Matches are distributed among these distances:
43 105 0.29
44 8 0.02
45 3 0.01
46 5 0.01
47 2 0.01
48 8 0.02
49 151 0.42
50 2 0.01
51 4 0.01
52 33 0.09
54 3 0.01
55 36 0.10
ACGTcount: A:0.32, C:0.17, G:0.25, T:0.25
Consensus pattern (49 bp):
AAGATGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATG
Found at i:3211877 original size:92 final size:93
Alignment explanation
Indices: 3211689--3212111 Score: 529
Period size: 92 Copynumber: 4.5 Consensus size: 93
3211679 AAAGATGAGA
* * * *
3211689 AAAAGGATGTCAACGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAATGTGCCAA
1 AAAAGG-TGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT-GAAGA--TGCCAA
*
3211754 TATGCTGATTCAAGGCCAGCTATATTGGACTT
62 TATGCTGATTCAAGGCCAGCGATATTGGACTT
3211786 -AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATATG
1 AAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATATG
3211850 CTGATTCAAGGCCAGCGATATTGGACTT
66 CTGATTCAAGGCCAGCGATATTGGACTT
*
3211878 -AAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATATG
1 AAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATATG
3211942 CTGATTCAAGGCCAGCGATATTGGACTT
66 CTGATTCAAGGCCAGCGATATTGGACTT
* * *
3211970 AAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGGCTT-AA-A-G--G-TGCCA
1 --A-A--AAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCA
* * *
3212029 ATGTGCTGATTCAAGGCCAGCTACATTGGACTT
61 ATATGCTGATTCAAGGCCAGCGATATTGGACTT
* * *
3212062 AAAGATGAAGATGCCAATATGCTGATTCAAGGCCAGCTATATTGGGCTTA
1 AAA-A-G--G-TGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTA
3212112 GAAGGGTTGC
Statistics
Matches: 301, Mismatches: 13, Indels: 28
0.88 0.04 0.08
Matches are distributed among these distances:
87 1 0.00
88 1 0.00
89 2 0.01
90 1 0.00
91 1 0.00
92 201 0.67
93 1 0.00
94 4 0.01
95 42 0.14
96 7 0.02
97 2 0.01
98 38 0.13
ACGTcount: A:0.32, C:0.18, G:0.25, T:0.25
Consensus pattern (93 bp):
AAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATATG
CTGATTCAAGGCCAGCGATATTGGACTT
Found at i:3211985 original size:141 final size:141
Alignment explanation
Indices: 3211747--3212111 Score: 598
Period size: 141 Copynumber: 2.6 Consensus size: 141
3211737 GATGGAAAAT
* * *
3211747 GTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT-AA-A-G--G-TGCCAATGTGCTGAT
1 GTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATATGCTGAT
*
3211806 TCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATATGCTGATTCAAGGCCAGCGATAT
66 TCAAGGCCAGCTATATTGGACTTAAAGATGAAGATGCCAATATGCTGATTCAAGGCCAGCGATAT
3211871 TGGACTTAAAG
131 TGGACTTAAAG
*
3211882 GTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATATGCTGAT
1 GTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATATGCTGAT
* * *
3211947 TCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCTATAT
66 TCAAGGCCAGCTATATTGGACTTAAAGATGAAGATGCCAATATGCTGATTCAAGGCCAGCGATAT
*
3212012 TGGGCTTAAAG
131 TGGACTTAAAG
3212023 GTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATATGCTGAT
1 GTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATATGCTGAT
*
3212088 TCAAGGCCAGCTATATTGGGCTTA
66 TCAAGGCCAGCTATATTGGACTTA
3212112 GAAGGGTTGC
Statistics
Matches: 212, Mismatches: 12, Indels: 6
0.92 0.05 0.03
Matches are distributed among these distances:
135 36 0.17
136 2 0.01
137 1 0.00
138 1 0.00
140 1 0.00
141 171 0.81
ACGTcount: A:0.31, C:0.18, G:0.25, T:0.26
Consensus pattern (141 bp):
GTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATATGCTGAT
TCAAGGCCAGCTATATTGGACTTAAAGATGAAGATGCCAATATGCTGATTCAAGGCCAGCGATAT
TGGACTTAAAG
Found at i:3212155 original size:33 final size:35
Alignment explanation
Indices: 3212111--3212180 Score: 126
Period size: 33 Copynumber: 2.1 Consensus size: 35
3212101 TATTGGGCTT
3212111 AGAAGGGTTGCCACCGACTTGTGTGGGCTTT-GGA
1 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAGGA
3212145 AGAA-GGTTGCCACCGACTTGTGTGGGCTTTAGGA
1 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAGGA
3212179 AG
1 AG
3212181 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:3212223 original size:34 final size:33
Alignment explanation
Indices: 3212185--3213512 Score: 876
Period size: 34 Copynumber: 40.6 Consensus size: 33
3212175 AGGAAGGGAG
* *
3212185 AAAGATGCCATGGAGTTGTGGACTTAAAAGGGAA
1 AAAGATGCCACGGAGTTGTGGGCTTAAAA-GGAA
*
3212219 AAAGAGTGCCACGGAGTTGTGGGCTTTAAAAGAAAAA
1 AAAGA-TGCCACGGAGTTGTGGGC-TTAAAAG--GAA
* * * *
3212256 AAAGGTGCCACGGAGTTATGGACTTAAAGATGAA
1 AAAGATGCCACGGAGTTGTGGGCTTAAA-AGGAA
*
3212290 AAA-AGTGCCACGGAGTTATGGGCTTAAAAGG--
1 AAAGA-TGCCACGGAGTTGTGGGCTTAAAAGGAA
*
3212321 ---G-TGCCACGGAGTTGTGGGCTTAGAAGGAA
1 AAAGATGCCACGGAGTTGTGGGCTTAAAAGGAA
* **
3212350 AAAGAGTGCCACAGAGTTGTGGGCTTAGGAGGAA
1 AAAGA-TGCCACGGAGTTGTGGGCTTAAAAGGAA
*
3212384 AAAGAGTGCCACGGAGTTGTGGGCTT-TAA--AA
1 AAAGA-TGCCACGGAGTTGTGGGCTTAAAAGGAA
* *
3212415 AGAG-TGCCACGGAGTCGTGGGCTTTGAAAA-GAA
1 AAAGATGCCACGGAGTTGTGGGC-TT-AAAAGGAA
* * *
3212448 GAAGGTGCCACAGAGTTGTGGGCTTTGAAAA-GAA
1 AAAGATGCCACGGAGTTGTGGGC-TT-AAAAGGAA
* * *
3212482 GAAGGTGCCACGGAGTTGTGGGCTTTAAA-G--
1 AAAGATGCCACGGAGTTGTGGGCTTAAAAGGAA
*
3212512 --AG-TGCCACGGAGTCGTGGGCTTTGAAAAGAGAA
1 AAAGATGCCACGGAGTTGTGGGC-TT-AAAAG-GAA
3212545 AAAGAGTGCCACGGAGTTGTGGGCTTTAAACA-GAA
1 AAAGA-TGCCACGGAGTTGTGGGC-TTAAA-AGGAA
* * *
3212580 AAAGGTGCCACGGAGTTGTGGACTTAAAGATGAA
1 AAAGATGCCACGGAGTTGTGGGCTTAAA-AGGAA
*
3212614 AAA-AGTGCCACGGAATTGTGGGCTTTAAAAGG--
1 AAAGA-TGCCACGGAGTTGTGGGC-TTAAAAGGAA
*
3212646 ---G-TGCCACGGAGTTGTGGGCTTAGAAGGAA
1 AAAGATGCCACGGAGTTGTGGGCTTAAAAGGAA
* **
3212675 AAAGAGTGCCACAGAGTTGTGGGCTTAGGAGGAA
1 AAAGA-TGCCACGGAGTTGTGGGCTTAAAAGGAA
*
3212709 AAAGAGTGCCACGGAGTTGTGGGCTT-TAA--AA
1 AAAGA-TGCCACGGAGTTGTGGGCTTAAAAGGAA
* *
3212740 AGAG-TGCCACGGAGTCGTGGGCTTTGAAAA-GAA
1 AAAGATGCCACGGAGTTGTGGGC-TT-AAAAGGAA
* * *
3212773 GAAGGTGCCACAGAGTTGTGGGCTTTGAAAA-GAA
1 AAAGATGCCACGGAGTTGTGGGC-TT-AAAAGGAA
* * *
3212807 GAAGGTGCCACAGAGTTGTGGGCTTTGAAAA-GAA
1 AAAGATGCCACGGAGTTGTGGGC-TT-AAAAGGAA
* * *
3212841 GAAGGTGCCACAGAGTTGTGGGCTTTGAAAA-GAA
1 AAAGATGCCACGGAGTTGTGGGC-TT-AAAAGGAA
* * *
3212875 GAAGGTGCCACGGAGTTGTGGGCTTTAAA-G--
1 AAAGATGCCACGGAGTTGTGGGCTTAAAAGGAA
*
3212905 --AG-TGCCACGGAGTCGTGGGCTTTGAAAAGAGAA
1 AAAGATGCCACGGAGTTGTGGGC-TT-AAAAG-GAA
*
3212938 AAAGAGTGCCACGGAGTTATGGGCTTTAAACA-GAA
1 AAAGA-TGCCACGGAGTTGTGGGC-TTAAA-AGGAA
* * *
3212973 AAAGGTGCCACGGAGTTGTGGACTTAAAGATGAA
1 AAAGATGCCACGGAGTTGTGGGCTTAAA-AGGAA
*
3213007 AAA-AGTGCCACGGAATTGTGGGCTTTAAAAGG--
1 AAAGA-TGCCACGGAGTTGTGGGC-TTAAAAGGAA
*
3213039 ---G-TGCCACGGAGTTGTGGGCTTAGAAGGAA
1 AAAGATGCCACGGAGTTGTGGGCTTAAAAGGAA
* **
3213068 AAAGAGTGCCACAGAGTTGTGGGCTTAGGAGGAA
1 AAAGA-TGCCACGGAGTTGTGGGCTTAAAAGGAA
*
3213102 AAAGAGTGCCACGGAGTTGTGGGCTT-TAA--AA
1 AAAGA-TGCCACGGAGTTGTGGGCTTAAAAGGAA
* *
3213133 AGAG-TGCCACGGAGTCGTGGGCTTTGAAAA-GAA
1 AAAGATGCCACGGAGTTGTGGGC-TT-AAAAGGAA
* * *
3213166 GAAGGTGCCACAGAGTTGTGGGCTTTGAAAA-GAA
1 AAAGATGCCACGGAGTTGTGGGC-TT-AAAAGGAA
* * *
3213200 GAAGGTGCCACAGAGTTGTGGGCTTTGAAAA-GAA
1 AAAGATGCCACGGAGTTGTGGGC-TT-AAAAGGAA
* * *
3213234 GAAGGTGCCACAGAGTTGTGGGCTTTGAAAA-GAA
1 AAAGATGCCACGGAGTTGTGGGC-TT-AAAAGGAA
* * *
3213268 GAAGGTGCCACGGAGTTGTGGGCTTTAAA-G--
1 AAAGATGCCACGGAGTTGTGGGCTTAAAAGGAA
*
3213298 --AG-TGCCACGGAGTCGTGGGCTTTGAAAAGAGAA
1 AAAGATGCCACGGAGTTGTGGGC-TT-AAAAG-GAA
3213331 AAAGAGTGCCACGGAGTTGTGGGCTTTAAACA-GAA
1 AAAGA-TGCCACGGAGTTGTGGGC-TTAAA-AGGAA
* * *
3213366 AAAGGTGCCACGGAGTTGTGGACTTAAAGATGAA
1 AAAGATGCCACGGAGTTGTGGGCTTAAA-AGGAA
*
3213400 AAA-AGTGCCACGGAATTGTGGGCTTTAAAAGG--
1 AAAGA-TGCCACGGAGTTGTGGGC-TTAAAAGGAA
*
3213432 ---G-TGCCACGGAGTTGTGGACTTAAAAGGAA
1 AAAGATGCCACGGAGTTGTGGGCTTAAAAGGAA
* * *
3213461 CAAGGTGCCACGGAGTTGTGGGCTTTAAA-GAA
1 AAAGATGCCACGGAGTTGTGGGCTTAAAAGGAA
* *
3213493 AAA-ATGCCACTGAGTCGTGG
1 AAAGATGCCACGGAGTTGTGG
3213513 ACTTTGAAAA
Statistics
Matches: 1101, Mismatches: 99, Indels: 191
0.79 0.07 0.14
Matches are distributed among these distances:
27 97 0.09
28 62 0.06
29 60 0.05
30 6 0.01
31 32 0.03
32 27 0.02
33 63 0.06
34 590 0.54
35 64 0.06
36 32 0.03
37 68 0.06
ACGTcount: A:0.32, C:0.13, G:0.35, T:0.20
Consensus pattern (33 bp):
AAAGATGCCACGGAGTTGTGGGCTTAAAAGGAA
Found at i:3212326 original size:27 final size:27
Alignment explanation
Indices: 3212294--3212347 Score: 90
Period size: 27 Copynumber: 2.0 Consensus size: 27
3212284 GATGAAAAAA
3212294 GTGCCACGGAGTTATGGGCTTAAAAGG
1 GTGCCACGGAGTTATGGGCTTAAAAGG
* *
3212321 GTGCCACGGAGTTGTGGGCTTAGAAGG
1 GTGCCACGGAGTTATGGGCTTAAAAGG
3212348 AAAAAGAGTG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.22, C:0.15, G:0.41, T:0.22
Consensus pattern (27 bp):
GTGCCACGGAGTTATGGGCTTAAAAGG
Found at i:3212858 original size:393 final size:381
Alignment explanation
Indices: 3212315--3213458 Score: 864
Period size: 393 Copynumber: 2.9 Consensus size: 381
3212305 TTATGGGCTT
* * *
3212315 AAAAGGGTGCCACGGAGTTGTGGGCTTAGAAGGAAAAAGAGTGCCACAGAGTTGTGGGCTTAGGA
1 AAAAGAGTGCCACAGAGTTGTGGGCTT----GGAAAAAGAGTGCCACGGAGTTGTGGGCTT----
* * * *
3212380 GGAAAAAGAGTGCCACGGAGTTGTGGGCTTT--AAA-AAG-A-GTGCCACGGAGTCGTGGGCTTT
58 -TAAAAAGAGTGCCACGGAGTCGTGGGCTTTGAAAAGAAGAAGGTGCCACAGAGTTGTGGGCTTT
*
3212440 GAAAAGAAGAAGGTGCCACAGAGTTGTGGGCTTTGAAAAGAAGAAGGTGCCACGGAGTTGTGGGC
122 GAAAAGAAGAAGGTGCCACAGAGTTGTGGGCTTTGAAAAGAAGAAGGTGCCACAGAGTTGTGGGC
* *
3212505 TTT-A-AAG-A-GTGCCACGGAGTCGTGGGCTTTGAAAAGAGAAAAAGAGTGCCACGGAGTTGTG
187 TTTAAGAAGAAGGTGCCACGGAGTTGTGGGCTTT----------AAAGAGTGCCACGGAGTCGTG
* * * *
3212566 GGCTTT-AAACAGAAAAAG-GTGCCACGGAGTTGTGGAC-TTAAAGATGAAAAAAGTGCCACGGA
242 GGCTTTAAAAGAGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAACA-GAAAAAGGTGCCACGGA
* * ** * * * *
3212628 ATTGTGGGCTT-T-AAAAGGGTGCCACGGAGTTGTGGGCTTAGAAGGAAAAAGAGTGCCACAGAG
306 GTTGTGGACTTATGAAAAAAGTGCCACGGAATTGTGGGCTT------TAAAAGGGTGCCACGGAG
* **
3212691 TTGTGGGCTTAGGAGGA
365 TTGTGGACTTAAAAGGA
* * *
3212708 AAAAGAGTGCCACGGAGTTGTGGGCTT-TAAAAAGAGTGCCACGGAGTCGTGGGCTTTGAAAAGA
1 AAAAGAGTGCCACAGAGTTGTGGGCTTGGAAAAAGAGTGCCACGGAGTTGTGGGCTTT--AAA-A
* *
3212772 AGAAGGTGCCACAGAGTTGTGGGCTTTGAAAAGAAGAAGGTGCCACAGAGTTGTGGGCTTTGAAA
63 AG-A-GTGCCACGGAGTCGTGGGCTTTGAAAAGAAGAAGGTGCCACAGAGTTGTGGGCTTTGAAA
*
3212837 AGAAGAAGGTGCCACAGAGTTGTGGGCTTTGAAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTT-
126 AGAAGAAGGTGCCACAGAGTTGTGGGCTTTGAAAAGAAGAAGGTGCCACAGAGTTGTGGGCTTTA
* **
3212901 A-AAG-A-GTGCCACGGAGTCGTGGGCTTTGAAAAGAGAAAAAGAGTGCCACGGAGTTATGGGCT
191 AGAAGAAGGTGCCACGGAGTTGTGGGCTTT----------AAAGAGTGCCACGGAGTCGTGGGCT
* * * * *
3212963 TT-AAACAGAAAAAG-GTGCCACGGAGTTGTGGAC-TTAAAGATGAAAAAAGTGCCACGGAATTG
246 TTAAAAGAGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAACA-GAAAAAGGTGCCACGGAGTTG
* ** * * * *
3213025 TGGGCTT-T-AAAAGGGTGCCACGGAGTTGTGGGCTTAGAAGGAAAAAGAGTGCCACAGAGTTGT
310 TGGACTTATGAAAAAAGTGCCACGGAATTGTGGGCTT------TAAAAGGGTGCCACGGAGTTGT
* **
3213088 GGGCTTAGGAGGA
369 GGACTTAAAAGGA
* * *
3213101 AAAAGAGTGCCACGGAGTTGTGGGCTT-TAAAAAGAGTGCCACGGAGTCGTGGGCTTTGAAAAGA
1 AAAAGAGTGCCACAGAGTTGTGGGCTTGGAAAAAGAGTGCCACGGAGTTGTGGGCTTT--AAA-A
* *
3213165 AGAAGGTGCCACAGAGTTGTGGGCTTTGAAAAGAAGAAGGTGCCACAGAGTTGTGGGCTTTGAAA
63 AG-A-GTGCCACGGAGTCGTGGGCTTTGAAAAGAAGAAGGTGCCACAGAGTTGTGGGCTTTGAAA
*
3213230 AGAAGAAGGTGCCACAGAGTTGTGGGCTTTGAAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTT-
126 AGAAGAAGGTGCCACAGAGTTGTGGGCTTTGAAAAGAAGAAGGTGCCACAGAGTTGTGGGCTTTA
* *
3213294 A-AAG-A-GTGCCACGGAGTCGTGGGCTTTGAAAAGAGAAAAAGAGTGCCACGGAGTTGTGGGCT
191 AGAAGAAGGTGCCACGGAGTTGTGGGCTTT----------AAAGAGTGCCACGGAGTCGTGGGCT
* * * * *
3213356 TT-AAACAGAAAAAG-GTGCCACGGAGTTGTGGAC-TTAAAGATGAAAAAAGTGCCACGGAATTG
246 TTAAAAGAGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAACA-GAAAAAGGTGCCACGGAGTTG
* ** * *
3213418 TGGGCTT-T-AAAAGGGTGCCACGGAGTTGTGGAC-TTAAAAGG
310 TGGACTTATGAAAAAAGTGCCACGGAATTGTGGGCTTTAAAAGG
3213459 AACAAGGTGC
Statistics
Matches: 728, Mismatches: 13, Indels: 27
0.95 0.02 0.04
Matches are distributed among these distances:
385 3 0.00
386 8 0.01
387 1 0.00
388 47 0.06
390 3 0.00
391 3 0.00
392 2 0.00
393 661 0.91
ACGTcount: A:0.31, C:0.13, G:0.35, T:0.20
Consensus pattern (381 bp):
AAAAGAGTGCCACAGAGTTGTGGGCTTGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAAGA
GTGCCACGGAGTCGTGGGCTTTGAAAAGAAGAAGGTGCCACAGAGTTGTGGGCTTTGAAAAGAAG
AAGGTGCCACAGAGTTGTGGGCTTTGAAAAGAAGAAGGTGCCACAGAGTTGTGGGCTTTAAGAAG
AAGGTGCCACGGAGTTGTGGGCTTTAAAGAGTGCCACGGAGTCGTGGGCTTTAAAAGAGAAAAAG
AGTGCCACGGAGTTGTGGGCTTTAAACAGAAAAAGGTGCCACGGAGTTGTGGACTTATGAAAAAA
GTGCCACGGAATTGTGGGCTTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGA
Found at i:3212949 original size:359 final size:352
Alignment explanation
Indices: 3212185--3213523 Score: 1415
Period size: 359 Copynumber: 3.7 Consensus size: 352
3212175 AGGAAGGGAG
* *
3212185 AAAGA-TGCCATGGAGTTGTGGAC-TTAAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAA
1 AAAGAGTGCCACGGAGTTGTGGGCTTTAAAA--GAAAAAGAGTGCCACGGAGTTGTGGGCTTT-A
* * * ** *
3212248 AAGAAAAAAAAGGTGCCACGGAGTTATGGACTTAAAGATGAAAAAAGTGCCACGGAGTTATGGGC
63 AAGAGAAAAAA-GTGCCACGGAGTTGTGGGCTT-----T-AAAAGGGTGCCACGGAGTTGTGGGC
*
3212313 TT------AAAAGGGTGCCACGGAGTTGTGGGCTTAGAAGGAAAAAGAGTGCCACAGAGTTGTGG
121 TTAAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTAGAAGGAAAAAGAGTGCCACAGAGTTGTGG
3212372 GCTTAGGAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAAGAGTGCCACGGAGTCGTGGGC
186 GCTT----GGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAAGAGTGCCACGGAGTCGTGGGC
*
3212437 TTTGAAAAGAAGAAGGTGCCACAGAGTTGTGGGCTTTGAAAAGAAGAAGGTGCCACGGAGTTGTG
247 TTTGAAAAGAAGAAGGTGCCACAGAGTTGTGGGCTTTGAAAAGAAGAAGGTGCCACAGAGTTGTG
*
3212502 GGCTTT----A-AAG-A-GTGCCACGGAGTCGTGGGCTTTGAAAAGAGAA
312 GGCTTTGAAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTT---------A
*
3212545 AAAGAGTGCCACGGAGTTGTGGGCTTTAAACAGAAAAAG-GTGCCACGGAGTTGTGGAC-TTAAA
1 AAAGAGTGCCACGGAGTTGTGGGCTTTAAA-AGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAA
*
3212608 GATGAAAAAAGTGCCACGGAATTGTGGGCTTTAAAAGGGTGCCACGGAGTTGTGGGCTTAGAAGG
65 GA-GAAAAAAGTGCCACGGAGTTGTGGGCTTTAAAAGGGTGCCACGGAGTTGTGGGCTTA-AAGG
* * * *
3212673 AAAAAGAGTGCCACAGAGTTGTGGGCTTAGGAGGAAAAAGAGTGCCACGGAGTTGTGGGCTT-TA
128 AAAAAGAGTGCCACGGAGTTGTGGGCTTAGAAGGAAAAAGAGTGCCACAGAGTTGTGGGCTTGGA
* * *
3212737 AAAAGAGTGCCACGGAGTCGTGGGCTTTGAAAAGAAGAAGGTGCCACAGAGTTGTGGGCTTTGAA
193 AAAAGAGTGCCACGGAGTTGTGGGCTTT--AAA-AAG-A-GTGCCACGGAGTCGTGGGCTTTGAA
3212802 AAGAAGAAGGTGCCACAGAGTTGTGGGCTTTGAAAAGAAGAAGGTGCCACAGAGTTGTGGGCTTT
253 AAGAAGAAGGTGCCACAGAGTTGTGGGCTTTGAAAAGAAGAAGGTGCCACAGAGTTGTGGGCTTT
3212867 GAAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTT-
318 GAAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTTA
* *
3212901 AAAGAGTGCCACGGAGTCGTGGGCTTTGAAAAGAGAAAAAGAGTGCCACGGAGTTATGGGCTTTA
1 AAAGAGTGCCACGGAGTTGTGGGCTTT--AAA-AGAAAAAGAGTGCCACGGAGTTGTGGGCTTTA
* * * ** *
3212966 AACAGAAAAAGGTGCCACGGAGTTGTGGACTTAAAGATGAAAAAAGTGCCACGGAATTGTGGGCT
63 AAGAGAAAAAAGTGCCACGGAGTTGTGGGCTT-----T-AAAAGGGTGCCACGGAGTTGTGGGCT
* *
3213031 T-----TAAAAGGGTGCCACGGAGTTGTGGGCTTAGAAGGAAAAAGAGTGCCACAGAGTTGTGGG
122 TAAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTAGAAGGAAAAAGAGTGCCACAGAGTTGTGGG
3213091 CTTAGGAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAAGAGTGCCACGGAGTCGTGGGCT
187 CTT----GGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAAGAGTGCCACGGAGTCGTGGGCT
3213156 TTGAAAAGAAGAAGGTGCCACAGAGTTGTGGGCTTTGAAAAGAAGAAGGTGCCACAGAGTTGTGG
248 TTGAAAAGAAGAAGGTGCCACAGAGTTGTGGGCTTTGAAAAGAAGAAGGTGCCACAGAGTTGTGG
*
3213221 GCTTTGAAAAGAAGAAGGTGCCACAGAGTTGTGGGCTTTGAAA
313 GCTTTGAAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTT---A
*
3213264 AGAAGAAGGTGCCACGGAGTTGTGGGCTTT-------AAAGAGTGCCACGGAGTCGTGGGCTTTG
1 A-AAG-A-GTGCCACGGAGTTGTGGGCTTTAAAAGAAAAAGAGTGCCACGGAGTTGTGGGCTTT-
3213322 AAAAGAGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAACAGAAAAAGGTGCCACGGAGTTGTGG
62 -AAAGAGAAAAA-AGTGCCACGGAGTTGTGGGCTTTAAA-AG-----GGTGCCACGGAGTTGTGG
* * * * *
3213387 ACTTAAAGATGAAAAA-AGTGCCACGGAATTGTGGGCTT------TAAAAGGGTGCCACGGAGTT
119 GCTTAAAG--GAAAAAGAGTGCCACGGAGTTGTGGGCTTAGAAGGAAAAAGAGTGCCACAGAGTT
* * * * *
3213445 GTGGACTTAAAAGGAACAAG-GTGCCACGGAGTTGTGGGCTTTAAAGAAAAAATGCCACTGAGTC
182 GTGGGCTT----GGAAAAAGAGTGCCACGGAGTTGTGGGCTTT-AA-AAAGAGTGCCACGGAGTC
*
3213509 GTGGACTTTGAAAAG
241 GTGGGCTTTGAAAAG
3213524 GTATTTGAAG
Statistics
Matches: 851, Mismatches: 65, Indels: 126
0.82 0.06 0.12
Matches are distributed among these distances:
352 24 0.03
353 4 0.00
354 30 0.04
356 54 0.06
357 3 0.00
358 67 0.08
359 446 0.52
360 59 0.07
361 26 0.03
362 8 0.01
363 3 0.00
364 35 0.04
365 46 0.05
366 46 0.05
ACGTcount: A:0.32, C:0.13, G:0.35, T:0.20
Consensus pattern (352 bp):
AAAGAGTGCCACGGAGTTGTGGGCTTTAAAAGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAG
AGAAAAAAGTGCCACGGAGTTGTGGGCTTTAAAAGGGTGCCACGGAGTTGTGGGCTTAAAGGAAA
AAGAGTGCCACGGAGTTGTGGGCTTAGAAGGAAAAAGAGTGCCACAGAGTTGTGGGCTTGGAAAA
AGAGTGCCACGGAGTTGTGGGCTTTAAAAAGAGTGCCACGGAGTCGTGGGCTTTGAAAAGAAGAA
GGTGCCACAGAGTTGTGGGCTTTGAAAAGAAGAAGGTGCCACAGAGTTGTGGGCTTTGAAAAGAA
GAAGGTGCCACGGAGTTGTGGGCTTTA
Found at i:3213454 original size:27 final size:28
Alignment explanation
Indices: 3213404--3213458 Score: 85
Period size: 28 Copynumber: 2.0 Consensus size: 28
3213394 GATGAAAAAA
*
3213404 GTGCCACGGAATTGTGGGCTTTAAAAGG
1 GTGCCACGGAATTGTGGACTTTAAAAGG
*
3213432 GTGCCACGGAGTTGTGGAC-TTAAAAGG
1 GTGCCACGGAATTGTGGACTTTAAAAGG
3213459 AACAAGGTGC
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
27 8 0.32
28 17 0.68
ACGTcount: A:0.25, C:0.15, G:0.36, T:0.24
Consensus pattern (28 bp):
GTGCCACGGAATTGTGGACTTTAAAAGG
Found at i:3221826 original size:52 final size:52
Alignment explanation
Indices: 3221756--3221876 Score: 224
Period size: 52 Copynumber: 2.3 Consensus size: 52
3221746 GAAAATTTAT
*
3221756 CTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGC
*
3221808 CTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGC
3221860 CTGCATGTATCGATACA
1 CTGCATGTATCGATACA
3221877 AAGATCAGTG
Statistics
Matches: 67, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
52 67 1.00
ACGTcount: A:0.29, C:0.18, G:0.18, T:0.35
Consensus pattern (52 bp):
CTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGC
Found at i:3221889 original size:52 final size:51
Alignment explanation
Indices: 3221756--3221896 Score: 212
Period size: 52 Copynumber: 2.7 Consensus size: 51
3221746 GAAAATTTAT
3221756 CTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGCAAATTTGC
* *
3221808 CTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGCAAATTTGC
*
3221860 CTGCATGTATCGATACA-AAGATCAGTGTATCGATACA
1 CTGCATGTATCGATACATTA-AT-AGTGTATCGATACA
3221897 ATGTATCGAT
Statistics
Matches: 82, Mismatches: 5, Indels: 4
0.90 0.05 0.04
Matches are distributed among these distances:
51 2 0.02
52 80 0.98
ACGTcount: A:0.30, C:0.18, G:0.18, T:0.33
Consensus pattern (51 bp):
CTGCATGTATCGATACATTAATAGTGTATCGATACATCTGGGCAAATTTGC
Found at i:3221903 original size:13 final size:13
Alignment explanation
Indices: 3221885--3221909 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3221875 CAAAGATCAG
3221885 TGTATCGATACAA
1 TGTATCGATACAA
3221898 TGTATCGATACA
1 TGTATCGATACA
3221910 TGTGAGTAAT
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:3221994 original size:13 final size:13
Alignment explanation
Indices: 3221976--3222000 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3221966 CAAAAAAATA
3221976 TGTATCGATACAT
1 TGTATCGATACAT
3221989 TGTATCGATACA
1 TGTATCGATACA
3222001 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:3221996 original size:33 final size:33
Alignment explanation
Indices: 3221954--3222020 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
3221944 AGTAGCTTAA
3221954 ATTGTATCGATACAAAAAAATATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
* ***
3221987 ATTGTATCGATACAACATTTTATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
3222020 A
1 A
3222021 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:3223232 original size:22 final size:23
Alignment explanation
Indices: 3223204--3223246 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
3223194 AACACAAAAA
*
3223204 AAAAAGAAA-GAAATGAAAAATG
1 AAAAAGAAATGAAACGAAAAATG
3223226 AAAAAGAAATGAAACGAAAAA
1 AAAAAGAAATGAAACGAAAAA
3223247 AAAAGTATGA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 9 0.47
23 10 0.53
ACGTcount: A:0.74, C:0.02, G:0.16, T:0.07
Consensus pattern (23 bp):
AAAAAGAAATGAAACGAAAAATG
Found at i:3226599 original size:44 final size:44
Alignment explanation
Indices: 3226523--3227015 Score: 356
Period size: 44 Copynumber: 11.2 Consensus size: 44
3226513 TAACTATATT
* * * *
3226523 TGGTCAAAATCTTTTCATTCTTATTCGGCATATGGTTACCACCC
1 TGGTCAAATTCTTTTCATTCTGATTTGACATATGGTTACCACCC
* * * **
3226567 TAGTCAGATTTTTTTCATTCTGATTTGACATATGGTTACCACTT
1 TGGTCAAATTCTTTTCATTCTGATTTGACATATGGTTACCACCC
* *
3226611 TGGTCAAA-TCTACTTTC-TTCCTG-TTTGACGTATGGTCACCACCC
1 TGGTCAAATTCT--TTTCATT-CTGATTTGACATATGGTTACCACCC
* * * * *
3226655 TGGTCAAACTCTTTTAATTTTGGTTTGACGTATGGTTACCACCC
1 TGGTCAAATTCTTTTCATTCTGATTTGACATATGGTTACCACCC
* * * * *
3226699 TAGTCAGATTCTTTTAATTCTGATTTGACGTATGGCTACCACCC
1 TGGTCAAATTCTTTTCATTCTGATTTGACATATGGTTACCACCC
* * *
3226743 TGGTCAAA-TCTACCTTC-TTTTTATTTGACATATGGTTACCACCC
1 TGGTCAAATTCT--TTTCATTCTGATTTGACATATGGTTACCACCC
* * * ** *
3226787 TGGTCAAACTCTTCTCATTTTGGCCTT-ACATATGGTTACCACCT
1 TGGTCAAATTCTTTTCATTCT-GATTTGACATATGGTTACCACCC
* * * ** **
3226831 TGGTCAGATTCTTTTCATTCTAACTTGATGTATGGTTACCAATC
1 TGGTCAAATTCTTTTCATTCTGATTTGACATATGGTTACCACCC
* *** * *
3226875 TCGTCAAA-TCAGCCTCATTTCTG-TTTGACTTATGGTTACCACCT
1 TGGTCAAATTC-TTTTCA-TTCTGATTTGACATATGGTTACCACCC
* * * * *
3226919 TGGTCAAACTCTGTTCATT-TCAATCTGACGTATGGTTACCACCC
1 TGGTCAAATTCTTTTCATTCT-GATTTGACATATGGTTACCACCC
* * * * *
3226963 TAGTCAGATTCTTTTCATTTTAATTTGACACATGGTTACCACCC
1 TGGTCAAATTCTTTTCATTCTGATTTGACATATGGTTACCACCC
*
3227007 TAGTCAAAT
1 TGGTCAAAT
3227016 CTACCTATTT
Statistics
Matches: 353, Mismatches: 78, Indels: 36
0.76 0.17 0.08
Matches are distributed among these distances:
42 1 0.00
43 19 0.05
44 309 0.88
45 24 0.07
ACGTcount: A:0.22, C:0.24, G:0.14, T:0.40
Consensus pattern (44 bp):
TGGTCAAATTCTTTTCATTCTGATTTGACATATGGTTACCACCC
Found at i:3226761 original size:132 final size:132
Alignment explanation
Indices: 3226553--3227021 Score: 566
Period size: 132 Copynumber: 3.6 Consensus size: 132
3226543 TTATTCGGCA
* * **
3226553 TATGGTTACCACCCTAGTCAGATTTTTTTCATTCTGATTTGACATATGGTTACCACTTTGGTCAA
1 TATGGTTACCACCCTAGTCAGATTCTTTTCATTCTAATTTGACATATGGTTACCACCCTGGTCAA
* * * * *
3226618 ATCTACTTTCTTCCTGTTTGACGTATGGTCACCACCCTGGTCAAACTCTTTTAATTTTGGTTTGA
66 ATCTACCTTCTTTCTGTTTGACATATGGTTACCACCCTGGTCAAACTCTTTTCATTTTGGTTTGA
3226683 CG
131 CG
* * * *
3226685 TATGGTTACCACCCTAGTCAGATTCTTTTAATTCTGATTTGACGTATGGCTACCACCCTGGTCAA
1 TATGGTTACCACCCTAGTCAGATTCTTTTCATTCTAATTTGACATATGGTTACCACCCTGGTCAA
* * * *
3226750 ATCTACCTTCTTTTTATTTGACATATGGTTACCACCCTGGTCAAACTCTTCTCATTTTGGCCTT-
66 ATCTACCTTCTTTCTGTTTGACATATGGTTACCACCCTGGTCAAACTCTTTTCATTTTGG-TTTG
*
3226814 ACA
130 ACG
* * * ** ** *
3226817 TATGGTTACCACCTTGGTCAGATTCTTTTCATTCTAACTTGATGTATGGTTACCAATCTCGTCAA
1 TATGGTTACCACCCTAGTCAGATTCTTTTCATTCTAATTTGACATATGGTTACCACCCTGGTCAA
* * * *** *
3226882 ATC-AGCC-TCATTTCTGTTTGACTTATGGTTACCACCTTGGTCAAACTCTGTTCATTTCAATCT
66 ATCTA-CCTTC-TTTCTGTTTGACATATGGTTACCACCCTGGTCAAACTCTTTTCATTTTGGTTT
3226945 GACG
129 GACG
* * *
3226949 TATGGTTACCACCCTAGTCAGATTCTTTTCATTTTAATTTGACACATGGTTACCACCCTAGTCAA
1 TATGGTTACCACCCTAGTCAGATTCTTTTCATTCTAATTTGACATATGGTTACCACCCTGGTCAA
3227014 ATCTACCT
66 ATCTACCT
3227022 ATTTGACGTA
Statistics
Matches: 283, Mismatches: 48, Indels: 11
0.83 0.14 0.03
Matches are distributed among these distances:
131 4 0.01
132 276 0.98
133 3 0.01
ACGTcount: A:0.22, C:0.24, G:0.14, T:0.39
Consensus pattern (132 bp):
TATGGTTACCACCCTAGTCAGATTCTTTTCATTCTAATTTGACATATGGTTACCACCCTGGTCAA
ATCTACCTTCTTTCTGTTTGACATATGGTTACCACCCTGGTCAAACTCTTTTCATTTTGGTTTGA
CG
Found at i:3227401 original size:84 final size:83
Alignment explanation
Indices: 3227291--3227576 Score: 265
Period size: 84 Copynumber: 3.4 Consensus size: 83
3227281 TCAGTCTCTA
* * *
3227291 GTAAACACCTTTACCCTTTGTTGACTTATCAATTTAGCCTTGGTCAACCTTTTATCCCTTGCTTA
1 GTAAACTCCTTTATCCTTTGTTGACTTATCAATTTAGCCCTGGTCAACCTTTTATCCCTTG-TTA
*
3227356 CCTATTAGCTTAGTCCCTT
65 CCTATTAGCTTAGTCCCTG
* ** * *
3227375 GTGAACTCCTTTATCCTTTGTTGACTTATCGGTTTAGCCCTGGTCAA-TTTTTCATCTCTAT-TT
1 GTAAACTCCTTTATCCTTTGTTGACTTATCAATTTAGCCCTGGTCAACCTTTT-ATCCCT-TGTT
* ** *
3227438 ACTTATCGGCTCAGTCCCTG
64 ACCTATTAGCTTAGTCCCTG
* * * * * *
3227458 GTAAACTCCTTTA-CCTTTTGTTGACTTAT-AGGTTCAACCCTAGTCAACCTGTCATCCCTTGTT
1 GTAAACTCCTTTATCC-TTTGTTGACTTATCA-ATTTAGCCCTGGTCAACCTTTTATCCCTTG-T
* * *
3227521 TACCTGTTAGCTTAGTCTCAG
63 TACCTATTAGCTTAGTCCCTG
* * *
3227542 GTAAATTTCTGTATCCTTTGTTGACTTATCAATTT
1 GTAAACTCCTTTATCCTTTGTTGACTTATCAATTT
3227577 TATCCCAGTC
Statistics
Matches: 159, Mismatches: 34, Indels: 18
0.75 0.16 0.09
Matches are distributed among these distances:
82 3 0.02
83 64 0.40
84 88 0.55
85 4 0.03
ACGTcount: A:0.19, C:0.25, G:0.13, T:0.43
Consensus pattern (83 bp):
GTAAACTCCTTTATCCTTTGTTGACTTATCAATTTAGCCCTGGTCAACCTTTTATCCCTTGTTAC
CTATTAGCTTAGTCCCTG
Found at i:3229171 original size:15 final size:15
Alignment explanation
Indices: 3229151--3229216 Score: 64
Period size: 15 Copynumber: 4.2 Consensus size: 15
3229141 TGATCAGCTG
*
3229151 AAAAAAGAAGAGAGA
1 AAAAAAAAAGAGAGA
3229166 AAAAAAAAAGAGATGGA
1 AAAAAAAAAGAGA--GA
3229183 AAAGAAAGAAA-A-AGA
1 AAA-AAA-AAAGAGAGA
3229198 AAAAAAAATAGAGAGA
1 AAAAAAAA-AGAGAGA
3229214 AAA
1 AAA
3229217 TTAGAATACA
Statistics
Matches: 43, Mismatches: 1, Indels: 13
0.75 0.02 0.23
Matches are distributed among these distances:
13 2 0.05
14 4 0.09
15 18 0.42
16 6 0.14
17 6 0.14
18 4 0.09
19 3 0.07
ACGTcount: A:0.76, C:0.00, G:0.21, T:0.03
Consensus pattern (15 bp):
AAAAAAAAAGAGAGA
Found at i:3230120 original size:28 final size:28
Alignment explanation
Indices: 3230085--3230139 Score: 101
Period size: 28 Copynumber: 2.0 Consensus size: 28
3230075 AAGACTAAAT
3230085 TAAAAATCAATTCTAATAATTTTTTATA
1 TAAAAATCAATTCTAATAATTTTTTATA
*
3230113 TAAAAATCAATTCTAATCATTTTTTAT
1 TAAAAATCAATTCTAATAATTTTTTAT
3230140 CTTTTAATAT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.44, C:0.09, G:0.00, T:0.47
Consensus pattern (28 bp):
TAAAAATCAATTCTAATAATTTTTTATA
Found at i:3231476 original size:156 final size:154
Alignment explanation
Indices: 3231192--3231487 Score: 360
Period size: 156 Copynumber: 1.9 Consensus size: 154
3231182 TCCCTAAAAG
* * *** * *
3231192 CATTTCTGTAATTTTTCAGAACCAATTCCTAGTTATTGTCGAGTCCGCTTTTATGCCAAATGTGG
1 CATTTCTGTAATTTTTCAGAACCAAATCCTAGTCATCACCGAGTCCACTTTTATGCCAAAAGTGG
* * * * *
3231257 ATATTTAGGATAAGTTCATCCATTTTAAAATCCTTTTAAAGTCCTTTAGGGGTATCATGTACTTT
66 ATATTTAAGATAAGTTCATCCATTCTAAAATCCTTTTAAAGTCCTTTAAGGGTACCAGGTACTTT
3231322 TACGTCGAAGATATTTCCTAGGGC
131 TACGTCGAAGATATTTCCTAGGGC
* *
3231346 CATTTTTGTAATTTTTTAGAACCAAATCCTAGGTCATCACCGAGTCCACTTTTATGCCGAAAAGT
1 CATTTCTGTAATTTTTCAGAACCAAATCCTA-GTCATCACCGAGTCCACTTTTATGCC-AAAAGT
* * * * * *
3231411 GGATATTTAAGATAGGTTCATCCATTCTATAAT-TTTTTTAAGTCTTTTAAGGTTACCAGGATAC
64 GGATATTTAAGATAAGTTCATCCATTCTAAAATCCTTTTAAAGTCCTTTAAGGGTACCAGG-TAC
**
3231475 TTTTGTGTCGAAG
128 TTTTACGTCGAAG
3231488 GTATACCTAT
Statistics
Matches: 117, Mismatches: 22, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
154 28 0.24
155 41 0.35
156 48 0.41
ACGTcount: A:0.27, C:0.17, G:0.17, T:0.40
Consensus pattern (154 bp):
CATTTCTGTAATTTTTCAGAACCAAATCCTAGTCATCACCGAGTCCACTTTTATGCCAAAAGTGG
ATATTTAAGATAAGTTCATCCATTCTAAAATCCTTTTAAAGTCCTTTAAGGGTACCAGGTACTTT
TACGTCGAAGATATTTCCTAGGGC
Found at i:3231518 original size:156 final size:154
Alignment explanation
Indices: 3231200--3231541 Score: 341
Period size: 156 Copynumber: 2.2 Consensus size: 154
3231190 AGCATTTCTG
* * *** * *
3231200 TAATTTTTCAGAACCAATTCCTA-GTTATTGTCGAGTCCGCTTTTATGCCAAATGTGGATATTTA
1 TAATTTTT-AGAACCAAATCCTAGGTCATCACCGAGTCCACTTTTATGCCAAAAGTGGATATTTA
* * * * *
3231264 GGATAAGTTCATCCATTTTAAAATCCTTTTAAAGTCCTTTAGGGGTATCATGTACTTTTACGTCG
65 AGATAAGTTCATCCATTCTAAAATCCTTTTAAAGTCCTTTAAGGGTACCAGGTACTTTTACGTCG
* **
3231329 AAGATATTTCCTAGGGCCATTTTTG
130 AAGATATTACCTAGGGCCATTTTCA
3231354 TAATTTTTTAGAACCAAATCCTAGGTCATCACCGAGTCCACTTTTATGCCGAAAAGTGGATATTT
1 TAA-TTTTTAGAACCAAATCCTAGGTCATCACCGAGTCCACTTTTATGCC-AAAAGTGGATATTT
* * * * * * **
3231419 AAGATAGGTTCATCCATTCTATAAT-TTTTTTAAGTCTTTTAAGGTTACCAGGATACTTTTGTGT
64 AAGATAAGTTCATCCATTCTAAAATCCTTTTAAAGTCCTTTAAGGGTACCAGG-TACTTTTACGT
*
3231483 CGAAGGTA-TACCTATAGAGG-CATTTTCA
128 CGAAGATATTACC--TAG-GGCCATTTTCA
* * * *
3231511 TAATTTTTAGAATCGAGTCCTAGGTCGTCAC
1 TAATTTTTAGAACCAAATCCTAGGTCATCAC
3231542 TCTTACACTA
Statistics
Matches: 153, Mismatches: 28, Indels: 12
0.79 0.15 0.06
Matches are distributed among these distances:
154 16 0.10
155 49 0.32
156 74 0.48
157 12 0.08
158 2 0.01
ACGTcount: A:0.27, C:0.17, G:0.17, T:0.39
Consensus pattern (154 bp):
TAATTTTTAGAACCAAATCCTAGGTCATCACCGAGTCCACTTTTATGCCAAAAGTGGATATTTAA
GATAAGTTCATCCATTCTAAAATCCTTTTAAAGTCCTTTAAGGGTACCAGGTACTTTTACGTCGA
AGATATTACCTAGGGCCATTTTCA
Found at i:3232475 original size:13 final size:13
Alignment explanation
Indices: 3232447--3232483 Score: 56
Period size: 13 Copynumber: 2.7 Consensus size: 13
3232437 TAAAATAATA
3232447 TTTATTTATCATTTT
1 TTTATTT-T-ATTTT
3232462 TTTATTTTATTTT
1 TTTATTTTATTTT
3232475 TTTATTTTA
1 TTTATTTTA
3232484 AAAAATTTCA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
13 14 0.64
14 1 0.05
15 7 0.32
ACGTcount: A:0.19, C:0.03, G:0.00, T:0.78
Consensus pattern (13 bp):
TTTATTTTATTTT
Found at i:3233340 original size:12 final size:11
Alignment explanation
Indices: 3233323--3233353 Score: 53
Period size: 11 Copynumber: 2.7 Consensus size: 11
3233313 TTAGTTTTTC
3233323 TTTTTCTCTCTT
1 TTTTTCTCT-TT
3233335 TTTTTCTCTTT
1 TTTTTCTCTTT
3233346 TTTTTCTC
1 TTTTTCTC
3233354 CAAGTTTCTA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 10 0.53
12 9 0.47
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (11 bp):
TTTTTCTCTTT
Found at i:3233348 original size:10 final size:10
Alignment explanation
Indices: 3233317--3233349 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
3233307 TTTGACTTAG
3233317 TTTT-TCTTT
1 TTTTCTCTTT
*
3233326 TTCTCTCTTT
1 TTTTCTCTTT
3233336 TTTTCTCTTT
1 TTTTCTCTTT
3233346 TTTT
1 TTTT
3233350 TCTCCAAGTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
9 3 0.14
10 18 0.86
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (10 bp):
TTTTCTCTTT
Found at i:3234094 original size:164 final size:162
Alignment explanation
Indices: 3233909--3234535 Score: 619
Period size: 165 Copynumber: 3.8 Consensus size: 162
3233899 AGATGAATTC
* * * *
3233909 TAAAAATTTTAAACCGAGAAAATTCTCTCAAAAATATTTATGGAATAGAAAACTCGATTTTTCAA
1 TAAAAATTTTGAACCGAGAAAATCCTCCCAAAAATATTTATGGAATAGAAAACTCGATATTTCAA
* *
3233974 AAATA-AAAAATTTCAAAGAAAAAATGAAAAACTCATGAAAATAAATGAATTTTTCAAAACTAAT
66 AAACAGAAAAATTTC-AAGAAAAAATGAAAAACTCATG-AAATAAATGAATTTTTCAAAA-TGAT
3234038 TTACTATGATTTAAGTGATGATATTTGAATAATAT
128 TTACTATGATTTAAGTGATGATATTTGAATAATAT
* * * * * * *
3234073 TAAAAATTTTGAACTGAGAAAAATTCTCCCAAAAATATTTATGAAATAAAAAACTAGATTTTTTG
1 TAAAAATTTTGAACCGAG-AAAATCCTCCCAAAAATATTTATGGAATAGAAAACTCGA-TATTTC
* ** *
3234138 AAAATA-AG-AGAATTTCAAG-GGAAATGAAAAACTCATGAATATAAATGAATTTTTTAAAATTG
64 AAAA-ACAGAAAAATTTCAAGAAAAAATGAAAAACTCATGAA-ATAAATGAATTTTTCAAAA-TG
* * *
3234200 ATTTGCTATGATTTAAGTGATGATATTTAAAGAATAT
126 ATTTACTATGATTTAAGTGATGATATTTGAATAATAT
* * * * * *
3234237 TAAAAATTTTGAACCGAGAAAAACCTTCCAAAAACATTTATGGAATAGAAAACTTGGTATTTCGA
1 TAAAAATTTTGAACCGAGAAAATCCTCCCAAAAATATTTATGGAATAGAAAACTCGATATTTCAA
* *
3234302 AAACAGAAGAATTTCAAGAAAAAAATGAAAAACTCATGGAATAAAATGAATTTTTCAACAATGAT
66 AAACAGAAAAATTTCAAG-AAAAAATGAAAAACTCATGAAAT-AAATGAATTTTTCAA-AATGAT
* * * *
3234367 TTAACT-TGATTTAAATGATAATATCTG-GTGAATAT
128 TT-ACTATGATTTAAGTGATGATATTTGAAT-AATAT
* * *
3234402 AAAAAATTCT-AGACCGAGGAAAATCCTCCCGAAAAA-ATTTATGGAGA-AGAAAACTCCG-TAA
1 TAAAAATTTTGA-ACCGA-GAAAATCCTCCC-AAAAATATTTATGGA-ATAGAAAACT-CGATAT
* * * * *
3234463 TTCAAAAACAGAAGAAATTCCAA-AAGAAAATAAAAAACTCATGGAATAAAGGGAATTTCTCAAA
61 TTCAAAAACAGAA-AAATTTCAAGAA-AAAATGAAAAACTCATGAAATAAA-TGAATTTTTCAAA
3234527 ATTGATTTA
123 A-TGATTTA
3234536 ATGGCAATTA
Statistics
Matches: 390, Mismatches: 51, Indels: 43
0.81 0.11 0.09
Matches are distributed among these distances:
161 1 0.00
162 9 0.02
163 44 0.11
164 105 0.27
165 118 0.30
166 98 0.25
167 15 0.04
ACGTcount: A:0.49, C:0.10, G:0.12, T:0.30
Consensus pattern (162 bp):
TAAAAATTTTGAACCGAGAAAATCCTCCCAAAAATATTTATGGAATAGAAAACTCGATATTTCAA
AAACAGAAAAATTTCAAGAAAAAATGAAAAACTCATGAAATAAATGAATTTTTCAAAATGATTTA
CTATGATTTAAGTGATGATATTTGAATAATAT
Found at i:3234504 original size:166 final size:166
Alignment explanation
Indices: 3233909--3234536 Score: 511
Period size: 166 Copynumber: 3.8 Consensus size: 166
3233899 AGATGAATTC
* ** * * **
3233909 TAAAAATTTTA-AACCGAGAAAATTCTCTCAAAAATATTTATGGAATAGAAAACT-CGATTTTTC
1 TAAAAAATTTAGAACCGAGAAAAACCTCCCAAAAACATTTATGGAATAGAAAACTCCG-TAATTC
* * * * *
3233972 AAAAATA-AAAAATTTCAA-AGAAAAAATGAAAAACTCAT-GAAAATAAATGAATTTTTCAAAAC
65 AAAAACAGAAGAATTCCAAGA-AAAAAATGAAAAACTCATGGAATA-AAATGAATTTTTCAAAAT
* * * * * *
3234034 TAATTT-ACTATGATTTAAGTGATGATATTTGAATAATA
128 TGATTTAACTATGATTTAAATGATAATATCTAAAGAATA
* * * * * * * * **
3234072 TTAAAAATTTTGAACTGAGAAAAATTCTCCCAAAAATATTTATGAAATAAAAAACT-AGATTTTT
1 TAAAAAATTTAGAACCGAGAAAAA-CCTCCCAAAAACATTTATGGAATAGAAAACTCCG--TAAT
* * ** *
3234136 TGAAAATA-AG-AGAATTTCAAG--GGAAATGAAAAACTCAT-GAATATAAATGAATTTTTTAAA
63 TCAAAA-ACAGAAGAATTCCAAGAAAAAAATGAAAAACTCATGGAATA-AAATGAATTTTTCAAA
* * * *
3234196 ATTGATTT-GCTATGATTTAAGTGATGATATTTAAAGAATA
126 ATTGATTTAACTATGATTTAAATGATAATATCTAAAGAATA
* * * ** * *
3234236 TTAAAAATTTTGAACCGAGAAAAACCTTCCAAAAACATTTATGGAATAGAAAACTTGGTATTTCG
1 TAAAAAATTTAGAACCGAGAAAAACCTCCCAAAAACATTTATGGAATAGAAAACTCCGTAATTCA
*
3234301 AAAACAGAAGAATTTCAAGAAAAAAATGAAAAACTCATGGAATAAAATGAATTTTTCAACAA-TG
66 AAAACAGAAGAATTCCAAGAAAAAAATGAAAAACTCATGGAATAAAATGAATTTTTCAA-AATTG
***
3234365 ATTTAACT-TGATTTAAATGATAATATCTGGTGAATA
130 ATTTAACTATGATTTAAATGATAATATCTAAAGAATA
*
3234401 TAAAAAATTCTAG-ACCGAGGAAAATCCTCCCGAAAAA-ATTTATGGAGA-AGAAAACTCCGTAA
1 TAAAAAATT-TAGAACCGA-GAAAAACCTCCC-AAAAACATTTATGGA-ATAGAAAACTCCGTAA
* * ** *
3234463 TTCAAAAACAGAAGAAATTCCAA-AAGAAAATAAAAAACTCATGGAATAAAGGGAATTTCTCAAA
62 TTCAAAAACAGAAG-AATTCCAAGAAAAAAATGAAAAACTCATGGAATAAAATGAATTTTTCAAA
3234527 ATTGATTTAA
126 ATTGATTTAA
3234537 TGGCAATTAA
Statistics
Matches: 390, Mismatches: 55, Indels: 37
0.81 0.11 0.08
Matches are distributed among these distances:
161 1 0.00
162 9 0.02
163 45 0.12
164 104 0.27
165 101 0.26
166 116 0.30
167 14 0.04
ACGTcount: A:0.49, C:0.10, G:0.12, T:0.29
Consensus pattern (166 bp):
TAAAAAATTTAGAACCGAGAAAAACCTCCCAAAAACATTTATGGAATAGAAAACTCCGTAATTCA
AAAACAGAAGAATTCCAAGAAAAAAATGAAAAACTCATGGAATAAAATGAATTTTTCAAAATTGA
TTTAACTATGATTTAAATGATAATATCTAAAGAATA
Found at i:3234575 original size:166 final size:164
Alignment explanation
Indices: 3234224--3234620 Score: 399
Period size: 166 Copynumber: 2.4 Consensus size: 164
3234214 AAGTGATGAT
* * * *
3234224 ATTTAAAGAATATTAAAAATTTTGAACCGA-GAAAAACCTTCCAAAAACATTTATGGA-ATAGAA
1 ATTTAATGAATATTAAAAATTTAG-ACCGAGGAAAATCCTCCCAAAAA-ATTTATGGAGA-AGAA
** * * * * *
3234287 AACTTGGTATTTCGAAAACAGAAGAATTTCAAGAAAAAAATGAAAAACTCATGGAATAAAATGAA
63 AACTCCGTAATTCAAAAACAGAAGAATTCCAAGAAAAAAATAAAAAACTCATGGAATAAAAGGAA
* * * * * *
3234352 TTTTTCAACAATGATTTAACTTGATTTAAATGATAAT
128 TTTCTCAACAATGATTTAACTGGAATTAAATAACAAC
* ** *
3234389 ATCTGGTGAATATAAAAAATTCTAGACCGAGGAAAATCCTCCCGAAAAAATTTATGGAGAAGAAA
1 ATTTAATGAATATTAAAAATT-TAGACCGAGGAAAATCCTCCC-AAAAAATTTATGGAGAAGAAA
* *
3234454 ACTCCGTAATTCAAAAACAGAAGAAATTCCAA-AAGAAAATAAAAAACTCATGGAATAAAGGGAA
64 ACTCCGTAATTCAAAAACAGAAG-AATTCCAAGAAAAAAATAAAAAACTCATGGAATAAAAGGAA
3234518 TTTCTCAA-AATTGATTTAA-TGGCAATTAAATAACAAC
128 TTTCTCAACAA-TGATTTAACTGG-AATTAAATAACAAC
* * * * * * *
3234555 ATTTAATGAATTTTAAAAATTATAAACCAAGAAAAATCTTCCCATAAAAATTTATGTAGCAGAAA
1 ATTTAATGAATATTAAAAATT-TAGACCGAGGAAAATCCTCCCA-AAAAATTTATGGAGAAGAAA
3234620 A
64 A
3234621 TTTATATTTT
Statistics
Matches: 189, Mismatches: 35, Indels: 15
0.79 0.15 0.06
Matches are distributed among these distances:
165 26 0.14
166 150 0.79
167 13 0.07
ACGTcount: A:0.50, C:0.12, G:0.12, T:0.26
Consensus pattern (164 bp):
ATTTAATGAATATTAAAAATTTAGACCGAGGAAAATCCTCCCAAAAAATTTATGGAGAAGAAAAC
TCCGTAATTCAAAAACAGAAGAATTCCAAGAAAAAAATAAAAAACTCATGGAATAAAAGGAATTT
CTCAACAATGATTTAACTGGAATTAAATAACAAC
Found at i:3236140 original size:20 final size:20
Alignment explanation
Indices: 3236098--3236140 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
3236088 ATCCCCTTTT
* * *
3236098 TATTTATGAAAACAAACATA
1 TATTAATGAAAACAAAAACA
*
3236118 TATTAATGAAAAGAAAAACA
1 TATTAATGAAAACAAAAACA
3236138 TAT
1 TAT
3236141 ATCTCAAGAC
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.58, C:0.07, G:0.07, T:0.28
Consensus pattern (20 bp):
TATTAATGAAAACAAAAACA
Found at i:3236837 original size:123 final size:123
Alignment explanation
Indices: 3236710--3236933 Score: 267
Period size: 123 Copynumber: 1.8 Consensus size: 123
3236700 TTTTGTAGAA
**
3236710 TTTTCTCAGGTTTTGAA-CATCAAAAT-TCTCTAAATATTATCATTTAATT-ATCATTAAATTAG
1 TTTTCTC-GGTTTTGAATCATCAAAATAAATC-AAATATTATCATTTAATTCAT-ATTAAATTA-
* *
3236772 TTTTTAAAAAATTCATTTATTTT-ATGAGTTATTGATTTTCTTTGTAAATGTTTTTAGGGGG
62 TTTTTAAAAAATTCATTCATTTTCATGAGTTATTCATTTTCTTTGTAAATGTTTTTAGGGGG
* * ** * *
3236833 TTTTCTCTGTTTTTAATTTTTAAAATAAATCAAATATTATTATTTAATTCATATTAAATTATTTT
1 TTTTCTCGGTTTTGAATCATCAAAATAAATCAAATATTATCATTTAATTCATATTAAATTATTTT
* * *
3236898 TAGAAAATTCGTTCATTTTCATGAGTTTTTCATTTT
66 TAAAAAATTCATTCATTTTCATGAGTTATTCATTTT
3236934 TTCCCTTGAA
Statistics
Matches: 84, Mismatches: 13, Indels: 8
0.80 0.12 0.08
Matches are distributed among these distances:
122 27 0.32
123 53 0.63
124 4 0.05
ACGTcount: A:0.31, C:0.08, G:0.08, T:0.52
Consensus pattern (123 bp):
TTTTCTCGGTTTTGAATCATCAAAATAAATCAAATATTATCATTTAATTCATATTAAATTATTTT
TAAAAAATTCATTCATTTTCATGAGTTATTCATTTTCTTTGTAAATGTTTTTAGGGGG
Found at i:3237110 original size:167 final size:166
Alignment explanation
Indices: 3236822--3237269 Score: 455
Period size: 167 Copynumber: 2.7 Consensus size: 166
3236812 TTTGTAAATG
* ** * * *
3236822 TTTT-TAGGGGGTTTTCTCTGTTTTTAATTTTTAAAATAAATCAAATATTATTATTTAATTCATA
1 TTTTGTAGGGGGTTTTCTCAG-TTGAAATTTTTAAAATACATCAAATATTATCATTCAATTCATA
* * * * *
3236886 TTAAATTATTTTT-AGAAAATTCGTTCATTTTCATGAGTTTTTCATTTTTTCCCTTGAAATTCTC
65 TTAAATTATTTTTGA-AAAATTCATTTATTTTCATGAGTTTTTAATTTTTTTCCTTGAAATGC-C
* * * *
3236950 C-TATTTTGGAAAAA-CTTAGTTTTCTATTCCAT-AAGGT
128 CTTATTTTCGAAAAATC-AAATTTTCTATCCCATAAAGGT
*
3236987 TTTTGTAGGGGGTTTTTCTCAGTTAGAAATTTTTAAAATTCATCAAATATTATCATTCAATTCAT
1 TTTTGTAGGGGG-TTTTCTCAGTT-GAAATTTTTAAAATACATCAAATATTATCATTCAATTCAT
* * *
3237052 ATTAAATCATTTTTGAAAAATTCATTTATTTTCATTAGTTTTTTATTTTTTTCCTTGAAATGCCC
64 ATTAAATTATTTTTGAAAAATTCATTTATTTTCATGAGTTTTTAATTTTTTTCCTTGAAATGCCC
*
3237117 TTATTTTCGAAAAATCAAATTTTCTATCCCATAAATGT
129 TTATTTTCGAAAAATCAAATTTTCTATCCCATAAAGGT
* * * * * * * *
3237155 TTTTG--GGGGGATTTTCTTCAGTTGAAATTTCTATAATGCAT-ATGATATTGTCATTGAACTCC
1 TTTTGTAGGGGG-TTTTC-TCAGTTGAAATTTTTAAAATACATCA-AATATTATCATTCAATTCA
* * * *
3237217 CATTAAATTAGTTTTGAGAAATTCAATTTATTTT-ATGAGTTTTGAATTTTTTT
63 TATTAAATTATTTTTGAAAAATTC-ATTTATTTTCATGAGTTTTTAATTTTTTT
3237270 AATATATATT
Statistics
Matches: 238, Mismatches: 35, Indels: 19
0.82 0.12 0.07
Matches are distributed among these distances:
165 5 0.02
166 86 0.36
167 136 0.57
168 11 0.05
ACGTcount: A:0.29, C:0.11, G:0.11, T:0.49
Consensus pattern (166 bp):
TTTTGTAGGGGGTTTTCTCAGTTGAAATTTTTAAAATACATCAAATATTATCATTCAATTCATAT
TAAATTATTTTTGAAAAATTCATTTATTTTCATGAGTTTTTAATTTTTTTCCTTGAAATGCCCTT
ATTTTCGAAAAATCAAATTTTCTATCCCATAAAGGT
Found at i:3237412 original size:6 final size:5
Alignment explanation
Indices: 3237398--3237447 Score: 57
Period size: 5 Copynumber: 9.8 Consensus size: 5
3237388 ATTAACTCAA
**
3237398 ATTTT ATTTT GATTTT -TTGA AATTTT ATTTT ATTTT ATTTT ATTTT ATTT
1 ATTTT ATTTT -ATTTT ATTTT A-TTTT ATTTT ATTTT ATTTT ATTTT ATTT
3237448 GTTTTTCCAA
Statistics
Matches: 38, Mismatches: 4, Indels: 6
0.79 0.08 0.12
Matches are distributed among these distances:
4 2 0.05
5 28 0.74
6 8 0.21
ACGTcount: A:0.22, C:0.00, G:0.04, T:0.74
Consensus pattern (5 bp):
ATTTT
Found at i:3237429 original size:5 final size:5
Alignment explanation
Indices: 3237419--3237447 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
3237409 ATTTTTTGAA
3237419 ATTTT ATTTT ATTTT ATTTT ATTTT ATTT
1 ATTTT ATTTT ATTTT ATTTT ATTTT ATTT
3237448 GTTTTTCCAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (5 bp):
ATTTT
Found at i:3239597 original size:13 final size:13
Alignment explanation
Indices: 3239579--3239603 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3239569 CATAAAGTGT
3239579 TGTATCGATACAA
1 TGTATCGATACAA
3239592 TGTATCGATACA
1 TGTATCGATACA
3239604 TAAGTTTTGT
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:3239619 original size:32 final size:33
Alignment explanation
Indices: 3239559--3239621 Score: 110
Period size: 32 Copynumber: 1.9 Consensus size: 33
3239549 TTCAATGATT
3239559 TGTATCGATACATAAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAAGTGTTGTATCGATACAA
*
3239592 TGTATCGATACAT-AAGTTTTGTATCGATAC
1 TGTATCGATACATAAAGTGTTGTATCGATAC
3239622 CATTTAAGCT
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
32 16 0.55
33 13 0.45
ACGTcount: A:0.33, C:0.13, G:0.17, T:0.37
Consensus pattern (33 bp):
TGTATCGATACATAAAGTGTTGTATCGATACAA
Found at i:3239684 original size:13 final size:13
Alignment explanation
Indices: 3239666--3239690 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3239656 ATTACTCAAC
3239666 TGTATCGATACAT
1 TGTATCGATACAT
3239679 TGTATCGATACA
1 TGTATCGATACA
3239691 CTGATCTTTG
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:3239743 original size:52 final size:52
Alignment explanation
Indices: 3239699--3239827 Score: 240
Period size: 52 Copynumber: 2.5 Consensus size: 52
3239689 CACTGATCTT
*
3239699 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
1 TGTATTGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
3239751 TGTATTGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
1 TGTATTGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
*
3239803 TGTATTGATACATACAGGCAAATTT
1 TGTATTGATACATGCAGGCAAATTT
3239828 TCATATTTCG
Statistics
Matches: 75, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
52 75 1.00
ACGTcount: A:0.36, C:0.17, G:0.17, T:0.29
Consensus pattern (52 bp):
TGTATTGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:3248116 original size:30 final size:30
Alignment explanation
Indices: 3248053--3248264 Score: 266
Period size: 31 Copynumber: 6.9 Consensus size: 30
3248043 ATACCTTTTT
*
3248053 AAAGTCCACGACTCAGTGGCAATCTCTTCTC
1 AAAGTCCACGACTCAGTGGC-ATCTTTTCTC
*
3248084 AAAGCCCACGACTCAGTGGCAT-TTTGTCTC
1 AAAGTCCACGACTCAGTGGCATCTTT-TCTC
3248114 AAAGTCCACGACTCAGTGGCATCCTTTTCTC
1 AAAGTCCACGACTCAGTGGCAT-CTTTTCTC
*
3248145 AAAGCCCACGACTCAGTGGCAT-TTTGTCTC
1 AAAGTCCACGACTCAGTGGCATCTTT-TCTC
*
3248175 AAAGTCCACGACTCAATGGCATCCTTTTCTTC
1 AAAGTCCACGACTCAGTGGCAT-CTTTTC-TC
* *
3248207 AAAGTCCATGACTCAGTGGCATTTTTTCTTC
1 AAAGTCCACGACTCAGTGGCATCTTTTC-TC
* * *
3248238 AAAGTCCACAACTCCGTGGCACCTTTT
1 AAAGTCCACGACTCAGTGGCATCTTTT
3248265 TCTTTTTAAA
Statistics
Matches: 160, Mismatches: 14, Indels: 14
0.85 0.07 0.07
Matches are distributed among these distances:
29 5 0.03
30 51 0.32
31 76 0.47
32 28 0.17
ACGTcount: A:0.24, C:0.30, G:0.17, T:0.29
Consensus pattern (30 bp):
AAAGTCCACGACTCAGTGGCATCTTTTCTC
Found at i:3248128 original size:61 final size:61
Alignment explanation
Indices: 3248053--3248264 Score: 320
Period size: 61 Copynumber: 3.5 Consensus size: 61
3248043 ATACCTTTTT
*
3248053 AAAGTCCACGACTCAGTGGCAAT-CTCTTCTCAAAGCCCACGACTCAGTGGCATTTTGTCTC
1 AAAGTCCACGACTCAGTGGC-ATCCTTTTCTCAAAGCCCACGACTCAGTGGCATTTTGTCTC
3248114 AAAGTCCACGACTCAGTGGCATCCTTTTCTCAAAGCCCACGACTCAGTGGCATTTTGTCTC
1 AAAGTCCACGACTCAGTGGCATCCTTTTCTCAAAGCCCACGACTCAGTGGCATTTTGTCTC
* * * *
3248175 AAAGTCCACGACTCAATGGCATCCTTTTCTTCAAAGTCCATGACTCAGTGGCATTTTTTCTTC
1 AAAGTCCACGACTCAGTGGCATCCTTTTC-TCAAAGCCCACGACTCAGTGGCATTTTGTC-TC
* *
3248238 AAAGTCCACAACTCCGTGGCA-CCTTTT
1 AAAGTCCACGACTCAGTGGCATCCTTTT
3248265 TCTTTTTAAA
Statistics
Matches: 140, Mismatches: 8, Indels: 5
0.92 0.05 0.03
Matches are distributed among these distances:
60 2 0.01
61 85 0.61
62 33 0.24
63 20 0.14
ACGTcount: A:0.24, C:0.30, G:0.17, T:0.29
Consensus pattern (61 bp):
AAAGTCCACGACTCAGTGGCATCCTTTTCTCAAAGCCCACGACTCAGTGGCATTTTGTCTC
Found at i:3248284 original size:34 final size:34
Alignment explanation
Indices: 3248238--3248833 Score: 504
Period size: 34 Copynumber: 17.9 Consensus size: 34
3248228 TTTTTTCTTC
*
3248238 AAAGTCCACAACTCCGTGGCACCTTTTTCTTTTT
1 AAAGCCCACAACTCCGTGGCACCTTTTTCTTTTT
3248272 AAAGCCCACAACTCCGTGGCACCTTTTTC-TTTT
1 AAAGCCCACAACTCCGTGGCACCTTTTTCTTTTT
* *
3248305 -AAGCCCACAACTCCGTGGCACTCTTTTTCCTTCT
1 AAAGCCCACAACTCCGTGGCAC-CTTTTTCTTTTT
* * *
3248339 -AAGTCTACAACTCCGTGGCA-C-----CATTTT
1 AAAGCCCACAACTCCGTGGCACCTTTTTCTTTTT
*
3248366 -AAGCCCACAACGCCGTGGCACTCTTTTTCTTTTT
1 AAAGCCCACAACTCCGTGGCAC-CTTTTTCTTTTT
3248400 -AAGCCCACAACTCCGTGGCACC-TTTTCTTTTT
1 AAAGCCCACAACTCCGTGGCACCTTTTTCTTTTT
* *
3248432 AAAGCCCACCACTTCGTGGCACTCTTTTTCTTTTT
1 AAAGCCCACAACTCCGTGGCAC-CTTTTTCTTTTT
* * *
3248467 AAAGTCCACAACTCCGTGGCA--TTCTCCTTTTTT
1 AAAGCCCACAACTCCGTGGCACCTTTTTC-TTTTT
* * * * *
3248500 CAAAGTCCACGACTTCGTGGCACCCTTTT-TTTTA
1 -AAAGCCCACAACTCCGTGGCACCTTTTTCTTTTT
* * * * *
3248534 AAAGTCCACAACCCCGTGGCACCTTGTTCCTTCT
1 AAAGCCCACAACTCCGTGGCACCTTTTTCTTTTT
* * * *
3248568 -AAGTCCACAACTCTGTGCCACC---TTCTTTTC
1 AAAGCCCACAACTCCGTGGCACCTTTTTCTTTTT
*
3248598 AAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTT
1 AAAGCCCACAACTCCGTGGCAC-CTTTTT-CTTTTT
* * * *
3248634 AAAGTCCACAACCCCGTGGCACCTTGTTCCTTTT
1 AAAGCCCACAACTCCGTGGCACCTTTTTCTTTTT
* * ** * *
3248668 -AAGTCAATGACTCTGTGGCACC---TTCTTTTC
1 AAAGCCCACAACTCCGTGGCACCTTTTTCTTTTT
*
3248698 AAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTT
1 AAAGCCCACAACTCCGTGGCAC-CTTTTT-CTTTTT
* * *
3248734 AAAGTCCACAA-TCTCGTGGCACCTTGTTCCTTTT
1 AAAGCCCACAACTC-CGTGGCACCTTTTTCTTTTT
*
3248768 -AAGCCCACAACTCCGTGGCAACTTTTTCTTTTT
1 AAAGCCCACAACTCCGTGGCACCTTTTTCTTTTT
* *
3248801 AAAGCCCACATAAGTCGGTGGCAACCTTTTTCT
1 AAAGCCCAC--AACTCCGTGGC-ACCTTTTTCT
3248834 AAAGCCCACA
Statistics
Matches: 458, Mismatches: 69, Indels: 67
0.77 0.12 0.11
Matches are distributed among these distances:
27 21 0.05
29 1 0.00
30 11 0.02
31 34 0.07
32 38 0.08
33 121 0.26
34 122 0.27
35 44 0.10
36 57 0.12
37 9 0.02
ACGTcount: A:0.20, C:0.33, G:0.13, T:0.34
Consensus pattern (34 bp):
AAAGCCCACAACTCCGTGGCACCTTTTTCTTTTT
Found at i:3248331 original size:33 final size:32
Alignment explanation
Indices: 3248229--3248833 Score: 440
Period size: 33 Copynumber: 18.2 Consensus size: 32
3248219 TCAGTGGCAT
** *
3248229 TTTTTCTTCAAAGTCCACAACTCCGTGGCACC
1 TTTTTCTTTTAAGCCCACAACTCCGTGGCACC
3248261 TTTTTCTTTTTAAAGCCCACAACTCCGTGGCACC
1 TTTTTC-TTTT-AAGCCCACAACTCCGTGGCACC
3248295 TTTTTCTTTTAAGCCCACAACTCCGTGGCACTC
1 TTTTTCTTTTAAGCCCACAACTCCGTGGCAC-C
* * *
3248328 TTTTTCCTTCTAAGTCTACAACTCCGTGGCACC
1 TTTTT-CTTTTAAGCCCACAACTCCGTGGCACC
* *
3248361 -----ATTTTAAGCCCACAACGCCGTGGCACTC
1 TTTTTCTTTTAAGCCCACAACTCCGTGGCAC-C
3248389 TTTTTCTTTTTAAGCCCACAACTCCGTGGCACC
1 TTTTTC-TTTTAAGCCCACAACTCCGTGGCACC
* *
3248422 -TTTTCTTTTTAAAGCCCACCACTTCGTGGCACTC
1 TTTTTC-TTTT-AAGCCCACAACTCCGTGGCAC-C
*
3248456 TTTTTCTTTTTAAAGTCCACAACTCCGTGGCATTCTC
1 TTTTTC-TTTT-AAGCCCACAACTCCGTGGCA--C-C
* ** * * *
3248493 CTTTT-TTCAAAGTCCACGACTTCGTGGCACCC
1 TTTTTCTTTTAAGCCCACAACTCCGTGGCA-CC
* * *
3248525 TTTTT-TTTAAAAGTCCACAACCCCGTGGCACC
1 TTTTTCTTT-TAAGCCCACAACTCCGTGGCACC
* * * * *
3248557 TTGTTCCTTCTAAGTCCACAACTCTGTGCCACC
1 TT-TTTCTTTTAAGCCCACAACTCCGTGGCACC
* **
3248590 TTCTT-TTCAAAGCCCACAACTCCGTGGCACTC
1 TTTTTCTTTTAAGCCCACAACTCCGTGGCAC-C
* *
3248622 TTTTTCCCTTTTAAAGTCCACAACCCCGTGGCACC
1 TTTTT--CTTTT-AAGCCCACAACTCCGTGGCACC
* * * ** *
3248657 TTGTTCCTTTTAAGTCAATGACTCTGTGGCACC
1 TT-TTTCTTTTAAGCCCACAACTCCGTGGCACC
* **
3248690 TTCTT-TTCAAAGCCCACAACTCCGTGGCACTC
1 TTTTTCTTTTAAGCCCACAACTCCGTGGCAC-C
*
3248722 TTTTTCCCTTTTAAAGTCCACAA-TCTCGTGGCACC
1 TTTTT--CTTTT-AAGCCCACAACTC-CGTGGCACC
* *
3248757 TTGTTCCTTTTAAGCCCACAACTCCGTGGCAAC
1 TT-TTTCTTTTAAGCCCACAACTCCGTGGCACC
* *
3248790 TTTTTCTTTTTAAAGCCCACATAAGTCGGTGGCAACC
1 TTTTTC-TTTT-AAGCCCAC--AACTCCGTGGC-ACC
3248827 TTTTTCT
1 TTTTTCT
3248834 AAAGCCCACA
Statistics
Matches: 463, Mismatches: 72, Indels: 72
0.76 0.12 0.12
Matches are distributed among these distances:
27 21 0.05
28 1 0.00
31 39 0.08
32 63 0.14
33 117 0.25
34 115 0.25
35 42 0.09
36 50 0.11
37 15 0.03
ACGTcount: A:0.20, C:0.32, G:0.13, T:0.34
Consensus pattern (32 bp):
TTTTTCTTTTAAGCCCACAACTCCGTGGCACC
Found at i:3248374 original size:61 final size:62
Alignment explanation
Indices: 3248243--3248810 Score: 298
Period size: 67 Copynumber: 8.6 Consensus size: 62
3248233 TCTTCAAAGT
*
3248243 CCACAACTCCGTGGCAC-CTTTTTCTTTTTAAAGCCCACAACTCCGTGGCACCTTTTTCTTTTAA
1 CCACAACTCCGTGGCACTCTTTTTCTTTTTAAAGCCCACAACTCCGTGGCACC-----ATTTTAA
3248307 GC
61 GC
* * * *
3248309 CCACAACTCCGTGGCACTCTTTTTCCTTCT-AAGTCTACAACTCCGTGGCACCATTTTAAGC
1 CCACAACTCCGTGGCACTCTTTTTCTTTTTAAAGCCCACAACTCCGTGGCACCATTTTAAGC
* *
3248370 CCACAACGCCGTGGCACTCTTTTTCTTTTT-AAGCCCACAACTCCGTGGCACCTTTTCTTTTTAA
1 CCACAACTCCGTGGCACTCTTTTTCTTTTTAAAGCCCACAACTCCGTGGCA-C----CATTTT-A
3248434 AGC
60 AGC
* * * *
3248437 CCACCACTTCGTGGCACTCTTTTTCTTTTTAAAGTCCACAACTCCGTGGCATTCTCCTTTTTTCA
1 CCACAACTCCGTGGCACTCTTTTTCTTTTTAAAGCCCACAACTCCGTGGCA----CC-ATTTT--
*
3248502 AAGT
59 AAGC
* * * * * * *
3248506 CCACGACTTCGTGGCAC-CCTTTT-TTTTAAAAGTCCACAACCCCGTGGCACCTTGTTCCTTCTA
1 CCACAACTCCGTGGCACTCTTTTTCTTTTTAAAGCCCACAACTCCGTGGCACC---AT--TT-TA
*
3248569 AGT
60 AGC
* * * *
3248572 CCACAACTCTGTGCCAC-C---TTCTTTTCAAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTT
1 CCACAACTCCGTGGCACTCTTTTTCTTTTTAAAGCCCACAACTCCGTGGCA--------CCATTT
*
3248633 TAAAGT
58 T-AAGC
* * * * * ** * *
3248639 CCACAACCCCGTGGCAC-CTTGTTCCTTTT-AAGTCAATGACTCTGTGGCACCTTCTTTTCAAAG
1 CCACAACTCCGTGGCACTCTTTTTCTTTTTAAAGCCCACAACTCCGTGGCACC--ATTTT--AAG
3248702 C
62 C
* * *
3248703 CCACAACTCCGTGGCACTCTTTTTCCCTTTTAAAGTCCACAA-TCTCGTGGCACCTTGTTCCTTT
1 CCACAACTCCGTGGCACTCTTTTT-CTTTTTAAAGCCCACAACTC-CGTGGCA-C-----CATTT
3248767 TAAGC
58 TAAGC
*
3248772 CCACAACTCCGTGGCA-ACTTTTTCTTTTTAAAGCCCACA
1 CCACAACTCCGTGGCACTCTTTTTCTTTTTAAAGCCCACA
3248811 TAAGTCGGTG
Statistics
Matches: 408, Mismatches: 50, Indels: 87
0.75 0.09 0.16
Matches are distributed among these distances:
61 55 0.13
62 1 0.00
63 9 0.02
64 43 0.11
65 7 0.02
66 69 0.17
67 116 0.28
68 37 0.09
69 56 0.14
70 6 0.01
71 6 0.01
72 2 0.00
73 1 0.00
ACGTcount: A:0.20, C:0.33, G:0.13, T:0.34
Consensus pattern (62 bp):
CCACAACTCCGTGGCACTCTTTTTCTTTTTAAAGCCCACAACTCCGTGGCACCATTTTAAGC
Found at i:3248530 original size:31 final size:31
Alignment explanation
Indices: 3248048--3248726 Score: 274
Period size: 33 Copynumber: 21.1 Consensus size: 31
3248038 TTCAAATACC
* * **
3248048 TTTTT-AAAGTCCACGACTCAGTGGCAATCT
1 TTTTTCAAAGTCCACAACTCCGTGGCACCCT
* * * * *
3248078 CTTCTCAAAGCCCACGACTCAGTGGCA---T
1 TTTTTCAAAGTCCACAACTCCGTGGCACCCT
* * *
3248106 TTTGTCTCAAAGTCCACGACTCAGTGGCATCCT
1 TTT-T-TCAAAGTCCACAACTCCGTGGCACCCT
* * * *
3248139 TTTCTCAAAGCCCACGACTCAGTGGCA---T
1 TTTTTCAAAGTCCACAACTCCGTGGCACCCT
* ** *
3248167 TTTGTCTCAAAGTCCACGACTCAATGGCATCCT
1 TTT-T-TCAAAGTCCACAACTCCGTGGCACCCT
** * **
3248200 TTTCTTCAAAGTCCATGACTCAGTGGCA-TTT
1 TTT-TTCAAAGTCCACAACTCCGTGGCACCCT
*
3248231 TTTCTTCAAAGTCCACAACTCCGTGGCACCTTTT
1 TTT-TTCAAAGTCCACAACTCCGTGGCACC--CT
* * *
3248265 TCTTTTTAAAGCCCACAACTCCGTGGCACCTT
1 T-TTTTCAAAGTCCACAACTCCGTGGCACCCT
** * *
3248297 TTTCTTTTAAGCCCACAACTCCGTGGCACTCTT
1 TTT-TTCAAAGTCCACAACTCCGTGGCAC-CCT
* *
3248330 TTTCCTTCTAAGTCTACAACTCCGTGGCA-CC-
1 TTT--TTCAAAGTCCACAACTCCGTGGCACCCT
* * * *
3248361 ATTTT--AAGCCCACAACGCCGTGGCACTCTTT
1 TTTTTCAAAGTCCACAACTCCGTGGCAC-C-CT
** * *
3248392 TTCTTTTTAAGCCCACAACTCCGTGGCACCTTT
1 TT-TTTCAAAGTCCACAACTCCGTGGCACC-CT
* * * * *
3248425 TCTTTTTAAAGCCCACCACTTCGTGGCACTCTTTT
1 T-TTTTCAAAGTCCACAACTCCGTGGCAC-C--CT
*
3248460 TCTTTTTAAAGTCCACAACTCCGTGGCATTCTCCT
1 T-TTTTCAAAGTCCACAACTCCGTGGCA--C-CCT
* *
3248495 TTTTTCAAAGTCCACGACTTCGTGGCACCCTTT
1 TTTTTCAAAGTCCACAACTCCGTGGCACCC--T
* *
3248528 TTTTTAAAAGTCCACAACCCCGTGGCA-CCT
1 TTTTTCAAAGTCCACAACTCCGTGGCACCCT
* * *
3248558 TGTTCCTTCTAAGTCCACAACTCTGTGCCA-CCT
1 T-TT--TTCAAAGTCCACAACTCCGTGGCACCCT
* *
3248591 TCTTTTCAAAGCCCACAACTCCGTGGCACTCTTT
1 T-TTTTCAAAGTCCACAACTCCGTGGCAC-C-CT
* *
3248625 TTCCCTTTTAAAGTCCACAACCCCGTGGCA-CCT
1 TT---TTTCAAAGTCCACAACTCCGTGGCACCCT
** * ** *
3248658 TGTTCCTTTTAAGTCAATGACTCTGTGGCA-CCT
1 T-TT--TTCAAAGTCCACAACTCCGTGGCACCCT
* *
3248691 TCTTTTCAAAGCCCACAACTCCGTGGCACTCT
1 T-TTTTCAAAGTCCACAACTCCGTGGCACCCT
3248723 TTTT
1 TTTT
3248727 CCCTTTTAAA
Statistics
Matches: 526, Mismatches: 78, Indels: 89
0.76 0.11 0.13
Matches are distributed among these distances:
27 17 0.03
28 7 0.01
29 3 0.01
30 48 0.09
31 118 0.22
32 58 0.11
33 120 0.23
34 98 0.19
35 32 0.06
36 22 0.04
37 3 0.01
ACGTcount: A:0.21, C:0.32, G:0.14, T:0.33
Consensus pattern (31 bp):
TTTTTCAAAGTCCACAACTCCGTGGCACCCT
Found at i:3248638 original size:100 final size:99
Alignment explanation
Indices: 3248238--3248810 Score: 560
Period size: 100 Copynumber: 5.7 Consensus size: 99
3248228 TTTTTTCTTC
* * * *
3248238 AAAGTCCACAACTCCGTGGCACCTTTTTCTTTTTAAAGCCCACAACTCCGTGGCACCTTTTTCTT
1 AAAGTCCACAACCCCGTGGCACCTTGTTCCTTTT-AAGCCCACAACTCCGTGGCACCTTCTT-TT
** *
3248303 TTAAGCCCACAACTCCGTGGCACTCTTTTTCCTTCT
64 CAAAGCCCACAACTCCGTGGCACTCTTTTTCCTTTT
* * * *
3248339 -AAGTCTACAACTCCGTGGCA-C-----CATTTTAAGCCCACAACGCCGTGGCACTCTTTTTCTT
1 AAAGTCCACAACCCCGTGGCACCTTGTTCCTTTTAAGCCCACAACTCCGTGGCAC-C---TTCTT
* *
3248397 TT-TAAGCCCACAACTCCGTGGCAC-C-TTTTCTTTTT
62 TTCAAAGCCCACAACTCCGTGGCACTCTTTTTCCTTTT
* * ** * * *
3248432 AAAGCCCACCACTTCGTGGCACTCTTTTTCTTTTTAAAGTCCACAACTCCGTGGCATTCTCCTT-
1 AAAGTCCACAACCCCGTGGCAC-CTTGTTCCTTTT-AAGCCCACAACTCCGTGGCA----CCTTC
* * * * *
3248496 TTTTCAAAGTCCACGACTTCGTGGCACCCTTTTT--TTTA
60 TTTTCAAAGCCCACAACTCCGTGGCACTCTTTTTCCTTTT
* * * *
3248534 AAAGTCCACAACCCCGTGGCACCTTGTTCCTTCTAAGTCCACAACTCTGTGCCACCTTCTTTTCA
1 AAAGTCCACAACCCCGTGGCACCTTGTTCCTTTTAAGCCCACAACTCCGTGGCACCTTCTTTTCA
3248599 AAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTT
66 AAGCCCACAACTCCGTGGCACTCTTTTT-CCTTTT
* * ** *
3248634 AAAGTCCACAACCCCGTGGCACCTTGTTCCTTTTAAGTCAATGACTCTGTGGCACCTTCTTTTCA
1 AAAGTCCACAACCCCGTGGCACCTTGTTCCTTTTAAGCCCACAACTCCGTGGCACCTTCTTTTCA
3248699 AAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTT
66 AAGCCCACAACTCCGTGGCACTCTTTTT-CCTTTT
* * *
3248734 AAAGTCCACAATCTCGTGGCACCTTGTTCCTTTTAAGCCCACAACTCCGTGGCAACTTTTTCTTT
1 AAAGTCCACAACCCCGTGGCACCTTGTTCCTTTTAAGCCCACAACTCCGTGGC-AC--CTTCTTT
*
3248799 TTAAAGCCCACA
63 TCAAAGCCCACA
3248811 TAAGTCGGTG
Statistics
Matches: 399, Mismatches: 46, Indels: 52
0.80 0.09 0.10
Matches are distributed among these distances:
93 28 0.07
94 23 0.06
95 22 0.06
96 7 0.02
97 34 0.09
99 1 0.00
100 181 0.45
101 20 0.05
102 59 0.15
103 18 0.05
104 4 0.01
105 1 0.00
106 1 0.00
ACGTcount: A:0.21, C:0.33, G:0.13, T:0.34
Consensus pattern (99 bp):
AAAGTCCACAACCCCGTGGCACCTTGTTCCTTTTAAGCCCACAACTCCGTGGCACCTTCTTTTCA
AAGCCCACAACTCCGTGGCACTCTTTTTCCTTTT
Found at i:3248840 original size:33 final size:33
Alignment explanation
Indices: 3248800--3249257 Score: 617
Period size: 33 Copynumber: 14.0 Consensus size: 33
3248790 TTTTTCTTTT
* * *
3248800 TAAAGCCCACATAAGTCGGTGGCAACCTTTTTC
1 TAAAGCCCACACAAGTCGGTGGCAACCATTCTC
3248833 TAAAGCCCACACAAGTCGGTGGCAACCATTCTC
1 TAAAGCCCACACAAGTCGGTGGCAACCATTCTC
* * **
3248866 CAAAGCCCACACAAGTTGGTGGCAACC-CCCTC
1 TAAAGCCCACACAAGTCGGTGGCAACCATTCTC
*
3248898 TAAAGCCCACACAAGTTGGTGGCAACCATTCTC
1 TAAAGCCCACACAAGTCGGTGGCAACCATTCTC
3248931 TAAAGCCCACACAAGTCGGTGGCAACCA-TCTTC
1 TAAAGCCCACACAAGTCGGTGGCAACCATTC-TC
*
3248964 TAAAGCCCACACAAGTCGGTGGCAACCCTTCTC
1 TAAAGCCCACACAAGTCGGTGGCAACCATTCTC
*
3248997 TAAAGCTCACACAAGTCGGTGGCAACC-TTCTTC
1 TAAAGCCCACACAAGTCGGTGGCAACCATTC-TC
3249030 TAAAGCCCACACAAGTCGGTGGCAACC-TTCTTC
1 TAAAGCCCACACAAGTCGGTGGCAACCATTC-TC
* *
3249063 TAAAGCCCACACAAGTTGGTGGCAATCC--CCTC
1 TAAAGCCCACACAAGTCGGTGGCAA-CCATTCTC
* *
3249095 -AGAAGCCCACACAAGTTGGTGGCAACCTTTCTC
1 TA-AAGCCCACACAAGTCGGTGGCAACCATTCTC
* *
3249128 TAAAGCCCACATAAGTTGGTGGCAACCATTCTC
1 TAAAGCCCACACAAGTCGGTGGCAACCATTCTC
* * **
3249161 CAAAGCCCACATAAGTCGGTGGCAACC-CCCTC
1 TAAAGCCCACACAAGTCGGTGGCAACCATTCTC
*
3249193 TAAAGCCCACACAAGTTGGTGGCAACCATTCTC
1 TAAAGCCCACACAAGTCGGTGGCAACCATTCTC
*
3249226 TAAAGCCCACACAAGTCGGTGGCAACCCTTCT
1 TAAAGCCCACACAAGTCGGTGGCAACCATTCT
3249258 AAGCCCAATA
Statistics
Matches: 385, Mismatches: 30, Indels: 20
0.89 0.07 0.05
Matches are distributed among these distances:
31 3 0.01
32 86 0.22
33 291 0.76
34 5 0.01
ACGTcount: A:0.29, C:0.33, G:0.19, T:0.20
Consensus pattern (33 bp):
TAAAGCCCACACAAGTCGGTGGCAACCATTCTC
Found at i:3248933 original size:98 final size:98
Alignment explanation
Indices: 3248800--3249257 Score: 690
Period size: 98 Copynumber: 4.7 Consensus size: 98
3248790 TTTTTCTTTT
* * * *
3248800 TAAAGCCCACATAAGTCGGTGGCAACCTTTTTCTAAAGCCCACACAAGTCGGTGGCAACCATTCT
1 TAAAGCCCACACAAGTTGGTGGCAACCATTCTCTAAAGCCCACACAAGTCGGTGGCAACCATTCT
*
3248865 CCAAAGCCCACACAAGTTGGTGGCAACCCCCTC
66 CCAAAGCCCACACAAGTCGGTGGCAACCCCCTC
3248898 TAAAGCCCACACAAGTTGGTGGCAACCATTCTCTAAAGCCCACACAAGTCGGTGGCAACCA-TCT
1 TAAAGCCCACACAAGTTGGTGGCAACCATTCTCTAAAGCCCACACAAGTCGGTGGCAACCATTC-
* *
3248962 TCTAAAGCCCACACAAGTCGGTGGCAACCCTTCTC
65 TCCAAAGCCCACACAAGTCGGTGGCAACCC-CCTC
* *
3248997 TAAAGCTCACACAAGTCGGTGGCAACC-TTCTTCTAAAGCCCACACAAGTCGGTGGCAACC-TTC
1 TAAAGCCCACACAAGTTGGTGGCAACCATTC-TCTAAAGCCCACACAAGTCGGTGGCAACCATTC
* * *
3249060 TTCTAAAGCCCACACAAGTTGGTGGCAATCCCCTC
65 -TCCAAAGCCCACACAAGTCGGTGGCAACCCCCTC
* * *
3249095 -AGAAGCCCACACAAGTTGGTGGCAACCTTTCTCTAAAGCCCACATAAGTTGGTGGCAACCATTC
1 TA-AAGCCCACACAAGTTGGTGGCAACCATTCTCTAAAGCCCACACAAGTCGGTGGCAACCATTC
*
3249159 TCCAAAGCCCACATAAGTCGGTGGCAACCCCCTC
65 TCCAAAGCCCACACAAGTCGGTGGCAACCCCCTC
*
3249193 TAAAGCCCACACAAGTTGGTGGCAACCATTCTCTAAAGCCCACACAAGTCGGTGGCAACCCTTCT
1 TAAAGCCCACACAAGTTGGTGGCAACCATTCTCTAAAGCCCACACAAGTCGGTGGCAACCATTCT
3249258 AAGCCCAATA
Statistics
Matches: 328, Mismatches: 24, Indels: 16
0.89 0.07 0.04
Matches are distributed among these distances:
97 3 0.01
98 230 0.70
99 95 0.29
ACGTcount: A:0.29, C:0.33, G:0.19, T:0.20
Consensus pattern (98 bp):
TAAAGCCCACACAAGTTGGTGGCAACCATTCTCTAAAGCCCACACAAGTCGGTGGCAACCATTCT
CCAAAGCCCACACAAGTCGGTGGCAACCCCCTC
Found at i:3248949 original size:131 final size:131
Alignment explanation
Indices: 3248800--3249257 Score: 636
Period size: 131 Copynumber: 3.5 Consensus size: 131
3248790 TTTTTCTTTT
* * ** *
3248800 TAAAGCCCACATAAGTCGGTGGCAACCTTTTTCTAAAGCCCACACAAGTCGGTGGCAACCATTCT
1 TAAAGCCCACACAAGTCGGTGGCAACCATCCTCTAAAGCCCACACAAGTCGGTGGCAACCCTTCT
* * *
3248865 CCAAAGCCCACACAAGTTGGTGGCAACC-CCCTCTAAAGCCCACACAAGTTGGTGGCAACCATTC
66 CTAAAGCCCACACAAGTTGGTGGCAACCATCCTCTAAAGCCCACACAAGTCGGTGGCAACC-TTC
3248929 TC
130 TC
*
3248931 TAAAGCCCACACAAGTCGGTGGCAACCATCTTCTAAAGCCCACACAAGTCGGTGGCAACCCTTCT
1 TAAAGCCCACACAAGTCGGTGGCAACCATCCTCTAAAGCCCACACAAGTCGGTGGCAACCCTTCT
* * * *
3248996 CTAAAGCTCACACAAGTCGGTGGCAACCTTCTTCTAAAGCCCACACAAGTCGGTGGCAACCTTCT
66 CTAAAGCCCACACAAGTTGGTGGCAACCATCCTCTAAAGCCCACACAAGTCGGTGGCAACCTTC-
3249061 TC
130 TC
* * *
3249063 TAAAGCCCACACAAGTTGGTGGCAATCC--CCTC-AGAAGCCCACACAAGTTGGTGGCAACCTTT
1 TAAAGCCCACACAAGTCGGTGGCAA-CCATCCTCTA-AAGCCCACACAAGTCGGTGGCAACCCTT
* * * * **
3249125 CTCTAAAGCCCACATAAGTTGGTGGCAACCATTCTCCAAAGCCCACATAAGTCGGTGGCAACCCC
64 CTCTAAAGCCCACACAAGTTGGTGGCAACCATCCTCTAAAGCCCACACAAGTCGGTGGCAACCTT
3249190 CTC
129 CTC
* *
3249193 TAAAGCCCACACAAGTTGGTGGCAACCATTCTCTAAAGCCCACACAAGTCGGTGGCAACCCTTCT
1 TAAAGCCCACACAAGTCGGTGGCAACCATCCTCTAAAGCCCACACAAGTCGGTGGCAACCCTTCT
3249258 AAGCCCAATA
Statistics
Matches: 293, Mismatches: 27, Indels: 14
0.88 0.08 0.04
Matches are distributed among these distances:
129 2 0.01
130 28 0.10
131 205 0.70
132 56 0.19
133 2 0.01
ACGTcount: A:0.29, C:0.33, G:0.19, T:0.20
Consensus pattern (131 bp):
TAAAGCCCACACAAGTCGGTGGCAACCATCCTCTAAAGCCCACACAAGTCGGTGGCAACCCTTCT
CTAAAGCCCACACAAGTTGGTGGCAACCATCCTCTAAAGCCCACACAAGTCGGTGGCAACCTTCT
C
Found at i:3249366 original size:43 final size:43
Alignment explanation
Indices: 3249303--3249576 Score: 350
Period size: 43 Copynumber: 6.1 Consensus size: 43
3249293 GCACCTTCTT
3249303 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCAC
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCAC
* * *
3249346 CTTTAAGTCCAATATCGCTGGCCATGAATCAGCATATTGGCACCTTC
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCA----C
*
3249393 ATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCAC
1 --CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCAC
* *
3249438 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTC
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCA----C
*
3249485 TTCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCAC
1 --CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCAC
* * *
3249530 CTTTAAATCCAATATAGCTGGCCTTGAATCAGCATATTAGCAC
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCAC
3249573 CTTT
1 CTTT
3249577 TCCATCTTTA
Statistics
Matches: 202, Mismatches: 17, Indels: 24
0.83 0.07 0.10
Matches are distributed among these distances:
43 121 0.60
45 2 0.01
47 2 0.01
49 77 0.38
ACGTcount: A:0.26, C:0.26, G:0.18, T:0.31
Consensus pattern (43 bp):
CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCAC
Found at i:3249419 original size:92 final size:92
Alignment explanation
Indices: 3249252--3249629 Score: 603
Period size: 92 Copynumber: 4.1 Consensus size: 92
3249242 CGGTGGCAAC
* * * *
3249252 CCTTCTAAGCCCAATATCGCTGGCCTTGAATCAACATATTGGCACCTTCTTCTTTAAGTCCAATA
1 CCTT-TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATG
3249317 TAGCTGGCCTTGAATCAGCACATTGGCA
65 TAGCTGGCCTTGAATCAGCACATTGGCA
*
3249345 CCTTTAAGTCCAATATCGCTGGCCATGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGT
1 CCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGT
3249410 AGCTGGCCTTGAATCAGCACATTGGCA
66 AGCTGGCCTTGAATCAGCACATTGGCA
*
3249437 CCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCTTCTTTAAGTCCAATGT
1 CCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGT
3249502 AGCTGGCCTTGAATCAGCACATTGGCA
66 AGCTGGCCTTGAATCAGCACATTGGCA
* * * *
3249529 CCTTTAAATCCAATATAGCTGGCCTTGAATCAGCATATTAGCACCTTTTCCATCTTTAAGTTCAA
1 CCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACC--TT-CATCTTTAAGTCCAA
* *
3249594 TGTAGCTGGCCTTAAATCAGCACATTGACA
63 TGTAGCTGGCCTTGAATCAGCACATTGGCA
3249624 TCCTTT
1 -CCTTT
3249630 TTCTCATCTT
Statistics
Matches: 267, Mismatches: 14, Indels: 5
0.93 0.05 0.02
Matches are distributed among these distances:
92 215 0.81
93 4 0.01
94 2 0.01
95 41 0.15
96 5 0.02
ACGTcount: A:0.26, C:0.26, G:0.16, T:0.31
Consensus pattern (92 bp):
CCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGT
AGCTGGCCTTGAATCAGCACATTGGCA
Found at i:3249600 original size:52 final size:55
Alignment explanation
Indices: 3249530--3249651 Score: 146
Period size: 52 Copynumber: 2.3 Consensus size: 55
3249520 ACATTGGCAC
* * *
3249530 CTTTAAATCCAATATAGCTGGCCTTGAATCAGCATATT-AGCA-CC-TTTTC-CAT
1 CTTTAAGTCCAATATAGCTGGCCTTAAATCAGCACATTGA-CATCCTTTTTCTCAT
* *
3249582 CTTTAAGTTCAATGTAGCTGGCCTTAAATCAGCACATTGACATCCTTTTTCTCAT
1 CTTTAAGTCCAATATAGCTGGCCTTAAATCAGCACATTGACATCCTTTTTCTCAT
3249637 CTTTAAG-CCTAATAT
1 CTTTAAGTCC-AATAT
3249652 CGTTGGCCGT
Statistics
Matches: 58, Mismatches: 7, Indels: 7
0.81 0.10 0.10
Matches are distributed among these distances:
52 35 0.60
53 3 0.05
54 6 0.10
55 14 0.24
ACGTcount: A:0.28, C:0.24, G:0.11, T:0.37
Consensus pattern (55 bp):
CTTTAAGTCCAATATAGCTGGCCTTAAATCAGCACATTGACATCCTTTTTCTCAT
Found at i:3250520 original size:13 final size:13
Alignment explanation
Indices: 3250502--3250526 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3250492 CATAAAGTGT
3250502 TGTATCGATACAA
1 TGTATCGATACAA
3250515 TGTATCGATACA
1 TGTATCGATACA
3250527 TAAGTTTTGT
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:3250542 original size:32 final size:33
Alignment explanation
Indices: 3250482--3250547 Score: 116
Period size: 32 Copynumber: 2.0 Consensus size: 33
3250472 TTCAACGATT
3250482 TGTATCGATACATAAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAAGTGTTGTATCGATACAA
*
3250515 TGTATCGATACAT-AAGTTTTGTATCGATACAA
1 TGTATCGATACATAAAGTGTTGTATCGATACAA
3250547 T
1 T
3250548 TTAAGCTACT
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
32 19 0.59
33 13 0.41
ACGTcount: A:0.35, C:0.12, G:0.17, T:0.36
Consensus pattern (33 bp):
TGTATCGATACATAAAGTGTTGTATCGATACAA
Found at i:3250678 original size:52 final size:52
Alignment explanation
Indices: 3250622--3250750 Score: 215
Period size: 52 Copynumber: 2.5 Consensus size: 52
3250612 CACTGATCTT
*
3250622 TGTATCGATACATGCAGGCAAATTTGCCCAGAT-GTATCGATACACTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAAATAG-ATCGATACACTATAAAA
3250674 TGTATCGATACATGCAGGCAAATTTGCCCAAATAGATCGATACACTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAAATAGATCGATACACTATAAAA
* *
3250726 AGTATTGATACATGCAGGCAAATTT
1 TGTATCGATACATGCAGGCAAATTT
3250751 TCATATTTCG
Statistics
Matches: 73, Mismatches: 3, Indels: 2
0.94 0.04 0.03
Matches are distributed among these distances:
52 72 0.99
53 1 0.01
ACGTcount: A:0.38, C:0.18, G:0.17, T:0.27
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAAATAGATCGATACACTATAAAA
Found at i:3252045 original size:32 final size:30
Alignment explanation
Indices: 3252009--3252067 Score: 75
Period size: 32 Copynumber: 1.9 Consensus size: 30
3251999 GAAAACAAAT
3252009 ACAAAGAGCT-TAGAAAAATAATAACAATATGA
1 ACAAA-AGCTCTAGAAAAAT-ATAA-AATATGA
*
3252041 ACAAAAGCTCTTGAAAAATATAAAATA
1 ACAAAAGCTCTAGAAAAATATAAAATA
3252068 CTTTGATCTA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
30 4 0.16
31 8 0.32
32 13 0.52
ACGTcount: A:0.59, C:0.10, G:0.10, T:0.20
Consensus pattern (30 bp):
ACAAAAGCTCTAGAAAAATATAAAATATGA
Found at i:3252366 original size:13 final size:13
Alignment explanation
Indices: 3252348--3252373 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
3252338 CAATTTTTTG
3252348 TGTATCGATACAT
1 TGTATCGATACAT
3252361 TGTATCGATACAT
1 TGTATCGATACAT
3252374 ACTTGGTGTA
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:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:3252388 original size:32 final size:33
Alignment explanation
Indices: 3252328--3252391 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 33
3252318 TACAAGCCAA
** *
3252328 TGTATCGATACAATTTTTTGTGTATCGATACAT
1 TGTATCGATACAATACTTGGTGTATCGATACAT
3252361 TGTATCGATAC-ATACTTGGTGTATCGATACA
1 TGTATCGATACAATACTTGGTGTATCGATACA
3252392 AGTTTGGCTA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 17 0.61
33 11 0.39
ACGTcount: A:0.28, C:0.14, G:0.17, T:0.41
Consensus pattern (33 bp):
TGTATCGATACAATACTTGGTGTATCGATACAT
Found at i:3254938 original size:13 final size:13
Alignment explanation
Indices: 3254920--3254957 Score: 67
Period size: 13 Copynumber: 2.9 Consensus size: 13
3254910 ATAATCCCCC
3254920 TGTATCGATACAG
1 TGTATCGATACAG
*
3254933 TGTATCGATACAT
1 TGTATCGATACAG
3254946 TGTATCGATACA
1 TGTATCGATACA
3254958 AAGAAAAATG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.32, C:0.16, G:0.18, T:0.34
Consensus pattern (13 bp):
TGTATCGATACAG
Found at i:3257051 original size:15 final size:15
Alignment explanation
Indices: 3257031--3257060 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
3257021 ATTTCGTTTG
*
3257031 GAGCTTCTTCATTTT
1 GAGCTTCCTCATTTT
3257046 GAGCTTCCTCATTTT
1 GAGCTTCCTCATTTT
3257061 AGACATTTTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.13, C:0.23, G:0.13, T:0.50
Consensus pattern (15 bp):
GAGCTTCCTCATTTT
Found at i:3266576 original size:21 final size:21
Alignment explanation
Indices: 3266532--3266577 Score: 58
Period size: 20 Copynumber: 2.2 Consensus size: 21
3266522 CTCAACACAA
*
3266532 ATTTCAACCACGTAAACTTAG
1 ATTTCAACCACGTAAACTCAG
*
3266553 ATTT-AACCATGTAAACTCATG
1 ATTTCAACCACGTAAACTCA-G
3266574 ATTT
1 ATTT
3266578 TATCAAATTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 13 0.59
21 9 0.41
ACGTcount: A:0.37, C:0.20, G:0.09, T:0.35
Consensus pattern (21 bp):
ATTTCAACCACGTAAACTCAG
Found at i:3268304 original size:58 final size:58
Alignment explanation
Indices: 3268236--3268799 Score: 266
Period size: 58 Copynumber: 9.9 Consensus size: 58
3268226 TAAAGCCATT
** * *
3268236 TTAGTCATTTTTTATGTTTTGAGGACTTTTATGTAATTTCATGTATTTTATGATCATA
1 TTAGTCATTTTCCATGTTTTAAGGACTTTTATGTAATTTCATGCATTTTATGATCATA
* * ** * *
3268294 TTAGTCATTTTCCATATTTTAAGGA-GTTTA-GTTCAATTTCATGCATTAAATGGTCATG
1 TTAGTCATTTTCCATGTTTTAAGGACTTTTATG-T-AATTTCATGCATTTTATGATCATA
* * * * *
3268352 TTAGTCATTTTCCATGATTT-AGAGACTTTTATGTAATATCATGCATTTTAAGACCATT
1 TTAGTCATTTTCCATGTTTTAAG-GACTTTTATGTAATTTCATGCATTTTATGATCATA
* * * * * * * *
3268410 TTAGGCATCTTCCATGTGTTAAGAACTTTTATGCAATTTCATGCATTTTTAGGCT-ATT
1 TTAGTCATTTTCCATGTTTTAAGGACTTTTATGTAATTTCATGCA-TTTTATGATCATA
* * * * * * ** * *
3268468 TTAGTCATTTTTCATGGTTTACGGA-TTATTATGTAAGTCCATTCATTTTAAAATTATC
1 TTAGTCATTTTCCATGTTTTAAGGACTT-TTATGTAATTTCATGCATTTTATGATCATA
* * * * * *
3268526 TTAGTCATTTT-CATGATTTAAGG-TTTATTGTGTAA-TT-ATGTA-TTTAT--T-TTT
1 TTAGTCATTTTCCATGTTTTAAGGACTT-TTATGTAATTTCATGCATTTTATGATCATA
* ** *
3268577 TTAGTCATTTTCCATGATTT-AGAGA-TTATTATGTAATTTCATATATTTTA-GTACCAT-
1 TTAGTCATTTTCCATGTTTTAAG-GACTT-TTATGTAATTTCATGCATTTTATG-ATCATA
* * * * * * * *
3268634 GTAGTCATTTTTCATGATTT-AGGGCTATTATATAATTTCATGCATTTTA-GTACCATG
1 TTAGTCATTTTCCATGTTTTAAGGACTTTTATGTAATTTCATGCATTTTATG-ATCATA
** ** ** * * * * *
3268691 TTAGTCATTTTCCATGAATTAAGGACCATTATGTAAAGTGATGCATTCTAGGGTCATT
1 TTAGTCATTTTCCATGTTTTAAGGACTTTTATGTAATTTCATGCATTTTATGATCATA
* * ** * * **
3268749 TTAGTTATTTTTCATAATTTATGGGCAATTATGTAATTTTCATGCATTTTA
1 TTAGTCATTTTCCATGTTTTAAGGACTTTTATGTAA-TTTCATGCATTTTA
3268800 GAGTCATTAT
Statistics
Matches: 392, Mismatches: 89, Indels: 49
0.74 0.17 0.09
Matches are distributed among these distances:
51 14 0.04
52 20 0.05
53 2 0.01
54 8 0.02
55 7 0.02
56 29 0.07
57 73 0.19
58 214 0.55
59 24 0.06
60 1 0.00
ACGTcount: A:0.27, C:0.11, G:0.14, T:0.48
Consensus pattern (58 bp):
TTAGTCATTTTCCATGTTTTAAGGACTTTTATGTAATTTCATGCATTTTATGATCATA
Found at i:3268655 original size:28 final size:29
Alignment explanation
Indices: 3268621--3268707 Score: 74
Period size: 28 Copynumber: 3.0 Consensus size: 29
3268611 AATTTCATAT
3268621 ATTTTAGTACCATGTAGTCATTTTTCATG
1 ATTTTAGTACCATGTAGTCATTTTTCATG
** * *
3268650 A-TTTAGGGCTAT-TA-T-ATAATTTCATG
1 ATTTTAGTACCATGTAGTCAT-TTTTCATG
*
3268676 CATTTTAGTACCATGTTAGTCATTTTCCATG
1 -ATTTTAGTACCATG-TAGTCATTTTTCATG
3268707 A
1 A
3268708 ATTAAGGACC
Statistics
Matches: 42, Mismatches: 9, Indels: 13
0.66 0.14 0.20
Matches are distributed among these distances:
25 2 0.05
26 8 0.19
27 3 0.07
28 16 0.38
29 1 0.02
30 3 0.07
31 7 0.17
32 2 0.05
ACGTcount: A:0.26, C:0.14, G:0.14, T:0.46
Consensus pattern (29 bp):
ATTTTAGTACCATGTAGTCATTTTTCATG
Found at i:3269093 original size:76 final size:79
Alignment explanation
Indices: 3269003--3269200 Score: 221
Period size: 78 Copynumber: 2.6 Consensus size: 79
3268993 GAGCTGTTTT
* * *
3269003 TCAAAAAATGTCCATTAAAGGT-ATTTCAGTAATAATACCTTGGAA-TCGAG-TC-TAAGGTCAT
1 TCAAAACATGTCCATTAAAGGTCATTTAAGTAATAATACCTT-AAAGTCGAGTTCTTAAGGTCAT
*
3269064 GTGAGAACC-TCTATG
65 ATGAGAACCTTC-ATG
* * * *
3269079 TCAAAACATGTCCATTAGA-GTCATTTAAGTAAAAATACCTTAAAGTCGAGTTCTTAGGGTTATA
1 TCAAAACATGTCCATTAAAGGTCATTTAAGTAATAATACCTTAAAGTCGAGTTCTTAAGGTCATA
*
3269143 TGAGAACCTTCGTG
66 TGAGAACCTTCATG
* * *
3269157 TCAAAACATGTCCATT-ATGGTCATTTAAGTAATATTACCATAAA
1 TCAAAACATGTCCATTAAAGGTCATTTAAGTAATAATACCTTAAA
3269201 ACCAAGTTTA
Statistics
Matches: 102, Mismatches: 14, Indels: 10
0.81 0.11 0.08
Matches are distributed among these distances:
75 4 0.04
76 39 0.38
77 2 0.02
78 55 0.54
79 2 0.02
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (79 bp):
TCAAAACATGTCCATTAAAGGTCATTTAAGTAATAATACCTTAAAGTCGAGTTCTTAAGGTCATA
TGAGAACCTTCATG
Found at i:3274844 original size:39 final size:39
Alignment explanation
Indices: 3274790--3274873 Score: 141
Period size: 39 Copynumber: 2.2 Consensus size: 39
3274780 ACTTTAGTCC
*
3274790 ATAATGCATGCAACTTGCTATGAATATTAATTTAAAAAA
1 ATAATTCATGCAACTTGCTATGAATATTAATTTAAAAAA
* *
3274829 ATAATTCATGCAACTTGCTATTAATATTAATTTTAAAAA
1 ATAATTCATGCAACTTGCTATGAATATTAATTTAAAAAA
3274868 ATAATT
1 ATAATT
3274874 TCTCCTAAAT
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
39 42 1.00
ACGTcount: A:0.45, C:0.10, G:0.07, T:0.38
Consensus pattern (39 bp):
ATAATTCATGCAACTTGCTATGAATATTAATTTAAAAAA
Found at i:3278350 original size:24 final size:24
Alignment explanation
Indices: 3278319--3278369 Score: 102
Period size: 24 Copynumber: 2.1 Consensus size: 24
3278309 ATGGTTATGG
3278319 AACTCGATGAACCTAGAAATCAAT
1 AACTCGATGAACCTAGAAATCAAT
3278343 AACTCGATGAACCTAGAAATCAAT
1 AACTCGATGAACCTAGAAATCAAT
3278367 AAC
1 AAC
3278370 ACATGTTTCT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.47, C:0.22, G:0.12, T:0.20
Consensus pattern (24 bp):
AACTCGATGAACCTAGAAATCAAT
Found at i:3282189 original size:15 final size:15
Alignment explanation
Indices: 3282169--3282197 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
3282159 AGATCTGAAG
3282169 ATAAAAAAAAAAAAA
1 ATAAAAAAAAAAAAA
3282184 ATAAAAAAAAAAAA
1 ATAAAAAAAAAAAA
3282198 GCCTATGAGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.93, C:0.00, G:0.00, T:0.07
Consensus pattern (15 bp):
ATAAAAAAAAAAAAA
Found at i:3282191 original size:13 final size:13
Alignment explanation
Indices: 3282173--3282197 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3282163 CTGAAGATAA
3282173 AAAAAAAAAAAAT
1 AAAAAAAAAAAAT
3282186 AAAAAAAAAAAA
1 AAAAAAAAAAAA
3282198 GCCTATGAGA
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:0.96, C:0.00, G:0.00, T:0.04
Consensus pattern (13 bp):
AAAAAAAAAAAAT
Found at i:3288633 original size:23 final size:24
Alignment explanation
Indices: 3288589--3288633 Score: 56
Period size: 23 Copynumber: 1.9 Consensus size: 24
3288579 GTAGAACAAT
* *
3288589 AACCTGATACAATGAATTGAAACA
1 AACCTGATACAATCAATGGAAACA
*
3288613 AACCTGAT-CAATCCATGGAAA
1 AACCTGATACAATCAATGGAAA
3288634 AAATCCTTCC
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
23 10 0.56
24 8 0.44
ACGTcount: A:0.47, C:0.20, G:0.13, T:0.20
Consensus pattern (24 bp):
AACCTGATACAATCAATGGAAACA
Found at i:3288836 original size:22 final size:19
Alignment explanation
Indices: 3288785--3288826 Score: 84
Period size: 19 Copynumber: 2.2 Consensus size: 19
3288775 TAAAAAAAAC
3288785 AACAGAAAATATAGAACAA
1 AACAGAAAATATAGAACAA
3288804 AACAGAAAATATAGAACAA
1 AACAGAAAATATAGAACAA
3288823 AACA
1 AACA
3288827 ACATGCAATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.69, C:0.12, G:0.10, T:0.10
Consensus pattern (19 bp):
AACAGAAAATATAGAACAA
Found at i:3295088 original size:150 final size:149
Alignment explanation
Indices: 3294896--3295550 Score: 722
Period size: 150 Copynumber: 4.3 Consensus size: 149
3294886 TGGATTTCCC
* * * *
3294896 TAAGACCTACCATTGACATAGAAGTGTTCGGTGATCCTAAAGGACTTAGAAAAGATAAAAACAAA
1 TAAGATCTACCATTGACTTAGAAGTGCTCGGTGATCCTAAAGGACTT-GAAAAGATGAAAACAAA
* ** * * ** * *
3294961 TCTACTATTAATTTGTACCTTCGGCGTGGAAG-TGAACCCAATAGTTTCATAGGGCTAGGTTTTG
65 CCTACTCCTAATTTGTACCTTCGACGTGGAAGCAG-ACCCGGTAGTTTCATAGGACTAGGTTTCG
*
3295025 GGGAAAATGCTAAAAGGTCCT
129 AGGAAAATGCTAAAAGGTCCT
* * * * * *
3295046 TAAGGTTTACCATCGACTTAGAAGTGTTTGGTGATCCTAAAGGACTTGGAAAAAAAATGAAAACA
1 TAAGATCTACCATTGACTTAGAAGTGCTCGGTGATCCTAAAGGACTT-G--AAAAGATGAAAACA
* *
3295111 AACCTACTCCTAATTTGTACTTTCGACGTGGAAGCAGACTCGGTAGTTTCATAGGACTAGGTTTC
63 AACCTACTCCTAATTTGTACCTTCGACGTGGAAGCAGACCCGGTAGTTTCATAGGACTAGGTTTC
* * * *
3295176 GAAGAAAATACTAAAAAGTCCC
128 GAGGAAAATGCTAAAAGGTCCT
* * * *
3295198 TAAGATCTACCATTGACTTAGAAGTGCCCAGTGATCCTAGAGGACTTGAAAAAGATGAGAACAAA
1 TAAGATCTACCATTGACTTAGAAGTGCTCGGTGATCCTAAAGGACTTG-AAAAGATGAAAACAAA
* * *
3295263 CCTACTCCAAATTTGTACCTTCGACGTGGAAGCAGACCCGGTAGTTTCATAGGATTAGGTTTCAA
65 CCTACTCCTAATTTGTACCTTCGACGTGGAAGCAGACCCGGTAGTTTCATAGGACTAGGTTTCGA
* *
3295328 GGAAAATGATGAAAGGTCCT
130 GGAAAATGCTAAAAGGTCCT
* *
3295348 TAAGATCTACCATTGACTTAGAAGTGCCCGATGATCCTAGAA-GACTTGAAAAAGATGAAAACAA
1 TAAGATCTACCATTGACTTAGAAGTGCTCGGTGATCCTA-AAGGACTTG-AAAAGATGAAAAC-A
* ** * * * * * *
3295412 AATCTACTCCTAATTCATACCTTCGACGTGGAAACGGAACCGGTAATTTTATAGGACTAGGTTTT
63 AACCTACTCCTAATTTGTACCTTCGACGTGGAAGCAGACCCGGTAGTTTCATAGGACTAGGTTTC
*
3295477 G-GGAAAAATGCTAAAAGGCCCT
128 GAGG-AAAATGCTAAAAGGTCCT
* * * * *
3295499 TAAGGTTTACCATCGACTTAGAAGTGCTTGGTGATCCTAGAGGACTTTGAAA
1 TAAGATCTACCATTGACTTAGAAGTGCTCGGTGATCCTAAAGGAC-TTGAAA
3295551 GGAAAAGTGA
Statistics
Matches: 425, Mismatches: 72, Indels: 15
0.83 0.14 0.03
Matches are distributed among these distances:
150 190 0.45
151 111 0.26
152 123 0.29
153 1 0.00
ACGTcount: A:0.35, C:0.17, G:0.22, T:0.26
Consensus pattern (149 bp):
TAAGATCTACCATTGACTTAGAAGTGCTCGGTGATCCTAAAGGACTTGAAAAGATGAAAACAAAC
CTACTCCTAATTTGTACCTTCGACGTGGAAGCAGACCCGGTAGTTTCATAGGACTAGGTTTCGAG
GAAAATGCTAAAAGGTCCT
Found at i:3296678 original size:165 final size:164
Alignment explanation
Indices: 3296381--3296693 Score: 418
Period size: 165 Copynumber: 1.9 Consensus size: 164
3296371 GCCTTAGAAC
* * * *
3296381 AAATTTTTAATATTTACATTTAAACCCTTAAACTTTCTAAAATTATAAATTGATCCTTATATAAT
1 AAATTTCTAATATTCACACTTAAACCCTTAAACTTTCTAAAATTATAAATTGATCCCTATATAAT
* * * * *
3296446 CAAACACAAAATTAAACATCAAACATATCCAAATCAACACCTAAAATCACAAGAAAAGGTCACAA
66 AAAACACAAAATTAAACATCAAACACATCAAAATCAACA-CTAAAATCACAACAAAAGATCACAA
3296511 GAAAGATTTGGCCAAGTAACTTCAGTTTTGGAATA
130 GAAAGATTTGGCCAAGTAACTTCAGTTTTGGAATA
*
3296546 AAATTTCTAATATTCACACTTAAATCCC-TAAACTTTCTAAAATTATAAATTGGTCCCTATATAA
1 AAATTTCTAATATTCACACTTAAA-CCCTTAAACTTTCTAAAATTATAAATTGATCCCTATATAA
* * *
3296610 TTAAAACACAAAATTAAATATCAAACACATCAAAATCAACA-TAAAAATTA-AATCCAAAA-ATT
65 -TAAAACACAAAATTAAACATCAAACACATCAAAATCAACACT-AAAATCACAA--CAAAAGATC
*
3296672 ACAAGAAGGATTTGGCCAAGTA
126 ACAAGAAAGATTTGGCCAAGTA
3296694 TTTTTGGCCT
Statistics
Matches: 129, Mismatches: 14, Indels: 10
0.84 0.09 0.07
Matches are distributed among these distances:
164 3 0.02
165 83 0.64
166 43 0.33
ACGTcount: A:0.48, C:0.17, G:0.06, T:0.29
Consensus pattern (164 bp):
AAATTTCTAATATTCACACTTAAACCCTTAAACTTTCTAAAATTATAAATTGATCCCTATATAAT
AAAACACAAAATTAAACATCAAACACATCAAAATCAACACTAAAATCACAACAAAAGATCACAAG
AAAGATTTGGCCAAGTAACTTCAGTTTTGGAATA
Found at i:3302369 original size:831 final size:833
Alignment explanation
Indices: 3300757--3302396 Score: 3194
Period size: 831 Copynumber: 2.0 Consensus size: 833
3300747 GTACTTGAAT
3300757 ACAATTTCTTCATGTTTCGGTTGTTGAAATGATGAGAAATGGTGCTATTTGTGATGTTTGCTGAG
1 ACAATTTCTTCATGTTTCGGTTGTTGAAATGATGAGAAATGGTGCTATTTGTGATGTTTGCTGAG
3300822 TTTGGATGATATTGCCATGATTTTTAGTTCACAACATGTTTGTTTAAATGTCTTTTTGAAGTTCT
66 TTTGGATGATATTGCCATGATTTTTAGTTCACAACATGTTTGTTTAAATGTCTTTTTGAAGTTCT
3300887 TTGCTTGAGTGCTTGTTGTTTTGAAAAAAAAACCCCTAAGTTAGGCTATCATTGGCCTATGAAAT
131 TTGCTTGAGTGCTTGTTGTTTTGAAAAAAAAACCCCTAAGTTAGGCTATCATTGGCCTATGAAAT
3300952 GAGATTAATGTTAACTTAATGTTTTTTGCATATTAATTAATCAATCTTGGGGAAAAATCAAGTTT
196 GAGATTAATGTTAACTTAATGTTTTTTGCATATTAATTAATCAATCTTGGGGAAAAATCAAGTTT
*
3301017 ATATATTTGGATTCATGGCTTAATAATGCAAAATAACTCTGTTTTTTGCAGCCCAAATTTTCTAT
261 ATATATTTGGATTCATAGCTTAATAATGCAAAATAACTCTGTTTTTTGCAGCCCAAATTTTCTAT
*
3301082 TTTAAAATGCTTGTTAAAATGCGTTGAGATGTTTAAGCTTTTGTGTTTCGACCTGATGGCCTGGG
326 TTTAAAATGCTTGTTAAAATGCGTTGAGATGTTTAAGCTTTTGTGTTTCGACCTGATGGCATGGG
3301147 TAACTGGTCATCCATTTGCCTAATTCCTTAAGACTTTGTATGGATTCATGATTCCACTATCTAGA
391 TAACTGGTCATCCATTTGCCTAATTCCTTAAGACTTTGTATGGATTCATGATTCCACTATCTAGA
3301212 CCCTAATTGTTGGACATTAGAATGTTCAACACCTTAATATAGAAAGACCCATATTCGAAAATTCA
456 CCCTAATTGTTGGACATTAGAATGTTCAACACCTTAATATAGAAAGACCCATATTCGAAAATTCA
3301277 CTTGTTTTGATACTGACAGCATTGTGATTCCAACTTGAAAAATTAATTTTGAATCCTAAATGATT
521 CTTGTTTTGATACTGACAGCATTGTGATTCCAACTTGAAAAATTAATTTTGAATCCTAAATGATT
*
3301342 TTTTAAAATTTTCTAGTATTTTTTTTATGGAAAGGTATCAAATTACCTTTCTGATAGTACCTTGC
586 TTTTAAAATTTTATAGTATTTTTTTTATGGAAAGGTATCAAATTACCTTTCTGATAGTACCTTGC
3301407 TTGCTATTAAATGTGCTCGAATACAAGAAAATTATGATTTTTTGAACTTTCGCTGTTTGAATCTT
651 TTGCTATTAAATGTGCTCGAATACAAGAAAATTATGATTTTTTGAACTTTCGCTGTTTGAATCTT
3301472 AGAATAAGCAATTAAAATTTTGGTTCGGCTATTTCGACCTATGAGATGATTTTTCTAAGAATTTT
716 AGAATAAGCAATTAAAATTTTGGTTCGGCTATTTCGACCTATGAGATGATTTTTCTAAGAATTTT
*
3301537 TAAATATTTTTCTAAAAAGTATGTAAAATGATGAGAAAAAGTACGTAAAATCA
781 TAAATATTTTTCTAAAAAGTACGTAAAATGATGAGAAAAAGTACGTAAAATCA
3301590 ACAATTTCTTCATGTTTCGGTTGTTGAAATGATGAGAAATGGTGCTATTTGTGATGTTTGCTGAG
1 ACAATTTCTTCATGTTTCGGTTGTTGAAATGATGAGAAATGGTGCTATTTGTGATGTTTGCTGAG
3301655 TTTGGATGATATTGCCATGATTTTTAGTTCACAACATGTTTGTTTAAATGTCTTTTTGAAGTTCT
66 TTTGGATGATATTGCCATGATTTTTAGTTCACAACATGTTTGTTTAAATGTCTTTTTGAAGTTCT
*
3301720 TTGCTTGAGTGCTTGTTGTTTTGAAAAAAAAACCCCTAAGTTAGGCTATCATTGGCTTATGAAAT
131 TTGCTTGAGTGCTTGTTGTTTTGAAAAAAAAACCCCTAAGTTAGGCTATCATTGGCCTATGAAAT
3301785 GAGATTAATGTTAACTTAATGTTTTTTGCATATTAATTAATCAATCTTGGGGAAAAATCAAGTTT
196 GAGATTAATGTTAACTTAATGTTTTTTGCATATTAATTAATCAATCTTGGGGAAAAATCAAGTTT
3301850 ATATATTTGGATTCATAGCTTAATAATGCAAAATAACTCTGTTTTTTGCAGCCCAAATTTTCTAT
261 ATATATTTGGATTCATAGCTTAATAATGCAAAATAACTCTGTTTTTTGCAGCCCAAATTTTCTAT
3301915 TTTAAAATGCTTGTTAAAATGCGTTGAGATGTTTAAGCTTTTGTGTTTCGACCTGATGGCATGGG
326 TTTAAAATGCTTGTTAAAATGCGTTGAGATGTTTAAGCTTTTGTGTTTCGACCTGATGGCATGGG
3301980 -AACTGGTCAT-CATTTGCCTAATTCCTTAAGACTTTGTATGGATTCATGATTCCACTATCTAGA
391 TAACTGGTCATCCATTTGCCTAATTCCTTAAGACTTTGTATGGATTCATGATTCCACTATCTAGA
*
3302043 CCCTAATTGTTGGACATTAGAATGTTCAACACCTTGATATAGAAAGACCCATATTCGAAAATTCA
456 CCCTAATTGTTGGACATTAGAATGTTCAACACCTTAATATAGAAAGACCCATATTCGAAAATTCA
3302108 CTTGTTTTGATACTGACAGCATTGTGATTCCAACTTGAAAAATTAATTTTGAATCCTAAATGATT
521 CTTGTTTTGATACTGACAGCATTGTGATTCCAACTTGAAAAATTAATTTTGAATCCTAAATGATT
*
3302173 TTTTGAAATTTTATAGTATTTTTTTTATGGAAAGGTATCAAATTACCTTTCTGATAGTACCTTGC
586 TTTTAAAATTTTATAGTATTTTTTTTATGGAAAGGTATCAAATTACCTTTCTGATAGTACCTTGC
3302238 TTGCTATTAAATGTGCTCGAATACAAGAAAATTATGATTTTTTGAACTTTCGCTGTTTGAATCTT
651 TTGCTATTAAATGTGCTCGAATACAAGAAAATTATGATTTTTTGAACTTTCGCTGTTTGAATCTT
*
3302303 AGAATAAGCAATTAAAATTTTGGTTGGGCTATTTCGACCTATGAGATGATTTTTCTAAGAATTTT
716 AGAATAAGCAATTAAAATTTTGGTTCGGCTATTTCGACCTATGAGATGATTTTTCTAAGAATTTT
3302368 TAAATATTTTTCTAAAAAGTACGTAAAAT
781 TAAATATTTTTCTAAAAAGTACGTAAAAT
3302397 TACCTTATCG
Statistics
Matches: 799, Mismatches: 8, Indels: 2
0.99 0.01 0.00
Matches are distributed among these distances:
831 402 0.50
832 10 0.01
833 387 0.48
ACGTcount: A:0.30, C:0.13, G:0.17, T:0.40
Consensus pattern (833 bp):
ACAATTTCTTCATGTTTCGGTTGTTGAAATGATGAGAAATGGTGCTATTTGTGATGTTTGCTGAG
TTTGGATGATATTGCCATGATTTTTAGTTCACAACATGTTTGTTTAAATGTCTTTTTGAAGTTCT
TTGCTTGAGTGCTTGTTGTTTTGAAAAAAAAACCCCTAAGTTAGGCTATCATTGGCCTATGAAAT
GAGATTAATGTTAACTTAATGTTTTTTGCATATTAATTAATCAATCTTGGGGAAAAATCAAGTTT
ATATATTTGGATTCATAGCTTAATAATGCAAAATAACTCTGTTTTTTGCAGCCCAAATTTTCTAT
TTTAAAATGCTTGTTAAAATGCGTTGAGATGTTTAAGCTTTTGTGTTTCGACCTGATGGCATGGG
TAACTGGTCATCCATTTGCCTAATTCCTTAAGACTTTGTATGGATTCATGATTCCACTATCTAGA
CCCTAATTGTTGGACATTAGAATGTTCAACACCTTAATATAGAAAGACCCATATTCGAAAATTCA
CTTGTTTTGATACTGACAGCATTGTGATTCCAACTTGAAAAATTAATTTTGAATCCTAAATGATT
TTTTAAAATTTTATAGTATTTTTTTTATGGAAAGGTATCAAATTACCTTTCTGATAGTACCTTGC
TTGCTATTAAATGTGCTCGAATACAAGAAAATTATGATTTTTTGAACTTTCGCTGTTTGAATCTT
AGAATAAGCAATTAAAATTTTGGTTCGGCTATTTCGACCTATGAGATGATTTTTCTAAGAATTTT
TAAATATTTTTCTAAAAAGTACGTAAAATGATGAGAAAAAGTACGTAAAATCA
Found at i:3307200 original size:19 final size:21
Alignment explanation
Indices: 3307157--3307208 Score: 72
Period size: 19 Copynumber: 2.6 Consensus size: 21
3307147 TTCAATAATT
*
3307157 TGTATCGATACATTCAGTAAA
1 TGTATCGATACATTAAGTAAA
3307178 TGTATCGATACA-TAAGT-AA
1 TGTATCGATACATTAAGTAAA
*
3307197 TGTATTGATACA
1 TGTATCGATACA
3307209 GTGTATCGCT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
19 13 0.45
20 4 0.14
21 12 0.41
ACGTcount: A:0.38, C:0.12, G:0.15, T:0.35
Consensus pattern (21 bp):
TGTATCGATACATTAAGTAAA
Found at i:3309867 original size:78 final size:78
Alignment explanation
Indices: 3309672--3309951 Score: 391
Period size: 78 Copynumber: 3.6 Consensus size: 78
3309662 AATTTTTCTT
* *
3309672 AATCGGGGATACTCCAACCTCGTTATTTCCGAGGGGATACTCCAACCCCT-GCTTTATTCCTAAA
1 AATC-GGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAA-CCCTGGCTTTATTTCTAAA
*
3309736 ATATTGATTTCTCAT
64 ATATTGATTTCTCAC
* * *
3309751 AATCGAGGATACTCCAACCCCATTATTTCCAAGAGGATACTCCAACCCTGGCTTTATTTCTAAAA
1 AATCG-GGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCTGGCTTTATTTCTAAAA
3309816 TATTGATTTCTCAC
65 TATTGATTTCTCAC
* * * *
3309830 AATCGGAATACTCCAACCCCGTTATTTCTGAGGGGATACTCCAACCCCGGTTTTATTTCTAAAAT
1 AATCGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCTGGCTTTATTTCTAAAAT
3309895 ATTGATTTCTCAC
66 ATTGATTTCTCAC
* * ***
3309908 AATCGGGGTGCTCCAACCCCGTTATTTCATCGGGGATACTCCAA
1 AATCGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAA
3309952 TCCCGTTATT
Statistics
Matches: 180, Mismatches: 19, Indels: 5
0.88 0.09 0.02
Matches are distributed among these distances:
78 109 0.61
79 71 0.39
ACGTcount: A:0.27, C:0.27, G:0.15, T:0.31
Consensus pattern (78 bp):
AATCGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCTGGCTTTATTTCTAAAAT
ATTGATTTCTCAC
Found at i:3309956 original size:28 final size:28
Alignment explanation
Indices: 3309909--3309984 Score: 102
Period size: 28 Copynumber: 2.8 Consensus size: 28
3309899 ATTTCTCACA
*
3309909 ATCGGGG-TGCTCCAACCCCGTTATTTC
1 ATCGGGGATACTCCAACCCCGTTATTTC
*
3309936 ATCGGGGATACTCCAATCCCGTTATTTC
1 ATCGGGGATACTCCAACCCCGTTATTTC
*
3309964 -CCAGGGGATACTCCAACCCCG
1 ATC-GGGGATACTCCAACCCCG
3309985 ATTTTATTTC
Statistics
Matches: 43, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
27 8 0.19
28 35 0.81
ACGTcount: A:0.20, C:0.34, G:0.21, T:0.25
Consensus pattern (28 bp):
ATCGGGGATACTCCAACCCCGTTATTTC
Found at i:3310064 original size:50 final size:51
Alignment explanation
Indices: 3309967--3310080 Score: 167
Period size: 50 Copynumber: 2.3 Consensus size: 51
3309957 TTATTTCCCA
* * * *
3309967 GGGGATACTCCAACCCCGATTTTATTTCTAAAATACCAATTTTTCACAATC
1 GGGGATACTCCAACCCCGATTTTATTTCCAAAACACCAATTTCTCACAACC
* *
3310018 GGGGATACTCTAACTCCGA-TTTATTTCCAAAACACCAATTTCTCACAACC
1 GGGGATACTCCAACCCCGATTTTATTTCCAAAACACCAATTTCTCACAACC
3310068 GGGGATACTCCAA
1 GGGGATACTCCAA
3310081 ATTTTATTTT
Statistics
Matches: 56, Mismatches: 7, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
50 39 0.70
51 17 0.30
ACGTcount: A:0.32, C:0.27, G:0.12, T:0.29
Consensus pattern (51 bp):
GGGGATACTCCAACCCCGATTTTATTTCCAAAACACCAATTTCTCACAACC
Found at i:3312481 original size:13 final size:13
Alignment explanation
Indices: 3312463--3312490 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
3312453 TACATAAAAT
3312463 ATTGTATCGATAC
1 ATTGTATCGATAC
3312476 ATTGTATCGATAC
1 ATTGTATCGATAC
3312489 AT
1 AT
3312491 AAATTTTGTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.32, C:0.14, G:0.14, T:0.39
Consensus pattern (13 bp):
ATTGTATCGATAC
Found at i:3312505 original size:32 final size:33
Alignment explanation
Indices: 3312444--3312508 Score: 105
Period size: 32 Copynumber: 2.0 Consensus size: 33
3312434 TTTCAATGAT
*
3312444 TTGTATTGATACATAAAATATTGTATCGATACA
1 TTGTATCGATACATAAAATATTGTATCGATACA
*
3312477 TTGTATCGATACAT-AAATTTTGTATCGATACA
1 TTGTATCGATACATAAAATATTGTATCGATACA
3312509 ATTTAAGCTA
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 17 0.57
33 13 0.43
ACGTcount: A:0.37, C:0.11, G:0.12, T:0.40
Consensus pattern (33 bp):
TTGTATCGATACATAAAATATTGTATCGATACA
Found at i:3312569 original size:13 final size:13
Alignment explanation
Indices: 3312551--3312575 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3312541 ATTACTCAAA
3312551 TGTATCGATACAT
1 TGTATCGATACAT
3312564 TGTATCGATACA
1 TGTATCGATACA
3312576 CTGATCTTTG
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:3312657 original size:51 final size:52
Alignment explanation
Indices: 3312584--3312711 Score: 231
Period size: 51 Copynumber: 2.5 Consensus size: 52
3312574 CACTGATCTT
*
3312584 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
*
3312636 TGTAT-GATACATGCAGGCAAATTTGCCTAGATGTATCGATACACTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
3312687 TGTATCGATACATGCAGGCAAATTT
1 TGTATCGATACATGCAGGCAAATTT
3312712 TCATATTTCG
Statistics
Matches: 73, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
51 49 0.67
52 24 0.33
ACGTcount: A:0.36, C:0.16, G:0.18, T:0.30
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:3319527 original size:13 final size:13
Alignment explanation
Indices: 3319511--3319553 Score: 50
Period size: 16 Copynumber: 3.0 Consensus size: 13
3319501 GGTCAAAAGT
3319511 AAACACAAAAAAA
1 AAACACAAAAAAA
3319524 AAACAAAACAAAAAAA
1 AAAC---ACAAAAAAA
3319540 AAACACAGAAAAAA
1 AAACACA-AAAAAA
3319554 GGTGCAAAGT
Statistics
Matches: 26, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
13 7 0.27
14 6 0.23
16 13 0.50
ACGTcount: A:0.84, C:0.14, G:0.02, T:0.00
Consensus pattern (13 bp):
AAACACAAAAAAA
Found at i:3319834 original size:30 final size:28
Alignment explanation
Indices: 3319798--3319855 Score: 73
Period size: 28 Copynumber: 2.0 Consensus size: 28
3319788 TTCCAAAAAA
3319798 GAAACAAAGCAAA-AAAGGAAAAAAAAAGAG
1 GAAACAAA-CAAATAAA--AAAAAAAAAGAG
*
3319828 GAAACAAACAAATAAAAAAAAAGAAGAG
1 GAAACAAACAAATAAAAAAAAAAAAGAG
3319856 AAAGGAAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
28 11 0.42
29 4 0.15
30 11 0.42
ACGTcount: A:0.74, C:0.07, G:0.17, T:0.02
Consensus pattern (28 bp):
GAAACAAACAAATAAAAAAAAAAAAGAG
Found at i:3320855 original size:34 final size:34
Alignment explanation
Indices: 3320817--3321304 Score: 247
Period size: 34 Copynumber: 14.7 Consensus size: 34
3320807 AAATACCTTC
* *
3320817 TTAAAGTCCATAACTTCGTGGCACCTTTTTCTTT
1 TTAAAGCCCACAACTTCGTGGCACCTTTTTCTTT
* *
3320851 TTAAAGCCCACGACTCCGTGGCACC---TTCTTT
1 TTAAAGCCCACAACTTCGTGGCACCTTTTTCTTT
* *
3320882 TCAAAGCCCACAACTCCGTGGCACCTTTTTCTTT
1 TTAAAGCCCACAACTTCGTGGCACCTTTTTCTTT
* *
3320916 TTAAAGCCCACGA-TTCCGTGGCACATTTTTCTTT
1 TTAAAGCCCACAACTT-CGTGGCACCTTTTTCTTT
* *
3320950 TCAAAGCCCACGAC-TCAGTGGCATCC-TTTTC--T
1 TTAAAGCCCACAACTTC-GTGGCA-CCTTTTTCTTT
* * * * * *
3320982 TCAAAGTCCACGAC-TCAATGG----TGTTTT-GTC
1 TTAAAGCCCACAACTTC-GTGGCACCT-TTTTCTTT
* * *
3321012 TCAAAGTCCACGAC-TCAGTGGCATCCTTTTT-TTT
1 TTAAAGCCCACAACTTC-GTGGCA-CCTTTTTCTTT
* * *
3321046 TTCAAAGTCCACGAC-TCAGTGGCATCCTTTTTCCTT
1 TT-AAAGCCCACAACTTC-GTGGCA-CCTTTTTCTTT
* * *
3321082 TT-AAGTCCACGACTCCGTGGCACC---TTCTTT
1 TTAAAGCCCACAACTTCGTGGCACCTTTTTCTTT
* * *
3321112 TCAAAGCCCACAACTCCGTGGCACTCTTTTTCCCTT
1 TTAAAGCCCACAACTTCGTGGCAC-CTTTTT-CTTT
* * *
3321148 TT-AAGCCCCCAACTCCGTGGCACTCTTTTTCCTT
1 TTAAAGCCCACAACTTCGTGGCAC-CTTTTTCTTT
* ** * *
3321182 CT-AAGTTCACAACTCCATGGCACCTTTTTCTTT
1 TTAAAGCCCACAACTTCGTGGCACCTTTTTCTTT
* * *
3321215 TTAAAGCCCACAAC-TCTGTGGCATCC-TGTCCCTT
1 TTAAAGCCCACAACTTC-GTGGCA-CCTTTTTCTTT
* * *
3321249 TTAAAGGCCACAACTT-GTGGCACCTTGTTCCTT
1 TTAAAGCCCACAACTTCGTGGCACCTTTTTCTTT
* * *
3321282 CT-AAGTCCACAACTCCGTGGCAC
1 TTAAAGCCCACAACTTCGTGGCAC
3321305 TCTAAAGCCC
Statistics
Matches: 376, Mismatches: 47, Indels: 63
0.77 0.10 0.13
Matches are distributed among these distances:
29 4 0.01
30 26 0.07
31 48 0.13
32 34 0.09
33 36 0.10
34 156 0.41
35 64 0.17
36 8 0.02
ACGTcount: A:0.20, C:0.32, G:0.14, T:0.34
Consensus pattern (34 bp):
TTAAAGCCCACAACTTCGTGGCACCTTTTTCTTT
Found at i:3320912 original size:65 final size:66
Alignment explanation
Indices: 3320813--3321304 Score: 294
Period size: 65 Copynumber: 7.4 Consensus size: 66
3320803 CTTCAAATAC
* * *
3320813 CTTCTT-AAAGTCCATAACTTCGTGGCACCTTTTTCTTTTTAAAGCCCACGACTCCGTGGCACCT
1 CTTCTTCAAAGCCCACAACTCCGTGGCACCTTTTTCTTTTTAAAGCCCACGACTCCGTGGCACCT
3320877 T
66 T
* *
3320878 CTT-TTCAAAGCCCACAACTCCGTGGCACCTTTTTCTTTTTAAAGCCCACGATTCCGTGGCACAT
1 CTTCTTCAAAGCCCACAACTCCGTGGCACCTTTTTCTTTTTAAAGCCCACGACTCCGTGGCACCT
3320942 T
66 T
* * * * * **
3320943 TTTCTTTTCAAAGCCCACGACTCAGTGGCATCC-TTTTC--TTCAAAGTCCACGACTCAATGG--
1 CTTC--TTCAAAGCCCACAACTCCGTGGCA-CCTTTTTCTTTTTAAAGCCCACGACTCCGTGGCA
**
3321003 TGTT
63 CCTT
* * * * * *
3321007 -TTGTCTCAAAGTCCACGACTCAGTGGCATCCTTTTT-TTTTTCAAAGTCCACGACTCAGTGGCA
1 CTTCT-TCAAAGCCCACAACTCCGTGGCA-CCTTTTTCTTTTT-AAAGCCCACGACTCCGTGGCA
3321070 TCCTT
63 -CCTT
* ** * * * *
3321075 TTTCCTTTTAAGTCCACGACTCCGTGGCACC---TTCTTTTCAAAGCCCACAACTCCGTGGCACT
1 CTT-CTTCAAAGCCCACAACTCCGTGGCACCTTTTTCTTTTTAAAGCCCACGACTCCGTGGCAC-
3321137 CTT
64 CTT
* ** * * * ** * *
3321140 TTTCCCTTTTAAGCCCCCAACTCCGTGGCACTCTTTTTCCTTCT-AAGTTCACAACTCCATGGCA
1 CTT--CTTCAAAGCCCACAACTCCGTGGCAC-CTTTTTCTTTTTAAAGCCCACGACTCCGTGGCA
3321204 CCTT
63 CCTT
* * * * * * * * *
3321208 TTTCTTTTTAAAGCCCACAACTCTGTGGCATCC-TGTCCCTTTTAAAGGCCACAACT-TGTGGCA
1 CTTC--TTCAAAGCCCACAACTCCGTGGCA-CCTTTTTCTTTTTAAAGCCCACGACTCCGTGGCA
3321271 CCTT
63 CCTT
* * *
3321275 GTTCCTTCTAAGTCCACAACTCCGTGGCAC
1 CTT-CTTCAAAGCCCACAACTCCGTGGCAC
3321305 TCTAAAGCCC
Statistics
Matches: 347, Mismatches: 53, Indels: 54
0.76 0.12 0.12
Matches are distributed among these distances:
61 1 0.00
62 25 0.07
63 6 0.02
64 7 0.02
65 104 0.30
66 66 0.19
67 19 0.05
68 70 0.20
69 43 0.12
70 6 0.02
ACGTcount: A:0.20, C:0.32, G:0.14, T:0.34
Consensus pattern (66 bp):
CTTCTTCAAAGCCCACAACTCCGTGGCACCTTTTTCTTTTTAAAGCCCACGACTCCGTGGCACCT
T
Found at i:3321058 original size:35 final size:35
Alignment explanation
Indices: 3321012--3321112 Score: 145
Period size: 35 Copynumber: 2.9 Consensus size: 35
3321002 GTGTTTTGTC
3321012 TCAAAGTCCACGACTCAGTGGCATCCTTTTTTTTT
1 TCAAAGTCCACGACTCAGTGGCATCCTTTTTTTTT
*
3321047 TCAAAGTCCACGACTCAGTGGCATCCTTTTTCCTTT
1 TCAAAGTCCACGACTCAGTGGCATCCTTTTT-TTTT
* *
3321083 T--AAGTCCACGACTCCGTGGCA-CCTTCTTTT
1 TCAAAGTCCACGACTCAGTGGCATCCTTTTTTT
3321113 CAAAGCCCAC
Statistics
Matches: 61, Mismatches: 4, Indels: 5
0.87 0.06 0.07
Matches are distributed among these distances:
32 1 0.02
33 6 0.10
34 19 0.31
35 31 0.51
36 4 0.07
ACGTcount: A:0.19, C:0.30, G:0.15, T:0.37
Consensus pattern (35 bp):
TCAAAGTCCACGACTCAGTGGCATCCTTTTTTTTT
Found at i:3321058 original size:97 final size:98
Alignment explanation
Indices: 3320918--3321096 Score: 263
Period size: 97 Copynumber: 1.8 Consensus size: 98
3320908 TTTTCTTTTT
* *
3320918 AAAGCCCACGATTCCGTGGCACATTTTTCTTTTCAAAGCCCACGACTCAGTGGCATCC-TTTT-C
1 AAAGCCCACGACTCAGTGGCACATTTTTCTTTTCAAAGCCCACGACTCAGTGGCATCCTTTTTCC
3320981 TTCAAAGTCCACGACTCAATGGTGTTTTGTCTC
66 TTCAAAGTCCACGACTCAATGGTGTTTTGTCTC
* * * *
3321014 AAAGTCCACGACTCAGTGGCATCCTTTTTTTTTTCAAAGTCCACGACTCAGTGGCATCCTTTTTC
1 AAAGCCCACGACTCAGTGGCA-CATTTTTCTTTTCAAAGCCCACGACTCAGTGGCATCCTTTTTC
**
3321079 CTTTTAAGTCCACGACTC
65 CTTCAAAGTCCACGACTC
3321097 CGTGGCACCT
Statistics
Matches: 72, Mismatches: 8, Indels: 3
0.87 0.10 0.04
Matches are distributed among these distances:
96 18 0.25
97 34 0.47
98 4 0.06
99 16 0.22
ACGTcount: A:0.22, C:0.29, G:0.16, T:0.34
Consensus pattern (98 bp):
AAAGCCCACGACTCAGTGGCACATTTTTCTTTTCAAAGCCCACGACTCAGTGGCATCCTTTTTCC
TTCAAAGTCCACGACTCAATGGTGTTTTGTCTC
Found at i:3321059 original size:131 final size:129
Alignment explanation
Indices: 3320882--3321127 Score: 311
Period size: 131 Copynumber: 1.9 Consensus size: 129
3320872 CACCTTCTTT
* * *
3320882 TCAAAGCCCACAACTCCGTGGCACCTTTTTCTTTTTAAAGCCCACGATTCCGTGGCA-CATTTTT
1 TCAAAGCCCACAACTCAGTGGCACCTTTTTCTTTTTAAAGCCCACGACTCAGTGGCATCATTTTT
* *
3320946 -CTTTTCAAAGCCCACGACTCAGTGGCATCCTT-TTCTTCAAAGTCCACGACTCAATGGTGTTTT
66 CCTTTT--AAGCCCACGACTCAGTGGCA-CCTTCTT-TTCAAAGCCCACAACTCAATGGTGTTTT
3321009 GTC
127 GTC
* * * *
3321012 TCAAAGTCCACGACTCAGTGGCATCCTTTTT-TTTTTCAAAGTCCACGACTCAGTGGCATCCTTT
1 TCAAAGCCCACAACTCAGTGGCA-CCTTTTTCTTTTT-AAAGCCCACGACTCAGTGGCATCATTT
* *
3321076 TTCCTTTTAAGTCCACGACTCCGTGGCACCTTCTTTTCAAAGCCCACAACTC
64 TTCCTTTTAAGCCCACGACTCAGTGGCACCTTCTTTTCAAAGCCCACAACTC
3321128 CGTGGCACTC
Statistics
Matches: 100, Mismatches: 11, Indels: 10
0.83 0.09 0.08
Matches are distributed among these distances:
130 44 0.44
131 45 0.45
132 6 0.06
133 5 0.05
ACGTcount: A:0.22, C:0.31, G:0.15, T:0.33
Consensus pattern (129 bp):
TCAAAGCCCACAACTCAGTGGCACCTTTTTCTTTTTAAAGCCCACGACTCAGTGGCATCATTTTT
CCTTTTAAGCCCACGACTCAGTGGCACCTTCTTTTCAAAGCCCACAACTCAATGGTGTTTTGTC
Found at i:3321176 original size:100 final size:100
Alignment explanation
Indices: 3320849--3321304 Score: 337
Period size: 100 Copynumber: 4.6 Consensus size: 100
3320839 ACCTTTTTCT
* * * * *
3320849 TTTTAAAGCCCACGACTCCGTGGCAC-CTTCTT--TTCAAAGCCCACAACTCCGTGGCACCTTTT
1 TTTTAAAGCCCACAACTCAGTGGCACTCTTTTTCCTTCTAAGTCCACAACTCCGTGGCACC--TT
* * * * * **
3320911 TCTTTTTAAAGCCCACGATTCCGTGGCA-CATTTTTC
64 TCTTTTCAAAGCCCACAACTCCGTGGCATCCTGTCCC
* * * * ** **
3320947 TTTTCAAAGCCCACGACTCAGTGGCA-TCCTTTT-CTTCAAAGTCCACGACTCAATGG--TGTTT
1 TTTT-AAAGCCCACAACTCAGTGGCACTCTTTTTCCTTCTAAGTCCACAACTCCGTGGCACCTTT
* * * * * ***
3321008 -TGTCTCAAAGTCCACGACTCAGTGGCATCCTTTTTT
65 CT-TTTCAAAGCCCACAACTCCGTGGCATCCTGTCCC
* * * *
3321044 TTTTCAAAGTCCACGACTCAGTGGCA-TCCTTTTTCCTTTTAAGTCCACGACTCCGTGGCACC-T
1 TTTT-AAAGCCCACAACTCAGTGGCACT-CTTTTTCCTTCTAAGTCCACAACTCCGTGGCACCTT
* *
3321107 TCTTTTCAAAGCCCACAACTCCGTGGCACTCTTTTTCCC
64 TCTTTTCAAAGCCCACAACTCCGTGGCA-TC-CTGTCCC
* * * *
3321146 TTTT-AAGCCCCCAACTCCGTGGCACTCTTTTTCCTTCTAAGTTCACAACTCCATGGCACCTTTT
1 TTTTAAAGCCCACAACTCAGTGGCACTCTTTTTCCTTCTAAGTCCACAACTCCGTGGCACC--TT
* *
3321210 TCTTTTTAAAGCCCACAACTCTGTGGCATCCTGTCCC
64 TCTTTTCAAAGCCCACAACTCCGTGGCATCCTGTCCC
* * *
3321247 TTTTAAAGGCCACAACT-TGTGGCAC-CTTGTTCCTTCTAAGTCCACAACTCCGTGGCAC
1 TTTTAAAGCCCACAACTCAGTGGCACTCTTTTTCCTTCTAAGTCCACAACTCCGTGGCAC
3321305 TCTAAAGCCC
Statistics
Matches: 291, Mismatches: 50, Indels: 32
0.78 0.13 0.09
Matches are distributed among these distances:
95 1 0.00
96 23 0.08
97 32 0.11
98 9 0.03
99 43 0.15
100 117 0.40
101 20 0.07
102 19 0.07
103 27 0.09
ACGTcount: A:0.20, C:0.32, G:0.14, T:0.33
Consensus pattern (100 bp):
TTTTAAAGCCCACAACTCAGTGGCACTCTTTTTCCTTCTAAGTCCACAACTCCGTGGCACCTTTC
TTTTCAAAGCCCACAACTCCGTGGCATCCTGTCCC
Found at i:3321409 original size:33 final size:33
Alignment explanation
Indices: 3321304--3321435 Score: 205
Period size: 32 Copynumber: 4.1 Consensus size: 33
3321294 CTCCGTGGCA
**
3321304 CTCTAAAGCCCACACAAGTCAATGGCAACCCTT
1 CTCTAAAGCCCACACAAGTCGGTGGCAACCCTT
*
3321337 C-CCAAAGCCCACACAAGTCGGTGGCAACCC-T
1 CTCTAAAGCCCACACAAGTCGGTGGCAACCCTT
* *
3321368 CTCTAAAGCCCACACAAGTTGGTGGCAACCATT
1 CTCTAAAGCCCACACAAGTCGGTGGCAACCCTT
3321401 CTCTAAAGCCCACACAAGTCGGTGGCAACCCTT
1 CTCTAAAGCCCACACAAGTCGGTGGCAACCCTT
3321434 CT
1 CT
3321436 AAGCCCAATA
Statistics
Matches: 89, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
31 2 0.02
32 52 0.58
33 35 0.39
ACGTcount: A:0.30, C:0.36, G:0.17, T:0.17
Consensus pattern (33 bp):
CTCTAAAGCCCACACAAGTCGGTGGCAACCCTT
Found at i:3321544 original size:43 final size:45
Alignment explanation
Indices: 3321435--3321945 Score: 507
Period size: 49 Copynumber: 10.9 Consensus size: 45
3321425 GCAACCCTTC
* * *
3321435 TAAGCCCAATATCGCTGGCCTTGAATCAGCAGATTGGCACCTTCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCA---TC-TCTT
*
3321484 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA-C-CTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCATCTCTT
* *
3321527 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCATCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGG---CATC-TCTT
* *
3321576 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCAACTC--
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCATCTCTT
* * *
3321619 CAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCA---TC-TCTT
*
3321668 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA-C-CTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCATCTCTT
*
3321711 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCTTCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCA---TC-TCTT
*
3321760 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA-C-CTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCATCTCTT
* *
3321803 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTATCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATT-G-G-C---ATC-TCTT
* * *
3321855 TAAGTCCAATATCGCTGGCCTTGAATCAGGATATTGGCATCTTTGTCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCA------TC-TCTT
* *
3321907 TAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCA
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCA
3321946 CCTTCATCTT
Statistics
Matches: 398, Mismatches: 31, Indels: 63
0.81 0.06 0.13
Matches are distributed among these distances:
43 147 0.37
44 1 0.00
45 6 0.02
46 8 0.02
47 4 0.01
49 149 0.37
50 2 0.01
51 1 0.00
52 80 0.20
ACGTcount: A:0.25, C:0.26, G:0.19, T:0.30
Consensus pattern (45 bp):
TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCATCTCTT
Found at i:3321597 original size:92 final size:92
Alignment explanation
Indices: 3321430--3321958 Score: 806
Period size: 92 Copynumber: 5.6 Consensus size: 92
3321420 CGGTGGCAAC
* *
3321430 CCTTCTAAGCCCAATATCGCTGGCCTTGAATCAGCAGATTGGCACCTTCATCTTTAAGTCCAATG
1 CCTT-TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATG
3321495 TAGCTGGCCTTGAATCAGCACATTGGCA
65 TAGCTGGCCTTGAATCAGCACATTGGCA
*
3321523 CCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCATCATCTTTAAGTCCAATGT
1 CCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGT
3321588 AGCTGGCCTTGAATCAGCACATTGGCA
66 AGCTGGCCTTGAATCAGCACATTGGCA
* **
3321615 ACTCCAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGT
1 CCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGT
3321680 AGCTGGCCTTGAATCAGCACATTGGCA
66 AGCTGGCCTTGAATCAGCACATTGGCA
* *
3321707 CCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCTTCTTTAAGTCCAATGT
1 CCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGT
3321772 AGCTGGCCTTGAATCAGCACATTGGCA
66 AGCTGGCCTTGAATCAGCACATTGGCA
*
3321799 CCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTATCATCTTTAAGTCCAA
1 CCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACC--T-TCATCTTTAAGTCCAA
* * * *
3321864 TATCGCTGGCCTTGAATCAGGATATTGGCA
63 TGTAGCTGGCCTTGAATCAGCACATTGGCA
* *
3321894 TCTTTGTCATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAA
1 -------C--CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAA
3321959 CATTCCTAAG
Statistics
Matches: 402, Mismatches: 22, Indels: 16
0.91 0.05 0.04
Matches are distributed among these distances:
92 303 0.75
93 4 0.01
94 1 0.00
95 41 0.10
101 10 0.02
102 2 0.00
104 41 0.10
ACGTcount: A:0.25, C:0.26, G:0.18, T:0.31
Consensus pattern (92 bp):
CCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGT
AGCTGGCCTTGAATCAGCACATTGGCA
Found at i:3321878 original size:52 final size:52
Alignment explanation
Indices: 3321800--3321949 Score: 246
Period size: 52 Copynumber: 2.9 Consensus size: 52
3321790 ACATTGGCAC
*
3321800 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTATCAT
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTATCAT
* * *
3321852 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGGATATTGGCATCTTTGTCAT
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTATCAT
* *
3321904 CTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTT
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTT
3321950 CATCTTTAAC
Statistics
Matches: 90, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
52 90 1.00
ACGTcount: A:0.23, C:0.25, G:0.19, T:0.34
Consensus pattern (52 bp):
CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTATCAT
Found at i:3325594 original size:52 final size:51
Alignment explanation
Indices: 3325453--3325601 Score: 217
Period size: 52 Copynumber: 2.9 Consensus size: 51
3325443 CGAAATATGA
*
3325453 AAATTTGCCTGCATGTATCGATACATTGAATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTG-ATAGTGTATCGATACATCTAGGC
* * *
3325505 AAATTTGCCTGCATGTATCGATGCATTTTATAATGTATCGATACATCTAGGC
1 AAATTTGCCTGCATGTATCGATACA-TTGATAGTGTATCGATACATCTAGGC
**
3325557 AAATTTGCCTGCATGTATCGATACAAAGATCAGTGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACATTGAT-AGTGTATCGATACA
3325602 ATGTATCGAT
Statistics
Matches: 86, Mismatches: 9, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
51 2 0.02
52 82 0.95
53 2 0.02
ACGTcount: A:0.31, C:0.17, G:0.19, T:0.33
Consensus pattern (51 bp):
AAATTTGCCTGCATGTATCGATACATTGATAGTGTATCGATACATCTAGGC
Found at i:3325608 original size:13 final size:13
Alignment explanation
Indices: 3325590--3325614 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3325580 CAAAGATCAG
3325590 TGTATCGATACAA
1 TGTATCGATACAA
3325603 TGTATCGATACA
1 TGTATCGATACA
3325615 TTTAAGTGAT
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:3325682 original size:20 final size:20
Alignment explanation
Indices: 3325653--3325710 Score: 73
Period size: 20 Copynumber: 3.0 Consensus size: 20
3325643 GCAGTAGCTT
3325653 AAAT-TGTATCGATACAAAA
1 AAATATGTATCGATACAAAA
*
3325672 AAATATGTATCGATACAACA
1 AAATATGTATCGATACAAAA
***
3325692 CTTTATGTATCGATACAAA
1 AAATATGTATCGATACAAA
3325711 TCGTTGAAAT
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
19 4 0.12
20 29 0.88
ACGTcount: A:0.47, C:0.14, G:0.10, T:0.29
Consensus pattern (20 bp):
AAATATGTATCGATACAAAA
Found at i:3326588 original size:52 final size:51
Alignment explanation
Indices: 3326526--3326715 Score: 209
Period size: 52 Copynumber: 3.8 Consensus size: 51
3326516 GTTAAAGATG
* * * *
3326526 AAGGTGCCAATGTGATGATTCAAGGCCAGCGATATAGGACTTAAGGATGACA
1 AAGGCGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAGG-TGACA
3326578 AAGGCGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT---G-G---
1 AAGGCGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAGGTGACA
* * * *
3326622 -AGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGGT-ACCA
1 AAGGCGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT-AAGGTGA-CA
*
3326673 AAGGCGTCAATATGCTGATTCAAGGCCAGCGATATTGGACTTA
1 AAGGCGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTA
3326716 GAAGAAGATG
Statistics
Matches: 115, Mismatches: 13, Indels: 21
0.77 0.09 0.14
Matches are distributed among these distances:
43 37 0.32
47 2 0.02
49 1 0.01
51 1 0.01
52 74 0.64
ACGTcount: A:0.31, C:0.19, G:0.27, T:0.23
Consensus pattern (51 bp):
AAGGCGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAGGTGACA
Found at i:3326690 original size:95 final size:95
Alignment explanation
Indices: 3326527--3326714 Score: 299
Period size: 95 Copynumber: 2.0 Consensus size: 95
3326517 TTAAAGATGA
*
3326527 AGGTGCCAATGTGATGATTCAAGGCCAGCGATATAGGACTTAAGGATGACAAAGGCGCCAATATG
1 AGGTGCCAATGTGATGATTCAAGGCCAGCGACATAGGACTTAAGGATGACAAAGGCGCCAATATG
3326592 CTGATTCAAGGCCAGCGATATTGGACTTGG
66 CTGATTCAAGGCCAGCGATATTGGACTTGG
* * * *
3326622 AGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGG-T-ACCAAAGGCGTCAATA
1 AGGTGCCAATGTGATGATTCAAGGCCAGCGACATAGGACTT-AAGGATGA-CAAAGGCGCCAATA
3326685 TGCTGATTCAAGGCCAGCGATATTGGACTT
64 TGCTGATTCAAGGCCAGCGATATTGGACTT
3326715 AGAAGAAGAT
Statistics
Matches: 86, Mismatches: 5, Indels: 4
0.91 0.05 0.04
Matches are distributed among these distances:
94 1 0.01
95 81 0.94
96 4 0.05
ACGTcount: A:0.30, C:0.19, G:0.28, T:0.23
Consensus pattern (95 bp):
AGGTGCCAATGTGATGATTCAAGGCCAGCGACATAGGACTTAAGGATGACAAAGGCGCCAATATG
CTGATTCAAGGCCAGCGATATTGGACTTGG
Found at i:3326795 original size:28 final size:28
Alignment explanation
Indices: 3326737--3326860 Score: 171
Period size: 28 Copynumber: 4.4 Consensus size: 28
3326727 CACCAACTTG
*
3326737 TGTGGGCTTTTAAAAGGATTG-CA-TCAACT
1 TGTGGGCTTTT-AAAGG-TTGCCACT-GACT
* *
3326766 TGTGTGCTTTTGAAGGTTGCCACTGACT
1 TGTGGGCTTTTAAAGGTTGCCACTGACT
*
3326794 TGTGGGCTTTTAAAGTTTGCCACTGACT
1 TGTGGGCTTTTAAAGGTTGCCACTGACT
3326822 TGTGGGCTTTTAAAGGTTGCCACTGACT
1 TGTGGGCTTTTAAAGGTTGCCACTGACT
3326850 TGTGGGCTTTT
1 TGTGGGCTTTT
3326861 GAAAAGAGAT
Statistics
Matches: 86, Mismatches: 7, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
27 3 0.03
28 72 0.84
29 11 0.13
ACGTcount: A:0.18, C:0.16, G:0.27, T:0.39
Consensus pattern (28 bp):
TGTGGGCTTTTAAAGGTTGCCACTGACT
Found at i:3327342 original size:13 final size:13
Alignment explanation
Indices: 3327324--3327348 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3327314 CATAAAGTGT
3327324 TGTATCGATACAA
1 TGTATCGATACAA
3327337 TGTATCGATACA
1 TGTATCGATACA
3327349 TATTTTTTTG
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:3327346 original size:33 final size:33
Alignment explanation
Indices: 3327304--3327370 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
3327294 TTCAACGATT
3327304 TGTATCGATACATAAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAAGTGTTGTATCGATACAA
*** *
3327337 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAGTGTTGTATCGATACAA
3327370 T
1 T
3327371 TTAAGCTACT
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:0.33, C:0.12, G:0.15, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATAAAGTGTTGTATCGATACAA
Found at i:3327429 original size:13 final size:12
Alignment explanation
Indices: 3327389--3327469 Score: 61
Period size: 13 Copynumber: 7.1 Consensus size: 12
3327379 CTGCCAAAAA
3327389 ATGTATCGATAC
1 ATGTATCGATAC
3327401 AT-TACTC-A-A-
1 ATGTA-TCGATAC
3327410 ATGTATCGATAC
1 ATGTATCGATAC
3327422 ATTGTATCGATAC
1 A-TGTATCGATAC
3327435 AT-TACTC-A-A-
1 ATGTA-TCGATAC
*
3327444 ATGTATTGATAC
1 ATGTATCGATAC
3327456 ATTGTATCGATAC
1 A-TGTATCGATAC
3327469 A
1 A
3327470 CTGATCTTTG
Statistics
Matches: 55, Mismatches: 2, Indels: 23
0.69 0.03 0.29
Matches are distributed among these distances:
9 7 0.13
10 8 0.15
11 8 0.15
12 9 0.16
13 23 0.42
ACGTcount: A:0.36, C:0.16, G:0.12, T:0.36
Consensus pattern (12 bp):
ATGTATCGATAC
Found at i:3327433 original size:34 final size:34
Alignment explanation
Indices: 3327390--3327469 Score: 151
Period size: 34 Copynumber: 2.4 Consensus size: 34
3327380 TGCCAAAAAA
3327390 TGTATCGATACATTACTCAAATGTATCGATACAT
1 TGTATCGATACATTACTCAAATGTATCGATACAT
*
3327424 TGTATCGATACATTACTCAAATGTATTGATACAT
1 TGTATCGATACATTACTCAAATGTATCGATACAT
3327458 TGTATCGATACA
1 TGTATCGATACA
3327470 CTGATCTTTG
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
34 45 1.00
ACGTcount: A:0.35, C:0.16, G:0.12, T:0.36
Consensus pattern (34 bp):
TGTATCGATACATTACTCAAATGTATCGATACAT
Found at i:3327534 original size:52 final size:52
Alignment explanation
Indices: 3327478--3327606 Score: 213
Period size: 52 Copynumber: 2.5 Consensus size: 52
3327468 CACTGATCTT
* *
3327478 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCAATACACTATAAAA
*
3327530 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCAATACACTATTAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCAATACACTATAAAA
* *
3327582 TGTATCGATACATGTAGGTAAATTT
1 TGTATCGATACATGCAGGCAAATTT
3327607 TCATATTTCG
Statistics
Matches: 72, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
52 72 1.00
ACGTcount: A:0.36, C:0.16, G:0.17, T:0.31
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCAATACACTATAAAA
Found at i:3332973 original size:160 final size:160
Alignment explanation
Indices: 3332787--3333118 Score: 646
Period size: 160 Copynumber: 2.1 Consensus size: 160
3332777 AAACATTATC
*
3332787 AATGAAAATGACTTTTGCATAGATCATTCCATCATGTGTGTCTGTCTTATTCCTCGCCTTTATTC
1 AATGAAAATGACTTTTGCATAGATCATTCCATCATGTGTGTCTGTCTTATTCCTCACCTTTATTC
3332852 AACCTTTTGTCCATACACGTTTCTATCTTCGCCTCCATTCTTTACCTATCACATTTTGTCTAGTT
66 AACCTTTTGTCCATACACGTTTCTATCTTCGCCTCCATTCTTTACCTATCACATTTTGTCTAGTT
*
3332917 CGTTCATTTTCACACTCTTTCAGATGCACT
131 CGTTCATTTTCACACTCTTTCAGATGCAAT
3332947 AATGAAAATGACTTTTGCATAGATCATTCCATCATGTGTGTCTGTCTTATTCCTCACCTTTATTC
1 AATGAAAATGACTTTTGCATAGATCATTCCATCATGTGTGTCTGTCTTATTCCTCACCTTTATTC
3333012 AACCTTTTGTCCATACACGTTTCTATCTTCGCCTCCATTCTTTACCTATCACATTTTGTCTAGTT
66 AACCTTTTGTCCATACACGTTTCTATCTTCGCCTCCATTCTTTACCTATCACATTTTGTCTAGTT
3333077 CGTTCATTTTCACACTCTTTCAGATGCAAT
131 CGTTCATTTTCACACTCTTTCAGATGCAAT
3333107 AATGAAAATGAC
1 AATGAAAATGAC
3333119 ATGAATGTCT
Statistics
Matches: 170, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
160 170 1.00
ACGTcount: A:0.23, C:0.25, G:0.11, T:0.42
Consensus pattern (160 bp):
AATGAAAATGACTTTTGCATAGATCATTCCATCATGTGTGTCTGTCTTATTCCTCACCTTTATTC
AACCTTTTGTCCATACACGTTTCTATCTTCGCCTCCATTCTTTACCTATCACATTTTGTCTAGTT
CGTTCATTTTCACACTCTTTCAGATGCAAT
Found at i:3334966 original size:61 final size:61
Alignment explanation
Indices: 3334871--3335496 Score: 696
Period size: 61 Copynumber: 10.2 Consensus size: 61
3334861 CATTCCAGTA
* * *
3334871 CTCAAAGAGCAGGACGTCTTTTCCTTTTCAAAGCCCACACGAGTTGGTGGCACCTTTAGTC
1 CTCAAAGAGCAGGACGCCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACCTTTAGTC
*
3334932 CTCAAAGAGCAGGACGCCTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACCTTTAGTC
1 CTCAAAGAGCAGGACGCCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACCTTTAGTC
* * * * * **
3334993 CTCAAAGAGCAGGACACTTTTTTTCTTTTTAAAGCCCACACGAGTTAGTGGCACCCTCCAGTC
1 CTCAAAGAGCAGGACGC-CTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCA-CCTTTAGTC
* * * * *
3335056 CTCAAAGAGCAGGATGCCTTTTTC-TTTCAAAGTCCACATAAGCTGGTGGCACCTTCAGTC
1 CTCAAAGAGCAGGACGCCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACCTTTAGTC
* * * *
3335116 CTTAAAGAGCAGGACGCCTTCTCCTTTT-AAAGCCCACACAAGTTGGTGGCACTTTCTAGTC
1 CTCAAAGAGCAGGACGCCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACCTT-TAGTC
* * * * *
3335177 CTCAAAGAGAAGGATGCCTTCTCCTTTT-AAAGCCCACACAAGTTGGTGGCACTTTTTAGTC
1 CTCAAAGAGCAGGACGCCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCAC-CTTTAGTC
* * * *
3335238 CTCAAAGAGCAGGATG-CTTTCTT-TTTGCAAAGCCCACACAAGTTGGTGGCATCTTCCAGTC
1 CTCAAAGAGCAGGACGCCTTT-TTCTTTTCAAAGCCCACACAAGTTGGTGGCACCTT-TAGTC
* * * * *
3335299 CTCAAAGAGTAGGACACCTTTTCCTTTT-AAAGCCCACACAAGTTGGTGACACATTTTAGTC
1 CTCAAAGAGCAGGACGCCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCAC-CTTTAGTC
* * * *
3335360 CTCAAAGA-CTAGGATG-CTTTCTT-TTTGCAAAGCCCACACAAGTTGGTGGCATCTTCCAGTC
1 CTCAAAGAGC-AGGACGCCTTT-TTCTTTTCAAAGCCCACACAAGTTGGTGGCACCTT-TAGTC
* ** *
3335421 CTCAAAGGGCAGGACGCC-TTTTCTTTTCAAAGCCCACATGAGTTGGTGGCACTTTTCAGTC
1 CTCAAAGAGCAGGACGCCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACCTTT-AGTC
*
3335482 CTCAAAGAGCGGGAC
1 CTCAAAGAGCAGGAC
3335497 ACACTTCCTT
Statistics
Matches: 481, Mismatches: 65, Indels: 38
0.82 0.11 0.07
Matches are distributed among these distances:
60 70 0.15
61 337 0.70
62 52 0.11
63 22 0.05
ACGTcount: A:0.25, C:0.27, G:0.20, T:0.28
Consensus pattern (61 bp):
CTCAAAGAGCAGGACGCCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACCTTTAGTC
Found at i:3335547 original size:45 final size:42
Alignment explanation
Indices: 3335479--3335667 Score: 126
Period size: 42 Copynumber: 4.5 Consensus size: 42
3335469 GCACTTTTCA
*
3335479 GTCCTCAAAGAGCGGGACACACTTCCTTTTCTTCTTTTCTCTTTT
1 GTCCTCAAAGAGCAGG--ACACTTCCTTTTCTTCTTTT-TCTTTT
**
3335524 GTCCTCAAAGAGCAGGATGCACTTTATTTTC--CTTTTTCTTTT
1 GTCCTCAAAGAGCAGGA--CACTTCCTTTTCTTCTTTTTCTTTT
*
3335566 ATCCTC-AAGAAGCAGGACACTTTCCTTTTCTT-TTCTTTC-TTT
1 GTCCTCAAAG-AGCAGGACAC-TTCCTTTTCTTCTT-TTTCTTTT
* * * * *
3335608 GTCCTTAAGGAGCAAGAC-C-T--ATTTCATTCTCTTTTCCTTT
1 GTCCTCAAAGAGCAGGACACTTCCTTTTC-TTCT-TTTTCTTTT
* *
3335648 GTCCTCAAAAAGTAGGACAC
1 GTCCTCAAAGAGCAGGACAC
3335668 CCCTTCCATT
Statistics
Matches: 115, Mismatches: 16, Indels: 30
0.71 0.10 0.19
Matches are distributed among these distances:
37 4 0.03
38 2 0.02
39 6 0.05
40 20 0.17
41 12 0.10
42 34 0.30
43 12 0.10
45 25 0.22
ACGTcount: A:0.21, C:0.25, G:0.13, T:0.41
Consensus pattern (42 bp):
GTCCTCAAAGAGCAGGACACTTCCTTTTCTTCTTTTTCTTTT
Found at i:3335882 original size:83 final size:87
Alignment explanation
Indices: 3335749--3335913 Score: 207
Period size: 83 Copynumber: 1.9 Consensus size: 87
3335739 ACACTTCTCA
* * *
3335749 GTCCTCAAAGAGTAGGACGCACTTTATTTCCTTCTTTCCTTTGTCTTCAAA-AAGCAGGACACAC
1 GTCCCCAAAGAGCAGGACGCAC-TTATTTCCTTCTTTCCTTTGTCCTCAAAGAA-CAGGACACA-
3335813 TTT-A-TTCCCTTTTTTTCCCTTTT
63 TTTCATTTCCCTTTTTTTCCCTTTT
** *
3335836 GTCCCCAAAGAGCAGGACGCAC-T-TTTCC-TCTTTTTTTTGTCCTCAAAGAACAGGACGCATTT
1 GTCCCCAAAGAGCAGGACGCACTTATTTCCTTCTTTCCTTTGTCCTCAAAGAACAGGACACATTT
3335898 CATTTCCCTTTTTTTC
66 CATTTCCCTTTTTTTC
3335914 TTTATCCTCG
Statistics
Matches: 69, Mismatches: 6, Indels: 9
0.82 0.07 0.11
Matches are distributed among these distances:
82 3 0.04
83 25 0.36
84 20 0.29
85 1 0.01
87 20 0.29
ACGTcount: A:0.21, C:0.27, G:0.13, T:0.39
Consensus pattern (87 bp):
GTCCCCAAAGAGCAGGACGCACTTATTTCCTTCTTTCCTTTGTCCTCAAAGAACAGGACACATTT
CATTTCCCTTTTTTTCCCTTTT
Found at i:3335934 original size:43 final size:43
Alignment explanation
Indices: 3335749--3335935 Score: 176
Period size: 42 Copynumber: 4.4 Consensus size: 43
3335739 ACACTTCTCA
* * *
3335749 GTCCTCAAAGAGTAGGACGCACTTTATTT-CCTTCTTTCCTTT
1 GTCCTCAAAGAGCAGGACGCACTTTATTTCCCTTTTTTTCTTT
* * *
3335791 GTCTTCAAAAAGCAGGACACACTTTA-TTCCCTTTTTTTCCCTTTT
1 GTCCTCAAAGAGCAGGACGCACTTTATTTCCCTTTTTTT--C-TTT
* *
3335836 GTCCCCAAAGAGCAGGACGCAC--T-TTT-CCTCTTTTT-TTT
1 GTCCTCAAAGAGCAGGACGCACTTTATTTCCCTTTTTTTCTTT
*
3335874 GTCCTCAAAGAACAGGACGCA-TTTCATTTCCCTTTTTTTCTTT
1 GTCCTCAAAGAGCAGGACGCACTTT-ATTTCCCTTTTTTTCTTT
*
3335917 ATCCTCGAAA-AGCAGGACG
1 GTCCTC-AAAGAGCAGGACG
3335936 TACTCTTTTT
Statistics
Matches: 117, Mismatches: 16, Indels: 23
0.75 0.10 0.15
Matches are distributed among these distances:
38 22 0.19
39 1 0.01
41 5 0.04
42 45 0.38
43 19 0.16
44 4 0.03
45 21 0.18
ACGTcount: A:0.22, C:0.27, G:0.14, T:0.37
Consensus pattern (43 bp):
GTCCTCAAAGAGCAGGACGCACTTTATTTCCCTTTTTTTCTTT
Found at i:3336677 original size:19 final size:21
Alignment explanation
Indices: 3336634--3336685 Score: 72
Period size: 19 Copynumber: 2.6 Consensus size: 21
3336624 TTCAATAATT
*
3336634 TGTATCGATACATTCAGTAAA
1 TGTATCGATACATTAAGTAAA
3336655 TGTATCGATACA-TAAGT-AA
1 TGTATCGATACATTAAGTAAA
*
3336674 TGTATTGATACA
1 TGTATCGATACA
3336686 GTGTATCGCT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
19 13 0.45
20 4 0.14
21 12 0.41
ACGTcount: A:0.38, C:0.12, G:0.15, T:0.35
Consensus pattern (21 bp):
TGTATCGATACATTAAGTAAA
Done.