Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr5
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: 43060996
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2186021 characters in sequence are not A, C, G, or T
File 6 of 128
Found at i:1843182 original size:19 final size:19
Alignment explanation
Indices: 1843158--1843224 Score: 64
Period size: 19 Copynumber: 3.5 Consensus size: 19
1843148 ATATTTTTTC
1843158 ATAAAAATATTTAAAAATT
1 ATAAAAATATTTAAAAATT
* *
1843177 ATAAAAAAATATAGAAAATT
1 ATAAAAATATTTA-AAAATT
* *
1843197 ATCAAAAT-TATAAAAAATT
1 ATAAAAATAT-TTAAAAATT
*
1843216 ACAAAAATA
1 ATAAAAATA
1843225 CAAAAAAATC
Statistics
Matches: 37, Mismatches: 8, Indels: 5
0.74 0.16 0.10
Matches are distributed among these distances:
19 24 0.65
20 13 0.35
ACGTcount: A:0.67, C:0.03, G:0.01, T:0.28
Consensus pattern (19 bp):
ATAAAAATATTTAAAAATT
Found at i:1843183 original size:10 final size:10
Alignment explanation
Indices: 1843158--1843222 Score: 64
Period size: 10 Copynumber: 6.7 Consensus size: 10
1843148 ATATTTTTTC
1843158 ATAAAAATATT
1 ATAAAAA-ATT
1843169 -T-AAAAATT
1 ATAAAAAATT
*
1843177 ATAAAAAAAT
1 ATAAAAAATT
*
1843187 ATAGAAAATT
1 ATAAAAAATT
*
1843197 AT-CAAAATT
1 ATAAAAAATT
1843206 ATAAAAAATT
1 ATAAAAAATT
*
1843216 ACAAAAA
1 ATAAAAA
1843223 TACAAAAAAA
Statistics
Matches: 45, Mismatches: 6, Indels: 7
0.78 0.10 0.12
Matches are distributed among these distances:
8 3 0.07
9 13 0.29
10 29 0.64
ACGTcount: A:0.68, C:0.03, G:0.02, T:0.28
Consensus pattern (10 bp):
ATAAAAAATT
Found at i:1843709 original size:21 final size:22
Alignment explanation
Indices: 1843675--1843730 Score: 64
Period size: 22 Copynumber: 2.7 Consensus size: 22
1843665 TTTAATTTTA
1843675 TAAAA-TTAAT-AAAACATATT
1 TAAAATTTAATAAAAACATATT
*
1843695 TAAAATTTTATAAAAACATATT
1 TAAAATTTAATAAAAACATATT
* *
1843717 AAAAATATAA-AAAA
1 TAAAATTTAATAAAA
1843731 GCCATAAAAG
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
20 5 0.17
21 8 0.27
22 17 0.57
ACGTcount: A:0.64, C:0.04, G:0.00, T:0.32
Consensus pattern (22 bp):
TAAAATTTAATAAAAACATATT
Found at i:1844238 original size:9 final size:10
Alignment explanation
Indices: 1844216--1844249 Score: 52
Period size: 9 Copynumber: 3.4 Consensus size: 10
1844206 TTTTTATAAG
1844216 TTTATATAAAT
1 TTTA-ATAAAT
1844227 TTTAAT-AAT
1 TTTAATAAAT
1844236 TTTAATAAAT
1 TTTAATAAAT
1844246 TTTA
1 TTTA
1844250 GGGATAAATC
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
9 9 0.41
10 9 0.41
11 4 0.18
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (10 bp):
TTTAATAAAT
Found at i:1844243 original size:19 final size:20
Alignment explanation
Indices: 1844206--1844249 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
1844196 TTTATGATTC
*
1844206 TTTTTATAAGTTTATATAAA
1 TTTTAATAAGTTTATATAAA
*
1844226 TTTTAATAATTTTA-ATAAA
1 TTTTAATAAGTTTATATAAA
1844245 TTTTA
1 TTTTA
1844250 GGGATAAATC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 10 0.45
20 12 0.55
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (20 bp):
TTTTAATAAGTTTATATAAA
Found at i:1844618 original size:9 final size:9
Alignment explanation
Indices: 1844594--1844725 Score: 51
Period size: 9 Copynumber: 14.2 Consensus size: 9
1844584 TTAAGAATTC
1844594 TAATATTTT
1 TAATATTTT
1844603 T--TATTTT
1 TAATATTTT
1844610 TAATATTTT
1 TAATATTTT
* **
1844619 AAATAGGTT
1 TAATATTTT
* *
1844628 CAATTAATTT
1 TAA-TATTTT
*
1844638 T-ATAATTT
1 TAATATTTT
*
1844646 TAATAATTT
1 TAATATTTT
1844655 TATATCATTTT
1 TA-AT-ATTTT
*
1844666 TAATTTTTT
1 TAATATTTT
*
1844675 TATAAATTTTT
1 TA-ATA-TTTT
1844686 CTAAT-TTCTCT
1 -TAATATT-T-T
1844697 T-AT-TTTT
1 TAATATTTT
1844704 TAATGATTTTT
1 TAAT-A-TTTT
1844715 TAATATTTT
1 TAATATTTT
1844724 TA
1 TA
1844726 TGAGAAAAAT
Statistics
Matches: 96, Mismatches: 12, Indels: 30
0.70 0.09 0.22
Matches are distributed among these distances:
7 9 0.09
8 10 0.10
9 43 0.45
10 12 0.12
11 20 0.21
12 2 0.02
ACGTcount: A:0.31, C:0.04, G:0.02, T:0.63
Consensus pattern (9 bp):
TAATATTTT
Found at i:1844683 original size:19 final size:19
Alignment explanation
Indices: 1844632--1844725 Score: 59
Period size: 20 Copynumber: 4.9 Consensus size: 19
1844622 TAGGTTCAAT
1844632 TAATTTTAT-AA-TTTTAA
1 TAATTTTATAAATTTTTAA
*
1844649 TAATTTTATATCATTTTTAA
1 TAATTTTATA-AATTTTTAA
** *
1844669 TTTTTTTATAAATTTTT-C
1 TAATTTTATAAATTTTTAA
* * *
1844687 TAATTTCTCTTATTTTTTAA
1 TAATTT-TATAAATTTTTAA
* *
1844707 TGATTTTTTAATATTTTTA
1 TAATTTTATAA-ATTTTTA
1844726 TGAGAAAAAT
Statistics
Matches: 56, Mismatches: 15, Indels: 9
0.70 0.19 0.11
Matches are distributed among these distances:
17 9 0.16
18 4 0.07
19 18 0.32
20 25 0.45
ACGTcount: A:0.30, C:0.04, G:0.01, T:0.65
Consensus pattern (19 bp):
TAATTTTATAAATTTTTAA
Found at i:1867356 original size:28 final size:28
Alignment explanation
Indices: 1867324--1867380 Score: 78
Period size: 28 Copynumber: 2.0 Consensus size: 28
1867314 CATAATGCAT
* *
1867324 ATTTATAAAAATATTCATATTTATATAA
1 ATTTATAAAAATATTAATATTGATATAA
* *
1867352 ATTTATTAAATTATTAATATTGATATAA
1 ATTTATAAAAATATTAATATTGATATAA
1867380 A
1 A
1867381 AAATACAAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (28 bp):
ATTTATAAAAATATTAATATTGATATAA
Found at i:1876965 original size:26 final size:26
Alignment explanation
Indices: 1876934--1877003 Score: 88
Period size: 25 Copynumber: 2.7 Consensus size: 26
1876924 AGTTTAGATG
* *
1876934 CCAAATTGGACAAAAAAATTTAGGTA
1 CCAAATTGGAAAAAAAAATTTAAGTA
* *
1876960 CTAAATTGGATAAAAAAA-TTAAGTA
1 CCAAATTGGAAAAAAAAATTTAAGTA
*
1876985 CCAAATTAGAAAAAAAAAT
1 CCAAATTGGAAAAAAAAAT
1877004 GTCAAGTTCA
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
25 21 0.57
26 16 0.43
ACGTcount: A:0.57, C:0.09, G:0.11, T:0.23
Consensus pattern (26 bp):
CCAAATTGGAAAAAAAAATTTAAGTA
Found at i:1883494 original size:26 final size:26
Alignment explanation
Indices: 1883446--1883497 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 26
1883436 AGTTTTGATT
* *
1883446 TAAAAATTTATATATTTTTTATATTC
1 TAAAAATTTATATATTATATATATTC
1883472 TAAAAAGTTTATATATATATATATAT
1 TAAAAA-TTTATATAT-TATATATAT
1883498 AGATTGAGTC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 6 0.27
27 9 0.41
28 7 0.32
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.52
Consensus pattern (26 bp):
TAAAAATTTATATATTATATATATTC
Found at i:1884086 original size:20 final size:19
Alignment explanation
Indices: 1884063--1884130 Score: 68
Period size: 20 Copynumber: 3.5 Consensus size: 19
1884053 AAAATTAAAA
1884063 AATATTTTATATGTTTTTAT
1 AATATTTTATAT-TTTTTAT
*
1884083 AATATTTTATACTTCTTT-T
1 AATATTTTATA-TTTTTTAT
*
1884102 AATATTGTTAATATTTTTTAG
1 AATATT-TT-ATATTTTTTAT
1884123 AAT-TTTTA
1 AATATTTTA
1884131 AATATTTAAA
Statistics
Matches: 41, Mismatches: 3, Indels: 10
0.76 0.06 0.19
Matches are distributed among these distances:
18 1 0.02
19 9 0.22
20 24 0.59
21 7 0.17
ACGTcount: A:0.31, C:0.03, G:0.04, T:0.62
Consensus pattern (19 bp):
AATATTTTATATTTTTTAT
Found at i:1887335 original size:20 final size:21
Alignment explanation
Indices: 1887298--1887337 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
1887288 ATATAGATAG
1887298 ATATTTATAAATTTTTAAATA
1 ATATTTATAAATTTTTAAATA
*
1887319 ATATTTTTAAA-TTTTAAAT
1 ATATTTATAAATTTTTAAAT
1887338 TTTCTTTTTC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 8 0.44
21 10 0.56
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (21 bp):
ATATTTATAAATTTTTAAATA
Found at i:1891216 original size:26 final size:26
Alignment explanation
Indices: 1891183--1891235 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
1891173 TCATTAAATG
1891183 TTAGATCAAATAACAAATTAGTCTTT
1 TTAGATCAAATAACAAATTAGTCTTT
1891209 TTAGATCAAATAACAAATTAGTCTTT
1 TTAGATCAAATAACAAATTAGTCTTT
1891235 T
1 T
1891236 CTCTGAAAAG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.42, C:0.11, G:0.08, T:0.40
Consensus pattern (26 bp):
TTAGATCAAATAACAAATTAGTCTTT
Found at i:1891459 original size:24 final size:24
Alignment explanation
Indices: 1891431--1891477 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
1891421 ATTTTTAGAA
*
1891431 AAAACTTTAAGATACTTCATAATG
1 AAAACTGTAAGATACTTCATAATG
*
1891455 AAAACTGTAAGATGCTTCATAAT
1 AAAACTGTAAGATACTTCATAAT
1891478 AATAGTTTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.45, C:0.13, G:0.11, T:0.32
Consensus pattern (24 bp):
AAAACTGTAAGATACTTCATAATG
Found at i:1894546 original size:15 final size:15
Alignment explanation
Indices: 1894526--1894559 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
1894516 AAAAATCATA
1894526 AAAATTGAAAAAATT
1 AAAATTGAAAAAATT
*
1894541 AAAATTGAAAAACTT
1 AAAATTGAAAAAATT
1894556 AAAA
1 AAAA
1894560 ATTATTTAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.68, C:0.03, G:0.06, T:0.24
Consensus pattern (15 bp):
AAAATTGAAAAAATT
Found at i:1894595 original size:26 final size:26
Alignment explanation
Indices: 1894540--1894595 Score: 62
Period size: 26 Copynumber: 2.2 Consensus size: 26
1894530 TTGAAAAAAT
* *
1894540 TAAAATTGAAAAACTTAAAAATTATT
1 TAAAATTGAAAAACTAAAAAATTATC
1894566 TAAAATT-AAAAACTGAATAAAATT-TC
1 TAAAATTGAAAAACT-AA-AAAATTATC
1894592 TAAA
1 TAAA
1894596 TTTATGGGAA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
25 7 0.27
26 13 0.50
27 6 0.23
ACGTcount: A:0.59, C:0.05, G:0.04, T:0.32
Consensus pattern (26 bp):
TAAAATTGAAAAACTAAAAAATTATC
Found at i:1895827 original size:22 final size:21
Alignment explanation
Indices: 1895788--1895836 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 21
1895778 TTTTTATTAA
*
1895788 ATAAAATAAAATTGTAAAAACT
1 ATAAAATAAAATTAT-AAAACT
1895810 ATAAAATATAAA-TATAAAACT
1 ATAAAATA-AAATTATAAAACT
1895831 A-AAAAT
1 ATAAAAT
1895837 GTATATATGA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
20 5 0.20
21 7 0.28
22 10 0.40
23 3 0.12
ACGTcount: A:0.67, C:0.04, G:0.02, T:0.27
Consensus pattern (21 bp):
ATAAAATAAAATTATAAAACT
Found at i:1898392 original size:20 final size:21
Alignment explanation
Indices: 1898344--1898393 Score: 68
Period size: 20 Copynumber: 2.4 Consensus size: 21
1898334 AACAAAAAAA
1898344 TATAAAACAATTCAAAATAATT
1 TATAAAA-AATTCAAAATAATT
*
1898366 T-TCAAAAATTCAAAAT-ATT
1 TATAAAAAATTCAAAATAATT
1898385 TATAAAAAA
1 TATAAAAAA
1898394 ACTTCCAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
19 4 0.16
20 16 0.64
21 4 0.16
22 1 0.04
ACGTcount: A:0.60, C:0.08, G:0.00, T:0.32
Consensus pattern (21 bp):
TATAAAAAATTCAAAATAATT
Found at i:1899523 original size:23 final size:22
Alignment explanation
Indices: 1899480--1899523 Score: 52
Period size: 23 Copynumber: 2.0 Consensus size: 22
1899470 TAATGAGGAC
* *
1899480 TTTCAAAAAATTTAACCAAAAT
1 TTTCAAAAAATTCAACAAAAAT
*
1899502 TTTCTAAAAAATTCAAGAAAAA
1 TTTC-AAAAAATTCAACAAAAA
1899524 AAATGAAAAG
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
22 4 0.22
23 14 0.78
ACGTcount: A:0.57, C:0.11, G:0.02, T:0.30
Consensus pattern (22 bp):
TTTCAAAAAATTCAACAAAAAT
Found at i:1901090 original size:146 final size:145
Alignment explanation
Indices: 1900814--1901108 Score: 423
Period size: 146 Copynumber: 2.0 Consensus size: 145
1900804 TTATTATTCT
* * *
1900814 CATTTGTTTGAATTTGTTGGTTTGTAGGGATGAATAATCTACTTATGTGCTTGTATTGTTGCTGG
1 CATTTGTTTGAATTTGTTAGTGTGGAGGGATGAATAATCTACTTATGTGCTTGTATTGTTGCTGG
** * * * *
1900879 ATTTTTAAGTAGAAATTGAGTGTTGTAATACTGAATGATTGAAAATTGTTTTAATTGGAACAGCA
66 ATTTTTAAGTAGAAATCAAGTATTCTAATACTGAATGATTG-AAATTGTTTTAATAGGAAAAGCA
1900944 GTCTTGGGGTTGATAG
130 GTCTTGGGGTTGATAG
*
1900960 CATTTGTTTGAATTTGTTAGTGTGGAGGGATGAATAATCTACTTCTGTGCTTGTATTGTTGCTGG
1 CATTTGTTTGAATTTGTTAGTGTGGAGGGATGAATAATCTACTTATGTGCTTGTATTGTTGCTGG
* **
1901025 A-TTTTAAGTCGAAATCAAGTATTCTAATGTTGAATGATTG-AATTGTGTTTAAATAGGCAAAAG
66 ATTTTTAAGTAGAAATCAAGTATTCTAATACTGAATGATTGAAATTGT-TTT-AATAGG-AAAAG
1901088 CAGTCTTGGGGTTGATAG
128 CAGTCTTGGGGTTGATAG
1901106 CAT
1 CAT
1901109 ATTTGGACCC
Statistics
Matches: 133, Mismatches: 13, Indels: 6
0.88 0.09 0.04
Matches are distributed among these distances:
143 6 0.05
144 3 0.02
145 37 0.28
146 87 0.65
ACGTcount: A:0.26, C:0.07, G:0.25, T:0.41
Consensus pattern (145 bp):
CATTTGTTTGAATTTGTTAGTGTGGAGGGATGAATAATCTACTTATGTGCTTGTATTGTTGCTGG
ATTTTTAAGTAGAAATCAAGTATTCTAATACTGAATGATTGAAATTGTTTTAATAGGAAAAGCAG
TCTTGGGGTTGATAG
Found at i:1904624 original size:46 final size:47
Alignment explanation
Indices: 1904517--1904610 Score: 181
Period size: 47 Copynumber: 2.0 Consensus size: 47
1904507 TCGTTAGTTC
1904517 TATCAGTTTTTAATAGTAAAGATAATGAAATTAAAAAAAATAATTTA
1 TATCAGTTTTTAATAGTAAAGATAATGAAATTAAAAAAAATAATTTA
1904564 TATCAGTTTTTAATAGTAAAGATAATGAAATT-AAAAAAATAATTTA
1 TATCAGTTTTTAATAGTAAAGATAATGAAATTAAAAAAAATAATTTA
1904610 T
1 T
1904611 TCTTTAATTT
Statistics
Matches: 47, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
46 15 0.32
47 32 0.68
ACGTcount: A:0.52, C:0.02, G:0.09, T:0.37
Consensus pattern (47 bp):
TATCAGTTTTTAATAGTAAAGATAATGAAATTAAAAAAAATAATTTA
Found at i:1908265 original size:20 final size:20
Alignment explanation
Indices: 1908240--1908282 Score: 86
Period size: 20 Copynumber: 2.1 Consensus size: 20
1908230 AGTTATGGTT
1908240 TATTCCTTCTCCTTGTAATA
1 TATTCCTTCTCCTTGTAATA
1908260 TATTCCTTCTCCTTGTAATA
1 TATTCCTTCTCCTTGTAATA
1908280 TAT
1 TAT
1908283 ATATATATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.21, C:0.23, G:0.05, T:0.51
Consensus pattern (20 bp):
TATTCCTTCTCCTTGTAATA
Found at i:1908284 original size:2 final size:2
Alignment explanation
Indices: 1908277--1908320 Score: 74
Period size: 2 Copynumber: 23.0 Consensus size: 2
1908267 TCTCCTTGTA
1908277 AT AT AT AT AT AT AT AT AT AT -T AT AT AT AT A- AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1908317 AT AT
1 AT AT
1908321 TCAATTTTAT
Statistics
Matches: 40, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
1 2 0.05
2 38 0.95
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1910311 original size:66 final size:66
Alignment explanation
Indices: 1909605--1910311 Score: 976
Period size: 66 Copynumber: 10.7 Consensus size: 66
1909595 GGAGGTAATA
* *
1909605 TAGGAGGACAATGAGGGTTTGGTGGAAAAGGTGGTGGAAGTGGTAGCGGC-AATGTTGCTGGTGG
1 TAGGAGGGCAAGGAGGGTTTGGTGGAAAAGGTGGTGGAAGTGGTAGC-GCTAATGTTGCTGGTGG
1909669 AG
65 AG
* * * *
1909671 TAGGAGGGCAATGAGGGTTTGGAGGAAACA-GTGGTGGAAGTGGTAGTGCTAATTTTGCTGGTGG
1 TAGGAGGGCAAGGAGGGTTTGGTGGAAA-AGGTGGTGGAAGTGGTAGCGCTAATGTTGCTGGTGG
1909735 AG
65 AG
* * *
1909737 TAGGAGGACAATGG-GGGTTTGGTGGAAAAGGTGGTGGAAGTAGTAACGCTAATGTTGCTGGTGG
1 TAGGAGGGCAA-GGAGGGTTTGGTGGAAAAGGTGGTGGAAGTGGTAGCGCTAATGTTGCTGGTGG
1909801 AG
65 AG
* * * *
1909803 TAGGAGGGCAGGGAGGGTTTGGAGGAAACA-GTGGTGGAAGTGGTAGTGCTAATTTTGCTGGTGG
1 TAGGAGGGCAAGGAGGGTTTGGTGGAAA-AGGTGGTGGAAGTGGTAGCGCTAATGTTGCTGGTGG
1909867 AG
65 AG
* * * *
1909869 TAGGAGGACAAGG-GGGTTTGGTAGAAAAGGTGGTGGAAGTAGTAACGCTAATGTTGCTGGTGGA
1 TAGGAGGGCAAGGAGGGTTTGGTGGAAAAGGTGGTGGAAGTGGTAGCGCTAATGTTGCTGGTGGA
1909933 G
66 G
* * * * *
1909934 TAGAAGGGCAAGGAGGGTTTGGTGGAAAAGGTGGTGGAAGTGGTAGTGCTACTGTTGTTGATGGA
1 TAGGAGGGCAAGGAGGGTTTGGTGGAAAAGGTGGTGGAAGTGGTAGCGCTAATGTTGCTGGTGGA
1909999 G
66 G
* * * *
1910000 CAGGAGGGCAATGG-GGTTTTGGTGGAAAAGGTGGTGGAAGTGGTAGTGCTAATGTTGCTGGTAG
1 TAGGAGGGCAA-GGAGGGTTTGGTGGAAAAGGTGGTGGAAGTGGTAGCGCTAATGTTGCTGGTGG
1910064 AG
65 AG
* * *
1910066 TAGGAGGGCAATGAGGGTTTGGTGGAAACGGTGGTGGAAGTGGTAGCACTAATGTTGCTGGTGGA
1 TAGGAGGGCAAGGAGGGTTTGGTGGAAAAGGTGGTGGAAGTGGTAGCGCTAATGTTGCTGGTGGA
1910131 G
66 G
* * * *
1910132 TAGGAGGGCAAGGAGGGTTAGGTGGAAAAGGTGGTGGAAGTGGTAGTGCTAATGTTGTTGGTGAA
1 TAGGAGGGCAAGGAGGGTTTGGTGGAAAAGGTGGTGGAAGTGGTAGCGCTAATGTTGCTGGTGGA
*
1910197 T
66 G
* * * * *
1910198 TAGGAGGGAAAGGAGAGTTTGGTGGAAAAGGTGGTGGAACTGGTAGCGCTAAGGTTGATGGTGGA
1 TAGGAGGGCAAGGAGGGTTTGGTGGAAAAGGTGGTGGAAGTGGTAGCGCTAATGTTGCTGGTGGA
1910263 G
66 G
1910264 TAGGAGGGCAAGGAGGGTTTGGTGGAAAAGGTGGTGGAAGTGGTAGCG
1 TAGGAGGGCAAGGAGGGTTTGGTGGAAAAGGTGGTGGAAGTGGTAGCG
1910312 TAAGTGGTAG
Statistics
Matches: 562, Mismatches: 69, Indels: 20
0.86 0.11 0.03
Matches are distributed among these distances:
64 1 0.00
65 61 0.11
66 495 0.88
67 5 0.01
ACGTcount: A:0.25, C:0.06, G:0.46, T:0.24
Consensus pattern (66 bp):
TAGGAGGGCAAGGAGGGTTTGGTGGAAAAGGTGGTGGAAGTGGTAGCGCTAATGTTGCTGGTGGA
G
Found at i:1910316 original size:12 final size:12
Alignment explanation
Indices: 1910301--1910336 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
1910291 AAGGTGGTGG
*
1910301 AAGTGGTAGCGT
1 AAGTGGTAGCGC
*
1910313 AAGTGGTAGTGC
1 AAGTGGTAGCGC
1910325 AAGTGGTAGCGC
1 AAGTGGTAGCGC
1910337 TAATTTTGCT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.25, C:0.11, G:0.42, T:0.22
Consensus pattern (12 bp):
AAGTGGTAGCGC
Found at i:1910390 original size:156 final size:156
Alignment explanation
Indices: 1910169--1910454 Score: 437
Period size: 156 Copynumber: 1.8 Consensus size: 156
1910159 AAGGTGGTGG
* * * *
1910169 AAGTGGTAGTGCTAATGTTGTTGGTGAATTAGGAGGGAAAGGAGAGTTTGGTGGAAAAGGTGGTG
1 AAGTGGTAGCGCTAATGTTGCTGGTGAAGTAGGAGGGAAAGGAGAGTTTGGTGGAAAAGGAGGTG
* * *
1910234 GAACTGGTAGCGCTAAGGTTGATGGTGGAGTAGGAGGGCAAGGAGGGTTTGGTGGAAAAGGTGGT
66 GAACTGGTAGCGCTAAGGTAGATAGTAGAGTAGGAGGGCAAGGAGGGTTTGGTGGAAAAGGTGGT
1910299 GGAAGTGGTAGCGTAAGTGGTAGTGC
131 GGAAGTGGTAGCGTAAGTGGTAGTGC
* * * *
1910325 AAGTGGTAGCGCTAATTTTGCTGGTGGAGTAGGAGGGCAAGGAGGGTTTGGTGGAAAAGGAGGTG
1 AAGTGGTAGCGCTAATGTTGCTGGTGAAGTAGGAGGGAAAGGAGAGTTTGGTGGAAAAGGAGGTG
* * * *
1910390 GAAGTGGTAGTGCTAATGTAGCTAGTAGAGTAGGAGGGCAAGGAGGGTTTGGTGGAAAAGGTGGT
66 GAACTGGTAGCGCTAAGGTAGATAGTAGAGTAGGAGGGCAAGGAGGGTTTGGTGGAAAAGGTGGT
1910455 AAAAGTGGCA
Statistics
Matches: 115, Mismatches: 15, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
156 115 1.00
ACGTcount: A:0.26, C:0.05, G:0.45, T:0.24
Consensus pattern (156 bp):
AAGTGGTAGCGCTAATGTTGCTGGTGAAGTAGGAGGGAAAGGAGAGTTTGGTGGAAAAGGAGGTG
GAACTGGTAGCGCTAAGGTAGATAGTAGAGTAGGAGGGCAAGGAGGGTTTGGTGGAAAAGGTGGT
GGAAGTGGTAGCGTAAGTGGTAGTGC
Found at i:1910406 original size:66 final size:66
Alignment explanation
Indices: 1910325--1910648 Score: 441
Period size: 66 Copynumber: 4.9 Consensus size: 66
1910315 GTGGTAGTGC
* *
1910325 AAGTGGTAGCGCTAATTTTGCTGGTGGAGTAGGAGGGCAAGGAGGGTTTGGTGGAAAAGGAGGTG
1 AAGTGGTAGCGCTAATGTTGCTGGTGGAGTAGGAGGGCAAGGAGGGTTTGGTGGAAAAGGTGGTG
1910390 G
66 G
* * * * *
1910391 AAGTGGTAGTGCTAATGTAGCTAGTAGAGTAGGAGGGCAAGGAGGGTTTGGTGGAAAAGGTGGTA
1 AAGTGGTAGCGCTAATGTTGCTGGTGGAGTAGGAGGGCAAGGAGGGTTTGGTGGAAAAGGTGGTG
*
1910456 A
66 G
* * * * *
1910457 AAGTGGCAGTGCTAATGTAGCTGGTGAAGTAGGAAGGCAAGGAGGGTTTGGTGGAAAAGGTGGTG
1 AAGTGGTAGCGCTAATGTTGCTGGTGGAGTAGGAGGGCAAGGAGGGTTTGGTGGAAAAGGTGGTG
1910522 G
66 G
* * * *
1910523 AAGTGGTAGCGCTAATGTTGCTAGTGGAGTAAGAGGACAAGGAGGGCTTGGTGGAAAAGGTGGTG
1 AAGTGGTAGCGCTAATGTTGCTGGTGGAGTAGGAGGGCAAGGAGGGTTTGGTGGAAAAGGTGGTG
1910588 G
66 G
* * * * *
1910589 AAGTGGTAGCGCTAATGTTGCTGGTGGAATAGAAGGGAAAGGAGGATTTGGCGGAGAAAG
1 AAGTGGTAGCGCTAATGTTGCTGGTGGAGTAGGAGGGCAAGGAGGGTTTGGTGGA-AAAG
1910649 TAGCACTAGT
Statistics
Matches: 224, Mismatches: 33, Indels: 1
0.87 0.13 0.00
Matches are distributed among these distances:
66 220 0.98
67 4 0.02
ACGTcount: A:0.28, C:0.06, G:0.44, T:0.22
Consensus pattern (66 bp):
AAGTGGTAGCGCTAATGTTGCTGGTGGAGTAGGAGGGCAAGGAGGGTTTGGTGGAAAAGGTGGTG
G
Found at i:1910490 original size:222 final size:222
Alignment explanation
Indices: 1910103--1910533 Score: 666
Period size: 222 Copynumber: 1.9 Consensus size: 222
1910093 ACGGTGGTGG
*
1910103 AAGTGGTAGCACTAATGTTGCTGGTGGAGTAGGAGGGCAAGGAGGGTTAGGTGGAAAAGGTGGTG
1 AAGTGGTAGCACTAATGTTGCTGGTGGAGTAGGAGGGCAAGGAGGGTTAGGTGGAAAAGGAGGTG
* * * *
1910168 GAAGTGGTAGTGCTAATGTTGTTGGTGAATTAGGAGGGAAAGGAGAGTTTGGTGGAAAAGGTGGT
66 GAAGTGGTAGTGCTAATGTAGCTAGTGAAGTAGGAGGGAAAGGAGAGTTTGGTGGAAAAGGTGGT
** * * * *
1910233 GGAACTGGTAGCGCTAAGGTTGATGGTGGAGTAGGAGGGCAAGGAGGGTTTGGTGGAAAAGGTGG
131 AAAACTGGCAGCGCTAAGGTAGATGGTGAAGTAGGAAGGCAAGGAGGGTTTGGTGGAAAAGGTGG
1910298 TGGAAGTGGTAGCGTAAGTGGTAGTGC
196 TGGAAGTGGTAGCGTAAGTGGTAGTGC
* * *
1910325 AAGTGGTAGCGCTAATTTTGCTGGTGGAGTAGGAGGGCAAGGAGGGTTTGGTGGAAAAGGAGGTG
1 AAGTGGTAGCACTAATGTTGCTGGTGGAGTAGGAGGGCAAGGAGGGTTAGGTGGAAAAGGAGGTG
* *
1910390 GAAGTGGTAGTGCTAATGTAGCTAGT-AGAGTAGGAGGGCAAGGAGGGTTTGGTGGAAAAGGTGG
66 GAAGTGGTAGTGCTAATGTAGCTAGTGA-AGTAGGAGGGAAAGGAGAGTTTGGTGGAAAAGGTGG
* * * *
1910454 TAAAAGTGGCAGTGCTAATGTAGCTGGTGAAGTAGGAAGGCAAGGAGGGTTTGGTGGAAAAGGTG
130 TAAAACTGGCAGCGCTAAGGTAGATGGTGAAGTAGGAAGGCAAGGAGGGTTTGGTGGAAAAGGTG
1910519 GTGGAAGTGGTAGCG
195 GTGGAAGTGGTAGCG
1910534 CTAATGTTGC
Statistics
Matches: 188, Mismatches: 20, Indels: 2
0.90 0.10 0.01
Matches are distributed among these distances:
221 1 0.01
222 187 0.99
ACGTcount: A:0.26, C:0.05, G:0.45, T:0.23
Consensus pattern (222 bp):
AAGTGGTAGCACTAATGTTGCTGGTGGAGTAGGAGGGCAAGGAGGGTTAGGTGGAAAAGGAGGTG
GAAGTGGTAGTGCTAATGTAGCTAGTGAAGTAGGAGGGAAAGGAGAGTTTGGTGGAAAAGGTGGT
AAAACTGGCAGCGCTAAGGTAGATGGTGAAGTAGGAAGGCAAGGAGGGTTTGGTGGAAAAGGTGG
TGGAAGTGGTAGCGTAAGTGGTAGTGC
Found at i:1910532 original size:288 final size:288
Alignment explanation
Indices: 1910037--1910599 Score: 874
Period size: 288 Copynumber: 2.0 Consensus size: 288
1910027 AAGGTGGTGG
* * * *
1910037 AAGTGGTAGTGCTAATGTTGCTGGTAGAGTAGGAGGGCAATGAGGGTTTGGTGGAAACGGTGGTG
1 AAGTGGTAGCGCTAATGTTGCTGGTAGAGTAGGAGGGCAAGGAGGGTTTGGTGGAAAAGGAGGTG
* * *
1910102 GAAGTGGTAGCACTAATGTTGCTGGTGGAGTAGGAGGGCAAGGAGGGTTAGGTGGAAAAGGTGGT
66 GAAGTGGTAGCACTAATGTAGCTAGTAGAGTAGGAGGGCAAGGAGGGTTAGGTGGAAAAGGTGGT
** * * * * *
1910167 GGAAGTGGTAGTGCTAATGTTGTTGGTGAATTAGGAGGGAAAGGAGAGTTTGGTGGAAAAGGTGG
131 AAAAGTGGCAGTGCTAATGTAGCTGGTGAAGTAGGAAGGAAAGGAGAGTTTGGTGGAAAAGGTGG
* * * *
1910232 TGGAACTGGTAGCGCTAAGGTTGATGGTGGAGTAGGAGGGCAAGGAGGGTTTGGTGGAAAAGGTG
196 TGGAACTGGTAGCGCTAAGGTTGATAGTGGAGTAAGAGGACAAGGAGGGCTTGGTGGAAAAGGTG
1910297 GTGGAAGTGGTAGCGTAAGTGGTAGTGC
261 GTGGAAGTGGTAGCGTAAGTGGTAGTGC
* *
1910325 AAGTGGTAGCGCTAATTTTGCTGGTGGAGTAGGAGGGCAAGGAGGGTTTGGTGGAAAAGGAGGTG
1 AAGTGGTAGCGCTAATGTTGCTGGTAGAGTAGGAGGGCAAGGAGGGTTTGGTGGAAAAGGAGGTG
** *
1910390 GAAGTGGTAGTGCTAATGTAGCTAGTAGAGTAGGAGGGCAAGGAGGGTTTGGTGGAAAAGGTGGT
66 GAAGTGGTAGCACTAATGTAGCTAGTAGAGTAGGAGGGCAAGGAGGGTTAGGTGGAAAAGGTGGT
* *
1910455 AAAAGTGGCAGTGCTAATGTAGCTGGTGAAGTAGGAAGGCAAGGAGGGTTTGGTGGAAAAGGTGG
131 AAAAGTGGCAGTGCTAATGTAGCTGGTGAAGTAGGAAGGAAAGGAGAGTTTGGTGGAAAAGGTGG
* * *
1910520 TGGAAGTGGTAGCGCTAATGTTGCTAGTGGAGTAAGAGGACAAGGAGGGCTTGGTGGAAAAGGTG
196 TGGAACTGGTAGCGCTAAGGTTGATAGTGGAGTAAGAGGACAAGGAGGGCTTGGTGGAAAAGGTG
1910585 GTGGAAGTGGTAGCG
261 GTGGAAGTGGTAGCG
1910600 CTAATGTTGC
Statistics
Matches: 247, Mismatches: 28, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
288 247 1.00
ACGTcount: A:0.26, C:0.06, G:0.45, T:0.23
Consensus pattern (288 bp):
AAGTGGTAGCGCTAATGTTGCTGGTAGAGTAGGAGGGCAAGGAGGGTTTGGTGGAAAAGGAGGTG
GAAGTGGTAGCACTAATGTAGCTAGTAGAGTAGGAGGGCAAGGAGGGTTAGGTGGAAAAGGTGGT
AAAAGTGGCAGTGCTAATGTAGCTGGTGAAGTAGGAAGGAAAGGAGAGTTTGGTGGAAAAGGTGG
TGGAACTGGTAGCGCTAAGGTTGATAGTGGAGTAAGAGGACAAGGAGGGCTTGGTGGAAAAGGTG
GTGGAAGTGGTAGCGTAAGTGGTAGTGC
Found at i:1910590 original size:354 final size:355
Alignment explanation
Indices: 1909971--1910648 Score: 984
Period size: 354 Copynumber: 1.9 Consensus size: 355
1909961 AAGGTGGTGG
* * * * *
1909971 AAGTGGTAGTGCTACTGTTGTTGATGGAGCAGGAGGGCAATGGGGTTTTGGTGGAAAAGGTGGTG
1 AAGTGGTAGCGCTAATGTTGCTGATGGAGCAGGAGGGCAATGGGGGTTTGGTGGAAAAGGAGGTG
* * * *
1910036 GAAGTGGTAGTGCTAATGTTGCTGGTAGAGTAGGAGGGCAATGAGGGTTTGGTGGAAACGGTGGT
66 GAAGTGGTAGTGCTAATGTAGCTAGTAGAGTAGGAGGGCAAGGAGGGTTTGGTGGAAAAGGTGGT
** * * * *
1910101 GGAAGTGGTAGCACTAATGTTGCTGGTGGAGTAGGAGGGCAAGGAGGGTTAGGTGGAAAAGGTGG
131 AAAAGTGGCAGCACTAATGTAGCTGGTGAAGTAGGAAGGCAAGGAGGGTTAGGTGGAAAAGGTGG
* * * * * *
1910166 TGGAAGTGGTAGTGCTAATGTTGTTGGTGAATTAGGAGGGAAAGGAGAGTTTGGTGGAAAAGGTG
196 TGGAAGTGGTAGCGCTAATGTTGCTAGTGAAGTAAGAGGGAAAGGAGAGCTTGGTGGAAAAGGTG
* * * * *
1910231 GTGGAACTGGTAGCGCTAAGGTTGATGGTGGAGTAGGAGGGCAAGGAGGGTTTGGTGGA-AAAGG
261 GTGGAACTGGTAGCGCTAAGGTTGATGGTGGAATAGAAGGGAAAGGAGGATTTGGCGGAGAAAGG
1910295 TGGTGGAAGTGGTAGCGTAAGTGGTAGTGC
326 TGGTGGAAGTGGTAGCGTAAGTGGTAGTGC
* * *
1910325 AAGTGGTAGCGCTAATTTTGCTGGTGGAGTAGGAGGGCAA-GGAGGGTTTGGTGGAAAAGGAGGT
1 AAGTGGTAGCGCTAATGTTGCTGATGGAGCAGGAGGGCAATGG-GGGTTTGGTGGAAAAGGAGGT
1910389 GGAAGTGGTAGTGCTAATGTAGCTAGTAGAGTAGGAGGGCAAGGAGGGTTTGGTGGAAAAGGTGG
65 GGAAGTGGTAGTGCTAATGTAGCTAGTAGAGTAGGAGGGCAAGGAGGGTTTGGTGGAAAAGGTGG
** *
1910454 TAAAAGTGGCAGTGCTAATGTAGCTGGTGAAGTAGGAAGGCAAGGAGGGTTTGGTGGAAAAGGTG
130 TAAAAGTGGCAGCACTAATGTAGCTGGTGAAGTAGGAAGGCAAGGAGGGTTAGGTGGAAAAGGTG
* *
1910519 GTGGAAGTGGTAGCGCTAATGTTGCTAGTGGAGTAAGA-GGACAAGGAGGGCTTGGTGGAAAAGG
195 GTGGAAGTGGTAGCGCTAATGTTGCTAGTGAAGTAAGAGGGA-AAGGAGAGCTTGGTGGAAAAGG
* * *
1910583 TGGTGGAAGTGGTAGCGCTAATGTTGCTGGTGGAATAGAAGGGAAAGGAGGATTTGGCGGAGAAA
259 TGGTGGAACTGGTAGCGCTAAGGTTGATGGTGGAATAGAAGGGAAAGGAGGATTTGGCGGAGAAA
1910648 G
324 G
1910649 TAGCACTAGT
Statistics
Matches: 284, Mismatches: 37, Indels: 5
0.87 0.11 0.02
Matches are distributed among these distances:
353 5 0.02
354 275 0.97
355 4 0.01
ACGTcount: A:0.26, C:0.06, G:0.45, T:0.23
Consensus pattern (355 bp):
AAGTGGTAGCGCTAATGTTGCTGATGGAGCAGGAGGGCAATGGGGGTTTGGTGGAAAAGGAGGTG
GAAGTGGTAGTGCTAATGTAGCTAGTAGAGTAGGAGGGCAAGGAGGGTTTGGTGGAAAAGGTGGT
AAAAGTGGCAGCACTAATGTAGCTGGTGAAGTAGGAAGGCAAGGAGGGTTAGGTGGAAAAGGTGG
TGGAAGTGGTAGCGCTAATGTTGCTAGTGAAGTAAGAGGGAAAGGAGAGCTTGGTGGAAAAGGTG
GTGGAACTGGTAGCGCTAAGGTTGATGGTGGAATAGAAGGGAAAGGAGGATTTGGCGGAGAAAGG
TGGTGGAAGTGGTAGCGTAAGTGGTAGTGC
Found at i:1916780 original size:18 final size:18
Alignment explanation
Indices: 1916757--1916792 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
1916747 AGCTGCTACT
1916757 GGTGCTGCTGCTTTAAAA
1 GGTGCTGCTGCTTTAAAA
*
1916775 GGTGCTTCTGCTTTAAAA
1 GGTGCTGCTGCTTTAAAA
1916793 AGAGCCGTAC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.22, C:0.17, G:0.25, T:0.36
Consensus pattern (18 bp):
GGTGCTGCTGCTTTAAAA
Found at i:1916978 original size:90 final size:90
Alignment explanation
Indices: 1916825--1917100 Score: 417
Period size: 90 Copynumber: 3.1 Consensus size: 90
1916815 TAGTAGAAGG
* * * * *
1916825 TGGTGGTAAAGGTGTTGGAGTTGGAGGAAAAATAGGAGGACAAGTAGAGTTTGGTGGAAAAGGTA
1 TGGTGGTAAAAGTGTTGGATTTGGAGGTAATATAGGAGGACAAGGAGAGTTTGGTGGAAAAGGTA
* **
1916890 GTGGAATTGGTAGTGGTAATATTGC
66 GTGGAAGTGGTAGCAGTAATATTGC
*
1916915 TGGTGGTAAAAGTGTTGGATTTGGAGGTAATATAGGAGGACAAGGAGAATTTGGTGGAAAAGGTA
1 TGGTGGTAAAAGTGTTGGATTTGGAGGTAATATAGGAGGACAAGGAGAGTTTGGTGGAAAAGGTA
1916980 GTGGAAGTGGTAGCAGTAATATTGC
66 GTGGAAGTGGTAGCAGTAATATTGC
* * * * * *
1917005 TAGTGATAAAAGTATTGGATTTGGAGGTAATATAGAAGGACAAGGAGGGTTTGGTGGAAAAGGTG
1 TGGTGGTAAAAGTGTTGGATTTGGAGGTAATATAGGAGGACAAGGAGAGTTTGGTGGAAAAGGTA
1917070 GTGGAAGTGGTAGCAGTAATATTGC
66 GTGGAAGTGGTAGCAGTAATATTGC
1917095 TGGTGG
1 TGGTGG
1917101 AGTAGGAGGG
Statistics
Matches: 168, Mismatches: 18, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
90 168 1.00
ACGTcount: A:0.32, C:0.03, G:0.39, T:0.27
Consensus pattern (90 bp):
TGGTGGTAAAAGTGTTGGATTTGGAGGTAATATAGGAGGACAAGGAGAGTTTGGTGGAAAAGGTA
GTGGAAGTGGTAGCAGTAATATTGC
Found at i:1917165 original size:66 final size:66
Alignment explanation
Indices: 1917045--1918218 Score: 1395
Period size: 66 Copynumber: 17.6 Consensus size: 66
1917035 TATAGAAGGA
*
1917045 CAAGGAGGGTTTGGTGGAAAAGGTGGTGGAAGTGGTAGCAG-TAATATTGCTGGTGGAGTAGGAG
1 CAAGGAGGGTTTGGTGGAAAAGGTGGTGGAAGTGGTAGC-GCTAATGTTGCTGGTGGAGTAGGAG
1917109 GG
65 GG
** * *
1917111 CAAGGAGGGTTTGAAGGAAAAGGTGGTGGAAGTGGTAGTGCTAATGTTGTTGGTGGAGTAGGAGG
1 CAAGGAGGGTTTGGTGGAAAAGGTGGTGGAAGTGGTAGCGCTAATGTTGCTGGTGGAGTAGGAGG
*
1917176 A
66 G
* *
1917177 CAAGGAGGGTTTGTTGGAAAAGGTGATGGAAGTGGTAGCGCTAATGTTGCTGGTGGAGTAGGAGG
1 CAAGGAGGGTTTGGTGGAAAAGGTGGTGGAAGTGGTAGCGCTAATGTTGCTGGTGGAGTAGGAGG
1917242 G
66 G
*
1917243 CAAGGAGGGTTTGGTGGAAAAGGTGGTGGAAGTGGTAGCCCTAATGTTGCTGGTGGAGTAGGAGG
1 CAAGGAGGGTTTGGTGGAAAAGGTGGTGGAAGTGGTAGCGCTAATGTTGCTGGTGGAGTAGGAGG
1917308 G
66 G
* * * * *
1917309 CAAGGAGGGTTTGGTGGGAAAGGTGGTGGAAGTGGAAGTGGTAGTGCTAATGTTGATGGTCGATT
1 CAAGGAGGGTTTGGT-GGAAA--AGGT-G--GTGGAAGTGGTAGCGCTAATGTTGCTGGTGGAGT
* *
1917374 TGGATGG
60 AGGAGGG
* * *
1917381 AAAGGAGAGTTTGGTGGAAAACGTGGTGGAAGTGGTAGCGCTAATGTTGCTGGTGGAGTAGGAGG
1 CAAGGAGGGTTTGGTGGAAAAGGTGGTGGAAGTGGTAGCGCTAATGTTGCTGGTGGAGTAGGAGG
1917446 G
66 G
* *
1917447 CAAGGATGGTTTGGTGGAAAAGGTGGTGGAAGTGGTAGCCCTAATGTTGCTGGTGGAGTAGGAGG
1 CAAGGAGGGTTTGGTGGAAAAGGTGGTGGAAGTGGTAGCGCTAATGTTGCTGGTGGAGTAGGAGG
1917512 G
66 G
* * * *
1917513 CAAGGAGGGTTTGGTGGGAAAGGTGGTGGAAGTGGAAGTGGTAGTGCTAATGTTGATGGTGGATT
1 CAAGGAGGGTTTGGT-GGAAA--AGGT-G--GTGGAAGTGGTAGCGCTAATGTTGCTGGTGGA-G
1917578 TA-GAGGG
59 TAGGAGGG
* * * * * * * * *
1917585 AAAGGAGAGTTTGGTGGAAAAGGTGGTGGAACTAGTAGCACTAATTTTGCTGGTGGATTTGTAGG
1 CAAGGAGGGTTTGGTGGAAAAGGTGGTGGAAGTGGTAGCGCTAATGTTGCTGGTGGAGTAGGAGG
1917650 G
66 G
*** *
1917651 CAAGGAGGGTTTAAAGGAAAAGGTGGTGGAACTGGTAGCGCAAGTGATAGTGCTAATGTTGCTGG
1 CAAGGAGGGTTTGGTGGAAAAGGTGGTGGAA---GT-------G-G-TAGCGCTAATGTTGCTGG
*
1917716 TGGAGTAGAAGGG
54 TGGAGTAGGAGGG
* *
1917729 CAAGGAGGGTTTGGTGGAAAAGGTGGTGGAAGTGGTAGCGCTAATGTTGTTGGTGGAGTTGGAGG
1 CAAGGAGGGTTTGGTGGAAAAGGTGGTGGAAGTGGTAGCGCTAATGTTGCTGGTGGAGTAGGAGG
1917794 G
66 G
* *
1917795 CAAGGAGGGTTTGGTGGAAAAGGTGGTGCAAGTGGTAGCGCTAATTTTGCTGGTGGAGTAGGAGG
1 CAAGGAGGGTTTGGTGGAAAAGGTGGTGGAAGTGGTAGCGCTAATGTTGCTGGTGGAGTAGGAGG
1917860 G
66 G
* * * * **
1917861 CAAGGAGGGTTTGGTGGAAAAGGTGGTGGAAGTAGCAGTGCTAATGTTGCTGGTGGAATAAAAGG
1 CAAGGAGGGTTTGGTGGAAAAGGTGGTGGAAGTGGTAGCGCTAATGTTGCTGGTGGAGTAGGAGG
1917926 G
66 G
* * *** *
1917927 AAAGGAGGG--T--T--------TGGTGGAAGTGGTAGCACTAATGTTATAGGTGGAGTAAGAGG
1 CAAGGAGGGTTTGGTGGAAAAGGTGGTGGAAGTGGTAGCGCTAATGTTGCTGGTGGAGTAGGAGG
*
1917980 A
66 G
* * *
1917981 CAAGGTGGGTTTGATGGAAAAGGTGGTGGAAGTGGTAGCGCTAATGTTGCTGGTGGAGCAGGAGG
1 CAAGGAGGGTTTGGTGGAAAAGGTGGTGGAAGTGGTAGCGCTAATGTTGCTGGTGGAGTAGGAGG
1918046 G
66 G
* * * * *
1918047 GAAGGAGGGTTTAGTGGAAAAGGTGGTGGAAGTGGTACCGCTAATGTTGCTGGTGGAGCAAGAGG
1 CAAGGAGGGTTTGGTGGAAAAGGTGGTGGAAGTGGTAGCGCTAATGTTGCTGGTGGAGTAGGAGG
1918112 G
66 G
* * *
1918113 GAAGGAGGGTTTAGTGGAAAAGGTGGTGGAAGTGGTAGCGCTAATGTTGCTGGTGGAGCAGGAGG
1 CAAGGAGGGTTTGGTGGAAAAGGTGGTGGAAGTGGTAGCGCTAATGTTGCTGGTGGAGTAGGAGG
1918178 G
66 G
* *
1918179 GAAGGAGGGTTTAGTGGAAAAGGTGGTGGAAGTGGTAGCG
1 CAAGGAGGGTTTGGTGGAAAAGGTGGTGGAAGTGGTAGCG
1918219 GTAACTTGCA
Statistics
Matches: 954, Mismatches: 115, Indels: 78
0.83 0.10 0.07
Matches are distributed among these distances:
54 40 0.04
56 1 0.00
58 1 0.00
62 1 0.00
64 1 0.00
65 3 0.00
66 717 0.75
67 11 0.01
68 3 0.00
69 12 0.01
70 2 0.00
71 10 0.01
72 94 0.10
73 2 0.00
75 2 0.00
77 1 0.00
78 53 0.06
ACGTcount: A:0.25, C:0.06, G:0.45, T:0.24
Consensus pattern (66 bp):
CAAGGAGGGTTTGGTGGAAAAGGTGGTGGAAGTGGTAGCGCTAATGTTGCTGGTGGAGTAGGAGG
G
Found at i:1917465 original size:204 final size:198
Alignment explanation
Indices: 1917045--1918218 Score: 1419
Period size: 204 Copynumber: 5.9 Consensus size: 198
1917035 TATAGAAGGA
** *
1917045 CAAGGAGGGTTTGGTGGAAAAGGTGGTGGAAGTGGTAGCAGTAATATTGCTGGTGGAGTAGGAGG
1 CAAGGAGGGTTTGGTGGAAAAGGTGGTGGAAGTGGTAGCCCTAATGTTGCTGGTGGAGTAGGAGG
** *
1917110 GCAAGGAGGGTTTGAAGGAAAAGGTGGTGGAAGTGGTAGTGCTAATGTTGTTGGTGGAGTAGGA-
66 GCAAGGAGGGTTTGGTGGAAAAGGTGGTGGAAGTGGTAGTGCTAATGTTGATGGTGGAGTAGGAG
* *
1917174 GGACAAGGAGGGTTTGTTGGAAAAGGTGATGGAAGTGGTAGCGCTAATGTTGCTGGTGGAGTAGG
131 GGA-AAGGAGGGTTTGGTGGAAAAGGTGGTGGAAGTGGTAGCGCTAATGTTGCTGGTGGAGTAGG
1917239 AGGG
195 AGGG
1917243 CAAGGAGGGTTTGGTGGAAAAGGTGGTGGAAGTGGTAGCCCTAATGTTGCTGGTGGAGTAGGAGG
1 CAAGGAGGGTTTGGTGGAAAAGGTGGTGGAAGTGGTAGCCCTAATGTTGCTGGTGGAGTAGGAGG
* * *
1917308 GCAAGGAGGGTTTGGTGGGAAAGGTGGTGGAAGTGGAAGTGGTAGTGCTAATGTTGATGGTCGAT
66 GCAAGGAGGGTTTGGT-GGAAA--AGGT-G--GTGGAAGTGGTAGTGCTAATGTTGATGGTGGAG
* * * *
1917373 TTGGATGGAAAGGAGAGTTTGGTGGAAAACGTGGTGGAAGTGGTAGCGCTAATGTTGCTGGTGGA
125 TAGGAGGGAAAGGAGGGTTTGGTGGAAAAGGTGGTGGAAGTGGTAGCGCTAATGTTGCTGGTGGA
1917438 GTAGGAGGG
190 GTAGGAGGG
*
1917447 CAAGGATGGTTTGGTGGAAAAGGTGGTGGAAGTGGTAGCCCTAATGTTGCTGGTGGAGTAGGAGG
1 CAAGGAGGGTTTGGTGGAAAAGGTGGTGGAAGTGGTAGCCCTAATGTTGCTGGTGGAGTAGGAGG
*
1917512 GCAAGGAGGGTTTGGTGGGAAAGGTGGTGGAAGTGGAAGTGGTAGTGCTAATGTTGATGGTGGAT
66 GCAAGGAGGGTTTGGT-GGAAA--AGGT-G--GTGGAAGTGGTAGTGCTAATGTTGATGGTGGA-
* * * * * *
1917577 TTA-GAGGGAAAGGAGAGTTTGGTGGAAAAGGTGGTGGAACTAGTAGCACTAATTTTGCTGGTGG
124 GTAGGAGGGAAAGGAGGGTTTGGTGGAAAAGGTGGTGGAAGTGGTAGCGCTAATGTTGCTGGTGG
* * *
1917641 ATTTGTAGGG
189 AGTAGGAGGG
*** *
1917651 CAAGGAGGGTTTAAAGGAAAAGGTGGTGGAACTGGTAGCGCAAGTGATAGTGCTAATGTTGCTGG
1 CAAGGAGGGTTTGGTGGAAAAGGTGGTGGAAGTGGTAGC-C-----------CTAATGTTGCTGG
* * *
1917716 TGGAGTAGAAGGGCAAGGAGGGTTTGGTGGAAAAGGTGGTGGAAGTGGTAGCGCTAATGTTGTTG
54 TGGAGTAGGAGGGCAAGGAGGGTTTGGTGGAAAAGGTGGTGGAAGTGGTAGTGCTAATGTTGATG
* * * *
1917781 GTGGAGTTGGAGGGCAAGGAGGGTTTGGTGGAAAAGGTGGTGCAAGTGGTAGCGCTAATTTTGCT
119 GTGGAGTAGGAGGGAAAGGAGGGTTTGGTGGAAAAGGTGGTGGAAGTGGTAGCGCTAATGTTGCT
1917846 GGTGGAGTAGGAGGG
184 GGTGGAGTAGGAGGG
* * ** * **
1917861 CAAGGAGGGTTTGGTGGAAAAGGTGGTGGAAGTAGCAGTGCTAATGTTGCTGGTGGAATAAAAGG
1 CAAGGAGGGTTTGGTGGAAAAGGTGGTGGAAGTGGTAGCCCTAATGTTGCTGGTGGAGTAGGAGG
* * *
1917926 GAAAGGAGGGTTTGGTGG--AA-GTGGT---A---GCA---CTAATGTT-ATAGGTGGAGTAAGA
66 GCAAGGAGGGTTTGGTGGAAAAGGTGGTGGAAGTGGTAGTGCTAATGTTGAT-GGTGGAGTAGGA
* * *
1917978 -GGACAAGGTGGGTTTGATGGAAAAGGTGGTGGAAGTGGTAGCGCTAATGTTGCTGGTGGAGCAG
130 GGGA-AAGGAGGGTTTGGTGGAAAAGGTGGTGGAAGTGGTAGCGCTAATGTTGCTGGTGGAGTAG
1918042 GAGGG
194 GAGGG
* * * *
1918047 GAAGGAGGGTTTAGTGGAAAAGGTGGTGGAAGTGGTA-CCGCTAATGTTGCTGGTGGAGCAAGAG
1 CAAGGAGGGTTTGGTGGAAAAGGTGGTGGAAGTGGTAGCC-CTAATGTTGCTGGTGGAGTAGGAG
* * * * *
1918111 GGGAAGGAGGGTTTAGTGGAAAAGGTGGTGGAAGTGGTAGCGCTAATGTTGCTGGTGGAGCAGGA
65 GGCAAGGAGGGTTTGGTGGAAAAGGTGGTGGAAGTGGTAGTGCTAATGTTGATGGTGGAGTAGGA
* *
1918176 GGGGAAGGAGGGTTTAGTGGAAAAGGTGGTGGAAGTGGTAGCG
130 GGGAAAGGAGGGTTTGGTGGAAAAGGTGGTGGAAGTGGTAGCG
1918219 GTAACTTGCA
Statistics
Matches: 852, Mismatches: 86, Indels: 76
0.84 0.08 0.07
Matches are distributed among these distances:
185 3 0.00
186 149 0.17
188 2 0.00
189 7 0.01
192 2 0.00
195 7 0.01
196 2 0.00
198 170 0.20
199 8 0.01
201 3 0.00
202 1 0.00
204 318 0.37
205 6 0.01
209 1 0.00
210 124 0.15
212 1 0.00
213 3 0.00
215 5 0.01
216 40 0.05
ACGTcount: A:0.25, C:0.06, G:0.45, T:0.24
Consensus pattern (198 bp):
CAAGGAGGGTTTGGTGGAAAAGGTGGTGGAAGTGGTAGCCCTAATGTTGCTGGTGGAGTAGGAGG
GCAAGGAGGGTTTGGTGGAAAAGGTGGTGGAAGTGGTAGTGCTAATGTTGATGGTGGAGTAGGAG
GGAAAGGAGGGTTTGGTGGAAAAGGTGGTGGAAGTGGTAGCGCTAATGTTGCTGGTGGAGTAGGA
GGG
Found at i:1917707 original size:78 final size:78
Alignment explanation
Indices: 1917625--1917769 Score: 218
Period size: 78 Copynumber: 1.9 Consensus size: 78
1917615 ACTAGTAGCA
* * * *
1917625 CTAATTTTGCTGGTGGATTTGTAGGGCAAGGAGGGTTTAAAGGAAAAGGTGGTGGAACTGGTAGC
1 CTAATGTTGCTGGTGGAGTAGAAGGGCAAGGAGGGTTTAAAGGAAAAGGTGGTGGAACTGGTAGC
1917690 GCAAGTGATAGTG
66 GCAAGTGATAGTG
*** *
1917703 CTAATGTTGCTGGTGGAGTAGAAGGGCAAGGAGGGTTTGGTGGAAAAGGTGGTGGAAGTGGTAGC
1 CTAATGTTGCTGGTGGAGTAGAAGGGCAAGGAGGGTTTAAAGGAAAAGGTGGTGGAACTGGTAGC
1917768 GC
66 GC
1917770 TAATGTTGTT
Statistics
Matches: 59, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
78 59 1.00
ACGTcount: A:0.26, C:0.08, G:0.42, T:0.25
Consensus pattern (78 bp):
CTAATGTTGCTGGTGGAGTAGAAGGGCAAGGAGGGTTTAAAGGAAAAGGTGGTGGAACTGGTAGC
GCAAGTGATAGTG
Found at i:1917754 original size:144 final size:143
Alignment explanation
Indices: 1917410--1917945 Score: 640
Period size: 144 Copynumber: 3.9 Consensus size: 143
1917400 AACGTGGTGG
* * *
1917410 AAGTGGTAGCGCTAATGTTGCTGGTGGAGTAGGAGGGCAAGGATGGTTTGGTGGAAAAGGTGGTG
1 AAGTGATAGTGCTAATGTTGCTGGTGGAGTAGGAGGGCAAGGAGGGTTTGGTGGAAAAGGTGGTG
* * * *
1917475 GAAGTGGTAGCCCTAATGTTGCTGGTGGAGTAGGAGGGCAAGGAGGGTTTGGTGGGAAAGGTGGT
66 GAAGTAGTAGCGCTAATGTTGCTGGTGGAGTTGGAGGGCAAGGAGGGTTTGGTGGAAAAGGTGGT
1917540 GGAA--GT-G-G-
131 GGAATGGTAGCGC
* * * * *
1917548 AAGTGGTAGTGCTAATGTTGATGGTGGATTTA-GAGGGAAAGGAGAGTTTGGTGGAAAAGGTGGT
1 AAGTGATAGTGCTAATGTTGCTGGTGGA-GTAGGAGGGCAAGGAGGGTTTGGTGGAAAAGGTGGT
* * * * * ***
1917612 GGAACTAGTAGCACTAATTTTGCTGGTGGATTTGTAGGGCAAGGAGGGTTTAAAGGAAAAGGTGG
65 GGAAGTAGTAGCGCTAATGTTGCTGGTGGAGTTGGAGGGCAAGGAGGGTTTGGTGGAAAAGGTGG
1917677 TGGAACTGGTAGCGC
130 TGGAA-TGGTAGCGC
*
1917692 AAGTGATAGTGCTAATGTTGCTGGTGGAGTAGAAGGGCAAGGAGGGTTTGGTGGAAAAGGTGGTG
1 AAGTGATAGTGCTAATGTTGCTGGTGGAGTAGGAGGGCAAGGAGGGTTTGGTGGAAAAGGTGGTG
* *
1917757 GAAGTGGTAGCGCTAATGTTGTTGGTGGAGTTGGAGGGCAAGGAGGGTTTGGTGGAAAAGGTGGT
66 GAAGTAGTAGCGCTAATGTTGCTGGTGGAGTTGGAGGGCAAGGAGGGTTTGGTGGAAAAGGTGGT
*
1917822 GCAAGTGGTAGCGC
131 GGAA-TGGTAGCGC
1917836 ---T-A-A----T--T-TTGCTGGTGGAGTAGGAGGGCAAGGAGGGTTTGGTGGAAAAGGTGGTG
1 AAGTGATAGTGCTAATGTTGCTGGTGGAGTAGGAGGGCAAGGAGGGTTTGGTGGAAAAGGTGGTG
* * * *** *
1917889 GAAGTAGCAGTGCTAATGTTGCTGGTGGAATAAAAGGGAAAGGAGGGTTTGGTGGAA
66 GAAGTAGTAGCGCTAATGTTGCTGGTGGAGTTGGAGGGCAAGGAGGGTTTGGTGGAA
1917946 GTGGTAGCAC
Statistics
Matches: 345, Mismatches: 45, Indels: 22
0.84 0.11 0.05
Matches are distributed among these distances:
132 95 0.28
133 1 0.00
135 1 0.00
138 114 0.33
139 3 0.01
140 1 0.00
141 3 0.01
142 1 0.00
143 3 0.01
144 123 0.36
ACGTcount: A:0.25, C:0.06, G:0.44, T:0.25
Consensus pattern (143 bp):
AAGTGATAGTGCTAATGTTGCTGGTGGAGTAGGAGGGCAAGGAGGGTTTGGTGGAAAAGGTGGTG
GAAGTAGTAGCGCTAATGTTGCTGGTGGAGTTGGAGGGCAAGGAGGGTTTGGTGGAAAAGGTGGT
GGAATGGTAGCGC
Found at i:1918066 original size:186 final size:186
Alignment explanation
Indices: 1917752--1918131 Score: 562
Period size: 186 Copynumber: 2.0 Consensus size: 186
1917742 GTGGAAAAGG
* * * ** * *
1917752 TGGTGGAAGTGGTAGCGCTAATGTTGTTGGTGGAGTTGGAGGGCAAGGAGGGTTTGGTGGAAAAG
1 TGGTGGAAGTGGTAGCACTAATGTTATAGGTGGAGTAAGAGGACAAGGAGGGTTTGATGGAAAAG
* * *
1917817 GTGGTGCAAGTGGTAGCGCTAATTTTGCTGGTGGAGTAGGAGGGCAAGGAGGGTTTGGTGGAAAA
66 GTGGTGCAAGTGGTAGCGCTAATGTTGCTGGTGGAGCAGGAGGGCAAGGAGGGTTTAGTGGAAAA
** *
1917882 GGTGGTGGAAGTAGCAGTGCTAATGTTGCTGGTGGAATAAAAGGGAAAGGAGGGTT
131 GGTGGTGGAAGTAGCACCGCTAATGTTGCTGGTGGAACAAAAGGGAAAGGAGGGTT
*
1917938 TGGTGGAAGTGGTAGCACTAATGTTATAGGTGGAGTAAGAGGACAAGGTGGGTTTGATGGAAAAG
1 TGGTGGAAGTGGTAGCACTAATGTTATAGGTGGAGTAAGAGGACAAGGAGGGTTTGATGGAAAAG
* *
1918003 GTGGTGGAAGTGGTAGCGCTAATGTTGCTGGTGGAGCAGGAGGGGAAGGAGGGTTTAGTGGAAAA
66 GTGGTGCAAGTGGTAGCGCTAATGTTGCTGGTGGAGCAGGAGGGCAAGGAGGGTTTAGTGGAAAA
* * * * *
1918068 GGTGGTGGAAGTGGTACCGCTAATGTTGCTGGTGGAGCAAGAGGGGAAGGAGGGTT
131 GGTGGTGGAAGTAGCACCGCTAATGTTGCTGGTGGAACAAAAGGGAAAGGAGGGTT
*
1918124 TAGTGGAA
1 TGGTGGAA
1918132 AAGGTGGTGG
Statistics
Matches: 172, Mismatches: 22, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
186 172 1.00
ACGTcount: A:0.25, C:0.06, G:0.45, T:0.24
Consensus pattern (186 bp):
TGGTGGAAGTGGTAGCACTAATGTTATAGGTGGAGTAAGAGGACAAGGAGGGTTTGATGGAAAAG
GTGGTGCAAGTGGTAGCGCTAATGTTGCTGGTGGAGCAGGAGGGCAAGGAGGGTTTAGTGGAAAA
GGTGGTGGAAGTAGCACCGCTAATGTTGCTGGTGGAACAAAAGGGAAAGGAGGGTT
Found at i:1918158 original size:252 final size:252
Alignment explanation
Indices: 1917714--1918197 Score: 736
Period size: 252 Copynumber: 1.9 Consensus size: 252
1917704 TAATGTTGCT
* * *
1917714 GGTGGAGTAGAAGGGCAAGGAGGGTTTGGTGGAAAAGGTGGTGGAAGTGGTAGCGCTAATGTTGT
1 GGTGGAGTAGAAGGACAAGGAGGGTTTGATGGAAAAGGTGGTGGAAGTGGTAGCGCTAATGTTGC
** * * *
1917779 TGGTGGAGTTGGAGGGCAAGGAGGGTTTGGTGGAAAAGGTGGTGCAAGTGGTAGCGCTAATTTTG
66 TGGTGGAGCAGGAGGGCAAGGAGGGTTTAGTGGAAAAGGTGGTGCAAGTGGTACCGCTAATGTTG
* * * *
1917844 CTGGTGGAGTAGGAGGGCAAGGAGGGTTTGGTGGAAAAGGTGGTGGAAGTAGCAGTGCTAATGTT
131 CTGGTGGAGCAAGAGGGCAAGGAGGGTTTAGTGGAAAAGGTGGTGGAAGTAGCAGCGCTAATGTT
* *
1917909 GCTGGTGGAATAAAAGGGAAAGGAGGGTTTGGTGGAAGTGGTAGCACTAATGTTATA
196 GCTGGTGGAACAAAAGGGAAAGGAGGGTTTAGTGGAAGTGGTAGCACTAATGTTATA
*
1917966 GGTGGAGTA-AGAGGACAAGGTGGGTTTGATGGAAAAGGTGGTGGAAGTGGTAGCGCTAATGTTG
1 GGTGGAGTAGA-AGGACAAGGAGGGTTTGATGGAAAAGGTGGTGGAAGTGGTAGCGCTAATGTTG
* *
1918030 CTGGTGGAGCAGGAGGGGAAGGAGGGTTTAGTGGAAAAGGTGGTGGAAGTGGTACCGCTAATGTT
65 CTGGTGGAGCAGGAGGGCAAGGAGGGTTTAGTGGAAAAGGTGGTGCAAGTGGTACCGCTAATGTT
* * *
1918095 GCTGGTGGAGCAAGAGGGGAAGGAGGGTTTAGTGGAAAAGGTGGTGGAAGTGGTAGCGCTAATGT
130 GCTGGTGGAGCAAGAGGGCAAGGAGGGTTTAGTGGAAAAGGTGGTGGAAGTAGCAGCGCTAATGT
* ** *
1918160 TGCTGGTGGAGCAGGAGGGGAAGGAGGGTTTAGTGGAA
195 TGCTGGTGGAACAAAAGGGAAAGGAGGGTTTAGTGGAA
1918198 AAGGTGGTGG
Statistics
Matches: 207, Mismatches: 24, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
251 1 0.00
252 206 1.00
ACGTcount: A:0.25, C:0.06, G:0.46, T:0.23
Consensus pattern (252 bp):
GGTGGAGTAGAAGGACAAGGAGGGTTTGATGGAAAAGGTGGTGGAAGTGGTAGCGCTAATGTTGC
TGGTGGAGCAGGAGGGCAAGGAGGGTTTAGTGGAAAAGGTGGTGCAAGTGGTACCGCTAATGTTG
CTGGTGGAGCAAGAGGGCAAGGAGGGTTTAGTGGAAAAGGTGGTGGAAGTAGCAGCGCTAATGTT
GCTGGTGGAACAAAAGGGAAAGGAGGGTTTAGTGGAAGTGGTAGCACTAATGTTATA
Found at i:1920073 original size:56 final size:56
Alignment explanation
Indices: 1919987--1920213 Score: 436
Period size: 56 Copynumber: 4.1 Consensus size: 56
1919977 ATTTTCAGAG
1919987 TTAGTGTATAGATGAATTGGAATTTGAATTAGTAATTTAATTGTAATTGTGATTAA
1 TTAGTGTATAGATGAATTGGAATTTGAATTAGTAATTTAATTGTAATTGTGATTAA
1920043 TTAGTGTATAGATGAATTGGAATTTGAATTAGTAATTTAATTGTAATTGTGATTAA
1 TTAGTGTATAGATGAATTGGAATTTGAATTAGTAATTTAATTGTAATTGTGATTAA
1920099 TTAGTGTATAGATGAATTGGAATTTGAATTAGTAATTTAATTGTAATTGTGATTAA
1 TTAGTGTATAGATGAATTGGAATTTGAATTAGTAATTTAATTGTAATTGTGATTAA
* *
1920155 TTAGTGTATAGATGAATTGGAATTTGAATTAGTAATTTAATTGCAATTGTGATGAA
1 TTAGTGTATAGATGAATTGGAATTTGAATTAGTAATTTAATTGTAATTGTGATTAA
1920211 TTA
1 TTA
1920214 AGACCTAAGG
Statistics
Matches: 169, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
56 169 1.00
ACGTcount: A:0.36, C:0.00, G:0.20, T:0.44
Consensus pattern (56 bp):
TTAGTGTATAGATGAATTGGAATTTGAATTAGTAATTTAATTGTAATTGTGATTAA
Found at i:1920425 original size:14 final size:14
Alignment explanation
Indices: 1920392--1920437 Score: 51
Period size: 14 Copynumber: 3.3 Consensus size: 14
1920382 GGGTTATGGA
1920392 TTAATTAATTAAAG-
1 TTAATTAATT-AAGT
*
1920406 TAAATTAATTAAGT
1 TTAATTAATTAAGT
1920420 TTAATTAAATTAA-T
1 TTAATT-AATTAAGT
1920434 TTAA
1 TTAA
1920438 GTATAAACGA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
13 3 0.11
14 19 0.68
15 6 0.21
ACGTcount: A:0.50, C:0.00, G:0.04, T:0.46
Consensus pattern (14 bp):
TTAATTAATTAAGT
Found at i:1925501 original size:9 final size:9
Alignment explanation
Indices: 1925487--1925526 Score: 55
Period size: 9 Copynumber: 4.4 Consensus size: 9
1925477 TTTGGTTAAA
1925487 AATTAACCG
1 AATTAACCG
1925496 AATTAACCG
1 AATTAACCG
*
1925505 AATT-ACCTA
1 AATTAACC-G
1925514 AATTAACCG
1 AATTAACCG
1925523 AATT
1 AATT
1925527 GAATCCCTAC
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
8 3 0.11
9 21 0.78
10 3 0.11
ACGTcount: A:0.45, C:0.20, G:0.07, T:0.28
Consensus pattern (9 bp):
AATTAACCG
Found at i:1927359 original size:25 final size:25
Alignment explanation
Indices: 1927315--1927365 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 25
1927305 AAGGAAGTCC
* *
1927315 AATTCTGGCAGTTTATCTGCACTAT
1 AATTCTGGCAGTATACCTGCACTAT
*
1927340 AATTCTGGCGGTATACCTGCACTAT
1 AATTCTGGCAGTATACCTGCACTAT
1927365 A
1 A
1927366 TATTTTGCCA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.25, C:0.22, G:0.18, T:0.35
Consensus pattern (25 bp):
AATTCTGGCAGTATACCTGCACTAT
Found at i:1929610 original size:16 final size:15
Alignment explanation
Indices: 1929577--1929605 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
1929567 ATTTTATGTG
1929577 TTTATTATGTGTGAA
1 TTTATTATGTGTGAA
1929592 TTTATT-TGTGTGAA
1 TTTATTATGTGTGAA
1929606 AATTTCGTGT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 8 0.57
15 6 0.43
ACGTcount: A:0.24, C:0.00, G:0.21, T:0.55
Consensus pattern (15 bp):
TTTATTATGTGTGAA
Found at i:1931353 original size:41 final size:39
Alignment explanation
Indices: 1931303--1931433 Score: 109
Period size: 41 Copynumber: 3.4 Consensus size: 39
1931293 GACTTTAAGT
*
1931303 CTAGTAGGCTAAGTGCCGGTGATCTGAGTCAGGTTATCAAC
1 CTAG-AGGCTAAGTGCCGGTGATCTGAATCAGGTTAT-AAC
*
1931344 CT--A-GC--AG-G-C--TGATCTGAACCAGGTTATAAAC
1 CTAGAGGCTAAGTGCCGGTGATCTGAATCAGGTTAT-AAC
* *
1931375 CTAGGAGGCTAAGTGCCGGTGATTTGAATCAGGCTATAAGC
1 CTA-GAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAA-C
1931416 CTAGCAGGCTAAGTGCCG
1 CTAG-AGGCTAAGTGCCG
1931434 ATGAATATGT
Statistics
Matches: 72, Mismatches: 6, Indels: 24
0.71 0.06 0.24
Matches are distributed among these distances:
31 21 0.29
33 1 0.01
34 2 0.03
35 4 0.06
37 4 0.06
38 2 0.03
39 1 0.01
40 3 0.04
41 34 0.47
ACGTcount: A:0.27, C:0.21, G:0.29, T:0.24
Consensus pattern (39 bp):
CTAGAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAC
Found at i:1931357 original size:31 final size:31
Alignment explanation
Indices: 1931322--1931384 Score: 90
Period size: 31 Copynumber: 2.0 Consensus size: 31
1931312 TAAGTGCCGG
** *
1931322 TGATCTGAGTCAGGTTATCAACCTAGCAGGC
1 TGATCTGAACCAGGTTATAAACCTAGCAGGC
*
1931353 TGATCTGAACCAGGTTATAAACCTAGGAGGC
1 TGATCTGAACCAGGTTATAAACCTAGCAGGC
1931384 T
1 T
1931385 AAGTGCCGGT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.29, C:0.21, G:0.25, T:0.25
Consensus pattern (31 bp):
TGATCTGAACCAGGTTATAAACCTAGCAGGC
Found at i:1934958 original size:16 final size:16
Alignment explanation
Indices: 1934939--1935012 Score: 53
Period size: 16 Copynumber: 4.4 Consensus size: 16
1934929 AATTTATTAA
1934939 AAATAAAAATACTTAT
1 AAATAAAAATACTTAT
*
1934955 AAATAAAGAAATA-TAAAAT
1 AAAT-AA-AAATACT--TAT
* * *
1934974 ATTATAAAAAT-TTTAA
1 A-AATAAAAATACTTAT
1934990 AAATAAAAATACTTAT
1 AAATAAAAATACTTAT
1935006 AAATAAA
1 AAATAAA
1935013 GACATATTAA
Statistics
Matches: 44, Mismatches: 7, Indels: 14
0.68 0.11 0.22
Matches are distributed among these distances:
15 8 0.18
16 16 0.36
17 3 0.07
18 10 0.23
19 5 0.11
20 2 0.05
ACGTcount: A:0.66, C:0.03, G:0.01, T:0.30
Consensus pattern (16 bp):
AAATAAAAATACTTAT
Found at i:1934966 original size:24 final size:24
Alignment explanation
Indices: 1934939--1935032 Score: 86
Period size: 24 Copynumber: 3.8 Consensus size: 24
1934929 AATTTATTAA
1934939 AAATA-AAAATACTTATAAATAAAG
1 AAATATAAAATA-TTATAAATAAAG
*
1934963 AAATATAAAATATTATAAA-AATTTTAA
1 AAATATAAAATATTATAAATAA----AG
1934990 AAATA-AAAATACTTATAAATAAAG
1 AAATATAAAATA-TTATAAATAAAG
* *
1935014 ACATATTAAATATTATAAA
1 AAATATAAAATATTATAAA
1935033 AACTGAATAT
Statistics
Matches: 58, Mismatches: 4, Indels: 16
0.74 0.05 0.21
Matches are distributed among these distances:
23 2 0.03
24 24 0.41
25 11 0.19
26 6 0.10
27 13 0.22
28 2 0.03
ACGTcount: A:0.64, C:0.03, G:0.02, T:0.31
Consensus pattern (24 bp):
AAATATAAAATATTATAAATAAAG
Found at i:1934992 original size:51 final size:52
Alignment explanation
Indices: 1934926--1935034 Score: 184
Period size: 51 Copynumber: 2.1 Consensus size: 52
1934916 TATCCAATTT
*
1934926 TAAAATTTATTAAAAATAAAAATACTTATAAATAAAGAAATATAAAATATTA
1 TAAAAATTATTAAAAATAAAAATACTTATAAATAAAGAAATATAAAATATTA
* *
1934978 TAAAAATT-TTAAAAATAAAAATACTTATAAATAAAGACATATTAAATATTA
1 TAAAAATTATTAAAAATAAAAATACTTATAAATAAAGAAATATAAAATATTA
1935029 TAAAAA
1 TAAAAA
1935035 CTGAATATTT
Statistics
Matches: 54, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
51 47 0.87
52 7 0.13
ACGTcount: A:0.63, C:0.03, G:0.02, T:0.32
Consensus pattern (52 bp):
TAAAAATTATTAAAAATAAAAATACTTATAAATAAAGAAATATAAAATATTA
Found at i:1936486 original size:22 final size:20
Alignment explanation
Indices: 1936437--1936488 Score: 59
Period size: 20 Copynumber: 2.5 Consensus size: 20
1936427 TTTCATTTTG
1936437 TGGTTTGTAAACTATGAATT
1 TGGTTTGTAAACTATGAATT
* * *
1936457 CGGTTTGTAAACTTTCGATTT
1 TGGTTTGTAAACTAT-GAATT
1936478 ATGGTTTGTAA
1 -TGGTTTGTAA
1936489 TCTGATTCAT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
20 13 0.50
21 4 0.15
22 9 0.35
ACGTcount: A:0.25, C:0.08, G:0.21, T:0.46
Consensus pattern (20 bp):
TGGTTTGTAAACTATGAATT
Found at i:1936727 original size:21 final size:22
Alignment explanation
Indices: 1936690--1936732 Score: 70
Period size: 21 Copynumber: 2.0 Consensus size: 22
1936680 TGGTTTGCTA
1936690 CATTCGTGCAAAAAAACGCAAT
1 CATTCGTGCAAAAAAACGCAAT
*
1936712 CATTCGTGC-CAAAAACGCAAT
1 CATTCGTGCAAAAAAACGCAAT
1936733 AAATTTTGGA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
21 11 0.55
22 9 0.45
ACGTcount: A:0.42, C:0.26, G:0.14, T:0.19
Consensus pattern (22 bp):
CATTCGTGCAAAAAAACGCAAT
Found at i:1937117 original size:12 final size:12
Alignment explanation
Indices: 1937100--1937285 Score: 69
Period size: 12 Copynumber: 17.2 Consensus size: 12
1937090 TTATAAACTC
1937100 ATAACTTACATA
1 ATAACTTACATA
*
1937112 ATAACTTATAT-
1 ATAACTTACATA
*
1937123 ATAAGCTTGC---
1 ATAA-CTTACATA
1937133 ATAACTTACATA
1 ATAACTTACATA
1937145 ATAACTTAC---
1 ATAACTTACATA
*
1937154 ATAACTTATAT-
1 ATAACTTACATA
**
1937165 ATAA-GAACATA
1 ATAACTTACATA
*
1937176 ATAAATTACATA
1 ATAACTTACATA
*
1937188 AT-ACATA-ATA
1 ATAACTTACATA
1937198 AT-A--TA-ATA
1 ATAACTTACATA
*
1937206 CATAACTTATAT-
1 -ATAACTTACATA
*
1937218 ATAAGCTTGC---
1 ATAA-CTTACATA
1937228 ATAACTTACATA
1 ATAACTTACATA
1937240 ATAACTTAC---
1 ATAACTTACATA
*
1937249 ATAACTTATAT-
1 ATAACTTACATA
*
1937260 ATAA-TAACATA
1 ATAACTTACATA
*
1937271 ATAAATTACATA
1 ATAACTTACATA
1937283 ATA
1 ATA
1937286 CATAATAACA
Statistics
Matches: 134, Mismatches: 19, Indels: 42
0.69 0.10 0.22
Matches are distributed among these distances:
8 5 0.04
9 26 0.19
10 22 0.16
11 27 0.20
12 52 0.39
13 2 0.01
ACGTcount: A:0.50, C:0.13, G:0.03, T:0.34
Consensus pattern (12 bp):
ATAACTTACATA
Found at i:1937136 original size:21 final size:21
Alignment explanation
Indices: 1937112--1937169 Score: 82
Period size: 21 Copynumber: 2.8 Consensus size: 21
1937102 AACTTACATA
*
1937112 ATAACTTATATATAAGCTTGC
1 ATAACTTATATATAAGCTTAC
*
1937133 ATAACTTACATAATAA-CTTAC
1 ATAACTTATAT-ATAAGCTTAC
1937154 ATAACTTATATATAAG
1 ATAACTTATATATAAG
1937170 AACATAATAA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
20 4 0.12
21 24 0.75
22 4 0.12
ACGTcount: A:0.45, C:0.14, G:0.05, T:0.36
Consensus pattern (21 bp):
ATAACTTATATATAAGCTTAC
Found at i:1937223 original size:95 final size:95
Alignment explanation
Indices: 1937112--1937351 Score: 444
Period size: 95 Copynumber: 2.5 Consensus size: 95
1937102 AACTTACATA
1937112 ATAACTTATATATAAGCTTGCATAACTTACATAATAACTTACATAACTTATATATAAGAACATAA
1 ATAACTTATATATAAGCTTGCATAACTTACATAATAACTTACATAACTTATATATAAGAACATAA
*
1937177 TAAATTACATAATACATAATAATATAATAC
66 TAAATTACATAATACATAATAACATAATAC
*
1937207 ATAACTTATATATAAGCTTGCATAACTTACATAATAACTTACATAACTTATATATAATAACATAA
1 ATAACTTATATATAAGCTTGCATAACTTACATAATAACTTACATAACTTATATATAAGAACATAA
*
1937272 TAAATTACATAATACATAATAACATACTAC
66 TAAATTACATAATACATAATAACATAATAC
*
1937302 ATAACTTATATATAAGATTGCATAACTTACATAATAACTTACATAACTTA
1 ATAACTTATATATAAGCTTGCATAACTTACATAATAACTTACATAACTTA
1937352 CATAACTTAC
Statistics
Matches: 141, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
95 141 1.00
ACGTcount: A:0.49, C:0.14, G:0.03, T:0.34
Consensus pattern (95 bp):
ATAACTTATATATAAGCTTGCATAACTTACATAATAACTTACATAACTTATATATAAGAACATAA
TAAATTACATAATACATAATAACATAATAC
Found at i:1937232 original size:21 final size:20
Alignment explanation
Indices: 1937204--1937365 Score: 103
Period size: 21 Copynumber: 8.3 Consensus size: 20
1937194 AATAATATAA
1937204 TACATAACTTATATATAAGCT
1 TACATAACTTATATATAA-CT
* *
1937225 TGCATAACTTACATAATAACT
1 TACATAACTTATAT-ATAACT
1937246 TACATAACTTATATATAA-T
1 TACATAACTTATATATAACT
* * *
1937265 AACATAA-TAAATTACATAA--
1 TACATAACT-TA-TATATAACT
*
1937284 TACATAA--TA-ACAT-AC-
1 TACATAACTTATATATAACT
*
1937299 TACATAACTTATATATAAGAT
1 TACATAACTTATATATAA-CT
* *
1937320 TGCATAACTTACATAATAACT
1 TACATAACTTATAT-ATAACT
*
1937341 TACATAAC-T-TACATAACT
1 TACATAACTTATATATAACT
1937359 TACATAA
1 TACATAA
1937366 TACACCACTT
Statistics
Matches: 113, Mismatches: 17, Indels: 25
0.73 0.11 0.16
Matches are distributed among these distances:
14 1 0.01
15 11 0.10
17 3 0.03
18 17 0.15
19 16 0.14
20 11 0.10
21 46 0.41
22 8 0.07
ACGTcount: A:0.48, C:0.15, G:0.02, T:0.34
Consensus pattern (20 bp):
TACATAACTTATATATAACT
Found at i:1937252 original size:9 final size:9
Alignment explanation
Indices: 1937240--1937733 Score: 224
Period size: 9 Copynumber: 58.0 Consensus size: 9
1937230 AACTTACATA
1937240 ATAACTTAC
1 ATAACTTAC
*
1937249 ATAACTTAT
1 ATAACTTAC
1937258 AT-A--TA-
1 ATAACTTAC
*
1937263 ATAACATA-
1 ATAACTTAC
*
1937271 ATAAATTAC
1 ATAACTTAC
1937280 ATAA--TAC
1 ATAACTTAC
*
1937287 ATAA-TAAC
1 ATAACTTAC
1937295 AT-AC-TAC
1 ATAACTTAC
*
1937302 ATAACTTATAT
1 ATAAC-T-TAC
* *
1937313 ATAAGATTGC
1 ATAA-CTTAC
1937323 ATAACTTAC
1 ATAACTTAC
1937332 ATAATAACTTAC
1 ---ATAACTTAC
1937344 ATAACTTAC
1 ATAACTTAC
1937353 ATAACTTAC
1 ATAACTTAC
1937362 ATAA--TAC
1 ATAACTTAC
**
1937369 ACCACTTAC
1 ATAACTTAC
*
1937378 AT-TC-TAC
1 ATAACTTAC
*
1937385 ACAACTTAC
1 ATAACTTAC
1937394 ATAACATATAC
1 ATAAC-T-TAC
1937405 ATAA--TAC
1 ATAACTTAC
*
1937412 AGAACTTAC
1 ATAACTTAC
**
1937421 ATAAAATAC
1 ATAACTTAC
1937430 --AACTTAC
1 ATAACTTAC
*
1937437 ATATCTTAC
1 ATAACTTAC
1937446 ATAA--TAC
1 ATAACTTAC
1937453 ATAACTTAC
1 ATAACTTAC
1937462 ATAA--TAC
1 ATAACTTAC
1937469 A-ACACTTAC
1 ATA-ACTTAC
* *
1937478 ACAACTTAA
1 ATAACTTAC
*
1937487 ATAACTTGC
1 ATAACTTAC
*
1937496 ATAA--TGC
1 ATAACTTAC
*
1937503 ATAACCTAC
1 ATAACTTAC
*
1937512 ATAACTTAT
1 ATAACTTAC
*
1937521 ATAACTTTC
1 ATAACTTAC
* **
1937530 ACAAAATAC
1 ATAACTTAC
1937539 --AACTTAC
1 ATAACTTAC
**
1937546 ATATTTTAC
1 ATAACTTAC
* *
1937555 TTAAAACTTAT
1 --ATAACTTAC
1937566 ATAA--TAC
1 ATAACTTAC
1937573 ATAACTTAC
1 ATAACTTAC
1937582 ATAA--TAC
1 ATAACTTAC
1937589 A-ACACTTAC
1 ATA-ACTTAC
* *
1937598 ACAACTTAA
1 ATAACTTAC
*
1937607 ATAACTTGC
1 ATAACTTAC
1937616 ATAA--TAC
1 ATAACTTAC
* *
1937623 ATAGCCTAC
1 ATAACTTAC
*
1937632 ATAACTTAT
1 ATAACTTAC
1937641 ATAACTTAC
1 ATAACTTAC
*
1937650 ATGA--TAC
1 ATAACTTAC
1937657 A-ACACTTAC
1 ATA-ACTTAC
1937666 ATAACTTAC
1 ATAACTTAC
*
1937675 ATAGCTTAC
1 ATAACTTAC
1937684 ATAA--TAC
1 ATAACTTAC
*
1937691 ATAACTTAA
1 ATAACTTAC
*
1937700 ATAACTTAT
1 ATAACTTAC
1937709 ATAA--TAC
1 ATAACTTAC
1937716 ATAACTTAC
1 ATAACTTAC
*
1937725 ATAATTTAC
1 ATAACTTAC
1937734 TTAATACATA
Statistics
Matches: 366, Mismatches: 67, Indels: 104
0.68 0.12 0.19
Matches are distributed among these distances:
5 2 0.01
6 5 0.01
7 90 0.25
8 17 0.05
9 215 0.59
10 9 0.02
11 19 0.05
12 9 0.02
ACGTcount: A:0.47, C:0.19, G:0.02, T:0.32
Consensus pattern (9 bp):
ATAACTTAC
Found at i:1937340 original size:12 final size:12
Alignment explanation
Indices: 1937323--1937347 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
1937313 ATAAGATTGC
1937323 ATAACTTACATA
1 ATAACTTACATA
1937335 ATAACTTACATA
1 ATAACTTACATA
1937347 A
1 A
1937348 CTTACATAAC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.52, C:0.16, G:0.00, T:0.32
Consensus pattern (12 bp):
ATAACTTACATA
Found at i:1937375 original size:16 final size:16
Alignment explanation
Indices: 1937337--1937703 Score: 98
Period size: 16 Copynumber: 22.7 Consensus size: 16
1937327 CTTACATAAT
*
1937337 AACTTACATAACTTACAT
1 AACTTACATAA--TACAC
1937355 AACTTACATAATACAC
1 AACTTACATAATACAC
* **
1937371 CACTTACATTCTACAC
1 AACTTACATAATACAC
1937387 AACTTACAT-A-ACA-
1 AACTTACATAATACAC
* *
1937400 TA--TACATAATACAG
1 AACTTACATAATACAC
* *
1937414 AACTTACATAAAATAC
1 AACTTACATAATACAC
1937430 AACTTACAT-AT----
1 AACTTACATAATACAC
*
1937441 --CTTACATAATACAT
1 AACTTACATAATACAC
1937455 AACTTACATAATACA-
1 AACTTACATAATACAC
* * *
1937470 ACACTTACACAACTTAAAT
1 A-ACTTACATAA--TACAC
* * *
1937489 AACTTGCATAATGCAT
1 AACTTACATAATACAC
* * *
1937505 AACCTACATAACTTATAT
1 AACTTACATAA--TACAC
* * * *
1937523 AACTTTCACAAAATAC
1 AACTTACATAATACAC
* *
1937539 AACTTACATATTTTACTTAA
1 AACTTACATA--ATAC--AC
* *
1937559 AACTTATATAATACAT
1 AACTTACATAATACAC
1937575 AACTTACATAATACA-
1 AACTTACATAATACAC
* * *
1937590 ACACTTACACAACTTAAAT
1 A-ACTTACATAA--TACAC
* *
1937609 AACTTGCATAATACAT
1 AACTTACATAATACAC
* * * *
1937625 AGCCTACATAACTTATAT
1 AACTTACATAA--TACAC
*
1937643 AACTTACATGATACA-
1 AACTTACATAATACAC
*
1937658 ACACTTACATAACTTACAT
1 A-ACTTACATAA--TACAC
* *
1937677 AGCTTACATAATACAT
1 AACTTACATAATACAC
*
1937693 AACTTAAATAA
1 AACTTACATAA
1937704 CTTATATAAT
Statistics
Matches: 263, Mismatches: 54, Indels: 66
0.69 0.14 0.17
Matches are distributed among these distances:
9 7 0.03
10 2 0.01
11 5 0.02
12 1 0.00
13 4 0.02
14 4 0.02
15 4 0.02
16 150 0.57
18 73 0.28
19 3 0.01
20 10 0.04
ACGTcount: A:0.46, C:0.21, G:0.02, T:0.31
Consensus pattern (16 bp):
AACTTACATAATACAC
Found at i:1937492 original size:34 final size:34
Alignment explanation
Indices: 1937453--1937541 Score: 90
Period size: 34 Copynumber: 2.6 Consensus size: 34
1937443 TACATAATAC
*
1937453 ATAACTTACATAATACAACACTTACACAACTTAA
1 ATAACTTACATAATACAACACCTACACAACTTAA
* * * *
1937487 ATAACTTGCATAATGCATA-ACCTACATAACTTAT
1 ATAACTTACATAATACA-ACACCTACACAACTTAA
*
1937521 ATAACTTTCACAAAATACAAC
1 ATAAC-TT-ACATAATACAAC
1937542 TTACATATTT
Statistics
Matches: 43, Mismatches: 8, Indels: 6
0.75 0.14 0.11
Matches are distributed among these distances:
34 32 0.74
35 4 0.09
36 7 0.16
ACGTcount: A:0.47, C:0.22, G:0.02, T:0.28
Consensus pattern (34 bp):
ATAACTTACATAATACAACACCTACACAACTTAA
Found at i:1937619 original size:34 final size:34
Alignment explanation
Indices: 1937573--1937719 Score: 160
Period size: 34 Copynumber: 4.4 Consensus size: 34
1937563 TATATAATAC
*
1937573 ATAACTTACATAATACAACACTTACACAACTTAA
1 ATAACTTACATAATACAACACTTACATAACTTAA
* *
1937607 ATAACTTGCATAATACATAGC-C-TACATAACTTAT
1 ATAACTTACATAATACA-A-CACTTACATAACTTAA
* *
1937641 ATAACTTACATGATACAACACTTACATAACTTAC
1 ATAACTTACATAATACAACACTTACATAACTTAA
* * *
1937675 ATAGCTTACATAATACATA-ACTTAAATAACTTAT
1 ATAACTTACATAATACA-ACACTTACATAACTTAA
1937709 ATAA--TACATAA
1 ATAACTTACATAA
1937720 CTTACATAAT
Statistics
Matches: 97, Mismatches: 11, Indels: 12
0.81 0.09 0.10
Matches are distributed among these distances:
32 8 0.08
33 2 0.02
34 83 0.86
35 3 0.03
36 1 0.01
ACGTcount: A:0.47, C:0.20, G:0.03, T:0.31
Consensus pattern (34 bp):
ATAACTTACATAATACAACACTTACATAACTTAA
Found at i:1937647 original size:68 final size:68
Alignment explanation
Indices: 1937573--1937719 Score: 208
Period size: 68 Copynumber: 2.2 Consensus size: 68
1937563 TATATAATAC
* * *
1937573 ATAACTTACATAATACAACACTTACACAACTTAAATAACTTGCATAATACATAGCCTACATAACT
1 ATAACTTACATAATACAACACTTACACAACTTAAATAACTTACATAATACATAACCTAAATAACT
1937638 TAT
66 TAT
* * * * *
1937641 ATAACTTACATGATACAACACTTACATAACTTACATAGCTTACATAATACATAACTTAAATAACT
1 ATAACTTACATAATACAACACTTACACAACTTAAATAACTTACATAATACATAACCTAAATAACT
1937706 TAT
66 TAT
1937709 ATAA--TACATAA
1 ATAACTTACATAA
1937720 CTTACATAAT
Statistics
Matches: 70, Mismatches: 9, Indels: 2
0.86 0.11 0.02
Matches are distributed among these distances:
66 6 0.09
68 64 0.91
ACGTcount: A:0.47, C:0.20, G:0.03, T:0.31
Consensus pattern (68 bp):
ATAACTTACATAATACAACACTTACACAACTTAAATAACTTACATAATACATAACCTAAATAACT
TAT
Found at i:1937664 original size:120 final size:118
Alignment explanation
Indices: 1937430--1937703 Score: 390
Period size: 120 Copynumber: 2.3 Consensus size: 118
1937420 CATAAAATAC
* *
1937430 AACTTACATATCTTACATAATACATAACTTACATAATACAACACTTACACAACTTAAATAACTTG
1 AACTTACAAAACTTACATAATACATAACTTACATAATACAACACTTACACAACTTAAATAACTTG
*
1937495 CATAATGCATAACCTACATAACTTATATAACTTTCACAAAATACAACTTACAT
66 CATAATACATAACCTACATAACTTATATAACTTTCACAAAATACAACTTACAT
** *
1937548 ATTTTACTTAAAACTTATATAATACATAACTTACATAATACAACACTTACACAACTTAAATAACT
1 AACTTAC--AAAACTTACATAATACATAACTTACATAATACAACACTTACACAACTTAAATAACT
* **
1937613 TGCATAATACATAGCCTACATAACTTATATAAC-TT-ACATGATACAACACTTACAT
64 TGCATAATACATAACCTACATAACTTATATAACTTTCACAAAATAC-A-ACTTACAT
* * *
1937668 AACTTACATAGCTTACATAATACATAACTTAAATAA
1 AACTTACAAAACTTACATAATACATAACTTACATAA
1937704 CTTATATAAT
Statistics
Matches: 137, Mismatches: 15, Indels: 8
0.86 0.09 0.05
Matches are distributed among these distances:
118 37 0.27
119 3 0.02
120 97 0.71
ACGTcount: A:0.46, C:0.20, G:0.02, T:0.31
Consensus pattern (118 bp):
AACTTACAAAACTTACATAATACATAACTTACATAATACAACACTTACACAACTTAAATAACTTG
CATAATACATAACCTACATAACTTATATAACTTTCACAAAATACAACTTACAT
Found at i:1937691 original size:25 final size:25
Alignment explanation
Indices: 1937335--1937729 Score: 101
Period size: 25 Copynumber: 15.9 Consensus size: 25
1937325 AACTTACATA
1937335 ATAACTTACATAACTTACATAACTTAC
1 ATAACTTACATAACTTACATAA--TAC
** **
1937362 ATAA--TACACCACTTACATTCTAC
1 ATAACTTACATAACTTACATAATAC
*
1937385 ACAACTTACATAACATATACATAATAC
1 ATAACTTACATAAC-T-TACATAATAC
* ** *
1937412 AGAACTTACATAAAATACA-ACTTAC
1 ATAACTTACATAACTTACATA-ATAC
*
1937437 ATATCTTACATAA--TACATAACTTAC
1 ATAACTTACATAACTTACATAA--TAC
* *
1937462 ATAA--TACA-ACACTTACACAACTTAA
1 ATAACTTACATA-ACTTACATAA--TAC
* *
1937487 ATAACTTGCATAA--TGCATAACCTAC
1 ATAACTTACATAACTTACATAA--TAC
* *
1937512 ATAACTTATATAACTTTCACAAAATAC
1 ATAACTTACATAAC-TT-ACATAATAC
**
1937539 --AACTTACATATTTTAC-T--TA-
1 ATAACTTACATAACTTACATAATAC
*
1937558 A-AACTTATATAA--TACATAACTTAC
1 ATAACTTACATAACTTACATAA--TAC
* *
1937582 ATAA--TACA-ACACTTACACAACTTAA
1 ATAACTTACATA-ACTTACATAA--TAC
* *
1937607 ATAACTTGCATAA--TACATAGCCTAC
1 ATAACTTACATAACTTACATA--ATAC
* *
1937632 ATAACTTATATAACTTACATGATAC
1 ATAACTTACATAACTTACATAATAC
*
1937657 A-ACACTTACATAACTTACATAGCTTAC
1 ATA-ACTTACATAACTTACATA--ATAC
* *
1937684 ATAA--TACATAACTTAAATAACTTAT
1 ATAACTTACATAACTTACATAA--TAC
1937709 ATAA--TACATAACTTACATAAT
1 ATAACTTACATAACTTACATAAT
1937730 TTACTTAATA
Statistics
Matches: 274, Mismatches: 52, Indels: 88
0.66 0.13 0.21
Matches are distributed among these distances:
18 3 0.01
19 1 0.00
20 11 0.04
22 2 0.01
23 24 0.09
24 6 0.02
25 173 0.63
26 1 0.00
27 45 0.16
28 4 0.01
29 4 0.01
ACGTcount: A:0.46, C:0.21, G:0.02, T:0.31
Consensus pattern (25 bp):
ATAACTTACATAACTTACATAATAC
Found at i:1937738 original size:25 final size:25
Alignment explanation
Indices: 1937663--1937744 Score: 112
Period size: 25 Copynumber: 3.3 Consensus size: 25
1937653 ATACAACACT
* *
1937663 TACATAACTTACATAGCTTACATAA
1 TACATAACTTACATAACTTACTTAA
*
1937688 TACATAACTTAAATAACTTA-TATAA
1 TACATAACTTACATAACTTACT-TAA
*
1937713 TACATAACTTACATAATTTACTTAA
1 TACATAACTTACATAACTTACTTAA
1937738 TACATAA
1 TACATAA
1937745 ATATATATCA
Statistics
Matches: 50, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
25 49 0.98
26 1 0.02
ACGTcount: A:0.48, C:0.16, G:0.01, T:0.35
Consensus pattern (25 bp):
TACATAACTTACATAACTTACTTAA
Found at i:1943273 original size:66 final size:66
Alignment explanation
Indices: 1943154--1943318 Score: 185
Period size: 66 Copynumber: 2.5 Consensus size: 66
1943144 AGCAAATTAC
* * * *
1943154 ACAACTTAAAGCGGA-GACAGCATCGAGAGAAGCTGAGATTGAAAAAAGATATGAAGAACTCTAG
1 ACAACTTAAAGCAGATG-CAGCAGCGAGAGAAGCTGAGATTCAAAAAAGATATGAAGAACTCCA-
1943218 C-T
64 CTT
* * *
1943220 ACAATTTAAAGCAGATGCAGCAGCGAGAGAAGCTGAGGTTCAACGAAAG-TATGAAGAACTCCAC
1 ACAACTTAAAGCAGATGCAGCAGCGAGAGAAGCTGAGATTCAA-AAAAGATATGAAGAACTCCAC
1943284 TT
65 TT
* *
1943286 GCAGCTTAAAGCAGATGC-GACAGCGAGAGAAGC
1 ACAACTTAAAGCAGATGCAG-CAGCGAGAGAAGC
1943319 AGAGCAGCGT
Statistics
Matches: 85, Mismatches: 10, Indels: 8
0.83 0.10 0.08
Matches are distributed among these distances:
65 2 0.02
66 78 0.92
67 5 0.06
ACGTcount: A:0.41, C:0.18, G:0.26, T:0.16
Consensus pattern (66 bp):
ACAACTTAAAGCAGATGCAGCAGCGAGAGAAGCTGAGATTCAAAAAAGATATGAAGAACTCCACT
T
Found at i:1943334 original size:66 final size:66
Alignment explanation
Indices: 1943225--1943348 Score: 153
Period size: 66 Copynumber: 1.9 Consensus size: 66
1943215 TAGCTACAAT
* *** *
1943225 TTAAAGCAGATGCAGCAGCGAGAGAAGCTGAGGTTCAACGAAAGTATGAAGAACTCCACTTGCAG
1 TTAAAGCAGATGCAGCAGCGAGAGAAGCAGAGCAGCAACGAAAGTACGAAGAACTCCACTTGCAG
1943290 C
66 C
* *
1943291 TTAAAGCAGATGC-GACAGCGAGAGAAGCAGAGCAGCGTA-GAAAGTACGATGAACTCCA
1 TTAAAGCAGATGCAG-CAGCGAGAGAAGCAGAGCAGC-AACGAAAGTACGAAGAACTCCA
1943349 GCAGTAGCTT
Statistics
Matches: 49, Mismatches: 7, Indels: 4
0.82 0.12 0.07
Matches are distributed among these distances:
65 1 0.02
66 47 0.96
67 1 0.02
ACGTcount: A:0.38, C:0.19, G:0.28, T:0.15
Consensus pattern (66 bp):
TTAAAGCAGATGCAGCAGCGAGAGAAGCAGAGCAGCAACGAAAGTACGAAGAACTCCACTTGCAG
C
Found at i:1943443 original size:19 final size:19
Alignment explanation
Indices: 1943419--1943456 Score: 60
Period size: 19 Copynumber: 2.0 Consensus size: 19
1943409 GTAAATATTT
1943419 TTATCATTTTGAA-TTTTAA
1 TTATCATTTT-AACTTTTAA
1943438 TTATCATTTTAACTTTTAA
1 TTATCATTTTAACTTTTAA
1943457 CATTTTTGTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 2 0.11
19 16 0.89
ACGTcount: A:0.32, C:0.08, G:0.03, T:0.58
Consensus pattern (19 bp):
TTATCATTTTAACTTTTAA
Found at i:1943953 original size:43 final size:42
Alignment explanation
Indices: 1943665--1943993 Score: 424
Period size: 43 Copynumber: 7.7 Consensus size: 42
1943655 AAAAATGCCA
* ** *
1943665 CTAAAAGTCATGGTCTTTAGCGGCGTTTGTAAAAAAAACGCCG
1 CTAAAGGTCATGGTCTTTAGCGGCGTTTGT-GGAAAAGCGCCG
1943708 CTAAAGGTCATGGTCTTTAGCGGCGTTTGTGGGAAAAGCGCCG
1 CTAAAGGTCATGGTCTTTAGCGGCGTTTGT-GGAAAAGCGCCG
* * *
1943751 CTAAAGGTCATGGTCTATAGCGGCGTTTGTGGGATAAGCGCCC
1 CTAAAGGTCATGGTCTTTAGCGGCGTTTGT-GGAAAAGCGCCG
*
1943794 CTAAAGGTCATGGTCTTTAGCGGCGTTTGTAGGAAAAGCGCTG
1 CTAAAGGTCATGGTCTTTAGCGGCGTTTGT-GGAAAAGCGCCG
* *
1943837 CTAAAGGTCATGGTATTTAGCGACGTTTGTAGGAAAAGCGCCG
1 CTAAAGGTCATGGTCTTTAGCGGCGTTTGT-GGAAAAGCGCCG
* * **
1943880 CTAAAGGTCATGGTCTTTAGTGGCGTTTGTGGTATAAGCGCAA
1 CTAAAGGTCATGGTCTTTAGCGGCGTTTGTGG-AAAAGCGCCG
* * *
1943923 CTAAAGGTCATGGTCTTTAGTGGCGTTTGTGGTATAAGTGCCG
1 CTAAAGGTCATGGTCTTTAGCGGCGTTTGTGG-AAAAGCGCCG
**
1943966 CTAAAGGTCATGACCTTTAGCGGCGTTT
1 CTAAAGGTCATGGTCTTTAGCGGCGTTT
1943994 ATTTCTAAAA
Statistics
Matches: 257, Mismatches: 28, Indels: 2
0.90 0.10 0.01
Matches are distributed among these distances:
42 2 0.01
43 255 0.99
ACGTcount: A:0.24, C:0.17, G:0.30, T:0.29
Consensus pattern (42 bp):
CTAAAGGTCATGGTCTTTAGCGGCGTTTGTGGAAAAGCGCCG
Found at i:1943985 original size:129 final size:128
Alignment explanation
Indices: 1943664--1943993 Score: 471
Period size: 129 Copynumber: 2.6 Consensus size: 128
1943654 AAAAAATGCC
* ** *
1943664 ACTAAAAGTCATGGTCTTTAGCGGCGTTTGTAAAAAAAACGCCGCTAAAGGTCATGGTCTTTAGC
1 ACTAAAGGTCATGGTCTTTAGCGGCGTTTGT-GGAAAAGCGCCGCTAAAGGTCATGGTCTTTAGC
* *
1943729 GGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCATGGTCTATAGCGGCGTTTGTGGGATAAGCGCC
65 GGCGTTTGTAGGAAAAGCGCCGCTAAAGGTCATGGTCTATAGCGGCGTTTGTGGGATAAGCGCA
* * *
1943793 CCTAAAGGTCATGGTCTTTAGCGGCGTTTGTAGGAAAAGCGCTGCTAAAGGTCATGGTATTTAGC
1 ACTAAAGGTCATGGTCTTTAGCGGCGTTTGT-GGAAAAGCGCCGCTAAAGGTCATGGTCTTTAGC
* * * *
1943858 GACGTTTGTAGGAAAAGCGCCGCTAAAGGTCATGGTCTTTAGTGGCGTTTGTGGTATAAGCGCA
65 GGCGTTTGTAGGAAAAGCGCCGCTAAAGGTCATGGTCTATAGCGGCGTTTGTGGGATAAGCGCA
* * * **
1943922 ACTAAAGGTCATGGTCTTTAGTGGCGTTTGTGGTATAAGTGCCGCTAAAGGTCATGACCTTTAGC
1 ACTAAAGGTCATGGTCTTTAGCGGCGTTTGTGG-AAAAGCGCCGCTAAAGGTCATGGTCTTTAGC
1943987 GGCGTTT
65 GGCGTTT
1943994 ATTTCTAAAA
Statistics
Matches: 178, Mismatches: 22, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
128 2 0.01
129 176 0.99
ACGTcount: A:0.24, C:0.17, G:0.30, T:0.28
Consensus pattern (128 bp):
ACTAAAGGTCATGGTCTTTAGCGGCGTTTGTGGAAAAGCGCCGCTAAAGGTCATGGTCTTTAGCG
GCGTTTGTAGGAAAAGCGCCGCTAAAGGTCATGGTCTATAGCGGCGTTTGTGGGATAAGCGCA
Found at i:1953096 original size:54 final size:54
Alignment explanation
Indices: 1953022--1953183 Score: 261
Period size: 54 Copynumber: 3.0 Consensus size: 54
1953012 CTGGTGGGGT
* * * *
1953022 AAAACGACAAGGTGGAGGAGATGGTAGGGGTAATATAAATGCCAGTGGTAAAGA
1 AAAAGGACAAGGTGGAGGAGATGGTAGTGGTAATATAGATGCAAGTGGTAAAGA
* *
1953076 AAAAGGACAAGGTAGAGGAGATGGTAGTGGTAATATAGATGCAAGTGGTAGAGA
1 AAAAGGACAAGGTGGAGGAGATGGTAGTGGTAATATAGATGCAAGTGGTAAAGA
*
1953130 AAAAGGACAAGATGGAGGAGATGGTAGTGGTAATATAGATGCAAGTGGTAAAGA
1 AAAAGGACAAGGTGGAGGAGATGGTAGTGGTAATATAGATGCAAGTGGTAAAGA
1953184 TGAAACTAAA
Statistics
Matches: 99, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
54 99 1.00
ACGTcount: A:0.41, C:0.05, G:0.36, T:0.18
Consensus pattern (54 bp):
AAAAGGACAAGGTGGAGGAGATGGTAGTGGTAATATAGATGCAAGTGGTAAAGA
Found at i:1953199 original size:264 final size:264
Alignment explanation
Indices: 1952866--1953389 Score: 906
Period size: 264 Copynumber: 2.0 Consensus size: 264
1952856 CTAGTGGGGT
* *
1952866 AAAAGGACAAGGTAGAGGAGATGGTAGTGGTAATATAGACGCAAGTGGTAAAGATGAAGCTAAAG
1 AAAAGGACAAGATAGAGGAGATGGTAGTGGTAATATAGACGCAAGTGGTAAAGATGAAACTAAAG
1952931 CTAAAGCTAAAGATGGAGGAAATTTTGGAGGACAGGGAAAGGTCGATGAAAATAGTGGTGGAAGT
66 CTAAAGCTAAAGATGGAGGAAATTTTGGAGGACAGGGAAAGGTCGATGAAAATAGTGGTGGAAGT
*
1952996 GACAGCTCTAGTGATTCTGGTGGGGTAAAACGACAAGGTGGAGGAGATGGTAGGGGTAATATAAA
131 GACAGCTCTAGTGATTCTGGTGGGGTAAAACGACAAGGTGGAGGAGATGGTAGGGGTAATACAAA
* * * *
1953061 TGCCAGTGGTAAAGAAAAAGGA-CAAGGTAGAGGAGATGGTAGTGGTAATATAGATGCAAGTGGT
196 TGCAAGTGGTAAAGAAAAAGGACCAA-GTAGAGGAGATGGTAGTGATAATAAAAATGCAAGTGGT
1953125 AGAGA
260 AGAGA
* *
1953130 AAAAGGACAAGATGGAGGAGATGGTAGTGGTAATATAGATGCAAGTGGTAAAGATGAAACTAAAG
1 AAAAGGACAAGATAGAGGAGATGGTAGTGGTAATATAGACGCAAGTGGTAAAGATGAAACTAAAG
1953195 CTAAAGCTAAAGATGGAGGAAATTTTGGAGGACAGGGAAAGGTCGATGAAAATAGTGGTGGAAGT
66 CTAAAGCTAAAGATGGAGGAAATTTTGGAGGACAGGGAAAGGTCGATGAAAATAGTGGTGGAAGT
* * *
1953260 GACAGCTCTAGTGATTCTGGTGGGGTAAAAGGACAAGGTGGAGGAGATGGTAGTGGTAATACAGA
131 GACAGCTCTAGTGATTCTGGTGGGGTAAAACGACAAGGTGGAGGAGATGGTAGGGGTAATACAAA
* *
1953325 TGCAAGTGGTAAAGAAAAAGGACCTAGTGGAGGAGATGGTAGTGATAATAAAAATGCAAGTGGTA
196 TGCAAGTGGTAAAGAAAAAGGACCAAGTAGAGGAGATGGTAGTGATAATAAAAATGCAAGTGGTA
1953390 AAGATGAAGC
Statistics
Matches: 245, Mismatches: 14, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
264 243 0.99
265 2 0.01
ACGTcount: A:0.39, C:0.07, G:0.35, T:0.20
Consensus pattern (264 bp):
AAAAGGACAAGATAGAGGAGATGGTAGTGGTAATATAGACGCAAGTGGTAAAGATGAAACTAAAG
CTAAAGCTAAAGATGGAGGAAATTTTGGAGGACAGGGAAAGGTCGATGAAAATAGTGGTGGAAGT
GACAGCTCTAGTGATTCTGGTGGGGTAAAACGACAAGGTGGAGGAGATGGTAGGGGTAATACAAA
TGCAAGTGGTAAAGAAAAAGGACCAAGTAGAGGAGATGGTAGTGATAATAAAAATGCAAGTGGTA
GAGA
Found at i:1953292 original size:210 final size:210
Alignment explanation
Indices: 1953076--1953969 Score: 1376
Period size: 210 Copynumber: 4.3 Consensus size: 210
1953066 GTGGTAAAGA
* * *
1953076 AAAAGGACAAGGTAGAGGAGATGGTAGTGGTAATATAGATGCAAGTGGTAGAGAAAAAGGACAAG
1 AAAAGGACAAGGTGGAGGAGATGGTAGTGGTAATACAGATGCAAGTGGTAAAGAAAAAGGACAAG
* * * * *
1953141 ATGGAGGAGATGGTAGTGGTAATATAGATGCAAGTGGTAAAGATGAAACTAAAGCTAAAGCTAAA
66 GTGGAGGAGATGGTAGTGGTAATACAAATGCAAGTGGTAAAGATGAAGCTAAAGATAAAGCTAAA
* * * *
1953206 GATGGAGGAAATTTTGGAGGACAGGGAAAGGTCGATGAAAATAGTGGTGGAAGTGACAGCTCTAG
131 GTTGAAGGAAAATTTGGAGGACAGGGAAAGGTCGATGAAAATAGTGGTGGAAGTGACAGCTCTAA
1953271 TGATTCTGGTGGGGT
196 TGATTCTGGTGGGGT
*
1953286 AAAAGGACAAGGTGGAGGAGATGGTAGTGGTAATACAGATGCAAGTGGTAAAGAAAAAGGACCTA
1 AAAAGGACAAGGTGGAGGAGATGGTAGTGGTAATACAGATGCAAGTGGTAAAGAAAAAGGA-CAA
* * * * *
1953351 -GTGGAGGAGATGGTAGTGATAATAAAAATGCAAGTGGTAAAGATGAAGCTAAAAATAAAGGTGA
65 GGTGGAGGAGATGGTAGTGGTAATACAAATGCAAGTGGTAAAGATGAAGCTAAAGATAAAGCTAA
* *
1953415 AGTTGAAGGAAAATTTGGAGGACAGGGAAAGGTCGATGAAAATAGTGGTGGAAATGACAGATCTA
130 AGTTGAAGGAAAATTTGGAGGACAGGGAAAGGTCGATGAAAATAGTGGTGGAAGTGACAGCTCTA
* * * *
1953480 ATAATTCCGTTGAGGT
195 ATGATTCTGGTGGGGT
* * * *
1953496 AAAAGGGCAAGGTGGAGGAGATGGTAGTGGTGATACAGATACAAGTGGTAAACAAAAAGGACAAG
1 AAAAGGACAAGGTGGAGGAGATGGTAGTGGTAATACAGATGCAAGTGGTAAAGAAAAAGGACAAG
* *
1953561 GTGGAGGAGATAGTAGTGGTAATACAAATACAAGTGGTAAAGATGAAGCTAAAGATAAAGCTAAA
66 GTGGAGGAGATGGTAGTGGTAATACAAATGCAAGTGGTAAAGATGAAGCTAAAGATAAAGCTAAA
* * * * *
1953626 GTTGAAGGAAAATTTGAAGGGCAGGGAAAGGTCGATGGAAATAGTGGTGGAAGTGATAGTTCTAA
131 GTTGAAGGAAAATTTGGAGGACAGGGAAAGGTCGATGAAAATAGTGGTGGAAGTGACAGCTCTAA
*
1953691 TGATTCTAGTGGGGT
196 TGATTCTGGTGGGGT
* *
1953706 AAAAGGACAAGGTGGAGGAAATGGTAGTGGTAATACAGATGCAAGTGATAAAGAAAAAGGACAAG
1 AAAAGGACAAGGTGGAGGAGATGGTAGTGGTAATACAGATGCAAGTGGTAAAGAAAAAGGACAAG
* *
1953771 GTGGAGGAGATGGTAGTGGTAATACAAATGCAAGTGGTAAAGATGAAGCTAAAGGTAAAGCTGAA
66 GTGGAGGAGATGGTAGTGGTAATACAAATGCAAGTGGTAAAGATGAAGCTAAAGATAAAGCTAAA
* * *
1953836 GTTAAAGGAAATTTTGGAGGACAGGGAAAGGTCGATGGAAATAGTGGTGGAAGTGACAGCTCTAA
131 GTTGAAGGAAAATTTGGAGGACAGGGAAAGGTCGATGAAAATAGTGGTGGAAGTGACAGCTCTAA
1953901 TGATTCTGGTGGGGT
196 TGATTCTGGTGGGGT
*
1953916 AAAAGGACAAGGTGGAGGAGATGGTAGTGGTAATACAAATGCAAGTGGTAAAGA
1 AAAAGGACAAGGTGGAGGAGATGGTAGTGGTAATACAGATGCAAGTGGTAAAGA
1953970 TGAAGTTAAA
Statistics
Matches: 616, Mismatches: 66, Indels: 4
0.90 0.10 0.01
Matches are distributed among these distances:
209 2 0.00
210 612 0.99
211 2 0.00
ACGTcount: A:0.40, C:0.06, G:0.34, T:0.20
Consensus pattern (210 bp):
AAAAGGACAAGGTGGAGGAGATGGTAGTGGTAATACAGATGCAAGTGGTAAAGAAAAAGGACAAG
GTGGAGGAGATGGTAGTGGTAATACAAATGCAAGTGGTAAAGATGAAGCTAAAGATAAAGCTAAA
GTTGAAGGAAAATTTGGAGGACAGGGAAAGGTCGATGAAAATAGTGGTGGAAGTGACAGCTCTAA
TGATTCTGGTGGGGT
Found at i:1953555 original size:54 final size:54
Alignment explanation
Indices: 1953496--1953601 Score: 176
Period size: 54 Copynumber: 2.0 Consensus size: 54
1953486 CCGTTGAGGT
* * * *
1953496 AAAAGGGCAAGGTGGAGGAGATGGTAGTGGTGATACAGATACAAGTGGTAAACA
1 AAAAGGACAAGGTGGAGGAGATAGTAGTGGTAATACAAATACAAGTGGTAAACA
1953550 AAAAGGACAAGGTGGAGGAGATAGTAGTGGTAATACAAATACAAGTGGTAAA
1 AAAAGGACAAGGTGGAGGAGATAGTAGTGGTAATACAAATACAAGTGGTAAA
1953602 GATGAAGCTA
Statistics
Matches: 48, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
54 48 1.00
ACGTcount: A:0.42, C:0.07, G:0.34, T:0.17
Consensus pattern (54 bp):
AAAAGGACAAGGTGGAGGAGATAGTAGTGGTAATACAAATACAAGTGGTAAACA
Found at i:1953615 original size:12 final size:12
Alignment explanation
Indices: 1953598--1953632 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
1953588 ATACAAGTGG
1953598 TAAAGATGAAGC
1 TAAAGATGAAGC
*
1953610 TAAAGATAAAGC
1 TAAAGATGAAGC
*
1953622 TAAAGTTGAAG
1 TAAAGATGAAG
1953633 GAAAATTTGA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.51, C:0.06, G:0.23, T:0.20
Consensus pattern (12 bp):
TAAAGATGAAGC
Found at i:1953826 original size:54 final size:54
Alignment explanation
Indices: 1953706--1953813 Score: 189
Period size: 54 Copynumber: 2.0 Consensus size: 54
1953696 CTAGTGGGGT
*
1953706 AAAAGGACAAGGTGGAGGAAATGGTAGTGGTAATACAGATGCAAGTGATAAAGA
1 AAAAGGACAAGGTGGAGGAAATGGTAGTGGTAATACAAATGCAAGTGATAAAGA
* *
1953760 AAAAGGACAAGGTGGAGGAGATGGTAGTGGTAATACAAATGCAAGTGGTAAAGA
1 AAAAGGACAAGGTGGAGGAAATGGTAGTGGTAATACAAATGCAAGTGATAAAGA
1953814 TGAAGCTAAA
Statistics
Matches: 51, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
54 51 1.00
ACGTcount: A:0.44, C:0.06, G:0.34, T:0.17
Consensus pattern (54 bp):
AAAAGGACAAGGTGGAGGAAATGGTAGTGGTAATACAAATGCAAGTGATAAAGA
Found at i:1953827 original size:18 final size:18
Alignment explanation
Indices: 1953806--1953843 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
1953796 AAATGCAAGT
1953806 GGTAAAGATGAAGCTAAA
1 GGTAAAGATGAAGCTAAA
* *
1953824 GGTAAAGCTGAAGTTAAA
1 GGTAAAGATGAAGCTAAA
1953842 GG
1 GG
1953844 AAATTTTGGA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.45, C:0.05, G:0.32, T:0.18
Consensus pattern (18 bp):
GGTAAAGATGAAGCTAAA
Found at i:1954044 original size:156 final size:156
Alignment explanation
Indices: 1953760--1954147 Score: 731
Period size: 156 Copynumber: 2.5 Consensus size: 156
1953750 GTGATAAAGA
1953760 AAAAGGACAAGGTGGAGGAGATGGTAGTGGTAATACAAATGCAAGTGGTAAAGATGAAGCTAAAG
1 AAAAGGACAAGGTGGAGGAGATGGTAGTGGTAATACAAATGCAAGTGGTAAAGATGAAGCTAAAG
*
1953825 GTAAAGCTGAAGTTAAAGGAAATTTTGGAGGACAGGGAAAGGTCGATGGAAATAGTGGTGGAAGT
66 GTAAAGCTGAAGCTAAAGGAAATTTTGGAGGACAGGGAAAGGTCGATGGAAATAGTGGTGGAAGT
*
1953890 GACAGCTCTAATGATTCTGGTGGGGT
131 GACAGCTCTAATGATTCCGGTGGGGT
*
1953916 AAAAGGACAAGGTGGAGGAGATGGTAGTGGTAATACAAATGCAAGTGGTAAAGATGAAGTTAAAG
1 AAAAGGACAAGGTGGAGGAGATGGTAGTGGTAATACAAATGCAAGTGGTAAAGATGAAGCTAAAG
*
1953981 GTAAAGCTGAAGCTGAAGGAAATTTTGGAGGACAGGGAAAGGTCGATGGAAATAGTGGTGGAAGT
66 GTAAAGCTGAAGCTAAAGGAAATTTTGGAGGACAGGGAAAGGTCGATGGAAATAGTGGTGGAAGT
1954046 GACAGCTCTAATGATTCCGGTGGGGT
131 GACAGCTCTAATGATTCCGGTGGGGT
1954072 AAAAGGACAAGGTGGAGGAGATGGTAGTGGTAATACAAATGCAAGTGGTAAAGATGAAGCTAAAG
1 AAAAGGACAAGGTGGAGGAGATGGTAGTGGTAATACAAATGCAAGTGGTAAAGATGAAGCTAAAG
*
1954137 CTAAAGCTGAA
66 GTAAAGCTGAA
1954148 ACTCAACCTC
Statistics
Matches: 226, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
156 226 1.00
ACGTcount: A:0.38, C:0.07, G:0.35, T:0.20
Consensus pattern (156 bp):
AAAAGGACAAGGTGGAGGAGATGGTAGTGGTAATACAAATGCAAGTGGTAAAGATGAAGCTAAAG
GTAAAGCTGAAGCTAAAGGAAATTTTGGAGGACAGGGAAAGGTCGATGGAAATAGTGGTGGAAGT
GACAGCTCTAATGATTCCGGTGGGGT
Found at i:1954139 original size:6 final size:6
Alignment explanation
Indices: 1954128--1954381 Score: 131
Period size: 6 Copynumber: 42.5 Consensus size: 6
1954118 GGTAAAGATG
* * * * *
1954128 AAGCTA AAGCTA AAGCTGA AA-CTC AACCTC AAGCTA AAGCTA AAGATG
1 AAGCTA AAGCTA AAGCT-A AAGCTA AAGCTA AAGCTA AAGCTA AAGCTA
* * * * * * * *
1954176 AAGTTA AAGCTG AAGATG AAGCTC AAGCTA AAGTTA AAGATG AAGCTA
1 AAGCTA AAGCTA AAGCTA AAGCTA AAGCTA AAGCTA AAGCTA AAGCTA
* * * * * *
1954224 AAGCTG AATCTG AAGCTA AAGCTA AATCTA AAG-AA GAAGCTA AAGCTG
1 AAGCTA AAGCTA AAGCTA AAGCTA AAGCTA AAGCTA -AAGCTA AAGCTA
* * * * * *
1954272 AAGCTG AAGCTA AAGCTG AGGCTAA AAG-TG AAGCCA AAGCTG AAGCTA
1 AAGCTA AAGCTA AAGCTA AAGCT-A AAGCTA AAGCTA AAGCTA AAGCTA
* * * * * * * *
1954320 AAGCTA AAACTG AAG-GA AAGGCTG AAGCTG AAGCTG AAGCTG AAGCAA
1 AAGCTA AAGCTA AAGCTA AA-GCTA AAGCTA AAGCTA AAGCTA AAGCTA
*
1954368 AAGCTG AAGC-A AAG
1 AAGCTA AAGCTA AAG
1954382 GCCGAAGCAA
Statistics
Matches: 190, Mismatches: 50, Indels: 17
0.74 0.19 0.07
Matches are distributed among these distances:
5 11 0.06
6 171 0.90
7 8 0.04
ACGTcount: A:0.45, C:0.15, G:0.24, T:0.16
Consensus pattern (6 bp):
AAGCTA
Found at i:1954141 original size:18 final size:18
Alignment explanation
Indices: 1954120--1954377 Score: 153
Period size: 18 Copynumber: 14.3 Consensus size: 18
1954110 ATGCAAGTGG
*
1954120 TAAAGATGAAGCTAAAGC
1 TAAAGCTGAAGCTAAAGC
* * *
1954138 TAAAGCTGAAACTCAACC
1 TAAAGCTGAAGCTAAAGC
* * *
1954156 TCAAGCTAAAGCTAAAGA
1 TAAAGCTGAAGCTAAAGC
* * * * *
1954174 TGAAGTTAAAGCTGAAGA
1 TAAAGCTGAAGCTAAAGC
* * *
1954192 TGAAGCTCAAGCTAAAGT
1 TAAAGCTGAAGCTAAAGC
*
1954210 TAAAGATGAAGCTAAAGC
1 TAAAGCTGAAGCTAAAGC
* *
1954228 TGAATCTGAAGCTAAAGC
1 TAAAGCTGAAGCTAAAGC
* * *
1954246 TAAATCTAAAG-AAGAAGC
1 TAAAGCTGAAGCTA-AAGC
*
1954264 TAAAGCTGAAGCTGAAGC
1 TAAAGCTGAAGCTAAAGC
*
1954282 TAAAGCTGAGGCTAAAAG-
1 TAAAGCTGAAGCT-AAAGC
* ** *
1954300 TGAAGCCAAAGCTGAAGC
1 TAAAGCTGAAGCTAAAGC
* * *
1954318 TAAAGCTAAAACTGAAG-
1 TAAAGCTGAAGCTAAAGC
* *
1954335 GAAAGGCTGAAGCTGAAGC
1 TAAA-GCTGAAGCTAAAGC
* *
1954354 TGAAGCTGAAGCAAAAGC
1 TAAAGCTGAAGCTAAAGC
*
1954372 TGAAGC
1 TAAAGC
1954378 AAAGGCCGAA
Statistics
Matches: 186, Mismatches: 48, Indels: 12
0.76 0.20 0.05
Matches are distributed among these distances:
17 7 0.04
18 174 0.94
19 5 0.03
ACGTcount: A:0.45, C:0.15, G:0.24, T:0.17
Consensus pattern (18 bp):
TAAAGCTGAAGCTAAAGC
Found at i:1954185 original size:42 final size:42
Alignment explanation
Indices: 1954134--1954365 Score: 218
Period size: 42 Copynumber: 5.5 Consensus size: 42
1954124 GATGAAGCTA
* *
1954134 AAGCTAAAGCTGAAACTCAACCTCAAGCTAAAGCTAAAGATG
1 AAGCTAAAGCTGAAACTGAAGCTCAAGCTAAAGCTAAAGATG
* *
1954176 AAGTTAAAGCTGAAGA-TGAAGCTCAAGCTAAAGTTAAAGATG
1 AAGCTAAAGCTGAA-ACTGAAGCTCAAGCTAAAGCTAAAGATG
* * * *
1954218 AAGCTAAAGCTGAATCTGAAGCTAAAGCTAAATCTAAAGAAG
1 AAGCTAAAGCTGAAACTGAAGCTCAAGCTAAAGCTAAAGATG
* * * *
1954260 AAGCTAAAGCTGAAGCTGAAGCTAAAGCTGAGGCTAAA-AGTG
1 AAGCTAAAGCTGAAACTGAAGCTCAAGCTAAAGCTAAAGA-TG
* * * * * * * *
1954302 AAGCCAAAGCTGAAGCTAAAGCTAAAACTGAAG-GAAAGGCTG
1 AAGCTAAAGCTGAAACTGAAGCTCAAGCTAAAGCTAAA-GATG
* *
1954344 AAGCTGAAGCTGAAGCTGAAGC
1 AAGCTAAAGCTGAAACTGAAGC
1954366 AAAAGCTGAA
Statistics
Matches: 161, Mismatches: 24, Indels: 10
0.83 0.12 0.05
Matches are distributed among these distances:
41 4 0.02
42 156 0.97
43 1 0.01
ACGTcount: A:0.44, C:0.16, G:0.24, T:0.17
Consensus pattern (42 bp):
AAGCTAAAGCTGAAACTGAAGCTCAAGCTAAAGCTAAAGATG
Found at i:1954296 original size:30 final size:30
Alignment explanation
Indices: 1954120--1954381 Score: 174
Period size: 30 Copynumber: 9.2 Consensus size: 30
1954110 ATGCAAGTGG
* * *
1954120 TAAAGATGAAGCTAAAGCTAAAGCTGAAAC
1 TAAAGCTGAAGCTGAAGCTAAAGCTGAAGC
* * * * * *
1954150 TCAACCTCAAGCTAAAGCTAAAGATGAAGT
1 TAAAGCTGAAGCTGAAGCTAAAGCTGAAGC
*
1954180 TAAAGCTGAAGATGAAGCT----C--AAGC
1 TAAAGCTGAAGCTGAAGCTAAAGCTGAAGC
* * * *
1954204 TAAAGTTAAAGATGAAGCTAAAGCTGAATC
1 TAAAGCTGAAGCTGAAGCTAAAGCTGAAGC
* * * * **
1954234 TGAAGCTAAAGCTAAATCTAAAGAAGAAGC
1 TAAAGCTGAAGCTGAAGCTAAAGCTGAAGC
*
1954264 TAAAGCTGAAGCTGAAGCTAAAGCTGAGGC
1 TAAAGCTGAAGCTGAAGCTAAAGCTGAAGC
*
1954294 T-AA----AAG-TGAAGCCAAAGCTGAAGC
1 TAAAGCTGAAGCTGAAGCTAAAGCTGAAGC
* * *
1954318 TAAAGCTAAAACTGAAG-GAAAGGCTGAAGC
1 TAAAGCTGAAGCTGAAGCTAAA-GCTGAAGC
* *
1954348 TGAAGCTGAAGCTGAAGCAAAAGCTGAAGC
1 TAAAGCTGAAGCTGAAGCTAAAGCTGAAGC
1954378 -AAAG
1 TAAAG
1954382 GCCGAAGCAA
Statistics
Matches: 177, Mismatches: 41, Indels: 29
0.72 0.17 0.12
Matches are distributed among these distances:
24 37 0.21
25 5 0.03
28 1 0.01
29 10 0.06
30 121 0.68
31 3 0.02
ACGTcount: A:0.45, C:0.15, G:0.24, T:0.16
Consensus pattern (30 bp):
TAAAGCTGAAGCTGAAGCTAAAGCTGAAGC
Found at i:1954375 original size:42 final size:42
Alignment explanation
Indices: 1954174--1954389 Score: 163
Period size: 42 Copynumber: 5.1 Consensus size: 42
1954164 AAGCTAAAGA
* * ** * * *
1954174 TGAAGTTAAAGCTGAAGATGAAGCTCAAGCTAAAGTTAAA-GA
1 TGAAGCTAAAGCTGAAGCTGAAGCAAAAGCTGAAG-GAAAGGC
* * * ** *
1954216 TGAAGCTAAAGCTGAATCTGAAGCTAAAGCTAAATCTAAA-GA
1 TGAAGCTAAAGCTGAAGCTGAAGCAAAAGCTGAA-GGAAAGGC
* * *
1954258 AGAAGCTAAAGCTGAAGCTGAAGCTAAAGCTG-AGGCTAAAAG-
1 TGAAGCTAAAGCTGAAGCTGAAGCAAAAGCTGAAGG--AAAGGC
* *
1954300 TGAAGCCAAAGCTGAAGCTAAAGCTAAAA-CTGAAGGAAAGGC
1 TGAAGCTAAAGCTGAAGCTGAAGC-AAAAGCTGAAGGAAAGGC
* *
1954342 TGAAGCTGAAGCTGAAGCTGAAGCAAAAGCTGAAGCAAAGGC
1 TGAAGCTAAAGCTGAAGCTGAAGCAAAAGCTGAAGGAAAGGC
*
1954384 CGAAGC
1 TGAAGC
1954390 AAACACCGAA
Statistics
Matches: 146, Mismatches: 20, Indels: 16
0.80 0.11 0.09
Matches are distributed among these distances:
41 9 0.06
42 130 0.89
43 7 0.05
ACGTcount: A:0.44, C:0.15, G:0.26, T:0.16
Consensus pattern (42 bp):
TGAAGCTAAAGCTGAAGCTGAAGCAAAAGCTGAAGGAAAGGC
Found at i:1954388 original size:12 final size:12
Alignment explanation
Indices: 1954361--1954407 Score: 58
Period size: 12 Copynumber: 3.9 Consensus size: 12
1954351 AGCTGAAGCT
* *
1954361 GAAGCAAAAGCT
1 GAAGCAAAGGCC
1954373 GAAGCAAAGGCC
1 GAAGCAAAGGCC
**
1954385 GAAGCAAACACC
1 GAAGCAAAGGCC
1954397 GAAGCAAAGGC
1 GAAGCAAAGGC
1954408 TAAAGCAAAA
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
12 29 1.00
ACGTcount: A:0.47, C:0.23, G:0.28, T:0.02
Consensus pattern (12 bp):
GAAGCAAAGGCC
Found at i:1954480 original size:12 final size:12
Alignment explanation
Indices: 1954465--1954518 Score: 56
Period size: 12 Copynumber: 4.5 Consensus size: 12
1954455 GTGGTGGTGG
1954465 TGAAGCTAAAGC
1 TGAAGCTAAAGC
*
1954477 TGAAG-GAAATGC
1 TGAAGCTAAA-GC
* *
1954489 TAAAGCTGAAGC
1 TGAAGCTAAAGC
*
1954501 TGAAGCCAAAGC
1 TGAAGCTAAAGC
1954513 TGAAGC
1 TGAAGC
1954519 CGAAGCAAAA
Statistics
Matches: 33, Mismatches: 7, Indels: 4
0.75 0.16 0.09
Matches are distributed among these distances:
11 3 0.09
12 28 0.85
13 2 0.06
ACGTcount: A:0.41, C:0.17, G:0.28, T:0.15
Consensus pattern (12 bp):
TGAAGCTAAAGC
Found at i:1954511 original size:18 final size:18
Alignment explanation
Indices: 1954490--1954548 Score: 73
Period size: 18 Copynumber: 3.3 Consensus size: 18
1954480 AGGAAATGCT
1954490 AAAGCTGAAGCTGAAGCC
1 AAAGCTGAAGCTGAAGCC
* *
1954508 AAAGCTGAAGCCGAAGCA
1 AAAGCTGAAGCTGAAGCC
* *
1954526 AAAGCCGAAGTTGAAGCC
1 AAAGCTGAAGCTGAAGCC
*
1954544 GAAGC
1 AAAGC
1954549 AAAAGCCGAA
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
18 34 1.00
ACGTcount: A:0.41, C:0.22, G:0.29, T:0.08
Consensus pattern (18 bp):
AAAGCTGAAGCTGAAGCC
Found at i:1954519 original size:12 final size:12
Alignment explanation
Indices: 1954491--1954572 Score: 92
Period size: 12 Copynumber: 6.8 Consensus size: 12
1954481 GGAAATGCTA
*
1954491 AAGCTGAAGCTG
1 AAGCCGAAGCTG
*
1954503 AAGCCAAAGCTG
1 AAGCCGAAGCTG
**
1954515 AAGCCGAAGCAA
1 AAGCCGAAGCTG
*
1954527 AAGCCGAAGTTG
1 AAGCCGAAGCTG
**
1954539 AAGCCGAAGCAA
1 AAGCCGAAGCTG
1954551 AAGCCGAAGCTG
1 AAGCCGAAGCTG
*
1954563 AAACCGAAGC
1 AAGCCGAAGC
1954573 AAACAACGAA
Statistics
Matches: 56, Mismatches: 14, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
12 56 1.00
ACGTcount: A:0.41, C:0.23, G:0.28, T:0.07
Consensus pattern (12 bp):
AAGCCGAAGCTG
Found at i:1954523 original size:6 final size:6
Alignment explanation
Indices: 1954491--1954572 Score: 56
Period size: 6 Copynumber: 13.7 Consensus size: 6
1954481 GGAAATGCTA
* * * * ** **
1954491 AAGCTG AAGCTG AAGCCA AAGCTG AAGCCG AAGCAA AAGCCG AAGTTG
1 AAGCCG AAGCCG AAGCCG AAGCCG AAGCCG AAGCCG AAGCCG AAGCCG
** * *
1954539 AAGCCG AAGCAA AAGCCG AAGCTG AAACCG AAGC
1 AAGCCG AAGCCG AAGCCG AAGCCG AAGCCG AAGC
1954573 AAACAACGAA
Statistics
Matches: 55, Mismatches: 21, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
6 55 1.00
ACGTcount: A:0.41, C:0.23, G:0.28, T:0.07
Consensus pattern (6 bp):
AAGCCG
Found at i:1954582 original size:24 final size:24
Alignment explanation
Indices: 1954503--1954607 Score: 122
Period size: 24 Copynumber: 4.4 Consensus size: 24
1954493 GCTGAAGCTG
*
1954503 AAGCCAAAGCTGAAGCCGAAGCAA
1 AAGCCGAAGCTGAAGCCGAAGCAA
*
1954527 AAGCCGAAGTTGAAGCCGAAGCAA
1 AAGCCGAAGCTGAAGCCGAAGCAA
*
1954551 AAGCCGAAGCTGAAACCGAAGCAA
1 AAGCCGAAGCTGAAGCCGAAGCAA
* ** *
1954575 ACA-ACGAAGCAAAAGCCAAAGCAA
1 A-AGCCGAAGCTGAAGCCGAAGCAA
*
1954599 AGGCCGAAG
1 AAGCCGAAG
1954608 GAAAAGCTGA
Statistics
Matches: 68, Mismatches: 11, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
24 67 0.99
25 1 0.01
ACGTcount: A:0.47, C:0.24, G:0.26, T:0.04
Consensus pattern (24 bp):
AAGCCGAAGCTGAAGCCGAAGCAA
Found at i:1954596 original size:12 final size:12
Alignment explanation
Indices: 1954515--1954642 Score: 125
Period size: 12 Copynumber: 10.7 Consensus size: 12
1954505 GCCAAAGCTG
1954515 AAGCCGAAGCAA
1 AAGCCGAAGCAA
***
1954527 AAGCCGAAGTTG
1 AAGCCGAAGCAA
1954539 AAGCCGAAGCAA
1 AAGCCGAAGCAA
*
1954551 AAGCCGAAGCTGA
1 AAGCCGAAGC-AA
1954564 AA-CCGAAGCAA
1 AAGCCGAAGCAA
*
1954575 ACA-ACGAAGCAA
1 A-AGCCGAAGCAA
*
1954587 AAGCCAAAGCAA
1 AAGCCGAAGCAA
* *
1954599 AGGCCGAAGGAA
1 AAGCCGAAGCAA
*
1954611 AAGCTGAAGCAA
1 AAGCCGAAGCAA
* *
1954623 AGGCAGAAGCAA
1 AAGCCGAAGCAA
1954635 AAGCCGAA
1 AAGCCGAA
1954643 ATAGGAGGAC
Statistics
Matches: 92, Mismatches: 21, Indels: 6
0.77 0.18 0.05
Matches are distributed among these distances:
11 3 0.03
12 86 0.93
13 3 0.03
ACGTcount: A:0.48, C:0.22, G:0.27, T:0.03
Consensus pattern (12 bp):
AAGCCGAAGCAA
Found at i:1957735 original size:2 final size:2
Alignment explanation
Indices: 1957728--1957758 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
1957718 AAAAGAAGAA
1957728 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1957759 AATTTCATAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:1957952 original size:27 final size:27
Alignment explanation
Indices: 1957922--1957980 Score: 109
Period size: 27 Copynumber: 2.2 Consensus size: 27
1957912 CAAAACGTTA
1957922 CGTTTAAACTAGAACTCCAATGCACCC
1 CGTTTAAACTAGAACTCCAATGCACCC
*
1957949 CGTTTAAACTAGAACTCCAATGCGCCC
1 CGTTTAAACTAGAACTCCAATGCACCC
1957976 CGTTT
1 CGTTT
1957981 CACTTACAGC
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.29, C:0.32, G:0.14, T:0.25
Consensus pattern (27 bp):
CGTTTAAACTAGAACTCCAATGCACCC
Found at i:1962078 original size:24 final size:24
Alignment explanation
Indices: 1962031--1962172 Score: 136
Period size: 24 Copynumber: 6.1 Consensus size: 24
1962021 CGATATCTTT
* * * *
1962031 AAATAATAATACATAATGATTTTA
1 AAATAATAATATATGATAAATTTA
*
1962055 AAATAATAATATATGATAAGTTTA
1 AAATAATAATATATGATAAATTTA
*
1962079 AAACT-ATAGTATATGATAAATTT-
1 AAA-TAATAATATATGATAAATTTA
*
1962102 AAATAATATTA-ATGAT-AATTTA
1 AAATAATAATATATGATAAATTTA
*
1962124 AAATAATAGTATAT--TAAATATTA
1 AAATAATAATATATGATAAAT-TTA
*
1962147 AAATAATACTA-ATGATAAATTTA
1 AAATAATAATATATGATAAATTTA
1962170 AAA
1 AAA
1962173 CAATGTTAAG
Statistics
Matches: 101, Mismatches: 9, Indels: 17
0.80 0.07 0.13
Matches are distributed among these distances:
21 6 0.06
22 21 0.21
23 29 0.29
24 44 0.44
25 1 0.01
ACGTcount: A:0.55, C:0.02, G:0.06, T:0.37
Consensus pattern (24 bp):
AAATAATAATATATGATAAATTTA
Found at i:1962137 original size:27 final size:23
Alignment explanation
Indices: 1962052--1962154 Score: 74
Period size: 23 Copynumber: 4.5 Consensus size: 23
1962042 CATAATGATT
* *
1962052 TTAAAATAATAATATATGATAAGT-
1 TTAAAATAATAGTATAT--TAAATA
1962076 TTAAAACT-ATAGTATATGATAAAT-
1 TTAAAA-TAATAGTATAT--TAAATA
* *
1962100 TT-AAATAATATTA-ATGATAAT-
1 TTAAAATAATAGTATATTA-AATA
1962121 TTAAAATAATAGTATATTAAATA
1 TTAAAATAATAGTATATTAAATA
1962144 TTAAAATAATA
1 TTAAAATAATA
1962155 CTAATGATAA
Statistics
Matches: 67, Mismatches: 6, Indels: 13
0.78 0.07 0.15
Matches are distributed among these distances:
20 1 0.01
21 5 0.07
22 16 0.24
23 22 0.33
24 22 0.33
25 1 0.01
ACGTcount: A:0.54, C:0.01, G:0.06, T:0.39
Consensus pattern (23 bp):
TTAAAATAATAGTATATTAAATA
Found at i:1962167 original size:67 final size:70
Alignment explanation
Indices: 1962028--1962171 Score: 172
Period size: 67 Copynumber: 2.1 Consensus size: 70
1962018 TAGCGATATC
* * *
1962028 TTTAAATAATAATACATAATGATTTTAAAATAATAATATATGATAAGTTTAAAACTATAGTATAT
1 TTTAAATAATAATACATAATGAATTTAAAATAATAATATAT-ATAAATTTAAAACTATACTATAT
1962093 GATAAA
65 GATAAA
* * *
1962099 TTTAAATAATATTA-ATGAT-AATTTAAAATAATAGTATAT-TAAATATTAAAA-TAATACTA-A
1 TTTAAATAATAATACATAATGAATTTAAAATAATAATATATATAAAT-TTAAAACT-ATACTATA
1962159 TGATAAA
64 TGATAAA
1962166 TTTAAA
1 TTTAAA
1962172 ACAATGTTAA
Statistics
Matches: 65, Mismatches: 6, Indels: 8
0.82 0.08 0.10
Matches are distributed among these distances:
67 19 0.29
68 11 0.17
69 18 0.28
70 4 0.06
71 13 0.20
ACGTcount: A:0.53, C:0.02, G:0.06, T:0.39
Consensus pattern (70 bp):
TTTAAATAATAATACATAATGAATTTAAAATAATAATATATATAAATTTAAAACTATACTATATG
ATAAA
Found at i:1962199 original size:47 final size:45
Alignment explanation
Indices: 1962052--1962204 Score: 161
Period size: 45 Copynumber: 3.3 Consensus size: 45
1962042 CATAATGATT
* *
1962052 TTAAAATAATAATATATGATAAGTTTAAAACTATAGTATATGATAAAT-
1 TTAAAATAATACTA-ATGATAA-TTTAAAACAATAGTATAT--TAAATA
* *
1962100 TT-AAATAATATTAATGATAATTTAAAATAATAGTATATTAAATA
1 TTAAAATAATACTAATGATAATTTAAAACAATAGTATATTAAATA
*
1962144 TTAAAATAATACTAATGATAAATTTAAAACAAT-GT-TAAGCTTAGATA
1 TTAAAATAATACTAATGAT-AATTTAAAACAATAGTAT-A--TTAAATA
1962191 TTAAAATAATACTA
1 TTAAAATAATACTA
1962205 GATTTTAAAA
Statistics
Matches: 93, Mismatches: 6, Indels: 13
0.83 0.05 0.12
Matches are distributed among these distances:
43 5 0.05
44 3 0.03
45 34 0.37
46 19 0.20
47 30 0.32
48 2 0.02
ACGTcount: A:0.53, C:0.03, G:0.07, T:0.37
Consensus pattern (45 bp):
TTAAAATAATACTAATGATAATTTAAAACAATAGTATATTAAATA
Found at i:1962212 original size:18 final size:17
Alignment explanation
Indices: 1962185--1962218 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
1962175 ATGTTAAGCT
1962185 TAGATATTAAAATAATAC
1 TAGATATTAAAA-AATAC
*
1962203 TAGATTTTAAAAAATA
1 TAGATATTAAAAAATA
1962219 TGTCAGGAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 4 0.27
18 11 0.73
ACGTcount: A:0.56, C:0.03, G:0.06, T:0.35
Consensus pattern (17 bp):
TAGATATTAAAAAATAC
Found at i:1966259 original size:13 final size:13
Alignment explanation
Indices: 1966243--1966305 Score: 56
Period size: 13 Copynumber: 4.8 Consensus size: 13
1966233 TTTAAACCAA
1966243 ACTTTTCAAAAGC
1 ACTTTTCAAAAGC
* *
1966256 ACTTCTCAAAAGT
1 ACTTTTCAAAAGC
**
1966269 ACTTTTTC-ACGGC
1 AC-TTTTCAAAAGC
**
1966282 ACTTTTCAAAAAT
1 ACTTTTCAAAAGC
1966295 ACTTTTCAAAA
1 ACTTTTCAAAA
1966306 ACAATAAAGA
Statistics
Matches: 38, Mismatches: 10, Indels: 4
0.73 0.19 0.08
Matches are distributed among these distances:
12 5 0.13
13 29 0.76
14 4 0.11
ACGTcount: A:0.37, C:0.22, G:0.06, T:0.35
Consensus pattern (13 bp):
ACTTTTCAAAAGC
Found at i:1971200 original size:3 final size:3
Alignment explanation
Indices: 1971154--1971180 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
1971144 GCTACCACTT
1971154 CCA CCA CCA CCA CCA CCA CCA CCA CCA
1 CCA CCA CCA CCA CCA CCA CCA CCA CCA
1971181 AACTGCATAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.67, G:0.00, T:0.00
Consensus pattern (3 bp):
CCA
Found at i:1971284 original size:30 final size:31
Alignment explanation
Indices: 1971250--1971324 Score: 109
Period size: 30 Copynumber: 2.5 Consensus size: 31
1971240 GCTACCACTT
1971250 CCACCACCACCACCAG-CAAAACGCATGTGA
1 CCACCACCACCACCAGCCAAAACGCATGTGA
* *
1971280 CCACCACCACCGCC-GCCAAAATGCATGTGA
1 CCACCACCACCACCAGCCAAAACGCATGTGA
*
1971310 CTACCACCACCACCA
1 CCACCACCACCACCA
1971325 CCATGCCCTT
Statistics
Matches: 39, Mismatches: 4, Indels: 3
0.85 0.09 0.07
Matches are distributed among these distances:
29 1 0.03
30 38 0.97
ACGTcount: A:0.33, C:0.47, G:0.12, T:0.08
Consensus pattern (31 bp):
CCACCACCACCACCAGCCAAAACGCATGTGA
Found at i:1971319 original size:117 final size:117
Alignment explanation
Indices: 1971162--1971375 Score: 356
Period size: 117 Copynumber: 1.8 Consensus size: 117
1971152 TTCCACCACC
* * *
1971162 ACCACCACCACCACCACCAAACTGCATATGACCACCACCACCTCCACCATGTCCTTTAGCCCCAC
1 ACCACCACCACCACCACCAAAATGCATATGACCACCACCACCACCACCATGCCCTTTAGCCCCAC
*
1971227 CATCAACACTACTGCTACCACTTCCACCACCACCACCAGCAAAACGCATGTG
66 CATCAACACTACTACTACCACTTCCACCACCACCACCAGCAAAACGCATGTG
* * * *
1971279 ACCACCACCACCGCCGCCAAAATGCATGTGACTACCACCACCACCACCATGCCCTTTAGCCCCAC
1 ACCACCACCACCACCACCAAAATGCATATGACCACCACCACCACCACCATGCCCTTTAGCCCCAC
1971344 CATCAACACTACTACTACCACTTCCACCACCA
66 CATCAACACTACTACTACCACTTCCACCACCA
1971376 TCTCCACTAG
Statistics
Matches: 89, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
117 89 1.00
ACGTcount: A:0.30, C:0.48, G:0.07, T:0.14
Consensus pattern (117 bp):
ACCACCACCACCACCACCAAAATGCATATGACCACCACCACCACCACCATGCCCTTTAGCCCCAC
CATCAACACTACTACTACCACTTCCACCACCACCACCAGCAAAACGCATGTG
Found at i:1971568 original size:24 final size:24
Alignment explanation
Indices: 1971536--1971814 Score: 118
Period size: 24 Copynumber: 11.6 Consensus size: 24
1971526 CCTATTCCAA
* *
1971536 CTTTAGCTTCAGCATTACCTTTTG
1 CTTTAGCTTCAGCTTTACCTTTAG
* *
1971560 CTTTAGCTTCAGCTTTTCCTTCAG
1 CTTTAGCTTCAGCTTTACCTTTAG
* *
1971584 CTTCAGCTTCAGCTTTAGCTTTAG
1 CTTTAGCTTCAGCTTTACCTTTAG
* ** * *
1971608 CTTCAGCACCAGCTTTAGCTTTGG
1 CTTTAGCTTCAGCTTTACCTTTAG
* * *
1971632 CTTCAGCTTTAGCTTTAGCTTCT-G
1 CTTTAGCTTCAGCTTTACCTT-TAG
* * * **
1971656 CTTCT-GCTTTAGCTTCAGCTTCGG
1 CTT-TAGCTTCAGCTTTACCTTTAG
* *
1971680 CTTTAGCTT-TGGTTTCAACC-TTAG
1 CTTTAGCTTCAGCTTT--ACCTTTAG
* * * *
1971704 CTTTATCTTCAGCCTCAACTTTAG
1 CTTTAGCTTCAGCTTTACCTTTAG
** * **
1971728 CTTCGGCTTCAGCCTTAGATTTAG
1 CTTTAGCTTCAGCTTTACCTTTAG
** * **
1971752 CTTCGGCTTCAGCCTTAGATTTAG
1 CTTTAGCTTCAGCTTTACCTTTAG
* * *
1971776 -TTTCAGCTTTAGCTTTAGCTTCAG
1 CTTT-AGCTTCAGCTTTACCTTTAG
* *
1971800 CTTTAACTTTAGCTT
1 CTTTAGCTTCAGCTT
1971815 CGGCTTCAGC
Statistics
Matches: 203, Mismatches: 42, Indels: 20
0.77 0.16 0.08
Matches are distributed among these distances:
23 8 0.04
24 187 0.92
25 8 0.04
ACGTcount: A:0.16, C:0.25, G:0.16, T:0.43
Consensus pattern (24 bp):
CTTTAGCTTCAGCTTTACCTTTAG
Found at i:1971605 original size:42 final size:42
Alignment explanation
Indices: 1971536--1971852 Score: 307
Period size: 42 Copynumber: 7.5 Consensus size: 42
1971526 CCTATTCCAA
* * * **
1971536 CTTTAGCTTCAGCATT-ACCTTTTGCTTTAGCTTCAGCTTTTC
1 CTTTAGCTTCAGC-TTCAGCTTTAGCTTTAGCTTCAGCCTTAG
* *
1971578 CTTCAGCTTCAGCTTCAGCTTTAGCTTTAGCTTCAGCAC-CAG
1 CTTTAGCTTCAGCTTCAGCTTTAGCTTTAGCTTCAGC-CTTAG
** * *
1971620 CTTTAGCTTTGGCTTCAGCTTTAGCTTTAGCTTCTG-CTTCTG
1 CTTTAGCTTCAGCTTCAGCTTTAGCTTTAGCTTCAGCCTT-AG
* * * *
1971662 CTTTAGCTTCAGCTTCGGCTTTAGCTTTGGTTTCAACCTTAG
1 CTTTAGCTTCAGCTTCAGCTTTAGCTTTAGCTTCAGCCTTAG
* * * **
1971704 CTTTATCTTCAGCCTCAACTTTAGCTTCGGCTTCAGCCTTAG
1 CTTTAGCTTCAGCTTCAGCTTTAGCTTTAGCTTCAGCCTTAG
* * * * * *
1971746 ATTTAGCTTCGGCTTCAGCCTTAGATTTAGTTTCAGCTTTAG
1 CTTTAGCTTCAGCTTCAGCTTTAGCTTTAGCTTCAGCCTTAG
* * **
1971788 CTTTAGCTTCAGCTTTAACTTTAGCTTCGGCTTCAGCCTTAG
1 CTTTAGCTTCAGCTTCAGCTTTAGCTTTAGCTTCAGCCTTAG
*
1971830 CTTTAGCTTCGGCTTCAGCTTTA
1 CTTTAGCTTCAGCTTCAGCTTTA
1971853 ACTTCATCAT
Statistics
Matches: 218, Mismatches: 52, Indels: 10
0.78 0.19 0.04
Matches are distributed among these distances:
40 1 0.00
41 2 0.01
42 212 0.97
43 3 0.01
ACGTcount: A:0.15, C:0.26, G:0.17, T:0.42
Consensus pattern (42 bp):
CTTTAGCTTCAGCTTCAGCTTTAGCTTTAGCTTCAGCCTTAG
Found at i:1971820 original size:24 final size:24
Alignment explanation
Indices: 1971782--1971856 Score: 114
Period size: 24 Copynumber: 3.1 Consensus size: 24
1971772 TTAGTTTCAG
**
1971782 CTTTAGCTTTAGCTTCAGCTTTAA
1 CTTTAGCTTCGGCTTCAGCTTTAA
* *
1971806 CTTTAGCTTCGGCTTCAGCCTTAG
1 CTTTAGCTTCGGCTTCAGCTTTAA
1971830 CTTTAGCTTCGGCTTCAGCTTTAA
1 CTTTAGCTTCGGCTTCAGCTTTAA
1971854 CTT
1 CTT
1971857 CATCATTACT
Statistics
Matches: 45, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 45 1.00
ACGTcount: A:0.16, C:0.25, G:0.16, T:0.43
Consensus pattern (24 bp):
CTTTAGCTTCGGCTTCAGCTTTAA
Found at i:1971852 original size:18 final size:18
Alignment explanation
Indices: 1971536--1971850 Score: 186
Period size: 18 Copynumber: 17.5 Consensus size: 18
1971526 CCTATTCCAA
*
1971536 CTTTAGCTTCAGCATT-AC
1 CTTTAGCTTCAGC-TTCAG
* *
1971554 CTTTTGCTTTAGCTTCAG
1 CTTTAGCTTCAGCTTCAG
**
1971572 CTTTTCCTTCAGCTTCAG
1 CTTTAGCTTCAGCTTCAG
* * *
1971590 CTTCAGCTTTAGCTTTAG
1 CTTTAGCTTCAGCTTCAG
* ** *
1971608 CTTCAGCACCAGCTTTAG
1 CTTTAGCTTCAGCTTCAG
* *
1971626 CTTTGGCTTCAGCTTTAG
1 CTTTAGCTTCAGCTTCAG
* *
1971644 CTTTAGCTTCTGCTTCTG
1 CTTTAGCTTCAGCTTCAG
*
1971662 CTTTAGCTTCAGCTTCGG
1 CTTTAGCTTCAGCTTCAG
** * *
1971680 CTTTAGCTTTGGTTTCAA
1 CTTTAGCTTCAGCTTCAG
* * *
1971698 CCTTAGCTTTATCTTCAG
1 CTTTAGCTTCAGCTTCAG
* * * * *
1971716 CCTCAACTTTAGCTTCGG
1 CTTTAGCTTCAGCTTCAG
* * *
1971734 CTTCAGCCTT-AGATTTAG
1 CTTTAG-CTTCAGCTTCAG
**
1971752 CTTCGGCTTCAGCCTT-AG
1 CTTTAGCTTCAG-CTTCAG
* * *
1971770 ATTTAGTTTCAGCTTTAG
1 CTTTAGCTTCAGCTTCAG
* *
1971788 CTTTAGCTTCAGCTTTAA
1 CTTTAGCTTCAGCTTCAG
*
1971806 CTTTAGCTTCGGCTTCAG
1 CTTTAGCTTCAGCTTCAG
* * *
1971824 CCTTAGCTTTAGCTTCGG
1 CTTTAGCTTCAGCTTCAG
*
1971842 CTTCAGCTT
1 CTTTAGCTT
1971851 TAACTTCATC
Statistics
Matches: 232, Mismatches: 60, Indels: 10
0.77 0.20 0.03
Matches are distributed among these distances:
17 8 0.03
18 219 0.94
19 5 0.02
ACGTcount: A:0.15, C:0.26, G:0.17, T:0.42
Consensus pattern (18 bp):
CTTTAGCTTCAGCTTCAG
Found at i:1973017 original size:3 final size:3
Alignment explanation
Indices: 1973011--1973066 Score: 58
Period size: 3 Copynumber: 18.7 Consensus size: 3
1973001 ACTTGTACCT
* ** * * *
1973011 CCA CCA CCA CTA CCA CCA CCA CTG CCA CCT GCA CCT CCA CCA CCA CCA
1 CCA CCA CCA CCA CCA CCA CCA CCA CCA CCA CCA CCA CCA CCA CCA CCA
1973059 CCA CCA CC
1 CCA CCA CC
1973067 GTCACCTTTT
Statistics
Matches: 41, Mismatches: 12, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.27, C:0.62, G:0.04, T:0.07
Consensus pattern (3 bp):
CCA
Found at i:1973696 original size:16 final size:16
Alignment explanation
Indices: 1973675--1973716 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
1973665 GATTTTATCA
1973675 AAAAGAAAAAAAAAGG
1 AAAAGAAAAAAAAAGG
* *
1973691 AAAAGAAATATAAAGGG
1 AAAAGAAA-AAAAAAGG
1973708 AAAA-AAAAA
1 AAAAGAAAAA
1973717 GAAGTATATT
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
15 1 0.05
16 11 0.50
17 10 0.45
ACGTcount: A:0.79, C:0.00, G:0.17, T:0.05
Consensus pattern (16 bp):
AAAAGAAAAAAAAAGG
Found at i:1973882 original size:26 final size:26
Alignment explanation
Indices: 1973826--1973883 Score: 71
Period size: 26 Copynumber: 2.2 Consensus size: 26
1973816 AATAATTTAT
****
1973826 AAAAAAAATACTCTTAATTTTACGTT
1 AAAAAAAATACTCTTAATTTTAAAAA
*
1973852 GAAAAAAATACTCTTAATTTTAAAAA
1 AAAAAAAATACTCTTAATTTTAAAAA
1973878 AAAAAA
1 AAAAAA
1973884 TTTTGAAACA
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.57, C:0.09, G:0.03, T:0.31
Consensus pattern (26 bp):
AAAAAAAATACTCTTAATTTTAAAAA
Found at i:1976435 original size:18 final size:18
Alignment explanation
Indices: 1976414--1976478 Score: 71
Period size: 18 Copynumber: 3.6 Consensus size: 18
1976404 TGGCGGCAGT
1976414 GGTGGTGGTGGAGGTGCA
1 GGTGGTGGTGGAGGTGCA
** *
1976432 GGTGGCAGT-GACGGTGGTA
1 GGTGGTGGTGGA-GGT-GCA
1976451 -GTGGTGGTGGAGGTGCA
1 GGTGGTGGTGGAGGTGCA
1976468 GGTGGTGGTGG
1 GGTGGTGGTGG
1976479 CAGTGGTGGT
Statistics
Matches: 37, Mismatches: 6, Indels: 8
0.73 0.12 0.16
Matches are distributed among these distances:
17 4 0.11
18 29 0.78
19 4 0.11
ACGTcount: A:0.11, C:0.06, G:0.60, T:0.23
Consensus pattern (18 bp):
GGTGGTGGTGGAGGTGCA
Found at i:1976807 original size:3 final size:3
Alignment explanation
Indices: 1976801--1976827 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
1976791 AGGAGGAAAA
1976801 GGT GGT GGT GGT GGT GGT GGT GGT GGT
1 GGT GGT GGT GGT GGT GGT GGT GGT GGT
1976828 ATGGCTGCTG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.00, C:0.00, G:0.67, T:0.33
Consensus pattern (3 bp):
GGT
Found at i:1977905 original size:444 final size:444
Alignment explanation
Indices: 1976866--1977956 Score: 1309
Period size: 444 Copynumber: 2.4 Consensus size: 444
1976856 AAGGAGAGGT
** * * *
1976866 TGGTGGAAGTGGTAGCACTAGTGTTACTGGTAAGGTAGGAGGGCAAGGTGGAGGAT-TTGGTAGT
1 TGGTGGAAGTGGTAGCACTAGTGTGGCTAGTAAGGTAGGAGGGCAAAGTGGAGG-TGTTGGCAGT
* * * * * * *
1976930 GGTAGTATTGATGCAAGTGGCACTCATAGCGGTGAAAAAGATAGTGATGGAAAAATTAGTGCTAC
65 GGTAGTATTGATGCAAGTGGTACTCATAACGATGAAAAAGACAATGATGGAAAAACTAGTACTAC
* * * * *
1976995 TAGTAAGGGTGAAGCTAAAGATGGGTCTGAAGGTA-AAGTAGGAGGGCACGAAAGCGGTAGTCGT
130 TAGTAAGGATGAAGCTAAAAATGGGTTTAAAGATAGAA-TAGGA-GG-AC--AA--GG-AG--GT
* * * *
1977059 GGTATAACTGGTGGGGGTGGTTTTAAGTTTGGGTTTAGAGGCGGAATGAGAACAGGCTTTGGTAG
185 -G--T--C-GAT---GGTGGTTTTAAGTTTGGGGTTAAAGGCGGAATAAGAACAGGCTTTGGTAG
** * *
1977124 AAATAGTGGTGGAAGTGGTGGCACTAATGTTGGTGGAGGGGCTACAAGCCATGCCGAAGGTGTTG
241 AAATAGTGGTAAAAGTAGTGGCACTAATGTTGGTGGAGGGGCTACAAGCCATGCCGAAAGTGTTG
* * *
1977189 GTAGTGCTGCAACTAGTGCAAGTGGTACTCTTAGCGCAGCAAAGAGTAGTGATGAAAAAGCTAGT
306 GTAGTGCTGCAACTAGTACAAGTAGTACTCTTACCGCAGCAAAGAGTAGTGATGAAAAAGCTAGT
*** *
1977254 GACACTAGTAAGAGCGAGGCTAAAGTTGGTTTTGAAGGTAAAGTAAGAGGACAAGGAAAGGTTGG
371 GACACTAGTAAGAGCGAGGCTAAAACAGGTTTTGAAGGTAAAGTAAGAAGACAAGGAAAGGTTGG
*
1977319 TGGAAATAG
436 TGGAAACAG
* * *
1977328 TGGTGGAAGTGGTAGCACTAGTGTTGCTAGTAATGTAGGAGGGCAAGGTGGAGGTGTTGGCAGTG
1 TGGTGGAAGTGGTAGCACTAGTGTGGCTAGTAAGGTAGGAGGGCAAAGTGGAGGTGTTGGCAGTG
*
1977393 GTAGTATTGATGCAAGTGGTACTCATAACGATGAAAAAGATAATGATGGAAAAACTAGTACTACT
66 GTAGTATTGATGCAAGTGGTACTCATAACGATGAAAAAGACAATGATGGAAAAACTAGTACTACT
* * *
1977458 AGTAAGGGTGAAGCTAAAGATGGGTTTAAAGATA-AAGTAGGAGGGCAAGGAGGTGTCGATGGTG
131 AGTAAGGATGAAGCTAAAAATGGGTTTAAAGATAGAA-TAGGAGGACAAGGAGGTGTCGATGGTG
** *
1977522 GTTTTAAGTTTGGGGTTAAAGGCGGAATAAGTGCAGGCTTTGGTGGAAATAGTGGTAAAAGTAGT
195 GTTTTAAGTTTGGGGTTAAAGGCGGAATAAGAACAGGCTTTGGTAGAAATAGTGGTAAAAGTAGT
** * * *
1977587 GGCACTAATGTTGGTGGAGGGGCTGGAGGTC-TAGCCGAAAGTGTTGGTAGTGGTGCAACTAGTA
260 GGCACTAATGTTGGTGGAGGGGCTACAAGCCAT-GCCGAAAGTGTTGGTAGTGCTGCAACTAGTA
* * *
1977651 CAAGTAGTGA-TCTTAACCG-AGCAAAGAGTAGTGAT-AACAAATCTAGTGATACTAGTAAGAGT
324 CAAGTAGT-ACTCTT-ACCGCAGCAAAGAGTAGTGATGAA-AAAGCTAGTGACACTAGTAAGAGC
* *
1977713 GAGGCTAAAACAGGTTTTGAAGGTAAAGTAGGAAGACAAGGAGAGGTTGGTGGAAACAG
386 GAGGCTAAAACAGGTTTTGAAGGTAAAGTAAGAAGACAAGGAAAGGTTGGTGGAAACAG
*
1977772 TGGTGGAAGTGGTAGCACTAGTGTGGCTGGTAAGGTAGGAGGGCAAAGTGGAGGTGTTGGCAGTG
1 TGGTGGAAGTGGTAGCACTAGTGTGGCTAGTAAGGTAGGAGGGCAAAGTGGAGGTGTTGGCAGTG
* * * * * * *
1977837 GTAGT-TCTGATGCAAGTGGTACTCGTACCGGTGAAAAAGGCAGTGATGGAAAAGCTAGT-TTCA
66 GTAGTAT-TGATGCAAGTGGTACTCATAACGATGAAAAAGACAATGATGGAAAAACTAGTACT-A
* *
1977900 CTAGTAAGGATGAAGCTAAAAATGGGTTTGAAGGTAGAATAGGAGGACAAGGAGGTG
129 CTAGTAAGGATGAAGCTAAAAATGGGTTTAAAGATAGAATAGGAGGACAAGGAGGTG
1977957 CAGGCGGTGG
Statistics
Matches: 561, Mismatches: 60, Indels: 34
0.86 0.09 0.05
Matches are distributed among these distances:
443 5 0.01
444 376 0.67
445 6 0.01
447 2 0.00
448 1 0.00
450 1 0.00
452 1 0.00
453 2 0.00
455 2 0.00
456 2 0.00
458 2 0.00
460 1 0.00
461 3 0.01
462 157 0.28
ACGTcount: A:0.31, C:0.09, G:0.36, T:0.24
Consensus pattern (444 bp):
TGGTGGAAGTGGTAGCACTAGTGTGGCTAGTAAGGTAGGAGGGCAAAGTGGAGGTGTTGGCAGTG
GTAGTATTGATGCAAGTGGTACTCATAACGATGAAAAAGACAATGATGGAAAAACTAGTACTACT
AGTAAGGATGAAGCTAAAAATGGGTTTAAAGATAGAATAGGAGGACAAGGAGGTGTCGATGGTGG
TTTTAAGTTTGGGGTTAAAGGCGGAATAAGAACAGGCTTTGGTAGAAATAGTGGTAAAAGTAGTG
GCACTAATGTTGGTGGAGGGGCTACAAGCCATGCCGAAAGTGTTGGTAGTGCTGCAACTAGTACA
AGTAGTACTCTTACCGCAGCAAAGAGTAGTGATGAAAAAGCTAGTGACACTAGTAAGAGCGAGGC
TAAAACAGGTTTTGAAGGTAAAGTAAGAAGACAAGGAAAGGTTGGTGGAAACAG
Found at i:1978311 original size:24 final size:24
Alignment explanation
Indices: 1978292--1978383 Score: 78
Period size: 24 Copynumber: 3.8 Consensus size: 24
1978282 TACTAATAGT
1978292 AAAGATAATGTTAAAGCTAAAGCC
1 AAAGATAATGTTAAAGCTAAAGCC
* * *
1978316 AAAGATAATGTTGAAGCTGAAGCT
1 AAAGATAATGTTAAAGCTAAAGCC
* ** *
1978340 AATGCCGAA-GCTAAAGCTAAAGCC
1 AAAG-ATAATGTTAAAGCTAAAGCC
* * *
1978364 GAAGCTAATGCTAAAGCTAA
1 AAAGATAATGTTAAAGCTAA
1978384 TGCTGAAGCT
Statistics
Matches: 53, Mismatches: 13, Indels: 4
0.76 0.19 0.06
Matches are distributed among these distances:
23 3 0.06
24 48 0.91
25 2 0.04
ACGTcount: A:0.45, C:0.15, G:0.21, T:0.20
Consensus pattern (24 bp):
AAAGATAATGTTAAAGCTAAAGCC
Found at i:1978339 original size:30 final size:30
Alignment explanation
Indices: 1978305--1978401 Score: 113
Period size: 30 Copynumber: 3.2 Consensus size: 30
1978295 GATAATGTTA
* * *
1978305 AAGCTAAAGCCAAAGATAATGTTGAAGCTG
1 AAGCTAATGCCAAAGCTAATGCTGAAGCTG
* * * *
1978335 AAGCTAATGCCGAAGCTAAAGCTAAAGCCG
1 AAGCTAATGCCAAAGCTAATGCTGAAGCTG
* *
1978365 AAGCTAATGCTAAAGCTAATGCTGAAGCTA
1 AAGCTAATGCCAAAGCTAATGCTGAAGCTG
1978395 AAGCTAA
1 AAGCTAA
1978402 GGCTGAAGCC
Statistics
Matches: 54, Mismatches: 13, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
30 54 1.00
ACGTcount: A:0.42, C:0.18, G:0.22, T:0.19
Consensus pattern (30 bp):
AAGCTAATGCCAAAGCTAATGCTGAAGCTG
Found at i:1978342 original size:18 final size:18
Alignment explanation
Indices: 1978321--1978615 Score: 114
Period size: 18 Copynumber: 16.7 Consensus size: 18
1978311 AAGCCAAAGA
*
1978321 TAATGTTGAAGCTGAAGC
1 TAATGCTGAAGCTGAAGC
* *
1978339 TAATGCCGAAGCTAAAGC
1 TAATGCTGAAGCTGAAGC
* *
1978357 TAAAGCCGAAGCTAATGCTAAAGC
1 TAATGCTGAAGC---TG---AAGC
*
1978381 TAATGCTGAAGCTAAAGC
1 TAATGCTGAAGCTGAAGC
* *
1978399 TAAGGCTGAAGCCGAAGC
1 TAATGCTGAAGCTGAAGC
* *
1978417 TAAAGCTGAAGCTAAAGC
1 TAATGCTGAAGCTGAAGC
* *
1978435 TAAGGCTGAAGCCGAAGC
1 TAATGCTGAAGCTGAAGC
* *
1978453 TAAAGCTAAAGC---AG-
1 TAATGCTGAAGCTGAAGC
* *
1978467 -AA-GCCGAAGCTAAAGC
1 TAATGCTGAAGCTGAAGC
* *
1978483 TAAGGCTGAAGCCGAAGC
1 TAATGCTGAAGCTGAAGC
* *
1978501 TAAAG-TAGAAGCTAAAGC
1 TAATGCT-GAAGCTGAAGC
* **
1978519 TAAAGCTGCGGCTGAAGTC
1 TAATGCTGAAGCTGAAG-C
* * *
1978538 GAA-GCTAAAGTTGAAGC
1 TAATGCTGAAGCTGAAGC
*
1978555 TAAAGCT-AA----AA-C
1 TAATGCTGAAGCTGAAGC
* * * *
1978567 TAAGGCTGAAACCGAGGC
1 TAATGCTGAAGCTGAAGC
*
1978585 TAAAGCTGAAGCTGAAGC
1 TAATGCTGAAGCTGAAGC
* *
1978603 TAAAGCCGAAGCT
1 TAATGCTGAAGCT
1978616 AAAGTTAGAG
Statistics
Matches: 212, Mismatches: 43, Indels: 44
0.71 0.14 0.15
Matches are distributed among these distances:
12 13 0.06
13 6 0.03
15 4 0.02
17 9 0.04
18 160 0.75
19 4 0.02
21 2 0.01
24 14 0.07
ACGTcount: A:0.39, C:0.19, G:0.26, T:0.16
Consensus pattern (18 bp):
TAATGCTGAAGCTGAAGC
Found at i:1978377 original size:36 final size:36
Alignment explanation
Indices: 1978327--1978614 Score: 152
Period size: 36 Copynumber: 8.5 Consensus size: 36
1978317 AAGATAATGT
1978327 TGAAGCTGAA-GCT-AATGCCGAAGCTAAAGCTAAAGC
1 TGAAGCT-AAGGCTGAA-GCCGAAGCTAAAGCTAAAGC
* * * *
1978363 CGAAGCTAATGCT--A----AAGCTAATGCTGAAGC
1 TGAAGCTAAGGCTGAAGCCGAAGCTAAAGCTAAAGC
* *
1978393 TAAAGCTAAGGCTGAAGCCGAAGCTAAAGCTGAAGC
1 TGAAGCTAAGGCTGAAGCCGAAGCTAAAGCTAAAGC
*
1978429 TAAAGCTAAGGCTGAAGCCGAAGCTAAAGCT--A--
1 TGAAGCTAAGGCTGAAGCCGAAGCTAAAGCTAAAGC
*
1978461 --AAGC--A----GAAGCCGAAGCTAAAGCTAAGGC
1 TGAAGCTAAGGCTGAAGCCGAAGCTAAAGCTAAAGC
* * **
1978489 TGAAGCCGAA-GCTAAAGTAGAAGCTAAAGCTAAAGC
1 TGAAG-CTAAGGCTGAAGCCGAAGCTAAAGCTAAAGC
** * ** * *
1978525 TGCGGCTGAAGTC-GAAGCTAAAGTTGAAGCTAAAGC
1 TGAAGCT-AAGGCTGAAGCCGAAGCTAAAGCTAAAGC
* * * * *
1978561 TAAAACTAAGGCTGAAACCGAGGCTAAAGCTGAAGC
1 TGAAGCTAAGGCTGAAGCCGAAGCTAAAGCTAAAGC
* *
1978597 TGAAGCTAAAGCCGAAGC
1 TGAAGCTAAGGCTGAAGC
1978615 TAAAGTTAGA
Statistics
Matches: 191, Mismatches: 39, Indels: 44
0.70 0.14 0.16
Matches are distributed among these distances:
24 18 0.09
28 1 0.01
30 31 0.16
31 1 0.01
32 1 0.01
33 1 0.01
34 1 0.01
35 8 0.04
36 128 0.67
37 1 0.01
ACGTcount: A:0.40, C:0.19, G:0.26, T:0.15
Consensus pattern (36 bp):
TGAAGCTAAGGCTGAAGCCGAAGCTAAAGCTAAAGC
Found at i:1978381 original size:48 final size:48
Alignment explanation
Indices: 1978303--1978605 Score: 222
Period size: 48 Copynumber: 6.4 Consensus size: 48
1978293 AAGATAATGT
* * * *
1978303 TAAAGCTAAAGCCAAAGATAATGTTGAAGCTGAA-GCT-AATGCCGAAGC
1 TAAAGCTAAAGCCGAAGCTAATGCTAAAGCT-AAGGCTGAA-GCCGAAGC
* **
1978351 TAAAGCTAAAGCCGAAGCTAATGCTAAAGCTAATGCTGAAGCTAAAGC
1 TAAAGCTAAAGCCGAAGCTAATGCTAAAGCTAAGGCTGAAGCCGAAGC
* *
1978399 TAAGGCTGAAGCCGAAGCTAAAGCTGAAGCTAAAGCTAAGGCTGAAGCCGAAGC
1 TAAAGCTAAAGCCGAAGCT-AA--T---GCTAAAGCTAAGGCTGAAGCCGAAGC
* *
1978453 TAAAGCTAAAGCAGAAGCCGAA-GCTAAAGCTAAGGCTGAAGCCGAAGC
1 TAAAGCTAAAGCCGAAG-CTAATGCTAAAGCTAAGGCTGAAGCCGAAGC
* ** *
1978501 TAAAG-T--A---GAAGCTAAAGCTAAAGCTGCGGCTGAAGTCGAAGC
1 TAAAGCTAAAGCCGAAGCTAATGCTAAAGCTAAGGCTGAAGCCGAAGC
* * * * *
1978543 TAAAG-T-----TGAAGCTAAAGCTAAAACTAAGGCTGAAACCGAGGC
1 TAAAGCTAAAGCCGAAGCTAATGCTAAAGCTAAGGCTGAAGCCGAAGC
* *
1978585 TAAAGCTGAAGCTGAAGCTAA
1 TAAAGCTAAAGCCGAAGCTAA
1978606 AGCCGAAGCT
Statistics
Matches: 213, Mismatches: 25, Indels: 34
0.78 0.09 0.12
Matches are distributed among these distances:
41 3 0.01
42 67 0.31
43 1 0.00
45 1 0.00
47 3 0.01
48 93 0.44
49 4 0.02
51 1 0.00
54 39 0.18
55 1 0.00
ACGTcount: A:0.41, C:0.18, G:0.25, T:0.16
Consensus pattern (48 bp):
TAAAGCTAAAGCCGAAGCTAATGCTAAAGCTAAGGCTGAAGCCGAAGC
Found at i:1978391 original size:24 final size:23
Alignment explanation
Indices: 1978347--1978619 Score: 130
Period size: 24 Copynumber: 11.7 Consensus size: 23
1978337 GCTAATGCCG
*
1978347 AAGCTAAAGCTAAAGCCGAAGCT
1 AAGCTAAAGCTAAAGCTGAAGCT
*
1978370 AATGCTAAAGCTAATGCTGAAGCT
1 AA-GCTAAAGCTAAAGCTGAAGCT
* * *
1978394 AAAGCTAAGGCTGAAGCCGAAGCT
1 -AAGCTAAAGCTAAAGCTGAAGCT
*
1978418 AAAGCTGAAGCTAAAGCT-AAGGCT
1 -AAGCTAAAGCTAAAGCTGAA-GCT
** * *
1978442 GAAGCCGAAGCTAAAGCTAAAGCAG
1 -AAGCTAAAGCTAAAGCTGAAGC-T
**
1978467 AAGCCGAAGCTAAAGCT-AAGGCT
1 AAGCTAAAGCTAAAGCTGAA-GCT
**
1978490 GAAGCCGAAGCTAAAG-TAGAAGCT
1 -AAGCTAAAGCTAAAGCT-GAAGCT
***
1978514 AAAGCTAAAGCTGCGGCTGAAG-T
1 -AAGCTAAAGCTAAAGCTGAAGCT
* *
1978537 ---C-GAAGCTAAAGTTGAAGCT
1 AAGCTAAAGCTAAAGCTGAAGCT
* * * *
1978556 AAAGCTAAAACTAAGGCTGAAACCG
1 -AAGCTAAAGCTAAAGCTG-AAGCT
* *
1978581 AGGCTAAAGCTGAAGCTGAAGCT
1 AAGCTAAAGCTAAAGCTGAAGCT
**
1978604 AAAGCCGAAGCTAAAG
1 -AAGCTAAAGCTAAAG
1978620 TTAGAGTAGG
Statistics
Matches: 191, Mismatches: 41, Indels: 35
0.72 0.15 0.13
Matches are distributed among these distances:
18 11 0.06
19 2 0.01
23 12 0.06
24 156 0.82
25 10 0.05
ACGTcount: A:0.41, C:0.19, G:0.26, T:0.15
Consensus pattern (23 bp):
AAGCTAAAGCTAAAGCTGAAGCT
Found at i:1978416 original size:84 final size:82
Alignment explanation
Indices: 1978347--1978614 Score: 331
Period size: 84 Copynumber: 3.2 Consensus size: 82
1978337 GCTAATGCCG
*
1978347 AAGCTAAAGCTAAAGCCGAAGCTAATGCTAAAGCTAATGCTGAAGCTAAAGCTAAGGCTGAAGCC
1 AAGCTAAAGCTGAAGCCGAAGCTAA-GCTAAAGCTAA-GCTGAAGCTAAAGCTAAGGCTGAAGCC
1978412 GAAGCTAAAGCTGAAGCTA
64 GAAGCTAAAGCTGAAGCTA
* * *
1978431 AAGCTAAGGCTGAAGCCGAAGCTAAAGCTAAAGCAGAAGCCGAAGCTAAAGCTAAGGCTGAAGCC
1 AAGCTAAAGCTGAAGCCGAAGCT-AAGCTAAAGC-TAAGCTGAAGCTAAAGCTAAGGCTGAAGCC
1978496 GAAGCTAAAG-TAGAAGCTA
64 GAAGCTAAAGCT-GAAGCTA
** * * * * * *
1978515 AAGCTAAAGCTGCGGCTGAAGTCGAAGCTAAAGTTGAAGCTAAAGCTAAAACTAAGGCTGAAACC
1 AAGCTAAAGCTGAAGCCGAAG-CTAAGCTAAAGCT-AAGCTGAAGCTAAAGCTAAGGCTGAAGCC
* *
1978580 GAGGCTAAAGCTGAAGCTG
64 GAAGCTAAAGCTGAAGCTA
*
1978599 AAGCTAAAGCCGAAGC
1 AAGCTAAAGCTGAAGC
1978615 TAAAGTTAGA
Statistics
Matches: 158, Mismatches: 20, Indels: 12
0.83 0.11 0.06
Matches are distributed among these distances:
83 1 0.01
84 151 0.96
85 6 0.04
ACGTcount: A:0.40, C:0.19, G:0.26, T:0.15
Consensus pattern (82 bp):
AAGCTAAAGCTGAAGCCGAAGCTAAGCTAAAGCTAAGCTGAAGCTAAAGCTAAGGCTGAAGCCGA
AGCTAAAGCTGAAGCTA
Found at i:1978501 original size:42 final size:42
Alignment explanation
Indices: 1978346--1978608 Score: 271
Period size: 42 Copynumber: 6.3 Consensus size: 42
1978336 AGCTAATGCC
* * * *
1978346 GAAGCTAAAGCTAAAGCCGAAG-CTAATGCTAAAGCTA-ATGCT
1 GAAGCTAAAGCTAAGGCTGAAGCCGAA-GCTAAAGC-AGAAGCT
*
1978388 GAAGCTAAAGCTAAGGCTGAAGCCGAAGCTAAAGCTGAAGCT
1 GAAGCTAAAGCTAAGGCTGAAGCCGAAGCTAAAGCAGAAGCT
* * * ** *
1978430 AAAGCTAAGGCTGAA-GCCGAAGCTAAAGCTAAAGCAGAAGCC
1 GAAGCTAAAGCT-AAGGCTGAAGCCGAAGCTAAAGCAGAAGCT
*
1978472 GAAGCTAAAGCTAAGGCTGAAGCCGAAGCTAAAGTAGAAGCT
1 GAAGCTAAAGCTAAGGCTGAAGCCGAAGCTAAAGCAGAAGCT
* ** * **
1978514 AAAGCTAAAGCTGCGGCTGAAGTCGAAGCTAAAGTTGAAGCT
1 GAAGCTAAAGCTAAGGCTGAAGCCGAAGCTAAAGCAGAAGCT
* * * * *
1978556 AAAGCTAAAACTAAGGCTGAAACCGAGGCTAAAGCTGAAGCT
1 GAAGCTAAAGCTAAGGCTGAAGCCGAAGCTAAAGCAGAAGCT
1978598 GAAGCTAAAGC
1 GAAGCTAAAGC
1978609 CGAAGCTAAA
Statistics
Matches: 184, Mismatches: 33, Indels: 8
0.82 0.15 0.04
Matches are distributed among these distances:
41 2 0.01
42 177 0.96
43 5 0.03
ACGTcount: A:0.40, C:0.19, G:0.26, T:0.15
Consensus pattern (42 bp):
GAAGCTAAAGCTAAGGCTGAAGCCGAAGCTAAAGCAGAAGCT
Found at i:1978873 original size:30 final size:30
Alignment explanation
Indices: 1978839--1978908 Score: 97
Period size: 30 Copynumber: 2.3 Consensus size: 30
1978829 GGTAGAGGCA
*
1978839 GTGGTGGTGGTTACATGCATTTTGGC-GGCG
1 GTGGTGGTGGTCACATGCATTTT-GCTGGCG
* *
1978869 GTGGTGGTGGTCACATGCGTTTTGCTGGTG
1 GTGGTGGTGGTCACATGCATTTTGCTGGCG
1978899 GTGGTGGTGG
1 GTGGTGGTGG
1978909 AAGTGGTAGC
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
29 2 0.06
30 34 0.94
ACGTcount: A:0.07, C:0.11, G:0.47, T:0.34
Consensus pattern (30 bp):
GTGGTGGTGGTCACATGCATTTTGCTGGCG
Found at i:1978989 original size:30 final size:30
Alignment explanation
Indices: 1978955--1979142 Score: 162
Period size: 30 Copynumber: 6.5 Consensus size: 30
1978945 GCATGGTGGA
*
1978955 GGTGGTGGTGCTGGTCACATGCAGTTTGGT
1 GGTGGTGGTGGTGGTCACATGCAGTTTGGT
*
1978985 GGTGGTGGTGGTGGTCACATGCATTTTGGT
1 GGTGGTGGTGGTGGTCACATGCAGTTTGGT
** *
1979015 GGTGGTGGAAGTGGT---A-GCAGTAAT-GT
1 GGTGGTGGTGGTGGTCACATGCAGT-TTGGT
* * * * *
1979041 --TGATGGTGG-GG-CTAAAGGGCA-TGGTGGA
1 GGTGGTGGTGGTGGTC-ACA-TGCAGT-TTGGT
1979069 GGTGGTGGTGGTGGTCACATGCAGTTTGGT
1 GGTGGTGGTGGTGGTCACATGCAGTTTGGT
*
1979099 GGTGGTGGTGGTGGTCACATGCATTTTGGT
1 GGTGGTGGTGGTGGTCACATGCAGTTTGGT
*
1979129 GGTGGTGGCGGTGG
1 GGTGGTGGTGGTGG
1979143 AAGTGGTAGC
Statistics
Matches: 126, Mismatches: 19, Indels: 26
0.74 0.11 0.15
Matches are distributed among these distances:
23 2 0.02
24 6 0.05
26 7 0.06
27 4 0.03
28 4 0.03
30 97 0.77
31 5 0.04
32 1 0.01
ACGTcount: A:0.13, C:0.09, G:0.47, T:0.31
Consensus pattern (30 bp):
GGTGGTGGTGGTGGTCACATGCAGTTTGGT
Found at i:1978992 original size:120 final size:118
Alignment explanation
Indices: 1978780--1979197 Score: 601
Period size: 120 Copynumber: 3.5 Consensus size: 118
1978770 CTAGTGGAGA
** ** **
1978780 TGGTGGTGGAAGTGGTAGCAGTAGTGTTGATGGTGGGGCCGAAGGATATGGTAGAGGCAGTGGTG
1 TGGTGGTGGAAGTGGTAGCAGTAGTGTTGATGGTGGGGCTAAAGGGCATGGTAGAGGTGGTGGTG
* * * *
1978845 GTGGTTACATGCATTTTGGCGGCGGTGGTGGTGGTCACATGCGTTTTGCTGGTGG
66 GTGGTCACATGCAGTTTGGTGGTGGTGGTGGTGGTCACATGC-TTTTG-TGGTGG
*
1978900 TGGTGGTGGAAGTGGTAGCAGTAGTGTTGATGGTGGGGCTAAAGGGCATGGTGGAGGTGGTGGTG
1 TGGTGGTGGAAGTGGTAGCAGTAGTGTTGATGGTGGGGCTAAAGGGCATGGTAGAGGTGGTGGTG
* *
1978965 CTGGTCACATGCAGTTTGGTGGTGGTGGTGGTGGTCACATGC-ATT-T--TGG
66 GTGGTCACATGCAGTTTGGTGGTGGTGGTGGTGGTCACATGCTTTTGTGGTGG
* *
1979014 TGGTGGTGGAAGTGGTAGCAGTAATGTTGATGGTGGGGCTAAAGGGCATGGTGGAGGTGGTGGTG
1 TGGTGGTGGAAGTGGTAGCAGTAGTGTTGATGGTGGGGCTAAAGGGCATGGTAGAGGTGGTGGTG
1979079 GTGGTCACATGCAGTTTGGTGGTGGTGGTGGTGGTCACATGCATTTTGGTGGTGG
66 GTGGTCACATGCAGTTTGGTGGTGGTGGTGGTGGTCACATGC-TTTT-GTGGTGG
* ** *
1979134 TGGCGGTGGAAGTGGTAGCAGTAGTGTTGATGGTGGGGCTAAAATGCAAGGTAGAGGTGGTGGT
1 TGGTGGTGGAAGTGGTAGCAGTAGTGTTGATGGTGGGGCTAAAGGGCATGGTAGAGGTGGTGGT
1979198 CAAATGCATT
Statistics
Matches: 270, Mismatches: 22, Indels: 12
0.89 0.07 0.04
Matches are distributed among these distances:
114 108 0.40
116 3 0.01
118 3 0.01
120 156 0.58
ACGTcount: A:0.16, C:0.08, G:0.47, T:0.29
Consensus pattern (118 bp):
TGGTGGTGGAAGTGGTAGCAGTAGTGTTGATGGTGGGGCTAAAGGGCATGGTAGAGGTGGTGGTG
GTGGTCACATGCAGTTTGGTGGTGGTGGTGGTGGTCACATGCTTTTGTGGTGG
Done.