Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr11 ID=Chr11-JGI_221_v2.0
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: 62681010
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1052928 characters in sequence are not A, C, G, or T
File 20 of 210
Found at i:6815910 original size:18 final size:17
Alignment explanation
Indices: 6815882--6815928 Score: 60
Period size: 17 Copynumber: 2.7 Consensus size: 17
6815872 TCATAATAGA
6815882 TTATGAATTTTTT-AGTTT
1 TTAT-AATTTTTTAAG-TT
6815900 TTATAATTTTTTAAGTT
1 TTATAATTTTTTAAGTT
*
6815917 TTATGATTTTTT
1 TTATAATTTTTT
6815929 GAAGGATTTG
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
17 21 0.78
18 6 0.22
ACGTcount: A:0.23, C:0.00, G:0.09, T:0.68
Consensus pattern (17 bp):
TTATAATTTTTTAAGTT
Found at i:6816005 original size:18 final size:17
Alignment explanation
Indices: 6815953--6816005 Score: 52
Period size: 18 Copynumber: 2.9 Consensus size: 17
6815943 TTTAATGATT
*
6815953 TTTTTAAAACTTTTAATG
1 TTTTTAAAA-TTTTAATA
**
6815971 TTTTTAATTTTTCTAATA
1 TTTTTAAAATTT-TAATA
6815989 TTTTTAAAATTTATAAT
1 TTTTTAAAATTT-TAAT
6816006 TTCTTTTTTA
Statistics
Matches: 28, Mismatches: 6, Indels: 2
0.78 0.17 0.06
Matches are distributed among these distances:
17 3 0.11
18 25 0.89
ACGTcount: A:0.34, C:0.04, G:0.02, T:0.60
Consensus pattern (17 bp):
TTTTTAAAATTTTAATA
Found at i:6817307 original size:247 final size:247
Alignment explanation
Indices: 6816862--6817352 Score: 777
Period size: 247 Copynumber: 2.0 Consensus size: 247
6816852 AATGGCTGAC
* * *
6816862 CTCTCATCAATGTCAAGTAAGTGGTTTTGATTGTTCAAGCTTGTAAGATCTTAGGCTCTCAAGTG
1 CTCTCACCAATGTCAAGTAAGTGGTTTTGATCGTTCAAGCTTGTAAGATCTCAGGCTCTCAAGTG
* * * * *
6816927 TCTTAGCTCATAGCGTGATCTTGGTCAAAAAAGCTAACTAGCAAGGCATGAGCTCGCAAGGTGGC
66 TCTTAGCTCACAACGTAATCTTGGTCAAAAAAGCTAACCAACAAGGCATGAGCTCGCAAGGTGGC
* * * *
6816992 TCACAATTGTAACAACTCAATTTTTAGTAGTACCGAAAAAGGATATTTTTGAACCTTATTTCTGT
131 TCACAATTGTAACAACTCAATTTTTAGTAGTACCCAAAAAGGAGATTTTGGAACCTCATTTCTGT
*
6817057 AACCGAGTCCGTAAATATTAAATATGAATATTTAC-GAGGTTAATATAAAGAT
196 AACCGAGTCCATAAATATTAAATATGAATATTTACAG-GGTTAATATAAAGAT
* *
6817109 CTCTCACCTATGTCAAGTAAGTGGTTTTGATCGTTCAAGCTTGTAAGATCTCGGGCTCTCAAGTG
1 CTCTCACCAATGTCAAGTAAGTGGTTTTGATCGTTCAAGCTTGTAAGATCTCAGGCTCTCAAGTG
* *
6817174 TCTTAGCTCACAACGTAATCTTGGTCAAAAGAGCTAACCAACAAGGTATGAGCTCGCAAGGTGGC
66 TCTTAGCTCACAACGTAATCTTGGTCAAAAAAGCTAACCAACAAGGCATGAGCTCGCAAGGTGGC
* * * *
6817239 TCACAATTGTAACAGCTCGATTTTTAGTAGTACCCAAAAAGGCGATTTTGGAACCTCATTTTTGT
131 TCACAATTGTAACAACTCAATTTTTAGTAGTACCCAAAAAGGAGATTTTGGAACCTCATTTCTGT
6817304 AACCGAGTCCATAAATATTAAATATGAATATTTACAGGGTTAATATAAA
196 AACCGAGTCCATAAATATTAAATATGAATATTTACAGGGTTAATATAAA
6817353 TGTATATAGA
Statistics
Matches: 222, Mismatches: 21, Indels: 2
0.91 0.09 0.01
Matches are distributed among these distances:
247 221 1.00
248 1 0.00
ACGTcount: A:0.32, C:0.18, G:0.19, T:0.31
Consensus pattern (247 bp):
CTCTCACCAATGTCAAGTAAGTGGTTTTGATCGTTCAAGCTTGTAAGATCTCAGGCTCTCAAGTG
TCTTAGCTCACAACGTAATCTTGGTCAAAAAAGCTAACCAACAAGGCATGAGCTCGCAAGGTGGC
TCACAATTGTAACAACTCAATTTTTAGTAGTACCCAAAAAGGAGATTTTGGAACCTCATTTCTGT
AACCGAGTCCATAAATATTAAATATGAATATTTACAGGGTTAATATAAAGAT
Found at i:6826040 original size:7 final size:7
Alignment explanation
Indices: 6826028--6826059 Score: 55
Period size: 7 Copynumber: 4.6 Consensus size: 7
6826018 CAATAAATAT
6826028 AAATAGG
1 AAATAGG
6826035 AAATAGG
1 AAATAGG
6826042 AAATAGG
1 AAATAGG
*
6826049 AAATAGT
1 AAATAGG
6826056 AAAT
1 AAAT
6826060 GGATAGTACA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.59, C:0.00, G:0.22, T:0.19
Consensus pattern (7 bp):
AAATAGG
Found at i:6828113 original size:63 final size:63
Alignment explanation
Indices: 6828046--6828251 Score: 148
Period size: 63 Copynumber: 3.1 Consensus size: 63
6828036 AAATCTTGCT
6828046 AATTTACGATCAAGGCTTCAGTTAATTGATTTACGATCATAAAAACTTCATTAAGAGTTCGCC
1 AATTTACGATCAAGGCTTCAGTTAATTGATTTACGATCATAAAAACTTCATTAAGAGTTCGCC
* * * * * * *
6828109 AATTTACGATCGCAA--CTCCACTTAAATAATTCACTGATTTACTACCACAACTATCATTTTCAA
1 AATTTACGAT--CAAGGCTTCAGTTAATTGATTTAC-GA-TCA-TA--AAAACT-TCA--TT-AA
* *
6828172 -AGCTCGCT
55 GAGTTCGCC
* * ** * * *
6828180 AATTTACAATCACGGCTTCAGTTCTTTGATTTACGATCATAAACACTTTATTAAGAGTTCACC
1 AATTTACGATCAAGGCTTCAGTTAATTGATTTACGATCATAAAAACTTCATTAAGAGTTCGCC
6828243 AATTTACGA
1 AATTTACGA
6828252 GCACAACTCC
Statistics
Matches: 103, Mismatches: 26, Indels: 28
0.66 0.17 0.18
Matches are distributed among these distances:
62 2 0.02
63 39 0.38
64 2 0.02
65 7 0.07
66 6 0.06
68 7 0.07
69 7 0.07
70 2 0.02
71 29 0.28
72 2 0.02
ACGTcount: A:0.34, C:0.21, G:0.11, T:0.34
Consensus pattern (63 bp):
AATTTACGATCAAGGCTTCAGTTAATTGATTTACGATCATAAAAACTTCATTAAGAGTTCGCC
Found at i:6828114 original size:134 final size:134
Alignment explanation
Indices: 6827866--6828362 Score: 557
Period size: 134 Copynumber: 3.7 Consensus size: 134
6827856 TACAAATCTC
* * ** * *
6827866 ACAGTTCGCTGATTTACGATCACAATTGTCATTTTTTAAGCTCGCCGATTTACGAACACGGCTTA
1 ACAGTTCGCTGATTTACGATCACAACTGTCATTTTTAAAGCTCGCTAATTTACGATCACGGCTTC
* * * * *
6827931 AGTTCATTGATTTACGATCATAAACAGTACATTAAGAGTTTGTCGATTTACGGTCGCAACTCCAC
66 AGTTCATTGATTTACGATCATAAACACTTCATTAAGAGTTCGCCAATTTACGGTCGCAACTCCAC
6827996 TTAA
131 TTAA
* * * * *
6828000 ACAGGTCGCTGATTTACGATCACAATTGTCATTTTTAAATCTTGCTAATTTACGATCAAGGCTTC
1 ACAGTTCGCTGATTTACGATCACAACTGTCATTTTTAAAGCTCGCTAATTTACGATCACGGCTTC
* * *
6828065 AGTTAATTGATTTACGATCATAAAAACTTCATTAAGAGTTCGCCAATTTACGATCGCAACTCCAC
66 AGTTCATTGATTTACGATCATAAACACTTCATTAAGAGTTCGCCAATTTACGGTCGCAACTCCAC
6828130 TTAA
131 TTAA
* * * * * * * *
6828134 ATAATTCACTGATTTACTACCACAACTATCATTTTCAAAGCTCGCTAATTTACAATCACGGCTTC
1 ACAGTTCGCTGATTTACGATCACAACTGTCATTTTTAAAGCTCGCTAATTTACGATCACGGCTTC
* * * *
6828199 AGTTCTTTGATTTACGATCATAAACACTTTATTAAGAGTTCACCAATTTACGAG-CACAACTCCG
66 AGTTCATTGATTTACGATCATAAACACTTCATTAAGAGTTCGCCAATTTACG-GTCGCAACTCC-
*
6828263 A-TTAG
129 ACTTAA
* * * * * * * * * *
6828268 ACAGTTCGTTGATTTACGATCACAACTGTCATTTGTAAAACTTGTTGATTTCCAATCACGACTTT
1 ACAGTTCGCTGATTTACGATCACAACTGTCATTTTTAAAGCTCGCTAATTTACGATCACGGCTTC
* * *
6828333 AGTTCATTGATTTATGATCTTGAACACTTC
66 AGTTCATTGATTTACGATCATAAACACTTC
6828363 TTAGTTCATA
Statistics
Matches: 302, Mismatches: 59, Indels: 4
0.83 0.16 0.01
Matches are distributed among these distances:
134 301 1.00
135 1 0.00
ACGTcount: A:0.31, C:0.21, G:0.13, T:0.35
Consensus pattern (134 bp):
ACAGTTCGCTGATTTACGATCACAACTGTCATTTTTAAAGCTCGCTAATTTACGATCACGGCTTC
AGTTCATTGATTTACGATCATAAACACTTCATTAAGAGTTCGCCAATTTACGGTCGCAACTCCAC
TTAA
Found at i:6829540 original size:134 final size:134
Alignment explanation
Indices: 6829259--6829558 Score: 331
Period size: 134 Copynumber: 2.2 Consensus size: 134
6829249 TAATCAAAGA
* * * *
6829259 TTCAGTTCATTGATTTACAATCATGAAAACTTTATTATGAGTTCACTGATTTACGATCACAACTC
1 TTCAGTTCATTGATTTACGATCATGAAAACTTTATTAAGAGTTCACTGATTTACAATCACAACGC
* * *
6829324 CACTTAAACACTTCGCTGATTTACGATCACAACTTTCATTTTCAAAGCTCGATAATTTACAATAA
66 CACTTAAACAATTCACTGATTTACAATCACAACTTTCATTTTCAAAGCTCGATAATTTACAATAA
*
6829389 CGGC
131 CGAC
* * * * *
6829393 TTCAATTCTTTGATTTACGATCATGAATACTTTATTAAGAGTTC-GTCGATTTACAATCGCAACG
1 TTCAGTTCATTGATTTACGATCATGAAAACTTTATTAAGAGTTCACT-GATTTACAATCACAACG
* * *
6829457 CCGA-TTAAACAATTCACTGATTTACAATCACAA-TTGTCATCTTT-AAAGCT-TACTGATTTCC
65 CC-ACTTAAACAATTCACTGATTTACAATCACAACTT-TCAT-TTTCAAAGCTCGA-TAATTTAC
* *
6829518 AATCATGAC
126 AATAACGAC
* * *
6829527 TTTAGTTCATTGATTTACGATCTTGAACACTT
1 TTCAGTTCATTGATTTACGATCATGAAAACTT
6829559 CTCGTTTCAC
Statistics
Matches: 138, Mismatches: 23, Indels: 10
0.81 0.13 0.06
Matches are distributed among these distances:
133 4 0.03
134 130 0.94
135 4 0.03
ACGTcount: A:0.32, C:0.20, G:0.11, T:0.37
Consensus pattern (134 bp):
TTCAGTTCATTGATTTACGATCATGAAAACTTTATTAAGAGTTCACTGATTTACAATCACAACGC
CACTTAAACAATTCACTGATTTACAATCACAACTTTCATTTTCAAAGCTCGATAATTTACAATAA
CGAC
Found at i:6830598 original size:19 final size:18
Alignment explanation
Indices: 6830574--6830626 Score: 65
Period size: 18 Copynumber: 2.9 Consensus size: 18
6830564 GTGTTTTAAT
6830574 ATAATTTTTAATATTTTTA
1 ATAATTTTT-ATATTTTTA
*
6830593 ATAATTTATATATTTTTA
1 ATAATTTTTATATTTTTA
6830611 A-AGATTTTT-TATTTTT
1 ATA-ATTTTTATATTTTT
6830627 TAGAATTACT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
17 8 0.26
18 15 0.48
19 8 0.26
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (18 bp):
ATAATTTTTATATTTTTA
Found at i:6834759 original size:16 final size:16
Alignment explanation
Indices: 6834738--6834771 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
6834728 CTCTAAAAAA
* *
6834738 TTTTAAAATATTATTT
1 TTTTAAAAAATCATTT
6834754 TTTTAAAAAATCATTT
1 TTTTAAAAAATCATTT
6834770 TT
1 TT
6834772 AACCATTTAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (16 bp):
TTTTAAAAAATCATTT
Found at i:6836224 original size:25 final size:26
Alignment explanation
Indices: 6836179--6836238 Score: 72
Period size: 25 Copynumber: 2.3 Consensus size: 26
6836169 ACACCCATTC
6836179 CATATGCATAACACACAAGTCATAAG
1 CATATGCATAACACACAAGTCATAAG
*
6836205 CATAT-CATACCAC-CATAGTCATAAG
1 CATATGCATAACACACA-AGTCATAAG
6836230 C-TAGTGCAT
1 CATA-TGCAT
6836239 GCAAACATAG
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
24 4 0.13
25 18 0.60
26 8 0.27
ACGTcount: A:0.40, C:0.25, G:0.12, T:0.23
Consensus pattern (26 bp):
CATATGCATAACACACAAGTCATAAG
Found at i:6839427 original size:2 final size:2
Alignment explanation
Indices: 6839420--6839453 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
6839410 CAACATATTG
*
6839420 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AC AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
6839454 CATAATACAT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:6839605 original size:21 final size:21
Alignment explanation
Indices: 6839576--6839810 Score: 161
Period size: 21 Copynumber: 11.2 Consensus size: 21
6839566 AAAGCTCGAA
*
6839576 AGCTGAACAGAAGCTCATGAG
1 AGCTGAACAGAAGCTCATAAG
* *
6839597 AGCTAAACAGAAAC-CTATAA-
1 AGCTGAACAGAAGCTC-ATAAG
* * *
6839617 AGGTTGAACAGAAGCTCTTAAA
1 A-GCTGAACAGAAGCTCATAAG
* * *
6839639 AGCTTAAC-GAAAACCCATAAG
1 AGCTGAACAG-AAGCTCATAAG
* * *
6839660 GGCTAAACAGAAGCTCAAAAG
1 AGCTGAACAGAAGCTCATAAG
** * *
6839681 AGCTGAATGGAAACTCATATG
1 AGCTGAACAGAAGCTCATAAG
* *
6839702 AGTTAAACAGAAGCTCATAAG
1 AGCTGAACAGAAGCTCATAAG
* *
6839723 AGATGAACAGAAACTCATAAG
1 AGCTGAACAGAAGCTCATAAG
* *
6839744 AGTTGAACAGAAGCTCAAAAG
1 AGCTGAACAGAAGCTCATAAG
** * *
6839765 AGCTGAATGGAAACTCATATG
1 AGCTGAACAGAAGCTCATAAG
* * *
6839786 AGTTAAACAGAAGCTCGTAAG
1 AGCTGAACAGAAGCTCATAAG
6839807 AGCT
1 AGCT
6839811 AAACGGAAAG
Statistics
Matches: 157, Mismatches: 51, Indels: 12
0.71 0.23 0.05
Matches are distributed among these distances:
20 3 0.02
21 151 0.96
22 3 0.02
ACGTcount: A:0.45, C:0.17, G:0.21, T:0.17
Consensus pattern (21 bp):
AGCTGAACAGAAGCTCATAAG
Found at i:6839742 original size:84 final size:84
Alignment explanation
Indices: 6839623--6839808 Score: 275
Period size: 84 Copynumber: 2.2 Consensus size: 84
6839613 ATAAAGGTTG
* * * * *
6839623 AACAGAAGCTCTTAAAAGCTTAACGAAAACCCATAAGGGCTAAACAGAAGCTCAAAAGAGCTGAA
1 AACAGAAGCTCATAAGAGATGAACGAAAACCCATAAGAGCTAAACAGAAGCTCAAAAGAGCTGAA
6839688 TGGAAACTCATATGAGTTA
66 TGGAAACTCATATGAGTTA
* * *
6839707 AACAGAAGCTCATAAGAGATGAAC-AGAAACTCATAAGAGTTGAACAGAAGCTCAAAAGAGCTGA
1 AACAGAAGCTCATAAGAGATGAACGA-AAACCCATAAGAGCTAAACAGAAGCTCAAAAGAGCTGA
6839771 ATGGAAACTCATATGAGTTA
65 ATGGAAACTCATATGAGTTA
*
6839791 AACAGAAGCTCGTAAGAG
1 AACAGAAGCTCATAAGAG
6839809 CTAAACGGAA
Statistics
Matches: 92, Mismatches: 9, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
83 1 0.01
84 91 0.99
ACGTcount: A:0.46, C:0.16, G:0.21, T:0.17
Consensus pattern (84 bp):
AACAGAAGCTCATAAGAGATGAACGAAAACCCATAAGAGCTAAACAGAAGCTCAAAAGAGCTGAA
TGGAAACTCATATGAGTTA
Found at i:6839778 original size:42 final size:42
Alignment explanation
Indices: 6839581--6839819 Score: 232
Period size: 42 Copynumber: 5.7 Consensus size: 42
6839571 TCGAAAGCTG
** * * *
6839581 AACAGAAGCTCATGAGAGCTAAACAGAAAC-CTATAA-AGGTTG
1 AACAGAAGCTCAAAAGAGCTGAACGGAAACTC-ATAAGA-GTTA
* * * * * *
6839623 AACAGAAGCTCTTAAA-AGCTTAACGAAAACCCATAAGGGCTA
1 AACAGAAGCTC-AAAAGAGCTGAACGGAAACTCATAAGAGTTA
* *
6839665 AACAGAAGCTCAAAAGAGCTGAATGGAAACTCATATGAGTTA
1 AACAGAAGCTCAAAAGAGCTGAACGGAAACTCATAAGAGTTA
* * * *
6839707 AACAGAAGCTCATAAGAGATGAACAGAAACTCATAAGAGTTG
1 AACAGAAGCTCAAAAGAGCTGAACGGAAACTCATAAGAGTTA
* *
6839749 AACAGAAGCTCAAAAGAGCTGAATGGAAACTCATATGAGTTA
1 AACAGAAGCTCAAAAGAGCTGAACGGAAACTCATAAGAGTTA
** *
6839791 AACAGAAGCTCGTAAGAGCTAAACGGAAA
1 AACAGAAGCTCAAAAGAGCTGAACGGAAA
6839820 GTAAAACACG
Statistics
Matches: 160, Mismatches: 33, Indels: 8
0.80 0.16 0.04
Matches are distributed among these distances:
41 3 0.02
42 155 0.97
43 2 0.01
ACGTcount: A:0.46, C:0.16, G:0.21, T:0.17
Consensus pattern (42 bp):
AACAGAAGCTCAAAAGAGCTGAACGGAAACTCATAAGAGTTA
Found at i:6843130 original size:2 final size:2
Alignment explanation
Indices: 6843123--6843150 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
6843113 GCTTATTATG
6843123 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
6843151 GGTTTTATGT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:6843532 original size:22 final size:21
Alignment explanation
Indices: 6843499--6843541 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
6843489 TAATTATCAT
*
6843499 TTTATCTAATAAATTATTTAAA
1 TTTATCTAAT-AATTAATTAAA
6843521 TTTAT-TATATAATTAATTAAA
1 TTTATCTA-ATAATTAATTAAA
6843542 ATATTTATAA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
21 12 0.63
22 7 0.37
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (21 bp):
TTTATCTAATAATTAATTAAA
Found at i:6857021 original size:16 final size:16
Alignment explanation
Indices: 6857000--6857051 Score: 54
Period size: 14 Copynumber: 3.3 Consensus size: 16
6856990 TTCATGTTTT
6857000 TGTTTTCAAATATGAA
1 TGTTTTCAAATATGAA
** *
6857016 TGTTTTTCATGTAT--T
1 TG-TTTTCAAATATGAA
6857031 TGTTTTCAAATATGAA
1 TGTTTTCAAATATGAA
6857047 TGTTT
1 TGTTT
6857052 GATGCTTTAT
Statistics
Matches: 27, Mismatches: 6, Indels: 6
0.69 0.15 0.15
Matches are distributed among these distances:
14 9 0.33
15 2 0.07
16 7 0.26
17 9 0.33
ACGTcount: A:0.27, C:0.06, G:0.13, T:0.54
Consensus pattern (16 bp):
TGTTTTCAAATATGAA
Found at i:6857022 original size:31 final size:31
Alignment explanation
Indices: 6856987--6857051 Score: 121
Period size: 31 Copynumber: 2.1 Consensus size: 31
6856977 CAGTCAACAA
*
6856987 TTTTTCATGTTTTTGTTTTCAAATATGAATG
1 TTTTTCATGTATTTGTTTTCAAATATGAATG
6857018 TTTTTCATGTATTTGTTTTCAAATATGAATG
1 TTTTTCATGTATTTGTTTTCAAATATGAATG
6857049 TTT
1 TTT
6857052 GATGCTTTAT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.23, C:0.06, G:0.12, T:0.58
Consensus pattern (31 bp):
TTTTTCATGTATTTGTTTTCAAATATGAATG
Found at i:6858968 original size:28 final size:29
Alignment explanation
Indices: 6858937--6859004 Score: 93
Period size: 28 Copynumber: 2.4 Consensus size: 29
6858927 TATTTGTGCA
6858937 TTTTTATTATTATCATTATTTT-TTATTT
1 TTTTTATTATTATCATTATTTTGTTATTT
* * *
6858965 TTTTTATTATTCTCGTTGTTTTGTTATTT
1 TTTTTATTATTATCATTATTTTGTTATTT
*
6858994 CTTTTATTATT
1 TTTTTATTATT
6859005 TTTAATATCT
Statistics
Matches: 35, Mismatches: 4, Indels: 1
0.88 0.10 0.03
Matches are distributed among these distances:
28 19 0.54
29 16 0.46
ACGTcount: A:0.16, C:0.06, G:0.04, T:0.74
Consensus pattern (29 bp):
TTTTTATTATTATCATTATTTTGTTATTT
Found at i:6862342 original size:3 final size:3
Alignment explanation
Indices: 6862320--6862396 Score: 99
Period size: 3 Copynumber: 26.7 Consensus size: 3
6862310 ATATAATGAG
* *
6862320 AAT AAC AAT GAT ATAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
6862366 AAT -AT AAT -AT AAT -AT AAT AAT -AT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
6862397 CAACATCAAA
Statistics
Matches: 65, Mismatches: 4, Indels: 10
0.82 0.05 0.13
Matches are distributed among these distances:
2 8 0.12
3 54 0.83
4 3 0.05
ACGTcount: A:0.64, C:0.01, G:0.01, T:0.34
Consensus pattern (3 bp):
AAT
Found at i:6864205 original size:44 final size:44
Alignment explanation
Indices: 6864142--6864796 Score: 330
Period size: 44 Copynumber: 14.9 Consensus size: 44
6864132 AGGATAGTGT
* * * *
6864142 CTTCGATCTGCTCCGCTGTAATCTCAGGGGGATAAGATCTTTGG
1 CTTCAATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTTTGG
*
6864186 CTTCAATCTGTTCCACTGTAACCTCAGGGAGATAAGATCTGAAATT--
1 CTTCAATCTGCTCCACTGTAACCTCAGGGAGATAAGATCT----TTGG
** * *
6864232 CTTCGGTCTACTCCACTGTAACCTCAGGGAGATAAGA-C-CT-G
1 CTTCAATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTTTGG
* * * * * * * * *
6864273 ATGCGATCTACTCTACTGTAACTTCAGAGAGATGAGATCCTTT-A
1 CTTCAATCTGCTCCACTGTAACCTCAGGGAGATAAGAT-CTTTGG
* * * * * * *
6864317 TTTTAATCCGCTCCACTGTAACTTCAGGGAGATAGGAT-TACTAG
1 CTTCAATCTGCTCCACTGTAACCTCAGGGAGATAAGATCT-TTGG
* *
6864361 CTCCAATCTGCTCCACTGTAACCTCAGGGAGATAAAATCTGAAATT--
1 CTTCAATCTGCTCCACTGTAACCTCAGGGAGATAAGATCT----TTGG
** *
6864407 CTTCGGTCTACTCCACTGTAACCTCAGGGAGATAAGA-C-TT-G
1 CTTCAATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTTTGG
* * *
6864448 CATATTCAACCTGCTCCACTGTAACTTCAGGGAGATAAGGT-TTGTGG
1 C---TTCAATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTT-TGG
* * *
6864495 CTTCGATCTGCTCCTCTGTAATCTCAGGGAGATAAGATCTGAAATT--
1 CTTCAATCTGCTCCACTGTAACCTCAGGGAGATAAGATCT----TTGG
* ** *
6864541 TTTCGGTCTACTCCACTGTAACCTCAGGGAGATAAGA-C-TT-G
1 CTTCAATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTTTGG
* * * *
6864582 CATATTCAACCTGCCCCACTGTAACTTCAGGGAGATAAG--GTTT-G
1 C---TTCAATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTTTGG
* * * * * * * * *
6864626 ATGCGATCTACTCCGCTGTAACTTCAGAGAGATAGGATCCTTT-A
1 CTTCAATCTGCTCCACTGTAACCTCAGGGAGATAAGAT-CTTTGG
* * * * * * ** *
6864670 TTTTAACCCGCTCCACTATAACTTCAGGGAGATAAGAT-AGTGT
1 CTTCAATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTTTGG
** * * * *
6864713 AATCGATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTCTGG
1 CTTCAATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTTTGG
*
6864757 CGTCAATCTGCTCCACTGTAACCTCAGGGAGATAAGATCT
1 CTTCAATCTGCTCCACTGTAACCTCAGGGAGATAAGATCT
6864797 GAAATATTCA
Statistics
Matches: 462, Mismatches: 112, Indels: 74
0.71 0.17 0.11
Matches are distributed among these distances:
40 5 0.01
41 58 0.13
42 2 0.00
43 30 0.06
44 255 0.55
45 6 0.01
46 98 0.21
47 2 0.00
48 5 0.01
49 1 0.00
ACGTcount: A:0.27, C:0.24, G:0.21, T:0.29
Consensus pattern (44 bp):
CTTCAATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTTTGG
Found at i:6864260 original size:90 final size:87
Alignment explanation
Indices: 6864141--6864577 Score: 328
Period size: 90 Copynumber: 4.9 Consensus size: 87
6864131 TAGGATAGTG
* * * * * *
6864141 TCTTCGATCTGCTCCGCTGTAATCTCAGGGGGATAAGATCTTTGGCTTCAATCTGTTCCACTGTA
1 TCTTCGATCTACTCCACTGTAACCTCAGGGAGATAAGA-C-CT-GCTTCAATCTGCTCCACTGTA
6864206 ACCTCAGGGAGATAAGATCTGAAAT
63 ACCTCAGGGAGATAAGATCTGAAAT
* * * * * * *
6864231 TCTTCGGTCTACTCCACTGTAACCTCAGGGAGATAAGACCTGATGCGATCTACTCTACTGTAACT
1 TCTTCGATCTACTCCACTGTAACCTCAGGGAGATAAGACCTGCTTCAATCTGCTCCACTGTAACC
* * **
6864296 TCAGAGAGATGAGATCCT-TTAT
66 TCAGGGAGATAAGAT-CTGAAAT
* ** * * * *
6864318 T-TT-AATCCGCTCCACTGTAACTTCAGGGAGATAGGATTACTAGCTCCAATCTGCTCCACTGTA
1 TCTTCGATCTACTCCACTGTAACCTCAGGGAGATAAGA--CCT-GCTTCAATCTGCTCCACTGTA
*
6864381 ACCTCAGGGAGATAAAATCTGAAAT
63 ACCTCAGGGAGATAAGATCTGAAAT
* * *
6864406 TCTTCGGTCTACTCCACTGTAACCTCAGGGAGATAAGACTTGCATATTCAACCTGCTCCACTGTA
1 TCTTCGATCTACTCCACTGTAACCTCAGGGAGATAAGACCTGC---TTCAATCTGCTCCACTGTA
* * *
6864471 ACTTCAGGGAGATAAGGTTTG---T
63 ACCTCAGGGAGATAAGATCTGAAAT
* * * * * * ** *
6864493 GGCTTCGATCTGCTCCTCTGTAATCTCAGGGAGATAAGATCTGAAATTTTTCGGTCTACTCCACT
1 -TCTTCGATCTACTCCACTGTAACCTCAGGGAGATAAGACCTG-----CTTCAATCTGCTCCACT
6864558 GTAACCTCAGGGAGATAAGA
60 GTAACCTCAGGGAGATAAGA
6864578 CTTGCATATT
Statistics
Matches: 268, Mismatches: 63, Indels: 32
0.74 0.17 0.09
Matches are distributed among these distances:
85 27 0.10
86 2 0.01
87 40 0.15
88 72 0.27
89 3 0.01
90 124 0.46
ACGTcount: A:0.27, C:0.23, G:0.21, T:0.30
Consensus pattern (87 bp):
TCTTCGATCTACTCCACTGTAACCTCAGGGAGATAAGACCTGCTTCAATCTGCTCCACTGTAACC
TCAGGGAGATAAGATCTGAAAT
Found at i:6864313 original size:218 final size:218
Alignment explanation
Indices: 6864039--6864443 Score: 546
Period size: 218 Copynumber: 1.8 Consensus size: 218
6864029 ACTACTACTT
* * * *
6864039 AGGGAGATTATACTTGATACGATCTACTCTACTGCAACTTTAGAGAGATAAGATCCTTTATTTTA
1 AGGGAGATAAGACCTGATACGATCTACTCTACTGCAACTTCAGAGAGATAAGATCCTTTATTTTA
* * * * * *
6864104 ATCCGCTTCACTATAACTTCAGAGAGATAGGA-TAGT-GTCTTCGATCTGCTCCGCTGTAATCTC
66 ATCCGCTCCACTATAACTTCAGAGAGATAGGATTACTAG-CTCCAATCTGCTCCACTGTAACCTC
* * **
6864167 AGGGGGATAAGATCT-TTGGCTTCAATCTGTTCCACTGTAACCTCAGGGAGATAAGATCTGAAAT
130 AGGGAGATAAAATCTATT--CTTCAATCTACTCCACTGTAACCTCAGGGAGATAAGATCTGAAAT
6864231 TCTTCGGTCTACTCCACTGTAACCTC
193 TCTTCGGTCTACTCCACTGTAACCTC
* * *
6864257 AGGGAGATAAGACCTGATGCGATCTACTCTACTGTAACTTCAGAGAGATGAGATCCTTTATTTTA
1 AGGGAGATAAGACCTGATACGATCTACTCTACTGCAACTTCAGAGAGATAAGATCCTTTATTTTA
* *
6864322 ATCCGCTCCACTGTAACTTCAGGGAGATAGGATTACTAGCTCCAATCTGCTCCACTGTAACCTCA
66 ATCCGCTCCACTATAACTTCAGAGAGATAGGATTACTAGCTCCAATCTGCTCCACTGTAACCTCA
**
6864387 GGGAGATAAAATCTGAAATTCTTCGGTCTACTCCACTGTAACCTCAGGGAGATAAGA
131 GGGAGATAAAATCT---ATTCTTCAATCTACTCCACTGTAACCTCAGGGAGATAAGA
6864444 CTTGCATATT
Statistics
Matches: 160, Mismatches: 21, Indels: 9
0.84 0.11 0.05
Matches are distributed among these distances:
218 87 0.54
219 37 0.23
220 1 0.01
221 33 0.21
223 2 0.01
ACGTcount: A:0.28, C:0.22, G:0.20, T:0.30
Consensus pattern (218 bp):
AGGGAGATAAGACCTGATACGATCTACTCTACTGCAACTTCAGAGAGATAAGATCCTTTATTTTA
ATCCGCTCCACTATAACTTCAGAGAGATAGGATTACTAGCTCCAATCTGCTCCACTGTAACCTCA
GGGAGATAAAATCTATTCTTCAATCTACTCCACTGTAACCTCAGGGAGATAAGATCTGAAATTCT
TCGGTCTACTCCACTGTAACCTC
Found at i:6864624 original size:134 final size:134
Alignment explanation
Indices: 6864329--6864625 Score: 488
Period size: 134 Copynumber: 2.2 Consensus size: 134
6864319 TTAATCCGCT
**
6864329 CCACTGTAACTTCAGGGAGAT-AGGATTACTAGCTCCAATCTGCTCCACTGTAACCTCAGGGAGA
1 CCACTGTAACTTCAGGGAGATAAGG-TTTGTAGCTCCAATCTGCTCCACTGTAACCTCAGGGAGA
6864393 TAAAATCTGAAATTCTTCGGTCTACTCCACTGTAACCTCAGGGAGATAAGACTTGCATATTCAAC
65 TAAAATCTGAAATTCTTCGGTCTACTCCACTGTAACCTCAGGGAGATAAGACTTGCATATTCAAC
*
6864458 CTGCT
130 CTGCC
* * * * *
6864463 CCACTGTAACTTCAGGGAGATAAGGTTTGTGGCTTCGATCTGCTCCTCTGTAATCTCAGGGAGAT
1 CCACTGTAACTTCAGGGAGATAAGGTTTGTAGCTCCAATCTGCTCCACTGTAACCTCAGGGAGAT
* *
6864528 AAGATCTGAAATTTTTCGGTCTACTCCACTGTAACCTCAGGGAGATAAGACTTGCATATTCAACC
66 AAAATCTGAAATTCTTCGGTCTACTCCACTGTAACCTCAGGGAGATAAGACTTGCATATTCAACC
6864593 TGCC
131 TGCC
6864597 CCACTGTAACTTCAGGGAGATAAGGTTTG
1 CCACTGTAACTTCAGGGAGATAAGGTTTG
6864626 ATGCGATCTA
Statistics
Matches: 152, Mismatches: 10, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
134 149 0.98
135 3 0.02
ACGTcount: A:0.27, C:0.24, G:0.21, T:0.28
Consensus pattern (134 bp):
CCACTGTAACTTCAGGGAGATAAGGTTTGTAGCTCCAATCTGCTCCACTGTAACCTCAGGGAGAT
AAAATCTGAAATTCTTCGGTCTACTCCACTGTAACCTCAGGGAGATAAGACTTGCATATTCAACC
TGCC
Found at i:6864708 original size:134 final size:130
Alignment explanation
Indices: 6864329--6864801 Score: 381
Period size: 134 Copynumber: 3.6 Consensus size: 130
6864319 TTAATCCGCT
** * * * * * *
6864329 CCACTGTAACTTCAGGGAGAT-AGGATTACTAGCTCCAATCTGCTCCACTGTAACCTCAGGGAGA
1 CCACTGTAACTTCAGGGAGATAAGG-TTTGT-GGT-CGATCTACTCCGCTGTAATCTCAGAGAGA
* * *
6864393 TAAAATCTGAAATTCTT-CGGTCTACTCCACTGTAACCTCAGGGAGATAAGACTTGCATATTCAA
63 TAAGATCTGAAATT-TTAC-G-CCACTCCACTATAACCTCAGGGAGATAAGACTTGCATATTCAA
*
6864457 CCTGCT
125 CCTGCC
* * *
6864463 CCACTGTAACTTCAGGGAGATAAGGTTTGTGGCTTCGATCTGCTCCTCTGTAATCTCAGGGAGAT
1 CCACTGTAACTTCAGGGAGATAAGGTTTGTGG--TCGATCTACTCCGCTGTAATCTCAGAGAGAT
* * *
6864528 AAGATCTGAAATTTTTCGGTCTACTCCACTGTAACCTCAGGGAGATAAGACTTGCATATTCAACC
64 AAGATCTGAAATTTTAC-G-CCACTCCACTATAACCTCAGGGAGATAAGACTTGCATATTCAACC
6864593 TGCC
127 TGCC
6864597 CCACTGTAACTTCAGGGAGATAAGGTTTGAT-G-CGATCTACTCCGCTGTAA-CTTCAGAGAGAT
1 CCACTGTAACTTCAGGGAGATAAGGTTTG-TGGTCGATCTACTCCGCTGTAATC-TCAGAGAGAT
* ** * * * ** * * *
6864659 AGGATCCT-TTATTTTAAC-CCGCTCCACTATAACTTCAGGGAGATAAGA-TAGTGTAATCGATC
64 AAGAT-CTGAAATTTT-ACGCCACTCCACTATAACCTCAGGGAGATAAGACTTGCATATTCAACC
*
6864721 TGCT
127 TGCC
* * * * * * *
6864725 CCGCTGTAA-TCTCAGGGAGATAAGATCTCTG-GCGTCAATCTGCTCCACTGTAACCTCAGGGAG
1 CCACTGTAACT-TCAGGGAGATAAGGT-T-TGTG-GTCGATCTACTCCGCTGTAATCTCAGAGAG
6864788 ATAAGATCTGAAAT
62 ATAAGATCTGAAAT
6864802 ATTCACTGAT
Statistics
Matches: 288, Mismatches: 35, Indels: 35
0.80 0.10 0.10
Matches are distributed among these distances:
127 1 0.00
128 33 0.11
129 27 0.09
130 6 0.02
131 64 0.22
132 4 0.01
133 3 0.01
134 145 0.50
135 5 0.02
ACGTcount: A:0.28, C:0.23, G:0.21, T:0.28
Consensus pattern (130 bp):
CCACTGTAACTTCAGGGAGATAAGGTTTGTGGTCGATCTACTCCGCTGTAATCTCAGAGAGATAA
GATCTGAAATTTTACGCCACTCCACTATAACCTCAGGGAGATAAGACTTGCATATTCAACCTGCC
Found at i:6865892 original size:7 final size:7
Alignment explanation
Indices: 6865880--6865939 Score: 81
Period size: 7 Copynumber: 9.0 Consensus size: 7
6865870 TTAGCCTCTC
6865880 CATTTTT
1 CATTTTT
6865887 CA-TTTT
1 CATTTTT
6865893 CATTTTT
1 CATTTTT
*
6865900 CA-TTCT
1 CATTTTT
6865906 CATTTTT
1 CATTTTT
6865913 CATTTTT
1 CATTTTT
*
6865920 CA-TTCT
1 CATTTTT
6865926 CATTTTT
1 CATTTTT
6865933 CATTTTT
1 CATTTTT
6865940 TTGACTCAGA
Statistics
Matches: 46, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
6 16 0.35
7 30 0.65
ACGTcount: A:0.15, C:0.18, G:0.00, T:0.67
Consensus pattern (7 bp):
CATTTTT
Found at i:6865898 original size:13 final size:14
Alignment explanation
Indices: 6865880--6865939 Score: 81
Period size: 13 Copynumber: 4.5 Consensus size: 14
6865870 TTAGCCTCTC
6865880 CATTTTTCA-TTTT
1 CATTTTTCATTTTT
*
6865893 CATTTTTCA-TTCT
1 CATTTTTCATTTTT
6865906 CATTTTTCATTTTT
1 CATTTTTCATTTTT
*
6865920 CA-TTCTCATTTTT
1 CATTTTTCATTTTT
6865933 CATTTTT
1 CATTTTT
6865940 TTGACTCAGA
Statistics
Matches: 41, Mismatches: 4, Indels: 3
0.85 0.08 0.06
Matches are distributed among these distances:
13 33 0.80
14 8 0.20
ACGTcount: A:0.15, C:0.18, G:0.00, T:0.67
Consensus pattern (14 bp):
CATTTTTCATTTTT
Found at i:6865903 original size:20 final size:20
Alignment explanation
Indices: 6865889--6865939 Score: 102
Period size: 20 Copynumber: 2.5 Consensus size: 20
6865879 CCATTTTTCA
6865889 TTTTCATTTTTCATTCTCAT
1 TTTTCATTTTTCATTCTCAT
6865909 TTTTCATTTTTCATTCTCAT
1 TTTTCATTTTTCATTCTCAT
6865929 TTTTCATTTTT
1 TTTTCATTTTT
6865940 TTGACTCAGA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.14, C:0.18, G:0.00, T:0.69
Consensus pattern (20 bp):
TTTTCATTTTTCATTCTCAT
Found at i:6866902 original size:6 final size:6
Alignment explanation
Indices: 6866870--6866986 Score: 65
Period size: 6 Copynumber: 18.8 Consensus size: 6
6866860 TCTTTTTCTC
* * * * * * *
6866870 ATTTTC ATTTTC ATTTTG ATCTTG ATTTTG ATTTT- TTTCTTC TTTCTTC
1 ATTTTG ATTTTG ATTTTG ATTTTG ATTTTG ATTTTG ATT-TTG ATT-TTG
* * * * *
6866919 TTTTTG TTTTTT ATTTTG ATTTTTG ATTTTTG ATTTTTT ATTTTC ATTTTG
1 ATTTTG ATTTTG ATTTTG A-TTTTG A-TTTTG A-TTTTG ATTTTG ATTTTG
*
6866970 ACTTTG ATTTTG ATTTT
1 ATTTTG ATTTTG ATTTT
6866987 TTCTTTTTCT
Statistics
Matches: 95, Mismatches: 13, Indels: 6
0.83 0.11 0.05
Matches are distributed among these distances:
5 2 0.02
6 64 0.67
7 29 0.31
ACGTcount: A:0.13, C:0.08, G:0.09, T:0.71
Consensus pattern (6 bp):
ATTTTG
Found at i:6866917 original size:25 final size:26
Alignment explanation
Indices: 6866889--6866980 Score: 75
Period size: 25 Copynumber: 3.6 Consensus size: 26
6866879 TTCATTTTGA
6866889 TCTTGATTTTGATTTTTT-TCTTCTT
1 TCTTGATTTTGATTTTTTATCTTCTT
** * *
6866914 TCTTCTTTTTG-TTTTTTATTTTGATT
1 TCTTGATTTTGATTTTTTATCTT-CTT
* *
6866940 T-TTGATTTTTGATTTTTTATTTTCAT
1 TCTTGA-TTTTGATTTTTTATCTTCTT
*
6866966 T-TTGACTTTGATTTT
1 TCTTGATTTTGATTTT
6866981 GATTTTTTCT
Statistics
Matches: 54, Mismatches: 9, Indels: 8
0.76 0.13 0.11
Matches are distributed among these distances:
24 6 0.11
25 23 0.43
26 14 0.26
27 11 0.20
ACGTcount: A:0.11, C:0.08, G:0.09, T:0.73
Consensus pattern (26 bp):
TCTTGATTTTGATTTTTTATCTTCTT
Found at i:6871274 original size:11 final size:10
Alignment explanation
Indices: 6871258--6871301 Score: 58
Period size: 10 Copynumber: 4.6 Consensus size: 10
6871248 CACAAATACG
6871258 TATAAATATTA
1 TATAAATA-TA
6871269 TATAAATATA
1 TATAAATATA
6871279 TAT--ATATA
1 TATAAATATA
6871287 TA-AAATATA
1 TATAAATATA
6871296 TATAAA
1 TATAAA
6871302 AATGTGCATG
Statistics
Matches: 30, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
8 7 0.23
9 7 0.23
10 8 0.27
11 8 0.27
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (10 bp):
TATAAATATA
Found at i:6871283 original size:17 final size:17
Alignment explanation
Indices: 6871258--6871298 Score: 59
Period size: 16 Copynumber: 2.5 Consensus size: 17
6871248 CACAAATACG
*
6871258 TATAAATATTATATAAA
1 TATATATATTATATAAA
6871275 TATATATA-TATATAAA
1 TATATATATTATATAAA
6871291 -ATATATAT
1 TATATATAT
6871299 AAAAATGTGC
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
15 7 0.32
16 8 0.36
17 7 0.32
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (17 bp):
TATATATATTATATAAA
Found at i:6871299 original size:17 final size:16
Alignment explanation
Indices: 6871263--6871299 Score: 60
Period size: 15 Copynumber: 2.4 Consensus size: 16
6871253 ATACGTATAA
6871263 ATAT-TATATAAATAT
1 ATATATATATAAATAT
6871278 ATATATATATAAA-AT
1 ATATATATATAAATAT
6871293 ATATATA
1 ATATATA
6871300 AAAATGTGCA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
15 13 0.62
16 8 0.38
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (16 bp):
ATATATATATAAATAT
Found at i:6871446 original size:16 final size:16
Alignment explanation
Indices: 6871425--6871460 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
6871415 AAATGGAAAG
*
6871425 TATATATATATACATA
1 TATATAGATATACATA
6871441 TATATAGATATACATA
1 TATATAGATATACATA
6871457 TATA
1 TATA
6871461 AAAAAGGTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.50, C:0.06, G:0.03, T:0.42
Consensus pattern (16 bp):
TATATAGATATACATA
Found at i:6871638 original size:3 final size:3
Alignment explanation
Indices: 6871616--6871688 Score: 92
Period size: 3 Copynumber: 23.7 Consensus size: 3
6871606 ATATAATGAG
* *
6871616 AAT AAC AAT GAT ATAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
**
6871662 AAT AAT AAT AATT GGT AAT AAT AAT AA
1 AAT AAT AAT AA-T AAT AAT AAT AAT AA
6871689 CAACATCAAA
Statistics
Matches: 60, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
3 56 0.93
4 4 0.07
ACGTcount: A:0.62, C:0.01, G:0.04, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:6874769 original size:18 final size:18
Alignment explanation
Indices: 6874746--6874782 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
6874736 TCAATCTAAA
*
6874746 ACCAAACCAAGGCATACC
1 ACCAAACCAACGCATACC
6874764 ACCAAACCAACGCATACC
1 ACCAAACCAACGCATACC
6874782 A
1 A
6874783 AAGTATCATT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.46, C:0.41, G:0.08, T:0.05
Consensus pattern (18 bp):
ACCAAACCAACGCATACC
Found at i:6875852 original size:42 final size:41
Alignment explanation
Indices: 6875791--6875954 Score: 156
Period size: 42 Copynumber: 3.9 Consensus size: 41
6875781 AACTCGCACA
* * *
6875791 ATGCCATAT-CCCAGATATGGTCGTACATGCTATCACATATCG
1 ATGCCA-ATGCCCAGCTATGGTCTTACATG-AATCACATATCG
* *
6875833 ATGCCAATAG-CCAGCTATGGTCTTACACGAATCTCATATCG
1 ATGCCAAT-GCCCAGCTATGGTCTTACATGAATCACATATCG
* *
6875874 ATGCCAATGTCCCAGAC-ATGGTCTTCCATGAATCACATAACG
1 ATGCCAATG-CCCAG-CTATGGTCTTACATGAATCACATATCG
*
6875916 ATGCCAATGTCCCAGAC-ATGGTCTTACACGTAATCACAT
1 ATGCCAATG-CCCAG-CTATGGTCTTACATG-AATCACAT
6875955 CTCAGTATCC
Statistics
Matches: 105, Mismatches: 11, Indels: 11
0.83 0.09 0.09
Matches are distributed among these distances:
40 1 0.01
41 20 0.19
42 75 0.71
43 9 0.09
ACGTcount: A:0.30, C:0.27, G:0.16, T:0.26
Consensus pattern (41 bp):
ATGCCAATGCCCAGCTATGGTCTTACATGAATCACATATCG
Found at i:6875943 original size:84 final size:84
Alignment explanation
Indices: 6875791--6875950 Score: 202
Period size: 84 Copynumber: 1.9 Consensus size: 84
6875781 AACTCGCACA
* * *
6875791 ATGCCATATCCCAGATATGGTCGTACATGCTATCACATATCGATGCCAATAGCCAGCTATGGTCT
1 ATGCCATATCCCAGACATGGTCGTACATGCAATCACATAACGATGCCAATAGCCAGCTATGGTCT
6875856 TACACG-AATCTCATATCG
66 TACACGTAATCTCATATCG
* * *
6875874 ATGCCAATGTCCCAGACATGGTCTTCCATG-AATCACATAACGATGCCAAT-GTCCCAGAC-ATG
1 ATGCC-ATATCCCAGACATGGTCGTACATGCAATCACATAACGATGCCAATAG--CCAG-CTATG
6875936 GTCTTACACGTAATC
62 GTCTTACACGTAATC
6875951 ACATCTCAGT
Statistics
Matches: 66, Mismatches: 6, Indels: 8
0.82 0.08 0.10
Matches are distributed among these distances:
82 1 0.02
83 23 0.35
84 37 0.56
85 5 0.08
ACGTcount: A:0.29, C:0.28, G:0.17, T:0.26
Consensus pattern (84 bp):
ATGCCATATCCCAGACATGGTCGTACATGCAATCACATAACGATGCCAATAGCCAGCTATGGTCT
TACACGTAATCTCATATCG
Found at i:6882245 original size:46 final size:45
Alignment explanation
Indices: 6882166--6882672 Score: 689
Period size: 46 Copynumber: 11.6 Consensus size: 45
6882156 TACGTATGAT
* *
6882166 CACTTATCAC-TTGTC-CCTGATCAGATAAGTGTAGCTAAGGTTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAA-GCTAC
*
6882210 CACTTATCACTTTGTCACTTGATCAGATAAATGTAGCTAAGGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAA-GCTAC
6882256 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAA-GCTAC
*
6882302 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAA
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCT-AAGCTAC
*
6882348 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAA
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCT-AAGCTAC
6882394 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGCTAC
* *
6882439 CACTCATCACTTTGTCTC-TGATCAGATAA--GT-G-T-AG-T--
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGCTAC
6882475 -ACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGCTAC
6882519 CAC-TATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCT-AAGCTAC
*
6882564 CACTTATCACTTTGTCTCTTGATCAGATAA--GT-G-T-AG----
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGCTAC
*
6882600 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGTTAAAGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCT-AAGCTAC
* * *
6882646 CACTTATCATTTTATCTCTTGATCAGA
1 CACTTATCACTTTGTCACTTGATCAGA
6882673 AGTACTCAAA
Statistics
Matches: 423, Mismatches: 15, Indels: 48
0.87 0.03 0.10
Matches are distributed among these distances:
35 15 0.04
36 40 0.09
38 5 0.01
39 4 0.01
40 5 0.01
41 3 0.01
42 6 0.01
43 1 0.00
44 57 0.13
45 39 0.09
46 246 0.58
47 2 0.00
ACGTcount: A:0.29, C:0.21, G:0.16, T:0.34
Consensus pattern (45 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGCTAC
Found at i:6882334 original size:138 final size:128
Alignment explanation
Indices: 6882210--6882672 Score: 711
Period size: 126 Copynumber: 3.6 Consensus size: 128
6882200 CTAAGGTTAC
* *
6882210 CACTTATCACTTTGTCACTTGATCAGATAAATGTAGCTAAGGCTACCACTTATCACTTTGTCACT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCACT
*
6882275 TGATCAGATAAGTGTAGCTAAGGCTACCACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCT
66 TGATCAGATAAGTGTAGCTAA-GCTACCACTTATCACTTTGTCTCTTGATCAGATAA--GT-G-T
6882340 AAAGCT
126 --AG-T
*
6882346 AACACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAACACTTATCACTTTGTCA
1 --CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCA
*
6882411 CTTGATCAGATAAGTGTAGCTAAGCTACCACTCATCACTTTGTCTC-TGATCAGATAAGTGTAGT
64 CTTGATCAGATAAGTGTAGCTAAGCTACCACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGT
6882475 -ACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCT-AAGCTACCAC-TATCACTTTGTCACT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCACT
6882537 TGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCTCTTGATCAGATAAGTGTAG-
66 TGATCAGATAAGTGTAGCT-AAGCTACCACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGT
* * * *
6882600 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGTTAAAGCTACCACTTATCATTTTATCTCT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCACT
6882665 TGATCAGA
66 TGATCAGA
6882673 AGTACTCAAA
Statistics
Matches: 309, Mismatches: 11, Indels: 20
0.91 0.03 0.06
Matches are distributed among these distances:
124 34 0.11
125 33 0.11
126 90 0.29
127 10 0.03
128 20 0.06
129 1 0.00
130 2 0.01
132 1 0.00
133 1 0.00
134 2 0.01
136 11 0.04
137 21 0.07
138 83 0.27
ACGTcount: A:0.29, C:0.21, G:0.15, T:0.34
Consensus pattern (128 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCACT
TGATCAGATAAGTGTAGCTAAGCTACCACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGT
Found at i:6882480 original size:80 final size:80
Alignment explanation
Indices: 6882395--6882636 Score: 304
Period size: 80 Copynumber: 3.0 Consensus size: 80
6882385 TAAAGCTAAC
*
6882395 ACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGCTACCACTCATCACTTTGTCTC-TG
1 ACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGCTACCACT-ATCACTTTGTCACTTG
6882459 ATCAGATAAGTGTAGT
65 ATCAGATAAGTGTAGT
6882475 ACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGCTACCACTATCACTTTGTCACTTGA
1 ACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGCTACCACTATCACTTTGTCACTTGA
6882540 TCAGATAAGTGTAGCTAAAGCT
66 TCAGATAA--GT-G-T--AG-T
*
6882562 ACCACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGC--A-CT-----TATCACTTTGTCACT
1 ---ACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGCTACCACTATCACTTTGTCACT
6882619 TGATCAGATAAGTGTAGT
63 TGATCAGATAAGTGTAGT
6882637 TAAAGCTACC
Statistics
Matches: 149, Mismatches: 2, Indels: 27
0.84 0.01 0.15
Matches are distributed among these distances:
75 1 0.01
76 2 0.01
78 1 0.01
79 13 0.09
80 61 0.41
82 28 0.19
83 1 0.01
84 1 0.01
86 2 0.01
87 3 0.02
88 1 0.01
90 35 0.23
ACGTcount: A:0.28, C:0.21, G:0.16, T:0.35
Consensus pattern (80 bp):
ACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGCTACCACTATCACTTTGTCACTTGA
TCAGATAAGTGTAGT
Found at i:6882503 original size:36 final size:37
Alignment explanation
Indices: 6882444--6882636 Score: 194
Period size: 36 Copynumber: 4.9 Consensus size: 37
6882434 GCTACCACTC
*
6882444 ATCACTTTGTCTC-TGATCAGATAAGTGTAGT-ACTT
1 ATCACTTTGTCACTTGATCAGATAAGTGTAGTAACTT
6882479 ATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGCTACCACT
1 ATCACTTTGTCACTTGATCAGATAAGTGTAG-TAA-CT-----T
6882523 ATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTT
1 ATCACTTTGTCACTTGATCAGATAA--GT-G-T--AG-TA--ACTT
* *
6882569 ATCACTTTGTCTCTTGATCAGATAAGTGTAG-CACTT
1 ATCACTTTGTCACTTGATCAGATAAGTGTAGTAACTT
6882605 ATCACTTTGTCACTTGATCAGATAAGTGTAGT
1 ATCACTTTGTCACTTGATCAGATAAGTGTAGT
6882637 TAAAGCTACC
Statistics
Matches: 136, Mismatches: 4, Indels: 34
0.78 0.02 0.20
Matches are distributed among these distances:
35 12 0.09
36 51 0.38
37 1 0.01
38 1 0.01
39 2 0.01
40 2 0.01
42 1 0.01
43 1 0.01
44 28 0.21
46 27 0.20
47 1 0.01
48 1 0.01
50 5 0.04
51 2 0.01
52 1 0.01
ACGTcount: A:0.28, C:0.20, G:0.17, T:0.36
Consensus pattern (37 bp):
ATCACTTTGTCACTTGATCAGATAAGTGTAGTAACTT
Found at i:6882614 original size:82 final size:82
Alignment explanation
Indices: 6882522--6882672 Score: 275
Period size: 82 Copynumber: 1.8 Consensus size: 82
6882512 AAGCTACCAC
*
6882522 TATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCTCTTGAT
1 TATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTATCTCTTGAT
6882587 CAGATAAGTGTAGCACT
66 CAGATAAGTGTAGCACT
* *
6882604 TATCACTTTGTCACTTGATCAGATAAGTGTAGTTAAAGCTACCACTTATCATTTTATCTCTTGAT
1 TATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTATCTCTTGAT
6882669 CAGA
66 CAGA
6882673 AGTACTCAAA
Statistics
Matches: 66, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
82 66 1.00
ACGTcount: A:0.28, C:0.20, G:0.15, T:0.37
Consensus pattern (82 bp):
TATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTATCTCTTGAT
CAGATAAGTGTAGCACT
Found at i:6886274 original size:91 final size:91
Alignment explanation
Indices: 6886165--6886348 Score: 341
Period size: 91 Copynumber: 2.0 Consensus size: 91
6886155 TTAATGGAAA
*
6886165 AATAATATTCAAGTAAAAGGATTTCTGCATATTGCTTTGAAAGGTTTTCTAAATAGTACAAGGAC
1 AATAATATTCAAGTAAAAGGATTTCTGCATATTGCTCTGAAAGGTTTTCTAAATAGTACAAGGAC
6886230 CTGAAACAAGACCACTAGTCAGAACT
66 CTGAAACAAGACCACTAGTCAGAACT
**
6886256 AATAATATTCAAGTAAAAGGATTTCTGCATATTGCTCTGAAAGGTTTTCTAAATAGTGTAAGGAC
1 AATAATATTCAAGTAAAAGGATTTCTGCATATTGCTCTGAAAGGTTTTCTAAATAGTACAAGGAC
6886321 CTGAAACAAGACCACTAGTCAGAACT
66 CTGAAACAAGACCACTAGTCAGAACT
6886347 AA
1 AA
6886349 CCAAATTTAA
Statistics
Matches: 90, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
91 90 1.00
ACGTcount: A:0.40, C:0.15, G:0.17, T:0.28
Consensus pattern (91 bp):
AATAATATTCAAGTAAAAGGATTTCTGCATATTGCTCTGAAAGGTTTTCTAAATAGTACAAGGAC
CTGAAACAAGACCACTAGTCAGAACT
Found at i:6886874 original size:88 final size:85
Alignment explanation
Indices: 6886732--6887507 Score: 296
Period size: 96 Copynumber: 8.4 Consensus size: 85
6886722 CATCGCGGCG
* * * *
6886732 AATCTTATCTCCCTGAAGTTACAGTGGAGTAGATTAAA-GCCACAAGTCTCATTTCCCTGAAGTT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAATG-C-GAA-TCTTATTTCCCTGAAGTT
*
6886796 ACAGTGAAGCATATTGAAGTTAC
63 GCAGTGAAGCATATTGAAGTTAC
6886819 AAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTCAATATGCGAATCTTATTTCCCTGAAGTT
1 AA-TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATT-AA-ATGCGAATCTTATTTCCCTGAAGTT
* *
6886884 GTAGTGGAA-CAGATTAAAGCTGCAAGTTAC
63 GCAGT-GAAGC--A-T--A-TTG-AAGTTAC
* * * * *
6886914 AAATCTTATCTCCCTGAGGTTGTAGTGGAGCAGATTAAAGATAGCGAATCTTATTTTCTTGAAAT
1 -AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATT-AA-AT-GCGAATCTTATTTCCCTGAAGT
* * *
6886979 TGCAGTGAAGCAAATTAAAGATAAC
62 TGCAGTGAAGCATATTGAAG-TTAC
* * * * *
6887004 GAATCTTATTTCCCTGAAGTTGCAATGGAACAGATTAAAGCTACAAGTTACAAATCTTATCTCCC
1 -AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAA--T----G---CGAATCTTATTTCCC
* * * *
6887069 TG-AGCTTGTAGTGGAGTAGATTGAA-TATAGC
56 TGAAG-TTGCAGTGAAGCATATTGAAGT-TA-C
* * * * * * *
6887100 GAATCTTATTTTCCTAAAGTTACAGTGGAACAGATTAAAGCTACAAGGTATAAATCTTATCTCCC
1 -AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAA--TGC---G----AATCTTATTTCCC
* * * *
6887165 TGAAGTTGAAGTGGAGCAAATTGAAGATAGC
56 TGAAGTTGCAGTGAAGCATATTGAAGTTA-C
* * * * * *
6887196 AAATCTTATTTTCCTAAAGTTGCAGTGGAACAGATTAAAGCTACAAGTTACAAATCTTATCTCCC
1 -AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAA--T----G---CGAATCTTATTTCCC
* * *
6887261 TGAACG-TGCAGTGGAGCAGATTAAAG---C
56 TGAA-GTTGCAGTGAAGCATATTGAAGTTAC
* * * * * *
6887288 GAACCTTATCTCCTTGAAGTTGCAGTGGAGC-GAGTTAAAGCTACAAATCTTATCTCCTTGAAGT
1 -AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGA-TTAAA--TGCGAATCTTATTTCCCTGAAGT
* * * *
6887352 TGCAGTGGAGCGA-GTTAAAGCTAC
62 TGCAGTGAAGC-ATATTGAAGTTAC
* *
6887376 AAATCTTATCTCCCTGAAGTTGTAGTGGAGCAGATTGAAGATAGCAAATCTTATTTCCCTGAAGT
1 -AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATT-AA-AT-GCGAATCTTATTTCCCTGAAGT
* *
6887441 TGTAGTGGAA-CAGATTAAAGCTACAAGTTAC
62 TGCAGT-GAAGCATATT---G----AAGTTAC
*
6887472 AAATCTTATCTCCTTGAAGTTGCAGTGGAGCAGATT
1 -AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATT
6887508 GAAGCGACAA
Statistics
Matches: 549, Mismatches: 77, Indels: 117
0.74 0.10 0.16
Matches are distributed among these distances:
84 1 0.00
85 35 0.06
86 1 0.00
87 2 0.00
88 85 0.15
89 44 0.08
90 41 0.07
91 5 0.01
92 33 0.06
93 3 0.01
94 4 0.01
95 47 0.09
96 244 0.44
97 3 0.01
103 1 0.00
ACGTcount: A:0.33, C:0.17, G:0.20, T:0.30
Consensus pattern (85 bp):
AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAATGCGAATCTTATTTCCCTGAAGTTGCA
GTGAAGCATATTGAAGTTAC
Found at i:6886940 original size:51 final size:49
Alignment explanation
Indices: 6886732--6887646 Score: 477
Period size: 44 Copynumber: 19.6 Consensus size: 49
6886722 CATCGCGGCG
* **
6886732 AATCTTATCTCCCTGAAGTTACAGTGGAGTAGATTAAAGC--C---ACA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAACAGATTAAAGCTACAGTACA
* * * * * *
6886776 AGTCTCATTTCCCTGAAGTTACAGT-GAAGCATATTGAAG-T----TACA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAA-CAGATTAAAGCTACAGTACA
* * * * *
6886820 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTCAA--T--A-TGCG
1 AATCTTATCTCCCTGAAGTTGCAGTGGAACAGATTAAAGCTACAGTACA
* * *
6886864 AATCTTATTTCCCTGAAGTTGTAGTGGAACAGATTAAAGCTGCAAGTTACA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAACAGATTAAAGCTAC-AG-TACA
* * * * *
6886915 AATCTTATCTCCCTGAGGTTGTAGTGGAGCAGATTAAAG--ATAG--CG
1 AATCTTATCTCCCTGAAGTTGCAGTGGAACAGATTAAAGCTACAGTACA
* * * * * * *
6886960 AATCTTATTTTCTTGAAATTGCAGT-GAAGCAAATTAAAG--ATA--ACG
1 AATCTTATCTCCCTGAAGTTGCAGTGGAA-CAGATTAAAGCTACAGTACA
* *
6887005 AATCTTATTTCCCTGAAGTTGCAATGGAACAGATTAAAGCTACAAGTTACA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAACAGATTAAAGCTAC-AG-TACA
* ** * * *
6887056 AATCTTATCTCCCTG-AGCTTGTAGTGGAGTAGATTGAA--TATAG--CG
1 AATCTTATCTCCCTGAAG-TTGCAGTGGAACAGATTAAAGCTACAGTACA
* * * * *
6887101 AATCTTATTTTCCTAAAGTTACAGTGGAACAGATTAAAGCTACAAGGTATA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAACAGATTAAAGCTAC-A-GTACA
* * * * *
6887152 AATCTTATCTCCCTGAAGTTGAAGTGGAGCAAATTGAAG--ATAG--CA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAACAGATTAAAGCTACAGTACA
* * *
6887197 AATCTTATTTTCCTAAAGTTGCAGTGGAACAGATTAAAGCTACAAGTTACA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAACAGATTAAAGCTAC-AG-TACA
*
6887248 AATCTTATCTCCCTGAACG-TGCAGTGGAGCAGATTAAAG---C-G----
1 AATCTTATCTCCCTGAA-GTTGCAGTGGAACAGATTAAAGCTACAGTACA
* * *
6887289 AACCTTATCTCCTTGAAGTTGCAGTGGAGC-GAGTTAAAG---C--TACA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAACAGA-TTAAAGCTACAGTACA
* *
6887333 AATCTTATCTCCTTGAAGTTGCAGTGGAGC-GAGTTAAAG---C--TACA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAACAGA-TTAAAGCTACAGTACA
* * * *
6887377 AATCTTATCTCCCTGAAGTTGTAGTGGAGCAGATTGAAG--ATAG--CA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAACAGATTAAAGCTACAGTACA
* *
6887422 AATCTTATTTCCCTGAAGTTGTAGTGGAACAGATTAAAGCTACAAGTTACA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAACAGATTAAAGCTAC-AG-TACA
* * *
6887473 AATCTTATCTCCTTGAAGTTGCAGTGGAGCAGATTGAAG---C-G-ACA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAACAGATTAAAGCTACAGTACA
* * * * * * *
6887517 AGTCCTATAC-CTCTGAGGTTGCAGTGGATCGGATTAAATCTACCA-TAACA
1 AATCTTAT-CTCCCTGAAGTTGCAGTGGAACAGATTAAAGCTA-CAGT-ACA
* * * * *
6887567 AATCTTATTTCCCTGAAGTTGTAGTGGAATAGACTAAAGTTACAAGCTACA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAACAGATTAAAGCTAC-AG-TACA
*
6887618 AATCTTATCTCCTTGAAGTTGCAGTGGAA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAA
6887647 TAGGTTGAAT
Statistics
Matches: 683, Mismatches: 124, Indels: 121
0.74 0.13 0.13
Matches are distributed among these distances:
40 3 0.00
41 33 0.05
43 3 0.00
44 205 0.30
45 168 0.25
46 8 0.01
47 6 0.01
48 14 0.02
49 6 0.01
50 35 0.05
51 200 0.29
52 2 0.00
ACGTcount: A:0.33, C:0.17, G:0.20, T:0.30
Consensus pattern (49 bp):
AATCTTATCTCCCTGAAGTTGCAGTGGAACAGATTAAAGCTACAGTACA
Found at i:6887060 original size:96 final size:96
Alignment explanation
Indices: 6886973--6887411 Score: 445
Period size: 96 Copynumber: 4.7 Consensus size: 96
6886963 CTTATTTTCT
* * * * *
6886973 TGAAATTGCAGTGAAGCAAATTAAAGATAACGAATCTTATTTCCCTGAAGTTGCAATGGAACAGA
1 TGAACTTGCAGTGGAGCAAATTAAAGATAGCGAATCTTATTTCCCTAAAGTTGCAGTGGAACAGA
6887038 TTAAAGCTACAAGTTACAAATCTTATCTCCC
66 TTAAAGCTACAAGTTACAAATCTTATCTCCC
* * * * * * * *
6887069 TGAGCTTGTAGTGGAGTAGATTGAATATAGCGAATCTTATTTTCCTAAAGTTACAGTGGAACAGA
1 TGAACTTGCAGTGGAGCAAATTAAAGATAGCGAATCTTATTTCCCTAAAGTTGCAGTGGAACAGA
* *
6887134 TTAAAGCTACAAGGTATAAATCTTATCTCCC
66 TTAAAGCTACAAGTTACAAATCTTATCTCCC
* * * * *
6887165 TGAAGTTGAAGTGGAGCAAATTGAAGATAGCAAATCTTATTTTCCTAAAGTTGCAGTGGAACAGA
1 TGAACTTGCAGTGGAGCAAATTAAAGATAGCGAATCTTATTTCCCTAAAGTTGCAGTGGAACAGA
6887230 TTAAAGCTACAAGTTACAAATCTTATCTCCC
66 TTAAAGCTACAAGTTACAAATCTTATCTCCC
* * * * * * *
6887261 TGAACGTGCAGTGGAGCAGATT--A-A-AGCGAACCTTATCTCCTTGAAGTTGCAGTGGAGC-GA
1 TGAACTTGCAGTGGAGCAAATTAAAGATAGCGAATCTTATTTCCCTAAAGTTGCAGTGGAACAGA
*
6887321 GTTAAAG---C----TACAAATCTTATCTCCT
66 -TTAAAGCTACAAGTTACAAATCTTATCTCCC
* * * * * * * * *
6887346 TGAAGTTGCAGTGGAGCGAGTTAAAGCTA-CAAATCTTATCTCCCTGAAGTTGTAGTGGAGCAGA
1 TGAACTTGCAGTGGAGCAAATTAAAGATAGCGAATCTTATTTCCCTAAAGTTGCAGTGGAACAGA
6887410 TT
66 TT
6887412 GAAGATAGCA
Statistics
Matches: 290, Mismatches: 47, Indels: 20
0.81 0.13 0.06
Matches are distributed among these distances:
85 33 0.11
87 1 0.00
88 30 0.10
89 4 0.01
91 2 0.01
92 33 0.11
93 1 0.00
94 1 0.00
96 185 0.64
ACGTcount: A:0.34, C:0.17, G:0.21, T:0.29
Consensus pattern (96 bp):
TGAACTTGCAGTGGAGCAAATTAAAGATAGCGAATCTTATTTCCCTAAAGTTGCAGTGGAACAGA
TTAAAGCTACAAGTTACAAATCTTATCTCCC
Found at i:6887611 original size:145 final size:140
Alignment explanation
Indices: 6886825--6887645 Score: 521
Period size: 141 Copynumber: 5.8 Consensus size: 140
6886815 TTACAAGTCT
* * * *
6886825 TATCTCCCTGAAGTTGCAGTGGAGCAGATTCAATAT-GCGAATCTTATTTCCCTGAAGTTGTAGT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAACATAACAAATCTTATTTCCCTGAAGTTGTAGT
* * * * * * *
6886889 GGAACAGATTAAAGCTGCAAGTTACAAATCTTATCTCCCTGAGGTTGTAGTGGAGC-AGATTAAA
66 GGAACAGACTAAAGTTACAAGCTACAAATCTTATCTCCTTGAAGTTGCAGTGGAGCGAG-TTAAA
** * *
6886953 GATAGCGAATCT
130 GCGA-CAAATCC
* * * * * * * * * *
6886965 TATTTTCTTGAAATTGCAGTGAAGCAAATTAAAGATAACGAATCTTATTTCCCTGAAGTTGCAAT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAACATAACAAATCTTATTTCCCTGAAGTTGTAGT
* * * * * *
6887030 GGAACAGATTAAAGCTACAAGTTACAAATCTTATCTCCCTG-AGCTTGTAGTGGAG-TAGATTGA
66 GGAACAGACTAAAGTTACAAGCTACAAATCTTATCTCCTTGAAG-TTGCAGTGGAGCGAG-TT-A
** * *
6887093 ATATAG-CGAATCT
128 A-AGCGACAAATCC
* * * * * * * *
6887106 TATTTTCCTAAAGTTACAGTGGAACAGATTAAAGCTACAAGGTATAAATCTTATCTCCCTGAAGT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAA-C-A-TA---ACAAATCTTATTTCCCTGAAGT
* * * * * *
6887171 TGAAGTGG---AG-C-AAA-TT-GAAGATAGCAAATCTTATTTTCC-TAAAGTTGCAGTGGAAC-
60 TGTAGTGGAACAGACTAAAGTTACAAGCTA-CAAATCTTA-TCTCCTTGAAGTTGCAGTGGAGCG
*
6887227 AGATTAAAGCTACAAGTTACAAATCT
123 AG-TTAAAG---C--G--ACAAATCC
* * * *
6887253 TATCTCCCTGAACG-TGCAGTGGAGCAGATTAAAGC-GAAC----CTTATCTCCTTGAAGTTGCA
1 TATCTCCCTGAA-GTTGCAGTGGAGCAGATTAAA-CATAACAAATCTTATTTCCCTGAAGTTGTA
*
6887312 GTGG---AG-C--GAGTTA-AAGCTACAAATCTTATCTCCTTGAAGTTGCAGTGGAGCGAGTTAA
64 GTGGAACAGACTAAAGTTACAAGCTACAAATCTTATCTCCTTGAAGTTGCAGTGGAGCGAGTTAA
* *
6887370 AGCTACAAATCT
129 AGCGACAAATCC
* * * *
6887382 TATCTCCCTGAAGTTGTAGTGGAGCAGATTGAAGATAGCAAATCTTATTTCCCTGAAGTTGTAGT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAACATAACAAATCTTATTTCCCTGAAGTTGTAGT
* * * *
6887447 GGAACAGATTAAAGCTACAAGTTACAAATCTTATCTCCTTGAAGTTGCAGTGGAGC-AGATTGAA
66 GGAACAGACTAAAGTTACAAGCTACAAATCTTATCTCCTTGAAGTTGCAGTGGAGCGAG-TTAAA
*
6887511 GCGACAAGTCC
130 GCGACAAATCC
* * * *
6887522 TATAC-CTCTGAGGTTGCAGTGGATCGGATTAAATCTACCATAACAAATCTTATTTCCCTGAAGT
1 TAT-CTCCCTGAAGTTGCAGTGGAGCAGATT-AA---A-CATAACAAATCTTATTTCCCTGAAGT
*
6887586 TGTAGTGGAATAGACTAAAGTTACAAGCTACAAATCTTATCTCCTTGAAGTTGCAGTGGA
60 TGTAGTGGAACAGACTAAAGTTACAAGCTACAAATCTTATCTCCTTGAAGTTGCAGTGGA
6887646 ATAGGTTGAA
Statistics
Matches: 550, Mismatches: 83, Indels: 91
0.76 0.11 0.13
Matches are distributed among these distances:
128 1 0.00
129 39 0.07
133 22 0.04
135 4 0.01
136 33 0.06
137 34 0.06
139 7 0.01
140 108 0.20
141 142 0.26
142 11 0.02
143 3 0.01
144 6 0.01
145 80 0.15
147 59 0.11
148 1 0.00
ACGTcount: A:0.33, C:0.17, G:0.21, T:0.30
Consensus pattern (140 bp):
TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAACATAACAAATCTTATTTCCCTGAAGTTGTAGT
GGAACAGACTAAAGTTACAAGCTACAAATCTTATCTCCTTGAAGTTGCAGTGGAGCGAGTTAAAG
CGACAAATCC
Found at i:6889355 original size:3 final size:3
Alignment explanation
Indices: 6889270--6889338 Score: 95
Period size: 3 Copynumber: 23.0 Consensus size: 3
6889260 TTATTTGTGC
* *
6889270 ATT ATT ATT ATT ATT ATT ATT ATT ATT GTT ATT ATC ATT ATT ATT -TT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
*
6889317 ATT TTT AATT ATT ATT ATT ATT
1 ATT ATT -ATT ATT ATT ATT ATT
6889339 CTCGTTATTT
Statistics
Matches: 58, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
2 2 0.03
3 54 0.93
4 2 0.03
ACGTcount: A:0.30, C:0.01, G:0.01, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:6893023 original size:3 final size:3
Alignment explanation
Indices: 6893015--6893042 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
6893005 CTAAAATTGG
6893015 AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT A
6893043 TATTATTATT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:6893049 original size:3 final size:3
Alignment explanation
Indices: 6893043--6893082 Score: 80
Period size: 3 Copynumber: 13.3 Consensus size: 3
6893033 AATAATAATA
6893043 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
6893083 GTAGACTTCT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:6893242 original size:18 final size:16
Alignment explanation
Indices: 6893198--6893243 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 16
6893188 AAGGTAGTTA
6893198 AAATATTATGTATAAT
1 AAATATTATGTATAAT
6893214 AATATAGTTATGTATTAAT
1 AA-ATA-TTATGTA-TAAT
6893233 ATAATATTATG
1 A-AATATTATG
6893244 ATAGATATAA
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
16 2 0.08
17 3 0.12
18 12 0.46
19 8 0.31
20 1 0.04
ACGTcount: A:0.46, C:0.00, G:0.09, T:0.46
Consensus pattern (16 bp):
AAATATTATGTATAAT
Found at i:6901232 original size:49 final size:49
Alignment explanation
Indices: 6901157--6901262 Score: 135
Period size: 49 Copynumber: 2.2 Consensus size: 49
6901147 CCAGTTCATG
*
6901157 GTGGTTATACGATCACATGTTCAAGTATAACT-AGGGTTTCTAGTTGACA
1 GTGGTTATACGATCACATGTTCAAGTATAACTCA-GGCTTCTAGTTGACA
* * *
6901206 GTGGTTATACGATCACGA-GTTTAAGTATAATTCAGGCTTCTAGTTGATA
1 GTGGTTATACGATCAC-ATGTTCAAGTATAACTCAGGCTTCTAGTTGACA
*
6901255 GTGATTAT
1 GTGGTTAT
6901263 GCGGTTACGG
Statistics
Matches: 50, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
49 48 0.96
50 2 0.04
ACGTcount: A:0.28, C:0.12, G:0.23, T:0.37
Consensus pattern (49 bp):
GTGGTTATACGATCACATGTTCAAGTATAACTCAGGCTTCTAGTTGACA
Found at i:6905796 original size:2 final size:2
Alignment explanation
Indices: 6905789--6905893 Score: 164
Period size: 2 Copynumber: 53.5 Consensus size: 2
6905779 AATAGATACG
6905789 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
6905831 TA TA -A TA -A TA GTA -A TA TA TA -A GTA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA -TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA
6905871 TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA T
6905894 GTACATAGAT
Statistics
Matches: 97, Mismatches: 0, Indels: 12
0.89 0.00 0.11
Matches are distributed among these distances:
1 4 0.04
2 90 0.93
3 3 0.03
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (2 bp):
TA
Found at i:6905947 original size:10 final size:10
Alignment explanation
Indices: 6905934--6906010 Score: 61
Period size: 10 Copynumber: 7.5 Consensus size: 10
6905924 ATATGTGAAT
6905934 TATA-AAAATA
1 TATATAAAA-A
6905944 TATATAAAAA
1 TATATAAAAA
6905954 TATATAAAAA
1 TATATAAAAA
*
6905964 TATATTTTAAAA
1 TATA--TAAAAA
*
6905976 TATA-AAGAA
1 TATATAAAAA
*
6905985 TATATAAATATT
1 TATATAAA-A-A
6905997 TATATAAAAA
1 TATATAAAAA
6906007 -ATAT
1 TATAT
6906011 GTACATATAC
Statistics
Matches: 55, Mismatches: 6, Indels: 13
0.74 0.08 0.18
Matches are distributed among these distances:
9 11 0.20
10 21 0.38
11 6 0.11
12 17 0.31
ACGTcount: A:0.62, C:0.00, G:0.01, T:0.36
Consensus pattern (10 bp):
TATATAAAAA
Found at i:6905951 original size:12 final size:12
Alignment explanation
Indices: 6905934--6905979 Score: 60
Period size: 12 Copynumber: 4.0 Consensus size: 12
6905924 ATATGTGAAT
6905934 TATAAAAATATA
1 TATAAAAATATA
6905946 TAT-AAAA-ATA
1 TATAAAAATATA
6905956 TATAAAAATATA
1 TATAAAAATATA
* *
6905968 TTTTAAAATATA
1 TATAAAAATATA
6905980 AAGAATATAT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
10 6 0.20
11 8 0.27
12 16 0.53
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (12 bp):
TATAAAAATATA
Found at i:6906051 original size:16 final size:16
Alignment explanation
Indices: 6906027--6906061 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
6906017 ATACGTAGGT
*
6906027 ATATAAAAATTATGAA
1 ATATAAAAATAATGAA
*
6906043 ATATGAAAATAATGAA
1 ATATAAAAATAATGAA
6906059 ATA
1 ATA
6906062 CATGTAAAAG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.63, C:0.00, G:0.09, T:0.29
Consensus pattern (16 bp):
ATATAAAAATAATGAA
Found at i:6906284 original size:4 final size:4
Alignment explanation
Indices: 6906275--6906323 Score: 53
Period size: 4 Copynumber: 12.2 Consensus size: 4
6906265 AACAAAATTT
* * * * *
6906275 TAAA TAAA TATA TAAA TAAA CAAA CAAA TAAC TAAA TAAA CAAA TAAA
1 TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA
6906323 T
1 T
6906324 GATTAAGAGA
Statistics
Matches: 37, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
4 37 1.00
ACGTcount: A:0.69, C:0.08, G:0.00, T:0.22
Consensus pattern (4 bp):
TAAA
Found at i:6911204 original size:18 final size:19
Alignment explanation
Indices: 6911181--6911217 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
6911171 CTTTTTAAAA
6911181 TATAAAT-TTTAAAATTTT
1 TATAAATATTTAAAATTTT
*
6911199 TATAAATATTTTAAATTTT
1 TATAAATATTTAAAATTTT
6911218 AAAAATTATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 7 0.41
19 10 0.59
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (19 bp):
TATAAATATTTAAAATTTT
Found at i:6911216 original size:19 final size:19
Alignment explanation
Indices: 6911181--6911246 Score: 68
Period size: 18 Copynumber: 3.6 Consensus size: 19
6911171 CTTTTTAAAA
*
6911181 TATAAAT-TTTAAAATTTT
1 TATAAATATTTTAAATTTT
6911199 TATAAATATTTTAAA-TTT
1 TATAAATATTTTAAATTTT
*
6911217 TAAAAATTATTTT-AATTTT
1 TATAAA-TATTTTAAATTTT
*
6911236 T-TAAAAATTTT
1 TATAAATATTTT
6911247 GGTTAGGTTC
Statistics
Matches: 41, Mismatches: 4, Indels: 7
0.79 0.08 0.13
Matches are distributed among these distances:
17 5 0.12
18 20 0.49
19 16 0.39
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (19 bp):
TATAAATATTTTAAATTTT
Found at i:6911239 original size:20 final size:20
Alignment explanation
Indices: 6911127--6911244 Score: 80
Period size: 20 Copynumber: 5.7 Consensus size: 20
6911117 TATGATAAAC
*
6911127 TTTTTTAAAATATTCTTTTGAA
1 TTTTTTAAAA-ATTATTTT-AA
**
6911149 TTTTTTTTAAAAATT-TCATAA
1 --TTTTTTAAAAATTATTTTAA
*
6911170 TCTTTTTAAAATATAAATTTTAAA
1 T-TTTTTAAAA-AT-TATTTT-AA
* *
6911194 ATTTTTATAAA-TATTTTAA
1 TTTTTTAAAAATTATTTTAA
*
6911213 -ATTTTAAAAATTATTTTAA
1 TTTTTTAAAAATTATTTTAA
6911232 TTTTTTAAAAATT
1 TTTTTTAAAAATT
6911245 TTGGTTAGGT
Statistics
Matches: 76, Mismatches: 11, Indels: 18
0.72 0.10 0.17
Matches are distributed among these distances:
18 8 0.11
19 11 0.14
20 25 0.33
21 4 0.05
22 3 0.04
23 13 0.17
24 12 0.16
ACGTcount: A:0.41, C:0.03, G:0.01, T:0.56
Consensus pattern (20 bp):
TTTTTTAAAAATTATTTTAA
Found at i:6917729 original size:23 final size:23
Alignment explanation
Indices: 6917703--6917793 Score: 100
Period size: 23 Copynumber: 4.1 Consensus size: 23
6917693 TGAAAAGTTA
6917703 GAAGAGTGAAGAGACTTGAATAT
1 GAAGAGTGAAGAGACTTGAATAT
*
6917726 GAAGAGTGAAGAGACTTGAAGAT
1 GAAGAGTGAAGAGACTTGAATAT
* * * * *
6917749 GAAAAGT-TACACAC---ATTAT
1 GAAGAGTGAAGAGACTTGAATAT
6917768 GAAGAGTGAAGAGACTTGAATAT
1 GAAGAGTGAAGAGACTTGAATAT
6917791 GAA
1 GAA
6917794 AGGTTACACA
Statistics
Matches: 52, Mismatches: 12, Indels: 8
0.72 0.17 0.11
Matches are distributed among these distances:
19 9 0.17
20 4 0.08
22 4 0.08
23 35 0.67
ACGTcount: A:0.45, C:0.07, G:0.27, T:0.21
Consensus pattern (23 bp):
GAAGAGTGAAGAGACTTGAATAT
Found at i:6917770 original size:42 final size:42
Alignment explanation
Indices: 6917723--6917806 Score: 150
Period size: 42 Copynumber: 2.0 Consensus size: 42
6917713 GAGACTTGAA
6917723 TATGAAGAGTGAAGAGACTTGAAGATGAAAAGTTACACACAT
1 TATGAAGAGTGAAGAGACTTGAAGATGAAAAGTTACACACAT
* *
6917765 TATGAAGAGTGAAGAGACTTGAATATGAAAGGTTACACACAT
1 TATGAAGAGTGAAGAGACTTGAAGATGAAAAGTTACACACAT
6917807 GCATGAATAG
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 40 1.00
ACGTcount: A:0.44, C:0.10, G:0.24, T:0.23
Consensus pattern (42 bp):
TATGAAGAGTGAAGAGACTTGAAGATGAAAAGTTACACACAT
Found at i:6922222 original size:23 final size:23
Alignment explanation
Indices: 6922196--6922286 Score: 91
Period size: 23 Copynumber: 4.1 Consensus size: 23
6922186 TGAAAAGTTA
*
6922196 GAAGAGTAAAGAGACTTGAATAT
1 GAAGAGTGAAGAGACTTGAATAT
*
6922219 GAAGAGTGAAGAGACTTGAAGAT
1 GAAGAGTGAAGAGACTTGAATAT
* * * * *
6922242 GAAAAGT-TACACAC---ATTAT
1 GAAGAGTGAAGAGACTTGAATAT
6922261 GAAGAGTGAAGAGACTTGAATAT
1 GAAGAGTGAAGAGACTTGAATAT
6922284 GAA
1 GAA
6922287 AGGTTACACA
Statistics
Matches: 51, Mismatches: 13, Indels: 8
0.71 0.18 0.11
Matches are distributed among these distances:
19 9 0.18
20 4 0.08
22 4 0.08
23 34 0.67
ACGTcount: A:0.46, C:0.07, G:0.26, T:0.21
Consensus pattern (23 bp):
GAAGAGTGAAGAGACTTGAATAT
Found at i:6922263 original size:42 final size:42
Alignment explanation
Indices: 6922216--6922299 Score: 150
Period size: 42 Copynumber: 2.0 Consensus size: 42
6922206 GAGACTTGAA
6922216 TATGAAGAGTGAAGAGACTTGAAGATGAAAAGTTACACACAT
1 TATGAAGAGTGAAGAGACTTGAAGATGAAAAGTTACACACAT
* *
6922258 TATGAAGAGTGAAGAGACTTGAATATGAAAGGTTACACACAT
1 TATGAAGAGTGAAGAGACTTGAAGATGAAAAGTTACACACAT
6922300 GCATGAATAG
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 40 1.00
ACGTcount: A:0.44, C:0.10, G:0.24, T:0.23
Consensus pattern (42 bp):
TATGAAGAGTGAAGAGACTTGAAGATGAAAAGTTACACACAT
Found at i:6934135 original size:9 final size:9
Alignment explanation
Indices: 6934121--6934153 Score: 57
Period size: 9 Copynumber: 3.7 Consensus size: 9
6934111 GTTAAAAGAA
6934121 TCGAGTTAT
1 TCGAGTTAT
*
6934130 TCGAGTTAA
1 TCGAGTTAT
6934139 TCGAGTTAT
1 TCGAGTTAT
6934148 TCGAGT
1 TCGAGT
6934154 CAACTCGAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.24, C:0.12, G:0.24, T:0.39
Consensus pattern (9 bp):
TCGAGTTAT
Found at i:6934142 original size:18 final size:18
Alignment explanation
Indices: 6934119--6934153 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
6934109 GAGTTAAAAG
6934119 AATCGAGTTATTCGAGTT
1 AATCGAGTTATTCGAGTT
6934137 AATCGAGTTATTCGAGT
1 AATCGAGTTATTCGAGT
6934154 CAACTCGAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.29, C:0.11, G:0.23, T:0.37
Consensus pattern (18 bp):
AATCGAGTTATTCGAGTT
Found at i:6934300 original size:21 final size:21
Alignment explanation
Indices: 6934259--6934301 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
6934249 ACCCCAAACT
* *
6934259 CTCAAACCTTTTTACTTTTCC
1 CTCAAAACTTTTTACTCTTCC
6934280 CTCAAAAC-TTTTACTCCTTCC
1 CTCAAAACTTTTTACT-CTTCC
6934301 C
1 C
6934302 ACTTTCCCCC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 7 0.37
21 12 0.63
ACGTcount: A:0.21, C:0.37, G:0.00, T:0.42
Consensus pattern (21 bp):
CTCAAAACTTTTTACTCTTCC
Found at i:6934620 original size:17 final size:16
Alignment explanation
Indices: 6934586--6934616 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
6934576 CCTATTTACT
*
6934586 TTCCCTCAAACTTTTA
1 TTCCCCCAAACTTTTA
6934602 TTCCCCCAAACTTTT
1 TTCCCCCAAACTTTT
6934617 TATTTTTCCC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.23, C:0.35, G:0.00, T:0.42
Consensus pattern (16 bp):
TTCCCCCAAACTTTTA
Found at i:6939238 original size:21 final size:21
Alignment explanation
Indices: 6939212--6939274 Score: 126
Period size: 21 Copynumber: 3.0 Consensus size: 21
6939202 TTAGCTCAGA
6939212 CGGGTAACCTGATATATTTAT
1 CGGGTAACCTGATATATTTAT
6939233 CGGGTAACCTGATATATTTAT
1 CGGGTAACCTGATATATTTAT
6939254 CGGGTAACCTGATATATTTAT
1 CGGGTAACCTGATATATTTAT
6939275 ACTCTTCTCG
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 42 1.00
ACGTcount: A:0.29, C:0.14, G:0.19, T:0.38
Consensus pattern (21 bp):
CGGGTAACCTGATATATTTAT
Found at i:6940751 original size:160 final size:160
Alignment explanation
Indices: 6940487--6940966 Score: 915
Period size: 160 Copynumber: 3.0 Consensus size: 160
6940477 ATGGACACCA
*
6940487 TAGAAGGATTTATCAAAAAAGGCTTACTAGGATAACTTGTAAAGAGGAAACCTAGATAGTAAGAA
1 TAGAAGGATTTATCAGAAAAGGCTTACTAGGATAACTTGTAAAGAGGAAACCTAGATAGTAAGAA
* *
6940552 TATCAAGAAGAAAAGATATCCAAGAGAAGAGAGACAAGTTATAAAGAGTAATTGAAGGGAACTAT
66 TATCGAGAAGAAAAGATATCCAAGAGAAGAGAGACAAGTTATAGAGAGTAATTGAAGGGAACTAT
6940617 TTATGATAGTAAGTGCTAAAAAAGAGTGGG
131 TTATGATAGTAAGTGCTAAAAAAGAGTGGG
6940647 TAGAAGGATTTATCAGAAAAGGCTTACTAGGATAACTTGTAAAGAGGAAACCTAGATAGTAAGAA
1 TAGAAGGATTTATCAGAAAAGGCTTACTAGGATAACTTGTAAAGAGGAAACCTAGATAGTAAGAA
*
6940712 TATTGAGAAGAAAAGATATCCAAGAGAAGAGAGACAAGTTATAGAGAGTAATTGAAGGGAACTAT
66 TATCGAGAAGAAAAGATATCCAAGAGAAGAGAGACAAGTTATAGAGAGTAATTGAAGGGAACTAT
6940777 TTATGATAGTAAGTGCTAAAAAAGAGTGGG
131 TTATGATAGTAAGTGCTAAAAAAGAGTGGG
6940807 TAGAAGGATTTATCAGAAAAGGCTTACTAGGATAACTTGTAAAGAGGAAACCTAGATAGTAAGAA
1 TAGAAGGATTTATCAGAAAAGGCTTACTAGGATAACTTGTAAAGAGGAAACCTAGATAGTAAGAA
6940872 TATCGAGAAGAAAAGATATCCAAGAGAAGAGAGACAAGTTATAGAGAGTAATTGAAGGGAACTAT
66 TATCGAGAAGAAAAGATATCCAAGAGAAGAGAGACAAGTTATAGAGAGTAATTGAAGGGAACTAT
*
6940937 TTATGATAGCAAGTGCTAAAAAAGAGTGGG
131 TTATGATAGTAAGTGCTAAAAAAGAGTGGG
6940967 ATACCTTGAA
Statistics
Matches: 314, Mismatches: 6, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
160 314 1.00
ACGTcount: A:0.46, C:0.07, G:0.25, T:0.22
Consensus pattern (160 bp):
TAGAAGGATTTATCAGAAAAGGCTTACTAGGATAACTTGTAAAGAGGAAACCTAGATAGTAAGAA
TATCGAGAAGAAAAGATATCCAAGAGAAGAGAGACAAGTTATAGAGAGTAATTGAAGGGAACTAT
TTATGATAGTAAGTGCTAAAAAAGAGTGGG
Found at i:6941933 original size:29 final size:29
Alignment explanation
Indices: 6941891--6941949 Score: 100
Period size: 29 Copynumber: 2.0 Consensus size: 29
6941881 TGTCCTAGAG
*
6941891 ATTGGTTTGGATTTGGATCAAAGGCATCA
1 ATTGGTTTGGATTTGGATCAAAGACATCA
*
6941920 ATTGGTTTGGATTTGGTTCAAAGACATCA
1 ATTGGTTTGGATTTGGATCAAAGACATCA
6941949 A
1 A
6941950 CTGCTCAATT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.29, C:0.10, G:0.25, T:0.36
Consensus pattern (29 bp):
ATTGGTTTGGATTTGGATCAAAGACATCA
Found at i:6948971 original size:18 final size:18
Alignment explanation
Indices: 6948944--6948984 Score: 64
Period size: 18 Copynumber: 2.3 Consensus size: 18
6948934 TTAAATAATT
* *
6948944 TTTTATTAAGTAAAAATA
1 TTTTAATAAGCAAAAATA
6948962 TTTTAATAAGCAAAAATA
1 TTTTAATAAGCAAAAATA
6948980 TTTTA
1 TTTTA
6948985 TTAATTAATA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.49, C:0.02, G:0.05, T:0.44
Consensus pattern (18 bp):
TTTTAATAAGCAAAAATA
Found at i:6953353 original size:23 final size:23
Alignment explanation
Indices: 6953326--6953447 Score: 154
Period size: 23 Copynumber: 5.3 Consensus size: 23
6953316 AGTTTTATTG
*
6953326 ATCAGTGGTAGCTTTGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
* *
6953349 TTCAGTGGTGGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
* * *
6953372 AACAGTGGTAGCTTTGGCTCCAT
1 ATCAGTGGTAGCTTCGGCTACAT
* *
6953395 TTCAGTGGTATCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
* *
6953418 AACCGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
6953441 ATCAGTG
1 ATCAGTG
6953448 TTGCACTTAT
Statistics
Matches: 80, Mismatches: 19, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
23 80 1.00
ACGTcount: A:0.20, C:0.21, G:0.26, T:0.33
Consensus pattern (23 bp):
ATCAGTGGTAGCTTCGGCTACAT
Found at i:6953381 original size:46 final size:46
Alignment explanation
Indices: 6953328--6953447 Score: 186
Period size: 46 Copynumber: 2.6 Consensus size: 46
6953318 TTTTATTGAT
*
6953328 CAGTGGTAGCTTTGGCTACATTTCAGTGGTGGCTTCGGCTACATAA
1 CAGTGGTAGCTTTGGCTACATTTCAGTGGTAGCTTCGGCTACATAA
* *
6953374 CAGTGGTAGCTTTGGCTCCATTTCAGTGGTATCTTCGGCTACATAA
1 CAGTGGTAGCTTTGGCTACATTTCAGTGGTAGCTTCGGCTACATAA
* * *
6953420 CCGTGGTAGCTTCGGCTACATATCAGTG
1 CAGTGGTAGCTTTGGCTACATTTCAGTG
6953448 TTGCACTTAT
Statistics
Matches: 67, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
46 67 1.00
ACGTcount: A:0.19, C:0.22, G:0.27, T:0.33
Consensus pattern (46 bp):
CAGTGGTAGCTTTGGCTACATTTCAGTGGTAGCTTCGGCTACATAA
Found at i:6960786 original size:23 final size:23
Alignment explanation
Indices: 6960761--6960851 Score: 146
Period size: 23 Copynumber: 4.0 Consensus size: 23
6960751 TATTATTGAT
**
6960761 CAGTGGTAGCTTCGGCTACATTT
1 CAGTGGTAGCTTCGGCTACATAA
6960784 CAGTGGTAGCTTCGGCTACATAA
1 CAGTGGTAGCTTCGGCTACATAA
6960807 CAGTGGTAGCTTCGGCTACATAA
1 CAGTGGTAGCTTCGGCTACATAA
**
6960830 CAGTGGTAGCTTCAACTACATA
1 CAGTGGTAGCTTCGGCTACATA
6960852 TCAATGTTGC
Statistics
Matches: 64, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
23 64 1.00
ACGTcount: A:0.25, C:0.22, G:0.24, T:0.29
Consensus pattern (23 bp):
CAGTGGTAGCTTCGGCTACATAA
Found at i:6965732 original size:21 final size:19
Alignment explanation
Indices: 6965689--6965733 Score: 54
Period size: 21 Copynumber: 2.3 Consensus size: 19
6965679 ACATCGTTTT
* *
6965689 CAGAAGCTCGAAGGCTGAA
1 CAGAAGCTCGAAAGCTAAA
6965708 CAGAAGCTCATGAAAGCTAAA
1 CAGAAGCTC--GAAAGCTAAA
6965729 CAGAA
1 CAGAA
6965734 TACCATCAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 9 0.41
21 13 0.59
ACGTcount: A:0.44, C:0.20, G:0.24, T:0.11
Consensus pattern (19 bp):
CAGAAGCTCGAAAGCTAAA
Found at i:6965963 original size:101 final size:101
Alignment explanation
Indices: 6965775--6966014 Score: 390
Period size: 101 Copynumber: 2.4 Consensus size: 101
6965765 AATTCATCCT
* * *
6965775 TTACATTCATAGTGCCATAACCCAGTTATGGTCTTATCATCAGAATGCCACAGCCCAGCTATGGT
1 TTACGTTCATAGTGCCATAACCCAGTTATGGTCTTATCATCAGAATGCCACAGCCCAACTATAGT
* * * **
6965840 CTTACGTATAAACATTGTCATGGTTCAACCATGGTC
66 CTTACATATAAACACTGCCATGGGCCAACCATGGTC
*
6965876 TTACGTTCATAGTGCCATAACCCAGTTATGGTCTTATCATCAGAATGCCATAGCCCAACTATAGT
1 TTACGTTCATAGTGCCATAACCCAGTTATGGTCTTATCATCAGAATGCCACAGCCCAACTATAGT
6965941 CTTACATATAAACACTGCCATGGGCCAACCATGGTC
66 CTTACATATAAACACTGCCATGGGCCAACCATGGTC
*
6965977 TTACGTTCATAGTGCCATAACCCAGTTATGGTTTTATC
1 TTACGTTCATAGTGCCATAACCCAGTTATGGTCTTATC
6966015 GTCAATTCAT
Statistics
Matches: 129, Mismatches: 10, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
101 129 1.00
ACGTcount: A:0.28, C:0.25, G:0.16, T:0.31
Consensus pattern (101 bp):
TTACGTTCATAGTGCCATAACCCAGTTATGGTCTTATCATCAGAATGCCACAGCCCAACTATAGT
CTTACATATAAACACTGCCATGGGCCAACCATGGTC
Found at i:6966008 original size:33 final size:33
Alignment explanation
Indices: 6965865--6966000 Score: 94
Period size: 33 Copynumber: 4.1 Consensus size: 33
6965855 TGTCATGGTT
*
6965865 CAACCATGGTCTTACGTTCATAGTGCCATAACC
1 CAACTATGGTCTTACGTTCATAGTGCCATAACC
** * * * *
6965898 CAGTTATGGTCTTATC-ATCAGAATGCCATAGCC
1 CAACTATGGTCTTA-CGTTCATAGTGCCATAACC
* * * * * ***
6965931 CAACTATAGTCTTACATATAAACACTGCCATGGGC
1 CAACTATGGTCTTACGT-T-CATAGTGCCATAACC
*
6965966 CAACCATGGTCTTACGTTCATAGTGCCATAACC
1 CAACTATGGTCTTACGTTCATAGTGCCATAACC
6965999 CA
1 CA
6966001 GTTATGGTTT
Statistics
Matches: 74, Mismatches: 25, Indels: 8
0.69 0.23 0.07
Matches are distributed among these distances:
32 1 0.01
33 46 0.62
34 3 0.04
35 24 0.32
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (33 bp):
CAACTATGGTCTTACGTTCATAGTGCCATAACC
Found at i:6967990 original size:11 final size:11
Alignment explanation
Indices: 6967937--6967994 Score: 53
Period size: 11 Copynumber: 5.1 Consensus size: 11
6967927 TTTTATACTA
6967937 AATAAAATAAT
1 AATAAAATAAT
*
6967948 AACAAAATAAT
1 AATAAAATAAT
**
6967959 AATAAAACATCTT
1 AAT-AAA-ATAAT
* *
6967972 ATTAAAATATT
1 AATAAAATAAT
6967983 AATAAAATAAT
1 AATAAAATAAT
6967994 A
1 A
6967995 TTTATCTAAT
Statistics
Matches: 37, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
11 26 0.70
12 6 0.16
13 5 0.14
ACGTcount: A:0.66, C:0.05, G:0.00, T:0.29
Consensus pattern (11 bp):
AATAAAATAAT
Found at i:6969398 original size:44 final size:44
Alignment explanation
Indices: 6969346--6969489 Score: 252
Period size: 44 Copynumber: 3.3 Consensus size: 44
6969336 TTTTAATTGT
*
6969346 TATTATTAAATGAGATAATTAATTTAGCGTGGATATCTTTTCAA
1 TATTATTAAATGAGATAATTAATTTAGCGTGAATATCTTTTCAA
*
6969390 TACTATTAAATGAGATAATTAATTTAGCGTGAATATCTTTTCAA
1 TATTATTAAATGAGATAATTAATTTAGCGTGAATATCTTTTCAA
* *
6969434 TATTATTAAATGAGATAATTAATTTAGTGTAAATATCTTTTCAA
1 TATTATTAAATGAGATAATTAATTTAGCGTGAATATCTTTTCAA
6969478 TATTATTAAATG
1 TATTATTAAATG
6969490 GTTTGTATGA
Statistics
Matches: 95, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
44 95 1.00
ACGTcount: A:0.39, C:0.06, G:0.11, T:0.44
Consensus pattern (44 bp):
TATTATTAAATGAGATAATTAATTTAGCGTGAATATCTTTTCAA
Found at i:6969488 original size:21 final size:21
Alignment explanation
Indices: 6969421--6969488 Score: 59
Period size: 21 Copynumber: 3.1 Consensus size: 21
6969411 ATTTAGCGTG
6969421 AATATCTTTTCAATATTATTA
1 AATATCTTTTCAATATTATTA
** *
6969442 AATGAGATAATT-AAT-TTAGTGTA
1 AAT-ATCT-TTTCAATATTA-T-TA
6969465 AATATCTTTTCAATATTATTA
1 AATATCTTTTCAATATTATTA
6969486 AAT
1 AAT
6969489 GGTTTGTATG
Statistics
Matches: 35, Mismatches: 6, Indels: 12
0.66 0.11 0.23
Matches are distributed among these distances:
21 13 0.37
22 12 0.34
23 10 0.29
ACGTcount: A:0.41, C:0.06, G:0.06, T:0.47
Consensus pattern (21 bp):
AATATCTTTTCAATATTATTA
Found at i:6975632 original size:88 final size:88
Alignment explanation
Indices: 6975451--6975621 Score: 202
Period size: 88 Copynumber: 1.9 Consensus size: 88
6975441 AGCCTTTATA
* * ** *
6975451 TTTTTTGCACTTAATTGAGTACTTAAACTTTCAAAATGCATCGAAAAACCCCTTAAACTTTTCAA
1 TTTTTTGCACTCAATTGAGTACTTAAACTTTCAAAATACATAAAAAAACCCCTAAAACTTTTCAA
* *
6975516 AATAAGCAATGATGCCCCTATTT
66 AATAAGCAATGAAGCCCCTATCT
* * *
6975539 TTTTTTGCACTCAATTGCGTACTTAAATTTTCAAAATACATAAAAAAGA-CCCTCAAAATTTTTC
1 TTTTTTGCACTCAATTGAGTACTTAAACTTTCAAAATACATAAAAAA-ACCCCT-AAAACTTTTC
*
6975603 AATAA-AAGCAATTAAGCCC
64 AA-AATAAGCAATGAAGCCC
6975622 TTGCTTTTTT
Statistics
Matches: 70, Mismatches: 10, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
88 45 0.64
89 23 0.33
90 2 0.03
ACGTcount: A:0.38, C:0.20, G:0.08, T:0.34
Consensus pattern (88 bp):
TTTTTTGCACTCAATTGAGTACTTAAACTTTCAAAATACATAAAAAAACCCCTAAAACTTTTCAA
AATAAGCAATGAAGCCCCTATCT
Found at i:6975855 original size:21 final size:20
Alignment explanation
Indices: 6975839--6976022 Score: 93
Period size: 20 Copynumber: 9.3 Consensus size: 20
6975829 TTAAATTTTA
6975839 ATAAAAAATGTAAAAAT-TT
1 ATAAAAAATGTAAAAATATT
*
6975858 ATTAAAAAT-TAGAAAATAATT
1 ATAAAAAATGTA-AAAAT-ATT
* *
6975879 ATAAAAATTGTAAAAAAATT
1 ATAAAAAATGTAAAAATATT
*
6975899 ATAAAAAATTGTAAAAA-AAT
1 ATAAAAAA-TGTAAAAATATT
* * * *
6975919 ATAATATATATAGAAATA-T
1 ATAAAAAATGTAAAAATATT
*
6975938 AGAAAAAAAT-TATAAAAT-TT
1 A-TAAAAAATGTA-AAAATATT
* * *
6975958 -TATAAAGTCATAAGAAA-ATT
1 ATAAAAAAT-GTAA-AAATATT
6975978 ATAAAAAAATGTAAAAA-ATT
1 AT-AAAAAATGTAAAAATATT
*
6975998 AT-AAAATTCGTAAAAA-ATT
1 ATAAAAAAT-GTAAAAATATT
6976017 ATAAAA
1 ATAAAA
6976023 TTTATCGTAC
Statistics
Matches: 127, Mismatches: 21, Indels: 33
0.70 0.12 0.18
Matches are distributed among these distances:
18 12 0.09
19 36 0.28
20 47 0.37
21 25 0.20
22 7 0.06
ACGTcount: A:0.64, C:0.01, G:0.05, T:0.30
Consensus pattern (20 bp):
ATAAAAAATGTAAAAATATT
Found at i:6975865 original size:40 final size:41
Alignment explanation
Indices: 6975811--6975908 Score: 110
Period size: 40 Copynumber: 2.4 Consensus size: 41
6975801 AAAAATCAAT
* ** *
6975811 AAAAATTAAAAAAAATTATTAAAT-TTTAATAAAAAATGT-A
1 AAAAATTATAAAAAATTAGAAAATAATT-ATAAAAAATGTAA
* * *
6975851 AAAATTTATTAAAAATTAGAAAATAATTATAAAAATTGTAA
1 AAAAATTATAAAAAATTAGAAAATAATTATAAAAAATGTAA
6975892 AAAAATTATAAAAAATT
1 AAAAATTATAAAAAATT
6975909 GTAAAAAAAT
Statistics
Matches: 47, Mismatches: 9, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
40 29 0.62
41 18 0.38
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.33
Consensus pattern (41 bp):
AAAAATTATAAAAAATTAGAAAATAATTATAAAAAATGTAA
Found at i:6975895 original size:11 final size:11
Alignment explanation
Indices: 6975881--6975918 Score: 60
Period size: 11 Copynumber: 3.5 Consensus size: 11
6975871 AAATAATTAT
6975881 AAAAATTGTAA
1 AAAAATTGTAA
*
6975892 AAAAATTAT-A
1 AAAAATTGTAA
6975902 AAAAATTGTAA
1 AAAAATTGTAA
6975913 AAAAAT
1 AAAAAT
6975919 ATAATATATA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
10 9 0.38
11 15 0.62
ACGTcount: A:0.68, C:0.00, G:0.05, T:0.26
Consensus pattern (11 bp):
AAAAATTGTAA
Found at i:6975922 original size:40 final size:40
Alignment explanation
Indices: 6975839--6976022 Score: 121
Period size: 41 Copynumber: 4.7 Consensus size: 40
6975829 TTAAATTTTA
* * * *
6975839 ATAAAAAATGT-AAAAATTTATTAAAAATTAG-AAAATAATT
1 ATAAAAATTGTAAAAAAATTATAAAAAAAT-GTAAAA-AATT
* *
6975879 ATAAAAATTGTAAAAAAATTATAAAAAATTGTAAAAAAAT
1 ATAAAAATTGTAAAAAAATTATAAAAAAATGTAAAAAATT
* * * * * *
6975919 AT-AATA-TATATAGAAATATAGAAAAAAAT-TATAAAATT
1 ATAAAAATTGTAAAAAAAT-TATAAAAAAATGTAAAAAATT
* * ** *
6975957 TTATAAAGTCATAAGAAAATTATAAAAAAATGTAAAAAATT
1 ATA-AAAATTGTAAAAAAATTATAAAAAAATGTAAAAAATT
6975998 AT-AAAATTCGT-AAAAAATTATAAAA
1 ATAAAAATT-GTAAAAAAATTATAAAA
6976023 TTTATCGTAC
Statistics
Matches: 110, Mismatches: 26, Indels: 17
0.72 0.17 0.11
Matches are distributed among these distances:
38 16 0.15
39 29 0.26
40 29 0.26
41 36 0.33
ACGTcount: A:0.64, C:0.01, G:0.05, T:0.30
Consensus pattern (40 bp):
ATAAAAATTGTAAAAAAATTATAAAAAAATGTAAAAAATT
Found at i:6976010 original size:19 final size:19
Alignment explanation
Indices: 6975988--6976024 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
6975978 ATAAAAAAAT
6975988 GTAAAAAATTATAAAATTC
1 GTAAAAAATTATAAAATTC
6976007 GTAAAAAATTATAAAATT
1 GTAAAAAATTATAAAATT
6976025 TATCGTACCA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.59, C:0.03, G:0.05, T:0.32
Consensus pattern (19 bp):
GTAAAAAATTATAAAATTC
Found at i:6976027 original size:9 final size:9
Alignment explanation
Indices: 6975784--6975915 Score: 59
Period size: 10 Copynumber: 13.6 Consensus size: 9
6975774 ACATGTTGTA
*
6975784 AAAAATGAT
1 AAAAATTAT
*
6975793 AAAAA-AAT
1 AAAAATTAT
*
6975801 AAAAATCAAT
1 AAAAAT-TAT
*
6975811 AAAAATTAAA
1 AAAAATT-AT
6975821 AAAAATTATT
1 AAAAATTA-T
**
6975831 AAATTTTAAT
1 AAAAATT-AT
* *
6975841 AAAAAATGT
1 AAAAATTAT
6975850 AAAAATTTATT
1 AAAAA-TTA-T
*
6975861 AAAAATTAGA
1 AAAAATTA-T
6975871 AAATAATTAT
1 AAA-AATTAT
*
6975881 AAAAATTGTAA
1 AAAAA-T-TAT
6975892 AAAAATTAT
1 AAAAATTAT
*
6975901 AAAAAATTGT
1 -AAAAATTAT
6975911 AAAAA
1 AAAAA
6975916 AATATAATAT
Statistics
Matches: 94, Mismatches: 18, Indels: 22
0.70 0.13 0.16
Matches are distributed among these distances:
8 7 0.07
9 21 0.22
10 47 0.50
11 19 0.20
ACGTcount: A:0.67, C:0.01, G:0.04, T:0.29
Consensus pattern (9 bp):
AAAAATTAT
Found at i:6976221 original size:8 final size:8
Alignment explanation
Indices: 6976201--6976265 Score: 51
Period size: 9 Copynumber: 7.5 Consensus size: 8
6976191 TTTTTATGCA
6976201 TTTTATA-
1 TTTTATAT
6976208 TTTTATAT
1 TTTTATAT
6976216 TTTTATAAT
1 TTTTAT-AT
*
6976225 ATTTTAAAAT
1 -TTTT-ATAT
6976235 ATTTTATGAT
1 -TTTTAT-AT
6976245 TTTTATAAT
1 TTTTAT-AT
*
6976254 TTTTTTAT
1 TTTTATAT
6976262 TTTT
1 TTTT
6976266 TAAATAAATT
Statistics
Matches: 49, Mismatches: 4, Indels: 9
0.79 0.06 0.15
Matches are distributed among these distances:
7 7 0.14
8 12 0.24
9 16 0.33
10 13 0.27
11 1 0.02
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.69
Consensus pattern (8 bp):
TTTTATAT
Found at i:6976250 original size:9 final size:9
Alignment explanation
Indices: 6976208--6976267 Score: 59
Period size: 9 Copynumber: 6.6 Consensus size: 9
6976198 GCATTTTATA
6976208 TTTTAT-AT
1 TTTTATAAT
6976216 TTTTATAAT
1 TTTTATAAT
*
6976225 ATTTTAAAAT
1 -TTTTATAAT
*
6976235 ATTTTATGAT
1 -TTTTATAAT
6976245 TTTTATAAT
1 TTTTATAAT
* *
6976254 TTTTTTATT
1 TTTTATAAT
6976263 TTTTA
1 TTTTA
6976268 AATAAATTGT
Statistics
Matches: 43, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
8 6 0.14
9 21 0.49
10 16 0.37
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.68
Consensus pattern (9 bp):
TTTTATAAT
Found at i:6976267 original size:37 final size:37
Alignment explanation
Indices: 6976200--6976301 Score: 102
Period size: 38 Copynumber: 2.7 Consensus size: 37
6976190 TTTTTTATGC
* * *
6976200 ATTTTATA-TTTTAT-ATTTTTATAATATTTTAAA-AT
1 ATTTTATATTTTTATAATTTTT-TTATTTTTTAAATAA
6976235 ATTTTATGATTTTTATAATTTTTTTATTTTTTAAATAA
1 ATTTTAT-ATTTTTATAATTTTTTTATTTTTTAAATAA
* *
6976273 ATTGTAAATTTTTTATATATTTTTTTATT
1 ATTTTATA-TTTTTATA-ATTTTTTTATT
6976302 AAAATTAAAT
Statistics
Matches: 56, Mismatches: 5, Indels: 8
0.81 0.07 0.12
Matches are distributed among these distances:
35 7 0.12
36 1 0.02
37 17 0.30
38 20 0.36
39 11 0.20
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (37 bp):
ATTTTATATTTTTATAATTTTTTTATTTTTTAAATAA
Found at i:6976318 original size:32 final size:33
Alignment explanation
Indices: 6976249--6976321 Score: 84
Period size: 31 Copynumber: 2.4 Consensus size: 33
6976239 TATGATTTTT
*
6976249 ATAATTTTT-T-TATTTTTTAAATAAATTGTAA
1 ATAATTTTTATATATTTTTTAAATAAAATGTAA
* *
6976280 AT--TTTTTATATATTTTTTTATTAAAAT-TAA
1 ATAATTTTTATATATTTTTTAAATAAAATGTAA
6976310 ATAATTTTTATA
1 ATAATTTTTATA
6976322 ACTTTTATTG
Statistics
Matches: 35, Mismatches: 3, Indels: 7
0.78 0.07 0.16
Matches are distributed among these distances:
29 5 0.14
30 6 0.17
31 16 0.46
32 8 0.23
ACGTcount: A:0.38, C:0.00, G:0.01, T:0.60
Consensus pattern (33 bp):
ATAATTTTTATATATTTTTTAAATAAAATGTAA
Found at i:6978174 original size:13 final size:13
Alignment explanation
Indices: 6978156--6978182 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
6978146 TGAACCCATG
6978156 ATTCTCACATTTC
1 ATTCTCACATTTC
6978169 ATTCTCACATTTC
1 ATTCTCACATTTC
6978182 A
1 A
6978183 ATTCAATGTC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.26, C:0.30, G:0.00, T:0.44
Consensus pattern (13 bp):
ATTCTCACATTTC
Found at i:6978498 original size:23 final size:23
Alignment explanation
Indices: 6978408--6978498 Score: 98
Period size: 23 Copynumber: 4.1 Consensus size: 23
6978398 TACCTGATCA
*
6978408 ATATACGACTCAT-AAGTGCCTG
1 ATATACGACACATAAAGTGCCTG
* ** *
6978430 A-A-ACGACGCACGAGGTGCCTG
1 ATATACGACACATAAAGTGCCTG
* *
6978451 AAATACGACACATAAAGTGTCTG
1 ATATACGACACATAAAGTGCCTG
6978474 ATATACGACACATAAAGTGCCTG
1 ATATACGACACATAAAGTGCCTG
6978497 AT
1 AT
6978499 CGGCAAAGCC
Statistics
Matches: 56, Mismatches: 10, Indels: 5
0.79 0.14 0.07
Matches are distributed among these distances:
20 7 0.12
21 10 0.18
22 2 0.04
23 37 0.66
ACGTcount: A:0.36, C:0.22, G:0.21, T:0.21
Consensus pattern (23 bp):
ATATACGACACATAAAGTGCCTG
Found at i:6978855 original size:26 final size:25
Alignment explanation
Indices: 6978822--6978871 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
6978812 TAGTTCAATA
6978822 ATTCAATTCAA-ACCATTTCAATTTCT
1 ATTCAATT-AACA-CATTTCAATTTCT
*
6978848 ATTCAATTATCACATTTCAATTTC
1 ATTCAATTAACACATTTCAATTTC
6978872 ACTTTCTTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
25 13 0.59
26 9 0.41
ACGTcount: A:0.34, C:0.22, G:0.00, T:0.44
Consensus pattern (25 bp):
ATTCAATTAACACATTTCAATTTCT
Found at i:6979790 original size:3 final size:3
Alignment explanation
Indices: 6979782--6979828 Score: 94
Period size: 3 Copynumber: 15.7 Consensus size: 3
6979772 ATTAGTTAAC
6979782 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
6979829 ATATCTATTT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 44 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:6981915 original size:22 final size:22
Alignment explanation
Indices: 6981889--6981933 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
6981879 CTGTCAAACA
6981889 TTACTGTCTCCATTATGTGTTT
1 TTACTGTCTCCATTATGTGTTT
6981911 TTACTGTCTCCATTATGTGTTT
1 TTACTGTCTCCATTATGTGTTT
6981933 T
1 T
6981934 GTCCTTTTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.13, C:0.18, G:0.13, T:0.56
Consensus pattern (22 bp):
TTACTGTCTCCATTATGTGTTT
Found at i:6997541 original size:61 final size:61
Alignment explanation
Indices: 6997489--6997673 Score: 163
Period size: 61 Copynumber: 3.1 Consensus size: 61
6997479 TTATAGTATT
6997489 ATATATTATGATTTTAGAAAATTCATATAAGAATATTTAATATTAAGAATTTTATTAAATC
1 ATATATTATGATTTTAGAAAATTCATATAAGAATATTTAATATTAAGAATTTTATTAAATC
* * ** * * *
6997550 ATATATT-TTA-ATT--AAAA-T-ATAT-TTAATA-TTAATTATTTCATATATTTTA-TAGTATC
1 ATATATTATGATTTTAGAAAATTCATATAAGAATATTTAA-TA-TTAAGA-ATTTTATTA-AATC
* * * * *
6997606 ATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAATT
1 ATATATTATGATTTTAGAAAATTCATATAAGAATATTTAATATTAAGAATTTTATTAAATC
6997667 ATATATT
1 ATATATT
6997674 TTAATAAATA
Statistics
Matches: 92, Mismatches: 19, Indels: 26
0.67 0.14 0.19
Matches are distributed among these distances:
53 4 0.04
54 6 0.07
55 10 0.11
56 17 0.18
57 6 0.07
58 1 0.01
59 2 0.02
60 5 0.05
61 23 0.25
62 10 0.11
63 6 0.07
64 2 0.02
ACGTcount: A:0.43, C:0.03, G:0.06, T:0.48
Consensus pattern (61 bp):
ATATATTATGATTTTAGAAAATTCATATAAGAATATTTAATATTAAGAATTTTATTAAATC
Found at i:6997628 original size:117 final size:120
Alignment explanation
Indices: 6997424--6997706 Score: 441
Period size: 117 Copynumber: 2.4 Consensus size: 120
6997414 AGTATGATGA
* * *
6997424 TAAATTATATATTTTTATTAAATTATATTTAATAATAATTATGTTAAATTATATTTTATAGTATT
1 TAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAATTATATTTTATAGTATC
* *
6997489 ATATATTATGATTTTAGAAAATTCATATAAGAATATTTAATATTAAGAATTTTAT
66 ATATATTATGATTTGAGAAAATTCATATAAGAATATTGAATATTAAGAATTTTAT
* * *
6997544 TAAATCATATATTTTAATTAAAATATATTTAATATTAATTAT-TT-CA-TATATTTTATAGTATC
1 TAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAATTATATTTTATAGTATC
* *
6997606 ATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTAT
66 ATATATTATGATTTGAGAAAATTCATATAAGAATATTGAATATTAAGAATTTTAT
6997661 TAAATTATATATTTTAA-T-AAATATATTTAATAATAATTATGTTAAA
1 TAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAA
6997707 ATATGATTAA
Statistics
Matches: 148, Mismatches: 13, Indels: 7
0.88 0.08 0.04
Matches are distributed among these distances:
115 21 0.14
116 3 0.02
117 83 0.56
118 1 0.01
119 2 0.01
120 38 0.26
ACGTcount: A:0.44, C:0.02, G:0.05, T:0.49
Consensus pattern (120 bp):
TAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAATTATATTTTATAGTATC
ATATATTATGATTTGAGAAAATTCATATAAGAATATTGAATATTAAGAATTTTAT
Found at i:6997687 original size:26 final size:27
Alignment explanation
Indices: 6997658--6997727 Score: 65
Period size: 26 Copynumber: 2.6 Consensus size: 27
6997648 TTAAGAATTT
6997658 TATTAAATTATATATT-T-TAATAAATA
1 TATTAAATTATATATTATGTAA-AAATA
* * *
6997684 TATTTAATAATA-ATTATGTTAAAATA
1 TATTAAATTATATATTATGTAAAAATA
*
6997710 TGATTAAATTATTTATTA
1 T-ATTAAATTATATATTA
6997728 CTGATATTAA
Statistics
Matches: 34, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
25 3 0.09
26 17 0.50
27 10 0.29
28 4 0.12
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (27 bp):
TATTAAATTATATATTATGTAAAAATA
Found at i:6997944 original size:16 final size:16
Alignment explanation
Indices: 6997919--6997956 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
6997909 TTGATTTGCT
*
6997919 ATTACGCCTCTATTCC
1 ATTACACCTCTATTCC
6997935 ATTACACCTCTATTCC
1 ATTACACCTCTATTCC
*
6997951 AATACA
1 ATTACA
6997957 GCGAACCAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.29, C:0.34, G:0.03, T:0.34
Consensus pattern (16 bp):
ATTACACCTCTATTCC
Found at i:6998148 original size:44 final size:42
Alignment explanation
Indices: 6998098--6998212 Score: 106
Period size: 46 Copynumber: 2.6 Consensus size: 42
6998088 TTGTTATTAA
**
6998098 ATTTTAATAAAATTATTAATATAA-ATAATAAATAATTTAATCAT
1 ATTTTAATAAAATTATTAATATAATATAATAAA-AAAAT-AT-AT
* *
6998142 ATTTTAACATAATTATTATTAAATATAATTTAATAAAAAAATATAT
1 ATTTT-A-ATAA-AATTATT-AATATAATATAATAAAAAAATATAT
* *
6998188 AATTTAATAAAATTCTTAATATAAT
1 ATTTTAATAAAATTATTAATATAAT
6998213 TATTCTTATA
Statistics
Matches: 59, Mismatches: 7, Indels: 12
0.76 0.09 0.15
Matches are distributed among these distances:
42 8 0.14
43 5 0.08
44 9 0.15
45 2 0.03
46 10 0.17
47 8 0.14
48 10 0.17
49 7 0.12
ACGTcount: A:0.54, C:0.03, G:0.00, T:0.43
Consensus pattern (42 bp):
ATTTTAATAAAATTATTAATATAATATAATAAAAAAATATAT
Found at i:6998229 original size:57 final size:56
Alignment explanation
Indices: 6998113--6998236 Score: 142
Period size: 57 Copynumber: 2.2 Consensus size: 56
6998103 AATAAAATTA
* * *
6998113 TTAATATAAATAATAAATAATTTAATCATATTTTAACATAATTATTATTAAATATAAT
1 TTAATA-AAAAAATAAATAATTTAATAAAATTTTAACATAATTATTATT-AATATAAT
* * *
6998171 TTAATAAAAAAATATATAATTTAATAAAATTCTTAATATAATTATTCTT-ATATGAAT
1 TTAATAAAAAAATAAATAATTTAATAAAATT-TTAACATAATTATTATTAATAT-AAT
*
6998228 TTACTAAAA
1 TTAATAAAA
6998237 TCATAATATA
Statistics
Matches: 57, Mismatches: 7, Indels: 5
0.83 0.10 0.07
Matches are distributed among these distances:
56 4 0.07
57 32 0.56
58 21 0.37
ACGTcount: A:0.52, C:0.04, G:0.01, T:0.44
Consensus pattern (56 bp):
TTAATAAAAAAATAAATAATTTAATAAAATTTTAACATAATTATTATTAATATAAT
Found at i:7001110 original size:565 final size:565
Alignment explanation
Indices: 7000037--7001169 Score: 2194
Period size: 565 Copynumber: 2.0 Consensus size: 565
7000027 CATTGAATTT
7000037 CTTCTTCAATGTTTTCATTATCAGTGTCTTTGAGTAACTCTTTAGGCAACCATGAAGAATTATTT
1 CTTCTTCAATGTTTTCATTATCAGTGTCTTTGAGTAACTCTTTAGGCAACCATGAAGAATTATTT
*
7000102 ACACTATCAAGTGTAGCACCCTCTCTTTCTTGTAGACATAAATAAAACCCATTGTTGGCTTTTCA
66 ACACTATCAAGTGTAGCACCCTCTCTTTCTTGCAGACATAAATAAAACCCATTGTTGGCTTTTCA
* *
7000167 TTGCCATTACACATTCTCAGCCCTTTAAGAAAACACTATTCCATGTTTGGTTAAAAAAACACCTA
131 TCGCCATTACACATTCTCAGCACTTTAAGAAAACACTATTCCATGTTTGGTTAAAAAAACACCTA
7000232 ATTGGTCACTAAAAAATTTCCCACCATTGTCACTTCGAAATACTTATATTCTCACACCAAATTGT
196 ATTGGTCACTAAAAAATTTCCCACCATTGTCACTTCGAAATACTTATATTCTCACACCAAATTGT
*
7000297 GTTTTAATAAAAATACATTTTTAACTTCAGATTTATCTTTTAATAAAAACACCCAACAAATGCGA
261 GTTTTAATAAAAATACATTTTTAACTTCAGATTTATCTTTTAATAAAAACACCCAACAAATGAGA
*
7000362 GTATGATCATCAATAAATGTGACAAACCAACGTTTTCCTAAAAAAGTTGAGACTCTCGAAGGTCC
326 GTATGATCATCAATAAATGTGACAAACCAACGTTTTCCTAAAAAAGTTGAAACTCTCGAAGGTCC
7000427 TCAAATATCACTATGAATTAACGAAAAATGTTTGGAAGCTTTATATTTTTGAGGTGAAAAGAATG
391 TCAAATATCACTATGAATTAACGAAAAATGTTTGGAAGCTTTATATTTTTGAGGTGAAAAGAATG
7000492 ACCAATGATATTTAGCCAATTCACAAAATTTACTTTTTAAATAGATCAGGTAACAAATATGTTAA
456 ACCAATGATATTTAGCCAATTCACAAAATTTACTTTTTAAATAGATCAGGTAACAAATATGTTAA
7000557 ATAGTAAAAATTAAGATGTCCAAGCCTATAATATCAAATCATAAC
521 ATAGTAAAAATTAAGATGTCCAAGCCTATAATATCAAATCATAAC
7000602 CTTCTTCAATGTTTTCATTATCAGTGTCTTTGAGTAACTCTTTAGGCAACCATGAAGAATTATTT
1 CTTCTTCAATGTTTTCATTATCAGTGTCTTTGAGTAACTCTTTAGGCAACCATGAAGAATTATTT
*
7000667 ACACTATCAAGTGTAGCATCCTCTCTTTCTTGCAGACATAAATAAAACCCATTGTTGGCTTTTCA
66 ACACTATCAAGTGTAGCACCCTCTCTTTCTTGCAGACATAAATAAAACCCATTGTTGGCTTTTCA
7000732 TCGCCATTACACATTCTCAGCACTTTAAGAAAACACTATTCCATGTTTGGTTAAAAAAACACCTA
131 TCGCCATTACACATTCTCAGCACTTTAAGAAAACACTATTCCATGTTTGGTTAAAAAAACACCTA
7000797 ATTGGTCACTAAAAAATTTCCCACCATTGTCACTTCGAAATACTTATATTCTCACACCAAATTGT
196 ATTGGTCACTAAAAAATTTCCCACCATTGTCACTTCGAAATACTTATATTCTCACACCAAATTGT
7000862 GTTTTAATAAAAATACATTTTTAACTTCAGATTTATCTTTTAATAAAAACACCCAACAAATGAGA
261 GTTTTAATAAAAATACATTTTTAACTTCAGATTTATCTTTTAATAAAAACACCCAACAAATGAGA
7000927 GTATGATCATCAATAAATGTGACAAACCAACGTTTTCCTAAAAAAGTTGAAACTCTCGAAGGTCC
326 GTATGATCATCAATAAATGTGACAAACCAACGTTTTCCTAAAAAAGTTGAAACTCTCGAAGGTCC
7000992 TCAAATATCACTATGAATTAACGAAAAATGTTTGGAAGCTTTATATTTTTGAGGTGAAAAGAATG
391 TCAAATATCACTATGAATTAACGAAAAATGTTTGGAAGCTTTATATTTTTGAGGTGAAAAGAATG
* *
7001057 ACCAATGATGTTTAGCCAATTCACAAAATTTACTTTTTAAATAGATTAGGTAACAAATATGTTAA
456 ACCAATGATATTTAGCCAATTCACAAAATTTACTTTTTAAATAGATCAGGTAACAAATATGTTAA
7001122 ATAGTAAAAATTAAGATGTCCAAGCCTATAATATCAAATCATAAC
521 ATAGTAAAAATTAAGATGTCCAAGCCTATAATATCAAATCATAAC
7001167 CTT
1 CTT
7001170 ATCGAAACTA
Statistics
Matches: 560, Mismatches: 8, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
565 560 1.00
ACGTcount: A:0.37, C:0.18, G:0.11, T:0.33
Consensus pattern (565 bp):
CTTCTTCAATGTTTTCATTATCAGTGTCTTTGAGTAACTCTTTAGGCAACCATGAAGAATTATTT
ACACTATCAAGTGTAGCACCCTCTCTTTCTTGCAGACATAAATAAAACCCATTGTTGGCTTTTCA
TCGCCATTACACATTCTCAGCACTTTAAGAAAACACTATTCCATGTTTGGTTAAAAAAACACCTA
ATTGGTCACTAAAAAATTTCCCACCATTGTCACTTCGAAATACTTATATTCTCACACCAAATTGT
GTTTTAATAAAAATACATTTTTAACTTCAGATTTATCTTTTAATAAAAACACCCAACAAATGAGA
GTATGATCATCAATAAATGTGACAAACCAACGTTTTCCTAAAAAAGTTGAAACTCTCGAAGGTCC
TCAAATATCACTATGAATTAACGAAAAATGTTTGGAAGCTTTATATTTTTGAGGTGAAAAGAATG
ACCAATGATATTTAGCCAATTCACAAAATTTACTTTTTAAATAGATCAGGTAACAAATATGTTAA
ATAGTAAAAATTAAGATGTCCAAGCCTATAATATCAAATCATAAC
Found at i:7001683 original size:19 final size:19
Alignment explanation
Indices: 7001659--7001716 Score: 116
Period size: 19 Copynumber: 3.1 Consensus size: 19
7001649 TTCCTAAGTG
7001659 AATGGAGACCCTTCTATAT
1 AATGGAGACCCTTCTATAT
7001678 AATGGAGACCCTTCTATAT
1 AATGGAGACCCTTCTATAT
7001697 AATGGAGACCCTTCTATAT
1 AATGGAGACCCTTCTATAT
7001716 A
1 A
7001717 GCTTTGGCCC
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 39 1.00
ACGTcount: A:0.33, C:0.21, G:0.16, T:0.31
Consensus pattern (19 bp):
AATGGAGACCCTTCTATAT
Found at i:7009459 original size:6 final size:6
Alignment explanation
Indices: 7009434--7009502 Score: 106
Period size: 6 Copynumber: 11.5 Consensus size: 6
7009424 TATAGATATA
7009434 TTTTC- TTTTC- TTTTCTT TTTTCTT TTTTCT TTTTCT TTTTCT TTTTCT
1 TTTTCT TTTTCT TTTTC-T TTTTC-T TTTTCT TTTTCT TTTTCT TTTTCT
7009482 TTTTCT TTTTCT TTTTCT TTT
1 TTTTCT TTTTCT TTTTCT TTT
7009503 GAACATGAAT
Statistics
Matches: 62, Mismatches: 0, Indels: 3
0.95 0.00 0.05
Matches are distributed among these distances:
5 10 0.16
6 40 0.65
7 12 0.19
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (6 bp):
TTTTCT
Found at i:7010503 original size:18 final size:17
Alignment explanation
Indices: 7010472--7010532 Score: 72
Period size: 18 Copynumber: 3.5 Consensus size: 17
7010462 AAATAATTCT
7010472 AAGAAAAT-AAAAATAA
1 AAGAAAATAAAAAATAA
7010488 ACAGAAAATAAAAAATAA
1 A-AGAAAATAAAAAATAA
*
7010506 AA-AATAATAAGAAAAGAA
1 AAGAA-AATAA-AAAATAA
7010524 AAGAAAATA
1 AAGAAAATA
7010533 GACTCAATGA
Statistics
Matches: 39, Mismatches: 1, Indels: 8
0.81 0.02 0.17
Matches are distributed among these distances:
16 3 0.08
17 13 0.33
18 21 0.54
19 2 0.05
ACGTcount: A:0.79, C:0.02, G:0.08, T:0.11
Consensus pattern (17 bp):
AAGAAAATAAAAAATAA
Found at i:7010508 original size:25 final size:24
Alignment explanation
Indices: 7010475--7010525 Score: 68
Period size: 25 Copynumber: 2.1 Consensus size: 24
7010465 TAATTCTAAG
*
7010475 AAAATAAAAATAA-ACAGAAAATAA
1 AAAATAAAAATAATA-AGAAAAGAA
7010499 AAAATAAAAAATAATAAGAAAAGAA
1 AAAAT-AAAAATAATAAGAAAAGAA
7010524 AA
1 AA
7010526 GAAAATAGAC
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
24 5 0.21
25 18 0.75
26 1 0.04
ACGTcount: A:0.80, C:0.02, G:0.06, T:0.12
Consensus pattern (24 bp):
AAAATAAAAATAATAAGAAAAGAA
Found at i:7013059 original size:24 final size:24
Alignment explanation
Indices: 7013027--7013089 Score: 65
Period size: 24 Copynumber: 2.6 Consensus size: 24
7013017 TCGAGCTGTA
*
7013027 ATCGAGAAGCTCATACGAGCCA-AT
1 ATCGGGAAGCTCATA-GAGCCATAT
* **
7013051 ATTGGGAAGCTCCGGAGAGCCATAT
1 ATCGGGAAGCT-CATAGAGCCATAT
7013076 ATCGGGAAGCTCAT
1 ATCGGGAAGCTCAT
7013090 GAAAGAGCCT
Statistics
Matches: 30, Mismatches: 7, Indels: 4
0.73 0.17 0.10
Matches are distributed among these distances:
24 16 0.53
25 14 0.47
ACGTcount: A:0.32, C:0.22, G:0.27, T:0.19
Consensus pattern (24 bp):
ATCGGGAAGCTCATAGAGCCATAT
Found at i:7013120 original size:27 final size:27
Alignment explanation
Indices: 7013043--7013121 Score: 67
Period size: 27 Copynumber: 3.0 Consensus size: 27
7013033 AAGCTCATAC
* *
7013043 GAGCCA-ATATTGGGAAGCTCCGG--A
1 GAGCCATATATCGAGAAGCTCCGGAAA
* **
7013067 GAGCCATATATCGGGAAGCTCATGAAA
1 GAGCCATATATCGAGAAGCTCCGGAAA
*
7013094 GAGCC-TTTAATCGAGAAGCTCCGGAAA
1 GAGCCATAT-ATCGAGAAGCTCCGGAAA
7013121 G
1 G
7013122 TCCTATATCC
Statistics
Matches: 44, Mismatches: 7, Indels: 5
0.79 0.12 0.09
Matches are distributed among these distances:
24 6 0.14
25 14 0.32
26 2 0.05
27 22 0.50
ACGTcount: A:0.33, C:0.20, G:0.29, T:0.18
Consensus pattern (27 bp):
GAGCCATATATCGAGAAGCTCCGGAAA
Found at i:7013300 original size:24 final size:24
Alignment explanation
Indices: 7013241--7013301 Score: 68
Period size: 24 Copynumber: 2.5 Consensus size: 24
7013231 GTATCAGGTA
* * * *
7013241 GCTCAAGAGAGCCAATATCGGGAT
1 GCTCATGAGAGCTAATAACGGGAC
7013265 GCTCATGAGAGCTAATAACGGGAC
1 GCTCATGAGAGCTAATAACGGGAC
* *
7013289 GCTCTTGGGAGCT
1 GCTCATGAGAGCT
7013302 GTGGTATGTC
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 31 1.00
ACGTcount: A:0.28, C:0.21, G:0.31, T:0.20
Consensus pattern (24 bp):
GCTCATGAGAGCTAATAACGGGAC
Found at i:7021326 original size:31 final size:31
Alignment explanation
Indices: 7021288--7021356 Score: 102
Period size: 31 Copynumber: 2.2 Consensus size: 31
7021278 CCTTAACCAT
*
7021288 ATTAAATTACCACAATAGTTAGTACATCCCA
1 ATTAAATTACCACAATAGTTAGTACATCACA
* * *
7021319 ATTAAATTACCATATTAGTTAGTATATCACA
1 ATTAAATTACCACAATAGTTAGTACATCACA
7021350 ATTAAAT
1 ATTAAAT
7021357 AAAAAATAGT
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 34 1.00
ACGTcount: A:0.43, C:0.16, G:0.06, T:0.35
Consensus pattern (31 bp):
ATTAAATTACCACAATAGTTAGTACATCACA
Found at i:7024755 original size:11 final size:11
Alignment explanation
Indices: 7024739--7024765 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
7024729 TTTATAACTT
7024739 AATTTGGATAC
1 AATTTGGATAC
7024750 AATTTGGATAC
1 AATTTGGATAC
7024761 AATTT
1 AATTT
7024766 AAGCATAAGC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.37, C:0.07, G:0.15, T:0.41
Consensus pattern (11 bp):
AATTTGGATAC
Found at i:7027034 original size:18 final size:18
Alignment explanation
Indices: 7027011--7027055 Score: 72
Period size: 18 Copynumber: 2.5 Consensus size: 18
7027001 ATCCCAATGA
*
7027011 TCGCCACCTCCTTCTTCT
1 TCGCCACCACCTTCTTCT
7027029 TCGCCACCACCTTCTTCT
1 TCGCCACCACCTTCTTCT
*
7027047 TCACCACCA
1 TCGCCACCA
7027056 ACCATATCAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.13, C:0.51, G:0.04, T:0.31
Consensus pattern (18 bp):
TCGCCACCACCTTCTTCT
Found at i:7027917 original size:3 final size:3
Alignment explanation
Indices: 7027909--7027958 Score: 100
Period size: 3 Copynumber: 16.7 Consensus size: 3
7027899 TCTTAATACT
7027909 AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC
1 AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC
7027957 AA
1 AA
7027959 TAATAATAAT
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 47 1.00
ACGTcount: A:0.68, C:0.32, G:0.00, T:0.00
Consensus pattern (3 bp):
AAC
Found at i:7028236 original size:27 final size:26
Alignment explanation
Indices: 7028198--7028291 Score: 100
Period size: 27 Copynumber: 3.5 Consensus size: 26
7028188 AACACGAGTA
*
7028198 GTGCCGTCAATCAGTATGGCACCATTG
1 GTGCCGCCAATCAGT-TGGCACCATTG
**
7028225 GTGCCGCCAATCTCCTTGGCACCATTG
1 GTGCCGCCAATC-AGTTGGCACCATTG
* *
7028252 GTGCCGCCAATGGC-TTTGGCACCTTTG
1 GTGCCGCCAAT--CAGTTGGCACCATTG
7028279 GTGCCGCCAATCA
1 GTGCCGCCAATCA
7028292 CCTTGGCCTG
Statistics
Matches: 58, Mismatches: 5, Indels: 9
0.81 0.07 0.12
Matches are distributed among these distances:
25 1 0.02
27 55 0.95
28 1 0.02
29 1 0.02
ACGTcount: A:0.17, C:0.32, G:0.26, T:0.26
Consensus pattern (26 bp):
GTGCCGCCAATCAGTTGGCACCATTG
Found at i:7028297 original size:27 final size:27
Alignment explanation
Indices: 7028214--7028298 Score: 125
Period size: 27 Copynumber: 3.1 Consensus size: 27
7028204 TCAATCAGTA
*
7028214 TGGCACCATTGGTGCCGCCAATCTCCT
1 TGGCACCATTGGTGCCGCCAATCACCT
** *
7028241 TGGCACCATTGGTGCCGCCAATGGCTT
1 TGGCACCATTGGTGCCGCCAATCACCT
*
7028268 TGGCACCTTTGGTGCCGCCAATCACCT
1 TGGCACCATTGGTGCCGCCAATCACCT
7028295 TGGC
1 TGGC
7028299 CTGACCAGGG
Statistics
Matches: 51, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 51 1.00
ACGTcount: A:0.14, C:0.34, G:0.26, T:0.26
Consensus pattern (27 bp):
TGGCACCATTGGTGCCGCCAATCACCT
Found at i:7033666 original size:27 final size:27
Alignment explanation
Indices: 7033628--7033681 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
7033618 ATCTAATGAG
7033628 AGAATGTAAAATTATTATTACAGAATA
1 AGAATGTAAAATTATTATTACAGAATA
7033655 AGAATGTAAAATTATTATTACAGAATA
1 AGAATGTAAAATTATTATTACAGAATA
7033682 TGAAGGAAGA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.52, C:0.04, G:0.11, T:0.33
Consensus pattern (27 bp):
AGAATGTAAAATTATTATTACAGAATA
Found at i:7037901 original size:24 final size:27
Alignment explanation
Indices: 7037859--7037926 Score: 81
Period size: 24 Copynumber: 2.7 Consensus size: 27
7037849 AATGGAGTTC
*
7037859 TTATAAATAAATACT-AATAACT-TTA
1 TTATAAATAAATATTAAATAACTATTA
* *
7037884 TT-TAAATATA-ATTAAATAATTATTA
1 TTATAAATAAATATTAAATAACTATTA
7037909 TTATAAATAAATATTAAA
1 TTATAAATAAATATTAAA
7037927 CCCGAGACCC
Statistics
Matches: 35, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
23 2 0.06
24 13 0.37
25 7 0.20
26 7 0.20
27 6 0.17
ACGTcount: A:0.54, C:0.03, G:0.00, T:0.43
Consensus pattern (27 bp):
TTATAAATAAATATTAAATAACTATTA
Done.