Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold184
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: 2218657
ACGTcount: A:0.30, C:0.17, G:0.16, T:0.30
Warning! 156408 characters in sequence are not A, C, G, or T
File 5 of 13
Found at i:741861 original size:17 final size:16
Alignment explanation
Indices: 741822--741863 Score: 57
Period size: 17 Copynumber: 2.6 Consensus size: 16
741812 GTATAATATA
*
741822 AAAATAAATAAATAAT
1 AAAATAAATAAAAAAT
741838 AAAATAATATAAAAAAT
1 AAAATAA-ATAAAAAAT
*
741855 AATATAAAT
1 AAAATAAAT
741864 GAATATATTA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
16 9 0.39
17 14 0.61
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (16 bp):
AAAATAAATAAAAAAT
Found at i:741871 original size:24 final size:21
Alignment explanation
Indices: 741814--741870 Score: 75
Period size: 19 Copynumber: 2.8 Consensus size: 21
741804 AATTTTAAGT
*
741814 ATAATATAAA-AATA-AATAA
1 ATAATATAAATAATATAAAAA
741833 ATAATA-AAATAATATAAAAA
1 ATAATATAAATAATATAAAAA
741853 ATAATATAAATGAATATA
1 ATAATATAAAT-AATATA
741871 TTAAAATTTA
Statistics
Matches: 33, Mismatches: 1, Indels: 5
0.85 0.03 0.13
Matches are distributed among these distances:
18 3 0.09
19 10 0.30
20 10 0.30
21 4 0.12
22 6 0.18
ACGTcount: A:0.70, C:0.00, G:0.02, T:0.28
Consensus pattern (21 bp):
ATAATATAAATAATATAAAAA
Found at i:747564 original size:37 final size:37
Alignment explanation
Indices: 747509--747606 Score: 117
Period size: 37 Copynumber: 2.6 Consensus size: 37
747499 GATAAGTAAT
* * *
747509 ATTTGGGTAGC-TTGGCCAATTCACTATGATTGTTAGT
1 ATTTGGGTAGCAGT-GCCAATCCACTATGATTGTTAGA
*
747546 ATTTGGGTGGCAGTGCCAATCCACTATGATTGTTAGA
1 ATTTGGGTAGCAGTGCCAATCCACTATGATTGTTAGA
* * *
747583 ATTTTGGTAGCAGCGTCAATCCAC
1 ATTTGGGTAGCAGTGCCAATCCAC
747607 GAAAAATAAA
Statistics
Matches: 52, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
37 51 0.98
38 1 0.02
ACGTcount: A:0.23, C:0.17, G:0.24, T:0.35
Consensus pattern (37 bp):
ATTTGGGTAGCAGTGCCAATCCACTATGATTGTTAGA
Found at i:750278 original size:17 final size:17
Alignment explanation
Indices: 750253--750315 Score: 65
Period size: 17 Copynumber: 3.7 Consensus size: 17
750243 TCAATAAAAA
*
750253 TAAATTTTTTATTTTAT
1 TAAAATTTTTATTTTAT
* *
750270 TAAAATTTTTA-TATAA
1 TAAAATTTTTATTTTAT
*
750286 GAAAATTTTTTATTTTAT
1 TAAAA-TTTTTATTTTAT
*
750304 TAATATTTTTAT
1 TAAAATTTTTAT
750316 ATATAGTAAT
Statistics
Matches: 36, Mismatches: 8, Indels: 4
0.75 0.17 0.08
Matches are distributed among these distances:
16 7 0.19
17 23 0.64
18 6 0.17
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.62
Consensus pattern (17 bp):
TAAAATTTTTATTTTAT
Found at i:750296 original size:34 final size:34
Alignment explanation
Indices: 750254--750318 Score: 121
Period size: 34 Copynumber: 1.9 Consensus size: 34
750244 CAATAAAAAT
750254 AAATTTTTTATTTTATTAAAATTTTTATATAAGA
1 AAATTTTTTATTTTATTAAAATTTTTATATAAGA
*
750288 AAATTTTTTATTTTATTAATATTTTTATATA
1 AAATTTTTTATTTTATTAAAATTTTTATATA
750319 TAGTAATAAG
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 30 1.00
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (34 bp):
AAATTTTTTATTTTATTAAAATTTTTATATAAGA
Found at i:750771 original size:161 final size:161
Alignment explanation
Indices: 750506--750827 Score: 635
Period size: 161 Copynumber: 2.0 Consensus size: 161
750496 CCAACCAAAA
750506 GTATAATCGCAAATTTTATTCTCACAACTGATCATCGATGCAAATATATATTCATTGTTTTAGAA
1 GTATAATCGCAAATTTTATTCTCACAACTGATCATCGATGCAAATATATATTCATTGTTTTAGAA
750571 TAAATTGGTTATAGATGCTGATACGACCTAACTCTCTGCTCCTCTTTAGTTATTCGATAATCAAG
66 TAAATTGGTTATAGATGCTGATACGACCTAACTCTCTGCTCCTCTTTAGTTATTCGATAATCAAG
750636 GTACGACCGTTAAATATTTCACTTATTGATT
131 GTACGACCGTTAAATATTTCACTTATTGATT
*
750667 GTATAATCGCAAGTTTTATTCTCACAACTGATCATCGATGCAAATATATATTCATTGTTTTAGAA
1 GTATAATCGCAAATTTTATTCTCACAACTGATCATCGATGCAAATATATATTCATTGTTTTAGAA
750732 TAAATTGGTTATAGATGCTGATACGACCTAACTCTCTGCTCCTCTTTAGTTATTCGATAATCAAG
66 TAAATTGGTTATAGATGCTGATACGACCTAACTCTCTGCTCCTCTTTAGTTATTCGATAATCAAG
750797 GTACGACCGTTAAATATTTCACTTATTGATT
131 GTACGACCGTTAAATATTTCACTTATTGATT
750828 ACACAAACCC
Statistics
Matches: 160, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
161 160 1.00
ACGTcount: A:0.31, C:0.17, G:0.13, T:0.39
Consensus pattern (161 bp):
GTATAATCGCAAATTTTATTCTCACAACTGATCATCGATGCAAATATATATTCATTGTTTTAGAA
TAAATTGGTTATAGATGCTGATACGACCTAACTCTCTGCTCCTCTTTAGTTATTCGATAATCAAG
GTACGACCGTTAAATATTTCACTTATTGATT
Found at i:752288 original size:16 final size:16
Alignment explanation
Indices: 752260--752298 Score: 62
Period size: 16 Copynumber: 2.4 Consensus size: 16
752250 AAATTCACAA
752260 TTTTTTTTCAAATTTT
1 TTTTTTTTCAAATTTT
752276 TTTCTTTTT-AAATTTT
1 TTT-TTTTTCAAATTTT
752292 TTTTTTT
1 TTTTTTT
752299 ATTTTTTCTT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 4 0.18
16 13 0.59
17 5 0.23
ACGTcount: A:0.15, C:0.05, G:0.00, T:0.79
Consensus pattern (16 bp):
TTTTTTTTCAAATTTT
Found at i:753349 original size:41 final size:41
Alignment explanation
Indices: 753298--753401 Score: 111
Period size: 41 Copynumber: 2.5 Consensus size: 41
753288 AAACTCTTTT
* * *
753298 TTTGATAAGGCGTGGGCATGTTAAG-AAACTAAAAGCTCTTG
1 TTTGATAAGGCGTGGGCACGCTAAGAAAAC-AAAAGCTCTTA
* * * *
753339 TTTGATAAGGCATGGGTACGCTAAGAAAACAGAAGTTCTTA
1 TTTGATAAGGCGTGGGCACGCTAAGAAAACAAAAGCTCTTA
* *
753380 TTTGATAAAGCGTGGGTACGCT
1 TTTGATAAGGCGTGGGCACGCT
753402 CTATGAAAAG
Statistics
Matches: 53, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
41 49 0.92
42 4 0.08
ACGTcount: A:0.32, C:0.12, G:0.27, T:0.29
Consensus pattern (41 bp):
TTTGATAAGGCGTGGGCACGCTAAGAAAACAAAAGCTCTTA
Found at i:759433 original size:28 final size:28
Alignment explanation
Indices: 759374--759439 Score: 71
Period size: 28 Copynumber: 2.3 Consensus size: 28
759364 GTCACATATA
* *
759374 AATAAAAAATAAAAAATAATTAAAATAG
1 AATAAAATATAAAAAATAATTAAAATAC
* *
759402 AATAAAATATAATAAATAA-TATAATCAC
1 AATAAAATATAAAAAATAATTAAAAT-AC
759430 AATATAAATA
1 AATA-AAATA
759440 CGAAATAAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
27 5 0.16
28 22 0.69
29 5 0.16
ACGTcount: A:0.70, C:0.03, G:0.02, T:0.26
Consensus pattern (28 bp):
AATAAAATATAAAAAATAATTAAAATAC
Found at i:761188 original size:2 final size:2
Alignment explanation
Indices: 761181--761216 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
761171 ATAACCAAAG
761181 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
761217 TATATATAAT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:770055 original size:87 final size:87
Alignment explanation
Indices: 769909--770094 Score: 277
Period size: 87 Copynumber: 2.1 Consensus size: 87
769899 AATATCCCTT
*
769909 GTATTATACCATTTTTATTATTTAAATTCTTTATAAATTTTCATTCCTTGTTGAGTACTTATTGT
1 GTATTATACCATTTTTATTATTTAAATTCTTTATAAATTTTCATTCCTTGTTGAATACTTATTGT
*
769974 ATAATTTCATCAGAACAACTTA
66 ATAATTTCATCAAAACAACTTA
*
769996 GTATTATACCATTTTTATTATTTAGATAT-TTTATAAATTTTCATT-CTTAGTTGAATACTTATT
1 GTATTATACCATTTTTATTATTTAAAT-TCTTTATAAATTTTCATTCCTT-GTTGAATACTTATT
** *
770059 GTATAATTTTGTTAAAACAACTTA
64 GTATAATTTCATCAAAACAACTTA
*
770083 GTATTTTACCAT
1 GTATTATACCAT
770095 AATACTGTTA
Statistics
Matches: 90, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
86 3 0.03
87 86 0.96
88 1 0.01
ACGTcount: A:0.32, C:0.11, G:0.07, T:0.51
Consensus pattern (87 bp):
GTATTATACCATTTTTATTATTTAAATTCTTTATAAATTTTCATTCCTTGTTGAATACTTATTGT
ATAATTTCATCAAAACAACTTA
Found at i:770198 original size:23 final size:22
Alignment explanation
Indices: 770168--770210 Score: 59
Period size: 23 Copynumber: 1.9 Consensus size: 22
770158 AATATCATCT
* *
770168 TATAAAAAGTTTAAATTAAAAA
1 TATAAAAAATTTAAAATAAAAA
770190 TATATAAAAATTTAAAATAAA
1 TATA-AAAAATTTAAAATAAA
770211 TTCATTTTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 4 0.22
23 14 0.78
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (22 bp):
TATAAAAAATTTAAAATAAAAA
Found at i:771198 original size:16 final size:16
Alignment explanation
Indices: 771177--771208 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
771167 CCAACTGCCT
771177 TTTGTGTAGACAAAGC
1 TTTGTGTAGACAAAGC
771193 TTTGTGTAGACAAAGC
1 TTTGTGTAGACAAAGC
771209 CCTATCAAAG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.31, C:0.12, G:0.25, T:0.31
Consensus pattern (16 bp):
TTTGTGTAGACAAAGC
Found at i:776346 original size:6 final size:6
Alignment explanation
Indices: 776335--776390 Score: 67
Period size: 6 Copynumber: 9.0 Consensus size: 6
776325 GGGTGCCATA
* * *
776335 TATATG TATATG TATATG TATATG TATGTATG TATATA TATATA TATATA
1 TATATG TATATG TATATG TATATG TA--TATG TATATG TATATG TATATG
776385 TATATG
1 TATATG
776391 ACGTAGCTTT
Statistics
Matches: 46, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
6 40 0.87
8 6 0.13
ACGTcount: A:0.38, C:0.00, G:0.12, T:0.50
Consensus pattern (6 bp):
TATATG
Found at i:776374 original size:4 final size:4
Alignment explanation
Indices: 776332--776389 Score: 62
Period size: 4 Copynumber: 14.5 Consensus size: 4
776322 ATTGGGTGCC
* * * * * *
776332 ATAT ATAT GTAT ATGT ATAT GTAT ATGT ATGT ATGT ATAT ATAT ATAT
1 ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT
776380 ATAT ATAT AT
1 ATAT ATAT AT
776390 GACGTAGCTT
Statistics
Matches: 46, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
4 46 1.00
ACGTcount: A:0.40, C:0.00, G:0.10, T:0.50
Consensus pattern (4 bp):
ATAT
Found at i:777847 original size:24 final size:25
Alignment explanation
Indices: 777816--777863 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 25
777806 TATATGTATT
*
777816 ATTTATATTTTTA-ATAAA-AAATC
1 ATTTATATATTTATATAAATAAATC
777839 ATTTCATATATTTATATAAATAAAT
1 ATTT-ATATATTTATATAAATAAAT
777864 TAAATTTATC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
23 4 0.19
24 8 0.38
25 5 0.24
26 4 0.19
ACGTcount: A:0.48, C:0.04, G:0.00, T:0.48
Consensus pattern (25 bp):
ATTTATATATTTATATAAATAAATC
Found at i:779108 original size:19 final size:19
Alignment explanation
Indices: 779086--779129 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
779076 TGTATATATA
* **
779086 TTATATTTATTTTTTATTT
1 TTATATTTATTATAAATTT
779105 TTATATTTATTATAAATTT
1 TTATATTTATTATAAATTT
779124 TTATAT
1 TTATAT
779130 ATTAATAATT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (19 bp):
TTATATTTATTATAAATTT
Found at i:779173 original size:30 final size:29
Alignment explanation
Indices: 779068--779175 Score: 82
Period size: 30 Copynumber: 3.6 Consensus size: 29
779058 AGACGAATAA
*
779068 ATAATTTATGTATATATATTATATTTATTTTTT
1 ATAATTT-TATAT-TATATTATA--TATTTTTT
*
779101 AT--TTTTATATT-TATTATA-AATTTTT
1 ATAATTTTATATTATATTATATATTTTTT
*
779126 AT-ATATTAATAATTTATATTATATATTTTTT
1 ATAAT-TTTAT-A-TTATATTATATATTTTTT
779157 ATACATTTTATATTATATT
1 ATA-ATTTTATATTATATT
779176 CGTATGTTTT
Statistics
Matches: 62, Mismatches: 5, Indels: 19
0.72 0.06 0.22
Matches are distributed among these distances:
25 8 0.13
26 1 0.02
27 4 0.06
28 8 0.13
29 3 0.05
30 18 0.29
31 12 0.19
32 4 0.06
33 4 0.06
ACGTcount: A:0.35, C:0.01, G:0.01, T:0.63
Consensus pattern (29 bp):
ATAATTTTATATTATATTATATATTTTTT
Found at i:780032 original size:20 final size:17
Alignment explanation
Indices: 780007--780054 Score: 55
Period size: 16 Copynumber: 2.8 Consensus size: 17
779997 ATATAAATTT
780007 TTATATATTAATAATTAATA
1 TTATATATT-AT--TTAATA
780027 TTATATA-TATTTAATA
1 TTATATATTATTTAATA
780043 TTATATA-TATTT
1 TTATATATTATTT
780055 TAAAAATATG
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
16 18 0.64
18 2 0.07
19 1 0.04
20 7 0.25
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (17 bp):
TTATATATTATTTAATA
Found at i:780042 original size:16 final size:16
Alignment explanation
Indices: 780021--780054 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
780011 ATATTAATAA
780021 TTAATATTATATATAT
1 TTAATATTATATATAT
780037 TTAATATTATATATAT
1 TTAATATTATATATAT
780053 TT
1 TT
780055 TAAAAATATG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (16 bp):
TTAATATTATATATAT
Found at i:789655 original size:209 final size:209
Alignment explanation
Indices: 789295--789716 Score: 808
Period size: 209 Copynumber: 2.0 Consensus size: 209
789285 GAGGGGAAAA
*
789295 TTACCTCGATATCATCATGGTGCCAAACTCATATCTAGGTCCCATTTATCTTTATTATTTTTTTT
1 TTACCTCGATATCATCATGGTGCCAAACTCATATCTAGGTCCCATTTATCTTTATTAATTTTTTT
*
789360 GGTTAATATATAACTATAAATTGTTAATACTAATATAGGCATAACCTAAACCAAACCCGATTTAA
66 GGTTAATAAATAACTATAAATTGTTAATACTAATATAGGCATAACCTAAACCAAACCCGATTTAA
789425 CTTACAAAATCTACAATAAAATTTCTTCTAGAGCTAAATTTGCAAATTAAAAAATTACTTTAATT
131 CTTACAAAATCTACAATAAAATTTCTTCTAGAGCTAAATTTGCAAATTAAAAAATTACTTTAATT
789490 TCAATATTTTGTTG
196 TCAATATTTTGTTG
789504 TTACCTCGATATCATCATGGTGCCAAACTCATATCTAGGTCCCATTTATCTTTATTAATTTTTTT
1 TTACCTCGATATCATCATGGTGCCAAACTCATATCTAGGTCCCATTTATCTTTATTAATTTTTTT
789569 GGTTAATAAATAACTATAAATTGTTAATACTAATATAGGCATAACCTAAACCAAACCCGATTTAA
66 GGTTAATAAATAACTATAAATTGTTAATACTAATATAGGCATAACCTAAACCAAACCCGATTTAA
* *
789634 CTTACAAAATCTACAATAAAATTTCTTTTAGAGCTAAATTTGCAAATTAAAATATTACTTTAATT
131 CTTACAAAATCTACAATAAAATTTCTTCTAGAGCTAAATTTGCAAATTAAAAAATTACTTTAATT
789699 TCAATATTTTGTTG
196 TCAATATTTTGTTG
789713 TTAC
1 TTAC
789717 GTGGATATTA
Statistics
Matches: 209, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
209 209 1.00
ACGTcount: A:0.36, C:0.16, G:0.08, T:0.39
Consensus pattern (209 bp):
TTACCTCGATATCATCATGGTGCCAAACTCATATCTAGGTCCCATTTATCTTTATTAATTTTTTT
GGTTAATAAATAACTATAAATTGTTAATACTAATATAGGCATAACCTAAACCAAACCCGATTTAA
CTTACAAAATCTACAATAAAATTTCTTCTAGAGCTAAATTTGCAAATTAAAAAATTACTTTAATT
TCAATATTTTGTTG
Found at i:790446 original size:20 final size:21
Alignment explanation
Indices: 790421--790469 Score: 66
Period size: 20 Copynumber: 2.4 Consensus size: 21
790411 AAAAGTTTAT
790421 AAGTTGTGAAAG-AATGTCAA
1 AAGTTGTGAAAGAAATGTCAA
* *
790441 AAGTTGTG-ACGAAATGTCAC
1 AAGTTGTGAAAGAAATGTCAA
790461 AAGTTGTGA
1 AAGTTGTGA
790470 TGAAATTAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 2 0.08
20 23 0.92
ACGTcount: A:0.39, C:0.08, G:0.27, T:0.27
Consensus pattern (21 bp):
AAGTTGTGAAAGAAATGTCAA
Found at i:790474 original size:20 final size:20
Alignment explanation
Indices: 790433--790475 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
790423 GTTGTGAAAG
790433 AATGTCAAAAGTTGTGACGA
1 AATGTCAAAAGTTGTGACGA
* *
790453 AATGTCACAAGTTGTGATGA
1 AATGTCAAAAGTTGTGACGA
790473 AAT
1 AAT
790476 TAATGACAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.40, C:0.09, G:0.23, T:0.28
Consensus pattern (20 bp):
AATGTCAAAAGTTGTGACGA
Found at i:790912 original size:21 final size:22
Alignment explanation
Indices: 790888--790929 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 22
790878 AATTGTCACA
790888 AAATTTGTGATAGA-ATTATTC
1 AAATTTGTGATAGATATTATTC
790909 AAATTTGTGATAGATATTATT
1 AAATTTGTGATAGATATTATT
790930 AGTGACAGAT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 14 0.70
22 6 0.30
ACGTcount: A:0.38, C:0.02, G:0.14, T:0.45
Consensus pattern (22 bp):
AAATTTGTGATAGATATTATTC
Found at i:791524 original size:10 final size:10
Alignment explanation
Indices: 791511--791558 Score: 51
Period size: 10 Copynumber: 4.8 Consensus size: 10
791501 TTTATATATT
791511 TATATATAAA
1 TATATATAAA
*
791521 TATATAAAAA
1 TATATATAAA
* * *
791531 AATTTATATA
1 TATATATAAA
*
791541 TATATATAAC
1 TATATATAAA
791551 TATATATA
1 TATATATA
791559 TAAGTTACTA
Statistics
Matches: 29, Mismatches: 9, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
10 29 1.00
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (10 bp):
TATATATAAA
Found at i:791771 original size:27 final size:27
Alignment explanation
Indices: 791740--791816 Score: 91
Period size: 27 Copynumber: 2.9 Consensus size: 27
791730 AAAGTCATCT
* *
791740 TTTGTGTTTGTTAACAATGATGGTTAC
1 TTTGTGTTTGTCAAAAATGATGGTTAC
* * *
791767 TTTGTATTTGTCAAAAATGGTGGTTTC
1 TTTGTGTTTGTCAAAAATGATGGTTAC
* *
791794 TTTTTGTTTGTCAAAAATTATGG
1 TTTGTGTTTGTCAAAAATGATGG
791817 CTTATTGTTT
Statistics
Matches: 41, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 41 1.00
ACGTcount: A:0.23, C:0.06, G:0.21, T:0.49
Consensus pattern (27 bp):
TTTGTGTTTGTCAAAAATGATGGTTAC
Found at i:794759 original size:21 final size:21
Alignment explanation
Indices: 794735--794786 Score: 104
Period size: 21 Copynumber: 2.5 Consensus size: 21
794725 GGTATTTGCA
794735 AAGAAAGATGGATTTTCTAGC
1 AAGAAAGATGGATTTTCTAGC
794756 AAGAAAGATGGATTTTCTAGC
1 AAGAAAGATGGATTTTCTAGC
794777 AAGAAAGATG
1 AAGAAAGATG
794787 TTCGTTACAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.42, C:0.08, G:0.25, T:0.25
Consensus pattern (21 bp):
AAGAAAGATGGATTTTCTAGC
Found at i:796437 original size:13 final size:13
Alignment explanation
Indices: 796419--796490 Score: 108
Period size: 13 Copynumber: 5.5 Consensus size: 13
796409 GGTTCCCTCT
796419 TCCCTCTCAAGCA
1 TCCCTCTCAAGCA
*
796432 TCCCTCTCAAGTA
1 TCCCTCTCAAGCA
*
796445 TCTCTCTCAAGCA
1 TCCCTCTCAAGCA
*
796458 TCCCTCTCAAGTA
1 TCCCTCTCAAGCA
*
796471 TCTCTCTCAAGCA
1 TCCCTCTCAAGCA
796484 TCCCTCT
1 TCCCTCT
796491 TTTGTATCTC
Statistics
Matches: 51, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 51 1.00
ACGTcount: A:0.21, C:0.42, G:0.07, T:0.31
Consensus pattern (13 bp):
TCCCTCTCAAGCA
Found at i:796503 original size:26 final size:26
Alignment explanation
Indices: 796422--796490 Score: 138
Period size: 26 Copynumber: 2.7 Consensus size: 26
796412 TCCCTCTTCC
796422 CTCTCAAGCATCCCTCTCAAGTATCT
1 CTCTCAAGCATCCCTCTCAAGTATCT
796448 CTCTCAAGCATCCCTCTCAAGTATCT
1 CTCTCAAGCATCCCTCTCAAGTATCT
796474 CTCTCAAGCATCCCTCT
1 CTCTCAAGCATCCCTCT
796491 TTTGTATCTC
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 43 1.00
ACGTcount: A:0.22, C:0.41, G:0.07, T:0.30
Consensus pattern (26 bp):
CTCTCAAGCATCCCTCTCAAGTATCT
Found at i:798640 original size:2 final size:2
Alignment explanation
Indices: 798633--798665 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
798623 TTACACAATA
798633 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
798666 AAATTTAAAC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:798750 original size:2 final size:2
Alignment explanation
Indices: 798743--798767 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
798733 CCAATCCAAC
798743 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
798768 ATCTATTCAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:799753 original size:17 final size:18
Alignment explanation
Indices: 799733--799777 Score: 60
Period size: 17 Copynumber: 2.7 Consensus size: 18
799723 TGTTGTGTTC
799733 ATATTATT-TTTTATTTT
1 ATATTATTATTTTATTTT
*
799750 ATATT-TTATTTTTTTTT
1 ATATTATTATTTTATTTT
799767 ATATTA-TATTT
1 ATATTATTATTT
799778 ATATCGTATC
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
16 2 0.08
17 23 0.92
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (18 bp):
ATATTATTATTTTATTTT
Found at i:799764 original size:22 final size:22
Alignment explanation
Indices: 799734--799777 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
799724 GTTGTGTTCA
*
799734 TATTATTTTTTATTTTATATTT
1 TATTATTTTTTATATTATATTT
*
799756 TATTTTTTTTTATATTATATTT
1 TATTATTTTTTATATTATATTT
799778 ATATCGTATC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (22 bp):
TATTATTTTTTATATTATATTT
Found at i:800978 original size:16 final size:15
Alignment explanation
Indices: 800957--800996 Score: 57
Period size: 13 Copynumber: 2.7 Consensus size: 15
800947 AAACTCTATT
800957 AAAATTATATTATAAA
1 AAAATTATATTAT-AA
800973 AAAATTATA--ATAA
1 AAAATTATATTATAA
800986 AAAATTATATT
1 AAAATTATATT
800997 GATATTTTAC
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
13 11 0.50
14 2 0.09
16 9 0.41
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (15 bp):
AAAATTATATTATAA
Found at i:801168 original size:23 final size:23
Alignment explanation
Indices: 801142--801193 Score: 86
Period size: 23 Copynumber: 2.3 Consensus size: 23
801132 ATACTGCAAT
*
801142 AAACGAAAAGCAAAATTATACGA
1 AAACAAAAAGCAAAATTATACGA
*
801165 AAACAAAAAGCAAAATTATATGA
1 AAACAAAAAGCAAAATTATACGA
801188 AAACAA
1 AAACAA
801194 GAAATATGGC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.65, C:0.12, G:0.10, T:0.13
Consensus pattern (23 bp):
AAACAAAAAGCAAAATTATACGA
Found at i:801817 original size:99 final size:97
Alignment explanation
Indices: 801690--801884 Score: 282
Period size: 99 Copynumber: 2.0 Consensus size: 97
801680 CATGTAGTGT
* * * *
801690 TCAAACTTGTGTAGACCTCAACTTTAATATAAAAGTTTGTGTGCCTTTTAAAGCCCATTAAAACA
1 TCAAACTTGTGTAAACCTCAACCTTAATACAAAAGTTTGTGTGCATTTTAAAGCCCA--AAAACA
*
801755 TATTGAACCCATGCTTATATAAAGCATATAATAG
64 TATTGAACCCATGCTGATATAAAGCATATAATAG
* * ***
801789 TCAAGCTTGTGTAAACCTCAACCTTAATACAAAAGTTTGTGTGCATTTTAGAGCCCAATCTCATA
1 TCAAACTTGTGTAAACCTCAACCTTAATACAAAAGTTTGTGTGCATTTTAAAGCCCAAAAACATA
801854 TTGAACCCATGCTGATATAAAGCATATAATA
66 TTGAACCCATGCTGATATAAAGCATATAATA
801885 TATTATTATG
Statistics
Matches: 86, Mismatches: 10, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
97 35 0.41
99 51 0.59
ACGTcount: A:0.36, C:0.18, G:0.13, T:0.32
Consensus pattern (97 bp):
TCAAACTTGTGTAAACCTCAACCTTAATACAAAAGTTTGTGTGCATTTTAAAGCCCAAAAACATA
TTGAACCCATGCTGATATAAAGCATATAATAG
Found at i:803260 original size:7 final size:7
Alignment explanation
Indices: 803248--803277 Score: 60
Period size: 7 Copynumber: 4.3 Consensus size: 7
803238 AGTCATCGGG
803248 TTTTGTT
1 TTTTGTT
803255 TTTTGTT
1 TTTTGTT
803262 TTTTGTT
1 TTTTGTT
803269 TTTTGTT
1 TTTTGTT
803276 TT
1 TT
803278 AATGGAACTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.00, C:0.00, G:0.13, T:0.87
Consensus pattern (7 bp):
TTTTGTT
Found at i:806937 original size:20 final size:20
Alignment explanation
Indices: 806912--806950 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
806902 TTTTGGAAAA
806912 AACTATTATTATATGTTGAC
1 AACTATTATTATATGTTGAC
806932 AACTATTATTATATGTTGA
1 AACTATTATTATATGTTGA
806951 AAGTTAGACC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.36, C:0.08, G:0.10, T:0.46
Consensus pattern (20 bp):
AACTATTATTATATGTTGAC
Found at i:810475 original size:27 final size:28
Alignment explanation
Indices: 810423--810475 Score: 65
Period size: 28 Copynumber: 1.9 Consensus size: 28
810413 CATTTTTATT
* *
810423 TTTGTACTATTAAATTTAATATTTAATC
1 TTTGTACTATTAAAATTAATAGTTAATC
810451 TTTGTA-TATTTAAAATT-ATAGTTAA
1 TTTGTACTA-TTAAAATTAATAGTTAA
810476 AAAAATAGTT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
27 9 0.41
28 13 0.59
ACGTcount: A:0.38, C:0.04, G:0.06, T:0.53
Consensus pattern (28 bp):
TTTGTACTATTAAAATTAATAGTTAATC
Found at i:810960 original size:33 final size:33
Alignment explanation
Indices: 810916--810982 Score: 125
Period size: 33 Copynumber: 2.0 Consensus size: 33
810906 ATAATTTTAA
810916 AAAAATACAAATACATCAATGCATCATTTAAAT
1 AAAAATACAAATACATCAATGCATCATTTAAAT
*
810949 AAAAATGCAAATACATCAATGCATCATTTAAAT
1 AAAAATACAAATACATCAATGCATCATTTAAAT
810982 A
1 A
810983 CAATATGTTA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.54, C:0.15, G:0.04, T:0.27
Consensus pattern (33 bp):
AAAAATACAAATACATCAATGCATCATTTAAAT
Found at i:811449 original size:21 final size:21
Alignment explanation
Indices: 811425--811500 Score: 66
Period size: 21 Copynumber: 3.7 Consensus size: 21
811415 TTTACAAATT
811425 TGTATCGATACAAACAGTAAA
1 TGTATCGATACAAACAGTAAA
* ** *
811446 TGTATCAATAC-ATGAGTGAA
1 TGTATCGATACAAACAGTAAA
** *
811466 TGTATCGATACATGC-CTAAAA
1 TGTATCGATACAAACAGT-AAA
811487 TGTATCGATACAAA
1 TGTATCGATACAAA
811501 ACTACCCTGC
Statistics
Matches: 41, Mismatches: 12, Indels: 4
0.72 0.21 0.07
Matches are distributed among these distances:
20 17 0.41
21 24 0.59
ACGTcount: A:0.42, C:0.14, G:0.16, T:0.28
Consensus pattern (21 bp):
TGTATCGATACAAACAGTAAA
Found at i:815372 original size:13 final size:13
Alignment explanation
Indices: 815354--815390 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
815344 ATAGTGCCCT
815354 TGTATCGATACAA
1 TGTATCGATACAA
*
815367 TGTATCGATATAA
1 TGTATCGATACAA
*
815380 TGTATTGATAC
1 TGTATCGATAC
815391 TATGAACACA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.35, C:0.11, G:0.16, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:820621 original size:52 final size:51
Alignment explanation
Indices: 820543--820691 Score: 226
Period size: 52 Copynumber: 2.9 Consensus size: 51
820533 CGAAATATGA
*
820543 AAATTTGCCTGCATGTATCGATACATTGAATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTG-ATAGTGTATCGATACATCTAGGC
* *
820595 AAATTTGCCTGCATGTATCGATACATTTTATAATGTATCGATACATCTAGGC
1 AAATTTGCCTGCATGTATCGATACA-TTGATAGTGTATCGATACATCTAGGC
**
820647 AAATTTGCCTGCATGTATCGATACAAAGATCAGTGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACATTGAT-AGTGTATCGATACA
820692 ATGTATCGAT
Statistics
Matches: 88, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
51 2 0.02
52 84 0.95
53 2 0.02
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Consensus pattern (51 bp):
AAATTTGCCTGCATGTATCGATACATTGATAGTGTATCGATACATCTAGGC
Found at i:820698 original size:13 final size:13
Alignment explanation
Indices: 820680--820704 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
820670 CAAAGATCAG
820680 TGTATCGATACAA
1 TGTATCGATACAA
820693 TGTATCGATACA
1 TGTATCGATACA
820705 TTTAAGTGAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:820782 original size:33 final size:33
Alignment explanation
Indices: 820745--820811 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
820735 AGTAGCTTAA
820745 ATTGTATCGATACAAAAAAATATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
* ***
820778 ATTGTATCGATACAACACTTTATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
820811 A
1 A
820812 AATCGTTGAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.40, C:0.15, G:0.12, T:0.33
Consensus pattern (33 bp):
ATTGTATCGATACAAAAAAATATGTATCGATAC
Found at i:820785 original size:13 final size:13
Alignment explanation
Indices: 820767--820791 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
820757 CAAAAAAATA
820767 TGTATCGATACAT
1 TGTATCGATACAT
820780 TGTATCGATACA
1 TGTATCGATACA
820792 ACACTTTATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:823210 original size:13 final size:13
Alignment explanation
Indices: 823192--823217 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
823182 TACAGCAAGT
823192 ATGTATCGATACA
1 ATGTATCGATACA
823205 ATGTATCGATACA
1 ATGTATCGATACA
823218 TAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:825474 original size:21 final size:21
Alignment explanation
Indices: 825436--825480 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 21
825426 TTGCAAGTTG
*
825436 AAATAAAGAAGTTGGCTAATGA
1 AAATAAAGAAGTTAGCTAA-GA
*
825458 AAATAATGAA-TTAGCTAAGA
1 AAATAAAGAAGTTAGCTAAGA
825478 AAA
1 AAA
825481 ATGAAAACTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 7 0.33
22 9 0.43
ACGTcount: A:0.56, C:0.04, G:0.18, T:0.22
Consensus pattern (21 bp):
AAATAAAGAAGTTAGCTAAGA
Found at i:827297 original size:15 final size:15
Alignment explanation
Indices: 827277--827307 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
827267 TAAAAATGTC
*
827277 CAAAATGAGGAAGCT
1 CAAAATGAAGAAGCT
827292 CAAAATGAAGAAGCT
1 CAAAATGAAGAAGCT
827307 C
1 C
827308 TAAACGAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.48, C:0.16, G:0.23, T:0.13
Consensus pattern (15 bp):
CAAAATGAAGAAGCT
Found at i:829396 original size:20 final size:20
Alignment explanation
Indices: 829371--829437 Score: 76
Period size: 20 Copynumber: 3.7 Consensus size: 20
829361 GGAAATTCAA
829371 TGTATCGATACATTTTTCTT
1 TGTATCGATACATTTTTCTT
829391 TGTATCGATACA-------T
1 TGTATCGATACATTTTTCTT
829404 TGTATCGATACATTTTTCTT
1 TGTATCGATACATTTTTCTT
*
829424 TGTATCAATACATT
1 TGTATCGATACATT
829438 GTATCGATAC
Statistics
Matches: 39, Mismatches: 1, Indels: 14
0.72 0.02 0.26
Matches are distributed among these distances:
13 13 0.33
20 26 0.67
ACGTcount: A:0.25, C:0.15, G:0.10, T:0.49
Consensus pattern (20 bp):
TGTATCGATACATTTTTCTT
Found at i:829408 original size:13 final size:13
Alignment explanation
Indices: 829390--829461 Score: 84
Period size: 13 Copynumber: 6.0 Consensus size: 13
829380 ACATTTTTCT
829390 TTGTATCGATACA
1 TTGTATCGATACA
829403 TTGTATCGATACA
1 TTGTATCGATACA
*
829416 TT-T-T---T-CT
1 TTGTATCGATACA
*
829423 TTGTATCAATACA
1 TTGTATCGATACA
829436 TTGTATCGATACA
1 TTGTATCGATACA
829449 TTGTATCGATACA
1 TTGTATCGATACA
829462 GGGTGATTAT
Statistics
Matches: 50, Mismatches: 3, Indels: 12
0.77 0.05 0.18
Matches are distributed among these distances:
7 3 0.06
8 2 0.04
9 1 0.02
11 1 0.02
12 2 0.04
13 41 0.82
ACGTcount: A:0.29, C:0.15, G:0.12, T:0.43
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:829413 original size:33 final size:33
Alignment explanation
Indices: 829371--829450 Score: 151
Period size: 33 Copynumber: 2.4 Consensus size: 33
829361 GGAAATTCAA
*
829371 TGTATCGATACATTTTTCTTTGTATCGATACAT
1 TGTATCGATACATTTTTCTTTGTATCAATACAT
829404 TGTATCGATACATTTTTCTTTGTATCAATACAT
1 TGTATCGATACATTTTTCTTTGTATCAATACAT
829437 TGTATCGATACATT
1 TGTATCGATACATT
829451 GTATCGATAC
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
33 46 1.00
ACGTcount: A:0.26, C:0.15, G:0.11, T:0.47
Consensus pattern (33 bp):
TGTATCGATACATTTTTCTTTGTATCAATACAT
Found at i:831289 original size:20 final size:20
Alignment explanation
Indices: 831264--831304 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
831254 TTTTATGAAT
*
831264 TACTTGATTAAGGGGGAGAA
1 TACTTGATTAAGGGAGAGAA
831284 TACTTGATTAAGGGAGAGAA
1 TACTTGATTAAGGGAGAGAA
831304 T
1 T
831305 TATTAATAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.37, C:0.05, G:0.32, T:0.27
Consensus pattern (20 bp):
TACTTGATTAAGGGAGAGAA
Found at i:832050 original size:13 final size:13
Alignment explanation
Indices: 832032--832057 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
832022 TACAGCAAGT
832032 ATGTATCGATACA
1 ATGTATCGATACA
832045 ATGTATCGATACA
1 ATGTATCGATACA
832058 TAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:833552 original size:3 final size:3
Alignment explanation
Indices: 833544--833578 Score: 52
Period size: 3 Copynumber: 11.7 Consensus size: 3
833534 CGAGTCAACT
* *
833544 TCA TCA TCA TCA TCA TTA TCA TCA TCT TCA TCA TC
1 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TC
833579 TTTGATGGTT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.29, C:0.31, G:0.00, T:0.40
Consensus pattern (3 bp):
TCA
Found at i:833579 original size:9 final size:9
Alignment explanation
Indices: 833542--833580 Score: 53
Period size: 9 Copynumber: 4.3 Consensus size: 9
833532 TCCGAGTCAA
833542 CTTCATCAT
1 CTTCATCAT
*
833551 CATCATCAT
1 CTTCATCAT
833560 -TATCATCAT
1 CT-TCATCAT
833569 CTTCATCAT
1 CTTCATCAT
833578 CTT
1 CTT
833581 TGATGGTTGA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
9 25 0.96
10 1 0.04
ACGTcount: A:0.26, C:0.31, G:0.00, T:0.44
Consensus pattern (9 bp):
CTTCATCAT
Found at i:835209 original size:13 final size:13
Alignment explanation
Indices: 835193--835224 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
835183 GTATCAACAT
835193 AATGTATCGATAC
1 AATGTATCGATAC
*
835206 AATGTATGGATAC
1 AATGTATCGATAC
835219 AATGTA
1 AATGTA
835225 CCATGTATCA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.41, C:0.09, G:0.19, T:0.31
Consensus pattern (13 bp):
AATGTATCGATAC
Found at i:837701 original size:78 final size:78
Alignment explanation
Indices: 837560--837794 Score: 271
Period size: 78 Copynumber: 3.0 Consensus size: 78
837550 AAATTTCTAA
* * * * * *
837560 ATTTTTCCTTTCAAAATATCGATTTTTCAT-TTCAGGGATACTCCAACCCCATCAATTCTGAGGG
1 ATTTTTACTTCCAAAATATCAATTTTTCATCTTCAGGGATACTCCAACCCCGT-TATTCCGAGGG
837624 GATACTCCAACCCT
65 GATACTCCAACCCT
* *
837638 GTTTTTACTTCCAAAATATCAATTTTTCATCTTGA-GGATACTCCAACCCCGTTATTTCCGAGGG
1 ATTTTTACTTCCAAAATATCAATTTTTCATCTTCAGGGATACTCCAACCCCGTTA-TTCCGAGGG
*
837702 GATACTCCAACCCC
65 GATACTCCAACCCT
* * * **
837716 ATTTTTATTTCAAAAATATTAAAAATTTCAATC-TCAGGGATACTCCAACCCCG-TATTCCGAGG
1 ATTTTTACTTCCAAAATA-TCAATTTTTC-ATCTTCAGGGATACTCCAACCCCGTTATTCCGAGG
*
837779 GGACACTCCAACCCT
64 GGATACTCCAACCCT
837794 A
1 A
837795 CATCTTTTTT
Statistics
Matches: 134, Mismatches: 18, Indels: 10
0.83 0.11 0.06
Matches are distributed among these distances:
77 1 0.01
78 100 0.75
79 14 0.10
80 19 0.14
ACGTcount: A:0.29, C:0.27, G:0.12, T:0.32
Consensus pattern (78 bp):
ATTTTTACTTCCAAAATATCAATTTTTCATCTTCAGGGATACTCCAACCCCGTTATTCCGAGGGG
ATACTCCAACCCT
Found at i:840046 original size:19 final size:20
Alignment explanation
Indices: 840001--840052 Score: 79
Period size: 20 Copynumber: 2.6 Consensus size: 20
839991 TTACAAACCA
*
840001 ATGTATCGATACATTTTGGG
1 ATGTATCGATACATCTTGGG
*
840021 ATGTATCGATACATCTTGTG
1 ATGTATCGATACATCTTGGG
840041 -TGTATCGATACA
1 ATGTATCGATACA
840053 AACAGTTAAG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
19 12 0.40
20 18 0.60
ACGTcount: A:0.27, C:0.13, G:0.21, T:0.38
Consensus pattern (20 bp):
ATGTATCGATACATCTTGGG
Found at i:840145 original size:20 final size:21
Alignment explanation
Indices: 840094--840146 Score: 56
Period size: 20 Copynumber: 2.6 Consensus size: 21
840084 TCCAATGACC
*
840094 TGTATCGATACATTCTTTACA
1 TGTATCGATACATTCTGTACA
* *
840115 AGTATCAATACATT-TGGT-CA
1 TGTATCGATACATTCT-GTACA
840135 TGTATCGATACA
1 TGTATCGATACA
840147 ATGTATCGAT
Statistics
Matches: 26, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
20 13 0.50
21 13 0.50
ACGTcount: A:0.32, C:0.17, G:0.13, T:0.38
Consensus pattern (21 bp):
TGTATCGATACATTCTGTACA
Found at i:840152 original size:13 final size:13
Alignment explanation
Indices: 840134--840158 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
840124 ACATTTGGTC
840134 ATGTATCGATACA
1 ATGTATCGATACA
840147 ATGTATCGATAC
1 ATGTATCGATAC
840159 TGTGCAATCT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:840800 original size:19 final size:20
Alignment explanation
Indices: 840771--840809 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
840761 TAATCATATA
*
840771 TTTCTTTCTCCCCTTTAAAC
1 TTTCTTTCTCCCCCTTAAAC
840791 TTTC-TTCTCCCCCTTAAAC
1 TTTCTTTCTCCCCCTTAAAC
840810 ATAAAATTTC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 14 0.78
20 4 0.22
ACGTcount: A:0.15, C:0.38, G:0.00, T:0.46
Consensus pattern (20 bp):
TTTCTTTCTCCCCCTTAAAC
Found at i:844139 original size:20 final size:21
Alignment explanation
Indices: 844092--844144 Score: 65
Period size: 20 Copynumber: 2.6 Consensus size: 21
844082 TCCAATGACC
*
844092 TGTATCGATACATTCTTTACA
1 TGTATCGATACATTCTGTACA
*
844113 AGTATCGATACATT-TGGT-CA
1 TGTATCGATACATTCT-GTACA
844133 TGTATCGATACA
1 TGTATCGATACA
844145 ATGTATCGAT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
20 14 0.50
21 14 0.50
ACGTcount: A:0.30, C:0.17, G:0.15, T:0.38
Consensus pattern (21 bp):
TGTATCGATACATTCTGTACA
Found at i:855535 original size:24 final size:24
Alignment explanation
Indices: 855503--855554 Score: 104
Period size: 24 Copynumber: 2.2 Consensus size: 24
855493 TATTTTATTC
855503 ATATCACCATATATCTCATACAAA
1 ATATCACCATATATCTCATACAAA
855527 ATATCACCATATATCTCATACAAA
1 ATATCACCATATATCTCATACAAA
855551 ATAT
1 ATAT
855555 GTCCTTAGTA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.46, C:0.23, G:0.00, T:0.31
Consensus pattern (24 bp):
ATATCACCATATATCTCATACAAA
Found at i:855871 original size:30 final size:30
Alignment explanation
Indices: 855835--855896 Score: 97
Period size: 30 Copynumber: 2.1 Consensus size: 30
855825 CTTGTATTCT
855835 TTGATAAAGCTGATTCTACAAATCCCATGA
1 TTGATAAAGCTGATTCTACAAATCCCATGA
* **
855865 TTGATAAAGCTGATTCTGCAAATTTCATGA
1 TTGATAAAGCTGATTCTACAAATCCCATGA
855895 TT
1 TT
855897 ACATATCCTG
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.34, C:0.16, G:0.15, T:0.35
Consensus pattern (30 bp):
TTGATAAAGCTGATTCTACAAATCCCATGA
Found at i:855965 original size:21 final size:21
Alignment explanation
Indices: 855926--855965 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
855916 TTAATGATTA
* *
855926 TCAACCTCATTATTATAGCAG
1 TCAACCCCATGATTATAGCAG
*
855947 TCAACCCCATGATTGTAGC
1 TCAACCCCATGATTATAGC
855966 CGTTCTTTTA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.30, C:0.28, G:0.12, T:0.30
Consensus pattern (21 bp):
TCAACCCCATGATTATAGCAG
Found at i:860536 original size:2 final size:2
Alignment explanation
Indices: 860529--860563 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
860519 GTTGTATAGC
*
860529 AT AT AT AT AA AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
860564 ATTCTTGGAT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (2 bp):
AT
Found at i:860773 original size:1 final size:1
Alignment explanation
Indices: 860767--860791 Score: 50
Period size: 1 Copynumber: 25.0 Consensus size: 1
860757 AAATATTCTC
860767 TTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTT
860792 CTGGTCGAGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 24 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:861705 original size:25 final size:25
Alignment explanation
Indices: 861626--861717 Score: 114
Period size: 25 Copynumber: 3.6 Consensus size: 25
861616 TTAAATTCAA
* *
861626 AAAATTTAATTAA-TTTATTTAAATT
1 AAAATATAAATAATTTTATTT-AATT
*
861651 TAAATATAATATAATTTTATTTAATT
1 AAAATATAA-ATAATTTTATTTAATT
861677 AAAATATAAATAATTTTATTTAATT
1 AAAATATAAATAATTTTATTTAATT
* *
861702 AAAAAATTAATAATTT
1 AAAATATAAATAATTT
861718 GATAAATTTG
Statistics
Matches: 59, Mismatches: 6, Indels: 4
0.86 0.09 0.06
Matches are distributed among these distances:
25 37 0.63
26 15 0.25
27 7 0.12
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (25 bp):
AAAATATAAATAATTTTATTTAATT
Found at i:861759 original size:16 final size:17
Alignment explanation
Indices: 861722--861759 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 17
861712 TAATTTGATA
861722 AATTTGAAATCAAAAAT
1 AATTTGAAATCAAAAAT
* *
861739 GATTTGAATTC-AAAAT
1 AATTTGAAATCAAAAAT
861755 AATTT
1 AATTT
861760 ATATTTAAAA
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
16 9 0.50
17 9 0.50
ACGTcount: A:0.50, C:0.05, G:0.08, T:0.37
Consensus pattern (17 bp):
AATTTGAAATCAAAAAT
Found at i:862488 original size:22 final size:23
Alignment explanation
Indices: 862463--862514 Score: 63
Period size: 22 Copynumber: 2.3 Consensus size: 23
862453 TATGTTGGTA
* *
862463 ATAATATATTT-TATATTTTATT
1 ATAATATATTTATACATTATATT
*
862485 ATAATA-ATTTATACATTATGTT
1 ATAATATATTTATACATTATATT
862507 ATAATATA
1 ATAATATA
862515 ATATTTTATC
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
21 4 0.16
22 20 0.80
23 1 0.04
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.54
Consensus pattern (23 bp):
ATAATATATTTATACATTATATT
Found at i:863133 original size:21 final size:21
Alignment explanation
Indices: 863109--863150 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
863099 AATTCCCTTA
863109 ATTTATTTTTAAAACTTTATT
1 ATTTATTTTTAAAACTTTATT
863130 ATTTATTTTTAAAACTTTATT
1 ATTTATTTTTAAAACTTTATT
863151 TTTTTAATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.33, C:0.05, G:0.00, T:0.62
Consensus pattern (21 bp):
ATTTATTTTTAAAACTTTATT
Found at i:867918 original size:20 final size:19
Alignment explanation
Indices: 867893--867966 Score: 76
Period size: 20 Copynumber: 3.6 Consensus size: 19
867883 AAAAACCCAT
867893 AATGTATCGATACATTGAGA
1 AATGTATCGATACATTGA-A
867913 AATGTATCGATACAATTGTAA
1 AATGTATCGATAC-ATTG-AA
* *
867934 GCATGTATCGATACATTGACT
1 -AATGTATCGATACATTGA-A
*
867955 AATATATCGATA
1 AATGTATCGATA
867967 TATTTCCTTG
Statistics
Matches: 46, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
20 24 0.52
21 9 0.20
22 13 0.28
ACGTcount: A:0.39, C:0.12, G:0.16, T:0.32
Consensus pattern (19 bp):
AATGTATCGATACATTGAA
Found at i:868999 original size:27 final size:26
Alignment explanation
Indices: 868914--868993 Score: 97
Period size: 27 Copynumber: 3.0 Consensus size: 26
868904 AATTCAATTT
868914 TTGAAAAATGGGGTTAGAGTATCCCC
1 TTGAAAAATGGGGTTAGAGTATCCCC
* * * *
868940 TTGGAAGAATGAGGTTGGAATATCCCC
1 TT-GAAAAATGGGGTTAGAGTATCCCC
*
868967 TTTGAAAAATGGGGTTTGAGTATCCCC
1 -TTGAAAAATGGGGTTAGAGTATCCCC
868994 AATGAAGGAA
Statistics
Matches: 44, Mismatches: 8, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
26 2 0.05
27 40 0.91
28 2 0.05
ACGTcount: A:0.29, C:0.15, G:0.28, T:0.29
Consensus pattern (26 bp):
TTGAAAAATGGGGTTAGAGTATCCCC
Found at i:871351 original size:369 final size:369
Alignment explanation
Indices: 870672--871410 Score: 1442
Period size: 369 Copynumber: 2.0 Consensus size: 369
870662 GCTACGGGAT
870672 TTTTTTGTTTGCTGGAATAAATAAGTGTTTTTGGGAGTTAAAAAGTGCTGAAGAAGTGTTCAGCC
1 TTTTTTGTTTGCTGGAATAAATAAGTGTTTTTGGGAGTTAAAAAGTGCTGAAGAAGTGTTCAGCC
870737 AAAAGTTTTTTTTGTTGAGAACAAGAGGTGCCTTTTATAGGCAAGATTTGTGGAGCCAAAGTGAG
66 AAAAGTTTTTTTTGTTGAGAACAAGAGGTGCCTTTTATAGGCAAGATTTGTGGAGCCAAAGTGAG
*
870802 GATACTTGAGACATTTCCTTCTCACCATTAAATAAAAGGCTTGCTAGATGAGGTGGCTGATATAC
131 GATACTTGAGACATTTCCCTCTCACCATTAAATAAAAGGCTTGCTAGATGAGGTGGCTGATATAC
*
870867 CTATGGTGGCTGGCAGAGCTTAGGAAGAAGGTAGGGTGCTGGAGTTAATGCTTGGCAGTCATGGT
196 CTATGGTGGCTGGCAGAGCTTAGGAAGAAGGTAGGGTGCTGGAGTTAATGCTTGGCAGCCATGGT
870932 AGCCAATGAGTTCTCACCATTATTGCAACGTGCGTTCGACCCTGGAGATGGAGCAAATGAGGTGC
261 AGCCAATGAGTTCTCACCATTATTGCAACGTGCGTTCGACCCTGGAGATGGAGCAAATGAGGTGC
*
870997 GCCCGACTTAATATCCCTCGTGATTGGGGATTTTTATGGCATGA
326 GCCCGACTTAATATCCCTCGTGATTGGAGATTTTTATGGCATGA
871041 TTTTTTGTTTGCTGGAATAAATAAGTGTTTTTGGGAGTTAAAAAGTGCTGAAGAAGTGTTCAGCC
1 TTTTTTGTTTGCTGGAATAAATAAGTGTTTTTGGGAGTTAAAAAGTGCTGAAGAAGTGTTCAGCC
871106 AAAAGTTTTTTTTGTTGAGAACAAGAGGTGCCTTTTATAGGCAAGATTTGTGGAGCCAAAGTGAG
66 AAAAGTTTTTTTTGTTGAGAACAAGAGGTGCCTTTTATAGGCAAGATTTGTGGAGCCAAAGTGAG
871171 GATACTTGAGACATTTCCCTCTCACCATTAAATAAAAGGCTTGCTAGATGAGGTGGCTGATATAC
131 GATACTTGAGACATTTCCCTCTCACCATTAAATAAAAGGCTTGCTAGATGAGGTGGCTGATATAC
*
871236 CTATGGTGGCTGGCAGAGCTTAGGAAGAAGGTGGGGTGCTGGAGTTAATGCTTGGCAGCCATGGT
196 CTATGGTGGCTGGCAGAGCTTAGGAAGAAGGTAGGGTGCTGGAGTTAATGCTTGGCAGCCATGGT
871301 AGCCAATGAGTTCTCACCATTATTGCAACGTGCGTTCGACCCTGGAGATGGAGCAAATGAGGTGC
261 AGCCAATGAGTTCTCACCATTATTGCAACGTGCGTTCGACCCTGGAGATGGAGCAAATGAGGTGC
871366 GCCCGACTTAATATCCCTCGTGATTGGAGATTTTTATGGCATGA
326 GCCCGACTTAATATCCCTCGTGATTGGAGATTTTTATGGCATGA
871410 T
1 T
871411 GAGAAATATG
Statistics
Matches: 366, Mismatches: 4, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
369 366 1.00
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (369 bp):
TTTTTTGTTTGCTGGAATAAATAAGTGTTTTTGGGAGTTAAAAAGTGCTGAAGAAGTGTTCAGCC
AAAAGTTTTTTTTGTTGAGAACAAGAGGTGCCTTTTATAGGCAAGATTTGTGGAGCCAAAGTGAG
GATACTTGAGACATTTCCCTCTCACCATTAAATAAAAGGCTTGCTAGATGAGGTGGCTGATATAC
CTATGGTGGCTGGCAGAGCTTAGGAAGAAGGTAGGGTGCTGGAGTTAATGCTTGGCAGCCATGGT
AGCCAATGAGTTCTCACCATTATTGCAACGTGCGTTCGACCCTGGAGATGGAGCAAATGAGGTGC
GCCCGACTTAATATCCCTCGTGATTGGAGATTTTTATGGCATGA
Found at i:875101 original size:20 final size:20
Alignment explanation
Indices: 875076--875130 Score: 85
Period size: 20 Copynumber: 2.8 Consensus size: 20
875066 ATTTGCTTGC
875076 ATGTATCGATACATTGAAA-A
1 ATGTATCGATACATT-AAAGA
875096 ATGTATCGATACATTAAAGA
1 ATGTATCGATACATTAAAGA
*
875116 ATGTATCAATACATT
1 ATGTATCGATACATT
875131 TGGGTCAAAA
Statistics
Matches: 33, Mismatches: 1, Indels: 2
0.92 0.03 0.06
Matches are distributed among these distances:
19 3 0.09
20 30 0.91
ACGTcount: A:0.44, C:0.11, G:0.13, T:0.33
Consensus pattern (20 bp):
ATGTATCGATACATTAAAGA
Found at i:875198 original size:22 final size:21
Alignment explanation
Indices: 875147--875222 Score: 68
Period size: 20 Copynumber: 3.7 Consensus size: 21
875137 AAAAACCCAG
* * *
875147 AATGTATCGATATAA-TAAGA
1 AATGTATCGATACAATTTAGT
*
875167 AATGTTTCGATACAATTGTAAG-
1 AATGTATCGATACAATT-T-AGT
*
875189 CATGTATCGATAC-ATTTAGT
1 AATGTATCGATACAATTTAGT
875209 AATGTATCGATACA
1 AATGTATCGATACA
875223 TTTCCTTTGC
Statistics
Matches: 45, Mismatches: 6, Indels: 9
0.75 0.10 0.15
Matches are distributed among these distances:
19 2 0.04
20 26 0.58
21 4 0.09
22 11 0.24
23 2 0.04
ACGTcount: A:0.39, C:0.11, G:0.16, T:0.34
Consensus pattern (21 bp):
AATGTATCGATACAATTTAGT
Found at i:876184 original size:35 final size:35
Alignment explanation
Indices: 876145--876213 Score: 129
Period size: 35 Copynumber: 2.0 Consensus size: 35
876135 TCATTTAAAA
876145 TGGGTTTTGGTTTTTTAAGGCTTGACCTCCTTAGC
1 TGGGTTTTGGTTTTTTAAGGCTTGACCTCCTTAGC
*
876180 TGGGTTTTGGTTTTTTAAGGCTTGACTTCCTTAG
1 TGGGTTTTGGTTTTTTAAGGCTTGACCTCCTTAG
876214 AGGGGTGCCA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 33 1.00
ACGTcount: A:0.12, C:0.14, G:0.26, T:0.48
Consensus pattern (35 bp):
TGGGTTTTGGTTTTTTAAGGCTTGACCTCCTTAGC
Found at i:876537 original size:31 final size:32
Alignment explanation
Indices: 876399--876823 Score: 163
Period size: 31 Copynumber: 13.8 Consensus size: 32
876389 TTAGACTCGA
*
876399 GTGCCGCC-AGCTTGTGCT-GGCTTTGACTAGG
1 GTGCCACCAAGCTTGTG-TAGGCTTTGACTAGG
* ** *
876430 GTGCCACCAA--TTCATGTAGGCTAAGAGTCA-G
1 GTGCCACCAAGCTT-GTGTAGGCTTTGACT-AGG
* * *
876461 GTGCCGCC-AGCTTGTG-CGGCTTTGACTTGG
1 GTGCCACCAAGCTTGTGTAGGCTTTGACTAGG
****
876491 GTGTTGTC-AGCTTGTGTAGGCTTTGACTAGG
1 GTGCCACCAAGCTTGTGTAGGCTTTGACTAGG
* * * *
876522 GTGCCACCAAG-TTGTGTAAGCTTAGACTCGA
1 GTGCCACCAAGCTTGTGTAGGCTTTGACTAGG
*
876553 GTGCCA-CAAGCTTGTGCAGGCTTTGACTCA-G
1 GTGCCACCAAGCTTGTGTAGGCTTTGACT-AGG
* * * *
876584 GTGTCGCC-AGCTTGTGAAGGCTTTGATTAGG
1 GTGCCACCAAGCTTGTGTAGGCTTTGACTAGG
* * * * * *
876615 GTGCCCCCAA-CTTTTGTGGGCTTAGACTCGA
1 GTGCCACCAAGCTTGTGTAGGCTTTGACTAGG
**** * * * *
876646 GTGTTGTCAA-CTTATGTGGGCTTTGACTCGA
1 GTGCCACCAAGCTTGTGTAGGCTTTGACTAGG
* * ** * *
876677 GTGTCGCC-AGCTTGTGCGGGCTTTGACTCGA
1 GTGCCACCAAGCTTGTGTAGGCTTTGACTAGG
* * * *
876708 GTGCCGCCAA-CTTGTGT-GACCTTTGACTCGA
1 GTGCCACCAAGCTTGTGTAG-GCTTTGACTAGG
** * *
876739 GTGCTGCC-AGCTTGTGCAGGCTTTGACTCA-A
1 GTGCCACCAAGCTTGTGTAGGCTTTGACT-AGG
* **
876770 GTGCCGCC-AGCTTGTGCGGGCTTTGACTAGG
1 GTGCCACCAAGCTTGTGTAGGCTTTGACTAGG
* *
876801 GTGCCACCAA-CTTATGTGGGCTT
1 GTGCCACCAAGCTTGTGTAGGCTT
876824 AAAAAAGAGT
Statistics
Matches: 306, Mismatches: 66, Indels: 44
0.74 0.16 0.11
Matches are distributed among these distances:
30 34 0.11
31 261 0.85
32 11 0.04
ACGTcount: A:0.16, C:0.24, G:0.31, T:0.30
Consensus pattern (32 bp):
GTGCCACCAAGCTTGTGTAGGCTTTGACTAGG
Found at i:876794 original size:62 final size:62
Alignment explanation
Indices: 876338--876797 Score: 277
Period size: 62 Copynumber: 7.5 Consensus size: 62
876328 TCGAACTTAG
* * * * * * * *
876338 GTGCCACCAGCTTGTG-TGGCTTTGACTCAAGTGTTGCCAACTAGTGC-GAGCTTAGACTCGA
1 GTGCCGCCAGCTTGTGCGGGCTTTGACTCGAGTGCTGCCAGCTTGTGCAG-GCTTTGACTCAA
* * * ** * * * ** * *
876399 GTGCCGCCAGCTTGTGCTGGCTTTGACTAGGGTGCCACCA-ATTCATGTAGGCTAAGAGTCAG
1 GTGCCGCCAGCTTGTGCGGGCTTTGACTCGAGTGCTGCCAGCTT-GTGCAGGCTTTGACTCAA
* * * * * *
876461 GTGCCGCCAGCTTGTGC-GGCTTTGACTTGGGTGTTGTCAGCTTGTGTAGGCTTTGACT-AGG
1 GTGCCGCCAGCTTGTGCGGGCTTTGACTCGAGTGCTGCCAGCTTGTGCAGGCTTTGACTCA-A
* *** * ** * *
876522 GTGCCACCAAG-TTGTGTAAGCTTAGACTCGAGTGCCACAAGCTTGTGCAGGCTTTGACTCAG
1 GTGCCGCC-AGCTTGTGCGGGCTTTGACTCGAGTGCTGCCAGCTTGTGCAGGCTTTGACTCAA
* ** * * * ** * * ** * *
876584 GTGTCGCCAGCTTGTGAAGGCTTTGATTAGGGTGCCCCCAACTTTTGTGGGCTTAGACTCGA
1 GTGCCGCCAGCTTGTGCGGGCTTTGACTCGAGTGCTGCCAGCTTGTGCAGGCTTTGACTCAA
** * * * * * *
876646 GTGTTGTCAACTTATGTGGGCTTTGACTCGAGTG-TCGCCAGCTTGTGCGGGCTTTGACTCGA
1 GTGCCGCCAGCTTGTGCGGGCTTTGACTCGAGTGCT-GCCAGCTTGTGCAGGCTTTGACTCAA
* * **
876708 GTGCCGCCAACTTGTGTGACCTTTGACTCGAGTGCTGCCAGCTTGTGCAGGCTTTGACTCAA
1 GTGCCGCCAGCTTGTGCGGGCTTTGACTCGAGTGCTGCCAGCTTGTGCAGGCTTTGACTCAA
876770 GTGCCGCCAGCTTGTGCGGGCTTTGACT
1 GTGCCGCCAGCTTGTGCGGGCTTTGACT
876798 AGGGTGCCAC
Statistics
Matches: 307, Mismatches: 81, Indels: 21
0.75 0.20 0.05
Matches are distributed among these distances:
60 1 0.00
61 59 0.19
62 244 0.79
63 3 0.01
ACGTcount: A:0.16, C:0.24, G:0.31, T:0.30
Consensus pattern (62 bp):
GTGCCGCCAGCTTGTGCGGGCTTTGACTCGAGTGCTGCCAGCTTGTGCAGGCTTTGACTCAA
Found at i:876834 original size:93 final size:93
Alignment explanation
Indices: 876337--876824 Score: 466
Period size: 93 Copynumber: 5.3 Consensus size: 93
876327 CTCGAACTTA
* * * * ** * * *
876337 GGTGCCACCAGCTTGTGT-GGCTTTGACTCAAGTGTTGCCAACTAGTGC-GAGCTTAGACTCGAG
1 GGTGCCACCAACTTATGTGGGCTTAGACTCGAGTGCCGCCAGCTTGTGCAG-GCTTTGACTCGAG
* *
876400 TGCCGCCAGCTTGTGCTGGCTTTGACTAG
65 TGTCGCCAGCTTGTGCAGGCTTTGACTAG
* * * * *
876429 GGTGCCACCAA-TTCATGTAGGCTAAGAGTC-AGGTGCCGCCAGCTTGTGC-GGCTTTGACTTGG
1 GGTGCCACCAACTT-ATGTGGGCTTAGACTCGA-GTGCCGCCAGCTTGTGCAGGCTTTGACTCGA
* * *
876491 GTGTTGTCAGCTTGTGTAGGCTTTGACTAG
64 GTGTCGCCAGCTTGTGCAGGCTTTGACTAG
* * ** * *
876521 GGTGCCACCAAGTTGTGTAAGCTTAGACTCGAGTGCCACAAGCTTGTGCAGGCTTTGACTC-AGG
1 GGTGCCACCAACTTATGTGGGCTTAGACTCGAGTGCCGCCAGCTTGTGCAGGCTTTGACTCGA-G
* *
876585 TGTCGCCAGCTTGTGAAGGCTTTGATTAG
65 TGTCGCCAGCTTGTGCAGGCTTTGACTAG
* * ** * * * **
876614 GGTGCCCCCAACTTTTGTGGGCTTAGACTCGAGTGTTGTCAACTTATGTGGGCTTTGACTCGAGT
1 GGTGCCACCAACTTATGTGGGCTTAGACTCGAGTGCCGCCAGCTTGTGCAGGCTTTGACTCGAGT
* *
876679 GTCGCCAGCTTGTGCGGGCTTTGACTCG
66 GTCGCCAGCTTGTGCAGGCTTTGACTAG
* * * ** * * *
876707 AGTGCCGCCAACTTGTGTGACCTTTGACTCGAGTGCTGCCAGCTTGTGCAGGCTTTGACTCAAGT
1 GGTGCCACCAACTTATGTGGGCTTAGACTCGAGTGCCGCCAGCTTGTGCAGGCTTTGACTCGAGT
* *
876772 GCCGCCAGCTTGTGCGGGCTTTGACTAG
66 GTCGCCAGCTTGTGCAGGCTTTGACTAG
876800 GGTGCCACCAACTTATGTGGGCTTA
1 GGTGCCACCAACTTATGTGGGCTTA
876825 AAAAAGAGTG
Statistics
Matches: 320, Mismatches: 68, Indels: 15
0.79 0.17 0.04
Matches are distributed among these distances:
91 2 0.01
92 86 0.27
93 231 0.72
94 1 0.00
ACGTcount: A:0.16, C:0.24, G:0.31, T:0.29
Consensus pattern (93 bp):
GGTGCCACCAACTTATGTGGGCTTAGACTCGAGTGCCGCCAGCTTGTGCAGGCTTTGACTCGAGT
GTCGCCAGCTTGTGCAGGCTTTGACTAG
Found at i:890137 original size:13 final size:13
Alignment explanation
Indices: 890119--890175 Score: 60
Period size: 13 Copynumber: 3.9 Consensus size: 13
890109 CATAAAGTAT
890119 TGTATCGATACAA
1 TGTATCGATACAA
890132 TGTATCGATACATAA
1 TGTATCGATAC--AA
890147 GTGTTGTATCGATACAA
1 ----TGTATCGATACAA
890164 TGTATCGATACA
1 TGTATCGATACA
890176 TAAGTTTTGT
Statistics
Matches: 38, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
13 23 0.61
15 2 0.05
17 2 0.05
19 11 0.29
ACGTcount: A:0.35, C:0.14, G:0.18, T:0.33
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:890156 original size:19 final size:18
Alignment explanation
Indices: 890097--890194 Score: 90
Period size: 19 Copynumber: 5.8 Consensus size: 18
890087 AACTCAACGA
890097 TTTGTATCGATACATAAAG
1 TTTGTATCGATACAT-AAG
890116 TATTGTATCGATAC--AA-
1 T-TTGTATCGATACATAAG
890132 --TGTATCGATACATAAG
1 TTTGTATCGATACATAAG
890148 TGTTGTATCGATAC--AA-
1 T-TTGTATCGATACATAAG
890164 --TGTATCGATACATAAG
1 TTTGTATCGATACATAAG
890180 TTTTGTATCGATACA
1 -TTTGTATCGATACA
890195 ATTTAAGCTA
Statistics
Matches: 66, Mismatches: 0, Indels: 26
0.72 0.00 0.28
Matches are distributed among these distances:
13 22 0.33
15 4 0.06
17 4 0.06
19 24 0.36
20 12 0.18
ACGTcount: A:0.35, C:0.12, G:0.16, T:0.37
Consensus pattern (18 bp):
TTTGTATCGATACATAAG
Found at i:890159 original size:32 final size:32
Alignment explanation
Indices: 890099--890196 Score: 169
Period size: 32 Copynumber: 3.0 Consensus size: 32
890089 CTCAACGATT
890099 TGTATCGATACATAAAGTATTGTATCGATACAA
1 TGTATCGATACAT-AAGTATTGTATCGATACAA
*
890132 TGTATCGATACATAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAGTATTGTATCGATACAA
*
890164 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTATTGTATCGATACAA
890196 T
1 T
890197 TTAAGCTACT
Statistics
Matches: 63, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
32 50 0.79
33 13 0.21
ACGTcount: A:0.36, C:0.12, G:0.16, T:0.36
Consensus pattern (32 bp):
TGTATCGATACATAAGTATTGTATCGATACAA
Found at i:890255 original size:13 final size:13
Alignment explanation
Indices: 890237--890262 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
890227 ATTACTCAAA
890237 TGTATCGATACAT
1 TGTATCGATACAT
890250 TGTATCGATACAT
1 TGTATCGATACAT
890263 GCAGGCAAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:894608 original size:20 final size:20
Alignment explanation
Indices: 894559--894635 Score: 95
Period size: 20 Copynumber: 3.9 Consensus size: 20
894549 TTTGTATTGA
*
894559 TACATTTTATCGATACAT-G
1 TACATTGTATCGATACATGG
*
894578 TTCATTGTATCGATACATGG
1 TACATTGTATCGATACATGG
* *
894598 TACAATGTATCGATACATGA
1 TACATTGTATCGATACATGG
894618 TGA-ATTGTATCGATACAT
1 T-ACATTGTATCGATACAT
894636 TGCTTGTAAC
Statistics
Matches: 50, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
19 16 0.32
20 33 0.66
21 1 0.02
ACGTcount: A:0.32, C:0.14, G:0.16, T:0.38
Consensus pattern (20 bp):
TACATTGTATCGATACATGG
Found at i:900564 original size:13 final size:13
Alignment explanation
Indices: 900546--900572 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
900536 ACAACATTCC
900546 TTGTATCGATACA
1 TTGTATCGATACA
900559 TTGTATCGATACA
1 TTGTATCGATACA
900572 T
1 T
900573 AAGGTACTAT
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:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:902487 original size:21 final size:21
Alignment explanation
Indices: 902448--902524 Score: 109
Period size: 22 Copynumber: 3.6 Consensus size: 21
902438 AGATTTGACA
*
902448 AAGGGGGAGAAATGCTTTGATT
1 AAGGGGGAGAAAT-TTTTGATT
902470 AAGGGGGAGAAATTTTTGATT
1 AAGGGGGAGAAATTTTTGATT
* *
902491 AAAGGGGAGAAATTTTTTAATT
1 AAGGGGGAGAAA-TTTTTGATT
902513 AAGGGGGAGAAA
1 AAGGGGGAGAAA
902525 AACGAAAACT
Statistics
Matches: 50, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
21 18 0.36
22 32 0.64
ACGTcount: A:0.38, C:0.01, G:0.34, T:0.27
Consensus pattern (21 bp):
AAGGGGGAGAAATTTTTGATT
Found at i:903072 original size:20 final size:20
Alignment explanation
Indices: 903049--903100 Score: 79
Period size: 19 Copynumber: 2.6 Consensus size: 20
903039 CACACCCAGA
*
903049 TGTATCGATACATTATGCTT
1 TGTATCGATACATTATGCAT
*
903069 TGTATCGATACA-TATTCAT
1 TGTATCGATACATTATGCAT
903088 TGTATCGATACAT
1 TGTATCGATACAT
903101 GGACAATTGT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
19 17 0.59
20 12 0.41
ACGTcount: A:0.29, C:0.15, G:0.13, T:0.42
Consensus pattern (20 bp):
TGTATCGATACATTATGCAT
Found at i:903092 original size:19 final size:19
Alignment explanation
Indices: 903049--903120 Score: 81
Period size: 20 Copynumber: 3.7 Consensus size: 19
903039 CACACCCAGA
* *
903049 TGTATCGATACATTATGCTT
1 TGTATCGATACA-TATACAT
*
903069 TGTATCGATACATATTCAT
1 TGTATCGATACATATACAT
**
903088 TGTATCGATACATGGACAAT
1 TGTATCGATACATATAC-AT
903108 TGTATCGATACAT
1 TGTATCGATACAT
903121 GAGATTGGCA
Statistics
Matches: 46, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
19 19 0.41
20 27 0.59
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.39
Consensus pattern (19 bp):
TGTATCGATACATATACAT
Found at i:903196 original size:33 final size:33
Alignment explanation
Indices: 903154--903218 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 33
903144 CACTAGTTTG
*
903154 TATCGATACATGGT-ACAATGTATCGATACATTA
1 TATCGATACATGATGA-AATGTATCGATACATTA
*
903187 TATCGATACATGATGAATTGTATCGATACATT
1 TATCGATACATGATGAAATGTATCGATACATT
903219 GCTTGTAACG
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
33 28 0.97
34 1 0.03
ACGTcount: A:0.35, C:0.14, G:0.15, T:0.35
Consensus pattern (33 bp):
TATCGATACATGATGAAATGTATCGATACATTA
Found at i:908527 original size:52 final size:51
Alignment explanation
Indices: 908422--908528 Score: 151
Period size: 52 Copynumber: 2.1 Consensus size: 51
908412 CTTTCGAGGA
* * *
908422 GATACTCTAACCCCGGTTTTATTTTTAAAACATCGATTTTTCATAATTAGG
1 GATACTCTAACCCCGGTTTTATTTTTAAAACACCGATTTTTCACAATCAGG
* * *
908473 GATACTCTAACCTCGGTTTTTATTTTTGAAACACCGATTTTTCACAATCGGG
1 GATACTCTAACCCCGG-TTTTATTTTTAAAACACCGATTTTTCACAATCAGG
908525 GATA
1 GATA
908529 ATTCAACCCC
Statistics
Matches: 49, Mismatches: 6, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
51 15 0.31
52 34 0.69
ACGTcount: A:0.28, C:0.19, G:0.14, T:0.39
Consensus pattern (51 bp):
GATACTCTAACCCCGGTTTTATTTTTAAAACACCGATTTTTCACAATCAGG
Found at i:908689 original size:79 final size:76
Alignment explanation
Indices: 908471--909208 Score: 613
Period size: 79 Copynumber: 9.3 Consensus size: 76
908461 TTCATAATTA
* ** * * *
908471 GGGATACTCTAACCTCGGTTTTTATTTTTGAAACACCGATTTTTCACAATCGGGGATAATTCAAC
1 GGGATACTCAAACC-CGG-TTTTA-TTTCAAAACACCAATTTTTCACAATCGGGGATACTCCAA-
908536 CCCGTTATTTCT-GAG
62 CCCGTTATTT-TAGAG
* * ** * *
908551 AGGATACTCTAATCATGGTTTTTATTTCCAAAACACCAATTTTTCACAATCGAGAATACTCCAAT
1 GGGATACTC-AAACCCGG-TTTTATTT-CAAAACACCAATTTTTCACAATCGGGGATACTCCAA-
908616 CCCGTTATTTTAGAG
62 CCCGTTATTTTAGAG
* *
908631 GGGATACTCAAACCCGGATTTTAGTTTCAAAACACCAATTTTTCATAATTGGGGATACTCCAACC
1 GGGATACTCAAACCCGG-TTTTA-TTTCAAAACACCAATTTTTCACAATCGGGGATACTCCAACC
* **
908696 CTATTATTTCCGAG
64 C-GTTATTTTAGAG
* *** * **
908710 GGGGTACTCCAACATTAGTTTTTATTTCCAAAACACCAATTTTTCACAATCGATGATACTCCAAC
1 GGGATACT-CAA-ACCCGGTTTTATTT-CAAAACACCAATTTTTCACAATCGGGGATACTCCAAC
908775 CCTGTTATTTTCA-AG
63 CC-GTTATTTT-AGAG
* * *
908790 GAGATACTCCAACCCCGGTTTTATTTCTAAAACACTAATTTTTCACAATCGGGGATACTCCAACC
1 GGGATACT-CAAACCCGGTTTTATTTC-AAAACACCAATTTTTCACAATCGGGGATACTCCAA-C
* *
908855 CCATTATTTAAGAG
63 CCGTTATTTTAGAG
* * * **
908869 GGGATACTCCAACCTCGATTTTATTTCCAAAACACCAATTTTTCACAGTCGACGATACTCCAACC
1 GGGATACTCAAACC-CGGTTTTATTT-CAAAACACCAATTTTTCACAATCGGGGATACTCCAACC
908934 CTGTTATTTCT-GAG
64 C-GTTATTT-TAGAG
* * * *
908948 GGAATACTCCAACCCCGGTTTTATTTCTAAAACACCAATTTTTCACAATTGGGGATACTCAAACC
1 GGGATACT-CAAACCCGGTTTTATTTC-AAAACACCAATTTTTCACAATCGGGGATACTCCAA-C
*
909013 CCGTTATTTTCGAG
63 CCGTTATTTTAGAG
* * * * *
909027 GGGATACTCCAACCCCGGTTTTATTTTCAAAACATCGATTTTTCGCAATCGGGGATACTCCGACC
1 GGGATACT-CAAACCCGGTTTTA-TTTCAAAACACCAATTTTTCACAATCGGGGATACTCCAACC
**
909092 TCGTTATTTCCGAG
64 -CGTTATTTTAGAG
* * * * * *
909106 GGGATACT-ACAACCTTGGTTTTATTTCCAAAACATCGATTTTTCACCATTGGGGATATTCCAAC
1 GGGATACTCA-AACC-CGGTTTTATTT-CAAAACACCAATTTTTCACAATCGGGGATACTCCAA-
* *
909170 CCCATTATTTTTGA-
62 CCCGTTATTTTAGAG
* *
909184 GGGAGTACTCTAATCCCGTTTTTAT
1 GGGA-TACTC-AAACCCGGTTTTAT
909209 CTCTAAAATA
Statistics
Matches: 540, Mismatches: 89, Indels: 59
0.78 0.13 0.09
Matches are distributed among these distances:
77 1 0.00
78 26 0.05
79 357 0.66
80 151 0.28
81 5 0.01
ACGTcount: A:0.28, C:0.24, G:0.14, T:0.34
Consensus pattern (76 bp):
GGGATACTCAAACCCGGTTTTATTTCAAAACACCAATTTTTCACAATCGGGGATACTCCAACCCG
TTATTTTAGAG
Found at i:908963 original size:158 final size:156
Alignment explanation
Indices: 908470--909179 Score: 800
Period size: 158 Copynumber: 4.5 Consensus size: 156
908460 TTTCATAATT
* * * * * * * *
908470 AGGG-ATACTCTAACCTCGGTTTTTATTTTTGAAACACCGATTTTTCACAATCGGGGATAATTCA
1 AGGGAATACTCCAACCCCGG-TTTTATTTCTAAAACACCAATTTTTCACAATTGGGGATACTCCA
* * * * * *
908534 ACCCCGTTATTTCTGAGAGGATACTCTAATCATGGTTTTTATTTCCAAAACACCAATTTTTCACA
65 ACCCCATTATTTCCGAGGGGATACTCCAA-CCTCGTTTTTATTTCCAAAACACCAATTTTTCACA
908599 ATCGAGAATACTCCAATCCC-GTTATTTTAG
129 ATCGAG-ATACTCCAA-CCCTGTTATTTT-G
* * *
908629 AGGGGATACT-CAAACCCGGATTTTAGTTTC-AAAACACCAATTTTTCATAATTGGGGATACTCC
1 AGGGAATACTCCAACCCCGG-TTTTA-TTTCTAAAACACCAATTTTTCACAATTGGGGATACTCC
* * * *
908692 AACCCTATTATTTCCGAGGGGGTACTCCAACATTAGTTTTTATTTCCAAAACACCAATTTTTCAC
64 AACCCCATTATTTCCGAGGGGATACTCCAAC-CTCGTTTTTATTTCCAAAACACCAATTTTTCAC
*
908757 AATCGATGATACTCCAACCCTGTTATTTTC
128 AATCGA-GATACTCCAACCCTGTTATTTTG
* * *
908787 AAGGAGATACTCCAACCCCGGTTTTATTTCTAAAACACTAATTTTTCACAATCGGGGATACTCCA
1 AGGGA-ATACTCCAACCCCGGTTTTATTTCTAAAACACCAATTTTTCACAATTGGGGATACTCCA
** * *
908852 ACCCCATTATTTAAGAGGGGATACTCCAACCTCGATTTTATTTCCAAAACACCAATTTTTCACAG
65 ACCCCATTATTTCCGAGGGGATACTCCAACCTCGTTTTTATTTCCAAAACACCAATTTTTCACAA
908917 TCGACGATACTCCAACCCTGTTATTTCTG
130 TCGA-GATACTCCAACCCTGTTATTT-TG
*
908946 AGGGAATACTCCAACCCCGGTTTTATTTCTAAAACACCAATTTTTCACAATTGGGGATACTCAAA
1 AGGGAATACTCCAACCCCGGTTTTATTTCTAAAACACCAATTTTTCACAATTGGGGATACTCCAA
* * * * * * * *
909011 CCCCGTTATTTTCGAGGGGATACTCCAACCCCGGTTTTATTTTCAAAACATCGATTTTTCGCAAT
66 CCCCATTATTTCCGAGGGGATACTCCAACCTCGTTTTTATTTCCAAAACACCAATTTTTCACAAT
* * *
909076 CGGGGATACTCCGA-CCTCGTTATTTCCG
131 C-GAGATACTCCAACCCT-GTTATTT-TG
* * ** * * * * *
909104 AGGGGATACTACAACCTTGGTTTTATTTCCAAAACATCGATTTTTCACCATTGGGGATATTCCAA
1 AGGGAATACTCCAACCCCGGTTTTATTTCTAAAACACCAATTTTTCACAATTGGGGATACTCCAA
909169 CCCCATTATTT
66 CCCCATTATTT
909180 TTGAGGGAGT
Statistics
Matches: 476, Mismatches: 64, Indels: 23
0.85 0.11 0.04
Matches are distributed among these distances:
157 3 0.01
158 263 0.55
159 193 0.41
160 17 0.04
ACGTcount: A:0.29, C:0.24, G:0.14, T:0.33
Consensus pattern (156 bp):
AGGGAATACTCCAACCCCGGTTTTATTTCTAAAACACCAATTTTTCACAATTGGGGATACTCCAA
CCCCATTATTTCCGAGGGGATACTCCAACCTCGTTTTTATTTCCAAAACACCAATTTTTCACAAT
CGAGATACTCCAACCCTGTTATTTTG
Found at i:920314 original size:42 final size:42
Alignment explanation
Indices: 920255--920342 Score: 158
Period size: 42 Copynumber: 2.1 Consensus size: 42
920245 ATGTTGCTCC
*
920255 CATTCAGATGAGTATCCACACGACCTCGACGCATTGCCAGAA
1 CATTCAGATAAGTATCCACACGACCTCGACGCATTGCCAGAA
*
920297 CATTCAGATAAGTATCCACATGACCTCGACGCATTGCCAGAA
1 CATTCAGATAAGTATCCACACGACCTCGACGCATTGCCAGAA
920339 CATT
1 CATT
920343 AAAAAAGAGA
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
42 44 1.00
ACGTcount: A:0.32, C:0.30, G:0.17, T:0.22
Consensus pattern (42 bp):
CATTCAGATAAGTATCCACACGACCTCGACGCATTGCCAGAA
Found at i:921692 original size:17 final size:16
Alignment explanation
Indices: 921670--921731 Score: 54
Period size: 17 Copynumber: 3.8 Consensus size: 16
921660 TTTCTTTTCA
*
921670 AAAAAAAAAGTGAAAAC
1 AAAAAAAAAG-AAAAAC
*
921687 AAAAAAAAAGAAAAAG
1 AAAAAAAAAGAAAAAC
*
921703 AAAAAAAGAA-AAAAGAG
1 AAAAAAA-AAGAAAA-AC
*
921720 GAAAAAAAAGAA
1 AAAAAAAAAGAA
921732 CCTGCTTAAG
Statistics
Matches: 39, Mismatches: 3, Indels: 6
0.81 0.06 0.12
Matches are distributed among these distances:
16 17 0.44
17 22 0.56
ACGTcount: A:0.82, C:0.02, G:0.15, T:0.02
Consensus pattern (16 bp):
AAAAAAAAAGAAAAAC
Found at i:921728 original size:14 final size:14
Alignment explanation
Indices: 921669--921716 Score: 60
Period size: 14 Copynumber: 3.4 Consensus size: 14
921659 TTTTCTTTTC
**
921669 AAAAAAAAAAGTGA
1 AAAAAAAAAAAAGA
921683 AAACAAAAAAAAAGA
1 AAA-AAAAAAAAAGA
*
921698 AAAAGAAAAAAAGA
1 AAAAAAAAAAAAGA
921712 AAAAA
1 AAAAA
921717 GAGGAAAAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
14 17 0.59
15 12 0.41
ACGTcount: A:0.85, C:0.02, G:0.10, T:0.02
Consensus pattern (14 bp):
AAAAAAAAAAAAGA
Found at i:922900 original size:119 final size:117
Alignment explanation
Indices: 922685--923126 Score: 464
Period size: 119 Copynumber: 3.7 Consensus size: 117
922675 ACCTTTTATC
* * *
922685 CTTTCAGTCCTCAAAGAGCAAGATG-TTTTCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTT
1 CTTTCAGTCCTCAAAGAGCAGGACGCTTTTCCTTTTAAAGCCCACACAAG-T--TGGCACCTTTT
* * *
922749 AGTCTTCAAAGAGCAGGACGCCTTTTCTTTTTAAAGCTCACACAAGTTAGTGGCA
63 AGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTAGTGGCA
* *
922804 CTTTCCAGTCCTCAAAGAACAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGCA-TTTTCT
1 CTTT-CAGTCCTCAAAGAGCAGGACG-CTTTTCCTTTTAAAGCCCACACAAGTTGGCACCTTT-T
* * *
922868 AGTCCTCAAAGAGTAGGATGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
63 AGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTAGTGGCA
*
922923 CTTTCAGTCCTCAAAGAGCAGGACGTCTTTTCCTTTTAAAGCCTACACAAGTTGGCAGCACCTTT
1 CTTTCAGTCCTCAAAGAGCAGGACG-CTTTTCCTTTTAAAGCCCACACAAGTT-G--GCACCTTT
* * * * *
922988 CAATCCTCAAAGAGCAGGAC-AC-TTT-CTTTTCAAAGCCCACATGAA-TTGGTGGCA
62 TAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTT-AAAGCCCACA-CAAGTTAGTGGCA
* ** * *
923042 CTTTCTAGTCCTCAAAGAGCAGGATGCTTTCTCCTTGCAAAGCTCATACAAGTTGGTGGCACCTT
1 CTTTC-AGTCCTCAAAGAGCAGGACGCTTT-TCCTTTTAAAGCCCACACAAG-T--TGGCACCTT
* * *
923107 CTAGTCCCCAAAGAGAAGGA
61 TTAGTCCTCAAAGAGCAGGA
923127 TACATTTAAT
Statistics
Matches: 276, Mismatches: 32, Indels: 29
0.82 0.09 0.09
Matches are distributed among these distances:
118 54 0.20
119 95 0.34
120 78 0.28
121 21 0.08
122 27 0.10
123 1 0.00
ACGTcount: A:0.27, C:0.26, G:0.19, T:0.29
Consensus pattern (117 bp):
CTTTCAGTCCTCAAAGAGCAGGACGCTTTTCCTTTTAAAGCCCACACAAGTTGGCACCTTTTAGT
CCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTAGTGGCA
Found at i:923052 original size:180 final size:178
Alignment explanation
Indices: 922685--923126 Score: 547
Period size: 180 Copynumber: 2.5 Consensus size: 178
922675 ACCTTTTATC
*
922685 CTTTC-AGTCCTCAAAGAGCAAGATG-TTTTCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTT
1 CTTTCTAGTCCTCAAAGAGCAGGATGCTTTTCCTTTCAAAGCCCACACAAGTTGGTGGCA-CTTT
* * * ** *
922748 TAGTCTTCAAAGAGCAGGACGCCTTTTCTTTTTAAAGCTCACACAAGTTAGTGGCACTTTCCAGT
65 CAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCTCACACAAGTTAGCAGCACTTTCCAAT
* *
922813 CCTCAAAGAACAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGCA
130 CCTCAAAGAACAGGACGACTTTTCCTTTTAAAGCCCACACAAGGTGGCA
* * *
922862 TTTTCTAGTCCTCAAAGAGTAGGATGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTT
1 CTTTCTAGTCCTCAAAGAGCAGGATG-CTTTTCCTTTCAAAGCCCACACAAGTTGGTGGCACTTT
* *
922927 CAGTCCTCAAAGAGCAGGACGTCTTTTCCTTTTAAAGC-CTACACAAGTTGGCAGCACCTTT-CA
65 CAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCTC-ACACAAGTTAGCAGCA-CTTTCCA
* *
922990 ATCCTCAAAGAGCAGGAC-AC-TTT-CTTTTCAAAGCCCACATGAATTGGTGGCA
128 ATCCTCAAAGAACAGGACGACTTTTCCTTTT-AAAGCCCACA-CAA--GGTGGCA
* * * *
923042 CTTTCTAGTCCTCAAAGAGCAGGATGCTTTCTCCTTGCAAAGCTCATACAAGTTGGTGGCACCTT
1 CTTTCTAGTCCTCAAAGAGCAGGATGCTTT-TCCTTTCAAAGCCCACACAAGTTGGTGGCACTTT
* *
923107 CTAGTCCCCAAAGAGAAGGA
65 C-AGTCCTCAAAGAGCAGGA
923127 TACATTTAAT
Statistics
Matches: 229, Mismatches: 25, Indels: 18
0.84 0.09 0.07
Matches are distributed among these distances:
176 5 0.02
177 17 0.07
178 22 0.10
179 73 0.32
180 96 0.42
181 16 0.07
ACGTcount: A:0.27, C:0.26, G:0.19, T:0.29
Consensus pattern (178 bp):
CTTTCTAGTCCTCAAAGAGCAGGATGCTTTTCCTTTCAAAGCCCACACAAGTTGGTGGCACTTTC
AGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCTCACACAAGTTAGCAGCACTTTCCAATC
CTCAAAGAACAGGACGACTTTTCCTTTTAAAGCCCACACAAGGTGGCA
Found at i:923127 original size:61 final size:61
Alignment explanation
Indices: 922685--923126 Score: 498
Period size: 61 Copynumber: 7.4 Consensus size: 61
922675 ACCTTTTATC
* * *
922685 CTTTC-AGTCCTCAAAGAGCAAGATG--TTTTCCTTTCAAAGCCCACACAAGTTGGTGGCA
1 CTTTCTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
* * * *
922743 CCTTT-TAGTCTTCAAAGAGCAGGACGCCTTTTCTTTTTAAAGCTCACACAAGTTAGTGGCA
1 -CTTTCTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
* *
922804 CTTTCCAGTCCTCAAAGAACAGGACGCCTTTTCCTTTTAAAGCCCACACAAG-T--TGGCA
1 CTTTCTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
* * *
922862 TTTTCTAGTCCTCAAAGAGTAGGATGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
1 CTTTCTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
* * **
922923 CTTTC-AGTCCTCAAAGAGCAGGACGTCTTTTCCTTTTAAAGCCTACACAAGTTGGCAGCA
1 CTTTCTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
* * *
922983 CCTTTC-AATCCTCAAAGAGCAGGAC-AC-TTT-CTTTTCAAAGCCCACATGAA-TTGGTGGCA
1 -CTTTCTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTT-AAAGCCCACA-CAAGTTGGTGGCA
* ** * *
923042 CTTTCTAGTCCTCAAAGAGCAGGATG-CTTTCTCCTTGCAAAGCTCATACAAGTTGGTGGCA
1 CTTTCTAGTCCTCAAAGAGCAGGACGCCTTT-TCCTTTTAAAGCCCACACAAGTTGGTGGCA
* * *
923103 CCTTCTAGTCCCCAAAGAGAAGGA
1 CTTTCTAGTCCTCAAAGAGCAGGA
923127 TACATTTAAT
Statistics
Matches: 327, Mismatches: 40, Indels: 30
0.82 0.10 0.08
Matches are distributed among these distances:
58 62 0.19
59 59 0.18
60 61 0.19
61 142 0.43
62 3 0.01
ACGTcount: A:0.27, C:0.26, G:0.19, T:0.29
Consensus pattern (61 bp):
CTTTCTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
Found at i:923353 original size:42 final size:43
Alignment explanation
Indices: 923237--923358 Score: 165
Period size: 43 Copynumber: 2.8 Consensus size: 43
923227 AGCAAGACCC
* * *
923237 ATTTCATTTTCTTCTCCTTTGTCCTCAAAAAGCATGACACATTTA
1 ATTTCCTTTT-TT-TCCTTTGTCCTCAAAGAGCAGGACACATTTA
* *
923282 ATTTCCTTTTTTTCCTTTGTCCTCAAAGAGCAGGACGCATTTT
1 ATTTCCTTTTTTTCCTTTGTCCTCAAAGAGCAGGACACATTTA
*
923325 ATTTCC-TTTTTTCCTTTGTCCTCGAAGAGCAGGA
1 ATTTCCTTTTTTTCCTTTGTCCTCAAAGAGCAGGA
923359 TCTACTCCTT
Statistics
Matches: 71, Mismatches: 6, Indels: 3
0.89 0.08 0.04
Matches are distributed among these distances:
42 27 0.38
43 33 0.46
44 2 0.03
45 9 0.13
ACGTcount: A:0.21, C:0.24, G:0.12, T:0.43
Consensus pattern (43 bp):
ATTTCCTTTTTTTCCTTTGTCCTCAAAGAGCAGGACACATTTA
Found at i:923373 original size:43 final size:42
Alignment explanation
Indices: 923251--923421 Score: 150
Period size: 43 Copynumber: 4.3 Consensus size: 42
923241 CATTTTCTTC
* *
923251 TCCTTTGTCCTCAAAAAGCATGACACAT-TTAATTTCCTTTTTT
1 TCCTTTGTCCTCAAAGAGCAGGACACATCTT-ATTTCC-TTTTT
* *
923294 TCCTTTGTCCTCAAAGAGCAGGACGCATTTTATTTCCTTTTT
1 TCCTTTGTCCTCAAAGAGCAGGACACATCTTATTTCCTTTTT
* *
923336 TCCTTTGTCCTCGAAGAGCAGG----ATC-TA-CTCC-TTTT
1 TCCTTTGTCCTCAAAGAGCAGGACACATCTTATTTCCTTTTT
* *
923371 TCCTTTGTCCT-AAAGGAGCAGGACCCAT-TTCA-TT-CTCTTT
1 TCCTTTGTCCTCAAA-GAGCAGGACACATCTT-ATTTCCTTTTT
923411 TCCTTTGTCCT
1 TCCTTTGTCCT
923422 TGAAAAGCAA
Statistics
Matches: 110, Mismatches: 9, Indels: 21
0.79 0.06 0.15
Matches are distributed among these distances:
34 2 0.02
35 22 0.20
36 3 0.03
37 2 0.02
38 2 0.02
39 4 0.04
40 16 0.15
42 26 0.24
43 31 0.28
44 2 0.02
ACGTcount: A:0.19, C:0.26, G:0.13, T:0.42
Consensus pattern (42 bp):
TCCTTTGTCCTCAAAGAGCAGGACACATCTTATTTCCTTTTT
Found at i:923379 original size:77 final size:76
Alignment explanation
Indices: 923290--923430 Score: 205
Period size: 77 Copynumber: 1.9 Consensus size: 76
923280 TAATTTCCTT
* * * *
923290 TTTTTCCTTTGTCCTCAAAGAGCAGGACGCATTTTATTTCCTTTTTTCCTTTGTCCTCGAAGAGC
1 TTTTTCCTTTGTCCTCAAAGAGCAGGACCCATTTCATTT-CTCTTTTCCTTTGTCCTCGAAAAGC
923355 AGGATCTACTCC
65 AGGATCTACTCC
*
923367 TTTTTCCTTTGTCCT-AAAGGAGCAGGACCCATTTCA-TTCTCTTTTCCTTTGTCCTTGAAAAGC
1 TTTTTCCTTTGTCCTCAAA-GAGCAGGACCCATTTCATTTCTCTTTTCCTTTGTCCTCGAAAAGC
923430 A
65 A
923431 AGATGCGCTT
Statistics
Matches: 58, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
75 23 0.40
76 5 0.09
77 30 0.52
ACGTcount: A:0.19, C:0.26, G:0.15, T:0.40
Consensus pattern (76 bp):
TTTTTCCTTTGTCCTCAAAGAGCAGGACCCATTTCATTTCTCTTTTCCTTTGTCCTCGAAAAGCA
GGATCTACTCC
Found at i:923404 original size:160 final size:160
Alignment explanation
Indices: 923140--923430 Score: 483
Period size: 160 Copynumber: 1.8 Consensus size: 160
923130 ATTTAATTTC
* *
923140 GTCCTCAAGGAGCAGGACGCAATTTATTTCCTTTTTTCCTTTGTCCTCGAAGAGCAGGATGTACT
1 GTCCTCAAAGAGCAGGACGCAATTTATTTCCTTTTTTCCTTTGTCCTCGAAGAGCAGGATCTACT
* *
923205 CATTTTTCCCTTGTCCTTAAGGAGCAAGACCCATTTCATTTTCTTCTCCTTTGTCCTCAAAAAGC
66 CATTTTTCCCTTGTCCTAAAGGAGCAAGACCCATTTCATTCTCTTCTCCTTTGTCCTCAAAAAGC
923270 ATGACACATTTAATTTCCTTTTTTTCCTTT
131 ATGACACATTTAATTTCCTTTTTTTCCTTT
*
923300 GTCCTCAAAGAGCAGGACGCATTTTATTTCCTTTTTTCCTTTGTCCTCGAAGAGCAGGATCTACT
1 GTCCTCAAAGAGCAGGACGCAATTTATTTCCTTTTTTCCTTTGTCCTCGAAGAGCAGGATCTACT
* * * * **
923365 CCTTTTTCCTTTGTCCTAAAGGAGCAGGACCCATTTCATTCTCTTTTCCTTTGTCCTTGAAAAGC
66 CATTTTTCCCTTGTCCTAAAGGAGCAAGACCCATTTCATTCTCTTCTCCTTTGTCCTCAAAAAGC
923430 A
131 A
923431 AGATGCGCTT
Statistics
Matches: 120, Mismatches: 11, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
160 120 1.00
ACGTcount: A:0.21, C:0.25, G:0.15, T:0.39
Consensus pattern (160 bp):
GTCCTCAAAGAGCAGGACGCAATTTATTTCCTTTTTTCCTTTGTCCTCGAAGAGCAGGATCTACT
CATTTTTCCCTTGTCCTAAAGGAGCAAGACCCATTTCATTCTCTTCTCCTTTGTCCTCAAAAAGC
ATGACACATTTAATTTCCTTTTTTTCCTTT
Found at i:923807 original size:79 final size:79
Alignment explanation
Indices: 923455--923819 Score: 399
Period size: 79 Copynumber: 4.6 Consensus size: 79
923445 TCCTTTGTCC
* ** *
923455 GAGGGGATACTCCAACCCCAGTTTTATTTTCAAAATACCAATTTTTTACAATCGGGGATACTCCA
1 GAGGGGATACTCCAACCCCAGTTTTATTTCCAAAATATTAATTTTTCACAATCGGGGATACTCCA
* *
923520 ACCCCATTATTTTT
66 ACCCCGTTATTTCT
** * * * ** * * * *
923534 GAAAGGATACTCCAACCTCGGTTTTATTTCCAAAACACCAATTTTTCACTATTGGGGATACTTCG
1 GAGGGGATACTCCAACCCCAGTTTTATTTCCAAAATATTAATTTTTCACAATCGGGGATACTCCA
*
923599 TCCCCGTTATTTCT
66 ACCCCGTTATTTCT
* * * ** * *
923613 GAGGGGATACTCTAACCCCAGTTTTATTTCCAAAACATTGATTTCCCATAATCGGGGATACTCCG
1 GAGGGGATACTCCAACCCCAGTTTTATTTCCAAAATATTAATTTTTCACAATCGGGGATACTCCA
*
923678 ACCCCGTTATTTTT
66 ACCCCGTTATTTCT
* * * *
923692 GAGGGGATACTCCAACCCCAGTTTTATTTCCTAAATATTAATTTTTCACCATTGGGGATATTCCA
1 GAGGGGATACTCCAACCCCAGTTTTATTTCCAAAATATTAATTTTTCACAATCGGGGATACTCCA
*
923757 ACCCTGTTATTTCT
66 ACCCCGTTATTTCT
* * *
923771 GAGGGGGTACTCCGACCCC-GTTTTTATCTCCAAAATATTAAATTTTTCA
1 GAGGGGATACTCCAACCCCAG-TTTTATTTCCAAAATATT-AATTTTTCA
923820 TTGGGAGATG
Statistics
Matches: 237, Mismatches: 47, Indels: 3
0.83 0.16 0.01
Matches are distributed among these distances:
78 1 0.00
79 227 0.96
80 9 0.04
ACGTcount: A:0.26, C:0.24, G:0.15, T:0.35
Consensus pattern (79 bp):
GAGGGGATACTCCAACCCCAGTTTTATTTCCAAAATATTAATTTTTCACAATCGGGGATACTCCA
ACCCCGTTATTTCT
Found at i:925927 original size:23 final size:23
Alignment explanation
Indices: 925889--925937 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
925879 AATTTTAGTT
* * *
925889 ATTTGGCGCATTCTAACTAAAGC
1 ATTTGGCACATCCTAACTAAAAC
*
925912 ATTTGGCACATCCTAATTAAAAC
1 ATTTGGCACATCCTAACTAAAAC
925935 ATT
1 ATT
925938 CTTGTGATCC
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.35, C:0.20, G:0.12, T:0.33
Consensus pattern (23 bp):
ATTTGGCACATCCTAACTAAAAC
Found at i:927352 original size:10 final size:10
Alignment explanation
Indices: 927332--927396 Score: 58
Period size: 11 Copynumber: 5.9 Consensus size: 10
927322 CCTTTACACC
927332 CAAAAAAAAA
1 CAAAAAAAAA
*
927342 AAAAAACAAAA
1 CAAAAA-AAAA
*
927353 CAAAACAAAA
1 CAAAAAAAAA
927363 CAAACAAAAAA
1 CAAA-AAAAAA
927374 CTAAGAAAAAATA
1 C-AA-AAAAAA-A
927387 GCAAAAAAAA
1 -CAAAAAAAA
927397 GAAAGGGATC
Statistics
Matches: 45, Mismatches: 4, Indels: 10
0.76 0.07 0.17
Matches are distributed among these distances:
10 13 0.29
11 14 0.31
12 13 0.29
13 4 0.09
14 1 0.02
ACGTcount: A:0.82, C:0.12, G:0.03, T:0.03
Consensus pattern (10 bp):
CAAAAAAAAA
Found at i:927362 original size:19 final size:19
Alignment explanation
Indices: 927335--927371 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
927325 TTACACCCAA
927335 AAAAAAAAAAAAACAAAAC
1 AAAAAAAAAAAAACAAAAC
* *
927354 AAAACAAAACAAACAAAA
1 AAAAAAAAAAAAACAAAA
927372 AACTAAGAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.86, C:0.14, G:0.00, T:0.00
Consensus pattern (19 bp):
AAAAAAAAAAAAACAAAAC
Found at i:928678 original size:28 final size:28
Alignment explanation
Indices: 928609--929261 Score: 705
Period size: 28 Copynumber: 23.0 Consensus size: 28
928599 TGTTCATCCT
*
928609 TTTCAAAGCCCACAAGTCAGTGGCACTCT
1 TTTCAAAGCCCACAAGTCAGTGGCAC-CC
*
928638 TTTCAAAGCCCACGAGTCAGTGGCACCC
1 TTTCAAAGCCCACAAGTCAGTGGCACCC
* * * *
928666 TTTCGACGCCCACCAGTCAGTGGCACTC
1 TTTCAAAGCCCACAAGTCAGTGGCACCC
* *
928694 TTTCAACGCCCACAAGTTAGTGGCACCC
1 TTTCAAAGCCCACAAGTCAGTGGCACCC
* *
928722 TTTTCAAAGCCCACAAGTCGGTGGCACTCT
1 -TTTCAAAGCCCACAAGTCAGTGGCAC-CC
*
928752 TTTCAAAGCCCACAAGTTAGTGGCACCC
1 TTTCAAAGCCCACAAGTCAGTGGCACCC
*
928780 TTTCAAAGCCTACAAGTCAGTGGCACCC
1 TTTCAAAGCCCACAAGTCAGTGGCACCC
*
928808 TTTTCAAAGCCCACAAGTCAATGGCA--C
1 -TTTCAAAGCCCACAAGTCAGTGGCACCC
*
928835 --T-----CCTACAAGTCAGTGGCACCC
1 TTTCAAAGCCCACAAGTCAGTGGCACCC
*
928856 TTTCAAAGCCCACAAGTCAGTGGCACTCT
1 TTTCAAAGCCCACAAGTCAGTGGCAC-CC
* *
928885 TTTCAAAGCCCACAGAGTCGGTGGCAACTCT
1 TTTCAAAGCCCACA-AGTCAGTGGC-AC-CC
*
928916 TTTCAAAGCCCACAAGTCAGTGGCACTCT
1 TTTCAAAGCCCACAAGTCAGTGGCAC-CC
* *
928945 TTTCAAATCCCATAAGTCAGTGGCACCC
1 TTTCAAAGCCCACAAGTCAGTGGCACCC
* *
928973 TTTTC-AAGCCCACGAGTCAGTGGCACTC
1 -TTTCAAAGCCCACAAGTCAGTGGCACCC
* *
929001 TTTCAAAGCCCACAAGTTAGTGGCATCC
1 TTTCAAAGCCCACAAGTCAGTGGCACCC
* *
929029 TTTCAAAGCCCACAAGTTAGTGGCATCC
1 TTTCAAAGCCCACAAGTCAGTGGCACCC
* * *
929057 TTTCAAAACCCACGTAAGTTAGTGACACCC
1 TTTCAAAGCCCAC--AAGTCAGTGGCACCC
* **
929087 TTTCAAAGCCCACAAGTTAGTGGCACTTT
1 TTTCAAAGCCCACAAGTCAGTGGCAC-CC
929116 TTTCAAAGCCCACAAGTCAGTGGCACCC
1 TTTCAAAGCCCACAAGTCAGTGGCACCC
*
929144 TTTCAAAGCCCACAAGTTAGTGGCACCC
1 TTTCAAAGCCCACAAGTCAGTGGCACCC
*
929172 TTTCAAAGCCCACAAGTCAGTGGCACTCT
1 TTTCAAAGCCCACAAGTCAGTGGCAC-CC
* ** *
929201 TTTCAAAGCTCACACGAGTTGGTGGCAACTCT
1 TTTCAAAGC-C-CACAAGTCAGTGGC-AC-CC
*
929233 TTTCAAAGCCCACACAAGTTAGTGGCACC
1 TTTCAAAG-CC-CACAAGTCAGTGGCACC
929262 ATTTTTTTTG
Statistics
Matches: 543, Mismatches: 56, Indels: 49
0.84 0.09 0.08
Matches are distributed among these distances:
19 15 0.03
21 1 0.00
23 1 0.00
24 1 0.00
27 5 0.01
28 236 0.43
29 178 0.33
30 46 0.08
31 32 0.06
32 27 0.05
33 1 0.00
ACGTcount: A:0.27, C:0.31, G:0.18, T:0.23
Consensus pattern (28 bp):
TTTCAAAGCCCACAAGTCAGTGGCACCC
Found at i:928734 original size:57 final size:57
Alignment explanation
Indices: 928609--929260 Score: 731
Period size: 57 Copynumber: 11.5 Consensus size: 57
928599 TGTTCATCCT
* *
928609 TTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACGAGTCAGTGGCACCC
1 TTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTTAGTGGCACCC
* * * *
928666 TTTCGACGCCCACCAGTCAGTGGCACTC-TTTCAACGCCCACAAGTTAGTGGCACCC
1 TTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTTAGTGGCACCC
*
928722 TTTTCAAAGCCCACAAGTCGGTGGCACTCTTTTCAAAGCCCACAAGTTAGTGGCACCC
1 -TTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTTAGTGGCACCC
* * * *
928780 TTTCAAAGCCTACAAGTCAGTGGCACCCTTTTCAAAGCCCACAAGTCAATGGCA--C
1 TTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTTAGTGGCACCC
* * * *
928835 --T-----CCTACAAGTCAGTGGCAC-CCTTTCAAAGCCCACAAGTCAGTGGCACTCT
1 TTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTTAGTGGCAC-CC
* * *
928885 TTTCAAAGCCCACAGAGTCGGTGGCAACTCTTTTCAAAGCCCACAAGTCAGTGGCACTCT
1 TTTCAAAGCCCACA-AGTCAGTGGC-ACTCTTTTCAAAGCCCACAAGTTAGTGGCAC-CC
* * * * * *
928945 TTTCAAATCCCATAAGTCAGTGGCACCCTTTTC-AAGCCCACGAGTCAGTGGCACTC
1 TTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTTAGTGGCACCC
* * *
929001 TTTCAAAGCCCACAAGTTAGTGGCA-TCCTTTCAAAGCCCACAAGTTAGTGGCATCC
1 TTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTTAGTGGCACCC
* * * * **
929057 TTTCAAAACCCACGTAAGTTAGTGACAC-CCTTTCAAAGCCCACAAGTTAGTGGCACTTT
1 TTTCAAAGCCCAC--AAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTTAGTGGCAC-CC
*
929116 TTTCAAAGCCCACAAGTCAGTGGCAC-CCTTTCAAAGCCCACAAGTTAGTGGCACCC
1 TTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTTAGTGGCACCC
* * *
929172 TTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCTCACACGAGTTGGTGGCAACTCT
1 TTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGC-C-CACAAGTTAGTGGC-AC-CC
*
929233 TTTCAAAGCCCACACAAGTTAGTGGCAC
1 TTTCAAAG-CC-CACAAGTCAGTGGCAC
929261 CATTTTTTTT
Statistics
Matches: 515, Mismatches: 53, Indels: 48
0.84 0.09 0.08
Matches are distributed among these distances:
47 25 0.05
48 18 0.03
52 1 0.00
53 1 0.00
55 6 0.01
56 104 0.20
57 172 0.33
58 83 0.16
59 35 0.07
60 44 0.09
61 9 0.02
62 2 0.00
63 15 0.03
ACGTcount: A:0.27, C:0.31, G:0.18, T:0.23
Consensus pattern (57 bp):
TTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTTAGTGGCACCC
Found at i:928880 original size:47 final size:48
Alignment explanation
Indices: 928788--928883 Score: 176
Period size: 47 Copynumber: 2.0 Consensus size: 48
928778 CCTTTCAAAG
928788 CCTACAAGTCAGTGGCACCCTTTTCAAAGCCCACAAGTCAATGGCACT
1 CCTACAAGTCAGTGGCACCCTTTTCAAAGCCCACAAGTCAATGGCACT
*
928836 CCTACAAGTCAGTGGCACCC-TTTCAAAGCCCACAAGTCAGTGGCACT
1 CCTACAAGTCAGTGGCACCCTTTTCAAAGCCCACAAGTCAATGGCACT
928883 C
1 C
928884 TTTTCAAAGC
Statistics
Matches: 47, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
47 27 0.57
48 20 0.43
ACGTcount: A:0.28, C:0.34, G:0.18, T:0.20
Consensus pattern (48 bp):
CCTACAAGTCAGTGGCACCCTTTTCAAAGCCCACAAGTCAATGGCACT
Found at i:929147 original size:143 final size:143
Alignment explanation
Indices: 928839--929266 Score: 567
Period size: 143 Copynumber: 3.0 Consensus size: 143
928829 TGGCACTCCT
* *
928839 ACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAGAGTC
1 ACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTTAGTGGCA-TCCTTTCAAAGCCCACA-AGTC
* * * * *
928904 GGTGGCAACTCTTTTCAAAGCCCAC-AAGTCAGTGGCACTCTTTTCAAATCCCATAAGTCAGTGG
64 AGTGGC-ACTCTTTTCAAAGCCCACGAAGTTAGTGGCACTCTTTTCAAAGCCCACAAGTTAGTGG
928968 CACCCTTTTCAAGCCC
128 CACCCTTTTCAAGCCC
* * *
928984 ACGAGTCAGTGGCACTCTTTCAAAGCCCACAAGTTAGTGGCATCCTTTCAAAGCCCACAAGTTAG
1 ACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTTAGTGGCATCCTTTCAAAGCCCACAAGTCAG
* * * *
929049 TGGCA-TCCTTTCAAAACCCACGTAAGTTAGTGACAC-CCTTTCAAAGCCCACAAGTTAGTGGCA
66 TGGCACTCTTTTCAAAGCCCACG-AAGTTAGTGGCACTCTTTTCAAAGCCCACAAGTTAGTGGCA
**
929112 CTTTTTTCAAAGCCC
130 CCCTTTTC-AAGCCC
*
929127 ACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTTAGTGGCACCCTTTCAAAGCCCACAAGTCAG
1 ACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTTAGTGGCATCCTTTCAAAGCCCACAAGTCAG
*
929192 TGGCACTCTTTTCAAAGCTCACACG-AGTTGGTGGCAACTCTTTTCAAAGCCCACACAAGTTAGT
66 TGGCACTCTTTTCAAAGC-C-CACGAAGTTAGTGGC-ACTCTTTTCAAAG-CC-CACAAGTTAGT
*
929256 GGCACCATTTT
126 GGCACCCTTTT
929267 TTTTGAAAAA
Statistics
Matches: 246, Mismatches: 27, Indels: 17
0.85 0.09 0.06
Matches are distributed among these distances:
141 14 0.06
142 30 0.12
143 91 0.37
144 34 0.14
145 42 0.17
146 13 0.05
147 2 0.01
148 20 0.08
ACGTcount: A:0.28, C:0.30, G:0.18, T:0.24
Consensus pattern (143 bp):
ACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTTAGTGGCATCCTTTCAAAGCCCACAAGTCAG
TGGCACTCTTTTCAAAGCCCACGAAGTTAGTGGCACTCTTTTCAAAGCCCACAAGTTAGTGGCAC
CCTTTTCAAGCCC
Found at i:929854 original size:20 final size:20
Alignment explanation
Indices: 929823--929897 Score: 96
Period size: 20 Copynumber: 3.8 Consensus size: 20
929813 TTTTACCCAG
*
929823 ATGTATCAATACATTTTTCA
1 ATGTATCGATACATTTTTCA
* * * *
929843 ATATATCGATACATGTATGA
1 ATGTATCGATACATTTTTCA
*
929863 ATGTATCGATATATTTTTCA
1 ATGTATCGATACATTTTTCA
929883 ATGTATCGATACATT
1 ATGTATCGATACATT
929898 ATGTCTTTTT
Statistics
Matches: 44, Mismatches: 11, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
20 44 1.00
ACGTcount: A:0.35, C:0.12, G:0.11, T:0.43
Consensus pattern (20 bp):
ATGTATCGATACATTTTTCA
Found at i:929879 original size:40 final size:39
Alignment explanation
Indices: 929823--929900 Score: 120
Period size: 40 Copynumber: 2.0 Consensus size: 39
929813 TTTTACCCAG
929823 ATGTATCAATACATTTTTCAATATATCGATACATGTATGA
1 ATGTATCAATACATTTTTCAATATATCGATACAT-TATGA
* * *
929863 ATGTATCGATATATTTTTCAATGTATCGATACATTATG
1 ATGTATCAATACATTTTTCAATATATCGATACATTATG
929901 TCTTTTTACC
Statistics
Matches: 35, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
39 4 0.11
40 31 0.89
ACGTcount: A:0.35, C:0.12, G:0.12, T:0.42
Consensus pattern (39 bp):
ATGTATCAATACATTTTTCAATATATCGATACATTATGA
Found at i:937160 original size:2 final size:2
Alignment explanation
Indices: 937155--937220 Score: 132
Period size: 2 Copynumber: 33.0 Consensus size: 2
937145 CTCTCTGTTT
937155 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
937197 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
937221 ATTGTTTCTT
Statistics
Matches: 64, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 64 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:942780 original size:37 final size:37
Alignment explanation
Indices: 942702--942785 Score: 105
Period size: 37 Copynumber: 2.3 Consensus size: 37
942692 GGGTGGTTTG
* * ** **
942702 GCCAATCCATTATGATTGTTAGTATTCGGGTGGCAGT
1 GCCAATCCACTATGATTGTTAGAATTCGGGTAACAAC
*
942739 GCCAATCCACTATGATTGTTAGAATTTGGGTAACAAC
1 GCCAATCCACTATGATTGTTAGAATTCGGGTAACAAC
942776 GCCAATCCAC
1 GCCAATCCAC
942786 GGAAAAATAA
Statistics
Matches: 40, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
37 40 1.00
ACGTcount: A:0.27, C:0.21, G:0.21, T:0.30
Consensus pattern (37 bp):
GCCAATCCACTATGATTGTTAGAATTCGGGTAACAAC
Found at i:943236 original size:13 final size:13
Alignment explanation
Indices: 943218--943242 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
943208 ATTACTCAAA
943218 TGTATCGATACAT
1 TGTATCGATACAT
943231 TGTATCGATACA
1 TGTATCGATACA
943243 CTGATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:943294 original size:52 final size:52
Alignment explanation
Indices: 943251--943379 Score: 213
Period size: 52 Copynumber: 2.5 Consensus size: 52
943241 CACTGATCTT
* *
943251 TGTATCGATACATGTAGGCAAATTTGCCCAGATGTATCTATACACTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
* *
943303 TGTATCGATACATGCAGGTAAATTTGCCCAGATGTATCGATACACTATGAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
*
943355 TGTATCGATACATGCAAGCAAATTT
1 TGTATCGATACATGCAGGCAAATTT
943380 TCATATTTCG
Statistics
Matches: 71, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
52 71 1.00
ACGTcount: A:0.36, C:0.17, G:0.17, T:0.30
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:949913 original size:19 final size:18
Alignment explanation
Indices: 949889--949925 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
949879 GTAAACACAC
*
949889 AAACAAAAGTAAAAAAAAA
1 AAACAAAA-CAAAAAAAAA
949908 AAACAAAACAAAAAAAAA
1 AAACAAAACAAAAAAAAA
949926 CACAAAAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 9 0.53
19 8 0.47
ACGTcount: A:0.86, C:0.08, G:0.03, T:0.03
Consensus pattern (18 bp):
AAACAAAACAAAAAAAAA
Found at i:949915 original size:12 final size:12
Alignment explanation
Indices: 949889--949935 Score: 51
Period size: 12 Copynumber: 3.9 Consensus size: 12
949879 GTAAACACAC
*
949889 AAACAAAAGTAAA
1 AAACAAAA-AAAA
*
949902 AAA-AAAAAACA
1 AAACAAAAAAAA
949913 AAACAAAAAAAA
1 AAACAAAAAAAA
*
949925 ACACAAAAAAA
1 AAACAAAAAAA
949936 GGTGCAAAGG
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
11 5 0.17
12 21 0.72
13 3 0.10
ACGTcount: A:0.85, C:0.11, G:0.02, T:0.02
Consensus pattern (12 bp):
AAACAAAAAAAA
Done.