Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D07
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: 58101237
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1550000 characters in sequence are not A, C, G, or T
File 3 of 199
Found at i:772972 original size:15 final size:16
Alignment explanation
Indices: 772952--772982 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
772942 AAGTTCCTAA
772952 CTATATATGT-CTTAT
1 CTATATATGTACTTAT
772967 CTATATATGTACTTAT
1 CTATATATGTACTTAT
772983 AAGACAAGCT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 10 0.67
16 5 0.33
ACGTcount: A:0.29, C:0.13, G:0.06, T:0.52
Consensus pattern (16 bp):
CTATATATGTACTTAT
Found at i:774253 original size:17 final size:19
Alignment explanation
Indices: 774227--774272 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
774217 TATTTATTAT
774227 ATATTATAAAT-A-TAAAA
1 ATATTATAAATAATTAAAA
*
774244 ATATTTTAAATAATTAAAA
1 ATATTATAAATAATTAAAA
*
774263 ATAATATAAA
1 ATATTATAAA
774273 AATGTCAGGT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
17 10 0.42
18 1 0.04
19 13 0.54
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (19 bp):
ATATTATAAATAATTAAAA
Found at i:775077 original size:27 final size:27
Alignment explanation
Indices: 775045--775096 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 27
775035 TTTTATAGTT
* *
775045 TTTAGGATTAAATTAAAATTTTATTTA
1 TTTAGGATCAAACTAAAATTTTATTTA
* *
775072 TTTAGGGTCAAACTACAATTTTATT
1 TTTAGGATCAAACTAAAATTTTATT
775097 ATATATTAAC
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 21 1.00
ACGTcount: A:0.37, C:0.06, G:0.10, T:0.48
Consensus pattern (27 bp):
TTTAGGATCAAACTAAAATTTTATTTA
Found at i:775360 original size:25 final size:26
Alignment explanation
Indices: 775323--775375 Score: 65
Period size: 25 Copynumber: 2.1 Consensus size: 26
775313 ACTTAAAATA
* *
775323 TTAATATTATATATGTGTGT-ATTTT
1 TTAATATTATATATATATGTAATTTT
775348 TTAATTATT-TATATATATGTAATTTT
1 TTAA-TATTATATATATATGTAATTTT
775374 TT
1 TT
775376 TTACTACACT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
25 13 0.54
26 11 0.46
ACGTcount: A:0.30, C:0.00, G:0.08, T:0.62
Consensus pattern (26 bp):
TTAATATTATATATATATGTAATTTT
Found at i:776748 original size:29 final size:31
Alignment explanation
Indices: 776683--776750 Score: 86
Period size: 31 Copynumber: 2.3 Consensus size: 31
776673 GTTGACTAAA
*
776683 TATATACATAAATTTTAATTTAATGTGTAAT
1 TATATATATAAATTTTAATTTAATGTGTAAT
* * *
776714 TTTATATATGAATTTTGATTT-A-GTGTAAT
1 TATATATATAAATTTTAATTTAATGTGTAAT
776743 TATATATA
1 TATATATA
776751 CACGTCAAAT
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
29 14 0.44
30 1 0.03
31 17 0.53
ACGTcount: A:0.38, C:0.01, G:0.09, T:0.51
Consensus pattern (31 bp):
TATATATATAAATTTTAATTTAATGTGTAAT
Found at i:776779 original size:95 final size:95
Alignment explanation
Indices: 776586--776779 Score: 275
Period size: 95 Copynumber: 2.1 Consensus size: 95
776576 ATGAATTTTA
* *
776586 AAAT-TATACATAAAATTTAATTTTATATGTAATTTTATATATAAATTTTAATTTGGTGTAATTA
1 AAATATATACATAAAATTTAATTTAATATGTAATTTTATATATAAATTTTAATTTAGTGTAATTA
* * *
776650 TATATACACGCACAACTTTTATTGTTGACT
66 TATATACACGCACAACTTTTATCGTGGACC
* * * *
776680 AAATATATACATAAATTTTAATTTAATGTGTAATTTTATATATGAATTTTGATTTAGTGTAATTA
1 AAATATATACATAAAATTTAATTTAATATGTAATTTTATATATAAATTTTAATTTAGTGTAATTA
*
776745 TATATACACGTCA-AATTTTTATCGTGGACC
66 TATATACACG-CACAACTTTTATCGTGGACC
776775 AAATA
1 AAATA
776780 CACACATTTA
Statistics
Matches: 88, Mismatches: 10, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
94 4 0.05
95 82 0.93
96 2 0.02
ACGTcount: A:0.39, C:0.07, G:0.09, T:0.45
Consensus pattern (95 bp):
AAATATATACATAAAATTTAATTTAATATGTAATTTTATATATAAATTTTAATTTAGTGTAATTA
TATATACACGCACAACTTTTATCGTGGACC
Found at i:777903 original size:15 final size:16
Alignment explanation
Indices: 777876--777916 Score: 68
Period size: 15 Copynumber: 2.7 Consensus size: 16
777866 TTGATTCTGA
777876 TTATAATTA-TTTTAT
1 TTATAATTATTTTTAT
777891 TTAT-ATTATTTTTAT
1 TTATAATTATTTTTAT
777906 TTATAATTATT
1 TTATAATTATT
777917 CAAATAAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
14 4 0.17
15 14 0.58
16 6 0.25
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (16 bp):
TTATAATTATTTTTAT
Found at i:784730 original size:22 final size:22
Alignment explanation
Indices: 784703--784746 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
784693 ATTGTGATAA
784703 AAGGATTTGACCAGAGTCTGAT
1 AAGGATTTGACCAGAGTCTGAT
784725 AAGGATTTGACCAGAGTCTGAT
1 AAGGATTTGACCAGAGTCTGAT
784747 TGGTTCCAAG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.32, C:0.14, G:0.27, T:0.27
Consensus pattern (22 bp):
AAGGATTTGACCAGAGTCTGAT
Found at i:791905 original size:133 final size:125
Alignment explanation
Indices: 791626--791921 Score: 385
Period size: 126 Copynumber: 2.3 Consensus size: 125
791616 AACAATGACA
* * * * * * *
791626 ACAATCACAATCATAATAAAGCTAAACATTAACCAATGATTTTAATAATAGTTAAACTGGGAATT
1 ACAATCATAATCATAATATAGTTAAAAATTAACCAATGAATTGAATAATAGTTAAACTGAGAATT
791691 AAACCCTAAACCCTAAAACTAATTAGTAGGCATCAAACAAGAGTAAAATAACGCAATAAC
66 AAACCCTAAACCCTAAAACTAATTAGTAGGCATCAAACAAGAGTAAAATAACGCAATAAC
* * * * *
791751 AGCAATCATAATAATATTATAGTTAAAAATTAACCAGTGAATTGGATAATAGTTAAGCTGAGAAT
1 A-CAATCATAATCATAATATAGTTAAAAATTAACCAATGAATTGAATAATAGTTAAACTGAGAAT
* *
791816 TAAACCCTAAACCCTAATACTTAAATTAAGTAGTAGGCGTCAAACAAGAGTAAAAATAACGCAAT
65 TAAACCCTAAACCCTAAAAC-T-AA-T---TAGTAGGCATCAAACAAGAGT-AAAATAACGCAAT
791881 AAC
123 AAC
791884 GACAATCATAATCATAATATAGTTAAAAATTAACCAAT
1 -ACAATCATAATCATAATATAGTTAAAAATTAACCAAT
791922 TAGTTCAATC
Statistics
Matches: 145, Mismatches: 17, Indels: 10
0.84 0.10 0.06
Matches are distributed among these distances:
125 1 0.01
126 70 0.48
127 1 0.01
128 2 0.01
129 1 0.01
132 20 0.14
133 49 0.34
134 1 0.01
ACGTcount: A:0.49, C:0.15, G:0.11, T:0.25
Consensus pattern (125 bp):
ACAATCATAATCATAATATAGTTAAAAATTAACCAATGAATTGAATAATAGTTAAACTGAGAATT
AAACCCTAAACCCTAAAACTAATTAGTAGGCATCAAACAAGAGTAAAATAACGCAATAAC
Found at i:793822 original size:24 final size:23
Alignment explanation
Indices: 793786--793832 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 23
793776 ATTAGAAATA
*
793786 ATAAAAATTAAAATTAAAATTAG
1 ATAAAAATAAAAATTAAAATTAG
*
793809 ATAAAAATAAAAAATTAAAGTTAG
1 ATAAAAAT-AAAAATTAAAATTAG
793833 TAATGATATT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 8 0.38
24 13 0.62
ACGTcount: A:0.66, C:0.00, G:0.06, T:0.28
Consensus pattern (23 bp):
ATAAAAATAAAAATTAAAATTAG
Found at i:796673 original size:3 final size:3
Alignment explanation
Indices: 796665--796698 Score: 59
Period size: 3 Copynumber: 11.3 Consensus size: 3
796655 TGTAGATAGA
*
796665 AAT AAT AAT AAT AAG AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
796699 TACTAAATTT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.68, C:0.00, G:0.03, T:0.29
Consensus pattern (3 bp):
AAT
Found at i:798099 original size:10 final size:8
Alignment explanation
Indices: 798053--798101 Score: 59
Period size: 8 Copynumber: 6.2 Consensus size: 8
798043 GCTGAACTAT
798053 ATTTTTT-
1 ATTTTTTA
798060 A-TTTTT-
1 ATTTTTTA
798066 ATTTTTTA
1 ATTTTTTA
798074 ATTTTTTA
1 ATTTTTTA
798082 ATTTTTTA
1 ATTTTTTA
798090 ATAATTTTTA
1 AT--TTTTTA
798100 AT
1 AT
798102 CGAACCAATC
Statistics
Matches: 38, Mismatches: 0, Indels: 5
0.88 0.00 0.12
Matches are distributed among these distances:
6 6 0.16
7 6 0.16
8 18 0.47
10 8 0.21
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (8 bp):
ATTTTTTA
Found at i:798555 original size:95 final size:95
Alignment explanation
Indices: 798392--798578 Score: 329
Period size: 95 Copynumber: 2.0 Consensus size: 95
798382 ATTAACTTTA
* * *
798392 CCCTGAATATAACTAGCTTGAAGTTTTAGAATTCACACAAAATGGGAGGTGAAGGGAGGCTTCCT
1 CCCTGAATATAACTAGCTCGAAGTTTTAGAATTCACACAAAATGAGAGGTGAAGGGAAGCTTCCT
798457 TTTGGCTTGATCTTAATGACAAAACTTTGC
66 TTTGGCTTGATCTTAATGACAAAACTTTGC
798487 CCCTGAATATAACTAGCTCGAAGTTTTAGAATTCACACAAAATGAGAGGTGAAGGGAAGCTTCCT
1 CCCTGAATATAACTAGCTCGAAGTTTTAGAATTCACACAAAATGAGAGGTGAAGGGAAGCTTCCT
* *
798552 TTTGGCTTGGTCTTAATGGCAAAACTT
66 TTTGGCTTGATCTTAATGACAAAACTT
798579 AAGAGAGACG
Statistics
Matches: 87, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
95 87 1.00
ACGTcount: A:0.31, C:0.17, G:0.22, T:0.30
Consensus pattern (95 bp):
CCCTGAATATAACTAGCTCGAAGTTTTAGAATTCACACAAAATGAGAGGTGAAGGGAAGCTTCCT
TTTGGCTTGATCTTAATGACAAAACTTTGC
Found at i:814902 original size:24 final size:25
Alignment explanation
Indices: 814875--814922 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
814865 TTCGTTAATT
*
814875 GCTCTTCG-GAGCTACTCGTTATAG
1 GCTCTTCGTGAGCTACCCGTTATAG
* *
814899 GCTCTTTGTGAGCTTCCCGTTATA
1 GCTCTTCGTGAGCTACCCGTTATA
814923 TTGCTCGAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
24 7 0.35
25 13 0.65
ACGTcount: A:0.15, C:0.25, G:0.23, T:0.38
Consensus pattern (25 bp):
GCTCTTCGTGAGCTACCCGTTATAG
Found at i:819897 original size:17 final size:17
Alignment explanation
Indices: 819858--819895 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 17
819848 GGTTTATTTT
819858 ATTTTATTAATTTGAAA
1 ATTTTATTAATTTGAAA
* *
819875 ACTTTATT-ATTTTAAA
1 ATTTTATTAATTTGAAA
819891 ATTTT
1 ATTTT
819896 TAAAGATAAC
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
16 11 0.61
17 7 0.39
ACGTcount: A:0.37, C:0.03, G:0.03, T:0.58
Consensus pattern (17 bp):
ATTTTATTAATTTGAAA
Found at i:820151 original size:142 final size:143
Alignment explanation
Indices: 819992--820282 Score: 539
Period size: 143 Copynumber: 2.0 Consensus size: 143
819982 AAATTTAGAT
819992 ATTAAATTAAGAAAAAAATTATAAAAATCAAATTGAGAAAATGTGCGGGTAAAAATGTATTTAAA
1 ATTAAATTAAGAAAAAAATTATAAAAATCAAATTGAGAAAATGTGCGGGTAAAAATGTATTTAAA
820057 CTTTTTTATTAATTATTTTATTGCCATAATAATATTTGATGTTAAAGGGAACGTTATTAATTAGA
66 CTTTTTTATTAATTATTTTATTGCCATAATAATATTTGATGTTAAA-GGAACGTTATTAATTAGA
*
820122 GAAAATCCATATTC
130 GAAAATCCACATTC
*
820136 -TTAAATTAAGAAAAAAATTATAAAAATCAAATTGAGAGAATGTGCGGGTAAAAATGTATTTAAA
1 ATTAAATTAAGAAAAAAATTATAAAAATCAAATTGAGAAAATGTGCGGGTAAAAATGTATTTAAA
*
820200 CTTTTTTATTAATTATTTTATTGCCATAATAATATTTGATGTTAAAGGAACGTTATTAATTTGAG
66 CTTTTTTATTAATTATTTTATTGCCATAATAATATTTGATGTTAAAGGAACGTTATTAATTAGAG
820265 AAAATCCACATTC
131 AAAATCCACATTC
820278 ATTAA
1 ATTAA
820283 TGAATTATGA
Statistics
Matches: 143, Mismatches: 3, Indels: 3
0.96 0.02 0.02
Matches are distributed among these distances:
142 30 0.21
143 113 0.79
ACGTcount: A:0.44, C:0.07, G:0.12, T:0.37
Consensus pattern (143 bp):
ATTAAATTAAGAAAAAAATTATAAAAATCAAATTGAGAAAATGTGCGGGTAAAAATGTATTTAAA
CTTTTTTATTAATTATTTTATTGCCATAATAATATTTGATGTTAAAGGAACGTTATTAATTAGAG
AAAATCCACATTC
Found at i:820486 original size:3 final size:3
Alignment explanation
Indices: 820478--820512 Score: 52
Period size: 3 Copynumber: 11.7 Consensus size: 3
820468 AGGTGTTTCT
* *
820478 TAA TAA TAA TAA TAA TAA GAA TAA GAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
820513 CATCAATTTC
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:0.66, C:0.00, G:0.06, T:0.29
Consensus pattern (3 bp):
TAA
Found at i:820579 original size:21 final size:22
Alignment explanation
Indices: 820536--820580 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
820526 AAAATAAGAT
820536 AATACAAAGATTAATACTTACA
1 AATACAAAGATTAATACTTACA
820558 AATACAAA-ATCTAATA-TTACA
1 AATACAAAGAT-TAATACTTACA
820579 AA
1 AA
820581 CAGGGAAGAA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
21 9 0.41
22 13 0.59
ACGTcount: A:0.58, C:0.13, G:0.02, T:0.27
Consensus pattern (22 bp):
AATACAAAGATTAATACTTACA
Found at i:829339 original size:85 final size:84
Alignment explanation
Indices: 829146--829489 Score: 385
Period size: 85 Copynumber: 4.1 Consensus size: 84
829136 ACAAAAACGA
** *
829146 TATATATACAATTTCCAAAAGAACATTTTAGGTTTCAATAAATCATA---T-TCCACTCCTATAC
1 TATATATATGATTTCCAAAAGAACATTTTAGGTTTCAATAAATCATATTTTGTTC-CTCCTATAC
829207 AAACCGGAGTAGACTATCCCC
65 AAACCGGAGTAGACTAT-CCC
* * *
829228 TATATATA-GAATTTCCAAAAGAACATTTTATGTTTCCATAGATCATATTTTGTTCCTCCTATAC
1 TATATATATG-ATTTCCAAAAGAACATTTTAGGTTTCAATAAATCATATTTTGTTCCTCCTATAC
* *
829292 AAACCAGAGAAGACTATCCC
65 AAACCGGAGTAGACTATCCC
* *
829312 TATATATATGATTTCCAAAAAGAACATTTTAGGTTTCAATAAATCATATTTCGTTCCTACTATAC
1 TATATATATGATTTCC-AAAAGAACATTTTAGGTTTCAATAAATCATATTTTGTTCCTCCTATAC
829377 AAACCGGAGTAGACTATCCC
65 AAACCGGAGTAGACTATCCC
* * * * * * * ** *
829397 TATATATGTAATTCCCAAAAGAACAGTTTGGGTTCCAATAAATCGTACTCCT-TTCCTCCTATAT
1 TATATATATGATTTCCAAAAGAACATTTTAGGTTTCAATAAATCATA-TTTTGTTCCTCCTATAC
* * *
829461 GAACCGGAGAAGACCATCCC
65 AAACCGGAGTAGACTATCCC
*
829481 TATACATAT
1 TATATATAT
829490 AGGTATATAA
Statistics
Matches: 223, Mismatches: 31, Indels: 14
0.83 0.12 0.05
Matches are distributed among these distances:
82 42 0.19
84 78 0.35
85 101 0.45
86 2 0.01
ACGTcount: A:0.36, C:0.22, G:0.10, T:0.32
Consensus pattern (84 bp):
TATATATATGATTTCCAAAAGAACATTTTAGGTTTCAATAAATCATATTTTGTTCCTCCTATACA
AACCGGAGTAGACTATCCC
Found at i:829473 original size:169 final size:166
Alignment explanation
Indices: 829146--829490 Score: 439
Period size: 169 Copynumber: 2.1 Consensus size: 166
829136 ACAAAAACGA
* *
829146 TATATATACAATTTCCAAAAGAACATTTTAGGTTTCAATAAATCATATTCCACTCCTATACAAAC
1 TATATATATAATTTCCAAAAGAACATTTTAGGTTTCAATAAATCATATTCCACTACTATACAAAC
* * * * *
829211 CGGAGTAGACTATCCCCTATATATAGAATTTCCAAAAGAACATTTTATGTTTCCATAGATCATAT
66 CGGAGTAGACTATCCCCTATATATAGAATTCCCAAAAGAACAGTTTAGGGTTCCATAAATCATAT
** *
829276 TTTGTTCCTCCTATACAAACCAGAGAAGACTATCCC
131 CCTGTTCCTCCTATACAAACCAGAGAAGACCATCCC
*
829312 TATATATATGATTTCCAAAAAGAACATTTTAGGTTTCAATAAATCATATTTCGTTC-CTACTATA
1 TATATATATAATTTCC-AAAAGAACATTTTAGGTTTCAATAAATCATA-TTC---CACTACTATA
829376 CAAACCGGAGTAGACTAT-CCCTATATAT-GTAATTCCCAAAAGAACAGTTT-GGGTTCCAATAA
61 CAAACCGGAGTAGACTATCCCCTATATATAG-AATTCCCAAAAGAACAGTTTAGGGTTCC-ATAA
* ** *
829438 ATCGTACTCCT-TTCCTCCTATATGAACCGGAGAAGACCATCCC
124 ATCATA-TCCTGTTCCTCCTATACAAACCAGAGAAGACCATCCC
*
829481 TATACATATA
1 TATATATATA
829491 GGTATATAAT
Statistics
Matches: 154, Mismatches: 17, Indels: 13
0.84 0.09 0.07
Matches are distributed among these distances:
166 14 0.09
167 31 0.20
168 9 0.06
169 72 0.47
170 27 0.18
171 1 0.01
ACGTcount: A:0.36, C:0.21, G:0.10, T:0.32
Consensus pattern (166 bp):
TATATATATAATTTCCAAAAGAACATTTTAGGTTTCAATAAATCATATTCCACTACTATACAAAC
CGGAGTAGACTATCCCCTATATATAGAATTCCCAAAAGAACAGTTTAGGGTTCCATAAATCATAT
CCTGTTCCTCCTATACAAACCAGAGAAGACCATCCC
Found at i:830636 original size:15 final size:17
Alignment explanation
Indices: 830616--830648 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
830606 TAGTATTATA
830616 ATAATTT-T-TTATTTG
1 ATAATTTATGTTATTTG
830631 ATAATTTATGTTATTTG
1 ATAATTTATGTTATTTG
830648 A
1 A
830649 ACGAATAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 7 0.44
16 1 0.06
17 8 0.50
ACGTcount: A:0.30, C:0.00, G:0.09, T:0.61
Consensus pattern (17 bp):
ATAATTTATGTTATTTG
Found at i:831904 original size:45 final size:45
Alignment explanation
Indices: 831810--831914 Score: 111
Period size: 45 Copynumber: 2.3 Consensus size: 45
831800 ATTGATTAAC
* * * * ** *
831810 ACCATAGTTGAAACACACTATGGCATTATACCGGAATTAAATAAT
1 ACCATAGTTGAAAGAAACTATGGCATCATACCGAAAACAAATAAG
* * *
831855 ACCATAGTTGAAAGAAACTATGGCATCGTACCGAAAACGAGTAAG
1 ACCATAGTTGAAAGAAACTATGGCATCATACCGAAAACAAATAAG
*
831900 ACCATGGTTGAAAGA
1 ACCATAGTTGAAAGA
831915 CGTTATGGCA
Statistics
Matches: 49, Mismatches: 11, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
45 49 1.00
ACGTcount: A:0.42, C:0.17, G:0.19, T:0.22
Consensus pattern (45 bp):
ACCATAGTTGAAAGAAACTATGGCATCATACCGAAAACAAATAAG
Found at i:831922 original size:45 final size:43
Alignment explanation
Indices: 831855--831971 Score: 128
Period size: 45 Copynumber: 2.6 Consensus size: 43
831845 ATTAAATAAT
*** *
831855 ACCATAGTTGAAAGAAACTATGGCATCGTACCGA-AAACGAGTAAG
1 ACCATAGTTGAAAGACGTTATGGCATC---CCGATAAACGAGTAAA
* *
831900 ACCATGGTTGAAAGACGTTATGGCATCCCGATTTTAACGAGTAAA
1 ACCATAGTTGAAAGACGTTATGGCATCCCGA--TAAACGAGTAAA
831945 ACCATAGTTGAAAGACGTTATGGCATC
1 ACCATAGTTGAAAGACGTTATGGCATC
831972 ACAATTCTAA
Statistics
Matches: 62, Mismatches: 7, Indels: 6
0.83 0.09 0.08
Matches are distributed among these distances:
42 4 0.06
45 58 0.94
ACGTcount: A:0.37, C:0.18, G:0.22, T:0.23
Consensus pattern (43 bp):
ACCATAGTTGAAAGACGTTATGGCATCCCGATAAACGAGTAAA
Found at i:831988 original size:45 final size:45
Alignment explanation
Indices: 831894--832005 Score: 152
Period size: 45 Copynumber: 2.5 Consensus size: 45
831884 ACCGAAAACG
* * * * *
831894 AGTAAGACCATGGTTGAAAGACGTTATGGCATCCCGATTTTAACG
1 AGTAAGACCATAGTTGAAAGACGTTATGGCATCACAATTCTAACA
*
831939 AGTAAAACCATAGTTGAAAGACGTTATGGCATCACAATTCTAACA
1 AGTAAGACCATAGTTGAAAGACGTTATGGCATCACAATTCTAACA
* *
831984 AGTAAGACCATAGCTAAAAGAC
1 AGTAAGACCATAGTTGAAAGAC
832006 ACAATGGCAT
Statistics
Matches: 58, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
45 58 1.00
ACGTcount: A:0.39, C:0.18, G:0.20, T:0.23
Consensus pattern (45 bp):
AGTAAGACCATAGTTGAAAGACGTTATGGCATCACAATTCTAACA
Found at i:832013 original size:45 final size:45
Alignment explanation
Indices: 831919--832017 Score: 108
Period size: 45 Copynumber: 2.2 Consensus size: 45
831909 GAAAGACGTT
* * * * * * ***
831919 ATGGCATCCCGATTTTAACGAGTAAAACCATAGTTGAAAGACGTT
1 ATGGCATCACAATTCTAACAAGTAAAACCATAGCTAAAAGACACA
*
831964 ATGGCATCACAATTCTAACAAGTAAGACCATAGCTAAAAGACACA
1 ATGGCATCACAATTCTAACAAGTAAAACCATAGCTAAAAGACACA
832009 ATGGCATCA
1 ATGGCATCA
832018 TGAACCAGAC
Statistics
Matches: 44, Mismatches: 10, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
45 44 1.00
ACGTcount: A:0.40, C:0.20, G:0.17, T:0.22
Consensus pattern (45 bp):
ATGGCATCACAATTCTAACAAGTAAAACCATAGCTAAAAGACACA
Found at i:836713 original size:31 final size:31
Alignment explanation
Indices: 836678--836741 Score: 83
Period size: 31 Copynumber: 2.1 Consensus size: 31
836668 AAAACTGACC
* * *
836678 AATTCAAAAATTATATGGACTAAAATTAATT
1 AATTCAAAAAGTACAAGGACTAAAATTAATT
* *
836709 AATTCAAATAGTACAAGGACTCAAATTAATT
1 AATTCAAAAAGTACAAGGACTAAAATTAATT
836740 AA
1 AA
836742 ATTAATATAT
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.52, C:0.09, G:0.08, T:0.31
Consensus pattern (31 bp):
AATTCAAAAAGTACAAGGACTAAAATTAATT
Found at i:849720 original size:27 final size:27
Alignment explanation
Indices: 849679--849781 Score: 136
Period size: 27 Copynumber: 3.8 Consensus size: 27
849669 TAGTATTGGC
*
849679 GCCTATTTGGAAGGCTCCAATGGTGGT
1 GCCTATTTGGAAGGCGCCAATGGTGGT
*
849706 GCCTATTTGGGAGGCGCCAATGGTGGT
1 GCCTATTTGGAAGGCGCCAATGGTGGT
* * *
849733 GCCTATGTAGCAGGCGCCAATGGTGGT
1 GCCTATTTGGAAGGCGCCAATGGTGGT
*
849760 GCC-ATATTAGAAGGCGCCAATG
1 GCCTAT-TTGGAAGGCGCCAATG
849782 CTGTGATTTT
Statistics
Matches: 68, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
26 2 0.03
27 66 0.97
ACGTcount: A:0.20, C:0.20, G:0.35, T:0.24
Consensus pattern (27 bp):
GCCTATTTGGAAGGCGCCAATGGTGGT
Found at i:849885 original size:18 final size:20
Alignment explanation
Indices: 849843--849889 Score: 62
Period size: 18 Copynumber: 2.5 Consensus size: 20
849833 AAAACGGAAG
849843 AAAGAAGAAGGAAGGAAGCA
1 AAAGAAGAAGGAAGGAAGCA
* *
849863 GAAGAA-AA-GAAGGAAGGA
1 AAAGAAGAAGGAAGGAAGCA
849881 AAAGAAGAA
1 AAAGAAGAA
849890 AAAAGTAGGT
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
18 14 0.61
19 4 0.17
20 5 0.22
ACGTcount: A:0.64, C:0.02, G:0.34, T:0.00
Consensus pattern (20 bp):
AAAGAAGAAGGAAGGAAGCA
Found at i:849892 original size:22 final size:23
Alignment explanation
Indices: 849839--849892 Score: 76
Period size: 22 Copynumber: 2.4 Consensus size: 23
849829 TACAAAAACG
*
849839 GAAGAAAGAAGAAGGAAGGAAGCA
1 GAAGAAA-AAGAAGGAAGGAAGAA
849863 GAAG-AAAAGAAGGAAGGAA-AA
1 GAAGAAAAAGAAGGAAGGAAGAA
849884 GAAGAAAAA
1 GAAGAAAAA
849893 AGTAGGTATT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
21 5 0.18
22 17 0.61
23 2 0.07
24 4 0.14
ACGTcount: A:0.65, C:0.02, G:0.33, T:0.00
Consensus pattern (23 bp):
GAAGAAAAAGAAGGAAGGAAGAA
Found at i:853775 original size:38 final size:38
Alignment explanation
Indices: 853732--853813 Score: 137
Period size: 38 Copynumber: 2.2 Consensus size: 38
853722 AAAAAGTCAG
*
853732 TTATAATTAAATTTTTAATAAAATGATTTTTAATTTAT
1 TTATAATTAAACTTTTAATAAAATGATTTTTAATTTAT
* *
853770 TTATAATTAAACTTTTAATGAAATGATTTTTAATTTTT
1 TTATAATTAAACTTTTAATAAAATGATTTTTAATTTAT
853808 TTATAA
1 TTATAA
853814 ACTTTATATG
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
38 41 1.00
ACGTcount: A:0.40, C:0.01, G:0.04, T:0.55
Consensus pattern (38 bp):
TTATAATTAAACTTTTAATAAAATGATTTTTAATTTAT
Found at i:854033 original size:19 final size:19
Alignment explanation
Indices: 854009--854481 Score: 165
Period size: 19 Copynumber: 25.2 Consensus size: 19
853999 ATATCCCCAC
854009 ATTACAATATTCATACAAA
1 ATTACAATATTCATACAAA
*
854028 ATTACAATA-T--TACAAT
1 ATTACAATATTCATACAAA
*
854044 ATT-C-ATA--CA-AAAAA
1 ATTACAATATTCATACAAA
*
854058 ATTGCAATATTCATACAAA
1 ATTACAATATTCATACAAA
*
854077 ATTATAATATTACAATATTCGTACAA
1 ATTACAATATT-C-ATA--C--A-AA
*
854103 CATTACAATATTCATAAAAA
1 -ATTACAATATTCATACAAA
*
854123 ATTATAATATTCATACAAA
1 ATTACAATATTCATACAAA
* *
854142 ATTACAA-AAT--TACAAT
1 ATTACAATATTCATACAAA
854158 ATT-C-ATA--CA-A-AAA
1 ATTACAATATTCATACAAA
*
854171 ATTGCAATATTCATACAAA
1 ATTACAATATTCATACAAA
* *
854190 ATTATAATA-T--TACAAT
1 ATTACAATATTCATACAAA
854206 ATT-C-ATA--CA-A-AAA
1 ATTACAATATTCATACAAA
* *
854219 AATATAATATTCATACAAA
1 ATTACAATATTCATACAAA
* *
854238 ATTACAA-AAT--TACAAT
1 ATTACAATATTCATACAAA
*
854254 ATT-C-ATA--CA-AAAAA
1 ATTACAATATTCATACAAA
*
854268 ATTGCAATATTCATACAAAACTATAA
1 ATTACAATATTCAT-----AC-A-AA
854294 TATTACAATATTCATACAAAAA
1 -ATTACAATATTCATAC--AAA
*
854316 ATTTATAATATTCATACAAA
1 A-TTACAATATTCATACAAA
854336 ATTACAATATTCATACAAAAA
1 ATTACAATATTCATAC--AAA
* * *
854357 ATTACTA-ATCCAAAACTATAA
1 ATTACAATATTC-ATAC-A-AA
*
854378 A-TACAAATTTAATT-ATAAAATA
1 ATTAC-AA--T-ATTCATACAA-A
*
854400 ATTACAATATTCATACAAC
1 ATTACAATATTCATACAAA
*
854419 ATTACAATATTCATAAAAAA
1 ATTACAATATTCAT-ACAAA
*
854439 ATTATAATATTCATACAAAA
1 ATTACAATATTCATAC-AAA
*
854459 ATTTAAAATATTCATACAAA
1 A-TTACAATATTCATACAAA
854479 ATT
1 ATT
854482 CTAATCTAAA
Statistics
Matches: 342, Mismatches: 47, Indels: 130
0.66 0.09 0.25
Matches are distributed among these distances:
13 9 0.03
14 23 0.07
15 13 0.04
16 38 0.11
17 4 0.01
18 12 0.04
19 97 0.28
20 44 0.13
21 36 0.11
22 23 0.07
23 7 0.02
24 1 0.00
25 7 0.02
26 5 0.01
27 23 0.07
ACGTcount: A:0.54, C:0.13, G:0.01, T:0.32
Consensus pattern (19 bp):
ATTACAATATTCATACAAA
Found at i:854045 original size:27 final size:26
Alignment explanation
Indices: 854009--854346 Score: 255
Period size: 27 Copynumber: 14.1 Consensus size: 26
853999 ATATCCCCAC
854009 ATTACAATATTCATACAAAATTACAAT
1 ATTACAATATTCATACAAAATTA-AAT
854036 ATTACAATATTCATAC-AAA--AAA-
1 ATTACAATATTCATACAAAATTAAAT
*
854058 ATTGCAATATTCATACAAAATTATAAT
1 ATTACAATATTCATACAAAATTA-AAT
* *
854085 ATTACAATATTCGTAC-------AAC
1 ATTACAATATTCATACAAAATTAAAT
*
854104 ATTACAATATTCATAAAAAATTATAAT
1 ATTACAATATTCATACAAAATTA-AAT
*
854131 ATT--------CATACAAAATTACAAA
1 ATTACAATATTCATACAAAATTA-AAT
854150 ATTACAATATTCATACAA----AAA-
1 ATTACAATATTCATACAAAATTAAAT
*
854171 ATTGCAATATTCATACAAAATTATAAT
1 ATTACAATATTCATACAAAATTA-AAT
854198 ATTACAATATTCATACAAAA--AAAT
1 ATTACAATATTCATACAAAATTAAAT
*
854222 A-T--AATATTCATACAAAATTACAAA
1 ATTACAATATTCATACAAAATTA-AAT
854246 ATTACAATATTCATAC-AAA--AAA-
1 ATTACAATATTCATACAAAATTAAAT
* *
854268 ATTGCAATATTCATACAAAACTATAAT
1 ATTACAATATTCATACAAAATTA-AAT
854295 ATTACAATATTCATAC-AAA--AAAT
1 ATTACAATATTCATACAAAATTAAAT
*
854318 -TTATAATATTCATACAAAATTACAAT
1 ATTACAATATTCATACAAAATTA-AAT
854344 ATT
1 ATT
854347 CATACAAAAA
Statistics
Matches: 252, Mismatches: 16, Indels: 86
0.71 0.05 0.24
Matches are distributed among these distances:
19 32 0.13
21 32 0.13
22 46 0.18
23 19 0.08
24 10 0.04
25 6 0.02
26 18 0.07
27 89 0.35
ACGTcount: A:0.53, C:0.13, G:0.01, T:0.33
Consensus pattern (26 bp):
ATTACAATATTCATACAAAATTAAAT
Found at i:854187 original size:48 final size:48
Alignment explanation
Indices: 853961--854342 Score: 371
Period size: 48 Copynumber: 8.0 Consensus size: 48
853951 ATTATAAAAT
* ** *
853961 AATTACAATATTCATACAAAAAATTACAATA-T--TACAATATATCCCCA
1 AATTACAATATTCATACAAAAAATTATAATATTCATACAA-A-ATTACAA
* *
854008 CATTACAATATTCATAC--AAAATTACAATATTACAATATTCATACAA--A-AA
1 AATTACAATATTCATACAAAAAATTATAATATT-C-ATA--CA-A-AATTACAA
* *
854057 AATTGCAATATTCATAC--AAAATTATAATA-T--TACAATATTCGTACAA
1 AATTACAATATTCATACAAAAAATTATAATATTCATACAA-AAT--TACAA
*
854103 CATTACAATATTCAT--AAAAAATTATAATATTCATACAAAATTACAA
1 AATTACAATATTCATACAAAAAATTATAATATTCATACAAAATTACAA
** *
854149 AATTACAATATTCATACAAAAAATTGCAATATTCATACAAAATTATAA
1 AATTACAATATTCATACAAAAAATTATAATATTCATACAAAATTACAA
* *
854197 TATTACAATATTCATACAAAAAAATATAATATTCATACAAAATTACAA
1 AATTACAATATTCATACAAAAAATTATAATATTCATACAAAATTACAA
** * *
854245 AATTACAATATTCATACAAAAAAATTGCAATATTCATACAAAACTATAA
1 AATTACAATATTCATAC-AAAAAATTATAATATTCATACAAAATTACAA
*
854294 TATTACAATATTCATACAAAAAATTTATAATATTCATACAAAATTACAA
1 AATTACAATATTCATACAAAAAA-TTATAATATTCATACAAAATTACAA
854343 TATTCATACA
Statistics
Matches: 281, Mismatches: 32, Indels: 42
0.79 0.09 0.12
Matches are distributed among these distances:
41 2 0.01
42 2 0.01
44 2 0.01
45 13 0.05
46 47 0.17
47 17 0.06
48 96 0.34
49 95 0.34
50 2 0.01
52 3 0.01
53 2 0.01
ACGTcount: A:0.53, C:0.14, G:0.01, T:0.32
Consensus pattern (48 bp):
AATTACAATATTCATACAAAAAATTATAATATTCATACAAAATTACAA
Found at i:854356 original size:41 final size:41
Alignment explanation
Indices: 854295--854479 Score: 177
Period size: 41 Copynumber: 4.5 Consensus size: 41
854285 AAACTATAAT
854295 ATTACAATATTCATACAAAAAATTTATAATATTCATAC-AAA
1 ATTACAATATTCATACAAAAAA-TTATAATATTCATACAAAA
* * *
854336 ATTACAATATTCATACAAAAAATTACT-A-ATCCAAAACTATAA
1 ATTACAATATTCATACAAAAAATTA-TAATATTC-ATAC-AAAA
* * * *
854378 A-TACAA-ATTTAATTATAAAATAATTACAATATTCATAC-AAC
1 ATTACAATA-TTCA-TACAAAA-AATTATAATATTCATACAAAA
854419 ATTACAATATTCATA-AAAAAATTATAATATTCATACAAAA
1 ATTACAATATTCATACAAAAAATTATAATATTCATACAAAA
*
854459 ATTTAAAATATTCATACAAAA
1 A-TTACAATATTCATACAAAA
854480 TTCTAATCTA
Statistics
Matches: 116, Mismatches: 14, Indels: 27
0.74 0.09 0.17
Matches are distributed among these distances:
39 19 0.16
40 15 0.13
41 48 0.41
42 21 0.18
43 10 0.09
44 3 0.03
ACGTcount: A:0.55, C:0.12, G:0.00, T:0.32
Consensus pattern (41 bp):
ATTACAATATTCATACAAAAAATTATAATATTCATACAAAA
Found at i:854666 original size:14 final size:15
Alignment explanation
Indices: 854649--854680 Score: 57
Period size: 14 Copynumber: 2.2 Consensus size: 15
854639 TTTCTTTCTT
854649 TCTTCTTCTCC-TTC
1 TCTTCTTCTCCTTTC
854663 TCTTCTTCTCCTTTC
1 TCTTCTTCTCCTTTC
854678 TCT
1 TCT
854681 CTTTTTTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 11 0.65
15 6 0.35
ACGTcount: A:0.00, C:0.41, G:0.00, T:0.59
Consensus pattern (15 bp):
TCTTCTTCTCCTTTC
Found at i:854681 original size:17 final size:17
Alignment explanation
Indices: 854642--854683 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 17
854632 TACCTTTTTT
*
854642 CTTTCTTTCTTCTTCTC
1 CTTTCTCTCTTCTTCTC
854659 C--T-TCTCTTCTTCTC
1 CTTTCTCTCTTCTTCTC
854673 CTTTCTCTCTT
1 CTTTCTCTCTT
854684 TTTTTTTTCT
Statistics
Matches: 21, Mismatches: 1, Indels: 6
0.75 0.04 0.21
Matches are distributed among these distances:
14 12 0.57
15 1 0.05
16 1 0.05
17 7 0.33
ACGTcount: A:0.00, C:0.38, G:0.00, T:0.62
Consensus pattern (17 bp):
CTTTCTCTCTTCTTCTC
Found at i:854884 original size:13 final size:13
Alignment explanation
Indices: 854866--854891 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
854856 CACCCGACCC
854866 GACCCGTATTTTT
1 GACCCGTATTTTT
854879 GACCCGTATTTTT
1 GACCCGTATTTTT
854892 TTCAAAAAAA
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:0.15, C:0.23, G:0.15, T:0.46
Consensus pattern (13 bp):
GACCCGTATTTTT
Found at i:855695 original size:17 final size:17
Alignment explanation
Indices: 855673--855714 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 17
855663 AGAAAAAAAA
855673 AAGAGAGAAAGGAGAAG
1 AAGAGAGAAAGGAGAAG
855690 -A-AGAG-AAGGAGAAG
1 AAGAGAGAAAGGAGAAG
*
855704 AAGAAAGAAAG
1 AAGAGAGAAAG
855715 AAAAAAGGTA
Statistics
Matches: 21, Mismatches: 1, Indels: 6
0.75 0.04 0.21
Matches are distributed among these distances:
14 9 0.43
15 5 0.24
16 4 0.19
17 3 0.14
ACGTcount: A:0.62, C:0.00, G:0.38, T:0.00
Consensus pattern (17 bp):
AAGAGAGAAAGGAGAAG
Found at i:855698 original size:14 final size:15
Alignment explanation
Indices: 855676--855707 Score: 57
Period size: 14 Copynumber: 2.2 Consensus size: 15
855666 AAAAAAAAAG
855676 AGAGAAAGGAGAAGA
1 AGAGAAAGGAGAAGA
855691 AGAG-AAGGAGAAGA
1 AGAGAAAGGAGAAGA
855705 AGA
1 AGA
855708 AAGAAAGAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 13 0.76
15 4 0.24
ACGTcount: A:0.59, C:0.00, G:0.41, T:0.00
Consensus pattern (15 bp):
AGAGAAAGGAGAAGA
Found at i:855948 original size:19 final size:19
Alignment explanation
Indices: 855901--855957 Score: 78
Period size: 19 Copynumber: 2.9 Consensus size: 19
855891 TTTAAATTTT
* *
855901 TTGTATGAATATTATAATTT
1 TTGTATGAATATTGTAA-TG
*
855921 TTTTATGAATATTGTAATG
1 TTGTATGAATATTGTAATG
855940 TTGTATGAATATTGTAAT
1 TTGTATGAATATTGTAAT
855958 TATTTTATAA
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
19 18 0.55
20 15 0.45
ACGTcount: A:0.33, C:0.00, G:0.14, T:0.53
Consensus pattern (19 bp):
TTGTATGAATATTGTAATG
Found at i:855978 original size:95 final size:87
Alignment explanation
Indices: 855870--856393 Score: 224
Period size: 95 Copynumber: 5.8 Consensus size: 87
855860 TATAGTTTAG
* * * *
855870 ATTAGAATTTTGTATGAATATTTTAAATTTTTTGTATGAATATTATAATTTTTTTATGAATATTG
1 ATTATAATTTTGTATGAATA-TTGAAATTTTTTGTATGAATATTGTAATTTTTTTATGAATATTA
*
855935 TAATGTTGTATGAATATTGTAATT
65 TAATTTTGTATGAATATTGTAA-T
* ** * * * * * * * *
855959 ATT-TTATAAT-TA--AAT-TTG-TATTTATAGTTTTGGAT-TAGTAATTTTTGTATGAATATTG
1 ATTATAATTTTGTATGAATATTGAAATTTTTTG-TATGAATATTGTAATTTTTTTATGAATATTA
*
856017 TAATTTTGTATGAATATTATAA-
65 TAATTTTGTATGAATATTGTAAT
*
856039 A-T-T--TTTTGTATGAATATTGTAATATTATAGTTTTGTATGAATATTGCAATTTTTTGTATGA
1 ATTATAATTTTGTATGAATATTG-AA-A-T-T--TTTTGTATGAATATTGTAATTTTTT-TATGA
* *
856100 ATATTGTAATTTTG--T-AATTTTGTATGAAT
59 ATATTATAATTTTGTATGAATATTG--T-AAT
* *
856129 ATTATATTTTTTGTATGAATATTGTAATATTATAATTTTGTATGAATATTGCAATTTTTTGTATG
1 ATTATA-ATTTTGTATGAATATTG-AA-A-T-T--TTTTGTATGAATATTGTAATTTTTT-TATG
* *
856194 AATATTGTAATTTTG--T-AATTTTGTATGAAT
58 AATATTATAATTTTGTATGAATATTG--T-AAT
* * *
856224 ATTATAATTTTTTTATGAATATTGTAA--TGTTGTATGAATATTGTAATATTATAATTTTGTATG
1 ATTATAA-TTTTGTATGAATATTGAAATTTTTTGTATGAATATTGT-A-A-T-T--TTTT-TATG
**
856287 AATATTGCAATTTTTTTGTATGAATATTGTAAT
58 AATATT---ATAATTTTGTATGAATATTGTAAT
* * *** *
856320 ATTGTAATTTTGTATGAATATTGTAATGTGGGATATATTGTAATATTGTAATTTTTTGTATGAAT
1 ATTATAATTTTGTATGAATATTGAAAT-T-TTTTGTA-TG-AATATTGTAATTTTTT-TATGAAT
*
856385 ATTGTAATT
61 ATTATAATT
856394 ATTTTATAAT
Statistics
Matches: 348, Mismatches: 45, Indels: 81
0.73 0.09 0.17
Matches are distributed among these distances:
77 2 0.01
78 2 0.01
79 2 0.01
80 4 0.01
81 3 0.01
82 46 0.13
83 7 0.02
84 1 0.00
85 4 0.01
86 6 0.02
87 23 0.07
88 17 0.05
89 25 0.07
90 2 0.01
91 2 0.01
92 4 0.01
93 16 0.05
94 1 0.00
95 140 0.40
96 15 0.04
97 2 0.01
98 2 0.01
99 11 0.03
100 3 0.01
101 8 0.02
ACGTcount: A:0.32, C:0.01, G:0.14, T:0.54
Consensus pattern (87 bp):
ATTATAATTTTGTATGAATATTGAAATTTTTTGTATGAATATTGTAATTTTTTTATGAATATTAT
AATTTTGTATGAATATTGTAAT
Found at i:856078 original size:27 final size:25
Alignment explanation
Indices: 855999--856346 Score: 228
Period size: 27 Copynumber: 14.9 Consensus size: 25
855989 TGGATTAGTA
855999 ATTTTTGTATGAATATTG---TA--
1 ATTTTTGTATGAATATTGTAATATT
*
856019 A-TTTTGTATGAATATTATAA-ATT
1 ATTTTTGTATGAATATTGTAATATT
*
856042 -TTTTG-TATGAATATTGTAATATT
1 ATTTTTGTATGAATATTGTAATATT
*
856065 ATAGTTTTGTATGAATATTG-CA-A-T
1 AT--TTTTGTATGAATATTGTAATATT
*
856089 -TTTTTGTATGAATATTGTAATTTTGT
1 ATTTTTGTATGAATATTGTAA-TAT-T
*
856115 AATTTTGTATGAATA-T-T-ATA-T
1 ATTTTTGTATGAATATTGTAATATT
856136 -TTTTTGTATGAATATTGTAATATT
1 ATTTTTGTATGAATATTGTAATATT
*
856160 ATAATTTTGTATGAATATTG-CA-A-T
1 AT--TTTTGTATGAATATTGTAATATT
*
856184 -TTTTTGTATGAATATTGTAATTTTGT
1 ATTTTTGTATGAATATTGTAA-TAT-T
*
856210 AATTTTGTATGAATA-T-T-ATA--
1 ATTTTTGTATGAATATTGTAATATT
*
856230 ATTTTTTTATGAATATTG---TA--
1 ATTTTTGTATGAATATTGTAATATT
*
856250 A-TGTTGTATGAATATTGTAATATT
1 ATTTTTGTATGAATATTGTAATATT
*
856274 ATAATTTTGTATGAATATTG-CA-ATT
1 AT--TTTTGTATGAATATTGTAATATT
856299 -TTTTTGTATGAATATTGTAATATTGT
1 ATTTTTGTATGAATATTGTAATA-T-T
*
856325 AATTTTGTATGAATATTGTAAT
1 ATTTTTGTATGAATATTGTAAT
856347 GTGGGATATA
Statistics
Matches: 260, Mismatches: 23, Indels: 83
0.71 0.06 0.23
Matches are distributed among these distances:
19 29 0.11
20 30 0.12
21 36 0.14
22 34 0.13
23 14 0.05
24 9 0.03
25 9 0.03
26 11 0.04
27 88 0.34
ACGTcount: A:0.32, C:0.01, G:0.13, T:0.54
Consensus pattern (25 bp):
ATTTTTGTATGAATATTGTAATATT
Found at i:856084 original size:68 final size:69
Alignment explanation
Indices: 855992--856391 Score: 344
Period size: 68 Copynumber: 5.7 Consensus size: 69
855982 ATAGTTTTGG
*
855992 ATTAGTAATTTTTGTATGAATATTGTAA-TTTTGTATGAATATTATAAATTTTTTGTATGAATAT
1 ATTA-TAA-TTTTGTATGAATATTGTAATTTTTGTATGAATATTGTAAATTTTTTGTATGAATAT
856056 TGTAAT
64 TGTAAT
* * *
856062 ATTATAGTTTTGTATGAATATTGCAATTTTTTGTATGAATATTGT-AA--TTTTG--T-AATTTT
1 ATTATAATTTTGTATGAATATTGTAA-TTTTTGTATGAATATTGTAAATTTTTTGTATGAATATT
856121 GTATGAAT
65 G--T-AAT
* *
856129 ATTATATTTTTTGTATGAATATTGTAATATTATAATTTTGTATGAATATTG-CAATTTTTTGTAT
1 ATTATA-ATTTTGTATGAATATTG---TA--AT--TTTTGTATGAATATTGTAAATTTTTTGTAT
856193 GAATATTGTAAT
58 GAATATTGTAAT
* * * * *
856205 TTTGTAATTTTGTATGAATATTATAATTTTTTTATGAATATTGT-AA--TGTTGTATGAATATTG
1 ATTATAATTTTGTATGAATATTGTAATTTTTGTATGAATATTGTAAATTTTTTGTATGAATATTG
856267 TAAT
66 TAAT
*
856271 ATTATAATTTTGTATGAATATTGCAATTTTTTTGTATGAATATTGTAATATTGTAATTTTGTATG
1 ATTATAATTTTGTATGAATATTGTAA--TTTTTGTATGAATATTGTAA-A-T-T--TTTTGTATG
856336 AATATTGTAAT
59 AATATTGTAAT
* * *
856347 GTGGGAT-ATATTG--T-AATATTGTAATTTTTTGTATGAATATTGTAA
1 AT--TATAATTTTGTATGAATATTGTAA-TTTTTGTATGAATATTGTAA
856392 TTATTTTATA
Statistics
Matches: 275, Mismatches: 23, Indels: 61
0.77 0.06 0.17
Matches are distributed among these distances:
64 6 0.02
65 1 0.00
66 42 0.15
67 14 0.05
68 68 0.25
69 5 0.02
70 23 0.08
71 1 0.00
72 3 0.01
73 22 0.08
74 27 0.10
75 16 0.06
76 32 0.12
77 6 0.02
78 3 0.01
79 6 0.02
ACGTcount: A:0.32, C:0.01, G:0.14, T:0.53
Consensus pattern (69 bp):
ATTATAATTTTGTATGAATATTGTAATTTTTGTATGAATATTGTAAATTTTTTGTATGAATATTG
TAAT
Found at i:856109 original size:48 final size:48
Alignment explanation
Indices: 856010--856257 Score: 367
Period size: 48 Copynumber: 5.2 Consensus size: 48
856000 TTTTTGTATG
**
856010 AATATTGTAATTTTGTATGAATATTATAAATTTTTTGTATGAATATTGT
1 AATATTGTAATTTTGTATGAATATT-GCAATTTTTTGTATGAATATTGT
* *
856059 AATATTATAGTTTTGTATGAATATTGCAATTTTTTGTATGAATATTGT
1 AATATTGTAATTTTGTATGAATATTGCAATTTTTTGTATGAATATTGT
*
856107 AATTTTGTAATTTTGTATGAATATT--ATATTTTTTGTATGAATATTGT
1 AATATTGTAATTTTGTATGAATATTGCA-ATTTTTTGTATGAATATTGT
*
856154 AATATTATAATTTTGTATGAATATTGCAATTTTTTGTATGAATATTGT
1 AATATTGTAATTTTGTATGAATATTGCAATTTTTTGTATGAATATTGT
* **
856202 AATTTTGTAATTTTGTATGAATATTATAATTTTTT-TATGAATATTGT
1 AATATTGTAATTTTGTATGAATATTGCAATTTTTTGTATGAATATTGT
*
856249 AATGTTGTA
1 AATATTGTA
856258 TGAATATTGT
Statistics
Matches: 182, Mismatches: 14, Indels: 8
0.89 0.07 0.04
Matches are distributed among these distances:
46 1 0.01
47 63 0.35
48 94 0.52
49 24 0.13
ACGTcount: A:0.32, C:0.01, G:0.13, T:0.54
Consensus pattern (48 bp):
AATATTGTAATTTTGTATGAATATTGCAATTTTTTGTATGAATATTGT
Found at i:856257 original size:114 final size:115
Alignment explanation
Indices: 856139--856346 Score: 391
Period size: 115 Copynumber: 1.8 Consensus size: 115
856129 ATTATATTTT
856139 TTGTATGAATATTGTAATATTATAATTTTGTATGAATATTGCAA-TTTTTTGTATGAATATTGTA
1 TTGTATGAATATTGTAATATTATAATTTTGTATGAATATTGCAATTTTTTTGTATGAATATTGTA
*
856203 ATTTTGTAATTTTGTATGAATATTATAATTTTTTTATGAATATTGTAATG
66 ATATTGTAATTTTGTATGAATATTATAATTTTTTTATGAATATTGTAATG
856253 TTGTATGAATATTGTAATATTATAATTTTGTATGAATATTGCAATTTTTTTGTATGAATATTGTA
1 TTGTATGAATATTGTAATATTATAATTTTGTATGAATATTGCAATTTTTTTGTATGAATATTGTA
*
856318 ATATTGTAATTTTGTATGAATATTGTAAT
66 ATATTGTAATTTTGTATGAATATTATAAT
856347 GTGGGATATA
Statistics
Matches: 91, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
114 44 0.48
115 47 0.52
ACGTcount: A:0.33, C:0.01, G:0.13, T:0.53
Consensus pattern (115 bp):
TTGTATGAATATTGTAATATTATAATTTTGTATGAATATTGCAATTTTTTTGTATGAATATTGTA
ATATTGTAATTTTGTATGAATATTATAATTTTTTTATGAATATTGTAATG
Found at i:856279 original size:66 final size:66
Alignment explanation
Indices: 856154--856325 Score: 229
Period size: 66 Copynumber: 2.6 Consensus size: 66
856144 TGAATATTGT
* * * * *
856154 AATATTATAA-TTTTGTATGAATATTGCAATTTTTTGTATGAATATTGTAATTTTGTAATTTTGT
1 AATATTATAATTTTTTTATGAATATTGTAA--TATTGTATGAATATTGTAATATTATAATTTTGT
856218 ATG
64 ATG
*
856221 AATATTATAATTTTTTTATGAATATTGTAATGTTGTATGAATATTGTAATATTATAATTTTGTAT
1 AATATTATAATTTTTTTATGAATATTGTAATATTGTATGAATATTGTAATATTATAATTTTGTAT
856286 G
66 G
**
856287 AATATTGCAATTTTTTTGTATGAATATTGTAATATTGTA
1 AATATTATAA-TTTTTT-TATGAATATTGTAATATTGTA
856326 ATTTTGTATG
Statistics
Matches: 94, Mismatches: 8, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
66 41 0.44
67 16 0.17
68 37 0.39
ACGTcount: A:0.33, C:0.01, G:0.13, T:0.53
Consensus pattern (66 bp):
AATATTATAATTTTTTTATGAATATTGTAATATTGTATGAATATTGTAATATTATAATTTTGTAT
G
Found at i:856315 original size:49 final size:46
Alignment explanation
Indices: 856221--856388 Score: 196
Period size: 49 Copynumber: 3.6 Consensus size: 46
856211 ATTTTGTATG
* *
856221 AATATTATAATTTTTTTATGAATATTGTAATGTTGTATGAATATTGT
1 AATATTATAA-TTTTGTATGAATATTGCAATGTTGTATGAATATTGT
*
856268 AATATTATAATTTTGTATGAATATTGCAATTTTTTTGTATGAATATTGT
1 AATATTATAATTTTGTATGAATATTGCAA---TGTTGTATGAATATTGT
* * * *
856317 AATATTGTAATTTTGTATGAATATTGTAATGTGGGAT--ATATTGT
1 AATATTATAATTTTGTATGAATATTGCAATGTTGTATGAATATTGT
*
856361 AATATTGTAATTTTTTGTATGAATATTG
1 AATATTATAA--TTTTGTATGAATATTG
856389 TAATTATTTT
Statistics
Matches: 108, Mismatches: 8, Indels: 11
0.85 0.06 0.09
Matches are distributed among these distances:
44 17 0.16
46 38 0.35
47 10 0.09
49 43 0.40
ACGTcount: A:0.33, C:0.01, G:0.15, T:0.52
Consensus pattern (46 bp):
AATATTATAATTTTGTATGAATATTGCAATGTTGTATGAATATTGT
Found at i:856322 original size:8 final size:8
Alignment explanation
Indices: 856309--856371 Score: 54
Period size: 8 Copynumber: 7.4 Consensus size: 8
856299 TTTTTGTATG
856309 AATATTGT
1 AATATTGT
856317 AATATTGT
1 AATATTGT
*
856325 AATTTTGTAT
1 AATATTG--T
856335 GAATATTGT
1 -AATATTGT
* * *
856344 AATGTGGG
1 AATATTGT
856352 ATATATTGT
1 A-ATATTGT
856361 AATATTGT
1 AATATTGT
856369 AAT
1 AAT
856372 TTTTTGTATG
Statistics
Matches: 43, Mismatches: 8, Indels: 8
0.73 0.14 0.14
Matches are distributed among these distances:
8 30 0.70
9 6 0.14
10 1 0.02
11 6 0.14
ACGTcount: A:0.35, C:0.00, G:0.17, T:0.48
Consensus pattern (8 bp):
AATATTGT
Found at i:856592 original size:38 final size:37
Alignment explanation
Indices: 856541--856621 Score: 135
Period size: 38 Copynumber: 2.2 Consensus size: 37
856531 CATATAAAGT
*
856541 TTATAAAAAATTAAAAATCATTTCATTAAAAGTTTAA
1 TTATAAAAAATTAAAAATCATTTCATTAAAAATTTAA
*
856578 TTATAAATAAATTAAAAATCATTTTATTAAAAATTTAA
1 TTATAAA-AAATTAAAAATCATTTCATTAAAAATTTAA
856616 TTATAA
1 TTATAA
856622 CTGACTTTTT
Statistics
Matches: 41, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
37 7 0.17
38 34 0.83
ACGTcount: A:0.54, C:0.04, G:0.01, T:0.41
Consensus pattern (37 bp):
TTATAAAAAATTAAAAATCATTTCATTAAAAATTTAA
Found at i:860367 original size:22 final size:23
Alignment explanation
Indices: 860342--860395 Score: 76
Period size: 22 Copynumber: 2.4 Consensus size: 23
860332 ATACCTACTT
*
860342 TTTTTCTTCT-TTTCCTTCCTTC
1 TTTTTCTTCTGCTTCCTTCCTTC
860364 -TTTTCTTCTGCTTCCTTCCTTC
1 TTTTTCTTCTGCTTCCTTCCTTC
860386 TTCTTTCTTC
1 TT-TTTCTTC
860396 CGTTTTTGTA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
21 9 0.32
22 11 0.39
23 1 0.04
24 7 0.25
ACGTcount: A:0.00, C:0.33, G:0.02, T:0.65
Consensus pattern (23 bp):
TTTTTCTTCTGCTTCCTTCCTTC
Found at i:860502 original size:27 final size:26
Alignment explanation
Indices: 860453--860555 Score: 116
Period size: 27 Copynumber: 3.8 Consensus size: 26
860443 AAAATCACAG
* *
860453 CATTGGCACCTTCTAATATGGCACCAC
1 CATTGGCGCCTCCTAATA-GGCACCAC
*
860480 CATTGGCGCCTGCTACATAGGCACCAC
1 CATTGGCGCCTCCTA-ATAGGCACCAC
*
860507 CATTGGCGCCTCCCAAATAGGCACCAC
1 CATTGGCGCCT-CCTAATAGGCACCAC
* *
860534 CATTGGAGCCTTCCAAATAGGC
1 CATTGGCGCC-TCCTAATAGGC
860556 GCCAATACTA
Statistics
Matches: 68, Mismatches: 5, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
27 62 0.91
28 6 0.09
ACGTcount: A:0.25, C:0.35, G:0.19, T:0.20
Consensus pattern (26 bp):
CATTGGCGCCTCCTAATAGGCACCAC
Found at i:865806 original size:69 final size:69
Alignment explanation
Indices: 865695--865833 Score: 278
Period size: 69 Copynumber: 2.0 Consensus size: 69
865685 AAATTAACTT
865695 GAATAAAATAAGCTTTGCTTGACATGGATGGCTAGAGCTTAATTTTTTTTAGATTAATTTAATTG
1 GAATAAAATAAGCTTTGCTTGACATGGATGGCTAGAGCTTAATTTTTTTTAGATTAATTTAATTG
865760 ATTC
66 ATTC
865764 GAATAAAATAAGCTTTGCTTGACATGGATGGCTAGAGCTTAATTTTTTTTAGATTAATTTAATTG
1 GAATAAAATAAGCTTTGCTTGACATGGATGGCTAGAGCTTAATTTTTTTTAGATTAATTTAATTG
865829 ATTC
66 ATTC
865833 G
1 G
865834 TGTAATTATT
Statistics
Matches: 70, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
69 70 1.00
ACGTcount: A:0.32, C:0.09, G:0.18, T:0.42
Consensus pattern (69 bp):
GAATAAAATAAGCTTTGCTTGACATGGATGGCTAGAGCTTAATTTTTTTTAGATTAATTTAATTG
ATTC
Found at i:868785 original size:22 final size:22
Alignment explanation
Indices: 868756--868813 Score: 71
Period size: 22 Copynumber: 2.6 Consensus size: 22
868746 CCTCTGAATA
*
868756 TTTAAAAATCTTAATTAAAATT
1 TTTAAAAATTTTAATTAAAATT
* * **
868778 TTTGAAAATTTTTATTAATCTT
1 TTTAAAAATTTTAATTAAAATT
868800 TTTAAAAATTTTAA
1 TTTAAAAATTTTAA
868814 AAGTTTTAAT
Statistics
Matches: 29, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.43, C:0.03, G:0.02, T:0.52
Consensus pattern (22 bp):
TTTAAAAATTTTAATTAAAATT
Found at i:875886 original size:22 final size:24
Alignment explanation
Indices: 875861--875907 Score: 62
Period size: 23 Copynumber: 2.0 Consensus size: 24
875851 TGGCCGGATT
875861 TCCCTT-TCCCCTCCCT-TCTCTC
1 TCCCTTCTCCCCTCCCTCTCTCTC
* *
875883 TCCCTTCTCTCTTCCCTCTCTCTC
1 TCCCTTCTCCCCTCCCTCTCTCTC
875907 T
1 T
875908 TCTTTTTTTC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 6 0.29
23 8 0.38
24 7 0.33
ACGTcount: A:0.00, C:0.55, G:0.00, T:0.45
Consensus pattern (24 bp):
TCCCTTCTCCCCTCCCTCTCTCTC
Found at i:875904 original size:13 final size:12
Alignment explanation
Indices: 875872--875909 Score: 60
Period size: 11 Copynumber: 3.2 Consensus size: 12
875862 CCCTTTCCCC
875872 TCCCTTCTCTC-
1 TCCCTTCTCTCT
875883 TCCCTTCTCTCT
1 TCCCTTCTCTCT
875895 TCCCTCTCTCTCT
1 TCCCT-TCTCTCT
875908 TC
1 TC
875910 TTTTTTTCTT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
11 11 0.44
12 5 0.20
13 9 0.36
ACGTcount: A:0.00, C:0.53, G:0.00, T:0.47
Consensus pattern (12 bp):
TCCCTTCTCTCT
Found at i:876399 original size:3 final size:3
Alignment explanation
Indices: 876375--876442 Score: 57
Period size: 3 Copynumber: 22.3 Consensus size: 3
876365 AATATCCTTG
* * * *
876375 TTA TTT TTA -TA TTA TTA GTA TTA TTA GTA TTA CTA TTA TTA TTA TGTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA
* *
876423 TTA GTA TATA TTT TTA TTA T
1 TTA TTA T-TA TTA TTA TTA T
876443 GTACGTGTAT
Statistics
Matches: 50, Mismatches: 12, Indels: 6
0.74 0.18 0.09
Matches are distributed among these distances:
2 2 0.04
3 42 0.84
4 6 0.12
ACGTcount: A:0.31, C:0.01, G:0.06, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:876452 original size:23 final size:23
Alignment explanation
Indices: 876382--876453 Score: 67
Period size: 23 Copynumber: 3.1 Consensus size: 23
876372 TTGTTATTTT
* *
876382 TATATTATTAGTAT-TATTAGTA
1 TATATTATTATTATGTAGTAGTA
*
876404 TTACTATTATTATTATGTATTAGTA
1 -TA-TATTATTATTATGTAGTAGTA
*
876429 TATATTTTTATTATGTACGT-GTA
1 TATATTATTATTATGTA-GTAGTA
876452 TA
1 TA
876454 CATATATATA
Statistics
Matches: 43, Mismatches: 3, Indels: 6
0.83 0.06 0.12
Matches are distributed among these distances:
23 21 0.49
24 14 0.33
25 8 0.19
ACGTcount: A:0.32, C:0.03, G:0.10, T:0.56
Consensus pattern (23 bp):
TATATTATTATTATGTAGTAGTA
Found at i:876523 original size:25 final size:24
Alignment explanation
Indices: 876476--876523 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
876466 TATATTTTCA
*
876476 TATTTAATATTTTTATTTCATTTT
1 TATTTAATATTTTTATTTAATTTT
876500 TATTCTAATA-TTTTATTATAATTT
1 TATT-TAATATTTTTATT-TAATTT
876524 ATATATATAC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
24 11 0.52
25 10 0.48
ACGTcount: A:0.29, C:0.04, G:0.00, T:0.67
Consensus pattern (24 bp):
TATTTAATATTTTTATTTAATTTT
Found at i:880364 original size:15 final size:15
Alignment explanation
Indices: 880329--880390 Score: 61
Period size: 15 Copynumber: 4.0 Consensus size: 15
880319 TTCAGTGGAG
880329 GCAAAAAAATAAAAA
1 GCAAAAAAATAAAAA
**
880344 TAAAAAAAATAAAAA
1 GCAAAAAAATAAAAA
*
880359 GCAAAAAAACAAATAA
1 GCAAAAAAATAAA-AA
* *
880375 ACAAATAAAAGAAAAA
1 GCAAA-AAAATAAAAA
880391 CCTCTATTGG
Statistics
Matches: 38, Mismatches: 7, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
15 23 0.61
16 8 0.21
17 7 0.18
ACGTcount: A:0.81, C:0.06, G:0.05, T:0.08
Consensus pattern (15 bp):
GCAAAAAAATAAAAA
Found at i:880840 original size:20 final size:19
Alignment explanation
Indices: 880815--880860 Score: 65
Period size: 20 Copynumber: 2.4 Consensus size: 19
880805 ATACTTCACT
880815 TGAAAAAACGAAAATAAAAA
1 TGAAAAAACGAAAA-AAAAA
*
880835 TGAAAAAATGAAAAAAAAA
1 TGAAAAAACGAAAAAAAAA
*
880854 AGAAAAA
1 TGAAAAA
880861 GAAAAAGGAG
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
19 11 0.46
20 13 0.54
ACGTcount: A:0.78, C:0.02, G:0.11, T:0.09
Consensus pattern (19 bp):
TGAAAAAACGAAAAAAAAA
Found at i:881392 original size:108 final size:108
Alignment explanation
Indices: 881203--881398 Score: 293
Period size: 108 Copynumber: 1.8 Consensus size: 108
881193 TTTGTATTCT
* ** *
881203 AGCAACATTTGCTATCTTGATTAATTTGTTCATTTAGAGCTTTGCTCTCGGCAAATTTTCATCTT
1 AGCAAAATTTGCTATCTTGATTAATTTGTTCATTTAGAGCTTTGCTCTCAACAAAATTTCATCTT
881268 ATCCATTGTGATAATCTTTTTCATCTTATACATCTCGTATCTC
66 ATCCATTGTGATAATCTTTTTCATCTTATACATCTCGTATCTC
* ** * *
881311 AGCAAAATTTGCTATCTTGATTGATTTGTTTGTTTATAGCTTTGCTCTCAACAAAATTTCATTTT
1 AGCAAAATTTGCTATCTTGATTAATTTGTTCATTTAGAGCTTTGCTCTCAACAAAATTTCATCTT
* *
881376 GTCCATTTTGATAATCTTTTTCA
66 ATCCATTGTGATAATCTTTTTCA
881399 AGCATTTTTC
Statistics
Matches: 77, Mismatches: 11, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
108 77 1.00
ACGTcount: A:0.24, C:0.18, G:0.11, T:0.47
Consensus pattern (108 bp):
AGCAAAATTTGCTATCTTGATTAATTTGTTCATTTAGAGCTTTGCTCTCAACAAAATTTCATCTT
ATCCATTGTGATAATCTTTTTCATCTTATACATCTCGTATCTC
Found at i:881882 original size:44 final size:44
Alignment explanation
Indices: 881833--881969 Score: 126
Period size: 44 Copynumber: 3.2 Consensus size: 44
881823 GAAGATAAAC
881833 CTTGCCTCTCTCGGTCGTAGCAGAGCTAGTTGAAGCTATCAGAT
1 CTTGCCTCTCTCGGTCGTAGCAGAGCTAGTTGAAGCTATCAGAT
* * * * * *
881877 CTTGCCT-TC-CTG-CATTGACAACGAAGC-AGATCGAAG--A-CAAAC
1 CTTGCCTCTCTCGGTCGTAG-C-A-G-AGCTAG-TTGAAGCTATCAGAT
881919 CTTGCCTCTCTCGGTCGTAGCAGAGCTAGTTGAAGCTATCAGAT
1 CTTGCCTCTCTCGGTCGTAGCAGAGCTAGTTGAAGCTATCAGAT
881963 CTTGCCT
1 CTTGCCT
881970 TCCTGCATTG
Statistics
Matches: 69, Mismatches: 12, Indels: 24
0.66 0.11 0.23
Matches are distributed among these distances:
41 11 0.16
42 16 0.23
43 8 0.12
44 23 0.33
45 11 0.16
ACGTcount: A:0.23, C:0.27, G:0.23, T:0.27
Consensus pattern (44 bp):
CTTGCCTCTCTCGGTCGTAGCAGAGCTAGTTGAAGCTATCAGAT
Found at i:881925 original size:42 final size:42
Alignment explanation
Indices: 881877--882010 Score: 98
Period size: 42 Copynumber: 3.1 Consensus size: 42
881867 GCTATCAGAT
881877 CTTGCCTTCCTGCATTGACAACGAAGCAGATCGAAGACAAAC
1 CTTGCCTTCCTGCATTGACAACGAAGCAGATCGAAGACAAAC
* * * * * *
881919 CTTGCCTCTCTCGGTCGTAG-C-A-G-AGCTAG-TTGAAGCTATCAGAT
1 CTTGCCT-TC-CTG-CATTGACAACGAAGC-AGATCGAAG--A-CAAAC
* *
881963 CTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGAAAAAC
1 CTTGCCTTCCTGCATTGACAACGAAGCAGATCGAAGACAAAC
882005 CTTGCC
1 CTTGCC
882011 ACTCTCGTTT
Statistics
Matches: 66, Mismatches: 14, Indels: 24
0.63 0.13 0.23
Matches are distributed among these distances:
41 11 0.17
42 21 0.32
43 7 0.11
44 16 0.24
45 11 0.17
ACGTcount: A:0.28, C:0.28, G:0.22, T:0.23
Consensus pattern (42 bp):
CTTGCCTTCCTGCATTGACAACGAAGCAGATCGAAGACAAAC
Found at i:881968 original size:86 final size:86
Alignment explanation
Indices: 881823--882258 Score: 647
Period size: 86 Copynumber: 5.1 Consensus size: 86
881813 AGTAAAAATT
* * * * *
881823 GAAGATAAACCTTGCCTCTCTCGGTCGTAGCAGAGCTAGTTGAAGCTATCAGATCTTGCCTTCCT
1 GAAGACAAACCTTGCCTCTCTCGTTTGTAGCAGAGCTGGTTGAAGATATCAGATCTTGCCTTCCT
*
881888 GCATTGACAACGAAGCAGATC
66 GCATTGACAGCGAAGCAGATC
* * * *
881909 GAAGACAAACCTTGCCTCTCTCGGTCGTAGCAGAGCTAGTTGAAGCTATCAGATCTTGCCTTCCT
1 GAAGACAAACCTTGCCTCTCTCGTTTGTAGCAGAGCTGGTTGAAGATATCAGATCTTGCCTTCCT
881974 GCATTGACAGCGAAGCAGATC
66 GCATTGACAGCGAAGCAGATC
* * * *
881995 GAAGAAAAACCTTGCCACTCTCGTTTGTAGTAGAGCTGGTTGAAGATAGCAGATCTTGCCTTCCT
1 GAAGACAAACCTTGCCTCTCTCGTTTGTAGCAGAGCTGGTTGAAGATATCAGATCTTGCCTTCCT
*
882060 GCATTGACAGTGAAGCAGATC
66 GCATTGACAGCGAAGCAGATC
* * *
882081 GAAGACAAACCTTGCCACTCTCGTTTGTAGTAGAGCTGGTTGAAGATAGCAGATCTTGCCTTCCT
1 GAAGACAAACCTTGCCTCTCTCGTTTGTAGCAGAGCTGGTTGAAGATATCAGATCTTGCCTTCCT
*
882146 GCACTGACAGCGAAGCAGATC
66 GCATTGACAGCGAAGCAGATC
* *
882167 GAAGACAAACCTTGCCTCTCTCGTTTGTAGCAGAGCTGGTTGAAGATATCAGATCTTGCTTTTCT
1 GAAGACAAACCTTGCCTCTCTCGTTTGTAGCAGAGCTGGTTGAAGATATCAGATCTTGCCTTCCT
* *
882232 GTATTTGGCAGCGAAGCAGATC
66 GCA-TTGACAGCGAAGCAGATC
*
882254 AAAGA
1 GAAGA
882259 TGGCAGATTT
Statistics
Matches: 326, Mismatches: 23, Indels: 1
0.93 0.07 0.00
Matches are distributed among these distances:
86 306 0.94
87 20 0.06
ACGTcount: A:0.27, C:0.23, G:0.24, T:0.26
Consensus pattern (86 bp):
GAAGACAAACCTTGCCTCTCTCGTTTGTAGCAGAGCTGGTTGAAGATATCAGATCTTGCCTTCCT
GCATTGACAGCGAAGCAGATC
Found at i:882539 original size:44 final size:43
Alignment explanation
Indices: 882447--883285 Score: 247
Period size: 44 Copynumber: 18.7 Consensus size: 43
882437 CCGATAATTC
* * * *
882447 TATCTCCCTGAGATTACAGCGGAGCAGATCAAAGAT-AGTAATCC
1 TATCTCCCTGAGATTACAGTGGAGCAGATTAAA-ATAAG-GATCT
* *
882491 TATCTCCCTGAGATTATAGTGGAGCGGATTAAAATAAAGGATCT
1 TATCTCCCTGAGATTACAGTGGAGCAGATTAAAAT-AAGGATCT
* ** * *** *
882535 TATCTCTCTGA-AGTTACAGCAGAGTAGA-TCGTATCAGG-TCT
1 TATCTCCCTGAGA-TTACAGTGGAGCAGATTAAAATAAGGATCT
* * * ** * *
882576 TATCACCCTGAGGTTACAGTGGAACAGACCAAAGAATTTCA-GATCC
1 TATCTCCCTGAGATTACAGTGGAGCAGA-TTAA-AA--TAAGGATCT
*
882622 TATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAGGATCT
1 TATCTCCCTGAGATTACAGTGGAGCAGATTAAAAT-AAGGATCT
* ** * *** *
882666 TATCTCTCTGA-AGTTACAGCAGAGTAGA-TCGCATCAGG-TCT
1 TATCTCCCTGAGA-TTACAGTGGAGCAGATTAAAATAAGGATCT
* * * * ** *
882707 TATCACCCTGAGGTTACAGGGGAGTAGACCGAAGAATTTCA-GATCT
1 TATCTCCCTGAGATTACAGTGGAGCAGA-TTAA-AA--TAAGGATCT
* * ***
882753 TATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCAGAGATCT
1 TATCTCCCTGAGATTACAGTGGAGCAGATTAAAATAAG-GATCT
* * * ** * *
882797 TATCTCTCTGAGATTACAGCGGAGTAGATTGAAGCT-AGTAATCC
1 TATCTCCCTGAGATTACAGTGGAGCAGATT-AAAATAAG-GATCT
* *
882841 TATCTCTCTGA-AGTTACAGTGGAGCGGATTAAAATAAAGGATCT
1 TATCTCCCTGAGA-TTACAGTGGAGCAGATTAAAAT-AAGGATCT
* * * *
882885 TATCTCTCTGA-AGTTACAGTAGAGTAGATCACATCAGATTGAAGTCAGAGATCT
1 TATCTCCCTGAGA-TTACAGT-G-G-AG-------CAGATTAAAATAAG-GATCT
* * ***
882939 TATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCAGAGATCT
1 TATCTCCCTGAGATTACAGTGGAGCAGATTAAAATAAG-GATCT
* * * ** * *
882983 TATCTCTCTGAGATTACAGCGGAGTAGATTGAAGCT-AGTAATCC
1 TATCTCCCTGAGATTACAGTGGAGCAGATT-AAAATAAG-GATCT
* *
883027 TATCTCTCTGA-AGTTACAGTGGAGCGGATTAAAATAAAGGATCT
1 TATCTCCCTGAGA-TTACAGTGGAGCAGATTAAAAT-AAGGATCT
* * * *
883071 TATCTCTCTGA-AGTTACAGTAGAGTAGATCACATCAGATTGAAGTCAGAGATCT
1 TATCTCCCTGAGA-TTACAGT-G-G-AG-------CAGATTAAAATAAG-GATCT
* * ***
883125 TATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCAGAGATCT
1 TATCTCCCTGAGATTACAGTGGAGCAGATTAAAATAAG-GATCT
* * * ** * *
883169 TATCTCTCTGAGATTACAGCGGAGTAGATTGAAGCT-AGTAATCC
1 TATCTCCCTGAGATTACAGTGGAGCAGATT-AAAATAAG-GATCT
* * *
883213 TATCTCTCTGA-AGTTACAGTGGAGCTGATTAAAATAAATGATCT
1 TATCTCCCTGAGA-TTACAGTGGAGCAGATTAAAAT-AAGGATCT
* * *
883257 TATCTCTCTGA-AGTTACAGTAGAGTAGAT
1 TATCTCCCTGAGA-TTACAGTGGAGCAGAT
883286 CACATCAGAT
Statistics
Matches: 603, Mismatches: 134, Indels: 116
0.71 0.16 0.14
Matches are distributed among these distances:
41 48 0.08
42 9 0.01
43 23 0.04
44 368 0.61
45 17 0.03
46 62 0.10
47 4 0.01
51 4 0.01
52 2 0.00
53 6 0.01
54 60 0.10
ACGTcount: A:0.31, C:0.18, G:0.23, T:0.28
Consensus pattern (43 bp):
TATCTCCCTGAGATTACAGTGGAGCAGATTAAAATAAGGATCT
Found at i:882684 original size:131 final size:131
Alignment explanation
Indices: 882487--882825 Score: 520
Period size: 131 Copynumber: 2.6 Consensus size: 131
882477 AAAGATAGTA
*
882487 ATCCTATCTCCCTGAGATTATAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTAC
1 ATCCTATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTAC
* *
882552 AGCAGAGTAGATCGTATCAGGTCTTATCACCCTGAGGTTACAGTGGAACAGACCAAAGAATTTCA
66 AGCAGAGTAGATCGCATCAGGTCTTATCACCCTGAGGTTACAGGGGAACAGACCAAAGAATTTCA
882617 G
131 G
882618 ATCCTATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTAC
1 ATCCTATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTAC
** *
882683 AGCAGAGTAGATCGCATCAGGTCTTATCACCCTGAGGTTACAGGGGAGTAGACCGAAGAATTTCA
66 AGCAGAGTAGATCGCATCAGGTCTTATCACCCTGAGGTTACAGGGGAACAGACCAAAGAATTTCA
882748 G
131 G
* * * * ***
882749 ATCTTATCTCCCTGAGGTTACAGTGGAGCAGATT-GAAGCCAGAGATCTTATCTCTCTG-AGATT
1 ATCCTATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAG-GATCTTATCTCTCTGAAG-TT
*
882812 ACAGCGGAGTAGAT
64 ACAGCAGAGTAGAT
882826 TGAAGCTAGT
Statistics
Matches: 192, Mismatches: 14, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
130 6 0.03
131 186 0.97
ACGTcount: A:0.30, C:0.19, G:0.23, T:0.27
Consensus pattern (131 bp):
ATCCTATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTAC
AGCAGAGTAGATCGCATCAGGTCTTATCACCCTGAGGTTACAGGGGAACAGACCAAAGAATTTCA
G
Found at i:883033 original size:142 final size:141
Alignment explanation
Indices: 882777--883046 Score: 348
Period size: 142 Copynumber: 1.9 Consensus size: 141
882767 TACAGTGGAG
* * *
882777 CAGATTGAAGCCAGAGATCTTATCTCTCTGAGATTACAGCGGAGTAGATTGAAGCTAGTAATCCT
1 CAGATTGAAGCCAGAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCCAGTAATCCT
* * * *
882842 ATCTCTCTGAAGTTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAG
66 ATCTCTCTGAAGTTACAGCGGAGCAGATTAAAAT-AAGAATCCTATCTCTCTGAAGTTACAGTAG
882907 AGTAGATCACAT
130 AGTAGATCACAT
* * * *
882919 CAGATTGAAGTCAGAGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCAG-AGATCT
1 CAGATTGAAGCCAGAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCCAGTA-ATCC
* **
882983 TATCTCTCTG-AGATTACAGCGGAGTAGATTGAAGCT-AGTAATCCTATCTCTCTGAAGTTACAG
65 TATCTCTCTGAAG-TTACAGCGGAGCAGATT-AAAATAAG-AATCCTATCTCTCTGAAGTTACAG
883046 T
127 T
883047 GGAGCGGATT
Statistics
Matches: 110, Mismatches: 14, Indels: 8
0.83 0.11 0.06
Matches are distributed among these distances:
141 5 0.05
142 102 0.93
143 3 0.03
ACGTcount: A:0.31, C:0.18, G:0.23, T:0.29
Consensus pattern (141 bp):
CAGATTGAAGCCAGAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCCAGTAATCCT
ATCTCTCTGAAGTTACAGCGGAGCAGATTAAAATAAGAATCCTATCTCTCTGAAGTTACAGTAGA
GTAGATCACAT
Found at i:883219 original size:142 final size:141
Alignment explanation
Indices: 882963--883232 Score: 348
Period size: 142 Copynumber: 1.9 Consensus size: 141
882953 TACAGTGGAG
* * *
882963 CAGATTGAAGCCAGAGATCTTATCTCTCTGAGATTACAGCGGAGTAGATTGAAGCTAGTAATCCT
1 CAGATTGAAGCCAGAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCCAGTAATCCT
* * * *
883028 ATCTCTCTGAAGTTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAG
66 ATCTCTCTGAAGTTACAGCGGAGCAGATTAAAAT-AAGAATCCTATCTCTCTGAAGTTACAGTAG
883093 AGTAGATCACAT
130 AGTAGATCACAT
* * * *
883105 CAGATTGAAGTCAGAGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCAG-AGATCT
1 CAGATTGAAGCCAGAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCCAGTA-ATCC
* **
883169 TATCTCTCTG-AGATTACAGCGGAGTAGATTGAAGCT-AGTAATCCTATCTCTCTGAAGTTACAG
65 TATCTCTCTGAAG-TTACAGCGGAGCAGATT-AAAATAAG-AATCCTATCTCTCTGAAGTTACAG
883232 T
127 T
883233 GGAGCTGATT
Statistics
Matches: 110, Mismatches: 14, Indels: 8
0.83 0.11 0.06
Matches are distributed among these distances:
141 5 0.05
142 102 0.93
143 3 0.03
ACGTcount: A:0.31, C:0.18, G:0.23, T:0.29
Consensus pattern (141 bp):
CAGATTGAAGCCAGAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCCAGTAATCCT
ATCTCTCTGAAGTTACAGCGGAGCAGATTAAAATAAGAATCCTATCTCTCTGAAGTTACAGTAGA
GTAGATCACAT
Found at i:883320 original size:186 final size:186
Alignment explanation
Indices: 882747--883300 Score: 1090
Period size: 186 Copynumber: 3.0 Consensus size: 186
882737 GAAGAATTTC
882747 AGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCAGAGATCTTATCTCTCTGAGATT
1 AGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCAGAGATCTTATCTCTCTGAGATT
882812 ACAGCGGAGTAGATTGAAGCTAGTAATCCTATCTCTCTGAAGTTACAGTGGAGCGGATTAAAATA
66 ACAGCGGAGTAGATTGAAGCTAGTAATCCTATCTCTCTGAAGTTACAGTGGAGCGGATTAAAATA
882877 AAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCACATCAGATTGAAGTCAG
131 AAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCACATCAGATTGAAGTCAG
882933 AGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCAGAGATCTTATCTCTCTGAGATT
1 AGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCAGAGATCTTATCTCTCTGAGATT
882998 ACAGCGGAGTAGATTGAAGCTAGTAATCCTATCTCTCTGAAGTTACAGTGGAGCGGATTAAAATA
66 ACAGCGGAGTAGATTGAAGCTAGTAATCCTATCTCTCTGAAGTTACAGTGGAGCGGATTAAAATA
883063 AAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCACATCAGATTGAAGTCAG
131 AAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCACATCAGATTGAAGTCAG
883119 AGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCAGAGATCTTATCTCTCTGAGATT
1 AGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCAGAGATCTTATCTCTCTGAGATT
*
883184 ACAGCGGAGTAGATTGAAGCTAGTAATCCTATCTCTCTGAAGTTACAGTGGAGCTGATTAAAATA
66 ACAGCGGAGTAGATTGAAGCTAGTAATCCTATCTCTCTGAAGTTACAGTGGAGCGGATTAAAATA
*
883249 AATGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCACATCAGATTGAAG
131 AAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCACATCAGATTGAAG
883301 CCGATAACTC
Statistics
Matches: 366, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
186 366 1.00
ACGTcount: A:0.31, C:0.17, G:0.23, T:0.29
Consensus pattern (186 bp):
AGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCAGAGATCTTATCTCTCTGAGATT
ACAGCGGAGTAGATTGAAGCTAGTAATCCTATCTCTCTGAAGTTACAGTGGAGCGGATTAAAATA
AAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCACATCAGATTGAAGTCAG
Found at i:883413 original size:46 final size:46
Alignment explanation
Indices: 883314--883413 Score: 121
Period size: 46 Copynumber: 2.2 Consensus size: 46
883304 ATAACTCTAT
* * * *
883314 CTCCCTGTATTTGGCAGTGGAACAGATTGAAGATTGCAGATCTTGC
1 CTCCCTGTATTTGGCAGTCGAACAGATCGAAGATGGCAGATCTTAC
* * *
883360 CTTCCTGTATTTGGCAG-CGAAGCAGATCGATGATGGCAGATTTTAC
1 CTCCCTGTATTTGGCAGTCGAA-CAGATCGAAGATGGCAGATCTTAC
883406 CTCCCTGT
1 CTCCCTGT
883414 GACGACAGTG
Statistics
Matches: 45, Mismatches: 8, Indels: 2
0.82 0.15 0.04
Matches are distributed among these distances:
45 3 0.07
46 42 0.93
ACGTcount: A:0.22, C:0.22, G:0.25, T:0.31
Consensus pattern (46 bp):
CTCCCTGTATTTGGCAGTCGAACAGATCGAAGATGGCAGATCTTAC
Found at i:883567 original size:41 final size:40
Alignment explanation
Indices: 883487--883599 Score: 190
Period size: 41 Copynumber: 2.8 Consensus size: 40
883477 CGAAGATTAC
* * *
883487 AGTCTTATCTCCCTAAGCAATAGTGGAGCAGATCGCATCA
1 AGTCTTATCTCCCTAAGTAGTAGTGGAGCAGATCACATCA
883527 AGTCTTATCTCCCTAAGTAGTTAGTGGAGCAGATCACATCA
1 AGTCTTATCTCCCTAAGTAG-TAGTGGAGCAGATCACATCA
883568 AGTCTTATCTCCCTAAGTAGTAGTGGAGCAGA
1 AGTCTTATCTCCCTAAGTAGTAGTGGAGCAGA
883600 CTAAAAACAC
Statistics
Matches: 69, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
40 30 0.43
41 39 0.57
ACGTcount: A:0.29, C:0.22, G:0.21, T:0.27
Consensus pattern (40 bp):
AGTCTTATCTCCCTAAGTAGTAGTGGAGCAGATCACATCA
Found at i:884549 original size:13 final size:12
Alignment explanation
Indices: 884517--884554 Score: 60
Period size: 11 Copynumber: 3.2 Consensus size: 12
884507 CCTTTCCCCC
884517 TCCCTTCTCTC-
1 TCCCTTCTCTCT
884528 TCCCTTCTCTCT
1 TCCCTTCTCTCT
884540 TCCCTCTCTCTCT
1 TCCCT-TCTCTCT
884553 TC
1 TC
884555 TTTTTTTCTT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
11 11 0.44
12 5 0.20
13 9 0.36
ACGTcount: A:0.00, C:0.53, G:0.00, T:0.47
Consensus pattern (12 bp):
TCCCTTCTCTCT
Found at i:885044 original size:3 final size:3
Alignment explanation
Indices: 885020--885090 Score: 63
Period size: 3 Copynumber: 23.3 Consensus size: 3
885010 AATATCCTTG
* * * *
885020 TTA TTT TTA -TA TTA TTA GTA TTA TTA GTA TTA CTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* *
885067 TGTA TTA GTA TATA TTT TTA TTA T
1 T-TA TTA TTA T-TA TTA TTA TTA T
885091 GTACGTGTAT
Statistics
Matches: 53, Mismatches: 12, Indels: 6
0.75 0.17 0.08
Matches are distributed among these distances:
2 2 0.04
3 45 0.85
4 6 0.11
ACGTcount: A:0.31, C:0.01, G:0.06, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:885087 original size:23 final size:22
Alignment explanation
Indices: 885032--885093 Score: 81
Period size: 23 Copynumber: 2.8 Consensus size: 22
885022 ATTTTTATAT
*
885032 TATTAGTATTATTA-GTATTAC
1 TATTATTATTATTATGTATTAC
*
885053 TATTATTATTATTATGTATTAG
1 TATTATTATTATTATGTATTAC
*
885075 TATATATTTTTATTATGTA
1 TAT-TATTATTATTATGTA
885094 CGTGTATACA
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
21 13 0.36
22 9 0.25
23 14 0.39
ACGTcount: A:0.32, C:0.02, G:0.08, T:0.58
Consensus pattern (22 bp):
TATTATTATTATTATGTATTAC
Found at i:885100 original size:23 final size:23
Alignment explanation
Indices: 885027--885101 Score: 64
Period size: 23 Copynumber: 3.2 Consensus size: 23
885017 TTGTTATTTT
* *
885027 TATATTATTAGTATTAT-TAGTAT
1 TATA-TATTATTATTATGTAGTAG
*
885050 TACTATTATTATTATTATGTATTAG
1 TA-TA-TATTATTATTATGTAGTAG
*
885075 TATATATTTTTATTATGTACGT-G
1 TATATATTATTATTATGTA-GTAG
885098 TATA
1 TATA
885102 CATATATATA
Statistics
Matches: 44, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
23 21 0.48
24 17 0.39
25 6 0.14
ACGTcount: A:0.32, C:0.03, G:0.09, T:0.56
Consensus pattern (23 bp):
TATATATTATTATTATGTAGTAG
Found at i:885169 original size:25 final size:24
Alignment explanation
Indices: 885122--885169 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
885112 TATATTTTCA
*
885122 TATTTAATATTTTTATTTCATTTT
1 TATTTAATATTTTTATTTAATTTT
885146 TATTCTAATA-TTTTATTATAATTT
1 TATT-TAATATTTTTATT-TAATTT
885170 ATATATATAC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
24 11 0.52
25 10 0.48
ACGTcount: A:0.29, C:0.04, G:0.00, T:0.67
Consensus pattern (24 bp):
TATTTAATATTTTTATTTAATTTT
Found at i:887243 original size:12 final size:11
Alignment explanation
Indices: 887228--887295 Score: 65
Period size: 12 Copynumber: 6.4 Consensus size: 11
887218 TAAAAATTAA
887228 AAAAAGTATTTT
1 AAAAA-TATTTT
887240 AAAAATATTTT
1 AAAAATATTTT
887251 --AAA-A--TT
1 AAAAATATTTT
*
887257 AAAAAAATTTT
1 AAAAATATTTT
887268 AAAAAGTATTTT
1 AAAAA-TATTTT
887280 AAAAATTATTTT
1 AAAAA-TATTTT
887292 AAAA
1 AAAA
887296 TTTAAAAAAA
Statistics
Matches: 48, Mismatches: 2, Indels: 12
0.77 0.03 0.19
Matches are distributed among these distances:
6 2 0.04
8 4 0.08
9 4 0.08
11 13 0.27
12 25 0.52
ACGTcount: A:0.57, C:0.00, G:0.03, T:0.40
Consensus pattern (11 bp):
AAAAATATTTT
Found at i:887260 original size:17 final size:17
Alignment explanation
Indices: 887238--887271 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
887228 AAAAAGTATT
*
887238 TTAAAAATATTTTAAAA
1 TTAAAAAAATTTTAAAA
887255 TTAAAAAAATTTTAAAA
1 TTAAAAAAATTTTAAAA
887272 AGTATTTTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (17 bp):
TTAAAAAAATTTTAAAA
Found at i:887290 original size:41 final size:41
Alignment explanation
Indices: 887219--887314 Score: 149
Period size: 40 Copynumber: 2.3 Consensus size: 41
887209 AAATTTATTT
*
887219 AAAAATTAAAAAAAGTATTTTAAAAATATTTTAAAA-TTAA
1 AAAAATTTAAAAAAGTATTTTAAAAATATTTTAAAATTTAA
*
887259 AAAAATTTTAAAAAGTATTTTAAAAATTATTTTAAAATTTAA
1 AAAAATTTAAAAAAGTATTTTAAAAA-TATTTTAAAATTTAA
*
887301 AAAAAATTAAAAAA
1 AAAAATTTAAAAAA
887315 TAAATATATT
Statistics
Matches: 50, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
40 24 0.48
41 10 0.20
42 16 0.32
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.35
Consensus pattern (41 bp):
AAAAATTTAAAAAAGTATTTTAAAAATATTTTAAAATTTAA
Found at i:887433 original size:31 final size:33
Alignment explanation
Indices: 887398--887467 Score: 81
Period size: 31 Copynumber: 2.2 Consensus size: 33
887388 GTTTTCTAAA
* * *
887398 CGGGCCTCTTTTTTTGCCC-AA-GCCCATATTT
1 CGGGCCTATATTTTTACCCAAACGCCCATATTT
*
887429 CGGGCCTATATTTTTACCCAAACCTCCCATATTT
1 CGGGCCTATATTTTTACCCAAA-CGCCCATATTT
887463 CGGGC
1 CGGGC
887468 GGGCCGTCGG
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
31 16 0.50
32 2 0.06
34 14 0.44
ACGTcount: A:0.17, C:0.33, G:0.16, T:0.34
Consensus pattern (33 bp):
CGGGCCTATATTTTTACCCAAACGCCCATATTT
Found at i:889252 original size:14 final size:14
Alignment explanation
Indices: 889233--889272 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
889223 TTGATTGGCA
889233 GTAAAATGTTTTCC
1 GTAAAATGTTTTCC
* *
889247 GTAAAATGATTTCT
1 GTAAAATGTTTTCC
*
889261 GGAAAATGTTTT
1 GTAAAATGTTTT
889273 ACTTTTCTGT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.33, C:0.07, G:0.17, T:0.42
Consensus pattern (14 bp):
GTAAAATGTTTTCC
Found at i:889285 original size:34 final size:35
Alignment explanation
Indices: 889241--889307 Score: 100
Period size: 35 Copynumber: 1.9 Consensus size: 35
889231 CAGTAAAATG
* *
889241 TTTTCCGTAAAATGA-TTTCTGGAAAATGTTTTAC
1 TTTTCCGTAAAATGACTTACTGGAAAATATTTTAC
*
889275 TTTTCTGTAAAATGACTTACTGGAAAATATTTT
1 TTTTCCGTAAAATGACTTACTGGAAAATATTTT
889308 CTGGTGTTTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 14 0.48
35 15 0.52
ACGTcount: A:0.31, C:0.10, G:0.13, T:0.45
Consensus pattern (35 bp):
TTTTCCGTAAAATGACTTACTGGAAAATATTTTAC
Found at i:889294 original size:20 final size:20
Alignment explanation
Indices: 889256--889295 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
889246 CGTAAAATGA
**
889256 TTTCTGGAAAATGTTTTACT
1 TTTCTGGAAAATGACTTACT
*
889276 TTTCTGTAAAATGACTTACT
1 TTTCTGGAAAATGACTTACT
889296 GGAAAATATT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.28, C:0.12, G:0.12, T:0.47
Consensus pattern (20 bp):
TTTCTGGAAAATGACTTACT
Found at i:890680 original size:27 final size:27
Alignment explanation
Indices: 890650--890719 Score: 79
Period size: 27 Copynumber: 2.6 Consensus size: 27
890640 AATAATCAAT
*
890650 TCAATATCCAACAATGTTAAAACATA-A
1 TCAATATCCAACAAT-TCAAAACATATA
* *
890677 TCAATATCTAACAAATTCAAGACATATA
1 TCAATATCCAAC-AATTCAAAACATATA
*
890705 TCAAAATCCAACAAT
1 TCAATATCCAACAAT
890720 CTAAAATTTG
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
27 22 0.61
28 14 0.39
ACGTcount: A:0.51, C:0.20, G:0.03, T:0.26
Consensus pattern (27 bp):
TCAATATCCAACAATTCAAAACATATA
Found at i:892650 original size:58 final size:57
Alignment explanation
Indices: 892588--892726 Score: 224
Period size: 58 Copynumber: 2.4 Consensus size: 57
892578 ATAAACAAAA
***
892588 AAATTTGACAATGTTATAAATTTTTTTATTTCTATTTTTTATAATTTTTTTAAATTAT
1 AAATTTGACAATGTTATAAATAAATTTATTTCTATTTTTTATAA-TTTTTTAAATTAT
*
892646 AAATTTGACAATGTTATAAAAAAAATTTATTTCTATTTTTTATAATTTTTTAAATTAT
1 AAATTTGACAATGTTAT-AAATAAATTTATTTCTATTTTTTATAATTTTTTAAATTAT
892704 AAATTTGACAATGTTATAAATAA
1 AAATTTGACAATGTTATAAATAA
892727 TGTTTAACTG
Statistics
Matches: 75, Mismatches: 5, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
57 5 0.07
58 47 0.63
59 23 0.31
ACGTcount: A:0.40, C:0.04, G:0.04, T:0.53
Consensus pattern (57 bp):
AAATTTGACAATGTTATAAATAAATTTATTTCTATTTTTTATAATTTTTTAAATTAT
Found at i:893500 original size:14 final size:14
Alignment explanation
Indices: 893481--893508 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
893471 TCTTTAAAAA
893481 GAATTAACTTATTT
1 GAATTAACTTATTT
893495 GAATTAACTTATTT
1 GAATTAACTTATTT
893509 TTAAAGGCAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.36, C:0.07, G:0.07, T:0.50
Consensus pattern (14 bp):
GAATTAACTTATTT
Found at i:897845 original size:11 final size:11
Alignment explanation
Indices: 897818--897860 Score: 61
Period size: 11 Copynumber: 4.0 Consensus size: 11
897808 TGACCTTTCC
897818 AAGGTATGGG-
1 AAGGTATGGGA
*
897828 TAGGTATGGGA
1 AAGGTATGGGA
*
897839 AAGGTATGGGC
1 AAGGTATGGGA
897850 AAGGTATGGGA
1 AAGGTATGGGA
897861 TATATTCTAA
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
10 9 0.32
11 19 0.68
ACGTcount: A:0.30, C:0.02, G:0.47, T:0.21
Consensus pattern (11 bp):
AAGGTATGGGA
Found at i:897857 original size:22 final size:21
Alignment explanation
Indices: 897818--897860 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
897808 TGACCTTTCC
*
897818 AAGGTATGGGTAGGTATGGGA
1 AAGGTATGGGAAGGTATGGGA
897839 AAGGTATGGGCAAGGTATGGGA
1 AAGGTATGGG-AAGGTATGGGA
897861 TATATTCTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
21 10 0.50
22 10 0.50
ACGTcount: A:0.30, C:0.02, G:0.47, T:0.21
Consensus pattern (21 bp):
AAGGTATGGGAAGGTATGGGA
Found at i:901933 original size:18 final size:18
Alignment explanation
Indices: 901907--901981 Score: 96
Period size: 18 Copynumber: 4.2 Consensus size: 18
901897 CCCAACTACT
* *
901907 GTATGCGTGAACAGTACC
1 GTATACGTGAATAGTACC
**
901925 GTATACGTGAATAGTGTC
1 GTATACGTGAATAGTACC
**
901943 GTATACGTGAATAGTGTC
1 GTATACGTGAATAGTACC
901961 GTATACGTGAATAGTACC
1 GTATACGTGAATAGTACC
901979 GTA
1 GTA
901982 AACAGTCGTA
Statistics
Matches: 51, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 51 1.00
ACGTcount: A:0.29, C:0.15, G:0.27, T:0.29
Consensus pattern (18 bp):
GTATACGTGAATAGTACC
Found at i:902543 original size:11 final size:11
Alignment explanation
Indices: 902514--902556 Score: 52
Period size: 11 Copynumber: 4.0 Consensus size: 11
902504 TGACCTTTCC
902514 AAGGTATGGG-
1 AAGGTATGGGA
*
902524 TAGGTATGGGA
1 AAGGTATGGGA
* *
902535 AATGTATGGGC
1 AAGGTATGGGA
902546 AAGGTATGGGA
1 AAGGTATGGGA
902557 TATATTCTAA
Statistics
Matches: 26, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
10 9 0.35
11 17 0.65
ACGTcount: A:0.30, C:0.02, G:0.44, T:0.23
Consensus pattern (11 bp):
AAGGTATGGGA
Found at i:907061 original size:12 final size:12
Alignment explanation
Indices: 907038--907069 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
907028 TTCGATGTTA
907038 TATAA-AAT-AT
1 TATAATAATAAT
907048 TATAATAATAAT
1 TATAATAATAAT
907060 TATAATAATA
1 TATAATAATA
907070 TTTTTAACTA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
10 5 0.25
11 3 0.15
12 12 0.60
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (12 bp):
TATAATAATAAT
Found at i:925853 original size:16 final size:16
Alignment explanation
Indices: 925834--925865 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
925824 TATCCAAAAG
*
925834 TAAAAAATATTATTAT
1 TAAAAAATATAATTAT
925850 TAAAAAATATAATTAT
1 TAAAAAATATAATTAT
925866 ATCCAATAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (16 bp):
TAAAAAATATAATTAT
Found at i:945220 original size:21 final size:21
Alignment explanation
Indices: 945204--945247 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
945194 AATTTAATCA
945204 TTATATTTTTATTTTTAAAAT
1 TTATATTTTTATTTTTAAAAT
945225 TTATATTTTTATTTTTAAAAT
1 TTATATTTTTATTTTTAAAAT
945246 TT
1 TT
945248 TTAAATTTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (21 bp):
TTATATTTTTATTTTTAAAAT
Found at i:945256 original size:21 final size:21
Alignment explanation
Indices: 945211--945256 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
945201 TCATTATATT
**
945211 TTTATTTTTAAAATTTATATT
1 TTTATTTTTAAAATTTATAAA
*
945232 TTTATTTTTAAAATTTTTAAA
1 TTTATTTTTAAAATTTATAAA
945253 TTTA
1 TTTA
945257 AGTTTAATTA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (21 bp):
TTTATTTTTAAAATTTATAAA
Found at i:947615 original size:22 final size:22
Alignment explanation
Indices: 947581--947626 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 22
947571 GAAATTTAAG
*
947581 ATTTAATCCCTCTACTTTAATA
1 ATTTAATCACTCTACTTTAATA
* *
947603 ATTTGATCACTCTACTTTTATA
1 ATTTAATCACTCTACTTTAATA
947625 AT
1 AT
947627 ATTATTAAGA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.30, C:0.20, G:0.02, T:0.48
Consensus pattern (22 bp):
ATTTAATCACTCTACTTTAATA
Found at i:967290 original size:14 final size:14
Alignment explanation
Indices: 967273--967299 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
967263 TAATAGGAAA
967273 ATAATAAAAAAATG
1 ATAATAAAAAAATG
967287 ATAATAAAAAAAT
1 ATAATAAAAAAAT
967300 AGTAACATTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.74, C:0.00, G:0.04, T:0.22
Consensus pattern (14 bp):
ATAATAAAAAAATG
Found at i:970197 original size:134 final size:134
Alignment explanation
Indices: 970044--970410 Score: 644
Period size: 134 Copynumber: 2.7 Consensus size: 134
970034 GCCATCTTTG
* *
970044 ATCTTCAATCTATTCCACTGCCAAATGCAGGGAGATAGAGTTATCGGCTTTAATGTACTCCACTG
1 ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTG
* * * *
970109 TAGTCAGGGAGGTAAAATCTGCCATCTTTGATCTGCTTCGCTTCCAATTATAGGAAGGCAAGATC
66 TAGTCAGGGAGGTAAAATCTGCCATCTTCGATCTGCTTCGCTGCCAAATACAGGAAGGCAAGATC
970174 TGCA
131 TGCA
* *
970178 ATCTTCAATCTATTCCACTGCCAGATACAAGGAGATAGAGTTATCGGCTTCAATGTACTCCACTG
1 ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTG
970243 TAGTCAGGGAGGTAAAATCTGCCATCTTCGATCTGCTTCGCTGCCAAATACAGGAAGGCAAGATC
66 TAGTCAGGGAGGTAAAATCTGCCATCTTCGATCTGCTTCGCTGCCAAATACAGGAAGGCAAGATC
970308 TGCA
131 TGCA
* *
970312 ATTTTCAATCTATTCCATTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTG
1 ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTG
970377 TAGTCAGGGAGGTAAAATCTGCCATCTTCGATCT
66 TAGTCAGGGAGGTAAAATCTGCCATCTTCGATCT
970411 TCAATCTATT
Statistics
Matches: 221, Mismatches: 12, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
134 221 1.00
ACGTcount: A:0.28, C:0.22, G:0.20, T:0.29
Consensus pattern (134 bp):
ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTG
TAGTCAGGGAGGTAAAATCTGCCATCTTCGATCTGCTTCGCTGCCAAATACAGGAAGGCAAGATC
TGCA
Found at i:970247 original size:229 final size:229
Alignment explanation
Indices: 969844--970276 Score: 724
Period size: 229 Copynumber: 1.9 Consensus size: 229
969834 TTCTTGCCCC
969844 GGGAGATAGAACTATCAGCTTCAATGTACTCCACTGTAATCAGGGAGGTAAAATCTGCCATCTTC
1 GGGAGATAGAACTATCAGCTTCAATGTACTCCACTGTAATCAGGGAGGTAAAATCTGCCATCTTC
*
969909 GATCTGCTTTGCTGCCAAATACAGGAAGGCAAGATCTACAATCTTCAATCTATTCCACTGCCAGA
66 GATCTGCTTCGCTGCCAAATACAGGAAGGCAAGATCTACAATCTTCAATCTATTCCACTGCCAGA
*
969974 TACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCCATGTAGTCAGGGAAGTAAAATCTGCCAT
131 TACAAGGAGATAGAGTTATCGGCTTCAATGTACTCCCATGTAGTCAGGGAAGTAAAATCTGCCAT
*
970039 CTTTGATCTTCAATCTATTCCACTGCCAAATGCA
196 CTTCGATCTTCAATCTATTCCACTGCCAAATGCA
** * * * *
970073 GGGAGATAGAGTTATCGGCTTTAATGTACTCCACTGTAGTCAGGGAGGTAAAATCTGCCATCTTT
1 GGGAGATAGAACTATCAGCTTCAATGTACTCCACTGTAATCAGGGAGGTAAAATCTGCCATCTTC
* * * *
970138 GATCTGCTTCGCTTCCAATTATAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCACTGCCAGA
66 GATCTGCTTCGCTGCCAAATACAGGAAGGCAAGATCTACAATCTTCAATCTATTCCACTGCCAGA
*
970203 TACAAGGAGATAGAGTTATCGGCTTCAATGTACT-CCACTGTAGTCAGGGAGGTAAAATCTGCCA
131 TACAAGGAGATAGAGTTATCGGCTTCAATGTACTCCCA-TGTAGTCAGGGAAGTAAAATCTGCCA
970267 TCTTCGATCT
195 TCTTCGATCT
970277 GCTTCGCTGC
Statistics
Matches: 189, Mismatches: 14, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
228 3 0.02
229 186 0.98
ACGTcount: A:0.29, C:0.22, G:0.21, T:0.28
Consensus pattern (229 bp):
GGGAGATAGAACTATCAGCTTCAATGTACTCCACTGTAATCAGGGAGGTAAAATCTGCCATCTTC
GATCTGCTTCGCTGCCAAATACAGGAAGGCAAGATCTACAATCTTCAATCTATTCCACTGCCAGA
TACAAGGAGATAGAGTTATCGGCTTCAATGTACTCCCATGTAGTCAGGGAAGTAAAATCTGCCAT
CTTCGATCTTCAATCTATTCCACTGCCAAATGCA
Found at i:970500 original size:95 final size:95
Alignment explanation
Indices: 969949--970500 Score: 375
Period size: 95 Copynumber: 6.0 Consensus size: 95
969939 AAGATCTACA
*
969949 ATCTTCAATCTATTCCACTGCCAGATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCC-CAT
1 ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCAC-T
* *
970013 GTAGTCAGGGAAGTAAAATCTGCCATCTTTG
65 GTAGTCAGGGAGGTAAAATCTGCCATCTTCG
* *
970044 ATCTTCAATCTATTCCACTGCCAAATGCAGGGAGATAGAGTTATCGGCTTTAATGTACTCCACTG
1 ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTG
*
970109 TAGTCAGGGAGGTAAAATCTGCCATCTTTG
66 TAGTCAGGGAGGTAAAATCTGCCATCTTCG
* * * * * * ** * * ** * *
970139 ATC-T---GC--TT-CGCTTCCAATTATAGGAAGGCA-AGATCTGCAATCTTCAATCTATTCCAC
1 ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTAT-C-GGCTTCAATGTACTCCAC
* * * * *
970196 TGCCAGATACAAGGAGATAGAGT-T---A---TCG
64 TG-TAG-T-CAGGGAGGTAAAATCTGCCATCTTCG
* * * * * * * * ** ** * * * * *
970224 -GCTTCAATGTACTCCACTG--TAGT-CAGGGAGGTAAAATCTGCCATCTTCGATCTGCTTCGCT
1 ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGT-TATCGGCTTCAATGTACTCCACT
* * * * *
970285 GCCAAATACAGGAAGGCAAGATCTG-CA------
65 G--TAGT-CAGGGAGGTAAAATCTGCCATCTTCG
* *
970312 ATTTTCAATCTATTCCATTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTG
1 ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTG
970377 TAGTCAGGGAGGTAAAATCTGCCATCTTCG
66 TAGTCAGGGAGGTAAAATCTGCCATCTTCG
970407 ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTG
1 ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTG
*
970472 TTGTCAGGGAGGTAAAATCTGCCATCTTC
66 TAGTCAGGGAGGTAAAATCTGCCATCTTC
970501 AACCAGCTCT
Statistics
Matches: 345, Mismatches: 82, Indels: 60
0.71 0.17 0.12
Matches are distributed among these distances:
84 1 0.00
85 3 0.01
87 4 0.01
88 61 0.18
89 42 0.12
90 4 0.01
91 24 0.07
92 21 0.06
94 1 0.00
95 183 0.53
96 1 0.00
ACGTcount: A:0.28, C:0.22, G:0.20, T:0.29
Consensus pattern (95 bp):
ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTG
TAGTCAGGGAGGTAAAATCTGCCATCTTCG
Found at i:970573 original size:42 final size:42
Alignment explanation
Indices: 970526--970658 Score: 110
Period size: 41 Copynumber: 3.1 Consensus size: 42
970516 AAACGAGAGT
970526 GGCAAGGTTTGTCTTCGATCTGCTTCGCTGTCAATGCAGGAA
1 GGCAAGGTTTGTCTTCGATCTGCTTCGCTGTCAATGCAGGAA
* * * * * * * * * *
970568 GGCAAGATCTGCTATCTTCAACCAGC-TCTACTATAAACG-A-GAGT
1 GGCAAGGT-T--TGTCTTCGATCTGCTTC-GCTGTCAATGCAGGA-A
970612 GGCAAGGTTTGTCTTCGATCTGCTTCGCTGTCAATGCAGGAA
1 GGCAAGGTTTGTCTTCGATCTGCTTCGCTGTCAATGCAGGAA
970654 GGCAA
1 GGCAA
970659 CTTCAACCAG
Statistics
Matches: 63, Mismatches: 20, Indels: 16
0.64 0.20 0.16
Matches are distributed among these distances:
41 16 0.25
42 15 0.24
43 6 0.10
44 10 0.16
45 16 0.25
ACGTcount: A:0.24, C:0.23, G:0.26, T:0.28
Consensus pattern (42 bp):
GGCAAGGTTTGTCTTCGATCTGCTTCGCTGTCAATGCAGGAA
Found at i:970633 original size:86 final size:86
Alignment explanation
Indices: 970488--970658 Score: 333
Period size: 86 Copynumber: 2.0 Consensus size: 86
970478 GGGAGGTAAA
970488 ATCTGCCATCTTCAACCAGCTCTACTATAAACGAGAGTGGCAAGGTTTGTCTTCGATCTGCTTCG
1 ATCTGCCATCTTCAACCAGCTCTACTATAAACGAGAGTGGCAAGGTTTGTCTTCGATCTGCTTCG
970553 CTGTCAATGCAGGAAGGCAAG
66 CTGTCAATGCAGGAAGGCAAG
*
970574 ATCTGCTATCTTCAACCAGCTCTACTATAAACGAGAGTGGCAAGGTTTGTCTTCGATCTGCTTCG
1 ATCTGCCATCTTCAACCAGCTCTACTATAAACGAGAGTGGCAAGGTTTGTCTTCGATCTGCTTCG
970639 CTGTCAATGCAGGAAGGCAA
66 CTGTCAATGCAGGAAGGCAA
970659 CTTCAACCAG
Statistics
Matches: 84, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
86 84 1.00
ACGTcount: A:0.26, C:0.24, G:0.23, T:0.27
Consensus pattern (86 bp):
ATCTGCCATCTTCAACCAGCTCTACTATAAACGAGAGTGGCAAGGTTTGTCTTCGATCTGCTTCG
CTGTCAATGCAGGAAGGCAAG
Found at i:974861 original size:19 final size:20
Alignment explanation
Indices: 974837--974880 Score: 56
Period size: 19 Copynumber: 2.3 Consensus size: 20
974827 CGTGAAAGTC
* *
974837 TAATGCATATG-ATGCAATG
1 TAATGCAAATGCATGAAATG
974856 TAATGCAAATGCATGAAATG
1 TAATGCAAATGCATGAAATG
974876 -AATGC
1 TAATGC
974881 CAAAAGAAAC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 15 0.68
20 7 0.32
ACGTcount: A:0.41, C:0.11, G:0.20, T:0.27
Consensus pattern (20 bp):
TAATGCAAATGCATGAAATG
Found at i:976921 original size:13 final size:15
Alignment explanation
Indices: 976887--976937 Score: 70
Period size: 15 Copynumber: 3.5 Consensus size: 15
976877 TGAAAATGAT
976887 ATAATAAGTATAATAA
1 ATAAT-AGTATAATAA
*
976903 ATAATAGTGTAA-AA
1 ATAATAGTATAATAA
976917 A-AATAGTATAATAA
1 ATAATAGTATAATAA
976931 ATAATAG
1 ATAATAG
976938 GAAAATAATA
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
13 9 0.29
14 6 0.19
15 11 0.35
16 5 0.16
ACGTcount: A:0.61, C:0.00, G:0.10, T:0.29
Consensus pattern (15 bp):
ATAATAGTATAATAA
Found at i:976959 original size:14 final size:14
Alignment explanation
Indices: 976942--976968 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
976932 TAATAGGAAA
976942 ATAATAAAAAAATG
1 ATAATAAAAAAATG
976956 ATAATAAAAAAAT
1 ATAATAAAAAAAT
976969 AGTAACATTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.74, C:0.00, G:0.04, T:0.22
Consensus pattern (14 bp):
ATAATAAAAAAATG
Found at i:984632 original size:23 final size:23
Alignment explanation
Indices: 984606--984654 Score: 89
Period size: 23 Copynumber: 2.1 Consensus size: 23
984596 GGTTTTACAC
984606 TTCTTTGAAACCATGAATTTGTT
1 TTCTTTGAAACCATGAATTTGTT
*
984629 TTCTTTGAAACCATGGATTTGTT
1 TTCTTTGAAACCATGAATTTGTT
984652 TTC
1 TTC
984655 ATTTTAGTAG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.22, C:0.14, G:0.14, T:0.49
Consensus pattern (23 bp):
TTCTTTGAAACCATGAATTTGTT
Found at i:987242 original size:17 final size:17
Alignment explanation
Indices: 987222--987266 Score: 65
Period size: 17 Copynumber: 2.7 Consensus size: 17
987212 AAAACGAAAC
*
987222 AAAGAAGGAAAGAAAGA
1 AAAGAAGAAAAGAAAGA
987239 AAAGAAGAAAAGAAAG-
1 AAAGAAGAAAAGAAAGA
*
987255 AAAGGAGAAAAG
1 AAAGAAGAAAAG
987267 TTAGGGTTTC
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
16 11 0.42
17 15 0.58
ACGTcount: A:0.71, C:0.00, G:0.29, T:0.00
Consensus pattern (17 bp):
AAAGAAGAAAAGAAAGA
Found at i:987250 original size:25 final size:25
Alignment explanation
Indices: 987201--987266 Score: 66
Period size: 25 Copynumber: 2.7 Consensus size: 25
987191 TAAATAGAAA
*
987201 AAGGAGAGAAA-AAAACGAAACAAAG
1 AAGGAAAGAAAGAAAA-GAAACAAAG
987226 AAGGAAAGAAAGAAAAGAAGA-AAAG
1 AAGGAAAGAAAGAAAAGAA-ACAAAG
* *
987251 AAAGAAAG-GAGAAAAG
1 AAGGAAAGAAAGAAAAG
987267 TTAGGGTTTC
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
24 7 0.19
25 24 0.67
26 5 0.14
ACGTcount: A:0.70, C:0.03, G:0.27, T:0.00
Consensus pattern (25 bp):
AAGGAAAGAAAGAAAAGAAACAAAG
Found at i:988173 original size:37 final size:39
Alignment explanation
Indices: 988082--988184 Score: 122
Period size: 41 Copynumber: 2.6 Consensus size: 39
988072 GATTTCGACT
*
988082 CGATGAGACACTGGGTGTCAATTTACTATTTCGGATTAATT
1 CGATGAGACACTGGGTGTCAATTTAC--TTTCGGATTAATC
* * *
988123 CGATGAGGCACTGGTTG-CTAATTTAC-TTCGGTTTAA-C
1 CGATGAGACACTGGGTGTC-AATTTACTTTCGGATTAATC
988160 CGATGAGACACTGGGTGTCAATTTA
1 CGATGAGACACTGGGTGTCAATTTA
988185 TTACTTCGAA
Statistics
Matches: 54, Mismatches: 6, Indels: 8
0.79 0.09 0.12
Matches are distributed among these distances:
37 21 0.39
38 10 0.19
40 1 0.02
41 22 0.41
ACGTcount: A:0.25, C:0.17, G:0.24, T:0.34
Consensus pattern (39 bp):
CGATGAGACACTGGGTGTCAATTTACTTTCGGATTAATC
Found at i:995669 original size:17 final size:17
Alignment explanation
Indices: 995647--995684 Score: 67
Period size: 17 Copynumber: 2.2 Consensus size: 17
995637 GTTGTTTGTG
995647 TGTATTTATATATACTA
1 TGTATTTATATATACTA
*
995664 TGTATTTATATCTACTA
1 TGTATTTATATATACTA
995681 TGTA
1 TGTA
995685 GTTTGAAGTC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.32, C:0.08, G:0.08, T:0.53
Consensus pattern (17 bp):
TGTATTTATATATACTA
Found at i:1003327 original size:15 final size:15
Alignment explanation
Indices: 1003307--1003356 Score: 50
Period size: 15 Copynumber: 3.3 Consensus size: 15
1003297 TTAAAATTTA
1003307 AATTTAAATTATATT
1 AATTTAAATTATATT
*
1003322 AATTTAATTTA-ATAT
1 AATTTAAATTATAT-T
*
1003337 AA-TTAATATTATTTT
1 AATTTAA-ATTATATT
1003352 AATTT
1 AATTT
1003357 TTTACATGTA
Statistics
Matches: 28, Mismatches: 3, Indels: 7
0.74 0.08 0.18
Matches are distributed among these distances:
14 6 0.21
15 19 0.68
16 3 0.11
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (15 bp):
AATTTAAATTATATT
Found at i:1015858 original size:16 final size:16
Alignment explanation
Indices: 1015829--1015874 Score: 51
Period size: 16 Copynumber: 2.9 Consensus size: 16
1015819 TTAAATTTTT
* *
1015829 TAAAAATA-TGAAAAT
1 TAAAAATATTAAAAAA
1015844 TAATAAAT-TTAAAAAA
1 TAA-AAATATTAAAAAA
1015860 TAAAAATATTAAAAA
1 TAAAAATATTAAAAA
1015875 GATATAAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
15 7 0.27
16 19 0.73
ACGTcount: A:0.70, C:0.00, G:0.02, T:0.28
Consensus pattern (16 bp):
TAAAAATATTAAAAAA
Found at i:1016643 original size:41 final size:41
Alignment explanation
Indices: 1016586--1016667 Score: 164
Period size: 41 Copynumber: 2.0 Consensus size: 41
1016576 ACAAGATAGT
1016586 CTATAGTCCAAACTACTAATTCTTTAACACTGACTAATAAA
1 CTATAGTCCAAACTACTAATTCTTTAACACTGACTAATAAA
1016627 CTATAGTCCAAACTACTAATTCTTTAACACTGACTAATAAA
1 CTATAGTCCAAACTACTAATTCTTTAACACTGACTAATAAA
1016668 ATACATGTGA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 41 1.00
ACGTcount: A:0.41, C:0.22, G:0.05, T:0.32
Consensus pattern (41 bp):
CTATAGTCCAAACTACTAATTCTTTAACACTGACTAATAAA
Found at i:1019293 original size:18 final size:20
Alignment explanation
Indices: 1019238--1019284 Score: 62
Period size: 20 Copynumber: 2.4 Consensus size: 20
1019228 AATTTTAATA
*
1019238 AATTTTTGTAAA-AGTATTGG
1 AATTTTTATAAATA-TATTGG
1019258 AATTTTTATAAATATATT-G
1 AATTTTTATAAATATATTGG
1019277 AATTTTTA
1 AATTTTTA
1019285 AATATTATTT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
19 9 0.36
20 15 0.60
21 1 0.04
ACGTcount: A:0.38, C:0.00, G:0.11, T:0.51
Consensus pattern (20 bp):
AATTTTTATAAATATATTGG
Found at i:1032676 original size:23 final size:22
Alignment explanation
Indices: 1032634--1032676 Score: 59
Period size: 23 Copynumber: 1.9 Consensus size: 22
1032624 TTTATGATCC
*
1032634 AGTCATTTCAAAATTGGGTTCA
1 AGTCATTTCAAAATTAGGTTCA
*
1032656 AGTCATTTTCAAATTTAGGTT
1 AGTCA-TTTCAAAATTAGGTT
1032677 GAATGAATTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 5 0.28
23 13 0.72
ACGTcount: A:0.30, C:0.12, G:0.16, T:0.42
Consensus pattern (22 bp):
AGTCATTTCAAAATTAGGTTCA
Found at i:1035665 original size:13 final size:14
Alignment explanation
Indices: 1035640--1035668 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
1035630 ATAATCTCAG
1035640 CTCAAAAACAAACC
1 CTCAAAAACAAACC
1035654 CTCAAAAA-AAACC
1 CTCAAAAACAAACC
1035667 CT
1 CT
1035669 TTGATCATCA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.47
14 8 0.53
ACGTcount: A:0.55, C:0.34, G:0.00, T:0.10
Consensus pattern (14 bp):
CTCAAAAACAAACC
Found at i:1039631 original size:14 final size:16
Alignment explanation
Indices: 1039612--1039653 Score: 52
Period size: 14 Copynumber: 2.6 Consensus size: 16
1039602 ACCAATTTCG
1039612 ATTTTTATTTTT-A-C
1 ATTTTTATTTTTCAGC
1039626 ATTTTTACTTTTTCAGC
1 ATTTTTA-TTTTTCAGC
1039643 ACTTTTTATTT
1 A-TTTTTATTT
1039654 CATGATTGAA
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
14 7 0.29
15 5 0.21
16 1 0.04
17 5 0.21
18 6 0.25
ACGTcount: A:0.19, C:0.12, G:0.02, T:0.67
Consensus pattern (16 bp):
ATTTTTATTTTTCAGC
Found at i:1050487 original size:6 final size:6
Alignment explanation
Indices: 1050476--1050505 Score: 60
Period size: 6 Copynumber: 5.0 Consensus size: 6
1050466 TTGTACAATA
1050476 TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT
1 TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT
1050506 GCCATGCACT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (6 bp):
TTTTCT
Found at i:1050932 original size:51 final size:51
Alignment explanation
Indices: 1050784--1051221 Score: 180
Period size: 50 Copynumber: 8.9 Consensus size: 51
1050774 AGGGTTTGTA
* * * * *
1050784 ACTTGTAGCTTCAATCTATTCGACTACAACTTTAGGAAAATAAGACTCGCC
1 ACTTGTAGCTTCAATCTATTCCACTACAACTTCAGGAAAATAAGATTTGCG
* * * * *** *
1050835 ACAATG-A-CTTCAATCTGTTCCACTGCAATTTCAGGGGTATAGGATTTGCG
1 AC-TTGTAGCTTCAATCTATTCCACTACAACTTCAGGAAAATAAGATTTGCG
* * *
1050885 ACTTGTAGCTTTAATCTAATCCACTGCAACTTCAGGAAAATAAGA--T---
1 ACTTGTAGCTTCAATCTATTCCACTACAACTTCAGGAAAATAAGATTTGCG
* * * * * * **
1050931 --TTGTAACTTCAATCTGCTT-CACTACAACTTCAGGGAGATAAGACTCGTT
1 ACTTGTAGCTTCAATCT-ATTCCACTACAACTTCAGGAAAATAAGATTTGCG
* * * * *** *
1050980 ACAATG-A-CTTCAATCTGTTCCACTGCAATTTCAGGGGTATAGGATTTGCG
1 AC-TTGTAGCTTCAATCTATTCCACTACAACTTCAGGAAAATAAGATTTGCG
* *
1051030 ACTTGTAGCTTTAATCTAATCCACTACAACTTCAGGAAAATAAGA--T---
1 ACTTGTAGCTTCAATCTATTCCACTACAACTTCAGGAAAATAAGATTTGCG
* * ** * * * * *
1051076 --TTGTAACTTCAATTTGCTCCACTACAACTTCAGGGAGATAAGACTCGCC
1 ACTTGTAGCTTCAATCTATTCCACTACAACTTCAGGAAAATAAGATTTGCG
* * * ** * *** *
1051125 ACAATG-A-CTTCAATCCATTCCATTGTAATTTCAGGGGTATATGATTTGCG
1 AC-TTGTAGCTTCAATCTATTCCACTACAACTTCAGGAAAATAAGATTTGCG
* * * *
1051175 ACTTGTAGCTTTAATCTATTCCACTGCAACTTTAGGGAAATAAGATT
1 ACTTGTAGCTTCAATCTATTCCACTACAACTTCAGGAAAATAAGATT
1051222 CGCATTTTCA
Statistics
Matches: 278, Mismatches: 84, Indels: 50
0.67 0.20 0.12
Matches are distributed among these distances:
44 70 0.25
45 1 0.00
49 10 0.04
50 99 0.36
51 92 0.33
52 6 0.02
ACGTcount: A:0.31, C:0.21, G:0.16, T:0.32
Consensus pattern (51 bp):
ACTTGTAGCTTCAATCTATTCCACTACAACTTCAGGAAAATAAGATTTGCG
Found at i:1050959 original size:44 final size:44
Alignment explanation
Indices: 1050904--1051118 Score: 133
Period size: 44 Copynumber: 4.6 Consensus size: 44
1050894 TTTAATCTAA
*
1050904 TCCACTGCAACTTCAGGAAAATAAGATTTGTAACTTCAATCTGC
1 TCCACTACAACTTCAGGAAAATAAGATTTGTAACTTCAATCTGC
* * * * * *
1050948 TTCACTACAACTTCAGGGAGATAAGACTCGTTACAATGACTTCAATCTGT
1 TCCACTACAACTTCAGGAAAATAAGA-T--TT---GTAACTTCAATCTGC
* * * ** * * * **
1050998 TCCACTGCAATTTCAGGGGTATAGGATTTGCGACTTGTAGCTTTAATCTAA
1 TCCACTACAACTTCA--GG-A-A--A-ATAAGATTTGTAACTTCAATCTGC
*
1051049 TCCACTACAACTTCAGGAAAATAAGATTTGTAACTTCAATTTGC
1 TCCACTACAACTTCAGGAAAATAAGATTTGTAACTTCAATCTGC
* *
1051093 TCCACTACAACTTCAGGGAGATAAGA
1 TCCACTACAACTTCAGGAAAATAAGA
1051119 CTCGCCACAA
Statistics
Matches: 123, Mismatches: 35, Indels: 26
0.67 0.19 0.14
Matches are distributed among these distances:
44 61 0.50
45 2 0.02
47 3 0.02
48 1 0.01
49 2 0.02
50 24 0.20
51 22 0.18
52 2 0.02
54 3 0.02
57 3 0.02
ACGTcount: A:0.33, C:0.21, G:0.16, T:0.30
Consensus pattern (44 bp):
TCCACTACAACTTCAGGAAAATAAGATTTGTAACTTCAATCTGC
Found at i:1051049 original size:145 final size:145
Alignment explanation
Indices: 1050786--1051259 Score: 707
Period size: 145 Copynumber: 3.3 Consensus size: 145
1050776 GGTTTGTAAC
* ** * * * *
1050786 TTGTAGCTTCAATCTATTCGACTACAACTTTAGGAAAATAAGACTCGCCACAATGACTTCAATCT
1 TTGTAACTTCAATCTGCTCCACTACAACTTCAGGGAGATAAGACTCGCCACAATGACTTCAATCT
1050851 GTTCCACTGCAATTTCAGGGGTATAGGATTTGCGACTTGTAGCTTTAATCTAATCCACTGCAACT
66 GTTCCACTGCAATTTCAGGGGTATAGGATTTGCGACTTGTAGCTTTAATCTAATCCACTGCAACT
1050916 TCAGGAAAATAAGAT
131 TCAGGAAAATAAGAT
* **
1050931 TTGTAACTTCAATCTGCTTCACTACAACTTCAGGGAGATAAGACTCGTTACAATGACTTCAATCT
1 TTGTAACTTCAATCTGCTCCACTACAACTTCAGGGAGATAAGACTCGCCACAATGACTTCAATCT
*
1050996 GTTCCACTGCAATTTCAGGGGTATAGGATTTGCGACTTGTAGCTTTAATCTAATCCACTACAACT
66 GTTCCACTGCAATTTCAGGGGTATAGGATTTGCGACTTGTAGCTTTAATCTAATCCACTGCAACT
1051061 TCAGGAAAATAAGAT
131 TCAGGAAAATAAGAT
* *
1051076 TTGTAACTTCAATTTGCTCCACTACAACTTCAGGGAGATAAGACTCGCCACAATGACTTCAATCC
1 TTGTAACTTCAATCTGCTCCACTACAACTTCAGGGAGATAAGACTCGCCACAATGACTTCAATCT
* * * * *
1051141 ATTCCATTGTAATTTCAGGGGTATATGATTTGCGACTTGTAGCTTTAATCTATTCCACTGCAACT
66 GTTCCACTGCAATTTCAGGGGTATAGGATTTGCGACTTGTAGCTTTAATCTAATCCACTGCAACT
* *
1051206 TTAGGGAAATAAGAT
131 TCAGGAAAATAAGAT
* * ** *
1051221 TCGCATTTTCAA-CTTGCTCCACTGCAACTTCAGGGAGAT
1 TTGTAACTTCAATC-TGCTCCACTACAACTTCAGGGAGAT
1051260 TAGATTTGTA
Statistics
Matches: 298, Mismatches: 30, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
145 298 1.00
ACGTcount: A:0.30, C:0.21, G:0.17, T:0.32
Consensus pattern (145 bp):
TTGTAACTTCAATCTGCTCCACTACAACTTCAGGGAGATAAGACTCGCCACAATGACTTCAATCT
GTTCCACTGCAATTTCAGGGGTATAGGATTTGCGACTTGTAGCTTTAATCTAATCCACTGCAACT
TCAGGAAAATAAGAT
Done.