Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D06
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: 62964862
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 132689 characters in sequence are not A, C, G, or T
File 136 of 207
Found at i:41697978 original size:132 final size:134
Alignment explanation
Indices: 41697590--41698222 Score: 712
Period size: 143 Copynumber: 4.6 Consensus size: 134
41697580 TATTTGAATA
*
41697590 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATA
1 AATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG--TA
*
41697653 TATATGTGATGAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTA
64 TATA--TG-TGA----TAA-GGCC-ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGA
* *
41697718 ATAGCCGATGTGATG
120 ATGGCCAATGTGATG
* * * *
41697733 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATAGCCGATGTAATGAATGTGAAAGTGTATA
1 AATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATA
*
41697796 TATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAAT
66 TATGTG---A----TAA-GGCC-ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAAT
*
41697861 GGCCGATGTGATG
122 GGCCAATGTGATG
* *
41697874 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
1 AATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATA
41697939 TATGTGATAAGG-C-TGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGT
66 TATGTGATAAGGCCATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGT
41698002 GATG
131 GATG
*
41698006 AATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA-TGTGT
1 AATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAA-AGTGTAT
* * *
41698070 ATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA-TGTGTATGTGTGATAAGGCCGA
65 ATATGTGAT-------AA-GGCC-ATGTGATGAATGTGAA-AGTGTATATATGTGATAAGGCCGA
41698134 ATGGCCAATGTGATG
120 ATGGCCAATGTGATG
* * * *
41698149 AATGTGAACA-TG--CATATATGAGATAAGGCCGAATGGCCAATGTGATGGATGTGGAAGTGTAT
1 AATGTGAA-AGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTAT
*
41698211 AAATGTGATAAG
65 ATATGTGATAAG
41698223 TCCCGAAGGG
Statistics
Matches: 449, Mismatches: 21, Indels: 50
0.86 0.04 0.10
Matches are distributed among these distances:
132 119 0.27
133 2 0.00
134 3 0.01
135 2 0.00
136 3 0.01
138 2 0.00
139 4 0.01
140 4 0.01
141 137 0.31
143 171 0.38
144 2 0.00
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.29
Consensus pattern (134 bp):
AATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATA
TATGTGATAAGGCCATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGT
GATG
Found at i:41707769 original size:11 final size:11
Alignment explanation
Indices: 41707753--41707784 Score: 64
Period size: 11 Copynumber: 2.9 Consensus size: 11
41707743 CACTGCATAC
41707753 TTACCATAGCT
1 TTACCATAGCT
41707764 TTACCATAGCT
1 TTACCATAGCT
41707775 TTACCATAGC
1 TTACCATAGC
41707785 ATTAATTGCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.28, C:0.28, G:0.09, T:0.34
Consensus pattern (11 bp):
TTACCATAGCT
Found at i:41709512 original size:34 final size:33
Alignment explanation
Indices: 41709469--41709549 Score: 112
Period size: 34 Copynumber: 2.5 Consensus size: 33
41709459 TCAGTGAATA
*
41709469 TTATCCTTTCTTCTTATCTTTCCTTCCTTACACT
1 TTATCCTTTCTTCTTATCTTTCATTCCTTACA-T
*
41709503 TTATCCTTTCTTCTTTTCTTTCATTCCTTACAT
1 TTATCCTTTCTTCTTATCTTTCATTCCTTACAT
*
41709536 TT-TCCCTTC-TCTTA
1 TTATCCTTTCTTCTTA
41709550 GACTTGGCTA
Statistics
Matches: 43, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
31 4 0.09
32 6 0.14
33 3 0.07
34 30 0.70
ACGTcount: A:0.11, C:0.31, G:0.00, T:0.58
Consensus pattern (33 bp):
TTATCCTTTCTTCTTATCTTTCATTCCTTACAT
Found at i:41712732 original size:20 final size:20
Alignment explanation
Indices: 41712709--41712746 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
41712699 TAAATTTATT
*
41712709 ATAAGTGAATGAAATGGTAA
1 ATAAGTAAATGAAATGGTAA
41712729 ATAAGTAAATGAAATGGT
1 ATAAGTAAATGAAATGGT
41712747 TTATCGTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.50, C:0.00, G:0.24, T:0.26
Consensus pattern (20 bp):
ATAAGTAAATGAAATGGTAA
Found at i:41714589 original size:51 final size:51
Alignment explanation
Indices: 41714524--41714655 Score: 147
Period size: 51 Copynumber: 2.6 Consensus size: 51
41714514 CATCATGACA
* * * * *
41714524 TCTTTCATCAATGGTCTTACGCTACGTACCTCATATCAGACTGCCATAGCC
1 TCTTTCATCTATGGTCTTACGCCACATACCTCAAACCAGACTGCCATAGCC
* * * * *
41714575 TCTTTCATCTATGGTCTTATGCCATATACCTTAAACCAGACTGTCATGGCC
1 TCTTTCATCTATGGTCTTACGCCACATACCTCAAACCAGACTGCCATAGCC
* * *
41714626 TCTTTCTTCTATGGTCTTACACCATATACC
1 TCTTTCATCTATGGTCTTACGCCACATACC
41714656 ATCATCACGA
Statistics
Matches: 68, Mismatches: 13, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
51 68 1.00
ACGTcount: A:0.23, C:0.30, G:0.12, T:0.36
Consensus pattern (51 bp):
TCTTTCATCTATGGTCTTACGCCACATACCTCAAACCAGACTGCCATAGCC
Found at i:41723930 original size:99 final size:99
Alignment explanation
Indices: 41723807--41724064 Score: 399
Period size: 99 Copynumber: 2.6 Consensus size: 99
41723797 CCATTGGGAC
*
41723807 AGTAAACACAGAACAGAGAAAGTCTACTGGGACAATAAACACAGAACAAAAAAAGTCCACTGAGC
1 AGTAAACACAGAACAGAGAAAGTCTACTGGGACAATAAACACAGAACAGAAAAAGTCCACTGAGC
* *
41723872 CAACAAACACAGAATAGAGAAAGTTCGCTGAGAT
66 CAACAAACACAGAATAGAAAAAGTCCGCTGAGAT
* * *
41723906 AGTAAACACAGAACAGAGAAAGTCTGCTAGGACAGTAAACACAGAACAGAAAAAGTCCACTGAGC
1 AGTAAACACAGAACAGAGAAAGTCTACTGGGACAATAAACACAGAACAGAAAAAGTCCACTGAGC
** *
41723971 CATTAAATACAGAATAGAAAAAGTCCGCTGAGAT
66 CAACAAACACAGAATAGAAAAAGTCCGCTGAGAT
* * * *
41724005 AGTAAACACAGAATAGAGATAGTCTACTGAGACAATAAACACAGAACAGAGAAAGTCCAC
1 AGTAAACACAGAACAGAGAAAGTCTACTGGGACAATAAACACAGAACAGAAAAAGTCCAC
41724065 CAGGACAATA
Statistics
Matches: 143, Mismatches: 16, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
99 143 1.00
ACGTcount: A:0.49, C:0.19, G:0.19, T:0.13
Consensus pattern (99 bp):
AGTAAACACAGAACAGAGAAAGTCTACTGGGACAATAAACACAGAACAGAAAAAGTCCACTGAGC
CAACAAACACAGAATAGAAAAAGTCCGCTGAGAT
Found at i:41724076 original size:33 final size:33
Alignment explanation
Indices: 41723776--41724064 Score: 292
Period size: 33 Copynumber: 8.8 Consensus size: 33
41723766 GTTGGGATAG
* * * *
41723776 TAAACACAGAACAAAGAAAGTCCATTGGGACAG
1 TAAACACAGAACAGAGAAAGTCCACTGAGACAA
* *
41723809 TAAACACAGAACAGAGAAAGTCTACTGGGACAA
1 TAAACACAGAACAGAGAAAGTCCACTGAGACAA
* * *
41723842 TAAACACAGAACAAAAAAAGTCCACTGAGCCAA
1 TAAACACAGAACAGAGAAAGTCCACTGAGACAA
* * * * * *
41723875 CAAACACAGAATAGAGAAAGTTCGCTGAGATAG
1 TAAACACAGAACAGAGAAAGTCCACTGAGACAA
** *
41723908 TAAACACAGAACAGAGAAAGTCTGCT-AGGACAG
1 TAAACACAGAACAGAGAAAGTCCACTGA-GACAA
* * *
41723941 TAAACACAGAACAGAAAAAGTCCACTGAGCCAT
1 TAAACACAGAACAGAGAAAGTCCACTGAGACAA
* * * * * *
41723974 TAAATACAGAATAGAAAAAGTCCGCTGAGATAG
1 TAAACACAGAACAGAGAAAGTCCACTGAGACAA
* * *
41724007 TAAACACAGAATAGAGATAGTCTACTGAGACAA
1 TAAACACAGAACAGAGAAAGTCCACTGAGACAA
41724040 TAAACACAGAACAGAGAAAGTCCAC
1 TAAACACAGAACAGAGAAAGTCCAC
41724065 CAGGACAATA
Statistics
Matches: 210, Mismatches: 44, Indels: 4
0.81 0.17 0.02
Matches are distributed among these distances:
32 1 0.00
33 208 0.99
34 1 0.00
ACGTcount: A:0.49, C:0.19, G:0.19, T:0.13
Consensus pattern (33 bp):
TAAACACAGAACAGAGAAAGTCCACTGAGACAA
Found at i:41728043 original size:24 final size:24
Alignment explanation
Indices: 41728003--41728048 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
41727993 GTCAAGATTA
*
41728003 TTATTTAATTAATATAATATATTC
1 TTATTTAATTAATATAAAATATTC
*
41728027 TTATTTAAGTTTA-ATAAAATAT
1 TTATTTAA-TTAATATAAAATAT
41728049 GTAAATTATT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
24 16 0.84
25 3 0.16
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.52
Consensus pattern (24 bp):
TTATTTAATTAATATAAAATATTC
Found at i:41729324 original size:8 final size:8
Alignment explanation
Indices: 41729313--41729375 Score: 51
Period size: 8 Copynumber: 7.9 Consensus size: 8
41729303 TATTATTAAA
41729313 TTATTATT
1 TTATTATT
41729321 TTATT-TT
1 TTATTATT
*
41729328 TAATGT-TT
1 TTAT-TATT
41729336 TTATTATT
1 TTATTATT
**
41729344 CCCATTATT
1 -TTATTATT
41729353 TTATTATT
1 TTATTATT
41729361 TTATTTATT
1 TTA-TTATT
41729370 TT-TTAT
1 TTATTAT
41729376 ACTTTCATGT
Statistics
Matches: 45, Mismatches: 6, Indels: 9
0.75 0.10 0.15
Matches are distributed among these distances:
7 10 0.22
8 22 0.49
9 13 0.29
ACGTcount: A:0.22, C:0.05, G:0.02, T:0.71
Consensus pattern (8 bp):
TTATTATT
Found at i:41736373 original size:22 final size:21
Alignment explanation
Indices: 41736348--41736388 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
41736338 ATATTAATTA
41736348 TGATATTTAAAAATATTTTTAT
1 TGAT-TTTAAAAATATTTTTAT
* *
41736370 TGATTTTTAATATATTTTT
1 TGATTTTAAAAATATTTTT
41736389 TAAATTATGA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 13 0.76
22 4 0.24
ACGTcount: A:0.34, C:0.00, G:0.05, T:0.61
Consensus pattern (21 bp):
TGATTTTAAAAATATTTTTAT
Found at i:41744709 original size:20 final size:21
Alignment explanation
Indices: 41744663--41744713 Score: 77
Period size: 21 Copynumber: 2.5 Consensus size: 21
41744653 GCGGTGGTAA
**
41744663 TGAGATTAGATACTGTAGCGG
1 TGAGATTAGATACTGTAGCAC
41744684 TGAGATTAGATACTGT-GCAC
1 TGAGATTAGATACTGTAGCAC
41744704 TGAGATTAGA
1 TGAGATTAGA
41744714 AACAATGGTG
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
20 12 0.43
21 16 0.57
ACGTcount: A:0.31, C:0.10, G:0.29, T:0.29
Consensus pattern (21 bp):
TGAGATTAGATACTGTAGCAC
Found at i:41744940 original size:22 final size:21
Alignment explanation
Indices: 41744915--41744970 Score: 62
Period size: 21 Copynumber: 2.6 Consensus size: 21
41744905 TAATAAAATA
*
41744915 TTTTTTTCTTTAGC-CATCAACG
1 TTTTTTT-TTTA-CTCATCAAAG
41744937 TTTTCTTTTTT-CTCATCAAAG
1 TTTT-TTTTTTACTCATCAAAG
41744958 TTTTTTTTTTACT
1 TTTTTTTTTTACT
41744971 TTTCTTTATT
Statistics
Matches: 30, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
20 7 0.23
21 13 0.43
22 7 0.23
23 3 0.10
ACGTcount: A:0.16, C:0.18, G:0.05, T:0.61
Consensus pattern (21 bp):
TTTTTTTTTTACTCATCAAAG
Found at i:41762770 original size:30 final size:30
Alignment explanation
Indices: 41762734--41762799 Score: 114
Period size: 30 Copynumber: 2.2 Consensus size: 30
41762724 ATTTTATACA
* *
41762734 TCATCATTATCTCATTTTGCCATTACATTT
1 TCATCATTATCTCATTTTGCCACTACATTC
41762764 TCATCATTATCTCATTTTGCCACTACATTC
1 TCATCATTATCTCATTTTGCCACTACATTC
41762794 TCATCA
1 TCATCA
41762800 CGATATTATA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 34 1.00
ACGTcount: A:0.24, C:0.27, G:0.03, T:0.45
Consensus pattern (30 bp):
TCATCATTATCTCATTTTGCCACTACATTC
Found at i:41765767 original size:42 final size:42
Alignment explanation
Indices: 41765673--41765820 Score: 188
Period size: 43 Copynumber: 3.5 Consensus size: 42
41765663 ATGCCGTTAT
* * * * *
41765673 AGAACATGACCTTTAACGGCATTTTACCCATAAATGCCGCTAA
1 AGAACATGACCTTTAGCGGCACTTTA-TCACAAACGCCGCTAA
* *
41765716 AGAACATGACCTTTAGCGGCGCTTTATCACAAACGCTGCTAA
1 AGAACATGACCTTTAGCGGCACTTTATCACAAACGCCGCTAA
* *
41765758 AGAACATGACATTTAGTGGCACTTTTATCACAAACGCCGCTAA
1 AGAACATGACCTTTAGCGGCAC-TTTATCACAAACGCCGCTAA
*
41765801 AGAACATGATCTTTAGCGGC
1 AGAACATGACCTTTAGCGGC
41765821 GTTTATAAAA
Statistics
Matches: 90, Mismatches: 14, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
42 31 0.34
43 59 0.66
ACGTcount: A:0.33, C:0.24, G:0.18, T:0.25
Consensus pattern (42 bp):
AGAACATGACCTTTAGCGGCACTTTATCACAAACGCCGCTAA
Found at i:41771845 original size:61 final size:61
Alignment explanation
Indices: 41771780--41771970 Score: 221
Period size: 61 Copynumber: 3.2 Consensus size: 61
41771770 ATTTTATAGT
41771780 ATTATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATATTAAGAATTTTATTAA
1 ATTATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATATTAAGAATTTTATTAA
* * * ** * * * * * *
41771841 ATTATATATTTTTAATAAATTATATTTA-ATAATAATTATTTTAA-ATT-A-TATTTTA-TAGT
1 ATTATATATTATGATTTTAGTAAATTCATATAAGAA-TA-TTTAATATTAAGAATTTTATTA-A
41771900 ATTATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATATTAAGAATTTTATTAA
1 ATTATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATATTAAGAATTTTATTAA
41771961 ATTATATATT
1 ATTATATATT
41771971 TTAATTGAAA
Statistics
Matches: 100, Mismatches: 22, Indels: 16
0.72 0.16 0.12
Matches are distributed among these distances:
58 7 0.07
59 31 0.31
60 14 0.14
61 41 0.41
62 7 0.07
ACGTcount: A:0.43, C:0.01, G:0.05, T:0.51
Consensus pattern (61 bp):
ATTATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATATTAAGAATTTTATTAA
Found at i:41771967 original size:59 final size:59
Alignment explanation
Indices: 41771784--41771967 Score: 200
Period size: 56 Copynumber: 3.1 Consensus size: 59
41771774 TATAGTATTA
41771784 TATATTATGATTTTAGTAAATTCATATAAGAATATTTAATATTAAGAATTTTATTAAAT
1 TATATTATGATTTTAGTAAATTCATATAAGAATATTTAATATTAAGAATTTTATTAAAT
* * * * * *
41771843 TATA-TAT--TTTTAATAAATT-ATATTTAATAATAATT-ATTTTAAATTATATTTTA-TAGTAT
1 TATATTATGATTTTAGTAAATTCATA--TAAGAATATTTAATATT-AA-GA-ATTTTATTA--AA
41771902 T
59 T
41771903 ATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATATTAAGAATTTTATTAAAT
1 -TATATTATGATTTTAGTAAATTCATATAAGAATATTTAATATTAAGAATTTTATTAAAT
41771963 TATAT
1 TATAT
41771968 ATTTTAATTG
Statistics
Matches: 99, Mismatches: 12, Indels: 28
0.71 0.09 0.20
Matches are distributed among these distances:
55 3 0.03
56 15 0.15
57 11 0.11
58 6 0.06
59 15 0.15
60 4 0.04
61 10 0.10
62 6 0.06
63 11 0.11
64 15 0.15
65 3 0.03
ACGTcount: A:0.43, C:0.01, G:0.05, T:0.51
Consensus pattern (59 bp):
TATATTATGATTTTAGTAAATTCATATAAGAATATTTAATATTAAGAATTTTATTAAAT
Found at i:41771985 original size:120 final size:120
Alignment explanation
Indices: 41771761--41772005 Score: 449
Period size: 120 Copynumber: 2.0 Consensus size: 120
41771751 TATATTTTTA
41771761 TTAAATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATAT
1 TTAAATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATAT
*
41771826 TAAGAATTTTATTAAATTATATATTTTTAATAAATTATATTTAATAATAATTATT
66 TAAGAATTTTATTAAATTATATATTTTTAATAAATTATATTTAATAATAATTATG
41771881 TTAAATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATAT
1 TTAAATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATAT
41771946 TAAGAATTTTATTAAATTATATA-TTTTAATTGAAA-TATATTTAATAATAATTATG
66 TAAGAATTTTATTAAATTATATATTTTTAA-T-AAATTATATTTAATAATAATTATG
41772001 TTAAA
1 TTAAA
41772006 ATATGATTAA
Statistics
Matches: 122, Mismatches: 1, Indels: 4
0.96 0.01 0.03
Matches are distributed among these distances:
119 6 0.05
120 113 0.93
121 3 0.02
ACGTcount: A:0.44, C:0.01, G:0.05, T:0.51
Consensus pattern (120 bp):
TTAAATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATAT
TAAGAATTTTATTAAATTATATATTTTTAATAAATTATATTTAATAATAATTATG
Found at i:41772235 original size:45 final size:44
Alignment explanation
Indices: 41772155--41772244 Score: 137
Period size: 45 Copynumber: 2.0 Consensus size: 44
41772145 ACCTCTATTC
41772155 CATTCAACCAAACACAAGAATACTATTACGCCTCTATTCCATTA
1 CATTCAACCAAACACAAGAATACTATTACGCCTCTATTCCATTA
* *
41772199 CATTCAACCAAACA-ATTGAATTGCTATTACGCCTCTATTCCATTA
1 CATTCAACCAAACACA-AGAA-TACTATTACGCCTCTATTCCATTA
41772244 C
1 C
41772245 GCCTCTATTC
Statistics
Matches: 42, Mismatches: 2, Indels: 3
0.89 0.04 0.06
Matches are distributed among these distances:
43 1 0.02
44 17 0.40
45 24 0.57
ACGTcount: A:0.36, C:0.29, G:0.06, T:0.30
Consensus pattern (44 bp):
CATTCAACCAAACACAAGAATACTATTACGCCTCTATTCCATTA
Found at i:41772245 original size:16 final size:16
Alignment explanation
Indices: 41772224--41772256 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
41772214 TTGAATTGCT
41772224 ATTACGCCTCTATTCC
1 ATTACGCCTCTATTCC
41772240 ATTACGCCTCTATTCC
1 ATTACGCCTCTATTCC
41772256 A
1 A
41772257 ATACAGCGAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.21, C:0.36, G:0.06, T:0.36
Consensus pattern (16 bp):
ATTACGCCTCTATTCC
Found at i:41774087 original size:7 final size:7
Alignment explanation
Indices: 41774047--41774287 Score: 80
Period size: 7 Copynumber: 33.9 Consensus size: 7
41774037 ACTAATTAAT
*
41774047 CTAAATC
1 CTAAACC
41774054 CTAAACCC
1 CTAAA-CC
*
41774062 CTAACCC
1 CTAAACC
*
41774069 CT-ATCTC
1 CTAAAC-C
41774076 CTAAACC
1 CTAAACC
*
41774083 CTAAATC
1 CTAAACC
* *
41774090 ATAAAAC
1 CTAAACC
*
41774097 TTAAACC
1 CTAAACC
*
41774104 ATAAACC
1 CTAAACC
*
41774111 TTAAATCC
1 CTAAA-CC
*
41774119 CT-AACA
1 CTAAACC
*
41774125 CTTAACC
1 CTAAACC
*
41774132 CTTAACCC
1 C-TAAACC
41774140 CTAAACC
1 CTAAACC
*
41774147 TTAAACC
1 CTAAACC
*
41774154 C-CAACTC
1 CTAAAC-C
*
41774161 TTAAACC
1 CTAAACC
*
41774168 ATAAACC
1 CTAAACC
*
41774175 ATAAACC
1 CTAAACC
*
41774182 AC-AATCC
1 -CTAAACC
41774189 CTAAACC
1 CTAAACC
* *
41774196 CATAATCT
1 C-TAAACC
*
41774204 ATAAACC
1 CTAAACC
*
41774211 TTAAA--
1 CTAAACC
*
41774216 ATAGTAACTC
1 CTA--AAC-C
*
41774226 TTAAACC
1 CTAAACC
*
41774233 TTAAACC
1 CTAAACC
*
41774240 TTAAACC
1 CTAAACC
*
41774247 TTAAACC
1 CTAAACC
41774254 CTAAACC
1 CTAAACC
* *
41774261 ATATACC
1 CTAAACC
41774268 CTAAACC
1 CTAAACC
*
41774275 ATAAACC
1 CTAAACC
41774282 CTAAAC
1 CTAAAC
41774288 TATAATGATA
Statistics
Matches: 177, Mismatches: 41, Indels: 32
0.71 0.16 0.13
Matches are distributed among these distances:
5 2 0.01
6 9 0.05
7 139 0.79
8 25 0.14
10 2 0.01
ACGTcount: A:0.43, C:0.34, G:0.00, T:0.23
Consensus pattern (7 bp):
CTAAACC
Found at i:41774643 original size:40 final size:40
Alignment explanation
Indices: 41774599--41774700 Score: 114
Period size: 40 Copynumber: 2.5 Consensus size: 40
41774589 TTTTTTGTGG
* * * *
41774599 CGTTTTTTATAAAGCGCTGCTAAAGCTCGATCTATAGCGA
1 CGTTTTTCAAAAAGCGCCGCTAAAGCTCAATCTATAGCGA
* * * *
41774639 CGTTTTTCAAAAAGTGCCGCTAATGCTTAATCTATAGCGG
1 CGTTTTTCAAAAAGCGCCGCTAAAGCTCAATCTATAGCGA
* *
41774679 CGTTTTTCAAAAAACACCGCTA
1 CGTTTTTCAAAAAGCGCCGCTA
41774701 GTGCCACTAA
Statistics
Matches: 51, Mismatches: 11, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
40 51 1.00
ACGTcount: A:0.29, C:0.22, G:0.18, T:0.31
Consensus pattern (40 bp):
CGTTTTTCAAAAAGCGCCGCTAAAGCTCAATCTATAGCGA
Found at i:41774817 original size:40 final size:40
Alignment explanation
Indices: 41774773--41774859 Score: 102
Period size: 40 Copynumber: 2.2 Consensus size: 40
41774763 AAAAGTGCCA
* *
41774773 CTAATGGTCGACCTATAGCGGCGTTATTCAAAAAGCACCG
1 CTAATGCTCGACCTATAACGGCGTTATTCAAAAAGCACCG
* * * * **
41774813 CTAATGCTCGATCTATAATGGTGTTTTTCAAAAAGTGCCG
1 CTAATGCTCGACCTATAACGGCGTTATTCAAAAAGCACCG
41774853 CTAATGC
1 CTAATGC
41774860 CACTAATGCT
Statistics
Matches: 39, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
40 39 1.00
ACGTcount: A:0.29, C:0.22, G:0.21, T:0.29
Consensus pattern (40 bp):
CTAATGCTCGACCTATAACGGCGTTATTCAAAAAGCACCG
Found at i:41774961 original size:40 final size:40
Alignment explanation
Indices: 41774906--41775094 Score: 243
Period size: 40 Copynumber: 4.7 Consensus size: 40
41774896 AATTTTTTTT
* *
41774906 CGGCGTTTTTCAAAAAGCGCCACTAATGGTCGACCTATAG
1 CGGCGTTTTTCAAAAAGCGCCGCTAATGCTCGACCTATAG
41774946 CGGCGTTTTTCAAAAAGCGCCGCTAATGCTCGACCTATAG
1 CGGCGTTTTTCAAAAAGCGCCGCTAATGCTCGACCTATAG
* * * * * * *
41774986 CGGGGTTTTTAAAAAAGCACCACAAATGCTCAATCTATAG
1 CGGCGTTTTTCAAAAAGCGCCGCTAATGCTCGACCTATAG
* * * *
41775026 CAGAGTTTTTCAAAAAGTGCCGCTAATGCTCGATCTATAG
1 CGGCGTTTTTCAAAAAGCGCCGCTAATGCTCGACCTATAG
* *
41775066 CGGTGTTTTTCAAAAAGCACCGCTAATGC
1 CGGCGTTTTTCAAAAAGCGCCGCTAATGC
41775095 CACTACTGCT
Statistics
Matches: 128, Mismatches: 21, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 128 1.00
ACGTcount: A:0.30, C:0.23, G:0.21, T:0.26
Consensus pattern (40 bp):
CGGCGTTTTTCAAAAAGCGCCGCTAATGCTCGACCTATAG
Found at i:41775014 original size:155 final size:155
Alignment explanation
Indices: 41774586--41775006 Score: 531
Period size: 155 Copynumber: 2.7 Consensus size: 155
41774576 TGGACAGATA
* * ** * * * *
41774586 AATTTTTTTGT-GGCGTTTTTTATAAAGCGCTGCTAAAGCTCGATCTATAGCGACGTTTTTCAAA
1 AATTTTTTT-TCGGCGTTTTTCAAAAAGCGCCACTAATGGTCGACCTATAGCGGCGTTTTTCAAA
* ** *
41774650 AAGTGCCGCTAATGCTTAATCTATAGCGGCGTTTTTCAAAAAA-CACCGCTAGTGCCACTAAAGC
65 AAGCGCCGCTAATGCTCGATCTATAGCGGCGTTTTT-AAAAAAGCACCGCTAATGCCACTAAAGC
* * * *
41774714 TCAACATAAAATGATGGCGTTGTGCTT
129 TCAACATAAAACGACGACATTGTGCTT
* * * * *
41774741 AATTTTTTTGCCGCGTTTTCCAAAAAGTGCCACTAATGGTCGACCTATAGCGGCGTTATTCAAAA
1 AATTTTTTTTCGGCGTTTTTCAAAAAGCGCCACTAATGGTCGACCTATAGCGGCGTTTTTCAAAA
* ** * * ** *
41774806 AGCACCGCTAATGCTCGATCTATAATGGTGTTTTTCAAAAAGTGCCGCTAATGCCACTAATGCTC
66 AGCGCCGCTAATGCTCGATCTATAGCGGCGTTTTTAAAAAAGCACCGCTAATGCCACTAAAGCTC
41774871 AACATAAAACGACGACATTGTGCTT
131 AACATAAAACGACGACATTGTGCTT
41774896 AATTTTTTTTCGGCGTTTTTCAAAAAGCGCCACTAATGGTCGACCTATAGCGGCGTTTTTCAAAA
1 AATTTTTTTTCGGCGTTTTTCAAAAAGCGCCACTAATGGTCGACCTATAGCGGCGTTTTTCAAAA
* *
41774961 AGCGCCGCTAATGCTCGACCTATAGCGGGGTTTTTAAAAAAGCACC
66 AGCGCCGCTAATGCTCGATCTATAGCGGCGTTTTTAAAAAAGCACC
41775007 ACAAATGCTC
Statistics
Matches: 222, Mismatches: 42, Indels: 4
0.83 0.16 0.01
Matches are distributed among these distances:
154 5 0.02
155 217 0.98
ACGTcount: A:0.29, C:0.21, G:0.19, T:0.31
Consensus pattern (155 bp):
AATTTTTTTTCGGCGTTTTTCAAAAAGCGCCACTAATGGTCGACCTATAGCGGCGTTTTTCAAAA
AGCGCCGCTAATGCTCGATCTATAGCGGCGTTTTTAAAAAAGCACCGCTAATGCCACTAAAGCTC
AACATAAAACGACGACATTGTGCTT
Found at i:41783083 original size:365 final size:368
Alignment explanation
Indices: 41782410--41783096 Score: 1085
Period size: 365 Copynumber: 1.9 Consensus size: 368
41782400 CAAATTCTAG
*
41782410 TTATTTTGTGTAAAATTAACATTTATACCTAGGGTTACAAGGGTATGGATGGCACACACATTAAA
1 TTATTTTGTGTAAAATTAACATCTATACCTAGGGTTACAAGGGTATGGATGGCACACACATTAAA
* * *
41782475 AATAATGGATTTTGTAAAAAAAATAATTATTTTGCATGAGAAATGATTTGAACTTAGAACCTCAA
66 AACAATGGATTTTGTAAAAAAAATAATTATTTTGCATGAGAAAGGATTCGAACTTAGAACCTCAA
*** * * *
41782540 TTTAATTTTTGTGCTTTTTCATTTATCAATTAACCACTAGGCTATTTCTTTATATTTGAAATAAT
131 TTTAATTTGCATGCTTTTGCATTTATCAATTAACCACTAGCCTATTTCCTTATATTTGAAATAAT
* *
41782605 TTTACAATATTTAATTTAAAAATAAGGTGTGTCACATACTAGGGTTTGAGGCAAAATTAACAAAA
196 TTTACAATATTTAATTTAAAAACAAGGCGTGTCACATACTAGGGTTTGAGGCAAAATTAACAAAA
*
41782670 TAATAAAAATGGTGAGGGAGAAGGGATTTGAACTTGGATTTCAAGGAACGTTCCACTAACACTTA
261 TAATAAAAATGGTGAGGGAGAAGGGATTTGAACTTGGATTTCAAGGAACGTTCCACGAACACTTA
41782735 TCCAATAAAATAATATATTATTTATTCCTAAACCCTAAACTAA
326 TCCAATAAAATAATATATTATTTATTCCTAAACCCTAAACTAA
* * *
41782778 TTATTTTGTGTAAAATTATCATCTATACCTAGGGTTACAAGGTTATGGATGGCATACACATTAAA
1 TTATTTTGTGTAAAATTAACATCTATACCTAGGGTTACAAGGGTATGGATGGCACACACATTAAA
* * * * * *
41782843 AACAATGGATTTTGT-ATAAAAA-AGTTGTTTTGCATGGGAAAGGATTCGAACTTGGGACCTCAA
66 AACAATGGATTTTGTAAAAAAAATAATTATTTTGCATGAGAAAGGATTCGAACTTAGAACCTCAA
* *
41782906 TTTAATTTGCATGCTTTTGCATTTATCAATTAACCACTAGCCTATTTCCTTCTTTTTGAAATAAT
131 TTTAATTTGCATGCTTTTGCATTTATCAATTAACCACTAGCCTATTTCCTTATATTTGAAATAAT
* *
41782971 TTTGA-AATA-TTATTTTAAAAACAAGGCGTGTTACATACTAGGGTTTGAGGCAAAATTAACAAA
196 TTT-ACAATATTTAATTTAAAAACAAGGCGTGTCACATACTAGGGTTTGAGGCAAAATTAACAAA
* *
41783034 ATATTAAAAATGGTGAGGGAGAAGGGATTTGAACTTGGATTTCAAGGAACGTTTCACGAACAC
260 ATAATAAAAATGGTGAGGGAGAAGGGATTTGAACTTGGATTTCAAGGAACGTTCCACGAACAC
41783097 ATATTCAACA
Statistics
Matches: 290, Mismatches: 28, Indels: 5
0.90 0.09 0.02
Matches are distributed among these distances:
365 110 0.38
366 98 0.34
367 7 0.02
368 75 0.26
ACGTcount: A:0.37, C:0.12, G:0.16, T:0.35
Consensus pattern (368 bp):
TTATTTTGTGTAAAATTAACATCTATACCTAGGGTTACAAGGGTATGGATGGCACACACATTAAA
AACAATGGATTTTGTAAAAAAAATAATTATTTTGCATGAGAAAGGATTCGAACTTAGAACCTCAA
TTTAATTTGCATGCTTTTGCATTTATCAATTAACCACTAGCCTATTTCCTTATATTTGAAATAAT
TTTACAATATTTAATTTAAAAACAAGGCGTGTCACATACTAGGGTTTGAGGCAAAATTAACAAAA
TAATAAAAATGGTGAGGGAGAAGGGATTTGAACTTGGATTTCAAGGAACGTTCCACGAACACTTA
TCCAATAAAATAATATATTATTTATTCCTAAACCCTAAACTAA
Found at i:41786878 original size:13 final size:13
Alignment explanation
Indices: 41786862--41786901 Score: 55
Period size: 13 Copynumber: 3.1 Consensus size: 13
41786852 GGGGGTAGGA
41786862 TTCTGTATATCTG
1 TTCTGTATATCTG
*
41786875 TTCTGCATATCTG
1 TTCTGTATATCTG
41786888 ATTCTGT-TATCTG
1 -TTCTGTATATCTG
41786901 T
1 T
41786902 AACTATAAAG
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
12 1 0.04
13 18 0.75
14 5 0.21
ACGTcount: A:0.15, C:0.17, G:0.15, T:0.53
Consensus pattern (13 bp):
TTCTGTATATCTG
Found at i:41792485 original size:49 final size:47
Alignment explanation
Indices: 41792395--41792686 Score: 496
Period size: 47 Copynumber: 6.1 Consensus size: 47
41792385 TTAGGATTCT
* *
41792395 ATGTGATGGATGTGAACA-TGCATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAA-AGTGTATATATGTGATAAGGCCTAATGGCCG
41792442 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCG
41792491 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCG
41792540 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
*
41792587 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
*
41792634 ATATGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
41792681 ATGTGA
1 ATGTGA
41792687 GATAAGGCCT
Statistics
Matches: 236, Mismatches: 6, Indels: 6
0.95 0.02 0.02
Matches are distributed among these distances:
46 1 0.00
47 140 0.59
49 95 0.40
ACGTcount: A:0.33, C:0.09, G:0.29, T:0.30
Consensus pattern (47 bp):
ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
Found at i:41792692 original size:24 final size:24
Alignment explanation
Indices: 41792663--41792710 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
41792653 GTATATATGT
41792663 GATAAGGCCTAATGGCCGATGTGA
1 GATAAGGCCTAATGGCCGATGTGA
41792687 GATAAGGCCTAATGGCCGATGTGA
1 GATAAGGCCTAATGGCCGATGTGA
41792711 TGAATGTGAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.29, C:0.17, G:0.33, T:0.21
Consensus pattern (24 bp):
GATAAGGCCTAATGGCCGATGTGA
Found at i:41792692 original size:71 final size:71
Alignment explanation
Indices: 41792616--41792757 Score: 266
Period size: 71 Copynumber: 2.0 Consensus size: 71
41792606 GTATATATGT
41792616 GATAAGGCCTAATAGCCGATATGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 GATAAGGCCTAATAGCCGATATGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
41792681 ATGTGA
66 ATGTGA
* *
41792687 GATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 GATAAGGCCTAATAGCCGATATGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
41792752 ATGTGA
66 ATGTGA
41792758 TGAATGTGAA
Statistics
Matches: 69, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
71 69 1.00
ACGTcount: A:0.32, C:0.11, G:0.30, T:0.27
Consensus pattern (71 bp):
GATAAGGCCTAATAGCCGATATGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
ATGTGA
Found at i:41792701 original size:165 final size:165
Alignment explanation
Indices: 41792522--41792833 Score: 525
Period size: 165 Copynumber: 1.9 Consensus size: 165
41792512 ATATATATGT
41792522 GATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 GATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* * * *
41792587 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATATGATGAATGTGAAAG
66 ATGTGATGAATGTGAAAGTGTATATATGTGACAAGGCCGAATAGCCAACATGATGAATGTGAAAG
*
41792652 TGTATATATGTGATAAGGCCTAATGGCCGATGTGA
131 TGTATAAATGTGATAAGGCCTAATGGCCGATGTGA
41792687 GATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 GATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* * * * * *
41792752 ATGTGATGAATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATTTGAAAG
66 ATGTGATGAATGTGAAAGTGTATATATGTGACAAGGCCGAATAGCCAACATGATGAATGTGAAAG
41792817 TGTATAAATGTGATAAG
131 TGTATAAATGTGATAAG
41792834 TCCCGAAGGG
Statistics
Matches: 136, Mismatches: 11, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
165 136 1.00
ACGTcount: A:0.32, C:0.10, G:0.30, T:0.28
Consensus pattern (165 bp):
GATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
ATGTGATGAATGTGAAAGTGTATATATGTGACAAGGCCGAATAGCCAACATGATGAATGTGAAAG
TGTATAAATGTGATAAGGCCTAATGGCCGATGTGA
Found at i:41792702 original size:118 final size:118
Alignment explanation
Indices: 41792569--41792782 Score: 410
Period size: 118 Copynumber: 1.8 Consensus size: 118
41792559 GTATATATGT
41792569 GATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCG
1 GATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCG
41792634 ATATGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGA
66 ATATGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGA
*
41792687 GATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 GATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCG
*
41792752 ATGTGATGAATGTGAAAGTGTATATATGTGA
66 ATATGATGAATGTGAAAGTGTATATATGTGA
41792783 CAGGGCCGAG
Statistics
Matches: 94, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
118 94 1.00
ACGTcount: A:0.33, C:0.09, G:0.29, T:0.29
Consensus pattern (118 bp):
GATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCG
ATATGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGA
Found at i:41792740 original size:47 final size:47
Alignment explanation
Indices: 41792687--41792833 Score: 213
Period size: 47 Copynumber: 3.1 Consensus size: 47
41792677 GCCGATGTGA
41792687 GATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGT
1 GATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGT
41792734 GATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGT
1 GATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGT
* * * * * * * * *
41792781 GACAGGGCCGAGTGGCCAACGTGATGGATTTGAAAGTGTATAAATGT
1 GATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGT
41792828 GATAAG
1 GATAAG
41792834 TCCCGAAGGG
Statistics
Matches: 89, Mismatches: 11, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
47 89 1.00
ACGTcount: A:0.32, C:0.10, G:0.31, T:0.27
Consensus pattern (47 bp):
GATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGT
Found at i:41794531 original size:40 final size:40
Alignment explanation
Indices: 41794208--41794519 Score: 444
Period size: 40 Copynumber: 7.8 Consensus size: 40
41794198 GAGAATTGAG
* * * *
41794208 AGTGAAATGTCCGGGCTAAATCCCGAAGAGCATTCGTGTT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* * *
41794248 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
41794288 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
41794328 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* * *
41794368 AGTGATATATCCAGGTTAAATCCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* * * *
41794408 AGTGATGTATCCGGACTAAGTTCAGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* **
41794448 AGTGATATATCCGTGCTAAACCCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* * *
41794488 GGTGTTATATCCGGGCTAGGTCCCGAAGAGCA
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCA
41794520 ATCATGCTGG
Statistics
Matches: 239, Mismatches: 33, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
40 239 1.00
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (40 bp):
AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
Found at i:41798653 original size:49 final size:49
Alignment explanation
Indices: 41798584--41798903 Score: 571
Period size: 49 Copynumber: 6.7 Consensus size: 49
41798574 GTGAACATGC
*
41798584 ATATATGTGATAAGGCCTAATGGTCGATGTGATGAATGTGAAAGTGTAT
1 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
41798633 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
1 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
41798682 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
1 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
41798731 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
1 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
*
41798780 ATATA--TGATAACGCCTAATGGCCGATGTGATGAATGTGAAAGTG--T
1 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
*
41798825 ATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTG--T
1 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
41798872 ATATATGTGATAAGGCCTAATGGCCGATGTGA
1 ATATATGTGATAAGGCCTAATGGCCGATGTGA
41798904 GATAAGGCCT
Statistics
Matches: 264, Mismatches: 5, Indels: 6
0.96 0.02 0.02
Matches are distributed among these distances:
45 6 0.02
47 107 0.41
49 151 0.57
ACGTcount: A:0.33, C:0.09, G:0.28, T:0.30
Consensus pattern (49 bp):
ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
Found at i:41798909 original size:24 final size:24
Alignment explanation
Indices: 41798880--41798927 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
41798870 GTATATATGT
41798880 GATAAGGCCTAATGGCCGATGTGA
1 GATAAGGCCTAATGGCCGATGTGA
41798904 GATAAGGCCTAATGGCCGATGTGA
1 GATAAGGCCTAATGGCCGATGTGA
41798928 TGAATGTGAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.29, C:0.17, G:0.33, T:0.21
Consensus pattern (24 bp):
GATAAGGCCTAATGGCCGATGTGA
Found at i:41798910 original size:165 final size:165
Alignment explanation
Indices: 41798739--41799050 Score: 525
Period size: 165 Copynumber: 1.9 Consensus size: 165
41798729 ATATATATGT
41798739 GATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGATAACGCCTAATGGCCG
1 GATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGATAACGCCTAATGGCCG
* * * *
41798804 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAG
66 ATGTGATGAATGTGAAAGTGTATATATGTGACAAGGCCGAATAGCCAACGTGATGAATGTGAAAG
*
41798869 TGTATATATGTGATAAGGCCTAATGGCCGATGTGA
131 TGTATAAATGTGATAAGGCCTAATGGCCGATGTGA
* *
41798904 GATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 GATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGATAACGCCTAATGGCCG
* * * *
41798969 ATGTGATGAATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAAAG
66 ATGTGATGAATGTGAAAGTGTATATATGTGACAAGGCCGAATAGCCAACGTGATGAATGTGAAAG
41799034 TGTATAAATGTGATAAG
131 TGTATAAATGTGATAAG
41799051 TCCCGAAGGG
Statistics
Matches: 136, Mismatches: 11, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
165 136 1.00
ACGTcount: A:0.32, C:0.10, G:0.30, T:0.28
Consensus pattern (165 bp):
GATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGATAACGCCTAATGGCCG
ATGTGATGAATGTGAAAGTGTATATATGTGACAAGGCCGAATAGCCAACGTGATGAATGTGAAAG
TGTATAAATGTGATAAGGCCTAATGGCCGATGTGA
Found at i:41798922 original size:71 final size:71
Alignment explanation
Indices: 41798833--41798974 Score: 275
Period size: 71 Copynumber: 2.0 Consensus size: 71
41798823 GTATATATGT
41798833 GATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 GATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
41798898 ATGTGA
66 ATGTGA
*
41798904 GATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 GATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
41798969 ATGTGA
66 ATGTGA
41798975 TGAATGTGAA
Statistics
Matches: 70, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
71 70 1.00
ACGTcount: A:0.32, C:0.11, G:0.30, T:0.27
Consensus pattern (71 bp):
GATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
ATGTGA
Found at i:41798924 original size:118 final size:118
Alignment explanation
Indices: 41798786--41798999 Score: 410
Period size: 118 Copynumber: 1.8 Consensus size: 118
41798776 GTATATATAT
41798786 GATAACGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCG
1 GATAACGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCG
41798851 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGA
66 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGA
* *
41798904 GATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 GATAACGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCG
41798969 ATGTGATGAATGTGAAAGTGTATATATGTGA
66 ATGTGATGAATGTGAAAGTGTATATATGTGA
41799000 CAGGGCCGAG
Statistics
Matches: 94, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
118 94 1.00
ACGTcount: A:0.32, C:0.10, G:0.29, T:0.29
Consensus pattern (118 bp):
GATAACGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCG
ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGA
Found at i:41798957 original size:47 final size:47
Alignment explanation
Indices: 41798904--41799050 Score: 222
Period size: 47 Copynumber: 3.1 Consensus size: 47
41798894 GCCGATGTGA
41798904 GATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGT
1 GATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGT
41798951 GATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGT
1 GATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGT
* * * * * * * *
41798998 GACAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTATAAATGT
1 GATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGT
41799045 GATAAG
1 GATAAG
41799051 TCCCGAAGGG
Statistics
Matches: 90, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
47 90 1.00
ACGTcount: A:0.32, C:0.10, G:0.32, T:0.27
Consensus pattern (47 bp):
GATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGT
Found at i:41805404 original size:29 final size:28
Alignment explanation
Indices: 41805311--41805404 Score: 79
Period size: 28 Copynumber: 3.4 Consensus size: 28
41805301 CAAAACCTAT
*
41805311 AAACGCATATATA-T-TATAT-AATA-A
1 AAACCCATATATATTATATATAAATACA
* * * *
41805335 AACCCACAGATATATTATATATAACTGCA
1 AAACC-CATATATATTATATATAAATACA
*
41805364 AAACCCATATATATTATCTATAAATAACA
1 AAACCCATATATATTATATATAAAT-ACA
*
41805393 AAACTCATATAT
1 AAACCCATATAT
41805405 GCATCTATTA
Statistics
Matches: 53, Mismatches: 11, Indels: 7
0.75 0.15 0.10
Matches are distributed among these distances:
24 3 0.06
25 7 0.13
26 1 0.02
27 5 0.09
28 19 0.36
29 18 0.34
ACGTcount: A:0.50, C:0.16, G:0.03, T:0.31
Consensus pattern (28 bp):
AAACCCATATATATTATATATAAATACA
Found at i:41819143 original size:62 final size:59
Alignment explanation
Indices: 41819054--41819170 Score: 155
Period size: 59 Copynumber: 1.9 Consensus size: 59
41819044 AGCGATTATC
* *
41819054 TTAATATTAAATTAAATTAAATTTTTATCTTGTAGATAAATATTCTATTAATTTAATAAGAT
1 TTAATATTAAATTAAATTAAATATTTAT-TT-T-GATAAATATTATATTAATTTAATAAGAT
* *
41819116 TTAATATTAAATTTAATCT-CATATTTATTTTGATAAATATTATATTAATTTAATA
1 TTAATATTAAATTAAAT-TAAATATTTATTTTGATAAATATTATATTAATTTAATA
41819171 TTAAAGTGAT
Statistics
Matches: 50, Mismatches: 4, Indels: 5
0.85 0.07 0.08
Matches are distributed among these distances:
59 23 0.46
60 1 0.02
61 2 0.04
62 23 0.46
63 1 0.02
ACGTcount: A:0.43, C:0.03, G:0.03, T:0.50
Consensus pattern (59 bp):
TTAATATTAAATTAAATTAAATATTTATTTTGATAAATATTATATTAATTTAATAAGAT
Found at i:41821377 original size:43 final size:43
Alignment explanation
Indices: 41821329--41821444 Score: 153
Period size: 43 Copynumber: 2.7 Consensus size: 43
41821319 CCAATCAACA
* * * *
41821329 CAAATATACTTGCACACACAGTGCATCATCT-GACGAATCGAAG
1 CAAATATACTAGCACACATAGTGCATCAT-TAGACGAACCAAAG
*
41821372 CAAATATACTAACACACATAGTGCATCATTAGACGAACCAAAG
1 CAAATATACTAGCACACATAGTGCATCATTAGACGAACCAAAG
* *
41821415 TAAATATACTGGCACACATAGTGCATCATT
1 CAAATATACTAGCACACATAGTGCATCATT
41821445 GATCTACAAC
Statistics
Matches: 64, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
42 1 0.02
43 63 0.98
ACGTcount: A:0.41, C:0.23, G:0.14, T:0.22
Consensus pattern (43 bp):
CAAATATACTAGCACACATAGTGCATCATTAGACGAACCAAAG
Found at i:41836757 original size:19 final size:19
Alignment explanation
Indices: 41836716--41836757 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
41836706 TCATGTCATG
* *
41836716 ATCTGCCAGTCCAGTCGTG
1 ATCTGCCAGTCCAATCGTC
*
41836735 ATCTGCCAGTCCAATCTTC
1 ATCTGCCAGTCCAATCGTC
41836754 ATCT
1 ATCT
41836758 TACTATATGT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.19, C:0.33, G:0.17, T:0.31
Consensus pattern (19 bp):
ATCTGCCAGTCCAATCGTC
Found at i:41838396 original size:12 final size:13
Alignment explanation
Indices: 41838373--41838401 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
41838363 TTTTGTTTTA
41838373 TTTCCTTTTTCTT
1 TTTCCTTTTTCTT
41838386 TTTCC-TTTTCTT
1 TTTCCTTTTTCTT
41838398 TTTC
1 TTTC
41838402 ACTCTTTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 11 0.69
13 5 0.31
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (13 bp):
TTTCCTTTTTCTT
Found at i:41839395 original size:23 final size:23
Alignment explanation
Indices: 41839355--41839404 Score: 66
Period size: 23 Copynumber: 2.2 Consensus size: 23
41839345 ATTTCCAAAC
*
41839355 AAAAATTAAAACATCCAAAATTT
1 AAAAATTAAAACATCCAAAAATT
*
41839378 AAAAATTAAAA-GTCCCAAAAATT
1 AAAAATTAAAACAT-CCAAAAATT
41839401 AAAA
1 AAAA
41839405 TAAAATTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
22 1 0.04
23 23 0.96
ACGTcount: A:0.64, C:0.12, G:0.02, T:0.22
Consensus pattern (23 bp):
AAAAATTAAAACATCCAAAAATT
Found at i:41841395 original size:25 final size:25
Alignment explanation
Indices: 41841365--41841417 Score: 88
Period size: 25 Copynumber: 2.1 Consensus size: 25
41841355 TATTATACAT
41841365 TTGTTTTAAAATCTATTATGTATTA
1 TTGTTTTAAAATCTATTATGTATTA
* *
41841390 TTGTTTTGAAATTTATTATGTATTA
1 TTGTTTTAAAATCTATTATGTATTA
41841415 TTG
1 TTG
41841418 ACTGTTGTAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.28, C:0.02, G:0.11, T:0.58
Consensus pattern (25 bp):
TTGTTTTAAAATCTATTATGTATTA
Found at i:41841641 original size:4 final size:4
Alignment explanation
Indices: 41841632--41841678 Score: 94
Period size: 4 Copynumber: 11.8 Consensus size: 4
41841622 TATTTTCATT
41841632 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATA
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATA
41841679 ATCTATTGTA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 43 1.00
ACGTcount: A:0.51, C:0.23, G:0.00, T:0.26
Consensus pattern (4 bp):
ATAC
Found at i:41850888 original size:20 final size:20
Alignment explanation
Indices: 41850835--41850888 Score: 81
Period size: 20 Copynumber: 2.7 Consensus size: 20
41850825 TATTTAAGCT
*
41850835 AAAGTAAGTAAATAAAATGG
1 AAAGTAAGTAAATGAAATGG
*
41850855 AAAGTAAGTAAATGCAATGG
1 AAAGTAAGTAAATGAAATGG
*
41850875 AAATTAAGTAAATG
1 AAAGTAAGTAAATG
41850889 GAAGGGTTCA
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.56, C:0.02, G:0.20, T:0.22
Consensus pattern (20 bp):
AAAGTAAGTAAATGAAATGG
Found at i:41859407 original size:30 final size:30
Alignment explanation
Indices: 41859350--41859411 Score: 90
Period size: 30 Copynumber: 2.1 Consensus size: 30
41859340 TATTTTTGAA
* *
41859350 AATATTTACAAAAAGAGGCATCTAATTTTT
1 AATATTTACAAAAAGAGGCACCAAATTTTT
41859380 AATATTTACAAAAAGA-GCAACCAAATTTTT
1 AATATTTACAAAAAGAGGC-ACCAAATTTTT
41859410 AA
1 AA
41859412 AAATAATTCA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
29 2 0.07
30 27 0.93
ACGTcount: A:0.48, C:0.11, G:0.08, T:0.32
Consensus pattern (30 bp):
AATATTTACAAAAAGAGGCACCAAATTTTT
Found at i:41862317 original size:21 final size:20
Alignment explanation
Indices: 41862288--41862329 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 20
41862278 TAAAATGCAA
41862288 TCAACATAACA-TGAATTAAAT
1 TCAACATAA-ATTG-ATTAAAT
*
41862309 TCAAGATAAATTGATTAAAT
1 TCAACATAAATTGATTAAAT
41862329 T
1 T
41862330 AACCATTCCA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
20 9 0.47
21 10 0.53
ACGTcount: A:0.50, C:0.10, G:0.07, T:0.33
Consensus pattern (20 bp):
TCAACATAAATTGATTAAAT
Found at i:41863013 original size:22 final size:22
Alignment explanation
Indices: 41862971--41863015 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
41862961 TTATTAACCC
*
41862971 AAATTAAATTGTATATAAATTA
1 AAATTAAATTATATATAAATTA
*
41862993 AAATT-AATTATATTATGAATTA
1 AAATTAAATTATA-TATAAATTA
41863015 A
1 A
41863016 TACATATAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 6 0.30
22 14 0.70
ACGTcount: A:0.53, C:0.00, G:0.04, T:0.42
Consensus pattern (22 bp):
AAATTAAATTATATATAAATTA
Found at i:41866091 original size:27 final size:27
Alignment explanation
Indices: 41866061--41866556 Score: 550
Period size: 27 Copynumber: 18.4 Consensus size: 27
41866051 TCATCTCCTA
** *
41866061 GGGGTATAACAGTCATTTTAACCTATG
1 GGGGTATTTCAGTCATTTTACCCTATG
*
41866088 GGGGTATTTCAGTCATTTTAACCTATG
1 GGGGTATTTCAGTCATTTTACCCTATG
* *
41866115 GGGGTATTTCAGTCATTCTACACTATG
1 GGGGTATTTCAGTCATTTTACCCTATG
* * *
41866142 GGGCTATTT-TGATCATTCTACCCTATG
1 GGGGTATTTCAG-TCATTTTACCCTATG
* *
41866169 GGGGTATTTC-GATTAGTTTACCCTATG
1 GGGGTATTTCAG-TCATTTTACCCTATG
* * *
41866196 AGGGTATTT-TGATCATTCTACCCTATG
1 GGGGTATTTCAG-TCATTTTACCCTATG
* * *
41866223 TGGGTATTTTAGTTATTTTACCCTATG
1 GGGGTATTTCAGTCATTTTACCCTATG
41866250 GGGGTATTTCAGT-ATTTTACCCTATG
1 GGGGTATTTCAGTCATTTTACCCTATG
*
41866276 GGGGTATTTCAGTCATTTTATCCTATG
1 GGGGTATTTCAGTCATTTTACCCTATG
* * *
41866303 GGGGTATTTCAGTCATTTTACTCAATA
1 GGGGTATTTCAGTCATTTTACCCTATG
**
41866330 GGGGTATTTTGGTCATTTTACCCTATG
1 GGGGTATTTCAGTCATTTTACCCTATG
* * * *
41866357 GGGGTATTTCGGTCATTCTATCCTCTG
1 GGGGTATTTCAGTCATTTTACCCTATG
* * * *
41866384 GTGGTACTTCAGTCATTCTACTCTATG
1 GGGGTATTTCAGTCATTTTACCCTATG
* *
41866411 GGGGTATTTCGGTCATTTTACTCTATG
1 GGGGTATTTCAGTCATTTTACCCTATG
* * * *
41866438 AGGATATTTCAGTCATTTTACCTTATA
1 GGGGTATTTCAGTCATTTTACCCTATG
* * *
41866465 AGGGTATTTCGGTCATTTTACCCTATA
1 GGGGTATTTCAGTCATTTTACCCTATG
*
41866492 GGGGTATTTCGGTCATTTTACCCTATG
1 GGGGTATTTCAGTCATTTTACCCTATG
*
41866519 TGGGTTATTTCAGTCATTTTACCCTATG
1 -GGGGTATTTCAGTCATTTTACCCTATG
41866547 GGGGTATTTC
1 GGGGTATTTC
41866557 GGTCCAACAT
Statistics
Matches: 403, Mismatches: 60, Indels: 12
0.85 0.13 0.03
Matches are distributed among these distances:
26 27 0.07
27 350 0.87
28 26 0.06
ACGTcount: A:0.20, C:0.17, G:0.22, T:0.42
Consensus pattern (27 bp):
GGGGTATTTCAGTCATTTTACCCTATG
Found at i:41876830 original size:47 final size:47
Alignment explanation
Indices: 41876775--41877526 Score: 1288
Period size: 47 Copynumber: 15.8 Consensus size: 47
41876765 ATTTAGGATT
* *
41876775 CGATGTGATGAATGTGAAAGTGTATATATCTGATAAGGCCTAATGGT
1 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGC
41876822 CGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGC
1 CGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGC
41876871 CGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGC
1 CGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGC
41876920 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGC
1 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGC
*
41876967 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGC
1 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGC
*
41877014 CGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATAGC
1 CGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGC
41877063 CGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGC
1 CGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGC
41877112 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGC
1 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGC
41877159 CGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGC
1 CGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGC
41877208 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGC
1 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGC
*
41877255 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGC
1 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGC
*
41877302 CGATGTGATGAATGTGAAAGTGTATATATTTGATAAGGCCTAATGGC
1 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGC
41877349 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGC
1 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGC
41877396 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGC
1 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGC
* * * *
41877443 CGATGTGATGAATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGC
1 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGC
* * * *
41877490 CAACGTGATGGATGTGAAAGTGTATAAATGTGATAAG
1 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAG
41877527 TCCCGAAGGG
Statistics
Matches: 681, Mismatches: 18, Indels: 12
0.96 0.03 0.02
Matches are distributed among these distances:
47 445 0.65
49 236 0.35
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.30
Consensus pattern (47 bp):
CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGC
Found at i:41877701 original size:37 final size:37
Alignment explanation
Indices: 41877645--41877723 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
41877635 CCGAGCTCTA
* * *
41877645 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
41877682 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
41877719 AAGAC
1 AAGAC
41877724 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:41884196 original size:27 final size:27
Alignment explanation
Indices: 41884166--41884225 Score: 68
Period size: 27 Copynumber: 2.2 Consensus size: 27
41884156 GTTAAAATAG
* *
41884166 TAAAAAAAAATATAAAAAT-GACTAAAC
1 TAAAAAAAAA-AGAAAAATAAACTAAAC
* *
41884193 TAAAAAGAAAAGAAAACTAAACTAAAC
1 TAAAAAAAAAAGAAAAATAAACTAAAC
41884220 TAAAAA
1 TAAAAA
41884226 CCTAAAAATA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
26 6 0.21
27 22 0.79
ACGTcount: A:0.72, C:0.08, G:0.05, T:0.15
Consensus pattern (27 bp):
TAAAAAAAAAAGAAAAATAAACTAAAC
Found at i:41886769 original size:41 final size:41
Alignment explanation
Indices: 41886693--41886817 Score: 171
Period size: 41 Copynumber: 3.0 Consensus size: 41
41886683 TCAATGTAAG
* * *
41886693 TGTACTTCGATACCCCTTGAATTGCACACACGTGCCCCTGTT
1 TGTACTTCGATACCCC-TAAATTGCACATACGTGCCCCTATT
*
41886735 TGTACTTC-AGTACCCCTAAATTGCACATATGTGCCCCTATT
1 TGTACTTCGA-TACCCCTAAATTGCACATACGTGCCCCTATT
* *
41886776 TGTACTTTGATACCCCTAAATTACACATACGTGCCCCTATT
1 TGTACTTCGATACCCCTAAATTGCACATACGTGCCCCTATT
41886817 T
1 T
41886818 ACATTCCAGT
Statistics
Matches: 74, Mismatches: 7, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
41 59 0.80
42 15 0.20
ACGTcount: A:0.23, C:0.30, G:0.13, T:0.34
Consensus pattern (41 bp):
TGTACTTCGATACCCCTAAATTGCACATACGTGCCCCTATT
Found at i:41886773 original size:21 final size:21
Alignment explanation
Indices: 41886747--41886814 Score: 59
Period size: 21 Copynumber: 3.3 Consensus size: 21
41886737 TACTTCAGTA
41886747 CCCCTAAATTGCACATATGTG
1 CCCCTAAATTGCACATATGTG
* * * *
41886768 CCCCT-ATTTGTAC-TTTGATA
1 CCCCTAAATTGCACATATG-TG
* *
41886788 CCCCTAAATTACACATACGTG
1 CCCCTAAATTGCACATATGTG
41886809 CCCCTA
1 CCCCTA
41886815 TTTACATTCC
Statistics
Matches: 34, Mismatches: 10, Indels: 6
0.68 0.20 0.12
Matches are distributed among these distances:
19 3 0.09
20 12 0.35
21 17 0.50
22 2 0.06
ACGTcount: A:0.26, C:0.32, G:0.10, T:0.31
Consensus pattern (21 bp):
CCCCTAAATTGCACATATGTG
Found at i:41888191 original size:40 final size:40
Alignment explanation
Indices: 41888127--41888214 Score: 140
Period size: 40 Copynumber: 2.2 Consensus size: 40
41888117 GGGGTGTTAC
* * *
41888127 ATGCTTAGTAGGCTTCGTGCCAGTGTATCTATCGAGCTAA
1 ATGCCTAGAAGGCTTCGTACCAGTGTATCTATCGAGCTAA
*
41888167 ATGCCTAGAAGGCTTTGTACCAGTGTATCTATCGAGCTAA
1 ATGCCTAGAAGGCTTCGTACCAGTGTATCTATCGAGCTAA
41888207 ATGCCTAG
1 ATGCCTAG
41888215 CAAGTTTCGT
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 44 1.00
ACGTcount: A:0.25, C:0.20, G:0.24, T:0.31
Consensus pattern (40 bp):
ATGCCTAGAAGGCTTCGTACCAGTGTATCTATCGAGCTAA
Found at i:41888231 original size:40 final size:42
Alignment explanation
Indices: 41888136--41888262 Score: 151
Period size: 40 Copynumber: 3.2 Consensus size: 42
41888126 CATGCTTAGT
41888136 AGGC-TTCGTGCCAGTGTATCTATCGAGCTAAATGCCTAG-A
1 AGGCTTTCGTGCCAGTGTATCTATCGAGCTAAATGCCTAGCA
*
41888176 AGGCTTT-GTACCAGTGTATCTATCGAGCTAAATGCCTAGCA
1 AGGCTTTCGTGCCAGTGTATCTATCGAGCTAAATGCCTAGCA
* * * *
41888217 A-G-TTTCGTGTCAGTGTA-CTTATCGGGCTTAGTGCCTAGC-
1 AGGCTTTCGTGCCAGTGTATC-TATCGAGCTAAATGCCTAGCA
41888256 AGGCTTT
1 AGGCTTT
41888263 GGACAGGTGT
Statistics
Matches: 75, Mismatches: 6, Indels: 11
0.82 0.07 0.12
Matches are distributed among these distances:
39 5 0.07
40 63 0.84
41 7 0.09
ACGTcount: A:0.22, C:0.21, G:0.25, T:0.31
Consensus pattern (42 bp):
AGGCTTTCGTGCCAGTGTATCTATCGAGCTAAATGCCTAGCA
Found at i:41892776 original size:12 final size:12
Alignment explanation
Indices: 41892754--41892782 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
41892744 ATTAGATTTA
41892754 GTTTT-AATTAG
1 GTTTTAAATTAG
41892765 GTTTTAAATTAG
1 GTTTTAAATTAG
41892777 GTTTTA
1 GTTTTA
41892783 TTTTATTTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 5 0.29
12 12 0.71
ACGTcount: A:0.28, C:0.00, G:0.17, T:0.55
Consensus pattern (12 bp):
GTTTTAAATTAG
Found at i:41894109 original size:14 final size:15
Alignment explanation
Indices: 41894087--41894122 Score: 56
Period size: 14 Copynumber: 2.5 Consensus size: 15
41894077 TACAATGATG
*
41894087 AAATAAAAAAT-TGA
1 AAATTAAAAATGTGA
41894101 AAATTAAAAATGTGA
1 AAATTAAAAATGTGA
41894116 AAATTAA
1 AAATTAA
41894123 TTCTAAAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
14 10 0.50
15 10 0.50
ACGTcount: A:0.67, C:0.00, G:0.08, T:0.25
Consensus pattern (15 bp):
AAATTAAAAATGTGA
Found at i:41894110 original size:15 final size:16
Alignment explanation
Indices: 41894090--41894122 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
41894080 AATGATGAAA
41894090 TAAAAAAT-TGAAAAT
1 TAAAAAATGTGAAAAT
41894105 T-AAAAATGTGAAAAT
1 TAAAAAATGTGAAAAT
41894120 TAA
1 TAA
41894123 TTCTAAAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 3
0.84 0.00 0.16
Matches are distributed among these distances:
14 6 0.38
15 9 0.56
16 1 0.06
ACGTcount: A:0.64, C:0.00, G:0.09, T:0.27
Consensus pattern (16 bp):
TAAAAAATGTGAAAAT
Found at i:41898501 original size:85 final size:85
Alignment explanation
Indices: 41898358--41898533 Score: 325
Period size: 85 Copynumber: 2.1 Consensus size: 85
41898348 GGCCGGCCAT
*
41898358 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
1 GAGCATAGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
41898423 GTAAGGATTAATAAAATAAA
66 GTAAGGATTAATAAAATAAA
*
41898443 GAGCATAGGTGGATAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
1 GAGCATAGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
41898508 GTAAGGATTAATAAAATAAA
66 GTAAGGATTAATAAAATAAA
*
41898528 GGGCAT
1 GAGCAT
41898534 GGGCAATAAA
Statistics
Matches: 88, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
85 88 1.00
ACGTcount: A:0.39, C:0.08, G:0.26, T:0.27
Consensus pattern (85 bp):
GAGCATAGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
GTAAGGATTAATAAAATAAA
Found at i:41900727 original size:47 final size:47
Alignment explanation
Indices: 41900674--41901179 Score: 805
Period size: 47 Copynumber: 10.6 Consensus size: 47
41900664 GTATATTTGA
* * *
41900674 ATGAATGTGAAAGTGTATATATGTAATAAGGCCGAATGGCCAATGTG
1 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTG
41900721 ATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTG
1 ATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTG
*
41900770 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTG
1 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTG
41900817 ATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTG
1 ATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTG
* * *
41900866 ATGAATGTGAAAGTGTATATATGTAATAAGGCCGAATGGCCAATGTG
1 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTG
41900913 ATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTG
1 ATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTG
*
41900962 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTG
1 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTG
*
41901009 ATGAATGTGAAAGTGTATATATGTGATAAAGCCTAATGGCCGATGTG
1 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTG
41901056 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTG
1 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTG
* * * * * *
41901103 ATTAATGTGAAAGTGTATATATGTGATAGGGCCGAGTGGCCAACGTG
1 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTG
* *
41901150 ATGGATGTGAAAGTGTATAAATGTGATAAG
1 ATGAATGTGAAAGTGTATATATGTGATAAG
41901180 TCCCGAAGGG
Statistics
Matches: 428, Mismatches: 25, Indels: 12
0.92 0.05 0.03
Matches are distributed among these distances:
47 294 0.69
49 134 0.31
ACGTcount: A:0.34, C:0.08, G:0.29, T:0.29
Consensus pattern (47 bp):
ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTG
Found at i:41900781 original size:96 final size:96
Alignment explanation
Indices: 41900674--41901179 Score: 831
Period size: 96 Copynumber: 5.3 Consensus size: 96
41900664 GTATATTTGA
* * *
41900674 ATGAATGTGAAAGTGTATATATGTAATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTAT
1 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
41900739 ATATATGTGATAAGGCCTAATGGCCGATGTG
66 ATATATGTGATAAGGCCTAATGGCCGATGTG
*
41900770 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTAT
1 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
41900835 ATATATGTGATAAGGCCTAATGGCCGATGTG
66 ATATATGTGATAAGGCCTAATGGCCGATGTG
* * *
41900866 ATGAATGTGAAAGTGTATATATGTAATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTAT
1 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
41900931 ATATATGTGATAAGGCCTAATGGCCGATGTG
66 ATATATGTGATAAGGCCTAATGGCCGATGTG
*
41900962 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTG--T
1 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
*
41901025 ATATATGTGATAAAGCCTAATGGCCGATGTG
66 ATATATGTGATAAGGCCTAATGGCCGATGTG
*
41901056 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATTAATGTGAAAGTG--T
1 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
* * * * *
41901119 ATATATGTGATAGGGCCGAGTGGCCAACGTG
66 ATATATGTGATAAGGCCTAATGGCCGATGTG
* *
41901150 ATGGATGTGAAAGTGTATAAATGTGATAAG
1 ATGAATGTGAAAGTGTATATATGTGATAAG
41901180 TCCCGAAGGG
Statistics
Matches: 387, Mismatches: 23, Indels: 2
0.94 0.06 0.00
Matches are distributed among these distances:
94 145 0.37
96 242 0.63
ACGTcount: A:0.34, C:0.08, G:0.29, T:0.29
Consensus pattern (96 bp):
ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
ATATATGTGATAAGGCCTAATGGCCGATGTG
Found at i:41908481 original size:28 final size:28
Alignment explanation
Indices: 41908450--41908578 Score: 78
Period size: 33 Copynumber: 4.2 Consensus size: 28
41908440 CCCTTTCTAG
41908450 TATCAGTGTGGGCCTTAGCCCAATACAA
1 TATCAGTGTGGGCCTTAGCCCAATACAA
*
41908478 TATCAGAATAGTGTGGGCCTTAGCCCAATATAA
1 TATC-----AGTGTGGGCCTTAGCCCAATACAA
* * *
41908511 TAACAGAATAGTGCGGGCATTAGCCCAATATAA
1 TATCAG--T-GT--GGGCCTTAGCCCAATACAA
* * * ** *
41908544 TAACATTGTGGGCCTAAGCCCGTTACAG
1 TATCAGTGTGGGCCTTAGCCCAATACAA
41908572 TATCAGT
1 TATCAGT
41908579 ATGGTGCAAA
Statistics
Matches: 79, Mismatches: 12, Indels: 20
0.71 0.11 0.18
Matches are distributed among these distances:
28 24 0.30
30 3 0.04
31 3 0.04
33 49 0.62
ACGTcount: A:0.32, C:0.21, G:0.22, T:0.26
Consensus pattern (28 bp):
TATCAGTGTGGGCCTTAGCCCAATACAA
Found at i:41908496 original size:33 final size:33
Alignment explanation
Indices: 41908454--41908548 Score: 154
Period size: 33 Copynumber: 2.9 Consensus size: 33
41908444 TTCTAGTATC
* *
41908454 AGTGTGGGCCTTAGCCCAATACAATATCAGAAT
1 AGTGTGGGCCTTAGCCCAATATAATAACAGAAT
41908487 AGTGTGGGCCTTAGCCCAATATAATAACAGAAT
1 AGTGTGGGCCTTAGCCCAATATAATAACAGAAT
* *
41908520 AGTGCGGGCATTAGCCCAATATAATAACA
1 AGTGTGGGCCTTAGCCCAATATAATAACA
41908549 TTGTGGGCCT
Statistics
Matches: 58, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 58 1.00
ACGTcount: A:0.36, C:0.20, G:0.21, T:0.23
Consensus pattern (33 bp):
AGTGTGGGCCTTAGCCCAATATAATAACAGAAT
Found at i:41908770 original size:27 final size:28
Alignment explanation
Indices: 41908732--41908791 Score: 81
Period size: 27 Copynumber: 2.2 Consensus size: 28
41908722 AGCTGTCAGT
*
41908732 ACAGT-ATATGTGGCATAGCCACCA-ATA
1 ACAGTAATATGTGGCAGAGCCACCAGA-A
41908759 ACAGTAAT-TGTGGCAGAGCCACCAGAA
1 ACAGTAATATGTGGCAGAGCCACCAGAA
41908786 ACAGTA
1 ACAGTA
41908792 CTTCCTCCAT
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
27 27 0.90
28 3 0.10
ACGTcount: A:0.38, C:0.22, G:0.22, T:0.18
Consensus pattern (28 bp):
ACAGTAATATGTGGCAGAGCCACCAGAA
Found at i:41909010 original size:26 final size:26
Alignment explanation
Indices: 41908976--41909218 Score: 319
Period size: 26 Copynumber: 9.3 Consensus size: 26
41908966 TCCCTATGGT
* *
41908976 GGTATTTCGGTAATTTGCCCATCG-G
1 GGTATTTCGATAATTTACCCATCGAG
* *
41909001 GGATATTTCGATAATTTACCCATTGGG
1 GG-TATTTCGATAATTTACCCATCGAG
41909028 GGTATTTC-AGTAATTTACCCATCGAG
1 GGTATTTCGA-TAATTTACCCATCGAG
* *
41909054 GGTATTTCGATAATTTAACCATTGAG
1 GGTATTTCGATAATTTACCCATCGAG
41909080 GGTATTTCGATAATTTACCCATCGAG
1 GGTATTTCGATAATTTACCCATCGAG
* *
41909106 GGTATTTTGGTAATTTACCCATCGAG
1 GGTATTTCGATAATTTACCCATCGAG
*
41909132 GGTATTTCTATAATTTACCCATCGAG
1 GGTATTTCGATAATTTACCCATCGAG
* * *
41909158 TGTATTTTGATAATTTTCCCATCGAG
1 GGTATTTCGATAATTTACCCATCGAG
* * *
41909184 GGTATTTTGGTAATTTACCCATCGAA
1 GGTATTTCGATAATTTACCCATCGAG
41909210 GGTATTTCG
1 GGTATTTCG
41909219 GTCAACACAA
Statistics
Matches: 191, Mismatches: 23, Indels: 7
0.86 0.10 0.03
Matches are distributed among these distances:
25 3 0.02
26 184 0.96
27 4 0.02
ACGTcount: A:0.25, C:0.16, G:0.21, T:0.38
Consensus pattern (26 bp):
GGTATTTCGATAATTTACCCATCGAG
Found at i:41912176 original size:24 final size:24
Alignment explanation
Indices: 41912140--41912186 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 24
41912130 ATAAAAATGT
* *
41912140 CAATCTCATATACAAAATTAGATG
1 CAATCTCAGATACAAAATCAGATG
* *
41912164 CAATTTCAGATACAGAATCAGAT
1 CAATCTCAGATACAAAATCAGAT
41912187 CCTACCCCCA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.45, C:0.17, G:0.11, T:0.28
Consensus pattern (24 bp):
CAATCTCAGATACAAAATCAGATG
Found at i:41920054 original size:18 final size:18
Alignment explanation
Indices: 41920033--41920075 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
41920023 CCTTAGCTTT
*
41920033 GTCTTCGTCATAGTGTTC
1 GTCTTCATCATAGTGTTC
*
41920051 GTCTTCATTATAGTGTTC
1 GTCTTCATCATAGTGTTC
*
41920069 GCCTTCA
1 GTCTTCA
41920076 GAACAGAGGA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.14, C:0.23, G:0.19, T:0.44
Consensus pattern (18 bp):
GTCTTCATCATAGTGTTC
Found at i:41920694 original size:12 final size:12
Alignment explanation
Indices: 41920669--41920707 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
41920659 ACTCGCTTCT
* *
41920669 TTACTTACTCAC
1 TTACTTGCTTAC
*
41920681 TTACTTGTTTAC
1 TTACTTGCTTAC
41920693 TTACTTGCTTAC
1 TTACTTGCTTAC
41920705 TTA
1 TTA
41920708 AATAACTCAT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.21, C:0.23, G:0.05, T:0.51
Consensus pattern (12 bp):
TTACTTGCTTAC
Found at i:41921032 original size:50 final size:51
Alignment explanation
Indices: 41920906--41921148 Score: 192
Period size: 50 Copynumber: 4.7 Consensus size: 51
41920896 CTAATAATGC
* * * * **
41920906 ATGCCAAAGCTATGTCCCAAACATAGTCTTACATGGGATGTT-TT-T-T-G
1 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTTCTTATCTCG
* * * * *
41920953 TACTGCCAATCCCATATCCCAGATATGGTCTTACATGGGA-GTTCTTATATCG
1 -A-TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTTCTTATCTCG
* *** *
41921005 ATGCCCATGCCATGTCCCAGACATGGTCTTATGGGGGACC-TCTCATCTCG
1 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTTCTTATCTCG
* * * *
41921055 GTGCCAACGCCATGTCCTAGACATGGTCTTACATGGGACCTCTCATAATCTCAATG
1 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCT-TC-TTATCTC---G
*
41921111 ATGCCAATGTCATGTCCCAGACATGGTCTTACATGGGA
1 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA
41921149 TCTCATTCCC
Statistics
Matches: 154, Mismatches: 29, Indels: 16
0.77 0.15 0.08
Matches are distributed among these distances:
48 4 0.03
49 32 0.21
50 72 0.47
51 2 0.01
52 3 0.02
53 6 0.04
56 35 0.23
ACGTcount: A:0.24, C:0.26, G:0.21, T:0.29
Consensus pattern (51 bp):
ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTTCTTATCTCG
Found at i:41924990 original size:18 final size:19
Alignment explanation
Indices: 41924955--41924991 Score: 51
Period size: 18 Copynumber: 2.0 Consensus size: 19
41924945 CATGACATTG
41924955 AATGAAATGTATGTATACA
1 AATGAAATGTATGTATACA
41924974 AATG-AATGT-TGTGATACA
1 AATGAAATGTATGT-ATACA
41924992 TATGCTAGTG
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
17 3 0.18
18 10 0.59
19 4 0.24
ACGTcount: A:0.43, C:0.05, G:0.19, T:0.32
Consensus pattern (19 bp):
AATGAAATGTATGTATACA
Found at i:41926831 original size:16 final size:17
Alignment explanation
Indices: 41926810--41926842 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
41926800 TTGTTTTGTT
41926810 ATATGTTCTG-TATATG
1 ATATGTTCTGATATATG
*
41926826 ATATGTTTTGATATATG
1 ATATGTTCTGATATATG
41926843 CTAAAATATG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.27, C:0.03, G:0.18, T:0.52
Consensus pattern (17 bp):
ATATGTTCTGATATATG
Found at i:41937088 original size:20 final size:20
Alignment explanation
Indices: 41937060--41937097 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
41937050 TACAGACTAA
41937060 AACAAAC-AACACATTTCATC
1 AACAAACAAACA-ATTTCATC
*
41937080 AACACACAAACAATTTCA
1 AACAAACAAACAATTTCA
41937098 CATTCAATTG
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 12 0.75
21 4 0.25
ACGTcount: A:0.53, C:0.29, G:0.00, T:0.18
Consensus pattern (20 bp):
AACAAACAAACAATTTCATC
Found at i:41938253 original size:3 final size:3
Alignment explanation
Indices: 41938232--41938285 Score: 90
Period size: 3 Copynumber: 18.0 Consensus size: 3
41938222 TCTAGATGAT
* *
41938232 AAC AAC AAT AAC AAT AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC
1 AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC
41938280 AAC AAC
1 AAC AAC
41938286 TATATACATG
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
3 47 1.00
ACGTcount: A:0.67, C:0.30, G:0.00, T:0.04
Consensus pattern (3 bp):
AAC
Found at i:41942404 original size:44 final size:44
Alignment explanation
Indices: 41942356--41942477 Score: 124
Period size: 44 Copynumber: 2.8 Consensus size: 44
41942346 ATGATGCTTC
41942356 TGTCCCAGACAGGGTCTTACACGAAATCATATATTCGATGCCAA
1 TGTCCCAGACAGGGTCTTACACGAAATCATATATTCGATGCCAA
* * * *
41942400 TGTCCCAGATATGGTCTTACACATAAATC-TCA-AATCGATGCCAA
1 TGTCCCAGACAGGGTCTTACAC-GAAATCAT-ATATTCGATGCCAA
* * * *
41942444 CGTCCTAGAC-GTGGTCTTACACGATATCACATAT
1 TGTCCCAGACAG-GGTCTTACACGAAATCATATAT
41942478 CAGAATTCCA
Statistics
Matches: 61, Mismatches: 12, Indels: 10
0.73 0.14 0.12
Matches are distributed among these distances:
43 5 0.08
44 50 0.82
45 6 0.10
ACGTcount: A:0.31, C:0.25, G:0.16, T:0.27
Consensus pattern (44 bp):
TGTCCCAGACAGGGTCTTACACGAAATCATATATTCGATGCCAA
Found at i:41945945 original size:139 final size:139
Alignment explanation
Indices: 41945772--41946046 Score: 487
Period size: 139 Copynumber: 2.0 Consensus size: 139
41945762 CGAACTTCAA
* *
41945772 ATACATTTCTCGGAGGCTTCCAATCCAGTATAGCTGAAATCTTGCTCGAATCAACCCGAATACCC
1 ATACATTTCTCAGAGGCTTCCAATCCAGTATAGCTAAAATCTTGCTCGAATCAACCCGAATACCC
*
41945837 GATGCTGATACAACATGTCCCAAAAAACTGACTTCTCGTAACCAAAACTCACATTTACTGAACTT
66 GATGCTGATACAACATGTCCCAAAAAACTGACTTCTCGTAACCAAAACTCACATTTACTAAACTT
41945902 CGCATACGG
131 CGCATACGG
* *
41945911 ATACATTTCTCAGAGGCTTCCAATCTAGTATAGCTAAAATCTTGCTCGGATCAACCCGAATACCC
1 ATACATTTCTCAGAGGCTTCCAATCCAGTATAGCTAAAATCTTGCTCGAATCAACCCGAATACCC
* *
41945976 GATGCTGATACAACATGTCCCAGAAAACTGACTTCTCGTAACCAAAACTTACATTTACTAAACTT
66 GATGCTGATACAACATGTCCCAAAAAACTGACTTCTCGTAACCAAAACTCACATTTACTAAACTT
41946041 CGCATA
131 CGCATA
41946047 TAAATGCTTA
Statistics
Matches: 129, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
139 129 1.00
ACGTcount: A:0.33, C:0.27, G:0.13, T:0.26
Consensus pattern (139 bp):
ATACATTTCTCAGAGGCTTCCAATCCAGTATAGCTAAAATCTTGCTCGAATCAACCCGAATACCC
GATGCTGATACAACATGTCCCAAAAAACTGACTTCTCGTAACCAAAACTCACATTTACTAAACTT
CGCATACGG
Found at i:41950444 original size:44 final size:44
Alignment explanation
Indices: 41950396--41950517 Score: 115
Period size: 44 Copynumber: 2.8 Consensus size: 44
41950386 ATGATGCTTC
41950396 TGTCCCAGACAGGGTCTTACACGAAATCATATATTCGATGCCAA
1 TGTCCCAGACAGGGTCTTACACGAAATCATATATTCGATGCCAA
* * * * *
41950440 TGTCCCAGATATGGTCTTACACATAAATC-TCA-AATCGTTGCCAA
1 TGTCCCAGACAGGGTCTTACAC-GAAATCAT-ATATTCGATGCCAA
* * * *
41950484 CGTCCTAGAC-GTGGTCTTACACGATATCACATAT
1 TGTCCCAGACAG-GGTCTTACACGAAATCATATAT
41950518 CAGAATTCCA
Statistics
Matches: 60, Mismatches: 13, Indels: 10
0.72 0.16 0.12
Matches are distributed among these distances:
43 5 0.08
44 49 0.82
45 6 0.10
ACGTcount: A:0.30, C:0.25, G:0.16, T:0.28
Consensus pattern (44 bp):
TGTCCCAGACAGGGTCTTACACGAAATCATATATTCGATGCCAA
Found at i:41951186 original size:7 final size:8
Alignment explanation
Indices: 41951156--41951188 Score: 57
Period size: 8 Copynumber: 4.0 Consensus size: 8
41951146 CATGAATACA
41951156 TCAACAAAT
1 TCAA-AAAT
41951165 TCAAAAAT
1 TCAAAAAT
41951173 TCAAAAAT
1 TCAAAAAT
41951181 TCAAAAAT
1 TCAAAAAT
41951189 GGGTTAGCTA
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
8 20 0.83
9 4 0.17
ACGTcount: A:0.61, C:0.15, G:0.00, T:0.24
Consensus pattern (8 bp):
TCAAAAAT
Found at i:41952718 original size:359 final size:359
Alignment explanation
Indices: 41952050--41952774 Score: 1227
Period size: 359 Copynumber: 2.0 Consensus size: 359
41952040 ATATCAATAA
* *
41952050 TCATATTAGTATCAATTAAAAACATAAATATTGTCCCTTATACGAGCCCTTGAGGCCCTAAATAT
1 TCAT-TTAATATCAATTAAAAACATAAATATTCTCCCTTATACGAGCCCTTGAGGCCCTAAATAT
41952115 GCGTTAGAAACAAGTCAAGACTAAATCAAAAACTCAGAGAATTTTTTAGAAAACAATAAAAATTT
65 GCGTTAGAAACAAGTCAAGACTAAATCAAAAACTCAGAGAATTTTTTAGAAAACAATAAAAATTT
* *
41952180 TAAACACTGCAGTGGTCACACACCGTGTGGGCATTCGAAGTACGAACACATGGCCATGTCCGTGC
130 TAAACACTGCAGTGGTCACACACCGTGTGGGCATTCAAAGTACGAACACAAGGCCATGTCCGTGC
*
41952245 CCGTGTAACTCACTGACTTGGGCCACACGACCAAGCCACATGCCCGTGTGTCAGGCTGTGTACCC
195 CCGTGTAACTCACTGACTTGGGCCACACGACCAAGCCACATGCCCGTGTGTCAGGCCGTGTACCC
* *
41952310 TTCAAAATAACATCACACGCCCATGTACCAGGCTATGTGCTAGGCCATGTAACAGACTAACTTGC
260 TTCAAAAAAACATCACACGCCCATGTACCAGGCCATGTGCTAGGCCATGTAACAGACTAACTTGC
*
41952375 AACCCTTTGAAAGCTACAGGGGACACACGACCGTG
325 AACCCTTTGAAAGCTACAGGGGACACACGACCATG
41952410 TCATTTAATATCAATTAAAAACATAAATATTCTCCCTTATACGAGCCCTTGAGGCCCTAAATATG
1 TCATTTAATATCAATTAAAAACATAAATATTCTCCCTTATACGAGCCCTTGAGGCCCTAAATATG
* *
41952475 CGTTAGAAACAAGTCGAGACTAAATCAAAAACTTAGAGAATTTTTTAGAAAACAATAAAAATTTT
66 CGTTAGAAACAAGTCAAGACTAAATCAAAAACTCAGAGAATTTTTTAGAAAACAATAAAAATTTT
* * * * * *
41952540 CAACACTGTAG-GGATCACACGCCGTGTGGGCATTCAAAGTAGGGACACAAGGCCATGTCTGTGC
131 AAACACTGCAGTGG-TCACACACCGTGTGGGCATTCAAAGTACGAACACAAGGCCATGTCCGTGC
* * *
41952604 CCGTGTAACTTACTGACTTGGGCCACACGGCCAAGCCATATGCCCGTGTGTCAGGCCGTGTACCC
195 CCGTGTAACTCACTGACTTGGGCCACACGACCAAGCCACATGCCCGTGTGTCAGGCCGTGTACCC
* * *
41952669 TTCAAAAAAACCTCACACGCCCATGTACCAGGCCATGTGCTAGGCCATGTAATAGACTAACTTGT
260 TTCAAAAAAACATCACACGCCCATGTACCAGGCCATGTGCTAGGCCATGTAACAGACTAACTTGC
41952734 AACCCTTTGAAAGCTACAGGGGACACACGACCATG
325 AACCCTTTGAAAGCTACAGGGGACACACGACCATG
41952769 TCATTT
1 TCATTT
41952775 GGCCGTGTGT
Statistics
Matches: 342, Mismatches: 22, Indels: 3
0.93 0.06 0.01
Matches are distributed among these distances:
358 2 0.01
359 336 0.98
360 4 0.01
ACGTcount: A:0.33, C:0.25, G:0.19, T:0.24
Consensus pattern (359 bp):
TCATTTAATATCAATTAAAAACATAAATATTCTCCCTTATACGAGCCCTTGAGGCCCTAAATATG
CGTTAGAAACAAGTCAAGACTAAATCAAAAACTCAGAGAATTTTTTAGAAAACAATAAAAATTTT
AAACACTGCAGTGGTCACACACCGTGTGGGCATTCAAAGTACGAACACAAGGCCATGTCCGTGCC
CGTGTAACTCACTGACTTGGGCCACACGACCAAGCCACATGCCCGTGTGTCAGGCCGTGTACCCT
TCAAAAAAACATCACACGCCCATGTACCAGGCCATGTGCTAGGCCATGTAACAGACTAACTTGCA
ACCCTTTGAAAGCTACAGGGGACACACGACCATG
Found at i:41953954 original size:25 final size:24
Alignment explanation
Indices: 41953915--41953999 Score: 66
Period size: 25 Copynumber: 3.4 Consensus size: 24
41953905 TCCTGTACCT
41953915 GTATGCTCA-TACGAGCTATGAATCG
1 GTATGCTCACT-CGAGCT-TGAATCG
41953940 GTATGCTCACTCGAG-TTGTAGATCG
1 GTATGCTCACTCGAGCTTG-A-ATCG
** * * *
41953965 GTATGCTTTCACGAGCTGTAAATCT
1 GTATGCTCACTCGAGCT-TGAATCG
41953990 GTATGCTCAC
1 GTATGCTCAC
41954000 ATGAGTTGTG
Statistics
Matches: 48, Mismatches: 7, Indels: 10
0.74 0.11 0.15
Matches are distributed among these distances:
23 2 0.04
24 2 0.04
25 40 0.83
26 3 0.06
27 1 0.02
ACGTcount: A:0.24, C:0.21, G:0.24, T:0.32
Consensus pattern (24 bp):
GTATGCTCACTCGAGCTTGAATCG
Found at i:41954446 original size:16 final size:17
Alignment explanation
Indices: 41954425--41954456 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
41954415 CAATGTAGCC
41954425 CAAAATTAT-ATTTTGG
1 CAAAATTATCATTTTGG
41954441 CAAAATTATCATTTTG
1 CAAAATTATCATTTTG
41954457 CCCCTATACT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.38, C:0.09, G:0.09, T:0.44
Consensus pattern (17 bp):
CAAAATTATCATTTTGG
Found at i:41970684 original size:22 final size:22
Alignment explanation
Indices: 41970658--41970730 Score: 71
Period size: 22 Copynumber: 3.4 Consensus size: 22
41970648 GTACCTTTGC
*
41970658 AGAAGTACAATTACTTCATGGG
1 AGAAGTACAAATACTTCATGGG
** *
41970680 AGAAGTACAGGTACCTC-T-GG
1 AGAAGTACAAATACTTCATGGG
*
41970700 AGAAGTATAAATACTT-ATTGGG
1 AGAAGTACAAATACTTCA-TGGG
41970722 AGAAGTACA
1 AGAAGTACA
41970731 GGTACCTCTT
Statistics
Matches: 40, Mismatches: 8, Indels: 6
0.74 0.15 0.11
Matches are distributed among these distances:
20 14 0.35
21 2 0.05
22 24 0.60
ACGTcount: A:0.38, C:0.12, G:0.25, T:0.25
Consensus pattern (22 bp):
AGAAGTACAAATACTTCATGGG
Found at i:41970703 original size:20 final size:20
Alignment explanation
Indices: 41970678--41970749 Score: 72
Period size: 20 Copynumber: 3.5 Consensus size: 20
41970668 TTACTTCATG
41970678 GGAGAAGTACAGGTACCTCT
1 GGAGAAGTACAGGTACCTCT
* ** * *
41970698 GGAGAAGTATAAATACTTATT
1 GGAGAAGTACAGGTACCT-CT
41970719 GGGAGAAGTACAGGTACCTCT
1 -GGAGAAGTACAGGTACCTCT
*
41970740 TGAGAAGTAC
1 GGAGAAGTAC
41970750 TGGTGCAAGT
Statistics
Matches: 39, Mismatches: 11, Indels: 4
0.72 0.20 0.07
Matches are distributed among these distances:
20 23 0.59
21 2 0.05
22 14 0.36
ACGTcount: A:0.35, C:0.14, G:0.28, T:0.24
Consensus pattern (20 bp):
GGAGAAGTACAGGTACCTCT
Found at i:41970704 original size:42 final size:42
Alignment explanation
Indices: 41970642--41970749 Score: 146
Period size: 42 Copynumber: 2.6 Consensus size: 42
41970632 TGGAACAATG
* * * *
41970642 GTACATGTACCTTTGCAGAAGTACAATTACTTCA-TGGGAGAA
1 GTACAGGTACCTCTGGAGAAGTACAAATACTT-ATTGGGAGAA
*
41970684 GTACAGGTACCTCTGGAGAAGTATAAATACTTATTGGGAGAA
1 GTACAGGTACCTCTGGAGAAGTACAAATACTTATTGGGAGAA
*
41970726 GTACAGGTACCTCTTGAGAAGTAC
1 GTACAGGTACCTCTGGAGAAGTAC
41970750 TGGTGCAAGT
Statistics
Matches: 58, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
41 1 0.02
42 57 0.98
ACGTcount: A:0.33, C:0.16, G:0.24, T:0.27
Consensus pattern (42 bp):
GTACAGGTACCTCTGGAGAAGTACAAATACTTATTGGGAGAA
Found at i:41974006 original size:29 final size:29
Alignment explanation
Indices: 41973924--41974044 Score: 125
Period size: 29 Copynumber: 4.1 Consensus size: 29
41973914 GTATCGATAC
** *
41973924 CCATCGAATATGAAAAGGGATGGTGACGA
1 CCATCGAATATGAAAAGGGATGGTTTCAA
*
41973953 CCATCGAATATGAAAGGGGATGGTTTCAA
1 CCATCGAATATGAAAAGGGATGGTTTCAA
* * *
41973982 CCATTGAATATGAAAAGAGATGGTTTCGA
1 CCATCGAATATGAAAAGGGATGGTTTCAA
* * * * *
41974011 TCATCGATTAAAGAAAATGGATGGTTTCGA
1 CCATCGAAT-ATGAAAAGGGATGGTTTCAA
41974041 CCAT
1 CCAT
41974045 AATTTAGCAC
Statistics
Matches: 76, Mismatches: 15, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
29 56 0.74
30 20 0.26
ACGTcount: A:0.36, C:0.13, G:0.26, T:0.25
Consensus pattern (29 bp):
CCATCGAATATGAAAAGGGATGGTTTCAA
Found at i:41982415 original size:20 final size:19
Alignment explanation
Indices: 41982385--41982436 Score: 68
Period size: 20 Copynumber: 2.6 Consensus size: 19
41982375 TTGGCGCGGG
* *
41982385 AATATCAATACCTTAGGAA
1 AATATCGATACCTTAAGAA
41982404 ATATATCGATACCTTAAGAA
1 A-ATATCGATACCTTAAGAA
41982424 AAGTATCGATACC
1 AA-TATCGATACC
41982437 GGATCGATAC
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
19 2 0.07
20 27 0.93
ACGTcount: A:0.44, C:0.17, G:0.12, T:0.27
Consensus pattern (19 bp):
AATATCGATACCTTAAGAA
Found at i:41984283 original size:20 final size:21
Alignment explanation
Indices: 41984258--41984297 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 21
41984248 TGGAGCAAGA
41984258 ATATCGATACCTT-AGAAAAT
1 ATATCGATACCTTAAGAAAAT
41984278 ATATCGATACCTTAAGAAAA
1 ATATCGATACCTTAAGAAAA
41984298 GTATCAATAC
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 13 0.68
21 6 0.32
ACGTcount: A:0.47, C:0.15, G:0.10, T:0.28
Consensus pattern (21 bp):
ATATCGATACCTTAAGAAAAT
Found at i:41989363 original size:15 final size:15
Alignment explanation
Indices: 41989327--41989373 Score: 58
Period size: 15 Copynumber: 3.1 Consensus size: 15
41989317 ATTTAATAAG
*
41989327 TTGAAAAATTAAGTG
1 TTGAAAAATTAAGTA
* *
41989342 TTAAAAAAATAAGTA
1 TTGAAAAATTAAGTA
*
41989357 TTGAAAATTTAAGTA
1 TTGAAAAATTAAGTA
41989372 TT
1 TT
41989374 AAACTTAAGT
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
15 26 1.00
ACGTcount: A:0.51, C:0.00, G:0.13, T:0.36
Consensus pattern (15 bp):
TTGAAAAATTAAGTA
Found at i:41991132 original size:17 final size:18
Alignment explanation
Indices: 41991102--41991135 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
41991092 TCAATTGAAA
41991102 ATTTAATATTTTCAATTG
1 ATTTAATATTTTCAATTG
41991120 ATTTAAT-TTTTCAATT
1 ATTTAATATTTTCAATT
41991136 TCTTTGATAG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.32, C:0.06, G:0.03, T:0.59
Consensus pattern (18 bp):
ATTTAATATTTTCAATTG
Found at i:41991190 original size:27 final size:28
Alignment explanation
Indices: 41991149--41991236 Score: 90
Period size: 29 Copynumber: 3.1 Consensus size: 28
41991139 TTGATAGATT
*
41991149 AAAAAATTAAGTGTTGAAAA-AAATA-A
1 AAAAAAATAAGTGTTGAAAATAAATATA
*
41991175 AAAATAAATAAGTGTTGAAAATTAAATATT
1 AAAA-AAATAAGTGTTGAAAA-TAAATATA
* * *
41991205 AAAAAATTAAGTGTTGAATATAAGTTATA
1 AAAAAAATAAGTGTTGAAAATAA-ATATA
41991234 AAA
1 AAA
41991237 TATGTTTGGT
Statistics
Matches: 51, Mismatches: 6, Indels: 7
0.80 0.09 0.11
Matches are distributed among these distances:
26 4 0.08
27 15 0.29
28 3 0.06
29 25 0.49
30 4 0.08
ACGTcount: A:0.59, C:0.00, G:0.11, T:0.30
Consensus pattern (28 bp):
AAAAAAATAAGTGTTGAAAATAAATATA
Found at i:41991215 original size:29 final size:27
Alignment explanation
Indices: 41991146--41991222 Score: 102
Period size: 29 Copynumber: 2.8 Consensus size: 27
41991136 TCTTTGATAG
41991146 ATTAAAAAATTAAGTGTTGAAAAAAAT
1 ATTAAAAAATTAAGTGTTGAAAAAAAT
* *
41991173 A-AAAAATAAATAAGTGTTGAAAATTAAAT
1 ATTAAAA-AATTAAGTGTTGAAAA--AAAT
41991202 ATTAAAAAATTAAGTGTTGAA
1 ATTAAAAAATTAAGTGTTGAA
41991223 TATAAGTTAT
Statistics
Matches: 42, Mismatches: 4, Indels: 6
0.81 0.08 0.12
Matches are distributed among these distances:
26 4 0.10
27 16 0.38
29 18 0.43
30 4 0.10
ACGTcount: A:0.58, C:0.00, G:0.12, T:0.30
Consensus pattern (27 bp):
ATTAAAAAATTAAGTGTTGAAAAAAAT
Found at i:41994744 original size:27 final size:27
Alignment explanation
Indices: 41994703--41994755 Score: 79
Period size: 27 Copynumber: 2.0 Consensus size: 27
41994693 CTGTACATGT
* *
41994703 ATGCTCATACGAGCTATGAAAATGGGC
1 ATGCTCACACAAGCTATGAAAATGGGC
*
41994730 ATGCTCACACAAGCTGTGAAAATGGG
1 ATGCTCACACAAGCTATGAAAATGGG
41994756 TCTACTTACA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.34, C:0.19, G:0.26, T:0.21
Consensus pattern (27 bp):
ATGCTCACACAAGCTATGAAAATGGGC
Found at i:41995507 original size:27 final size:27
Alignment explanation
Indices: 41995449--41995501 Score: 81
Period size: 27 Copynumber: 2.0 Consensus size: 27
41995439 TTGTACATGT
41995449 ATGCTCACACGATGTGTGAAAATGGGC
1 ATGCTCACACGATGTGTGAAAATGGGC
*
41995476 ATGCTCACATGA-GTTGTGAAAATGGG
1 ATGCTCACACGATG-TGTGAAAATGGG
41995502 TCTGCTTACA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
26 1 0.04
27 23 0.96
ACGTcount: A:0.30, C:0.15, G:0.30, T:0.25
Consensus pattern (27 bp):
ATGCTCACACGATGTGTGAAAATGGGC
Found at i:41995520 original size:27 final size:27
Alignment explanation
Indices: 41995449--41995521 Score: 69
Period size: 27 Copynumber: 2.7 Consensus size: 27
41995439 TTGTACATGT
*
41995449 ATGCTCACACGATG-TGTGAAAATGGGC
1 ATGCTCACAC-AAGCTGTGAAAATGGGC
** *
41995476 ATGCTCACATGAGTTGTGAAAATGGGTC
1 ATGCTCACACAAGCTGTGAAAATGGG-C
*
41995504 -TGCTTACACAAGCTGTGA
1 ATGCTCACACAAGCTGTGA
41995522 GTCGAAATGT
Statistics
Matches: 37, Mismatches: 7, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
26 1 0.03
27 35 0.95
28 1 0.03
ACGTcount: A:0.29, C:0.18, G:0.27, T:0.26
Consensus pattern (27 bp):
ATGCTCACACAAGCTGTGAAAATGGGC
Found at i:41999459 original size:27 final size:27
Alignment explanation
Indices: 41999414--41999465 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 27
41999404 CTGCTGGCGA
* * *
41999414 ACACCAACTTGTCAGACCTACTGGCAC
1 ACACCAACTCGCCAAACCTACTGGCAC
*
41999441 ACACCAACTCGCCAAACCTATTGGC
1 ACACCAACTCGCCAAACCTACTGGC
41999466 GATCACATTT
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:0.31, C:0.38, G:0.13, T:0.17
Consensus pattern (27 bp):
ACACCAACTCGCCAAACCTACTGGCAC
Found at i:42000455 original size:17 final size:16
Alignment explanation
Indices: 42000417--42000459 Score: 50
Period size: 17 Copynumber: 2.6 Consensus size: 16
42000407 TGTTATAAGT
*
42000417 TAATAATTAAAATAAA
1 TAATAAATAAAATAAA
*
42000433 TGAATAAATAAAACTTAA
1 T-AATAAATAAAA-TAAA
42000451 TAATAAATA
1 TAATAAATA
42000460 TGATAAAAAC
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
16 1 0.04
17 18 0.78
18 4 0.17
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.30
Consensus pattern (16 bp):
TAATAAATAAAATAAA
Found at i:42006277 original size:23 final size:23
Alignment explanation
Indices: 42006249--42006295 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
42006239 CTTGATCTAA
42006249 ACATTTTCAAATTTAGCCTTTTT
1 ACATTTTCAAATTTAGCCTTTTT
42006272 ACATTTTCAAATTTAGCCTTTTT
1 ACATTTTCAAATTTAGCCTTTTT
42006295 A
1 A
42006296 TTCATCAAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.28, C:0.17, G:0.04, T:0.51
Consensus pattern (23 bp):
ACATTTTCAAATTTAGCCTTTTT
Found at i:42006303 original size:22 final size:22
Alignment explanation
Indices: 42006255--42006305 Score: 68
Period size: 23 Copynumber: 2.3 Consensus size: 22
42006245 CTAAACATTT
*
42006255 TCAAATTTAGCCTTTTTACATTT
1 TCAAATTTAGCCTTTTTA-ATTA
42006278 TCAAATTTAGCCTTTTT-ATTCA
1 TCAAATTTAGCCTTTTTAATT-A
42006300 TCAAAT
1 TCAAAT
42006306 CATTCAATTA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
21 3 0.12
22 6 0.23
23 17 0.65
ACGTcount: A:0.29, C:0.18, G:0.04, T:0.49
Consensus pattern (22 bp):
TCAAATTTAGCCTTTTTAATTA
Found at i:42009266 original size:27 final size:26
Alignment explanation
Indices: 42009235--42009412 Score: 169
Period size: 27 Copynumber: 6.6 Consensus size: 26
42009225 TAAATTGTAC
42009235 AGCACTAAGTGTGCGATTCGACTATGT
1 AGCACTAAGTGTGCGATT-GACTATGT
* * *
42009262 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCG-ATTGACTATGT
* *
42009288 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCG-ATTGACTATGT
*
42009316 GGCACTAAGTGTGCGAGTCTGACTATGT
1 AGCACTAAGTGTGCGA-T-TGACTATGT
* *
42009344 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGA-TTGACTATGT
* * *
42009371 GGCACTAAGTGTGCGAGTTGAATATAT
1 AGCACTAAGTGTGCGA-TTGACTATGT
*
42009398 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
42009413 GGCTCAATAT
Statistics
Matches: 125, Mismatches: 21, Indels: 10
0.80 0.13 0.06
Matches are distributed among these distances:
26 1 0.01
27 99 0.79
28 25 0.20
ACGTcount: A:0.27, C:0.16, G:0.29, T:0.28
Consensus pattern (26 bp):
AGCACTAAGTGTGCGATTGACTATGT
Found at i:42009351 original size:82 final size:81
Alignment explanation
Indices: 42009236--42009391 Score: 224
Period size: 82 Copynumber: 1.9 Consensus size: 81
42009226 AAATTGTACA
* * *
42009236 GCACTAAGTGTGCGATTCGACTATGTTGCACTAAGTGTGCGAAATGAATATGAT-GCACTAAGTG
1 GCACTAAGTGTGCGAGTCGACTATGTAGCACTAAGTGTGCGAAATGAATACG-TGGCACTAAGTG
42009300 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
42009317 GCACTAAGTGTGCGAGTCTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTGGCACTAAGTG
1 GCACTAAGTGTGCGAGTC-GACTATGTAGCACTAAGTGTGCGAAATGAATACGTGGCACTAAGTG
*
42009382 TGCGAGTTGA
65 TGCGAATTGA
42009392 ATATATAGCA
Statistics
Matches: 66, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
81 18 0.27
82 48 0.73
ACGTcount: A:0.26, C:0.17, G:0.29, T:0.28
Consensus pattern (81 bp):
GCACTAAGTGTGCGAGTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGTGGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:42009403 original size:82 final size:81
Alignment explanation
Indices: 42009232--42009412 Score: 220
Period size: 82 Copynumber: 2.2 Consensus size: 81
42009222 GATTAAATTG
* * *
42009232 TACAGCACTAAGTGTGCGATTCGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGAGTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
*
42009297 GTGTGCGAATTGACCA
66 GTGTGCGAATTGAACA
* * ** *
42009313 TGCGGCACTAAGTGTGCGAGTCTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TGGCACT
1 TACAGCACTAAGTGTGCGAGTC-GACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* *
42009377 AAGTGTGCGAGTTGAATA
64 AAGTGTGCGAATTGAACA
* *
42009395 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
42009413 GGCTCAATAT
Statistics
Matches: 83, Mismatches: 15, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
81 20 0.24
82 63 0.76
ACGTcount: A:0.27, C:0.17, G:0.28, T:0.28
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGAGTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGAACA
Found at i:42009421 original size:27 final size:27
Alignment explanation
Indices: 42009317--42009423 Score: 79
Period size: 27 Copynumber: 3.9 Consensus size: 27
42009307 TGACCATGCG
* * *
42009317 GCACTAAGTGTGCGAGTCTGACTATGTA
1 GCACTAAGTGTGCGAG-CTCAATATATA
** * * ** *
42009345 GCACTAAGTGTGCGATTTGATTACGTG
1 GCACTAAGTGTGCGAGCTCAATATATA
* *
42009372 GCACTAAGTGTGCGAGTTGAATATATA
1 GCACTAAGTGTGCGAGCTCAATATATA
* *
42009399 GCACTGAGTGTGCGGGCTCAATATA
1 GCACTAAGTGTGCGAGCTCAATATA
42009424 CATTCGTGAA
Statistics
Matches: 65, Mismatches: 14, Indels: 1
0.81 0.17 0.01
Matches are distributed among these distances:
27 50 0.77
28 15 0.23
ACGTcount: A:0.26, C:0.16, G:0.29, T:0.29
Consensus pattern (27 bp):
GCACTAAGTGTGCGAGCTCAATATATA
Found at i:42017395 original size:27 final size:26
Alignment explanation
Indices: 42017364--42017541 Score: 169
Period size: 27 Copynumber: 6.6 Consensus size: 26
42017354 TAAATTGTAC
42017364 AGCACTAAGTGTGCGATTCGACTATGT
1 AGCACTAAGTGTGCGATT-GACTATGT
* * *
42017391 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCG-ATTGACTATGT
* *
42017417 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCG-ATTGACTATGT
*
42017445 GGCACTAAGTGTGCGAGTCTGACTATGT
1 AGCACTAAGTGTGCGA-T-TGACTATGT
* *
42017473 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGA-TTGACTATGT
* * *
42017500 GGCACTAAGTGTGCGAGTTGAATATAT
1 AGCACTAAGTGTGCGA-TTGACTATGT
*
42017527 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
42017542 GGCTCAATAT
Statistics
Matches: 125, Mismatches: 21, Indels: 10
0.80 0.13 0.06
Matches are distributed among these distances:
26 1 0.01
27 99 0.79
28 25 0.20
ACGTcount: A:0.27, C:0.16, G:0.29, T:0.28
Consensus pattern (26 bp):
AGCACTAAGTGTGCGATTGACTATGT
Found at i:42017480 original size:82 final size:81
Alignment explanation
Indices: 42017365--42017520 Score: 224
Period size: 82 Copynumber: 1.9 Consensus size: 81
42017355 AAATTGTACA
* * *
42017365 GCACTAAGTGTGCGATTCGACTATGTTGCACTAAGTGTGCGAAATGAATATGAT-GCACTAAGTG
1 GCACTAAGTGTGCGAGTCGACTATGTAGCACTAAGTGTGCGAAATGAATACG-TGGCACTAAGTG
42017429 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
42017446 GCACTAAGTGTGCGAGTCTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTGGCACTAAGTG
1 GCACTAAGTGTGCGAGTC-GACTATGTAGCACTAAGTGTGCGAAATGAATACGTGGCACTAAGTG
*
42017511 TGCGAGTTGA
65 TGCGAATTGA
42017521 ATATATAGCA
Statistics
Matches: 66, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
81 18 0.27
82 48 0.73
ACGTcount: A:0.26, C:0.17, G:0.29, T:0.28
Consensus pattern (81 bp):
GCACTAAGTGTGCGAGTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGTGGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:42017532 original size:82 final size:81
Alignment explanation
Indices: 42017361--42017541 Score: 220
Period size: 82 Copynumber: 2.2 Consensus size: 81
42017351 GATTAAATTG
* * *
42017361 TACAGCACTAAGTGTGCGATTCGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGAGTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
*
42017426 GTGTGCGAATTGACCA
66 GTGTGCGAATTGAACA
* * ** *
42017442 TGCGGCACTAAGTGTGCGAGTCTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TGGCACT
1 TACAGCACTAAGTGTGCGAGTC-GACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* *
42017506 AAGTGTGCGAGTTGAATA
64 AAGTGTGCGAATTGAACA
* *
42017524 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
42017542 GGCTCAATAT
Statistics
Matches: 83, Mismatches: 15, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
81 20 0.24
82 63 0.76
ACGTcount: A:0.27, C:0.17, G:0.28, T:0.28
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGAGTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGAACA
Found at i:42017550 original size:27 final size:27
Alignment explanation
Indices: 42017446--42017552 Score: 79
Period size: 27 Copynumber: 3.9 Consensus size: 27
42017436 TGACCATGCG
* * *
42017446 GCACTAAGTGTGCGAGTCTGACTATGTA
1 GCACTAAGTGTGCGAG-CTCAATATATA
** * * ** *
42017474 GCACTAAGTGTGCGATTTGATTACGTG
1 GCACTAAGTGTGCGAGCTCAATATATA
* *
42017501 GCACTAAGTGTGCGAGTTGAATATATA
1 GCACTAAGTGTGCGAGCTCAATATATA
* *
42017528 GCACTGAGTGTGCGGGCTCAATATA
1 GCACTAAGTGTGCGAGCTCAATATA
42017553 CATTCGTGAA
Statistics
Matches: 65, Mismatches: 14, Indels: 1
0.81 0.17 0.01
Matches are distributed among these distances:
27 50 0.77
28 15 0.23
ACGTcount: A:0.26, C:0.16, G:0.29, T:0.29
Consensus pattern (27 bp):
GCACTAAGTGTGCGAGCTCAATATATA
Found at i:42028526 original size:16 final size:18
Alignment explanation
Indices: 42028505--42028541 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
42028495 TTGTCATCTC
42028505 CTTTTTC-TTT-ATTTTT
1 CTTTTTCTTTTAATTTTT
42028521 CTTTTTCTTTTAATTTTT
1 CTTTTTCTTTTAATTTTT
42028539 CTT
1 CTT
42028542 CATTCTAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 7 0.37
17 3 0.16
18 9 0.47
ACGTcount: A:0.08, C:0.14, G:0.00, T:0.78
Consensus pattern (18 bp):
CTTTTTCTTTTAATTTTT
Found at i:42029904 original size:32 final size:28
Alignment explanation
Indices: 42029839--42029905 Score: 91
Period size: 28 Copynumber: 2.4 Consensus size: 28
42029829 TGATGTGTAG
*
42029839 GGTTGGTTGGGCATTAAATGCCCTTAAC
1 GGTTGGTTGGGCATTAAACGCCCTTAAC
* *
42029867 GGTTGGTTGGGCATTGAACGCCTTTAAC
1 GGTTGGTTGGGCATTAAACGCCCTTAAC
42029895 GG-TGTGTTGGG
1 GGTTG-GTTGGG
42029906 ATGGCCGAAG
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
27 2 0.06
28 33 0.94
ACGTcount: A:0.16, C:0.15, G:0.36, T:0.33
Consensus pattern (28 bp):
GGTTGGTTGGGCATTAAACGCCCTTAAC
Found at i:42030057 original size:103 final size:103
Alignment explanation
Indices: 42029877--42030082 Score: 385
Period size: 103 Copynumber: 2.0 Consensus size: 103
42029867 GGTTGGTTGG
* *
42029877 GCATTGAACGCCTTTAACGGTGTGTTGGGATGGCCGAAGACGGTGTGTAGCGAATAGGGGTAGGA
1 GCATTGAACGCCCTTAACGGTGTGTTGGGATGGCCGAAGACGGTGTGCAGCGAATAGGGGTAGGA
*
42029942 ATATTTGTATCTGAATCTGACATGTTCTGTATATGAAA
66 ATATTTGCATCTGAATCTGACATGTTCTGTATATGAAA
42029980 GCATTGAACGCCCTTAACGGTGTGTTGGGATGGCCGAAGACGGTGTGCAGCGAATAGGGGTAGGA
1 GCATTGAACGCCCTTAACGGTGTGTTGGGATGGCCGAAGACGGTGTGCAGCGAATAGGGGTAGGA
42030045 ATATTTGCATCTGAATCTGACATGTTCTGTATATGAAA
66 ATATTTGCATCTGAATCTGACATGTTCTGTATATGAAA
42030083 CTGAAATCGC
Statistics
Matches: 100, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
103 100 1.00
ACGTcount: A:0.26, C:0.14, G:0.31, T:0.29
Consensus pattern (103 bp):
GCATTGAACGCCCTTAACGGTGTGTTGGGATGGCCGAAGACGGTGTGCAGCGAATAGGGGTAGGA
ATATTTGCATCTGAATCTGACATGTTCTGTATATGAAA
Found at i:42031611 original size:20 final size:19
Alignment explanation
Indices: 42031565--42031604 Score: 64
Period size: 19 Copynumber: 2.1 Consensus size: 19
42031555 TAGCGTGACT
42031565 TTTAATAATTTTTATCAAC
1 TTTAATAATTTTTATCAAC
42031584 TTTAATAAGTTTTTAT-AAC
1 TTTAATAA-TTTTTATCAAC
42031603 TT
1 TT
42031605 ATTATAATTA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
19 13 0.65
20 7 0.35
ACGTcount: A:0.35, C:0.07, G:0.03, T:0.55
Consensus pattern (19 bp):
TTTAATAATTTTTATCAAC
Found at i:42031809 original size:78 final size:78
Alignment explanation
Indices: 42031654--42031807 Score: 276
Period size: 78 Copynumber: 2.0 Consensus size: 78
42031644 TTTTCCATAT
42031654 GTTTTATTTTGTTCAAGTTCATTCTAGATGTGATTTTTTAAAAATAATTATTTTTTATAATTTTT
1 GTTTTATTTTGTTCAAGTTCATTCTAGATGTGATTTTTTAAAAATAATTATTTTTTATAATTTTT
42031719 ATTTTTTAAAAAA
66 ATTTTTTAAAAAA
* *
42031732 GTTTTATTTTGTTTAAGTTCATTCTAGATGTGATTTTTT-AAAATAATTA-TTTTTATGATTTTT
1 GTTTTATTTTGTTCAAGTTCATTCTAGATGTGATTTTTTAAAAATAATTATTTTTTATAATTTTT
42031795 ATTTTTTAAAAAA
66 ATTTTTTAAAAAA
42031808 AATATTTGTT
Statistics
Matches: 74, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
76 26 0.35
77 10 0.14
78 38 0.51
ACGTcount: A:0.31, C:0.03, G:0.08, T:0.57
Consensus pattern (78 bp):
GTTTTATTTTGTTCAAGTTCATTCTAGATGTGATTTTTTAAAAATAATTATTTTTTATAATTTTT
ATTTTTTAAAAAA
Found at i:42039270 original size:38 final size:38
Alignment explanation
Indices: 42039047--42039263 Score: 274
Period size: 38 Copynumber: 5.7 Consensus size: 38
42039037 ATTGTAATGT
* * *
42039047 TATTCGAGCTATGTGCCTAGCGGGCTTTGTGCTAGTGA
1 TATTCGAGCTCTGTGCCTAGCAGGCTTTGTGCTGGTGA
* *
42039085 TATTC-AGGCTCTGTGCCTTGTAGGCTTTGTGCTGGTGA
1 TATTCGA-GCTCTGTGCCTAGCAGGCTTTGTGCTGGTGA
* *
42039123 TATTCGAGCTCTGTGCCTAGCAAGCTATGTGCTGGTGA
1 TATTCGAGCTCTGTGCCTAGCAGGCTTTGTGCTGGTGA
* * * *
42039161 TATTCGAGCTCTATGCCTAGCAAGCTTTGTGCAGGTGT
1 TATTCGAGCTCTGTGCCTAGCAGGCTTTGTGCTGGTGA
* * * *
42039199 TATTCGGGCTTTGTGCCTAGCAGGCTTTGTGCCGGTGT
1 TATTCGAGCTCTGTGCCTAGCAGGCTTTGTGCTGGTGA
*
42039237 TATTCGAGCTCCGTGCCTAGCAGGCTT
1 TATTCGAGCTCTGTGCCTAGCAGGCTT
42039264 CATGCCGATG
Statistics
Matches: 156, Mismatches: 21, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
37 1 0.01
38 154 0.99
39 1 0.01
ACGTcount: A:0.14, C:0.21, G:0.30, T:0.35
Consensus pattern (38 bp):
TATTCGAGCTCTGTGCCTAGCAGGCTTTGTGCTGGTGA
Found at i:42046044 original size:27 final size:27
Alignment explanation
Indices: 42046014--42046067 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
42046004 GTACATATAT
42046014 AAACATCCATATCAAAGCAAACTTTGA
1 AAACATCCATATCAAAGCAAACTTTGA
42046041 AAACATCCATATCAAAGCAAACTTTGA
1 AAACATCCATATCAAAGCAAACTTTGA
42046068 GAGATGATCA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.48, C:0.22, G:0.07, T:0.22
Consensus pattern (27 bp):
AAACATCCATATCAAAGCAAACTTTGA
Found at i:42047014 original size:43 final size:43
Alignment explanation
Indices: 42046953--42047040 Score: 176
Period size: 43 Copynumber: 2.0 Consensus size: 43
42046943 AAAACATATA
42046953 TATATATTTGCTTTTCTCTTTTCTTCCCTTCTTCCTCTTATTC
1 TATATATTTGCTTTTCTCTTTTCTTCCCTTCTTCCTCTTATTC
42046996 TATATATTTGCTTTTCTCTTTTCTTCCCTTCTTCCTCTTATTC
1 TATATATTTGCTTTTCTCTTTTCTTCCCTTCTTCCTCTTATTC
42047039 TA
1 TA
42047041 CAAAAAATTT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 45 1.00
ACGTcount: A:0.10, C:0.27, G:0.02, T:0.60
Consensus pattern (43 bp):
TATATATTTGCTTTTCTCTTTTCTTCCCTTCTTCCTCTTATTC
Found at i:42048254 original size:24 final size:24
Alignment explanation
Indices: 42048227--42048273 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
42048217 AATAATAAAG
* *
42048227 AAAAAATTTTAAAAATGACACTGC
1 AAAAAAGTTTAAAAAAGACACTGC
*
42048251 AAAAAGGTTTAAAAAAGACACTG
1 AAAAAAGTTTAAAAAAGACACTG
42048274 ACGCAACATT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.55, C:0.11, G:0.13, T:0.21
Consensus pattern (24 bp):
AAAAAAGTTTAAAAAAGACACTGC
Found at i:42050138 original size:36 final size:36
Alignment explanation
Indices: 42050098--42050173 Score: 134
Period size: 36 Copynumber: 2.1 Consensus size: 36
42050088 AGGATGATGA
42050098 TTTCTCTTCATCTTTCCTCCTTTCTTATACTAATAT
1 TTTCTCTTCATCTTTCCTCCTTTCTTATACTAATAT
* *
42050134 TTTCTCTTCATCTTTCCTCCTTTCTTGTACTATTAT
1 TTTCTCTTCATCTTTCCTCCTTTCTTATACTAATAT
42050170 TTTC
1 TTTC
42050174 GTAATAAAAT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
36 38 1.00
ACGTcount: A:0.13, C:0.28, G:0.01, T:0.58
Consensus pattern (36 bp):
TTTCTCTTCATCTTTCCTCCTTTCTTATACTAATAT
Found at i:42050191 original size:11 final size:11
Alignment explanation
Indices: 42050175--42050213 Score: 53
Period size: 11 Copynumber: 3.5 Consensus size: 11
42050165 ATTATTTTCG
42050175 TAATAAAATAT
1 TAATAAAATAT
42050186 TAATAAAA-AT
1 TAATAAAATAT
42050196 CTAATTAAAATAT
1 -TAA-TAAAATAT
42050209 TAATA
1 TAATA
42050214 TTATAACATT
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
10 2 0.08
11 13 0.52
12 8 0.32
13 2 0.08
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.36
Consensus pattern (11 bp):
TAATAAAATAT
Done.