Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr05 ID=Chr05-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 64140413
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 820884 characters in sequence are not A, C, G, or T
File 29 of 208
Found at i:8359800 original size:23 final size:21
Alignment explanation
Indices: 8359759--8359801 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
8359749 ATATTATATA
*
8359759 TAATATATTTTTTTATATTAG
1 TAATATATTTTTTAATATTAG
8359780 TAATATATTTTTTCAACTATTA
1 TAATATATTTTTT-AA-TATTA
8359802 TTTTTATAGT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 13 0.68
22 1 0.05
23 5 0.26
ACGTcount: A:0.35, C:0.05, G:0.02, T:0.58
Consensus pattern (21 bp):
TAATATATTTTTTAATATTAG
Found at i:8372981 original size:20 final size:20
Alignment explanation
Indices: 8372956--8373000 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
8372946 TAAATACACA
8372956 TAATTAAAACT-AGACACAAT
1 TAATT-AAACTAAGACACAAT
**
8372976 TAATTAAGTTAAGACACAAT
1 TAATTAAACTAAGACACAAT
8372996 TAATT
1 TAATT
8373001 CGGTTAGGAC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 3 0.14
20 19 0.86
ACGTcount: A:0.51, C:0.11, G:0.07, T:0.31
Consensus pattern (20 bp):
TAATTAAACTAAGACACAAT
Found at i:8380697 original size:2 final size:2
Alignment explanation
Indices: 8380690--8380731 Score: 75
Period size: 2 Copynumber: 21.0 Consensus size: 2
8380680 GGTTGGATCA
*
8380690 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TA TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
8380732 ATGGGTTCGA
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.02, C:0.00, G:0.48, T:0.50
Consensus pattern (2 bp):
TG
Found at i:8382417 original size:40 final size:40
Alignment explanation
Indices: 8382362--8382496 Score: 116
Period size: 37 Copynumber: 3.4 Consensus size: 40
8382352 ACCAATTTGG
*
8382362 CACCCAGTGCCTCATCGGATAATTCGAAGTAGTAAATTGA
1 CACCCAGTGCCTCATCGGATAATACGAAGTAGTAAATTGA
* * * *
8382402 CACCCAGTGTCTCATCAGTTAA-ACTG-A--AGTAAATTGG
1 CACCCAGTGCCTCATCGGATAATAC-GAAGTAGTAAATTGA
* ** * * *
8382439 CACCTAGCACCTCATCGAATAAATCCGAAGTAATAAATTGA
1 CACCCAGTGCCTCATCGGAT-AATACGAAGTAGTAAATTGA
*
8382480 CACCCAGTGTCTCATCG
1 CACCCAGTGCCTCATCG
8382497 ACTCGAAGTT
Statistics
Matches: 70, Mismatches: 19, Indels: 11
0.70 0.19 0.11
Matches are distributed among these distances:
37 22 0.31
38 3 0.04
39 4 0.06
40 20 0.29
41 21 0.30
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.24
Consensus pattern (40 bp):
CACCCAGTGCCTCATCGGATAATACGAAGTAGTAAATTGA
Found at i:8387004 original size:9 final size:9
Alignment explanation
Indices: 8386990--8387056 Score: 91
Period size: 9 Copynumber: 7.4 Consensus size: 9
8386980 TTTGGTTAAA
8386990 AATTAACCG
1 AATTAACCG
*
8386999 AATTAATCG
1 AATTAACCG
8387008 AATTAACCG
1 AATTAACCG
8387017 AATTAACCG
1 AATTAACCG
8387026 AATT-ACCAG
1 AATTAACC-G
*
8387035 AATTACCCG
1 AATTAACCG
*
8387044 AATTAACTG
1 AATTAACCG
8387053 AATT
1 AATT
8387057 GAATTACTAC
Statistics
Matches: 51, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
8 3 0.06
9 46 0.90
10 2 0.04
ACGTcount: A:0.43, C:0.19, G:0.10, T:0.27
Consensus pattern (9 bp):
AATTAACCG
Found at i:8390156 original size:43 final size:43
Alignment explanation
Indices: 8390089--8390218 Score: 140
Period size: 43 Copynumber: 3.0 Consensus size: 43
8390079 CATAGGATTT
* * *
8390089 TCGATATGTG-TTATCGTCTAAGACCACGTCTGGGACTTTGGCA
1 TCGATATGTGATTA-CATGTAAGACCACGTCTGGGACATTGGCA
* * *
8390132 TCGACT-TGTGTTTACGTGTAAGACC-CTGTCTGGGACAGTGGCA
1 TCGA-TATGTGATTACATGTAAGACCAC-GTCTGGGACATTGGCA
* *
8390175 TCGATATGTGATTACATGTAAGACCACCTCTGGGACGTTGGCA
1 TCGATATGTGATTACATGTAAGACCACGTCTGGGACATTGGCA
8390218 T
1 T
8390219 TGTAGAGTTT
Statistics
Matches: 74, Mismatches: 8, Indels: 10
0.80 0.09 0.11
Matches are distributed among these distances:
42 2 0.03
43 67 0.91
44 5 0.07
ACGTcount: A:0.22, C:0.21, G:0.27, T:0.31
Consensus pattern (43 bp):
TCGATATGTGATTACATGTAAGACCACGTCTGGGACATTGGCA
Found at i:8391034 original size:2 final size:2
Alignment explanation
Indices: 8391021--8391062 Score: 75
Period size: 2 Copynumber: 21.0 Consensus size: 2
8391011 GGTTGGGTGG
*
8391021 TA TA TT TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
8391063 AGTGACATGT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:8393664 original size:18 final size:17
Alignment explanation
Indices: 8393631--8393669 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
8393621 TTTTATAAAT
8393631 TGTGAATTATATTTGATA
1 TGTGAATTATATTTGA-A
8393649 TGTGAATTA-ATATTGAA
1 TGTGAATTATAT-TTGAA
8393666 TGTG
1 TGTG
8393670 GAAGGAAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 7 0.35
18 13 0.65
ACGTcount: A:0.33, C:0.00, G:0.21, T:0.46
Consensus pattern (17 bp):
TGTGAATTATATTTGAA
Found at i:8393929 original size:23 final size:23
Alignment explanation
Indices: 8393895--8394062 Score: 255
Period size: 23 Copynumber: 7.3 Consensus size: 23
8393885 AGTGTTATTG
* *
8393895 ATCAGTGTTAGCTTCAGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
*
8393918 ATCAGTGGTAGCTTCGGCTACGT
1 ATCAGTGGTAGCTTCGGCTACAT
*
8393941 ATCAGTGGTAGCTTCGGCTACGT
1 ATCAGTGGTAGCTTCGGCTACAT
* *
8393964 ATCAGTGGTAGCTTCAGATACAT
1 ATCAGTGGTAGCTTCGGCTACAT
8393987 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
* * *
8394010 TTCAGTGGTAGCTACGGCTACGT
1 ATCAGTGGTAGCTTCGGCTACAT
8394033 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
8394056 ATCAGTG
1 ATCAGTG
8394063 TGGCACTTAT
Statistics
Matches: 131, Mismatches: 14, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 131 1.00
ACGTcount: A:0.22, C:0.21, G:0.26, T:0.31
Consensus pattern (23 bp):
ATCAGTGGTAGCTTCGGCTACAT
Found at i:8394006 original size:69 final size:69
Alignment explanation
Indices: 8393895--8394062 Score: 282
Period size: 69 Copynumber: 2.4 Consensus size: 69
8393885 AGTGTTATTG
* * *
8393895 ATCAGTGTTAGCTTCAGCTACATATCAGTGGTAGCTTCGGCTACGTATCAGTGGTAGCTTCGGCT
1 ATCAGTGGTAGCTTCAGCTACATATCAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTACGGCT
8393960 ACGT
66 ACGT
* *
8393964 ATCAGTGGTAGCTTCAGATACATATCAGTGGTAGCTTCGGCTACATTTCAGTGGTAGCTACGGCT
1 ATCAGTGGTAGCTTCAGCTACATATCAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTACGGCT
8394029 ACGT
66 ACGT
*
8394033 ATCAGTGGTAGCTTCGGCTACATATCAGTG
1 ATCAGTGGTAGCTTCAGCTACATATCAGTG
8394063 TGGCACTTAT
Statistics
Matches: 92, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
69 92 1.00
ACGTcount: A:0.22, C:0.21, G:0.26, T:0.31
Consensus pattern (69 bp):
ATCAGTGGTAGCTTCAGCTACATATCAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTACGGCT
ACGT
Found at i:8400988 original size:25 final size:26
Alignment explanation
Indices: 8400949--8401000 Score: 70
Period size: 25 Copynumber: 2.0 Consensus size: 26
8400939 AGAAACTTTT
*
8400949 TAAACTTTTATAATTTTTAAAAAATA
1 TAAACTTTTAGAATTTTTAAAAAATA
* *
8400975 TAAA-TTTTAGAATTTTTTATAAATA
1 TAAACTTTTAGAATTTTTAAAAAATA
8401000 T
1 T
8401001 TTTGAATTTT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
25 19 0.83
26 4 0.17
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.50
Consensus pattern (26 bp):
TAAACTTTTAGAATTTTTAAAAAATA
Found at i:8400997 original size:19 final size:20
Alignment explanation
Indices: 8400973--8401012 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
8400963 TTTTAAAAAA
8400973 TATAAAT-TTTAGAATTTTT
1 TATAAATATTTAGAATTTTT
*
8400992 TATAAATATTTTGAATTTTT
1 TATAAATATTTAGAATTTTT
8401012 T
1 T
8401013 TTGTGATTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 7 0.37
20 12 0.63
ACGTcount: A:0.35, C:0.00, G:0.05, T:0.60
Consensus pattern (20 bp):
TATAAATATTTAGAATTTTT
Found at i:8405676 original size:5 final size:5
Alignment explanation
Indices: 8405662--8405692 Score: 53
Period size: 5 Copynumber: 6.2 Consensus size: 5
8405652 AAAGTTTGAT
*
8405662 TTTTC GTTTC TTTTC TTTTC TTTTC TTTTC T
1 TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC T
8405693 GGGTATTTAG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.00, C:0.19, G:0.03, T:0.77
Consensus pattern (5 bp):
TTTTC
Found at i:8408765 original size:17 final size:16
Alignment explanation
Indices: 8408729--8408767 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 16
8408719 TATATTTTAT
8408729 AATTTTTTAAAATTAC
1 AATTTTTTAAAATTAC
8408745 AATTATTTTAAAATATA-
1 AATT-TTTTAAAAT-TAC
8408762 AATTTT
1 AATTTT
8408768 AGAATTTTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
16 6 0.29
17 13 0.62
18 2 0.10
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (16 bp):
AATTTTTTAAAATTAC
Found at i:8409757 original size:13 final size:13
Alignment explanation
Indices: 8409710--8409764 Score: 55
Period size: 13 Copynumber: 4.4 Consensus size: 13
8409700 CAAAGTTCTA
8409710 TATTTAGCATTTC
1 TATTTAGCATTTC
8409723 TAATTT--C-TGTTC
1 T-ATTTAGCAT-TTC
*
8409735 -ATTTATCATTTC
1 TATTTAGCATTTC
8409747 TATTTAGCATTTC
1 TATTTAGCATTTC
8409760 TATTT
1 TATTT
8409765 TCGGACAAAT
Statistics
Matches: 35, Mismatches: 1, Indels: 12
0.73 0.02 0.25
Matches are distributed among these distances:
10 4 0.11
11 1 0.03
12 8 0.23
13 18 0.51
14 4 0.11
ACGTcount: A:0.22, C:0.15, G:0.05, T:0.58
Consensus pattern (13 bp):
TATTTAGCATTTC
Found at i:8409786 original size:38 final size:37
Alignment explanation
Indices: 8409710--8409787 Score: 104
Period size: 37 Copynumber: 2.1 Consensus size: 37
8409700 CAAAGTTCTA
**
8409710 TATTTAGCATTTCTAATTTCTGTTCATTTATCATTTC
1 TATTTAGCATTTCTAATTTCTGGACATTTATCATTTC
*
8409747 TATTTAGCATTTCTATTTTC-GGACAAATTTATCATTTC
1 TATTTAGCATTTCTAATTTCTGGAC--ATTTATCATTTC
8409785 TAT
1 TAT
8409788 CAATTTCTGT
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
36 2 0.06
37 19 0.53
38 15 0.42
ACGTcount: A:0.24, C:0.15, G:0.06, T:0.54
Consensus pattern (37 bp):
TATTTAGCATTTCTAATTTCTGGACATTTATCATTTC
Found at i:8410895 original size:22 final size:21
Alignment explanation
Indices: 8410869--8410912 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 21
8410859 TTCACCCGTT
8410869 AGGCTTCAGTGTCGCAACACCC
1 AGGCTTCAGTGTCGCAAC-CCC
**
8410891 AGGCTTTGGTGTCGCAACCCC
1 AGGCTTCAGTGTCGCAACCCC
8410912 A
1 A
8410913 CGACAGTTAG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 4 0.20
22 16 0.80
ACGTcount: A:0.20, C:0.34, G:0.25, T:0.20
Consensus pattern (21 bp):
AGGCTTCAGTGTCGCAACCCC
Found at i:8411880 original size:21 final size:22
Alignment explanation
Indices: 8411856--8411907 Score: 56
Period size: 21 Copynumber: 2.5 Consensus size: 22
8411846 ATAACATATG
*
8411856 ATATATATTATATA-ATGAAAA
1 ATATATATTATAAATATGAAAA
* *
8411877 ATATTTATTA-AAATATGATAA
1 ATATATATTATAAATATGAAAA
8411898 ATATA-ATTAT
1 ATATATATTAT
8411908 TTTTTACTTA
Statistics
Matches: 25, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
20 6 0.24
21 19 0.76
ACGTcount: A:0.54, C:0.00, G:0.04, T:0.42
Consensus pattern (22 bp):
ATATATATTATAAATATGAAAA
Found at i:8415501 original size:25 final size:26
Alignment explanation
Indices: 8415459--8415510 Score: 61
Period size: 25 Copynumber: 2.0 Consensus size: 26
8415449 CTTTTTGTTT
* *
8415459 AAAATAAAAAAACAAATATACATAAA
1 AAAATAAAAAAACAAATAAAAATAAA
* *
8415485 AAAATAAATAAA-TAATAAAAATAAA
1 AAAATAAAAAAACAAATAAAAATAAA
8415510 A
1 A
8415511 GGTCTGAGGA
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
25 11 0.50
26 11 0.50
ACGTcount: A:0.79, C:0.04, G:0.00, T:0.17
Consensus pattern (26 bp):
AAAATAAAAAAACAAATAAAAATAAA
Found at i:8417083 original size:44 final size:44
Alignment explanation
Indices: 8417020--8417107 Score: 176
Period size: 44 Copynumber: 2.0 Consensus size: 44
8417010 ATACTCTCAC
8417020 ATGTATTTACACAAAAAATAACTCATATATAATTCAAATAATGA
1 ATGTATTTACACAAAAAATAACTCATATATAATTCAAATAATGA
8417064 ATGTATTTACACAAAAAATAACTCATATATAATTCAAATAATGA
1 ATGTATTTACACAAAAAATAACTCATATATAATTCAAATAATGA
8417108 TAATTTGAAA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 44 1.00
ACGTcount: A:0.52, C:0.11, G:0.05, T:0.32
Consensus pattern (44 bp):
ATGTATTTACACAAAAAATAACTCATATATAATTCAAATAATGA
Found at i:8419239 original size:104 final size:104
Alignment explanation
Indices: 8419056--8419264 Score: 312
Period size: 104 Copynumber: 2.0 Consensus size: 104
8419046 TGTCTGTTTT
8419056 TGTCCTCCCAAATAGCCCAGATTACACATGTTATTTCCCTGCACTTATCCTTAGAATGCACAAAG
1 TGTCCTCCCAAATAGCCCAGATTACACATGTTATTTCCCTGCACTTATCCTTAGAATGCACAAAG
** *
8419121 AACAAACAGTCCATCCACTATCTGTATCTCTCATTCGAC
66 AACAAACAAACCATCCACTATCTGTATCTCTCATTAGAC
* ** *
8419160 TGTCCTCCCAAATAGCCCAGATTTCACATGTTATTTCTTTGCACTTATCCTTAGAATGCACAAGG
1 TGTCCTCCCAAATAGCCCAGATTACACATGTTATTTCCCTGCACTTATCCTTAGAATGCACAAAG
* * *
8419225 AAC-AACTAAACCATCCATTGTTTGTATCTCTCATTAGAC
66 AACAAAC-AAACCATCCACTATCTGTATCTCTCATTAGAC
8419264 T
1 T
8419265 AATCTTGAGG
Statistics
Matches: 94, Mismatches: 10, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
103 3 0.03
104 91 0.97
ACGTcount: A:0.29, C:0.28, G:0.11, T:0.32
Consensus pattern (104 bp):
TGTCCTCCCAAATAGCCCAGATTACACATGTTATTTCCCTGCACTTATCCTTAGAATGCACAAAG
AACAAACAAACCATCCACTATCTGTATCTCTCATTAGAC
Found at i:8420543 original size:21 final size:21
Alignment explanation
Indices: 8420518--8420577 Score: 111
Period size: 21 Copynumber: 2.9 Consensus size: 21
8420508 TGAAGCTCTT
8420518 GGAACTTTTGAATTCCAAATG
1 GGAACTTTTGAATTCCAAATG
8420539 GGAACTTTTGAATTCCAAATG
1 GGAACTTTTGAATTCCAAATG
*
8420560 GGAGCTTTTGAATTCCAA
1 GGAACTTTTGAATTCCAA
8420578 GCTCTTGGAA
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 38 1.00
ACGTcount: A:0.32, C:0.15, G:0.20, T:0.33
Consensus pattern (21 bp):
GGAACTTTTGAATTCCAAATG
Found at i:8430990 original size:21 final size:21
Alignment explanation
Indices: 8430965--8431004 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
8430955 GGGTTTGAGG
*
8430965 TTTAGAGTTTATGATTTATGA
1 TTTAGAGTTTAAGATTTATGA
*
8430986 TTTAGGGTTTAAGATTTAT
1 TTTAGAGTTTAAGATTTAT
8431005 ATCAAGTTTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.28, C:0.00, G:0.20, T:0.53
Consensus pattern (21 bp):
TTTAGAGTTTAAGATTTATGA
Found at i:8431302 original size:21 final size:20
Alignment explanation
Indices: 8431276--8431314 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
8431266 CTTTGACATG
8431276 AGGGTTTCACATTTAAGGTTT
1 AGGGTTTCA-ATTTAAGGTTT
*
8431297 AGGGTTTCAATTTTAGGT
1 AGGGTTTCAATTTAAGGT
8431315 ACAATGATAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.23, C:0.08, G:0.26, T:0.44
Consensus pattern (20 bp):
AGGGTTTCAATTTAAGGTTT
Found at i:8432569 original size:20 final size:22
Alignment explanation
Indices: 8432511--8432571 Score: 63
Period size: 23 Copynumber: 2.8 Consensus size: 22
8432501 CTTTTAATAA
* *
8432511 ATTAAGATAAAATTAAATATTTC
1 ATTAATATAAAATT-TATATTTC
* *
8432534 ATTCATATAAATTTTATATTT-
1 ATTAATATAAAATTTATATTTC
8432555 ATTAAT-TAAAATTTATA
1 ATTAATATAAAATTTATA
8432572 AGATTTCAAT
Statistics
Matches: 32, Mismatches: 6, Indels: 3
0.78 0.15 0.07
Matches are distributed among these distances:
20 10 0.31
21 5 0.16
22 6 0.19
23 11 0.34
ACGTcount: A:0.48, C:0.03, G:0.02, T:0.48
Consensus pattern (22 bp):
ATTAATATAAAATTTATATTTC
Found at i:8440218 original size:30 final size:30
Alignment explanation
Indices: 8440184--8440247 Score: 85
Period size: 30 Copynumber: 2.1 Consensus size: 30
8440174 TTAATTTTTG
* *
8440184 AGTTTTGGGGCAAAAGT-GTAATTATGTAAA
1 AGTTTAGGGGCAAAA-TCGCAATTATGTAAA
*
8440214 AGTTTAGGGGCAAAATCGCAATTTTGTAAA
1 AGTTTAGGGGCAAAATCGCAATTATGTAAA
8440244 AGTT
1 AGTT
8440248 AGAGTCGAGG
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
29 1 0.03
30 29 0.97
ACGTcount: A:0.36, C:0.06, G:0.25, T:0.33
Consensus pattern (30 bp):
AGTTTAGGGGCAAAATCGCAATTATGTAAA
Found at i:8440694 original size:50 final size:50
Alignment explanation
Indices: 8440639--8440794 Score: 249
Period size: 50 Copynumber: 3.1 Consensus size: 50
8440629 CATTGAGATT
8440639 ATGAGAGGTCCCACGTAAGACCATGTCTGGGACATGACGTTGGCACCGAG
1 ATGAGAGGTCCCACGTAAGACCATGTCTGGGACATGACGTTGGCACCGAG
* *
8440689 ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAG
1 ATGAGAGGTCCCACGTAAGACCATGTCTGGGACATGACGTTGGCACCGAG
* * * * *
8440739 ATGAGAGGTCCCCCGTAAGACCATGTCTGGGACATGACATAGGCACCTAT
1 ATGAGAGGTCCCACGTAAGACCATGTCTGGGACATGACGTTGGCACCGAG
8440789 ATGAGA
1 ATGAGA
8440795 ACTCTGATGT
Statistics
Matches: 97, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
50 97 1.00
ACGTcount: A:0.27, C:0.23, G:0.31, T:0.19
Consensus pattern (50 bp):
ATGAGAGGTCCCACGTAAGACCATGTCTGGGACATGACGTTGGCACCGAG
Found at i:8440774 original size:100 final size:101
Alignment explanation
Indices: 8440584--8440833 Score: 290
Period size: 100 Copynumber: 2.4 Consensus size: 101
8440574 ACATTAAGAG
* *
8440584 GATGAGATCCCATGTAAGACCATGTCTGTGACATGGCATTGGCATCATTGAGATTATGAGAGGTC
1 GATGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCA-CGAG--TATGAGAGGTC
* *
8440649 CCACGTAAGACCATGTCTGGGACATGACGTTGGCACCGA
63 CCACGTAAGACCATGTCTGGGACATGACATAGGCACCGA
*
8440688 GATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA-C-CGAG-ATGAGAGGTCC
1 GATGAGA--TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCACGAGTATGAGAGGTCC
* *
8440750 CCCGTAAGACCATGTCTGGGACATGACATAGGCACCTA
64 CACGTAAGACCATGTCTGGGACATGACATAGGCACCGA
* ** * * * *
8440788 TATGAGAACTCTGATGTAATACCATCTCTGGGATATGACATTGGCA
1 GATGAG-A-TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
8440834 GTACAAGAAA
Statistics
Matches: 127, Mismatches: 16, Indels: 10
0.83 0.10 0.07
Matches are distributed among these distances:
100 80 0.63
101 1 0.01
103 3 0.02
104 7 0.06
105 1 0.01
106 35 0.28
ACGTcount: A:0.27, C:0.22, G:0.28, T:0.23
Consensus pattern (101 bp):
GATGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCACGAGTATGAGAGGTCCCA
CGTAAGACCATGTCTGGGACATGACATAGGCACCGA
Found at i:8440812 original size:50 final size:50
Alignment explanation
Indices: 8440584--8440872 Score: 228
Period size: 50 Copynumber: 5.7 Consensus size: 50
8440574 ACATTAAGAG
* * *
8440584 GATGAG-A-TCCCATGTAAGACCATGTCTGTGACATGGCATTGGCATCATTGA
1 GATGAGAACTCCCATGTAAGACCATGTCTGGGACATGACATTGGCA-C--CGA
** * *
8440635 GATTATGAGAGGTCCCACGTAAGACCATGTCTGGGACATGACGTTGGCACCGA
1 G---ATGAGAACTCCCATGTAAGACCATGTCTGGGACATGACATTGGCACCGA
** * *
8440688 GATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGA
1 GATGAGAACTCCCATGTAAGACCATGTCTGGGACATGACATTGGCACCGA
** ** * *
8440738 GATGAGAGGTCCCCCGTAAGACCATGTCTGGGACATGACATAGGCACCTA
1 GATGAGAACTCCCATGTAAGACCATGTCTGGGACATGACATTGGCACCGA
* ** * * *
8440788 TATGAGAACTCTGATGTAATACCATCTCTGGGATATGACATTGGCA--GTA
1 GATGAGAACTCCCATGTAAGACCATGTCTGGGACATGACATTGGCACCG-A
* * * *
8440837 CAAGA-AACATCTCATGTAAGACTATGTCTGGGACAT
1 GATGAGAAC-TCCCATGTAAGACCATGTCTGGGACAT
8440873 AGCTATGGCA
Statistics
Matches: 198, Mismatches: 33, Indels: 16
0.80 0.13 0.06
Matches are distributed among these distances:
48 3 0.02
49 26 0.13
50 126 0.64
51 1 0.01
53 3 0.02
54 5 0.03
55 1 0.01
56 33 0.17
ACGTcount: A:0.28, C:0.21, G:0.27, T:0.24
Consensus pattern (50 bp):
GATGAGAACTCCCATGTAAGACCATGTCTGGGACATGACATTGGCACCGA
Found at i:8442751 original size:52 final size:51
Alignment explanation
Indices: 8442665--8442776 Score: 136
Period size: 52 Copynumber: 2.2 Consensus size: 51
8442655 AATAATGCAT
* **
8442665 AAGAGGACTATGACTCATCAAACTTTATCAAAAGTAAAGTTTAATAATTTAC
1 AAGAGGACGATGACTCATCAAACTTTAT-AAAAGTAAAGCATAATAATTTAC
* * *
8442717 AAGAGGACGATGATTCACTCATACTTTAGT-AAAGTAAAGCATAATAATTTAT
1 AAGAGGACGATGACTCA-TCAAACTTTA-TAAAAGTAAAGCATAATAATTTAC
8442769 AAGAGGAC
1 AAGAGGAC
8442777 AAAAGACTTT
Statistics
Matches: 52, Mismatches: 6, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
52 42 0.81
53 9 0.17
54 1 0.02
ACGTcount: A:0.44, C:0.12, G:0.15, T:0.29
Consensus pattern (51 bp):
AAGAGGACGATGACTCATCAAACTTTATAAAAGTAAAGCATAATAATTTAC
Found at i:8453837 original size:12 final size:12
Alignment explanation
Indices: 8453817--8453848 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
8453807 CACTTATAGC
8453817 CTCTCTCTTTCT
1 CTCTCTCTTTCT
*
8453829 CTTTCTCTTTCT
1 CTCTCTCTTTCT
8453841 CTCTCTCT
1 CTCTCTCT
8453849 CTTTGTGTGT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.00, C:0.41, G:0.00, T:0.59
Consensus pattern (12 bp):
CTCTCTCTTTCT
Found at i:8454271 original size:184 final size:188
Alignment explanation
Indices: 8453941--8454304 Score: 423
Period size: 184 Copynumber: 1.9 Consensus size: 188
8453931 TTCGTGCATT
*
8453941 ATGAAGCAGCGACAATTACAACTCTAACTGTACTTAAACTTACATTTTTTTCCTTCCCTATTTCA
1 ATGAAGCAGCGACAACTACAACTCTAACTGTACTTAAAC-TACATTTTTTTCCTTCCCTATTTCA
** *
8454006 ATTAATGGTTTTGTTGTTTGTTTTCTTTTGTTACACATACATACACACGTGCACTTACTTTTTCT
65 ATTAATGGTTTTGTTCATTGTTTTC--TTGTTACACATACATACACACGTGCACTTACTTTTTCA
*
8454071 TTTTGCCACAAACATGTAAAACTGTAAAAACTCAATGATTATGATGATGATGATGATGATC
128 TTTTGCCACAAACATGTAAAACTGTAAAAACTCAATGATGATGATGATGATGATGATGATC
* * * * * * * *
8454132 ATGAAGCAGCGGCAACTACGACTCTCACTGTACTTACAC-GCTTTTTTTTCTTTCCTTATTTCAA
1 ATGAAGCAGCGACAACTACAACTCTAACTGTACTTAAACTACATTTTTTTCCTTCCCTATTTCAA
** * * *
8454196 TTAATGGTTTTG-TCATT-TTTTC-TGTTACACATATGTACATA-TTCGCATTTACTTTTTCATT
66 TTAATGGTTTTGTTCATTGTTTTCTTGTTACACATACATACACACGT-GCACTTACTTTTTCATT
*** * ** * *
8454257 TTGCCGTGAACATGTAAAAGTGTGGAAACTCGATGATGATGATTATGA
130 TTGCCACAAACATGTAAAACTGTAAAAACTCAATGATGATGATGATGA
8454305 AGCAGCAACA
Statistics
Matches: 146, Mismatches: 26, Indels: 9
0.81 0.14 0.05
Matches are distributed among these distances:
183 1 0.01
184 70 0.48
187 5 0.03
188 3 0.02
189 33 0.23
191 34 0.23
ACGTcount: A:0.28, C:0.18, G:0.14, T:0.40
Consensus pattern (188 bp):
ATGAAGCAGCGACAACTACAACTCTAACTGTACTTAAACTACATTTTTTTCCTTCCCTATTTCAA
TTAATGGTTTTGTTCATTGTTTTCTTGTTACACATACATACACACGTGCACTTACTTTTTCATTT
TGCCACAAACATGTAAAACTGTAAAAACTCAATGATGATGATGATGATGATGATGATC
Found at i:8459865 original size:24 final size:24
Alignment explanation
Indices: 8459838--8459885 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 24
8459828 AATTGTGTTG
8459838 TTTTTATTCTCAATTCTTTTCCAC
1 TTTTTATTCTCAATTCTTTTCCAC
*
8459862 TTTTTATTCTCAATTTTTTTCCAC
1 TTTTTATTCTCAATTCTTTTCCAC
8459886 CTTGTTGACT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.17, C:0.23, G:0.00, T:0.60
Consensus pattern (24 bp):
TTTTTATTCTCAATTCTTTTCCAC
Found at i:8464166 original size:26 final size:28
Alignment explanation
Indices: 8464123--8464175 Score: 92
Period size: 26 Copynumber: 2.0 Consensus size: 28
8464113 ATTGAATATA
8464123 AAGGGGGTTGCTAAGTGCTGATTCCCCC
1 AAGGGGGTTGCTAAGTGCTGATTCCCCC
8464151 AAGGGGG-T-CTAAGTGCTGATTCCCC
1 AAGGGGGTTGCTAAGTGCTGATTCCCC
8464176 GAATCATTGG
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
26 17 0.68
27 1 0.04
28 7 0.28
ACGTcount: A:0.19, C:0.25, G:0.32, T:0.25
Consensus pattern (28 bp):
AAGGGGGTTGCTAAGTGCTGATTCCCCC
Found at i:8464436 original size:149 final size:148
Alignment explanation
Indices: 8464151--8464497 Score: 556
Period size: 149 Copynumber: 2.3 Consensus size: 148
8464141 TGATTCCCCC
8464151 AAGGGGG-T-CTAAGTGCTGATTCCCCGAATCATTGGTGGTTGCTAAGTGCTGATTCCAACGTAT
1 AAGGGGGTTGCTAAGTGCTGATTCCCCGAATCATTGGTGGTTGCTAAGTG-TGATTCCAACGTAT
*
8464214 TTTAAATGTGAAGGGGTTGCTAAGTGCTGATTCCCCGAATCATTGGTGGTTGCTAAGTGCTGATT
65 TTTAAATGTGAAGGGGTTGCTAAGTGCTGATTCCCCGAATCATTGGTGGTTGCTAAGTGCTGATC
*
8464279 CCAACGTATTTTAAATGTG
130 CCAACGTATCTTAAATGTG
* *
8464298 AAGGGGGTTGCTAAGTGCTGATTCCCCGAATCATTGGTGGTTGCTAAGTGTGATTCTACCGTATT
1 AAGGGGGTTGCTAAGTGCTGATTCCCCGAATCATTGGTGGTTGCTAAGTGTGATTCCAACGTATT
* * *
8464363 TTAAATGTGAAGGGGGTTGTTAAGTGCTGATT-TCCTAACTCATTGGTGGTTGCTAAGTGCTGAT
66 TTAAATGTGAA-GGGGTTGCTAAGTGCTGATTCCCCGAA-TCATTGGTGGTTGCTAAGTGCTGAT
*
8464427 CCCACCGTATCTTAAATGTG
129 CCCAACGTATCTTAAATGTG
* *
8464447 AAAGGGGTTGCTAAGTGCTGATTCCCCGAATCACTGGTGGTTGCTAAGTGT
1 AAGGGGGTTGCTAAGTGCTGATTCCCCGAATCATTGGTGGTTGCTAAGTGT
8464498 TGAATCCACC
Statistics
Matches: 186, Mismatches: 10, Indels: 6
0.92 0.05 0.03
Matches are distributed among these distances:
147 7 0.04
148 29 0.16
149 150 0.81
ACGTcount: A:0.22, C:0.16, G:0.28, T:0.33
Consensus pattern (148 bp):
AAGGGGGTTGCTAAGTGCTGATTCCCCGAATCATTGGTGGTTGCTAAGTGTGATTCCAACGTATT
TTAAATGTGAAGGGGTTGCTAAGTGCTGATTCCCCGAATCATTGGTGGTTGCTAAGTGCTGATCC
CAACGTATCTTAAATGTG
Found at i:8464507 original size:75 final size:75
Alignment explanation
Indices: 8464151--8464508 Score: 553
Period size: 74 Copynumber: 4.8 Consensus size: 75
8464141 TGATTCCCCC
* *
8464151 AAGGGGGT-CTAAGTGCTGATTCCCCGAATCATTGGTGGTTGCTAAGTGCTGATTCCAACGTATT
1 AAGGGGTTGCTAAGTGCTGATTCCCCGAATCATTGGTGGTTGCTAAGTGCTGATTCCACCGTATT
8464215 TTAAATGTG-
66 TTAAATGTGA
*
8464224 AAGGGGTTGCTAAGTGCTGATTCCCCGAATCATTGGTGGTTGCTAAGTGCTGATTCCAACGTATT
1 AAGGGGTTGCTAAGTGCTGATTCCCCGAATCATTGGTGGTTGCTAAGTGCTGATTCCACCGTATT
8464289 TTAAATGTGA
66 TTAAATGTGA
* *
8464299 AGGGGGTTGCTAAGTGCTGATTCCCCGAATCATTGGTGGTTGCTAAGTG-TGATTCTACCGTATT
1 AAGGGGTTGCTAAGTGCTGATTCCCCGAATCATTGGTGGTTGCTAAGTGCTGATTCCACCGTATT
8464363 TTAAATGTGA
66 TTAAATGTGA
* * * * *
8464373 AGGGGGTTGTTAAGTGCTGATT-TCCTAACTCATTGGTGGTTGCTAAGTGCTGATCCCACCGTAT
1 AAGGGGTTGCTAAGTGCTGATTCCCCGAA-TCATTGGTGGTTGCTAAGTGCTGATTCCACCGTAT
*
8464437 CTTAAATGTGA
65 TTTAAATGTGA
* * *
8464448 AAGGGGTTGCTAAGTGCTGATTCCCCGAATCACTGGTGGTTGCTAAGTGTTGAATCCACCG
1 AAGGGGTTGCTAAGTGCTGATTCCCCGAATCATTGGTGGTTGCTAAGTGCTGATTCCACCG
8464509 ATAACGGACA
Statistics
Matches: 262, Mismatches: 18, Indels: 8
0.91 0.06 0.03
Matches are distributed among these distances:
73 11 0.04
74 129 0.49
75 118 0.45
76 4 0.02
ACGTcount: A:0.22, C:0.17, G:0.28, T:0.33
Consensus pattern (75 bp):
AAGGGGTTGCTAAGTGCTGATTCCCCGAATCATTGGTGGTTGCTAAGTGCTGATTCCACCGTATT
TTAAATGTGA
Found at i:8472099 original size:3 final size:3
Alignment explanation
Indices: 8472093--8472168 Score: 134
Period size: 3 Copynumber: 25.3 Consensus size: 3
8472083 CATAATAAAT
* *
8472093 TTA TTA TCA TTA GTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
8472141 TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA T
8472169 AATATTGATT
Statistics
Matches: 69, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 69 1.00
ACGTcount: A:0.33, C:0.01, G:0.01, T:0.64
Consensus pattern (3 bp):
TTA
Found at i:8472574 original size:2 final size:2
Alignment explanation
Indices: 8472531--8472555 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
8472521 AATTAATAAT
8472531 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
8472556 TAATAGTTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:8475686 original size:24 final size:24
Alignment explanation
Indices: 8475659--8475747 Score: 103
Period size: 24 Copynumber: 3.7 Consensus size: 24
8475649 AAGCTCATAA
8475659 GAGCCATAATCGGGAAGTTCAAAC
1 GAGCCATAATCGGGAAGTTCAAAC
* * *
8475683 GAGCCAATAA-AGAGAAGCTCATAA-
1 GAGCC-ATAATCGGGAAGTTCA-AAC
8475707 GAGCCATAATCGGGAAGTTCAAAC
1 GAGCCATAATCGGGAAGTTCAAAC
8475731 GAGCCA-ATATCGGGAAG
1 GAGCCATA-ATCGGGAAG
8475748 CTCCGAAAAG
Statistics
Matches: 54, Mismatches: 6, Indels: 10
0.77 0.09 0.14
Matches are distributed among these distances:
23 7 0.13
24 41 0.76
25 6 0.11
ACGTcount: A:0.40, C:0.19, G:0.26, T:0.15
Consensus pattern (24 bp):
GAGCCATAATCGGGAAGTTCAAAC
Found at i:8475750 original size:48 final size:48
Alignment explanation
Indices: 8475641--8475739 Score: 198
Period size: 48 Copynumber: 2.1 Consensus size: 48
8475631 TTCGAGCTAT
8475641 ATAAAGAGAAGCTCATAAGAGCCATAATCGGGAAGTTCAAACGAGCCA
1 ATAAAGAGAAGCTCATAAGAGCCATAATCGGGAAGTTCAAACGAGCCA
8475689 ATAAAGAGAAGCTCATAAGAGCCATAATCGGGAAGTTCAAACGAGCCA
1 ATAAAGAGAAGCTCATAAGAGCCATAATCGGGAAGTTCAAACGAGCCA
8475737 ATA
1 ATA
8475740 TCGGGAAGCT
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 51 1.00
ACGTcount: A:0.44, C:0.18, G:0.22, T:0.15
Consensus pattern (48 bp):
ATAAAGAGAAGCTCATAAGAGCCATAATCGGGAAGTTCAAACGAGCCA
Found at i:8475760 original size:48 final size:48
Alignment explanation
Indices: 8475641--8475772 Score: 174
Period size: 48 Copynumber: 2.7 Consensus size: 48
8475631 TTCGAGCTAT
* *
8475641 ATAAAGAGAAGCTCATAAGAGCCATAATCGGGAAGTTCAAACGAGCCA
1 ATAAAGAGAAGCTCAGAAAAGCCATAATCGGGAAGTTCAAACGAGCCA
* *
8475689 ATAAAGAGAAGCTCATAAGAGCCATAATCGGGAAGTTCAAACGAGCCA
1 ATAAAGAGAAGCTCAGAAAAGCCATAATCGGGAAGTTCAAACGAGCCA
** * * *
8475737 ATATCGGGAAGCTCCGAAAAGCCATATATCAGGAAG
1 ATAAAGAGAAGCTCAGAAAAGCCATA-ATCGGGAAG
8475773 CTCATGAAAG
Statistics
Matches: 76, Mismatches: 7, Indels: 1
0.90 0.08 0.01
Matches are distributed among these distances:
48 68 0.89
49 8 0.11
ACGTcount: A:0.42, C:0.19, G:0.23, T:0.15
Consensus pattern (48 bp):
ATAAAGAGAAGCTCAGAAAAGCCATAATCGGGAAGTTCAAACGAGCCA
Found at i:8477360 original size:34 final size:34
Alignment explanation
Indices: 8477315--8477389 Score: 105
Period size: 34 Copynumber: 2.2 Consensus size: 34
8477305 GGTTTTTGGT
* * *
8477315 TCCACAAGGCCTAGCAACATGGGCATGTGAGATC
1 TCCACACGGCCTAGCAACACGAGCATGTGAGATC
* *
8477349 TCCACACGGCCTGGCCACACGAGCATGTGAGATC
1 TCCACACGGCCTAGCAACACGAGCATGTGAGATC
8477383 TCCACAC
1 TCCACAC
8477390 AACCGTGTCT
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
34 36 1.00
ACGTcount: A:0.27, C:0.33, G:0.24, T:0.16
Consensus pattern (34 bp):
TCCACACGGCCTAGCAACACGAGCATGTGAGATC
Found at i:8478017 original size:15 final size:15
Alignment explanation
Indices: 8477992--8478026 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
8477982 GACTCTATTT
*
8477992 TAATT-ATATTAGGA
1 TAATTAATATTAAGA
8478006 TAATTAATATTAAGA
1 TAATTAATATTAAGA
8478021 TAATTA
1 TAATTA
8478027 TTAAGGATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 5 0.26
15 14 0.74
ACGTcount: A:0.49, C:0.00, G:0.09, T:0.43
Consensus pattern (15 bp):
TAATTAATATTAAGA
Found at i:8479059 original size:270 final size:270
Alignment explanation
Indices: 8478571--8479102 Score: 893
Period size: 270 Copynumber: 2.0 Consensus size: 270
8478561 AGTGTTGATC
*
8478571 TAGCATAAGACGATCCCACAGAAGCGATTGTTGGCTAGAGTCAGGTTTCACTAAATCGTAAGTCT
1 TAGCATAAGACGATCCCACAGAAGCGATTGTTGGCTAGAGTCAGGTTCCACTAAATCGTAAGTCT
* * *
8478636 AAATCATTGGAGTTGGTGGTCATAGGCGTCCTCTTCCACTATAACTGGCTTATTCGGTTTGGGAA
66 AAATCATTGAAGCTGGTGGTCATAGGCGTCCTCTTCCACTATAACTGGCTTATTCGATTTGGGAA
* * ***
8478701 GGATCATCTAAAGTCGAGGATTGAACCTAAGATGGAACGAGACAACTGGAGGCTGGAACCTCCCA
131 GGATCATCTAAAGGCGAGGATTGAACCCAAGACACAACGAGACAACTGGAGGCTGGAACCTCCCA
* *
8478766 TAAGAATTTTCTTTCTCTCAACTCTATTTTTAATTTCTCAAATTTTCGATTCAATATTCTTAATT
196 AAAGAATTTCCTTTCTCTCAACTCTATTTTTAATTTCTCAAATTTTCGATTCAATATTCTTAATT
8478831 CTGTTATTTT
261 CTGTTATTTT
*
8478841 TAGCATAAGATGATCCCACAGAAGCGATTGTTGGCTAGAGTCAGGTTCCACTAAATCGTAAGTCT
1 TAGCATAAGACGATCCCACAGAAGCGATTGTTGGCTAGAGTCAGGTTCCACTAAATCGTAAGTCT
* * *
8478906 AAATCCTTGAAGCTGGTGGTCGTAGGCGTCCTCTTCGACTATAACTGGCTTATTCGATTTGGGAA
66 AAATCATTGAAGCTGGTGGTCATAGGCGTCCTCTTCCACTATAACTGGCTTATTCGATTTGGGAA
*
8478971 GGATCATCTAAAGGCGAGGATTGAACCCAAGGCACAACGAGACAACTGGAGGCTGGAACCTCCCA
131 GGATCATCTAAAGGCGAGGATTGAACCCAAGACACAACGAGACAACTGGAGGCTGGAACCTCCCA
* * *
8479036 AAAGAATTTCCTTTCTTTCAACTCTATTTTTAATTTCTCGAATTTTTGATTCAATATTCTTAATT
196 AAAGAATTTCCTTTCTCTCAACTCTATTTTTAATTTCTCAAATTTTCGATTCAATATTCTTAATT
8479101 CT
261 CT
8479103 ATTTTTATTT
Statistics
Matches: 243, Mismatches: 19, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
270 243 1.00
ACGTcount: A:0.28, C:0.20, G:0.20, T:0.32
Consensus pattern (270 bp):
TAGCATAAGACGATCCCACAGAAGCGATTGTTGGCTAGAGTCAGGTTCCACTAAATCGTAAGTCT
AAATCATTGAAGCTGGTGGTCATAGGCGTCCTCTTCCACTATAACTGGCTTATTCGATTTGGGAA
GGATCATCTAAAGGCGAGGATTGAACCCAAGACACAACGAGACAACTGGAGGCTGGAACCTCCCA
AAAGAATTTCCTTTCTCTCAACTCTATTTTTAATTTCTCAAATTTTCGATTCAATATTCTTAATT
CTGTTATTTT
Found at i:8482247 original size:4 final size:4
Alignment explanation
Indices: 8482223--8482308 Score: 83
Period size: 4 Copynumber: 21.5 Consensus size: 4
8482213 CAACCCAATT
*
8482223 TTTA TTT- TTTA CTTT- TTTA TTTA TTTA TTTA TTTA -TTA TTTTA TTTTC
1 TTTA TTTA TTTA -TTTA TTTA TTTA TTTA TTTA TTTA TTTA -TTTA -TTTA
8482271 TTTA CTTTA TTTA TTTA -TTA TTTTA TTTA -TTA TTTA TT
1 TTTA -TTTA TTTA TTTA TTTA -TTTA TTTA TTTA TTTA TT
8482309 ACTTATTTGG
Statistics
Matches: 71, Mismatches: 2, Indels: 18
0.78 0.02 0.20
Matches are distributed among these distances:
3 15 0.21
4 39 0.55
5 17 0.24
ACGTcount: A:0.21, C:0.03, G:0.00, T:0.76
Consensus pattern (4 bp):
TTTA
Found at i:8482315 original size:30 final size:30
Alignment explanation
Indices: 8482223--8482316 Score: 113
Period size: 30 Copynumber: 3.1 Consensus size: 30
8482213 CAACCCAATT
8482223 TTTATT-TTTTACTTTTTTATTTATTTATTTA
1 TTTATTATTTTA--TTTTTATTTATTTATTTA
*
8482254 TTTATTATTTTA-TTTTCTTTACTTTATTTA
1 TTTATTATTTTATTTTTATTTA-TTTATTTA
*
8482284 TTTATTATTTTATTTATTATTTA-TTACTTA
1 TTTATTATTTTATTT-TTATTTATTTATTTA
8482314 TTT
1 TTT
8482317 GGATATTAAT
Statistics
Matches: 56, Mismatches: 3, Indels: 9
0.82 0.04 0.13
Matches are distributed among these distances:
29 8 0.14
30 29 0.52
31 8 0.14
32 11 0.20
ACGTcount: A:0.21, C:0.04, G:0.00, T:0.74
Consensus pattern (30 bp):
TTTATTATTTTATTTTTATTTATTTATTTA
Found at i:8483491 original size:20 final size:19
Alignment explanation
Indices: 8483468--8483526 Score: 66
Period size: 20 Copynumber: 3.0 Consensus size: 19
8483458 TTCCTAAAGC
*
8483468 ATAAAAAATATAAATAATAA
1 ATAAAAAAAATAAA-AATAA
*
8483488 ATAAATAAAAATCAAAATAA
1 ATAAA-AAAAATAAAAATAA
8483508 ATAAAAAAGAA-AAAAATAA
1 ATAAAAAA-AATAAAAATAA
8483527 TTTGAGGACT
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
19 10 0.29
20 17 0.50
21 7 0.21
ACGTcount: A:0.78, C:0.02, G:0.02, T:0.19
Consensus pattern (19 bp):
ATAAAAAAAATAAAAATAA
Found at i:8483493 original size:11 final size:11
Alignment explanation
Indices: 8483477--8483527 Score: 52
Period size: 11 Copynumber: 4.8 Consensus size: 11
8483467 CATAAAAAAT
8483477 ATAAATAATAA
1 ATAAATAATAA
8483488 ATAAATAA-AA
1 ATAAATAATAA
*
8483498 ATCAA-AATAA
1 ATAAATAATAA
* *
8483508 ATAAAAAAGAA
1 ATAAATAATAA
*
8483519 AAAAATAAT
1 ATAAATAAT
8483528 TTGAGGACTA
Statistics
Matches: 32, Mismatches: 6, Indels: 4
0.76 0.14 0.10
Matches are distributed among these distances:
9 2 0.06
10 12 0.38
11 18 0.56
ACGTcount: A:0.76, C:0.02, G:0.02, T:0.20
Consensus pattern (11 bp):
ATAAATAATAA
Found at i:8483497 original size:23 final size:23
Alignment explanation
Indices: 8483471--8483526 Score: 62
Period size: 23 Copynumber: 2.4 Consensus size: 23
8483461 CTAAAGCATA
*
8483471 AAAAATATAAAT-AATAAATAAAT
1 AAAAATATAAATAAATAAA-AAAG
8483494 AAAAATCA-AAATAAATAAAAAAG
1 AAAAAT-ATAAATAAATAAAAAAG
*
8483517 AAAAAAATAA
1 AAAAATATAA
8483527 TTTGAGGACT
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
22 1 0.04
23 20 0.71
24 7 0.25
ACGTcount: A:0.79, C:0.02, G:0.02, T:0.18
Consensus pattern (23 bp):
AAAAATATAAATAAATAAAAAAG
Found at i:8483520 original size:16 final size:16
Alignment explanation
Indices: 8483486--8483526 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
8483476 TATAAATAAT
*
8483486 AAATAAATAAAAATCA
1 AAATAAATAAAAAACA
*
8483502 AAATAAATAAAAAAGA
1 AAATAAATAAAAAACA
8483518 AAA-AAATAA
1 AAATAAATAA
8483527 TTTGAGGACT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 6 0.26
16 17 0.74
ACGTcount: A:0.80, C:0.02, G:0.02, T:0.15
Consensus pattern (16 bp):
AAATAAATAAAAAACA
Found at i:8484100 original size:15 final size:15
Alignment explanation
Indices: 8484075--8484109 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
8484065 GACTCTATTT
*
8484075 TAATT-ATATTAGGA
1 TAATTAATATTAAGA
8484089 TAATTAATATTAAGA
1 TAATTAATATTAAGA
8484104 TAATTA
1 TAATTA
8484110 TTAAGGATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 5 0.26
15 14 0.74
ACGTcount: A:0.49, C:0.00, G:0.09, T:0.43
Consensus pattern (15 bp):
TAATTAATATTAAGA
Found at i:8488642 original size:24 final size:25
Alignment explanation
Indices: 8488594--8488647 Score: 76
Period size: 24 Copynumber: 2.2 Consensus size: 25
8488584 TAATACTTTA
8488594 TATATATGTATTAATGATTAGATAT
1 TATATATGTATTAATGATTAGATAT
*
8488619 TATATAT-TATGTAAT-ATTATATAT
1 TATATATGTAT-TAATGATTAGATAT
8488643 TATAT
1 TATAT
8488648 TATAATCTAT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
24 16 0.59
25 11 0.41
ACGTcount: A:0.41, C:0.00, G:0.07, T:0.52
Consensus pattern (25 bp):
TATATATGTATTAATGATTAGATAT
Found at i:8501224 original size:26 final size:26
Alignment explanation
Indices: 8501195--8501248 Score: 108
Period size: 26 Copynumber: 2.1 Consensus size: 26
8501185 TACAAAGTAT
8501195 TATCAGACTTATAAATCAAACAATCA
1 TATCAGACTTATAAATCAAACAATCA
8501221 TATCAGACTTATAAATCAAACAATCA
1 TATCAGACTTATAAATCAAACAATCA
8501247 TA
1 TA
8501249 CATTTCACGT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.50, C:0.19, G:0.04, T:0.28
Consensus pattern (26 bp):
TATCAGACTTATAAATCAAACAATCA
Found at i:8502844 original size:25 final size:25
Alignment explanation
Indices: 8502801--8502872 Score: 72
Period size: 25 Copynumber: 2.9 Consensus size: 25
8502791 ACAAGTGATA
* *
8502801 AACGGTAAGCTCCTCCGAGCTGAAT
1 AACGGTAAGCTCATACGAGCTGAAT
* *
8502826 AACGGTAAGCTCATACGAGTTGAGT
1 AACGGTAAGCTCATACGAGCTGAAT
* ** *
8502851 ATCAATAAGCTCATAAGAGCTG
1 AACGGTAAGCTCATACGAGCTG
8502873 GATTCGGTAA
Statistics
Matches: 38, Mismatches: 9, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
25 38 1.00
ACGTcount: A:0.33, C:0.21, G:0.24, T:0.22
Consensus pattern (25 bp):
AACGGTAAGCTCATACGAGCTGAAT
Found at i:8507698 original size:20 final size:20
Alignment explanation
Indices: 8507673--8507713 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
8507663 TGCCATTGAG
8507673 AATCATCTTCATATGATTAT
1 AATCATCTTCATATGATTAT
*
8507693 AATCATCTTCGTATGATTAT
1 AATCATCTTCATATGATTAT
8507713 A
1 A
8507714 GATTATTCGA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.34, C:0.15, G:0.07, T:0.44
Consensus pattern (20 bp):
AATCATCTTCATATGATTAT
Found at i:8523185 original size:22 final size:22
Alignment explanation
Indices: 8523130--8523194 Score: 71
Period size: 22 Copynumber: 3.0 Consensus size: 22
8523120 TTGCAGTAAG
*
8523130 CCACGATATTTTATTTAAGTTC
1 CCACGATATTTTATTTTAGTTC
* * *
8523152 CCA-GAGT-GTTTATTTTTGTTT
1 CCACGA-TATTTTATTTTAGTTC
8523173 CCACGATATTTTATTTTAGTTC
1 CCACGATATTTTATTTTAGTTC
8523195 TCGGGCCAAA
Statistics
Matches: 33, Mismatches: 7, Indels: 6
0.72 0.15 0.13
Matches are distributed among these distances:
21 16 0.48
22 17 0.52
ACGTcount: A:0.22, C:0.15, G:0.12, T:0.51
Consensus pattern (22 bp):
CCACGATATTTTATTTTAGTTC
Found at i:8525208 original size:31 final size:29
Alignment explanation
Indices: 8525139--8525212 Score: 94
Period size: 29 Copynumber: 2.5 Consensus size: 29
8525129 ACAAAATAAT
**
8525139 AACATAAGTGACTAAAACGTAACATTTCA
1 AACATAAGTGACTAAAACGTAACATGGCA
*
8525168 AACATAAGTGACTAAAATGTAACATGAGGCA
1 AACATAAGTGACTAAAACGTAACAT--GGCA
*
8525199 AACAAAAGTGACTA
1 AACATAAGTGACTA
8525213 TTTTTATAGT
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
29 24 0.62
31 15 0.38
ACGTcount: A:0.50, C:0.15, G:0.15, T:0.20
Consensus pattern (29 bp):
AACATAAGTGACTAAAACGTAACATGGCA
Found at i:8527603 original size:114 final size:114
Alignment explanation
Indices: 8527420--8528078 Score: 556
Period size: 114 Copynumber: 5.8 Consensus size: 114
8527410 AAATCTCAAG
* * * *
8527420 ACCAACACGCAGCGTTCTGGTCTTGATGTATATTAGAATTAGTGGCGCTTACGAA--CAAACGCC
1 ACCAAAACGCAGAGTT-TGGTCTTGATGTATATTAGAATTAGTGGCGCTTA-TAAGGAAAACGCC
* * * *
8527483 GGTAATGCATAGTATTAGCGGCGCTTAGCAAAAGCGCCGCAAAAGGTGTTA
64 GCTAATGCATAGTATTAGCGGCGCTTAGCGAAAGCGCCGCAAAAGATCTTA
* *
8527534 ACCAAAACGCAGAGTTTGGTCTTGATGTATATTACAATTAGTGGCGCTTATAAAGAAAACGCCGC
1 ACCAAAACGCAGAGTTTGGTCTTGATGTATATTAGAATTAGTGGCGCTTATAAGGAAAACGCCGC
* * * *
8527599 TAATGTATAGTATTAGCGGCGCTGAGCGTTCAA-CGCCGCAAAACATCTTA
66 TAATGCATAGTATTAGCGGCGCTTAGCG--AAAGCGCCGCAAAAGATCTTA
* * * * * *
8527649 ACCAAAATGCAGCGTTTTGGTCTTGATGTATACTATAATTAGTGGAG-TT-TAAGGAAAACGCCA
1 ACCAAAACGCAGAG-TTTGGTCTTGATGTATATTAGAATTAGTGGCGCTTATAAGGAAAACGCCG
* * * * * * * * * *
8527712 TTAAAGCATAGTAATAGCAGCGTTTGGTGGTAAGCGCCTCAAAATATCTTA
65 CTAATGCATAGTATTAGCGGCGCTTAG-CGAAAGCGCCGCAAAAGATCTTA
* * *
8527763 ACCAAAACGCGGAGTTTGGTCTTGAGGTATATTAGAATTAGTGGCGCTTAT-TGGAAAACGCCGC
1 ACCAAAACGCAGAGTTTGGTCTTGATGTATATTAGAATTAGTGGCGCTTATAAGGAAAACGCCGC
* * * * *
8527827 TAAAGTATAGTAGTAGCGGCG-TTTGTGGAAAGCGCC-C-AAAGTATCTTA
66 TAATGCATAGTATTAGCGGCGCTTAG-CGAAAGCGCCGCAAAAG-ATCTTA
* * * ** *
8527875 ACCAAAACGCAGAGTTTGGCCTTGACGTATATTAGAGTTAGTGGCGCTTACT--TCAAAACGCAG
1 ACCAAAACGCAGAGTTTGGTCTTGATGTATATTAGAATTAGTGGCGCTTA-TAAGGAAAACGCCG
* * * * * *
8527938 CTAATGCTTACTATTTGCGGCGCTTTTTG-GTAAGCGCCGCCAAAAGATATTA
65 CTAATGCATAGTATTAGCGGCGC--TTAGCGAAAGCGCCG-CAAAAGATCTTA
* * * * * * * *
8527990 ACGAAAACACAGCGTTTAGTTCTTGATGTATACTGGAATTAGTGGCGC--ACACAGGAAAACGCT
1 ACCAAAACGCAGAGTTT-GGTCTTGATGTATATTAGAATTAGTGGCGCTTATA-AGGAAAACGCC
8528053 GCTGAA-GCATAGTATTAGCGGCGCTT
64 GCT-AATGCATAGTATTAGCGGCGCTT
8528079 TTCTCGAAAC
Statistics
Matches: 444, Mismatches: 79, Indels: 44
0.78 0.14 0.08
Matches are distributed among these distances:
111 3 0.01
112 79 0.18
113 85 0.19
114 137 0.31
115 54 0.12
116 84 0.19
117 2 0.00
ACGTcount: A:0.31, C:0.19, G:0.24, T:0.27
Consensus pattern (114 bp):
ACCAAAACGCAGAGTTTGGTCTTGATGTATATTAGAATTAGTGGCGCTTATAAGGAAAACGCCGC
TAATGCATAGTATTAGCGGCGCTTAGCGAAAGCGCCGCAAAAGATCTTA
Found at i:8527749 original size:229 final size:228
Alignment explanation
Indices: 8527428--8527847 Score: 563
Period size: 229 Copynumber: 1.8 Consensus size: 228
8527418 AGACCAACAC
* * * * *
8527428 GCAGCGTTCTGGTCTTGATGTATATTAGAATTAGTGGCGCTTACGAACAAACGCCGGTAATGCAT
1 GCAGCGTTCTGGTCTTGATGTATACTAGAATTAGTGGAGCTTAAGAACAAACGCCAGTAAAGCAT
* * * *
8527493 AGTATTAGCGGCGCTTAGCAAAAGCGCCGCAAAAGGTGTTAACCAAAACGCAGAGTTTGGTCTTG
66 AGTAATAGCAGCGCTTAGCAAAAGCGCCGCAAAAGATCTTAACCAAAACGCAGAGTTTGGTCTTG
* * *
8527558 ATGTATATTACAATTAGTGGCGCTTATAAAGAAAACGCCGCTAATGTATAGTATTAGCGGCGCTG
131 AGGTATATTACAATTAGTGGCGCTTAT-AAGAAAACGCCGCTAAAGTATAGTAGTAGCGGCGCTG
8527623 AGCGTTCAACGCCGCAAAACATCTTAACCAAAAT
195 AGCGTTCAACGCCGCAAAACATCTTAACCAAAAT
* * * * *
8527657 GCAGCGTTTTGGTCTTGATGTATACTATAATTAGTGGAGTTTAAGGA-AAACGCCATTAAAGCAT
1 GCAGCGTTCTGGTCTTGATGTATACTAGAATTAGTGGAGCTTAAGAACAAACGCCAGTAAAGCAT
* * *** * * *
8527721 AGTAATAGCAGCGTTTGGTGGTAAGCGCCTCAAAATATCTTAACCAAAACGCGGAGTTTGGTCTT
66 AGTAATAGCAGCGCTTAG-CAAAAGCGCCGCAAAAGATCTTAACCAAAACGCAGAGTTTGGTCTT
* **
8527786 GAGGTATATTAGAATTAGTGGCGCTTATTGGAAAACGCCGCTAAAGTATAGTAGTAGCGGCG
130 GAGGTATATTACAATTAGTGGCGCTTATAAGAAAACGCCGCTAAAGTATAGTAGTAGCGGCG
8527848 TTTGTGGAAA
Statistics
Matches: 162, Mismatches: 28, Indels: 3
0.84 0.15 0.02
Matches are distributed among these distances:
228 58 0.36
229 104 0.64
ACGTcount: A:0.31, C:0.17, G:0.25, T:0.27
Consensus pattern (228 bp):
GCAGCGTTCTGGTCTTGATGTATACTAGAATTAGTGGAGCTTAAGAACAAACGCCAGTAAAGCAT
AGTAATAGCAGCGCTTAGCAAAAGCGCCGCAAAAGATCTTAACCAAAACGCAGAGTTTGGTCTTG
AGGTATATTACAATTAGTGGCGCTTATAAGAAAACGCCGCTAAAGTATAGTAGTAGCGGCGCTGA
GCGTTCAACGCCGCAAAACATCTTAACCAAAAT
Found at i:8528215 original size:18 final size:19
Alignment explanation
Indices: 8528181--8528217 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
8528171 TCATTTTATA
*
8528181 TGTTTTTTTATATTTAATT
1 TGTTTATTTATATTTAATT
8528200 TGTTTATTTATA-TTAATT
1 TGTTTATTTATATTTAATT
8528218 AAAATTCAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 6 0.35
19 11 0.65
ACGTcount: A:0.24, C:0.00, G:0.05, T:0.70
Consensus pattern (19 bp):
TGTTTATTTATATTTAATT
Found at i:8528621 original size:20 final size:20
Alignment explanation
Indices: 8528571--8528622 Score: 59
Period size: 20 Copynumber: 2.5 Consensus size: 20
8528561 TATAAAATAT
*
8528571 GGTTTAAGGGTTAGGGGTTAG
1 GGTTT-AGGGTTAGGAGTTAG
* * *
8528592 GGATTCGGGTTAGGATTTAG
1 GGTTTAGGGTTAGGAGTTAG
8528612 GGTTTAGGGTT
1 GGTTTAGGGTT
8528623 TTGATTAATT
Statistics
Matches: 25, Mismatches: 6, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
20 21 0.84
21 4 0.16
ACGTcount: A:0.17, C:0.02, G:0.44, T:0.37
Consensus pattern (20 bp):
GGTTTAGGGTTAGGAGTTAG
Found at i:8528621 original size:88 final size:89
Alignment explanation
Indices: 8528520--8528682 Score: 213
Period size: 88 Copynumber: 1.8 Consensus size: 89
8528510 CGGTGTCAGG
* * *
8528520 TTAGGCTTTAGGGTTTAGATTAATTAGTGTGTTTAAATTT-T-TATAAAATATGGTTTAAGGGTT
1 TTAGGCTTTAGGGTTTAGATTAATTAATATGTTTAAATTTATGTATAAAATAAGGTTT-AGGGTT
*
8528583 AGGGGTTAGGGATTCGGGTTAGGAT
65 AGGAGTTAGGGATTCGGGTTAGGAT
* * * * *
8528608 TTAGGGTTTAGGGTTTTGATTAATTAATATTTTTTAATTTATGTATTAAATAAGGTTTAGGGTTA
1 TTAGGCTTTAGGGTTTAGATTAATTAATATGTTTAAATTTATGTATAAAATAAGGTTTAGGGTTA
*
8528673 GTAGTTAGGG
66 GGAGTTAGGG
8528683 CCGGGGTTAG
Statistics
Matches: 63, Mismatches: 10, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
88 34 0.54
89 16 0.25
90 13 0.21
ACGTcount: A:0.27, C:0.01, G:0.27, T:0.45
Consensus pattern (89 bp):
TTAGGCTTTAGGGTTTAGATTAATTAATATGTTTAAATTTATGTATAAAATAAGGTTTAGGGTTA
GGAGTTAGGGATTCGGGTTAGGAT
Found at i:8528690 original size:88 final size:88
Alignment explanation
Indices: 8528520--8528710 Score: 201
Period size: 88 Copynumber: 2.2 Consensus size: 88
8528510 CGGTGTCAGG
* * * *
8528520 TTAGGCTTTAGGGTTTAGATTAATTAGTGTGTTTAAATTTTTATAAAATATGGTTTAAGGGTTAG
1 TTAGGGTTTAGGGTTTAGATTAATTAATATGTTTAAATTTTTATAAAATAAGGTTTAAGGGTTAG
* *
8528585 GGGTTAGGGATTCGGGTTAG-GAT
66 GAGTTAGGGA-CCGGGTTAGTGAT
* * * *
8528608 TTAGGGTTTAGGGTTTTGATTAATTAATATTTTTTAATTTATGTATTAAATAAGGTTT-AGGGTT
1 TTAGGGTTTAGGGTTTAGATTAATTAATATGTTTAAATTT-T-TATAAAATAAGGTTTAAGGGTT
* *
8528672 AGTAGTTAGGG-CCGGGGTTAGTGGT
64 AGGAGTTAGGGACC-GGGTTAGTGAT
*
8528697 TT-GGGTTAAGGGTT
1 TTAGGGTTTAGGGTT
8528711 AGAAGATAAG
Statistics
Matches: 86, Mismatches: 13, Indels: 8
0.80 0.12 0.07
Matches are distributed among these distances:
87 1 0.01
88 52 0.60
89 20 0.23
90 13 0.15
ACGTcount: A:0.25, C:0.02, G:0.30, T:0.43
Consensus pattern (88 bp):
TTAGGGTTTAGGGTTTAGATTAATTAATATGTTTAAATTTTTATAAAATAAGGTTTAAGGGTTAG
GAGTTAGGGACCGGGTTAGTGAT
Found at i:8529107 original size:7 final size:7
Alignment explanation
Indices: 8529097--8529150 Score: 63
Period size: 7 Copynumber: 7.6 Consensus size: 7
8529087 GACTTTTAGT
8529097 GTTTGGG
1 GTTTGGG
*
8529104 GTTTTAGG
1 G-TTTGGG
8529112 GTTTGGG
1 GTTTGGG
*
8529119 GTTTAGG
1 GTTTGGG
8529126 GTTTGGG
1 GTTTGGG
*
8529133 ATTTGGG
1 GTTTGGG
*
8529140 GTTTGAG
1 GTTTGGG
8529147 GTTT
1 GTTT
8529151 AAGGTTTAGA
Statistics
Matches: 39, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
7 33 0.85
8 6 0.15
ACGTcount: A:0.07, C:0.00, G:0.46, T:0.46
Consensus pattern (7 bp):
GTTTGGG
Found at i:8529125 original size:14 final size:14
Alignment explanation
Indices: 8529091--8529157 Score: 80
Period size: 14 Copynumber: 4.7 Consensus size: 14
8529081 GGTTTTGACT
*
8529091 TTTAGTGTTTGGGG
1 TTTAGGGTTTGGGG
8529105 TTTTAGGGTTTGGGG
1 -TTTAGGGTTTGGGG
*
8529120 TTTAGGGTTTGGGA
1 TTTAGGGTTTGGGG
* *
8529134 TTTGGGGTTTGAGG
1 TTTAGGGTTTGGGG
*
8529148 TTTAAGGTTT
1 TTTAGGGTTT
8529158 AGAAATTATA
Statistics
Matches: 45, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
14 32 0.71
15 13 0.29
ACGTcount: A:0.10, C:0.00, G:0.42, T:0.48
Consensus pattern (14 bp):
TTTAGGGTTTGGGG
Found at i:8529837 original size:43 final size:43
Alignment explanation
Indices: 8529735--8529858 Score: 155
Period size: 42 Copynumber: 2.9 Consensus size: 43
8529725 GTTTGTGAAA
*
8529735 TAAGCGCCGCTAAAGAACACTACTTTTAGCGGCATTTTTGACC
1 TAAGCGCCGCTAAAGAACATTACTTTTAGCGGCATTTTTGACC
* * *
8529778 -AAGCGCCGCTATAGAACATTACTTTTAGCGGCGTTTTCT-TCC
1 TAAGCGCCGCTAAAGAACATTACTTTTAGCGGCATTTT-TGACC
* *
8529820 TAAGCGCCGCTAAAGAACATGA-TCTTTAGCTGCATTTTT
1 TAAGCGCCGCTAAAGAACATTACT-TTTAGCGGCATTTTT
8529859 TTCTGTAAGC
Statistics
Matches: 70, Mismatches: 8, Indels: 7
0.82 0.09 0.08
Matches are distributed among these distances:
42 38 0.54
43 32 0.46
ACGTcount: A:0.26, C:0.24, G:0.19, T:0.31
Consensus pattern (43 bp):
TAAGCGCCGCTAAAGAACATTACTTTTAGCGGCATTTTTGACC
Found at i:8530585 original size:35 final size:36
Alignment explanation
Indices: 8530533--8530602 Score: 106
Period size: 35 Copynumber: 2.0 Consensus size: 36
8530523 ACAGAAATGC
* *
8530533 TTTTTAGTTCTTATATATATTTGTA-ATTTTATAAT
1 TTTTTAGATCTTATATATATTTATATATTTTATAAT
*
8530568 TTTTTAGATCTTTTATATATTTATATATTTTATAA
1 TTTTTAGATCTTATATATATTTATATATTTTATAA
8530603 ATCTATATTT
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
35 22 0.71
36 9 0.29
ACGTcount: A:0.30, C:0.03, G:0.04, T:0.63
Consensus pattern (36 bp):
TTTTTAGATCTTATATATATTTATATATTTTATAAT
Found at i:8530598 original size:17 final size:17
Alignment explanation
Indices: 8530546--8530635 Score: 69
Period size: 17 Copynumber: 5.3 Consensus size: 17
8530536 TTAGTTCTTA
*
8530546 TATATATTTGTA-ATTT
1 TATATATTTATATATTT
* * *
8530562 TATAATTTTTTAGATCTTT
1 TAT-A-TATTTATATATTT
8530581 TATATATTTATATATTT
1 TATATATTTATATATTT
* *
8530598 TATAAATCTATAT-TTT
1 TATATATTTATATATTT
*
8530614 TAT-TAATTTATATATTA
1 TATAT-ATTTATATATTT
8530631 TATAT
1 TATAT
8530636 TTTTCAAAAT
Statistics
Matches: 56, Mismatches: 12, Indels: 10
0.72 0.15 0.13
Matches are distributed among these distances:
16 16 0.29
17 27 0.48
18 7 0.12
19 6 0.11
ACGTcount: A:0.34, C:0.02, G:0.02, T:0.61
Consensus pattern (17 bp):
TATATATTTATATATTT
Found at i:8536923 original size:28 final size:27
Alignment explanation
Indices: 8536892--8536953 Score: 70
Period size: 28 Copynumber: 2.3 Consensus size: 27
8536882 AGGCATTGTT
*
8536892 TTTTATGATACATATACATACGCATGAC
1 TTTTATAATACATATACATACGCAT-AC
* * * *
8536920 TTTTATAATATATATATATAGGCATTC
1 TTTTATAATACATATACATACGCATAC
8536947 TTTTATA
1 TTTTATA
8536954 CAGTATACAT
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
27 8 0.28
28 21 0.72
ACGTcount: A:0.35, C:0.11, G:0.08, T:0.45
Consensus pattern (27 bp):
TTTTATAATACATATACATACGCATAC
Found at i:8548556 original size:29 final size:28
Alignment explanation
Indices: 8548522--8548585 Score: 101
Period size: 29 Copynumber: 2.2 Consensus size: 28
8548512 AATAAACACC
*
8548522 AAAAATTTATTTTAAAAATAAAAAAATTA
1 AAAAATATATTTTAAAAATAAAAAAA-TA
*
8548551 AAAAATATATTTTAAAATTAAAAAAATA
1 AAAAATATATTTTAAAAATAAAAAAATA
8548579 AAAAATA
1 AAAAATA
8548586 AAAATATTTA
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
28 9 0.27
29 24 0.73
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (28 bp):
AAAAATATATTTTAAAAATAAAAAAATA
Found at i:8552078 original size:27 final size:27
Alignment explanation
Indices: 8552046--8552098 Score: 106
Period size: 27 Copynumber: 2.0 Consensus size: 27
8552036 TTTTCCTATA
8552046 AACAAAATTTCTGTCGAGGCAATAGTG
1 AACAAAATTTCTGTCGAGGCAATAGTG
8552073 AACAAAATTTCTGTCGAGGCAATAGT
1 AACAAAATTTCTGTCGAGGCAATAGT
8552099 CATGCCCATA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.38, C:0.15, G:0.21, T:0.26
Consensus pattern (27 bp):
AACAAAATTTCTGTCGAGGCAATAGTG
Found at i:8552139 original size:5 final size:5
Alignment explanation
Indices: 8552129--8552165 Score: 74
Period size: 5 Copynumber: 7.4 Consensus size: 5
8552119 AGCTTGCTGA
8552129 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AA
8552166 GGGGGATGAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 32 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AAAAT
Found at i:8561334 original size:31 final size:31
Alignment explanation
Indices: 8561281--8561424 Score: 78
Period size: 31 Copynumber: 4.4 Consensus size: 31
8561271 TTTTGTATTA
* * * *
8561281 ATTTATATTTTATGTATCATTATATTAAATT
1 ATTTAAATATTATTTATTATTATATTAAATT
*
8561312 ATTTAAATATTATTTATTATTATATTTAAAAT
1 ATTTAAATATTATTTATTATTATA-TTAAATT
* * * *
8561344 -TTTAAA-ATAATTTACTAATTAT-TAAAAAGT
1 ATTTAAATATTATTTA-TTATTATAT-TAAATT
* *
8561374 ATTTAAAACATATATTTTATGCATAATTATATCAAATT
1 ATTT-AAATAT-TA-TTTAT---T-ATTATATTAAATT
8561412 ATTTAAATATTAT
1 ATTTAAATATTAT
8561425 CTAATTTATT
Statistics
Matches: 86, Mismatches: 14, Indels: 22
0.70 0.11 0.18
Matches are distributed among these distances:
29 1 0.01
30 11 0.13
31 35 0.41
32 9 0.10
33 2 0.02
34 2 0.02
35 5 0.06
36 2 0.02
37 5 0.06
38 13 0.15
39 1 0.01
ACGTcount: A:0.44, C:0.03, G:0.02, T:0.51
Consensus pattern (31 bp):
ATTTAAATATTATTTATTATTATATTAAATT
Found at i:8563388 original size:43 final size:42
Alignment explanation
Indices: 8563340--8563436 Score: 106
Period size: 43 Copynumber: 2.3 Consensus size: 42
8563330 AGAAAACGCG
*
8563340 TCCAACTGGGCACATTTTCCCTAACATGTCAACAAAAAATGCT
1 TCCAACTGGGC-CATTTTCCCCAACATGTCAACAAAAAATGCT
** * * *
8563383 TCCAACCTGGTG-TGTTTTCCCCGACATGTTAGCAAAAAATGCT
1 TCCAA-CTGG-GCCATTTTCCCCAACATGTCAACAAAAAATGCT
8563426 TCCAACTGGGC
1 TCCAACTGGGC
8563437 GTGCTTTCTT
Statistics
Matches: 45, Mismatches: 6, Indels: 7
0.78 0.10 0.12
Matches are distributed among these distances:
41 1 0.02
42 4 0.09
43 35 0.78
44 4 0.09
45 1 0.02
ACGTcount: A:0.29, C:0.28, G:0.16, T:0.27
Consensus pattern (42 bp):
TCCAACTGGGCCATTTTCCCCAACATGTCAACAAAAAATGCT
Found at i:8566642 original size:18 final size:18
Alignment explanation
Indices: 8566621--8566655 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
8566611 AAAAATAAAC
8566621 TTTTAAA-TTTATTTTTAT
1 TTTTAAAGTTT-TTTTTAT
8566639 TTTTAAAGTTTTTTTTA
1 TTTTAAAGTTTTTTTTA
8566656 AATTTTTTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 13 0.81
19 3 0.19
ACGTcount: A:0.26, C:0.00, G:0.03, T:0.71
Consensus pattern (18 bp):
TTTTAAAGTTTTTTTTAT
Found at i:8574784 original size:24 final size:25
Alignment explanation
Indices: 8574756--8574808 Score: 72
Period size: 24 Copynumber: 2.2 Consensus size: 25
8574746 GGCCGTACCT
*
8574756 GCAGCAAACAAAAACA-AACACACA
1 GCAGCAAACAAAAACAGAAAACACA
* *
8574780 GCAGCAAAGAATAACAGAAAACACA
1 GCAGCAAACAAAAACAGAAAACACA
8574805 GCAG
1 GCAG
8574809 AAAAGAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
24 14 0.56
25 11 0.44
ACGTcount: A:0.58, C:0.25, G:0.15, T:0.02
Consensus pattern (25 bp):
GCAGCAAACAAAAACAGAAAACACA
Found at i:8580198 original size:43 final size:44
Alignment explanation
Indices: 8580071--8580343 Score: 169
Period size: 43 Copynumber: 6.3 Consensus size: 44
8580061 GCTGTAGATG
* * * * * *
8580071 CACAGCAAAATTTGCAGATAAAATCTACCACT-GGACAGTGGATTA
1 CACAACAAAATTCGCAGATAAAATTTGCCACTAAGA-TGTGGA-TA
* * ** * *
8580116 CACAACAAAATTTGCAGAT-AAATCTATCACTAGGCTGTGGATA
1 CACAACAAAATTCGCAGATAAAATTTGCCACTAAGATGTGGATA
* * *
8580159 CACAAC-AAATTCGCATATAAAATTTTCCATTAAGATGTGGATA
1 CACAACAAAATTCGCAGATAAAATTTGCCACTAAGATGTGGATA
* * * *
8580202 CATAACAAAATTCGTAGATAAAATTTGCCACTAAGTTGTGGGTA
1 CACAACAAAATTCGCAGATAAAATTTGCCACTAAGATGTGGATA
** * * * ** *
8580246 CACAGTAAAATTTGCAGAT-AAATCTGCCACTGATCTGTGGGTA
1 CACAACAAAATTCGCAGATAAAATTTGCCACTAAGATGTGGATA
* * * * * ** * *
8580289 TATAGCAAAATTCGCAGAT-AAGTCTGCCACTGGGCTATGGATA
1 CACAACAAAATTCGCAGATAAAATTTGCCACTAAGATGTGGATA
8580332 CACAACAAAATT
1 CACAACAAAATT
8580344 TTGTAGATGA
Statistics
Matches: 185, Mismatches: 40, Indels: 8
0.79 0.17 0.03
Matches are distributed among these distances:
42 10 0.05
43 94 0.51
44 61 0.33
45 20 0.11
ACGTcount: A:0.38, C:0.18, G:0.17, T:0.26
Consensus pattern (44 bp):
CACAACAAAATTCGCAGATAAAATTTGCCACTAAGATGTGGATA
Found at i:8580524 original size:38 final size:38
Alignment explanation
Indices: 8580467--8580601 Score: 117
Period size: 38 Copynumber: 3.6 Consensus size: 38
8580457 TATAATAGAA
* ** * *
8580467 CAATTCAACACTAGTAGTAGATATGTATAGCATATACT
1 CAATTCAGCACTAACAGTAGAAATGTATAACATATACT
* * *
8580505 CAATTTAGCACTAACAGTAGAAATGTTTAACATGTACT
1 CAATTCAGCACTAACAGTAGAAATGTATAACATATACT
* * * * * *
8580543 CAATTCATCATTAACAGTAGACATTTTTAACATGTACT
1 CAATTCAGCACTAACAGTAGAAATGTATAACATATACT
* * *
8580581 CAGTTCATCATTAACAGTAGA
1 CAATTCAGCACTAACAGTAGA
8580602 CATACTTATC
Statistics
Matches: 83, Mismatches: 14, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
38 83 1.00
ACGTcount: A:0.39, C:0.17, G:0.12, T:0.33
Consensus pattern (38 bp):
CAATTCAGCACTAACAGTAGAAATGTATAACATATACT
Found at i:8580594 original size:22 final size:21
Alignment explanation
Indices: 8580531--8580596 Score: 61
Period size: 22 Copynumber: 3.3 Consensus size: 21
8580521 GTAGAAATGT
8580531 TTAACATGTACTCAATTCATCA
1 TTAACATGTACTC-ATTCATCA
**
8580553 TTAACA-GTAGACATT--T--
1 TTAACATGTACTCATTCATCA
8580569 TTAACATGTACTCAGTTCATCA
1 TTAACATGTACTCA-TTCATCA
8580591 TTAACA
1 TTAACA
8580597 GTAGACATAC
Statistics
Matches: 34, Mismatches: 4, Indels: 12
0.68 0.08 0.24
Matches are distributed among these distances:
16 6 0.18
17 5 0.15
18 3 0.09
20 4 0.12
21 4 0.12
22 12 0.35
ACGTcount: A:0.36, C:0.20, G:0.08, T:0.36
Consensus pattern (21 bp):
TTAACATGTACTCATTCATCA
Found at i:8580602 original size:38 final size:38
Alignment explanation
Indices: 8580482--8580604 Score: 156
Period size: 38 Copynumber: 3.2 Consensus size: 38
8580472 CAACACTAGT
* * * * * * *
8580482 AGTAGATATGTATAGCATATACTCAATTTAGCACTAAC
1 AGTAGACATGTTTAACATGTACTCAATTCATCATTAAC
*
8580520 AGTAGAAATGTTTAACATGTACTCAATTCATCATTAAC
1 AGTAGACATGTTTAACATGTACTCAATTCATCATTAAC
* *
8580558 AGTAGACATTTTTAACATGTACTCAGTTCATCATTAAC
1 AGTAGACATGTTTAACATGTACTCAATTCATCATTAAC
8580596 AGTAGACAT
1 AGTAGACAT
8580605 ACTTATCATG
Statistics
Matches: 75, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
38 75 1.00
ACGTcount: A:0.38, C:0.16, G:0.12, T:0.33
Consensus pattern (38 bp):
AGTAGACATGTTTAACATGTACTCAATTCATCATTAAC
Found at i:8581261 original size:21 final size:19
Alignment explanation
Indices: 8581229--8581274 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 19
8581219 GATTGATGTC
8581229 AAGATTGACAAGATTTGCAA
1 AAGATTGACAAGA-TTGCAA
*
8581249 AAGAGTTGTCAAGATTGCAA
1 AAGA-TTGACAAGATTGCAA
8581269 ATAGAT
1 A-AGAT
8581275 CAATTGAACG
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
20 12 0.52
21 11 0.48
ACGTcount: A:0.43, C:0.09, G:0.22, T:0.26
Consensus pattern (19 bp):
AAGATTGACAAGATTGCAA
Found at i:8583467 original size:9 final size:9
Alignment explanation
Indices: 8583456--8583531 Score: 107
Period size: 9 Copynumber: 8.4 Consensus size: 9
8583446 TTTGGTTAAA
*
8583456 AATTAACCA
1 AATTAACCG
8583465 AATTAACCG
1 AATTAACCG
8583474 AATTAACCG
1 AATTAACCG
*
8583483 AATTACCCG
1 AATTAACCG
*
8583492 AATTACCCG
1 AATTAACCG
*
8583501 AATTACCCG
1 AATTAACCG
8583510 AATTAACCG
1 AATTAACCG
*
8583519 AATTAACCA
1 AATTAACCG
8583528 AATT
1 AATT
8583532 GAATCACTAC
Statistics
Matches: 63, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
9 63 1.00
ACGTcount: A:0.43, C:0.25, G:0.08, T:0.24
Consensus pattern (9 bp):
AATTAACCG
Found at i:8583877 original size:18 final size:19
Alignment explanation
Indices: 8583842--8583893 Score: 52
Period size: 18 Copynumber: 2.7 Consensus size: 19
8583832 AACCGACCGA
***
8583842 TTAACCGAATTCGGTCGG-
1 TTAACCGAATTTTTTCGGT
8583860 TTAACCGAATTTTTTCGGTT
1 TTAACCGAATTTTTTCGG-T
*
8583880 TTACCCGAATTTTT
1 TTAACCGAATTTTT
8583894 CACACCCCTA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
18 15 0.54
20 13 0.46
ACGTcount: A:0.21, C:0.19, G:0.17, T:0.42
Consensus pattern (19 bp):
TTAACCGAATTTTTTCGGT
Found at i:8589529 original size:9 final size:8
Alignment explanation
Indices: 8589515--8589557 Score: 50
Period size: 9 Copynumber: 5.0 Consensus size: 8
8589505 AAATTTTTCA
8589515 TTTAAATT
1 TTTAAATT
8589523 CTTTAAAATT
1 -TTT-AAATT
8589533 TTTAAAGTT
1 TTTAAA-TT
*
8589542 TTTAAAAT
1 TTTAAATT
8589550 TTTAAATT
1 TTTAAATT
8589558 AGTAAAAATA
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
8 11 0.37
9 14 0.47
10 5 0.17
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.56
Consensus pattern (8 bp):
TTTAAATT
Found at i:8589538 original size:18 final size:16
Alignment explanation
Indices: 8589515--8589557 Score: 59
Period size: 18 Copynumber: 2.5 Consensus size: 16
8589505 AAATTTTTCA
8589515 TTTAAATTCTTTAAAATT
1 TTTAAATT-TTTAAAA-T
8589533 TTTAAAGTTTTTAAAAT
1 TTTAAA-TTTTTAAAAT
8589550 TTTAAATT
1 TTTAAATT
8589558 AGTAAAAATA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
16 2 0.08
17 7 0.29
18 13 0.54
19 2 0.08
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.56
Consensus pattern (16 bp):
TTTAAATTTTTAAAAT
Found at i:8591089 original size:126 final size:124
Alignment explanation
Indices: 8590842--8591217 Score: 511
Period size: 126 Copynumber: 3.0 Consensus size: 124
8590832 GGATTGTTTG
* *
8590842 GGTCTTGAAAAAATTATTTCGAGTTGACGTTTCTGAGAAAATAGTATAAAATCGCTTCTA-CTAG
1 GGTCCTGAAAAAATTATTTCGAGTTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTAGC-AG
* * *
8590906 GATGCTTTATGAGAAGAATTTGTGAAATCGTGCCCACGTGGACACGATTTTGCTACAGTA
65 GATGCTTTATGAGAAGAATTTATGAAATCGCGCCCACGTGGACGCGATTTTGCTACAGTA
* * * *
8590966 GGTCCTGAAAAAATTATTTCGAGTTGACGTTTCTGAGCAAATAGTTTAAAAAAACACTTCAAGCA
1 GGTCCTGAAAAAATTATTTCGAGTTGACGTTTCTGAGCAAATAG--TATAAAATCGCTTCTAGCA
** * * * ** * *
8591031 GGATGCGATCTGAGAAAAATTTCTGAAATCGCGCCTTCGTGGACGCGGTTTTGCTACAGTT
64 GGATGCTTTATGAGAAGAATTTATGAAATCGCGCCCACGTGGACGCGATTTTGCTACAGTA
* * *
8591092 GGTCCTGAAAGAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTGGCAA
1 GGTCCTGAAA-AAATTATTTCGAGTTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTAGCAG
*
8591157 GATGCTTTATGAGAAGAATTTATGAAATCGCGCCCACGTGGACGCGCTTTTGCTACAGTA
65 GATGCTTTATGAGAAGAATTTATGAAATCGCGCCCACGTGGACGCGATTTTGCTACAGTA
8591217 G
1 G
8591218 CATGTTTAGG
Statistics
Matches: 215, Mismatches: 33, Indels: 7
0.84 0.13 0.03
Matches are distributed among these distances:
124 42 0.20
125 66 0.31
126 73 0.34
127 34 0.16
ACGTcount: A:0.31, C:0.16, G:0.23, T:0.30
Consensus pattern (124 bp):
GGTCCTGAAAAAATTATTTCGAGTTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTAGCAGG
ATGCTTTATGAGAAGAATTTATGAAATCGCGCCCACGTGGACGCGATTTTGCTACAGTA
Found at i:8592677 original size:13 final size:15
Alignment explanation
Indices: 8592647--8592678 Score: 50
Period size: 13 Copynumber: 2.3 Consensus size: 15
8592637 ATATTTCATG
8592647 CATTTCATTAATAAT
1 CATTTCATTAATAAT
8592662 CATTTCA-TAA-AAT
1 CATTTCATTAATAAT
8592675 CATT
1 CATT
8592679 ATTTCATATA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
13 7 0.41
14 3 0.18
15 7 0.41
ACGTcount: A:0.41, C:0.16, G:0.00, T:0.44
Consensus pattern (15 bp):
CATTTCATTAATAAT
Found at i:8593267 original size:45 final size:45
Alignment explanation
Indices: 8593193--8593369 Score: 212
Period size: 45 Copynumber: 4.0 Consensus size: 45
8593183 AACGGTAGTT
* * * * *
8593193 GTAACAGTAACAATATTCAACACACAAAGTGCTGAACCTGTAACA
1 GTAACAGTAACAGTATTCGACACACAAAGTGCCGAATCAGTAACA
* * * * *
8593238 GTAACGGTAACAGTATTCGACATATAAAGTGCCGAGTCGGTAACA
1 GTAACAGTAACAGTATTCGACACACAAAGTGCCGAATCAGTAACA
*
8593283 GTAACAGTAACAGTATTCGACACACAAAGTGCCGAATCAGAAACA
1 GTAACAGTAACAGTATTCGACACACAAAGTGCCGAATCAGTAACA
* * * *
8593328 GTAACAGTAACAGTAGTCGGCACA-TAAGTGCCTAATCAGTAA
1 GTAACAGTAACAGTATTCGACACACAAAGTGCCGAATCAGTAA
8593370 GACGGCAAAT
Statistics
Matches: 112, Mismatches: 20, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
44 15 0.13
45 97 0.87
ACGTcount: A:0.41, C:0.20, G:0.19, T:0.20
Consensus pattern (45 bp):
GTAACAGTAACAGTATTCGACACACAAAGTGCCGAATCAGTAACA
Found at i:8593338 original size:90 final size:89
Alignment explanation
Indices: 8593193--8593359 Score: 235
Period size: 90 Copynumber: 1.9 Consensus size: 89
8593183 AACGGTAGTT
* * * * *
8593193 GTAACAGTAACAATATTCAACACACAAAGTGCTGAACCTGTAACAGTAACGGTAACAGTATTCGA
1 GTAACAGTAACAATATTCAACACACAAAGTGCCGAACCAGAAACAGTAACAGTAACAGTAGTCGA
*
8593258 CATATAAAGTGCCGAGTCGGTAACA
66 CACAT-AAGTGCCGAGTCGGTAACA
* * * *
8593283 GTAACAGTAACAGTATTCGACACACAAAGTGCCGAATCAGAAACAGTAACAGTAACAGTAGTCGG
1 GTAACAGTAACAATATTCAACACACAAAGTGCCGAACCAGAAACAGTAACAGTAACAGTAGTCGA
8593348 CACATAAGTGCC
66 CACATAAGTGCC
8593360 TAATCAGTAA
Statistics
Matches: 67, Mismatches: 10, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
89 7 0.10
90 60 0.90
ACGTcount: A:0.40, C:0.21, G:0.20, T:0.19
Consensus pattern (89 bp):
GTAACAGTAACAATATTCAACACACAAAGTGCCGAACCAGAAACAGTAACAGTAACAGTAGTCGA
CACATAAGTGCCGAGTCGGTAACA
Found at i:8597564 original size:21 final size:21
Alignment explanation
Indices: 8597518--8598008 Score: 471
Period size: 21 Copynumber: 23.3 Consensus size: 21
8597508 ATTAAGTTAA
8597518 GGGTTTTTAGGTTAAGGGTTT
1 GGGTTTTTAGGTTAAGGGTTT
*
8597539 AGGGTTTTTAGGTTGAGGGTTT
1 -GGGTTTTTAGGTTAAGGGTTT
8597561 GGGTTTTTAGGTTAAGGGTTT
1 GGGTTTTTAGGTTAAGGGTTT
* * *
8597582 AAGGTTTTTAGGTTGAGGGTTA
1 -GGGTTTTTAGGTTAAGGGTTT
* *
8597604 GGGTTTTTAGGTTTAGGGTTA
1 GGGTTTTTAGGTTAAGGGTTT
* * * *
8597625 AGGTTTTTATGTTGAGGGTTA
1 GGGTTTTTAGGTTAAGGGTTT
* *
8597646 GGGGTTTTAAGTTAAGGGTTT
1 GGGTTTTTAGGTTAAGGGTTT
* *
8597667 AGGGTTTTTAGGTTTATGGTTT
1 -GGGTTTTTAGGTTAAGGGTTT
8597689 AGGG--TTTAGGGTTAA------
1 -GGGTTTTTA-GGTTAAGGGTTT
* *
8597704 -GGTTTCTAGGTTAAGGGTTA
1 GGGTTTTTAGGTTAAGGGTTT
* *
8597724 GGGTTTTTAGGTTGAGGGTTA
1 GGGTTTTTAGGTTAAGGGTTT
* *
8597745 AGGTTTTTAGGTTGAGGGTTAT
1 GGGTTTTTAGGTTAAGGGTT-T
8597767 -GGTTTTTAGGTTAAGGGTTT
1 GGGTTTTTAGGTTAAGGGTTT
* *
8597787 AGCGTTTTTAGGTTAAGGGTTA
1 -GGGTTTTTAGGTTAAGGGTTT
* * *
8597809 GGGTATTTAGGTTGAGGGTTA
1 GGGTTTTTAGGTTAAGGGTTT
8597830 GGGTTTTTAGGTTAAGGGTTT
1 GGGTTTTTAGGTTAAGGGTTT
**
8597851 CTAGTTTTTAGGTTAAGGGTTT
1 -GGGTTTTTAGGTTAAGGGTTT
* * *
8597873 AGGGTTTTGAGGTTAAAGGTTA
1 -GGGTTTTTAGGTTAAGGGTTT
*
8597895 GGGTTTTTAGGTTAAGAGTTT
1 GGGTTTTTAGGTTAAGGGTTT
* * *
8597916 AGGGTTTTGAGGTTAAAGGTTA
1 -GGGTTTTTAGGTTAAGGGTTT
*
8597938 GGGTTTTTAGGTTAAGAGTTT
1 GGGTTTTTAGGTTAAGGGTTT
*
8597959 AGGGTTTTTAGGTTAAGGGTTA
1 -GGGTTTTTAGGTTAAGGGTTT
*
8597981 GGGTTTTTAGGTTGAGGGTTT
1 GGGTTTTTAGGTTAAGGGTTT
8598002 AGGGTTT
1 -GGGTTT
8598009 AGGGTTTAAG
Statistics
Matches: 392, Mismatches: 58, Indels: 38
0.80 0.12 0.08
Matches are distributed among these distances:
13 2 0.01
14 6 0.02
15 3 0.01
20 5 0.01
21 222 0.57
22 154 0.39
ACGTcount: A:0.18, C:0.01, G:0.37, T:0.44
Consensus pattern (21 bp):
GGGTTTTTAGGTTAAGGGTTT
Found at i:8597566 original size:43 final size:43
Alignment explanation
Indices: 8597517--8598143 Score: 664
Period size: 43 Copynumber: 15.1 Consensus size: 43
8597507 AATTAAGTTA
*
8597517 AGGGTTTTTAGGTTAAGGGTTTAGGGTTTTTAGGTTGAGGGTT
1 AGGGTTTTTAGGTTAAGGGTTTAGGGTTTTTAGGTTAAGGGTT
* * *
8597560 TGGGTTTTTAGGTTAAGGGTTTAAGGTTTTTAGGTTGAGGGTT
1 AGGGTTTTTAGGTTAAGGGTTTAGGGTTTTTAGGTTAAGGGTT
* * * *
8597603 AGGGTTTTTAGGTTTAGGG-TTAAGGTTTTTATGTTGAGGGTT
1 AGGGTTTTTAGGTTAAGGGTTTAGGGTTTTTAGGTTAAGGGTT
* *
8597645 AGGGGTTTTAAGTTAAGGGTTTAGGGTTTTTAGG-T-----TT
1 AGGGTTTTTAGGTTAAGGGTTTAGGGTTTTTAGGTTAAGGGTT
* * * *
8597682 ATGG--TTTAGGGTTTAGGG-TTAAGGTTTCTAGGTTAAGGGTT
1 AGGGTTTTTA-GGTTAAGGGTTTAGGGTTTTTAGGTTAAGGGTT
* * *
8597723 AGGGTTTTTAGGTTGAGGG-TTAAGGTTTTTAGGTTGAGGGTT
1 AGGGTTTTTAGGTTAAGGGTTTAGGGTTTTTAGGTTAAGGGTT
* *
8597765 ATGGTTTTTAGGTTAAGGGTTTAGCGTTTTTAGGTTAAGGGTT
1 AGGGTTTTTAGGTTAAGGGTTTAGGGTTTTTAGGTTAAGGGTT
* *
8597808 AGGGTATTTAGGTTGAGGG-TTAGGGTTTTTAGGTTAAGGGTTT
1 AGGGTTTTTAGGTTAAGGGTTTAGGGTTTTTAGGTTAAGGG-TT
*** * *
8597851 CTAGTTTTTAGGTTAAGGGTTTAGGGTTTTGAGGTTAAAGGTT
1 AGGGTTTTTAGGTTAAGGGTTTAGGGTTTTTAGGTTAAGGGTT
* * *
8597894 AGGGTTTTTAGGTTAAGAGTTTAGGGTTTTGAGGTTAAAGGTT
1 AGGGTTTTTAGGTTAAGGGTTTAGGGTTTTTAGGTTAAGGGTT
*
8597937 AGGGTTTTTAGGTTAAGAGTTTAGGGTTTTTAGGTTAAGGGTT
1 AGGGTTTTTAGGTTAAGGGTTTAGGGTTTTTAGGTTAAGGGTT
* *
8597980 AGGGTTTTTAGGTTGAGGGTTTAGGG--TTTA-G----GGTTT
1 AGGGTTTTTAGGTTAAGGGTTTAGGGTTTTTAGGTTAAGGGTT
* * * *
8598016 A-AGTTTTTAGGTTTAGGGTTTATGG---TT--GTTAAGTGTT
1 AGGGTTTTTAGGTTAAGGGTTTAGGGTTTTTAGGTTAAGGGTT
*
8598053 AGGGTTTTTAGGTTAAGGG-TTAGGGTTTTTAGGTTGAA-TGTT
1 AGGGTTTTTAGGTTAAGGGTTTAGGGTTTTTAGGTT-AAGGGTT
*
8598095 AGGGTTCTTT-GGTTAAGGGTTTA-GGTTTTTAGGTTTAGGGTTT
1 AGGGTT-TTTAGGTTAAGGGTTTAGGGTTTTTAGGTTAAGGG-TT
8598138 AGGGTT
1 AGGGTT
8598144 AGGGTTTTTA
Statistics
Matches: 502, Mismatches: 54, Indels: 56
0.82 0.09 0.09
Matches are distributed among these distances:
33 1 0.00
34 2 0.00
35 37 0.07
36 13 0.03
37 14 0.03
38 15 0.03
40 3 0.01
41 10 0.02
42 140 0.28
43 248 0.49
44 19 0.04
ACGTcount: A:0.18, C:0.01, G:0.36, T:0.45
Consensus pattern (43 bp):
AGGGTTTTTAGGTTAAGGGTTTAGGGTTTTTAGGTTAAGGGTT
Found at i:8597622 original size:64 final size:64
Alignment explanation
Indices: 8597517--8598143 Score: 635
Period size: 64 Copynumber: 10.1 Consensus size: 64
8597507 AATTAAGTTA
* *
8597517 AGGGTTTTTAGGTTAAGGGTTTAGGGTTTTTAGGTTGAGGGTTTGGGTTTTTAGGTTAAGGGTTT
1 AGGGTTTTTAGGTTAAGGGTTTAGGGTTTTTAGGTTAAGGGTTAGGGTTTTTAGGTTAAGGG-TT
* * * * * *
8597582 AAGGTTTTTAGGTTGAGGG-TTAGGGTTTTTAGGTTTAGGGTTAAGGTTTTTATGTTGAGGGTT
1 AGGGTTTTTAGGTTAAGGGTTTAGGGTTTTTAGGTTAAGGGTTAGGGTTTTTAGGTTAAGGGTT
* * * *
8597645 AGGGGTTTTAAGTTAAGGGTTTAGGGTTTTTAGG-T-----TTATGG--TTTAGGGTTTAGGGTT
1 AGGGTTTTTAGGTTAAGGGTTTAGGGTTTTTAGGTTAAGGGTTAGGGTTTTTA-GGTTAAGGGTT
* * * * *
8597702 AAGGTTTCTAGGTTAAGGG-TTAGGGTTTTTAGGTTGAGGGTTAAGGTTTTTAGGTTGAGGGTT
1 AGGGTTTTTAGGTTAAGGGTTTAGGGTTTTTAGGTTAAGGGTTAGGGTTTTTAGGTTAAGGGTT
* * * *
8597765 ATGGTTTTTAGGTTAAGGGTTTAGCGTTTTTAGGTTAAGGGTTAGGGTATTTAGGTTGAGGGTT
1 AGGGTTTTTAGGTTAAGGGTTTAGGGTTTTTAGGTTAAGGGTTAGGGTTTTTAGGTTAAGGGTT
*** * *
8597829 AGGGTTTTTAGGTTAAGGGTTTCTAGTTTTTAGGTTAAGGGTTTAGGGTTTTGAGGTTAAAGGTT
1 AGGGTTTTTAGGTTAAGGGTTTAGGGTTTTTAGGTTAAGGG-TTAGGGTTTTTAGGTTAAGGGTT
* * * *
8597894 AGGGTTTTTAGGTTAAGAGTTTAGGGTTTTGAGGTTAAAGGTTAGGGTTTTTAGGTTAAGAGTTT
1 AGGGTTTTTAGGTTAAGGGTTTAGGGTTTTTAGGTTAAGGGTTAGGGTTTTTAGGTTAAG-GGTT
* *
8597959 AGGGTTTTTAGGTTAAGGG-TTAGGGTTTTTAGGTTGAGGGTTTAGGG--TTTA-G----GGTTT
1 AGGGTTTTTAGGTTAAGGGTTTAGGGTTTTTAGGTTAAGGG-TTAGGGTTTTTAGGTTAAGGGTT
* * * *
8598016 A-AGTTTTTAGGTTTAGGGTTTATGG---TT--GTTAAGTGTTAGGGTTTTTAGGTTAAGGGTT
1 AGGGTTTTTAGGTTAAGGGTTTAGGGTTTTTAGGTTAAGGGTTAGGGTTTTTAGGTTAAGGGTT
* *
8598074 AGGGTTTTTAGGTTGAA-TG-TTAGGGTTCTTT-GGTTAAGGGTTTA-GGTTTTTAGGTTTAGGG
1 AGGGTTTTTAGGTT-AAGGGTTTAGGGTT-TTTAGGTTAAGGG-TTAGGGTTTTTAGGTTAAGGG
8598135 TTT
63 -TT
8598138 AGGGTT
1 AGGGTT
8598144 AGGGTTTTTA
Statistics
Matches: 472, Mismatches: 59, Indels: 63
0.79 0.10 0.11
Matches are distributed among these distances:
51 6 0.01
52 6 0.01
53 4 0.01
54 3 0.01
56 33 0.07
57 35 0.07
58 16 0.03
59 12 0.03
60 1 0.00
62 8 0.02
63 72 0.15
64 178 0.38
65 98 0.21
ACGTcount: A:0.18, C:0.01, G:0.36, T:0.45
Consensus pattern (64 bp):
AGGGTTTTTAGGTTAAGGGTTTAGGGTTTTTAGGTTAAGGGTTAGGGTTTTTAGGTTAAGGGTT
Found at i:8597691 original size:13 final size:13
Alignment explanation
Indices: 8597662--8598021 Score: 61
Period size: 15 Copynumber: 25.4 Consensus size: 13
8597652 TTAAGTTAAG
8597662 GGTTTAGGGTTTTTA
1 GGTTTAGGG--TTTA
*
8597677 GGTTTATGGTTTA
1 GGTTTAGGGTTTA
*
8597690 GGGTTTAGGGTTAA
1 -GGTTTAGGGTTTA
*
8597704 GGTTTCTA-GGTTAA
1 GG-TT-TAGGGTTTA
*
8597718 GGGTTAGGGTTTTTA
1 GGTTTAGGG--TTTA
* *
8597733 GGTTGAGGGTTAA
1 GGTTTAGGGTTTA
*
8597746 GGTTTTTA-GGTTGA
1 GG--TTTAGGGTTTA
* *
8597760 GGGTTATGGTTTTTA
1 GGTTTA-GG-GTTTA
*
8597775 GGTTAAGGGTTTA
1 GGTTTAGGGTTTA
*
8597788 GCGTTTTTA-GGTTAA
1 G-G--TTTAGGGTTTA
*
8597803 GGGTTAGGGTATTTA
1 GGTTTAGGG--TTTA
*
8597818 GGTTGAGGG-TTA
1 GGTTTAGGGTTTA
*
8597830 GGGTTTTTA-GGTTAA
1 -GG--TTTAGGGTTTA
**
8597845 GGGTTTCTAGTTTTTA
1 -GG-TT-TAGGGTTTA
*
8597861 GGTTAAGGGTTTA
1 GGTTTAGGGTTTA
* *
8597874 GGGTTTTGAGGTTAAA
1 -GGTTTAG-GGTT-TA
8597890 GG-TTAGGGTTTTTA
1 GGTTTAGGG--TTTA
* *
8597904 GGTTAAGAGTTTA
1 GGTTTAGGGTTTA
* *
8597917 GGGTTTTGAGGTTAAA
1 -GGTTTAG-GGTT-TA
8597933 GG-TTAGGGTTTTTA
1 GGTTTAGGG--TTTA
* *
8597947 GGTTAAGAGTTTA
1 GGTTTAGGGTTTA
*
8597960 GGGTTTTTA-GGTTAA
1 -GG--TTTAGGGTTTA
*
8597975 GGGTTAGGGTTTTTA
1 GGTTTAGGG--TTTA
*
8597990 GGTTGAGGGTTTA
1 GGTTTAGGGTTTA
8598003 GGGTTTAGGGTTTA
1 -GGTTTAGGGTTTA
*
8598017 AGTTT
1 GGTTT
8598022 TTAGGTTTAG
Statistics
Matches: 249, Mismatches: 54, Indels: 86
0.64 0.14 0.22
Matches are distributed among these distances:
12 14 0.06
13 51 0.20
14 78 0.31
15 95 0.38
16 11 0.04
ACGTcount: A:0.19, C:0.01, G:0.36, T:0.44
Consensus pattern (13 bp):
GGTTTAGGGTTTA
Found at i:8598069 original size:21 final size:21
Alignment explanation
Indices: 8598043--8598143 Score: 118
Period size: 21 Copynumber: 4.8 Consensus size: 21
8598033 GTTTATGGTT
*
8598043 GTTAAGTGTTAGGGTTTTTAG
1 GTTAAGGGTTAGGGTTTTTAG
8598064 GTTAAGGGTTAGGGTTTTTAG
1 GTTAAGGGTTAGGGTTTTTAG
*
8598085 GTTGAA-TGTTAGGGTTCTTT-G
1 GTT-AAGGGTTAGGGTT-TTTAG
8598106 GTTAAGGGTTTA-GGTTTTTAG
1 GTTAAGGG-TTAGGGTTTTTAG
*
8598127 GTTTAGGGTTTAGGGTT
1 GTTAAGGG-TTAGGGTT
8598144 AGGGTTTTTA
Statistics
Matches: 70, Mismatches: 4, Indels: 11
0.82 0.05 0.13
Matches are distributed among these distances:
20 5 0.07
21 53 0.76
22 12 0.17
ACGTcount: A:0.17, C:0.01, G:0.36, T:0.47
Consensus pattern (21 bp):
GTTAAGGGTTAGGGTTTTTAG
Found at i:8598131 original size:14 final size:14
Alignment explanation
Indices: 8598112--8598153 Score: 50
Period size: 14 Copynumber: 3.0 Consensus size: 14
8598102 TTTGGTTAAG
8598112 GGTTTAGGTTTTTA
1 GGTTTAGGTTTTTA
*
8598126 GGTTTAGG-GTTTA
1 GGTTTAGGTTTTTA
*
8598139 GGGTTAGGGTTTTTA
1 GGTTTA-GGTTTTTA
8598154 CCTTAAGGGT
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
13 9 0.39
14 10 0.43
15 4 0.17
ACGTcount: A:0.14, C:0.00, G:0.36, T:0.50
Consensus pattern (14 bp):
GGTTTAGGTTTTTA
Found at i:8598141 original size:28 final size:27
Alignment explanation
Indices: 8598105--8598189 Score: 81
Period size: 28 Copynumber: 3.3 Consensus size: 27
8598095 AGGGTTCTTT
*
8598105 GGTTAAGGGTTTAGGTTTTTAGGTTTAG
1 GGTTTAGGG-TTAGGTTTTTAGGTTTAG
** *
8598133 GGTTTAGGGTTAGGGTTTTTACCTTAAG
1 GGTTTAGGGTTA-GGTTTTTAGGTTTAG
8598161 GGTTTA----TA-GTTTTTAGGTTTAG
1 GGTTTAGGGTTAGGTTTTTAGGTTTAG
8598183 GGTTTAG
1 GGTTTAG
8598190 CAATTTTAAT
Statistics
Matches: 48, Mismatches: 7, Indels: 9
0.75 0.11 0.14
Matches are distributed among these distances:
22 17 0.35
24 2 0.04
27 3 0.06
28 26 0.54
ACGTcount: A:0.18, C:0.02, G:0.33, T:0.47
Consensus pattern (27 bp):
GGTTTAGGGTTAGGTTTTTAGGTTTAG
Found at i:8598217 original size:21 final size:21
Alignment explanation
Indices: 8598193--8598232 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
8598183 GGTTTAGCAA
*
8598193 TTTTAATTTAA-AAGTTAGGGT
1 TTTTAAGTTAAGAA-TTAGGGT
8598214 TTTTAAGTTAAGAATTAGG
1 TTTTAAGTTAAGAATTAGG
8598233 ATTAAGATTA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 15 0.88
22 2 0.12
ACGTcount: A:0.35, C:0.00, G:0.20, T:0.45
Consensus pattern (21 bp):
TTTTAAGTTAAGAATTAGGGT
Found at i:8598829 original size:18 final size:18
Alignment explanation
Indices: 8598806--8598845 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
8598796 GACTCGGAAA
* *
8598806 AGGATACATATAAGGGTT
1 AGGATACATAAAAGGGCT
8598824 AGGATACATAAAAGGGCT
1 AGGATACATAAAAGGGCT
8598842 AGGA
1 AGGA
8598846 AACACACCTG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.42, C:0.07, G:0.30, T:0.20
Consensus pattern (18 bp):
AGGATACATAAAAGGGCT
Found at i:8600777 original size:23 final size:23
Alignment explanation
Indices: 8600751--8600806 Score: 62
Period size: 22 Copynumber: 2.5 Consensus size: 23
8600741 ATTAAATATG
*
8600751 AATTTGAGAGAAATTTG-GAAGGA
1 AATTTGAGAGAAACTTGAG-AGGA
*
8600774 AA-TTGAGAGGAACTTGAGAGGA
1 AATTTGAGAGAAACTTGAGAGGA
*
8600796 AATTTGGGAGA
1 AATTTGAGAGA
8600807 GGATTTGTTT
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
22 18 0.67
23 9 0.33
ACGTcount: A:0.41, C:0.02, G:0.34, T:0.23
Consensus pattern (23 bp):
AATTTGAGAGAAACTTGAGAGGA
Found at i:8602312 original size:58 final size:58
Alignment explanation
Indices: 8602238--8602364 Score: 200
Period size: 58 Copynumber: 2.2 Consensus size: 58
8602228 TAGGACCCCC
* *
8602238 CACACGGTCTTGTCTTCCCTGCAGGTTGATTTTGCAATTTTCACACGGTCAAAGTCTCT
1 CACACGG-CCTGTCTTCCCTGCAGGTTGATTTTGCAATTTTCACACGGCCAAAGTCTCT
* * *
8602297 TACACGGCCTGTCTTCCCTGTAGGTTGATTTTGCAATTTTCACACGGCCACAGTCTCT
1 CACACGGCCTGTCTTCCCTGCAGGTTGATTTTGCAATTTTCACACGGCCAAAGTCTCT
8602355 CACACGGCCT
1 CACACGGCCT
8602365 AGCCACACAA
Statistics
Matches: 62, Mismatches: 6, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
58 56 0.90
59 6 0.10
ACGTcount: A:0.18, C:0.30, G:0.19, T:0.33
Consensus pattern (58 bp):
CACACGGCCTGTCTTCCCTGCAGGTTGATTTTGCAATTTTCACACGGCCAAAGTCTCT
Found at i:8605026 original size:16 final size:16
Alignment explanation
Indices: 8604989--8605031 Score: 54
Period size: 15 Copynumber: 2.8 Consensus size: 16
8604979 ATACACGGGA
8604989 AATTTT-AAATAAAAT
1 AATTTTAAAATAAAAT
* *
8605004 AA-ATTAAAATAAACT
1 AATTTTAAAATAAAAT
8605019 AATTTTAAAATAA
1 AATTTTAAAATAA
8605032 CATATAAAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
14 2 0.09
15 12 0.52
16 9 0.39
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (16 bp):
AATTTTAAAATAAAAT
Found at i:8612291 original size:22 final size:24
Alignment explanation
Indices: 8612266--8612318 Score: 65
Period size: 22 Copynumber: 2.3 Consensus size: 24
8612256 TCAAATTATT
*
8612266 ATTTTTTAGAA-TTTATTTTTA-A
1 ATTTTTTAGAATTTTATTTTCATA
**
8612288 ATTTTAAAGAATTTTATTTTCATA
1 ATTTTTTAGAATTTTATTTTCATA
8612312 ATTTTTT
1 ATTTTTT
8612319 TTATTTTTAA
Statistics
Matches: 24, Mismatches: 5, Indels: 2
0.77 0.16 0.06
Matches are distributed among these distances:
22 9 0.38
23 9 0.38
24 6 0.25
ACGTcount: A:0.32, C:0.02, G:0.04, T:0.62
Consensus pattern (24 bp):
ATTTTTTAGAATTTTATTTTCATA
Found at i:8612307 original size:23 final size:23
Alignment explanation
Indices: 8612273--8612316 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
8612263 ATTATTTTTT
*
8612273 AGAATTTATTTTTA-AATTTTAA
1 AGAATTTATTTTCATAATTTTAA
8612295 AGAATTTTATTTTCATAATTTT
1 AGAA-TTTATTTTCATAATTTT
8612317 TTTTATTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 4 0.21
23 9 0.47
24 6 0.32
ACGTcount: A:0.36, C:0.02, G:0.05, T:0.57
Consensus pattern (23 bp):
AGAATTTATTTTCATAATTTTAA
Found at i:8612329 original size:16 final size:17
Alignment explanation
Indices: 8612299--8612336 Score: 60
Period size: 16 Copynumber: 2.2 Consensus size: 17
8612289 TTTTAAAGAA
8612299 TTTTATTTTCATAATTTT
1 TTTTATTTT-ATAATTTT
8612317 TTTTATTTT-TAATTTT
1 TTTTATTTTATAATTTT
8612333 TTTT
1 TTTT
8612337 TTACTTTTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
16 11 0.55
18 9 0.45
ACGTcount: A:0.18, C:0.03, G:0.00, T:0.79
Consensus pattern (17 bp):
TTTTATTTTATAATTTT
Found at i:8612344 original size:19 final size:19
Alignment explanation
Indices: 8612313--8612364 Score: 63
Period size: 19 Copynumber: 2.8 Consensus size: 19
8612303 ATTTTCATAA
8612313 TTTTTTTTA-TTTTTAATT-
1 TTTTTTTTACTTTTT-ATTC
8612331 TTTTTTTTACTTTTTATTC
1 TTTTTTTTACTTTTTATTC
**
8612350 TTTTTGATACTTTTT
1 TTTTTTTTACTTTTT
8612365 TGGGTTTTCA
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
18 12 0.40
19 18 0.60
ACGTcount: A:0.13, C:0.06, G:0.02, T:0.79
Consensus pattern (19 bp):
TTTTTTTTACTTTTTATTC
Found at i:8612345 original size:12 final size:13
Alignment explanation
Indices: 8612316--8612348 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
8612306 TTCATAATTT
8612316 TTTTTATTTTTAA
1 TTTTTATTTTTAA
*
8612329 TTTTT-TTTTTAC
1 TTTTTATTTTTAA
8612341 TTTTTATT
1 TTTTTATT
8612349 CTTTTTGATA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
12 11 0.61
13 7 0.39
ACGTcount: A:0.15, C:0.03, G:0.00, T:0.82
Consensus pattern (13 bp):
TTTTTATTTTTAA
Found at i:8612353 original size:18 final size:19
Alignment explanation
Indices: 8612314--8612364 Score: 61
Period size: 18 Copynumber: 2.7 Consensus size: 19
8612304 TTTTCATAAT
*
8612314 TTTTTTTA-TTTTTAATTT
1 TTTTTTTACTTTTTAATTC
8612332 TTTTTTTACTTTTT-ATTC
1 TTTTTTTACTTTTTAATTC
*
8612350 TTTTTGATACTTTTT
1 TTTTT-TTACTTTTT
8612365 TGGGTTTTCA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
18 16 0.55
19 13 0.45
ACGTcount: A:0.14, C:0.06, G:0.02, T:0.78
Consensus pattern (19 bp):
TTTTTTTACTTTTTAATTC
Found at i:8612510 original size:30 final size:30
Alignment explanation
Indices: 8612474--8612534 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
8612464 AATTATTTTT
*
8612474 TAAAAAAACTTGCCAGTCGATTAATTTGTA
1 TAAAAAAACTTGCCAGTCAATTAATTTGTA
* * * *
8612504 TAAAAAACCTTGTCGGTTAATTAATTTGTA
1 TAAAAAAACTTGCCAGTCAATTAATTTGTA
8612534 T
1 T
8612535 GCTCATCATT
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.38, C:0.11, G:0.13, T:0.38
Consensus pattern (30 bp):
TAAAAAAACTTGCCAGTCAATTAATTTGTA
Found at i:8612914 original size:14 final size:14
Alignment explanation
Indices: 8612895--8612921 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
8612885 AAATAAAATT
8612895 ACAAAATTATATAA
1 ACAAAATTATATAA
8612909 ACAAAATTATATA
1 ACAAAATTATATA
8612922 TATACTTGTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.63, C:0.07, G:0.00, T:0.30
Consensus pattern (14 bp):
ACAAAATTATATAA
Found at i:8612998 original size:29 final size:29
Alignment explanation
Indices: 8612966--8613033 Score: 77
Period size: 29 Copynumber: 2.4 Consensus size: 29
8612956 CTTTTCAAAT
* *
8612966 ATGATAAAAAATTATTAAAA-ATAATAAAA
1 ATGATAAAAAATT-GTAAAATATAAAAAAA
* *
8612995 ATGATTAGAAATTGTAAAATATAAAAAAA
1 ATGATAAAAAATTGTAAAATATAAAAAAA
8613024 AT-ATAAAAAA
1 ATGATAAAAAA
8613034 AATATTATAA
Statistics
Matches: 32, Mismatches: 6, Indels: 3
0.78 0.15 0.07
Matches are distributed among these distances:
28 11 0.34
29 21 0.66
ACGTcount: A:0.68, C:0.00, G:0.06, T:0.26
Consensus pattern (29 bp):
ATGATAAAAAATTGTAAAATATAAAAAAA
Found at i:8613026 original size:11 final size:11
Alignment explanation
Indices: 8613010--8613038 Score: 58
Period size: 11 Copynumber: 2.6 Consensus size: 11
8613000 TAGAAATTGT
8613010 AAAATATAAAA
1 AAAATATAAAA
8613021 AAAATATAAAA
1 AAAATATAAAA
8613032 AAAATAT
1 AAAATAT
8613039 TATAAATTGT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (11 bp):
AAAATATAAAA
Found at i:8613054 original size:19 final size:18
Alignment explanation
Indices: 8613030--8613074 Score: 63
Period size: 19 Copynumber: 2.4 Consensus size: 18
8613020 AAAAATATAA
8613030 AAAAAATATTATAAATTGT
1 AAAAAATATTA-AAATTGT
*
8613049 AAAAAATTATTAAAATTTT
1 AAAAAA-TATTAAAATTGT
8613068 AAAAAAT
1 AAAAAAT
8613075 GGTCAAATTT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
18 1 0.04
19 18 0.75
20 5 0.21
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (18 bp):
AAAAAATATTAAAATTGT
Found at i:8613064 original size:39 final size:40
Alignment explanation
Indices: 8612970--8613073 Score: 122
Period size: 39 Copynumber: 2.6 Consensus size: 40
8612960 TCAAATATGA
*
8612970 TAAAAAATTATTAAAA-ATAATAAAAATGATTAGAAATTG
1 TAAAAAATTATTAAAATATAAAAAAAATGATTAGAAATTG
* * ** *
8613009 TAAAATATAAAAAAAATATAAAAAAAAT-ATTATAAATTG
1 TAAAAAATTATTAAAATATAAAAAAAATGATTAGAAATTG
* *
8613048 TAAAAAATTATTAAAATTTTAAAAAA
1 TAAAAAATTATTAAAATATAAAAAAA
8613074 TGGTCAAATT
Statistics
Matches: 52, Mismatches: 12, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
39 42 0.81
40 10 0.19
ACGTcount: A:0.65, C:0.00, G:0.04, T:0.31
Consensus pattern (40 bp):
TAAAAAATTATTAAAATATAAAAAAAATGATTAGAAATTG
Found at i:8613072 original size:20 final size:21
Alignment explanation
Indices: 8613027--8613073 Score: 62
Period size: 20 Copynumber: 2.3 Consensus size: 21
8613017 AAAAAAAATA
8613027 TAAAAAAAATATTATAAATTG
1 TAAAAAAAATATTATAAATTG
* *
8613048 T-AAAAAATTATTA-AAATTT
1 TAAAAAAAATATTATAAATTG
8613067 TAAAAAA
1 TAAAAAA
8613074 TGGTCAAATT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
19 6 0.26
20 16 0.70
21 1 0.04
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (21 bp):
TAAAAAAAATATTATAAATTG
Found at i:8613187 original size:11 final size:11
Alignment explanation
Indices: 8613173--8613285 Score: 58
Period size: 11 Copynumber: 10.4 Consensus size: 11
8613163 TATACCAAAA
8613173 AATATTTTAAT
1 AATATTTTAAT
*
8613184 AATAATTTAAT
1 AATATTTTAAT
*
8613195 ACACT-TTTAAAT
1 A-A-TATTTTAAT
*
8613207 TATATTTTTAAT
1 AATA-TTTTAAT
*** *
8613219 AATA-CCAAAA
1 AATATTTTAAT
8613229 AATATTTTAAT
1 AATATTTTAAT
*
8613240 AATAATTTAAT
1 AATATTTTAAT
8613251 ACAT-TTTTAAAT
1 A-ATATTTT-AAT
*
8613263 TATATTTT--T
1 AATATTTTAAT
8613272 AATATTTTAA-
1 AATATTTTAAT
8613282 AATA
1 AATA
8613286 CATAAATTTT
Statistics
Matches: 74, Mismatches: 18, Indels: 21
0.65 0.16 0.19
Matches are distributed among these distances:
9 8 0.11
10 11 0.15
11 30 0.41
12 24 0.32
13 1 0.01
ACGTcount: A:0.47, C:0.04, G:0.00, T:0.49
Consensus pattern (11 bp):
AATATTTTAAT
Found at i:8613229 original size:56 final size:56
Alignment explanation
Indices: 8613164--8613275 Score: 215
Period size: 56 Copynumber: 2.0 Consensus size: 56
8613154 CAAAAAAAAT
8613164 ATACCAAAAAATATTTTAATAATAATTTAATACACTTTTAAATTATATTTTTAATA
1 ATACCAAAAAATATTTTAATAATAATTTAATACACTTTTAAATTATATTTTTAATA
*
8613220 ATACCAAAAAATATTTTAATAATAATTTAATACATTTTTAAATTATATTTTTAATA
1 ATACCAAAAAATATTTTAATAATAATTTAATACACTTTTAAATTATATTTTTAATA
8613276 TTTTAAAATA
Statistics
Matches: 55, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 55 1.00
ACGTcount: A:0.48, C:0.06, G:0.00, T:0.46
Consensus pattern (56 bp):
ATACCAAAAAATATTTTAATAATAATTTAATACACTTTTAAATTATATTTTTAATA
Found at i:8614756 original size:21 final size:21
Alignment explanation
Indices: 8614732--8614772 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
8614722 CTTTCTATTC
8614732 AGCTCTTACGAGCTTTTGTTT
1 AGCTCTTACGAGCTTTTGTTT
8614753 AGCTCTTACGAGCTTTTGTT
1 AGCTCTTACGAGCTTTTGTT
8614773 GGCGTATTCG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.15, C:0.20, G:0.20, T:0.46
Consensus pattern (21 bp):
AGCTCTTACGAGCTTTTGTTT
Found at i:8614959 original size:10 final size:10
Alignment explanation
Indices: 8614944--8614981 Score: 51
Period size: 10 Copynumber: 3.8 Consensus size: 10
8614934 AATAGAAGTT
8614944 GTGAATGACA
1 GTGAATGACA
8614954 GTGAATGACA
1 GTGAATGACA
*
8614964 GGGAATTGACA
1 GTGAA-TGACA
8614975 -TGAATGA
1 GTGAATGA
8614982 TTTTATTTAT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
9 3 0.12
10 17 0.68
11 5 0.20
ACGTcount: A:0.39, C:0.08, G:0.32, T:0.21
Consensus pattern (10 bp):
GTGAATGACA
Found at i:8616387 original size:21 final size:21
Alignment explanation
Indices: 8616354--8616407 Score: 67
Period size: 21 Copynumber: 2.6 Consensus size: 21
8616344 ATTTTCTATT
*
8616354 TTTTAATA-ATTTTTT-AAAA
1 TTTTAATATTTTTTTTGAAAA
*
8616373 TTTTAAATATTTTTTTTGTAAA
1 TTTT-AATATTTTTTTTGAAAA
8616395 TTTTAATATTTTT
1 TTTTAATATTTTT
8616408 ATTTTTGAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
19 4 0.13
20 4 0.13
21 15 0.50
22 7 0.23
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (21 bp):
TTTTAATATTTTTTTTGAAAA
Found at i:8616394 original size:23 final size:25
Alignment explanation
Indices: 8616362--8616426 Score: 75
Period size: 22 Copynumber: 2.7 Consensus size: 25
8616352 TTTTTTAATA
8616362 ATTTTT-TAAAATTTTAA-ATATTT
1 ATTTTTGTAAAATTTTAATATATTT
*
8616385 -TTTTTGT-AAATTTTAATATTTTT
1 ATTTTTGTAAAATTTTAATATATTT
*
8616408 ATTTTTGAAAAGATTTTAA
1 ATTTTTGTAAA-ATTTTAA
8616427 GGTTTTTTCG
Statistics
Matches: 35, Mismatches: 2, Indels: 7
0.80 0.05 0.16
Matches are distributed among these distances:
22 14 0.40
23 6 0.17
24 6 0.17
25 2 0.06
26 7 0.20
ACGTcount: A:0.35, C:0.00, G:0.05, T:0.60
Consensus pattern (25 bp):
ATTTTTGTAAAATTTTAATATATTT
Done.