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 191 of 207
Found at i:57703014 original size:105 final size:107
Alignment explanation
Indices: 57702884--57703098 Score: 292
Period size: 105 Copynumber: 2.0 Consensus size: 107
57702874 TCCGTATTTC
* *
57702884 AAATTTCCGTATTTTCAAAAATTTCCGTGTTTTAAAAAATCTTCGTGTTTTCAAGAATCCTCGTG
1 AAATTCCCGTATTTTCAAAAATTTCCGTGTTTTAAAAAATCTTCGTATTTTCAAGAATCCTCGTG
* *
57702949 T-TTTCAAAATTCTGGTGTTTCAAAAA-TTTTCATGTTTTCAA
66 TCTCT-AAAATTCTCGTGTTTCAAAAATTTTTCATGTTTTCAA
* * * * **
57702990 AAATTCCCGTGTTTT-AAAAATTTCCGTGTTTTCAAAAATTTTCGTATTTTTAAGAATTTTCGTG
1 AAATTCCCGTATTTTCAAAAATTTCCGTGTTTTAAAAAATCTTCGTATTTTCAAGAATCCTCGTG
* *
57703054 TCTCTAAAATTCTCGTGTTTTAAAAATTTTTCGTGTTTTCAA
66 TCTCTAAAATTCTCGTGTTTCAAAAATTTTTCATGTTTTCAA
57703096 AAA
1 AAA
57703099 AATAAATGTT
Statistics
Matches: 95, Mismatches: 12, Indels: 4
0.86 0.11 0.04
Matches are distributed among these distances:
105 63 0.66
106 32 0.34
ACGTcount: A:0.29, C:0.14, G:0.11, T:0.46
Consensus pattern (107 bp):
AAATTCCCGTATTTTCAAAAATTTCCGTGTTTTAAAAAATCTTCGTATTTTCAAGAATCCTCGTG
TCTCTAAAATTCTCGTGTTTCAAAAATTTTTCATGTTTTCAA
Found at i:57703132 original size:18 final size:18
Alignment explanation
Indices: 57702895--57703134 Score: 167
Period size: 18 Copynumber: 13.6 Consensus size: 18
57702885 AATTTCCGTA
57702895 TTTTCAAAAAT-TTCCGTG
1 TTTTCAAAAATCTT-CGTG
*
57702913 TTTTAAAAAATCTTCGTG
1 TTTTCAAAAATCTTCGTG
* *
57702931 TTTTCAAGAATCCTCGTG
1 TTTTCAAAAATCTTCGTG
* *
57702949 TTTTCAAAATTC-TGGTG
1 TTTTCAAAAATCTTCGTG
* *
57702966 -TTTCAAAAATTTTCATG
1 TTTTCAAAAATCTTCGTG
*
57702983 TTTTCAAAAAT-TCCCGTG
1 TTTTCAAAAATCT-TCGTG
57703001 TTTT-AAAAAT-TTCCGTG
1 TTTTCAAAAATCTT-CGTG
* *
57703018 TTTTCAAAAATTTTCGTA
1 TTTTCAAAAATCTTCGTG
* * *
57703036 TTTTTAAGAATTTTCGTG
1 TTTTCAAAAATCTTCGTG
* *
57703054 -TCTCTAAAAT-TCTCGTG
1 TTTTCAAAAATCT-TCGTG
*
57703071 TTTT-AAAAATTTTTCGTG
1 TTTTCAAAAA-TCTTCGTG
** ***
57703089 TTTTCAAAAAAATAAATG
1 TTTTCAAAAATCTTCGTG
57703107 -TTTCAAAAATCTTCGTG
1 TTTTCAAAAATCTTCGTG
*
57703124 TTTTTAAAAAT
1 TTTTCAAAAAT
57703135 TCTCGTATTT
Statistics
Matches: 174, Mismatches: 35, Indels: 26
0.74 0.15 0.11
Matches are distributed among these distances:
16 10 0.06
17 50 0.29
18 104 0.60
19 10 0.06
ACGTcount: A:0.31, C:0.13, G:0.11, T:0.45
Consensus pattern (18 bp):
TTTTCAAAAATCTTCGTG
Found at i:57707886 original size:98 final size:98
Alignment explanation
Indices: 57707717--57707910 Score: 352
Period size: 98 Copynumber: 2.0 Consensus size: 98
57707707 CAATAAAACT
*
57707717 TTAAAGGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACGATTCCT
1 TTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACGATTCCT
*
57707782 TTAGAATCCCAAACTCGGAATATTTCCTTTACC
66 TTAGAATCCCAAACTCAGAATATTTCCTTTACC
* *
57707815 TTAAAAGAACATCCGCTTATCCAAGATTTAAGAAATCACACGCAATACGTTAGGGCACGATTCCT
1 TTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACGATTCCT
57707880 TTAGAATCCCAAACTCAGAATATTTCCTTTA
66 TTAGAATCCCAAACTCAGAATATTTCCTTTA
57707911 TGATTTTTAA
Statistics
Matches: 92, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
98 92 1.00
ACGTcount: A:0.36, C:0.24, G:0.12, T:0.28
Consensus pattern (98 bp):
TTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACGATTCCT
TTAGAATCCCAAACTCAGAATATTTCCTTTACC
Found at i:57709005 original size:19 final size:19
Alignment explanation
Indices: 57708981--57709074 Score: 152
Period size: 19 Copynumber: 4.8 Consensus size: 19
57708971 AATCATATAT
57708981 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
57709000 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
57709019 TCTAAGATTGCATATATCATA
1 TCTAAGATTGC--ATATCATA
**
57709040 TCTTGGATTGCATATCATA
1 TCTAAGATTGCATATCATA
57709059 TCTAAGATTGCATATC
1 TCTAAGATTGCATATC
57709075 CTTAAAAATT
Statistics
Matches: 69, Mismatches: 4, Indels: 4
0.90 0.05 0.05
Matches are distributed among these distances:
19 52 0.75
21 17 0.25
ACGTcount: A:0.34, C:0.16, G:0.12, T:0.38
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:57709049 original size:40 final size:40
Alignment explanation
Indices: 57708974--57709073 Score: 154
Period size: 40 Copynumber: 2.6 Consensus size: 40
57708964 ATTACAAAAT
57708974 CATAT-AT-TCTAAGATTGC--ATATCATATCTAAGATTG
1 CATATCATATCTAAGATTGCATATATCATATCTAAGATTG
**
57709010 CATATCATATCTAAGATTGCATATATCATATCTTGGATTG
1 CATATCATATCTAAGATTGCATATATCATATCTAAGATTG
57709050 CATATCATATCTAAGATTGCATAT
1 CATATCATATCTAAGATTGCATAT
57709074 CCTTAAAAAT
Statistics
Matches: 58, Mismatches: 2, Indels: 4
0.91 0.03 0.06
Matches are distributed among these distances:
36 5 0.09
37 2 0.03
38 11 0.19
40 40 0.69
ACGTcount: A:0.35, C:0.15, G:0.11, T:0.39
Consensus pattern (40 bp):
CATATCATATCTAAGATTGCATATATCATATCTAAGATTG
Found at i:57710622 original size:21 final size:21
Alignment explanation
Indices: 57710573--57710619 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 21
57710563 TAAAAAATTA
57710573 TAAAAATATATCAAATTATTT
1 TAAAAATATATCAAATTATTT
* * *
57710594 TTAAAATATTTTAAATT-TTT
1 TAAAAATATATCAAATTATTT
57710614 TAAAAA
1 TAAAAA
57710620 ATAGTTAATT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
20 8 0.36
21 14 0.64
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (21 bp):
TAAAAATATATCAAATTATTT
Found at i:57711193 original size:25 final size:23
Alignment explanation
Indices: 57711144--57711188 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
57711134 GATTTGTATT
57711144 TTTTCAAGAGAAAAAATTTAATG
1 TTTTCAAGAGAAAAAATTTAATG
57711167 TTTTC-AGAAGAAAAAATTTAAT
1 TTTTCAAG-AGAAAAAATTTAAT
57711189 TTGTTATTCT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 2 0.10
23 19 0.90
ACGTcount: A:0.49, C:0.04, G:0.11, T:0.36
Consensus pattern (23 bp):
TTTTCAAGAGAAAAAATTTAATG
Found at i:57716199 original size:24 final size:24
Alignment explanation
Indices: 57716159--57716209 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
57716149 AAATTTTAAT
* *
57716159 AAATTATTAAAAAATAAATATTTA
1 AAATTATTAAAAAATAAAAATTGA
**
57716183 AAATTATTAAATTATAAAAATTGA
1 AAATTATTAAAAAATAAAAATTGA
57716207 AAA
1 AAA
57716210 ACTGTAAAAT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (24 bp):
AAATTATTAAAAAATAAAAATTGA
Found at i:57716285 original size:25 final size:24
Alignment explanation
Indices: 57716240--57716287 Score: 60
Period size: 25 Copynumber: 2.0 Consensus size: 24
57716230 TTAAAATTCT
* * *
57716240 CAAAAAAAATAGAAGTTATAAAAA
1 CAAAAAAAATACAAATAATAAAAA
57716264 CAAAAAATAATACAAATAATAAAA
1 CAAAAAA-AATACAAATAATAAAA
57716288 TTATTAAAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
24 7 0.35
25 13 0.65
ACGTcount: A:0.73, C:0.06, G:0.04, T:0.17
Consensus pattern (24 bp):
CAAAAAAAATACAAATAATAAAAA
Found at i:57716548 original size:19 final size:19
Alignment explanation
Indices: 57716524--57716560 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
57716514 AGTAATTTGA
57716524 TAAATAAAAAATAAAAAAT
1 TAAATAAAAAATAAAAAAT
*
57716543 TAAATAAAATATAAAAAA
1 TAAATAAAAAATAAAAAA
57716561 AAAGACTAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (19 bp):
TAAATAAAAAATAAAAAAT
Found at i:57716570 original size:24 final size:24
Alignment explanation
Indices: 57716525--57716570 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
57716515 GTAATTTGAT
*
57716525 AAATAAAAAATAAAAAATTAAATA
1 AAATAAAAAATAAAAAACTAAATA
*
57716549 AAATATAAAAA-AAAAGACTAAA
1 AAATA-AAAAATAAAAAACTAAA
57716571 CTGACTTTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
24 14 0.74
25 5 0.26
ACGTcount: A:0.78, C:0.02, G:0.02, T:0.17
Consensus pattern (24 bp):
AAATAAAAAATAAAAAACTAAATA
Found at i:57716663 original size:19 final size:19
Alignment explanation
Indices: 57716622--57716664 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
57716612 TTTTTCATAT
*
57716622 TAATTATTGTATCTTATTT
1 TAATTATTGTATCTTATTA
*
57716641 TAATTATTTTATC-TATTAA
1 TAATTATTGTATCTTATT-A
57716660 TAATT
1 TAATT
57716665 TAACCTCATT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 4 0.19
19 17 0.81
ACGTcount: A:0.33, C:0.05, G:0.02, T:0.60
Consensus pattern (19 bp):
TAATTATTGTATCTTATTA
Found at i:57719544 original size:17 final size:16
Alignment explanation
Indices: 57719502--57719545 Score: 51
Period size: 14 Copynumber: 2.9 Consensus size: 16
57719492 TGGTTAAGCC
57719502 ATATATTTATTTT-AA
1 ATATATTTATTTTAAA
57719517 ATATA--TA-TTTAATA
1 ATATATTTATTTTAA-A
57719531 ATATATTTATTTTAA
1 ATATATTTATTTTAA
57719546 GTTAGTTCAG
Statistics
Matches: 24, Mismatches: 0, Indels: 8
0.75 0.00 0.25
Matches are distributed among these distances:
12 3 0.12
13 3 0.12
14 6 0.25
15 5 0.21
16 2 0.08
17 5 0.21
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (16 bp):
ATATATTTATTTTAAA
Found at i:57720009 original size:29 final size:30
Alignment explanation
Indices: 57719953--57720011 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
57719943 ATCCTTATTG
** *
57719953 CTTTCCAATGAGAAAAAATTTGATTTGTCA
1 CTTTCCAATGAGAAAAAACATGAATTGTCA
57719983 CTTTCCAATGAGAAAAAACAT-AATTGTCA
1 CTTTCCAATGAGAAAAAACATGAATTGTCA
57720012 TTCTCCCATT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
29 7 0.27
30 19 0.73
ACGTcount: A:0.41, C:0.15, G:0.12, T:0.32
Consensus pattern (30 bp):
CTTTCCAATGAGAAAAAACATGAATTGTCA
Found at i:57720079 original size:25 final size:27
Alignment explanation
Indices: 57720030--57720081 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
57720020 TTGGAAATAC
* *
57720030 TTTAAAATATTTTTTTATTTTTTTATT
1 TTTAAAATATTTTTTTATGTGTTTATT
57720057 TTTAAAATA-TTTTTT-TGTGTTTATT
1 TTTAAAATATTTTTTTATGTGTTTATT
57720082 AAAAACCGGG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
25 8 0.35
26 6 0.26
27 9 0.39
ACGTcount: A:0.25, C:0.00, G:0.04, T:0.71
Consensus pattern (27 bp):
TTTAAAATATTTTTTTATGTGTTTATT
Found at i:57720738 original size:56 final size:55
Alignment explanation
Indices: 57720653--57720759 Score: 160
Period size: 56 Copynumber: 1.9 Consensus size: 55
57720643 TTATATATTG
* *
57720653 CAAATTAATTATTCGTGAGCACTATTCAAATTAAAAATGATGATTTATCATCTTA
1 CAAATTAATTATTCATAAGCACTATTCAAATTAAAAATGATGATTTATCATCTTA
* * *
57720708 CAAATTTAATTATTCATAAGCAGTCTTCAAATTAAAAGTGATGATTTATCAT
1 CAAA-TTAATTATTCATAAGCACTATTCAAATTAAAAATGATGATTTATCAT
57720760 TCAATGGATA
Statistics
Matches: 46, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
55 4 0.09
56 42 0.91
ACGTcount: A:0.40, C:0.12, G:0.09, T:0.38
Consensus pattern (55 bp):
CAAATTAATTATTCATAAGCACTATTCAAATTAAAAATGATGATTTATCATCTTA
Found at i:57724222 original size:10 final size:10
Alignment explanation
Indices: 57724209--57724238 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
57724199 AATAAACTAG
57724209 AATAATGTTT
1 AATAATGTTT
57724219 AATAATGTTT
1 AATAATGTTT
*
57724229 AATGATGTTT
1 AATAATGTTT
57724239 GGAAAATATT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.37, C:0.00, G:0.13, T:0.50
Consensus pattern (10 bp):
AATAATGTTT
Found at i:57725537 original size:10 final size:10
Alignment explanation
Indices: 57725523--57725580 Score: 59
Period size: 10 Copynumber: 5.9 Consensus size: 10
57725513 CATAAAATAG
*
57725523 TAAAATTATG
1 TAAAATTATA
57725533 TAAAATTAATA
1 TAAAATT-ATA
*
57725544 TTAAATTATA
1 TAAAATTATA
57725554 TAAAATTA-A
1 TAAAATTATA
57725563 -AAAATT-TA
1 TAAAATTATA
57725571 CTAAAATTAT
1 -TAAAATTAT
57725581 GTCTAATGTC
Statistics
Matches: 40, Mismatches: 3, Indels: 9
0.77 0.06 0.17
Matches are distributed among these distances:
8 7 0.17
9 1 0.03
10 23 0.57
11 9 0.22
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.40
Consensus pattern (10 bp):
TAAAATTATA
Found at i:57735438 original size:20 final size:20
Alignment explanation
Indices: 57735374--57735439 Score: 55
Period size: 20 Copynumber: 3.4 Consensus size: 20
57735364 ATGCACATCA
* * *
57735374 ATAAACAATTTAAAA-AATC
1 ATAAAAAATTCAAAAGAATT
* *
57735393 ATAAAAATGTTC-AAAGAAAT
1 ATAAAAA-ATTCAAAAGAATT
*
57735413 AAAAAAAATTCAAAAGAATT
1 ATAAAAAATTCAAAAGAATT
57735433 ATAAAAA
1 ATAAAAA
57735440 GTTTACAAAA
Statistics
Matches: 35, Mismatches: 9, Indels: 5
0.71 0.18 0.10
Matches are distributed among these distances:
19 12 0.34
20 23 0.66
ACGTcount: A:0.67, C:0.06, G:0.05, T:0.23
Consensus pattern (20 bp):
ATAAAAAATTCAAAAGAATT
Found at i:57736289 original size:16 final size:16
Alignment explanation
Indices: 57736268--57736300 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
57736258 TAGGTATTAC
57736268 TTTTGATAAATTATAT
1 TTTTGATAAATTATAT
*
57736284 TTTTGATAAATTTTAT
1 TTTTGATAAATTATAT
57736300 T
1 T
57736301 GACAATGACG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.33, C:0.00, G:0.06, T:0.61
Consensus pattern (16 bp):
TTTTGATAAATTATAT
Found at i:57741322 original size:139 final size:138
Alignment explanation
Indices: 57741049--57741324 Score: 489
Period size: 139 Copynumber: 2.0 Consensus size: 138
57741039 CAAGAATGGG
57741049 TGCTGCTTACTATACCCTCAAGGCTAGAATTCTAGGATCTCTGATCAACGATGACTTGTAAGAGT
1 TGCTGCTTACTATACCCTCAAGGCTAGAATTCTAGGATCTCTGATCAACGATGACTTGTAAGAGT
** * *
57741114 TAAAATTACATTGGCCTCAACGTTACTTGGATTTGGATGGAATATTGATGTGTTTTAACACGGTA
66 TAAAATTACATCAGCCTCAACGTCACTCGGATTTGGATGGAATATTGATGTGTTTTAACACGGTA
57741179 TGTTCAAC
131 TGTTCAAC
* *
57741187 TGCTGCTTACTATACCCTCAAGGCTGGAATTCTAGGATCTCTGATCAACGGTGACTTGTAAGAGT
1 TGCTGCTTACTATACCCTCAAGGCTAGAATTCTAGGATCTCTGATCAACGATGACTTGTAAGAG-
57741252 TTAAAATTACATCAGCCTCAACGTCACTCGGATTTGGATGGAATATTGATGTGTTTTAACACGGT
65 TTAAAATTACATCAGCCTCAACGTCACTCGGATTTGGATGGAATATTGATGTGTTTTAACACGGT
57741317 ATGTTCAA
130 ATGTTCAA
57741325 TTTTCTTAAA
Statistics
Matches: 131, Mismatches: 6, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
138 62 0.47
139 69 0.53
ACGTcount: A:0.28, C:0.18, G:0.21, T:0.33
Consensus pattern (138 bp):
TGCTGCTTACTATACCCTCAAGGCTAGAATTCTAGGATCTCTGATCAACGATGACTTGTAAGAGT
TAAAATTACATCAGCCTCAACGTCACTCGGATTTGGATGGAATATTGATGTGTTTTAACACGGTA
TGTTCAAC
Found at i:57743242 original size:63 final size:63
Alignment explanation
Indices: 57743175--57743296 Score: 138
Period size: 63 Copynumber: 1.9 Consensus size: 63
57743165 CTAATTTGCA
* * * * *
57743175 AACAGT-AAGTCACTCGGCCTGTACACACACCCGTGTCTCTAGCCTATGTGGTCCCTAATGGTG
1 AACAGTGAA-TCACACGGCATGGACACACACCAGTGTCTCTAGCCCATGTGGTCCCTAATGGTG
*** * *
57743238 AACAGTGAATCACACGGCATGGACACGTGCCAGTGTCTCTGGCCCGTGTGGTCCCTAAT
1 AACAGTGAATCACACGGCATGGACACACACCAGTGTCTCTAGCCCATGTGGTCCCTAAT
57743297 AGCAAACAGT
Statistics
Matches: 48, Mismatches: 10, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
63 46 0.96
64 2 0.04
ACGTcount: A:0.22, C:0.30, G:0.25, T:0.24
Consensus pattern (63 bp):
AACAGTGAATCACACGGCATGGACACACACCAGTGTCTCTAGCCCATGTGGTCCCTAATGGTG
Found at i:57748620 original size:21 final size:21
Alignment explanation
Indices: 57748588--57748628 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
57748578 AGGCTCGAGG
57748588 GGCCTGTTTTAGGCC-ATACAA
1 GGCCTGTTTTA-GCCTATACAA
57748609 GGCCT-TTCTTAGCCTATACA
1 GGCCTGTT-TTAGCCTATACA
57748629 CCAAATGTTC
Statistics
Matches: 18, Mismatches: 0, Indels: 4
0.82 0.00 0.18
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.22, C:0.27, G:0.20, T:0.32
Consensus pattern (21 bp):
GGCCTGTTTTAGCCTATACAA
Found at i:57773083 original size:16 final size:17
Alignment explanation
Indices: 57773052--57773084 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
57773042 AAAATAATAC
57773052 AAATATATACAAATTTA
1 AAATATATACAAATTTA
*
57773069 AAATAT-TATAAATTTA
1 AAATATATACAAATTTA
57773085 TAAAAACATA
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:0.58, C:0.03, G:0.00, T:0.39
Consensus pattern (17 bp):
AAATATATACAAATTTA
Found at i:57773206 original size:30 final size:31
Alignment explanation
Indices: 57773155--57773241 Score: 95
Period size: 33 Copynumber: 2.7 Consensus size: 31
57773145 AAACTATAAA
57773155 AATTATTAAAAATTGAACAAAAAAAG-CATTAAT
1 AATTATT-AAAA-T-AACAAAAAAAGACATTAAT
*
57773188 AATTATTAAAATAACAAAAAGTATGACATTAAT
1 AATTATTAAAATAACAAAAA--AAGACATTAAT
* *
57773221 CATTATTAAAATTACAAAAAA
1 AATTATTAAAATAACAAAAAA
57773242 TAAAAATTGT
Statistics
Matches: 48, Mismatches: 3, Indels: 8
0.81 0.05 0.14
Matches are distributed among these distances:
30 8 0.17
31 2 0.04
32 6 0.12
33 32 0.67
ACGTcount: A:0.60, C:0.07, G:0.05, T:0.29
Consensus pattern (31 bp):
AATTATTAAAATAACAAAAAAAGACATTAAT
Found at i:57774569 original size:27 final size:27
Alignment explanation
Indices: 57774531--57774585 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
57774521 CCCGACACTC
57774531 ATACTATGGTCTTTTTCATCAACAAAG
1 ATACTATGGTCTTTTTCATCAACAAAG
57774558 ATACTATGGTCTTTTTCATCAACAAAG
1 ATACTATGGTCTTTTTCATCAACAAAG
57774585 A
1 A
57774586 CCATATCCTA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.35, C:0.18, G:0.11, T:0.36
Consensus pattern (27 bp):
ATACTATGGTCTTTTTCATCAACAAAG
Found at i:57777164 original size:81 final size:82
Alignment explanation
Indices: 57777029--57777187 Score: 293
Period size: 81 Copynumber: 2.0 Consensus size: 82
57777019 CTGTCTATTT
*
57777029 TGTAACACCCCTTACCCGTATTCGACACCGAAATAGGGTATGAGGTATTACCGGAGTTTACTAAT
1 TGTAACACCCCTTACCCGTATTCGACACCGAAATAGGGTACGAGGTATTACCGGAGTTTACTAAT
57777094 TAA-TTTTCAGACTAAA
66 TAATTTTTCAGACTAAA
*
57777110 TGTAACACCCCTTACTCGTATTCGACACCGAAATAGGGTACGAGGTATTACCGGAGTTTACTAAT
1 TGTAACACCCCTTACCCGTATTCGACACCGAAATAGGGTACGAGGTATTACCGGAGTTTACTAAT
57777175 TAATTTTTCAGAC
66 TAATTTTTCAGAC
57777188 ATTTCATTTT
Statistics
Matches: 75, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
81 66 0.88
82 9 0.12
ACGTcount: A:0.31, C:0.21, G:0.18, T:0.30
Consensus pattern (82 bp):
TGTAACACCCCTTACCCGTATTCGACACCGAAATAGGGTACGAGGTATTACCGGAGTTTACTAAT
TAATTTTTCAGACTAAA
Found at i:57788765 original size:6 final size:6
Alignment explanation
Indices: 57788754--57788778 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
57788744 TGTATACCAT
57788754 ATGTAA ATGTAA ATGTAA ATGTAA A
1 ATGTAA ATGTAA ATGTAA ATGTAA A
57788779 ATGATGCTAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.52, C:0.00, G:0.16, T:0.32
Consensus pattern (6 bp):
ATGTAA
Found at i:57793054 original size:2 final size:2
Alignment explanation
Indices: 57793047--57793077 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
57793037 TTCATAGCAA
57793047 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
57793078 AATCAGATAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:57797163 original size:147 final size:147
Alignment explanation
Indices: 57796894--57797334 Score: 544
Period size: 147 Copynumber: 3.0 Consensus size: 147
57796884 AGTTTTGAAC
* * * * * * * *
57796894 CCAAGTCGACTATAGTTCAGCATGGCATTTCATCAAACAATT-TAGATGCAGAAAACGTAATGAA
1 CCAAGTCGACAATAGTTCAGCCTGACATTTCATCAAAC-ATTAGAGATGCTGAAAATGCAATCAA
* *
57796958 GGAAGATAACCTGACATCTCAACTTAAGGAGGAGGTTACTGAAATGGATGATTCTGGGGTTGTGG
65 GGAAGATAACCTGACATCTGAACTTAAGGAGGAGGTTACCGAAATGGATGATTCTGGGGTTGTGG
* *
57797023 AAGTTGAAGTTAATGTAG
130 AAGATAAAGTTAATGTAG
* * * * * ** *
57797041 CGAAGTCTACAATAGTTCAGCCTGACATTTCATCGAACATTGGAGGTGCTGAAGGTGCAATTAAG
1 CCAAGTCGACAATAGTTCAGCCTGACATTTCATCAAACATTAGAGATGCTGAAAATGCAATCAAG
* * * *
57797106 GAAGATAACCTAACATCTGAACTTAAGGAGGAGGTTACCGAAATGGATGATTCTGGGGTCGTAGC
66 GAAGATAACCTGACATCTGAACTTAAGGAGGAGGTTACCGAAATGGATGATTCTGGGGTTGTGGA
57797171 AGATAAAGTTAATGTAG
131 AGATAAAGTTAATGTAG
* * ** *
57797188 CCAAGTGGACGATAGTTCAGTGTGGCATTTCATCAAACATTAGAGATGCTGAAAATGCAATCAAG
1 CCAAGTCGACAATAGTTCAGCCTGACATTTCATCAAACATTAGAGATGCTGAAAATGCAATCAAG
* * * * *
57797253 GAAGATAACCTGACGTCTGAACTTAAGGAGGAGGTCACCGAAAGGGTTGATTCCT-TGGTTGTGG
66 GAAGATAACCTGACATCTGAACTTAAGGAGGAGGTTACCGAAATGGATGATT-CTGGGGTTGTGG
57797317 AAGATAAAGTTAATGTAG
130 AAGATAAAGTTAATGTAG
57797335 AAAAGAAAGA
Statistics
Matches: 248, Mismatches: 44, Indels: 4
0.84 0.15 0.01
Matches are distributed among these distances:
146 3 0.01
147 243 0.98
148 2 0.01
ACGTcount: A:0.34, C:0.14, G:0.26, T:0.26
Consensus pattern (147 bp):
CCAAGTCGACAATAGTTCAGCCTGACATTTCATCAAACATTAGAGATGCTGAAAATGCAATCAAG
GAAGATAACCTGACATCTGAACTTAAGGAGGAGGTTACCGAAATGGATGATTCTGGGGTTGTGGA
AGATAAAGTTAATGTAG
Found at i:57798929 original size:15 final size:15
Alignment explanation
Indices: 57798909--57798955 Score: 67
Period size: 15 Copynumber: 3.1 Consensus size: 15
57798899 TATTCTAAGT
57798909 TTGATTAAAATTTAA
1 TTGATTAAAATTTAA
*
57798924 TTGATTCAAATTTAA
1 TTGATTAAAATTTAA
* *
57798939 ATGATTAAAATGTAA
1 TTGATTAAAATTTAA
57798954 TT
1 TT
57798956 TGAGGGAAAT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
15 27 1.00
ACGTcount: A:0.45, C:0.02, G:0.09, T:0.45
Consensus pattern (15 bp):
TTGATTAAAATTTAA
Found at i:57799403 original size:30 final size:30
Alignment explanation
Indices: 57799369--57799454 Score: 127
Period size: 30 Copynumber: 2.9 Consensus size: 30
57799359 TCTCTTTTAA
*
57799369 AAACAAATTTATTTTTATGACTCACATAAC
1 AAACAAACTTATTTTTATGACTCACATAAC
* * * *
57799399 AAACAAGCTTACTTTTATTACTCATATAAC
1 AAACAAACTTATTTTTATGACTCACATAAC
57799429 AAACAAACTTATTTTTATGACTCACA
1 AAACAAACTTATTTTTATGACTCACA
57799455 AAATAGGCAA
Statistics
Matches: 47, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 47 1.00
ACGTcount: A:0.42, C:0.19, G:0.03, T:0.36
Consensus pattern (30 bp):
AAACAAACTTATTTTTATGACTCACATAAC
Found at i:57801177 original size:13 final size:14
Alignment explanation
Indices: 57801161--57801194 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
57801151 CGTAATCATA
57801161 TTTTATTTTTTTAT
1 TTTTATTTTTTTAT
*
57801175 TTTTATTTTTATCAT
1 TTTTATTTTT-TTAT
57801190 TTTTA
1 TTTTA
57801195 GAAATACTTC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 10 0.56
15 8 0.44
ACGTcount: A:0.18, C:0.03, G:0.00, T:0.79
Consensus pattern (14 bp):
TTTTATTTTTTTAT
Found at i:57801191 original size:15 final size:15
Alignment explanation
Indices: 57801155--57801194 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
57801145 TTTTAGCGTA
57801155 ATCATATTTTATTTTT
1 ATCAT-TTTTATTTTT
*
57801171 -TTATTTTTATTTTT
1 ATCATTTTTATTTTT
57801185 ATCATTTTTA
1 ATCATTTTTA
57801195 GAAATACTTC
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
14 10 0.48
15 11 0.52
ACGTcount: A:0.23, C:0.05, G:0.00, T:0.72
Consensus pattern (15 bp):
ATCATTTTTATTTTT
Found at i:57802249 original size:30 final size:30
Alignment explanation
Indices: 57802153--57802238 Score: 154
Period size: 30 Copynumber: 2.9 Consensus size: 30
57802143 TCTTCTTTAT
57802153 AAACAAACTTACTTTTATGACTCACATAAC
1 AAACAAACTTACTTTTATGACTCACATAAC
* *
57802183 AAACAAACTTACTTTTATGATTCATATAAC
1 AAACAAACTTACTTTTATGACTCACATAAC
57802213 AAACAAACTTACTTTTATGACTCACA
1 AAACAAACTTACTTTTATGACTCACA
57802239 AAATAGACAA
Statistics
Matches: 52, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 52 1.00
ACGTcount: A:0.43, C:0.21, G:0.03, T:0.33
Consensus pattern (30 bp):
AAACAAACTTACTTTTATGACTCACATAAC
Found at i:57805710 original size:16 final size:16
Alignment explanation
Indices: 57805653--57805717 Score: 71
Period size: 16 Copynumber: 4.1 Consensus size: 16
57805643 AGACTCAGGC
57805653 TTTTC-CAAACTCAAA
1 TTTTCTCAAACTCAAA
*** *
57805668 TTTTCTCGGTCTCGAAC
1 TTTTCTCAAACTC-AAA
57805685 TTTT-TCAAACTCAAA
1 TTTTCTCAAACTCAAA
57805700 TTTTCTCAAACTCAAA
1 TTTTCTCAAACTCAAA
57805716 TT
1 TT
57805718 ATTACGAGCA
Statistics
Matches: 39, Mismatches: 8, Indels: 5
0.75 0.15 0.10
Matches are distributed among these distances:
15 11 0.28
16 22 0.56
17 6 0.15
ACGTcount: A:0.31, C:0.25, G:0.05, T:0.40
Consensus pattern (16 bp):
TTTTCTCAAACTCAAA
Found at i:57806209 original size:16 final size:16
Alignment explanation
Indices: 57806188--57806218 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
57806178 ATTAAAATAA
57806188 ATTATATTAATAATTT
1 ATTATATTAATAATTT
*
57806204 ATTATATTATTAATT
1 ATTATATTAATAATT
57806219 ATAATATTGG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (16 bp):
ATTATATTAATAATTT
Found at i:57808975 original size:20 final size:20
Alignment explanation
Indices: 57808950--57808991 Score: 75
Period size: 20 Copynumber: 2.1 Consensus size: 20
57808940 AGATCGATTG
57808950 AATCGATTAAGAGTATTTAA
1 AATCGATTAAGAGTATTTAA
*
57808970 AATCGATTAAGAGTGTTTAA
1 AATCGATTAAGAGTATTTAA
57808990 AA
1 AA
57808992 AATCTAACTC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.45, C:0.05, G:0.17, T:0.33
Consensus pattern (20 bp):
AATCGATTAAGAGTATTTAA
Found at i:57810970 original size:40 final size:40
Alignment explanation
Indices: 57810926--57811004 Score: 158
Period size: 40 Copynumber: 2.0 Consensus size: 40
57810916 ACTTATTTTT
57810926 TAATTAAAAGATACAAAATATAATCTATCACTTAATATAA
1 TAATTAAAAGATACAAAATATAATCTATCACTTAATATAA
57810966 TAATTAAAAGATACAAAATATAATCTATCACTTAATATA
1 TAATTAAAAGATACAAAATATAATCTATCACTTAATATA
57811005 GGGACTTTCG
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 39 1.00
ACGTcount: A:0.54, C:0.10, G:0.03, T:0.33
Consensus pattern (40 bp):
TAATTAAAAGATACAAAATATAATCTATCACTTAATATAA
Found at i:57813835 original size:17 final size:17
Alignment explanation
Indices: 57813809--57813843 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
57813799 TATTGGTATT
*
57813809 AGGAATTGGGTTGAAAA
1 AGGAACTGGGTTGAAAA
57813826 AGGAACTGGGTTGAAAA
1 AGGAACTGGGTTGAAAA
57813843 A
1 A
57813844 CAACTCGTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.43, C:0.03, G:0.34, T:0.20
Consensus pattern (17 bp):
AGGAACTGGGTTGAAAA
Found at i:57813848 original size:16 final size:17
Alignment explanation
Indices: 57813815--57813848 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
57813805 TATTAGGAAT
*
57813815 TGGGTTGAAAAAGGAAC
1 TGGGTTGAAAAAGCAAC
57813832 TGGGTTGAAAAA-CAAC
1 TGGGTTGAAAAAGCAAC
57813848 T
1 T
57813849 CGTTAGTTGA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 4 0.25
17 12 0.75
ACGTcount: A:0.41, C:0.09, G:0.29, T:0.21
Consensus pattern (17 bp):
TGGGTTGAAAAAGCAAC
Found at i:57816053 original size:25 final size:25
Alignment explanation
Indices: 57816025--57816072 Score: 96
Period size: 25 Copynumber: 1.9 Consensus size: 25
57816015 ATTTGGCCAT
57816025 TAAACTATTTGAAAGTTTTCATTTA
1 TAAACTATTTGAAAGTTTTCATTTA
57816050 TAAACTATTTGAAAGTTTTCATT
1 TAAACTATTTGAAAGTTTTCATT
57816073 CAAGTTATTG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.35, C:0.08, G:0.08, T:0.48
Consensus pattern (25 bp):
TAAACTATTTGAAAGTTTTCATTTA
Found at i:57816554 original size:23 final size:25
Alignment explanation
Indices: 57816524--57816570 Score: 80
Period size: 23 Copynumber: 2.0 Consensus size: 25
57816514 AGTTTACTTG
57816524 TTAAAAAATGTAT-G-ATATAAAAA
1 TTAAAAAATGTATGGCATATAAAAA
57816547 TTAAAAAATGTATGGCATATAAAA
1 TTAAAAAATGTATGGCATATAAAA
57816571 CATATATATA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
23 13 0.59
24 1 0.05
25 8 0.36
ACGTcount: A:0.57, C:0.02, G:0.11, T:0.30
Consensus pattern (25 bp):
TTAAAAAATGTATGGCATATAAAAA
Found at i:57818972 original size:23 final size:21
Alignment explanation
Indices: 57818946--57819018 Score: 76
Period size: 20 Copynumber: 3.3 Consensus size: 21
57818936 AAAATACCTA
57818946 AAAATATATATAAAAAAAATTAT
1 AAAA-ATA-ATAAAAAAAATTAT
*
57818969 AAAAAATAAATATAAAAAATTAT
1 -AAAAAT-AATAAAAAAAATTAT
* *
57818992 AAAAATAGT-AAAAATATTAT
1 AAAAATAATAAAAAAAATTAT
57819012 AAAAATA
1 AAAAATA
57819019 CTTTTCAGTC
Statistics
Matches: 44, Mismatches: 4, Indels: 6
0.81 0.07 0.11
Matches are distributed among these distances:
20 16 0.36
21 2 0.05
22 6 0.14
23 15 0.34
24 5 0.11
ACGTcount: A:0.71, C:0.00, G:0.01, T:0.27
Consensus pattern (21 bp):
AAAAATAATAAAAAAAATTAT
Found at i:57818973 original size:25 final size:23
Alignment explanation
Indices: 57818944--57819016 Score: 80
Period size: 23 Copynumber: 3.3 Consensus size: 23
57818934 CGAAAATACC
*
57818944 TAAAAATATATATAAAAAAAATTA
1 TAAAAA-ATAAATAAAAAAAATTA
*
57818968 TAAAAAATAAATATAAAAAATTA
1 TAAAAAATAAATAAAAAAAATTA
* *
57818991 T-AAAAAT-AGT-AAAAATATTA
1 TAAAAAATAAATAAAAAAAATTA
57819011 TAAAAA
1 TAAAAA
57819017 TACTTTTCAG
Statistics
Matches: 43, Mismatches: 5, Indels: 5
0.81 0.09 0.09
Matches are distributed among these distances:
20 9 0.21
21 6 0.14
22 6 0.14
23 16 0.37
24 6 0.14
ACGTcount: A:0.71, C:0.00, G:0.01, T:0.27
Consensus pattern (23 bp):
TAAAAAATAAATAAAAAAAATTA
Found at i:57818974 original size:10 final size:10
Alignment explanation
Indices: 57818959--57819016 Score: 57
Period size: 10 Copynumber: 5.5 Consensus size: 10
57818949 ATATATATAA
57818959 AAAAAATTAT
1 AAAAAATTAT
57818969 AAAAAATAAATAT
1 AAAAAAT---TAT
57818982 AAAAAATTAT
1 AAAAAATTAT
57818992 -AAAAA-TAGT
1 AAAAAATTA-T
57819001 AAAAATATTAT
1 AAAAA-ATTAT
57819012 AAAAA
1 AAAAA
57819017 TACTTTTCAG
Statistics
Matches: 41, Mismatches: 0, Indels: 13
0.76 0.00 0.24
Matches are distributed among these distances:
8 2 0.05
9 6 0.15
10 14 0.34
11 7 0.17
12 2 0.05
13 10 0.24
ACGTcount: A:0.72, C:0.00, G:0.02, T:0.26
Consensus pattern (10 bp):
AAAAAATTAT
Found at i:57818988 original size:13 final size:13
Alignment explanation
Indices: 57818945--57818988 Score: 63
Period size: 13 Copynumber: 3.5 Consensus size: 13
57818935 GAAAATACCT
*
57818945 AAAAATATATATA
1 AAAAATAAATATA
*
57818958 AAAAA-AATTATA
1 AAAAATAAATATA
57818970 AAAAATAAATATA
1 AAAAATAAATATA
57818983 AAAAAT
1 AAAAAT
57818989 TATAAAAATA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
12 10 0.37
13 17 0.63
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (13 bp):
AAAAATAAATATA
Found at i:57819017 original size:11 final size:11
Alignment explanation
Indices: 57818944--57819018 Score: 66
Period size: 12 Copynumber: 6.7 Consensus size: 11
57818934 CGAAAATACC
57818944 TAAAAATATATA
1 TAAAAATAT-TA
*
57818956 TAAAAAAAATTA
1 T-AAAAATATTA
*
57818968 TAAAAAATAAATA
1 T-AAAAAT-ATTA
57818981 TAAAAA-ATTA
1 TAAAAATATTA
*
57818991 TAAAAATA--G
1 TAAAAATATTA
57819000 TAAAAATATTA
1 TAAAAATATTA
57819011 TAAAAATA
1 TAAAAATA
57819019 CTTTTCAGTC
Statistics
Matches: 52, Mismatches: 6, Indels: 11
0.75 0.09 0.16
Matches are distributed among these distances:
9 8 0.15
10 9 0.17
11 9 0.17
12 15 0.29
13 11 0.21
ACGTcount: A:0.71, C:0.00, G:0.01, T:0.28
Consensus pattern (11 bp):
TAAAAATATTA
Found at i:57820105 original size:30 final size:31
Alignment explanation
Indices: 57820066--57820131 Score: 80
Period size: 31 Copynumber: 2.2 Consensus size: 31
57820056 TAACAGCTTG
* *
57820066 ATGAATTAAAT-AAAAAATTTGAATATTTTA
1 ATGACTTAAATGAAAAAATTTGAATAGTTTA
* **
57820096 GTGACTTAAATGAAAACTTTTGAATAGTTTA
1 ATGACTTAAATGAAAAAATTTGAATAGTTTA
57820127 ATGAC
1 ATGAC
57820132 CATTTTGTAA
Statistics
Matches: 29, Mismatches: 6, Indels: 1
0.81 0.17 0.03
Matches are distributed among these distances:
30 9 0.31
31 20 0.69
ACGTcount: A:0.45, C:0.05, G:0.12, T:0.38
Consensus pattern (31 bp):
ATGACTTAAATGAAAAAATTTGAATAGTTTA
Found at i:57823121 original size:302 final size:299
Alignment explanation
Indices: 57822575--57823174 Score: 1033
Period size: 302 Copynumber: 2.0 Consensus size: 299
57822565 TGTAATTAAG
*
57822575 GTCCATGAGAGTGGCCCTTCTGATATCAAACCAGTCCAAGCCAAGGAGGGGATTGACAACAAAAG
1 GTCCATGAGAGTGGCCCTTCTGATATCAAACCAGTCCAAACCAAGGAGGGGATTGACAACAAAAG
*
57822640 GTTTTTGTACATTTCTTATTGCTTAGTGCAAATTATTTTCAATAACAGTGTAGTCTTTAGCTTCT
66 GTTTTTGTACATTTCTTATTGCTTAGTGCAAATTATTTTCAATAACAGTGTAGTCTTTAACTTCT
57822705 TTGTTTGAAAACTTCAGTGACAGAGTAAAATTCATGGTTTCTTTTATGTTTTGGTTGCAGGGTTT
131 TTGTTTGAAAACTTCAGTGACAGAGTAAAATTCATGGTTTCTTTTATGTTTTGGTTGCAGGGTTT
* *
57822770 GTTCAAGAAGGCAATCTGCTAGGTTTAAAGCCCAAGAACCTGAAACTACTGAATATATGTTCGAG
196 GTTCAAAAAGGCAATCTGCTAGGTTTAAAGCCCAAGAACCTGAAACTACTGAATATATGTGCGAG
*
57822835 GTAGATGATACAAAATCTTTTGATTCTACCCGTGATGATAAC
261 GT--A-GATACAAAATCTTTTGATCCTACCCGTGATGATAAC
*
57822877 GTCCATGGGAGTGGCCCTTCTGATATCAAACCAGTCCAAACCAAGGAGGGGATTGACAACAAAAG
1 GTCCATGAGAGTGGCCCTTCTGATATCAAACCAGTCCAAACCAAGGAGGGGATTGACAACAAAAG
*
57822942 GTTTTTGTACATTTCTTATTGCTTAGTGCAAATTATTTTCAATAACAGTGTAGTCTTTTAACTTT
66 GTTTTTGTACATTTCTTATTGCTTAGTGCAAATTATTTTCAATAACAGTGTAGTC-TTTAACTTC
*
57823007 TTTGTTTGAAAACTTCAGTGACAG-G-AAAATTCATGGGTTTTTTTTATGTTTTGGTTGCAGGGT
130 TTTGTTTGAAAACTTCAGTGACAGAGTAAAATTCAT-GGTTTCTTTTATGTTTTGGTTGCAGGGT
*
57823070 TTGTTTAAAAAGGCAATCTGCTAGGTTTAAAGCCCAAGAACCTGAAACTACTGAATATATGTGCG
194 TTGTTCAAAAAGGCAATCTGCTAGGTTTAAAGCCCAAGAACCTGAAACTACTGAATATATGTGCG
* * *
57823135 AGGTAGATACAAAATCTTTTGCTCCTATCTGTGATGATAA
259 AGGTAGATACAAAATCTTTTGATCCTACCCGTGATGATAA
57823175 GGTGTGTAAA
Statistics
Matches: 284, Mismatches: 12, Indels: 7
0.94 0.04 0.02
Matches are distributed among these distances:
299 31 0.11
300 1 0.00
301 9 0.03
302 212 0.75
303 31 0.11
ACGTcount: A:0.29, C:0.16, G:0.20, T:0.34
Consensus pattern (299 bp):
GTCCATGAGAGTGGCCCTTCTGATATCAAACCAGTCCAAACCAAGGAGGGGATTGACAACAAAAG
GTTTTTGTACATTTCTTATTGCTTAGTGCAAATTATTTTCAATAACAGTGTAGTCTTTAACTTCT
TTGTTTGAAAACTTCAGTGACAGAGTAAAATTCATGGTTTCTTTTATGTTTTGGTTGCAGGGTTT
GTTCAAAAAGGCAATCTGCTAGGTTTAAAGCCCAAGAACCTGAAACTACTGAATATATGTGCGAG
GTAGATACAAAATCTTTTGATCCTACCCGTGATGATAAC
Found at i:57826038 original size:14 final size:15
Alignment explanation
Indices: 57826007--57826039 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
57825997 GAAACAGTTT
*
57826007 GAATTAAAAATGTTA
1 GAATTAAAAATGTGA
57826022 GAATTAAAAATG-GA
1 GAATTAAAAATGTGA
57826036 GAAT
1 GAAT
57826040 ATTAGAGGGT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 5 0.29
15 12 0.71
ACGTcount: A:0.55, C:0.00, G:0.18, T:0.27
Consensus pattern (15 bp):
GAATTAAAAATGTGA
Found at i:57827480 original size:22 final size:22
Alignment explanation
Indices: 57827455--57827526 Score: 65
Period size: 22 Copynumber: 3.2 Consensus size: 22
57827445 ACAATTTTTA
57827455 TTATTTATAGCAAATTAAAGAG
1 TTATTTATAGCAAATTAAAGAG
* *** * *
57827477 TTATTAATTTAAAATTCTATATA-
1 TTATTTATAGCAAA-T-TAAAGAG
57827500 TTATTTATAGCAAATTAAAGAG
1 TTATTTATAGCAAATTAAAGAG
57827522 TTATT
1 TTATT
57827527 AATTTAAAAG
Statistics
Matches: 35, Mismatches: 12, Indels: 6
0.66 0.23 0.11
Matches are distributed among these distances:
21 4 0.11
22 16 0.46
23 11 0.31
24 4 0.11
ACGTcount: A:0.43, C:0.04, G:0.08, T:0.44
Consensus pattern (22 bp):
TTATTTATAGCAAATTAAAGAG
Found at i:57830941 original size:20 final size:20
Alignment explanation
Indices: 57830916--57830956 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
57830906 TTGGTCAAAG
57830916 AAAGGTTAAATTCTATTCTT
1 AAAGGTTAAATTCTATTCTT
57830936 AAAGGTTAAATTCTATTCTT
1 AAAGGTTAAATTCTATTCTT
57830956 A
1 A
57830957 CAGCATGTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.37, C:0.10, G:0.10, T:0.44
Consensus pattern (20 bp):
AAAGGTTAAATTCTATTCTT
Found at i:57834206 original size:26 final size:28
Alignment explanation
Indices: 57834152--57834212 Score: 81
Period size: 28 Copynumber: 2.2 Consensus size: 28
57834142 TATTATCAAG
* *
57834152 AATTTTATGAAATTATATATTATTATTA
1 AATTATATGAAATAATATATTATTATTA
*
57834180 AATTATATGTAATAATA-ATTATT-TTA
1 AATTATATGAAATAATATATTATTATTA
57834206 AATTATA
1 AATTATA
57834213 CAAATTCATG
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
26 10 0.33
27 6 0.20
28 14 0.47
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (28 bp):
AATTATATGAAATAATATATTATTATTA
Found at i:57834408 original size:16 final size:16
Alignment explanation
Indices: 57834387--57834428 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
57834377 TTATTAAATT
*
57834387 ATATATTTTAATTATA
1 ATATATTTTAATAATA
57834403 ATATA-TTTAATAATA
1 ATATATTTTAATAATA
57834418 AT-TATGTTTAA
1 ATATAT-TTTAA
57834429 ATATGATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 2 0.09
15 11 0.48
16 10 0.43
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (16 bp):
ATATATTTTAATAATA
Found at i:57834413 original size:15 final size:15
Alignment explanation
Indices: 57834378--57834419 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
57834368 TTAAGAATTT
*
57834378 TATTAAATTAT-ATA
1 TATTTAATTATAATA
57834392 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
57834406 TATTTAATAATAAT
1 TATTTAATTATAAT
57834420 TATGTTTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 8 0.33
14 5 0.21
15 11 0.46
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:57834665 original size:16 final size:16
Alignment explanation
Indices: 57834644--57834711 Score: 127
Period size: 16 Copynumber: 4.2 Consensus size: 16
57834634 GATTTGCTAT
57834644 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
57834660 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
*
57834676 TACACTTCTAATCCAA
1 TACACCTCTAATCCAA
57834692 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
57834708 TACA
1 TACA
57834712 GCGAACCAAA
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 50 1.00
ACGTcount: A:0.38, C:0.35, G:0.00, T:0.26
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:57834915 original size:9 final size:9
Alignment explanation
Indices: 57834901--57834927 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
57834891 AGCAAATTAG
57834901 CAATTAATA
1 CAATTAATA
57834910 CAATTAATA
1 CAATTAATA
57834919 CAATTAATA
1 CAATTAATA
57834928 ATTTGATAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.56, C:0.11, G:0.00, T:0.33
Consensus pattern (9 bp):
CAATTAATA
Found at i:57835042 original size:22 final size:22
Alignment explanation
Indices: 57835015--57835065 Score: 66
Period size: 22 Copynumber: 2.3 Consensus size: 22
57835005 TTACTACCAA
* * *
57835015 TTAATTTTAATAATAATTAGTT
1 TTAATTTTAATAAAAAATAATT
*
57835037 TTAATTTTATTAAAAAATAATT
1 TTAATTTTAATAAAAAATAATT
57835059 TTAATTT
1 TTAATTT
57835066 AAAAACGGGC
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (22 bp):
TTAATTTTAATAAAAAATAATT
Found at i:57837670 original size:103 final size:103
Alignment explanation
Indices: 57837530--57837860 Score: 529
Period size: 103 Copynumber: 3.2 Consensus size: 103
57837520 ATGAATCGGA
* * * *
57837530 GAATCAACACACAGCAACCCCTTGGGGGAATCAGCACTTAGCAACCCCC-TTCACATTTCAGATG
1 GAATCAACACACAGCAACCCCTCGGGGGAATCAGCACTTAGCAACCCCCTTTCACATTTAAAATA
* * *
57837594 CGGTGGAATCAACACTTAGCAACCACCAAATGGGTCGGG
66 CGGTGGAATCAGCACTTAGCAACCACC-AATAGGTAGGG
* **
57837633 GAATCAGCACTTAGCAACCCCTCGGGGGAATCAGCACTTAGCAACCCCCTTTCACATTTAAAATA
1 GAATCAACACACAGCAACCCCTCGGGGGAATCAGCACTTAGCAACCCCCTTTCACATTTAAAATA
57837698 CGGTGGAATCAGCACTTAGCAACCACCAATAGGTAGGG
66 CGGTGGAATCAGCACTTAGCAACCACCAATAGGTAGGG
** *
57837736 GAATCAACACTTAGCAACCCCTCGGGAGAATCAGCACTTAGCAACCCCCTTTCACATTTAAAATA
1 GAATCAACACACAGCAACCCCTCGGGGGAATCAGCACTTAGCAACCCCCTTTCACATTTAAAATA
57837801 CGGTGGAATCAGCACTTAGCAACCACCAATAGGTAGGG
66 CGGTGGAATCAGCACTTAGCAACCACCAATAGGTAGGG
57837839 GAATCAACACACAGCAACCCCT
1 GAATCAACACACAGCAACCCCT
57837861 TTATATGCAA
Statistics
Matches: 213, Mismatches: 14, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
103 175 0.82
104 38 0.18
ACGTcount: A:0.33, C:0.30, G:0.19, T:0.18
Consensus pattern (103 bp):
GAATCAACACACAGCAACCCCTCGGGGGAATCAGCACTTAGCAACCCCCTTTCACATTTAAAATA
CGGTGGAATCAGCACTTAGCAACCACCAATAGGTAGGG
Found at i:57842620 original size:26 final size:24
Alignment explanation
Indices: 57842577--57842635 Score: 64
Period size: 26 Copynumber: 2.4 Consensus size: 24
57842567 CTTGTTTTAA
* *
57842577 TATTTATTTTTATGTTTTTAAATG
1 TATTTATTTTTATATTTTAAAATG
*
57842601 TATTTGATTTATTATATTTTAAAATT
1 TATTT-ATTT-TTATATTTTAAAATG
*
57842627 TTTTTATTT
1 TATTTATTT
57842636 AATGAAATAA
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
24 5 0.17
25 8 0.28
26 16 0.55
ACGTcount: A:0.27, C:0.00, G:0.05, T:0.68
Consensus pattern (24 bp):
TATTTATTTTTATATTTTAAAATG
Found at i:57842635 original size:25 final size:26
Alignment explanation
Indices: 57842579--57842636 Score: 66
Period size: 25 Copynumber: 2.3 Consensus size: 26
57842569 TGTTTTAATA
* *
57842579 TTTATTT-TTATGTTTTTAAATGTAT
1 TTTATTTATTATATTTTAAAATGTAT
* *
57842604 TTGATTTATTATATTTTAAAAT-TTT
1 TTTATTTATTATATTTTAAAATGTAT
57842629 TTTATTTA
1 TTTATTTA
57842637 ATGAAATAAG
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
25 15 0.56
26 12 0.44
ACGTcount: A:0.28, C:0.00, G:0.05, T:0.67
Consensus pattern (26 bp):
TTTATTTATTATATTTTAAAATGTAT
Found at i:57849264 original size:19 final size:20
Alignment explanation
Indices: 57849231--57849268 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
57849221 TGGTTGTGAG
*
57849231 AAATGAAAAAGATTTTTTTA
1 AAATGAAAAACATTTTTTTA
57849251 AAAT-AAAAACATTTTTTT
1 AAATGAAAAACATTTTTTT
57849269 CCTAAATGCT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 13 0.76
20 4 0.24
ACGTcount: A:0.50, C:0.03, G:0.05, T:0.42
Consensus pattern (20 bp):
AAATGAAAAACATTTTTTTA
Found at i:57851079 original size:49 final size:52
Alignment explanation
Indices: 57851025--57851147 Score: 123
Period size: 57 Copynumber: 2.3 Consensus size: 52
57851015 TAATATAAAA
*
57851025 TTTAAATTTATTATTATA-TTTT-T-AAGATATTTATT-TATTTT-TATATATT
1 TTTAAATTTATTATTATATTTTTGTCAAAATATTT-TTAT-TTTTATATATATT
57851074 TTTAAATTT-TGTATAGTATTATTTTTGGTCCAAAATATTTTTATTTTTATATATATT
1 TTTAAATTTAT-TAT--TA-TATTTTT-GT-CAAAATATTTTTATTTTTATATATATT
57851131 TTTAAATTTATTATTAT
1 TTTAAATTTATTATTAT
57851148 GTATTTTTTG
Statistics
Matches: 61, Mismatches: 1, Indels: 19
0.75 0.01 0.23
Matches are distributed among these distances:
48 1 0.02
49 12 0.20
51 2 0.03
52 2 0.03
53 4 0.07
54 1 0.02
55 3 0.05
56 6 0.10
57 29 0.48
58 1 0.02
ACGTcount: A:0.32, C:0.02, G:0.04, T:0.63
Consensus pattern (52 bp):
TTTAAATTTATTATTATATTTTTGTCAAAATATTTTTATTTTTATATATATT
Found at i:57852016 original size:16 final size:15
Alignment explanation
Indices: 57851980--57852015 Score: 56
Period size: 15 Copynumber: 2.4 Consensus size: 15
57851970 TCAAATTAAG
57851980 ATTTTTAAAGCATTC
1 ATTTTTAAAGCATTC
57851995 ATTTTTACAA-CATTC
1 ATTTTTA-AAGCATTC
57852010 ATTTTT
1 ATTTTT
57852016 TCTTAATTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
15 18 0.90
16 2 0.10
ACGTcount: A:0.31, C:0.14, G:0.03, T:0.53
Consensus pattern (15 bp):
ATTTTTAAAGCATTC
Found at i:57852695 original size:21 final size:20
Alignment explanation
Indices: 57852667--57852710 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 20
57852657 ATTTATGTTT
** *
57852667 TAATAATATTAATAAAACAA
1 TAATAATAAAAATAAAAAAA
57852687 TAATAAATAAAAATAAAAAAA
1 TAAT-AATAAAAATAAAAAAA
57852708 TAA
1 TAA
57852711 ATTATGTTTT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
20 4 0.20
21 16 0.80
ACGTcount: A:0.73, C:0.02, G:0.00, T:0.25
Consensus pattern (20 bp):
TAATAATAAAAATAAAAAAA
Found at i:57853171 original size:24 final size:23
Alignment explanation
Indices: 57853117--57853173 Score: 66
Period size: 20 Copynumber: 2.6 Consensus size: 23
57853107 ACTAGGAAGT
*
57853117 AAAAAAGAAAAAAAAACAGCAAG
1 AAAAGAGAAAAAAAAACAGCAAG
*
57853140 --TAGA-AAAAAAAAACAGCAAG
1 AAAAGAGAAAAAAAAACAGCAAG
57853160 CAAAAGAGAAAAAA
1 -AAAAGAGAAAAAA
57853174 GGAAAGAGCA
Statistics
Matches: 27, Mismatches: 3, Indels: 7
0.73 0.08 0.19
Matches are distributed among these distances:
20 16 0.59
21 2 0.07
23 3 0.11
24 6 0.22
ACGTcount: A:0.75, C:0.09, G:0.14, T:0.02
Consensus pattern (23 bp):
AAAAGAGAAAAAAAAACAGCAAG
Found at i:57853172 original size:20 final size:20
Alignment explanation
Indices: 57853124--57853161 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
57853114 AGTAAAAAAG
*
57853124 AAAAAAAAACAGCAAGTAGA
1 AAAAAAAAACAGCAAGCAGA
57853144 AAAAAAAAACAGCAAGCA
1 AAAAAAAAACAGCAAGCA
57853162 AAAGAGAAAA
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:0.71, C:0.13, G:0.13, T:0.03
Consensus pattern (20 bp):
AAAAAAAAACAGCAAGCAGA
Found at i:57853361 original size:12 final size:12
Alignment explanation
Indices: 57853311--57853372 Score: 52
Period size: 13 Copynumber: 4.7 Consensus size: 12
57853301 AGGAGAAGGG
*
57853311 AAGAAAAGAGAA
1 AAGAAAAAAGAA
*
57853323 AAAAAAATAGAGAA
1 AAGAAAA-A-AGAA
57853337 GAAGAAGAGAAAGAA
1 -AAGAA-A-AAAGAA
57853352 AAGAAAAAAGAAA
1 AAGAAAAAAG-AA
57853365 AAGAAAAA
1 AAGAAAAA
57853373 TATACCATCA
Statistics
Matches: 41, Mismatches: 3, Indels: 11
0.75 0.05 0.20
Matches are distributed among these distances:
12 10 0.24
13 11 0.27
14 9 0.22
15 8 0.20
16 2 0.05
17 1 0.02
ACGTcount: A:0.77, C:0.00, G:0.21, T:0.02
Consensus pattern (12 bp):
AAGAAAAAAGAA
Found at i:57853363 original size:27 final size:25
Alignment explanation
Indices: 57853310--57853369 Score: 68
Period size: 27 Copynumber: 2.4 Consensus size: 25
57853300 AAGGAGAAGG
* *
57853310 GAAGAA-AAGAGAAAAAAAAATAGA
1 GAAGAAGAAGAGAAAAAAAAAAAAA
57853334 GAAGAAGAAGAGAAAGAAAAGAAAAAA
1 GAAGAAGAAGAGAAA-AAAA-AAAAAA
*
57853361 GAAAAAGAA
1 GAAGAAGAA
57853370 AAATATACCA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
24 6 0.20
25 8 0.27
26 4 0.13
27 12 0.40
ACGTcount: A:0.75, C:0.00, G:0.23, T:0.02
Consensus pattern (25 bp):
GAAGAAGAAGAGAAAAAAAAAAAAA
Found at i:57853990 original size:17 final size:17
Alignment explanation
Indices: 57853968--57854005 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
57853958 TCGTTTTTAA
57853968 AAAATTT-TCATGTCTTC
1 AAAATTTCTCATGT-TTC
*
57853985 AAAATTTCTCGTGTTTC
1 AAAATTTCTCATGTTTC
57854002 AAAA
1 AAAA
57854006 AAAATTCGTG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 14 0.74
18 5 0.26
ACGTcount: A:0.34, C:0.16, G:0.08, T:0.42
Consensus pattern (17 bp):
AAAATTTCTCATGTTTC
Found at i:57854023 original size:26 final size:27
Alignment explanation
Indices: 57853993--57854045 Score: 74
Period size: 26 Copynumber: 2.0 Consensus size: 27
57853983 TCAAAATTTC
57853993 TCGTG-TTTCAAAAAAAAT-TCGTGTTT
1 TCGTGTTTTC-AAAAAAATCTCGTGTTT
*
57854019 TCGTGTTTTCGAAAAAATCTCGTGTTT
1 TCGTGTTTTCAAAAAAATCTCGTGTTT
57854046 CAAAAAAAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
26 12 0.50
27 12 0.50
ACGTcount: A:0.26, C:0.13, G:0.17, T:0.43
Consensus pattern (27 bp):
TCGTGTTTTCAAAAAAATCTCGTGTTT
Found at i:57854181 original size:35 final size:35
Alignment explanation
Indices: 57854135--57854217 Score: 103
Period size: 35 Copynumber: 2.3 Consensus size: 35
57854125 TGTGTTTTCA
* * * *
57854135 TGTTTTAAAAAATTTTTGTGTTTTAAAAATCTTCG
1 TGTTTTAAAAAATTCTGGCGTTTCAAAAATCTTCG
* *
57854170 TGTTTTCAAAAATTCTGGCGTTTCAAAAATTTTCG
1 TGTTTTAAAAAATTCTGGCGTTTCAAAAATCTTCG
57854205 TGTTTTTAAAAAA
1 TG-TTTTAAAAAA
57854218 AAATTACGTG
Statistics
Matches: 40, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
35 31 0.77
36 9 0.22
ACGTcount: A:0.33, C:0.08, G:0.12, T:0.47
Consensus pattern (35 bp):
TGTTTTAAAAAATTCTGGCGTTTCAAAAATCTTCG
Found at i:57854219 original size:21 final size:20
Alignment explanation
Indices: 57854194--57854249 Score: 60
Period size: 19 Copynumber: 2.8 Consensus size: 20
57854184 CTGGCGTTTC
57854194 AAAAATTTTCGTGTTTTTAAA
1 AAAAATTTTCGTGTTTTT-AA
* * *
57854215 AAAAAATTACGTG-TTTTCA
1 AAAAATTTTCGTGTTTTTAA
*
57854234 AAAATTTTTCGTGTTT
1 AAAAATTTTCGTGTTT
57854250 CACAAATTCT
Statistics
Matches: 28, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
19 11 0.39
20 6 0.21
21 11 0.39
ACGTcount: A:0.36, C:0.07, G:0.11, T:0.46
Consensus pattern (20 bp):
AAAAATTTTCGTGTTTTTAA
Found at i:57854250 original size:18 final size:18
Alignment explanation
Indices: 57854129--57854488 Score: 169
Period size: 18 Copynumber: 21.0 Consensus size: 18
57854119 AAATTTTGTG
* *
57854129 TTTTCATGTTTTAAAAAA
1 TTTTCGTGTTTTCAAAAA
*
57854147 TTTTTGTGTTTT-AAAAA
1 TTTTCGTGTTTTCAAAAA
*
57854164 TCTTCGTGTTTTCAAAAA
1 TTTTCGTGTTTTCAAAAA
* * *
57854182 TTCTGGCG-TTTCAAAAA
1 TTTTCGTGTTTTCAAAAA
*
57854199 TTTTCGTGTTTTTAAAAAAAA
1 TTTTCGTG-TTTT--CAAAAA
* *
57854220 ATTACGTGTTTTCAAAAA
1 TTTTCGTGTTTTCAAAAA
*
57854238 TTTTTCGTG-TTTCACAAA
1 -TTTTCGTGTTTTCAAAAA
*
57854256 TTCTCGTGTTTTCAAAAA
1 TTTTCGTGTTTTCAAAAA
* * *
57854274 -CTCCG-GTGTTTC-AAAG
1 TTTTCGTGT-TTTCAAAAA
*
57854290 TTTTCATGTTTTCAAAAA
1 TTTTCGTGTTTTCAAAAA
* * *
57854308 TTCTCGCG--TTAAAAAA
1 TTTTCGTGTTTTCAAAAA
**
57854324 AATTCGTG-TTTCAAAATA
1 TTTTCGTGTTTTCAAAA-A
* **
57854342 TTCTCG-CATTTC---AA
1 TTTTCGTGTTTTCAAAAA
**
57854356 TTTT--TGTTTT-TTAAA
1 TTTTCGTGTTTTCAAAAA
57854371 ---TCGTG-TTTCAAAAAA
1 TTTTCGTGTTTTC-AAAAA
* *
57854386 ATGTCGTGTTTT-AAAAA
1 TTTTCGTGTTTTCAAAAA
57854403 TTTTCGT-TTTTCTAAAAA
1 TTTTCGTGTTTTC-AAAAA
*
57854421 TTTTCGTG-TTTCTAAAA
1 TTTTCGTGTTTTCAAAAA
*
57854438 TTTTCGTG-TTT-ACAAA
1 TTTTCGTGTTTTCAAAAA
* *
57854454 TTCTCGTATTTTCAAAAA
1 TTTTCGTGTTTTCAAAAA
*
57854472 TTCTCGTGTTTT-AAAAA
1 TTTTCGTGTTTTCAAAAA
57854489 AAACTTTCGT
Statistics
Matches: 256, Mismatches: 55, Indels: 63
0.68 0.15 0.17
Matches are distributed among these distances:
12 1 0.00
13 6 0.02
14 6 0.02
15 6 0.02
16 29 0.11
17 87 0.34
18 94 0.37
19 12 0.05
20 4 0.02
21 11 0.04
ACGTcount: A:0.31, C:0.12, G:0.11, T:0.46
Consensus pattern (18 bp):
TTTTCGTGTTTTCAAAAA
Found at i:57854263 original size:57 final size:57
Alignment explanation
Indices: 57854159--57854273 Score: 151
Period size: 57 Copynumber: 2.0 Consensus size: 57
57854149 TTTGTGTTTT
* * * *
57854159 AAAAATCTTCGTGTTTTCAAAAATTCTGGCGTTTCAAAAATTTTCGTGTTTTTAAAA
1 AAAAATCTACGTGTTTTCAAAAATTCTCGCGTTTCAAAAATTCTCGTGTTTTCAAAA
* * *
57854216 AAAAAT-TACGTGTTTTCAAAAATTTTTCGTGTTTCACAAATTCTCGTGTTTTCAAAA
1 AAAAATCTACGTGTTTTCAAAAA-TTCTCGCGTTTCAAAAATTCTCGTGTTTTCAAAA
57854273 A
1 A
57854274 CTCCGGTGTT
Statistics
Matches: 50, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
56 15 0.30
57 35 0.70
ACGTcount: A:0.34, C:0.13, G:0.11, T:0.42
Consensus pattern (57 bp):
AAAAATCTACGTGTTTTCAAAAATTCTCGCGTTTCAAAAATTCTCGTGTTTTCAAAA
Found at i:57854263 original size:92 final size:90
Alignment explanation
Indices: 57854135--57854307 Score: 231
Period size: 91 Copynumber: 1.9 Consensus size: 90
57854125 TGTGTTTTCA
* * *
57854135 TGTTTTAAAAAATTTTTGTGTTTTAAAAATCTTCGTGTTTTCAAAAATTCTGGCGTTTCAAAAAT
1 TGTTTTAAAAAATTTTTGTGTTTCAAAAATCTTCGTGTTTTCAAAAACTCCGGCGTTTC-AAAAT
* *
57854200 TTTCGTGTTTTTAAAAAAAAATTACG
65 TTTCATGTTTTCAAAAAAAAATTACG
* * * *
57854226 TGTTTTCAAAAATTTTTCGTGTTTCACAAAT-TCTCGTGTTTTCAAAAACTCCGGTGTTTCAAAG
1 TGTTTTAAAAAATTTTT-GTGTTTCAAAAATCT-TCGTGTTTTCAAAAACTCCGGCGTTTCAAAA
57854290 TTTTCATGTTTTCAAAAA
64 TTTTCATGTTTTCAAAAA
57854308 TTCTCGCGTT
Statistics
Matches: 71, Mismatches: 9, Indels: 4
0.85 0.11 0.05
Matches are distributed among these distances:
91 36 0.51
92 35 0.49
ACGTcount: A:0.31, C:0.12, G:0.12, T:0.45
Consensus pattern (90 bp):
TGTTTTAAAAAATTTTTGTGTTTCAAAAATCTTCGTGTTTTCAAAAACTCCGGCGTTTCAAAATT
TTCATGTTTTCAAAAAAAAATTACG
Found at i:57854428 original size:35 final size:34
Alignment explanation
Indices: 57854371--57854488 Score: 114
Period size: 35 Copynumber: 3.4 Consensus size: 34
57854361 GTTTTTTAAA
* * *
57854371 TCGTGTTTCAAAAAAATGTCGTGTTTTAAAAATTT
1 TCGTGTTT-TAAAAATTCTCGTGTTTTAAAAATTT
* *
57854406 TCGTTTTTCTAAAAATTTTCGTGTTTCT-AAAATTT
1 TCGTGTTT-TAAAAATTCTCGTGTTT-TAAAAATTT
* * *
57854441 TCGTG-TTTACAAATTCTCGTATTTTCAAAAATTC
1 TCGTGTTTTAAAAATTCTCGTGTTTT-AAAAATTT
57854475 TCGTGTTTTAAAAA
1 TCGTGTTTTAAAAA
57854489 AAACTTTCGT
Statistics
Matches: 69, Mismatches: 10, Indels: 8
0.79 0.11 0.09
Matches are distributed among these distances:
32 1 0.01
33 14 0.20
34 13 0.19
35 40 0.58
36 1 0.01
ACGTcount: A:0.31, C:0.12, G:0.11, T:0.47
Consensus pattern (34 bp):
TCGTGTTTTAAAAATTCTCGTGTTTTAAAAATTT
Found at i:57865563 original size:15 final size:15
Alignment explanation
Indices: 57865543--57865572 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
57865533 GTATTATGCC
57865543 TAAAAAAACAAAAAA
1 TAAAAAAACAAAAAA
57865558 TAAAAAAACAAAAAA
1 TAAAAAAACAAAAAA
57865573 GCAGAAAAGC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.87, C:0.07, G:0.00, T:0.07
Consensus pattern (15 bp):
TAAAAAAACAAAAAA
Found at i:57865580 original size:16 final size:15
Alignment explanation
Indices: 57865544--57865588 Score: 54
Period size: 15 Copynumber: 2.9 Consensus size: 15
57865534 TATTATGCCT
*
57865544 AAAAAAACAAAAAAT
1 AAAAAAACAAAAAAC
57865559 AAAAAAACAAAAAAGC
1 AAAAAAACAAAAAA-C
* *
57865575 AGAAAAGCAAAAAA
1 AAAAAAACAAAAAA
57865589 AAAGGTAAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
15 14 0.54
16 12 0.46
ACGTcount: A:0.82, C:0.09, G:0.07, T:0.02
Consensus pattern (15 bp):
AAAAAAACAAAAAAC
Found at i:57866602 original size:76 final size:76
Alignment explanation
Indices: 57866475--57867426 Score: 959
Period size: 74 Copynumber: 12.4 Consensus size: 76
57866465 CAAGAATTAC
* * *
57866475 ATTTTTCAATTTTTGTTTTTC-AAAAAATCAACTCATAATGCGAGAAGTGAGTTGAGCCTCGAGT
1 ATTTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGAGT
* * *
57866539 CATGTCGAGGC
66 CACGCCGAGGT
* * * * *
57866550 ATTTTTCAATTTCTGTTTTTCAAAAAAATCATCTAATAATGCGAGAAGTGAGTTGAGCCTCGGGT
1 ATTTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGAGT
*
57866615 CACGCTGAGGT
66 CACGCCGAGGT
* *** * * *
57866626 ATTTTT-AATTTATGTCTTTTTTTAAAAATCAACTCATAATAC-AGAGGTGAGTTGAGCCTCGGG
1 ATTTTTCAATTTCTGT-TTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGAG
*
57866689 TCACGCTGAGGT
65 TCACGCCGAGGT
* * **** * * *
57866701 ATTTTT-AATTTATTTCTTTTTTTTAAAATCAACTCATAATAC-AGAGGTGAGTTGAGCCTCGGG
1 ATTTTTCAATTTCTGT-TTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGAG
*
57866764 TCACGCTGAGGT
65 TCACGCCGAGGT
* *
57866776 ATTTCTTTTAAATTTCTGTTTTTC-AAAAACTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCG
1 A--T-TTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCG
* *
57866840 -GACCATGCCGAGGT
63 AG-TCACGCCGAGGT
* * *
57866854 ATTTCTTTTAAATTTCTG-TTTTCAAAAAAATCAACTCATATTGTGAGAGGTAAGTTGAGCCTCG
1 A--T-TTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCG
* *
57866918 -GATCGCATGCCGATGT
63 AG-T--CACGCCGAGGT
*
57866934 ATTATTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTC-A
1 A-T-TTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGA
*
57866998 GGTCACATGCCGAGAT
64 -GTCAC--GCCGAGGT
*
57867014 ATTTCTTTTAAATTTC-GTATTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC
1 A--T-TTTTCAATTTCTGT-TTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC
*
57867078 G-GATCGCATGCCGAGGT
62 GAG-T--CACGCCGAGGT
* *
57867095 ATTCTTTTCAATTTCTGTTTTTTAAAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTCGA
1 A-T-TTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGA
*
57867160 GTCACGTCGAGGT
64 GTCACGCCGAGGT
* *
57867173 ATTTTTCAATTTCTATTTTTC--CAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGAGT
1 ATTTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGAGT
*
57867236 CACGTCGAGGT
66 CACGCCGAGGT
* * * *
57867247 ATTTTTCAATTTCTATTTTTC--CAAAATCAACTCATATTGCGAGAGGTGATTTGAGCCTCAAGT
1 ATTTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGAGT
*
57867310 CACGTCGAGGT
66 CACGCCGAGGT
* * * *
57867321 ATTTTTCAA-TTCTTGCTTTTCAAAAAAATCAACTCATATTGCTAGAGGTGAGTTGGGCCTCGGG
1 ATTTTTCAATTTC-TGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGAG
*
57867385 TTGCACGCCGAGCT
65 -T-CACGCCGAGGT
* *
57867399 A-TTCTCGATTTCTGTTTTTCAAATAAAA
1 ATTTTTCAATTTCTGTTTTTCAAA-AAAA
57867427 AGAAAATTTT
Statistics
Matches: 775, Mismatches: 71, Indels: 59
0.86 0.08 0.07
Matches are distributed among these distances:
73 3 0.00
74 138 0.18
75 134 0.17
76 125 0.16
77 39 0.05
78 122 0.16
79 21 0.03
80 122 0.16
81 69 0.09
83 2 0.00
ACGTcount: A:0.28, C:0.17, G:0.20, T:0.36
Consensus pattern (76 bp):
ATTTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGAGT
CACGCCGAGGT
Found at i:57866687 original size:75 final size:76
Alignment explanation
Indices: 57866475--57867385 Score: 812
Period size: 75 Copynumber: 11.9 Consensus size: 76
57866465 CAAGAATTAC
* * * * *
57866475 ATTTTTCAATTTT-TGTTTTTCAAAAAATCAACTCATAATGCGAGAAGTGAGTTGAGCCTCGAGT
1 ATTTTTCAATTTTGTCTTTTTAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGT
* *
57866539 CATG-TCGAGGC
66 CACGCT-GAGGT
* * * * *
57866550 ATTTTTCAATTTCTGT-TTTTCAAAAAAATCATCTAATAATGCGAGAAGTGAGTTGAGCCTCGGG
1 ATTTTTCAATTT-TGTCTTTTTAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGG
57866614 TCACGCTGAGGT
65 TCACGCTGAGGT
** * *
57866626 ATTTTT-AATTTATGTCTTTTTTTAAAAATCAACTCATAATAC-AGAGGTGAGTTGAGCCTCGGG
1 ATTTTTCAATTT-TGTCTTTTTAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGG
57866689 TCACGCTGAGGT
65 TCACGCTGAGGT
* *** * *
57866701 ATTTTT-AATTTATTTCTTTTTTTTAAAATCAACTCATAATAC-AGAGGTGAGTTGAGCCTCGGG
1 ATTTTTCAATTT-TGTCTTTTTAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGG
57866764 TCACGCTGAGGT
65 TCACGCTGAGGT
* * * * * *
57866776 ATTTCTTTTAAATTTCTGTTTTTCAAAAACTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGG
1 A-TT-TTTCAATTTTGTCTTTTTAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGG
** * *
57866841 ACCATGCCGAGGT
64 GTCACGCTGAGGT
* * * * * * *
57866854 ATTTCTTTTAAATTTCTGTTTTCAAAAAAATCAACTCATATTGTGAGAGGTAAGTTGAGCCTCGG
1 A-TT-TTTCAATTTTGTCTTTTTAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGG
* * * *
57866919 ATCGCATGCCGATGT
64 GT--CACGCTGAGGT
* * *
57866934 ATTATTTTCAATTTCTGT-TTTTCAAAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCA
1 A-T-TTTTCAATTT-TGTCTTTTTAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCG
* *
57866998 GGTCACATGCCGAGAT
63 GGTCAC--GCTGAGGT
* * * *
57867014 ATTTCTTTTAAATTTCGTATTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCG
1 A--T-TTTTCAATTTTGTCTTTTTAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCG
* * *
57867079 GATCGCATGCCGAGGT
63 GGT--CACGCTGAGGT
*
57867095 ATTCTTTTCAATTTCTGT-TTTTTAAAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTCG
1 A-T-TTTTCAATTT-TGTCTTTTTAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCG
*
57867159 AGTCACG-TCGAGGT
63 GGTCACGCT-GAGGT
* * ** *
57867173 ATTTTTCAA-TTTCTATTTTT-CCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGAGT
1 ATTTTTCAATTTTGTCTTTTTAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGT
57867236 CACG-TCGAGGT
66 CACGCT-GAGGT
* * ** * **
57867247 ATTTTTCAA-TTTCTATTTTT-CCAAAATCAACTCATATTGCGAGAGGTGATTTGAGCCTCAAGT
1 ATTTTTCAATTTTGTCTTTTTAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGT
57867310 CACG-TCGAGGT
66 CACGCT-GAGGT
* * *
57867321 ATTTTTCAATTCTTG-CTTTTCAAAAAAATCAACTCATATTGCTAGAGGTGAGTTGGGCCTCGGG
1 ATTTTTCAATT-TTGTCTTTTTAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGG
57867385 T
65 T
57867386 TGCACGCCGA
Statistics
Matches: 732, Mismatches: 80, Indels: 47
0.85 0.09 0.05
Matches are distributed among these distances:
74 134 0.18
75 138 0.19
76 125 0.17
77 28 0.04
78 105 0.14
80 130 0.18
81 70 0.10
83 2 0.00
ACGTcount: A:0.28, C:0.17, G:0.20, T:0.36
Consensus pattern (76 bp):
ATTTTTCAATTTTGTCTTTTTAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGT
CACGCTGAGGT
Found at i:57867827 original size:30 final size:30
Alignment explanation
Indices: 57867780--57867837 Score: 73
Period size: 29 Copynumber: 1.9 Consensus size: 30
57867770 TGTTTTAGCC
57867780 CCCGAATTTTTCAAAAATTACA-TTTTAAT
1 CCCGAATTTTTCAAAAATTACACTTTTAAT
* * *
57867809 CCCGTATTTTTGCCAAAATTGCACTTTTA
1 CCCGAATTTTT-CAAAAATTACACTTTTA
57867838 CCTCAGAAAC
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 10 0.42
30 9 0.38
31 5 0.21
ACGTcount: A:0.31, C:0.21, G:0.07, T:0.41
Consensus pattern (30 bp):
CCCGAATTTTTCAAAAATTACACTTTTAAT
Found at i:57868201 original size:19 final size:19
Alignment explanation
Indices: 57868177--57868213 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
57868167 GAAGTAAAAA
*
57868177 AGAAAAAAAAATAGCAAGT
1 AGAAAAAAAAACAGCAAGT
57868196 AGAAAAAAAAACAGCAAG
1 AGAAAAAAAAACAGCAAG
57868214 CAAAAGAGAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.70, C:0.08, G:0.16, T:0.05
Consensus pattern (19 bp):
AGAAAAAAAAACAGCAAGT
Found at i:57868412 original size:6 final size:6
Alignment explanation
Indices: 57868368--57868424 Score: 55
Period size: 6 Copynumber: 9.7 Consensus size: 6
57868358 AAAAGGGAAG
* * * *
57868368 AAAAGA GAAA-A AAAAGA GAGAAGA AGAAGA GAAAGA AAAA-A AAAAGA
1 AAAAGA AAAAGA AAAAGA -AAAAGA AAAAGA AAAAGA AAAAGA AAAAGA
57868415 AAAAGA AAAA
1 AAAAGA AAAA
57868425 TATACCATCA
Statistics
Matches: 42, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
5 9 0.21
6 28 0.67
7 5 0.12
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (6 bp):
AAAAGA
Found at i:57868415 original size:26 final size:29
Alignment explanation
Indices: 57868364--57868421 Score: 77
Period size: 28 Copynumber: 2.1 Consensus size: 29
57868354 AAGGAAAAGG
*
57868364 GAAGAAAAGAGAAAAAAAAGAGAGAAGAA
1 GAAGAAAAGAGAAAAAAAAGAGAGAAAAA
*
57868393 GAAGAGAA-AGAAAAAAAA-A-AGAAAAA
1 GAAGAAAAGAGAAAAAAAAGAGAGAAAAA
57868419 GAA
1 GAA
57868422 AAATATACCA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
26 9 0.33
27 1 0.04
28 10 0.37
29 7 0.26
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (29 bp):
GAAGAAAAGAGAAAAAAAAGAGAGAAAAA
Found at i:57868420 original size:29 final size:29
Alignment explanation
Indices: 57868364--57868421 Score: 82
Period size: 30 Copynumber: 2.0 Consensus size: 29
57868354 AAGGAAAAGG
* *
57868364 GAAGAAAAGAGAAAAAAAAGAGAGAAGAA
1 GAAGAAAAGAAAAAAAAAAGAGAAAAGAA
57868393 GAAGAGAAAGAAAAAAAAAAGA-AAAAGAA
1 GAAGA-AAAGAAAAAAAAAAGAGAAAAGAA
57868422 AAATATACCA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
29 11 0.42
30 15 0.58
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (29 bp):
GAAGAAAAGAAAAAAAAAAGAGAAAAGAA
Found at i:57869039 original size:17 final size:17
Alignment explanation
Indices: 57869017--57869054 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
57869007 TCGTTTTTAA
57869017 AAAATTT-TCATGTCTTC
1 AAAATTTCTCATGT-TTC
*
57869034 AAAATTTCTCGTGTTTC
1 AAAATTTCTCATGTTTC
57869051 AAAA
1 AAAA
57869055 AAAAAATCGT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 14 0.74
18 5 0.26
ACGTcount: A:0.34, C:0.16, G:0.08, T:0.42
Consensus pattern (17 bp):
AAAATTTCTCATGTTTC
Found at i:57869201 original size:18 final size:18
Alignment explanation
Indices: 57869180--57869542 Score: 189
Period size: 18 Copynumber: 21.0 Consensus size: 18
57869170 AAATTTTGTG
57869180 TTTTCGTGTTTTCAAAAA
1 TTTTCGTGTTTTCAAAAA
57869198 TTTTCGTGTTTT-AAAAA
1 TTTTCGTGTTTTCAAAAA
*
57869215 TCTTCGTGTTTTCAAAAA
1 TTTTCGTGTTTTCAAAAA
* * *
57869233 TTCTGGCG-TTTCAAAAA
1 TTTTCGTGTTTTCAAAAA
*
57869250 TTTTCGTGTTTTTTAAAAAAAA
1 TTTTCGTG--TTTT--CAAAAA
* * *
57869272 ATTACGTGTTTTCACAAAT
1 TTTTCGTGTTTTCA-AAAA
*
57869291 TTTTCGTG-TTTCACAAA
1 TTTTCGTGTTTTCAAAAA
*
57869308 TTCTCGTGTTTTCAAAAA
1 TTTTCGTGTTTTCAAAAA
* * *
57869326 -CTCCG-GTGTTTC-AAAG
1 TTTTCGTGT-TTTCAAAAA
*
57869342 TTTTCATGTTTTCAAAAA
1 TTTTCGTGTTTTCAAAAA
* * ***
57869360 TTCTCGCGTTAAAAAAAA
1 TTTTCGTGTTTTCAAAAA
**
57869378 AATTCGTG-TTTCAAAATA
1 TTTTCGTGTTTTCAAAA-A
* **
57869396 TTCTCG-CATTTC---AA
1 TTTTCGTGTTTTCAAAAA
**
57869410 TTTT--TGTTTT-TTAAA
1 TTTTCGTGTTTTCAAAAA
57869425 ---TCGTG-TTTCAAAAAA
1 TTTTCGTGTTTTC-AAAAA
* *
57869440 ATGTCGTGTTTT-AAAAA
1 TTTTCGTGTTTTCAAAAA
57869457 TTTTCGT-TTTTCTAAAAA
1 TTTTCGTGTTTTC-AAAAA
*
57869475 TTTTCGTG-TTTCTAAAA
1 TTTTCGTGTTTTCAAAAA
*
57869492 TTTTCGTG-TTT-ACAAA
1 TTTTCGTGTTTTCAAAAA
*
57869508 TTCTCGTGTTTTCAAAAA
1 TTTTCGTGTTTTCAAAAA
*
57869526 TTCTCGTGTTTT-AAAAA
1 TTTTCGTGTTTTCAAAAA
57869543 AAACTTTCGT
Statistics
Matches: 258, Mismatches: 56, Indels: 63
0.68 0.15 0.17
Matches are distributed among these distances:
12 1 0.00
13 6 0.02
14 6 0.02
15 6 0.02
16 19 0.07
17 89 0.34
18 101 0.39
19 12 0.05
20 7 0.03
22 11 0.04
ACGTcount: A:0.30, C:0.13, G:0.12, T:0.45
Consensus pattern (18 bp):
TTTTCGTGTTTTCAAAAA
Found at i:57869224 original size:43 final size:43
Alignment explanation
Indices: 57869140--57869227 Score: 106
Period size: 43 Copynumber: 2.0 Consensus size: 43
57869130 TTTGATATTA
* *
57869140 TCGTGTTTTCAAAAAAATTCCGTGTTCGACAAATTTTGTGTTT
1 TCGTGTTTTCAAAAAAATTCCGTGTTCGAAAAATTTCGTGTTT
* * **
57869183 TCGTGTTTTC-AAAAATTTTCGTGTTTTAAAAATCTTCGTGTTT
1 TCGTGTTTTCAAAAAAATTCCGTGTTCGAAAAAT-TTCGTGTTT
57869226 TC
1 TC
57869228 AAAAATTCTG
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
42 18 0.47
43 20 0.53
ACGTcount: A:0.24, C:0.14, G:0.15, T:0.48
Consensus pattern (43 bp):
TCGTGTTTTCAAAAAAATTCCGTGTTCGAAAAATTTCGTGTTT
Found at i:57869228 original size:35 final size:34
Alignment explanation
Indices: 57869181--57869543 Score: 153
Period size: 35 Copynumber: 10.5 Consensus size: 34
57869171 AATTTTGTGT
57869181 TTTCGTGTTTTCAAAAATTTTCGTGTTTTAAAAA
1 TTTCGTGTTTTCAAAAATTTTCGTGTTTTAAAAA
* * * *
57869215 TCTTCGTGTTTTCAAAAATTCTGGCGTTTCAAAAA
1 T-TTCGTGTTTTCAAAAATTTTCGTGTTTTAAAAA
* * * *
57869250 TTTTCGTGTTTTTTAAAAAAAAATTACGTGTTTTCACAAATT
1 -TTTCGTG--TTTT--CAAAAATTTTCGTGTTTT-A-AAA-A
* *
57869292 TTTCGTG-TTTCACAAATTCTCGTGTTTTCAAAAA
1 TTTCGTGTTTTCAAAAATTTTCGTGTTTT-AAAAA
* * * *
57869326 CTCCG-GTGTTTC-AAAGTTTTCATGTTTTCAAAAA
1 TTTCGTGT-TTTCAAAAATTTTCGTGTTTT-AAAAA
* *** ** *
57869360 TTCTCGCGTTAAAAAAAAAATTCGTGTTTCAAAATA
1 TT-TCGTGTTTTCAAAAATTTTCGTGTTTTAAAA-A
** **
57869396 TTCTCG-CATTTC---AATTTT--TGTTTTTTAAA
1 TT-TCGTGTTTTCAAAAATTTTCGTGTTTTAAAAA
* *
57869425 --TCGTG-TTTCAAAAAAATGTCGTGTTTTAAAAA
1 TTTCGTGTTTTC-AAAAATTTTCGTGTTTTAAAAA
*
57869457 TTTTCGT-TTTTCTAAAAATTTTCGTGTTTCTAAAAT
1 -TTTCGTGTTTTC-AAAAATTTTCGTGTTT-TAAAAA
* *
57869493 TTTCGTG-TTT-ACAAATTCTCGTGTTTTCAAAAA
1 TTTCGTGTTTTCAAAAATTTTCGTGTTTT-AAAAA
*
57869526 TTCTCGTGTTTTAAAAAA
1 TT-TCGTGTTTTCAAAAA
57869544 AACTTTCGTT
Statistics
Matches: 240, Mismatches: 57, Indels: 62
0.67 0.16 0.17
Matches are distributed among these distances:
26 7 0.03
29 1 0.00
30 11 0.05
32 14 0.06
33 21 0.09
34 28 0.12
35 84 0.35
36 45 0.19
37 4 0.02
38 3 0.01
39 11 0.05
40 1 0.00
41 10 0.04
ACGTcount: A:0.30, C:0.13, G:0.12, T:0.45
Consensus pattern (34 bp):
TTTCGTGTTTTCAAAAATTTTCGTGTTTTAAAAA
Found at i:57879165 original size:29 final size:30
Alignment explanation
Indices: 57879133--57879191 Score: 93
Period size: 29 Copynumber: 2.0 Consensus size: 30
57879123 TATGGTTTAA
*
57879133 TGTGCAATTGTATGCAT-AAATTTTGATTT
1 TGTGCAATTGTATACATGAAATTTTGATTT
*
57879162 TGTGCAATTTTATACATGAAATTTTGATTT
1 TGTGCAATTGTATACATGAAATTTTGATTT
57879192 GATCCAATTC
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
29 15 0.56
30 12 0.44
ACGTcount: A:0.29, C:0.07, G:0.15, T:0.49
Consensus pattern (30 bp):
TGTGCAATTGTATACATGAAATTTTGATTT
Found at i:57879200 original size:30 final size:29
Alignment explanation
Indices: 57879137--57879200 Score: 76
Period size: 29 Copynumber: 2.2 Consensus size: 29
57879127 GTTTAATGTG
* *
57879137 CAATTGTATGCATAAATTTTGATTTTGTG
1 CAATTGTATACATAAATTTTGATTTTGTC
*
57879166 CAATTTTATACATGAAATTTTGA-TTTGATC
1 CAATTGTATACAT-AAATTTTGATTTTG-TC
57879196 CAATT
1 CAATT
57879201 CTTGTAAATT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
29 15 0.50
30 15 0.50
ACGTcount: A:0.31, C:0.09, G:0.12, T:0.47
Consensus pattern (29 bp):
CAATTGTATACATAAATTTTGATTTTGTC
Found at i:57879293 original size:29 final size:28
Alignment explanation
Indices: 57879261--57879324 Score: 74
Period size: 29 Copynumber: 2.2 Consensus size: 28
57879251 TATTGTATAC
*
57879261 ATAAATAATTATATTTCTCCAATATAAAA
1 ATAAATAA-TATATTTATCCAATATAAAA
* *
57879290 ATAAATTGATGTATTTATCCAATATAAAA
1 ATAAA-TAATATATTTATCCAATATAAAA
*
57879319 TTAAAT
1 ATAAAT
57879325 CTATCTATCT
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
28 1 0.03
29 27 0.90
30 2 0.07
ACGTcount: A:0.50, C:0.08, G:0.03, T:0.39
Consensus pattern (28 bp):
ATAAATAATATATTTATCCAATATAAAA
Found at i:57886236 original size:24 final size:24
Alignment explanation
Indices: 57886209--57886255 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 24
57886199 ATTGAATTGA
*
57886209 AAACAAATAGGAAAAACAAAACAG
1 AAACAAACAGGAAAAACAAAACAG
** *
57886233 AAACTTACAGGAAGAACAAAACA
1 AAACAAACAGGAAAAACAAAACA
57886256 AACGTGAAAG
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:0.66, C:0.15, G:0.13, T:0.06
Consensus pattern (24 bp):
AAACAAACAGGAAAAACAAAACAG
Found at i:57891902 original size:21 final size:21
Alignment explanation
Indices: 57891878--57891917 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
57891868 TCTTAATAGC
57891878 ATTTTAATTTTT-TTTTTGTTT
1 ATTTT-ATTTTTCTTTTTGTTT
*
57891899 ATTTTCTTTTTCTTTTTGT
1 ATTTTATTTTTCTTTTTGT
57891918 AATTTATTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.10, C:0.05, G:0.05, T:0.80
Consensus pattern (21 bp):
ATTTTATTTTTCTTTTTGTTT
Found at i:57894352 original size:48 final size:48
Alignment explanation
Indices: 57894259--57894352 Score: 109
Period size: 48 Copynumber: 2.0 Consensus size: 48
57894249 GCGATTATGA
* * * *
57894259 TGGCTTGACCACCCATATCTGATTCTGGCAGTTTATCTGCATATTTGG
1 TGGCTTGACCACACATATCTAATTCTAGCAGATTATCTGCATATTTGG
* * *
57894307 TGGCTTGATCACACTTATCTAATTCTAGCGGATTA-CTGCACTATTT
1 TGGCTTGACCACACATATCTAATTCTAGCAGATTATCTGCA-TATTT
57894353 CTGACAGCTT
Statistics
Matches: 38, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
47 5 0.13
48 33 0.87
ACGTcount: A:0.21, C:0.22, G:0.18, T:0.38
Consensus pattern (48 bp):
TGGCTTGACCACACATATCTAATTCTAGCAGATTATCTGCATATTTGG
Found at i:57896649 original size:12 final size:13
Alignment explanation
Indices: 57896627--57896655 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
57896617 AAAAAAAAAA
57896627 AAGAGAATTCTCT
1 AAGAGAATTCTCT
57896640 AAGA-AATTCTCT
1 AAGAGAATTCTCT
57896652 AAGA
1 AAGA
57896656 CGTCGAAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 12 0.75
13 4 0.25
ACGTcount: A:0.45, C:0.14, G:0.14, T:0.28
Consensus pattern (13 bp):
AAGAGAATTCTCT
Found at i:57900651 original size:4 final size:4
Alignment explanation
Indices: 57900642--57900668 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
57900632 CCGAAGAAGC
57900642 AACG AACG AACG AACG AACG AACG AAC
1 AACG AACG AACG AACG AACG AACG AAC
57900669 AAAAAAGCTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.52, C:0.26, G:0.22, T:0.00
Consensus pattern (4 bp):
AACG
Found at i:57904367 original size:23 final size:22
Alignment explanation
Indices: 57904341--57904394 Score: 58
Period size: 23 Copynumber: 2.5 Consensus size: 22
57904331 ATTTTAATTC
57904341 TAAATA-ATTCAAAAACATATACA
1 TAAATATATTC-AAAACATATA-A
* *
57904364 TAAATATTTTCAAAATATATAA
1 TAAATATATTCAAAACATATAA
57904386 TAAAT-TATT
1 TAAATATATT
57904395 TATTTATATG
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
21 3 0.11
22 6 0.22
23 15 0.56
24 3 0.11
ACGTcount: A:0.56, C:0.07, G:0.00, T:0.37
Consensus pattern (22 bp):
TAAATATATTCAAAACATATAA
Found at i:57904395 original size:23 final size:23
Alignment explanation
Indices: 57904352--57904395 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
57904342 AAATAATTCA
57904352 AAAACATATACATAAATATTTTC
1 AAAACATATACATAAATATTTTC
*
57904375 AAAATATATA-ATAAATTATTT
1 AAAACATATACATAAA-TATTT
57904396 ATTTATATGT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 5 0.26
23 14 0.74
ACGTcount: A:0.55, C:0.07, G:0.00, T:0.39
Consensus pattern (23 bp):
AAAACATATACATAAATATTTTC
Found at i:57922418 original size:20 final size:20
Alignment explanation
Indices: 57922393--57922431 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
57922383 GTTATTACAT
57922393 ATATTAATAAATTTATATAC
1 ATATTAATAAATTTATATAC
*
57922413 ATATTAATAAATTTTTATA
1 ATATTAATAAATTTATATA
57922432 TTTTTAAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (20 bp):
ATATTAATAAATTTATATAC
Found at i:57923642 original size:22 final size:24
Alignment explanation
Indices: 57923595--57923644 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 24
57923585 ATTATCGAAA
57923595 AAACAAAATAATGGATTTTCAAATAT
1 AAACAAAATAATGGATTTT--AATAT
57923621 AAACAAAATAATGG-TTTTATATAT
1 AAACAAAATAATGGATTTTA-ATAT
57923645 TTGTAAATGA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
23 1 0.04
24 4 0.17
25 4 0.17
26 14 0.61
ACGTcount: A:0.52, C:0.06, G:0.08, T:0.34
Consensus pattern (24 bp):
AAACAAAATAATGGATTTTAATAT
Found at i:57928941 original size:16 final size:17
Alignment explanation
Indices: 57928903--57928966 Score: 53
Period size: 16 Copynumber: 3.8 Consensus size: 17
57928893 AAAAAATTTC
57928903 AATAAATA-AATATTAA
1 AATAAATATAATATTAA
57928919 AAT-AATATAATA-TAA
1 AATAAATATAATATTAA
* * *
57928934 TATAAATATATTTTTTAAA
1 AATAAATATA-ATATT-AA
*
57928953 AATAAAAATAATAT
1 AATAAATATAATAT
57928967 GGACGGGCTT
Statistics
Matches: 36, Mismatches: 7, Indels: 8
0.71 0.14 0.16
Matches are distributed among these distances:
15 9 0.25
16 13 0.36
17 1 0.03
18 3 0.08
19 10 0.28
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (17 bp):
AATAAATATAATATTAA
Found at i:57931905 original size:18 final size:18
Alignment explanation
Indices: 57931878--57931912 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
57931868 AACAGGAATG
57931878 TTTTCATTTTCATTTTGA
1 TTTTCATTTTCATTTTGA
* *
57931896 TTTTCGTTTTCGTTTTG
1 TTTTCATTTTCATTTTG
57931913 TAGCCACCTG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.09, C:0.11, G:0.11, T:0.69
Consensus pattern (18 bp):
TTTTCATTTTCATTTTGA
Found at i:57944268 original size:25 final size:25
Alignment explanation
Indices: 57944234--57944290 Score: 78
Period size: 25 Copynumber: 2.3 Consensus size: 25
57944224 TAAAGACATG
* **
57944234 ATTCTGTATGTCGTCTTTGTAGCGT
1 ATTCTATATGTCACCTTTGTAGCGT
*
57944259 ATTCTATATGTCACCTTTGTAGTGT
1 ATTCTATATGTCACCTTTGTAGCGT
57944284 ATTCTAT
1 ATTCTAT
57944291 TTGTTACTCT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.18, C:0.16, G:0.18, T:0.49
Consensus pattern (25 bp):
ATTCTATATGTCACCTTTGTAGCGT
Found at i:57944774 original size:25 final size:25
Alignment explanation
Indices: 57944736--57944789 Score: 67
Period size: 24 Copynumber: 2.1 Consensus size: 25
57944726 TTTCTTGATT
57944736 AATATTATAAAAATGT-TATTTAATTAA
1 AATATTAT-AAAAT-TATA-TTAATTAA
57944763 AATATTAT-AAATTATATTAATTAA
1 AATATTATAAAATTATATTAATTAA
57944787 AAT
1 AAT
57944790 TAAGATATTA
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
24 12 0.46
25 6 0.23
27 8 0.31
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (25 bp):
AATATTATAAAATTATATTAATTAA
Found at i:57944799 original size:23 final size:24
Alignment explanation
Indices: 57944751--57944804 Score: 67
Period size: 23 Copynumber: 2.3 Consensus size: 24
57944741 TATAAAAATG
* *
57944751 TTAT-TTAATTAAAATATTATAAA
1 TTATATTAATTAAAATATAAGAAA
*
57944774 TTATATTAATTAAAAT-TAAGATA
1 TTATATTAATTAAAATATAAGAAA
57944797 TTATATTA
1 TTATATTA
57944805 TAAGAAATAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
23 16 0.59
24 11 0.41
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (24 bp):
TTATATTAATTAAAATATAAGAAA
Found at i:57944951 original size:11 final size:11
Alignment explanation
Indices: 57944935--57944964 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
57944925 TGAATTAAAT
57944935 ATTATTATATG
1 ATTATTATATG
*
57944946 ATTATTATATT
1 ATTATTATATG
57944957 ATTATTAT
1 ATTATTAT
57944965 TATCTAATAC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.37, C:0.00, G:0.03, T:0.60
Consensus pattern (11 bp):
ATTATTATATG
Found at i:57945011 original size:7 final size:8
Alignment explanation
Indices: 57944988--57945029 Score: 52
Period size: 8 Copynumber: 5.2 Consensus size: 8
57944978 AAAGGAATAA
57944988 AAGAAAAG
1 AAGAAAAG
57944996 AAGAAAAG
1 AAGAAAAG
57945004 AA-AAAAG
1 AAGAAAAG
57945011 AAGAAGAA-
1 AAGAA-AAG
57945019 AAGAAACAG
1 AAGAAA-AG
57945028 AA
1 AA
57945030 TAGGAAAGGA
Statistics
Matches: 30, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
7 8 0.27
8 18 0.60
9 4 0.13
ACGTcount: A:0.76, C:0.02, G:0.21, T:0.00
Consensus pattern (8 bp):
AAGAAAAG
Found at i:57945020 original size:12 final size:12
Alignment explanation
Indices: 57944986--57945020 Score: 52
Period size: 13 Copynumber: 2.8 Consensus size: 12
57944976 TAAAAGGAAT
57944986 AAAAGAAAAGAAG
1 AAAAGAAAA-AAG
57944999 AAAAGAAAAAAG
1 AAAAGAAAAAAG
57945011 AAGAAGAAAA
1 AA-AAGAAAA
57945021 GAAACAGAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
12 5 0.24
13 16 0.76
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (12 bp):
AAAAGAAAAAAG
Found at i:57945729 original size:3 final size:3
Alignment explanation
Indices: 57945721--57945750 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
57945711 GTGAGGTAAG
*
57945721 TAT TAT TAT TAT TAT TAG TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
57945751 GAAGATGAGT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.63
Consensus pattern (3 bp):
TAT
Found at i:57945899 original size:18 final size:18
Alignment explanation
Indices: 57945865--57945902 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
57945855 AAATTGTATT
*
57945865 GAAATGTATTGAGTTGTG
1 GAAATGTATTGAATTGTG
57945883 GAAATGTA-TGAAATTGTG
1 GAAATGTATTG-AATTGTG
57945901 GA
1 GA
57945903 TTAATTATTG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 2 0.11
18 16 0.89
ACGTcount: A:0.34, C:0.00, G:0.32, T:0.34
Consensus pattern (18 bp):
GAAATGTATTGAATTGTG
Found at i:57946171 original size:37 final size:39
Alignment explanation
Indices: 57946112--57946207 Score: 108
Period size: 39 Copynumber: 2.5 Consensus size: 39
57946102 CGGATAAATT
* * * *
57946112 CGATGAGGTACTGGGTACCAACT-TT-CTTCG-GCTTTGC
1 CGATGAGGCACTGGGTGCCAACTATTGCTTCGAACTAT-C
* *
57946149 CGATGAGACACTGGGTGTCAACTATTGCTTCGAACTATC
1 CGATGAGGCACTGGGTGCCAACTATTGCTTCGAACTATC
57946188 CGATGAGGCACTGGGTGCCA
1 CGATGAGGCACTGGGTGCCA
57946208 TTTTGGTGTG
Statistics
Matches: 48, Mismatches: 8, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
37 19 0.40
38 2 0.04
39 24 0.50
40 3 0.06
ACGTcount: A:0.21, C:0.24, G:0.28, T:0.27
Consensus pattern (39 bp):
CGATGAGGCACTGGGTGCCAACTATTGCTTCGAACTATC
Found at i:57948172 original size:24 final size:24
Alignment explanation
Indices: 57948145--57948191 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
57948135 AACCTATAAC
57948145 GGGTAGCTCCAAAAAGCAATTAAT
1 GGGTAGCTCCAAAAAGCAATTAAT
* * *
57948169 GGGTAGCTTCGAAGAGCAATTAA
1 GGGTAGCTCCAAAAAGCAATTAA
57948192 CAGGAAGCAC
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:0.38, C:0.15, G:0.26, T:0.21
Consensus pattern (24 bp):
GGGTAGCTCCAAAAAGCAATTAAT
Found at i:57948775 original size:21 final size:21
Alignment explanation
Indices: 57948749--57948788 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
57948739 TATACGATTA
57948749 AATTTAACA-TCAATTTAATAC
1 AATTT-ACATTCAATTTAATAC
57948770 AATTTACATTCAATTTAAT
1 AATTTACATTCAATTTAAT
57948789 CCAAGTCACA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 3 0.17
21 15 0.83
ACGTcount: A:0.45, C:0.12, G:0.00, T:0.42
Consensus pattern (21 bp):
AATTTACATTCAATTTAATAC
Found at i:57948799 original size:21 final size:21
Alignment explanation
Indices: 57948758--57948800 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
57948748 AAATTTAACA
* *
57948758 TCAATTTAATACAATTTACAT
1 TCAATTTAATACAAGTCACAT
*
57948779 TCAATTTAATCCAAGTCACAT
1 TCAATTTAATACAAGTCACAT
57948800 T
1 T
57948801 TTATGCCAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.40, C:0.19, G:0.02, T:0.40
Consensus pattern (21 bp):
TCAATTTAATACAAGTCACAT
Found at i:57952373 original size:43 final size:44
Alignment explanation
Indices: 57952299--57952389 Score: 166
Period size: 43 Copynumber: 2.1 Consensus size: 44
57952289 GTATAATTAA
57952299 ATAAAGAATGAAAAAAACATCCTATGCGTACAAATAACACTGTT
1 ATAAAGAATGAAAAAAACATCCTATGCGTACAAATAACACTGTT
*
57952343 ATAAAGAATG-AAAAAACATCCTATGTGTACAAATAACACTGTT
1 ATAAAGAATGAAAAAAACATCCTATGCGTACAAATAACACTGTT
57952386 ATAA
1 ATAA
57952390 TAACATTACT
Statistics
Matches: 46, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
43 36 0.78
44 10 0.22
ACGTcount: A:0.51, C:0.14, G:0.11, T:0.24
Consensus pattern (44 bp):
ATAAAGAATGAAAAAAACATCCTATGCGTACAAATAACACTGTT
Found at i:57953832 original size:22 final size:24
Alignment explanation
Indices: 57953798--57953843 Score: 60
Period size: 22 Copynumber: 2.0 Consensus size: 24
57953788 AAAAAATTTA
* *
57953798 AAAAGTATTAAAATT-T-AAAATT
1 AAAACTATAAAAATTATGAAAATT
57953820 AAAACTATAAAAATTATGAAAATT
1 AAAACTATAAAAATTATGAAAATT
57953844 TTTTAAAATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 13 0.65
23 1 0.05
24 6 0.30
ACGTcount: A:0.61, C:0.02, G:0.04, T:0.33
Consensus pattern (24 bp):
AAAACTATAAAAATTATGAAAATT
Found at i:57953859 original size:19 final size:19
Alignment explanation
Indices: 57953837--57953873 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
57953827 TAAAAATTAT
*
57953837 GAAAATTTTTTAAAATATA
1 GAAAATTATTTAAAATATA
*
57953856 GAAAATTATTTGAAATAT
1 GAAAATTATTTAAAATAT
57953874 TATAAAATAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.51, C:0.00, G:0.08, T:0.41
Consensus pattern (19 bp):
GAAAATTATTTAAAATATA
Done.