Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr11
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: 102024878
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 3234766 characters in sequence are not A, C, G, or T
File 113 of 310
Found at i:36172668 original size:39 final size:40
Alignment explanation
Indices: 36172573--36172834 Score: 337
Period size: 39 Copynumber: 6.7 Consensus size: 40
36172563 TTGAATGATG
*
36172573 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAT
*
36172611 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAT
36172652 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
36172691 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
36172730 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
*
36172769 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-ATTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-TACTAAT
* *
36172808 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
36172835 AACGAGGAGC
Statistics
Matches: 203, Mismatches: 11, Indels: 17
0.88 0.05 0.07
Matches are distributed among these distances:
39 132 0.65
40 59 0.29
41 11 0.05
42 1 0.00
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.24
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:36178744 original size:18 final size:18
Alignment explanation
Indices: 36178723--36178878 Score: 61
Period size: 19 Copynumber: 8.4 Consensus size: 18
36178713 AAGAAACATT
36178723 ATCAGAA-CTAGAATTAGA
1 ATCAGAATC-AGAATTAGA
36178741 ATCAGAATCAGAATTAGA
1 ATCAGAATCAGAATTAGA
* * *
36178759 ATTAG-GTGACAGAATCAGA
1 ATCAGAAT--CAGAATTAGA
* * *
36178778 ATCAGAATTAGTATCAGGTA
1 ATCAGAATCAGAATTA-G-A
* *
36178798 A-CCGAATCAAAATTAGA
1 ATCAGAATCAGAATTAGA
*
36178815 ATCAGCATCAGGTAA-TAGA
1 ATCAGAATCA-G-AATTAGA
* * * *
36178834 ATCAAAATTAGAATCAGT
1 ATCAGAATCAGAATTAGA
* *
36178852 ATCAGGTAA-CAGAATCAAA
1 ATCA-G-AATCAGAATTAGA
36178871 ATCAGAAT
1 ATCAGAAT
36178879 GTGAATACAA
Statistics
Matches: 101, Mismatches: 24, Indels: 26
0.67 0.16 0.17
Matches are distributed among these distances:
17 7 0.07
18 41 0.41
19 46 0.46
20 7 0.07
ACGTcount: A:0.47, C:0.13, G:0.17, T:0.22
Consensus pattern (18 bp):
ATCAGAATCAGAATTAGA
Found at i:36178776 original size:31 final size:31
Alignment explanation
Indices: 36178738--36178878 Score: 174
Period size: 31 Copynumber: 4.5 Consensus size: 31
36178728 AACTAGAATT
* * * * *
36178738 AGAATCAGAATCAGAATTAGAATTAGGTGAC
1 AGAATCAAAATCAGAATCAGTATCAGGTAAC
* *
36178769 AGAATCAGAATCAGAATTAGTATCAGGTAAC
1 AGAATCAAAATCAGAATCAGTATCAGGTAAC
* * * *
36178800 CGAATCAAAATTAGAATCAGCATCAGGTAAT
1 AGAATCAAAATCAGAATCAGTATCAGGTAAC
*
36178831 AGAATCAAAATTAGAATCAGTATCAGGTAAC
1 AGAATCAAAATCAGAATCAGTATCAGGTAAC
36178862 AGAATCAAAATCAGAAT
1 AGAATCAAAATCAGAAT
36178879 GTGAATACAA
Statistics
Matches: 97, Mismatches: 13, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 97 1.00
ACGTcount: A:0.48, C:0.13, G:0.18, T:0.22
Consensus pattern (31 bp):
AGAATCAAAATCAGAATCAGTATCAGGTAAC
Found at i:36178777 original size:6 final size:6
Alignment explanation
Indices: 36178723--36178878 Score: 70
Period size: 6 Copynumber: 25.3 Consensus size: 6
36178713 AAGAAACATT
* * * *
36178723 ATCAGA A-CTAGA ATTAGA ATCAGA ATCAGA ATTAGA ATTAG- GTGACAGA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA AT--CAGA
* * * * * *
36178772 ATCAGA ATCAGA ATTAGT ATCAGGTA A-CCGA ATCAAA ATTAGA ATCAGC
1 ATCAGA ATCAGA ATCAGA ATCA-G-A ATCAGA ATCAGA ATCAGA ATCAGA
* * * *
36178821 ATCAGGTA AT-AGA ATCAAA ATTAGA ATCAGT ATCAGGTA A-CAGA ATCAAA
1 ATCA-G-A ATCAGA ATCAGA ATCAGA ATCAGA ATCA-G-A ATCAGA ATCAGA
36178871 ATCAGA AT
1 ATCAGA AT
36178879 GTGAATACAA
Statistics
Matches: 110, Mismatches: 26, Indels: 28
0.67 0.16 0.17
Matches are distributed among these distances:
5 9 0.08
6 87 0.79
7 9 0.08
8 5 0.05
ACGTcount: A:0.47, C:0.13, G:0.17, T:0.22
Consensus pattern (6 bp):
ATCAGA
Found at i:36179073 original size:26 final size:27
Alignment explanation
Indices: 36179010--36179083 Score: 105
Period size: 27 Copynumber: 2.8 Consensus size: 27
36179000 GCTCAGTTAT
* *
36179010 CAGATATTGTGACAAAGTCACCAGATA
1 CAGATATTGTGGCAAAGCCACCAGATA
*
36179037 CAGATATTGTGGCAGAGCCACCAGA-A
1 CAGATATTGTGGCAAAGCCACCAGATA
*
36179063 CAGATAATGTGGCAAAGCCAC
1 CAGATATTGTGGCAAAGCCAC
36179084 TTAACAGAAT
Statistics
Matches: 42, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
26 20 0.48
27 22 0.52
ACGTcount: A:0.38, C:0.22, G:0.23, T:0.18
Consensus pattern (27 bp):
CAGATATTGTGGCAAAGCCACCAGATA
Found at i:36179737 original size:27 final size:27
Alignment explanation
Indices: 36179678--36179873 Score: 232
Period size: 27 Copynumber: 7.3 Consensus size: 27
36179668 AGGGACAAAA
* * * *
36179678 TGGTAATTTTACCCCACA-AGGTATCT
1 TGGTAATTCTACCCTACAGGGGTATTT
* * *
36179704 CGGTAATTCCACCCTACAGGGCTATTT
1 TGGTAATTCTACCCTACAGGGGTATTT
* *
36179731 TAGTAATTCTACCCTACAGGGGTATTG
1 TGGTAATTCTACCCTACAGGGGTATTT
*
36179758 TGGTAATTCTACCATACAGGGGTATTT
1 TGGTAATTCTACCCTACAGGGGTATTT
* * *
36179785 CGGTAATTCTACCCTACAAGGGTATTC
1 TGGTAATTCTACCCTACAGGGGTATTT
*
36179812 CGGTAATTCTACCCTACAGGGGTATTT
1 TGGTAATTCTACCCTACAGGGGTATTT
* *
36179839 CGATAATTCTACCCTACAGGGGTATTT
1 TGGTAATTCTACCCTACAGGGGTATTT
*
36179866 CGGTAATT
1 TGGTAATT
36179874 TTGTAAATTG
Statistics
Matches: 146, Mismatches: 23, Indels: 1
0.86 0.14 0.01
Matches are distributed among these distances:
26 14 0.10
27 132 0.90
ACGTcount: A:0.25, C:0.22, G:0.20, T:0.33
Consensus pattern (27 bp):
TGGTAATTCTACCCTACAGGGGTATTT
Found at i:36179832 original size:81 final size:81
Alignment explanation
Indices: 36179697--36179873 Score: 259
Period size: 81 Copynumber: 2.2 Consensus size: 81
36179687 TACCCCACAA
* ** *
36179697 GGTATCTCGGTAATTCCACCCTACAGGGCTATTTTAGTAATTCTACCCTACAGGGGTATTGT-GG
1 GGTATTTCGGTAATTCCACCCTACAGGGCTATTCCAGTAATTCTACCCTACAGGGGTATT-TCGA
36179761 TAATTCTACCATACAGG
65 TAATTCTACCATACAGG
* *
36179778 GGTATTTCGGTAATTCTACCCTACAAGGG-TATTCCGGTAATTCTACCCTACAGGGGTATTTCGA
1 GGTATTTCGGTAATTCCACCCTAC-AGGGCTATTCCAGTAATTCTACCCTACAGGGGTATTTCGA
*
36179842 TAATTCTACCCTACAGG
65 TAATTCTACCATACAGG
36179859 GGTATTTCGGTAATT
1 GGTATTTCGGTAATT
36179874 TTGTAAATTG
Statistics
Matches: 87, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
80 1 0.01
81 82 0.94
82 4 0.05
ACGTcount: A:0.24, C:0.21, G:0.21, T:0.33
Consensus pattern (81 bp):
GGTATTTCGGTAATTCCACCCTACAGGGCTATTCCAGTAATTCTACCCTACAGGGGTATTTCGAT
AATTCTACCATACAGG
Found at i:36179941 original size:27 final size:26
Alignment explanation
Indices: 36179911--36180140 Score: 165
Period size: 27 Copynumber: 8.5 Consensus size: 26
36179901 TGTAAATTAG
*
36179911 GGGTACTTTGGTAATTTTACAAGTCGA
1 GGGTATTTTGGTAATTTTACAA-TCGA
*** *
36179938 GGGTATTTCAATAATTTTACAGGTCGA
1 GGGTATTTTGGTAATTTTACA-ATCGA
** *
36179965 GGGTATTTCAGTAATTTCACAAATC-A
1 GGGTATTTTGGTAATTTTAC-AATCGA
* *
36179991 GGGATATTTTGGTAATTTTACAAACTA
1 GGG-TATTTTGGTAATTTTACAATCGA
* * *
36180018 GGGGTATTTTGATAATTTTACAAACCA
1 -GGGTATTTTGGTAATTTTACAATCGA
* *
36180045 GGGGTATTTTGGTAATTTTACAAACTA
1 -GGGTATTTTGGTAATTTTACAATCGA
* * * *
36180072 GGGGTATTTTGGTGATTTTATAAACCAA
1 -GGGTATTTTGGTAATTTTA-CAATCGA
* * * *
36180100 GGGTATTCTAGTAATTTTACAAACTA
1 GGGTATTTTGGTAATTTTACAATCGA
36180126 GTGGTATTTTGGTAA
1 G-GGTATTTTGGTAA
36180141 ACTAAAGTAT
Statistics
Matches: 168, Mismatches: 28, Indels: 14
0.80 0.13 0.07
Matches are distributed among these distances:
26 12 0.07
27 148 0.88
28 8 0.05
ACGTcount: A:0.30, C:0.10, G:0.21, T:0.39
Consensus pattern (26 bp):
GGGTATTTTGGTAATTTTACAATCGA
Found at i:36180135 original size:54 final size:54
Alignment explanation
Indices: 36179894--36180140 Score: 230
Period size: 54 Copynumber: 4.6 Consensus size: 54
36179884 AGGTAAAATG
** * * ** *
36179894 GTAATTTTGTAAATTAGGGGTACTTTGGTAATTTTACAAGTCGAGGGTATT-TCA
1 GTAATTTTACAAACTAGGGGTATTTTGGTAATTTTACAAACCAAGGGTATTCT-A
* ** * ** * * * *
36179948 ATAATTTTAC-AGGTCGAGGGTATTTCAGTAATTTCACAAATC-AGGGATATTTTG
1 GTAATTTTACAAACTAG-GGGTATTTTGGTAATTTTACAAACCAAGGG-TATTCTA
* * * *
36180002 GTAATTTTACAAACTAGGGGTATTTTGATAATTTTACAAACCAGGGGTATTTTG
1 GTAATTTTACAAACTAGGGGTATTTTGGTAATTTTACAAACCAAGGGTATTCTA
* *
36180056 GTAATTTTACAAACTAGGGGTATTTTGGTGATTTTATAAACCAAGGGTATTCTA
1 GTAATTTTACAAACTAGGGGTATTTTGGTAATTTTACAAACCAAGGGTATTCTA
*
36180110 GTAATTTTACAAACTAGTGGTATTTTGGTAA
1 GTAATTTTACAAACTAGGGGTATTTTGGTAA
36180141 ACTAAAGTAT
Statistics
Matches: 158, Mismatches: 30, Indels: 10
0.80 0.15 0.05
Matches are distributed among these distances:
53 7 0.04
54 144 0.91
55 7 0.04
ACGTcount: A:0.31, C:0.09, G:0.21, T:0.39
Consensus pattern (54 bp):
GTAATTTTACAAACTAGGGGTATTTTGGTAATTTTACAAACCAAGGGTATTCTA
Found at i:36180135 original size:81 final size:81
Alignment explanation
Indices: 36179917--36180140 Score: 231
Period size: 81 Copynumber: 2.8 Consensus size: 81
36179907 TTAGGGGTAC
** * *** **
36179917 TTTGGTAATTTTACAAGTCGAGGGTATTTCA-ATAATTTTACAGGTC-GAGGGTATTTCAGTAAT
1 TTTGGTAATTTTACAAACCAAGGGTATTT-AGATAATTTTACAAACCAG-GGGTATTTTGGTAAT
36179980 TTCACAAATCAGGGATAT
64 TTCACAAATCAGGGATAT
* * *
36179998 TTTGGTAATTTTACAAACTAGGGGTATTTTGATAATTTTACAAACCAGGGGTATTTTGGTAATTT
1 TTTGGTAATTTTACAAACCAAGGGTATTTAGATAATTTTACAAACCAGGGGTATTTTGGTAATTT
* *
36180063 TACAAA-CTAGGGGTAT
66 CACAAATC-AGGGATAT
* * * *
36180079 TTTGGTGATTTTATAAACCAAGGGTATTCTAG-TAATTTTACAAACTAGTGGTATTTTGGTAA
1 TTTGGTAATTTTACAAACCAAGGGTATT-TAGATAATTTTACAAACCAGGGGTATTTTGGTAA
36180141 ACTAAAGTAT
Statistics
Matches: 119, Mismatches: 20, Indels: 8
0.81 0.14 0.05
Matches are distributed among these distances:
80 1 0.01
81 115 0.97
82 3 0.03
ACGTcount: A:0.31, C:0.09, G:0.21, T:0.39
Consensus pattern (81 bp):
TTTGGTAATTTTACAAACCAAGGGTATTTAGATAATTTTACAAACCAGGGGTATTTTGGTAATTT
CACAAATCAGGGATAT
Found at i:36182170 original size:19 final size:21
Alignment explanation
Indices: 36182127--36182169 Score: 70
Period size: 21 Copynumber: 2.0 Consensus size: 21
36182117 ATTTTTGTAC
36182127 AAAGTTCAAAATATGAAAAAA
1 AAAGTTCAAAATATGAAAAAA
36182148 AAAGTTCAAAATTAT-AAAAAA
1 AAAGTTCAAAA-TATGAAAAAA
36182169 A
1 A
36182170 GAAAGAAAGA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
21 18 0.86
22 3 0.14
ACGTcount: A:0.67, C:0.05, G:0.07, T:0.21
Consensus pattern (21 bp):
AAAGTTCAAAATATGAAAAAA
Found at i:36208135 original size:39 final size:39
Alignment explanation
Indices: 36208081--36208159 Score: 140
Period size: 39 Copynumber: 2.0 Consensus size: 39
36208071 GTCCATTGTT
* *
36208081 ACTCTTTCCCACTTCCATAGCGGAATTTTCACAGGTTGC
1 ACTCTTTCCCACTTCCATAACGAAATTTTCACAGGTTGC
36208120 ACTCTTTCCCACTTCCATAACGAAATTTTCACAGGTTGC
1 ACTCTTTCCCACTTCCATAACGAAATTTTCACAGGTTGC
36208159 A
1 A
36208160 ATAATCCCGA
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 38 1.00
ACGTcount: A:0.24, C:0.30, G:0.13, T:0.33
Consensus pattern (39 bp):
ACTCTTTCCCACTTCCATAACGAAATTTTCACAGGTTGC
Found at i:36212461 original size:93 final size:93
Alignment explanation
Indices: 36212354--36212524 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
36212344 GCCTATAAGT
* *
36212354 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCAGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCAA
36212419 CGAGCTCGGATGCCTAGTTACATCTCTC
66 CGAGCTCGGATGCCTAGTTACATCTCTC
* *
36212447 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCAA
*
36212512 CGAGTTCGGATGC
66 CGAGCTCGGATGC
36212525 TCAACCATCC
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCTC
Found at i:36212521 original size:46 final size:46
Alignment explanation
Indices: 36212348--36212521 Score: 201
Period size: 46 Copynumber: 3.8 Consensus size: 46
36212338 TAACCCGCCT
* *
36212348 ATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCC
1 ATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCC
* * *
36212394 ATAAGTGAACTCAGACTCAACTCAACGAGCTCGG--ATGC-CTAGTTAC
1 ATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGC-A--TCC
*** *
36212440 ATCTCTCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCC
1 ATAAGT-GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCC
*
36212487 ATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 ATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
36212522 TGCTCAACCA
Statistics
Matches: 107, Mismatches: 14, Indels: 14
0.79 0.10 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
46 67 0.63
47 31 0.29
49 4 0.04
50 1 0.01
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (46 bp):
ATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCC
Found at i:36219950 original size:57 final size:56
Alignment explanation
Indices: 36219877--36219987 Score: 136
Period size: 57 Copynumber: 2.0 Consensus size: 56
36219867 TACCTGTCTA
* * * * *
36219877 TGGCCCACTTGGCCAAATCTCTTTCATGTGGCCCATTAGGCCC-ATTCACATTTATG
1 TGGCCCACTTGGCCAAATCACATTCATATGG-CCAGTAGGCCCAAATCACATTTATG
36219933 TGGCCCA-TTAGGCCCAAATCACATTCATATGGCCAGTAGGCCCAAATCACATTTA
1 TGGCCCACTT-GG-CCAAATCACATTCATATGGCCAGTAGGCCCAAATCACATTTA
36219988 CAGTTATGCT
Statistics
Matches: 47, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
55 2 0.04
56 19 0.40
57 26 0.55
ACGTcount: A:0.25, C:0.30, G:0.17, T:0.28
Consensus pattern (56 bp):
TGGCCCACTTGGCCAAATCACATTCATATGGCCAGTAGGCCCAAATCACATTTATG
Found at i:36219983 original size:28 final size:29
Alignment explanation
Indices: 36219877--36219985 Score: 127
Period size: 28 Copynumber: 3.9 Consensus size: 29
36219867 TACCTGTCTA
* *
36219877 TGGCCCACTT-GG-CCAAATCTCTTTCATG
1 TGGCCCA-TTAGGCCCAAATCACATTCATG
* *
36219905 TGGCCCATTAGGCCC-ATTCACATTTATG
1 TGGCCCATTAGGCCCAAATCACATTCATG
*
36219933 TGGCCCATTAGGCCCAAATCACATTCATA
1 TGGCCCATTAGGCCCAAATCACATTCATG
*
36219962 TGG-CCAGTAGGCCCAAATCACATT
1 TGGCCCATTAGGCCCAAATCACATT
36219986 TACAGTTATG
Statistics
Matches: 70, Mismatches: 8, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
27 2 0.03
28 53 0.76
29 15 0.21
ACGTcount: A:0.25, C:0.30, G:0.17, T:0.28
Consensus pattern (29 bp):
TGGCCCATTAGGCCCAAATCACATTCATG
Found at i:36220221 original size:16 final size:16
Alignment explanation
Indices: 36220200--36220242 Score: 59
Period size: 16 Copynumber: 2.7 Consensus size: 16
36220190 GTAGCCAAAC
**
36220200 TTTTGGCTTTTCGGTA
1 TTTTGGCTTTTCGACA
36220216 TTTTGGCTTTTCGACA
1 TTTTGGCTTTTCGACA
*
36220232 TTTCGGCTTTT
1 TTTTGGCTTTT
36220243 TGGGATTTTT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.07, C:0.16, G:0.21, T:0.56
Consensus pattern (16 bp):
TTTTGGCTTTTCGACA
Found at i:36227606 original size:29 final size:28
Alignment explanation
Indices: 36227553--36227634 Score: 98
Period size: 28 Copynumber: 2.9 Consensus size: 28
36227543 CTCTTTCAGA
*
36227553 TGGCCCATAGGCCC-ATTCACATTTAT-
1 TGGCCCATAGGCCCAAATCACATTTATG
*
36227579 TAGGCCCATTAGGCCCAAAGCACATTTATG
1 T-GGCCCA-TAGGCCCAAATCACATTTATG
36227609 TGG-CCACTAGGCCCAAATCACATTTA
1 TGGCCCA-TAGGCCCAAATCACATTTA
36227635 CTGTCATGCT
Statistics
Matches: 48, Mismatches: 4, Indels: 6
0.83 0.07 0.10
Matches are distributed among these distances:
26 1 0.02
27 6 0.12
28 28 0.58
29 12 0.25
30 1 0.02
ACGTcount: A:0.28, C:0.29, G:0.17, T:0.26
Consensus pattern (28 bp):
TGGCCCATAGGCCCAAATCACATTTATG
Found at i:36227880 original size:16 final size:16
Alignment explanation
Indices: 36227861--36227898 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
36227851 CTACTTTCTA
36227861 GCATTTCA-AGTTTTCG
1 GCATTTCAGA-TTTTCG
36227877 GCATTTCAGATTTTCG
1 GCATTTCAGATTTTCG
*
36227893 GGATTT
1 GCATTT
36227899 GTTGATCTCC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 19 0.95
17 1 0.05
ACGTcount: A:0.18, C:0.16, G:0.21, T:0.45
Consensus pattern (16 bp):
GCATTTCAGATTTTCG
Found at i:36229151 original size:16 final size:16
Alignment explanation
Indices: 36229126--36229157 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
36229116 AAATTTGAGA
36229126 TTTCGAGATTTTTGGG
1 TTTCGAGATTTTTGGG
*
36229142 TTTCGGGATTTTTGGG
1 TTTCGAGATTTTTGGG
36229158 GCATTACATG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.09, C:0.06, G:0.34, T:0.50
Consensus pattern (16 bp):
TTTCGAGATTTTTGGG
Found at i:36234021 original size:14 final size:14
Alignment explanation
Indices: 36234002--36234028 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
36233992 TTTGAATTAT
36234002 AATGCCACTAATCC
1 AATGCCACTAATCC
36234016 AATGCCACTAATC
1 AATGCCACTAATC
36234029 AACCTTGACA
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:0.37, C:0.33, G:0.07, T:0.22
Consensus pattern (14 bp):
AATGCCACTAATCC
Found at i:36235565 original size:14 final size:14
Alignment explanation
Indices: 36235546--36235572 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
36235536 CCTTATGGAG
36235546 CTGTTGAATTATAC
1 CTGTTGAATTATAC
36235560 CTGTTGAATTATA
1 CTGTTGAATTATA
36235573 TGGCAATTAT
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:0.30, C:0.11, G:0.15, T:0.44
Consensus pattern (14 bp):
CTGTTGAATTATAC
Found at i:36251279 original size:22 final size:22
Alignment explanation
Indices: 36251230--36251272 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
36251220 TTACAGACTT
*
36251230 TGCATTGAGTTATAATATGTAA
1 TGCATTGAGTTATAAAATGTAA
36251252 TGCATT-AGTTAGTAAAATGTA
1 TGCATTGAGTTA-TAAAATGTA
36251273 TGCCATTTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 5 0.26
22 14 0.74
ACGTcount: A:0.37, C:0.05, G:0.19, T:0.40
Consensus pattern (22 bp):
TGCATTGAGTTATAAAATGTAA
Found at i:36251563 original size:18 final size:18
Alignment explanation
Indices: 36251540--36251581 Score: 84
Period size: 18 Copynumber: 2.3 Consensus size: 18
36251530 AATGAATTGT
36251540 ATTAAATTGCTTGATGTG
1 ATTAAATTGCTTGATGTG
36251558 ATTAAATTGCTTGATGTG
1 ATTAAATTGCTTGATGTG
36251576 ATTAAA
1 ATTAAA
36251582 AATGCATATG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.33, C:0.05, G:0.19, T:0.43
Consensus pattern (18 bp):
ATTAAATTGCTTGATGTG
Found at i:36252773 original size:47 final size:47
Alignment explanation
Indices: 36252720--36253130 Score: 750
Period size: 47 Copynumber: 8.7 Consensus size: 47
36252710 TTAGGATTCT
36252720 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
36252767 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
36252814 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
36252861 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
36252908 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
36252955 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
36253002 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* * * * *
36253049 ATGTGATGAATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCA
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* * *
36253096 ACGTGATGGATGTGAAAGTGTATAAATGTGATAAG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAG
36253131 TCCCGAAGGG
Statistics
Matches: 354, Mismatches: 10, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
47 354 1.00
ACGTcount: A:0.32, C:0.08, G:0.30, T:0.29
Consensus pattern (47 bp):
ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
Found at i:36254376 original size:54 final size:54
Alignment explanation
Indices: 36254308--36254415 Score: 207
Period size: 54 Copynumber: 2.0 Consensus size: 54
36254298 TCGTATTTGA
*
36254308 ATTTTGATTTGGATTGAATTATAAGGGTATAAGTGATGCAATTTTGAAAGAGTG
1 ATTTCGATTTGGATTGAATTATAAGGGTATAAGTGATGCAATTTTGAAAGAGTG
36254362 ATTTCGATTTGGATTGAATTATAAGGGTATAAGTGATGCAATTTTGAAAGAGTG
1 ATTTCGATTTGGATTGAATTATAAGGGTATAAGTGATGCAATTTTGAAAGAGTG
36254416 TTATGACTAT
Statistics
Matches: 53, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
54 53 1.00
ACGTcount: A:0.33, C:0.03, G:0.26, T:0.38
Consensus pattern (54 bp):
ATTTCGATTTGGATTGAATTATAAGGGTATAAGTGATGCAATTTTGAAAGAGTG
Found at i:36254602 original size:40 final size:40
Alignment explanation
Indices: 36254558--36254749 Score: 285
Period size: 40 Copynumber: 4.8 Consensus size: 40
36254548 GAGAATTGAG
36254558 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
*
36254598 AGTGATGTATCCGGGCTAAGTCTCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* *
36254638 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* * **
36254678 AGTGATATATCCGTGCTAAACCCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* * * *
36254718 GGTGTTATATCCGGGCTAGGTCCCGAAGAGCA
1 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCA
36254750 ATCATGCTGG
Statistics
Matches: 136, Mismatches: 16, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 136 1.00
ACGTcount: A:0.24, C:0.22, G:0.29, T:0.26
Consensus pattern (40 bp):
AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
Found at i:36258634 original size:49 final size:49
Alignment explanation
Indices: 36258515--36258913 Score: 643
Period size: 49 Copynumber: 8.3 Consensus size: 49
36258505 CAAGACAGTG
36258515 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
36258562 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
*
36258611 TATATATGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTGTA
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
*
36258660 TATATATGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTGTA
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
*
36258709 TATATATGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTGTA
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
*
36258758 TATATATGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTG--
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
36258805 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
* * * * * * *
36258852 TATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTA
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
36258901 TA-A-ATGTGATAAG
1 TATATATGTGATAAG
36258914 TCCCGAAGGG
Statistics
Matches: 337, Mismatches: 11, Indels: 8
0.95 0.03 0.02
Matches are distributed among these distances:
47 141 0.42
48 1 0.00
49 195 0.58
ACGTcount: A:0.32, C:0.08, G:0.30, T:0.31
Consensus pattern (49 bp):
TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
Found at i:36259088 original size:37 final size:37
Alignment explanation
Indices: 36259032--36259110 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
36259022 CCGAGCTCTA
* * *
36259032 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
36259069 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
36259106 AAGAC
1 AAGAC
36259111 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:36262979 original size:44 final size:44
Alignment explanation
Indices: 36262928--36263027 Score: 173
Period size: 44 Copynumber: 2.3 Consensus size: 44
36262918 TATGTGTTTT
*
36262928 CGTGTAAGACCAGATATGGGACGTTGGCATCGACTTATGATTTA
1 CGTGTAAGACCACATATGGGACGTTGGCATCGACTTATGATTTA
* *
36262972 TGTGTAAGACCACATCTGGGACGTTGGCATCGACTTATGATTTA
1 CGTGTAAGACCACATATGGGACGTTGGCATCGACTTATGATTTA
36263016 CGTGTAAGACCA
1 CGTGTAAGACCA
36263028 TGTCTGGGAC
Statistics
Matches: 52, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
44 52 1.00
ACGTcount: A:0.27, C:0.18, G:0.26, T:0.29
Consensus pattern (44 bp):
CGTGTAAGACCACATATGGGACGTTGGCATCGACTTATGATTTA
Found at i:36263041 original size:38 final size:39
Alignment explanation
Indices: 36262954--36263043 Score: 101
Period size: 44 Copynumber: 2.2 Consensus size: 39
36262944 TGGGACGTTG
*
36262954 GCATCGACTTATGATTTATGTGTAAGACCACATCTGGGA
1 GCATCGACTTATGATTTACGTGTAAGACCACATCTGGGA
**
36262993 CGTTGGCATCGACTTATGATTTACGTGTAAGACCATGTCTGGGA
1 -----GCATCGACTTATGATTTACGTGTAAGACCACATCTGGGA
36263037 -CATCGAC
1 GCATCGAC
36263044 ATCGTATTTG
Statistics
Matches: 43, Mismatches: 3, Indels: 6
0.83 0.06 0.12
Matches are distributed among these distances:
38 7 0.16
44 36 0.84
ACGTcount: A:0.26, C:0.20, G:0.24, T:0.30
Consensus pattern (39 bp):
GCATCGACTTATGATTTACGTGTAAGACCACATCTGGGA
Found at i:36270720 original size:262 final size:262
Alignment explanation
Indices: 36270255--36270779 Score: 1005
Period size: 262 Copynumber: 2.0 Consensus size: 262
36270245 GTCACGAAAC
36270255 TACTATTCCGATTAGGCCCTAATTCGGGTTATCACATTGAAAATCTCTTTCAGTTGCGGAAGCTA
1 TACTATTCCGATTAGGCCCTAATTCGGGTTATCACATTGAAAATCTCTTTCAGTTGCGGAAGCTA
*
36270320 ATTTCAATTAAAGAAGTTTAAAACATAAGTTTCTGAAAACAGTAATTGGTTTGAAAACTTGTCTT
66 ATTTCAATTAAAGAAGTTTAAAACATAAGTTTCTGAAAACAGTAATTGGTTTGAAAACTTCTCTT
*
36270385 TTCCTATACTAGAAATTTAGGGTGAGTAATCAAAAGCCCATTTAAAAGTAAATCTCACAAATGAT
131 TTCCTAGACTAGAAATTTAGGGTGAGTAATCAAAAGCCCATTTAAAAGTAAATCTCACAAATGAT
36270450 CTTATTACAAACTAGAAATCCAAAATCAAAAATACGAATAAGCAATTCAATGTAGCAGTAGGAGC
196 CTTATTACAAACTAGAAATCCAAAATCAAAAATACGAATAAGCAATTCAATGTAGCAGTAGGAGC
36270515 AG
261 AG
*
36270517 TACTATTCCGATTAGGCCCTAATTCGGGTTGTCACATTGAAAATCTCTTTCAGTTGCGGAAGCTA
1 TACTATTCCGATTAGGCCCTAATTCGGGTTATCACATTGAAAATCTCTTTCAGTTGCGGAAGCTA
*
36270582 ATTTCAATTAAAGAAGTTTAAAACATATGTTTCTGAAAACAGTAATTGGTTTGAAAACTTCTCTT
66 ATTTCAATTAAAGAAGTTTAAAACATAAGTTTCTGAAAACAGTAATTGGTTTGAAAACTTCTCTT
*
36270647 TTCCTAGACTAGCAATTTAGGGTGAGTAATCAAAAGCCCATTTAAAAGTAAATCTCACAAATGAT
131 TTCCTAGACTAGAAATTTAGGGTGAGTAATCAAAAGCCCATTTAAAAGTAAATCTCACAAATGAT
36270712 CTTATTACAAACTAGAAATCCAAAATCAAAAATACGAATAAGCAATTCAATGTAGCAGTAGGAGC
196 CTTATTACAAACTAGAAATCCAAAATCAAAAATACGAATAAGCAATTCAATGTAGCAGTAGGAGC
36270777 AG
261 AG
36270779 T
1 T
36270780 CATGTGGCCA
Statistics
Matches: 258, Mismatches: 5, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
262 258 1.00
ACGTcount: A:0.38, C:0.16, G:0.15, T:0.30
Consensus pattern (262 bp):
TACTATTCCGATTAGGCCCTAATTCGGGTTATCACATTGAAAATCTCTTTCAGTTGCGGAAGCTA
ATTTCAATTAAAGAAGTTTAAAACATAAGTTTCTGAAAACAGTAATTGGTTTGAAAACTTCTCTT
TTCCTAGACTAGAAATTTAGGGTGAGTAATCAAAAGCCCATTTAAAAGTAAATCTCACAAATGAT
CTTATTACAAACTAGAAATCCAAAATCAAAAATACGAATAAGCAATTCAATGTAGCAGTAGGAGC
AG
Found at i:36271392 original size:22 final size:23
Alignment explanation
Indices: 36271329--36271393 Score: 71
Period size: 22 Copynumber: 2.9 Consensus size: 23
36271319 GTAATATGAT
*
36271329 TGGCATAGAGCCATGATCA-AGA
1 TGGCATAGAGCCATAATCAGAGA
* **
36271351 TGGCACAGAGCCATCTTCAGA-A
1 TGGCATAGAGCCATAATCAGAGA
*
36271373 TTGCATAGAGCCATAATCAGA
1 TGGCATAGAGCCATAATCAGA
36271394 TCAAGTGGCT
Statistics
Matches: 35, Mismatches: 7, Indels: 2
0.80 0.16 0.05
Matches are distributed among these distances:
22 34 0.97
23 1 0.03
ACGTcount: A:0.35, C:0.22, G:0.23, T:0.20
Consensus pattern (23 bp):
TGGCATAGAGCCATAATCAGAGA
Found at i:36273330 original size:24 final size:24
Alignment explanation
Indices: 36273285--36273330 Score: 56
Period size: 24 Copynumber: 1.9 Consensus size: 24
36273275 CTTAAAATCC
*
36273285 CTCCATGATTTCCTCCCCAATCTT
1 CTCCATGATTTCCTCCACAATCTT
* * *
36273309 CTCCTTGATTTTCTCCATAATC
1 CTCCATGATTTCCTCCACAATC
36273331 CATTCCTTGA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 18 1.00
ACGTcount: A:0.17, C:0.37, G:0.04, T:0.41
Consensus pattern (24 bp):
CTCCATGATTTCCTCCACAATCTT
Found at i:36275206 original size:30 final size:31
Alignment explanation
Indices: 36275166--36275240 Score: 98
Period size: 32 Copynumber: 2.4 Consensus size: 31
36275156 ATGCAGTATG
*
36275166 ATCGGCACAGAGCCATCAGT-CAGTAATATA
1 ATCGGTACAGAGCCATCAGTACAGTAATATA
* *
36275196 ATCGGTACAGAGCCATCAGTAACGGTAATATG
1 ATCGGTACAGAGCCATCAGT-ACAGTAATATA
*
36275228 ATCGGTAAAGAGC
1 ATCGGTACAGAGC
36275241 TATGATCAAG
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
30 19 0.49
32 20 0.51
ACGTcount: A:0.36, C:0.20, G:0.24, T:0.20
Consensus pattern (31 bp):
ATCGGTACAGAGCCATCAGTACAGTAATATA
Found at i:36275232 original size:32 final size:30
Alignment explanation
Indices: 36275162--36275240 Score: 104
Period size: 30 Copynumber: 2.6 Consensus size: 30
36275152 GTAGATGCAG
*
36275162 TATGATCGGCACAGAGCCATCAGTCAGTAA
1 TATGATCGGTACAGAGCCATCAGTCAGTAA
* *
36275192 TATAATCGGTACAGAGCCATCAGTAACGGTAA
1 TATGATCGGTACAGAGCCATCAGT--CAGTAA
*
36275224 TATGATCGGTAAAGAGC
1 TATGATCGGTACAGAGC
36275241 TATGATCAAG
Statistics
Matches: 42, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
30 22 0.52
32 20 0.48
ACGTcount: A:0.35, C:0.19, G:0.24, T:0.22
Consensus pattern (30 bp):
TATGATCGGTACAGAGCCATCAGTCAGTAA
Found at i:36275363 original size:43 final size:43
Alignment explanation
Indices: 36275298--36275423 Score: 171
Period size: 43 Copynumber: 2.9 Consensus size: 43
36275288 GCGTCAGTAG
* * * *
36275298 GTCCACAGTTGTCTCGCGCGACCCGTACGACCTTAATAGAATA
1 GTCCACAGTCGTCTCGTGCGACCCGTGCGACCTTAACAGAATA
* *
36275341 GTCTACAGTCGTCTCGTGCGACCCGTGCAACCTTAACAGAATA
1 GTCCACAGTCGTCTCGTGCGACCCGTGCGACCTTAACAGAATA
* * *
36275384 GTCCACAGTCATCTCGTGCGATCCGTGTGACCTTAACAGA
1 GTCCACAGTCGTCTCGTGCGACCCGTGCGACCTTAACAGA
36275424 TCAATACTGG
Statistics
Matches: 72, Mismatches: 11, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
43 72 1.00
ACGTcount: A:0.25, C:0.30, G:0.21, T:0.24
Consensus pattern (43 bp):
GTCCACAGTCGTCTCGTGCGACCCGTGCGACCTTAACAGAATA
Found at i:36275738 original size:27 final size:28
Alignment explanation
Indices: 36275706--36275766 Score: 72
Period size: 27 Copynumber: 2.2 Consensus size: 28
36275696 AAAAATAGTT
**
36275706 ATTTTACCTTACAG-GAGTATTTCGATA
1 ATTTTACCAAACAGAGAGTATTTCGATA
* *
36275733 ATTTTA-CAAACCGAGAGTATTTTGATA
1 ATTTTACCAAACAGAGAGTATTTCGATA
36275760 ATTTTAC
1 ATTTTAC
36275767 AAATCGGGGG
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
26 4 0.14
27 24 0.86
ACGTcount: A:0.33, C:0.13, G:0.13, T:0.41
Consensus pattern (28 bp):
ATTTTACCAAACAGAGAGTATTTCGATA
Found at i:36283831 original size:22 final size:22
Alignment explanation
Indices: 36283806--36283864 Score: 57
Period size: 23 Copynumber: 2.6 Consensus size: 22
36283796 CCTGAGCTGA
* *
36283806 TGAACAGTAAGCTTTAAT-GATC
1 TGAACAGTAAGCTCT-ATCGAGC
*
36283828 TGAAACGGTAAGCTCTATCGAGC
1 TG-AACAGTAAGCTCTATCGAGC
*
36283851 TGAATAGTAAGCTC
1 TGAACAGTAAGCTC
36283865 ATACAAGTTG
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
22 14 0.47
23 16 0.53
ACGTcount: A:0.34, C:0.17, G:0.22, T:0.27
Consensus pattern (22 bp):
TGAACAGTAAGCTCTATCGAGC
Found at i:36287697 original size:27 final size:27
Alignment explanation
Indices: 36287667--36287718 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 27
36287657 TATACTCGTA
*
36287667 GATGTGCTTTGGCGAACTAATTTTGCT
1 GATGTGCTTTGGCGAACTAACTTTGCT
* *
36287694 GATGTGTTTTGGTGAACTAACTTTG
1 GATGTGCTTTGGCGAACTAACTTTG
36287719 TAACACCCCT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.19, C:0.12, G:0.27, T:0.42
Consensus pattern (27 bp):
GATGTGCTTTGGCGAACTAACTTTGCT
Found at i:36296125 original size:24 final size:26
Alignment explanation
Indices: 36296098--36296145 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 26
36296088 AGCTCCAATG
36296098 AGCTGA-A-AACAATAAGCTCTTACA
1 AGCTGATATAACAATAAGCTCTTACA
* *
36296122 AGCTGATATATCAGTAAGCTCTTA
1 AGCTGATATAACAATAAGCTCTTA
36296146 TGAGCTGTGG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 6 0.30
25 1 0.05
26 13 0.65
ACGTcount: A:0.40, C:0.19, G:0.15, T:0.27
Consensus pattern (26 bp):
AGCTGATATAACAATAAGCTCTTACA
Found at i:36296151 original size:26 final size:24
Alignment explanation
Indices: 36295981--36296152 Score: 90
Period size: 23 Copynumber: 7.3 Consensus size: 24
36295971 AAGATCCTCC
* *
36295981 TGAGCTGATGAACAGTAAGCTCTAA
1 TGAGCTGA-AAACAGTAAGCTCTTA
**
36296006 TGAGCTG-AAAGGGTAAGCTC-TA
1 TGAGCTGAAAACAGTAAGCTCTTA
* *
36296028 TTGAGCTG--TACAGTAAGCTCATA
1 -TGAGCTGAAAACAGTAAGCTCTTA
** *
36296051 CAAGCTGAATA-A-TAAGCT-TATA
1 TGAGCTGAAAACAGTAAGCTCT-TA
* * **
36296073 CGAGCTG-AAACGGTAAGCTCCAA
1 TGAGCTGAAAACAGTAAGCTCTTA
*
36296096 TGAGCTGAAAACAATAAGCTCTTA
1 TGAGCTGAAAACAGTAAGCTCTTA
** *
36296120 CAAGCTGATATATCAGTAAGCTCTTA
1 TGAGCTGA-A-AACAGTAAGCTCTTA
36296146 TGAGCTG
1 TGAGCTG
36296153 TGGTGAGTCC
Statistics
Matches: 110, Mismatches: 26, Indels: 21
0.70 0.17 0.13
Matches are distributed among these distances:
21 2 0.02
22 29 0.26
23 33 0.30
24 20 0.18
25 8 0.07
26 18 0.16
ACGTcount: A:0.35, C:0.17, G:0.22, T:0.25
Consensus pattern (24 bp):
TGAGCTGAAAACAGTAAGCTCTTA
Found at i:36300730 original size:48 final size:49
Alignment explanation
Indices: 36300638--36300731 Score: 136
Period size: 48 Copynumber: 1.9 Consensus size: 49
36300628 CGAGATGAGA
* ****
36300638 GCCAGTGTAAGAATCATGTCTGGGACATGGCATCGGTGTTGATATGTGT
1 GCCAGTGTAAGAACCATGTCTGGGACATGGCATCGGCACCGATATGTGT
36300687 GCCAGTGTAAG-ACCATGTCTGGGACATGGCATCGGCACCGATATG
1 GCCAGTGTAAGAACCATGTCTGGGACATGGCATCGGCACCGATATG
36300732 AGACTTCGTA
Statistics
Matches: 40, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
48 29 0.73
49 11 0.28
ACGTcount: A:0.23, C:0.19, G:0.32, T:0.26
Consensus pattern (49 bp):
GCCAGTGTAAGAACCATGTCTGGGACATGGCATCGGCACCGATATGTGT
Found at i:36303373 original size:51 final size:49
Alignment explanation
Indices: 36303187--36303378 Score: 212
Period size: 50 Copynumber: 3.9 Consensus size: 49
36303177 AGCCGAAGCT
* * *
36303187 ATCTGA-TACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAAC
1 ATCTGAGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCAAC
* * * *
36303235 AATCCG-GTACACGTAGTAACCTGCACTTAGTACTACACACGTGAACTCACC
1 -ATCTGAGTACACATAGTAGCCTGCACTTAGTACTACACACGTG-AC-CAAC
* *
36303286 ATCTGA-TACACGTAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTC
1 ATCTGAGTACACATAGTAGCCTGCACTTAGTACTACACACGTGA-CCAA--C
*
36303337 AT-TGAGTACGCATAGTAGCCTGCACTTAGTACTACACACGTG
1 ATCTGAGTACACATAGTAGCCTGCACTTAGTACTACACACGTG
36303379 TATTCACAAT
Statistics
Matches: 122, Mismatches: 13, Indels: 14
0.82 0.09 0.09
Matches are distributed among these distances:
49 37 0.30
50 45 0.37
51 40 0.33
ACGTcount: A:0.30, C:0.28, G:0.18, T:0.24
Consensus pattern (49 bp):
ATCTGAGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCAAC
Found at i:36314731 original size:48 final size:49
Alignment explanation
Indices: 36314601--36314738 Score: 172
Period size: 49 Copynumber: 2.8 Consensus size: 49
36314591 ACCATGGTTA
* * * *
36314601 ATGAGATCCAGTGTAAGACCATGTTTGGGACATGGCATCAGCATTCGAG
1 ATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTCGAG
* * *
36314650 ATGAGAGCTAGTGTAAGAATCATGTCTGGGACATGGCATCGGCGTT-GAT
1 ATGAGAGCTAGTGTAAG-ACCATGTCTGGGACATGGCATCGGCATTCGAG
*
36314699 AT-ATGTGCTAGTGTAAGACCATGTCTGGGACATGGCATCG
1 ATGA-GAGCTAGTGTAAGACCATGTCTGGGACATGGCATCG
36314739 AGAACCGATA
Statistics
Matches: 78, Mismatches: 9, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
48 23 0.29
49 31 0.40
50 24 0.31
ACGTcount: A:0.27, C:0.17, G:0.30, T:0.26
Consensus pattern (49 bp):
ATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTCGAG
Found at i:36318552 original size:43 final size:42
Alignment explanation
Indices: 36318502--36318623 Score: 115
Period size: 42 Copynumber: 2.8 Consensus size: 42
36318492 TCCCAGACGT
* *
36318502 GGTCTTACATGTAATCACATATCGATGTCACTGTCCCAGAAAG
1 GGTCTTACACGTAATCACATATCGATG-CAATGTCCCAGAAAG
* *
36318545 GGTCTTACACG-AA-CTCATATACGATGCTAATGTCCCA-AACAT
1 GGTCTTACACGTAATCACATAT-CGATGC-AATGTCCCAGAA-AG
* *
36318587 AGTCTTACACGTAAATCACAAATCGATGCCAATGTCC
1 GGTCTTACACGT-AATCACATATCGATG-CAATGTCC
36318624 AAGATGTGGT
Statistics
Matches: 65, Mismatches: 7, Indels: 13
0.76 0.08 0.15
Matches are distributed among these distances:
41 9 0.14
42 26 0.40
43 10 0.15
44 14 0.22
45 6 0.09
ACGTcount: A:0.33, C:0.25, G:0.16, T:0.26
Consensus pattern (42 bp):
GGTCTTACACGTAATCACATATCGATGCAATGTCCCAGAAAG
Found at i:36319781 original size:13 final size:13
Alignment explanation
Indices: 36319763--36319787 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
36319753 ACAAACAATA
36319763 AAATTTTCACACG
1 AAATTTTCACACG
36319776 AAATTTTCACAC
1 AAATTTTCACAC
36319788 ATATCAATTC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.24, G:0.04, T:0.32
Consensus pattern (13 bp):
AAATTTTCACACG
Found at i:36330247 original size:19 final size:19
Alignment explanation
Indices: 36330206--36330248 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
36330196 ATACCCGGAC
* *
36330206 TTGTATAGGGTTCGCGTAC
1 TTGTATAGGGTTCACGTAA
36330225 TTGTATAGGGTTCAC-TAAA
1 TTGTATAGGGTTCACGT-AA
36330244 TTGTA
1 TTGTA
36330249 AGATATTTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 1 0.05
19 20 0.95
ACGTcount: A:0.23, C:0.12, G:0.26, T:0.40
Consensus pattern (19 bp):
TTGTATAGGGTTCACGTAA
Found at i:36332037 original size:26 final size:26
Alignment explanation
Indices: 36332008--36332073 Score: 69
Period size: 26 Copynumber: 2.5 Consensus size: 26
36331998 ATTCGCAACT
*
36332008 CAACAGCGAACCCCAGCTTACTAAAC
1 CAACAGCGAACCCCAGCTTACCAAAC
* * * *
36332034 CAACAGTGAACACTAGCTTGCCAAAC
1 CAACAGCGAACCCCAGCTTACCAAAC
*
36332060 CAACTGGCGAACCC
1 CAAC-AGCGAACCC
36332074 AACTTGCAAT
Statistics
Matches: 31, Mismatches: 8, Indels: 1
0.77 0.20 0.03
Matches are distributed among these distances:
26 25 0.81
27 6 0.19
ACGTcount: A:0.36, C:0.36, G:0.15, T:0.12
Consensus pattern (26 bp):
CAACAGCGAACCCCAGCTTACCAAAC
Found at i:36335589 original size:53 final size:50
Alignment explanation
Indices: 36335531--36335654 Score: 151
Period size: 50 Copynumber: 2.4 Consensus size: 50
36335521 ATGAACAAAT
* *
36335531 GAGTTACTTAATGCATGACTTAATTTTAATGACGCAAACTTTAACTAACATGG
1 GAGTTACATAATGCATGACTTAA-TTT-ATGACGCAAAC-TTAACTAACATGA
* * * *
36335584 GAGTTACATAATCCAT-ATCATAATTTATTATGCAAACTTAACTAACATGA
1 GAGTTACATAATGCATGA-CTTAATTTATGACGCAAACTTAACTAACATGA
36335634 GAGTTACATAATGCATGACTT
1 GAGTTACATAATGCATGACTT
36335655 TATTAAATGC
Statistics
Matches: 61, Mismatches: 8, Indels: 7
0.80 0.11 0.09
Matches are distributed among these distances:
50 29 0.48
51 10 0.16
52 4 0.07
53 18 0.30
ACGTcount: A:0.38, C:0.15, G:0.13, T:0.34
Consensus pattern (50 bp):
GAGTTACATAATGCATGACTTAATTTATGACGCAAACTTAACTAACATGA
Found at i:36339868 original size:52 final size:50
Alignment explanation
Indices: 36339811--36339933 Score: 167
Period size: 50 Copynumber: 2.4 Consensus size: 50
36339801 ATGAACAAAT
* *
36339811 GAGTTACTTAATGCATGACTTAATTTAATGATGCAAACTTTAACTAACATGG
1 GAGTTACATAATGCATGACTTAATTT-ATGATGCAAAC-TTAACTAACATGA
* * *
36339863 GAGTTACATAATCCAT-ATCATAATTTATTATGCAAACTTAACTAACATGA
1 GAGTTACATAATGCATGA-CTTAATTTATGATGCAAACTTAACTAACATGA
36339913 GAGTTACATAATGCATGACTT
1 GAGTTACATAATGCATGACTT
36339934 TATTAAATAT
Statistics
Matches: 62, Mismatches: 7, Indels: 6
0.83 0.09 0.08
Matches are distributed among these distances:
50 29 0.47
51 12 0.19
52 21 0.34
ACGTcount: A:0.38, C:0.15, G:0.13, T:0.34
Consensus pattern (50 bp):
GAGTTACATAATGCATGACTTAATTTATGATGCAAACTTAACTAACATGA
Found at i:36345331 original size:42 final size:41
Alignment explanation
Indices: 36345242--36345332 Score: 94
Period size: 42 Copynumber: 2.2 Consensus size: 41
36345232 TGTTTGGGAC
* * *
36345242 ATGGCATCGATACGAAATTCATGTGAGACCATAGTTAGGCT
1 ATGGCATCGATACGAAATTCATGTAAGACCATAGTCAGGAT
* * *
36345283 ATTGGCATCGATATGAGATTACATGTAAGACTATA-TCCAGGAT
1 A-TGGCATCGATACGAAATT-CATGTAAGACCATAGT-CAGGAT
36345326 ATGGCAT
1 ATGGCAT
36345333 TGTACGACTT
Statistics
Matches: 41, Mismatches: 6, Indels: 5
0.79 0.12 0.10
Matches are distributed among these distances:
41 1 0.02
42 23 0.56
43 17 0.41
ACGTcount: A:0.33, C:0.15, G:0.23, T:0.29
Consensus pattern (41 bp):
ATGGCATCGATACGAAATTCATGTAAGACCATAGTCAGGAT
Found at i:36346291 original size:24 final size:24
Alignment explanation
Indices: 36346264--36346309 Score: 83
Period size: 24 Copynumber: 1.9 Consensus size: 24
36346254 ATGGTATAGG
36346264 GATGATGAATTGGTACATTTTGAT
1 GATGATGAATTGGTACATTTTGAT
*
36346288 GATGATGAATTGGTATATTTTG
1 GATGATGAATTGGTACATTTTG
36346310 TGGCATGAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.28, C:0.02, G:0.26, T:0.43
Consensus pattern (24 bp):
GATGATGAATTGGTACATTTTGAT
Found at i:36348920 original size:6 final size:6
Alignment explanation
Indices: 36348911--36348938 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
36348901 GGAGATGGAG
36348911 ATGCTT ATGCTT ATGCTT ATGCTT ATGC
1 ATGCTT ATGCTT ATGCTT ATGCTT ATGC
36348939 AAAGAGCAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.18, C:0.18, G:0.18, T:0.46
Consensus pattern (6 bp):
ATGCTT
Found at i:36358633 original size:16 final size:16
Alignment explanation
Indices: 36358614--36358657 Score: 54
Period size: 17 Copynumber: 2.8 Consensus size: 16
36358604 AAATTTTATA
36358614 TTTTCTATCTTTTAAC
1 TTTTCTATCTTTTAAC
* *
36358630 TTTTCTATCCCTTTAAT
1 TTTTCTAT-CTTTTAAC
36358647 TTTTC-ATCTTT
1 TTTTCTATCTTT
36358658 CCAATTTTCT
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
15 3 0.12
16 10 0.42
17 11 0.46
ACGTcount: A:0.16, C:0.20, G:0.00, T:0.64
Consensus pattern (16 bp):
TTTTCTATCTTTTAAC
Found at i:36364022 original size:20 final size:20
Alignment explanation
Indices: 36363997--36364034 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
36363987 AAAGATGCGT
*
36363997 AACAGAGATACCGAAGTGCA
1 AACAGAGACACCGAAGTGCA
*
36364017 AACAGAGGCACCGAAGTG
1 AACAGAGACACCGAAGTG
36364035 TGCAATCCCG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.42, C:0.21, G:0.29, T:0.08
Consensus pattern (20 bp):
AACAGAGACACCGAAGTGCA
Found at i:36368072 original size:6 final size:6
Alignment explanation
Indices: 36368056--36368093 Score: 58
Period size: 6 Copynumber: 6.0 Consensus size: 6
36368046 AACTCGTAAT
36368056 CCAACAA CCAAAA CCAAAA CCAAAA CCAAAA CCTAAAA
1 CCAA-AA CCAAAA CCAAAA CCAAAA CCAAAA CC-AAAA
36368094 TGTAAAACTC
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
6 22 0.73
7 8 0.27
ACGTcount: A:0.63, C:0.34, G:0.00, T:0.03
Consensus pattern (6 bp):
CCAAAA
Found at i:36370308 original size:102 final size:101
Alignment explanation
Indices: 36370184--36370387 Score: 363
Period size: 102 Copynumber: 2.0 Consensus size: 101
36370174 ATAGAATTTG
*
36370184 AGATTTAATCCTATACTTTAAAAGTTAAAAATACTGTCTTCTTACTTTTTCAATTTAAAAATCAT
1 AGATTTAATCCTATACTTTAAAAGTTAAAAATACTATCTTCTTACTTTTTCAATTTAAAAATCAT
36370249 TCTTAAATCATTATAATTGTTGATAGTTTCTGAAAA
66 TCTTAAATCATTATAATTGTTGATAGTTTCTGAAAA
36370285 AGATTTAATCCCTATACTTTAAAAGTTAAAAATACTATCTTCTTACTTTTTCAATTTAAAAATCA
1 AGATTTAAT-CCTATACTTTAAAAGTTAAAAATACTATCTTCTTACTTTTTCAATTTAAAAATCA
* * *
36370350 TTGTTCAATCATTATAATTGTTGATAGTTTTTGAAAA
65 TTCTTAAATCATTATAATTGTTGATAGTTTCTGAAAA
36370387 A
1 A
36370388 AATTGTCAAC
Statistics
Matches: 98, Mismatches: 4, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
101 9 0.09
102 89 0.91
ACGTcount: A:0.38, C:0.12, G:0.07, T:0.44
Consensus pattern (101 bp):
AGATTTAATCCTATACTTTAAAAGTTAAAAATACTATCTTCTTACTTTTTCAATTTAAAAATCAT
TCTTAAATCATTATAATTGTTGATAGTTTCTGAAAA
Found at i:36377067 original size:29 final size:29
Alignment explanation
Indices: 36377034--36377092 Score: 100
Period size: 29 Copynumber: 2.0 Consensus size: 29
36377024 TGAAACATAG
*
36377034 TTTTCTTAAGATAAATTCCGCTGCTCCTA
1 TTTTCTTAAGATAAATTCCGCCGCTCCTA
*
36377063 TTTTCTTAAGATAAATTCGGCCGCTCCTA
1 TTTTCTTAAGATAAATTCCGCCGCTCCTA
36377092 T
1 T
36377093 GGTAGTTGGA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.24, C:0.24, G:0.12, T:0.41
Consensus pattern (29 bp):
TTTTCTTAAGATAAATTCCGCCGCTCCTA
Found at i:36378617 original size:145 final size:145
Alignment explanation
Indices: 36378382--36378644 Score: 377
Period size: 145 Copynumber: 1.8 Consensus size: 145
36378372 TAAGGTTAAG
* * * *
36378382 TATCATTAATATAAAAATGTACTTTATAATATCATAATTGTATATGGGTTGCATATAATTAATAA
1 TATCATTAATATAAAAATGTACTTTATAATAACATAATTATATATGGATTACATATAATTAATAA
* * *
36378447 CCTACTTTAAGAATATCATGTTAATTGTATATATTAT-ATCTACCATAAAATTAGTTACAAGGGT
66 CCTACCTTAAGAATATAATGCTAATTGTATATATTATAATCTACCATAAAATTAGTTACAAGGGT
36378511 AGGGTTTAACTCACA
131 AGGGTTTAACTCACA
* *
36378526 TATCATTAATATAAAAATGTACATTT-TAATAACATAGTTATATATAGGATTACATATCATTAAT
1 TATCATTAATATAAAAATGTAC-TTTATAATAACATAATTATATAT-GGATTACATATAATTAAT
* ** *
36378590 AATCTACCTTAATTATATAATGCTAATTGTATATATTATAATTTACCATAAAATT
64 AACCTACCTTAAGAATATAATGCTAATTGTATATATTATAATCTACCATAAAATT
36378645 TATGGCACCC
Statistics
Matches: 103, Mismatches: 13, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
144 38 0.37
145 51 0.50
146 14 0.14
ACGTcount: A:0.41, C:0.10, G:0.08, T:0.40
Consensus pattern (145 bp):
TATCATTAATATAAAAATGTACTTTATAATAACATAATTATATATGGATTACATATAATTAATAA
CCTACCTTAAGAATATAATGCTAATTGTATATATTATAATCTACCATAAAATTAGTTACAAGGGT
AGGGTTTAACTCACA
Found at i:36379828 original size:24 final size:26
Alignment explanation
Indices: 36379790--36379837 Score: 73
Period size: 25 Copynumber: 1.9 Consensus size: 26
36379780 CATTTATTTT
36379790 TATACCAAGCCACATAGCA-TTTTCA
1 TATACCAAGCCACATAGCACTTTTCA
*
36379815 TATACCGA-CCACATAGCACTTTT
1 TATACCAAGCCACATAGCACTTTT
36379838 TGTATTTTAG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 10 0.48
25 11 0.52
ACGTcount: A:0.33, C:0.29, G:0.08, T:0.29
Consensus pattern (26 bp):
TATACCAAGCCACATAGCACTTTTCA
Found at i:36388823 original size:13 final size:13
Alignment explanation
Indices: 36388806--36388837 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
36388796 ACGGCTGAGA
36388806 CACACGGCCATAG
1 CACACGGCCATAG
*
36388819 GACACGGCCATAG
1 CACACGGCCATAG
36388832 CACACG
1 CACACG
36388838 CCCGTGTGCT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.31, C:0.38, G:0.25, T:0.06
Consensus pattern (13 bp):
CACACGGCCATAG
Found at i:36389793 original size:47 final size:46
Alignment explanation
Indices: 36389719--36389998 Score: 190
Period size: 47 Copynumber: 5.9 Consensus size: 46
36389709 GGGGTAAGGT
* * * *
36389719 GCCGATGCTATGTCCCGGACATAGTCTTACACTGGCTCACATCTCAA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACT-GCTCACATATCAA
* * * * *
36389766 GTCGATGCCATGTCCCAGACATGGTCTTACAGTGATTATCATTATCGAG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGCTCA-CA-TATC-AA
* * * * * *
36389815 GCCGATG-CATGTCCCAAACA-CGTCTTACTCTCGCACTCGTATCAA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACT-GCTCACATATCAA
* * * *
36389860 TGCCGATGCCATGTCCCAGACATGGTCTTACAGTGATTATCATTATCGAG
1 -GCCGATGCCATGTCCCAGACATGGTCTTACACTGCTCA-CA-TATC-AA
* * * * * *
36389910 GCCGATG-CATGTCCCAAACA-CGTCTTACTCTCGCACTCGTATCAA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACT-GCTCACATATCAA
*
36389955 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATA
1 -GCCGATGCCATGTCCCAGACATGGTCTTACACT-GCTCACATA
36389999 ATGTGGCCGA
Statistics
Matches: 173, Mismatches: 46, Indels: 27
0.70 0.19 0.11
Matches are distributed among these distances:
45 2 0.01
46 25 0.14
47 73 0.42
48 54 0.31
49 18 0.10
50 1 0.01
ACGTcount: A:0.24, C:0.30, G:0.19, T:0.27
Consensus pattern (46 bp):
GCCGATGCCATGTCCCAGACATGGTCTTACACTGCTCACATATCAA
Found at i:36389891 original size:95 final size:95
Alignment explanation
Indices: 36389768--36389986 Score: 438
Period size: 95 Copynumber: 2.3 Consensus size: 95
36389758 CATCTCAAGT
36389768 CGATGCCATGTCCCAGACATGGTCTTACAGTGATTATCATTATCGAGGCCGATGCATGTCCCAAA
1 CGATGCCATGTCCCAGACATGGTCTTACAGTGATTATCATTATCGAGGCCGATGCATGTCCCAAA
36389833 CACGTCTTACTCTCGCACTCGTATCAATGC
66 CACGTCTTACTCTCGCACTCGTATCAATGC
36389863 CGATGCCATGTCCCAGACATGGTCTTACAGTGATTATCATTATCGAGGCCGATGCATGTCCCAAA
1 CGATGCCATGTCCCAGACATGGTCTTACAGTGATTATCATTATCGAGGCCGATGCATGTCCCAAA
36389928 CACGTCTTACTCTCGCACTCGTATCAATGC
66 CACGTCTTACTCTCGCACTCGTATCAATGC
36389958 CGATGCCATGTCCCAGACATGGTCTTACA
1 CGATGCCATGTCCCAGACATGGTCTTACA
36389987 CTGGCTCTCA
Statistics
Matches: 124, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
95 124 1.00
ACGTcount: A:0.24, C:0.30, G:0.19, T:0.27
Consensus pattern (95 bp):
CGATGCCATGTCCCAGACATGGTCTTACAGTGATTATCATTATCGAGGCCGATGCATGTCCCAAA
CACGTCTTACTCTCGCACTCGTATCAATGC
Found at i:36390015 original size:47 final size:47
Alignment explanation
Indices: 36389719--36390031 Score: 151
Period size: 47 Copynumber: 6.6 Consensus size: 47
36389709 GGGGTAAGGT
* * * * ***
36389719 GCCGATGCTATGTCCCGGACATAGTCTTACACTGGCTCACAT-CTCAA
1 GCCGATGC-ATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGTG
* * ** * * *
36389766 GTCGATGCCATGTCCCAGACATGGTCTTACAGTGATTATCATTATCGAG
1 GCCGATG-CATGTCCCAGACATGGTCTTACACTGGCTCTCATAAT-GTG
* * * * *
36389815 GCCGATGCATGTCCCAAACA-CGTCTTACTCTCGCACTCGTATCAA--T-
1 GCCGATGCATGTCCCAGACATGGTCTTACACTGGCTCTC--AT-AATGTG
* ** * * *
36389861 GCCGATGCCATGTCCCAGACATGGTCTTACAGTGATTATCATTATCGAG
1 GCCGATG-CATGTCCCAGACATGGTCTTACACTGGCTCTCATAAT-GTG
* * * * *
36389910 GCCGATGCATGTCCCAAACA-CGTCTTACTCTCGCACTCGTATCAA--T-
1 GCCGATGCATGTCCCAGACATGGTCTTACACTGGCTCTC--AT-AATGTG
36389956 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGTG
1 GCCGATG-CATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGTG
* **
36390004 GCCGACGCATGTCTTAGACAT-GTCTTAC
1 GCCGATGCATGTCCCAGACATGGTCTTAC
36390032 TCTAGCTCAC
Statistics
Matches: 193, Mismatches: 53, Indels: 41
0.67 0.18 0.14
Matches are distributed among these distances:
45 3 0.02
46 25 0.13
47 89 0.46
48 56 0.29
49 18 0.09
50 2 0.01
ACGTcount: A:0.23, C:0.29, G:0.20, T:0.27
Consensus pattern (47 bp):
GCCGATGCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGTG
Found at i:36390418 original size:30 final size:30
Alignment explanation
Indices: 36390377--36390439 Score: 99
Period size: 30 Copynumber: 2.1 Consensus size: 30
36390367 AATTTCACAT
* *
36390377 CTTTGGTAAAATGACCATTTTGCCCCTAGA
1 CTTTGGCAAAATGACCATTTTACCCCTAGA
*
36390407 CTTTGGCAAAATGACCATTTTACCCCTATA
1 CTTTGGCAAAATGACCATTTTACCCCTAGA
36390437 CTT
1 CTT
36390440 GACATTCGAT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.27, C:0.25, G:0.13, T:0.35
Consensus pattern (30 bp):
CTTTGGCAAAATGACCATTTTACCCCTAGA
Found at i:36392542 original size:48 final size:47
Alignment explanation
Indices: 36392466--36392646 Score: 179
Period size: 48 Copynumber: 3.9 Consensus size: 47
36392456 TGAATTATCA
* * * * *
36392466 ATGCTATGTCCTAGACATGGTCTTACACTGGCTCATATGTCGAGGCCG
1 ATGCCATGTCC-AAACATGGTCTTACACTGGCTCACATGTCAACGCCG
* * * **
36392514 ATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCATCTCAATACCG
1 ATGCCATGT-CCAAACATGGTCTTACACTGGCTCACATGTCAACGCCG
* * * * * *
36392562 AGGCCATGT-CTAACATGGTCTTACGCTGTCTCACA-ATCAACGCTG
1 ATGCCATGTCCAAACATGGTCTTACACTGGCTCACATGTCAACGCCG
36392607 ATGCCATGTCC-AACATGGTCTTACACTGGCTCACATGTCA
1 ATGCCATGTCCAAACATGGTCTTACACTGGCTCACATGTCA
36392647 CCCAAATGTC
Statistics
Matches: 107, Mismatches: 23, Indels: 8
0.78 0.17 0.06
Matches are distributed among these distances:
45 36 0.34
46 25 0.23
48 44 0.41
49 2 0.02
ACGTcount: A:0.24, C:0.29, G:0.19, T:0.28
Consensus pattern (47 bp):
ATGCCATGTCCAAACATGGTCTTACACTGGCTCACATGTCAACGCCG
Found at i:36399015 original size:48 final size:48
Alignment explanation
Indices: 36398941--36399068 Score: 170
Period size: 48 Copynumber: 2.7 Consensus size: 48
36398931 GGGTGAATTA
* * *
36398941 CCGATGCCATGTCCCAGACATCGTCTTACACTGGCTTACATGTCGAGG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTTACATCTCAAGG
* * * *
36398989 CCGATGCGATGTCCCAGACATGGTCTTACACTAGCTTTCATCTCAATG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTTACATCTCAAGG
*
36399037 CCGAGGCCATGT-CCA-ACATGGTCTTACACTGG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGG
36399069 TTCATATGTC
Statistics
Matches: 70, Mismatches: 10, Indels: 2
0.85 0.12 0.02
Matches are distributed among these distances:
46 16 0.23
47 3 0.04
48 51 0.73
ACGTcount: A:0.22, C:0.30, G:0.22, T:0.26
Consensus pattern (48 bp):
CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTTACATCTCAAGG
Found at i:36399320 original size:19 final size:19
Alignment explanation
Indices: 36399296--36399333 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
36399286 CACATAATTG
*
36399296 TTATTAGCATTTGGCATCA
1 TTATTAACATTTGGCATCA
36399315 TTATTAACATTTGGCATCA
1 TTATTAACATTTGGCATCA
36399334 CTTTCTCATA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.29, C:0.16, G:0.13, T:0.42
Consensus pattern (19 bp):
TTATTAACATTTGGCATCA
Found at i:36400165 original size:49 final size:49
Alignment explanation
Indices: 36400109--36400208 Score: 191
Period size: 49 Copynumber: 2.0 Consensus size: 49
36400099 TTGGTGGATA
36400109 AGAAGGAATGAAAAAGATGAAGTCCCTTGTTTTATTTTAATCTCAAAAT
1 AGAAGGAATGAAAAAGATGAAGTCCCTTGTTTTATTTTAATCTCAAAAT
*
36400158 AGAAGGAATGAAAAAGATGAAGTCCTTTGTTTTATTTTAATCTCAAAAT
1 AGAAGGAATGAAAAAGATGAAGTCCCTTGTTTTATTTTAATCTCAAAAT
36400207 AG
1 AG
36400209 GTCACCAACT
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
49 50 1.00
ACGTcount: A:0.41, C:0.09, G:0.17, T:0.33
Consensus pattern (49 bp):
AGAAGGAATGAAAAAGATGAAGTCCCTTGTTTTATTTTAATCTCAAAAT
Found at i:36401694 original size:29 final size:29
Alignment explanation
Indices: 36401650--36401708 Score: 100
Period size: 29 Copynumber: 2.0 Consensus size: 29
36401640 TCCAACTACC
*
36401650 ATAGGAGCGGCCGAATTTATCTTAAGAAA
1 ATAGGAGCAGCCGAATTTATCTTAAGAAA
*
36401679 ATAGGAGCAGCGGAATTTATCTTAAGAAA
1 ATAGGAGCAGCCGAATTTATCTTAAGAAA
36401708 A
1 A
36401709 CTATGTTTCA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.41, C:0.12, G:0.24, T:0.24
Consensus pattern (29 bp):
ATAGGAGCAGCCGAATTTATCTTAAGAAA
Found at i:36414089 original size:45 final size:46
Alignment explanation
Indices: 36414014--36414129 Score: 193
Period size: 46 Copynumber: 2.6 Consensus size: 46
36414004 TACGTATGAT
* *
36414014 CACTTATCAC-TTGTCAC-TAATCAGATAAGTGTAGCT-AGGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
36414057 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
36414103 CACTTATCACTTTGTCACTTGATCAGA
1 CACTTATCACTTTGTCACTTGATCAGA
36414130 AGTACTCAAA
Statistics
Matches: 68, Mismatches: 2, Indels: 3
0.93 0.03 0.04
Matches are distributed among these distances:
43 10 0.15
44 7 0.10
45 18 0.26
46 33 0.49
ACGTcount: A:0.29, C:0.23, G:0.15, T:0.33
Consensus pattern (46 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
Found at i:36416514 original size:40 final size:40
Alignment explanation
Indices: 36416455--36416671 Score: 332
Period size: 40 Copynumber: 5.5 Consensus size: 40
36416445 GGATTGATAA
36416455 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
36416494 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
36416534 TCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * *
36416574 CCGGGCCAAGTCCCGAAGGCAATTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
36416614 CCGGGCTAAGTCCCGAAGGCATTTGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
**
36416654 CC-GGCTAAACCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
36416672 TACTTGGTTT
Statistics
Matches: 165, Mismatches: 11, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
39 26 0.16
40 139 0.84
ACGTcount: A:0.25, C:0.24, G:0.28, T:0.23
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:36423876 original size:40 final size:40
Alignment explanation
Indices: 36423817--36424033 Score: 305
Period size: 40 Copynumber: 5.5 Consensus size: 40
36423807 GGATTGATAA
* *
36423817 CCGGGCTAAG-CCCGAAGGCATTTCTGGGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
36423856 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
36423896 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * * *
36423936 CCGGGCCAAGTCCCGAAGGCAATTGTGCAAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
36423976 CCGGGCTAAGTCCCGAAGGCATTTGAGTGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
**
36424016 CC-GGCTAAACCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
36424034 TACTTGGTTT
Statistics
Matches: 162, Mismatches: 14, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
39 26 0.16
40 136 0.84
ACGTcount: A:0.25, C:0.24, G:0.28, T:0.23
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:36433939 original size:84 final size:84
Alignment explanation
Indices: 36433836--36434000 Score: 312
Period size: 84 Copynumber: 2.0 Consensus size: 84
36433826 ACTAAACTTT
36433836 CCAAAAATTCCACCCATGTCCAATTTTTGTCCATAGACTTAGAAATTGGTCAAATTGCTATTTAA
1 CCAAAAATTCCACCCATGTCCAATTTTTGTCCATAGACTTAGAAATTGGTCAAATTGCTATTTAA
*
36433901 GACCTCCTGATTAATATTC
66 AACCTCCTGATTAATATTC
*
36433920 CCAAAAATTCCATCCATGTCCAATTTTTGTCCATAGACTTAGAAATTGGTCAAATTGCTATTTAA
1 CCAAAAATTCCACCCATGTCCAATTTTTGTCCATAGACTTAGAAATTGGTCAAATTGCTATTTAA
36433985 AACCTCCTGATTAATA
66 AACCTCCTGATTAATA
36434001 GTTCAAAACA
Statistics
Matches: 79, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
84 79 1.00
ACGTcount: A:0.33, C:0.22, G:0.10, T:0.35
Consensus pattern (84 bp):
CCAAAAATTCCACCCATGTCCAATTTTTGTCCATAGACTTAGAAATTGGTCAAATTGCTATTTAA
AACCTCCTGATTAATATTC
Found at i:36438682 original size:21 final size:21
Alignment explanation
Indices: 36438658--36438699 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
36438648 TCATCAGATC
*
36438658 TACACCTTGAGGCATCGGGGG
1 TACACCTTGAGGAATCGGGGG
**
36438679 TACAGGTTGAGGAATCGGGGG
1 TACACCTTGAGGAATCGGGGG
36438700 AGGTGGGGGA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.21, C:0.17, G:0.43, T:0.19
Consensus pattern (21 bp):
TACACCTTGAGGAATCGGGGG
Found at i:36446577 original size:27 final size:27
Alignment explanation
Indices: 36446543--36446742 Score: 190
Period size: 27 Copynumber: 7.4 Consensus size: 27
36446533 TGGATAAGTT
* *
36446543 GTAGAATTACTGAAATACTCCTGTAAG
1 GTAGAATTACCGAAATACCCCTGTAAG
* *
36446570 GTAGAATTACCGAAATTCCCCTGTACG
1 GTAGAATTACCGAAATACCCCTGTAAG
** * *
36446597 GTAGAATTATTGAAATACGCCTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAAG
* * *
36446624 GTAGAATTATCAAAATACCCCTCT-AG
1 GTAGAATTACCGAAATACCCCTGTAAG
* *
36446650 GATAGAATTACCGAAATACCCTTGTAGG
1 G-TAGAATTACCGAAATACCCCTGTAAG
36446678 GTAGGAA-TACCGAAATACCCCTGT-AG
1 GTA-GAATTACCGAAATACCCCTGTAAG
* * **
36446704 TGTAGAATTACCGAGATACCCTTGTGGG
1 -GTAGAATTACCGAAATACCCCTGTAAG
*
36446732 GTAAAATTACC
1 GTAGAATTACC
36446743 ATTTTGCCCA
Statistics
Matches: 142, Mismatches: 25, Indels: 12
0.79 0.14 0.07
Matches are distributed among these distances:
26 6 0.04
27 130 0.92
28 6 0.04
ACGTcount: A:0.34, C:0.19, G:0.20, T:0.27
Consensus pattern (27 bp):
GTAGAATTACCGAAATACCCCTGTAAG
Found at i:36446627 original size:54 final size:52
Alignment explanation
Indices: 36446543--36446742 Score: 222
Period size: 54 Copynumber: 3.7 Consensus size: 52
36446533 TGGATAAGTT
* *
36446543 GTAGAATTACTGAAATACTCCTGTAAGGTAGAATTACCGAAATTCCCCTGTACG
1 GTAGAATTACTGAAATAC-CCTGTAGGGTAGAATTACCGAAATACCCCTGTA-G
* * * *
36446597 GTAGAATTATTGAAATACGCCTGTAGGGTAGAATTATCAAAATACCCCTCTAG
1 GTAGAATTACTGAAATAC-CCTGTAGGGTAGAATTACCGAAATACCCCTGTAG
*
36446650 GATAGAATTACCGAAATACCCTTGTAGGGTAGGAA-TACCGAAATACCCCTGTAG
1 G-TAGAATTACTGAAATACCC-TGTAGGGTA-GAATTACCGAAATACCCCTGTAG
* * * *
36446704 TGTAGAATTACCGAGATACCCTTGTGGGGTAAAATTACC
1 -GTAGAATTACTGAAATACCC-TGTAGGGTAGAATTACC
36446743 ATTTTGCCCA
Statistics
Matches: 126, Mismatches: 15, Indels: 10
0.83 0.10 0.07
Matches are distributed among these distances:
53 6 0.05
54 116 0.92
55 4 0.03
ACGTcount: A:0.34, C:0.19, G:0.20, T:0.27
Consensus pattern (52 bp):
GTAGAATTACTGAAATACCCTGTAGGGTAGAATTACCGAAATACCCCTGTAG
Found at i:36446723 original size:81 final size:81
Alignment explanation
Indices: 36446542--36446724 Score: 217
Period size: 81 Copynumber: 2.3 Consensus size: 81
36446532 GTGGATAAGT
* * * * *
36446542 TGTAGAATTACTGAAATACTCCTGTAAGGTAGAATTACCGAAATTCCCCTGTACGGTAGAATTAT
1 TGTAGAATTACCGAAATACCCCTCTAAGGTAGAATTACCGAAATACCCCTGTACGGTAGAATTAC
* *
36446607 TGAAATACGCCTGTAG
66 CGAAATACCCCTGTAG
* * * * *
36446623 GGTAGAATTATCAAAATACCCCTCT-AGGATAGAATTACCGAAATACCCTTGTAGGGTAGGAA-T
1 TGTAGAATTACCGAAATACCCCTCTAAGG-TAGAATTACCGAAATACCCCTGTACGGTA-GAATT
36446686 ACCGAAATACCCCTGTAG
64 ACCGAAATACCCCTGTAG
*
36446704 TGTAGAATTACCGAGATACCC
1 TGTAGAATTACCGAAATACCC
36446725 TTGTGGGGTA
Statistics
Matches: 84, Mismatches: 16, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
80 3 0.04
81 78 0.93
82 3 0.04
ACGTcount: A:0.34, C:0.20, G:0.20, T:0.26
Consensus pattern (81 bp):
TGTAGAATTACCGAAATACCCCTCTAAGGTAGAATTACCGAAATACCCCTGTACGGTAGAATTAC
CGAAATACCCCTGTAG
Found at i:36447510 original size:33 final size:32
Alignment explanation
Indices: 36447461--36447524 Score: 83
Period size: 33 Copynumber: 2.0 Consensus size: 32
36447451 CTCGCTGCAA
* *
36447461 TTTGGTGGCTTCGCCACATATATATATATCTGT
1 TTTGGTGGCCTAGCCACA-ATATATATATCTGT
* *
36447494 TTTGGTGGCCTAGCCACAATATCTGTATCTG
1 TTTGGTGGCCTAGCCACAATATATATATCTG
36447525 GTGACTTCGT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
32 11 0.41
33 16 0.59
ACGTcount: A:0.20, C:0.20, G:0.20, T:0.39
Consensus pattern (32 bp):
TTTGGTGGCCTAGCCACAATATATATATCTGT
Found at i:36450121 original size:13 final size:13
Alignment explanation
Indices: 36450105--36450137 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
36450095 TTTAATTAAA
*
36450105 TTAGTTAATTAGT
1 TTAGATAATTAGT
36450118 TTAGATAATTAGT
1 TTAGATAATTAGT
36450131 TTA-ATAA
1 TTAGATAA
36450138 ACAAACCCTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.39, C:0.00, G:0.12, T:0.48
Consensus pattern (13 bp):
TTAGATAATTAGT
Found at i:36451191 original size:28 final size:27
Alignment explanation
Indices: 36451115--36451198 Score: 114
Period size: 27 Copynumber: 3.1 Consensus size: 27
36451105 ATGGCTGCCA
** *
36451115 AAACAGATATTGTGATAGAGTCACCAG
1 AAACAGATATTGTGGCAGAGCCACCAG
* *
36451142 ATACAGATATTGTGGCAGAGCCACCGG
1 AAACAGATATTGTGGCAGAGCCACCAG
36451169 AAACAGATATTTGTGGCAGAGCCACCAG
1 AAACAGATA-TTGTGGCAGAGCCACCAG
36451197 AA
1 AA
36451199 CACTTCCTCC
Statistics
Matches: 49, Mismatches: 7, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
27 30 0.61
28 19 0.39
ACGTcount: A:0.37, C:0.19, G:0.25, T:0.19
Consensus pattern (27 bp):
AAACAGATATTGTGGCAGAGCCACCAG
Found at i:36455103 original size:28 final size:28
Alignment explanation
Indices: 36455045--36455107 Score: 85
Period size: 28 Copynumber: 2.3 Consensus size: 28
36455035 GTGACAAAGT
*
36455045 CACCA-AATACAGATATTATGGTAGAGC
1 CACCAGAATACAGATATTATGGCAGAGC
*
36455072 CACCAGAA-ACAGATATTTGTGGCAGAGC
1 CACCAGAATACAGATA-TTATGGCAGAGC
36455100 CACCAGAA
1 CACCAGAA
36455108 CGTTTCTTCC
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
27 12 0.38
28 20 0.62
ACGTcount: A:0.40, C:0.22, G:0.21, T:0.17
Consensus pattern (28 bp):
CACCAGAATACAGATATTATGGCAGAGC
Found at i:36455530 original size:8 final size:8
Alignment explanation
Indices: 36455514--36455545 Score: 55
Period size: 8 Copynumber: 4.0 Consensus size: 8
36455504 CACAAAATAC
36455514 CGGCTTTT
1 CGGCTTTT
*
36455522 CGGCATTT
1 CGGCTTTT
36455530 CGGCTTTT
1 CGGCTTTT
36455538 CGGCTTTT
1 CGGCTTTT
36455546 GCCGATCTAG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
8 22 1.00
ACGTcount: A:0.03, C:0.25, G:0.25, T:0.47
Consensus pattern (8 bp):
CGGCTTTT
Found at i:36467999 original size:25 final size:25
Alignment explanation
Indices: 36467961--36468013 Score: 88
Period size: 25 Copynumber: 2.1 Consensus size: 25
36467951 TAGGGTTATT
36467961 GATTTATAGATCGTGAGAGCATACC
1 GATTTATAGATCGTGAGAGCATACC
* *
36467986 GATTTATAGCTCGTGAGAGCATGCC
1 GATTTATAGATCGTGAGAGCATACC
36468011 GAT
1 GAT
36468014 CTTCAGCTCA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.28, C:0.17, G:0.26, T:0.28
Consensus pattern (25 bp):
GATTTATAGATCGTGAGAGCATACC
Found at i:36468021 original size:25 final size:25
Alignment explanation
Indices: 36467961--36468059 Score: 78
Period size: 25 Copynumber: 4.0 Consensus size: 25
36467951 TAGGGTTATT
* *
36467961 GATTTATAGATCGTGAGAGCATACC
1 GATTTACAGCTCGTGAGAGCATACC
* *
36467986 GATTTATAGCTCGTGAGAGCATGCC
1 GATTTACAGCTCGTGAGAGCATACC
**
36468011 GATCTT-CAGCTC-AAATGAGCATACC
1 GAT-TTACAGCTCGTGA-GAGCATACC
* *
36468036 AATTCACAGCTCGT-ATGAGCATAC
1 GATTTACAGCTCGTGA-GAGCATAC
36468060 ATATTCATGA
Statistics
Matches: 61, Mismatches: 9, Indels: 8
0.78 0.12 0.10
Matches are distributed among these distances:
24 2 0.03
25 57 0.93
26 2 0.03
ACGTcount: A:0.30, C:0.22, G:0.21, T:0.26
Consensus pattern (25 bp):
GATTTACAGCTCGTGAGAGCATACC
Found at i:36470359 original size:11 final size:11
Alignment explanation
Indices: 36470343--36470376 Score: 68
Period size: 11 Copynumber: 3.1 Consensus size: 11
36470333 TAGTCATGTA
36470343 CCTTAAACGTG
1 CCTTAAACGTG
36470354 CCTTAAACGTG
1 CCTTAAACGTG
36470365 CCTTAAACGTG
1 CCTTAAACGTG
36470376 C
1 C
36470377 GGTGTCGTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 23 1.00
ACGTcount: A:0.26, C:0.29, G:0.18, T:0.26
Consensus pattern (11 bp):
CCTTAAACGTG
Found at i:36478949 original size:23 final size:23
Alignment explanation
Indices: 36478923--36478969 Score: 76
Period size: 23 Copynumber: 2.0 Consensus size: 23
36478913 AAAATTGCGG
* *
36478923 TTGATGACAAATCCGATTGGGTT
1 TTGATAACAAATCCAATTGGGTT
36478946 TTGATAACAAATCCAATTGGGTT
1 TTGATAACAAATCCAATTGGGTT
36478969 T
1 T
36478970 ACTTTATCAT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.30, C:0.13, G:0.21, T:0.36
Consensus pattern (23 bp):
TTGATAACAAATCCAATTGGGTT
Found at i:36483448 original size:27 final size:27
Alignment explanation
Indices: 36483379--36483449 Score: 72
Period size: 29 Copynumber: 2.5 Consensus size: 27
36483369 TGCATGAATT
*
36483379 TATAATATATATATGGGATTTGTTTTATA
1 TATAATATATATATGGG--TTGTTATATA
*
36483408 TACAATATAAATATATTGGG-TGTTATATA
1 TATAATAT--ATATA-TGGGTTGTTATATA
36483437 TATAATATATATA
1 TATAATATATATA
36483450 AATGTGGGGA
Statistics
Matches: 36, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
27 5 0.14
29 22 0.61
31 5 0.14
32 4 0.11
ACGTcount: A:0.41, C:0.01, G:0.11, T:0.46
Consensus pattern (27 bp):
TATAATATATATATGGGTTGTTATATA
Found at i:36486545 original size:43 final size:43
Alignment explanation
Indices: 36486464--36486545 Score: 128
Period size: 43 Copynumber: 1.9 Consensus size: 43
36486454 ATTCGAAGAG
* * *
36486464 AGGGGAATGTGGTTGTTGATTGGATAGGTATAACTTGTCTGAA
1 AGGGGAATGTGGTTGTTAATTGGATAGCTAGAACTTGTCTGAA
*
36486507 AGGGGAATGTGGTTGTTAATTGGATAGCTAGAATTTGTC
1 AGGGGAATGTGGTTGTTAATTGGATAGCTAGAACTTGTC
36486546 CGAGAGGAAA
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
43 35 1.00
ACGTcount: A:0.26, C:0.05, G:0.34, T:0.35
Consensus pattern (43 bp):
AGGGGAATGTGGTTGTTAATTGGATAGCTAGAACTTGTCTGAA
Found at i:36492610 original size:25 final size:24
Alignment explanation
Indices: 36492576--36492662 Score: 77
Period size: 25 Copynumber: 3.5 Consensus size: 24
36492566 TACCGATTTT
* *
36492576 AGCTCTTATGAGCTTATCGTTACTC
1 AGCTCGTATGAGCTTACCGTTA-TC
* *
36492601 AGCTCGTATGAGATTACCATTATTC
1 AGCTCGTATGAGCTTACCGTTA-TC
* * *
36492626 AGCTCGGAGGAGTTTACCGTT-TAC
1 AGCTCGTATGAGCTTACCGTTAT-C
36492650 AGCTCGTATGAGC
1 AGCTCGTATGAGC
36492663 ATATGTATAC
Statistics
Matches: 49, Mismatches: 12, Indels: 3
0.77 0.19 0.05
Matches are distributed among these distances:
23 1 0.02
24 11 0.22
25 37 0.76
ACGTcount: A:0.23, C:0.22, G:0.22, T:0.33
Consensus pattern (24 bp):
AGCTCGTATGAGCTTACCGTTATC
Found at i:36507812 original size:17 final size:17
Alignment explanation
Indices: 36507790--36507824 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
36507780 TATATATTAG
*
36507790 TGTATATATTTTTTATA
1 TGTATATATTTTTAATA
*
36507807 TGTATATGTTTTTAATA
1 TGTATATATTTTTAATA
36507824 T
1 T
36507825 ATTTATGTAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.29, C:0.00, G:0.09, T:0.63
Consensus pattern (17 bp):
TGTATATATTTTTAATA
Found at i:36507929 original size:30 final size:30
Alignment explanation
Indices: 36507874--36507948 Score: 82
Period size: 30 Copynumber: 2.5 Consensus size: 30
36507864 TTTATCCCTA
*
36507874 ATAT-TTATGTATTATGTAAATA-TTTTAAT
1 ATATATTATGTA-TATCTAAATATTTTTAAT
* **
36507903 ATTATATTATGTATATCTATATATTTTTCGT
1 A-TATATTATGTATATCTAAATATTTTTAAT
36507934 ATATATTATGTATAT
1 ATATATTATGTATAT
36507949 ATGTTTTCAA
Statistics
Matches: 39, Mismatches: 4, Indels: 5
0.81 0.08 0.10
Matches are distributed among these distances:
29 1 0.03
30 25 0.64
31 13 0.33
ACGTcount: A:0.35, C:0.03, G:0.07, T:0.56
Consensus pattern (30 bp):
ATATATTATGTATATCTAAATATTTTTAAT
Found at i:36507961 original size:24 final size:25
Alignment explanation
Indices: 36507920--36507975 Score: 64
Period size: 24 Copynumber: 2.3 Consensus size: 25
36507910 TATGTATATC
*
36507920 TATATATTTTTCGTATATAT-TATG-
1 TATATATTTTTCGAATAT-TGTATGT
36507944 TATATATGTTTTC-AATATTGTATGT
1 TATATAT-TTTTCGAATATTGTATGT
36507969 TATATAT
1 TATATAT
36507976 ATTATTGTGT
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
23 1 0.04
24 15 0.54
25 12 0.43
ACGTcount: A:0.30, C:0.04, G:0.09, T:0.57
Consensus pattern (25 bp):
TATATATTTTTCGAATATTGTATGT
Found at i:36508056 original size:19 final size:19
Alignment explanation
Indices: 36508032--36508068 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
36508022 CTATTTTATA
*
36508032 TATATTTCTAATATCATTG
1 TATATTTCTAACATCATTG
36508051 TATATTTCTAACATCATT
1 TATATTTCTAACATCATT
36508069 ATTATTTATA
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:0.32, C:0.14, G:0.03, T:0.51
Consensus pattern (19 bp):
TATATTTCTAACATCATTG
Found at i:36509543 original size:46 final size:46
Alignment explanation
Indices: 36509493--36509662 Score: 188
Period size: 46 Copynumber: 3.7 Consensus size: 46
36509483 TTGAGCATCT
36509493 GAACTCGTTGAGTTGAGTCCGAGTTCACTTAAGGATGCGAATGTCC
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTAAGGATGCGAATGTCC
* * *
36509539 GAACTCGTTGAGTTGAGTCCGAGTTC-GTGAA--ATG-TAACTAGGCATCC
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTAAGGATGCGAA-T--G--TCC
* * *
36509586 GAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAACG-CC
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTAAGGATGCGAATGTCC
*
36509631 TGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 -GAACTCGTTGAGTTGAGTCCGAGTTCACTTA
36509663 GGGGCGGGTT
Statistics
Matches: 103, Mismatches: 11, Indels: 20
0.77 0.08 0.15
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 6 0.06
46 55 0.53
47 28 0.27
48 3 0.03
50 3 0.03
51 2 0.02
ACGTcount: A:0.23, C:0.19, G:0.28, T:0.29
Consensus pattern (46 bp):
GAACTCGTTGAGTTGAGTCCGAGTTCACTTAAGGATGCGAATGTCC
Found at i:36509646 original size:93 final size:93
Alignment explanation
Indices: 36509487--36509657 Score: 281
Period size: 93 Copynumber: 1.8 Consensus size: 93
36509477 GGATGGTTGA
* *
36509487 GCATCTGAACTCGTTGAGTTGAGTCCGAGTTCACTTAAGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTAAGGATGCGAACGTCCGAACTCGTTGAGT
36509552 TGAGTCCGAGTTCGTGAAATGTAACTAG
66 TGAGTCCGAGTTCGTGAAATGTAACTAG
* * *
36509580 GCATCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAACG-CCTGAGCTCGTTGAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTAAGGATGCGAACGTCC-GAACTCGTTGAG
36509644 TTGAGTCCGAGTTC
65 TTGAGTCCGAGTTC
36509658 ACTTAGGGGC
Statistics
Matches: 72, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
92 2 0.03
93 70 0.97
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTAAGGATGCGAACGTCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAAATGTAACTAG
Found at i:36516656 original size:37 final size:37
Alignment explanation
Indices: 36516601--36516672 Score: 135
Period size: 37 Copynumber: 1.9 Consensus size: 37
36516591 GCTGATATAT
*
36516601 TGAGCTTAAAGTATGAGTCGGAATCAGACCGAGGCCA
1 TGAGCTTAAAGTACGAGTCGGAATCAGACCGAGGCCA
36516638 TGAGCTTAAAGTACGAGTCGGAATCAGACCGAGGC
1 TGAGCTTAAAGTACGAGTCGGAATCAGACCGAGGC
36516673 TGAAGCTTAG
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 34 1.00
ACGTcount: A:0.32, C:0.19, G:0.31, T:0.18
Consensus pattern (37 bp):
TGAGCTTAAAGTACGAGTCGGAATCAGACCGAGGCCA
Found at i:36528878 original size:25 final size:23
Alignment explanation
Indices: 36528826--36528880 Score: 58
Period size: 25 Copynumber: 2.3 Consensus size: 23
36528816 TATAAATAGT
36528826 AATAGTGTTAGAAATATACTATA
1 AATAGTGTTAGAAATATACTATA
* *
36528849 TATAGTGTTTGAAGTATATAC-ATAA
1 AATAGTGTTAGAA--ATATACTAT-A
36528874 AATAGTG
1 AATAGTG
36528881 AAAATATAAC
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
23 11 0.42
24 2 0.08
25 13 0.50
ACGTcount: A:0.44, C:0.04, G:0.16, T:0.36
Consensus pattern (23 bp):
AATAGTGTTAGAAATATACTATA
Found at i:36530494 original size:93 final size:93
Alignment explanation
Indices: 36530382--36530552 Score: 281
Period size: 93 Copynumber: 1.8 Consensus size: 93
36530372 GCCCCTAAGT
*
36530382 GAACTCGGACTCAACTCAACGAGCTCAGG-CGTTCGCATCCATAAGTGAACTCAGACTCAACTCA
1 GAACTCGGACTCAACTCAACGAGCTC-GGACATTCGCATCCATAAGTGAACTCAGACTCAACTCA
*
36530446 ACGAGTTCGGATGCCTAGTTACATTTCAC
65 ACGAGTTCAGATGCCTAGTTACATTTCAC
* * *
36530475 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCTTAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCAA
36530540 CGAGTTCAGATGC
66 CGAGTTCAGATGC
36530553 TCAACCATCC
Statistics
Matches: 72, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
92 2 0.03
93 70 0.97
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCAA
CGAGTTCAGATGCCTAGTTACATTTCAC
Found at i:36530542 original size:46 final size:46
Alignment explanation
Indices: 36530377--36530546 Score: 188
Period size: 46 Copynumber: 3.7 Consensus size: 46
36530367 AACCCGCCCC
* * *
36530377 TAAGTGAACTCGGACTCAACTCAACGAGCTCAGG-CGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTC-GGACATTCGCATCCT
* *
36530423 TAAGTGAACTCAGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT--T
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCATCCT
* *
36530471 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCT
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCT
36530516 TAAGTGAACTCGGACTCAACTCAACGAGTTC
1 TAAGTGAACTCGGACTCAACTCAACGAGTTC
36530547 AGATGCTCAA
Statistics
Matches: 103, Mismatches: 11, Indels: 20
0.77 0.08 0.15
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 1 0.01
45 5 0.05
46 55 0.53
47 28 0.27
48 2 0.02
49 1 0.01
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.28, G:0.19, T:0.23
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCT
Found at i:36531995 original size:19 final size:19
Alignment explanation
Indices: 36531971--36532007 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
36531961 TATAAATAAT
*
36531971 AATGATGTTAGAAATATAC
1 AATGATATTAGAAATATAC
36531990 AATGATATTAGAAATATA
1 AATGATATTAGAAATATA
36532008 TATAAAATAG
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:0.51, C:0.03, G:0.14, T:0.32
Consensus pattern (19 bp):
AATGATATTAGAAATATAC
Found at i:36532105 original size:24 final size:24
Alignment explanation
Indices: 36532064--36532119 Score: 62
Period size: 24 Copynumber: 2.3 Consensus size: 24
36532054 ACACAATAAT
*
36532064 ATATATAACATACAATAT-TGAAAA
1 ATATAT-ACATACAATATACGAAAA
36532088 CATATATACATA-ATATATACGAAAA
1 -ATATATACATACA-ATATACGAAAA
36532113 ATATATA
1 ATATATA
36532120 GATATACATA
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
23 1 0.04
24 16 0.57
25 11 0.39
ACGTcount: A:0.57, C:0.09, G:0.04, T:0.30
Consensus pattern (24 bp):
ATATATACATACAATATACGAAAA
Found at i:36532144 original size:30 final size:30
Alignment explanation
Indices: 36532091--36532165 Score: 82
Period size: 30 Copynumber: 2.5 Consensus size: 30
36532081 TTGAAAACAT
*
36532091 ATATACATAATATATACGAAAAATATATAG
1 ATATACATAATATATACGAAAAATATATAC
** *
36532121 ATATACATAATATAATA-TTAAAATATTTAC
1 ATATACATAATAT-ATACGAAAAATATATAC
36532151 ATAATACATAA-ATAT
1 AT-ATACATAATATAT
36532166 TAGGGATAAA
Statistics
Matches: 39, Mismatches: 4, Indels: 5
0.81 0.08 0.10
Matches are distributed among these distances:
29 2 0.05
30 26 0.67
31 11 0.28
ACGTcount: A:0.56, C:0.07, G:0.03, T:0.35
Consensus pattern (30 bp):
ATATACATAATATATACGAAAAATATATAC
Found at i:36532235 original size:17 final size:17
Alignment explanation
Indices: 36532215--36532249 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
36532205 ATACATAAAT
*
36532215 ATATTAAAAACATATAC
1 ATATAAAAAACATATAC
*
36532232 ATATAAAAAATATATAC
1 ATATAAAAAACATATAC
36532249 A
1 A
36532250 CTAATATATA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.63, C:0.09, G:0.00, T:0.29
Consensus pattern (17 bp):
ATATAAAAAACATATAC
Found at i:36540245 original size:21 final size:21
Alignment explanation
Indices: 36540220--36540259 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
36540210 ATATATAATA
*
36540220 AAAGAAAATTAAAGAATATGC
1 AAAGAAAATAAAAGAATATGC
* *
36540241 AAAGATAATAAAAGTATAT
1 AAAGAAAATAAAAGAATAT
36540260 AATAATTTTA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.62, C:0.03, G:0.12, T:0.23
Consensus pattern (21 bp):
AAAGAAAATAAAAGAATATGC
Found at i:36542826 original size:17 final size:17
Alignment explanation
Indices: 36542804--36542844 Score: 82
Period size: 17 Copynumber: 2.4 Consensus size: 17
36542794 ACTATAATGG
36542804 CAAAAGAATGAAGAGTA
1 CAAAAGAATGAAGAGTA
36542821 CAAAAGAATGAAGAGTA
1 CAAAAGAATGAAGAGTA
36542838 CAAAAGA
1 CAAAAGA
36542845 TGCAGATTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 24 1.00
ACGTcount: A:0.61, C:0.07, G:0.22, T:0.10
Consensus pattern (17 bp):
CAAAAGAATGAAGAGTA
Found at i:36544037 original size:26 final size:26
Alignment explanation
Indices: 36544008--36544059 Score: 95
Period size: 26 Copynumber: 2.0 Consensus size: 26
36543998 ACCAAGAGGC
36544008 TATAAAAGCAAAATTTTTTTTGTGAA
1 TATAAAAGCAAAATTTTTTTTGTGAA
*
36544034 TATAAAAGCAAATTTTTTTTTGTGAA
1 TATAAAAGCAAAATTTTTTTTGTGAA
36544060 ATTATCATTT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.40, C:0.04, G:0.12, T:0.44
Consensus pattern (26 bp):
TATAAAAGCAAAATTTTTTTTGTGAA
Found at i:36550141 original size:22 final size:22
Alignment explanation
Indices: 36550116--36550159 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
36550106 AAACATAACT
36550116 TAAACTTAAATAGTGTACAAAA
1 TAAACTTAAATAGTGTACAAAA
*
36550138 TAAACTTAAATAGTTTACAAAA
1 TAAACTTAAATAGTGTACAAAA
36550160 GTGTTTGAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.55, C:0.09, G:0.07, T:0.30
Consensus pattern (22 bp):
TAAACTTAAATAGTGTACAAAA
Found at i:36550215 original size:20 final size:20
Alignment explanation
Indices: 36550179--36550219 Score: 66
Period size: 20 Copynumber: 2.0 Consensus size: 20
36550169 AAGTTATAAG
36550179 TTAATTGAATTTGAATAAAA
1 TTAATTGAATTTGAATAAAA
36550199 TTAATCTGAATTT-AATAAAA
1 TTAAT-TGAATTTGAATAAAA
36550219 T
1 T
36550220 CCACTTACTT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
20 13 0.65
21 7 0.35
ACGTcount: A:0.49, C:0.02, G:0.07, T:0.41
Consensus pattern (20 bp):
TTAATTGAATTTGAATAAAA
Found at i:36551733 original size:19 final size:19
Alignment explanation
Indices: 36551709--36551746 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
36551699 GAAAATTATT
*
36551709 TATTTAGAATATAA-AAATA
1 TATTTAAAAT-TAATAAATA
36551728 TATTTAAAATTAATAAATA
1 TATTTAAAATTAATAAATA
36551747 ATAAATAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 3 0.18
19 14 0.82
ACGTcount: A:0.58, C:0.00, G:0.03, T:0.39
Consensus pattern (19 bp):
TATTTAAAATTAATAAATA
Found at i:36551798 original size:36 final size:36
Alignment explanation
Indices: 36551719--36551786 Score: 104
Period size: 36 Copynumber: 1.9 Consensus size: 36
36551709 TATTTAGAAT
36551719 ATAAAA-ATATATTTAAAATTAATAAATAATAAATA
1 ATAAAATATATATTTAAAATTAATAAATAATAAATA
*
36551754 ATAAAATATATTATTTAAAA-TAATTAATAATAA
1 ATAAAATATA-TATTTAAAATTAATAAATAATAA
36551787 CACATAAAAT
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
35 6 0.20
36 15 0.50
37 9 0.30
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (36 bp):
ATAAAATATATATTTAAAATTAATAAATAATAAATA
Found at i:36554217 original size:21 final size:21
Alignment explanation
Indices: 36554193--36554247 Score: 56
Period size: 21 Copynumber: 2.6 Consensus size: 21
36554183 TGGATATCTT
* *
36554193 ACACGCCTGTGTGGCTAAGGG
1 ACACGCCTGTGTGGCCAAGGC
* * *
36554214 ACACGACTGCGTGTCCAAGGC
1 ACACGCCTGTGTGGCCAAGGC
*
36554235 ACACGCCCGTGTG
1 ACACGCCTGTGTG
36554248 AAAAACAATA
Statistics
Matches: 26, Mismatches: 8, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.20, C:0.31, G:0.33, T:0.16
Consensus pattern (21 bp):
ACACGCCTGTGTGGCCAAGGC
Found at i:36560960 original size:27 final size:27
Alignment explanation
Indices: 36560930--36560997 Score: 91
Period size: 27 Copynumber: 2.5 Consensus size: 27
36560920 ATCCATTTGG
* *
36560930 AGTACGCCACATAGGCGATCCATTCAA
1 AGTACGCCACAAAGGCGATCCATCCAA
* *
36560957 AGTACGCCAAAAAGGTGATCCATCCAA
1 AGTACGCCACAAAGGCGATCCATCCAA
*
36560984 AGTATGCCACAAAG
1 AGTACGCCACAAAG
36560998 ACTATCGGGA
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 35 1.00
ACGTcount: A:0.38, C:0.26, G:0.19, T:0.16
Consensus pattern (27 bp):
AGTACGCCACAAAGGCGATCCATCCAA
Found at i:36562602 original size:217 final size:218
Alignment explanation
Indices: 36562227--36562662 Score: 820
Period size: 217 Copynumber: 2.0 Consensus size: 218
36562217 AGAGAATTAG
*
36562227 ACGGATAACGGTTCACGAAAAAATAATTTTATGACTAGCCGCCAAACCCTCGAACCCGCCAAAAT
1 ACGGATAACGGTTCACGAAAAAATAATTTTATGACTACCCGCCAAACCCTCGAACCCGCCAAAAT
* *
36562292 TGGGGGGTTACGTGATAAGTATATATGAATAATTACATGAAATTGGTAGTGAAGTGTAACCCCCC
66 TGGGGGGTTACGTGATAAGTATATATGAATAATTACATCAAATTGGTAGTGAAGTGTAACACCCC
36562357 AAACCCGACGTAGACGTTATAGCCGAATCTGAAGATATCACATGGAGAGTGTTTAAAAACGAGTT
131 AAACCCGACGTAGACGTTATAGCCGAATCTGAAGATATCACATGGAGAGTGTTTAAAAACGAGTT
36562422 GTCAAATAAAAACTATT-CAGTT
196 GTCAAATAAAAACTATTCCAGTT
36562444 ACGGATAACGGTTCACGAAAAAATAATTTTATGACTACCCGCCAAACCCTCGAACCCGCCAAAAT
1 ACGGATAACGGTTCACGAAAAAATAATTTTATGACTACCCGCCAAACCCTCGAACCCGCCAAAAT
*
36562509 TGGGGTGTTACGTGATAAGTATATATGAATAATTACATCAAATTGGTAGTGAAGTGTAACACCCC
66 TGGGGGGTTACGTGATAAGTATATATGAATAATTACATCAAATTGGTAGTGAAGTGTAACACCCC
*
36562574 AAACCCGACGTAGACGTTATAGCCGAATCTGAAGATATCACATGGAGAGTGTTTAAAAATGAGTT
131 AAACCCGACGTAGACGTTATAGCCGAATCTGAAGATATCACATGGAGAGTGTTTAAAAACGAGTT
36562639 GTCAAATAAAAACTATTCCAGTT
196 GTCAAATAAAAACTATTCCAGTT
36562662 A
1 A
36562663 TTACCTTTTT
Statistics
Matches: 213, Mismatches: 5, Indels: 1
0.97 0.02 0.00
Matches are distributed among these distances:
217 207 0.97
218 6 0.03
ACGTcount: A:0.37, C:0.19, G:0.19, T:0.25
Consensus pattern (218 bp):
ACGGATAACGGTTCACGAAAAAATAATTTTATGACTACCCGCCAAACCCTCGAACCCGCCAAAAT
TGGGGGGTTACGTGATAAGTATATATGAATAATTACATCAAATTGGTAGTGAAGTGTAACACCCC
AAACCCGACGTAGACGTTATAGCCGAATCTGAAGATATCACATGGAGAGTGTTTAAAAACGAGTT
GTCAAATAAAAACTATTCCAGTT
Found at i:36586690 original size:13 final size:13
Alignment explanation
Indices: 36586650--36586689 Score: 55
Period size: 13 Copynumber: 3.1 Consensus size: 13
36586640 GGCAGGATTC
36586650 TGTATATCTATTT
1 TGTATATCTATTT
*
36586663 TGTACATCTGATTT
1 TGTATATCT-ATTT
36586677 TG-ATATCTATTT
1 TGTATATCTATTT
36586689 T
1 T
36586690 TTTTATTGAC
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
12 5 0.21
13 13 0.54
14 6 0.25
ACGTcount: A:0.23, C:0.10, G:0.10, T:0.57
Consensus pattern (13 bp):
TGTATATCTATTT
Found at i:36589395 original size:61 final size:61
Alignment explanation
Indices: 36589251--36589387 Score: 229
Period size: 61 Copynumber: 2.2 Consensus size: 61
36589241 GAAGTTTGAA
* * *
36589251 GATCAAATTGATAGAATTTGTAAATGTGAATGGTTAAATTTATTGAATTATTTAGAATTAG
1 GATCAAATTGATAGAATTTGTAAATATGAAAGGTTAAATTTATTGAATTATTTAGAACTAG
**
36589312 GATCAAATTGATAGAATTTGTAAATATGAAAGGTTACGTTTATTGAATTATTTAGAACTAG
1 GATCAAATTGATAGAATTTGTAAATATGAAAGGTTAAATTTATTGAATTATTTAGAACTAG
36589373 GATCAAATTGATAGA
1 GATCAAATTGATAGA
36589388 TCATGTAAGT
Statistics
Matches: 71, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
61 71 1.00
ACGTcount: A:0.40, C:0.04, G:0.18, T:0.38
Consensus pattern (61 bp):
GATCAAATTGATAGAATTTGTAAATATGAAAGGTTAAATTTATTGAATTATTTAGAACTAG
Found at i:36590478 original size:19 final size:20
Alignment explanation
Indices: 36590452--36590508 Score: 73
Period size: 19 Copynumber: 2.9 Consensus size: 20
36590442 TGTTTCATAA
36590452 ATTTTTTTCATATATTTTTA-
1 ATTTTTTT-ATATATTTTTAT
36590472 ATTTTTTTATA-ATTTTTAT
1 ATTTTTTTATATATTTTTAT
*
36590491 GTTTTTTTATAATATTTT
1 ATTTTTTTAT-ATATTTT
36590509 GTAAATTTTA
Statistics
Matches: 33, Mismatches: 1, Indels: 5
0.85 0.03 0.13
Matches are distributed among these distances:
18 7 0.21
19 12 0.36
20 9 0.27
21 5 0.15
ACGTcount: A:0.25, C:0.02, G:0.02, T:0.72
Consensus pattern (20 bp):
ATTTTTTTATATATTTTTAT
Found at i:36591153 original size:3 final size:3
Alignment explanation
Indices: 36591145--36591290 Score: 292
Period size: 3 Copynumber: 48.7 Consensus size: 3
36591135 CACCCTTCTT
36591145 TTA TTA TTA TTA TTA 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
36591193 TTA TTA TTA TTA TTA 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
36591241 TTA TTA TTA TTA TTA 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
36591289 TT
1 TT
36591291 TGTTGCCAGT
Statistics
Matches: 143, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 143 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:36593344 original size:18 final size:18
Alignment explanation
Indices: 36593318--36593353 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
36593308 TAATAATTAA
36593318 CTTGAATGGTCAAATGGC
1 CTTGAATGGTCAAATGGC
*
36593336 CTTGGATGGTCAAATGGC
1 CTTGAATGGTCAAATGGC
36593354 TTAGTTAATG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.25, C:0.17, G:0.31, T:0.28
Consensus pattern (18 bp):
CTTGAATGGTCAAATGGC
Done.