Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr10
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: 95480121
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.31
Warning! 2980117 characters in sequence are not A, C, G, or T
File 165 of 284
Found at i:55467165 original size:82 final size:82
Alignment explanation
Indices: 55467055--55467356 Score: 507
Period size: 82 Copynumber: 3.7 Consensus size: 82
55467045 ATTTTACCAA
* **
55467055 AAAACGCCGCTAAAAAT-AGAGCAATAGCGGCGCTTTTGGTAAAACGCCGCTAAAAATAAGAGCA
1 AAAACGCCGCTAAAAATAAGAGCATTAGCGGCGCTTTTGGTAAAACGCCGCTAAAAATCGGAGCA
*
55467119 TTAGCGGCGCTTTTGGT
66 TTAGCGGCGCTTTTTGT
* *
55467136 AAAACGCCGCTAAAAATAAGAGCATTAGCGACGCTTTTGGTAAAATGCCGCTAAAAATCGGAGCA
1 AAAACGCCGCTAAAAATAAGAGCATTAGCGGCGCTTTTGGTAAAACGCCGCTAAAAATCGGAGCA
*
55467201 ATAGCGGCGCTTTTTGT
66 TTAGCGGCGCTTTTTGT
* *
55467218 AAAACGCCGCTAAAAATAAGAGCATTAGTGGCGCTTTTGGTAAAGCGCCGCTAAAAATCGGAGCA
1 AAAACGCCGCTAAAAATAAGAGCATTAGCGGCGCTTTTGGTAAAACGCCGCTAAAAATCGGAGCA
*
55467283 TTAGCGGTGCTTTTTGT
66 TTAGCGGCGCTTTTTGT
55467300 AAAACGCCGCTAAAAATAAGAGCATTAGCGGCGCTTTTGGTAAAACGCCGCTAAAAA
1 AAAACGCCGCTAAAAATAAGAGCATTAGCGGCGCTTTTGGTAAAACGCCGCTAAAAA
55467357 GTTTAGGGTT
Statistics
Matches: 205, Mismatches: 15, Indels: 1
0.93 0.07 0.00
Matches are distributed among these distances:
81 17 0.08
82 188 0.92
ACGTcount: A:0.34, C:0.20, G:0.24, T:0.22
Consensus pattern (82 bp):
AAAACGCCGCTAAAAATAAGAGCATTAGCGGCGCTTTTGGTAAAACGCCGCTAAAAATCGGAGCA
TTAGCGGCGCTTTTTGT
Found at i:55467454 original size:21 final size:22
Alignment explanation
Indices: 55467430--55467473 Score: 72
Period size: 21 Copynumber: 2.0 Consensus size: 22
55467420 CGTTTATGCA
*
55467430 TTATGGTTTAAGGGTT-GGGGT
1 TTATGATTTAAGGGTTAGGGGT
55467451 TTATGATTTAAGGGTTAGGGGT
1 TTATGATTTAAGGGTTAGGGGT
55467473 T
1 T
55467474 AATACTTAGG
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
21 15 0.71
22 6 0.29
ACGTcount: A:0.18, C:0.00, G:0.39, T:0.43
Consensus pattern (22 bp):
TTATGATTTAAGGGTTAGGGGT
Found at i:55467722 original size:21 final size:21
Alignment explanation
Indices: 55467696--55467739 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
55467686 TTATGGTTAG
* *
55467696 GGGATATAGTTTAGGGTTTAA
1 GGGATATACTTTAGGGATTAA
55467717 GGGATATACTTTAGGGATTAA
1 GGGATATACTTTAGGGATTAA
55467738 GG
1 GG
55467740 TTATAGGGAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.30, C:0.02, G:0.34, T:0.34
Consensus pattern (21 bp):
GGGATATACTTTAGGGATTAA
Found at i:55468074 original size:15 final size:15
Alignment explanation
Indices: 55468054--55468102 Score: 61
Period size: 15 Copynumber: 3.5 Consensus size: 15
55468044 TTCCCCGATT
55468054 TCCCCCAACTTCTTC
1 TCCCCCAACTTCTTC
*
55468069 TCCCCCAA---ATT-
1 TCCCCCAACTTCTTC
55468080 TCCCCCAACTTCTTC
1 TCCCCCAACTTCTTC
55468095 TCCCCCAA
1 TCCCCCAA
55468103 AATTTTTACC
Statistics
Matches: 28, Mismatches: 2, Indels: 8
0.74 0.05 0.21
Matches are distributed among these distances:
11 8 0.29
12 2 0.07
14 2 0.07
15 16 0.57
ACGTcount: A:0.18, C:0.53, G:0.00, T:0.29
Consensus pattern (15 bp):
TCCCCCAACTTCTTC
Found at i:55468086 original size:26 final size:26
Alignment explanation
Indices: 55468051--55468103 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
55468041 AATTTCCCCG
55468051 ATTTCCCCCAACTTCTTCTCCCCCAA
1 ATTTCCCCCAACTTCTTCTCCCCCAA
55468077 ATTTCCCCCAACTTCTTCTCCCCCAA
1 ATTTCCCCCAACTTCTTCTCCCCCAA
55468103 A
1 A
55468104 ATTTTTACCC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.21, C:0.49, G:0.00, T:0.30
Consensus pattern (26 bp):
ATTTCCCCCAACTTCTTCTCCCCCAA
Found at i:55470671 original size:14 final size:13
Alignment explanation
Indices: 55470648--55470677 Score: 51
Period size: 14 Copynumber: 2.2 Consensus size: 13
55470638 ATTACTATAA
55470648 TAATTATATGAAG
1 TAATTATATGAAG
55470661 TAATATATATGAAG
1 TAAT-TATATGAAG
55470675 TAA
1 TAA
55470678 AATTATATTG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 4 0.25
14 12 0.75
ACGTcount: A:0.50, C:0.00, G:0.13, T:0.37
Consensus pattern (13 bp):
TAATTATATGAAG
Found at i:55471056 original size:183 final size:183
Alignment explanation
Indices: 55470748--55471299 Score: 1059
Period size: 183 Copynumber: 3.0 Consensus size: 183
55470738 GATATAGTTC
* * *
55470748 CATGTGTCTATATTAGTGAATTAATGTTGTATATGTTTCAGTTACTGCTTCCTGCTCCTCCTGCA
1 CATGTGTCTGTATTAGTGAATTAATGTTGTATGTATTTCAGTTACTGCTTCCTGCTCCTCCTGCA
55470813 ACTATTGGTTCAACTGAAGCTGCCATTTAATCTTCGAATTAATATTTGGTACTGATATAGATAAA
66 ACTATTGGTTCAACTGAAGCTGCCATTTAATCTTCGAATTAATATTTGGTACTGATATAGATAAA
*
55470878 GTTTTCATATTTGCTTAAACTGAAATATATTTGGTGCTACTCTTATAATCTTA
131 GTTTTTATATTTGCTTAAACTGAAATATATTTGGTGCTACTCTTATAATCTTA
55470931 CATGTGTCTGTATTAGTGAATTAATGTTGTATGTATTTCAGTTACTGCTTCCTGCTCCTCCTGCA
1 CATGTGTCTGTATTAGTGAATTAATGTTGTATGTATTTCAGTTACTGCTTCCTGCTCCTCCTGCA
55470996 ACTATTGGTTCAACTGAAGCTGCCATTTAATCTTCGAATTAATATTTGGTACTGATATAGATAAA
66 ACTATTGGTTCAACTGAAGCTGCCATTTAATCTTCGAATTAATATTTGGTACTGATATAGATAAA
55471061 GTTTTTATATTTGCTTAAACTGAAATATATTTGGTGCTACTCTTATAATCTTA
131 GTTTTTATATTTGCTTAAACTGAAATATATTTGGTGCTACTCTTATAATCTTA
55471114 CATGTGTCTGTATTAGTGAATTAATGTTGTATGTATTTCAGTTACTGCTTCCTGCTCCTCCTGCA
1 CATGTGTCTGTATTAGTGAATTAATGTTGTATGTATTTCAGTTACTGCTTCCTGCTCCTCCTGCA
*
55471179 GCTATTGGTTCAACTGAAGCTGCCATTTAATCTTCGAATTAATATTTGGTACTGATATAGATAAA
66 ACTATTGGTTCAACTGAAGCTGCCATTTAATCTTCGAATTAATATTTGGTACTGATATAGATAAA
55471244 GTTTTTATATTTGCTTAAACTGAAATATATTTGGTGCTACTCTTATAATCTTA
131 GTTTTTATATTTGCTTAAACTGAAATATATTTGGTGCTACTCTTATAATCTTA
55471297 CAT
1 CAT
55471300 CTGTTCTAGG
Statistics
Matches: 364, Mismatches: 5, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
183 364 1.00
ACGTcount: A:0.27, C:0.16, G:0.15, T:0.42
Consensus pattern (183 bp):
CATGTGTCTGTATTAGTGAATTAATGTTGTATGTATTTCAGTTACTGCTTCCTGCTCCTCCTGCA
ACTATTGGTTCAACTGAAGCTGCCATTTAATCTTCGAATTAATATTTGGTACTGATATAGATAAA
GTTTTTATATTTGCTTAAACTGAAATATATTTGGTGCTACTCTTATAATCTTA
Found at i:55472408 original size:24 final size:24
Alignment explanation
Indices: 55472381--55472448 Score: 111
Period size: 24 Copynumber: 2.8 Consensus size: 24
55472371 ATTATTATTG
*
55472381 AAATATTCTCGTCCGTTTTATCAC
1 AAATATTATCGTCCGTTTTATCAC
55472405 AAATATTATTC-TCCGTTTTATCAC
1 AAATATTA-TCGTCCGTTTTATCAC
55472429 AAATATTATCGTCCGTTTTA
1 AAATATTATCGTCCGTTTTA
55472449 CCATTTAAGT
Statistics
Matches: 41, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
23 2 0.05
24 37 0.90
25 2 0.05
ACGTcount: A:0.28, C:0.21, G:0.07, T:0.44
Consensus pattern (24 bp):
AAATATTATCGTCCGTTTTATCAC
Found at i:55472669 original size:15 final size:15
Alignment explanation
Indices: 55472625--55472680 Score: 73
Period size: 15 Copynumber: 3.8 Consensus size: 15
55472615 AACGACATGT
55472625 ATATTATTTAATTAAA
1 ATATTATTTAATT-AA
55472641 ATAATT-TTT-A-TAA
1 AT-ATTATTTAATTAA
55472654 ATATTATTTAATTAA
1 ATATTATTTAATTAA
55472669 ATATTATTTAAT
1 ATATTATTTAAT
55472681 CCCGCTACTT
Statistics
Matches: 36, Mismatches: 0, Indels: 9
0.80 0.00 0.20
Matches are distributed among these distances:
12 3 0.08
13 7 0.19
14 2 0.06
15 16 0.44
16 5 0.14
17 3 0.08
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (15 bp):
ATATTATTTAATTAA
Found at i:55472797 original size:9 final size:9
Alignment explanation
Indices: 55472785--55473010 Score: 152
Period size: 9 Copynumber: 24.6 Consensus size: 9
55472775 TATTTGATAT
*
55472785 CATAATTTA
1 CATAACTTA
55472794 CATAACTTA
1 CATAACTTA
* *
55472803 TATAACATA
1 CATAACTTA
*
55472812 TATAACTTA
1 CATAACTTA
55472821 CATAACTTA
1 CATAACTTA
* *
55472830 TATAACATA
1 CATAACTTA
55472839 CATAACTTA
1 CATAACTTA
*
55472848 TATAACTTA
1 CATAACTTA
*
55472857 TATAACTTA
1 CATAACTTA
* *
55472866 GATAA-ATA
1 CATAACTTA
*
55472874 TATAACTTA
1 CATAACTTA
55472883 CATAACTTA
1 CATAACTTA
55472892 CATAATACTTA
1 CAT-A-ACTTA
* *
55472903 AATATATTTTATA
1 CATA-A--CT-TA
*
55472916 TCATAATTTA
1 -CATAACTTA
55472926 CATAACTTA
1 CATAACTTA
55472935 CATAACTTA
1 CATAACTTA
*
55472944 TATAACTTA
1 CATAACTTA
* *
55472953 GATAA-ATA
1 CATAACTTA
* *
55472961 TATAATTTA
1 CATAACTTA
*
55472970 CATAA-ATA
1 CATAACTTA
* * *
55472978 TATATCATA
1 CATAACTTA
55472987 TCATAACTTA
1 -CATAACTTA
55472997 CATAACTTA
1 CATAACTTA
55473006 CATAA
1 CATAA
55473011 TACTTAAATA
Statistics
Matches: 176, Mismatches: 31, Indels: 20
0.78 0.14 0.09
Matches are distributed among these distances:
8 17 0.10
9 131 0.74
10 12 0.07
11 9 0.05
12 1 0.01
13 3 0.02
14 3 0.02
ACGTcount: A:0.47, C:0.13, G:0.01, T:0.38
Consensus pattern (9 bp):
CATAACTTA
Found at i:55472807 original size:18 final size:18
Alignment explanation
Indices: 55472785--55473010 Score: 170
Period size: 18 Copynumber: 12.3 Consensus size: 18
55472775 TATTTGATAT
* *
55472785 CATAATTTACATAACTTA
1 CATAACTTATATAACTTA
* *
55472803 TATAACATATATAACTTA
1 CATAACTTATATAACTTA
*
55472821 CATAACTTATATAACATA
1 CATAACTTATATAACTTA
55472839 CATAACTTATATAACTTA
1 CATAACTTATATAACTTA
* * *
55472857 TATAACTTAGATAA-ATA
1 CATAACTTATATAACTTA
* *
55472874 TATAACTTACATAACTTA
1 CATAACTTATATAACTTA
**
55472892 CATAATACTTAAATATATTTTATA
1 CAT-A-ACTT--ATATA-ACT-TA
* *
55472916 TCATAATTTACATAACTTA
1 -CATAACTTATATAACTTA
55472935 CATAACTTATATAACTTA
1 CATAACTTATATAACTTA
* * *
55472953 GATAA-ATATATAATTTA
1 CATAACTTATATAACTTA
* * *
55472970 CATAA-ATATATATCATA
1 CATAACTTATATAACTTA
*
55472987 TCATAACTTACATAACTTA
1 -CATAACTTATATAACTTA
55473006 CATAA
1 CATAA
55473011 TACTTAAATA
Statistics
Matches: 164, Mismatches: 34, Indels: 20
0.75 0.16 0.09
Matches are distributed among these distances:
17 38 0.23
18 92 0.56
19 11 0.07
20 5 0.03
21 4 0.02
22 4 0.02
23 4 0.02
24 3 0.02
25 3 0.02
ACGTcount: A:0.47, C:0.13, G:0.01, T:0.38
Consensus pattern (18 bp):
CATAACTTATATAACTTA
Found at i:55472997 original size:114 final size:114
Alignment explanation
Indices: 55472813--55473034 Score: 322
Period size: 114 Copynumber: 1.9 Consensus size: 114
55472803 TATAACATAT
* * *
55472813 ATAACTTACATAACTTATATAACATACATAACTTATATAACTTATATAACTTAGATAAATATATA
1 ATAACTTACATAACTTATATAACATACATAACATATATAACTTACATAAATTAGATAAATATATA
* *
55472878 ACTTACATAACTTACATAATACTTAAATATATTTTATATCATAATTTAC
66 ACTTACATAACTTACATAATACTTAAATATATATCATATCATAATTTAC
* * * * *
55472927 ATAACTTACATAACTTATATAACTTAGATAA-ATATATAATTTACATAAA-TATATATCATATCA
1 ATAACTTACATAACTTATATAACATACATAACATATATAACTTACATAAATTAGATA-AATAT-A
55472990 TAACTTACATAACTTACATAATACTTAAATATATATCATATCATA
64 TAACTTACATAACTTACATAATACTTAAATATATATCATATCATA
55473035 CATAACTAGT
Statistics
Matches: 96, Mismatches: 10, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
112 5 0.05
113 18 0.19
114 73 0.76
ACGTcount: A:0.47, C:0.13, G:0.01, T:0.39
Consensus pattern (114 bp):
ATAACTTACATAACTTATATAACATACATAACATATATAACTTACATAAATTAGATAAATATATA
ACTTACATAACTTACATAATACTTAAATATATATCATATCATAATTTAC
Found at i:55478688 original size:21 final size:21
Alignment explanation
Indices: 55478663--55478724 Score: 90
Period size: 21 Copynumber: 3.0 Consensus size: 21
55478653 TTAGAACGGA
55478663 GGCAGCAGAGAGGGAGGCAGC
1 GGCAGCAGAGAGGGAGGCAGC
*
55478684 GGCAGCA-ACGAGGTAGGCAGC
1 GGCAGCAGA-GAGGGAGGCAGC
*
55478705 GGCAGCAGCGAGGGAGGCAG
1 GGCAGCAGAGAGGGAGGCAG
55478725 AGCATAGGAA
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
20 1 0.03
21 35 0.97
ACGTcount: A:0.27, C:0.21, G:0.50, T:0.02
Consensus pattern (21 bp):
GGCAGCAGAGAGGGAGGCAGC
Found at i:55480477 original size:20 final size:20
Alignment explanation
Indices: 55480452--55480616 Score: 98
Period size: 20 Copynumber: 8.2 Consensus size: 20
55480442 CAAATGCGTT
55480452 CAGGGGTACCAAAGTACAAA
1 CAGGGGTACCAAAGTACAAA
* *
55480472 CAGGGGCA-CACATGTACAAA
1 CAGGGGTACCA-AAGTACAAA
* *
55480492 AAGGGGTACCGAAGTACAAA
1 CAGGGGTACCAAAGTACAAA
* * * *
55480512 TAGGGTTATCGAAGTACAAA
1 CAGGGGTACCAAAGTACAAA
* ** * ***
55480532 CAGGGGCACTTATGTGTGAA
1 CAGGGGTACCAAAGTACAAA
*
55480552 CAGTGGTACCAAAGTACAAA
1 CAGGGGTACCAAAGTACAAA
* ** * ***
55480572 CAGGGGCACTTATGTGTGAA
1 CAGGGGTACCAAAGTACAAA
*
55480592 CAGGGGTACCGAAGTACAAA
1 CAGGGGTACCAAAGTACAAA
55480612 CAGGG
1 CAGGG
55480617 TCACGTGTGT
Statistics
Matches: 101, Mismatches: 42, Indels: 4
0.69 0.29 0.03
Matches are distributed among these distances:
19 2 0.02
20 98 0.97
21 1 0.01
ACGTcount: A:0.38, C:0.18, G:0.29, T:0.16
Consensus pattern (20 bp):
CAGGGGTACCAAAGTACAAA
Found at i:55480560 original size:60 final size:60
Alignment explanation
Indices: 55480463--55480576 Score: 147
Period size: 60 Copynumber: 1.9 Consensus size: 60
55480453 AGGGGTACCA
* *
55480463 AAGTACAAACAGGGGCACACATGTACAAAAAGGGGTACCGAAGTACAAATAGGGTTATCG
1 AAGTACAAACAGGGGCACACATGTACAAAAAGGGGTACCAAAGTACAAACAGGGTTATCG
** *** * *
55480523 AAGTACAAACAGGGGCACTTATGTGTGAACAGTGGTACCAAAGTACAAACAGGG
1 AAGTACAAACAGGGGCACACATGTACAAAAAGGGGTACCAAAGTACAAACAGGG
55480577 GCACTTATGT
Statistics
Matches: 45, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
60 45 1.00
ACGTcount: A:0.40, C:0.17, G:0.27, T:0.16
Consensus pattern (60 bp):
AAGTACAAACAGGGGCACACATGTACAAAAAGGGGTACCAAAGTACAAACAGGGTTATCG
Found at i:55480670 original size:40 final size:40
Alignment explanation
Indices: 55480521--55480660 Score: 187
Period size: 40 Copynumber: 3.5 Consensus size: 40
55480511 ATAGGGTTAT
55480521 CGAAGTACAAACAGGGGCACTTATGTGTGAAC-AGTGGTAC
1 CGAAGTACAAACAGGGGCACTTATGTGTGAACAAG-GGTAC
* *
55480561 CAAAGTACAAACAGGGGCACTTATGTGTGAACAGGGGTAC
1 CGAAGTACAAACAGGGGCACTTATGTGTGAACAAGGGTAC
* *
55480601 CGAAGTACAAACAGGGTCAC--GTGTGTGCAATCAAGGGTAC
1 CGAAGTACAAACAGGGGCACTTATGTGTG-AA-CAAGGGTAC
*
55480641 CGAAGTACAATCAGGGGCAC
1 CGAAGTACAAACAGGGGCAC
55480661 ATATTTGCAA
Statistics
Matches: 89, Mismatches: 8, Indels: 6
0.86 0.08 0.06
Matches are distributed among these distances:
38 6 0.07
39 2 0.02
40 80 0.90
41 1 0.01
ACGTcount: A:0.34, C:0.19, G:0.30, T:0.17
Consensus pattern (40 bp):
CGAAGTACAAACAGGGGCACTTATGTGTGAACAAGGGTAC
Found at i:55486936 original size:15 final size:15
Alignment explanation
Indices: 55486916--55486953 Score: 69
Period size: 14 Copynumber: 2.6 Consensus size: 15
55486906 TGCACATTTT
55486916 AATTATTTTTTTAAA
1 AATTATTTTTTTAAA
55486931 AATTA-TTTTTTAAA
1 AATTATTTTTTTAAA
55486945 AATTATTTT
1 AATTATTTT
55486954 ATGAAAATAT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
14 14 0.64
15 8 0.36
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (15 bp):
AATTATTTTTTTAAA
Found at i:55486964 original size:13 final size:14
Alignment explanation
Indices: 55486916--55486965 Score: 57
Period size: 14 Copynumber: 3.6 Consensus size: 14
55486906 TGCACATTTT
*
55486916 AATTATTTTTTTAAA
1 AATTA-TTTTATAAA
*
55486931 AATTATTTTTTAAA
1 AATTATTTTATAAA
*
55486945 AATTATTTTATGAA
1 AATTATTTTATAAA
55486959 AA-TATTT
1 AATTATTT
55486966 ATTCAAAAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
13 5 0.15
14 23 0.70
15 5 0.15
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (14 bp):
AATTATTTTATAAA
Found at i:55493848 original size:21 final size:21
Alignment explanation
Indices: 55493824--55493877 Score: 90
Period size: 21 Copynumber: 2.6 Consensus size: 21
55493814 AAGTGAGTTA
55493824 GACAAAAAGAAAAGCAACTTG
1 GACAAAAAGAAAAGCAACTTG
* *
55493845 GACAAAAAGAGAAGTAACTTG
1 GACAAAAAGAAAAGCAACTTG
55493866 GACAAAAAGAAA
1 GACAAAAAGAAA
55493878 CGAATTGACT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.59, C:0.11, G:0.20, T:0.09
Consensus pattern (21 bp):
GACAAAAAGAAAAGCAACTTG
Found at i:55495622 original size:18 final size:18
Alignment explanation
Indices: 55495599--55495653 Score: 78
Period size: 16 Copynumber: 3.1 Consensus size: 18
55495589 TTTTCTTTCT
*
55495599 ATATTATTATTTATTTAA
1 ATATTATTATATATTTAA
55495617 ATATTATTAATATATTTAA
1 ATATTATT-ATATATTTAA
55495636 AT-TTA-TATATATTTAA
1 ATATTATTATATATTTAA
55495652 AT
1 AT
55495654 TATATATTGA
Statistics
Matches: 35, Mismatches: 1, Indels: 4
0.88 0.03 0.10
Matches are distributed among these distances:
16 12 0.34
17 1 0.03
18 11 0.31
19 11 0.31
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (18 bp):
ATATTATTATATATTTAA
Found at i:55495658 original size:15 final size:15
Alignment explanation
Indices: 55495622--55495660 Score: 62
Period size: 15 Copynumber: 2.6 Consensus size: 15
55495612 TTTAAATATT
55495622 ATTA-ATATATTTAA
1 ATTATATATATTTAA
55495636 ATTTATATATATTTAA
1 A-TTATATATATTTAA
55495652 ATTATATAT
1 ATTATATAT
55495661 TGAAATGATA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 1 0.04
15 11 0.48
16 11 0.48
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (15 bp):
ATTATATATATTTAA
Found at i:55495859 original size:21 final size:20
Alignment explanation
Indices: 55495833--55495871 Score: 69
Period size: 21 Copynumber: 1.9 Consensus size: 20
55495823 AAATCATGGA
55495833 TAAATCCAAGCGACTCTTTCT
1 TAAATCCAAGCGA-TCTTTCT
55495854 TAAATCCAAGCGATCTTT
1 TAAATCCAAGCGATCTTT
55495872 TTGTAGGCGT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.31, C:0.26, G:0.10, T:0.33
Consensus pattern (20 bp):
TAAATCCAAGCGATCTTTCT
Found at i:55500808 original size:128 final size:128
Alignment explanation
Indices: 55500580--55500834 Score: 501
Period size: 128 Copynumber: 2.0 Consensus size: 128
55500570 ATCACGATTC
*
55500580 AAGATAAATTCATGGGGAAGTGGGATCTCTTTAGGGTCTACTCCAGCATTTAGAAATTGGTTTAT
1 AAGATAAATTCATAGGGAAGTGGGATCTCTTTAGGGTCTACTCCAGCATTTAGAAATTGGTTTAT
55500645 CGGTAAAGATACATGTACTTGATGCCCCGCCCAAGAAAGGGACCCAAGTCCCAGTAGCCCTGT
66 CGGTAAAGATACATGTACTTGATGCCCCGCCCAAGAAAGGGACCCAAGTCCCAGTAGCCCTGT
55500708 AAGATAAATTCATAGGGAAGTGGGATCTCTTTAGGGTCTACTCCAGCATTTAGAAATTGGTTTAT
1 AAGATAAATTCATAGGGAAGTGGGATCTCTTTAGGGTCTACTCCAGCATTTAGAAATTGGTTTAT
55500773 CGGTAAAGATACATGTACTTGATGCCCCGCCCAAGAAAGGGACCCAAGTCCCAGTAGCCCTG
66 CGGTAAAGATACATGTACTTGATGCCCCGCCCAAGAAAGGGACCCAAGTCCCAGTAGCCCTG
55500835 CTAAATGGTG
Statistics
Matches: 126, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
128 126 1.00
ACGTcount: A:0.29, C:0.21, G:0.24, T:0.25
Consensus pattern (128 bp):
AAGATAAATTCATAGGGAAGTGGGATCTCTTTAGGGTCTACTCCAGCATTTAGAAATTGGTTTAT
CGGTAAAGATACATGTACTTGATGCCCCGCCCAAGAAAGGGACCCAAGTCCCAGTAGCCCTGT
Found at i:55501549 original size:15 final size:15
Alignment explanation
Indices: 55501531--55501570 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 15
55501521 TTCTTTCTCT
*
55501531 TCTATCTCTTATCTA
1 TCTATCTATTATCTA
* *
55501546 TCTATCTATTTTTTA
1 TCTATCTATTATCTA
55501561 TCTATCTATT
1 TCTATCTATT
55501571 TTTTCTTTAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.20, C:0.20, G:0.00, T:0.60
Consensus pattern (15 bp):
TCTATCTATTATCTA
Found at i:55501585 original size:15 final size:15
Alignment explanation
Indices: 55501544--55501574 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
55501534 ATCTCTTATC
55501544 TATCTATCTATTTTT
1 TATCTATCTATTTTT
55501559 TATCTATCTATTTTT
1 TATCTATCTATTTTT
55501574 T
1 T
55501575 CTTTATTTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.19, C:0.13, G:0.00, T:0.68
Consensus pattern (15 bp):
TATCTATCTATTTTT
Found at i:55512235 original size:7 final size:7
Alignment explanation
Indices: 55512223--55512279 Score: 105
Period size: 7 Copynumber: 8.1 Consensus size: 7
55512213 TGCTATGACA
55512223 GGCAAGG
1 GGCAAGG
55512230 GGCAAGG
1 GGCAAGG
55512237 GGCAAGG
1 GGCAAGG
55512244 GGCAAGG
1 GGCAAGG
*
55512251 AGCAAGG
1 GGCAAGG
55512258 GGCAAGG
1 GGCAAGG
55512265 GGCAAGG
1 GGCAAGG
55512272 GGCAAGG
1 GGCAAGG
55512279 G
1 G
55512280 TTTTTGAACA
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 48 1.00
ACGTcount: A:0.30, C:0.14, G:0.56, T:0.00
Consensus pattern (7 bp):
GGCAAGG
Found at i:55515090 original size:33 final size:32
Alignment explanation
Indices: 55515033--55515094 Score: 81
Period size: 33 Copynumber: 1.9 Consensus size: 32
55515023 ATTTTCTTTA
55515033 TTAATATTTTTGTTAATATATATTTCTTATGTC
1 TTAATATTTTTGTTAATATATATTT-TTATGTC
* *
55515066 TTAATATTTTT-TTATATTTTTATTTTTAT
1 TTAATATTTTTGTTA-ATATATATTTTTAT
55515095 AAATATTTCT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
32 7 0.27
33 19 0.73
ACGTcount: A:0.26, C:0.03, G:0.03, T:0.68
Consensus pattern (32 bp):
TTAATATTTTTGTTAATATATATTTTTATGTC
Found at i:55516676 original size:15 final size:15
Alignment explanation
Indices: 55516656--55516689 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
55516646 CATTTTCAGA
55516656 TTTAGTTTAATGTAT
1 TTTAGTTTAATGTAT
* *
55516671 TTTAGTTTATTTTAT
1 TTTAGTTTAATGTAT
55516686 TTTA
1 TTTA
55516690 CACTTGTTAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.24, C:0.00, G:0.09, T:0.68
Consensus pattern (15 bp):
TTTAGTTTAATGTAT
Found at i:55518247 original size:40 final size:40
Alignment explanation
Indices: 55518149--55518411 Score: 309
Period size: 40 Copynumber: 6.6 Consensus size: 40
55518139 TCCTCGTTCA
* * * ** *
55518149 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
*
55518188 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
55518228 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
55518268 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
** * *
55518308 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
* * * * *
55518348 AAGGCCTTC-GGATCTTAATCCGGATATATTC-ACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTA-ACAAC-TCGCACG
* *
55518388 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
55518412 CAGCATTCAA
Statistics
Matches: 199, Mismatches: 20, Indels: 9
0.87 0.09 0.04
Matches are distributed among these distances:
39 37 0.19
40 154 0.77
41 8 0.04
ACGTcount: A:0.27, C:0.29, G:0.21, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
Found at i:55528123 original size:40 final size:40
Alignment explanation
Indices: 55528070--55528382 Score: 518
Period size: 40 Copynumber: 7.8 Consensus size: 40
55528060 CAGCCGCAAA
* * * *
55528070 CATATTTGCCTTCGGGTCTTAACCCGGACATATCAACTTG
1 CATAATTGCCTTCGGGTCTTAGCCCGGATATATCAACTCG
*
55528110 CATAATTGCCTTCGGGTCTTAGCCCGGATATATCATCTCG
1 CATAATTGCCTTCGGGTCTTAGCCCGGATATATCAACTCG
* * *
55528150 CATAATTGCCTTCGGGTCATAGCCCGGACATATTAACTCG
1 CATAATTGCCTTCGGGTCTTAGCCCGGATATATCAACTCG
*
55528190 CATAATTGCCTTCGGGTCTTAGCCCGGATATATCATCTCG
1 CATAATTGCCTTCGGGTCTTAGCCCGGATATATCAACTCG
* * *
55528230 CATAATTGCCTTCGGGTCATAGCCCGGACATATTAACTCG
1 CATAATTGCCTTCGGGTCTTAGCCCGGATATATCAACTCG
55528270 CATAATTGCCTTCGGGTCTTAGCCCGGATATATCAACTCG
1 CATAATTGCCTTCGGGTCTTAGCCCGGATATATCAACTCG
55528310 CATAATTGCCTTCGGGTCTTAGCCCGGATATATCAACTCG
1 CATAATTGCCTTCGGGTCTTAGCCCGGATATATCAACTCG
55528350 CATAATTGCCTTCGGGTCTTAGCCCGGATATAT
1 CATAATTGCCTTCGGGTCTTAGCCCGGATATAT
55528383 TCCAATGCTC
Statistics
Matches: 253, Mismatches: 20, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 253 1.00
ACGTcount: A:0.22, C:0.27, G:0.20, T:0.31
Consensus pattern (40 bp):
CATAATTGCCTTCGGGTCTTAGCCCGGATATATCAACTCG
Found at i:55532039 original size:28 final size:28
Alignment explanation
Indices: 55531994--55532076 Score: 94
Period size: 28 Copynumber: 3.0 Consensus size: 28
55531984 GACCATGTGT
** *
55531994 CCCCTATTTTACAAATTTTACAGTTTTA
1 CCCCTATTTTTTAGATTTTACAGTTTTA
** * * *
55532022 CCTTTATTTTTTAGATTTCATAATTTTA
1 CCCCTATTTTTTAGATTTTACAGTTTTA
55532050 CCCCTATTTTTTAGATTTTACAGTTTT
1 CCCCTATTTTTTAGATTTTACAGTTTT
55532077 GCTTCTATTT
Statistics
Matches: 42, Mismatches: 13, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
28 42 1.00
ACGTcount: A:0.24, C:0.17, G:0.05, T:0.54
Consensus pattern (28 bp):
CCCCTATTTTTTAGATTTTACAGTTTTA
Found at i:55532084 original size:28 final size:28
Alignment explanation
Indices: 55532008--55532087 Score: 90
Period size: 28 Copynumber: 2.9 Consensus size: 28
55531998 TATTTTACAA
55532008 ATTTTACAGTTTTACCTT-TATTTTTTAG
1 ATTTTACAGTTTTA-CTTCTATTTTTTAG
* * * **
55532036 ATTTCATAATTTTACCCCTATTTTTTAG
1 ATTTTACAGTTTTACTTCTATTTTTTAG
*
55532064 ATTTTACAGTTTTGCTTCTATTTT
1 ATTTTACAGTTTTACTTCTATTTT
55532088 ACAAAAAACA
Statistics
Matches: 40, Mismatches: 11, Indels: 2
0.75 0.21 0.04
Matches are distributed among these distances:
27 1 0.03
28 39 0.98
ACGTcount: A:0.21, C:0.14, G:0.06, T:0.59
Consensus pattern (28 bp):
ATTTTACAGTTTTACTTCTATTTTTTAG
Found at i:55532968 original size:85 final size:86
Alignment explanation
Indices: 55532637--55532960 Score: 375
Period size: 85 Copynumber: 3.8 Consensus size: 86
55532627 TGGTGGCGCG
* * * * * *
55532637 TCCACAAAATCCAGTGGTAGTTTGTTTAATCTGCAAATATGTTGTGCACCCATAATAAGTGATAG
1 TCCACAAAACCCAGTGGCAGTTTGTTTAATCTGCAAATATGTTGTGCACTCACAACAAGTGACAG
*
55532702 TAACTACAAATATATGGCTCA
66 TAACTACAAATATGTGGCTCA
* * ** * *
55532723 TCTACAAAACCTAGTGGCAGTTTGTTTAATCTGTGAATATGTTGTGCAC-CATATCAAGTGACAG
1 TCCACAAAACCCAGTGGCAGTTTGTTTAATCTGCAAATATGTTGTGCACTCACAACAAGTGACAG
*
55532787 TAACTAAAAATATGTGGCTCA
66 TAACTACAAATATGTGGCTCA
** * * **
55532808 TCTGCAAAACCTAGTGGCTA-TTTGTTTAATCTACAAATATGTTGTGCACTCACAACAAGTGGTA
1 TCCACAAAACCCAGTGGC-AGTTTGTTTAATCTGCAAATATGTTGTGCACTCACAACAAGTGACA
* *
55532872 GTAACTGCAAATATGTGGCTCG
65 GTAACTACAAATATGTGGCTCA
* * ** *
55532894 TCCAC-AAACCCAGTGACAGTTTGTTTAATTTGCAACCATGTTGTGCACTCACAACAAGTGGCAG
1 TCCACAAAACCCAGTGGCAGTTTGTTTAATCTGCAAATATGTTGTGCACTCACAACAAGTGACAG
55532958 TAA
66 TAA
55532961 TTGCAAATGT
Statistics
Matches: 204, Mismatches: 31, Indels: 7
0.84 0.13 0.03
Matches are distributed among these distances:
84 1 0.00
85 127 0.62
86 76 0.37
ACGTcount: A:0.32, C:0.19, G:0.18, T:0.31
Consensus pattern (86 bp):
TCCACAAAACCCAGTGGCAGTTTGTTTAATCTGCAAATATGTTGTGCACTCACAACAAGTGACAG
TAACTACAAATATGTGGCTCA
Found at i:55534700 original size:12 final size:12
Alignment explanation
Indices: 55534683--55534708 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
55534673 CATGAATATT
55534683 AAAAAAACAAAA
1 AAAAAAACAAAA
55534695 AAAAAAACAAAA
1 AAAAAAACAAAA
55534707 AA
1 AA
55534709 CAAATAGAGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.92, C:0.08, G:0.00, T:0.00
Consensus pattern (12 bp):
AAAAAAACAAAA
Found at i:55535092 original size:14 final size:14
Alignment explanation
Indices: 55535073--55535103 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
55535063 AATACAAATA
55535073 AAAATTCATGTATT
1 AAAATTCATGTATT
55535087 AAAATTCATGTATT
1 AAAATTCATGTATT
55535101 AAA
1 AAA
55535104 TTACATATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.48, C:0.06, G:0.06, T:0.39
Consensus pattern (14 bp):
AAAATTCATGTATT
Found at i:55538753 original size:26 final size:26
Alignment explanation
Indices: 55538722--55538829 Score: 164
Period size: 26 Copynumber: 4.2 Consensus size: 26
55538712 TGAAATGCCC
55538722 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAAACCATT
*
55538748 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAAACCATT
* *
55538774 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAAACCATT
*
55538800 ATCATGGAATATTTACCT-AACTCATT
1 ATCATGGAACATTTACCTAAAC-CATT
55538826 ATCA
1 ATCA
55538830 ATTTGTACCA
Statistics
Matches: 77, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
25 2 0.03
26 75 0.97
ACGTcount: A:0.36, C:0.22, G:0.07, T:0.34
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAAACCATT
Found at i:55540548 original size:74 final size:74
Alignment explanation
Indices: 55540430--55540577 Score: 287
Period size: 74 Copynumber: 2.0 Consensus size: 74
55540420 ATGCAAATTT
55540430 GTGTTAATAAACTAATGAATTTTAAGGTTATTTGGATTTGATTTAGTTCAAAGAATTGTTAAAGG
1 GTGTTAATAAACTAATGAATTTTAAGGTTATTTGGATTTGATTTAGTTCAAAGAATTGTTAAAGG
55540495 TAGTAGTTC
66 TAGTAGTTC
*
55540504 GTGTTAATAAACTAATGAATTTTAGGGTTATTTGGATTTGATTTAGTTCAAAGAATTGTTAAAGG
1 GTGTTAATAAACTAATGAATTTTAAGGTTATTTGGATTTGATTTAGTTCAAAGAATTGTTAAAGG
55540569 TAGTAGTTC
66 TAGTAGTTC
55540578 ATGTGTTTTA
Statistics
Matches: 73, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
74 73 1.00
ACGTcount: A:0.33, C:0.04, G:0.21, T:0.42
Consensus pattern (74 bp):
GTGTTAATAAACTAATGAATTTTAAGGTTATTTGGATTTGATTTAGTTCAAAGAATTGTTAAAGG
TAGTAGTTC
Found at i:55544792 original size:48 final size:48
Alignment explanation
Indices: 55544721--55544816 Score: 174
Period size: 48 Copynumber: 2.0 Consensus size: 48
55544711 GCAGTGACGT
55544721 GGTTTTGAAAAATCAATAAAAATTTTAGAAATGAAATTAAGTGGTGAA
1 GGTTTTGAAAAATCAATAAAAATTTTAGAAATGAAATTAAGTGGTGAA
* *
55544769 GGTTTTGAAAAATCACTAAAAATTTTAGAAATGGAATTAAGTGGTGAA
1 GGTTTTGAAAAATCAATAAAAATTTTAGAAATGAAATTAAGTGGTGAA
55544817 TGAGATAGAA
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
48 46 1.00
ACGTcount: A:0.46, C:0.03, G:0.20, T:0.31
Consensus pattern (48 bp):
GGTTTTGAAAAATCAATAAAAATTTTAGAAATGAAATTAAGTGGTGAA
Found at i:55548231 original size:20 final size:20
Alignment explanation
Indices: 55548188--55548232 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 20
55548178 ACTGTTTTGT
55548188 TATGGGCCAACTGTATTGAA
1 TATGGGCCAACTGTATTGAA
*
55548208 -ATGGGCCCAACTGTGTT-AA
1 TATGGG-CCAACTGTATTGAA
55548227 TATGGG
1 TATGGG
55548233 AAAGGCCCAA
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
19 7 0.32
20 15 0.68
ACGTcount: A:0.27, C:0.16, G:0.29, T:0.29
Consensus pattern (20 bp):
TATGGGCCAACTGTATTGAA
Found at i:55559009 original size:21 final size:21
Alignment explanation
Indices: 55558984--55559040 Score: 60
Period size: 21 Copynumber: 2.7 Consensus size: 21
55558974 TTAAATGTCC
*
55558984 TTGTTATTTTTATAATTAGTA
1 TTGTTATTATTATAATTAGTA
* * *
55559005 TTGTTATTATTATTATTATTG
1 TTGTTATTATTATAATTAGTA
*
55559026 TTGTTACTATATATA
1 TTGTTATTAT-TATA
55559041 TTGGTATATA
Statistics
Matches: 29, Mismatches: 6, Indels: 1
0.81 0.17 0.03
Matches are distributed among these distances:
21 26 0.90
22 3 0.10
ACGTcount: A:0.28, C:0.02, G:0.09, T:0.61
Consensus pattern (21 bp):
TTGTTATTATTATAATTAGTA
Found at i:55559042 original size:18 final size:18
Alignment explanation
Indices: 55558998--55559058 Score: 52
Period size: 18 Copynumber: 3.3 Consensus size: 18
55558988 TATTTTTATA
* *
55558998 ATTAGTATTGTTATTATT
1 ATTATTATTGTTATTACT
*
55559016 ATTATTATTGTTGTTACT
1 ATTATTATTGTTATTACT
*
55559034 A-TATATATTGGTATATACT
1 ATTAT-TATTGTTAT-TACT
*
55559053 CTTATT
1 ATTATT
55559059 GTATGCGTAT
Statistics
Matches: 34, Mismatches: 6, Indels: 5
0.76 0.13 0.11
Matches are distributed among these distances:
17 3 0.09
18 23 0.68
19 5 0.15
20 3 0.09
ACGTcount: A:0.28, C:0.05, G:0.10, T:0.57
Consensus pattern (18 bp):
ATTATTATTGTTATTACT
Found at i:55571998 original size:88 final size:88
Alignment explanation
Indices: 55571849--55572330 Score: 955
Period size: 88 Copynumber: 5.5 Consensus size: 88
55571839 TAATTTTTAC
*
55571849 TTTTCCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCA
1 TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCA
55571914 ATTTCTACTTTCCAATTCCTGTT
66 ATTTCTACTTTCCAATTCCTGTT
55571937 TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCA
1 TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCA
55572002 ATTTCTACTTTCCAATTCCTGTT
66 ATTTCTACTTTCCAATTCCTGTT
55572025 TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCA
1 TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCA
55572090 ATTTCTACTTTCCAATTCCTGTT
66 ATTTCTACTTTCCAATTCCTGTT
55572113 TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCA
1 TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCA
55572178 ATTTCTACTTTCCAATTCCTGTT
66 ATTTCTACTTTCCAATTCCTGTT
55572201 TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCA
1 TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCA
55572266 ATTTCTACTTTCCAATTCCTGTT
66 ATTTCTACTTTCCAATTCCTGTT
55572289 TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
1 TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
55572331 TTCAATTTAT
Statistics
Matches: 393, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
88 393 1.00
ACGTcount: A:0.24, C:0.20, G:0.21, T:0.35
Consensus pattern (88 bp):
TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCA
ATTTCTACTTTCCAATTCCTGTT
Found at i:55572432 original size:54 final size:54
Alignment explanation
Indices: 55572279--55572487 Score: 263
Period size: 56 Copynumber: 3.9 Consensus size: 54
55572269 TCTACTTTCC
* *
55572279 AATTCCTGTTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTC
1 AATTTCTG-TTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTT
* *
55572334 AATTTATATTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTT
1 AATTTCTGTTTTTC--AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTT
*
55572390 AATTTCTGTTTTTCAAAAAGCAACTCATATTGCGAGAGGTGAGTTGTA-CC---T
1 AATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTG-AGCCTTTT
* *
55572441 --TTT-TGTTTTTC-AAAATCAACTCATATTGCAAGAGATGAGTTGAGCCT
1 AATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
55572488 CGGGTCACAT
Statistics
Matches: 139, Mismatches: 10, Indels: 17
0.84 0.06 0.10
Matches are distributed among these distances:
46 1 0.01
47 30 0.22
48 8 0.06
49 3 0.02
51 1 0.01
54 39 0.28
55 6 0.04
56 51 0.37
ACGTcount: A:0.30, C:0.15, G:0.18, T:0.37
Consensus pattern (54 bp):
AATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTT
Found at i:55572626 original size:14 final size:14
Alignment explanation
Indices: 55572607--55572641 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
55572597 CGCTGAGGTA
* *
55572607 TTTTCAATTTCTGC
1 TTTTCAATTCCTAC
55572621 TTTTCAATTCCTAC
1 TTTTCAATTCCTAC
55572635 TTTTCAA
1 TTTTCAA
55572642 AAAATTCAGC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.20, C:0.23, G:0.03, T:0.54
Consensus pattern (14 bp):
TTTTCAATTCCTAC
Found at i:55572671 original size:89 final size:86
Alignment explanation
Indices: 55572523--55572754 Score: 263
Period size: 89 Copynumber: 2.7 Consensus size: 86
55572513 AATTCTGTTA
* * * * * *
55572523 TTCAAATTCTGTTTTTAATTTTTACTT-TCCTAAAACCAACTCATATTGCGAGAGGTGAGTCAAG
1 TTCAATTTCTGTTTTCAATTTAT-CTTGTTCAAAAATCAACTCATATTGCGAGAGGTGAGTCAAG
*
55572587 CCTCGGGGCACGCTGAGGTATT
65 CCTCAGGGCACGCTGAGGTATT
*
55572609 TTCAATTTCTGCTTTTCAATTCCTA-CTT-TTCAAAAAATTCAGCTCATATTGCGAGAGGTGAGT
1 TTCAATTTCTG-TTTTCAATT--TATCTTGTTC-AAAAA-TCAACTCATATTGCGAGAGGTGAGT
** * *
55572672 TGAGCCTCAGGTCCCGCTGAGGTATT
61 CAAGCCTCAGGGCACGCTGAGGTATT
* *
55572698 TTCAATTTCTGTTTTCAATTTATGTTGTTCAAGAATCAACTCATATTGCGAGAGGTG
1 TTCAATTTCTGTTTTCAATTTATCTTGTTCAAAAATCAACTCATATTGCGAGAGGTG
55572755 GGTTGAACCT
Statistics
Matches: 124, Mismatches: 15, Indels: 14
0.81 0.10 0.09
Matches are distributed among these distances:
86 33 0.27
87 19 0.15
88 16 0.13
89 56 0.45
ACGTcount: A:0.25, C:0.19, G:0.19, T:0.37
Consensus pattern (86 bp):
TTCAATTTCTGTTTTCAATTTATCTTGTTCAAAAATCAACTCATATTGCGAGAGGTGAGTCAAGC
CTCAGGGCACGCTGAGGTATT
Found at i:55572714 original size:13 final size:13
Alignment explanation
Indices: 55572696--55572729 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
55572686 CGCTGAGGTA
*
55572696 TTTTCAATTTCTG
1 TTTTCAATTTATG
55572709 TTTTCAATTTATG
1 TTTTCAATTTATG
55572722 TTGTTCAA
1 TT-TTCAA
55572730 GAATCAACTC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 14 0.74
14 5 0.26
ACGTcount: A:0.21, C:0.12, G:0.09, T:0.59
Consensus pattern (13 bp):
TTTTCAATTTATG
Found at i:55578112 original size:47 final size:47
Alignment explanation
Indices: 55578058--55578251 Score: 262
Period size: 47 Copynumber: 4.1 Consensus size: 47
55578048 TTAGGATTTT
** * *
55578058 ATGTGATGAATGTGAATGTGTATATATGAGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
55578105 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * * *
55578152 ATGTGATGTATGTGAGCATGCATATGTGTGATAAGGCCGAATGACCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * * * * *
55578199 ATGTGGTGAATATGAACATGCATATATGTGTTAAAGCCGAAGGGTCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
55578246 ATGTGA
1 ATGTGA
55578252 AATATATATA
Statistics
Matches: 128, Mismatches: 19, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
47 128 1.00
ACGTcount: A:0.33, C:0.11, G:0.29, T:0.27
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
Found at i:55578158 original size:22 final size:22
Alignment explanation
Indices: 55578087--55578158 Score: 58
Period size: 22 Copynumber: 3.1 Consensus size: 22
55578077 GTATATATGA
55578087 GATAAGGCCGAATGGCCAATGT
1 GATAAGGCCGAATGGCCAATGT
* * *
55578109 GATGAATG-TGAACAT-GCATATATGT
1 GAT-AAGGCCG-A-ATGGC-CA-ATGT
55578134 GATAAGGCCGAATGGCCAATGT
1 GATAAGGCCGAATGGCCAATGT
55578156 GAT
1 GAT
55578159 GTATGTGAGC
Statistics
Matches: 37, Mismatches: 6, Indels: 14
0.65 0.11 0.25
Matches are distributed among these distances:
22 11 0.30
23 9 0.24
24 9 0.24
25 8 0.22
ACGTcount: A:0.33, C:0.14, G:0.29, T:0.24
Consensus pattern (22 bp):
GATAAGGCCGAATGGCCAATGT
Found at i:55578563 original size:37 final size:37
Alignment explanation
Indices: 55578455--55578563 Score: 191
Period size: 37 Copynumber: 2.9 Consensus size: 37
55578445 GGAAATATAT
*
55578455 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
55578492 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
* *
55578529 TCCGGGTAAGACCCGATAACTTCGTGTGGAGATTT
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTT
55578564 CGTCTGAGCT
Statistics
Matches: 69, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 69 1.00
ACGTcount: A:0.23, C:0.19, G:0.31, T:0.27
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
Found at i:55580356 original size:40 final size:40
Alignment explanation
Indices: 55579833--55580344 Score: 970
Period size: 40 Copynumber: 12.8 Consensus size: 40
55579823 GAGAATTGAG
*
55579833 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
55579873 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
55579913 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
55579953 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
55579993 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
55580033 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
55580073 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
55580113 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
55580153 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
55580193 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
55580233 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
*
55580273 AGTGATGTATCCGGGCTAAGTTCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* * * *
55580313 GGTGTTATATCCGGGCTAGGTCCCGAAGAGCA
1 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCA
55580345 ATCATGCTGG
Statistics
Matches: 465, Mismatches: 7, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
40 465 1.00
ACGTcount: A:0.23, C:0.22, G:0.30, T:0.25
Consensus pattern (40 bp):
AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
Found at i:55584415 original size:47 final size:47
Alignment explanation
Indices: 55584356--55584549 Score: 280
Period size: 47 Copynumber: 4.1 Consensus size: 47
55584346 TTAGGATTTT
** * *
55584356 ATGTGATGAATGTGAATGTGTATATATGAGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
55584403 ATGTAATGAATGTGAACATGCAGATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
55584450 ATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * * *
55584497 ATGTGATGAATATGAACATGCATATATGTGGTAAAGCCGAATGGTCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
55584544 ATGTGA
1 ATGTGA
55584550 AATATATATA
Statistics
Matches: 131, Mismatches: 16, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
47 131 1.00
ACGTcount: A:0.34, C:0.11, G:0.29, T:0.26
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
Found at i:55584453 original size:22 final size:22
Alignment explanation
Indices: 55584428--55584503 Score: 59
Period size: 22 Copynumber: 3.3 Consensus size: 22
55584418 ACATGCAGAT
55584428 ATGTGATAAGGCCGAATGGCCA
1 ATGTGATAAGGCCGAATGGCCA
* *
55584450 ATGTGATGAATGTG-AGCAT-G-CA
1 ATGTGAT-AA-G-GCCGAATGGCCA
55584472 TATGTGTGATAAGGCCGAATGGCCA
1 -A--TGTGATAAGGCCGAATGGCCA
55584497 ATGTGAT
1 ATGTGAT
55584504 GAATATGAAC
Statistics
Matches: 41, Mismatches: 4, Indels: 18
0.65 0.06 0.29
Matches are distributed among these distances:
22 16 0.39
23 8 0.20
24 8 0.20
25 9 0.22
ACGTcount: A:0.30, C:0.13, G:0.32, T:0.25
Consensus pattern (22 bp):
ATGTGATAAGGCCGAATGGCCA
Found at i:55584861 original size:37 final size:37
Alignment explanation
Indices: 55584757--55584861 Score: 174
Period size: 37 Copynumber: 2.8 Consensus size: 37
55584747 ATATATTCCA
* *
55584757 GGTAAGACCCGATGACTACGTGTGGAGATTATGTTCG
1 GGTAAGACCCGATGACTACGTGTGGAGATTTTGTCCG
55584794 GGTAAGACCCGATGACTACGTGTGGAGATTTTGTCCG
1 GGTAAGACCCGATGACTACGTGTGGAGATTTTGTCCG
* *
55584831 GGTAAGACCCGATAACTTCGTGTGGAGATTT
1 GGTAAGACCCGATGACTACGTGTGGAGATTT
55584862 CGTCTGAGCT
Statistics
Matches: 64, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 64 1.00
ACGTcount: A:0.24, C:0.17, G:0.31, T:0.28
Consensus pattern (37 bp):
GGTAAGACCCGATGACTACGTGTGGAGATTTTGTCCG
Found at i:55586822 original size:60 final size:59
Alignment explanation
Indices: 55586758--55586875 Score: 218
Period size: 60 Copynumber: 2.0 Consensus size: 59
55586748 TTTGAAATTC
55586758 GCCCCAATATTCGCCTTCGTTTTAATTTTCATCCTTTTTTTTTACTTTTTTCCTCATTAG
1 GCCCCAATATTCGCCTTCGTTTTAATTTTCATCC-TTTTTTTTACTTTTTTCCTCATTAG
*
55586818 GCCCCAATATTCGCCTTCGTTTTAATTTTCGTCCTTTTTTTTACTTTTTTCCTCATTA
1 GCCCCAATATTCGCCTTCGTTTTAATTTTCATCCTTTTTTTTACTTTTTTCCTCATTA
55586876 TTCTATTTTA
Statistics
Matches: 57, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
59 24 0.42
60 33 0.58
ACGTcount: A:0.14, C:0.25, G:0.07, T:0.53
Consensus pattern (59 bp):
GCCCCAATATTCGCCTTCGTTTTAATTTTCATCCTTTTTTTTACTTTTTTCCTCATTAG
Found at i:55587706 original size:6 final size:6
Alignment explanation
Indices: 55587695--55587731 Score: 58
Period size: 6 Copynumber: 6.3 Consensus size: 6
55587685 TTACTTGTAT
*
55587695 TATTAC TATTAC TATTAT TATTAC TATTAC TA-TAC TA
1 TATTAC TATTAC TATTAC TATTAC TATTAC TATTAC TA
55587732 CCATTCTTTA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
5 5 0.17
6 24 0.83
ACGTcount: A:0.35, C:0.14, G:0.00, T:0.51
Consensus pattern (6 bp):
TATTAC
Found at i:55587706 original size:18 final size:18
Alignment explanation
Indices: 55587683--55587727 Score: 74
Period size: 18 Copynumber: 2.5 Consensus size: 18
55587673 ATTTCTAAAT
55587683 TATTACT-TGTATTATTAC
1 TATTACTAT-TATTATTAC
55587701 TATTACTATTATTATTAC
1 TATTACTATTATTATTAC
55587719 TATTACTAT
1 TATTACTAT
55587728 ACTACCATTC
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
18 25 0.96
19 1 0.04
ACGTcount: A:0.31, C:0.11, G:0.02, T:0.56
Consensus pattern (18 bp):
TATTACTATTATTATTAC
Found at i:55599968 original size:132 final size:132
Alignment explanation
Indices: 55599812--55600074 Score: 526
Period size: 132 Copynumber: 2.0 Consensus size: 132
55599802 TCGAATCCAG
55599812 CAAGTCTCATCTCCCTGAAGCCGCAGTGGAGCAGACTGAATTTATAGATCTTAACCCCTAAGCAG
1 CAAGTCTCATCTCCCTGAAGCCGCAGTGGAGCAGACTGAATTTATAGATCTTAACCCCTAAGCAG
55599877 TAGGGAAACAGATCGAAGATGATGGGCTTAACCCCCTAAGAAGTAGGGTAACAAGCCAAATTTAC
66 TAGGGAAACAGATCGAAGATGATGGGCTTAACCCCCTAAGAAGTAGGGTAACAAGCCAAATTTAC
55599942 AA
131 AA
55599944 CAAGTCTCATCTCCCTGAAGCCGCAGTGGAGCAGACTGAATTTATAGATCTTAACCCCTAAGCAG
1 CAAGTCTCATCTCCCTGAAGCCGCAGTGGAGCAGACTGAATTTATAGATCTTAACCCCTAAGCAG
55600009 TAGGGAAACAGATCGAAGATGATGGGCTTAACCCCCTAAGAAGTAGGGTAACAAGCCAAATTTAC
66 TAGGGAAACAGATCGAAGATGATGGGCTTAACCCCCTAAGAAGTAGGGTAACAAGCCAAATTTAC
55600074 A
131 A
55600075 GACCTTAAAT
Statistics
Matches: 131, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
132 131 1.00
ACGTcount: A:0.35, C:0.23, G:0.22, T:0.21
Consensus pattern (132 bp):
CAAGTCTCATCTCCCTGAAGCCGCAGTGGAGCAGACTGAATTTATAGATCTTAACCCCTAAGCAG
TAGGGAAACAGATCGAAGATGATGGGCTTAACCCCCTAAGAAGTAGGGTAACAAGCCAAATTTAC
AA
Found at i:55600082 original size:43 final size:43
Alignment explanation
Indices: 55600035--55600145 Score: 141
Period size: 43 Copynumber: 2.6 Consensus size: 43
55600025 AGATGATGGG
* * *
55600035 CTTAACCCCCTAAGAAGTAGGGTAACAAGCCAAATTTACAGAC
1 CTTAACCCCCTAAGCAGTAGGGAAACAAGCCAAATTCACAGAC
** * ** *
55600078 CTTAAATCCCTAAGCAGTAGGGAAACAGGTTAAATTCACAGAT
1 CTTAACCCCCTAAGCAGTAGGGAAACAAGCCAAATTCACAGAC
55600121 CTTAACCCCCTAAGCAGTAGGGAAA
1 CTTAACCCCCTAAGCAGTAGGGAAA
55600146 TAGATCGAAG
Statistics
Matches: 57, Mismatches: 11, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
43 57 1.00
ACGTcount: A:0.39, C:0.23, G:0.18, T:0.20
Consensus pattern (43 bp):
CTTAACCCCCTAAGCAGTAGGGAAACAAGCCAAATTCACAGAC
Found at i:55600880 original size:17 final size:16
Alignment explanation
Indices: 55600854--55600898 Score: 56
Period size: 17 Copynumber: 2.8 Consensus size: 16
55600844 CAAATAACTT
*
55600854 ACCCATAAACCCAACAG
1 ACCCA-AAACCCAACAA
55600871 ACCCACAAACCC-ACAA
1 ACCCA-AAACCCAACAA
55600887 ACCCAAAACCCA
1 ACCCAAAACCCA
55600899 TTAAAGACCC
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
15 6 0.24
16 8 0.32
17 11 0.44
ACGTcount: A:0.49, C:0.47, G:0.02, T:0.02
Consensus pattern (16 bp):
ACCCAAAACCCAACAA
Found at i:55600882 original size:8 final size:8
Alignment explanation
Indices: 55600854--55600898 Score: 56
Period size: 8 Copynumber: 5.6 Consensus size: 8
55600844 CAAATAACTT
*
55600854 ACCCATAA
1 ACCCACAA
*
55600862 ACCCAACAG
1 ACCC-ACAA
55600871 ACCCACAA
1 ACCCACAA
55600879 ACCCACAA
1 ACCCACAA
55600887 ACCCA-AA
1 ACCCACAA
55600894 ACCCA
1 ACCCA
55600899 TTAAAGACCC
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
7 7 0.21
8 20 0.61
9 6 0.18
ACGTcount: A:0.49, C:0.47, G:0.02, T:0.02
Consensus pattern (8 bp):
ACCCACAA
Found at i:55602819 original size:6 final size:6
Alignment explanation
Indices: 55602808--55602844 Score: 58
Period size: 6 Copynumber: 6.3 Consensus size: 6
55602798 TTACTTGTAT
*
55602808 TATTAC TATTAC TATTAT TATTAC TATTAC TA-TAC TA
1 TATTAC TATTAC TATTAC TATTAC TATTAC TATTAC TA
55602845 CCATTCTTTA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
5 5 0.17
6 24 0.83
ACGTcount: A:0.35, C:0.14, G:0.00, T:0.51
Consensus pattern (6 bp):
TATTAC
Found at i:55602819 original size:18 final size:18
Alignment explanation
Indices: 55602796--55602840 Score: 74
Period size: 18 Copynumber: 2.5 Consensus size: 18
55602786 ATTTCTAAAT
55602796 TATTACT-TGTATTATTAC
1 TATTACTAT-TATTATTAC
55602814 TATTACTATTATTATTAC
1 TATTACTATTATTATTAC
55602832 TATTACTAT
1 TATTACTAT
55602841 ACTACCATTC
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
18 25 0.96
19 1 0.04
ACGTcount: A:0.31, C:0.11, G:0.02, T:0.56
Consensus pattern (18 bp):
TATTACTATTATTATTAC
Found at i:55607414 original size:65 final size:65
Alignment explanation
Indices: 55607310--55607441 Score: 228
Period size: 65 Copynumber: 2.0 Consensus size: 65
55607300 GCTCGATAGT
55607310 GTGATGCAATCTCCGACGACTCCCAGTCCGAGTTAGCTTCGATATTCACTATAAAACACGAAAAA
1 GTGATGCAATCTCCGACGACTCCCAGTCCGAGTTAGCTTCGATATTCACTATAAAACACGAAAAA
* * * *
55607375 GTGATGCAATCTCCGATGACTCCTAGTTCGAGTTAGCTTCGATATTCACTATAAAACATGAAAAA
1 GTGATGCAATCTCCGACGACTCCCAGTCCGAGTTAGCTTCGATATTCACTATAAAACACGAAAAA
55607440 GT
1 GT
55607442 AAACAAAGTA
Statistics
Matches: 63, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
65 63 1.00
ACGTcount: A:0.33, C:0.23, G:0.17, T:0.27
Consensus pattern (65 bp):
GTGATGCAATCTCCGACGACTCCCAGTCCGAGTTAGCTTCGATATTCACTATAAAACACGAAAAA
Found at i:55614237 original size:14 final size:15
Alignment explanation
Indices: 55614213--55614241 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
55614203 TACTAATTAC
55614213 TATATTAACCTTTAA
1 TATATTAACCTTTAA
55614228 TATA-TAACCTTTAA
1 TATATTAACCTTTAA
55614242 AGTCATTAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.41, C:0.14, G:0.00, T:0.45
Consensus pattern (15 bp):
TATATTAACCTTTAA
Found at i:55615491 original size:20 final size:19
Alignment explanation
Indices: 55615466--55615512 Score: 62
Period size: 18 Copynumber: 2.5 Consensus size: 19
55615456 GTTCCCAACT
55615466 CATTTCACAATTTCATA-TTC
1 CATTTCACAATTT--TACTTC
55615486 CATTTCAC-ATTTTACTTC
1 CATTTCACAATTTTACTTC
55615504 CATTTCACA
1 CATTTCACA
55615513 TCATTTGTCA
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
17 2 0.08
18 11 0.44
19 4 0.16
20 8 0.32
ACGTcount: A:0.28, C:0.28, G:0.00, T:0.45
Consensus pattern (19 bp):
CATTTCACAATTTTACTTC
Found at i:55617319 original size:68 final size:67
Alignment explanation
Indices: 55617177--55617321 Score: 150
Period size: 68 Copynumber: 2.1 Consensus size: 67
55617167 AGTCCGTCAT
* * * * * *
55617177 GACAATAAATAGGAGATTATACTGTGTAAGACCATATTGGGCTATAGCAACATATGAATTCCGCC
1 GACAATAAACAGGAGATTATACTATGTAAGACCATATGGGGCTATAGCAACAAATGAAGTCCACC
55617242 AG
66 AG
* * * *
55617244 GATAATAAACATGG-GATTATATTATGTAAGAGCATAGTGGGGCTAT-GACAACAAATGAAGTCT
1 GACAATAAACA-GGAGATTATACTATGTAAGACCATA-TGGGGCTATAG-CAACAAATGAAGTCC
*
55617307 ACTAG
63 ACCAG
55617312 GACAATAAAC
1 GACAATAAAC
55617322 CAAGAAGCCC
Statistics
Matches: 63, Mismatches: 12, Indels: 5
0.79 0.15 0.06
Matches are distributed among these distances:
67 29 0.46
68 34 0.54
ACGTcount: A:0.40, C:0.14, G:0.21, T:0.25
Consensus pattern (67 bp):
GACAATAAACAGGAGATTATACTATGTAAGACCATATGGGGCTATAGCAACAAATGAAGTCCACC
AG
Found at i:55620526 original size:33 final size:33
Alignment explanation
Indices: 55620480--55620543 Score: 101
Period size: 33 Copynumber: 1.9 Consensus size: 33
55620470 TATCTGCATC
* *
55620480 TGATACTGATTCTGTATTGGGCTTAGGCCCATT
1 TGATACTGATTCTGTAATGGGCTCAGGCCCATT
*
55620513 TGATACTGTTTCTGTAATGGGCTCAGGCCCA
1 TGATACTGATTCTGTAATGGGCTCAGGCCCA
55620544 GTCTGTTTTC
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
33 28 1.00
ACGTcount: A:0.19, C:0.20, G:0.25, T:0.36
Consensus pattern (33 bp):
TGATACTGATTCTGTAATGGGCTCAGGCCCATT
Found at i:55626949 original size:24 final size:23
Alignment explanation
Indices: 55626882--55626956 Score: 116
Period size: 23 Copynumber: 3.3 Consensus size: 23
55626872 TCTAAGCTTA
55626882 TGTGGCGTATTCTATTTGGCCTT
1 TGTGGCGTATTCTATTTGGCCTT
* *
55626905 TTTGGCGAATTCTA-TTGGCCTT
1 TGTGGCGTATTCTATTTGGCCTT
55626927 TGTGGCGTACTTCTATTTGGCCTT
1 TGTGGCGTA-TTCTATTTGGCCTT
55626951 TGTGGC
1 TGTGGC
55626957 ATAATTTGCT
Statistics
Matches: 46, Mismatches: 4, Indels: 3
0.87 0.08 0.06
Matches are distributed among these distances:
22 15 0.33
23 17 0.37
24 14 0.30
ACGTcount: A:0.09, C:0.19, G:0.27, T:0.45
Consensus pattern (23 bp):
TGTGGCGTATTCTATTTGGCCTT
Found at i:55631961 original size:13 final size:15
Alignment explanation
Indices: 55631943--55631974 Score: 50
Period size: 13 Copynumber: 2.3 Consensus size: 15
55631933 TTTCATAAAT
55631943 GTCATTTT-CAT-TA
1 GTCATTTTACATATA
55631956 GTCATTTTACATATA
1 GTCATTTTACATATA
55631971 GTCA
1 GTCA
55631975 GTTCATATAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
13 8 0.47
14 3 0.18
15 6 0.35
ACGTcount: A:0.28, C:0.16, G:0.09, T:0.47
Consensus pattern (15 bp):
GTCATTTTACATATA
Found at i:55632086 original size:25 final size:25
Alignment explanation
Indices: 55632051--55632115 Score: 94
Period size: 25 Copynumber: 2.6 Consensus size: 25
55632041 CGAGAAAATG
*
55632051 CTCACACGAGCTGTATCTGTGAATA
1 CTCACATGAGCTGTATCTGTGAATA
* *
55632076 CTCACATGAGCTATATCTGTGAATG
1 CTCACATGAGCTGTATCTGTGAATA
*
55632101 CTCACATGAGTTGTA
1 CTCACATGAGCTGTA
55632116 ACTATAAATG
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 35 1.00
ACGTcount: A:0.28, C:0.22, G:0.20, T:0.31
Consensus pattern (25 bp):
CTCACATGAGCTGTATCTGTGAATA
Found at i:55632125 original size:25 final size:25
Alignment explanation
Indices: 55632046--55632131 Score: 91
Period size: 25 Copynumber: 3.4 Consensus size: 25
55632036 ATACGCGAGA
*
55632046 AAATGCTCACACGAGCTGTATCTGT
1 AAATGCTCACATGAGCTGTATCTGT
* * *
55632071 GAATACTCACATGAGCTATATCTGT
1 AAATGCTCACATGAGCTGTATCTGT
* * * *
55632096 GAATGCTCACATGAGTTGTAACTAT
1 AAATGCTCACATGAGCTGTATCTGT
*
55632121 AAATGTTCACA
1 AAATGCTCACA
55632132 CAAGTTGTGA
Statistics
Matches: 50, Mismatches: 11, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
25 50 1.00
ACGTcount: A:0.33, C:0.20, G:0.17, T:0.30
Consensus pattern (25 bp):
AAATGCTCACATGAGCTGTATCTGT
Found at i:55633464 original size:4 final size:4
Alignment explanation
Indices: 55633451--55633485 Score: 56
Period size: 4 Copynumber: 9.2 Consensus size: 4
55633441 TATTAACTCT
55633451 ATAA AT-A ATAA ATAA ATAA ATAA ATAA AT-A ATAA A
1 ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA A
55633486 ATACTGATAC
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
3 6 0.21
4 23 0.79
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (4 bp):
ATAA
Found at i:55645895 original size:45 final size:44
Alignment explanation
Indices: 55645811--55645895 Score: 125
Period size: 45 Copynumber: 1.9 Consensus size: 44
55645801 ATGTAATCTG
* *
55645811 AACTTATTGAGTTGTGTCTGAGTTCATGAAATATGTGACATCCA
1 AACTCATTGAGTTGTGTCTGAGTTCATGAAATATATGACATCCA
* *
55645855 AACTCATTGAGTTGTGGTCTGAGTTCATGATATGTATGACA
1 AACTCATTGAGTTGT-GTCTGAGTTCATGAAATATATGACA
55645896 CATGTTTTGG
Statistics
Matches: 36, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
44 14 0.39
45 22 0.61
ACGTcount: A:0.28, C:0.13, G:0.22, T:0.36
Consensus pattern (44 bp):
AACTCATTGAGTTGTGTCTGAGTTCATGAAATATATGACATCCA
Found at i:55649732 original size:21 final size:21
Alignment explanation
Indices: 55649702--55649761 Score: 77
Period size: 21 Copynumber: 2.9 Consensus size: 21
55649692 TGTAACAAGA
* *
55649702 AAAAAG-GAAGTGAGTTAGAC
1 AAAAAGAGAAGTAACTTAGAC
* *
55649722 AAAAAGAGAAGCAACTTGGAC
1 AAAAAGAGAAGTAACTTAGAC
55649743 AAAAAGAGAAGTAACTTAG
1 AAAAAGAGAAGTAACTTAG
55649762 CCATTGGAAT
Statistics
Matches: 33, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
20 6 0.18
21 27 0.82
ACGTcount: A:0.53, C:0.08, G:0.25, T:0.13
Consensus pattern (21 bp):
AAAAAGAGAAGTAACTTAGAC
Found at i:55652420 original size:43 final size:43
Alignment explanation
Indices: 55652354--55652488 Score: 159
Period size: 43 Copynumber: 3.1 Consensus size: 43
55652344 AGCTCGTACA
* *
55652354 ATGCCAAC-GTCCCAGACATGGTCTTACATGTAATCAAATATCG
1 ATGCC-ACTGTCCCAGAAATGGTCTTACACGTAATCAAATATCG
* * *
55652397 ATGCCACTGTCCCAGAGAGGGTCTTACACGAAATCAAATA-CG
1 ATGCCACTGTCCCAGAAATGGTCTTACACGTAATCAAATATCG
* *
55652439 ATGCTAATGTCCCAGAAATGGTCTTACACGTACATCATAAT-TCG
1 ATGCCACTGTCCCAGAAATGGTCTTACACGTA-ATCA-AATATCG
55652483 ATGCCA
1 ATGCCA
55652489 ACATCCTAGA
Statistics
Matches: 78, Mismatches: 10, Indels: 7
0.82 0.11 0.07
Matches are distributed among these distances:
42 31 0.40
43 37 0.47
44 10 0.13
ACGTcount: A:0.33, C:0.25, G:0.18, T:0.24
Consensus pattern (43 bp):
ATGCCACTGTCCCAGAAATGGTCTTACACGTAATCAAATATCG
Found at i:55660008 original size:42 final size:41
Alignment explanation
Indices: 55659918--55660055 Score: 134
Period size: 42 Copynumber: 3.2 Consensus size: 41
55659908 TTCCTAGACG
* * * *
55659918 TGGTCTTACATGTAATCAAATATCAATGCCACTGTCCCAGACA
1 TGGTCTTACACGAAATCAAATA-CGATGCCA-TGTCCCATACA
*
55659961 GGGTCTTACACGAAATCAAATACGATGCCGATGTCCCATACA
1 TGGTCTTACACGAAATCAAATACGATGCC-ATGTCCCATACA
** *
55660003 TGGTCTTACACGTAAATCATAAGT-CGATGCCAACATCCTATACA
1 TGGTCTTACACG-AAATCA-AA-TACGATGCC-ATGTCCCATACA
55660047 TGGTCTTAC
1 TGGTCTTAC
55660056 GCGAGTACAC
Statistics
Matches: 81, Mismatches: 10, Indels: 7
0.83 0.10 0.07
Matches are distributed among these distances:
42 27 0.33
43 26 0.32
44 27 0.33
45 1 0.01
ACGTcount: A:0.32, C:0.25, G:0.16, T:0.27
Consensus pattern (41 bp):
TGGTCTTACACGAAATCAAATACGATGCCATGTCCCATACA
Found at i:55660046 original size:44 final size:42
Alignment explanation
Indices: 55659918--55660055 Score: 127
Period size: 44 Copynumber: 3.2 Consensus size: 42
55659908 TTCCTAGACG
* * * * *
55659918 TGGTCTTACATGTAATCAAATATCAATGCC-ACTGTCCCAGACA
1 TGGTCTTACACGAAATCAAATA-CGATGCCAAC-ATCCCATACA
* * **
55659961 GGGTCTTACACGAAATCAAATACGATGCCGATGTCCCATACA
1 TGGTCTTACACGAAATCAAATACGATGCCAACATCCCATACA
*
55660003 TGGTCTTACACGTAAATCATAAGT-CGATGCCAACATCCTATACA
1 TGGTCTTACACG-AAATCA-AA-TACGATGCCAACATCCCATACA
55660047 TGGTCTTAC
1 TGGTCTTAC
55660056 GCGAGTACAC
Statistics
Matches: 80, Mismatches: 11, Indels: 7
0.82 0.11 0.07
Matches are distributed among these distances:
42 26 0.32
43 26 0.32
44 27 0.34
45 1 0.01
ACGTcount: A:0.32, C:0.25, G:0.16, T:0.27
Consensus pattern (42 bp):
TGGTCTTACACGAAATCAAATACGATGCCAACATCCCATACA
Found at i:55664834 original size:55 final size:54
Alignment explanation
Indices: 55664726--55664970 Score: 202
Period size: 55 Copynumber: 4.6 Consensus size: 54
55664716 ATTAGGGTTT
* *
55664726 AAGGATACCATGTAAGACCATGCCAAGGCATGGTAATTGGTAAGGTT-TCTAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGT-ATTGGTAA-GTTCTATAAGGC
* * * * * *
55664781 CAGGATACCAGGTAAGACCATGTCAAGACAAGGTATTGATAAGTTACTATAAGGAA
1 AAGGATACCATGTAAGACCATGCCAAGACATGGTATTGGTAAGTT-CTATAAGG-C
* * * *
55664837 AAGG-T-CACATCTAAGACCATGCCAAGGCATGGCATTGGTGAGTTC-ATAAGGC
1 AAGGATAC-CATGTAAGACCATGCCAAGACATGGTATTGGTAAGTTCTATAAGGC
* * * * *
55664889 AATGATACCATGTAAGACCATGTCAAGACATGGCAATGGTAAGTT-T-CAA---
1 AAGGATACCATGTAAGACCATGCCAAGACATGGTATTGGTAAGTTCTATAAGGC
* * *
55664938 AAGGATACCACGTAAGACCATGACAAGTCATGG
1 AAGGATACCATGTAAGACCATGCCAAGACATGG
55664971 AAATAGTAAG
Statistics
Matches: 154, Mismatches: 29, Indels: 20
0.76 0.14 0.10
Matches are distributed among these distances:
49 29 0.19
52 5 0.03
53 42 0.27
54 10 0.06
55 65 0.42
56 3 0.02
ACGTcount: A:0.36, C:0.18, G:0.24, T:0.22
Consensus pattern (54 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGTATTGGTAAGTTCTATAAGGC
Found at i:55672508 original size:39 final size:39
Alignment explanation
Indices: 55672465--55672586 Score: 147
Period size: 39 Copynumber: 3.1 Consensus size: 39
55672455 CTCGAATATA
**
55672465 TTCCAGCACGTAGCCTGCAAACCTCAAGTTCGGATATGT
1 TTCCAGCACGTAGCCTGCGGACCTCAAGTTCGGATATGT
* * ** *
55672504 TTCCAGAAGGTAGCCTATGGACCTCACG-TCTGGATATGT
1 TTCCAGCACGTAGCCTGCGGACCTCAAGTTC-GGATATGT
* *
55672543 TTCCAGCACGTAGCCTGCGGACCTCAAGTCCAGATATGT
1 TTCCAGCACGTAGCCTGCGGACCTCAAGTTCGGATATGT
55672582 TTCCA
1 TTCCA
55672587 AATATCATGC
Statistics
Matches: 67, Mismatches: 14, Indels: 4
0.79 0.16 0.05
Matches are distributed among these distances:
38 2 0.03
39 64 0.96
40 1 0.01
ACGTcount: A:0.24, C:0.28, G:0.22, T:0.26
Consensus pattern (39 bp):
TTCCAGCACGTAGCCTGCGGACCTCAAGTTCGGATATGT
Found at i:55673260 original size:21 final size:22
Alignment explanation
Indices: 55673234--55673279 Score: 85
Period size: 21 Copynumber: 2.1 Consensus size: 22
55673224 TGCATATTCT
55673234 AATTTCATAAACTAATTTAC-A
1 AATTTCATAAACTAATTTACTA
55673255 AATTTCATAAACTAATTTACTA
1 AATTTCATAAACTAATTTACTA
55673277 AAT
1 AAT
55673280 CAATGTATAA
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.48, C:0.13, G:0.00, T:0.39
Consensus pattern (22 bp):
AATTTCATAAACTAATTTACTA
Found at i:55674984 original size:46 final size:46
Alignment explanation
Indices: 55674931--55675057 Score: 191
Period size: 46 Copynumber: 2.8 Consensus size: 46
55674921 TGGTTGAGCA
*
55674931 TCCGAACTCGTTGAGTTGAGTTCGAGTTCACTTATAGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATAGATGCAAATG
* * *
55674977 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATAGATGCAAATG
* * *
55675023 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTAT
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTAT
55675058 GGGCGGGTTA
Statistics
Matches: 73, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
46 73 1.00
ACGTcount: A:0.21, C:0.21, G:0.27, T:0.31
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATAGATGCAAATG
Found at i:55683149 original size:39 final size:39
Alignment explanation
Indices: 55683097--55683227 Score: 169
Period size: 39 Copynumber: 3.4 Consensus size: 39
55683087 GACTTTAGGC
55683097 CCGGATATA-TTCCAGCGCGTAGCCTGCAGACCTCAAGT
1 CCGGATATATTTCCAGCGCGTAGCCTGCAGACCTCAAGT
* *
55683135 CCGGATATATTTCCAGCAG-GTAGCCTGCGGACCTCACGT
1 CCGGATATATTTCCAGC-GCGTAGCCTGCAGACCTCAAGT
* * *
55683174 CCGGATATGTTTCCAGCACGTAGCCTG-TGAACCTCAAGT
1 CCGGATATATTTCCAGCGCGTAGCCTGCAG-ACCTCAAGT
*
55683213 CCGAATATATTTCCA
1 CCGGATATATTTCCA
55683228 AATATCATGA
Statistics
Matches: 81, Mismatches: 8, Indels: 7
0.84 0.08 0.07
Matches are distributed among these distances:
38 10 0.12
39 70 0.86
40 1 0.01
ACGTcount: A:0.24, C:0.30, G:0.22, T:0.24
Consensus pattern (39 bp):
CCGGATATATTTCCAGCGCGTAGCCTGCAGACCTCAAGT
Found at i:55683885 original size:21 final size:22
Alignment explanation
Indices: 55683859--55683904 Score: 85
Period size: 21 Copynumber: 2.1 Consensus size: 22
55683849 TGCATATTCT
55683859 AATTTCATAAACTAATTTAC-A
1 AATTTCATAAACTAATTTACTA
55683880 AATTTCATAAACTAATTTACTA
1 AATTTCATAAACTAATTTACTA
55683902 AAT
1 AAT
55683905 CAATGTATAA
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.48, C:0.13, G:0.00, T:0.39
Consensus pattern (22 bp):
AATTTCATAAACTAATTTACTA
Found at i:55684291 original size:50 final size:50
Alignment explanation
Indices: 55684195--55684300 Score: 124
Period size: 50 Copynumber: 2.1 Consensus size: 50
55684185 ATTGGAACAC
* * * * *
55684195 CACATAAATACTTACCTATATGACCGGATATACCAAATTCATTATATCAT
1 CACATAAATACATACCTATAAGACCGAATATACCAAACTCAATATATCAT
* * *
55684245 TACATAAGTACATACCTATAAGACCGAATATA-CAAGGCTCAATATATCAT
1 CACATAAATACATACCTATAAGACCGAATATACCAA-ACTCAATATATCAT
55684295 CACATA
1 CACATA
55684301 TGGCTAGTTA
Statistics
Matches: 46, Mismatches: 9, Indels: 2
0.81 0.16 0.04
Matches are distributed among these distances:
49 3 0.07
50 43 0.93
ACGTcount: A:0.42, C:0.22, G:0.08, T:0.28
Consensus pattern (50 bp):
CACATAAATACATACCTATAAGACCGAATATACCAAACTCAATATATCAT
Found at i:55686256 original size:55 final size:53
Alignment explanation
Indices: 55686169--55686423 Score: 249
Period size: 55 Copynumber: 4.8 Consensus size: 53
55686159 ATTAAGTTTT
55686169 AAGGATACCATGTAAGACCATGCCAAGGCATGGAAATTGGTAAGGCTTC-TAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGGCATGG-AATTGGTAA-G-TTCATAAGGC
* * * *
55686224 AAGGATACCATGTAAGACCATGTCAAGACATGGCATTGATAAGTTACTATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGGCATGGAATTGGTAAGTT-C-ATAAGGC
* * * *
55686279 AAAGG-TCCCATGTAAGACCATGCCAAGGCATGGCATTAGTGAGTTCATAAGGC
1 -AAGGATACCATGTAAGACCATGCCAAGGCATGGAATTGGTAAGTTCATAAGGC
**
55686332 AATCATACCATGTAAGACCATGCCAAGGCATGGCAA-TGGTAAGTT--TCAA---
1 AAGGATACCATGTAAGACCATGCCAAGGCATGG-AATTGGTAAGTTCAT-AAGGC
* * *
55686381 AAGGATACCACGTAAGACCATGACAAGTCATGGCAA-TGGTAAG
1 AAGGATACCATGTAAGACCATGCCAAGGCATGG-AATTGGTAAG
55686424 GTACCCGTGT
Statistics
Matches: 172, Mismatches: 21, Indels: 20
0.81 0.10 0.09
Matches are distributed among these distances:
49 38 0.22
51 1 0.01
52 6 0.03
53 43 0.25
54 9 0.05
55 71 0.41
56 4 0.02
ACGTcount: A:0.36, C:0.19, G:0.24, T:0.21
Consensus pattern (53 bp):
AAGGATACCATGTAAGACCATGCCAAGGCATGGAATTGGTAAGTTCATAAGGC
Found at i:55686375 original size:108 final size:110
Alignment explanation
Indices: 55686176--55686376 Score: 291
Period size: 108 Copynumber: 1.8 Consensus size: 110
55686166 TTTAAGGATA
* *
55686176 CCATGTAAGACCATGCCAAGGCATGGAAATTGGTAAGGCTTCTAAGGCAAGGATACCATGTAAGA
1 CCATGTAAGACCATGCCAAGGCATGGAAATTAGTAAGGCTTCTAAGGCAAGCATACCATGTAAGA
* *
55686241 CCATGTCAAGACATGGCATTGATAAGTTACTATAAGGCAAAGGTC
66 CCATGCCAAGACATGGCAATGATAAGTTACTATAAGGCAAAGGTC
* * *
55686286 CCATGTAAGACCATGCCAAGGCATGG-CATTAGTGA-G-TTCATAAGGCAATCATACCATGTAAG
1 CCATGTAAGACCATGCCAAGGCATGGAAATTAGTAAGGCTTC-TAAGGCAAGCATACCATGTAAG
* *
55686348 ACCATGCCAAGGCATGGCAATGGTAAGTT
65 ACCATGCCAAGACATGGCAATGATAAGTT
55686377 TCAAAAGGAT
Statistics
Matches: 81, Mismatches: 9, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
107 3 0.04
108 46 0.57
109 6 0.07
110 26 0.32
ACGTcount: A:0.34, C:0.19, G:0.24, T:0.22
Consensus pattern (110 bp):
CCATGTAAGACCATGCCAAGGCATGGAAATTAGTAAGGCTTCTAAGGCAAGCATACCATGTAAGA
CCATGCCAAGACATGGCAATGATAAGTTACTATAAGGCAAAGGTC
Found at i:55690593 original size:54 final size:55
Alignment explanation
Indices: 55690488--55690602 Score: 126
Period size: 54 Copynumber: 2.1 Consensus size: 55
55690478 CACAGTGTCT
* * * * * *
55690488 CACATGGCCTAGCATACGATCGTGTGACTCAAGTCAGAGAATTAGATGGTCT-GG
1 CACATGGCCTAGCACACGATCGTATGACTCAAATCAGAGAATTACACGGTCTAGA
* * *
55690542 CACATGGCCT-GACACACGTTCGTATGACTCAAATCGGAGAGTTACACGGTCTAGA
1 CACATGGCCTAG-CACACGATCGTATGACTCAAATCAGAGAATTACACGGTCTAGA
55690597 CACATG
1 CACATG
55690603 CCCATGTTGC
Statistics
Matches: 50, Mismatches: 9, Indels: 3
0.81 0.15 0.05
Matches are distributed among these distances:
53 1 0.02
54 42 0.84
55 7 0.14
ACGTcount: A:0.29, C:0.23, G:0.25, T:0.23
Consensus pattern (55 bp):
CACATGGCCTAGCACACGATCGTATGACTCAAATCAGAGAATTACACGGTCTAGA
Found at i:55692436 original size:42 final size:46
Alignment explanation
Indices: 55692390--55692627 Score: 228
Period size: 48 Copynumber: 5.2 Consensus size: 46
55692380 CATTGTTCAA
55692390 CTATGGTCTTACAC-AT-C-T-TCACATAAT-GATGCCATAGCCCAG
1 CTATGGTCTTACACGATACATATCACAT-ATCGATGCCATAGCCCAG
* **
55692432 CTATGGTCTTACAC-AT--AT-TCATATATCGATGAGATAGCCCAG
1 CTATGGTCTTACACGATACATATCACATATCGATGCCATAGCCCAG
* *
55692474 CTATGGTCTTACACGTAATCACATATCACTTATCGATGCCATAGCCTAG
1 CTATGGTCTTACACG--AT-ACATATCACATATCGATGCCATAGCCCAG
55692523 CTATGGTCTTACACGGATCACATATCACATATCGATGCCATAGCCCAG
1 CTATGGTCTTACAC-GAT-ACATATCACATATCGATGCCATAGCCCAG
** * * *
55692571 CTATGGTCTTACATAAATCACATATCTCAT-T-GATTCCATATCCCAG
1 CTATGGTCTTACA-CGAT-ACATATCACATATCGATGCCATAGCCCAG
*
55692617 ATATGGTCTTA
1 CTATGGTCTTA
55692628 TACAGTAGCA
Statistics
Matches: 169, Mismatches: 16, Indels: 18
0.83 0.08 0.09
Matches are distributed among these distances:
41 2 0.01
42 49 0.29
45 2 0.01
46 23 0.14
47 1 0.01
48 58 0.34
49 33 0.20
50 1 0.01
ACGTcount: A:0.29, C:0.26, G:0.14, T:0.31
Consensus pattern (46 bp):
CTATGGTCTTACACGATACATATCACATATCGATGCCATAGCCCAG
Found at i:55692562 original size:48 final size:48
Alignment explanation
Indices: 55692443--55692748 Score: 260
Period size: 48 Copynumber: 6.2 Consensus size: 48
55692433 TATGGTCTTA
* **
55692443 CACATATTCATATATCGATGAGATAGCCCAGCTATGGTCTTACACGTAAT
1 CACATA-TCACATATCGATGCCATAGCCCAGCTATGGTCTTACACG-AAT
* * *
55692493 CACATATCACTTATCGATGCCATAGCCTAGCTATGGTCTTACACGGAT
1 CACATATCACATATCGATGCCATAGCCCAGCTATGGTCTTACACGAAT
**
55692541 CACATATCACATATCGATGCCATAGCCCAGCTATGGTCTTACATAAAT
1 CACATATCACATATCGATGCCATAGCCCAGCTATGGTCTTACACGAAT
* * * * * * *
55692589 CACATATCTCAT-T-GATTCCATATCCCAGATATGGTCTTATACAGTAG
1 CACATATCACATATCGATGCCATAGCCCAGCTATGGTCTTACAC-GAAT
* * * ** * *
55692636 CATATATCAC--AGCGATGCCATATCCCAAATATGGTCTTATACGGAAG
1 CACATATCACATATCGATGCCATAGCCCAGCTATGGTCTTACAC-GAAT
* * * *
55692683 CACATAATCACATCTCTCCAATGCCATAGCCCAGCCATGGTCTTATACAGAAAT
1 CACAT-ATCACA--TAT-CGATGCCATAGCCCAGCTATGGTCTTACAC-G-AAT
55692737 CACATATCACAT
1 CACATATCACAT
55692749 GTTGCCATGG
Statistics
Matches: 209, Mismatches: 37, Indels: 19
0.79 0.14 0.07
Matches are distributed among these distances:
46 24 0.11
47 44 0.21
48 61 0.29
49 34 0.16
50 6 0.03
51 1 0.00
53 32 0.15
54 7 0.03
ACGTcount: A:0.32, C:0.26, G:0.14, T:0.28
Consensus pattern (48 bp):
CACATATCACATATCGATGCCATAGCCCAGCTATGGTCTTACACGAAT
Found at i:55695863 original size:31 final size:30
Alignment explanation
Indices: 55695806--55695864 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 30
55695796 TCAACTTGAG
* *
55695806 AAAAAATTATTTAAATACCACTTATGATAA
1 AAAAAAATATTTAAATACCACCTATGATAA
*
55695836 AAAAAAATATTTAAGTACCACCCTATGAT
1 AAAAAAATATTTAAATACCA-CCTATGAT
55695865 TTAAGTAACA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
30 18 0.72
31 7 0.28
ACGTcount: A:0.51, C:0.14, G:0.05, T:0.31
Consensus pattern (30 bp):
AAAAAAATATTTAAATACCACCTATGATAA
Found at i:55699737 original size:42 final size:42
Alignment explanation
Indices: 55699677--55699757 Score: 126
Period size: 42 Copynumber: 1.9 Consensus size: 42
55699667 TCACATGGCT
55699677 GTGTAACTCTCTGACTTGCCATACACGACCGTGTCGCAGGTC
1 GTGTAACTCTCTGACTTGCCATACACGACCGTGTCGCAGGTC
* * * *
55699719 GTGTAACTCTCTGGCTTGCCATGCATGGCCGTGTCGCAG
1 GTGTAACTCTCTGACTTGCCATACACGACCGTGTCGCAG
55699758 CCGTGTGCTA
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 35 1.00
ACGTcount: A:0.16, C:0.30, G:0.27, T:0.27
Consensus pattern (42 bp):
GTGTAACTCTCTGACTTGCCATACACGACCGTGTCGCAGGTC
Found at i:55706964 original size:28 final size:29
Alignment explanation
Indices: 55706924--55706979 Score: 80
Period size: 28 Copynumber: 2.0 Consensus size: 29
55706914 CCAGGTTTTT
55706924 GGACACAGGCGTGT-C-TAGGCCGTGTGAG
1 GGACACAGGCGTGTGCTTA-GCCGTGTGAG
*
55706952 GGACACGGGCGTGTGCTTAGCCGTGTGA
1 GGACACAGGCGTGTGCTTAGCCGTGTGA
55706980 AAACCCTTGT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
28 13 0.52
29 10 0.40
30 2 0.08
ACGTcount: A:0.16, C:0.21, G:0.43, T:0.20
Consensus pattern (29 bp):
GGACACAGGCGTGTGCTTAGCCGTGTGAG
Found at i:55707206 original size:23 final size:23
Alignment explanation
Indices: 55707180--55707224 Score: 81
Period size: 23 Copynumber: 2.0 Consensus size: 23
55707170 GGACCTCGTA
55707180 GGTCCATAATTAGGACAATACGT
1 GGTCCATAATTAGGACAATACGT
*
55707203 GGTCCATAATTGGGACAATACG
1 GGTCCATAATTAGGACAATACG
55707225 ATTCTATTGG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.33, C:0.18, G:0.24, T:0.24
Consensus pattern (23 bp):
GGTCCATAATTAGGACAATACGT
Found at i:55714363 original size:18 final size:20
Alignment explanation
Indices: 55714340--55714380 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
55714330 TGTGGTAGGT
55714340 CGTATGG-TTA-CACACGCC
1 CGTATGGCTTAGCACACGCC
*
55714358 CGTATGGCTTAGGACACGCC
1 CGTATGGCTTAGCACACGCC
55714378 CGT
1 CGT
55714381 GTCCTCAGCC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 7 0.35
19 3 0.15
20 10 0.50
ACGTcount: A:0.20, C:0.32, G:0.27, T:0.22
Consensus pattern (20 bp):
CGTATGGCTTAGCACACGCC
Found at i:55720322 original size:15 final size:15
Alignment explanation
Indices: 55720304--55720335 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
55720294 CAAACTCTTA
55720304 AAAATAGTATAGGTT
1 AAAATAGTATAGGTT
55720319 AAAATAGTATAGGTT
1 AAAATAGTATAGGTT
55720334 AA
1 AA
55720336 TGTATAACAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.50, C:0.00, G:0.19, T:0.31
Consensus pattern (15 bp):
AAAATAGTATAGGTT
Found at i:55724557 original size:47 final size:48
Alignment explanation
Indices: 55724284--55724558 Score: 246
Period size: 47 Copynumber: 5.8 Consensus size: 48
55724274 CATAGGGTAT
* *
55724284 AATGCTGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCTATCT-
1 AATGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTC-TC-ATCTC
* * * **
55724333 AGTG--GATGCCATGTCCTAGACATGGTCTTACACT-GACTATCGAAATC
1 AATGCCGATGCCATGTCCCAGACATGGTCTTACACTAG-CTCTC-ATCTC
* * * *
55724380 AAGGCCAATGCCATGTCCCAGACGTGGTCTTACACTAGCTCTCACATATC
1 AATGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCT--CATCTC
** * * * *
55724430 CGTGCTGATGCCATGTCCAAGACATGGTCTTACACT-G-ACACATCTC
1 AATGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATCTC
* *
55724476 -GTAGCCGATG-CATGCCCCAGACAT-GTCTTACACTAGCTCTCATCTC
1 AAT-GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATCTC
55724522 AATGCCGATGCCATGTCCCAGACAT-GTCTTACACTAG
1 AATGCCGATGCCATGTCCCAGACATGGTCTTACACTAG
55724559 TGCACAAATA
Statistics
Matches: 184, Mismatches: 30, Indels: 26
0.77 0.12 0.11
Matches are distributed among these distances:
44 10 0.05
45 15 0.08
46 30 0.16
47 59 0.32
48 1 0.01
49 34 0.18
50 34 0.18
51 1 0.01
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.27
Consensus pattern (48 bp):
AATGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATCTC
Found at i:55738226 original size:5 final size:5
Alignment explanation
Indices: 55738216--55738249 Score: 59
Period size: 5 Copynumber: 6.6 Consensus size: 5
55738206 AAATCTGTGA
55738216 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAAT AAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT -AAAAT AAA
55738250 GAACACACAG
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
5 23 0.82
6 5 0.18
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (5 bp):
AAAAT
Found at i:55745787 original size:15 final size:15
Alignment explanation
Indices: 55745767--55745821 Score: 69
Period size: 15 Copynumber: 3.8 Consensus size: 15
55745757 ACTCTCCTCA
*
55745767 TTCTTTTCTTTCTTT
1 TTCTTTTCTCTCTTT
*
55745782 TTCTTTTCACTCTTT
1 TTCTTTTCTCTCTTT
*
55745797 TTGTTTT-TCTCTTT
1 TTCTTTTCTCTCTTT
55745811 TTCTTTT-TCTC
1 TTCTTTTCTCTC
55745822 GATCAATAGA
Statistics
Matches: 35, Mismatches: 5, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
14 16 0.46
15 19 0.54
ACGTcount: A:0.02, C:0.22, G:0.02, T:0.75
Consensus pattern (15 bp):
TTCTTTTCTCTCTTT
Found at i:55758341 original size:26 final size:29
Alignment explanation
Indices: 55758286--55758362 Score: 81
Period size: 29 Copynumber: 2.7 Consensus size: 29
55758276 AATGAAAATG
55758286 ATAATAATAATAATAATATAACATAGAAA
1 ATAATAATAATAATAATATAACATAGAAA
* *
55758315 ATAATGATAATAAT-ATATGA-ATA-AAA
1 ATAATAATAATAATAATATAACATAGAAA
*
55758341 A-AATATATACATAAAAATATAA
1 ATAATA-ATA-ATAATAATATAA
55758363 TAAAAATATA
Statistics
Matches: 40, Mismatches: 5, Indels: 7
0.77 0.10 0.13
Matches are distributed among these distances:
25 3 0.08
26 7 0.17
27 7 0.17
28 10 0.25
29 13 0.32
ACGTcount: A:0.65, C:0.03, G:0.04, T:0.29
Consensus pattern (29 bp):
ATAATAATAATAATAATATAACATAGAAA
Found at i:55758346 original size:14 final size:13
Alignment explanation
Indices: 55758329--55758376 Score: 53
Period size: 14 Copynumber: 3.5 Consensus size: 13
55758319 TGATAATAAT
55758329 ATATGAATAAAAAA
1 ATAT-AATAAAAAA
55758343 ATAT-ATACATAAAA
1 ATATAATA-A-AAAA
*
55758357 ATATAATAAAAAT
1 ATATAATAAAAAA
55758370 ATATAAT
1 ATATAAT
55758377 TTAATATATA
Statistics
Matches: 30, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
12 3 0.10
13 11 0.37
14 13 0.43
15 3 0.10
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.29
Consensus pattern (13 bp):
ATATAATAAAAAA
Found at i:55758496 original size:16 final size:16
Alignment explanation
Indices: 55758472--55758515 Score: 52
Period size: 16 Copynumber: 2.8 Consensus size: 16
55758462 AATACTACTT
*
55758472 CATAAATATATACATA
1 CATATATATATACATA
*
55758488 CATATATATATACTTA
1 CATATATATATACATA
* *
55758504 TATGTATATATA
1 CATATATATATA
55758516 TTTATATGTA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.48, C:0.09, G:0.02, T:0.41
Consensus pattern (16 bp):
CATATATATATACATA
Found at i:55758520 original size:16 final size:16
Alignment explanation
Indices: 55758477--55758525 Score: 62
Period size: 16 Copynumber: 3.1 Consensus size: 16
55758467 TACTTCATAA
* * *
55758477 ATATATACATACATAT
1 ATATATACTTATATGT
55758493 ATATATACTTATATGT
1 ATATATACTTATATGT
*
55758509 ATATATATTTATATGT
1 ATATATACTTATATGT
55758525 A
1 A
55758526 AAGTTATCAA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 29 1.00
ACGTcount: A:0.43, C:0.06, G:0.04, T:0.47
Consensus pattern (16 bp):
ATATATACTTATATGT
Found at i:55758749 original size:24 final size:24
Alignment explanation
Indices: 55758682--55758738 Score: 69
Period size: 24 Copynumber: 2.4 Consensus size: 24
55758672 TAGTAATTAT
* * * *
55758682 AATACTAATACTAATAATAAATAC
1 AATAATAATAGTAAAAATAAACAC
*
55758706 AATAATAGTAGTAAAAATAAACAC
1 AATAATAATAGTAAAAATAAACAC
55758730 AATAATAAT
1 AATAATAAT
55758739 CATGAAAATA
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.61, C:0.09, G:0.04, T:0.26
Consensus pattern (24 bp):
AATAATAATAGTAAAAATAAACAC
Found at i:55773198 original size:30 final size:30
Alignment explanation
Indices: 55773164--55773261 Score: 94
Period size: 30 Copynumber: 3.3 Consensus size: 30
55773154 TAAACTAAAA
55773164 TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
1 TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
* * * * * *
55773194 TGAGCTGAGGC-TAAACTCCTAAGCTGAAGT
1 TGAGCT-AAGCTTTAGCTCGTGAGCTAAAGT
*
55773224 TGAGCTAAG-TTTAGCTCGTGAGTTGAAAG-
1 TGAGCTAAGCTTTAGCTCGTGAGCT-AAAGT
55773253 TGAGCTAAG
1 TGAGCTAAG
55773262 AGTGAGCTCG
Statistics
Matches: 52, Mismatches: 13, Indels: 7
0.72 0.18 0.10
Matches are distributed among these distances:
29 20 0.38
30 29 0.56
31 3 0.06
ACGTcount: A:0.29, C:0.15, G:0.29, T:0.28
Consensus pattern (30 bp):
TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
Found at i:55773700 original size:27 final size:26
Alignment explanation
Indices: 55773657--55773726 Score: 65
Period size: 27 Copynumber: 2.7 Consensus size: 26
55773647 TTTAATTTTT
55773657 ACAAC-TTAAATGA-GTCTAAATT-AGG
1 ACAACTTTAAAT-ATGTCTAAATTGA-G
* **
55773682 ACATCCTTTAAATATGTCTAGCTTGAG
1 ACA-ACTTTAAATATGTCTAAATTGAG
55773709 ACAACTTTAAATATGTCT
1 ACAACTTTAAATATGTCT
55773727 TGTTTAGGAC
Statistics
Matches: 37, Mismatches: 4, Indels: 7
0.77 0.08 0.15
Matches are distributed among these distances:
25 3 0.08
26 16 0.43
27 17 0.46
28 1 0.03
ACGTcount: A:0.37, C:0.16, G:0.13, T:0.34
Consensus pattern (26 bp):
ACAACTTTAAATATGTCTAAATTGAG
Found at i:55773737 original size:26 final size:26
Alignment explanation
Indices: 55773677--55773738 Score: 72
Period size: 26 Copynumber: 2.3 Consensus size: 26
55773667 TGAGTCTAAA
*
55773677 TTAGGACATCCTTTAAATATGTCTAGC
1 TTAGGACA-ACTTTAAATATGTCTAGC
* *
55773704 TT-GAGACAACTTTAAATATGTCTTGT
1 TTAG-GACAACTTTAAATATGTCTAGC
55773730 TTAGGACAA
1 TTAGGACAA
55773739 ATTAAATTGC
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
26 23 0.77
27 7 0.23
ACGTcount: A:0.32, C:0.15, G:0.16, T:0.37
Consensus pattern (26 bp):
TTAGGACAACTTTAAATATGTCTAGC
Found at i:55783950 original size:22 final size:23
Alignment explanation
Indices: 55783923--55783975 Score: 65
Period size: 21 Copynumber: 2.4 Consensus size: 23
55783913 TCAAAACTCT
55783923 TTTTCTTTTCTCTTTCATTTTC-
1 TTTTCTTTTCTCTTTCATTTTCA
* *
55783945 TTTTC-TTTCTTTTTTATTTTCA
1 TTTTCTTTTCTCTTTCATTTTCA
*
55783967 CTTTCTTTT
1 TTTTCTTTT
55783976 TCCACTCTCA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
21 14 0.54
22 9 0.35
23 3 0.12
ACGTcount: A:0.06, C:0.19, G:0.00, T:0.75
Consensus pattern (23 bp):
TTTTCTTTTCTCTTTCATTTTCA
Found at i:55784380 original size:39 final size:39
Alignment explanation
Indices: 55784326--55784403 Score: 156
Period size: 39 Copynumber: 2.0 Consensus size: 39
55784316 CTAGGAGGGT
55784326 TGATACGAGTCACAAAAGCCCAAATTCTTGAAGGCGAGG
1 TGATACGAGTCACAAAAGCCCAAATTCTTGAAGGCGAGG
55784365 TGATACGAGTCACAAAAGCCCAAATTCTTGAAGGCGAGG
1 TGATACGAGTCACAAAAGCCCAAATTCTTGAAGGCGAGG
55784404 CCCAATAAGC
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.36, C:0.21, G:0.26, T:0.18
Consensus pattern (39 bp):
TGATACGAGTCACAAAAGCCCAAATTCTTGAAGGCGAGG
Found at i:55792878 original size:50 final size:50
Alignment explanation
Indices: 55792617--55793889 Score: 2124
Period size: 50 Copynumber: 25.7 Consensus size: 50
55792607 CAAGATAAAT
* * * *
55792617 ATATATATGTGTGGTAAAGCCGAATGGCTAGTGTG-AA-ATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATATGAG
* *
55792665 ATACGTATATGTGGTAAAGCCGAATGGCTAATGTG-AA-ATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATATGAG
*
55792713 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTG-AA-ATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATATGAG
* *
55792761 ATATGTATATGTGGTAAAGCCGAATGGCTAATTTG-AA-ATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATATGAG
55792809 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATATGAG
* *
55792859 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTG-AA-ATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATATGAG
* *
55792907 ATATGTATATGTGGTAAAGCCGAATGGCTAACGTGAAATATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATATGAG
*
55792957 ATATGTATATGTGGTAAAACCGAATGGCTAATGTGAAATATATATATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATATGAG
*
55793007 ATATGTATATGTGGTAAAGCCGAATGGTTAATGTGAAATATATATATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATATGAG
*
55793057 ATATGTATATGTGGTAAAGCCGAATGGTTAATGTGAAATATATATATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATATGAG
*
55793107 ATATGTATATGTGGTAAAGCCGAATGGTTAATGTGAAATATATATATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATATGAG
*
55793157 ATATGTATATGTGGTAAAGCCGAATGGTTAATGTGAAATATATATATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATATGAG
*
55793207 ATATGTATATGTGGTAAAGCCGAATGGTTAATGTGAAATATATATATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATATGAG
*
55793257 ATATGTATATGTGGTAAAGCCGAATGGTTAATGTGAAATATATATATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATATGAG
*
55793307 ATATGTATATGTGGTAAAGCCGAATGGTTAATGTGAAATATATATATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATATGAG
*
55793357 ATATGTATATGTGGTAAAGCCGAATGGTTAATGTGAAATATATATATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATATGAG
*
55793407 ATATGTATATGTGGTAAAGCCGAATGGTTAATGTGAAATATATATATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATATGAG
*
55793457 ATATGTATATGTGGTAAAGCCGAATGGTTAATGTGAAATATATATATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATATGAG
*
55793507 ATATGTATATGTGGTAAAGCCGAATGGTTAATGTGAAATATATATATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATATGAG
*
55793557 ATATGTATATGTGGTAAAGCCGAATGGTTAATGTGAAATATATATATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATATGAG
*
55793607 ATATGTATATGTGGTAAAGCCGAATGGTTAATGTGAAATATATATATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATATGAG
*
55793657 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTG-AA-ATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATATGAG
* *
55793705 ATATGTATATGTGGTAAAGCCGAATGGCTAACGTGAAATATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATATGAG
*
55793755 ATATGTATATGTGGTAAAACCGAATGGCTAATGTGAAATATATATATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATATGAG
* *
55793805 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTG-AA-ATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATATGAG
* * *
55793853 ATACGTATATGTGGTAAAGCCGAAGGGCTAGTGTGAA
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
55793890 GTATGTAGGA
Statistics
Matches: 1190, Mismatches: 28, Indels: 13
0.97 0.02 0.01
Matches are distributed among these distances:
48 302 0.25
49 13 0.01
50 875 0.74
ACGTcount: A:0.37, C:0.05, G:0.25, T:0.32
Consensus pattern (50 bp):
ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATATGAG
Found at i:55794151 original size:37 final size:37
Alignment explanation
Indices: 55794043--55794151 Score: 182
Period size: 37 Copynumber: 2.9 Consensus size: 37
55794033 GGAAATATAT
*
55794043 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
55794080 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
* * *
55794117 TCCGGGTAAGACCCGATAACTTCGTATGGAGATTT
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTT
55794152 CATCTGAGCT
Statistics
Matches: 68, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 68 1.00
ACGTcount: A:0.24, C:0.19, G:0.30, T:0.27
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
Found at i:55794200 original size:33 final size:33
Alignment explanation
Indices: 55794158--55794223 Score: 123
Period size: 33 Copynumber: 2.0 Consensus size: 33
55794148 ATTTCATCTG
*
55794158 AGCTAAAGGTCTCGCTGATAATCCGAGTAGAGT
1 AGCTAAAGGTCTCGCCGATAATCCGAGTAGAGT
55794191 AGCTAAAGGTCTCGCCGATAATCCGAGTAGAGT
1 AGCTAAAGGTCTCGCCGATAATCCGAGTAGAGT
55794224 TTAAAGCTAT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.30, C:0.20, G:0.27, T:0.23
Consensus pattern (33 bp):
AGCTAAAGGTCTCGCCGATAATCCGAGTAGAGT
Found at i:55797739 original size:29 final size:29
Alignment explanation
Indices: 55797662--55797833 Score: 172
Period size: 29 Copynumber: 6.0 Consensus size: 29
55797652 GCATGAGTAT
* * *
55797662 AATGTGATTTGGGCCGGATGGGCCATATA
1 AATGTGAATTGGGCCTGATGGGCCATATG
* * * * *
55797691 AATGAG-ATTGGGTCTAATGGTCCATATC
1 AATGTGAATTGGGCCTGATGGGCCATATG
55797719 AATGTGAATTGGGCCTGATGGGCCATATG
1 AATGTGAATTGGGCCTGATGGGCCATATG
*
55797748 AATGTGAATTGGGCTTGATGGGCCATATG
1 AATGTGAATTGGGCCTGATGGGCCATATG
* **
55797777 AATGTGAATTGGGACAT-ATGGGCCATAAA
1 AATGTGAATTGGG-CCTGATGGGCCATATG
* *
55797806 AATGAG-ATTGGGACT-AGTGGGCCATATG
1 AATGTGAATTGGGCCTGA-TGGGCCATATG
55797834 CAGGTATGTA
Statistics
Matches: 119, Mismatches: 21, Indels: 7
0.81 0.14 0.05
Matches are distributed among these distances:
27 2 0.02
28 36 0.30
29 79 0.66
30 2 0.02
ACGTcount: A:0.28, C:0.12, G:0.32, T:0.28
Consensus pattern (29 bp):
AATGTGAATTGGGCCTGATGGGCCATATG
Found at i:55797816 original size:86 final size:86
Alignment explanation
Indices: 55797662--55797833 Score: 197
Period size: 86 Copynumber: 2.0 Consensus size: 86
55797652 GCATGAGTAT
* * * ** *
55797662 AATGTGATTTGGGCCGGATGGGCCATATAAATGAGATTGGGTCTAATGGTCCATATCAATGTGAA
1 AATGTGAATTGGGCCGGATGGGCCATATAAATGAGATTGGGACTAATGGGCCATAAAAATGAGAA
*
55797727 TTGGGCCT-GATGGGCCATATG
66 TTGGGACTAG-TGGGCCATATG
** * *
55797748 AATGTGAATTGGGCTTGATGGGCCATATGAATGTGAATTGGGAC-ATATGGGCCATAAAAATGAG
1 AATGTGAATTGGGCCGGATGGGCCATATAAATGAG-ATTGGGACTA-ATGGGCCATAAAAATGAG
55797812 -ATTGGGACTAGTGGGCCATATG
64 AATTGGGACTAGTGGGCCATATG
55797834 CAGGTATGTA
Statistics
Matches: 72, Mismatches: 11, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
86 50 0.69
87 22 0.31
ACGTcount: A:0.28, C:0.12, G:0.32, T:0.28
Consensus pattern (86 bp):
AATGTGAATTGGGCCGGATGGGCCATATAAATGAGATTGGGACTAATGGGCCATAAAAATGAGAA
TTGGGACTAGTGGGCCATATG
Found at i:55803037 original size:98 final size:98
Alignment explanation
Indices: 55802868--55803064 Score: 385
Period size: 98 Copynumber: 2.0 Consensus size: 98
55802858 CGAGCCTCCG
*
55802868 ACCGTTCCCGATTTTCGAGCTGGCTTGTCAAAACTACAAGGAATGAAAAGGAGGGAGTAAGCATA
1 ACCGTTCCCGATTTCCGAGCTGGCTTGTCAAAACTACAAGGAATGAAAAGGAGGGAGTAAGCATA
55802933 AATGCTTAATAAGTTCACATGCAAATAGCAAGT
66 AATGCTTAATAAGTTCACATGCAAATAGCAAGT
55802966 ACCGTTCCCGATTTCCGAGCTGGCTTGTCAAAACTACAAGGAATGAAAAGGAGGGAGTAAGCATA
1 ACCGTTCCCGATTTCCGAGCTGGCTTGTCAAAACTACAAGGAATGAAAAGGAGGGAGTAAGCATA
55803031 AATGCTTAATAAGTTCACATGCAAATAGCAAGT
66 AATGCTTAATAAGTTCACATGCAAATAGCAAGT
55803064 A
1 A
55803065 ACATAACCAC
Statistics
Matches: 98, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
98 98 1.00
ACGTcount: A:0.37, C:0.18, G:0.22, T:0.23
Consensus pattern (98 bp):
ACCGTTCCCGATTTCCGAGCTGGCTTGTCAAAACTACAAGGAATGAAAAGGAGGGAGTAAGCATA
AATGCTTAATAAGTTCACATGCAAATAGCAAGT
Found at i:55803431 original size:46 final size:46
Alignment explanation
Indices: 55803364--55803584 Score: 297
Period size: 46 Copynumber: 4.8 Consensus size: 46
55803354 TGTAACCCGC
*
55803364 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCAT
*
55803410 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCAT
*
55803456 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG--G-C--GTTCGCAT
* * * * *
55803506 --TTCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCAT
55803549 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
55803585 ATGCCCAAAT
Statistics
Matches: 155, Mismatches: 11, Indels: 18
0.84 0.06 0.10
Matches are distributed among these distances:
42 2 0.01
43 3 0.02
44 1 0.01
45 2 0.01
46 109 0.70
47 28 0.18
48 3 0.02
49 1 0.01
50 3 0.02
51 3 0.02
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCAT
Found at i:55803550 original size:93 final size:93
Alignment explanation
Indices: 55803418--55803589 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
55803408 ATCCATAAGT
* *
55803418 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
55803483 CGAGTTCGGATGCCTAGTTACATTTCAC
66 CGAGTTCGGATGCCTAGTTACATTTCAC
*
55803511 GAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
55803576 CGAGTTCGGATGCC
66 CGAGTTCGGATGCC
55803590 CAAATATCCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATTTCAC
Found at i:55805584 original size:17 final size:17
Alignment explanation
Indices: 55805562--55805598 Score: 74
Period size: 17 Copynumber: 2.2 Consensus size: 17
55805552 AGATCAAGAA
55805562 AGAAAGAATTCAGATTT
1 AGAAAGAATTCAGATTT
55805579 AGAAAGAATTCAGATTT
1 AGAAAGAATTCAGATTT
55805596 AGA
1 AGA
55805599 TCAAGGGAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.49, C:0.05, G:0.19, T:0.27
Consensus pattern (17 bp):
AGAAAGAATTCAGATTT
Found at i:55809178 original size:49 final size:48
Alignment explanation
Indices: 55809106--55809382 Score: 266
Period size: 49 Copynumber: 5.8 Consensus size: 48
55809096 TGAGGTCACG
* *
55809106 TGTGTAGTACTCAGTGCAGGCTACTATGTGTACTGGATAATTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTATGTGTA-TAGATAATTGGTCGCA
* * * * *
55809155 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACTCGATAACTTCGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTATGTGTA-TAGATAA-TT-GGTCGCA
* ** * * *
55809206 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTATGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTATGTGTAT-AGATAATT-GGTCGCA
* * *
55809256 TGTGTAGTACTAAGTGCAAGCTACTACGTGTATCGGATAATTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTATGTGTAT-AGATAATTGGTCGCA
55809305 TGTGTAGTACTAAGTGCAGGCTACTA--TG---AG----TTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTATGTGTATAGATAATTGGTCGCA
*
55809344 TGTGTAGTACTAAGTGCAGGCTACTATGAGTACTAGATA
1 TGTGTAGTACTAAGTGCAGGCTACTATGTGTA-TAGATA
55809383 GCCTTGTTTA
Statistics
Matches: 192, Mismatches: 24, Indels: 25
0.80 0.10 0.10
Matches are distributed among these distances:
39 35 0.18
41 1 0.01
43 1 0.01
45 2 0.01
47 2 0.01
49 66 0.34
50 48 0.25
51 37 0.19
ACGTcount: A:0.25, C:0.17, G:0.27, T:0.31
Consensus pattern (48 bp):
TGTGTAGTACTAAGTGCAGGCTACTATGTGTATAGATAATTGGTCGCA
Found at i:55809279 original size:50 final size:49
Alignment explanation
Indices: 55809099--55809330 Score: 279
Period size: 49 Copynumber: 4.7 Consensus size: 49
55809089 TCTATTGTGA
* *
55809099 GGTCACGTGTGTAGTACTCAGTGCAGGCTACTATGTGTA-CTGGATAATT
1 GGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATC-GGATAATT
* * * *
55809148 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACTC-GATAACTT
1 GGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTA-TCGGATAA-TT
* * **
55809198 CGATCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTT
1 -GGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCGGATAATT
* *
55809248 ATGTCACGTGTGTAGTACTAAGTGCAAGCTACTACGTGTATCGGATAATT
1 -GGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCGGATAATT
* *
55809298 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTA
1 GGTCACGTGTGTAGTACTAAGTGCAGGCTACTA
55809331 TGAGTTGGTC
Statistics
Matches: 156, Mismatches: 22, Indels: 10
0.83 0.12 0.05
Matches are distributed among these distances:
49 69 0.44
50 49 0.31
51 38 0.24
ACGTcount: A:0.25, C:0.18, G:0.27, T:0.31
Consensus pattern (49 bp):
GGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCGGATAATT
Found at i:55809339 original size:39 final size:39
Alignment explanation
Indices: 55809296--55809374 Score: 158
Period size: 39 Copynumber: 2.0 Consensus size: 39
55809286 TATCGGATAA
55809296 TTGGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGAG
1 TTGGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGAG
55809335 TTGGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGAG
1 TTGGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGAG
55809374 T
1 T
55809375 ACTAGATAGC
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 40 1.00
ACGTcount: A:0.23, C:0.15, G:0.30, T:0.32
Consensus pattern (39 bp):
TTGGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGAG
Done.