Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A03
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: 108673976
ACGTcount: A:0.31, C:0.17, G:0.16, T:0.31
Warning! 5040000 characters in sequence are not A, C, G, or T
File 299 of 333
Found at i:98658821 original size:57 final size:57
Alignment explanation
Indices: 98658733--98658846 Score: 228
Period size: 57 Copynumber: 2.0 Consensus size: 57
98658723 TCTGCTTCAG
98658733 TGGCTAAGTGTTTTGGGTGTGTGTATGAGGTCTTGGGTTCAAGTCTCACCTTTGTCA
1 TGGCTAAGTGTTTTGGGTGTGTGTATGAGGTCTTGGGTTCAAGTCTCACCTTTGTCA
98658790 TGGCTAAGTGTTTTGGGTGTGTGTATGAGGTCTTGGGTTCAAGTCTCACCTTTGTCA
1 TGGCTAAGTGTTTTGGGTGTGTGTATGAGGTCTTGGGTTCAAGTCTCACCTTTGTCA
98658847 AATTTTGTTA
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
57 57 1.00
ACGTcount: A:0.14, C:0.14, G:0.32, T:0.40
Consensus pattern (57 bp):
TGGCTAAGTGTTTTGGGTGTGTGTATGAGGTCTTGGGTTCAAGTCTCACCTTTGTCA
Found at i:98661746 original size:50 final size:50
Alignment explanation
Indices: 98661692--98661801 Score: 141
Period size: 50 Copynumber: 2.2 Consensus size: 50
98661682 TCCTAGGTAT
*
98661692 GGTCTTACATTGGCTCTCATATATCGAG-GCCGATACCATGTCCCAAACAA
1 GGTCTTACACTGGCTCTCATATATCG-GTGCCGATACCATGTCCCAAACAA
* * * * * *
98661742 GGTCTTACACTGGCTCTCATCTATCGGTGGCGATGCGATGTCCCAGACAT
1 GGTCTTACACTGGCTCTCATATATCGGTGCCGATACCATGTCCCAAACAA
98661792 GGTCTTACAC
1 GGTCTTACAC
98661802 CGACACATCT
Statistics
Matches: 52, Mismatches: 7, Indels: 2
0.85 0.11 0.03
Matches are distributed among these distances:
49 1 0.02
50 51 0.98
ACGTcount: A:0.23, C:0.28, G:0.22, T:0.27
Consensus pattern (50 bp):
GGTCTTACACTGGCTCTCATATATCGGTGCCGATACCATGTCCCAAACAA
Found at i:98661880 original size:49 final size:47
Alignment explanation
Indices: 98661772--98661897 Score: 141
Period size: 49 Copynumber: 2.7 Consensus size: 47
98661762 CTATCGGTGG
*
98661772 CGATGCGATGTCCCAGACATGGTCTTACAC--CGACACATCTCAAGT
1 CGATGCAATGTCCCAGACATGGTCTTACACTACGACACATCTCAAGT
* ** *
98661817 CGATGCCATGTCCCAGACATGGTCTTACACTAGCTTTCATATCTCAAAG-
1 CGATGCAATGTCCCAGACATGGTCTTACACTA-C-GACACATCTC-AAGT
* *
98661866 CTATGCAATGTCCCAAACATGGTCTTACACTA
1 CGATGCAATGTCCCAGACATGGTCTTACACTA
98661898 TCTCTCGTCT
Statistics
Matches: 69, Mismatches: 7, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
45 29 0.42
48 1 0.01
49 36 0.52
50 3 0.04
ACGTcount: A:0.28, C:0.29, G:0.17, T:0.26
Consensus pattern (47 bp):
CGATGCAATGTCCCAGACATGGTCTTACACTACGACACATCTCAAGT
Found at i:98661903 original size:144 final size:147
Alignment explanation
Indices: 98661631--98661903 Score: 356
Period size: 145 Copynumber: 1.9 Consensus size: 147
98661621 TGCCGACTCC
* * **
98661631 ATGTCCCAGACATGGTCTTACACTGACTCACACATCAAAGTCGATGCCATGTCCTAGGTATGGTC
1 ATGTCCCAGACATGGTCTTACACCGAC-CACACATCAAAGTCGATGCCATGTCCCAGACATGGTC
* * * * * *
98661696 TTACATTGGCTCTCATATATCGAGGCCGATACCATGTCCCAAACAAGGTCTTACACTGGCTCTCA
65 TTACACTAGCTCTCATATATCAAAGCCGATACAATGTCCCAAACAAGGTCTTACACTAGCTCTCA
98661761 TCTATCGGTGGCGATGCG
130 TCTATCGGTGGCGATGCG
98661779 ATGTCCCAGACATGGTCTTACACCGA-CACATC-TC-AAGTCGATGCCATGTCCCAGACATGGTC
1 ATGTCCCAGACATGGTCTTACACCGACCACA-CATCAAAGTCGATGCCATGTCCCAGACATGGTC
* * * * * *
98661841 TTACACTAGCTTTCATATCTCAAAG-CTATGCAATGTCCCAAACATGGTCTTACACTATCTCTC
65 TTACACTAGCTCTCATATATCAAAGCCGATACAATGTCCCAAACAAGGTCTTACACTAGCTCTC
98661904 GTCTCAATGC
Statistics
Matches: 108, Mismatches: 16, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
144 32 0.30
145 44 0.41
146 6 0.06
147 1 0.01
148 25 0.23
ACGTcount: A:0.26, C:0.29, G:0.18, T:0.27
Consensus pattern (147 bp):
ATGTCCCAGACATGGTCTTACACCGACCACACATCAAAGTCGATGCCATGTCCCAGACATGGTCT
TACACTAGCTCTCATATATCAAAGCCGATACAATGTCCCAAACAAGGTCTTACACTAGCTCTCAT
CTATCGGTGGCGATGCG
Found at i:98664702 original size:34 final size:34
Alignment explanation
Indices: 98664658--98664743 Score: 109
Period size: 34 Copynumber: 2.5 Consensus size: 34
98664648 TGAGCCCAAG
* * *
98664658 CCCATATCAGTAACAGTAGTAGTCTGGGCCTTAA
1 CCCATTTCAGTAACAGTAGCAGTCTGAGCCTTAA
* *
98664692 CCCATTTCAGTAACAGTAGCAGTCTGAGCTTTAG
1 CCCATTTCAGTAACAGTAGCAGTCTGAGCCTTAA
* *
98664726 TCCATTTCAGTAATAGTA
1 CCCATTTCAGTAACAGTA
98664744 ATCAGTGTAG
Statistics
Matches: 45, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
34 45 1.00
ACGTcount: A:0.29, C:0.22, G:0.19, T:0.30
Consensus pattern (34 bp):
CCCATTTCAGTAACAGTAGCAGTCTGAGCCTTAA
Found at i:98665197 original size:27 final size:27
Alignment explanation
Indices: 98665115--98665200 Score: 109
Period size: 27 Copynumber: 3.2 Consensus size: 27
98665105 AAATCTATCC
* *
98665115 TTTTACCTTACAGGGATATTACAATCA
1 TTTTACCCTACAGGGATAATACAATCA
* * **
98665142 TATTACCCTACAGGGTTAATACAGCCA
1 TTTTACCCTACAGGGATAATACAATCA
*
98665169 TTTTACCCTACAGGGGTAATACAATCA
1 TTTTACCCTACAGGGATAATACAATCA
98665196 TTTTA
1 TTTTA
98665201 TCACATAAGA
Statistics
Matches: 49, Mismatches: 10, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 49 1.00
ACGTcount: A:0.33, C:0.21, G:0.13, T:0.34
Consensus pattern (27 bp):
TTTTACCCTACAGGGATAATACAATCA
Found at i:98665223 original size:27 final size:26
Alignment explanation
Indices: 98665193--98665291 Score: 92
Period size: 27 Copynumber: 3.7 Consensus size: 26
98665183 GGTAATACAA
98665193 TCATTTTATCACATAAGAGCAAAATCG
1 TCATTTTATCACATAAG-GCAAAATCG
98665220 TCATTTTATCACATAAGGACAAAA-CAG
1 TCATTTTATCACATAAGG-CAAAATC-G
** * * *
98665247 TCATTTTGCCAAATAAGGGAAAAATAG
1 TCATTTTATCACATAA-GGCAAAATCG
* *
98665274 TCATTCTATCTCATAAGG
1 TCATTTTATCACATAAGG
98665292 GTTCAAGTAT
Statistics
Matches: 58, Mismatches: 10, Indels: 9
0.75 0.13 0.12
Matches are distributed among these distances:
26 4 0.07
27 52 0.90
28 2 0.03
ACGTcount: A:0.40, C:0.17, G:0.13, T:0.29
Consensus pattern (26 bp):
TCATTTTATCACATAAGGCAAAATCG
Found at i:98668269 original size:31 final size:31
Alignment explanation
Indices: 98668226--98668309 Score: 143
Period size: 31 Copynumber: 2.7 Consensus size: 31
98668216 TCAGTCTCGA
*
98668226 CATAT-ACTGGGCCAAAGCCTTTCCATAAAT
1 CATATCACTGGGCCGAAGCCTTTCCATAAAT
*
98668256 CATATCACTGGGCCGAAGCCTTTTCATAAAT
1 CATATCACTGGGCCGAAGCCTTTCCATAAAT
98668287 CATATCACTGGGCCGAAGCCTTT
1 CATATCACTGGGCCGAAGCCTTT
98668310 ACTGTAAACG
Statistics
Matches: 51, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
30 5 0.10
31 46 0.90
ACGTcount: A:0.29, C:0.27, G:0.17, T:0.27
Consensus pattern (31 bp):
CATATCACTGGGCCGAAGCCTTTCCATAAAT
Found at i:98668380 original size:42 final size:42
Alignment explanation
Indices: 98668333--98668424 Score: 166
Period size: 42 Copynumber: 2.2 Consensus size: 42
98668323 TAGCCCTTAG
98668333 GCCCATTTCAATATCACATGTAATGTCAATGAAGGTATGCAA
1 GCCCATTTCAATATCACATGTAATGTCAATGAAGGTATGCAA
*
98668375 GCCCATTTCAATATCACATGTAATGTCAATGAATGTATGCAA
1 GCCCATTTCAATATCACATGTAATGTCAATGAAGGTATGCAA
*
98668417 ACCCATTT
1 GCCCATTT
98668425 GGGGAGACTA
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
42 48 1.00
ACGTcount: A:0.35, C:0.21, G:0.14, T:0.30
Consensus pattern (42 bp):
GCCCATTTCAATATCACATGTAATGTCAATGAAGGTATGCAA
Found at i:98668612 original size:25 final size:25
Alignment explanation
Indices: 98668577--98668640 Score: 85
Period size: 25 Copynumber: 2.6 Consensus size: 25
98668567 TAATAATTGG
98668577 GGCAAAGCCC-TTTCTGATAAACTGA
1 GGCAAAGCCCTTTTC-GATAAACTGA
* * *
98668602 GGCAAAACCCTTTTCGGTAAACTGG
1 GGCAAAGCCCTTTTCGATAAACTGA
98668627 GGCAAAGCCCTTTT
1 GGCAAAGCCCTTTT
98668641 AGCACTTCCT
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
25 30 0.88
26 4 0.12
ACGTcount: A:0.28, C:0.25, G:0.22, T:0.25
Consensus pattern (25 bp):
GGCAAAGCCCTTTTCGATAAACTGA
Found at i:98669401 original size:27 final size:26
Alignment explanation
Indices: 98669371--98669437 Score: 73
Period size: 27 Copynumber: 2.5 Consensus size: 26
98669361 GGGCATATTC
98669371 GTCATTTTACCATACAAGGG-TATTACG
1 GTCATTTTACC-TACAAGGGCT-TTACG
* *
98669398 GTCACTTTACGCTACAGGGGCTTTACG
1 GTCATTTTAC-CTACAAGGGCTTTACG
*
98669425 GTCTTTTTACCTA
1 GTCATTTTACCTA
98669438 TTAGGGGTAT
Statistics
Matches: 34, Mismatches: 4, Indels: 5
0.79 0.09 0.12
Matches are distributed among these distances:
26 3 0.09
27 29 0.85
28 2 0.06
ACGTcount: A:0.22, C:0.22, G:0.19, T:0.36
Consensus pattern (26 bp):
GTCATTTTACCTACAAGGGCTTTACG
Found at i:98669519 original size:27 final size:27
Alignment explanation
Indices: 98669489--98669586 Score: 99
Period size: 27 Copynumber: 3.6 Consensus size: 27
98669479 GTAAATCTAC
*
98669489 AAACCAAGGGTATTTCAATAATTTTGT
1 AAACCAAGGGTATTTCTATAATTTTGT
**
98669516 AAACCAATAGTATTTCTATAACTTTTAG-
1 AAACCAAGGGTATTTCTATAA-TTTT-GT
* *
98669544 AAAGTCAATGGTATTTCTATAATTTTGT
1 AAA-CCAAGGGTATTTCTATAATTTTGT
* *
98669572 AAATCAGGGGTATTT
1 AAACCAAGGGTATTT
98669587 TGGTAATTTT
Statistics
Matches: 60, Mismatches: 7, Indels: 8
0.80 0.09 0.11
Matches are distributed among these distances:
27 29 0.48
28 14 0.23
29 17 0.28
ACGTcount: A:0.36, C:0.10, G:0.14, T:0.40
Consensus pattern (27 bp):
AAACCAAGGGTATTTCTATAATTTTGT
Found at i:98669593 original size:27 final size:27
Alignment explanation
Indices: 98669577--98669701 Score: 182
Period size: 27 Copynumber: 4.7 Consensus size: 27
98669567 TTTGTAAATC
98669577 AGGGGTATTTTGGTAATTTTACAAA-T
1 AGGGGTATTTTGGTAATTTTACAAACT
* * *
98669603 TGAGGGTATTTTAGTAATTTCACAAACT
1 AG-GGGTATTTTGGTAATTTTACAAACT
* *
98669631 AGTGGTATTTCGGTAATTTTACAAACT
1 AGGGGTATTTTGGTAATTTTACAAACT
98669658 A-GGGTATTTTGGTAATTTTACAAACT
1 AGGGGTATTTTGGTAATTTTACAAACT
98669684 AGGGGTATTTTGGTAATT
1 AGGGGTATTTTGGTAATT
98669702 CTATCCTACA
Statistics
Matches: 86, Mismatches: 10, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
26 25 0.29
27 59 0.69
28 2 0.02
ACGTcount: A:0.30, C:0.07, G:0.22, T:0.42
Consensus pattern (27 bp):
AGGGGTATTTTGGTAATTTTACAAACT
Found at i:98669681 original size:53 final size:54
Alignment explanation
Indices: 98669577--98669734 Score: 203
Period size: 54 Copynumber: 2.9 Consensus size: 54
98669567 TTTGTAAATC
*
98669577 AGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTTAGTAATTTCACAAACT
1 AGGGGTATTTTGGTAATTTTACAAACTGAGGGTATTTTAGTAATTTCACAAACT
* * * *
98669631 AGTGGTATTTCGGTAATTTTACAAACT-AGGGTATTTTGGTAATTTTACAAACT
1 AGGGGTATTTTGGTAATTTTACAAACTGAGGGTATTTTAGTAATTTCACAAACT
* ** * *
98669684 AGGGGTATTTTGGTAATTCTATCCTACAG-GGGTATTTCAGTAATTTCACAA
1 AGGGGTATTTTGGTAATTTTA-CAAACTGAGGGTATTTTAGTAATTTCACAA
98669735 TCGAGGGTAA
Statistics
Matches: 88, Mismatches: 14, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
53 42 0.48
54 46 0.52
ACGTcount: A:0.30, C:0.10, G:0.20, T:0.40
Consensus pattern (54 bp):
AGGGGTATTTTGGTAATTTTACAAACTGAGGGTATTTTAGTAATTTCACAAACT
Found at i:98669718 original size:80 final size:80
Alignment explanation
Indices: 98669579--98669743 Score: 201
Period size: 80 Copynumber: 2.1 Consensus size: 80
98669569 TGTAAATCAG
* * *
98669579 GGGTATTTTGGTAATTTTACAAATTGAGGGTATTTTAGTAATTTCACAAACTAGTGGTATTTCGG
1 GGGTATTTTGGTAATTTTACAAATAGAGGGTATTTTAGTAATTTCACAAACTAGGGGTATTTCAG
* *
98669644 TAATTTTACAAACTA
66 TAATTTCACAAACGA
* **
98669659 GGGTATTTTGGTAATTTTACAAACTAG-GGGTATTTTGGTAA-TTCTATCCTAC-AGGGGTATTT
1 GGGTATTTTGGTAATTTTACAAA-TAGAGGGTATTTTAGTAATTTC-A-CAAACTAGGGGTATTT
*
98669721 CAGTAATTTCACAATCGA
63 CAGTAATTTCACAAACGA
98669739 GGGTA
1 GGGTA
98669744 AAACGGTAAT
Statistics
Matches: 73, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
79 3 0.04
80 65 0.89
81 5 0.07
ACGTcount: A:0.29, C:0.10, G:0.21, T:0.39
Consensus pattern (80 bp):
GGGTATTTTGGTAATTTTACAAATAGAGGGTATTTTAGTAATTTCACAAACTAGGGGTATTTCAG
TAATTTCACAAACGA
Found at i:98669743 original size:53 final size:52
Alignment explanation
Indices: 98669579--98669743 Score: 170
Period size: 53 Copynumber: 3.1 Consensus size: 52
98669569 TGTAAATCAG
* * *
98669579 GGGTATTTTGGTAATTTTACAAATTGAGGGTATTTTAGTAATTTCACAAACTA
1 GGGTATTTCGGTAATTCTACAAACT-AGGGTATTTTAGTAATTTCACAAACTA
* * *
98669632 GTGGTATTTCGGTAATTTTACAAACTAGGGTATTTTGGTAATTTTACAAACTA
1 G-GGTATTTCGGTAATTCTACAAACTAGGGTATTTTAGTAATTTCACAAACTA
* ** * * *
98669685 GGGGTATTTTGGTAATTCTATCCTAC-AGGGGTATTTCAGTAATTTCACAATCGA
1 -GGGTATTTCGGTAATTCTA-CAAACTA-GGGTATTTTAGTAATTTCACAAACTA
98669739 GGGTA
1 GGGTA
98669744 AAACGGTAAT
Statistics
Matches: 95, Mismatches: 13, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
53 48 0.51
54 47 0.49
ACGTcount: A:0.29, C:0.10, G:0.21, T:0.39
Consensus pattern (52 bp):
GGGTATTTCGGTAATTCTACAAACTAGGGTATTTTAGTAATTTCACAAACTA
Found at i:98669767 original size:27 final size:26
Alignment explanation
Indices: 98669737--98669882 Score: 175
Period size: 27 Copynumber: 5.4 Consensus size: 26
98669727 TTTCACAATC
98669737 GAGGGTAAAACGGTAATTTTGTAAACT
1 GAGGGTAAAACGGTAATTTTGTAAA-T
*
98669764 GAGGGTAAAATGGTAATTTTGTAAATT
1 GAGGGTAAAACGGTAATTTTGTAAA-T
* *
98669791 GAGGGTAAAACGGTAAATCTGTAAATT
1 GAGGGTAAAACGGTAATTTTGTAAA-T
* * *
98669818 GAGGGTAAAATGGTAATTCTATAAAT
1 GAGGGTAAAACGGTAATTTTGTAAAT
*
98669844 CGAGGGTAAAACGTTAATTTTGTAAAT
1 -GAGGGTAAAACGGTAATTTTGTAAAT
98669871 CGAGGGTGAAAA
1 -GAGGGT-AAAA
98669883 TCGAGGGTGA
Statistics
Matches: 105, Mismatches: 12, Indels: 3
0.88 0.10 0.03
Matches are distributed among these distances:
26 1 0.01
27 100 0.95
28 4 0.04
ACGTcount: A:0.39, C:0.05, G:0.26, T:0.29
Consensus pattern (26 bp):
GAGGGTAAAACGGTAATTTTGTAAAT
Found at i:98669797 original size:107 final size:106
Alignment explanation
Indices: 98669563--98669789 Score: 242
Period size: 107 Copynumber: 2.1 Consensus size: 106
98669553 GGTATTTCTA
* ** *
98669563 TAATTTTGTAAATCAGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTTAGTAATTTCACAA
1 TAATTTTGTAAAT-AGGGGTATTTTGGTAATTCTACAAACAGAGGGTATTTCAGTAATTTCACAA
* *** ***
98669628 ACTAGTGGTATTTCGGTAATTTTACAAACTAGGGTATTTTGG
65 ACGAGTGGTAAAACGGTAATTTTACAAACTAGGGTAAAATGG
** **
98669670 TAATTTTACAAACTAGGGGTATTTTGGTAATTCTATCCTACAG-GGGTATTTCAGTAATTTCACA
1 TAATTTTGTAAA-TAGGGGTATTTTGGTAATTCTA-CAAACAGAGGGTATTTCAGTAATTTCACA
* **
98669734 ATCGAG-GGTAAAACGGTAATTTTGTAAACTGAGGGTAAAATGG
64 AACGAGTGGTAAAACGGTAATTTTACAAACT-AGGGTAAAATGG
98669777 TAATTTTGTAAAT
1 TAATTTTGTAAAT
98669790 TGAGGGTAAA
Statistics
Matches: 97, Mismatches: 20, Indels: 7
0.78 0.16 0.06
Matches are distributed among these distances:
106 20 0.21
107 73 0.75
108 4 0.04
ACGTcount: A:0.32, C:0.09, G:0.21, T:0.39
Consensus pattern (106 bp):
TAATTTTGTAAATAGGGGTATTTTGGTAATTCTACAAACAGAGGGTATTTCAGTAATTTCACAAA
CGAGTGGTAAAACGGTAATTTTACAAACTAGGGTAAAATGG
Found at i:98669814 original size:54 final size:53
Alignment explanation
Indices: 98669733--98669883 Score: 212
Period size: 54 Copynumber: 2.8 Consensus size: 53
98669723 GTAATTTCAC
* *
98669733 AATCGAGGGTAAAACGGTAATTTTGTAAACTGAGGGTAAAATGGTAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTTTGTAAA-TGAGGGTAAAATGGTAATTCTATA
* * *
98669787 AATTGAGGGTAAAACGGTAAATCTGTAAATTGAGGGTAAAATGGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTTTGTAAA-TGAGGGTAAAATGGTAATTCTATA
*
98669841 AATCGAGGGTAAAACGTTAATTTTGTAAATCGAGGGTGAAAAT
1 AATCGAGGGTAAAACGGTAATTTTGTAAAT-GAGGGT-AAAAT
98669884 CGAGGGTGAA
Statistics
Matches: 85, Mismatches: 10, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
53 1 0.01
54 79 0.93
55 5 0.06
ACGTcount: A:0.39, C:0.06, G:0.25, T:0.30
Consensus pattern (53 bp):
AATCGAGGGTAAAACGGTAATTTTGTAAATGAGGGTAAAATGGTAATTCTATA
Found at i:98669884 original size:40 final size:39
Alignment explanation
Indices: 98669840--98669922 Score: 112
Period size: 40 Copynumber: 2.1 Consensus size: 39
98669830 GTAATTCTAT
* * *
98669840 AAATCGAGGGTAAAACGTTAATTTTGTAAATCGAGGGTGA
1 AAATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGT-A
* *
98669880 AAATCGAGGGTGAAACGGTAATTCTATAGATCGAGGGTA
1 AAATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTA
98669919 AAAT
1 AAAT
98669923 GGTAATTCTA
Statistics
Matches: 38, Mismatches: 5, Indels: 1
0.86 0.11 0.02
Matches are distributed among these distances:
39 5 0.13
40 33 0.87
ACGTcount: A:0.39, C:0.08, G:0.28, T:0.25
Consensus pattern (39 bp):
AAATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTA
Found at i:98669885 original size:13 final size:13
Alignment explanation
Indices: 98669867--98669894 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
98669857 TTAATTTTGT
98669867 AAATCGAGGGTGA
1 AAATCGAGGGTGA
98669880 AAATCGAGGGTGA
1 AAATCGAGGGTGA
98669893 AA
1 AA
98669895 CGGTAATTCT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.43, C:0.07, G:0.36, T:0.14
Consensus pattern (13 bp):
AAATCGAGGGTGA
Found at i:98669926 original size:27 final size:27
Alignment explanation
Indices: 98669880--98669943 Score: 92
Period size: 27 Copynumber: 2.4 Consensus size: 27
98669870 TCGAGGGTGA
* *
98669880 AAATCGAGGGTGAAACGGTAATTCTAT
1 AAATCGAGGGTAAAACGGTAATTCTAC
* *
98669907 AGATCGAGGGTAAAATGGTAATTCTAC
1 AAATCGAGGGTAAAACGGTAATTCTAC
98669934 AAATCGAGGG
1 AAATCGAGGG
98669944 CATTTCAATA
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.38, C:0.11, G:0.28, T:0.23
Consensus pattern (27 bp):
AAATCGAGGGTAAAACGGTAATTCTAC
Found at i:98669929 original size:67 final size:67
Alignment explanation
Indices: 98669813--98669943 Score: 181
Period size: 67 Copynumber: 2.0 Consensus size: 67
98669803 GTAAATCTGT
* * * * **
98669813 AAATTGAGGGTAAAATGGTAATTCTATAAATCGAGGGTAAAACGTTAATTTTGTAAATCGAGGGT
1 AAATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAACGGTAATTCTACAAATCGAGGGT
98669878 GA
66 GA
* * *
98669880 AAATCGAGGGTGAAACGGTAATTCTATAGATCGAGGGTAAAATGGTAATTCTACAAATCGAGGG
1 AAATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAACGGTAATTCTACAAATCGAGGG
98669944 CATTTCAATA
Statistics
Matches: 55, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
67 55 1.00
ACGTcount: A:0.38, C:0.08, G:0.27, T:0.27
Consensus pattern (67 bp):
AAATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAACGGTAATTCTACAAATCGAGGGT
GA
Found at i:98669956 original size:94 final size:94
Alignment explanation
Indices: 98669786--98669963 Score: 230
Period size: 94 Copynumber: 1.9 Consensus size: 94
98669776 GTAATTTTGT
* * * * *
98669786 AAATTGAGGGTAAAACGGTAAATCTGTAAATTGAGGGTAAAATGGTAATTCTATAAATCGAGGGT
1 AAATCGAGGGTAAAACGGTAAATCTATAAATCGAGGGTAAAATGGTAATTCTACAAATCGAGGGC
** *
98669851 AAAACGTTAATTTTGTAAATCGAGGGTGA
66 AAAACAATAATTTGGTAAATCGAGGGTGA
* * *
98669880 AAATCGAGGGTGAAACGGTAATTCTATAGATCGAGGGTAAAATGGTAATTCTACAAATCGAGGGC
1 AAATCGAGGGTAAAACGGTAAATCTATAAATCGAGGGTAAAATGGTAATTCTACAAATCGAGGGC
***
98669945 ATTTCAATAATTTGGTAAA
66 AAAACAATAATTTGGTAAA
98669964 CTAAAGTATT
Statistics
Matches: 70, Mismatches: 14, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
94 70 1.00
ACGTcount: A:0.39, C:0.08, G:0.25, T:0.28
Consensus pattern (94 bp):
AAATCGAGGGTAAAACGGTAAATCTATAAATCGAGGGTAAAATGGTAATTCTACAAATCGAGGGC
AAAACAATAATTTGGTAAATCGAGGGTGA
Found at i:98672305 original size:31 final size:31
Alignment explanation
Indices: 98672262--98672342 Score: 137
Period size: 31 Copynumber: 2.6 Consensus size: 31
98672252 TCAGTCTCGA
98672262 CATAT-ACTGGGCCGAAGCCTTTCCATAAAT
1 CATATCACTGGGCCGAAGCCTTTCCATAAAT
* *
98672292 CATATCACTGGGCCAAAGCCTTTTCATAAAT
1 CATATCACTGGGCCGAAGCCTTTCCATAAAT
98672323 CATATCACTGGGCCGAAGCC
1 CATATCACTGGGCCGAAGCC
98672343 ATTACTGTAA
Statistics
Matches: 47, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
30 5 0.11
31 42 0.89
ACGTcount: A:0.30, C:0.28, G:0.17, T:0.25
Consensus pattern (31 bp):
CATATCACTGGGCCGAAGCCTTTCCATAAAT
Found at i:98672415 original size:42 final size:42
Alignment explanation
Indices: 98672369--98672460 Score: 166
Period size: 42 Copynumber: 2.2 Consensus size: 42
98672359 TGGCCCTTAG
* *
98672369 GCCCATTTCAATATTACATGTAATGTCAATGGATGTATGCAA
1 GCCCATTTCAATATCACATGTAATGTCAATGAATGTATGCAA
98672411 GCCCATTTCAATATCACATGTAATGTCAATGAATGTATGCAA
1 GCCCATTTCAATATCACATGTAATGTCAATGAATGTATGCAA
98672453 GCCCATTT
1 GCCCATTT
98672461 GGGGAGACTA
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
42 48 1.00
ACGTcount: A:0.33, C:0.20, G:0.15, T:0.33
Consensus pattern (42 bp):
GCCCATTTCAATATCACATGTAATGTCAATGAATGTATGCAA
Found at i:98672640 original size:25 final size:25
Alignment explanation
Indices: 98672608--98672677 Score: 97
Period size: 25 Copynumber: 2.8 Consensus size: 25
98672598 CTATTTTAAT
98672608 AACTGGGGCAAAGCCC-TTTCTGATA
1 AACTGGGGCAAAGCCCTTTTC-GATA
*
98672633 AACTGGGGCAAAGCCCTTTTCGATC
1 AACTGGGGCAAAGCCCTTTTCGATA
* *
98672658 AACTGAGGCAGAGCCCTTTT
1 AACTGGGGCAAAGCCCTTTT
98672678 AGCACTTCCT
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
25 37 0.90
26 4 0.10
ACGTcount: A:0.26, C:0.26, G:0.24, T:0.24
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTCGATA
Found at i:98673364 original size:27 final size:26
Alignment explanation
Indices: 98673334--98673400 Score: 73
Period size: 27 Copynumber: 2.5 Consensus size: 26
98673324 GGGCATATTC
98673334 GTCATTTTACCATACAAGGG-TATTACG
1 GTCATTTTACC-TACAAGGGCT-TTACG
* *
98673361 GTCACTTTACGCTACAGGGGCTTTACG
1 GTCATTTTAC-CTACAAGGGCTTTACG
*
98673388 GTCTTTTTACCTA
1 GTCATTTTACCTA
98673401 TTAGGGGTAT
Statistics
Matches: 34, Mismatches: 4, Indels: 5
0.79 0.09 0.12
Matches are distributed among these distances:
26 3 0.09
27 29 0.85
28 2 0.06
ACGTcount: A:0.22, C:0.22, G:0.19, T:0.36
Consensus pattern (26 bp):
GTCATTTTACCTACAAGGGCTTTACG
Found at i:98673482 original size:27 final size:27
Alignment explanation
Indices: 98673452--98673549 Score: 99
Period size: 27 Copynumber: 3.6 Consensus size: 27
98673442 GTAAATCTAC
*
98673452 AAACCAAGGGTATTTCAATAATTTTGT
1 AAACCAAGGGTATTTCTATAATTTTGT
**
98673479 AAACCAATAGTATTTCTATAACTTTTAG-
1 AAACCAAGGGTATTTCTATAA-TTTT-GT
* *
98673507 AAAGTCAATGGTATTTCTATAATTTTGT
1 AAA-CCAAGGGTATTTCTATAATTTTGT
* *
98673535 AAATCAGGGGTATTT
1 AAACCAAGGGTATTT
98673550 TGGTAATTTT
Statistics
Matches: 60, Mismatches: 7, Indels: 8
0.80 0.09 0.11
Matches are distributed among these distances:
27 29 0.48
28 14 0.23
29 17 0.28
ACGTcount: A:0.36, C:0.10, G:0.14, T:0.40
Consensus pattern (27 bp):
AAACCAAGGGTATTTCTATAATTTTGT
Found at i:98673565 original size:27 final size:27
Alignment explanation
Indices: 98673540--98673638 Score: 119
Period size: 27 Copynumber: 3.7 Consensus size: 27
98673530 TTTGTAAATC
*
98673540 AGGGGTATTTTGGTAATTTTACAAA-T
1 AGGGGTATTTCGGTAATTTTACAAACT
* * *
98673566 TGAGGGTATTTCAGTAATTTCACAAACT
1 AG-GGGTATTTCGGTAATTTTACAAACT
*
98673594 AGTGGTATTTCGGTAATTTTACAAACT
1 AGGGGTATTTCGGTAATTTTACAAACT
* *
98673621 AGGGATATTTTGGTAATT
1 AGGGGTATTTCGGTAATT
98673639 CTATCTTACA
Statistics
Matches: 60, Mismatches: 11, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
26 1 0.02
27 57 0.95
28 2 0.03
ACGTcount: A:0.30, C:0.08, G:0.21, T:0.40
Consensus pattern (27 bp):
AGGGGTATTTCGGTAATTTTACAAACT
Found at i:98673709 original size:27 final size:27
Alignment explanation
Indices: 98673670--98673826 Score: 190
Period size: 27 Copynumber: 5.8 Consensus size: 27
98673660 GTAATTTCAC
*
98673670 AATCGAGGGTAAAACAGTAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTTTGTA
*
98673697 AA-CTGAGGGTAAAATGGTAATTTTGTA
1 AATC-GAGGGTAAAACGGTAATTTTGTA
*
98673724 AATCGAGGGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTTTGTA
* *
98673751 AATTGAGGGTAAAACGGTAGTTTTGTA
1 AATCGAGGGTAAAACGGTAATTTTGTA
* ** * *
98673778 AATCGAGGGTGAAATAGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTTTGTA
* *
98673805 GATCGAGGGTAAAATGGTAATT
1 AATCGAGGGTAAAACGGTAATT
98673827 CTACGAATCG
Statistics
Matches: 111, Mismatches: 17, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
26 1 0.01
27 109 0.98
28 1 0.01
ACGTcount: A:0.38, C:0.06, G:0.26, T:0.30
Consensus pattern (27 bp):
AATCGAGGGTAAAACGGTAATTTTGTA
Found at i:98673744 original size:54 final size:53
Alignment explanation
Indices: 98673670--98673826 Score: 215
Period size: 54 Copynumber: 2.9 Consensus size: 53
98673660 GTAATTTCAC
*
98673670 AATCGAGGGTAAAACAGTAATTTTGTAAACTGAGGGTAAAATGGTAATTTTGTA
1 AATCGAGGGTAAAACAGTAATTCTGTAAA-TGAGGGTAAAATGGTAATTTTGTA
* * *
98673724 AATCGAGGGTAAAACGGTAATTCTGTAAATTGAGGGTAAAACGGTAGTTTTGTA
1 AATCGAGGGTAAAACAGTAATTCTGTAAA-TGAGGGTAAAATGGTAATTTTGTA
* * * *
98673778 AATCGAGGGTGAAATAGTAATTCTATAGATCGAGGGTAAAATGGTAATT
1 AATCGAGGGTAAAACAGTAATTCTGTAAAT-GAGGGTAAAATGGTAATT
98673827 CTACGAATCG
Statistics
Matches: 90, Mismatches: 12, Indels: 2
0.87 0.12 0.02
Matches are distributed among these distances:
53 1 0.01
54 89 0.99
ACGTcount: A:0.38, C:0.06, G:0.26, T:0.30
Consensus pattern (53 bp):
AATCGAGGGTAAAACAGTAATTCTGTAAATGAGGGTAAAATGGTAATTTTGTA
Found at i:98673786 original size:81 final size:81
Alignment explanation
Indices: 98673674--98673828 Score: 222
Period size: 81 Copynumber: 1.9 Consensus size: 81
98673664 TTTCACAATC
* * *
98673674 GAGGGTAAAACAGTAATTTTGTAAACTGAGGGTAAAATGGTAATTTTGTAAATCGAGGGTAAAAC
1 GAGGGTAAAACAGTAATTTTGTAAACTGAGGGTAAAATAGTAATTCTATAAATCGAGGGTAAAAC
98673739 GGTAATTCTGTAAATT
66 GGTAATTCTGTAAATT
* * * *
98673755 GAGGGTAAAACGGTAGTTTTGTAAA-TCGAGGGTGAAATAGTAATTCTATAGATCGAGGGTAAAA
1 GAGGGTAAAACAGTAATTTTGTAAACT-GAGGGTAAAATAGTAATTCTATAAATCGAGGGTAAAA
*
98673819 TGGTAATTCT
65 CGGTAATTCT
98673829 ACGAATCGAG
Statistics
Matches: 65, Mismatches: 8, Indels: 2
0.87 0.11 0.03
Matches are distributed among these distances:
80 1 0.02
81 64 0.98
ACGTcount: A:0.37, C:0.06, G:0.26, T:0.30
Consensus pattern (81 bp):
GAGGGTAAAACAGTAATTTTGTAAACTGAGGGTAAAATAGTAATTCTATAAATCGAGGGTAAAAC
GGTAATTCTGTAAATT
Found at i:98673860 original size:81 final size:81
Alignment explanation
Indices: 98673670--98673862 Score: 208
Period size: 81 Copynumber: 2.4 Consensus size: 81
98673660 GTAATTTCAC
* * * *
98673670 AATCGAGGGTAAAACAGTAATTTTGTAAACTGAGGGTAAAATGGTAATTTTGTAAATCGAGGGTA
1 AATCGAGGGCAAAACAGTAATTTTGTAAACTGAGGGTAAAATAGTAATTCTATAAATCGAGGGTA
**
98673735 AAACGGTAATTCTGTA
66 AAACGGTAATTCTACA
* * * * * *
98673751 AATTGAGGGTAAAACGGTAGTTTTGTAAA-TCGAGGGTGAAATAGTAATTCTATAGATCGAGGGT
1 AATCGAGGGCAAAACAGTAATTTTGTAAACT-GAGGGTAAAATAGTAATTCTATAAATCGAGGGT
* *
98673815 AAAATGGTAATTCTACG
65 AAAACGGTAATTCTACA
*** *
98673832 AATCGAGGGCATTTCAGTAATTTGGTAAACT
1 AATCGAGGGCAAAACAGTAATTTTGTAAACT
98673863 AAAGTATTCT
Statistics
Matches: 90, Mismatches: 20, Indels: 3
0.80 0.18 0.03
Matches are distributed among these distances:
80 1 0.01
81 88 0.98
82 1 0.01
ACGTcount: A:0.36, C:0.08, G:0.25, T:0.30
Consensus pattern (81 bp):
AATCGAGGGCAAAACAGTAATTTTGTAAACTGAGGGTAAAATAGTAATTCTATAAATCGAGGGTA
AAACGGTAATTCTACA
Found at i:98675976 original size:19 final size:20
Alignment explanation
Indices: 98675930--98675976 Score: 53
Period size: 19 Copynumber: 2.4 Consensus size: 20
98675920 ATCGAGTGGT
*
98675930 TAATTAGGCTTTAATTAAGTG
1 TAATTA-GCTTTAATTAAGAG
98675951 -AATTTAGC-TTAATTAAGAG
1 TAA-TTAGCTTTAATTAAGAG
98675970 TAATTAG
1 TAATTAG
98675977 GAAAAAGGAT
Statistics
Matches: 23, Mismatches: 1, Indels: 6
0.77 0.03 0.20
Matches are distributed among these distances:
19 14 0.61
20 6 0.26
21 3 0.13
ACGTcount: A:0.38, C:0.04, G:0.17, T:0.40
Consensus pattern (20 bp):
TAATTAGCTTTAATTAAGAG
Found at i:98676330 original size:30 final size:28
Alignment explanation
Indices: 98676288--98676355 Score: 82
Period size: 28 Copynumber: 2.3 Consensus size: 28
98676278 GTGATATATT
* *
98676288 TATTTAATTATTTTTTATTTAAGTAAATAGA
1 TATTT-ATTATTTATTA-TTAAG-AAAAAGA
*
98676319 TATTTATTATTTATTATTAAGAAAAATA
1 TATTTATTATTTATTATTAAGAAAAAGA
98676347 TATTTATTA
1 TATTTATTA
98676356 ATTAAATAAT
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
28 14 0.41
29 5 0.15
30 10 0.29
31 5 0.15
ACGTcount: A:0.41, C:0.00, G:0.04, T:0.54
Consensus pattern (28 bp):
TATTTATTATTTATTATTAAGAAAAAGA
Found at i:98676620 original size:33 final size:33
Alignment explanation
Indices: 98676583--98676646 Score: 110
Period size: 33 Copynumber: 1.9 Consensus size: 33
98676573 ATAAGAAACA
* *
98676583 AAGATAGAACAGAAAAACAGAATAGGCTATTCG
1 AAGATAGAAAAAAAAAACAGAATAGGCTATTCG
98676616 AAGATAGAAAAAAAAAACAGAATAGGCTATT
1 AAGATAGAAAAAAAAAACAGAATAGGCTATT
98676647 TGAAAGTACG
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.56, C:0.09, G:0.19, T:0.16
Consensus pattern (33 bp):
AAGATAGAAAAAAAAAACAGAATAGGCTATTCG
Found at i:98679384 original size:18 final size:18
Alignment explanation
Indices: 98679361--98679472 Score: 84
Period size: 18 Copynumber: 6.2 Consensus size: 18
98679351 TAAATAAAAG
* *
98679361 TACTGAATGACTGACTGT
1 TACTGAATAACTGAATGT
*
98679379 TACTGAATAATTG-ATCGT
1 TACTGAATAACTGAAT-GT
* *
98679397 TACTGAATAACTGATTGC
1 TACTGAATAACTGAATGT
** * *
98679415 TACTGAGCAAATGATTGT
1 TACTGAATAACTGAATGT
*
98679433 TACTGAATAACT-AATTT
1 TACTGAATAACTGAATGT
* *
98679450 CTACTGAATGATTGAATGT
1 -TACTGAATAACTGAATGT
98679469 TACT
1 TACT
98679473 AAATGAAACT
Statistics
Matches: 72, Mismatches: 18, Indels: 8
0.73 0.18 0.08
Matches are distributed among these distances:
17 4 0.06
18 63 0.88
19 5 0.07
ACGTcount: A:0.33, C:0.13, G:0.17, T:0.37
Consensus pattern (18 bp):
TACTGAATAACTGAATGT
Found at i:98679470 original size:36 final size:36
Alignment explanation
Indices: 98679361--98679472 Score: 109
Period size: 36 Copynumber: 3.1 Consensus size: 36
98679351 TAAATAAAAG
* * * *
98679361 TACTGAATGACTGACTGTTACTGAATAATTG-ATCGT
1 TACTGAATAACTAATTGCTACTGAATAATTGAAT-GT
* ** * *
98679397 TACTGAATAACTGATTGCTACTGAGCAAATGATTGT
1 TACTGAATAACTAATTGCTACTGAATAATTGAATGT
* *
98679433 TACTGAATAACTAATTTCTACTGAATGATTGAATGT
1 TACTGAATAACTAATTGCTACTGAATAATTGAATGT
98679469 TACT
1 TACT
98679473 AAATGAAACT
Statistics
Matches: 61, Mismatches: 14, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
36 60 0.98
37 1 0.02
ACGTcount: A:0.33, C:0.13, G:0.17, T:0.37
Consensus pattern (36 bp):
TACTGAATAACTAATTGCTACTGAATAATTGAATGT
Found at i:98682162 original size:19 final size:19
Alignment explanation
Indices: 98682138--98682176 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
98682128 CCTAATACAA
98682138 TTTTATCAATCCAAATAAT
1 TTTTATCAATCCAAATAAT
98682157 TTTTATCAATCCAAATAAT
1 TTTTATCAATCCAAATAAT
98682176 T
1 T
98682177 CATTCACATG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.41, C:0.15, G:0.00, T:0.44
Consensus pattern (19 bp):
TTTTATCAATCCAAATAAT
Found at i:98682361 original size:5 final size:5
Alignment explanation
Indices: 98682353--98682388 Score: 54
Period size: 5 Copynumber: 6.8 Consensus size: 5
98682343 ATGCAATGTG
98682353 AAAAT AAAAT AAAAT AAAAAT AAAAT AAAAT GAAAA
1 AAAAT AAAAT AAAAT -AAAAT AAAAT AAAAT -AAAA
98682389 ACACACAGAT
Statistics
Matches: 29, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
5 20 0.69
6 9 0.31
ACGTcount: A:0.81, C:0.00, G:0.03, T:0.17
Consensus pattern (5 bp):
AAAAT
Found at i:98682372 original size:16 final size:17
Alignment explanation
Indices: 98682353--98682389 Score: 67
Period size: 16 Copynumber: 2.2 Consensus size: 17
98682343 ATGCAATGTG
98682353 AAAATAAAATAAAAT-A
1 AAAATAAAATAAAATGA
98682369 AAAATAAAATAAAATGA
1 AAAATAAAATAAAATGA
98682386 AAAA
1 AAAA
98682390 CACACAGATT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 15 0.75
17 5 0.25
ACGTcount: A:0.81, C:0.00, G:0.03, T:0.16
Consensus pattern (17 bp):
AAAATAAAATAAAATGA
Found at i:98682388 original size:11 final size:10
Alignment explanation
Indices: 98682353--98682388 Score: 54
Period size: 11 Copynumber: 3.4 Consensus size: 10
98682343 ATGCAATGTG
98682353 AAAATAAAAT
1 AAAATAAAAT
98682363 AAAATAAAAAT
1 AAAAT-AAAAT
98682374 AAAATAAAAT
1 AAAATAAAAT
98682384 GAAAA
1 -AAAA
98682389 ACACACAGAT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
10 10 0.42
11 14 0.58
ACGTcount: A:0.81, C:0.00, G:0.03, T:0.17
Consensus pattern (10 bp):
AAAATAAAAT
Found at i:98690656 original size:30 final size:29
Alignment explanation
Indices: 98690580--98690665 Score: 79
Period size: 30 Copynumber: 2.9 Consensus size: 29
98690570 TTCAGTTCAC
*
98690580 GAGCTAAACCTTAGCTCAACTTCAGCTTAG
1 GAGCTAAA-CTTAGCTCAACTTTAGCTTAG
*
98690610 GAG-TATAATTTCAGCTCAACTTTAGCTTAAG
1 GAGCTA-AACTT-AGCTCAACTTTAGCTT-AG
*
98690641 G-GCTAAAGCTTAGCTC-ATTTTAGCT
1 GAGCTAAA-CTTAGCTCAACTTTAGCT
98690666 CAAACCCAGT
Statistics
Matches: 47, Mismatches: 4, Indels: 11
0.76 0.06 0.18
Matches are distributed among these distances:
29 12 0.26
30 28 0.60
31 7 0.15
ACGTcount: A:0.29, C:0.21, G:0.17, T:0.33
Consensus pattern (29 bp):
GAGCTAAACTTAGCTCAACTTTAGCTTAG
Found at i:98692271 original size:13 final size:12
Alignment explanation
Indices: 98692244--98692286 Score: 52
Period size: 12 Copynumber: 3.6 Consensus size: 12
98692234 AAGTATATAC
*
98692244 AAAAAAAAATC-
1 AAAAAAAATTCG
*
98692255 AAAAAAAATTTTG
1 AAAAAAAA-TTCG
98692268 AAAAAAAATTCG
1 AAAAAAAATTCG
98692280 AAAAAAA
1 AAAAAAA
98692287 GGTGTTTTAT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
11 8 0.30
12 11 0.41
13 8 0.30
ACGTcount: A:0.74, C:0.05, G:0.05, T:0.16
Consensus pattern (12 bp):
AAAAAAAATTCG
Found at i:98692627 original size:15 final size:16
Alignment explanation
Indices: 98692589--98692628 Score: 50
Period size: 15 Copynumber: 2.6 Consensus size: 16
98692579 TGAAGTCGAG
98692589 AGAAGA-AATAAAGAAA
1 AGAAGAGAA-AAAGAAA
98692605 AG-AGAGAAAAA-AAA
1 AGAAGAGAAAAAGAAA
98692619 AGAAGAGAAA
1 AGAAGAGAAA
98692629 GTGTACAAGA
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
14 5 0.23
15 13 0.59
16 4 0.18
ACGTcount: A:0.75, C:0.00, G:0.23, T:0.03
Consensus pattern (16 bp):
AGAAGAGAAAAAGAAA
Found at i:98692680 original size:18 final size:19
Alignment explanation
Indices: 98692649--98692695 Score: 53
Period size: 18 Copynumber: 2.5 Consensus size: 19
98692639 AAACAAAATT
**
98692649 GAAAAAGACATTGAA-AAA
1 GAAAAAGAGTTTGAACAAA
98692667 GAAAAAGAGTTTGAACAAA
1 GAAAAAGAGTTTGAACAAA
98692686 -AGAAAAGAGT
1 GA-AAAAGAGT
98692696 GGAAAGAGAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
18 14 0.56
19 11 0.44
ACGTcount: A:0.62, C:0.04, G:0.21, T:0.13
Consensus pattern (19 bp):
GAAAAAGAGTTTGAACAAA
Found at i:98701874 original size:40 final size:40
Alignment explanation
Indices: 98701830--98701908 Score: 115
Period size: 40 Copynumber: 2.0 Consensus size: 40
98701820 TTACAGTACC
98701830 ACTTGGTGTATAGGGCTGGATCA-GTCAATTTTATCCCCAT
1 ACTTGGTGTATAGGGCTGGAT-AGGTCAATTTTATCCCCAT
* * *
98701870 ACTTGGTGTGTAGGGCTGGGTAGGTCGATTTTATCCCCA
1 ACTTGGTGTATAGGGCTGGATAGGTCAATTTTATCCCCA
98701909 CATGGTGTGT
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
39 1 0.03
40 34 0.97
ACGTcount: A:0.19, C:0.19, G:0.28, T:0.34
Consensus pattern (40 bp):
ACTTGGTGTATAGGGCTGGATAGGTCAATTTTATCCCCAT
Found at i:98703666 original size:258 final size:258
Alignment explanation
Indices: 98703209--98703729 Score: 916
Period size: 258 Copynumber: 2.0 Consensus size: 258
98703199 AGTGTGGCCA
*
98703209 AGTATTGGATAAAGGCCATAGAGCGCATAATGGATGACTTGGATTTTACTAATGAGCAGAAGCTC
1 AGTATTGGATAAAGGCCATAGAGCGCATAATGGATGACTTGGATTTTACTAATGAACAGAAGCTC
* * *
98703274 AAGGGGGCTGTGTCTCTGCTTCGCGATGAGGCATACCAGTGGTGGTTGACCATTAAGGAGGGTAC
66 AAAGGGGCTGTGTCTCTGCTTCGCAATGAGGCATACCAGTGGTGGTTGACCATTAAGGAGGATAC
*
98703339 TCAGCCTGATAGGTTGACTTGGGATTTGTTTAAGACCACCTATCTAAGTAAGTATGTGGGAGCTA
131 TCAGCCTGATAGGTTGACTTGGGATTTGTTTAAGACCACCTATCTAAGTAAGTATATGGGAGCTA
* * * *
98703404 GCTACACTGACGCTAGGCAACGTGAGCTTCTGAATCTTACTAAGGGAGACCGTTTAGTGGCTG
196 GCTACACTGACACCAGGCAACGTGAGCTTCTGAATCTTACTAAAGGAGACCGTTAAGTGGCTG
* * *
98703467 AGTATTGGATGAAGGCCATAGAGTGCATAATGGATGACTTGGATTTTACTGATGAACAGAAGCTC
1 AGTATTGGATAAAGGCCATAGAGCGCATAATGGATGACTTGGATTTTACTAATGAACAGAAGCTC
98703532 AAAGGGGCTGTGTCTCTGCTTCGCAATGAGGCATACCAGTGGTGGTTGACCATTAAGGAGGATAC
66 AAAGGGGCTGTGTCTCTGCTTCGCAATGAGGCATACCAGTGGTGGTTGACCATTAAGGAGGATAC
*
98703597 TCAGCCTGATAGGTTGACTTGGGATTTGTTTAAGACCACCTATCTGAGTAAGTATATGGGAGCTA
131 TCAGCCTGATAGGTTGACTTGGGATTTGTTTAAGACCACCTATCTAAGTAAGTATATGGGAGCTA
*
98703662 GCTACACTGACACCAGGCAACGTGAGCTTTTGAATCTTACTAAAGGAGACCGTTAAGTGGCTG
196 GCTACACTGACACCAGGCAACGTGAGCTTCTGAATCTTACTAAAGGAGACCGTTAAGTGGCTG
98703725 AGTAT
1 AGTAT
98703730 GAGGCCGAAT
Statistics
Matches: 249, Mismatches: 14, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
258 249 1.00
ACGTcount: A:0.27, C:0.17, G:0.29, T:0.27
Consensus pattern (258 bp):
AGTATTGGATAAAGGCCATAGAGCGCATAATGGATGACTTGGATTTTACTAATGAACAGAAGCTC
AAAGGGGCTGTGTCTCTGCTTCGCAATGAGGCATACCAGTGGTGGTTGACCATTAAGGAGGATAC
TCAGCCTGATAGGTTGACTTGGGATTTGTTTAAGACCACCTATCTAAGTAAGTATATGGGAGCTA
GCTACACTGACACCAGGCAACGTGAGCTTCTGAATCTTACTAAAGGAGACCGTTAAGTGGCTG
Found at i:98709316 original size:40 final size:40
Alignment explanation
Indices: 98709272--98709347 Score: 134
Period size: 40 Copynumber: 1.9 Consensus size: 40
98709262 CAGTACCACT
98709272 TGGTGTGTAGGGCTGGATCGGTCGATTTTATCCCCATACG
1 TGGTGTGTAGGGCTGGATCGGTCGATTTTATCCCCATACG
* *
98709312 TGGTGTGTAGGGCTGGGTGGGTCGATTTTATCCCCA
1 TGGTGTGTAGGGCTGGATCGGTCGATTTTATCCCCA
98709348 CATGATGTGT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 34 1.00
ACGTcount: A:0.13, C:0.18, G:0.36, T:0.33
Consensus pattern (40 bp):
TGGTGTGTAGGGCTGGATCGGTCGATTTTATCCCCATACG
Found at i:98710466 original size:32 final size:30
Alignment explanation
Indices: 98710392--98710473 Score: 94
Period size: 32 Copynumber: 2.6 Consensus size: 30
98710382 GTATACAATT
* *
98710392 GTAACATAAATATTTAATTACTTTTTATTTAA
1 GTAA-ATAGATATTT-ATTACTTATTATTTAA
98710424 GTAAATAGATATTTATTACTTATTATTATTAA
1 GTAAATAGATATTTATTACTTATTA-T-TTAA
98710456 GTTAAA-AGATATTTATTA
1 G-TAAATAGATATTTATTA
98710474 ATTAAATAAT
Statistics
Matches: 45, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
30 10 0.22
31 10 0.22
32 21 0.47
33 4 0.09
ACGTcount: A:0.41, C:0.04, G:0.06, T:0.49
Consensus pattern (30 bp):
GTAAATAGATATTTATTACTTATTATTTAA
Found at i:98723328 original size:13 final size:13
Alignment explanation
Indices: 98723307--98723345 Score: 60
Period size: 13 Copynumber: 3.0 Consensus size: 13
98723297 ATTTGATTGG
98723307 AAAATGAATTAAA
1 AAAATGAATTAAA
* *
98723320 AAGATGAATAAAA
1 AAAATGAATTAAA
98723333 AAAATGAATTAAA
1 AAAATGAATTAAA
98723346 TTATGAATAT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.69, C:0.00, G:0.10, T:0.21
Consensus pattern (13 bp):
AAAATGAATTAAA
Found at i:98723364 original size:10 final size:10
Alignment explanation
Indices: 98723349--98723388 Score: 80
Period size: 10 Copynumber: 4.0 Consensus size: 10
98723339 AATTAAATTA
98723349 TGAATATGTG
1 TGAATATGTG
98723359 TGAATATGTG
1 TGAATATGTG
98723369 TGAATATGTG
1 TGAATATGTG
98723379 TGAATATGTG
1 TGAATATGTG
98723389 AAGTGGGATT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 30 1.00
ACGTcount: A:0.30, C:0.00, G:0.30, T:0.40
Consensus pattern (10 bp):
TGAATATGTG
Found at i:98723572 original size:21 final size:21
Alignment explanation
Indices: 98723526--98723605 Score: 88
Period size: 21 Copynumber: 3.8 Consensus size: 21
98723516 TACCGATCAC
*
98723526 GCACTTCATGTGTCATATTCAG
1 GCACTTCATGTGTCGT-TTCAG
* *
98723548 GCACTTTATGTGTCGTTTTAG
1 GCACTTCATGTGTCGTTTCAG
* * *
98723569 GCACCTCGTATGTCGTTTCAG
1 GCACTTCATGTGTCGTTTCAG
*
98723590 GCACTTTATGTGTCGT
1 GCACTTCATGTGTCGT
98723606 ATACTACTTC
Statistics
Matches: 46, Mismatches: 12, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
21 32 0.70
22 14 0.30
ACGTcount: A:0.16, C:0.21, G:0.23, T:0.40
Consensus pattern (21 bp):
GCACTTCATGTGTCGTTTCAG
Found at i:98724691 original size:13 final size:13
Alignment explanation
Indices: 98724673--98724702 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
98724663 AGTTCACACA
*
98724673 AAAAAATAAATAT
1 AAAAAATAAAAAT
98724686 AAAAAATAAAAAT
1 AAAAAATAAAAAT
98724699 AAAA
1 AAAA
98724703 TTCTGGAGCA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (13 bp):
AAAAAATAAAAAT
Found at i:98726717 original size:53 final size:53
Alignment explanation
Indices: 98726636--98726786 Score: 205
Period size: 53 Copynumber: 2.8 Consensus size: 53
98726626 CTTACACGGT
* * *
98726636 TCACATATCATACCGAAGCCATATCCCAGAC-ATGGTTTTATACGGAATCACATTA
1 TCACAT-T-ATACCGATGCCATAGCCCAG-CTATGGTCTTATACGGAATCACATTA
*
98726691 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAGTCACATTA
1 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAATCACATTA
** *
98726744 TCACATTGCACCGATGCCATAGCCCAGCTATGGTCTTAAACGG
1 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGG
98726787 GCACACTTAT
Statistics
Matches: 88, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
52 1 0.01
53 80 0.91
54 1 0.01
55 6 0.07
ACGTcount: A:0.30, C:0.27, G:0.17, T:0.26
Consensus pattern (53 bp):
TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAATCACATTA
Found at i:98729496 original size:16 final size:16
Alignment explanation
Indices: 98729475--98729508 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
98729465 ATACTTTAAA
98729475 CATACCATTTCATCAT
1 CATACCATTTCATCAT
98729491 CATACCATTTCATCAT
1 CATACCATTTCATCAT
98729507 CA
1 CA
98729509 ACAAACCAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.32, C:0.32, G:0.00, T:0.35
Consensus pattern (16 bp):
CATACCATTTCATCAT
Found at i:98729516 original size:19 final size:18
Alignment explanation
Indices: 98729473--98729516 Score: 56
Period size: 16 Copynumber: 2.5 Consensus size: 18
98729463 TCATACTTTA
98729473 AACATACCATTTCATCAT
1 AACATACCATTTCATCAT
98729491 --CATACCATTTCATCAT
1 AACATACCATTTCATCAT
*
98729507 CAACAAACCA
1 -AACATACCA
98729517 ATCCACAACA
Statistics
Matches: 22, Mismatches: 1, Indels: 5
0.79 0.04 0.18
Matches are distributed among these distances:
16 16 0.73
19 6 0.27
ACGTcount: A:0.41, C:0.32, G:0.00, T:0.27
Consensus pattern (18 bp):
AACATACCATTTCATCAT
Found at i:98730326 original size:43 final size:44
Alignment explanation
Indices: 98730246--98730360 Score: 153
Period size: 43 Copynumber: 2.7 Consensus size: 44
98730236 TTGATGCCTT
* * * *
98730246 TGTCCCAGACAGGGTCTTACACGAAATC-GATTAACAATGCCAA
1 TGTCCCAGACATGGTCTTACACGTAATCACAATAACAATGCCAA
*
98730289 TGTCCCAGACATGGTCTTACATGTAATCACAAT-ACAATGCCAA
1 TGTCCCAGACATGGTCTTACACGTAATCACAATAACAATGCCAA
* *
98730332 TGCCCCAGACATGGTCTTACAGGTAATCA
1 TGTCCCAGACATGGTCTTACACGTAATCA
98730361 TATCTCGATA
Statistics
Matches: 64, Mismatches: 7, Indels: 2
0.88 0.10 0.03
Matches are distributed among these distances:
43 62 0.97
44 2 0.03
ACGTcount: A:0.33, C:0.26, G:0.17, T:0.23
Consensus pattern (44 bp):
TGTCCCAGACATGGTCTTACACGTAATCACAATAACAATGCCAA
Found at i:98734562 original size:24 final size:24
Alignment explanation
Indices: 98734535--98734588 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 24
98734525 AATTATAGTC
* * *
98734535 AAATATACTGTGCTAATAAATATT
1 AAATATACTATACTAATAAATAAT
* *
98734559 AAATATATTATACTCATAAATAAT
1 AAATATACTATACTAATAAATAAT
98734583 AAATAT
1 AAATAT
98734589 TAAATAAATA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.52, C:0.07, G:0.04, T:0.37
Consensus pattern (24 bp):
AAATATACTATACTAATAAATAAT
Found at i:98738970 original size:24 final size:24
Alignment explanation
Indices: 98738942--98738988 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
98738932 AAACCTAATT
98738942 CTAATAA-TAGTCAAATATATTATC
1 CTAATAACT-GTCAAATATATTATC
*
98738966 CTAATAACTGTTAAATATATTAT
1 CTAATAACTGTCAAATATATTAT
98738989 ACTCATAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 20 0.95
25 1 0.05
ACGTcount: A:0.45, C:0.11, G:0.04, T:0.40
Consensus pattern (24 bp):
CTAATAACTGTCAAATATATTATC
Found at i:98739004 original size:24 final size:24
Alignment explanation
Indices: 98738954--98739005 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 24
98738944 AATAATAGTC
* * **
98738954 AAATATATTATCCTAATAACTGTT
1 AAATATATTATACTAATAAATACT
*
98738978 AAATATATTATACTCATAAATACT
1 AAATATATTATACTAATAAATACT
98739002 AAAT
1 AAAT
98739006 CTTCTAGAAA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.48, C:0.12, G:0.02, T:0.38
Consensus pattern (24 bp):
AAATATATTATACTAATAAATACT
Found at i:98742428 original size:79 final size:79
Alignment explanation
Indices: 98742297--98742457 Score: 322
Period size: 79 Copynumber: 2.0 Consensus size: 79
98742287 TAAAATAGAA
98742297 GAAGGTTTGAAACCCACACCTATTTCGTGATCGAACACGTCCTGATGCCGATTTGATGACCAAAA
1 GAAGGTTTGAAACCCACACCTATTTCGTGATCGAACACGTCCTGATGCCGATTTGATGACCAAAA
98742362 AATCTAAGCTCTTC
66 AATCTAAGCTCTTC
98742376 GAAGGTTTGAAACCCACACCTATTTCGTGATCGAACACGTCCTGATGCCGATTTGATGACCAAAA
1 GAAGGTTTGAAACCCACACCTATTTCGTGATCGAACACGTCCTGATGCCGATTTGATGACCAAAA
98742441 AATCTAAGCTCTTC
66 AATCTAAGCTCTTC
98742455 GAA
1 GAA
98742458 ACCACAACAC
Statistics
Matches: 82, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
79 82 1.00
ACGTcount: A:0.31, C:0.25, G:0.18, T:0.26
Consensus pattern (79 bp):
GAAGGTTTGAAACCCACACCTATTTCGTGATCGAACACGTCCTGATGCCGATTTGATGACCAAAA
AATCTAAGCTCTTC
Found at i:98745675 original size:15 final size:15
Alignment explanation
Indices: 98745655--98745705 Score: 75
Period size: 15 Copynumber: 3.4 Consensus size: 15
98745645 CCACCAATAC
*
98745655 CACCAATAACATTGT
1 CACCAATAACATTGA
* *
98745670 CACCAATGACATTGG
1 CACCAATAACATTGA
98745685 CACCAATAACATTGA
1 CACCAATAACATTGA
98745700 CACCAA
1 CACCAA
98745706 CAGGTACACC
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 32 1.00
ACGTcount: A:0.41, C:0.29, G:0.10, T:0.20
Consensus pattern (15 bp):
CACCAATAACATTGA
Found at i:98745776 original size:24 final size:24
Alignment explanation
Indices: 98745701--98745779 Score: 88
Period size: 24 Copynumber: 3.3 Consensus size: 24
98745691 TAACATTGAC
* *
98745701 ACCAACAGGTACACCAA-TCGAGGA
1 ACCAACAGATCCACCAACT-GAGGA
* * *
98745725 ACCAATAGATCCACCAACCGAGAA
1 ACCAACAGATCCACCAACTGAGGA
*
98745749 ACCAACAGATCCACCAACTGAGGT
1 ACCAACAGATCCACCAACTGAGGA
98745773 ACCAACA
1 ACCAACA
98745780 CTGCCTTGAA
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
24 45 1.00
ACGTcount: A:0.43, C:0.33, G:0.15, T:0.09
Consensus pattern (24 bp):
ACCAACAGATCCACCAACTGAGGA
Found at i:98753763 original size:22 final size:22
Alignment explanation
Indices: 98753712--98753769 Score: 84
Period size: 21 Copynumber: 2.7 Consensus size: 22
98753702 ATATCCTTGG
*
98753712 CTCACACGGGCGTGTGCCTCTA
1 CTCACACGGCCGTGTGCCTCTA
98753734 C-CACACGGCCGTGTGCCTCCT-
1 CTCACACGGCCGTGTGCCT-CTA
98753755 CTCACACGGCCGTGT
1 CTCACACGGCCGTGT
98753770 TGACCCCCAC
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
21 17 0.52
22 16 0.48
ACGTcount: A:0.12, C:0.41, G:0.26, T:0.21
Consensus pattern (22 bp):
CTCACACGGCCGTGTGCCTCTA
Found at i:98770421 original size:9 final size:9
Alignment explanation
Indices: 98770407--98770438 Score: 64
Period size: 9 Copynumber: 3.6 Consensus size: 9
98770397 AACTTGGTGC
98770407 ATTTTGTTT
1 ATTTTGTTT
98770416 ATTTTGTTT
1 ATTTTGTTT
98770425 ATTTTGTTT
1 ATTTTGTTT
98770434 ATTTT
1 ATTTT
98770439 TAATATTTGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 23 1.00
ACGTcount: A:0.12, C:0.00, G:0.09, T:0.78
Consensus pattern (9 bp):
ATTTTGTTT
Found at i:98770546 original size:23 final size:23
Alignment explanation
Indices: 98770516--98770564 Score: 98
Period size: 23 Copynumber: 2.1 Consensus size: 23
98770506 ATTGAAACAA
98770516 CATAATGATAGCTAATATGCTTT
1 CATAATGATAGCTAATATGCTTT
98770539 CATAATGATAGCTAATATGCTTT
1 CATAATGATAGCTAATATGCTTT
98770562 CAT
1 CAT
98770565 CTTTTTAATT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.35, C:0.14, G:0.12, T:0.39
Consensus pattern (23 bp):
CATAATGATAGCTAATATGCTTT
Found at i:98775022 original size:23 final size:23
Alignment explanation
Indices: 98774992--98775040 Score: 98
Period size: 23 Copynumber: 2.1 Consensus size: 23
98774982 ATTGAAACAA
98774992 CATAATGATAGCTAATATGCTTT
1 CATAATGATAGCTAATATGCTTT
98775015 CATAATGATAGCTAATATGCTTT
1 CATAATGATAGCTAATATGCTTT
98775038 CAT
1 CAT
98775041 CTTTTTAATT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.35, C:0.14, G:0.12, T:0.39
Consensus pattern (23 bp):
CATAATGATAGCTAATATGCTTT
Found at i:98776103 original size:16 final size:16
Alignment explanation
Indices: 98776070--98776103 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
98776060 ACTTGTTGTT
* *
98776070 AACATTAATGGGAGAC
1 AACATTAATGGCAAAC
98776086 AACATTAATGGCAAAC
1 AACATTAATGGCAAAC
98776102 AA
1 AA
98776104 TACAAAGTGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.15, G:0.18, T:0.18
Consensus pattern (16 bp):
AACATTAATGGCAAAC
Found at i:98778928 original size:21 final size:21
Alignment explanation
Indices: 98778902--98778942 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
98778892 AGACGAGCAA
* *
98778902 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
98778923 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
98778943 TTGAGCAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:98780881 original size:16 final size:16
Alignment explanation
Indices: 98780848--98780881 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
98780838 GGAGATTGTT
* *
98780848 AACATTAATGGGAGAC
1 AACATTAATGGCAAAC
98780864 AACATTAATGGCAAAC
1 AACATTAATGGCAAAC
98780880 AA
1 AA
98780882 TACAAAGTGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.15, G:0.18, T:0.18
Consensus pattern (16 bp):
AACATTAATGGCAAAC
Found at i:98782567 original size:2 final size:2
Alignment explanation
Indices: 98782560--98782590 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
98782550 AAATGCCCAC
98782560 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
98782591 ACACACACAC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.00, C:0.52, G:0.00, T:0.48
Consensus pattern (2 bp):
CT
Found at i:98794431 original size:40 final size:40
Alignment explanation
Indices: 98794386--98794968 Score: 1001
Period size: 40 Copynumber: 14.6 Consensus size: 40
98794376 CAAGCTCAAT
* * * * *
98794386 TGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCACGAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
*
98794426 TGCCTTCGGGTCTTAGCCC-GATATATCAACTT-GCACAAT
1 TGCCTTCGGGTCTTAGCCCGGATATATCAA-TTCGCACAAA
98794465 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
* * *
98794505 CGCCGTCGGGTCTTAGCCCGGATATATCAGTTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
*
98794545 TGCCTTCGGGTCTTATCCCGGATATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
*
98794585 TGCCTTCGGGTCTTATCCCGGATATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
* *
98794625 TGCCTTCGGGTCTTATCCCGGATATATCAAATCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
98794665 TGCCTTCGGGTCTTAGCCCGGATATATCAA-TCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
98794704 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
*
98794744 TGCCTTCAGGTCTTAGCCCGGATATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
*
98794784 TGCCTTCGGGTCTTATCCCGGATATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
98794824 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
98794864 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
98794904 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
98794944 TGCCTTCGGGTCTTAGCCCGGATAT
1 TGCCTTCGGGTCTTAGCCCGGATAT
98794969 CATTCAAATG
Statistics
Matches: 519, Mismatches: 20, Indels: 8
0.95 0.04 0.01
Matches are distributed among these distances:
39 73 0.14
40 446 0.86
ACGTcount: A:0.24, C:0.28, G:0.20, T:0.28
Consensus pattern (40 bp):
TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
Found at i:98794782 original size:239 final size:240
Alignment explanation
Indices: 98794386--98794968 Score: 1017
Period size: 239 Copynumber: 2.4 Consensus size: 240
98794376 CAAGCTCAAT
* * * *
98794386 TGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCACGAATGCCTTCGGGTCTTAGCCC-GATAT
1 TGCCTTCGGGTCTTAACCCGGATATATCAAATCGCACAAATGCCTTCGGGTCTTAGCCCGGATAT
* * *
98794450 ATCAACTTGCACAATTGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAACGCCGTCGGG
66 ATCAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAACGCCGTCAGG
*
98794515 TCTTAGCCCGGATATATCAGTTCGCACAAATGCCTTCGGGTCTTATCCCGGATATATCAATTCGC
131 TCTTAGCCCGGATATATCAATTCGCACAAATGCCTTCGGGTCTTATCCCGGATATATCAATTCGC
*
98794580 ACAAATGCCTTCGGGTCTTATCCCGGATATATCAATTCGCACAAA
196 ACAAATGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
*
98794625 TGCCTTCGGGTCTTATCCCGGATATATCAAATCGCACAAATGCCTTCGGGTCTTAGCCCGGATAT
1 TGCCTTCGGGTCTTAACCCGGATATATCAAATCGCACAAATGCCTTCGGGTCTTAGCCCGGATAT
* *
98794690 ATCAA-TCGCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAATGCCTTCAGG
66 ATCAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAACGCCGTCAGG
98794754 TCTTAGCCCGGATATATCAATTCGCACAAATGCCTTCGGGTCTTATCCCGGATATATCAATTCGC
131 TCTTAGCCCGGATATATCAATTCGCACAAATGCCTTCGGGTCTTATCCCGGATATATCAATTCGC
98794819 ACAAATGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
196 ACAAATGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
* *
98794864 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAATGCCTTCGGGTCTTAGCCCGGATAT
1 TGCCTTCGGGTCTTAACCCGGATATATCAAATCGCACAAATGCCTTCGGGTCTTAGCCCGGATAT
*
98794929 ATCAATTCGCACAAATGCCTTCGGGTCTTAGCCCGGATAT
66 ATCAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATAT
98794969 CATTCAAATG
Statistics
Matches: 328, Mismatches: 14, Indels: 3
0.95 0.04 0.01
Matches are distributed among these distances:
239 284 0.87
240 44 0.13
ACGTcount: A:0.24, C:0.28, G:0.20, T:0.28
Consensus pattern (240 bp):
TGCCTTCGGGTCTTAACCCGGATATATCAAATCGCACAAATGCCTTCGGGTCTTAGCCCGGATAT
ATCAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAACGCCGTCAGG
TCTTAGCCCGGATATATCAATTCGCACAAATGCCTTCGGGTCTTATCCCGGATATATCAATTCGC
ACAAATGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
Found at i:98802279 original size:40 final size:40
Alignment explanation
Indices: 98802234--98802814 Score: 983
Period size: 40 Copynumber: 14.6 Consensus size: 40
98802224 CAAGCTCAAT
* * * * *
98802234 TGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCACGAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
* *
98802274 TGCCTTCGGGTCTTAGCCCGTATATATCAACTT-GCACAAT
1 TGCCTTCGGGTCTTAGCCCGGATATATCAA-TTCGCACAAA
*
98802314 TTCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
* * *
98802354 CGCCGTCGGGTCTTAGCCCGGATATATCAGTTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
*
98802394 TGCCTTCGGGTCTTATCCCGGATATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
*
98802434 TGCCTTCGGGTCTTATCCCGGATATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
*
98802474 TGCCTTCGGGTCTTATCCCGGATATATCAA-TCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
98802513 TGCCTTC-GGTCTTAGCCCGGATATATCAA-TCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
98802551 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
*
98802591 TGCCTTCAGGTCTTAGCCCGGATATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
98802631 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
98802671 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
98802711 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
98802751 TGCCTTC-GGTCTTAGCCCGGATATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
98802790 TGCCTTCGGGTCTTAGCCCGGATAT
1 TGCCTTCGGGTCTTAGCCCGGATAT
98802815 CATTCAAATG
Statistics
Matches: 515, Mismatches: 21, Indels: 10
0.94 0.04 0.02
Matches are distributed among these distances:
38 37 0.07
39 79 0.15
40 398 0.77
41 1 0.00
ACGTcount: A:0.24, C:0.28, G:0.20, T:0.28
Consensus pattern (40 bp):
TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
Found at i:98802787 original size:277 final size:279
Alignment explanation
Indices: 98802234--98802814 Score: 990
Period size: 277 Copynumber: 2.1 Consensus size: 279
98802224 CAAGCTCAAT
* * * *
98802234 TGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCACGAATGCCTTCGGGTCTTAGCCCGTATAT
1 TGCCTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATAT
* * *
98802299 ATCAACTTGCACAATTTCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAACGCCGTCGGG
66 ATCAACTTGCACAAATGCCTTCAGGTCTTAGCCCGGATATATCAATTCGCACAAACGCCGTCGGG
* *
98802364 TCTTAGCCCGGATATATCAGTTCGCACAAATGCCTTCGGGTCTTATCCCGGATATATCAATTCGC
131 TCTTAGCCCGGATATATCAATTCGCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAATTCGC
* *
98802429 ACAAATGCCTTCGGGTCTTATCCCGGATATATCAATTCGCACAAATGCCTTCGGGTCTTATCCCG
196 ACAAATGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAATGCCTTCGGGTCTTAGCCCG
98802494 GATATATCAATCGCACAAA
261 GATATATCAATCGCACAAA
*
98802513 TGCCTTC-GGTCTTAGCCCGGATATATCAA-TCGCACAAATGCCTTCGGGTCTTAGCCCGGATAT
1 TGCCTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATAT
* *
98802576 ATCAA-TTCGCACAAATGCCTTCAGGTCTTAGCCCGGATATATCAATTCGCACAAATGCCTTCGG
66 ATCAACTT-GCACAAATGCCTTCAGGTCTTAGCCCGGATATATCAATTCGCACAAACGCCGTCGG
98802640 GTCTTAGCCCGGATATATCAATTCGCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAATTCG
130 GTCTTAGCCCGGATATATCAATTCGCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAATTCG
98802705 CACAAATGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAATGCCTTC-GGTCTTAGCCC
195 CACAAATGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAATGCCTTCGGGTCTTAGCCC
98802769 GGATATATCAATTCGCACAAA
260 GGATATATCAA-TCGCACAAA
98802790 TGCCTTCGGGTCTTAGCCCGGATAT
1 TGCCTTCGGGTCTTAGCCCGGATAT
98802815 CATTCAAATG
Statistics
Matches: 285, Mismatches: 14, Indels: 7
0.93 0.05 0.02
Matches are distributed among these distances:
276 23 0.08
277 219 0.77
278 36 0.13
279 7 0.02
ACGTcount: A:0.24, C:0.28, G:0.20, T:0.28
Consensus pattern (279 bp):
TGCCTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATAT
ATCAACTTGCACAAATGCCTTCAGGTCTTAGCCCGGATATATCAATTCGCACAAACGCCGTCGGG
TCTTAGCCCGGATATATCAATTCGCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAATTCGC
ACAAATGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAATGCCTTCGGGTCTTAGCCCG
GATATATCAATCGCACAAA
Found at i:98806316 original size:45 final size:45
Alignment explanation
Indices: 98806265--98806464 Score: 271
Period size: 45 Copynumber: 4.5 Consensus size: 45
98806255 GGAATGCGAC
98806265 ATCTGTTATCTTTGATCTGCTCCCCGTCTAATACAGAGATGCCAA
1 ATCTGTTATCTTTGATCTGCTCCCCGTCTAATACAGAGATGCCAA
* * *
98806310 ATCTGTTATCTTCGATCTGCTCCCCGTTTAATACAGAGACGCCAA
1 ATCTGTTATCTTTGATCTGCTCCCCGTCTAATACAGAGATGCCAA
* ** * *
98806355 ATCTGCT-TCTTCAATCTGCTCCCCATCTAATACAGAGATGTCAA
1 ATCTGTTATCTTTGATCTGCTCCCCGTCTAATACAGAGATGCCAA
*
98806399 ATCTGTTATCTCTT-ATTTGCTCCCCGTCTAATACAGAGATGCCAA
1 ATCTGTTATCT-TTGATCTGCTCCCCGTCTAATACAGAGATGCCAA
*
98806444 ATCTGTCAT-TTTGGATCTGCT
1 ATCTGTTATCTTT-GATCTGCT
98806465 TCGATGTAAA
Statistics
Matches: 135, Mismatches: 16, Indels: 8
0.85 0.10 0.05
Matches are distributed among these distances:
43 2 0.01
44 39 0.29
45 93 0.69
46 1 0.01
ACGTcount: A:0.24, C:0.27, G:0.14, T:0.34
Consensus pattern (45 bp):
ATCTGTTATCTTTGATCTGCTCCCCGTCTAATACAGAGATGCCAA
Found at i:98806389 original size:89 final size:89
Alignment explanation
Indices: 98806279--98806448 Score: 270
Period size: 89 Copynumber: 1.9 Consensus size: 89
98806269 GTTATCTTTG
* *
98806279 ATCTGCTCCCCGTCTAATACAGAGATGCCAAATCTGTTATCT-TCGATCTGCTCCCCGTTTAATA
1 ATCTGCTCCCCATCTAATACAGAGATGCCAAATCTGTTATCTCT-GATCTGCTCCCCGTCTAATA
98806343 CAGAGACGCCAAATCTGCTTCTTCA
65 CAGAGACGCCAAATCTGCTTCTTCA
* * *
98806368 ATCTGCTCCCCATCTAATACAGAGATGTCAAATCTGTTATCTCTTATTTGCTCCCCGTCTAATAC
1 ATCTGCTCCCCATCTAATACAGAGATGCCAAATCTGTTATCTCTGATCTGCTCCCCGTCTAATAC
*
98806433 AGAGATGCCAAATCTG
66 AGAGACGCCAAATCTG
98806449 TCATTTTGGA
Statistics
Matches: 74, Mismatches: 6, Indels: 2
0.90 0.07 0.02
Matches are distributed among these distances:
89 73 0.99
90 1 0.01
ACGTcount: A:0.26, C:0.29, G:0.14, T:0.31
Consensus pattern (89 bp):
ATCTGCTCCCCATCTAATACAGAGATGCCAAATCTGTTATCTCTGATCTGCTCCCCGTCTAATAC
AGAGACGCCAAATCTGCTTCTTCA
Found at i:98806611 original size:78 final size:78
Alignment explanation
Indices: 98806478--98806770 Score: 417
Period size: 78 Copynumber: 3.8 Consensus size: 78
98806468 ATGTAAACAC
* **
98806478 ATGAAGGTCAGATCTGCTATGTCTTCGATCTGTTCCTTGTCTAATACAGAGATGCCAAATCATCT
1 ATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCT
*
98806543 TGGATCTACTTCA
66 TGGATCTGCTTCA
* * * *
98806556 AGGAAGGTCCA-ATCTGTTATGTCTTTGATCTGCTCCCCGTCTAATACAGAAATGCCAAATCATC
1 ATGAAGGT-CAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATC
98806620 TTGGATCTGCTTCA
65 TTGGATCTGCTTCA
* * *
98806634 ATGAAAGTCAGATCTGCTGTGTCTTCGATCTGTTCCCCGTCTAATACAGAGATGCCAAATCATCT
1 ATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCT
98806699 TGGATCTGCTTCA
66 TGGATCTGCTTCA
* ** * **
98806712 ATGAAGGTCAGATCTGCGATGTCTTCGATCTGCTCTTCGTCGAATATGGAGATGCCAAA
1 ATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAA
98806771 CCTGTTTCTT
Statistics
Matches: 189, Mismatches: 24, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
77 2 0.01
78 185 0.98
79 2 0.01
ACGTcount: A:0.25, C:0.23, G:0.20, T:0.32
Consensus pattern (78 bp):
ATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCT
TGGATCTGCTTCA
Found at i:98815484 original size:17 final size:17
Alignment explanation
Indices: 98815462--98815494 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
98815452 GATATGATAC
98815462 TAAAAT-TATTAAAAAAT
1 TAAAATATA-TAAAAAAT
98815479 TAAAATATATAAAAAA
1 TAAAATATATAAAAAA
98815495 AATCAGGGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 13 0.87
18 2 0.13
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (17 bp):
TAAAATATATAAAAAAT
Found at i:98815495 original size:18 final size:17
Alignment explanation
Indices: 98815462--98815495 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
98815452 GATATGATAC
*
98815462 TAAAATTATTAAAAAAT
1 TAAAATTATAAAAAAAT
98815479 TAAAATATATAAAAAAA
1 TAAAAT-TATAAAAAAA
98815496 ATCAGGGAAC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (17 bp):
TAAAATTATAAAAAAAT
Found at i:98815785 original size:22 final size:21
Alignment explanation
Indices: 98815750--98815807 Score: 53
Period size: 22 Copynumber: 2.7 Consensus size: 21
98815740 AAAAGGTATC
* *
98815750 TACAAATTAAATCTCTAAAAT
1 TACAAATCATATCTCTAAAAT
*
98815771 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATC-TCTAAAAT
* *
98815794 TGCATATCATATCT
1 TACAAATCATATCT
98815808 AAGATTGCAA
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
21 4 0.13
22 17 0.57
23 9 0.30
ACGTcount: A:0.43, C:0.17, G:0.03, T:0.36
Consensus pattern (21 bp):
TACAAATCATATCTCTAAAAT
Found at i:98815822 original size:18 final size:19
Alignment explanation
Indices: 98815786--98815837 Score: 88
Period size: 18 Copynumber: 2.8 Consensus size: 19
98815776 AATCATATCT
98815786 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
98815805 TCTAAGATTGCA-ATCATA
1 TCTAAGATTGCATATCATA
*
98815823 TCTAAGATTACATAT
1 TCTAAGATTGCATAT
98815838 AATTGAAGAT
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
18 17 0.55
19 14 0.45
ACGTcount: A:0.38, C:0.15, G:0.10, T:0.37
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:98820756 original size:14 final size:16
Alignment explanation
Indices: 98820737--98820775 Score: 64
Period size: 14 Copynumber: 2.6 Consensus size: 16
98820727 TTAGAAGTGC
98820737 TTTTTAAAATTA-T-T
1 TTTTTAAAATTATTAT
98820751 TTTTTAAAATTATTAT
1 TTTTTAAAATTATTAT
98820767 TTTTTAAAA
1 TTTTTAAAA
98820776 AAAATTAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
14 12 0.52
15 1 0.04
16 10 0.43
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (16 bp):
TTTTTAAAATTATTAT
Found at i:98820782 original size:17 final size:17
Alignment explanation
Indices: 98820742--98820782 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
98820732 AGTGCTTTTT
*
98820742 AAAATTATTTTTTTAAA
1 AAAATTATTTTTTAAAA
**
98820759 ATTATTATTTTTTAAAA
1 AAAATTATTTTTTAAAA
98820776 AAAATTA
1 AAAATTA
98820783 AAAAATGATA
Statistics
Matches: 19, Mismatches: 5, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (17 bp):
AAAATTATTTTTTAAAA
Found at i:98827583 original size:131 final size:132
Alignment explanation
Indices: 98827341--98827623 Score: 424
Period size: 131 Copynumber: 2.2 Consensus size: 132
98827331 TTATTCATTC
* * *
98827341 AAAAATTCTTCAAAACGAAGGCGAGATTCGATATTTGGCAATTCGCGGAATCGTGCCCTAACGTG
1 AAAAATTCTTCAAAACGAAGACGAGATTCGATATTTAGCAATCCGCGGAATCGTGCCCTAACGTG
* * * *
98827406 TTGGGTTGCCATTTCGCGTTTGCTCGAAATAATCGAATATCACTTCAAAATTTCACTCATGCCTT
66 TTGGGTTACAATTTCGCGTTTGCTCAAAATAATCGAATATCACTTCAAAATTTCACTCATACCTT
98827471 -T
131 CT
* *
98827472 TAAAATTCTTCAAAACGAAGACGAGATTCGATATTTAGCAATCCGCGGAATCGTGCCCTAATGTG
1 AAAAATTCTTCAAAACGAAGACGAGATTCGATATTTAGCAATCCGCGGAATCGTGCCCTAACGTG
* * * *
98827537 TTGGGTTACAATTTCGCGTTTGCTCAAAATAATCGAGTATCCCTTCAAAATTTCATTCATATCTT
66 TTGGGTTACAATTTCGCGTTTGCTCAAAATAATCGAATATCACTTCAAAATTTCACTCATACCTT
98827602 CT
131 CT
* *
98827604 AAAAATTATTTAAAACGAAG
1 AAAAATTCTTCAAAACGAAG
98827624 GCAATATTTG
Statistics
Matches: 135, Mismatches: 16, Indels: 1
0.89 0.11 0.01
Matches are distributed among these distances:
131 117 0.87
132 18 0.13
ACGTcount: A:0.31, C:0.20, G:0.17, T:0.32
Consensus pattern (132 bp):
AAAAATTCTTCAAAACGAAGACGAGATTCGATATTTAGCAATCCGCGGAATCGTGCCCTAACGTG
TTGGGTTACAATTTCGCGTTTGCTCAAAATAATCGAATATCACTTCAAAATTTCACTCATACCTT
CT
Found at i:98827654 original size:131 final size:131
Alignment explanation
Indices: 98827341--98827696 Score: 367
Period size: 131 Copynumber: 2.7 Consensus size: 131
98827331 TTATTCATTC
* * * * *
98827341 AAAAATTCTTCAAAACGAAGGCGAGATTCGATATTTGGCAATTCGCGGAATCGTGCCCTAACGTG
1 AAAAATTATTCAAAACGAAGACAAGATTCGACATTTGACAATTCGCGGAATCGTGCCCTAACGTG
* * * *
98827406 TTGGGTTGCCATTTCGCGTTTGCTCGAAATAATCGAATATCACTTCAAAATTTCACTCATGCCTT
66 TTGGGTTACAATTTCGCGTTTGCTCAAAATAATCGAATATCACTTCAAAATTTCACTCATACCTT
98827471 T
131 T
* * * * * *
98827472 TAAAATTCTTCAAAACGAAGACGAGATTCGATATTT-AGCAATCCGCGGAATCGTGCCCTAATGT
1 AAAAATTATTCAAAACGAAGACAAGATTCGACATTTGA-CAATTCGCGGAATCGTGCCCTAACGT
* * * *
98827536 GTTGGGTTACAATTTCGCGTTTGCTCAAAATAATCGAGTATCCCTTCAAAATTTCATTCATATCT
65 GTTGGGTTACAATTTCGCGTTTGCTCAAAATAATCGAATATCACTTCAAAATTTCACTCATACCT
98827601 TCT
130 T-T
* * * * * * * * * *
98827604 AAAAATTATTTAAAACGAAGGCAATATTTGGCGTTTGACAATTCG-AGAATCATGTCCTATCGTG
1 AAAAATTATTCAAAACGAAGACAAGATTCGACATTTGACAATTCGCGGAATCGTGCCCTAACGTG
* ** *
98827668 CTGGGTTGTGAA-TTCTCGTTTGCTCAAAA
66 TTGGGTT-ACAATTTCGCGTTTGCTCAAAA
98827697 CGATCGAACA
Statistics
Matches: 188, Mismatches: 33, Indels: 8
0.82 0.14 0.03
Matches are distributed among these distances:
131 152 0.81
132 35 0.19
133 1 0.01
ACGTcount: A:0.30, C:0.19, G:0.18, T:0.33
Consensus pattern (131 bp):
AAAAATTATTCAAAACGAAGACAAGATTCGACATTTGACAATTCGCGGAATCGTGCCCTAACGTG
TTGGGTTACAATTTCGCGTTTGCTCAAAATAATCGAATATCACTTCAAAATTTCACTCATACCTT
T
Found at i:98831921 original size:17 final size:17
Alignment explanation
Indices: 98831885--98831938 Score: 65
Period size: 17 Copynumber: 3.1 Consensus size: 17
98831875 TTTAATTTGG
98831885 ATTTTTTTAAAATT-TAT
1 ATTTTTTT-AAATTATAT
*
98831902 ATTTTTTTAAATTATTT
1 ATTTTTTTAAATTATAT
*
98831919 ATTTTTATATAATTATAT
1 ATTTTTTTA-AATTATAT
98831937 AT
1 AT
98831939 CATTTTTAGT
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
16 5 0.16
17 18 0.56
18 9 0.28
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (17 bp):
ATTTTTTTAAATTATAT
Found at i:98834151 original size:37 final size:37
Alignment explanation
Indices: 98834101--98834173 Score: 128
Period size: 37 Copynumber: 2.0 Consensus size: 37
98834091 ACTTCACCAT
*
98834101 ACGGCCACAAGGTCGAGACACACGCCTTTGTGCTCAC
1 ACGGCCACAAGGTCGAGACACACGCCTTTATGCTCAC
*
98834138 ACGGCCACAAGGTCGAGACACACGTCTTTATGCTCA
1 ACGGCCACAAGGTCGAGACACACGCCTTTATGCTCA
98834174 ACCGTGTGGG
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 34 1.00
ACGTcount: A:0.26, C:0.33, G:0.23, T:0.18
Consensus pattern (37 bp):
ACGGCCACAAGGTCGAGACACACGCCTTTATGCTCAC
Found at i:98835105 original size:40 final size:40
Alignment explanation
Indices: 98835056--98835143 Score: 108
Period size: 40 Copynumber: 2.2 Consensus size: 40
98835046 AGTATTACAT
*
98835056 ACTTAGTGCC-TCTTATGGCCGAAGCTA-TTCCAACTCGCAC
1 ACTTAGTGCCAT-TTATAGCCGAAGCTATTTCCAAC-CGCAC
* * *
98835096 ACTTAGTGCCATTTGTAGTCGAAGCTATTTCGAACCGCAC
1 ACTTAGTGCCATTTATAGCCGAAGCTATTTCCAACCGCAC
98835136 ACTTAGTG
1 ACTTAGTG
98835144 TCGCACATTG
Statistics
Matches: 42, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
40 35 0.83
41 7 0.17
ACGTcount: A:0.24, C:0.27, G:0.19, T:0.30
Consensus pattern (40 bp):
ACTTAGTGCCATTTATAGCCGAAGCTATTTCCAACCGCAC
Found at i:98842425 original size:40 final size:42
Alignment explanation
Indices: 98842353--98842449 Score: 114
Period size: 40 Copynumber: 2.4 Consensus size: 42
98842343 TATCTCAGTA
98842353 TCGCACACTTAGTGCC-TCTTATATCGGAAGCTA-TTCCAAC
1 TCGCACACTTAGTGCCATCTTATATCGGAAGCTATTTCCAAC
* * *
98842393 TCGCACACTTAGTGCCAT-TTGTAGTC-GTAGCTATTTCGAAC
1 TCGCACACTTAGTGCCATCTTATA-TCGGAAGCTATTTCCAAC
*
98842434 T-GCACACTTGGTGCCA
1 TCGCACACTTAGTGCCA
98842450 AACATAGTCG
Statistics
Matches: 50, Mismatches: 4, Indels: 6
0.83 0.07 0.10
Matches are distributed among these distances:
40 40 0.80
41 10 0.20
ACGTcount: A:0.23, C:0.28, G:0.19, T:0.31
Consensus pattern (42 bp):
TCGCACACTTAGTGCCATCTTATATCGGAAGCTATTTCCAAC
Found at i:98851192 original size:9 final size:10
Alignment explanation
Indices: 98851186--98851271 Score: 54
Period size: 9 Copynumber: 8.3 Consensus size: 10
98851176 AGTTATTTAT
* *
98851186 TTTATTTTTC
1 TTTATTATTA
98851196 TTTATTATTA
1 TTTATTATTA
98851206 -TTATTATTA
1 TTTATTATTA
98851215 -TTATTATTA
1 TTTATTATTA
98851224 TTGGTCCA-TATTA
1 TT--T--ATTATTA
*
98851237 -TTATTATCA
1 TTTATTATTA
98851246 TCATTATTATTA
1 T--TTATTATTA
98851258 TATTATTATTA
1 T-TTATTATTA
98851269 TTT
1 TTT
98851272 CTTTATCATT
Statistics
Matches: 63, Mismatches: 4, Indels: 18
0.74 0.05 0.21
Matches are distributed among these distances:
8 1 0.02
9 22 0.35
10 12 0.19
11 11 0.17
12 11 0.17
13 5 0.08
14 1 0.02
ACGTcount: A:0.28, C:0.06, G:0.02, T:0.64
Consensus pattern (10 bp):
TTTATTATTA
Found at i:98851205 original size:3 final size:3
Alignment explanation
Indices: 98851197--98851270 Score: 80
Period size: 3 Copynumber: 24.7 Consensus size: 3
98851187 TTATTTTTCT
* *
98851197 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTGG TCCA -TA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT-A T-TA TTA TTA TTA TTA
* *
98851243 TCA TCA TTA TTA TTA -TA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
98851271 TCTTTATCAT
Statistics
Matches: 61, Mismatches: 6, Indels: 8
0.81 0.08 0.11
Matches are distributed among these distances:
2 3 0.05
3 57 0.93
4 1 0.02
ACGTcount: A:0.31, C:0.05, G:0.03, T:0.61
Consensus pattern (3 bp):
TTA
Found at i:98851277 original size:11 final size:11
Alignment explanation
Indices: 98851263--98851292 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
98851253 TATTATATTA
98851263 TTATTATTTCT
1 TTATTATTTCT
*
98851274 TTATCATTTCT
1 TTATTATTTCT
98851285 TTATTATT
1 TTATTATT
98851293 ATTGTGTGTG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.20, C:0.10, G:0.00, T:0.70
Consensus pattern (11 bp):
TTATTATTTCT
Found at i:98852973 original size:6 final size:6
Alignment explanation
Indices: 98852958--98853037 Score: 124
Period size: 6 Copynumber: 13.3 Consensus size: 6
98852948 ACTGAGTCCA
* * * *
98852958 TTTATC TTTATG TTTATT TTTATT TTTATT TTTATC TTTATC TTTATT
1 TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT
98853006 TTTATT TTTATT TTTATT TTTATT TTTATT TT
1 TTTATT TTTATT TTTATT TTTATT TTTATT TT
98853038 GTCTTTATAT
Statistics
Matches: 70, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
6 70 1.00
ACGTcount: A:0.16, C:0.04, G:0.01, T:0.79
Consensus pattern (6 bp):
TTTATT
Found at i:98853050 original size:18 final size:17
Alignment explanation
Indices: 98852970--98853050 Score: 74
Period size: 18 Copynumber: 4.6 Consensus size: 17
98852960 TATCTTTATG
98852970 TTTAT-TTTTATTTTTA
1 TTTATATTTTATTTTTA
* *
98852986 TTTTTATCTTTATCTTTA
1 TTTATAT-TTTATTTTTA
*
98853004 TTTTTATTTTTATTTTTA
1 TTTATA-TTTTATTTTTA
* *
98853022 TTTTTATTTTTATTTTGTC
1 TTTATA-TTTTATTTT-TA
98853041 TTTATATTTT
1 TTTATATTTT
98853051 GAAATCTATT
Statistics
Matches: 56, Mismatches: 5, Indels: 6
0.84 0.07 0.09
Matches are distributed among these distances:
16 4 0.07
17 1 0.02
18 44 0.79
19 7 0.12
ACGTcount: A:0.16, C:0.04, G:0.01, T:0.79
Consensus pattern (17 bp):
TTTATATTTTATTTTTA
Found at i:98857356 original size:63 final size:63
Alignment explanation
Indices: 98857257--98857383 Score: 218
Period size: 63 Copynumber: 2.0 Consensus size: 63
98857247 ATCTCCGTCA
*
98857257 GGATCATCTCCGACTGGTCTTAATGGTGCACATGAGCCTAGTCCTCTAACTAGTGATACTGTC
1 GGATCATCTCCGACTGGTCTTAATAGTGCACATGAGCCTAGTCCTCTAACTAGTGATACTGTC
* * *
98857320 GGATCGTCTTCGACTGGTCTTACTAGTGCACATGAGCCTAGTCCTCTAACTAGTGATACTGTC
1 GGATCATCTCCGACTGGTCTTAATAGTGCACATGAGCCTAGTCCTCTAACTAGTGATACTGTC
98857383 G
1 G
98857384 AGTCCTTATG
Statistics
Matches: 60, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
63 60 1.00
ACGTcount: A:0.21, C:0.25, G:0.23, T:0.31
Consensus pattern (63 bp):
GGATCATCTCCGACTGGTCTTAATAGTGCACATGAGCCTAGTCCTCTAACTAGTGATACTGTC
Found at i:98867206 original size:34 final size:35
Alignment explanation
Indices: 98867096--98867211 Score: 137
Period size: 35 Copynumber: 3.3 Consensus size: 35
98867086 ATAGCTTTAG
* * *
98867096 TTTTTT-CCCAAATCAGTTTCTCTGAAATCCCTTAC
1 TTTTTTCCCCAAATCATTTTC-CCGAAATCCCTTAA
* * *
98867131 TTTTTTCCCTAATTCATTTTCCCGAAATCCCTTAG
1 TTTTTTCCCCAAATCATTTTCCCGAAATCCCTTAA
* *
98867166 TCTTTTCCCCAAATCATTTTCCC-CAATCCCTTAA
1 TTTTTTCCCCAAATCATTTTCCCGAAATCCCTTAA
98867200 TTTTTTCCCCAA
1 TTTTTTCCCCAA
98867212 TGTCTGCTAC
Statistics
Matches: 69, Mismatches: 11, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
34 20 0.29
35 38 0.55
36 11 0.16
ACGTcount: A:0.22, C:0.32, G:0.03, T:0.43
Consensus pattern (35 bp):
TTTTTTCCCCAAATCATTTTCCCGAAATCCCTTAA
Found at i:98867249 original size:25 final size:25
Alignment explanation
Indices: 98867221--98867300 Score: 117
Period size: 25 Copynumber: 3.2 Consensus size: 25
98867211 ATGTCTGCTA
* *
98867221 CATCACCATCAATAGTCCTCTACCG
1 CATCGCCATCAACAGTCCTCTACCG
* *
98867246 CATCGCCATCAGCAGTCTTCTACCG
1 CATCGCCATCAACAGTCCTCTACCG
98867271 CATCGCCATCAACAGT-CTCTACCG
1 CATCGCCATCAACAGTCCTCTACCG
98867295 CATCGC
1 CATCGC
98867301 TATCGATAGT
Statistics
Matches: 49, Mismatches: 6, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
24 13 0.27
25 36 0.73
ACGTcount: A:0.24, C:0.41, G:0.12, T:0.23
Consensus pattern (25 bp):
CATCGCCATCAACAGTCCTCTACCG
Found at i:98872397 original size:37 final size:38
Alignment explanation
Indices: 98872321--98872398 Score: 113
Period size: 39 Copynumber: 2.1 Consensus size: 38
98872311 GTTGAGCTTG
*
98872321 TTTTATATATGGTACCTTTGATCACTATCTTTTTCAGAT
1 TTTTATATATGGTACCTTTGATCACTATC-TTTACAGAT
* *
98872360 TTTTATATATGGTTCCTTTGATCACTATC-TTAGAGAT
1 TTTTATATATGGTACCTTTGATCACTATCTTTACAGAT
98872397 TT
1 TT
98872399 CTAGGAGAAA
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 8 0.22
39 28 0.78
ACGTcount: A:0.23, C:0.14, G:0.12, T:0.51
Consensus pattern (38 bp):
TTTTATATATGGTACCTTTGATCACTATCTTTACAGAT
Found at i:98875931 original size:25 final size:25
Alignment explanation
Indices: 98875896--98875952 Score: 80
Period size: 25 Copynumber: 2.3 Consensus size: 25
98875886 GGACACACCA
*
98875896 CAGCTCGCATGAGTTTTCT-GTTATT
1 CAGCTCACATGA-TTTTCTCGTTATT
*
98875921 TAGCTCACATGATTTTCTCGTTATT
1 CAGCTCACATGATTTTCTCGTTATT
98875946 CAGCTCA
1 CAGCTCA
98875953 GAAGAGCTTA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
24 6 0.21
25 22 0.79
ACGTcount: A:0.19, C:0.23, G:0.16, T:0.42
Consensus pattern (25 bp):
CAGCTCACATGATTTTCTCGTTATT
Found at i:98879061 original size:18 final size:18
Alignment explanation
Indices: 98879038--98879072 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
98879028 CCAACAGAGT
98879038 GAGGATGAAT-CTAATGAA
1 GAGGATG-ATCCTAATGAA
98879056 GAGGATGATCCTAATGA
1 GAGGATGATCCTAATGA
98879073 TGCGGACTTG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 2 0.12
18 14 0.88
ACGTcount: A:0.40, C:0.09, G:0.29, T:0.23
Consensus pattern (18 bp):
GAGGATGATCCTAATGAA
Found at i:98881828 original size:13 final size:14
Alignment explanation
Indices: 98881812--98881840 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
98881802 TTTTAAATAT
98881812 TTATAAT-GTTTAA
1 TTATAATGGTTTAA
98881825 TTATAATGGTTTAA
1 TTATAATGGTTTAA
98881839 TT
1 TT
98881841 CATCGTTTGT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.47
14 8 0.53
ACGTcount: A:0.34, C:0.00, G:0.10, T:0.55
Consensus pattern (14 bp):
TTATAATGGTTTAA
Found at i:98882597 original size:43 final size:43
Alignment explanation
Indices: 98882549--98882699 Score: 178
Period size: 43 Copynumber: 3.5 Consensus size: 43
98882539 GCATTTTCTC
*
98882549 ACAAACGCCGCTATAA-AACATGGTCTTTAGCGGCGCTTTTACT
1 ACAAACGCCGCTA-AAGAACATGATCTTTAGCGGCGCTTTTACT
* * ** *
98882592 ACAAACGCCGCTAAAGAACATGATTTTTTGTAGCACTTTTACT
1 ACAAACGCCGCTAAAGAACATGATCTTTAGCGGCGCTTTTACT
* * * * *
98882635 ACAAACGCCGTTATAGAACATCATCTTTAACGGTGCTTTTACT
1 ACAAACGCCGCTAAAGAACATGATCTTTAGCGGCGCTTTTACT
*
98882678 AAAAACGCCGCTAAAGAACATG
1 ACAAACGCCGCTAAAGAACATG
98882700 TTCTATAACG
Statistics
Matches: 87, Mismatches: 20, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
42 2 0.02
43 85 0.98
ACGTcount: A:0.33, C:0.23, G:0.16, T:0.28
Consensus pattern (43 bp):
ACAAACGCCGCTAAAGAACATGATCTTTAGCGGCGCTTTTACT
Found at i:98888437 original size:18 final size:19
Alignment explanation
Indices: 98888404--98888443 Score: 64
Period size: 18 Copynumber: 2.1 Consensus size: 19
98888394 CAAATTAGTA
98888404 AAAATAATGCATTTTTAATT
1 AAAATAAT-CATTTTTAATT
98888424 AAAATAAT-ATTTTTAATT
1 AAAATAATCATTTTTAATT
98888442 AA
1 AA
98888444 GTTTCCAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
18 12 0.60
20 8 0.40
ACGTcount: A:0.50, C:0.03, G:0.03, T:0.45
Consensus pattern (19 bp):
AAAATAATCATTTTTAATT
Found at i:98889918 original size:87 final size:85
Alignment explanation
Indices: 98889822--98890159 Score: 292
Period size: 87 Copynumber: 3.9 Consensus size: 85
98889812 CCTCAAACTT
* * ** * * *
98889822 TTTTTAAAAAATATTTAAGCTGTTTTTTTTTTTTTGCATTCATTTAGGTACTTGAACTTTCAAGA
1 TTTTAAAAAAATAATTAAGCCCTTTTTTTTTTTTTGCACTCAATT-GGTACTTGAACTTTCAAAA
98889887 TGCATAAAAAATACTCCCAAA
65 TGCATAAAAAATACTCCCAAA
* * ** *
98889908 TTTTCAAAAAAACAATTAAGCCCCTACTATTTTTTTGCACTCAATTGAGTACTTGAACTTTCAAA
1 TTTT-AAAAAAATAATTAAGCCCTTTTTTTTTTTTTGCACTCAATTG-GTACTTGAACTTTCAAA
* * *
98889973 ATGCATCAAAAAGACTTCCAAA
64 ATGCATAAAAAATACTCCCAAA
* *
98889995 CTTTT--AAAAA-AA--AA-CCCTTGTTTTTTTTTTGCACTCATTTGGGTACTTGAACTTTCAAA
1 -TTTTAAAAAAATAATTAAGCCCTTTTTTTTTTTTTGCACTCAATT-GGTACTTGAACTTTCAAA
** * *
98890054 ATATATAAAAAAATGCTCTCAAA
64 ATGCAT-AAAAAATACTCCCAAA
* *
98890077 TCTTTTAAAGAAAATAATTAAGCCTCTACTTTTTTTTTTTTTGCATTCAATTGGACACTTGAACT
1 --TTTTAAA-AAAATAATTAAG-C-C--CTTTTTTTTTTTTTGCACTCAATTGG-TACTTGAACT
*
98890142 TTCAAAATGTATAAAAAA
58 TTCAAAATGCATAAAAAA
98890160 GACCCTTAAA
Statistics
Matches: 202, Mismatches: 32, Indels: 29
0.77 0.12 0.11
Matches are distributed among these distances:
81 42 0.21
82 14 0.07
83 5 0.02
84 2 0.01
85 6 0.03
86 9 0.04
87 67 0.33
88 4 0.02
89 2 0.01
91 1 0.00
92 1 0.00
93 8 0.04
94 41 0.20
ACGTcount: A:0.36, C:0.16, G:0.09, T:0.39
Consensus pattern (85 bp):
TTTTAAAAAAATAATTAAGCCCTTTTTTTTTTTTTGCACTCAATTGGTACTTGAACTTTCAAAAT
GCATAAAAAATACTCCCAAA
Found at i:98890183 original size:175 final size:167
Alignment explanation
Indices: 98889847--98890162 Score: 409
Period size: 175 Copynumber: 1.8 Consensus size: 167
98889837 TAAGCTGTTT
* * *
98889847 TTTTTTTTTTGCATTCATTTAGGTACTTGAACTTTCAAGATGCATAAAAAATACTCCCAAATTTT
1 TTTTTTTTTTGCACTCATTTAGGTACTTGAACTTTCAAAATACATAAAAAATACTCCCAAATTTT
*
98889912 CAAAAAAACAATTAAGCCCCTACTATTTTTTTGCACTCAATTGAGTACTTGAACTTTCAAAATGC
66 CAAAAAAACAATTAAGCCCCTACTATTTTTTTGCACTCAATTGAGCACTTGAACTTTCAAAATGC
*
98889977 ATCAAAAAGACTTCCAAACTTTTAAAAAAAAACCCTTG
131 ATAAAAAAGACTT-CAAACTTTTAAAAAAAAACCCTTG
* * * *
98890015 TTTTTTTTTTGCACTCATTTGGGTACTTGAACTTTCAAAATATATAAAAAAATGCTCTCAAATCT
1 TTTTTTTTTTGCACTCATTTAGGTACTTGAACTTTCAAAATACAT-AAAAAATACTCCCAAAT-T
* * * * *
98890080 TTTAAAGAAAATAATTAAGCCTCTACTTTTTTTTTTTTTGCATTCAATTG-GACACTTGAACTTT
64 TTCAAA-AAAACAATTAAGCCCCTAC----TATTTTTTTGCACTCAATTGAG-CACTTGAACTTT
*
98890144 CAAAATGTATAAAAAAGAC
123 CAAAATGCATAAAAAAGAC
98890163 CCTTAAACTT
Statistics
Matches: 125, Mismatches: 15, Indels: 9
0.84 0.10 0.06
Matches are distributed among these distances:
168 40 0.32
169 15 0.12
170 6 0.05
171 17 0.14
174 1 0.01
175 46 0.37
ACGTcount: A:0.36, C:0.17, G:0.09, T:0.38
Consensus pattern (167 bp):
TTTTTTTTTTGCACTCATTTAGGTACTTGAACTTTCAAAATACATAAAAAATACTCCCAAATTTT
CAAAAAAACAATTAAGCCCCTACTATTTTTTTGCACTCAATTGAGCACTTGAACTTTCAAAATGC
ATAAAAAAGACTTCAAACTTTTAAAAAAAAACCCTTG
Found at i:98890194 original size:94 final size:93
Alignment explanation
Indices: 98890015--98890203 Score: 213
Period size: 94 Copynumber: 2.0 Consensus size: 93
98890005 AAAACCCTTG
* ** *
98890015 TTTTTTTTTTGCACTCATTTGGGTACTTGAACTTTCAAAATATATAAAAAAATGCTCTCAAATCT
1 TTTTTTTTTTGCACTCAATTGGACACTTGAACTTTCAAAATATATAAAAAAA-GCCCTCAAATCT
** *
98890080 TTTAAAGAAAATAATTAAGCCTCTACTTT
65 TTTAAAGAAAATAACAAAGCCCCTACTTT
* * *
98890109 TTTTTTTTTTGCATTCAATTGGACACTTGAACTTTCAAAATGTAT-AAAAAAGACCCTTAAA-CT
1 TTTTTTTTTTGCACTCAATTGGACACTTGAACTTTCAAAATATATAAAAAAAG-CCCTCAAATC-
*
98890172 TTTTCAAA-AAAAGTAACAAAGCCCCTGCTTT
64 TTTT-AAAGAAAA-TAACAAAGCCCCTACTTT
98890203 T
1 T
98890204 ATTAAAAATT
Statistics
Matches: 80, Mismatches: 11, Indels: 8
0.81 0.11 0.08
Matches are distributed among these distances:
92 2 0.03
93 20 0.25
94 58 0.73
ACGTcount: A:0.35, C:0.16, G:0.09, T:0.39
Consensus pattern (93 bp):
TTTTTTTTTTGCACTCAATTGGACACTTGAACTTTCAAAATATATAAAAAAAGCCCTCAAATCTT
TTAAAGAAAATAACAAAGCCCCTACTTT
Found at i:98890320 original size:12 final size:12
Alignment explanation
Indices: 98890300--98890328 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
98890290 TAAAAATTAG
98890300 AAAAA-CATAAA
1 AAAAATCATAAA
98890311 AAAAATCATAAA
1 AAAAATCATAAA
98890323 AAAAAT
1 AAAAAT
98890329 ATATTTTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 5 0.29
12 12 0.71
ACGTcount: A:0.79, C:0.07, G:0.00, T:0.14
Consensus pattern (12 bp):
AAAAATCATAAA
Found at i:98890635 original size:27 final size:26
Alignment explanation
Indices: 98890589--98890677 Score: 94
Period size: 26 Copynumber: 3.4 Consensus size: 26
98890579 CTGGGGGTTG
*
98890589 TTAATTTTTTATGATTTTTATAAAATT
1 TTAATATTTTAT-ATTTTTATAAAATT
98890616 TTACAATATTTTAT-TTTTTA-AAAATT
1 TT--AATATTTTATATTTTTATAAAATT
* *
98890642 TTATTTTTTTATATTTTTATTAAAA-T
1 TTAATATTTTATATTTTTA-TAAAATT
98890668 TTAATATTTT
1 TTAATATTTT
98890678 TCTAATTATT
Statistics
Matches: 52, Mismatches: 5, Indels: 11
0.76 0.07 0.16
Matches are distributed among these distances:
24 8 0.15
25 6 0.12
26 17 0.33
27 12 0.23
29 9 0.17
ACGTcount: A:0.34, C:0.01, G:0.01, T:0.64
Consensus pattern (26 bp):
TTAATATTTTATATTTTTATAAAATT
Found at i:98890656 original size:26 final size:26
Alignment explanation
Indices: 98890594--98890678 Score: 75
Period size: 27 Copynumber: 3.2 Consensus size: 26
98890584 GGTTGTTAAT
*
98890594 TTTTTATGA-TTTTTATAAAATTTTACAA
1 TTTTTAT-ATTTTTTA-AAAATTTTA-TA
* *
98890622 TATTT-TATTTTTTAAAAATTTTATT
1 TTTTTATATTTTTTAAAAATTTTATA
* *
98890647 TTTTTATATTTTTATTAAAATTTAATA
1 TTTTTATATTTTT-TAAAAATTTTATA
98890674 TTTTT
1 TTTTT
98890679 CTAATTATTA
Statistics
Matches: 47, Mismatches: 7, Indels: 7
0.77 0.11 0.11
Matches are distributed among these distances:
25 4 0.09
26 17 0.36
27 22 0.47
28 4 0.09
ACGTcount: A:0.33, C:0.01, G:0.01, T:0.65
Consensus pattern (26 bp):
TTTTTATATTTTTTAAAAATTTTATA
Found at i:98891522 original size:7 final size:7
Alignment explanation
Indices: 98891510--98891544 Score: 70
Period size: 7 Copynumber: 5.0 Consensus size: 7
98891500 TAATTAATTT
98891510 AATTTAA
1 AATTTAA
98891517 AATTTAA
1 AATTTAA
98891524 AATTTAA
1 AATTTAA
98891531 AATTTAA
1 AATTTAA
98891538 AATTTAA
1 AATTTAA
98891545 TTCCTAAAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 28 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (7 bp):
AATTTAA
Found at i:98891523 original size:21 final size:22
Alignment explanation
Indices: 98891494--98891546 Score: 67
Period size: 21 Copynumber: 2.5 Consensus size: 22
98891484 AGCAAAATAT
98891494 AAATATTAATTAATTT-AATTTA
1 AAAT-TTAATTAATTTAAATTTA
98891516 AAATTTAA--AATTTAAAATTTA
1 AAATTTAATTAATTT-AAATTTA
98891537 AAATTTAATT
1 AAATTTAATT
98891547 CCTAAAAATC
Statistics
Matches: 27, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
19 5 0.19
21 18 0.67
22 4 0.15
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (22 bp):
AAATTTAATTAATTTAAATTTA
Found at i:98893677 original size:12 final size:12
Alignment explanation
Indices: 98893660--98893705 Score: 56
Period size: 12 Copynumber: 3.8 Consensus size: 12
98893650 TTTTTATTTA
98893660 AAAAAAAGGAAT
1 AAAAAAAGGAAT
** *
98893672 AAAAAAAAAAAG
1 AAAAAAAGGAAT
98893684 AAGAAAAAGGAAT
1 AA-AAAAAGGAAT
98893697 AAAAAAAGG
1 AAAAAAAGG
98893706 GGGAAAAAGT
Statistics
Matches: 27, Mismatches: 6, Indels: 2
0.77 0.17 0.06
Matches are distributed among these distances:
12 18 0.67
13 9 0.33
ACGTcount: A:0.78, C:0.00, G:0.17, T:0.04
Consensus pattern (12 bp):
AAAAAAAGGAAT
Found at i:98896298 original size:30 final size:32
Alignment explanation
Indices: 98896241--98896314 Score: 93
Period size: 30 Copynumber: 2.4 Consensus size: 32
98896231 GGCCTAATTT
98896241 AAATTTTC-AAAAAATCTAGAGGATTTAATGA
1 AAATTTTCAAAAAAATCTAGAGGATTTAATGA
* * *
98896272 GAATTTTCAAAAAAAT-TTGAGG-TTTAATTA
1 AAATTTTCAAAAAAATCTAGAGGATTTAATGA
98896302 AAATTTT-AAAAAA
1 AAATTTTCAAAAAA
98896315 TTTAAGGGCT
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
29 6 0.16
30 13 0.34
31 12 0.32
32 7 0.18
ACGTcount: A:0.50, C:0.04, G:0.11, T:0.35
Consensus pattern (32 bp):
AAATTTTCAAAAAAATCTAGAGGATTTAATGA
Found at i:98901088 original size:17 final size:18
Alignment explanation
Indices: 98901066--98901122 Score: 53
Period size: 18 Copynumber: 3.2 Consensus size: 18
98901056 CAAAAATTCT
* *
98901066 AAAATT-TATATTTTAAA
1 AAAATTATAAATTTCAAA
98901083 AAAATTATAAATTTCAAA
1 AAAATTATAAATTTCAAA
* * *
98901101 AATATATAAAAATTTTAAA
1 AAAAT-TATAAATTTCAAA
98901120 AAA
1 AAA
98901123 TAATTTTAAA
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
17 6 0.19
18 13 0.41
19 13 0.41
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (18 bp):
AAAATTATAAATTTCAAA
Found at i:98901129 original size:13 final size:13
Alignment explanation
Indices: 98901111--98901139 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
98901101 AATATATAAA
98901111 AATTTTAAAAAAT
1 AATTTTAAAAAAT
98901124 AATTTTAAAAAAT
1 AATTTTAAAAAAT
98901137 AAT
1 AAT
98901140 AATTTTGAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (13 bp):
AATTTTAAAAAAT
Found at i:98904731 original size:16 final size:16
Alignment explanation
Indices: 98904710--98904740 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
98904700 AACTTCTTGT
98904710 ATTTCATGTAATATTC
1 ATTTCATGTAATATTC
*
98904726 ATTTCATGTCATATT
1 ATTTCATGTAATATT
98904741 TCTATATCAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.29, C:0.13, G:0.06, T:0.52
Consensus pattern (16 bp):
ATTTCATGTAATATTC
Found at i:98909949 original size:19 final size:19
Alignment explanation
Indices: 98909925--98909964 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
98909915 TGTTTTACTA
98909925 TCTAAATTAATAATTCCAT
1 TCTAAATTAATAATTCCAT
98909944 TCTAAATTAATAATTCCAT
1 TCTAAATTAATAATTCCAT
98909963 TC
1 TC
98909965 AATTTATTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.40, C:0.17, G:0.00, T:0.42
Consensus pattern (19 bp):
TCTAAATTAATAATTCCAT
Done.