Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold152
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: 2945013
ACGTcount: A:0.33, C:0.17, G:0.18, T:0.32
File 6 of 18
Found at i:845689 original size:26 final size:26
Alignment explanation
Indices: 845606--845689 Score: 64
Period size: 27 Copynumber: 3.2 Consensus size: 26
845596 CCAACTTGTG
845606 TGGGCTTTGAAAGGTGTCCTGCTCTT
1 TGGGCTTTGAAAGGTGTCCTGCTCTT
* * * ** *
845632 TGAGGATTGGAAA-ATG-CCACCAACTT
1 TG-GGCTTTGAAAGGTGTCCTGC-TCTT
845658 GGTGGGCTTTGAAAGGTGTCCTGCTCTT
1 --TGGGCTTTGAAAGGTGTCCTGCTCTT
845686 TGGG
1 TGGG
845690 GACTGAAAAG
Statistics
Matches: 40, Mismatches: 12, Indels: 12
0.62 0.19 0.19
Matches are distributed among these distances:
25 3 0.08
26 11 0.28
27 16 0.40
28 7 0.17
29 3 0.08
ACGTcount: A:0.18, C:0.18, G:0.32, T:0.32
Consensus pattern (26 bp):
TGGGCTTTGAAAGGTGTCCTGCTCTT
Found at i:845809 original size:116 final size:111
Alignment explanation
Indices: 845511--845815 Score: 339
Period size: 116 Copynumber: 2.7 Consensus size: 111
845501 GGGCTATGAA
* * * ** *
845511 CTCTTTGGGGACTGAAAGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAAGCATCCTACTCT
1 CTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT--AAAG---AGGTGTCCTGCTCT
* * **
845576 TTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTG
61 TTGAGGACTGAAAAGTGCCACCAACTCGTGTGGGCTTTGAAAGGCATCCTG
* * * *
845627 CTCTTTGAGGATTGGAAA-ATGCCACCAACTTG-GTGGGCTTTGAA-AGGTGTCCTGCTCTTTGG
1 CTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTAAAGAGGTGTCCTGCTCTTTGA
845689 GGACTGAAAAGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAAGCATCCTG
65 GGACTGAAAAGTGCCACCAACTCGTGTGGGCTTTG-AAAG-----GCATCCTG
*
845742 CTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT-AAGAGGTGTCTTGCTCTTTGAG
1 CTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAGAGGTGTCCTGCTCTTTGAG
845806 GACTGAAAAG
66 GACTGAAAAG
845816 CGGAAGGAGA
Statistics
Matches: 161, Mismatches: 18, Indels: 20
0.81 0.09 0.10
Matches are distributed among these distances:
109 46 0.29
110 4 0.02
113 2 0.01
114 4 0.02
115 42 0.26
116 59 0.37
117 4 0.02
ACGTcount: A:0.25, C:0.20, G:0.29, T:0.27
Consensus pattern (111 bp):
CTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAGAGGTGTCCTGCTCTTTGAG
GACTGAAAAGTGCCACCAACTCGTGTGGGCTTTGAAAGGCATCCTG
Found at i:859270 original size:28 final size:29
Alignment explanation
Indices: 859210--859291 Score: 98
Period size: 28 Copynumber: 2.9 Consensus size: 29
859200 TTTTGGAGAT
*
859210 AATAACGGGGTTGGAGTGTCCCC--TCGA
1 AATAACGGGGTTGGAGTATCCCCGATCGA
859237 AGATAACGGGGTTGGAGTATCCCCGAT-GA
1 A-ATAACGGGGTTGGAGTATCCCCGATCGA
* * *
859266 AATAATGAGGTTGGAGTATCCTCGAT
1 AATAACGGGGTTGGAGTATCCCCGAT
859292 TGTGAAAAAT
Statistics
Matches: 48, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
27 1 0.02
28 43 0.90
29 3 0.06
30 1 0.02
ACGTcount: A:0.27, C:0.17, G:0.32, T:0.24
Consensus pattern (29 bp):
AATAACGGGGTTGGAGTATCCCCGATCGA
Found at i:859335 original size:52 final size:51
Alignment explanation
Indices: 859274--859456 Score: 181
Period size: 52 Copynumber: 3.5 Consensus size: 51
859264 GAAATAATGA
* *
859274 GGTTGGAGTATCCTCGATTGTGAAAAATTGGTGTTTTTAGAAATAAAATCAG
1 GGTTGGAGTATCCCCGATTATGAAAAATTGGTGTTTTTAGAAATAAAA-CAG
* * * * * * *
859326 AGTTGGAGTATCCCCGATTAAAGGAAAATCGATGTTTTGA-AAATAAAACCGG
1 GGTTGGAGTATCCCCGATT-ATGAAAAATTGGTGTTTTTAGAAATAAAA-CAG
* * * * *
859378 GGTTTGAGTATCCCCGATTGTGGAAAATTAGTG-TTTTAGAAATAAAACCG
1 GGTTGGAGTATCCCCGATTATGAAAAATTGGTGTTTTTAGAAATAAAACAG
*
859428 GGCTTGGAGTATCCCCGATTATGAGAAAT
1 GG-TTGGAGTATCCCCGATTATGAAAAAT
859457 CAATATTTTG
Statistics
Matches: 105, Mismatches: 23, Indels: 7
0.78 0.17 0.05
Matches are distributed among these distances:
50 8 0.08
51 39 0.37
52 44 0.42
53 14 0.13
ACGTcount: A:0.33, C:0.12, G:0.25, T:0.30
Consensus pattern (51 bp):
GGTTGGAGTATCCCCGATTATGAAAAATTGGTGTTTTTAGAAATAAAACAG
Found at i:859424 original size:51 final size:51
Alignment explanation
Indices: 859274--859494 Score: 207
Period size: 51 Copynumber: 4.3 Consensus size: 51
859264 GAAATAATGA
* * * * * *
859274 GGTTGGAGTATCCTCGATTGTGAAAAATTGGTGTTTTTAGAAATAAAATCAG
1 GGTTGGAGTATCCCCGATTATGGAAAATTAGTG-TTTTAGAAATAAAACCGG
* * *
859326 AGTTGGAGTATCCCCGATTAAAGGAAAA-TCGATGTTTT-GAAAATAAAACCGG
1 GGTTGGAGTATCCCCGATT-ATGGAAAATTAG-TGTTTTAG-AAATAAAACCGG
* *
859378 GGTTTGAGTATCCCCGATTGTGGAAAATTAGTGTTTTAGAAATAAAACCGG
1 GGTTGGAGTATCCCCGATTATGGAAAATTAGTGTTTTAGAAATAAAACCGG
* * * * * *
859429 GCTTGGAGTATCCCCGATTAT-GAGAAATCAATATTTTGGAAATAAAGCCGG
1 GGTTGGAGTATCCCCGATTATGGA-AAATTAGTGTTTTAGAAATAAAACCGG
859480 GGTTAGG-GTATCCCC
1 GGTT-GGAGTATCCCC
859495 TCGGAGGTAA
Statistics
Matches: 140, Mismatches: 22, Indels: 15
0.79 0.12 0.08
Matches are distributed among these distances:
50 2 0.01
51 76 0.54
52 55 0.39
53 7 0.05
ACGTcount: A:0.33, C:0.13, G:0.25, T:0.29
Consensus pattern (51 bp):
GGTTGGAGTATCCCCGATTATGGAAAATTAGTGTTTTAGAAATAAAACCGG
Found at i:859518 original size:28 final size:27
Alignment explanation
Indices: 859477--859551 Score: 89
Period size: 27 Copynumber: 2.7 Consensus size: 27
859467 GAAATAAAGC
**
859477 CGGGGTTAGG-GTATCCCCTCGGAGGTAA
1 CGGGGTT-GGAGTATCCCCGAGGA-GTAA
* *
859505 CGGGGTTGGAGTATCCCCGATGATTAA
1 CGGGGTTGGAGTATCCCCGAGGAGTAA
859532 CGGGGTTGGAGTATCCCCGA
1 CGGGGTTGGAGTATCCCCGA
859552 TTGTGAAAAA
Statistics
Matches: 42, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
27 25 0.60
28 17 0.40
ACGTcount: A:0.19, C:0.21, G:0.37, T:0.23
Consensus pattern (27 bp):
CGGGGTTGGAGTATCCCCGAGGAGTAA
Found at i:859596 original size:53 final size:51
Alignment explanation
Indices: 859536--859658 Score: 160
Period size: 51 Copynumber: 2.4 Consensus size: 51
859526 GATTAACGGG
* * *
859536 GTTGGAGTATCCCCGATTGT-GAAAAATTTGTGTTTTTTGGAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTGTAG-AAAATTAGTG--TCTTGAAAATAAAATCGGA
*
859589 GTTGGAGTATCCCCGATTATAGAAAATTAGTGTCTTGAAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTGTAGAAAATTAGTGTCTTGAAAATAAAATCGGA
859640 GTTGG-GATATCCCCGATTG
1 GTTGGAG-TATCCCCGATTG
859659 CGGAGAATTG
Statistics
Matches: 63, Mismatches: 5, Indels: 6
0.85 0.07 0.08
Matches are distributed among these distances:
50 1 0.02
51 33 0.52
53 28 0.44
54 1 0.02
ACGTcount: A:0.31, C:0.12, G:0.24, T:0.33
Consensus pattern (51 bp):
GTTGGAGTATCCCCGATTGTAGAAAATTAGTGTCTTGAAAATAAAATCGGA
Found at i:862023 original size:21 final size:21
Alignment explanation
Indices: 861997--862053 Score: 89
Period size: 21 Copynumber: 2.8 Consensus size: 21
861987 GTAAACTTCC
861997 TAGATGTATCGATACAAAGAA
1 TAGATGTATCGATACAAAGAA
*
862018 TAGATGTATCGATACACAGAA
1 TAGATGTATCGATACAAAGAA
*
862039 -AAATGTATCGATACA
1 TAGATGTATCGATACA
862054 TTTCCTTGGC
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
20 14 0.41
21 20 0.59
ACGTcount: A:0.46, C:0.12, G:0.18, T:0.25
Consensus pattern (21 bp):
TAGATGTATCGATACAAAGAA
Found at i:862109 original size:19 final size:18
Alignment explanation
Indices: 862085--862181 Score: 97
Period size: 19 Copynumber: 5.8 Consensus size: 18
862075 AGCTATACAT
862085 TGTATCGATACAAAACTTA
1 TGTATCGATAC-AAACTTA
862104 TGTATCGATAC--A--T-
1 TGTATCGATACAAACTTA
862117 TGTATCGATACAACACTTA
1 TGTATCGATACAA-ACTTA
862136 TGTATCGATAC--A---A
1 TGTATCGATACAAACTTA
862149 TGTATCGATACAACACTTA
1 TGTATCGATACAA-ACTTA
862168 TGTATCGATACAAA
1 TGTATCGATACAAA
862182 TCGCTGAAAT
Statistics
Matches: 66, Mismatches: 0, Indels: 25
0.73 0.00 0.27
Matches are distributed among these distances:
13 23 0.35
14 1 0.02
16 4 0.06
18 2 0.03
19 36 0.55
ACGTcount: A:0.38, C:0.18, G:0.12, T:0.32
Consensus pattern (18 bp):
TGTATCGATACAAACTTA
Found at i:862120 original size:32 final size:32
Alignment explanation
Indices: 862079--862179 Score: 184
Period size: 32 Copynumber: 3.2 Consensus size: 32
862069 CTTCCTAGCT
*
862079 ATACATTGTATCGATACAAAACTTATGTATCG
1 ATACATTGTATCGATACAACACTTATGTATCG
862111 ATACATTGTATCGATACAACACTTATGTATCG
1 ATACATTGTATCGATACAACACTTATGTATCG
*
862143 ATACAATGTATCGATACAACACTTATGTATCG
1 ATACATTGTATCGATACAACACTTATGTATCG
862175 ATACA
1 ATACA
862180 AATCGCTGAA
Statistics
Matches: 67, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 67 1.00
ACGTcount: A:0.38, C:0.18, G:0.12, T:0.33
Consensus pattern (32 bp):
ATACATTGTATCGATACAACACTTATGTATCG
Found at i:862161 original size:13 final size:13
Alignment explanation
Indices: 862103--862161 Score: 55
Period size: 13 Copynumber: 4.1 Consensus size: 13
862093 TACAAAACTT
862103 ATGTATCGATACA
1 ATGTATCGATACA
*
862116 TTGTATCGATACAACA
1 ATGTATCGAT---ACA
862132 CTTATGTATCGATACA
1 ---ATGTATCGATACA
862148 ATGTATCGATACA
1 ATGTATCGATACA
862161 A
1 A
862162 CACTTATGTA
Statistics
Matches: 38, Mismatches: 2, Indels: 12
0.73 0.04 0.23
Matches are distributed among these distances:
13 23 0.61
16 6 0.16
19 9 0.24
ACGTcount: A:0.37, C:0.17, G:0.14, T:0.32
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:866284 original size:97 final size:96
Alignment explanation
Indices: 866167--866351 Score: 237
Period size: 97 Copynumber: 1.9 Consensus size: 96
866157 AAAACGGGGC
* * * * * * *
866167 TAGAGTATCCCCTTGAAGGAATGGGGTTGGAGCATCCTCGATGATTATAGTTTAGGAAAAAATAA
1 TAGAGTATCCCCTCGAAGGAATGGAGTTGGAGCATCCCCGATGATGACAATTTAAG-AAAAATAA
866232 GATTTAAAACTTGACAAGTTTAAACACGGGAT
65 GATTTAAAACTTGACAAGTTTAAACACGGGAT
* * *
866264 TAGAGTATCCCCTCCG-AGGAATGTAGTTGGAGTATCCCCGATGATGACAATTTAAGCAAAATAA
1 TAGAGTATCCCCT-CGAAGGAATGGAGTTGGAGCATCCCCGATGATGACAATTTAAGAAAAATAA
* *
866328 GATTTAAATCTTGATAAGTTTAAA
65 GATTTAAAACTTGACAAGTTTAAA
866352 AATGAGAATG
Statistics
Matches: 75, Mismatches: 12, Indels: 3
0.83 0.13 0.03
Matches are distributed among these distances:
96 29 0.39
97 45 0.60
98 1 0.01
ACGTcount: A:0.36, C:0.14, G:0.22, T:0.29
Consensus pattern (96 bp):
TAGAGTATCCCCTCGAAGGAATGGAGTTGGAGCATCCCCGATGATGACAATTTAAGAAAAATAAG
ATTTAAAACTTGACAAGTTTAAACACGGGAT
Found at i:866393 original size:96 final size:97
Alignment explanation
Indices: 866167--866394 Score: 251
Period size: 96 Copynumber: 2.4 Consensus size: 97
866157 AAAACGGGGC
* * * * * * *
866167 TAGAGTATCCCCTTGAAGGAATGGGGTTGGAGCATCCTCGATGATTATAGTTTAGGAAAAAATAA
1 TAGAGTATCCCCTTGGAGGAATGGGGTTGGAGTATCCCCGATGATGACAATTTAAGAAAAAATAA
* * *
866232 GATTTAAAACTTGACAAGTTTAAACACGGGAT
66 GATTTAAAACTTGACAAGTTTAAAAACGAGAA
** ** *
866264 TAGAGTATCCCCTCCGAGGAATGTAGTTGGAGTATCCCCGATGATGACAATTTAAG-CAAAATAA
1 TAGAGTATCCCCTTGGAGGAATGGGGTTGGAGTATCCCCGATGATGACAATTTAAGAAAAAATAA
* * *
866328 GATTTAAATCTTGATAAGTTTAAAAATGAGAA
66 GATTTAAAACTTGACAAGTTTAAAAACGAGAA
* ** *
866360 TGGAGTATCCTTTTGGAGGAATGGGGTTAGAGTAT
1 TAGAGTATCCCCTTGGAGGAATGGGGTTGGAGTAT
866395 TCTCATTAAA
Statistics
Matches: 105, Mismatches: 26, Indels: 1
0.80 0.20 0.01
Matches are distributed among these distances:
96 60 0.57
97 45 0.43
ACGTcount: A:0.35, C:0.12, G:0.24, T:0.29
Consensus pattern (97 bp):
TAGAGTATCCCCTTGGAGGAATGGGGTTGGAGTATCCCCGATGATGACAATTTAAGAAAAAATAA
GATTTAAAACTTGACAAGTTTAAAAACGAGAA
Found at i:868744 original size:32 final size:32
Alignment explanation
Indices: 868703--868770 Score: 100
Period size: 32 Copynumber: 2.1 Consensus size: 32
868693 AATGTGCAAA
* * *
868703 ATTTATCGATACATTGAAGAATTTATCAATAC
1 ATTTATCGATACAATGAAAAATGTATCAATAC
*
868735 ATTTATCGATACAATGAAAAATGTATCGATAC
1 ATTTATCGATACAATGAAAAATGTATCAATAC
868767 ATTT
1 ATTT
868771 TCTTTCCAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.41, C:0.12, G:0.10, T:0.37
Consensus pattern (32 bp):
ATTTATCGATACAATGAAAAATGTATCAATAC
Found at i:870490 original size:97 final size:97
Alignment explanation
Indices: 870324--870523 Score: 294
Period size: 97 Copynumber: 2.1 Consensus size: 97
870314 TTGTGCGGGT
*
870324 TTTTGGAAAGGTTTGAGTGCCACCAACTTGTGTGGATTTTTTGGGTGTAGCCAGCTCATGCAGCC
1 TTTTGGAAAGGTTTGAGTGCCACCAACTTGTGTGGACTTTTTGGGTGTAGCCAGCTCATGCAGCC
*
870389 TTTGAGAAAGGATGCAA-CTAGCTCGTGTAGGC
66 TTTGAGAAAGGATGCAATC-AACTCGTGTAGGC
* * * * * *
870421 TTTTGGAAAGTTTTGAGTGCCACCAGCTTGTGTGGGCTTTTTGGTTGTTGCCAGCTCATGCAGGC
1 TTTTGGAAAGGTTTGAGTGCCACCAACTTGTGTGGACTTTTTGGGTGTAGCCAGCTCATGCAGCC
* *
870486 TTTGAGAAAGGATGCCATCAACTCGTGTGGGC
66 TTTGAGAAAGGATGCAATCAACTCGTGTAGGC
870518 TTTTGG
1 TTTTGG
870524 GTTACTCCAC
Statistics
Matches: 92, Mismatches: 10, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
97 91 0.99
98 1 0.01
ACGTcount: A:0.19, C:0.17, G:0.30, T:0.33
Consensus pattern (97 bp):
TTTTGGAAAGGTTTGAGTGCCACCAACTTGTGTGGACTTTTTGGGTGTAGCCAGCTCATGCAGCC
TTTGAGAAAGGATGCAATCAACTCGTGTAGGC
Found at i:880031 original size:37 final size:37
Alignment explanation
Indices: 879990--880062 Score: 146
Period size: 37 Copynumber: 2.0 Consensus size: 37
879980 TGGAGTTGTG
879990 TTGGAAATCCTTGCACTTTTCTTGCCTATTTTGTATT
1 TTGGAAATCCTTGCACTTTTCTTGCCTATTTTGTATT
880027 TTGGAAATCCTTGCACTTTTCTTGCCTATTTTGTAT
1 TTGGAAATCCTTGCACTTTTCTTGCCTATTTTGTAT
880063 AAGTATCAAG
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.16, C:0.19, G:0.14, T:0.51
Consensus pattern (37 bp):
TTGGAAATCCTTGCACTTTTCTTGCCTATTTTGTATT
Found at i:891195 original size:23 final size:22
Alignment explanation
Indices: 891152--891200 Score: 53
Period size: 23 Copynumber: 2.2 Consensus size: 22
891142 GTAAAAAAGG
**
891152 AAAATAACAAACAAATTTACAC
1 AAAATAACAAACAAAAGTACAC
* *
891174 AAAATAAACACACAAAAGTACAT
1 AAAAT-AACAAACAAAAGTACAC
891197 AAAA
1 AAAA
891201 AGAAGGGATG
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
22 5 0.23
23 17 0.77
ACGTcount: A:0.67, C:0.16, G:0.02, T:0.14
Consensus pattern (22 bp):
AAAATAACAAACAAAAGTACAC
Found at i:891525 original size:79 final size:79
Alignment explanation
Indices: 891436--892170 Score: 704
Period size: 79 Copynumber: 9.3 Consensus size: 79
891426 TAAAACTGGC
* * * * *
891436 GTTAGAGTATCCCTTCAGAAATAACGGGATTGGAGTATCCCCGATTATGAAAAATTGGTGTTTTA
1 GTTAGGGTATCCCCTCAGAAATAACGGGGTTGGAGTATCCCCGATTGTGAAAAATTGGTGTTTTG
891501 GAAATAAAATCGAG
66 GAAATAAAATCGAG
* ** * * *
891515 GTTAGGGTATCCCTTCA-AAATAACAAGGTCGGAGTATCTCCGATTGTGAAAAATTGGTGTTTTA
1 GTTAGGGTATCCCCTCAGAAATAACGGGGTTGGAGTATCCCCGATTGTGAAAAATTGGTGTTTTG
**
891579 GAAATAAAGCCGAG
66 GAAATAAAATCGAG
* ** ** * *
891593 GTT-GGAGTATCCCCTCGGAAATAACGGGGTCAGAGTATCCCCGATTGTGAAAAAACGATATTTT
1 GTTAGG-GTATCCCCTCAGAAATAACGGGGTTGGAGTATCCCCGATTGTGAAAAATTGGTGTTTT
*
891657 GGAAATAAAATCAAG
65 GGAAATAAAATCGAG
* **
891672 GTTAGAGTATCCCCTCAGAAATAACGGGGTTGGAGTATCCCCGATTGTGAAAAATTTTTGTTTTG
1 GTTAGGGTATCCCCTCAGAAATAACGGGGTTGGAGTATCCCCGATTGTGAAAAATTGGTGTTTTG
*
891737 GAAATAAAATCGTG
66 GAAATAAAATCGAG
* * * * * *
891751 GTTAGAGTATCCGCTC-GAAAATAACGGAGTAGGAGTATCCCCGATTGTGGAAAATTAGTGTTTT
1 GTTAGGGTATCCCCTCAG-AAATAACGGGGTTGGAGTATCCCCGATTGTGAAAAATTGGTGTTTT
*
891815 GGAAATAAAATCGGG
65 GGAAATAAAATCGAG
* * * * *
891830 GTTAGAGTATCCCCTCAAAAATAACGGGGTTGGAGTAT-CCCGATTATGAAAAATCGATGTTTTG
1 GTTAGGGTATCCCCTCAGAAATAACGGGGTTGGAGTATCCCCGATTGTGAAAAATTGGTGTTTTG
* *
891894 AAAAT-AAA-CCAGG
66 GAAATAAAATCGA-G
* * * * * * * *
891907 GCT-GGAGTATCCGCTCAAAAATAACGAGGTTGAAGTATCCTCGATTATGAAAAATCGGTGTTTT
1 GTTAGG-GTATCCCCTCAGAAATAACGGGGTTGGAGTATCCCCGATTGTGAAAAATTGGTGTTTT
*
891971 GGAAATAAAA-CTAGG
65 GGAAATAAAATCGA-G
* * * * * * * *
891986 GTT-GGAGTATCCCTTCAGAAATAACGGGGTTGGAGTATTCTCGATTATGGAAAATAGATGTCTT
1 GTTAGG-GTATCCCCTCAGAAATAACGGGGTTGGAGTATCCCCGATTGTGAAAAATTGGTGTTTT
* *
892050 AGAAATAAAA-CCAGG
65 GGAAATAAAATCGA-G
* * * *
892065 GTT-GGAGTATCCCCTCAAAAATAACGGGGTTGGAGTATCCTCGATTGTGGAAATTTGGTGTTTT
1 GTTAGG-GTATCCCCTCAGAAATAACGGGGTTGGAGTATCCCCGATTGTGAAAAATTGGTGTTTT
*
892129 GGAAATAAAA-CTGGG
65 GGAAATAAAATC-GAG
* *
892144 GTT-GGAATATCCCCTCGGAAATAACGG
1 GTTAGG-GTATCCCCTCAGAAATAACGG
892171 CAAGAATGAA
Statistics
Matches: 557, Mismatches: 89, Indels: 20
0.84 0.13 0.03
Matches are distributed among these distances:
76 2 0.00
77 37 0.07
78 119 0.21
79 398 0.71
80 1 0.00
ACGTcount: A:0.33, C:0.14, G:0.25, T:0.28
Consensus pattern (79 bp):
GTTAGGGTATCCCCTCAGAAATAACGGGGTTGGAGTATCCCCGATTGTGAAAAATTGGTGTTTTG
GAAATAAAATCGAG
Found at i:892057 original size:314 final size:312
Alignment explanation
Indices: 891436--892170 Score: 865
Period size: 314 Copynumber: 2.3 Consensus size: 312
891426 TAAAACTGGC
* * *
891436 GTTAGAGTATCCCTTCAGAAATAACGGGATTGGAGTATCCCCGATTATGAAAAATTGGTGTTTTA
1 GTTAGAGTATCCC-TCA-AAATAACGGG-TTGGAGTATCCCCGATTGTGGAAAATTGGTGTTTTG
* * * ** *
891501 GAAATAAAATCGAGGTTAGGGTATCCCTTCAAAATAACAAGGTCGGAGTATCTCCGATTGTGAAA
63 GAAATAAAATCGGGGTTAGAGTATCCCCTCAAAATAACGGGGTCGGAGTATCTCCGATTATGAAA
* * * **
891566 AATTGGTGTTTTAGAAATAAAGCCGAGGTTGGAGTATCCCCTCGGAAATAACGGGGTCAGAGTAT
128 AATCGATGTTTTAGAAATAAAGCCGAGGCTGGAGTATCCCCTCAAAAATAACGGGGTCAGAGTAT
*
891631 CCCCGATTGTGAAAAAACGATATTTTGGAAATAAAATCAAGGTTAGAGTATCCCCTCAGAAATAA
193 CCCCGATTATGAAAAAACGATATTTTGGAAATAAAATCAAGGTTAGAGTATCCCCTCAGAAATAA
* *** * * *
891696 CGGGGTTGGAGTATCCCCGATTGTGAAAAATTTTTGTTTTGGAAATAAAATC-GTG
258 CGGGGTTGGAGTATCCCCGATTATGAAAAATAGATGTCTTAGAAATAAAACCAG-G
* *
891751 GTTAGAGTATCCGCTCGAAAATAACGGAGTAGGAGTATCCCCGATTGTGGAAAATTAGTGTTTTG
1 GTTAGAGTATCC-CTC-AAAATAACGG-GTTGGAGTATCCCCGATTGTGGAAAATTGGTGTTTTG
*
891816 GAAATAAAATCGGGGTTAGAGTATCCCCTCAAAAATAACGGGGTTGGAGTATC-CCGATTATGAA
63 GAAATAAAATCGGGGTTAGAGTATCCCCTC-AAAATAACGGGGTCGGAGTATCTCCGATTATGAA
* * *
891880 AAATCGATGTTTT-GAAAATAAA-CC-AGGGCTGGAGTATCCGCTCAAAAATAACGAGGT-TGAA
127 AAATCGATGTTTTAG-AAATAAAGCCGA-GGCTGGAGTATCCCCTCAAAAATAACGGGGTCAG-A
* * * * * * *
891941 GTATCCTCGATTATGAAAAATCGGTGTTTTGGAAATAAAA-CTAGGGTTGGAGTATCCCTTCAGA
189 GTATCCCCGATTATGAAAAAACGATATTTTGGAAATAAAATC-AAGGTTAGAGTATCCCCTCAGA
* * *
892005 AATAACGGGGTTGGAGTATTCTCGATTATGGAAAATAGATGTCTTAGAAATAAAACCAGG
253 AATAACGGGGTTGGAGTATCCCCGATTATGAAAAATAGATGTCTTAGAAATAAAACCAGG
* * *
892065 GTTGGAGTATCCCCTCAAAAATAACGGGGTTGGAGTATCCTCGATTGTGGAAATTTGGTGTTTTG
1 GTTAGAGTAT-CCCTC-AAAATAAC-GGGTTGGAGTATCCCCGATTGTGGAAAATTGGTGTTTTG
* * *
892130 GAAATAAAA-CTGGGGTTGGAATATCCCCTCGGAAATAACGG
63 GAAATAAAATC-GGGGTTAGAGTATCCCCTC-AAAATAACGG
892171 CAAGAATGAA
Statistics
Matches: 360, Mismatches: 48, Indels: 25
0.83 0.11 0.06
Matches are distributed among these distances:
313 4 0.01
314 220 0.61
315 114 0.32
316 22 0.06
ACGTcount: A:0.33, C:0.14, G:0.25, T:0.28
Consensus pattern (312 bp):
GTTAGAGTATCCCTCAAAATAACGGGTTGGAGTATCCCCGATTGTGGAAAATTGGTGTTTTGGAA
ATAAAATCGGGGTTAGAGTATCCCCTCAAAATAACGGGGTCGGAGTATCTCCGATTATGAAAAAT
CGATGTTTTAGAAATAAAGCCGAGGCTGGAGTATCCCCTCAAAAATAACGGGGTCAGAGTATCCC
CGATTATGAAAAAACGATATTTTGGAAATAAAATCAAGGTTAGAGTATCCCCTCAGAAATAACGG
GGTTGGAGTATCCCCGATTATGAAAAATAGATGTCTTAGAAATAAAACCAGG
Found at i:894520 original size:20 final size:20
Alignment explanation
Indices: 894497--894542 Score: 74
Period size: 20 Copynumber: 2.3 Consensus size: 20
894487 TAAATGCATG
* *
894497 GATACATTGAGGAATGTATC
1 GATACAATGAAGAATGTATC
894517 GATACAATGAAGAATGTATC
1 GATACAATGAAGAATGTATC
894537 GATACA
1 GATACA
894543 GATTGTGGAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.41, C:0.11, G:0.22, T:0.26
Consensus pattern (20 bp):
GATACAATGAAGAATGTATC
Found at i:896287 original size:23 final size:22
Alignment explanation
Indices: 896244--896287 Score: 52
Period size: 23 Copynumber: 2.0 Consensus size: 22
896234 AACAAAAAAG
**
896244 AAAATAATGAACAAATTTACAC
1 AAAATAATGAACAAAAATACAC
*
896266 AAAATAAATGCACAAAAATACA
1 AAAAT-AATGAACAAAAATACA
896288 TTAAAAAAAG
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
22 5 0.28
23 13 0.72
ACGTcount: A:0.64, C:0.14, G:0.05, T:0.18
Consensus pattern (22 bp):
AAAATAATGAACAAAAATACAC
Found at i:896761 original size:78 final size:79
Alignment explanation
Indices: 896625--896904 Score: 241
Period size: 78 Copynumber: 3.5 Consensus size: 79
896615 GAGATGGTGA
* * * * * *
896625 GGTTGGAGTATCCCTGA-GATGAAAATTTTAATATTTTGGAAGA-AAAAATGAGATTGGAGTATT
1 GGTTGG-GTATCCCCGATGGTGAAAAATTCAATATTTTGGAA-ACAAAAATGGGGTTGGAGTATT
*
896688 CCCTCGAAAATTATGG
64 CCCTCGAAAATAATGG
* * *
896704 GGTTGGGTATCCCCGATAGTGAAAAA-TCGATATTTTGGAAACAAAAATGGGGTTGGAGTATCCC
1 GGTTGGGTATCCCCGATGGTGAAAAATTCAATATTTTGGAAACAAAAATGGGGTTGGAGTATTCC
* * **
896768 CTAGGAAATAACAG
66 CTCGAAAATAATGG
* * * *
896782 GGTTGGAGTAT-CCCGATGGTGAAAAATTCAATGCTTTTGGAAGCAAAAACGGGGTTGGCGTA-T
1 GGTTGG-GTATCCCCGATGGTGAAAAATTCAAT-ATTTTGGAAACAAAAATGGGGTTGGAGTATT
*
896845 -CCTCTAAGAAATAATGG
64 CCCTC-GA-AAATAATGG
* * *
896862 GGTTGAAGTATCCCCGATGGTAAAAAAATT-AATATTTTAGAAA
1 GGTTG-GGTATCCCCGATGGT-GAAAAATTCAATATTTTGGAAA
896905 TGAGAACCGT
Statistics
Matches: 160, Mismatches: 31, Indels: 19
0.76 0.15 0.09
Matches are distributed among these distances:
77 1 0.01
78 72 0.45
79 20 0.12
80 48 0.30
81 12 0.08
82 7 0.04
ACGTcount: A:0.35, C:0.12, G:0.25, T:0.28
Consensus pattern (79 bp):
GGTTGGGTATCCCCGATGGTGAAAAATTCAATATTTTGGAAACAAAAATGGGGTTGGAGTATTCC
CTCGAAAATAATGG
Found at i:899399 original size:51 final size:52
Alignment explanation
Indices: 899285--899405 Score: 154
Period size: 51 Copynumber: 2.3 Consensus size: 52
899275 ATACATTCTT
* **
899285 AAATGTATCGATACATTTAGGTCAAAACCTCAAAATGTATCAATATAATGAA
1 AAATGTATCGATACATTTAGGTCAAAACCTCAAAATGTATCAATACAACAAA
* * * * *
899337 TAATGTATCGATAAATTTAGGTTAAAACCT-AGAATGTATCGATACAACAAA
1 AAATGTATCGATACATTTAGGTCAAAACCTCAAAATGTATCAATACAACAAA
*
899388 AAATATATCGATACATTT
1 AAATGTATCGATACATTT
899406 TCTTTCAAAA
Statistics
Matches: 58, Mismatches: 11, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
51 31 0.53
52 27 0.47
ACGTcount: A:0.45, C:0.12, G:0.12, T:0.31
Consensus pattern (52 bp):
AAATGTATCGATACATTTAGGTCAAAACCTCAAAATGTATCAATACAACAAA
Found at i:901263 original size:157 final size:155
Alignment explanation
Indices: 900923--901346 Score: 500
Period size: 157 Copynumber: 2.7 Consensus size: 155
900913 CTAACTTATT
* * * * * *
900923 CCTTCGGCATAGAAGTGGACCCAGTAACAACCTAGGAGTT-AGTTCTAAAAAATTACGAAAATTC
1 CCTTCGGCATAAAAGTGGACCTAGTGACAACCTAGGACTTGA-TTCTAAAAAATTACCAAAATGC
*
900987 CCCTAAGGGATACCTTCAACGTAAAAGTACCTGATACCTTTAAAGGACTTAAAAAAGATTTTAAA
65 CCCTAAGGGATACCTTCAACGTAAAAGTACCTGATACCCTTAAAGGACTTAAAAAAGATTTTAAA
*
901052 TGGGATGAACCTATATCAAATGCCCA
130 AGGGATGAACCTATATCAAATGCCCA
* *
901078 CCTTCGGCATAAAAGCGGACCTAGTGACAACTTAGGACTTGATTCTAAAAAATTACCAAAATGCC
1 CCTTCGGCATAAAAGTGGACCTAGTGACAACCTAGGACTTGATTCTAAAAAATTACCAAAATGCC
* ** * *
901143 CTTGGGGGATACCTTCAACGTAAAAAGTACCTGATACCCTT-AAGAGATTTAAAAAAGTGTTTTA
66 CCTAAGGGATACCTTCAACGT-AAAAGTACCTGATACCCTTAAAG-GACTTAAAAAAG-ATTTTA
* *
901207 AAAGGGATGAACCTAT-CCTAAATGCCTA
128 AAAGGGATGAACCTATATC-AAATGCCCA
* * * * *
901235 CCCTT-GGCATAAAAGTAGACCTAGTGACAACCTAAGACTCGATTTTAAAAAATTACCAAAATAC
1 -CCTTCGGCATAAAAGTGGACCTAGTGACAACCTAGGACTTGATTCTAAAAAATTACCAAAATGC
* * * *
901299 CCC-AAGGGCATACCTTCGATGTAAAAATACGC-AATACCCTTAAAGGAC
65 CCCTAAGGG-ATACCTTCAACGTAAAAGTAC-CTGATACCCTTAAAGGAC
901347 ACTAAAATGG
Statistics
Matches: 228, Mismatches: 32, Indels: 17
0.82 0.12 0.06
Matches are distributed among these distances:
155 76 0.33
156 51 0.22
157 97 0.43
158 4 0.02
ACGTcount: A:0.38, C:0.21, G:0.17, T:0.24
Consensus pattern (155 bp):
CCTTCGGCATAAAAGTGGACCTAGTGACAACCTAGGACTTGATTCTAAAAAATTACCAAAATGCC
CCTAAGGGATACCTTCAACGTAAAAGTACCTGATACCCTTAAAGGACTTAAAAAAGATTTTAAAA
GGGATGAACCTATATCAAATGCCCA
Found at i:902972 original size:18 final size:17
Alignment explanation
Indices: 902939--902974 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
902929 ATTTTTTCAC
*
902939 TATTTTTTCTTGTTTTT
1 TATTTTTTCTTCTTTTT
902956 TATTTTTTCTTTCTTTTT
1 TATTTTTTC-TTCTTTTT
902974 T
1 T
902975 TTCTCCTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 9 0.53
18 8 0.47
ACGTcount: A:0.06, C:0.08, G:0.03, T:0.83
Consensus pattern (17 bp):
TATTTTTTCTTCTTTTT
Found at i:903976 original size:168 final size:165
Alignment explanation
Indices: 903349--904089 Score: 602
Period size: 168 Copynumber: 4.5 Consensus size: 165
903339 ATGAGAGTTT
* * ** * * * * *
903349 AATAACAATATTAGATGAATTTTAAAAATTTTAAATCGAGAAAAAT-CTCCCTGAATATATTTAT
1 AATAATAATATTTGATGAATTTTAAAAATTAAAAACCAAGAAAAATCCTCTC-GAAAAAATTTAT
* * *
903413 GGAA-TAGAAAACTC-G-ATTTTTCGAAAATAG-GAAACTTTCAAAGAAAATATTTAAAACTCAT
65 -GAAGTAGAAAACTCAGTA-TTTT-GAAAAAAGAG-AA-TTTCAAAGAAAAAATTCAAAACTCAT
* * * * *
903474 GCAAATAAATTAATTTTTTAGAAATGATTTAATATGAATCA
125 GAAAATGAATTAAATTTTCAAAAATGATTTAATATGAATCA
* * ** * * * *
903515 AATGATGATATTTGATGAATTTTAAAAATCGAAAACCGAGAAAAATCCCCTTGAAAAAATTTACG
1 AATAATAATATTTGATGAATTTTAAAAATTAAAAACCAAGAAAAATCCTCTCGAAAAAATTTATG
* * *
903580 GAGTAGAAAACTCAGTATTTT-AAAAAAGGGAAATTTCAAAGAAAAAATTCAAAACTAATGAAAA
66 AAGTAGAAAACTCAGTATTTTGAAAAAAGAG-AATTTCAAAGAAAAAATTCAAAACTCATGAAAA
* * * * * **
903644 TGAATTAATTTTTCAGAACTTATTTAGTGGGAATTC-
130 TGAATTAAATTTTCAAAAATGATTTAATATGAA-TCA
* * ** ** * *
903680 AATGAA-ATTATTAGAT-ACATTTTAAAAATTTTAGGCCAA-AAAAGATCC-CCCGAAAATATTT
1 AAT-AATAATATTTGATGA-ATTTTAAAAATTAAAAACCAAGAAAA-ATCCTCTCGAAAAAATTT
* * *
903741 ATAGAA-TAGAAAACTTAGTTTTTTGAAAAAAAAAAGAGATTTCAAAGAAAAAATTCAAAACTCA
63 AT-GAAGTAGAAAACTCAGTATTTTG--AAAAAAGAGA-ATTTCAAAGAAAAAATTCAAAACTCA
903805 TGAAAATGAATTAAATTTTCAAAAAT-ATTTTAATATGAATCA
124 TGAAAATGAATTAAATTTTCAAAAATGA-TTTAATATGAATCA
* *
903847 AATAATAATATTTTATGAATTTTAAAAATTAAAAACCAAGAAAAATCCTATCGAAAAAATTTATG
1 AATAATAATATTTGATGAATTTTAAAAATTAAAAACCAAGAAAAATCCTCTCGAAAAAATTTATG
* *
903912 AAGAAGAAAACTCCA-TATTTTGGAAACAAGAGAATTTCAAGGAGAAAAAA-TCAAGAACTCATG
66 AAGTAGAAAACT-CAGTATTTT-GAAAAAAGAGAATTTCAA--AGAAAAAATTCAA-AACTCATG
* * *
903975 AAGATGAA-CAAATTTTTGAAAAATGATTTAATGA-GAGAT-A
126 AAAATGAATTAAA-TTTTCAAAAATGATTTAAT-ATGA-ATCA
* * *
904015 AATAATAATATTTGATGAATTTTAAAAATTAAAAACCTAGAAAAATCAT-TCCGAAAACATTTAT
1 AATAATAATATTTGATGAATTTTAAAAATTAAAAACCAAGAAAAATCCTCT-CGAAAAAATTTAT
* *
904079 GGAGTAAAAAA
65 GAAGTAGAAAA
904090 TTTCGTATTT
Statistics
Matches: 466, Mismatches: 78, Indels: 60
0.77 0.13 0.10
Matches are distributed among these distances:
164 32 0.07
165 92 0.20
166 77 0.17
167 120 0.26
168 139 0.30
169 6 0.01
ACGTcount: A:0.50, C:0.09, G:0.12, T:0.30
Consensus pattern (165 bp):
AATAATAATATTTGATGAATTTTAAAAATTAAAAACCAAGAAAAATCCTCTCGAAAAAATTTATG
AAGTAGAAAACTCAGTATTTTGAAAAAAGAGAATTTCAAAGAAAAAATTCAAAACTCATGAAAAT
GAATTAAATTTTCAAAAATGATTTAATATGAATCA
Found at i:905316 original size:30 final size:30
Alignment explanation
Indices: 905280--905618 Score: 174
Period size: 30 Copynumber: 11.3 Consensus size: 30
905270 GGAACAAGAG
905280 TACAGTCAAATGAGGAAAGACTTGACCGAA
1 TACAGTCAAATGAGGAAAGACTTGACCGAA
* * * *
905310 TACAGTCTAACA-G-GGTAAGATTTGATCGAG
1 TACAGTC-AA-ATGAGGAAAGACTTGACCGAA
* * *
905340 TACAATCAAATGAAGAAAGACTTGACTGAA
1 TACAGTCAAATGAGGAAAGACTTGACCGAA
* * * *
905370 TACAGTCGAACA-G-GGAAAAATTTGACGGAG
1 TACAGTC-AA-ATGAGGAAAGACTTGACCGAA
* *
905400 TGCAGTCAAATGAGAAAAGACTTGACCGAA
1 TACAGTCAAATGAGGAAAGACTTGACCGAA
* * * * *
905430 TATAGTTGAACA-G-GGTAAGATTTGACCGAG
1 TACAG-TCAA-ATGAGGAAAGACTTGACCGAA
*
905460 TACAGTCAAATGA-GAATAGTCTTGACCGAA
1 TACAGTCAAATGAGGAA-AGACTTGACCGAA
* * * * * *
905490 TACAATCAAAAG-GGTAAGATTTGACAGAG
1 TACAGTCAAATGAGGAAAGACTTGACCGAA
* * ** *
905519 TACAATCAAATTAGGCCAGTCTTGACCGAA
1 TACAGTCAAATGAGGAAAGACTTGACCGAA
** *
905549 TACAGTCAAGCGAGGGTAAA-ATTTGACCGAA
1 TACAGTCAAATGA-GG-AAAGACTTGACCGAA
* * * * * **
905580 TACAATAAAATAAAGATAGACTTGATTGAA
1 TACAGTCAAATGAGGAAAGACTTGACCGAA
905610 TACAGTCAA
1 TACAGTCAA
905619 GCAAGGATGG
Statistics
Matches: 220, Mismatches: 71, Indels: 36
0.67 0.22 0.11
Matches are distributed among these distances:
28 3 0.01
29 33 0.15
30 151 0.69
31 29 0.13
32 4 0.02
ACGTcount: A:0.42, C:0.14, G:0.22, T:0.22
Consensus pattern (30 bp):
TACAGTCAAATGAGGAAAGACTTGACCGAA
Found at i:905371 original size:60 final size:58
Alignment explanation
Indices: 905277--905618 Score: 337
Period size: 60 Copynumber: 5.7 Consensus size: 58
905267 AGTGGAACAA
* *
905277 GAGTACAGTCAAATGAGGAAAGACTTGACCGAATACAGTCTAACAGGGTAAGATTTGATC
1 GAGTACAATCAAATGAAGAAAGACTTGACCGAATACAGTC-AACAGGGTAAGATTTGA-C
* * *
905337 GAGTACAATCAAATGAAGAAAGACTTGACTGAATACAGTCGAACAGGGAAAAATTTGAC
1 GAGTACAATCAAATGAAGAAAGACTTGACCGAATACAGTC-AACAGGGTAAGATTTGAC
* * * *
905396 GGAGTGCAGTCAAATG-AGAAAAGACTTGACCGAATATAGTTGAACAGGGTAAGATTTGACC
1 -GAGTACAATCAAATGAAG-AAAGACTTGACCGAATACAG-TCAACAGGGTAAGATTTGA-C
* * * *
905457 GAGTACAGTCAAATG-AGAATAGTCTTGACCGAATACAATCAAAAGGGTAAGATTTGAC
1 GAGTACAATCAAATGAAGAA-AGACTTGACCGAATACAGTCAACAGGGTAAGATTTGAC
* * ** * *
905515 AGAGTACAATCAAATTAGGCCAGTCTTGACCGAATACAGTCAAGCGAGGGTAAAATTTGACC
1 -GAGTACAATCAAATGAAGAAAGACTTGACCGAATACAGTCAA-C-AGGGTAAGATTTGA-C
* * * * **
905577 GAATACAATAAAATAAAGATAGACTTGATTGAATACAGTCAA
1 GAGTACAATCAAATGAAGAAAGACTTGACCGAATACAGTCAA
905619 GCAAGGATGG
Statistics
Matches: 236, Mismatches: 36, Indels: 19
0.81 0.12 0.07
Matches are distributed among these distances:
58 1 0.00
59 56 0.24
60 130 0.55
61 48 0.20
62 1 0.00
ACGTcount: A:0.42, C:0.14, G:0.23, T:0.21
Consensus pattern (58 bp):
GAGTACAATCAAATGAAGAAAGACTTGACCGAATACAGTCAACAGGGTAAGATTTGAC
Found at i:905565 original size:120 final size:119
Alignment explanation
Indices: 905276--905613 Score: 392
Period size: 120 Copynumber: 2.8 Consensus size: 119
905266 CAGTGGAACA
*
905276 AGAGTACAGTCAAATGAGGAAAGACTTGACCGAATACAGTCTAACAGGGTAAGATTTGATCGAGT
1 AGAGTACAGTCAAATGAGGAAAGACTTGACCGAATACAGTC-AACAGGGTAAGATTTGACCGAGT
* * *
905341 ACAATCAAATGAAGAAAGACTTGACTGAATACAGTCGAACAGGGAAAAATTTGAC
65 ACAATCAAATGAAGAAAGACTTGACCGAATACAATCGAAAAGGGAAAAATTTGAC
* * * * *
905396 GGAGTGCAGTCAAATGAGAAAAGACTTGACCGAATATAGTTGAACAGGGTAAGATTTGACCGAGT
1 AGAGTACAGTCAAATGAGGAAAGACTTGACCGAATACAG-TCAACAGGGTAAGATTTGACCGAGT
* * * *
905461 ACAGTCAAATG-AGAATAGTCTTGACCGAATACAATC-AAAAGGGTAAGATTTGAC
65 ACAATCAAATGAAGAA-AGACTTGACCGAATACAATCGAAAAGGGAAAAATTTGAC
* * ** * * *
905515 AGAGTACAATCAAATTAGGCCAGTCTTGACCGAATACAGTCAAGCGAGGGTAAAATTTGACCGAA
1 AGAGTACAGTCAAATGAGGAAAGACTTGACCGAATACAGTCAA-C-AGGGTAAGATTTGACCGAG
* * * **
905580 TACAATAAAATAAAGATAGACTTGATTGAATACA
64 TACAATCAAATGAAGAAAGACTTGACCGAATACA
905614 GTCAAGCAAG
Statistics
Matches: 181, Mismatches: 32, Indels: 10
0.81 0.14 0.04
Matches are distributed among these distances:
118 3 0.02
119 50 0.28
120 124 0.69
121 4 0.02
ACGTcount: A:0.42, C:0.14, G:0.23, T:0.21
Consensus pattern (119 bp):
AGAGTACAGTCAAATGAGGAAAGACTTGACCGAATACAGTCAACAGGGTAAGATTTGACCGAGTA
CAATCAAATGAAGAAAGACTTGACCGAATACAATCGAAAAGGGAAAAATTTGAC
Found at i:912250 original size:155 final size:155
Alignment explanation
Indices: 912064--912463 Score: 450
Period size: 156 Copynumber: 2.6 Consensus size: 155
912054 AAGCGACCCG
* * *
912064 GTAACAACCTAGGAGTTGATTCTAAAAAATTACGAAAATACCCCTAAGGGATACCTTCAACATAA
1 GTAACAACCTAGGACTCGATTCTAGAAAATTACGAAAATACCCCTAAGGGATACCTTCAACATAA
* ***
912129 AAGTACCTGATGCCCTTAAAGGAC-TGAAAAAGGATTTTAAATGGGATGAACCTATCCTAAATGC
66 AAGTACCTGAT-CCCTTAAAGGACTTAAAAAAGGATTTTAAAAAAGATGAACCTATCCTAAATGC
* **
912193 CTACCTTCGGCATAAAAGCGGA-TGCA
130 CTACCTTCGACATAAAAGCAAACT-CA
* * * * * ** *
912219 GTGACAACCTAGGACTCAATTCTAGAAAATTACGAAAATGCCCTTAAATGCCTA-CTTCAACGTA
1 GTAACAACCTAGGACTCGATTCTAGAAAATTACGAAAATACCCCT-AAGGGATACCTTCAACATA
* *
912283 AAACTACCTGATACCGC-TAAAGGACTTAAAAAAGGGTTTTAAAAAAGATGAACCTATCCTAAAT
65 AAAGTACCTGAT-CC-CTTAAAGGACTTAAAAAAGGATTTTAAAAAAGATGAACCTATCCTAAAT
*
912347 GCCTACCTTCGACATAAAAGCAAACTCG
128 GCCTACCTTCGACATAAAAGCAAACTCA
* * * * * *
912375 GTAACAACCTAAGACTCGATTTTAGAAAATTACCAAAATATCTCT-AGGAGATACCTTCGACATA
1 GTAACAACCTAGGACTCGATTCTAGAAAATTACGAAAATACCCCTAAGG-GATACCTTCAACATA
*
912439 AAAGTACCTGATACCTCTAAAGGAC
65 AAAGTACCTGATCCCT-TAAAGGAC
912464 ACTAAAATAG
Statistics
Matches: 199, Mismatches: 38, Indels: 15
0.79 0.15 0.06
Matches are distributed among these distances:
154 3 0.02
155 71 0.36
156 124 0.62
157 1 0.01
ACGTcount: A:0.40, C:0.21, G:0.15, T:0.23
Consensus pattern (155 bp):
GTAACAACCTAGGACTCGATTCTAGAAAATTACGAAAATACCCCTAAGGGATACCTTCAACATAA
AAGTACCTGATCCCTTAAAGGACTTAAAAAAGGATTTTAAAAAAGATGAACCTATCCTAAATGCC
TACCTTCGACATAAAAGCAAACTCA
Found at i:913908 original size:21 final size:22
Alignment explanation
Indices: 913884--913929 Score: 60
Period size: 21 Copynumber: 2.1 Consensus size: 22
913874 ATACATGTTA
913884 AAATATGCAA-AAACAAAGA-TG
1 AAATATGCAAGAAAC-AAGATTG
*
913905 AAATCTGCAAGAAACAAGATTG
1 AAATATGCAAGAAACAAGATTG
913927 AAA
1 AAA
913930 AGAATGATTA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
21 13 0.59
22 9 0.41
ACGTcount: A:0.59, C:0.11, G:0.15, T:0.15
Consensus pattern (22 bp):
AAATATGCAAGAAACAAGATTG
Found at i:914005 original size:17 final size:16
Alignment explanation
Indices: 913985--914025 Score: 57
Period size: 17 Copynumber: 2.5 Consensus size: 16
913975 ATTTTTTCAA
913985 TTTTTTCTTGT-TTTTT
1 TTTTTTCTT-TCTTTTT
914001 CTTTTTTCTTTCTTTTT
1 -TTTTTTCTTTCTTTTT
914018 TTTTTTCT
1 TTTTTTCT
914026 CTTTTTGCTG
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
16 9 0.39
17 14 0.61
ACGTcount: A:0.00, C:0.12, G:0.02, T:0.85
Consensus pattern (16 bp):
TTTTTTCTTTCTTTTT
Found at i:914028 original size:18 final size:18
Alignment explanation
Indices: 913985--914029 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 18
913975 ATTTTTTCAA
*
913985 TTTTTTC-TTGTTTTTTC
1 TTTTTTCTTTCTTTTTTC
914002 TTTTTTCTTTCTTTTTT-
1 TTTTTTCTTTCTTTTTTC
914019 TTTTTCTCTTT
1 TTTTT-TCTTT
914030 TTGCTGAATT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
17 12 0.48
18 13 0.52
ACGTcount: A:0.00, C:0.13, G:0.02, T:0.84
Consensus pattern (18 bp):
TTTTTTCTTTCTTTTTTC
Found at i:914031 original size:11 final size:10
Alignment explanation
Indices: 913985--914021 Score: 56
Period size: 10 Copynumber: 3.6 Consensus size: 10
913975 ATTTTTTCAA
*
913985 TTTTTTCTTG
1 TTTTTTCTTT
913995 TTTTTTCTTT
1 TTTTTTCTTT
914005 TTTCTTTCTTT
1 TTT-TTTCTTT
914016 TTTTTT
1 TTTTTT
914022 TTCTCTTTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
10 15 0.60
11 10 0.40
ACGTcount: A:0.00, C:0.11, G:0.03, T:0.86
Consensus pattern (10 bp):
TTTTTTCTTT
Found at i:915159 original size:167 final size:165
Alignment explanation
Indices: 914747--915171 Score: 462
Period size: 167 Copynumber: 2.5 Consensus size: 165
914737 GGAAATGAGG
* * *
914747 ATTTCAAAGAAAAAATCCAAAACTTGTGAAAATGAATTAAATTTTTAAAGCT-ATTTTAATATGA
1 ATTTCAAAGAAAAAATCAAAAACTTATGAAAATGAA-TAAATTTTTAAAACTGATTTT-ATATGA
* *
914811 ATCAAATAATAATATTTTATGAATTCTAAAAATTAAAAACCAAGAAAAATCCACCCGAAAAATAT
64 ATTAAATAATAATATTTTATGAATTTTAAAAATTAAAAACCAAGAAAAATCCACCCGAAAAATAT
* * ***
914876 TACGAAGTTGAAAACTTCGTATTTTGAAAACGGGAAA
129 TACGAAGTAGAAAACTTCATATTTTGAAAAAAAGAAA
* * * * * *
914913 ATTTCAAGGAAAAAAATCAAAAACTCATGAAGATGAATAAATTTTTGAATACTGATTTAATTTGA
1 ATTTCAAAG-AAAAAATCAAAAACTTATGAAAATGAATAAATTTTT-AAAACTGATTTTATATGA
* *
914978 GTTAAATAATAATATTTTATGAATTTTAAAAATTAAAAACCTAGAAAAATCC-CTCCGAAAACAT
64 ATTAAATAATAATATTTTATGAATTTTAAAAATTAAAAACCAAGAAAAATCCAC-CCGAAAA-AT
* * * *
915042 -TTACGGAGTAGAAAATTTTATATTTTAGAAAAAAAGAGA
127 ATTACGAAGTAGAAAACTTCATATTTT-GAAAAAAAGAAA
* * * * **
915081 GTTT-AAAGAAAAAATTCAAAAATTTATGAAAATGAATGAATTTTTCAAAACTGATTTTCTGGGA
1 ATTTCAAAGAAAAAA-TCAAAAACTTATGAAAATGAATAAATTTTT-AAAACTGATTTTATATGA
* * *
915145 ATTAAATTATAATATTTGAAGAATTTT
64 ATTAAATAATAATATTTTATGAATTTT
915172 GATGTTTGAA
Statistics
Matches: 214, Mismatches: 38, Indels: 13
0.81 0.14 0.05
Matches are distributed among these distances:
166 24 0.11
167 173 0.81
168 17 0.08
ACGTcount: A:0.48, C:0.08, G:0.11, T:0.32
Consensus pattern (165 bp):
ATTTCAAAGAAAAAATCAAAAACTTATGAAAATGAATAAATTTTTAAAACTGATTTTATATGAAT
TAAATAATAATATTTTATGAATTTTAAAAATTAAAAACCAAGAAAAATCCACCCGAAAAATATTA
CGAAGTAGAAAACTTCATATTTTGAAAAAAAGAAA
Found at i:916539 original size:128 final size:127
Alignment explanation
Indices: 916189--916693 Score: 567
Period size: 127 Copynumber: 4.0 Consensus size: 127
916179 GAAAAAGGAA
* * * * * *
916189 TGCCACCAACTTGTGTA-GCTTTGAAAGAAAAAGAAAAGCGTCCTACTCTTTAAGGACTAAAAAG
1 TGCCACCAGCTTGTGTAGGCTTTAAAAGAAAAAGAAAAGCGTCTTGCTCTTCAAGGACTAAAAGG
* * * *
916253 TGCCACCAA-CTTGTGTGGGCTTTAAAAATAAAAAAACGTCCTGCTCTTTAAGGATTAAAAGG
66 TGCCA-CAAGCTTGTGTGGGCTTTAAAAAGAAAAAGACGTCCTGCTCTTTGAGGACTAAAAGG
* *
916315 TGCCACCAGCTTGTGTGAGG-TTTAAAAGATAAAGAAAAGCATCTTGCTCTTCAAGGACTAAAAG
1 TGCCACCAGCTTGTGT-AGGCTTTAAAAGAAAAAGAAAAGCGTCTTGCTCTTCAAGGACTAAAAG
* * * *
916379 GTGCCACCAGCTTATGTGGGTTTTAAAAAGAAAAAGATGTCCTGCTCTTTGAGGACTAAAAGG
65 GTGCCACAAGCTTGTGTGGGCTTTAAAAAGAAAAAGACGTCCTGCTCTTTGAGGACTAAAAGG
* * * *
916442 TGCCACCATCTTCTATAGGCTTTAAAAGAAAAAGAAAAAACGTCTTGCTCTTCAAGGACTAAAAG
1 TGCCACCAGCTTGTGTAGGCTTTAAAAGAAAAAG-AAAAGCGTCTTGCTCTTCAAGGACTAAAAG
* * *
916507 GTGTCACAAGCTTGTGTGGGCTTTAAAAAGAAAAAGGCGTCCTACTCTTTGAGGACTAAAAGG
65 GTGCCACAAGCTTGTGTGGGCTTTAAAAAGAAAAAGACGTCCTGCTCTTTGAGGACTAAAAGG
* * * * * * *
916570 TGCCACCAGCTTATGTGGGCTTTAAAAAGAAAAAG----GCATCCTACTCTTTGACGG-CTAAAA
1 TGCCACCAGCTTGTGTAGGCTTT-AAAAGAAAAAGAAAAGCGTCTTGCTC-TTCAAGGACTAAAA
* * * * * * * *
916630 GGTGCTACCAGCTTGTATGGGCTTTAAAAAGAAAAAGGCATCATGCTCTTTGAGAAGTAAAAGG
64 GGTGCCACAAGCTTGTGTGGGCTTTAAAAAGAAAAAGACGTCCTGCTCTTTGAGGACTAAAAGG
916694 AAAAAGGTTT
Statistics
Matches: 324, Mismatches: 48, Indels: 16
0.84 0.12 0.04
Matches are distributed among these distances:
124 68 0.21
125 5 0.02
126 20 0.06
127 116 0.36
128 104 0.32
129 11 0.03
ACGTcount: A:0.35, C:0.18, G:0.22, T:0.25
Consensus pattern (127 bp):
TGCCACCAGCTTGTGTAGGCTTTAAAAGAAAAAGAAAAGCGTCTTGCTCTTCAAGGACTAAAAGG
TGCCACAAGCTTGTGTGGGCTTTAAAAAGAAAAAGACGTCCTGCTCTTTGAGGACTAAAAGG
Found at i:916691 original size:62 final size:62
Alignment explanation
Indices: 916216--916693 Score: 480
Period size: 62 Copynumber: 7.6 Consensus size: 62
916206 GCTTTGAAAG
* * * *
916216 AAAAAG-AAAA-GCGTCCTACTCTTTAAGGACTAAAAAGTGCCACCAACTTGTGTGGGCTTT
1 AAAAAGAAAAAGGCGTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAGCTTGTGTGGGCTTT
* ** * *
916276 AAAAATAAAAAAACGTCCTGCTCTTTAAGGATTAAAAGGTGCCACCAGCTTGTGTGAGG-TTT
1 AAAAAGAAAAAGGCGTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAGCTTGTGTG-GGCTTT
* * * * ** * *
916338 AAAAGATAAAGAAAAGCATCTTGCTCTTCAAGGACTAAAAGGTGCCACCAGCTTATGTGGGTTTT
1 AAAA-A-GAA-AAAGGCGTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAGCTTGTGTGGGCTTT
** * * * *
916403 AAAAAGAAAAAGATGTCCTGCTCTTTGAGGACTAAAAGGTGCCACCATCTTCTATAGGCTTT
1 AAAAAGAAAAAGGCGTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAGCTTGTGTGGGCTTT
* * ** * *
916465 -AAAAGAAAAAGAAAAAACGTCTTGCTCTTCAAGGACTAAAAGGTGTCACAAGCTTGTGTGGGCT
1 AAAAAGAAAAAG-----GCGTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAGCTTGTGTGGGCT
916529 TT
61 TT
* *
916531 AAAAAGAAAAAGGCGTCCTACTCTTTGAGGACTAAAAGGTGCCACCAGCTTATGTGGGCTTT
1 AAAAAGAAAAAGGCGTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAGCTTGTGTGGGCTTT
* * * *
916593 AAAAAGAAAAAGGCATCCTACTCTTTGACGG-CTAAAAGGTGCTACCAGCTTGTATGGGCTTT
1 AAAAAGAAAAAGGCGTCCTGCTCTTTGA-GGACTAAAAGGTGCCACCAGCTTGTGTGGGCTTT
* * * *
916655 AAAAAGAAAAAGGCATCATGCTCTTTGAGAAGTAAAAGG
1 AAAAAGAAAAAGGCGTCCTGCTCTTTGAGGACTAAAAGG
916694 AAAAAGGTTT
Statistics
Matches: 351, Mismatches: 52, Indels: 28
0.81 0.12 0.06
Matches are distributed among these distances:
60 5 0.01
61 16 0.05
62 218 0.62
63 7 0.02
64 5 0.01
65 49 0.14
66 40 0.11
67 11 0.03
ACGTcount: A:0.36, C:0.17, G:0.22, T:0.25
Consensus pattern (62 bp):
AAAAAGAAAAAGGCGTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAGCTTGTGTGGGCTTT
Found at i:927070 original size:240 final size:240
Alignment explanation
Indices: 926635--927120 Score: 819
Period size: 240 Copynumber: 2.0 Consensus size: 240
926625 TGCACCTATC
* *
926635 TTCTTGCAAAAATTAAGAGCTTGGATGATTGCAGCTAGAATGGCTGGCGCTGGATTAATGTTGTA
1 TTCTTGCAAAAATTAAGAGCTTGGATGATTGCAACTAGAATGGCTGGCGCTAGATTAATGTTGTA
* * *
926700 GCATAATTGAGAGAAAATATCAACTACTGCAGCTTTAATATAGCCCAATGTCTTCGGGAATATGA
66 GCATAATCGAGAGAAAAGATCAACTACTACAGCTTTAATATAGCCCAATGTCTTCGGGAATATGA
* **
926765 CCAGACCATATAACGCTAGGGCATAAATGTCTTGGACTTTCCGGACATCAATGGTACTAGCCATC
131 CCAGACCATATAACGCTAGGGCATAAATATCTTGGACTTTCCGGACATCAACAGTACTAGCCATC
* *
926830 GCTTCTTTTAAATTGGCCCATGAGACGCACTCGCTATTCCTTTTT
196 GCTTCTTTTAAACTGGCCCATGAGACGCACTCGCTATTCCCTTTT
* *
926875 TTCTTGCAAAAATTAAGAGCTTGGATGGTTGTAACTAGAATGGCTGGCGCTAGATTAATGTTGTA
1 TTCTTGCAAAAATTAAGAGCTTGGATGATTGCAACTAGAATGGCTGGCGCTAGATTAATGTTGTA
* *
926940 GCATAATCGAGAGAAAAGATCAACTACTACAGCTTTAATGTAGCCTAATGTCTTCGGGAATATGA
66 GCATAATCGAGAGAAAAGATCAACTACTACAGCTTTAATATAGCCCAATGTCTTCGGGAATATGA
* * *
927005 CCAGACCATATATCGCTAGGGCATAAATATCTTGGACTTTTCGGACATCAACAGTACTGGCCATC
131 CCAGACCATATAACGCTAGGGCATAAATATCTTGGACTTTCCGGACATCAACAGTACTAGCCATC
927070 GCTTCTTTTAAACTGGCCCATGAGACGCACTCGCTATTCCCTTTT
196 GCTTCTTTTAAACTGGCCCATGAGACGCACTCGCTATTCCCTTTT
927115 TTCTTG
1 TTCTTG
927121 ATGTGACTCT
Statistics
Matches: 229, Mismatches: 17, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
240 229 1.00
ACGTcount: A:0.29, C:0.20, G:0.21, T:0.31
Consensus pattern (240 bp):
TTCTTGCAAAAATTAAGAGCTTGGATGATTGCAACTAGAATGGCTGGCGCTAGATTAATGTTGTA
GCATAATCGAGAGAAAAGATCAACTACTACAGCTTTAATATAGCCCAATGTCTTCGGGAATATGA
CCAGACCATATAACGCTAGGGCATAAATATCTTGGACTTTCCGGACATCAACAGTACTAGCCATC
GCTTCTTTTAAACTGGCCCATGAGACGCACTCGCTATTCCCTTTT
Found at i:928680 original size:25 final size:26
Alignment explanation
Indices: 928652--928701 Score: 84
Period size: 26 Copynumber: 2.0 Consensus size: 26
928642 ATCATGAAAC
928652 AAGATCAT-ACAAAGTAAAAGGTTAG
1 AAGATCATGACAAAGTAAAAGGTTAG
*
928677 AAGATGATGACAAAGTAAAAGGTTA
1 AAGATCATGACAAAGTAAAAGGTTA
928702 AAGGGAACCA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
25 7 0.30
26 16 0.70
ACGTcount: A:0.52, C:0.06, G:0.22, T:0.20
Consensus pattern (26 bp):
AAGATCATGACAAAGTAAAAGGTTAG
Found at i:929113 original size:79 final size:76
Alignment explanation
Indices: 929028--929174 Score: 179
Period size: 79 Copynumber: 1.9 Consensus size: 76
929018 CAAGGTTGGG
* * * *
929028 GTATCCC-CTCGAAGATGGTGGGGTTGGAGTATCCCTAAGATGAAAATTTTAATATTTTGGAAGT
1 GTATCCCTCTCGAA-ATGATGGGATTGGAGTATCCCGAAG-TGAAAA--TTAATATTTTGGAAAT
929092 AAAAATGGGCTTCGA
62 AAAAATGGGCTTCGA
* * * *
929107 GTATCCCTTTCGAAATTATGGGATTGGAGTATCCCGATGTGAAAATTGATATTTTGGAAATAAAA
1 GTATCCCTCTCGAAATGATGGGATTGGAGTATCCCGAAGTGAAAATTAATATTTTGGAAATAAAA
929172 ATG
66 ATG
929175 AGGTTGAAGT
Statistics
Matches: 59, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
76 21 0.36
78 6 0.10
79 27 0.46
80 5 0.08
ACGTcount: A:0.32, C:0.12, G:0.24, T:0.32
Consensus pattern (76 bp):
GTATCCCTCTCGAAATGATGGGATTGGAGTATCCCGAAGTGAAAATTAATATTTTGGAAATAAAA
ATGGGCTTCGA
Found at i:929186 original size:76 final size:76
Alignment explanation
Indices: 929048--929303 Score: 189
Period size: 81 Copynumber: 3.2 Consensus size: 76
929038 GAAGATGGTG
* * *
929048 GGGTTGGAGTATCCCTAAGATGAAAATTTTAATATTTTGGAAGTAAAAATGGGCTTCGAGTA-TC
1 GGGTTGGAGTATCCCGATG-TGAAAA-TTTAATATTTTGGAAATAAAAATGGGCTTCGAGTATTC
* *
929112 CCTTTC-GAAATTAT
64 CC--TCAAAAATAAT
*
929126 GGGATTGGAGTATCCCGATGTGAAAA-TTGATATTTTGGAAATAAAAATGAGG-TT-GAAGTATT
1 GGG-TTGGAGTATCCCGATGTGAAAATTTAATATTTTGGAAATAAAAATG-GGCTTCG-AGTATT
929188 CCCTCAAAAATAAT
63 CCCTCAAAAATAAT
* ** * * ** * * *
929202 AGGGTTGGAGTATCTCCGATGGTGAAAAACTCGATGCTTTTGGAAGTAAAAACAGGATTGGAATA
1 -GGGTTGGAGTATC-CCGAT-GTG-AAAATTTAAT-ATTTTGGAAATAAAAATGGGCTTCGAGTA
*
929267 TCCCCTCAAAAATAAT
61 TTCCCTCAAAAATAAT
*
929283 GGGATTCGAGTATCCCCGATG
1 GGG-TTGGAGTAT-CCCGATG
929304 GTAAAAAAAA
Statistics
Matches: 149, Mismatches: 14, Indels: 28
0.78 0.07 0.15
Matches are distributed among these distances:
75 3 0.02
76 43 0.29
77 14 0.09
78 12 0.08
79 18 0.12
80 10 0.07
81 47 0.32
82 2 0.01
ACGTcount: A:0.34, C:0.13, G:0.23, T:0.30
Consensus pattern (76 bp):
GGGTTGGAGTATCCCGATGTGAAAATTTAATATTTTGGAAATAAAAATGGGCTTCGAGTATTCCC
TCAAAAATAAT
Found at i:929273 original size:81 final size:78
Alignment explanation
Indices: 929119--929311 Score: 216
Period size: 81 Copynumber: 2.4 Consensus size: 78
929109 ATCCCTTTCG
* * *
929119 AAATTATGGGATTGGAGTATCCCGAT-GTG-AAAATTGATATTTTGGAAATAAAAATGAGGTTGA
1 AAATAATGGGATTGGAGTATCCCGATGGTGAAAAATCGATATTTTGGAAATAAAAATCAGGTTGA
*
929182 AGTATTCCCTCAA
66 AGTATCCCCTCAA
* *
929195 AAATAATAGGG-TTGGAGTATCTCCGATGGTGAAAAACTCGATGCTTTTGGAAGTAAAAA-CAGG
1 AAATAAT-GGGATTGGAGTATC-CCGATGGTGAAAAA-TCGAT-ATTTTGGAAATAAAAATCAGG
929258 ATTGGAA-TATCCCCTCAA
62 -TT-GAAGTATCCCCTCAA
* *
929276 AAATAATGGGATTCGAGTATCCCCGATGGTAAAAAA
1 AAATAATGGGATTGGAGTAT-CCCGATGGTGAAAAA
929312 AAAATTCGAT
Statistics
Matches: 99, Mismatches: 8, Indels: 15
0.81 0.07 0.12
Matches are distributed among these distances:
76 16 0.16
77 8 0.08
78 3 0.03
79 4 0.04
80 10 0.10
81 54 0.55
82 4 0.04
ACGTcount: A:0.37, C:0.12, G:0.23, T:0.27
Consensus pattern (78 bp):
AAATAATGGGATTGGAGTATCCCGATGGTGAAAAATCGATATTTTGGAAATAAAAATCAGGTTGA
AGTATCCCCTCAA
Found at i:933954 original size:52 final size:52
Alignment explanation
Indices: 933804--933934 Score: 235
Period size: 52 Copynumber: 2.5 Consensus size: 52
933794 CCCGAAATAT
933804 GAAAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGG
1 GAAAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGG
* * *
933856 GCAAATTTGCCTGCATGTATCGATACATTTTATAGTGTATCAATACATCTGG
1 GAAAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGG
933908 GAAAATTTGCCTGCATGTATCGATACA
1 GAAAATTTGCCTGCATGTATCGATACA
933935 AAGATCAGTG
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
52 75 1.00
ACGTcount: A:0.30, C:0.18, G:0.18, T:0.34
Consensus pattern (52 bp):
GAAAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGG
Found at i:934034 original size:19 final size:19
Alignment explanation
Indices: 934010--934094 Score: 92
Period size: 19 Copynumber: 4.7 Consensus size: 19
934000 TAGCTTACAT
934010 TGTATCGATACAAAACTTA
1 TGTATCGATACAAAACTTA
* *
934029 TGTATCGATACAACATTTA
1 TGTATCGATACAAAACTTA
934048 TGTATCGATAC---A--T-
1 TGTATCGATACAAAACTTA
*
934061 TGTATCGATACAACACTTTA
1 TGTATCGATACAAAAC-TTA
934081 TGTATCGATACAAA
1 TGTATCGATACAAA
934095 TCGTTGAAAT
Statistics
Matches: 56, Mismatches: 3, Indels: 13
0.78 0.04 0.18
Matches are distributed among these distances:
13 11 0.20
14 1 0.02
16 2 0.04
19 29 0.52
20 13 0.23
ACGTcount: A:0.38, C:0.16, G:0.12, T:0.34
Consensus pattern (19 bp):
TGTATCGATACAAAACTTA
Found at i:934065 original size:32 final size:33
Alignment explanation
Indices: 934029--934092 Score: 121
Period size: 33 Copynumber: 2.0 Consensus size: 33
934019 ACAAAACTTA
934029 TGTATCGATACAACA-TTTATGTATCGATACAT
1 TGTATCGATACAACACTTTATGTATCGATACAT
934061 TGTATCGATACAACACTTTATGTATCGATACA
1 TGTATCGATACAACACTTTATGTATCGATACA
934093 AATCGTTGAA
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
32 15 0.48
33 16 0.52
ACGTcount: A:0.34, C:0.17, G:0.12, T:0.36
Consensus pattern (33 bp):
TGTATCGATACAACACTTTATGTATCGATACAT
Found at i:934066 original size:13 final size:13
Alignment explanation
Indices: 934048--934072 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
934038 ACAACATTTA
934048 TGTATCGATACAT
1 TGTATCGATACAT
934061 TGTATCGATACA
1 TGTATCGATACA
934073 ACACTTTATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:937181 original size:34 final size:34
Alignment explanation
Indices: 937133--937353 Score: 208
Period size: 34 Copynumber: 6.6 Consensus size: 34
937123 CGGTGGCAAC
* *
937133 CAAACC-TGTCAAAGTCCAAACAAGTCAGTGGCA
1 CAAACCTTTTCAAAGTCCACACAAGTCAGTGGCA
*
937166 CAAACCTTTTCAAAGTCCACACAAGTCAATGGCAA
1 CAAACCTTTTCAAAGTCCACACAAGTCAGTGGC-A
* *
937201 CTAAACCTTTTCCAAGGTCCACACAAGT-TGATGGCA
1 C-AAACCTTTT-CAAAGTCCACACAAGTCAG-TGGCA
* **
937237 CAAACCTTTTCAAAGTCCACAAAAGTTGGTGGCA
1 CAAACCTTTTCAAAGTCCACACAAGTCAGTGGCA
**
937271 CAAACCTTTTCAAAGTCCACACAAGTTGGTGG--
1 CAAACCTTTTCAAAGTCCACACAAGTCAGTGGCA
** * *
937303 C--ACCTAGTCAAAGTCCACACGAGTTAGTGG--
1 CAAACCTTTTCAAAGTCCACACAAGTCAGTGGCA
*
937333 C-AACTTTTTCAAAGTCCACAC
1 CAAACCTTTTCAAAGTCCACAC
937354 GAGTTGGTGG
Statistics
Matches: 164, Mismatches: 17, Indels: 16
0.83 0.09 0.08
Matches are distributed among these distances:
30 26 0.16
31 16 0.10
32 1 0.01
33 6 0.04
34 73 0.45
35 12 0.07
36 11 0.07
37 19 0.12
ACGTcount: A:0.34, C:0.27, G:0.16, T:0.22
Consensus pattern (34 bp):
CAAACCTTTTCAAAGTCCACACAAGTCAGTGGCA
Found at i:937240 original size:71 final size:68
Alignment explanation
Indices: 937133--937305 Score: 215
Period size: 71 Copynumber: 2.5 Consensus size: 68
937123 CGGTGGCAAC
* * * *
937133 CAAACC-TGTCAAAGTCCAAACAAG-TCAGTGGCACAAACCTTTTCAAAGTCCACACAAGTCAAT
1 CAAACCTTTTCAAAGTCCACACAAGTTGA-TGGCACAAACCTTTTCAAAGTCCACAAAAGTCAAT
937196 GGCAA
65 GGC-A
* ***
937201 CTAAACCTTTTCCAAGGTCCACACAAGTTGATGGCACAAACCTTTTCAAAGTCCACAAAAGTTGG
1 C-AAACCTTTT-CAAAGTCCACACAAGTTGATGGCACAAACCTTTTCAAAGTCCACAAAAGTCAA
937266 TGGCA
64 TGGCA
*
937271 CAAACCTTTTCAAAGTCCACACAAGTTGGTGGCAC
1 CAAACCTTTTCAAAGTCCACACAAGTTGATGGCAC
937306 CTAGTCAAAG
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
68 24 0.26
69 14 0.15
70 4 0.04
71 47 0.52
72 2 0.02
ACGTcount: A:0.35, C:0.27, G:0.16, T:0.21
Consensus pattern (68 bp):
CAAACCTTTTCAAAGTCCACACAAGTTGATGGCACAAACCTTTTCAAAGTCCACAAAAGTCAATG
GCA
Found at i:937316 original size:30 final size:30
Alignment explanation
Indices: 937246--937453 Score: 136
Period size: 31 Copynumber: 6.8 Consensus size: 30
937236 ACAAACCTTT
* **
937246 TCAAAGTCCACAAAAGTTGGTGGCACAAACCTTT
1 TCAAAGTCCACACAAGTTGGTGG--C--ACCTAG
937280 TCAAAGTCCACACAAGTTGGTGGCACCTAG
1 TCAAAGTCCACACAAGTTGGTGGCACCTAG
* * * **
937310 TCAAAGTCCACACGAGTTAGTGGCAACTTTT
1 TCAAAGTCCACACAAGTTGGTGGC-ACCTAG
*
937341 TCAAAGTCCACACGAGTTGGTGGCACCATAG
1 TCAAAGTCCACACAAGTTGGTGGCACC-TAG
* * * * *
937372 TTAAAG-CTCGCATAAGTTGGCGGCACCCA-
1 TCAAAGTC-CACACAAGTTGGTGGCACCTAG
* * **
937401 --AAAGCCCACACAAGCTGGTGGCATCCTTTC
1 TCAAAGTCCACACAAGTTGGTGGCA-CC-TAG
*
937431 TCAAAGTCCACACAAGCTGGTGG
1 TCAAAGTCCACACAAGTTGGTGG
937454 TATTATTTCT
Statistics
Matches: 140, Mismatches: 25, Indels: 20
0.76 0.14 0.11
Matches are distributed among these distances:
27 17 0.12
28 3 0.02
30 30 0.21
31 47 0.34
32 21 0.15
34 22 0.16
ACGTcount: A:0.30, C:0.26, G:0.22, T:0.22
Consensus pattern (30 bp):
TCAAAGTCCACACAAGTTGGTGGCACCTAG
Found at i:937447 original size:32 final size:31
Alignment explanation
Indices: 937209--937453 Score: 148
Period size: 34 Copynumber: 7.9 Consensus size: 31
937199 AACTAAACCT
* *
937209 TTTC-CAAGGTCCACACAAGTTGATGGCACAAACC
1 TTTCTCAAAGTCCACACAAGTTGGTGG--C--ACC
*
937243 TTT-TCAAAGTCCACAAAAGTTGGTGGCACAAACC
1 TTTCTCAAAGTCCACACAAGTTGGTGG--C--ACC
937277 TTT-TCAAAGTCCACACAAGTTGGTGGCACC
1 TTTCTCAAAGTCCACACAAGTTGGTGGCACC
** * * *
937307 -TAGTCAAAGTCCACACGAGTTAGTGGCAAC
1 TTTCTCAAAGTCCACACAAGTTGGTGGCACC
* *
937337 TTTTTCAAAGTCCACACGAGTTGGTGGCACC
1 TTTCTCAAAGTCCACACAAGTTGGTGGCACC
* ** * * * *
937368 ATAGTTAAAG-CTCGCATAAGTTGGCGGCACC
1 TTTCTCAAAGTC-CACACAAGTTGGTGGCACC
* * *
937399 ---C-AAAAGCCCACACAAGCTGGTGGCATCC
1 TTTCTCAAAGTCCACACAAGTTGGTGGCA-CC
*
937427 TTTCTCAAAGTCCACACAAGCTGGTGG
1 TTTCTCAAAGTCCACACAAGTTGGTGG
937454 TATTATTTCT
Statistics
Matches: 173, Mismatches: 28, Indels: 22
0.78 0.13 0.10
Matches are distributed among these distances:
27 17 0.10
28 3 0.02
29 1 0.01
30 28 0.16
31 48 0.28
32 21 0.12
34 55 0.32
ACGTcount: A:0.30, C:0.27, G:0.21, T:0.22
Consensus pattern (31 bp):
TTTCTCAAAGTCCACACAAGTTGGTGGCACC
Found at i:937463 original size:32 final size:32
Alignment explanation
Indices: 937401--937467 Score: 98
Period size: 32 Copynumber: 2.1 Consensus size: 32
937391 GCGGCACCCA
*
937401 AAAGCCCACACAAGCTGGTGGCATCCTTTCTC
1 AAAGCCCACACAAGCTGGTGGCATCATTTCTC
* * *
937433 AAAGTCCACACAAGCTGGTGGTATTATTTCTC
1 AAAGCCCACACAAGCTGGTGGCATCATTTCTC
937465 AAA
1 AAA
937468 ACCCGCAGAG
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.30, C:0.27, G:0.18, T:0.25
Consensus pattern (32 bp):
AAAGCCCACACAAGCTGGTGGCATCATTTCTC
Found at i:941545 original size:12 final size:12
Alignment explanation
Indices: 941528--941561 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
941518 GAGAAAGAAG
*
941528 AAGATAGGAGGG
1 AAGATAGGAGGA
*
941540 ATGATAGGAGGA
1 AAGATAGGAGGA
941552 AAGATAGGAG
1 AAGATAGGAG
941562 AGATAATAGA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.44, C:0.00, G:0.44, T:0.12
Consensus pattern (12 bp):
AAGATAGGAGGA
Found at i:948792 original size:14 final size:14
Alignment explanation
Indices: 948773--948799 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
948763 GGTGCTTGCT
948773 TAGTTGGTTTTGTA
1 TAGTTGGTTTTGTA
948787 TAGTTGGTTTTGT
1 TAGTTGGTTTTGT
948800 GATTGTGGCG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.11, C:0.00, G:0.30, T:0.59
Consensus pattern (14 bp):
TAGTTGGTTTTGTA
Found at i:950646 original size:20 final size:20
Alignment explanation
Indices: 950621--950677 Score: 78
Period size: 20 Copynumber: 2.9 Consensus size: 20
950611 TTTTACCGAG
*
950621 ATGTATCGTTACATTTTTCA
1 ATGTATCGATACATTTTTCA
* * *
950641 ATGTATCGATACATGTATGA
1 ATGTATCGATACATTTTTCA
950661 ATGTATCGATACATTTT
1 ATGTATCGATACATTTT
950678 GTCTTTTTTC
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.30, C:0.12, G:0.14, T:0.44
Consensus pattern (20 bp):
ATGTATCGATACATTTTTCA
Found at i:959193 original size:27 final size:27
Alignment explanation
Indices: 959163--959276 Score: 174
Period size: 27 Copynumber: 4.2 Consensus size: 27
959153 CAAAGTACAT
959163 AACTCCGTGGCATCCTTTTAAGTCCAC
1 AACTCCGTGGCATCCTTTTAAGTCCAC
*
959190 AACTTCGTGGCATCCTTTTAAAGTCCAC
1 AACTCCGTGGCATCCTTTT-AAGTCCAC
* * * *
959218 CATTCCATGGCACCCTTTTAAGTCCAC
1 AACTCCGTGGCATCCTTTTAAGTCCAC
959245 AACTCCGTGGCATCCTTTTAAGTCCAC
1 AACTCCGTGGCATCCTTTTAAGTCCAC
959272 AACTC
1 AACTC
959277 TATGGCAACA
Statistics
Matches: 76, Mismatches: 10, Indels: 2
0.86 0.11 0.02
Matches are distributed among these distances:
27 54 0.71
28 22 0.29
ACGTcount: A:0.24, C:0.33, G:0.13, T:0.30
Consensus pattern (27 bp):
AACTCCGTGGCATCCTTTTAAGTCCAC
Found at i:959228 original size:28 final size:28
Alignment explanation
Indices: 959170--959386 Score: 158
Period size: 28 Copynumber: 7.8 Consensus size: 28
959160 CATAACTCCG
* *
959170 TGGCATCCTTTT-AAGTCCACAACTT-CG
1 TGGCATCCTTTTAAAGCCCACAA-TTCCA
* *
959197 TGGCATCCTTTTAAAGTCCACCATTCCA
1 TGGCATCCTTTTAAAGCCCACAATTCCA
* * * *
959225 TGGCACCCTTTT-AAGTCCACAACTCCG
1 TGGCATCCTTTTAAAGCCCACAATTCCA
* * *
959252 TGGCATCCTTTT-AAGTCCACAACTCTA
1 TGGCATCCTTTTAAAGCCCACAATTCCA
*
959279 TGGCAACACCCTTTTAAAGCCCACAAGTT--A
1 TGG---CATCCTTTTAAAGCCCACAA-TTCCA
* * *
959309 GTGGCATCCTTTCAAAGCCCACAAGTCAA
1 -TGGCATCCTTTTAAAGCCCACAATTCCA
* * *
959338 TGGCATCCTTTCAAAGCCCACAAGTCAA
1 TGGCATCCTTTTAAAGCCCACAATTCCA
* *
959366 TGGCATCATTTCAAAGCCCAC
1 TGGCATCCTTTTAAAGCCCAC
959387 CACAAGTCAG
Statistics
Matches: 164, Mismatches: 16, Indels: 19
0.82 0.08 0.10
Matches are distributed among these distances:
27 54 0.33
28 87 0.53
29 1 0.01
30 9 0.05
31 12 0.07
32 1 0.01
ACGTcount: A:0.28, C:0.32, G:0.14, T:0.27
Consensus pattern (28 bp):
TGGCATCCTTTTAAAGCCCACAATTCCA
Found at i:959314 original size:31 final size:28
Alignment explanation
Indices: 959197--959509 Score: 143
Period size: 28 Copynumber: 10.8 Consensus size: 28
959187 CACAACTTCG
* * * * *
959197 TGGCATCCTTTTAAAGTCCACCATTCCA
1 TGGCACCCTTTTAAAGCCCACAAGTCTA
* * **
959225 TGGCACCCTTTT-AAGTCCACAACTCCG
1 TGGCACCCTTTTAAAGCCCACAAGTCTA
* * *
959252 TGGCATCCTTTT-AAGTCCACAACTCTA
1 TGGCACCCTTTTAAAGCCCACAAGTCTA
959279 TGGCAACACCCTTTTAAAGCCCACAAGT-TA
1 TGG---CACCCTTTTAAAGCCCACAAGTCTA
* * *
959309 GTGGCATCCTTTCAAAGCCCACAAGTCAA
1 -TGGCACCCTTTTAAAGCCCACAAGTCTA
* * *
959338 TGGCATCCTTTCAAAGCCCACAAGTCAA
1 TGGCACCCTTTTAAAGCCCACAAGTCTA
* * *
959366 TGGCATCATTTCAAAGCCCACCACAAGTC-A
1 TGGCACCCTTTTAAAG--C-CCACAAGTCTA
* * **
959396 GTGGCAACTCATTTCAAAGCCCACACAAGTCGG
1 -TGGC-AC-CCTTTTAAAG-CC-CACAAGTCTA
* *
959429 TGGCAACTCATTTGAAAGCCCACACAAGTC-A
1 TGGC-AC-CCTTTTAAAG-CC-CACAAGTCTA
* * *
959460 GTGGCACACTTTCAAAACCCACAAGTC-A
1 -TGGCACCCTTTTAAAGCCCACAAGTCTA
*
959488 GTGGCACCCTTTAAAAGCCCAC
1 -TGGCACCCTTTTAAAGCCCAC
959510 GCAAATCAGT
Statistics
Matches: 245, Mismatches: 25, Indels: 30
0.82 0.08 0.10
Matches are distributed among these distances:
27 39 0.16
28 102 0.42
29 3 0.01
30 18 0.07
31 29 0.12
32 44 0.18
33 10 0.04
ACGTcount: A:0.30, C:0.32, G:0.15, T:0.23
Consensus pattern (28 bp):
TGGCACCCTTTTAAAGCCCACAAGTCTA
Found at i:959432 original size:32 final size:31
Alignment explanation
Indices: 959300--959523 Score: 227
Period size: 28 Copynumber: 7.5 Consensus size: 31
959290 TTTTAAAGCC
* *
959300 CACAAGTTAGTGGCA-TCCTTTCAAAG-CC-
1 CACAAGTCAGTGGCACTCATTTCAAAGCCCA
* *
959328 CACAAGTCAATGGCA-TCCTTTCAAAG-CC-
1 CACAAGTCAGTGGCACTCATTTCAAAGCCCA
*
959356 CACAAGTCAATGGCA-TCATTTCAAAGCCCA
1 CACAAGTCAGTGGCACTCATTTCAAAGCCCA
959386 CCACAAGTCAGTGGCAACTCATTTCAAAGCCCA
1 -CACAAGTCAGTGGC-ACTCATTTCAAAGCCCA
* *
959419 CACAAGTCGGTGGCAACTCATTTGAAAGCCCA
1 CACAAGTCAGTGGC-ACTCATTTCAAAGCCCA
* *
959451 CACAAGTCAGTGGCACAC-TTTCAAA-ACC-
1 CACAAGTCAGTGGCACTCATTTCAAAGCCCA
* *
959479 CACAAGTCAGTGGCAC-CCTTTAAAAGCCCA
1 CACAAGTCAGTGGCACTCATTTCAAAGCCCA
* *
959509 CGCAAATCAGTGGCA
1 CACAAGTCAGTGGCA
959524 ACCCTTTTCA
Statistics
Matches: 174, Mismatches: 14, Indels: 14
0.86 0.07 0.07
Matches are distributed among these distances:
27 1 0.01
28 73 0.42
29 6 0.03
30 19 0.11
31 16 0.09
32 44 0.25
33 15 0.09
ACGTcount: A:0.33, C:0.31, G:0.17, T:0.19
Consensus pattern (31 bp):
CACAAGTCAGTGGCACTCATTTCAAAGCCCA
Found at i:960427 original size:20 final size:20
Alignment explanation
Indices: 960402--960456 Score: 74
Period size: 20 Copynumber: 2.8 Consensus size: 20
960392 TTTTACCCAG
* *
960402 ATGTATCAATACATTTTTCA
1 ATGTATCGATACATTTATCA
* *
960422 ATGTATCGATACATGTATGA
1 ATGTATCGATACATTTATCA
960442 ATGTATCGATACATT
1 ATGTATCGATACATT
960457 CTGTCTTTTT
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.35, C:0.13, G:0.13, T:0.40
Consensus pattern (20 bp):
ATGTATCGATACATTTATCA
Found at i:960480 original size:31 final size:31
Alignment explanation
Indices: 960442--960558 Score: 83
Period size: 31 Copynumber: 3.5 Consensus size: 31
960432 ACATGTATGA
960442 ATGTATCGATACATTCTGTCTTTTTACCCAG
1 ATGTATCGATACATTCTGTCTTTTTACCCAG
* * **
960473 ATGTATCGCTACATT-TTTCAATGTATTGATACATGTATG
1 ATGTATCGATACATTCTGTC--T-T-TT--TAC--CCA-G
**
960512 AATGTATCGATACATTCTGTCTTTTTTTCCAG
1 -ATGTATCGATACATTCTGTCTTTTTACCCAG
960544 ATGTATCGATACATT
1 ATGTATCGATACATT
960559 TTTCAATGAA
Statistics
Matches: 65, Mismatches: 10, Indels: 22
0.67 0.10 0.23
Matches are distributed among these distances:
30 3 0.05
31 29 0.45
32 2 0.03
33 2 0.03
34 2 0.03
35 1 0.02
36 3 0.05
37 2 0.03
38 2 0.03
39 2 0.03
40 14 0.22
41 3 0.05
ACGTcount: A:0.26, C:0.17, G:0.14, T:0.44
Consensus pattern (31 bp):
ATGTATCGATACATTCTGTCTTTTTACCCAG
Found at i:960498 original size:20 final size:20
Alignment explanation
Indices: 960473--960527 Score: 65
Period size: 20 Copynumber: 2.8 Consensus size: 20
960463 TTTTACCCAG
* *
960473 ATGTATCGCTACATTTTTCA
1 ATGTATCGATACATTTATCA
* * *
960493 ATGTATTGATACATGTATGA
1 ATGTATCGATACATTTATCA
960513 ATGTATCGATACATT
1 ATGTATCGATACATT
960528 CTGTCTTTTT
Statistics
Matches: 28, Mismatches: 7, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.31, C:0.13, G:0.15, T:0.42
Consensus pattern (20 bp):
ATGTATCGATACATTTATCA
Found at i:960507 original size:71 final size:71
Alignment explanation
Indices: 960391--960577 Score: 320
Period size: 71 Copynumber: 2.6 Consensus size: 71
960381 AAAAGTCACA
*
960391 TTTTTACCCAGATGTATCAATACATTTTTCAATGTATCGATACATGTATGAATGTATCGATACAT
1 TTTTTACCCAGATGTATCGATACATTTTTCAATGTATCGATACATGTATGAATGTATCGATACAT
960456 TCTGTC
66 TCTGTC
* *
960462 TTTTTACCCAGATGTATCGCTACATTTTTCAATGTATTGATACATGTATGAATGTATCGATACAT
1 TTTTTACCCAGATGTATCGATACATTTTTCAATGTATCGATACATGTATGAATGTATCGATACAT
960527 TCTGTC
66 TCTGTC
** *
960533 TTTTTTTCCAGATGTATCGATACATTTTTCAATGAATCGATACAT
1 TTTTTACCCAGATGTATCGATACATTTTTCAATGTATCGATACAT
960578 CTAGTTAAAA
Statistics
Matches: 108, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
71 108 1.00
ACGTcount: A:0.28, C:0.17, G:0.13, T:0.42
Consensus pattern (71 bp):
TTTTTACCCAGATGTATCGATACATTTTTCAATGTATCGATACATGTATGAATGTATCGATACAT
TCTGTC
Found at i:961576 original size:58 final size:58
Alignment explanation
Indices: 961486--961602 Score: 225
Period size: 58 Copynumber: 2.0 Consensus size: 58
961476 CTTGCCTGTC
961486 ATGTCCTCGTGCGTTTGCTGCATTTTCATGTCAAGACGCATGCTTGCTTGCATTTGAA
1 ATGTCCTCGTGCGTTTGCTGCATTTTCATGTCAAGACGCATGCTTGCTTGCATTTGAA
*
961544 ATGTCCTCGTGTGTTTGCTGCATTTTCATGTCAAGACGCATGCTTGCTTGCATTTGAA
1 ATGTCCTCGTGCGTTTGCTGCATTTTCATGTCAAGACGCATGCTTGCTTGCATTTGAA
961602 A
1 A
961603 AGTGATTTTC
Statistics
Matches: 58, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
58 58 1.00
ACGTcount: A:0.18, C:0.21, G:0.22, T:0.38
Consensus pattern (58 bp):
ATGTCCTCGTGCGTTTGCTGCATTTTCATGTCAAGACGCATGCTTGCTTGCATTTGAA
Found at i:961590 original size:29 final size:30
Alignment explanation
Indices: 961500--961598 Score: 98
Period size: 29 Copynumber: 3.4 Consensus size: 30
961490 CCTCGTGCGT
961500 TTGC-TGCATTTTCATGTCAAGACGCATGC
1 TTGCTTGCATTTTCATGTCAAGACGCATGC
** ** ** *
961529 TTGCTTGCATTTGAAATGTC--CTCGTGTGT
1 TTGCTTGCATTT-TCATGTCAAGACGCATGC
961558 TTGC-TGCATTTTCATGTCAAGACGCATGC
1 TTGCTTGCATTTTCATGTCAAGACGCATGC
961587 TTGCTTGCATTT
1 TTGCTTGCATTT
961599 GAAAAGTGAT
Statistics
Matches: 51, Mismatches: 14, Indels: 9
0.69 0.19 0.12
Matches are distributed among these distances:
27 5 0.10
28 7 0.14
29 20 0.39
30 14 0.27
31 5 0.10
ACGTcount: A:0.17, C:0.21, G:0.21, T:0.40
Consensus pattern (30 bp):
TTGCTTGCATTTTCATGTCAAGACGCATGC
Found at i:968417 original size:9 final size:9
Alignment explanation
Indices: 968405--968465 Score: 65
Period size: 9 Copynumber: 7.1 Consensus size: 9
968395 CTCTCTCTAT
968405 TATCTCTCC
1 TATCTCTCC
968414 TATCTCTCC
1 TATCTCTCC
* *
968423 T-CCTAT-C
1 TATCTCTCC
*
968430 -ATCCCTCC
1 TATCTCTCC
*
968438 TATCTCTAC
1 TATCTCTCC
968447 TATCTCTCC
1 TATCTCTCC
968456 TATCTCTCC
1 TATCTCTCC
968465 T
1 T
968466 CTTATCATCC
Statistics
Matches: 41, Mismatches: 8, Indels: 6
0.75 0.15 0.11
Matches are distributed among these distances:
7 3 0.07
8 4 0.10
9 34 0.83
ACGTcount: A:0.13, C:0.44, G:0.00, T:0.43
Consensus pattern (9 bp):
TATCTCTCC
Found at i:968423 original size:42 final size:42
Alignment explanation
Indices: 968377--968495 Score: 184
Period size: 42 Copynumber: 2.8 Consensus size: 42
968367 TTTTTCTCTC
* * *
968377 CTCCTCCTGTCATCCCTCCTCTCTCTATTATCTCTCCTATCT
1 CTCCTCCTATCATCCCTCCTATCTCTACTATCTCTCCTATCT
968419 CTCCTCCTATCATCCCTCCTATCTCTACTATCTCTCCTATCT
1 CTCCTCCTATCATCCCTCCTATCTCTACTATCTCTCCTATCT
* * *
968461 CTCCTCTTATCATCCCTCCTATCTCTTCTTTCTCT
1 CTCCTCCTATCATCCCTCCTATCTCTACTATCTCT
968496 TTGAGGGCTA
Statistics
Matches: 71, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 71 1.00
ACGTcount: A:0.11, C:0.45, G:0.01, T:0.44
Consensus pattern (42 bp):
CTCCTCCTATCATCCCTCCTATCTCTACTATCTCTCCTATCT
Found at i:968425 original size:12 final size:12
Alignment explanation
Indices: 968410--968486 Score: 62
Period size: 12 Copynumber: 6.9 Consensus size: 12
968400 TCTATTATCT
968410 CTCCTATCTCTC
1 CTCCTATCTCTC
968422 CTCCTATCATC-C
1 CTCCTATC-TCTC
968434 CTCCTA--TCT-
1 CTCCTATCTCTC
*
968443 CTACTA--TCT-
1 CTCCTATCTCTC
968452 CTCCTATCTCTC
1 CTCCTATCTCTC
*
968464 CTCTTATCATC-C
1 CTCCTATC-TCTC
968476 CTCCTATCTCT
1 CTCCTATCTCT
968487 TCTTTCTCTT
Statistics
Matches: 54, Mismatches: 4, Indels: 14
0.75 0.06 0.19
Matches are distributed among these distances:
9 15 0.28
11 5 0.09
12 30 0.56
13 4 0.07
ACGTcount: A:0.13, C:0.45, G:0.00, T:0.42
Consensus pattern (12 bp):
CTCCTATCTCTC
Found at i:968437 original size:24 final size:24
Alignment explanation
Indices: 968401--968486 Score: 94
Period size: 24 Copynumber: 3.8 Consensus size: 24
968391 CCTCCTCTCT
* *
968401 CTATTATCTCTCCTATCTCTCCTC
1 CTATCATCCCTCCTATCTCTCCTC
*
968425 CTATCATCCCTCCTA--TCT-CTA
1 CTATCATCCCTCCTATCTCTCCTC
968446 CTATC-T--CTCCTATCTCTCCTC
1 CTATCATCCCTCCTATCTCTCCTC
*
968467 TTATCATCCCTCCTATCTCT
1 CTATCATCCCTCCTATCTCT
968487 TCTTTCTCTT
Statistics
Matches: 51, Mismatches: 5, Indels: 12
0.75 0.07 0.18
Matches are distributed among these distances:
18 6 0.12
20 4 0.08
21 13 0.25
22 4 0.08
24 24 0.47
ACGTcount: A:0.14, C:0.43, G:0.00, T:0.43
Consensus pattern (24 bp):
CTATCATCCCTCCTATCTCTCCTC
Found at i:971770 original size:24 final size:26
Alignment explanation
Indices: 971723--971771 Score: 66
Period size: 24 Copynumber: 2.0 Consensus size: 26
971713 ATTTCATCTA
*
971723 ATATCATGCATTTATGTTGTCATCAC
1 ATATCATGCATTTATGTTGGCATCAC
*
971749 ATATCAT-CA-TTGTGTTGGCATCA
1 ATATCATGCATTTATGTTGGCATCA
971772 TACCAAGCCA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 12 0.57
25 2 0.10
26 7 0.33
ACGTcount: A:0.27, C:0.18, G:0.14, T:0.41
Consensus pattern (26 bp):
ATATCATGCATTTATGTTGGCATCAC
Found at i:972081 original size:25 final size:25
Alignment explanation
Indices: 972035--972117 Score: 68
Period size: 25 Copynumber: 3.4 Consensus size: 25
972025 TGTCAGGAAA
*
972035 TCATCAAAATCCTTTG-CTAAGAATCT
1 TCATCAAAA-ACTTTGTC-AAGAATCT
972061 TCATCAAAAACTTTGTCAAGAA-CT
1 TCATCAAAAACTTTGTCAAGAATCT
* *
972085 TGCGTAAAAAACTTTTGTCAA-AAT-T
1 T-CATCAAAAAC-TTTGTCAAGAATCT
972110 T-ATCAAAA
1 TCATCAAAA
972118 TCTTCAAGTC
Statistics
Matches: 48, Mismatches: 5, Indels: 11
0.75 0.08 0.17
Matches are distributed among these distances:
23 5 0.10
24 3 0.06
25 22 0.46
26 18 0.38
ACGTcount: A:0.41, C:0.18, G:0.08, T:0.33
Consensus pattern (25 bp):
TCATCAAAAACTTTGTCAAGAATCT
Found at i:972362 original size:37 final size:37
Alignment explanation
Indices: 972316--972418 Score: 127
Period size: 37 Copynumber: 2.8 Consensus size: 37
972306 GTCCACAAAT
* *
972316 TAAATCATTTTTAAAGTCCACACAAGTCAATGGTAAC
1 TAAACCATTTTTAAAGTCCACACAAGTCAATGGCAAC
***
972353 TAAACCATTTTTAAAGTCCACACAAGTTGGTGGCAAC
1 TAAACCATTTTTAAAGTCCACACAAGTCAATGGCAAC
* *
972390 CAAACC-TTTTTCAAAGCCCACACAAGTCA
1 TAAACCATTTTT-AAAGTCCACACAAGTCA
972419 GTAGCAATGA
Statistics
Matches: 56, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
36 5 0.09
37 51 0.91
ACGTcount: A:0.38, C:0.24, G:0.12, T:0.26
Consensus pattern (37 bp):
TAAACCATTTTTAAAGTCCACACAAGTCAATGGCAAC
Found at i:972432 original size:37 final size:35
Alignment explanation
Indices: 972323--972437 Score: 122
Period size: 37 Copynumber: 3.1 Consensus size: 35
972313 AATTAAATCA
* *
972323 TTTTTAAAGTCCACACAAGTCAATGGTAACTAAACC
1 TTTTTAAAGTCCACACAAGTCAGTGGCAA-TAAACC
** *
972359 ATTTTTAAAGTCCACACAAGTTGGTGGCAACCAAACC
1 -TTTTTAAAGTCCACACAAGTCAGTGGCAA-TAAACC
* *
972396 TTTTTCAAAGCCCACACAAGTCAGTAGCAATGAAACC
1 TTTTT-AAAGTCCACACAAGTCAGTGGCAAT-AAACC
972433 TTTTT
1 TTTTT
972438 TTAATTTGTG
Statistics
Matches: 66, Mismatches: 10, Indels: 4
0.82 0.12 0.05
Matches are distributed among these distances:
36 5 0.08
37 61 0.92
ACGTcount: A:0.36, C:0.23, G:0.13, T:0.28
Consensus pattern (35 bp):
TTTTTAAAGTCCACACAAGTCAGTGGCAATAAACC
Found at i:972496 original size:31 final size:31
Alignment explanation
Indices: 972458--972691 Score: 195
Period size: 31 Copynumber: 7.4 Consensus size: 31
972448 GCAACCACAG
*
972458 TCAAAGTCCACATGAGTTGGTGGCAACCTTT
1 TCAAAGTCCACACGAGTTGGTGGCAACCTTT
*
972489 TCAAAGTCCACACGAGTTGGTGGC-ACCATAGT
1 TCAAAGTCCACACGAGTTGGTGGCAACC-T-TT
* ** *
972521 T-AAAGTCCACATGAGTTGGTAAC-ACTTTAT
1 TCAAAGTCCACACGAGTTGGTGGCAACCTT-T
* ** *
972551 TCAAAGTCCACACAAGTCAGTGGCAACCAAACCTAT
1 TCAAAGTCCACACGAGTTGGTGG----C-AACCTTT
* * **
972587 TCAAAGTCCACAAGAGTTGGTGGCACCCTAG
1 TCAAAGTCCACACGAGTTGGTGGCAACCTTT
* * *
972618 TCAAAGTCCACACTAGTTGGTGACAACGTTT
1 TCAAAGTCCACACGAGTTGGTGGCAACCTTT
* *
972649 CCAAAGTTCACACGAGTTGGTGGCAACCTTT
1 TCAAAGTCCACACGAGTTGGTGGCAACCTTT
*
972680 TCAAAGCCCACA
1 TCAAAGTCCACA
972692 AGTCAATGGC
Statistics
Matches: 157, Mismatches: 36, Indels: 20
0.74 0.17 0.09
Matches are distributed among these distances:
30 6 0.04
31 124 0.79
32 3 0.02
35 1 0.01
36 20 0.13
37 3 0.02
ACGTcount: A:0.31, C:0.25, G:0.20, T:0.24
Consensus pattern (31 bp):
TCAAAGTCCACACGAGTTGGTGGCAACCTTT
Found at i:972654 original size:98 final size:98
Alignment explanation
Indices: 972482--972676 Score: 259
Period size: 98 Copynumber: 2.0 Consensus size: 98
972472 AGTTGGTGGC
* * * *
972482 AACCTTTTCAAAGTCCACACGAGTTGGTGGCACCATAGTTAAAGTCCACATGAGTTGGTAACACT
1 AACCTATTCAAAGTCCACAAGAGTTGGTGGCACCATAGTCAAAGTCCACATGAGTTGGTAACACG
*
972547 TTATTCAAAGTCCACACAAGTCAGTGGCAACCA
66 TTATCCAAAGTCCACACAAGTCAGTGGCAACCA
* *
972580 AACCTATTCAAAGTCCACAAGAGTTGGTGGCACCCTAGTCAAAGTCCACACT-AGTTGGTGACAA
1 AACCTATTCAAAGTCCACAAGAGTTGGTGGCACCATAGTCAAAGTCCACA-TGAGTTGGTAAC-A
* * **
972644 CGTT-TCCAAAGTTCACACGAGTTGGTGGCAACC
64 CGTTATCCAAAGTCCACACAAGTCAGTGGCAACC
972677 TTTTCAAAGC
Statistics
Matches: 84, Mismatches: 11, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
98 79 0.94
99 5 0.06
ACGTcount: A:0.31, C:0.25, G:0.20, T:0.24
Consensus pattern (98 bp):
AACCTATTCAAAGTCCACAAGAGTTGGTGGCACCATAGTCAAAGTCCACATGAGTTGGTAACACG
TTATCCAAAGTCCACACAAGTCAGTGGCAACCA
Found at i:972691 original size:129 final size:128
Alignment explanation
Indices: 972458--972691 Score: 292
Period size: 129 Copynumber: 1.8 Consensus size: 128
972448 GCAACCACAG
* ** * *
972458 TCAAAGTCCACATGAGTTGGTGGCAACCTTTTCAAAGTCCACACGAGTTGGTGGCACCATAGTTA
1 TCAAAGTCCACAAGAGTTGGTGGCAACCTAGTCAAAGTCCACACGAGTTGGTGACAACATA-TTA
* * *
972523 AAGTCCACATGAGTTGGTAACACTTTATTCAAAGTCCACACAAGTCAGTGGCAACCAAACCTAT
65 AAGTCCACACGAGTTGGTAACACCTTATTCAAAGCCCACACAAGTCAGTGGCAACCAAACCTAT
* * *
972587 TCAAAGTCCACAAGAGTTGGTGGCACCCTAGTCAAAGTCCACACTAGTTGGTGACAACGT-TTCC
1 TCAAAGTCCACAAGAGTTGGTGGCAACCTAGTCAAAGTCCACACGAGTTGGTGACAACATATT--
* **
972651 AAAGTTCACACGAGTTGGTGGCAACCTT-TTCAAAGCCCACA
64 AAAGTCCACACGAGTTGGTAAC-ACCTTATTCAAAGCCCACA
972692 AGTCAATGGC
Statistics
Matches: 88, Mismatches: 14, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
127 2 0.02
129 82 0.93
130 4 0.05
ACGTcount: A:0.31, C:0.25, G:0.20, T:0.24
Consensus pattern (128 bp):
TCAAAGTCCACAAGAGTTGGTGGCAACCTAGTCAAAGTCCACACGAGTTGGTGACAACATATTAA
AGTCCACACGAGTTGGTAACACCTTATTCAAAGCCCACACAAGTCAGTGGCAACCAAACCTAT
Found at i:972711 original size:29 final size:28
Alignment explanation
Indices: 972669--972773 Score: 133
Period size: 29 Copynumber: 3.7 Consensus size: 28
972659 CACGAGTTGG
972669 TGGCAACCTTTTCAAAGCCCACAAGTCAA
1 TGGC-ACCTTTTCAAAGCCCACAAGTCAA
* *
972698 TGGCACCCTTTTCAAAGCCCACAAGTTAT
1 TGGCA-CCTTTTCAAAGCCCACAAGTCAA
*
972727 TGGCACCTTTT-AAAGCCCATAAGTCAA
1 TGGCACCTTTTCAAAGCCCACAAGTCAA
*
972754 TGGCATCTCTTT-AAAGCCCA
1 TGGCACCT-TTTCAAAGCCCA
972774 TACTAGCTGG
Statistics
Matches: 68, Mismatches: 6, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
27 20 0.29
28 18 0.26
29 30 0.44
ACGTcount: A:0.30, C:0.30, G:0.14, T:0.26
Consensus pattern (28 bp):
TGGCACCTTTTCAAAGCCCACAAGTCAA
Found at i:975357 original size:44 final size:44
Alignment explanation
Indices: 975282--975374 Score: 159
Period size: 44 Copynumber: 2.1 Consensus size: 44
975272 ACATTAACAC
* * *
975282 AAACCCTAATGGACTTATTGTGTTAATAAGCCCAATTCTTAATT
1 AAACCCTAATGGACTTATTATGCTAACAAGCCCAATTCTTAATT
975326 AAACCCTAATGGACTTATTATGCTAACAAGCCCAATTCTTAATT
1 AAACCCTAATGGACTTATTATGCTAACAAGCCCAATTCTTAATT
975370 AAACC
1 AAACC
975375 AAATAACAAG
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
44 46 1.00
ACGTcount: A:0.37, C:0.22, G:0.10, T:0.32
Consensus pattern (44 bp):
AAACCCTAATGGACTTATTATGCTAACAAGCCCAATTCTTAATT
Found at i:980942 original size:12 final size:12
Alignment explanation
Indices: 980910--980945 Score: 58
Period size: 12 Copynumber: 3.2 Consensus size: 12
980900 AAATATTTTT
980910 TATGATGAACAG
1 TATGATGAACAG
980922 TATGA--AACAG
1 TATGATGAACAG
980932 TATGATGAACAG
1 TATGATGAACAG
980944 TA
1 TA
980946 AATATGAACA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
10 10 0.45
12 12 0.55
ACGTcount: A:0.44, C:0.08, G:0.22, T:0.25
Consensus pattern (12 bp):
TATGATGAACAG
Found at i:981431 original size:44 final size:44
Alignment explanation
Indices: 981363--981454 Score: 166
Period size: 44 Copynumber: 2.1 Consensus size: 44
981353 CCCTCAGGCC
*
981363 AACCCTAATGGACTTATTGTGCTAACAAGCCCAATTCTTAATTA
1 AACCCTAATGGACTTATTGTGCTAACAACCCCAATTCTTAATTA
*
981407 AACCTTAATGGACTTATTGTGCTAACAACCCCAATTCTTAATTA
1 AACCCTAATGGACTTATTGTGCTAACAACCCCAATTCTTAATTA
981451 AACC
1 AACC
981455 AAAATAATAA
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
44 46 1.00
ACGTcount: A:0.35, C:0.24, G:0.10, T:0.32
Consensus pattern (44 bp):
AACCCTAATGGACTTATTGTGCTAACAACCCCAATTCTTAATTA
Found at i:985621 original size:158 final size:158
Alignment explanation
Indices: 985304--985701 Score: 480
Period size: 158 Copynumber: 2.5 Consensus size: 158
985294 GGGTCGAACC
* * * *
985304 TTGATTCTAAGTAGAATGGTGGAAAGGAAAATCTTTTCTTGTGAAG-CAAAACATCATTATTGTG
1 TTGATTTTAAGCAAAATGGTGGAAA-GAAAATCTTTTCTTGTGAAGCCAAAACATCATTATCGTG
* * * * *
985368 TATCCTTGA-AAGTAGAACATAGTTATGTTGCCAAATCATGAAAGGATAGAGATTATTATGTGAA
65 TATCCCT-ATAAGGAGAATATAGTTATGTTGCCAAATCATAAAAGAATAGAGATTATTATGTGAA
*
985432 TCCAAGTTGGTCTCATTTTAGGGATCAACT
129 TCCAAGTTGGTCTCATTTAAGGGATCAACT
985462 TTGATTTTAAGCAAAATGGTGGAAAGAAAATCTTTTCTTGTGAAGCCAAAACATCATTATCGTGT
1 TTGATTTTAAGCAAAATGGTGGAAAGAAAATCTTTTCTTGTGAAGCCAAAACATCATTATCGTGT
* * *
985527 ATCCCTATAAGGAGAATATGGTTATAGTTG-CAAATTATAAAAAGAATGGAGATTATTATGTGAA
66 ATCCCTATAAGGAGAATATAGTTAT-GTTGCCAAATCAT-AAAAGAATAGAGATTATTATGTGAA
* * *
985591 TCCAAGTTTGTCTTATTTAAGGGAT-GACT
129 TCCAAGTTGGTCTCATTTAAGGGATCAACT
* * * * ** * * * *
985620 TTAATTTTAAGGAAAATTGTGGAAAGAAAAGCTTTTCTTGCAAAACCAAAGCATCAATATCATGT
1 TTGATTTTAAGCAAAATGGTGGAAAGAAAATCTTTTCTTGTGAAGCCAAAACATCATTATCGTGT
* *
985685 ATCCCAATGAGGAGAAT
66 ATCCCTATAAGGAGAAT
985702 GTCTTTATGG
Statistics
Matches: 208, Mismatches: 28, Indels: 8
0.85 0.11 0.03
Matches are distributed among these distances:
157 21 0.10
158 139 0.67
159 48 0.23
ACGTcount: A:0.36, C:0.11, G:0.20, T:0.33
Consensus pattern (158 bp):
TTGATTTTAAGCAAAATGGTGGAAAGAAAATCTTTTCTTGTGAAGCCAAAACATCATTATCGTGT
ATCCCTATAAGGAGAATATAGTTATGTTGCCAAATCATAAAAGAATAGAGATTATTATGTGAATC
CAAGTTGGTCTCATTTAAGGGATCAACT
Found at i:985757 original size:158 final size:159
Alignment explanation
Indices: 985429--985827 Score: 394
Period size: 158 Copynumber: 2.5 Consensus size: 159
985419 ATTATTATGT
* * * * *
985429 GAATCCAAGTTGGTCTCATTTTAGGGATCAACTTTGATTTTAAGCAAAATGGTGGAAAGAAAATC
1 GAATCCAAGTTTGTCTTATTTAAGGGATCAACTTTAATTTTAAGCAAAATGGTGGAAAGAAAAGC
** * * * * *
985494 TTTTCTTGTGAAGCCAAAACATCATTATCGTGTATCCCTATAAGGAGAATATGGTTATAGTTGCA
66 TTTTCTTGCAAAACCAAAACATCAATATCATGTATCCCAATAAGGAGAATATCGTTATAGTTGCA
* * * ***
985559 AATTATAAAAAGAATGGAGATTATTATGT
131 AATAATAAAAAGAATGGAAATTACTACAA
* * *
985588 GAATCCAAGTTTGTCTTATTTAAGGGAT-GACTTTAATTTTAAGGAAAATTGTGGAAAGAAAAGC
1 GAATCCAAGTTTGTCTTATTTAAGGGATCAACTTTAATTTTAAGCAAAATGGTGGAAAGAAAAGC
* * * * *
985652 TTTTCTTGCAAAACCAAAGCATCAATATCATGTATCCCAATGAGGAGAATGTCTTTATGGTT-CT
66 TTTTCTTGCAAAACCAAAACATCAATATCATGTATCCCAATAAGGAGAATATCGTTATAGTTGC-
* * *
985716 AAATAATGAAAAGATTTGAAATTACTACAA
130 AAATAATAAAAAGAATGGAAATTACTACAA
* * * * * * *
985746 GAATGCTAGTTTGTCTTTTTTAAGGG-TCAAACTTTGATTCTAAGAAAAATGAT-GAAAGGAAAA
1 GAATCCAAGTTTGTCTTATTTAAGGGATC-AACTTTAATTTTAAGCAAAATGGTGGAAA-GAAAA
*
985809 GTTTTTCTTG-AGAAACCAA
64 GCTTTTCTTGCA-AAACCAA
985828 CATGTATTGT
Statistics
Matches: 196, Mismatches: 39, Indels: 10
0.80 0.16 0.04
Matches are distributed among these distances:
157 2 0.01
158 130 0.66
159 64 0.33
ACGTcount: A:0.37, C:0.11, G:0.19, T:0.33
Consensus pattern (159 bp):
GAATCCAAGTTTGTCTTATTTAAGGGATCAACTTTAATTTTAAGCAAAATGGTGGAAAGAAAAGC
TTTTCTTGCAAAACCAAAACATCAATATCATGTATCCCAATAAGGAGAATATCGTTATAGTTGCA
AATAATAAAAAGAATGGAAATTACTACAA
Found at i:986953 original size:154 final size:158
Alignment explanation
Indices: 986774--987206 Score: 400
Period size: 160 Copynumber: 2.7 Consensus size: 158
986764 CAATTATGGA
* * * * * * * *
986774 AAAAGAATGGATATTATCACTAGAATCCACA-TTTGTCTCATTTGAGGGATGAACTTTGATTCCA
1 AAAAGAATAGAGATTATTACAAGAATCCA-AGTTTATCTCATTTTAGGGATGAACTTTAATTCTA
* *
986838 AAGAAAATGGTG-GAAAAAAGCTTTTCTCCAAAAAATGAAGCATCAATATCATGTATCATATTGA
65 AAGAAAATGGTGAAAAAAAAGCTTTTCTCCAAAAAATGAAGCATCAATATCATGTATCATAATGA
* * *
986902 -GAACAT-T-TTTGTGGTGCCAAAACGTG
130 GGAAAATGTGTTTATGGTGCCAAAACATG
* * * * * *
986928 AAAAGGATAGAGATTATTATAAGAATCCAAGTTTATTTCATTTTAGGGTTGAAGTTTAACTCTAA
1 AAAAGAATAGAGATTATTACAAGAATCCAAGTTTATCTCATTTTAGGGATGAACTTTAATTCTAA
* * * ** * * *
986993 GGACAATGGTGAAAAAAAAAAGCTTTCTTATTGAAACAAA-GGAG--TTAATATCATGTATCCTA
66 AGAAAATGGTG--AAAAAAAAGC-TT-TTCTCCAAA-AAATGAAGCATCAATATCATGTATCATA
*
987055 ATGAGGAAAATGTGTTTATGGTGCCAAATCATG
126 ATGAGGAAAATGTGTTTATGGTGCCAAAACATG
* * * * * *
987088 AAATGAATGGGGATTATTACAAGAATCCAAGTTTTTCTTATTTTAGGGATGAACCTTAATTCTAA
1 AAAAGAATAGAGATTATTACAAGAATCCAAGTTTATCTCATTTTAGGGATGAACTTTAATTCTAA
*
987153 A-AAATATGGCAGAAAAAAAAGCTTTTCTTCC-AAAAATGAAGCATCAATATCATG
66 AGAAA-ATGG-TGAAAAAAAAGCTTTTC-TCCAAAAAATGAAGCATCAATATCATG
987207 CATCCCATTA
Statistics
Matches: 215, Mismatches: 48, Indels: 27
0.74 0.17 0.09
Matches are distributed among these distances:
153 1 0.00
154 58 0.27
156 3 0.01
157 34 0.16
158 10 0.05
159 32 0.15
160 76 0.35
161 1 0.00
ACGTcount: A:0.39, C:0.12, G:0.18, T:0.31
Consensus pattern (158 bp):
AAAAGAATAGAGATTATTACAAGAATCCAAGTTTATCTCATTTTAGGGATGAACTTTAATTCTAA
AGAAAATGGTGAAAAAAAAGCTTTTCTCCAAAAAATGAAGCATCAATATCATGTATCATAATGAG
GAAAATGTGTTTATGGTGCCAAAACATG
Found at i:987961 original size:32 final size:32
Alignment explanation
Indices: 987915--987992 Score: 120
Period size: 32 Copynumber: 2.4 Consensus size: 32
987905 TCTTTGCAAA
*
987915 CTAAAGAGTTAAAACCTTCCCAAAATATAAAG
1 CTAAGGAGTTAAAACCTTCCCAAAATATAAAG
*
987947 CTAAGGAGTTAAAACCTTCCTAAAATATAAAG
1 CTAAGGAGTTAAAACCTTCCCAAAATATAAAG
* *
987979 CTTAGGAATTAAAA
1 CTAAGGAGTTAAAA
987993 GTCAACTAAA
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
32 42 1.00
ACGTcount: A:0.49, C:0.15, G:0.12, T:0.24
Consensus pattern (32 bp):
CTAAGGAGTTAAAACCTTCCCAAAATATAAAG
Found at i:988002 original size:32 final size:32
Alignment explanation
Indices: 987936--988032 Score: 105
Period size: 32 Copynumber: 3.1 Consensus size: 32
987926 AAACCTTCCC
* *
987936 AAAATATAAAGCTAAGGAGTTAAAACCTTC--CT
1 AAAATATAAAGCTAAGGAATTAAAA--GTCAACT
*
987968 AAAATATAAAGCTTAGGAATTAAAAGTCAACT
1 AAAATATAAAGCTAAGGAATTAAAAGTCAACT
*
988000 AAAACATAAA---AAGGAATTAAAAGTCAACT
1 AAAATATAAAGCTAAGGAATTAAAAGTCAACT
988029 AAAA
1 AAAA
988033 CACTAAAGAA
Statistics
Matches: 58, Mismatches: 5, Indels: 7
0.83 0.07 0.10
Matches are distributed among these distances:
29 22 0.38
30 2 0.03
32 34 0.59
ACGTcount: A:0.56, C:0.11, G:0.11, T:0.22
Consensus pattern (32 bp):
AAAATATAAAGCTAAGGAATTAAAAGTCAACT
Found at i:988024 original size:29 final size:28
Alignment explanation
Indices: 987982--988065 Score: 116
Period size: 28 Copynumber: 3.0 Consensus size: 28
987972 TATAAAGCTT
987982 AGGAATTAAAAGTCAACTAAAACA-TAAAA
1 AGGAATTAAAAGTCAACTAAAACACT--AA
988011 AGGAATTAAAAGTCAACTAAAACACTAA
1 AGGAATTAAAAGTCAACTAAAACACTAA
* * *
988039 AGAAATTAAAAGTTAACTAAAATACTA
1 AGGAATTAAAAGTCAACTAAAACACTA
988066 GAACTTCCCT
Statistics
Matches: 51, Mismatches: 3, Indels: 3
0.89 0.05 0.05
Matches are distributed among these distances:
28 26 0.51
29 24 0.47
30 1 0.02
ACGTcount: A:0.60, C:0.11, G:0.10, T:0.20
Consensus pattern (28 bp):
AGGAATTAAAAGTCAACTAAAACACTAA
Found at i:1000654 original size:58 final size:58
Alignment explanation
Indices: 1000550--1000666 Score: 180
Period size: 58 Copynumber: 2.0 Consensus size: 58
1000540 AATAATAGGC
* *
1000550 CCATAAATATATGCAAATTGGGCTCCAGTCTTCTTGGACATATGAATTCGGCTCCAAG
1 CCATAAATACATGCAAATTGGGCTCCACTCTTCTTGGACATATGAATTCGGCTCCAAG
* * * *
1000608 CCATTAATACATGGAAATTGGGCTTCACTCTTCTTGGACATATGAATTGGGCTCCAAG
1 CCATAAATACATGCAAATTGGGCTCCACTCTTCTTGGACATATGAATTCGGCTCCAAG
1000666 C
1 C
1000667 TTTATTCTTC
Statistics
Matches: 53, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
58 53 1.00
ACGTcount: A:0.28, C:0.22, G:0.20, T:0.30
Consensus pattern (58 bp):
CCATAAATACATGCAAATTGGGCTCCACTCTTCTTGGACATATGAATTCGGCTCCAAG
Found at i:1007962 original size:42 final size:42
Alignment explanation
Indices: 1007909--1008027 Score: 195
Period size: 42 Copynumber: 2.8 Consensus size: 42
1007899 TTCTTCTCTC
1007909 CTCCTCCTATCATCCCTCCTCTCTCTAT-TATCTCTCCTGTCT
1 CTCCTCCTATCATCCCTCCTCTCTCT-TCTATCTCTCCTGTCT
* *
1007951 CTCCTCTTATCATCCCTCCTATCTCTTCTATCTCTCCTGTCT
1 CTCCTCCTATCATCCCTCCTCTCTCTTCTATCTCTCCTGTCT
*
1007993 CTCCTCCTATCATCCCTCCTCTCTCTTCTTTCTCT
1 CTCCTCCTATCATCCCTCCTCTCTCTTCTATCTCT
1008028 TTGAGGGCTA
Statistics
Matches: 71, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
41 1 0.01
42 70 0.99
ACGTcount: A:0.08, C:0.45, G:0.02, T:0.45
Consensus pattern (42 bp):
CTCCTCCTATCATCCCTCCTCTCTCTTCTATCTCTCCTGTCT
Found at i:1011914 original size:58 final size:58
Alignment explanation
Indices: 1011810--1011927 Score: 166
Period size: 58 Copynumber: 2.0 Consensus size: 58
1011800 AACAATAGGC
* * *
1011810 CCATAAATATATGCAAATTGGGCTCTAGTCTTCTTAGACATGTGAATTGGGCTCCAAG
1 CCATAAATACATGCAAATTGGGCTCTACTCTTCTTAGACATATGAATTGGGCTCCAAG
* * *
1011868 CCATGAATACATGCAAATTGGGCT-TCACTCTTCTTGGACATATGAATTGGGCTCCGAG
1 CCATAAATACATGCAAATTGGGCTCT-ACTCTTCTTAGACATATGAATTGGGCTCCAAG
1011926 CC
1 CC
1011928 TTATTCTTCA
Statistics
Matches: 53, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
57 1 0.02
58 52 0.98
ACGTcount: A:0.27, C:0.22, G:0.21, T:0.30
Consensus pattern (58 bp):
CCATAAATACATGCAAATTGGGCTCTACTCTTCTTAGACATATGAATTGGGCTCCAAG
Found at i:1013205 original size:103 final size:104
Alignment explanation
Indices: 1013072--1013293 Score: 356
Period size: 103 Copynumber: 2.1 Consensus size: 104
1013062 TGAAAGGCAA
* * * ** *
1013072 GGTTAGAGTATCCCCTTGGAAATATGGGGTTAGAGTATCCCTGTGGATGACAAATAATTTTGACA
1 GGTTGGAGTATCCCCTTAGAAAGATGGGGTTAGAGTATCCCCATGGATGACAAACAATTTTGACA
*
1013137 AAGGAAAAGTTTAAATCTTGACAAATTTCAAAGAGC-GG
66 AAGGAAAAGTTCAAATCTTGACAAATTTCAAAGAGCAGG
*
1013175 GGTTGGAGTATCCCCTTAGAAAGATGGGGTTGGAGTATCCCCATGGATGACAAACAATTTTGACA
1 GGTTGGAGTATCCCCTTAGAAAGATGGGGTTAGAGTATCCCCATGGATGACAAACAATTTTGACA
1013240 AAGGAAAAGTTCAAATCTTGACAAATTTCAAAGAGCAGG
66 AAGGAAAAGTTCAAATCTTGACAAATTTCAAAGAGCAGG
*
1013279 GTTTGGAGTATCCCC
1 GGTTGGAGTATCCCC
1013294 GTGAATAAAA
Statistics
Matches: 109, Mismatches: 9, Indels: 1
0.92 0.08 0.01
Matches are distributed among these distances:
103 93 0.85
104 16 0.15
ACGTcount: A:0.34, C:0.15, G:0.25, T:0.27
Consensus pattern (104 bp):
GGTTGGAGTATCCCCTTAGAAAGATGGGGTTAGAGTATCCCCATGGATGACAAACAATTTTGACA
AAGGAAAAGTTCAAATCTTGACAAATTTCAAAGAGCAGG
Found at i:1022643 original size:27 final size:26
Alignment explanation
Indices: 1022613--1022665 Score: 61
Period size: 27 Copynumber: 2.0 Consensus size: 26
1022603 CTTAGAATGA
* *
1022613 GATGCCACCGGCTTATGTAGGCTTTTG
1 GATGCCACCAGCTCATGTAGG-TTTTG
* *
1022640 GATGTCGCCAGCTCATGTAGGTTTTG
1 GATGCCACCAGCTCATGTAGGTTTTG
1022666 AAAGGGTACC
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
26 5 0.23
27 17 0.77
ACGTcount: A:0.15, C:0.21, G:0.30, T:0.34
Consensus pattern (26 bp):
GATGCCACCAGCTCATGTAGGTTTTG
Found at i:1022702 original size:28 final size:28
Alignment explanation
Indices: 1022662--1022744 Score: 94
Period size: 28 Copynumber: 2.9 Consensus size: 28
1022652 TCATGTAGGT
* * *
1022662 TTTGAAAGGGTACCACTAACTTGTGGGC
1 TTTGAAAAGGTACCACTGACTTGTGGAC
**
1022690 TTTGAAAAGGTACCGTTGACTTATGTGGAC
1 TTTGAAAAGGTACCACTGAC-T-TGTGGAC
1022720 TTTGAAAAGGGTACCACTGACTTGT
1 TTTGAAAA-GGTACCACTGACTTGT
1022745 AGGTGCTGTT
Statistics
Matches: 45, Mismatches: 7, Indels: 5
0.79 0.12 0.09
Matches are distributed among these distances:
28 16 0.36
29 4 0.09
30 15 0.33
31 10 0.22
ACGTcount: A:0.27, C:0.16, G:0.27, T:0.31
Consensus pattern (28 bp):
TTTGAAAAGGTACCACTGACTTGTGGAC
Found at i:1022794 original size:29 final size:29
Alignment explanation
Indices: 1022761--1022866 Score: 151
Period size: 29 Copynumber: 3.7 Consensus size: 29
1022751 TGTTGACTTA
* * *
1022761 TGTGGACTTTGAAAAGGGTACCACTAACT
1 TGTGGGCTTTAAAAAGGGTGCCACTAACT
1022790 TGTGGGCTTTAAAAAGGGTGCCACTAACT
1 TGTGGGCTTTAAAAAGGGTGCCACTAACT
* *
1022819 TGTGGGCTTTGAAAAA-GGTGCCATTGACT
1 TGTGGGCTTT-AAAAAGGGTGCCACTAACT
1022848 TGTGGGCTTTAAAAAGGGT
1 TGTGGGCTTTAAAAAGGGT
1022867 TTGGTTGCCA
Statistics
Matches: 70, Mismatches: 5, Indels: 4
0.89 0.06 0.05
Matches are distributed among these distances:
28 5 0.07
29 60 0.86
30 5 0.07
ACGTcount: A:0.27, C:0.14, G:0.29, T:0.29
Consensus pattern (29 bp):
TGTGGGCTTTAAAAAGGGTGCCACTAACT
Found at i:1023511 original size:13 final size:12
Alignment explanation
Indices: 1023466--1023521 Score: 76
Period size: 12 Copynumber: 4.5 Consensus size: 12
1023456 ATGAAAGGGC
1023466 CTTGACAAAGTT
1 CTTGACAAAGTT
1023478 CTTGACAAAGTT
1 CTTGACAAAGTT
*
1023490 TTTGACAAATGTT
1 CTTGACAAA-GTT
*
1023503 CTGGACAAAAGTT
1 CTTGAC-AAAGTT
1023516 CTTGAC
1 CTTGAC
1023522 GATAGTTTCT
Statistics
Matches: 38, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
12 20 0.53
13 15 0.39
14 3 0.08
ACGTcount: A:0.32, C:0.16, G:0.18, T:0.34
Consensus pattern (12 bp):
CTTGACAAAGTT
Found at i:1023943 original size:28 final size:28
Alignment explanation
Indices: 1023877--1023944 Score: 100
Period size: 28 Copynumber: 2.4 Consensus size: 28
1023867 TTTTCCTGAT
* * *
1023877 TCCACTGAGGATTGTAGGTTGTCCAAGC
1 TCCACTGGGGATTGCAGGTTGTCCAAAC
*
1023905 TCCACTAGGGATTGCAGGTTGTCCAAAC
1 TCCACTGGGGATTGCAGGTTGTCCAAAC
1023933 TCCACTGGGGAT
1 TCCACTGGGGAT
1023945 ATGACTTAAA
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 35 1.00
ACGTcount: A:0.22, C:0.24, G:0.28, T:0.26
Consensus pattern (28 bp):
TCCACTGGGGATTGCAGGTTGTCCAAAC
Found at i:1029014 original size:32 final size:32
Alignment explanation
Indices: 1028973--1029077 Score: 210
Period size: 32 Copynumber: 3.3 Consensus size: 32
1028963 TAGTGATATG
1028973 CAAAGCTTTATAAACCATTCTTTATGGCAAAT
1 CAAAGCTTTATAAACCATTCTTTATGGCAAAT
1029005 CAAAGCTTTATAAACCATTCTTTATGGCAAAT
1 CAAAGCTTTATAAACCATTCTTTATGGCAAAT
1029037 CAAAGCTTTATAAACCATTCTTTATGGCAAAT
1 CAAAGCTTTATAAACCATTCTTTATGGCAAAT
1029069 CAAAGCTTT
1 CAAAGCTTT
1029078 GCATATCACT
Statistics
Matches: 73, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 73 1.00
ACGTcount: A:0.37, C:0.19, G:0.10, T:0.34
Consensus pattern (32 bp):
CAAAGCTTTATAAACCATTCTTTATGGCAAAT
Found at i:1029015 original size:18 final size:18
Alignment explanation
Indices: 1028992--1029077 Score: 62
Period size: 18 Copynumber: 5.2 Consensus size: 18
1028982 ATAAACCATT
1028992 CTTTATGGCAAATCAAAG
1 CTTTATGGCAAATCAAAG
* **
1029010 CTTTAT---AAA-CCATT
1 CTTTATGGCAAATCAAAG
1029024 CTTTATGGCAAATCAAAG
1 CTTTATGGCAAATCAAAG
* **
1029042 CTTTAT---AAA-CCATT
1 CTTTATGGCAAATCAAAG
1029056 CTTTATGGCAAATCAAAG
1 CTTTATGGCAAATCAAAG
1029074 CTTT
1 CTTT
1029078 GCATATCACT
Statistics
Matches: 48, Mismatches: 12, Indels: 16
0.63 0.16 0.21
Matches are distributed among these distances:
14 16 0.33
15 6 0.12
17 6 0.12
18 20 0.42
ACGTcount: A:0.36, C:0.19, G:0.10, T:0.35
Consensus pattern (18 bp):
CTTTATGGCAAATCAAAG
Found at i:1035497 original size:103 final size:103
Alignment explanation
Indices: 1035323--1035535 Score: 293
Period size: 103 Copynumber: 2.1 Consensus size: 103
1035313 TGGATACTTT
* *
1035323 AACCCCAACCTTTCGATGGGATACTCCAACCTCGCTCTTCAAAACTTATCTAGATTTGAACTCCT
1 AACCCCAACCTTTCGAGGGGATACTCCAACCTCGCTCTTCAAAACTTATCAAGATTTGAACTCCT
*
1035388 CCTTTGTCAAAATTATTTGTTAGCCATGGAAATACTCC
66 CCTTTGTCAAAATCATTTGTTAGCCATGGAAATACTCC
* * * *
1035426 AACCCTAACCTTTTGAGGGGATACTCCAACGTCGCTCTTCAAAATTTATCAAGATTTGAACT-CT
1 AACCCCAACCTTTCGAGGGGATACTCCAACCTCGCTCTTCAAAACTTATCAAGATTTGAACTCCT
** * * **
1035490 GTTTTTGTCAAAATCATTTGTTATCCCTGGGGATACTCC
66 -CCTTTGTCAAAATCATTTGTTAGCCATGGAAATACTCC
1035529 AACCCCA
1 AACCCCA
1035536 TCTTCTGAGG
Statistics
Matches: 95, Mismatches: 14, Indels: 2
0.86 0.13 0.02
Matches are distributed among these distances:
102 2 0.02
103 93 0.98
ACGTcount: A:0.28, C:0.27, G:0.13, T:0.32
Consensus pattern (103 bp):
AACCCCAACCTTTCGAGGGGATACTCCAACCTCGCTCTTCAAAACTTATCAAGATTTGAACTCCT
CCTTTGTCAAAATCATTTGTTAGCCATGGAAATACTCC
Found at i:1042450 original size:27 final size:27
Alignment explanation
Indices: 1042412--1042465 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
1042402 GGATAGGTTA
1042412 GGGACCAGATGTTGCTGCCAATCCTTT
1 GGGACCAGATGTTGCTGCCAATCCTTT
1042439 GGGACCAGATGTTGCTGCCAATCCTTT
1 GGGACCAGATGTTGCTGCCAATCCTTT
1042466 ACGAAACAAC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.19, C:0.26, G:0.26, T:0.30
Consensus pattern (27 bp):
GGGACCAGATGTTGCTGCCAATCCTTT
Found at i:1045882 original size:52 final size:52
Alignment explanation
Indices: 1045824--1045963 Score: 217
Period size: 52 Copynumber: 2.7 Consensus size: 52
1045814 AACTGCTTGC
** * * *
1045824 ATGTATCGATACGTTGAAGAATGTATCAACACATTTAGGTCAAAAACCCAGA
1 ATGTATCGATACAATGAAAAATGTATCGATACATTTAGGTCAAAAACCCAGA
* *
1045876 GTGTATCGATACAATGAAAAATGTATCGATACATTTAGGTCAAAAACCCATA
1 ATGTATCGATACAATGAAAAATGTATCGATACATTTAGGTCAAAAACCCAGA
1045928 ATGTATCGATACAATGAAAAATGTATCGATACATTT
1 ATGTATCGATACAATGAAAAATGTATCGATACATTT
1045964 TCTTCCTAGA
Statistics
Matches: 80, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
52 80 1.00
ACGTcount: A:0.41, C:0.15, G:0.16, T:0.28
Consensus pattern (52 bp):
ATGTATCGATACAATGAAAAATGTATCGATACATTTAGGTCAAAAACCCAGA
Found at i:1046054 original size:20 final size:21
Alignment explanation
Indices: 1046029--1046071 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 21
1046019 TAAGTATTGC
*
1046029 TACATTTACTTA-TATATCGA
1 TACATTCACTTATTATATCGA
*
1046049 TACATTCACTTATTGTATCGA
1 TACATTCACTTATTATATCGA
1046070 TA
1 TA
1046072 GAAATTGTAG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 11 0.55
21 9 0.45
ACGTcount: A:0.33, C:0.16, G:0.07, T:0.44
Consensus pattern (21 bp):
TACATTCACTTATTATATCGA
Found at i:1051910 original size:11 final size:10
Alignment explanation
Indices: 1051892--1051934 Score: 52
Period size: 11 Copynumber: 4.1 Consensus size: 10
1051882 AATCCTTCAT
1051892 AAAAAAATCA
1 AAAAAAATCA
1051902 AATAAAAATCA
1 AA-AAAAATCA
1051913 CAAAAAAAGTC-
1 -AAAAAAA-TCA
1051924 AAAAAAATCA
1 AAAAAAATCA
1051934 A
1 A
1051935 TCAAAATATA
Statistics
Matches: 29, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
9 2 0.07
10 10 0.34
11 13 0.45
12 4 0.14
ACGTcount: A:0.74, C:0.12, G:0.02, T:0.12
Consensus pattern (10 bp):
AAAAAAATCA
Found at i:1053265 original size:52 final size:51
Alignment explanation
Indices: 1053182--1053871 Score: 331
Period size: 52 Copynumber: 13.0 Consensus size: 51
1053172 CATGTCAAAA
* **
1053182 TTTATCATCTCTAAAACTAATGTCGCTGGCCTTGAATTAGCACATTGGCACC
1 TTTATCATCTTTAAGTCTAATGTCG-TGGCCTTGAATTAGCACATTGGCACC
* *
1053234 TTTATCATCTTTAAGTCTAATGTCGTGGGCCTT-AGATCAACACATTGGCACC
1 TTTATCATCTTTAAGTCTAATGTCGT-GGCCTTGA-ATTAGCACATTGGCACC
* * * * *
1053286 CTTACCATCTTTAAGTCTAATGTCGTTGGCCTTGGATTAGAATC-TTAGCACC
1 TTTATCATCTTTAAGTCTAATGTCG-TGGCCTTGAATTAGCA-CATTGGCACC
* * * * *
1053338 TTCATCATCTTTAAGTCCAATGTCGCTAGCCTTGAATCAGCACATTAGCACC
1 TTTATCATCTTTAAGTCTAATGTCG-TGGCCTTGAATTAGCACATTGGCACC
* * *
1053390 TTTGTCATCTCTAAGTCCATCTAAGTCCAATGTCGTTGGCCTT-AGATAAGCACATTGGCACC
1 -TT-T-A--TC--A-T-C-TTTAAGTCTAATGTCG-TGGCCTTGA-ATTAGCACATTGGCACC
* * * * *
1053452 TTTGTCATCTCTAAGTCCAATGTCCCTGGCCTTGGATTAGCACATTGGCACC
1 TTTATCATCTTTAAGTCTAATGT-CGTGGCCTTGAATTAGCACATTGGCACC
* * * * * * * * *
1053504 TTTTTCATATCTAAGACTAATGTCACTGGCCTTGGATCAGCACAGTGGCATC
1 TTTATCATCTTTAAGTCTAATGTC-GTGGCCTTGAATTAGCACATTGGCACC
* * ** * * * *
1053556 TTTGTCATCTCTAAAAACTAATGTCATTGGCTTTGGATCAGCACATTGGCACC
1 TTTATCATCT-TTAAGTCTAATGTC-GTGGCCTTGAATTAGCACATTGGCACC
* * ** * * * * * *
1053609 TTTGTCATCTCTAAAAAAACCAGTGTCGTTGGCCTTGGATCAACACATTAGCACC
1 TTTATCATCT-T--TAAGTCTAATGTCG-TGGCCTTGAATTAGCACATTGGCACC
* ** ** * * *
1053664 TTTGTCACCTCTAAAAAAACCAGTGTCGTTGGCCATGAATTAGCACATTGGCACC
1 TTTATCA--TCT-TTAAGTCTAATGTCG-TGGCCTTGAATTAGCACATTGGCACC
* * *
1053719 CTTATCATCTTTAAGACTAATGTCGCTGGCC-TAAGATTAGCACATTGGCACC
1 TTTATCATCTTTAAGTCTAATGTCG-TGGCCTTGA-ATTAGCACATTGGCACC
** *
1053771 TTTA-CTATCCGTAAGT-TCAAT-TCGCTGG-CTTG-ATTCAGCACATTGACA-C
1 TTTATC-ATCTTTAAGTCT-AATGTCG-TGGCCTTGAATT-AGCACATTGGCACC
* * * * *
1053820 TTGTGTCATCTTTAAGTCCAATGTCATAAGCCTTGAATCT-GCACGTTGGCAC
1 TT-TATCATCTTTAAGTCTAATGTCGT-GGCCTTGAAT-TAGCACATTGGCAC
1053872 ATTTGTCAAA
Statistics
Matches: 515, Mismatches: 83, Indels: 79
0.76 0.12 0.12
Matches are distributed among these distances:
49 6 0.01
50 25 0.05
51 20 0.04
52 270 0.52
53 58 0.11
54 2 0.00
55 84 0.16
57 7 0.01
59 1 0.00
60 2 0.00
61 4 0.01
62 36 0.07
ACGTcount: A:0.25, C:0.25, G:0.17, T:0.32
Consensus pattern (51 bp):
TTTATCATCTTTAAGTCTAATGTCGTGGCCTTGAATTAGCACATTGGCACC
Found at i:1053399 original size:104 final size:104
Alignment explanation
Indices: 1053182--1053844 Score: 440
Period size: 104 Copynumber: 6.2 Consensus size: 104
1053172 CATGTCAAAA
* ** *
1053182 TTTATCATCTCTAAAACTAATGTCGCTGGCCTTGAATTAGCACATTGGCACCTTTATCATCTTTA
1 TTTATCATCTTTAAGTCTAATGTCGCTGGCCTTGGATTAGCACATTGGCACCTTTATCATCTTTA
* *
1053247 AGTCTAATGTCG-TGGGCCTT-AGATCAACACATTGGCACC
66 AGTCCAATGTCGCT-GGCCTTGA-ATCAGCACATTGGCACC
* * * * * *
1053286 CTTACCATCTTTAAGTCTAATGTCGTTGGCCTTGGATTAGAATC-TTAGCACCTTCATCATCTTT
1 TTTATCATCTTTAAGTCTAATGTCGCTGGCCTTGGATTAGCA-CATTGGCACCTTTATCATCTTT
* *
1053350 AAGTCCAATGTCGCTAGCCTTGAATCAGCACATTAGCACC
65 AAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACC
* * * * *
1053390 TTTGTCATCTCTAAGTCCATCTAAGTCCAATGTCGTTGGCCTTAGATAAGCACATTGGCACCTTT
1 -TT-T-A--TC--A-T-C-TTTAAGTCTAATGTCGCTGGCCTTGGATTAGCACATTGGCACCTTT
* * * * *
1053455 GTCATCTCTAAGTCCAATGTCCCTGGCCTTGGATTAGCACATTGGCACC
56 ATCATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACC
* * * * * * * * * *
1053504 TTTTTCATATCTAAGACTAATGTCACTGGCCTTGGATCAGCACAGTGGCATCTTTGTCATCTCTA
1 TTTATCATCTTTAAGTCTAATGTCGCTGGCCTTGGATTAGCACATTGGCACCTTTATCATCT-TT
** * ** * *
1053569 AAAACTAATGTCATTGGCTTTGGATCAGCACATTGGCACC
65 AAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACC
* * ** * * * * * * *
1053609 TTTGTCATCTCTAAAAAAACCAGTGTCGTTGGCCTTGGATCAACACATTAGCACCTTTGTCACCT
1 TTTATCATCT-T--TAAGTCTAATGTCGCTGGCCTTGGATTAGCACATTGGCACCTTTATCA--T
** ** * * * *
1053674 CTAAAAAAACCAGTGTCGTTGGCCATGAATTAGCACATTGGCACC
61 CT-TTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACC
* * ** **
1053719 CTTATCATCTTTAAGACTAATGTCGCTGGCCTAAGATTAGCACATTGGCACCTTTA-CTATCCGT
1 TTTATCATCTTTAAGTCTAATGTCGCTGGCCTTGGATTAGCACATTGGCACCTTTATC-ATCTTT
* * *
1053783 AAGTTCAAT-TCGCTGG-CTTGATTCAGCACATTGACA-C
65 AAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACC
* *
1053820 TTGTGTCATCTTTAAGTCCAATGTC
1 TT-TATCATCTTTAAGTCTAATGTC
1053845 ATAAGCCTTG
Statistics
Matches: 437, Mismatches: 100, Indels: 46
0.75 0.17 0.08
Matches are distributed among these distances:
101 2 0.00
102 35 0.08
103 6 0.01
104 134 0.31
105 47 0.11
106 3 0.01
107 37 0.08
108 38 0.09
109 4 0.01
110 45 0.10
111 1 0.00
112 2 0.00
113 4 0.01
114 79 0.18
ACGTcount: A:0.25, C:0.25, G:0.17, T:0.33
Consensus pattern (104 bp):
TTTATCATCTTTAAGTCTAATGTCGCTGGCCTTGGATTAGCACATTGGCACCTTTATCATCTTTA
AGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACC
Found at i:1053420 original size:62 final size:62
Alignment explanation
Indices: 1053349--1053470 Score: 192
Period size: 62 Copynumber: 2.0 Consensus size: 62
1053339 TCATCATCTT
*
1053349 TAAGTCCAATGTCGCTAGCCTT-GAATCAGCACATTAGCACCTTTGTCATCTCTAAGTCCATC
1 TAAGTCCAATGTCGCTAGCCTTAG-ATAAGCACATTAGCACCTTTGTCATCTCTAAGTCCATC
* * *
1053411 TAAGTCCAATGTCGTTGGCCTTAGATAAGCACATTGGCACCTTTGTCATCTCTAAGTCCA
1 TAAGTCCAATGTCGCTAGCCTTAGATAAGCACATTAGCACCTTTGTCATCTCTAAGTCCA
1053471 ATGTCCCTGG
Statistics
Matches: 55, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
62 54 0.98
63 1 0.02
ACGTcount: A:0.25, C:0.27, G:0.16, T:0.31
Consensus pattern (62 bp):
TAAGTCCAATGTCGCTAGCCTTAGATAAGCACATTAGCACCTTTGTCATCTCTAAGTCCATC
Found at i:1053545 original size:166 final size:166
Alignment explanation
Indices: 1053245--1053569 Score: 411
Period size: 166 Copynumber: 2.0 Consensus size: 166
1053235 TTATCATCTT
* * *
1053245 TAAGTCTAATGTCGTGGGCCTTAGATCAACACATTGGCACCCTTACCATCTTTAAGTCTAATGTC
1 TAAGTCCAATGTCGTGGGCCTTAGATCAACACATTGGCACCCTTACCATCTCTAAGTCCAATGTC
** * * * *
1053310 GTTGGCCTTGGATTAGAATCTTAGCACCTTCATCATCTTTAAGTCCAATGTCGCTAGCCTTGAAT
66 CCTGGCCTTGGATTAGAATCTTAGCACCTTCATCATATCTAAGACCAATGTCACTAGCCTTGAAT
*
1053375 CAGCACATTAGCACCTTTGTCATCTCTAAGTCCATC
131 CAGCACAGTAGCACCTTTGTCATCTCTAAGTCCATC
* * **
1053411 TAAGTCCAATGTCGTTGGCCTTAGAT-AAGCACATTGGCACCTTTGTCATCTCTAAGTCCAATGT
1 TAAGTCCAATGTCGTGGGCCTTAGATCAA-CACATTGGCACCCTTACCATCTCTAAGTCCAATGT
* * ** * * *
1053475 CCCTGGCCTTGGATTAGCA-CATTGGCACCTTTTTCATATCTAAGACTAATGTCACTGGCCTTGG
65 CCCTGGCCTTGGATTAGAATC-TTAGCACCTTCATCATATCTAAGACCAATGTCACTAGCCTTGA
* *
1053539 ATCAGCACAGTGGCATCTTTGTCATCTCTAA
129 ATCAGCACAGTAGCACCTTTGTCATCTCTAA
1053570 AAACTAATGT
Statistics
Matches: 134, Mismatches: 23, Indels: 4
0.83 0.14 0.02
Matches are distributed among these distances:
165 3 0.02
166 131 0.98
ACGTcount: A:0.24, C:0.26, G:0.18, T:0.33
Consensus pattern (166 bp):
TAAGTCCAATGTCGTGGGCCTTAGATCAACACATTGGCACCCTTACCATCTCTAAGTCCAATGTC
CCTGGCCTTGGATTAGAATCTTAGCACCTTCATCATATCTAAGACCAATGTCACTAGCCTTGAAT
CAGCACAGTAGCACCTTTGTCATCTCTAAGTCCATC
Found at i:1053656 original size:55 final size:53
Alignment explanation
Indices: 1053416--1053773 Score: 344
Period size: 52 Copynumber: 6.7 Consensus size: 53
1053406 CCATCTAAGT
* * **
1053416 CCAATGTCGTTGGCCTTAGATAAGCACATTGGCACCTTTGTCATCTCT-AAGT
1 CCAATGTCGTTGGCCTTGGATCAGCACATTGGCACCTTTGTCATCTCTAAAAA
** * * * *
1053468 CCAATGTCCCTGGCCTTGGATTAGCACATTGGCACCTTTTTCATATCT-AAGA
1 CCAATGTCGTTGGCCTTGGATCAGCACATTGGCACCTTTGTCATCTCTAAAAA
* ** * *
1053520 CTAATGTCACTGGCCTTGGATCAGCACAGTGGCATCTTTGTCATCTCTAAAAA
1 CCAATGTCGTTGGCCTTGGATCAGCACATTGGCACCTTTGTCATCTCTAAAAA
* * *
1053573 CTAATGTCATTGGCTTTGGATCAGCACATTGGCACCTTTGTCATCTCTAAAAAAA
1 CCAATGTCGTTGGCCTTGGATCAGCACATTGGCACCTTTGTCATCTCT--AAAAA
* * * *
1053628 CCAGTGTCGTTGGCCTTGGATCAACACATTAGCACCTTTGTCACCTCTAAAAAAA
1 CCAATGTCGTTGGCCTTGGATCAGCACATTGGCACCTTTGTCATCTCT--AAAAA
* * * * * * * *
1053683 CCAGTGTCGTTGGCCATGAATTAGCACATTGGCACCCTTATCATCT-TTAAGA
1 CCAATGTCGTTGGCCTTGGATCAGCACATTGGCACCTTTGTCATCTCTAAAAA
* * ** *
1053735 CTAATGTCGCTGGCCTAAGATTAGCACATTGGCACCTTT
1 CCAATGTCGTTGGCCTTGGATCAGCACATTGGCACCTTT
1053774 ACTATCCGTA
Statistics
Matches: 259, Mismatches: 44, Indels: 6
0.84 0.14 0.02
Matches are distributed among these distances:
52 120 0.46
53 47 0.18
54 1 0.00
55 91 0.35
ACGTcount: A:0.26, C:0.25, G:0.18, T:0.31
Consensus pattern (53 bp):
CCAATGTCGTTGGCCTTGGATCAGCACATTGGCACCTTTGTCATCTCTAAAAA
Found at i:1062539 original size:103 final size:104
Alignment explanation
Indices: 1062317--1062548 Score: 319
Period size: 103 Copynumber: 2.2 Consensus size: 104
1062307 TATTAAAAAT
* * * * *
1062317 TTATTCACGAGGATACTCCAA-CCTCGACCTTTC-GAGGGGATACTCCAACCTTGCTCTTCAAAA
1 TTATCCACGAGGATACTCCAACCCT-AACTTTTCAAAGGGGATACTCCAACCTCGCTCTTCAAAA
* * *
1062380 CTTATCTAGATTTGAATTCCTTCTTTGTCAAAATTATTTG
65 CTTATCAAGATTTGAACTCCTTCTTTGTCAAAATTATTTA
* *
1062420 TTATCCACGAGGATACTCTAACCCTAACTTTTCAAAGGGGATACTCCAACCTCGCTCTTCAAAAT
1 TTATCCACGAGGATACTCCAACCCTAACTTTTCAAAGGGGATACTCCAACCTCGCTCTTCAAAAC
1062485 TTATCAAGATTTGAACTCCTT-TTTGTCAAAATTATTTA
66 TTATCAAGATTTGAACTCCTTCTTTGTCAAAATTATTTA
*
1062523 TTATCCATG-GGAATACTCCAACCCTA
1 TTATCCACGAGG-ATACTCCAACCCTA
1062549 TGTTCTGAGG
Statistics
Matches: 114, Mismatches: 12, Indels: 6
0.86 0.09 0.05
Matches are distributed among these distances:
102 2 0.02
103 62 0.54
104 50 0.44
ACGTcount: A:0.29, C:0.25, G:0.12, T:0.34
Consensus pattern (104 bp):
TTATCCACGAGGATACTCCAACCCTAACTTTTCAAAGGGGATACTCCAACCTCGCTCTTCAAAAC
TTATCAAGATTTGAACTCCTTCTTTGTCAAAATTATTTA
Found at i:1072109 original size:157 final size:158
Alignment explanation
Indices: 1071781--1072135 Score: 351
Period size: 157 Copynumber: 2.2 Consensus size: 158
1071771 GAGAAACACA
* *
1071781 TTCTCCTCATTAGGATACATGATATTGATGCTTTGGTTTCATAAGGAAAGCATTTCTTTCCACCA
1 TTCTCCTCATTAGGATACATGATATTGATGCTTTAGTTTCATAAGGAAAGCATTTCTCTCCACCA
* * * * * * * *
1071846 TATTCCTCATAATGAAAATTCATCCCTCAATTGACACAAACTTGGATTCTAGTAGTAATTTCAAA
66 TATTCCTCAGAATCAAAATTCATCACTCAAATGACACAAACATGGATTCTAGAAATAATCTCAAA
* * **
1071911 TCTTTTCATGATTTGGCACCATAAATGCG
131 TCTTTGCATGATTAGGCA-CATAAAAACG
** * *
1071940 TTCTTTTTATTAGGATACATGA-ATTGATG-TTTAGTTTCATAA-GAAAGACTTTTCTCTCTCA-
1 TTCTCCTCATTAGGATACATGATATTGATGCTTTAGTTTCATAAGGAAAG-CATTTCTCTC-CAC
* * * * * * * *
1072001 CATTTTTCTTAGAATCAAAGTTCATCATTCAAATGAGACAGACATGGATTCTTGAAATAATCTCA
64 CATATTCCTCAGAATCAAAATTCATCACTCAAATGACACAAACATGGATTCTAGAAATAATCTCA
* *
1072066 ATTCTTTGCCTGATTAGGCA-ATAAAAACATG
129 AATCTTTGCATGATTAGGCACATAAAAAC--G
* * *
1072097 TTCTCCTCATTAGGATACATGATACTAAGGCTTTAGTTT
1 TTCTCCTCATTAGGATACATGATATTGATGCTTTAGTTT
1072136 TACAGGAAAA
Statistics
Matches: 156, Mismatches: 34, Indels: 12
0.77 0.17 0.06
Matches are distributed among these distances:
155 6 0.04
156 5 0.03
157 105 0.67
158 13 0.08
159 27 0.17
ACGTcount: A:0.31, C:0.18, G:0.14, T:0.38
Consensus pattern (158 bp):
TTCTCCTCATTAGGATACATGATATTGATGCTTTAGTTTCATAAGGAAAGCATTTCTCTCCACCA
TATTCCTCAGAATCAAAATTCATCACTCAAATGACACAAACATGGATTCTAGAAATAATCTCAAA
TCTTTGCATGATTAGGCACATAAAAACG
Found at i:1074290 original size:152 final size:154
Alignment explanation
Indices: 1073847--1074365 Score: 353
Period size: 152 Copynumber: 3.3 Consensus size: 154
1073837 TAGGATATTA
* * * * * * * *
1073847 ATGCTTTGATTTGGCAA-AAAAAGATTTTCTTTCCACCTTTTTCCTTTGAATCTAAGTTTATCCC
1 ATGCTTTGGTTTAGCAAGAAAAA-CTTTTCTTTCCACCATTTTCCTTAGAATCAAAGCTCATCCC
* * * * * *
1073911 TCAAATGAGACAAATATTG-ATTCT-CGTGATAATATCCACTCTTTTT-GTGTTTGGGCAAC-AA
65 TCAAATGAGAC-AA-ATTGAATTTTGC-TAATAATCTCCAAT-TTTTTCATGATTGGGCAACTAA
* * * * *
1073972 AAACAGGTACTCTTC-ATTAGGAAACATAATATTG
126 AGACA--T--T-TTCTA-TAGGATACATGAGATCG
* * * *
1074006 ATGCTTTAGTTTCA-CAAGGAAAGCTTTTCTTTCCACCATTTTCCTTAGAATGAAAGCTCATCCC
1 ATGCTTTGGTTT-AGCAAGAAAAACTTTTCTTTCCACCATTTTCCTTAGAATCAAAGCTCATCCC
* * * * * ** * *
1074070 TTAAATGAGACAACTTGGATTTTGCTAGTAATTTTGAATTTTTTCATGATTTGGCACCTTAAAGA
65 TCAAATGAGACAAATTGAATTTTGCTAATAATCTCCAATTTTTTCATGATTGGGCAAC-TAAAGA
*
1074135 CATTTTC-A-A-GATATATGAGATCG
129 CATTTTCTATAGGATACATGAGATCG
* * **
1074158 ATGCTTTGGTTTTGCAAGAAAAACTTTTCTTTCCACCATTTTCCTTATAATCAAAGCTTGTCCCT
1 ATGCTTTGGTTTAGCAAGAAAAACTTTTCTTTCCACCATTTTCCTTAGAATCAAAGCTCATCCCT
* *
1074223 CAAATGAGACAAATATGAATTCTTGC-AATAATCTCCATTCTTTTTACTTGATTGGGCAAC-AAA
66 CAAATGAGACAAAT-TGAATT-TTGCTAATAATCTCCAAT-TTTTT-CATGATTGGGCAACTAAA
* **
1074286 -ACATTTTCTTATTAGGATACATGATATTA
127 GACATTTTC-TA-TAGGATACATGAGATCG
* * * * *
1074315 ATGCTTTGGCTTAGCAACAAAACCCTTTCTTTCCACCATTTTCCTTGGAAT
1 ATGCTTTGGTTTAGCAAGAAAAACTTTTCTTTCCACCATTTTCCTTAGAAT
1074366 TAATTAACGT
Statistics
Matches: 282, Mismatches: 61, Indels: 36
0.74 0.16 0.09
Matches are distributed among these distances:
152 85 0.30
153 17 0.06
154 10 0.04
155 15 0.05
156 2 0.01
157 62 0.22
158 24 0.09
159 58 0.21
160 9 0.03
ACGTcount: A:0.30, C:0.19, G:0.13, T:0.38
Consensus pattern (154 bp):
ATGCTTTGGTTTAGCAAGAAAAACTTTTCTTTCCACCATTTTCCTTAGAATCAAAGCTCATCCCT
CAAATGAGACAAATTGAATTTTGCTAATAATCTCCAATTTTTTCATGATTGGGCAACTAAAGACA
TTTTCTATAGGATACATGAGATCG
Found at i:1077941 original size:65 final size:66
Alignment explanation
Indices: 1077860--1077990 Score: 228
Period size: 65 Copynumber: 2.0 Consensus size: 66
1077850 CAATGAAAGA
*
1077860 ATGCAAAACATGATTCATCAATCTCATAAAAGTGCTTGGTGCATTAGTTAAA-CAAACGACATCA
1 ATGCAAAACATGATTCATCAATCTCATAAAAGTGCTCGGTGCATTAGTTAAACCAAACGACATCA
1077924 C
66 C
* *
1077925 ATGCAAAACATGATTCATCAATCTCGTAAAAGTGCTCGGTGCATTAGTTAAACCAAACGGCATCA
1 ATGCAAAACATGATTCATCAATCTCATAAAAGTGCTCGGTGCATTAGTTAAACCAAACGACATCA
1077990 C
66 C
1077991 TAACCACTCA
Statistics
Matches: 62, Mismatches: 3, Indels: 1
0.94 0.05 0.02
Matches are distributed among these distances:
65 50 0.81
66 12 0.19
ACGTcount: A:0.38, C:0.21, G:0.15, T:0.25
Consensus pattern (66 bp):
ATGCAAAACATGATTCATCAATCTCATAAAAGTGCTCGGTGCATTAGTTAAACCAAACGACATCA
C
Found at i:1079610 original size:158 final size:157
Alignment explanation
Indices: 1079306--1079598 Score: 360
Period size: 154 Copynumber: 1.9 Consensus size: 157
1079296 AATTTGGCAA
* * * *
1079306 CATAAAGACATTTTCCTCATTGGGATACATGATATAGATACTTTAGTTTCACAAGAAAAGCTTTT
1 CATAAAGACATTCTCCTCATGGGGATACACGATATAGATACTTTAGTTTCACAAGAAAAGCTATT
* * * * * ** *
1079371 CTTTCCATCATTTTCCTTATAATGAAAGTCTGTCCCTCAAATGAGACCGACTTAGATTCTCCTAA
66 CTTT-CACCATTTTACTTAGAATAAAAGTCTATCCCTCAAATGAGACAAACTTAGATTCACCTAA
1079436 TAATCTCCAAGTTTTTGTGTTTTGGTAG
130 TAATCTCCAAGTTTTTGTGTTTTGGTAG
* * * ** *
1079464 CATAAATACATTCTCCTCATGGGGATGCACGATATTGATACTTTTTTTTCACAAGAAAATC-ATT
1 CATAAAGACATTCTCCTCATGGGGATACACGATATAGATACTTTAGTTTCACAAGAAAAGCTATT
* *
1079528 -TTT-ACCATTTTACTTAGAATAAAAGT-TCATCCCTCAAATGAGACAAACTTGGATTCACGTAA
66 CTTTCACCATTTTACTTAGAATAAAAGTCT-ATCCCTCAAATGAGACAAACTTAGATTCACCTAA
1079590 TAATCTCCA
130 TAATCTCCA
1079599 TTCTTTTTTT
Statistics
Matches: 114, Mismatches: 20, Indels: 6
0.81 0.14 0.04
Matches are distributed among these distances:
153 1 0.01
154 56 0.49
156 3 0.03
157 2 0.02
158 52 0.46
ACGTcount: A:0.32, C:0.19, G:0.13, T:0.36
Consensus pattern (157 bp):
CATAAAGACATTCTCCTCATGGGGATACACGATATAGATACTTTAGTTTCACAAGAAAAGCTATT
CTTTCACCATTTTACTTAGAATAAAAGTCTATCCCTCAAATGAGACAAACTTAGATTCACCTAAT
AATCTCCAAGTTTTTGTGTTTTGGTAG
Found at i:1081139 original size:159 final size:158
Alignment explanation
Indices: 1080691--1081223 Score: 448
Period size: 159 Copynumber: 3.4 Consensus size: 158
1080681 TACTCATCAA
* * * * *
1080691 GATG-TTTAGGTTTTGCCAGAAAAGCTTTTCTTTTCACCATTTTCCTTCGAATCAAGGTTCATCC
1 GATGCTTT-GGTTTCGCAAGAAAAGCTTTTCTTTCCACCATTTTCCTTAGAATCAAAGTTCATCC
* *** * * * * * * ** ** * *
1080755 CTAAAATGAGATGGACTTGGTTTCTGATAAT-ATCTCCATTCATTTCGTGATTTGGCACCATAAA
65 CTAAAATGAAACAAACATAGATTCTCATAATAATATCCATTCTTTTTATGATTAAGCAACAAAAA
*** * ** *
1080819 CACACTCTACTTTTTAGGATACATGATAT
130 CATGTTCTCCTAATTAAGATACATGATAT
** * * * *
1080848 GATTGCTTTCATTTCGAAAGAAAAGC-TTT-TTTCCACCATTTTCCTTAGAGTAAAACTTCATCC
1 GA-TGCTTTGGTTTCGCAAGAAAAGCTTTTCTTTCCACCATTTTCCTTAGAATCAAAGTTCATCC
* * *
1080911 CTAAAATGAAACAAACTTAGATTCTCATAATAATATCCATTCTTTTTATGATTAAGTAACAAAAG
65 CTAAAATGAAACAAACATAGATTCTCATAATAATATCCATTCTTTTTATGATTAAGCAACAAAAA
*
1080976 CATGTTCTCCTTATTAAGATACATGATATT
130 CATGTTCTCCTAATTAAGATACATGATA-T
* * * *
1081006 GATGCTTTGGTCTCGCAAGAGAAGCTTTTCTTTCCAGCATTTTCTTTTAGAATCAAAGTTCATCC
1 GATGCTTTGGTTTCGCAAGAAAAGCTTTTCTTTCCACCATTTTC-CTTAGAATCAAAGTTCATCC
* * * * * ** **
1081071 CTCAGATGAGATAAACATGGATTCTTGTAATAATATCC-TT-TTCTTTATGATTTGGCAACAAAA
65 CTAAAATGAAACAAACATAGATTCTCATAATAATATCCATTCTT-TTTATGATTAAGCAACAAAA
*
1081134 ACATGTTCTCCTAATTAGGATACATGATACT
129 ACATGTTCTCCTAATTAAGATACATGATA-T
* ** * * *
1081165 CATGGGTTGGTTTTGCAAGAAAAGCTTTTCCTTCCACCATTTTCCTTAAAATCAAAGTT
1 GATGCTTTGGTTTCGCAAGAAAAGCTTTTCTTTCCACCATTTTCCTTAGAATCAAAGTT
1081224 TGACCCTCAA
Statistics
Matches: 299, Mismatches: 69, Indels: 15
0.78 0.18 0.04
Matches are distributed among these distances:
156 52 0.17
157 68 0.23
158 35 0.12
159 98 0.33
160 46 0.15
ACGTcount: A:0.30, C:0.19, G:0.14, T:0.38
Consensus pattern (158 bp):
GATGCTTTGGTTTCGCAAGAAAAGCTTTTCTTTCCACCATTTTCCTTAGAATCAAAGTTCATCCC
TAAAATGAAACAAACATAGATTCTCATAATAATATCCATTCTTTTTATGATTAAGCAACAAAAAC
ATGTTCTCCTAATTAAGATACATGATAT
Found at i:1081763 original size:29 final size:29
Alignment explanation
Indices: 1081683--1081766 Score: 109
Period size: 29 Copynumber: 2.9 Consensus size: 29
1081673 AGGGAAGTTC
* *
1081683 TAGTGTTTTAGTTGA-TATTTAACTCCTTT
1 TAGTATTTTAGTTGACT-TTTAATTCCTTT
1081712 TAGTATTTTAGTTGACTTTTAATTCCTTT
1 TAGTATTTTAGTTGACTTTTAATTCCTTT
*
1081741 TTGTGA-TTTAGTTGACTTTTAATTCC
1 TAGT-ATTTTAGTTGACTTTTAATTCC
1081767 CTAGCTTTAT
Statistics
Matches: 50, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
29 48 0.96
30 2 0.04
ACGTcount: A:0.20, C:0.11, G:0.13, T:0.56
Consensus pattern (29 bp):
TAGTATTTTAGTTGACTTTTAATTCCTTT
Found at i:1082129 original size:26 final size:26
Alignment explanation
Indices: 1082099--1082150 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
1082089 CGTCCTTTCA
1082099 ATTTTCAAGTTCCAATTTCTTTTTTT
1 ATTTTCAAGTTCCAATTTCTTTTTTT
1082125 ATTTTCAAGTTCCAATTTCTTTTTTT
1 ATTTTCAAGTTCCAATTTCTTTTTTT
1082151 TCTTCTATTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.19, C:0.15, G:0.04, T:0.62
Consensus pattern (26 bp):
ATTTTCAAGTTCCAATTTCTTTTTTT
Found at i:1083640 original size:31 final size:32
Alignment explanation
Indices: 1083560--1083657 Score: 189
Period size: 32 Copynumber: 3.1 Consensus size: 32
1083550 CCTATTGTGT
1083560 TGAGGATTATGTGAAAGAATTTAAGATGCTAA
1 TGAGGATTATGTGAAAGAATTTAAGATGCTAA
1083592 TGAGGATTATGTGAAAGAATTTAAGATGCTAA
1 TGAGGATTATGTGAAAGAATTTAAGATGCTAA
1083624 TGAGGATTA-GTGAAAGAATTTAAGATGCTAA
1 TGAGGATTATGTGAAAGAATTTAAGATGCTAA
1083655 TGA
1 TGA
1083658 TGCAATGTGA
Statistics
Matches: 66, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
31 25 0.38
32 41 0.62
ACGTcount: A:0.41, C:0.03, G:0.26, T:0.31
Consensus pattern (32 bp):
TGAGGATTATGTGAAAGAATTTAAGATGCTAA
Found at i:1091672 original size:12 final size:12
Alignment explanation
Indices: 1091652--1091728 Score: 62
Period size: 12 Copynumber: 6.9 Consensus size: 12
1091642 AAGAGAAAGA
1091652 AGAGATAGGAGG
1 AGAGATAGGAGG
1091664 -GATGATAGGAGG
1 AGA-GATAGGAGG
1091676 AGAGAT---AGG
1 AGAGATAGGAGG
*
1091685 AGAGATAGTA-G
1 AGAGATAGGAGG
*
1091696 AGACA-A-GAGG
1 AGAGATAGGAGG
1091706 -GATGATAGGAGG
1 AGA-GATAGGAGG
1091718 AGAGATAGGAG
1 AGAGATAGGAG
1091729 AGATAATAGA
Statistics
Matches: 52, Mismatches: 3, Indels: 20
0.69 0.04 0.27
Matches are distributed among these distances:
9 12 0.23
10 3 0.06
11 8 0.15
12 25 0.48
13 4 0.08
ACGTcount: A:0.42, C:0.01, G:0.45, T:0.12
Consensus pattern (12 bp):
AGAGATAGGAGG
Found at i:1091706 original size:42 final size:42
Alignment explanation
Indices: 1091660--1091757 Score: 160
Period size: 42 Copynumber: 2.3 Consensus size: 42
1091650 GAAGAGATAG
*
1091660 GAGGGATGATAGGAGGAGAGATAGGAGAGATAGTAGAGACAA
1 GAGGGATGATAGGAGGAGAGATAGGAGAGATAATAGAGACAA
* *
1091702 GAGGGATGATAGGAGGAGAGATAGGAGAGATAATAGAGAGAG
1 GAGGGATGATAGGAGGAGAGATAGGAGAGATAATAGAGACAA
*
1091744 GAGGGATGACAGGA
1 GAGGGATGATAGGA
1091758 AGAGGAGAGA
Statistics
Matches: 52, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
42 52 1.00
ACGTcount: A:0.42, C:0.02, G:0.45, T:0.11
Consensus pattern (42 bp):
GAGGGATGATAGGAGGAGAGATAGGAGAGATAATAGAGACAA
Found at i:1091856 original size:16 final size:16
Alignment explanation
Indices: 1091835--1091866 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
1091825 CAGTTTTCAT
1091835 GGAAGGAATGATGTTG
1 GGAAGGAATGATGTTG
1091851 GGAAGGAATGATGTTG
1 GGAAGGAATGATGTTG
1091867 AAGCATACTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.31, C:0.00, G:0.44, T:0.25
Consensus pattern (16 bp):
GGAAGGAATGATGTTG
Found at i:1097332 original size:12 final size:11
Alignment explanation
Indices: 1097317--1097370 Score: 58
Period size: 12 Copynumber: 4.8 Consensus size: 11
1097307 CTATCTCTTT
1097317 TCCTATCATCCC
1 TCCTATC-TCCC
1097329 TCCTATCT--C
1 TCCTATCTCCC
*
1097338 TACTATCTCTCC
1 TCCTATCTC-CC
1097350 TCCTATCATCCC
1 TCCTATC-TCCC
1097362 TCCTATCTC
1 TCCTATCTC
1097371 TTCTTTCTCT
Statistics
Matches: 36, Mismatches: 2, Indels: 9
0.77 0.04 0.19
Matches are distributed among these distances:
9 8 0.22
11 3 0.08
12 23 0.64
13 2 0.06
ACGTcount: A:0.15, C:0.46, G:0.00, T:0.39
Consensus pattern (11 bp):
TCCTATCTCCC
Found at i:1097343 original size:21 final size:20
Alignment explanation
Indices: 1097277--1097356 Score: 67
Period size: 24 Copynumber: 3.9 Consensus size: 20
1097267 TCTCCTCCTC
1097277 CTATCATCCCTCC--TCTCT
1 CTATCATCCCTCCTATCTCT
* *
1097295 CTATTATCACTCCTATCTCTTTT
1 CTATCATCCCTCCTATCTC---T
1097318 CCTATCATCCCTCCTATCTCT
1 -CTATCATCCCTCCTATCTCT
1097339 ACTATC-TCTCCTCCTATC
1 -CTATCATC-CCTCCTATC
1097357 ATCCCTCCTA
Statistics
Matches: 50, Mismatches: 5, Indels: 11
0.76 0.08 0.17
Matches are distributed among these distances:
18 11 0.22
20 6 0.12
21 15 0.30
23 1 0.02
24 17 0.34
ACGTcount: A:0.15, C:0.42, G:0.00, T:0.42
Consensus pattern (20 bp):
CTATCATCCCTCCTATCTCT
Done.