Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold2654
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: 26366
ACGTcount: A:0.22, C:0.27, G:0.27, T:0.24
Found at i:2179 original size:58 final size:58
Alignment explanation
Indices: 2099--2208 Score: 175
Period size: 58 Copynumber: 1.9 Consensus size: 58
2089 CCCAAAATGG
*
2099 AGAATTCAGATACCGTTACATGTTCGGTACCCAATAATGAATGAACCGTCCCAAAGCT
1 AGAATTCAGATACCGTTACATGTTCGGTACCCAACAATGAATGAACCGTCCCAAAGCT
* * * *
2157 AGAATTGAGATACCGTTGCATGTTCGGTATCCAACAATGAATGAATCGTCCC
1 AGAATTCAGATACCGTTACATGTTCGGTACCCAACAATGAATGAACCGTCCC
2209 TGTCCCTCCC
Statistics
Matches: 47, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
58 47 1.00
ACGTcount: A:0.33, C:0.23, G:0.19, T:0.25
Consensus pattern (58 bp):
AGAATTCAGATACCGTTACATGTTCGGTACCCAACAATGAATGAACCGTCCCAAAGCT
Found at i:2988 original size:43 final size:43
Alignment explanation
Indices: 2930--3694 Score: 824
Period size: 43 Copynumber: 18.2 Consensus size: 43
2920 TTGATATGCA
* *
2930 GGAGCCTCAGACACCATCGGCAACCTAGGCCCTTGGTCGTGCG
1 GGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTCGTGCG
*
2973 GGAGCCTCGGGCACCATCGGCAACCTAGACCCTTGGTCGTGCG
1 GGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTCGTGCG
* *
3016 AGAGCCTCGGGCACCATCGGCAACCTAGGCCCCTGGTCGTGCG
1 GGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTCGTGCG
* ** ** * * **
3059 AGAGTATC-AACACCATCAG-AACCTAGGCCCCTGGTCGTATG
1 GGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTCGTGCG
* *
3100 GGAG-CTCGGACACCATCGGCAACCTAGGCCCCTGGTCGTGC-
1 GGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTCGTGCG
*
3141 GGAGCCTCGGG-ACCATCGGCAACCTAGGCCCCTGGTCGTGCG
1 GGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTCGTGCG
*
3183 GGAGCCTCGGGCACCATCGGCAACCTAGGCCCCTGGTCGTGC-
1 GGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTCGTGCG
* * * * *
3225 GGAGACTCGGGTACCATCGGCACCCTAGGCCCCTGGTTGTGCG
1 GGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTCGTGCG
*
3268 AGAGCCTCGGGCACCATCGGC-ACCTAGGCCCTTGGTCGTGCG
1 GGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTCGTGCG
*
3310 AGAGCCTC-GG-ACCATCGGC-ACCTAGGCCCTTGGTCGTGCG
1 GGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTCGTGCG
* * **
3350 GGAGCCTCGGGCA-CATCGGC-ACATTGGTGCTTGGAT-GTGCG
1 GGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGG-TCGTGCG
*
3391 GGAGCCT-GGGACACCATCGGTAACCTAGGCCCTT--TCGTGCG
1 GGAGCCTCGGG-CACCATCGGCAACCTAGGCCCTTGGTCGTGCG
* **
3432 GGAGCCTCGGGCACCATCGGC-ACCTTGGTGCTTGGAT-GTGCG
1 GGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGG-TCGTGCG
* * *
3474 GGAGCCTCGGACACCATCGGTAACCTAGGCCCTTGGTCGTGCC
1 GGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTCGTGCG
* *
3517 AGAGCCTCGGGCACCATCGGTAACCTAGGCCCTT-GTCGTGC-
1 GGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTCGTGCG
* * *
3558 GGAGCCTCGGGCACCATCGGC-ACCTTGGTGCCTCGGATC-TGCG
1 GGAGCCTCGGGCACCATCGGCAACCTAGG-CCCTTGG-TCGTGCG
* * * * **
3601 GGAGCCTCGAGCAGCATTGGC-ACCTTGGTACTTGGAT-GTGCG
1 GGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGG-TCGTGCG
* * * *
3643 GGAGCCTCGGACACCATAGGCAACCTAGGACGTTGGAT-GTGCG
1 GGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGG-TCGTGCG
*
3686 GGTGCCTCG
1 GGAGCCTCG
3695 AGCAGCAGGG
Statistics
Matches: 625, Mismatches: 72, Indels: 50
0.84 0.10 0.07
Matches are distributed among these distances:
40 58 0.09
41 144 0.23
42 181 0.29
43 242 0.39
ACGTcount: A:0.16, C:0.33, G:0.33, T:0.18
Consensus pattern (43 bp):
GGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTCGTGCG
Found at i:3198 original size:167 final size:167
Alignment explanation
Indices: 2930--3671 Score: 769
Period size: 167 Copynumber: 4.4 Consensus size: 167
2920 TTGATATGCA
*
2930 GGAGCCTCAGACACCATCGGCAACCTAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCA
1 GGAGCCTCGGACACCATCGGC-ACCTAGGCCCTTGGTCGTGCGGGAGCCTCGGG-ACCATCGGCA
*
2995 ACCTAGACCCTTGGTCGTGCGAGAGCCTCGGGCACCATCGGCAACCTAGGCCCCTGGTCGTGCGA
64 ACCTAGGCCCTTGGTCGTGCGAGAGCCTCGGGCACCATCGGCAACCTAGGCCCCTGGTCGTGCG-
* * **
3060 GAGTATCAACACCATCAG-AACCTAGGCCCCTGGTCGTATG
128 GAG-ATCGACACCATCGGCAACCTAGGCCCCTGGTCGTGCG
*
3100 GGAG-CTCGGACACCATCGGCAACCTAGGCCCCTGGTCGTGC-GGAGCCTCGGGACCATCGGCAA
1 GGAGCCTCGGACACCATCGGC-ACCTAGGCCCTTGGTCGTGCGGGAGCCTCGGGACCATCGGCAA
* *
3163 CCTAGGCCCCTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCCTGGTCGTGCGGA
65 CCTAGGCCCTTGGTCGTGCGAGAGCCTCGGGCACCATCGGCAACCTAGGCCCCTGGTCGTGCGGA
** * *
3228 GACTCGGGTACCATCGGCACCCTAGGCCCCTGGTTGTGCG
130 GA-TC-GACACCATCGGCAACCTAGGCCCCTGGTCGTGCG
* * *
3268 AGAGCCTCGGGCACCATCGGCACCTAGGCCCTTGGTCGTGCGAGAGCCTC-GGACCATCGGC-AC
1 GGAGCCTCGGACACCATCGGCACCTAGGCCCTTGGTCGTGCGGGAGCCTCGGGACCATCGGCAAC
* * * ** *
3331 CTAGGCCCTTGGTCGTGCGGGAGCCTCGGGCA-CATCGGC-ACATTGGTGCTTGGAT-GTGCGGG
66 CTAGGCCCTTGGTCGTGCGAGAGCCTCGGGCACCATCGGCAACCTAGGCCCCTGG-TCGTGC-GG
* * * *
3393 AGCCTGGGACACCATCGGTAACCTAGG-CCCT-TTCGTGCG
129 AG-AT-CGACACCATCGGCAACCTAGGCCCCTGGTCGTGCG
* * ** * *
3432 GGAGCCTCGGGCACCATCGGCACCTTGGTGCTTGGAT-GTGCGGGAGCCTCGGACACCATCGGTA
1 GGAGCCTCGGACACCATCGGCACCTAGGCCCTTGG-TCGTGCGGGAGCCTCGG-GACCATCGGCA
* * *
3496 ACCTAGGCCCTTGGTCGTGCCAGAGCCTCGGGCACCATCGGTAACCTAGG-CCCTTGTCGTGCGG
64 ACCTAGGCCCTTGGTCGTGCGAGAGCCTCGGGCACCATCGGCAACCTAGGCCCCTGGTCGTGCGG
* * * **
3560 AGCCTCGGGCACCATCGGC-ACCTTGGTGCCTCGGATC-TGCG
129 AG-ATC-GACACCATCGGCAACCTAGGCCCCT-GG-TCGTGCG
* * * ** * *
3601 GGAGCCTC-GAGCAGCATTGGCACCTTGGTACTTGGAT-GTGCGGGAGCCTCGGACACCATAGGC
1 GGAGCCTCGGA-CACCATCGGCACCTAGGCCCTTGG-TCGTGCGGGAGCCTCGG-GACCATCGGC
3664 AACCTAGG
63 AACCTAGG
3672 ACGTTGGATG
Statistics
Matches: 492, Mismatches: 58, Indels: 45
0.83 0.10 0.08
Matches are distributed among these distances:
164 49 0.10
165 20 0.04
166 48 0.10
167 164 0.33
168 76 0.15
169 129 0.26
170 6 0.01
ACGTcount: A:0.17, C:0.33, G:0.33, T:0.18
Consensus pattern (167 bp):
GGAGCCTCGGACACCATCGGCACCTAGGCCCTTGGTCGTGCGGGAGCCTCGGGACCATCGGCAAC
CTAGGCCCTTGGTCGTGCGAGAGCCTCGGGCACCATCGGCAACCTAGGCCCCTGGTCGTGCGGAG
ATCGACACCATCGGCAACCTAGGCCCCTGGTCGTGCG
Found at i:3580 original size:126 final size:126
Alignment explanation
Indices: 2930--3671 Score: 807
Period size: 126 Copynumber: 5.9 Consensus size: 126
2920 TTGATATGCA
* *
2930 GGAGCCTCAGACACCATCGGCAACCTAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCA
1 GGAGCCTCGGGCACCATCGGC-ACCTAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCA
* *
2995 ACCTAGACCCTTGGTCGTGCGAGAGCCTCGGGCACCATCGGCAACCTAGGCCCCTGGTCGTGC
65 ACCTAGGCCCTTGGTCGTGCGAGAGCCTCGGGCACCATCGGCAACCTAGG-CCCTTGTCGTGC
** ** * * * ** *
3058 GAGAGTATC-AACACCATCAGAACCTAGGCCCCTGGTCGTATGGGAG-CTCGGACACCATCGGCA
1 G-GAGCCTCGGGCACCATCGGCACCTAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCA
* *
3121 ACCTAGGCCCCTGGTCGTGCG-GAGCCTCGGG-ACCATCGGCAACCTAGGCCCCTGGTCGTGC
65 ACCTAGGCCCTTGGTCGTGCGAGAGCCTCGGGCACCATCGGCAACCTAGG-CCCTTGTCGTGC
* * *
3182 GGGAGCCTCGGGCACCATCGGCAACCTAGGCCCCTGGTCGTGC-GGAGACTCGGGTACCATCGGC
1 -GGAGCCTCGGGCACCATCGGC-ACCTAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGC
* * *
3246 ACCCTAGGCCCCTGGTTGTGCGAGAGCCTCGGGCACCATCGGC-ACCTAGGCCCTTGGTCGTGC
64 AACCTAGGCCCTTGGTCGTGCGAGAGCCTCGGGCACCATCGGCAACCTAGGCCCTT-GTCGTGC
3309 GAGAGCCTC-GG-ACCATCGGCACCTAGGCCCTTGGTCGTGCGGGAGCCTCGGGCA-CATCGGC-
1 G-GAGCCTCGGGCACCATCGGCACCTAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCA
* * ** * *
3370 ACATTGGTGCTTGGAT-GTGCGGGAGCCT-GGGACACCATCGGTAACCTAGGCCCTT-TCGTGC
65 ACCTAGGCCCTTGG-TCGTGCGAGAGCCTCGGG-CACCATCGGCAACCTAGGCCCTTGTCGTGC
* ** * *
3431 GGGAGCCTCGGGCACCATCGGCACCTTGGTGCTTGGAT-GTGCGGGAGCCTCGGACACCATCGGT
1 -GGAGCCTCGGGCACCATCGGCACCTAGGCCCTTGG-TCGTGCGGGAGCCTCGGGCACCATCGGC
* *
3495 AACCTAGGCCCTTGGTCGTGCCAGAGCCTCGGGCACCATCGGTAACCTAGGCCCTTGTCGTGC
64 AACCTAGGCCCTTGGTCGTGCGAGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGTCGTGC
* * * * * *
3558 GGAGCCTCGGGCACCATCGGCACCTTGGTGCCTCGGATC-TGCGGGAGCCTCGAGCAGCATTGGC
1 GGAGCCTCGGGCACCATCGGCACCTAGG-CCCTTGG-TCGTGCGGGAGCCTCGGGCACCATCGGC
* ** * * *
3622 -ACCTTGGTACTTGGAT-GTGCGGGAGCCTCGGACACCATAGGCAACCTAGG
64 AACCTAGGCCCTTGG-TCGTGCGAGAGCCTCGGGCACCATCGGCAACCTAGG
3672 ACGTTGGATG
Statistics
Matches: 527, Mismatches: 62, Indels: 52
0.82 0.10 0.08
Matches are distributed among these distances:
122 16 0.03
123 31 0.06
124 111 0.21
125 51 0.10
126 205 0.39
127 89 0.17
128 19 0.04
129 5 0.01
ACGTcount: A:0.17, C:0.33, G:0.33, T:0.18
Consensus pattern (126 bp):
GGAGCCTCGGGCACCATCGGCACCTAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAA
CCTAGGCCCTTGGTCGTGCGAGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGTCGTGC
Found at i:3724 original size:43 final size:43
Alignment explanation
Indices: 3554--3730 Score: 155
Period size: 43 Copynumber: 4.2 Consensus size: 43
3544 GGCCCTTGTC
* * * *
3554 GTGC-GGAGCCTCGGGCACCATCGGCACCTTGGTGCCTCGGAT
1 GTGCGGGAGCCTCGAGCAGCATAGGCACCCTGGTGCCTCGGAT
* * * * *
3596 CTGCGGGAGCCTCGAGCAGCATTGGCACCTTGGT-ACTTGGAT
1 GTGCGGGAGCCTCGAGCAGCATAGGCACCCTGGTGCCTCGGAT
* * * * *
3638 GTGCGGGAGCCTCG-GACACCATAGGCAACCTAGG-ACGTTGGAT
1 GTGCGGGAGCCTCGAG-CAGCATAGGCACCCT-GGTGCCTCGGAT
* **
3681 GTGCGGGTGCCTCGAGCAGCAGGGGCACCCTGGTGCCTCGGAT
1 GTGCGGGAGCCTCGAGCAGCATAGGCACCCTGGTGCCTCGGAT
3724 GTGCGGG
1 GTGCGGG
3731 CTAAAGAAAA
Statistics
Matches: 108, Mismatches: 21, Indels: 11
0.77 0.15 0.08
Matches are distributed among these distances:
41 1 0.01
42 35 0.32
43 71 0.66
44 1 0.01
ACGTcount: A:0.15, C:0.28, G:0.38, T:0.19
Consensus pattern (43 bp):
GTGCGGGAGCCTCGAGCAGCATAGGCACCCTGGTGCCTCGGAT
Found at i:8640 original size:58 final size:59
Alignment explanation
Indices: 8549--8669 Score: 190
Period size: 58 Copynumber: 2.1 Consensus size: 59
8539 CCCTCCCCAA
* * *
8549 TCCCAAATGGTAGAATTCAGATACCGTTACATGTTTGGTACCCAATAATGAATGAACCG
1 TCCCAAATGCTAGAATTCAGATACCGTTACATGTTCGGTACCCAACAATGAATGAACCG
* *
8608 TCCCAAA-GCTAGAATTCAGATACCGTTGCATGTTCGGTACCCAACAATGAATGAATCG
1 TCCCAAATGCTAGAATTCAGATACCGTTACATGTTCGGTACCCAACAATGAATGAACCG
8666 TCCC
1 TCCC
8670 TGTCCCTCCC
Statistics
Matches: 57, Mismatches: 5, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
58 50 0.88
59 7 0.12
ACGTcount: A:0.32, C:0.24, G:0.18, T:0.26
Consensus pattern (59 bp):
TCCCAAATGCTAGAATTCAGATACCGTTACATGTTCGGTACCCAACAATGAATGAACCG
Found at i:9450 original size:43 final size:43
Alignment explanation
Indices: 9416--10075 Score: 773
Period size: 43 Copynumber: 15.5 Consensus size: 43
9406 TGGATATGCA
* *
9416 GGAGCCTCGGACACCATCAGCAACCTAGGCCCTTGGTCGTGCG
1 GGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTCGTGCG
* * * * *
9459 GGAGCCTCAGGCACCATCAGAAACCTAGGCCCTTTGTCGTGCA
1 GGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTCGTGCG
* * *
9502 GGAGCCTCGGGCACCATCGGCAACCTACGCCTTTGGTCGTGTG
1 GGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTCGTGCG
* * *
9545 AGAGCCTTGGGCACCATCGGCAACCTAGGCCCCTGGTCGTGCG
1 GGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTCGTGCG
* * * * *
9588 GGAGCCTCAGACACCATCGG-AACCTAGGCCCCTGGTCGTTCC
1 GGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTCGTGCG
* * * *
9630 GGAGCCTCGAG-ACCATCGGTAACTTAGGCCCCTGGTCGTGCG
1 GGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTCGTGCG
* *
9672 GGAACCTCGGGCACCATCGGCAACCTAGGCCCCTGGTCGTGCG
1 GGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTCGTGCG
* *
9715 GGAGCCTCGGGCACCATCGGCACCCTAGGCCCCTGGTCGTGCG
1 GGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTCGTGCG
* * *
9758 AGAGCCTCGGGTACCATCGGC-ACCTAGGCCCTTGGTCGTCCG
1 GGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTCGTGCG
*
9800 AGAGCCTCGGG-ACCATCGGC-ACCTAGGCCCTTGGTCGTGCG
1 GGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTCGTGCG
* ** *
9841 GGAGCCTCGGGCACCATCGGC-ACCTTGGTGCTTGGAT-GTGCA
1 GGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGG-TCGTGCG
* * *
9883 GGAGACT-GGGACACCATCGGTAACCTAGGACCTTGGTCGTGCG
1 GGAGCCTCGGG-CACCATCGGCAACCTAGGCCCTTGGTCGTGCG
* * ** * *
9926 GGAGCCTCGGGCACCATTGGC-ACCTTGGTGCTTGGTTGTACG
1 GGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTCGTGCG
* * *
9968 GGACCCTCGGACACCATCGGTAACCTAGGCCCTTGGTCGTGTC-
1 GGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTCGTG-CG
* * *
10011 GGAGCCTCGGGTACCATCGGTAACCTAGGCCCTTGGTCATGCG
1 GGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTCGTGCG
*
10054 GGAGCCTCGGGCACCATTGGCA
1 GGAGCCTCGGGCACCATCGGCA
10076 CCTTGGTGCC
Statistics
Matches: 528, Mismatches: 78, Indels: 22
0.84 0.12 0.04
Matches are distributed among these distances:
41 50 0.09
42 159 0.30
43 315 0.60
44 4 0.01
ACGTcount: A:0.16, C:0.33, G:0.32, T:0.18
Consensus pattern (43 bp):
GGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTCGTGCG
Found at i:9710 original size:85 final size:85
Alignment explanation
Indices: 9416--10062 Score: 698
Period size: 85 Copynumber: 7.6 Consensus size: 85
9406 TGGATATGCA
* * * *
9416 GGAGCCTCGGACACCATCAGCAACCTAGGCCCTTGGTCGTGCGGGAGCCTC-AGGCACCATCAGA
1 GGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTCGTGCGGGAGCCTCGA-G-ACCATCGGT
* *
9480 AACCTAGGCCCTTTGTCGTGCA
64 AACCTAGGCCCTTGGTCGTGCG
* * * * * * *
9502 GGAGCCTCGGGCACCATCGGCAACCTACGCCTTTGGTCGTGTGAGAGCCTTGGGCACCATCGGCA
1 GGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTCGTGCGGGAGCCTCGAG-ACCATCGGTA
*
9567 ACCTAGGCCCCTGGTCGTGCG
65 ACCTAGGCCCTTGGTCGTGCG
* * * * *
9588 GGAGCCTCAGACACCATCGG-AACCTAGGCCCCTGGTCGTTCCGGAGCCTCGAGACCATCGGTAA
1 GGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTCGTGCGGGAGCCTCGAGACCATCGGTAA
* *
9652 CTTAGGCCCCTGGTCGTGCG
66 CCTAGGCCCTTGGTCGTGCG
* * * *
9672 GGAACCTCGGGCACCATCGGCAACCTAGGCCCCTGGTCGTGCGGGAGCCTCGGGCACCATCGGCA
1 GGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTCGTGCGGGAGCCTCGAG-ACCATCGGTA
* *
9737 CCCTAGGCCCCTGGTCGTGCG
65 ACCTAGGCCCTTGGTCGTGCG
* * * * * *
9758 AGAGCCTCGGGTACCATCGGC-ACCTAGGCCCTTGGTCGTCCGAGAGCCTCGGGACCATCGG-CA
1 GGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTCGTGCGGGAGCCTCGAGACCATCGGTAA
9821 CCTAGGCCCTTGGTCGTGCG
66 CCTAGGCCCTTGGTCGTGCG
* ** * * * *
9841 GGAGCCTCGGGCACCATCGGC-ACCTTGGTGCTTGGAT-GTGCAGGAGACTGGGACACCATCGGT
1 GGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGG-TCGTGCGGGAGCCT-CGAGACCATCGGT
*
9904 AACCTAGGACCTTGGTCGTGCG
64 AACCTAGGCCCTTGGTCGTGCG
* * ** * * * *
9926 GGAGCCTCGGGCACCATTGGC-ACCTTGGTGCTTGGTTGTACGGGACCCTCGGACACCATCGGTA
1 GGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTCGTGCGGGAGCCTC-GAGACCATCGGTA
9990 ACCTAGGCCCTTGGTCGTGTC-
65 ACCTAGGCCCTTGGTCGTG-CG
* * *
10011 GGAGCCTCGGGTACCATCGGTAACCTAGGCCCTTGGTCATGCGGGAGCCTCG
1 GGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTCGTGCGGGAGCCTCG
10063 GGCACCATTG
Statistics
Matches: 476, Mismatches: 75, Indels: 21
0.83 0.13 0.04
Matches are distributed among these distances:
83 57 0.12
84 65 0.14
85 195 0.41
86 159 0.33
ACGTcount: A:0.16, C:0.33, G:0.32, T:0.19
Consensus pattern (85 bp):
GGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTCGTGCGGGAGCCTCGAGACCATCGGTAA
CCTAGGCCCTTGGTCGTGCG
Found at i:10097 original size:43 final size:42
Alignment explanation
Indices: 9374--10155 Score: 589
Period size: 43 Copynumber: 18.4 Consensus size: 42
9364 AGTGGTACAA
* * * *
9374 GAGCCTCGAGCAGCATCGGCACCTTGGTGCCTTGGAT-ATGCAG
1 GAGCCTCGGGCACCATCGGCACCTTGG-GCCTTGG-TCGTGCGG
* * * *
9417 GAGCCTCGGACACCATCAGCAACCTAGGCCCTTGGTCGTGCGG
1 GAGCCTCGGGCACCATCGGC-ACCTTGGGCCTTGGTCGTGCGG
* ** * * * *
9460 GAGCCTCAGGCACCATCAGAAACCTAGGCCCTTTGTCGTGCAG
1 GAGCCTCGGGCACCATC-GGCACCTTGGGCCTTGGTCGTGCGG
** * *
9503 GAGCCTCGGGCACCATCGGCAACC-TACGCCTTTGGTCGTGTGA
1 GAGCCTCGGGCACCATCGGC-ACCTTGGGCC-TTGGTCGTGCGG
* * * *
9546 GAGCCTTGGGCACCATCGGCAACCTAGGCCCCTGGTCGTGCGG
1 GAGCCTCGGGCACCATCGGC-ACCTTGGGCCTTGGTCGTGCGG
* * * * * * * *
9589 GAGCCTCAGACACCATCGGAACCTAGGCCCCTGGTCGTTCCG
1 GAGCCTCGGGCACCATCGGCACCTTGGGCCTTGGTCGTGCGG
* * * * *
9631 GAGCCTCGAG-ACCATCGGTAACTTAGGCCCCTGGTCGTGCGG
1 GAGCCTCGGGCACCATCGGCACCTT-GGGCCTTGGTCGTGCGG
* * * *
9673 GAACCTCGGGCACCATCGGCAACCTAGGCCCCTGGTCGTGCGG
1 GAGCCTCGGGCACCATCGGC-ACCTTGGGCCTTGGTCGTGCGG
* * * *
9716 GAGCCTCGGGCACCATCGGCACCCTAGGCCCCTGGTCGTGCGA
1 GAGCCTCGGGCACCATCGGCA-CCTTGGGCCTTGGTCGTGCGG
* * * * *
9759 GAGCCTCGGGTACCATCGGCACCTAGGCCCTTGGTCGTCCGA
1 GAGCCTCGGGCACCATCGGCACCTTGGGCCTTGGTCGTGCGG
* *
9801 GAGCCTCGGG-ACCATCGGCACCTAGGCCCTTGGTCGTGCGG
1 GAGCCTCGGGCACCATCGGCACCTTGGGCCTTGGTCGTGCGG
*
9842 GAGCCTCGGGCACCATCGGCACCTTGGTG-CTTGGAT-GTGCAG
1 GAGCCTCGGGCACCATCGGCACCTTGG-GCCTTGG-TCGTGCGG
* * * *
9884 GAGACT-GGGACACCATCGGTAACCTAGGACCTTGGTCGTGCGG
1 GAGCCTCGGG-CACCATCGG-CACCTTGGGCCTTGGTCGTGCGG
* * *
9927 GAGCCTCGGGCACCATTGGCACCTTGGTG-CTTGGTTGTACGG
1 GAGCCTCGGGCACCATCGGCACCTTGG-GCCTTGGTCGTGCGG
* * * * *
9969 GACCCTCGGACACCATCGGTAACCTAGGCCCTTGGTCGTGTC-G
1 GAGCCTCGGGCACCATCGG-CACCTTGGGCCTTGGTCGTG-CGG
* * * * *
10012 GAGCCTCGGGTACCATCGGTAACCTAGGCCCTTGGTCATGCGG
1 GAGCCTCGGGCACCATCGG-CACCTTGGGCCTTGGTCGTGCGG
* * *
10055 GAGCCTCGGGCACCATTGGCACCTTGGTGCCTCAGAT-GTGCGG
1 GAGCCTCGGGCACCATCGGCACCTTGG-GCCT-TGGTCGTGCGG
* * * *
10098 GAGCCTCGAGCAGCATTGGCACCTTGGTG-CTGGGAT-GTGCGG
1 GAGCCTCGGGCACCATCGGCACCTTGG-GCCTTGG-TCGTGCGG
*
10140 GAGCCTCGGACACCAT
1 GAGCCTCGGGCACCAT
10156 AGGAAACCTA
Statistics
Matches: 611, Mismatches: 102, Indels: 53
0.80 0.13 0.07
Matches are distributed among these distances:
41 54 0.09
42 186 0.30
43 354 0.58
44 17 0.03
ACGTcount: A:0.16, C:0.32, G:0.32, T:0.19
Consensus pattern (42 bp):
GAGCCTCGGGCACCATCGGCACCTTGGGCCTTGGTCGTGCGG
Found at i:10155 original size:128 final size:128
Alignment explanation
Indices: 9416--10165 Score: 707
Period size: 128 Copynumber: 5.9 Consensus size: 128
9406 TGGATATGCA
* * * * * *
9416 GGAGCCTCGGACACCATCAGCAACCTAGGCCCT-TGGTCGTGCGGGAGCCTCAGGCACCATCAGA
1 GGAGCCTCGGGCACCATCGGC-ACCTTGGGCCTCTGGTCGTGCGGGAGCCTCGGGCACCATC-GG
* * * * * * * *
9480 AACCTAGGCCCTTTGTCGTGCAGGAGCCTCGGGCACCATCGGCAACCTACGCCTTTGGTCGTGTG
64 CACCTAGGCCCTTGGTCGTGCGGGAGCCTCGGACACCATCGGTAACCTAGGCCCTTGGTCGTGCG
* * * * * * *
9545 AGAGCCTTGGGCACCATCGGCAACC-TAGGCCCCTGGTCGTGCGGGAGCCTCAGACACCATCGGA
1 GGAGCCTCGGGCACCATCGGC-ACCTTGGGCCTCTGGTCGTGCGGGAGCCTCGGGCACCATCGGC
* * * * * *
9609 ACCTAGGCCCCTGGTCGTTCCGGAGCCTC-GAGACCATCGGTAACTTAGGCCCCTGGTCGTGCG
65 ACCTAGGCCCTTGGTCGTGCGGGAGCCTCGGACACCATCGGTAACCTAGGCCCTTGGTCGTGCG
* * *
9672 GGAACCTCGGGCACCATCGGCAACC-TAGGCCCCTGGTCGTGCGGGAGCCTCGGGCACCATCGGC
1 GGAGCCTCGGGCACCATCGGC-ACCTTGGGCCTCTGGTCGTGCGGGAGCCTCGGGCACCATCGGC
* * ** * *
9736 ACCCTAGGCCCCTGGTCGTGCGAGAGCCTCGGGTACCATCGG-CACCTAGGCCCTTGGTCGTCCG
65 A-CCTAGGCCCTTGGTCGTGCGGGAGCCTCGGACACCATCGGTAACCTAGGCCCTTGGTCGTGCG
* * *
9800 AGAGCCTCGGG-ACCATCGGCACCTAGGCCCT-TGGTCGTGCGGGAGCCTCGGGCACCATCGGCA
1 GGAGCCTCGGGCACCATCGGCACCTTGGGCCTCTGGTCGTGCGGGAGCCTCGGGCACCATCGGCA
* ** * * * *
9863 CCTTGGTGCTTGGAT-GTGCAGGAGACTGGGACACCATCGGTAACCTAGGACCTTGGTCGTGCG
66 CCTAGGCCCTTGG-TCGTGCGGGAGCCTCGGACACCATCGGTAACCTAGGCCCTTGGTCGTGCG
* * * * *
9926 GGAGCCTCGGGCACCATTGGCACCTTGGTG-CT-TGGTTGTACGGGACCCTCGGACACCATCGGT
1 GGAGCCTCGGGCACCATCGGCACCTTGG-GCCTCTGGTCGTGCGGGAGCCTCGGGCACCATCGG-
* ** *
9989 AACCTAGGCCCTTGGTCGTGTC-GGAGCCTCGGGTACCATCGGTAACCTAGGCCCTTGGTCATGC
64 CACCTAGGCCCTTGGTCGTG-CGGGAGCCTCGGACACCATCGGTAACCTAGGCCCTTGGTCGTGC
10053 G
128 G
* * * * * *
10054 GGAGCCTCGGGCACCATTGGCACCTTGGTGCCTCAGAT-GTGCGGGAGCCTCGAGCAGCATTGGC
1 GGAGCCTCGGGCACCATCGGCACCTTGG-GCCTCTGGTCGTGCGGGAGCCTCGGGCACCATCGGC
* ** * * *
10118 ACCTTGGTGCTGGGAT-GTGCGGGAGCCTCGGACACCATAGGAAACCTA
65 ACCTAGGCCCTTGG-TCGTGCGGGAGCCTCGGACACCATCGGTAACCTA
10166 AAACGTTGGA
Statistics
Matches: 515, Mismatches: 91, Indels: 31
0.81 0.14 0.05
Matches are distributed among these distances:
125 28 0.05
126 65 0.13
127 141 0.27
128 199 0.39
129 80 0.16
130 2 0.00
ACGTcount: A:0.17, C:0.32, G:0.32, T:0.19
Consensus pattern (128 bp):
GGAGCCTCGGGCACCATCGGCACCTTGGGCCTCTGGTCGTGCGGGAGCCTCGGGCACCATCGGCA
CCTAGGCCCTTGGTCGTGCGGGAGCCTCGGACACCATCGGTAACCTAGGCCCTTGGTCGTGCG
Found at i:13062 original size:29 final size:29
Alignment explanation
Indices: 13029--13089 Score: 122
Period size: 29 Copynumber: 2.1 Consensus size: 29
13019 TTTCCGAGGA
13029 AGCGGAAGGATCATTGTCGAAACCTGCCT
1 AGCGGAAGGATCATTGTCGAAACCTGCCT
13058 AGCGGAAGGATCATTGTCGAAACCTGCCT
1 AGCGGAAGGATCATTGTCGAAACCTGCCT
13087 AGC
1 AGC
13090 AGAACGACCC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 32 1.00
ACGTcount: A:0.28, C:0.25, G:0.28, T:0.20
Consensus pattern (29 bp):
AGCGGAAGGATCATTGTCGAAACCTGCCT
Found at i:15199 original size:14 final size:14
Alignment explanation
Indices: 15180--15211 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
15170 TCCAATCACC
15180 GGGCCAGTTTGGTT
1 GGGCCAGTTTGGTT
15194 GGGCCAGTTTGGTT
1 GGGCCAGTTTGGTT
15208 GGGC
1 GGGC
15212 TAAATGACCT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.06, C:0.16, G:0.47, T:0.31
Consensus pattern (14 bp):
GGGCCAGTTTGGTT
Found at i:20308 original size:14 final size:14
Alignment explanation
Indices: 20289--20320 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
20279 TCCAATCACC
20289 GGGCCAGTTTGGTT
1 GGGCCAGTTTGGTT
20303 GGGCCAGTTTGGTT
1 GGGCCAGTTTGGTT
20317 GGGC
1 GGGC
20321 TAAATGACCT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.06, C:0.16, G:0.47, T:0.31
Consensus pattern (14 bp):
GGGCCAGTTTGGTT
Found at i:23328 original size:58 final size:59
Alignment explanation
Indices: 23237--23357 Score: 199
Period size: 58 Copynumber: 2.1 Consensus size: 59
23227 CCCTCCCCAA
* *
23237 TCCCAAAAGGTAGAATTCAGATACCGTTACATGTTCGGTACCCAATAATGAATGAACCG
1 TCCCAAAAGCTAGAATTCAGATACCGTTACATGTTCGGTACCCAACAATGAATGAACCG
* *
23296 TCCC-AAAGCTAGAATTCAGATACCGTTGCATGTTCGGTACCCAACAATGAATGAATCG
1 TCCCAAAAGCTAGAATTCAGATACCGTTACATGTTCGGTACCCAACAATGAATGAACCG
23354 TCCC
1 TCCC
23358 TGTCCCTCCC
Statistics
Matches: 58, Mismatches: 4, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
58 54 0.93
59 4 0.07
ACGTcount: A:0.33, C:0.25, G:0.18, T:0.24
Consensus pattern (59 bp):
TCCCAAAAGCTAGAATTCAGATACCGTTACATGTTCGGTACCCAACAATGAATGAACCG
Found at i:23812 original size:24 final size:24
Alignment explanation
Indices: 23758--23828 Score: 72
Period size: 24 Copynumber: 3.0 Consensus size: 24
23748 GCCGGTTAGG
* *
23758 TTCCCGGCGGTGCTCCGACGATCCA
1 TTCCCGGCGGTGCTCCGGCGA-GCA
* *
23783 TT-CCGGCGGTGGTCCGGCGAGCT
1 TTCCCGGCGGTGCTCCGGCGAGCA
* *
23806 TTCCCGGTGGTGCTCCGGTGAGC
1 TTCCCGGCGGTGCTCCGGCGAGC
23829 CATCCTGGAA
Statistics
Matches: 38, Mismatches: 7, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
23 3 0.08
24 33 0.87
25 2 0.05
ACGTcount: A:0.07, C:0.34, G:0.37, T:0.23
Consensus pattern (24 bp):
TTCCCGGCGGTGCTCCGGCGAGCA
Found at i:24365 original size:84 final size:85
Alignment explanation
Indices: 24111--24811 Score: 776
Period size: 84 Copynumber: 8.3 Consensus size: 85
24101 TGGATATGCA
* * *
24111 GGAGCCTCGGAAACCATCGGCAACCTAGGCCCTTGGTCGTGCGGGAGCCTCAGGCACCATCGGTA
1 GGAGCCTCGGACACCATCGGCAACCTAGGCCCTTGGTCGTGCGGGAGCCTC-GGGACCATCGGCA
*
24176 ACCTAGGCCCTTGGTCGTGCG
65 ACCTAGGCCCCTGGTCGTGCG
* * **
24197 AGAGCCTCGGGCACCATCGGCAACCTA-GCCC-TGGTCGTGC-GGAGCCTCAGACACCATC-GC-
1 GGAGCCTCGGACACCATCGGCAACCTAGGCCCTTGGTCGTGCGGGAGCCTC-GGGACCATCGGCA
**
24257 ACCTAGGCCCCTGGTCGTATG
65 ACCTAGGCCCCTGGTCGTGCG
* *
24278 GGAG-CTCGGATACCATCGGCAACCTAGGCCCCTGGTCGTGCGGGAGCCTCGGGACCATCGGCAA
1 GGAGCCTCGGACACCATCGGCAACCTAGGCCCTTGGTCGTGCGGGAGCCTCGGGACCATCGGCAA
24342 CCTAGGCCCCTGGTCGTGCG
66 CCTAGGCCCCTGGTCGTGCG
* * *
24362 GGAGCCTCGGGCACCATCGGTAACCTAGGCCCCTGGTCGTGCGGGAGCCTCGGGCACCATCGGCA
1 GGAGCCTCGGACACCATCGGCAACCTAGGCCCTTGGTCGTGCGGGAGCCTCGGG-ACCATCGGCA
*
24427 CCCTAGGCCCCTGGTCGTGCG
65 ACCTAGGCCCCTGGTCGTGCG
* * *
24448 AGAGCCTC-GAGCACCATCGGC-ACCTAGGCCCTTGGTCGTGCGAGAGCCTCAGGACCATCGGC-
1 GGAGCCTCGGA-CACCATCGGCAACCTAGGCCCTTGGTCGTGCGGGAGCCTCGGGACCATCGGCA
*
24510 ACCTAGGCCCTTGGTCGTGCG
65 ACCTAGGCCCCTGGTCGTGCG
* ** * *
24531 GGAGCCTCCGG-CACCATCGGC-ACCTTGGTGCTTGAAT-GTGC-GAAGCCT-GGGACACCATCG
1 GGAGCCT-CGGACACCATCGGCAACCTAGGCCCTTG-GTCGTGCGGGAGCCTCGGG--ACCATCG
* *
24591 GTAACCTAGGCCCTTGGTCGTGCG
62 GCAACCTAGGCCCCTGGTCGTGCG
* * ** * * **
24615 GGAGCCTCGGGCACCATCGGC-ACCTTGGTGCTTGAT-GTGCGGGAGCCTCGGACACCATCGTTA
1 GGAGCCTCGGACACCATCGGCAACCTAGGCCCTTGGTCGTGCGGGAGCCTCGG-GACCATCGGCA
*
24678 ACCTAGGCCCTTGGTCGTGC-
65 ACCTAGGCCCCTGGTCGTGCG
* *
24698 GGAGCCTCGG-CACCATCGGTAACCTAGGCCCTTGGTCGTGCGGGACCCTCGGGCACCATCGGC-
1 GGAGCCTCGGACACCATCGGCAACCTAGGCCCTTGGTCGTGCGGGAGCCTCGGG-ACCATCGGCA
* **
24761 ACCTTGGTGCCTCGGAT-GTGCG
65 ACCTAGGCCCCT-GG-TCGTGCG
*
24783 GGAGCCTCGGACACCATAGGCAACCTAGG
1 GGAGCCTCGGACACCATCGGCAACCTAGG
24812 ACGTTGGATG
Statistics
Matches: 536, Mismatches: 54, Indels: 50
0.84 0.08 0.08
Matches are distributed among these distances:
80 20 0.04
81 27 0.05
82 31 0.06
83 122 0.23
84 156 0.29
85 94 0.18
86 86 0.16
ACGTcount: A:0.16, C:0.34, G:0.33, T:0.17
Consensus pattern (85 bp):
GGAGCCTCGGACACCATCGGCAACCTAGGCCCTTGGTCGTGCGGGAGCCTCGGGACCATCGGCAA
CCTAGGCCCCTGGTCGTGCG
Found at i:24662 original size:125 final size:125
Alignment explanation
Indices: 24111--24811 Score: 737
Period size: 125 Copynumber: 5.6 Consensus size: 125
24101 TGGATATGCA
** *
24111 GGAGCCTCGGAAACCATCGGCAACCTAGGCCCTTGGTCGTGCGGGAGCCTCAGG-CACCATCGGT
1 GGAGCCTCGGGCACCATCGGC-ACCTAGGCCCTTGATCGTGCGGGAGCCTC-GGACACCATCGG-
* * *
24175 AACCTAGGCCCTTGGTCGTGCGAGAGCCTCGGGCACCATCGGCAACCTA-GCCC-TGGTCGTGC-
63 CACCTAGGCCCTTGGTCGTGCGA-AGCCT-GGACACCATCGGTAACCTAGGCCCTTGGTCGTGCG
* * * * ** *
24237 GGAGCCTCAGACACCATC-GCACCTAGGCCCCTGGTCGTATGGGAG-CTCGGATACCATCGGCAA
1 GGAGCCTCGGGCACCATCGGCACCTAGGCCCTTGATCGTGCGGGAGCCTCGGACACCATCGGC-A
* * * * *
24300 CCTAGGCCCCTGGTCGTGCGGGAGCCTCGG-GACCATCGGCAACCTAGGCCCCTGGTCGTGCG
65 CCTAGGCCCTTGGTCGTGC-GAAGCCT-GGACACCATCGGTAACCTAGGCCCTTGGTCGTGCG
* * * *
24362 GGAGCCTCGGGCACCATCGGTAACCTAGGCCCCTGGTCGTGCGGGAGCCTCGGGCACCATCGGCA
1 GGAGCCTCGGGCACCATCGG-CACCTAGGCCCTTGATCGTGCGGGAGCCTCGGACACCATCGGCA
* * *
24427 CCCTAGGCCCCTGGTCGTGCGAGAGCCTCGAGCACCATCGG-CACCTAGGCCCTTGGTCGTGCG
65 -CCTAGGCCCTTGGTCGTGCGA-AGCCTGGA-CACCATCGGTAACCTAGGCCCTTGGTCGTGCG
* * *
24490 AGAGCCTCAGG-ACCATCGGCACCTAGGCCCTTGGTCGTGCGGGAGCCTCCGG-CACCATCGGCA
1 GGAGCCTCGGGCACCATCGGCACCTAGGCCCTTGATCGTGCGGGAGCCT-CGGACACCATCGGCA
* ** *
24553 CCTTGGTGCTTGAAT-GTGCGAAGCCTGGGACACCATCGGTAACCTAGGCCCTTGGTCGTGCG
65 CCTAGGCCCTTG-GTCGTGCGAAGCCT-GGACACCATCGGTAACCTAGGCCCTTGGTCGTGCG
* ** **
24615 GGAGCCTCGGGCACCATCGGCACCTTGGTGCTTGAT-GTGCGGGAGCCTCGGACACCATCGTTAA
1 GGAGCCTCGGGCACCATCGGCACCTAGGCCCTTGATCGTGCGGGAGCCTCGGACACCATCG-GCA
*
24679 CCTAGGCCCTTGGTCGTGCGGAGCCTCGG-CACCATCGGTAACCTAGGCCCTTGGTCGTGCG
65 CCTAGGCCCTTGGTCGTGCGAAGCCT-GGACACCATCGGTAACCTAGGCCCTTGGTCGTGCG
* * * * *
24740 GGACCCTCGGGCACCATCGGCACCTTGGTGCCTCGGAT-GTGCGGGAGCCTCGGACACCATAGGC
1 GGAGCCTCGGGCACCATCGGCACCTAGG-CCCT-TGATCGTGCGGGAGCCTCGGACACCATCGGC
24804 AACCTAGG
64 -ACCTAGG
24812 ACGTTGGATG
Statistics
Matches: 497, Mismatches: 54, Indels: 47
0.83 0.09 0.08
Matches are distributed among these distances:
122 17 0.03
123 42 0.08
124 49 0.10
125 144 0.29
126 100 0.20
127 70 0.14
128 67 0.13
129 8 0.02
ACGTcount: A:0.16, C:0.34, G:0.33, T:0.17
Consensus pattern (125 bp):
GGAGCCTCGGGCACCATCGGCACCTAGGCCCTTGATCGTGCGGGAGCCTCGGACACCATCGGCAC
CTAGGCCCTTGGTCGTGCGAAGCCTGGACACCATCGGTAACCTAGGCCCTTGGTCGTGCG
Found at i:24834 original size:43 final size:43
Alignment explanation
Indices: 24111--24811 Score: 809
Period size: 43 Copynumber: 16.7 Consensus size: 43
24101 TGGATATGCA
*
24111 GGAGCCTCGGAAACCATCGGCAACCTAGGCCCTTGGTCGTGCG
1 GGAGCCTCGGACACCATCGGCAACCTAGGCCCTTGGTCGTGCG
*
24154 GGAGCCTCAGG-CACCATCGGTAACCTAGGCCCTTGGTCGTGCG
1 GGAGCCTC-GGACACCATCGGCAACCTAGGCCCTTGGTCGTGCG
* *
24197 AGAGCCTCGGGCACCATCGGCAACCTA-GCCC-TGGTCGTGC-
1 GGAGCCTCGGACACCATCGGCAACCTAGGCCCTTGGTCGTGCG
* * **
24237 GGAGCCTCAGACACCATC-GC-ACCTAGGCCCCTGGTCGTATG
1 GGAGCCTCGGACACCATCGGCAACCTAGGCCCTTGGTCGTGCG
* *
24278 GGAG-CTCGGATACCATCGGCAACCTAGGCCCCTGGTCGTGCG
1 GGAGCCTCGGACACCATCGGCAACCTAGGCCCTTGGTCGTGCG
* *
24320 GGAGCCTCGG-GACCATCGGCAACCTAGGCCCCTGGTCGTGCG
1 GGAGCCTCGGACACCATCGGCAACCTAGGCCCTTGGTCGTGCG
* * *
24362 GGAGCCTCGGGCACCATCGGTAACCTAGGCCCCTGGTCGTGCG
1 GGAGCCTCGGACACCATCGGCAACCTAGGCCCTTGGTCGTGCG
* * *
24405 GGAGCCTCGGGCACCATCGGCACCCTAGGCCCCTGGTCGTGCG
1 GGAGCCTCGGACACCATCGGCAACCTAGGCCCTTGGTCGTGCG
*
24448 AGAGCCTC-GAGCACCATCGGC-ACCTAGGCCCTTGGTCGTGCG
1 GGAGCCTCGGA-CACCATCGGCAACCTAGGCCCTTGGTCGTGCG
*
24490 AGAGCCTCAGG--ACCATCGGC-ACCTAGGCCCTTGGTCGTGCG
1 GGAGCCTC-GGACACCATCGGCAACCTAGGCCCTTGGTCGTGCG
* ** *
24531 GGAGCCTCCGG-CACCATCGGC-ACCTTGGTGCTTGAAT-GTGC-
1 GGAGCCT-CGGACACCATCGGCAACCTAGGCCCTTG-GTCGTGCG
* * *
24572 GAAGCCTGGGACACCATCGGTAACCTAGGCCCTTGGTCGTGCG
1 GGAGCCTCGGACACCATCGGCAACCTAGGCCCTTGGTCGTGCG
* * ** *
24615 GGAGCCTCGGGCACCATCGGC-ACCTTGGTGCTTGAT-GTGCG
1 GGAGCCTCGGACACCATCGGCAACCTAGGCCCTTGGTCGTGCG
**
24656 GGAGCCTCGGACACCATCGTTAACCTAGGCCCTTGGTCGTGC-
1 GGAGCCTCGGACACCATCGGCAACCTAGGCCCTTGGTCGTGCG
*
24698 GGAGCCTCGG-CACCATCGGTAACCTAGGCCCTTGGTCGTGCG
1 GGAGCCTCGGACACCATCGGCAACCTAGGCCCTTGGTCGTGCG
* * * * *
24740 GGACCCTCGGGCACCATCGGC-ACCTTGGTGCCTCGGAT-GTGCG
1 GGAGCCTCGGACACCATCGGCAACCTAGG-CCCTTGG-TCGTGCG
*
24783 GGAGCCTCGGACACCATAGGCAACCTAGG
1 GGAGCCTCGGACACCATCGGCAACCTAGG
24812 ACGTTGGATG
Statistics
Matches: 573, Mismatches: 59, Indels: 51
0.84 0.09 0.07
Matches are distributed among these distances:
38 5 0.01
39 6 0.01
40 35 0.06
41 122 0.21
42 183 0.32
43 212 0.37
44 10 0.02
ACGTcount: A:0.16, C:0.34, G:0.33, T:0.17
Consensus pattern (43 bp):
GGAGCCTCGGACACCATCGGCAACCTAGGCCCTTGGTCGTGCG
Found at i:24864 original size:86 final size:85
Alignment explanation
Indices: 24072--24870 Score: 248
Period size: 84 Copynumber: 9.5 Consensus size: 85
24062 GGTGCAAGAG
* * * * * * * *
24072 CCTCGAGCAGCATCGGCACCTTGGTGCCTTGGATATGCAGGAGCCTCGGAAACCATCGGCAACCT
1 CCTCGAGCAACAGCGGCACCCTGGTGCCTCGGATGTGCGGGAGCCTCGG-CACCATAGGCAACCT
* *
24137 AGGCCCTTGGTCGTGCGGGAG
65 AGGACCTTGGTCGTGCGGGAC
* * * * * * * *
24158 CCTC-AGGCACCATCGGTAACCTAGG-CCCTTGG-TCGTGCGAGAGCCTCGGGCACCATCGGCAA
1 CCTCGA-GCAACAGCGGCACCCT-GGTGCCTCGGAT-GTGCGGGAGCCTC-GGCACCATAGGCAA
* *
24220 CCTA-G-CCCTGGTCGTGC-GGAG
62 CCTAGGACCTTGGTCGTGCGGGAC
* * * * ** * *
24241 CCTC-AGACACCATC-GCA-CCTAG-GCCCCTGG-TCGTATGGGAG-CTCGGATACCATCGGCAA
1 CCTCGAG-CAACAGCGGCACCCTGGTGCCTC-GGAT-GTGCGGGAGCCTCGG-CACCATAGGCAA
* * *
24300 CCTAGGCCCCTGGTCGTGCGGGAG
62 CCTAGGACCTTGGTCGTGCGGGAC
* * * * * * * *
24324 CCTCG-GGACCATCGGCAACCTAG-GCCCCTGG-TCGTGCGGGAGCCTCGGGCACCATCGGTAAC
1 CCTCGAGCAACAGCGGCACCCTGGTGCCTC-GGAT-GTGCGGGAGCCTC-GGCACCATAGGCAAC
* * *
24386 CTAGGCCCCTGGTCGTGCGGGAG
63 CTAGGACCTTGGTCGTGCGGGAC
* * * * * * *
24409 CCTCGGGCACCATCGGCACCCTAG-GCCCCTGG-TCGTGCGAGAGCCTCGAGCACCATCGGC-AC
1 CCTCGAGCAACAGCGGCACCCTGGTGCCTC-GGAT-GTGCGGGAGCCTCG-GCACCATAGGCAAC
* * *
24471 CTAGGCCCTTGGTCGTGCGAGAG
63 CTAGGACCTTGGTCGTGCGGGAC
* * * * * *
24494 CCTC-AGGACCATCGGCA-CCTAGG-CCCTTGG-TCGTGCGGGAGCCTCCGGCACCATCGGC-AC
1 CCTCGAGCAACAGCGGCACCCT-GGTGCCTCGGAT-GTGCGGGAGCCT-CGGCACCATAGGCAAC
* ** * * *
24554 CTTGGTGCTTGAAT-GTGC-GAAG
63 CTAGGACCTTG-GTCGTGCGGGAC
* * * * * * * *
24576 CCT-GGGACACCATCGGTAACCTAGG-CCCTTGG-TCGTGCGGGAGCCTCGGGCACCATCGGC-A
1 CCTCGAG-CAACAGCGGCACCCT-GGTGCCTCGGAT-GTGCGGGAGCCTC-GGCACCATAGGCAA
* ** * *
24637 CCTTGGTGCTTGAT-GTGCGGGAG
62 CCTAGGACCTTGGTCGTGCGGGAC
* * ** * * * * *
24660 CCTCG-GACACCATCGTTAACCTAGG-CCCTTGG-TCGTGC-GGAGCCTCGGCACCATCGGTAAC
1 CCTCGAG-CAACAGCGGCACCCT-GGTGCCTCGGAT-GTGCGGGAGCCTCGGCACCATAGGCAAC
*
24721 CTAGGCCCTTGGTCGTGCGGGAC
63 CTAGGACCTTGGTCGTGCGGGAC
* * * *
24744 CCTCGGGCACCATCGGCACCTTGGTGCCTCGGATGTGCGGGAGCCTCGGACACCATAGGCAACCT
1 CCTCGAGCAACAGCGGCACCCTGGTGCCTCGGATGTGCGGGAGCCTCGG-CACCATAGGCAACCT
*
24809 AGGACGTTGGAT-GTGCGGGTA-
65 AGGACCTTGG-TCGTGCGGG-AC
*
24830 CCTCGAGCAACAGGGGCACCCTGGTGCCTCGGATGTGCGGG
1 CCTCGAGCAACAGCGGCACCCTGGTGCCTCGGATGTGCGGG
24871 CTAAAGAAAA
Statistics
Matches: 609, Mismatches: 69, Indels: 70
0.81 0.09 0.09
Matches are distributed among these distances:
79 2 0.00
80 21 0.03
81 14 0.02
82 38 0.06
83 108 0.18
84 173 0.28
85 86 0.14
86 161 0.26
87 6 0.01
ACGTcount: A:0.16, C:0.33, G:0.33, T:0.18
Consensus pattern (85 bp):
CCTCGAGCAACAGCGGCACCCTGGTGCCTCGGATGTGCGGGAGCCTCGGCACCATAGGCAACCTA
GGACCTTGGTCGTGCGGGAC
Done.