Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold513
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: 613464
ACGTcount: A:0.31, C:0.19, G:0.18, T:0.32
File 1 of 5
Found at i:10357 original size:13 final size:13
Alignment explanation
Indices: 10339--10402 Score: 67
Period size: 13 Copynumber: 4.7 Consensus size: 13
10329 CCTTCTCTTC
10339 AAAAAAAAAGCAA
1 AAAAAAAAAGCAA
*
10352 AAAAAAAAACCAA
1 AAAAAAAAAGCAA
*
10365 AAAAAAAAAACAAA
1 AAAAAAAAAGC-AA
10379 ACAAAGAAAAAG-AGA
1 A-AAA-AAAAAGCA-A
10394 AAAAAAAAA
1 AAAAAAAAA
10403 TCTGCTTAAG
Statistics
Matches: 44, Mismatches: 3, Indels: 8
0.80 0.05 0.15
Matches are distributed among these distances:
13 27 0.61
14 7 0.16
15 5 0.11
16 5 0.11
ACGTcount: A:0.86, C:0.08, G:0.06, T:0.00
Consensus pattern (13 bp):
AAAAAAAAAGCAA
Found at i:11454 original size:55 final size:55
Alignment explanation
Indices: 11370--13477 Score: 3331
Period size: 55 Copynumber: 38.3 Consensus size: 55
11360 TCGGCTTTTT
11370 AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTC
1 AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTC
11425 AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTC
1 AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTC
* * *
11480 AGTCCCCAAAGAGCAGGACACCT-TTCAAAGCCCACCCAAGTTGGTGGCA-TTTTC
1 AGTCCTCAAAGAGCAGGACACCTCTT-AAAGCCCACACAAGTTGGTGGCACCTTTC
11534 TAGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTC
1 -AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTC
11590 AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTC
1 AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTC
* * *
11645 AGTCCCCAAAGAGCAGGACACCT-TTCAAAGCCCACCCAAGTTGGTGGCA-TTTTCC
1 AGTCCTCAAAGAGCAGGACACCTCTT-AAAGCCCACACAAGTTGGTGGCACCTTT-C
11700 AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTC
1 AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTC
* * *
11755 AGTCCCCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCGCCTTCC
1 AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTC
11810 AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTC
1 AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTC
* * *
11865 AGTCCCCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCGCCTTCC
1 AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTC
11920 AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTC
1 AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTC
* * *
11975 AGTCCCCAAAGAGCAGGACACCT-TTCAAAGCCCACCCAAGTTGGTGGCA-TTTTCC
1 AGTCCTCAAAGAGCAGGACACCTCTT-AAAGCCCACACAAGTTGGTGGCACCTTT-C
*
12030 AGTCCTCAAAGAGCAGAACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTC
1 AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTC
12085 AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTC
1 AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTC
* * *
12140 AGTCCCCAAAGAGCAGGACACCT-TTCAAAGCCCACCCAAGTTGGTGGCA-TTTTCC
1 AGTCCTCAAAGAGCAGGACACCTCTT-AAAGCCCACACAAGTTGGTGGCACCTTT-C
12195 AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTC
1 AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTC
* * * *
12250 AGTCCCCAAAGAGTAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCGCCTTCC
1 AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTC
12305 AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTC
1 AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTC
* * *
12360 AGTCCCCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCGCCTTCC
1 AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTC
*
12415 AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCA-TTTTCC
1 AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTT-C
* * *
12470 AATCCTCAAAGAACAGGACACCT-TTCAAAGCCCACACAAGTTGGTGGCA-TTTTCC
1 AGTCCTCAAAGAGCAGGACACCTCTT-AAAGCCCACACAAGTTGGTGGCACCTTT-C
12525 AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTC
1 AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTC
* * *
12580 ATTCCCCAAAGAGCAGGACA-CTTTTCAAAGCCCACACAAGTTGGTGGCACCTTTC
1 AGTCCTCAAAGAGCAGGACACCTCTT-AAAGCCCACACAAGTTGGTGGCACCTTTC
* * *
12635 AGTCCCCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCGCCTTCC
1 AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTC
12690 AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTC
1 AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTC
* * *
12745 AGTCCCCAAAGAGCAGGACACCT-TTCAAAGCCCACCCAAGTTGGTGGCA-TTTTCC
1 AGTCCTCAAAGAGCAGGACACCTCTT-AAAGCCCACACAAGTTGGTGGCACCTTT-C
12800 AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTC
1 AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTC
*
12855 AGTCCTCAAAGAGCAGGACACTTCTTAAAGCCCACACAAGTTGGTGGCACCTTTC
1 AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTC
* * *
12910 AGTCCCCAAAGAGCAGGACACCT-TTCAAAGCCCACCCAAGTTGGTGGCA-TTTTCC
1 AGTCCTCAAAGAGCAGGACACCTCTT-AAAGCCCACACAAGTTGGTGGCACCTTT-C
12965 AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTC
1 AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTC
* * *
13020 AGTCCCCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCGCCTTCC
1 AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTC
13075 AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTC
1 AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTC
* * *
13130 AGTCCCCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCGCCTTCC
1 AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTC
*
13185 AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCA-TTTTCC
1 AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTT-C
* *
13240 AGTCCTCAAAGAACAGGACACCT-TTCAAAGCCCACACAAGTTGGTGGCA-TTTTCC
1 AGTCCTCAAAGAGCAGGACACCTCTT-AAAGCCCACACAAGTTGGTGGCACCTTT-C
13295 AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTC
1 AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTC
* * *
13350 ATTCCCCAAAGAGCAGGACA-CTTTTCAAAGCCCACACAAGTTGGTGGCACCTTTC
1 AGTCCTCAAAGAGCAGGACACCTCTT-AAAGCCCACACAAGTTGGTGGCACCTTTC
* * * *
13405 AGTCCTCAAAGAGCAGGACGCCT-TTCAAAGCCCACACGAGTTGGTGGCACTTTTT
1 AGTCCTCAAAGAGCAGGACACCTCTT-AAAGCCCACACAAGTTGGTGGCACCTTTC
* *
13460 ACTCCTCAATGAGCAGGA
1 AGTCCTCAAAGAGCAGGA
13478 TACAGTTTAT
Statistics
Matches: 1908, Mismatches: 109, Indels: 72
0.91 0.05 0.03
Matches are distributed among these distances:
54 47 0.02
55 1814 0.95
56 47 0.02
ACGTcount: A:0.29, C:0.31, G:0.20, T:0.20
Consensus pattern (55 bp):
AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTC
Found at i:12587 original size:29 final size:29
Alignment explanation
Indices: 12555--12642 Score: 67
Period size: 29 Copynumber: 3.1 Consensus size: 29
12545 CCTCTTAAAG
*
12555 CCCACACAAGTTGGTGGCACCTTTCATTC
1 CCCACACAAGTTGGTGGCACCTTTCAATC
** * * **
12584 CCCA-A-AGAG-CAG-GACACTTTTCAAAG
1 CCCACACA-AGTTGGTGGCACCTTTCAATC
*
12610 CCCACACAAGTTGGTGGCACCTTTCAGTC
1 CCCACACAAGTTGGTGGCACCTTTCAATC
12639 CCCA
1 CCCA
12643 AAGAGCAGGA
Statistics
Matches: 40, Mismatches: 14, Indels: 10
0.62 0.22 0.16
Matches are distributed among these distances:
26 13 0.32
27 5 0.12
28 5 0.12
29 17 0.43
ACGTcount: A:0.26, C:0.34, G:0.18, T:0.22
Consensus pattern (29 bp):
CCCACACAAGTTGGTGGCACCTTTCAATC
Found at i:14059 original size:19 final size:19
Alignment explanation
Indices: 14035--14102 Score: 85
Period size: 19 Copynumber: 3.9 Consensus size: 19
14025 AATTCAACAA
14035 TTTGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
14054 TTTGTATCGATAC--AA--
1 TTTGTATCGATACATAAGT
14069 --TGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
*
14086 ATTGTATCGATACATAA
1 TTTGTATCGATACATAA
14103 TTAGCTACTG
Statistics
Matches: 43, Mismatches: 0, Indels: 12
0.78 0.00 0.22
Matches are distributed among these distances:
13 11 0.26
15 2 0.05
17 2 0.05
19 28 0.65
ACGTcount: A:0.35, C:0.12, G:0.15, T:0.38
Consensus pattern (19 bp):
TTTGTATCGATACATAAGT
Found at i:14074 original size:13 final size:13
Alignment explanation
Indices: 14056--14080 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
14046 ACATAAGTTT
14056 TGTATCGATACAA
1 TGTATCGATACAA
14069 TGTATCGATACA
1 TGTATCGATACA
14081 TAAGTATTGT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:14078 original size:32 final size:32
Alignment explanation
Indices: 14037--14099 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
14027 TTCAACAATT
*
14037 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTATTGTATCGATACAA
14069 TGTATCGATACATAAGTATTGTATCGATACA
1 TGTATCGATACATAAGTATTGTATCGATACA
14100 TAATTAGCTA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.37
Consensus pattern (32 bp):
TGTATCGATACATAAGTATTGTATCGATACAA
Found at i:14160 original size:13 final size:13
Alignment explanation
Indices: 14142--14167 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
14132 CATTTTTCTG
14142 TGTATCGATACAT
1 TGTATCGATACAT
14155 TGTATCGATACAT
1 TGTATCGATACAT
14168 GGATCTTTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:14164 original size:33 final size:33
Alignment explanation
Indices: 14122--14188 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
14112 GCCAAGGAAA
***
14122 TGTATCGATACATTTTTCTGTGTATCGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
*
14155 TGTATCGATACATGGATCTTTGTATCGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
14188 T
1 T
14189 TGGAAATTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.25, C:0.15, G:0.16, T:0.43
Consensus pattern (33 bp):
TGTATCGATACATGGATCTGTGTATCGATACAT
Found at i:14230 original size:20 final size:20
Alignment explanation
Indices: 14205--14259 Score: 110
Period size: 20 Copynumber: 2.8 Consensus size: 20
14195 TTTTACCCAG
14205 ATGTATCGATACATTTTACA
1 ATGTATCGATACATTTTACA
14225 ATGTATCGATACATTTTACA
1 ATGTATCGATACATTTTACA
14245 ATGTATCGATACATT
1 ATGTATCGATACATT
14260 CAGGCATTTT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 35 1.00
ACGTcount: A:0.35, C:0.15, G:0.11, T:0.40
Consensus pattern (20 bp):
ATGTATCGATACATTTTACA
Found at i:16611 original size:51 final size:53
Alignment explanation
Indices: 16538--16672 Score: 154
Period size: 51 Copynumber: 2.6 Consensus size: 53
16528 GTTGAGTTGC
* *
16538 TCAA-TTCTCCACAATCGAGGATATTCCAACTCCGATTTTACTTT-C-AAAACA
1 TCAATTTCTTCACAATCGGGGATATTCCAACTCCGATTTTA-TTTCCAAAAACA
* * *
16589 TTAA-TT-TTCTATAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAAACA
1 TCAATTTCTTC-ACAATCGGGGATATTCCAACTCCGATTTTATTTCC-AAAAACA
*
16642 TCAATTTCTTCACAATCGGGGACATTCCAAC
1 TCAATTTCTTCACAATCGGGGATATTCCAAC
16673 CCCGTTAATC
Statistics
Matches: 69, Mismatches: 9, Indels: 9
0.79 0.10 0.10
Matches are distributed among these distances:
50 5 0.07
51 33 0.48
53 9 0.13
54 19 0.28
55 3 0.04
ACGTcount: A:0.33, C:0.25, G:0.10, T:0.33
Consensus pattern (53 bp):
TCAATTTCTTCACAATCGGGGATATTCCAACTCCGATTTTATTTCCAAAAACA
Found at i:16773 original size:51 final size:51
Alignment explanation
Indices: 16714--16886 Score: 211
Period size: 52 Copynumber: 3.4 Consensus size: 51
16704 TTATTTCCGA
* ***
16714 GGGGATACTCCAACCTCGACTTTATTTCCAAAATATTGATTTTTCATAATC
1 GGGGATACTCCAACCTCGATTTTATTTCCAAAATACCAATTTTTCATAATC
* * * * * *
16765 GGGGATACTCCAACCCCGGTTTTATTTTCAAAACACCAATTTTCCTTTAATC
1 GGGGATACTCCAACCTCGATTTTATTTCCAAAATACCAATTTTTC-ATAATC
* *
16817 GGGGATACTCCAACATCGATTTTATTTCCAAAAATACCAATTTTTCACAATC
1 GGGGATACTCCAACCTCGATTTTATTTCC-AAAATACCAATTTTTCATAATC
*
16869 GAGGATACTCCAACCTCG
1 GGGGATACTCCAACCTCG
16887 TTATTTCATC
Statistics
Matches: 100, Mismatches: 20, Indels: 3
0.81 0.16 0.02
Matches are distributed among these distances:
51 36 0.36
52 50 0.50
53 14 0.14
ACGTcount: A:0.30, C:0.25, G:0.12, T:0.33
Consensus pattern (51 bp):
GGGGATACTCCAACCTCGATTTTATTTCCAAAATACCAATTTTTCATAATC
Found at i:16902 original size:28 final size:28
Alignment explanation
Indices: 16866--16947 Score: 96
Period size: 28 Copynumber: 2.9 Consensus size: 28
16856 ATTTTTCACA
* *
16866 ATCGAGGATACTCCAACCTCGTTATTTC
1 ATCGGGGATACTCCAACCCCGTTATTTC
*
16894 ATCGGGGATACTCCAACCCCGTTACTTC
1 ATCGGGGATACTCCAACCCCGTTATTTC
*
16922 --CGAGGGAACACTCCAACCCCGTTATT
1 ATCG-GGG-ATACTCCAACCCCGTTATT
16948 ATCTCCAAAA
Statistics
Matches: 47, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
26 2 0.04
27 3 0.06
28 42 0.89
ACGTcount: A:0.24, C:0.33, G:0.17, T:0.26
Consensus pattern (28 bp):
ATCGGGGATACTCCAACCCCGTTATTTC
Found at i:16957 original size:211 final size:210
Alignment explanation
Indices: 16550--16957 Score: 563
Period size: 211 Copynumber: 1.9 Consensus size: 210
16540 AATTCTCCAC
* * **
16550 AATCGAGGATATTCCAACTCCGATTTTACTTTCAAAACATTAATTTTCTATAATCGGGGATACTC
1 AATCGAGGATACTCCAACCCCGATTTTACTTTCAAAACACCAATTTTCTATAATCGGGGATACTC
* *
16615 CAACTCCGATTTTATTTCCAAAAAACATCAATTTCTTCACAATCGGGGACATTCCAACCCCGTTA
66 CAACTCCGATTTTATTTCCAAAAAACA-CAATTTCTTCACAATCGAGGACACTCCAACCCCGTTA
* * * * *
16680 ATCATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCTCGACTTTATTTCCAA
130 ATCATCGGGGATACTCCAACCCCGTTACTTCCGAGGGAACACTCCAACCCCGACTTTATCTCCAA
16745 AATATTGATTTTTCAT
195 AATATTGATTTTTCAT
* * * *
16761 AATCGGGGATACTCCAACCCCGGTTTTATTTTCAAAACACCAATTTTCCTTTAATCGGGGATACT
1 AATCGAGGATACTCCAACCCCGATTTTACTTTCAAAACACCAATTTT-CTATAATCGGGGATACT
* *
16826 CCAACAT-CGATTTTATTTCCAAAAATAC-CAATTT-TTCACAATCGAGGATACTCCAACCTCGT
65 CCAAC-TCCGATTTTATTTCCAAAAA-ACACAATTTCTTCACAATCGAGGACACTCCAACCCCGT
* *
16888 TATTTCATCGGGGATACTCCAACCCCGTTACTTCCGAGGGAACACTCCAACCCCG-TTATTATCT
128 TA-ATCATCGGGGATACTCCAACCCCGTTACTTCCGAGGGAACACTCCAACCCCGACT-TTATCT
16952 CCAAAA
191 CCAAAA
16958 CATTAAATTT
Statistics
Matches: 173, Mismatches: 19, Indels: 10
0.86 0.09 0.05
Matches are distributed among these distances:
210 27 0.16
211 104 0.60
212 39 0.23
213 3 0.02
ACGTcount: A:0.30, C:0.27, G:0.12, T:0.31
Consensus pattern (210 bp):
AATCGAGGATACTCCAACCCCGATTTTACTTTCAAAACACCAATTTTCTATAATCGGGGATACTC
CAACTCCGATTTTATTTCCAAAAAACACAATTTCTTCACAATCGAGGACACTCCAACCCCGTTAA
TCATCGGGGATACTCCAACCCCGTTACTTCCGAGGGAACACTCCAACCCCGACTTTATCTCCAAA
ATATTGATTTTTCAT
Found at i:18205 original size:79 final size:79
Alignment explanation
Indices: 18073--18451 Score: 248
Period size: 79 Copynumber: 4.8 Consensus size: 79
18063 ACAACGGGGC
* **
18073 TGGAGTATCCCTTGATTATGAAAAATCGGTGTTCTAGAAATAAAATCGGGGTTGGAGTAT-CCTC
1 TGGAGTATCCC-TGATTATAAAAAATCGGTGTTCTAGAAATAAAATCAAGGTTGGAGTATCCCT-
18137 TCGAAAATAACAGGGT
64 TCGAAAATAACAGGGT
* *
18153 TGGAGCATCCCTGATTATAAAAAATCGAG-GTT-TTGAAAATAAAATCAAGGTTGGAGTATCCCT
1 TGGAGTATCCCTGATTATAAAAAATCG-GTGTTCTAG-AAATAAAATCAAGGTTGGAGTATCCCT
* *
18216 TCGAAGATAACGGGGT
64 TCGAAAATAACAGGGT
* * ** ** ** ** *
18232 TGGAGTATCCCCGATTGTGGAAAATCGAAGCTT-TAGAAAT-AAGGCTGGGGTTGGAGTATCCCC
1 TGGAGTATCCCTGATTATAAAAAATCGGTG-TTCTAGAAATAAAATC-AAGGTTGGAGTATCCCT
* * *
18295 ACCAAAATAACGGGGT
64 TCGAAAATAACAGGGT
** * * * ** * * ** **
18311 TGGAGTATCCCCAATTGTGAGAAATCAATATTTTAGAAATAAAGCCGGGGTTGGAGTATCCCTTC
1 TGGAGTATCCCTGATTATAAAAAATCGGTGTTCTAGAAATAAAATCAAGGTTGGAGTATCCCTTC
*
18376 GAAAATAA-TGGGAT
66 GAAAATAACAGGG-T
* * * * * * * ** *
18390 TGGAGTATCCCCGATTATGAAAAATTGATGTTTTGGAAATAAAACCGGGGTTAGAGTATCCC
1 TGGAGTATCCCTGATTATAAAAAATCGGTGTTCTAGAAATAAAATCAAGGTTGGAGTATCCC
18452 CGAGATGAAA
Statistics
Matches: 248, Mismatches: 42, Indels: 19
0.80 0.14 0.06
Matches are distributed among these distances:
78 10 0.04
79 216 0.87
80 22 0.09
ACGTcount: A:0.33, C:0.15, G:0.25, T:0.27
Consensus pattern (79 bp):
TGGAGTATCCCTGATTATAAAAAATCGGTGTTCTAGAAATAAAATCAAGGTTGGAGTATCCCTTC
GAAAATAACAGGGT
Found at i:18479 original size:50 final size:50
Alignment explanation
Indices: 18392--18513 Score: 163
Period size: 50 Copynumber: 2.4 Consensus size: 50
18382 AATGGGATTG
* ** * * *
18392 GAGTATCCCCGATTATGAAAAATTGATGTTTTGGAAATAAAACCGGGGTTA
1 GAGTATCCCCGA-GATGAAAAATCAATATTTTAGAAATAAAACCAGGGTTA
*
18443 GAGTATCCCCGAGATGAAAAATCAATATTTTAGAAATAAAACCAGGGTTG
1 GAGTATCCCCGAGATGAAAAATCAATATTTTAGAAATAAAACCAGGGTTA
*
18493 GAGTATCCCTGAGATGAAAAA
1 GAGTATCCCCGAGATGAAAAA
18514 CCTAAAAATT
Statistics
Matches: 63, Mismatches: 8, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
50 51 0.81
51 12 0.19
ACGTcount: A:0.39, C:0.13, G:0.22, T:0.25
Consensus pattern (50 bp):
GAGTATCCCCGAGATGAAAAATCAATATTTTAGAAATAAAACCAGGGTTA
Found at i:20846 original size:20 final size:20
Alignment explanation
Indices: 20795--20889 Score: 93
Period size: 20 Copynumber: 4.8 Consensus size: 20
20785 AAAATGCCTG
*
20795 AATGTATCGATACATTGAAA-
1 AATGTATCGATACAAT-AAAC
* * *
20815 ATTATATTGATACAATAAAC
1 AATGTATCGATACAATAAAC
* **
20835 AATGTATCGATATAATGCAC
1 AATGTATCGATACAATAAAC
**
20855 AATGTATCGATACAATGCAC
1 AATGTATCGATACAATAAAC
20875 AATGTATCGATACAA
1 AATGTATCGATACAA
20890 ATTGTGAAAA
Statistics
Matches: 63, Mismatches: 11, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
19 3 0.05
20 60 0.95
ACGTcount: A:0.44, C:0.14, G:0.13, T:0.29
Consensus pattern (20 bp):
AATGTATCGATACAATAAAC
Found at i:32190 original size:32 final size:32
Alignment explanation
Indices: 32135--32232 Score: 151
Period size: 32 Copynumber: 3.0 Consensus size: 32
32125 TTCAATGATT
* *
32135 TGTATCGACACATAAAGTGTTGTATCAATACAA
1 TGTATCGATACAT-AAGTGTTGTATCGATACAA
32168 TGTATCGATACATAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
* *
32200 TGTATCAATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
32232 T
1 T
32233 ATAAGCTATT
Statistics
Matches: 61, Mismatches: 4, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
32 49 0.80
33 12 0.20
ACGTcount: A:0.37, C:0.13, G:0.15, T:0.35
Consensus pattern (32 bp):
TGTATCGATACATAAGTGTTGTATCGATACAA
Found at i:32192 original size:19 final size:18
Alignment explanation
Indices: 32168--32230 Score: 64
Period size: 19 Copynumber: 3.7 Consensus size: 18
32158 ATCAATACAA
32168 TGTATCGATACATAAGTGT
1 TGTATCGATACATAAGT-T
32187 TGTATCGATAC--AA---
1 TGTATCGATACATAAGTT
*
32200 TGTATCAATACATAAGTTT
1 TGTATCGATACATAAG-TT
32219 TGTATCGATACA
1 TGTATCGATACA
32231 ATATAAGCTA
Statistics
Matches: 36, Mismatches: 2, Indels: 12
0.72 0.04 0.24
Matches are distributed among these distances:
13 10 0.28
15 2 0.06
17 2 0.06
19 22 0.61
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.37
Consensus pattern (18 bp):
TGTATCGATACATAAGTT
Found at i:32291 original size:13 final size:13
Alignment explanation
Indices: 32273--32297 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
32263 ACTACCCAAA
32273 TGTATCGATACAT
1 TGTATCGATACAT
32286 TGTATCGATACA
1 TGTATCGATACA
32298 CTGATCTTTG
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:32349 original size:52 final size:50
Alignment explanation
Indices: 32286--32434 Score: 217
Period size: 52 Copynumber: 2.9 Consensus size: 50
32276 ATCGATACAT
*
32286 TGTATCGATACACTGATCTTTGTATCGATACATGCAGGCAAATTTGCCCAGA
1 TGTATCGATACACT-AT-TATGTATCGATACATGCAGGCAAATTTGCCCAGA
*
32338 TGTATCGATACACTATAAAATGTATCGATACATGCAGGCAAATTTGCCCAGA
1 TGTATCGATACACTAT--TATGTATCGATACATGCAGGCAAATTTGCCCAGA
*
32390 TGTATCGATATACTATTAAATGTATCGATACATGCAGGCAAATTT
1 TGTATCGATACACTATT--ATGTATCGATACATGCAGGCAAATTT
32435 TCATATTTCG
Statistics
Matches: 89, Mismatches: 5, Indels: 6
0.89 0.05 0.06
Matches are distributed among these distances:
51 2 0.02
52 87 0.98
ACGTcount: A:0.34, C:0.18, G:0.17, T:0.31
Consensus pattern (50 bp):
TGTATCGATACACTATTATGTATCGATACATGCAGGCAAATTTGCCCAGA
Found at i:39311 original size:17 final size:15
Alignment explanation
Indices: 39287--39327 Score: 64
Period size: 15 Copynumber: 2.7 Consensus size: 15
39277 AGTCAAAAGT
39287 AAACAAAAAAAACAAA
1 AAACAAAAAAAA-AAA
*
39303 ACACAAAAAAAAAAA
1 AAACAAAAAAAAAAA
39318 AAACAAAAAA
1 AAACAAAAAA
39328 GGTGCAAAGG
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 12 0.52
16 11 0.48
ACGTcount: A:0.88, C:0.12, G:0.00, T:0.00
Consensus pattern (15 bp):
AAACAAAAAAAAAAA
Found at i:40713 original size:31 final size:30
Alignment explanation
Indices: 40604--41100 Score: 240
Period size: 31 Copynumber: 16.1 Consensus size: 30
40594 AATTCTTCAA
* * *
40604 ATCTCTTCTCAAAGTCCACGACTCAGTGGC
1 ATCTCTTCTTAAAGTCCACAATTCAGTGGC
*
40634 ATC-CTTGTCTTCAAAGTCCACGACTT-AGTGGC
1 ATCTC-T-TCTT-AAAGTCCAC-AATTCAGTGGC
* *
40666 AT-TTTGTCCTAAAGTCCACAATTCAGTGGC
1 ATCTCT-TCTTAAAGTCCACAATTCAGTGGC
* *
40696 ATCTCCTTCTTAAAGTCCACGACTCAGTGGC
1 ATCT-CTTCTTAAAGTCCACAATTCAGTGGC
* * * * *
40727 AATTTCTTCTCAAAGCCCACGACTCAGTGGC
1 -ATCTCTTCTTAAAGTCCACAATTCAGTGGC
* * *
40758 ATTTTTTCCTAAAGTCCACAATTCAGTGGC
1 ATCTCTTCTTAAAGTCCACAATTCAGTGGC
* *
40788 ATCTCCTTCTTAAAGTCCACGACTCAGTGGC
1 ATCT-CTTCTTAAAGTCCACAATTCAGTGGC
* * * *
40819 AATCTCTTCTCAAAGCCCATGACTT-AGTGGC
1 -ATCTCTTCTTAAAGTCCA-CAATTCAGTGGC
* * *
40850 AT-TTTGTCCTAAAGTCCACATTTCAGTGGC
1 ATCTCT-TCTTAAAGTCCACAATTCAGTGGC
* *
40880 ATCTCCTTCTTAAAGTCCATGACTT-AGTGGC
1 ATCT-CTTCTTAAAGTCCA-CAATTCAGTGGC
* * **
40911 AATCTCTTCTCAAAGCCCATGATTCAGTGGC
1 -ATCTCTTCTTAAAGTCCACAATTCAGTGGC
* * * * * *
40942 AT-TTTGTCCTAAAGTTCACGACTCCGTGGC
1 ATCTCT-TCTTAAAGTCCACAATTCAGTGGC
* * * * * *
40972 ACCTTTTTCTTCTCAAAGCCCACGACTCAATGGC
1 A----TCTCTTCTTAAAGTCCACAATTCAGTGGC
* *
41006 AT-TTTGTCCTAAAAGTCCACAATTCAGTGGC
1 ATCTCT-T-CTTAAAGTCCACAATTCAGTGGC
* ** *
41037 ATCTCTT-TCCAAAGTCCATGACTCAGTGGC
1 ATCTCTTCT-TAAAGTCCACAATTCAGTGGC
* * *
41067 ATTTTCTT-TTCAAAGTCCACGACTCAGTGGC
1 A-TCTCTTCTT-AAAGTCCACAATTCAGTGGC
41098 ATC
1 ATC
41101 AAAGTCCACA
Statistics
Matches: 360, Mismatches: 76, Indels: 62
0.72 0.15 0.12
Matches are distributed among these distances:
29 14 0.04
30 110 0.31
31 177 0.49
32 36 0.10
33 1 0.00
34 20 0.06
35 2 0.01
ACGTcount: A:0.24, C:0.28, G:0.16, T:0.31
Consensus pattern (30 bp):
ATCTCTTCTTAAAGTCCACAATTCAGTGGC
Found at i:40761 original size:92 final size:92
Alignment explanation
Indices: 40604--41098 Score: 552
Period size: 92 Copynumber: 5.3 Consensus size: 92
40594 AATTCTTCAA
* * * *
40604 ATCT-CTTCTCAAAGTCCACGACTCAGTGGC-ATCCTT-GTCTTCAAAGTCCACGACTTAGTGGC
1 ATCTCCTTCTTAAAGTCCACGACTCAGTGGCAAT--TTCTTC-TCAAAGCCCACGACTCAGTGGC
40666 ATTTTGTCCTAAAGTCCACAATTCAGTGGC
63 ATTTTGTCCTAAAGTCCACAATTCAGTGGC
40696 ATCTCCTTCTTAAAGTCCACGACTCAGTGGCAATTTCTTCTCAAAGCCCACGACTCAGTGGCATT
1 ATCTCCTTCTTAAAGTCCACGACTCAGTGGCAATTTCTTCTCAAAGCCCACGACTCAGTGGCATT
*
40761 TTTTCCTAAAGTCCACAATTCAGTGGC
66 TTGTCCTAAAGTCCACAATTCAGTGGC
* * *
40788 ATCTCCTTCTTAAAGTCCACGACTCAGTGGCAATCTCTTCTCAAAGCCCATGACTTAGTGGCATT
1 ATCTCCTTCTTAAAGTCCACGACTCAGTGGCAATTTCTTCTCAAAGCCCACGACTCAGTGGCATT
*
40853 TTGTCCTAAAGTCCACATTTCAGTGGC
66 TTGTCCTAAAGTCCACAATTCAGTGGC
* * * * *
40880 ATCTCCTTCTTAAAGTCCATGACTTAGTGGCAATCTCTTCTCAAAGCCCATGATTCAGTGGCATT
1 ATCTCCTTCTTAAAGTCCACGACTCAGTGGCAATTTCTTCTCAAAGCCCACGACTCAGTGGCATT
* * * *
40945 TTGTCCTAAAGTTCACGACTCCGTGGC
66 TTGTCCTAAAGTCCACAATTCAGTGGC
* * * * * * * * * * * *
40972 ACCTTTTTCTTCTCAAAGCCCACGACTCAATGGCATTTTGTCCTAAAAGTCCACAATTCAGTGGC
1 A---TCTCCTTCTTAAAGTCCACGACTCAGTGGCAATTTCTTCTCAAAGCCCACGACTCAGTGGC
** *
41037 ATCTCTT-TCC-AAAGTCCATGACTCAGTGGC
63 AT-T-TTGTCCTAAAGTCCACAATTCAGTGGC
* *
41067 ATTTTCTT-TTCAAAGTCCACGACTCAGTGGCA
1 ATCTCCTTCTT-AAAGTCCACGACTCAGTGGCA
41099 TCAAAGTCCA
Statistics
Matches: 354, Mismatches: 40, Indels: 18
0.86 0.10 0.04
Matches are distributed among these distances:
91 1 0.00
92 252 0.71
93 27 0.08
94 2 0.01
95 66 0.19
96 4 0.01
97 2 0.01
ACGTcount: A:0.24, C:0.28, G:0.16, T:0.31
Consensus pattern (92 bp):
ATCTCCTTCTTAAAGTCCACGACTCAGTGGCAATTTCTTCTCAAAGCCCACGACTCAGTGGCATT
TTGTCCTAAAGTCCACAATTCAGTGGC
Found at i:41100 original size:61 final size:62
Alignment explanation
Indices: 40604--41100 Score: 351
Period size: 61 Copynumber: 8.0 Consensus size: 62
40594 AATTCTTCAA
* * * *
40604 ATCTC-TTCTCAAAGTCCACGACTCAGTGGCATCCTTGTCTTCAAAGTCCACGACTTAGTGGC
1 ATCTCTTTCTCAAAGTCCACGACTCAGTGGCAT-TTTCTTTTCAAAGTCCACGACTCAGTGGC
* * * *
40666 AT-T-TTGTC-CTAAAGTCCACAATTCAGTGGCATCTCCTTCTT-AAAGTCCACGACTCAGTGGC
1 ATCTCTT-TCTC-AAAGTCCACGACTCAGTGGCATTTTCTT-TTCAAAGTCCACGACTCAGTGGC
* * * * *
40727 AATTTC-TTCTCAAAGCCCACGACTCAGTGGCA-TTT-TTTCCTAAAGTCCACAATTCAGTGGC
1 -ATCTCTTTCTCAAAGTCCACGACTCAGTGGCATTTTCTTTTC-AAAGTCCACGACTCAGTGGC
* * * * * * * *
40788 ATCTCCTTCTTAAAGTCCACGACTCAGTGGCAATCTCTTCTCAAAGCCCATGACTTAGTGGC
1 ATCTCTTTCTCAAAGTCCACGACTCAGTGGCATTTTCTTTTCAAAGTCCACGACTCAGTGGC
* * * * *
40850 AT-T-TTGTC-CTAAAGTCCAC-ATTTCAGTGGCATCTCCTTCTT-AAAGTCCATGACTTAGTGG
1 ATCTCTT-TCTC-AAAGTCCACGA-CTCAGTGGCATTTTCTT-TTCAAAGTCCACGACTCAGTGG
40910 C
62 C
* * * * ** * *
40911 AATCTC-TTCTCAAAGCCCATGATTCAGTGGCATTTTGTCCT-AAAGTTCACGACTCCGTGGC
1 -ATCTCTTTCTCAAAGTCCACGACTCAGTGGCATTTTCTTTTCAAAGTCCACGACTCAGTGGC
* * * * * ** * * *
40972 ACCTTTTTCTTCTCAAAGCCCACGACTCAATGGCATTTTGTCCTAAAAGTCCACAATTCAGTGGC
1 A--TCTCT-TTCTCAAAGTCCACGACTCAGTGGCATTTTCTTTTCAAAGTCCACGACTCAGTGGC
*
41037 ATCTCTTTC-CAAAGTCCATGACTCAGTGGCATTTTCTTTTCAAAGTCCACGACTCAGTGGC
1 ATCTCTTTCTCAAAGTCCACGACTCAGTGGCATTTTCTTTTCAAAGTCCACGACTCAGTGGC
41098 ATC
1 ATC
41101 AAAGTCCACA
Statistics
Matches: 343, Mismatches: 65, Indels: 55
0.74 0.14 0.12
Matches are distributed among these distances:
59 1 0.00
60 9 0.03
61 174 0.51
62 97 0.28
63 13 0.04
64 32 0.09
65 17 0.05
ACGTcount: A:0.24, C:0.28, G:0.16, T:0.31
Consensus pattern (62 bp):
ATCTCTTTCTCAAAGTCCACGACTCAGTGGCATTTTCTTTTCAAAGTCCACGACTCAGTGGC
Found at i:41119 original size:23 final size:23
Alignment explanation
Indices: 41076--41121 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
41066 CATTTTCTTT
* *
41076 TCAAAGTCCACGACTCAGTGGCA
1 TCAAAGTCCACAACCCAGTGGCA
*
41099 TCAAAGTCCACAACCCCGTGGCA
1 TCAAAGTCCACAACCCAGTGGCA
41122 CCTCGTTCCT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.30, C:0.35, G:0.20, T:0.15
Consensus pattern (23 bp):
TCAAAGTCCACAACCCAGTGGCA
Found at i:41133 original size:156 final size:152
Alignment explanation
Indices: 40823--41124 Score: 387
Period size: 156 Copynumber: 2.0 Consensus size: 152
40813 AGTGGCAATC
* * * *
40823 TCTTCTCAAAGCCCATGACTTAGTGGCATTTTGTCCTAAAGTCCACATTTCAGTGGCATCTCCTT
1 TCTTCTCAAAGCCCACGACTCAATGGCATTTTGTCCTAAAGTCCACAATTCAGTGGCATCTCCTT
* * * *
40888 CTTAAAGTCCATGACTTAGTGGCAATCTCTTCTCAAAGCCCATGATTCAGTGGCATTTTGTCCTA
66 CTCAAAGTCCATGACTCAGTGGCAATCTCTTCTCAAAGCCCACGACTCAGTGGCA---T-TCCTA
* * *
40953 AAGTTCACGACTCCGTGGCACCTTTT
127 AAGTCCACAACCCCGTGGCACCTTTT
*
40979 TCTTCTCAAAGCCCACGACTCAATGGCATTTTGTCCTAAAAGTCCACAATTCAGTGGCATCTCTT
1 TCTTCTCAAAGCCCACGACTCAATGGCATTTTGTCCT-AAAGTCCACAATTCAGTGGCATCTCCT
* * * *
41044 TC-CAAAGTCCATGACTCAGTGGCATTTTCTTTTCAAAGTCCACGACTCAGTGGCA-T-C-AAAG
65 TCTCAAAGTCCATGACTCAGTGGCAATCTCTTCTCAAAGCCCACGACTCAGTGGCATTCCTAAAG
41105 TCCACAACCCCGTGGCACCT
130 TCCACAACCCCGTGGCACCT
41125 CGTTCCTTTC
Statistics
Matches: 129, Mismatches: 16, Indels: 9
0.84 0.10 0.06
Matches are distributed among these distances:
149 21 0.16
150 1 0.01
151 1 0.01
156 79 0.61
157 27 0.21
ACGTcount: A:0.24, C:0.29, G:0.16, T:0.31
Consensus pattern (152 bp):
TCTTCTCAAAGCCCACGACTCAATGGCATTTTGTCCTAAAGTCCACAATTCAGTGGCATCTCCTT
CTCAAAGTCCATGACTCAGTGGCAATCTCTTCTCAAAGCCCACGACTCAGTGGCATTCCTAAAGT
CCACAACCCCGTGGCACCTTTT
Found at i:41237 original size:36 final size:33
Alignment explanation
Indices: 41101--41393 Score: 199
Period size: 31 Copynumber: 8.8 Consensus size: 33
41091 CAGTGGCATC
* * * * *
41101 AAAGTCCACAACCCCGTGGCACCTCGTTCCTTTC
1 AAAGCCCACAACTCCGTGGCACCT-TTTTCTTTT
*
41135 AAAGTCCACAACTCCGTGGCACC---TTCTTTT
1 AAAGCCCACAACTCCGTGGCACCTTTTTCTTTT
* *
41165 CAAAGCCCACAACTCAGTGGCACTTTTTTTCCCTTTT
1 -AAAGCCCACAACTCCGTGGCAC-CTTTTT--CTTTT
*
41202 AAAGCCCACGACTCCGTGGCACACTTTGTTTCTTTT
1 AAAGCCCACAACTCCGTGGCAC-C-TT-TTTCTTTT
* * * * *
41238 -AAGTCCTCGACTCCGTGGCACC--TTCCTTTC
1 AAAGCCCACAACTCCGTGGCACCTTTTTCTTTT
* * *
41268 AAAGTCCGCGACTCCGTGGCACC---TTCTTTT
1 AAAGCCCACAACTCCGTGGCACCTTTTTCTTTT
*
41298 CAAAGCCTACAACTCCGTGGCACTCTTTTTCCCTTTT
1 -AAAGCCCACAACTCCGTGGCAC-CTTTTT--CTTTT
* *
41335 AAAGCCCATAACTCCGTGGCACCTTGTTCTTTT
1 AAAGCCCACAACTCCGTGGCACCTTTTTCTTTT
* * * *
41368 TAAGTCCACAACTTCGTGGCATCTTT
1 AAAGCCCACAACTCCGTGGCACCTTT
41394 CACCCTTTCT
Statistics
Matches: 212, Mismatches: 30, Indels: 35
0.77 0.11 0.13
Matches are distributed among these distances:
30 16 0.08
31 59 0.28
32 1 0.00
33 25 0.12
34 23 0.11
35 28 0.13
36 45 0.21
37 12 0.06
38 3 0.01
ACGTcount: A:0.20, C:0.34, G:0.15, T:0.32
Consensus pattern (33 bp):
AAAGCCCACAACTCCGTGGCACCTTTTTCTTTT
Found at i:41353 original size:67 final size:66
Alignment explanation
Indices: 41099--41393 Score: 241
Period size: 67 Copynumber: 4.4 Consensus size: 66
41089 CTCAGTGGCA
* ** *
41099 TCAAAGTCC-ACAACCCCGTGGCACCTCGTTCCTTTCAAAGTCCACAACTCCGTGGCACCTTCTT
1 TCAAAGTCCTACAACTCCGTGGCACCTTTTTCCTTTCAAAGCCCACAACTCCGTGGCACCTTCTT
41163 T
66 T
* * * * *
41164 TCAAAG-CCCACAACTCAGTGGCACTTTTTTTCCCTTTTAAAGCCCACGACTCCGTGGCACACTT
1 TCAAAGTCCTACAACTCCGTGGCAC-CTTTTT-CCTTTCAAAGCCCACAACTCCGTGGCAC-CTT
41228 -TGTT
63 CT-TT
* * * * *
41232 TCTTTTAAGTCCT-CGACTCCGTGGCACC---TTCCTTTCAAAGTCCGCGACTCCGTGGCACCTT
1 TC---AAAGTCCTACAACTCCGTGGCACCTTTTTCCTTTCAAAGCCCACAACTCCGTGGCACCTT
41293 CTTT
63 CTTT
* *
41297 TCAAAG-CCTACAACTCCGTGGCACTCTTTTTCCCTTTTAAAGCCCATAACTCCGTGGCACCTTG
1 TCAAAGTCCTACAACTCCGTGGCAC-CTTTTT-CCTTTCAAAGCCCACAACTCCGTGGCACC---
41361 TTCTTT
61 TTCTTT
* * *
41367 T-TAAGTCC-ACAACTTCGTGGCATCTTT
1 TCAAAGTCCTACAACTCCGTGGCACCTTT
41394 CACCCTTTCT
Statistics
Matches: 184, Mismatches: 26, Indels: 37
0.74 0.11 0.15
Matches are distributed among these distances:
61 3 0.02
62 16 0.09
63 1 0.01
64 2 0.01
65 26 0.14
66 31 0.17
67 52 0.28
68 11 0.06
69 16 0.09
70 9 0.05
71 15 0.08
72 2 0.01
ACGTcount: A:0.20, C:0.34, G:0.15, T:0.32
Consensus pattern (66 bp):
TCAAAGTCCTACAACTCCGTGGCACCTTTTTCCTTTCAAAGCCCACAACTCCGTGGCACCTTCTT
T
Found at i:41447 original size:33 final size:32
Alignment explanation
Indices: 41397--41756 Score: 519
Period size: 33 Copynumber: 11.1 Consensus size: 32
41387 CATCTTTCAC
*
41397 CCTT-TCTAAAGCGCACACAAGTCGGTGGCAAA
1 CCTTCTCTAAAGCCCACACAAGTCGGTGGC-AA
*
41429 CCTTCTCTAAAGCCCACACAAGTCAGTGGCAAA
1 CCTTCTCTAAAGCCCACACAAGTCGGTGGC-AA
*
41462 CCTTCTCTAAAGCCCACACAAGTTGGTGGCAA
1 CCTTCTCTAAAGCCCACACAAGTCGGTGGCAA
*
41494 CCTTTTTCTAAAGCCCACACAAGTCGGTGGCAA
1 CC-TTCTCTAAAGCCCACACAAGTCGGTGGCAA
*
41527 CCCTCTCATAAAGCCCACACAAGTCGGTGGCAA
1 CCTTCTC-TAAAGCCCACACAAGTCGGTGGCAA
*
41560 CCTTCTTCTAAAACCCACACAAGTCGGTGGCAA
1 CCTTC-TCTAAAGCCCACACAAGTCGGTGGCAA
41593 CCCTTCT-TAAAGCCCACACAAGTCGGTGGCAA
1 -CCTTCTCTAAAGCCCACACAAGTCGGTGGCAA
* *
41625 CCTTCTTCGAAAGCCCACATAAGTCGGTGGCAA
1 CCTTC-TCTAAAGCCCACACAAGTCGGTGGCAA
41658 CCCTTCT-TAAAGCCCACACAAGTCGGTGGCAA
1 -CCTTCTCTAAAGCCCACACAAGTCGGTGGCAA
* *
41690 CCCTCTCTAAAGCCCACACAAGTTGGTGGCAA
1 CCTTCTCTAAAGCCCACACAAGTCGGTGGCAA
*
41722 CCATTCTCTAAAGTCCACACAAGTCGGTGGCAA
1 CC-TTCTCTAAAGCCCACACAAGTCGGTGGCAA
41755 CC
1 CC
41757 CTTTTAAGCC
Statistics
Matches: 298, Mismatches: 20, Indels: 19
0.88 0.06 0.06
Matches are distributed among these distances:
31 10 0.03
32 85 0.29
33 191 0.64
34 12 0.04
ACGTcount: A:0.29, C:0.33, G:0.18, T:0.20
Consensus pattern (32 bp):
CCTTCTCTAAAGCCCACACAAGTCGGTGGCAA
Found at i:41630 original size:65 final size:66
Alignment explanation
Indices: 41395--41756 Score: 556
Period size: 65 Copynumber: 5.5 Consensus size: 66
41385 GGCATCTTTC
* *
41395 ACCCTT-TCTAAAGCGCACACAAGTCGGTGGCAAACCTTC-TCTAAAGCCCACACAAGTCAGTGG
1 ACCCTTCTCTAAAGCCCACACAAGTCGGTGGC-AACCTTCTTCTAAAGCCCACACAAGTCGGTGG
41458 CA
65 CA
* * *
41460 AACCTTCTCTAAAGCCCACACAAGTTGGTGGCAACCTTTTTCTAAAGCCCACACAAGTCGGTGGC
1 ACCCTTCTCTAAAGCCCACACAAGTCGGTGGCAACCTTCTTCTAAAGCCCACACAAGTCGGTGGC
41525 A
66 A
*
41526 ACCC-TCTCATAAAGCCCACACAAGTCGGTGGCAACCTTCTTCTAAAACCCACACAAGTCGGTGG
1 ACCCTTCTC-TAAAGCCCACACAAGTCGGTGGCAACCTTCTTCTAAAGCCCACACAAGTCGGTGG
41590 CA
65 CA
* *
41592 ACCCTTCT-TAAAGCCCACACAAGTCGGTGGCAACCTTCTTCGAAAGCCCACATAAGTCGGTGGC
1 ACCCTTCTCTAAAGCCCACACAAGTCGGTGGCAACCTTCTTCTAAAGCCCACACAAGTCGGTGGC
41656 A
66 A
* *
41657 ACCCTTCT-TAAAGCCCACACAAGTCGGTGGCAACCCTC-TCTAAAGCCCACACAAGTTGGTGGC
1 ACCCTTCTCTAAAGCCCACACAAGTCGGTGGCAACCTTCTTCTAAAGCCCACACAAGTCGGTGGC
41720 A
66 A
* *
41721 ACCATTCTCTAAAGTCCACACAAGTCGGTGGCAACC
1 ACCCTTCTCTAAAGCCCACACAAGTCGGTGGCAACC
41757 CTTTTAAGCC
Statistics
Matches: 274, Mismatches: 18, Indels: 10
0.91 0.06 0.03
Matches are distributed among these distances:
64 30 0.11
65 132 0.48
66 109 0.40
67 3 0.01
ACGTcount: A:0.29, C:0.33, G:0.18, T:0.20
Consensus pattern (66 bp):
ACCCTTCTCTAAAGCCCACACAAGTCGGTGGCAACCTTCTTCTAAAGCCCACACAAGTCGGTGGC
A
Found at i:41819 original size:49 final size:49
Alignment explanation
Indices: 41759--42090 Score: 319
Period size: 43 Copynumber: 6.8 Consensus size: 49
41749 TGGCAACCCT
*
41759 TTTAAGCCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATC
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATC
* *
41808 TTTAAGTCCAATGTACCTGGCCTTGAATCAGCATATTGGCA----C--C
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATC
* *
41851 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGTACCTTCATC
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATC
* * *
41900 TTTAAGTCCAATGTAGCTGGCCTTGAACCAGCACATTGGCA----C--C
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATC
* *
41943 TTTAAGTCCAATATCGTTGGCCTTGAATCAGCATATTGGCACCTTTTCCATC
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACC--TT-CATC
* * * * *
41995 TTTAAGTTCAATGTAGTTGGCCTTGAATCAGCACATTGACATCCTTTTTCTCATC
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA-CC----T-TCATC
* * * * *
42050 TTTAAGCCCAATATCGTTGGCCGTGAATCAACATATTGGCA
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA
42091 TCTTTATCAC
Statistics
Matches: 234, Mismatches: 30, Indels: 32
0.79 0.10 0.11
Matches are distributed among these distances:
43 75 0.32
45 2 0.01
47 1 0.00
49 75 0.32
50 1 0.00
52 37 0.16
53 2 0.01
55 40 0.17
56 1 0.00
ACGTcount: A:0.25, C:0.25, G:0.17, T:0.33
Consensus pattern (49 bp):
TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATC
Found at i:41920 original size:92 final size:92
Alignment explanation
Indices: 41759--42041 Score: 440
Period size: 92 Copynumber: 3.0 Consensus size: 92
41749 TGGCAACCCT
* * *
41759 TTTAAGCCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTAC
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTAG
*
41824 CTGGCCTTGAATCAGCATATTGGCACC
66 CTGGCCTTGAATCAGCACATTGGCACC
*
41851 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGTACCTTCATCTTTAAGTCCAATGTAG
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTAG
*
41916 CTGGCCTTGAACCAGCACATTGGCACC
66 CTGGCCTTGAATCAGCACATTGGCACC
* *
41943 TTTAAGTCCAATATCGTTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTTTAAGTTCAATG
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACC--TT-CATCTTTAAGTCCAATG
* *
42008 TAGTTGGCCTTGAATCAGCACATTGACATCC
63 TAGCTGGCCTTGAATCAGCACATTGGCA-CC
42039 TTT
1 TTT
42042 TTCTCATCTT
Statistics
Matches: 175, Mismatches: 12, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
92 127 0.73
94 2 0.01
95 41 0.23
96 5 0.03
ACGTcount: A:0.25, C:0.25, G:0.17, T:0.33
Consensus pattern (92 bp):
TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTAG
CTGGCCTTGAATCAGCACATTGGCACC
Found at i:42020 original size:52 final size:53
Alignment explanation
Indices: 41942--42095 Score: 202
Period size: 52 Copynumber: 2.9 Consensus size: 53
41932 ACATTGGCAC
41942 CTTTAAGTCCAATATCGTTGGCCTTGAATCAGCATATTGGCACCTTTTC-CAT
1 CTTTAAGTCCAATATCGTTGGCCTTGAATCAGCATATTGGCACCTTTTCTCAT
* * * * *
41994 CTTTAAGTTCAATGTAGTTGGCCTTGAATCAGCACATTGACATCCTTTTTCTCAT
1 CTTTAAGTCCAATATCGTTGGCCTTGAATCAGCATATTGGCA-CC-TTTTCTCAT
* * * *
42049 CTTTAAGCCCAATATCGTTGGCCGTGAATCAACATATTGGCATCTTT
1 CTTTAAGTCCAATATCGTTGGCCTTGAATCAGCATATTGGCACCTTT
42096 ATCACTTTTC
Statistics
Matches: 85, Mismatches: 14, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
52 37 0.44
53 5 0.06
54 6 0.07
55 37 0.44
ACGTcount: A:0.24, C:0.23, G:0.16, T:0.37
Consensus pattern (53 bp):
CTTTAAGTCCAATATCGTTGGCCTTGAATCAGCATATTGGCACCTTTTCTCAT
Found at i:42153 original size:67 final size:68
Alignment explanation
Indices: 42045--42171 Score: 184
Period size: 67 Copynumber: 1.9 Consensus size: 68
42035 ATCCTTTTTC
* * *
42045 TCATCTTTAAGCCCAATATCGTTGGCCGTGAATCAACATATTGGCATCTTTATCA-CTTTTCTCA
1 TCATCTTTAAGCCCAATATCGATGGCCGTGAATCAACATATTGGCACCTTCATCATCTTTTCTCA
42109 TCT
66 TCT
* * * *
42112 TCATCTTTAAGTCCAATATTGATGGCCTTGAATCAGCATATTGGCACCTTCATCATCTTT
1 TCATCTTTAAGCCCAATATCGATGGCCGTGAATCAACATATTGGCACCTTCATCATCTTT
42172 AAAACCCAAT
Statistics
Matches: 52, Mismatches: 7, Indels: 1
0.87 0.12 0.02
Matches are distributed among these distances:
67 48 0.92
68 4 0.08
ACGTcount: A:0.24, C:0.24, G:0.13, T:0.39
Consensus pattern (68 bp):
TCATCTTTAAGCCCAATATCGATGGCCGTGAATCAACATATTGGCACCTTCATCATCTTTTCTCA
TCT
Found at i:42933 original size:13 final size:13
Alignment explanation
Indices: 42915--43000 Score: 64
Period size: 13 Copynumber: 5.7 Consensus size: 13
42905 AAAGTGTTGC
42915 ATCGATACAATGT
1 ATCGATACAATGT
42928 ATCGATACATAAGTGTTGT
1 ATCGATAC--AA----TGT
42947 ATCGATACAATGT
1 ATCGATACAATGT
42960 ATCGATACATAAGTGTTGT
1 ATCGATAC--AA----TGT
42979 ATCGATACAATGT
1 ATCGATACAATGT
42992 ATCGATACA
1 ATCGATACA
43001 TAAGTTTTGT
Statistics
Matches: 61, Mismatches: 0, Indels: 24
0.72 0.00 0.28
Matches are distributed among these distances:
13 31 0.51
15 4 0.07
17 4 0.07
19 22 0.36
ACGTcount: A:0.36, C:0.14, G:0.17, T:0.33
Consensus pattern (13 bp):
ATCGATACAATGT
Found at i:42949 original size:19 final size:18
Alignment explanation
Indices: 42890--43019 Score: 101
Period size: 19 Copynumber: 7.8 Consensus size: 18
42880 ATTTCAACGA
42890 TTTGTATCGATACATAAAG
1 TTTGTATCGATACAT-AAG
*
42909 TGTTGCATCGATAC--AA-
1 T-TTGTATCGATACATAAG
42925 --TGTATCGATACATAAG
1 TTTGTATCGATACATAAG
42941 TGTTGTATCGATAC--AA-
1 T-TTGTATCGATACATAAG
42957 --TGTATCGATACATAAG
1 TTTGTATCGATACATAAG
42973 TGTTGTATCGATAC--AA-
1 T-TTGTATCGATACATAAG
42989 --TGTATCGATACATAAG
1 TTTGTATCGATACATAAG
43005 TTTTGTATCGATACA
1 -TTTGTATCGATACA
43020 ATATAAGCTA
Statistics
Matches: 90, Mismatches: 2, Indels: 38
0.69 0.02 0.29
Matches are distributed among these distances:
13 32 0.36
15 6 0.07
17 6 0.07
19 35 0.39
20 11 0.12
ACGTcount: A:0.34, C:0.13, G:0.18, T:0.35
Consensus pattern (18 bp):
TTTGTATCGATACATAAG
Found at i:42951 original size:32 final size:32
Alignment explanation
Indices: 42892--43021 Score: 233
Period size: 32 Copynumber: 4.0 Consensus size: 32
42882 TTCAACGATT
*
42892 TGTATCGATACATAAAGTGTTGCATCGATACAA
1 TGTATCGATACAT-AAGTGTTGTATCGATACAA
42925 TGTATCGATACATAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
42957 TGTATCGATACATAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
*
42989 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
43021 T
1 T
43022 ATAAGCTACT
Statistics
Matches: 95, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
32 82 0.86
33 13 0.14
ACGTcount: A:0.35, C:0.13, G:0.18, T:0.35
Consensus pattern (32 bp):
TGTATCGATACATAAGTGTTGTATCGATACAA
Found at i:43080 original size:13 final size:13
Alignment explanation
Indices: 43062--43086 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
43052 ACTGCCCAAA
43062 TGTATCGATACAT
1 TGTATCGATACAT
43075 TGTATCGATACA
1 TGTATCGATACA
43087 CTGATCTTTG
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:43138 original size:52 final size:50
Alignment explanation
Indices: 43075--43223 Score: 208
Period size: 52 Copynumber: 2.9 Consensus size: 50
43065 ATCGATACAT
* * *
43075 TGTATCGATACACTGATCTTTGTATCGATACATGTAGGCAAATTTGCCTAGA
1 TGTATCGATACACT-AT-TATGTATCGATACATGCAGGCAAATTTGCCCAGA
*
43127 TGTATCGATACACTATAAAATGTATCGATACATGCAGGCAAATTTGCCCAGA
1 TGTATCGATACACTAT--TATGTATCGATACATGCAGGCAAATTTGCCCAGA
43179 TGTATCGATACACTATTAAATGTATCGATACATGCAGGCAAATTT
1 TGTATCGATACACTATT--ATGTATCGATACATGCAGGCAAATTT
43224 TCATATTTCG
Statistics
Matches: 88, Mismatches: 6, Indels: 6
0.88 0.06 0.06
Matches are distributed among these distances:
51 2 0.02
52 86 0.98
ACGTcount: A:0.34, C:0.17, G:0.17, T:0.32
Consensus pattern (50 bp):
TGTATCGATACACTATTATGTATCGATACATGCAGGCAAATTTGCCCAGA
Found at i:44621 original size:11 final size:11
Alignment explanation
Indices: 44605--44641 Score: 58
Period size: 11 Copynumber: 3.4 Consensus size: 11
44595 GCCGTTCTGA
44605 TTTTTCCAAAT
1 TTTTTCCAAAT
44616 TTTTTCCAAAT
1 TTTTTCCAAAT
44627 TTTTT-CAACAT
1 TTTTTCCAA-AT
44638 TTTT
1 TTTT
44642 CCTAAAAAGG
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
10 3 0.12
11 22 0.88
ACGTcount: A:0.24, C:0.16, G:0.00, T:0.59
Consensus pattern (11 bp):
TTTTTCCAAAT
Found at i:46693 original size:15 final size:16
Alignment explanation
Indices: 46673--46702 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
46663 TCTGTCAAAC
46673 CCGCCAGTG-TTGGTA
1 CCGCCAGTGCTTGGTA
46688 CCGCCAGTGCTTGGT
1 CCGCCAGTGCTTGGT
46703 CGTCCTTTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.10, C:0.30, G:0.33, T:0.27
Consensus pattern (16 bp):
CCGCCAGTGCTTGGTA
Found at i:48947 original size:10 final size:9
Alignment explanation
Indices: 48932--48976 Score: 54
Period size: 10 Copynumber: 4.7 Consensus size: 9
48922 CCTTCGTACA
48932 AAAAAAAACC
1 AAAAAAAA-C
48942 AAAAAAAAC
1 AAAAAAAAC
*
48951 AAAAAAAAA
1 AAAAAAAAC
48960 AACAAATAAAC
1 AA-AAA-AAAC
48971 AAAAAA
1 AAAAAA
48977 GAAAAGTCTA
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
9 12 0.39
10 14 0.45
11 5 0.16
ACGTcount: A:0.87, C:0.11, G:0.00, T:0.02
Consensus pattern (9 bp):
AAAAAAAAC
Found at i:48957 original size:21 final size:20
Alignment explanation
Indices: 48931--48981 Score: 66
Period size: 21 Copynumber: 2.5 Consensus size: 20
48921 CCCTTCGTAC
*
48931 AAAAAAAAACCAAAAAAAACA
1 AAAAAAAAAAC-AAAAAAACA
*
48952 AAAAAAAAAACAAATAAACA
1 AAAAAAAAAACAAAAAAACA
48972 AAAAAGAAAA
1 AAAAA-AAAA
48982 GTCTAGATGA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
20 13 0.48
21 14 0.52
ACGTcount: A:0.86, C:0.10, G:0.02, T:0.02
Consensus pattern (20 bp):
AAAAAAAAAACAAAAAAACA
Found at i:50225 original size:28 final size:28
Alignment explanation
Indices: 50185--50802 Score: 578
Period size: 28 Copynumber: 21.6 Consensus size: 28
50175 TAGAACGTCA
* * *
50185 ATCTTTTTAAAGCCCACATGTTAGTGGC
1 ATCTTTTCAAAGCCCACAAGTCAGTGGC
* *
50213 ATCTTTTCAAAGCCAAAAAGTCAGTGGC
1 ATCTTTTCAAAGCCCACAAGTCAGTGGC
* * *
50241 ATCATTTCAAAG-GCACAAGTCAATGGC
1 ATCTTTTCAAAGCCCACAAGTCAGTGGC
*
50268 ATCCTTCTCAAAGCCCACAAGTCAGTGGC
1 AT-CTTTTCAAAGCCCACAAGTCAGTGGC
* * *
50297 ATCCTTTCAAAGCCCATAAGTTAGTGGC
1 ATCTTTTCAAAGCCCACAAGTCAGTGGC
*
50325 ATCTCTTCAAAGCCCACAAGTCAGTGGC
1 ATCTTTTCAAAGCCCACAAGTCAGTGGC
*
50353 ATCCTTTTCAAAGCCCACAAGTTAGTGGC
1 AT-CTTTTCAAAGCCCACAAGTCAGTGGC
* *
50382 ATTTTTTCCAAGCCCACAAGTCAGTGGC
1 ATCTTTTCAAAGCCCACAAGTCAGTGGC
* *
50410 ATCTTTTCAAAGCCCATAAATCAGTGGC
1 ATCTTTTCAAAGCCCACAAGTCAGTGGC
* * *
50438 ATCCTTTCAAAGCCCATAAGTTAGTGGC
1 ATCTTTTCAAAGCCCACAAGTCAGTGGC
* * *
50466 ATCTTTTCAAAACCTC-TAAGTTAGTGGC
1 ATCTTTTCAAAGCC-CACAAGTCAGTGGC
* * * *
50494 ATCTTTCCCAAAGCCGACAAGTTAGTAGC
1 ATCTTT-TCAAAGCCCACAAGTCAGTGGC
*
50523 ATCTTTTCAAAACCCACAAGTCAGTGGC
1 ATCTTTTCAAAGCCCACAAGTCAGTGGC
*
50551 ACCCTTTT-AAAGCCCACAAGTCAGTGGC
1 A-TCTTTTCAAAGCCCACAAGTCAGTGGC
* * *
50579 ACCCTTTTTAAAGCCCACAAGTTAGTGGC
1 A-TCTTTTCAAAGCCCACAAGTCAGTGGC
* * *
50608 ACCCTTTTCAAAGCCCACACAAATCGGTGGC
1 A-TCTTTTCAAAG-CC-CACAAGTCAGTGGC
* * * * *
50639 ACCCTTCCAAAGCCCATAAGTGAGTGGC
1 ATCTTTTCAAAGCCCACAAGTCAGTGGC
* * **
50667 ACCCTTTCAAAGCCCACAAGTTGGTGGC
1 ATCTTTTCAAAGCCCACAAGTCAGTGGC
50695 ATACCCTTTT-AAAGCCCACAAGTCAGTGGC
1 AT---CTTTTCAAAGCCCACAAGTCAGTGGC
* * * *
50725 ACCCTTTCAAAGCTCACAAGTCGGTGGC
1 ATCTTTTCAAAGCCCACAAGTCAGTGGC
* * * *
50753 ACCCTTTCAAAGCCTACATAAGTCGGTGGC
1 ATCTTTTCAAAGCC--CACAAGTCAGTGGC
*
50783 AACACTTTTCAAAGCCCACA
1 -A-TCTTTTCAAAGCCCACA
50803 CAAATTAGTG
Statistics
Matches: 496, Mismatches: 76, Indels: 34
0.82 0.13 0.06
Matches are distributed among these distances:
27 17 0.03
28 303 0.61
29 102 0.21
30 46 0.09
31 17 0.03
32 11 0.02
ACGTcount: A:0.29, C:0.28, G:0.17, T:0.25
Consensus pattern (28 bp):
ATCTTTTCAAAGCCCACAAGTCAGTGGC
Found at i:50380 original size:85 final size:85
Alignment explanation
Indices: 50187--50802 Score: 584
Period size: 85 Copynumber: 7.2 Consensus size: 85
50177 GAACGTCAAT
* * * * * *
50187 CTTTTTAAAGCCCACATGTTAGTGGCATCTTTTCAAAGCCAAAAAGTCAGTGGCATCAT-TTCAA
1 CTTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCATC-TCTTCAA
* *
50251 AG-GCACAAGTCAATGGCATC
65 AGCCCACAAGTCAGTGGCATC
* * *
50271 CTTCTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCATAAGTTAGTGGCATCTCTTCAAA
1 CTTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCATCTCTTCAAA
50336 GCCCACAAGTCAGTGGCATC
66 GCCCACAAGTCAGTGGCATC
* ** * *
50356 CTTTTCAAAGCCCACAAGTTAGTGGCATTTTTTCCAAGCCCACAAGTCAGTGGCATCTTTTCAAA
1 CTTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCATCTCTTCAAA
* *
50421 GCCCATAAATCAGTGGCATC
66 GCCCACAAGTCAGTGGCATC
* * * * * *
50441 C-TTTCAAAGCCCATAAGTTAGTGGCATCTTTTCAAAACCTC-TAAGTTAGTGGCATCT-TTCCC
1 CTTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCC-CACAAGTCAGTGGCATCTCTT--C
* * *
50503 AAAGCCGACAAGTTAGTAGCAT-
63 AAAGCCCACAAGTCAGTGGCATC
* * * * * *
50525 CTTTTCAAAACCCACAAGTCAGTGGCACCCTTTTAAAGCCCACAAGTCAGTGGCACCCTTTTTAA
1 CTTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCA-TCTCTTCAA
* *
50590 AGCCCACAAGTTAGTGGCACC
65 AGCCCACAAGTCAGTGGCATC
* * * * * * *
50611 CTTTTCAAAGCCCACACAAATCGGTGGCACCCTTCCAAAGCCCATAAGTGAGTGGCA-CCCTTTC
1 CTTTTCAAAG-CC-CACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCATCTC-TTC
**
50675 AAAGCCCACAAGTTGGTGGCATACC
63 AAAGCCCACAAGTCAGTGGCAT--C
* * * *
50700 CTTTT-AAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCTCACAAGTCGGTGGCA-CCCTTTCAA
1 CTTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCATCTC-TTCAA
* * *
50763 AGCCTACATAAGTCGGTGGCAAC
65 AGCC--CACAAGTCAGTGGCATC
50786 ACTTTTCAAAGCCCACA
1 -CTTTTCAAAGCCCACA
50803 CAAATTAGTG
Statistics
Matches: 446, Mismatches: 67, Indels: 34
0.82 0.12 0.06
Matches are distributed among these distances:
83 3 0.01
84 106 0.24
85 172 0.39
86 62 0.14
87 33 0.07
88 64 0.14
89 6 0.01
ACGTcount: A:0.29, C:0.29, G:0.17, T:0.25
Consensus pattern (85 bp):
CTTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCATCTCTTCAAA
GCCCACAAGTCAGTGGCATC
Found at i:50947 original size:45 final size:48
Alignment explanation
Indices: 50892--50997 Score: 137
Period size: 49 Copynumber: 2.2 Consensus size: 48
50882 TCTGATATCT
*
50892 CTGGCGTTGAATCAGCATATTGG-C-ACATTT-ATTAGCCCAATGTCG
1 CTGGCCTTGAATCAGCATATTGGTCTACATTTCATTAGCCCAATGTCG
** *
50937 CTGGCCTTGAATCAGCATATTGGTCTATTTTTCCCTTAGCCCAATGTCG
1 CTGGCCTTGAATCAGCATATTGGTCTACATTT-CATTAGCCCAATGTCG
*
50986 TTGGCCTTGAAT
1 CTGGCCTTGAAT
50998 TGGTACATTG
Statistics
Matches: 52, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
45 22 0.42
46 1 0.02
47 4 0.08
49 25 0.48
ACGTcount: A:0.21, C:0.24, G:0.21, T:0.35
Consensus pattern (48 bp):
CTGGCCTTGAATCAGCATATTGGTCTACATTTCATTAGCCCAATGTCG
Found at i:51385 original size:20 final size:20
Alignment explanation
Indices: 51360--51397 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
51350 GTCATAAACT
51360 AACAAAAAA-ACAAAAAAGAG
1 AACAAAAAAGA-AAAAAAGAG
51380 AACAAAAAAGAAAAAAAG
1 AACAAAAAAGAAAAAAAG
51398 GTGAGAATGA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
20 16 0.94
21 1 0.06
ACGTcount: A:0.82, C:0.08, G:0.11, T:0.00
Consensus pattern (20 bp):
AACAAAAAAGAAAAAAAGAG
Found at i:53140 original size:51 final size:51
Alignment explanation
Indices: 53070--53186 Score: 180
Period size: 51 Copynumber: 2.3 Consensus size: 51
53060 AAAATAACGG
* *
53070 GGTTGGAGTGTCCCCGATTGTGAGAAATCAATATTTTAGAAATAAGGCCGA
1 GGTTGGAGTATCCCCGATTGTGAGAAATCAATATTTTAGAAATAAAGCCGA
* * * *
53121 GGTTGAAGTATCCCTGATTGTGAGAAATCAATATTTTGGAAATAAAGCCGG
1 GGTTGGAGTATCCCCGATTGTGAGAAATCAATATTTTAGAAATAAAGCCGA
53172 GGTTGGAGTATCCCC
1 GGTTGGAGTATCCCC
53187 TCAGAAATAA
Statistics
Matches: 58, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
51 58 1.00
ACGTcount: A:0.30, C:0.15, G:0.27, T:0.28
Consensus pattern (51 bp):
GGTTGGAGTATCCCCGATTGTGAGAAATCAATATTTTAGAAATAAAGCCGA
Found at i:53243 original size:28 final size:28
Alignment explanation
Indices: 53170--53245 Score: 127
Period size: 28 Copynumber: 2.7 Consensus size: 28
53160 AAATAAAGCC
*
53170 GGGGTTGGAGTATCCCCTCA-GAAATAAT
1 GGGGTTGGAGTATCCCC-GATGAAATAAT
53198 GGGGTTGGAGTATCCCCGATGAAATAAT
1 GGGGTTGGAGTATCCCCGATGAAATAAT
53226 GGGGTTGGAGTATCCCCGAT
1 GGGGTTGGAGTATCCCCGAT
53246 TGTGAAAAAT
Statistics
Matches: 46, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
27 1 0.02
28 45 0.98
ACGTcount: A:0.25, C:0.17, G:0.33, T:0.25
Consensus pattern (28 bp):
GGGGTTGGAGTATCCCCGATGAAATAAT
Found at i:53296 original size:51 final size:51
Alignment explanation
Indices: 53227--53344 Score: 175
Period size: 51 Copynumber: 2.3 Consensus size: 51
53217 TGAAATAATG
*
53227 GGGTTGGAGTATCCCCGATTGTGAAAAATTAGTGTTTTGAAAATAAAATC-
1 GGGTTGGAGTATCCCCGATTGTGAAAAATTAGTGGTTTGAAAATAAAATCA
* * * *
53277 GGAGTTGGAGTATCCCCGATTGTGGAGAATTGGTGGTTTGGAAATAAAATCA
1 GG-GTTGGAGTATCCCCGATTGTGAAAAATTAGTGGTTTGAAAATAAAATCA
53329 GGGTTGGAGTATCCCC
1 GGGTTGGAGTATCCCC
53345 TCAAAAATAA
Statistics
Matches: 61, Mismatches: 5, Indels: 3
0.88 0.07 0.04
Matches are distributed among these distances:
50 2 0.03
51 57 0.93
52 2 0.03
ACGTcount: A:0.29, C:0.12, G:0.30, T:0.30
Consensus pattern (51 bp):
GGGTTGGAGTATCCCCGATTGTGAAAAATTAGTGGTTTGAAAATAAAATCA
Found at i:53322 original size:158 final size:160
Alignment explanation
Indices: 53034--53375 Score: 419
Period size: 158 Copynumber: 2.2 Consensus size: 160
53024 TTTTGGAGAT
* *
53034 AATAATGGGGTTGGAGTATCCCC--TCGAAAATAACGGGGTTGGAGTGTCCCCGATTGTGAGAAA
1 AATAATGGGGTTGGAGTATCCCCGATCGAAAATAACGGGGTTGGAGTATCCCCGATTGTGAAAAA
* * *
53097 TCAATATTTTAGAAATAAGGCCGAGGTTGAAGTATCCCTGATTGTGAGAAATCAATATTTTGGAA
66 TCAATATTTTAGAAATAAAGCCGAGGTTGAAGTATCCCCGATTGTGAGAAATCAATAGTTTGGAA
* * *
53162 ATAAAGCCGGGGTTGGAGTATCCCCTCAGA
131 ATAAAACCAGGGTTGGAGTATCCCCTCAAA
*
53192 AATAATGGGGTTGGAGTATCCCCGAT-G-AAATAATGGGGTTGGAGTATCCCCGATTGTGAAAAA
1 AATAATGGGGTTGGAGTATCCCCGATCGAAAATAACGGGGTTGGAGTATCCCCGATTGTGAAAAA
* * * ** * *** *
53255 TTAGTGTTTT-GAAAATAAAATCG-GAGTTGGAGTATCCCCGATTGTG-GAGAATTGGTGGTTTG
66 TCAATATTTTAG-AAATAAAGCCGAG-GTTGAAGTATCCCCGATTGTGAGA-AATCAATAGTTTG
*
53317 GAAATAAAATCAGGGTTGGAGTATCCCCTCAAA
128 GAAATAAAACCAGGGTTGGAGTATCCCCTCAAA
*
53350 AATAACGGGGTTGGAGTATCCCCGAT
1 AATAATGGGGTTGGAGTATCCCCGAT
53376 TATGAAAAAT
Statistics
Matches: 158, Mismatches: 21, Indels: 10
0.84 0.11 0.05
Matches are distributed among these distances:
157 4 0.03
158 152 0.96
159 1 0.01
160 1 0.01
ACGTcount: A:0.31, C:0.14, G:0.28, T:0.27
Consensus pattern (160 bp):
AATAATGGGGTTGGAGTATCCCCGATCGAAAATAACGGGGTTGGAGTATCCCCGATTGTGAAAAA
TCAATATTTTAGAAATAAAGCCGAGGTTGAAGTATCCCCGATTGTGAGAAATCAATAGTTTGGAA
ATAAAACCAGGGTTGGAGTATCCCCTCAAA
Found at i:53363 original size:79 final size:79
Alignment explanation
Indices: 53280--53577 Score: 431
Period size: 79 Copynumber: 3.8 Consensus size: 79
53270 TAAAATCGGA
* ** * * * *
53280 GTTGGAGTATCCCCGATTGTG-GAGAATTGGTGGTTTGGAAATAAAATCAGGGTTGGAGTATCCC
1 GTTGGAGTATCCCCGATTATGAGA-AATTAATAGTTTAGAAATAAAACCGGGGTTGGAGTATCCC
*
53344 CTCAAAAATAACGGG
65 CTCGAAAATAACGGG
* *
53359 GTTGGAGTATCCCCGATTATGAAAAATTGAT-GTTGTAGAAATAAAACCGGGGTTGGAGTATCCC
1 GTTGGAGTATCCCCGATTATGAGAAATTAATAGTT-TAGAAATAAAACCGGGGTTGGAGTATCCC
53423 CTCGAAAATAACGGG
65 CTCGAAAATAACGGG
*
53438 GTTGGAGTATCCCCGATTATGAGAAATTAATATTTTAGAAATAAAACCGGGGTTGGAGTATCCCC
1 GTTGGAGTATCCCCGATTATGAGAAATTAATAGTTTAGAAATAAAACCGGGGTTGGAGTATCCCC
53503 TCGAAAATAACGGG
66 TCGAAAATAACGGG
* *
53517 GTTGGAGTAT-CCCGATTATGAGAAATTAATATTTTAGAAAATAAAATCGGGGTTGGAGTAT
1 GTTGGAGTATCCCCGATTATGAGAAATTAATAGTTTAG-AAATAAAACCGGGGTTGGAGTAT
53578 TCCCGATTGT
Statistics
Matches: 204, Mismatches: 11, Indels: 8
0.91 0.05 0.04
Matches are distributed among these distances:
78 30 0.15
79 171 0.84
80 3 0.01
ACGTcount: A:0.33, C:0.13, G:0.27, T:0.28
Consensus pattern (79 bp):
GTTGGAGTATCCCCGATTATGAGAAATTAATAGTTTAGAAATAAAACCGGGGTTGGAGTATCCCC
TCGAAAATAACGGG
Found at i:53610 original size:51 final size:49
Alignment explanation
Indices: 53513--53736 Score: 234
Period size: 51 Copynumber: 4.4 Consensus size: 49
53503 TCGAAAATAA
* * *
53513 CGGGGTTGGAGTAT-CCCGATTATGAGAAATTAATATTTTAGAAAATAAAAT
1 CGGGGTTGGAGTATCCCCGATTATGA-AAA-TAGTGTTTT-GGAAATAAAAT
* *
53564 CGGGGTTGGAGTATTCCCGATTGTGAAAAGTCAGTGTTTTGGAAATAAAAT
1 CGGGGTTGGAGTATCCCCGATTATGAAAA-T-AGTGTTTTGGAAATAAAAT
* * *
53615 CGGAGTTGGAGTATCCCCGATTATGGAAAATGGGTGTTTTAGAAATAAAAT
1 CGGGGTTGGAGTATCCCCGATTAT-GAAAAT-AGTGTTTTGGAAATAAAAT
* * * * *
53666 CGGAGTTGGAGTATCCCCGATTAAGAAAAATTGATGTTTTGGAAATGAAAC
1 CGGGGTTGGAGTATCCCCGATTATG-AAAATAG-TGTTTTGGAAATAAAAT
*
53717 CGGGATTGGAGTATCCCCGA
1 CGGGGTTGGAGTATCCCCGA
53737 AAAGAAAAAT
Statistics
Matches: 150, Mismatches: 18, Indels: 10
0.84 0.10 0.06
Matches are distributed among these distances:
50 2 0.01
51 127 0.85
52 21 0.14
ACGTcount: A:0.33, C:0.11, G:0.27, T:0.29
Consensus pattern (49 bp):
CGGGGTTGGAGTATCCCCGATTATGAAAATAGTGTTTTGGAAATAAAAT
Found at i:53694 original size:102 final size:102
Alignment explanation
Indices: 53515--53736 Score: 272
Period size: 102 Copynumber: 2.2 Consensus size: 102
53505 GAAAATAACG
* * *
53515 GGGTTGGAGTAT-CCCGATTATGAGAAATTAATATTTTAGAAAATAAAATCGGGGTTGGAGTATT
1 GGGTTGGAGTATCCCCGATTATGAGAAATGAATATTTTAGAAAATAAAATCGGAGTTGGAGTATC
** * *
53579 CCCGATTGTGAAAAGTCAG-TGTTTTGGAAATAAAATC
66 CCCGATTAAGAAAAAT-AGATGTTTTGGAAATAAAACC
** *
53616 GGAGTTGGAGTATCCCCGATTATG-GAAAATGGGTGTTTTAG-AAATAAAATCGGAGTTGGAGTA
1 GG-GTTGGAGTATCCCCGATTATGAG-AAATGAATATTTTAGAAAATAAAATCGGAGTTGGAGTA
* *
53679 TCCCCGATTAAGAAAAATTGATGTTTTGGAAATGAAACC
64 TCCCCGATTAAGAAAAATAGATGTTTTGGAAATAAAACC
53718 GGGATTGGAGTATCCCCGA
1 GGG-TTGGAGTATCCCCGA
53737 AAAGAAAAAT
Statistics
Matches: 104, Mismatches: 12, Indels: 9
0.83 0.10 0.07
Matches are distributed among these distances:
101 4 0.04
102 79 0.76
103 21 0.20
ACGTcount: A:0.33, C:0.11, G:0.27, T:0.29
Consensus pattern (102 bp):
GGGTTGGAGTATCCCCGATTATGAGAAATGAATATTTTAGAAAATAAAATCGGAGTTGGAGTATC
CCCGATTAAGAAAAATAGATGTTTTGGAAATAAAACC
Found at i:56063 original size:20 final size:20
Alignment explanation
Indices: 56038--56092 Score: 83
Period size: 20 Copynumber: 2.8 Consensus size: 20
56028 AAAATGCCTG
*
56038 AATGTATCGATACATTGTAA
1 AATGTATCGATACATTGCAA
*
56058 AATGTATCGATACAATGCAA
1 AATGTATCGATACATTGCAA
*
56078 AATGTATTGATACAT
1 AATGTATCGATACAT
56093 ATGGGTAAAC
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.42, C:0.11, G:0.15, T:0.33
Consensus pattern (20 bp):
AATGTATCGATACATTGCAA
Found at i:56125 original size:13 final size:13
Alignment explanation
Indices: 56107--56136 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
56097 GTAAACCCAG
56107 AATGTATCAATAC
1 AATGTATCAATAC
*
56120 AATGTATCGATAC
1 AATGTATCAATAC
56133 AATG
1 AATG
56137 AACAATGTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.43, C:0.13, G:0.13, T:0.30
Consensus pattern (13 bp):
AATGTATCAATAC
Found at i:56870 original size:76 final size:73
Alignment explanation
Indices: 56723--56867 Score: 166
Period size: 78 Copynumber: 1.9 Consensus size: 73
56713 TGGAAGGGGT
** *
56723 GTCCCACTTTTGAGGACAAAGGAAAAAAGAAAAGGAAAGTGTCCTACTTCTTGAGGACAAAGTGA
1 GTCCCACTTTTGAGGACAAAGGAAAAAAGAAAACAAAAGCGTCCTACTTCTTGAGGACAAA--GA
56788 AAAAGAGTAC
64 AAAAGAGTAC
* *
56798 GTCCTACTTTTCGAGGATAAAGGAAAAAAAGGAAAACAAAATGCGTCCTAC-TCTTCGAGGACAA
1 GTCCCACTTTT-GAGGACAAAGG-AAAAAA-GAAAACAAAA-GCGTCCTACTTCTT-GAGGAC-A
56862 AAGAAA
60 AAGAAA
56868 GAGGAAAATA
Statistics
Matches: 59, Mismatches: 5, Indels: 9
0.81 0.07 0.12
Matches are distributed among these distances:
75 10 0.17
76 10 0.17
77 6 0.10
78 16 0.27
79 14 0.24
80 3 0.05
ACGTcount: A:0.43, C:0.16, G:0.22, T:0.19
Consensus pattern (73 bp):
GTCCCACTTTTGAGGACAAAGGAAAAAAGAAAACAAAAGCGTCCTACTTCTTGAGGACAAAGAAA
AAGAGTAC
Found at i:56886 original size:42 final size:42
Alignment explanation
Indices: 56827--57083 Score: 223
Period size: 42 Copynumber: 6.0 Consensus size: 42
56817 AAGGAAAAAA
* * *
56827 AGGAAAACAAAATGCGTCCTACTCTTCGAGGACAAAAGAAAG
1 AGGAAAATAAAGTGCGTCCTACTCTTTGAGGACAAAAGAAAG
56869 AGGAAAATAAAGTGCGTCCTACTCTTTGAGGACAAAAGAGAAAAG
1 AGGAAAATAAAGTGCGTCCTACTCTTTGAGGAC-AAA-AG-AAAG
* * * * *
56914 AAGG-GAATGAAGTGTGTCCTGCTCTTTGAGGACAAAGGAAAG
1 -AGGAAAATAAAGTGCGTCCTACTCTTTGAGGACAAAAGAAAG
* * * *
56956 AGGAAAACAAAGTGCATCCTGCTCTTTGAGGACAAAAGGGAAAAAA
1 AGGAAAATAAAGTGCGTCCTACTCTTTGAGGACAAAA--G--AAAG
* * ** ** * **
57002 AGG-GAATGAAGTGTATCCTGTTCTTTGAGGACAAATGCGAG
1 AGGAAAATAAAGTGCGTCCTACTCTTTGAGGACAAAAGAAAG
*
57043 AGGAAAATAAAGTGTGTCCTACTCTTTGAGGACAAAA-AAAG
1 AGGAAAATAAAGTGCGTCCTACTCTTTGAGGACAAAAGAAAG
57084 TGCCACCAAC
Statistics
Matches: 173, Mismatches: 32, Indels: 21
0.77 0.14 0.09
Matches are distributed among these distances:
41 9 0.05
42 88 0.51
43 5 0.03
44 6 0.03
45 56 0.32
46 9 0.05
ACGTcount: A:0.40, C:0.14, G:0.26, T:0.19
Consensus pattern (42 bp):
AGGAAAATAAAGTGCGTCCTACTCTTTGAGGACAAAAGAAAG
Found at i:56933 original size:45 final size:45
Alignment explanation
Indices: 56798--57079 Score: 207
Period size: 42 Copynumber: 6.5 Consensus size: 45
56788 AAAAGAGTAC
* * * * *
56798 GTCCTACT-TTTCGAGGA-TAAAG-GAAAAAAAGGAAAACAAAATGC
1 GTCCTACTCTTT-GAGGACAAAAGAGAAAAGAAGG-AAATAAAGTGT
* *
56842 GTCCTACTCTTCGAGGAC-AAA-AG-AAAG-AGGAAAATAAAGTGC
1 GTCCTACTCTTTGAGGACAAAAGAGAAAAGAAGG-AAATAAAGTGT
* *
56884 GTCCTACTCTTTGAGGACAAAAGAGAAAAGAAGGGAATGAAGTGT
1 GTCCTACTCTTTGAGGACAAAAGAGAAAAGAAGGAAATAAAGTGT
* * *
56929 GTCCTGCTCTTTGAGGAC-AAAG-G-AAAG-AGGAAAACAAAGTGC
1 GTCCTACTCTTTGAGGACAAAAGAGAAAAGAAGG-AAATAAAGTGT
* * * * * *
56971 ATCCTGCTCTTTGAGGACAAAAGGGAAAAAAAGGGAATGAAGTGT
1 GTCCTACTCTTTGAGGACAAAAGAGAAAAGAAGGAAATAAAGTGT
* ** * *
57016 ATCCTGTTCTTTGAGGACAAATGCG---AG-AGGAAAATAAAGTGT
1 GTCCTACTCTTTGAGGACAAAAGAGAAAAGAAGG-AAATAAAGTGT
57058 GTCCTACTCTTTGAGGACAAAA
1 GTCCTACTCTTTGAGGACAAAA
57080 AAAGTGCCAC
Statistics
Matches: 196, Mismatches: 29, Indels: 28
0.77 0.11 0.11
Matches are distributed among these distances:
41 6 0.03
42 86 0.44
43 11 0.06
44 24 0.12
45 63 0.32
46 6 0.03
ACGTcount: A:0.40, C:0.14, G:0.26, T:0.20
Consensus pattern (45 bp):
GTCCTACTCTTTGAGGACAAAAGAGAAAAGAAGGAAATAAAGTGT
Found at i:56945 original size:87 final size:87
Alignment explanation
Indices: 56842--57079 Score: 350
Period size: 87 Copynumber: 2.7 Consensus size: 87
56832 AACAAAATGC
* *
56842 GTCCTACTCTTCGAGGACAAAAGAAAGAGGAAAATAAAGTGCGTCCTACTCTTTGAGGACAAAAG
1 GTCCTGCTCTTTGAGGACAAAAGAAAGAGGAAAATAAAGTGCGTCCTACTCTTTGAGGACAAAAG
*
56907 AGAAAAGAAGGGAATGAAGTGT
66 AGAAAAAAAGGGAATGAAGTGT
* * * *
56929 GTCCTGCTCTTTGAGGACAAAGGAAAGAGGAAAACAAAGTGCATCCTGCTCTTTGAGGACAAAAG
1 GTCCTGCTCTTTGAGGACAAAAGAAAGAGGAAAATAAAGTGCGTCCTACTCTTTGAGGACAAAAG
*
56994 GGAAAAAAAGGGAATGAAGTGT
66 AGAAAAAAAGGGAATGAAGTGT
* * * ** *
57016 ATCCTGTTCTTTGAGGACAAATGCGAGAGGAAAATAAAGTGTGTCCTACTCTTTGAGGACAAAA
1 GTCCTGCTCTTTGAGGACAAAAGAAAGAGGAAAATAAAGTGCGTCCTACTCTTTGAGGACAAAA
57080 AAAGTGCCAC
Statistics
Matches: 134, Mismatches: 17, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
87 134 1.00
ACGTcount: A:0.39, C:0.14, G:0.26, T:0.21
Consensus pattern (87 bp):
GTCCTGCTCTTTGAGGACAAAAGAAAGAGGAAAATAAAGTGCGTCCTACTCTTTGAGGACAAAAG
AGAAAAAAAGGGAATGAAGTGT
Found at i:57167 original size:61 final size:63
Alignment explanation
Indices: 57059--57295 Score: 265
Period size: 61 Copynumber: 3.9 Consensus size: 63
57049 ATAAAGTGTG
* * *
57059 TCCTACTCTTTGAGGACA-AAAAAAGTGCCACCAACTCGTGTGGGCTTTGAAAAAAAAAGGCG
1 TCCTACTCTTTGAGGACATAGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAAAAAAAGGCA
* * * *
57121 TCCTACTCTTTGAGGAC-TA-AAAGGTGCCACCAACTTGTGTGGGCTTTGCAAAGAGAAA-GTA
1 TCCTACTCTTTGAGGACATAGAAAAGTGCCACCAACTTGTGTGGGCTTTG-AAAAAAAAAGGCA
* * **
57182 TCCTACTCTTTAAGGAC-TAGAAAA-TGCCACCAACTTG-GATGGGCTTTTAAAGGAAAAGGCA
1 TCCTACTCTTTGAGGACATAGAAAAGTGCCACCAACTTGTG-TGGGCTTTGAAAAAAAAAGGCA
* * * *
57243 TCCTGCTTTTTGAGGACTTAGAAAAGTGCCACCAATTTGTGTGGGCTTT-AAAA
1 TCCTACTCTTTGAGGACATAGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAA
57296 GGTGTCCTAC
Statistics
Matches: 150, Mismatches: 17, Indels: 16
0.82 0.09 0.09
Matches are distributed among these distances:
60 8 0.05
61 83 0.55
62 38 0.25
63 20 0.13
64 1 0.01
ACGTcount: A:0.32, C:0.19, G:0.23, T:0.26
Consensus pattern (63 bp):
TCCTACTCTTTGAGGACATAGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAAAAAAAGGCA
Found at i:57226 original size:122 final size:119
Alignment explanation
Indices: 57059--57320 Score: 316
Period size: 122 Copynumber: 2.2 Consensus size: 119
57049 ATAAAGTGTG
* * *
57059 TCCTACTCTTTGAGGACAAAAAAAGTGCCACCAACTCGTGTGGGCTTTGAAAAAAAAAGGCGTCC
1 TCCTACTCTTTAAGGACTAAAAAAGTGCCACCAACTCGTGTGGGCTTTGAAAAAAAAAGGCATCC
*
57124 TACTCTTTGAGGAC-TA-AAAGGTGCCACCAACTTGTGTGGGCTTTGCAAAGAGAAAGTA
66 TACTCTTTGAGGACTTAGAAAAGTGCCACCAACTTGTGTGGGCTTT--AAA-AG---GTA
* * * **
57182 TCCTACTCTTTAAGGACTAGAAAA-TGCCACCAACTTG-GATGGGCTTTTAAAGGAAAAGGCATC
1 TCCTACTCTTTAAGGACTAAAAAAGTGCCACCAACTCGTG-TGGGCTTTGAAAAAAAAAGGCATC
* * * *
57245 CTGCTTTTTGAGGACTTAGAAAAGTGCCACCAATTTGTGTGGGCTTTAAAAGGTG
65 CTACTCTTTGAGGACTTAGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGTA
57300 TCCTACTCTTTAAGGACTAAA
1 TCCTACTCTTTAAGGACTAAA
57321 GGGCGAAAGG
Statistics
Matches: 122, Mismatches: 14, Indels: 11
0.83 0.10 0.07
Matches are distributed among these distances:
118 22 0.18
121 3 0.02
122 48 0.39
123 23 0.19
124 26 0.21
ACGTcount: A:0.31, C:0.19, G:0.23, T:0.27
Consensus pattern (119 bp):
TCCTACTCTTTAAGGACTAAAAAAGTGCCACCAACTCGTGTGGGCTTTGAAAAAAAAAGGCATCC
TACTCTTTGAGGACTTAGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGTA
Found at i:57485 original size:62 final size:61
Alignment explanation
Indices: 57342--57536 Score: 258
Period size: 62 Copynumber: 3.3 Consensus size: 61
57332 GAGAGCGTTT
* * *
57342 TGCTTTTTGAGGACT-GGAAAGTGCCACCAACTTGTGTGGGCTTTAAA--AAGAA---TCC
1 TGCTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAGGAAAAAGCGTCC
* *
57397 TGCTCTTTGAGGACTAAAAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGAAAAAGCGTCC
1 TGCTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTT-AAAGGAAAAAGCGTCC
* *
57459 TGCTATTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGTCC
1 TGCTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTT-AAAGGAAAAAGCGTCC
*
57521 TACTCTTTGAGGACTA
1 TGCTCTTTGAGGACTA
57537 AAGGGTGAAA
Statistics
Matches: 121, Mismatches: 12, Indels: 7
0.86 0.09 0.05
Matches are distributed among these distances:
55 14 0.12
56 26 0.21
57 3 0.02
59 4 0.03
62 74 0.61
ACGTcount: A:0.30, C:0.18, G:0.25, T:0.27
Consensus pattern (61 bp):
TGCTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAGGAAAAAGCGTCC
Found at i:57536 original size:218 final size:214
Alignment explanation
Indices: 57118--57751 Score: 707
Period size: 218 Copynumber: 2.9 Consensus size: 214
57108 AAAAAAAAAG
* *
57118 GCGTCCTACTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTGCAAAGAGAAAGTAT
1 GCGTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTT----A-A-AAAGAAT
* *
57183 CCTACTCTTTAAGGACTAGAAAATGCCACCAACTTG-GATGGGCTTTTAAAGGAAAAGGCATCCT
60 CCTGCTCTTTGAGGACTAGAAAATGCCACCAACTTGTG-TGGGC-TTTAAAGGAAAAGGCATCCT
* * *
57247 GCTTTTTGAGGACTTAGAAAAGTGCCACCAATTTGTGTGGGCTTT----AAAAGGTGTCCTACTC
123 GCTATTTGAGGAC-TAGAAAAGTGCCACCAACTTGTGTGGGCTTTAAGGAAAAGGCGTCCTACTC
* *
57308 TTTAAGGACTAAAGGGCGAAAGGAGAGA
187 TTTGAGGACTAAAGGGCGAAAAGAGAGA
** * *
57336 GCGTTTTGCTTTTTGAGGACTGGAAA-GTGCCACCAACTTGTGTGGGCTTTAAAAAGAATCCTGC
1 GCGTCCTGCTCTTTGAGGACT-AAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAATCCTGC
* * *
57400 TCTTTGAGGACTAAAAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGAAAAAGCGTCCTGCTAT
65 TCTTTGAGGACT-AGAAAATGCCACCAACTTGTGTGGGCTTT-AAAGGAAAAGGCATCCTGCTAT
57465 TTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGTCCTACTCTTTG
128 TTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTT--AAGGAAAAGGCGTCCTACTCTTTG
*
57530 AGGACTAAAGGGTGAAAAGAGAGA
191 AGGACTAAAGGGCGAAAAGAGAGA
* *
57554 GCGTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGTTTTAAAAGGAAAAGGTGT
1 GCGTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAA--AGAA----T
* * * * *
57619 CCTGCTCTTTGAGGACTGGGAAGTGCCACCAACATGTGTGGGCTTT-----AAAAGGCATCTTGC
60 CCTGCTCTTTGAGGACTAGAAAATGCCACCAACTTGTGTGGGCTTTAAAGGAAAAGGCATCCTGC
* * ** * * * *
57679 TCTTTGCGGACTA-AAGGGTGCCACCAACTCGTGTGGGCTTTGAAGGAGAAGGCATCCTGCTCTT
125 TATTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTT-AAGGAAAAGGCGTCCTACTCTT
57743 TGAGGACTA
189 TGAGGACTA
57752 GAAAATGCCA
Statistics
Matches: 359, Mismatches: 40, Indels: 37
0.82 0.09 0.08
Matches are distributed among these distances:
212 54 0.15
213 51 0.14
214 2 0.01
215 28 0.08
216 25 0.07
217 25 0.07
218 126 0.35
219 3 0.01
220 3 0.01
223 24 0.07
224 18 0.05
ACGTcount: A:0.28, C:0.19, G:0.27, T:0.26
Consensus pattern (214 bp):
GCGTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAATCCTGCT
CTTTGAGGACTAGAAAATGCCACCAACTTGTGTGGGCTTTAAAGGAAAAGGCATCCTGCTATTTG
AGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTAAGGAAAAGGCGTCCTACTCTTTGAGGAC
TAAAGGGCGAAAAGAGAGA
Found at i:57615 original size:100 final size:101
Alignment explanation
Indices: 57452--57635 Score: 316
Period size: 100 Copynumber: 1.8 Consensus size: 101
57442 GAAAGGAAAA
57452 AGCGTCCTGCTATTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGC
1 AGCGTCCTGCTATTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGC
57517 GTCCTACTCTTTGAGGACTAAAGGGTGAAAAGAGAG
66 GTCCTACTCTTTGAGGACTAAAGGGTGAAAAGAGAG
* * * *
57553 AGCGTCCTGCTCTTTGAGGACTA-AAAGGTGCCACCAACTTGTGTGGGTTTTAAAAGGAAAAGGT
1 AGCGTCCTGCTATTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGC
*
57617 GTCCTGCTCTTTGAGGACT
66 GTCCTACTCTTTGAGGACT
57636 GGGAAGTGCC
Statistics
Matches: 78, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
100 56 0.72
101 22 0.28
ACGTcount: A:0.28, C:0.18, G:0.28, T:0.26
Consensus pattern (101 bp):
AGCGTCCTGCTATTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGC
GTCCTACTCTTTGAGGACTAAAGGGTGAAAAGAGAG
Found at i:57915 original size:186 final size:186
Alignment explanation
Indices: 57557--58688 Score: 1863
Period size: 186 Copynumber: 6.1 Consensus size: 186
57547 AGAGAGAGCG
** *
57557 TCCTGCTCTTTGAGGACTA-AAAGGTGCCACCAACTTGTGTGGG-TTTTAAAAGGAAAAGGTGTC
1 TCCTGCTCTTTGAGGACTAGAAA-GTGCCACCAACTTGTGTGGGCTTTGCAAAGAAAAAGGTGTC
* * * * * *
57620 CTGCTCTTTGAGGACTGGGAA-GTGCCACCAACATGTGTGGGCTT--------TAAAAGGCATCT
65 CTGCTCTTTGAGGACTAGAAAGGTGCCACCAACTTGTGTGGGCTTCGAAAAGAAAAAAGGCGTCC
*
57676 TGCTCTTTGCGGACTAAAGGGTGCCACCAACTCGTGTGGGCTTTGAAGGAGAAGGCA
130 TGCTCTTTGAGGACTAAAGGGTGCCACCAACTCGTGTGGGCTTTGAAGGAGAAGGCA
*
57733 TCCTGCTCTTTGAGGACTAGAAAATGCCACCAACTTGTGTGGGCTTTGCAAAGAAAAAGGTGTCC
1 TCCTGCTCTTTGAGGACTAGAAAGTGCCACCAACTTGTGTGGGCTTTGCAAAGAAAAAGGTGTCC
*
57798 TGCTCTTTGAGGACTAGAAAGGTGCCACCAACTTGTGTGGGCCTCGAAAAGAAAAAAGGCGTCCT
66 TGCTCTTTGAGGACTAGAAAGGTGCCACCAACTTGTGTGGGCTTCGAAAAGAAAAAAGGCGTCCT
* *
57863 GCTCTTTTAGGACTAAAGGGTGCCACCAACTTGTGTGGGCTTTGAAGGAGAAGGCA
131 GCTCTTTGAGGACTAAAGGGTGCCACCAACTCGTGTGGGCTTTGAAGGAGAAGGCA
* *
57919 TCCTACTCTTTGAAGACTAGAAAGTGCCACCAACTTGTGTGGGCTTTGCAAAGAAAAAGGTGTCC
1 TCCTGCTCTTTGAGGACTAGAAAGTGCCACCAACTTGTGTGGGCTTTGCAAAGAAAAAGGTGTCC
*
57984 TGCTCTTTGAGGACTAGAAAGGTGCCACCAACTTGTGTGGGCTTCGAAAAGAAAAAAGGTGTCCT
66 TGCTCTTTGAGGACTAGAAAGGTGCCACCAACTTGTGTGGGCTTCGAAAAGAAAAAAGGCGTCCT
*
58049 GCTCTTTGAGGACTAAAGGGTGCCACCAACTCGTGTGGGCTTTGAAGGAGAAGGCG
131 GCTCTTTGAGGACTAAAGGGTGCCACCAACTCGTGTGGGCTTTGAAGGAGAAGGCA
* * * *
58105 TCCTGCACTTTGAGGACTAAAAAGTGCCACCAACTTGTGTGGGCTTTGCAAAGAAAAATGTGTCT
1 TCCTGCTCTTTGAGGACTAGAAAGTGCCACCAACTTGTGTGGGCTTTGCAAAGAAAAAGGTGTCC
*
58170 TGCTCTTTGAGGACTAGAAAGGTGCCACCAACTTGTGTGGGCTTCGAAAAGAAAAAAGGCGTCCA
66 TGCTCTTTGAGGACTAGAAAGGTGCCACCAACTTGTGTGGGCTTCGAAAAGAAAAAAGGCGTCCT
*
58235 ACTCTTTGAGGACTAAAGGGTGCCACCAACTCGTGTGGGCTTTGAAGGAGAAGGCA
131 GCTCTTTGAGGACTAAAGGGTGCCACCAACTCGTGTGGGCTTTGAAGGAGAAGGCA
* *
58291 TCCTGCTCTTTGAAGACTAGAAAGTGCCACCAACTTATGTGGGCTTTGCAAAGAAAAAGGTGTCC
1 TCCTGCTCTTTGAGGACTAGAAAGTGCCACCAACTTGTGTGGGCTTTGCAAAGAAAAAGGTGTCC
*
58356 TGCTCTTTGAGGACTAGAAAGGTGCCACCAACTTGTGTGGGCTTCGAAAAGAAAAAAGGCGTCTT
66 TGCTCTTTGAGGACTAGAAAGGTGCCACCAACTTGTGTGGGCTTCGAAAAGAAAAAAGGCGTCCT
*
58421 GCTCTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTGAAGGAGAAGGCA
131 GCTCTTTGAGGACTAAAGGGTGCCACCAACTCGTGTGGGCTTTGAAGGAGAAGGCA
58477 TCCTGCTCTTTGAGGACTAGAAAGTGCCACCAACTTGTGTGGGCTTTGCAAAGAAAAAGGTGTCC
1 TCCTGCTCTTTGAGGACTAGAAAGTGCCACCAACTTGTGTGGGCTTTGCAAAGAAAAAGGTGTCC
58542 TGCTCTTTGAGGACTAGAAAGGTGCCACCAACTTGTGTGGGCTTCGAAAAGAAAAAAGGCGTCCT
66 TGCTCTTTGAGGACTAGAAAGGTGCCACCAACTTGTGTGGGCTTCGAAAAGAAAAAAGGCGTCCT
* * * *
58607 ACTCTTTGAGGACTAAAGGGTGCCACCAACTTGTGTGGGCTTTGAAAAGGAAAAGACA
131 GCTCTTTGAGGACTAAAGGGTGCCACCAACTCGTGTGGGCTTTG--AAGGAGAAGGCA
*
58665 TCCTGCTCTTTGAGGACTAAAAAG
1 TCCTGCTCTTTGAGGACTAGAAAG
58689 CTAAAAGGGG
Statistics
Matches: 892, Mismatches: 51, Indels: 14
0.93 0.05 0.01
Matches are distributed among these distances:
176 38 0.04
177 39 0.04
178 21 0.02
186 761 0.85
188 33 0.04
ACGTcount: A:0.28, C:0.20, G:0.28, T:0.24
Consensus pattern (186 bp):
TCCTGCTCTTTGAGGACTAGAAAGTGCCACCAACTTGTGTGGGCTTTGCAAAGAAAAAGGTGTCC
TGCTCTTTGAGGACTAGAAAGGTGCCACCAACTTGTGTGGGCTTCGAAAAGAAAAAAGGCGTCCT
GCTCTTTGAGGACTAAAGGGTGCCACCAACTCGTGTGGGCTTTGAAGGAGAAGGCA
Found at i:62752 original size:21 final size:20
Alignment explanation
Indices: 62726--62780 Score: 69
Period size: 18 Copynumber: 2.8 Consensus size: 20
62716 CTGCCAGTTT
**
62726 CATGTATCGATACAATTTGTC
1 CATGTATCGATACAA-TTGAA
62747 CATGTATCGATAC-A-TGAA
1 CATGTATCGATACAATTGAA
62765 CATGTATCGATACAAT
1 CATGTATCGATACAAT
62781 GTATTGATAC
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
18 15 0.50
19 1 0.03
20 1 0.03
21 13 0.43
ACGTcount: A:0.35, C:0.18, G:0.15, T:0.33
Consensus pattern (20 bp):
CATGTATCGATACAATTGAA
Found at i:63356 original size:16 final size:17
Alignment explanation
Indices: 63335--63381 Score: 60
Period size: 19 Copynumber: 2.7 Consensus size: 17
63325 GTTTTTCTCT
63335 CCTTAAA-AATTCTCCC
1 CCTTAAACAATTCTCCC
*
63351 CCTTAAACGATTATCTCCC
1 CCTTAAAC-AAT-TCTCCC
63370 CCTTAAACAATT
1 CCTTAAACAATT
63382 ATCTTCTCCC
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
16 7 0.27
17 1 0.04
18 4 0.15
19 14 0.54
ACGTcount: A:0.32, C:0.34, G:0.02, T:0.32
Consensus pattern (17 bp):
CCTTAAACAATTCTCCC
Found at i:63369 original size:19 final size:19
Alignment explanation
Indices: 63345--63385 Score: 73
Period size: 19 Copynumber: 2.2 Consensus size: 19
63335 CCTTAAAAAT
*
63345 TCTCCCCCTTAAACGATTA
1 TCTCCCCCTTAAACAATTA
63364 TCTCCCCCTTAAACAATTA
1 TCTCCCCCTTAAACAATTA
63383 TCT
1 TCT
63386 TCTCCCCCTT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.27, C:0.37, G:0.02, T:0.34
Consensus pattern (19 bp):
TCTCCCCCTTAAACAATTA
Found at i:63392 original size:22 final size:20
Alignment explanation
Indices: 63343--63395 Score: 72
Period size: 19 Copynumber: 2.6 Consensus size: 20
63333 CTCCTTAAAA
*
63343 ATTCTCCCCCTTAAACGATT
1 ATTCTCCCCCTTAAACAATT
63363 A-TCTCCCCCTTAAACAATT
1 ATTCTCCCCCTTAAACAATT
63382 ATCTTCTCCCCCTT
1 A--TTCTCCCCCTT
63396 TATGTAAGAA
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
19 18 0.62
20 1 0.03
22 10 0.34
ACGTcount: A:0.23, C:0.40, G:0.02, T:0.36
Consensus pattern (20 bp):
ATTCTCCCCCTTAAACAATT
Found at i:65120 original size:13 final size:13
Alignment explanation
Indices: 65102--65127 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
65092 CAATTTTTTA
65102 TGTATCGATACAT
1 TGTATCGATACAT
65115 TGTATCGATACAT
1 TGTATCGATACAT
65128 ACTTTGGTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:74000 original size:20 final size:20
Alignment explanation
Indices: 73947--74002 Score: 78
Period size: 20 Copynumber: 2.8 Consensus size: 20
73937 ACATCTTTTT
*
73947 CATGTATCGATACATTGCAA
1 CATGTATCGATACTTTGCAA
73967 CATGTATCGATACTTTG-AA
1 CATGTATCGATACTTTGCAA
*
73986 CTGTGTATCGATACTTT
1 C-ATGTATCGATACTTT
74003 TAAGGGTTTT
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
19 3 0.09
20 30 0.91
ACGTcount: A:0.29, C:0.18, G:0.16, T:0.38
Consensus pattern (20 bp):
CATGTATCGATACTTTGCAA
Found at i:80100 original size:219 final size:219
Alignment explanation
Indices: 79721--80155 Score: 825
Period size: 219 Copynumber: 2.0 Consensus size: 219
79711 TTCCAAAGCC
79721 ATAAGACATATCTCTTCTTGGTTTGAGACTTTGATCAAAGTGCTTTCCATTCTTGAGCAGAGCAA
1 ATAAGACATATCTCTTCTTGGTTTGAGACTTTGATCAAAGTGCTTTCCATTCTTGAGCAGAGCAA
*
79786 GATCGTCTCTCCCGGGTGTGAATCTGTTGAAGGAGGTTAGGCTCTGATACCAATTGAAAGCTCAA
66 GATCGTCTCTCCCGGGTGTGAATCTGTTGAAGAAGGTTAGGCTCTGATACCAATTGAAAGCTCAA
* *
79851 TGAATAATGAACCAAGAGGGGGGTGAATTGGTTCTTTTCGAATTTTTCTGAATTTGAAAGAAAAA
131 TGAATAATGAACCAAGAAGGGGGTGAATTGGTTCTTTTCGAATTTTTCCGAATTTGAAAGAAAAA
79916 GAAATTCGAAAGACAAAACGAATA
196 GAAATTCGAAAGACAAAACGAATA
*
79940 ATAAGACATATCTCTTCTTGGTTTGAGACTTTGATTAAAGTGCTTTCCATTCTTGAGCAGAGCAA
1 ATAAGACATATCTCTTCTTGGTTTGAGACTTTGATCAAAGTGCTTTCCATTCTTGAGCAGAGCAA
80005 GATCGTCTCTCCCGGGTGTGAATCTGTTGAAGAAGGTTAGGCTCTGATACCAATTGAAAGCTCAA
66 GATCGTCTCTCCCGGGTGTGAATCTGTTGAAGAAGGTTAGGCTCTGATACCAATTGAAAGCTCAA
*
80070 TGAATAATGAACCCAGAAGGGGGTGAATTGGTTCTTTTCGAATTTTTCCGAATTTGAAAGAAAAA
131 TGAATAATGAACCAAGAAGGGGGTGAATTGGTTCTTTTCGAATTTTTCCGAATTTGAAAGAAAAA
80135 GAAATTCGAAAGACAAAACGA
196 GAAATTCGAAAGACAAAACGA
80156 TGAAATAATC
Statistics
Matches: 211, Mismatches: 5, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
219 211 1.00
ACGTcount: A:0.32, C:0.15, G:0.23, T:0.30
Consensus pattern (219 bp):
ATAAGACATATCTCTTCTTGGTTTGAGACTTTGATCAAAGTGCTTTCCATTCTTGAGCAGAGCAA
GATCGTCTCTCCCGGGTGTGAATCTGTTGAAGAAGGTTAGGCTCTGATACCAATTGAAAGCTCAA
TGAATAATGAACCAAGAAGGGGGTGAATTGGTTCTTTTCGAATTTTTCCGAATTTGAAAGAAAAA
GAAATTCGAAAGACAAAACGAATA
Found at i:80902 original size:19 final size:20
Alignment explanation
Indices: 80878--80930 Score: 90
Period size: 19 Copynumber: 2.7 Consensus size: 20
80868 CTGCCAGTTT
*
80878 CATGTATCGATACAATGAA-
1 CATGTATCGATACAAAGAAG
80897 CATGTATCGATACAAAGAAG
1 CATGTATCGATACAAAGAAG
80917 CATGTATCGATACA
1 CATGTATCGATACA
80931 TCTAGGGATG
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
19 18 0.56
20 14 0.44
ACGTcount: A:0.42, C:0.17, G:0.17, T:0.25
Consensus pattern (20 bp):
CATGTATCGATACAAAGAAG
Found at i:84259 original size:51 final size:51
Alignment explanation
Indices: 84150--84269 Score: 161
Period size: 51 Copynumber: 2.4 Consensus size: 51
84140 TCGAAAATAA
* * * *
84150 CGGGGTTGAAGTGTCCCCGATTGTGAGAAATCAATATTTTAGATATAAGGT
1 CGGGGTTGAAGTATCCCTGATTGTGAGAAATCAATATTTTAGAAATAAGCT
* *
84201 CGAGGTTGAAGTATCCCTGATTGTGAGAAATCAATATTTTGGAAATAAAGCT
1 CGGGGTTGAAGTATCCCTGATTGTGAGAAATCAATATTTTAGAAAT-AAGCT
*
84253 -GGGGTTGGAGTATCCCT
1 CGGGGTTGAAGTATCCCT
84270 TTGGAAATAA
Statistics
Matches: 60, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
51 56 0.93
52 4 0.07
ACGTcount: A:0.29, C:0.12, G:0.28, T:0.31
Consensus pattern (51 bp):
CGGGGTTGAAGTATCCCTGATTGTGAGAAATCAATATTTTAGAAATAAGCT
Found at i:84291 original size:28 final size:28
Alignment explanation
Indices: 84238--84322 Score: 109
Period size: 28 Copynumber: 2.9 Consensus size: 28
84228 AAATCAATAT
84238 TTTGGAAATAAAGCTGGGGTTGGAGTATCCC
1 TTTGGAAAT-AA-C-GGGGTTGGAGTATCCC
84269 TTTGGAAATAACGGGGTTGGAGTATCCCC
1 TTTGGAAATAACGGGGTTGGAGTAT-CCC
**
84298 GAT-GAAATAACGGGGTTGGAGTATC
1 TTTGGAAATAACGGGGTTGGAGTATC
84323 TTCGATTGTG
Statistics
Matches: 51, Mismatches: 2, Indels: 6
0.86 0.03 0.10
Matches are distributed among these distances:
27 1 0.02
28 34 0.67
29 5 0.10
30 2 0.04
31 9 0.18
ACGTcount: A:0.27, C:0.13, G:0.33, T:0.27
Consensus pattern (28 bp):
TTTGGAAATAACGGGGTTGGAGTATCCC
Found at i:84382 original size:51 final size:50
Alignment explanation
Indices: 84308--84478 Score: 218
Period size: 51 Copynumber: 3.4 Consensus size: 50
84298 GATGAAATAA
** *
84308 CGGGGTTGGAGTATCTTCGATTGTGAAAAATTAGTGTTTT-GAAAATAAAAT
1 CGGGGTTGGAGTATCCCCGATTGTGAAAAATT-GTGTTTTAG-AAATAAAAC
* * * *
84359 CGGAGTTGGAGTATCCCCAATTGTGGAGAATTGGTGTTTTAGAAATAAAAC
1 CGGGGTTGGAGTATCCCCGATTGTGAAAAATT-GTGTTTTAGAAATAAAAC
* *
84410 CGGGGTTGGAGTATCCTCGATTATGAAAAATTGATGTTTTAGAAATAAAAC
1 CGGGGTTGGAGTATCCCCGATTGTGAAAAATTG-TGTTTTAGAAATAAAAC
84461 CGGGGTTGGAGTATCCCC
1 CGGGGTTGGAGTATCCCC
84479 TCAAAAATAA
Statistics
Matches: 103, Mismatches: 15, Indels: 4
0.84 0.12 0.03
Matches are distributed among these distances:
50 1 0.01
51 101 0.98
52 1 0.01
ACGTcount: A:0.31, C:0.11, G:0.27, T:0.31
Consensus pattern (50 bp):
CGGGGTTGGAGTATCCCCGATTGTGAAAAATTGTGTTTTAGAAATAAAAC
Found at i:84504 original size:79 final size:78
Alignment explanation
Indices: 84414--84636 Score: 302
Period size: 79 Copynumber: 2.8 Consensus size: 78
84404 TAAAACCGGG
*
84414 GTTGGAGTATCCTCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTATCCCC
1 GTTGGAGTATCC-CGATTATGAAAAATTGATGTTTTAGAAATAAAATCGGGGTTGGAGTATCCCC
*
84479 TCAAAAATAACGTA
65 TCAAAAATAACGGA
* * * * *
84493 GTTGGAGTATCCCCGATTATGAGAAATTAATATTTTAGAAATAAAATCGAGGTTGGAGTGTCCCC
1 GTTGGAGTAT-CCCGATTATGAAAAATTGATGTTTTAGAAATAAAATCGGGGTTGGAGTATCCCC
* *
84558 TCGAAAATAACGGG
65 TCAAAAATAACGGA
* * * *
84572 GTTGGAGTATCCCTGATTGTGAAAAGTTGATGTTTTGGAAATAAAATCGGAGTTGGAGTATCCCC
1 GTTGGAGTATCCC-GATTATGAAAAATTGATGTTTTAGAAATAAAATCGGGGTTGGAGTATCCCC
84637 GATTATGGAA
Statistics
Matches: 124, Mismatches: 18, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
78 3 0.02
79 119 0.96
80 2 0.02
ACGTcount: A:0.33, C:0.13, G:0.24, T:0.30
Consensus pattern (78 bp):
GTTGGAGTATCCCGATTATGAAAAATTGATGTTTTAGAAATAAAATCGGGGTTGGAGTATCCCCT
CAAAAATAACGGA
Found at i:84635 original size:51 final size:50
Alignment explanation
Indices: 84572--84748 Score: 205
Period size: 51 Copynumber: 3.5 Consensus size: 50
84562 AAATAACGGG
* *
84572 GTTGGAGTATCCCTGATTGTGAAAAGTTGATGTTTTGGAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTATGAAAA-TTGATGTTTTGGAAATAAAATCGGA
* * *
84623 GTTGGAGTATCCCCGATTATGGAAAATGGGTGTTTTAGAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTAT-GAAAATTGATGTTTTGGAAATAAAATCGGA
* * * *
84674 GTTGGAGTACCCCCGATTAAGAAAAATTGATGTTTTGGAAATGAAACCGG-
1 GTTGGAGTATCCCCGATTATG-AAAATTGATGTTTTGGAAATAAAATCGGA
* *
84724 GATTGAAGTATCCCCGA-GATGAAAA
1 G-TTGGAGTATCCCCGATTATGAAAA
84749 ATCAAGAAAT
Statistics
Matches: 107, Mismatches: 16, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
49 4 0.04
50 4 0.04
51 94 0.88
52 5 0.05
ACGTcount: A:0.34, C:0.11, G:0.27, T:0.28
Consensus pattern (50 bp):
GTTGGAGTATCCCCGATTATGAAAATTGATGTTTTGGAAATAAAATCGGA
Found at i:87066 original size:20 final size:19
Alignment explanation
Indices: 87041--87114 Score: 103
Period size: 20 Copynumber: 3.7 Consensus size: 19
87031 AAAATGCCTG
*
87041 AATGTATCGATACATTGTAA
1 AATGTATCGATACAATG-AA
*
87061 AATGTATCGATACAATGAGC
1 AATGTATCGATACAATGA-A
87081 AATGTATCGATACAATGCAA
1 AATGTATCGATACAATG-AA
87101 AATGTATCGATACA
1 AATGTATCGATACA
87115 TTTTGGCAAA
Statistics
Matches: 49, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
19 1 0.02
20 47 0.96
21 1 0.02
ACGTcount: A:0.42, C:0.14, G:0.16, T:0.28
Consensus pattern (19 bp):
AATGTATCGATACAATGAA
Found at i:90843 original size:40 final size:40
Alignment explanation
Indices: 90788--90867 Score: 151
Period size: 40 Copynumber: 2.0 Consensus size: 40
90778 TATTAGAAAA
90788 AGGGCTTAGATAGAATAAAGTGTTTGTAGCCTCTCCTTCT
1 AGGGCTTAGATAGAATAAAGTGTTTGTAGCCTCTCCTTCT
*
90828 AGGGCTTGGATAGAATAAAGTGTTTGTAGCCTCTCCTTCT
1 AGGGCTTAGATAGAATAAAGTGTTTGTAGCCTCTCCTTCT
90868 TGTTCGTTGC
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
40 39 1.00
ACGTcount: A:0.24, C:0.17, G:0.24, T:0.35
Consensus pattern (40 bp):
AGGGCTTAGATAGAATAAAGTGTTTGTAGCCTCTCCTTCT
Found at i:91400 original size:12 final size:12
Alignment explanation
Indices: 91383--91408 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
91373 GTATCGATAC
91383 ATGGTACATTGT
1 ATGGTACATTGT
91395 ATGGTACATTGT
1 ATGGTACATTGT
91407 AT
1 AT
91409 CAATACAATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.27, C:0.08, G:0.23, T:0.42
Consensus pattern (12 bp):
ATGGTACATTGT
Found at i:97212 original size:17 final size:17
Alignment explanation
Indices: 97190--97223 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
97180 TTTTAGTGCC
97190 AGATTTTGATTGTTCTT
1 AGATTTTGATTGTTCTT
97207 AGATTTTGATTGTTCTT
1 AGATTTTGATTGTTCTT
97224 CTATCATCCC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.18, C:0.06, G:0.18, T:0.59
Consensus pattern (17 bp):
AGATTTTGATTGTTCTT
Found at i:100507 original size:19 final size:19
Alignment explanation
Indices: 100483--100574 Score: 82
Period size: 19 Copynumber: 5.5 Consensus size: 19
100473 ATACAGGAAA
100483 TGTATCGATGCATAAGTGT
1 TGTATCGATGCATAAGTGT
*
100502 TGTATCGAT--ACAA----
1 TGTATCGATGCATAAGTGT
100515 TGTATCGATGCATAAGTGT
1 TGTATCGATGCATAAGTGT
*
100534 TGTATCGAT--ACAA----
1 TGTATCGATGCATAAGTGT
100547 TGTATCGATGCATAAGTGT
1 TGTATCGATGCATAAGTGT
100566 TGTATCGAT
1 TGTATCGAT
100575 ACAATGTATC
Statistics
Matches: 57, Mismatches: 4, Indels: 24
0.67 0.05 0.28
Matches are distributed among these distances:
13 18 0.32
15 6 0.11
17 6 0.11
19 27 0.47
ACGTcount: A:0.29, C:0.12, G:0.23, T:0.36
Consensus pattern (19 bp):
TGTATCGATGCATAAGTGT
Found at i:100518 original size:32 final size:32
Alignment explanation
Indices: 100481--100585 Score: 210
Period size: 32 Copynumber: 3.3 Consensus size: 32
100471 TAATACAGGA
100481 AATGTATCGATGCATAAGTGTTGTATCGATAC
1 AATGTATCGATGCATAAGTGTTGTATCGATAC
100513 AATGTATCGATGCATAAGTGTTGTATCGATAC
1 AATGTATCGATGCATAAGTGTTGTATCGATAC
100545 AATGTATCGATGCATAAGTGTTGTATCGATAC
1 AATGTATCGATGCATAAGTGTTGTATCGATAC
100577 AATGTATCG
1 AATGTATCG
100586 CTACGAAGCT
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:0.31, C:0.12, G:0.22, T:0.34
Consensus pattern (32 bp):
AATGTATCGATGCATAAGTGTTGTATCGATAC
Found at i:117009 original size:19 final size:18
Alignment explanation
Indices: 116984--117048 Score: 68
Period size: 19 Copynumber: 3.8 Consensus size: 18
116974 ATTTCAACGA
116984 TTTGTATCGATACATAAG
1 TTTGTATCGATACATAAG
117002 TGTTGTATCGATA-A-AA-
1 T-TTGTATCGATACATAAG
117018 --TGTATCGATACATAAG
1 TTTGTATCGATACATAAG
*
117034 TTTTGTATCTATACA
1 -TTTGTATCGATACA
117049 ATGTACAGCT
Statistics
Matches: 39, Mismatches: 1, Indels: 13
0.74 0.02 0.25
Matches are distributed among these distances:
13 10 0.26
14 1 0.03
15 2 0.05
17 2 0.05
18 2 0.05
19 22 0.56
ACGTcount: A:0.34, C:0.11, G:0.15, T:0.40
Consensus pattern (18 bp):
TTTGTATCGATACATAAG
Found at i:117022 original size:32 final size:32
Alignment explanation
Indices: 116986--117053 Score: 109
Period size: 32 Copynumber: 2.1 Consensus size: 32
116976 TTCAACGATT
116986 TGTATCGATACATAAGTGTTGTATCGATAAAA
1 TGTATCGATACATAAGTGTTGTATCGATAAAA
* * *
117018 TGTATCGATACATAAGTTTTGTATCTATACAA
1 TGTATCGATACATAAGTGTTGTATCGATAAAA
117050 TGTA
1 TGTA
117054 CAGCTACGAA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.35, C:0.10, G:0.16, T:0.38
Consensus pattern (32 bp):
TGTATCGATACATAAGTGTTGTATCGATAAAA
Found at i:117119 original size:13 final size:13
Alignment explanation
Indices: 117101--117125 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
117091 ATTACTCAAA
117101 TGTATCGATACAT
1 TGTATCGATACAT
117114 TGTATCGATACA
1 TGTATCGATACA
117126 CGGATCTTTG
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:118059 original size:20 final size:20
Alignment explanation
Indices: 118022--118060 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
118012 ACAACCTTGA
*
118022 TCATGCATTTTTACCATGTT
1 TCATGCATTTATACCATGTT
*
118042 TCATGCATTTATAGCATGT
1 TCATGCATTTATACCATGT
118061 CCAGCACCTC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.23, C:0.18, G:0.13, T:0.46
Consensus pattern (20 bp):
TCATGCATTTATACCATGTT
Found at i:124514 original size:30 final size:29
Alignment explanation
Indices: 124478--124595 Score: 112
Period size: 30 Copynumber: 3.9 Consensus size: 29
124468 CTTTTTTGTT
*
124478 CAAAGTCCACAACTCAGTGGCATCTCCTCC
1 CAAAGTCCACGACTCAGTGGCATCT-CTCC
* **
124508 CAAAGTCCACGACTTAGTGGCATCTCTTT
1 CAAAGTCCACGACTCAGTGGCATCTCTCC
* *
124537 CTAAGTCCACGACTCAGTGGCATCCTTTTCTTC
1 CAAAGTCCACGACTCAGTGGCAT-C---TCTCC
* *
124570 C-AAGTCCACGACTCAATTGCATCTCT
1 CAAAGTCCACGACTCAGTGGCATCTCT
124596 TCTTGTTAAG
Statistics
Matches: 75, Mismatches: 9, Indels: 10
0.80 0.10 0.11
Matches are distributed among these distances:
28 3 0.04
29 23 0.31
30 24 0.32
31 1 0.01
32 19 0.25
33 5 0.07
ACGTcount: A:0.24, C:0.34, G:0.14, T:0.28
Consensus pattern (29 bp):
CAAAGTCCACGACTCAGTGGCATCTCTCC
Found at i:124516 original size:63 final size:62
Alignment explanation
Indices: 124434--124622 Score: 190
Period size: 63 Copynumber: 3.0 Consensus size: 62
124424 CCCTAGTTGA
* *
124434 GCATCTCTTCTCAAAGTCCACGACTTAATGGCATCTTTTTTGTTCAAAGTCCACAACTCAGTG
1 GCATCTCCTCCCAAAGTCCACGACTTAATGGCATCTTTTTTGTTC-AAGTCCACAACTCAGTG
* * * *
124497 GCATCTCCTCCCAAAGTCCACGACTTAGTGGCATC-TCTTT-CT-AAGTCCACGACTCAGTG
1 GCATCTCCTCCCAAAGTCCACGACTTAATGGCATCTTTTTTGTTCAAGTCCACAACTCAGTG
* * * * * *
124556 GCATCCTTTTCTTCC-AAGTCCACGACTCAATTGCATCTCTTCTTGTT-AAGTCCACAACTCCGT
1 GCAT-C--TCCTCCCAAAGTCCACGACTTAATGGCATCT-TTTTTGTTCAAGTCCACAACTCAGT
124619 G
62 G
124620 GCA
1 GCA
124623 CTTTTTTCCT
Statistics
Matches: 104, Mismatches: 16, Indels: 11
0.79 0.12 0.08
Matches are distributed among these distances:
59 20 0.19
60 1 0.01
61 20 0.19
62 9 0.09
63 35 0.34
64 19 0.18
ACGTcount: A:0.23, C:0.31, G:0.15, T:0.31
Consensus pattern (62 bp):
GCATCTCCTCCCAAAGTCCACGACTTAATGGCATCTTTTTTGTTCAAGTCCACAACTCAGTG
Found at i:124607 original size:32 final size:30
Alignment explanation
Indices: 124447--124615 Score: 101
Period size: 32 Copynumber: 5.4 Consensus size: 30
124437 TCTCTTCTCA
* * *
124447 AAGTCCACGACTTAATGGCATCTTTTTTGTT
1 AAGTCCACGACTCAATGGCATC-CTTTTCTT
* * * * **
124478 CAAAGTCCACAACTCAGTGGCAT-CTCCTCCCA
1 --AAGTCCACGACTCAATGGCATCCT-TTTCTT
* *
124510 AAGTCCACGACTTAGTGGCAT-CTCTTTC-T
1 AAGTCCACGACTCAATGGCATCCT-TTTCTT
*
124539 AAGTCCACGACTCAGTGGCATCCTTTTCTT
1 AAGTCCACGACTCAATGGCATCCTTTTCTT
* *
124569 CCAAGTCCACGACTCAATTGCATCTCTTCTTGTT
1 --AAGTCCACGACTCAATGGCATC-CTT-TTCTT
*
124603 AAGTCCACAACTC
1 AAGTCCACGACTC
124616 CGTGGCACTT
Statistics
Matches: 110, Mismatches: 19, Indels: 15
0.76 0.13 0.10
Matches are distributed among these distances:
29 24 0.22
30 27 0.25
31 1 0.01
32 33 0.30
33 21 0.19
34 4 0.04
ACGTcount: A:0.24, C:0.31, G:0.14, T:0.31
Consensus pattern (30 bp):
AAGTCCACGACTCAATGGCATCCTTTTCTT
Found at i:124709 original size:32 final size:32
Alignment explanation
Indices: 124671--124770 Score: 112
Period size: 32 Copynumber: 3.1 Consensus size: 32
124661 CCATGGCGTC
*
124671 CCTTTTTCCTATAAGTCCACAACTCCGTGGCA
1 CCTTTTTCCTTTAAGTCCACAACTCCGTGGCA
* * **
124703 CCTTTTTCTTTTCAAAGCCCATTACTCCGTGGCA
1 CCTTTTTCCTTT--AAGTCCACAACTCCGTGGCA
*
124737 CC-TCTTCCTTTTAAGTCCACAACTCCGTGGCA
1 CCTTTTTCC-TTTAAGTCCACAACTCCGTGGCA
124769 CC
1 CC
124771 CCCTTCTAAA
Statistics
Matches: 55, Mismatches: 10, Indels: 6
0.77 0.14 0.08
Matches are distributed among these distances:
32 29 0.53
33 4 0.07
34 22 0.40
ACGTcount: A:0.19, C:0.36, G:0.12, T:0.33
Consensus pattern (32 bp):
CCTTTTTCCTTTAAGTCCACAACTCCGTGGCA
Found at i:124733 original size:34 final size:32
Alignment explanation
Indices: 124682--124770 Score: 106
Period size: 34 Copynumber: 2.7 Consensus size: 32
124672 CTTTTTCCTA
* * *
124682 TAAGTCCACAACTCCGTGGCACCTTTTTCTTT
1 TAAGCCCACAACTCCGTGGCACCTCTTCCTTT
**
124714 TCAAAGCCCATTACTCCGTGGCACCTCTTCCTTT
1 T--AAGCCCACAACTCCGTGGCACCTCTTCCTTT
*
124748 TAAGTCCACAACTCCGTGGCACC
1 TAAGCCCACAACTCCGTGGCACC
124771 CCCTTCTAAA
Statistics
Matches: 47, Mismatches: 8, Indels: 4
0.80 0.14 0.07
Matches are distributed among these distances:
32 20 0.43
34 27 0.57
ACGTcount: A:0.20, C:0.36, G:0.13, T:0.30
Consensus pattern (32 bp):
TAAGCCCACAACTCCGTGGCACCTCTTCCTTT
Found at i:124826 original size:27 final size:31
Alignment explanation
Indices: 124771--124826 Score: 75
Period size: 27 Copynumber: 1.9 Consensus size: 31
124761 CCGTGGCACC
*
124771 CCCTTCTAAAGCCCACACATGTCGGTGGCAA
1 CCCTTCTAAAGCCCACACATGTCGCTGGCAA
124802 CCCTTCT-AAG-CC-CA-ATGTCGCTGGC
1 CCCTTCTAAAGCCCACACATGTCGCTGGC
124827 CTTGAATCAG
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
27 10 0.42
28 2 0.08
29 2 0.08
30 3 0.12
31 7 0.29
ACGTcount: A:0.21, C:0.38, G:0.20, T:0.21
Consensus pattern (31 bp):
CCCTTCTAAAGCCCACACATGTCGCTGGCAA
Found at i:124860 original size:43 final size:43
Alignment explanation
Indices: 124813--125320 Score: 230
Period size: 43 Copynumber: 10.8 Consensus size: 43
124803 CCTTCTAAGC
124813 CCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCAAAT
1 CCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCAAAT
* * *
124856 CCAATGTCGCTGGCCTTGAATCAGCGCATTGGCACCTTTAAGT
1 CCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCAAAT
* * * * *
124899 CCAATATCGCTAGCCGTGAATCAGCATATTGGCACCTTCATCTTTAAGA
1 CCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCA-----AA-T
* * * * **
124948 CCAATGCCGCTAGTCTTGAATCAGCACATTGGCACCTTTAAGC
1 CCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCAAAT
* * *
124991 CCAGTATCGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGA-
1 CCAATGTCGCTGGCCTTGAATCAGCACATTGGCACC--T-TC---AA-AT
* * * *
125040 CCGATGTCGTTGGCCTTGAA-CAACACATCGGCACC-TCAACCATCTTT
1 CCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCAA--A----T
* * * * *
125087 AAGCCCAATATCGCTGGCCTTAAATCAGCATATTGGCACATCATCTTTAAGT
1 ----CCAATGTCGCTGGCCTTGAATCAGCACATTGG--CA-C--CTTCAAAT
* *
125139 CCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCCCCATCTTAAGT
1 CCAATGTCGCTGGCCTTGAATCAGCACATTGGCA---CC-T-TCAAAT
* * * *
125187 CCAATATCACTGGCCTTGAATCAGCATATTGGCGCCTTCGTCATCTTTAAGT
1 CCAATGTCGCTGGCCTTGAATCAGCACATTGGCACC-T--TCA-----AA-T
* *
125239 ACAATGTCGCTGGCCCTGAATCAGCACATTGGCACCTTCATCTTTAAGT
1 CCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCA-----AA-T
* * *
125288 CCAATATCGCTGGCCTTGAATCAGTATATTGGC
1 CCAATGTCGCTGGCCTTGAATCAGCACATTGGC
125321 GTCTTCGTCA
Statistics
Matches: 357, Mismatches: 67, Indels: 76
0.71 0.13 0.15
Matches are distributed among these distances:
41 2 0.01
42 1 0.00
43 104 0.29
44 3 0.01
45 4 0.01
46 6 0.02
47 1 0.00
48 79 0.22
49 92 0.26
51 18 0.05
52 40 0.11
54 2 0.01
55 1 0.00
57 1 0.00
58 3 0.01
ACGTcount: A:0.25, C:0.28, G:0.18, T:0.28
Consensus pattern (43 bp):
CCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCAAAT
Found at i:124968 original size:49 final size:49
Alignment explanation
Indices: 124808--125374 Score: 474
Period size: 49 Copynumber: 11.8 Consensus size: 49
124798 GCAACCCTTC
* * *
124808 TAAGCCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCA----
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTT
* **
124853 -AA-TCCAATGTCGCTGGCCTTGAATCAGCGCATTGGCA----C--CTT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTT
* *
124894 TAAGTCCAATATCGCTAGCCGTGAATCAGCATATTGGCACCTTCATCTT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTT
* ** * * *
124943 TAAGACCAATGCCGCTAGTCTTGAATCAGCACATTGGCA----C--CTT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTT
* * *
124986 TAAGCCCAGTATCGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTT
* * * * * * * *
125035 TAAGACCGATGTCGTTGGCCTTGAA-CAACACATCGGCACCTCAACCATCTT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCT---TCATCTT
* * *
125086 TAAGCCCAATATCGCTGGCCTTAAATCAGCATATTGGCA-CATCATCTT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTT
* * **
125134 TAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCCCCATC-T
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTT
* *
125182 TAAGTCCAATATCACTGGCCTTGAATCAGCATATTGGCGCCTTCGTCATCTT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACC-T--TCATCTT
* * * *
125234 TAAGTACAATGTCGCTGGCCCTGAATCAGCACATTGGCACCTTCATCTT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTT
* * *
125283 TAAGTCCAATATCGCTGGCCTTGAATCAGTATATTGGCGTCTTCGTCATCTT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGC-AC--CTTCATCTT
** * * * *
125335 TAAAACCCAATGTCGTTGGCCTGGAATCAGCACATTGGCA
1 T-AAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCA
125375 TTCTCCTCAT
Statistics
Matches: 418, Mismatches: 74, Indels: 53
0.77 0.14 0.10
Matches are distributed among these distances:
39 1 0.00
42 2 0.00
43 98 0.23
44 2 0.00
45 1 0.00
47 1 0.00
48 92 0.22
49 104 0.25
50 1 0.00
51 31 0.07
52 55 0.13
53 30 0.07
ACGTcount: A:0.25, C:0.28, G:0.19, T:0.28
Consensus pattern (49 bp):
TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTT
Found at i:125167 original size:100 final size:102
Alignment explanation
Indices: 124855--125374 Score: 520
Period size: 100 Copynumber: 5.3 Consensus size: 102
124845 CACCTTCAAA
* * *
124855 TCCAATGTCGCTGGCCTTGAATCAGCGCATTGGCA-----C--CTTTAAGTCCAATATCGCTAGC
1 TCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTCCCATCTTTAAGCCCAATATCGCTGGC
* *
124913 CGTGAATCAGCATATTGGCACCT---TCATCTTTAAG
66 CTTGAATCAGCATATTGGCGCCTACGTCATCTTTAAG
* * * * *
124947 ACCAATGCCGCTAGTCTTGAATCAGCACATTGGCA-----C--CTTTAAGCCCAGTATCGCTGGC
1 TCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTCCCATCTTTAAGCCCAATATCGCTGGC
* *
125005 CTTGAATCAGCATATTGGCACCT---TTATCTTTAAG
66 CTTGAATCAGCATATTGGCGCCTACGTCATCTTTAAG
* * * * *
125039 ACCGATGTCGTTGGCCTTGAA-CAACACATCGGCACCTCAACCATCTTTAAGCCCAATATCGCTG
1 TCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTC--CCATCTTTAAGCCCAATATCGCTG
* *
125103 GCCTTAAATCAGCATATT-G-G-C-ACATCATCTTTAAG
64 GCCTTGAATCAGCATATTGGCGCCTACGTCATCTTTAAG
* *
125138 TCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACC-CCCATC-TTAAGTCCAATATCACTGGC
1 TCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTCCCATCTTTAAGCCCAATATCGCTGGC
*
125201 CTTGAATCAGCATATTGGCGCCTTCGTCATCTTTAAG
66 CTTGAATCAGCATATTGGCGCCTACGTCATCTTTAAG
* * * *
125238 TACAATGTCGCTGGCCCTGAATCAGCACATTGGCACCT-TCATCTTTAAGTCCAATATCGCTGGC
1 TCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTCCCATCTTTAAGCCCAATATCGCTGGC
* * * *
125302 CTTGAATCAGTATATTGGCGTCTTCGTCATCTTTAAAA
66 CTTGAATCAGCATATTGGCGCCTACGTCATCTTT-AAG
* * *
125340 CCCAATGTCGTTGGCCTGGAATCAGCACATTGGCA
1 TCCAATGTCGCTGGCCTTGAATCAGCACATTGGCA
125375 TTCTCCTCAT
Statistics
Matches: 365, Mismatches: 43, Indels: 30
0.83 0.10 0.07
Matches are distributed among these distances:
91 11 0.03
92 98 0.27
96 33 0.09
97 7 0.02
98 2 0.01
99 31 0.08
100 100 0.27
101 51 0.14
102 32 0.09
ACGTcount: A:0.25, C:0.28, G:0.18, T:0.29
Consensus pattern (102 bp):
TCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTCCCATCTTTAAGCCCAATATCGCTGGC
CTTGAATCAGCATATTGGCGCCTACGTCATCTTTAAG
Found at i:126218 original size:13 final size:13
Alignment explanation
Indices: 126200--126225 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
126190 CATTATTCCA
126200 TGTATCGATACAT
1 TGTATCGATACAT
126213 TGTATCGATACAT
1 TGTATCGATACAT
126226 AGATCTTTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:130731 original size:19 final size:19
Alignment explanation
Indices: 130707--130770 Score: 77
Period size: 19 Copynumber: 3.7 Consensus size: 19
130697 TTTCAACGAT
130707 TTGTATCGATACATAAGTG
1 TTGTATCGATACATAAGTG
130726 TTGTATCGATAC---A--G
1 TTGTATCGATACATAAGTG
*
130740 -TGTATCGATACATAAGTT
1 TTGTATCGATACATAAGTG
130758 TTGTATCGATACA
1 TTGTATCGATACA
130771 ATGTAAGCTA
Statistics
Matches: 38, Mismatches: 1, Indels: 12
0.75 0.02 0.24
Matches are distributed among these distances:
13 11 0.29
14 1 0.03
16 2 0.05
19 24 0.63
ACGTcount: A:0.31, C:0.12, G:0.19, T:0.38
Consensus pattern (19 bp):
TTGTATCGATACATAAGTG
Found at i:130744 original size:32 final size:32
Alignment explanation
Indices: 130708--130775 Score: 118
Period size: 32 Copynumber: 2.1 Consensus size: 32
130698 TTCAACGATT
*
130708 TGTATCGATACATAAGTGTTGTATCGATACAG
1 TGTATCGATACATAAGTGTTGTATCGATACAA
*
130740 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
130772 TGTA
1 TGTA
130776 AGCTACTGCC
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.32, C:0.12, G:0.19, T:0.37
Consensus pattern (32 bp):
TGTATCGATACATAAGTGTTGTATCGATACAA
Found at i:130745 original size:13 final size:13
Alignment explanation
Indices: 130727--130751 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
130717 ACATAAGTGT
130727 TGTATCGATACAG
1 TGTATCGATACAG
130740 TGTATCGATACA
1 TGTATCGATACA
130752 TAAGTTTTGT
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:0.20, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAG
Found at i:130831 original size:13 final size:13
Alignment explanation
Indices: 130813--130837 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
130803 ATTACTCAAA
130813 TGTATCGATACAT
1 TGTATCGATACAT
130826 TGTATCGATACA
1 TGTATCGATACA
130838 CTGATCTTTG
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:130890 original size:52 final size:52
Alignment explanation
Indices: 130847--130974 Score: 202
Period size: 52 Copynumber: 2.5 Consensus size: 52
130837 ACTGATCTTT
* *
130847 GTATCGATACATGCATGCAAATTTGCCCAGATGTATCGATACACTATAAAAG
1 GTATCGATACATGCAGGCAAATTTACCCAGATGTATCGATACACTATAAAAG
* *
130899 GTATCGATACATGCAGGCAAATTTACCGAGATGTATCGATACACTATAAAAT
1 GTATCGATACATGCAGGCAAATTTACCCAGATGTATCGATACACTATAAAAG
* *
130951 GTATCGATACATGTAGGAAAATTT
1 GTATCGATACATGCAGGCAAATTT
130975 TCATATTTCA
Statistics
Matches: 70, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
52 70 1.00
ACGTcount: A:0.38, C:0.16, G:0.18, T:0.28
Consensus pattern (52 bp):
GTATCGATACATGCAGGCAAATTTACCCAGATGTATCGATACACTATAAAAG
Found at i:136449 original size:13 final size:11
Alignment explanation
Indices: 136431--136483 Score: 52
Period size: 13 Copynumber: 4.4 Consensus size: 11
136421 TGCCAAAAAG
136431 AAAAAAACAACA
1 AAAAAAACAA-A
136443 CAAAAAAACAAA
1 -AAAAAAACAAA
136455 AACAAAAACAAA
1 AA-AAAAACAAA
*
136467 AAATACACACAAA
1 AAA-A-AAACAAA
136480 AAAA
1 AAAA
136484 GAGAAGAAGA
Statistics
Matches: 36, Mismatches: 1, Indels: 7
0.82 0.02 0.16
Matches are distributed among these distances:
11 3 0.08
12 14 0.39
13 19 0.53
ACGTcount: A:0.81, C:0.17, G:0.00, T:0.02
Consensus pattern (11 bp):
AAAAAAACAAA
Found at i:136455 original size:20 final size:20
Alignment explanation
Indices: 136424--136469 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 20
136414 TCAAAAGTGC
*
136424 CAAAAAGAA-AAAAAC-AACA
1 CAAAAA-AACAAAAACAAAAA
136443 CAAAAAAACAAAAACAAAAA
1 CAAAAAAACAAAAACAAAAA
136463 CAAAAAA
1 CAAAAAA
136470 TACACACAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
18 2 0.08
19 12 0.50
20 10 0.42
ACGTcount: A:0.83, C:0.15, G:0.02, T:0.00
Consensus pattern (20 bp):
CAAAAAAACAAAAACAAAAA
Found at i:136469 original size:14 final size:14
Alignment explanation
Indices: 136424--136462 Score: 53
Period size: 13 Copynumber: 2.9 Consensus size: 14
136414 TCAAAAGTGC
*
136424 CAAAAAGAAAAAAA
1 CAAAAACAAAAAAA
*
136438 C-AACACAAAAAAA
1 CAAAAACAAAAAAA
136451 CAAAAACAAAAA
1 CAAAAACAAAAA
136463 CAAAAAATAC
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
13 11 0.52
14 10 0.48
ACGTcount: A:0.82, C:0.15, G:0.03, T:0.00
Consensus pattern (14 bp):
CAAAAACAAAAAAA
Found at i:136753 original size:15 final size:16
Alignment explanation
Indices: 136730--136762 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
136720 GTTCTTTTCC
*
136730 AACACACAAA-AAAAA
1 AACAAACAAACAAAAA
136745 AACAAACAAACAAAAA
1 AACAAACAAACAAAAA
136761 AA
1 AA
136763 AAGAGGAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 9 0.56
16 7 0.44
ACGTcount: A:0.82, C:0.18, G:0.00, T:0.00
Consensus pattern (16 bp):
AACAAACAAACAAAAA
Found at i:137647 original size:30 final size:30
Alignment explanation
Indices: 137613--137811 Score: 182
Period size: 30 Copynumber: 6.4 Consensus size: 30
137603 CCCTAGTTGA
**
137613 GCATCTTTTCTCAAAGTCCACGACTCAAAG
1 GCATCTTTTCTCAAAGTCCACGACTCAGTG
*
137643 GCATCTTTTTTCTTCAAAGTCCACAACTCAGTG
1 GCATC--TTTTC-TCAAAGTCCACGACTCAGTG
** *
137676 GCATCTCCTCCCAAAGTCCACGACTCAGTG
1 GCATCTTTTCTCAAAGTCCACGACTCAGTG
** * *
137706 GCATCTTTTGTCCTGTAAGTCCACAACTTAGTG
1 GCATC-TTT-T-CTCAAAGTCCACGACTCAGTG
** * *
137739 GCATCTCCTCCCAAAGTCCACGACTCAATG
1 GCATCTTTTCTCAAAGTCCACGACTCAGTG
* *
137769 GCATACTTTTCCTCCAAGTCCACGACTTAGTG
1 GCAT-CTTTT-CTCAAAGTCCACGACTCAGTG
137801 GCATCTTTTCT
1 GCATCTTTTCT
137812 TGTTAAGTCC
Statistics
Matches: 133, Mismatches: 28, Indels: 16
0.75 0.16 0.09
Matches are distributed among these distances:
30 49 0.37
31 13 0.10
32 28 0.21
33 43 0.32
ACGTcount: A:0.24, C:0.32, G:0.15, T:0.30
Consensus pattern (30 bp):
GCATCTTTTCTCAAAGTCCACGACTCAGTG
Found at i:137664 original size:33 final size:32
Alignment explanation
Indices: 137618--137843 Score: 169
Period size: 32 Copynumber: 7.2 Consensus size: 32
137608 GTTGAGCATC
**
137618 TTTTCTCAAAGTCCACGACTCAAAGGCATCTT
1 TTTTCTCAAAGTCCACGACTCAGTGGCATCTT
*
137650 TTTTCTTCAAAGTCCACAACTCAGTGGCATC--
1 TTTTC-TCAAAGTCCACGACTCAGTGGCATCTT
** *
137681 TCCTCCCAAAGTCCACGACTCAGTGGCATCTT
1 TTTTCTCAAAGTCCACGACTCAGTGGCATCTT
* ** * *
137713 TTGTCCTGTAAGTCCACAACTTAGTGGCATC--
1 TT-TTCTCAAAGTCCACGACTCAGTGGCATCTT
** * *
137744 TCCTCCCAAAGTCCACGACTCAATGGCATAC-T
1 TTTTCTCAAAGTCCACGACTCAGTGGCAT-CTT
* * *
137776 TTTCCTCCAAGTCCACGACTTAGTGGCATCTT
1 TTTTCTCAAAGTCCACGACTCAGTGGCATCTT
* * * *
137808 TTCTTGT-TAAGTCCACAACTCTGTGGCA-CTT
1 TT-TTCTCAAAGTCCACGACTCAGTGGCATCTT
137839 TTTTC
1 TTTTC
137844 CTATGCATCT
Statistics
Matches: 148, Mismatches: 38, Indels: 18
0.73 0.19 0.09
Matches are distributed among these distances:
30 44 0.30
31 11 0.07
32 48 0.32
33 45 0.30
ACGTcount: A:0.23, C:0.31, G:0.15, T:0.32
Consensus pattern (32 bp):
TTTTCTCAAAGTCCACGACTCAGTGGCATCTT
Found at i:137696 original size:63 final size:63
Alignment explanation
Indices: 137624--137806 Score: 262
Period size: 63 Copynumber: 2.9 Consensus size: 63
137614 CATCTTTTCT
* * *
137624 CAAAGTCCACGACTCAAAGGCATCTTTTTTCTTCAAAGTCCACAACTCAGTGGCATCTCCTCC
1 CAAAGTCCACGACTCAATGGCATCTTTTTTCCTCAAAGTCCACAACTTAGTGGCATCTCCTCC
* * **
137687 CAAAGTCCACGACTCAGTGGCATCTTTTGTCCTGTAAGTCCACAACTTAGTGGCATCTCCTCC
1 CAAAGTCCACGACTCAATGGCATCTTTTTTCCTCAAAGTCCACAACTTAGTGGCATCTCCTCC
* *
137750 CAAAGTCCACGACTCAATGGCATAC--TTTTCCTCCAAGTCCACGACTTAGTGGCATCT
1 CAAAGTCCACGACTCAATGGCAT-CTTTTTTCCTCAAAGTCCACAACTTAGTGGCATCT
137807 TTTCTTGTTA
Statistics
Matches: 107, Mismatches: 12, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
62 28 0.26
63 78 0.73
64 1 0.01
ACGTcount: A:0.25, C:0.32, G:0.15, T:0.27
Consensus pattern (63 bp):
CAAAGTCCACGACTCAATGGCATCTTTTTTCCTCAAAGTCCACAACTTAGTGGCATCTCCTCC
Found at i:137820 original size:32 final size:32
Alignment explanation
Indices: 137613--137840 Score: 134
Period size: 30 Copynumber: 7.3 Consensus size: 32
137603 CCCTAGTTGA
* * **
137613 GCATCTTTT-CT-CAAAGTCCACGACTCAAAG
1 GCATCTTTTCCTGCTAAGTCCACGACTTAGTG
* * * * *
137643 GCATCTTTTTTCTTCAAAGTCCACAACTCAGTG
1 GCATC-TTTTCCTGCTAAGTCCACGACTTAGTG
** * *
137676 GCATCTCCTCC--CAAAGTCCACGACTCAGTG
1 GCATCTTTTCCTGCTAAGTCCACGACTTAGTG
*
137706 GCATCTTTTGTCCTG-TAAGTCCACAACTTAGTG
1 GCATC-TTT-TCCTGCTAAGTCCACGACTTAGTG
** * * *
137739 GCATCTCCTCC--CAAAGTCCACGACTCAATG
1 GCATCTTTTCCTGCTAAGTCCACGACTTAGTG
*
137769 GCATACTTTTCCT-CCAAGTCCACGACTTAGTG
1 GCAT-CTTTTCCTGCTAAGTCCACGACTTAGTG
* * *
137801 GCATCTTTTCTTGTTAAGTCCACAACTCT-GTG
1 GCATCTTTTCCTGCTAAGTCCACGACT-TAGTG
137833 GCA-CTTTT
1 GCATCTTTT
137841 TTCCTATGCA
Statistics
Matches: 159, Mismatches: 27, Indels: 23
0.76 0.13 0.11
Matches are distributed among these distances:
30 46 0.29
31 25 0.16
32 46 0.29
33 42 0.26
ACGTcount: A:0.23, C:0.31, G:0.15, T:0.31
Consensus pattern (32 bp):
GCATCTTTTCCTGCTAAGTCCACGACTTAGTG
Found at i:138040 original size:49 final size:49
Alignment explanation
Indices: 137968--138452 Score: 475
Period size: 49 Copynumber: 9.9 Consensus size: 49
137958 GCATTGGCAC
* * * *
137968 CTTTAAGTCTAATATCGCTGGCCTTGAATCATCATATTGGCACCTTCAT
1 CTTTAAGACCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTCAT
*
138017 CTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCA----C--
1 CTTTAAGACCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTCAT
* * * *
138060 CTTTAAGCCCAGTATCGCTGGCCTTGAATCAGCATATTGGCACCTTTAT
1 CTTTAAGACCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTCAT
* * * * * * *
138109 CTTTAAGACCGATGTCGTTGGCCTTGAATCAACACATCGACACCTCAACCAT
1 CTTTAAGACCAATATCGCTGGCCTTGAATCAGCACATTGGCACCT---TCAT
* * * *
138161 CTTTAAGCCCAATATCGTTGGCCTTGAATCAGCATATTGGCA-CATCAT
1 CTTTAAGACCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTCAT
* * * *
138209 CTTTAAGTCCAATGTCGCTGGCCTTGAATCATCACATTGGCACCTCCAT
1 CTTTAAGACCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTCAT
* * * *
138258 C-TTAAGTCCAATATCGCTGGCCTTGAATCAACATATTGGCGCCTTCGTCAT
1 CTTTAAGACCAATATCGCTGGCCTTGAATCAGCACATTGGCACC-T--TCAT
* *
138309 CTTTAAGTA-CAATGTCGCTTGCCTTGAATCAGCACATTGGCACCTTCAT
1 CTTTAAG-ACCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTCAT
* * * *
138358 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGTCTTTGTCAT
1 CTTTAAGACCAATATCGCTGGCCTTGAATCAGCACATTGGC-AC-CT-TCAT
* * *
138410 CTTTAAAACCCAATGTCGTTGGCCTTGAATCAGCACATTGGCA
1 CTTTAAGA-CCAATATCGCTGGCCTTGAATCAGCACATTGGCA
138453 TTATTCTCAT
Statistics
Matches: 356, Mismatches: 60, Indels: 37
0.79 0.13 0.08
Matches are distributed among these distances:
43 38 0.11
45 1 0.00
48 78 0.22
49 119 0.33
50 1 0.00
51 7 0.02
52 82 0.23
53 30 0.08
ACGTcount: A:0.25, C:0.27, G:0.17, T:0.31
Consensus pattern (49 bp):
CTTTAAGACCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTCAT
Found at i:138096 original size:92 final size:93
Alignment explanation
Indices: 137938--138452 Score: 561
Period size: 92 Copynumber: 5.3 Consensus size: 93
137928 GCCCACACAA
* * * *
137938 GTCGCTGGCCTTGAATTAGCGCATTGGCA-CCTTTAAGTCTAATATCGCTGGCCTTGAATCATCA
1 GTCGCTGGCCTTGAATCAGCACATTGGCACCCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCA
138002 TATTGGCACCTTCATCTTTAAGACCAAT
66 TATTGGCACCTTCATCTTTAAGACCAAT
* *
138030 GTCGCTGGCCTTGAATCAGCACATTGGCA-CCTTTAAGCCCAGTATCGCTGGCCTTGAATCAGCA
1 GTCGCTGGCCTTGAATCAGCACATTGGCACCCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCA
* *
138094 TATTGGCACCTTTATCTTTAAGACCGAT
66 TATTGGCACCTTCATCTTTAAGACCAAT
* * * * * *
138122 GTCGTTGGCCTTGAATCAACACATCGACACCTCAACCATCTTTAAGCCCAATATCGTTGGCCTTG
1 GTCGCTGGCCTTGAATCAGCACATTG-----GC-ACC--CTTTAAGTCCAATATCGCTGGCCTTG
* *
138187 AATCAGCATATTGGCA-CATCATCTTTAAGTCCAAT
58 AATCAGCATATTGGCACCTTCATCTTTAAGACCAAT
*
138222 GTCGCTGGCCTTGAATCATCACATTGGCACCTCCATCTTAAGTCCAATATCGCTGGCCTTGAATC
1 GTCGCTGGCCTTGAATCAGCACATTGGCA-C-CC-T-TTAAGTCCAATATCGCTGGCCTTGAATC
* *
138287 AACATATTGGCGCCTTCGTCATCTTTAAGTA-CAAT
62 AGCATATTGGCACC-T--TCATCTTTAAG-ACCAAT
*
138322 GTCGCTTGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATATCGCTGGCCTTGAAT
1 GTCGCTGGCCTTGAATCAGCACATTGGCA-C--C--CTTTAAGTCCAATATCGCTGGCCTTGAAT
* * *
138387 CAGCATATTGGCGTCTTTGTCATCTTTAAAACCCAAT
61 CAGCATATTGGC-AC-CT-TCATCTTTAAGA-CCAAT
*
138424 GTCGTTGGCCTTGAATCAGCACATTGGCA
1 GTCGCTGGCCTTGAATCAGCACATTGGCA
138453 TTATTCTCAT
Statistics
Matches: 362, Mismatches: 36, Indels: 40
0.83 0.08 0.09
Matches are distributed among these distances:
92 107 0.30
94 2 0.01
95 3 0.01
96 37 0.10
97 2 0.01
98 1 0.00
99 1 0.00
100 83 0.23
101 91 0.25
102 34 0.09
103 1 0.00
ACGTcount: A:0.24, C:0.27, G:0.18, T:0.31
Consensus pattern (93 bp):
GTCGCTGGCCTTGAATCAGCACATTGGCACCCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCA
TATTGGCACCTTCATCTTTAAGACCAAT
Found at i:138260 original size:149 final size:149
Alignment explanation
Indices: 138014--138501 Score: 501
Period size: 149 Copynumber: 3.3 Consensus size: 149
138004 TTGGCACCTT
* * *
138014 CATCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGG--CA-C--CTTTAAGCCCAGTA
1 CATCTTTAAGACCAATGTCGTTGGCCTTGAATCAGCACATTGGCACATCATCTTTAAGTCCAATA
* *
138074 TCGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGACCGATGTCGTTGGCCTTGAATC
66 TCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGACCAATGTCGTTGGCCTTGAATC
138139 AACACATCGACACC-TCAAC
131 AACACATCGACACCTTC-AC
* * * *
138158 CATCTTTAAGCCCAATATCGTTGGCCTTGAATCAGCATATTGGCACATCATCTTTAAGTCCAATG
1 CATCTTTAAGACCAATGTCGTTGGCCTTGAATCAGCACATTGGCACATCATCTTTAAGTCCAATA
* * * * * *
138223 TCGCTGGCCTTGAATCATCACATTGGCACCTCCATC-TTAAGTCCAATATCGCTGGCCTTGAATC
66 TCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGACCAATGTCGTTGGCCTTGAATC
* * * * **
138287 AACATATTGGCGCCTTCGT
131 AACACATCGACACCTTCAC
*
138306 CATCTTTAAGTA-CAATGTCGCTT-GCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCA
1 CATCTTTAAG-ACCAATGTCG-TTGGCCTTGAATCAGCACATTGGCA-CATCATCTTTAAGTCCA
* * *
138369 ATATCGCTGGCCTTGAATCAGCATATTGGCGTCTTTGTCATCTTTAAAACCCAATGTCGTTGGCC
63 ATATCGCTGGCCTTGAATCAGCATATTGGC-AC-CT-TCATCTTTAAGA-CCAATGTCGTTGGCC
* * * ** *
138434 TTGAATCAGCACATTGGCATTATTC-T
124 TTGAATCAACACATCGACA-CCTTCAC
* * * * *
138460 CATCTTCAAGACTAATGTCGTCGACCGTGAATCAGCACATTG
1 CATCTTTAAGACCAATGTCGTTGGCCTTGAATCAGCACATTG
138502 ACATTCTTCA
Statistics
Matches: 282, Mismatches: 45, Indels: 24
0.80 0.13 0.07
Matches are distributed among these distances:
144 39 0.14
146 2 0.01
147 1 0.00
148 72 0.26
149 90 0.32
150 1 0.00
151 1 0.00
152 4 0.01
153 6 0.02
154 63 0.22
155 3 0.01
ACGTcount: A:0.25, C:0.27, G:0.17, T:0.31
Consensus pattern (149 bp):
CATCTTTAAGACCAATGTCGTTGGCCTTGAATCAGCACATTGGCACATCATCTTTAAGTCCAATA
TCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGACCAATGTCGTTGGCCTTGAATC
AACACATCGACACCTTCAC
Found at i:139227 original size:19 final size:18
Alignment explanation
Indices: 139203--139262 Score: 58
Period size: 19 Copynumber: 3.5 Consensus size: 18
139193 CAGTAAATGT
139203 ATCGATACATAAGTGTTG
1 ATCGATACATAAGTGTTG
*
139221 CATCGATAC--AA-T-CT-
1 -ATCGATACATAAGTGTTG
139235 ATCGATACATAAGTGTTG
1 ATCGATACATAAGTGTTG
139253 TATCGATACA
1 -ATCGATACA
139263 ATGTATCGCT
Statistics
Matches: 33, Mismatches: 2, Indels: 12
0.70 0.04 0.26
Matches are distributed among these distances:
13 8 0.24
15 3 0.09
16 2 0.06
17 3 0.09
19 17 0.52
ACGTcount: A:0.35, C:0.17, G:0.17, T:0.32
Consensus pattern (18 bp):
ATCGATACATAAGTGTTG
Found at i:139243 original size:32 final size:32
Alignment explanation
Indices: 139202--139275 Score: 121
Period size: 32 Copynumber: 2.3 Consensus size: 32
139192 ACAGTAAATG
139202 TATCGATACATAAGTGTTGCATCGATACAATC
1 TATCGATACATAAGTGTTGCATCGATACAATC
* *
139234 TATCGATACATAAGTGTTGTATCGATACAATG
1 TATCGATACATAAGTGTTGCATCGATACAATC
*
139266 TATCGCTACA
1 TATCGATACA
139276 AAGCTACTAC
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
32 39 1.00
ACGTcount: A:0.34, C:0.18, G:0.16, T:0.32
Consensus pattern (32 bp):
TATCGATACATAAGTGTTGCATCGATACAATC
Found at i:146258 original size:13 final size:11
Alignment explanation
Indices: 146241--146294 Score: 54
Period size: 12 Copynumber: 4.5 Consensus size: 11
146231 CAAAAATGCC
146241 AAAAAAAACAA
1 AAAAAAAACAA
146252 CACAAAAAAACAA
1 -A-AAAAAAACAA
146265 AAACAAAAACAA
1 AAA-AAAAACAA
* *
146277 AAAATACACACA
1 AAAAAAAACA-A
146289 AAAAAA
1 AAAAAA
146295 GAGAAGAAGA
Statistics
Matches: 36, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
11 7 0.19
12 19 0.53
13 10 0.28
ACGTcount: A:0.81, C:0.17, G:0.00, T:0.02
Consensus pattern (11 bp):
AAAAAAAACAA
Found at i:146652 original size:35 final size:35
Alignment explanation
Indices: 146607--146776 Score: 286
Period size: 35 Copynumber: 4.9 Consensus size: 35
146597 AAAAAAAATA
146607 ATAAAAATGAAGGCATGGAATGATGGGCATGGAAT
1 ATAAAAATGAAGGCATGGAATGATGGGCATGGAAT
* *
146642 ATAGAAATGAAGGCATGGAATGATGGGCAAGGAAT
1 ATAAAAATGAAGGCATGGAATGATGGGCATGGAAT
*
146677 ATAAAAATGAAGGAATGGAATGATGGGCATGGAAT
1 ATAAAAATGAAGGCATGGAATGATGGGCATGGAAT
* *
146712 ATAAAAATAAAGGCATGGAATGATGGGCGTGGAAT
1 ATAAAAATGAAGGCATGGAATGATGGGCATGGAAT
*
146747 ATAAAAATGGAGGCATGGAATGATGGGCAT
1 ATAAAAATGAAGGCATGGAATGATGGGCAT
146777 AAAAAATGAA
Statistics
Matches: 124, Mismatches: 11, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
35 124 1.00
ACGTcount: A:0.43, C:0.05, G:0.32, T:0.19
Consensus pattern (35 bp):
ATAAAAATGAAGGCATGGAATGATGGGCATGGAAT
Found at i:148334 original size:79 final size:79
Alignment explanation
Indices: 148176--148839 Score: 892
Period size: 79 Copynumber: 8.4 Consensus size: 79
148166 TTTAATTTTC
*
148176 TCAATTTTTCACAATCGGGGATACTCCAACCCCGTTATTTTCCGAGGGGATACTCCAACCCCGGT
1 TCAATTTTTCATAATCGGGGATACTCCAACCCCGTTA-TTTCCGAGGGGATACTCCAACCCCGGT
148241 TTTATTTCTAAAACA
65 TTTATTTCTAAAACA
* *
148256 TCAATTTTTCATAATCGGGGATACTCCAACCCCGTTATTTCCGAGAGAATACTCCAACCCCGGTT
1 TCAATTTTTCATAATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGGTT
148321 TTATTTCTAAAACA
66 TTATTTCTAAAACA
* * * *
148335 TCAATTTTTCATAATCGGGGATACTCCAACCTCATTATTTCTGAGGGGATACTCCAACCCCAGTT
1 TCAATTTTTCATAATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGGTT
*
148400 TTATCTCTAAAACA
66 TTATTTCTAAAACA
* ** * *
148414 TCAATTTTTCATAATC-GGG---CACCAACCCTATTATTTCCGAGGAGATACTCCAACCCCGATT
1 TCAATTTTTCATAATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGGTT
148475 TTATTTCTAAAACA
66 TTATTTCTAAAACA
* *
148489 TCAATTTTTCATAATTGGGGATACTCCAACCCCATTATTTCCGAGGGGATACTCCAACCCCGGTT
1 TCAATTTTTCATAATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGGTT
148554 TTATTTCTAAAACA
66 TTATTTCTAAAACA
* * * *
148568 TCAATTTTTTATAATCAGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTTCAGCCCCGGTT
1 TCAATTTTTCATAATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGGTT
148633 TTATTTCTAAAACA
66 TTATTTCTAAAACA
* * * *
148647 TCAATTTTTCATAATCGAGGG-TACTCTC-ATCCTGTTATTTTCGAGGGGATACTCCAACCCTGG
1 TCAATTTTTCATAATCG-GGGATACTC-CAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGG
148710 TTTTATTTCTAAAACA
64 TTTTATTTCTAAAACA
* * * ** * *
148726 TCAATTTCTCACAATCGGGGATACTACAACCTTGTTATTTTC-ACGGGGATACTCCAACCCCGAC
1 TCAATTTTTCATAATCGGGGATACTCCAACCCCGTTATTTCCGA-GGGGATACTCCAACCCCG-G
** *
148790 CCTTATTTCTAAAGCA
64 TTTTATTTCTAAAACA
* * *
148806 TCAATTTCTTTTATAATCAGGGATACTCTAACCC
1 TCAA-TT-TTTCATAATCGGGGATACTCCAACCC
148840 TGATTTTATT
Statistics
Matches: 518, Mismatches: 54, Indels: 22
0.87 0.09 0.04
Matches are distributed among these distances:
75 63 0.12
76 3 0.01
78 8 0.02
79 366 0.71
80 57 0.11
81 2 0.00
82 19 0.04
ACGTcount: A:0.28, C:0.26, G:0.13, T:0.33
Consensus pattern (79 bp):
TCAATTTTTCATAATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGGTT
TTATTTCTAAAACA
Done.