Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold1360
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: 91214
ACGTcount: A:0.32, C:0.17, G:0.19, T:0.32
Found at i:6814 original size:13 final size:13
Alignment explanation
Indices: 6796--6820 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
6786 CATATGCTTT
6796 GTATCGATACATC
1 GTATCGATACATC
6809 GTATCGATACAT
1 GTATCGATACAT
6821 GTTCATTGTA
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:0.20, G:0.16, T:0.32
Consensus pattern (13 bp):
GTATCGATACATC
Found at i:6833 original size:19 final size:20
Alignment explanation
Indices: 6809--6860 Score: 70
Period size: 20 Copynumber: 2.6 Consensus size: 20
6799 TCGATACATC
**
6809 GTATCGATACATGTTC-ATT
1 GTATCGATACATGGACAATT
6828 GTATCGATACATGGACAATT
1 GTATCGATACATGGACAATT
*
6848 ATATCGATACATG
1 GTATCGATACATG
6861 AGATTGGCAG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
19 14 0.48
20 15 0.52
ACGTcount: A:0.33, C:0.15, G:0.17, T:0.35
Consensus pattern (20 bp):
GTATCGATACATGGACAATT
Found at i:6947 original size:33 final size:33
Alignment explanation
Indices: 6892--6956 Score: 87
Period size: 33 Copynumber: 2.0 Consensus size: 33
6882 CCACTGTTTG
*
6892 TATCGATACATGGTACAATGTATCGATACATTA
1 TATCGATACATGATACAATGTATCGATACATTA
* *
6925 TATCGATACATGATGA-ATTGTATCGGTACATT
1 TATCGATACATGAT-ACAATGTATCGATACATT
6957 GCTTGTAACG
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
33 27 0.96
34 1 0.04
ACGTcount: A:0.34, C:0.14, G:0.17, T:0.35
Consensus pattern (33 bp):
TATCGATACATGATACAATGTATCGATACATTA
Found at i:12839 original size:18 final size:20
Alignment explanation
Indices: 12816--12859 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 20
12806 TTTGATGTTT
12816 ATTATG-TTGTGTGA-ATGA
1 ATTATGCTTGTGTGATATGA
* *
12834 ATTATGCTTTTTTGATATGA
1 ATTATGCTTGTGTGATATGA
12854 ATTATG
1 ATTATG
12860 GTCTATAGGA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
18 6 0.27
19 6 0.27
20 10 0.45
ACGTcount: A:0.27, C:0.02, G:0.20, T:0.50
Consensus pattern (20 bp):
ATTATGCTTGTGTGATATGA
Found at i:12974 original size:13 final size:13
Alignment explanation
Indices: 12956--12982 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
12946 ACAATATTCC
12956 TTGTATCGATACA
1 TTGTATCGATACA
12969 TTGTATCGATACA
1 TTGTATCGATACA
12982 T
1 T
12983 AGGGTACTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:14880 original size:22 final size:22
Alignment explanation
Indices: 14855--14896 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
14845 AATTTTTAGA
14855 TTTGACAAAAGGGGAGAAATGC
1 TTTGACAAAAGGGGAGAAATGC
**
14877 TTTGATTAAAGGGGAGAAAT
1 TTTGACAAAAGGGGAGAAAT
14897 TTTTTATTAG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.40, C:0.05, G:0.31, T:0.24
Consensus pattern (22 bp):
TTTGACAAAAGGGGAGAAATGC
Found at i:14936 original size:22 final size:21
Alignment explanation
Indices: 14863--14938 Score: 91
Period size: 22 Copynumber: 3.5 Consensus size: 21
14853 GATTTGACAA
* *
14863 AAGGGGAGAAATGCTTTGATT
1 AAGGGGAGAAATTCTTTAATT
*
14884 AAAGGGGAGAAATT-TTTTATT
1 -AAGGGGAGAAATTCTTTAATT
14905 AGAGGGGAGAAATTCTTTAATT
1 A-AGGGGAGAAATTCTTTAATT
14927 AAGGGAGAGAAA
1 AAGGG-GAGAAA
14939 AATGAAAACT
Statistics
Matches: 48, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
20 1 0.02
21 22 0.46
22 25 0.52
ACGTcount: A:0.39, C:0.03, G:0.30, T:0.28
Consensus pattern (21 bp):
AAGGGGAGAAATTCTTTAATT
Found at i:15595 original size:13 final size:13
Alignment explanation
Indices: 15574--15606 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
15564 TGATACATGG
*
15574 TACAATGTATCGA
1 TACATTGTATCGA
15587 TACATTGTATCGA
1 TACATTGTATCGA
15600 TACATTG
1 TACATTG
15607 CTTGTAACGG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.33, C:0.15, G:0.15, T:0.36
Consensus pattern (13 bp):
TACATTGTATCGA
Found at i:19149 original size:14 final size:14
Alignment explanation
Indices: 19126--19155 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
19116 AATATGTGTT
*
19126 TTATCATATTTATG
1 TTATCATATTCATG
19140 TTATCATATTCATG
1 TTATCATATTCATG
19154 TT
1 TT
19156 GATTCATGTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.27, C:0.10, G:0.07, T:0.57
Consensus pattern (14 bp):
TTATCATATTCATG
Found at i:20226 original size:166 final size:161
Alignment explanation
Indices: 19687--20209 Score: 591
Period size: 166 Copynumber: 3.1 Consensus size: 161
19677 TATAGGGACT
* *
19687 AAAATGAAAATTTTTAAAGTTTAGGGATTAAATAGCAAATTTTAGTTTTTAGAGGTAAAATCATC
1 AAAAT-AAAATTTTAAAAGTTTAGGGATTAAATAGAAAATTTTAGTTTTTAGAGGTAAAATCAT-
* * *** *
19752 ACTTTAGTCATTTTTAAAGATTTCTATTATTCTTATGGCCTACCATAGGCATATAGAAATTTTCA
64 ATTTTAGTCATTTTTAAAGATTTTTATTATTCTTATGGCCT-TTGTAGG-GTATAGAAATTTTCA
* * * *
19817 AGACTTCTCGTATCCTCTCAGTTTTCCATCGAGTAC
127 AGACTTTTCGTATCCTCTCGGTTTTTCATTG-GTAC
* *
19853 AAAATAAAATTTTCAAAAGTTTAGGGATTAAATA-ACAAATATTACTTTTTAGAGGTAAAATCAT
1 AAAATAAAATTTT-AAAAGTTTAGGGATTAAATAGA-AAATTTTAGTTTTTAGAGGTAAAATCA-
* *
19917 TATTTTAGTCATTTTTAAAGACTTTTATTATTCCTATGGCCTTTGGTAGGGGTATAGAAATTTTC
63 TATTTTAGTCATTTTTAAAGATTTTTATTATTCTTATGGCCTTT-GTA-GGGTATAGAAATTTTC
* * **
19982 AAGAC-TTTCGTATTCTCTCGATTTTTTGTTAGGTAC
126 AAGACTTTTCGTATCCTCTCGGTTTTTCATT-GGTAC
* * * * * *
20018 GAAATGAAATTTTTAAAAGTTTAGGTATTAAATAGAAAATTTTAGTTCTTTTGTGCTAAAATCAC
1 AAAAT-AAAATTTTAAAAGTTTAGGGATTAAATAGAAAATTTTAGTT-TTTAGAGGTAAAATCA-
* *
20083 TATTTTAGTCATTTTTCAAGATTTTTATTATTCTTATGGCCTTTGTAGAGGTATAAAAATTTTCA
63 TATTTTAGTCATTTTTAAAGATTTTTATTATTCTTATGGCCTTTGTAG-GGTATAGAAATTTTCA
* * *
20148 AGACTTTTCGTATCCTTTTGGTTTTTCACTTGGTAAA
127 AGACTTTTCGTATCCTCTCGGTTTTTCA-TTGGT-AC
20185 AAAATAAAATGTTTAAAAGTTTAGG
1 AAAATAAAAT-TTTAAAAGTTTAGG
20210 AGCTTAATTG
Statistics
Matches: 301, Mismatches: 42, Indels: 27
0.81 0.11 0.07
Matches are distributed among these distances:
164 1 0.00
165 83 0.28
166 193 0.64
167 24 0.08
ACGTcount: A:0.33, C:0.11, G:0.14, T:0.42
Consensus pattern (161 bp):
AAAATAAAATTTTAAAAGTTTAGGGATTAAATAGAAAATTTTAGTTTTTAGAGGTAAAATCATAT
TTTAGTCATTTTTAAAGATTTTTATTATTCTTATGGCCTTTGTAGGGTATAGAAATTTTCAAGAC
TTTTCGTATCCTCTCGGTTTTTCATTGGTAC
Found at i:20790 original size:19 final size:18
Alignment explanation
Indices: 20765--20861 Score: 88
Period size: 19 Copynumber: 5.8 Consensus size: 18
20755 ATTTCAACGA
20765 TTTGTATCGATACATAAG
1 TTTGTATCGATACATAAG
20783 TGTTGTATCGATAC--AA-
1 T-TTGTATCGATACATAAG
20799 --TGTATCGATACATAAG
1 TTTGTATCGATACATAAG
20815 TGTTGTATCGATAC--AA-
1 T-TTGTATCGATACATAAG
20831 --TGTATCGATACATAAG
1 TTTGTATCGATACATAAG
*
20847 TTTTATATCGATACA
1 -TTTGTATCGATACA
20862 ATGTACCGCT
Statistics
Matches: 65, Mismatches: 1, Indels: 25
0.71 0.01 0.27
Matches are distributed among these distances:
13 22 0.34
15 4 0.06
17 4 0.06
18 1 0.02
19 34 0.52
ACGTcount: A:0.34, C:0.12, G:0.16, T:0.37
Consensus pattern (18 bp):
TTTGTATCGATACATAAG
Found at i:20803 original size:32 final size:32
Alignment explanation
Indices: 20767--20866 Score: 182
Period size: 32 Copynumber: 3.1 Consensus size: 32
20757 TTCAACGATT
20767 TGTATCGATACATAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
20799 TGTATCGATACATAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
* *
20831 TGTATCGATACATAAGTTTTATATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
20863 TGTA
1 TGTA
20867 CCGCTACGAA
Statistics
Matches: 66, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 66 1.00
ACGTcount: A:0.35, C:0.12, G:0.17, T:0.36
Consensus pattern (32 bp):
TGTATCGATACATAAGTGTTGTATCGATACAA
Found at i:20804 original size:13 final size:13
Alignment explanation
Indices: 20786--20842 Score: 60
Period size: 13 Copynumber: 3.9 Consensus size: 13
20776 ACATAAGTGT
20786 TGTATCGATACAA
1 TGTATCGATACAA
20799 TGTATCGATACATAA
1 TGTATCGATAC--AA
20814 GTGTTGTATCGATACAA
1 ----TGTATCGATACAA
20831 TGTATCGATACA
1 TGTATCGATACA
20843 TAAGTTTTAT
Statistics
Matches: 38, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
13 23 0.61
15 2 0.05
17 2 0.05
19 11 0.29
ACGTcount: A:0.35, C:0.14, G:0.18, T:0.33
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:20990 original size:52 final size:52
Alignment explanation
Indices: 20947--21127 Score: 299
Period size: 52 Copynumber: 3.5 Consensus size: 52
20937 CACTGATCTT
* * * **
20947 TGTATCGATACTTGCAGGCAAATTTGCCCAGATGTATTGATACACTACAAAA
1 TGTATCGATACATGCAGGCAAATTTACCCAGATGTATCGATACACTATGAAA
*
20999 TGTATCGATACATACAGGCAAATTTACCCAGATGTATCGATACACTATGAAA
1 TGTATCGATACATGCAGGCAAATTTACCCAGATGTATCGATACACTATGAAA
*
21051 TGTATCGATACATGCAGGCAAATTTACCTAGATGTATCGATACACTATGAAA
1 TGTATCGATACATGCAGGCAAATTTACCCAGATGTATCGATACACTATGAAA
21103 TGTATCGATACATGCAGGCAAATTT
1 TGTATCGATACATGCAGGCAAATTT
21128 TATATTTCAG
Statistics
Matches: 121, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
52 121 1.00
ACGTcount: A:0.36, C:0.18, G:0.17, T:0.29
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTACCCAGATGTATCGATACACTATGAAA
Found at i:22634 original size:13 final size:13
Alignment explanation
Indices: 22616--22642 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
22606 ACAATTTTTT
22616 TTGTATCGATACA
1 TTGTATCGATACA
22629 TTGTATCGATACA
1 TTGTATCGATACA
22642 T
1 T
22643 ACTTGGTGTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:25215 original size:13 final size:13
Alignment explanation
Indices: 25193--25230 Score: 58
Period size: 13 Copynumber: 2.9 Consensus size: 13
25183 ATAATCCCCC
25193 TGTATCGATACAG
1 TGTATCGATACAG
* *
25206 TGTATTGATACAT
1 TGTATCGATACAG
25219 TGTATCGATACA
1 TGTATCGATACA
25231 AAGAAAAATG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.32, C:0.13, G:0.18, T:0.37
Consensus pattern (13 bp):
TGTATCGATACAG
Found at i:29139 original size:21 final size:21
Alignment explanation
Indices: 29110--29154 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
29100 AAATTTTTAT
*
29110 TTTTCTTAGCTAAC-TCATTA
1 TTTTCTTAGCCAACTTCATTA
*
29130 TTTTCATTAGCCAACTTCTTTA
1 TTTTC-TTAGCCAACTTCATTA
29152 TTT
1 TTT
29155 CAACTTGCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 8 0.38
22 8 0.38
ACGTcount: A:0.22, C:0.20, G:0.04, T:0.53
Consensus pattern (21 bp):
TTTTCTTAGCCAACTTCATTA
Found at i:31382 original size:13 final size:13
Alignment explanation
Indices: 31364--31389 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
31354 CAATTTTTTG
31364 TGTATCGATACAT
1 TGTATCGATACAT
31377 TGTATCGATACAT
1 TGTATCGATACAT
31390 ACTTGGTGTA
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:31404 original size:32 final size:33
Alignment explanation
Indices: 31344--31407 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 33
31334 TACAAGCCAA
** *
31344 TGTATCGATACAATTTTTTGTGTATCGATACAT
1 TGTATCGATACAATACTTGGTGTATCGATACAT
31377 TGTATCGATAC-ATACTTGGTGTATCGATACA
1 TGTATCGATACAATACTTGGTGTATCGATACA
31408 AGTTTGGCTA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 17 0.61
33 11 0.39
ACGTcount: A:0.28, C:0.14, G:0.17, T:0.41
Consensus pattern (33 bp):
TGTATCGATACAATACTTGGTGTATCGATACAT
Found at i:35819 original size:20 final size:19
Alignment explanation
Indices: 35773--35824 Score: 59
Period size: 19 Copynumber: 2.7 Consensus size: 19
35763 TGTATCGATA
* *
35773 CATTGTATTGACACATGCT
1 CATTGTATTGATACATACT
*
35792 CCTTGTATTGATACATACT
1 CATTGTATTGATACATACT
*
35811 CAATTGTATCGATA
1 C-ATTGTATTGATA
35825 TATGAAACTA
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
19 17 0.63
20 10 0.37
ACGTcount: A:0.29, C:0.19, G:0.13, T:0.38
Consensus pattern (19 bp):
CATTGTATTGATACATACT
Found at i:42756 original size:45 final size:47
Alignment explanation
Indices: 42663--42762 Score: 125
Period size: 49 Copynumber: 2.1 Consensus size: 47
42653 CAATGTGCCA
*
42663 ATTCAAGGCCAGCGACATTAGGCTAAGGGATAAATGGACCAATGTGCTG
1 ATTCAAGGCCAGCGACATTAGGCTAA--GATAAATGGACCAATATGCTG
* *
42712 ATTCAAGGCCAGCGACATTGGGCT-A-ATAAA-GGTGCCAATATGCTG
1 ATTCAAGGCCAGCGACATTAGGCTAAGATAAATGG-ACCAATATGCTG
42757 ATTCAA
1 ATTCAA
42763 TGCTAGTGAT
Statistics
Matches: 47, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
44 2 0.04
45 21 0.45
48 1 0.02
49 23 0.49
ACGTcount: A:0.33, C:0.19, G:0.26, T:0.22
Consensus pattern (47 bp):
ATTCAAGGCCAGCGACATTAGGCTAAGATAAATGGACCAATATGCTG
Found at i:42936 original size:28 final size:28
Alignment explanation
Indices: 42838--43388 Score: 636
Period size: 28 Copynumber: 18.9 Consensus size: 28
42828 TAAAAAAAAT
*
42838 GTGCCACTAACTTGTGTGGGCTTTGAAAAGAG
1 GTGCCACTGAC-T-TGTGGGCTTTG-AAAG-G
* * *
42870 TTGCCACAGACTCGTGTGGGCTTTGAAAAGA
1 GTGCCACTGACT--TGTGGGCTTTG-AAAGG
42901 GTGCCACTGACTTGTGGGCTTTGAAAGG
1 GTGCCACTGACTTGTGGGCTTTGAAAGG
42929 GTGCCACTGACTTGTGGGCTTTGAAAGG
1 GTGCCACTGACTTGTGGGCTTTGAAAGG
42957 GTGCCACTGACTTGTGGGCTTTGAAAGG
1 GTGCCACTGACTTGTGGGCTTTGAAAGG
* * *
42985 ATGCCACTAACTTGTGGGCTTTGAAAAGA
1 GTGCCACTGACTTGTGGGCTTTG-AAAGG
43014 GTGCCACTGAC-TGATGGGCTTTGAAAGG
1 GTGCCACTGACTTG-TGGGCTTTGAAAGG
*
43042 GTGCCACTGACTAGCGTGGGCTTTGAAAGG
1 GTGCCACTGACT--TGTGGGCTTTGAAAGG
* * *
43072 GTGCCATTTACTTGTGAGCTTTGAAAGG
1 GTGCCACTGACTTGTGGGCTTTGAAAGG
*
43100 ATGCCACTGACTTGTGGGCTTTGAAAAGAG
1 GTGCCACTGACTTGTGGGCTTTG-AAAG-G
* *
43130 TTGCCACTGACTCGTGGGCTTTGAAAGG
1 GTGCCACTGACTTGTGGGCTTTGAAAGG
* * *
43158 ATGCCACTAACTTGTTGGCTTTGAAAGG
1 GTGCCACTGACTTGTGGGCTTTGAAAGG
*
43186 ATGCCACTGACTTGTGGGCTTTGAAAAGAG
1 GTGCCACTGACTTGTGGGCTTTG-AAAG-G
* *
43216 TTGCCACTGACTCGTGGGCTTTGAAAGG
1 GTGCCACTGACTTGTGGGCTTTGAAAGG
* *
43244 ATGCCACTAACTTGTGGGCTTTGAAAGGATGAAAG
1 GTGCCACTGACTTGTGGGCTTTG-AA--A-G---G
43279 GATGCCACTGACTTGTGGGCTTTGAAAGG
1 G-TGCCACTGACTTGTGGGCTTTGAAAGG
* *
43308 ATGCCACTAACTTGTGGGCTTTGAAAGG
1 GTGCCACTGACTTGTGGGCTTTGAAAGG
* * *
43336 ATGCCACTGACTTGTGGGCTTTAAAAGA
1 GTGCCACTGACTTGTGGGCTTTGAAAGG
*
43364 GTACCACTGACTTGTGGGCTTTGAA
1 GTGCCACTGACTTGTGGGCTTTGAA
43389 GAGATGAACG
Statistics
Matches: 456, Mismatches: 45, Indels: 40
0.84 0.08 0.07
Matches are distributed among these distances:
28 271 0.59
29 52 0.11
30 68 0.15
31 13 0.03
32 27 0.06
33 1 0.00
35 3 0.01
36 21 0.05
ACGTcount: A:0.23, C:0.18, G:0.31, T:0.28
Consensus pattern (28 bp):
GTGCCACTGACTTGTGGGCTTTGAAAGG
Found at i:43154 original size:86 final size:85
Alignment explanation
Indices: 42852--43388 Score: 697
Period size: 86 Copynumber: 6.2 Consensus size: 85
42842 CACTAACTTG
* * *
42852 TGTGGGCTTTGAAAAGAGTTGCCACAGACTCGTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTG
1 TGTGGGCTTTGAAAAG-GTTGCCACTGACTC--GTGGGCTTTGAAAGGA-TGCCACTAACTTGTG
*
42917 GGCTTTGAAAGGGTGCCACTGACT
62 GGCTTTGAAAGGATGCCACTGACT
* *
42941 TGTGGGCTTTG-AAAGGGTGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTAACTTGTGGGCT
1 TGTGGGCTTTGAAAAGGTTGCCACTGACTCGTGGGCTTTGAAAGGATGCCACTAACTTGTGGGCT
*
43005 TTGAAAAGAGTGCCACTGAC-
66 TTGAAAGGA-TGCCACTGACT
* * * * *
43025 TGATGGGCTTTG-AAAGGGTGCCACTGACTAGCGTGGGCTTTGAAAGGGTGCCATTTACTTGTGA
1 TG-TGGGCTTTGAAAAGGTTGCCACTGACT--CGTGGGCTTTGAAAGGATGCCACTAACTTGTGG
43089 GCTTTGAAAGGATGCCACTGACT
63 GCTTTGAAAGGATGCCACTGACT
*
43112 TGTGGGCTTTGAAAAGAGTTGCCACTGACTCGTGGGCTTTGAAAGGATGCCACTAACTTGTTGGC
1 TGTGGGCTTTGAAAAG-GTTGCCACTGACTCGTGGGCTTTGAAAGGATGCCACTAACTTGTGGGC
43177 TTTGAAAGGATGCCACTGACT
65 TTTGAAAGGATGCCACTGACT
43198 TGTGGGCTTTGAAAAGAGTTGCCACTGACTCGTGGGCTTTGAAAGGATGCCACTAACTTGTGGGC
1 TGTGGGCTTTGAAAAG-GTTGCCACTGACTCGTGGGCTTTGAAAGGATGCCACTAACTTGTGGGC
43263 TTTGAAAGGATGAAAGGATGCCACTGACT
65 -TT-------TGAAAGGATGCCACTGACT
* * * *
43292 TGTGGGCTTTG-AAAGGATGCCACTAACTTGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCT
1 TGTGGGCTTTGAAAAGGTTGCCACTGACTCGTGGGCTTTGAAAGGATGCCACTAACTTGTGGGCT
* *
43356 TT-AAAAGAGTACCACTGACT
66 TTGAAAGGA-TGCCACTGACT
43376 TGTGGGCTTTGAA
1 TGTGGGCTTTGAA
43389 GAGATGAACG
Statistics
Matches: 405, Mismatches: 26, Indels: 38
0.86 0.06 0.08
Matches are distributed among these distances:
83 5 0.01
84 49 0.12
85 52 0.13
86 134 0.33
87 58 0.14
88 16 0.04
89 11 0.03
91 2 0.00
92 44 0.11
93 4 0.01
94 30 0.07
ACGTcount: A:0.23, C:0.18, G:0.31, T:0.28
Consensus pattern (85 bp):
TGTGGGCTTTGAAAAGGTTGCCACTGACTCGTGGGCTTTGAAAGGATGCCACTAACTTGTGGGCT
TTGAAAGGATGCCACTGACT
Found at i:43284 original size:36 final size:36
Alignment explanation
Indices: 43237--43338 Score: 139
Period size: 36 Copynumber: 3.1 Consensus size: 36
43227 TCGTGGGCTT
43237 TGAAAGGATGCCACTAACTTGTGGGCTTTGAAAGGA
1 TGAAAGGATGCCACTAACTTGTGGGCTTTGAAAGGA
*
43273 TGAAAGGATGCCACTGACTTGTGGGC-TT-------
1 TGAAAGGATGCCACTAACTTGTGGGCTTTGAAAGGA
43301 TGAAAGGATGCCACTAACTTGTGGGCTTTGAAAGGA
1 TGAAAGGATGCCACTAACTTGTGGGCTTTGAAAGGA
43337 TG
1 TG
43339 CCACTGACTT
Statistics
Matches: 56, Mismatches: 2, Indels: 16
0.76 0.03 0.22
Matches are distributed among these distances:
28 25 0.45
29 2 0.04
35 2 0.04
36 27 0.48
ACGTcount: A:0.27, C:0.15, G:0.31, T:0.26
Consensus pattern (36 bp):
TGAAAGGATGCCACTAACTTGTGGGCTTTGAAAGGA
Found at i:43318 original size:64 final size:61
Alignment explanation
Indices: 42839--43388 Score: 456
Period size: 58 Copynumber: 9.4 Consensus size: 61
42829 AAAAAAAATG
* * * *
42839 TGCCACTAACTTGTGTGGGCTTTGAAA--AGA-GTTGCCACAGACTCGTGTGGGCTTTGAAAAGA
1 TGCCACTAAC-T-TGTGGGCTTTGAAATGAAAGGATGCCACTGACT--TGTGGGCTTTGAAAGGA
* *
42901 GTGCCACTGACTTGTGGGCTTTGAAA-G---GG-TGCCACTGACTTGTGGGCTTTGAAAGGG
1 -TGCCACTAACTTGTGGGCTTTGAAATGAAAGGATGCCACTGACTTGTGGGCTTTGAAAGGA
* * *
42958 TGCCACTGACTTGTGGGC-TT----TGAAAGGATGCCACTAACTTGTGGGCTTTGAAAAGA
1 TGCCACTAACTTGTGGGCTTTGAAATGAAAGGATGCCACTGACTTGTGGGCTTTGAAAGGA
* * *
43014 GTGCCACTGAC-TGATGGGCTTTGAAA-G---GG-TGCCACTGACTAGCGTGGGCTTTGAAAGGG
1 -TGCCACTAACTTG-TGGGCTTTGAAATGAAAGGATGCCACTGACT--TGTGGGCTTTGAAAGGA
* * * *
43073 TGCCATTTACTTGTGAGC-TT----TGAAAGGATGCCACTGACTTGTGGGCTTTGAAAAGAGT
1 TGCCACTAACTTGTGGGCTTTGAAATGAAAGGATGCCACTGACTTGTGGGCTTTG-AAAG-GA
* * * *
43131 TGCCACTGACTCGTGGGC-TT----TGAAAGGATGCCACTAACTTGTTGGCTTTGAAAGGA
1 TGCCACTAACTTGTGGGCTTTGAAATGAAAGGATGCCACTGACTTGTGGGCTTTGAAAGGA
* * * *
43187 TGCCACTGACTTGTGGGCTTTGAAA--AGA-GTTGCCACTGACTCGTGGGCTTTGAAAGGA
1 TGCCACTAACTTGTGGGCTTTGAAATGAAAGGATGCCACTGACTTGTGGGCTTTGAAAGGA
43245 TGCCACTAACTTGTGGGCTTTGAAAGGATGAAAGGATGCCACTGACTTGTGGGCTTTGAAAGGA
1 TGCCACTAACTTGTGGGCTTTG-AA--ATGAAAGGATGCCACTGACTTGTGGGCTTTGAAAGGA
*
43309 TGCCACTAACTTGTGGGC-TT----TGAAAGGATGCCACTGACTTGTGGGCTTT-AAAAGA
1 TGCCACTAACTTGTGGGCTTTGAAATGAAAGGATGCCACTGACTTGTGGGCTTTGAAAGGA
* *
43364 GTACCACTGACTTGTGGGCTTTGAA
1 -TGCCACTAACTTGTGGGCTTTGAA
43389 GAGATGAACG
Statistics
Matches: 411, Mismatches: 36, Indels: 83
0.78 0.07 0.16
Matches are distributed among these distances:
52 1 0.00
54 1 0.00
55 9 0.02
56 118 0.29
57 56 0.14
58 119 0.29
59 30 0.07
60 1 0.00
61 16 0.04
62 1 0.00
63 13 0.03
64 46 0.11
ACGTcount: A:0.23, C:0.18, G:0.31, T:0.28
Consensus pattern (61 bp):
TGCCACTAACTTGTGGGCTTTGAAATGAAAGGATGCCACTGACTTGTGGGCTTTGAAAGGA
Found at i:43349 original size:92 final size:94
Alignment explanation
Indices: 43179--43362 Score: 309
Period size: 92 Copynumber: 2.0 Consensus size: 94
43169 TTGTTGGCTT
* *
43179 TGAAAGGATGCCACTGACTTGTGGGCTTTGAAAAGAGTTGCCACTGACTCGTGGGCTTTGAAAGG
1 TGAAAGGATGCCACTGACTTGTGGGCTTTGAAAAGAGATGCCACTAACTCGTGGGCTTTGAAAGG
*
43244 ATGCCACTAACTTGTGGGCTTTGAAAGGA
66 ATGCCACTAACTTGTGGGCTTTAAAAGGA
*
43273 TGAAAGGATGCCACTGACTTGTGGGCTTTG-AAAG-GATGCCACTAACTTGTGGGCTTTGAAAGG
1 TGAAAGGATGCCACTGACTTGTGGGCTTTGAAAAGAGATGCCACTAACTCGTGGGCTTTGAAAGG
*
43336 ATGCCACTGACTTGTGGGCTTTAAAAG
66 ATGCCACTAACTTGTGGGCTTTAAAAG
43363 AGTACCACTG
Statistics
Matches: 85, Mismatches: 5, Indels: 2
0.92 0.05 0.02
Matches are distributed among these distances:
92 51 0.60
93 4 0.05
94 30 0.35
ACGTcount: A:0.26, C:0.17, G:0.30, T:0.27
Consensus pattern (94 bp):
TGAAAGGATGCCACTGACTTGTGGGCTTTGAAAAGAGATGCCACTAACTCGTGGGCTTTGAAAGG
ATGCCACTAACTTGTGGGCTTTAAAAGGA
Found at i:44625 original size:11 final size:10
Alignment explanation
Indices: 44603--44655 Score: 63
Period size: 10 Copynumber: 5.2 Consensus size: 10
44593 TCTGGACTCC
44603 TTTTTGTTTT
1 TTTTTGTTTT
* *
44613 TTATTATTTT
1 TTTTTGTTTT
44623 TTTCTTGGTTTT
1 TTT-TT-GTTTT
44635 TTTTTG-TTT
1 TTTTTGTTTT
44644 TTTTTGTTTT
1 TTTTTGTTTT
44654 TT
1 TT
44656 CTATTTTTTT
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
9 9 0.25
10 16 0.44
11 4 0.11
12 7 0.19
ACGTcount: A:0.04, C:0.02, G:0.09, T:0.85
Consensus pattern (10 bp):
TTTTTGTTTT
Found at i:58683 original size:20 final size:19
Alignment explanation
Indices: 58656--58729 Score: 94
Period size: 20 Copynumber: 3.7 Consensus size: 19
58646 GTAAAAAGAC
58656 AAAATGTATCGATACATTGA
1 AAAATGTATCGATACATT-A
*
58676 AGAATGTATCGATACATTCA
1 AAAATGTATCGATACATT-A
* *
58696 TACATGTATCGATACATTAA
1 AAAATGTATCGATACATT-A
58716 AAAATGTATCGATA
1 AAAATGTATCGATA
58730 TATCTGGGTA
Statistics
Matches: 46, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 46 1.00
ACGTcount: A:0.43, C:0.12, G:0.14, T:0.31
Consensus pattern (19 bp):
AAAATGTATCGATACATTA
Found at i:62916 original size:52 final size:49
Alignment explanation
Indices: 62768--63450 Score: 340
Period size: 52 Copynumber: 14.4 Consensus size: 49
62758 TAATATGGCT
* * * * * *
62768 AGCGATATTGGGCTTAAAGATGCGAAGAATGACAATGTGCTGATTCATGGCC
1 AGCGACATTGGACTTAAAGAT--GAAG-ATGCCAATATACTGATTCAAGGCC
* * * * * ** *
62820 AGCGACATTAGACTTGAAGAAG-A-ATGCCAATGTGCTGAGACAAGGCT
1 AGCGACATTGGACTTAAAGATGAAGATGCCAATATACTGATTCAAGGCC
* * *
62867 AGCGACATTGGGCTTAGGAATGTTAAAGATGCCAATATACTGATTCAAGGCC
1 AGCGACATTGGACTTA--AA-GATGAAGATGCCAATATACTGATTCAAGGCC
** * ** * * * *
62919 AATGATATCAGACTTAAAGCTGAAGATGCCAATGTGCTGATTCAAGGCT
1 AGCGACATTGGACTTAAAGATGAAGATGCCAATATACTGATTCAAGGCC
* * * ** **
62968 ACCGACATTGGTCTTAAAAATGACGAAGGCGCCAATATGGTGATTCAAGGCC
1 AGCGACATTGGACTT--AAA-GATGAAGATGCCAATATACTGATTCAAGGCC
* * * *
63020 AGCGATATTGGACTTAAAGATGAAGGTGCCAATGTACTGATTCAAGTCC
1 AGCGACATTGGACTTAAAGATGAAGATGCCAATATACTGATTCAAGGCC
* * **
63069 AGCGACATTGGACTTAAAGACGACAAAGGTGCCAATATGTTGATTCAAGGCC
1 AGCGACATTGGACTTAAAGATG---AAGATGCCAATATACTGATTCAAGGCC
* * *
63121 AGCGATATTGGAC-T-----T---G-TGCCAATGTGCTGATTCAAGGCC
1 AGCGACATTGGACTTAAAGATGAAGATGCCAATATACTGATTCAAGGCC
* * * * *
63160 AGTGACATTGGTCTTAAAGA-CAAGGTGCCAATATGCTGATTCAAGGCC
1 AGCGACATTGGACTTAAAGATGAAGATGCCAATATACTGATTCAAGGCC
* * * * *
63208 AGCGATATTGGGC-T-----T---G-TGCCAATGTGCTGATTCAAGGCT
1 AGCGACATTGGACTTAAAGATGAAGATGCCAATATACTGATTCAAGGCC
* * * * *
63247 AGCGACATTGGTCTTAAAGA-CAAGGTGCCAATATGCTGATTTAAGGCC
1 AGCGACATTGGACTTAAAGATGAAGATGCCAATATACTGATTCAAGGCC
* * * *
63295 AGCGATATTGGGC-T-----T---G-TGCCAATGTGCTGATTCAAGGCC
1 AGCGACATTGGACTTAAAGATGAAGATGCCAATATACTGATTCAAGGCC
* * **
63334 AGCGACATTGGTCTTAAAGAT-AAGGTGCCAA-ATGTTGATTCAAGGCC
1 AGCGACATTGGACTTAAAGATGAAGATGCCAATATACTGATTCAAGGCC
* * * *
63381 AGCGATATTGGACTTAGAGATGAAGGTGCCAATGTACTGATTCAAGGCC
1 AGCGACATTGGACTTAAAGATGAAGATGCCAATATACTGATTCAAGGCC
* *
63430 AACGGCATTGGACTTAGAAGA
1 AGCGACATTGGACTTA-AAGA
63451 AGACGTCACC
Statistics
Matches: 490, Mismatches: 96, Indels: 92
0.72 0.14 0.14
Matches are distributed among these distances:
39 95 0.19
40 6 0.01
45 1 0.00
47 69 0.14
48 79 0.16
49 109 0.22
50 10 0.02
51 5 0.01
52 116 0.24
ACGTcount: A:0.31, C:0.18, G:0.27, T:0.25
Consensus pattern (49 bp):
AGCGACATTGGACTTAAAGATGAAGATGCCAATATACTGATTCAAGGCC
Found at i:62975 original size:101 final size:101
Alignment explanation
Indices: 62807--63445 Score: 306
Period size: 87 Copynumber: 6.8 Consensus size: 101
62797 TGACAATGTG
* * * * * * **
62807 CTGATTCATGGCCAGCGACATTAGACTTGAAGAAG-A-ATGCCAATGTGCTGAGACAAGGCTAGC
1 CTGATTCAAGGCCAACGATATCAGACTTAAAGATGAAGATGCCAATGTGCTGATTCAAGGCTAGC
* ** ** *
62870 GACATTGGGCTTAGGAATGTTAAAGATGCCAATATA
66 GACATTGGACTTAAAAATGACAAAGACGCCAATATA
* * *
62906 CTGATTCAAGGCCAATGATATCAGACTTAAAGCTGAAGATGCCAATGTGCTGATTCAAGGCTACC
1 CTGATTCAAGGCCAACGATATCAGACTTAAAGATGAAGATGCCAATGTGCTGATTCAAGGCTAGC
* * * *
62971 GACATTGGTCTTAAAAATGACGAAGGCGCCAATATG
66 GACATTGGACTTAAAAATGACAAAGACGCCAATATA
* * ** * * * *
63007 GTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCCAATGTACTGATTCAAGTCCAGC
1 CTGATTCAAGGCCAACGATATCAGACTTAAAGATGAAGATGCCAATGTGCTGATTCAAGGCTAGC
* * ** *
63072 GACATTGGACTTAAAGACGACAAAGGTGCCAATATG
66 GACATTGGACTTAAAAATGACAAAGACGCCAATATA
* * ** * *
63108 TTGATTCAAGGCCAGCGATATTGGAC-T-----T---G-TGCCAATGTGCTGATTCAAGGCCAGT
1 CTGATTCAAGGCCAACGATATCAGACTTAAAGATGAAGATGCCAATGTGCTGATTCAAGGCTAGC
* ** *
63163 GACATTGGTCTT--AAA-GAC-AAGGTGCCAATATG
66 GACATTGGACTTAAAAATGACAAAGACGCCAATATA
* ** *
63195 CTGATTCAAGGCCAGCGATATTGGGC-T-----T---G-TGCCAATGTGCTGATTCAAGGCTAGC
1 CTGATTCAAGGCCAACGATATCAGACTTAAAGATGAAGATGCCAATGTGCTGATTCAAGGCTAGC
* ** *
63250 GACATTGGTCTT--AAA-GAC-AAGGTGCCAATATG
66 GACATTGGACTTAAAAATGACAAAGACGCCAATATA
* * ** * *
63282 CTGATTTAAGGCCAGCGATATTGGGC-T-----T---G-TGCCAATGTGCTGATTCAAGGCCAGC
1 CTGATTCAAGGCCAACGATATCAGACTTAAAGATGAAGATGCCAATGTGCTGATTCAAGGCTAGC
* * ** *
63337 GACATTGGTCTT--AAA-GA-TAAGGTGCCAA-ATG
66 GACATTGGACTTAAAAATGACAAAGACGCCAATATA
* * ** * * * * *
63368 TTGATTCAAGGCCAGCGATATTGGACTTAGAGATGAAGGTGCCAATGTACTGATTCAAGGCCAAC
1 CTGATTCAAGGCCAACGATATCAGACTTAAAGATGAAGATGCCAATGTGCTGATTCAAGGCTAGC
*
63433 GGCATTGGACTTA
66 GACATTGGACTTA
63446 GAAGAAGACG
Statistics
Matches: 471, Mismatches: 55, Indels: 30
0.85 0.10 0.05
Matches are distributed among these distances:
86 26 0.06
87 178 0.38
88 3 0.01
89 2 0.00
91 34 0.07
92 2 0.00
95 2 0.00
96 34 0.07
99 27 0.06
100 2 0.00
101 161 0.34
ACGTcount: A:0.30, C:0.18, G:0.26, T:0.25
Consensus pattern (101 bp):
CTGATTCAAGGCCAACGATATCAGACTTAAAGATGAAGATGCCAATGTGCTGATTCAAGGCTAGC
GACATTGGACTTAAAAATGACAAAGACGCCAATATA
Found at i:63152 original size:39 final size:39
Alignment explanation
Indices: 63097--63344 Score: 217
Period size: 39 Copynumber: 5.9 Consensus size: 39
63087 GACGACAAAG
* * *
63097 GTGCCAATATGTTGATTCAAGGCCAGCGATATTGGACTT
1 GTGCCAATATGCTGATTCAAGGCCAGCGACATTGGGCTT
* * *
63136 GTGCCAATGTGCTGATTCAAGGCCAGTGACATTGGTCTT
1 GTGCCAATATGCTGATTCAAGGCCAGCGACATTGGGCTT
*
63175 AAAGACAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGGCTT
1 ---------GTGCCAATATGCTGATTCAAGGCCAGCGACATTGGGCTT
* * *
63223 GTGCCAATGTGCTGATTCAAGGCTAGCGACATTGGTCTT
1 GTGCCAATATGCTGATTCAAGGCCAGCGACATTGGGCTT
* *
63262 AAAGACAAGGTGCCAATATGCTGATTTAAGGCCAGCGATATTGGGCTT
1 ---------GTGCCAATATGCTGATTCAAGGCCAGCGACATTGGGCTT
*
63310 GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGG
1 GTGCCAATATGCTGATTCAAGGCCAGCGACATTGG
63345 TCTTAAAGAT
Statistics
Matches: 170, Mismatches: 21, Indels: 36
0.75 0.09 0.16
Matches are distributed among these distances:
39 101 0.59
48 69 0.41
ACGTcount: A:0.26, C:0.19, G:0.28, T:0.27
Consensus pattern (39 bp):
GTGCCAATATGCTGATTCAAGGCCAGCGACATTGGGCTT
Found at i:63207 original size:48 final size:47
Alignment explanation
Indices: 63136--63451 Score: 299
Period size: 48 Copynumber: 7.0 Consensus size: 47
63126 TATTGGACTT
*
63136 GTGCCAATGTGCTGATTCAAGGCCAGTGACATTGGTCTTAAAGACAAG
1 GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGA-AAG
* * *
63184 GTGCCAATATGCTGATTCAAGGCCAGCGATATTGGGCTT--------
1 GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGAAAG
*
63223 GTGCCAATGTGCTGATTCAAGGCTAGCGACATTGGTCTTAAAGACAAG
1 GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGA-AAG
* * * *
63271 GTGCCAATATGCTGATTTAAGGCCAGCGATATTGGGCTT--------
1 GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGAAAG
63310 GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATAAG
1 GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGA-AAG
* * *
63358 GTGCCAAATGT--TGATTCAAGGCCAGCGATATTGGACTTAGAGATGAAG
1 GTGCC-AATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGA--AAG
* * * *
63406 GTGCCAATGTACTGATTCAAGGCCAACGGCATTGGACTTAGAAGAA
1 GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTA-AAGAA
63452 GACGTCACCA
Statistics
Matches: 220, Mismatches: 25, Indels: 46
0.76 0.09 0.16
Matches are distributed among these distances:
39 70 0.32
47 34 0.15
48 83 0.38
49 30 0.14
50 3 0.01
ACGTcount: A:0.28, C:0.18, G:0.28, T:0.26
Consensus pattern (47 bp):
GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGAAAG
Found at i:63218 original size:87 final size:87
Alignment explanation
Indices: 63045--63395 Score: 560
Period size: 87 Copynumber: 4.0 Consensus size: 87
63035 AAAGATGAAG
* * * *
63045 GTGCCAATGTACTGATTCAAGTCCAGCGACATTGGACTTAAAGACGACAAAGGTGCCAATATGTT
1 GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTT-AA-A-GAC-AAGGTGCCAATATGCT
63110 GATTCAAGGCCAGCGATATTGGACTT
62 GATTCAAGGCCAGCGATATTGGACTT
*
63136 GTGCCAATGTGCTGATTCAAGGCCAGTGACATTGGTCTTAAAGACAAGGTGCCAATATGCTGATT
1 GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAGGTGCCAATATGCTGATT
*
63201 CAAGGCCAGCGATATTGGGCTT
66 CAAGGCCAGCGATATTGGACTT
*
63223 GTGCCAATGTGCTGATTCAAGGCTAGCGACATTGGTCTTAAAGACAAGGTGCCAATATGCTGATT
1 GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAGGTGCCAATATGCTGATT
* *
63288 TAAGGCCAGCGATATTGGGCTT
66 CAAGGCCAGCGATATTGGACTT
* *
63310 GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATAAGGTGCCAA-ATGTTGATT
1 GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAGGTGCCAATATGCTGATT
63374 CAAGGCCAGCGATATTGGACTT
66 CAAGGCCAGCGATATTGGACTT
63396 AGAGATGAAG
Statistics
Matches: 246, Mismatches: 14, Indels: 5
0.93 0.05 0.02
Matches are distributed among these distances:
86 28 0.11
87 177 0.72
88 3 0.01
89 1 0.00
90 2 0.01
91 35 0.14
ACGTcount: A:0.28, C:0.19, G:0.26, T:0.26
Consensus pattern (87 bp):
GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAGGTGCCAATATGCTGATT
CAAGGCCAGCGATATTGGACTT
Found at i:63440 original size:49 final size:47
Alignment explanation
Indices: 63310--63447 Score: 188
Period size: 47 Copynumber: 2.9 Consensus size: 47
63300 TATTGGGCTT
* *
63310 GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATAAG
1 GTGCCAATGT-CTGATTCAAGGCCAGCGACATTGGACTTAGAGATAAG
*
63358 GTGCCAAATGT-TGATTCAAGGCCAGCGATATTGGACTTAGAGATGAAG
1 GTGCC-AATGTCTGATTCAAGGCCAGCGACATTGGACTTAGAGAT-AAG
* *
63406 GTGCCAATGTACTGATTCAAGGCCAACGGCATTGGACTTAGA
1 GTGCCAATGT-CTGATTCAAGGCCAGCGACATTGGACTTAGA
63448 AGAAGACGTC
Statistics
Matches: 80, Mismatches: 6, Indels: 7
0.86 0.06 0.08
Matches are distributed among these distances:
47 35 0.44
48 13 0.16
49 32 0.40
ACGTcount: A:0.30, C:0.18, G:0.28, T:0.25
Consensus pattern (47 bp):
GTGCCAATGTCTGATTCAAGGCCAGCGACATTGGACTTAGAGATAAG
Found at i:63524 original size:28 final size:29
Alignment explanation
Indices: 63457--63572 Score: 103
Period size: 29 Copynumber: 3.9 Consensus size: 29
63447 AAGAAGACGT
63457 CACCAACTTATGTGGGCTTTTGAAAGGGTTG
1 CACCAAC-T-TGTGGGCTTTTGAAAGGGTTG
*
63488 CACCAACTTGTGTGCTTTTG-AA-GGTTG
1 CACCAACTTGTGGGCTTTTGAAAGGGTTG
* *
63515 CCACTAACTTGTGGGC-TTTGAAAGGGGTG
1 -CACCAACTTGTGGGCTTTTGAAAGGGTTG
* * * *
63544 CCCCCGAGTTGTGGGCTTTTAAAAAGGGT
1 -CACCAACTTGTGGGCTTTT-GAAAGGGT
63573 GCCATTGACT
Statistics
Matches: 70, Mismatches: 10, Indels: 10
0.78 0.11 0.11
Matches are distributed among these distances:
27 9 0.13
28 17 0.24
29 27 0.39
30 4 0.06
31 13 0.19
ACGTcount: A:0.21, C:0.18, G:0.30, T:0.31
Consensus pattern (29 bp):
CACCAACTTGTGGGCTTTTGAAAGGGTTG
Found at i:63536 original size:27 final size:28
Alignment explanation
Indices: 63457--63533 Score: 93
Period size: 28 Copynumber: 2.6 Consensus size: 28
63447 AAGAAGACGT
63457 CACCAACTTATGTGGGCTTTTGAAAGGGTTG
1 CACCAAC-T-TGTGGGCTTTTG-AAGGGTTG
*
63488 CACCAACTTGTGTGCTTTTGAA-GGTTG
1 CACCAACTTGTGGGCTTTTGAAGGGTTG
*
63515 CCACTAACTTGTGGGCTTT
1 -CACCAACTTGTGGGCTTT
63534 GAAAGGGGTG
Statistics
Matches: 42, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
27 5 0.12
28 18 0.43
29 11 0.26
30 1 0.02
31 7 0.17
ACGTcount: A:0.19, C:0.19, G:0.26, T:0.35
Consensus pattern (28 bp):
CACCAACTTGTGGGCTTTTGAAGGGTTG
Found at i:63586 original size:30 final size:29
Alignment explanation
Indices: 63467--63587 Score: 75
Period size: 29 Copynumber: 4.2 Consensus size: 29
63457 CACCAACTTA
** *
63467 TGTGGGCTTTTGAAAGGGTTG-CACCAACT
1 TGTGGGCTTTAAAAAGGG-TGCCACCGACT
* ** * **
63496 TGTGTGCTTT-TGAAGGTTGCCACTAACT
1 TGTGGGCTTTAAAAAGGGTGCCACCGACT
* * * *
63524 TGTGGGCTTTGAAAGGGGTGCCCCCGAGT
1 TGTGGGCTTTAAAAAGGGTGCCACCGACT
**
63553 TGTGGGCTTTTAAAAAGGGTGCCATTGACT
1 TGTGGGC-TTTAAAAAGGGTGCCACCGACT
63583 TGTGG
1 TGTGG
63588 CCTTAAGAGG
Statistics
Matches: 69, Mismatches: 20, Indels: 5
0.73 0.21 0.05
Matches are distributed among these distances:
27 2 0.03
28 20 0.29
29 26 0.38
30 21 0.30
ACGTcount: A:0.18, C:0.17, G:0.33, T:0.32
Consensus pattern (29 bp):
TGTGGGCTTTAAAAAGGGTGCCACCGACT
Found at i:63635 original size:60 final size:60
Alignment explanation
Indices: 63565--64040 Score: 169
Period size: 61 Copynumber: 7.5 Consensus size: 60
63555 TGGGCTTTTA
** * *
63565 AAAAGGGTGCCATTGACTTGTGGCCTTAAGAGGAGA-AAGATGCCAAAAAGTTGTGGACTT
1 AAAAGGGTGCCACGGACTTGTGGACTTAAAAGGA-ACAAGATGCCAAAAAGTTGTGGACTT
* * ***
63625 AAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGAACAAGGTGCCATGGAGTTGTGGACTT
1 AAAAGGGTGCCACGGACTTGTGGACTTAAAAGGAACAAGATGCCAAAAAGTTGTGGACTT
* * * * * ***
63685 AAAAGGAAAAAGAATGCCATGGAGTTGTGGGCTTAAAAGGAAAAAAAAAGTGCCATGGAGTTGTG
1 AAAAGG-----G--TGCCACGGACTTGTGGACTTAAAAGG--AACAAGA-TGCCAAAAAGTTGT-
63750 GGA-TT
55 GGACTT
* * ***
63755 AAAAGGGTGCCATGGAGTTGTGGGA-TTAAAAGG-----G-TGCCACGGAGTTGTGGACTT
1 AAAAGGGTGCCACGGACTTGT-GGACTTAAAAGGAACAAGATGCCAAAAAGTTGTGGACTT
* * * * * ***
63809 AAAAGGAAAAAGAATGCCACGTAGTTGTGGGCTTAAAAGGAAAAAAAAAGTGCCATTGAGTTGTG
1 AAAAGG-----G--TGCCACGGACTTGTGGACTTAAAAGG--AACAAGA-TGCCAAAAAGTTGTG
*
63874 GGCTT
56 GACTT
* * * *** *
63879 AAAAGGGTGCCATGGAGTTGTGGACTTAAAAGGAAAAAGAATGCCATGTAGTTGTGGACTG
1 AAAAGGGTGCCACGGACTTGTGGACTTAAAAGGAACAAG-ATGCCAAAAAGTTGTGGACTT
* * * * * *** *
63940 AAAAGGAAAAAAAGTGCCACGGAGTTGTGGGCTTAAAAGGAAAAAAAGTACCACGGAGTTGTGGG
1 AAAAGG-------GTGCCACGGACTTGTGGACTTAAAAGGAACAAGA-TGCCAAAAAGTTGTGGA
64005 CTT
58 CTT
*
64008 AAAAGGGTGCCACGGAGTTGTGGACTTAAAAGG
1 AAAAGGGTGCCACGGACTTGTGGACTTAAAAGG
64041 GTGCCACGGA
Statistics
Matches: 335, Mismatches: 41, Indels: 79
0.74 0.09 0.17
Matches are distributed among these distances:
53 3 0.01
54 21 0.06
59 2 0.01
60 57 0.17
61 73 0.22
62 1 0.00
63 45 0.13
64 2 0.01
65 3 0.01
67 25 0.07
68 51 0.15
69 4 0.01
70 45 0.13
71 3 0.01
ACGTcount: A:0.35, C:0.11, G:0.33, T:0.21
Consensus pattern (60 bp):
AAAAGGGTGCCACGGACTTGTGGACTTAAAAGGAACAAGATGCCAAAAAGTTGTGGACTT
Found at i:63708 original size:34 final size:34
Alignment explanation
Indices: 63632--64522 Score: 698
Period size: 34 Copynumber: 27.8 Consensus size: 34
63622 CTTAAAAGGG
* *
63632 TGCCACGGAGTTGTGGACTTAAAAGGAACAAG-G
1 TGCCACGGAGTTGTGGACTTAAAAGGAAAAAGAA
*
63665 TGCCATGGAGTTGTGGACTTAAAAGGAAAAAGAA
1 TGCCACGGAGTTGTGGACTTAAAAGGAAAAAGAA
* * *
63699 TGCCATGGAGTTGTGGGCTTAAAAGGAAAAAAAAA
1 TGCCACGGAGTTGTGGACTTAAAAGG-AAAAAGAA
*
63734 GTGCCATGGAGTTGTGGGA-TTAAAAGG-----G--
1 -TGCCACGGAGTTGT-GGACTTAAAAGGAAAAAGAA
*
63762 TGCCATGGAGTTGTGGGA-TTAAAAGG-----G--
1 TGCCACGGAGTTGT-GGACTTAAAAGGAAAAAGAA
63789 TGCCACGGAGTTGTGGACTTAAAAGGAAAAAGAA
1 TGCCACGGAGTTGTGGACTTAAAAGGAAAAAGAA
* * *
63823 TGCCACGTAGTTGTGGGCTTAAAAGGAAAAAAAAA
1 TGCCACGGAGTTGTGGACTTAAAAGG-AAAAAGAA
** *
63858 GTGCCATTGAGTTGTGGGCTTAAAAGG-----G--
1 -TGCCACGGAGTTGTGGACTTAAAAGGAAAAAGAA
*
63886 TGCCATGGAGTTGTGGACTTAAAAGGAAAAAGAA
1 TGCCACGGAGTTGTGGACTTAAAAGGAAAAAGAA
* * *
63920 TGCCATGTAGTTGTGGACTGAAAAGGAAAAA-AA
1 TGCCACGGAGTTGTGGACTTAAAAGGAAAAAGAA
*
63953 GTGCCACGGAGTTGTGGGCTTAAAAGGAAAAA-AA
1 -TGCCACGGAGTTGTGGACTTAAAAGGAAAAAGAA
* *
63987 GTACCACGGAGTTGTGGGCTTAAAAGG-----G--
1 -TGCCACGGAGTTGTGGACTTAAAAGGAAAAAGAA
64015 TGCCACGGAGTTGTGGACTTAAAAGG-----G--
1 TGCCACGGAGTTGTGGACTTAAAAGGAAAAAGAA
64042 TGCCACGGAGTTGTGGACTTAAAAGGAAAAAGAA
1 TGCCACGGAGTTGTGGACTTAAAAGGAAAAAGAA
* * *
64076 TGCCACAGAGTTGTGGGCTTAAAAGGAAAAAAAAA
1 TGCCACGGAGTTGTGGACTTAAAAGG-AAAAAGAA
64111 GTGCCACGGAGTTGTAGG-CTTAAAAGG-----G--
1 -TGCCACGGAGTTGT-GGACTTAAAAGGAAAAAGAA
*
64139 TGCCACAGAGTTGTGGACTTAAAAGGAAAAAGAA
1 TGCCACGGAGTTGTGGACTTAAAAGGAAAAAGAA
* * *
64173 TGCCTCGTAGTTGTGGGCTTAAAAGGAAAAA-AA
1 TGCCACGGAGTTGTGGACTTAAAAGGAAAAAGAA
* * * * *
64206 GTGCCACGAAGTTATGGGCTTGAAAGGGAAAAA-AG
1 -TGCCACGGAGTTGTGGACTT-AAAAGGAAAAAGAA
* * * *
64241 TGCCATGGAGTTGTGGGCTTAAAAGAAAAAAGAG
1 TGCCACGGAGTTGTGGACTTAAAAGGAAAAAGAA
*
64275 TGCCACAGAGTTGTGGACTTAAAAGGAAAAAGAA
1 TGCCACGGAGTTGTGGACTTAAAAGGAAAAAGAA
* * *
64309 TGCCATGGAGTTGTGGCCTTAAAAGGAAAAAAAAA
1 TGCCACGGAGTTGTGGACTTAAAAGG-AAAAAGAA
*
64344 GTGCCACGGAGTTGTGGCCTTAAAAGG-----G--
1 -TGCCACGGAGTTGTGGACTTAAAAGGAAAAAGAA
*
64372 TGCCACAGAGTTGTGGACTTAAAA-G-----G-A
1 TGCCACGGAGTTGTGGACTTAAAAGGAAAAAGAA
* * *
64399 TGCCATGGAGTTGTGGACTT----TGAAAAGAGAT
1 TGCCACGGAGTTGTGGACTTAAAAGGAAAA-AGAA
* ** *
64430 TGCCACTGAGTCATAGACTTAAAAGGAAAAA-AA
1 TGCCACGGAGTTGTGGACTTAAAAGGAAAAAGAA
64463 TGCCACGGAGTTGTGGACTTAAAAGGAAAAAG-A
1 TGCCACGGAGTTGTGGACTTAAAAGGAAAAAGAA
64496 TGCCACGGAGTTGTGGACTTAAAAGGA
1 TGCCACGGAGTTGTGGACTTAAAAGGA
64523 TGCCACAGAG
Statistics
Matches: 725, Mismatches: 73, Indels: 120
0.79 0.08 0.13
Matches are distributed among these distances:
24 1 0.00
26 7 0.01
27 185 0.26
30 1 0.00
31 15 0.02
32 4 0.01
33 99 0.14
34 273 0.38
35 44 0.06
36 92 0.13
37 4 0.01
ACGTcount: A:0.36, C:0.12, G:0.31, T:0.21
Consensus pattern (34 bp):
TGCCACGGAGTTGTGGACTTAAAAGGAAAAAGAA
Found at i:63785 original size:97 final size:96
Alignment explanation
Indices: 63631--64334 Score: 541
Period size: 97 Copynumber: 7.3 Consensus size: 96
63621 ACTTAAAAGG
*
63631 GTGCCACGGAGTTGTGGACTTAAAAGGAACAAGGTGCCATGGAGTTGT-GGACTTAAAAGGAAAA
1 GTGCCACGGAGTTGTGGGCTTAAAA-G-----GGTGCCATGGAGTTGTGGGA-TTAAAAGGAAAA
*
63695 AGAATGCCATGGAGTTGTGGGCTTAAAAGGAAAAAAAAA
59 AGAATGCCACGGAGTTGTGGGCTTAAAAGG-AAAAAAAA
* *
63734 GTGCCATGGAGTTGTGGGATTAAAAGGGTGCCATGGAGTTGTGGGATTAAAAGG-----G--TGC
1 GTGCCACGGAGTTGTGGGCTTAAAAGGGTGCCATGGAGTTGTGGGATTAAAAGGAAAAAGAATGC
* *
63792 CACGGAGTTGTGGACTTAAAAGGAAAAAGAA
66 CACGGAGTTGTGGGCTTAAAAGGAAAAAAAA
* * *
63823 -TGCCACGTAGTTGTGGGCTTAAAAGGAAAAAAAAAGTGCCATTGAGTTGTGGGCTTAAAAGG--
1 GTGCCACGGAGTTGTGGGCTTAAAAGG---------GTGCCATGGAGTTGTGGGATTAAAAGGAA
* * *
63885 ---G--TGCCATGGAGTTGTGGACTTAAAAGGAAAAAGAA
57 AAAGAATGCCACGGAGTTGTGGGCTTAAAAGGAAAAAAAA
* * * * * *
63920 -TGCCATGTAGTTGTGGACTGAAAAGGAAAAAAAGTGCCACGGAGTTGTGGGCTTAAAAGGAAAA
1 GTGCCACGGAGTTGTGGGCTTAAAAGG-------GTGCCATGGAGTTGTGGGATTAAAAGGAAAA
*
63984 A-AAGTACCACGGAGTTGTGGGCTTAAAAGG--------
59 AGAA-TGCCACGGAGTTGTGGGCTTAAAAGGAAAAAAAA
* *
64014 GTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGT-GGACTTAAAAGGAAAAAGAATG
1 GTGCCACGGAGTTGTGGGCTTAAAAGGGTGCCATGGAGTTGTGGGA-TTAAAAGGAAAAAGAATG
*
64078 CCACAGAGTTGTGGGCTTAAAAGGAAAAAAAAA
65 CCACGGAGTTGTGGGCTTAAAAGG-AAAAAAAA
* **
64111 GTGCCACGGAGTTGTAGGCTTAAAAGGGTGCCACAGAGTTGT-GGACTTAAAAGGAAAAAGAATG
1 GTGCCACGGAGTTGTGGGCTTAAAAGGGTGCCATGGAGTTGTGGGA-TTAAAAGGAAAAAGAATG
* *
64175 CCTCGTAGTTGTGGGCTTAAAAGG-AAAAAAA
65 CCACGGAGTTGTGGGCTTAAAAGGAAAAAAAA
* * * * *
64206 GTGCCACGAAGTTATGGGCTTGAAAGGGAAAAAAGTGCCATGGAGTTGTGGGCTTAAAAGAAAAA
1 GTGCCACGGAGTTGTGGGCTT-AAAAGG------GTGCCATGGAGTTGTGGGATTAAAAGGAAAA
* * * *
64271 AGAGTGCCACAGAGTTGTGGACTTAAAAGGAAAAAGAA
59 AGAATGCCACGGAGTTGTGGGCTTAAAAGGAAAAAAAA
* *
64309 -TGCCATGGAGTTGTGGCCTTAAAAGG
1 GTGCCACGGAGTTGTGGGCTTAAAAGG
64335 AAAAAAAAAG
Statistics
Matches: 511, Mismatches: 51, Indels: 80
0.80 0.08 0.12
Matches are distributed among these distances:
87 2 0.00
88 75 0.15
89 9 0.02
90 24 0.05
92 1 0.00
95 80 0.16
96 5 0.01
97 188 0.37
98 3 0.01
101 5 0.01
102 89 0.17
103 30 0.06
ACGTcount: A:0.36, C:0.11, G:0.32, T:0.21
Consensus pattern (96 bp):
GTGCCACGGAGTTGTGGGCTTAAAAGGGTGCCATGGAGTTGTGGGATTAAAAGGAAAAAGAATGC
CACGGAGTTGTGGGCTTAAAAGGAAAAAAAA
Found at i:64062 original size:253 final size:251
Alignment explanation
Indices: 63613--64542 Score: 1124
Period size: 253 Copynumber: 3.7 Consensus size: 251
63603 GATGCCAAAA
* * *
63613 AGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGAACAAG-GTGCCATGGAGTT
1 AGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGAAAAAGAATGCCATGTAGTT
* *
63677 GTGGACTTAAAAGGAAAAAGAATGCCATGGAGTTGTGGGCTTAAAAGGAAAAAAAAAGTGCCATG
66 GTGGACTTAAAAGGAAAAA-AATGCCACGGAGTTGTGGGCTTAAAAGG--AAAAAAAGTGCCACG
* **
63742 GAGTTGTGGGATTAAAAGGGTGCCATGGAGTTGTGGGA-TTAAAAGGGTGCCACGGAGTTGTGGA
128 GAGTTGTGGGCTTAAAAGGGTGCCACAGAGTTGT-GGACTTAAAAGGGTGCCACGGAGTTGTGGA
**
63806 CTTAAAAGGAAAAAGAATGCCACGTAGTTGTGGGCTTAAAAGGAAAAAAAAAGTGCCATTG
192 CTTAAAAGGAAAAAGAATGCCACG-AGTTGTGGGCTTAAAAGGAAAAAAAAAGTGCCACAG
* *
63867 AGTTGTGGGCTTAAAAGGGTGCCATGGAGTTGTGGACTTAAAAGGAAAAAGAATGCCATGTAGTT
1 AGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGAAAAAGAATGCCATGTAGTT
* *
63932 GTGGACTGAAAAGGAAAAAAAGTGCCACGGAGTTGTGGGCTTAAAAGGAAAAAAAGTACCACGGA
66 GTGGACTTAAAAGGAAAAAAA-TGCCACGGAGTTGTGGGCTTAAAAGGAAAAAAAGTGCCACGGA
*
63997 GTTGTGGGCTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTT
130 GTTGTGGGCTTAAAAGGGTGCCACAGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTT
*
64062 AAAAGGAAAAAGAATGCCACAGAGTTGTGGGCTTAAAAGGAAAAAAAAAGTGCCACGG
195 AAAAGGAAAAAGAATGCCAC-GAGTTGTGGGCTTAAAAGGAAAAAAAAAGTGCCACAG
*
64120 AGTTGTAGG-CTTAAAAGGGTGCCACAGAGTTGTGGACTTAAAAGGAAAAAGAATGCC-TCGTAG
1 AGTTGT-GGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGAAAAAGAATGCCAT-GTAG
* * * * * *
64183 TTGTGGGCTTAAAAGGAAAAAAAGTGCCACGAAGTTATGGGCTTGAAAGGGAAAAAAGTGCCATG
64 TTGTGGACTTAAAAGGAAAAAAA-TGCCACGGAGTTGTGGGCTTAAAAGGAAAAAAAGTGCCACG
64248 GAGTTGTGGGCTTAAAAGAAAAAAGAGTGCCACAGAGTTGTGGACTTAAAAGGAAAAAGAATGCC
128 GAGTTGTGGGCTTAAAAG------G-GTGCCACAGAGTTGTGGACTTAAAAGG-----G--TGCC
* * * *
64313 ATGGAGTTGTGGCCTTAAAAGGAAAAAAAAAGTGCCACGGAGTTGTGGCCTTAAAAGG-------
179 ACGGAGTTGTGGACTTAAAAGG-AAAAAGAA-TGCCAC-GAGTTGTGGGCTTAAAAGGAAAAAAA
64371 --GTGCCACAG
241 AAGTGCCACAG
* * * *
64380 AGTTGTGGACTTAAAAGGATGCCATGGAGTTGTGGACTT----TGAAAAGAGATTGCCACTG-AG
1 AGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGAAAA-AGAATGCCA-TGTAG
** * * *
64440 TCATAGACTTAAAAGGAAAAAAATGCCACGGAGTTGTGGACTTAAAAGGAAAAAGA-TGCCACGG
64 TTGTGGACTTAAAAGGAAAAAAATGCCACGGAGTTGTGGGCTTAAAAGGAAAAAAAGTGCCACGG
* *
64504 AGTTGTGGACTTAAAAGGATGCCACAGAGTTGTGGACTT
129 AGTTGTGGGCTTAAAAGGGTGCCACAGAGTTGTGGACTT
64543 TGAGAAAAGA
Statistics
Matches: 602, Mismatches: 48, Indels: 58
0.85 0.07 0.08
Matches are distributed among these distances:
248 20 0.03
249 1 0.00
252 4 0.01
253 259 0.43
254 53 0.09
255 77 0.13
256 32 0.05
257 28 0.05
258 1 0.00
259 4 0.01
260 67 0.11
265 1 0.00
267 24 0.04
268 7 0.01
269 24 0.04
ACGTcount: A:0.36, C:0.12, G:0.31, T:0.21
Consensus pattern (251 bp):
AGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGAAAAAGAATGCCATGTAGTT
GTGGACTTAAAAGGAAAAAAATGCCACGGAGTTGTGGGCTTAAAAGGAAAAAAAGTGCCACGGAG
TTGTGGGCTTAAAAGGGTGCCACAGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTA
AAAGGAAAAAGAATGCCACGAGTTGTGGGCTTAAAAGGAAAAAAAAAGTGCCACAG
Found at i:64309 original size:233 final size:219
Alignment explanation
Indices: 63928--64398 Score: 667
Period size: 233 Copynumber: 2.1 Consensus size: 219
63918 AATGCCATGT
*
63928 AGTTGTGGACTGAAAAGGAAAAAAAGTGCCACGGAGTTGTGGGCTTAAAAGGAAAAAAAGTACCA
1 AGTTGTGGACTTAAAAGGAAAAAAAGTGCCACGGAGTTGTGGGCTTAAAAGGAAAAAAAGTACCA
* * *
63993 CGGAGTTGTGGGCTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGG
66 CGAAGTTATGGGCTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACAGAGTTGTGG
*
64058 ACTTAAAAGGAAAAAGAATGCCACAGAGTTGTGGGCTTAAAAGGAAAAAAAAAGTGCCACGGAGT
131 ACTTAAAAGGAAAAAGAATGCCACAGAGTTGTGGCCTTAAAAGGAAAAAAAAAGTGCCACGGAGT
64123 TGTAGG-CTTAAAAGGGTGCCACAG
196 TGT-GGCCTTAAAAGGGTGCCACAG
* * *
64147 AGTTGTGGACTTAAAAGGAAAAAGAA-TGCCTCGTAGTTGTGGGCTTAAAAGGAAAAAAAGTGCC
1 AGTTGTGGACTTAAAAGGAAAAA-AAGTGCCACGGAGTTGTGGGCTTAAAAGGAAAAAAAGTACC
* * *
64211 ACGAAGTTATGGGCTTGAAAGGGAAAAAAGTGCCATGGAGTTGTGGGCTTAAAAGAAAAAAGAGT
65 ACGAAGTTATGGGCTT-AAAAGG------GTGCCACGGAGTTGTGGACTTAAAAG------G-GT
**
64276 GCCACAGAGTTGTGGACTTAAAAGGAAAAAGAATGCCATGGAGTTGTGGCCTTAAAAGGAAAAAA
116 GCCACAGAGTTGTGGACTTAAAAGGAAAAAGAATGCCACAGAGTTGTGGCCTTAAAAGGAAAAAA
64341 AAAGTGCCACGGAGTTGTGGCCTTAAAAGGGTGCCACAG
181 AAAGTGCCACGGAGTTGTGGCCTTAAAAGGGTGCCACAG
64380 AGTTGTGGACTTAAAAGGA
1 AGTTGTGGACTTAAAAGGA
64399 TGCCATGGAG
Statistics
Matches: 223, Mismatches: 13, Indels: 18
0.88 0.05 0.07
Matches are distributed among these distances:
219 71 0.32
220 7 0.03
226 24 0.11
232 3 0.01
233 118 0.53
ACGTcount: A:0.37, C:0.12, G:0.31, T:0.20
Consensus pattern (219 bp):
AGTTGTGGACTTAAAAGGAAAAAAAGTGCCACGGAGTTGTGGGCTTAAAAGGAAAAAAAGTACCA
CGAAGTTATGGGCTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACAGAGTTGTGG
ACTTAAAAGGAAAAAGAATGCCACAGAGTTGTGGCCTTAAAAGGAAAAAAAAAGTGCCACGGAGT
TGTGGCCTTAAAAGGGTGCCACAG
Found at i:64527 original size:151 final size:156
Alignment explanation
Indices: 64268--64596 Score: 465
Period size: 155 Copynumber: 2.1 Consensus size: 156
64258 CTTAAAAGAA
* ** * * *
64268 AAAAGAG-TGCCACAGAGTTGTGGACTTAAAAGGAAAAAGAATGCCATGGAGTTGTGGCCTTAAA
1 AAAAGAGATGCCACTGAGTCATAGACTTAAAAGGAAAAAGAATGCCACGGAGTTGTGGACTTAAA
* *
64332 AGGAAAAAAAAAGTGCCACGGAGTTGTGGCCTTAAAAGGGTGCCACAGAGTTGTGGAC-TT-AAA
66 AGG-AAAAAAAAGTGCCACGGAGTTGTGGACTTAAAAGGATGCCACAGAGTTGTGGACTTTGAAA
*
64395 AG-GATGCCATGGAGTTGTGGACTTTG
130 AGAGATACCATGGAGTTGTGGACTTTG
64421 AAAAGAGATTGCCACTGAGTCATAGACTTAAAAGGAAAAA-AATGCCACGGAGTTGTGGACTTAA
1 AAAAGAGA-TGCCACTGAGTCATAGACTTAAAAGGAAAAAGAATGCCACGGAGTTGTGGACTTAA
*
64485 AAGG-AAAAAGA-TGCCACGGAGTTGTGGACTTAAAAGGATGCCACAGAGTTGTGGACTTTGAGA
65 AAGGAAAAAAAAGTGCCACGGAGTTGTGGACTTAAAAGGATGCCACAGAGTTGTGGACTTT--GA
*
64548 AAAGAGATACCATTGAGTTGTGGACTTTG
128 AAAGAGATACCATGGAGTTGTGGACTTTG
*
64577 AGAAGAGATGCCACTGAGTC
1 AAAAGAGATGCCACTGAGTC
64597 GTGGACTTTG
Statistics
Matches: 157, Mismatches: 12, Indels: 12
0.87 0.07 0.07
Matches are distributed among these distances:
151 43 0.27
152 8 0.05
153 7 0.04
154 26 0.17
155 44 0.28
156 29 0.18
ACGTcount: A:0.36, C:0.13, G:0.29, T:0.22
Consensus pattern (156 bp):
AAAAGAGATGCCACTGAGTCATAGACTTAAAAGGAAAAAGAATGCCACGGAGTTGTGGACTTAAA
AGGAAAAAAAAGTGCCACGGAGTTGTGGACTTAAAAGGATGCCACAGAGTTGTGGACTTTGAAAA
GAGATACCATGGAGTTGTGGACTTTG
Found at i:64585 original size:30 final size:30
Alignment explanation
Indices: 64493--64678 Score: 207
Period size: 30 Copynumber: 6.1 Consensus size: 30
64483 AAAAGGAAAA
* * *
64493 AGATGCCACGGAGTTGTGGAC-TT-AAAAG
1 AGATGCCACTGAGTCGTGGACTTTGAGAAG
* *
64521 -GATGCCACAGAGTTGTGGACTTTGAGAAAAG
1 AGATGCCACTGAGTCGTGGACTTTGAG--AAG
* * *
64552 AGATACCATTGAGTTGTGGACTTTGAGAAG
1 AGATGCCACTGAGTCGTGGACTTTGAGAAG
64582 AGATGCCACTGAGTCGTGGACTTTGAGAAG
1 AGATGCCACTGAGTCGTGGACTTTGAGAAG
* *
64612 AGATGCCACTGAGTCATGGACTTTGAAGAAAAA
1 AGATGCCACTGAGTCGTGGACTTTG-AG--AAG
*
64645 AGATGCCACTGAGTCGTGGACTTTGAAAAG
1 AGATGCCACTGAGTCGTGGACTTTGAGAAG
64675 AGAT
1 AGAT
64679 TTGAAGAATT
Statistics
Matches: 137, Mismatches: 13, Indels: 14
0.84 0.08 0.09
Matches are distributed among these distances:
27 19 0.14
28 2 0.01
29 1 0.01
30 60 0.44
31 5 0.04
32 24 0.18
33 26 0.19
ACGTcount: A:0.32, C:0.14, G:0.30, T:0.24
Consensus pattern (30 bp):
AGATGCCACTGAGTCGTGGACTTTGAGAAG
Found at i:64654 original size:33 final size:31
Alignment explanation
Indices: 64372--64678 Score: 235
Period size: 33 Copynumber: 10.0 Consensus size: 31
64362 CTTAAAAGGG
* *
64372 TGCCACAGAGTTGTGGAC-TT-A-AAAG-GA
1 TGCCACTGAGTCGTGGACTTTGAGAAAGAGA
*
64399 TGCCA-TGGAGTTGTGGACTTTGA-AAAGAGA
1 TGCCACT-GAGTCGTGGACTTTGAGAAAGAGA
* * ** * *
64429 TTGCCACTGAGTCATAGACTTAAAAGGAAAAAAA
1 -TGCCACTGAGTCGTGGACTT-TGA-GAAAGAGA
* * ** *
64463 TGCCACGGAGTTGTGGACTTAAAAGGAAAAAGA
1 TGCCACTGAGTCGTGGACTT-TGA-GAAAGAGA
* *
64496 TGCCACGGAGTTGTGGAC-TT-A-AAAG-GA
1 TGCCACTGAGTCGTGGACTTTGAGAAAGAGA
* *
64523 TGCCACAGAGTTGTGGACTTTGAGAAAAGAGA
1 TGCCACTGAGTCGTGGACTTTGAG-AAAGAGA
* * *
64555 TACCATTGAGTTGTGGACTTTGAG-AAGAGA
1 TGCCACTGAGTCGTGGACTTTGAGAAAGAGA
64585 TGCCACTGAGTCGTGGACTTTGAG-AAGAGA
1 TGCCACTGAGTCGTGGACTTTGAGAAAGAGA
* *
64615 TGCCACTGAGTCATGGACTTTGAAGAAAAAAGA
1 TGCCACTGAGTCGTGGACTTTG-AG-AAAGAGA
64648 TGCCACTGAGTCGTGGACTTTGA-AAAGAGA
1 TGCCACTGAGTCGTGGACTTTGAGAAAGAGA
64678 T
1 T
64679 TTGAAGAATT
Statistics
Matches: 237, Mismatches: 26, Indels: 31
0.81 0.09 0.11
Matches are distributed among these distances:
27 35 0.15
28 7 0.03
29 6 0.03
30 64 0.27
31 21 0.09
32 27 0.11
33 72 0.30
34 5 0.02
ACGTcount: A:0.34, C:0.14, G:0.29, T:0.23
Consensus pattern (31 bp):
TGCCACTGAGTCGTGGACTTTGAGAAAGAGA
Found at i:64666 original size:63 final size:61
Alignment explanation
Indices: 64516--64678 Score: 202
Period size: 63 Copynumber: 2.6 Consensus size: 61
64506 TTGTGGACTT
* * * * **
64516 AAAAGGATGCCACAGAGTTGTGGACTTTGAGAAAAGAGATACCATTGAGTTGTGGACTTTGAG
1 AAAAAGATGCCACTGAGTCGTGGACTTTGAG--AAGAGATACCACTGAGTCATGGACTTTGAG
* *
64579 -AAGAGATGCCACTGAGTCGTGGACTTTGAGAAGAGATGCCACTGAGTCATGGACTTTGAAG
1 AAAAAGATGCCACTGAGTCGTGGACTTTGAGAAGAGATACCACTGAGTCATGGACTTTG-AG
*
64640 AAAAAAGATGCCACTGAGTCGTGGACTTTGAAAAGAGAT
1 -AAAAAGATGCCACTGAGTCGTGGACTTTGAGAAGAGAT
64679 TTGAAGAATT
Statistics
Matches: 87, Mismatches: 10, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
60 24 0.28
61 2 0.02
62 26 0.30
63 35 0.40
ACGTcount: A:0.34, C:0.13, G:0.29, T:0.23
Consensus pattern (61 bp):
AAAAAGATGCCACTGAGTCGTGGACTTTGAGAAGAGATACCACTGAGTCATGGACTTTGAG
Found at i:65980 original size:23 final size:24
Alignment explanation
Indices: 65954--65999 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 24
65944 CTTGGTACTT
65954 TTTTTGTGTGTTGTTTTT-TTTTA
1 TTTTTGTGTGTTGTTTTTGTTTTA
* *
65977 TTTTTGTTTTTTGTTTTTGTTTT
1 TTTTTGTGTGTTGTTTTTGTTTT
66000 TTTACTTTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 16 0.80
24 4 0.20
ACGTcount: A:0.02, C:0.00, G:0.15, T:0.83
Consensus pattern (24 bp):
TTTTTGTGTGTTGTTTTTGTTTTA
Found at i:65984 original size:19 final size:19
Alignment explanation
Indices: 65962--66000 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
65952 TTTTTTTGTG
65962 TGTTGTTTT-TTTTTATTTT
1 TGTT-TTTTGTTTTTATTTT
*
65981 TGTTTTTTGTTTTTGTTTT
1 TGTTTTTTGTTTTTATTTT
66000 T
1 T
66001 TTACTTTTTC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 4 0.22
19 14 0.78
ACGTcount: A:0.03, C:0.00, G:0.13, T:0.85
Consensus pattern (19 bp):
TGTTTTTTGTTTTTATTTT
Found at i:65986 original size:13 final size:13
Alignment explanation
Indices: 65970--66001 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
65960 TGTGTTGTTT
65970 TTTTTTATTTTTG
1 TTTTTTATTTTTG
*
65983 TTTTTTGTTTTTG
1 TTTTTTATTTTTG
65996 TTTTTT
1 TTTTTT
66002 TACTTTTTCA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.03, C:0.00, G:0.09, T:0.88
Consensus pattern (13 bp):
TTTTTTATTTTTG
Found at i:73964 original size:52 final size:50
Alignment explanation
Indices: 73847--74468 Score: 410
Period size: 49 Copynumber: 12.9 Consensus size: 50
73837 TCAAAGATGC
* * * * * *
73847 GAAGAATGACAATGTGCTGATTCATGGCCAGCGACATTAGACTTGAA-GAA
1 GAAG-ATGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAATGAT
* ** * *
73897 G-A-ATGCCAATGTGCTGAGACAAGGCCAGCGACATTGGGCTTAGGAATGTT
1 GAAGATGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTA--AATGAT
* * * * *
73947 AAAGATGCCAATATGCTGATTCAAGGCCAACGATATCGGACTTAAA-GCT
1 GAAGATGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAATGAT
* * * *
73996 GAAGATGCCAATGTGCTGATTCAAGGCTAGCGACATTGGTCTTAAAGATGAC
1 GAAGATGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTT-AA-ATGAT
** *
74048 GAAGGCGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAA-GAT
1 GAAGATGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAATGAT
* * * *
74097 GAAGGTGCCAATGTACTGATTCAAGGCCAACGACATTGGACTTAAA-GAT
1 GAAGATGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAATGAT
** *
74146 GACAAAGGCGCCAATATGCTGATTCAAGGCCAGCGATATTGGAC-----T--T
1 G---AAGATGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAATGAT
* * * * *
74192 ----ATGCCAATGTACTGATTCAAGGCTAGCGACATTGGTCTTAAA--AA
1 GAAGATGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAATGAT
* * * * *
74236 CAAGGTGCCAATATGCTAATTCAAGGCCAGCGATATTGGGC-----T--T
1 GAAGATGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAATGAT
* * *
74279 ---G-TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAGA-GA-
1 GAAGATGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAATGAT
* * * * * *
74323 CAAGCTGCCAATATGCTGATTCAAGGCCAGTGATATTGGACTCAAGATGGT
1 GAAGATGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAA-ATGAT
* * * * *
74374 AAAGGTGCCAATATGCTGATTCAAGGCCAACGATATTGGACTTAGA-GAT
1 GAAGATGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAATGAT
* * * *
74423 GAAGGTGCCAATTTGCTGATTCAAGGCCAACAACATTGGACTTAAA
1 GAAGATGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAA
74469 AGAAGACGTC
Statistics
Matches: 452, Mismatches: 83, Indels: 75
0.74 0.14 0.12
Matches are distributed among these distances:
39 62 0.14
40 1 0.00
46 1 0.00
47 34 0.08
48 64 0.14
49 132 0.29
50 9 0.02
51 43 0.10
52 106 0.23
ACGTcount: A:0.32, C:0.19, G:0.25, T:0.24
Consensus pattern (50 bp):
GAAGATGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAATGAT
Found at i:74030 original size:101 final size:99
Alignment explanation
Indices: 73856--74468 Score: 548
Period size: 101 Copynumber: 6.4 Consensus size: 99
73846 CGAAGAATGA
* * * * * **
73856 CAATGTGCTGATTCATGGCCAGCGACATTAGACTTGAA---GAAGAATGCCAATGTGCTGAGACA
1 CAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGCTGAAG-ATGCCAATGTGCTGATTCA
* *
73918 AGGCCAGCGACATTGGGCTTAG-GAATGTTAAAGATGC
65 AGGCCAGCGACATTGGTCTTAGAG-ATG--AAAGGTGC
* *
73955 CAATATGCTGATTCAAGGCCAACGATATCGGACTTAAAGCTGAAGATGCCAATGTGCTGATTCAA
1 CAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGCTGAAGATGCCAATGTGCTGATTCAA
* * *
74020 GGCTAGCGACATTGGTCTTAAAGATGACGAAGGCGC
66 GGCCAGCGACATTGGTCTTAGAGATGA--AAGGTGC
* * *
74056 CAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCCAATGTACTGATTCAA
1 CAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGCTGAAGATGCCAATGTGCTGATTCAA
* * * *
74121 GGCCAACGACATTGGACTTAAAGATGACAAAGGCGC
66 GGCCAGCGACATTGGTCTTAGAGATG--AAAGGTGC
*
74157 CAATATGCTGATTCAAGGCCAGCGATATTGGAC-T-----T----ATGCCAATGTACTGATTCAA
1 CAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGCTGAAGATGCCAATGTGCTGATTCAA
* *
74212 GGCTAGCGACATTGGTCTTA-A-A-AACAAGGTGC
66 GGCCAGCGACATTGGTCTTAGAGATGA-AAGGTGC
* *
74244 CAATATGCTAATTCAAGGCCAGCGATATTGG-------GCT--TG-TGCCAATGTGCTGATTCAA
1 CAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGCTGAAGATGCCAATGTGCTGATTCAA
* *
74299 GGCCAGCGACATTGGTCTTAGAGA--CAAGCTGC
66 GGCCAGCGACATTGGTCTTAGAGATGAAAGGTGC
* * * * * *
74331 CAATATGCTGATTCAAGGCCAGTGATATTGGACTCAAGATGGTAAAGGTGCCAATATGCTGATTC
1 CAATATGCTGATTCAAGGCCAGCGATATTGGACTTAA-A-GCTGAAGATGCCAATGTGCTGATTC
* * *
74396 AAGGCCAACGATATTGGACTTAGAGATG-AAGGTGC
64 AAGGCCAGCGACATTGGTCTTAGAGATGAAAGGTGC
* * * *
74431 CAATTTGCTGATTCAAGGCCAACAACATTGGACTTAAA
1 CAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAA
74469 AGAAGACGTC
Statistics
Matches: 437, Mismatches: 48, Indels: 58
0.80 0.09 0.11
Matches are distributed among these distances:
86 2 0.00
87 108 0.25
88 1 0.00
89 2 0.00
90 1 0.00
91 36 0.08
95 1 0.00
96 2 0.00
98 1 0.00
99 72 0.16
100 38 0.09
101 167 0.38
102 5 0.01
103 1 0.00
ACGTcount: A:0.32, C:0.19, G:0.25, T:0.24
Consensus pattern (99 bp):
CAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGCTGAAGATGCCAATGTGCTGATTCAA
GGCCAGCGACATTGGTCTTAGAGATGAAAGGTGC
Found at i:74209 original size:39 final size:39
Alignment explanation
Indices: 74155--74318 Score: 157
Period size: 39 Copynumber: 4.0 Consensus size: 39
74145 TGACAAAGGC
* *
74155 GCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAT
1 GCCAATATGCTGATTCAAGGCCAGCGACATTGGTCTTAT
* * *
74194 GCCAATGTACTGATTCAAGGCTAGCGACATTGGTCTTAAAAACAAGGT
1 GCCAATATGCTGATTCAAGGCCAGCGACATTGGTCTT-------A--T
* * * *
74242 GCCAATATGCTAATTCAAGGCCAGCGATATTGGGCTTGT
1 GCCAATATGCTGATTCAAGGCCAGCGACATTGGTCTTAT
*
74281 GCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTA
1 GCCAATATGCTGATTCAAGGCCAGCGACATTGGTCTTA
74319 GAGACAAGCT
Statistics
Matches: 99, Mismatches: 17, Indels: 18
0.74 0.13 0.13
Matches are distributed among these distances:
39 66 0.67
46 1 0.01
48 32 0.32
ACGTcount: A:0.28, C:0.21, G:0.24, T:0.27
Consensus pattern (39 bp):
GCCAATATGCTGATTCAAGGCCAGCGACATTGGTCTTAT
Found at i:74268 original size:48 final size:47
Alignment explanation
Indices: 74193--74469 Score: 219
Period size: 48 Copynumber: 5.9 Consensus size: 47
74183 ATTGGACTTA
* * * *
74193 TGCCAATGTACTGATTCAAGGCTAGCGACATTGGTCTTAAAAACAAGG
1 TGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAAA-AAGG
* * *
74241 TGCCAATATGCTAATTCAAGGCCAGCGATATTGGGCTT--------G
1 TGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAAAAAGG
* * * * *
74280 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAGAGACAAGC
1 TGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTA-AAAAAAGG
* * * *
74328 TGCCAATATGCTGATTCAAGGCCAGTGATATTGGACTCAAGATGGTAAAGG
1 TGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAA-A---AAAAGG
* * **
74379 TGCCAATATGCTGATTCAAGGCCAACGATATTGGACTTAGAGATGAAGG
1 TGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTA-A-AAAAAGG
* * *
74428 TGCCAATTTGCTGATTCAAGGCCAACAACATTGGACTTAAAA
1 TGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAA
74470 GAAGACGTCA
Statistics
Matches: 187, Mismatches: 28, Indels: 29
0.77 0.11 0.12
Matches are distributed among these distances:
39 35 0.19
47 2 0.01
48 67 0.36
49 41 0.22
51 39 0.21
52 3 0.02
ACGTcount: A:0.31, C:0.19, G:0.25, T:0.25
Consensus pattern (47 bp):
TGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAAAAAGG
Found at i:74284 original size:87 final size:87
Alignment explanation
Indices: 74101--74364 Score: 384
Period size: 87 Copynumber: 3.0 Consensus size: 87
74091 AAAGATGAAG
* * *
74101 GTGCCAATGTACTGATTCAAGGCCAACGACATTGGACTTAAAGATGACAAAGGCGCCAATATGCT
1 GTGCCAATGTACTGATTCAAGGCCAGCGACATTGGTCTTAAA-A--AC-AAGGTGCCAATATGCT
74166 GATTCAAGGCCAGCGATATTGGACTT
62 GATTCAAGGCCAGCGATATTGGACTT
* * *
74192 ATGCCAATGTACTGATTCAAGGCTAGCGACATTGGTCTTAAAAACAAGGTGCCAATATGCTAATT
1 GTGCCAATGTACTGATTCAAGGCCAGCGACATTGGTCTTAAAAACAAGGTGCCAATATGCTGATT
*
74257 CAAGGCCAGCGATATTGGGCTT
66 CAAGGCCAGCGATATTGGACTT
* * * *
74279 GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAGAGACAAGCTGCCAATATGCTGATT
1 GTGCCAATGTACTGATTCAAGGCCAGCGACATTGGTCTTAAAAACAAGGTGCCAATATGCTGATT
*
74344 CAAGGCCAGTGATATTGGACT
66 CAAGGCCAGCGATATTGGACT
74365 CAAGATGGTA
Statistics
Matches: 157, Mismatches: 16, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
87 116 0.74
88 2 0.01
90 1 0.01
91 38 0.24
ACGTcount: A:0.30, C:0.20, G:0.25, T:0.25
Consensus pattern (87 bp):
GTGCCAATGTACTGATTCAAGGCCAGCGACATTGGTCTTAAAAACAAGGTGCCAATATGCTGATT
CAAGGCCAGCGATATTGGACTT
Found at i:74400 original size:51 final size:48
Alignment explanation
Indices: 74279--74451 Score: 206
Period size: 51 Copynumber: 3.5 Consensus size: 48
74269 TATTGGGCTT
* * * *
74279 GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAGA-GACAAG
1 GTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTAAGATGA-AAG
* *
74327 CTGCCAATATGCTGATTCAAGGCCAGTGATATTGGACTCAAGATGGTAAAG
1 GTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACT-AAGAT-G-AAAG
*
74378 GTGCCAATATGCTGATTCAAGGCCAACGATATTGGACTTAGAGATG-AAG
1 GTGCCAATATGCTGATTCAAGGCCAGCGATATTGGAC-TA-AGATGAAAG
*
74427 GTGCCAATTTGCTGATTCAAGGCCA
1 GTGCCAATATGCTGATTCAAGGCCA
74452 ACAACATTGG
Statistics
Matches: 109, Mismatches: 10, Indels: 11
0.84 0.08 0.08
Matches are distributed among these distances:
48 33 0.30
49 30 0.28
51 40 0.37
52 6 0.06
ACGTcount: A:0.29, C:0.19, G:0.27, T:0.25
Consensus pattern (48 bp):
GTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTAAGATGAAAG
Found at i:74551 original size:57 final size:59
Alignment explanation
Indices: 74488--74612 Score: 184
Period size: 57 Copynumber: 2.2 Consensus size: 59
74478 CACCAACTTG
* * *
74488 TGTGGGCTTTTGAAAGGGTTG-CACCAACTTGTGTGCTTTTG-AAGGTTGCCACTGACT
1 TGTGGGCTTTTGAAAGGGGTGCCACCAACTTGTGGGCTTTTGAAAGGGTGCCACTGACT
*
74545 TGTGGGC-TTTGAAAGGGGTGCCACCGACTTGTGGGCTTTTGAAAAGGGTGCCACTGACT
1 TGTGGGCTTTTGAAAGGGGTGCCACCAACTTGTGGGCTTTTG-AAAGGGTGCCACTGACT
74604 TGTGGGCTT
1 TGTGGGCTT
74613 AAAAGGAGAA
Statistics
Matches: 60, Mismatches: 4, Indels: 5
0.87 0.06 0.07
Matches are distributed among these distances:
56 12 0.20
57 25 0.42
59 22 0.37
60 1 0.02
ACGTcount: A:0.17, C:0.18, G:0.34, T:0.32
Consensus pattern (59 bp):
TGTGGGCTTTTGAAAGGGGTGCCACCAACTTGTGGGCTTTTGAAAGGGTGCCACTGACT
Found at i:74588 original size:30 final size:30
Alignment explanation
Indices: 74488--74612 Score: 159
Period size: 29 Copynumber: 4.3 Consensus size: 30
74478 CACCAACTTG
* *
74488 TGTGGGCTTTTGAAAGGGTTG-CACCAACT
1 TGTGGGCTTTTGAAAGGGGTGCCACCGACT
* * *
74517 TGTGTGCTTTTG-AA-GGTTGCCACTGACT
1 TGTGGGCTTTTGAAAGGGGTGCCACCGACT
74545 TGTGGGC-TTTGAAAGGGGTGCCACCGACT
1 TGTGGGCTTTTGAAAGGGGTGCCACCGACT
* *
74574 TGTGGGCTTTTGAAAAGGGTGCCACTGACT
1 TGTGGGCTTTTGAAAGGGGTGCCACCGACT
74604 TGTGGGCTT
1 TGTGGGCTT
74613 AAAAGGAGAA
Statistics
Matches: 84, Mismatches: 8, Indels: 7
0.85 0.08 0.07
Matches are distributed among these distances:
27 9 0.11
28 16 0.19
29 30 0.36
30 29 0.35
ACGTcount: A:0.17, C:0.18, G:0.34, T:0.32
Consensus pattern (30 bp):
TGTGGGCTTTTGAAAGGGGTGCCACCGACT
Found at i:74674 original size:60 final size:60
Alignment explanation
Indices: 74586--74719 Score: 180
Period size: 60 Copynumber: 2.2 Consensus size: 60
74576 TGGGCTTTTG
* * * * *
74586 AAAAGGGTGCCACTGACTTGTGGGCTTAAAAGGAGA-AAGATGCCATAGAGTTGTGGACTT
1 AAAAGGGTGCCACGGACTTGTGGACTTAAAAGGA-ACAAAACGCCACAGAGTTGTGGACTT
* *
74646 AAAAGGGTGCCAGGGAGTTGTGGACTTAAAAGGAACAAAACGCCACAGAGTTGTGGACTT
1 AAAAGGGTGCCACGGACTTGTGGACTTAAAAGGAACAAAACGCCACAGAGTTGTGGACTT
*
74706 AAAAAGGTGCCACG
1 AAAAGGGTGCCACG
74720 AATATTGGCC
Statistics
Matches: 64, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
59 1 0.02
60 63 0.98
ACGTcount: A:0.34, C:0.15, G:0.31, T:0.19
Consensus pattern (60 bp):
AAAAGGGTGCCACGGACTTGTGGACTTAAAAGGAACAAAACGCCACAGAGTTGTGGACTT
Found at i:74717 original size:27 final size:27
Alignment explanation
Indices: 74621--74718 Score: 72
Period size: 27 Copynumber: 3.4 Consensus size: 27
74611 TTAAAAGGAG
* *
74621 AAAGATGCCATAGAGTTGTGGACTTAA
1 AAAGGTGCCACAGAGTTGTGGACTTAA
* **
74648 AAGGGTGCCAGGGAGTTGTGGACTT-A
1 AAAGGTGCCACAGAGTTGTGGACTTAA
*
74674 AAAGGAACAAAACGCCACAGAGTTGTGGACTTAA
1 AAAGG-------TGCCACAGAGTTGTGGACTTAA
74708 AAAGGTGCCAC
1 AAAGGTGCCAC
74719 GAATATTGGC
Statistics
Matches: 54, Mismatches: 9, Indels: 16
0.68 0.11 0.20
Matches are distributed among these distances:
26 5 0.09
27 26 0.48
33 17 0.31
34 6 0.11
ACGTcount: A:0.36, C:0.15, G:0.30, T:0.19
Consensus pattern (27 bp):
AAAGGTGCCACAGAGTTGTGGACTTAA
Found at i:76891 original size:21 final size:20
Alignment explanation
Indices: 76867--76914 Score: 53
Period size: 20 Copynumber: 2.4 Consensus size: 20
76857 TAAATCCTTT
76867 TCAAAATTAATCAT-TTTTACA
1 TCAAAATT-ATC-TGTTTTACA
* *
76888 TCAAAACTATCTGTTTTTCA
1 TCAAAATTATCTGTTTTACA
76908 TCAAAAT
1 TCAAAAT
76915 ATTTATCAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
19 1 0.04
20 15 0.65
21 7 0.30
ACGTcount: A:0.40, C:0.17, G:0.02, T:0.42
Consensus pattern (20 bp):
TCAAAATTATCTGTTTTACA
Found at i:79338 original size:19 final size:20
Alignment explanation
Indices: 79314--79367 Score: 74
Period size: 19 Copynumber: 2.8 Consensus size: 20
79304 TATCAATACA
79314 TTGTATCGATACATGCTC-C
1 TTGTATCGATACATGCTCAC
* * *
79333 TTGTATCGATATATACTCAG
1 TTGTATCGATACATGCTCAC
79353 TTGTATCGATACATG
1 TTGTATCGATACATG
79368 AAACTGGCAG
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
19 16 0.55
20 13 0.45
ACGTcount: A:0.26, C:0.19, G:0.17, T:0.39
Consensus pattern (20 bp):
TTGTATCGATACATGCTCAC
Found at i:79430 original size:13 final size:13
Alignment explanation
Indices: 79412--79464 Score: 64
Period size: 13 Copynumber: 4.5 Consensus size: 13
79402 GATACATGGG
79412 ACATTGTATCGAT
1 ACATTGTATCGAT
79425 ACATTGTATCGAT
1 ACATTGTATCGAT
79438 ACA-TG-AT-GA-
1 ACATTGTATCGAT
79447 A-A-TGTATCGAT
1 ACATTGTATCGAT
79458 ACATTGT
1 ACATTGT
79465 GCCTAATGGC
Statistics
Matches: 35, Mismatches: 0, Indels: 10
0.78 0.00 0.22
Matches are distributed among these distances:
8 3 0.09
9 3 0.09
10 4 0.11
11 3 0.09
12 3 0.09
13 19 0.54
ACGTcount: A:0.34, C:0.13, G:0.17, T:0.36
Consensus pattern (13 bp):
ACATTGTATCGAT
Found at i:79438 original size:33 final size:33
Alignment explanation
Indices: 79396--79464 Score: 104
Period size: 33 Copynumber: 2.1 Consensus size: 33
79386 CTAAGTGAAA
*
79396 TGTATCGATACATG-GGACATTGTATCGATACAT
1 TGTATCGATACATGAGGA-AATGTATCGATACAT
*
79429 TGTATCGATACATGATGAAATGTATCGATACAT
1 TGTATCGATACATGAGGAAATGTATCGATACAT
79462 TGT
1 TGT
79465 GCCTAATGGC
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
33 31 0.94
34 2 0.06
ACGTcount: A:0.32, C:0.13, G:0.20, T:0.35
Consensus pattern (33 bp):
TGTATCGATACATGAGGAAATGTATCGATACAT
Found at i:87419 original size:21 final size:20
Alignment explanation
Indices: 87379--87419 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
87369 TTGCATTGAT
*
87379 CTAATCCTATGGCTAAGATA
1 CTAATCCTATGGCCAAGATA
87399 CTAATCCTATGGCCCAAGATA
1 CTAATCCTATGG-CCAAGATA
87420 ATTTTCATAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 12 0.63
21 7 0.37
ACGTcount: A:0.34, C:0.24, G:0.15, T:0.27
Consensus pattern (20 bp):
CTAATCCTATGGCCAAGATA
Found at i:88804 original size:28 final size:27
Alignment explanation
Indices: 88745--88819 Score: 89
Period size: 28 Copynumber: 2.7 Consensus size: 27
88735 TTGGAGATAA
*
88745 TAACGGGGTTGGAGTGTTCCCTCAGAAG
1 TAACGGGGTTGGAGT-ATCCCTCAGAAG
*
88773 TAACGGGGTTGGAGTATCCC-CGATGAAT
1 TAACGGGGTTGGAGTATCCCTC-A-GAAG
*
88801 TAACGAGGTTGGAGTATCC
1 TAACGGGGTTGGAGTATCC
88820 TCAATTGTGA
Statistics
Matches: 42, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
26 1 0.02
27 5 0.12
28 36 0.86
ACGTcount: A:0.24, C:0.17, G:0.33, T:0.25
Consensus pattern (27 bp):
TAACGGGGTTGGAGTATCCCTCAGAAG
Found at i:89026 original size:27 final size:27
Alignment explanation
Indices: 88965--89038 Score: 105
Period size: 27 Copynumber: 2.7 Consensus size: 27
88955 AATAAAGTCA
88965 GGGTTGGAGTATCCCCTCGA-AAATAACG
1 GGGTTGGAGTAT-CCC-CGATAAATAACG
* *
88993 GGGTTGGAGTATCCCCGATGATTAACG
1 GGGTTGGAGTATCCCCGATAAATAACG
89020 GGGTTGGAGTATCCCCGAT
1 GGGTTGGAGTATCCCCGAT
89039 TGTGAAGAAA
Statistics
Matches: 43, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
26 3 0.07
27 28 0.65
28 12 0.28
ACGTcount: A:0.23, C:0.20, G:0.32, T:0.24
Consensus pattern (27 bp):
GGGTTGGAGTATCCCCGATAAATAACG
Found at i:89126 original size:51 final size:51
Alignment explanation
Indices: 88808--89146 Score: 170
Period size: 51 Copynumber: 6.4 Consensus size: 51
88798 AATTAACGAG
* * * * *
88808 GTTGGAGTATCCTCAATTGT-GAAAAATTGGTATTTTTG-AAATAAAATCGGT
1 GTTGGAGTATCCCCGATTATAG-AAAATTAGTA-TTTTGAAAATAAAATCGGA
* * * *
88859 GTTGGAGTATCCCCGATATATAAAGGAAAATTGGTGTTTTTGAAAATAAAAACCGGG
1 GTTGGAGTATCCCCGAT-TAT--A-GAAAATTAGT-ATTTTGAAAAT-AAAATCGGA
* * * * *
88916 GTTGGAGTATCCCCGATTATGGAAAATCAATATTTTGGAAATAAAGTCAGG-
1 GTTGGAGTATCCCCGATTATAGAAAATTAGTATTTTGAAAATAAAATC-GGA
** *** *** ** * *
88967 GTTGGAGTATCCCCTCGAAAATA-ACGGGGTTGGAGTATCCCCGATGAT-TAA-CGGG
1 GTTGGAGTAT-CCC-CGATTATAGA--AAATT--AGTAT-TTTGAAAATAAAATCGGA
* * * *
89022 GTTGGAGTATCCCCGATTGT-GAAGAAATTGGTGTTTTTTGGAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTATAG-A-AAATT--AGTATTTTGAAAATAAAATCGGA
89076 GTTGGAGTATCCCCGATTATAGAAAATTAGTATTTTGAAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTATAGAAAATTAGTATTTTGAAAATAAAATCGGA
*
89127 GTTGGAATATCCCCGATTAT
1 GTTGGAGTATCCCCGATTAT
89147 GGAGAAGTGA
Statistics
Matches: 215, Mismatches: 51, Indels: 44
0.69 0.16 0.14
Matches are distributed among these distances:
51 68 0.32
52 20 0.09
53 31 0.14
54 30 0.14
55 26 0.12
56 13 0.06
57 27 0.13
ACGTcount: A:0.33, C:0.12, G:0.24, T:0.31
Consensus pattern (51 bp):
GTTGGAGTATCCCCGATTATAGAAAATTAGTATTTTGAAAATAAAATCGGA
Done.