Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01000924.1 Hibiscus syriacus cultivar Beakdansim tig00001842_pilon, whole genome shotgun sequence
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: 89883
ACGTcount: A:0.34, C:0.17, G:0.17, T:0.33
Found at i:1528 original size:13 final size:13
Alignment explanation
Indices: 1510--1534 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1500 AGCCATTAGT
1510 TTCATAATCAATA
1 TTCATAATCAATA
1523 TTCATAATCAAT
1 TTCATAATCAAT
1535 GTGACATGGT
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:0.44, C:0.16, G:0.00, T:0.40
Consensus pattern (13 bp):
TTCATAATCAATA
Found at i:3662 original size:22 final size:21
Alignment explanation
Indices: 3621--3662 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
3611 TCAAAGGAGG
*
3621 AATCTTGTACTAAAATTCAAA
1 AATCTTGTACTAAAACTCAAA
3642 AATCTGTGTA-TAAACACTCAA
1 AATCT-TGTACTAAA-ACTCAA
3663 GATGCTAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
21 9 0.50
22 9 0.50
ACGTcount: A:0.45, C:0.17, G:0.07, T:0.31
Consensus pattern (21 bp):
AATCTTGTACTAAAACTCAAA
Found at i:3983 original size:21 final size:22
Alignment explanation
Indices: 3945--3985 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
3935 CTAAAGGTTT
**
3945 TGTAAAGATATCCGCAAATTGG
1 TGTAAAGATATCAACAAATTGG
3967 TGTAAAG-TATCAACAAATT
1 TGTAAAGATATCAACAAATT
3986 CTAGAACTAC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 10 0.59
22 7 0.41
ACGTcount: A:0.41, C:0.12, G:0.17, T:0.29
Consensus pattern (22 bp):
TGTAAAGATATCAACAAATTGG
Found at i:5404 original size:191 final size:191
Alignment explanation
Indices: 5080--5462 Score: 757
Period size: 191 Copynumber: 2.0 Consensus size: 191
5070 TTTAATATCC
5080 ATTTGATATAATTTAAATTCATTGAAGCATGCAAATGCTAATAACATTCTAATTGCTTCCATCCT
1 ATTTGATATAATTTAAATTCATTGAAGCATGCAAATGCTAATAACATTCTAATTGCTTCCATCCT
5145 ATCTACGAGAGCATATGTTTCATCATAGTATATGCCTTCTTCTTGAGTATAGTCTTGATCAACAA
66 ATCTACGAGAGCATATGTTTCATCATAGTATATGCCTTCTTCTTGAGTATAGTCTTGATCAACAA
*
5210 GTCTAGCCTTGTTTTTCACTATATTACCACTTTCATCAAGCTTATTCCTAAATACCCATCT
131 GTCTAGCCTTATTTTTCACTATATTACCACTTTCATCAAGCTTATTCCTAAATACCCATCT
5271 ATTTGATATAATTTAAATTCATTGAAGCATGCAAATGCTAATAACATTCTAATTGCTTCCATCCT
1 ATTTGATATAATTTAAATTCATTGAAGCATGCAAATGCTAATAACATTCTAATTGCTTCCATCCT
5336 ATCTACGAGAGCATATGTTTCATCATAGTATATGCCTTCTTCTTGAGTATAGTCTTGATCAACAA
66 ATCTACGAGAGCATATGTTTCATCATAGTATATGCCTTCTTCTTGAGTATAGTCTTGATCAACAA
5401 GTCTAGCCTTATTTTTCACTATATTACCACTTTCATCAAGCTTATTCCTAAATACCCATCT
131 GTCTAGCCTTATTTTTCACTATATTACCACTTTCATCAAGCTTATTCCTAAATACCCATCT
5462 A
1 A
5463 GTACCTACAG
Statistics
Matches: 191, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
191 191 1.00
ACGTcount: A:0.30, C:0.21, G:0.10, T:0.39
Consensus pattern (191 bp):
ATTTGATATAATTTAAATTCATTGAAGCATGCAAATGCTAATAACATTCTAATTGCTTCCATCCT
ATCTACGAGAGCATATGTTTCATCATAGTATATGCCTTCTTCTTGAGTATAGTCTTGATCAACAA
GTCTAGCCTTATTTTTCACTATATTACCACTTTCATCAAGCTTATTCCTAAATACCCATCT
Found at i:7887 original size:117 final size:117
Alignment explanation
Indices: 7667--7888 Score: 288
Period size: 117 Copynumber: 1.9 Consensus size: 117
7657 CTTTCAAATC
*
7667 GAAATTTTCTTTTTCAATAATTTCAAATTTCATTTTTGAAAGCTCTAAATCATTCTTCAAGATTT
1 GAAAATTTCTTTTTCAATAATTTCAAATTTCATTTTTGAAAGCTCTAAATCATTCTTCAAGATTT
* *
7732 CATTTTGATTTTCAAAATCCATTTTCGCTTCTAGAAGAAGTTGGTTTAATTT
66 CATTTTGATTTTCAAAATCCATTTTAGCTTCTAAAAGAAGTTGGTTTAATTT
* * * * * *
7784 GAAAATTTCTTTTTCAA-AGTTTTCAGATTTCGTTTTTGAAAGCTCTAACTC-TTTTCTCAATAT
1 GAAAATTTCTTTTTCAATA-ATTTCAAATTTCATTTTTGAAAGCTCTAAATCATTCT-TCAAGAT
* **
7847 TTCATTTTGATTTTCTAAATCTGTTTTAGCTT-TCAAAAGAAG
64 TTCATTTTGATTTTCAAAATCCATTTTAGCTTCT-AAAAGAAG
7889 ATAATTTTTA
Statistics
Matches: 90, Mismatches: 12, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
116 5 0.06
117 85 0.94
ACGTcount: A:0.29, C:0.14, G:0.10, T:0.47
Consensus pattern (117 bp):
GAAAATTTCTTTTTCAATAATTTCAAATTTCATTTTTGAAAGCTCTAAATCATTCTTCAAGATTT
CATTTTGATTTTCAAAATCCATTTTAGCTTCTAAAAGAAGTTGGTTTAATTT
Found at i:14076 original size:29 final size:29
Alignment explanation
Indices: 14029--14086 Score: 71
Period size: 29 Copynumber: 2.0 Consensus size: 29
14019 AACCAGTGGC
* * *
14029 AAACCGGGGTGAACAGGCTGAGAACCGGT
1 AAACCAGGGTGAACAGGCTAAAAACCGGT
**
14058 AAACCAGGGTGAATTGGCTAAAAACCGGT
1 AAACCAGGGTGAACAGGCTAAAAACCGGT
14087 GTGAACCGCT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
29 24 1.00
ACGTcount: A:0.34, C:0.19, G:0.33, T:0.14
Consensus pattern (29 bp):
AAACCAGGGTGAACAGGCTAAAAACCGGT
Found at i:20590 original size:180 final size:180
Alignment explanation
Indices: 20299--20775 Score: 629
Period size: 180 Copynumber: 2.6 Consensus size: 180
20289 CGATCCAAAT
* *
20299 TAAAAATGTATCGATCCATATCAA-TATAACAAGTAAAAATATGATAAAACCGGTCA-CGAAAAG
1 TAAAAATGTATCGATCC--A-CAACTATAACAGGTAAAAATATGATAAAACCGGT-ATCGAAATG
* * * * * * * * *
20362 ACAATATCGGTAAAGCCCTACCAGATATATTGAACGTGTTGCTACTTTAATATAA-TGATCGATA
62 ATAAAACCGGTAAAGCACTACCAGATATATTGAAAGTGTCGATACTTTAATACAAGT-ATCGACA
20426 CTTTGTGAATTTAAAAGAGAAGCAGTTTTA-ACACCTATAAAGTGTCGATACTTTA
126 CTTTGTGAATTTAAAAGAGAAGCAGTTTTAGA-ACCTATAAAGTGTCGATACTTTA
* **
20481 TAAAAATGTATTGATCCACAACTATAACAGGTAAAAATATGATAAAATAGGTATCGAAATGATAA
1 TAAAAATGTATCGATCCACAACTATAACAGGTAAAAATATGATAAAACCGGTATCGAAATGATAA
** * * *
20546 AACCGGTAAAAAACTACCGGATATATTTAAAGTGTCGGTACTTTAATACAAGTATCGACACTTTG
66 AACCGGTAAAGCACTACCAGATATATTGAAAGTGTCGATACTTTAATACAAGTATCGACACTTTG
* *
20611 TGAATTTAAAAGAGAAGCAGTTTTAGAGCCTATAAAGTGTCGATGCTTTA
131 TGAATTTAAAAGAGAAGCAGTTTTAGAACCTATAAAGTGTCGATACTTTA
*
20661 TAAAAATGTATCGATCCACAACGATATAACAGGTAAAAATATGATAAAACCGGTATCAAAATGAT
1 TAAAAATGTATCGATCCACAAC--TATAACAGGTAAAAATATGATAAAACCGGTATCGAAATGAT
* * *
20726 AAAACCAGTAAAGCGCTACCTGATATATTGAAAGTGTCGATACTTTAATA
64 AAAACCGGTAAAGCACTACCAGATATATTGAAAGTGTCGATACTTTAATA
20776 AGTACGTGTA
Statistics
Matches: 258, Mismatches: 31, Indels: 12
0.86 0.10 0.04
Matches are distributed among these distances:
179 4 0.02
180 155 0.60
181 2 0.01
182 97 0.38
ACGTcount: A:0.42, C:0.14, G:0.16, T:0.28
Consensus pattern (180 bp):
TAAAAATGTATCGATCCACAACTATAACAGGTAAAAATATGATAAAACCGGTATCGAAATGATAA
AACCGGTAAAGCACTACCAGATATATTGAAAGTGTCGATACTTTAATACAAGTATCGACACTTTG
TGAATTTAAAAGAGAAGCAGTTTTAGAACCTATAAAGTGTCGATACTTTA
Found at i:20715 original size:20 final size:19
Alignment explanation
Indices: 20692--20737 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 19
20682 CGATATAACA
20692 GGTAAAAATATGATAAAACC
1 GGTAAAAA-ATGATAAAACC
*
20712 GGTATCAAAATGATAAAACC
1 GGTA-AAAAATGATAAAACC
*
20732 AGTAAA
1 GGTAAA
20738 GCGCTACCTG
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
19 1 0.05
20 18 0.82
21 3 0.14
ACGTcount: A:0.54, C:0.11, G:0.15, T:0.20
Consensus pattern (19 bp):
GGTAAAAAATGATAAAACC
Found at i:22860 original size:12 final size:12
Alignment explanation
Indices: 22835--22904 Score: 52
Period size: 12 Copynumber: 5.8 Consensus size: 12
22825 ACGGAGATAT
* *
22835 CAGAAATCAAAA
1 CAGAATTCAGAA
22847 CAGAATTCAGAA
1 CAGAATTCAGAA
* *
22859 CA-TATATCATAA
1 CAGAAT-TCAGAA
* *
22871 CAGAATCCAGAT
1 CAGAATTCAGAA
* *
22883 CAGAAATCATAA
1 CAGAATTCAGAA
22895 CAGAATTCAG
1 CAGAATTCAG
22905 GTAATGTATC
Statistics
Matches: 42, Mismatches: 14, Indels: 4
0.70 0.23 0.07
Matches are distributed among these distances:
11 2 0.05
12 38 0.90
13 2 0.05
ACGTcount: A:0.51, C:0.19, G:0.11, T:0.19
Consensus pattern (12 bp):
CAGAATTCAGAA
Found at i:22867 original size:24 final size:24
Alignment explanation
Indices: 22840--22927 Score: 88
Period size: 24 Copynumber: 3.7 Consensus size: 24
22830 GATATCAGAA
*
22840 ATCAAAACAGAATTCAGAACATAT
1 ATCATAACAGAATTCAGAACATAT
* * * *
22864 ATCATAACAGAATCCAGATCAGAA
1 ATCATAACAGAATTCAGAACATAT
* *
22888 ATCATAACAGAATTCAGGTA-ATGT
1 ATCATAACAGAATTCA-GAACATAT
*
22912 ATCAGAACAGAATTCA
1 ATCATAACAGAATTCA
22928 AGTCAAAAAT
Statistics
Matches: 51, Mismatches: 12, Indels: 2
0.78 0.18 0.03
Matches are distributed among these distances:
24 50 0.98
25 1 0.02
ACGTcount: A:0.49, C:0.17, G:0.12, T:0.22
Consensus pattern (24 bp):
ATCATAACAGAATTCAGAACATAT
Found at i:22915 original size:48 final size:48
Alignment explanation
Indices: 22833--22924 Score: 132
Period size: 48 Copynumber: 1.9 Consensus size: 48
22823 AAACGGAGAT
*
22833 ATCAGAAATCAAAACAGAATTCAGAACATATATCATAACAGAATCCAG
1 ATCAGAAATCAAAACAGAATTCAGAACATATATCAGAACAGAATCCAG
* * *
22881 ATCAGAAATCATAACAGAATTCAGGTA-ATGTATCAGAACAGAAT
1 ATCAGAAATCAAAACAGAATTCA-GAACATATATCAGAACAGAAT
22925 TCAAGTCAAA
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
48 37 0.95
49 2 0.05
ACGTcount: A:0.50, C:0.16, G:0.13, T:0.21
Consensus pattern (48 bp):
ATCAGAAATCAAAACAGAATTCAGAACATATATCAGAACAGAATCCAG
Found at i:22938 original size:48 final size:48
Alignment explanation
Indices: 22833--22939 Score: 119
Period size: 48 Copynumber: 2.2 Consensus size: 48
22823 AAACGGAGAT
* * *
22833 ATCAGAAATCAAAACAGAATTCAGAACATATATCATAACAGAATCCAG
1 ATCAAAAATCAAAACAGAATTCAGAACATATATCAGAACAGAATCAAG
* * * *
22881 ATCAGAAATCATAACAGAATTCAGGTA-ATGTATCAGAACAGAATTCAAG
1 ATCAAAAATCAAAACAGAATTCA-GAACATATATCAGAACAGAA-TCAAG
22930 -TCAAAAATCA
1 ATCAAAAATCA
22940 GATAAAATAT
Statistics
Matches: 51, Mismatches: 6, Indels: 4
0.84 0.10 0.07
Matches are distributed among these distances:
48 45 0.88
49 6 0.12
ACGTcount: A:0.50, C:0.17, G:0.12, T:0.21
Consensus pattern (48 bp):
ATCAAAAATCAAAACAGAATTCAGAACATATATCAGAACAGAATCAAG
Found at i:22939 original size:24 final size:25
Alignment explanation
Indices: 22833--22941 Score: 66
Period size: 24 Copynumber: 4.5 Consensus size: 25
22823 AAACGGAGAT
* *
22833 ATCAGAAATCAAAACAGAATTC-AG
1 ATCAAAAATCAGAACAGAATTCAAG
* * * * *
22857 AACATATATCATAACAGAA-TCCAG
1 ATCAAAAATCAGAACAGAATTCAAG
* *
22881 ATCAGAAATCATAACAGAATTC-AG
1 ATCAAAAATCAGAACAGAATTCAAG
* **
22905 GT-AATGTATCAGAACAGAATTCAAG
1 ATCAA-AAATCAGAACAGAATTCAAG
22930 -TCAAAAATCAGA
1 ATCAAAAATCAGA
22942 TAAAATATTT
Statistics
Matches: 66, Mismatches: 14, Indels: 10
0.73 0.16 0.11
Matches are distributed among these distances:
23 3 0.05
24 57 0.86
25 6 0.09
ACGTcount: A:0.50, C:0.17, G:0.13, T:0.20
Consensus pattern (25 bp):
ATCAAAAATCAGAACAGAATTCAAG
Found at i:25922 original size:13 final size:13
Alignment explanation
Indices: 25904--25938 Score: 52
Period size: 15 Copynumber: 2.5 Consensus size: 13
25894 ATGGTTGTAT
25904 TGAGGGATGACGG
1 TGAGGGATGACGG
25917 TGAGGGGGATGACGG
1 TGA--GGGATGACGG
25932 TGAGGGA
1 TGAGGGA
25939 AAACAGAGTA
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
13 7 0.35
15 13 0.65
ACGTcount: A:0.23, C:0.06, G:0.57, T:0.14
Consensus pattern (13 bp):
TGAGGGATGACGG
Found at i:25927 original size:15 final size:15
Alignment explanation
Indices: 25907--25937 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
25897 GTTGTATTGA
25907 GGGATGACGGTGAGG
1 GGGATGACGGTGAGG
25922 GGGATGACGGTGAGG
1 GGGATGACGGTGAGG
25937 G
1 G
25938 AAAACAGAGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.19, C:0.06, G:0.61, T:0.13
Consensus pattern (15 bp):
GGGATGACGGTGAGG
Found at i:26044 original size:21 final size:21
Alignment explanation
Indices: 26020--26063 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
26010 AAGACAATCA
26020 AGAGTCAAAGAGAAACTTGAG
1 AGAGTCAAAGAGAAACTTGAG
* * *
26041 AGAGTCGAAGATACACTTGAG
1 AGAGTCAAAGAGAAACTTGAG
26062 AG
1 AG
26064 GCATAAGGGG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.43, C:0.11, G:0.30, T:0.16
Consensus pattern (21 bp):
AGAGTCAAAGAGAAACTTGAG
Found at i:26134 original size:33 final size:33
Alignment explanation
Indices: 26097--26162 Score: 105
Period size: 33 Copynumber: 2.0 Consensus size: 33
26087 AAATAGATGG
*
26097 AGTGGTGAAAGAAGTAGAAGTGTTGAGGGGTGA
1 AGTGGTGAAAGAAGTAGAAGTGTTAAGGGGTGA
* *
26130 AGTGGTGAAAGAAGTTGAGGTGTTAAGGGGTGA
1 AGTGGTGAAAGAAGTAGAAGTGTTAAGGGGTGA
26163 TCTTAAGATG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.32, C:0.00, G:0.45, T:0.23
Consensus pattern (33 bp):
AGTGGTGAAAGAAGTAGAAGTGTTAAGGGGTGA
Found at i:27977 original size:19 final size:19
Alignment explanation
Indices: 27950--27998 Score: 80
Period size: 19 Copynumber: 2.6 Consensus size: 19
27940 AATGTAGGGT
*
27950 TAATGTTGTATAAGATTTA
1 TAATTTTGTATAAGATTTA
*
27969 TAATTTTGTATACGATTTA
1 TAATTTTGTATAAGATTTA
27988 TAATTTTGTAT
1 TAATTTTGTAT
27999 GTGAATGTAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.33, C:0.02, G:0.12, T:0.53
Consensus pattern (19 bp):
TAATTTTGTATAAGATTTA
Found at i:28583 original size:200 final size:200
Alignment explanation
Indices: 28240--28997 Score: 1234
Period size: 200 Copynumber: 3.8 Consensus size: 200
28230 GTAAGCATAT
* * *
28240 GTGTCGATCCATATATAAAAAGTATCGATCCCATAAACATAGAAACCCATAAGTATAATGTAATA
1 GTGTCGATCCATTTATAAAAAGTATCGATCCCAGAAACATCGAAACCCATAAGTATAATGTAATA
* * *
28305 GGTAATTTTTCAATGTAACCAGTATAAATTTACCGGTTTTACGAGAGAATAGGTCTACAACATGT
66 GGTAAATTTTCAATGTAACCGGTATAAATATACCGGTTTTACGAGAGAATAGGTCTACAACATGT
* * * *
28370 ATAGATACTTTTTAATTTTGTGTCGATACTTTTGGTCCAGAATGAATGCCAAAAAGGGTGCAACT
131 ATCGACACTTTTTAATTTTGTGTCGATACTTTTGGTCCAGAATGAATCCCAAAAAGGGTGCAACC
28435 ATAAA
196 ATAAA
*
28440 GTGTCGATCCATTTATAAAAAGTATCGATCCCAGAAACATCGAAACCTATAAGTATAATGTAATA
1 GTGTCGATCCATTTATAAAAAGTATCGATCCCAGAAACATCGAAACCCATAAGTATAATGTAATA
* * * *
28505 GGTAAATTTTCAATGTAATCGGTATAAATATACCGGTTTTATGAGATAATAGGTCTACAACTTGT
66 GGTAAATTTTCAATGTAACCGGTATAAATATACCGGTTTTACGAGAGAATAGGTCTACAACATGT
*
28570 ATCGACACTTTTTAATTTTGTGTTGATACTTTTGGTCCAGAATGAATCCCAAAAAGGGTGCAACC
131 ATCGACACTTTTTAATTTTGTGTCGATACTTTTGGTCCAGAATGAATCCCAAAAAGGGTGCAACC
28635 ATAAA
196 ATAAA
28640 GTGTCGATCCATTTATAAAAAGTATCGATCCCAGAAACATCGAAACCCATAAGTATAATGTAATA
1 GTGTCGATCCATTTATAAAAAGTATCGATCCCAGAAACATCGAAACCCATAAGTATAATGTAATA
* * * * *
28705 GGTAATTTTTTAATGTAACCGGTATAAATTTACCAGTTTTACAAGAGAATAGGTCTACAACATGT
66 GGTAAATTTTCAATGTAACCGGTATAAATATACCGGTTTTACGAGAGAATAGGTCTACAACATGT
28770 ATCGACACTTTTTAATTTTAG-GTCGATACTTTTGGTCCAGAATGAATCCCAAAAAGGGTGCAAC
131 ATCGACACTTTTTAATTTT-GTGTCGATACTTTTGGTCCAGAATGAATCCCAAAAAGGGTGCAAC
28834 CATAAA
195 CATAAA
* * * *
28840 GTGTCGAACCATTTATAAAAAGTATCGAT-CTAGAAACATCGAAACCAATAAATATAATGTAATA
1 GTGTCGATCCATTTATAAAAAGTATCGATCCCAGAAACATCGAAACCCATAAGTATAATGTAATA
* * *
28904 GGTAAATTTTCAATGTAACCGGTATAAATATATCGGTTTTATGATAGAATA-GTCTACAACATGT
66 GGTAAATTTTCAATGTAACCGGTATAAATATACCGGTTTTACGAGAGAATAGGTCTACAACATGT
28968 ATCGACACTTTTTAATTTTGTGTCGATACT
131 ATCGACACTTTTTAATTTTGTGTCGATACT
28998 AATTTAAATA
Statistics
Matches: 517, Mismatches: 39, Indels: 6
0.92 0.07 0.01
Matches are distributed among these distances:
197 1 0.00
198 41 0.08
199 75 0.15
200 399 0.77
201 1 0.00
ACGTcount: A:0.37, C:0.15, G:0.16, T:0.32
Consensus pattern (200 bp):
GTGTCGATCCATTTATAAAAAGTATCGATCCCAGAAACATCGAAACCCATAAGTATAATGTAATA
GGTAAATTTTCAATGTAACCGGTATAAATATACCGGTTTTACGAGAGAATAGGTCTACAACATGT
ATCGACACTTTTTAATTTTGTGTCGATACTTTTGGTCCAGAATGAATCCCAAAAAGGGTGCAACC
ATAAA
Found at i:32013 original size:51 final size:53
Alignment explanation
Indices: 31958--32067 Score: 138
Period size: 51 Copynumber: 2.1 Consensus size: 53
31948 ACAATAGATG
*
31958 CCAAAAAGGG-TGAACGCACAAAGTGTCGATACATTT-TCAAAGAGTGTCGAT-
1 CCAAAAAGGGTTGAACACACAAAGTGTCGATACATTTATCAAA-AGTGTCGATC
* * * *
32009 CC-AAAAGGGTTGCACACATAAAGTTTCGATACATTTATTAAAAGTGTCGATC
1 CCAAAAAGGGTTGAACACACAAAGTGTCGATACATTTATCAAAAGTGTCGATC
32061 CCAAAAA
1 CCAAAAA
32068 TATCGAAATC
Statistics
Matches: 50, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
50 7 0.14
51 33 0.66
52 6 0.12
53 4 0.08
ACGTcount: A:0.39, C:0.18, G:0.19, T:0.24
Consensus pattern (53 bp):
CCAAAAAGGGTTGAACACACAAAGTGTCGATACATTTATCAAAAGTGTCGATC
Found at i:32135 original size:251 final size:251
Alignment explanation
Indices: 31810--32262 Score: 694
Period size: 252 Copynumber: 1.8 Consensus size: 251
31800 AAGTAACGAC
* * * *
31810 CCCAAAAATATCGAAACCGATAATTATAATATAATGGGTAATTTTTCAATGTAACTGGTATAAAT
1 CCCAAAAATATCGAAACCCATAATTATAATATAATAGGTAATTTTTCAATATAACCGGTATAAAT
* *
31875 ATACCGGTTTTATGA-AAAATATGTCTACAACATGTATCAACACTTATCAATATTGTGTCGATAC
66 ATACCGGTTTTATGAGAAAATAGGTCTACAACATGTATCAACACTTATCAATATTGTGTCGATAA
* *
31939 CTTTTGTCCACAATAGATGCCAAAAAGGGTGAACGCACAAAGTGTCGATACATTTTCAAAGAGTG
131 CTTTTGTCCACAATAGATGCCAAAAAGGGTGAACGCACAAAGTGTCGATACATTTTAAAAAAGTG
32004 TCGATCCAAAAGGGTTGCACACATAAAGTTTCGATACATTTATTAAAAGTGTCGAT
196 TCGATCCAAAAGGGTTGCACACATAAAGTTTCGATACATTTATTAAAAGTGTCGAT
* *
32060 CCCAAAAATATCGAAATCCCATAATTATAATGTAATAGGTAATTTTGT-AATATAACCGGTATAC
1 CCCAAAAATATCGAAA-CCCATAATTATAATATAATAGGTAATTTT-TCAATATAACCGGTATAA
* * * * *
32124 ATATACCGGTTTTATGAGAGAATAGGTCTATAACATGTATCGACACTTCTTAATATTGTGTCGAT
64 ATATACCGGTTTTATGAGAAAATAGGTCTACAACATGTATCAACACTTATCAATATTGTGTCGAT
* * * * *
32189 AATTTTTGTCCAGAATGGATGCCAAAAAGGGTGAATGCATAAAGTGTCGATACATTTTAAAAAAG
129 AACTTTTGTCCACAATAGATGCCAAAAAGGGTGAACGCACAAAGTGTCGATACATTTTAAAAAAG
32254 TGTCGATCC
194 TGTCGATCC
32263 CGAAAACATT
Statistics
Matches: 180, Mismatches: 20, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
250 16 0.09
251 56 0.31
252 108 0.60
ACGTcount: A:0.37, C:0.15, G:0.17, T:0.31
Consensus pattern (251 bp):
CCCAAAAATATCGAAACCCATAATTATAATATAATAGGTAATTTTTCAATATAACCGGTATAAAT
ATACCGGTTTTATGAGAAAATAGGTCTACAACATGTATCAACACTTATCAATATTGTGTCGATAA
CTTTTGTCCACAATAGATGCCAAAAAGGGTGAACGCACAAAGTGTCGATACATTTTAAAAAAGTG
TCGATCCAAAAGGGTTGCACACATAAAGTTTCGATACATTTATTAAAAGTGTCGAT
Found at i:32324 original size:177 final size:177
Alignment explanation
Indices: 32124--32479 Score: 597
Period size: 177 Copynumber: 2.0 Consensus size: 177
32114 ACCGGTATAC
* * *
32124 ATATACCGGTTTTATGAGAGAATAGGTCTATAACATGTATCGACACT-TCTTAATATTGTGTCGA
1 ATATACCGATTTTATGAGAGAATAGGTCTATAACATGTATCGACACTATATAAAT-TTGTGTCGA
* * *
32188 TAATTTTTGTCCAGAATGGATGCCAAAAAGGGTGAATGCATAAAGTGTCGATACATTTTAAAAAA
65 TAATTTTTGTCCAGAATGGATGCCAAAAAGGATGAACGCACAAAGTGTCGATACATTTTAAAAAA
* *
32253 GTGTCGATCCCGAAAACATTGAAACCCATAATTATAATGTAATAGGTA
130 GTGTCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATAGGTA
32301 ATATACCGATTTTATGAGAGAATAGGTCTATAACATGTATCGACACTATATAAATTTGTGTCGAT
1 ATATACCGATTTTATGAGAGAATAGGTCTATAACATGTATCGACACTATATAAATTTGTGTCGAT
* * *
32366 ACTTTTTGTCCAGAATGGATGCCAAAAAGGATGAACGCACAAAGTGTCGATACATTTTCAAAGAG
66 AATTTTTGTCCAGAATGGATGCCAAAAAGGATGAACGCACAAAGTGTCGATACATTTTAAAAAAG
32431 TGTCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATAGGTA
131 TGTCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATAGGTA
32478 AT
1 AT
32480 TTTGTAATAT
Statistics
Matches: 167, Mismatches: 11, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
177 162 0.97
178 5 0.03
ACGTcount: A:0.37, C:0.15, G:0.18, T:0.30
Consensus pattern (177 bp):
ATATACCGATTTTATGAGAGAATAGGTCTATAACATGTATCGACACTATATAAATTTGTGTCGAT
AATTTTTGTCCAGAATGGATGCCAAAAAGGATGAACGCACAAAGTGTCGATACATTTTAAAAAAG
TGTCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATAGGTA
Found at i:32643 original size:200 final size:200
Alignment explanation
Indices: 32300--32769 Score: 723
Period size: 200 Copynumber: 2.3 Consensus size: 200
32290 TGTAATAGGT
* * *
32300 AATATACCGATTTTATGAGAGAATAGGTCTATAACATGTATCGACACTATATAA-ATTTGTGTCG
1 AATATACCG-TTTTATGAGAGAATAGGTCTACAACATGTATCGACACTTTTTAATA-TTGTGTCG
* * *
32364 ATACTTTTTGTCCAGAATGGATGCCAAAAAGGATGAACGCACAAAGTGTCGATACATTTTCAAAG
64 ATACTTTGTGTCCAGAATGGATGCCAAAAAGGATGAACGCACAAAGTGTCAATACATTTTCAAAA
*
32429 AGTGTCGATCCC-AAAAACATCGAAACCCATAATTATAATGTAATAGGTAATTTTGTAATATAAC
129 AGTGTCGATCCCAAAAAACATCCAAACCCATAATTATAATGTAATAGGTAATTTTGTAATATAAC
32493 CGGTATA
194 CGGTATA
* *
32500 AATATACCAGTTTTATGAGAGAATAGGTCTACAACATCTATTGACACTTTTTAATATTGTGTCGA
1 AATATACC-GTTTTATGAGAGAATAGGTCTACAACATGTATCGACACTTTTTAATATTGTGTCGA
*
32565 TACTTTGTGTCCAGAATGGATGCCAAAAA-GAGTGAACGCACAAAGTGTCAATACATTTTTAAAA
65 TACTTTGTGTCCAGAATGGATGCCAAAAAGGA-TGAACGCACAAAGTGTCAATACATTTTCAAAA
*
32629 AGTGTCGATCCCAAAAAACATCCAAACCCATAATTATAATGTAATAGGTAATTTTTTAATATAAC
129 AGTGTCGATCCCAAAAAACATCCAAACCCATAATTATAATGTAATAGGTAATTTTGTAATATAAC
32694 CGGTATA
194 CGGTATA
* * * * *
32701 AATATACCGTTTTATAATAGAATAGGTCTACAACATGTAGCGACACTTTTTTATTTTGAT-TCGA
1 AATATACCGTTTTATGAGAGAATAGGTCTACAACATGTATCGACACTTTTTAATATTG-TGTCGA
32765 TACTT
65 TACTT
32770 ACGATATATG
Statistics
Matches: 247, Mismatches: 18, Indels: 10
0.90 0.07 0.04
Matches are distributed among these distances:
199 2 0.01
200 177 0.72
201 68 0.28
ACGTcount: A:0.37, C:0.15, G:0.16, T:0.32
Consensus pattern (200 bp):
AATATACCGTTTTATGAGAGAATAGGTCTACAACATGTATCGACACTTTTTAATATTGTGTCGAT
ACTTTGTGTCCAGAATGGATGCCAAAAAGGATGAACGCACAAAGTGTCAATACATTTTCAAAAAG
TGTCGATCCCAAAAAACATCCAAACCCATAATTATAATGTAATAGGTAATTTTGTAATATAACCG
GTATA
Found at i:35542 original size:200 final size:197
Alignment explanation
Indices: 35144--35844 Score: 709
Period size: 200 Copynumber: 3.5 Consensus size: 197
35134 CCTAAATATA
* * * * *
35144 TGTCGATACATTT-TATACAAGTATCGA-CCCAAAAAAATCAAAACCAATAATTATAATTTAATA
1 TGTCGATACATTTAT-TAAAAGTATCGATCCCAAAAACATCGAAACCGATAATTATAATGTAATA
* * * * * *
35207 GGTAAATTAACAATGTAACCGGTATAAATATACCGATTAATTAGAAAACAGGTCAACATAATGTA
65 GGTAAATTTACAATGTAACCGGTATAAATATACGGTTTTATGAGAAAATAGGTC-ACATAATGTA
* * * * * *
35272 TCGACACTTGTGGAATTTGTGTCGATACTTATTGTCCAGGATGAATG-CACAAACGATGTGC-AC
129 TCGACACTTGT-AAATTTGTGTCGATACTTTTTGTCCAGAATTAATGCCA-AAAAG-GGTGCAAC
35335 GCATAAAG
191 -CATAAAG
* * *
35343 TGTTGATACATTTATTAAAAGTATCGATCCCAAAAACATCGAAACCGATAATTATAATGTATTAA
1 TGTCGATACATTTATTAAAAGTATCGATCCCAAAAACATCGAAACCGATAATTATAATGTAATAG
* * *
35408 GTAAATTTACAATGTAACCGATATAAATATACTGGTTTTATGATAAAATAGGTCAGCATAAAGTA
66 GTAAATTTACAATGTAACCGGTATAAATATAC-GGTTTTATGAGAAAATAGGTCA-CATAATGTA
*
35473 TCGGCACTTGCTAAATTTGTGTCGATA-TTTTTGGTCCAGAATTAATGCCAAAAAGGGTGCAACC
129 TCGACACTTG-TAAATTTGTGTCGATACTTTTT-GTCCAGAATTAATGCCAAAAAGGGTGCAACC
35537 ATAAAG
192 ATAAAG
* * * ** * * *
35543 TGTCGATACATTTATAAAAAGTATTGATTCCGGAAACATCGAAACCCATAAGTATAATATAATAG
1 TGTCGATACATTTATTAAAAGTATCGATCCCAAAAACATCGAAACCGATAATTATAATGTAATAG
* * * *
35608 GTAAATTTTCAATGTAACCGGTATAAATATACCGGTTTTATGAGAGAATATGTCTAAATAATGTA
66 GTAAATTTACAATGTAACCGGTATAAATATA-CGGTTTTATGAGAAAATAGGTC-ACATAATGTA
* * * **
35673 TCGACACTTTGTTAGTTTGTGTCGATACTTTTT-TCGAGAATGAAATATGAATGCCCAACCA-GG
129 TCGACAC-TTGTAAATTTGTGTCGATACTTTTTGTC---CA-G-AAT-T-AATG-CCAAAAAGGG
*
35736 TGCAAGCATAAAG
185 TGCAACCATAAAG
* ** *
35749 TGTCGATACATTTA--AAATTGTATCGATCTAAAAAACATCGAAACCGATAATAATAATGTAATA
1 TGTCGATACATTTATTAAA-AGTATCGATCCCAAAAACATCGAAACCGATAATTATAATGTAATA
* *
35812 GGTAAATTTGCAATGTTACCGGTATAAATATAC
65 GGTAAATTTACAATGTAACCGGTATAAATATAC
35845 CAGTTTACTT
Statistics
Matches: 419, Mismatches: 62, Indels: 37
0.81 0.12 0.07
Matches are distributed among these distances:
199 25 0.06
200 206 0.49
201 74 0.18
202 4 0.01
203 1 0.00
204 7 0.02
205 65 0.16
206 32 0.08
207 5 0.01
ACGTcount: A:0.39, C:0.14, G:0.16, T:0.31
Consensus pattern (197 bp):
TGTCGATACATTTATTAAAAGTATCGATCCCAAAAACATCGAAACCGATAATTATAATGTAATAG
GTAAATTTACAATGTAACCGGTATAAATATACGGTTTTATGAGAAAATAGGTCACATAATGTATC
GACACTTGTAAATTTGTGTCGATACTTTTTGTCCAGAATTAATGCCAAAAAGGGTGCAACCATAA
AG
Found at i:36002 original size:23 final size:23
Alignment explanation
Indices: 35952--35996 Score: 81
Period size: 23 Copynumber: 2.0 Consensus size: 23
35942 TGCCTATTTT
*
35952 ATTATATAAGCGCTACCTATTAC
1 ATTATATAAGCGCTACCTAATAC
35975 ATTATATAAGCGCTACCTAATA
1 ATTATATAAGCGCTACCTAATA
35997 TGTTATTGTT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.38, C:0.20, G:0.09, T:0.33
Consensus pattern (23 bp):
ATTATATAAGCGCTACCTAATAC
Found at i:36014 original size:87 final size:87
Alignment explanation
Indices: 35868--36029 Score: 279
Period size: 87 Copynumber: 1.9 Consensus size: 87
35858 AAATAGGTCA
*
35868 ATATAAGCGCTACCTATTACATTATATAAGAGTTACCTAATATGTTATTGTACTTGATAATATTT
1 ATATAAGCGCTACCTATTACATTATATAAGAGCTACCTAATATGTTATTGTACTTGATAATATTT
*
35933 CCGGTTAAATGCCTATTTTATT
66 CCGATTAAATGCCTATTTTATT
* *
35955 ATATAAGCGCTACCTATTACATTATATAAGCGCTACCTAATATGTTATTGTTCTTGATAATATTT
1 ATATAAGCGCTACCTATTACATTATATAAGAGCTACCTAATATGTTATTGTACTTGATAATATTT
*
36020 CTGATTAAAT
66 CCGATTAAAT
36030 TATATAACAT
Statistics
Matches: 70, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
87 70 1.00
ACGTcount: A:0.33, C:0.14, G:0.11, T:0.42
Consensus pattern (87 bp):
ATATAAGCGCTACCTATTACATTATATAAGAGCTACCTAATATGTTATTGTACTTGATAATATTT
CCGATTAAATGCCTATTTTATT
Found at i:38312 original size:24 final size:24
Alignment explanation
Indices: 38280--38326 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 24
38270 ATTAAATGAT
* *
38280 AAACGAACACAAACGAATGAACGC
1 AAACAAACACAAACGAACGAACGC
* *
38304 AAACAAACATAAATGAACGAACG
1 AAACAAACACAAACGAACGAACG
38327 TAAAATTAAT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.57, C:0.21, G:0.15, T:0.06
Consensus pattern (24 bp):
AAACAAACACAAACGAACGAACGC
Found at i:38521 original size:14 final size:14
Alignment explanation
Indices: 38502--38558 Score: 78
Period size: 14 Copynumber: 4.1 Consensus size: 14
38492 TGACCCGAAC
38502 ATAAACGAACATAA
1 ATAAACGAACATAA
*
38516 ATAAACGAACTTAA
1 ATAAACGAACATAA
* *
38530 ATGAACGAACTTAA
1 ATAAACGAACATAA
*
38544 ATGAACGAACATAA
1 ATAAACGAACATAA
38558 A
1 A
38559 CAAATATAAA
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
14 40 1.00
ACGTcount: A:0.58, C:0.14, G:0.11, T:0.18
Consensus pattern (14 bp):
ATAAACGAACATAA
Found at i:38530 original size:24 final size:24
Alignment explanation
Indices: 38497--38577 Score: 81
Period size: 24 Copynumber: 3.2 Consensus size: 24
38487 GAGATTGACC
38497 CGAACATAAACGAACATAAATAAA
1 CGAACATAAACGAACATAAATAAA
* * *
38521 CGAACTTAAATGAACGAACTTAAATGAA
1 CGAAC----ATAAACGAACATAAATAAA
* *
38549 CGAACATAAACAAATATAAATAAA
1 CGAACATAAACGAACATAAATAAA
38573 CGAAC
1 CGAAC
38578 GAATTATCGA
Statistics
Matches: 45, Mismatches: 8, Indels: 8
0.74 0.13 0.13
Matches are distributed among these distances:
24 24 0.53
28 21 0.47
ACGTcount: A:0.58, C:0.16, G:0.10, T:0.16
Consensus pattern (24 bp):
CGAACATAAACGAACATAAATAAA
Found at i:40360 original size:31 final size:31
Alignment explanation
Indices: 40310--40369 Score: 79
Period size: 31 Copynumber: 1.9 Consensus size: 31
40300 CCCGAAGGAC
*
40310 CAGTCCATAGATCCTGAAGAATC-TAGGTAAT
1 CAGTCCATAGATCCCGAAGAA-CATAGGTAAT
40341 CAGTCCATATG-TCCCGAAGAACATAGGTA
1 CAGTCCATA-GATCCCGAAGAACATAGGTA
40370 CTCTATAACT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
30 1 0.04
31 24 0.92
32 1 0.04
ACGTcount: A:0.35, C:0.22, G:0.20, T:0.23
Consensus pattern (31 bp):
CAGTCCATAGATCCCGAAGAACATAGGTAAT
Found at i:40396 original size:37 final size:37
Alignment explanation
Indices: 40346--40448 Score: 170
Period size: 37 Copynumber: 2.8 Consensus size: 37
40336 GTAATCAGTC
40346 CATATGTCCCGAAGAACATAGGTACTCTATAACTGTT
1 CATATGTCCCGAAGAACATAGGTACTCTATAACTGTT
* * *
40383 CATATGTCTCGAAGAACATAGGTAATCTGTAACTGTT
1 CATATGTCCCGAAGAACATAGGTACTCTATAACTGTT
40420 CATATGTCCCGAAGAACATAGGTAACTCT
1 CATATGTCCCGAAGAACATAGGT-ACTCT
40449 CGACTCTTGA
Statistics
Matches: 60, Mismatches: 5, Indels: 1
0.91 0.08 0.02
Matches are distributed among these distances:
37 56 0.93
38 4 0.07
ACGTcount: A:0.33, C:0.20, G:0.17, T:0.29
Consensus pattern (37 bp):
CATATGTCCCGAAGAACATAGGTACTCTATAACTGTT
Found at i:41292 original size:23 final size:23
Alignment explanation
Indices: 41266--41322 Score: 105
Period size: 23 Copynumber: 2.5 Consensus size: 23
41256 CCCTCTATAT
41266 GGTATCGGTACACCCCTAACTAG
1 GGTATCGGTACACCCCTAACTAG
*
41289 GGTATCGGTACACCCCTAACTGG
1 GGTATCGGTACACCCCTAACTAG
41312 GGTATCGGTAC
1 GGTATCGGTAC
41323 CCTGTCTAGG
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 33 1.00
ACGTcount: A:0.23, C:0.28, G:0.26, T:0.23
Consensus pattern (23 bp):
GGTATCGGTACACCCCTAACTAG
Found at i:42132 original size:11 final size:12
Alignment explanation
Indices: 42116--42148 Score: 50
Period size: 11 Copynumber: 2.8 Consensus size: 12
42106 ACTTTATACT
42116 AATAATTTAT-A
1 AATAATTTATCA
42127 AATAATTTATCA
1 AATAATTTATCA
*
42139 AATATTTTAT
1 AATAATTTAT
42149 TCATTTACAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
11 10 0.50
12 10 0.50
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (12 bp):
AATAATTTATCA
Found at i:49240 original size:133 final size:140
Alignment explanation
Indices: 49030--49432 Score: 461
Period size: 145 Copynumber: 2.9 Consensus size: 140
49020 AATCTATTTA
* * * * *
49030 TTATTATTATTTTTATAAAAATGTTTTTATATTTATTCA-TTTCCAATATCGAAGAGAATAGCTG
1 TTATTATTATTTTAAGAAAAATGTTTTTATATTTATTCATTTTTCAATATCGAAGAAAAGAGCTG
*
49094 TCTTAAGGCACCTAGAAACCCTTTTCTGATATTT-TCAAATAAATAAATATCTTA-TTATATTAA
66 TCTTAAGGCACCTAGAAGCCCTTTTCTGATATTTCT-AAATAAATAAATATCTTACTTATATTAA
49157 A-ATA-A-A-T
130 ATATATATATT
* * *
49164 TT-TTATT-TTTTAAG-AAAATGTTTTATTTATTTACTT-ATTTTTTAATATCAAAGAAAAGAGC
1 TTATTATTATTTTAAGAAAAATGTTTT-TATATTTA-TTCATTTTTCAATATCGAAGAAAAGAGC
*** * * * *
49225 TGTCTTAAAATACCTAGAAGCTCTTTTCTAATATTTCTAAATAAGTAAATATCTTACTTTTA-TA
64 TGTCTTAAGGCACCTAGAAGCCCTTTTCTGATATTTCTAAATAAATAAATATCTTACTTATATTA
49289 AATTATATATCTATTTTT
129 AA-TATATA--TA---TT
*
49307 TTATTATTATTTTTAGAAAAATGTTTTTATATTTATTCATTTTTCAATATCGAAGAAAAGAGCTG
1 TTATTATTATTTTAAGAAAAATGTTTTTATATTTATTCATTTTTCAATATCGAAGAAAAGAGCTG
* * *
49372 TCTTAAGGCACCTAGAAGTCATTTTCTGATATTTCTAAATAAATAAATATCTTATTTATAT
66 TCTTAAGGCACCTAGAAGCCCTTTTCTGATATTTCTAAATAAATAAATATCTTACTTATAT
49433 ATGTATATTA
Statistics
Matches: 219, Mismatches: 30, Indels: 28
0.79 0.11 0.10
Matches are distributed among these distances:
131 10 0.05
132 13 0.06
133 76 0.35
134 7 0.03
135 3 0.01
136 1 0.00
139 1 0.00
143 3 0.01
144 7 0.03
145 88 0.40
146 10 0.05
ACGTcount: A:0.36, C:0.10, G:0.08, T:0.46
Consensus pattern (140 bp):
TTATTATTATTTTAAGAAAAATGTTTTTATATTTATTCATTTTTCAATATCGAAGAAAAGAGCTG
TCTTAAGGCACCTAGAAGCCCTTTTCTGATATTTCTAAATAAATAAATATCTTACTTATATTAAA
TATATATATT
Found at i:49978 original size:10 final size:10
Alignment explanation
Indices: 49944--49979 Score: 54
Period size: 10 Copynumber: 3.5 Consensus size: 10
49934 TTTCAAAATT
49944 TTTATATATA
1 TTTATATATA
*
49954 TTTTTATAGTA
1 TTTATATA-TA
49965 TTTATATATA
1 TTTATATATA
49975 TTTAT
1 TTTAT
49980 TTCATTTTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
10 14 0.61
11 9 0.39
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.64
Consensus pattern (10 bp):
TTTATATATA
Found at i:54106 original size:2 final size:2
Alignment explanation
Indices: 54099--54192 Score: 188
Period size: 2 Copynumber: 47.0 Consensus size: 2
54089 TTATCCTTTA
54099 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
54141 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
54183 AT AT AT AT AT
1 AT AT AT AT AT
54193 CCTTTGTTGT
Statistics
Matches: 92, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 92 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:54511 original size:15 final size:16
Alignment explanation
Indices: 54486--54516 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
54476 CTCATCCAAC
54486 AAAGAAAGAAGAAAAA
1 AAAGAAAGAAGAAAAA
54502 AAAG-AAGAAGAAAAA
1 AAAGAAAGAAGAAAAA
54517 GGAAAATTGA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 11 0.73
16 4 0.27
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (16 bp):
AAAGAAAGAAGAAAAA
Found at i:56984 original size:114 final size:114
Alignment explanation
Indices: 56784--57123 Score: 581
Period size: 114 Copynumber: 3.0 Consensus size: 114
56774 AAGTGCCATG
*
56784 TGCTCATAGTAGAAATAAAAAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATC
1 TGCTCATAGTAGAAATAAGAAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATC
56849 TGATTTGGTATGAACCCCAAAACCAATCATTAGATTTGAAAGATGAATT
66 TGATTTGGTATGAACCCCAAAACCAATCATTAGATTTGAAAGATGAATT
56898 TGCTCATAGTAGAAATAAGAAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATC
1 TGCTCATAGTAGAAATAAGAAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATC
*
56963 TGATTTGGTATGAACCCCAAAACCAATCATTAGATTTGAAAGATGGATT
66 TGATTTGGTATGAACCCCAAAACCAATCATTAGATTTGAAAGATGAATT
* *
57012 TGCTCATAGTAGAAATAAGGAGACCTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATC
1 TGCTCATAGTAGAAATAAGAAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATC
* * * * * * *
57077 TGGTTCGGTAGGAACCCCAGAACCAATCATTGGAATTAAAAGATGAA
66 TGATTTGGTATGAACCCCAAAACCAATCATTAGATTTGAAAGATGAA
57124 CTGCATGATC
Statistics
Matches: 214, Mismatches: 12, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
114 214 1.00
ACGTcount: A:0.34, C:0.16, G:0.20, T:0.31
Consensus pattern (114 bp):
TGCTCATAGTAGAAATAAGAAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATC
TGATTTGGTATGAACCCCAAAACCAATCATTAGATTTGAAAGATGAATT
Found at i:59270 original size:54 final size:54
Alignment explanation
Indices: 59188--59353 Score: 269
Period size: 54 Copynumber: 3.1 Consensus size: 54
59178 CAATGATTGA
*
59188 GAACATCTGAGCAGAAACCACAGGAAAGGATGAATGTGTTGTCAAATGTTTTAC
1 GAACATCTGAGCAGAAACCACAGGAAAGGATGAATGTGTTGTCAAATATTTTAC
*
59242 GAACATCTGAGCAGAAACTACAGGAAAGGATGAATGTGTTGTCAAATATTTTAC
1 GAACATCTGAGCAGAAACCACAGGAAAGGATGAATGTGTTGTCAAATATTTTAC
* ** **
59296 GAACATCTGAGCAGAAGCCACAGGAAAGGATGAATACGCCGTCAAATATTTTAC
1 GAACATCTGAGCAGAAACCACAGGAAAGGATGAATGTGTTGTCAAATATTTTAC
59350 GAAC
1 GAAC
59354 CTGCTATTCT
Statistics
Matches: 104, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
54 104 1.00
ACGTcount: A:0.39, C:0.16, G:0.23, T:0.22
Consensus pattern (54 bp):
GAACATCTGAGCAGAAACCACAGGAAAGGATGAATGTGTTGTCAAATATTTTAC
Found at i:59737 original size:22 final size:22
Alignment explanation
Indices: 59711--59789 Score: 113
Period size: 22 Copynumber: 3.6 Consensus size: 22
59701 ACATCTACAT
59711 TCTTCAAAGATGATAGATTCTC
1 TCTTCAAAGATGATAGATTCTC
*
59733 TCTTCAAAGATGATAGATTCCC
1 TCTTCAAAGATGATAGATTCTC
* * *
59755 TTTTTAAAGATGACAGATTCTC
1 TCTTCAAAGATGATAGATTCTC
*
59777 TTTTCAAAGATGA
1 TCTTCAAAGATGA
59790 AAGCTTTATC
Statistics
Matches: 51, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 51 1.00
ACGTcount: A:0.33, C:0.16, G:0.14, T:0.37
Consensus pattern (22 bp):
TCTTCAAAGATGATAGATTCTC
Found at i:60395 original size:113 final size:113
Alignment explanation
Indices: 60197--60641 Score: 537
Period size: 113 Copynumber: 3.9 Consensus size: 113
60187 GATTTAAATC
* * **
60197 CATCATTCAATGGATCAACATTACCAGGTCGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
1 CATCATTCGATGGATCAACATTTCCAGGTAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
60262 AGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTCGCTTGAATT
66 AGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTCGCTTGAATT
*
60310 CATCATTCGATGGATCAACTTTTCCAGAG-AAAGTTCATAATGAGAAGAACTCATCTGAAGAAGG
1 CATCATTCGATGGATCAACATTTCCAG-GTAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGG
*
60374 AAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTTGCTTGAATT
65 AAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTCGCTTGAATT
* *
60423 CATCATTCGATGGATCAACATTGCCAGGTAGAGTTCATAATGAGAAGAACTCATCTGAAG-A-G-
1 CATCATTCGATGGATCAACATTTCCAGGTAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
* * **
60485 -GAAGAAGTTCATAATAAGAAGAACTTGTTAAACCTTTTGCTCGACTCTATCCCAGAAGGA
66 AGAAGAAGTTCATAATGAGAAGAACTTGTTCAA-C-TTT--TCG---CT-T----GAA-TT
* * * * *
60545 GATAAATC-AT-CATCAACATTTCCAGAG-AAAGTTCATAATAAGAAGAACTCATCTGAAGAAGG
1 CATCATTCGATGGATCAACATTTCCAG-GTAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGG
*
60607 AAGAAGAAGTTCATAATGAGAAGAGCTTGTTCAAC
65 AAGAAGAAGTTCATAATGAGAAGAACTTGTTCAAC
60642 CTTTGTTTGA
Statistics
Matches: 288, Mismatches: 24, Indels: 30
0.84 0.07 0.09
Matches are distributed among these distances:
109 30 0.10
110 1 0.00
111 4 0.01
112 2 0.01
113 162 0.56
114 1 0.00
116 2 0.01
117 1 0.00
120 42 0.15
121 7 0.02
122 6 0.02
123 1 0.00
124 29 0.10
ACGTcount: A:0.38, C:0.16, G:0.20, T:0.26
Consensus pattern (113 bp):
CATCATTCGATGGATCAACATTTCCAGGTAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
AGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTCGCTTGAATT
Found at i:60622 original size:233 final size:225
Alignment explanation
Indices: 60197--60641 Score: 603
Period size: 233 Copynumber: 1.9 Consensus size: 225
60187 GATTTAAATC
*
60197 CATCATTCAATGGATCAACATTACCAGGTCGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
1 CATCATTCAATGGATCAACATTACCAGGTAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGG-
* * ** * * *
60262 AGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTCGCTTGAATTCATCATTCGATGGATCA
65 AGAAGAAGTTCATAATAAGAAGAACTTGTTAAACTTTTCGCTTGAAGACATAAATCGATGCATCA
* *
60327 ACTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATG
130 ACATTTCCAGAGAAAGTTCATAATAAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATG
60392 AGAAGAACTTGTTCAACTTTTTGCTTGAATT
195 AGAAGAACTTGTTCAACTTTTTGCTTGAATT
* *
60423 CATCATTCGATGGATCAACATTGCCAGGTAGAGTTCATAATGAGAAGAACTCATCTGAAG-A-G-
1 CATCATTCAATGGATCAACATTACCAGGTAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
*
60485 GAAGAAGTTCATAATAAGAAGAACTTGTTAAACCTTTTGCTCGACTCTATCCCAGAAGGAGATAA
66 GAAGAAGTTCATAATAAGAAGAACTTGTTAAA-C-TTT--TCG---CT-T----GAA-GACATAA
60550 ATC-AT-CATCAACATTTCCAGAGAAAGTTCATAATAAGAAGAACTCATCTGAAGAAGGAAGAAG
118 ATCGATGCATCAACATTTCCAGAGAAAGTTCATAATAAGAAGAACTCATCTGAAGAAGGAAGAAG
*
60613 AAGTTCATAATGAGAAGAGCTTGTTCAAC
183 AAGTTCATAATGAGAAGAACTTGTTCAAC
60642 CTTTGTTTGA
Statistics
Matches: 192, Mismatches: 14, Indels: 19
0.85 0.06 0.08
Matches are distributed among these distances:
222 30 0.16
223 1 0.01
224 4 0.02
225 1 0.01
226 60 0.31
229 2 0.01
230 1 0.01
233 83 0.43
234 5 0.03
235 5 0.03
ACGTcount: A:0.38, C:0.16, G:0.20, T:0.26
Consensus pattern (225 bp):
CATCATTCAATGGATCAACATTACCAGGTAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
GAAGAAGTTCATAATAAGAAGAACTTGTTAAACTTTTCGCTTGAAGACATAAATCGATGCATCAA
CATTTCCAGAGAAAGTTCATAATAAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGA
GAAGAACTTGTTCAACTTTTTGCTTGAATT
Found at i:60699 original size:123 final size:124
Alignment explanation
Indices: 60436--60733 Score: 401
Period size: 123 Copynumber: 2.4 Consensus size: 124
60426 CATTCGATGG
* ** * *
60436 ATCAACATTGCCAGGTAGAGTTCATAATGAGAAGAACTCATCTGAAG-A-G--GAAGAAGTTCAT
1 ATCAACATTTCCAGAAAAAGTTCATAATAAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCAT
*
60497 AATAAGAAGAACTTGTTAAACCTTTTGCTCGACTCTATCCCAGAAGGAGATAAATCATC
66 AATAAGAAGAACTTGTTAAACCTTTTGCTCGACTCTATCACAGAAGGAGATAAATCATC
*
60556 ATCAACATTTCCAGAGAAAGTTCATAATAAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCAT
1 ATCAACATTTCCAGAAAAAGTTCATAATAAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCAT
* * * * * * * *
60621 AATGAGAAGAGCTTGTTCAACC-TTTGTTTGATTCTATCACAGAATGAGATAGATCAGT-
66 AATAAGAAGAACTTGTTAAACCTTTTGCTCGACTCTATCACAGAAGGAGATAAATCA-TC
*
60679 ATCAACATTTCCATAAAAAGTTCATAATAAGAAGAACTCATCTGAAGAAGGAAGA
1 ATCAACATTTCCAGAAAAAGTTCATAATAAGAAGAACTCATCTGAAGAAGGAAGA
60734 GAATTTGTTC
Statistics
Matches: 157, Mismatches: 16, Indels: 7
0.87 0.09 0.04
Matches are distributed among these distances:
120 42 0.27
121 1 0.01
122 1 0.01
123 81 0.52
124 32 0.20
ACGTcount: A:0.41, C:0.15, G:0.18, T:0.25
Consensus pattern (124 bp):
ATCAACATTTCCAGAAAAAGTTCATAATAAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCAT
AATAAGAAGAACTTGTTAAACCTTTTGCTCGACTCTATCACAGAAGGAGATAAATCATC
Found at i:60931 original size:103 final size:101
Alignment explanation
Indices: 60621--60932 Score: 317
Period size: 102 Copynumber: 3.0 Consensus size: 101
60611 AGAAGTTCAT
* * * *
60621 AATGAGAAGAGCTTGTTCAACC-TTTGTTTGATTCTATCACAGAATGAGATAGATCAGTATCAAC
1 AATGAGGAGAACTTGTTCAACCTTTTGCTTGATTCTATCACAGAA-G-G-TAGATCA-AATCAAC
*
60685 ATTTCCATAAAAAGTTCATAATAAGAAGAACTCATCTGAAG
62 -TTTCCAGAAAAAGTTCATAATAAGAAGAACTCATCTGAAG
* * * * * * *** *
60726 AAGGAAGAGAATTTGTTCAACTTTTTGCTAGATTAC-ATCACAGAA-GAAGAT-AAATTGTCATC
1 AATGAGGAGAACTTGTTCAACCTTTTGCTTGATT-CTATCACAGAAGGTAGATCAAATCAAC-TT
* *
60788 CCCAGCGAAAAAGTTCATAATAAGAAGAACTCATCAGAAG
64 TCCA--GAAAAAGTTCATAATAAGAAGAACTCATCTGAAG
*
60828 AATGAGGAGAACTTGTTCAACCTTTTGCTTGATTCTATCACATAAGGTAGATCAACATCAACTTT
1 AATGAGGAGAACTTGTTCAACCTTTTGCTTGATTCTATCACAGAAGGTAGATCAA-ATCAACTTT
* *
60893 GCCAGAAGAAGTTCATAATGAGAAGAACTCATCTGAAG
65 -CCAGAAAAAGTTCATAATAAGAAGAACTCATCTGAAG
60931 AA
1 AA
60933 GAAGAAGTTC
Statistics
Matches: 166, Mismatches: 32, Indels: 20
0.76 0.15 0.09
Matches are distributed among these distances:
100 8 0.05
101 2 0.01
102 73 0.44
103 39 0.23
104 3 0.02
105 22 0.13
106 18 0.11
107 1 0.01
ACGTcount: A:0.39, C:0.16, G:0.17, T:0.27
Consensus pattern (101 bp):
AATGAGGAGAACTTGTTCAACCTTTTGCTTGATTCTATCACAGAAGGTAGATCAAATCAACTTTC
CAGAAAAAGTTCATAATAAGAAGAACTCATCTGAAG
Found at i:62823 original size:133 final size:137
Alignment explanation
Indices: 62622--63013 Score: 439
Period size: 143 Copynumber: 2.9 Consensus size: 137
62612 ATTATTATTA
* * *
62622 TTTTTAT--AAAAATGATTTTATATTTATTCA-TTTTCAATATCGAAGAGAATAGCTGTCTTAAG
1 TTTTTATAGAAAAATGTTTTTATATTTATTCATTTTTCAATATCGAAGAAAAGAGCTGTCTTAAG
*
62684 GCACCTAGAAACCCTTTTATGATATTT-TCAAATAAATAAATATCTTA-TTATATTAAA-ATA-A
66 GCACCTAGAAGCCCTTTTATGATATTTCT-AAATAAATAAATATCTTACTTATATTAAATATATA
62745 -ATTTTTAT
130 TATTTTT-T
* * *
62753 TTTTTA-AG-AAAATGTTTTATTTATTTACTT-ATTTTTTAATATCAAAGAAAAGAGCTGTCTTA
1 TTTTTATAGAAAAATGTTTT-TATATTTA-TTCATTTTTCAATATCGAAGAAAAGAGCTGTCTTA
*** * * * *
62815 AAATACCTAGAAGCTCTTTTCTGATATTTCTAAATAAGTAAATATCTTACTTTTA-TAAATTATA
64 AGGCACCTAGAAGCCCTTTTATGATATTTCTAAATAAATAAATATCTTACTTATATTAAA-TATA
62879 TATCTATTTTTT
128 TA--TATTTTTT
62891 TTTTTATTTTTAGAAAAATGTTTTTATATTTATTCATTTTTCAATATCGAAGAAAAGAGCTGTCT
1 TTTTTA----TAGAAAAATGTTTTTATATTTATTCATTTTTCAATATCGAAGAAAAGAGCTGTCT
* * * *
62956 TAAGGCACCTAGAAGTCATTTTTTGATATTTCTAAATAAATAAATATCTTATTTATAT
62 TAAGGCACCTAGAAGCCCTTTTATGATATTTCTAAATAAATAAATATCTTACTTATAT
63014 ATGTATATTA
Statistics
Matches: 213, Mismatches: 27, Indels: 29
0.79 0.10 0.11
Matches are distributed among these distances:
131 15 0.07
132 8 0.04
133 72 0.34
134 5 0.02
135 3 0.01
136 1 0.00
138 7 0.03
139 6 0.03
142 2 0.01
143 84 0.39
144 10 0.05
ACGTcount: A:0.36, C:0.09, G:0.08, T:0.46
Consensus pattern (137 bp):
TTTTTATAGAAAAATGTTTTTATATTTATTCATTTTTCAATATCGAAGAAAAGAGCTGTCTTAAG
GCACCTAGAAGCCCTTTTATGATATTTCTAAATAAATAAATATCTTACTTATATTAAATATATAT
ATTTTTT
Found at i:62893 original size:143 final size:143
Alignment explanation
Indices: 62569--63014 Score: 435
Period size: 143 Copynumber: 3.2 Consensus size: 143
62559 TTATATATAT
* * *
62569 TAAATAAATATCTTACATT-TATAAATTATATAT-TAATCTATTTATTATTATTATTTTTATAAA
1 TAAATAAATATCTTA-TTTATATAAATTATATATCT-AT-T-TTT-TT-TT-TTATTTTAAGAAA
* * * * ** **
62632 AATGATTTTATATTTATTCA-TTTTCAATATCGAAGAGAATAGCTGTCTTAAGGCACCTAGAAAC
59 AATGTTTTTATATTTATTCATTTTTCAATATCAAAGAAAAGAGCTGTCTTAAAACACCTAGAAGT
* *
62696 CCTTTTATGATATTT-TCAAA
124 CATTTTCTGATATTTCT-AAA
*
62716 TAAATAAATATCTTA-TTATATTAAA--ATA-A---A---TTTTTATT-TTTTAAG-AAAATGTT
1 TAAATAAATATCTTATTTATA-TAAATTATATATCTATTTTTTTTTTTATTTTAAGAAAAATGTT
* * *
62769 TTATTTATTTACTT-ATTTTTTAATATCAAAGAAAAGAGCTGTCTTAAAATACCTAGAAGCTC-T
65 TT-TATATTTA-TTCATTTTTCAATATCAAAGAAAAGAGCTGTCTTAAAACACCTAGAAG-TCAT
62832 TTTCTGATATTTCTAAA
127 TTTCTGATATTTCTAAA
* *
62849 TAAGTAAATATCTTACTTT-TATAAATTATATATCTATTTTTTTTTTTATTTTTAGAAAAATGTT
1 TAAATAAATATCTTA-TTTATATAAATTATATATCTATTTTTTTTTTTATTTTAAGAAAAATGTT
* **
62913 TTTATATTTATTCATTTTTCAATATCGAAGAAAAGAGCTGTCTTAAGGCACCTAGAAGTCATTTT
65 TTTATATTTATTCATTTTTCAATATCAAAGAAAAGAGCTGTCTTAAAACACCTAGAAGTCATTTT
*
62978 TTGATATTTCTAAA
130 CTGATATTTCTAAA
62992 TAAATAAATATCTTATTTATATA
1 TAAATAAATATCTTATTTATATA
63015 TGTATATTAA
Statistics
Matches: 250, Mismatches: 26, Indels: 50
0.77 0.08 0.15
Matches are distributed among these distances:
131 9 0.04
132 13 0.05
133 72 0.29
134 5 0.02
135 7 0.03
136 3 0.01
139 1 0.00
141 1 0.00
142 14 0.06
143 88 0.35
144 11 0.04
145 5 0.02
146 2 0.01
147 19 0.08
ACGTcount: A:0.37, C:0.09, G:0.07, T:0.46
Consensus pattern (143 bp):
TAAATAAATATCTTATTTATATAAATTATATATCTATTTTTTTTTTTATTTTAAGAAAAATGTTT
TTATATTTATTCATTTTTCAATATCAAAGAAAAGAGCTGTCTTAAAACACCTAGAAGTCATTTTC
TGATATTTCTAAA
Found at i:73400 original size:16 final size:16
Alignment explanation
Indices: 73379--73429 Score: 75
Period size: 16 Copynumber: 3.2 Consensus size: 16
73369 TTACCCGACC
73379 TGTTTTCAACCTGACT
1 TGTTTTCAACCTGACT
*
73395 TGTTTTCAACCTGACA
1 TGTTTTCAACCTGACT
* *
73411 TGTTTTTAACATGACT
1 TGTTTTCAACCTGACT
73427 TGT
1 TGT
73430 AAATGATCCG
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 31 1.00
ACGTcount: A:0.22, C:0.20, G:0.14, T:0.45
Consensus pattern (16 bp):
TGTTTTCAACCTGACT
Found at i:73706 original size:14 final size:14
Alignment explanation
Indices: 73684--73730 Score: 50
Period size: 14 Copynumber: 3.7 Consensus size: 14
73674 TGCAAAGGAA
*
73684 AATTAATATAGTTT
1 AATTTATATAGTTT
73698 AATTTATATA----
1 AATTTATATAGTTT
73708 AA-TTATATAGTTT
1 AATTTATATAGTTT
73721 AATTTATATA
1 AATTTATATA
73731 AAAAATAATA
Statistics
Matches: 27, Mismatches: 1, Indels: 10
0.71 0.03 0.26
Matches are distributed among these distances:
9 7 0.26
10 2 0.07
13 2 0.07
14 16 0.59
ACGTcount: A:0.45, C:0.00, G:0.04, T:0.51
Consensus pattern (14 bp):
AATTTATATAGTTT
Found at i:73717 original size:23 final size:24
Alignment explanation
Indices: 73683--73732 Score: 93
Period size: 23 Copynumber: 2.1 Consensus size: 24
73673 ATGCAAAGGA
73683 AAATTAATATAGTTTAATTTATAT
1 AAATTAATATAGTTTAATTTATAT
73707 AAATT-ATATAGTTTAATTTATAT
1 AAATTAATATAGTTTAATTTATAT
73730 AAA
1 AAA
73733 AAATAATATT
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
23 21 0.81
24 5 0.19
ACGTcount: A:0.48, C:0.00, G:0.04, T:0.48
Consensus pattern (24 bp):
AAATTAATATAGTTTAATTTATAT
Found at i:75170 original size:22 final size:20
Alignment explanation
Indices: 75136--75179 Score: 54
Period size: 22 Copynumber: 2.1 Consensus size: 20
75126 ATATATAAAT
75136 ATAGTTTATATACACT-ATAC
1 ATAGTTTATATACA-TGATAC
75156 ATAGTTTATACATACATGATAC
1 ATAGTTTAT--ATACATGATAC
75178 AT
1 AT
75180 GTACTATAAG
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
20 9 0.43
21 1 0.05
22 11 0.52
ACGTcount: A:0.41, C:0.14, G:0.07, T:0.39
Consensus pattern (20 bp):
ATAGTTTATATACATGATAC
Found at i:75520 original size:20 final size:20
Alignment explanation
Indices: 75495--75560 Score: 53
Period size: 20 Copynumber: 3.2 Consensus size: 20
75485 ATAAGTTACA
75495 TATATAGTTTACATTACATG
1 TATATAGTTTACATTACATG
* * **
75515 TATATA-TATACTATAAGTCACA
1 TATATAGTTTAC-ATTA--CATG
*
75537 TATATAGTTTACATTATATG
1 TATATAGTTTACATTACATG
75557 TATA
1 TATA
75561 CACACACTAT
Statistics
Matches: 33, Mismatches: 9, Indels: 8
0.66 0.18 0.16
Matches are distributed among these distances:
19 4 0.12
20 14 0.42
22 11 0.33
23 4 0.12
ACGTcount: A:0.39, C:0.09, G:0.08, T:0.44
Consensus pattern (20 bp):
TATATAGTTTACATTACATG
Found at i:75530 original size:42 final size:42
Alignment explanation
Indices: 75484--75583 Score: 155
Period size: 42 Copynumber: 2.4 Consensus size: 42
75474 TGTACTTACA
* * *
75484 TATAAGTTACATATATAGTTTACATTACATGTATATATATAC
1 TATAAGTTACATATATAGTTTACATTACATGTATACACACAC
* *
75526 TATAAGTCACATATATAGTTTACATTATATGTATACACACAC
1 TATAAGTTACATATATAGTTTACATTACATGTATACACACAC
75568 TATAAGTTACATATAT
1 TATAAGTTACATATAT
75584 TAACTATTGT
Statistics
Matches: 52, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 52 1.00
ACGTcount: A:0.41, C:0.12, G:0.07, T:0.40
Consensus pattern (42 bp):
TATAAGTTACATATATAGTTTACATTACATGTATACACACAC
Found at i:76860 original size:16 final size:17
Alignment explanation
Indices: 76841--76880 Score: 55
Period size: 18 Copynumber: 2.4 Consensus size: 17
76831 CTGTTTTAAA
76841 TATTTTGTTT-TTATTT
1 TATTTTGTTTCTTATTT
*
76857 TATTTTGTTTCGTTTTTT
1 TATTTTGTTTC-TTATTT
76875 TATTTT
1 TATTTT
76881 TTATGATTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 10 0.48
18 11 0.52
ACGTcount: A:0.10, C:0.03, G:0.07, T:0.80
Consensus pattern (17 bp):
TATTTTGTTTCTTATTT
Found at i:82485 original size:84 final size:80
Alignment explanation
Indices: 82165--83409 Score: 1113
Period size: 84 Copynumber: 15.3 Consensus size: 80
82155 TGCAATATAG
* * * *
82165 CTTAAGACAAGAAGGGTTATTTGCCAACCAAAGACCTTCGAGTTCGACTACACTCAGCTCCAAGG
1 CTTAAGTCTAGAAGGGTTATCTG-C-A-CAAAGACCTTCGAGTTCGACTACGCTCAGCT-CAAGG
*
82230 CACATCATTTGCAGCATAG
62 CACATCATTTGCAGCATAA
* ** * * * * *
82249 CTTAAGTCGAGAAGGGTTATCTGC-CAAAGACCCCCGAGTTCGATTACACTCAACTTTGAGGGCA
1 CTTAAGTCTAGAAGGGTTATCTGCACAAAGACCTTCGAGTTCGACTACGCTCAGC--TCAAGGCA
* *
82313 TATCATTTACAGCATAA
64 CATCATTTGCAGCATAA
* * *
82330 CTCAAGGCTAGAAGGGTTATCTGTCACCAAAGACCTTTGAGTTCGACTACGCTCAGCTCCAAGGC
1 CTTAAGTCTAGAAGGGTTATCTG-CA-CAAAGACCTTCGAGTTCGACTACGCTCAGCT-CAAGGC
* *
82395 ATATCATTTGCAGCACAA
63 ACATCATTTGCAGCATAA
* ** * *
82413 CTTAAGTCTAGAAGGGTTGTCTGCCAACAAAAGACCTTTAAGTTTGACTATGCTCAGCTCAACGG
1 CTTAAGTCTAGAAGGGTTATCTG-C-AC-AAAGACCTTCGAGTTCGACTACGCTCAGCTCAA-GG
*
82478 CACATCATTTGCAACATAA
62 CACATCATTTGCAGCATAA
* * *
82497 CTTAA-TTTGAGAAGGGCTATCTAC-CAAAGACCTTCGAGTTCGA-TACGCTCAGCTCCAAGGCA
1 CTTAAGTCT-AGAAGGGTTATCTGCACAAAGACCTTCGAGTTCGACTACGCTCAGCT-CAAGGCA
* *
82559 CATTATTTGCAGCATAG
64 CATCATTTGCAGCATAA
* * * * * * * *
82576 CTTAAGTCGAGAAGGGCTAT-TGC-CAAATACC-CCGAGTTCGATTACACTCAGCTTCGAGGGTA
1 CTTAAGTCTAGAAGGGTTATCTGCACAAAGACCTTCGAGTTCGACTACGCTCAGC-TC-AAGGCA
* *
82638 TATCATTTACAGCATAA
64 CATCATTTGCAGCATAA
* * * *
82655 CTCAAGGCTAGAAGGGTTATTTGTCACCAAATACCTTCGAGTTCGACTACGCTCAGCTCCAAGGC
1 CTTAAGTCTAGAAGGGTTATCTG-CA-CAAAGACCTTCGAGTTCGACTACGCTCAGCT-CAAGGC
* * *
82720 ATATCATTTGTAGCACAA
63 ACATCATTTGCAGCATAA
* * * *
82738 CTTAAGTCTAGAAGGGTTGTCTGCCAACAAAAAACCTTTGAGTTCAACTA--CTCAGCTCAACGG
1 CTTAAGTCTAGAAGGGTTATCTG-C-AC-AAAGACCTTCGAGTTCGACTACGCTCAGCTCAA-GG
* *
82801 C-CATCATTTGTAGCATAG
62 CACATCATTTGCAGCATAA
* *
82819 CTTAAGTCGAGAAGGGTTATCTGC-CAAAGACCTTCGAGTTCGACTATGCTCAGCTCAACGGCAC
1 CTTAAGTCTAGAAGGGTTATCTGCACAAAGACCTTCGAGTTCGACTACGCTCAGCTCAA-GGCAC
*
82883 ATCATTTGTAGCATAA
65 ATCATTTGCAGCATAA
* *
82899 CTTAAGTCGAGAAGGGCTATCTGC-CAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCAC
1 CTTAAGTCTAGAAGGGTTATCTGCACAAAGACCTTCGAGTTCGACTACGCTCAGCT-CAAGGCAC
* *
82963 ATCATTTGCAACATAG
65 ATCATTTGCAGCATAA
* * ** * * *
82979 CTTAAGTCGAGAAGGGCTATCTGC-CAAAGACCCCCGAGTTCGATTACACTCAGCTTCGAGGGCA
1 CTTAAGTCTAGAAGGGTTATCTGCACAAAGACCTTCGAGTTCGACTACGCTCAGC-TC-AAGGCA
* *
83043 TATCATTTACAGCATAA
64 CATCATTTGCAGCATAA
* * * *
83060 CTCAAGGCTAGAAGGGTTATATGTCACCAAAGACCTTTGAGTTCGACTACGCTCAGCTCCAAGGC
1 CTTAAGTCTAGAAGGGTTATCTG-CA-CAAAGACCTTCGAGTTCGACTACGCTCAGCT-CAAGGC
* *
83125 ATATCATTTGCAGCACAA
63 ACATCATTTGCAGCATAA
* * *
83143 CTTAAGTCTAGAAGGGTTGTCTGCCAATAAAAGACCTTTGAGTTCGACTACGCTCAGCTCAACGG
1 CTTAAGTCTAGAAGGGTTATCTG-C-A-CAAAGACCTTCGAGTTCGACTACGCTCAGCTCAA-GG
*
83208 CACATCATTTGCAGCATAG
62 CACATCATTTGCAGCATAA
* * * * * *
83227 TTTAAGTCGAGAAGGGCTATCTGCA-AAAGACTTTCGAGTTCGATTACGCTCAGCTCTAAGGCAT
1 CTTAAGTCTAGAAGGGTTATCTGCACAAAGACCTTCGAGTTCGACTACGCTCAGCTC-AAGGCAC
**
83291 ATCATTTATAGCATAA
65 ATCATTTGCAGCATAA
* * * * * * *
83307 C-CAAGACT-GAAAGGGTTGT-TGTCGCCAGAGACCTTCGAGTTTGACTACGCTCAACTCCAAGG
1 CTTAAGTCTAG-AAGGGTTATCTG-C-ACAAAGACCTTCGAGTTCGACTACGCTCAGCT-CAAGG
* *
83369 CACATCATTTGCAGTATAG
62 CACATCATTTGCAGCATAA
*
83388 CTTAAGT-TGAGAAGGGCTATCT
1 CTTAAGTCT-AGAAGGGTTATCT
83410 ACTAACCGAA
Statistics
Matches: 959, Mismatches: 156, Indels: 93
0.79 0.13 0.08
Matches are distributed among these distances:
77 27 0.03
78 23 0.02
79 104 0.11
80 231 0.24
81 166 0.17
82 26 0.03
83 144 0.15
84 238 0.25
ACGTcount: A:0.30, C:0.24, G:0.20, T:0.26
Consensus pattern (80 bp):
CTTAAGTCTAGAAGGGTTATCTGCACAAAGACCTTCGAGTTCGACTACGCTCAGCTCAAGGCACA
TCATTTGCAGCATAA
Found at i:83117 original size:489 final size:482
Alignment explanation
Indices: 82174--83409 Score: 1357
Period size: 489 Copynumber: 2.5 Consensus size: 482
82164 GCTTAAGACA
*
82174 AGAAGGGTTATTTGCCAACCAAAGACCTTCGAGTTCGACTACACTCAGCTCCAAGGCACATCATT
1 AGAAGGGTTATTTGCCAACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATT
*** *
82239 TGCAGCATAGCTTAAGTCGAGAAGGGTTATCTGCC-AAAGACCCCCGAGTTCGATTAC-ACTCAA
66 TGCAGCATAGCTTAAGTCGAGAAGGGTTATCTGCCAAAAGACCTTTGAGTTC-A--ACTACTCAG
* * * * *
82302 CTTTGAGGGCATATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTCACCAAAGACCTT
128 C--TCAAGGCATATCATTTATAGCATAACTCAAGACGAGAAGGGTTATCTG---CCAAAGACCTT
* * * * * *
82367 TGAGTTCGACTACGCTCAGCTCCAAGGCATATCATTTGCAGCACAACTTAAGTCTAGAAGGGTTG
188 CGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAACTTAAGTCGAGAAGGGCTA
* * *
82432 TCTGCCAACAAAAGACCTTTAAGTTTGACTATGCTCAGCTCAACGGCACATCATTTGCAACATAA
253 TCTGCC-ACAAAAGACCTTCAAGTTCGACTACGCTCAGCTCAACGGCACATCATTTGCAACATAA
* * ** *
82497 CTTAATTTGAGAAGGGCTATCTACCAAAGACCTTCGAGTTCGATACGCTCAGCTCCAAGGCACAT
317 CTTAAGTCGAGAAGGGCTATCTACCAAAGACCCCCGAGTTCGATACACTCAGCTCCAAGGCACAT
* * * * * * *
82562 TATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATTGCCAAATACCCCGAGTTCGATTACACTCAG
382 CATTTACAGCATAACTCAAGGCGAGAAGGGCTATTGCCAAAGACCCCGAGTTCGACTACACTCAG
* * * *
82627 CTTCGAGGGTATATCATTTACAGCATAACTCAAGGCT
447 C-TCCAAGGCATATCATTTACAGCACAACTCAAGGCT
* * *
82664 AGAAGGGTTATTTGTC-ACCAAATACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCATATCATT
1 AGAAGGGTTATTTGCCAACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATT
* * * * * *
82728 TGTAGCACAACTTAAGTCTAGAAGGGTTGTCTGCCAACAAAAAACCTTTGAGTTCAACTACTCAG
66 TGCAGCATAGCTTAAGTCGAGAAGGGTTATCTG-C--CAAAAGACCTTTGAGTTCAACTACTCAG
* * * * *
82793 CTCAACGGC-CATCATTTGTAGCATAGCTTAAGTCGAGAAGGGTTATCTGCCAAAGACCTTCGAG
128 CTCAA-GGCATATCATTTATAGCATAACTCAAGACGAGAAGGGTTATCTGCCAAAGACCTTCGAG
* *
82857 TTCGACTATGCTCAGCT-CAACGGCACATCATTTGTAGCATAACTTAAGTCGAGAAGGGCTATCT
192 TTCGACTACGCTCAGCTCCAA-GGCACATCATTTGCAGCATAACTTAAGTCGAGAAGGGCTATCT
* *
82921 G-C-C-AAAGACCTTCGAGTTCGACTACGCTCAGCTCCAA-GGCACATCATTTGCAACATAGCTT
256 GCCACAAAAGACCTTCAAGTTCGACTACGCTCAGCT-CAACGGCACATCATTTGCAACATAACTT
* * * *
82982 AAGTCGAGAAGGGCTATCTGCCAAAGACCCCCGAGTTCGATTACACTCAGCTTCGAGGGCATATC
320 AAGTCGAGAAGGGCTATCTACCAAAGACCCCCGAGTTCGA-TACACTCAGC-TCCAAGGCACATC
* * ** *
83047 ATTTACAGCATAACTCAAGGCTAGAAGGGTTATATGTCACCAAAGACCTTTGAGTTCGACTACGC
383 ATTTACAGCATAACTCAAGGCGAGAAGGGCTAT-TG---CCAAAGACC-CCGAGTTCGACTACAC
* * *
83112 TCAGCTCCAAGGCATATCATTTGCAGCACAACTTAAGTCT
443 TCAGCTCCAAGGCATATCATTTACAGCACAACTCAAGGCT
* * ** *
83152 AGAAGGGTTGTCTGCCAATAAAAGACCTTTGAGTTCGACTACGCTCAGCT-CAACGGCACATCAT
1 AGAAGGGTTATTTGCCAACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAA-GGCACATCAT
* * * *
83216 TTGCAGCATAGTTTAAGTCGAGAAGGGCTATCTG-CAAAAGA-CTTTCGAGTTCGATTACGCTCA
65 TTGCAGCATAGCTTAAGTCGAGAAGGGTTATCTGCCAAAAGACCTTT-GAGTTCAACTA--CTCA
* * *
83279 GCTCTAAGGCATATCATTTATAGCATAAC-CAAGACTGA-AAGGGTTGTTGTCGCCAGAGACCTT
127 GCTC-AAGGCATATCATTTATAGCATAACTCAAGAC-GAGAAGGGTT-ATCT-GCCAAAGACCTT
* * * * *
83342 CGAGTTTGACTACGCTCAACTCCAAGGCACATCATTTGCAGTATAGCTTAAGTTGAGAAGGGCTA
188 CGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAACTTAAGTCGAGAAGGGCTA
83407 TCT
253 TCT
83410 ACTAACCGAA
Statistics
Matches: 623, Mismatches: 97, Indels: 53
0.81 0.13 0.07
Matches are distributed among these distances:
482 84 0.13
483 13 0.02
484 40 0.06
485 21 0.03
486 68 0.11
487 22 0.04
488 73 0.12
489 258 0.41
490 24 0.04
491 6 0.01
492 2 0.00
493 12 0.02
ACGTcount: A:0.30, C:0.24, G:0.20, T:0.26
Consensus pattern (482 bp):
AGAAGGGTTATTTGCCAACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATT
TGCAGCATAGCTTAAGTCGAGAAGGGTTATCTGCCAAAAGACCTTTGAGTTCAACTACTCAGCTC
AAGGCATATCATTTATAGCATAACTCAAGACGAGAAGGGTTATCTGCCAAAGACCTTCGAGTTCG
ACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAACTTAAGTCGAGAAGGGCTATCTGCCAC
AAAAGACCTTCAAGTTCGACTACGCTCAGCTCAACGGCACATCATTTGCAACATAACTTAAGTCG
AGAAGGGCTATCTACCAAAGACCCCCGAGTTCGATACACTCAGCTCCAAGGCACATCATTTACAG
CATAACTCAAGGCGAGAAGGGCTATTGCCAAAGACCCCGAGTTCGACTACACTCAGCTCCAAGGC
ATATCATTTACAGCACAACTCAAGGCT
Found at i:83268 original size:164 final size:163
Alignment explanation
Indices: 82165--83409 Score: 1129
Period size: 164 Copynumber: 7.6 Consensus size: 163
82155 TGCAATATAG
* * * *
82165 CTTAAGACAAGAAGGGTTATTTGCCAACCAAAGACCTTCGAGTTCGACTACACTCAGCTCCAAGG
1 CTTAAGTCTAGAAGGGTTATCTGCC-ACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGG
* * * *** *
82230 CACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGTTATCTGCCAAAGACCCCCGAGTTCGATTA
65 CACATCATTTGCAGCATAACTTAAGTCGAGAAGGGCTATCTGCAAAAGACTTTCGAGTTCGACTA
* * ** * *
82295 CACTCAACTTTGAGGGCATATCATTTACAGCATAA
130 CGCTCAGC-TCCAAGGCATATCATTTGCAGCATAA
* * * *
82330 CTCAAGGCTAGAAGGGTTATCTGTCACCAAAGACCTTTGAGTTCGACTACGCTCAGCTCCAAGGC
1 CTTAAGTCTAGAAGGGTTATCTGCCACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGC
* * * * * * *
82395 ATATCATTTGCAGCACAACTTAAGTCTAGAAGGGTTGTCTGCCAACAAAAGACCTTT-AAGTTTG
66 ACATCATTTGCAGCATAACTTAAGTCGAGAAGGGCTATCTG----CAAAAGA-CTTTCGAGTTCG
* * *
82459 ACTATGCTCAGCT-CAACGGCACATCATTTGCAACATAA
126 ACTACGCTCAGCTCCAA-GGCATATCATTTGCAGCATAA
* *
82497 CTTAA-TTTGAGAAGGGCTATCT---ACCAAAGACCTTCGAGTTCGA-TACGCTCAGCTCCAAGG
1 CTTAAGTCT-AGAAGGGTTATCTGCCACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGG
* * * * ** *
82557 CACATTATTTGCAGCATAGCTTAAGTCGAGAAGGGCTAT-TGCCAAATAC-CCCGAGTTCGATTA
65 CACATCATTTGCAGCATAACTTAAGTCGAGAAGGGCTATCTGCAAAAGACTTTCGAGTTCGACTA
* * * * *
82620 CACTCAGCTTCGAGGGTATATCATTTACAGCATAA
130 CGCTCAGC-TCCAAGGCATATCATTTGCAGCATAA
* * * * *
82655 CTCAAGGCTAGAAGGGTTATTTGTCACCAAATACCTTCGAGTTCGACTACGCTCAGCTCCAAGGC
1 CTTAAGTCTAGAAGGGTTATCTGCCACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGC
* * * * * * * *
82720 ATATCATTTGTAGCACAACTTAAGTCTAGAAGGGTTGTCTGCCAACAAAAAACCTTT-GAGTTCA
66 ACATCATTTGCAGCATAACTTAAGTCGAGAAGGGCTATCTG----CAAAAGA-CTTTCGAGTTCG
* * *
82784 ACTA--CTCAGCT-CAACGGC-CATCATTTGTAGCATAG
126 ACTACGCTCAGCTCCAA-GGCATATCATTTGCAGCATAA
* *
82819 CTTAAGTCGAGAAGGGTTATCTG---CCAAAGACCTTCGAGTTCGACTATGCTCAGCT-CAACGG
1 CTTAAGTCTAGAAGGGTTATCTGCCACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAA-GG
* * *
82880 CACATCATTTGTAGCATAACTTAAGTCGAGAAGGGCTATCTGCCAAAGACCTTCGAGTTCGACTA
65 CACATCATTTGCAGCATAACTTAAGTCGAGAAGGGCTATCTGCAAAAGACTTTCGAGTTCGACTA
* * *
82945 CGCTCAGCTCCAAGGCACATCATTTGCAACATAG
130 CGCTCAGCTCCAAGGCATATCATTTGCAGCATAA
* * ** * * * *
82979 CTTAAGTCGAGAAGGGCTATCTG---CCAAAGACCCCCGAGTTCGATTACACTCAGCTTCGAGGG
1 CTTAAGTCTAGAAGGGTTATCTGCCACCAAAGACCTTCGAGTTCGACTACGCTCAGC-TCCAAGG
* * * * * * *
83041 CATATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATATGTCACCAAAGACCTTT-GAGTTCG
65 CACATCATTTGCAGCATAACTTAAGTCGAGAAGGGCTATCTG-CA--AAAGA-CTTTCGAGTTCG
*
83105 ACTACGCTCAGCTCCAAGGCATATCATTTGCAGCACAA
126 ACTACGCTCAGCTCCAAGGCATATCATTTGCAGCATAA
* ** *
83143 CTTAAGTCTAGAAGGGTTGTCTGCCAATAAAAGACCTTTGAGTTCGACTACGCTCAGCT-CAACG
1 CTTAAGTCTAGAAGGGTTATCTGCC-ACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAA-G
** *
83207 GCACATCATTTGCAGCATAGTTTAAGTCGAGAAGGGCTATCTGCAAAAGACTTTCGAGTTCGATT
64 GCACATCATTTGCAGCATAACTTAAGTCGAGAAGGGCTATCTGCAAAAGACTTTCGAGTTCGACT
* **
83272 ACGCTCAGCTCTAAGGCATATCATTTATAGCATAA
129 ACGCTCAGCTCCAAGGCATATCATTTGCAGCATAA
* * * * * * * *
83307 C-CAAGACT-GAAAGGGTTGT-TGTCGCCAGAGACCTTCGAGTTTGACTACGCTCAACTCCAAGG
1 CTTAAGTCTAG-AAGGGTTATCTGCCACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGG
* * *
83369 CACATCATTTGCAGTATAGCTTAAGTTGAGAAGGGCTATCT
65 CACATCATTTGCAGCATAACTTAAGTCGAGAAGGGCTATCT
83410 ACTAACCGAA
Statistics
Matches: 878, Mismatches: 159, Indels: 90
0.78 0.14 0.08
Matches are distributed among these distances:
156 3 0.00
157 30 0.03
158 38 0.04
159 12 0.01
160 69 0.08
161 192 0.22
162 59 0.07
163 69 0.08
164 239 0.27
165 26 0.03
166 11 0.01
167 76 0.09
168 53 0.06
169 1 0.00
ACGTcount: A:0.30, C:0.24, G:0.20, T:0.26
Consensus pattern (163 bp):
CTTAAGTCTAGAAGGGTTATCTGCCACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGC
ACATCATTTGCAGCATAACTTAAGTCGAGAAGGGCTATCTGCAAAAGACTTTCGAGTTCGACTAC
GCTCAGCTCCAAGGCATATCATTTGCAGCATAA
Found at i:85922 original size:26 final size:27
Alignment explanation
Indices: 85869--85940 Score: 76
Period size: 26 Copynumber: 2.7 Consensus size: 27
85859 TATAATTTAT
* *
85869 ATACATAGTTTATATATAGTTCACATA
1 ATACATAGTTTATATATACTTCAAATA
*
85896 A-ACATAATTTATATATACTT-ATAATA
1 ATACATAGTTTATATATACTTCA-AATA
*
85922 ATATATAGTTTATAATATA
1 ATACATAGTTTAT-ATATA
85941 AATATTTTAT
Statistics
Matches: 37, Mismatches: 5, Indels: 5
0.79 0.11 0.11
Matches are distributed among these distances:
25 1 0.03
26 21 0.57
27 10 0.27
28 5 0.14
ACGTcount: A:0.46, C:0.07, G:0.04, T:0.43
Consensus pattern (27 bp):
ATACATAGTTTATATATACTTCAAATA
Found at i:85951 original size:16 final size:17
Alignment explanation
Indices: 85914--86036 Score: 56
Period size: 18 Copynumber: 6.9 Consensus size: 17
85904 TTATATATAC
*
85914 TTATAATAATATATAGT
1 TTATAATAATAAATAGT
*
85931 TTATAAT-ATAAATATT
1 TTATAATAATAAATAGT
*
85947 TTATAATTTTATATACATAGT
1 TTATAA---TA-ATAAATAGT
* *
85968 TTATATATAGTGCACATA--
1 TTATA-ATAAT--AAATAGT
* *
85986 ATATAATTATATATATAGT
1 TTATAA-TA-ATAAATAGT
*
86005 TTATAATAATTATATAGT
1 TTATAATAA-TAAATAGT
86023 TTATAAT-ATAAATA
1 TTATAATAATAAATA
86037 TAGTTTAGAT
Statistics
Matches: 83, Mismatches: 10, Indels: 27
0.69 0.08 0.22
Matches are distributed among these distances:
16 18 0.22
17 14 0.17
18 24 0.29
19 9 0.11
20 5 0.06
21 12 0.14
22 1 0.01
ACGTcount: A:0.46, C:0.02, G:0.05, T:0.47
Consensus pattern (17 bp):
TTATAATAATAAATAGT
Found at i:85963 original size:90 final size:91
Alignment explanation
Indices: 85859--86037 Score: 292
Period size: 90 Copynumber: 2.0 Consensus size: 91
85849 TTTATACATA
*
85859 TATAATTTATATACATAGTTTATATATAGTTCACATAAACATAATT-TATATATA-CTTATAATA
1 TATAATTTATATACATAGTTTATATATAGTGCACAT-AACATAATTATATATATAGCTTATAATA
85922 A-TATATAGTTTATAATATAAATATTT
65 ATTATATAGTTTATAATATAAATATTT
* *
85948 TATAATTTTATATACATAGTTTATATATAGTGCACATAATATAATTATATATATAGTTTATAATA
1 TATAA-TTTATATACATAGTTTATATATAGTGCACATAACATAATTATATATATAGCTTATAATA
86013 ATTATATAGTTTATAATATAAATAT
65 ATTATATAGTTTATAATATAAATAT
86038 AGTTTAGATA
Statistics
Matches: 83, Mismatches: 3, Indels: 5
0.91 0.03 0.05
Matches are distributed among these distances:
89 13 0.16
90 38 0.46
91 9 0.11
92 23 0.28
ACGTcount: A:0.45, C:0.04, G:0.04, T:0.46
Consensus pattern (91 bp):
TATAATTTATATACATAGTTTATATATAGTGCACATAACATAATTATATATATAGCTTATAATAA
TTATATAGTTTATAATATAAATATTT
Found at i:86020 original size:20 final size:19
Alignment explanation
Indices: 85987--86058 Score: 85
Period size: 18 Copynumber: 3.8 Consensus size: 19
85977 GTGCACATAA
*
85987 TATAATTATATATATAGTT
1 TATAATAATATATATAGTT
86006 TATAATAAT-TATATAGTT
1 TATAATAATATATATAGTT
*
86024 TATAAT-ATAAATATAGTT
1 TATAATAATATATATAGTT
* *
86042 TAGATATAATTTATATA
1 TATA-ATAATATATATA
86059 TATATATATA
Statistics
Matches: 45, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
17 2 0.04
18 26 0.58
19 10 0.22
20 7 0.16
ACGTcount: A:0.46, C:0.00, G:0.06, T:0.49
Consensus pattern (19 bp):
TATAATAATATATATAGTT
Found at i:86028 original size:37 final size:36
Alignment explanation
Indices: 85907--86069 Score: 126
Period size: 37 Copynumber: 4.6 Consensus size: 36
85897 ACATAATTTA
*
85907 TATATACTTATAATA-ATATATAGTTTATAATATAA-
1 TATATATTTATAATATATATATAGTTTAT-ATATAAT
* *
85942 -ATAT-TTTATAATTTTATATACATAGTTTATATATAGT
1 TATATATTTATAA---TATATATATAGTTTATATATAAT
* * *
85979 GCACATA-ATATAATTATATATATAGTTTATA-ATAAT
1 -TATATATTTATAA-TATATATATAGTTTATATATAAT
* *
86015 TATATAGTTTATAATATAAATATAGTTTAGATATAAT
1 TATATA-TTTATAATATATATATAGTTTATATATAAT
*
86052 T-TATATATAT-ATATATAT
1 TATATATTTATAATATATAT
86070 TTTTCAATTT
Statistics
Matches: 103, Mismatches: 14, Indels: 23
0.74 0.10 0.16
Matches are distributed among these distances:
33 6 0.06
34 11 0.11
35 8 0.08
36 30 0.29
37 40 0.39
39 8 0.08
ACGTcount: A:0.45, C:0.02, G:0.05, T:0.48
Consensus pattern (36 bp):
TATATATTTATAATATATATATAGTTTATATATAAT
Found at i:86065 original size:92 final size:90
Alignment explanation
Indices: 85859--86068 Score: 248
Period size: 90 Copynumber: 2.3 Consensus size: 90
85849 TTTATACATA
* * *
85859 TATAAT-TTATATACATAGTTTATATATAGTTCACATAAACATAATTTATATATACTTATAATAA
1 TATAATATAATATACATAGTATATATATAGTGCACATAAACATAATTTATATATACTTATAATAA
85923 TATATAGTTTATAATATAAATATTT
66 TATATAGTTTATAATATAAATATTT
* * * * *
85948 TATAATTTTATATACATAGTTTATATATAGTGCACAT-AATATAATTATATATATAGTTTATAAT
1 TATAATATAATATACATAGTATATATATAGTGCACATAAACATAATT-TATATATA-CTTATAAT
86012 AATTATATAGTTTATAATATAAATATAGTT
64 AA-TATATAGTTTATAATATAAATAT--TT
* * *
86042 TA-GATATAATTTATATA-TATATATATA
1 TATAATATAATATACATAGTATATATATA
86069 TTTTTCAATT
Statistics
Matches: 106, Mismatches: 9, Indels: 9
0.85 0.07 0.07
Matches are distributed among these distances:
89 14 0.13
90 37 0.35
91 9 0.08
92 32 0.30
93 10 0.09
94 4 0.04
ACGTcount: A:0.45, C:0.04, G:0.05, T:0.47
Consensus pattern (90 bp):
TATAATATAATATACATAGTATATATATAGTGCACATAAACATAATTTATATATACTTATAATAA
TATATAGTTTATAATATAAATATTT
Found at i:86387 original size:19 final size:20
Alignment explanation
Indices: 86360--86397 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 20
86350 TATGTGTGCT
86360 GTTTAATTTAT-ATTTTAAG
1 GTTTAATTTATAATTTTAAG
* *
86379 GTTTTATTTGTAATTTTAA
1 GTTTAATTTATAATTTTAA
86398 ATTTCTATAA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 9 0.56
20 7 0.44
ACGTcount: A:0.29, C:0.00, G:0.11, T:0.61
Consensus pattern (20 bp):
GTTTAATTTATAATTTTAAG
Found at i:86953 original size:18 final size:17
Alignment explanation
Indices: 86909--86953 Score: 56
Period size: 16 Copynumber: 2.6 Consensus size: 17
86899 AACGCTACGC
86909 ATAGTACACACAATCCCA
1 ATAGT-CACACAATCCCA
*
86927 ATAGT-ACACAATTCCA
1 ATAGTCACACAATCCCA
86943 ATCAGTCACAC
1 AT-AGTCACAC
86954 GCCTTCTCTA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
16 12 0.50
17 3 0.12
18 9 0.38
ACGTcount: A:0.42, C:0.31, G:0.07, T:0.20
Consensus pattern (17 bp):
ATAGTCACACAATCCCA
Found at i:89034 original size:43 final size:43
Alignment explanation
Indices: 88984--89364 Score: 586
Period size: 43 Copynumber: 8.9 Consensus size: 43
88974 TTGTGAACAA
*
88984 AAACGCCGCAATAGGTTGAGATCTATAGCGGCGTTTTTGGGAC
1 AAACGCCGCAATAGGTCGAGATCTATAGCGGCGTTTTTGGGAC
* *
89027 AAACGCCGCAATAGTTCGAGATCTATAGCGGCGTTTTAGGGAC
1 AAACGCCGCAATAGGTCGAGATCTATAGCGGCGTTTTTGGGAC
* *
89070 AAACACCGCAATAGGTCGAGATCTATAGCGGCG-TTTTGGGAGA
1 AAACGCCGCAATAGGTCGAGATCTATAGCGGCGTTTTTGGGA-C
*
89113 AAATGCCGCAATAGGTCGAGATCTATAGCGGCGTTTTTGGGAC
1 AAACGCCGCAATAGGTCGAGATCTATAGCGGCGTTTTTGGGAC
* *
89156 -AACGCCTCAATAGGTTGAGATCTATAGCGGCGTTTTTGGGAC
1 AAACGCCGCAATAGGTCGAGATCTATAGCGGCGTTTTTGGGAC
* * *
89198 AAATGCCTCAATAGGTCGAGATATATAGCGGCGTTTTTGGGAC
1 AAACGCCGCAATAGGTCGAGATCTATAGCGGCGTTTTTGGGAC
* *
89241 AAACGCCGCAATAGGTCGAGATCTATAGCGACGTTTTTGGAAC
1 AAACGCCGCAATAGGTCGAGATCTATAGCGGCGTTTTTGGGAC
* * * *
89284 AAACGCCGCAATAGGTTGAGATTTATAGCGACGTTTTTGGAAC
1 AAACGCCGCAATAGGTCGAGATCTATAGCGGCGTTTTTGGGAC
89327 AAACGCCGCAATAGGTCGAGATCTATAGCGGCGTTTTT
1 AAACGCCGCAATAGGTCGAGATCTATAGCGGCGTTTTT
89365 TTTATACAAA
Statistics
Matches: 309, Mismatches: 26, Indels: 6
0.91 0.08 0.02
Matches are distributed among these distances:
42 46 0.15
43 255 0.83
44 8 0.03
ACGTcount: A:0.28, C:0.19, G:0.28, T:0.25
Consensus pattern (43 bp):
AAACGCCGCAATAGGTCGAGATCTATAGCGGCGTTTTTGGGAC
Found at i:89186 original size:171 final size:172
Alignment explanation
Indices: 88984--89364 Score: 604
Period size: 171 Copynumber: 2.2 Consensus size: 172
88974 TTGTGAACAA
*
88984 AAACGCCGCAATAGGTTGAGATCTATAGCGGCGTTTTTGGGACAAACGCCGCAATAGTTCGAGAT
1 AAACGCCGCAATAGGTTGAGATCTATAGCGGCGTTTTTGGGACAAACGCCGCAATAGGTCGAGAT
* *
89049 CTATAGCGGCGTTTTAGGGACAAACACCGCAATAGGTCGAGATCTATAGCGGCGTTTTGGGAGA-
66 ATATAGCGGCGTTTTAGGGACAAACACCGCAATAGGTCGAGATCTATAGCGACGTTTTGGGA-AC
* * *
89113 AAATGCCGCAATAGGTCGAGATCTATAGCGGCGTTTTTGGGAC
130 AAACGCCGCAATAGGTCGAGATCTATAGCGACGTTTTTGGAAC
* * *
89156 -AACGCCTCAATAGGTTGAGATCTATAGCGGCGTTTTTGGGACAAATGCCTCAATAGGTCGAGAT
1 AAACGCCGCAATAGGTTGAGATCTATAGCGGCGTTTTTGGGACAAACGCCGCAATAGGTCGAGAT
* * *
89220 ATATAGCGGCGTTTTTGGGACAAACGCCGCAATAGGTCGAGATCTATAGCGACGTTTTTGGAACA
66 ATATAGCGGCGTTTTAGGGACAAACACCGCAATAGGTCGAGATCTATAGCGACGTTTTGGGAACA
* *
89285 AACGCCGCAATAGGTTGAGATTTATAGCGACGTTTTTGGAAC
131 AACGCCGCAATAGGTCGAGATCTATAGCGACGTTTTTGGAAC
*
89327 AAACGCCGCAATAGGTCGAGATCTATAGCGGCGTTTTT
1 AAACGCCGCAATAGGTTGAGATCTATAGCGGCGTTTTT
89365 TTTATACAAA
Statistics
Matches: 191, Mismatches: 16, Indels: 4
0.91 0.08 0.02
Matches are distributed among these distances:
170 1 0.01
171 155 0.81
172 35 0.18
ACGTcount: A:0.28, C:0.19, G:0.28, T:0.25
Consensus pattern (172 bp):
AAACGCCGCAATAGGTTGAGATCTATAGCGGCGTTTTTGGGACAAACGCCGCAATAGGTCGAGAT
ATATAGCGGCGTTTTAGGGACAAACACCGCAATAGGTCGAGATCTATAGCGACGTTTTGGGAACA
AACGCCGCAATAGGTCGAGATCTATAGCGACGTTTTTGGAAC
Done.