Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D02
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: 67659327
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 461372 characters in sequence are not A, C, G, or T
File 58 of 216
Found at i:17070474 original size:35 final size:35
Alignment explanation
Indices: 17070428--17070520 Score: 123
Period size: 35 Copynumber: 2.6 Consensus size: 35
17070418 GGTTGGATTT
*
17070428 GCTCTTATGAGCATTGGTGTGTCGCGGATGGACTA
1 GCTCTTATGAGCATTGGTGTGTCGCGAATGGACTA
** *
17070463 GCTCTTATGAGCATTGGTGTGTTTCGAATGGATTA
1 GCTCTTATGAGCATTGGTGTGTCGCGAATGGACTA
* *
17070498 TCTCTTATGAGTATCTGGTGTGT
1 GCTCTTATGAGCAT-TGGTGTGT
17070521 TTTGGTTGGA
Statistics
Matches: 51, Mismatches: 6, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
35 43 0.84
36 8 0.16
ACGTcount: A:0.17, C:0.14, G:0.30, T:0.39
Consensus pattern (35 bp):
GCTCTTATGAGCATTGGTGTGTCGCGAATGGACTA
Found at i:17073900 original size:12 final size:12
Alignment explanation
Indices: 17073879--17073915 Score: 56
Period size: 12 Copynumber: 3.1 Consensus size: 12
17073869 ACTTAATCAC
*
17073879 TTTAATATTATA
1 TTTAATATTAAA
*
17073891 TTTAAGATTAAA
1 TTTAATATTAAA
17073903 TTTAATATTAAA
1 TTTAATATTAAA
17073915 T
1 T
17073916 CTTATTAAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (12 bp):
TTTAATATTAAA
Found at i:17075550 original size:102 final size:101
Alignment explanation
Indices: 17075374--17075706 Score: 495
Period size: 102 Copynumber: 3.3 Consensus size: 101
17075364 CCAGTGATTC
* * * *
17075374 GGGGAATCAGCACTTAGCAACCCCTTTCACATTTAAGATACGGTGGGATCAGCATTTAGCAACCA
1 GGGGAATCAGCACTTAGCAACCCCCTTCACATTTAAAATACGGTGGAATCAGCACTTAGCAACCA
*
17075439 CCAATGAGTCGGAGAATCAGTACTTAGCAACCCCTTG
66 CCAATGAGTCGG-GAATCAGCACTTAGCAACCCCTTG
* * *
17075476 GGGGAATCAGCACCTAGCAACCCCCCTCACATTTAAAATACGGTGGAATCAGCACCTAGCAACCA
1 GGGGAATCAGCACTTAGCAACCCCCTTCACATTTAAAATACGGTGGAATCAGCACTTAGCAACCA
*
17075541 CCAATGAGTCGGGGAATCAGCATTTAGCAACCCCTTG
66 CCAATGAGTC-GGGAATCAGCACTTAGCAACCCCTTG
* * * * *
17075578 GGAGAATCAACACTTAGCAACCCCCTTCACATTTAAAATACGGGGGAATCAACACTTAGCAACCG
1 GGGGAATCAGCACTTAGCAACCCCCTTCACATTTAAAATACGGTGGAATCAGCACTTAGCAACCA
* *
17075643 CCAATGATTCAGGGAATCAGCACTTAGCAATCCCTTG
66 CCAATGAGTC-GGGAATCAGCACTTAGCAACCCCTTG
17075680 GGGGAATCAGCACTTAGCAACCCCCTT
1 GGGGAATCAGCACTTAGCAACCCCCTT
17075707 TATATTCAAT
Statistics
Matches: 207, Mismatches: 23, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
102 205 0.99
103 2 0.01
ACGTcount: A:0.32, C:0.28, G:0.20, T:0.20
Consensus pattern (101 bp):
GGGGAATCAGCACTTAGCAACCCCCTTCACATTTAAAATACGGTGGAATCAGCACTTAGCAACCA
CCAATGAGTCGGGAATCAGCACTTAGCAACCCCTTG
Found at i:17083047 original size:33 final size:33
Alignment explanation
Indices: 17082921--17083114 Score: 166
Period size: 33 Copynumber: 5.8 Consensus size: 33
17082911 GTTGTCCGTT
* *
17082921 GTCGGTGGATTCAGCACTTAGCAACCACCAGTGA
1 GTCGG-GGAATCAGCACTTAGCAACCACCAATGA
* * * * *
17082955 TTCAGGGAATCAGCACATAGCAACCCCTTTGACAATTAA
1 GTCGGGGAATCAGCACTTAGCAACCAC-----CAA-TGA
*
17082994 GATACGGTGGGATCAGCACTTAGCAACCACCAATGA
1 G-T-CGG-GGAATCAGCACTTAGCAACCACCAATGA
*
17083030 GTCGGGGAATCAGCACTTACCAACC-CC--T--
1 GTCGGGGAATCAGCACTTAGCAACCACCAATGA
*
17083058 -TGGGGGAATCAGCACTTAGCAACCACCAATGA
1 GTCGGGGAATCAGCACTTAGCAACCACCAATGA
17083090 GTCGGGGAATCAGCACTTAGCAACC
1 GTCGGGGAATCAGCACTTAGCAACC
17083115 CCTTAAGAGA
Statistics
Matches: 127, Mismatches: 18, Indels: 31
0.72 0.10 0.18
Matches are distributed among these distances:
27 22 0.17
28 2 0.02
30 2 0.02
32 2 0.02
33 60 0.47
34 6 0.05
35 1 0.01
36 3 0.02
37 3 0.02
38 2 0.02
39 2 0.02
40 1 0.01
41 2 0.02
42 19 0.15
ACGTcount: A:0.31, C:0.27, G:0.23, T:0.19
Consensus pattern (33 bp):
GTCGGGGAATCAGCACTTAGCAACCACCAATGA
Found at i:17083070 original size:27 final size:27
Alignment explanation
Indices: 17083033--17083146 Score: 93
Period size: 27 Copynumber: 4.0 Consensus size: 27
17083023 CCAATGAGTC
*
17083033 GGGGAATCAGCACTTACCAACCCCTTG
1 GGGGAATCAGCACTTACCAACCCCTTA
* *
17083060 GGGGAATCAGCACTTAGCAACCACCAATGAGTC
1 GGGGAATCAGCACTTACCAACC-CC--T---TA
*
17083093 GGGGAATCAGCACTTAGCAACCCCTTA
1 GGGGAATCAGCACTTACCAACCCCTTA
* * * *
17083120 AGAGAATCCGCACTTAGCAAACCCCTT
1 GGGGAATCAGCACTTA-CCAACCCCTT
17083147 CACATTTAAA
Statistics
Matches: 72, Mismatches: 8, Indels: 13
0.77 0.09 0.14
Matches are distributed among these distances:
27 35 0.49
28 10 0.14
30 2 0.03
32 2 0.03
33 23 0.32
ACGTcount: A:0.31, C:0.31, G:0.21, T:0.18
Consensus pattern (27 bp):
GGGGAATCAGCACTTACCAACCCCTTA
Found at i:17083098 original size:60 final size:60
Alignment explanation
Indices: 17083005--17083139 Score: 225
Period size: 60 Copynumber: 2.2 Consensus size: 60
17082995 ATACGGTGGG
** *
17083005 ATCAGCACTTAGCAACCACCAATGAGTCGGGGAATCAGCACTTACCAACCCCTTGGGGGA
1 ATCAGCACTTAGCAACCACCAATGAGTCGGGGAATCAGCACTTACCAACCCCTTAAGAGA
*
17083065 ATCAGCACTTAGCAACCACCAATGAGTCGGGGAATCAGCACTTAGCAACCCCTTAAGAGA
1 ATCAGCACTTAGCAACCACCAATGAGTCGGGGAATCAGCACTTACCAACCCCTTAAGAGA
*
17083125 ATCCGCACTTAGCAA
1 ATCAGCACTTAGCAA
17083140 ACCCCTTCAC
Statistics
Matches: 70, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
60 70 1.00
ACGTcount: A:0.33, C:0.30, G:0.21, T:0.17
Consensus pattern (60 bp):
ATCAGCACTTAGCAACCACCAATGAGTCGGGGAATCAGCACTTACCAACCCCTTAAGAGA
Found at i:17083237 original size:102 final size:102
Alignment explanation
Indices: 17083061--17083248 Score: 295
Period size: 102 Copynumber: 1.8 Consensus size: 102
17083051 AACCCCTTGG
* *
17083061 GGGAATCAGCACTTAGCAACCACCAATGAGTCGGGGAATCAGCACTTAGCAACCCCTTAAGAGAA
1 GGGAATCAACACTTAGAAACCACCAATGAGTCGGGGAATCAGCACTTAGCAACCCCTTAAGAGAA
*
17083126 TCCGCACTTAGCAAACCCCTTCACATTTAAAATACGA
66 TCAGCACTTAGCAAACCCCTTCACATTTAAAATACGA
* * ** *
17083163 GGGAATCAACACTTAGAAACCACCAATGATTCGGGGAATCAGCACTTAGCAATCCCTTGGGGGAA
1 GGGAATCAACACTTAGAAACCACCAATGAGTCGGGGAATCAGCACTTAGCAACCCCTTAAGAGAA
*
17083228 TCAGCACTTAGCAACCCCCTT
66 TCAGCACTTAGCAAACCCCTT
17083249 TATATTAAAT
Statistics
Matches: 77, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
102 77 1.00
ACGTcount: A:0.34, C:0.28, G:0.19, T:0.19
Consensus pattern (102 bp):
GGGAATCAACACTTAGAAACCACCAATGAGTCGGGGAATCAGCACTTAGCAACCCCTTAAGAGAA
TCAGCACTTAGCAAACCCCTTCACATTTAAAATACGA
Found at i:17091727 original size:23 final size:23
Alignment explanation
Indices: 17091696--17091751 Score: 67
Period size: 23 Copynumber: 2.4 Consensus size: 23
17091686 CCTATAGAAA
17091696 ACTTTTGTTACTAGTACTACGAT
1 ACTTTTGTTACTAGTACTACGAT
* * * * *
17091719 ACTTATGTTATTATTACTTCGGT
1 ACTTTTGTTACTAGTACTACGAT
17091742 ACTTTTGTTA
1 ACTTTTGTTA
17091752 ATGACACTTT
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.23, C:0.14, G:0.12, T:0.50
Consensus pattern (23 bp):
ACTTTTGTTACTAGTACTACGAT
Found at i:17095607 original size:50 final size:50
Alignment explanation
Indices: 17095540--17095726 Score: 266
Period size: 50 Copynumber: 3.7 Consensus size: 50
17095530 ACTGCCAATA
* * ** * * * * *
17095540 CCATATCCCAGATATGGTCTTACATGGGAGTTCTAATATCGGTGCCCATG
1 CCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGATGCCAACG
* *
17095590 CCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGCTGCCAACG
1 CCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGATGCCAACG
*
17095640 CCATGTCCCAGACATGGTCTTACATGAGACCTCTCATCTCGATGCCAACG
1 CCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGATGCCAACG
17095690 CCATGTCCCAGACATGGTCTTACATGGGACCTCTCAT
1 CCATGTCCCAGACATGGTCTTACATGGGACCTCTCAT
17095727 AATCTCAATA
Statistics
Matches: 123, Mismatches: 14, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
50 123 1.00
ACGTcount: A:0.22, C:0.32, G:0.20, T:0.26
Consensus pattern (50 bp):
CCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGATGCCAACG
Found at i:17102278 original size:26 final size:26
Alignment explanation
Indices: 17102247--17102311 Score: 94
Period size: 26 Copynumber: 2.5 Consensus size: 26
17102237 ACATATTTTC
17102247 TCAAAATTTTACTAAGGGCAAAATCG
1 TCAAAATTTTACTAAGGGCAAAATCG
* * * *
17102273 TCAAAATTTAACCAAGGGTAAAATTG
1 TCAAAATTTTACTAAGGGCAAAATCG
17102299 TCAAAATTTTACT
1 TCAAAATTTTACT
17102312 GGGGTAAAAT
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 33 1.00
ACGTcount: A:0.43, C:0.14, G:0.12, T:0.31
Consensus pattern (26 bp):
TCAAAATTTTACTAAGGGCAAAATCG
Found at i:17107385 original size:26 final size:26
Alignment explanation
Indices: 17107356--17107406 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 26
17107346 GGTTTAAATT
* * *
17107356 CTTACAAAATTAAAACTAGAGATTAC
1 CTTAAAAAACTAAAACTAGAAATTAC
*
17107382 CTTAAAAAACTAAAATTAGAAATTA
1 CTTAAAAAACTAAAACTAGAAATTA
17107407 AATTCATATT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.55, C:0.12, G:0.06, T:0.27
Consensus pattern (26 bp):
CTTAAAAAACTAAAACTAGAAATTAC
Found at i:17107782 original size:16 final size:17
Alignment explanation
Indices: 17107761--17107792 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
17107751 GAATTTTTGC
17107761 TGTTAAATTT-TATAAT
1 TGTTAAATTTATATAAT
17107777 TGTTAAATTTATATAA
1 TGTTAAATTTATATAA
17107793 AAAATTTATT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.41, C:0.00, G:0.06, T:0.53
Consensus pattern (17 bp):
TGTTAAATTTATATAAT
Found at i:17109470 original size:21 final size:21
Alignment explanation
Indices: 17109446--17109487 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
17109436 AGTTCTTTTA
17109446 AATTTAAGATATTTAAAAAAT
1 AATTTAAGATATTTAAAAAAT
* * *
17109467 AATTTAATATTTTTATAAAAT
1 AATTTAAGATATTTAAAAAAT
17109488 TTTAAAATTC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.45
Consensus pattern (21 bp):
AATTTAAGATATTTAAAAAAT
Found at i:17115199 original size:13 final size:13
Alignment explanation
Indices: 17115181--17115216 Score: 63
Period size: 13 Copynumber: 2.8 Consensus size: 13
17115171 ATGAGCATGA
17115181 GGACCACACGAGT
1 GGACCACACGAGT
*
17115194 GGACCACACGGGT
1 GGACCACACGAGT
17115207 GGACCACACG
1 GGACCACACG
17115217 CCCCCTTCCC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.28, C:0.33, G:0.33, T:0.06
Consensus pattern (13 bp):
GGACCACACGAGT
Found at i:17115883 original size:90 final size:90
Alignment explanation
Indices: 17115770--17115992 Score: 268
Period size: 90 Copynumber: 2.5 Consensus size: 90
17115760 AGTTTTTATC
* * *
17115770 TACAAATATGTTGTGCATTCACAACCATCTAGCAGCATATTAACCTACAACACTAGTGGTTCATC
1 TACAATTATGTTGTGCATCCACAACCATCTAGCAACATATTAACCTACAACACTAGTGGTTCATC
** *
17115835 CACCCATTTTCTAACAGCTCTTATA
66 CACCCACATTCTAACAGCTCTCATA
* * * * * * *
17115860 TGCAATTTTGTTGTGTATCCACAACCATCTGGCAACATATTAACCTGCAACATTGGTGGTTCATC
1 TACAATTATGTTGTGCATCCACAACCATCTAGCAACATATTAACCTACAACACTAGTGGTTCATC
* *
17115925 CACCCACATTCTGACAGCTCTCATC
66 CACCCACATTCTAACAGCTCTCATA
* * *
17115950 TACAATTATGTTGTGCA-CTCACAACCATTTGGCAACGTATTAA
1 TACAATTATGTTGTGCATC-CACAACCATCTAGCAACATATTAA
17115993 ACTGTAACTT
Statistics
Matches: 112, Mismatches: 20, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
89 1 0.01
90 111 0.99
ACGTcount: A:0.30, C:0.26, G:0.13, T:0.31
Consensus pattern (90 bp):
TACAATTATGTTGTGCATCCACAACCATCTAGCAACATATTAACCTACAACACTAGTGGTTCATC
CACCCACATTCTAACAGCTCTCATA
Found at i:17124389 original size:3 final size:3
Alignment explanation
Indices: 17124381--17124414 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
17124371 ATAATTCGAG
17124381 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
17124415 CTAAATTCTG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:17132010 original size:25 final size:25
Alignment explanation
Indices: 17131982--17132185 Score: 121
Period size: 25 Copynumber: 8.1 Consensus size: 25
17131972 CACTACGAAT
*
17131982 TTTCTAGAGAATTCGCTACAAAGGC
1 TTTCTAGAGAATTCGCCACAAAGGC
* *
17132007 TTTCTAGA-AGATTCACCGCAAAGGC
1 TTTCTAGAGA-ATTCGCCACAAAGGC
* * *
17132032 TTTCCA-AAAATTTGCCACAAAGGC
1 TTTCTAGAGAATTCGCCACAAAGGC
* ** * *
17132056 TTTTCTAAAGAATTTTCCAAAAAAGC
1 -TTTCTAGAGAATTCGCCACAAAGGC
* *
17132082 TTTCTAGAGAATTCGCCATAAAAGCC
1 TTTCTAGAGAATTCGCCA-CAAAGGC
* * * *
17132108 TTT-TAGAGAATTATTGACA-AAAAGT
1 TTTCTAGAGAA-T-TCGCCACAAAGGC
* *
17132133 TTTCTAAAGAATTTGCC-CGAAAGGC
1 TTTCTAGAGAATTCGCCAC-AAAGGC
* * *
17132158 TTTTTAGAGAATTTGTCACAAAGGC
1 TTTCTAGAGAATTCGCCACAAAGGC
17132183 TTT
1 TTT
17132186 TCAGAAATTC
Statistics
Matches: 139, Mismatches: 29, Indels: 22
0.73 0.15 0.12
Matches are distributed among these distances:
24 18 0.13
25 87 0.63
26 30 0.22
27 4 0.03
ACGTcount: A:0.35, C:0.18, G:0.16, T:0.31
Consensus pattern (25 bp):
TTTCTAGAGAATTCGCCACAAAGGC
Found at i:17132179 original size:51 final size:49
Alignment explanation
Indices: 17132030--17132179 Score: 142
Period size: 51 Copynumber: 3.0 Consensus size: 49
17132020 CACCGCAAAG
* *
17132030 GCTTTCCAAA-AATTTGCCACAAAGGCTTTTCTAAAGAATTTTC-CAAAAAA
1 GCTTTCTAAAGAATTTGCC-CAAAGGCTTTT-TAGAGAATTTTCAC-AAAAA
* * * * * *
17132080 GCTTTCTAGAGAATTCGCCATAAAAGCCTTTTAGAGAATTATTGACAAAAA
1 GCTTTCTAAAGAATTTGCC-CAAAGGCTTTTTAGAGAATT-TTCACAAAAA
*
17132131 GTTTTCTAAAGAATTTGCCCGAAAGGCTTTTTAGAGAATTTGTCACAAA
1 GCTTTCTAAAGAATTTGCCC-AAAGGCTTTTTAGAGAATTT-TCACAAA
17132180 GGCTTTTCAG
Statistics
Matches: 80, Mismatches: 15, Indels: 9
0.77 0.14 0.09
Matches are distributed among these distances:
50 17 0.21
51 62 0.77
52 1 0.01
ACGTcount: A:0.37, C:0.17, G:0.15, T:0.31
Consensus pattern (49 bp):
GCTTTCTAAAGAATTTGCCCAAAGGCTTTTTAGAGAATTTTCACAAAAA
Found at i:17133732 original size:9 final size:8
Alignment explanation
Indices: 17133712--17133762 Score: 56
Period size: 9 Copynumber: 6.6 Consensus size: 8
17133702 TTAAAATAAA
17133712 TTTATA-T
1 TTTATAGT
17133719 TTTATTAGT
1 TTTA-TAGT
17133728 TTTATA--
1 TTTATAGT
17133734 TTTATA-T
1 TTTATAGT
17133741 TTTATAGTT
1 TTTATAG-T
17133750 TTTATAGT
1 TTTATAGT
17133758 TTTAT
1 TTTAT
17133763 TTTATTTTAT
Statistics
Matches: 39, Mismatches: 0, Indels: 9
0.81 0.00 0.19
Matches are distributed among these distances:
6 6 0.15
7 10 0.26
8 10 0.26
9 13 0.33
ACGTcount: A:0.25, C:0.00, G:0.06, T:0.69
Consensus pattern (8 bp):
TTTATAGT
Found at i:17133739 original size:22 final size:23
Alignment explanation
Indices: 17133711--17133768 Score: 86
Period size: 22 Copynumber: 2.6 Consensus size: 23
17133701 TTTAAAATAA
17133711 ATTTATATTTTATTAG-TTTTAT
1 ATTTATATTTTATTAGTTTTTAT
17133733 ATTTATATTTTA-TAGTTTTTAT
1 ATTTATATTTTATTAGTTTTTAT
17133755 AGTTT-TATTTTATT
1 A-TTTATATTTTATT
17133769 TTATTTAATA
Statistics
Matches: 33, Mismatches: 0, Indels: 5
0.87 0.00 0.13
Matches are distributed among these distances:
21 3 0.09
22 26 0.79
23 4 0.12
ACGTcount: A:0.26, C:0.00, G:0.05, T:0.69
Consensus pattern (23 bp):
ATTTATATTTTATTAGTTTTTAT
Found at i:17133832 original size:25 final size:26
Alignment explanation
Indices: 17133797--17133852 Score: 80
Period size: 25 Copynumber: 2.2 Consensus size: 26
17133787 TAAATTATTT
*
17133797 TATTTTCATAATTATGTAATTTTT-AA
1 TATTTTCATAATTAT-AAATTTTTGAA
17133823 TATTTT-ATAATTATAAATTTTTGAA
1 TATTTTCATAATTATAAATTTTTGAA
17133848 TATTT
1 TATTT
17133853 AAAATAATGA
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
24 7 0.25
25 15 0.54
26 6 0.21
ACGTcount: A:0.36, C:0.02, G:0.04, T:0.59
Consensus pattern (26 bp):
TATTTTCATAATTATAAATTTTTGAA
Found at i:17134314 original size:7 final size:7
Alignment explanation
Indices: 17134302--17134328 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
17134292 TATAGTAATA
17134302 TAAAATT
1 TAAAATT
17134309 TAAAATT
1 TAAAATT
17134316 TAAAATT
1 TAAAATT
17134323 TAAAAT
1 TAAAAT
17134329 ACAAATAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (7 bp):
TAAAATT
Found at i:17134914 original size:19 final size:19
Alignment explanation
Indices: 17134890--17134940 Score: 70
Period size: 19 Copynumber: 2.7 Consensus size: 19
17134880 AAAAGATAAT
17134890 ATATATTTATATTTTTATA
1 ATATATTTATATTTTTATA
*
17134909 ATATATATACTA-TTTTATA
1 ATATATTTA-TATTTTTATA
17134928 AT-TATTTATATTT
1 ATATATTTATATTT
17134941 AATTATGTGA
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
17 2 0.07
18 7 0.25
19 17 0.61
20 2 0.07
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (19 bp):
ATATATTTATATTTTTATA
Found at i:17137076 original size:26 final size:28
Alignment explanation
Indices: 17137047--17137106 Score: 72
Period size: 26 Copynumber: 2.2 Consensus size: 28
17137037 TCAAAACACC
*
17137047 TAAATGCAATACAATAA-AT-ATTACAA
1 TAAATACAATACAATAATATCATTACAA
* *
17137073 TAAATATAGTACAATAATATCATTACAA
1 TAAATACAATACAATAATATCATTACAA
17137101 -AAATAC
1 TAAATAC
17137107 TAAACATTTT
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
26 14 0.50
27 7 0.25
28 7 0.25
ACGTcount: A:0.57, C:0.12, G:0.03, T:0.28
Consensus pattern (28 bp):
TAAATACAATACAATAATATCATTACAA
Found at i:17137087 original size:14 final size:12
Alignment explanation
Indices: 17137056--17137105 Score: 57
Period size: 12 Copynumber: 3.9 Consensus size: 12
17137046 CTAAATGCAA
17137056 TACAATAAATAT
1 TACAATAAATAT
17137068 TACAATAAATAT
1 TACAATAAATAT
17137080 AGTACAATAATATCAT
1 --TACAATAA-AT-AT
17137096 TACAA-AAATA
1 TACAATAAATA
17137106 CTAAACATTT
Statistics
Matches: 34, Mismatches: 0, Indels: 9
0.79 0.00 0.21
Matches are distributed among these distances:
11 1 0.03
12 14 0.41
13 2 0.06
14 13 0.38
15 2 0.06
16 2 0.06
ACGTcount: A:0.58, C:0.10, G:0.02, T:0.30
Consensus pattern (12 bp):
TACAATAAATAT
Found at i:17137483 original size:38 final size:35
Alignment explanation
Indices: 17137438--17137525 Score: 95
Period size: 39 Copynumber: 2.3 Consensus size: 35
17137428 AATTAAAAAA
* *
17137438 AATTCAAAATCTCAATAAATAAAAAACATTTGTCAAAT
1 AATTCAAAAACCCAATAAAT-AAAAA-A-TTGTCAAAT
17137476 AATTCAAAAAAAAACCCAATAAATAAAAAATTGTCAAAT
1 AATTC----AAAAACCCAATAAATAAAAAATTGTCAAAT
17137515 AATTCAAAAAC
1 AATTCAAAAAC
17137526 AACAAAAAAA
Statistics
Matches: 44, Mismatches: 2, Indels: 11
0.77 0.04 0.19
Matches are distributed among these distances:
35 6 0.14
38 5 0.11
39 14 0.32
40 1 0.02
41 5 0.11
42 13 0.30
ACGTcount: A:0.60, C:0.14, G:0.02, T:0.24
Consensus pattern (35 bp):
AATTCAAAAACCCAATAAATAAAAAATTGTCAAAT
Found at i:17137738 original size:31 final size:32
Alignment explanation
Indices: 17137669--17137758 Score: 85
Period size: 31 Copynumber: 2.8 Consensus size: 32
17137659 TTTTTTACCT
*
17137669 TTTTTTTAAACCCTAAACAAAACCCTTTAATA
1 TTTTTTTAAACCCTAAACAAAACCCTCTAATA
* * *
17137701 TATTTTT-AACCCTAAACAAATCCC-CTAATC
1 TTTTTTTAAACCCTAAACAAAACCCTCTAATA
*
17137731 TCTTTTTTCCAAACCCTAATAAAAAACC
1 T-TTTTTT--AAACCCTAA-ACAAAACC
17137759 TTTAATCCCT
Statistics
Matches: 46, Mismatches: 7, Indels: 7
0.77 0.12 0.12
Matches are distributed among these distances:
30 5 0.11
31 21 0.46
32 6 0.13
34 8 0.17
35 6 0.13
ACGTcount: A:0.39, C:0.27, G:0.00, T:0.34
Consensus pattern (32 bp):
TTTTTTTAAACCCTAAACAAAACCCTCTAATA
Found at i:17138860 original size:393 final size:391
Alignment explanation
Indices: 17138115--17139281 Score: 2000
Period size: 393 Copynumber: 3.0 Consensus size: 391
17138105 GACACATAGC
* * *
17138115 CTTCACTCTAATTTTTTAGTTTTCCTTTTTTTTTTCATTTTCATTTTGTATTTTGTTTTGTATTT
1 CTTCACCCTAATTTTTCAGTTTTCCTTTTTTTTTTCTTTTTCATTTTGTATTTTGTTTTGTATTT
*
17138180 GTACTCGGGTTGGGTATTCGGGTTTTTTAATGCCGCC-ATCAACAAGGATGCACCATTAATTTTT
66 GTACTCGGGTTGGGTATTCGGGTTTTTTAATGCCGCCTATCAACAAGGCTGCACCATTAATTTTT
17138244 TTTAACTAAATCCGACGGGTGTGAGAAAATAGAGGTGGTGCTGCCTCTGCACCACCCTCCACCAC
131 TTTAACTAAATCCGACGGGTGTGAGAAAATAG-GGTGGTGCTGCCTCTG-ACCACCCTCCACCAC
* **
17138309 CCTTGGTATACCATTTTTGTAAATAATTCAGCTCACATATTATTTTAGATATTTTTAAATTTTTT
194 CCTTGGTATACCATTTTCGTAAATAATTCAGCTCGTATATTATTTTAGATATTTTTAAATTTTTT
*
17138374 ATATTATATATGTAAAAAAGCCACTAACTTACAAGTTGCTCAAAATACTAGTAAGGCATTTCACC
259 ATATTATATATGTAAAAAAGCCACTAACTTACAAGTTGCTCAAAATACTAGTAAGACATTTCACC
17138439 AAAAAAATAAATACTAATAAGACAAAAATCATAGAATAAATATGGCCTTGCAATGGAATTGCAAA
324 AAAAAAATAAATACTAATAAGACAAAAATCATAGAATAAATATGGCCTTGCAATGGAATTGCAAA
17138504 CAA
389 CAA
17138507 CTTCACCCTAATTTTTCAGTTTTCCTTTTTTTTTTCTTTTTCATTTTGTATTTTGTTTTGTATTT
1 CTTCACCCTAATTTTTCAGTTTTCCTTTTTTTTTTCTTTTTCATTTTGTATTTTGTTTTGTATTT
*
17138572 GTACTCGGGTTGGGTATTCGGGTTTTTTAATGCCGCCTATCAACAAGGCTGAACCATTAATTTTT
66 GTACTCGGGTTGGGTATTCGGGTTTTTTAATGCCGCCTATCAACAAGGCTGCACCATTAATTTTT
*
17138637 TTTAACTAAATCCGACGGGTGTGAGAAAATAGGGGTGGTGCTGCCTCTGTAGCACCCTCCACCAC
131 TTTAACTAAATCCGACGGGTGTGAGAAAATA-GGGTGGTGCTGCCTCTG-ACCACCCTCCACCAC
* *
17138702 TCTTGGTATACCATTTTCGTAAATAATTTAGCTCGTATATTATTTTAGATATTTTTAAA-TTTTT
194 CCTTGGTATACCATTTTCGTAAATAATTCAGCTCGTATATTATTTTAGATATTTTTAAATTTTTT
17138766 ATATTATATATGTAAAAAAGCCACTAACTTACAAGTTGCTCAAAATACTAGTAAGACATTTCACC
259 ATATTATATATGTAAAAAAGCCACTAACTTACAAGTTGCTCAAAATACTAGTAAGACATTTCACC
*
17138831 AAAAAAAATAAATACTAATAAGACAAAAATTATAGAATAAATATGGCCTTGCAATGGAATTGCAA
324 -AAAAAAATAAATACTAATAAGACAAAAATCATAGAATAAATATGGCCTTGCAATGGAATTGCAA
17138896 ACAA
388 ACAA
17138900 CTTCACCCTAATTTTTCAGTTTTCCTTTTTTTTTTCTTTTTCATTTTGTATTTTGTTTTGTATTT
1 CTTCACCCTAATTTTTCAGTTTTCCTTTTTTTTTTCTTTTTCATTTTGTATTTTGTTTTGTATTT
**
17138965 GTACTTAGGTTGGGTATTCGGGTTTTTTAATGCCGCCTATCAACAAGGCTGCACCATTAAAATTT
66 GTACTCGGGTTGGGTATTCGGGTTTTTTAATGCCGCCTATCAACAAGGCTGCACCATT--AATTT
*
17139030 TTTTTAACTAAATCCGACGGGTGTGAGAAAATA-----G-GCAG---C--ACCACCCTCCACCAC
129 TTTTTAACTAAATCCGACGGGTGTGAGAAAATAGGGTGGTGCTGCCTCTGACCACCCTCCACCAC
* *
17139084 CCTTGGTATACCATTTTCGTAAATAATTCAGCTAGTATATTTTTTTAGATATTTTTAAATTTTTT
194 CCTTGGTATACCATTTTCGTAAATAATTCAGCTCGTATATTATTTTAGATATTTTTAAATTTTTT
*
17139149 ATATTATATATGTAAAAAAGTCACTAACTTACAAGTTGCTCAAAATACTAGTAAGACATTTCACC
259 ATATTATATATGTAAAAAAGCCACTAACTTACAAGTTGCTCAAAATACTAGTAAGACATTTCACC
*
17139214 AAAAAAATAAATACTAATAAGACAAAAATCATAGAATAAATATGGCCTTGCAATGAAATTGCAAA
324 AAAAAAATAAATACTAATAAGACAAAAATCATAGAATAAATATGGCCTTGCAATGGAATTGCAAA
17139279 CAA
389 CAA
17139282 TTTGCAATTA
Statistics
Matches: 743, Mismatches: 26, Indels: 22
0.94 0.03 0.03
Matches are distributed among these distances:
382 135 0.18
383 69 0.09
385 1 0.00
388 3 0.00
389 1 0.00
392 168 0.23
393 327 0.44
394 1 0.00
395 38 0.05
ACGTcount: A:0.32, C:0.17, G:0.13, T:0.38
Consensus pattern (391 bp):
CTTCACCCTAATTTTTCAGTTTTCCTTTTTTTTTTCTTTTTCATTTTGTATTTTGTTTTGTATTT
GTACTCGGGTTGGGTATTCGGGTTTTTTAATGCCGCCTATCAACAAGGCTGCACCATTAATTTTT
TTTAACTAAATCCGACGGGTGTGAGAAAATAGGGTGGTGCTGCCTCTGACCACCCTCCACCACCC
TTGGTATACCATTTTCGTAAATAATTCAGCTCGTATATTATTTTAGATATTTTTAAATTTTTTAT
ATTATATATGTAAAAAAGCCACTAACTTACAAGTTGCTCAAAATACTAGTAAGACATTTCACCAA
AAAAATAAATACTAATAAGACAAAAATCATAGAATAAATATGGCCTTGCAATGGAATTGCAAACA
A
Found at i:17145019 original size:47 final size:47
Alignment explanation
Indices: 17144957--17145052 Score: 183
Period size: 47 Copynumber: 2.0 Consensus size: 47
17144947 ATGATTATTT
*
17144957 CATTGGATAGCACCATCCGCATTCAATTTAATCTAACCACATTTCGA
1 CATTGGATAGCACCATCCGCATTCAATTTAATCCAACCACATTTCGA
17145004 CATTGGATAGCACCATCCGCATTCAATTTAATCCAACCACATTTCGA
1 CATTGGATAGCACCATCCGCATTCAATTTAATCCAACCACATTTCGA
17145051 CA
1 CA
17145053 AACTCTATTT
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 48 1.00
ACGTcount: A:0.32, C:0.29, G:0.10, T:0.28
Consensus pattern (47 bp):
CATTGGATAGCACCATCCGCATTCAATTTAATCCAACCACATTTCGA
Found at i:17148783 original size:4 final size:4
Alignment explanation
Indices: 17148774--17148821 Score: 69
Period size: 4 Copynumber: 12.0 Consensus size: 4
17148764 CTACAAATAT
* * *
17148774 ATAC ATAC ATAC ATAC ATAC ATAC GTAC ATAC ATAC ATGC ATGC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
17148822 CCTTCGTATG
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
4 40 1.00
ACGTcount: A:0.44, C:0.25, G:0.06, T:0.25
Consensus pattern (4 bp):
ATAC
Found at i:17153963 original size:15 final size:15
Alignment explanation
Indices: 17153943--17153976 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
17153933 GAGGTAGTAC
17153943 AACAGAACAAAGCAA
1 AACAGAACAAAGCAA
* *
17153958 AACAGAACAGAGCAG
1 AACAGAACAAAGCAA
17153973 AACA
1 AACA
17153977 ACGTAATTCA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.62, C:0.21, G:0.18, T:0.00
Consensus pattern (15 bp):
AACAGAACAAAGCAA
Found at i:17154028 original size:20 final size:20
Alignment explanation
Indices: 17153991--17154029 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
17153981 AATTCAAATA
*
17153991 GAACAGAACCGAATAGAGCG
1 GAACAGAACCGAACAGAGCG
* *
17154011 GAACAGAACGGAGCAGAGC
1 GAACAGAACCGAACAGAGC
17154030 AAAACAAAGC
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.44, C:0.21, G:0.33, T:0.03
Consensus pattern (20 bp):
GAACAGAACCGAACAGAGCG
Found at i:17162811 original size:29 final size:30
Alignment explanation
Indices: 17162760--17162818 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
17162750 TTAAATGCTC
*
17162760 AAATCATTTTACAAGTACTCAAATAAAGGTT
1 AAATCATTTTAAAAGTACTCAAAT-AAGGTT
*
17162791 AAATC-TTTTAAAATTA-TCAAATAAGGTT
1 AAATCATTTTAAAAGTACTCAAATAAGGTT
17162819 TTAACTTTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
28 6 0.23
29 6 0.23
30 9 0.35
31 5 0.19
ACGTcount: A:0.46, C:0.10, G:0.08, T:0.36
Consensus pattern (30 bp):
AAATCATTTTAAAAGTACTCAAATAAGGTT
Found at i:17163962 original size:37 final size:37
Alignment explanation
Indices: 17163912--17163987 Score: 152
Period size: 37 Copynumber: 2.1 Consensus size: 37
17163902 ATCACCTTTT
17163912 TCTCTTTGTCCTCATTTATAGCTAACCTGAGTGTTAG
1 TCTCTTTGTCCTCATTTATAGCTAACCTGAGTGTTAG
17163949 TCTCTTTGTCCTCATTTATAGCTAACCTGAGTGTTAG
1 TCTCTTTGTCCTCATTTATAGCTAACCTGAGTGTTAG
17163986 TC
1 TC
17163988 AAGAATCATC
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 39 1.00
ACGTcount: A:0.18, C:0.22, G:0.16, T:0.43
Consensus pattern (37 bp):
TCTCTTTGTCCTCATTTATAGCTAACCTGAGTGTTAG
Found at i:17164653 original size:6 final size:7
Alignment explanation
Indices: 17164634--17164660 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
17164624 GAAGTGAAAT
17164634 ACAAAAA
1 ACAAAAA
17164641 ACAAAAA
1 ACAAAAA
17164648 ACAAAAA
1 ACAAAAA
17164655 ACAAAA
1 ACAAAA
17164661 GAAAAATAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.85, C:0.15, G:0.00, T:0.00
Consensus pattern (7 bp):
ACAAAAA
Found at i:17167439 original size:131 final size:131
Alignment explanation
Indices: 17167205--17167466 Score: 515
Period size: 131 Copynumber: 2.0 Consensus size: 131
17167195 TTTAAATACA
17167205 AACAGGAAGTATAATTTTCATCCAAGCAATAGAAAGCAATGTTTTTGAAAGCATTAAAGATTTAT
1 AACAGGAAGTATAATTTTCATCCAAGCAATAGAAAGCAATGTTTTTGAAAGCATTAAAGATTTAT
17167270 CCACAAGATTGAACAAGTTCCTACTCTAATCGCAAAAGAAGCAACTGCAACGCAACCATGCCAAG
66 CCACAAGATTGAACAAGTTCCTACTCTAATCGCAAAAGAAGCAACTGCAACGCAACCATGCCAAG
17167335 C
131 C
*
17167336 AACAGGAAGTATAATTTTCATCCAAGCAATAGAAAGCAATGTTTTTGAAAGCATTAAAGCTTTAT
1 AACAGGAAGTATAATTTTCATCCAAGCAATAGAAAGCAATGTTTTTGAAAGCATTAAAGATTTAT
17167401 CCACAAGATTGAACAAGTTCCTACTCTAATCGCAAAAGAAGCAACTGCAACGCAACCATGCCAAG
66 CCACAAGATTGAACAAGTTCCTACTCTAATCGCAAAAGAAGCAACTGCAACGCAACCATGCCAAG
17167466 C
131 C
17167467 TTGACCATTT
Statistics
Matches: 130, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
131 130 1.00
ACGTcount: A:0.41, C:0.21, G:0.15, T:0.23
Consensus pattern (131 bp):
AACAGGAAGTATAATTTTCATCCAAGCAATAGAAAGCAATGTTTTTGAAAGCATTAAAGATTTAT
CCACAAGATTGAACAAGTTCCTACTCTAATCGCAAAAGAAGCAACTGCAACGCAACCATGCCAAG
C
Found at i:17170958 original size:19 final size:18
Alignment explanation
Indices: 17170917--17170955 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 18
17170907 TCAAGTAAAG
*
17170917 AAAGACAAAAACGCAAAT
1 AAAGACAAAAACACAAAT
17170935 AAAGACAAAAACACAAAT
1 AAAGACAAAAACACAAAT
17170953 AAA
1 AAA
17170956 AGATGACCCT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.72, C:0.15, G:0.08, T:0.05
Consensus pattern (18 bp):
AAAGACAAAAACACAAAT
Found at i:17176683 original size:51 final size:51
Alignment explanation
Indices: 17176601--17176987 Score: 344
Period size: 51 Copynumber: 7.6 Consensus size: 51
17176591 GATGAACACG
* *
17176601 TGTGTAGTACTGTGTGAAGGCTACTACGTGTATCGATAAATAATT-GTTACA
1 TGTGTAGTACTATGTGAAGGCTACTACGTGTATCGATAAAT-ATTGGTCACA
* * * * * * * *
17176652 TGTCTAGTACTAAGTGAAGGCTACAATGTGTACCGAGAAGCT-TTGGTCACG
1 TGTGTAGTACTATGTGAAGGCTACTACGTGTATCGATAA-ATATTGGTCACA
* *
17176703 TGTGTAGTACTATGTGAAGGCTACTACGTGAATCGATAAATGA-TGGTCATA
1 TGTGTAGTACTATGTGAAGGCTACTACGTGTATCGATAAAT-ATTGGTCACA
* * * *
17176754 TGTGTAGTACTAAGTGAAGGCTACTATGTGTATCGA-AAAGTTTTGGTCACG
1 TGTGTAGTACTATGTGAAGGCTACTACGTGTATCGATAAA-TATTGGTCACA
* * * * *
17176805 TGTGTAGTACTATGTGAAGGCTACTACATGAATCG-TAAAAACTTGATCACG
1 TGTGTAGTACTATGTGAAGGCTACTACGTGTATCGATAAATA-TTGGTCACA
* * * * *
17176856 TGTGTAGTACTATGTGGAGGCTACTACGTG--CCG-TAAAAACTTGATCACG
1 TGTGTAGTACTATGTGAAGGCTACTACGTGTATCGATAAATA-TTGGTCACA
* * * * *
17176905 TGTGTAGTACTATGTGAAGGCTGCTACGTGAACCG-TAAA-ACTTGATCACG
1 TGTGTAGTACTATGTGAAGGCTACTACGTGTATCGATAAATA-TTGGTCACA
* *
17176955 TGTGTAGTACTATGTGGAGGCTACTATGTGTAT
1 TGTGTAGTACTATGTGAAGGCTACTACGTGTAT
17176988 TGAATGATAA
Statistics
Matches: 283, Mismatches: 43, Indels: 21
0.82 0.12 0.06
Matches are distributed among these distances:
49 46 0.16
50 45 0.16
51 191 0.67
52 1 0.00
ACGTcount: A:0.28, C:0.14, G:0.26, T:0.31
Consensus pattern (51 bp):
TGTGTAGTACTATGTGAAGGCTACTACGTGTATCGATAAATATTGGTCACA
Found at i:17176773 original size:102 final size:101
Alignment explanation
Indices: 17176597--17176986 Score: 459
Period size: 102 Copynumber: 3.9 Consensus size: 101
17176587 TATCGATGAA
* * * *
17176597 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGTATCGATAAATAATTG-TTACATGTCTAGTA
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATCG-TAAATAA-TGATCACATGTGTAGTA
* *
17176661 CTAAGTGAAGGCTACAATGTGTACCGAGAAGCTTTGGT
64 CTAAGTGAAGGCTACTATGTGTACCGAAAAGCTTTGGT
* * *
17176699 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATCGATAAATGATGGTCATATGTGTAGTAC
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATCG-TAAATAATGATCACATGTGTAGTAC
* *
17176764 TAAGTGAAGGCTACTATGTGTATCGAAAAGTTTTGGT
65 TAAGTGAAGGCTACTATGTGTACCGAAAAGCTTTGGT
* *
17176801 CACGTGTGTAGTACTATGTGAAGGCTACTACATGAATCGTAAA-AACTTGATCACGTGTGTAGTA
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATCGTAAATAA--TGATCACATGTGTAGTA
* * * * *
17176865 CTATGTGGAGGCTACTACGTG--CCGTAAAAAC-TTGAT
64 CTAAGTGAAGGCTACTATGTGTACCG-AAAAGCTTTGGT
* * * *
17176901 CACGTGTGTAGTACTATGTGAAGGCTGCTACGTGAACCGTAAA-ACTTGATCACGTGTGTAGTAC
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATCGTAAATA-ATGATCACATGTGTAGTAC
* *
17176965 TATGTGGAGGCTACTATGTGTA
65 TAAGTGAAGGCTACTATGTGTA
17176987 TTGAATGATA
Statistics
Matches: 254, Mismatches: 27, Indels: 15
0.86 0.09 0.05
Matches are distributed among these distances:
99 37 0.15
100 48 0.19
101 10 0.04
102 159 0.63
ACGTcount: A:0.28, C:0.15, G:0.26, T:0.31
Consensus pattern (101 bp):
CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATCGTAAATAATGATCACATGTGTAGTACT
AAGTGAAGGCTACTATGTGTACCGAAAAGCTTTGGT
Found at i:17176856 original size:153 final size:149
Alignment explanation
Indices: 17176601--17176980 Score: 390
Period size: 153 Copynumber: 2.5 Consensus size: 149
17176591 GATGAACACG
* * * * *
17176601 TGTGTAGTACTGTGTGAAGGCTACTACGTGTATCGATAAATAATT-GTTACATGTCTAGTACTAA
1 TGTGTAGTACTATGTGAAGGCTACTACGTGTATCGA-AAAT-ATTGGTCACGTGTGTAGTACTAT
* ** * * * *
17176665 GTGAAGGCTACAATGTGTACCGAGAAGCTTTGGTCACGTGTGTAGTACTATGTGAAGGCTACTAC
64 GTGAAGGCTACTACATGAACCGAAAAACTTTGATCACGTGTGTAGTACTATGTGAAGGCTACTAC
* * * *
17176730 GTGAATCGATAAATGA-TGGTCATA
129 GTG--CCG-TAAA-AACTGATCACA
* * *
17176754 TGTGTAGTACTAAGTGAAGGCTACTATGTGTATCGAAAAGTTTTGGTCACGTGTGTAGTACTATG
1 TGTGTAGTACTATGTGAAGGCTACTACGTGTATCGAAAA-TATTGGTCACGTGTGTAGTACTATG
* *
17176819 TGAAGGCTACTACATGAATCGTAAAAAC-TTGATCACGTGTGTAGTACTATGTGGAGGCTACTAC
65 TGAAGGCTACTACATGAACCG-AAAAACTTTGATCACGTGTGTAGTACTATGTGAAGGCTACTAC
*
17176883 GTGCCGTAAAAACTTGATCACG
129 GTGCCGTAAAAAC-TGATCACA
* * * * *
17176905 TGTGTAGTACTATGTGAAGGCTGCTACGTGAACCGTAAAA-CTTGATCACGTGTGTAGTACTATG
1 TGTGTAGTACTATGTGAAGGCTACTACGTGTATCG-AAAATATTGGTCACGTGTGTAGTACTATG
*
17176969 TGGAGGCTACTA
65 TGAAGGCTACTA
17176981 TGTGTATTGA
Statistics
Matches: 191, Mismatches: 30, Indels: 15
0.81 0.13 0.06
Matches are distributed among these distances:
149 1 0.01
150 37 0.19
151 37 0.19
152 9 0.05
153 103 0.54
154 4 0.02
ACGTcount: A:0.29, C:0.15, G:0.26, T:0.31
Consensus pattern (149 bp):
TGTGTAGTACTATGTGAAGGCTACTACGTGTATCGAAAATATTGGTCACGTGTGTAGTACTATGT
GAAGGCTACTACATGAACCGAAAAACTTTGATCACGTGTGTAGTACTATGTGAAGGCTACTACGT
GCCGTAAAAACTGATCACA
Found at i:17179380 original size:69 final size:68
Alignment explanation
Indices: 17179288--17179422 Score: 189
Period size: 68 Copynumber: 2.0 Consensus size: 68
17179278 TCTTTAAACT
* *
17179288 TAATCACTTTAATATTAAATTAATATAATATTTATCAAGATAAACAGTAAATTAAATTTAATATT
1 TAATCACTTTAATATTAAATTAATAAAATA-CTATCAAGATAAACAGTAAATTAAATTTAATATT
17179353 AAGA
65 AAGA
* * ** * *
17179357 TAATCACTTTAATATTAAATTAATAAAATACTATTAGGATAAGTATTAAATTAAATTTCATATTA
1 TAATCACTTTAATATTAAATTAATAAAATACTATCAAGATAAACAGTAAATTAAATTTAATATTA
17179422 A
66 A
17179423 ACTATTAAAA
Statistics
Matches: 58, Mismatches: 8, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
68 29 0.50
69 29 0.50
ACGTcount: A:0.50, C:0.06, G:0.04, T:0.40
Consensus pattern (68 bp):
TAATCACTTTAATATTAAATTAATAAAATACTATCAAGATAAACAGTAAATTAAATTTAATATTA
AGA
Found at i:17186091 original size:24 final size:24
Alignment explanation
Indices: 17186064--17186118 Score: 60
Period size: 24 Copynumber: 2.3 Consensus size: 24
17186054 ATATATCACA
*
17186064 ATTATAA-AATTACATAATATAAAT
1 ATTATAACAATTACATAA-AAAAAT
*
17186088 ATTATAGACAATTATATAAAAAAAT
1 ATTATA-ACAATTACATAAAAAAAT
17186113 A-TATAA
1 ATTATAA
17186119 TGAGATAGGT
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
23 1 0.04
24 10 0.37
25 7 0.26
26 9 0.33
ACGTcount: A:0.60, C:0.04, G:0.02, T:0.35
Consensus pattern (24 bp):
ATTATAACAATTACATAAAAAAAT
Found at i:17187788 original size:3 final size:3
Alignment explanation
Indices: 17187780--17187842 Score: 126
Period size: 3 Copynumber: 21.0 Consensus size: 3
17187770 CACTTAGCTT
17187780 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
17187828 GAA GAA GAA GAA GAA
1 GAA GAA GAA GAA GAA
17187843 AGCCAATTTC
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 60 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:17189403 original size:30 final size:31
Alignment explanation
Indices: 17189337--17189405 Score: 88
Period size: 31 Copynumber: 2.3 Consensus size: 31
17189327 ATGTTAGTGG
*
17189337 GTGACTAATTTGTTACTTTTCGATAACGTTA
1 GTGACTGATTTGTTACTTTTCGATAACGTTA
* *
17189368 GTGACTGATTTGTTATTTTTTGA-AA-GTTAA
1 GTGACTGATTTGTTACTTTTCGATAACGTT-A
17189398 GTGACTGA
1 GTGACTGA
17189406 GTTGAAAGTT
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
29 3 0.09
30 11 0.32
31 20 0.59
ACGTcount: A:0.26, C:0.09, G:0.20, T:0.45
Consensus pattern (31 bp):
GTGACTGATTTGTTACTTTTCGATAACGTTA
Found at i:17198258 original size:24 final size:24
Alignment explanation
Indices: 17198205--17198259 Score: 60
Period size: 24 Copynumber: 2.3 Consensus size: 24
17198195 ATGGAGATGA
* * *
17198205 AAAACTAA-AACCCTGAAAACTTG
1 AAAACAAAGAACCCTCAAAACGTG
17198228 AAAACAAAGAACCCTCAAAACGT-
1 AAAACAAAGAACCCTCAAAACGTG
17198251 AAATACAAA
1 AAA-ACAAA
17198260 ATTCTCTAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
23 10 0.37
24 17 0.63
ACGTcount: A:0.58, C:0.22, G:0.07, T:0.13
Consensus pattern (24 bp):
AAAACAAAGAACCCTCAAAACGTG
Found at i:17198814 original size:6 final size:6
Alignment explanation
Indices: 17198803--17198842 Score: 80
Period size: 6 Copynumber: 6.7 Consensus size: 6
17198793 GTAAAACATA
17198803 ATAATT ATAATT ATAATT ATAATT ATAATT ATAATT ATAA
1 ATAATT ATAATT ATAATT ATAATT ATAATT ATAATT ATAA
17198843 AAAGTCACTT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 34 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (6 bp):
ATAATT
Found at i:17204118 original size:23 final size:23
Alignment explanation
Indices: 17204069--17204122 Score: 65
Period size: 24 Copynumber: 2.3 Consensus size: 23
17204059 GAATTTCATA
*
17204069 TTTTTCTATTGCTTTTGGATTGCT
1 TTTTTCTATTGATTTTGGATT-CT
*
17204093 TTTTTCTGTTGATTTTGGACTT-T
1 TTTTTCTATTGATTTTGGA-TTCT
17204116 TTTTTCT
1 TTTTTCT
17204123 TTTTTTGATT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
23 8 0.30
24 17 0.63
25 2 0.07
ACGTcount: A:0.07, C:0.11, G:0.15, T:0.67
Consensus pattern (23 bp):
TTTTTCTATTGATTTTGGATTCT
Found at i:17210153 original size:30 final size:30
Alignment explanation
Indices: 17210108--17210165 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 30
17210098 AAGAAGTTAC
17210108 GAACATTCAGGGAAAAAATCAAAACAAATCA
1 GAACATTCAGGGAAAAAATCAAAA-AAATCA
* *
17210139 GAACTTTCA-GGAAAAATTCAAAAAAAT
1 GAACATTCAGGGAAAAAATCAAAAAAAT
17210166 TTCAAGTTAG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 4 0.16
30 13 0.52
31 8 0.32
ACGTcount: A:0.57, C:0.14, G:0.12, T:0.17
Consensus pattern (30 bp):
GAACATTCAGGGAAAAAATCAAAAAAATCA
Found at i:17211532 original size:17 final size:17
Alignment explanation
Indices: 17211510--17211544 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
17211500 GGACGAAAAT
*
17211510 AGGCCATTTTTCAGGCC
1 AGGCCATTTTCCAGGCC
17211527 AGGCCATTTTCCAGGCC
1 AGGCCATTTTCCAGGCC
17211544 A
1 A
17211545 CATTTCTCAC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.20, C:0.31, G:0.23, T:0.26
Consensus pattern (17 bp):
AGGCCATTTTCCAGGCC
Found at i:17212567 original size:27 final size:27
Alignment explanation
Indices: 17212536--17212620 Score: 95
Period size: 27 Copynumber: 3.2 Consensus size: 27
17212526 CGGAGAGTCA
17212536 TTAATTTGGAAGCTCATAAAAGAGCCT
1 TTAATTTGGAAGCTCATAAAAGAGCCT
* * *
17212563 TTAA-TTGAGAAGCTC--CAGAGAGCCA
1 TTAATTTG-GAAGCTCATAAAAGAGCCT
**
17212588 TTAATCAGGAAGCTCATAAAAGAGCCT
1 TTAATTTGGAAGCTCATAAAAGAGCCT
17212615 TTAATT
1 TTAATT
17212621 GAGAACCTCT
Statistics
Matches: 45, Mismatches: 9, Indels: 8
0.73 0.15 0.13
Matches are distributed among these distances:
25 18 0.40
26 4 0.09
27 23 0.51
ACGTcount: A:0.38, C:0.16, G:0.19, T:0.27
Consensus pattern (27 bp):
TTAATTTGGAAGCTCATAAAAGAGCCT
Found at i:17212590 original size:52 final size:52
Alignment explanation
Indices: 17212528--17212658 Score: 199
Period size: 52 Copynumber: 2.5 Consensus size: 52
17212518 AAAAGATACG
* ** *
17212528 GAGAGTCATTAATTTGGAAGCTCATAAAAGAGCCTTTAATTGAGAAGCTCCA
1 GAGAGCCATTAATCAGGAAGCTCATAAAAGAGCCTTTAATTGAGAACCTCCA
*
17212580 GAGAGCCATTAATCAGGAAGCTCATAAAAGAGCCTTTAATTGAGAACCTCTA
1 GAGAGCCATTAATCAGGAAGCTCATAAAAGAGCCTTTAATTGAGAACCTCCA
* *
17212632 GAGAGCCATTTATCAGGACGCTCATAA
1 GAGAGCCATTAATCAGGAAGCTCATAA
17212659 GAGCTGCGGT
Statistics
Matches: 72, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
52 72 1.00
ACGTcount: A:0.37, C:0.18, G:0.21, T:0.24
Consensus pattern (52 bp):
GAGAGCCATTAATCAGGAAGCTCATAAAAGAGCCTTTAATTGAGAACCTCCA
Found at i:17212591 original size:25 final size:25
Alignment explanation
Indices: 17212528--17212641 Score: 79
Period size: 27 Copynumber: 4.4 Consensus size: 25
17212518 AAAAGATACG
*
17212528 GAGAGTCATTAATTTG-GAAGCTCATAA
1 GAGAGCCATTAA-TTGAGAAGCTC--AA
* * *
17212555 AAGAGCCTTTAATTGAGAAGCTCCA
1 GAGAGCCATTAATTGAGAAGCTCAA
*
17212580 GAGAGCCATTAA-TCAGGAAGCTCATAA
1 GAGAGCCATTAATTGA-GAAGCTC--AA
* * * *
17212607 AAGAGCCTTTAATTGAGAACCTCTA
1 GAGAGCCATTAATTGAGAAGCTCAA
17212632 GAGAGCCATT
1 GAGAGCCATT
17212642 TATCAGGACG
Statistics
Matches: 67, Mismatches: 15, Indels: 12
0.71 0.16 0.13
Matches are distributed among these distances:
24 2 0.03
25 27 0.40
26 3 0.04
27 33 0.49
28 2 0.03
ACGTcount: A:0.37, C:0.18, G:0.21, T:0.25
Consensus pattern (25 bp):
GAGAGCCATTAATTGAGAAGCTCAA
Found at i:17212661 original size:25 final size:25
Alignment explanation
Indices: 17212581--17212662 Score: 62
Period size: 25 Copynumber: 3.2 Consensus size: 25
17212571 GAAGCTCCAG
* *
17212581 AGAGCCATTAATCAGGAAGCTCATAAA
1 AGAGCCATTTATCAGGACGCTCAT--A
* *
17212608 AGAGCC-TTTAATTGAGAAC-CTC-TA
1 AGAGCCATTT-A-TCAGGACGCTCATA
17212632 GAGAGCCATTTATCAGGACGCTCATA
1 -AGAGCCATTTATCAGGACGCTCATA
17212658 AGAGC
1 AGAGC
17212663 TGCGGTGTGT
Statistics
Matches: 43, Mismatches: 6, Indels: 14
0.68 0.10 0.22
Matches are distributed among these distances:
24 6 0.14
25 15 0.35
26 8 0.19
27 10 0.23
28 4 0.09
ACGTcount: A:0.37, C:0.21, G:0.21, T:0.22
Consensus pattern (25 bp):
AGAGCCATTTATCAGGACGCTCATA
Found at i:17212803 original size:24 final size:24
Alignment explanation
Indices: 17212701--17212804 Score: 75
Period size: 24 Copynumber: 4.3 Consensus size: 24
17212691 TACAACCAAT
*
17212701 CAGGATGCTCA-GAAGAGCTATTAA
1 CAGGATGCTCATG-AGAGCTAATAA
** * * * *
17212725 TGGGAAGCTCGTGAGAGCTATTTAT
1 CAGGATGCTCATGAGAGCTA-ATAA
* * * *
17212750 CAGGAAGCTCAAGAGAGCCAATAT
1 CAGGATGCTCATGAGAGCTAATAA
17212774 CAGGATGCTCATGAGAGCTAATAA
1 CAGGATGCTCATGAGAGCTAATAA
*
17212798 CGGGATG
1 CAGGATG
17212805 TTCTTATGAG
Statistics
Matches: 62, Mismatches: 16, Indels: 4
0.76 0.20 0.05
Matches are distributed among these distances:
24 43 0.69
25 19 0.31
ACGTcount: A:0.34, C:0.16, G:0.29, T:0.21
Consensus pattern (24 bp):
CAGGATGCTCATGAGAGCTAATAA
Found at i:17220202 original size:24 final size:24
Alignment explanation
Indices: 17220171--17220255 Score: 82
Period size: 24 Copynumber: 3.5 Consensus size: 24
17220161 CCATGTAAGG
*
17220171 GGAAGCTCATAAGAGCCATAATCG
1 GGAAGCTCATAAGAGCCATAATCA
**
17220195 GGAAGCTCATGCGAGCCA-ATATCA
1 GGAAGCTCATAAGAGCCATA-ATCA
*** *
17220219 GGAAGCTCCGGAGAACCATTAATCA
1 GGAAGCTCATAAGAGCCA-TAATCA
17220244 GGAAGCTCATAA
1 GGAAGCTCATAA
17220256 AAGAGCCTTT
Statistics
Matches: 48, Mismatches: 10, Indels: 5
0.76 0.16 0.08
Matches are distributed among these distances:
23 1 0.02
24 33 0.69
25 13 0.27
26 1 0.02
ACGTcount: A:0.36, C:0.22, G:0.25, T:0.16
Consensus pattern (24 bp):
GGAAGCTCATAAGAGCCATAATCA
Found at i:17221558 original size:15 final size:16
Alignment explanation
Indices: 17221508--17221568 Score: 67
Period size: 15 Copynumber: 3.9 Consensus size: 16
17221498 AATGAGCAAG
17221508 ATAAA-AAATAATATAA
1 ATAAACAAATAA-ATAA
*
17221524 ATGAAA-ACATAAATAA
1 AT-AAACAAATAAATAA
17221540 ATAAACAAATAAA-AA
1 ATAAACAAATAAATAA
17221555 ATAAACAAA-AAATA
1 ATAAACAAATAAATA
17221569 TAAAGAATAA
Statistics
Matches: 40, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
14 3 0.08
15 15 0.38
16 14 0.35
17 8 0.20
ACGTcount: A:0.75, C:0.05, G:0.02, T:0.18
Consensus pattern (16 bp):
ATAAACAAATAAATAA
Found at i:17221577 original size:20 final size:19
Alignment explanation
Indices: 17221534--17221579 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
17221524 ATGAAAACAT
*
17221534 AAATAAATAAACAAATAAA
1 AAATAAACAAACAAATAAA
17221553 AAATAAACAAA-AAATATAA
1 AAATAAACAAACAAATA-AA
17221572 AGAATAAA
1 A-AATAAA
17221580 AGGTACATGA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
18 5 0.21
19 13 0.54
20 6 0.25
ACGTcount: A:0.78, C:0.04, G:0.02, T:0.15
Consensus pattern (19 bp):
AAATAAACAAACAAATAAA
Found at i:17223909 original size:44 final size:44
Alignment explanation
Indices: 17223726--17224564 Score: 552
Period size: 44 Copynumber: 19.6 Consensus size: 44
17223716 GTCTGCCTCA
* * * * * *
17223726 CTGCCAATATAAGAAGACAGGATTTGCTATTTTCGATCAACTTC
1 CTGCCAATATAGGAAGACAAGATCTGTTATCTTCGATCTACTTC
* * * *
17223770 AC-GCCAATACATGAAGACAAGATCTGCTT-TCTTTGATCTATTTC
1 -CTGCCAATATAGGAAGACAAGATCTG-TTATCTTCGATCTACTTC
** * **
17223814 GCCACCAATATAGGAAGACAAGATCTG-CATCTTCGATCCCCTTC
1 -CTGCCAATATAGGAAGACAAGATCTGTTATCTTCGATCTACTTC
* *
17223858 CTACCAATATAGGAAGACAGGATCTGTTATCTTCGATCTACTTC
1 CTGCCAATATAGGAAGACAAGATCTGTTATCTTCGATCTACTTC
* * * * * **
17223902 ATGCCAATACATGAAGACAAGATCAGCTT-TCTTCGACCTACTGG
1 CTGCCAATATAGGAAGACAAGATCTG-TTATCTTCGATCTACTTC
* * *
17223946 C-GACCAATATGGGAAGACAAGATCTG--GTCTTCGATCCACTTC
1 CTG-CCAATATAGGAAGACAAGATCTGTTATCTTCGATCTACTTC
* *
17223988 CTACCAATGTAGGAAGACAAGATCTG----C-T--A--T-CTT-
1 CTGCCAATATAGGAAGACAAGATCTGTTATCTTCGATCTACTTC
* *
17224021 C-GCCAATACATGAAGACAAGATCTGCTT-TCTTCGATCTACTTC
1 CTGCCAATATAGGAAGACAAGATCTG-TTATCTTCGATCTACTTC
** * *
17224064 GCCACCAATATGGGAAGACAAGATC---TAGTCTTCGATCCACTTC
1 -CTGCCAATATAGGAAGACAAGATCTGTTA-TCTTCGATCTACTTC
* * * *
17224107 CTACCAATATAGGAAGACAGGATATGCTATCTTCGATCTACTTC
1 CTGCCAATATAGGAAGACAAGATCTGTTATCTTCGATCTACTTC
* * * * *
17224151 ATGCCAATACATGAAGACAAGATCTGCTT-TCTTTGATCTAGTTC
1 CTGCCAATATAGGAAGACAAGATCTG-TTATCTTCGATCTACTTC
** * * *
17224195 GCCACCAGTATGGGAAGACAAGATCTG-CATCTTCGA--TA----
1 -CTGCCAATATAGGAAGACAAGATCTGTTATCTTCGATCTACTTC
* **
17224233 ---CCAATATAGGAAGACAGGATCTACTATCTTCGATCTACTTC
1 CTGCCAATATAGGAAGACAAGATCTGTTATCTTCGATCTACTTC
* * *
17224274 GTGCCAATACATGAAGACAAGATCTGCTT-TCTTCGATCTACTTC
1 CTGCCAATATAGGAAGACAAGATCTG-TTATCTTCGATCTACTTC
** * * * *
17224318 GCCACCAGTATGGGAAGACAAGATCTG-CATCTTCGATCCACTTC
1 -CTGCCAATATAGGAAGACAAGATCTGTTATCTTCGATCTACTTC
* *
17224362 GCTACCAATATAGGAAGACATGATCTGTTATCTTCGATCTACTTC
1 -CTGCCAATATAGGAAGACAAGATCTGTTATCTTCGATCTACTTC
* * *
17224407 AC-GCCAGTACATGAAGACAAGATCTGCTT-TCTTCGATCTACTTC
1 -CTGCCAATATAGGAAGACAAGATCTG-TTATCTTCGATCTACTTC
** * * * *
17224451 GCCACCAATATGGGAATACAAGATCTG-CATCTTCGATCCACTTC
1 -CTGCCAATATAGGAAGACAAGATCTGTTATCTTCGATCTACTTC
* *
17224495 GCTACCAATATAGGAAGACAGGATCTGTTATCTTCGATCTACTTC
1 -CTGCCAATATAGGAAGACAAGATCTGTTATCTTCGATCTACTTC
* *
17224540 AC-GCCAATACATGAAGACAAGATCT
1 -CTGCCAATATAGGAAGACAAGATCT
17224565 ACTATTTTTT
Statistics
Matches: 619, Mismatches: 128, Indels: 95
0.74 0.15 0.11
Matches are distributed among these distances:
32 20 0.03
33 1 0.00
34 22 0.04
35 8 0.01
36 1 0.00
37 4 0.01
39 2 0.00
40 1 0.00
41 2 0.00
42 58 0.09
43 39 0.06
44 324 0.52
45 137 0.22
ACGTcount: A:0.30, C:0.25, G:0.17, T:0.28
Consensus pattern (44 bp):
CTGCCAATATAGGAAGACAAGATCTGTTATCTTCGATCTACTTC
Found at i:17224245 original size:34 final size:35
Alignment explanation
Indices: 17224198--17224266 Score: 95
Period size: 34 Copynumber: 2.0 Consensus size: 35
17224188 CTAGTTCGCC
* * *
17224198 ACCAGTATGGGAAGACAAGATCTGC-ATCTTCGAT
1 ACCAATATAGGAAGACAAGATCTACTATCTTCGAT
*
17224232 ACCAATATAGGAAGACAGGATCTACTATCTTCGAT
1 ACCAATATAGGAAGACAAGATCTACTATCTTCGAT
17224267 CTACTTCGTG
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
34 21 0.70
35 9 0.30
ACGTcount: A:0.35, C:0.20, G:0.20, T:0.25
Consensus pattern (35 bp):
ACCAATATAGGAAGACAAGATCTACTATCTTCGAT
Found at i:17224379 original size:89 final size:90
Alignment explanation
Indices: 17224232--17224564 Score: 372
Period size: 89 Copynumber: 3.8 Consensus size: 90
17224222 CATCTTCGAT
* * * *
17224232 ACCAATATAGGAAGACAGGATCTACTATCTTCGATCTACTTCG-TGCCAATACATGAAGACAAGA
1 ACCAATATAGGAAGACAAGATCTGCTATCTTCGATCTACTTCGCTACCAATACAGGAAGACAAGA
17224296 TCTGCTTTCTTCGATCTACTTCGCC
66 TCTGCTTTCTTCGATCTACTTCGCC
* * * * *
17224321 ACCAGTATGGGAAGACAAGATCTGC-ATCTTCGATCCACTTCGCTACCAATATAGGAAGACATGA
1 ACCAATATAGGAAGACAAGATCTGCTATCTTCGATCTACTTCGCTACCAATACAGGAAGACAAGA
*
17224385 TCTG-TTATCTTCGATCTACTTC-AC
66 TCTGCTT-TCTTCGATCTACTTCGCC
* * * * * * ** *
17224409 GCCAGTACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAATACAAGA
1 ACCAATATAGGAAGACAAGATCTGCTATCTTCGATCTACTTCGCTACCAATACAGGAAGACAAGA
* * *
17224474 TCTGC-ATCTTCGATCCACTTCGCT
66 TCTGCTTTCTTCGATCTACTTCGCC
* * * * *
17224498 ACCAATATAGGAAGACAGGATCTGTTATCTTCGATCTACTTCAC-GCCAATACATGAAGACAAGA
1 ACCAATATAGGAAGACAAGATCTGCTATCTTCGATCTACTTCGCTACCAATACAGGAAGACAAGA
17224562 TCT
66 TCT
17224565 ACTATTTTTT
Statistics
Matches: 202, Mismatches: 37, Indels: 11
0.81 0.15 0.04
Matches are distributed among these distances:
88 72 0.36
89 130 0.64
ACGTcount: A:0.30, C:0.26, G:0.17, T:0.28
Consensus pattern (90 bp):
ACCAATATAGGAAGACAAGATCTGCTATCTTCGATCTACTTCGCTACCAATACAGGAAGACAAGA
TCTGCTTTCTTCGATCTACTTCGCC
Found at i:17224406 original size:133 final size:133
Alignment explanation
Indices: 17224225--17224564 Score: 599
Period size: 133 Copynumber: 2.6 Consensus size: 133
17224215 AGATCTGCAT
* ** **
17224225 CTTCGATACCAATATAGGAAGACAGGATCTACTATCTTCGATCTACTTCGTGCCAATACATGAAG
1 CTTCGCTACCAATATAGGAAGACAGGATCTGTTATCTTCGATCTACTTCACGCCAATACATGAAG
*
17224290 ACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGCATCTTCGAT
66 ACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGAT
17224355 CCA
131 CCA
* *
17224358 CTTCGCTACCAATATAGGAAGACATGATCTGTTATCTTCGATCTACTTCACGCCAGTACATGAAG
1 CTTCGCTACCAATATAGGAAGACAGGATCTGTTATCTTCGATCTACTTCACGCCAATACATGAAG
*
17224423 ACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAATACAAGATCTGCATCTTCGAT
66 ACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGAT
17224488 CCA
131 CCA
17224491 CTTCGCTACCAATATAGGAAGACAGGATCTGTTATCTTCGATCTACTTCACGCCAATACATGAAG
1 CTTCGCTACCAATATAGGAAGACAGGATCTGTTATCTTCGATCTACTTCACGCCAATACATGAAG
17224556 ACAAGATCT
66 ACAAGATCT
17224565 ACTATTTTTT
Statistics
Matches: 196, Mismatches: 11, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
133 196 1.00
ACGTcount: A:0.30, C:0.26, G:0.16, T:0.28
Consensus pattern (133 bp):
CTTCGCTACCAATATAGGAAGACAGGATCTGTTATCTTCGATCTACTTCACGCCAATACATGAAG
ACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGAT
CCA
Found at i:17225234 original size:26 final size:25
Alignment explanation
Indices: 17225187--17225240 Score: 83
Period size: 25 Copynumber: 2.1 Consensus size: 25
17225177 AGTGTCTTGA
17225187 AAAGAAAAAGTATTCAAGAAC-AAC
1 AAAGAAAAAGTATTCAAGAACAAAC
17225211 AAAGAATAAAGTATTACAAGAACAAAC
1 AAAGAA-AAAGTATT-CAAGAACAAAC
17225238 AAA
1 AAA
17225241 TTCAATACAA
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
24 6 0.22
25 8 0.30
26 7 0.26
27 6 0.22
ACGTcount: A:0.65, C:0.11, G:0.11, T:0.13
Consensus pattern (25 bp):
AAAGAAAAAGTATTCAAGAACAAAC
Found at i:17230230 original size:40 final size:40
Alignment explanation
Indices: 17230184--17230489 Score: 367
Period size: 40 Copynumber: 7.7 Consensus size: 40
17230174 GCTCCTCGTT
* *
17230184 CAAATGCCTTCGGGA-CATAGCCCGGTTATAGTAAT-TCGCA
1 CAAATGCCTTC-GGATCTTAGCCCGGATATAGT-ATCTCGCA
* * *
17230224 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTC-GGATCTTAGCCCGGATATAGTATCTCGCA
*
17230264 CAAATGCCTTCGGGA-CTTAGCCTGGA-ATTAGTATCTCGCA
1 CAAATGCCTTC-GGATCTTAGCCCGGATA-TAGTATCTCGCA
* *
17230304 CAAATGCCTTCGGATCTTAGTCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGATCTTAGCCCGGATATAGTATCTCGCA
*
17230344 CAAATGCCTTCGGATCTTAGTCCGGATATAGTATCTCGCA
1 CAAATGCCTTCGGATCTTAGCCCGGATATAGTATCTCGCA
*
17230384 CAAATGCCTTCGGATCTTAGTCCGGATATAGTATCTCGCA
1 CAAATGCCTTCGGATCTTAGCCCGGATATAGTATCTCGCA
* * *
17230424 CAAATGCCTTCGGATCTTAGTCCGGATATGGTCA-CTTAGCA
1 CAAATGCCTTCGGATCTTAGCCCGGATATAGT-ATC-TCGCA
17230465 CAAA-GCCTTCGGGA-CTTAGCCCGGA
1 CAAATGCCTTC-GGATCTTAGCCCGGA
17230490 CATCATTCAA
Statistics
Matches: 243, Mismatches: 16, Indels: 14
0.89 0.06 0.05
Matches are distributed among these distances:
39 4 0.02
40 227 0.93
41 12 0.05
ACGTcount: A:0.25, C:0.26, G:0.22, T:0.27
Consensus pattern (40 bp):
CAAATGCCTTCGGATCTTAGCCCGGATATAGTATCTCGCA
Found at i:17242036 original size:24 final size:24
Alignment explanation
Indices: 17242005--17242089 Score: 84
Period size: 24 Copynumber: 3.5 Consensus size: 24
17241995 CCATGTAAGG
*
17242005 GGAAGCTCATAAGAGCCATAATCG
1 GGAAGCTCATAAGAGCCATAATCA
**
17242029 GGAAGCTCATGCGAGCCA-ATATCA
1 GGAAGCTCATAAGAGCCATA-ATCA
* *
17242053 GGAAGCTC-TGGAGAACCATTAATCA
1 GGAAGCTCAT-AAGAGCCA-TAATCA
17242078 GGAAGCTCATAA
1 GGAAGCTCATAA
17242090 AAGAGCCTTT
Statistics
Matches: 50, Mismatches: 6, Indels: 9
0.77 0.09 0.14
Matches are distributed among these distances:
23 2 0.04
24 33 0.66
25 13 0.26
26 2 0.04
ACGTcount: A:0.36, C:0.21, G:0.25, T:0.18
Consensus pattern (24 bp):
GGAAGCTCATAAGAGCCATAATCA
Found at i:17243371 original size:16 final size:17
Alignment explanation
Indices: 17243342--17243404 Score: 55
Period size: 16 Copynumber: 3.9 Consensus size: 17
17243332 CGAGCAAGAT
17243342 AAAAAATAATATAAATG
1 AAAAAATAATATAAATG
*
17243359 AAAACATAA-ATAAAT-
1 AAAAAATAATATAAATG
*
17243374 AAACAAATAA-AAAAAT-
1 AAA-AAATAATATAAATG
17243390 AAACAAA-AATATAAA
1 AAA-AAATAATATAAA
17243405 GAATAAAAGG
Statistics
Matches: 40, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
15 5 0.12
16 27 0.68
17 8 0.20
ACGTcount: A:0.76, C:0.05, G:0.02, T:0.17
Consensus pattern (17 bp):
AAAAAATAATATAAATG
Found at i:17243397 original size:12 final size:12
Alignment explanation
Indices: 17243352--17243404 Score: 52
Period size: 12 Copynumber: 4.4 Consensus size: 12
17243342 AAAAAATAAT
* *
17243352 ATAAATGAAAAC
1 ATAAATAAAAAA
*
17243364 ATAAATAAATAA
1 ATAAATAAAAAA
*
17243376 ACAAATAAAAAA
1 ATAAATAAAAAA
* *
17243388 ATAAACAAAAAT
1 ATAAATAAAAAA
17243400 ATAAA
1 ATAAA
17243405 GAATAAAAGG
Statistics
Matches: 33, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
12 33 1.00
ACGTcount: A:0.75, C:0.06, G:0.02, T:0.17
Consensus pattern (12 bp):
ATAAATAAAAAA
Found at i:17251757 original size:25 final size:25
Alignment explanation
Indices: 17251714--17251781 Score: 93
Period size: 25 Copynumber: 2.8 Consensus size: 25
17251704 TCATATGATT
17251714 TTACCGATTT-CAGCTCGTGAGAGC
1 TTACCGATTTACAGCTCGTGAGAGC
*
17251738 TTACTGATTTACAGCTCGTGAGAGC
1 TTACCGATTTACAGCTCGTGAGAGC
* * *
17251763 ATACCGATTCATAGCTCGT
1 TTACCGATTTACAGCTCGT
17251782 ATGAGCATAC
Statistics
Matches: 38, Mismatches: 5, Indels: 1
0.86 0.11 0.02
Matches are distributed among these distances:
24 9 0.24
25 29 0.76
ACGTcount: A:0.24, C:0.24, G:0.22, T:0.31
Consensus pattern (25 bp):
TTACCGATTTACAGCTCGTGAGAGC
Found at i:17262424 original size:3 final size:3
Alignment explanation
Indices: 17262418--17262444 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
17262408 CTATAATGTA
17262418 ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT
17262445 TATATGTACA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:17274874 original size:44 final size:44
Alignment explanation
Indices: 17274814--17275393 Score: 316
Period size: 44 Copynumber: 13.5 Consensus size: 44
17274804 GAAGATGGCA
* * * *
17274814 AATCTTATCTCCCTGAATTTGCAGTTGAACAGATTAAAGCCGAT
1 AATCTTATCTCTCTGAAGTTGCAGTGGAGCAGATTAAAGCCGAT
* ** **
17274858 AATCCTATCTCTCTGAAGTTGCAGTGGAGTGGATTAAAAAC-AT
1 AATCTTATCTCTCTGAAGTTGCAGTGGAGCAGATTAAAGCCGAT
* ***
17274901 AGATCTTATCTCTCTGAAGTTGCAG-AGAGCAGATT---GCATCT
1 A-ATCTTATCTCTCTGAAGTTGCAGTGGAGCAGATTAAAGCCGAT
*
17274942 AATCTTATCTC-CTTGAAGTTGCAGTGGAGTAGATTAAAGCCGAT
1 AATCTTATCTCTC-TGAAGTTGCAGTGGAGCAGATTAAAGCCGAT
* * ** **
17274986 AATCCTATCTC-CTTGAAGTTGTAGTGGAGTGGATTAAAATC-A-
1 AATCTTATCTCTC-TGAAGTTGCAGTGGAGCAGATTAAAGCCGAT
* * * * ***
17275028 GATCTTATCTCTCTGAAGTTGCAG-AGAGTAGA-T--CGCATCT
1 AATCTTATCTCTCTGAAGTTGCAGTGGAGCAGATTAAAGCCGAT
* *
17275068 AGTCTTATCTC-CGTGAAGTTGCAGTGGAGCAGACTAAGTAAG-C-A-
1 AATCTTATCTCTC-TGAAGTTGCAGTGGAGCAGA-TTA--AAGCCGAT
* * * *
17275112 AGTCTTATC-CTCCTGAAGTTACAGT-GAGGCAGACTGAAGATGGC-A-
1 AATCTTATCTCT-CTGAAGTTGCAGTGGA-GCAGA-TTAA-A-GCCGAT
* * *
17275157 AATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTAAAGTCGAT
1 AATCTTATCTCTCTGAAGTTGCAGTGGAGCAGATTAAAGCCGAT
* * ** *
17275201 AATCCTATCTC-CTTGAAGTTGCAGTGGAGCGGATTAAAATC-AC
1 AATCTTATCTCTC-TGAAGTTGCAGTGGAGCAGATTAAAGCCGAT
* * * * ***
17275244 AGATCTTATTTCTCTGAAGTTACAG-AGAGCAGA-T--CGCATCT
1 A-ATCTTATCTCTCTGAAGTTGCAGTGGAGCAGATTAAAGCCGAT
* * * *
17275285 AATCTCATCTCCCTGAAGTTGCAGGGGAGTAGATTAAAGCCGAT
1 AATCTTATCTCTCTGAAGTTGCAGTGGAGCAGATTAAAGCCGAT
* * * *
17275329 AATCTTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACC-TT
1 AATCTTATCTCTCTGAAGTTGCAGTGGAGCAGATTAAAGCCGAT
*
17275372 GGATCTTATCTCTCTGAAGTTG
1 -AATCTTATCTCTCTGAAGTTG
17275394 TAGAGAGCAG
Statistics
Matches: 414, Mismatches: 85, Indels: 74
0.72 0.15 0.13
Matches are distributed among these distances:
39 2 0.00
40 61 0.15
41 29 0.07
42 24 0.06
43 28 0.07
44 236 0.57
45 30 0.07
46 3 0.01
47 1 0.00
ACGTcount: A:0.29, C:0.19, G:0.22, T:0.30
Consensus pattern (44 bp):
AATCTTATCTCTCTGAAGTTGCAGTGGAGCAGATTAAAGCCGAT
Found at i:17274964 original size:84 final size:83
Alignment explanation
Indices: 17274814--17275363 Score: 332
Period size: 84 Copynumber: 6.4 Consensus size: 83
17274804 GAAGATGGCA
* * * * * *
17274814 AATCTTATCTCCCTGAATTTGCAGTTGAACAGATTAAAGCCGATAATCCTATCT-CTCTGAAGTT
1 AATCTTATCT-CCTGAAGTTGCAGTGGAGCAGATTGAA-TC--TAATCTTATCTCCT-TGAAGTT
* *
17274878 GCAGTGGAGTGGATTAAAAACAT
61 GCAGTGGAGTAGATTAAAACCAT
* *
17274901 AGATCTTATCTCTCTGAAGTTGCAG-AGAGCAGATTGCATCTAATCTTATCTCCTTGAAGTTGCA
1 A-ATCTTATCTC-CTGAAGTTGCAGTGGAGCAGATTGAATCTAATCTTATCTCCTTGAAGTTGCA
*
17274965 GTGGAGTAGATTAAAGCCGAT
64 GTGGAGTAGATTAAAACC-AT
* * ** *
17274986 AATCCTATCTCCTTGAAGTTGTAGTGGAGTGGATTAAAATC-AGATCTTATCT-CTCTGAAGTTG
1 AATCTTATCTCC-TGAAGTTGCAGTGGAGCAGATT-GAATCTA-ATCTTATCTCCT-TGAAGTTG
* *** *
17275049 CAG-AGAGTAGA-TCGCATC-T
62 CAGTGGAGTAGATTAAAACCAT
* * *
17275068 AGTCTTATCTCCGTGAAGTTGCAGTGGAGCAGACTAAGTAAGC-AAGTCTTATCCTCC-TGAAGT
1 AATCTTATCTCC-TGAAGTTGCAGTGGAGCAGA-T-TG-AATCTAA-TCTTAT-CTCCTTGAAGT
* * * **
17275131 TACAGT-GAGGCAGACTGAAGATGGCA-
60 TGCAGTGGA-GTAGA-TTAA-A-ACCAT
* * *
17275157 AATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTAAAGTCGATAATCCTATCTCCTTGAAGTTG
1 AATCTTATCT-CCTGAAGTTGCAGTGGAGCAGATTGAA-TC--TAATCTTATCTCCTTGAAGTTG
** * *
17275222 CAGTGGAGCGGATTAAAATCAC
62 CAGTGGAGTAGATTAAAACCAT
* * * * * * *
17275244 AGATCTTATTTCTCTGAAGTTACAG-AGAGCAGATCGCATCTAATCTCATCTCCCTGAAGTTGCA
1 A-ATCTTATCTC-CTGAAGTTGCAGTGGAGCAGATTGAATCTAATCTTATCTCCTTGAAGTTGCA
* *
17275308 GGGGAGTAGATTAAAGCCGAT
64 GTGGAGTAGATTAAAACC-AT
*
17275329 AATCTTATCTCCCTGAAGTTGCAGTGGAGCGGATT
1 AATCTTATCT-CCTGAAGTTGCAGTGGAGCAGATT
17275364 AAAACCTTGG
Statistics
Matches: 358, Mismatches: 70, Indels: 72
0.72 0.14 0.14
Matches are distributed among these distances:
82 28 0.08
83 3 0.01
84 131 0.37
85 38 0.11
86 31 0.09
87 24 0.07
88 48 0.13
89 49 0.14
90 6 0.02
ACGTcount: A:0.29, C:0.19, G:0.22, T:0.30
Consensus pattern (83 bp):
AATCTTATCTCCTGAAGTTGCAGTGGAGCAGATTGAATCTAATCTTATCTCCTTGAAGTTGCAGT
GGAGTAGATTAAAACCAT
Found at i:17275094 original size:126 final size:127
Alignment explanation
Indices: 17274814--17275100 Score: 443
Period size: 128 Copynumber: 2.3 Consensus size: 127
17274804 GAAGATGGCA
* * *
17274814 AATCTTATCTCCCTGAATTTGCAGTTGAACAGATTAAAGCCGATAATCCTATCTCTCTGAAGTTG
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCGATAATCCTATCTCTCTGAAGTTG
*
17274879 CAGTGGAGTGGATTAAAAACATAGATCTTATCTCTCTGAAGTTGCAGAGAGCAGATTGCATCT
66 CAGTGGAGTGGATTAAAAACA-AGATCTTATCTCTCTGAAGTTGCAGAGAGCAGATCGCATCT
* *
17274942 AATCTTATCTCCTTGAAGTTGCAGTGGAGTAGATTAAAGCCGATAATCCTATCTC-CTTGAAGTT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCGATAATCCTATCTCTC-TGAAGTT
* * *
17275006 GTAGTGGAGTGGATTAAAATC-AGATCTTATCTCTCTGAAGTTGCAGAGAGTAGATCGCATCT
65 GCAGTGGAGTGGATTAAAAACAAGATCTTATCTCTCTGAAGTTGCAGAGAGCAGATCGCATCT
* *
17275068 AGTCTTATCTCCGTGAAGTTGCAGTGGAGCAGA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGA
17275101 CTAAGTAAGC
Statistics
Matches: 146, Mismatches: 12, Indels: 4
0.90 0.07 0.02
Matches are distributed among these distances:
126 69 0.47
127 1 0.01
128 76 0.52
ACGTcount: A:0.29, C:0.18, G:0.22, T:0.31
Consensus pattern (127 bp):
AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCGATAATCCTATCTCTCTGAAGTTG
CAGTGGAGTGGATTAAAAACAAGATCTTATCTCTCTGAAGTTGCAGAGAGCAGATCGCATCT
Found at i:17275339 original size:128 final size:128
Alignment explanation
Indices: 17275157--17275445 Score: 434
Period size: 128 Copynumber: 2.3 Consensus size: 128
17275147 GAAGATGGCA
* * * *
17275157 AATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTAAAGTCGATAATCCTATCTCCTTGAAGTTG
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTAAAGCCGATAATCCTATCTCCCTGAAGTTG
* *
17275222 CAGTGGAGCGGATTAAAATCACAGATCTTATTTCTCTGAAGTTACAGAGAGCAGATCGCATCT
66 CAGTGGAGCGGATTAAAACCACAGATCTTATCTCTCTGAAGTTACAGAGAGCAGATCGCATCT
* * *
17275285 AATCTCATCTCCCTGAAGTTGCAGGGGAGTAGATTAAAGCCGATAATCTTATCTCCCTGAAGTTG
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTAAAGCCGATAATCCTATCTCCCTGAAGTTG
*** **
17275350 CAGTGGAGCGGATTAAAACCTTGGATCTTATCTCTCTGAAGTTGTAGAGAGCAGATCGCATCT
66 CAGTGGAGCGGATTAAAACCACAGATCTTATCTCTCTGAAGTTACAGAGAGCAGATCGCATCT
* *
17275413 AGTCTTATCTCCATGAAGTTGCAGTGGAGTAGA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGTAGA
17275446 CCCCAGAAAT
Statistics
Matches: 143, Mismatches: 18, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
128 143 1.00
ACGTcount: A:0.29, C:0.19, G:0.22, T:0.29
Consensus pattern (128 bp):
AATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTAAAGCCGATAATCCTATCTCCCTGAAGTTG
CAGTGGAGCGGATTAAAACCACAGATCTTATCTCTCTGAAGTTACAGAGAGCAGATCGCATCT
Found at i:17275365 original size:343 final size:344
Alignment explanation
Indices: 17274739--17275446 Score: 1132
Period size: 343 Copynumber: 2.1 Consensus size: 344
17274729 ATCGCATCTA
* * *
17274739 GAAGTTGTAGTGGAGGAGACTAAGTAAGCAAGTCTTATCCTCCTAAAGTTGCAGTGAGGCAGACT
1 GAAGTTGCAGTGGAGCAGACTAAGTAAGCAAGTCTTATCCTCCTAAAGTTACAGTGAGGCAGACT
* * *
17274804 GAAGATGGCAAATCTTATCTCCCTGAATTTGCAGTTGAACAGATTAAAGCCGATAATCCTATCTC
66 GAAGATGGCAAATCTTATCTCCCTGAAGTTACAGTGGAACAGATTAAAGCCGATAATCCTATCTC
* * *
17274869 TCTGAAGTTGCAGTGGAGTGGATTAAAAACATAGATCTTATCTCTCTGAAGTTGCAGAGAGCAGA
131 TCTGAAGTTGCAGTGGAGCGGATTAAAAACACAGATCTTATCTCTCTGAAGTTACAGAGAGCAGA
* * * * *
17274934 TTGCATCTAATCTTATCTCCTTGAAGTTGCAGTGGAGTAGATTAAAGCCGATAATCCTATCTCCT
196 TCGCATCTAATCTCATCTCCCTGAAGTTGCAGGGGAGTAGATTAAAGCCGATAATCCTATCTCCC
* * *
17274999 TGAAGTTGTAGTGGAGTGGATTAAAA-TCAGATCTTATCTCTCTGAAGTTGCAGAGAGTAGATCG
261 TGAAGTTGCAGTGGAGCGGATTAAAACTCAGATCTTATCTCTCTGAAGTTGCAGAGAGCAGATCG
*
17275063 CATCTAGTCTTATCTCCGT
326 CATCTAGTCTTATCTCCAT
*
17275082 GAAGTTGCAGTGGAGCAGACTAAGTAAGCAAGTCTTATCCTCCTGAAGTTACAGTGAGGCAGACT
1 GAAGTTGCAGTGGAGCAGACTAAGTAAGCAAGTCTTATCCTCCTAAAGTTACAGTGAGGCAGACT
* *
17275147 GAAGATGGCAAATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTAAAGTCGATAATCCTATCTC
66 GAAGATGGCAAATCTTATCTCCCTGAAGTTACAGTGGAACAGATTAAAGCCGATAATCCTATCTC
* *
17275212 -CTTGAAGTTGCAGTGGAGCGGATTAAAATCACAGATCTTATTTCTCTGAAGTTACAGAGAGCAG
131 TC-TGAAGTTGCAGTGGAGCGGATTAAAAACACAGATCTTATCTCTCTGAAGTTACAGAGAGCAG
*
17275276 ATCGCATCTAATCTCATCTCCCTGAAGTTGCAGGGGAGTAGATTAAAGCCGATAATCTTATCTCC
195 ATCGCATCTAATCTCATCTCCCTGAAGTTGCAGGGGAGTAGATTAAAGCCGATAATCCTATCTCC
** *
17275341 CTGAAGTTGCAGTGGAGCGGATTAAAACCTTGGATCTTATCTCTCTGAAGTTGTAGAGAGCAGAT
260 CTGAAGTTGCAGTGGAGCGGATTAAAA-CTCAGATCTTATCTCTCTGAAGTTGCAGAGAGCAGAT
17275406 CGCATCTAGTCTTATCTCCAT
324 CGCATCTAGTCTTATCTCCAT
*
17275427 GAAGTTGCAGTGGAGTAGAC
1 GAAGTTGCAGTGGAGCAGAC
17275447 CCCAGAAATA
Statistics
Matches: 334, Mismatches: 28, Indels: 4
0.91 0.08 0.01
Matches are distributed among these distances:
342 1 0.00
343 262 0.78
345 71 0.21
ACGTcount: A:0.29, C:0.18, G:0.23, T:0.29
Consensus pattern (344 bp):
GAAGTTGCAGTGGAGCAGACTAAGTAAGCAAGTCTTATCCTCCTAAAGTTACAGTGAGGCAGACT
GAAGATGGCAAATCTTATCTCCCTGAAGTTACAGTGGAACAGATTAAAGCCGATAATCCTATCTC
TCTGAAGTTGCAGTGGAGCGGATTAAAAACACAGATCTTATCTCTCTGAAGTTACAGAGAGCAGA
TCGCATCTAATCTCATCTCCCTGAAGTTGCAGGGGAGTAGATTAAAGCCGATAATCCTATCTCCC
TGAAGTTGCAGTGGAGCGGATTAAAACTCAGATCTTATCTCTCTGAAGTTGCAGAGAGCAGATCG
CATCTAGTCTTATCTCCAT
Found at i:17277212 original size:26 final size:24
Alignment explanation
Indices: 17277145--17277214 Score: 63
Period size: 26 Copynumber: 2.7 Consensus size: 24
17277135 TTATTTTCCT
17277145 ATATATATGTATATTTTCTATAATGTA
1 ATAT-TAT-TATATTTT-TATAATGTA
17277172 ATTATTATTAT-TTTTTAT-ATGTA
1 A-TATTATTATATTTTTATAATGTA
17277195 CATATGTATATATATTTTTA
1 -ATAT-TAT-TATATTTTTA
17277215 ACAAATATTT
Statistics
Matches: 38, Mismatches: 0, Indels: 11
0.78 0.00 0.22
Matches are distributed among these distances:
23 8 0.21
24 7 0.18
25 7 0.18
26 9 0.24
27 4 0.11
28 3 0.08
ACGTcount: A:0.34, C:0.03, G:0.06, T:0.57
Consensus pattern (24 bp):
ATATTATTATATTTTTATAATGTA
Found at i:17278989 original size:20 final size:21
Alignment explanation
Indices: 17278964--17279004 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
17278954 ATTTTTCATG
17278964 AAAA-TTTAACAAAACCTTAA
1 AAAATTTTAACAAAACCTTAA
*
17278984 AAAATTTTAACAAAACTTTAA
1 AAAATTTTAACAAAACCTTAA
17279005 GGAGAGTTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 4 0.21
21 15 0.79
ACGTcount: A:0.59, C:0.12, G:0.00, T:0.29
Consensus pattern (21 bp):
AAAATTTTAACAAAACCTTAA
Found at i:17278998 original size:11 final size:11
Alignment explanation
Indices: 17278964--17279004 Score: 50
Period size: 11 Copynumber: 3.9 Consensus size: 11
17278954 ATTTTTCATG
17278964 AAAA-TTTAAC
1 AAAACTTTAAC
*
17278974 AAAACCTTAA-
1 AAAACTTTAAC
*
17278984 AAAATTTTAAC
1 AAAACTTTAAC
17278995 AAAACTTTAA
1 AAAACTTTAA
17279005 GGAGAGTTTA
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
10 12 0.48
11 13 0.52
ACGTcount: A:0.59, C:0.12, G:0.00, T:0.29
Consensus pattern (11 bp):
AAAACTTTAAC
Found at i:17285525 original size:100 final size:104
Alignment explanation
Indices: 17285393--17285631 Score: 265
Period size: 100 Copynumber: 2.3 Consensus size: 104
17285383 TTTCTGTACT
* * * * **
17285393 GCCAATGCCATATCCCAGATATGGTCTTACATGGGAG-TTCTCATATCGGTGCCCATGCCATGTC
1 GCCAATGCCATGTCCCAGACATGGTCTTACATGGG-GCCTCTCATATCGGTGCCAACCCCATGTC
* * *
17285457 CC-AGACATGGTCTTATAGGGGA-CT-TC-TCATCTC-GAA
65 CCGA-ACATGGTCGTACAGGGGACCTCTCATAATCTCAGAA
* * *
17285493 GCCAACGCCATGTCCCAGACATGGTCTTACATGGGGCCTCTCATCTTGGTGCCAACCCCATGTCC
1 GCCAATGCCATGTCCCAGACATGGTCTTACATGGGGCCTCTCATATCGGTGCCAACCCCATGTCC
* *
17285558 CGAACATGGTCGTACATGGGACCTCTCATAATCTCAATGAT
66 CGAACATGGTCGTACAGGGGACCTCTCATAATCTC-A-GAA
*
17285599 GCCAATGCCATGTCCAAGACATGGTCTTACATG
1 GCCAATGCCATGTCCCAGACATGGTCTTACATG
17285632 AGATCTCATT
Statistics
Matches: 115, Mismatches: 16, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
99 1 0.01
100 70 0.61
101 3 0.03
102 2 0.02
103 6 0.05
106 33 0.29
ACGTcount: A:0.23, C:0.29, G:0.21, T:0.26
Consensus pattern (104 bp):
GCCAATGCCATGTCCCAGACATGGTCTTACATGGGGCCTCTCATATCGGTGCCAACCCCATGTCC
CGAACATGGTCGTACAGGGGACCTCTCATAATCTCAGAA
Found at i:17285603 original size:56 final size:50
Alignment explanation
Indices: 17285342--17285631 Score: 228
Period size: 50 Copynumber: 5.7 Consensus size: 50
17285332 CTGATAATAC
* * * * **
17285342 ATGCCAAAGCTATGTCCCAGACATAGTCTTACATGGGA--TGTTTTC-TG
1 ATGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTTG
* * * ** * *
17285389 TACTGCCAATGCCATATCCCAGATATGGTCTTACATGGGAGTTCTCATATCG
1 -A-TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTTG
* * * * * * *
17285441 GTGCCCATGCCATGTCCCAGACATGGTCTTATAGGGGACTTCTCATCTCG
1 ATGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTTG
* *
17285491 AAGCCAACGCCATGTCCCAGACATGGTCTTACATGGGGCCTCTCATCTTG
1 ATGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTTG
* * *
17285541 GTGCCAACCCCATGTCCC-GAACATGGTCGTACATGGGACCTCTCATAATCTCAATG
1 ATGCCAACGCCATGTCCCAG-ACATGGTCTTACATGGGACCTCTC---ATCT---TG
* *
17285597 ATGCCAATGCCATGTCCAAGACATGGTCTTACATG
1 ATGCCAACGCCATGTCCCAGACATGGTCTTACATG
17285632 AGATCTCATT
Statistics
Matches: 193, Mismatches: 37, Indels: 16
0.78 0.15 0.07
Matches are distributed among these distances:
48 1 0.01
49 33 0.17
50 120 0.62
51 3 0.02
52 1 0.01
53 4 0.02
56 30 0.16
57 1 0.01
ACGTcount: A:0.24, C:0.28, G:0.21, T:0.27
Consensus pattern (50 bp):
ATGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTTG
Found at i:17290617 original size:24 final size:24
Alignment explanation
Indices: 17290585--17290630 Score: 92
Period size: 24 Copynumber: 1.9 Consensus size: 24
17290575 AATCTTCTGC
17290585 CTCTGTTTCGGCTAGAATACCTAA
1 CTCTGTTTCGGCTAGAATACCTAA
17290609 CTCTGTTTCGGCTAGAATACCT
1 CTCTGTTTCGGCTAGAATACCT
17290631 GGTTGAAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.22, C:0.26, G:0.17, T:0.35
Consensus pattern (24 bp):
CTCTGTTTCGGCTAGAATACCTAA
Found at i:17292746 original size:12 final size:12
Alignment explanation
Indices: 17292731--17292759 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
17292721 TTACTTACTC
17292731 ACTTACTTGTTT
1 ACTTACTTGTTT
17292743 ACTTACTTGTTT
1 ACTTACTTGTTT
17292755 ACTTA
1 ACTTA
17292760 AATAACTCAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.21, C:0.17, G:0.07, T:0.55
Consensus pattern (12 bp):
ACTTACTTGTTT
Found at i:17293036 original size:49 final size:49
Alignment explanation
Indices: 17292972--17293250 Score: 206
Period size: 50 Copynumber: 5.5 Consensus size: 49
17292962 CAAAACTATG
* * * *
17292972 TCCCAAACATAGTCTTACATGGGATGTTTTC-TGTAC-TGCCAATGCCATA
1 TCCCAGACATGGTCTTACATGGGA-GTTCTCATAT-CGTGCCAATGCCATA
* * *
17293021 TCCCAGATATGGTCTTACATGGGAGTTCTCATATCGGTGCCCATGCCATG
1 TCCCAGACATGGTCTTACATGGGAGTTCTCATATC-GTGCCAATGCCATA
* * * * *
17293071 TCCCAGACATGGTCTTAC--GGGAGACCTCTCATCTCGGTGCTAACGCCATG
1 TCCCAGACATGGTCTTACATGGGAG--TTCTCATATC-GTGCCAATGCCATA
* ** * * *
17293121 TCCTAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAACGCCATG
1 TCCCAGACATGGTCTTACATGGGAGTTCTCATATC-GTGCCAATGCCATA
* ** *
17293171 TCCTAGACATGGTCTTACATGGGACCTCTCATAATCCCAATGATGCCAATGCCATG
1 TCCCAGACATGGTCTTACATGGGAGTTCTCAT-AT--C---G-TGCCAATGCCATA
17293227 TCCCAGACATGGTCTTACATGGGA
1 TCCCAGACATGGTCTTACATGGGA
17293251 TCTCATTCCC
Statistics
Matches: 197, Mismatches: 20, Indels: 19
0.83 0.08 0.08
Matches are distributed among these distances:
48 11 0.06
49 23 0.12
50 121 0.61
51 1 0.01
52 4 0.02
53 1 0.01
55 1 0.01
56 35 0.18
ACGTcount: A:0.23, C:0.28, G:0.21, T:0.28
Consensus pattern (49 bp):
TCCCAGACATGGTCTTACATGGGAGTTCTCATATCGTGCCAATGCCATA
Found at i:17293076 original size:50 final size:50
Alignment explanation
Indices: 17293008--17293250 Score: 290
Period size: 50 Copynumber: 4.7 Consensus size: 50
17292998 TTTTCTGTAC
* * **
17293008 TGCCAATGCCATATCCCAGATATGGTCTTACATGGGAGTTCTCATATCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGG
* * *
17293058 TGCCCATGCCATGTCCCAGACATGGTCTTAC-GGGAGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGG-GACCTCTCATATCGG
* * * *
17293108 TGCTAACGCCATGTCCTAGACATGGTCTTACATGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGG
* * *
17293158 TGCCAACGCCATGTCCTAGACATGGTCTTACATGGGACCTCTCATAATCCCAATGA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCAT-AT--C---GG
17293214 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA
17293251 TCTCATTCCC
Statistics
Matches: 168, Mismatches: 17, Indels: 10
0.86 0.09 0.05
Matches are distributed among these distances:
49 2 0.01
50 126 0.75
51 3 0.02
53 1 0.01
56 36 0.21
ACGTcount: A:0.23, C:0.29, G:0.22, T:0.26
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGG
Found at i:17294811 original size:140 final size:140
Alignment explanation
Indices: 17294559--17295067 Score: 606
Period size: 140 Copynumber: 3.6 Consensus size: 140
17294549 TTTTAAGATT
* * * * * * *
17294559 ACACTTTTGTGCCAAAACTTTTCTAAGTGTTGGGATAGACTTGTCAACATACGCTTTGGTCAACT
1 ACACTTTTGGGCCGACACTTTCCTAAGTGTTGGGATAGACTTGTCGACATATGCTTTGGCCAACT
* * * *
17294624 CTTTATATAAGAGTTGGGATATGTATGCCTAAGGCAATGCTTAAATAAGAGTCGGCTTTGTCCAA
66 CTTTATATAAGGGTTGGGATATGCATGCTTAAGGCAACGCTTAAATAAGAGTCGGCTTTGTCCAA
17294689 CACTATGCCG
131 CACTATGCCG
* * * *
17294699 ACACTTTTGGGCCGACACTTTCCTAAGTGTTGGAATGGACTTGTTGACATATGCTTTGGGCAACT
1 ACACTTTTGGGCCGACACTTTCCTAAGTGTTGGGATAGACTTGTCGACATATGCTTTGGCCAACT
* ** *
17294764 CTTTGTATAAGGGTTGGGATATGCATGCTTAAAACAACACTTAAATAAGAGTCGGCTTAT-TCCA
66 CTTTATATAAGGGTTGGGATATGCATGCTTAAGGCAACGCTTAAATAAGAGTCGGCTT-TGTCCA
* *
17294828 ACACTATACCA
130 ACACTATGCCG
* * * *
17294839 ACACTTTTGGGTCGACACTTTCTTAAGTGTTGGGATAAACTTGTCGACATATGCTTTGACCAACT
1 ACACTTTTGGGCCGACACTTTCCTAAGTGTTGGGATAGACTTGTCGACATATGCTTTGGCCAACT
* * * * ***
17294904 CTTTATATAAGGGTTGAGATATGTATACTTAAGGCGACGCTTAAATAAGAGTCTATTTTGTCCAA
66 CTTTATATAAGGGTTGGGATATGCATGCTTAAGGCAACGCTTAAATAAGAGTCGGCTTTGTCCAA
* **
17294969 CATTATGGGG
131 CACTATGCCG
* * * * * * * *
17294979 ACCCTTTTGGGCCGACACTTTCCTAAATGTTGGGCTCGATTTGTCGACATATGCTTTAGCCGAGT
1 ACACTTTTGGGCCGACACTTTCCTAAGTGTTGGGATAGACTTGTCGACATATGCTTTGGCCAACT
*
17295044 CTTTGTATAAGGGTTGGGATATGC
66 CTTTATATAAGGGTTGGGATATGC
17295068 CTTTTCCAAC
Statistics
Matches: 308, Mismatches: 59, Indels: 4
0.83 0.16 0.01
Matches are distributed among these distances:
139 1 0.00
140 306 0.99
141 1 0.00
ACGTcount: A:0.27, C:0.18, G:0.22, T:0.33
Consensus pattern (140 bp):
ACACTTTTGGGCCGACACTTTCCTAAGTGTTGGGATAGACTTGTCGACATATGCTTTGGCCAACT
CTTTATATAAGGGTTGGGATATGCATGCTTAAGGCAACGCTTAAATAAGAGTCGGCTTTGTCCAA
CACTATGCCG
Found at i:17297604 original size:51 final size:51
Alignment explanation
Indices: 17297544--17297646 Score: 206
Period size: 51 Copynumber: 2.0 Consensus size: 51
17297534 AAGAGAAGAC
17297544 TTCATGTTATAAGTAGGTAGTAAACAAAATGGATTGTTAGGGTATATGGTG
1 TTCATGTTATAAGTAGGTAGTAAACAAAATGGATTGTTAGGGTATATGGTG
17297595 TTCATGTTATAAGTAGGTAGTAAACAAAATGGATTGTTAGGGTATATGGTG
1 TTCATGTTATAAGTAGGTAGTAAACAAAATGGATTGTTAGGGTATATGGTG
17297646 T
1 T
17297647 ACTTGGATCT
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
51 52 1.00
ACGTcount: A:0.33, C:0.04, G:0.27, T:0.36
Consensus pattern (51 bp):
TTCATGTTATAAGTAGGTAGTAAACAAAATGGATTGTTAGGGTATATGGTG
Found at i:17298088 original size:35 final size:35
Alignment explanation
Indices: 17298040--17298308 Score: 188
Period size: 35 Copynumber: 7.4 Consensus size: 35
17298030 TGGATGTGTC
* **
17298040 TATCCCAACCTTTTTAAGGTTGTTTTAGACGGGTT
1 TATCCTAACCTTTTTAAGGTTGCCTTAGACGGGTT
* * *
17298075 TATCCTAATCTTTTTAAGGTTGCATTAGACAGGTT
1 TATCCTAACCTTTTTAAGGTTGCCTTAGACGGGTT
17298110 TAT-CTCAACCTTTTTTAAGGTTGCCTTAGACGGGTCT
1 TATCCT-AACC-TTTTTAAGGTTGCCTTAGACGGGT-T
* * *
17298147 GT-TCC-AACTTTTTTTAAAGGTTGCCTTAGCCGGGTC
1 -TATCCTAAC-CTTTTT-AAGGTTGCCTTAGACGGGTT
* * * * **
17298183 TATCCCAACCTTTTTAGGGTTGCTTTATACGATTT
1 TATCCTAACCTTTTTAAGGTTGCCTTAGACGGGTT
**
17298218 TATCCTAACCTTTTTTTAAAGGTTGCCTTAGATAAGGTT
1 TATCCTAACC--TTTTT-AAGGTTGCCTTAGA-CGGGTT
* * **
17298257 TATCAC-AACTTTTTTAAAAGGTTGCCTTAAATTGGTT
1 TATC-CTAACCTTTTT--AAGGTTGCCTTAGACGGGTT
17298294 TATTCC-AACCTTTTT
1 TA-TCCTAACCTTTTT
17298309 TTAAAGGTTG
Statistics
Matches: 186, Mismatches: 32, Indels: 30
0.75 0.13 0.12
Matches are distributed among these distances:
34 2 0.01
35 59 0.32
36 38 0.20
37 48 0.26
38 29 0.16
39 9 0.05
40 1 0.01
ACGTcount: A:0.22, C:0.18, G:0.16, T:0.43
Consensus pattern (35 bp):
TATCCTAACCTTTTTAAGGTTGCCTTAGACGGGTT
Found at i:17298231 original size:73 final size:72
Alignment explanation
Indices: 17298037--17298342 Score: 257
Period size: 73 Copynumber: 4.2 Consensus size: 72
17298027 CTTTGGATGT
* * * *
17298037 GTCTATCCCAACCTTTTTAAGGTTGTTTTAGACGGGTTTATCCTAA-TCTTTTT-AAGGTTGCAT
1 GTCTATCCCAACCTTTTTAAGGTTGCTTTAGACGGTTTTATCCTAACTTTTTTTAAAGGTTGCCT
17298100 TAGACAG
66 TAGACAG
* * * *
17298107 GTTTATCTCAACCTTTTTTAAGGTTGCCTTAGACGGGTCTGT-TCC-AACTTTTTTTAAAGGTTG
1 GTCTATCCCAACC-TTTTTAAGGTTGCTTTAGAC-GGT-TTTATCCTAACTTTTTTTAAAGGTTG
* *
17298170 CCTTAGCCGG
63 CCTTAGACAG
* * *
17298180 GTCTATCCCAACCTTTTTAGGGTTGCTTTATACGATTTTATCCTAACCTTTTTTTAAAGGTTGCC
1 GTCTATCCCAACCTTTTTAAGGTTGCTTTAGACGGTTTTATCCTAA-CTTTTTTTAAAGGTTGCC
*
17298245 TTAGATAAG
65 TTAGA-CAG
* * * * * *
17298254 GTTTATCACAACTTTTTTAAAAGGTTGCCTTAAATTGG-TTTATTCC-AACCTTTTTTTAAAGGT
1 GTCTATCCCAACCTTTTT--AAGGTTGCTTTAGA-CGGTTTTA-TCCTAA-CTTTTTTTAAAGGT
17298317 TGGCCTT-GACTAG
61 T-GCCTTAGAC-AG
* *
17298330 GTCTTTTCCAACC
1 GTCTATCCCAACC
17298343 CTTCAATAAA
Statistics
Matches: 187, Mismatches: 34, Indels: 24
0.76 0.14 0.10
Matches are distributed among these distances:
70 13 0.07
71 25 0.13
72 30 0.16
73 49 0.26
74 16 0.09
76 45 0.24
77 9 0.05
ACGTcount: A:0.22, C:0.19, G:0.17, T:0.42
Consensus pattern (72 bp):
GTCTATCCCAACCTTTTTAAGGTTGCTTTAGACGGTTTTATCCTAACTTTTTTTAAAGGTTGCCT
TAGACAG
Found at i:17298269 original size:38 final size:37
Alignment explanation
Indices: 17298050--17298323 Score: 171
Period size: 38 Copynumber: 7.5 Consensus size: 37
17298040 TATCCCAACC
** * *
17298050 TTTTT-AAGGTTGTTTTAGA-CGGGTTTATCCTAA-TC
1 TTTTTAAAGGTTGCCTTAGATCAGGTTTATCC-AACTT
* *
17298085 TTTTT-AAGGTTGCATTAGA-CAGGTTTATCTCAACCT
1 TTTTTAAAGGTTGCCTTAGATCAGGTTTATC-CAACTT
*
17298121 TTTTT-AAGGTTGCCTTAGA-CGGGTCTGT-TCCAACTT
1 TTTTTAAAGGTTGCCTTAGATCAGGT-T-TATCCAACTT
* * * *
17298157 TTTTTAAAGGTTGCCTTAG-CCGGGTCTATCCCAAC-C
1 TTTTTAAAGGTTGCCTTAGATCAGGTTTAT-CCAACTT
* * * *
17298193 TTTTT-AGGGTTGCTTTATA-C-GATTTTATCCTAACCTT
1 TTTTTAAAGGTTGCCTTAGATCAG-GTTTATCC-AA-CTT
*
17298230 TTTTTAAAGGTTGCCTTAGATAAGGTTTATCACAACTT
1 TTTTTAAAGGTTGCCTTAGATCAGGTTTATC-CAACTT
* * *
17298268 TTTTAAAAGGTTGCCTTAAAT-TGGTTTATTCCAACCTT
1 TTTTTAAAGGTTGCCTTAGATCAGGTTTA-TCCAA-CTT
17298306 TTTTTAAAGGTTGGCCTT
1 TTTTTAAAGGTT-GCCTT
17298324 GACTAGGTCT
Statistics
Matches: 194, Mismatches: 25, Indels: 36
0.76 0.10 0.14
Matches are distributed among these distances:
34 3 0.02
35 46 0.24
36 40 0.21
37 40 0.21
38 50 0.26
39 13 0.07
40 2 0.01
ACGTcount: A:0.22, C:0.17, G:0.18, T:0.44
Consensus pattern (37 bp):
TTTTTAAAGGTTGCCTTAGATCAGGTTTATCCAACTT
Found at i:17298271 original size:39 final size:37
Alignment explanation
Indices: 17298227--17298341 Score: 126
Period size: 38 Copynumber: 3.0 Consensus size: 37
17298217 TTATCCTAAC
*
17298227 CTTTTTTTAAAGGTTGCCTTAGATAAGGTTTA-TCACAA
1 CTTTTTTTAAAGGTTGCCTTAAAT-AGGTTTATTC-CAA
* *
17298265 CTTTTTTAAAAGGTTGCCTTAAATTGGTTTATTCCAA
1 CTTTTTTTAAAGGTTGCCTTAAATAGGTTTATTCCAA
* *
17298302 CCTTTTTTTAAAGGTTGGCCTTGACTAGGTCTT-TTCCAA
1 -CTTTTTTTAAAGGTT-GCCTTAAATAGGT-TTATTCCAA
17298341 C
1 C
17298342 CCTTCAATAA
Statistics
Matches: 66, Mismatches: 7, Indels: 8
0.81 0.09 0.10
Matches are distributed among these distances:
37 9 0.14
38 39 0.59
39 16 0.24
40 2 0.03
ACGTcount: A:0.24, C:0.17, G:0.16, T:0.43
Consensus pattern (37 bp):
CTTTTTTTAAAGGTTGCCTTAAATAGGTTTATTCCAA
Found at i:17302321 original size:12 final size:12
Alignment explanation
Indices: 17302304--17302331 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
17302294 AGCTTTTCTT
17302304 AAAAGGAAAATG
1 AAAAGGAAAATG
17302316 AAAAGGAAAATG
1 AAAAGGAAAATG
17302328 AAAA
1 AAAA
17302332 AAAGAAAAAG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.71, C:0.00, G:0.21, T:0.07
Consensus pattern (12 bp):
AAAAGGAAAATG
Found at i:17303230 original size:9 final size:9
Alignment explanation
Indices: 17303216--17303270 Score: 65
Period size: 9 Copynumber: 5.9 Consensus size: 9
17303206 ATTTACATCC
*
17303216 TTCTCTCAG
1 TTCTCTCAA
17303225 TTCTCTCAA
1 TTCTCTCAA
17303234 TTCTCTCAAA
1 TTCTCTC-AA
17303244 TTCTCTCAAA
1 TTCTCTC-AA
*
17303254 CTCTCTCAA
1 TTCTCTCAA
*
17303263 GTCTCTCA
1 TTCTCTCA
17303271 TTTTTAATAT
Statistics
Matches: 42, Mismatches: 3, Indels: 2
0.89 0.06 0.04
Matches are distributed among these distances:
9 24 0.57
10 18 0.43
ACGTcount: A:0.22, C:0.35, G:0.04, T:0.40
Consensus pattern (9 bp):
TTCTCTCAA
Found at i:17303247 original size:10 final size:10
Alignment explanation
Indices: 17303216--17303262 Score: 62
Period size: 10 Copynumber: 4.9 Consensus size: 10
17303206 ATTTACATCC
*
17303216 TTCTCTC-AG
1 TTCTCTCAAA
17303225 TTCTCTC-AA
1 TTCTCTCAAA
17303234 TTCTCTCAAA
1 TTCTCTCAAA
17303244 TTCTCTCAAA
1 TTCTCTCAAA
*
17303254 CTCTCTCAA
1 TTCTCTCAA
17303263 GTCTCTCATT
Statistics
Matches: 35, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
9 15 0.43
10 20 0.57
ACGTcount: A:0.23, C:0.34, G:0.02, T:0.40
Consensus pattern (10 bp):
TTCTCTCAAA
Found at i:17303257 original size:8 final size:9
Alignment explanation
Indices: 17303226--17303270 Score: 54
Period size: 10 Copynumber: 4.8 Consensus size: 9
17303216 TTCTCTCAGT
*
17303226 TCTCTCAAT
1 TCTCTCAAA
17303235 TCTCTCAAA
1 TCTCTCAAA
17303244 TTCTCTCAAA
1 -TCTCTCAAA
*
17303254 CTCTCTCAAG
1 -TCTCTCAAA
17303264 TCTCTCA
1 TCTCTCA
17303271 TTTTTAATAT
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
9 15 0.47
10 17 0.53
ACGTcount: A:0.24, C:0.36, G:0.02, T:0.38
Consensus pattern (9 bp):
TCTCTCAAA
Found at i:17308968 original size:232 final size:232
Alignment explanation
Indices: 17308552--17309018 Score: 819
Period size: 232 Copynumber: 2.0 Consensus size: 232
17308542 TGAACTCCTG
* * *
17308552 ACCGCATAACGACCGTTACCTGGCCTCCTGGTTATACTTGAACTTGTGACTGCATCACTGCCGTT
1 ACCGCATAACGACCGTCACCTGGCCTCCTGGTTATACTTGAACTTGTGACTGCATCACGGCCGTC
**
17308617 GAATGGGACCTTCACGTTGAATTCAACCCCTGATTGTATCAAACATTATTACCCTGAAACTGGAT
66 GAATGGGACCTTCACGTTGAATTCAACCCCTGATTGTATCAAACATTATTACCCTGAAACCAGAT
17308682 TTCCTCACGATGGGTTTCTAAGGTCATGGGTTTCCCTTCAAAAATACATAAGAATTTCTATCGTT
131 TTCCTCACGATGGGTTTCTAAGGTCATGGGTTTCCCTTCAAAAATACATAAGAATTTCTATCGTT
* *
17308747 TCAGTTGAAAACCTTGATCACTTTCAAAATACCCTAA
196 TCAGTTGAAAACCCTGAACACTTTCAAAATACCCTAA
*
17308784 ACCGCATAACGACCGTCACCTGGCCT-CTCGGTTATACTTGAACTTGTGACTGCATCACGGTCGT
1 ACCGCATAACGACCGTCACCTGGCCTCCT-GGTTATACTTGAACTTGTGACTGCATCACGGCCGT
17308848 CGAATGGGACCTTCACGTTGAATTCAACCCCTGATTGTATCAAACATTATTACCCTGAAACCAGA
65 CGAATGGGACCTTCACGTTGAATTCAACCCCTGATTGTATCAAACATTATTACCCTGAAACCAGA
* * *
17308913 TTTCCTCACGATGGGTTTCTAAGGTCATGGGTTTCCCTTCAAAACTACCTAAGAATTTCTGTCGT
130 TTTCCTCACGATGGGTTTCTAAGGTCATGGGTTTCCCTTCAAAAATACATAAGAATTTCTATCGT
17308978 TTCAGTTGAAAACCCTGAACACTTTCAAAATACCCTAA
195 TTCAGTTGAAAACCCTGAACACTTTCAAAATACCCTAA
17309016 ACC
1 ACC
17309019 CTAACTCTAG
Statistics
Matches: 223, Mismatches: 11, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
231 2 0.01
232 221 0.99
ACGTcount: A:0.27, C:0.26, G:0.16, T:0.30
Consensus pattern (232 bp):
ACCGCATAACGACCGTCACCTGGCCTCCTGGTTATACTTGAACTTGTGACTGCATCACGGCCGTC
GAATGGGACCTTCACGTTGAATTCAACCCCTGATTGTATCAAACATTATTACCCTGAAACCAGAT
TTCCTCACGATGGGTTTCTAAGGTCATGGGTTTCCCTTCAAAAATACATAAGAATTTCTATCGTT
TCAGTTGAAAACCCTGAACACTTTCAAAATACCCTAA
Found at i:17311470 original size:20 final size:20
Alignment explanation
Indices: 17311445--17311487 Score: 86
Period size: 20 Copynumber: 2.1 Consensus size: 20
17311435 ATCATACTAT
17311445 TTATTTGGTGTTTTATCAAA
1 TTATTTGGTGTTTTATCAAA
17311465 TTATTTGGTGTTTTATCAAA
1 TTATTTGGTGTTTTATCAAA
17311485 TTA
1 TTA
17311488 GTGTAACGCT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.26, C:0.05, G:0.14, T:0.56
Consensus pattern (20 bp):
TTATTTGGTGTTTTATCAAA
Found at i:17316585 original size:16 final size:15
Alignment explanation
Indices: 17316546--17316576 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
17316536 CTTAGTCCAG
17316546 TAAATTAGTAACACA
1 TAAATTAGTAACACA
17316561 TAAATTAGTAACACA
1 TAAATTAGTAACACA
17316576 T
1 T
17316577 TGAATTAGTG
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:0.52, C:0.13, G:0.06, T:0.29
Consensus pattern (15 bp):
TAAATTAGTAACACA
Found at i:17322828 original size:45 final size:45
Alignment explanation
Indices: 17322741--17322828 Score: 104
Period size: 45 Copynumber: 2.0 Consensus size: 45
17322731 AAGTCCATAG
* * * *
17322741 TTGAAAGATGCTATGGAATCATGATAAAAATGAGTAAAACCATGA
1 TTGAAAAATGCCATGAAATCATGATAAAAAGGAGTAAAACCATGA
* * * *
17322786 TTGAAAAATGCCATGAAATCATGGTAAACAGGATTAAGACCAT
1 TTGAAAAATGCCATGAAATCATGATAAAAAGGAGTAAAACCAT
17322829 AACTAAAAGA
Statistics
Matches: 35, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
45 35 1.00
ACGTcount: A:0.45, C:0.11, G:0.19, T:0.24
Consensus pattern (45 bp):
TTGAAAAATGCCATGAAATCATGATAAAAAGGAGTAAAACCATGA
Found at i:17323007 original size:69 final size:69
Alignment explanation
Indices: 17322892--17323020 Score: 159
Period size: 69 Copynumber: 1.9 Consensus size: 69
17322882 AAGTATAAGG
* * * *
17322892 TGAAAGACCATAGTTGGACTATGGCAACCCAGGTAGTCCGTCAGGACTTTAAACATGGGAATACG
1 TGAAAGACCATAGTAGGACTATGGCAACCCAGGAAGTCCGTCAGGACATCAAACATGGGAATACG
17322957 AAAA
66 AAAA
* *** * * *
17322961 TGAAGGACCATAGTAGGACTATGGCAATTGATGAAGTTCGTTAGGACATCAAACATGGGA
1 TGAAAGACCATAGTAGGACTATGGCAACCCAGGAAGTCCGTCAGGACATCAAACATGGGA
17323021 CCAGGCAAGT
Statistics
Matches: 49, Mismatches: 11, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
69 49 1.00
ACGTcount: A:0.36, C:0.16, G:0.26, T:0.22
Consensus pattern (69 bp):
TGAAAGACCATAGTAGGACTATGGCAACCCAGGAAGTCCGTCAGGACATCAAACATGGGAATACG
AAAA
Found at i:17326202 original size:25 final size:26
Alignment explanation
Indices: 17326138--17326208 Score: 76
Period size: 25 Copynumber: 2.8 Consensus size: 26
17326128 TTAGTTTAAG
17326138 AAAATAAATAA-AAAAATAAAGAAACT
1 AAAATAAA-AATAAAAATAAAGAAACT
* **
17326164 AAAACAAAGTTAAAAA-AAAGATAA-T
1 AAAATAAAAATAAAAATAAAGA-AACT
17326189 AAAATAAAAATAAAAATAAA
1 AAAATAAAAATAAAAATAAA
17326209 AACGAAAAAA
Statistics
Matches: 36, Mismatches: 6, Indels: 6
0.75 0.12 0.12
Matches are distributed among these distances:
25 19 0.53
26 17 0.47
ACGTcount: A:0.77, C:0.03, G:0.04, T:0.15
Consensus pattern (26 bp):
AAAATAAAAATAAAAATAAAGAAACT
Found at i:17333193 original size:43 final size:43
Alignment explanation
Indices: 17333132--17333326 Score: 257
Period size: 43 Copynumber: 4.5 Consensus size: 43
17333122 ATGTCCTAGA
* * **
17333132 TATGGTCTTGCATGGAAATCTCGTACAGATGCCAATAGCCCAGC
1 TATGGTCTTACA-CGAAATCTCAAACAGATGCCAATAGCCCAGC
* * **
17333176 TATGGTCTTACATGAAATCTTAAATTGATGCCAATAGCCCAGC
1 TATGGTCTTACACGAAATCTCAAACAGATGCCAATAGCCCAGC
17333219 TATGGTCTTACACGAAATCTCAAATC-GATGCCAATAGCCCAGC
1 TATGGTCTTACACGAAATCTCAAA-CAGATGCCAATAGCCCAGC
* * *
17333262 TATGGTTTTACACGAAATCTCAAACCGATGGCAATAGCCCAGC
1 TATGGTCTTACACGAAATCTCAAACAGATGCCAATAGCCCAGC
*
17333305 TATGGTTTTACACGAAATCTCA
1 TATGGTCTTACACGAAATCTCA
17333327 CCTCGAAAGT
Statistics
Matches: 137, Mismatches: 12, Indels: 5
0.89 0.08 0.03
Matches are distributed among these distances:
42 1 0.01
43 125 0.91
44 11 0.08
ACGTcount: A:0.31, C:0.24, G:0.18, T:0.27
Consensus pattern (43 bp):
TATGGTCTTACACGAAATCTCAAACAGATGCCAATAGCCCAGC
Found at i:17333508 original size:31 final size:30
Alignment explanation
Indices: 17333441--17333523 Score: 94
Period size: 31 Copynumber: 2.7 Consensus size: 30
17333431 ATCCAATACT
**
17333441 CAAATCAATTCGGCAATATATATCCATGTA
1 CAAATCAATTCGGCAATATATATCCACATA
** *
17333471 TGAATCAAATTCGGCAATATATATCTACATA
1 CAAATC-AATTCGGCAATATATATCCACATA
* *
17333502 CAAATCAATTCAGCAATGTATA
1 CAAATCAATTCGGCAATATATA
17333524 AAACATATAC
Statistics
Matches: 43, Mismatches: 9, Indels: 2
0.80 0.17 0.04
Matches are distributed among these distances:
30 18 0.42
31 25 0.58
ACGTcount: A:0.42, C:0.18, G:0.10, T:0.30
Consensus pattern (30 bp):
CAAATCAATTCGGCAATATATATCCACATA
Found at i:17340148 original size:17 final size:17
Alignment explanation
Indices: 17340126--17340160 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
17340116 AGTCATGTTG
17340126 TTACATGGACTAGCACA
1 TTACATGGACTAGCACA
17340143 TTACATGGACTAGCACA
1 TTACATGGACTAGCACA
17340160 T
1 T
17340161 GGCCTAGGAC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.34, C:0.23, G:0.17, T:0.26
Consensus pattern (17 bp):
TTACATGGACTAGCACA
Found at i:17342817 original size:19 final size:17
Alignment explanation
Indices: 17342784--17342818 Score: 52
Period size: 19 Copynumber: 1.9 Consensus size: 17
17342774 TATAGTTGGT
17342784 TTAATTGTTAATTAATC
1 TTAATTGTTAATTAATC
17342801 TTAATTAGTTAAATTAAT
1 TTAATT-GTT-AATTAAT
17342819 TCATGTTTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 6 0.38
18 3 0.19
19 7 0.44
ACGTcount: A:0.40, C:0.03, G:0.06, T:0.51
Consensus pattern (17 bp):
TTAATTGTTAATTAATC
Found at i:17344785 original size:24 final size:24
Alignment explanation
Indices: 17344757--17344805 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 24
17344747 ATTAAATTTT
*
17344757 ATTAATCT-TGATTAATATTAATTA
1 ATTAATCTGTAATTAAT-TTAATTA
*
17344781 ATTAATGTGTAATTAATTTAATTA
1 ATTAATCTGTAATTAATTTAATTA
17344805 A
1 A
17344806 GGTTTAATCT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
24 15 0.68
25 7 0.32
ACGTcount: A:0.43, C:0.02, G:0.06, T:0.49
Consensus pattern (24 bp):
ATTAATCTGTAATTAATTTAATTA
Found at i:17344813 original size:20 final size:19
Alignment explanation
Indices: 17344773--17344813 Score: 55
Period size: 20 Copynumber: 2.1 Consensus size: 19
17344763 CTTGATTAAT
*
17344773 ATTAATTAATTAATGTGTA
1 ATTAATTAATTAAGGTGTA
*
17344792 ATTAATTTAATTAAGGTTTA
1 ATTAA-TTAATTAAGGTGTA
17344812 AT
1 AT
17344814 CTTAGTATAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 5 0.26
20 14 0.74
ACGTcount: A:0.41, C:0.00, G:0.10, T:0.49
Consensus pattern (19 bp):
ATTAATTAATTAAGGTGTA
Found at i:17349188 original size:35 final size:35
Alignment explanation
Indices: 17349149--17349216 Score: 84
Period size: 35 Copynumber: 1.9 Consensus size: 35
17349139 GCCTTGAAGG
* *
17349149 ACCTATGTGTCATTTACAC-GATGCCACCCCGAAAT
1 ACCTATATATCATTTACACTG-TGCCACCCCGAAAT
* *
17349184 ACCTATATATCGTTTACACTGTGTCACCCCGAA
1 ACCTATATATCATTTACACTGTGCCACCCCGAA
17349217 GGGCCAACTA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
35 27 0.96
36 1 0.04
ACGTcount: A:0.28, C:0.31, G:0.13, T:0.28
Consensus pattern (35 bp):
ACCTATATATCATTTACACTGTGCCACCCCGAAAT
Found at i:17350495 original size:25 final size:25
Alignment explanation
Indices: 17350451--17350498 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
17350441 TAGCATTGTT
*
17350451 TTTGAGAAGTGCTATAGAAAAGTGA
1 TTTGAGAAGTACTATAGAAAAGTGA
* *
17350476 TTTGAGAAGTACTTTTGAAAAGT
1 TTTGAGAAGTACTATAGAAAAGT
17350499 TTGGTTTAAG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.38, C:0.04, G:0.25, T:0.33
Consensus pattern (25 bp):
TTTGAGAAGTACTATAGAAAAGTGA
Found at i:17351730 original size:102 final size:102
Alignment explanation
Indices: 17351554--17351763 Score: 375
Period size: 102 Copynumber: 2.1 Consensus size: 102
17351544 ACCATTCCAT
* * *
17351554 AATTTTACAACAACTTATTAATCCAACCTAACAAAATTGAACTTGTTTTATCATGTTTTTAAGCT
1 AATTTTACAACAACTTATTAATCCAACCTAACAAAATTCAACTTGTTTCATCATGCTTTTAAGCT
*
17351619 ATTCCATACCCTCATATACCATATCACTTGATCAAGC
66 ATTCCATACCCTCATATACCATATCACTTGATCAAGA
*
17351656 AATTTTACAACAACTTATTAATCCAACCTAACCAAATTCAACTTGTTTCATCATGCTTTTAAGCT
1 AATTTTACAACAACTTATTAATCCAACCTAACAAAATTCAACTTGTTTCATCATGCTTTTAAGCT
17351721 ATTCCATACCCTCATATACCATATCACTTGATCAAGA
66 ATTCCATACCCTCATATACCATATCACTTGATCAAGA
17351758 AATTTT
1 AATTTT
17351764 TCATTCATGT
Statistics
Matches: 103, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
102 103 1.00
ACGTcount: A:0.35, C:0.23, G:0.05, T:0.36
Consensus pattern (102 bp):
AATTTTACAACAACTTATTAATCCAACCTAACAAAATTCAACTTGTTTCATCATGCTTTTAAGCT
ATTCCATACCCTCATATACCATATCACTTGATCAAGA
Found at i:17355296 original size:30 final size:30
Alignment explanation
Indices: 17355262--17355325 Score: 128
Period size: 30 Copynumber: 2.1 Consensus size: 30
17355252 TATATTTTCA
17355262 GGTTCTAAGTGTAAAACTGGGAATTTATGG
1 GGTTCTAAGTGTAAAACTGGGAATTTATGG
17355292 GGTTCTAAGTGTAAAACTGGGAATTTATGG
1 GGTTCTAAGTGTAAAACTGGGAATTTATGG
17355322 GGTT
1 GGTT
17355326 TCTAGTAATT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 34 1.00
ACGTcount: A:0.28, C:0.06, G:0.31, T:0.34
Consensus pattern (30 bp):
GGTTCTAAGTGTAAAACTGGGAATTTATGG
Found at i:17357365 original size:30 final size:30
Alignment explanation
Indices: 17357329--17357410 Score: 164
Period size: 30 Copynumber: 2.7 Consensus size: 30
17357319 ACATGTTTAA
17357329 TTATGTATGATTGTTGCTATATCAATATAT
1 TTATGTATGATTGTTGCTATATCAATATAT
17357359 TTATGTATGATTGTTGCTATATCAATATAT
1 TTATGTATGATTGTTGCTATATCAATATAT
17357389 TTATGTATGATTGTTGCTATAT
1 TTATGTATGATTGTTGCTATAT
17357411 GAATTAAGCA
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 52 1.00
ACGTcount: A:0.28, C:0.06, G:0.15, T:0.51
Consensus pattern (30 bp):
TTATGTATGATTGTTGCTATATCAATATAT
Found at i:17359142 original size:15 final size:16
Alignment explanation
Indices: 17359113--17359142 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
17359103 CAAACAAGCT
17359113 TTAACACATTATCAAA
1 TTAACACATTATCAAA
17359129 TTAACACA-TATCAA
1 TTAACACATTATCAA
17359143 CAAGGGACCA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.50, C:0.20, G:0.00, T:0.30
Consensus pattern (16 bp):
TTAACACATTATCAAA
Found at i:17361371 original size:25 final size:25
Alignment explanation
Indices: 17361327--17361384 Score: 73
Period size: 25 Copynumber: 2.3 Consensus size: 25
17361317 CAGCACGTGA
* *
17361327 GAGCATACCGATTTATAGCTAG-AGT
1 GAGCATACCGATTCACAGCTAGTA-T
*
17361352 GAGCATACCGATTCACAGCTCGTAT
1 GAGCATACCGATTCACAGCTAGTAT
17361377 GAGCATAC
1 GAGCATAC
17361385 ATGTACATGA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
25 28 0.97
26 1 0.03
ACGTcount: A:0.31, C:0.22, G:0.22, T:0.24
Consensus pattern (25 bp):
GAGCATACCGATTCACAGCTAGTAT
Found at i:17362678 original size:60 final size:60
Alignment explanation
Indices: 17362585--17362697 Score: 192
Period size: 60 Copynumber: 1.9 Consensus size: 60
17362575 ATGGCCTAGC
* *
17362585 ACACGGCCTGGCACATGGGTGTGTGAGGTTACTTTC-AAGGGTACACGGCTTGGTACACAG
1 ACACGGCCTGGCACATGGGTGTATGAGGTTAC-TTCGAAGGGTACACAGCTTGGTACACAG
17362645 ACACGGCCTGGCACATGGGTGTATGAGGTTACTTCGAAGGGTACACAGCTTGG
1 ACACGGCCTGGCACATGGGTGTATGAGGTTACTTCGAAGGGTACACAGCTTGG
17362698 CATACGGATG
Statistics
Matches: 50, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
59 3 0.06
60 47 0.94
ACGTcount: A:0.22, C:0.21, G:0.34, T:0.23
Consensus pattern (60 bp):
ACACGGCCTGGCACATGGGTGTATGAGGTTACTTCGAAGGGTACACAGCTTGGTACACAG
Found at i:17371383 original size:22 final size:22
Alignment explanation
Indices: 17371358--17371415 Score: 89
Period size: 22 Copynumber: 2.6 Consensus size: 22
17371348 ACCATAGTGG
*
17371358 TAAGCAGATAGCATTGAACTGC
1 TAAGCAGAAAGCATTGAACTGC
*
17371380 TAAGCAGAAAGCATTGAAGTGC
1 TAAGCAGAAAGCATTGAACTGC
*
17371402 TAAGCAGAGAGCAT
1 TAAGCAGAAAGCAT
17371416 CAAAGTGTTT
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 33 1.00
ACGTcount: A:0.40, C:0.16, G:0.26, T:0.19
Consensus pattern (22 bp):
TAAGCAGAAAGCATTGAACTGC
Found at i:17371421 original size:22 final size:22
Alignment explanation
Indices: 17371340--17371422 Score: 76
Period size: 22 Copynumber: 3.8 Consensus size: 22
17371330 TGCAACACAC
* * *
17371340 CAGAGAGCACCATAGTGGTAAG
1 CAGAGAGCATCAAAGTGCTAAG
* ** *
17371362 CAGATAGCATTGAACTGCTAAG
1 CAGAGAGCATCAAAGTGCTAAG
* **
17371384 CAGAAAGCATTGAAGTGCTAAG
1 CAGAGAGCATCAAAGTGCTAAG
17371406 CAGAGAGCATCAAAGTG
1 CAGAGAGCATCAAAGTG
17371423 TTTAATAGAG
Statistics
Matches: 49, Mismatches: 12, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
22 49 1.00
ACGTcount: A:0.39, C:0.17, G:0.28, T:0.17
Consensus pattern (22 bp):
CAGAGAGCATCAAAGTGCTAAG
Found at i:17375642 original size:18 final size:18
Alignment explanation
Indices: 17375619--17375659 Score: 82
Period size: 18 Copynumber: 2.3 Consensus size: 18
17375609 CACAACTCAA
17375619 ACCATTTACCAAAAGCAT
1 ACCATTTACCAAAAGCAT
17375637 ACCATTTACCAAAAGCAT
1 ACCATTTACCAAAAGCAT
17375655 ACCAT
1 ACCAT
17375660 CTCAACAAGC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.44, C:0.29, G:0.05, T:0.22
Consensus pattern (18 bp):
ACCATTTACCAAAAGCAT
Found at i:17380717 original size:21 final size:22
Alignment explanation
Indices: 17380686--17380727 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 22
17380676 ATATTTCTCC
*
17380686 TCTTGAATTATGTTATTTATGT
1 TCTTGAATTATATTATTTATGT
17380708 TCTT-AATTATATTATTTATG
1 TCTTGAATTATATTATTTATG
17380728 CTTATATTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 15 0.79
22 4 0.21
ACGTcount: A:0.26, C:0.05, G:0.10, T:0.60
Consensus pattern (22 bp):
TCTTGAATTATATTATTTATGT
Found at i:17388506 original size:30 final size:30
Alignment explanation
Indices: 17388472--17388559 Score: 97
Period size: 30 Copynumber: 2.9 Consensus size: 30
17388462 CTGGGCATTT
* * *
17388472 CCACACGGGTAGGACACGTGCCCATGTGTG
1 CCACACAGGCAGGACACATGCCCATGTGTG
17388502 CCACACAGGCAGGACACATGCCCATGTGTG
1 CCACACAGGCAGGACACATGCCCATGTGTG
* * * *
17388532 TCACA-TGGACTGGACACACGCCCATGTG
1 CCACACAGG-CAGGACACATGCCCATGTG
17388560 CTAGCCCGTG
Statistics
Matches: 50, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
29 2 0.04
30 48 0.96
ACGTcount: A:0.24, C:0.32, G:0.28, T:0.16
Consensus pattern (30 bp):
CCACACAGGCAGGACACATGCCCATGTGTG
Found at i:17389655 original size:11 final size:11
Alignment explanation
Indices: 17389639--17389682 Score: 54
Period size: 11 Copynumber: 4.0 Consensus size: 11
17389629 ATTTAGCCAT
17389639 TTTTATTTTTA
1 TTTTATTTTTA
17389650 TTTTATTTTTA
1 TTTTATTTTTA
*
17389661 TATTT-TTTTAA
1 T-TTTATTTTTA
*
17389672 TTTAATTTTTA
1 TTTTATTTTTA
17389683 CATTCTAATT
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
10 2 0.07
11 23 0.82
12 3 0.11
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (11 bp):
TTTTATTTTTA
Found at i:17393693 original size:119 final size:120
Alignment explanation
Indices: 17393511--17393726 Score: 296
Period size: 119 Copynumber: 1.8 Consensus size: 120
17393501 TACTCGTTCA
*
17393511 AATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
1 AATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
* *
17393576 TTAGTAAC-TCGCACAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
66 ATAGTAACTTAGCACAAA-GCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
* * **
17393631 AATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGTCCGG
1 AATGCCTTCGGGACATAGCCCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
* *
17393693 ATATGGTCACTTAGCACAAAGCCTTCGGGACTTA
64 ATATAGTAACTTAGCACAAAGCCTTCGGGACTTA
17393727 GCCCAGACAT
Statistics
Matches: 84, Mismatches: 9, Indels: 7
0.84 0.09 0.07
Matches are distributed among these distances:
118 4 0.05
119 60 0.71
120 20 0.24
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.25
Consensus pattern (120 bp):
AATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
ATAGTAACTTAGCACAAAGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
Found at i:17393727 original size:40 final size:40
Alignment explanation
Indices: 17393490--17393730 Score: 285
Period size: 40 Copynumber: 6.0 Consensus size: 40
17393480 CGGAATTTAA
** *
17393490 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
17393530 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
17393570 CCGGATTTAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
17393610 CCGGATTTAGTAACTCGCACCAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
17393649 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
17393689 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
17393729 CC
1 CC
17393731 AGACATCATT
Statistics
Matches: 176, Mismatches: 18, Indels: 14
0.85 0.09 0.07
Matches are distributed among these distances:
38 2 0.01
39 32 0.18
40 130 0.74
41 12 0.07
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Done.