Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01005946.1 Hibiscus syriacus cultivar Beakdansim tig00013960_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 2465359
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 7 of 11
Found at i:1294481 original size:22 final size:22
Alignment explanation
Indices: 1294443--1294495 Score: 63
Period size: 22 Copynumber: 2.5 Consensus size: 22
1294433 GGCCCAAAAT
* *
1294443 AATAAAAATATTATTTTTATTC
1 AATAAAAATAGTATTTTAATTC
* *
1294465 AATAAAAATAGTGTTTTAATTG
1 AATAAAAATAGTATTTTAATTC
1294487 AA-AAAAATA
1 AATAAAAATA
1294496 ATATATACAG
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
21 7 0.26
22 20 0.74
ACGTcount: A:0.53, C:0.02, G:0.06, T:0.40
Consensus pattern (22 bp):
AATAAAAATAGTATTTTAATTC
Found at i:1295208 original size:4 final size:4
Alignment explanation
Indices: 1295199--1295239 Score: 82
Period size: 4 Copynumber: 10.2 Consensus size: 4
1295189 TATAGTATGT
1295199 TTAA TTAA TTAA TTAA TTAA TTAA TTAA TTAA TTAA TTAA T
1 TTAA TTAA TTAA TTAA TTAA TTAA TTAA TTAA TTAA TTAA T
1295240 GGTTTTCTTC
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (4 bp):
TTAA
Found at i:1296314 original size:2 final size:2
Alignment explanation
Indices: 1296307--1296341 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
1296297 GGATCATTGA
1296307 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1296342 AAAGCTTATG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:1299530 original size:2 final size:2
Alignment explanation
Indices: 1299523--1299551 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
1299513 AACGATTAAA
1299523 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1299552 CCAGGCTCAC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:1306389 original size:15 final size:15
Alignment explanation
Indices: 1306369--1306448 Score: 108
Period size: 15 Copynumber: 5.4 Consensus size: 15
1306359 CCGAAAAATA
*
1306369 AATTACTGGAGTTTG
1 AATTACTGGAATTTG
1306384 AATTACTGGAATTTG
1 AATTACTGGAATTTG
**
1306399 AATTACTGGAAAATG
1 AATTACTGGAATTTG
1306414 AATTACTGGAATTTG
1 AATTACTGGAATTTG
**
1306429 AATT-CTGGAAAATG
1 AATTACTGGAATTTG
1306443 AATTAC
1 AATTAC
1306449 ATTTCTGGAA
Statistics
Matches: 57, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
14 12 0.21
15 45 0.79
ACGTcount: A:0.38, C:0.07, G:0.20, T:0.35
Consensus pattern (15 bp):
AATTACTGGAATTTG
Found at i:1306429 original size:45 final size:44
Alignment explanation
Indices: 1306363--1306448 Score: 127
Period size: 45 Copynumber: 1.9 Consensus size: 44
1306353 GGTTTTCCGA
* **
1306363 AAAATAAATTACTGGAGTTTGAATTACTGGAATTTGAATTACTGG
1 AAAATAAATTACTGGAATTTGAATT-CTGGAAAATGAATTACTGG
*
1306408 AAAATGAATTACTGGAATTTGAATTCTGGAAAATGAATTAC
1 AAAATAAATTACTGGAATTTGAATTCTGGAAAATGAATTAC
1306449 ATTTCTGGAA
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
44 14 0.38
45 23 0.62
ACGTcount: A:0.41, C:0.07, G:0.19, T:0.34
Consensus pattern (44 bp):
AAAATAAATTACTGGAATTTGAATTCTGGAAAATGAATTACTGG
Found at i:1306446 original size:29 final size:30
Alignment explanation
Indices: 1306382--1306448 Score: 127
Period size: 30 Copynumber: 2.3 Consensus size: 30
1306372 TACTGGAGTT
1306382 TGAATTACTGGAATTTGAATTACTGGAAAA
1 TGAATTACTGGAATTTGAATTACTGGAAAA
1306412 TGAATTACTGGAATTTGAATT-CTGGAAAA
1 TGAATTACTGGAATTTGAATTACTGGAAAA
1306441 TGAATTAC
1 TGAATTAC
1306449 ATTTCTGGAA
Statistics
Matches: 37, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
29 16 0.43
30 21 0.57
ACGTcount: A:0.39, C:0.07, G:0.19, T:0.34
Consensus pattern (30 bp):
TGAATTACTGGAATTTGAATTACTGGAAAA
Found at i:1306454 original size:20 final size:20
Alignment explanation
Indices: 1306431--1306480 Score: 100
Period size: 20 Copynumber: 2.5 Consensus size: 20
1306421 GGAATTTGAA
1306431 TTCTGGAAAATGAATTACAT
1 TTCTGGAAAATGAATTACAT
1306451 TTCTGGAAAATGAATTACAT
1 TTCTGGAAAATGAATTACAT
1306471 TTCTGGAAAA
1 TTCTGGAAAA
1306481 CATCTGAAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.40, C:0.10, G:0.16, T:0.34
Consensus pattern (20 bp):
TTCTGGAAAATGAATTACAT
Found at i:1306757 original size:28 final size:29
Alignment explanation
Indices: 1306679--1306780 Score: 104
Period size: 28 Copynumber: 3.6 Consensus size: 29
1306669 CTTTACTAAA
*
1306679 ATATTATTGAAATATATAAATAATA-TTATT
1 ATATTATT-AAATATA-AAATAAAATTTATT
* *
1306709 -CATTATTAAATATATAA-AAAATTTATT
1 ATATTATTAAATATAAAATAAAATTTATT
* *
1306736 ATATTATTAAA-ATAAAATAAAATATCTT
1 ATATTATTAAATATAAAATAAAATTTATT
1306764 ATATTATTATAATATAA
1 ATATTATTA-AATATAA
1306781 TTGATTATTT
Statistics
Matches: 60, Mismatches: 7, Indels: 10
0.78 0.09 0.13
Matches are distributed among these distances:
26 3 0.05
27 12 0.20
28 33 0.55
29 8 0.13
30 4 0.07
ACGTcount: A:0.53, C:0.02, G:0.01, T:0.44
Consensus pattern (29 bp):
ATATTATTAAATATAAAATAAAATTTATT
Found at i:1306793 original size:28 final size:28
Alignment explanation
Indices: 1306679--1306820 Score: 101
Period size: 28 Copynumber: 4.9 Consensus size: 28
1306669 CTTTACTAAA
*
1306679 ATATTATTGAAATATATAAATAA-TATTATT
1 ATATTATT-AAA-ATATAATTAATTATT-TT
* ** *
1306709 -CATTATTAAATATATAAAAAATT-TATT
1 ATATTATTAAA-ATATAATTAATTATTTT
* * * *
1306736 ATATTATTAAAATAAAATAAAATATCTT
1 ATATTATTAAAATATAATTAATTATTTT
* *
1306764 ATATTATTATAATATAATTGATTATTTT
1 ATATTATTAAAATATAATTAATTATTTT
1306792 ATATAATATTAAAATATAATATAATTATT
1 ATAT--TATTAAAATATAAT-TAATTATT
1306821 ATAAATATTA
Statistics
Matches: 90, Mismatches: 16, Indels: 11
0.77 0.14 0.09
Matches are distributed among these distances:
27 11 0.12
28 52 0.58
29 7 0.08
30 13 0.14
31 7 0.08
ACGTcount: A:0.51, C:0.01, G:0.01, T:0.46
Consensus pattern (28 bp):
ATATTATTAAAATATAATTAATTATTTT
Found at i:1306802 original size:15 final size:16
Alignment explanation
Indices: 1306764--1306830 Score: 54
Period size: 15 Copynumber: 4.4 Consensus size: 16
1306754 AAAATATCTT
1306764 ATATTATTATAATATA
1 ATATTATTATAATATA
*
1306780 ATTGATTATT-TTATATA
1 A-T-ATTATTATAATATA
1306797 ATATTA--A-AATATA
1 ATATTATTATAATATA
* *
1306810 ATATAATTATTATA-A
1 ATATTATTATAATATA
1306825 ATATTA
1 ATATTA
1306831 ATAAATATTT
Statistics
Matches: 40, Mismatches: 5, Indels: 13
0.69 0.09 0.22
Matches are distributed among these distances:
13 10 0.25
15 11 0.28
16 5 0.12
17 8 0.20
18 6 0.15
ACGTcount: A:0.49, C:0.00, G:0.01, T:0.49
Consensus pattern (16 bp):
ATATTATTATAATATA
Found at i:1306853 original size:9 final size:9
Alignment explanation
Indices: 1306790--1306849 Score: 50
Period size: 10 Copynumber: 6.2 Consensus size: 9
1306780 ATTGATTATT
1306790 TTATATAATA
1 TTATA-AATA
1306800 TTA-AAATA
1 TTATAAATA
*
1306808 TAATATAATTA
1 T--TATAAATA
1306819 TTATAAATA
1 TTATAAATA
1306828 TTAATAAATA
1 TT-ATAAATA
*
1306838 TTTTTAAATA
1 -TTATAAATA
1306848 TT
1 TT
1306850 TTAATAATTA
Statistics
Matches: 42, Mismatches: 3, Indels: 11
0.75 0.05 0.20
Matches are distributed among these distances:
8 5 0.12
9 12 0.29
10 18 0.43
11 7 0.17
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (9 bp):
TTATAAATA
Found at i:1307097 original size:42 final size:42
Alignment explanation
Indices: 1307038--1307157 Score: 213
Period size: 42 Copynumber: 2.9 Consensus size: 42
1307028 ATGAATTACA
*
1307038 TTCCGGAAAACGAATTACGTGAAACAAACACGGGAAAACGTT
1 TTCCGGAAAACGAATTACGTGAAACAAACACGGGAAAACATT
1307080 TTCCGGAAAACGAATTACGTGAAACAAACACGGGAAAACATT
1 TTCCGGAAAACGAATTACGTGAAACAAACACGGGAAAACATT
* *
1307122 TTCCGGAAAACGAATTACGTGAAGCAAACACTGGAA
1 TTCCGGAAAACGAATTACGTGAAACAAACACGGGAA
1307158 TTCGGGGAAA
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
42 75 1.00
ACGTcount: A:0.43, C:0.19, G:0.21, T:0.17
Consensus pattern (42 bp):
TTCCGGAAAACGAATTACGTGAAACAAACACGGGAAAACATT
Found at i:1311114 original size:37 final size:37
Alignment explanation
Indices: 1311062--1311165 Score: 136
Period size: 37 Copynumber: 2.8 Consensus size: 37
1311052 CTTTTCGTCA
*
1311062 TACTAGGATTCAAACTCCTAAAAATAGGATAGAATTT
1 TACTAGGATTCAAACTCCTAAAAATAGGATAGAATTC
* * *
1311099 TGCTAGGATTCAAACTCCTAAAAATATGATAGAGTTC
1 TACTAGGATTCAAACTCCTAAAAATAGGATAGAATTC
** * *
1311136 TACTATTATTTAAACTCCTAAAGATAGGAT
1 TACTAGGATTCAAACTCCTAAAAATAGGAT
1311166 CCACAAGCAT
Statistics
Matches: 57, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
37 57 1.00
ACGTcount: A:0.40, C:0.14, G:0.13, T:0.32
Consensus pattern (37 bp):
TACTAGGATTCAAACTCCTAAAAATAGGATAGAATTC
Found at i:1311618 original size:23 final size:24
Alignment explanation
Indices: 1311582--1311628 Score: 62
Period size: 23 Copynumber: 2.0 Consensus size: 24
1311572 ATATGTATAA
1311582 ATTTAATTATATTTTATTT-ATTT
1 ATTTAATTATATTTTATTTCATTT
*
1311605 ATTT-ATTATAATTTTTTTTCATTT
1 ATTTAATTAT-ATTTTATTTCATTT
1311629 TTCTTTGCGT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 5 0.24
23 12 0.57
24 4 0.19
ACGTcount: A:0.28, C:0.02, G:0.00, T:0.70
Consensus pattern (24 bp):
ATTTAATTATATTTTATTTCATTT
Found at i:1311670 original size:2 final size:2
Alignment explanation
Indices: 1311663--1311694 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
1311653 TTTCTATTAT
1311663 TA TA TA TA TA TA TA TA TA TA TA TA TA T- TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1311695 TATTATTTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 28 0.97
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:1311739 original size:14 final size:14
Alignment explanation
Indices: 1311722--1311748 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
1311712 TGTTTACTTA
1311722 TTTACTATATTTTT
1 TTTACTATATTTTT
1311736 TTTACTATATTTT
1 TTTACTATATTTT
1311749 CCTAACGTTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.22, C:0.07, G:0.00, T:0.70
Consensus pattern (14 bp):
TTTACTATATTTTT
Found at i:1311919 original size:13 final size:13
Alignment explanation
Indices: 1311897--1311929 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
1311887 TACATACATT
*
1311897 TTTATATTTTTT-
1 TTTATTTTTTTTA
1311909 TTTATTTTTTTTA
1 TTTATTTTTTTTA
1311922 TTTATTTT
1 TTTATTTT
1311930 CATTATATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 11 0.58
13 8 0.42
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (13 bp):
TTTATTTTTTTTA
Found at i:1313056 original size:4 final size:4
Alignment explanation
Indices: 1313047--1313076 Score: 60
Period size: 4 Copynumber: 7.5 Consensus size: 4
1313037 TTTCCTTTCG
1313047 TTAT TTAT TTAT TTAT TTAT TTAT TTAT TT
1 TTAT TTAT TTAT TTAT TTAT TTAT TTAT TT
1313077 TACTAACATT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 26 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (4 bp):
TTAT
Found at i:1316388 original size:14 final size:13
Alignment explanation
Indices: 1316366--1316417 Score: 59
Period size: 14 Copynumber: 3.6 Consensus size: 13
1316356 AAAGGGCAAA
1316366 AACAAAAAAGAAAAG
1 AACAAAAAAG--AAG
1316381 AAGCAAAAAAGAAG
1 AA-CAAAAAAGAAG
1316395 AACAAAAAAAGAAAG
1 AAC-AAAAAAG-AAG
1316410 AACAAAAA
1 AACAAAAA
1316418 TCAAAAAGAA
Statistics
Matches: 34, Mismatches: 0, Indels: 7
0.83 0.00 0.17
Matches are distributed among these distances:
13 1 0.03
14 17 0.50
15 8 0.24
16 8 0.24
ACGTcount: A:0.79, C:0.08, G:0.13, T:0.00
Consensus pattern (13 bp):
AACAAAAAAGAAG
Found at i:1318157 original size:106 final size:106
Alignment explanation
Indices: 1318033--1318574 Score: 913
Period size: 106 Copynumber: 5.1 Consensus size: 106
1318023 GCGCCACTAG
* * * *
1318033 AGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAATAAACAACTTCCCAAATT
1 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCCAATTT
1318098 CAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCC
66 CAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCC
* *
1318139 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCTCAATTT
1 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCCAATTT
**
1318204 CAGAGCCAATTTCAACTTCACAATGAAGGATATTGGACTCC
66 CAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCC
*
1318245 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAATTTCCCAATTT
1 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCCAATTT
* * *
1318310 CAGAGCTAATTTCAAATTCACAGCGAAGGATATTGGACTCA
66 CAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCC
* *
1318351 AGACAACGCAAGTTCAACTTCATGACGAAGGGACCGCTAGTTGTCAATAAACAACTTCCCAATTT
1 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCCAATTT
*
1318416 TAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCC
66 CAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCC
* * *
1318457 AAACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCTCAATTT
1 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCCAATTT
*
1318522 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCC
66 CAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCC
1318563 AGACAACGCAAG
1 AGACAACGCAAG
1318575 GACCGCTGGT
Statistics
Matches: 405, Mismatches: 31, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
106 405 1.00
ACGTcount: A:0.35, C:0.25, G:0.18, T:0.22
Consensus pattern (106 bp):
AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCCAATTT
CAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCC
Found at i:1318265 original size:212 final size:212
Alignment explanation
Indices: 1318033--1319283 Score: 1880
Period size: 212 Copynumber: 6.0 Consensus size: 212
1318023 GCGCCACTAG
* * * * *
1318033 AGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAATAAACAACTTCCCAAATT
1 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTT
*
1318098 CAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
66 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
* **
1318163 ACGAAGGGACCGCTGGTTGTCAACAAACAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAAT
131 ACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCAATTTCAACTTCACAGC
1318228 GAAGGATATTGGACTCC
196 GAAGGATATTGGACTCC
* *
1318245 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAATTTCCCAATTT
1 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTT
* * * * *
1318310 CAGAGCTAATTTCAAATTCACAGCGAAGGATATTGGACTCAAGACAACGCAAGTTCAACTTCATG
66 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
* * *
1318375 ACGAAGGGACCGCTAGTTGTCAATAAACAACTTCCCAATTTTAGAGCCAATTTCAACTTCACAGC
131 ACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCAATTTCAACTTCACAGC
1318440 GAAGGATATTGGACTCC
196 GAAGGATATTGGACTCC
* *
1318457 AAACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCTCAATTT
1 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTT
1318522 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACT-C---C-A-G--A---C-A----ACG
66 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
*
1318571 -C-AA-GGACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCAA-TTCAACTTCATAGC
131 ACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCAATTTCAACTTCACAGC
* *
1318632 GAAGAATATTGGACTCA
196 GAAGGATATTGGACTCC
* *
1318649 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGGTGTCAACAAACAATTTCCCAATTT
1 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTT
* * *
1318714 CGGAGCCAATTTCAACTTCACAGCGAAAGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
66 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
* * * *
1318779 ACGAAGGGACCGCTGGTTGTCAACAAAAAATTTCCCAAATTT-GGAGCCAATTTCAATTTCACAG
131 ACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC-AATTTCAGAGCCAATTTCAACTTCACAG
*
1318843 CAAAGGATATTGGACTCC
195 CGAAGGATATTGGACTCC
*
1318861 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCTCAATTT
1 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTT
1318926 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
66 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
*
1318991 ACGAAGGGACTGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCAATTTCAACTTCACAGC
131 ACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCAATTTCAACTTCACAGC
*
1319056 GAAGGATATTGGACTCG
196 GAAGGATATTGGACTCC
* *
1319073 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAATTTCCTAATTT
1 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTT
* * * * * *
1319138 CGGAGCCAATTTCAACTTCACAACAAAAGATATTGGACTCGAGACAACACAAGTTCAACTTCACA
66 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
* * * *
1319203 ACGAAGGGACGGCTGGTTGTCAACAAATAATTTCCCGATTTCAGAGCCAATTTCAACTTCAC-GA
131 ACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCAATTTCAACTTCACAG-
*
1319267 CGGAGGATATTGGACTC
195 CGAAGGATATTGGACTC
1319284 AGAACAATGC
Statistics
Matches: 944, Mismatches: 72, Indels: 46
0.89 0.07 0.04
Matches are distributed among these distances:
192 125 0.13
193 42 0.04
194 2 0.00
195 1 0.00
196 3 0.00
197 1 0.00
198 1 0.00
200 2 0.00
201 1 0.00
203 1 0.00
204 2 0.00
206 1 0.00
207 1 0.00
208 4 0.00
209 1 0.00
210 2 0.00
211 41 0.04
212 713 0.76
ACGTcount: A:0.34, C:0.25, G:0.18, T:0.22
Consensus pattern (212 bp):
AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTT
CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
ACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCAATTTCAACTTCACAGC
GAAGGATATTGGACTCC
Found at i:1318770 original size:106 final size:106
Alignment explanation
Indices: 1318574--1319283 Score: 1097
Period size: 106 Copynumber: 6.7 Consensus size: 106
1318564 GACAACGCAA
* *
1318574 GGACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCAA-TTCAACTTCATAGCG-AAGA
1 GGACCGCTGGTTGTCAACAAACAATTTCCCAATTTCAGAGCCAATTTCAACTTCACAGCGAAAG-
*
1318637 ATATTGGACTCAAGACAACGCAAGTTCAACTTCACGACGAAG
65 ATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAG
* *
1318679 GGACCGCTGGGTGTCAACAAACAATTTCCCAATTTCGGAGCCAATTTCAACTTCACAGCGAAAGA
1 GGACCGCTGGTTGTCAACAAACAATTTCCCAATTTCAGAGCCAATTTCAACTTCACAGCGAAAGA
1318744 TATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAG
66 TATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAG
* * *
1318785 GGACCGCTGGTTGTCAACAAAAAATTTCCCAAATTT-GGAGCCAATTTCAATTTCACAGC-AAAG
1 GGACCGCTGGTTGTCAACAAACAATTTCCC-AATTTCAGAGCCAATTTCAACTTCACAGCGAAA-
1318848 GATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAG
64 GATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAG
* * * *
1318891 GGACCGCTGGTTGTCAACAAACAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGA
1 GGACCGCTGGTTGTCAACAAACAATTTCCCAATTTCAGAGCCAATTTCAACTTCACAGCGAAAGA
1318956 TATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAG
66 TATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAG
* * *
1318997 GGACTGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGA
1 GGACCGCTGGTTGTCAACAAACAATTTCCCAATTTCAGAGCCAATTTCAACTTCACAGCGAAAGA
*
1319062 TATTGGACTCGAGACAACGCAAGTTCAACTTCACGACGAAG
66 TATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAG
* * * *
1319103 GGACCGCTGGTTGTCAACAAACAATTTCCTAATTTCGGAGCCAATTTCAACTTCACAACAAAAGA
1 GGACCGCTGGTTGTCAACAAACAATTTCCCAATTTCAGAGCCAATTTCAACTTCACAGCGAAAGA
* * *
1319168 TATTGGACTCGAGACAACACAAGTTCAACTTCACAACGAAG
66 TATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAG
* * * * *
1319209 GGACGGCTGGTTGTCAACAAATAATTTCCCGATTTCAGAGCCAATTTCAACTTCAC-GACGGAGG
1 GGACCGCTGGTTGTCAACAAACAATTTCCCAATTTCAGAGCCAATTTCAACTTCACAG-CGAAAG
1319273 ATATTGGACTC
65 ATATTGGACTC
1319284 AGAACAATGC
Statistics
Matches: 561, Mismatches: 37, Indels: 13
0.92 0.06 0.02
Matches are distributed among these distances:
105 49 0.09
106 502 0.89
107 10 0.02
ACGTcount: A:0.34, C:0.25, G:0.19, T:0.22
Consensus pattern (106 bp):
GGACCGCTGGTTGTCAACAAACAATTTCCCAATTTCAGAGCCAATTTCAACTTCACAGCGAAAGA
TATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAG
Found at i:1319130 original size:404 final size:388
Alignment explanation
Indices: 1318169--1319283 Score: 1244
Period size: 404 Copynumber: 2.7 Consensus size: 388
1318159 CACGACGAAG
* ** *
1318169 GGACCGCTGGTTGTCAACAAACAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAATGAAGGA
1 GGACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCAA-TTCAACTTCACAGCGAAGAA
* *
1318234 TATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAA
65 TATTGGACTCAAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGG--GT--GT--ACAA
* *
1318299 TTTCCCAATTTCAGAGCTAATTTCAAATTCACAGCGAAGGATATTGGACTCAAGACAACGCAAGT
124 --T--CAA--T---A-CCAATTTCAAATTCACAGCGAAAGATATTGGACTCAAGACAACGCAAGT
* * * *
1318364 TCAACTTCATGACGAAGGGACCGCTAGTTGTCAATAAACAACTTCCCAATTTTAGAGCCAATTTC
179 TCAACTTCACGACGAAGGGACCGCTAGTTGTCAACAAAAAACTTCCCAAATTTAGAGCCAATTTC
*
1318429 AACTTCACAGCGAAGGATATTGGACTCCAAACAACGCAAGTTCAACTTCACGACGAAGGGACCGC
244 AACTTCACAGCAAAGGATATTGGACTCCAAACAACGCAAGTTCAACTTCACGACGAAGGGACCGC
1318494 TGGTTGTCAACAAACAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGA
309 TGGTTGTCAACAAACAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGA
1318559 CTCCAGACAACGCAA
374 CTCCAGACAACGCAA
*
1318574 GGACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCAATTCAACTTCATAGCGAAGAAT
1 GGACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCAATTCAACTTCACAGCGAAGAAT
1318639 ATTGGACTCAAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGGTGTCAACAAACAAT
66 ATTGGACTCAAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGGTGT------ACAA-
* *
1318704 TTCCCAATTTCGGAGCCAATTTCAACTTCACAGCGAAAGATATTGGACTCCAGACAACGCAAGTT
124 -T--CAA--T---A-CCAATTTCAAATTCACAGCGAAAGATATTGGACTCAAGACAACGCAAGTT
* * *
1318769 CAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAAAAATTTCCCAAATTTGGAGCCAATTTCA
180 CAACTTCACGACGAAGGGACCGCTAGTTGTCAACAAAAAACTTCCCAAATTTAGAGCCAATTTCA
* *
1318834 ATTTCACAGCAAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCT
245 ACTTCACAGCAAAGGATATTGGACTCCAAACAACGCAAGTTCAACTTCACGACGAAGGGACCGCT
1318899 GGTTGTCAACAAACAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGAC
310 GGTTGTCAACAAACAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGAC
1318964 TCCAGACAACGCAA
375 TCCAGACAACGCAA
1318978 GTTCAACTTCACGACGAAGGGACTGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCAATT
1 G-----------GAC-------C-GCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCAA-T
* *
1319043 TCAACTTCACAGCGAAGGATATTGGACTCGAGACAACGCAAGTTCAACTTCACGACGAAGGGACC
46 TCAACTTCACAGCGAAGAATATTGGACTCAAGACAACGCAAGTTCAACTTCACGACGAAGGGACC
* * * *
1319108 GCTGGTTGTCAACAAACAATTTCCTAATTTCGGAGCCAATTTCAACTTCACAACAAAAGATATTG
111 GCTGGGTGT------ACAA--T-C-AA--T---A-CCAATTTCAAATTCACAGCGAAAGATATTG
* * * * * * *
1319173 GACTCGAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAAATAATTTCC
160 GACTCAAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTAGTTGTCAACAAAAAACTTCC
* **
1319238 C-GATTTCAGAGCCAATTTCAACTTCAC-GACGGAGGATATTGGACTC
225 CAAATTT-AGAGCCAATTTCAACTTCACAG-CAAAGGATATTGGACTC
1319284 AGAACAATGC
Statistics
Matches: 645, Mismatches: 38, Indels: 35
0.90 0.05 0.05
Matches are distributed among these distances:
400 1 0.00
402 2 0.00
404 333 0.52
405 43 0.07
415 3 0.00
422 1 0.00
423 46 0.07
424 216 0.33
ACGTcount: A:0.34, C:0.25, G:0.18, T:0.23
Consensus pattern (388 bp):
GGACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCAATTCAACTTCACAGCGAAGAAT
ATTGGACTCAAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGGTGTACAATCAATAC
CAATTTCAAATTCACAGCGAAAGATATTGGACTCAAGACAACGCAAGTTCAACTTCACGACGAAG
GGACCGCTAGTTGTCAACAAAAAACTTCCCAAATTTAGAGCCAATTTCAACTTCACAGCAAAGGA
TATTGGACTCCAAACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAA
CTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAA
Found at i:1320095 original size:37 final size:37
Alignment explanation
Indices: 1320033--1320129 Score: 122
Period size: 37 Copynumber: 2.6 Consensus size: 37
1320023 CCTTTTCGTC
* *
1320033 CTACTAGGATTCAAACTCCTAAAAATAAGATAGAATT
1 CTACTATGATTAAAACTCCTAAAAATAAGATAGAATT
* * * *
1320070 TTGCTATGATTAAAACTCCTAAAAATATGATAGAGTT
1 CTACTATGATTAAAACTCCTAAAAATAAGATAGAATT
* *
1320107 CTACTATTATTTAAACTCCTAAA
1 CTACTATGATTAAAACTCCTAAA
1320130 GATAGGATCC
Statistics
Matches: 50, Mismatches: 10, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
37 50 1.00
ACGTcount: A:0.42, C:0.15, G:0.09, T:0.33
Consensus pattern (37 bp):
CTACTATGATTAAAACTCCTAAAAATAAGATAGAATT
Found at i:1320587 original size:23 final size:23
Alignment explanation
Indices: 1320551--1320596 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
1320541 ATATGTATAA
1320551 ATTTAATTATATTTTATTT-ATTT
1 ATTTAATTATATTTT-TTTCATTT
1320574 ATTT-ATTATAATTTTTTTCATTT
1 ATTTAATTAT-ATTTTTTTCATTT
1320597 TTCTTTGCGT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
22 8 0.38
23 13 0.62
ACGTcount: A:0.28, C:0.02, G:0.00, T:0.70
Consensus pattern (23 bp):
ATTTAATTATATTTTTTTCATTT
Found at i:1320616 original size:5 final size:5
Alignment explanation
Indices: 1320606--1320653 Score: 51
Period size: 5 Copynumber: 8.8 Consensus size: 5
1320596 TTTCTTTGCG
*
1320606 TTATA TTATA TTATA TTTCTA TTATTA TATATA TATATA TTATA TTAT
1 TTATA TTATA TTATA -TTATA TTA-TA T-TATA T-TATA TTATA TTAT
1320654 TATTTTTTAT
Statistics
Matches: 38, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
5 20 0.53
6 16 0.42
7 2 0.05
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (5 bp):
TTATA
Found at i:1320894 original size:15 final size:15
Alignment explanation
Indices: 1320774--1320895 Score: 51
Period size: 15 Copynumber: 8.0 Consensus size: 15
1320764 TTTTTAGTTA
1320774 ATATTATATGTATATTT
1 ATATT-TAT-TATATTT
*
1320791 ATTTTTCATTA-ATTT
1 ATATTT-ATTATATTT
1320806 AT-TATTATTAT-TATT
1 ATAT-TTATTATAT-TT
*
1320821 ACTATTTAGTAT-TTT
1 A-TATTTATTATATTT
* **
1320836 AT-TATATTATACAT
1 ATATTTATTATATTT
*
1320850 ACATTT-TTATATTTTT
1 ATATTTATTATA--TTT
*
1320866 ATATTTATTTTATTT
1 ATATTTATTATATTT
1320881 AT-TTTCATTATATTT
1 ATATTT-ATTATATTT
1320896 TTAGTTTCTT
Statistics
Matches: 80, Mismatches: 13, Indels: 26
0.67 0.11 0.22
Matches are distributed among these distances:
13 6 0.08
14 17 0.21
15 29 0.36
16 17 0.21
17 11 0.14
ACGTcount: A:0.30, C:0.04, G:0.02, T:0.64
Consensus pattern (15 bp):
ATATTTATTATATTT
Found at i:1325626 original size:16 final size:16
Alignment explanation
Indices: 1325605--1325635 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
1325595 ATATATATAT
1325605 AGAGAGAGAGAGGGGG
1 AGAGAGAGAGAGGGGG
1325621 AGAGAGAGAGAGGGG
1 AGAGAGAGAGAGGGG
1325636 TTTAGGATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.39, C:0.00, G:0.61, T:0.00
Consensus pattern (16 bp):
AGAGAGAGAGAGGGGG
Found at i:1325858 original size:2 final size:2
Alignment explanation
Indices: 1325851--1325876 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
1325841 TGGATTGTGC
1325851 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
1325877 TAAATTTTGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1326960 original size:15 final size:15
Alignment explanation
Indices: 1326942--1326973 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
1326932 TTTTTGTTTA
1326942 TTGGCTTTTCCTTTG
1 TTGGCTTTTCCTTTG
*
1326957 TTGGCTTTTGCTTTG
1 TTGGCTTTTCCTTTG
1326972 TT
1 TT
1326974 CTGCAAATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.00, C:0.16, G:0.22, T:0.62
Consensus pattern (15 bp):
TTGGCTTTTCCTTTG
Found at i:1330563 original size:3 final size:3
Alignment explanation
Indices: 1330555--1330609 Score: 58
Period size: 3 Copynumber: 18.3 Consensus size: 3
1330545 TTTTACTTAA
* **
1330555 ATT ATT ATT TTT AAA ATT ATT ATT ATT ATT ATT A-T ATAT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT-T ATT ATT
*
1330600 AAT ATT ATT A
1 ATT ATT ATT A
1330610 AATTAAATAT
Statistics
Matches: 42, Mismatches: 8, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
2 2 0.05
3 37 0.88
4 3 0.07
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (3 bp):
ATT
Found at i:1330581 original size:21 final size:24
Alignment explanation
Indices: 1330555--1330609 Score: 71
Period size: 24 Copynumber: 2.4 Consensus size: 24
1330545 TTTTACTTAA
1330555 ATTATTATT-TT-TA-AAATTATT
1 ATTATTATTATTATATAAATTATT
*
1330576 ATTATTATTATTATATATATTATT
1 ATTATTATTATTATATAAATTATT
*
1330600 AATATTATTA
1 ATTATTATTA
1330610 AATTAAATAT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
21 9 0.31
22 2 0.07
23 2 0.07
24 16 0.55
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (24 bp):
ATTATTATTATTATATAAATTATT
Found at i:1332026 original size:12 final size:11
Alignment explanation
Indices: 1332009--1332045 Score: 56
Period size: 11 Copynumber: 3.3 Consensus size: 11
1331999 ACTTTTATAT
*
1332009 TTTAATTATTGC
1 TTTAATTATT-A
1332021 TTTAATTATTA
1 TTTAATTATTA
1332032 TTTAATTATTA
1 TTTAATTATTA
1332043 TTT
1 TTT
1332046 TATTTTAATC
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
11 14 0.58
12 10 0.42
ACGTcount: A:0.30, C:0.03, G:0.03, T:0.65
Consensus pattern (11 bp):
TTTAATTATTA
Found at i:1332047 original size:12 final size:12
Alignment explanation
Indices: 1332006--1332047 Score: 59
Period size: 12 Copynumber: 3.6 Consensus size: 12
1331996 ATTACTTTTA
1332006 TATTTTAATTAT
1 TATTTTAATTAT
**
1332018 TGCTTTAATTAT
1 TATTTTAATTAT
1332030 TA-TTTAATTAT
1 TATTTTAATTAT
1332041 TATTTTA
1 TATTTTA
1332048 TTTTAATCAT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
11 11 0.42
12 15 0.58
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.64
Consensus pattern (12 bp):
TATTTTAATTAT
Found at i:1332062 original size:27 final size:26
Alignment explanation
Indices: 1331959--1332073 Score: 74
Period size: 28 Copynumber: 4.2 Consensus size: 26
1331949 TTTTAATACC
*
1331959 TTTTATTTTAATCATTATTTATTTGCAA
1 TTTTATTTTAATCATTATTTAATT--AA
* * *
1331987 TGTTATTTT-ATTACTT-TTATATTTTAA
1 TTTTATTTTAATCA-TTATT-TA-ATTAA
** *
1332014 TTATTGCTTTAATTATTATTTAATTATTA
1 TT-TTATTTTAATCATTATTTAATTA--A
1332043 TTTTATTTTAATCA-TATTTAATTAA
1 TTTTATTTTAATCATTATTTAATTAA
1332068 TTTTAT
1 TTTTAT
1332074 AAATAACTTT
Statistics
Matches: 70, Mismatches: 9, Indels: 19
0.71 0.09 0.19
Matches are distributed among these distances:
25 7 0.10
27 21 0.30
28 30 0.43
29 12 0.17
ACGTcount: A:0.30, C:0.04, G:0.03, T:0.63
Consensus pattern (26 bp):
TTTTATTTTAATCATTATTTAATTAA
Found at i:1336248 original size:2 final size:2
Alignment explanation
Indices: 1336241--1336268 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
1336231 ATCCTTTTAA
1336241 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1336269 CCTTTGTTGT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1336586 original size:18 final size:15
Alignment explanation
Indices: 1336563--1336647 Score: 64
Period size: 15 Copynumber: 5.2 Consensus size: 15
1336553 CTCATCCAGC
1336563 AAAGAAAGAATAAGGAAA
1 AAAGAAA-AA-AA-GAAA
1336581 AAAGAAAAAAAAAAGAAA
1 AAAG--AAA-AAAAGAAA
*
1336599 AAGGAAAAAAAGAAA
1 AAAGAAAAAAAGAAA
*
1336614 AAA-AAACAAAACAAA
1 AAAGAAA-AAAAGAAA
*
1336629 AAGGAAAAAAAAGAAA
1 AAAG-AAAAAAAGAAA
1336645 AAA
1 AAA
1336648 AATGGGGAAA
Statistics
Matches: 55, Mismatches: 7, Indels: 12
0.74 0.09 0.16
Matches are distributed among these distances:
14 3 0.05
15 19 0.35
16 12 0.22
17 3 0.05
18 11 0.20
19 2 0.04
20 5 0.09
ACGTcount: A:0.82, C:0.02, G:0.14, T:0.01
Consensus pattern (15 bp):
AAAGAAAAAAAGAAA
Found at i:1336589 original size:1 final size:1
Alignment explanation
Indices: 1336578--1336649 Score: 54
Period size: 1 Copynumber: 72.0 Consensus size: 1
1336568 AAGAATAAGG
* * ** * * * ** *
1336578 AAAAAAGAAAAAAAAAAGAAAAAGGAAAAAAAGAAAAAAAAACAAAACAAAAAGGAAAAAAAAGA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
1336643 AAAAAAA
1 AAAAAAA
1336650 TGGGGAAAAT
Statistics
Matches: 55, Mismatches: 16, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
1 55 1.00
ACGTcount: A:0.86, C:0.03, G:0.11, T:0.00
Consensus pattern (1 bp):
A
Found at i:1336602 original size:25 final size:26
Alignment explanation
Indices: 1336567--1336649 Score: 96
Period size: 30 Copynumber: 3.0 Consensus size: 26
1336557 TCCAGCAAAG
*
1336567 AAAGAATAAGG-AAAAAAGAAAAAAA
1 AAAGAAAAAGGAAAAAAAGAAAAAAA
1336592 AAAGAAAAAGGAAAAAAAGAAAAAAAAACA
1 AAAGAAAAAGGAAAAAAAG---AAAAAA-A
*
1336622 AAACAAAAAGGAAAAAAAAGAAAAAAA
1 AAAGAAAAAGG-AAAAAAAGAAAAAAA
1336649 A
1 A
1336650 TGGGGAAAAT
Statistics
Matches: 50, Mismatches: 2, Indels: 10
0.81 0.03 0.16
Matches are distributed among these distances:
25 10 0.20
26 7 0.14
27 2 0.04
28 6 0.12
29 6 0.12
30 11 0.22
31 8 0.16
ACGTcount: A:0.83, C:0.02, G:0.13, T:0.01
Consensus pattern (26 bp):
AAAGAAAAAGGAAAAAAAGAAAAAAA
Found at i:1336629 original size:21 final size:20
Alignment explanation
Indices: 1336603--1336649 Score: 67
Period size: 21 Copynumber: 2.3 Consensus size: 20
1336593 AAGAAAAAGG
1336603 AAAAAAAGAAAAAAAAACAA
1 AAAAAAAGAAAAAAAAACAA
* *
1336623 AACAAAAAGGAAAAAAAAGAA
1 AA-AAAAAGAAAAAAAAACAA
1336644 AAAAAA
1 AAAAAA
1336650 TGGGGAAAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
20 6 0.25
21 18 0.75
ACGTcount: A:0.87, C:0.04, G:0.09, T:0.00
Consensus pattern (20 bp):
AAAAAAAGAAAAAAAAACAA
Found at i:1336630 original size:30 final size:30
Alignment explanation
Indices: 1336585--1336649 Score: 105
Period size: 31 Copynumber: 2.2 Consensus size: 30
1336575 AGGAAAAAAG
*
1336585 AAAAAAAAAAGAAAAAGG-AAAAAAAGAAA
1 AAAAAAAAAACAAAAAGGAAAAAAAAGAAA
1336614 AAAAAACAAAACAAAAAGGAAAAAAAAGAAA
1 AAAAAA-AAAACAAAAAGGAAAAAAAAGAAA
1336645 AAAAA
1 AAAAA
1336650 TGGGGAAAAT
Statistics
Matches: 33, Mismatches: 1, Indels: 2
0.92 0.03 0.06
Matches are distributed among these distances:
29 6 0.18
30 11 0.33
31 16 0.48
ACGTcount: A:0.86, C:0.03, G:0.11, T:0.00
Consensus pattern (30 bp):
AAAAAAAAAACAAAAAGGAAAAAAAAGAAA
Found at i:1336647 original size:7 final size:7
Alignment explanation
Indices: 1336567--1336638 Score: 51
Period size: 7 Copynumber: 10.4 Consensus size: 7
1336557 TCCAGCAAAG
*
1336567 AAAGAAT
1 AAAGAAA
*
1336574 AAGGAAA
1 AAAGAAA
1336581 AAAG--A
1 AAAGAAA
1336586 AAA-AAA
1 AAAGAAA
1336592 AAAGAAA
1 AAAGAAA
*
1336599 AAGGAAAA
1 AAAG-AAA
1336607 AAAGAAA
1 AAAGAAA
*
1336614 AAAAAACA
1 AAAGAA-A
*
1336622 AAACAAA
1 AAAGAAA
*
1336629 AAGGAAA
1 AAAGAAA
1336636 AAA
1 AAA
1336639 AAGAAAAAAA
Statistics
Matches: 50, Mismatches: 10, Indels: 10
0.71 0.14 0.14
Matches are distributed among these distances:
5 4 0.08
6 4 0.08
7 30 0.60
8 12 0.24
ACGTcount: A:0.82, C:0.03, G:0.14, T:0.01
Consensus pattern (7 bp):
AAAGAAA
Found at i:1341032 original size:54 final size:53
Alignment explanation
Indices: 1340950--1341100 Score: 184
Period size: 54 Copynumber: 2.9 Consensus size: 53
1340940 CGATTGAGAA
*
1340950 ATCTGAGCAGAAGCCACAGAAAAGGATGAATGTGTTGTCAAATGCTTTACGAAC
1 ATCTGAGCAGAAGCCAAAGAAAAGGATGAATGTGTTGTCAAATG-TTTACGAAC
* *
1341004 ATCTGAGCAGAAGCCAAAGAAAAGGATGAATGTGTTGTCAAGTGTTT---TAC
1 ATCTGAGCAGAAGCCAAAGAAAAGGATGAATGTGTTGTCAAATGTTTACGAAC
* * * * *
1341054 ATCTGAGCAGAAACCACATG-AGATGATGCATGTGTTGTCAAATGTTT
1 ATCTGAGCAGAAGCCA-AAGAAAAGGATGAATGTGTTGTCAAATGTTT
1341101 TACGGACCAG
Statistics
Matches: 87, Mismatches: 9, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
50 40 0.46
51 2 0.02
53 3 0.03
54 42 0.48
ACGTcount: A:0.35, C:0.15, G:0.25, T:0.26
Consensus pattern (53 bp):
ATCTGAGCAGAAGCCAAAGAAAAGGATGAATGTGTTGTCAAATGTTTACGAAC
Found at i:1341087 original size:50 final size:50
Alignment explanation
Indices: 1340950--1341103 Score: 175
Period size: 50 Copynumber: 3.0 Consensus size: 50
1340940 CGATTGAGAA
* * *
1340950 ATCTGAGCAGAAGCCACAGAAAAGGATGAATGTGTTGTCAAATGCTTTACGAAC
1 ATCTGAGCAGAAACCAAAGAAAAGGATGAATGTGTTGTCAAATG-TTT---TAC
* *
1341004 ATCTGAGCAGAAGCCAAAGAAAAGGATGAATGTGTTGTCAAGTGTTTTAC
1 ATCTGAGCAGAAACCAAAGAAAAGGATGAATGTGTTGTCAAATGTTTTAC
* * * *
1341054 ATCTGAGCAGAAACCACATG-AGATGATGCATGTGTTGTCAAATGTTTTAC
1 ATCTGAGCAGAAACCA-AAGAAAAGGATGAATGTGTTGTCAAATGTTTTAC
1341104 GGACCAGTTA
Statistics
Matches: 90, Mismatches: 9, Indels: 6
0.86 0.09 0.06
Matches are distributed among these distances:
50 43 0.48
51 2 0.02
53 3 0.03
54 42 0.47
ACGTcount: A:0.35, C:0.15, G:0.24, T:0.26
Consensus pattern (50 bp):
ATCTGAGCAGAAACCAAAGAAAAGGATGAATGTGTTGTCAAATGTTTTAC
Found at i:1341503 original size:22 final size:22
Alignment explanation
Indices: 1341474--1341528 Score: 101
Period size: 22 Copynumber: 2.5 Consensus size: 22
1341464 ATCTACACTC
1341474 TTCAAAGATGATAAATTCTCTT
1 TTCAAAGATGATAAATTCTCTT
*
1341496 TTTAAAGATGATAAATTCTCTT
1 TTCAAAGATGATAAATTCTCTT
1341518 TTCAAAGATGA
1 TTCAAAGATGA
1341529 AAGCTTTATG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.38, C:0.11, G:0.11, T:0.40
Consensus pattern (22 bp):
TTCAAAGATGATAAATTCTCTT
Found at i:1342359 original size:166 final size:167
Alignment explanation
Indices: 1342038--1342364 Score: 543
Period size: 167 Copynumber: 2.0 Consensus size: 167
1342028 AAAATGAGCA
*
1342038 TTATCTTAAGATTGGGACATGTTACCCAATCAACATGTTATTTTAAAAAAAATAATGAGAAAACG
1 TTATCTTAAGATTGGGACATGTTACCCAATCAACATGTTATTTT-AAAAAAATAATGAAAAAACG
**
1342103 ATTTCCATAAGTTTCTCATTTTATCTTTTCTAAAATGAAATTGTTGAAAAGTAAGAAAACGATTT
65 ATTTCCATAAGTTTCTCATTCAATCTTTTCTAAAATGAAATTGTTGAAAAGTAAGAAAACGATTT
1342168 CCTTAGTTTTTTTACTTAGTAAACTATTTCCAATAGCT
130 CCTTAGTTTTTTTACTTAGTAAACTATTTCCAATAGCT
* * * *
1342206 TTATCTTGAGATTGGGGCATGTTACCCAATCAACCTGTTATTTT-GAAAAATAATGAAAAAAACG
1 TTATCTTAAGATTGGGACATGTTACCCAATCAACATGTTATTTTAAAAAAATAATG-AAAAAACG
1342270 ATTTCCAT-AGTTTCTCATTCAATCTTTTCTAAAAATGAAATTGTTGAAAAGTAAGAAAACGATT
65 ATTTCCATAAGTTTCTCATTCAATCTTTTCT-AAAATGAAATTGTTGAAAAGTAAGAAAACGATT
1342334 TCCTTAG-TTTTTTACTTAGTAAACTATTTCC
129 TCCTTAGTTTTTTTACTTAGTAAACTATTTCC
1342365 CACATTTGTA
Statistics
Matches: 150, Mismatches: 7, Indels: 6
0.92 0.04 0.04
Matches are distributed among these distances:
166 54 0.36
167 55 0.37
168 41 0.27
ACGTcount: A:0.36, C:0.14, G:0.12, T:0.38
Consensus pattern (167 bp):
TTATCTTAAGATTGGGACATGTTACCCAATCAACATGTTATTTTAAAAAAATAATGAAAAAACGA
TTTCCATAAGTTTCTCATTCAATCTTTTCTAAAATGAAATTGTTGAAAAGTAAGAAAACGATTTC
CTTAGTTTTTTTACTTAGTAAACTATTTCCAATAGCT
Found at i:1342497 original size:76 final size:76
Alignment explanation
Indices: 1342371--1343080 Score: 1258
Period size: 76 Copynumber: 9.3 Consensus size: 76
1342361 TTCCCACATT
**
1342371 TGTAAGTCCTGCAAAGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCC
1 TGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCC
1342436 TTAGGGTCATC
66 TTAGGGTCATC
*
1342447 TGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGCTTTCAAAGCC
1 TGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCC
*
1342512 TTAGGGTAATC
66 TTAGGGTCATC
* * *
1342523 TGTAAGTCTTGTAGTGCATGATGTTTCCAAAAAGCCTTCGGGATCTTTTTGATGTTTTCAAAGCC
1 TGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCC
1342588 TTAGGGTCATC
66 TTAGGGTCATC
1342599 TGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCC
1 TGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCC
1342664 TTAGGGTCATC
66 TTAGGGTCATC
* *
1342675 TGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGAGAACTTTTTGATGTTTTCAAAGCC
1 TGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCC
1342740 TTAGGGTCATC
66 TTAGGGTCATC
*
1342751 TGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCAGGAGCTTTTTGATGTTTTCAAAGCC
1 TGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCC
1342816 TTAGGGTCATC
66 TTAGGGTCATC
*
1342827 TGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCAGGAGCTTTTTGATGTTTTCAAAGCC
1 TGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCC
1342892 TTAGGGTCATC
66 TTAGGGTCATC
*
1342903 TGTAAGTCCTGCAGTGCATGATGTTTCTAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCC
1 TGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCC
1342968 TTAGGGTCATC
66 TTAGGGTCATC
* *
1342979 TGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCAGGAGCTTTTTGATGTTTTCAAAACC
1 TGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCC
1343044 TTAGGGTCATC
66 TTAGGGTCATC
* * **
1343055 TATAAGCCCTTTAGTGCATGATGTTT
1 TGTAAGTCCTGCAGTGCATGATGTTT
1343081 TTTAGGACCT
Statistics
Matches: 608, Mismatches: 26, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
76 608 1.00
ACGTcount: A:0.24, C:0.19, G:0.22, T:0.35
Consensus pattern (76 bp):
TGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCC
TTAGGGTCATC
Found at i:1343254 original size:3 final size:3
Alignment explanation
Indices: 1343246--1343304 Score: 73
Period size: 3 Copynumber: 19.3 Consensus size: 3
1343236 AATTATTTAA
* **
1343246 ATT ATT ATT TTT AAA ATT ATT ATT ATT ATT ATT ATT ATT ATAT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT-T ATT
*
1343292 ATT AAT ATT ATT A
1 ATT ATT ATT ATT A
1343305 AATTAAATAT
Statistics
Matches: 47, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
3 44 0.94
4 3 0.06
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (3 bp):
ATT
Found at i:1343264 original size:15 final size:15
Alignment explanation
Indices: 1343237--1343306 Score: 68
Period size: 15 Copynumber: 4.6 Consensus size: 15
1343227 TTTTACTTAA
*
1343237 ATTATTTAAATTATT
1 ATTATTAAAATTATT
*
1343252 ATTTTTAAAATTATT
1 ATTATTAAAATTATT
**
1343267 ATTATTATTATTATT
1 ATTATTAAAATTATT
** *
1343282 ATTATATATTATTAAT
1 ATTAT-TAAAATTATT
1343298 ATTATTAAA
1 ATTATTAAA
1343307 TTAAATATTA
Statistics
Matches: 46, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
15 32 0.70
16 14 0.30
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (15 bp):
ATTATTAAAATTATT
Found at i:1344705 original size:12 final size:12
Alignment explanation
Indices: 1344686--1344716 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
1344676 ATTACTTTTA
1344686 TATTTTAATTAT
1 TATTTTAATTAT
*
1344698 TGTTTTAATTAT
1 TATTTTAATTAT
1344710 TATTTTA
1 TATTTTA
1344717 TTTTAATCAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.68
Consensus pattern (12 bp):
TATTTTAATTAT
Found at i:1344722 original size:17 final size:17
Alignment explanation
Indices: 1344639--1344723 Score: 50
Period size: 19 Copynumber: 4.7 Consensus size: 17
1344629 TTTTAATACC
*
1344639 TTTTATTTTAATCATTA
1 TTTTATTTTAATTATTA
*
1344656 -TTTATTTGCAATGTTATT-
1 TTTTATTT-TAA--TTATTA
1344674 TTATTACTTTTATATT-TTAA
1 TT-TTA-TTTTA-ATTATT-A
*
1344694 TTATTGTTTTAATTATTA
1 TT-TTATTTTAATTATTA
1344712 TTTTATTTTAAT
1 TTTTATTTTAAT
1344724 CATATTTAAT
Statistics
Matches: 53, Mismatches: 5, Indels: 20
0.68 0.06 0.26
Matches are distributed among these distances:
16 7 0.13
17 11 0.21
18 8 0.15
19 14 0.26
20 9 0.17
21 4 0.08
ACGTcount: A:0.27, C:0.04, G:0.04, T:0.66
Consensus pattern (17 bp):
TTTTATTTTAATTATTA
Found at i:1345068 original size:145 final size:148
Alignment explanation
Indices: 1344871--1345137 Score: 348
Period size: 146 Copynumber: 1.8 Consensus size: 148
1344861 TTAATCTATA
* * * *
1344871 TATTTTAATTATTTTTATAAAAAATATTTTATTAATATTTTTTTTATTTTTAATATTAAA-AAAT
1 TATTTTAATTATTTTTAGAAAAAATATTTTATTAATATTTTTTATATTTTTAATATCAAAGAAAA
* * *
1344935 GGGCTGTCTTAAAACACCTGGAAG-TCATTTTCTTATA-TTCTTAAATAAATAAATATCCTATTT
66 GAGCTGTCTTAAAACACCTAGAAGCTC-TTTTCTGATATTTC-TAAATAAATAAATATCCTATTT
1344998 TTTTAAATTATATATTAATT
129 TTTTAAATTATATATTAATT
* * *
1345018 TATTTTAA-TGTTTTTAGAAAAAA-GTTTTATTGATATTTATTTAT-TTTTTAATATCAAAGAAA
1 TATTTTAATTATTTTTAGAAAAAATATTTTATTAATATTT-TTTATATTTTTAATATCAAAGAAA
* * *
1345080 AGAGCTTTCTTAAAGCACCTAGAAGCTCTTTTCTGATATTTCTAAATAAGTAAATATC
65 AGAGCTGTCTTAAAACACCTAGAAGCTCTTTTCTGATATTTCTAAATAAATAAATATC
1345138 TCTTATATTT
Statistics
Matches: 103, Mismatches: 13, Indels: 9
0.82 0.10 0.07
Matches are distributed among these distances:
145 26 0.25
146 64 0.62
147 13 0.13
ACGTcount: A:0.37, C:0.08, G:0.07, T:0.48
Consensus pattern (148 bp):
TATTTTAATTATTTTTAGAAAAAATATTTTATTAATATTTTTTATATTTTTAATATCAAAGAAAA
GAGCTGTCTTAAAACACCTAGAAGCTCTTTTCTGATATTTCTAAATAAATAAATATCCTATTTTT
TTAAATTATATATTAATT
Found at i:1347052 original size:23 final size:23
Alignment explanation
Indices: 1347026--1347073 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 23
1347016 ATAAAGTACA
*
1347026 ATAACATACTAGGTAGCGCTTAT
1 ATAACATAATAGGTAGCGCTTAT
**
1347049 ATAATGTAATAGGTAGCGCTTAT
1 ATAACATAATAGGTAGCGCTTAT
1347072 AT
1 AT
1347074 TTACCTATTT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.35, C:0.12, G:0.19, T:0.33
Consensus pattern (23 bp):
ATAACATAATAGGTAGCGCTTAT
Found at i:1347527 original size:23 final size:23
Alignment explanation
Indices: 1347501--1347563 Score: 99
Period size: 23 Copynumber: 2.7 Consensus size: 23
1347491 ATATAACCAC
1347501 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
* *
1347524 TACCTATTACATTATATAAGCGC
1 TACCTATTACATTATATAAACGA
*
1347547 TACCTATTACATCATAT
1 TACCTATTACATTATAT
1347564 GTTTACCTAT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.38, C:0.21, G:0.05, T:0.37
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:1348701 original size:62 final size:62
Alignment explanation
Indices: 1348627--1348762 Score: 150
Period size: 62 Copynumber: 2.2 Consensus size: 62
1348617 ATTTGTACAC
*
1348627 TTTTGCTCACTTA-ATTTAAAAA-ATATATAAGTTTTAGCCACTTACGTTATCGTTTTATTAAG
1 TTTTGATCACTTATA-TTAAAAATATAT-TAAGTTTTAGCCACTTACGTTATCGTTTTATTAAG
**** * * *
1348689 TTTTGATCACTTATATTACTGTTTTATTAAGTTTTGGCCACTTACGTTGTCGTTTTATTAAG
1 TTTTGATCACTTATATTAAAAATATATTAAGTTTTAGCCACTTACGTTATCGTTTTATTAAG
* *
1348751 TTGTGGTCACTT
1 TTTTGATCACTT
1348763 GGATGTTGAA
Statistics
Matches: 62, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
62 58 0.94
63 4 0.06
ACGTcount: A:0.25, C:0.13, G:0.13, T:0.49
Consensus pattern (62 bp):
TTTTGATCACTTATATTAAAAATATATTAAGTTTTAGCCACTTACGTTATCGTTTTATTAAG
Found at i:1348762 original size:31 final size:30
Alignment explanation
Indices: 1348654--1348762 Score: 119
Period size: 31 Copynumber: 3.5 Consensus size: 30
1348644 AAAAAATATA
* *
1348654 TAAGTTTTAGCCACTTACGTTATCGTTTTAT
1 TAAGTTTTGGTCACTTACGTT-TCGTTTTAT
* ** *
1348685 TAAGTTTTGATCACTTATATTACTGTTTTAT
1 TAAGTTTTGGTCACTTACGTTTC-GTTTTAT
*
1348716 TAAGTTTTGGCCACTTACGTTGTCGTTTTAT
1 TAAGTTTTGGTCACTTACGTT-TCGTTTTAT
*
1348747 TAAGTTGTGGTCACTT
1 TAAGTTTTGGTCACTT
1348763 GGATGTTGAA
Statistics
Matches: 63, Mismatches: 13, Indels: 4
0.79 0.16 0.05
Matches are distributed among these distances:
30 1 0.02
31 61 0.97
32 1 0.02
ACGTcount: A:0.21, C:0.14, G:0.16, T:0.50
Consensus pattern (30 bp):
TAAGTTTTGGTCACTTACGTTTCGTTTTAT
Found at i:1350173 original size:31 final size:31
Alignment explanation
Indices: 1350101--1350177 Score: 102
Period size: 31 Copynumber: 2.5 Consensus size: 31
1350091 TCAACGTCCA
*
1350101 AGTGACTAAAACTTAATAAAACGATAACGTG
1 AGTGACCAAAACTTAATAAAACGATAACGTG
* * *
1350132 AATGATCAAAACTTAATAAAACGATAATGT-
1 AGTGACCAAAACTTAATAAAACGATAACGTG
1350162 AGGTGACCAAAACTTA
1 A-GTGACCAAAACTTA
1350178 TGTTTTTAAA
Statistics
Matches: 39, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
30 1 0.03
31 38 0.97
ACGTcount: A:0.49, C:0.13, G:0.14, T:0.23
Consensus pattern (31 bp):
AGTGACCAAAACTTAATAAAACGATAACGTG
Found at i:1362195 original size:54 final size:55
Alignment explanation
Indices: 1362089--1362218 Score: 181
Period size: 54 Copynumber: 2.4 Consensus size: 55
1362079 CACATATTAT
* *
1362089 CTTATATTCATACAGATTTATTAAAAAAAACATGAATATCTAATATAATTTACTAA
1 CTTATATTCATACAAATTTATT-AAAAAAACATAAATATCTAATATAATTTACTAA
* * *
1362145 CTTATATTCATACAAATTTATT-GAAAAACATAAATATCTGATATAATTTACTAT
1 CTTATATTCATACAAATTTATTAAAAAAACATAAATATCTAATATAATTTACTAA
* *
1362199 CTTATATTTATACATATTTA
1 CTTATATTCATACAAATTTA
1362219 CTGGGGAAAA
Statistics
Matches: 67, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
54 46 0.69
56 21 0.31
ACGTcount: A:0.45, C:0.11, G:0.03, T:0.42
Consensus pattern (55 bp):
CTTATATTCATACAAATTTATTAAAAAAACATAAATATCTAATATAATTTACTAA
Found at i:1363072 original size:2 final size:2
Alignment explanation
Indices: 1363065--1363100 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
1363055 TATGTTTTTC
1363065 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1363101 ATTTCGTTTG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:1366318 original size:275 final size:275
Alignment explanation
Indices: 1365827--1366337 Score: 943
Period size: 275 Copynumber: 1.9 Consensus size: 275
1365817 TTAACTCTTT
*
1365827 TACTTTTGTCATCGATCTTTTAATCTGGTGTAGGACACCACTTAACTATTTAATTTGTTCAATTA
1 TACTTTTGTCATCGATCTTTTAATCTGGTGTAGGACACCACTTAACTATTTAATTTATTCAATTA
*
1365892 GACCACTTGTCATTAGTATTTGACGGAAGTGATGGCCTAGTAGTTAAAAGAATTGGTATATTTAT
66 GACCACTTGTCATTAATATTTGACGGAAGTGATGGCCTAGTAGTTAAAAGAATTGGTATATTTAT
*
1365957 ACATTTAGTCCTTAATATTTACACATTCTCTCAATTTTGTCATTACTTATATTTAATTTAATAAA
131 ACATTTAGTCCTTAATATTTACACATTCTCTAAATTTTGTCATTACTTATATTTAATTTAATAAA
* * *
1366022 TTAATCATTCAATCAGGATCTGACACGTGTCAATACATGATTGTAATATATTTTTATTTTTTTAA
196 TTAACCATTCAATCAGGATCTGACACATGTCAACACATGATTGTAATATATTTTTATTTTTTTAA
1366087 TATTTTAATTTCATA
261 TATTTTAATTTCATA
1366102 TACTTTTGTCATCGATCTTTTAATCTGGTGTAGGACACCACTTAACTATTTAATTTATTCAATTA
1 TACTTTTGTCATCGATCTTTTAATCTGGTGTAGGACACCACTTAACTATTTAATTTATTCAATTA
1366167 GACCACTTGTCATTAATATTTGACGGAAGTGATGGCCTTA-TAGTTAAAAGAATTGGTATATTTA
66 GACCACTTGTCATTAATATTTGACGGAAGTGATGGCC-TAGTAGTTAAAAGAATTGGTATATTTA
1366231 TACATTTAGTCCTTAATATTTACACATTCTCTAAATTTTGTCATTACTTATATTTAATTTAATAA
130 TACATTTAGTCCTTAATATTTACACATTCTCTAAATTTTGTCATTACTTATATTTAATTTAATAA
*
1366296 ATTAACCATTCAATCAGGATCTGACATATGTCAACACATGAT
195 ATTAACCATTCAATCAGGATCTGACACATGTCAACACATGAT
1366338 CATGACACGT
Statistics
Matches: 228, Mismatches: 7, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
275 226 0.99
276 2 0.01
ACGTcount: A:0.32, C:0.14, G:0.12, T:0.42
Consensus pattern (275 bp):
TACTTTTGTCATCGATCTTTTAATCTGGTGTAGGACACCACTTAACTATTTAATTTATTCAATTA
GACCACTTGTCATTAATATTTGACGGAAGTGATGGCCTAGTAGTTAAAAGAATTGGTATATTTAT
ACATTTAGTCCTTAATATTTACACATTCTCTAAATTTTGTCATTACTTATATTTAATTTAATAAA
TTAACCATTCAATCAGGATCTGACACATGTCAACACATGATTGTAATATATTTTTATTTTTTTAA
TATTTTAATTTCATA
Found at i:1378194 original size:27 final size:28
Alignment explanation
Indices: 1378153--1378206 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 28
1378143 GACATATTAG
* *
1378153 ATTTTTTGAATGAGTGAAGTTAGGTCAA
1 ATTTTTTGAAAGAGTGAAGTCAGGTCAA
*
1378181 ATTTTTT-AAAGAGTGAGGTCAGGTCA
1 ATTTTTTGAAAGAGTGAAGTCAGGTCA
1378207 GATCAGGTTC
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
27 16 0.70
28 7 0.30
ACGTcount: A:0.31, C:0.06, G:0.26, T:0.37
Consensus pattern (28 bp):
ATTTTTTGAAAGAGTGAAGTCAGGTCAA
Found at i:1380956 original size:31 final size:31
Alignment explanation
Indices: 1380921--1381002 Score: 94
Period size: 31 Copynumber: 2.6 Consensus size: 31
1380911 TCAAAAACAC
* *
1380921 AAGTTTTGGTCACTTACGA-TATTGTTTTATT
1 AAGTTATGGTCACTTA-GATTATCGTTTTATT
* *
1380952 AAGTTCTGGTCACTTATATTATCGTTTTATT
1 AAGTTATGGTCACTTAGATTATCGTTTTATT
* *
1380983 AAGTTATAGTCACTTGGATT
1 AAGTTATGGTCACTTAGATT
1381003 TTGATTGACG
Statistics
Matches: 43, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
30 1 0.02
31 42 0.98
ACGTcount: A:0.24, C:0.11, G:0.16, T:0.49
Consensus pattern (31 bp):
AAGTTATGGTCACTTAGATTATCGTTTTATT
Found at i:1384001 original size:3 final size:3
Alignment explanation
Indices: 1383988--1384080 Score: 57
Period size: 3 Copynumber: 30.0 Consensus size: 3
1383978 TACTAGTTTA
* * *
1383988 ATT AGT ATT ATT ATT AGTT ATA ATT ATT A-T ATGT CATT AATT ATA ATTT
1 ATT ATT ATT ATT ATT A-TT ATT ATT ATT ATT AT-T -ATT -ATT ATT A-TT
* * *
1384037 ATT ATG GTCT ATT ATT ATT ATT ATT -TT ATT ATT A-T ATA ATT ATT
1 ATT ATT AT-T ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1384081 TATATGTATG
Statistics
Matches: 69, Mismatches: 13, Indels: 16
0.70 0.13 0.16
Matches are distributed among these distances:
2 6 0.09
3 50 0.72
4 11 0.16
5 2 0.03
ACGTcount: A:0.34, C:0.02, G:0.05, T:0.58
Consensus pattern (3 bp):
ATT
Found at i:1384031 original size:23 final size:22
Alignment explanation
Indices: 1384000--1384087 Score: 76
Period size: 23 Copynumber: 4.0 Consensus size: 22
1383990 TAGTATTATT
1384000 ATTAGTTATAATTATTATATGTC
1 ATTA-TTATAATTATTATATGTC
*
1384023 ATTAATTATAATTTATTAT-GGTC
1 ATT-ATTATAA-TTATTATATGTC
* *
1384046 TATTATTATTATTATTTTAT-T-
1 -ATTATTATAATTATTATATGTC
1384067 ATTA-TATAATTATTTATATGT
1 ATTATTATAATTA-TTATATGT
1384088 ATGTTTTGAT
Statistics
Matches: 53, Mismatches: 6, Indels: 14
0.73 0.08 0.19
Matches are distributed among these distances:
19 7 0.13
20 9 0.17
21 1 0.02
22 7 0.13
23 18 0.34
24 11 0.21
ACGTcount: A:0.34, C:0.02, G:0.06, T:0.58
Consensus pattern (22 bp):
ATTATTATAATTATTATATGTC
Found at i:1389584 original size:15 final size:15
Alignment explanation
Indices: 1389564--1389600 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 15
1389554 TGAGACATTA
*
1389564 CCCGCCCCGCATCCG
1 CCCGCCCCACATCCG
*
1389579 CCCGCCCCACATCCT
1 CCCGCCCCACATCCG
1389594 CCCGCCC
1 CCCGCCC
1389601 AGCTAAATAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.08, C:0.70, G:0.14, T:0.08
Consensus pattern (15 bp):
CCCGCCCCACATCCG
Found at i:1391564 original size:24 final size:24
Alignment explanation
Indices: 1391537--1391583 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
1391527 TCACCATCGT
1391537 CATCACCAAATGACCATCCACCCA
1 CATCACCAAATGACCATCCACCCA
* *
1391561 CATCGCTAAATGACCATCCACCC
1 CATCACCAAATGACCATCCACCC
1391584 GTCATCGACC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.34, C:0.45, G:0.06, T:0.15
Consensus pattern (24 bp):
CATCACCAAATGACCATCCACCCA
Found at i:1392612 original size:12 final size:12
Alignment explanation
Indices: 1392595--1392623 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
1392585 TTCTCCACCG
1392595 TCCTTGGTATGA
1 TCCTTGGTATGA
1392607 TCCTTGGTATGA
1 TCCTTGGTATGA
1392619 TCCTT
1 TCCTT
1392624 TGCTTTCTTC
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:0.14, C:0.21, G:0.21, T:0.45
Consensus pattern (12 bp):
TCCTTGGTATGA
Found at i:1398767 original size:25 final size:25
Alignment explanation
Indices: 1398730--1398782 Score: 61
Period size: 25 Copynumber: 2.1 Consensus size: 25
1398720 GATAATTAGA
* **
1398730 AAACATAATAAGTTTCGACTAATCT
1 AAACATAACAAGTCACGACTAATCT
* *
1398755 AAACATTACAAGTCACGACTAATTT
1 AAACATAACAAGTCACGACTAATCT
1398780 AAA
1 AAA
1398783 TTTTGTAATT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.47, C:0.17, G:0.08, T:0.28
Consensus pattern (25 bp):
AAACATAACAAGTCACGACTAATCT
Found at i:1398951 original size:21 final size:21
Alignment explanation
Indices: 1398927--1398967 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
1398917 TATATTCAAT
1398927 TTTTTAGTAATTTAATTTTTA
1 TTTTTAGTAATTTAATTTTTA
1398948 TTTTTAGTAATTTAATTTTT
1 TTTTTAGTAATTTAATTTTT
1398968 TTTGAATATC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.27, C:0.00, G:0.05, T:0.68
Consensus pattern (21 bp):
TTTTTAGTAATTTAATTTTTA
Found at i:1405022 original size:21 final size:21
Alignment explanation
Indices: 1404996--1405035 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
1404986 CAGAACCCCA
*
1404996 GGGGGGTATCGATTCCCCTGT
1 GGGGGGAATCGATTCCCCTGT
*
1405017 GGGGGGAATCGGTTCCCCT
1 GGGGGGAATCGATTCCCCT
1405036 TCAAAGGGGG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.10, C:0.25, G:0.40, T:0.25
Consensus pattern (21 bp):
GGGGGGAATCGATTCCCCTGT
Found at i:1405064 original size:20 final size:21
Alignment explanation
Indices: 1405018--1405078 Score: 79
Period size: 20 Copynumber: 2.9 Consensus size: 21
1405008 TTCCCCTGTG
1405018 GGGGGAATCGGTTCCCCTTCAAA
1 GGGGGAATCGGTT-CCC-TCAAA
1405041 GGGGGAATCGGTTCCCTC-AA
1 GGGGGAATCGGTTCCCTCAAA
* *
1405061 GGGGGGATCGATTCCCTC
1 GGGGGAATCGGTTCCCTC
1405079 TGCACCAAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
20 18 0.50
21 2 0.06
22 3 0.08
23 13 0.36
ACGTcount: A:0.18, C:0.26, G:0.34, T:0.21
Consensus pattern (21 bp):
GGGGGAATCGGTTCCCTCAAA
Found at i:1413924 original size:20 final size:20
Alignment explanation
Indices: 1413899--1413953 Score: 65
Period size: 20 Copynumber: 2.6 Consensus size: 20
1413889 TTTTGGTGCA
*
1413899 GAGGGAATCGATCCCCCCTT
1 GAGGGAACCGATCCCCCCTT
*
1413919 GAGGGAACCGATTCCCCCTTT
1 GAGGGAACCGA-TCCCCCCTT
1413940 GAAGGGGAACCGAT
1 G-A-GGGAACCGAT
1413954 TCTCCCCACA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
20 10 0.33
21 9 0.30
22 2 0.07
23 9 0.30
ACGTcount: A:0.24, C:0.29, G:0.29, T:0.18
Consensus pattern (20 bp):
GAGGGAACCGATCCCCCCTT
Found at i:1413951 original size:23 final size:21
Alignment explanation
Indices: 1413899--1413960 Score: 72
Period size: 23 Copynumber: 2.9 Consensus size: 21
1413889 TTTTGGTGCA
*
1413899 GAGGGAATCGA-TCCCCCCTT
1 GAGGGAACCGATTCCCCCCTT
*
1413919 GAGGGAACCGATTCCCCCTTT
1 GAGGGAACCGATTCCCCCCTT
*
1413940 GAAGGGGAACCGATTCTCCCC
1 G-A-GGGAACCGATTCCCCCC
1413961 ACAGGGGAAT
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
20 10 0.29
21 9 0.26
22 1 0.03
23 15 0.43
ACGTcount: A:0.21, C:0.34, G:0.26, T:0.19
Consensus pattern (21 bp):
GAGGGAACCGATTCCCCCCTT
Found at i:1413981 original size:21 final size:21
Alignment explanation
Indices: 1413942--1413981 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
1413932 CCCCCTTTGA
* *
1413942 AGGGGAACCGATTCTCCCCAC
1 AGGGGAACCGATACCCCCCAC
*
1413963 AGGGGAATCGATACCCCCC
1 AGGGGAACCGATACCCCCC
1413982 TGGGGTTCTG
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.25, C:0.38, G:0.25, T:0.12
Consensus pattern (21 bp):
AGGGGAACCGATACCCCCCAC
Found at i:1415918 original size:9 final size:8
Alignment explanation
Indices: 1415895--1415946 Score: 54
Period size: 9 Copynumber: 6.4 Consensus size: 8
1415885 TTGTTTCAAC
1415895 TTTTTGGA
1 TTTTTGGA
1415903 TATTTTGGA
1 T-TTTTGGA
1415912 TTGTTT-GA
1 TT-TTTGGA
1415920 TTTTGTGGA
1 TTTT-TGGA
*
1415929 TTGTTGGA
1 TTTTTGGA
1415937 -TTTTGGA
1 TTTTTGGA
1415944 TTT
1 TTT
1415947 ATGAATAGTA
Statistics
Matches: 37, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
7 8 0.22
8 13 0.35
9 16 0.43
ACGTcount: A:0.13, C:0.00, G:0.27, T:0.60
Consensus pattern (8 bp):
TTTTTGGA
Found at i:1415930 original size:17 final size:17
Alignment explanation
Indices: 1415898--1415941 Score: 63
Period size: 17 Copynumber: 2.6 Consensus size: 17
1415888 TTTCAACTTT
1415898 TTGGATATTT-TGGATTG
1 TTGGAT-TTTGTGGATTG
*
1415915 TTTGATTTTGTGGATTG
1 TTGGATTTTGTGGATTG
1415932 TTGGATTTTG
1 TTGGATTTTG
1415942 GATTTATGAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
16 3 0.12
17 21 0.88
ACGTcount: A:0.14, C:0.00, G:0.30, T:0.57
Consensus pattern (17 bp):
TTGGATTTTGTGGATTG
Found at i:1416715 original size:77 final size:77
Alignment explanation
Indices: 1416510--1416717 Score: 289
Period size: 76 Copynumber: 2.7 Consensus size: 77
1416500 CCGTTGTACA
* * *
1416510 AGGGGGGAATCGGTACCCCCT-TGGGGGGG-ATCGGTTCCCTCCGAGC-ATACTGGAATTCTCGG
1 AGGGGGGAATCGGTTCCTCCTATGGGGGGGAATCGGTTCCCTCCGAGCAAT-CTGGAAATCTCGG
** *
1416572 AGCAAAACTGTTT
65 AGCAAAACCATTC
* *
1416585 AGGGGGGAATCGGTTCCTCCTAT-GGGGAGAATCGGTTCCCTCCGAGCATTCTGGAAATCTCGGA
1 AGGGGGGAATCGGTTCCTCCTATGGGGGGGAATCGGTTCCCTCCGAGCAATCTGGAAATCTCGGA
*
1416649 GCCAAACCATTC
66 GCAAAACCATTC
*
1416661 AGGGGGGAATCGGTTCCTCCTATGGGGGGGAATCGGTTCCCTCTGAGCAATCTGGAA
1 AGGGGGGAATCGGTTCCTCCTATGGGGGGGAATCGGTTCCCTCCGAGCAATCTGGAA
1416718 TTTTTGGCTT
Statistics
Matches: 117, Mismatches: 12, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
75 24 0.21
76 62 0.53
77 31 0.26
ACGTcount: A:0.21, C:0.24, G:0.33, T:0.23
Consensus pattern (77 bp):
AGGGGGGAATCGGTTCCTCCTATGGGGGGGAATCGGTTCCCTCCGAGCAATCTGGAAATCTCGGA
GCAAAACCATTC
Found at i:1429896 original size:13 final size:13
Alignment explanation
Indices: 1429878--1429902 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1429868 ATTACATACG
1429878 TGCATATGAAAAA
1 TGCATATGAAAAA
1429891 TGCATATGAAAA
1 TGCATATGAAAA
1429903 CTGTTCAACT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.52, C:0.08, G:0.16, T:0.24
Consensus pattern (13 bp):
TGCATATGAAAAA
Found at i:1430256 original size:21 final size:20
Alignment explanation
Indices: 1430210--1430264 Score: 58
Period size: 21 Copynumber: 2.6 Consensus size: 20
1430200 ATAATTTATA
*
1430210 TTTTTAATAATTAAATAATT
1 TTTTTAATAATTAAATAACT
1430230 TATTTTAATAATATAAA-ATACT
1 T-TTTTAATAAT-TAAATA-ACT
1430252 TTTTTATATAATT
1 TTTTTA-ATAATT
1430265 TTAAATATTA
Statistics
Matches: 30, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
20 1 0.03
21 17 0.57
22 12 0.40
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.55
Consensus pattern (20 bp):
TTTTTAATAATTAAATAACT
Found at i:1436452 original size:216 final size:216
Alignment explanation
Indices: 1436078--1436500 Score: 693
Period size: 216 Copynumber: 2.0 Consensus size: 216
1436068 TAGATTAGAG
* * * **
1436078 ATTATACTATTGGGCTTTGTAAGCTCAACCTTTAGATGTTTTTCGTTGGCAGGTCAATAACTTGA
1 ATTATACTATTAGGCTTTGTAAGCTCAACCTTCAAATGTTTTTCGTTGAAAGGTCAATAACTTGA
* *
1436143 GCAGTTCGTGGAACACCATCGCAGCAGGACTTCCAGTATCTCTGACAGAGTACTATACTATAGCT
66 GCAGTTCGTGGAACACCATCGCAGCAAGACTTCCAGTATCTCTGAAAGAGTACTATACTATAGCT
* *
1436208 TTAGTGGTCATATATATTCATAGAACCTTACTCATGTATTCAGTTTATTAAACTCAGAGTTTGTA
131 TTAGTGGGCATATATATTCATAGAACCTTACTCATGTATTCAATTTATTAAACTCAGAGTTTGTA
1436273 TTATTTTGGTTTAGGTTAGCT
196 TTATTTTGGTTTAGGTTAGCT
** *
1436294 ATTATACTATTAGGCTTTGTAAGCTCAGGCTTCAAATGTTTTTCGTTGAAAGGTCAGTAACTTGA
1 ATTATACTATTAGGCTTTGTAAGCTCAACCTTCAAATGTTTTTCGTTGAAAGGTCAATAACTTGA
* * *
1436359 GCAGTTCGTGGAGCACCATTGCAGCAAGACTTCCAGTATCTCTGAAAGAGTACTATATTATAGCT
66 GCAGTTCGTGGAACACCATCGCAGCAAGACTTCCAGTATCTCTGAAAGAGTACTATACTATAGCT
* *
1436424 TTAGTGGGCATATGTATTCATAGAACCTTACTCATGTATTCAATTTATTAAACTCAGAGTTTTTA
131 TTAGTGGGCATATATATTCATAGAACCTTACTCATGTATTCAATTTATTAAACTCAGAGTTTGTA
1436489 TTATTTTGGTTT
196 TTATTTTGGTTT
1436501 TAAATTATAT
Statistics
Matches: 190, Mismatches: 17, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
216 190 1.00
ACGTcount: A:0.27, C:0.16, G:0.19, T:0.38
Consensus pattern (216 bp):
ATTATACTATTAGGCTTTGTAAGCTCAACCTTCAAATGTTTTTCGTTGAAAGGTCAATAACTTGA
GCAGTTCGTGGAACACCATCGCAGCAAGACTTCCAGTATCTCTGAAAGAGTACTATACTATAGCT
TTAGTGGGCATATATATTCATAGAACCTTACTCATGTATTCAATTTATTAAACTCAGAGTTTGTA
TTATTTTGGTTTAGGTTAGCT
Found at i:1438087 original size:451 final size:451
Alignment explanation
Indices: 1437245--1438147 Score: 1734
Period size: 451 Copynumber: 2.0 Consensus size: 451
1437235 GTGAAACACG
*
1437245 TAAAGACTTCTCTTGAGGCAAAGTGACTAATACACTCATAAGTATTGAACAACCAAAATAAAACC
1 TAAAGACTTATCTTGAGGCAAAGTGACTAATACACTCATAAGTATTGAACAACCAAAATAAAACC
*
1437310 TCTTAATAACTAACAGTAGTAATAGAATAATTAACCCTAGCATAATATTCTAGATGAGATGACGT
66 TCTTAATAACTAACAGTAGTAATAGAATAATTAACCCTAGCATAATATTCTAGATGAGATGACAT
1437375 GCGAGAAAGTAGATAGTGAGGGGTTGACCTCACTTTAGTGTGTCCAACCATACTAGGGTATAGTC
131 GCGAGAAAGTAGATAGTGAGGGGTTGACCTCACTTTAGTGTGTCCAACCATACTAGGGTATAGTC
*
1437440 AGGTTACCTTAGTTGTCCTAGTGGGGCATTTTCAGTGCTTGAGACACTTTAGGAGCTAACTAGGG
196 AGGTTACCTTAGTTGTCCTAGTGGGGCATTTTCAGTGCTTAAGACACTTTAGGAGCTAACTAGGG
*
1437505 TACAAGGCCCAAACACTCCGGAGAAGTAGGTTAGCGGTGTTAGTGTTGCATTGTCTTTGGGCTTT
261 TACAAGGCCCAAACACTCCGGAGAAGTAGGTTAGCGGTGTCAGTGTTGCATTGTCTTTGGGCTTT
1437570 AAATATGCATATATAGTTGCATATATCCAATACATTAGTTATCAAAAAAGCTTGGCTTGATATTA
326 AAATATGCATATATAGTTGCATATATCCAATACATTAGTTATCAAAAAAGCTTGGCTTGATATTA
1437635 TGTGATACCAAGCCAATGCTTCAGTTGAGTAGGAATATCGACGTTGTATGATACTGAAATT
391 TGTGATACCAAGCCAATGCTTCAGTTGAGTAGGAATATCGACGTTGTATGATACTGAAATT
*
1437696 TAAAGACTTATCTTGAGGCAAAGTGACTAATACACTCCTAAGTATTGAACAACCAAAATAAAACC
1 TAAAGACTTATCTTGAGGCAAAGTGACTAATACACTCATAAGTATTGAACAACCAAAATAAAACC
*
1437761 TCTTAATAACTAACAGTAGTAATAGAATAATTAACCCTAGCATAATATTCTAGATGAGATGATAT
66 TCTTAATAACTAACAGTAGTAATAGAATAATTAACCCTAGCATAATATTCTAGATGAGATGACAT
*
1437826 GCGAGAAAGTGGATAGTGAGGGGTTGACCTCACTTTAGTGTGTCCAACCATACTAGGGTATAGTC
131 GCGAGAAAGTAGATAGTGAGGGGTTGACCTCACTTTAGTGTGTCCAACCATACTAGGGTATAGTC
1437891 AGGTTACCTTAGTTGTCCTAGTGGGGCATTTTCAGTGCTTAAGACACTTTAGGAGCTAACTAGGG
196 AGGTTACCTTAGTTGTCCTAGTGGGGCATTTTCAGTGCTTAAGACACTTTAGGAGCTAACTAGGG
*
1437956 TACAAGGCCCAAATACTCCGGAGAAGTAGGTTAGCGGTGTCAGTGTTGCATTGTCTTTGGGCTTT
261 TACAAGGCCCAAACACTCCGGAGAAGTAGGTTAGCGGTGTCAGTGTTGCATTGTCTTTGGGCTTT
1438021 AAATATGCATATATAGTTGCATATATCCAATACATTAGTTATCAAAAAAGCTTGGCTTGATATTA
326 AAATATGCATATATAGTTGCATATATCCAATACATTAGTTATCAAAAAAGCTTGGCTTGATATTA
1438086 TGTGATACCAAGCCAATGCTTCAGTTGAGTAGGAATATCGACGTTGTATGATACTGAAATT
391 TGTGATACCAAGCCAATGCTTCAGTTGAGTAGGAATATCGACGTTGTATGATACTGAAATT
1438147 T
1 T
1438148 CTTCTCGATA
Statistics
Matches: 444, Mismatches: 8, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
451 444 1.00
ACGTcount: A:0.33, C:0.16, G:0.21, T:0.30
Consensus pattern (451 bp):
TAAAGACTTATCTTGAGGCAAAGTGACTAATACACTCATAAGTATTGAACAACCAAAATAAAACC
TCTTAATAACTAACAGTAGTAATAGAATAATTAACCCTAGCATAATATTCTAGATGAGATGACAT
GCGAGAAAGTAGATAGTGAGGGGTTGACCTCACTTTAGTGTGTCCAACCATACTAGGGTATAGTC
AGGTTACCTTAGTTGTCCTAGTGGGGCATTTTCAGTGCTTAAGACACTTTAGGAGCTAACTAGGG
TACAAGGCCCAAACACTCCGGAGAAGTAGGTTAGCGGTGTCAGTGTTGCATTGTCTTTGGGCTTT
AAATATGCATATATAGTTGCATATATCCAATACATTAGTTATCAAAAAAGCTTGGCTTGATATTA
TGTGATACCAAGCCAATGCTTCAGTTGAGTAGGAATATCGACGTTGTATGATACTGAAATT
Found at i:1438328 original size:32 final size:32
Alignment explanation
Indices: 1438285--1438357 Score: 94
Period size: 32 Copynumber: 2.3 Consensus size: 32
1438275 ACAGATACTA
* *
1438285 GCATAGCAGAGTTAGTGTT-GCATTTATATAAT
1 GCATAGCAGAGTCAGT-TTCGCATTTAGATAAT
*
1438317 GCATAGTAGAGTCAGTTTCGCATTTAGATAAT
1 GCATAGCAGAGTCAGTTTCGCATTTAGATAAT
*
1438349 GCGTAGCAG
1 GCATAGCAG
1438358 TTACAATCAT
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
31 2 0.06
32 33 0.94
ACGTcount: A:0.30, C:0.12, G:0.25, T:0.33
Consensus pattern (32 bp):
GCATAGCAGAGTCAGTTTCGCATTTAGATAAT
Found at i:1439681 original size:15 final size:15
Alignment explanation
Indices: 1439661--1439691 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
1439651 AACTATTATA
*
1439661 AATTAATGACAAATT
1 AATTAATGAAAAATT
1439676 AATTAATGAAAAATT
1 AATTAATGAAAAATT
1439691 A
1 A
1439692 TACTCAAAGC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.58, C:0.03, G:0.06, T:0.32
Consensus pattern (15 bp):
AATTAATGAAAAATT
Found at i:1448937 original size:32 final size:32
Alignment explanation
Indices: 1448876--1448938 Score: 76
Period size: 32 Copynumber: 2.0 Consensus size: 32
1448866 AAAAACTTAT
*
1448876 AAAATTATAAAAGAAAATATAATTTTAATAAA
1 AAAATTATAAAAGAAAATATAATTATAATAAA
*
1448908 AAAATATATAAAA-AAATTA-AATATATAATAA
1 AAAAT-TATAAAAGAAAATATAAT-TATAATAA
1448939 TTTTAAATTT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
31 3 0.11
32 17 0.63
33 7 0.26
ACGTcount: A:0.68, C:0.00, G:0.02, T:0.30
Consensus pattern (32 bp):
AAAATTATAAAAGAAAATATAATTATAATAAA
Found at i:1454310 original size:59 final size:60
Alignment explanation
Indices: 1454175--1454310 Score: 163
Period size: 59 Copynumber: 2.3 Consensus size: 60
1454165 ATACTCAAGT
* * *
1454175 GATCATTTTGTAACTTTTAATAGTTGAGGAACTCAACAAAGTAGTGACCTATAGTCAGTG
1 GATCATTTTGTAACTTTTAATAGTTGAGGAACTCAACAAAGAAATGACCTATAATCAGTG
* * *
1454235 AATCATTTTGTAACTTTTAATAGTT-AGGGACTCAACAAAGAAAT-ATCCTTTAATCGAG-G
1 GATCATTTTGTAACTTTTAATAGTTGAGGAACTCAACAAAGAAATGA-CCTATAATC-AGTG
1454294 GATCATTTGTGT-ACTTT
1 GATCATTT-TGTAACTTT
1454311 ACCCTACAAA
Statistics
Matches: 66, Mismatches: 7, Indels: 7
0.82 0.09 0.09
Matches are distributed among these distances:
58 1 0.02
59 36 0.55
60 29 0.44
ACGTcount: A:0.33, C:0.13, G:0.18, T:0.36
Consensus pattern (60 bp):
GATCATTTTGTAACTTTTAATAGTTGAGGAACTCAACAAAGAAATGACCTATAATCAGTG
Found at i:1454940 original size:21 final size:21
Alignment explanation
Indices: 1454916--1454960 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
1454906 ATTAATATCA
*
1454916 AATACGAACAAACTTTTAACT
1 AATACGAACAAACTCTTAACT
* *
1454937 AATACTAACAACCTCTTAACT
1 AATACGAACAAACTCTTAACT
1454958 AAT
1 AAT
1454961 TATTATTAGG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.47, C:0.22, G:0.02, T:0.29
Consensus pattern (21 bp):
AATACGAACAAACTCTTAACT
Found at i:1458774 original size:14 final size:15
Alignment explanation
Indices: 1458735--1458774 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
1458725 AAAACTTAAA
1458735 AAATAAATAGATTAT
1 AAATAAATAGATTAT
*
1458750 AAATAATTAGATTA-
1 AAATAAATAGATTAT
*
1458764 GAATAAATAGA
1 AAATAAATAGA
1458775 CAAAATTTAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
14 9 0.41
15 13 0.59
ACGTcount: A:0.60, C:0.00, G:0.10, T:0.30
Consensus pattern (15 bp):
AAATAAATAGATTAT
Found at i:1458882 original size:19 final size:20
Alignment explanation
Indices: 1458841--1458879 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
1458831 CAACTATAGA
1458841 CGGTTCATATATTTTTATTT
1 CGGTTCATATATTTTTATTT
1458861 CGGTTCATATATTTTTATT
1 CGGTTCATATATTTTTATT
1458880 CGGATGGATA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.21, C:0.10, G:0.10, T:0.59
Consensus pattern (20 bp):
CGGTTCATATATTTTTATTT
Found at i:1465254 original size:15 final size:17
Alignment explanation
Indices: 1465223--1465254 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
1465213 ATGTATTTTT
1465223 ATCTATCTTGCAATTTA
1 ATCTATCTTGCAATTTA
1465240 ATCTA-CTTG-AATTTA
1 ATCTATCTTGCAATTTA
1465255 TTATATTATG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 6 0.40
16 4 0.27
17 5 0.33
ACGTcount: A:0.31, C:0.16, G:0.06, T:0.47
Consensus pattern (17 bp):
ATCTATCTTGCAATTTA
Found at i:1465389 original size:6 final size:6
Alignment explanation
Indices: 1465378--1465406 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
1465368 AAAAGAAAGT
1465378 AAAAAC AAAAAC AAAAAC AAAAAC AAAAA
1 AAAAAC AAAAAC AAAAAC AAAAAC AAAAA
1465407 ATCAACAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.86, C:0.14, G:0.00, T:0.00
Consensus pattern (6 bp):
AAAAAC
Found at i:1472288 original size:55 final size:55
Alignment explanation
Indices: 1472206--1472529 Score: 358
Period size: 55 Copynumber: 5.9 Consensus size: 55
1472196 TCTTCGAATG
* * * * *
1472206 ACGGGTCTGCT-TCCTATCCCTTTAGGGAGTATA-AGACTCGACCAATCTTCAGCAA
1 ACGGGTCTGCTCT-CTATTCCTTCAGAGAGTATAGA-ACTCGAACAATCTTCAACAA
* * * * *
1472261 ACGTGTCTGTTCCCTATTCATTCAGGGAGTATA-AGACTCGAACAATCTTCAACAA
1 ACGGGTCTGCTCTCTATTCCTTCAGAGAGTATAGA-ACTCGAACAATCTTCAACAA
* * *
1472316 ACGGGTCCGCTCTCTATTCCTTCATAGAGTATAGAACTCGAACAATCCTT-AATAA
1 ACGGGTCTGCTCTCTATTCCTTCAGAGAGTATAGAACTCGAACAAT-CTTCAACAA
* * * * *
1472371 ACGGG-CTTGCTCCCTTTTGCTTTAGGGAG--TAGAACTCGAACAATCTTCAACAA
1 ACGGGTC-TGCTCTCTATTCCTTCAGAGAGTATAGAACTCGAACAATCTTCAACAA
* *
1472424 ACGGGCCCGCTCTCTATTCCTTCAGAGAGTATAGAACTCGAACAATCTTCATA-AA
1 ACGGGTCTGCTCTCTATTCCTTCAGAGAGTATAGAACTCGAACAATCTTCA-ACAA
1472479 ACGGGTCTGCTCTCTATTCCTTCAGAGAGTATAGAACTCGAACAATCTTCA
1 ACGGGTCTGCTCTCTATTCCTTCAGAGAGTATAGAACTCGAACAATCTTCA
1472530 TAAAACGAGT
Statistics
Matches: 228, Mismatches: 32, Indels: 18
0.82 0.12 0.06
Matches are distributed among these distances:
52 3 0.01
53 40 0.18
54 2 0.01
55 178 0.78
56 5 0.02
ACGTcount: A:0.29, C:0.26, G:0.18, T:0.28
Consensus pattern (55 bp):
ACGGGTCTGCTCTCTATTCCTTCAGAGAGTATAGAACTCGAACAATCTTCAACAA
Found at i:1472440 original size:108 final size:109
Alignment explanation
Indices: 1472232--1472529 Score: 363
Period size: 108 Copynumber: 2.7 Consensus size: 109
1472222 TCCCTTTAGG
* * ** * * * *
1472232 GAGTATA-AGACTCGACCAATCTTCAGCAAACGTGTCTGTTCCCTATTCATTCAGGGAGTATA-A
1 GAGTATAGA-ACTCGAACAATCTTAATAAAACGGGTCTGCTCCCTATTCCTTCAGAGAG-ATAGA
* *
1472295 GACTCGAACAATCTTCAACAAACGGGTCCGCTCTCTATTCCTTCATA
64 -ACTCGAACAATCTTCAACAAACGGGCCCGCTCTCTATTCCTTCAGA
* * * *
1472342 GAGTATAGAACTCGAACAATCCTTAAT-AAACGGG-CTTGCTCCCTTTTGCTTTAGGGAG-TAGA
1 GAGTATAGAACTCGAACAAT-CTTAATAAAACGGGTC-TGCTCCCTATTCCTTCAGAGAGATAGA
1472404 ACTCGAACAATCTTCAACAAACGGGCCCGCTCTCTATTCCTTCAGA
64 ACTCGAACAATCTTCAACAAACGGGCCCGCTCTCTATTCCTTCAGA
* *
1472450 GAGTATAGAACTCGAACAATCTTCATAAAACGGGTCTGCTCTCTATTCCTTCAGAGAGTATAGAA
1 GAGTATAGAACTCGAACAATCTTAATAAAACGGGTCTGCTCCCTATTCCTTCAGAGAG-ATAGAA
1472515 CTCGAACAATCTTCA
65 CTCGAACAATCTTCA
1472530 TAAAACGAGT
Statistics
Matches: 163, Mismatches: 17, Indels: 16
0.83 0.09 0.08
Matches are distributed among these distances:
107 5 0.03
108 90 0.55
109 3 0.02
110 60 0.37
111 5 0.03
ACGTcount: A:0.30, C:0.25, G:0.17, T:0.28
Consensus pattern (109 bp):
GAGTATAGAACTCGAACAATCTTAATAAAACGGGTCTGCTCCCTATTCCTTCAGAGAGATAGAAC
TCGAACAATCTTCAACAAACGGGCCCGCTCTCTATTCCTTCAGA
Found at i:1472518 original size:163 final size:164
Alignment explanation
Indices: 1472225--1472533 Score: 446
Period size: 163 Copynumber: 1.9 Consensus size: 164
1472215 CTTCCTATCC
* * * * * * *
1472225 CTTTAGGGAGTATAAGACTCGACCAATCTTCAGCAAACGTGTCTGTTCCCTATTCATTCAGGGAG
1 CTTTAGGGAGTATAAGACTCGAACAATCTTCAACAAACGGGCCCGCTCCCTATTCATTCAGAGAG
*
1472290 TATAAGACTCGAACAATCTTCAACAAACGGGTCCGCTCTCTATTCCTTCATAGAGTATAGAACTC
66 TATAAGACTCGAACAATCTTCAACAAACGGGTCCGCTCTCTATTCCTTCAGAGAGTATAGAACTC
1472355 GAACAATCCTTAATAAACGGGCTTGCTCCCTTTTG
131 GAACAAT-CTTAATAAACGGGCTTGCTCCCTTTTG
* * *
1472390 CTTTAGGGAGTA-GA-ACTCGAACAATCTTCAACAAACGGGCCCGCTCTCTATTCCTTCAGAGAG
1 CTTTAGGGAGTATAAGACTCGAACAATCTTCAACAAACGGGCCCGCTCCCTATTCATTCAGAGAG
*
1472453 TAT-AGAACTCGAACAATCTTCATA-AAACGGGTCTGCTCTCTATTCCTTCAGAGAGTATAGAAC
66 TATAAG-ACTCGAACAATCTTCA-ACAAACGGGTCCGCTCTCTATTCCTTCAGAGAGTATAGAAC
*
1472516 TCGAACAATCTTCATAAA
129 TCGAACAATCTTAATAAA
1472534 ACGAGTTTGC
Statistics
Matches: 129, Mismatches: 13, Indels: 7
0.87 0.09 0.05
Matches are distributed among these distances:
162 10 0.08
163 105 0.81
164 2 0.02
165 12 0.09
ACGTcount: A:0.30, C:0.25, G:0.17, T:0.28
Consensus pattern (164 bp):
CTTTAGGGAGTATAAGACTCGAACAATCTTCAACAAACGGGCCCGCTCCCTATTCATTCAGAGAG
TATAAGACTCGAACAATCTTCAACAAACGGGTCCGCTCTCTATTCCTTCAGAGAGTATAGAACTC
GAACAATCTTAATAAACGGGCTTGCTCCCTTTTG
Found at i:1472593 original size:37 final size:36
Alignment explanation
Indices: 1472539--1472609 Score: 115
Period size: 37 Copynumber: 1.9 Consensus size: 36
1472529 ATAAAACGAG
* *
1472539 TTTGCTTCACTATTCTTCTGTGAAGGCTTATAGATGA
1 TTTGCTTCACTACTCTTCCGTGAAGGCTTA-AGATGA
1472576 TTTGCTTCACTACTCTTCCGTGAAGGCTTAAGAT
1 TTTGCTTCACTACTCTTCCGTGAAGGCTTAAGAT
1472610 TGACTTGTTT
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
36 4 0.12
37 28 0.88
ACGTcount: A:0.21, C:0.20, G:0.18, T:0.41
Consensus pattern (36 bp):
TTTGCTTCACTACTCTTCCGTGAAGGCTTAAGATGA
Found at i:1473931 original size:27 final size:26
Alignment explanation
Indices: 1473889--1473950 Score: 72
Period size: 27 Copynumber: 2.4 Consensus size: 26
1473879 CCCCTTTTAT
1473889 TTTTTCTC-TATTTTTTCATTTTTCA
1 TTTTTCTCTTATTTTTTCATTTTTCA
* **
1473914 TTTTTCTCTTTTTGTTTTTGTTTTTCA
1 TTTTTCTCTTATT-TTTTCATTTTTCA
*
1473941 TTTTTTTCTT
1 TTTTTCTCTT
1473951 CCATTTTCCT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
25 8 0.26
26 3 0.10
27 20 0.65
ACGTcount: A:0.06, C:0.13, G:0.03, T:0.77
Consensus pattern (26 bp):
TTTTTCTCTTATTTTTTCATTTTTCA
Found at i:1473989 original size:50 final size:47
Alignment explanation
Indices: 1473904--1474090 Score: 147
Period size: 48 Copynumber: 3.9 Consensus size: 47
1473894 CTCTATTTTT
* * * *
1473904 TCATTTTTCATTTTTCTCTTTTTGTTTTTGT-TTTTCATTTTTTTCT
1 TCATTTTTCATTTTTTTCTTTTTCTTTTTTTCTTTTCATTTTTTTCA
*
1473950 TCCATTTTCCTATTTTTTTCTTTTTCTTTTTTTCCTTTTCATTTTTTT-A
1 T-CATTTTTC-ATTTTTTTCTTTTTCTTTTTTT-CTTTTCATTTTTTTCA
* *
1473999 TCATTTTTCATTTTTTTATCATTTTTCTTTTCTTCTTTTTC-TTCTTTTCA
1 TCATTTTTCA-TTTTTT-TC-TTTTTCTTTTTTTC-TTTTCATTTTTTTCA
1474049 T--TTTTT-ATTATTTTTTCATTATTT-TTTTATTT-TTTTCATTTT
1 TCATTTTTCA-T-TTTTTTC-TT-TTTCTTTT-TTTCTTTTCATTTT
1474091 ATCTTTTATT
Statistics
Matches: 118, Mismatches: 10, Indels: 25
0.77 0.07 0.16
Matches are distributed among these distances:
46 6 0.05
47 23 0.19
48 47 0.40
49 10 0.08
50 32 0.27
ACGTcount: A:0.10, C:0.14, G:0.01, T:0.75
Consensus pattern (47 bp):
TCATTTTTCATTTTTTTCTTTTTCTTTTTTTCTTTTCATTTTTTTCA
Found at i:1474006 original size:18 final size:18
Alignment explanation
Indices: 1473985--1474029 Score: 83
Period size: 18 Copynumber: 2.6 Consensus size: 18
1473975 CTTTTTTTCC
1473985 TTTTCATTTTTTTATCAT
1 TTTTCATTTTTTTATCAT
1474003 TTTTCATTTTTTTATCAT
1 TTTTCATTTTTTTATCAT
1474021 TTTTC-TTTT
1 TTTTCATTTT
1474030 CTTCTTTTTC
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
17 4 0.15
18 23 0.85
ACGTcount: A:0.13, C:0.11, G:0.00, T:0.76
Consensus pattern (18 bp):
TTTTCATTTTTTTATCAT
Found at i:1474037 original size:58 final size:56
Alignment explanation
Indices: 1473964--1474082 Score: 154
Period size: 58 Copynumber: 2.1 Consensus size: 56
1473954 TTTTCCTATT
1473964 TTTTTCTTTTTCTTTTT-TTCCTTTTCATTTTTTTATCA-TTTTTCATT-TTTTTATCA
1 TTTTTCTTTTTCTTTTTCTT-CTTTTCA-TTTTTTATCATTTTTTCATTATTTTT-TCA
* *
1474020 TTTTTCTTTTCTTCTTTTTCTTCTTTTCATTTTTTATTATTTTTTCATTATTTTTTTA
1 TTTTTC-TTT-TTCTTTTTCTTCTTTTCATTTTTTATCATTTTTTCATTATTTTTTCA
1474078 TTTTT
1 TTTTT
1474083 TTCATTTTAT
Statistics
Matches: 56, Mismatches: 2, Indels: 8
0.85 0.03 0.12
Matches are distributed among these distances:
56 6 0.11
57 12 0.21
58 31 0.55
59 7 0.12
ACGTcount: A:0.10, C:0.13, G:0.00, T:0.77
Consensus pattern (56 bp):
TTTTTCTTTTTCTTTTTCTTCTTTTCATTTTTTATCATTTTTTCATTATTTTTTCA
Found at i:1474066 original size:18 final size:18
Alignment explanation
Indices: 1473985--1474090 Score: 72
Period size: 18 Copynumber: 5.6 Consensus size: 18
1473975 CTTTTTTTCC
*
1473985 TTTTCATTTTTTTATCA-T
1 TTTTCA-TTTTTTATTATT
*
1474003 TTTTCATTTTTTTATCA-T
1 TTTTCA-TTTTTTATTATT
* * *
1474021 TTTTCTTTTCTTCTTTTTCTT
1 TTTTC-ATT-TT-TTATTATT
1474042 CTTTTCATTTTTTATTATT
1 -TTTTCATTTTTTATTATT
*
1474061 TTTTCATTATTTTTTTATTT
1 TTTTCATT-TTTTATTA-TT
1474081 TTTTCATTTT
1 TTTTCATTTT
1474091 ATCTTTTATT
Statistics
Matches: 73, Mismatches: 8, Indels: 13
0.78 0.09 0.14
Matches are distributed among these distances:
18 33 0.45
19 17 0.23
20 15 0.21
21 3 0.04
22 5 0.07
ACGTcount: A:0.12, C:0.11, G:0.00, T:0.76
Consensus pattern (18 bp):
TTTTCATTTTTTATTATT
Found at i:1474069 original size:11 final size:11
Alignment explanation
Indices: 1474048--1474088 Score: 52
Period size: 11 Copynumber: 4.0 Consensus size: 11
1474038 TCTTCTTTTC
1474048 ATTTTTT-ATT
1 ATTTTTTCATT
1474058 ATTTTTTCATT
1 ATTTTTTCATT
*
1474069 ATTTTTTTA-T
1 ATTTTTTCATT
1474079 -TTTTTTCATT
1 ATTTTTTCATT
1474089 TTATCTTTTA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
9 7 0.26
10 9 0.33
11 11 0.41
ACGTcount: A:0.17, C:0.05, G:0.00, T:0.78
Consensus pattern (11 bp):
ATTTTTTCATT
Found at i:1474092 original size:22 final size:21
Alignment explanation
Indices: 1474001--1474101 Score: 71
Period size: 24 Copynumber: 4.5 Consensus size: 21
1473991 TTTTTTTATC
*
1474001 ATTTTTCATTTTTTTATCATTTTT
1 ATTTTTTA-TTTTTT-TCA-TTTT
* *
1474025 CTTTTCTTCTTTTTCTTC-TTTT
1 ATTTT-TTATTTTT-TTCATTTT
*
1474047 CATTTTTTATTATTTTTTCATTAT
1 -ATTTTTTA-T-TTTTTTCATTTT
1474071 -TTTTTTATTTTTTTCATTTT
1 ATTTTTTATTTTTTTCATTTT
*
1474091 ATCTTTTATTT
1 ATTTTTTATTT
1474102 CTTCTTCAAG
Statistics
Matches: 62, Mismatches: 8, Indels: 17
0.71 0.09 0.20
Matches are distributed among these distances:
20 11 0.18
21 10 0.16
22 13 0.21
23 8 0.13
24 18 0.29
25 2 0.03
ACGTcount: A:0.13, C:0.11, G:0.00, T:0.76
Consensus pattern (21 bp):
ATTTTTTATTTTTTTCATTTT
Found at i:1486770 original size:60 final size:60
Alignment explanation
Indices: 1486646--1486770 Score: 148
Period size: 60 Copynumber: 2.1 Consensus size: 60
1486636 GCAAGTACAT
* * *
1486646 AAATTAGTCCTCTGACTATAAGATATTGCTTTATTAAGTCCTCTGACTATTGAAAGTTAT
1 AAATTAGTCCTCTAACTATAAGATATTGCTTTATTAAGTCCTCTGACTATTAAAAGTTAG
* **
1486706 AAATTAGTCCTCTAACTATAAGGA-ATTG-TTTTTTGTGT-CTCATGACTATTAAAAGTTAAG
1 AAATTAGTCCTCTAACTATAA-GATATTGCTTTATTAAGTCCTC-TGACTATTAAAAGTT-AG
1486766 AAATT
1 AAATT
1486771 GACACTCAAC
Statistics
Matches: 56, Mismatches: 6, Indels: 6
0.82 0.09 0.09
Matches are distributed among these distances:
58 3 0.05
59 21 0.38
60 30 0.54
61 2 0.04
ACGTcount: A:0.34, C:0.13, G:0.14, T:0.40
Consensus pattern (60 bp):
AAATTAGTCCTCTAACTATAAGATATTGCTTTATTAAGTCCTCTGACTATTAAAAGTTAG
Found at i:1487093 original size:32 final size:31
Alignment explanation
Indices: 1487024--1487110 Score: 120
Period size: 32 Copynumber: 2.8 Consensus size: 31
1487014 GTTGAGAGAC
* *
1487024 TCAACAAAGCAACTCCCTATAGTCGAGGGAT
1 TCAACAAAGCAATTCCCTATAGTCGAAGGAT
**
1487055 TCAACAAAGCAATTCTTTATAGTACGAAGGAT
1 TCAACAAAGCAATTCCCTATAGT-CGAAGGAT
*
1487087 TTAACAAAGCAATTCCCTATAGTC
1 TCAACAAAGCAATTCCCTATAGTC
1487111 AAGAGATCAT
Statistics
Matches: 48, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
31 21 0.44
32 27 0.56
ACGTcount: A:0.38, C:0.22, G:0.15, T:0.25
Consensus pattern (31 bp):
TCAACAAAGCAATTCCCTATAGTCGAAGGAT
Found at i:1488622 original size:3 final size:3
Alignment explanation
Indices: 1488614--1488657 Score: 88
Period size: 3 Copynumber: 14.7 Consensus size: 3
1488604 GGTTCATACT
1488614 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1488658 TATTGAATAA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:1492013 original size:29 final size:30
Alignment explanation
Indices: 1491980--1492038 Score: 77
Period size: 29 Copynumber: 2.0 Consensus size: 30
1491970 TGAATCTCAC
1491980 GACTATTGATA-ATTATAAAATT-ATTATTT
1 GACTATTGATATATT-TAAAATTAATTATTT
* *
1492009 GACTATTTATATATTTCAAATTAATTATTT
1 GACTATTGATATATTTAAAATTAATTATTT
1492039 TTTATTATAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
29 16 0.62
30 10 0.38
ACGTcount: A:0.39, C:0.05, G:0.05, T:0.51
Consensus pattern (30 bp):
GACTATTGATATATTTAAAATTAATTATTT
Found at i:1494418 original size:14 final size:14
Alignment explanation
Indices: 1494399--1494428 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
1494389 CCTATCTTGT
1494399 AATTTAAAACTCTA
1 AATTTAAAACTCTA
*
1494413 AATTTAAAACTTTA
1 AATTTAAAACTCTA
1494427 AA
1 AA
1494429 CCCTAATCTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.53, C:0.10, G:0.00, T:0.37
Consensus pattern (14 bp):
AATTTAAAACTCTA
Found at i:1496001 original size:34 final size:34
Alignment explanation
Indices: 1495961--1496045 Score: 152
Period size: 34 Copynumber: 2.5 Consensus size: 34
1495951 CCCGAACCCG
* *
1495961 AAAATATTTTATATATAATTAATATAAAATATAT
1 AAAATATTATATATATAATTAATATAAAAAATAT
1495995 AAAATATTATATATATAATTAATATAAAAAATAT
1 AAAATATTATATATATAATTAATATAAAAAATAT
1496029 AAAATATTATATATATA
1 AAAATATTATATATATA
1496046 TATATATATA
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
34 49 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (34 bp):
AAAATATTATATATATAATTAATATAAAAAATAT
Found at i:1499501 original size:22 final size:23
Alignment explanation
Indices: 1499476--1499518 Score: 79
Period size: 22 Copynumber: 1.9 Consensus size: 23
1499466 TATATTATCA
1499476 AAATTAAAATATA-AATTTATAT
1 AAATTAAAATATATAATTTATAT
1499498 AAATTAAAATATATAATTTAT
1 AAATTAAAATATATAATTTAT
1499519 CAAAATTTAT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
22 13 0.65
23 7 0.35
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (23 bp):
AAATTAAAATATATAATTTATAT
Found at i:1499524 original size:23 final size:23
Alignment explanation
Indices: 1499462--1499525 Score: 89
Period size: 23 Copynumber: 2.8 Consensus size: 23
1499452 ATGTCTCGTG
1499462 TATAT-ATATTATCAAAATTAAAA
1 TATATAAT-TTATCAAAATTAAAA
1499485 TATA-AATTTAT-ATAAATTAAAA
1 TATATAATTTATCA-AAATTAAAA
1499507 TATATAATTTATCAAAATT
1 TATATAATTTATCAAAATT
1499526 TATATGGATT
Statistics
Matches: 37, Mismatches: 0, Indels: 8
0.82 0.00 0.18
Matches are distributed among these distances:
21 1 0.03
22 17 0.46
23 18 0.49
24 1 0.03
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (23 bp):
TATATAATTTATCAAAATTAAAA
Found at i:1500358 original size:3 final size:3
Alignment explanation
Indices: 1500350--1500385 Score: 63
Period size: 3 Copynumber: 12.0 Consensus size: 3
1500340 TTAATATCAC
*
1500350 ATA ATA ATA ATA ATA GTA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1500386 TATGGAGTTG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:1505585 original size:17 final size:17
Alignment explanation
Indices: 1505563--1505595 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
1505553 TTAATTTTTT
1505563 TATA-TTTACTTATTAAA
1 TATATTTTA-TTATTAAA
1505580 TATATTTTATTATTAA
1 TATATTTTATTATTAA
1505596 CTTAATTTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.39, C:0.03, G:0.00, T:0.58
Consensus pattern (17 bp):
TATATTTTATTATTAAA
Found at i:1505813 original size:31 final size:32
Alignment explanation
Indices: 1505778--1505845 Score: 93
Period size: 32 Copynumber: 2.2 Consensus size: 32
1505768 GATGACCACG
1505778 TCTTAAATAAAT-AAAAACGAAAGTGATCATA
1 TCTTAAATAAATAAAAAACGAAAGTGATCATA
* ** *
1505809 TCTTAATTACGTAAAAAACGAAAGTGATTATA
1 TCTTAAATAAATAAAAAACGAAAGTGATCATA
1505841 TCTTA
1 TCTTA
1505846 TGTTTTTTAA
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
31 9 0.28
32 23 0.72
ACGTcount: A:0.49, C:0.10, G:0.10, T:0.31
Consensus pattern (32 bp):
TCTTAAATAAATAAAAAACGAAAGTGATCATA
Found at i:1506496 original size:2 final size:2
Alignment explanation
Indices: 1506489--1506520 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
1506479 ATTTTGGTTT
*
1506489 TA TA TA TA TA TA TA TA TA TA TA TA TG TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1506521 GTAATATAGT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
TA
Found at i:1506656 original size:27 final size:27
Alignment explanation
Indices: 1506594--1506672 Score: 99
Period size: 27 Copynumber: 3.0 Consensus size: 27
1506584 TGAAAGTTCG
* *
1506594 TATATTATATGGCTTTTG-AAA-ATATA
1 TATATTATATAG-TTTTGAAAACATTTA
*
1506620 TATAATATATAGTTTTGAAAACATTTA
1 TATATTATATAGTTTTGAAAACATTTA
*
1506647 TATATTATATAGTTTTTAAAACATTT
1 TATATTATATAGTTTTGAAAACATTT
1506673 TGAAAACTTA
Statistics
Matches: 46, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
25 5 0.11
26 13 0.28
27 28 0.61
ACGTcount: A:0.41, C:0.04, G:0.08, T:0.48
Consensus pattern (27 bp):
TATATTATATAGTTTTGAAAACATTTA
Found at i:1506684 original size:36 final size:36
Alignment explanation
Indices: 1506632--1506924 Score: 283
Period size: 39 Copynumber: 8.0 Consensus size: 36
1506622 TAATATATAG
*
1506632 TTTTGAAAACATTTATATATTATATAGTTTTTAAAACA
1 TTTTGAAAAC--TTATATAATATATAGTTTTTAAAACA
*
1506670 TTTTGAAAACTTATATAATATATAGTTTTTAAAATA
1 TTTTGAAAACTTATATAATATATAGTTTTTAAAACA
* *
1506706 TTTTGAAAACTTATATAGTATATAATATTTTTTAAAATA
1 TTTTGAAAACTTATATA--ATAT-ATAGTTTTTAAAACA
* * * *
1506745 TTTTTGAAAATTTATATAATATATAATTTTAAAAACGTTT
1 -TTTTGAAAACTTATATAATATATAGTTTTTAAAAC---A
* * * *
1506785 TTTTGAAAAATTATATAACATATAGTTTTAAAAAAA
1 TTTTGAAAACTTATATAATATATAGTTTTTAAAACA
* * * *
1506821 ATTTGAAAAAATTATATAATATATAGTTCTAAAAACA
1 TTTTG-AAAACTTATATAATATATAGTTTTTAAAACA
1506858 TTTTTTGAAAAC-T-TAT-ATA-ATA-TTTTTAAAACA
1 --TTTTGAAAACTTATATAATATATAGTTTTTAAAACA
*
1506891 TTTTGAAAAC-TATATAATATATAGTTTTGAAAAC
1 TTTTGAAAACTTATATAATATATAGTTTTTAAAAC
1506925 TTTAAATATA
Statistics
Matches: 219, Mismatches: 22, Indels: 31
0.81 0.08 0.11
Matches are distributed among these distances:
31 11 0.05
32 3 0.01
33 12 0.05
34 6 0.03
35 12 0.05
36 48 0.22
37 40 0.18
38 22 0.10
39 49 0.22
40 16 0.07
ACGTcount: A:0.46, C:0.04, G:0.05, T:0.45
Consensus pattern (36 bp):
TTTTGAAAACTTATATAATATATAGTTTTTAAAACA
Found at i:1506738 original size:29 final size:28
Alignment explanation
Indices: 1506688--1506742 Score: 65
Period size: 29 Copynumber: 1.9 Consensus size: 28
1506678 ACTTATATAA
* *
1506688 TATATAGTTTTTAAAATATTTTGAAAACT
1 TATATAGTATATAAAATATTTT-AAAACT
* *
1506717 TATATAGTATATAATATTTTTTAAAA
1 TATATAGTATATAAAATATTTTAAAA
1506743 TATTTTTGAA
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
28 4 0.18
29 18 0.82
ACGTcount: A:0.44, C:0.02, G:0.05, T:0.49
Consensus pattern (28 bp):
TATATAGTATATAAAATATTTTAAAACT
Found at i:1506766 original size:76 final size:73
Alignment explanation
Indices: 1506632--1506923 Score: 255
Period size: 76 Copynumber: 4.0 Consensus size: 73
1506622 TAATATATAG
* *
1506632 TTTTGAAAACATT-TATATAT-TATATAGTTTTTAAAACATTTTGAAAACTTATATAATATATAG
1 TTTTGAAAAC-TTATATATATATA-ATA-TTTTTAAAAAATTTTGAAAAATTATATAATATATAG
* *
1506695 TTTTTAAAATA
63 TTTTAAAAATT
* * *
1506706 TTTTGAAAACTTATATAGTATATAATATTTTTTAAAATATTTTTGAAAATTTATATAATATATAA
1 TTTTGAAAACTTATATA-TATATAATA-TTTTTAAAA-AATTTTGAAAAATTATATAATATATAG
1506771 TTTTAAAAACGTTT
63 TTTTAAAAA---TT
* * * *
1506785 TTTTGAAAAATTATATA-ACAT-ATAGTTTTAAAAAAAATTTGAAAAAATTATATAATATATAGT
1 TTTTGAAAACTTATATATATATAATA-TTTTTAAAAAATTTTG-AAAAATTATATAATATATAGT
*
1506848 TCTAAAAACATT
64 T-TTAAAA-ATT
* *
1506860 TTTTGAAAAC-----T-TATATAATATTTTTAAAACATTTTG-AAAACTATATAATATATAGTTT
1 TTTTGAAAACTTATATATATATAATATTTTTAAAAAATTTTGAAAAATTATATAATATATAGTTT
*
1506918 TGAAAA
66 TAAAAA
1506924 CTTTAAATAT
Statistics
Matches: 182, Mismatches: 24, Indels: 32
0.76 0.10 0.13
Matches are distributed among these distances:
66 1 0.01
67 4 0.02
68 20 0.11
70 17 0.09
71 3 0.02
73 2 0.01
74 14 0.08
75 31 0.17
76 64 0.35
77 8 0.04
78 1 0.01
79 17 0.09
ACGTcount: A:0.46, C:0.04, G:0.05, T:0.45
Consensus pattern (73 bp):
TTTTGAAAACTTATATATATATAATATTTTTAAAAAATTTTGAAAAATTATATAATATATAGTTT
TAAAAATT
Found at i:1506918 original size:24 final size:26
Alignment explanation
Indices: 1506891--1506945 Score: 78
Period size: 28 Copynumber: 2.1 Consensus size: 26
1506881 TTTTAAAACA
1506891 TTTTGAAAAC-T-ATATAATATATAG
1 TTTTGAAAACTTAATATAATATATAG
1506915 TTTTGAAAACTTTAAATATAATATATAG
1 TTTTGAAAAC-TT-AATATAATATATAG
1506943 TTT
1 TTT
1506946 AAAAAATGTT
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
24 10 0.37
26 1 0.04
28 16 0.59
ACGTcount: A:0.44, C:0.04, G:0.07, T:0.45
Consensus pattern (26 bp):
TTTTGAAAACTTAATATAATATATAG
Found at i:1508329 original size:24 final size:23
Alignment explanation
Indices: 1508302--1508346 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 23
1508292 TTAAAAATAA
1508302 TTTTTTCT-TTCATTTTTATTATCT
1 TTTTTTCTATT-ATTTTT-TTATCT
1508326 TTTTTTCTATTATTTTTTTAT
1 TTTTTTCTATTATTTTTTTAT
1508347 TATCATATTA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
23 4 0.20
24 14 0.70
25 2 0.10
ACGTcount: A:0.13, C:0.09, G:0.00, T:0.78
Consensus pattern (23 bp):
TTTTTTCTATTATTTTTTTATCT
Done.