Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008654.1 Hibiscus syriacus cultivar Beakdansim tig00111648_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: 3533819
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 13 of 18
Found at i:2508466 original size:90 final size:91
Alignment explanation
Indices: 2508358--2508601 Score: 325
Period size: 90 Copynumber: 2.7 Consensus size: 91
2508348 ACATCATTTA
* *
2508358 TGTTGATAATGCACCCATATGCATTTCAACTATAGTATACTTTTATATTGATAATGTACCCATAT
1 TGTTGATAATGCACCCATATGCATTTCAACTATAGCATACTTTTATATTGATAATGCACCCATAT
2508423 ACATTTCAAC-CATAGTATA-TTTTTC
66 ACATTTCAACTC-TAGTATACTTTTTC
* * * *
2508448 TGTTGATAATGTACCCATATACATTTCAACTCTAGCATACTTTTCTATTGATAATGCACCCATAT
1 TGTTGATAATGCACCCATATGCATTTCAACTATAGCATACTTTTATATTGATAATGCACCCATAT
* *
2508513 GCATTTCAACTCTAGTATACTTTTTT
66 ACATTTCAACTCTAGTATACTTTTTC
* ** *
2508539 TATTGATAATGCACCCATATGCATTTCAACTAT-GACAT-CTTTTCATGCTAATAATGCACCCAT
1 TGTTGATAATGCACCCATATGCATTTCAACTATAG-CATACTTTT-ATATTGATAATGCACCCAT
2508602 GTGCATCATT
Statistics
Matches: 134, Mismatches: 16, Indels: 7
0.85 0.10 0.04
Matches are distributed among these distances:
90 81 0.60
91 53 0.40
ACGTcount: A:0.31, C:0.20, G:0.09, T:0.40
Consensus pattern (91 bp):
TGTTGATAATGCACCCATATGCATTTCAACTATAGCATACTTTTATATTGATAATGCACCCATAT
ACATTTCAACTCTAGTATACTTTTTC
Found at i:2508596 original size:45 final size:43
Alignment explanation
Indices: 2508360--2508607 Score: 223
Period size: 45 Copynumber: 5.5 Consensus size: 43
2508350 ATCATTTATG
*
2508360 TTGATAATGCACCCATATGCATTTCAACTAT-AGTATACTTTTATA
1 TTGATAATGCACCCATATGCATTTCAACTATGA-TAT-CTTTT-CA
* * * *
2508405 TTGATAATGTACCCATATACATTTCAACCATAGTATAT-TTTTCTG
1 TTGATAATGCACCCATATGCATTTCAACTAT-G-ATATCTTTTC-A
* * *
2508450 TTGATAATGTACCCATATACATTTCAACTCTAGCATA-CTTTTCTA
1 TTGATAATGCACCCATATGCATTTCAACTAT-G-ATATCTTTTC-A
* * *
2508495 TTGATAATGCACCCATATGCATTTCAACTCTAGTATACTTTTTTTA
1 TTGATAATGCACCCATATGCATTTCAACTAT-G-ATA-TCTTTTCA
*
2508541 TTGATAATGCACCCATATGCATTTCAACTATGACATCTTTTCA
1 TTGATAATGCACCCATATGCATTTCAACTATGATATCTTTTCA
* *
2508584 TGCTAATAATGCACCCATGTGCAT
1 T--TGATAATGCACCCATATGCAT
2508608 CATTCTTTTA
Statistics
Matches: 174, Mismatches: 20, Indels: 18
0.82 0.09 0.08
Matches are distributed among these distances:
43 7 0.04
44 2 0.01
45 126 0.72
46 31 0.18
47 7 0.04
48 1 0.01
ACGTcount: A:0.31, C:0.21, G:0.09, T:0.40
Consensus pattern (43 bp):
TTGATAATGCACCCATATGCATTTCAACTATGATATCTTTTCA
Found at i:2511157 original size:131 final size:131
Alignment explanation
Indices: 2510779--2511166 Score: 420
Period size: 132 Copynumber: 3.0 Consensus size: 131
2510769 AGTAACACTT
* * * * * * *
2510779 GAATTAATATTGAATCTTAAGACGAAGTAGTAATATCAT-TTCATTTTG-GTTGGAGTAATAAAT
1 GAATCAATATTGAATTTTAAGACGAAATAGTGATAT-ATCTTAATTTCGATTTGGAGTAATAAAT
* * ** *
2510842 GATTG--CT----CATAAGAGGTCATTTATTCTCAATTGGAAATAATTAGATATTATTATTTTAT
65 GATTGTTTTAAGGCATAAGAAGTCATTTATTCT-AATTGGAAATAATTAGATATTATCGTTTTCT
2510901 CTC
129 CTC
* * *
2510904 GAATCAATATTGATTTTTAAGACGAAATAGTGATATGTCTTAATTTTGATTTGGAGTAATAAATG
1 GAATCAATATTGAATTTTAAGACGAAATAGTGATATATCTTAATTTCGATTTGGAGTAATAAATG
* * *
2510969 ATTGTTTTAAGGCATAAGAGGTTATTTATTCTCGATTGGAAATAATTAGATATTATCGTTTTCTC
66 ATTGTTTTAAGGCATAAGAAGTCATTTATTCT-AATTGGAAATAATTAGATATTATCGTTTTCTC
2511034 TC
130 TC
* * * *
2511036 GAATCAATATTGAATTTTAAGAGGATATAGTTATATATCTTCATTTCGA-TTGGAGTAATAAATG
1 GAATCAATATTGAATTTTAAGACGAAATAGTGATATATCTTAATTTCGATTTGGAGTAATAAATG
* * *
2511100 -TCT-TCTTTAAGGCATGAGAAGTCATTTATTCTATATTGGAATTAATTAGATAGTATCGTTTTC
66 AT-TGT-TTTAAGGCATAAGAAGTCATTTATTCTA-ATTGGAAATAATTAGATATTATCGTTTTC
2511163 TCTC
128 TCTC
2511167 TTAAAATCCA
Statistics
Matches: 225, Mismatches: 27, Indels: 16
0.84 0.10 0.06
Matches are distributed among these distances:
124 1 0.00
125 39 0.17
126 19 0.08
128 1 0.00
130 2 0.01
131 71 0.32
132 92 0.41
ACGTcount: A:0.33, C:0.09, G:0.16, T:0.42
Consensus pattern (131 bp):
GAATCAATATTGAATTTTAAGACGAAATAGTGATATATCTTAATTTCGATTTGGAGTAATAAATG
ATTGTTTTAAGGCATAAGAAGTCATTTATTCTAATTGGAAATAATTAGATATTATCGTTTTCTCT
C
Found at i:2522042 original size:1 final size:1
Alignment explanation
Indices: 2522031--2522100 Score: 50
Period size: 1 Copynumber: 70.0 Consensus size: 1
2522021 TTGAAGAAAG
* * ** * * * * * *
2522031 AAAAAATAAAAAAAGAAAAAAATGAAAAGAAAAAAGAGAAAAAGAGAAAAAAAAAAAAAAAAGAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
2522096 AAAAA
1 AAAAA
2522101 GAAGGAAAAT
Statistics
Matches: 50, Mismatches: 19, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
1 50 1.00
ACGTcount: A:0.86, C:0.00, G:0.11, T:0.03
Consensus pattern (1 bp):
A
Found at i:2522044 original size:8 final size:8
Alignment explanation
Indices: 2522027--2522103 Score: 72
Period size: 8 Copynumber: 9.8 Consensus size: 8
2522017 TCAATTGAAG
2522027 AAAG-AAA
1 AAAGAAAA
*
2522034 AAATAAAA
1 AAAGAAAA
2522042 AAAGAAAA
1 AAAGAAAA
2522050 AAATG---A
1 AAA-GAAAA
2522056 AAAGAAAA
1 AAAGAAAA
2522064 AAGAGAAAA
1 AA-AGAAAA
*
2522073 AGAGAAAAA
1 AAAG-AAAA
*
2522082 AAAAAAAA
1 AAAGAAAA
2522090 AAAGAAAA
1 AAAGAAAA
2522098 AAAGAA
1 AAAGAA
2522104 GGAAAATAAA
Statistics
Matches: 57, Mismatches: 6, Indels: 13
0.75 0.08 0.17
Matches are distributed among these distances:
5 1 0.02
6 4 0.07
7 3 0.05
8 35 0.61
9 14 0.25
ACGTcount: A:0.84, C:0.00, G:0.13, T:0.03
Consensus pattern (8 bp):
AAAGAAAA
Found at i:2522109 original size:12 final size:12
Alignment explanation
Indices: 2522027--2522100 Score: 71
Period size: 12 Copynumber: 5.9 Consensus size: 12
2522017 TCAATTGAAG
2522027 AAAGAAAAAATAA
1 AAAGAAAAAA-AA
*
2522040 AAA-AAGAAAAA
1 AAAGAAAAAAAA
*
2522051 AATGAAAAGAAAA
1 AAAGAAAA-AAAA
2522064 AAGAGAAAAAGAGAA
1 AA-AGAAAAA-A-AA
2522079 AAA-AAAAAAAA
1 AAAGAAAAAAAA
2522090 AAAGAAAAAAA
1 AAAGAAAAAAA
2522101 GAAGGAAAAT
Statistics
Matches: 51, Mismatches: 4, Indels: 13
0.75 0.06 0.19
Matches are distributed among these distances:
11 9 0.18
12 16 0.31
13 15 0.29
14 7 0.14
15 4 0.08
ACGTcount: A:0.85, C:0.00, G:0.12, T:0.03
Consensus pattern (12 bp):
AAAGAAAAAAAA
Found at i:2522174 original size:45 final size:44
Alignment explanation
Indices: 2522116--2522200 Score: 107
Period size: 45 Copynumber: 1.9 Consensus size: 44
2522106 AAAATAAATA
* * ** *
2522116 AAATGGGGTTTAAGATGAAAACTCGTGAAGGGCATCTTGAAACC
1 AAATGAGGTTTAAGATGAAAACCCGCAAAGGGCAACTTGAAACC
*
2522160 AAATGAGGTCTTAAGTTGAAAACCCGCAAAGGGCAACTTGA
1 AAATGAGGT-TTAAGATGAAAACCCGCAAAGGGCAACTTGA
2522201 GAATCATTTA
Statistics
Matches: 34, Mismatches: 6, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
44 8 0.24
45 26 0.76
ACGTcount: A:0.38, C:0.15, G:0.26, T:0.21
Consensus pattern (44 bp):
AAATGAGGTTTAAGATGAAAACCCGCAAAGGGCAACTTGAAACC
Found at i:2524490 original size:21 final size:23
Alignment explanation
Indices: 2524464--2524517 Score: 76
Period size: 21 Copynumber: 2.4 Consensus size: 23
2524454 ACCAAAAAAG
2524464 GTAGTATCGGTACCAC-CACTAA
1 GTAGTATCGGTACCACACACTAA
*
2524486 G-AGTATCGGTACTACTACACTAA
1 GTAGTATCGGTACCAC-ACACTAA
2524509 GTAGTATCG
1 GTAGTATCG
2524518 ATACTGTATA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
21 13 0.46
22 1 0.04
23 7 0.25
24 7 0.25
ACGTcount: A:0.31, C:0.22, G:0.20, T:0.26
Consensus pattern (23 bp):
GTAGTATCGGTACCACACACTAA
Found at i:2526707 original size:18 final size:18
Alignment explanation
Indices: 2526684--2526718 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
2526674 ATGTTAAGAA
2526684 AAACAAAAGTATATATAT
1 AAACAAAAGTATATATAT
* *
2526702 AAACAAATGTGTATATA
1 AAACAAAAGTATATATA
2526719 AGTATGCTTT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.57, C:0.06, G:0.09, T:0.29
Consensus pattern (18 bp):
AAACAAAAGTATATATAT
Found at i:2527224 original size:22 final size:22
Alignment explanation
Indices: 2527193--2527275 Score: 57
Period size: 22 Copynumber: 3.9 Consensus size: 22
2527183 TCGGTAATTG
2527193 AAGAACAATATCGATACTGACA
1 AAGAACAATATCGATACTGACA
* * *
2527215 AAGAATAATATTGGTACTTG---
1 AAGAACAATATCGATAC-TGACA
** * *
2527235 AAGATTAGTATCAATACTGACA
1 AAGAACAATATCGATACTGACA
*
2527257 AAGAACAATA-CGGTACTGA
1 AAGAACAATATCGATACTGA
2527276 ATGAACAGTA
Statistics
Matches: 44, Mismatches: 13, Indels: 9
0.67 0.20 0.14
Matches are distributed among these distances:
19 2 0.05
20 12 0.27
21 7 0.16
22 21 0.48
23 2 0.05
ACGTcount: A:0.46, C:0.13, G:0.17, T:0.24
Consensus pattern (22 bp):
AAGAACAATATCGATACTGACA
Found at i:2527236 original size:42 final size:42
Alignment explanation
Indices: 2527173--2527282 Score: 134
Period size: 42 Copynumber: 2.6 Consensus size: 42
2527163 TCAAGGCTGC
* *
2527173 AAGAACAATATCGGTAATTGAAGAACAATATCGATACTGACA
1 AAGAACAATATCGGTACTTGAAGAACAATATCAATACTGACA
* * ** *
2527215 AAGAATAATATTGGTACTTGAAGATTAGTATCAATACTGACA
1 AAGAACAATATCGGTACTTGAAGAACAATATCAATACTGACA
2527257 AAGAACAATA-CGGTAC-TGAATGAACA
1 AAGAACAATATCGGTACTTGAA-GAACA
2527283 GTACCAGTAC
Statistics
Matches: 56, Mismatches: 11, Indels: 3
0.80 0.16 0.04
Matches are distributed among these distances:
40 4 0.07
41 8 0.14
42 44 0.79
ACGTcount: A:0.46, C:0.13, G:0.17, T:0.24
Consensus pattern (42 bp):
AAGAACAATATCGGTACTTGAAGAACAATATCAATACTGACA
Found at i:2532502 original size:19 final size:19
Alignment explanation
Indices: 2532475--2532515 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 19
2532465 GTATCGATAT
*
2532475 TACTATATTATGGTATCGA
1 TACTATATTACGGTATCGA
*
2532494 TACTCTATTACGGTATCGA
1 TACTATATTACGGTATCGA
2532513 TAC
1 TAC
2532516 CATTTTTGCA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.29, C:0.17, G:0.15, T:0.39
Consensus pattern (19 bp):
TACTATATTACGGTATCGA
Found at i:2536946 original size:2 final size:2
Alignment explanation
Indices: 2536939--2536963 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
2536929 TTTTATACAT
2536939 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
2536964 CACAATACAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:2537129 original size:81 final size:81
Alignment explanation
Indices: 2537017--2537415 Score: 602
Period size: 81 Copynumber: 4.9 Consensus size: 81
2537007 TAGCCTTTCA
* * * * *
2537017 TCTTTTACTC-ACAGTGTTTAACCGTTCATCTAACTGGCATGATTGACATCTTTCTGCCAAATGC
1 TCTTTTACTCAACGGTATTTAACCGTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGC
*
2537081 ACAGTTAGACCATTAT
66 ACAGTTAGGCCATTAT
* *
2537097 TCTTTTACTCAACGGTATTTAACCGTTTATCTAACTGGCATAATTGACACCTTTCTGCCAAATGC
1 TCTTTTACTCAACGGTATTTAACCGTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGC
*
2537162 ACAGCTAGGCCATTAT
66 ACAGTTAGGCCATTAT
*
2537178 TCTTTTACTCAACGGTATTTAACCATTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGC
1 TCTTTTACTCAACGGTATTTAACCGTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGC
*
2537243 ACAGTTAGGTCATTAT
66 ACAGTTAGGCCATTAT
* * *
2537259 TCTTTTACTTAACGGTATTTAACCATTCATCTAACTGGCATAATTGACACATTTCTGTCAAATGC
1 TCTTTTACTCAACGGTATTTAACCGTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGC
* *
2537324 ACAATTATGCCATTAT
66 ACAGTTAGGCCATTAT
* * * * *
2537340 TCTTTTACTCAACGATATTTAACCGTTCATCTAACTGACATAATTGACATCTTTTTGTCAAATGA
1 TCTTTTACTCAACGGTATTTAACCGTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGC
2537405 ACAGTTAGGCC
66 ACAGTTAGGCC
2537416 TCAAAGGCAC
Statistics
Matches: 291, Mismatches: 27, Indels: 1
0.91 0.08 0.00
Matches are distributed among these distances:
80 10 0.03
81 281 0.97
ACGTcount: A:0.29, C:0.23, G:0.12, T:0.37
Consensus pattern (81 bp):
TCTTTTACTCAACGGTATTTAACCGTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGC
ACAGTTAGGCCATTAT
Found at i:2537469 original size:68 final size:68
Alignment explanation
Indices: 2537365--2537616 Score: 351
Period size: 68 Copynumber: 3.7 Consensus size: 68
2537355 TATTTAACCG
* * * * *
2537365 TTCATCTAACTGACATAATTGACATCTTTTTGTCAAATGAACAGTTAGGCCTCAAAGGCACTTAG
1 TTCATCTAATTGACATAAATGACACCTTTCTGTCAAATGCACAGTTAGGCCTCAAAGGCACTTAG
2537430 CCT
66 CCT
* * * *
2537433 TTCATCTAAATGGCATAAATGAAACCTTTCTATCAAATGCACAGTTAGGCCTCAAAGGCACTTAG
1 TTCATCTAATTGACATAAATGACACCTTTCTGTCAAATGCACAGTTAGGCCTCAAAGGCACTTAG
*
2537498 TCT
66 CCT
* * * **
2537501 TTCATCTAATTGACATAAATGACATCTTTTTGTCAAATGCTCAACTAGGCCTCAAAGGCACTTAG
1 TTCATCTAATTGACATAAATGACACCTTTCTGTCAAATGCACAGTTAGGCCTCAAAGGCACTTAG
2537566 CCT
66 CCT
* *
2537569 TTCATCTAATTGGCATAAATGACACATTTCTGTCAAATGCACAGTTAG
1 TTCATCTAATTGACATAAATGACACCTTTCTGTCAAATGCACAGTTAG
2537617 TCCTATTAAT
Statistics
Matches: 158, Mismatches: 26, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
68 158 1.00
ACGTcount: A:0.32, C:0.22, G:0.14, T:0.32
Consensus pattern (68 bp):
TTCATCTAATTGACATAAATGACACCTTTCTGTCAAATGCACAGTTAGGCCTCAAAGGCACTTAG
CCT
Found at i:2537599 original size:136 final size:136
Alignment explanation
Indices: 2537365--2537616 Score: 414
Period size: 136 Copynumber: 1.9 Consensus size: 136
2537355 TATTTAACCG
* **
2537365 TTCATCTAACTGACATAATTGACATCTTTTTGTCAAATGAACAGTTAGGCCTCAAAGGCACTTAG
1 TTCATCTAACTGACATAAATGACATCTTTTTGTCAAATGAACAACTAGGCCTCAAAGGCACTTAG
*
2537430 CCTTTCATCTAAATGGCATAAATGAAACCTTTCTATCAAATGCACAGTTAGGCCTCAAAGGCACT
66 CCTTTCATCTAAATGGCATAAATGAAACATTTCTATCAAATGCACAGTTAGGCCTCAAAGGCACT
2537495 TAGTCT
131 TAGTCT
* **
2537501 TTCATCTAATTGACATAAATGACATCTTTTTGTCAAATGCTCAACTAGGCCTCAAAGGCACTTAG
1 TTCATCTAACTGACATAAATGACATCTTTTTGTCAAATGAACAACTAGGCCTCAAAGGCACTTAG
* * *
2537566 CCTTTCATCTAATTGGCATAAATGACACATTTCTGTCAAATGCACAGTTAG
66 CCTTTCATCTAAATGGCATAAATGAAACATTTCTATCAAATGCACAGTTAG
2537617 TCCTATTAAT
Statistics
Matches: 106, Mismatches: 10, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
136 106 1.00
ACGTcount: A:0.32, C:0.22, G:0.14, T:0.32
Consensus pattern (136 bp):
TTCATCTAACTGACATAAATGACATCTTTTTGTCAAATGAACAACTAGGCCTCAAAGGCACTTAG
CCTTTCATCTAAATGGCATAAATGAAACATTTCTATCAAATGCACAGTTAGGCCTCAAAGGCACT
TAGTCT
Found at i:2538270 original size:19 final size:19
Alignment explanation
Indices: 2538243--2538283 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
2538233 GTATCGATAT
*
2538243 TACTATATTATGGTATCGA
1 TACTATATTACGGTATCGA
* *
2538262 TACTCTATTACGGTATTGA
1 TACTATATTACGGTATCGA
2538281 TAC
1 TAC
2538284 CATTTTTGCA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.29, C:0.15, G:0.15, T:0.41
Consensus pattern (19 bp):
TACTATATTACGGTATCGA
Found at i:2541724 original size:21 final size:21
Alignment explanation
Indices: 2541700--2541774 Score: 89
Period size: 21 Copynumber: 3.6 Consensus size: 21
2541690 GTTAAAGACC
*
2541700 TTTCGATGAAAGGATTTAACA
1 TTTCGATGAAAGGACTTAACA
* * *
2541721 TTTCGATTAAAGGACTTATCC
1 TTTCGATGAAAGGACTTAACA
*
2541742 TTTTGATGAAAGGACTTAACA
1 TTTCGATGAAAGGACTTAACA
2541763 TTTTC-ATGAAAG
1 -TTTCGATGAAAG
2541775 ATTTTAATCT
Statistics
Matches: 44, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
21 41 0.93
22 3 0.07
ACGTcount: A:0.35, C:0.12, G:0.17, T:0.36
Consensus pattern (21 bp):
TTTCGATGAAAGGACTTAACA
Found at i:2542141 original size:19 final size:20
Alignment explanation
Indices: 2542114--2542153 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
2542104 TTATTATTTT
*
2542114 TTTA-ATTTTAAAAGTTTAA
1 TTTATATTTTAAAAATTTAA
*
2542133 TTTATTTTTTAAAAATTTAA
1 TTTATATTTTAAAAATTTAA
2542153 T
1 T
2542154 AAAAATTCTA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 4 0.22
20 14 0.78
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.57
Consensus pattern (20 bp):
TTTATATTTTAAAAATTTAA
Found at i:2543743 original size:21 final size:20
Alignment explanation
Indices: 2543718--2543759 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 20
2543708 GAGTGTTATA
*
2543718 ATTTAGGGATTTAGGGTTTAG
1 ATTTAAGGATTTA-GGTTTAG
2543739 ATTTAAGGATTTAGGTTTAG
1 ATTTAAGGATTTAGGTTTAG
2543759 A
1 A
2543760 GATTTTGGGG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
20 8 0.40
21 12 0.60
ACGTcount: A:0.29, C:0.00, G:0.29, T:0.43
Consensus pattern (20 bp):
ATTTAAGGATTTAGGTTTAG
Found at i:2544394 original size:2 final size:2
Alignment explanation
Indices: 2544381--2544414 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
2544371 AAATGATTCA
*
2544381 CT CT CA 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
2544415 ATATATATAT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.03, C:0.50, G:0.00, T:0.47
Consensus pattern (2 bp):
CT
Found at i:2546374 original size:2 final size:2
Alignment explanation
Indices: 2546367--2546403 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
2546357 ATAATATTTT
2546367 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
2546404 TTTGGGTCCG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:2549737 original size:14 final size:14
Alignment explanation
Indices: 2549718--2549747 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
2549708 AGCTTGGTGG
2549718 TTGGTTGTTACTCA
1 TTGGTTGTTACTCA
2549732 TTGGTTGTTACTCA
1 TTGGTTGTTACTCA
2549746 TT
1 TT
2549748 TGGTCCAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.13, C:0.13, G:0.20, T:0.53
Consensus pattern (14 bp):
TTGGTTGTTACTCA
Found at i:2560392 original size:13 final size:13
Alignment explanation
Indices: 2560374--2560398 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2560364 AACATTCTCA
2560374 TCATCATCATCAT
1 TCATCATCATCAT
2560387 TCATCATCATCA
1 TCATCATCATCA
2560399 AAAATCTGCA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.32, G:0.00, T:0.36
Consensus pattern (13 bp):
TCATCATCATCAT
Found at i:2563132 original size:12 final size:12
Alignment explanation
Indices: 2563101--2563141 Score: 55
Period size: 12 Copynumber: 3.4 Consensus size: 12
2563091 TCTTACATAA
2563101 ATATACATACAT
1 ATATACATACAT
* *
2563113 ACAGACATACAT
1 ATATACATACAT
*
2563125 ATATACATATAT
1 ATATACATACAT
2563137 ATATA
1 ATATA
2563142 TGTATGTATG
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
12 24 1.00
ACGTcount: A:0.51, C:0.15, G:0.02, T:0.32
Consensus pattern (12 bp):
ATATACATACAT
Found at i:2571486 original size:35 final size:35
Alignment explanation
Indices: 2571447--2571521 Score: 114
Period size: 35 Copynumber: 2.1 Consensus size: 35
2571437 AAAATACTTT
2571447 AATTTAAGGTTTAGAATGTAATTAAAGTATTTTGG
1 AATTTAAGGTTTAGAATGTAATTAAAGTATTTTGG
** * *
2571482 AATTTGGGGTTTAGAATGTAATTGAAGTGTTTTGG
1 AATTTAAGGTTTAGAATGTAATTAAAGTATTTTGG
2571517 AATTT
1 AATTT
2571522 TGAACATGAA
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.32, C:0.00, G:0.24, T:0.44
Consensus pattern (35 bp):
AATTTAAGGTTTAGAATGTAATTAAAGTATTTTGG
Found at i:2575886 original size:55 final size:55
Alignment explanation
Indices: 2575818--2576201 Score: 599
Period size: 55 Copynumber: 6.9 Consensus size: 55
2575808 CAAACGGGTT
* * * * *
2575818 TGCTCTCTCTTTCTTCAGGGAGTAT-AGAACTCGAACAATCATCAATAATCGTGTC
1 TGCTCCCTATTTCTTCAGAGAGTATAAG-ACTCGAACAATCTTCAACAATCGTGTC
* * *
2575873 TGATCCCTATTTCTTTAGAGAGTATAAGACTCGAACAATCTTCAACACTCGTGTC
1 TGCTCCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAACAATCGTGTC
*
2575928 TGCTCCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAACAATTGTGTC
1 TGCTCCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAACAATCGTGTC
* *
2575983 TGCTCTCTATTTCTTCAGAGAGTATAAGACTCGAACAATTCTTCAACGATCGTGTC
1 TGCTCCCTATTTCTTCAGAGAGTATAAGACTCGAACAA-TCTTCAACAATCGTGTC
*
2576039 TGCTCCCTATTACTTCAGAGAGTATAAGACTCGAACAATCTTCAACAATCGTGTC
1 TGCTCCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAACAATCGTGTC
*
2576094 TGCTCCCTATTTCTTCAGAGAGTATAAGACTCGAACAATTCTTCAACGATCGTGTC
1 TGCTCCCTATTTCTTCAGAGAGTATAAGACTCGAACAA-TCTTCAACAATCGTGTC
* *
2576150 TGCTCCCTATTACTTCAGAGAGTATAAGACTCGAACAATCTTCAATAATCGT
1 TGCTCCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAACAATCGT
2576202 TGGGGGGCCT
Statistics
Matches: 303, Mismatches: 23, Indels: 6
0.91 0.07 0.02
Matches are distributed among these distances:
55 197 0.65
56 106 0.35
ACGTcount: A:0.29, C:0.24, G:0.15, T:0.32
Consensus pattern (55 bp):
TGCTCCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAACAATCGTGTC
Found at i:2576075 original size:111 final size:111
Alignment explanation
Indices: 2575830--2576201 Score: 624
Period size: 111 Copynumber: 3.4 Consensus size: 111
2575820 CTCTCTCTTT
* * * * *
2575830 CTTCAGGGAGTAT-AGAACTCGAACAATCATCAATAATCGTGTCTGATCCCTATTTCTTTAGAGA
1 CTTCAGAGAGTATAAG-ACTCGAACAATCTTCAACAATCGTGTCTGCTCCCTATTTCTTCAGAGA
*
2575894 GTATAAGACTCGAACAA-TCTTCAAC-ACTCGTGTCTGCTCCCTATTT
65 GTATAAGACTCGAACAATTCTTCAACGA-TCGTGTCTGCTCCCTATTA
* *
2575940 CTTCAGAGAGTATAAGACTCGAACAATCTTCAACAATTGTGTCTGCTCTCTATTTCTTCAGAGAG
1 CTTCAGAGAGTATAAGACTCGAACAATCTTCAACAATCGTGTCTGCTCCCTATTTCTTCAGAGAG
2576005 TATAAGACTCGAACAATTCTTCAACGATCGTGTCTGCTCCCTATTA
66 TATAAGACTCGAACAATTCTTCAACGATCGTGTCTGCTCCCTATTA
2576051 CTTCAGAGAGTATAAGACTCGAACAATCTTCAACAATCGTGTCTGCTCCCTATTTCTTCAGAGAG
1 CTTCAGAGAGTATAAGACTCGAACAATCTTCAACAATCGTGTCTGCTCCCTATTTCTTCAGAGAG
2576116 TATAAGACTCGAACAATTCTTCAACGATCGTGTCTGCTCCCTATTA
66 TATAAGACTCGAACAATTCTTCAACGATCGTGTCTGCTCCCTATTA
*
2576162 CTTCAGAGAGTATAAGACTCGAACAATCTTCAATAATCGT
1 CTTCAGAGAGTATAAGACTCGAACAATCTTCAACAATCGT
2576202 TGGGGGGCCT
Statistics
Matches: 248, Mismatches: 11, Indels: 5
0.94 0.04 0.02
Matches are distributed among these distances:
110 71 0.29
111 176 0.71
112 1 0.00
ACGTcount: A:0.30, C:0.24, G:0.15, T:0.31
Consensus pattern (111 bp):
CTTCAGAGAGTATAAGACTCGAACAATCTTCAACAATCGTGTCTGCTCCCTATTTCTTCAGAGAG
TATAAGACTCGAACAATTCTTCAACGATCGTGTCTGCTCCCTATTA
Found at i:2576093 original size:166 final size:166
Alignment explanation
Indices: 2575818--2576201 Score: 610
Period size: 166 Copynumber: 2.3 Consensus size: 166
2575808 CAAACGGGTT
* * * *
2575818 TGCTCTCTCTTTCTTCAGGGAGTAT-AGAACTCGAACAATCATCAATAATCGTGTCTGATCCCTA
1 TGCTCTCTATTTCTTCAGAGAGTATAAG-ACTCGAACAATCTTCAACAATCGTGTCTGATCCCTA
* * *
2575882 TTTCTTTAGAGAGTATAAGACTCGAACAATCTTCAACACTCGTGTCTGCTCCCTATTTCTTCAGA
65 TTACTTCAGAGAGTATAAGACTCGAACAATCTTCAACAATCGTGTCTGCTCCCTATTTCTTCAGA
*
2575947 GAGTATAAGACTCGAACAA-TCTTCAACAATTGTGTC
130 GAGTATAAGACTCGAACAATTCTTCAACAATCGTGTC
* *
2575983 TGCTCTCTATTTCTTCAGAGAGTATAAGACTCGAACAATTCTTCAACGATCGTGTCTGCTCCCTA
1 TGCTCTCTATTTCTTCAGAGAGTATAAGACTCGAACAA-TCTTCAACAATCGTGTCTGATCCCTA
2576048 TTACTTCAGAGAGTATAAGACTCGAACAATCTTCAACAATCGTGTCTGCTCCCTATTTCTTCAGA
65 TTACTTCAGAGAGTATAAGACTCGAACAATCTTCAACAATCGTGTCTGCTCCCTATTTCTTCAGA
*
2576113 GAGTATAAGACTCGAACAATTCTTCAACGATCGTGTC
130 GAGTATAAGACTCGAACAATTCTTCAACAATCGTGTC
* * *
2576150 TGCTCCCTATTACTTCAGAGAGTATAAGACTCGAACAATCTTCAATAATCGT
1 TGCTCTCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAACAATCGT
2576202 TGGGGGGCCT
Statistics
Matches: 201, Mismatches: 15, Indels: 5
0.91 0.07 0.02
Matches are distributed among these distances:
165 33 0.16
166 117 0.58
167 51 0.25
ACGTcount: A:0.29, C:0.24, G:0.15, T:0.32
Consensus pattern (166 bp):
TGCTCTCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAACAATCGTGTCTGATCCCTAT
TACTTCAGAGAGTATAAGACTCGAACAATCTTCAACAATCGTGTCTGCTCCCTATTTCTTCAGAG
AGTATAAGACTCGAACAATTCTTCAACAATCGTGTC
Found at i:2577217 original size:19 final size:18
Alignment explanation
Indices: 2577195--2577271 Score: 91
Period size: 19 Copynumber: 4.1 Consensus size: 18
2577185 TTGAACCCTC
*
2577195 CTTTTTTGTTTCTTTTTTT
1 CTTTTTTCTTT-TTTTTTT
2577214 CTTTTTTCTTTTTTCTTTT
1 CTTTTTTCTTTTTT-TTTT
* *
2577233 CTTTTTTCATTTTTTATT
1 CTTTTTTCTTTTTTTTTT
2577251 CATTTTTTCTTCTTTTTTTT
1 C-TTTTTTCTT-TTTTTTTT
2577271 C
1 C
2577272 AAGAAAAATA
Statistics
Matches: 50, Mismatches: 5, Indels: 5
0.83 0.08 0.08
Matches are distributed among these distances:
18 7 0.14
19 35 0.70
20 8 0.16
ACGTcount: A:0.04, C:0.14, G:0.01, T:0.81
Consensus pattern (18 bp):
CTTTTTTCTTTTTTTTTT
Found at i:2577220 original size:7 final size:7
Alignment explanation
Indices: 2577203--2577247 Score: 58
Period size: 7 Copynumber: 6.4 Consensus size: 7
2577193 TCCTTTTTTG
2577203 TTTCTTTT
1 TTTC-TTT
2577211 TTTCTTT
1 TTTCTTT
2577218 TTTCTTT
1 TTTCTTT
2577225 TTTC--T
1 TTTCTTT
2577230 TTTCTTT
1 TTTCTTT
2577237 TTTCATTT
1 TTTC-TTT
2577245 TTT
1 TTT
2577248 ATTCATTTTT
Statistics
Matches: 34, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
5 5 0.15
7 19 0.56
8 10 0.29
ACGTcount: A:0.02, C:0.13, G:0.00, T:0.84
Consensus pattern (7 bp):
TTTCTTT
Found at i:2577271 original size:12 final size:11
Alignment explanation
Indices: 2577195--2577270 Score: 73
Period size: 11 Copynumber: 6.8 Consensus size: 11
2577185 TTGAACCCTC
*
2577195 CTTTTTTGTTT
1 CTTTTTTTTTT
2577206 CTTTTTTTCTTT
1 CTTTTTTT-TTT
*
2577218 -TTTCTTTTTT
1 CTTTTTTTTTT
2577228 CTTTTCTTTTTT
1 CTTTT-TTTTTT
* *
2577240 CATTTTTTATT
1 CTTTTTTTTTT
* *
2577251 CATTTTTTCTT
1 CTTTTTTTTTT
2577262 CTTTTTTTT
1 CTTTTTTTT
2577271 CAAGAAAAAT
Statistics
Matches: 54, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
10 3 0.06
11 38 0.70
12 13 0.24
ACGTcount: A:0.04, C:0.13, G:0.01, T:0.82
Consensus pattern (11 bp):
CTTTTTTTTTT
Found at i:2577272 original size:31 final size:29
Alignment explanation
Indices: 2577196--2577268 Score: 60
Period size: 29 Copynumber: 2.4 Consensus size: 29
2577186 TGAACCCTCC
* *
2577196 TTTTTTGTTTCTTT-TTTTCTTTTTTCTTTT
1 TTTTTTCTTT-TTTCTTTTCTTTTTTC-ATT
* *
2577226 TTCTTTTCTTTTTTCATTT-TTTATTCATT
1 TT-TTTTCTTTTTTCTTTTCTTTTTTCATT
2577255 TTTTCTTCTTTTTT
1 TTTT-TTCTTTTTT
2577269 TTCAAGAAAA
Statistics
Matches: 36, Mismatches: 4, Indels: 7
0.77 0.09 0.15
Matches are distributed among these distances:
28 2 0.06
29 13 0.36
30 11 0.31
31 10 0.28
ACGTcount: A:0.04, C:0.12, G:0.01, T:0.82
Consensus pattern (29 bp):
TTTTTTCTTTTTTCTTTTCTTTTTTCATT
Found at i:2578484 original size:19 final size:19
Alignment explanation
Indices: 2578460--2578506 Score: 85
Period size: 19 Copynumber: 2.5 Consensus size: 19
2578450 GGGTAACTTT
2578460 GATATCTTATATATTGGAA
1 GATATCTTATATATTGGAA
2578479 GATATCTTATATATTGGAA
1 GATATCTTATATATTGGAA
*
2578498 AATATCTTA
1 GATATCTTA
2578507 GTACCAAGGT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 27 1.00
ACGTcount: A:0.38, C:0.06, G:0.13, T:0.43
Consensus pattern (19 bp):
GATATCTTATATATTGGAA
Found at i:2586253 original size:17 final size:17
Alignment explanation
Indices: 2586231--2586269 Score: 71
Period size: 17 Copynumber: 2.4 Consensus size: 17
2586221 TGAATCAAAT
2586231 TAATTAGATATTATTTA
1 TAATTAGATATTATTTA
2586248 TAATTAGATATTATTTA
1 TAATTAGATATTATTTA
2586265 -AATTA
1 TAATTA
2586270 ATTGTAAATT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
16 5 0.23
17 17 0.77
ACGTcount: A:0.44, C:0.00, G:0.05, T:0.51
Consensus pattern (17 bp):
TAATTAGATATTATTTA
Found at i:2591687 original size:26 final size:26
Alignment explanation
Indices: 2591668--2591719 Score: 86
Period size: 26 Copynumber: 2.0 Consensus size: 26
2591658 TTTTTTTATT
2591668 TTATTGTTCAAATTAATTTTATTAAG
1 TTATTGTTCAAATTAATTTTATTAAG
*
2591694 TTATTGTTTAAATTAATTTATATTAA
1 TTATTGTTCAAATTAATTT-TATTAA
2591720 AGAAATTTGA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
26 18 0.75
27 6 0.25
ACGTcount: A:0.37, C:0.02, G:0.06, T:0.56
Consensus pattern (26 bp):
TTATTGTTCAAATTAATTTTATTAAG
Found at i:2594290 original size:31 final size:31
Alignment explanation
Indices: 2594255--2594504 Score: 245
Period size: 31 Copynumber: 8.4 Consensus size: 31
2594245 GTACAATTGT
* * **
2594255 AATAAGATTTATAAACATTTATTCAAATAGA
1 AATAATATTTACAAACATTCGTTCAAATAGA
* *
2594286 AATAATATTTACAAACATTCATTCAAATATA
1 AATAATATTTACAAACATTCGTTCAAATAGA
* *
2594317 AATAATATTTACAAATATTCGTTCAAATATA
1 AATAATATTTACAAACATTCGTTCAAATAGA
* * *
2594348 AATAATATTTACAAATATTTGCTCAAATAGA
1 AATAATATTTACAAACATTCGTTCAAATAGA
*
2594379 AATAATATTT------A--C-TTCAAATATA
1 AATAATATTTACAAACATTCGTTCAAATAGA
*
2594401 AATAATATTTACAAACACTCGTTCGAAA-AGA
1 AATAATATTTACAAACATTCGTTC-AAATAGA
2594432 AATAATATTTACAAA-A-TCGTTCAAATAGA
1 AATAATATTTACAAACATTCGTTCAAATAGA
* * *
2594461 AATAATATTTATAAACATTCTTTCAAATATA
1 AATAATATTTACAAACATTCGTTCAAATAGA
**
2594492 AATAGGATTTACA
1 AATAATATTTACA
2594505 TTATAGAGTT
Statistics
Matches: 187, Mismatches: 19, Indels: 26
0.81 0.08 0.11
Matches are distributed among these distances:
22 18 0.10
25 1 0.01
28 4 0.02
29 23 0.12
30 3 0.02
31 135 0.72
32 3 0.02
ACGTcount: A:0.50, C:0.10, G:0.05, T:0.35
Consensus pattern (31 bp):
AATAATATTTACAAACATTCGTTCAAATAGA
Found at i:2594386 original size:21 final size:22
Alignment explanation
Indices: 2594361--2594412 Score: 79
Period size: 22 Copynumber: 2.4 Consensus size: 22
2594351 AATATTTACA
*
2594361 AATATTTGC-TCAAATAGAAAT
1 AATATTTACTTCAAATAGAAAT
*
2594382 AATATTTACTTCAAATATAAAT
1 AATATTTACTTCAAATAGAAAT
2594404 AATATTTAC
1 AATATTTAC
2594413 AAACACTCGT
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
21 8 0.29
22 20 0.71
ACGTcount: A:0.48, C:0.10, G:0.04, T:0.38
Consensus pattern (22 bp):
AATATTTACTTCAAATAGAAAT
Found at i:2594395 original size:53 final size:53
Alignment explanation
Indices: 2594338--2594443 Score: 160
Period size: 53 Copynumber: 2.0 Consensus size: 53
2594328 CAAATATTCG
* * *
2594338 TTCAAATATAAATAATATTTACAAATATTTGCTC-AAATAGAAATAATATTTAC
1 TTCAAATATAAATAATATTTACAAACACTCGCTCGAAA-AGAAATAATATTTAC
*
2594391 TTCAAATATAAATAATATTTACAAACACTCGTTCGAAAAGAAATAATATTTAC
1 TTCAAATATAAATAATATTTACAAACACTCGCTCGAAAAGAAATAATATTTAC
2594444 AAAATCGTTC
Statistics
Matches: 48, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
53 45 0.94
54 3 0.06
ACGTcount: A:0.49, C:0.11, G:0.05, T:0.35
Consensus pattern (53 bp):
TTCAAATATAAATAATATTTACAAACACTCGCTCGAAAAGAAATAATATTTAC
Found at i:2594403 original size:84 final size:82
Alignment explanation
Indices: 2594307--2594471 Score: 251
Period size: 84 Copynumber: 2.0 Consensus size: 82
2594297 CAAACATTCA
* * * *
2594307 TTCAAATATAAATAATATTTACAAATATTCGTTC-AAATATAAATAATATTTACAAATATTTGCT
1 TTCAAATATAAATAATATTTACAAACACTCGTTCGAAA-AGAAATAATATTTACAAA-A-TCGCT
2594371 CAAATAGAAATAATATTTAC
63 CAAATAGAAATAATATTTAC
*
2594391 TTCAAATATAAATAATATTTACAAACACTCGTTCGAAAAGAAATAATATTTACAAAATCGTTCAA
1 TTCAAATATAAATAATATTTACAAACACTCGTTCGAAAAGAAATAATATTTACAAAATCGCTCAA
2594456 ATAGAAATAATATTTA
66 ATAGAAATAATATTTA
2594472 TAAACATTCT
Statistics
Matches: 75, Mismatches: 5, Indels: 4
0.89 0.06 0.05
Matches are distributed among these distances:
82 22 0.29
83 1 0.01
84 49 0.65
85 3 0.04
ACGTcount: A:0.50, C:0.10, G:0.05, T:0.35
Consensus pattern (82 bp):
TTCAAATATAAATAATATTTACAAACACTCGTTCGAAAAGAAATAATATTTACAAAATCGCTCAA
ATAGAAATAATATTTAC
Found at i:2594495 original size:60 final size:60
Alignment explanation
Indices: 2594391--2594504 Score: 149
Period size: 60 Copynumber: 1.9 Consensus size: 60
2594381 TAATATTTAC
* *
2594391 TTCAAATATAAATAATATTTACAAACACTCGTTCGAAAAGAAATAATATTTACAAAATCG
1 TTCAAATAGAAATAATATTTACAAACACTCGTTCGAAAAGAAATAAGATTTACAAAATCG
* * * * *
2594451 TTCAAATAGAAATAATATTTATAAACATTCTTTC-AAATATAAATAGGATTTACA
1 TTCAAATAGAAATAATATTTACAAACACTCGTTCGAAA-AGAAATAAGATTTACA
2594505 TTATAGAGTT
Statistics
Matches: 46, Mismatches: 7, Indels: 2
0.84 0.13 0.04
Matches are distributed among these distances:
59 3 0.07
60 43 0.93
ACGTcount: A:0.49, C:0.11, G:0.06, T:0.33
Consensus pattern (60 bp):
TTCAAATAGAAATAATATTTACAAACACTCGTTCGAAAAGAAATAAGATTTACAAAATCG
Found at i:2594556 original size:27 final size:27
Alignment explanation
Indices: 2594520--2594586 Score: 107
Period size: 27 Copynumber: 2.5 Consensus size: 27
2594510 GAGTTTACTA
* * *
2594520 ACATTCATTCAAATATGGATATTTATC
1 ACATTTATTCAAATATAGATATTCATC
2594547 ACATTTATTCAAATATAGATATTCATC
1 ACATTTATTCAAATATAGATATTCATC
2594574 ACATTTATTCAAA
1 ACATTTATTCAAA
2594587 AACATCGTGG
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
27 37 1.00
ACGTcount: A:0.40, C:0.15, G:0.04, T:0.40
Consensus pattern (27 bp):
ACATTTATTCAAATATAGATATTCATC
Found at i:2596859 original size:22 final size:22
Alignment explanation
Indices: 2596831--2596905 Score: 69
Period size: 22 Copynumber: 3.4 Consensus size: 22
2596821 CGAGGTATGA
* *
2596831 GAAGTTGGTTTGCAGGGCATGG
1 GAAGTTGGTTTGTAGGCCATGG
* * ** *
2596853 GAAGTTGGCATAGTAGGTAATGT
1 GAAGTTGG-TTTGTAGGCCATGG
2596876 GAAGTTGGTTTGTAGGCCATGG
1 GAAGTTGGTTTGTAGGCCATGG
*
2596898 AAAGTTGG
1 GAAGTTGG
2596906 AATTTTTCGA
Statistics
Matches: 40, Mismatches: 12, Indels: 2
0.74 0.22 0.04
Matches are distributed among these distances:
22 24 0.60
23 16 0.40
ACGTcount: A:0.24, C:0.07, G:0.40, T:0.29
Consensus pattern (22 bp):
GAAGTTGGTTTGTAGGCCATGG
Found at i:2596964 original size:41 final size:40
Alignment explanation
Indices: 2596915--2597009 Score: 113
Period size: 41 Copynumber: 2.4 Consensus size: 40
2596905 GAATTTTTCG
2596915 AGCC-TGTTGAAGACGTGTAGAAAACATGAAGAT-TTCACC
1 AGCCATGTTGAAGACGTGTAGAAAACATGAAG-TCTTCACC
* * * * *
2596954 AGGCTATGTTGAAGACTTGTGGAAAGCATGGAGTCTTCACC
1 A-GCCATGTTGAAGACGTGTAGAAAACATGAAGTCTTCACC
2596995 AGCCATGTTGAAGAC
1 AGCCATGTTGAAGAC
2597010 TCGAGGAATG
Statistics
Matches: 47, Mismatches: 6, Indels: 5
0.81 0.10 0.09
Matches are distributed among these distances:
39 1 0.02
40 16 0.34
41 30 0.64
ACGTcount: A:0.32, C:0.18, G:0.26, T:0.24
Consensus pattern (40 bp):
AGCCATGTTGAAGACGTGTAGAAAACATGAAGTCTTCACC
Found at i:2597010 original size:40 final size:39
Alignment explanation
Indices: 2596915--2597033 Score: 123
Period size: 40 Copynumber: 3.0 Consensus size: 39
2596905 GAATTTTTCG
* * * *
2596915 AGCC-TGTTGAAGACGTGTAGAAAACATGAAGATTTCACC
1 AGCCATGTTGAAGACTTGTGGAAAGCATGGAG-TTTCACC
*
2596954 AGGCTATGTTGAAGACTTGTGGAAAGCATGGAGTCTTCACC
1 A-GCCATGTTGAAGACTTGTGGAAAGCATGGAGT-TTCACC
* * * *
2596995 AGCCATGTTGAAGACTCGAGGAATGCCTGGAGTTTCACC
1 AGCCATGTTGAAGACTTGTGGAAAGCATGGAGTTTCACC
2597034 GGCTCACCAT
Statistics
Matches: 67, Mismatches: 10, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
39 7 0.10
40 30 0.45
41 30 0.45
ACGTcount: A:0.29, C:0.19, G:0.27, T:0.24
Consensus pattern (39 bp):
AGCCATGTTGAAGACTTGTGGAAAGCATGGAGTTTCACC
Found at i:2607840 original size:15 final size:16
Alignment explanation
Indices: 2607822--2607851 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
2607812 ATTTAAATTA
2607822 ATTTAA-AATATATTG
1 ATTTAAGAATATATTG
2607837 ATTTAAGAATATATT
1 ATTTAAGAATATATT
2607852 AAATATAATT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.47, C:0.00, G:0.07, T:0.47
Consensus pattern (16 bp):
ATTTAAGAATATATTG
Found at i:2620273 original size:23 final size:23
Alignment explanation
Indices: 2620208--2620274 Score: 71
Period size: 24 Copynumber: 2.9 Consensus size: 23
2620198 CACCACAGCT
*
2620208 CGTATAAATGCACCAAAGTGCCA
1 CGTAGAAATGCACCAAAGTGCCA
* * * *
2620231 CGTAGAATTTACACCTAAGTGCCG
1 CGTAGAA-ATGCACCAAAGTGCCA
*
2620255 CGTAGAAATGCACCGAAGTG
1 CGTAGAAATGCACCAAAGTG
2620275 TCATATAAAG
Statistics
Matches: 35, Mismatches: 8, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
23 16 0.46
24 19 0.54
ACGTcount: A:0.34, C:0.24, G:0.22, T:0.19
Consensus pattern (23 bp):
CGTAGAAATGCACCAAAGTGCCA
Found at i:2620711 original size:20 final size:21
Alignment explanation
Indices: 2620664--2620714 Score: 61
Period size: 20 Copynumber: 2.4 Consensus size: 21
2620654 TTTTGTGTCT
*
2620664 TATCATATAACTTCTCTTTTA
1 TATCATATAACTTCTCTTTCA
2620685 TATTCATATAA-TT-TCTTATCA
1 TA-TCATATAACTTCTCTT-TCA
2620706 TATCATATA
1 TATCATATA
2620715 GTTTATATCA
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
20 11 0.41
21 8 0.30
22 8 0.30
ACGTcount: A:0.33, C:0.16, G:0.00, T:0.51
Consensus pattern (21 bp):
TATCATATAACTTCTCTTTCA
Found at i:2621194 original size:64 final size:63
Alignment explanation
Indices: 2621085--2621245 Score: 180
Period size: 64 Copynumber: 2.5 Consensus size: 63
2621075 TTCCCTTGAA
*
2621085 GTGCATCGATGCACTACCCATGCATCGATACACAAATTACCTTCGATGTTTTCATTTTAAAGGG
1 GTGCATCGATGCACTACCCATGCATCGATACACAAATTACCTTCGATGTTTCCATTTTAAA-GG
* * * * * * * *
2621149 GTGCATCGATGCACT-CCTTATGTATCGATGCACTAATTTCTTTCGATGTTTCCATTTTTAATG
1 GTGCATCGATGCACTACC-CATGCATCGATACACAAATTACCTTCGATGTTTCCATTTTAAAGG
* * **
2621212 GTGCATCGATGCAGTTCCTGTGCATCGATACACA
1 GTGCATCGATGCACTACCCATGCATCGATACACA
2621246 CTGAACAATT
Statistics
Matches: 81, Mismatches: 14, Indels: 5
0.81 0.14 0.05
Matches are distributed among these distances:
63 29 0.36
64 52 0.64
ACGTcount: A:0.24, C:0.23, G:0.18, T:0.35
Consensus pattern (63 bp):
GTGCATCGATGCACTACCCATGCATCGATACACAAATTACCTTCGATGTTTCCATTTTAAAGG
Found at i:2630681 original size:14 final size:14
Alignment explanation
Indices: 2630662--2630703 Score: 59
Period size: 14 Copynumber: 2.9 Consensus size: 14
2630652 TACAAGACTT
2630662 GAAAGAAATAAAAA
1 GAAAGAAATAAAAA
2630676 GAAAGAAAATAATAAA
1 GAAAG-AAATAA-AAA
2630692 GAAA-AAATAAAA
1 GAAAGAAATAAAA
2630704 GAAGAAAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
13 2 0.08
14 11 0.42
15 6 0.23
16 7 0.27
ACGTcount: A:0.79, C:0.00, G:0.12, T:0.10
Consensus pattern (14 bp):
GAAAGAAATAAAAA
Found at i:2630687 original size:15 final size:14
Alignment explanation
Indices: 2630667--2630711 Score: 58
Period size: 15 Copynumber: 3.2 Consensus size: 14
2630657 GACTTGAAAG
2630667 AAATAAAAAGAAAGA
1 AAATAAAAAG-AAGA
2630682 AAATAATAAAGAA-A
1 AAATAA-AAAGAAGA
2630696 AAAT-AAAAGAAGA
1 AAATAAAAAGAAGA
2630709 AAA
1 AAA
2630712 AAGGCACACA
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
12 6 0.21
13 5 0.18
14 5 0.18
15 8 0.29
16 4 0.14
ACGTcount: A:0.80, C:0.00, G:0.11, T:0.09
Consensus pattern (14 bp):
AAATAAAAAGAAGA
Found at i:2630712 original size:15 final size:15
Alignment explanation
Indices: 2630662--2630713 Score: 54
Period size: 15 Copynumber: 3.5 Consensus size: 15
2630652 TACAAGACTT
2630662 GAAAGAAATAAAAAGAA
1 GAAA-AAAT-AAAAGAA
* *
2630679 -AGAAAATAATA-AA
1 GAAAAAATAAAAGAA
2630692 GAAAAAATAAAAGAA
1 GAAAAAATAAAAGAA
2630707 GAAAAAA
1 GAAAAAA
2630714 GGCACACAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 6
0.74 0.10 0.15
Matches are distributed among these distances:
13 2 0.07
14 12 0.41
15 13 0.45
16 2 0.07
ACGTcount: A:0.79, C:0.00, G:0.13, T:0.08
Consensus pattern (15 bp):
GAAAAAATAAAAGAA
Found at i:2632886 original size:118 final size:118
Alignment explanation
Indices: 2632714--2632942 Score: 318
Period size: 118 Copynumber: 1.9 Consensus size: 118
2632704 ATTTAAAGAA
* * * *
2632714 GGAGAAAAAGTTCATAATGAGAAGAGCATGTTAAACTTTTTGTTCAAATCCATCACAGAAGAAGA
1 GGAGAAAAAGTTCATAAAGAGAAGAGAATGTTAAACCTTTTATTCAAATCCATCACAGAAGAAGA
* *
2632779 TGGATCAACATTTTCAGTAAAGAGTTCATAATG-GAAAGAACTCATCCAAGGAG
66 TAGATCAACATTTTCAATAAAGAGTTCATAATGAG-AAGAACTCATCCAAGGAG
* * *
2632832 GGAGAAAAAGTTCATAAAGAGAGGA-AATTGTTAGACCTTTTATTCAAATCCATCACAGAAGGAG
1 GGAGAAAAAGTTCATAAAGAGAAGAGAA-TGTTAAACCTTTTATTCAAATCCATCACAGAAGAAG
* * *
2632896 GTAGATCAACATTTTCAATCAAGAGTTCATGATGAGAAGAACTCATC
65 ATAGATCAACATTTTCAATAAAGAGTTCATAATGAGAAGAACTCATC
2632943 TACTAAGAGA
Statistics
Matches: 97, Mismatches: 12, Indels: 4
0.86 0.11 0.04
Matches are distributed among these distances:
117 1 0.01
118 95 0.98
119 1 0.01
ACGTcount: A:0.41, C:0.14, G:0.20, T:0.25
Consensus pattern (118 bp):
GGAGAAAAAGTTCATAAAGAGAAGAGAATGTTAAACCTTTTATTCAAATCCATCACAGAAGAAGA
TAGATCAACATTTTCAATAAAGAGTTCATAATGAGAAGAACTCATCCAAGGAG
Found at i:2632961 original size:118 final size:118
Alignment explanation
Indices: 2632709--2632966 Score: 306
Period size: 118 Copynumber: 2.2 Consensus size: 118
2632699 AATCCATTTA
* * * * *
2632709 AAGAAG-GAGAAAAAGTTCATAATGAGAAGAGCA-TGTTAAACTTTTTGTTCAAATCCATCACAG
1 AAGAAGAGAGAAAAAGTTCATAAAGAGAGGA-AATTGTTAAACCTTTTATTCAAATCCATCACAG
* *
2632772 AAGAAGATGGATCAACATTTTCAGTAAAGAGTTCATAATGGAAAGAACTCATCC
65 AAGAAGATAGATCAACATTTTCAATAAAGAGTTCATAATGGAAAGAACTCATCC
* * *
2632826 AAGGAGGGAGAAAAAGTTCATAAAGAGAGGAAATTGTTAGACCTTTTATTCAAATCCATCACAGA
1 AAGAAGAGAGAAAAAGTTCATAAAGAGAGGAAATTGTTAAACCTTTTATTCAAATCCATCACAGA
* * * * *
2632891 AGGAGGTAGATCAACATTTTCAATCAAGAGTTCATGAT-GAGAAGAACTCATCT
66 AGAAGATAGATCAACATTTTCAATAAAGAGTTCATAATGGA-AAGAACTCATCC
** * *
2632944 ACTAAGAGATAAGAAGTTCATAA
1 AAGAAGAGAGAAAAAGTTCATAA
2632967 TAAGAACTTG
Statistics
Matches: 118, Mismatches: 20, Indels: 5
0.83 0.14 0.03
Matches are distributed among these distances:
117 8 0.07
118 110 0.93
ACGTcount: A:0.43, C:0.13, G:0.20, T:0.24
Consensus pattern (118 bp):
AAGAAGAGAGAAAAAGTTCATAAAGAGAGGAAATTGTTAAACCTTTTATTCAAATCCATCACAGA
AGAAGATAGATCAACATTTTCAATAAAGAGTTCATAATGGAAAGAACTCATCC
Found at i:2633047 original size:116 final size:112
Alignment explanation
Indices: 2632751--2633081 Score: 271
Period size: 118 Copynumber: 2.9 Consensus size: 112
2632741 ATGTTAAACT
* *
2632751 TTTTGT-TCAAATCCATCACAGAAGAAGATGGATCAACATTTTCAGTA-AAGAGTTCATAATG-G
1 TTTTGTATCAAATCCATCACAGAAGAAGGTAGATCAACATTTTCA--ACAAGAGTTCATAATGAG
* * * * * * **
2632813 AAAGAACTCATCCAAGGAGGGAGAA-AAAGTTCATAAAGAGAGGAAATTGTTAGACC
64 -AACAACTCATCCAA--A-GAATAAGAAA-TTCAT-AATA-A-GAACTTGTTTGATG
* * *
2632869 TTTTAT-TCAAATCCATCACAGAAGGAGGTAGATCAACATTTTCAATCAAGAGTTCATGATGAGA
1 TTTTGTATCAAATCCATCACAGAAGAAGGTAGATCAACATTTTCAA-CAAGAGTTCATAATGAGA
* * *
2632933 AGAACTCATCTACTAAGAGATAAGAAGTTCATAATAAGAACTTGTTTGATG
65 ACAACTCATC--CAAAGA-ATAAGAAATTCATAATAAGAACTTGTTTGATG
* * * *
2632984 TTTTGTATCAAATCCATCACATAAGAAGGT-GAATCAAGATTTCTACAA-AGGAGTTTATAATGA
1 TTTTGTATCAAATCCATCACAGAAGAAGGTAG-ATCAACATTT-T-CAACAAGAGTTCATAATGA
*
2633047 GAACAACTCGTCCAAAGAATAAGAAATTCATAATA
63 GAACAACTCATCCAAAGAATAAGAAATTCATAATA
2633082 GAAGACTTGT
Statistics
Matches: 177, Mismatches: 25, Indels: 27
0.77 0.11 0.12
Matches are distributed among these distances:
113 16 0.09
114 5 0.03
115 16 0.09
116 54 0.31
117 5 0.03
118 76 0.43
119 3 0.02
120 2 0.01
ACGTcount: A:0.41, C:0.14, G:0.18, T:0.27
Consensus pattern (112 bp):
TTTTGTATCAAATCCATCACAGAAGAAGGTAGATCAACATTTTCAACAAGAGTTCATAATGAGAA
CAACTCATCCAAAGAATAAGAAATTCATAATAAGAACTTGTTTGATG
Found at i:2633109 original size:32 final size:34
Alignment explanation
Indices: 2633064--2633127 Score: 78
Period size: 32 Copynumber: 1.9 Consensus size: 34
2633054 TCGTCCAAAG
*
2633064 AATAAGAAATTCATAAT-AG-AAGACTTGTTCAT
1 AATAAGAAATTCATAATAAGAAAAACTTGTTCAT
* * *
2633096 AATAAGTAGTTCATGATAAGAAAAACTTGTTC
1 AATAAGAAATTCATAATAAGAAAAACTTGTTC
2633128 GACGCTTTCA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
32 14 0.54
33 2 0.08
34 10 0.38
ACGTcount: A:0.45, C:0.09, G:0.14, T:0.31
Consensus pattern (34 bp):
AATAAGAAATTCATAATAAGAAAAACTTGTTCAT
Found at i:2633547 original size:171 final size:171
Alignment explanation
Indices: 2633262--2633573 Score: 570
Period size: 171 Copynumber: 1.8 Consensus size: 171
2633252 CAAAGAATGA
*
2633262 GGTGGATCAACATTTCCAAAAAGGATTCCATAATGATAAAAACTCATCTAAGTGAGAAGTTCATA
1 GGTGGATCAACATTTCCAAAAAGGAGTCCATAATGATAAAAACTCATCTAAGTGAGAAGTTCATA
* *
2633327 CATGAGAGCTTGTTCAACCCCAACGGTTACCTTCACAGAAGAATGAAGAGTTCATAATAAGAATA
66 CAGGAGAGCTTGTTCAACCCCAACGGTTACATTCACAGAAGAATGAAGAGTTCATAATAAGAATA
2633392 ACTTGGAGCTCGAAATTTCATTGGTGAGTCGAACTATCATT
131 ACTTGGAGCTCGAAATTTCATTGGTGAGTCGAACTATCATT
* *
2633433 GGTGGATCAATATTTCCAAAAAGGAGTCCATAATGATAAAAACTCATCTAAGTGTGAAGTTCATA
1 GGTGGATCAACATTTCCAAAAAGGAGTCCATAATGATAAAAACTCATCTAAGTGAGAAGTTCATA
*
2633498 CAGGAGAGCTTGTTCAACCCCAACGGTTACATTCATAGAAGAATGAAGAGTTCATAATAAGAATA
66 CAGGAGAGCTTGTTCAACCCCAACGGTTACATTCACAGAAGAATGAAGAGTTCATAATAAGAATA
2633563 ACTTGGAGCTC
131 ACTTGGAGCTC
2633574 TATTCTTGTT
Statistics
Matches: 135, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
171 135 1.00
ACGTcount: A:0.38, C:0.17, G:0.19, T:0.26
Consensus pattern (171 bp):
GGTGGATCAACATTTCCAAAAAGGAGTCCATAATGATAAAAACTCATCTAAGTGAGAAGTTCATA
CAGGAGAGCTTGTTCAACCCCAACGGTTACATTCACAGAAGAATGAAGAGTTCATAATAAGAATA
ACTTGGAGCTCGAAATTTCATTGGTGAGTCGAACTATCATT
Found at i:2636171 original size:16 final size:16
Alignment explanation
Indices: 2636133--2636162 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
2636123 TATTTTTTAA
2636133 AATAT-ATATATATAC
1 AATATAATATATATAC
2636148 AATATAATATATATA
1 AATATAATATATATA
2636163 GATATTAATT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.40
Consensus pattern (16 bp):
AATATAATATATATAC
Found at i:2653999 original size:16 final size:15
Alignment explanation
Indices: 2653980--2654014 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
2653970 ATTTTTCTTA
2653980 AAAAAAATTAATTTTT
1 AAAAAAATT-ATTTTT
*
2653996 AAAAAAGTTATTTTT
1 AAAAAAATTATTTTT
2654011 AAAA
1 AAAA
2654015 GATATTGTCT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 10 0.56
16 8 0.44
ACGTcount: A:0.57, C:0.00, G:0.03, T:0.40
Consensus pattern (15 bp):
AAAAAAATTATTTTT
Found at i:2656589 original size:19 final size:19
Alignment explanation
Indices: 2656553--2656620 Score: 59
Period size: 19 Copynumber: 3.5 Consensus size: 19
2656543 AATAAGTTTG
*
2656553 TAAAATATAAAA-ATTAAAA
1 TAAAAT-TAAAATAATAAAA
*
2656572 TAAAATTAAAATAATAAAG
1 TAAAATTAAAATAATAAAA
*
2656591 T-TAATTAATAATAATAATAA
1 TAAAATTAA-AATAATAA-AA
2656611 TAATAATTAA
1 TAA-AATTAA
2656621 TAAAATATCC
Statistics
Matches: 39, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
18 11 0.28
19 20 0.51
20 2 0.05
22 6 0.15
ACGTcount: A:0.66, C:0.00, G:0.01, T:0.32
Consensus pattern (19 bp):
TAAAATTAAAATAATAAAA
Found at i:2656594 original size:25 final size:26
Alignment explanation
Indices: 2656553--2656627 Score: 63
Period size: 25 Copynumber: 3.0 Consensus size: 26
2656543 AATAAGTTTG
2656553 TAAAAT-ATAAAAATTAA-AATAA-AA
1 TAAAATAAT-AAAATTAATAATAATAA
*
2656577 TTAAAATAATAAAGTTAAT--TAATAA
1 -TAAAATAATAAAATTAATAATAATAA
2656602 TAATAATAATAATAATTAATAA-AATA
1 TAA-AATAATAA-AATTAATAATAATA
2656628 TCCAGCGAAA
Statistics
Matches: 41, Mismatches: 2, Indels: 12
0.75 0.04 0.22
Matches are distributed among these distances:
24 6 0.15
25 23 0.56
26 8 0.20
27 4 0.10
ACGTcount: A:0.67, C:0.00, G:0.01, T:0.32
Consensus pattern (26 bp):
TAAAATAATAAAATTAATAATAATAA
Found at i:2656602 original size:16 final size:16
Alignment explanation
Indices: 2656564--2656617 Score: 55
Period size: 16 Copynumber: 3.6 Consensus size: 16
2656554 AAAATATAAA
2656564 AATTAA-AATAAAATT
1 AATTAATAATAAAATT
*
2656579 AA--AATAATAAAGTT
1 AATTAATAATAAAATT
2656593 AATTAATAATAATAA-T
1 AATTAATAATAA-AATT
2656609 AA-TAATAAT
1 AATTAATAAT
2656618 TAATAAAATA
Statistics
Matches: 33, Mismatches: 2, Indels: 8
0.77 0.05 0.19
Matches are distributed among these distances:
13 2 0.06
14 10 0.30
15 9 0.27
16 11 0.33
17 1 0.03
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (16 bp):
AATTAATAATAAAATT
Found at i:2656609 original size:22 final size:21
Alignment explanation
Indices: 2656578--2656627 Score: 66
Period size: 22 Copynumber: 2.3 Consensus size: 21
2656568 AAAATAAAAT
*
2656578 TAAAATAATAA-AGTTAATTAA
1 TAAAATAATAATA-ATAATTAA
2656599 TAATAATAATAATAATAATTAA
1 TAA-AATAATAATAATAATTAA
2656621 TAAAATA
1 TAAAATA
2656628 TCCAGCGAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
21 7 0.27
22 18 0.69
23 1 0.04
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (21 bp):
TAAAATAATAATAATAATTAA
Found at i:2657071 original size:132 final size:132
Alignment explanation
Indices: 2656906--2657406 Score: 549
Period size: 132 Copynumber: 3.8 Consensus size: 132
2656896 GTCGAAGTAA
* * * * * *
2656906 ATTTGTTCCACTAATCATTAGGGAAAATTAAATCTGGAAAAAGGGGATCTGCTCCACTGCTCTTT
1 ATTTGTTCCACTACTCCTTAGGGAAGATTAAATCTGGAAAAAAGGGATCTGCTCCGCTGCTCTTC
** * * * * * *
2656971 AGGGTAGATCAGATCTGGAAACGCTGATTCATTACACTAGTTTTCAATGAATATTGAATCAAGGC
66 AGGGTAGATCAGATCTGGAAACATTGATTCACTCCACTACTATTCAATGTAGATTGAATCAAGGC
2657036 AG
131 AG
* * * * * * * *
2657038 ACTTGTTCCACTACTCCTCAGGGAAGATCAAATCTGAAAAAAAGGAATTTGCTCCTCTGTTCTTC
1 ATTTGTTCCACTACTCCTTAGGGAAGATTAAATCTGGAAAAAAGGGATCTGCTCCGCTGCTCTTC
* * * *
2657103 AGGGTAGATTAGATCTGGAAACATTGATTCACTCCATTTCTATTC-ATAGTAGATTGAATCTAGG
66 AGGGTAGATCAGATCTGGAAACATTGATTCACTCCACTACTATTCAAT-GTAGATTGAATCAAGG
2657167 CAG
130 CAG
* * * * *
2657170 ATTTGTTTCACTGCTTCTTAGGGAATATTAAATCT-GAAACAAGGGGATCTGCTCCGCTGCTCTT
1 ATTTGTTCCACTACTCCTTAGGGAAGATTAAATCTGGAAA-AAAGGGATCTGCTCCGCTGCTCTT
* * * ** *
2657234 CAAGGTAGATCAGATCTTGAAACAATGATTCACTCCACTACTATTCAGGGTAGATTGAATCGAGG
65 CAGGGTAGATCAGATCTGGAAACATTGATTCACTCCACTACTATTCAATGTAGATTGAATCAAGG
*
2657299 TAG
130 CAG
* * * *
2657302 ATTTGTTCCACTACTACTTAGGGAAGATTAAATCTAGAAAAAAGGGATATGTTCCGCTGCTTCTT
1 ATTTGTTCCACTACTCCTTAGGGAAGATTAAATCTGGAAAAAAGGGATCTGCTCCGCTGC-TCTT
* *
2657367 CAGGGTAAATCAGATCTGGAAA-AGTTGATTCATTCCACTA
65 CAGGGTAGATCAGATCTGGAAACA-TTGATTCACTCCACTA
2657407 TTCTTCAGGG
Statistics
Matches: 303, Mismatches: 60, Indels: 11
0.81 0.16 0.03
Matches are distributed among these distances:
131 5 0.02
132 257 0.85
133 41 0.14
ACGTcount: A:0.31, C:0.18, G:0.20, T:0.31
Consensus pattern (132 bp):
ATTTGTTCCACTACTCCTTAGGGAAGATTAAATCTGGAAAAAAGGGATCTGCTCCGCTGCTCTTC
AGGGTAGATCAGATCTGGAAACATTGATTCACTCCACTACTATTCAATGTAGATTGAATCAAGGC
AG
Found at i:2657310 original size:264 final size:265
Alignment explanation
Indices: 2656923--2657403 Score: 655
Period size: 264 Copynumber: 1.8 Consensus size: 265
2656913 CCACTAATCA
* *
2656923 TTAGGGAAAATTAAATCTGGAAAAAGGGGATCTGCTCCACTGCTCTTTAGGGTAGATCAGATCTG
1 TTAGGGAAAATTAAATCTGGAAAAAGGGGATCTGCTCCACTGCTCTTCAAGGTAGATCAGATCTG
** * * * * *
2656988 GAAACGCTGATTCATTACACTAGTTTTCAATGAATATTGAATCAAGGCAGACTTGTTCCACTACT
66 GAAACAATGATTCACTACACTACTATTCAAGGAAGATTGAATCAAGGCAGACTTGTTCCACTACT
* * * * *
2657053 CCTCAGGGAAGATCAAATCT-GAAAAAAAGGAATTTGCTCCTCTG-TTCTTCAGGGTAGATTAGA
131 ACTCAGGGAAGATCAAATCTAG-AAAAAAGGAATATGCTCCGCTGCTTCTTCAGGGTAAATCAGA
2657116 TCTGGAAACA-TTGATTCACTCCATTTCTATTCATAGTAGATTGAATCTAGGCAGATTTGTTTCA
195 TCTGGAAA-AGTTGATTCACTCCATTTCTATTCATAGTAGATTGAATCTAGGCAGATTTGTTTCA
2657180 CTGCTTC
259 CTGCTTC
* *
2657187 TTAGGGAATATTAAATCT-GAAACAAGGGGATCTGCTCCGCTGCTCTTCAAGGTAGATCAGATCT
1 TTAGGGAAAATTAAATCTGGAAA-AAGGGGATCTGCTCCACTGCTCTTCAAGGTAGATCAGATCT
* * * * * * *
2657251 TGAAACAATGATTCACTCCACTACTATTCAGGGTAGATTGAATCGAGGTAGATTTGTTCCACTAC
65 GGAAACAATGATTCACTACACTACTATTCAAGGAAGATTGAATCAAGGCAGACTTGTTCCACTAC
* * * *
2657316 TACTTAGGGAAGATTAAATCTAGAAAAAAGGGATATGTTCCGCTGCTTCTTCAGGGTAAATCAGA
130 TACTCAGGGAAGATCAAATCTAGAAAAAAGGAATATGCTCCGCTGCTTCTTCAGGGTAAATCAGA
*
2657381 TCTGGAAAAGTTGATTCATTCCA
195 TCTGGAAAAGTTGATTCACTCCA
2657404 CTATTCTTCA
Statistics
Matches: 185, Mismatches: 28, Indels: 7
0.84 0.13 0.03
Matches are distributed among these distances:
263 4 0.02
264 143 0.77
265 38 0.21
ACGTcount: A:0.31, C:0.18, G:0.20, T:0.31
Consensus pattern (265 bp):
TTAGGGAAAATTAAATCTGGAAAAAGGGGATCTGCTCCACTGCTCTTCAAGGTAGATCAGATCTG
GAAACAATGATTCACTACACTACTATTCAAGGAAGATTGAATCAAGGCAGACTTGTTCCACTACT
ACTCAGGGAAGATCAAATCTAGAAAAAAGGAATATGCTCCGCTGCTTCTTCAGGGTAAATCAGAT
CTGGAAAAGTTGATTCACTCCATTTCTATTCATAGTAGATTGAATCTAGGCAGATTTGTTTCACT
GCTTC
Found at i:2658767 original size:4 final size:4
Alignment explanation
Indices: 2658758--2658790 Score: 52
Period size: 4 Copynumber: 8.8 Consensus size: 4
2658748 TTGAACCCTT
2658758 TTTA TTTA TTTA TTTA TTTA -TTA TTTA -TTA TTT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTT
2658791 TTCTTTTTCT
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
3 6 0.22
4 21 0.78
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (4 bp):
TTTA
Found at i:2658783 original size:7 final size:8
Alignment explanation
Indices: 2658758--2658790 Score: 52
Period size: 7 Copynumber: 4.4 Consensus size: 8
2658748 TTGAACCCTT
2658758 TTTATTTA
1 TTTATTTA
2658766 TTTATTTA
1 TTTATTTA
2658774 TTTA-TTA
1 TTTATTTA
2658781 TTTA-TTA
1 TTTATTTA
2658788 TTT
1 TTT
2658791 TTCTTTTTCT
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
7 13 0.52
8 12 0.48
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (8 bp):
TTTATTTA
Found at i:2658820 original size:13 final size:13
Alignment explanation
Indices: 2658804--2658831 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
2658794 TTTTTCTTTT
2658804 TTTTCTTTTCTCA
1 TTTTCTTTTCTCA
2658817 TTTTCTTTTCTCA
1 TTTTCTTTTCTCA
2658830 TT
1 TT
2658832 CTTTCTTATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.07, C:0.21, G:0.00, T:0.71
Consensus pattern (13 bp):
TTTTCTTTTCTCA
Found at i:2669180 original size:117 final size:117
Alignment explanation
Indices: 2668974--2669209 Score: 454
Period size: 117 Copynumber: 2.0 Consensus size: 117
2668964 ATCATGGCAA
2668974 TCTCCATCTCCTTGAAATAATCTTCAACGTTCTTGTTTCCTTGTTTCAGATTTTGTAACTTATGA
1 TCTCCATCTCCTTGAAATAATCTTCAACGTTCTTGTTTCCTTGTTTCAGATTTTGTAACTTATGA
2669039 TAGAGATCTCGGTGATAGTGATTAGGAACAAAACTTTTTCTCATAAGGGCCT
66 TAGAGATCTCGGTGATAGTGATTAGGAACAAAACTTTTTCTCATAAGGGCCT
2669091 TCTCCATCTCCTTGAAATAATCTTCAACGTTCTTGTTTCCTTGTTTCAGATTTTGTAACTTATGA
1 TCTCCATCTCCTTGAAATAATCTTCAACGTTCTTGTTTCCTTGTTTCAGATTTTGTAACTTATGA
* *
2669156 TAGAGATCTCTGTGATAGTGATTAGGAACAAACCTTTTTCTCATAAGGGCCT
66 TAGAGATCTCGGTGATAGTGATTAGGAACAAAACTTTTTCTCATAAGGGCCT
2669208 TC
1 TC
2669210 ATTTCTTCCC
Statistics
Matches: 117, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
117 117 1.00
ACGTcount: A:0.25, C:0.19, G:0.16, T:0.40
Consensus pattern (117 bp):
TCTCCATCTCCTTGAAATAATCTTCAACGTTCTTGTTTCCTTGTTTCAGATTTTGTAACTTATGA
TAGAGATCTCGGTGATAGTGATTAGGAACAAAACTTTTTCTCATAAGGGCCT
Found at i:2675312 original size:21 final size:21
Alignment explanation
Indices: 2675286--2675325 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
2675276 GAGAATTTTT
2675286 TTTTAAAATAT-AAAAATGATG
1 TTTTAAAAT-TGAAAAATGATG
2675307 TTTTAAAATTGAAAAATGA
1 TTTTAAAATTGAAAAATGA
2675326 AAATAAACTC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 1 0.06
21 17 0.94
ACGTcount: A:0.53, C:0.00, G:0.10, T:0.38
Consensus pattern (21 bp):
TTTTAAAATTGAAAAATGATG
Found at i:2679189 original size:21 final size:21
Alignment explanation
Indices: 2679165--2679204 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
2679155 CCCCCTTTGA
*
2679165 AGGGGAACCGATCCCCCCCAC
1 AGGGGAACCGATACCCCCCAC
*
2679186 AGGGGAATCGATACCCCCC
1 AGGGGAACCGATACCCCCC
2679205 TGGGGTTCTG
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:0.25, C:0.42, G:0.25, T:0.07
Consensus pattern (21 bp):
AGGGGAACCGATACCCCCCAC
Found at i:2682851 original size:6 final size:6
Alignment explanation
Indices: 2682840--2682866 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
2682830 GAAATAAATA
2682840 ATACCT ATACCT ATACCT ATACCT ATA
1 ATACCT ATACCT ATACCT ATACCT ATA
2682867 TATGCAAACA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.37, C:0.30, G:0.00, T:0.33
Consensus pattern (6 bp):
ATACCT
Found at i:2683003 original size:2 final size:2
Alignment explanation
Indices: 2682996--2683034 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
2682986 ATCAAATTAC
2682996 AT AT 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 AT AT A
2683035 CTTAAATAAA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:2684431 original size:17 final size:16
Alignment explanation
Indices: 2684399--2684431 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
2684389 AAAAATAAAG
2684399 AAAATAAAGTGCAAAA
1 AAAATAAAGTGCAAAA
2684415 AAAATTAAA-TGCAAAA
1 AAAA-TAAAGTGCAAAA
2684431 A
1 A
2684432 GAAAGAATGA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 12 0.75
17 4 0.25
ACGTcount: A:0.70, C:0.06, G:0.09, T:0.15
Consensus pattern (16 bp):
AAAATAAAGTGCAAAA
Found at i:2685701 original size:3 final size:3
Alignment explanation
Indices: 2685695--2685720 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
2685685 TGTTATATTG
2685695 TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TA
2685721 TAAAAGAGGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:2690618 original size:48 final size:48
Alignment explanation
Indices: 2690533--2690661 Score: 125
Period size: 48 Copynumber: 2.7 Consensus size: 48
2690523 ATTATACTTA
* * ** * *
2690533 TAGCATGTGTCTAATGTCTGTCCGATGGTAGTTCTACTATACGAAACT
1 TAGCATGTATCTGATGTCTGTGTGATGGTGGTGCTACTATACGAAACT
* * **
2690581 TAGCATGTATCTGATGTCTGTGTGATAGTGGTGCTACTATATGGTACT
1 TAGCATGTATCTGATGTCTGTGTGATGGTGGTGCTACTATACGAAACT
* * *
2690629 TATCACT-TTTCTGATGTCTATGTGATGGTGGTG
1 TAGCA-TGTATCTGATGTCTGTGTGATGGTGGTG
2690662 TTAAAGTACC
Statistics
Matches: 66, Mismatches: 14, Indels: 2
0.80 0.17 0.02
Matches are distributed among these distances:
48 65 0.98
49 1 0.02
ACGTcount: A:0.21, C:0.15, G:0.25, T:0.40
Consensus pattern (48 bp):
TAGCATGTATCTGATGTCTGTGTGATGGTGGTGCTACTATACGAAACT
Found at i:2694338 original size:175 final size:175
Alignment explanation
Indices: 2694047--2694396 Score: 673
Period size: 175 Copynumber: 2.0 Consensus size: 175
2694037 AGTAGAAGGG
*
2694047 ATAAGAGTAGCTCCCAAGAAAGTTCAAGCTATTGTTGAGTAGAGAACTCCAAAAAATGTTTCTAA
1 ATAAGAGTAGCTCCCAAGAAAGTTCAAGCTATTATTGAGTAGAGAACTCCAAAAAATGTTTCTAA
2694112 AGTTCAGAGTTTATTGGGACTCACTGGTTATTATCAAATATTCATAAATAACTTTTCGATGATCG
66 AGTTCAGAGTTTATTGGGACTCACTGGTTATTATCAAATATTCATAAATAACTTTTCGATGATCG
2694177 CTTCCCCACTTATCAAGTTATTGAGGAAAGATGTGTCATTCATTT
131 CTTCCCCACTTATCAAGTTATTGAGGAAAGATGTGTCATTCATTT
* *
2694222 ATAAGAGTAGCTCCCAAGAAAGTTCAAGCTATTATTGAGTGGAGAACTCCAAAGAATGTTTCTAA
1 ATAAGAGTAGCTCCCAAGAAAGTTCAAGCTATTATTGAGTAGAGAACTCCAAAAAATGTTTCTAA
2694287 AGTTCAGAGTTTATTGGGACTCACTGGTTATTATCAAATATTCATAAATAACTTTTCGATGATCG
66 AGTTCAGAGTTTATTGGGACTCACTGGTTATTATCAAATATTCATAAATAACTTTTCGATGATCG
2694352 CTTCCCCACTTATCAAGTTATTGAGGAAAGATGTGTCATTCATTT
131 CTTCCCCACTTATCAAGTTATTGAGGAAAGATGTGTCATTCATTT
2694397 GGACTGATAA
Statistics
Matches: 172, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
175 172 1.00
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.34
Consensus pattern (175 bp):
ATAAGAGTAGCTCCCAAGAAAGTTCAAGCTATTATTGAGTAGAGAACTCCAAAAAATGTTTCTAA
AGTTCAGAGTTTATTGGGACTCACTGGTTATTATCAAATATTCATAAATAACTTTTCGATGATCG
CTTCCCCACTTATCAAGTTATTGAGGAAAGATGTGTCATTCATTT
Found at i:2699297 original size:22 final size:22
Alignment explanation
Indices: 2699238--2699298 Score: 65
Period size: 22 Copynumber: 2.9 Consensus size: 22
2699228 TGTAAAAATG
*
2699238 GTATCGATACCATAGCA---TA
1 GTATCGATACCATAGTATGGTA
* *
2699257 GTATCGGTACCATATTATGGTA
1 GTATCGATACCATAGTATGGTA
*
2699279 GTATCGATACCATGGTATGG
1 GTATCGATACCATAGTATGG
2699299 GTATCAATAC
Statistics
Matches: 33, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
19 14 0.42
22 19 0.58
ACGTcount: A:0.30, C:0.16, G:0.23, T:0.31
Consensus pattern (22 bp):
GTATCGATACCATAGTATGGTA
Found at i:2705556 original size:19 final size:20
Alignment explanation
Indices: 2705532--2705573 Score: 59
Period size: 19 Copynumber: 2.1 Consensus size: 20
2705522 AATCGGTGTT
* *
2705532 GATACCGAATGG-GGGTATC
1 GATACCGAAAGGAAGGTATC
2705551 GATACCGAAAGGAAGGTATC
1 GATACCGAAAGGAAGGTATC
2705571 GAT
1 GAT
2705574 CCCATTCAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 11 0.55
20 9 0.45
ACGTcount: A:0.33, C:0.14, G:0.33, T:0.19
Consensus pattern (20 bp):
GATACCGAAAGGAAGGTATC
Found at i:2706051 original size:54 final size:54
Alignment explanation
Indices: 2705993--2706583 Score: 903
Period size: 54 Copynumber: 10.9 Consensus size: 54
2705983 TTACCAAATA
** *
2705993 GGCACTAAGTGTGCATTTCATAGAATTCATCCTATGTGGATGAATAATCGTTTC
1 GGCACTAAGTGTGCATTTCACGGAATTCATCCTATGTGGATGAATAACCGTTTC
*
2706047 GGCACTAAGTGTGCATTTCACGGAATTCATCCTATGTGTATGAATAACCGTTTC
1 GGCACTAAGTGTGCATTTCACGGAATTCATCCTATGTGGATGAATAACCGTTTC
* *
2706101 GGTACTAAGTGTGCATTTCACGGAATTCATCCTATGTGGATGAATAACCATTTC
1 GGCACTAAGTGTGCATTTCACGGAATTCATCCTATGTGGATGAATAACCGTTTC
* * *
2706155 GACACTAAGTGTGCATTTCATGGAATTCATCCTTTGTGGATGAATAACCGTTTC
1 GGCACTAAGTGTGCATTTCACGGAATTCATCCTATGTGGATGAATAACCGTTTC
* * *
2706209 GGCACTAAGTGTACATTTCACGGAATTCATCCTATGTGGATGAATAACAGTTTT
1 GGCACTAAGTGTGCATTTCACGGAATTCATCCTATGTGGATGAATAACCGTTTC
* *
2706263 GGCACTAAGTGTGCATTTCACGAAATTCAACCTATGTGGATGAATAACCGTTTC
1 GGCACTAAGTGTGCATTTCACGGAATTCATCCTATGTGGATGAATAACCGTTTC
* *
2706317 GACACTAAGTGTGCATTTCACGGAATTCATCCTATGTGGATGAATAATCGTTTC
1 GGCACTAAGTGTGCATTTCACGGAATTCATCCTATGTGGATGAATAACCGTTTC
* * *
2706371 GGCACTAAGTGTGCATTTCATGGAACTCATCCTATGTGGATGAATAATCGTTTC
1 GGCACTAAGTGTGCATTTCACGGAATTCATCCTATGTGGATGAATAACCGTTTC
*
2706425 GGCACTAAGTGTGCATTTCACGGAATTCATCATATGTGGATGAATAACCGTTTC
1 GGCACTAAGTGTGCATTTCACGGAATTCATCCTATGTGGATGAATAACCGTTTC
* * * * *
2706479 AGCACTAAGTATGCATTTCACGGAATTCATTCTATATGGATGAATAAACGTTTC
1 GGCACTAAGTGTGCATTTCACGGAATTCATCCTATGTGGATGAATAACCGTTTC
** ** **
2706533 GGCACTAAGTGTGCATTTCACATAATTCATAATATGTTTATGAATAACCGT
1 GGCACTAAGTGTGCATTTCACGGAATTCATCCTATGTGGATGAATAACCGT
2706584 ATGACACTAC
Statistics
Matches: 487, Mismatches: 50, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
54 487 1.00
ACGTcount: A:0.29, C:0.18, G:0.20, T:0.33
Consensus pattern (54 bp):
GGCACTAAGTGTGCATTTCACGGAATTCATCCTATGTGGATGAATAACCGTTTC
Found at i:2710011 original size:21 final size:20
Alignment explanation
Indices: 2709987--2710035 Score: 89
Period size: 21 Copynumber: 2.4 Consensus size: 20
2709977 TGAGTTCATT
2709987 AAAATATTTTTAAAGTGTTTA
1 AAAATATTTTTAAAGT-TTTA
2710008 AAAATATTTTTAAAGTTTTA
1 AAAATATTTTTAAAGTTTTA
2710028 AAAATATT
1 AAAATATT
2710036 AAAAATATTA
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
20 12 0.43
21 16 0.57
ACGTcount: A:0.47, C:0.00, G:0.06, T:0.47
Consensus pattern (20 bp):
AAAATATTTTTAAAGTTTTA
Found at i:2711491 original size:23 final size:23
Alignment explanation
Indices: 2711418--2711492 Score: 87
Period size: 23 Copynumber: 3.3 Consensus size: 23
2711408 AATTTGTTCA
* **
2711418 TGAACACTAAATGAACATGTTTG
1 TGAACATTAAATGAACACATTTG
* **
2711441 TCAACATTAAATGAACACATTCA
1 TGAACATTAAATGAACACATTTG
*
2711464 CGAACATTAAATGAACACATTTG
1 TGAACATTAAATGAACACATTTG
2711487 TGAACA
1 TGAACA
2711493 CAAACATAAC
Statistics
Matches: 41, Mismatches: 11, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
23 41 1.00
ACGTcount: A:0.44, C:0.17, G:0.12, T:0.27
Consensus pattern (23 bp):
TGAACATTAAATGAACACATTTG
Found at i:2715032 original size:3 final size:3
Alignment explanation
Indices: 2715024--2715070 Score: 67
Period size: 3 Copynumber: 15.7 Consensus size: 3
2715014 TTTGCAAATG
* * *
2715024 TAA TAA TAA TAA TAT TAA TAA TAG TAA TAG TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
2715071 TAAATCCGGA
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.60, C:0.00, G:0.04, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:2715475 original size:117 final size:109
Alignment explanation
Indices: 2715317--2715613 Score: 346
Period size: 117 Copynumber: 2.6 Consensus size: 109
2715307 ATGCAAGGCT
*
2715317 GAACAAGTTCTTCTCATTATGAA-TTTCTTCTTCCTCTTTGGATGAGTTCTTCTCATTATGAACT
1 GAACAAGTTCTTCTCATTATGAACTTTC--CTCCCTC-TTGGATGAGTTCTTCTCATTATGAACT
* *
2715381 CTCCACTGTAAATGTTGATCTATCTCCTTCAGTGATGGAA-TCGAATCAAG
63 CTCCACTGAAAATGTTGATCCATCTCCTTCAGTGAT-GAATTCG-A--AAG
* *
2715431 GTTTAACAAGTTCTTCTCATTATGAACTTATCCTCCCTCATTGGACGAGTTTTTCTCATTATGAA
1 G---AACAAGTTCTTCTCATTATGAACTT-TCCTCCCTC-TTGGATGAGTTCTTCTCATTATGAA
* * * * *
2715496 CTCTTCATTGAAAATGTTGATCCATCTCCTTCTGTGGTGAATTTGAAAG
61 CTCTCCACTGAAAATGTTGATCCATCTCCTTCAGTGATGAATTCGAAAG
2715545 GAACAAGTTCTTCTCATTATGAACTTTCTTCTCCCTCTGTCGGATGAGTTCTTCTCATTATGAAC
1 GAACAAGTTCTTCTCATTATGAACTTTC--CTCCCTCT-T-GGATGAGTTCTTCTCATTATGAAC
2715610 TCTC
62 TCTC
2715614 AATTGGAAAT
Statistics
Matches: 159, Mismatches: 14, Indels: 21
0.82 0.07 0.11
Matches are distributed among these distances:
110 2 0.01
111 26 0.16
112 8 0.05
113 25 0.16
114 5 0.03
116 4 0.03
117 85 0.53
118 2 0.01
119 2 0.01
ACGTcount: A:0.24, C:0.22, G:0.14, T:0.40
Consensus pattern (109 bp):
GAACAAGTTCTTCTCATTATGAACTTTCCTCCCTCTTGGATGAGTTCTTCTCATTATGAACTCTC
CACTGAAAATGTTGATCCATCTCCTTCAGTGATGAATTCGAAAG
Found at i:2716149 original size:135 final size:136
Alignment explanation
Indices: 2715545--2716215 Score: 1074
Period size: 136 Copynumber: 4.9 Consensus size: 136
2715535 AATTTGAAAG
*
2715545 GAACAAGTTCTTCTCATTATGAACTTTCTTCTCCCTCTGTCGGATGAGTTCTTCTCATTATGAAC
1 GAACAAGCTCTTCTCATTATGAAC-TTCTTCTCCCTCTGTCGGATGAGTTCTTCTCATTATGAAC
* ** *
2715610 TCTCAATTGGAAATGTCAATCCCTCAAGCGAGGCATCACTGATTCGAAATGCCGTGAATCGAGTG
65 TCTCAATTGGAAATGTCAATCCCTCAAGTGAGGTGTCACTGATTCGAAATGTCGTGAATCGAGTG
2715675 ATAGGTC
130 ATAGGTC
* * * *
2715682 GAACAAGCTTTTCTTATTATGAATTTCTTCTCCCTTTGTCGGATGAGTTCTTCTCATTATGAACT
1 GAACAAGCTCTTCTCATTATGAACTTCTTCTCCCTCTGTCGGATGAGTTCTTCTCATTATGAACT
* * * *
2715747 CTCAATTGGAAATGCCAATCCCTCAAGTGAGGTGCCACTGATTCGAAATGTCATGAATCAAGTGA
66 CTCAATTGGAAATGTCAATCCCTCAAGTGAGGTGTCACTGATTCGAAATGTCGTGAATCGAGTGA
2715812 TAGGTC
131 TAGGTC
* *
2715818 GAATAAGCTCTTCTCATTATGAACTTCTTCTCCCTCTGTCGGATGAGTTCTTCTCATTATTAACT
1 GAACAAGCTCTTCTCATTATGAACTTCTTCTCCCTCTGTCGGATGAGTTCTTCTCATTATGAACT
* *
2715883 CTCAATTGGAAATATCAATCCCTCAAGTGAGGTGTCACTGATTCAAAATGTCGTGAATCGAGTGA
66 CTCAATTGGAAATGTCAATCCCTCAAGTGAGGTGTCACTGATTCGAAATGTCGTGAATCGAGTGA
2715948 TAGGTC
131 TAGGTC
2715954 GAACAAGCTCTTCTCATTATGAACTTCTTCTCCCTCTGTCGGATGAGTTCTTCTCATTATGAACT
1 GAACAAGCTCTTCTCATTATGAACTTCTTCTCCCTCTGTCGGATGAGTTCTTCTCATTATGAACT
* *
2716019 CTCAATTGGAAATGTCAATCCCTGAAGTGAGGTGTCACTGATT-GAAATGTCGTGAATCGAGTGC
66 CTCAATTGGAAATGTCAATCCCTCAAGTGAGGTGTCACTGATTCGAAATGTCGTGAATCGAGTGA
*
2716083 TAGGTA
131 TAGGTC
*
2716089 GAACAAGCTCTTCTCATTATGAACTTCTTCTCCCTCTGTCGGATGAGTTCTTATCATTATGAACT
1 GAACAAGCTCTTCTCATTATGAACTTCTTCTCCCTCTGTCGGATGAGTTCTTCTCATTATGAACT
* *** * * *
2716154 CTCAATTGGAAATGTCAATCCCTCAAGCGAGACATTACTGATTCAAAATGTCATGAATCGAG
66 CTCAATTGGAAATGTCAATCCCTCAAGTGAGGTGTCACTGATTCGAAATGTCGTGAATCGAG
2716216 CAACGTAAAT
Statistics
Matches: 492, Mismatches: 41, Indels: 3
0.92 0.08 0.01
Matches are distributed among these distances:
135 125 0.25
136 347 0.71
137 20 0.04
ACGTcount: A:0.27, C:0.22, G:0.18, T:0.33
Consensus pattern (136 bp):
GAACAAGCTCTTCTCATTATGAACTTCTTCTCCCTCTGTCGGATGAGTTCTTCTCATTATGAACT
CTCAATTGGAAATGTCAATCCCTCAAGTGAGGTGTCACTGATTCGAAATGTCGTGAATCGAGTGA
TAGGTC
Found at i:2716324 original size:42 final size:41
Alignment explanation
Indices: 2716271--2716380 Score: 148
Period size: 42 Copynumber: 2.6 Consensus size: 41
2716261 TGCTCGAAAG
* * *
2716271 ACTTACAGATGACCTGAAGAATTTAAGCATCATGCTAAAAAA
1 ACTTACTGATGACCCGAAGGATTTAA-CATCATGCTAAAAAA
** *
2716313 ACTTACTGATGACCCGAAGGATTTACACATCATGCTTGAAAG
1 ACTTACTGATGACCCGAAGGATTTA-ACATCATGCTAAAAAA
2716355 ACTTACTGATGACCCGAAGGATTTAA
1 ACTTACTGATGACCCGAAGGATTTAA
2716381 AAATCAAGAA
Statistics
Matches: 61, Mismatches: 6, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
41 1 0.02
42 59 0.97
43 1 0.02
ACGTcount: A:0.38, C:0.19, G:0.17, T:0.25
Consensus pattern (41 bp):
ACTTACTGATGACCCGAAGGATTTAACATCATGCTAAAAAA
Found at i:2716492 original size:90 final size:90
Alignment explanation
Indices: 2716362--2716563 Score: 307
Period size: 90 Copynumber: 2.2 Consensus size: 90
2716352 AAGACTTACT
* * **
2716362 GATGACCCGAAGGATTTAAAAATCAAGAAACCCCTGAAGGCTT-GATTTCTAAAATCTCATTTGA
1 GATGACCCGAAGGACTTACAAATCAAGAAACCCCCAAAGGCTTAG-TTTCTAAAATCTCATTTGA
2716426 AAACATCATGCACTGAAGGTCTTATG
65 AAACATCATGCACTGAAGGTCTTATG
* * *
2716452 GATGGCCCGAATGACTTACAAATCAAGAAACCCCCAAAGGCTTAGTTTCTAAAATCTTATTTGAA
1 GATGACCCGAAGGACTTACAAATCAAGAAACCCCCAAAGGCTTAGTTTCTAAAATCTCATTTGAA
*
2716517 AACATCCTGCACTGAAGGTCTTATG
66 AACATCATGCACTGAAGGTCTTATG
*
2716542 GATGACCCGAGGGACTTACAAA
1 GATGACCCGAAGGACTTACAAA
2716564 CCCCTGAAGG
Statistics
Matches: 100, Mismatches: 11, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
90 99 0.99
91 1 0.01
ACGTcount: A:0.36, C:0.21, G:0.18, T:0.25
Consensus pattern (90 bp):
GATGACCCGAAGGACTTACAAATCAAGAAACCCCCAAAGGCTTAGTTTCTAAAATCTCATTTGAA
AACATCATGCACTGAAGGTCTTATG
Found at i:2722493 original size:37 final size:37
Alignment explanation
Indices: 2722436--2722540 Score: 147
Period size: 37 Copynumber: 2.8 Consensus size: 37
2722426 CCTTTTCGTC
*
2722436 CTACTACGATTCAAACTCCTAAAAATAGGATAGAATT
1 CTACTAGGATTCAAACTCCTAAAAATAGGATAGAATT
* * *
2722473 TTGCTAGGATTCAAACTCCTAAAAATAGGATAGAGTT
1 CTACTAGGATTCAAACTCCTAAAAATAGGATAGAATT
* * *
2722510 CTACTATGATTTAAACTCCTAAAGATAGGAT
1 CTACTAGGATTCAAACTCCTAAAAATAGGAT
2722541 CCACAAGCAC
Statistics
Matches: 59, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
37 59 1.00
ACGTcount: A:0.40, C:0.16, G:0.14, T:0.30
Consensus pattern (37 bp):
CTACTAGGATTCAAACTCCTAAAAATAGGATAGAATT
Found at i:2723329 original size:18 final size:18
Alignment explanation
Indices: 2723308--2723349 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
2723298 TTTTGGTTTT
*
2723308 TTATTTGTTTATATTA-TA
1 TTATTT-TTCATATTACTA
2723326 TTATATTTTCATATTACTA
1 TTAT-TTTTCATATTACTA
2723345 TTATT
1 TTATT
2723350 ATTGTTATGA
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
18 13 0.62
19 8 0.38
ACGTcount: A:0.29, C:0.05, G:0.02, T:0.64
Consensus pattern (18 bp):
TTATTTTTCATATTACTA
Found at i:2726339 original size:22 final size:22
Alignment explanation
Indices: 2726265--2726341 Score: 127
Period size: 22 Copynumber: 3.5 Consensus size: 22
2726255 GCTACCACAT
* *
2726265 CAAACCGTTAAGCATCAAATGC
1 CAAACCTTTGAGCATCAAATGC
*
2726287 CAAACCTATGAGCATCAAATGC
1 CAAACCTTTGAGCATCAAATGC
2726309 CAAACCTTTGAGCATCAAATGC
1 CAAACCTTTGAGCATCAAATGC
2726331 CAAACCTTTGA
1 CAAACCTTTGA
2726342 CCAAACATAA
Statistics
Matches: 51, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 51 1.00
ACGTcount: A:0.39, C:0.27, G:0.13, T:0.21
Consensus pattern (22 bp):
CAAACCTTTGAGCATCAAATGC
Found at i:2727372 original size:106 final size:106
Alignment explanation
Indices: 2727166--2728328 Score: 1734
Period size: 106 Copynumber: 11.0 Consensus size: 106
2727156 ATATCGTGCC
* * * * * *
2727166 ACTCAAGACAACACAAGTTCAACTTCACAACGAAGGGACAGCTGGTTGTCAA-CAACAATTTTCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAATTTCCC
*
2727230 AATTTCGGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * *
2727271 ACTCCAGACAACACAAGTTCAACTTCACGATGAAGGGACCGTTGGTTGTCAATAAACAATTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAATTTCCC
2727336 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* *
2727377 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAATAACTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAATTTCCC
2727442 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * * *
2727483 ACTCCAGACAATGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCTC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAATTTCCC
*
2727548 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * * *
2727589 ACTCCAGACAACGCAAGTTCAATTTCACGATGAAGGGAGCGCTGGTTGTCAACAAACAATTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAATTTCCC
2727654 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* *
2727695 ACTCAAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAATTTCTC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAATTTCCC
*
2727760 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGA
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * *
2727801 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCTC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAATTTCCC
* * *
2727866 AATTTTAGAGCCACTTTCAACTTCACAACGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
** *
2727907 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACTTCTGGTTGTCAATAAATAATTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAATTTCCC
*
2727972 AATTTCAGAGCCAATTTCAACTTCACAGCGTAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* *
2728013 ACTCAAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAATTTCCC
* * *
2728078 AATTTCAGAGCCAATTTCAATTTCTCAGCGAAGGATCTTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * * * * *
2728119 AC-CCATGACAACACAAGCTCAACTTCACGACGAAGGGGCGGCTGATTGTCAA-CAA-AATTT--
1 ACTCCA-GACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAATTTCC
* *
2728179 C-A-TTCAGAGTCAATTTCAACTTAACAGCGAAGGATATTGG
65 CAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * * * *
2728219 ACTCGAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAAACAATTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAATTTCCC
** *
2728284 -GGTTCTAGAGCCAATTTCAACTTCAC-GACGGAGGATATTGG
66 AATTTC-AGAGCCAATTTCAACTTCACAG-CGAAGGATATTGG
2728325 ACTC
1 ACTC
2728329 GGAACAATAC
Statistics
Matches: 967, Mismatches: 81, Indels: 19
0.91 0.08 0.02
Matches are distributed among these distances:
100 77 0.08
101 5 0.01
102 6 0.01
104 5 0.01
105 55 0.06
106 819 0.85
ACGTcount: A:0.33, C:0.25, G:0.19, T:0.23
Consensus pattern (106 bp):
ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAATTTCCC
AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
Found at i:2729110 original size:37 final size:37
Alignment explanation
Indices: 2729057--2729161 Score: 156
Period size: 37 Copynumber: 2.8 Consensus size: 37
2729047 CCTTTTCGTC
*
2729057 CTACTAGGATTCAAACTCATAAAAATAGGATAGAATT
1 CTACTAGGATTCAAACTCCTAAAAATAGGATAGAATT
* * *
2729094 TTGCTAGGATTCAAACTCCTAAAAATAGGATAGAGTT
1 CTACTAGGATTCAAACTCCTAAAAATAGGATAGAATT
* *
2729131 CTACTATGATTCAAACTCCTAAAGATAGGAT
1 CTACTAGGATTCAAACTCCTAAAAATAGGAT
2729162 CCACAAGCAC
Statistics
Matches: 60, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 60 1.00
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.29
Consensus pattern (37 bp):
CTACTAGGATTCAAACTCCTAAAAATAGGATAGAATT
Found at i:2729713 original size:19 final size:19
Alignment explanation
Indices: 2729634--2729722 Score: 56
Period size: 20 Copynumber: 4.4 Consensus size: 19
2729624 TTTTTTACAC
*
2729634 TATATA-TTATTATATATACA
1 TATATATTTATTAT-T-TATA
*
2729654 TATATATTT-TTATTTATT
1 TATATATTTATTATTTATA
* *
2729672 TATATTCATTTGGTTATTTTTTAA
1 TATA-T-ATTT-ATTA-TTTAT-A
2729696 TACTATATTTATTATTTATA
1 TA-TATATTTATTATTTATA
2729716 TATATAT
1 TATATAT
2729723 ATATACTTTT
Statistics
Matches: 55, Mismatches: 6, Indels: 17
0.71 0.08 0.22
Matches are distributed among these distances:
18 6 0.11
19 7 0.13
20 17 0.31
21 6 0.11
22 6 0.11
23 8 0.15
24 3 0.05
25 2 0.04
ACGTcount: A:0.34, C:0.03, G:0.02, T:0.61
Consensus pattern (19 bp):
TATATATTTATTATTTATA
Found at i:2729911 original size:29 final size:28
Alignment explanation
Indices: 2729878--2729943 Score: 78
Period size: 29 Copynumber: 2.3 Consensus size: 28
2729868 ATATGTATAC
2729878 TTTTATATTTGGTTTATATATTTATTTA
1 TTTTATATTTGGTTTATATATTTATTTA
* * * *
2729906 TTTTTATTTTTGGTTTTTTTATTTGTTTA
1 -TTTTATATTTGGTTTATATATTTATTTA
*
2729935 TATTATATT
1 TTTTATATT
2729944 ATATTTTCAT
Statistics
Matches: 31, Mismatches: 6, Indels: 1
0.82 0.16 0.03
Matches are distributed among these distances:
28 7 0.23
29 24 0.77
ACGTcount: A:0.20, C:0.00, G:0.08, T:0.73
Consensus pattern (28 bp):
TTTTATATTTGGTTTATATATTTATTTA
Found at i:2730033 original size:4 final size:4
Alignment explanation
Indices: 2729998--2730076 Score: 59
Period size: 4 Copynumber: 19.0 Consensus size: 4
2729988 TATTTTACTC
* * * * *
2729998 ATTT ATAT ATAT ATAT ATAT ATATT ATAT ATTT ATTT ATTT ATTT ATTT
1 ATTT ATTT ATTT ATTT ATTT AT-TT ATTT ATTT ATTT ATTT ATTT ATTT
* * *
2730047 ATTTT TTTT ATTTT ATTT TTTT ACTT ATTT
1 A-TTT ATTT A-TTT ATTT ATTT ATTT ATTT
2730077 TATTCTTCAT
Statistics
Matches: 62, Mismatches: 10, Indels: 6
0.79 0.13 0.08
Matches are distributed among these distances:
4 52 0.84
5 10 0.16
ACGTcount: A:0.29, C:0.01, G:0.00, T:0.70
Consensus pattern (4 bp):
ATTT
Found at i:2730077 original size:12 final size:12
Alignment explanation
Indices: 2730028--2730099 Score: 72
Period size: 12 Copynumber: 5.8 Consensus size: 12
2730018 ATATTATATA
*
2730028 TTTATTTATTTA
1 TTTATTTATTTT
2730040 TTTATTTATTTTT
1 TTTATTTA-TTTT
2730053 TTTATTTTATTTT
1 TTTA-TTTATTTT
*
2730066 TTTACTTATTTT
1 TTTATTTATTTT
* * *
2730078 ATTCTTCATTTT
1 TTTATTTATTTT
*
2730090 TTCATTTATT
1 TTTATTTATT
2730100 CATTTTTTCC
Statistics
Matches: 48, Mismatches: 10, Indels: 4
0.77 0.16 0.06
Matches are distributed among these distances:
12 29 0.60
13 15 0.31
14 4 0.08
ACGTcount: A:0.18, C:0.06, G:0.00, T:0.76
Consensus pattern (12 bp):
TTTATTTATTTT
Found at i:2734843 original size:15 final size:15
Alignment explanation
Indices: 2734825--2734863 Score: 53
Period size: 15 Copynumber: 2.6 Consensus size: 15
2734815 GTAATTGGGC
2734825 TAATAGTAAT-TGTAA
1 TAATAGTAATAT-TAA
*
2734840 TAATAATAATATTAA
1 TAATAGTAATATTAA
2734855 TAATAGTAA
1 TAATAGTAA
2734864 CAATATGAGA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
15 20 0.95
16 1 0.05
ACGTcount: A:0.54, C:0.00, G:0.08, T:0.38
Consensus pattern (15 bp):
TAATAGTAATATTAA
Found at i:2735340 original size:17 final size:18
Alignment explanation
Indices: 2735270--2735367 Score: 66
Period size: 16 Copynumber: 5.7 Consensus size: 18
2735260 TAGTTTCCGG
*
2735270 AAATATT-TTATTTTTAT
1 AAATATTATTATTTTAAT
*
2735287 AAA-ATTATT-TATT-AT
1 AAATATTATTATTTTAAT
* * *
2735302 AAATATCA--AATATAAT
1 AAATATTATTATTTTAAT
*
2735318 AAATATTATTATTTTTA-
1 AAATATTATTATTTTAAT
*
2735335 AAATATTAGATTAATTTAAT
1 AAATATT--ATTATTTTAAT
2735355 AAATATTATTATT
1 AAATATTATTATT
2735368 AAAATATTTT
Statistics
Matches: 60, Mismatches: 12, Indels: 17
0.67 0.13 0.19
Matches are distributed among these distances:
15 6 0.10
16 18 0.30
17 12 0.20
18 9 0.15
19 8 0.13
20 7 0.12
ACGTcount: A:0.47, C:0.01, G:0.01, T:0.51
Consensus pattern (18 bp):
AAATATTATTATTTTAAT
Found at i:2735358 original size:20 final size:19
Alignment explanation
Indices: 2735314--2735362 Score: 57
Period size: 19 Copynumber: 2.6 Consensus size: 19
2735304 ATATCAAATA
*
2735314 TAATAAATATT-ATTATTT
1 TAATAAATATTAATTAATT
*
2735332 TTA-AAATATTAGATTAATT
1 TAATAAATATTA-ATTAATT
2735351 TAATAAATATTA
1 TAATAAATATTA
2735363 TTATTAAAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
17 7 0.28
18 2 0.08
19 8 0.32
20 8 0.32
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (19 bp):
TAATAAATATTAATTAATT
Found at i:2735402 original size:28 final size:28
Alignment explanation
Indices: 2735349--2735405 Score: 71
Period size: 28 Copynumber: 2.0 Consensus size: 28
2735339 ATTAGATTAA
* *
2735349 TTTAATAAATATTATTATTAAAATATTT
1 TTTAATAAATATTACTAATAAAATATTT
*
2735377 TTTAATAAAT-TTACTAATAAGTATATTT
1 TTTAATAAATATTACTAATAA-AATATTT
2735405 T
1 T
2735406 AAATATATTA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
27 8 0.32
28 17 0.68
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.53
Consensus pattern (28 bp):
TTTAATAAATATTACTAATAAAATATTT
Found at i:2735423 original size:16 final size:15
Alignment explanation
Indices: 2735407--2735449 Score: 68
Period size: 16 Copynumber: 2.8 Consensus size: 15
2735397 GTATATTTTA
2735407 AATATATTAATAATT
1 AATATATTAATAATT
2735422 AATATATTAATTAATT
1 AATATATTAA-TAATT
*
2735438 ATTATATTAATA
1 AATATATTAATA
2735450 TAAAAAATAT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
15 12 0.46
16 14 0.54
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (15 bp):
AATATATTAATAATT
Found at i:2735430 original size:8 final size:8
Alignment explanation
Indices: 2735407--2735451 Score: 58
Period size: 8 Copynumber: 5.8 Consensus size: 8
2735397 GTATATTTTA
2735407 AATATATT
1 AATATATT
2735415 AATA-ATT
1 AATATATT
2735422 AATATATT
1 AATATATT
2735430 AAT-TAATT
1 AATAT-ATT
*
2735438 ATTATATT
1 AATATATT
2735446 AATATA
1 AATATA
2735452 AAAAATATTA
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
7 8 0.25
8 23 0.72
9 1 0.03
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (8 bp):
AATATATT
Found at i:2735434 original size:12 final size:12
Alignment explanation
Indices: 2735417--2735451 Score: 54
Period size: 12 Copynumber: 2.9 Consensus size: 12
2735407 AATATATTAA
2735417 TAATTAATATAT
1 TAATTAATATAT
2735429 TAATTAAT-TAT
1 TAATTAATATAT
2735440 TATATTAATATA
1 TA-ATTAATATA
2735452 AAAAATATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
11 5 0.24
12 14 0.67
13 2 0.10
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (12 bp):
TAATTAATATAT
Found at i:2735502 original size:25 final size:25
Alignment explanation
Indices: 2735460--2735507 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
2735450 TAAAAAATAT
* *
2735460 TATTCTTTATAAATTATTTAATAAA
1 TATTCTTTATAAAATATTGAATAAA
2735485 TATT-TTTATGAAAATATTGAATA
1 TATTCTTTAT-AAAATATTGAATA
2735508 GTATTAATCA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 5 0.25
25 15 0.75
ACGTcount: A:0.44, C:0.02, G:0.04, T:0.50
Consensus pattern (25 bp):
TATTCTTTATAAAATATTGAATAAA
Found at i:2738426 original size:23 final size:23
Alignment explanation
Indices: 2738395--2738439 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
2738385 AATATATGGC
*
2738395 ACTTCGGTGCAAGCCTATGTGGA
1 ACTTCGGTGCAAACCTATGTGGA
* *
2738418 ACTTTGGTGCAAACTTATGTGG
1 ACTTCGGTGCAAACCTATGTGG
2738440 TCATTCGGGA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.22, C:0.18, G:0.29, T:0.31
Consensus pattern (23 bp):
ACTTCGGTGCAAACCTATGTGGA
Found at i:2745619 original size:14 final size:15
Alignment explanation
Indices: 2745600--2745636 Score: 51
Period size: 14 Copynumber: 2.6 Consensus size: 15
2745590 CCTTATTGCA
*
2745600 TTTGCATCTCGCA-T
1 TTTGCATCTCCCATT
2745614 TTTGCA-CTCCCATT
1 TTTGCATCTCCCATT
2745628 TTTGCATCT
1 TTTGCATCT
2745637 TTGCATTTGC
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
13 5 0.25
14 13 0.65
15 2 0.10
ACGTcount: A:0.14, C:0.30, G:0.11, T:0.46
Consensus pattern (15 bp):
TTTGCATCTCCCATT
Found at i:2748041 original size:39 final size:38
Alignment explanation
Indices: 2747995--2748305 Score: 282
Period size: 36 Copynumber: 8.3 Consensus size: 38
2747985 AATTATTTTG
* * *
2747995 CTTGAAACAGAAGATTTCGTCTCGCTTGAGATAGTTTCC
1 CTTGAAACA-AAGATTTTGTCTCCCTTGAGACAGTTTCC
* * * *
2748034 CTCGAAACAGAAGATTTTGTATCGCTTGAGATAGTTTCC
1 CTTGAAACA-AAGATTTTGTCTCCCTTGAGACAGTTTCC
* * * * * *
2748073 CTCGAAGCAAAAGATTTTATCTCGCTTGAGATAGTTT-G
1 CTTGAAAC-AAAGATTTTGTCTCCCTTGAGACAGTTTCC
* *
2748111 CTTCAAAACAAA-AGTTTTGTCTCCCTTGAGACAATTTCC
1 CTT-GAAACAAAGA-TTTTGTCTCCCTTGAGACAGTTTCC
* * *
2748150 CTTGTAAC-AA-ATTTTTTCTCCCTTAAGACAGTTTCC
1 CTTGAAACAAAGATTTTGTCTCCCTTGAGACAGTTTCC
*
2748186 CTTGAAAC--ACATTTTGTCTCCCTTGAGACAGTTTCC
1 CTTGAAACAAAGATTTTGTCTCCCTTGAGACAGTTTCC
* * * *
2748222 CTTGAAAC-AA-ATTTTGTCTCCCTTTAGATAATTTCT
1 CTTGAAACAAAGATTTTGTCTCCCTTGAGACAGTTTCC
*
2748258 CTTGAAACAAAG-TTTTAGT-TCTCTTGAGACAGTTTCC
1 CTTGAAACAAAGATTTT-GTCTCCCTTGAGACAGTTTCC
2748295 CTTGAAACAAA
1 CTTGAAACAAA
2748306 ATCTTTGAAT
Statistics
Matches: 231, Mismatches: 32, Indels: 20
0.82 0.11 0.07
Matches are distributed among these distances:
35 1 0.00
36 91 0.39
37 35 0.15
38 29 0.13
39 74 0.32
40 1 0.00
ACGTcount: A:0.28, C:0.21, G:0.15, T:0.36
Consensus pattern (38 bp):
CTTGAAACAAAGATTTTGTCTCCCTTGAGACAGTTTCC
Found at i:2748245 original size:21 final size:20
Alignment explanation
Indices: 2748183--2748245 Score: 55
Period size: 21 Copynumber: 3.3 Consensus size: 20
2748173 TAAGACAGTT
2748183 TCCCTTGAAACACATTTTGTC
1 TCCCTTGAAACA-ATTTTGTC
* *
2748204 TCCCTTGAGAC-A----GTT
1 TCCCTTGAAACAATTTTGTC
2748219 TCCCTTGAAACAAATTTTGTC
1 TCCCTTGAAAC-AATTTTGTC
2748240 TCCCTT
1 TCCCTT
2748246 TAGATAATTT
Statistics
Matches: 32, Mismatches: 4, Indels: 12
0.67 0.08 0.25
Matches are distributed among these distances:
15 12 0.38
17 1 0.03
19 1 0.03
21 18 0.56
ACGTcount: A:0.22, C:0.29, G:0.11, T:0.38
Consensus pattern (20 bp):
TCCCTTGAAACAATTTTGTC
Found at i:2749060 original size:133 final size:133
Alignment explanation
Indices: 2748777--2749270 Score: 724
Period size: 133 Copynumber: 3.7 Consensus size: 133
2748767 AAGAGATTGT
* * * * *
2748777 TCAACTTTT-TCTTGATTCTATCACAAAATGAGGTAGAACATCACCAACATCTCGTTCGATTCCA
1 TCAACTTTTAGCTTGATTCTATCACAGAAGGAGGTAGATCAGCACCAACATCTCGTTCGATTCCA
* *
2748841 TCACAGAA-AAAGGTGGATCGACA-TTTTATTTTCGCTCAAATCCATCGCAGAAGGAGTTGGATA
66 TCACAGAAGGAA-GTGGATCGACATTTTTATTTTCGCTCAAATCCATCGCAGAAGGAGTTGGATC
2748904 AGCG
130 AGCG
* * * * *
2748908 TCAACTTTTAGATCGATTCTATCACAGAAGGAGGTAGATCAACACTAATATCTCGTTCGATTCCA
1 TCAACTTTTAGCTTGATTCTATCACAGAAGGAGGTAGATCAGCACCAACATCTCGTTCGATTCCA
* * ** *
2748973 TCATAGAAGGAAGTGGATCGATATTTTTATTTTCGCTCAAATCCATCATAAAAGGAGTTGGATCA
66 TCACAGAAGGAAGTGGATCGACATTTTTATTTTCGCTCAAATCCATCGCAGAAGGAGTTGGATCA
2749038 GCG
131 GCG
* *
2749041 TCAACTTTTAGCTTAATTCTATCACAGAAGGAGGTAGATCAGCACCGACATCTCGTTCGATTCCA
1 TCAACTTTTAGCTTGATTCTATCACAGAAGGAGGTAGATCAGCACCAACATCTCGTTCGATTCCA
* *
2749106 TCACAGAATGAGGTGGATCGACATTTTTATTTTCGCTCAAATCCATCGCAGAAGGAGTTGGATCA
66 TCACAGAAGGAAGTGGATCGACATTTTTATTTTCGCTCAAATCCATCGCAGAAGGAGTTGGATCA
2749171 GCG
131 GCG
*
2749174 TCAACTTTTAGCTTGATTCTATCACAGAAGGAGGTAGATCAGCACCTACATCTCGTTCGATTCCA
1 TCAACTTTTAGCTTGATTCTATCACAGAAGGAGGTAGATCAGCACCAACATCTCGTTCGATTCCA
* * * *
2749239 TCATAGAAGGAGGTGGATCGACGTTTTCATTT
66 TCACAGAAGGAAGTGGATCGACATTTTTATTT
2749271 CACACATCTC
Statistics
Matches: 324, Mismatches: 36, Indels: 4
0.89 0.10 0.01
Matches are distributed among these distances:
131 9 0.03
132 63 0.19
133 252 0.78
ACGTcount: A:0.30, C:0.20, G:0.19, T:0.30
Consensus pattern (133 bp):
TCAACTTTTAGCTTGATTCTATCACAGAAGGAGGTAGATCAGCACCAACATCTCGTTCGATTCCA
TCACAGAAGGAAGTGGATCGACATTTTTATTTTCGCTCAAATCCATCGCAGAAGGAGTTGGATCA
GCG
Found at i:2749073 original size:44 final size:44
Alignment explanation
Indices: 2749014--2749216 Score: 133
Period size: 44 Copynumber: 4.6 Consensus size: 44
2749004 TTCGCTCAAA
* * *
2749014 TCCATCATAAAAGGAGTTGGATCAGCGTCAACTTTTAGCTTAAT
1 TCCATCACAGAAGGAGGTGGATCAGCGTCAACTTTTAGCTTAAT
* * ** * * * * *
2749058 TCTATCACAGAAGGAGGTAGATCAGCACCGACATCTCG-TTCGAT
1 TCCATCACAGAAGGAGGTGGATCAGCGTCAACTTTTAGCTT-AAT
* * ** * * *
2749102 TCCATCACAGAATGAGGTGGATC-GACATTTTTA-TTTTCGCTCAAA
1 TCCATCACAGAAGGAGGTGGATCAG-C--GTCAACTTTTAGCTTAAT
* * *
2749147 TCCATCGCAGAAGGAGTTGGATCAGCGTCAACTTTTAGCTTGAT
1 TCCATCACAGAAGGAGGTGGATCAGCGTCAACTTTTAGCTTAAT
* *
2749191 TCTATCACAGAAGGAGGTAGATCAGC
1 TCCATCACAGAAGGAGGTGGATCAGC
2749217 ACCTACATCT
Statistics
Matches: 114, Mismatches: 38, Indels: 14
0.69 0.23 0.08
Matches are distributed among these distances:
43 5 0.04
44 80 0.70
45 26 0.23
46 3 0.03
ACGTcount: A:0.30, C:0.21, G:0.22, T:0.28
Consensus pattern (44 bp):
TCCATCACAGAAGGAGGTGGATCAGCGTCAACTTTTAGCTTAAT
Found at i:2749236 original size:44 final size:44
Alignment explanation
Indices: 2749056--2749257 Score: 156
Period size: 44 Copynumber: 4.6 Consensus size: 44
2749046 TTTTAGCTTA
* * *
2749056 ATTCTATCACAGAAGGAGGTAGATCAGCACCGACATCTCGTTCG
1 ATTCCATCACAGAAGGAGGTGGATCAGCACCTACATCTCGTTCG
* ** ** * * *
2749100 ATTCCATCACAGAATGAGGTGGATC-GACATTTTTATTTTCGCTCA
1 ATTCCATCACAGAAGGAGGTGGATCAG-CACCTACA-TCTCGTTCG
* * * ** * * * *
2749145 AATCCATCGCAGAAGGAGTTGGATCAGCGTCAACTTTTAGCTT-G
1 ATTCCATCACAGAAGGAGGTGGATCAGCACCTACATCTCG-TTCG
* *
2749189 ATTCTATCACAGAAGGAGGTAGATCAGCACCTACATCTCGTTCG
1 ATTCCATCACAGAAGGAGGTGGATCAGCACCTACATCTCGTTCG
*
2749233 ATTCCATCATAGAAGGAGGTGGATC
1 ATTCCATCACAGAAGGAGGTGGATC
2749258 GACGTTTTCA
Statistics
Matches: 115, Mismatches: 38, Indels: 10
0.71 0.23 0.06
Matches are distributed among these distances:
43 3 0.03
44 81 0.70
45 30 0.26
46 1 0.01
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.27
Consensus pattern (44 bp):
ATTCCATCACAGAAGGAGGTGGATCAGCACCTACATCTCGTTCG
Found at i:2757207 original size:21 final size:21
Alignment explanation
Indices: 2757183--2757233 Score: 84
Period size: 21 Copynumber: 2.4 Consensus size: 21
2757173 CGATTATTGA
*
2757183 AATGTGAACTTTGAATAAGTG
1 AATGTGAACTTTGAACAAGTG
*
2757204 AATGTGAACTTTGAACCAGTG
1 AATGTGAACTTTGAACAAGTG
2757225 AATGTGAAC
1 AATGTGAAC
2757234 AAACTCTATG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.37, C:0.10, G:0.24, T:0.29
Consensus pattern (21 bp):
AATGTGAACTTTGAACAAGTG
Found at i:2757408 original size:21 final size:21
Alignment explanation
Indices: 2757376--2757432 Score: 53
Period size: 23 Copynumber: 2.6 Consensus size: 21
2757366 TTATGTGGTC
2757376 CTTCGG-GACAAATATGTAGCA
1 CTTCGGTG-CAAATATGTAGCA
* *
2757397 CTTCGGTGCAAACCTATGTGGCG
1 CTTCGGTGCAAA--TATGTAGCA
*
2757420 CTTCAGTGCAAAT
1 CTTCGGTGCAAAT
2757433 TACTAGCTGT
Statistics
Matches: 30, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
21 11 0.37
22 1 0.03
23 18 0.60
ACGTcount: A:0.26, C:0.23, G:0.25, T:0.26
Consensus pattern (21 bp):
CTTCGGTGCAAATATGTAGCA
Found at i:2757423 original size:23 final size:23
Alignment explanation
Indices: 2757388--2757431 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
2757378 TCGGGACAAA
*
2757388 TATGTAGCACTTCGGTGCAAACC
1 TATGTAGCACTTCAGTGCAAACC
* *
2757411 TATGTGGCGCTTCAGTGCAAA
1 TATGTAGCACTTCAGTGCAAA
2757432 TTACTAGCTG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.25, C:0.23, G:0.25, T:0.27
Consensus pattern (23 bp):
TATGTAGCACTTCAGTGCAAACC
Found at i:2762313 original size:22 final size:22
Alignment explanation
Indices: 2762270--2762313 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
2762260 GCATTTTGCA
* *
2762270 TTTGCATAAGCATATTTGCATC
1 TTTGCATAAGCATATATACATC
* *
2762292 TTTGCATTAGCATCTATACATC
1 TTTGCATAAGCATATATACATC
2762314 GTACATTACA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.27, C:0.20, G:0.11, T:0.41
Consensus pattern (22 bp):
TTTGCATAAGCATATATACATC
Found at i:2763696 original size:25 final size:24
Alignment explanation
Indices: 2763668--2763743 Score: 84
Period size: 25 Copynumber: 3.1 Consensus size: 24
2763658 ACACAAAAGG
2763668 AAAGTAAAAAAAGAAAAACAGAGAA
1 AAAGTAAAAAAAGAAAAA-AGAGAA
*
2763693 AAAGTGAAAAAAGAAAAAAG-GAA
1 AAAGTAAAAAAAGAAAAAAGAGAA
* *
2763716 AGAG-AAAATAGAAGAAAAAAAAGAA
1 AAAGTAAAA-A-AAGAAAAAAGAGAA
2763741 AAA
1 AAA
2763744 AGAATAAGAA
Statistics
Matches: 43, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
22 3 0.07
23 7 0.16
24 11 0.26
25 22 0.51
ACGTcount: A:0.76, C:0.01, G:0.18, T:0.04
Consensus pattern (24 bp):
AAAGTAAAAAAAGAAAAAAGAGAA
Found at i:2763708 original size:7 final size:7
Alignment explanation
Indices: 2763674--2763758 Score: 66
Period size: 7 Copynumber: 11.6 Consensus size: 7
2763664 AAGGAAAGTA
2763674 AAAAAAG
1 AAAAAAG
2763681 AAAAACAG
1 AAAAA-AG
2763689 AGAAAAAGTG
1 A-AAAAA--G
2763699 AAAAAAG
1 AAAAAAG
2763706 AAAAAAG
1 AAAAAAG
* *
2763713 GAAAGAG
1 AAAAAAG
*
2763720 AAAATAG
1 AAAAAAG
*
2763727 -AAGAA-
1 AAAAAAG
2763732 AAAAAAG
1 AAAAAAG
2763739 AAAAAAG
1 AAAAAAG
2763746 AATAAGAAG
1 AA-AA-AAG
2763755 AAAA
1 AAAA
2763759 TAGACAGATC
Statistics
Matches: 63, Mismatches: 7, Indels: 15
0.74 0.08 0.18
Matches are distributed among these distances:
6 7 0.11
7 32 0.51
8 8 0.13
9 14 0.22
10 2 0.03
ACGTcount: A:0.76, C:0.01, G:0.19, T:0.04
Consensus pattern (7 bp):
AAAAAAG
Found at i:2763753 original size:25 final size:26
Alignment explanation
Indices: 2763706--2763758 Score: 72
Period size: 26 Copynumber: 2.1 Consensus size: 26
2763696 GTGAAAAAAG
* *
2763706 AAAAAAGGAAAGAGAAAATAGAAGAA
1 AAAAAAGAAAAAAGAAAATAGAAGAA
*
2763732 AAAAAAGAAAAAAGAATA-AGAAGAA
1 AAAAAAGAAAAAAGAAAATAGAAGAA
2763757 AA
1 AA
2763759 TAGACAGATC
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
25 9 0.38
26 15 0.62
ACGTcount: A:0.77, C:0.00, G:0.19, T:0.04
Consensus pattern (26 bp):
AAAAAAGAAAAAAGAAAATAGAAGAA
Found at i:2765828 original size:54 final size:54
Alignment explanation
Indices: 2765701--2766119 Score: 374
Period size: 54 Copynumber: 7.8 Consensus size: 54
2765691 ATTTTTTATT
* * *
2765701 AGTTTTTAAAGAAACTAATTCTGATTTTCAGAAGTTTCATGATGATTTTCAAATG
1 AGTTTTTAAAGAAACTAAGTCTGATTTTCAGAAGTTTCTTGATGA-TTTCAAATA
*
2765756 AGTTTTTAAAGAAACTAAGTCTGGTTTTCAGAAGTTTCTTGATGATTTCAAATA
1 AGTTTTTAAAGAAACTAAGTCTGATTTTCAGAAGTTTCTTGATGATTTCAAATA
* * *
2765810 AGTTTTCAATGAAACTAAGTCTGATTTTCAGAAGTTTCATGATGATTTCAAATA
1 AGTTTTTAAAGAAACTAAGTCTGATTTTCAGAAGTTTCTTGATGATTTCAAATA
* * * *
2765864 AGTTTTTAAAGAAACTAAGTCTGATTTTTAGAAGTTTCTTAACGTTTTTCAAAT-
1 AGTTTTTAAAGAAACTAAGTCTGATTTTCAGAAGTTTCTTGATG-ATTTCAAATA
* **
2765918 -GTGTTTTAAAGAAACTAAGTCTGATTTTCGGAAGTTTCTTGATTTTTCTCAAATTA
1 AGT-TTTTAAAGAAACTAAGTCTGATTTTCAGAAGTTTCTTGATGATT-TCAAA-TA
* * * * * * *
2765974 ACG--TTCAAAGAAATTAAGCCTAATTTTTAG-GGATTTCTTGATGTTTTCAAATGA
1 A-GTTTTTAAAGAAACTAAGTCTGATTTTCAGAAG-TTTCTTGATGATTTCAAAT-A
* * * ** * **
2766028 A-TTTTCAAAGAAATTAAG-CATGGTTTTCAGGGGTGTCTTGATTTTTTCAAAT-
1 AGTTTTTAAAGAAACTAAGTC-TGATTTTCAGAAGTTTCTTGATGATTTCAAATA
* * * **
2766080 --TTTTGAAAGAAACTAAGCCTAATTTT-AGGGGTTTCTTGAT
1 AGTTTTTAAAGAAACTAAGTCTGATTTTCAGAAGTTTCTTGAT
2766120 AACTGTAAAT
Statistics
Matches: 312, Mismatches: 38, Indels: 33
0.81 0.10 0.09
Matches are distributed among these distances:
50 13 0.04
51 20 0.06
52 1 0.00
53 7 0.02
54 184 0.59
55 86 0.28
58 1 0.00
ACGTcount: A:0.32, C:0.10, G:0.16, T:0.42
Consensus pattern (54 bp):
AGTTTTTAAAGAAACTAAGTCTGATTTTCAGAAGTTTCTTGATGATTTCAAATA
Found at i:2766026 original size:108 final size:107
Alignment explanation
Indices: 2765701--2766119 Score: 388
Period size: 109 Copynumber: 3.9 Consensus size: 107
2765691 ATTTTTTATT
* * * *
2765701 AGTTTTTAAAGAAACTAATTCTGATTTTCAGAAGTTTCATGATGATTTTCAAA-TGAGTTTTTAA
1 AGTTTTCAAAGAAACTAAGTCTGATTTTCAGAAGTTTCATGAT-TTTTTCAAATTAAG--TTTAA
* ** * * *
2765765 AGAAACTAAGTCTGGTTTTCAGAAGTTTCTTGATGATTTCAAATA
63 AGAAACTAAGCCTAATTTTTAGAAGTTTCTTGATGTTTTCAAATG
* **
2765810 AGTTTTCAATGAAACTAAGTCTGATTTTCAGAAGTTTCATGATGATTTCAAA-TAAGTTTTTAAA
1 AGTTTTCAAAGAAACTAAGTCTGATTTTCAGAAGTTTCATGATTTTTTCAAATTAAG--TTTAAA
* * * *
2765874 GAAACTAAGTCTGATTTTTAGAAGTTTCTTAACGTTTTTCAAATG
64 GAAACTAAGCCTAATTTTTAGAAGTTTCTTGATG-TTTTCAAATG
* * * *
2765919 TGTTTT-AAAGAAACTAAGTCTGATTTTCGGAAGTTTCTTGATTTTTCTCAAATTAACGTTCAAA
1 AGTTTTCAAAGAAACTAAGTCTGATTTTCAGAAGTTTCATGATTTTT-TCAAATTAA-GTTTAAA
* *
2765983 GAAATTAAGCCTAATTTTTAG-GGATTTCTTGATGTTTTCAAATG
64 GAAACTAAGCCTAATTTTTAGAAG-TTTCTTGATGTTTTCAAATG
* * * ** * *
2766027 AATTTTCAAAGAAATTAAG-CATGGTTTTCAGGGGTGTCTTGATTTTTTCAAATT---TTTGAAA
1 AGTTTTCAAAGAAACTAAGTC-TGATTTTCAGAAGTTTCATGATTTTTTCAAATTAAGTTT-AAA
**
2766088 GAAACTAAGCCTAA-TTTTAGGGGTTTCTTGAT
64 GAAACTAAGCCTAATTTTTAGAAGTTTCTTGAT
2766120 AACTGTAAAT
Statistics
Matches: 266, Mismatches: 35, Indels: 23
0.82 0.11 0.07
Matches are distributed among these distances:
104 17 0.06
105 18 0.07
108 106 0.40
109 121 0.45
110 3 0.01
111 1 0.00
ACGTcount: A:0.32, C:0.10, G:0.16, T:0.42
Consensus pattern (107 bp):
AGTTTTCAAAGAAACTAAGTCTGATTTTCAGAAGTTTCATGATTTTTTCAAATTAAGTTTAAAGA
AACTAAGCCTAATTTTTAGAAGTTTCTTGATGTTTTCAAATG
Done.