Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009636.1 Hibiscus syriacus cultivar Beakdansim tig00117040_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: 700957
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.32
File 4 of 4
Found at i:537418 original size:27 final size:28
Alignment explanation
Indices: 537344--537431 Score: 98
Period size: 27 Copynumber: 3.4 Consensus size: 28
537334 GTTCGTTTAT
*
537344 GTTCATTTATT-GTGTTCGTTT--A--C
1 GTTCGTTTATTAGTGTTCGTTTACATCC
* *
537367 GTTTGTTCATTAGTGTTCGTTTACATCC
1 GTTCGTTTATTAGTGTTCGTTTACATCC
*
537395 GTTCGTTTATTA-TGTTTGTTTACATCC
1 GTTCGTTTATTAGTGTTCGTTTACATCC
537422 GTTCGTTTAT
1 GTTCGTTTAT
537432 GTTCATTCAT
Statistics
Matches: 54, Mismatches: 6, Indels: 6
0.82 0.09 0.09
Matches are distributed among these distances:
23 8 0.15
24 10 0.19
26 1 0.02
27 24 0.44
28 11 0.20
ACGTcount: A:0.14, C:0.15, G:0.17, T:0.55
Consensus pattern (28 bp):
GTTCGTTTATTAGTGTTCGTTTACATCC
Found at i:537478 original size:10 final size:10
Alignment explanation
Indices: 537463--537488 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
537453 TATCATTTAA
537463 ATGAACGAAC
1 ATGAACGAAC
537473 ATGAACGAAC
1 ATGAACGAAC
537483 ATGAAC
1 ATGAAC
537489 AAGCTACATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.50, C:0.19, G:0.19, T:0.12
Consensus pattern (10 bp):
ATGAACGAAC
Found at i:537512 original size:31 final size:31
Alignment explanation
Indices: 537475--537553 Score: 140
Period size: 31 Copynumber: 2.5 Consensus size: 31
537465 GAACGAACAT
*
537475 GAACGAACATGAACAAGCTACATTCCTTAAC
1 GAACGAACACGAACAAGCTACATTCCTTAAC
537506 GAACGAACACGAACAAGCTACATTCCTTAAC
1 GAACGAACACGAACAAGCTACATTCCTTAAC
*
537537 GAACGAACACAAACAAG
1 GAACGAACACGAACAAG
537554 AAATTTTTTT
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
31 46 1.00
ACGTcount: A:0.46, C:0.27, G:0.14, T:0.14
Consensus pattern (31 bp):
GAACGAACACGAACAAGCTACATTCCTTAAC
Found at i:543330 original size:2 final size:2
Alignment explanation
Indices: 543323--543347 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
543313 ATCATGGACC
543323 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
543348 TGGAAAGATA
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:546256 original size:20 final size:20
Alignment explanation
Indices: 546231--546310 Score: 79
Period size: 20 Copynumber: 3.7 Consensus size: 20
546221 TTCATTTATG
546231 GCATCCTTTCATGCCTTAAT
1 GCATCCTTTCATGCCTTAAT
* *
546251 GCATCCTTTCATTCATTTCATTTAT
1 GCATCCTTTCATGC----C-TTAAT
*
546276 GGCATTCTTTCATGCCTTAAT
1 -GCATCCTTTCATGCCTTAAT
546297 GCATCCTTTCATGC
1 GCATCCTTTCATGC
546311 ATTTCATTTA
Statistics
Matches: 48, Mismatches: 6, Indels: 12
0.73 0.09 0.18
Matches are distributed among these distances:
20 26 0.54
21 4 0.08
22 1 0.02
24 1 0.02
25 4 0.08
26 12 0.25
ACGTcount: A:0.19, C:0.28, G:0.10, T:0.44
Consensus pattern (20 bp):
GCATCCTTTCATGCCTTAAT
Found at i:546286 original size:46 final size:46
Alignment explanation
Indices: 546219--546327 Score: 193
Period size: 46 Copynumber: 2.4 Consensus size: 46
546209 TTATTCGTTA
* *
546219 ATTTCATTTATGGCATCCTTTCATGCCTTAATGCATCCTTTCATTC
1 ATTTCATTTATGGCATTCTTTCATGCCTTAATGCATCCTTTCATGC
546265 ATTTCATTTATGGCATTCTTTCATGCCTTAATGCATCCTTTCATGC
1 ATTTCATTTATGGCATTCTTTCATGCCTTAATGCATCCTTTCATGC
546311 ATTTCATTTATGG-ATTC
1 ATTTCATTTATGGCATTC
546328 GTTTTAGAGC
Statistics
Matches: 61, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
45 4 0.07
46 57 0.93
ACGTcount: A:0.20, C:0.23, G:0.10, T:0.47
Consensus pattern (46 bp):
ATTTCATTTATGGCATTCTTTCATGCCTTAATGCATCCTTTCATGC
Found at i:546830 original size:41 final size:41
Alignment explanation
Indices: 546747--546838 Score: 116
Period size: 41 Copynumber: 2.2 Consensus size: 41
546737 CCCTACATTG
* * *
546747 GTATTGATACTATATACTATGGTACCGATAACTTTCTCTCA
1 GTATCGATACTATACACTATGGTACCGATAACTTCCTCTCA
*
546788 GTATCGATACTACTACACTATGGTACCGAT-AC-TCCATTTCA
1 GTATCGATACTA-TACACTATGGTACCGATAACTTCC-TCTCA
546829 GTATCGATAC
1 GTATCGATAC
546839 CCTTTTAACA
Statistics
Matches: 45, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
40 2 0.04
41 27 0.60
42 16 0.36
ACGTcount: A:0.29, C:0.23, G:0.13, T:0.35
Consensus pattern (41 bp):
GTATCGATACTATACACTATGGTACCGATAACTTCCTCTCA
Found at i:551343 original size:26 final size:26
Alignment explanation
Indices: 551312--551574 Score: 156
Period size: 26 Copynumber: 10.0 Consensus size: 26
551302 ATCCATTAAT
551312 GCATCCTTTCATGCATTTCATTTATG
1 GCATCCTTTCATGCATTTCATTTATG
551338 GCATCCTTTCATGCATTTCATTTATG
1 GCATCCTTTCATGCATTTCATTTATG
* *
551364 GCATCCTTTCAT--A---CCTTAAT-
1 GCATCCTTTCATGCATTTCATTTATG
* *
551384 GCATACTTTCATTCATTTCATTTATG
1 GCATCCTTTCATGCATTTCATTTATG
* * *
551410 GCATCCTTTCATTCCGTAATGTATCATTTCTT
1 GCATCCTTTCA-T--G-CAT-T-TCATTTATG
* **
551442 GCATTTCATTT-ATGACATCCTTTCATGCCTTAAT
1 GCA--TCCTTTCATG-CA---TTTCAT---TTATG
*
551476 GCATCATTTCATGCATTTCATTTATG
1 GCATCCTTTCATGCATTTCATTTATG
* *
551502 GCATCCTTTTATGC----C-TTAAT-
1 GCATCCTTTCATGCATTTCATTTATG
* *
551522 GCATCATTTCATGTATTTCATTTATG
1 GCATCCTTTCATGCATTTCATTTATG
*
551548 GCATCCTTTCATGCGTTTCATTTATG
1 GCATCCTTTCATGCATTTCATTTATG
551574 G
1 G
551575 AATCGTTTTA
Statistics
Matches: 183, Mismatches: 27, Indels: 54
0.69 0.10 0.20
Matches are distributed among these distances:
20 22 0.12
21 9 0.05
22 2 0.01
24 2 0.01
25 9 0.05
26 87 0.48
27 1 0.01
29 6 0.03
30 4 0.02
31 5 0.03
32 20 0.11
33 5 0.03
34 11 0.06
ACGTcount: A:0.21, C:0.22, G:0.11, T:0.46
Consensus pattern (26 bp):
GCATCCTTTCATGCATTTCATTTATG
Found at i:551393 original size:46 final size:46
Alignment explanation
Indices: 551338--551561 Score: 342
Period size: 46 Copynumber: 4.9 Consensus size: 46
551328 TTCATTTATG
* *
551338 GCATCCTTTCATGCATTTCATTTATGGCATCCTTTCATACCTTAAT
1 GCATCATTTCATGCATTTCATTTATGGCATCCTTTCATGCCTTAAT
* * *
551384 GCAT-ACTTTCATTCATTTCATTTATGGCATCCTTTCATTCCGTAAT
1 GCATCA-TTTCATGCATTTCATTTATGGCATCCTTTCATGCCTTAAT
* * *
551430 GTATCATTTCTTGCATTTCATTTATGACATCCTTTCATGCCTTAAT
1 GCATCATTTCATGCATTTCATTTATGGCATCCTTTCATGCCTTAAT
*
551476 GCATCATTTCATGCATTTCATTTATGGCATCCTTTTATGCCTTAAT
1 GCATCATTTCATGCATTTCATTTATGGCATCCTTTCATGCCTTAAT
*
551522 GCATCATTTCATGTATTTCATTTATGGCATCCTTTCATGC
1 GCATCATTTCATGCATTTCATTTATGGCATCCTTTCATGC
551562 GTTTCATTTA
Statistics
Matches: 160, Mismatches: 16, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
46 159 0.99
47 1 0.01
ACGTcount: A:0.21, C:0.23, G:0.10, T:0.46
Consensus pattern (46 bp):
GCATCATTTCATGCATTTCATTTATGGCATCCTTTCATGCCTTAAT
Found at i:551401 original size:72 final size:71
Alignment explanation
Indices: 551280--551574 Score: 299
Period size: 72 Copynumber: 4.2 Consensus size: 71
551270 TTATTCGTCA
* *
551280 ATTTCGTTTATGGCATCTTTTCATCCATTAATGCATCCTTTCATGCATTTCATTTATGGCATCCT
1 ATTTCATTTATGGCATCCTTTCATCC-TTAATGCATCCTTTCATGCATTTCATTTATGGCATCCT
551345 TTCATGC
65 TTCATGC
* *
551352 ATTTCATTTATGGCATCCTTTCATACCTTAATGCATACTTTCATTCATTTCATTTATGGCATCCT
1 ATTTCATTTATGGCATCCTTTCAT-CCTTAATGCATCCTTTCATGCATTTCATTTATGGCATCCT
*
551417 TTCATTCCGTA
65 TTCA-T--G-C
* * *
551428 ATGTATCATTTCTTGCA---TTTCAT--TT-ATGACATCCTTTCATGC----C-TTAAT-GCATC
1 AT-T-TCATTTATGGCATCCTTTCATCCTTAATG-CATCCTTTCATGCATTTCATTTATGGCATC
*
551481 ATTTCATGC
63 CTTTCATGC
* * *
551490 ATTTCATTTATGGCATCCTTTTATGCCTTAATGCATCATTTCATGTATTTCATTTATGGCATCCT
1 ATTTCATTTATGGCATCCTTTCAT-CCTTAATGCATCCTTTCATGCATTTCATTTATGGCATCCT
551555 TTCATGC
65 TTCATGC
*
551562 GTTTCATTTATGG
1 ATTTCATTTATGG
551575 AATCGTTTTA
Statistics
Matches: 182, Mismatches: 20, Indels: 42
0.75 0.08 0.17
Matches are distributed among these distances:
60 10 0.05
61 1 0.01
62 2 0.01
63 6 0.03
65 1 0.01
66 23 0.13
67 7 0.04
68 1 0.01
70 1 0.01
71 7 0.04
72 100 0.55
73 3 0.02
75 7 0.04
76 2 0.01
77 1 0.01
78 10 0.05
ACGTcount: A:0.21, C:0.22, G:0.11, T:0.46
Consensus pattern (71 bp):
ATTTCATTTATGGCATCCTTTCATCCTTAATGCATCCTTTCATGCATTTCATTTATGGCATCCTT
TCATGC
Found at i:551485 original size:20 final size:20
Alignment explanation
Indices: 551457--551534 Score: 66
Period size: 20 Copynumber: 3.6 Consensus size: 20
551447 TCATTTATGA
*
551457 CATCCTTTCATGCCTTAATG
1 CATCATTTCATGCCTTAATG
*
551477 CATCATTTCATGCATTTCATTTATGG
1 CATCATTTCATGC----C-TTAAT-G
* *
551503 CATCCTTTTATGCCTTAATG
1 CATCATTTCATGCCTTAATG
551523 CATCATTTCATG
1 CATCATTTCATG
551535 TATTTCATTT
Statistics
Matches: 45, Mismatches: 7, Indels: 12
0.70 0.11 0.19
Matches are distributed among these distances:
20 23 0.51
21 4 0.09
22 1 0.02
24 1 0.02
25 4 0.09
26 12 0.27
ACGTcount: A:0.22, C:0.24, G:0.10, T:0.44
Consensus pattern (20 bp):
CATCATTTCATGCCTTAATG
Found at i:556751 original size:41 final size:41
Alignment explanation
Indices: 556706--556786 Score: 135
Period size: 41 Copynumber: 2.0 Consensus size: 41
556696 TTTTACAAAC
* *
556706 TTCTTAATCTACTGCCTATTCTTATTTTCTATTCCTATATT
1 TTCTTAATATACTGCCTATTCTCATTTTCTATTCCTATATT
*
556747 TTCTTAATATACTGCCTATTCTCATTTTTTATTCCTATAT
1 TTCTTAATATACTGCCTATTCTCATTTTCTATTCCTATAT
556787 ATAAATCAAT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
41 37 1.00
ACGTcount: A:0.21, C:0.21, G:0.02, T:0.56
Consensus pattern (41 bp):
TTCTTAATATACTGCCTATTCTCATTTTCTATTCCTATATT
Found at i:557408 original size:5 final size:6
Alignment explanation
Indices: 557389--557420 Score: 57
Period size: 6 Copynumber: 5.5 Consensus size: 6
557379 TCACTAAAAC
557389 AAACAA AAACAA AAACAA AAAC-A AAACAA AAA
1 AAACAA AAACAA AAACAA AAACAA AAACAA AAA
557421 GAGGAAATGA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
5 5 0.20
6 20 0.80
ACGTcount: A:0.84, C:0.16, G:0.00, T:0.00
Consensus pattern (6 bp):
AAACAA
Found at i:557414 original size:11 final size:11
Alignment explanation
Indices: 557384--557420 Score: 58
Period size: 11 Copynumber: 3.4 Consensus size: 11
557374 TTTTTTCACT
557384 AAAAC-AAACA
1 AAAACAAAACA
557394 AAAACAAAAACA
1 AAAAC-AAAACA
557406 AAAACAAAACA
1 AAAACAAAACA
557417 AAAA
1 AAAA
557421 GAGGAAATGA
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
10 5 0.20
11 10 0.40
12 10 0.40
ACGTcount: A:0.84, C:0.16, G:0.00, T:0.00
Consensus pattern (11 bp):
AAAACAAAACA
Found at i:557838 original size:24 final size:25
Alignment explanation
Indices: 557800--557858 Score: 68
Period size: 25 Copynumber: 2.4 Consensus size: 25
557790 GTCTAAAATA
*
557800 TTAAAAACAGAAAAAATGATTT-TTT
1 TTAAAAAAAGAAAAAA-GATTTCTTT
*
557825 TTAAAAAAAG-AAAAAGTTTTCTTT
1 TTAAAAAAAGAAAAAAGATTTCTTT
557849 TGTAAAAAAA
1 T-TAAAAAAA
557859 TTTGGGGTAA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
23 4 0.13
24 9 0.30
25 17 0.57
ACGTcount: A:0.54, C:0.03, G:0.08, T:0.34
Consensus pattern (25 bp):
TTAAAAAAAGAAAAAAGATTTCTTT
Found at i:558236 original size:6 final size:6
Alignment explanation
Indices: 558225--558259 Score: 70
Period size: 6 Copynumber: 5.8 Consensus size: 6
558215 GGCCCTTGTA
558225 TTTATG TTTATG TTTATG TTTATG TTTATG TTTAT
1 TTTATG TTTATG TTTATG TTTATG TTTATG TTTAT
558260 TTTTTTTTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.17, C:0.00, G:0.14, T:0.69
Consensus pattern (6 bp):
TTTATG
Found at i:559391 original size:19 final size:17
Alignment explanation
Indices: 559367--559414 Score: 69
Period size: 19 Copynumber: 2.6 Consensus size: 17
559357 AAATAGCCTG
559367 ATGCATCGATGCATGGAGA
1 ATGCATCGATGCAT-GA-A
559386 ATGCATCGATGCATGAA
1 ATGCATCGATGCATGAA
559403 ATGCATTCGATG
1 ATGCA-TCGATG
559415 TTCAATTAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
17 6 0.21
18 8 0.29
19 14 0.50
ACGTcount: A:0.31, C:0.17, G:0.27, T:0.25
Consensus pattern (17 bp):
ATGCATCGATGCATGAA
Found at i:559458 original size:65 final size:63
Alignment explanation
Indices: 559320--559445 Score: 157
Period size: 65 Copynumber: 2.0 Consensus size: 63
559310 GTGCACTAAG
* *
559320 GATGCATCGATGCATAAAATGCATTCGATGTTTGAAAAAATAGCCTGATGCATCGATGCATGGA
1 GATGCATCGATGCATAAAATGCATTCGATGTTTCAAAAAATA-CATGATGCATCGATGCATGGA
* * *
559384 GAATGCATCGATGCATGAAATGCATTCGATG-TTCAATTAAAT-CATAGGTGCATCGATGCATG
1 G-ATGCATCGATGCATAAAATGCATTCGATGTTTCAA-AAAATACAT-GATGCATCGATGCATG
559446 TACTGATGCA
Statistics
Matches: 54, Mismatches: 5, Indels: 6
0.83 0.08 0.09
Matches are distributed among these distances:
63 2 0.04
64 20 0.37
65 32 0.59
ACGTcount: A:0.33, C:0.16, G:0.23, T:0.28
Consensus pattern (63 bp):
GATGCATCGATGCATAAAATGCATTCGATGTTTCAAAAAATACATGATGCATCGATGCATGGA
Found at i:561618 original size:2 final size:2
Alignment explanation
Indices: 561611--561636 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
561601 CTTAATTTTA
561611 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
561637 TTTTTTTTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:562128 original size:24 final size:23
Alignment explanation
Indices: 562056--562136 Score: 87
Period size: 24 Copynumber: 3.6 Consensus size: 23
562046 GCATGGCCTT
* *
562056 ATGCATCGATGCATATTCAAGGC
1 ATGCATCGATGCACATTCAAGGG
* *
562079 ATGCATCGGTG--CA-TCATGTGG
1 ATGCATCGATGCACATTCAAG-GG
562100 ATGCATCGATGCACATTCAAAGGG
1 ATGCATCGATGCACATTC-AAGGG
562124 ATGCATCGATGCA
1 ATGCATCGATGCA
562137 TTGTTAAATG
Statistics
Matches: 47, Mismatches: 6, Indels: 9
0.76 0.10 0.15
Matches are distributed among these distances:
20 4 0.09
21 12 0.26
23 12 0.26
24 17 0.36
25 2 0.04
ACGTcount: A:0.28, C:0.21, G:0.26, T:0.25
Consensus pattern (23 bp):
ATGCATCGATGCACATTCAAGGG
Found at i:562148 original size:44 final size:43
Alignment explanation
Indices: 562056--562156 Score: 114
Period size: 44 Copynumber: 2.3 Consensus size: 43
562046 GCATGGCCTT
* * **
562056 ATGCATCGATGCATATTCAAGGCATGCATCGGTGCATCATGTGG
1 ATGCATCGATGCACATTCAAGGCATGCATCGATGCAT-ATGTAA
*
562100 ATGCATCGATGCACATTCAAAGGGATGCATCGATGCAT-TGTTAA
1 ATGCATCGATGCACATTC-AAGGCATGCATCGATGCATATG-TAA
*
562144 ATGCATCGGTGCA
1 ATGCATCGATGCA
562157 TTAAGCACAA
Statistics
Matches: 49, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
43 2 0.04
44 30 0.61
45 17 0.35
ACGTcount: A:0.28, C:0.20, G:0.26, T:0.27
Consensus pattern (43 bp):
ATGCATCGATGCACATTCAAGGCATGCATCGATGCATATGTAA
Found at i:564858 original size:14 final size:14
Alignment explanation
Indices: 564839--564867 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
564829 CATCTACCAA
564839 GACAAATGCATATT
1 GACAAATGCATATT
564853 GACAAATGCATATT
1 GACAAATGCATATT
564867 G
1 G
564868 TTTTCCACCC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.41, C:0.14, G:0.17, T:0.28
Consensus pattern (14 bp):
GACAAATGCATATT
Found at i:568045 original size:19 final size:17
Alignment explanation
Indices: 568021--568068 Score: 69
Period size: 19 Copynumber: 2.6 Consensus size: 17
568011 AAATAGCCTG
568021 ATGCATCGATGCATGGAGA
1 ATGCATCGATGCAT-GA-A
568040 ATGCATCGATGCATGAA
1 ATGCATCGATGCATGAA
568057 ATGCATTCGATG
1 ATGCA-TCGATG
568069 TTCAATTAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
17 6 0.21
18 8 0.29
19 14 0.50
ACGTcount: A:0.31, C:0.17, G:0.27, T:0.25
Consensus pattern (17 bp):
ATGCATCGATGCATGAA
Found at i:568109 original size:65 final size:63
Alignment explanation
Indices: 567974--568119 Score: 170
Period size: 65 Copynumber: 2.3 Consensus size: 63
567964 GTGCACTAAG
* * *
567974 GATGCATCGATGCATAAAATGCATTCGATGTTTGAAAAAATAGCCTGATGCATCGATGCATGGA
1 GATGCATCGATGCATGAAATGCATTCGATGTTTCAAAAAATA-CATGATGCATCGATGCATGGA
* * *
568038 GAATGCATCGATGCATGAAATGCATTCGATG-TTCAATTAAAT-CATAGGTGCATCGATGCATGT
1 G-ATGCATCGATGCATGAAATGCATTCGATGTTTCAA-AAAATACAT-GATGCATCGATGCATGG
568101 A
63 A
568102 CTGATGCATCGATGCATG
1 --GATGCATCGATGCATG
568120 CCTTTGAAAA
Statistics
Matches: 71, Mismatches: 6, Indels: 9
0.83 0.07 0.10
Matches are distributed among these distances:
63 2 0.03
64 21 0.30
65 47 0.66
66 1 0.01
ACGTcount: A:0.32, C:0.16, G:0.23, T:0.28
Consensus pattern (63 bp):
GATGCATCGATGCATGAAATGCATTCGATGTTTCAAAAAATACATGATGCATCGATGCATGGA
Found at i:571940 original size:16 final size:16
Alignment explanation
Indices: 571903--571971 Score: 68
Period size: 16 Copynumber: 4.2 Consensus size: 16
571893 ATATAGCAAA
*
571903 AAAATAAAAAAAAGATAG
1 AAAAT-AAAGAAAGA-AG
*
571921 AAAATAAATAAAGAAG
1 AAAATAAAGAAAGAAG
*
571937 AAAA-AAGAGAAAAAAG
1 AAAATAA-AGAAAGAAG
*
571953 AAAAGAAAGAAAGAAG
1 AAAATAAAGAAAGAAG
571969 AAA
1 AAA
571972 GAAAACCGAT
Statistics
Matches: 45, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
15 2 0.04
16 28 0.62
17 10 0.22
18 5 0.11
ACGTcount: A:0.78, C:0.00, G:0.16, T:0.06
Consensus pattern (16 bp):
AAAATAAAGAAAGAAG
Found at i:573815 original size:22 final size:20
Alignment explanation
Indices: 573761--573815 Score: 56
Period size: 22 Copynumber: 2.6 Consensus size: 20
573751 TTTATGTTTA
*
573761 TTTTATTTTTGTTTTTTGTTT
1 TTTTATTTTT-TTTTTTGTTG
*
573782 TTTTACTGTTTTTTATTTGTTG
1 TTTTA-T-TTTTTTTTTTGTTG
*
573804 TTTTATTATTTT
1 TTTTATTTTTTT
573816 AATTAAGTTT
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
20 5 0.17
21 6 0.21
22 14 0.48
23 4 0.14
ACGTcount: A:0.09, C:0.02, G:0.09, T:0.80
Consensus pattern (20 bp):
TTTTATTTTTTTTTTTGTTG
Found at i:576588 original size:35 final size:35
Alignment explanation
Indices: 576537--576615 Score: 113
Period size: 35 Copynumber: 2.3 Consensus size: 35
576527 AACAAAGCCA
* **
576537 TCAATTACATTCTAAACCCCAAATTCCAAAATGTT
1 TCAATTACATTATAAACCCCAAATTCCAAAATACT
* *
576572 TCAATTATATTATAAACCTCAAATTCCAAAATACT
1 TCAATTACATTATAAACCCCAAATTCCAAAATACT
576607 TCAATTACA
1 TCAATTACA
576616 CGCCCAACCT
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
35 38 1.00
ACGTcount: A:0.43, C:0.23, G:0.01, T:0.33
Consensus pattern (35 bp):
TCAATTACATTATAAACCCCAAATTCCAAAATACT
Found at i:577429 original size:145 final size:147
Alignment explanation
Indices: 577147--577440 Score: 477
Period size: 145 Copynumber: 2.0 Consensus size: 147
577137 AAATTATTTA
* * *
577147 AATTAGAATCAATTAATATTATAGTATTGTAAATATTTATAATTAAATTTAAACAGAAACTCGAA
1 AATTAGAATCAAATAATATTATAATATTGTAAATATTTATAATTAAATTTAAACAGAAACTCAAA
* * *
577212 AATTCAATTCAATTCGACTTGATTTAAATTTTATAAACTCAAATCGAAAAAATTTCGAGTCATCT
66 AATTCAA-TCAATTCAACTTGATTTAAATTTTATAAACTCAAATCGAAAAAAATTCGAGTCAACT
577277 ATTTTATAAACTGAATTG
130 ATTTTATAAACTGAATTG
* *
577295 AATTAGAATCAAATAATATTATAATA-TGATAAATATTTATAATTAGATTTAAACATAAACTCAA
1 AATTAGAATCAAATAATATTATAATATTG-TAAATATTTATAATTAAATTTAAACAGAAACTCAA
577359 AAATTC-A-CAATTCAACTTGATTTAAATTTTATAAACTCAAATCGAAAAAAATTCGAGTCAACT
65 AAATTCAATCAATTCAACTTGATTTAAATTTTATAAACTCAAATCGAAAAAAATTCGAGTCAACT
577422 ATTTTATAAACTGAATTG
130 ATTTTATAAACTGAATTG
577440 A
1 A
577441 GTATTTAGGT
Statistics
Matches: 137, Mismatches: 8, Indels: 5
0.91 0.05 0.03
Matches are distributed among these distances:
145 72 0.53
147 3 0.02
148 62 0.45
ACGTcount: A:0.46, C:0.10, G:0.07, T:0.36
Consensus pattern (147 bp):
AATTAGAATCAAATAATATTATAATATTGTAAATATTTATAATTAAATTTAAACAGAAACTCAAA
AATTCAATCAATTCAACTTGATTTAAATTTTATAAACTCAAATCGAAAAAAATTCGAGTCAACTA
TTTTATAAACTGAATTG
Found at i:577658 original size:35 final size:35
Alignment explanation
Indices: 577606--577690 Score: 118
Period size: 35 Copynumber: 2.4 Consensus size: 35
577596 GGGGTTGGGC
**
577606 ATGTAATTGAAGTATTTTGGAATTTGA-GGTTTAGA
1 ATGTAATTGAAACATTTTGG-ATTTGAGGGTTTAGA
*
577641 ATGTAATTGAAACATTTTGGATTTTAGGGTTTAGA
1 ATGTAATTGAAACATTTTGGATTTGAGGGTTTAGA
577676 ATGTAATTGATAACA
1 ATGTAATTGA-AACA
577691 GTGTTGCAAG
Statistics
Matches: 45, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
34 5 0.11
35 36 0.80
36 4 0.09
ACGTcount: A:0.34, C:0.02, G:0.22, T:0.41
Consensus pattern (35 bp):
ATGTAATTGAAACATTTTGGATTTGAGGGTTTAGA
Found at i:587085 original size:23 final size:23
Alignment explanation
Indices: 587059--587105 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
587049 TGTTCACGTT
* *
587059 TATTTATTTATTATTCACGAACA
1 TATTTATCTAATATTCACGAACA
*
587082 TATTTATCTAATGTTCACGAACA
1 TATTTATCTAATATTCACGAACA
587105 T
1 T
587106 GTTCGTTTAG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.34, C:0.15, G:0.06, T:0.45
Consensus pattern (23 bp):
TATTTATCTAATATTCACGAACA
Found at i:591883 original size:15 final size:15
Alignment explanation
Indices: 591860--591889 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
591850 AGTTTGAGCG
*
591860 TTTATAAATTATTAT
1 TTTAAAAATTATTAT
591875 TTTAAAAATTATTAT
1 TTTAAAAATTATTAT
591890 CGATGTACAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (15 bp):
TTTAAAAATTATTAT
Found at i:603017 original size:2 final size:2
Alignment explanation
Indices: 603010--603034 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
603000 ATAGCTTATC
603010 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
603035 GTGTGTGTGT
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:610119 original size:2 final size:2
Alignment explanation
Indices: 610112--610147 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
610102 TCATAAGTAC
610112 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
610148 TAAAAATATC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:610901 original size:35 final size:36
Alignment explanation
Indices: 610861--610973 Score: 140
Period size: 35 Copynumber: 3.2 Consensus size: 36
610851 CCAATTCTGA
*
610861 AAAAATGGTTTTCAAAGTTTGGTAAAAGTTTCTTTG
1 AAAAATGGTTTTCAAAGTTTGGTAAAAGTTTATTTG
*
610897 -AAAATGGTTTTCAAAGTTTGGTAAATGTTTATTTG
1 AAAAATGGTTTTCAAAGTTTGGTAAAAGTTTATTTG
** * * * *
610932 AAAAATAATTTTTAAAGTTTGGTAGATGTTT-GTTG
1 AAAAATGGTTTTCAAAGTTTGGTAAAAGTTTATTTG
610967 AAAAATG
1 AAAAATG
610974 ATAATGGGAT
Statistics
Matches: 68, Mismatches: 8, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
35 42 0.62
36 26 0.38
ACGTcount: A:0.35, C:0.03, G:0.19, T:0.42
Consensus pattern (36 bp):
AAAAATGGTTTTCAAAGTTTGGTAAAAGTTTATTTG
Found at i:627470 original size:21 final size:21
Alignment explanation
Indices: 627446--627506 Score: 64
Period size: 21 Copynumber: 3.2 Consensus size: 21
627436 AACTTTGAAA
627446 AAATGGTTTTCAAAGTTTGGT
1 AAATGGTTTTCAAAGTTTGGT
*
627467 AAAT-G-TTTC----TTT-GA
1 AAATGGTTTTCAAAGTTTGGT
627481 AAATGGTTTTCAAAGTTTGGT
1 AAATGGTTTTCAAAGTTTGGT
627502 AAATG
1 AAATG
627507 TTTCTTTGAA
Statistics
Matches: 31, Mismatches: 2, Indels: 14
0.66 0.04 0.30
Matches are distributed among these distances:
14 5 0.16
15 4 0.13
16 4 0.13
19 4 0.13
20 4 0.13
21 10 0.32
ACGTcount: A:0.31, C:0.05, G:0.21, T:0.43
Consensus pattern (21 bp):
AAATGGTTTTCAAAGTTTGGT
Found at i:627538 original size:37 final size:37
Alignment explanation
Indices: 627438--627556 Score: 174
Period size: 35 Copynumber: 3.3 Consensus size: 37
627428 TGGCAACCAA
627438 CTTTGAAAAA-ATGGTTTTCAAAGTTTGGTAAATGTTT
1 CTTTGAAAAATA-GGTTTTCAAAGTTTGGTAAATGTTT
627475 CTTTG-AAAAT-GGTTTTCAAAGTTTGGTAAATGTTT
1 CTTTGAAAAATAGGTTTTCAAAGTTTGGTAAATGTTT
* *
627510 CTTTGAAAAATAGGATTTCAAAGTTTGGTAGATGTTT
1 CTTTGAAAAATAGGTTTTCAAAGTTTGGTAAATGTTT
*
627547 -GTTGAAAAAT
1 CTTTGAAAAAT
627557 GATAATGAGA
Statistics
Matches: 76, Mismatches: 3, Indels: 7
0.88 0.03 0.08
Matches are distributed among these distances:
35 30 0.39
36 18 0.24
37 28 0.37
ACGTcount: A:0.33, C:0.05, G:0.20, T:0.42
Consensus pattern (37 bp):
CTTTGAAAAATAGGTTTTCAAAGTTTGGTAAATGTTT
Found at i:628452 original size:13 final size:13
Alignment explanation
Indices: 628434--628461 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
628424 CAAAATGTTG
628434 TTATCATCTTTGT
1 TTATCATCTTTGT
628447 TTATCATCTTTGT
1 TTATCATCTTTGT
628460 TT
1 TT
628462 GGGAACCAAC
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:0.14, C:0.14, G:0.07, T:0.64
Consensus pattern (13 bp):
TTATCATCTTTGT
Found at i:632721 original size:2 final size:2
Alignment explanation
Indices: 632714--632771 Score: 93
Period size: 2 Copynumber: 30.0 Consensus size: 2
632704 TACGTTTTAT
632714 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T- TA T-
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
*
632754 TA TA TG TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA
632772 CTACTTATTT
Statistics
Matches: 52, Mismatches: 2, Indels: 4
0.90 0.03 0.07
Matches are distributed among these distances:
1 2 0.04
2 50 0.96
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.52
Consensus pattern (2 bp):
TA
Found at i:632789 original size:26 final size:24
Alignment explanation
Indices: 632714--632780 Score: 93
Period size: 24 Copynumber: 2.8 Consensus size: 24
632704 TACGTTTTAT
*
632714 TATATATATATATA-TA-TATATA
1 TATATATATATATATTATTATATG
632736 TATATATATATATATTATTATATG
1 TATATATATATATATTATTATATG
632760 TATATATATATACTACTTATT
1 TATATATATATA-TA-TTATT
632781 TCTTTTATAC
Statistics
Matches: 40, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
22 14 0.35
23 2 0.05
24 17 0.43
25 2 0.05
26 5 0.12
ACGTcount: A:0.43, C:0.03, G:0.01, T:0.52
Consensus pattern (24 bp):
TATATATATATATATTATTATATG
Found at i:632833 original size:18 final size:18
Alignment explanation
Indices: 632803--632858 Score: 58
Period size: 18 Copynumber: 3.1 Consensus size: 18
632793 TTTTACCATT
*
632803 TTATTTTTATTATTATTA
1 TTATTTATATTATTATTA
* **
632821 TTCTTTATATTATCCTTA
1 TTATTTATATTATTATTA
* *
632839 TTATTTCTATTATTACTA
1 TTATTTATATTATTATTA
632857 TT
1 TT
632859 TTTTTACTTA
Statistics
Matches: 29, Mismatches: 9, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
18 29 1.00
ACGTcount: A:0.25, C:0.09, G:0.00, T:0.66
Consensus pattern (18 bp):
TTATTTATATTATTATTA
Found at i:633339 original size:5 final size:5
Alignment explanation
Indices: 633329--633392 Score: 62
Period size: 5 Copynumber: 12.8 Consensus size: 5
633319 TGTTTATTTG
* *
633329 TTTAT TTTAT TTTAT TTGT-T TATTAT CTTAT TTTAT TTTAT TTT-T GTTTGT
1 TTTAT TTTAT TTTAT TT-TAT T-TTAT TTTAT TTTAT TTTAT TTTAT -TTTAT
633380 TTTAT TTT-T TTTA
1 TTTAT TTTAT TTTA
633393 AGTCGTTTAT
Statistics
Matches: 50, Mismatches: 3, Indels: 12
0.77 0.05 0.18
Matches are distributed among these distances:
4 5 0.10
5 41 0.82
6 4 0.08
ACGTcount: A:0.16, C:0.02, G:0.05, T:0.78
Consensus pattern (5 bp):
TTTAT
Found at i:633344 original size:18 final size:18
Alignment explanation
Indices: 633321--633392 Score: 66
Period size: 18 Copynumber: 4.2 Consensus size: 18
633311 TTCTAATTTG
633321 TTTATTTGTTTATTTTAT
1 TTTATTTGTTTATTTTAT
633339 TTTATTTGTTTA--TTAT
1 TTTATTTGTTTATTTTAT
*
633355 CTTA--T-TTTATTTTATT
1 TTTATTTGTTTATTTTA-T
*
633371 TTTGTTTGTTTTATTTT-T
1 TTTATTTG-TTTATTTTAT
633389 TTTA
1 TTTA
633393 AGTCGTTTAT
Statistics
Matches: 43, Mismatches: 4, Indels: 14
0.70 0.07 0.23
Matches are distributed among these distances:
13 4 0.09
14 1 0.02
15 3 0.07
16 10 0.23
18 17 0.40
20 8 0.19
ACGTcount: A:0.15, C:0.01, G:0.06, T:0.78
Consensus pattern (18 bp):
TTTATTTGTTTATTTTAT
Found at i:633345 original size:26 final size:26
Alignment explanation
Indices: 633316--633392 Score: 90
Period size: 26 Copynumber: 3.0 Consensus size: 26
633306 GGTTTTTCTA
633316 ATTTGTTTATTTGTTTATTTTATTTT
1 ATTTGTTTATTTGTTTATTTTATTTT
*
633342 ATTTGTTTATTAT-CTTATTTTATTTT
1 ATTTGTTTATT-TGTTTATTTTATTTT
*
633368 A-TT-TTTGTTTGTTTTATTTT-TTTT
1 ATTTGTTTATTTG-TTTATTTTATTTT
633392 A
1 A
633393 AGTCGTTTAT
Statistics
Matches: 45, Mismatches: 3, Indels: 8
0.80 0.05 0.14
Matches are distributed among these distances:
23 1 0.02
24 10 0.22
25 9 0.20
26 24 0.53
27 1 0.02
ACGTcount: A:0.16, C:0.01, G:0.06, T:0.77
Consensus pattern (26 bp):
ATTTGTTTATTTGTTTATTTTATTTT
Found at i:637136 original size:39 final size:39
Alignment explanation
Indices: 637065--637142 Score: 95
Period size: 39 Copynumber: 2.0 Consensus size: 39
637055 CCCGGAATAT
* *
637065 TACCCGGGGACGCATCTGCTACTAAAGGGAAAGTAGCAC
1 TACCCGGGGACGCATCTGCTACCAAAGCGAAAGTAGCAC
* * *
637104 TACCCGGGGACTCAT-TCGTTACCAAAGCGAAAGTTGCAC
1 TACCCGGGGACGCATCT-GCTACCAAAGCGAAAGTAGCAC
637143 CTGCTGTGAA
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
38 1 0.03
39 32 0.97
ACGTcount: A:0.29, C:0.27, G:0.26, T:0.18
Consensus pattern (39 bp):
TACCCGGGGACGCATCTGCTACCAAAGCGAAAGTAGCAC
Found at i:644970 original size:105 final size:105
Alignment explanation
Indices: 644703--645624 Score: 1544
Period size: 105 Copynumber: 8.9 Consensus size: 105
644693 AGGTTTTACC
*
644703 CAGAGCCAATTTCAACTTCACAACGAAAGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
* * *
644768 ATGAAGGGACCGCTGGTTGTCAACAAACAACTTCTCAATTT
66 ACGAAGGGACCGCTGGTTGTCAACAAAC-ATTTCTCAAATT
644809 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
644874 ACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAAATT
66 ACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAAATT
*
644914 CAGAGCCAATTTCAACTTCACAACGAAGGATATTAGACTCCAGACAACGCAAGTTCAACTTCACG
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
644979 ACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAAATT
66 ACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAAATT
645019 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
645084 ACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAAATT
66 ACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAAATT
* *
645124 TAGAGCCAATTTTAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
645189 ACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAAATT
66 ACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAAATT
645229 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
645294 ACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAAATT
66 ACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAAATT
*
645334 CAGAGCCAATTTCAACTTCACAACGAAGAATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
* *
645399 ACGAAGGGACCGCTGGTTGTCAA-TAA-A-----CAATTT
66 ACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAAATT
*
645432 C----CCAATTTCAACTTCACAACGAATGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
* * * * *
645493 ACGAAGGGACCGCTGGTTGTCAATAAATAACTTCCCAATTT
66 ACGAAGGGACCGCTGGTTGTCAACAAA-CATTTCTCAAATT
* * *
645534 CAGAGCCAATTTCAACTTCACAACGAAGGAGATTGGGC-CCTAGACAACACAAGTTCAACTTCAC
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCC-AGACAACGCAAGTTCAACTTCAC
* *
645598 AACGAAGGGACCGCTGGTTGCCAACAA
65 GACGAAGGGACCGCTGGTTGTCAACAA
645625 GTAATTTCCC
Statistics
Matches: 780, Mismatches: 23, Indels: 26
0.94 0.03 0.03
Matches are distributed among these distances:
94 81 0.10
95 2 0.00
97 1 0.00
98 6 0.01
102 7 0.01
103 1 0.00
104 2 0.00
105 513 0.66
106 167 0.21
ACGTcount: A:0.35, C:0.26, G:0.18, T:0.22
Consensus pattern (105 bp):
CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
ACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAAATT
Found at i:647365 original size:2 final size:2
Alignment explanation
Indices: 647358--647392 Score: 54
Period size: 2 Copynumber: 18.0 Consensus size: 2
647348 TACGTTTTAT
*
647358 TA TA TA TA TA TA T- TA TA TG TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
647393 CTTACTTATT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
1 1 0.03
2 29 0.97
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (2 bp):
TA
Found at i:647439 original size:9 final size:9
Alignment explanation
Indices: 647427--647495 Score: 50
Period size: 9 Copynumber: 7.7 Consensus size: 9
647417 TTTACCATTT
647427 TTATTTTTA
1 TTATTTTTA
*
647436 TTATTATTA
1 TTATTTTTA
* *
647445 TTCTTTATA
1 TTATTTTTA
**
647454 TTATCCTTA
1 TTATTTTTA
*
647463 TTATTTCTA
1 TTATTTTTA
**
647472 TTATTACTA
1 TTATTTTTA
647481 TT-TTTTTA
1 TTATTTTTA
647489 CTTATTT
1 -TTATTT
647496 ATGTATGTAT
Statistics
Matches: 44, Mismatches: 14, Indels: 3
0.72 0.23 0.05
Matches are distributed among these distances:
8 4 0.09
9 37 0.84
10 3 0.07
ACGTcount: A:0.23, C:0.09, G:0.00, T:0.68
Consensus pattern (9 bp):
TTATTTTTA
Found at i:647457 original size:18 final size:18
Alignment explanation
Indices: 647427--647482 Score: 58
Period size: 18 Copynumber: 3.1 Consensus size: 18
647417 TTTACCATTT
*
647427 TTATTTTTATTATTATTA
1 TTATTTATATTATTATTA
* **
647445 TTCTTTATATTATCCTTA
1 TTATTTATATTATTATTA
* *
647463 TTATTTCTATTATTACTA
1 TTATTTATATTATTATTA
647481 TT
1 TT
647483 TTTTTACTTA
Statistics
Matches: 29, Mismatches: 9, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
18 29 1.00
ACGTcount: A:0.25, C:0.09, G:0.00, T:0.66
Consensus pattern (18 bp):
TTATTTATATTATTATTA
Found at i:647571 original size:21 final size:20
Alignment explanation
Indices: 647545--647616 Score: 62
Period size: 21 Copynumber: 3.6 Consensus size: 20
647535 ATTCGTTTTC
647545 TTTATTTATTATTATATATA
1 TTTATTTATTATTATATATA
* *
647565 TATTATTTTTTATTTTAGGTAT-
1 T-TTATTTATTATTATA--TATA
647587 TTTATTTA-TA-TATATAT-
1 TTTATTTATTATTATATATA
*
647604 TTTACTTATTATT
1 TTTATTTATTATT
647617 TTTGTTTTAA
Statistics
Matches: 42, Mismatches: 5, Indels: 11
0.72 0.09 0.19
Matches are distributed among these distances:
17 10 0.24
18 2 0.05
19 4 0.10
20 3 0.07
21 19 0.45
22 1 0.02
23 3 0.07
ACGTcount: A:0.29, C:0.01, G:0.03, T:0.67
Consensus pattern (20 bp):
TTTATTTATTATTATATATA
Found at i:647641 original size:2 final size:2
Alignment explanation
Indices: 647634--647661 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
647624 TAACTAATAG
647634 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
647662 CTTGTTTTAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:647978 original size:5 final size:5
Alignment explanation
Indices: 647968--648033 Score: 55
Period size: 5 Copynumber: 12.8 Consensus size: 5
647958 TGTTTATTTG
* *
647968 TTTAT TTTAT TTTAT TTGT-T TATTAT CTTAT TTTAT TTTAT TTT-T GTTTGT
1 TTTAT TTTAT TTTAT TT-TAT T-TTAT TTTAT TTTAT TTTAT TTTAT -TTTAT
*
648019 TTTAT CTTTTT TTTA
1 TTTAT -TTTAT TTTA
648034 AGCCATTTAT
Statistics
Matches: 50, Mismatches: 5, Indels: 12
0.75 0.07 0.18
Matches are distributed among these distances:
4 1 0.02
5 41 0.82
6 8 0.16
ACGTcount: A:0.15, C:0.03, G:0.05, T:0.77
Consensus pattern (5 bp):
TTTAT
Found at i:647984 original size:26 final size:26
Alignment explanation
Indices: 647955--648010 Score: 87
Period size: 26 Copynumber: 2.2 Consensus size: 26
647945 GGTTTTTCTA
*
647955 ATTTGTTTATT-TGTTTATTTTATTTT
1 ATTTGTTTATTAT-CTTATTTTATTTT
647981 ATTTGTTTATTATCTTATTTTATTTT
1 ATTTGTTTATTATCTTATTTTATTTT
648007 ATTT
1 ATTT
648011 TTGTTTGTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
26 27 0.96
27 1 0.04
ACGTcount: A:0.18, C:0.02, G:0.05, T:0.75
Consensus pattern (26 bp):
ATTTGTTTATTATCTTATTTTATTTT
Found at i:662295 original size:23 final size:23
Alignment explanation
Indices: 662269--662316 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 23
662259 ATAAAGTACA
*
662269 ATAACATACTAGGTAGCGCTTAT
1 ATAACATAATAGGTAGCGCTTAT
**
662292 ATAATGTAATAGGTAGCGCTTAT
1 ATAACATAATAGGTAGCGCTTAT
662315 AT
1 AT
662317 TTACCTATTT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.35, C:0.12, G:0.19, T:0.33
Consensus pattern (23 bp):
ATAACATAATAGGTAGCGCTTAT
Found at i:662758 original size:23 final size:22
Alignment explanation
Indices: 662696--662767 Score: 90
Period size: 23 Copynumber: 3.2 Consensus size: 22
662686 ACACTTTACA
*
662696 ATATAACCATTACCTATTACATT
1 ATATAACGA-TACCTATTACATT
662719 ATATAACGATACCTATTACATT
1 ATATAACGATACCTATTACATT
* * *
662741 ATATAAGGGCTACCTATTACATC
1 ATATAA-CGATACCTATTACATT
662764 ATAT
1 ATAT
662768 GTTTACCTAT
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
22 19 0.43
23 25 0.57
ACGTcount: A:0.39, C:0.19, G:0.06, T:0.36
Consensus pattern (22 bp):
ATATAACGATACCTATTACATT
Found at i:663147 original size:21 final size:20
Alignment explanation
Indices: 663117--663170 Score: 54
Period size: 23 Copynumber: 2.5 Consensus size: 20
663107 GATAGACACT
*
663117 TTACAATATAACCATTACCTA
1 TTACATTATAACCA-TACCTA
*
663138 TTACATTATATAAACGATACCTA
1 TTACA-T-TAT-AACCATACCTA
663161 TTACATTATA
1 TTACATTATA
663171 TAAGGGCTAC
Statistics
Matches: 28, Mismatches: 2, Indels: 7
0.76 0.05 0.19
Matches are distributed among these distances:
20 1 0.04
21 8 0.29
22 1 0.04
23 14 0.50
24 4 0.14
ACGTcount: A:0.43, C:0.19, G:0.02, T:0.37
Consensus pattern (20 bp):
TTACATTATAACCATACCTA
Found at i:663158 original size:23 final size:23
Alignment explanation
Indices: 663132--663189 Score: 89
Period size: 23 Copynumber: 2.5 Consensus size: 23
663122 ATATAACCAT
663132 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
** *
663155 TACCTATTACATTATATAAGGGC
1 TACCTATTACATTATATAAACGA
663178 TACCTATTACAT
1 TACCTATTACAT
663190 CTTATGTAAT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 32 1.00
ACGTcount: A:0.38, C:0.19, G:0.07, T:0.36
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:666058 original size:183 final size:184
Alignment explanation
Indices: 665683--666722 Score: 1903
Period size: 183 Copynumber: 5.6 Consensus size: 184
665673 TTTTAAATGG
*
665683 TATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCA
1 TATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCA
*
665748 TAAAACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCC
66 TAAGACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCC
* *
665813 GATGTGTAAAATGTCGACACTTTTTTAAATTGTATCGACACATTTTTCTTCCAA
131 GATGTGTAAAATGTCGACACTTTTTTAAATTATATCGACACAATTTTCTTCCAA
665867 TATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCA
1 TATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCA
665932 TAAGACCGGTATATTTATACCGGTTATATTAC-AAATTATCTATTACATTATAATTATGGGTTCC
66 TAAGACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCC
665996 GATGTGTAAAATGTCGACACTTTTTTAAATTATATCGACACAATTTTCTTCCAA
131 GATGTGTAAAATGTCGACACTTTTTTAAATTATATCGACACAATTTTCTTCCAA
666050 TATGGACATAAAGTACCGACACAATATT-AAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCA
1 TATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCA
666114 TAAGACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCC
66 TAAGACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCC
666179 GATGTGTAAAATGTCGACACTTTTTTAAATTATATCGACACAATTTTCTTCCAA
131 GATGTGTAAAATGTCGACACTTTTTTAAATTATATCGACACAATTTTCTTCCAA
666233 TATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCA
1 TATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCA
666298 TAAGA-CGGTATATTTATACCGGTTATATTAC-AAATTATCTATTACATTATAATTATGGGTTCC
66 TAAGACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCC
666361 GATGTGTAAAATGTCGACACTTTTTTAAATTATATCGACACAATTTTCTTCCAA
131 GATGTGTAAAATGTCGACACTTTTTTAAATTATATCGACACAATTTTCTTCCAA
666415 TATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCA
1 TATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCA
666480 TAAGACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCC
66 TAAGACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCC
* *
666545 GATGTGTAAAATGTCGACACTTTTTTAAATTGTATCGACACATTTTTCTTCCAA
131 GATGTGTAAAATGTCGACACTTTTTTAAATTATATCGACACAATTTTCTTCCAA
666599 TATGGACATAAAGTACCGACACAATATT-AAAAGTGTCGATATAGGTTGTAGGTTGTAGACCTAT
1 TATGGACATAAAGTACCGACACAATATTAAAAAGTGTCG--ATA-----TAGGTTGTAGACCTAT
**
666663 TCGCGCATAAGACCGGTATATTTATACCGGTTATATTAC-AAATTATCTATTTTATTATAA
59 TCGCGCATAAGACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAA
666723 AATGTTGAAA
Statistics
Matches: 837, Mismatches: 8, Indels: 17
0.97 0.01 0.02
Matches are distributed among these distances:
182 224 0.27
183 288 0.34
184 248 0.30
185 3 0.00
189 19 0.02
190 55 0.07
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.35
Consensus pattern (184 bp):
TATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCA
TAAGACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCC
GATGTGTAAAATGTCGACACTTTTTTAAATTATATCGACACAATTTTCTTCCAA
Found at i:668095 original size:3 final size:3
Alignment explanation
Indices: 668087--668137 Score: 66
Period size: 3 Copynumber: 17.0 Consensus size: 3
668077 ACTTGTTTGG
* * * *
668087 ATC ATC ATC TTC ATC ATC ATC GTC ATC ATC ATC ATC ATC GTC ATC TTC
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC
668135 ATC
1 ATC
668138 GTCAGCTTCA
Statistics
Matches: 40, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.25, C:0.33, G:0.04, T:0.37
Consensus pattern (3 bp):
ATC
Found at i:668104 original size:12 final size:12
Alignment explanation
Indices: 668087--668149 Score: 81
Period size: 12 Copynumber: 5.2 Consensus size: 12
668077 ACTTGTTTGG
668087 ATCATCATCTTC
1 ATCATCATCTTC
*
668099 ATCATCATCGTC
1 ATCATCATCTTC
*
668111 ATCATCATCATC
1 ATCATCATCTTC
*
668123 ATCGTCATCTTC
1 ATCATCATCTTC
* *
668135 ATCGTCAGCTTC
1 ATCATCATCTTC
668147 ATC
1 ATC
668150 TTCTGCGACC
Statistics
Matches: 46, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
12 46 1.00
ACGTcount: A:0.24, C:0.33, G:0.06, T:0.37
Consensus pattern (12 bp):
ATCATCATCTTC
Found at i:668148 original size:18 final size:18
Alignment explanation
Indices: 668091--668152 Score: 88
Period size: 18 Copynumber: 3.4 Consensus size: 18
668081 GTTTGGATCA
668091 TCATCTTCATCATCATCG
1 TCATCTTCATCATCATCG
*
668109 TCATCATCATCATCATCG
1 TCATCTTCATCATCATCG
* * *
668127 TCATCTTCATCGTCAGCT
1 TCATCTTCATCATCATCG
668145 TCATCTTC
1 TCATCTTC
668153 TGCGACCGAT
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 39 1.00
ACGTcount: A:0.21, C:0.34, G:0.06, T:0.39
Consensus pattern (18 bp):
TCATCTTCATCATCATCG
Found at i:668152 original size:6 final size:6
Alignment explanation
Indices: 668091--668152 Score: 61
Period size: 6 Copynumber: 10.3 Consensus size: 6
668081 GTTTGGATCA
* * * * * *
668091 TCATCT TCATCA TCATCG TCATCA TCATCA TCATCG TCATCT TCATCG
1 TCATCT TCATCT TCATCT TCATCT TCATCT TCATCT TCATCT TCATCT
*
668139 TCAGCT TCATCT TC
1 TCATCT TCATCT TC
668153 TGCGACCGAT
Statistics
Matches: 47, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
6 47 1.00
ACGTcount: A:0.21, C:0.34, G:0.06, T:0.39
Consensus pattern (6 bp):
TCATCT
Found at i:670287 original size:200 final size:200
Alignment explanation
Indices: 669615--671033 Score: 2561
Period size: 198 Copynumber: 7.1 Consensus size: 200
669605 TTTAAATTAG
* * *
669615 TATCGACACAAAATATA-TAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATT
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
*
669679 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
669744 CGACAC-TTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTCTGGG-A
131 CGACACTTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTCTGGGAA
669807 AAAAA
196 AAAAA
669812 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
*
669877 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
* * ***
669942 CGACAC-TTTTTATATATGGATCGACACTTTATTGATGCACCTTG-TAAAAATTCATTCT-GGAA
131 CGACACTTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTCTGGGAA
670004 AAAAA
196 AAAAA
670009 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
670074 ATTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
670139 CGACACTTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTCTGGGAA
131 CGACACTTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTCTGGGAA
670204 AAAAA
196 AAAAA
670209 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
670274 ATTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
670339 CGACACTTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTCTGGGAA
131 CGACACTTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTCTGGGAA
670404 AAAAA
196 AAAAA
670409 TATCGACACAAACTATATTAGTGTCGACACATTA-TTAGACTTATTCTCTCAT-AAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
670472 ATTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
670537 CGACACTTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTCTGGGAA
131 CGACACTTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTCTGGGAA
670602 AAAAA
196 AAAAA
670607 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
*
670672 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
* * * *
670737 CGACAC-GTTTTATATATGGATCGACACTTTATTGATGCACCTTGTTTTTAATTCATTCTGGAAA
131 CGACACTTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTCTGGGAA
670801 AAAAA
196 AAAAA
670806 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
670871 ATTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
* * *** * *
670936 CGACACTTTTTTATATATGGATCGACACTTTATTGATGCACCTTG-TAAAAATTCATTCTAGAAA
131 CGACACTTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTCTGGGAA
671000 AAAAA
196 AAAAA
*
671005 TATCGACACAAACTATATTAGTATCGACA
1 TATCGACACAAACTATATTAGTGTCGACA
671034 TGACCCTTAA
Statistics
Matches: 1188, Mismatches: 26, Indels: 14
0.97 0.02 0.01
Matches are distributed among these distances:
196 2 0.00
197 168 0.14
198 368 0.31
199 289 0.24
200 361 0.30
ACGTcount: A:0.32, C:0.15, G:0.15, T:0.37
Consensus pattern (200 bp):
TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
ATTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
CGACACTTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTCTGGGAA
AAAAA
Found at i:670570 original size:398 final size:399
Alignment explanation
Indices: 669615--671033 Score: 2593
Period size: 398 Copynumber: 3.6 Consensus size: 399
669605 TTTAAATTAG
* * *
669615 TATCGACACAAAATATA-TAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATT
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
*
669679 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
669744 CGACAC-TTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTCTGGG-A
131 CGACACTTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTCTGGGAA
669807 AAAAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCG
196 AAAAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCG
669872 GTATAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTT
261 GTATAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTT
***
669937 GGGATCGACACTTTTTATATATGGATCGACACTTTATTGATGCACCTTG-TAAAAATTCATTCT-
326 GGGATCGACACTTTTTATATATGGATCGACACTTTATTGATGCACCTTGTTTTTAATTCATTCTG
670000 GGAAAAAAA
391 GGAAAAAAA
670009 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
670074 ATTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
670139 CGACACTTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTCTGGGAA
131 CGACACTTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTCTGGGAA
670204 AAAAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCG
196 AAAAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCG
*
670269 GTATAATTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTT
261 GTATAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTT
* *
670334 GGGATCGACACTTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTCT
326 GGGATCGACAC-TTTTTATATATGGATCGACACTTTATTGATGCACCTTGTTTTTAATTCATTCT
670399 GGGAAAAAAA
390 GGGAAAAAAA
670409 TATCGACACAAACTATATTAGTGTCGACACATTA-TTAGACTTATTCTCTCAT-AAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
670472 ATTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
670537 CGACACTTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTCTGGGAA
131 CGACACTTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTCTGGGAA
670602 AAAAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCG
196 AAAAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCG
670667 GTATAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTT
261 GTATAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTT
*
670732 GGGATCGACACGTTTTATATATGGATCGACACTTTATTGATGCACCTTGTTTTTAATTCATTCTG
326 GGGATCGACACTTTTTATATATGGATCGACACTTTATTGATGCACCTTGTTTTTAATTCATTCTG
*
670797 GAAAAAAAA
391 GGAAAAAAA
670806 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
670871 ATTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
* * *** * *
670936 CGACACTTTTTTATATATGGATCGACACTTTATTGATGCACCTTG-TAAAAATTCATTCTAGAAA
131 CGACACTTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTCTGGGAA
*
671000 AAAAATATCGACACAAACTATATTAGTATCGACA
196 AAAAATATCGACACAAACTATATTAGTGTCGACA
671034 TGACCCTTAA
Statistics
Matches: 994, Mismatches: 23, Indels: 12
0.97 0.02 0.01
Matches are distributed among these distances:
394 16 0.02
395 115 0.12
396 56 0.06
397 234 0.24
398 382 0.38
399 148 0.15
400 43 0.04
ACGTcount: A:0.32, C:0.15, G:0.15, T:0.37
Consensus pattern (399 bp):
TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
ATTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
CGACACTTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTCTGGGAA
AAAAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCG
GTATAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTT
GGGATCGACACTTTTTATATATGGATCGACACTTTATTGATGCACCTTGTTTTTAATTCATTCTG
GGAAAAAAA
Found at i:671140 original size:37 final size:38
Alignment explanation
Indices: 671099--671178 Score: 99
Period size: 38 Copynumber: 2.1 Consensus size: 38
671089 TCTCATTCAT
*
671099 AATTAT-ATTCACATAAAAAAATATAAATCGTATACAA
1 AATTATAAATCACATAAAAAAATATAAATCGTATACAA
** * * *
671136 AATTATAAATCGTATACAAAATTATAAATCTTATACAA
1 AATTATAAATCACATAAAAAAATATAAATCGTATACAA
671174 AATTA
1 AATTA
671179 ACTCGACATT
Statistics
Matches: 36, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
37 6 0.17
38 30 0.83
ACGTcount: A:0.55, C:0.10, G:0.03, T:0.33
Consensus pattern (38 bp):
AATTATAAATCACATAAAAAAATATAAATCGTATACAA
Found at i:671142 original size:19 final size:19
Alignment explanation
Indices: 671115--671178 Score: 110
Period size: 19 Copynumber: 3.4 Consensus size: 19
671105 ATTCACATAA
*
671115 AAAAATATAAATCGTATAC
1 AAAATTATAAATCGTATAC
671134 AAAATTATAAATCGTATAC
1 AAAATTATAAATCGTATAC
*
671153 AAAATTATAAATCTTATAC
1 AAAATTATAAATCGTATAC
671172 AAAATTA
1 AAAATTA
671179 ACTCGACATT
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 43 1.00
ACGTcount: A:0.56, C:0.09, G:0.03, T:0.31
Consensus pattern (19 bp):
AAAATTATAAATCGTATAC
Found at i:673011 original size:33 final size:33
Alignment explanation
Indices: 672974--673039 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 33
672964 CATCTTAATA
*
672974 TCACCCCTTAACACCGAAACTTCTTTCACCACT
1 TCACCCCTCAACACCGAAACTTCTTTCACCACT
***
673007 TCACCCCTCAACACCTCTACTTCTTTCACCACT
1 TCACCCCTCAACACCGAAACTTCTTTCACCACT
673040 CCATCTATTT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.24, C:0.45, G:0.02, T:0.29
Consensus pattern (33 bp):
TCACCCCTCAACACCGAAACTTCTTTCACCACT
Found at i:675175 original size:24 final size:24
Alignment explanation
Indices: 675138--675190 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 24
675128 CCGTTCTATC
675138 TATTTTCAGAGGATAT-TTAGCTTA
1 TATTTTCAGAGGATATGTTA-CTTA
** *
675162 TATTTTCATCGGATATGTTATTTA
1 TATTTTCAGAGGATATGTTACTTA
675186 TATTT
1 TATTT
675191 AATCGATACA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
24 22 0.88
25 3 0.12
ACGTcount: A:0.26, C:0.08, G:0.13, T:0.53
Consensus pattern (24 bp):
TATTTTCAGAGGATATGTTACTTA
Found at i:675380 original size:20 final size:19
Alignment explanation
Indices: 675334--675380 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 19
675324 TCCGGTATCA
*
675334 TTTTACCGTTTTTATCATT
1 TTTTACCGGTTTTATCATT
*
675353 TTGATACCGGTTTTATCATAT
1 TT-TTACCGGTTTTATCAT-T
675374 TTTTACC
1 TTTTACC
675381 TGTTATATCG
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
19 2 0.09
20 18 0.78
21 3 0.13
ACGTcount: A:0.19, C:0.17, G:0.09, T:0.55
Consensus pattern (19 bp):
TTTTACCGGTTTTATCATT
Found at i:675528 original size:20 final size:20
Alignment explanation
Indices: 675501--675547 Score: 78
Period size: 20 Copynumber: 2.4 Consensus size: 20
675491 ACACTTTTAA
675501 TTTTACCGGTTTTATCAT-T
1 TTTTACCGGTTTTATCATAT
675520 TTGTTACCGGTTTTATCATAT
1 TT-TTACCGGTTTTATCATAT
675541 TTTTACC
1 TTTTACC
675548 TGGTATATCG
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
19 2 0.08
20 21 0.81
21 3 0.12
ACGTcount: A:0.17, C:0.17, G:0.11, T:0.55
Consensus pattern (20 bp):
TTTTACCGGTTTTATCATAT
Found at i:677062 original size:34 final size:35
Alignment explanation
Indices: 677024--677097 Score: 89
Period size: 34 Copynumber: 2.2 Consensus size: 35
677014 GTTCATTTAC
677024 GTTCGTG-AACGTTCGGTTATGTTCGCTCGATTAT
1 GTTCGTGTAACGTTCGGTTATGTTCGCTCGATTAT
* * * * *
677058 GTTCG-GTTATGTTTGTTTATGTTCGTTCGATTAT
1 GTTCGTGTAACGTTCGGTTATGTTCGCTCGATTAT
677092 GTTCGT
1 GTTCGT
677098 TTATGTTTAT
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
33 1 0.03
34 32 0.97
ACGTcount: A:0.12, C:0.14, G:0.26, T:0.49
Consensus pattern (35 bp):
GTTCGTGTAACGTTCGGTTATGTTCGCTCGATTAT
Found at i:677085 original size:24 final size:24
Alignment explanation
Indices: 677058--677104 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
677048 GCTCGATTAT
* *
677058 GTTCGGTTATGTTTGTTTATGTTC
1 GTTCGATTATGTTCGTTTATGTTC
677082 GTTCGATTATGTTCGTTTATGTT
1 GTTCGATTATGTTCGTTTATGTT
677105 TATTCATTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.11, C:0.09, G:0.23, T:0.57
Consensus pattern (24 bp):
GTTCGATTATGTTCGTTTATGTTC
Found at i:677102 original size:34 final size:34
Alignment explanation
Indices: 677040--677105 Score: 114
Period size: 34 Copynumber: 1.9 Consensus size: 34
677030 GAACGTTCGG
677040 TTATGTTCGCTCGATTATGTTCGGTTATGTTTGT
1 TTATGTTCGCTCGATTATGTTCGGTTATGTTTGT
* *
677074 TTATGTTCGTTCGATTATGTTCGTTTATGTTT
1 TTATGTTCGCTCGATTATGTTCGGTTATGTTT
677106 ATTCATTTAT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 30 1.00
ACGTcount: A:0.12, C:0.11, G:0.21, T:0.56
Consensus pattern (34 bp):
TTATGTTCGCTCGATTATGTTCGGTTATGTTTGT
Found at i:677115 original size:24 final size:24
Alignment explanation
Indices: 677059--677118 Score: 68
Period size: 24 Copynumber: 2.5 Consensus size: 24
677049 CTCGATTATG
* * *
677059 TTCGGTTATGTTTGTTTATGTTCG
1 TTCGATTATGTTCGTTTATGTTCA
*
677083 TTCGATTATGTTCGTTTATGTTTA
1 TTCGATTATGTTCGTTTATGTTCA
677107 TTC-ATTTATGTT
1 TTCGA-TTATGTT
677119 TAACTCAATC
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
23 1 0.03
24 30 0.97
ACGTcount: A:0.13, C:0.08, G:0.18, T:0.60
Consensus pattern (24 bp):
TTCGATTATGTTCGTTTATGTTCA
Found at i:678224 original size:16 final size:16
Alignment explanation
Indices: 678199--678271 Score: 96
Period size: 16 Copynumber: 4.7 Consensus size: 16
678189 CCAACGTTTA
*
678199 TGTTCTTTTATGTTCG
1 TGTTCATTTATGTTCG
678215 TGTTCATTTATGTTCG
1 TGTTCATTTATGTTCG
* *
678231 TGTTCGTTTAAGTTCG
1 TGTTCATTTATGTTCG
*
678247 TGTTCGTTTATGTTCG
1 TGTTCATTTATGTTCG
678263 T-TT-ATTTAT
1 TGTTCATTTAT
678272 TAAATGAACG
Statistics
Matches: 52, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
14 5 0.10
15 2 0.04
16 45 0.87
ACGTcount: A:0.11, C:0.11, G:0.19, T:0.59
Consensus pattern (16 bp):
TGTTCATTTATGTTCG
Found at i:678354 original size:16 final size:16
Alignment explanation
Indices: 678333--678365 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
678323 AAAAAAATTT
678333 TGTTCGTTTATGTTCG
1 TGTTCGTTTATGTTCG
678349 TGTTCGTTTATGTTCG
1 TGTTCGTTTATGTTCG
678365 T
1 T
678366 TTATTTATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.06, C:0.12, G:0.24, T:0.58
Consensus pattern (16 bp):
TGTTCGTTTATGTTCG
Found at i:680886 original size:15 final size:16
Alignment explanation
Indices: 680866--680921 Score: 57
Period size: 15 Copynumber: 3.7 Consensus size: 16
680856 AAGAAAGGGT
680866 TTTTAA-AAAACATTA
1 TTTTAACAAAACATTA
*
680881 TTTTAACAAAAGGA-T-
1 TTTTAACAAAA-CATTA
680896 TTTTAA-AAAACATTA
1 TTTTAACAAAACATTA
*
680911 TTTTAATAAAA
1 TTTTAACAAAA
680922 ACTTTTAATT
Statistics
Matches: 34, Mismatches: 2, Indels: 9
0.76 0.04 0.20
Matches are distributed among these distances:
13 1 0.03
14 5 0.15
15 18 0.53
16 9 0.26
17 1 0.03
ACGTcount: A:0.52, C:0.05, G:0.04, T:0.39
Consensus pattern (16 bp):
TTTTAACAAAACATTA
Found at i:680893 original size:30 final size:30
Alignment explanation
Indices: 680859--680921 Score: 108
Period size: 30 Copynumber: 2.1 Consensus size: 30
680849 TCCAAAAAAG
*
680859 AAAGGGTTTTTAAAAAACATTATTTTAACA
1 AAAGGATTTTTAAAAAACATTATTTTAACA
*
680889 AAAGGATTTTTAAAAAACATTATTTTAATA
1 AAAGGATTTTTAAAAAACATTATTTTAACA
680919 AAA
1 AAA
680922 ACTTTTAATT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.51, C:0.05, G:0.08, T:0.37
Consensus pattern (30 bp):
AAAGGATTTTTAAAAAACATTATTTTAACA
Found at i:684281 original size:31 final size:31
Alignment explanation
Indices: 684243--684303 Score: 86
Period size: 31 Copynumber: 2.0 Consensus size: 31
684233 AAGGGTAAAT
* *
684243 TATGTTTTAGTACCTCAACTATTAGTTTTTG
1 TATGTTTTAGTACCTAAACTATTAATTTTTG
* *
684274 TATGTTTTAGTATCTAAACTTTTAATTTTT
1 TATGTTTTAGTACCTAAACTATTAATTTTT
684304 TTCAAAATTA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.25, C:0.10, G:0.10, T:0.56
Consensus pattern (31 bp):
TATGTTTTAGTACCTAAACTATTAATTTTTG
Found at i:695558 original size:21 final size:21
Alignment explanation
Indices: 695530--695597 Score: 95
Period size: 20 Copynumber: 3.3 Consensus size: 21
695520 AAATTCGCGT
695530 TGCG-ATTACGTAAATCGCAA
1 TGCGAATTACGTAAATCGCAA
* *
695550 TGCGAATTAGGAAAATCGCAA
1 TGCGAATTACGTAAATCGCAA
695571 TGCGAA-TACGTAAATCGCAA
1 TGCGAATTACGTAAATCGCAA
*
695591 TGTGAAT
1 TGCGAAT
695598 CTGACTATCG
Statistics
Matches: 41, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
20 21 0.51
21 20 0.49
ACGTcount: A:0.38, C:0.16, G:0.22, T:0.24
Consensus pattern (21 bp):
TGCGAATTACGTAAATCGCAA
Found at i:696193 original size:20 final size:20
Alignment explanation
Indices: 696138--696186 Score: 73
Period size: 20 Copynumber: 2.5 Consensus size: 20
696128 TAGTTTTGAG
696138 AATGAAAATCGCAACGCGGA
1 AATGAAAATCGCAACGCGGA
**
696158 AATGACTATCGCAACGC-GA
1 AATGAAAATCGCAACGCGGA
696177 AATGAAAATC
1 AATGAAAATC
696187 ACCAACGAGA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
19 10 0.40
20 15 0.60
ACGTcount: A:0.45, C:0.20, G:0.20, T:0.14
Consensus pattern (20 bp):
AATGAAAATCGCAACGCGGA
Found at i:696289 original size:20 final size:20
Alignment explanation
Indices: 696255--696312 Score: 73
Period size: 20 Copynumber: 2.9 Consensus size: 20
696245 GCGATTCTCT
**
696255 CGTTGCGATAGTCATTTCCG
1 CGTTGCGATTTTCATTTCCG
*
696275 CGTTGCGATTTTCATTAT-CT
1 CGTTGCGATTTTCATT-TCCG
696295 CGTTGCGATTTTCATTTC
1 CGTTGCGATTTTCATTTC
696313 AACCAAAAGA
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
19 1 0.03
20 31 0.94
21 1 0.03
ACGTcount: A:0.14, C:0.22, G:0.19, T:0.45
Consensus pattern (20 bp):
CGTTGCGATTTTCATTTCCG
Found at i:698208 original size:94 final size:93
Alignment explanation
Indices: 698038--698246 Score: 350
Period size: 94 Copynumber: 2.2 Consensus size: 93
698028 GAAGTTAGTA
698038 TTTGTCTTTTGGTTGAAGTAAATTTTCGGTTGCTGCTGCCAATTCTGCTAAACTGTGTATTCTTT
1 TTTGTCTTTTGGTTGAAGTAAATTTTCGGTT-CTGCTGCCAATTCTGCTAAACTGTGTATTCTTT
*
698103 AACACTGTGAAGTTAGTATTTGTCTTTGT
65 AACACTCTGAAGTTAGTATTTGTCTTTGT
698132 TTTGTCTTTTGGTTGAAAGTAAATTTGTTCGG-T-TGCTGCCAATTCTGCTAAACTGTGTATTCT
1 TTTGTCTTTTGGTTG-AAGTAAA-TT-TTCGGTTCTGCTGCCAATTCTGCTAAACTGTGTATTCT
*
698195 TTAATACTCTGAAGTTAGTATTTGTCTTTGT
63 TTAACACTCTGAAGTTAGTATTTGTCTTTGT
698226 TTTGTCTTTTGGTTGAAGTAA
1 TTTGTCTTTTGGTTGAAGTAA
698247 TGTAATCCAT
Statistics
Matches: 110, Mismatches: 2, Indels: 7
0.92 0.02 0.06
Matches are distributed among these distances:
93 6 0.05
94 89 0.81
95 7 0.06
96 3 0.03
97 5 0.05
ACGTcount: A:0.20, C:0.12, G:0.20, T:0.48
Consensus pattern (93 bp):
TTTGTCTTTTGGTTGAAGTAAATTTTCGGTTCTGCTGCCAATTCTGCTAAACTGTGTATTCTTTA
ACACTCTGAAGTTAGTATTTGTCTTTGT
Found at i:698404 original size:18 final size:18
Alignment explanation
Indices: 698344--698430 Score: 74
Period size: 18 Copynumber: 4.9 Consensus size: 18
698334 TGTCTTTTGG
**
698344 TTTCGCGTTGTAATTTCA
1 TTTCGCGTTGCGATTTCA
698362 TTTCGCGTTGCGA-TTC-
1 TTTCGCGTTGCGATTTCA
*
698378 --TCTCGTTGCGATTTCA
1 TTTCGCGTTGCGATTTCA
*
698394 TTTCGCGTTGCGATAGTCA
1 TTTCGCGTTGCGAT-TTCA
*
698413 TTTTTCACGTTGCGATTT
1 --TTTCGCGTTGCGATTT
698431 TAAGTTCCAG
Statistics
Matches: 55, Mismatches: 7, Indels: 12
0.74 0.09 0.16
Matches are distributed among these distances:
14 10 0.18
15 3 0.05
17 3 0.05
18 22 0.40
19 3 0.05
20 1 0.02
21 13 0.24
ACGTcount: A:0.13, C:0.21, G:0.21, T:0.46
Consensus pattern (18 bp):
TTTCGCGTTGCGATTTCA
Done.