Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01003296.1 Hibiscus syriacus cultivar Beakdansim tig00006931_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: 109601
ACGTcount: A:0.33, C:0.18, G:0.16, T:0.33
Found at i:1429 original size:10 final size:10
Alignment explanation
Indices: 1414--1441 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
1404 AAAACTCAAA
1414 TTCCCTAAAT
1 TTCCCTAAAT
1424 TTCCCTAAAT
1 TTCCCTAAAT
1434 TTCCCTAA
1 TTCCCTAA
1442 CCACATCCTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.29, C:0.32, G:0.00, T:0.39
Consensus pattern (10 bp):
TTCCCTAAAT
Found at i:2023 original size:14 final size:14
Alignment explanation
Indices: 2004--2036 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
1994 CCAAACTGAT
*
2004 TCAACTCGTTTGAG
1 TCAACTCGTTAGAG
2018 TCAACTCGTTAGAG
1 TCAACTCGTTAGAG
2032 TCAAC
1 TCAAC
2037 CTGTTGACAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.27, C:0.24, G:0.18, T:0.30
Consensus pattern (14 bp):
TCAACTCGTTAGAG
Found at i:6771 original size:13 final size:13
Alignment explanation
Indices: 6753--6777 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
6743 GTCAACACGT
6753 TAACTTTGACCAC
1 TAACTTTGACCAC
6766 TAACTTTGACCA
1 TAACTTTGACCA
6778 AACAGTCAAT
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:0.28, G:0.08, T:0.32
Consensus pattern (13 bp):
TAACTTTGACCAC
Found at i:8991 original size:96 final size:96
Alignment explanation
Indices: 8860--9043 Score: 262
Period size: 96 Copynumber: 1.9 Consensus size: 96
8850 ATTTATTGGC
** *
8860 TTATGAACTATGGCTACATGGTATATGTTCTCTGGTTACATGTTTTCACTAGAAAATAT-ATAAG
1 TTATGAACTATGGCTACATGAAATATGTTATCTGGTTACATGTTTTCACTAGAAAATATGAT-AG
8924 TTCCTGATTTATGGATCATGGAATATACGAGT
65 TTCCTGATTTATGGATCATGGAATATACGAGT
* * * * * * *
8956 TTATGAACTATGGTTACCTGAAATGTGTTATCTGGTTTCCTGTTTTCACTGGAAAATATGATTGT
1 TTATGAACTATGGCTACATGAAATATGTTATCTGGTTACATGTTTTCACTAGAAAATATGATAGT
9021 TCCTGATTTATGGATCATGGAAT
66 TCCTGATTTATGGATCATGGAAT
9044 CTACTGGTTA
Statistics
Matches: 77, Mismatches: 10, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
96 75 0.97
97 2 0.03
ACGTcount: A:0.28, C:0.12, G:0.20, T:0.40
Consensus pattern (96 bp):
TTATGAACTATGGCTACATGAAATATGTTATCTGGTTACATGTTTTCACTAGAAAATATGATAGT
TCCTGATTTATGGATCATGGAATATACGAGT
Found at i:10491 original size:48 final size:49
Alignment explanation
Indices: 10381--10511 Score: 144
Period size: 48 Copynumber: 2.7 Consensus size: 49
10371 ATATAAATTT
* *
10381 CTTACCTTTTATCCCATAAGCTCATAAGCTTA---TTTTTACCAAAATA
1 CTTACCATTTATTCCATAAGCTCATAAGCTTATTTTTTTTACCAAAATA
* ** *
10427 CTTACCATTTAAATTCCATAAGCTCGTAAGCTTATTTTTTTTTTCAATATA
1 CTTACCATTT--ATTCCATAAGCTCATAAGCTTATTTTTTTTACCAAAATA
* *
10478 CTTACCA-TTATTCCGTAAGTTCATAAGCTTATTT
1 CTTACCATTTATTCCATAAGCTCATAAGCTTATTT
10512 GCATGGTTAC
Statistics
Matches: 71, Mismatches: 9, Indels: 8
0.81 0.10 0.09
Matches are distributed among these distances:
46 9 0.13
48 42 0.59
50 2 0.03
51 18 0.25
ACGTcount: A:0.30, C:0.21, G:0.06, T:0.44
Consensus pattern (49 bp):
CTTACCATTTATTCCATAAGCTCATAAGCTTATTTTTTTTACCAAAATA
Found at i:16511 original size:22 final size:22
Alignment explanation
Indices: 16486--16535 Score: 82
Period size: 22 Copynumber: 2.3 Consensus size: 22
16476 AACAGTGGGA
* *
16486 GAATTGATTCCCTGTAGCAGGG
1 GAATCGATTCCCTGAAGCAGGG
16508 GAATCGATTCCCTGAAGCAGGG
1 GAATCGATTCCCTGAAGCAGGG
16530 GAATCG
1 GAATCG
16536 GTACCCCTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.26, C:0.20, G:0.32, T:0.22
Consensus pattern (22 bp):
GAATCGATTCCCTGAAGCAGGG
Found at i:17004 original size:45 final size:47
Alignment explanation
Indices: 16882--17009 Score: 154
Period size: 48 Copynumber: 2.8 Consensus size: 47
16872 ATATAAATTT
* *
16882 CTTACC-TTTTATCCCATAAGCTCATAAGCTTATTTTTACCAAAATA
1 CTTACCATTTAATTCCATAAGCTCATAAGCTTATTTTTACCAAAATA
* ** *
16928 CTTACCATTTAAATTCCATAAGCTCGTAAGCTTATTTTTTTCAATATA
1 CTTACCATTT-AATTCCATAAGCTCATAAGCTTATTTTTACCAAAATA
* *
16976 CTTGCCA-TT-ATTCCGTAAGCTCATAAGCTTATTT
1 CTTACCATTTAATTCCATAAGCTCATAAGCTTATTT
17010 CCATGGTTAC
Statistics
Matches: 71, Mismatches: 9, Indels: 5
0.84 0.11 0.06
Matches are distributed among these distances:
45 23 0.32
46 6 0.08
47 5 0.07
48 37 0.52
ACGTcount: A:0.30, C:0.22, G:0.07, T:0.41
Consensus pattern (47 bp):
CTTACCATTTAATTCCATAAGCTCATAAGCTTATTTTTACCAAAATA
Found at i:18073 original size:14 final size:14
Alignment explanation
Indices: 18054--18087 Score: 68
Period size: 14 Copynumber: 2.4 Consensus size: 14
18044 ACACTCATTT
18054 CAATTCTCAAACAA
1 CAATTCTCAAACAA
18068 CAATTCTCAAACAA
1 CAATTCTCAAACAA
18082 CAATTC
1 CAATTC
18088 CCAGCGTAGT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.47, C:0.29, G:0.00, T:0.24
Consensus pattern (14 bp):
CAATTCTCAAACAA
Found at i:28329 original size:23 final size:22
Alignment explanation
Indices: 28299--28371 Score: 92
Period size: 23 Copynumber: 3.2 Consensus size: 22
28289 AGGTGCCACA
* *
28299 TAGAATGTCCCAAAGAACCGCG
1 TAGAATGTCCCGAAGGACCGCG
*
28321 TAGACATGTCCCGAAGGACCACG
1 TAGA-ATGTCCCGAAGGACCGCG
28344 TAGAATTGTCCCGAAGGACCGCG
1 TAGAA-TGTCCCGAAGGACCGCG
*
28367 CAGAA
1 TAGAA
28372 CCCTCGACTC
Statistics
Matches: 44, Mismatches: 5, Indels: 3
0.85 0.10 0.06
Matches are distributed among these distances:
22 5 0.11
23 39 0.89
ACGTcount: A:0.33, C:0.27, G:0.26, T:0.14
Consensus pattern (22 bp):
TAGAATGTCCCGAAGGACCGCG
Found at i:28610 original size:9 final size:9
Alignment explanation
Indices: 28596--28640 Score: 62
Period size: 9 Copynumber: 5.4 Consensus size: 9
28586 TTATCATGAA
28596 ATCACATAG
1 ATCACATAG
28605 ATCACATA-
1 ATCACATAG
28613 A-CACATAG
1 ATCACATAG
28621 ATCACATA-
1 ATCACATAG
28629 A-CACATAG
1 ATCACATAG
28637 ATCA
1 ATCA
28641 TGGTCACATA
Statistics
Matches: 32, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
7 12 0.38
8 4 0.12
9 16 0.50
ACGTcount: A:0.49, C:0.24, G:0.07, T:0.20
Consensus pattern (9 bp):
ATCACATAG
Found at i:28617 original size:16 final size:16
Alignment explanation
Indices: 28598--28640 Score: 86
Period size: 16 Copynumber: 2.7 Consensus size: 16
28588 ATCATGAAAT
28598 CACATAGATCACATAA
1 CACATAGATCACATAA
28614 CACATAGATCACATAA
1 CACATAGATCACATAA
28630 CACATAGATCA
1 CACATAGATCA
28641 TGGTCACATA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 27 1.00
ACGTcount: A:0.49, C:0.26, G:0.07, T:0.19
Consensus pattern (16 bp):
CACATAGATCACATAA
Found at i:30031 original size:27 final size:27
Alignment explanation
Indices: 29983--30034 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 27
29973 ACTGCTACAG
*
29983 TAACGTGAACAGTGTACCGATGCACAT
1 TAACGTGAACAGTGCACCGATGCACAT
* **
30010 TAACGTGAATAGTGCATTGATGCAC
1 TAACGTGAACAGTGCACCGATGCAC
30035 TACTACAGTA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 21 1.00
ACGTcount: A:0.33, C:0.19, G:0.23, T:0.25
Consensus pattern (27 bp):
TAACGTGAACAGTGCACCGATGCACAT
Found at i:30511 original size:46 final size:45
Alignment explanation
Indices: 30443--30550 Score: 155
Period size: 46 Copynumber: 2.4 Consensus size: 45
30433 ATAAAATCTT
* *
30443 TTACCATTTATCCCATAAGCTCGTAAGCTTATTTTACCAATATAC
1 TTACCATTTATACCATAAGCTCGTAAGCTTATTTTACCAATACAC
*
30488 TTACCATTTAATATCATAAGCTCGTAAGCTTATTTTACCAATACAC
1 TTACCATTT-ATACCATAAGCTCGTAAGCTTATTTTACCAATACAC
* *
30534 TTGCCA-TTATTCCATAA
1 TTACCATTTATACCATAA
30551 CCATATACCA
Statistics
Matches: 56, Mismatches: 6, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
44 7 0.12
45 11 0.20
46 38 0.68
ACGTcount: A:0.32, C:0.23, G:0.06, T:0.38
Consensus pattern (45 bp):
TTACCATTTATACCATAAGCTCGTAAGCTTATTTTACCAATACAC
Found at i:30572 original size:20 final size:20
Alignment explanation
Indices: 30547--30589 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
30537 CCATTATTCC
* *
30547 ATAACCATATACCATAGACA
1 ATAACCATAAACAATAGACA
30567 ATAACCATAAACAATAGACA
1 ATAACCATAAACAATAGACA
30587 ATA
1 ATA
30590 GCCCAATATA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.56, C:0.21, G:0.05, T:0.19
Consensus pattern (20 bp):
ATAACCATAAACAATAGACA
Found at i:30686 original size:33 final size:33
Alignment explanation
Indices: 30649--30715 Score: 116
Period size: 33 Copynumber: 2.0 Consensus size: 33
30639 ACTGTAGTGC
*
30649 TAATCCATATGACACATAAGGTTGTGTCCACCA
1 TAATCCATATGACACATAAGGTCGTGTCCACCA
*
30682 TAATCCGTATGACACATAAGGTCGTGTCCACCA
1 TAATCCATATGACACATAAGGTCGTGTCCACCA
30715 T
1 T
30716 TTGTACTAGG
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.31, C:0.25, G:0.16, T:0.27
Consensus pattern (33 bp):
TAATCCATATGACACATAAGGTCGTGTCCACCA
Found at i:36920 original size:65 final size:65
Alignment explanation
Indices: 36787--36946 Score: 209
Period size: 65 Copynumber: 2.5 Consensus size: 65
36777 TGCACTAATA
* *
36787 GTGCATCGATGCATCAAGTGCATTCTATG-TTTCAAAATAGCCAAAGTGCATCGATGCATGGCTG
1 GTGCATCGATGCATCAAATGCATTCGATGTTTTCAAAATAGCCAAAGTGCATCGATGCATGGCTG
* **
36851 GTGCATCGATGCATCAAATGCATTCGATGTTTTCATAAA-ATCCTCAGTGCATCGATGCATGG-T
1 GTGCATCGATGCATCAAATGCATTCGATGTTTTCA-AAATAGCCAAAGTGCATCGATGCATGGCT
*
36914 AT
65 -G
* *
36916 GTGCATAGATGCATGAAATGCATTCGATGTT
1 GTGCATCGATGCATCAAATGCATTCGATGTT
36947 CAATTTAATT
Statistics
Matches: 85, Mismatches: 8, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
64 28 0.33
65 54 0.64
66 3 0.04
ACGTcount: A:0.28, C:0.19, G:0.23, T:0.31
Consensus pattern (65 bp):
GTGCATCGATGCATCAAATGCATTCGATGTTTTCAAAATAGCCAAAGTGCATCGATGCATGGCTG
Found at i:36994 original size:65 final size:63
Alignment explanation
Indices: 36787--36996 Score: 196
Period size: 65 Copynumber: 3.3 Consensus size: 63
36777 TGCACTAATA
* * * *
36787 GTGCATCGATGCATCAAGTGCATTCTATGTTTCA-AAATAGC-CAAAGTGCATCGATGCATGGCT
1 GTGCATCGATGCATCAAATGCATTCGATGTTTCATAAA-ATCTC--AGTGCATCGATGCATGGTT
36850 G
63 G
36851 GTGCATCGATGCATCAAATGCATTCGATGTTTTCATAAAATCCTCAGTGCATCGATGCATGGTAT
1 GTGCATCGATGCATCAAATGCATTCGATG-TTTCATAAAAT-CTCAGTGCATCGATGCATGGT-T
36916 -
63 G
* * ** * *
36916 GTGCATAGATGCATGAAATGCATTCGATG-TTCAATTTAAT-TTATGGTGCATTGATGCATGGAT
1 GTGCATCGATGCATCAAATGCATTCGATGTTTC-ATAAAATCTCA--GTGCATCGATGCATGG-T
36979 TG
62 TG
*
36981 GTGCATCGGTGCATCA
1 GTGCATCGATGCATCA
36997 CTCTGAAAAA
Statistics
Matches: 123, Mismatches: 13, Indels: 19
0.79 0.08 0.12
Matches are distributed among these distances:
62 2 0.02
63 3 0.02
64 48 0.39
65 64 0.52
66 5 0.04
67 1 0.01
ACGTcount: A:0.27, C:0.18, G:0.23, T:0.32
Consensus pattern (63 bp):
GTGCATCGATGCATCAAATGCATTCGATGTTTCATAAAATCTCAGTGCATCGATGCATGGTTG
Found at i:38764 original size:21 final size:21
Alignment explanation
Indices: 38738--38789 Score: 95
Period size: 21 Copynumber: 2.5 Consensus size: 21
38728 TGTATCAATA
38738 CACTGCTACAGTGCATCGATG
1 CACTGCTACAGTGCATCGATG
38759 CACTGCTACAGTGCATCGATG
1 CACTGCTACAGTGCATCGATG
*
38780 CACTACTACA
1 CACTGCTACA
38790 ATACTGCTAC
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.27, C:0.31, G:0.19, T:0.23
Consensus pattern (21 bp):
CACTGCTACAGTGCATCGATG
Found at i:48652 original size:19 final size:19
Alignment explanation
Indices: 48628--48675 Score: 87
Period size: 19 Copynumber: 2.5 Consensus size: 19
48618 TCTACACTAT
48628 GGTATCGATATTATACTTC
1 GGTATCGATATTATACTTC
48647 GGTATCGATATTATACTTC
1 GGTATCGATATTATACTTC
*
48666 AGTATCGATA
1 GGTATCGATA
48676 CCCAATTTCG
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.29, C:0.15, G:0.17, T:0.40
Consensus pattern (19 bp):
GGTATCGATATTATACTTC
Found at i:50319 original size:24 final size:24
Alignment explanation
Indices: 50285--50343 Score: 82
Period size: 24 Copynumber: 2.5 Consensus size: 24
50275 TAGTCGAAAC
* *
50285 TGCCGCATAGAATGTGCACCGAAG
1 TGCCACATAGAATATGCACCGAAG
* *
50309 TGTCACGTAGAATATGCACCGAAG
1 TGCCACATAGAATATGCACCGAAG
50333 TGCCACATAGA
1 TGCCACATAGA
50344 TTTGCCCCGA
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.32, C:0.24, G:0.25, T:0.19
Consensus pattern (24 bp):
TGCCACATAGAATATGCACCGAAG
Found at i:50514 original size:15 final size:15
Alignment explanation
Indices: 50494--50574 Score: 72
Period size: 15 Copynumber: 5.4 Consensus size: 15
50484 AGTATCTTTT
*
50494 ATTCACATAGAATAC
1 ATTCACATAGAACAC
*
50509 ATTCACATAGAACAT
1 ATTCACATAGAACAC
* *
50524 TTTCACATAGAACAT
1 ATTCACATAGAACAC
* * * *
50539 TTTTACGTAGAACAT
1 ATTCACATAGAACAC
* *
50554 ATTCACATATAACAT
1 ATTCACATAGAACAC
50569 ATTCAC
1 ATTCAC
50575 TTACTAATAA
Statistics
Matches: 57, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
15 57 1.00
ACGTcount: A:0.42, C:0.20, G:0.06, T:0.32
Consensus pattern (15 bp):
ATTCACATAGAACAC
Found at i:50529 original size:30 final size:30
Alignment explanation
Indices: 50493--50574 Score: 92
Period size: 30 Copynumber: 2.7 Consensus size: 30
50483 AAGTATCTTT
*
50493 TATTCACATAGAATACATTCACATAGAACA
1 TATTCACATAGAACACATTCACATAGAACA
* ** * *
50523 TTTTCACATAGAACATTTTTACGTAGAACA
1 TATTCACATAGAACACATTCACATAGAACA
* *
50553 TATTCACATATAACATATTCAC
1 TATTCACATAGAACACATTCAC
50575 TTACTAATAA
Statistics
Matches: 42, Mismatches: 10, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
30 42 1.00
ACGTcount: A:0.41, C:0.20, G:0.06, T:0.33
Consensus pattern (30 bp):
TATTCACATAGAACACATTCACATAGAACA
Found at i:51085 original size:20 final size:20
Alignment explanation
Indices: 51062--51110 Score: 64
Period size: 21 Copynumber: 2.4 Consensus size: 20
51052 TTACTCTTGG
51062 TATCGATAC-CTCCACATCAA
1 TATCGATACACTCCA-ATCAA
*
51082 TATCGATACTACTTCAATCAA
1 TATCGATAC-ACTCCAATCAA
51103 TATCGATA
1 TATCGATA
51111 ATGCTCATTT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
20 9 0.35
21 13 0.50
22 4 0.15
ACGTcount: A:0.37, C:0.27, G:0.06, T:0.31
Consensus pattern (20 bp):
TATCGATACACTCCAATCAA
Found at i:57161 original size:24 final size:24
Alignment explanation
Indices: 57140--57187 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
57130 AAACTGCCGT
* *
57140 GTAGAATTTGCACCGATGTGCCAC
1 GTAGAATATGCACCGAAGTGCCAC
*
57164 GTAGAATATGCACTGAAGTGCCAC
1 GTAGAATATGCACCGAAGTGCCAC
57188 ATATATTTAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.29, C:0.23, G:0.25, T:0.23
Consensus pattern (24 bp):
GTAGAATATGCACCGAAGTGCCAC
Found at i:57386 original size:15 final size:15
Alignment explanation
Indices: 57342--57396 Score: 58
Period size: 15 Copynumber: 3.7 Consensus size: 15
57332 AAGTATCTTT
57342 TATTCACATAAAACA
1 TATTCACATAAAACA
* *
57357 T-TTCCACGTAGAACA
1 TATT-CACATAAAACA
*
57372 TATTCACATATAACA
1 TATTCACATAAAACA
*
57387 CATTCACATA
1 TATTCACATA
57397 CTAATAAAAT
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
14 2 0.06
15 29 0.88
16 2 0.06
ACGTcount: A:0.44, C:0.24, G:0.04, T:0.29
Consensus pattern (15 bp):
TATTCACATAAAACA
Found at i:57906 original size:20 final size:20
Alignment explanation
Indices: 57861--57912 Score: 61
Period size: 20 Copynumber: 2.6 Consensus size: 20
57851 TCTTCAATTA
* *
57861 CAGTATCGGTACCTTACTCT
1 CAGTATCGATACCTTACACT
*
57881 CGGTATCGATACC-TACACAT
1 CAGTATCGATACCTTACAC-T
57901 CAGTATCGATAC
1 CAGTATCGATAC
57913 TACTTCAATC
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
19 4 0.15
20 23 0.85
ACGTcount: A:0.27, C:0.29, G:0.15, T:0.29
Consensus pattern (20 bp):
CAGTATCGATACCTTACACT
Found at i:59625 original size:21 final size:21
Alignment explanation
Indices: 59595--59744 Score: 214
Period size: 21 Copynumber: 7.2 Consensus size: 21
59585 AATATGTAAA
*
59595 TCGCACTGCGATTTTCCGAAT
1 TCGCATTGCGATTTTCCGAAT
59616 TCGCATTGCGATTTTCCGAAT
1 TCGCATTGCGATTTTCCGAAT
59637 TCGCATTGCGATTTTCCGAAT
1 TCGCATTGCGATTTTCCGAAT
59658 TCGCATTGCGATTTTCCGAAT
1 TCGCATTGCGATTTTCCGAAT
*
59679 TCGCATTGCGATTTTCCAAAT
1 TCGCATTGCGATTTTCCGAAT
** *
59700 TCGCAACGCGATTTT-CAAAT
1 TCGCATTGCGATTTTCCGAAT
* * *
59720 TCGCAATGCGGTTTT-CAAAT
1 TCGCATTGCGATTTTCCGAAT
59740 TCGCA
1 TCGCA
59745 ACGCGAATAT
Statistics
Matches: 123, Mismatches: 6, Indels: 1
0.95 0.05 0.01
Matches are distributed among these distances:
20 28 0.23
21 95 0.77
ACGTcount: A:0.22, C:0.25, G:0.18, T:0.35
Consensus pattern (21 bp):
TCGCATTGCGATTTTCCGAAT
Found at i:59671 original size:63 final size:62
Alignment explanation
Indices: 59566--59744 Score: 220
Period size: 63 Copynumber: 2.9 Consensus size: 62
59556 CGCAACTCAG
* * *
59566 TTTCCAAATTCGCAACTCGAATATGT-AAA-TCGCACTGCGATTTTCCGAATTCGCATTGCGAT
1 TTTCCAAATTCGCAACGCG-AT-TTTCAAATTCGCAATGCGATTTTCCGAATTCGCATTGCGAT
* ** * *
59628 TTTCCGAATTCGCATTGCGATTTTCCGAATTCGCATTGCGATTTTCCGAATTCGCATTGCGAT
1 TTTCCAAATTCGCAACGCGATTTT-CAAATTCGCAATGCGATTTTCCGAATTCGCATTGCGAT
* *
59691 TTTCCAAATTCGCAACGCGATTTTCAAATTCGCAATGCGGTTTT-CAAATTCGCA
1 TTTCCAAATTCGCAACGCGATTTTCAAATTCGCAATGCGATTTTCCGAATTCGCA
59745 ACGCGAATAT
Statistics
Matches: 100, Mismatches: 14, Indels: 7
0.83 0.12 0.06
Matches are distributed among these distances:
60 2 0.02
61 11 0.11
62 34 0.34
63 53 0.53
ACGTcount: A:0.25, C:0.24, G:0.17, T:0.35
Consensus pattern (62 bp):
TTTCCAAATTCGCAACGCGATTTTCAAATTCGCAATGCGATTTTCCGAATTCGCATTGCGAT
Found at i:59769 original size:20 final size:20
Alignment explanation
Indices: 59744--59781 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
59734 TCAAATTCGC
59744 AACGCGAATATGTAAATCGT
1 AACGCGAATATGTAAATCGT
*
59764 AACGCGAATCTGTAAATC
1 AACGCGAATATGTAAATC
59782 ACAGTGCGAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.39, C:0.18, G:0.18, T:0.24
Consensus pattern (20 bp):
AACGCGAATATGTAAATCGT
Found at i:59790 original size:20 final size:20
Alignment explanation
Indices: 59767--59804 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
59757 AAATCGTAAC
59767 GCGAATCTGTAAATCACAGT
1 GCGAATCTGTAAATCACAGT
* *
59787 GCGAATTTGTAACTCACA
1 GCGAATCTGTAAATCACA
59805 ACACAAGTCA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.34, C:0.21, G:0.18, T:0.26
Consensus pattern (20 bp):
GCGAATCTGTAAATCACAGT
Found at i:59885 original size:41 final size:40
Alignment explanation
Indices: 59812--59913 Score: 116
Period size: 41 Copynumber: 2.5 Consensus size: 40
59802 ACAACACAAG
*
59812 TCAAATTCGCAA-TACGATTTCCAAATTCACAACATTGAATT
1 TCAAATTCGCAACT-CGATTTCCAAATTCACAAC-GTGAATT
** *
59853 TCAAATTCGCAACTCGATTTCTGAATTTACAACGTGAATT
1 TCAAATTCGCAACTCGATTTCCAAATTCACAACGTGAATT
* *
59893 TGGAAAATCGCAACTCGATTT
1 T-CAAATTCGCAACTCGATTT
59914 TCGAATTCGC
Statistics
Matches: 53, Mismatches: 6, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
40 7 0.13
41 45 0.85
42 1 0.02
ACGTcount: A:0.35, C:0.21, G:0.12, T:0.32
Consensus pattern (40 bp):
TCAAATTCGCAACTCGATTTCCAAATTCACAACGTGAATT
Found at i:59923 original size:20 final size:20
Alignment explanation
Indices: 59848--59926 Score: 63
Period size: 20 Copynumber: 3.9 Consensus size: 20
59838 TCACAACATT
*
59848 GAATTTCAAATTCGCAACTC
1 GAATTTCGAATTCGCAACTC
**
59868 G-ATTTCTGAATTTACAACGT-
1 GAATTTC-GAATTCGCAAC-TC
* *
59888 GAATTTGGAAAATCGCAACTC
1 GAATTTCG-AATTCGCAACTC
*
59909 GATTTTCGAATTCGCAAC
1 GAATTTCGAATTCGCAAC
59927 ACGAGTTTTA
Statistics
Matches: 44, Mismatches: 10, Indels: 10
0.69 0.16 0.16
Matches are distributed among these distances:
19 5 0.11
20 21 0.48
21 18 0.41
ACGTcount: A:0.33, C:0.20, G:0.15, T:0.32
Consensus pattern (20 bp):
GAATTTCGAATTCGCAACTC
Found at i:59954 original size:18 final size:20
Alignment explanation
Indices: 59919--59966 Score: 64
Period size: 18 Copynumber: 2.5 Consensus size: 20
59909 GATTTTCGAA
59919 TTCGCAACACGAGTTTTAAT
1 TTCGCAACACGAGTTTTAAT
*
59939 TTCGCAACA-G-GTTTTATT
1 TTCGCAACACGAGTTTTAAT
*
59957 TTCGCCACAC
1 TTCGCAACAC
59967 AAATGGTTTG
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
18 15 0.60
19 1 0.04
20 9 0.36
ACGTcount: A:0.25, C:0.25, G:0.15, T:0.35
Consensus pattern (20 bp):
TTCGCAACACGAGTTTTAAT
Found at i:60759 original size:12 final size:12
Alignment explanation
Indices: 60738--60771 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
60728 ACCACATTTC
*
60738 CAATACCAAACA
1 CAATATCAAACA
60750 CAATATCAAACA
1 CAATATCAAACA
*
60762 CAATCTCAAA
1 CAATATCAAA
60772 ACCTACAACA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.56, C:0.29, G:0.00, T:0.15
Consensus pattern (12 bp):
CAATATCAAACA
Found at i:63244 original size:18 final size:18
Alignment explanation
Indices: 63221--63255 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
63211 AGCAAAAGGA
63221 AATCAAAATCAAAATCAT
1 AATCAAAATCAAAATCAT
*
63239 AATCAAAATCACAATCA
1 AATCAAAATCAAAATCA
63256 CAACCGGCTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.60, C:0.20, G:0.00, T:0.20
Consensus pattern (18 bp):
AATCAAAATCAAAATCAT
Found at i:63258 original size:6 final size:6
Alignment explanation
Indices: 63220--63255 Score: 54
Period size: 6 Copynumber: 6.0 Consensus size: 6
63210 AAGCAAAAGG
* *
63220 AAATCA AAATCA AAATCA TAATCA AAATCA CAATCA
1 AAATCA AAATCA AAATCA AAATCA AAATCA AAATCA
63256 CAACCGGCTT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.61, C:0.19, G:0.00, T:0.19
Consensus pattern (6 bp):
AAATCA
Found at i:63548 original size:20 final size:20
Alignment explanation
Indices: 63509--63554 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 20
63499 TGCGATTGTT
63509 GCGAAAGTCAAATTCACAAC
1 GCGAAAGTCAAATTCACAAC
* **
63529 GTGAAAGTCAAATTTGCAAC
1 GCGAAAGTCAAATTCACAAC
63549 GCGAAA
1 GCGAAA
63555 ATCGAAACGC
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.43, C:0.20, G:0.20, T:0.17
Consensus pattern (20 bp):
GCGAAAGTCAAATTCACAAC
Found at i:65045 original size:21 final size:21
Alignment explanation
Indices: 65021--65103 Score: 73
Period size: 21 Copynumber: 4.0 Consensus size: 21
65011 GAATGGTGGG
65021 AGGGGCCTCTTGAACAATGAC
1 AGGGGCCTCTTGAACAATGAC
** **
65042 AGGGGCCTCTTGAACGGTGGG
1 AGGGGCCTCTTGAACAATGAC
* *
65063 AGTGACCTCTTGAA-AGAT-A-
1 AGGGGCCTCTTGAACA-ATGAC
*
65082 AGGGGCCTCTTGAACGATGAC
1 AGGGGCCTCTTGAACAATGAC
65103 A
1 A
65104 TGTGAATCGG
Statistics
Matches: 46, Mismatches: 12, Indels: 8
0.70 0.18 0.12
Matches are distributed among these distances:
19 14 0.30
20 1 0.02
21 31 0.67
ACGTcount: A:0.27, C:0.20, G:0.33, T:0.20
Consensus pattern (21 bp):
AGGGGCCTCTTGAACAATGAC
Found at i:65097 original size:40 final size:42
Alignment explanation
Indices: 65009--65097 Score: 121
Period size: 42 Copynumber: 2.2 Consensus size: 42
64999 AATCAGGCTT
* *
65009 TTGAATGGTGGGAGGGGCCTCTTGAACAATGACAGGGGCCTC
1 TTGAACGGTGGGAGGGACCTCTTGAACAATGACAGGGGCCTC
*
65051 TTGAACGGTGGGAGTGACCTCTTGAA-AGAT-A-AGGGGCCTC
1 TTGAACGGTGGGAGGGACCTCTTGAACA-ATGACAGGGGCCTC
65091 TTGAACG
1 TTGAACG
65098 ATGACATGTG
Statistics
Matches: 43, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
40 16 0.37
41 2 0.05
42 25 0.58
ACGTcount: A:0.24, C:0.18, G:0.36, T:0.22
Consensus pattern (42 bp):
TTGAACGGTGGGAGGGACCTCTTGAACAATGACAGGGGCCTC
Found at i:65471 original size:21 final size:21
Alignment explanation
Indices: 65447--65491 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
65437 ATTGTCATCG
65447 CGTAAA-ACCTCTACCTCACCA
1 CGTAAAGA-CTCTACCTCACCA
* *
65468 CGTAAAGACTGTACCTCATCA
1 CGTAAAGACTCTACCTCACCA
65489 CGT
1 CGT
65492 CATGTACAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 20 0.95
22 1 0.05
ACGTcount: A:0.31, C:0.36, G:0.11, T:0.22
Consensus pattern (21 bp):
CGTAAAGACTCTACCTCACCA
Found at i:65531 original size:21 final size:21
Alignment explanation
Indices: 65507--65556 Score: 55
Period size: 21 Copynumber: 2.4 Consensus size: 21
65497 ACAATTGTCG
** *
65507 TCACGTAAAGTACCGACCTCC
1 TCACGTAAAACACCGACCTCA
* *
65528 TCACGCAAAACACTGACCTCA
1 TCACGTAAAACACCGACCTCA
65549 TCACGTAA
1 TCACGTAA
65557 CTCCCCTAAC
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.34, C:0.36, G:0.12, T:0.18
Consensus pattern (21 bp):
TCACGTAAAACACCGACCTCA
Found at i:66779 original size:17 final size:17
Alignment explanation
Indices: 66757--66793 Score: 74
Period size: 17 Copynumber: 2.2 Consensus size: 17
66747 ACAATTTTCT
66757 TTGTACATGTGTAATTG
1 TTGTACATGTGTAATTG
66774 TTGTACATGTGTAATTG
1 TTGTACATGTGTAATTG
66791 TTG
1 TTG
66794 ACGCAATTGT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.22, C:0.05, G:0.24, T:0.49
Consensus pattern (17 bp):
TTGTACATGTGTAATTG
Found at i:67264 original size:19 final size:20
Alignment explanation
Indices: 67226--67269 Score: 63
Period size: 19 Copynumber: 2.2 Consensus size: 20
67216 TCTAAAACTT
*
67226 AAAATCGCAACGAGAAAATG
1 AAAATCGCAACGACAAAATG
*
67246 AAAATCGTAACG-CAAAATG
1 AAAATCGCAACGACAAAATG
67265 AAAAT
1 AAAAT
67270 AATAAGTTTC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 11 0.50
20 11 0.50
ACGTcount: A:0.57, C:0.14, G:0.16, T:0.14
Consensus pattern (20 bp):
AAAATCGCAACGACAAAATG
Found at i:67858 original size:20 final size:20
Alignment explanation
Indices: 67835--67884 Score: 73
Period size: 20 Copynumber: 2.5 Consensus size: 20
67825 TGACTTATGT
67835 GTTGCGAATTACAAATTCAC
1 GTTGCGAATTACAAATTCAC
* * *
67855 GTTGCGATTTACAGATTCGC
1 GTTGCGAATTACAAATTCAC
67875 GTTGCGAATT
1 GTTGCGAATT
67885 CGGAAAATCG
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.26, C:0.18, G:0.22, T:0.34
Consensus pattern (20 bp):
GTTGCGAATTACAAATTCAC
Found at i:73583 original size:20 final size:20
Alignment explanation
Indices: 73560--73611 Score: 95
Period size: 20 Copynumber: 2.6 Consensus size: 20
73550 AACGCGATCC
73560 CCAGAATCGCAAATCAGTTT
1 CCAGAATCGCAAATCAGTTT
73580 CCAGAATCGCAAATCAGTTT
1 CCAGAATCGCAAATCAGTTT
*
73600 CCAAAATCGCAA
1 CCAGAATCGCAA
73612 CGCGATTCTT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.38, C:0.27, G:0.13, T:0.21
Consensus pattern (20 bp):
CCAGAATCGCAAATCAGTTT
Found at i:73628 original size:21 final size:20
Alignment explanation
Indices: 73601--73699 Score: 72
Period size: 21 Copynumber: 4.8 Consensus size: 20
73591 AATCAGTTTC
73601 CAAAATCGCAACGCGATTCTT
1 CAAAATCGCAACGCGATT-TT
* * * * *
73622 GAAAATCGCGATGCGATAGTA
1 CAAAATCGCAACGCGAT-TTT
* **
73643 CAAATTCGCATTGCGATTTT
1 CAAAATCGCAACGCGATTTT
* *
73663 CCAAAATCGCAACGCGAATAT
1 -CAAAATCGCAACGCGATTTT
*
73684 GAAAATCGCAACGCGA
1 CAAAATCGCAACGCGA
73700 ACACATAAAT
Statistics
Matches: 59, Mismatches: 17, Indels: 5
0.73 0.21 0.06
Matches are distributed among these distances:
20 16 0.27
21 43 0.73
ACGTcount: A:0.36, C:0.23, G:0.19, T:0.21
Consensus pattern (20 bp):
CAAAATCGCAACGCGATTTT
Found at i:73728 original size:20 final size:20
Alignment explanation
Indices: 73666--73859 Score: 221
Period size: 20 Copynumber: 9.7 Consensus size: 20
73656 CGATTTTCCA
* ** *
73666 AAATCGCAACGCGAATATGA
1 AAATCGCAACGCGTATCCGT
* *
73686 AAATCGCAACGCG-AACACAT
1 AAATCGCAACGCGTATC-CGT
73706 AAATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
73726 AAATCGCAACGTGTATCCGT
1 AAATCGCAACGCGTATCCGT
**
73746 AAATCGCAACGCGTATGGGT
1 AAATCGCAACGCGTATCCGT
*
73766 AAATCGCAATGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
73786 ATATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
* * *
73806 AAATCGCAACG-ATAATACAT
1 AAATCGCAACGCGT-ATCCGT
73826 AAAATCGCAACGCGTATCCGT
1 -AAATCGCAACGCGTATCCGT
73847 AAATCGCAACGCG
1 AAATCGCAACGCG
73860 ATATTTAAAG
Statistics
Matches: 146, Mismatches: 23, Indels: 10
0.82 0.13 0.06
Matches are distributed among these distances:
19 2 0.01
20 126 0.86
21 17 0.12
22 1 0.01
ACGTcount: A:0.36, C:0.26, G:0.20, T:0.19
Consensus pattern (20 bp):
AAATCGCAACGCGTATCCGT
Found at i:73750 original size:60 final size:60
Alignment explanation
Indices: 73666--73859 Score: 253
Period size: 60 Copynumber: 3.2 Consensus size: 60
73656 CGATTTTCCA
* ** * *
73666 AAATCGCAACGCGAATATGAAAATCGCAACGCGAACACATAAATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGCGAATACATAAATCGCAACGCGTATCCGT
* * *** *
73726 AAATCGCAACGTGTATCCGTAAATCGCAACGCGTATGGGTAAATCGCAATGCGTATCCGT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGCGAATACATAAATCGCAACGCGTATCCGT
* **
73786 ATATCGCAACGCGTATCCGTAAATCGCAACGATAATACATAAAATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGCGAATACAT-AAATCGCAACGCGTATCCGT
73847 AAATCGCAACGCG
1 AAATCGCAACGCG
73860 ATATTTAAAG
Statistics
Matches: 112, Mismatches: 21, Indels: 1
0.84 0.16 0.01
Matches are distributed among these distances:
60 81 0.72
61 31 0.28
ACGTcount: A:0.36, C:0.26, G:0.20, T:0.19
Consensus pattern (60 bp):
AAATCGCAACGCGTATCCGTAAATCGCAACGCGAATACATAAATCGCAACGCGTATCCGT
Found at i:74280 original size:33 final size:33
Alignment explanation
Indices: 74241--74311 Score: 124
Period size: 33 Copynumber: 2.2 Consensus size: 33
74231 TTCACTTAGA
74241 TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
1 TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
* *
74274 TTTCATTTCGCGTTGCTATTCTCTCGTTGCGAT
1 TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
74307 TTTCA
1 TTTCA
74312 AGTTAGTATT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.11, C:0.24, G:0.17, T:0.48
Consensus pattern (33 bp):
TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
Found at i:74451 original size:14 final size:14
Alignment explanation
Indices: 74432--74486 Score: 56
Period size: 14 Copynumber: 3.6 Consensus size: 14
74422 AGAATGACTG
74432 TCGCAACGAGAGAA
1 TCGCAACGAGAGAA
*
74446 TCGCAACGCGAAATGGAAA
1 TCGCAA--CGAGA--G-AA
74465 TCGCAACGAGAGAA
1 TCGCAACGAGAGAA
74479 TCGCAACG
1 TCGCAACG
74487 CGAAACCAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 10
0.74 0.04 0.22
Matches are distributed among these distances:
14 16 0.47
15 1 0.03
16 4 0.12
17 4 0.12
18 1 0.03
19 8 0.24
ACGTcount: A:0.40, C:0.24, G:0.27, T:0.09
Consensus pattern (14 bp):
TCGCAACGAGAGAA
Found at i:74499 original size:33 final size:33
Alignment explanation
Indices: 74432--74502 Score: 115
Period size: 33 Copynumber: 2.2 Consensus size: 33
74422 AGAATGACTG
***
74432 TCGCAACGAGAGAATCGCAACGCGAAATGGAAA
1 TCGCAACGAGAGAATCGCAACGCGAAACCAAAA
74465 TCGCAACGAGAGAATCGCAACGCGAAACCAAAA
1 TCGCAACGAGAGAATCGCAACGCGAAACCAAAA
74498 TCGCA
1 TCGCA
74503 TTGCGATTTT
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.42, C:0.25, G:0.24, T:0.08
Consensus pattern (33 bp):
TCGCAACGAGAGAATCGCAACGCGAAACCAAAA
Found at i:74520 original size:19 final size:19
Alignment explanation
Indices: 74498--74595 Score: 81
Period size: 19 Copynumber: 5.7 Consensus size: 19
74488 GAAACCAAAA
*
74498 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
74517 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
*
74531 TCTCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
74550 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
* * *
74564 TCTCGTTGCGATTGTCATC
1 TCGCGTTGCGATTTTCATT
74583 TCGCGTTGCGATT
1 TCGCGTTGCGATT
74596 CTCTCGTTGC
Statistics
Matches: 63, Mismatches: 6, Indels: 20
0.71 0.07 0.22
Matches are distributed among these distances:
14 20 0.32
16 5 0.08
17 6 0.10
19 32 0.51
ACGTcount: A:0.10, C:0.24, G:0.22, T:0.43
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:74539 original size:14 final size:14
Alignment explanation
Indices: 74520--74609 Score: 81
Period size: 14 Copynumber: 5.7 Consensus size: 14
74510 TTTCATTTCG
74520 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
74534 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
74553 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
74567 CGTTGCGATTGTCATCT
1 CGTTGCGA-T-TC-TCT
74584 CGCGTTGCGATTCTCT
1 --CGTTGCGATTCTCT
74600 CGTTGCGATT
1 CGTTGCGATT
74610 TTCATTTGAA
Statistics
Matches: 64, Mismatches: 2, Indels: 20
0.74 0.02 0.23
Matches are distributed among these distances:
14 28 0.44
15 1 0.02
16 8 0.12
17 8 0.12
18 1 0.02
19 18 0.28
ACGTcount: A:0.09, C:0.26, G:0.23, T:0.42
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:74545 original size:33 final size:33
Alignment explanation
Indices: 74503--74616 Score: 210
Period size: 33 Copynumber: 3.5 Consensus size: 33
74493 CAAAATCGCA
74503 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
74536 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
* *
74569 TTGCGATTGTCATCTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
74602 TTGCGATTTTCATTT
1 TTGCGATTTTCATTT
74617 GAACCAAAAG
Statistics
Matches: 77, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 77 1.00
ACGTcount: A:0.10, C:0.24, G:0.21, T:0.46
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
Found at i:76544 original size:185 final size:186
Alignment explanation
Indices: 76315--76694 Score: 753
Period size: 185 Copynumber: 2.0 Consensus size: 186
76305 TAGATTGCTT
76315 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
76380 TTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACT
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACT
76445 GTGTATTCTTTAACACTGTGAAATA-TATTTGTCTTTGTTTTGTCTTTTGGTTGAA
131 GTGTATTCTTTAACACTGTGAAATAGTATTTGTCTTTGTTTTGTCTTTTGGTTGAA
76500 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
76565 TTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACT
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACT
76630 GTGTATTCTTTAACACTGTGAAATAGTATTTGTCTTTGTTTTGTCTTTTGGTTGAA
131 GTGTATTCTTTAACACTGTGAAATAGTATTTGTCTTTGTTTTGTCTTTTGGTTGAA
76686 AGTAAATTT
1 AGTAAATTT
76695 ATCCATTCAA
Statistics
Matches: 194, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
185 155 0.80
186 39 0.20
ACGTcount: A:0.22, C:0.13, G:0.19, T:0.46
Consensus pattern (186 bp):
AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
TTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACT
GTGTATTCTTTAACACTGTGAAATAGTATTTGTCTTTGTTTTGTCTTTTGGTTGAA
Found at i:76629 original size:93 final size:93
Alignment explanation
Indices: 76315--76694 Score: 753
Period size: 93 Copynumber: 4.1 Consensus size: 93
76305 TAGATTGCTT
76315 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
76380 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
76408 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATA-TA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
76472 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
76500 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
76565 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
76593 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
76658 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
76686 AGTAAATTT
1 AGTAAATTT
76695 ATCCATTCAA
Statistics
Matches: 286, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
92 92 0.32
93 194 0.68
ACGTcount: A:0.22, C:0.13, G:0.19, T:0.46
Consensus pattern (93 bp):
AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
TTTGTCTTTGTTTTGTCTTTTGGTTGAA
Found at i:76778 original size:19 final size:19
Alignment explanation
Indices: 76738--76866 Score: 125
Period size: 19 Copynumber: 7.3 Consensus size: 19
76728 TAGTTTACTT
* *
76738 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAAC-CAAAA
76758 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
**
76777 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAACCAAAA
*
76796 TCGCAA--CG--A-CAGAA
1 TCGCAACGCGAAACCAAAA
76810 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
*
76829 TCGCAA--CG--A-CAAGA
1 TCGCAACGCGAAACCAAAA
76843 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
76862 TCGCA
1 TCGCA
76867 TTGCGATTTT
Statistics
Matches: 90, Mismatches: 9, Indels: 21
0.75 0.08 0.17
Matches are distributed among these distances:
14 19 0.21
15 2 0.02
16 4 0.04
17 4 0.04
18 2 0.02
19 46 0.51
20 13 0.14
ACGTcount: A:0.46, C:0.29, G:0.17, T:0.09
Consensus pattern (19 bp):
TCGCAACGCGAAACCAAAA
Found at i:76817 original size:33 final size:32
Alignment explanation
Indices: 76774--76866 Score: 150
Period size: 33 Copynumber: 2.8 Consensus size: 32
76764 CGCGAAACCA
**
76774 AAATCGCAACGCGAAATGAAAATCGCAACGAC
1 AAATCGCAACGCGAAACCAAAATCGCAACGAC
76806 AGAATCGCAACGCGAAACCAAAATCGCAACGAC
1 A-AATCGCAACGCGAAACCAAAATCGCAACGAC
76839 AAGATCGCAACGCGAAACCAAAATCGCA
1 AA-ATCGCAACGCGAAACCAAAATCGCA
76867 TTGCGATTTT
Statistics
Matches: 57, Mismatches: 2, Indels: 3
0.92 0.03 0.05
Matches are distributed among these distances:
32 2 0.04
33 55 0.96
ACGTcount: A:0.46, C:0.28, G:0.18, T:0.08
Consensus pattern (32 bp):
AAATCGCAACGCGAAACCAAAATCGCAACGAC
Found at i:76864 original size:52 final size:52
Alignment explanation
Indices: 76738--76866 Score: 140
Period size: 52 Copynumber: 2.5 Consensus size: 52
76728 TAGTTTACTT
**
76738 TCGCAACACGAAACTTAAAATCGCAACGCGAAACCAAAATCGCAACGCGAAA
1 TCGCAACACGAAACACAAAATCGCAACGCGAAACCAAAATCGCAACGCGAAA
* * *
76790 T-G-AAAATCGCAACGACAGAATCGCAACGCGAAACCAAAATCGCAACGAC-AAGA
1 TCGCAACA-CGAAAC-ACAAAATCGCAACGCGAAACCAAAATCGCAACG-CGAA-A
*
76843 TCGCAACGCGAAAC-CAAAATCGCA
1 TCGCAACACGAAACACAAAATCGCA
76867 TTGCGATTTT
Statistics
Matches: 62, Mismatches: 9, Indels: 12
0.75 0.11 0.14
Matches are distributed among these distances:
50 3 0.05
51 6 0.10
52 42 0.68
53 3 0.05
54 6 0.10
55 2 0.03
ACGTcount: A:0.46, C:0.29, G:0.17, T:0.09
Consensus pattern (52 bp):
TCGCAACACGAAACACAAAATCGCAACGCGAAACCAAAATCGCAACGCGAAA
Found at i:76884 original size:19 final size:19
Alignment explanation
Indices: 76862--76996 Score: 128
Period size: 19 Copynumber: 7.6 Consensus size: 19
76852 GAAACCAAAA
*
76862 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
76881 TCGCGTTGCGA--TTC-TT
1 TCGCGTTGCGATTTTCATT
76897 T--CGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
* *
76914 TCGCATTGCGA--TTC-TG
1 TCGCGTTGCGATTTTCATT
76930 T--CGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
**
76947 TCGCGTTGCGATTTTGGTT
1 TCGCGTTGCGATTTTCATT
*
76966 TCGCGTTGCGATTTTAAGTT
1 TCGCGTTGCGATTTTCA-TT
*
76986 TCGTGTTGCGA
1 TCGCGTTGCGA
76997 AAGTAAACTA
Statistics
Matches: 95, Mismatches: 10, Indels: 21
0.75 0.08 0.17
Matches are distributed among these distances:
14 15 0.16
16 11 0.12
17 11 0.12
19 46 0.48
20 12 0.13
ACGTcount: A:0.11, C:0.19, G:0.24, T:0.46
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:76903 original size:14 final size:14
Alignment explanation
Indices: 76884--76940 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
76874 TTTCATTTCG
76884 CGTTGCGATTCTTT
1 CGTTGCGATTCTTT
76898 CGTTGCGATTTTCATTT
1 CGTTGCGA--TTC-TTT
*
76915 CGCATTGCGATTCTGT
1 CG--TTGCGATTCTTT
76931 CGTTGCGATT
1 CGTTGCGATT
76941 TTCATTTCGC
Statistics
Matches: 37, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
14 16 0.43
16 7 0.19
17 8 0.22
19 6 0.16
ACGTcount: A:0.11, C:0.21, G:0.23, T:0.46
Consensus pattern (14 bp):
CGTTGCGATTCTTT
Found at i:76909 original size:33 final size:33
Alignment explanation
Indices: 76867--76959 Score: 168
Period size: 33 Copynumber: 2.8 Consensus size: 33
76857 CAAAATCGCA
*
76867 TTGCGATTTTCATTTCGCGTTGCGATTCTTTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTGTCG
*
76900 TTGCGATTTTCATTTCGCATTGCGATTCTGTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTGTCG
76933 TTGCGATTTTCATTTCGCGTTGCGATT
1 TTGCGATTTTCATTTCGCGTTGCGATT
76960 TTGGTTTCGC
Statistics
Matches: 57, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 57 1.00
ACGTcount: A:0.11, C:0.20, G:0.22, T:0.47
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCGTTGCGATTCTGTCG
Found at i:78852 original size:37 final size:38
Alignment explanation
Indices: 78810--78881 Score: 128
Period size: 38 Copynumber: 1.9 Consensus size: 38
78800 TAATTGATTG
*
78810 TTTTTGA-TGTTTAATTGATTTGTAAAAGTTGATTCAA
1 TTTTTGATTGTTTAATTGATTTGTAAAAGATGATTCAA
78847 TTTTTGATTGTTTAATTGATTTGTAAAAGATGATT
1 TTTTTGATTGTTTAATTGATTTGTAAAAGATGATT
78882 TGTAAAAGTT
Statistics
Matches: 33, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
37 7 0.21
38 26 0.79
ACGTcount: A:0.29, C:0.01, G:0.17, T:0.53
Consensus pattern (38 bp):
TTTTTGATTGTTTAATTGATTTGTAAAAGATGATTCAA
Found at i:78882 original size:14 final size:14
Alignment explanation
Indices: 78863--78898 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
78853 ATTGTTTAAT
78863 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
*
78877 TGATTTGTAAAAGT
1 TGATTTGTAAAAGA
78891 TGATTTGT
1 TGATTTGT
78899 GTAATTGATG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.33, C:0.00, G:0.22, T:0.44
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:79021 original size:19 final size:19
Alignment explanation
Indices: 79005--79106 Score: 151
Period size: 19 Copynumber: 5.6 Consensus size: 19
78995 AAAAATGACT
79005 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
79024 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
79043 ATCGCAA--CG--A-GAGA
1 ATCGCAATGCGAAATGAAA
79057 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
79076 ATCGCAATGCGGAAATGAAA
1 ATCGCAATGC-GAAATGAAA
79096 ATCGCAATGCG
1 ATCGCAATGCG
79107 TTTATAATTT
Statistics
Matches: 75, Mismatches: 2, Indels: 12
0.84 0.02 0.13
Matches are distributed among these distances:
14 10 0.13
15 1 0.01
16 2 0.03
17 2 0.03
18 1 0.01
19 40 0.53
20 19 0.25
ACGTcount: A:0.44, C:0.18, G:0.24, T:0.15
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:79155 original size:33 final size:33
Alignment explanation
Indices: 79113--79438 Score: 221
Period size: 33 Copynumber: 9.5 Consensus size: 33
79103 TGCGTTTATA
* *
79113 ATTTCGCATTGCGATTATCTCGTTGCAATTTTC
1 ATTTCGCATTGCGATTATTTCGTTGCGATTTTC
79146 ATTTCGCATTGCGATTTCATTTCGCATTGCGA--TTC
1 ATTTCGCATTGCGA-TT-ATTTCG--TTGCGATTTTC
79181 -TTTCG--TTGCGATTTTCATTTCGCATTGCGATTTTC
1 ATTTCGCATTGCGA--TT-ATTTCG--TTGCGATTTTC
79216 ATTTCGCATTGCGATTTTCATTTCGTATTGCGATTTT-
1 ATTTCGCATTGCGA--TT-ATTTCG--TTGCGATTTTC
* *
79253 AATTCGCATTGCGATTATGTCGGTT-CGATTTTC
1 ATTTCGCATTGCGATTATTTC-GTTGCGATTTTC
79286 ATTTCGCATTGCGATTTTCATTTCGCATTGCGA--TTC
1 ATTTCGCATTGCGA--TT-ATTTCG--TTGCGATTTTC
*
79322 -TCTCG--TTGCGATTTTCATTTCGCATTGCGATTTTC
1 ATTTCGCATTGCGA--TT-ATTTCG--TTGCGATTTTC
* *
79357 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTC
1 ATTTCGCATTGCGATTATTTCGTTGCGATTTTC
* *
79390 ATTTCCGCATTGCGATT-TCAT-GTTGGGATTTTC
1 ATTT-CGCATTGCGATTAT-TTCGTTGCGATTTTC
*
79423 ATTTCGCGTTGCGATT
1 ATTTCGCATTGCGATT
79439 GTATTTTCCG
Statistics
Matches: 254, Mismatches: 14, Indels: 51
0.80 0.04 0.16
Matches are distributed among these distances:
32 24 0.09
33 103 0.41
34 24 0.09
35 28 0.11
36 18 0.07
37 20 0.08
38 37 0.15
ACGTcount: A:0.15, C:0.21, G:0.18, T:0.46
Consensus pattern (33 bp):
ATTTCGCATTGCGATTATTTCGTTGCGATTTTC
Found at i:79162 original size:19 final size:19
Alignment explanation
Indices: 79135--79438 Score: 322
Period size: 19 Copynumber: 17.4 Consensus size: 19
79125 GATTATCTCG
*
79135 TTGCAATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
79154 TTGCGA-TTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
79172 TTGCGA--TTC-TTTCG--
1 TTGCGATTTTCATTTCGCA
79186 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
79205 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
79224 TTGCGATTTTCATTTCGTA
1 TTGCGATTTTCATTTCGCA
*
79243 TTGCGATTTT-AATTCGCA
1 TTGCGATTTTCATTTCGCA
* *
79261 TTGCGA--TT-ATGTCG-G
1 TTGCGATTTTCATTTCGCA
79276 TT-CGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
79294 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
79313 TTGCGA--TTC-TCTCG--
1 TTGCGATTTTCATTTCGCA
79327 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
79346 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
79365 TTGCGA--TTC-TCTCG--
1 TTGCGATTTTCATTTCGCA
79379 TTGCGATTTTCATTTCCGCA
1 TTGCGATTTTCATTT-CGCA
79399 TTGCGA-TTTCA--T-G--
1 TTGCGATTTTCATTTCGCA
* *
79412 TTGGGATTTTCATTTCGCG
1 TTGCGATTTTCATTTCGCA
79431 TTGCGATT
1 TTGCGATT
79439 GTATTTTCCG
Statistics
Matches: 243, Mismatches: 15, Indels: 54
0.78 0.05 0.17
Matches are distributed among these distances:
13 5 0.02
14 26 0.11
15 3 0.01
16 31 0.13
17 27 0.11
18 34 0.14
19 111 0.46
20 6 0.02
ACGTcount: A:0.15, C:0.20, G:0.18, T:0.47
Consensus pattern (19 bp):
TTGCGATTTTCATTTCGCA
Found at i:79174 original size:51 final size:52
Alignment explanation
Indices: 79113--79231 Score: 204
Period size: 51 Copynumber: 2.3 Consensus size: 52
79103 TGCGTTTATA
79113 ATTTCGCATTGCGATTATCTCGTTGCAATTTTCATTTCGCATTGCGA-TTTC
1 ATTTCGCATTGCGATTATCTCGTTGCAATTTTCATTTCGCATTGCGATTTTC
* * *
79164 ATTTCGCATTGCGATTCTTTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
1 ATTTCGCATTGCGATTATCTCGTTGCAATTTTCATTTCGCATTGCGATTTTC
79216 ATTTCGCATTGCGATT
1 ATTTCGCATTGCGATT
79232 TTCATTTCGT
Statistics
Matches: 64, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
51 44 0.69
52 20 0.31
ACGTcount: A:0.16, C:0.21, G:0.17, T:0.46
Consensus pattern (52 bp):
ATTTCGCATTGCGATTATCTCGTTGCAATTTTCATTTCGCATTGCGATTTTC
Found at i:79410 original size:52 final size:52
Alignment explanation
Indices: 79135--79407 Score: 335
Period size: 52 Copynumber: 5.2 Consensus size: 52
79125 GATTATCTCG
* *
79135 TTGCAATTTTCATTTCGCATTGCGATTTCATTTCGCATTGCGA--TTC-TTTCG--
1 TTGCGATTTTCATTTCGCATTGCGA-TTC-TCTCG--TTGCGATTTTCATTTCGCA
* *
79186 TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGTA
1 TTGCGATTTTCATTTCGCATTGCGA--TTC-TCTCG--TTGCGATTTTCATTTCGCA
* * *
79243 TTGCGATTTT-AATTCGCATTGCGATTATGTCGGTT-CGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCATTGCGATTCTCTC-GTTGCGATTTTCATTTCGCA
79294 TTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCA
79346 TTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCCGCA
1 TTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTT-CGCA
79399 TTGCGATTT
1 TTGCGATTT
79408 CATGTTGGGA
Statistics
Matches: 204, Mismatches: 8, Indels: 18
0.89 0.03 0.08
Matches are distributed among these distances:
51 52 0.25
52 102 0.50
53 16 0.08
54 6 0.03
55 5 0.02
56 13 0.06
57 10 0.05
ACGTcount: A:0.15, C:0.21, G:0.17, T:0.47
Consensus pattern (52 bp):
TTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCA
Found at i:79433 original size:52 final size:50
Alignment explanation
Indices: 79212--79438 Score: 219
Period size: 52 Copynumber: 4.4 Consensus size: 50
79202 GCATTGCGAT
* * * *
79212 TTTCATTTCGCATTGCGATTTTCATTTCGTATTGCGATTTT-AATTCGCA
1 TTTCATTTCGCGTTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGGA
* *
79261 TTGCGATTAT-GTCGGTT-CGATTTTCATTTCGCATTGCGATTTTCATTTCGCA
1 TTTC-ATT-TCG-C-GTTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGGA
* * *
79313 TTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCA
1 TTTC-ATT-TCGCGTTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGGA
* * *
79365 TTGCGATTCTCTCGTTGCGATTTTCATTTCCGCATTGCGA-TTTCATGTTGGGA
1 TTTC-ATT-TCGCGTTGCGATTTTCATTT-CGCATTGCGATTTTCAT-TTCGGA
79418 TTTTCATTTCGCGTTGCGATT
1 -TTTCATTTCGCGTTGCGATT
79439 GTATTTTCCG
Statistics
Matches: 158, Mismatches: 10, Indels: 17
0.85 0.05 0.09
Matches are distributed among these distances:
49 3 0.02
50 4 0.03
51 30 0.19
52 101 0.64
53 17 0.11
54 3 0.02
ACGTcount: A:0.15, C:0.20, G:0.19, T:0.47
Consensus pattern (50 bp):
TTTCATTTCGCGTTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGGA
Found at i:81755 original size:12 final size:12
Alignment explanation
Indices: 81738--81762 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
81728 TCTTCGGGGA
81738 CTTTTTCTTCTT
1 CTTTTTCTTCTT
81750 CTTTTTCTTCTT
1 CTTTTTCTTCTT
81762 C
1 C
81763 AGGATTATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (12 bp):
CTTTTTCTTCTT
Found at i:81971 original size:24 final size:24
Alignment explanation
Indices: 81937--81983 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
81927 CTGAAACATC
81937 ATCAAAATCCGTG-TATTGACCAAT
1 ATCAAAATCCG-GATATTGACCAAT
*
81961 ATCAAAGTCCGGATATTGACCAA
1 ATCAAAATCCGGATATTGACCAA
81984 GACCAAATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 1 0.05
24 20 0.95
ACGTcount: A:0.38, C:0.21, G:0.15, T:0.26
Consensus pattern (24 bp):
ATCAAAATCCGGATATTGACCAAT
Found at i:82685 original size:20 final size:20
Alignment explanation
Indices: 82657--83025 Score: 458
Period size: 20 Copynumber: 18.4 Consensus size: 20
82647 AAATTTCAGT
* * * *
82657 GTTGTGATTTACAGATTCTC
1 GTTGCGATTTACGGATACGC
*
82677 GTTGCGATTTACGGATTA-TC
1 GTTGCGATTTACGGA-TACGC
* * *
82697 GTTGCGATTTACAGATTCTC
1 GTTGCGATTTACGGATACGC
*
82717 GTTGCGATTTACGGATTA-TC
1 GTTGCGATTTACGGA-TACGC
82737 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
*
82757 GTTGCGATTTACGGATTA-TC
1 GTTGCGATTTACGGA-TACGC
82777 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
82797 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
*
82817 ATTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
*
82837 GTTGCGATTTACGGATACAC
1 GTTGCGATTTACGGATACGC
*
82857 GTTGCGGTTTACGGATACGC
1 GTTGCGATTTACGGATACGC
82877 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
*
82897 GTTGCGATATACGGATACGC
1 GTTGCGATTTACGGATACGC
* **
82917 ATTGCGATTTACCCATACGC
1 GTTGCGATTTACGGATACGC
*
82937 GTTGCGATTTACGGATACAC
1 GTTGCGATTTACGGATACGC
82957 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
* *
82977 GTTGCGATTTATGTG-TTCGC
1 GTTGCGATTTACG-GATACGC
* ** *
82997 GTTGCGATTTTCATATTCGC
1 GTTGCGATTTACGGATACGC
83017 GTTGCGATT
1 GTTGCGATT
83026 ATGGAAAATC
Statistics
Matches: 309, Mismatches: 32, Indels: 16
0.87 0.09 0.04
Matches are distributed among these distances:
19 5 0.02
20 299 0.97
21 5 0.02
ACGTcount: A:0.20, C:0.19, G:0.26, T:0.35
Consensus pattern (20 bp):
GTTGCGATTTACGGATACGC
Found at i:88201 original size:42 final size:40
Alignment explanation
Indices: 88142--88241 Score: 119
Period size: 42 Copynumber: 2.4 Consensus size: 40
88132 AAGTAAGTCC
* * *
88142 TTTGGGCCATCAGTAAGTCTTTCAAGCATGATGACTAAATCA
1 TTTGGGTCATCA-TAAGTCTTTAAAGCAAGATGA-TAAATCA
*
88184 TTTGGGTCATCTATAAGTCTTTAAAGCAAGATGATAAGTCA
1 TTTGGGTCATC-ATAAGTCTTTAAAGCAAGATGATAAATCA
*
88225 TTCGGGTCATCCATAAG
1 TTTGGGTCAT-CATAAG
88242 ACCTTCGGGC
Statistics
Matches: 51, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
41 20 0.39
42 30 0.59
43 1 0.02
ACGTcount: A:0.31, C:0.17, G:0.20, T:0.32
Consensus pattern (40 bp):
TTTGGGTCATCATAAGTCTTTAAAGCAAGATGATAAATCA
Found at i:88241 original size:41 final size:42
Alignment explanation
Indices: 88155--88241 Score: 122
Period size: 41 Copynumber: 2.1 Consensus size: 42
88145 GGGCCATCAG
* * * *
88155 TAAGTCTTTCAAGCATGATGACTAAATCATTTGGGTCATCTA
1 TAAGTCTTTAAAGCAAGATGACTAAATCATTCGGGTCATCCA
*
88197 TAAGTCTTTAAAGCAAGATGA-TAAGTCATTCGGGTCATCCA
1 TAAGTCTTTAAAGCAAGATGACTAAATCATTCGGGTCATCCA
88238 TAAG
1 TAAG
88242 ACCTTCGGGC
Statistics
Matches: 40, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
41 21 0.52
42 19 0.47
ACGTcount: A:0.33, C:0.16, G:0.18, T:0.32
Consensus pattern (42 bp):
TAAGTCTTTAAAGCAAGATGACTAAATCATTCGGGTCATCCA
Found at i:88243 original size:179 final size:177
Alignment explanation
Indices: 87943--88304 Score: 485
Period size: 179 Copynumber: 2.0 Consensus size: 177
87933 ATTTTTTAAG
* * * *
87943 GTTTCTTACTTAGTAAGTCTTTCGGGCCATCATTAAGTCTTTCAAGCATGATGATTAAATCCTGC
1 GTTTCTTACTAAGTAAGTCTTTCGGGCCATCAGTAAGTCTTTCAAGCATGATGACTAAATCATGC
** * * *
88008 AGGTCATCTATAAGTATTTTGAGCAAGGTGATAAGTTCTTCGGGCCATCTATAAGACCTTTAGGC
66 AGGTCATCTATAAGTATTTAAAGCAAGATGATAAGTTCTTCGGGCCATCCATAAGACCTTCAGGC
* * *
88073 ATGATGTTTTCACATGATTTTTGAAATAAATGAGAAAATGATTTCCAAA
131 ATGATGTTTTCAAAGGATTTTTG-AA-AAATGAGAAAATAATTTCCAAA
*
88122 GTTTCTTACTAAGTAAGTCCTTT-GGGCCATCAGTAAGTCTTTCAAGCATGATGACTAAATCATT
1 GTTTCTTACTAAGTAAGT-CTTTCGGGCCATCAGTAAGTCTTTCAAGCATGATGACTAAATCATG
** * * *
88186 TGGGTCATCTATAAGTCTTTAAAGCAAGATGATAAG-TCATTCGGGTCATCCATAAGACCTTCGG
65 CAGGTCATCTATAAGTATTTAAAGCAAGATGATAAGTTC-TTCGGGCCATCCATAAGACCTTCAG
* * *
88250 GCATTATGTTTTCAAAGGATTTTTGAAAAATGAGAAAGTAATTTTCAAA
129 GCATGATGTTTTCAAAGGATTTTTGAAAAATGAGAAAATAATTTCCAAA
88299 GTTTCT
1 GTTTCT
88305 CATTTAGTAT
Statistics
Matches: 160, Mismatches: 21, Indels: 6
0.86 0.11 0.03
Matches are distributed among these distances:
177 25 0.16
178 4 0.03
179 127 0.79
180 4 0.03
ACGTcount: A:0.31, C:0.15, G:0.19, T:0.35
Consensus pattern (177 bp):
GTTTCTTACTAAGTAAGTCTTTCGGGCCATCAGTAAGTCTTTCAAGCATGATGACTAAATCATGC
AGGTCATCTATAAGTATTTAAAGCAAGATGATAAGTTCTTCGGGCCATCCATAAGACCTTCAGGC
ATGATGTTTTCAAAGGATTTTTGAAAAATGAGAAAATAATTTCCAAA
Found at i:88889 original size:15 final size:15
Alignment explanation
Indices: 88869--88900 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
88859 AAGAGTAGTG
88869 GATTAAATCTACCTT
1 GATTAAATCTACCTT
*
88884 GATTAAATCTATCTT
1 GATTAAATCTACCTT
88899 GA
1 GA
88901 AAAAAAATGG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.34, C:0.16, G:0.09, T:0.41
Consensus pattern (15 bp):
GATTAAATCTACCTT
Found at i:89043 original size:132 final size:131
Alignment explanation
Indices: 88790--89250 Score: 455
Period size: 132 Copynumber: 3.5 Consensus size: 131
88780 GTAATGTTTA
* * ** *
88790 ATTTCCAGATATGATCTACCCTAAAGAGCAGCATAACAGATCCCCTTTCTCCATATTTGATCTTC
1 ATTTCTAGATCTGATCTACCCTAAAGAGCAGCGGAGCAGAT-CCCTTTCTCCATATTTGATCTTC
* * * * *
88855 CCTGAA-GAGTAGTGGATTAAATCTACCTTGATTAAATCTAT-CTTGAAAAAAAATGGAGTGAAT
65 CCT-AAGGAGTAGTGGAATAAGTCTGCCTTGATTCAATCT-TCCTTGAAAAAAAATGGAATGAAT
88918 CAAC
128 CAAC
* * * *
88922 GTTTCTAGATCTGATTTACCCTAAAGAGTAGCGGAGCAGATACCCTTTTTCCATATTTGATCTTC
1 ATTTCTAGATCTGATCTACCCTAAAGAGCAGCGGAGCAGAT-CCCTTTCTCCATATTTGATCTTC
* * * * * *
88987 TCTAAGGAGCAGTGGAACAAGTTTGCCTTGATTCAATCTTCCTTGAAGAACAATGGAATGAATCA
65 CCTAAGGAGTAGTGGAATAAGTCTGCCTTGATTCAATCTTCCTTGAAAAAAAATGGAATGAATCA
89052 AC
130 AC
* * * *
89054 ATTTCTAGATCTGATCTAACCTAAAGAGCAGCGGAGCAGATCTACTTTCTCTAGATTTGATCTTC
1 ATTTCTAGATCTGATCTACCCTAAAGAGCAGCGGAGCAGATC-CCTTTCTCCATATTTGATCTTC
* * * * ** * * *
89119 CCTGAGGAGTAGTGGAATGAGTCTGCCTCGATTCAATCTTCCCT-AAAAGGTAGTGGAATTATTC
65 CCTAAGGAGTAGTGGAATAAGTCTGCCTTGATTCAATCTTCCTTGAAAA-AAAATGGAATGAATC
89183 AAC
129 AAC
* * * ** * * * *
89186 ATTTTTAGATCTGATATA-CCTGAAGAGCAGTAGAGCATAT-CCTTTTTTCAAATTTGATCTTCC
1 ATTTCTAGATCTGATCTACCCTAAAGAGCAGCGGAGCAGATCCCTTTCTCCATATTTGATCTTCC
89249 CT
66 CT
89251 GAGTAATAAT
Statistics
Matches: 271, Mismatches: 54, Indels: 11
0.81 0.16 0.03
Matches are distributed among these distances:
129 20 0.07
131 25 0.09
132 226 0.83
ACGTcount: A:0.30, C:0.20, G:0.17, T:0.32
Consensus pattern (131 bp):
ATTTCTAGATCTGATCTACCCTAAAGAGCAGCGGAGCAGATCCCTTTCTCCATATTTGATCTTCC
CTAAGGAGTAGTGGAATAAGTCTGCCTTGATTCAATCTTCCTTGAAAAAAAATGGAATGAATCAA
C
Found at i:89564 original size:3 final size:3
Alignment explanation
Indices: 89556--89616 Score: 54
Period size: 3 Copynumber: 19.3 Consensus size: 3
89546 AAGATCTTGC
*
89556 TAT TAT TAT TAT TAAT TAT TAT TAGT TAAT TAT TAT TTT TAT T-T ATAT
1 TAT TAT TAT TAT T-AT TAT TAT TA-T T-AT TAT TAT TAT TAT TAT -TAT
89604 TAT T-T ATAT TAT T
1 TAT TAT -TAT TAT T
89617 TCTGTAGGCA
Statistics
Matches: 49, Mismatches: 2, Indels: 14
0.75 0.03 0.22
Matches are distributed among these distances:
2 2 0.04
3 37 0.76
4 9 0.18
5 1 0.02
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:89586 original size:14 final size:13
Alignment explanation
Indices: 89557--89616 Score: 70
Period size: 13 Copynumber: 4.7 Consensus size: 13
89547 AGATCTTGCT
89557 ATTATTATTATTA
1 ATTATTATTATTA
89570 ATTATTATTAGTTA
1 ATTATTATTA-TTA
*
89584 ATTATTATTTTTA
1 ATTATTATTATTA
* *
89597 TTTA-TATTATTT
1 ATTATTATTATTA
89609 A-TATTATT
1 ATTATTATT
89617 TCTGTAGGCA
Statistics
Matches: 40, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
11 2 0.05
12 10 0.25
13 16 0.40
14 12 0.30
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (13 bp):
ATTATTATTATTA
Found at i:89601 original size:27 final size:27
Alignment explanation
Indices: 89556--89616 Score: 79
Period size: 27 Copynumber: 2.3 Consensus size: 27
89546 AAGATCTTGC
89556 TATTATTATTATTAATTATTATTAGTTA
1 TATTATTATTATTAATTA-TATTAGTTA
* * *
89584 -ATTATTATTTTTATTTATATTATTTA
1 TATTATTATTATTAATTATATTAGTTA
89610 TATTATT
1 TATTATT
89617 TCTGTAGGCA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
26 8 0.28
27 21 0.72
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.66
Consensus pattern (27 bp):
TATTATTATTATTAATTATATTAGTTA
Found at i:96295 original size:17 final size:17
Alignment explanation
Indices: 96275--96317 Score: 77
Period size: 17 Copynumber: 2.5 Consensus size: 17
96265 TTCTTTCGAG
96275 GACTAAATTGAAATTTT
1 GACTAAATTGAAATTTT
96292 GACTAAATTGAAATTTT
1 GACTAAATTGAAATTTT
*
96309 AACTAAATT
1 GACTAAATT
96318 CGAGGCGTAA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 25 1.00
ACGTcount: A:0.44, C:0.07, G:0.09, T:0.40
Consensus pattern (17 bp):
GACTAAATTGAAATTTT
Found at i:97227 original size:39 final size:39
Alignment explanation
Indices: 97169--97294 Score: 139
Period size: 39 Copynumber: 3.2 Consensus size: 39
97159 TATAACTTGT
* * * ** *
97169 AAGTCCTTTCCGCATGCTCCTTTGCTTTTTGCTCAGGGA
1 AAGTCCTTACCACAAGCTCCTCAGCTTTGTGCTCAGGGA
*
97208 AAGTCCTTACCACAGGCTCCTCAGCTTTGTGCTCAGGGTA
1 AAGTCCTTACCACAAGCTCCTCAGCTTTGTGCTCAGGG-A
* *
97248 AA-TCCTTA-CAGCAAGTTCCTCAGCTTTGTGCTCAGGGT
1 AAGTCCTTACCA-CAAGCTCCTCAGCTTTGTGCTCAGGGA
97286 AAGTCCTTA
1 AAGTCCTTA
97295 TTGCTGGCTC
Statistics
Matches: 75, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
38 4 0.05
39 68 0.91
40 3 0.04
ACGTcount: A:0.19, C:0.28, G:0.21, T:0.33
Consensus pattern (39 bp):
AAGTCCTTACCACAAGCTCCTCAGCTTTGTGCTCAGGGA
Found at i:97304 original size:78 final size:76
Alignment explanation
Indices: 97192--97373 Score: 195
Period size: 78 Copynumber: 2.4 Consensus size: 76
97182 ATGCTCCTTT
* * * *
97192 GCTTTTTGCTCAGGGAAAGTCCTTACCACAGGCTCCTCAGCTTTGTGCTCAGGGTAAATCCTTA-
1 GCTTTGTGCTCAGGGTAAGTCCTTACCACAGGCTCCCCAGCGTTGTGCTCA-GGTAAATCCTTAT
97256 CAGCAAGTTCCTC
65 C-GCAAGTTCCTC
*** * * *
97269 AGCTTTGTGCTCAGGGTAAGTCCTTATTGCTGGCTCCCCGGCGTTGTGCTCAGGTAAGTCCTTAT
1 -GCTTTGTGCTCAGGGTAAGTCCTTACCACAGGCTCCCCAGCGTTGTGCTCAGGTAAATCCTTAT
* * *
97334 CGTAGGTTTCTC
65 CGCAAGTTCCTC
*
97346 GATTTTGTGCTCAGGGTAAGTCCTTACC
1 G-CTTTGTGCTCAGGGTAAGTCCTTACC
97374 GCAAGTCCTT
Statistics
Matches: 86, Mismatches: 16, Indels: 5
0.80 0.15 0.05
Matches are distributed among these distances:
76 1 0.01
77 42 0.49
78 43 0.50
ACGTcount: A:0.17, C:0.26, G:0.24, T:0.33
Consensus pattern (76 bp):
GCTTTGTGCTCAGGGTAAGTCCTTACCACAGGCTCCCCAGCGTTGTGCTCAGGTAAATCCTTATC
GCAAGTTCCTC
Found at i:97371 original size:39 final size:39
Alignment explanation
Indices: 97193--97371 Score: 143
Period size: 39 Copynumber: 4.6 Consensus size: 39
97183 TGCTCCTTTG
* * * ** *
97193 CTTTTTGCTCAGGGAAAGTCCTTACCACAGGCTCCTC-A
1 CTTTGTGCTCAGGGTAAGTCCTTATCGTAGGTTCCTCGA
* * *
97231 GCTTTGTGCTCAGGGTAAATCCTTA-CAGCAAGTTCCTC-A
1 -CTTTGTGCTCAGGGTAAGTCCTTATC-GTAGGTTCCTCGA
* * * *
97270 GCTTTGTGCTCAGGGTAAGTCCTTATTGCT-GGCTCCCCGG
1 -CTTTGTGCTCAGGGTAAGTCCTTATCG-TAGGTTCCTCGA
* *
97310 CGTTGTGCTCA-GGTAAGTCCTTATCGTAGGTTTCTCGA
1 CTTTGTGCTCAGGGTAAGTCCTTATCGTAGGTTCCTCGA
*
97348 TTTTGTGCTCAGGGTAAGTCCTTA
1 CTTTGTGCTCAGGGTAAGTCCTTA
97372 CCGCAAGTCC
Statistics
Matches: 113, Mismatches: 21, Indels: 12
0.77 0.14 0.08
Matches are distributed among these distances:
37 1 0.01
38 30 0.27
39 82 0.73
ACGTcount: A:0.17, C:0.25, G:0.24, T:0.34
Consensus pattern (39 bp):
CTTTGTGCTCAGGGTAAGTCCTTATCGTAGGTTCCTCGA
Found at i:101748 original size:24 final size:24
Alignment explanation
Indices: 101721--101773 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 24
101711 AGGTGGATAT
* *
101721 TCAGGGGTGTCAGAATGGTGCAGA
1 TCAGGGGTCTCAGAACGGTGCAGA
* **
101745 TCAGGTGTCTCAGAACGGTGTTGA
1 TCAGGGGTCTCAGAACGGTGCAGA
101769 TCAGG
1 TCAGG
101774 AGTCGGTTCA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.23, C:0.15, G:0.38, T:0.25
Consensus pattern (24 bp):
TCAGGGGTCTCAGAACGGTGCAGA
Found at i:103223 original size:18 final size:18
Alignment explanation
Indices: 103190--103224 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
103180 AGGAAAGAGA
**
103190 AAAATAAATATCAAAAAT
1 AAAATAAATAAAAAAAAT
103208 AAAATAAATAAAAAAAA
1 AAAATAAATAAAAAAAA
103225 CAAATCAAAA
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:0.80, C:0.03, G:0.00, T:0.17
Consensus pattern (18 bp):
AAAATAAATAAAAAAAAT
Found at i:104505 original size:21 final size:21
Alignment explanation
Indices: 104479--104520 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
104469 CGAGCTATGG
*
104479 CTTTGAAGTAAGGCACCTTGA
1 CTTTGAAGTAAAGCACCTTGA
*
104500 CTTTGAAGTAAAGCTCCTTGA
1 CTTTGAAGTAAAGCACCTTGA
104521 TTCATAATTG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.29, C:0.19, G:0.21, T:0.31
Consensus pattern (21 bp):
CTTTGAAGTAAAGCACCTTGA
Done.