Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007724.1 Hibiscus syriacus cultivar Beakdansim tig00109971_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: 1221931
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 5 of 6
Found at i:851235 original size:20 final size:19
Alignment explanation
Indices: 851179--851244 Score: 89
Period size: 20 Copynumber: 3.3 Consensus size: 19
851169 AATGATACCA
851179 ATACCCCCATA-GGTATCG
1 ATACCCCCATATGGTATCG
851197 ATACCCCCATGCAATGGTATCG
1 ATACCCCCAT---ATGGTATCG
851219 ATACCCCTCATATGGTATCG
1 ATACCCC-CATATGGTATCG
851239 ATACCC
1 ATACCC
851245 TAAGGCATAT
Statistics
Matches: 43, Mismatches: 0, Indels: 8
0.84 0.00 0.16
Matches are distributed among these distances:
18 10 0.23
20 15 0.35
21 1 0.02
22 14 0.33
23 3 0.07
ACGTcount: A:0.27, C:0.33, G:0.15, T:0.24
Consensus pattern (19 bp):
ATACCCCCATATGGTATCG
Found at i:857027 original size:23 final size:23
Alignment explanation
Indices: 856970--857077 Score: 91
Period size: 23 Copynumber: 4.8 Consensus size: 23
856960 ATTTTTGTGC
**
856970 ATAGCGTATCGATA-CCCCTGAGA
1 ATAG-GTATCGATACCCCCTTTGA
*
856993 CT-GGTATCGATACCCCCTTTGA
1 ATAGGTATCGATACCCCCTTTGA
* * *
857015 ATAGGTATGGATA-CCTCTGT-A
1 ATAGGTATCGATACCCCCTTTGA
*
857036 ATAGGTATCGATACCATCC-TTGA
1 ATAGGTATCGATACC-CCCTTTGA
*
857059 ATGGGTATCGATACCCCCT
1 ATAGGTATCGATACCCCCT
857078 GATGATACTG
Statistics
Matches: 66, Mismatches: 13, Indels: 12
0.73 0.14 0.13
Matches are distributed among these distances:
21 22 0.33
22 18 0.27
23 26 0.39
ACGTcount: A:0.26, C:0.25, G:0.20, T:0.29
Consensus pattern (23 bp):
ATAGGTATCGATACCCCCTTTGA
Found at i:858656 original size:27 final size:27
Alignment explanation
Indices: 858621--858679 Score: 109
Period size: 27 Copynumber: 2.2 Consensus size: 27
858611 GGAAACTCCA
858621 GGAGCTAGTTCTTCACGAGCTCCACCT
1 GGAGCTAGTTCTTCACGAGCTCCACCT
*
858648 GGAGTTAGTTCTTCACGAGCTCCACCT
1 GGAGCTAGTTCTTCACGAGCTCCACCT
858675 GGAGC
1 GGAGC
858680 GGACGACGAT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.19, C:0.31, G:0.25, T:0.25
Consensus pattern (27 bp):
GGAGCTAGTTCTTCACGAGCTCCACCT
Found at i:867198 original size:16 final size:16
Alignment explanation
Indices: 867177--867207 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
867167 TTACTTGTTT
*
867177 AATCATTTTATATTTA
1 AATCATTTTAAATTTA
867193 AATCATTTTAAATTT
1 AATCATTTTAAATTT
867208 TGATTATATT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.39, C:0.06, G:0.00, T:0.55
Consensus pattern (16 bp):
AATCATTTTAAATTTA
Found at i:869226 original size:59 final size:60
Alignment explanation
Indices: 869070--869248 Score: 177
Period size: 60 Copynumber: 3.0 Consensus size: 60
869060 GAATTTAGGG
* ** * **
869070 ATGAAATTATAATATTCAAAAGTTTGGGGACTAATTTAGAAA-GAGAGTCATAGTTTACGA
1 ATGAAATTAGAATATTCAAAAGTTTAAGGACTAATTTA-AAATGAAAGTCATAGTTTGGGA
* * * *
869130 ATGAAATTAGAATGTTCAGAAGTTTAATGACTAATTTACAATGAAAGTCATAGTTTGGG-
1 ATGAAATTAGAATATTCAAAAGTTTAAGGACTAATTTAAAATGAAAGTCATAGTTTGGGA
* * *
869189 AT-AGAATTAGGATATTCAAAAGTTTAAGGACCAATTTAAAAAT-AATAGTTATAGTTTGGG
1 ATGA-AATTAGAATATTCAAAAGTTTAAGGACTAATTT-AAAATGAA-AGTCATAGTTTGGG
869249 GATATATGAT
Statistics
Matches: 98, Mismatches: 17, Indels: 8
0.80 0.14 0.07
Matches are distributed among these distances:
58 1 0.01
59 34 0.35
60 63 0.64
ACGTcount: A:0.41, C:0.06, G:0.20, T:0.33
Consensus pattern (60 bp):
ATGAAATTAGAATATTCAAAAGTTTAAGGACTAATTTAAAATGAAAGTCATAGTTTGGGA
Found at i:869923 original size:20 final size:21
Alignment explanation
Indices: 869898--869949 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
869888 TTTTCCCAAT
*
869898 TCGCAATGCGAA-TAAGTAAA
1 TCGCAATGCGAATTAAGAAAA
* **
869918 TCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATTAAGAAAA
869939 TCGCAATGCGA
1 TCGCAATGCGA
869950 TACTTACTAT
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
20 11 0.42
21 15 0.58
ACGTcount: A:0.38, C:0.19, G:0.25, T:0.17
Consensus pattern (21 bp):
TCGCAATGCGAATTAAGAAAA
Found at i:869962 original size:41 final size:41
Alignment explanation
Indices: 869935--870012 Score: 120
Period size: 41 Copynumber: 1.9 Consensus size: 41
869925 GCGAATTGGG
* * *
869935 AAAATCGCAATGCGATACTTACTATCGCAATGCGATAATAA
1 AAAATCGCAACGAGATACTTACTATCGCAACGCGATAATAA
*
869976 AAAATCGCAACGAGATACTTACTTTCGCAACGCGATA
1 AAAATCGCAACGAGATACTTACTATCGCAACGCGATA
870013 CTGACTTTCG
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
41 33 1.00
ACGTcount: A:0.40, C:0.22, G:0.15, T:0.23
Consensus pattern (41 bp):
AAAATCGCAACGAGATACTTACTATCGCAACGCGATAATAA
Found at i:869963 original size:20 final size:20
Alignment explanation
Indices: 869938--870032 Score: 82
Period size: 20 Copynumber: 4.7 Consensus size: 20
869928 AATTGGGAAA
*
869938 ATCGCAATGCGATACTTACT
1 ATCGCAACGCGATACTTACT
* * * **
869958 ATCGCAATGCGATAATAAAAA
1 ATCGCAACGCGATACT-TACT
*
869979 ATCGCAACGAGATACTTACT
1 ATCGCAACGCGATACTTACT
* *
869999 TTCGCAACGCGATACTGACT
1 ATCGCAACGCGATACTTACT
* *
870019 TTCGCAACACGATA
1 ATCGCAACGCGATA
870033 ATACATAATC
Statistics
Matches: 60, Mismatches: 14, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
20 46 0.77
21 14 0.23
ACGTcount: A:0.36, C:0.24, G:0.16, T:0.24
Consensus pattern (20 bp):
ATCGCAACGCGATACTTACT
Found at i:870248 original size:22 final size:22
Alignment explanation
Indices: 870220--870263 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
870210 CACTCTCTCA
870220 CCCATCTCCGACGAAATCCGTC
1 CCCATCTCCGACGAAATCCGTC
870242 CCCATCTCCGACGAAATCCGTC
1 CCCATCTCCGACGAAATCCGTC
870264 TATCTAAATC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.23, C:0.45, G:0.14, T:0.18
Consensus pattern (22 bp):
CCCATCTCCGACGAAATCCGTC
Found at i:870552 original size:20 final size:20
Alignment explanation
Indices: 870527--870564 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
870517 TGATTCTCTC
870527 GTTGCGATAGTCATTTTCGT
1 GTTGCGATAGTCATTTTCGT
**
870547 GTTGCGATTTTCATTTTC
1 GTTGCGATAGTCATTTTC
870565 AGAAACTATT
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:0.13, C:0.16, G:0.21, T:0.50
Consensus pattern (20 bp):
GTTGCGATAGTCATTTTCGT
Found at i:871902 original size:18 final size:18
Alignment explanation
Indices: 871881--871925 Score: 72
Period size: 18 Copynumber: 2.5 Consensus size: 18
871871 TCCACTTCGG
*
871881 GAGCCATCACCTCGCCCA
1 GAGCCATCACCTCACCCA
*
871899 GAGCTATCACCTCACCCA
1 GAGCCATCACCTCACCCA
871917 GAGCCATCA
1 GAGCCATCA
871926 TCTGATCGAC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.27, C:0.44, G:0.16, T:0.13
Consensus pattern (18 bp):
GAGCCATCACCTCACCCA
Found at i:872452 original size:19 final size:20
Alignment explanation
Indices: 872409--872464 Score: 69
Period size: 20 Copynumber: 2.9 Consensus size: 20
872399 CACAACACGA
872409 AAATGACTATCGCAACGCGG
1 AAATGACTATCGCAACGCGG
* *
872429 AAATGGCTATCGCAATGC-G
1 AAATGACTATCGCAACGCGG
**
872448 AAATGAAAATCGCAACG
1 AAATGACTATCGCAACG
872465 ACAAAATCGC
Statistics
Matches: 30, Mismatches: 6, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
19 14 0.47
20 16 0.53
ACGTcount: A:0.39, C:0.21, G:0.23, T:0.16
Consensus pattern (20 bp):
AAATGACTATCGCAACGCGG
Found at i:872512 original size:19 final size:19
Alignment explanation
Indices: 872490--872627 Score: 100
Period size: 19 Copynumber: 7.8 Consensus size: 19
872480 GAAACACAAA
872490 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
* *
872509 TCGCGTTGCGA-TTT--TG
1 TCGCATTGCGATTTTCATT
872525 TCG--TTGCGA-TTTCATT
1 TCGCATTGCGATTTTCATT
*
872541 TCGCATTGCGA-TTT--TG
1 TCGCATTGCGATTTTCATT
872557 TCG--TTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
***
872574 TCGCATTGCGATAGCCATT
1 TCGCATTGCGATTTTCATT
* **
872593 TCCGCGTTGCGATAGTCATT
1 T-CGCATTGCGATTTTCATT
*
872613 TCGCGTTGCGATTTT
1 TCGCATTGCGATTTT
872628 AAGTTTCATG
Statistics
Matches: 97, Mismatches: 12, Indels: 20
0.75 0.09 0.16
Matches are distributed among these distances:
14 15 0.15
15 3 0.03
16 12 0.12
17 4 0.04
18 12 0.12
19 34 0.35
20 17 0.18
ACGTcount: A:0.13, C:0.21, G:0.22, T:0.43
Consensus pattern (19 bp):
TCGCATTGCGATTTTCATT
Found at i:872531 original size:14 final size:14
Alignment explanation
Indices: 872512--872569 Score: 71
Period size: 14 Copynumber: 3.9 Consensus size: 14
872502 TTTCATTTCG
872512 CGTTGCGATTTTGT
1 CGTTGCGATTTTGT
*
872526 CGTTGCGATTTCATTT
1 CGTTGCGATTT--TGT
872542 CGCATTGCGATTTTGT
1 CG--TTGCGATTTTGT
872558 CGTTGCGATTTT
1 CGTTGCGATTTT
872570 CATTTCGCAT
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
14 21 0.55
16 8 0.21
18 9 0.24
ACGTcount: A:0.10, C:0.17, G:0.24, T:0.48
Consensus pattern (14 bp):
CGTTGCGATTTTGT
Found at i:872576 original size:33 final size:33
Alignment explanation
Indices: 872495--872585 Score: 166
Period size: 32 Copynumber: 2.8 Consensus size: 33
872485 ACAAATCGCA
*
872495 TTGCGATTTTCATTTCGCGTTGCGATTTTGTCG
1 TTGCGATTTTCATTTCGCATTGCGATTTTGTCG
872528 TTGCGA-TTTCATTTCGCATTGCGATTTTGTCG
1 TTGCGATTTTCATTTCGCATTGCGATTTTGTCG
872560 TTGCGATTTTCATTTCGCATTGCGAT
1 TTGCGATTTTCATTTCGCATTGCGAT
872586 AGCCATTTCC
Statistics
Matches: 56, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
32 31 0.55
33 25 0.45
ACGTcount: A:0.12, C:0.19, G:0.22, T:0.47
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCATTGCGATTTTGTCG
Found at i:872604 original size:20 final size:19
Alignment explanation
Indices: 872570--872624 Score: 83
Period size: 20 Copynumber: 2.8 Consensus size: 19
872560 TTGCGATTTT
*
872570 CATTTCGCATTGCGATAGC
1 CATTTCGCGTTGCGATAGC
*
872589 CATTTCCGCGTTGCGATAGT
1 CATTT-CGCGTTGCGATAGC
872609 CATTTCGCGTTGCGAT
1 CATTTCGCGTTGCGAT
872625 TTTAAGTTTC
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
19 16 0.48
20 17 0.52
ACGTcount: A:0.16, C:0.25, G:0.24, T:0.35
Consensus pattern (19 bp):
CATTTCGCGTTGCGATAGC
Found at i:876075 original size:19 final size:19
Alignment explanation
Indices: 876011--876181 Score: 190
Period size: 19 Copynumber: 9.1 Consensus size: 19
876001 TCTTTTGGTT
*
876011 GAAATGAAAATCGCAACGA
1 GAAATGAAAATCGCAACGC
*
876030 GATAATGAGAATCGCAACGC
1 GA-AATGAAAATCGCAACGC
**
876050 GGAAATGACTATCGCAACGC
1 -GAAATGAAAATCGCAACGC
** *
876070 GAAATGACTATCGCGAC-C
1 GAAATGAAAATCGCAACGC
*
876088 ---A-GACAATCGCAACGC
1 GAAATGAAAATCGCAACGC
876103 GAAATGAAAATCGCAACCGC
1 GAAATGAAAATCGCAA-CGC
*
876123 GAAATAAAAATCGCAACGC
1 GAAATGAAAATCGCAACGC
876142 GAAATGAAAATCGCAACGC
1 GAAATGAAAATCGCAACGC
*
876161 GAAATGAAAATCGCAATGC
1 GAAATGAAAATCGCAACGC
876180 GA
1 GA
876182 TTTTGGTTTC
Statistics
Matches: 133, Mismatches: 11, Indels: 16
0.83 0.07 0.10
Matches are distributed among these distances:
14 10 0.08
15 2 0.02
18 2 0.02
19 69 0.52
20 48 0.36
21 2 0.02
ACGTcount: A:0.44, C:0.22, G:0.22, T:0.12
Consensus pattern (19 bp):
GAAATGAAAATCGCAACGC
Found at i:876135 original size:39 final size:38
Alignment explanation
Indices: 876011--876181 Score: 163
Period size: 39 Copynumber: 4.6 Consensus size: 38
876001 TCTTTTGGTT
* * *
876011 GAAATGAAAATCGCAACGAGATAATGAGAATCGCAACGC
1 GAAATAAAAATCGCAACGCGA-AATGAAAATCGCAACGC
* ** ** *
876050 GGAAATGACTATCGCAACGCGAAATGACTATCGCGAC-C
1 -GAAATAAAAATCGCAACGCGAAATGAAAATCGCAACGC
* *
876088 ---A-GACAATCGCAACGCGAAATGAAAATCGCAACCGC
1 GAAATAAAAATCGCAACGCGAAATGAAAATCGCAA-CGC
876123 GAAATAAAAATCGCAACGCGAAATGAAAATCGCAACGC
1 GAAATAAAAATCGCAACGCGAAATGAAAATCGCAACGC
* *
876161 GAAATGAAAATCGCAATGCGA
1 GAAATAAAAATCGCAACGCGA
876182 TTTTGGTTTC
Statistics
Matches: 111, Mismatches: 14, Indels: 14
0.80 0.10 0.10
Matches are distributed among these distances:
33 26 0.23
34 2 0.02
35 1 0.01
38 24 0.22
39 40 0.36
40 18 0.16
ACGTcount: A:0.44, C:0.22, G:0.22, T:0.12
Consensus pattern (38 bp):
GAAATAAAAATCGCAACGCGAAATGAAAATCGCAACGC
Found at i:876210 original size:19 final size:19
Alignment explanation
Indices: 876177--876257 Score: 73
Period size: 19 Copynumber: 4.5 Consensus size: 19
876167 AAAATCGCAA
**
876177 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTTATTTCGCGT
876196 TGCGATTTTTATTTCGCGT
1 TGCGATTTTTATTTCGCGT
*
876215 TGCGA---TTA--TCTCGT
1 TGCGATTTTTATTTCGCGT
**
876229 TGCGATAGTTATTTCCGCGT
1 TGCGATTTTTATTT-CGCGT
876249 TGCGATTTT
1 TGCGATTTT
876258 CATTCTCGAA
Statistics
Matches: 50, Mismatches: 6, Indels: 11
0.75 0.09 0.16
Matches are distributed among these distances:
14 10 0.20
16 3 0.06
17 3 0.06
19 23 0.46
20 11 0.22
ACGTcount: A:0.11, C:0.17, G:0.25, T:0.47
Consensus pattern (19 bp):
TGCGATTTTTATTTCGCGT
Found at i:876868 original size:20 final size:20
Alignment explanation
Indices: 876775--876868 Score: 89
Period size: 20 Copynumber: 4.7 Consensus size: 20
876765 CGCTATGTAA
* *
876775 ATCGCGTTGCGAAAGTCAGT
1 ATCGCGTTGCGATAGTAAGT
*
876795 ATCGCGTTGCGAAAGTAAGT
1 ATCGCGTTGCGATAGTAAGT
* ** * *
876815 ATCTCGTTGCGATTTTTTATT
1 ATCGCGTTGCGA-TAGTAAGT
*
876836 ATCGCATTGCGATAGTAAGT
1 ATCGCGTTGCGATAGTAAGT
*
876856 ATCGCATTGCGAT
1 ATCGCGTTGCGAT
876869 TTTCCCAATT
Statistics
Matches: 60, Mismatches: 13, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
20 47 0.78
21 13 0.22
ACGTcount: A:0.24, C:0.17, G:0.24, T:0.34
Consensus pattern (20 bp):
ATCGCGTTGCGATAGTAAGT
Found at i:876886 original size:21 final size:21
Alignment explanation
Indices: 876857--876949 Score: 100
Period size: 20 Copynumber: 4.5 Consensus size: 21
876847 ATAGTAAGTA
876857 TCGCATTGCGATTTTCCCAAT
1 TCGCATTGCGATTTTCCCAAT
* * **
876878 TCGCGTTGCGA-TTTACTTAT
1 TCGCATTGCGATTTTCCCAAT
876898 TCGCATTGCGATTTTCCCAAT
1 TCGCATTGCGATTTTCCCAAT
* * **
876919 TCGCGTTGCGA-TTTACTTAT
1 TCGCATTGCGATTTTCCCAAT
876939 TCGCATTGCGA
1 TCGCATTGCGA
876950 ATTGGGAAAA
Statistics
Matches: 58, Mismatches: 13, Indels: 3
0.78 0.18 0.04
Matches are distributed among these distances:
20 32 0.55
21 26 0.45
ACGTcount: A:0.17, C:0.25, G:0.18, T:0.40
Consensus pattern (21 bp):
TCGCATTGCGATTTTCCCAAT
Found at i:876887 original size:41 final size:41
Alignment explanation
Indices: 876796--876930 Score: 148
Period size: 41 Copynumber: 3.3 Consensus size: 41
876786 AAAGTCAGTA
* * * ** *
876796 TCGCGTTGCGAAAGTAAGTATCTCGTTGCGATTTT-TTATT
1 TCGCGTTGCGATAGTAAGTATCGCATTGCGATTTTCCCAAT
*
876836 ATCGCATTGCGATAGTAAGTATCGCATTGCGATTTTCCCAAT
1 -TCGCGTTGCGATAGTAAGTATCGCATTGCGATTTTCCCAAT
* **
876878 TCGCGTTGCGAT-TTACTTATTCGCATTGCGATTTTCCCAAT
1 TCGCGTTGCGATAGTAAGTA-TCGCATTGCGATTTTCCCAAT
876919 TCGCGTTGCGAT
1 TCGCGTTGCGAT
876931 TTACTTATTC
Statistics
Matches: 81, Mismatches: 11, Indels: 4
0.84 0.11 0.04
Matches are distributed among these distances:
40 4 0.05
41 75 0.93
42 2 0.02
ACGTcount: A:0.20, C:0.21, G:0.21, T:0.39
Consensus pattern (41 bp):
TCGCGTTGCGATAGTAAGTATCGCATTGCGATTTTCCCAAT
Found at i:876931 original size:41 final size:41
Alignment explanation
Indices: 876857--876949 Score: 186
Period size: 41 Copynumber: 2.3 Consensus size: 41
876847 ATAGTAAGTA
876857 TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTTACTTAT
1 TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTTACTTAT
876898 TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTTACTTAT
1 TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTTACTTAT
876939 TCGCATTGCGA
1 TCGCATTGCGA
876950 ATTGGGAAAA
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 52 1.00
ACGTcount: A:0.17, C:0.25, G:0.18, T:0.40
Consensus pattern (41 bp):
TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTTACTTAT
Found at i:877661 original size:61 final size:60
Alignment explanation
Indices: 877583--877703 Score: 140
Period size: 61 Copynumber: 2.0 Consensus size: 60
877573 GTGATAGTAT
* * * *
877583 ATATCTATAGTTTGGGATGA-AGTTGGAATGTTCAAAAAGTTT-AGGGACTAATTTTGAATAA
1 ATATCTATAATTTGGGATGATA-TTGAAATATTCAAAAA-TTTGA-GGACTAATTTAGAATAA
*
877644 ATATC-ATAATTTGGGGATGATATTGAAATATTCAAAAATTTGAGTACTAATTTAGAATAA
1 ATATCTATAATTT-GGGATGATATTGAAATATTCAAAAATTTGAGGACTAATTTAGAATAA
877704 TAATTATAGT
Statistics
Matches: 52, Mismatches: 5, Indels: 7
0.81 0.08 0.11
Matches are distributed among these distances:
60 24 0.46
61 27 0.52
62 1 0.02
ACGTcount: A:0.40, C:0.05, G:0.19, T:0.36
Consensus pattern (60 bp):
ATATCTATAATTTGGGATGATATTGAAATATTCAAAAATTTGAGGACTAATTTAGAATAA
Found at i:878324 original size:21 final size:21
Alignment explanation
Indices: 878287--878330 Score: 56
Period size: 20 Copynumber: 2.1 Consensus size: 21
878277 CCCTACACCC
878287 AAACCCAAACCTAAAACC-TA
1 AAACCCAAACCTAAAACCATA
878307 AAACCCTAAA-CTATAAACCATA
1 AAACCC-AAACCTA-AAACCATA
878329 AA
1 AA
878331 CCATAAATCC
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
20 9 0.43
21 8 0.38
22 4 0.19
ACGTcount: A:0.57, C:0.30, G:0.00, T:0.14
Consensus pattern (21 bp):
AAACCCAAACCTAAAACCATA
Found at i:878371 original size:7 final size:7
Alignment explanation
Indices: 878266--878381 Score: 78
Period size: 7 Copynumber: 16.9 Consensus size: 7
878256 CTCTAAACTA
*
878266 TAAACCA
1 TAAACCC
878273 TAAACCC
1 TAAACCC
*
878280 TACACCC
1 TAAACCC
878287 -AAACCC
1 TAAACCC
878293 -AAA-CC
1 TAAACCC
*
878298 TAAAACC
1 TAAACCC
878305 TAAAACCC
1 T-AAACCC
**
878313 TAAACTA
1 TAAACCC
*
878320 TAAACCA
1 TAAACCC
*
878327 TAAACCA
1 TAAACCC
878334 TAAATCCC
1 TAAA-CCC
*
878342 -AAATCC
1 TAAACCC
**
878348 TAAACTA
1 TAAACCC
*
878355 TAAACTC
1 TAAACCC
878362 TAAACCC
1 TAAACCC
*
878369 TAAAACC
1 TAAACCC
878376 TAAACC
1 TAAACC
878382 TTAAGAAATA
Statistics
Matches: 88, Mismatches: 16, Indels: 10
0.77 0.14 0.09
Matches are distributed among these distances:
5 2 0.02
6 13 0.15
7 65 0.74
8 8 0.09
ACGTcount: A:0.50, C:0.34, G:0.00, T:0.16
Consensus pattern (7 bp):
TAAACCC
Found at i:880100 original size:16 final size:16
Alignment explanation
Indices: 880079--880112 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
880069 GTTCTTCAAT
880079 TTTTTTCAAGTTTGAG
1 TTTTTTCAAGTTTGAG
**
880095 TTTTTTTGAGTTTGAG
1 TTTTTTCAAGTTTGAG
880111 TT
1 TT
880113 AAATTTTAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.15, C:0.03, G:0.21, T:0.62
Consensus pattern (16 bp):
TTTTTTCAAGTTTGAG
Found at i:887610 original size:60 final size:60
Alignment explanation
Indices: 887479--887615 Score: 168
Period size: 60 Copynumber: 2.3 Consensus size: 60
887469 TTTCACTATA
* * * * * * * *
887479 CAACCTCAAACTAAGACTCTCATTCTAAATTAGTCCTTACACTTTTGAGCATTCTAATTT
1 CAACCTCAAACTATGACTCTCATCCTAAATTAGTCCCTAAACTTTTAAACATTCTAAATC
*
887539 CAACC-CTAAACTATGACTCTCATCCTAAATTAGTCCCTAAAGTTTTAAACATTCTAAATC
1 CAACCTC-AAACTATGACTCTCATCCTAAATTAGTCCCTAAACTTTTAAACATTCTAAATC
*
887599 CATCCTCAAACTATGAC
1 CAACCTCAAACTATGAC
887616 CCTAATTCTA
Statistics
Matches: 65, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
59 1 0.02
60 63 0.97
61 1 0.02
ACGTcount: A:0.34, C:0.27, G:0.06, T:0.33
Consensus pattern (60 bp):
CAACCTCAAACTATGACTCTCATCCTAAATTAGTCCCTAAACTTTTAAACATTCTAAATC
Found at i:887787 original size:29 final size:30
Alignment explanation
Indices: 887755--887848 Score: 104
Period size: 29 Copynumber: 3.2 Consensus size: 30
887745 GATGATTTTG
887755 GAAT-TTTCAAAAGTTTAAGGACCAATTTA
1 GAATGTTTCAAAAGTTTAAGGACCAATTTA
* * ** *
887784 GAATGATGGTC-AAAGTTTAGGGATTAAGTTA
1 GAATG-T-TTCAAAAGTTTAAGGACCAATTTA
887815 GAATGTTT-AAAAGTTTAAGGACCAATTTA
1 GAATGTTTCAAAAGTTTAAGGACCAATTTA
887844 GAATG
1 GAATG
887849 AGGGTCATAG
Statistics
Matches: 51, Mismatches: 10, Indels: 8
0.74 0.14 0.12
Matches are distributed among these distances:
29 26 0.51
30 1 0.02
31 22 0.43
32 2 0.04
ACGTcount: A:0.39, C:0.06, G:0.21, T:0.33
Consensus pattern (30 bp):
GAATGTTTCAAAAGTTTAAGGACCAATTTA
Found at i:887799 original size:31 final size:31
Alignment explanation
Indices: 887764--887866 Score: 120
Period size: 31 Copynumber: 3.4 Consensus size: 31
887754 GGAATTTTCA
887764 AAAGTTTAAGGACCAATTTAGAATGATGGTC
1 AAAGTTTAAGGACCAATTTAGAATGATGGTC
* ** * * *
887795 AAAGTTTAGGGATTAAGTTAGAATG-T-TTA
1 AAAGTTTAAGGACCAATTTAGAATGATGGTC
*
887824 AAAGTTTAAGGACCAATTTAGAATGAGGGTC
1 AAAGTTTAAGGACCAATTTAGAATGATGGTC
*
887855 ATAGTTTAAGGA
1 AAAGTTTAAGGA
887867 TGTATAGTCC
Statistics
Matches: 56, Mismatches: 14, Indels: 4
0.76 0.19 0.05
Matches are distributed among these distances:
29 22 0.39
30 1 0.02
31 33 0.59
ACGTcount: A:0.39, C:0.06, G:0.24, T:0.31
Consensus pattern (31 bp):
AAAGTTTAAGGACCAATTTAGAATGATGGTC
Found at i:887807 original size:60 final size:60
Alignment explanation
Indices: 887721--887868 Score: 201
Period size: 60 Copynumber: 2.5 Consensus size: 60
887711 TGAGGGATAT
* ** *
887721 TTTAGAAT-AGGGTCATAGTTTGGGGATGATTTTGGAAT-TTTCAAAAGTTTAAGGACCAA
1 TTTAGAATGAGGGTCATAGTTTAGGGATGAAGTTAGAATGTTT-AAAAGTTTAAGGACCAA
* * *
887780 TTTAGAATGATGGTCAAAGTTTAGGGATTAAGTTAGAATGTTTAAAAGTTTAAGGACCAA
1 TTTAGAATGAGGGTCATAGTTTAGGGATGAAGTTAGAATGTTTAAAAGTTTAAGGACCAA
*
887840 TTTAGAATGAGGGTCATAGTTTAAGGATG
1 TTTAGAATGAGGGTCATAGTTTAGGGATG
887869 TATAGTCCAA
Statistics
Matches: 76, Mismatches: 11, Indels: 3
0.84 0.12 0.03
Matches are distributed among these distances:
59 8 0.11
60 65 0.86
61 3 0.04
ACGTcount: A:0.34, C:0.05, G:0.26, T:0.34
Consensus pattern (60 bp):
TTTAGAATGAGGGTCATAGTTTAGGGATGAAGTTAGAATGTTTAAAAGTTTAAGGACCAA
Found at i:891722 original size:33 final size:32
Alignment explanation
Indices: 891673--891793 Score: 129
Period size: 32 Copynumber: 3.8 Consensus size: 32
891663 AGAACAATGA
891673 GGGCA-TTTTTGAAGATTCAACATCAAATGTTG
1 GGGCATTTTTTG-AGATTCAACATCAAATGTTG
* * *
891705 GGGTATTTTTTTTAGATTTAACATCAAATGTTG
1 GGGCA-TTTTTTGAGATTCAACATCAAATGTTG
* * *
891738 GGGCATTTTTTGAGATTCAACATCGAATATTA
1 GGGCATTTTTTGAGATTCAACATCAAATGTTG
* *
891770 GGGCA-TCTTTGGGAATTCAACATC
1 GGGCATTTTTTGAG-ATTCAACATC
891794 CTGATGCAAA
Statistics
Matches: 75, Mismatches: 11, Indels: 6
0.82 0.12 0.07
Matches are distributed among these distances:
31 6 0.08
32 41 0.55
33 23 0.31
34 5 0.07
ACGTcount: A:0.29, C:0.12, G:0.21, T:0.38
Consensus pattern (32 bp):
GGGCATTTTTTGAGATTCAACATCAAATGTTG
Found at i:892792 original size:36 final size:37
Alignment explanation
Indices: 892752--892823 Score: 94
Period size: 36 Copynumber: 2.0 Consensus size: 37
892742 AAATATAAAC
*
892752 ATTGAAAATA-TTTCCCTTGAAATG-AATTTTATCTCG
1 ATTG-AAATAGTTTCCCTTGAAACGAAATTTTATCTCG
* *
892788 ATTGAGATAGTTTCCCTTGAAACGAAATTTTGTCTC
1 ATTGAAATAGTTTCCCTTGAAACGAAATTTTATCTC
892824 CCTTGAAACA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
35 4 0.13
36 17 0.55
37 10 0.32
ACGTcount: A:0.31, C:0.15, G:0.14, T:0.40
Consensus pattern (37 bp):
ATTGAAATAGTTTCCCTTGAAACGAAATTTTATCTCG
Found at i:892808 original size:87 final size:87
Alignment explanation
Indices: 892652--892916 Score: 424
Period size: 87 Copynumber: 3.1 Consensus size: 87
892642 GATAGTTTCT
* * * *
892652 CTTGAAACGT-AACATTGAAAACATTTCCCTTGGAATGAATTTTATCTCGATTAAGAAAGTTTCC
1 CTTGAAACATAAACATTGAAAACATTTCCCTTGAAATGAATTTTATCTCGATTGAGATAGTTTCC
892716 CTTGAAACGAAATTTTGTCTCC
66 CTTGAAACGAAATTTTGTCTCC
* *
892738 CTTGAAATATAAACATTGAAAATATTTCCCTTGAAATGAATTTTATCTCGATTGAGATAGTTTCC
1 CTTGAAACATAAACATTGAAAACATTTCCCTTGAAATGAATTTTATCTCGATTGAGATAGTTTCC
892803 CTTGAAACGAAATTTTGTCTCC
66 CTTGAAACGAAATTTTGTCTCC
* * * *
892825 CTTGAAACATAAACATTGAAAACATTTCCCTTGAAATAAATTTTATCTCGCTTGGGGTAGTTTCC
1 CTTGAAACATAAACATTGAAAACATTTCCCTTGAAATGAATTTTATCTCGATTGAGATAGTTTCC
*
892890 CTTGAAACAAAATTTTGTCTCC
66 CTTGAAACGAAATTTTGTCTCC
892912 CTTGA
1 CTTGA
892917 GACAGTTTCT
Statistics
Matches: 165, Mismatches: 13, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
86 8 0.05
87 157 0.95
ACGTcount: A:0.32, C:0.18, G:0.13, T:0.36
Consensus pattern (87 bp):
CTTGAAACATAAACATTGAAAACATTTCCCTTGAAATGAATTTTATCTCGATTGAGATAGTTTCC
CTTGAAACGAAATTTTGTCTCC
Found at i:892924 original size:37 final size:37
Alignment explanation
Indices: 892849--892935 Score: 104
Period size: 37 Copynumber: 2.4 Consensus size: 37
892839 ATTGAAAACA
* * * **
892849 TTTCCCTTGAAA-TAAATTTTATCTCGCTTGGGGTAG
1 TTTCCCTTGAAACAAAATTTTATCTCCCTTGAGACAG
*
892885 TTTCCCTTGAAACAAAATTTTGTCTCCCTTGAGACAG
1 TTTCCCTTGAAACAAAATTTTATCTCCCTTGAGACAG
*
892922 TTTCTCTTGAAACA
1 TTTCCCTTGAAACA
892936 TAAACATTGA
Statistics
Matches: 43, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
36 12 0.28
37 31 0.72
ACGTcount: A:0.25, C:0.21, G:0.15, T:0.39
Consensus pattern (37 bp):
TTTCCCTTGAAACAAAATTTTATCTCCCTTGAGACAG
Found at i:892939 original size:102 final size:102
Alignment explanation
Indices: 892825--893060 Score: 339
Period size: 102 Copynumber: 2.3 Consensus size: 102
892815 TTTTGTCTCC
* *
892825 CTTGAAACATAAACATTGAAAACATTTCCCTTGAAATAAATTTTATCTCGCTTGGGGTAGTTTCC
1 CTTGAAACATAAACATTGAAAACATTTCCCTTGAAATAAATTTTATCTCGCTTGAGATAGTTTCC
*
892890 CTTGAAACA-AAATTTTGTCTCCCTTGAGACAGTTTCT
66 CTCGAAA-ATAAATTTTGTCTCCCTTGAGACAGTTTCT
* * * *
892927 CTTGAAACATAAACATTGAAAACATTTCCTTTGAAATTAATTTTGTCTCTCTTGAGATAGTTTCC
1 CTTGAAACATAAACATTGAAAACATTTCCCTTGAAATAAATTTTATCTCGCTTGAGATAGTTTCC
*** *
892992 CTCGAAAATTTTTTTTGTCTCCCTTGAGATAGTTTCT
66 CTCGAAAATAAATTTTGTCTCCCTTGAGACAGTTTCT
* *
893029 CTTGAAACATAAACCTTGAAAACGTTTCCCTT
1 CTTGAAACATAAACATTGAAAACATTTCCCTT
893061 AAAAAACAAA
Statistics
Matches: 119, Mismatches: 14, Indels: 2
0.88 0.10 0.01
Matches are distributed among these distances:
101 1 0.01
102 118 0.99
ACGTcount: A:0.30, C:0.19, G:0.12, T:0.39
Consensus pattern (102 bp):
CTTGAAACATAAACATTGAAAACATTTCCCTTGAAATAAATTTTATCTCGCTTGAGATAGTTTCC
CTCGAAAATAAATTTTGTCTCCCTTGAGACAGTTTCT
Found at i:893152 original size:37 final size:37
Alignment explanation
Indices: 893102--893201 Score: 175
Period size: 36 Copynumber: 2.7 Consensus size: 37
893092 AAAATGAGTT
893102 TTGAGACAGTTTCCCTTGAAACAAAATATTGTCTCGC
1 TTGAGACAGTTTCCCTTGAAACAAAATATTGTCTCGC
* *
893139 TTGAGACAGTTTCCCTTGAAAC-AAATTTTGTCTCTC
1 TTGAGACAGTTTCCCTTGAAACAAAATATTGTCTCGC
893175 TTGAGACAGTTTCCCTTGAAACAAAAT
1 TTGAGACAGTTTCCCTTGAAACAAAAT
893202 CTTTAGATAT
Statistics
Matches: 60, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
36 34 0.57
37 26 0.43
ACGTcount: A:0.30, C:0.21, G:0.15, T:0.34
Consensus pattern (37 bp):
TTGAGACAGTTTCCCTTGAAACAAAATATTGTCTCGC
Found at i:893221 original size:29 final size:29
Alignment explanation
Indices: 893188--893257 Score: 131
Period size: 29 Copynumber: 2.4 Consensus size: 29
893178 AGACAGTTTC
*
893188 CCTTGAAACAAAATCTTTAGATATCTTTT
1 CCTTGAAACAAAATCTTTAAATATCTTTT
893217 CCTTGAAACAAAATCTTTAAATATCTTTT
1 CCTTGAAACAAAATCTTTAAATATCTTTT
893246 CCTTGAAACAAA
1 CCTTGAAACAAA
893258 TTTTTGTCTC
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
29 40 1.00
ACGTcount: A:0.39, C:0.19, G:0.06, T:0.37
Consensus pattern (29 bp):
CCTTGAAACAAAATCTTTAAATATCTTTT
Found at i:893301 original size:37 final size:36
Alignment explanation
Indices: 893248--893365 Score: 150
Period size: 37 Copynumber: 3.2 Consensus size: 36
893238 TATCTTTTCC
893248 TTGAAACAAATTTTTGTCTCCCTTGAGACAGTTTCTT
1 TTGAAACAAA-TTTTGTCTCCCTTGAGACAGTTTCTT
* * *
893285 TT-AGAACTAAGTTTTGTCTCTCTTGAGACAATTTCTT
1 TTGA-AAC-AAATTTTGTCTCCCTTGAGACAGTTTCTT
*
893322 TTGAAACAAATTTTGTC-CCTCTTGAGACAGTTTCTC
1 TTGAAACAAATTTTGTCTCC-CTTGAGACAGTTTCTT
893358 TTGAAACA
1 TTGAAACA
893366 CAATAAAAAA
Statistics
Matches: 70, Mismatches: 7, Indels: 9
0.81 0.08 0.10
Matches are distributed among these distances:
35 1 0.01
36 32 0.46
37 34 0.49
38 3 0.04
ACGTcount: A:0.26, C:0.19, G:0.14, T:0.42
Consensus pattern (36 bp):
TTGAAACAAATTTTGTCTCCCTTGAGACAGTTTCTT
Found at i:893344 original size:36 final size:36
Alignment explanation
Indices: 893248--893365 Score: 150
Period size: 36 Copynumber: 3.2 Consensus size: 36
893238 TATCTTTTCC
893248 TTGAAACAAATTTTTGTCTCC-CTTGAGACAGTTTCTT
1 TTGAAACAAA-TTTTGTC-CCTCTTGAGACAGTTTCTT
* * *
893285 TT-AGAACTAAGTTTTGTCTCTCTTGAGACAATTTCTT
1 TTGA-AAC-AAATTTTGTCCCTCTTGAGACAGTTTCTT
*
893322 TTGAAACAAATTTTGTCCCTCTTGAGACAGTTTCTC
1 TTGAAACAAATTTTGTCCCTCTTGAGACAGTTTCTT
893358 TTGAAACA
1 TTGAAACA
893366 CAATAAAAAA
Statistics
Matches: 70, Mismatches: 7, Indels: 9
0.81 0.08 0.10
Matches are distributed among these distances:
36 35 0.50
37 32 0.46
38 3 0.04
ACGTcount: A:0.26, C:0.19, G:0.14, T:0.42
Consensus pattern (36 bp):
TTGAAACAAATTTTGTCCCTCTTGAGACAGTTTCTT
Found at i:893392 original size:36 final size:37
Alignment explanation
Indices: 893351--893439 Score: 126
Period size: 37 Copynumber: 2.4 Consensus size: 37
893341 TCTTGAGACA
* *
893351 GTTTCTCTTGAAACACA-ATAAAAAACCCTCGAAATT
1 GTTTCTCTTGAAACACACACAAAAAACCCTCGAAAAT
* * *
893387 TTTTCTCTTGAAACACACACAAAAAACCTTTGAAAAT
1 GTTTCTCTTGAAACACACACAAAAAACCCTCGAAAAT
893424 GTTTCTCTTGAAACAC
1 GTTTCTCTTGAAACAC
893440 CAAACCCTCG
Statistics
Matches: 46, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
36 16 0.35
37 30 0.65
ACGTcount: A:0.39, C:0.22, G:0.08, T:0.30
Consensus pattern (37 bp):
GTTTCTCTTGAAACACACACAAAAAACCCTCGAAAAT
Found at i:894848 original size:22 final size:23
Alignment explanation
Indices: 894823--894868 Score: 60
Period size: 21 Copynumber: 2.1 Consensus size: 23
894813 TTTATTTCTG
* *
894823 TTTTCTTA-TTTAGTAC-TATTA
1 TTTTTTTATTTTAATACTTATTA
894844 TTTTTTTATTTTAATACTTATTA
1 TTTTTTTATTTTAATACTTATTA
894867 TT
1 TT
894869 ACTATTATTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 7 0.33
22 7 0.33
23 7 0.33
ACGTcount: A:0.24, C:0.07, G:0.02, T:0.67
Consensus pattern (23 bp):
TTTTTTTATTTTAATACTTATTA
Found at i:894896 original size:30 final size:31
Alignment explanation
Indices: 894836--894897 Score: 74
Period size: 32 Copynumber: 2.0 Consensus size: 31
894826 TCTTATTTAG
* *
894836 TACTATTATTTTTTTATTTTAATACTTATTAT
1 TACTATTATTTTTATACTTTAATAC-TATTAT
894868 TACTATTATTTTTATACCTTT-ATA-TATTAT
1 TACTATTATTTTTATA-CTTTAATACTATTAT
894898 ATATATATAT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
30 6 0.22
32 18 0.67
33 3 0.11
ACGTcount: A:0.29, C:0.08, G:0.00, T:0.63
Consensus pattern (31 bp):
TACTATTATTTTTATACTTTAATACTATTAT
Found at i:894900 original size:2 final size:2
Alignment explanation
Indices: 894888--894937 Score: 84
Period size: 2 Copynumber: 25.5 Consensus size: 2
894878 TTTATACCTT
*
894888 TA TA TA T- TA TA TA TA TA TA TA TA TA TA TA TC TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
894929 TA TA TA TA T
1 TA TA TA TA T
894938 TCATATAACT
Statistics
Matches: 45, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
1 1 0.02
2 44 0.98
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:900299 original size:8 final size:8
Alignment explanation
Indices: 900286--900408 Score: 51
Period size: 8 Copynumber: 16.8 Consensus size: 8
900276 GACAATTAAT
900286 ATACTTTA
1 ATACTTTA
900294 ATACTTT-
1 ATACTTTA
900301 ATA-TTTA
1 ATACTTTA
900308 ATAC-TT-
1 ATACTTTA
900314 ATA--TTA
1 ATACTTTA
*
900320 TATAGTTTA
1 -ATACTTTA
900329 ATACTTT-
1 ATACTTTA
* *
900336 ATAATAT-
1 ATACTTTA
900343 ATACTTTA
1 ATACTTTA
*
900351 GTAC-TTA
1 ATACTTTA
*
900358 TGTAC-TTA
1 -ATACTTTA
900366 TATACTTT-
1 -ATACTTTA
900374 ATA-TTTA
1 ATACTTTA
*
900381 ATA-GTT-
1 ATACTTTA
900387 ATA-TTTA
1 ATACTTTA
900394 TATACTTTA
1 -ATACTTTA
900403 ATACTT
1 ATACTT
900409 ATATCCAAAC
Statistics
Matches: 93, Mismatches: 9, Indels: 26
0.73 0.07 0.20
Matches are distributed among these distances:
5 2 0.02
6 14 0.15
7 32 0.34
8 36 0.39
9 9 0.10
ACGTcount: A:0.36, C:0.08, G:0.03, T:0.53
Consensus pattern (8 bp):
ATACTTTA
Found at i:900313 original size:22 final size:22
Alignment explanation
Indices: 900286--900455 Score: 101
Period size: 22 Copynumber: 7.8 Consensus size: 22
900276 GACAATTAAT
900286 ATACTTTAATACTTTATATTTA
1 ATACTTTAATACTTTATATTTA
900308 ATAC-TT-ATA-TTATATAGTTTA
1 ATACTTTAATACTT-TATA-TTTA
* *
900329 ATACTTT-ATAATATATACTTTA
1 ATACTTTAATACTTTATA-TTTA
* *
900351 GTAC-TTATGTACTTATATACTTT-
1 ATACTTTA-ATACTT-TATA-TTTA
*
900374 ATA-TTTAATA-GTTATATTTA
1 ATACTTTAATACTTTATATTTA
**
900394 TATACTTTAATAC-TTATATCCAA
1 -ATACTTTAATACTTTATAT-TTA
* *
900417 ACACTTTATTACTTTATA-TTA
1 ATACTTTAATACTTTATATTTA
900438 TATACTTT-ATACTTTATA
1 -ATACTTTAATACTTTATA
900456 ATTTTATATA
Statistics
Matches: 116, Mismatches: 17, Indels: 31
0.71 0.10 0.19
Matches are distributed among these distances:
19 5 0.04
20 11 0.09
21 26 0.22
22 51 0.44
23 15 0.13
24 8 0.07
ACGTcount: A:0.36, C:0.10, G:0.02, T:0.52
Consensus pattern (22 bp):
ATACTTTAATACTTTATATTTA
Found at i:900342 original size:20 final size:20
Alignment explanation
Indices: 900300--900344 Score: 65
Period size: 20 Copynumber: 2.2 Consensus size: 20
900290 TTTAATACTT
*
900300 TATATTTAATACTTATATTA
1 TATATTTAATACTTATATAA
900320 TATAGTTTAATACTT-TATAA
1 TATA-TTTAATACTTATATAA
900340 TATAT
1 TATAT
900345 ACTTTAGTAC
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
19 1 0.04
20 12 0.52
21 10 0.43
ACGTcount: A:0.40, C:0.04, G:0.02, T:0.53
Consensus pattern (20 bp):
TATATTTAATACTTATATAA
Found at i:900445 original size:14 final size:14
Alignment explanation
Indices: 900422--900471 Score: 50
Period size: 14 Copynumber: 3.5 Consensus size: 14
900412 TCCAAACACT
900422 TTAT-TACTTTATA
1 TTATATACTTTATA
900435 TTATATACTTTATA
1 TTATATACTTTATA
*
900449 CTT-TATAATTTTATA
1 -TTATAT-ACTTTATA
900464 TATATATA
1 T-TATATA
900472 TATACACACA
Statistics
Matches: 31, Mismatches: 1, Indels: 8
0.77 0.03 0.20
Matches are distributed among these distances:
13 4 0.13
14 13 0.42
15 11 0.35
16 3 0.10
ACGTcount: A:0.36, C:0.06, G:0.00, T:0.58
Consensus pattern (14 bp):
TTATATACTTTATA
Found at i:901031 original size:25 final size:23
Alignment explanation
Indices: 900987--901034 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
900977 ATATGATGCA
*
900987 TTTATATAATGTACATTATACTT
1 TTTATATAATATACATTATACTT
*
901010 TTTATATATATATATATATATACTT
1 TTTATATA-ATATACAT-TATACTT
901035 ATACTTTATA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
23 8 0.38
24 6 0.29
25 7 0.33
ACGTcount: A:0.38, C:0.06, G:0.02, T:0.54
Consensus pattern (23 bp):
TTTATATAATATACATTATACTT
Found at i:901037 original size:31 final size:31
Alignment explanation
Indices: 900989--901054 Score: 89
Period size: 31 Copynumber: 2.1 Consensus size: 31
900979 ATGATGCATT
* *
900989 TATATAATGTACATTATACTTTTTATATATA
1 TATATAATATACATTATACTTTATATATATA
*
901020 TATATATATATAC-TTATACTTTATATATGTA
1 TATATA-ATATACATTATACTTTATATATATA
901051 TATA
1 TATA
901055 AAGTACCAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
31 26 0.84
32 5 0.16
ACGTcount: A:0.39, C:0.06, G:0.03, T:0.52
Consensus pattern (31 bp):
TATATAATATACATTATACTTTATATATATA
Found at i:901161 original size:24 final size:23
Alignment explanation
Indices: 901129--901173 Score: 56
Period size: 24 Copynumber: 1.9 Consensus size: 23
901119 TGATGAGGGA
901129 TGAAATTGA-ATTAATTATAAAATG
1 TGAAATTGATA-TAA-TATAAAATG
*
901153 TGAAGTTGATATAATATAAAA
1 TGAAATTGATATAATATAAAA
901174 ATGAACTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
23 7 0.37
24 11 0.58
25 1 0.05
ACGTcount: A:0.51, C:0.00, G:0.13, T:0.36
Consensus pattern (23 bp):
TGAAATTGATATAATATAAAATG
Found at i:901909 original size:512 final size:516
Alignment explanation
Indices: 900483--901997 Score: 2338
Period size: 512 Copynumber: 2.9 Consensus size: 516
900473 ATACACACAC
* *
900483 ATATAC-TTATATTTTATAGTTTATATATGTATATAAAGTACCAAATTGAACAAACATGAAATTG
1 ATATACATTATAATTTATACTTTATATATGTATATAAAGTACCAAATTGAACAAACATGAAATTG
* * *
900547 GAAATAAAAAATTGAATAAATTAAACAATACGCATTGATGAGGGATGAAATTGAATTATTTATAA
66 GAAATAAAAAATTGAATAAATTAAGCAACACGCATTGATGAGGGATGAAATTGAATTAATTATAA
*
900612 AATGTGAAGCTGATATTAATATAAAAATGGACTAAATTGCATACATTTAAAAAGTTGGTGAACAT
131 AATGTGAAGCTGATATTAATATAAAAATGGACTAAATTGCATACATTTAAAAAGTTGATGAACAT
* *
900677 AATTTGAAAAGAAATTTATTATGTGATTTACATTTTATAGGGTTTGTTTTAAGTAAATT---AAA
196 AATTTGAAAATAAATTTATTATGTGATTTACATTTTATA--G--AGTTTTAAGTAAATTACAAAA
* * * *
900739 -A-AAATAAGTATGAGTCAATTTCAGATACGAATATAATTTGAAGGACTAAATTGAACAAATATG
257 TATAAATAAGTGTGGGTCAATTTCAGATACAAATATAATTTGAAGGACTAAATTAAACAAATATG
*
900802 AAATTACAAATTCAAATTTAAATACAATAAACAACATAAAAGGATCAAATCAAAAAAAATTGTAA
322 AAATTACAAATTAAAATTTAAATACAATAAACAACATAAAAGGATCAAATC--AAAAAATTGTAA
900867 AATGTGAGGAAAAATTGTAAAATGGACTGAATTGCATTAATTTCAAAAGTTGGGGAAAATTAAAA
385 AATGTGAGGAAAAATTGTAAAATGGACTGAATTGCATTAATTTCAAAAGTTGGGGAAAATTAAAA
900932 CAATTATAATATATATATATAATATGTATAATGAATGTCATGATAATATGATGCATTTATATAAT
450 CAATTAT-A-ATATATATATAATATGTATAATGAATGTCATGATAATATGATGC-------T-AT
900997 GTACATTATACTTTTTAT
505 GT--ATTATA----TTAT
*
901015 ATATATATATATATATACTTATACTTTATATATGTATATAAAGTACCAAATTGAACAAACATGAA
1 ATATACAT-TATA-AT--TTATACTTTATATATGTATATAAAGTACCAAATTGAACAAACATGAA
* *
901080 ACTGGAAATAAAAATTTGAATAAATTAAGCAACACGCATTGATGAGGGATGAAATTGAATTAATT
62 ATTGGAAATAAAAAATTGAATAAATTAAGCAACACGCATTGATGAGGGATGAAATTGAATTAATT
* *
901145 ATAAAATGTGAAGTTGATA-TAATATAAAAATGAACTAAATTGCATACATTTAAAAAGTTGATGA
127 ATAAAATGTGAAGCTGATATTAATATAAAAATGGACTAAATTGCATACATTTAAAAAGTTGATGA
*
901209 ACATAATTTGAAAATAAATTTATTATGTGATTTACATTTTATAGGGTTTTAAGTAAATTACAAAA
192 ACATAATTTGAAAATAAATTTATTATGTGATTTACATTTTATAGAGTTTTAAGTAAATTACAAAA
*
901274 TATAAATAAGTGTGGGTCAATTTCATATACAAATATAATTTGAAGGACTAAATTAAA-AAATATG
257 TATAAATAAGTGTGGGTCAATTTCAGATACAAATATAATTTGAAGGACTAAATTAAACAAATATG
* *
901338 AAATTACAAATTTAAATTTAAATACAATAAACAACATAAAAGGGTCAAATCAAAAAAATTGTAAA
322 AAATTACAAATTAAAATTTAAATACAATAAACAACATAAAAGGATCAAATC-AAAAAATTGTAAA
901403 ATGTGAGGAAAAATTGTAAAATGGACTGAATTGCATTAATTTCAAAAGTTGGGGAAAATTAAAAC
386 ATGTGAGGAAAAATTGTAAAATGGACTGAATTGCATTAATTTCAAAAGTTGGGGAAAATTAAAAC
*
901468 AATTATAATATATATATAATATGTATAATGAATGTTTATGATAATATGATGC-ATGT-TTATA-T
451 AATTATAATATATATATAATATGTATAATGAATG-TCATGATAATATGATGCTATGTATTATATT
901530 A-
515 AT
* * *
901531 ATGTACATTATACTTTATACTTTATATATGTATATAAAGTATCAAATTGAACAAACATGAAATTG
1 ATATACATTATAATTTATACTTTATATATGTATATAAAGTACCAAATTGAACAAACATGAAATTG
** *
901596 GAAATAAAAAATTGAATAAATTAAGCAACAAACATTGACGAGGGATGAAATTGAATTAATTATAA
66 GAAATAAAAAATTGAATAAATTAAGCAACACGCATTGATGAGGGATGAAATTGAATTAATTATAA
* *
901661 AATGTGAAGCTGATATTAATATAAAAATGGATTAAATTGAATACATTTAAAAAGTTGATGAACAT
131 AATGTGAAGCTGATATTAATATAAAAATGGACTAAATTGCATACATTTAAAAAGTTGATGAACAT
901726 AATTTGAAAATAAATTTATTATGTGATTTACATTTTATAGAGTTTTAAGTAAATTACAAAAATAT
196 AATTTGAAAATAAATTTATTATGTGATTTACATTTTATAGAGTTTTAAGTAAATTAC-AAAATAT
*
901791 AAATAAGTGTGGGTCAATTTCAGATACAAATATAATTTGAAGTACTAAATTAAACAAATATGAAA
260 AAATAAGTGTGGGTCAATTTCAGATACAAATATAATTTGAAGGACTAAATTAAACAAATATGAAA
* *
901856 TTACAAATTAAAATTTAAATA-AATAAACAATATAAAAGGATCAAATCAAAAATTTGTAAAATGT
325 TTACAAATTAAAATTTAAATACAATAAACAACATAAAAGGATCAAATCAAAAAATTGTAAAATGT
** *
901920 GAGG-AAAATTGTAAAATGTTCTGAATTGCATTAATTTCAAAAGTTGGGGAAAATTATAACAATT
390 GAGGAAAAATTGTAAAATGGACTGAATTGCATTAATTTCAAAAGTTGGGGAAAATTAAAACAATT
901984 ATAATATATATATA
455 ATAATATATATATA
901998 TATAAAGTAC
Statistics
Matches: 925, Mismatches: 44, Indels: 48
0.91 0.04 0.05
Matches are distributed among these distances:
512 195 0.21
513 122 0.13
514 84 0.09
515 34 0.04
516 6 0.01
517 2 0.00
522 5 0.01
525 4 0.00
532 19 0.02
533 28 0.03
534 22 0.02
535 89 0.10
536 142 0.15
537 173 0.19
ACGTcount: A:0.48, C:0.06, G:0.13, T:0.33
Consensus pattern (516 bp):
ATATACATTATAATTTATACTTTATATATGTATATAAAGTACCAAATTGAACAAACATGAAATTG
GAAATAAAAAATTGAATAAATTAAGCAACACGCATTGATGAGGGATGAAATTGAATTAATTATAA
AATGTGAAGCTGATATTAATATAAAAATGGACTAAATTGCATACATTTAAAAAGTTGATGAACAT
AATTTGAAAATAAATTTATTATGTGATTTACATTTTATAGAGTTTTAAGTAAATTACAAAATATA
AATAAGTGTGGGTCAATTTCAGATACAAATATAATTTGAAGGACTAAATTAAACAAATATGAAAT
TACAAATTAAAATTTAAATACAATAAACAACATAAAAGGATCAAATCAAAAAATTGTAAAATGTG
AGGAAAAATTGTAAAATGGACTGAATTGCATTAATTTCAAAAGTTGGGGAAAATTAAAACAATTA
TAATATATATATAATATGTATAATGAATGTCATGATAATATGATGCTATGTATTATATTAT
Found at i:902651 original size:31 final size:31
Alignment explanation
Indices: 902616--902684 Score: 129
Period size: 31 Copynumber: 2.2 Consensus size: 31
902606 CCAATTATGT
902616 CACCCGATCTGAACGAGATCTGCCTGAAGTC
1 CACCCGATCTGAACGAGATCTGCCTGAAGTC
902647 CACCCGATCTGAACGAGATCTGCCTGAAGTC
1 CACCCGATCTGAACGAGATCTGCCTGAAGTC
*
902678 CATCCGA
1 CACCCGA
902685 ACCTGAATTA
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 37 1.00
ACGTcount: A:0.26, C:0.33, G:0.22, T:0.19
Consensus pattern (31 bp):
CACCCGATCTGAACGAGATCTGCCTGAAGTC
Found at i:917474 original size:28 final size:29
Alignment explanation
Indices: 917425--917480 Score: 71
Period size: 28 Copynumber: 2.0 Consensus size: 29
917415 GGATAGATTT
* *
917425 AATATTTATATTAAATTCATATTTTTTAA
1 AATATTTAAATTAAATTCATATTATTTAA
917454 AATATTATAAATTAAA-T-ATATTATTTA
1 AATATT-TAAATTAAATTCATATTATTTA
917481 GTTTAAATAT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
28 9 0.38
29 7 0.29
30 8 0.33
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (29 bp):
AATATTTAAATTAAATTCATATTATTTAA
Found at i:917618 original size:67 final size:64
Alignment explanation
Indices: 917544--917678 Score: 173
Period size: 67 Copynumber: 2.1 Consensus size: 64
917534 GTTTATTATC
* * * *
917544 TATTTAATTTTGAATATTAAAAGATA-ATTATATCTTTTTTTAAATATTTTAAAATTAAAATAAT
1 TATTTAATTTTAAATAGTAAAAGA-AGATTATATATATTTTTAAATATTTT-AAATTAAAAT-AT
917608 AT
63 AT
* *
917610 ATATTTAATTTTAAATAGTAAAAGAAGTTTATATATATTTTTGAATATTTTAAATTAAAATATAT
1 -TATTTAATTTTAAATAGTAAAAGAAGATTATATATATTTTTAAATATTTTAAATTAAAATATAT
917675 TATT
1 TATT
917679 ATATGTTTTC
Statistics
Matches: 61, Mismatches: 6, Indels: 5
0.85 0.08 0.07
Matches are distributed among these distances:
64 4 0.07
65 4 0.07
66 11 0.18
67 42 0.69
ACGTcount: A:0.45, C:0.01, G:0.04, T:0.50
Consensus pattern (64 bp):
TATTTAATTTTAAATAGTAAAAGAAGATTATATATATTTTTAAATATTTTAAATTAAAATATAT
Found at i:929336 original size:19 final size:19
Alignment explanation
Indices: 929312--929352 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
929302 CAAATTAATG
*
929312 AAAGAAAACTGTAATCTTC
1 AAAGAAAAATGTAATCTTC
* *
929331 AAAGAAAAATGTCATTTTC
1 AAAGAAAAATGTAATCTTC
929350 AAA
1 AAA
929353 TTTCAATATA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.51, C:0.12, G:0.10, T:0.27
Consensus pattern (19 bp):
AAAGAAAAATGTAATCTTC
Found at i:934059 original size:21 final size:21
Alignment explanation
Indices: 934020--934060 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
934010 CCTAGAGAGA
* * *
934020 GTATTGATACTCTAGTTAAGG
1 GTATCGATACTCAACTTAAGG
934041 GTATCGATACTCAACTTAAG
1 GTATCGATACTCAACTTAAG
934061 TTTCTTTAAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.32, C:0.15, G:0.20, T:0.34
Consensus pattern (21 bp):
GTATCGATACTCAACTTAAGG
Found at i:940660 original size:21 final size:21
Alignment explanation
Indices: 940634--940691 Score: 107
Period size: 21 Copynumber: 2.8 Consensus size: 21
940624 AGGGTGTCAA
*
940634 AGTGCATCCATGTACCCCTGC
1 AGTGCATCCATGCACCCCTGC
940655 AGTGCATCCATGCACCCCTGC
1 AGTGCATCCATGCACCCCTGC
940676 AGTGCATCCATGCACC
1 AGTGCATCCATGCACC
940692 TGCCACTAAT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 36 1.00
ACGTcount: A:0.21, C:0.40, G:0.19, T:0.21
Consensus pattern (21 bp):
AGTGCATCCATGCACCCCTGC
Found at i:941927 original size:24 final size:24
Alignment explanation
Indices: 941895--941942 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
941885 GAAAGAAGAA
941895 CCAACAAAGGTGGTGTCTCTAATG
1 CCAACAAAGGTGGTGTCTCTAATG
941919 CCAACAAAGGTGGTGTCTCTAATG
1 CCAACAAAGGTGGTGTCTCTAATG
941943 GCTCGTGAAG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.29, C:0.21, G:0.25, T:0.25
Consensus pattern (24 bp):
CCAACAAAGGTGGTGTCTCTAATG
Found at i:942127 original size:19 final size:20
Alignment explanation
Indices: 942103--942150 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 20
942093 AATGACTTTC
*
942103 TTTTGAAAACAAAAAT-AGA
1 TTTTGAAAACAAAAATGAAA
* *
942122 TTTTGAAAGCCAAAATGAAA
1 TTTTGAAAACAAAAATGAAA
942142 TTTTGAAAA
1 TTTTGAAAA
942151 AGGATTTAGA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
19 14 0.58
20 10 0.42
ACGTcount: A:0.52, C:0.06, G:0.12, T:0.29
Consensus pattern (20 bp):
TTTTGAAAACAAAAATGAAA
Found at i:943258 original size:21 final size:21
Alignment explanation
Indices: 943232--943271 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
943222 AAACAATTGG
943232 TAACAATTGATATCATTTTGT
1 TAACAATTGATATCATTTTGT
* *
943253 TAACAATTGGTATCTTTTT
1 TAACAATTGATATCATTTT
943272 CATTAAACAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.30, C:0.10, G:0.10, T:0.50
Consensus pattern (21 bp):
TAACAATTGATATCATTTTGT
Found at i:943551 original size:20 final size:20
Alignment explanation
Indices: 943526--943578 Score: 88
Period size: 20 Copynumber: 2.6 Consensus size: 20
943516 AATGCACTTA
943526 GTGCATCGATGCATCCTGTT
1 GTGCATCGATGCATCCTGTT
*
943546 GTGCATCGATGCATTCTGTT
1 GTGCATCGATGCATCCTGTT
*
943566 GTGCATCCATGCA
1 GTGCATCGATGCA
943579 CGAAGGCTGC
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.17, C:0.25, G:0.25, T:0.34
Consensus pattern (20 bp):
GTGCATCGATGCATCCTGTT
Found at i:943719 original size:20 final size:22
Alignment explanation
Indices: 943681--943720 Score: 66
Period size: 20 Copynumber: 1.9 Consensus size: 22
943671 TTTGAGTAGA
943681 AAAATCATCCCCAAACGGTTGC
1 AAAATCATCCCCAAACGGTTGC
943703 AAAA-CATCCCC-AACGGTT
1 AAAATCATCCCCAAACGGTT
943721 ATATATGACA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 7 0.39
21 7 0.39
22 4 0.22
ACGTcount: A:0.38, C:0.33, G:0.12, T:0.17
Consensus pattern (22 bp):
AAAATCATCCCCAAACGGTTGC
Found at i:944271 original size:13 final size:13
Alignment explanation
Indices: 944253--944281 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
944243 GAGAAAAACA
944253 GAATGCTCGGAGG
1 GAATGCTCGGAGG
944266 GAATGCTCGGAGG
1 GAATGCTCGGAGG
944279 GAA
1 GAA
944282 CCTATTCCCC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.28, C:0.14, G:0.45, T:0.14
Consensus pattern (13 bp):
GAATGCTCGGAGG
Found at i:950113 original size:22 final size:22
Alignment explanation
Indices: 950087--950146 Score: 77
Period size: 21 Copynumber: 2.8 Consensus size: 22
950077 TTGGTGCAGA
950087 GGGAATCGATACCCCCTTGAAG
1 GGGAATCGATACCCCCTTGAAG
* * *
950109 GGGAACCGATTCCCCC-TGTAG
1 GGGAATCGATACCCCCTTGAAG
*
950130 AGGAATCGATACCCCCT
1 GGGAATCGATACCCCCT
950147 GGAGGTTCTG
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
21 17 0.55
22 14 0.45
ACGTcount: A:0.25, C:0.32, G:0.25, T:0.18
Consensus pattern (22 bp):
GGGAATCGATACCCCCTTGAAG
Found at i:950824 original size:21 final size:21
Alignment explanation
Indices: 950798--950845 Score: 96
Period size: 21 Copynumber: 2.3 Consensus size: 21
950788 CTCATAAACG
950798 TTCTAGAGCTTCCTCTAGTCA
1 TTCTAGAGCTTCCTCTAGTCA
950819 TTCTAGAGCTTCCTCTAGTCA
1 TTCTAGAGCTTCCTCTAGTCA
950840 TTCTAG
1 TTCTAG
950846 CCAACCTCCA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.19, C:0.27, G:0.15, T:0.40
Consensus pattern (21 bp):
TTCTAGAGCTTCCTCTAGTCA
Found at i:952094 original size:28 final size:28
Alignment explanation
Indices: 952061--952128 Score: 136
Period size: 28 Copynumber: 2.4 Consensus size: 28
952051 CTTAGATTTT
952061 TGGATGTTTGAATTTGTTTGATGGATTA
1 TGGATGTTTGAATTTGTTTGATGGATTA
952089 TGGATGTTTGAATTTGTTTGATGGATTA
1 TGGATGTTTGAATTTGTTTGATGGATTA
952117 TGGATGTTTGAA
1 TGGATGTTTGAA
952129 CTTATATATA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 40 1.00
ACGTcount: A:0.22, C:0.00, G:0.29, T:0.49
Consensus pattern (28 bp):
TGGATGTTTGAATTTGTTTGATGGATTA
Found at i:953948 original size:23 final size:23
Alignment explanation
Indices: 953917--953974 Score: 98
Period size: 23 Copynumber: 2.5 Consensus size: 23
953907 TATGTGGTCA
*
953917 TTCGAGACATTTCTACATTGTCC
1 TTCGTGACATTTCTACATTGTCC
*
953940 TTCGTGACATTTCTACGTTGTCC
1 TTCGTGACATTTCTACATTGTCC
953963 TTCGTGACATTT
1 TTCGTGACATTT
953975 GAGATGGAAC
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
23 33 1.00
ACGTcount: A:0.17, C:0.24, G:0.16, T:0.43
Consensus pattern (23 bp):
TTCGTGACATTTCTACATTGTCC
Found at i:954591 original size:18 final size:18
Alignment explanation
Indices: 954556--954594 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
954546 ATAAACTTTT
* *
954556 TTATTTAATGTATGTAAA
1 TTATTCAATATATGTAAA
*
954574 TTATTCAATATATTTAAA
1 TTATTCAATATATGTAAA
954592 TTA
1 TTA
954595 AGTCTGAAAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.41, C:0.03, G:0.05, T:0.51
Consensus pattern (18 bp):
TTATTCAATATATGTAAA
Found at i:954970 original size:16 final size:16
Alignment explanation
Indices: 954946--954979 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
954936 TGTGTGACTT
954946 GCAAATTGACAAGTTG
1 GCAAATTGACAAGTTG
*
954962 GCAAGTTGACAAGTTG
1 GCAAATTGACAAGTTG
954978 GC
1 GC
954980 TTGGCAACTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.32, C:0.15, G:0.29, T:0.24
Consensus pattern (16 bp):
GCAAATTGACAAGTTG
Found at i:956556 original size:30 final size:30
Alignment explanation
Indices: 956520--956677 Score: 298
Period size: 30 Copynumber: 5.2 Consensus size: 30
956510 TCCGAAGGAC
956520 CTATCCAGAGGTCATAAAGATCCTCGGTAA
1 CTATCCAGAGGTCATAAAGATCCTCGGTAA
956550 CTATCCAGAGGTCATAAAGATCCTCGGTAA
1 CTATCCAGAGGTCATAAAGATCCTCGGTAA
*
956580 ATATCCAGAGGTCATAAAGATCCTCGGTAA
1 CTATCCAGAGGTCATAAAGATCCTCGGTAA
956610 CTATCCAGAGGTCATAAAGATCCTCGGTAA
1 CTATCCAGAGGTCATAAAGATCCTCGGTAA
956640 CTATCCAGAGGTCATAAAGATCCTCGGTAAA
1 CTATCCAGAGGTCATAAAGATCCTCGGT-AA
956671 CTATCCA
1 CTATCCA
956678 TATGTTCCTT
Statistics
Matches: 125, Mismatches: 2, Indels: 1
0.98 0.02 0.01
Matches are distributed among these distances:
30 116 0.93
31 9 0.07
ACGTcount: A:0.34, C:0.23, G:0.19, T:0.23
Consensus pattern (30 bp):
CTATCCAGAGGTCATAAAGATCCTCGGTAA
Found at i:959734 original size:14 final size:14
Alignment explanation
Indices: 959717--959743 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
959707 CATTTTACAA
959717 TTATCATTTAATAG
1 TTATCATTTAATAG
959731 TTATCATTTAATA
1 TTATCATTTAATA
959744 TACTAATATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.37, C:0.07, G:0.04, T:0.52
Consensus pattern (14 bp):
TTATCATTTAATAG
Found at i:959999 original size:25 final size:25
Alignment explanation
Indices: 959954--960001 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
959944 ATATACATTT
*
959954 TACATAACTTAGAAAAGAAAAAAAA
1 TACATAACTTAAAAAAGAAAAAAAA
*
959979 TACATAAC-TAAAAATATAAAAAA
1 TACATAACTTAAAAA-AGAAAAAA
960002 TTTATATCTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 5 0.25
25 15 0.75
ACGTcount: A:0.69, C:0.08, G:0.04, T:0.19
Consensus pattern (25 bp):
TACATAACTTAAAAAAGAAAAAAAA
Found at i:960399 original size:27 final size:28
Alignment explanation
Indices: 960368--960444 Score: 79
Period size: 28 Copynumber: 2.8 Consensus size: 28
960358 ATATGAAAAA
* *
960368 AATTTAATTTAAATTTAAATTTAT-ATT
1 AATTTAATTTAAATTAAAATTTATAAAT
* *
960395 AATTTAATTTTAAAATAAAATTAATAAAT
1 AATTTAA-TTTAAATTAAAATTTATAAAT
*
960424 AATTTAA-TT-AATTCAAATTTA
1 AATTTAATTTAAATTAAAATTTA
960445 AGTAACTAAT
Statistics
Matches: 41, Mismatches: 7, Indels: 5
0.77 0.13 0.09
Matches are distributed among these distances:
26 9 0.22
27 9 0.22
28 14 0.34
29 9 0.22
ACGTcount: A:0.51, C:0.01, G:0.00, T:0.48
Consensus pattern (28 bp):
AATTTAATTTAAATTAAAATTTATAAAT
Found at i:964110 original size:13 final size:13
Alignment explanation
Indices: 964092--964129 Score: 58
Period size: 13 Copynumber: 2.9 Consensus size: 13
964082 ATTTAAGATG
964092 ACGCGCATTTATA
1 ACGCGCATTTATA
*
964105 ACGCGCATTTATG
1 ACGCGCATTTATA
*
964118 ACGTGCATTTAT
1 ACGCGCATTTAT
964130 TACTTACATT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.26, C:0.21, G:0.18, T:0.34
Consensus pattern (13 bp):
ACGCGCATTTATA
Found at i:964300 original size:2 final size:2
Alignment explanation
Indices: 964293--964327 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
964283 TTTCGTGAAT
964293 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
964328 TGTAGATTGA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:966742 original size:19 final size:19
Alignment explanation
Indices: 966672--966735 Score: 128
Period size: 19 Copynumber: 3.4 Consensus size: 19
966662 TTGGACCCTT
966672 AGTGCATCGGTGCACTAAG
1 AGTGCATCGGTGCACTAAG
966691 AGTGCATCGGTGCACTAAG
1 AGTGCATCGGTGCACTAAG
966710 AGTGCATCGGTGCACTAAG
1 AGTGCATCGGTGCACTAAG
966729 AGTGCAT
1 AGTGCAT
966736 TGATGCATCA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 45 1.00
ACGTcount: A:0.27, C:0.20, G:0.31, T:0.22
Consensus pattern (19 bp):
AGTGCATCGGTGCACTAAG
Found at i:966781 original size:64 final size:64
Alignment explanation
Indices: 966708--966889 Score: 199
Period size: 65 Copynumber: 2.8 Consensus size: 64
966698 CGGTGCACTA
* *
966708 AGAGTGCATCGGTGCACTAAG-AGTGCATTGATGCATCAAGTGCATTCGATG-TTTCA-AAATAG
1 AGAGTGCATCGGTGCA-T-AGCAGTGCATCGATGCATCAAATGCATTCGATGTTTTCATAAA-AG
966770 CC
63 CC
* * *
966772 AGAGTGCATCGATGCATAGCTGGTGCATCGATGCATCAAATGCATTCGATGTTTTCATAAAATCC
1 AGAGTGCATCGGTGCATAGC-AGTGCATCGATGCATCAAATGCATTCGATGTTTTCATAAAAGCC
** * * * *
966837 TTAGTGCATCGGTGCATGGTAAGTGCATCGATGCATGAAATACATTCGATGTT
1 AGAGTGCATCGGTGCATAG-CAGTGCATCGATGCATCAAATGCATTCGATGTT
966890 CAATTTAATT
Statistics
Matches: 100, Mismatches: 13, Indels: 9
0.82 0.11 0.07
Matches are distributed among these distances:
62 2 0.02
63 1 0.01
64 42 0.42
65 52 0.52
66 3 0.03
ACGTcount: A:0.29, C:0.18, G:0.24, T:0.29
Consensus pattern (64 bp):
AGAGTGCATCGGTGCATAGCAGTGCATCGATGCATCAAATGCATTCGATGTTTTCATAAAAGCC
Found at i:966928 original size:65 final size:64
Alignment explanation
Indices: 966730--966939 Score: 208
Period size: 65 Copynumber: 3.2 Consensus size: 64
966720 TGCACTAAGA
* * * * * * *
966730 GTGCATTGATGCATCAAGTGCATTCGATGTTTCA-AAATAGCCAGAGTGCATCGATGCATAGCTG
1 GTGCATCGATGCATCAAATACATTCGATGTTTCATAAA-ATCCATAGTGCATCGATGCATGGTTG
* * * **
966794 GTGCATCGATGCATCAAATGCATTCGATGTTTTCATAAAATCCTTAGTGCATCGGTGCATGGTAA
1 GTGCATCGATGCATCAAATACATTCGATG-TTTCATAAAATCCATAGTGCATCGATGCATGGTTG
* ** * *
966859 GTGCATCGATGCATGAAATACATTCGATG-TTCAATTTAATTCATGGTGCATCGATGCATGGATT
1 GTGCATCGATGCATCAAATACATTCGATGTTTC-ATAAAATCCATAGTGCATCGATGCATGG-TT
966923 G
64 G
*
966924 GTGCATCGGTGCATCA
1 GTGCATCGATGCATCA
966940 CTCTGAAAAA
Statistics
Matches: 120, Mismatches: 22, Indels: 7
0.81 0.15 0.05
Matches are distributed among these distances:
63 3 0.03
64 49 0.41
65 65 0.54
66 3 0.03
ACGTcount: A:0.27, C:0.18, G:0.24, T:0.31
Consensus pattern (64 bp):
GTGCATCGATGCATCAAATACATTCGATGTTTCATAAAATCCATAGTGCATCGATGCATGGTTG
Found at i:975641 original size:21 final size:21
Alignment explanation
Indices: 975590--975642 Score: 63
Period size: 20 Copynumber: 2.6 Consensus size: 21
975580 ATCCATACAA
* *
975590 GATAAACAAGTATCTATACTG
1 GATAAACTAGTATCAATACTG
**
975611 GA-GGACTAGTATCAATACTG
1 GATAAACTAGTATCAATACTG
975631 GATAAACTAGTA
1 GATAAACTAGTA
975643 ACCATGTTGG
Statistics
Matches: 25, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
20 16 0.64
21 9 0.36
ACGTcount: A:0.42, C:0.13, G:0.19, T:0.26
Consensus pattern (21 bp):
GATAAACTAGTATCAATACTG
Found at i:980183 original size:20 final size:20
Alignment explanation
Indices: 980160--980226 Score: 82
Period size: 20 Copynumber: 3.4 Consensus size: 20
980150 AATTTGTAAA
980160 TCGCAACACAGAAGTCAAAT
1 TCGCAACACAGAAGTCAAAT
**
980180 TCGCAATGC-GATAGTCAAAT
1 TCGCAACACAGA-AGTCAAAT
* *
980200 TTGCAACACAAAAGTCAAAT
1 TCGCAACACAGAAGTCAAAT
980220 TCGCAAC
1 TCGCAAC
980227 GAGGAATTTC
Statistics
Matches: 38, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
19 2 0.05
20 35 0.92
21 1 0.03
ACGTcount: A:0.42, C:0.24, G:0.15, T:0.19
Consensus pattern (20 bp):
TCGCAACACAGAAGTCAAAT
Found at i:980206 original size:40 final size:40
Alignment explanation
Indices: 980132--980227 Score: 124
Period size: 40 Copynumber: 2.4 Consensus size: 40
980122 GATCTAAGCG
* *
980132 AGTCAAATTCGCAACGCGAATTTGTAAATCGCAACACAGA
1 AGTCAAATTCGCAACGCGAATTAGTAAATCGCAACACAAA
* *
980172 AGTCAAATTCGCAATGCG-A-TAGTCAAATTTGCAACACAAA
1 AGTCAAATTCGCAACGCGAATTAGT-AAA-TCGCAACACAAA
980212 AGTCAAATTCGCAACG
1 AGTCAAATTCGCAACG
980228 AGGAATTTCA
Statistics
Matches: 49, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
38 3 0.06
39 4 0.08
40 42 0.86
ACGTcount: A:0.41, C:0.22, G:0.17, T:0.21
Consensus pattern (40 bp):
AGTCAAATTCGCAACGCGAATTAGTAAATCGCAACACAAA
Found at i:980312 original size:20 final size:20
Alignment explanation
Indices: 980134--980312 Score: 127
Period size: 19 Copynumber: 9.1 Consensus size: 20
980124 TCTAAGCGAG
*
980134 TCAAATTCGCAACGCGAATT
1 TCAAATTCGCAACACGAATT
* *
980154 TGTAAA-TCGCAACACAGAA-G
1 T-CAAATTCGCAACAC-GAATT
** *
980174 TCAAATTCGCAATGCG-ATAG
1 TCAAATTCGCAACACGAAT-T
* * **
980194 TCAAATTTGCAACACAAAAG
1 TCAAATTCGCAACACGAATT
*
980214 TCAAATTCGCAACGAGGAATT
1 TCAAATTCGCAAC-ACGAATT
* *
980235 TCAAATTCACAAC-TGAATT
1 TCAAATTCGCAACACGAATT
* *
980254 TCAAATTCACAAC-TGAATT
1 TCAAATTCGCAACACGAATT
**
980273 TCAAATTCGCAA-TTGAATT
1 TCAAATTCGCAACACGAATT
980292 TCAAATTCGCAACACGAATT
1 TCAAATTCGCAACACGAATT
980312 T
1 T
980313 AGTTTCGTAA
Statistics
Matches: 129, Mismatches: 21, Indels: 18
0.77 0.12 0.11
Matches are distributed among these distances:
18 1 0.01
19 57 0.44
20 49 0.38
21 22 0.17
ACGTcount: A:0.40, C:0.21, G:0.13, T:0.26
Consensus pattern (20 bp):
TCAAATTCGCAACACGAATT
Found at i:981072 original size:12 final size:12
Alignment explanation
Indices: 981051--981084 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
981041 ACCACATTTT
*
981051 CAATACCAAACA
1 CAATATCAAACA
981063 CAATATCAAACA
1 CAATATCAAACA
*
981075 CAATTTCAAA
1 CAATATCAAA
981085 ACCCATAATC
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:0.26, G:0.00, T:0.18
Consensus pattern (12 bp):
CAATATCAAACA
Found at i:983844 original size:20 final size:20
Alignment explanation
Indices: 983819--983858 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
983809 ATGTTGCGAT
983819 CAACGCGAAAGTCAAATTCG
1 CAACGCGAAAGTCAAATTCG
983839 CAACGCGAAAGTCAAATTCG
1 CAACGCGAAAGTCAAATTCG
983859 TAAACCAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.40, C:0.25, G:0.20, T:0.15
Consensus pattern (20 bp):
CAACGCGAAAGTCAAATTCG
Found at i:985511 original size:21 final size:21
Alignment explanation
Indices: 985471--985568 Score: 81
Period size: 21 Copynumber: 4.7 Consensus size: 21
985461 GCTGGCGGGA
* **
985471 CCTCTTGAACGATGACAGGGG
1 CCTCTTGAATGATGGGAGGGG
*
985492 CCTCTTGAATGGTGGGAGGGG
1 CCTCTTGAATGATGGGAGGGG
* * *
985513 CTTCTTTG-ATGATGAGATGGG
1 CCTC-TTGAATGATGGGAGGGG
* * * *
985534 CCTTTTGAACGATAGGAGGCG
1 CCTCTTGAATGATGGGAGGGG
985555 CCTCTTGAATGATG
1 CCTCTTGAATGATG
985569 ATAGGTGCAT
Statistics
Matches: 57, Mismatches: 18, Indels: 4
0.72 0.23 0.05
Matches are distributed among these distances:
20 3 0.05
21 51 0.89
22 3 0.05
ACGTcount: A:0.20, C:0.17, G:0.35, T:0.28
Consensus pattern (21 bp):
CCTCTTGAATGATGGGAGGGG
Found at i:987700 original size:20 final size:20
Alignment explanation
Indices: 987688--987750 Score: 110
Period size: 20 Copynumber: 3.2 Consensus size: 20
987678 AAACTTAAAT
987688 TCGCAACGCGAAAATGAAAA
1 TCGCAACGCGAAAATGAAAA
987708 TCGCAACGCGAAAATGAAAA
1 TCGCAACGCGAAAATGAAAA
*
987728 TCGCAACGCGAAACT-AAAA
1 TCGCAACGCGAAAATGAAAA
987747 TCGC
1 TCGC
987751 GTTGCGATTT
Statistics
Matches: 42, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
19 8 0.19
20 34 0.81
ACGTcount: A:0.46, C:0.24, G:0.19, T:0.11
Consensus pattern (20 bp):
TCGCAACGCGAAAATGAAAA
Found at i:988265 original size:20 final size:20
Alignment explanation
Indices: 988240--988438 Score: 219
Period size: 20 Copynumber: 10.0 Consensus size: 20
988230 GCATAAAAAC
* *
988240 ATTTGACTTTCGCGTTGTGA
1 ATTTGACTTTCGTGTTGCGA
* *
988260 ATTTGACTATCGCGTTGCGA
1 ATTTGACTTTCGTGTTGCGA
988280 ATTTGAC-TTCTGTGTTGCG-
1 ATTTGACTTTC-GTGTTGCGA
*
988299 ATTT-ACAAATTCGTGTTGCGA
1 ATTTGAC--TTTCGTGTTGCGA
*
988320 ATTTGACTTTTGTGTTGCGA
1 ATTTGACTTTCGTGTTGCGA
*
988340 ATTTGACTATCGTGTTGCGA
1 ATTTGACTTTCGTGTTGCGA
* *
988360 ATTTGACTATCGTGTTGCAA
1 ATTTGACTTTCGTGTTGCGA
*
988380 ATTTGACTTT-GTGTTACGA
1 ATTTGACTTTCGTGTTGCGA
* *
988399 ATTTGACTATCGCGTTGCGA
1 ATTTGACTTTCGTGTTGCGA
988419 ATTTGAC-TTCTGTGTTGCGA
1 ATTTGACTTTC-GTGTTGCGA
988439 TTTACAGATT
Statistics
Matches: 154, Mismatches: 17, Indels: 16
0.82 0.09 0.09
Matches are distributed among these distances:
18 2 0.01
19 24 0.16
20 119 0.77
21 7 0.05
22 2 0.01
ACGTcount: A:0.19, C:0.15, G:0.24, T:0.42
Consensus pattern (20 bp):
ATTTGACTTTCGTGTTGCGA
Found at i:988452 original size:20 final size:20
Alignment explanation
Indices: 988429--988466 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
988419 ATTTGACTTC
988429 TGTGTTGCGATTTACAGATT
1 TGTGTTGCGATTTACAGATT
988449 TGTGTTGCGATTTACAGA
1 TGTGTTGCGATTTACAGA
988467 CTCGCGTTGC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.21, C:0.11, G:0.26, T:0.42
Consensus pattern (20 bp):
TGTGTTGCGATTTACAGATT
Found at i:988475 original size:20 final size:20
Alignment explanation
Indices: 988432--988478 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
988422 TGACTTCTGT
* * *
988432 GTTGCGATTTACAGATTTGT
1 GTTGCGATTTACAGACTCGC
988452 GTTGCGATTTACAGACTCGC
1 GTTGCGATTTACAGACTCGC
988472 GTTGCGA
1 GTTGCGA
988479 AATTGGAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.19, C:0.17, G:0.28, T:0.36
Consensus pattern (20 bp):
GTTGCGATTTACAGACTCGC
Found at i:988519 original size:20 final size:20
Alignment explanation
Indices: 988470--988519 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
988460 TTACAGACTC
988470 GCGTTGCGAAATTGGAAATT
1 GCGTTGCGAAATTGGAAATT
* * **
988490 GGGTTACGAAATTGGAGTTT
1 GCGTTGCGAAATTGGAAATT
988510 GCGTTGCGAA
1 GCGTTGCGAA
988520 TTTGTTGGTC
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.26, C:0.10, G:0.34, T:0.30
Consensus pattern (20 bp):
GCGTTGCGAAATTGGAAATT
Found at i:993656 original size:7 final size:7
Alignment explanation
Indices: 993645--993829 Score: 88
Period size: 7 Copynumber: 26.6 Consensus size: 7
993635 TCATTTTCAT
*
993645 TAAACCT
1 TAAACCC
993652 TAAACCC
1 TAAACCC
993659 TAAACCC
1 TAAACCC
993666 TAAACCC
1 TAAACCC
* *
993673 TAAATCA
1 TAAACCC
*
993680 TAAAACTC
1 T-AAACCC
993688 TAAACCC
1 TAAACCC
*
993695 AAAACCC
1 TAAACCC
**
993702 TAAGGCC
1 TAAACCC
**
993709 TAAGGCC
1 TAAACCC
* *
993716 TAAAACA
1 TAAACCC
* *
993723 TGAACCT
1 TAAACCC
993730 TAAA-CC
1 TAAACCC
**
993736 TAAA-TG
1 TAAACCC
*
993742 TAAA-CT
1 TAAACCC
993748 TAAAACCC
1 T-AAACCC
**
993756 TAAACTA
1 TAAACCC
**
993763 TAAACTA
1 TAAACCC
*
993770 TAAACCT
1 TAAACCC
993777 TAAACCC
1 TAAACCC
993784 TAAACCC
1 TAAACCC
993791 TAAACCC
1 TAAACCC
***
993798 TAAATAA
1 TAAACCC
**
993805 TAAACTA
1 TAAACCC
*
993812 TAAACCT
1 TAAACCC
993819 TAAACCC
1 TAAACCC
993826 TAAA
1 TAAA
993830 TATAAACTTT
Statistics
Matches: 138, Mismatches: 37, Indels: 6
0.76 0.20 0.03
Matches are distributed among these distances:
6 10 0.07
7 122 0.88
8 6 0.04
ACGTcount: A:0.48, C:0.28, G:0.03, T:0.21
Consensus pattern (7 bp):
TAAACCC
Found at i:993794 original size:28 final size:27
Alignment explanation
Indices: 993725--993885 Score: 112
Period size: 28 Copynumber: 5.6 Consensus size: 27
993715 CTAAAACATG
* *
993725 AACCTTAAA-CCTAAA-TGTAAACTTAA
1 AACCCTAAACCCTAAACTATAAACTT-A
**
993751 AACCCTAAACTATAAACTATAAACCTTA
1 AACCCTAAACCCTAAACTATAAA-CTTA
993779 AACCCTAAACCCTAAACCCTAAATAATAAACTATA
1 AACCCTAAACCCTAAA--C----T-ATAAACT-TA
*
993814 AACCTTAAACCCTAAA-TATAAACTTTA
1 AACCCTAAACCCTAAACTATAAAC-TTA
*
993841 AATCCTAAAACCCTAAACTATAAACTATA
1 AACCCT-AAACCCTAAACTATAAACT-TA
**
993870 AATACTAAACCCTAAA
1 AACCCTAAACCCTAAA
993886 TAATGATTAA
Statistics
Matches: 110, Mismatches: 10, Indels: 28
0.74 0.07 0.19
Matches are distributed among these distances:
26 8 0.07
27 16 0.15
28 43 0.39
29 17 0.15
30 1 0.01
34 3 0.03
35 22 0.20
ACGTcount: A:0.51, C:0.24, G:0.01, T:0.24
Consensus pattern (27 bp):
AACCCTAAACCCTAAACTATAAACTTA
Found at i:993842 original size:7 final size:7
Alignment explanation
Indices: 993756--993871 Score: 53
Period size: 7 Copynumber: 16.6 Consensus size: 7
993746 CTTAAAACCC
993756 TAAACTA
1 TAAACTA
993763 TAAACTA
1 TAAACTA
993770 TAAACCT-
1 TAAA-CTA
**
993777 TAAACCC
1 TAAACTA
**
993784 TAAACCC
1 TAAACTA
**
993791 TAAACCC
1 TAAACTA
993798 TAAA-TAA
1 TAAACT-A
993805 TAAACTA
1 TAAACTA
993812 TAAACCT-
1 TAAA-CTA
**
993819 TAAACCC
1 TAAACTA
993826 TAAA-TA
1 TAAACTA
*
993832 TAAACTT
1 TAAACTA
993839 TAAATCCTA
1 TAAA--CTA
**
993848 -AAACCC
1 TAAACTA
993854 TAAACTA
1 TAAACTA
993861 TAAACTA
1 TAAACTA
993868 TAAA
1 TAAA
993872 TACTAAACCC
Statistics
Matches: 87, Mismatches: 12, Indels: 20
0.73 0.10 0.17
Matches are distributed among these distances:
6 7 0.08
7 70 0.80
8 8 0.09
9 2 0.02
ACGTcount: A:0.52, C:0.23, G:0.00, T:0.25
Consensus pattern (7 bp):
TAAACTA
Found at i:993865 original size:14 final size:14
Alignment explanation
Indices: 993750--993885 Score: 86
Period size: 14 Copynumber: 9.7 Consensus size: 14
993740 TGTAAACTTA
993750 AAACCCTAAACTAT
1 AAACCCTAAACTAT
**
993764 AAACTATAAACCT-T
1 AAACCCTAAA-CTAT
**
993778 AAACCCTAAACCCT
1 AAACCCTAAACTAT
993792 AAACCCTAAA-TAAT
1 AAACCCTAAACT-AT
**
993806 AAACTATAAACCT-T
1 AAACCCTAAA-CTAT
993820 AAACCCTAAA-TAT
1 AAACCCTAAACTAT
**
993833 AAACTTTAAATCCTA-
1 AAACCCTAAA--CTAT
993848 AAACCCTAAACTAT
1 AAACCCTAAACTAT
**
993862 AAACTATAAA-TACT
1 AAACCCTAAACTA-T
993876 AAACCCTAAA
1 AAACCCTAAA
993886 TAATGATTAA
Statistics
Matches: 92, Mismatches: 19, Indels: 22
0.69 0.14 0.17
Matches are distributed among these distances:
12 1 0.01
13 15 0.16
14 63 0.68
15 10 0.11
16 3 0.03
ACGTcount: A:0.51, C:0.25, G:0.00, T:0.24
Consensus pattern (14 bp):
AAACCCTAAACTAT
Found at i:995951 original size:17 final size:17
Alignment explanation
Indices: 995929--995967 Score: 78
Period size: 17 Copynumber: 2.3 Consensus size: 17
995919 AAATTCGAGT
995929 TCGAGTTCGAGCTTGAA
1 TCGAGTTCGAGCTTGAA
995946 TCGAGTTCGAGCTTGAA
1 TCGAGTTCGAGCTTGAA
995963 TCGAG
1 TCGAG
995968 CTCAAAATCG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.23, C:0.18, G:0.31, T:0.28
Consensus pattern (17 bp):
TCGAGTTCGAGCTTGAA
Found at i:995966 original size:11 final size:11
Alignment explanation
Indices: 995952--996110 Score: 102
Period size: 11 Copynumber: 13.6 Consensus size: 11
995942 TGAATCGAGT
995952 TCGAGCTTGAA
1 TCGAGCTTGAA
**
995963 TCGAGCTCAAAA
1 TCGAGCT-TGAA
995975 TCGAGCTTGAA
1 TCGAGCTTGAA
**
995986 TCGAGCTCAAAA
1 TCGAGCT-TGAA
995998 TCGAGCTTGAA
1 TCGAGCTTGAA
**
996009 TCGAGCTCAAAA
1 TCGAGCT-TGAA
996021 TCGAGCTTGAA
1 TCGAGCTTGAA
* *
996032 TCGAGCTCGAGTC
1 TCGAGCTTGA--A
*
996045 TCGAGCTTCAA
1 TCGAGCTTGAA
* *
996056 TCGAGCTCGAGTC
1 TCGAGCTTGA--A
*
996069 TCGAGCTTCAA
1 TCGAGCTTGAA
* *
996080 TCGAGCTCGAGTC
1 TCGAGCTTGA--A
*
996093 TCGAGCTTCAA
1 TCGAGCTTGAA
996104 TCGAGCT
1 TCGAGCT
996111 AGAGTCTCGA
Statistics
Matches: 110, Mismatches: 29, Indels: 18
0.70 0.18 0.11
Matches are distributed among these distances:
11 59 0.54
12 27 0.25
13 24 0.22
ACGTcount: A:0.27, C:0.25, G:0.24, T:0.24
Consensus pattern (11 bp):
TCGAGCTTGAA
Found at i:995978 original size:12 final size:12
Alignment explanation
Indices: 995961--996027 Score: 84
Period size: 12 Copynumber: 5.8 Consensus size: 12
995951 TTCGAGCTTG
995961 AATCGAGCTCAA
1 AATCGAGCTCAA
**
995973 AATCGAGCT-TG
1 AATCGAGCTCAA
995984 AATCGAGCTCAA
1 AATCGAGCTCAA
**
995996 AATCGAGCT-TG
1 AATCGAGCTCAA
996007 AATCGAGCTCAA
1 AATCGAGCTCAA
996019 AATCGAGCT
1 AATCGAGCT
996028 TGAATCGAGC
Statistics
Matches: 45, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
11 18 0.40
12 27 0.60
ACGTcount: A:0.36, C:0.22, G:0.21, T:0.21
Consensus pattern (12 bp):
AATCGAGCTCAA
Found at i:996050 original size:13 final size:13
Alignment explanation
Indices: 996032--996099 Score: 58
Period size: 13 Copynumber: 5.5 Consensus size: 13
996022 CGAGCTTGAA
996032 TCGAGCTCGAGTC
1 TCGAGCTCGAGTC
*
996045 TCGAGCTTC-A--A
1 TCGAGC-TCGAGTC
996056 TCGAGCTCGAGTC
1 TCGAGCTCGAGTC
*
996069 TCGAGCTTC-A--A
1 TCGAGC-TCGAGTC
996080 TCGAGCTCGAGTC
1 TCGAGCTCGAGTC
996093 TCGAGCT
1 TCGAGCT
996100 TCAATCGAGC
Statistics
Matches: 43, Mismatches: 4, Indels: 16
0.68 0.06 0.25
Matches are distributed among these distances:
10 4 0.09
11 14 0.33
13 21 0.49
14 4 0.09
ACGTcount: A:0.19, C:0.29, G:0.26, T:0.25
Consensus pattern (13 bp):
TCGAGCTCGAGTC
Found at i:996087 original size:48 final size:47
Alignment explanation
Indices: 995946--996110 Score: 217
Period size: 46 Copynumber: 3.5 Consensus size: 47
995936 CGAGCTTGAA
* *
995946 TCGAGT-TCGAGCTTGAATCGAGCTCAAAATCGAGCTTGAATCGAGC
1 TCGAGTCTCGAGCTTCAATCGAGCTCAAAATCGAGCTTCAATCGAGC
*** * *
995992 TC-AAAATCGAGCTTGAATCGAGCTCAAAATCGAGCTTGAATCGAGC
1 TCGAGTCTCGAGCTTCAATCGAGCTCAAAATCGAGCTTCAATCGAGC
***
996038 TCGAGTCTCGAGCTTCAATCGAGCTCGAGTCTCGAGCTTCAATCGAGC
1 TCGAGTCTCGAGCTTCAATCGAGCTC-AAAATCGAGCTTCAATCGAGC
996086 TCGAGTCTCGAGCTTCAATCGAGCT
1 TCGAGTCTCGAGCTTCAATCGAGCT
996111 AGAGTCTCGA
Statistics
Matches: 106, Mismatches: 10, Indels: 4
0.88 0.08 0.03
Matches are distributed among these distances:
45 1 0.01
46 44 0.42
47 19 0.18
48 42 0.40
ACGTcount: A:0.27, C:0.25, G:0.24, T:0.24
Consensus pattern (47 bp):
TCGAGTCTCGAGCTTCAATCGAGCTCAAAATCGAGCTTCAATCGAGC
Found at i:996135 original size:24 final size:24
Alignment explanation
Indices: 995946--996134 Score: 215
Period size: 24 Copynumber: 8.0 Consensus size: 24
995936 CGAGCTTGAA
*
995946 TCGAGT-TCGAGCTTGAATCGAGC
1 TCGAGTCTCGAGCTTCAATCGAGC
*** *
995969 TC-AAAATCGAGCTTGAATCGAGC
1 TCGAGTCTCGAGCTTCAATCGAGC
*** *
995992 TC-AAAATCGAGCTTGAATCGAGC
1 TCGAGTCTCGAGCTTCAATCGAGC
*** *
996015 TC-AAAATCGAGCTTGAATCGAGC
1 TCGAGTCTCGAGCTTCAATCGAGC
996038 TCGAGTCTCGAGCTTCAATCGAGC
1 TCGAGTCTCGAGCTTCAATCGAGC
996062 TCGAGTCTCGAGCTTCAATCGAGC
1 TCGAGTCTCGAGCTTCAATCGAGC
996086 TCGAGTCTCGAGCTTCAATCGAGC
1 TCGAGTCTCGAGCTTCAATCGAGC
* *
996110 TAGAGTCTCGAGCTTCAATCAAGC
1 TCGAGTCTCGAGCTTCAATCGAGC
996134 T
1 T
996135 ACTGAATTTT
Statistics
Matches: 156, Mismatches: 8, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
22 1 0.01
23 67 0.43
24 88 0.56
ACGTcount: A:0.27, C:0.25, G:0.24, T:0.24
Consensus pattern (24 bp):
TCGAGTCTCGAGCTTCAATCGAGC
Found at i:998151 original size:12 final size:12
Alignment explanation
Indices: 998134--998158 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
998124 ACAATCGAGC
998134 TGATAAACAAGT
1 TGATAAACAAGT
998146 TGATAAACAAGT
1 TGATAAACAAGT
998158 T
1 T
998159 ACTTCTTGAA
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:0.48, C:0.08, G:0.16, T:0.28
Consensus pattern (12 bp):
TGATAAACAAGT
Found at i:1005918 original size:2 final size:2
Alignment explanation
Indices: 1005904--1006004 Score: 79
Period size: 2 Copynumber: 52.0 Consensus size: 2
1005894 ATTTGAGTAC
*
1005904 AT AT AT GT A- AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT CA-
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -AT
* * * *
1005945 AT AT A- AA AT AT AT AT AT AT AC A- AT AT TT CAT AT A- AT CAT TT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -AT AT AT AT -AT AT
*
1005986 AT TT A- AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT
1006005 TAAATTAATC
Statistics
Matches: 80, Mismatches: 10, Indels: 18
0.74 0.09 0.17
Matches are distributed among these distances:
1 6 0.08
2 70 0.88
3 4 0.05
ACGTcount: A:0.49, C:0.04, G:0.01, T:0.47
Consensus pattern (2 bp):
AT
Found at i:1005978 original size:39 final size:39
Alignment explanation
Indices: 1005903--1006003 Score: 107
Period size: 39 Copynumber: 2.6 Consensus size: 39
1005893 AATTTGAGTA
** *
1005903 CATATATGTAATATATATATATATATATATATATATATAT
1 CATATATAAAATATATATATATACATATATATATATA-AT
*
1005943 CA-ATATAAAATATATATATATACA-ATATTTCATATAAT
1 CATATATAAAATATATATATATACATATATAT-ATATAAT
* **
1005981 CATTTATTTAATATATATATATA
1 CATATATAAAATATATATATATA
1006004 TTAAATTAAT
Statistics
Matches: 52, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
38 9 0.17
39 41 0.79
40 2 0.04
ACGTcount: A:0.49, C:0.05, G:0.01, T:0.46
Consensus pattern (39 bp):
CATATATAAAATATATATATATACATATATATATATAAT
Found at i:1006471 original size:22 final size:23
Alignment explanation
Indices: 1006441--1006487 Score: 69
Period size: 22 Copynumber: 2.1 Consensus size: 23
1006431 AACATATATT
1006441 TATTAATATTTCTAATAATATAA
1 TATTAATATTTCTAATAATATAA
* *
1006464 TATT-ATATTTTTAATATTATAA
1 TATTAATATTTCTAATAATATAA
1006486 TA
1 TA
1006488 AAATAATCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 18 0.82
23 4 0.18
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (23 bp):
TATTAATATTTCTAATAATATAA
Found at i:1006501 original size:32 final size:32
Alignment explanation
Indices: 1006435--1006514 Score: 92
Period size: 32 Copynumber: 2.5 Consensus size: 32
1006425 ATATTTAACA
* *
1006435 TATATTTATTAATATTTCTAATAATATAATAT
1 TATATTTATTAATATTTATAATAAAATAATAT
1006467 TATATTT-TTAATA-TTATAATAAAATAATCAAT
1 TATATTTATTAATATTTATAATAAAATAAT--AT
*
1006499 TATATTATAATAATAT
1 TATATT-TATTAATAT
1006515 AAAATATTAT
Statistics
Matches: 40, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
30 13 0.32
31 6 0.15
32 15 0.38
33 1 0.03
34 5 0.12
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (32 bp):
TATATTTATTAATATTTATAATAAAATAATAT
Found at i:1006523 original size:23 final size:23
Alignment explanation
Indices: 1006477--1006527 Score: 68
Period size: 23 Copynumber: 2.2 Consensus size: 23
1006467 TATATTTTTA
*
1006477 ATATTATAATAAAATAATCAATT
1 ATATTATAATAAAATAATAAATT
*
1006500 ATATTATAATAATATAA-AATATT
1 ATATTATAATAAAATAATAA-ATT
1006523 ATATT
1 ATATT
1006528 TTTATTTTAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
22 1 0.04
23 24 0.96
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (23 bp):
ATATTATAATAAAATAATAAATT
Found at i:1006556 original size:29 final size:29
Alignment explanation
Indices: 1006453--1006550 Score: 82
Period size: 29 Copynumber: 3.6 Consensus size: 29
1006443 TTAATATTTC
* *
1006453 TAATAATAT--AATATTATATTTTTAATA
1 TAATAATATAAAATAATATATTTTTATTA
* *
1006480 TTAT-A-ATAAAATAATCA-A-TTATATTA
1 TAATAATATAAAATAAT-ATATTTTTATTA
* *
1006506 TAATAATATAAAATATTATATTTTTATTT
1 TAATAATATAAAATAATATATTTTTATTA
*
1006535 TAATAATATATAATAA
1 TAATAATATAAAATAA
1006551 ATTATTAATA
Statistics
Matches: 54, Mismatches: 10, Indels: 12
0.71 0.13 0.16
Matches are distributed among these distances:
25 2 0.04
26 10 0.19
27 11 0.20
28 11 0.20
29 20 0.37
ACGTcount: A:0.51, C:0.01, G:0.00, T:0.48
Consensus pattern (29 bp):
TAATAATATAAAATAATATATTTTTATTA
Found at i:1006628 original size:19 final size:18
Alignment explanation
Indices: 1006604--1006672 Score: 52
Period size: 19 Copynumber: 3.6 Consensus size: 18
1006594 ATATTTTTAA
1006604 ATTATTAATAATGAATAAT
1 ATTATTAATAAT-AATAAT
* *
1006623 ATTATTTAT-ATATTTAAT
1 ATTATTAATAATA-ATAAT
1006641 ATTAATATAATAATCTAATAAT
1 ATT-AT-TAATAA--TAATAAT
1006663 ATT-TTAATAA
1 ATTATTAATAA
1006673 ATACATTTAA
Statistics
Matches: 40, Mismatches: 4, Indels: 12
0.71 0.07 0.21
Matches are distributed among these distances:
17 1 0.03
18 9 0.22
19 16 0.40
20 4 0.10
21 1 0.03
22 7 0.17
23 2 0.05
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.48
Consensus pattern (18 bp):
ATTATTAATAATAATAAT
Found at i:1006647 original size:27 final size:27
Alignment explanation
Indices: 1006567--1006652 Score: 70
Period size: 27 Copynumber: 3.1 Consensus size: 27
1006557 AATAAAATTT
* *
1006567 ATATTATTTAT-TAATTTCATAGAAATA
1 ATATTATTTATAT-ATTTAATATAAATA
* *
1006594 ATATT-TTTAAAT-TATTAATAATGAATA
1 ATATTATTTATATAT-TTAAT-ATAAATA
1006621 ATATTATTTATATATTTAATATTAATATA
1 ATATTATTTATATATTTAATA-TAA-ATA
1006650 ATA
1 ATA
1006653 ATCTAATAAT
Statistics
Matches: 46, Mismatches: 6, Indels: 12
0.72 0.09 0.19
Matches are distributed among these distances:
25 1 0.02
26 8 0.17
27 17 0.37
28 13 0.28
29 7 0.15
ACGTcount: A:0.47, C:0.01, G:0.02, T:0.50
Consensus pattern (27 bp):
ATATTATTTATATATTTAATATAAATA
Found at i:1006686 original size:23 final size:22
Alignment explanation
Indices: 1006639--1006711 Score: 65
Period size: 23 Copynumber: 3.1 Consensus size: 22
1006629 TATATATTTA
*
1006639 ATATTAATATAATAATCTAATAAT
1 ATATTAATA-AATAATTTAA-AAT
*
1006663 ATTTTAATAAATACATTTAAAAT
1 ATATTAATAAATA-ATTTAAAAT
* * *
1006686 ATACTAATTAATATTTTTAAAAT
1 ATATTAATAAATA-ATTTAAAAT
1006709 ATA
1 ATA
1006712 ATATAACACT
Statistics
Matches: 41, Mismatches: 7, Indels: 3
0.80 0.14 0.06
Matches are distributed among these distances:
23 28 0.68
24 13 0.32
ACGTcount: A:0.52, C:0.04, G:0.00, T:0.44
Consensus pattern (22 bp):
ATATTAATAAATAATTTAAAAT
Found at i:1006815 original size:32 final size:33
Alignment explanation
Indices: 1006752--1006815 Score: 105
Period size: 32 Copynumber: 2.0 Consensus size: 33
1006742 ATATAATTTA
1006752 TAATATTTTTATTTCAATAAAATATAAAAATAT
1 TAATATTTTTATTTCAATAAAATATAAAAATAT
1006785 TAATATTTTTA-TT-AATAAAATTATAAAAATA
1 TAATATTTTTATTTCAATAAAA-TATAAAAATA
1006816 ATATTTAATA
Statistics
Matches: 30, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
31 7 0.23
32 12 0.40
33 11 0.37
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (33 bp):
TAATATTTTTATTTCAATAAAATATAAAAATAT
Found at i:1007090 original size:29 final size:28
Alignment explanation
Indices: 1007048--1007103 Score: 85
Period size: 29 Copynumber: 2.0 Consensus size: 28
1007038 TTCTAGAAAT
*
1007048 GTAATTCATTTTCCATAATTCAAATTTCA
1 GTAATTCATTTTCCAGAATTC-AATTTCA
*
1007077 GTAATTTATTTTCCAGAATTCAATTTC
1 GTAATTCATTTTCCAGAATTCAATTTC
1007104 CAGAAAACCA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
28 6 0.24
29 19 0.76
ACGTcount: A:0.32, C:0.16, G:0.05, T:0.46
Consensus pattern (28 bp):
GTAATTCATTTTCCAGAATTCAATTTCA
Found at i:1007106 original size:14 final size:14
Alignment explanation
Indices: 1007050--1007108 Score: 57
Period size: 14 Copynumber: 4.1 Consensus size: 14
1007040 CTAGAAATGT
* *
1007050 AATTCATTTTCCAT
1 AATTCAATTTCCAG
1007064 AATTCAAATTT-CAG
1 AATTC-AATTTCCAG
* *
1007078 TAATTTATTTTCCAG
1 -AATTCAATTTCCAG
1007093 AATTCAATTTCCAG
1 AATTCAATTTCCAG
1007107 AA
1 AA
1007109 AACCAATTAC
Statistics
Matches: 36, Mismatches: 6, Indels: 6
0.75 0.12 0.12
Matches are distributed among these distances:
14 25 0.69
15 11 0.31
ACGTcount: A:0.36, C:0.17, G:0.05, T:0.42
Consensus pattern (14 bp):
AATTCAATTTCCAG
Found at i:1010972 original size:19 final size:21
Alignment explanation
Indices: 1010934--1010973 Score: 57
Period size: 19 Copynumber: 2.0 Consensus size: 21
1010924 ATATATGTAT
*
1010934 ATATAATAAAATATTCAAATA
1 ATATAATAAAATATTAAAATA
1010955 ATATAA-AAAA-ATTAAAATA
1 ATATAATAAAATATTAAAATA
1010974 TTAGATGACC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 8 0.44
20 4 0.22
21 6 0.33
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.30
Consensus pattern (21 bp):
ATATAATAAAATATTAAAATA
Found at i:1013046 original size:98 final size:100
Alignment explanation
Indices: 1012800--1013353 Score: 542
Period size: 98 Copynumber: 5.4 Consensus size: 100
1012790 TCGTTGATAG
* * * *
1012800 CCAGCCGTCCCTTCGCTATGAAGTTGAACTTGTGCTATCTCGAGTCCAATATCCTTCGCTGTGAA
1 CCAGCCGCCCCTTCGCTGTGAAGTTGAACTTGTGTTGTCTCGAGTCCAATATCCTTCGCTGTGAA
*
1012865 GTTGAAATTGGCTCTGAAACTGGGAAGTTGTTGACAA
66 GTTGAAATTGGCTCTGAAACT-GG-ATTTGTTGACAA
* *
1012902 CCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCGAGTCCAATATCCTTCGCTGTGAA
1 CCAGCCGCCCCTTCGCTGTGAAGTTGAACTTGTGTTGTCTCGAGTCCAATATCCTTCGCTGTGAA
* * *
1012967 GTTGAGATTGACTCTGAAACT-G-TTTGTTGACAG
66 GTTGAAATTGGCTCTGAAACTGGATTTGTTGACAA
* * * * * *
1013000 TCAGTCGCCCCTTCGCTGTGAAGTTGAGCTTGTGCTGTCTTGAGTCCAATATCCTTAGCTGTGAA
1 CCAGCCGCCCCTTCGCTGTGAAGTTGAACTTGTGTTGTCTCGAGTCCAATATCCTTCGCTGTGAA
*
1013065 GTTGAAATTGGCTCTGAAATTGGGAAATTGTTGTTGACAA
66 GTTGAAATTGGCTCTGAAACT-GG--A-T-TTGTTGACAA
* * * * *
1013105 CCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCGAGTCCAATATCATTTGTTGTGAA
1 CCAGCCGCCCCTTCGCTGTGAAGTTGAACTTGTGTTGTCTCGAGTCCAATATCCTTCGCTGTGAA
* * * *
1013170 GTTGAGATTGGCTCCGAAA-TTG-TTTGTTGACAG
66 GTTGAAATTGGCTCTGAAACTGGATTTGTTGACAA
* * * * * * *
1013203 TCAGCCGCCCCTTCACTGTGAAGTTGAGCTTGTGTTGTCTCGGGTAGCGCGATATCCTCCGTTGT
1 CCAGCCGCCCCTTCGCTGTGAAGTTGAACTTGTGTTGTCTCGAGT--C-CAATATCCTTCGCTGT
* ** ** *
1013268 GGAGTT-TCATCAGCTCTGAAATTGGGAAATTGTTCGTTGACAA
63 GAAGTTGAAATTGGCTCTGAAACT-GG--A-T-TT-GTTGACAA
* * * *
1013311 CCAGTCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTATCGA
1 CCAGCCGCCCCTTCGCTGTGAAGTTGAACTTGTGTTGTCTCGA
1013354 ATAGCACGAT
Statistics
Matches: 374, Mismatches: 60, Indels: 30
0.81 0.13 0.06
Matches are distributed among these distances:
98 132 0.35
99 1 0.00
100 13 0.03
101 18 0.05
102 81 0.22
103 1 0.00
104 2 0.01
105 81 0.22
106 1 0.00
107 2 0.01
108 42 0.11
ACGTcount: A:0.20, C:0.21, G:0.25, T:0.34
Consensus pattern (100 bp):
CCAGCCGCCCCTTCGCTGTGAAGTTGAACTTGTGTTGTCTCGAGTCCAATATCCTTCGCTGTGAA
GTTGAAATTGGCTCTGAAACTGGATTTGTTGACAA
Found at i:1013170 original size:203 final size:203
Alignment explanation
Indices: 1012787--1013353 Score: 800
Period size: 203 Copynumber: 2.8 Consensus size: 203
1012777 CTGGGAAATT
* * * * * * *
1012787 TGTTCGTTGATAGCCAGCCGTCCCTTCGCTATGAAGTTGAACTTGTGCTATCTCGAGTCCAATAT
1 TGTTTGTTGACAGTCAGCCGCCCCTTCGCTGTGAAGTTGAGCTTGTGCTGTCTCGAGTCCAATAT
*
1012852 CCTTCGCTGTGAAGTTGAAATTGGCTCTGAAACTGGG-AA--GTTGTTGACAACCAGCCGTCCCT
66 CCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTGTTGACAACCAGCCGTCCCT
*
1012914 TCGTTGTGAAGTTGAACTTGTGTTGTCTCGAGTCCAATATCCTTCGCTGTGAAGTTGAGATTGAC
131 TCGTTGTGAAGTTGAACTTGTGTTGTCTCGAGTCCAATATCATTCGCTGTGAAGTTGAGATTGAC
*
1012979 TCTGAAAC
196 TCCGAAAC
* *
1012987 TGTTTGTTGACAGTCAGTCGCCCCTTCGCTGTGAAGTTGAGCTTGTGCTGTCTTGAGTCCAATAT
1 TGTTTGTTGACAGTCAGCCGCCCCTTCGCTGTGAAGTTGAGCTTGTGCTGTCTCGAGTCCAATAT
*
1013052 CCTTAGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTGTTGACAACCAGCCGTCCCT
66 CCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTGTTGACAACCAGCCGTCCCT
* * *
1013117 TCGTTGTGAAGTTGAACTTGTGTTGTCTCGAGTCCAATATCATTTGTTGTGAAGTTGAGATTGGC
131 TCGTTGTGAAGTTGAACTTGTGTTGTCTCGAGTCCAATATCATTCGCTGTGAAGTTGAGATTGAC
*
1013182 TCCGAAAT
196 TCCGAAAC
* * * *
1013190 TGTTTGTTGACAGTCAGCCGCCCCTTCACTGTGAAGTTGAGCTTGTGTTGTCTCGGGTAGCGCGA
1 TGTTTGTTGACAGTCAGCCGCCCCTTCGCTGTGAAGTTGAGCTTGTGCTGTCTCGAGT--C-CAA
* * * ** ** *
1013255 TATCCTCCGTTGTGGAGTT-TCATCAGCTCTGAAATTGGGAAATTGTTCGTTGACAACCAGTCGT
63 TATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTT-GTTGACAACCAGCCGT
*
1013319 CCCTTCGTTGTGAAGTTGAACTTGTGTTGTATCGA
127 CCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCGA
1013354 ATAGCACGAT
Statistics
Matches: 327, Mismatches: 33, Indels: 8
0.89 0.09 0.02
Matches are distributed among these distances:
200 91 0.28
201 2 0.01
203 143 0.44
205 25 0.08
206 66 0.20
ACGTcount: A:0.20, C:0.20, G:0.25, T:0.34
Consensus pattern (203 bp):
TGTTTGTTGACAGTCAGCCGCCCCTTCGCTGTGAAGTTGAGCTTGTGCTGTCTCGAGTCCAATAT
CCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTGTTGACAACCAGCCGTCCCT
TCGTTGTGAAGTTGAACTTGTGTTGTCTCGAGTCCAATATCATTCGCTGTGAAGTTGAGATTGAC
TCCGAAAC
Found at i:1013420 original size:43 final size:43
Alignment explanation
Indices: 1013359--1013480 Score: 181
Period size: 43 Copynumber: 2.8 Consensus size: 43
1013349 ATCGAATAGC
* * * *
1013359 ACGATATCCTCTGTCGTGGGGTTGTAATCGTGGATGTAGGGGT
1 ACGATATCCTCCGTCGTGGAGTTGAAATCGTAGATGTAGGGGT
* *
1013402 ACGATATCCTCCATCGTGGAGTTGAAATCGTAGATGTATGGGT
1 ACGATATCCTCCGTCGTGGAGTTGAAATCGTAGATGTAGGGGT
*
1013445 ACGACATCCTCCGTCGTGGAGTTGAAATCGTAGATG
1 ACGATATCCTCCGTCGTGGAGTTGAAATCGTAGATG
1013481 ACCCATTTAT
Statistics
Matches: 71, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
43 71 1.00
ACGTcount: A:0.22, C:0.17, G:0.31, T:0.30
Consensus pattern (43 bp):
ACGATATCCTCCGTCGTGGAGTTGAAATCGTAGATGTAGGGGT
Found at i:1014244 original size:20 final size:20
Alignment explanation
Indices: 1014221--1014258 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
1014211 GAATCCACCT
*
1014221 TTTTGTTCTTTTTCTTTTCC
1 TTTTGTTCTTTCTCTTTTCC
1014241 TTTTGTTCTTTCTCTTTT
1 TTTTGTTCTTTCTCTTTT
1014259 TTAATTTTTT
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:0.00, C:0.18, G:0.05, T:0.76
Consensus pattern (20 bp):
TTTTGTTCTTTCTCTTTTCC
Found at i:1025094 original size:21 final size:23
Alignment explanation
Indices: 1025052--1025095 Score: 56
Period size: 21 Copynumber: 2.0 Consensus size: 23
1025042 ATATATATGT
* *
1025052 ATATATAATAAAATATTCAAATA
1 ATATATAAAAAAATATTAAAATA
1025075 ATATA-AAAAAAAT-TTAAAATA
1 ATATATAAAAAAATATTAAAATA
1025096 TTAGATGACC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 7 0.37
22 7 0.37
23 5 0.26
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (23 bp):
ATATATAAAAAAATATTAAAATA
Done.